[med-svn] [python-biopython] 01/03: New upstream version 1.70+dfsg
Steffen Möller
moeller at moszumanska.debian.org
Mon Jul 24 13:56:46 UTC 2017
This is an automated email from the git hooks/post-receive script.
moeller pushed a commit to branch master
in repository python-biopython.
commit e6d5572fcb420c540ab98ad65463df0211e43bed
Author: Steffen Moeller <moeller at debian.org>
Date: Mon Jul 24 15:02:14 2017 +0200
New upstream version 1.70+dfsg
---
.appveyor.yml | 48 +
.codecov.yml | 2 +-
.gitignore | 7 +
.travis-tox.ini | 75 +-
.travis.yml | 88 +-
Bio/.flake8 | 58 +
Bio/Affy/CelFile.py | 257 +-
Bio/Affy/__init__.py | 3 +-
Bio/Align/AlignInfo.py | 251 +-
Bio/Align/Applications/_ClustalOmega.py | 6 +-
Bio/Align/Applications/_Clustalw.py | 4 +-
Bio/Align/Applications/_Dialign.py | 4 +-
Bio/Align/Applications/_MSAProbs.py | 3 +-
Bio/Align/Applications/_Mafft.py | 9 +-
Bio/Align/Applications/_Muscle.py | 486 +-
Bio/Align/Applications/_Prank.py | 9 +-
Bio/Align/Applications/_Probcons.py | 4 +-
Bio/Align/Applications/_TCoffee.py | 1 +
Bio/Align/Applications/__init__.py | 4 +-
Bio/Align/Generic.py | 452 -
Bio/Align/__init__.py | 308 +-
Bio/AlignIO/ClustalIO.py | 8 +-
Bio/AlignIO/EmbossIO.py | 22 +-
Bio/AlignIO/FastaIO.py | 21 +-
Bio/AlignIO/Interfaces.py | 49 +-
Bio/AlignIO/MafIO.py | 718 +
Bio/AlignIO/MauveIO.py | 321 +
Bio/AlignIO/NexusIO.py | 94 +-
Bio/AlignIO/PhylipIO.py | 22 +-
Bio/AlignIO/StockholmIO.py | 107 +-
Bio/AlignIO/__init__.py | 90 +-
Bio/Alphabet/IUPAC.py | 41 +-
Bio/Alphabet/Reduced.py | 12 +
Bio/Alphabet/__init__.py | 26 +-
Bio/Application/__init__.py | 95 +-
Bio/Blast/Applications.py | 31 +
Bio/Blast/NCBIStandalone.py | 24 +-
Bio/Blast/NCBIXML.py | 156 +-
Bio/Blast/ParseBlastTable.py | 1 +
Bio/Blast/Record.py | 10 +
Bio/CAPS/__init__.py | 6 +-
Bio/Cluster/__init__.py | 523 +-
Bio/Compass/__init__.py | 1 +
Bio/Crystal/__init__.py | 8 +-
Bio/Data/CodonTable.py | 4 +-
Bio/Data/IUPACData.py | 3 +
Bio/DocSQL.py | 15 +-
Bio/Emboss/Applications.py | 23 +-
Bio/Emboss/Primer3.py | 5 +-
Bio/Emboss/PrimerSearch.py | 15 +-
Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd | 280 +
Bio/Entrez/Parser.py | 20 +-
Bio/Entrez/__init__.py | 53 +-
Bio/ExPASy/Enzyme.py | 32 +-
Bio/ExPASy/Prodoc.py | 24 +-
Bio/ExPASy/Prosite.py | 141 +-
Bio/ExPASy/ScanProsite.py | 2 +-
Bio/ExPASy/__init__.py | 111 +-
Bio/ExPASy/cellosaurus.py | 164 +
Bio/FSSP/FSSPTools.py | 6 +-
Bio/FSSP/__init__.py | 15 +-
Bio/FSSP/fssp_rec.py | 1 +
Bio/File.py | 119 +-
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Bio/GA/Crossover/TwoPoint.py | 15 +-
Bio/GA/Crossover/Uniform.py | 8 +-
Bio/GA/Evolver.py | 24 +-
Bio/GA/Mutation/General.py | 20 +-
Bio/GA/Mutation/Simple.py | 30 +-
Bio/GA/Organism.py | 95 +-
Bio/GA/Repair/Stabilizing.py | 19 +-
Bio/GA/Selection/Abstract.py | 22 +-
Bio/GA/Selection/Diversity.py | 15 +-
Bio/GA/Selection/RouletteWheel.py | 34 +-
Bio/GA/Selection/Tournament.py | 18 +-
Bio/GA/__init__.py | 16 +-
Bio/GenBank/Record.py | 245 +-
Bio/GenBank/Scanner.py | 330 +-
Bio/GenBank/__init__.py | 269 +-
Bio/GenBank/utils.py | 10 +-
Bio/Geo/Record.py | 1 +
Bio/Graphics/BasicChromosome.py | 126 +-
Bio/Graphics/ColorSpiral.py | 17 +-
Bio/Graphics/Comparative.py | 8 +-
Bio/Graphics/DisplayRepresentation.py | 31 +-
Bio/Graphics/Distribution.py | 13 +-
Bio/Graphics/GenomeDiagram/_AbstractDrawer.py | 191 +-
Bio/Graphics/GenomeDiagram/_CircularDrawer.py | 318 +-
Bio/Graphics/GenomeDiagram/_Colors.py | 155 +-
Bio/Graphics/GenomeDiagram/_CrossLink.py | 19 +-
Bio/Graphics/GenomeDiagram/_Diagram.py | 130 +-
Bio/Graphics/GenomeDiagram/_Feature.py | 197 +-
Bio/Graphics/GenomeDiagram/_FeatureSet.py | 16 +-
Bio/Graphics/GenomeDiagram/_Graph.py | 180 +-
Bio/Graphics/GenomeDiagram/_GraphSet.py | 157 +-
Bio/Graphics/GenomeDiagram/_LinearDrawer.py | 428 +-
Bio/Graphics/GenomeDiagram/_Track.py | 331 +-
Bio/Graphics/KGML_vis.py | 26 +-
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Bio/HMM/MarkovModel.py | 100 +-
Bio/HMM/Trainer.py | 139 +-
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Bio/KDTree/KDTree.py | 4 +
Bio/KEGG/Compound/__init__.py | 1 +
Bio/KEGG/Enzyme/__init__.py | 4 +-
Bio/KEGG/KGML/KGML_parser.py | 87 +-
Bio/KEGG/KGML/KGML_pathway.py | 116 +-
Bio/KEGG/KGML/__init__.py | 5 +-
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Bio/KEGG/REST.py | 2 +-
Bio/KEGG/__init__.py | 18 +-
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Bio/MarkovModel.py | 66 +-
Bio/MaxEntropy.py | 158 +-
Bio/Medline/__init__.py | 2 +
Bio/NMR/NOEtools.py | 2 +-
Bio/NMR/xpktools.py | 11 +-
Bio/NaiveBayes.py | 70 +-
Bio/NeuralNetwork/BackPropagation/Layer.py | 89 +-
Bio/NeuralNetwork/BackPropagation/Network.py | 43 +-
Bio/NeuralNetwork/Gene/Motif.py | 41 +-
Bio/NeuralNetwork/Gene/Pattern.py | 56 +-
Bio/NeuralNetwork/Gene/Schema.py | 200 +-
Bio/NeuralNetwork/Gene/Signature.py | 46 +-
Bio/NeuralNetwork/StopTraining.py | 18 +-
Bio/NeuralNetwork/Training.py | 48 +-
Bio/NeuralNetwork/__init__.py | 15 +-
Bio/Nexus/Nexus.py | 125 +-
Bio/Nexus/StandardData.py | 18 +-
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Bio/PDB/AbstractPropertyMap.py | 17 +-
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Bio/PDB/Chain.py | 30 +-
Bio/PDB/DSSP.py | 151 +-
Bio/PDB/Dice.py | 22 +-
Bio/PDB/Entity.py | 126 +-
Bio/PDB/FragmentMapper.py | 95 +-
Bio/PDB/HSExposure.py | 87 +-
Bio/PDB/MMCIF2Dict.py | 38 +-
Bio/PDB/MMCIFParser.py | 47 +-
Bio/PDB/Model.py | 14 +-
Bio/PDB/NeighborSearch.py | 8 +-
Bio/PDB/PDBIO.py | 33 +-
Bio/PDB/PDBList.py | 321 +-
Bio/PDB/PDBParser.py | 27 +-
Bio/PDB/PSEA.py | 4 +-
Bio/PDB/Polypeptide.py | 40 +-
Bio/PDB/QCPSuperimposer/__init__.py | 80 +-
Bio/PDB/Residue.py | 39 +-
Bio/PDB/ResidueDepth.py | 479 +-
Bio/PDB/Selection.py | 15 +-
Bio/PDB/Structure.py | 8 +-
Bio/PDB/StructureAlignment.py | 68 +-
Bio/PDB/StructureBuilder.py | 70 +-
Bio/PDB/Superimposer.py | 39 +-
Bio/PDB/Vector.py | 169 +-
Bio/PDB/mmtf/DefaultParser.py | 38 +-
Bio/PDB/mmtf/__init__.py | 7 +-
Bio/PDB/parse_pdb_header.py | 23 +-
Bio/ParserSupport.py | 55 +-
Bio/Pathway/__init__.py | 47 +-
Bio/Phylo/Applications/__init__.py | 4 +-
Bio/Phylo/BaseTree.py | 41 +-
Bio/Phylo/CDAO.py | 2 +
Bio/Phylo/CDAOIO.py | 29 +-
Bio/Phylo/Consensus.py | 26 +-
Bio/Phylo/NeXML.py | 2 +
Bio/Phylo/NeXMLIO.py | 11 +-
Bio/Phylo/Newick.py | 2 +
Bio/Phylo/NewickIO.py | 12 +-
Bio/Phylo/NexusIO.py | 2 +-
Bio/Phylo/PAML/_paml.py | 61 +-
Bio/Phylo/PAML/_parse_baseml.py | 18 +-
Bio/Phylo/PAML/_parse_codeml.py | 53 +-
Bio/Phylo/PAML/_parse_yn00.py | 29 +-
Bio/Phylo/PAML/baseml.py | 16 +-
Bio/Phylo/PAML/codeml.py | 19 +-
Bio/Phylo/PAML/yn00.py | 12 +-
Bio/Phylo/PhyloXML.py | 79 +-
Bio/Phylo/PhyloXMLIO.py | 20 +-
Bio/Phylo/TreeConstruction.py | 116 +-
Bio/Phylo/__init__.py | 3 +-
Bio/Phylo/_cdao_owl.py | 3 +-
Bio/Phylo/_io.py | 2 +-
Bio/Phylo/_utils.py | 17 +-
Bio/PopGen/Async/Local.py | 65 -
Bio/PopGen/Async/__init__.py | 122 -
Bio/PopGen/FDist/Async.py | 180 -
Bio/PopGen/FDist/Controller.py | 297 -
Bio/PopGen/FDist/Utils.py | 214 -
Bio/PopGen/FDist/__init__.py | 93 -
Bio/PopGen/GenePop/Controller.py | 104 +-
Bio/PopGen/GenePop/EasyController.py | 45 +-
Bio/PopGen/GenePop/FileParser.py | 81 +-
Bio/PopGen/GenePop/LargeFileParser.py | 12 +-
Bio/PopGen/GenePop/__init__.py | 37 +-
Bio/PopGen/SimCoal/Async.py | 31 -
Bio/PopGen/SimCoal/Cache.py | 86 -
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Bio/PopGen/SimCoal/Template.py | 228 -
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Bio/Restriction/PrintFormat.py | 38 +-
Bio/Restriction/Restriction.py | 1132 +-
Bio/Restriction/Restriction_Dictionary.py | 20115 ++++----
Bio/Restriction/__init__.py | 4 +-
Bio/SCOP/Cla.py | 10 +-
Bio/SCOP/Des.py | 6 +-
Bio/SCOP/Dom.py | 7 +-
Bio/SCOP/Hie.py | 5 +-
Bio/SCOP/Raf.py | 57 +-
Bio/SCOP/__init__.py | 160 +-
Bio/SVDSuperimposer/__init__.py | 110 +-
Bio/SearchIO/BlastIO/__init__.py | 16 +-
Bio/SearchIO/BlastIO/blast_tab.py | 14 +-
Bio/SearchIO/BlastIO/blast_text.py | 3 +-
Bio/SearchIO/BlastIO/blast_xml.py | 142 +-
Bio/SearchIO/BlatIO.py | 27 +-
Bio/SearchIO/ExonerateIO/_base.py | 128 +-
Bio/SearchIO/ExonerateIO/exonerate_cigar.py | 8 +-
Bio/SearchIO/ExonerateIO/exonerate_text.py | 21 +-
Bio/SearchIO/ExonerateIO/exonerate_vulgar.py | 4 +-
Bio/SearchIO/FastaIO.py | 17 +-
Bio/SearchIO/HmmerIO/_base.py | 6 +-
Bio/SearchIO/HmmerIO/hmmer2_text.py | 5 +-
Bio/SearchIO/HmmerIO/hmmer3_domtab.py | 29 +-
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Bio/SearchIO/HmmerIO/hmmer3_text.py | 15 +-
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Bio/SearchIO/_index.py | 10 +-
Bio/SearchIO/_model/__init__.py | 2 +-
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Bio/SearchIO/_model/hit.py | 1 -
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Bio/SeqFeature.py | 372 +-
Bio/SeqIO/AbiIO.py | 63 +-
Bio/SeqIO/FastaIO.py | 7 +-
Bio/SeqIO/IgIO.py | 1 +
Bio/SeqIO/InsdcIO.py | 183 +-
Bio/SeqIO/Interfaces.py | 63 +-
Bio/SeqIO/PirIO.py | 21 +-
Bio/SeqIO/QualityIO.py | 40 +-
Bio/SeqIO/SeqXmlIO.py | 29 +-
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Bio/SeqIO/SwissIO.py | 5 +
Bio/SeqIO/TabIO.py | 3 +-
Bio/SeqIO/UniprotIO.py | 76 +-
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Bio/SeqIO/_index.py | 172 +-
Bio/SeqRecord.py | 74 +-
Bio/SeqUtils/CheckSum.py | 1 +
Bio/SeqUtils/CodonUsage.py | 1 -
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Bio/SeqUtils/ProtParam.py | 3 +-
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Bio/SeqUtils/lcc.py | 3 +-
Bio/Sequencing/Ace.py | 22 +-
Bio/Sequencing/Applications/_Novoalign.py | 1 +
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Bio/Sequencing/Applications/_bwa.py | 9 +-
Bio/Sequencing/Applications/_samtools.py | 87 +-
Bio/Sequencing/Phd.py | 5 +-
Bio/Statistics/lowess.py | 14 +-
Bio/SubsMat/FreqTable.py | 4 +-
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Bio/SwissProt/KeyWList.py | 18 +-
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Bio/UniGene/__init__.py | 38 +-
Bio/UniProt/GOA.py | 232 +-
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Bio/Wise/dnal.py | 13 +-
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Bio/__init__.py | 16 +-
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Bio/_utils.py | 4 +-
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Bio/motifs/alignace.py | 5 +-
Bio/motifs/applications/_xxmotif.py | 2 +-
Bio/motifs/jaspar/__init__.py | 5 +-
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Bio/motifs/meme.py | 20 +-
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CONTRIB | 162 +-
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CONTRIBUTING.rst | 113 +
DEPRECATED | 692 +-
DEPRECATED => DEPRECATED.rst | 143 +-
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Tests/search_tests_common.py | 10 +-
Tests/seq_tests_common.py | 11 +-
Tests/test_Affy.py | 192 +
Tests/test_AlignIO.py | 71 +-
Tests/test_AlignIO_ClustalIO.py | 7 +-
Tests/test_AlignIO_EmbossIO.py | 6 +-
Tests/test_AlignIO_MauveIO.py | 111 +
Tests/test_AlignIO_convert.py | 1 +
Tests/test_AlignInfo.py | 36 +-
Tests/test_BWA_tool.py | 4 +-
Tests/test_BioSQL_MySQLdb.py | 6 +-
Tests/test_BioSQL_MySQLdb_online.py | 6 +-
Tests/test_BioSQL_mysql_connector.py | 6 +-
Tests/test_BioSQL_mysql_connector_online.py | 6 +-
Tests/test_BioSQL_psycopg2.py | 6 +-
Tests/test_BioSQL_psycopg2_online.py | 6 +-
Tests/test_BioSQL_sqlite3.py | 9 +-
Tests/test_BioSQL_sqlite3_online.py | 5 +-
Tests/test_CelFile.py | 6 +-
Tests/test_Chi2.py | 1 +
Tests/test_ClustalOmega_tool.py | 4 +-
Tests/test_Clustalw_tool.py | 2 +-
Tests/test_Cluster.py | 15 +-
Tests/test_ColorSpiral.py | 4 +-
Tests/test_Compass.py | 1 +
Tests/test_Consensus.py | 9 +-
Tests/test_Crystal.py | 12 +-
Tests/test_DSSP_tool.py | 39 +-
Tests/test_DocSQL.py | 6 +-
Tests/test_Emboss.py | 4 +-
Tests/test_EmbossPhylipNew.py | 1 +
Tests/test_EmbossPrimer.py | 10 +-
Tests/test_Entrez.py | 30 +-
Tests/test_Entrez_online.py | 83 +-
Tests/test_Entrez_parser.py | 19 +-
Tests/test_Enzyme.py | 29 +
Tests/test_ExPASy.py | 58 +
Tests/test_GACrossover.py | 19 +-
Tests/test_GAMutation.py | 13 +-
Tests/test_GAOrganism.py | 11 +-
Tests/test_GAQueens.py | 79 +-
Tests/test_GARepair.py | 11 +-
Tests/test_GASelection.py | 12 +-
Tests/test_GenBank.py | 82 +-
Tests/test_GenBank_unittest.py | 156 +-
Tests/test_GenomeDiagram.py | 20 +-
Tests/test_GraphicsBitmaps.py | 9 +-
Tests/test_GraphicsChromosome.py | 4 +-
Tests/test_GraphicsDistribution.py | 5 +-
Tests/test_GraphicsGeneral.py | 60 +-
Tests/test_HMMCasino.py | 6 +-
Tests/test_HMMGeneral.py | 6 +-
Tests/test_KDTree.py | 2 +
Tests/test_KEGG.py | 170 +-
Tests/test_KEGG_online.py | 11 +-
Tests/test_KGML_graphics.py | 2 -
Tests/test_KGML_graphics_online.py | 2 -
Tests/test_KGML_nographics.py | 18 +-
Tests/test_KeyWList.py | 1 +
Tests/test_LogisticRegression.py | 1 +
Tests/test_MafIO_index.py | 426 +
Tests/test_Mafft_tool.py | 35 +-
Tests/test_MarkovModel.py | 265 +-
Tests/test_Muscle_tool.py | 9 +-
Tests/test_NCBITextParser.py | 2 +-
Tests/test_NCBI_BLAST_tools.py | 6 +-
Tests/test_NCBI_qblast.py | 14 +-
Tests/test_NNExclusiveOr.py | 13 +-
Tests/test_NNGene.py | 23 +-
Tests/test_NNGeneral.py | 11 +-
Tests/test_NaiveBayes.py | 10 +
Tests/test_Nexus.py | 161 +-
Tests/test_PAML_baseml.py | 43 +-
Tests/test_PAML_codeml.py | 149 +-
Tests/test_PAML_tools.py | 16 +-
Tests/test_PAML_yn00.py | 29 +-
Tests/test_PDB.py | 315 +-
Tests/test_PDBList.py | 117 +
Tests/test_PDB_FragmentMapper.py | 40 +
Tests/test_PDB_MMCIF2Dict.py | 38 +
Tests/{test_MMCIF.py => test_PDB_MMCIFParser.py} | 82 +
Tests/test_PDB_Polypetide.py | 69 +
Tests/test_PDB_StructureAlignment.py | 49 +
Tests/test_PDB_Superimposer.py | 113 +
Tests/test_ParserSupport.py | 4 +
Tests/test_Phd.py | 1 +
Tests/test_Phylo.py | 2 +
Tests/test_PhyloXML.py | 1 +
Tests/test_Phylo_CDAO.py | 4 +-
Tests/test_Phylo_NeXML.py | 2 +
Tests/test_Phylo_matplotlib.py | 14 +-
Tests/test_PopGen_DFDist.py | 133 -
Tests/test_PopGen_FDist.py | 128 -
Tests/test_PopGen_FDist_nodepend.py | 108 -
Tests/test_PopGen_FastSimCoal.py | 63 -
Tests/test_PopGen_GenePop.py | 1 +
Tests/test_PopGen_GenePop_EasyController.py | 7 +
Tests/test_PopGen_GenePop_nodepend.py | 82 +-
Tests/test_PopGen_SimCoal.py | 65 -
Tests/test_PopGen_SimCoal_nodepend.py | 52 -
Tests/test_Prank_tool.py | 26 +-
Tests/test_QCPSuperimposer.py | 227 +-
Tests/test_RCSBFormats.py | 1 +
Tests/test_Restriction.py | 486 +-
Tests/test_SCOP_Astral.py | 6 +-
Tests/test_SCOP_Cla.py | 2 +-
Tests/test_SCOP_Residues.py | 2 +-
Tests/test_SCOP_online.py | 1 +
Tests/test_SVDSuperimposer.py | 142 +-
Tests/test_SearchIO_blast_text.py | 2 +-
Tests/test_SearchIO_blast_xml.py | 40 +-
Tests/test_SearchIO_blast_xml_index.py | 1 -
Tests/test_SearchIO_blat_psl.py | 107 +
Tests/test_SearchIO_exonerate.py | 70 +
Tests/test_SearchIO_hmmer2_text_index.py | 12 +-
Tests/test_SearchIO_hmmer3_domtab.py | 1 +
Tests/test_SearchIO_hmmer3_text.py | 31 +
Tests/test_SearchIO_hmmer3_text_index.py | 6 +-
Tests/test_SearchIO_model.py | 60 +-
Tests/test_SearchIO_write.py | 12 +
Tests/test_SeqFeature.py | 84 +-
Tests/test_SeqIO.py | 6 +-
Tests/test_SeqIO_AbiIO.py | 43 +-
Tests/test_SeqIO_FastaIO.py | 3 +-
Tests/test_SeqIO_Insdc.py | 12 +-
Tests/test_SeqIO_PdbIO.py | 5 +-
Tests/test_SeqIO_QualityIO.py | 14 +-
Tests/test_SeqIO_SeqXML.py | 4 +-
Tests/test_SeqIO_convert.py | 6 +-
Tests/test_SeqIO_features.py | 56 +-
Tests/test_SeqIO_index.py | 52 +-
Tests/test_SeqIO_online.py | 14 +-
Tests/test_SeqIO_write.py | 25 +-
Tests/test_SeqRecord.py | 15 +-
Tests/test_SeqUtils.py | 6 +-
Tests/test_Seq_objs.py | 164 +-
Tests/test_SffIO.py | 194 +-
Tests/test_SubsMat.py | 12 +-
Tests/test_SwissProt.py | 77 +-
Tests/test_TCoffee_tool.py | 12 +-
Tests/test_TogoWS.py | 85 +-
Tests/test_TreeConstruction.py | 72 +-
Tests/test_Tutorial.py | 62 +-
Tests/test_Uniprot.py | 57 +-
Tests/test_XXmotif_tool.py | 10 +-
Tests/test_align.py | 13 +-
Tests/test_bgzf.py | 16 +-
Tests/test_cellosaurus.py | 135 +
Tests/test_codonalign.py | 35 +-
Tests/test_kNN.py | 2 +
Tests/test_lowess.py | 1 +
Tests/test_mmtf.py | 11 +-
Tests/test_mmtf_online.py | 32 +
Tests/test_motifs.py | 152 +-
Tests/test_pairwise2.py | 62 +-
Tests/test_phenotype.py | 1 +
Tests/test_phenotype_fit.py | 5 +-
Tests/test_phyml_tool.py | 16 +-
Tests/test_psw.py | 1 +
Tests/test_py3k.py | 24 -
Tests/test_raxml_tool.py | 3 +-
Tests/test_samtools_tool.py | 31 +-
Tests/test_seq.py | 463 +-
Tests/test_trie.py | 40 +-
setup.py | 304 +-
647 files changed, 120244 insertions(+), 86711 deletions(-)
diff --git a/.appveyor.yml b/.appveyor.yml
new file mode 100644
index 0000000..36c841f
--- /dev/null
+++ b/.appveyor.yml
@@ -0,0 +1,48 @@
+skip_tags: true
+clone_depth: 1
+
+os: Visual Studio 2015
+
+environment:
+ matrix:
+ - PY_MAJOR_VER: 2
+ PYTHON_ARCH: "x86"
+ - PY_MAJOR_VER: 3
+ PYTHON_ARCH: "x86_64"
+ - PY_MAJOR_VER: 3
+ PYTHON_ARCH: "x86"
+
+matrix:
+ fast_finish: true
+
+# Enable MySQL and PostgreSQL for BioSQL tests
+services:
+ - mysql
+ - postgresql
+
+build_script:
+# If there's a newer build queued for the same PR, cancel this one
+ - ps: if ($env:APPVEYOR_PULL_REQUEST_NUMBER -and $env:APPVEYOR_BUILD_NUMBER -ne ((Invoke-RestMethod `
+ https://ci.appveyor.com/api/projects/$env:APPVEYOR_ACCOUNT_NAME/$env:APPVEYOR_PROJECT_SLUG/history?recordsNumber=50).builds | `
+ Where-Object pullRequestId -eq $env:APPVEYOR_PULL_REQUEST_NUMBER)[0].buildNumber) { `
+ throw "There are newer queued builds for this pull request, failing early." }
+ - ps: Start-FileDownload "https://repo.continuum.io/miniconda/Miniconda$env:PY_MAJOR_VER-latest-Windows-$env:PYTHON_ARCH.exe" C:\Miniconda.exe; echo "Finished downloading miniconda"
+ - cmd: C:\Miniconda.exe /S /D=C:\Py
+ - SET PATH=C:\Py;C:\Py\Scripts;C:\Py\Library\bin;%PATH%
+ - conda config --set always_yes yes
+ - conda update conda
+ - conda install setuptools numpy mysql-connector-python psycopg2 matplotlib networkx reportlab scipy coverage
+ - if "PY_MAJOR_VER"=="2" conda install unittest2
+ - pip install . -vvv
+
+test_script:
+ - python -c "import sys; print(sys.version)"
+ - cd Tests
+ - cp biosql.ini.appveyor biosql.ini
+ - coverage run run_tests.py --offline
+ - coverage xml
+ - cd ..
+
+after_test:
+ - conda install -c conda-forge codecov
+ - codecov --file Tests/coverage.xml -X pycov -X gcov
diff --git a/.codecov.yml b/.codecov.yml
index 527e44b..b645bdc 100644
--- a/.codecov.yml
+++ b/.codecov.yml
@@ -1,6 +1,6 @@
# See https://github.com/codecov/support/wiki/Codecov-Yaml
# and https://codecov.io/gh/biopython/biopython which is
-# updated via our TravisCI configuration
+# updated via our TravisCI and AppVeyor testing.
coverage:
ignore:
diff --git a/.gitignore b/.gitignore
index 1dd13b8..1068761 100644
--- a/.gitignore
+++ b/.gitignore
@@ -30,6 +30,9 @@ dist
#Ignore all Jython class files (present if using Jython)
*.class
+#Ignore the .tox directory from running tox locally
+.tox/
+
#Ignore the MANIFEST file created automatically from MANIFEST.in
MANIFEST
@@ -50,6 +53,10 @@ Tests/biosql.ini
Tests/BioSQL/temp_sqlite.db
Tests/BioSQL/temp_sqlite.db-journal
+#TODO - The Tutorial doctests should leave example files after
+#running Tests/test_Tutorial.py
+Doc/examples/other_trees.nwk
+
#Ignore LaTeX temp files, and compiled output
Doc/*.aux
Doc/*.log
diff --git a/.travis-tox.ini b/.travis-tox.ini
index 2c9025f..90f4ba4 100644
--- a/.travis-tox.ini
+++ b/.travis-tox.ini
@@ -19,10 +19,10 @@
# $ pip install tox coverage
# $ tox -c .travis-tox.ini -e py35-cover
#
-# Or to run the pep8 Python coding style checks:
+# Or to run the pep8/flake8 etc Python coding style checks:
#
-# $ pip install tox pep8
-# $ tox -c .travis-tox.ini -e pep8
+# $ pip install tox flake8 pydocstyle restructuredtext_lint
+# $ tox -c .travis-tox.ini -e style
#
# See the envlist setting for other valid arguments.
@@ -30,11 +30,11 @@
minversion = 2.0
skipsdist = True
envlist =
- pep8
+ style
sdist
bdist_wheel
- {py26,py27,py33,py34,py35,pypy,pypy3}-cover
- {py26,py27,py33,py34,py35,pypy,pypy3}-nocov
+ {py27,py34,py35,py36,pypy,pypy3}-cover
+ {py27,py34,py35,py36,pypy,pypy3}-nocov
[testenv]
# TODO: Try tox default sdist based install instead:
@@ -50,28 +50,29 @@ whitelist_externals =
bash
echo
# Want to avoid overhead of compiling numpy or scipy:
-install_command = pip install --only-binary=numpy,scipy {opts} {packages}
+# (But must compile numpy for PyPy right now)
+install_command = pip install --only-binary=scipy {opts} {packages}
deps =
#Lines startings xxx: are filtered by the environment.
#Leaving py34 without any soft dependencies (just numpy)
cover: coverage
cover: codecov
- py26: unittest2
- {py26,py27}: mysql-python
- {py26,py27,py33,py35}: mmtf-python
- {py26,py27,py33,py35}: reportlab
- {py26,py27,py33,py35}: psycopg2
- {py26,py27,py33,py35,pypy}: mysql-connector-python-rf
- {py26,py27,py33,py35,pypy}: rdflib
- {py26,py27,py33,py34,py35}: numpy
- {py26,py35}: scipy
- py27: networkx
- py35: matplotlib
+ {py27}: unittest2
+ {py27}: mysql-python
+ {py27,py36}: mmtf-python
+ {py27,py35}: reportlab
+ {py27,py35}: psycopg2
+ {py27,py35,pypy}: mysql-connector-python-rf
+ {py27,py35,pypy}: rdflib
+ {pypy,pypy3}: numpy==1.12.1
+ {py27,py34,py35,py36}: numpy
+ {py36}: scipy
+ {py27}: networkx
+ {py36}: matplotlib
commands =
- #The bash call is a work around for the pipe character
- #The yes is in case we get our prompt about missing NumPy
+ #The bash call is a work around for special characters
#The /dev/null is to hide the verbose output but leave warnings
- bash -c \'/usr/bin/yes | python setup.py install > /dev/null\'
+ bash -c \'python setup.py install > /dev/null\'
#The bash call is a work around for the cd command
nocov: bash -c \'cd Tests && python run_tests.py --offline\'
#See https://codecov.io/ and https://github.com/codecov/example-python
@@ -79,26 +80,40 @@ commands =
cover: bash -c \'cd Tests && coverage run run_tests.py --offline && coverage xml\'
cover: codecov --file Tests/coverage.xml -X pycov -X gcov
-[testenv:pep8]
+[testenv:style]
# This does not need to install Biopython or any of its dependencies
skip_install = True
whitelist_externals =
- pep8
+ flake8
+ rst-lint
+ bash
deps =
- pep8
+ flake8
+ flake8-docstrings
+ flake8-blind-except
+ restructuredtext_lint
commands =
- pep8 --max-line-length 92 BioSQL/
- pep8 --ignore E402 --max-line-length 90 Scripts/
- pep8 --max-line-length 90 Doc/examples/
- pep8 --ignore E122,E123,E126,E127,E128,E129,E501,E731 Bio/
- pep8 --ignore E122,E123,E126,E127,E128,E241,E402,E501,E731 Tests/
+ # These folders each have their own .flake8 file:
+ flake8 BioSQL/
+ flake8 Scripts/
+ flake8 Doc/examples/
+ flake8 Bio/
+ flake8 Tests/
+ # Now do various checks on our RST files:
+ # Calling via bash to get it to expand the wildcard for us
+ bash -c \'rst-lint --level warning *.rst\'
+ # Check sort order (bash call work around for pipe character)
+ bash -c \'grep "^- " CONTRIB.rst | LC_ALL=C sort -u -c -f\'
+ # Check copyright date
+ bash -c \'grep "1999-`date +'%Y'`" LICENSE.rst\'
+ # Check no __docformat__ lines
+ bash -c "if grep --include '*.py' -rn '^__docformat__ ' Bio BioSQL Tests Scripts Doc ; then echo 'Remove __docformat__ line(s), we assume restructuredtext.'; false; fi"
[testenv:sdist]
# This does not need to install Biopython or any of its dependencies
skip_install = True
deps =
commands =
- python setup.py sdist --manifest-only
python setup.py sdist --formats=gztar,zip
[testenv:bdist_wheel]
diff --git a/.travis.yml b/.travis.yml
index 4a35900..aac4b69 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -9,26 +9,49 @@
# Environment variables setup here:
# - TOXENV = environment used in Tox (conventionally uses py35 etc)
#
+# TravisCI build stages used here:
+# - basics - quick things like style and packaging
+# - test - the actual functional tests which are slow
language: python
+cache: pip
matrix:
include:
- - env: TOXENV=pep8
- - env: TOXENV=sdist
- - env: TOXENV=bdist_wheel
- - python: 2.6
- env: TOXENV=py26-cover
- - python: 2.7
+ - stage: basics
+ env: TOXENV=style
+ addons:
+ apt:
+ packages:
+ before_install: echo "Going to run basic checks"
+ - stage: basics
+ env: TOXENV=sdist
+ addons:
+ apt:
+ packages:
+ before_install: echo "Going to run basic checks"
+ - stage: basics
+ env: TOXENV=bdist_wheel
+ addons:
+ apt:
+ packages:
+ before_install: echo "Going to run basic checks"
+ - stage: test
+ python: 2.7
env: TOXENV=py27-cover
- - python: 3.3
- env: TOXENV=py33-cover
- - python: 3.4
+ - stage: test
+ python: 3.4
env: TOXENV=py34-cover
- - python: 3.5
+ - stage: test
+ python: 3.5
env: TOXENV=py35-cover
- - python: pypy
+ - stage: test
+ python: 3.6
+ env: TOXENV=py36-cover
+ - stage: test
+ python: pypy
env: TOXENV=pypy-nocov
- - python: pypy3
+ - stage: test
+ python: pypy3
env: TOXENV=pypy3-nocov
sudo: false
@@ -41,12 +64,51 @@ addons:
- emboss
- mafft
- muscle
+ - paml
+ - phyml
- probcons
- samtools
- wise
-install:
+# We setup $HOME/bin and add it to the $PATH for extra binaries we're using.
+#
+# There is a phyml Ubuntu package, but currently too old.
+#
+# There is no GenePop Ubuntu pacakge, although it is in BioConda.
+#
+# There are TravisCI provided versions of PyPy and PyPy3, but currently too old.
+# We therefore deactivate that, and download and unzip portable PyPy binaries.
+#
+# We also need DSSP for testing but it is not available in the repositories.
+# Try to download the binary for Linux and place it in $HOME/bin
+#
+# This before_install list is only used for the test stage.
+before_install:
+ - cd $HOME
+ - mkdir bin
+ - export PATH=$HOME/bin:$PATH
+ - echo "Installing PhyML"
+ - curl -L -O http://www.atgc-montpellier.fr/download/binaries/phyml/PhyML-3.1.zip
+ - unzip PhyML-3.1.zip
+ - mv PhyML-3.1/PhyML-3.1_linux64 bin/phyml
+ - cd $HOME
+ - "if [[ $TRAVIS_PYTHON_VERSION == 'pypy' ]]; then deactivate && wget https://bitbucket.org/squeaky/portable-pypy/downloads/pypy-5.7.1-linux_x86_64-portable.tar.bz2 && tar -jxvf pypy-5.7.1-linux_x86_64-portable.tar.bz2 && echo 'Setting up aliases...' && cd pypy-5.7.1-linux_x86_64-portable/bin/ && export PATH=$PWD:$PATH && ln -s pypy python && echo 'Setting up pip...' && ./pypy -m ensurepip ; fi"
+ - "if [[ $TRAVIS_PYTHON_VERSION == 'pypy3' ]]; then deactivate && wget https://bitbucket.org/squeaky/portable-pypy/downloads/pypy3.5-5.8-beta-linux_x86_64-portable.tar.bz2 && tar -jxvf pypy3.5-5.8-beta-linux_x86_64-portable.tar.bz2 && echo 'Setting up aliases...' && cd pypy3.5-5.8-beta-linux_x86_64-portable/bin/ && export PATH=$PWD:$PATH && ln -s pypy3 python && echo 'Setting up pip...' && ./pypy3 -m ensurepip && ln -s pip3 pip ; fi"
+ - cd $HOME
+ - echo "Installing dssp"
+ - curl -L -O ftp://ftp.cmbi.ru.nl/pub/software/dssp/dssp-2.0.4-linux-amd64
+ - mv dssp-2.0.4-linux-amd64 bin/dssp
+ - chmod a+x bin/dssp
+ - echo "Installing Genepop"
+ - curl -L -O https://anaconda.org/bioconda/genepop/4.5.1/download/linux-64/genepop-4.5.1-0.tar.bz2
+ # This will create ./bin/Genepop and a harmless ./info/ folder.
+ - tar -jxvf genepop-4.5.1-0.tar.bz2
+ - cd $TRAVIS_BUILD_DIR
- "cp Tests/biosql.ini.sample Tests/biosql.ini"
+
+
+# This is minimal and used under all stages
+install:
- "pip install --upgrade pip setuptools"
- "pip install tox"
- "tox -c .travis-tox.ini -e $TOXENV --notest"
diff --git a/Bio/.flake8 b/Bio/.flake8
new file mode 100644
index 0000000..7ca77e6
--- /dev/null
+++ b/Bio/.flake8
@@ -0,0 +1,58 @@
+[flake8]
+# Would like to enable this in future...
+# doctests = True
+ignore =
+ # =======================
+ # flake: E###, F###, W###
+ # =======================
+ # pycodestyle v2.3.1 default ignore is E121,E123,E126,E226,E24,E704,W503
+ # flake8 v3.3.0 default ignore is E121,E123,E126,E226,E24,E704,W503,W504
+ E122,E123,E126,E127,E128,E501,E731,F401,F812,F841,
+ # =====================================
+ # pydocstyle: D1## - Missing Docstrings
+ # =====================================
+ # D100 Missing docstring in public module
+ # D101 Missing docstring in public class
+ # D102 Missing docstring in public method
+ # D103 Missing docstring in public function
+ # D104 Missing docstring in public package
+ # D105 Missing docstring in magic method
+ # TODO: Fix some of these?
+ D100,D101,D102,D103,D104,D105,
+ # ====================================
+ # pydocstyle: D2## - Whitespace Issues
+ # ====================================
+ # D200 One-line docstring should fit on one line with quotes
+ # D202 No blank lines allowed after function docstring
+ # D203 1 blank line required before class docstring
+ # D204 1 blank line required after class docstring
+ # D205 1 blank line required between summary line and description
+ # D207 Docstring is under-indented
+ # D208 Docstring is over-indented
+ # D210 No whitespaces allowed surrounding docstring text
+ # TODO: Fix these:
+ D205,
+ # We ignore D203 deliberately in favour of passing D211,
+ D203,
+ # ================================
+ # pydocstyle: D3## - Quotes Issues
+ # ================================
+ # D300 Use """triple double quotes"""
+ # D301 Use r""" if any backslashes in a docstring
+ # TODO: Fix this?:
+ D301,
+ # ===========================================
+ # pydocstyle: D4## - Docstring Content Issues
+ # ===========================================
+ # D400 First line should end with a period
+ # D401 First line should be in imperative mood
+ # D402 First line should not be the function’s "signature"
+ # D403 First word of the first line should be properly capitalized
+ # D412 No blank lines allowed between a section header and its content
+ D400,D401,D402,D403,
+ # ================================================
+ # flake8-commas: C#### (in case installed locally)
+ # ================================================
+ # C812 missing trailing comma
+ # C815 missing trailing comma in Python 3.5+
+ C812,C815
diff --git a/Bio/Affy/CelFile.py b/Bio/Affy/CelFile.py
index db82f4e..c384860 100644
--- a/Bio/Affy/CelFile.py
+++ b/Bio/Affy/CelFile.py
@@ -1,21 +1,15 @@
-# Copyright 2004 by Harry Zuzan. All rights reserved.
+# Copyright 2004 by Harry Zuzan. All rights reserved.
+# Copyright 2016 by Adam Kurkiewicz. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-Classes for accessing the information in Affymetrix cel files.
+"""Reading information from Affymetrix CEL files version 3 and 4."""
-Functions:
-read Read a cel file and store its contents in a Record
-
-Classes:
-Record Contains the information from a cel file
-"""
-
-# We use print in the doctests
from __future__ import print_function
+import struct
+
try:
import numpy
except ImportError:
@@ -24,13 +18,27 @@ except ImportError:
"Install NumPy if you want to use Bio.Affy.CelFile")
+class ParserError(ValueError):
+ def __init__(self, *args):
+ super(ParserError, self).__init__(*args)
+
+
+_modeError = ParserError("You're trying to open an Affymetrix v4"
+ " CEL file. You have to use a read binary mode,"
+ " like this `open(filename \"rb\")`.")
+
+# for debugging
+# import pprint
+# pp = pprint.PrettyPrinter(indent=4)
+
+
class Record(object):
"""Stores the information in a cel file
Example usage:
>>> from Bio.Affy import CelFile
- >>> with open('Affy/affy_v3_example.CEL') as handle:
+ >>> with open("Affy/affy_v3_example.CEL", "r") as handle:
... c = CelFile.read(handle)
...
>>> print(c.ncols, c.nrows)
@@ -55,6 +63,7 @@ class Record(object):
[25 25 25 25 25]]
"""
+
def __init__(self):
self.version = None
self.GridCornerUL = None
@@ -78,8 +87,207 @@ class Record(object):
def read(handle):
+ """Reads Affymetrix CEL file and returns Record object.
+
+ CEL files version 3 and 4 are supported, and the parser attempts version detection.
+
+ Example Usage:
+
+ >>> from Bio.Affy import CelFile
+ >>> with open("Affy/affy_v4_example.CEL", "rb") as handle:
+ ... c = CelFile.read(handle)
+ ...
+ >>> c.version == 4
+ True
"""
- Read the information in a cel file, and store it in a Record.
+ # If we fail to read the magic number, then it will remain None, and thus
+ # we will invoke read_v3 (if mode is not strict), or raise IOError if mode
+ # is strict.
+ magicNumber = None
+ # We check if the handle is a file-like object. If it isn't, and the mode
+ # is strict, we raise an error. If it isn't and the mode isn't strict, we
+ # continue (perhaps somebody has got a CEL-file-like iterable, which used
+ # to work with previous versions of biopython and we don't want to maintain
+ # backwards compatibility).
+ try:
+ mode = handle.mode
+ # By definition an Affymetrix v4 CEL file has 64 as the first 4 bytes.
+ # Note that we use little-endian irrespective of the platform, again by
+ # definition.
+ position = handle.tell()
+ magicNumber = struct.unpack("<i", handle.read(4))[0]
+ except (AttributeError, TypeError):
+ pass
+ except UnicodeDecodeError:
+ raise _modeError
+ finally:
+ try:
+ # reset the offset, to avoid breaking either v3 or v4.
+ handle.seek(position)
+ except AttributeError:
+ pass
+ if magicNumber != 64:
+ return read_v3(handle)
+
+ else:
+ return read_v4(handle)
+
+
+# read Affymetrix files version 4.
+def read_v4(f):
+ """Reads Affymetrix CEL file, version 4, and returns a corresponding Record
+ object.
+
+ Most importantly record.intensities correspond to intensities from the CEL
+ file.
+
+ record.mask and record.outliers are not set.
+
+ Example Usage:
+
+ >>> from Bio.Affy import CelFile
+ >>> with open("Affy/affy_v4_example.CEL", "rb") as handle:
+ ... c = CelFile.read_v4(handle)
+ ...
+ >>> c.version == 4
+ True
+ >>> print(c.intensities.shape)
+ (5, 5)
+ """
+ # We follow the documentation here:
+ # http://www.affymetrix.com/estore/support/developer/powertools/changelog/gcos-agcc/cel.html.affx
+ record = Record()
+ preHeaders = ["magic", "version", "columns", "rows", "cellNo", "headerLen"]
+ preHeadersMap = dict()
+ headersMap = dict()
+
+ # load pre-headers
+ try:
+ for name in preHeaders:
+ preHeadersMap[name] = struct.unpack("<i", f.read(4))[0]
+ except UnicodeDecodeError as e:
+ raise _modeError
+
+ char = f.read(preHeadersMap["headerLen"])
+ header = char.decode("ascii", "ignore")
+ for header in header.split("\n"):
+ if "=" in header:
+ header = header.split("=")
+ headersMap[header[0]] = "=".join(header[1:])
+
+ # for debugging
+ # pp.pprint("preHeadersMap")
+ # pp.pprint(preHeadersMap)
+ # pp.pprint("headersMap")
+ # pp.pprint(headersMap)
+
+ record.version = preHeadersMap["version"]
+ if record.version != 4:
+ raise ParserError("You are trying to parse CEL file version 4. This"
+ " file violates the structure expected from CEL file"
+ " version 4")
+ record.GridCornerUL = headersMap["GridCornerUL"]
+ record.GridCornerUR = headersMap["GridCornerUR"]
+ record.GridCornerLR = headersMap["GridCornerLR"]
+ record.GridCornerLL = headersMap["GridCornerLL"]
+ record.DatHeader = headersMap["DatHeader"]
+ record.Algorithm = headersMap["Algorithm"]
+ record.AlgorithmParameters = headersMap["AlgorithmParameters"]
+ record.NumberCells = preHeadersMap["cellNo"]
+ # record.intensities are set below
+ # record.stdevs are set below
+ # record.npix are set below
+ record.nrows = int(headersMap["Rows"])
+ record.ncols = int(headersMap["Cols"])
+
+ # These cannot be reliably set in v4, because of discrepancies between real
+ # data and the documented format.
+ record.nmask = None
+ record.mask = None
+ record.noutliers = None
+ record.outliers = None
+ record.modified = None
+
+ # Real data never seems to have anything but zeros here, but we don't want
+ # to take chances. Raising an error is better than returning unreliable
+ # data.
+ def raiseBadHeader(field, expected):
+ actual = int(headersMap[field])
+ message = "The header {field} is expected to be 0, not {value}".format(value=actual, field=field)
+ if actual != expected:
+ raise ParserError(message)
+
+ raiseBadHeader("Axis-invertX", 0)
+
+ raiseBadHeader("AxisInvertY", 0)
+
+ raiseBadHeader("OffsetX", 0)
+
+ raiseBadHeader("OffsetY", 0)
+
+ # This is unfortunately undocumented, but it turns out that real data has
+ # the `record.AlgorithmParameters` repeated in the data section, until an
+ # EOF, i.e. b"\x04".
+ char = b"\x00"
+ safetyValve = 10**4
+ for i in range(safetyValve):
+ char = f.read(1)
+ # For debugging
+ # print([i for i in char], end="")
+ if char == b"\x04":
+ break
+ if i == safetyValve:
+ raise ParserError("Parse Error. The parser expects a short, "
+ "undocumented binary blob terminating with "
+ "ASCII EOF, x04")
+
+ # After that there are precisely 15 bytes padded. Again, undocumented.
+ padding = f.read(15)
+
+ # That's how we pull out the values (triplets of the form float, float,
+ # signed short).
+ structa = struct.Struct("< f f h")
+
+ # There are 10 bytes in our struct.
+ structSize = 10
+
+ # We initialize the most important: intensities, stdevs and npixs.
+ record.intensities = numpy.empty(record.NumberCells, dtype=float)
+ record.stdevs = numpy.empty(record.NumberCells, dtype=float)
+ record.npix = numpy.empty(record.NumberCells, dtype=int)
+
+ b = f.read(structSize * record.NumberCells)
+ for i in range(record.NumberCells):
+ binaryFragment = b[i * structSize: (i + 1) * structSize]
+ intensity, stdevs, npix = structa.unpack(binaryFragment)
+ record.intensities[i] = intensity
+ record.stdevs[i] = stdevs
+ record.npix[i] = npix
+
+ # reshape without copying.
+ def reshape(array):
+ view = array.view()
+ view.shape = (record.nrows, record.ncols)
+ return view
+
+ record.intensities = reshape(record.intensities)
+ record.stdevs = reshape(record.stdevs)
+ record.npix = reshape(record.npix)
+
+ return record
+
+
+def read_v3(handle):
+ """Reads Affymetrix CEL file, version 3, and returns a corresponding Record object.
+
+ Example Usage:
+
+ >>> from Bio.Affy import CelFile
+ >>> with open("Affy/affy_v3_example.CEL", "r") as handle:
+ ... c = CelFile.read_v3(handle)
+ ...
+ >>> c.version == 3
+ True
"""
# Needs error handling.
# Needs to know the chip design.
@@ -112,7 +320,7 @@ def read(handle):
section = ""
elif section == "CEL":
keyword, value = line.split("=", 1)
- if keyword == 'Version':
+ if keyword == "Version":
record.version = int(value)
elif section == "HEADER":
# Set record.ncols and record.nrows, remaining data goes into
@@ -122,24 +330,24 @@ def read(handle):
record.ncols = int(value)
elif keyword == "Rows":
record.nrows = int(value)
- elif keyword == 'GridCornerUL':
+ elif keyword == "GridCornerUL":
x, y = value.split()
record.GridCornerUL = (int(x), int(y))
- elif keyword == 'GridCornerUR':
+ elif keyword == "GridCornerUR":
x, y = value.split()
record.GridCornerUR = (int(x), int(y))
- elif keyword == 'GridCornerLR':
+ elif keyword == "GridCornerLR":
x, y = value.split()
record.GridCornerLR = (int(x), int(y))
- elif keyword == 'GridCornerLL':
+ elif keyword == "GridCornerLL":
x, y = value.split()
record.GridCornerLL = (int(x), int(y))
- elif keyword == 'DatHeader':
- record.DatHeader = value.strip('\n\r')
- elif keyword == 'Algorithm':
- record.Algorithm = value.strip('\n\r')
- elif keyword == 'AlgorithmParameters':
- record.AlgorithmParameters = value.strip('\n\r')
+ elif keyword == "DatHeader":
+ record.DatHeader = value.strip("\n\r")
+ elif keyword == "Algorithm":
+ record.Algorithm = value.strip("\n\r")
+ elif keyword == "AlgorithmParameters":
+ record.AlgorithmParameters = value.strip("\n\r")
elif section == "INTENSITY":
if "NumberCells" in line:
record.NumberCells = int(line.split("=", 1)[1])
@@ -186,6 +394,7 @@ def read(handle):
continue
return record
+
if __name__ == "__main__":
from Bio._utils import run_doctest
run_doctest()
diff --git a/Bio/Affy/__init__.py b/Bio/Affy/__init__.py
index 925dd85..1514028 100644
--- a/Bio/Affy/__init__.py
+++ b/Bio/Affy/__init__.py
@@ -3,5 +3,4 @@
# as part of this package.
#
-"""Deal with Affymetrix related data such as cel files.
-"""
+"""Deal with Affymetrix related data such as cel files."""
diff --git a/Bio/Align/AlignInfo.py b/Bio/Align/AlignInfo.py
index b2fc980..808d475 100644
--- a/Bio/Align/AlignInfo.py
+++ b/Bio/Align/AlignInfo.py
@@ -34,13 +34,14 @@ class SummaryInfo(object):
results of an alignment. This may either be straight consensus info
or more complicated things.
"""
+
def __init__(self, alignment):
"""Initialize with the alignment to calculate information on.
- ic_vector attribute. A dictionary. Keys: column numbers. Values:
+ ic_vector attribute. A list of ic content for each column number.
"""
self.alignment = alignment
- self.ic_vector = {}
+ self.ic_vector = []
def dumb_consensus(self, threshold=.7, ambiguous="X",
consensus_alpha=None, require_multiple=0):
@@ -57,15 +58,16 @@ class SummaryInfo(object):
into account), but it just meant for a quick and dirty consensus.
Arguments:
- - threshold - The threshold value that is required to add a particular
- atom.
- - ambiguous - The ambiguous character to be added when the threshold is
- not reached.
- - consensus_alpha - The alphabet to return for the consensus sequence.
- If this is None, then we will try to guess the alphabet.
- - require_multiple - If set as 1, this will require that more than
- 1 sequence be part of an alignment to put it in the consensus (ie.
- not just 1 sequence and gaps).
+ - threshold - The threshold value that is required to add a particular
+ atom.
+ - ambiguous - The ambiguous character to be added when the threshold is
+ not reached.
+ - consensus_alpha - The alphabet to return for the consensus sequence.
+ If this is None, then we will try to guess the alphabet.
+ - require_multiple - If set as 1, this will require that more than
+ 1 sequence be part of an alignment to put it in the consensus (ie.
+ not just 1 sequence and gaps).
+
"""
# Iddo Friedberg, 1-JUL-2004: changed ambiguous default to "X"
consensus = ''
@@ -116,14 +118,17 @@ class SummaryInfo(object):
return Seq(consensus, consensus_alpha)
def gap_consensus(self, threshold=.7, ambiguous="X",
- consensus_alpha=None, require_multiple=0):
- """Same as dumb_consensus(), but allows gap on the output.
+ consensus_alpha=None, require_multiple=0):
+ """Output a fast consensus sequence of the alignment, allowing gaps.
+
+ Same as dumb_consensus(), but allows gap on the output.
Things to do:
- - Let the user define that with only one gap, the result
- character in consensus is gap.
- - Let the user select gap character, now
- it takes the same as input.
+ - Let the user define that with only one gap, the result
+ character in consensus is gap.
+ - Let the user select gap character, now
+ it takes the same as input.
+
"""
# Iddo Friedberg, 1-JUL-2004: changed ambiguous default to "X"
consensus = ''
@@ -194,7 +199,7 @@ class SummaryInfo(object):
# Check the ambiguous character we are going to use in the consensus
# is in the alphabet's list of valid letters (if defined).
if hasattr(a, "letters") and a.letters is not None \
- and ambiguous not in a.letters:
+ and ambiguous not in a.letters:
# We'll need to pick a more generic alphabet...
if isinstance(a, IUPAC.IUPACUnambiguousDNA):
if ambiguous in IUPAC.IUPACUnambiguousDNA().letters:
@@ -216,7 +221,7 @@ class SummaryInfo(object):
return a
def replacement_dictionary(self, skip_chars=None):
- """Generate a replacement dictionary to plug into a substitution matrix
+ """Generate a replacement dictionary to plug into a substitution matrix.
This should look at an alignment, and be able to generate the number
of substitutions of different residues for each other in the
@@ -275,16 +280,17 @@ class SummaryInfo(object):
"""Compare two sequences and generate info on the replacements seen.
Arguments:
- - seq1, seq2 - The two sequences to compare.
- - weight1, weight2 - The relative weights of seq1 and seq2.
- - start_dict - The dictionary containing the starting replacement
- info that we will modify.
- - ignore_chars - A list of characters to ignore when calculating
- replacements (ie. '-').
+ - seq1, seq2 - The two sequences to compare.
+ - weight1, weight2 - The relative weights of seq1 and seq2.
+ - start_dict - The dictionary containing the starting replacement
+ info that we will modify.
+ - ignore_chars - A list of characters to ignore when calculating
+ replacements (ie. '-').
Returns:
- - A replacment dictionary which is modified from initial_dict with
- the information from the sequence comparison.
+ - A replacment dictionary which is modified from initial_dict with
+ the information from the sequence comparison.
+
"""
# loop through each residue in the sequences
for residue_num in range(len(seq1)):
@@ -303,7 +309,8 @@ class SummaryInfo(object):
# modified by the sequence weights
start_dict[(residue1, residue2)] += weight1 * weight2
- # if we get a key error, then we've got a problem with alphabets
+ # if we get a key error, then we've got a problem with
+ # alphabets
except KeyError:
raise ValueError("Residues %s, %s not found in alphabet %s"
% (residue1, residue2,
@@ -312,7 +319,7 @@ class SummaryInfo(object):
return start_dict
def _get_all_letters(self):
- """Returns a string containing the expected letters in the alignment."""
+ """Return a string containing the expected letters in the alignment."""
all_letters = self.alignment._alphabet.letters
if all_letters is None or \
(isinstance(self.alignment._alphabet, Alphabet.Gapped) and
@@ -337,12 +344,13 @@ class SummaryInfo(object):
letters as keys (ie. ('A', 'G')) and sets the values as zero.
Returns:
- - The base dictionary created
- - A list of alphabet items to skip when filling the dictionary.
- (Right now the only thing I can imagine in this list is gap
- characters, but maybe X's or something else might be useful later.
- This will also include any characters that are specified to be
- skipped.) Defaults to an empty list.
+ - The base dictionary created
+ - A list of alphabet items to skip when filling the dictionary.
+ (Right now the only thing I can imagine in this list is gap
+ characters, but maybe X's or something else might be useful later.
+ This will also include any characters that are specified to be
+ skipped.) Defaults to an empty list.
+
"""
if skip_items is None:
skip_items = []
@@ -353,7 +361,8 @@ class SummaryInfo(object):
# and drop it out
if isinstance(self.alignment._alphabet, Alphabet.Gapped):
skip_items.append(self.alignment._alphabet.gap_char)
- all_letters = all_letters.replace(self.alignment._alphabet.gap_char, '')
+ all_letters = all_letters.replace(
+ self.alignment._alphabet.gap_char, '')
# now create the dictionary
for first_letter in all_letters:
@@ -372,16 +381,17 @@ class SummaryInfo(object):
alternative method to look at a consensus sequence.
Arguments:
- - chars_to_ignore - A list of all characters not to include in
- the pssm. If the alignment alphabet declares a gap character,
- then it will be excluded automatically.
- - axis_seq - An optional argument specifying the sequence to
- put on the axis of the PSSM. This should be a Seq object. If nothing
- is specified, the consensus sequence, calculated with default
- parameters, will be used.
+ - chars_to_ignore - A list of all characters not to include in
+ the pssm. If the alignment alphabet declares a gap character,
+ then it will be excluded automatically.
+ - axis_seq - An optional argument specifying the sequence to
+ put on the axis of the PSSM. This should be a Seq object. If nothing
+ is specified, the consensus sequence, calculated with default
+ parameters, will be used.
Returns:
- - A PSSM (position specific score matrix) object.
+ - A PSSM (position specific score matrix) object.
+
"""
# determine all of the letters we have to deal with
all_letters = self._get_all_letters()
@@ -424,8 +434,8 @@ class SummaryInfo(object):
# if we get a KeyError then we have an alphabet problem
except KeyError:
raise ValueError("Residue %s not found in alphabet %s"
- % (this_residue,
- self.alignment._alphabet))
+ % (this_residue,
+ self.alignment._alphabet))
pssm_info.append((left_seq[residue_num],
score_dict))
@@ -433,41 +443,52 @@ class SummaryInfo(object):
return PSSM(pssm_info)
def _get_base_letters(self, letters):
- """Create a zeroed dictionary with all of the specified letters.
- """
+ """Create a zeroed dictionary with all of the specified letters (PRIVATE)."""
base_info = {}
for letter in letters:
base_info[letter] = 0
return base_info
+ def _get_gap_char(self):
+ """Return the gap character used in the alignment (PRIVATE)."""
+ try:
+ gap_char = self.alignment._alphabet.gap_char
+ except AttributeError:
+ # The alphabet doesn't declare a gap - there could be none
+ # in the sequence... or just a vague alphabet.
+ gap_char = "-" # Safe?
+
+ return gap_char
+
def information_content(self, start=0,
end=None,
e_freq_table=None, log_base=2,
- chars_to_ignore=None):
+ chars_to_ignore=None, pseudo_count=0):
"""Calculate the information content for each residue along an alignment.
Arguments:
- - start, end - The starting an ending points to calculate the
- information content. These points should be relative to the first
- sequence in the alignment, starting at zero (ie. even if the 'real'
- first position in the seq is 203 in the initial sequence, for
- the info content, we need to use zero). This defaults to the entire
- length of the first sequence.
- - e_freq_table - A FreqTable object specifying the expected frequencies
- for each letter in the alphabet we are using (e.g. {'G' : 0.4,
- 'C' : 0.4, 'T' : 0.1, 'A' : 0.1}). Gap characters should not be
- included, since these should not have expected frequencies.
- - log_base - The base of the logathrim to use in calculating the
- information content. This defaults to 2 so the info is in bits.
- - chars_to_ignore - A listing of characters which should be ignored
- in calculating the info content. Defaults to none.
+ - start, end - The starting an ending points to calculate the
+ information content. These points should be relative to the first
+ sequence in the alignment, starting at zero (ie. even if the 'real'
+ first position in the seq is 203 in the initial sequence, for
+ the info content, we need to use zero). This defaults to the entire
+ length of the first sequence.
+ - e_freq_table - A FreqTable object specifying the expected frequencies
+ for each letter in the alphabet we are using (e.g. {'G' : 0.4,
+ 'C' : 0.4, 'T' : 0.1, 'A' : 0.1}). Gap characters should not be
+ included, since these should not have expected frequencies.
+ - log_base - The base of the logathrim to use in calculating the
+ information content. This defaults to 2 so the info is in bits.
+ - chars_to_ignore - A listing of characters which should be ignored
+ in calculating the info content. Defaults to none.
Returns:
- - A number representing the info content for the specified region.
+ - A number representing the info content for the specified region.
Please see the Biopython manual for more information on how information
content is calculated.
+
"""
# if no end was specified, then we default to the end of the sequence
if end is None:
@@ -478,7 +499,7 @@ class SummaryInfo(object):
if start < 0 or end > len(self.alignment[0].seq):
raise ValueError("Start (%s) and end (%s) are not in the \
range %s to %s"
- % (start, end, 0, len(self.alignment[0].seq)))
+ % (start, end, 0, len(self.alignment[0].seq)))
# determine random expected frequencies, if necessary
random_expected = None
if not e_freq_table:
@@ -505,40 +526,59 @@ class SummaryInfo(object):
for residue_num in range(start, end):
freq_dict = self._get_letter_freqs(residue_num,
self.alignment,
- all_letters, chars_to_ignore)
+ all_letters,
+ chars_to_ignore,
+ pseudo_count,
+ e_freq_table,
+ random_expected)
# print freq_dict,
column_score = self._get_column_info_content(freq_dict,
e_freq_table,
log_base,
random_expected)
-
info_content[residue_num] = column_score
# sum up the score
total_info = sum(info_content.values())
# fill in the ic_vector member: holds IC for each column
- for i in info_content:
- self.ic_vector[i] = info_content[i]
+ # reset ic_vector to empty list at each call
+ self.ic_vector = []
+ for (i, k) in enumerate(info_content):
+ self.ic_vector.append(info_content[i + start])
return total_info
- def _get_letter_freqs(self, residue_num, all_records, letters, to_ignore):
+ def _get_letter_freqs(self, residue_num, all_records, letters, to_ignore,
+ pseudo_count=0, e_freq_table=None, random_expected=None):
"""Determine the frequency of specific letters in the alignment.
Arguments:
- - residue_num - The number of the column we are getting frequencies
- from.
- - all_records - All of the SeqRecords in the alignment.
- - letters - The letters we are interested in getting the frequency
- for.
- - to_ignore - Letters we are specifically supposed to ignore.
+ - residue_num - The number of the column we are getting frequencies
+ from.
+ - all_records - All of the SeqRecords in the alignment.
+ - letters - The letters we are interested in getting the frequency
+ for.
+ - to_ignore - Letters we are specifically supposed to ignore.
+ - pseudo_count - Optional argument specifying the Pseudo count (k)
+ to add in order to prevent a frequency of 0 for a letter.
+ - e_freq_table - An optional argument specifying the expected
+ frequencies for each letter. This is a SubsMat.FreqTable instance.
+ - random_expected - Optional argument that specify the frequency to use
+ when e_freq_table is not defined.
This will calculate the frequencies of each of the specified letters
in the alignment at the given frequency, and return this as a
dictionary where the keys are the letters and the values are the
- frequencies.
+ frequencies. Pseudo count can be added to prevent a null frequency
"""
freq_info = self._get_base_letters(letters)
total_count = 0
+
+ gap_char = self._get_gap_char()
+
+ if pseudo_count < 0:
+ raise ValueError("Positive value required for "
+ "pseudo_count, %s provided" % (pseudo_count))
+
# collect the count info into the dictionary for all the records
for record in all_records:
try:
@@ -552,6 +592,18 @@ class SummaryInfo(object):
% (record.seq[residue_num],
self.alignment._alphabet))
+ if e_freq_table:
+ if not isinstance(e_freq_table, FreqTable.FreqTable):
+ raise ValueError("e_freq_table should be a FreqTable object")
+
+ # check if all the residus in freq_info are in e_freq_table
+ for key in freq_info:
+ if (key != gap_char and key not in e_freq_table):
+ raise ValueError("letters in current column %s "
+ "and not in expected frequency table %s"
+ % (list(freq_info) - [gap_char],
+ list(e_freq_table)))
+
if total_count == 0:
# This column must be entirely ignored characters
for letter in freq_info:
@@ -560,7 +612,20 @@ class SummaryInfo(object):
else:
# now convert the counts into frequencies
for letter in freq_info:
- freq_info[letter] = freq_info[letter] / total_count
+ if pseudo_count and (random_expected or e_freq_table):
+ # use either the expected random freq or the
+ if e_freq_table:
+ ajust_freq = e_freq_table[letter]
+ else:
+ ajust_freq = random_expected
+
+ ajusted_letter_count = freq_info[
+ letter] + ajust_freq * pseudo_count
+ ajusted_total = total_count + pseudo_count
+ freq_info[letter] = ajusted_letter_count / ajusted_total
+
+ else:
+ freq_info[letter] = freq_info[letter] / total_count
return freq_info
@@ -569,18 +634,14 @@ class SummaryInfo(object):
"""Calculate the information content for a column.
Arguments:
- - obs_freq - The frequencies observed for each letter in the column.
- - e_freq_table - An optional argument specifying the expected
- frequencies for each letter. This is a SubsMat.FreqTable instance.
- - log_base - The base of the logathrim to use in calculating the
- info content.
+ - obs_freq - The frequencies observed for each letter in the column.
+ - e_freq_table - An optional argument specifying the expected
+ frequencies for each letter. This is a SubsMat.FreqTable instance.
+ - log_base - The base of the logathrim to use in calculating the
+ info content.
+
"""
- try:
- gap_char = self.alignment._alphabet.gap_char
- except AttributeError:
- # The alphabet doesn't declare a gap - there could be none
- # in the sequence... or just a vague alphabet.
- gap_char = "-" # Safe?
+ gap_char = self._get_gap_char()
if e_freq_table:
if not isinstance(e_freq_table, FreqTable.FreqTable):
@@ -648,6 +709,7 @@ class PSSM(object):
your_pssm[1]['T']
"""
+
def __init__(self, pssm):
"""Initialize with pssm data to represent.
@@ -681,18 +743,15 @@ class PSSM(object):
return out
def get_residue(self, pos):
- """Return the residue letter at the specified position.
- """
+ """Return the residue letter at the specified position."""
return self.pssm[pos][0]
def print_info_content(summary_info, fout=None, rep_record=0):
- """ Three column output: position, aa in representative sequence,
- ic_vector value"""
+ """3 column output: position, aa in representative sequence, ic_vector value."""
fout = fout or sys.stdout
if not summary_info.ic_vector:
summary_info.information_content()
rep_sequence = summary_info.alignment[rep_record].seq
- for pos in sorted(summary_info.ic_vector):
- fout.write("%d %s %.3f\n" % (pos, rep_sequence[pos],
- summary_info.ic_vector[pos]))
+ for pos, ic in enumerate(summary_info.ic_vector):
+ fout.write("%d %s %.3f\n" % (pos, rep_sequence[pos], ic))
diff --git a/Bio/Align/Applications/_ClustalOmega.py b/Bio/Align/Applications/_ClustalOmega.py
index fbce5b8..e22448e 100644
--- a/Bio/Align/Applications/_ClustalOmega.py
+++ b/Bio/Align/Applications/_ClustalOmega.py
@@ -8,8 +8,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment program Clustal Omega.
-"""
+"""Command line wrapper for the multiple alignment program Clustal Omega."""
from __future__ import print_function
@@ -17,7 +16,7 @@ from Bio.Application import _Option, _Switch, AbstractCommandline
class ClustalOmegaCommandline(AbstractCommandline):
- """Command line wrapper for clustal omega
+ u"""Command line wrapper for clustal omega.
http://www.clustal.org/omega
@@ -46,6 +45,7 @@ class ClustalOmegaCommandline(AbstractCommandline):
Last checked against versions: 1.2.0
"""
+
def __init__(self, cmd="clustalo", **kwargs):
# order parameters in the same order as clustalo --help
self.parameters = \
diff --git a/Bio/Align/Applications/_Clustalw.py b/Bio/Align/Applications/_Clustalw.py
index c328189..0407a14 100644
--- a/Bio/Align/Applications/_Clustalw.py
+++ b/Bio/Align/Applications/_Clustalw.py
@@ -2,8 +2,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment program Clustal W.
-"""
+"""Command line wrapper for the multiple alignment program Clustal W."""
from __future__ import print_function
@@ -38,6 +37,7 @@ class ClustalwCommandline(AbstractCommandline):
Last checked against versions: 1.83 and 2.1
"""
+
# TODO - Should we default to cmd="clustalw2" now?
def __init__(self, cmd="clustalw", **kwargs):
self.parameters = \
diff --git a/Bio/Align/Applications/_Dialign.py b/Bio/Align/Applications/_Dialign.py
index 2277c37..92f31e5 100644
--- a/Bio/Align/Applications/_Dialign.py
+++ b/Bio/Align/Applications/_Dialign.py
@@ -2,8 +2,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment program DIALIGN2-2.
-"""
+"""Command line wrapper for the multiple alignment program DIALIGN2-2."""
from __future__ import print_function
@@ -39,6 +38,7 @@ class DialignCommandline(AbstractCommandline):
Last checked against version: 2.2
"""
+
def __init__(self, cmd="dialign2-2", **kwargs):
self.program_name = cmd
self.parameters = \
diff --git a/Bio/Align/Applications/_MSAProbs.py b/Bio/Align/Applications/_MSAProbs.py
index 8cda414..cb72053 100644
--- a/Bio/Align/Applications/_MSAProbs.py
+++ b/Bio/Align/Applications/_MSAProbs.py
@@ -3,8 +3,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple sequence alignment program MSAProbs.
-"""
+"""Command line wrapper for the multiple sequence alignment program MSAProbs."""
from __future__ import print_function
diff --git a/Bio/Align/Applications/_Mafft.py b/Bio/Align/Applications/_Mafft.py
index a47f631..7129dc3 100644
--- a/Bio/Align/Applications/_Mafft.py
+++ b/Bio/Align/Applications/_Mafft.py
@@ -2,8 +2,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment programme MAFFT.
-"""
+"""Command line wrapper for the multiple alignment programme MAFFT."""
from __future__ import print_function
@@ -79,6 +78,7 @@ class MafftCommandline(AbstractCommandline):
Last checked against version: MAFFT v6.717b (2009/12/03)
"""
+
def __init__(self, cmd="mafft", **kwargs):
BLOSUM_MATRICES = ["30", "45", "62", "80"]
self.parameters = \
@@ -144,6 +144,11 @@ class MafftCommandline(AbstractCommandline):
"Default: 0",
checker_function=lambda x: isinstance(x, int),
equate=False),
+ # Number of threads to use. Default: 1
+ _Option(["--thread", "thread"],
+ "Number of threads to use. Default: 1",
+ checker_function=lambda x: isinstance(x, int),
+ equate=False),
# Use FFT approximation in group-to-group alignment. Default: on
_Switch(["--fft", "fft"],
"Use FFT approximation in group-to-group alignment. "
diff --git a/Bio/Align/Applications/_Muscle.py b/Bio/Align/Applications/_Muscle.py
index 6235971..1e841a2 100644
--- a/Bio/Align/Applications/_Muscle.py
+++ b/Bio/Align/Applications/_Muscle.py
@@ -2,8 +2,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment program MUSCLE.
-"""
+"""Command line wrapper for the multiple alignment program MUSCLE."""
from __future__ import print_function
@@ -40,18 +39,21 @@ class MuscleCommandline(AbstractCommandline):
Last checked against version: 3.7, briefly against 3.8
"""
+
def __init__(self, cmd="muscle", **kwargs):
CLUSTERING_ALGORITHMS = ["upgma", "upgmb", "neighborjoining"]
- DISTANCE_MEASURES_ITER1 = ["kmer6_6", "kmer20_3", "kmer20_4", "kbit20_3",
- "kmer4_6"]
+ DISTANCE_MEASURES_ITER1 = ["kmer6_6", "kmer20_3", "kmer20_4",
+ "kbit20_3", "kmer4_6"]
DISTANCE_MEASURES_ITER2 = DISTANCE_MEASURES_ITER1 + \
["pctid_kimura", "pctid_log"]
OBJECTIVE_SCORES = ["sp", "ps", "dp", "xp", "spf", "spm"]
TREE_ROOT_METHODS = ["pseudo", "midlongestspan", "minavgleafdist"]
SEQUENCE_TYPES = ["protein", "nucleo", "auto"]
- WEIGHTING_SCHEMES = ["none", "clustalw", "henikoff", "henikoffpb", "gsc", "threeway"]
+ WEIGHTING_SCHEMES = ["none", "clustalw", "henikoff", "henikoffpb",
+ "gsc", "threeway"]
self.parameters = [
- # Can't use "in" as the final alias as this is a reserved word in python:
+ # Can't use "in" as the final alias as this
+ # is a reserved word in python:
_Option(["-in", "in", "input"],
"Input filename",
filename=True,
@@ -72,45 +74,46 @@ class MuscleCommandline(AbstractCommandline):
"Second input filename for a profile alignment",
filename=True,
equate=False),
- # anchorspacing Integer 32 Minimum spacing between
+ # anchorspacing Integer 32 Minimum spacing
+ # between anchor cols
_Option(["-anchorspacing", "anchorspacing"],
"Minimum spacing between anchor columns",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # center Floating point [1] Center parameter.
- # Should be negative.
+ # center Floating point [1] Center parameter.
+ # Should be negative.
_Option(["-center", "center"],
"Center parameter - should be negative",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # cluster1 upgma upgmb Clustering method.
+ # cluster1 upgma upgmb Clustering method.
_Option(["-cluster1", "cluster1"],
"Clustering method used in iteration 1",
checker_function=lambda x: x in CLUSTERING_ALGORITHMS,
equate=False),
- # cluster2 upgmb cluster1 is used in
- # neighborjoining iteration 1 and 2,
- # cluster2 in later
- # iterations.
+ # cluster2 upgmb cluster1 is used
+ # neighborjoining in iteration 1 and
+ # 2, cluster2 in
+ # later iterations.
_Option(["-cluster2", "cluster2"],
"Clustering method used in iteration 2",
checker_function=lambda x: x in CLUSTERING_ALGORITHMS,
equate=False),
- # diaglength Integer 24 Minimum length of
- # diagonal.
+ # diaglength Integer 24 Minimum length of
+ # diagonal.
_Option(["-diaglength", "diaglength"],
"Minimum length of diagonal",
checker_function=lambda x: isinstance(x, int),
equate=True),
- # diagmargin Integer 5 Discard this many
- # positions at ends of
- # diagonal.
+ # diagmargin Integer 5 Discard this many
+ # positions at ends
+ # of diagonal.
_Option(["-diagmargin", "diagmargin"],
"Discard this many positions at ends of diagonal",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # distance1 kmer6_6 Kmer6_6 (amino) or Distance measure for
- # kmer20_3 Kmer4_6 (nucleo) iteration 1.
+ # distance1 kmer6_6 Kmer6_6(amino) or Distance measure
+ # kmer20_3 Kmer4_6(nucleo) for iteration 1
# kmer20_4
# kbit20_3
# kmer4_6
@@ -118,9 +121,9 @@ class MuscleCommandline(AbstractCommandline):
"Distance measure for iteration 1",
checker_function=lambda x: x in DISTANCE_MEASURES_ITER1,
equate=False),
- # distance2 kmer6_6 pctid_kimura Distance measure for
- # kmer20_3 iterations 2, 3 ...
- # kmer20_4
+ # distance2 kmer6_6 pctid_kimura Distance measure
+ # kmer20_3 for iterations
+ # kmer20_4 2, 3 ...
# kbit20_3
# pctid_kimura
# pctid_log
@@ -128,219 +131,295 @@ class MuscleCommandline(AbstractCommandline):
"Distance measure for iteration 2",
checker_function=lambda x: x in DISTANCE_MEASURES_ITER2,
equate=False),
- # gapopen Floating point [1] The gap open score.
- # Must be negative.
+ # gapextend Floating point [1] The gap extend score
+ _Option(["-gapextend", "gapextend"],
+ "Gap extension penalty",
+ checker_function=lambda x: isinstance(x, float),
+ equate=False),
+ # gapopen Floating point [1] The gap open score
+ # Must be negative.
_Option(["-gapopen", "gapopen"],
"Gap open score - negative number",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # hydro Integer 5 Window size for
- # determining whether a
- # region is hydrophobic.
+ # hydro Integer 5 Window size for
+ # determining whether
+ # a region is
+ # hydrophobic.
_Option(["-hydro", "hydro"],
"Window size for hydrophobic region",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # hydrofactor Floating point 1.2 Multiplier for gap
- # open/close penalties in
- # hydrophobic regions.
+ # hydrofactor Floating point 1.2 Multiplier for gap
+ # open/close
+ # penalties in
+ # hydrophobic regions
_Option(["-hydrofactor", "hydrofactor"],
"Multiplier for gap penalties in hydrophobic regions",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # log File name None. Log file name (delete
- # existing file).
+ # log File name None. Log file name
+ # (delete existing
+ # file).
_Option(["-log", "log"],
"Log file name",
filename=True,
equate=False),
- # loga File name None. Log file name (append
- # to existing file).
+ # loga File name None. Log file name
+ # (append to existing
+ # file).
_Option(["-loga", "loga"],
"Log file name (append to existing file)",
filename=True,
equate=False),
- # maxdiagbreak Integer 1 Maximum distance
- # between two diagonals
- # that allows them to
- # merge into one
- # diagonal.
- _Option(["-maxdiagbreak", "maxdiagbreak"],
+ # matrix File name None. File name for
+ # substitution matrix
+ # in NCBI or WU-BLAST
+ # format. If you
+ # specify your own
+ # matrix, you should
+ # also specify:
+ # -gapopen <g>
+ # -gapextend <e>
+ # -center 0.0
+ _Option(["-matrix", "matrix"],
+ "path to NCBI or WU-BLAST format protein substitution "
+ "matrix - also set -gapopen, -gapextend and -center",
+ filename=True,
+ equate=False),
+ # diagbreak Integer 1 Maximum distance
+ # between two
+ # diagonals that
+ # allows them to
+ # merge into one
+ # diagonal.
+ _Option(["-diagbreak", "diagbreak"],
"Maximum distance between two diagonals that allows "
"them to merge into one diagonal",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # maxhours Floating point None. Maximum time to run in
- # hours. The actual time
- # may exceed the
- # requested limit by a
- # few minutes. Decimals
- # are allowed, so 1.5
- # means one hour and 30
- # minutes.
+ _Option(["-maxdiagbreak", "maxdiagbreak"], # deprecated 3.8
+ "Deprecated in v3.8, use -diagbreak instead.",
+ checker_function=lambda x: isinstance(x, int),
+ equate=False),
+ # maxhours Floating point None. Maximum time to
+ # run in hours. The
+ # actual time may
+ # exceed requested
+ # limit by a few
+ # minutes. Decimals
+ # are allowed, so 1.5
+ # means one hour and
+ # 30 minutes.
_Option(["-maxhours", "maxhours"],
"Maximum time to run in hours",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # maxiters Integer 1, 2 ... 16 Maximum number of
- # iterations.
+ # maxiters Integer 1, 2 ... 16 Maximum number of
+ # iterations.
_Option(["-maxiters", "maxiters"],
"Maximum number of iterations",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # maxtrees Integer 1 Maximum number of new
- # trees to build in
- # iteration 2.
+ # maxtrees Integer 1 Maximum number of
+ # new trees to build
+ # in iteration 2.
_Option(["-maxtrees", "maxtrees"],
"Maximum number of trees to build in iteration 2",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # minbestcolscore Floating point [1] Minimum score a column
- # must have to be an
- # anchor.
+ # minbestcolscore Floating point [1] Minimum score a
+ # column must have to
+ # be an anchor.
_Option(["-minbestcolscore", "minbestcolscore"],
"Minimum score a column must have to be an anchor",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # minsmoothscore Floating point [1] Minimum smoothed score
- # a column must have to
- # be an anchor.
+ # minsmoothscore Floating point [1] Minimum smoothed
+ # score a column must
+ # have to be an
+ # anchor.
_Option(["-minsmoothscore", "minsmoothscore"],
"Minimum smoothed score a column must have to "
"be an anchor",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # objscore sp spm Objective score used by
- # ps tree dependent
- # dp refinement.
- # xp sp=sum-of-pairs score.
- # spf spf=sum-of-pairs score
- # spm (dimer approximation)
- # spm=sp for < 100 seqs,
- # otherwise spf
- # dp=dynamic programming
- # score.
- # ps=average profile-
- # sequence score.
- # xp=cross profile score.
+ # objscore sp spm Objective score
+ # ps used by tree
+ # dp dependent
+ # xp refinement.
+ # spf sp=sum-of-pairs
+ # spm score. (dimer
+ # approximation)
+ # spm=sp for < 100
+ # seqs, otherwise spf
+ # dp=dynamic
+ # programming score.
+ # ps=average profile-
+ # sequence score.
+ # xp=cross profile
+ # score.
_Option(["-objscore", "objscore"],
"Objective score used by tree dependent refinement",
checker_function=lambda x: x in OBJECTIVE_SCORES,
equate=False),
- # root1 pseudo pseudo Method used to root
+ # refinewindow Integer 200 Length of window
+ # for -refinew.
+ _Option(["-refinewindow", "refinewindow"],
+ "Length of window for -refinew",
+ checker_function=lambda x: isinstance(x, int),
+ equate=False),
+ # root1 pseudo pseudo Method used to root
_Option(["-root1", "root1"],
"Method used to root tree in iteration 1",
checker_function=lambda x: x in TREE_ROOT_METHODS,
equate=False),
- # root2 midlongestspan tree; root1 is used in
- # minavgleafdist iteration 1 and 2,
- # root2 in later
- # iterations.
+ # root2 midlongestspan tree; root1 is
+ # minavgleafdist used in iteration 1
+ # and 2, root2 in
+ # later iterations.
_Option(["-root2", "root2"],
"Method used to root tree in iteration 2",
checker_function=lambda x: x in TREE_ROOT_METHODS,
equate=False),
- # seqtype protein auto Sequence type.
+ # scorefile File name None File name where to
+ # write a score file.
+ # This contains one
+ # line for each column
+ # in the alignment.
+ # The line contains
+ # the letters in the
+ # column followed by
+ # the average BLOSUM62
+ # score over pairs of
+ # letters in the
+ # column.
+ _Option(["-scorefile", "scorefile"],
+ "Score file name, contains one line for each column"
+ " in the alignment with average BLOSUM62 score",
+ filename=True,
+ equate=False),
+ # seqtype protein auto Sequence type.
# nucleo
# auto
_Option(["-seqtype", "seqtype"],
"Sequence type",
checker_function=lambda x: x in SEQUENCE_TYPES,
equate=False),
- # smoothscoreceil Floating point [1] Maximum value of column
- # score for smoothing
- # purposes.
+ # smoothscoreceil Floating point [1] Maximum value of
+ # column score for
+ # smoothing purposes.
_Option(["-smoothscoreceil", "smoothscoreceil"],
"Maximum value of column score for smoothing",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # smoothwindow Integer 7 Window used for anchor
- # column smoothing.
+ # smoothwindow Integer 7 Window used for
+ # anchor column
+ # smoothing.
_Option(["-smoothwindow", "smoothwindow"],
"Window used for anchor column smoothing",
checker_function=lambda x: isinstance(x, int),
equate=False),
- # SUEFF Floating point value 0.1 Constant used in UPGMB
- # between 0 and 1. clustering. Determines
- # the relative fraction
- # of average linkage
- # (SUEFF) vs. nearest-
- # neighbor linkage (1
- # SUEFF).
+ # spscore File name Compute SP
+ # objective score of
+ # multiple alignment.
+ _Option(["-spscore", "spscore"],
+ "Compute SP objective score of multiple alignment",
+ filename=True,
+ equate=False),
+ # SUEFF Floating point value 0.1 Constant used in
+ # between 0 and 1. UPGMB clustering.
+ # Determines the
+ # relative fraction
+ # of average linkage
+ # (SUEFF) vs. nearest
+ # neighbor linkage
+ # (1 SUEFF).
_Option(["-sueff", "sueff"],
"Constant used in UPGMB clustering",
checker_function=lambda x: isinstance(x, float),
equate=False),
- # tree1 File name None Save tree produced in
+ # tree1 File name None Save tree
_Option(["-tree1", "tree1"],
"Save Newick tree from iteration 1",
equate=False),
- # tree2 first or second
- # iteration to given file
- # in Newick (Phylip-
- # compatible) format.
+ # tree2 first or second
+ # iteration to given
+ # file in Newick
+ # (Phylip-compatible)
+ # format.
_Option(["-tree2", "tree2"],
"Save Newick tree from iteration 2",
equate=False),
- # weight1 none clustalw Sequence weighting
+ # usetree File name None Use given tree as
+ # guide tree. Must by
+ # in Newick
+ # (Phyip-compatible)
+ # format.
+ _Option(["-usetree", "usetree"],
+ "Use given Newick tree as guide tree",
+ filename=True,
+ equate=False),
+ # weight1 none clustalw Sequence weighting
_Option(["-weight1", "weight1"],
"Weighting scheme used in iteration 1",
checker_function=lambda x: x in WEIGHTING_SCHEMES,
equate=False),
- # weight2 henikoff scheme.
- # henikoffpb weight1 is used in
- # gsc iterations 1 and 2.
- # clustalw weight2 is used for
- # threeway tree-dependent
- # refinement.
- # none=all sequences have
- # equal weight.
- # henikoff=Henikoff &
- # Henikoff weighting
- # scheme.
- # henikoffpb=Modified
- # Henikoff scheme as used
- # in PSI-BLAST.
- # clustalw=CLUSTALW
- # method.
- # threeway=Gotoh three-
- # way method.
+ # weight2 henikoff scheme.
+ # henikoffpb weight1 is used in
+ # gsc iterations 1 and 2.
+ # clustalw weight2 is used for
+ # threeway tree-dependent
+ # refinement.
+ # none=all sequences
+ # have equal weight.
+ # henikoff=Henikoff &
+ # Henikoff weighting
+ # scheme.
+ # henikoffpb=Modified
+ # Henikoff scheme as
+ # used in PSI-BLAST.
+ # clustalw=CLUSTALW
+ # method.
+ # threeway=Gotoh
+ # three-way method.
_Option(["-weight2", "weight2"],
"Weighting scheme used in iteration 2",
checker_function=lambda x: x in WEIGHTING_SCHEMES,
equate=False),
- # ################### FORMATS #######################################
+ # ################### FORMATS ####################################
# Multiple formats can be specified on the command line
# If -msf appears it will be used regardless of other formats
- # specified. If -clw appears (and not -msf), clustalw format will be
- # used regardless of other formats specified. If both -clw and
+ # specified. If -clw appears (and not -msf), clustalw format will
+ # be used regardless of other formats specified. If both -clw and
# -clwstrict are specified -clwstrict will be used regardless of
# other formats specified. If -fasta is specified and not -msf,
# -clw, or clwstrict, fasta will be used. If -fasta and -html are
# specified -fasta will be used. Only if -html is specified alone
# will html be used. I kid ye not.
- # clw no Write output in CLUSTALW format (default is
- # FASTA).
+ # clw no Write output in CLUSTALW format
+ # (default is FASTA).
_Switch(["-clw", "clw"],
"Write output in CLUSTALW format (with a MUSCLE header)"),
- # clwstrict no Write output in CLUSTALW format with the
- # "CLUSTAL W (1.81)" header rather than the
- # MUSCLE version. This is useful when a post-
- # processing step is picky about the file
- # header.
+ # clwstrict no Write output in CLUSTALW format with
+ # the "CLUSTAL W (1.81)" header rather
+ # than the MUSCLE version. This is
+ # useful when a post-processing step is
+ # picky about the file header.
_Switch(["-clwstrict", "clwstrict"],
- "Write output in CLUSTALW format with version 1.81 header"),
- # fasta yes Write output in FASTA format. Alternatives
- # include clw,
+ "Write output in CLUSTALW format with version"
+ "1.81 header"),
+ # fasta yes Write output in FASTA format.
+ # Alternatives include clw,
# clwstrict, msf and html.
_Switch(["-fasta", "fasta"],
"Write output in FASTA format"),
- # html no Write output in HTML format (default is
- # FASTA).
+ # html no Write output in HTML format (default
+ # is FASTA).
_Switch(["-html", "html"],
"Write output in HTML format"),
- # msf no Write output in MSF format (default is
- # FASTA).
+ # msf no Write output in MSF format (default
+ # is FASTA).
_Switch(["-msf", "msf"],
"Write output in MSF format"),
# Phylip interleaved - undocumented as of 3.7
@@ -354,10 +433,12 @@ class MuscleCommandline(AbstractCommandline):
"Write PHYLIP interleaved output to specified filename",
filename=True,
equate=False),
- _Option(["-physout", "physout"], "Write PHYLIP sequential format to specified filename",
+ _Option(["-physout", "physout"],
+ "Write PHYLIP sequential format to specified filename",
filename=True,
equate=False),
- _Option(["-htmlout", "htmlout"], "Write HTML output to specified filename",
+ _Option(["-htmlout", "htmlout"],
+ "Write HTML output to specified filename",
filename=True,
equate=False),
_Option(["-clwout", "clwout"],
@@ -379,86 +460,121 @@ class MuscleCommandline(AbstractCommandline):
filename=True,
equate=False),
# ############# END FORMATS ###################################
- # anchors yes Use anchor optimization in tree dependent
- # refinement iterations.
+ # anchors yes Use anchor optimization in tree
+ # dependent refinement iterations.
_Switch(["-anchors", "anchors"],
"Use anchor optimisation in tree dependent "
"refinement iterations"),
- # noanchors no Disable anchor optimization. Default is
- # anchors.
+ # noanchors no Disable anchor optimization. Default
+ # is anchors.
_Switch(["-noanchors", "noanchors"],
"Do not use anchor optimisation in tree dependent "
"refinement iterations"),
- # group yes Group similar sequences together in the
- # output. This is the default. See also
- # stable.
+ # brenner no Use Steven Brenner's method for
+ # computing the root alignment.
+ _Switch(["-brenner", "brenner"],
+ "Use Steve Brenner's root alignment method"),
+ # cluster no Perform fast clustering of input
+ # sequences. Use the tree1 option to
+ # save the tree.
+ _Switch(["-cluster", "cluster"],
+ "Perform fast clustering of input sequences, "
+ "use -tree1 to save tree"),
+ # dimer no Use dimer approximation for the
+ # SP score (faster, less accurate).
+ _Switch(["-dimer", "dimer"],
+ "Use faster (slightly less accurate) dimer approximation"
+ "for the SP score"),
+ # group yes Group similar sequences together
+ # in the output. This is the default.
+ # See also stable.
_Switch(["-group", "group"],
"Group similar sequences in output"),
- # stable no Preserve input order of sequences in output
- # file. Default is to group sequences by
- # similarity (group).
- _Switch(["-stable", "stable"],
- "Do not group similar sequences in output (not supported in v3.8)"),
- # ############# log-expectation profile score ######################
+ # ############# log-expectation profile score ####################
# One of either -le, -sp, or -sv
#
# According to the doc, spn is default and the only option for
- # nucleotides: this doesn't appear to be true. -le, -sp, and -sv can
- # be used and produce numerically different logs (what is going on?)
+ # nucleotides: this doesn't appear to be true. -le, -sp, and -sv
+ # can be used and produce numerically different logs
+ # (what is going on?)
#
# spn fails on proteins
- # le maybe Use log-expectation profile score (VTML240).
- # Alternatives are to use sp or sv. This is
- # the default for amino acid sequences.
+ # le maybe Use log-expectation profile score
+ # (VTML240). Alternatives are to use sp
+ # or sv. This is the default for amino
+ # acid sequences.
_Switch(["-le", "le"],
"Use log-expectation profile score (VTML240)"),
- # sv no Use sum-of-pairs profile score (VTML240).
- # Default is le.
+ # sv no Use sum-of-pairs profile score
+ # (VTML240). Default is le.
_Switch(["-sv", "sv"],
"Use sum-of-pairs profile score (VTML240)"),
- # sp no Use sum-of-pairs protein profile score
- # (PAM200). Default is le.
+ # sp no Use sum-of-pairs protein profile
+ # score (PAM200). Default is le.
_Switch(["-sp", "sp"],
"Use sum-of-pairs protein profile score (PAM200)"),
- # spn maybe Use sum-of-pairs nucleotide profile score
- # (BLASTZ parameters). This is the only option
- # for nucleotides, and is therefore the
- # default.
+ # spn maybe Use sum-of-pairs nucleotide profile
+ # score (BLASTZ parameters). This is
+ # the only option for nucleotides,
+ # and is therefore the default.
_Switch(["-spn", "spn"],
"Use sum-of-pairs protein nucleotide profile score"),
- # ############# END log-expectation profile score ######################
- # quiet no Do not display progress messages.
+ # ########## END log-expectation profile score ###################
+ # quiet no Do not display progress messages.
_Switch(["-quiet", "quiet"],
- "Use sum-of-pairs protein nucleotide profile score"),
- # refine no Input file is already aligned, skip first
- # two iterations and begin tree dependent
- # refinement.
+ "Do not display progress messages"),
+ # refine no Input file is already aligned, skip
+ # first two iterations and begin tree
+ # dependent refinement.
_Switch(["-refine", "refine"],
"Only do tree dependent refinement"),
- # core yes in muscle, Do not catch exceptions.
- # no in muscled.
+ # refinew no Refine an alignment by dividing it
+ # into non-overlapping windows and
+ # re-aligning each window. Typically
+ # used for whole-genome nucleotide
+ # alignments.
+ _Switch(["-refinew", "refinew"],
+ "Only do tree dependent refinement using "
+ "sliding window approach"),
+ # core yes in muscle, Do not catch exceptions.
+ # no in muscled.
_Switch(["-core", "core"],
- "Catch exceptions"),
- # nocore no in muscle, Catch exceptions and give an error message
- # yes in muscled. if possible.
- _Switch(["-nocore", "nocore"],
"Do not catch exceptions"),
- # termgapsfull no Terminal gaps penalized with full penalty.
- # [1] Not fully supported in this version.
+ # nocore no in muscle, Catch exceptions and give an
+ # yes in muscled. error message if possible.
+ _Switch(["-nocore", "nocore"],
+ "Catch exceptions"),
+ # stable no Preserve input order of sequences
+ # in output file. Default is to group
+ # sequences by similarity (group).
+ _Switch(["-stable", "stable"],
+ "Do not group similar sequences in output "
+ "(not supported in v3.8)"),
+
+ # termgaps4 yes Use 4-way test for treatment of
+ # terminal gaps.
+ # (Cannot be disabled in this version).
+ #
+ # termgapsfull no Terminal gaps penalized with
+ # full penalty. [1] Not fully
+ # supported in this version
+ #
+ # termgapshalf yes Terminal gaps penalized with
+ # half penalty. [1] Not fully
+ # supported in this version
#
- # termgapshalf yes Terminal gaps penalized with half penalty.
- # [1] Not fully supported in this version.
+ # termgapshalflonger no Terminal gaps penalized with
+ # half penalty if gap relative
+ # to longer sequence, otherwise with
+ # full penalty. [1] Not fully
+ # supported in this version
#
- # termgapshalflonger no Terminal gaps penalized with half penalty if
- # gap relative to
- # longer sequence, otherwise with full
- # penalty.
- # [1] Not fully supported in this version.
- # verbose no Write parameter settings and progress
- # messages to log file.
+ # verbose no Write parameter settings and
+ # progress messages to log file.
_Switch(["-verbose", "verbose"],
"Write parameter settings and progress"),
- # version no Write version string to stdout and exit.
+ # version no Write version string to
+ # stdout and exit
_Switch(["-version", "version"],
"Write version string to stdout and exit"),
]
diff --git a/Bio/Align/Applications/_Prank.py b/Bio/Align/Applications/_Prank.py
index c0d362d..c10a9ec 100644
--- a/Bio/Align/Applications/_Prank.py
+++ b/Bio/Align/Applications/_Prank.py
@@ -2,8 +2,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment program PRANK.
-"""
+"""Command line wrapper for the multiple alignment program PRANK."""
from __future__ import print_function
@@ -48,6 +47,7 @@ class PrankCommandline(AbstractCommandline):
Last checked against version: 081202
"""
+
def __init__(self, cmd="prank", **kwargs):
OUTPUT_FORMAT_VALUES = list(range(1, 18))
self.parameters = [
@@ -129,9 +129,8 @@ class PrankCommandline(AbstractCommandline):
"Purine/pyrimidine ratio. Default: 1",
checker_function=lambda x: isinstance(x, int)),
# -codon [for DNA: use empirical codon model]
- # Assuming this is an input file as in -m
- _Option(["-codon", "codon"],
- "Codon model filename. Default: empirical codon model"),
+ _Switch(["-codon", "codon"],
+ "Codon aware alignment or not"),
# -termgap [penalise terminal gaps normally]
_Switch(["-termgap", "termgap"],
"Penalise terminal gaps normally"),
diff --git a/Bio/Align/Applications/_Probcons.py b/Bio/Align/Applications/_Probcons.py
index ab3f452..4472ecf 100644
--- a/Bio/Align/Applications/_Probcons.py
+++ b/Bio/Align/Applications/_Probcons.py
@@ -2,8 +2,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Command line wrapper for the multiple alignment program PROBCONS.
-"""
+"""Command line wrapper for the multiple alignment program PROBCONS."""
from __future__ import print_function
@@ -56,6 +55,7 @@ class ProbconsCommandline(AbstractCommandline):
Last checked against version: 1.12
"""
+
def __init__(self, cmd="probcons", **kwargs):
self.parameters = \
[
diff --git a/Bio/Align/Applications/_TCoffee.py b/Bio/Align/Applications/_TCoffee.py
index f872c70..e18b8ad 100644
--- a/Bio/Align/Applications/_TCoffee.py
+++ b/Bio/Align/Applications/_TCoffee.py
@@ -42,6 +42,7 @@ class TCoffeeCommandline(AbstractCommandline):
Last checked against: Version_6.92
"""
+
SEQ_TYPES = ["dna", "protein", "dna_protein"]
def __init__(self, cmd="t_coffee", **kwargs):
diff --git a/Bio/Align/Applications/__init__.py b/Bio/Align/Applications/__init__.py
index 795c507..2f634f7 100644
--- a/Bio/Align/Applications/__init__.py
+++ b/Bio/Align/Applications/__init__.py
@@ -15,7 +15,7 @@ from ._TCoffee import TCoffeeCommandline
from ._MSAProbs import MSAProbsCommandline
# Make this explicit, then they show up in the API docs
-__all__ = ["MuscleCommandline",
+__all__ = ("MuscleCommandline",
"ClustalwCommandline",
"ClustalOmegaCommandline",
"PrankCommandline",
@@ -24,4 +24,4 @@ __all__ = ["MuscleCommandline",
"ProbconsCommandline",
"TCoffeeCommandline",
"MSAProbsCommandline",
- ]
+ )
diff --git a/Bio/Align/Generic.py b/Bio/Align/Generic.py
deleted file mode 100644
index 034229a..0000000
--- a/Bio/Align/Generic.py
+++ /dev/null
@@ -1,452 +0,0 @@
-# Copyright 2000-2004 Brad Chapman.
-# Copyright 2001 Iddo Friedberg.
-# Copyright 2007-2016 by Peter Cock.
-# All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-"""Classes for generic sequence alignment.
-
-Contains classes to deal with generic sequence alignment stuff not
-specific to a particular program or format.
-"""
-from __future__ import print_function
-
-from Bio.Seq import Seq
-from Bio.SeqRecord import SeqRecord
-from Bio import Alphabet
-
-
-class Alignment(object):
- """Represent a set of alignments (DEPRECATED).
-
- This is a base class to represent alignments, which can be subclassed
- to deal with an alignment in a specific format.
-
- With the introduction of the MultipleSeqAlignment class in Bio.Align,
- this base class is deprecated and is likely to be removed in future
- releases of Biopython.
- """
- def __init__(self, alphabet):
- """Initialize a new Alignment object.
-
- Arguments:
- - alphabet - The alphabet to use for the sequence objects that are
- created. This alphabet must be a gapped type.
-
- e.g.
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> print(align)
- Gapped(IUPACUnambiguousDNA(), '-') alignment with 3 rows and 12 columns
- ACTGCTAGCTAG Alpha
- ACT-CTAGCTAG Beta
- ACTGCTAGATAG Gamma
- """
- import warnings
- import Bio
- warnings.warn("With the introduction of the MultipleSeqAlignment "
- "class in Bio.Align, this base class is deprecated "
- "and is likely to be removed in a future release of "
- "Biopython.", Bio.BiopythonDeprecationWarning)
- if not (isinstance(alphabet, Alphabet.Alphabet) or
- isinstance(alphabet, Alphabet.AlphabetEncoder)):
- raise ValueError("Invalid alphabet argument")
- self._alphabet = alphabet
- # hold everything at a list of SeqRecord objects
- self._records = []
-
- def _str_line(self, record, length=50):
- """Returns a truncated string representation of a SeqRecord (PRIVATE).
-
- This is a PRIVATE function used by the __str__ method.
- """
- if record.seq.__class__.__name__ == "CodonSeq":
- if len(record.seq) <= length:
- return "%s %s" % (record.seq, record.id)
- else:
- return "%s...%s %s" \
- % (record.seq[:length - 3], record.seq[-3:], record.id)
- else:
- if len(record.seq) <= length:
- return "%s %s" % (record.seq, record.id)
- else:
- return "%s...%s %s" \
- % (record.seq[:length - 6], record.seq[-3:], record.id)
-
- def __str__(self):
- """Returns a multi-line string summary of the alignment.
-
- This output is intended to be readable, but large alignments are
- shown truncated. A maximum of 20 rows (sequences) and 50 columns
- are shown, with the record identifiers. This should fit nicely on a
- single screen. e.g.
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> print(align)
- Gapped(IUPACUnambiguousDNA(), '-') alignment with 3 rows and 12 columns
- ACTGCTAGCTAG Alpha
- ACT-CTAGCTAG Beta
- ACTGCTAGATAG Gamma
-
- See also the alignment's format method.
- """
- rows = len(self._records)
- lines = ["%s alignment with %i rows and %i columns"
- % (str(self._alphabet), rows, self.get_alignment_length())]
- if rows <= 20:
- lines.extend(self._str_line(rec) for rec in self._records)
- else:
- lines.extend(self._str_line(rec) for rec in self._records[:18])
- lines.append("...")
- lines.append(self._str_line(self._records[-1]))
- return "\n".join(lines)
-
- def __repr__(self):
- """Returns a representation of the object for debugging.
-
- The representation cannot be used with eval() to recreate the object,
- which is usually possible with simple python ojects. For example:
-
- <Bio.Align.Generic.Alignment instance (2 records of length 14,
- SingleLetterAlphabet()) at a3c184c>
-
- The hex string is the memory address of the object, see help(id).
- This provides a simple way to visually distinguish alignments of
- the same size.
- """
- # A doctest for __repr__ would be nice, but __class__ comes out differently
- # if run via the __main__ trick.
- return "<%s instance (%i records of length %i, %s) at %x>" % \
- (self.__class__, len(self._records),
- self.get_alignment_length(), repr(self._alphabet), id(self))
- # This version is useful for doing eval(repr(alignment)),
- # but it can be VERY long:
- # return "%s(%s, %s)" \
- # % (self.__class__, repr(self._records), repr(self._alphabet))
-
- def format(self, format):
- """Returns the alignment as a string in the specified file format.
-
- The format should be a lower case string supported as an output
- format by Bio.AlignIO (such as "fasta", "clustal", "phylip",
- "stockholm", etc), which is used to turn the alignment into a
- string.
-
- e.g.
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> print(align.format("fasta"))
- >Alpha
- ACTGCTAGCTAG
- >Beta
- ACT-CTAGCTAG
- >Gamma
- ACTGCTAGATAG
- <BLANKLINE>
- >>> print(align.format("phylip"))
- 3 12
- Alpha ACTGCTAGCT AG
- Beta ACT-CTAGCT AG
- Gamma ACTGCTAGAT AG
- <BLANKLINE>
-
- For Python 2.6, 3.0 or later see also the built in format() function.
- """
- # See also the __format__ added for Python 2.6 / 3.0, PEP 3101
- # See also the SeqRecord class and its format() method using Bio.SeqIO
- return self.__format__(format)
-
- def __format__(self, format_spec):
- """Returns the alignment as a string in the specified file format.
-
- This method supports the python format() function added in
- Python 2.6/3.0. The format_spec should be a lower case
- string supported by Bio.AlignIO as an output file format.
- See also the alignment's format() method."""
- if format_spec:
- from Bio._py3k import StringIO
- from Bio import AlignIO
- handle = StringIO()
- AlignIO.write([self], handle, format_spec)
- return handle.getvalue()
- else:
- # Follow python convention and default to using __str__
- return str(self)
-
- def get_all_seqs(self):
- """Return all of the sequences involved in the alignment (DEPRECATED).
-
- The return value is a list of SeqRecord objects.
-
- This method is deprecated, as the Alignment object itself now offers
- much of the functionality of a list of SeqRecord objects (e.g.
- iteration or slicing to create a sub-alignment). Instead use the
- Python builtin function list, i.e. my_list = list(my_align)
- """
- import warnings
- import Bio
- warnings.warn("This method is deprecated, since the alignment object"
- "now acts more like a list. Instead of calling "
- "align.get_all_seqs() you can use list(align)",
- Bio.BiopythonDeprecationWarning)
- return self._records
-
- def __iter__(self):
- """Iterate over alignment rows as SeqRecord objects.
-
- e.g.
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> for record in align:
- ... print(record.id)
- ... print(record.seq)
- Alpha
- ACTGCTAGCTAG
- Beta
- ACT-CTAGCTAG
- Gamma
- ACTGCTAGATAG
- """
- return iter(self._records)
-
- def get_seq_by_num(self, number):
- """Retrieve a sequence by row number (DEPRECATED).
-
- Returns:
- - A Seq object for the requested sequence.
-
- Raises:
- - IndexError - If the specified number is out of range.
-
- NOTE: This is a legacy method. In new code where you need to access
- the rows of the alignment (i.e. the sequences) consider iterating
- over them or accessing them as SeqRecord objects.
- """
- import warnings
- import Bio
- warnings.warn("This is a legacy method and is likely to be removed "
- "in a future release of Biopython. In new code where "
- "you need to access the rows of the alignment (i.e. the "
- "sequences) consider iterating over them or accessing "
- "them as SeqRecord objects.",
- Bio.BiopythonDeprecationWarning)
- return self._records[number].seq
-
- def __len__(self):
- """Returns the number of sequences in the alignment.
-
- Use len(alignment) to get the number of sequences (i.e. the number of
- rows), and alignment.get_alignment_length() to get the length of the
- longest sequence (i.e. the number of columns).
-
- This is easy to remember if you think of the alignment as being like a
- list of SeqRecord objects.
- """
- return len(self._records)
-
- def get_alignment_length(self):
- """Return the maximum length of the alignment.
-
- All objects in the alignment should (hopefully) have the same
- length. This function will go through and find this length
- by finding the maximum length of sequences in the alignment.
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> align.get_alignment_length()
- 12
-
- If you want to know the number of sequences in the alignment,
- use len(align) instead:
-
- >>> len(align)
- 3
-
- """
- max_length = 0
-
- for record in self._records:
- if len(record.seq) > max_length:
- max_length = len(record.seq)
-
- return max_length
-
- def add_sequence(self, descriptor, sequence, start=None, end=None,
- weight=1.0):
- """Add a sequence to the alignment.
-
- This doesn't do any kind of alignment, it just adds in the sequence
- object, which is assumed to be prealigned with the existing
- sequences.
-
- Arguments:
- - descriptor - The descriptive id of the sequence being added.
- This will be used as the resulting SeqRecord's
- .id property (and, for historical compatibility,
- also the .description property)
- - sequence - A string with sequence info.
- - start - You can explicitly set the start point of the sequence.
- This is useful (at least) for BLAST alignments, which can
- just be partial alignments of sequences.
- - end - Specify the end of the sequence, which is important
- for the same reason as the start.
- - weight - The weight to place on the sequence in the alignment.
- By default, all sequences have the same weight. (0.0 =>
- no weight, 1.0 => highest weight)
- """
- new_seq = Seq(sequence, self._alphabet)
-
- # We are now effectively using the SeqRecord's .id as
- # the primary identifier (e.g. in Bio.SeqIO) so we should
- # populate it with the descriptor.
- # For backwards compatibility, also store this in the
- # SeqRecord's description property.
- new_record = SeqRecord(new_seq,
- id=descriptor,
- description=descriptor)
-
- # hack! We really need to work out how to deal with annotations
- # and features in biopython. Right now, I'll just use the
- # generic annotations dictionary we've got to store the start
- # and end, but we should think up something better. I don't know
- # if I'm really a big fan of the LocatableSeq thing they've got
- # in BioPerl, but I'm not positive what the best thing to do on
- # this is...
- if start:
- new_record.annotations['start'] = start
- if end:
- new_record.annotations['end'] = end
-
- # another hack to add weight information to the sequence
- new_record.annotations['weight'] = weight
-
- self._records.append(new_record)
-
- def get_column(self, col):
- """Returns a string containing a given column.
-
- e.g.
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> align.get_column(0)
- 'AAA'
- >>> align.get_column(3)
- 'G-G'
- """
- # TODO - Support negative indices?
- col_str = ''
- assert col >= 0 and col <= self.get_alignment_length()
- for rec in self._records:
- col_str += rec.seq[col]
- return col_str
-
- def __getitem__(self, index):
- """Access part of the alignment.
-
- We'll use the following example alignment here for illustration:
-
- >>> from Bio.Alphabet import IUPAC, Gapped
- >>> from Bio.Align.Generic import Alignment
- >>> align = Alignment(Gapped(IUPAC.unambiguous_dna, "-"))
- >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
- >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
- >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
- >>> align.add_sequence("Delta", "ACTGCTTGCTAG")
- >>> align.add_sequence("Epsilon", "ACTGCTTGATAG")
-
- You can access a row of the alignment as a SeqRecord using an integer
- index (think of the alignment as a list of SeqRecord objects here):
-
- >>> first_record = align[0]
- >>> print("%s %s" % (first_record.id, first_record.seq))
- Alpha ACTGCTAGCTAG
- >>> last_record = align[-1]
- >>> print("%s %s" % (last_record.id, last_record.seq))
- Epsilon ACTGCTTGATAG
-
- You can also access use python's slice notation to create a sub-alignment
- containing only some of the SeqRecord objects:
-
- >>> sub_alignment = align[2:5]
- >>> print(sub_alignment)
- Gapped(IUPACUnambiguousDNA(), '-') alignment with 3 rows and 12 columns
- ACTGCTAGATAG Gamma
- ACTGCTTGCTAG Delta
- ACTGCTTGATAG Epsilon
-
- This includes support for a step, i.e. align[start:end:step], which
- can be used to select every second sequence:
-
- >>> sub_alignment = align[::2]
- >>> print(sub_alignment)
- Gapped(IUPACUnambiguousDNA(), '-') alignment with 3 rows and 12 columns
- ACTGCTAGCTAG Alpha
- ACTGCTAGATAG Gamma
- ACTGCTTGATAG Epsilon
-
- Or to get a copy of the alignment with the rows in reverse order:
-
- >>> rev_alignment = align[::-1]
- >>> print(rev_alignment)
- Gapped(IUPACUnambiguousDNA(), '-') alignment with 5 rows and 12 columns
- ACTGCTTGATAG Epsilon
- ACTGCTTGCTAG Delta
- ACTGCTAGATAG Gamma
- ACT-CTAGCTAG Beta
- ACTGCTAGCTAG Alpha
-
- Right now, these are the ONLY indexing operations supported. The use of
- a second column based index is under discussion for a future update.
- """
- if isinstance(index, int):
- # e.g. result = align[x]
- # Return a SeqRecord
- return self._records[index]
- elif isinstance(index, slice):
- # e.g. sub_aling = align[i:j:k]
- # Return a new Alignment using only the specified records.
- # TODO - See Bug 2554 for changing the __init__ method
- # to allow us to do this more cleanly.
- sub_align = Alignment(self._alphabet)
- sub_align._records = self._records[index]
- return sub_align
- elif len(index) == 2:
- raise TypeError("Row and Column indexing is not currently supported,"
- "but may be in future.")
- else:
- raise TypeError("Invalid index type.")
-
-
-if __name__ == "__main__":
- from Bio._utils import run_doctest
- run_doctest()
diff --git a/Bio/Align/__init__.py b/Bio/Align/__init__.py
index 7bdcc92..dba0395 100644
--- a/Bio/Align/__init__.py
+++ b/Bio/Align/__init__.py
@@ -15,11 +15,8 @@ from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
from Bio import Alphabet
-# We only import this and subclass it for some limited backward compatibility.
-from Bio.Align.Generic import Alignment as _Alignment
-
-class MultipleSeqAlignment(_Alignment):
+class MultipleSeqAlignment(object):
"""Represents a classical multiple sequence alignment (MSA).
By this we mean a collection of sequences (usually shown as rows) which
@@ -96,9 +93,8 @@ class MultipleSeqAlignment(_Alignment):
TATACATTAAGTATACCAGA gi|6273289|gb|AF191663.1|AF191
TATACATTAAGTGTACCAGA gi|6273291|gb|AF191665.1|AF191
- Note - This object is intended to replace the existing Alignment object
- defined in module Bio.Align.Generic but is not fully backwards compatible
- with it.
+ Note - This object replaced the older Alignment object defined in module
+ Bio.Align.Generic but is not fully backwards compatible with it.
Note - This object does NOT attempt to model the kind of alignments used
in next generation sequencing with multiple sequencing reads which are
@@ -184,6 +180,254 @@ class MultipleSeqAlignment(_Alignment):
raise TypeError("annotations argument should be a dict")
self.annotations = annotations
+ def _str_line(self, record, length=50):
+ """Return a truncated string representation of a SeqRecord (PRIVATE).
+
+ This is a PRIVATE function used by the __str__ method.
+ """
+ if record.seq.__class__.__name__ == "CodonSeq":
+ if len(record.seq) <= length:
+ return "%s %s" % (record.seq, record.id)
+ else:
+ return "%s...%s %s" \
+ % (record.seq[:length - 3], record.seq[-3:], record.id)
+ else:
+ if len(record.seq) <= length:
+ return "%s %s" % (record.seq, record.id)
+ else:
+ return "%s...%s %s" \
+ % (record.seq[:length - 6], record.seq[-3:], record.id)
+
+ def __str__(self):
+ """Return a multi-line string summary of the alignment.
+
+ This output is intended to be readable, but large alignments are
+ shown truncated. A maximum of 20 rows (sequences) and 50 columns
+ are shown, with the record identifiers. This should fit nicely on a
+ single screen. e.g.
+
+ >>> from Bio.Alphabet import IUPAC, Gapped
+ >>> from Bio.Align import MultipleSeqAlignment
+ >>> align = MultipleSeqAlignment([], Gapped(IUPAC.unambiguous_dna, "-"))
+ >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
+ >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
+ >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
+ >>> print(align)
+ Gapped(IUPACUnambiguousDNA(), '-') alignment with 3 rows and 12 columns
+ ACTGCTAGCTAG Alpha
+ ACT-CTAGCTAG Beta
+ ACTGCTAGATAG Gamma
+
+ See also the alignment's format method.
+ """
+ rows = len(self._records)
+ lines = ["%s alignment with %i rows and %i columns"
+ % (str(self._alphabet), rows, self.get_alignment_length())]
+ if rows <= 20:
+ lines.extend(self._str_line(rec) for rec in self._records)
+ else:
+ lines.extend(self._str_line(rec) for rec in self._records[:18])
+ lines.append("...")
+ lines.append(self._str_line(self._records[-1]))
+ return "\n".join(lines)
+
+ def __repr__(self):
+ """Return a representation of the object for debugging.
+
+ The representation cannot be used with eval() to recreate the object,
+ which is usually possible with simple python ojects. For example:
+
+ <Bio.Align.MultipleSeqAlignment instance (2 records of length 14,
+ SingleLetterAlphabet()) at a3c184c>
+
+ The hex string is the memory address of the object, see help(id).
+ This provides a simple way to visually distinguish alignments of
+ the same size.
+ """
+ # A doctest for __repr__ would be nice, but __class__ comes out differently
+ # if run via the __main__ trick.
+ return "<%s instance (%i records of length %i, %s) at %x>" % \
+ (self.__class__, len(self._records),
+ self.get_alignment_length(), repr(self._alphabet), id(self))
+ # This version is useful for doing eval(repr(alignment)),
+ # but it can be VERY long:
+ # return "%s(%s, %s)" \
+ # % (self.__class__, repr(self._records), repr(self._alphabet))
+
+ def format(self, format):
+ """Return the alignment as a string in the specified file format.
+
+ The format should be a lower case string supported as an output
+ format by Bio.AlignIO (such as "fasta", "clustal", "phylip",
+ "stockholm", etc), which is used to turn the alignment into a
+ string.
+
+ e.g.
+
+ >>> from Bio.Alphabet import IUPAC, Gapped
+ >>> from Bio.Align import MultipleSeqAlignment
+ >>> align = MultipleSeqAlignment([], Gapped(IUPAC.unambiguous_dna, "-"))
+ >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
+ >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
+ >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
+ >>> print(align.format("fasta"))
+ >Alpha
+ ACTGCTAGCTAG
+ >Beta
+ ACT-CTAGCTAG
+ >Gamma
+ ACTGCTAGATAG
+ <BLANKLINE>
+ >>> print(align.format("phylip"))
+ 3 12
+ Alpha ACTGCTAGCT AG
+ Beta ACT-CTAGCT AG
+ Gamma ACTGCTAGAT AG
+ <BLANKLINE>
+
+ For Python 2.6, 3.0 or later see also the built in format() function.
+ """
+ # See also the __format__ added for Python 2.6 / 3.0, PEP 3101
+ # See also the SeqRecord class and its format() method using Bio.SeqIO
+ return self.__format__(format)
+
+ def __format__(self, format_spec):
+ """Return the alignment as a string in the specified file format.
+
+ This method supports the python format() function added in
+ Python 2.6/3.0. The format_spec should be a lower case
+ string supported by Bio.AlignIO as an output file format.
+ See also the alignment's format() method.
+ """
+ if format_spec:
+ from Bio._py3k import StringIO
+ from Bio import AlignIO
+ handle = StringIO()
+ AlignIO.write([self], handle, format_spec)
+ return handle.getvalue()
+ else:
+ # Follow python convention and default to using __str__
+ return str(self)
+
+ def __iter__(self):
+ """Iterate over alignment rows as SeqRecord objects.
+
+ e.g.
+
+ >>> from Bio.Alphabet import IUPAC, Gapped
+ >>> from Bio.Align import MultipleSeqAlignment
+ >>> align = MultipleSeqAlignment([], Gapped(IUPAC.unambiguous_dna, "-"))
+ >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
+ >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
+ >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
+ >>> for record in align:
+ ... print(record.id)
+ ... print(record.seq)
+ Alpha
+ ACTGCTAGCTAG
+ Beta
+ ACT-CTAGCTAG
+ Gamma
+ ACTGCTAGATAG
+ """
+ return iter(self._records)
+
+ def __len__(self):
+ """Return the number of sequences in the alignment.
+
+ Use len(alignment) to get the number of sequences (i.e. the number of
+ rows), and alignment.get_alignment_length() to get the length of the
+ longest sequence (i.e. the number of columns).
+
+ This is easy to remember if you think of the alignment as being like a
+ list of SeqRecord objects.
+ """
+ return len(self._records)
+
+ def get_alignment_length(self):
+ """Return the maximum length of the alignment.
+
+ All objects in the alignment should (hopefully) have the same
+ length. This function will go through and find this length
+ by finding the maximum length of sequences in the alignment.
+
+ >>> from Bio.Alphabet import IUPAC, Gapped
+ >>> from Bio.Align import MultipleSeqAlignment
+ >>> align = MultipleSeqAlignment([], Gapped(IUPAC.unambiguous_dna, "-"))
+ >>> align.add_sequence("Alpha", "ACTGCTAGCTAG")
+ >>> align.add_sequence("Beta", "ACT-CTAGCTAG")
+ >>> align.add_sequence("Gamma", "ACTGCTAGATAG")
+ >>> align.get_alignment_length()
+ 12
+
+ If you want to know the number of sequences in the alignment,
+ use len(align) instead:
+
+ >>> len(align)
+ 3
+
+ """
+ max_length = 0
+
+ for record in self._records:
+ if len(record.seq) > max_length:
+ max_length = len(record.seq)
+
+ return max_length
+
+ def add_sequence(self, descriptor, sequence, start=None, end=None,
+ weight=1.0):
+ """Add a sequence to the alignment.
+
+ This doesn't do any kind of alignment, it just adds in the sequence
+ object, which is assumed to be prealigned with the existing
+ sequences.
+
+ Arguments:
+ - descriptor - The descriptive id of the sequence being added.
+ This will be used as the resulting SeqRecord's
+ .id property (and, for historical compatibility,
+ also the .description property)
+ - sequence - A string with sequence info.
+ - start - You can explicitly set the start point of the sequence.
+ This is useful (at least) for BLAST alignments, which can
+ just be partial alignments of sequences.
+ - end - Specify the end of the sequence, which is important
+ for the same reason as the start.
+ - weight - The weight to place on the sequence in the alignment.
+ By default, all sequences have the same weight. (0.0 =>
+ no weight, 1.0 => highest weight)
+
+ In general providing a SeqRecord and calling .append is prefered.
+ """
+ new_seq = Seq(sequence, self._alphabet)
+
+ # We are now effectively using the SeqRecord's .id as
+ # the primary identifier (e.g. in Bio.SeqIO) so we should
+ # populate it with the descriptor.
+ # For backwards compatibility, also store this in the
+ # SeqRecord's description property.
+ new_record = SeqRecord(new_seq,
+ id=descriptor,
+ description=descriptor)
+
+ # hack! We really need to work out how to deal with annotations
+ # and features in biopython. Right now, I'll just use the
+ # generic annotations dictionary we've got to store the start
+ # and end, but we should think up something better. I don't know
+ # if I'm really a big fan of the LocatableSeq thing they've got
+ # in BioPerl, but I'm not positive what the best thing to do on
+ # this is...
+ if start:
+ new_record.annotations['start'] = start
+ if end:
+ new_record.annotations['end'] = end
+
+ # another hack to add weight information to the sequence
+ new_record.annotations['weight'] = weight
+
+ self._records.append(new_record)
+
def extend(self, records):
"""Add more SeqRecord objects to the alignment as rows.
@@ -292,7 +536,7 @@ class MultipleSeqAlignment(_Alignment):
self._append(record)
def _append(self, record, expected_length=None):
- """Helper function (PRIVATE)."""
+ """Validate and append a record (PRIVATE)."""
if not isinstance(record, SeqRecord):
raise TypeError("New sequence is not a SeqRecord object")
@@ -312,7 +556,7 @@ class MultipleSeqAlignment(_Alignment):
self._records.append(record)
def __add__(self, other):
- """Combines two alignments with the same number of rows by adding them.
+ """Combine two alignments with the same number of rows by adding them.
If you have two multiple sequence alignments (MSAs), there are two ways to think
about adding them - by row or by column. Using the extend method adds by row.
@@ -605,52 +849,6 @@ class MultipleSeqAlignment(_Alignment):
else:
self._records.sort(key=key, reverse=reverse)
- def get_column(self, col):
- """Returns a string containing a given column (DEPRECATED).
-
- This is a method provided for backwards compatibility with the old
- Bio.Align.Generic.Alignment object. Please use the slice notation
- instead, since get_column is likely to be removed in a future release
- of Biopython..
- """
- import warnings
- from Bio import BiopythonDeprecationWarning
- warnings.warn("This method is deprecated and is provided for backwards "
- "compatibility with the old Bio.Align.Generic.Alignment "
- "object. Please use the slice notation instead, as "
- "get_column is likely to be removed in a future release "
- "of Biopython.", BiopythonDeprecationWarning)
- return _Alignment.get_column(self, col)
-
- def add_sequence(self, descriptor, sequence, start=None, end=None,
- weight=1.0):
- """Add a sequence to the alignment (DEPRECATED).
-
- The start, end, and weight arguments are not supported! This method
- only provides limited backwards compatibility with the old
- Bio.Align.Generic.Alignment object. Please use the append method with
- a SeqRecord instead, since add_sequence is likely to be removed in a
- future release of Biopython.
- """
- import warnings
- from Bio import BiopythonDeprecationWarning
- warnings.warn("The start, end, and weight arguments are not supported! "
- "This method only provides limited backwards "
- "compatibility with the old Bio.Align.Generic.Alignment "
- "object. Please use the append method with a SeqRecord "
- "instead, as the add_sequence method is likely to be "
- "removed in a future release of Biopython.",
- BiopythonDeprecationWarning)
- # Should we handle start/end/strand information somehow? What for?
- # TODO - Should we handle weights somehow? See also AlignInfo code...
- if start is not None or end is not None or weight != 1.0:
- raise ValueError("The add_Sequence method is obsolete, and only "
- "provides limited backwards compatibily. The"
- "start, end and weight arguments are not "
- "supported.")
- self.append(SeqRecord(Seq(sequence, self._alphabet),
- id=descriptor, description=descriptor))
-
if __name__ == "__main__":
from Bio._utils import run_doctest
diff --git a/Bio/AlignIO/ClustalIO.py b/Bio/AlignIO/ClustalIO.py
index 4ff63ff..d01c742 100644
--- a/Bio/AlignIO/ClustalIO.py
+++ b/Bio/AlignIO/ClustalIO.py
@@ -1,8 +1,9 @@
# Copyright 2006-2016 by Peter Cock. All rights reserved.
#
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
"""Bio.AlignIO support for "clustal" output from CLUSTAL W and other tools.
You are expected to use this module via the Bio.AlignIO functions (or the
@@ -22,7 +23,6 @@ class ClustalWriter(SequentialAlignmentWriter):
def write_alignment(self, alignment):
"""Use this to write (another) single alignment to an open file."""
-
if len(alignment) == 0:
raise ValueError("Must have at least one sequence")
if alignment.get_alignment_length() == 0:
diff --git a/Bio/AlignIO/EmbossIO.py b/Bio/AlignIO/EmbossIO.py
index d395fe3..84ee8f7 100644
--- a/Bio/AlignIO/EmbossIO.py
+++ b/Bio/AlignIO/EmbossIO.py
@@ -1,8 +1,9 @@
-# Copyright 2008-2013 by Peter Cock. All rights reserved.
+# Copyright 2008-2016 by Peter Cock. All rights reserved.
#
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
"""Bio.AlignIO support for "emboss" alignment output from EMBOSS tools.
You are expected to use this module via the Bio.AlignIO functions (or the
@@ -93,6 +94,7 @@ class EmbossIterator(AlignmentIterator):
number_of_seqs = None
ids = []
seqs = []
+ header_dict = {}
while line[0] == "#":
# Read in the rest of this alignment header,
@@ -113,6 +115,16 @@ class EmbossIterator(AlignmentIterator):
if key == "length":
length_of_seqs = int(parts[1].strip())
+ # Parse the rest of the header
+ if key == 'identity':
+ header_dict['identity'] = int(parts[1].strip().split('/')[0])
+ if key == 'similarity':
+ header_dict['similarity'] = int(parts[1].strip().split('/')[0])
+ if key == 'gaps':
+ header_dict['gaps'] = int(parts[1].strip().split('/')[0])
+ if key == 'score':
+ header_dict['score'] = float(parts[1].strip())
+
# And read in another line...
line = handle.readline()
@@ -221,4 +233,4 @@ class EmbossIterator(AlignmentIterator):
"old version of EMBOSS.")
records.append(SeqRecord(Seq(seq, self.alphabet),
id=id, description=id))
- return MultipleSeqAlignment(records, self.alphabet)
+ return MultipleSeqAlignment(records, self.alphabet, annotations=header_dict)
diff --git a/Bio/AlignIO/FastaIO.py b/Bio/AlignIO/FastaIO.py
index eb153c8..3888028 100644
--- a/Bio/AlignIO/FastaIO.py
+++ b/Bio/AlignIO/FastaIO.py
@@ -29,7 +29,9 @@ from Bio.Alphabet import Gapped
def _extract_alignment_region(alignment_seq_with_flanking, annotation):
- """Helper function for the main parsing code (PRIVATE).
+ """Extract alignment region (PRIVATE).
+
+ Helper function for the main parsing code.
To get the actual pairwise alignment sequences, we must first
translate the un-gapped sequence based coordinates into positions
@@ -138,6 +140,7 @@ def FastaM10Iterator(handle, alphabet=single_letter_alphabet):
alignment = MultipleSeqAlignment([], alphabet)
# TODO - Introduce an annotated alignment class?
+ # See also Bio/AlignIO/MafIO.py for same requirement.
# For now, store the annotation a new private property:
alignment._annotations = {}
@@ -605,19 +608,3 @@ Function used was FASTA [version 34.26 January 12, 2007]
print("%s %s %i" % (r.seq, r.id, r.annotations["original_length"]))
# print(a.annotations)
print("Done")
-
- import os
- path = "../../Tests/Fasta/"
- files = sorted(f for f in os.listdir(path) if os.path.splitext(f)[-1] == ".m10")
- for filename in files:
- if os.path.splitext(filename)[-1] == ".m10":
- print("")
- print(filename)
- print("=" * len(filename))
- for i, a in enumerate(FastaM10Iterator(open(os.path.join(path, filename)))):
- print("#%i, %s" % (i + 1, a))
- for r in a:
- if "-" in r.seq:
- assert r.seq.alphabet.gap_char == "-"
- else:
- assert not hasattr(r.seq.alphabet, "gap_char")
diff --git a/Bio/AlignIO/Interfaces.py b/Bio/AlignIO/Interfaces.py
index 2493155..8107446 100644
--- a/Bio/AlignIO/Interfaces.py
+++ b/Bio/AlignIO/Interfaces.py
@@ -22,21 +22,23 @@ class AlignmentIterator(object):
objects. You may wish to redefine the __init__
method as well.
"""
+
# TODO - Should the default be Gapped(single_letter_alphabet) instead?
def __init__(self, handle, seq_count=None,
alphabet=single_letter_alphabet):
"""Create an AlignmentIterator object.
- - handle - input file
- - count - optional, expected number of records per alignment
- Recommend for fasta file format.
- - alphabet - optional, e.g. Bio.Alphabet.generic_protein
+ Arguments:
+ - handle - input file
+ - count - optional, expected number of records per alignment
+ Recommend for fasta file format.
+ - alphabet - optional, e.g. Bio.Alphabet.generic_protein
Note when subclassing:
- - there should be a single non-optional argument, the handle,
- and optional count and alphabet IN THAT ORDER.
- - you do not have to require an alphabet (?).
- - you can add additional optional arguments.
+ - there should be a single non-optional argument, the handle,
+ and optional count and alphabet IN THAT ORDER.
+ - you do not have to require an alphabet (?).
+ - you can add additional optional arguments.
"""
self.handle = handle
@@ -52,7 +54,8 @@ class AlignmentIterator(object):
"""Return the next alignment in the file.
This method should be replaced by any derived class to do something
- useful."""
+ useful.
+ """
raise NotImplementedError("This object should be subclassed")
#####################################################
# You SHOULD subclass this, to split the file up #
@@ -76,6 +79,7 @@ class AlignmentIterator(object):
for record in alignment:
print record.id
print record.seq
+
"""
return iter(self.__next__, None)
@@ -84,7 +88,8 @@ class AlignmentWriter(object):
"""Base class for building MultipleSeqAlignment writers.
You should write a write_alignment() method.
- You may wish to redefine the __init__ method as well"""
+ You may wish to redefine the __init__ method as well.
+ """
def __init__(self, handle):
self.handle = handle
@@ -92,12 +97,14 @@ class AlignmentWriter(object):
def write_file(self, alignments):
"""Use this to write an entire file containing the given alignments.
- alignments - A list or iterator returning MultipleSeqAlignment objects
+ Arguments:
+ - alignments - A list or iterator returning MultipleSeqAlignment objects
In general, this method can only be called once per file.
This method should be replaced by any derived class to do something
- useful. It should return the number of alignments"""
+ useful. It should return the number of alignments..
+ """
raise NotImplementedError("This object should be subclassed")
#####################################################
# You SHOULD subclass this, to write the alignment #
@@ -114,7 +121,8 @@ class SequentialAlignmentWriter(AlignmentWriter):
This assumes each alignment can be simply appended to the file.
You should write a write_alignment() method.
- You may wish to redefine the __init__ method as well"""
+ You may wish to redefine the __init__ method as well.
+ """
def __init__(self, handle):
self.handle = handle
@@ -122,9 +130,11 @@ class SequentialAlignmentWriter(AlignmentWriter):
def write_file(self, alignments):
"""Use this to write an entire file containing the given alignments.
- alignments - A list or iterator returning MultipleSeqAlignment objects
+ Arguments:
+ - alignments - A list or iterator returning MultipleSeqAlignment objects
- In general, this method can only be called once per file."""
+ In general, this method can only be called once per file.
+ """
self.write_header()
count = 0
for alignment in alignments:
@@ -137,21 +147,24 @@ class SequentialAlignmentWriter(AlignmentWriter):
"""Use this to write any header.
This method should be replaced by any derived class to do something
- useful."""
+ useful.
+ """
pass
def write_footer(self):
"""Use this to write any footer.
This method should be replaced by any derived class to do something
- useful."""
+ useful.
+ """
pass
def write_alignment(self, alignment):
"""Use this to write a single alignment.
This method should be replaced by any derived class to do something
- useful."""
+ useful.
+ """
raise NotImplementedError("This object should be subclassed")
#####################################################
# You SHOULD subclass this, to write the alignment #
diff --git a/Bio/AlignIO/MafIO.py b/Bio/AlignIO/MafIO.py
new file mode 100644
index 0000000..0c5616c
--- /dev/null
+++ b/Bio/AlignIO/MafIO.py
@@ -0,0 +1,718 @@
+# Copyright 2011, 2012 by Andrew Sczesnak. All rights reserved.
+# Revisions Copyright 2011, 2017 by Peter Cock. All rights reserved.
+# Revisions Copyright 2014, 2015 by Adam Novak. All rights reserved.
+# Revisions Copyright 2015, 2017 by Blaise Li. All rights reserved.
+#
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+"""Bio.AlignIO support for the "maf" multiple alignment format.
+
+The Multiple Alignment Format, described by UCSC, stores a series of
+multiple alignments in a single file. It is suitable for whole-genome
+to whole-genome alignments, metadata such as source chromosome, start
+position, size, and strand can be stored.
+
+See http://genome.ucsc.edu/FAQ/FAQformat.html#format5
+
+You are expected to use this module via the Bio.AlignIO functions(or the
+Bio.SeqIO functions if you want to work directly with the gapped sequences).
+
+Coordinates in the MAF format are defined in terms of zero-based start
+positions (like Python) and aligning region sizes.
+
+A minimal aligned region of length one and starting at first position in the
+source sequence would have ``start == 0`` and ``size == 1``.
+
+As we can see on this example, ``start + size`` will give one more than the
+zero-based end position. We can therefore manipulate ``start`` and
+``start + size`` as python list slice boundaries.
+
+For an inclusive end coordinate, we need to use ``end = start + size - 1``.
+A 1-column wide alignment would have ``start == end``.
+"""
+import os
+from itertools import islice
+
+try:
+ from sqlite3 import dbapi2 as _sqlite
+except ImportError:
+ # Not present on Jython, but should be included in Python 2.5
+ # or later (unless compiled from source without its dependencies)
+ # Still want to offer simple parsing/output
+ _sqlite = None
+
+from Bio.Alphabet import single_letter_alphabet
+from Bio.Seq import Seq
+from Bio.SeqRecord import SeqRecord
+from Bio.Align import MultipleSeqAlignment
+from .Interfaces import SequentialAlignmentWriter
+
+MAFINDEX_VERSION = 1
+
+
+class MafWriter(SequentialAlignmentWriter):
+ """Accepts a MultipleSeqAlignment object, writes a MAF file."""
+
+ def write_header(self):
+ """Write the MAF header."""
+ self.handle.write("##maf version=1 scoring=none\n")
+ self.handle.write("# generated by Biopython\n\n")
+
+ def _write_record(self, record):
+ """Write a single SeqRecord object to an 's' line in a MAF block (PRIVATE)."""
+ # convert biopython-style 1/-1 strand to MAF-style +/- strand
+ if record.annotations.get("strand") == 1:
+ strand = "+"
+ elif record.annotations.get("strand") == -1:
+ strand = "-"
+ else:
+ # TODO: issue warning?
+ strand = "+"
+
+ fields = ["s",
+ # In the MAF file format, spaces are not allowed in the id
+ "%-40s" % record.id.replace(" ", "_"),
+ "%15s" % record.annotations.get("start", 0),
+ "%5s" % record.annotations.get("size", len(str(record.seq).replace("-", ""))),
+ strand,
+ "%15s" % record.annotations.get("srcSize", 0),
+ str(record.seq)]
+ self.handle.write("%s\n" % " ".join(fields))
+
+ def write_alignment(self, alignment):
+ """Write a complete alignment to a MAF block.
+
+ Writes every SeqRecord in a MultipleSeqAlignment object to its own
+ MAF block (beginning with an 'a' line, containing 's' lines).
+ """
+ if not isinstance(alignment, MultipleSeqAlignment):
+ raise TypeError("Expected an alignment object")
+
+ if len(set([len(x) for x in alignment])) > 1:
+ raise ValueError("Sequences must all be the same length")
+
+ # We allow multiple sequences with the same IDs; for example, there may
+ # be a MAF aligning the + and - strands of the same sequence together.
+
+ # for now, use ._annotations private property, but restrict keys to those
+ # specifically supported by the MAF format, according to spec
+ try:
+ anno = " ".join(["%s=%s" % (x, y)
+ for x, y in alignment._annotations.items()
+ if x in ("score", "pass")])
+ except AttributeError:
+ anno = "score=0.00"
+
+ self.handle.write("a %s\n" % (anno,))
+
+ recs_out = 0
+
+ for record in alignment:
+ self._write_record(record)
+
+ recs_out += 1
+
+ self.handle.write("\n")
+
+ return recs_out
+
+
+# Invalid function name according to pylint, but kept for compatibility
+# with Bio* conventions.
+def MafIterator(handle, seq_count=None, alphabet=single_letter_alphabet):
+ """Iterate over a MAF file handle as MultipleSeqAlignment objects.
+
+ Iterates over lines in a MAF file-like object (handle), yielding
+ MultipleSeqAlignment objects. SeqRecord IDs generally correspond to
+ species names.
+ """
+ in_a_bundle = False
+
+ annotations = []
+ records = []
+
+ while True:
+ # allows parsing of the last bundle without duplicating code
+ try:
+ line = next(handle)
+ except StopIteration:
+ line = ""
+
+ if in_a_bundle:
+ if line.startswith("s"):
+ # add a SeqRecord to the bundle
+ line_split = line.strip().split()
+
+ if len(line_split) != 7:
+ raise ValueError("Error parsing alignment - 's' line must have 7 fields")
+
+ # convert MAF-style +/- strand to biopython-type 1/-1
+ if line_split[4] == "+":
+ strand = 1
+ elif line_split[4] == "-":
+ strand = -1
+ else:
+ # TODO: issue warning, set to 0?
+ strand = 1
+
+ # s (literal), src (ID), start, size, strand, srcSize, text (sequence)
+ anno = {"start": int(line_split[2]),
+ "size": int(line_split[3]),
+ "strand": strand,
+ "srcSize": int(line_split[5])}
+
+ sequence = line_split[6]
+
+ # interpret a dot/period to mean the same as the first sequence
+ if "." in sequence:
+ if not records:
+ raise ValueError("Found dot/period in first sequence of alignment")
+
+ ref = str(records[0].seq)
+ new = []
+
+ for (letter, ref_letter) in zip(sequence, ref):
+ new.append(ref_letter if letter == "." else letter)
+
+ sequence = "".join(new)
+
+ records.append(SeqRecord(Seq(sequence, alphabet),
+ id=line_split[1],
+ name=line_split[1],
+ description="",
+ annotations=anno))
+ elif line.startswith("i"):
+ # TODO: information about what is in the aligned species DNA before
+ # and after the immediately preceding "s" line
+ pass
+ elif line.startswith("e"):
+ # TODO: information about the size of the gap between the alignments
+ # that span the current block
+ pass
+ elif line.startswith("q"):
+ # TODO: quality of each aligned base for the species.
+ # Need to find documentation on this, looks like ASCII 0-9 or gap?
+ # Can then store in each SeqRecord's .letter_annotations dictionary,
+ # perhaps as the raw string or turned into integers / None for gap?
+ pass
+ elif line.startswith("#"):
+ # ignore comments
+ # (not sure whether comments
+ # are in the maf specification, though)
+ pass
+ elif not line.strip():
+ # end a bundle of records
+ if seq_count is not None:
+ assert len(records) == seq_count
+
+ alignment = MultipleSeqAlignment(records, alphabet)
+ # TODO - Introduce an annotated alignment class?
+ # See also Bio/AlignIO/FastaIO.py for same requirement.
+ # For now, store the annotation a new private property:
+ alignment._annotations = annotations
+
+ yield alignment
+
+ in_a_bundle = False
+
+ annotations = []
+ records = []
+ else:
+ raise ValueError("Error parsing alignment - unexpected line:\n%s" % (line,))
+ elif line.startswith("a"):
+ # start a bundle of records
+ in_a_bundle = True
+ annot_strings = line.strip().split()[1:]
+ if len(annot_strings) != line.count("="):
+ raise ValueError("Error parsing alignment - invalid key in 'a' line")
+ annotations = dict([a_string.split("=") for a_string in annot_strings])
+ elif line.startswith("#"):
+ # ignore comments
+ pass
+ elif not line:
+ break
+
+
+class MafIndex(object):
+ """Index for a MAF file.
+
+ The index is a sqlite3 database that is built upon creation of the object
+ if necessary, and queried when methods *search* or *get_spliced* are
+ used.
+ """
+
+ def __init__(self, sqlite_file, maf_file, target_seqname):
+ """Indexes or loads the index of a MAF file."""
+ self._target_seqname = target_seqname
+ # example: Tests/MAF/ucsc_mm9_chr10.mafindex
+ self._index_filename = sqlite_file
+ # example: /home/bli/src/biopython/Tests/MAF
+ self._relative_path = os.path.abspath(os.path.dirname(sqlite_file))
+ # example: Tests/MAF/ucsc_mm9_chr10.maf
+ self._maf_file = maf_file
+
+ self._maf_fp = open(self._maf_file, "r")
+
+ # if sqlite_file exists, use the existing db, otherwise index the file
+ if os.path.isfile(sqlite_file):
+ self._con = _sqlite.connect(sqlite_file)
+ self._record_count = self.__check_existing_db()
+ else:
+ self._con = _sqlite.connect(sqlite_file)
+ self._record_count = self.__make_new_index()
+
+ # lastly, setup a MafIterator pointing at the open maf_file
+ self._mafiter = MafIterator(self._maf_fp)
+
+ def __check_existing_db(self):
+ """Perform basic sanity checks upon loading an existing index (PRIVATE)."""
+ try:
+ idx_version = int(self._con.execute(
+ "SELECT value FROM meta_data WHERE key = 'version'").fetchone()[0])
+ if idx_version != MAFINDEX_VERSION:
+ raise ValueError("Index version (%s) incompatible with "
+ "this version of MafIndex" % idx_version)
+
+ filename = self._con.execute(
+ "SELECT value FROM meta_data WHERE key = 'filename'").fetchone()[0]
+ # Compute absolute path of the original maf file
+ if os.path.isabs(filename):
+ # It was already stored as absolute
+ tmp_mafpath = filename
+ else:
+ # It should otherwise have been stored as relative to the index
+ # Would be stored with Unix / path separator, so convert
+ # it to the local OS path separator here:
+ tmp_mafpath = os.path.join(
+ self._relative_path, filename.replace("/", os.path.sep))
+ if tmp_mafpath != os.path.abspath(self._maf_file):
+ # Original and given absolute paths differ.
+ raise ValueError("Index uses a different file (%s != %s)"
+ % (filename, self._maf_file))
+
+ db_target = self._con.execute(
+ "SELECT value FROM meta_data WHERE key = 'target_seqname'").fetchone()[0]
+ if db_target != self._target_seqname:
+ raise ValueError("Provided database indexed for %s, expected %s"
+ % (db_target, self._target_seqname))
+
+ record_count = int(self._con.execute(
+ "SELECT value FROM meta_data WHERE key = 'record_count'").fetchone()[0])
+ if record_count == -1:
+ raise ValueError("Unfinished/partial database provided")
+
+ records_found = int(self._con.execute(
+ "SELECT COUNT(*) FROM offset_data").fetchone()[0])
+ if records_found != record_count:
+ raise ValueError("Expected %s records, found %s. Corrupt index?"
+ % (record_count, records_found))
+
+ return records_found
+
+ except (_sqlite.OperationalError, _sqlite.DatabaseError) as err:
+ raise ValueError("Problem with SQLite database: %s" % err)
+
+ def __make_new_index(self):
+ """Read MAF file and generate SQLite index (PRIVATE)."""
+ # make the tables
+ self._con.execute("CREATE TABLE meta_data (key TEXT, value TEXT);")
+ self._con.execute("INSERT INTO meta_data (key, value) VALUES ('version', 1);")
+ self._con.execute("INSERT INTO meta_data (key, value) VALUES ('record_count', -1);")
+ self._con.execute("INSERT INTO meta_data (key, value) VALUES ('target_seqname', '%s');" %
+ (self._target_seqname,))
+ # Determine whether to store maf file as relative to the index or absolute
+ # See https://github.com/biopython/biopython/pull/381
+ if not os.path.isabs(self._maf_file) and not os.path.isabs(self._index_filename):
+ # Since the user gave both maf file and index as relative paths,
+ # we will store the maf file relative to the index.
+ # Note for cross platform use (e.g. shared drive over SAMBA),
+ # convert any Windows slash into Unix style for rel paths.
+ # example: ucsc_mm9_chr10.maf
+ mafpath = os.path.relpath(
+ self._maf_file, self._relative_path).replace(os.path.sep, "/")
+ elif (os.path.dirname(os.path.abspath(self._maf_file)) +
+ os.path.sep).startswith(self._relative_path + os.path.sep):
+ # Since maf file is in same directory or sub directory,
+ # might as well make this into a relative path:
+ mafpath = os.path.relpath(
+ self._maf_file, self._relative_path).replace(os.path.sep, "/")
+ else:
+ # Default to storing as an absolute path
+ # example: /home/bli/src/biopython/Tests/MAF/ucsc_mm9_chr10.maf
+ mafpath = os.path.abspath(self._maf_file)
+ self._con.execute("INSERT INTO meta_data (key, value) VALUES ('filename', '%s');" %
+ (mafpath,))
+ self._con.execute("CREATE TABLE offset_data (bin INTEGER, start INTEGER, end INTEGER, offset INTEGER);")
+
+ insert_count = 0
+
+ # iterate over the entire file and insert in batches
+ mafindex_func = self.__maf_indexer()
+
+ while True:
+ batch = list(islice(mafindex_func, 100))
+ if not batch:
+ break
+
+ # batch is made from self.__maf_indexer(),
+ self._con.executemany(
+ "INSERT INTO offset_data (bin, start, end, offset) VALUES (?,?,?,?);", batch)
+ self._con.commit()
+ insert_count += len(batch)
+
+ # then make indexes on the relevant fields
+ self._con.execute("CREATE INDEX IF NOT EXISTS bin_index ON offset_data(bin);")
+ self._con.execute("CREATE INDEX IF NOT EXISTS start_index ON offset_data(start);")
+ self._con.execute("CREATE INDEX IF NOT EXISTS end_index ON offset_data(end);")
+
+ self._con.execute(
+ "UPDATE meta_data SET value = '%s' WHERE key = 'record_count'" % (insert_count,))
+
+ self._con.commit()
+
+ return insert_count
+
+ def __maf_indexer(self):
+ """Return index information for each bundle (PRIVATE).
+
+ Yields index information for each bundle in the form of
+ (bin, start, end, offset) tuples where start and end are
+ 0-based inclusive coordinates.
+ """
+ line = self._maf_fp.readline()
+
+ while line:
+ if line.startswith("a"):
+ # note the offset
+ offset = self._maf_fp.tell() - len(line)
+
+ # search the following lines for a match to target_seqname
+ while True:
+ line = self._maf_fp.readline()
+
+ if not line.strip() or line.startswith("a"):
+ # Empty line or new alignment record
+ raise ValueError("Target for indexing (%s) not found in this bundle"
+ % (self._target_seqname,))
+ elif line.startswith("s"):
+ # s (literal), src (ID), start, size, strand, srcSize, text (sequence)
+ line_split = line.strip().split()
+
+ if line_split[1] == self._target_seqname:
+ start = int(line_split[2])
+ end = int(line_split[2]) + int(line_split[3])
+
+ if end - start != len(line_split[6].replace("-", "")):
+ raise ValueError("Invalid length for target coordinates (expected %s, found %s)" %
+ (end - start, len(line_split[6].replace("-", ""))))
+
+ yield (self._ucscbin(start, end), start, end, offset)
+
+ break
+
+ line = self._maf_fp.readline()
+
+ # TODO: check coordinate correctness for the two bin-related static methods
+ @staticmethod
+ def _region2bin(start, end):
+ """Find bins that a region may belong to (PRIVATE).
+
+ Converts a region to a list of bins that it may belong to, including largest
+ and smallest bins.
+ """
+ bins = [0, 1]
+
+ bins.extend(range(1 + (start >> 26), 2 + ((end - 1) >> 26)))
+ bins.extend(range(9 + (start >> 23), 10 + ((end - 1) >> 23)))
+ bins.extend(range(73 + (start >> 20), 74 + ((end - 1) >> 20)))
+ bins.extend(range(585 + (start >> 17), 586 + ((end - 1) >> 17)))
+
+ return set(bins)
+
+ @staticmethod
+ def _ucscbin(start, end):
+ """Return the smallest bin a given region will fit into (PRIVATE).
+
+ Adapted from http://genomewiki.ucsc.edu/index.php/Bin_indexing_system
+ """
+ bin_offsets = [512 + 64 + 8 + 1, 64 + 8 + 1, 8 + 1, 1, 0]
+
+ _bin_first_shift = 17
+ _bin_next_shift = 3
+
+ start_bin = start
+ end_bin = end - 1
+
+ start_bin >>= _bin_first_shift
+ end_bin >>= _bin_first_shift
+
+ for bin_offset in bin_offsets:
+ if start_bin == end_bin:
+ return bin_offset + start_bin
+ start_bin >>= _bin_next_shift
+ end_bin >>= _bin_next_shift
+
+ return 0
+
+ def _get_record(self, offset):
+ """Retrieve a single MAF record located at the offset provided (PRIVATE)."""
+ self._maf_fp.seek(offset)
+ return next(self._mafiter)
+
+ def search(self, starts, ends):
+ """Search index database for MAF records overlapping ranges provided.
+
+ Returns *MultipleSeqAlignment* results in order by start, then end, then
+ internal offset field.
+
+ *starts* should be a list of 0-based start coordinates of segments in the reference.
+ *ends* should be the list of the corresponding segment ends
+ (in the half-open UCSC convention:
+ http://genome.ucsc.edu/blog/the-ucsc-genome-browser-coordinate-counting-systems/).
+ """
+ # verify the provided exon coordinates
+ if len(starts) != len(ends):
+ raise ValueError("Every position in starts must have a match in ends")
+
+ for exonstart, exonend in zip(starts, ends):
+ if exonstart >= exonend:
+ raise ValueError("Exon coordinates invalid (%s >= %s)" % (exonstart, exonend))
+ con = self._con
+
+ # Keep track of what blocks have already been yielded
+ # in order to avoid duplicating them
+ # (see https://github.com/biopython/biopython/issues/1083)
+ yielded_rec_coords = set([])
+ # search for every exon
+ for exonstart, exonend in zip(starts, ends):
+ try:
+ possible_bins = ", ".join(map(str, self._region2bin(exonstart, exonend)))
+ except TypeError:
+ raise TypeError("Exon coordinates must be integers "
+ "(start=%d, end=%d)" % (exonstart, exonend))
+
+ # https://www.sqlite.org/lang_expr.html
+ # -----
+ # The BETWEEN operator
+ #
+ # The BETWEEN operator is logically equivalent to a pair of
+ # comparisons. "x BETWEEN y AND z" is equivalent to "x>=y AND x<=z"
+ # except that with BETWEEN, the x expression is only evaluated
+ # once. The precedence of the BETWEEN operator is the same as the
+ # precedence as operators == and != and LIKE and groups left to
+ # right.
+ # -----
+
+ result = con.execute("SELECT DISTINCT start, end, offset FROM "
+ "offset_data WHERE bin IN (%s) AND (end BETWEEN %s AND %s "
+ "OR %s BETWEEN start AND end) ORDER BY start, end, "
+ "offset ASC;"
+ % (possible_bins, exonstart, exonend, exonend))
+
+ rows = result.fetchall()
+
+ for rec_start, rec_end, offset in rows:
+ # Avoid yielding multiple time the same block
+ if (rec_start, rec_end) in yielded_rec_coords:
+ continue
+ else:
+ yielded_rec_coords.add((rec_start, rec_end))
+ # Iterate through hits, fetching alignments from the MAF file
+ # and checking to be sure we've retrieved the expected record.
+
+ fetched = self._get_record(int(offset))
+
+ for record in fetched:
+ if record.id == self._target_seqname:
+ # start and size come from the maf lines
+ start = record.annotations["start"]
+ end = record.annotations["start"] + record.annotations["size"]
+
+ if not (start == rec_start and end == rec_end):
+ raise ValueError("Expected %s-%s @ offset %s, found %s-%s" %
+ (rec_start, rec_end, offset, start, end))
+
+ yield fetched
+
+ def get_spliced(self, starts, ends, strand=1):
+ """Return a multiple alignment of the exact sequence range provided.
+
+ Accepts two lists of start and end positions on target_seqname, representing
+ exons to be spliced in silico. Returns a *MultipleSeqAlignment* of the
+ desired sequences spliced together.
+
+ *starts* should be a list of 0-based start coordinates of segments in the reference.
+ *ends* should be the list of the corresponding segment ends
+ (in the half-open UCSC convention:
+ http://genome.ucsc.edu/blog/the-ucsc-genome-browser-coordinate-counting-systems/).
+
+ To ask for the alignment portion corresponding to the first 100
+ nucleotides of the reference sequence, you would use
+ ``search([0], [100])``
+ """
+ # validate strand
+ if strand not in (1, -1):
+ raise ValueError("Strand must be 1 or -1, got %s" % str(strand))
+
+ # pull all alignments that span the desired intervals
+ fetched = [multiseq for multiseq in self.search(starts, ends)]
+
+ # keep track of the expected letter count
+ # (sum of lengths of [start, end) segments,
+ # where [start, end) half-open)
+ expected_letters = sum([end - start for start, end in zip(starts, ends)])
+
+ # if there's no alignment, return filler for the assembly of the length given
+ if len(fetched) == 0:
+ return MultipleSeqAlignment([SeqRecord(Seq("N" * expected_letters),
+ id=self._target_seqname)])
+
+ # find the union of all IDs in these alignments
+ all_seqnames = set(
+ [sequence.id for multiseq in fetched for sequence in multiseq])
+
+ # split every record by base position
+ # key: sequence name
+ # value: dictionary
+ # key: position in the reference sequence
+ # value: letter(s) (including letters
+ # aligned to the "-" preceding the letter
+ # at the position in the reference, if any)
+ split_by_position = dict([(seq_name, {}) for seq_name in all_seqnames])
+
+ # keep track of what the total number of (unspliced) letters should be
+ total_rec_length = 0
+
+ # track first strand encountered on the target seqname
+ ref_first_strand = None
+
+ for multiseq in fetched:
+ # find the target_seqname in this MultipleSeqAlignment and use it to
+ # set the parameters for the rest of this iteration
+ for seqrec in multiseq:
+ if seqrec.id == self._target_seqname:
+ try:
+ if ref_first_strand is None:
+ ref_first_strand = seqrec.annotations["strand"]
+
+ if ref_first_strand not in (1, -1):
+ raise ValueError("Strand must be 1 or -1")
+ elif ref_first_strand != seqrec.annotations["strand"]:
+ raise ValueError("Encountered strand='%s' on target seqname, "
+ "expected '%s'" %
+ (seqrec.annotations["strand"], ref_first_strand))
+ except KeyError:
+ raise ValueError("No strand information for target seqname (%s)" %
+ self._target_seqname)
+ # length including gaps (i.e. alignment length)
+ rec_length = len(seqrec)
+ rec_start = seqrec.annotations["start"]
+ rec_end = seqrec.annotations["start"] + seqrec.annotations["size"]
+
+ total_rec_length += rec_end - rec_start
+
+ # blank out these positions for every seqname
+ for seqrec in multiseq:
+ for pos in range(rec_start, rec_end):
+ split_by_position[seqrec.id][pos] = ""
+
+ break
+ else:
+ raise ValueError("Did not find %s in alignment bundle" % (self._target_seqname,))
+
+ # the true, chromosome/contig/etc position in the target seqname
+ real_pos = rec_start
+
+ # loop over the alignment to fill split_by_position
+ for gapped_pos in range(0, rec_length):
+ for seqrec in multiseq:
+ # keep track of this position's value for the target seqname
+ if seqrec.id == self._target_seqname:
+ track_val = seqrec.seq[gapped_pos]
+
+ # Here, a real_pos that corresponds to just after a series of "-"
+ # in the reference will "accumulate" the letters found in other sequences
+ # in front of the "-"s
+ split_by_position[seqrec.id][real_pos] += seqrec.seq[gapped_pos]
+
+ # increment the real_pos counter only when non-gaps are found in
+ # the target_seqname, and we haven't reached the end of the record
+ if track_val != "-" and real_pos < rec_end - 1:
+ real_pos += 1
+
+ # make sure the number of bp entries equals the sum of the record lengths
+ if len(split_by_position[self._target_seqname]) != total_rec_length:
+ raise ValueError("Target seqname (%s) has %s records, expected %s" %
+ (self._target_seqname,
+ len(split_by_position[self._target_seqname]),
+ total_rec_length))
+
+ # translates a position in the target_seqname sequence to its gapped length
+ realpos_to_len = dict([(x, len(y))
+ for x, y in split_by_position[self._target_seqname].items()
+ if len(y) > 1])
+
+ # splice together the exons
+ subseq = {}
+
+ for seqid in all_seqnames:
+ seq_split = split_by_position[seqid]
+ seq_splice = []
+
+ filler_char = "N" if seqid == self._target_seqname else "-"
+
+ # iterate from start to end, taking bases from split_by_position when
+ # they exist, using N or - for gaps when there is no alignment.
+ append = seq_splice.append
+
+ for exonstart, exonend in zip(starts, ends):
+ for real_pos in range(exonstart, exonend):
+ # if this seqname has this position, add it
+ if real_pos in seq_split:
+ append(seq_split[real_pos])
+ # if not, but it's in the target_seqname, add length-matched filler
+ elif real_pos in realpos_to_len:
+ append(filler_char * realpos_to_len[real_pos])
+ # it's not in either, so add a single filler character
+ else:
+ append(filler_char)
+
+ subseq[seqid] = "".join(seq_splice)
+
+ # make sure we're returning the right number of letters
+ if len(subseq[self._target_seqname].replace("-", "")) != expected_letters:
+ raise ValueError("Returning %s letters for target seqname (%s), expected %s" %
+ (len(subseq[self._target_seqname].replace("-", "")),
+ self._target_seqname, expected_letters))
+
+ # check to make sure all sequences are the same length as the target seqname
+ ref_subseq_len = len(subseq[self._target_seqname])
+
+ for seqid, seq in subseq.items():
+ if len(seq) != ref_subseq_len:
+ raise ValueError("Returning length %s for %s, expected %s" %
+ (len(seq), seqid, ref_subseq_len))
+
+ # finally, build a MultipleSeqAlignment object for our final sequences
+ result_multiseq = []
+
+ for seqid, seq in subseq.items():
+ seq = Seq(seq)
+
+ seq = seq if strand == ref_first_strand else seq.reverse_complement()
+
+ result_multiseq.append(SeqRecord(seq,
+ id=seqid,
+ name=seqid,
+ description=""))
+
+ return MultipleSeqAlignment(result_multiseq)
+
+ def __repr__(self):
+ return "MafIO.MafIndex(%r, target_seqname=%r)" % (self._maf_fp.name,
+ self._target_seqname)
+
+ def __len__(self):
+ """Return the number of records in the index."""
+ return self._record_count
diff --git a/Bio/AlignIO/MauveIO.py b/Bio/AlignIO/MauveIO.py
new file mode 100644
index 0000000..1ba39d0
--- /dev/null
+++ b/Bio/AlignIO/MauveIO.py
@@ -0,0 +1,321 @@
+# Copyright 2015-2015 by Eric Rasche. All rights reserved.
+#
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+"""Bio.AlignIO support for "xmfa" output from Mauve/ProgressiveMauve.
+
+You are expected to use this module via the Bio.AlignIO functions (or the
+Bio.SeqIO functions if you want to work directly with the gapped sequences).
+
+For example, consider a progressiveMauve alignment file containing the following::
+
+ #FormatVersion Mauve1
+ #Sequence1File a.fa
+ #Sequence1Entry 1
+ #Sequence1Format FastA
+ #Sequence2File b.fa
+ #Sequence2Entry 2
+ #Sequence2Format FastA
+ #Sequence3File c.fa
+ #Sequence3Entry 3
+ #Sequence3Format FastA
+ #BackboneFile three.xmfa.bbcols
+ > 1:0-0 + a.fa
+ --------------------------------------------------------------------------------
+ --------------------------------------------------------------------------------
+ --------------------------------------------------------------------------------
+ > 2:5417-5968 + b.fa
+ TTTAAACATCCCTCGGCCCGTCGCCCTTTTATAATAGCAGTACGTGAGAGGAGCGCCCTAAGCTTTGGGAAATTCAAGC-
+ --------------------------------------------------------------------------------
+ CTGGAACGTACTTGCTGGTTTCGCTACTATTTCAAACAAGTTAGAGGCCGTTACCTCGGGCGAACGTATAAACCATTCTG
+ > 3:9476-10076 - c.fa
+ TTTAAACACCTTTTTGGATG--GCCCAGTTCGTTCAGTTGTG-GGGAGGAGATCGCCCCAAACGTATGGTGAGTCGGGCG
+ TTTCCTATAGCTATAGGACCAATCCACTTACCATACGCCCGGCGTCGCCCAGTCCGGTTCGGTACCCTCCATGACCCACG
+ ---------------------------------------------------------AAATGAGGGCCCAGGGTATGCTT
+ =
+ > 2:5969-6015 + b.fa
+ -----------------------
+ GGGCGAACGTATAAACCATTCTG
+ > 3:9429-9476 - c.fa
+ TTCGGTACCCTCCATGACCCACG
+ AAATGAGGGCCCAGGGTATGCTT
+
+This is a multiple sequence alignment with multiple aligned sections, so you
+would probably load this using the Bio.AlignIO.parse() function:
+
+ >>> from Bio import AlignIO
+ >>> align = AlignIO.parse("Mauve/simple.xmfa", "mauve")
+ >>> alignments = list(align)
+ >>> for aln in alignments:
+ ... print(align)
+ SingleLetterAlphabet() alignment with 3 rows and 240 columns
+ --------------------------------------------...--- 1
+ TTTAAACATCCCTCGGCCCGTCGCCCTTTTATAATAGCAGTACG...CTG 2
+ TTTAAACACCTTTTTGGATG--GCCCAGTTCGTTCAGTTGTG-G...CTT 3
+ SingleLetterAlphabet() alignment with 3 rows and 46 columns
+ ---------------------------------------------- 1
+ -----------------------GGGCGAACGTATAAACCATTCTG 2
+ TTCGGTACCCTCCATGACCCACGAAATGAGGGCCCAGGGTATGCTT 3
+
+Additional information is extracted from the XMFA file and available through
+the annotation attribute of each record::
+
+ >>> for record in alignments[0]:
+ ... print record.id, len(record), record.annotations
+ 1 240 {'start': 0, 'end': 0, 'strand': 1}
+ 2 240 {'start': 5417, 'end': 5968, 'strand': 1}
+ 3 240 {'start': 9476, 'end': 10076, 'strand': -1}
+
+"""
+
+from __future__ import print_function
+
+import re
+from Bio.Seq import Seq
+from Bio.SeqRecord import SeqRecord
+from Bio.Align import MultipleSeqAlignment
+from .Interfaces import AlignmentIterator
+from .Interfaces import SequentialAlignmentWriter
+
+
+XMFA_HEADER_REGEX = re.compile("> (?P<id>\d+):(?P<start>\d+)-(?P<end>\d+) (?P<strand>[+-]) (?P<name>.*)")
+XMFA_HEADER_REGEX_BIOPYTHON = re.compile("> (?P<id>\d+):(?P<start>\d+)-(?P<end>\d+) (?P<strand>[+-]) (?P<name>[^#]*) # (?P<realname>.*)")
+ID_LINE_FMT = "> {seq_name}:{start}-{end} {strand} {file} # {ugly_hack}\n"
+
+
+def _identifier_split(identifier):
+ """Return (name, start, end) string tuple from an identifier (PRIVATE)."""
+ id, loc, strand = identifier.split(':')
+ start, end = map(int, loc.split('-'))
+ start -= 1
+ return id, start, end, strand
+
+
+class MauveWriter(SequentialAlignmentWriter):
+ """Mauve/XMFA alignment writer."""
+
+ def __init__(self, *args, **kwargs):
+ """Initialize."""
+ super(MauveWriter, self).__init__(*args, **kwargs)
+ self._wrote_header = False
+ self._wrote_first = False
+
+ def write_alignment(self, alignment):
+ """Use this to write (another) single alignment to an open file.
+
+ Note that sequences and their annotation are recorded
+ together (rather than having a block of annotation followed
+ by a block of aligned sequences).
+ """
+ count = len(alignment)
+
+ self._length_of_sequences = alignment.get_alignment_length()
+
+ # NOTE - For now, the alignment object does not hold any per column
+ # or per alignment annotation - only per sequence.
+
+ if count == 0:
+ raise ValueError("Must have at least one sequence")
+ if self._length_of_sequences == 0:
+ raise ValueError("Non-empty sequences are required")
+
+ if not self._wrote_header:
+ self._wrote_header = True
+ self.handle.write("#FormatVersion Mauve1\n")
+ # There are some more headers, but we ignore those for now.
+ # Sequence1File unknown.fa
+ # Sequence1Entry 1
+ # Sequence1Format FastA
+ for i in range(1, count + 1):
+ self.handle.write('#Sequence%sEntry\t%s\n' % (i, i))
+
+ for idx, record in enumerate(alignment):
+ self._write_record(record, record_idx=idx)
+ self.handle.write('=\n')
+
+ def _write_record(self, record, record_idx=0):
+ """Write a single SeqRecord to the file."""
+ if self._length_of_sequences != len(record.seq):
+ raise ValueError("Sequences must all be the same length")
+
+ seq_name = record.name
+ try:
+ seq_name = str(int(record.name))
+ except ValueError:
+ seq_name = str(record_idx + 1)
+
+ # We remove the "/{start}-{end}" before writing, as it cannot be part
+ # of the produced XMFA file.
+ if "start" in record.annotations and "end" in record.annotations:
+ suffix0 = "/%s-%s" % (str(record.annotations["start"]),
+ str(record.annotations["end"]))
+ suffix1 = "/%s-%s" % (str(record.annotations["start"] + 1),
+ str(record.annotations["end"]))
+ if seq_name[-len(suffix0):] == suffix0:
+ seq_name = seq_name[:-len(suffix0)]
+ if seq_name[-len(suffix1):] == suffix1:
+ seq_name = seq_name[:-len(suffix1)]
+
+ if "start" in record.annotations \
+ and "end" in record.annotations \
+ and "strand" in record.annotations:
+ id_line = ID_LINE_FMT.format(
+ seq_name=seq_name, start=record.annotations["start"] + 1, end=record.annotations["end"],
+ strand=("+" if record.annotations["strand"] == 1 else "-"), file=record.name + '.fa',
+ ugly_hack=record.id
+ )
+ lacking_annotations = False
+ else:
+ id_line = ID_LINE_FMT.format(
+ seq_name=seq_name, start=0, end=0, strand='+',
+ file=record.name + '.fa', ugly_hack=record.id
+ )
+ lacking_annotations = True
+
+ # If the sequence is an empty one, skip writing it out
+ if (':0-0 ' in id_line or ':1-0 ' in id_line) and not lacking_annotations:
+ # Except in the first LCB
+ if not self._wrote_first:
+ self._wrote_first = True
+ # The first LCB we write out is special, and must list ALL
+ # sequences, for the Mauve GUI
+ # http://darlinglab.org/mauve/user-guide/files.html#non-standard-xmfa-formatting-used-by-the-mauve-gui
+ id_line = ID_LINE_FMT.format(
+ seq_name=seq_name, start=0, end=0, strand='+',
+ file=record.name + '.fa', ugly_hack=record.id
+ )
+
+ self.handle.write(id_line + '\n')
+ # Alignments lacking a start/stop/strand were generated by
+ # BioPython on load, and shouldn't exist according to XMFA
+ else:
+ # In other blocks, we only write sequences if they exist in a given
+ # alignment.
+ self.handle.write(id_line)
+ for i in range(0, len(record.seq), 80):
+ self.handle.write("%s\n" % str(record.seq[i:i + 80]))
+
+
+class MauveIterator(AlignmentIterator):
+ """Mauve xmfa alignment iterator."""
+
+ _ids = [] # for caching IDs between __next__ calls
+
+ def __next__(self):
+ """Parse the next alignment from the handle."""
+ handle = self.handle
+ line = handle.readline()
+
+ if not line:
+ raise StopIteration
+
+ # Strip out header comments
+ while line and line.strip().startswith('#'):
+ line = handle.readline()
+
+ seqs = {}
+ seq_regions = {}
+ passed_end_alignment = False
+
+ latest_id = None
+ while True:
+ if not line:
+ break # end of file
+ line = line.strip()
+
+ if line.startswith('='):
+ # There may be more data, but we've reached the end of this
+ # alignment
+ break
+ elif line.startswith('>'):
+ m = XMFA_HEADER_REGEX_BIOPYTHON.match(line)
+ if not m:
+ m = XMFA_HEADER_REGEX.match(line)
+ if not m:
+ raise ValueError("Malformed header line: %s", line)
+
+ parsed_id = m.group('id')
+ parsed_data = {}
+ for key in ('start', 'end', 'id', 'strand', 'name', 'realname'):
+ try:
+ value = m.group(key)
+ if key == 'start':
+ value = int(value)
+ # Convert to zero based counting
+ if value > 0:
+ value -= 1
+
+ if key == 'end':
+ value = int(value)
+ parsed_data[key] = value
+ except IndexError:
+ # This will occur if we're asking for a group that
+ # doesn't exist. It's fine.
+ pass
+ seq_regions[parsed_id] = parsed_data
+
+ if parsed_id not in self._ids:
+ self._ids.append(parsed_id)
+
+ seqs.setdefault(parsed_id, '')
+ latest_id = parsed_id
+ else:
+ assert not passed_end_alignment
+ if latest_id is None:
+ raise ValueError("Saw sequence before definition line")
+ seqs[latest_id] += line
+ line = handle.readline()
+
+ assert len(seqs) <= len(self._ids)
+
+ self.ids = self._ids
+ self.sequences = seqs
+
+ if self._ids and seqs:
+ alignment_length = max(map(len, list(seqs.values())))
+ records = []
+ for id in self._ids:
+ if id not in seqs or len(seqs[id]) == 0 \
+ or len(seqs[id]) == 0:
+ seq = '-' * alignment_length
+ else:
+ seq = seqs[id]
+
+ if alignment_length != len(seq):
+ raise ValueError("Sequences have different lengths, or repeated identifier")
+
+ # Sometimes we don't see a particular sequence in the
+ # alignment, so we skip that record since it isn't present in
+ # that LCB/alignment
+ if id not in seq_regions:
+ continue
+
+ if (seq_regions[id]['start'] != 0 or seq_regions[id]['end'] != 0):
+ suffix = '/{start}-{end}'.format(**seq_regions[id])
+ if 'realname' in seq_regions[id]:
+ corrected_id = seq_regions[id]['realname']
+ else:
+ corrected_id = seq_regions[id]['name']
+ if corrected_id.count(suffix) == 0:
+ corrected_id += suffix
+ else:
+ if 'realname' in seq_regions[id]:
+ corrected_id = seq_regions[id]['realname']
+ else:
+ corrected_id = seq_regions[id]['name']
+
+ record = SeqRecord(
+ Seq(seq, self.alphabet),
+ id=corrected_id,
+ name=id
+ )
+
+ record.annotations["start"] = seq_regions[id]['start']
+ record.annotations["end"] = seq_regions[id]['end']
+ record.annotations["strand"] = 1 if seq_regions[id]['strand'] == '+' else -1
+
+ records.append(record)
+ return MultipleSeqAlignment(records, self.alphabet)
+ else:
+ raise StopIteration
diff --git a/Bio/AlignIO/NexusIO.py b/Bio/AlignIO/NexusIO.py
index 91c05bb..838f544 100644
--- a/Bio/AlignIO/NexusIO.py
+++ b/Bio/AlignIO/NexusIO.py
@@ -1,8 +1,9 @@
-# Copyright 2008-2010 by Peter Cock. All rights reserved.
+# Copyright 2008-2010, 2012-2014, 2016 by Peter Cock. All rights reserved.
#
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
"""Bio.AlignIO support for the "nexus" file format.
You are expected to use this module via the Bio.AlignIO functions (or the
@@ -28,7 +29,7 @@ from Bio import Alphabet
# This is a generator function!
def NexusIterator(handle, seq_count=None):
- """Returns SeqRecord objects from a Nexus file.
+ """Return SeqRecord objects from a Nexus file.
Thus uses the Bio.Nexus module to do the hard work.
@@ -69,13 +70,14 @@ class NexusWriter(AlignmentWriter):
You are expected to call this class via the Bio.AlignIO.write() or
Bio.SeqIO.write() functions.
"""
+
def write_file(self, alignments):
"""Use this to write an entire file containing the given alignments.
Arguments:
-
- alignments - A list or iterator returning MultipleSeqAlignment objects.
This should hold ONE and only one alignment.
+
"""
align_iter = iter(alignments) # Could have been a list
try:
@@ -120,9 +122,10 @@ class NexusWriter(AlignmentWriter):
n.write_nexus_data(self.handle, interleave=(columns > 1000))
def _classify_alphabet_for_nexus(self, alphabet):
- """Returns 'protein', 'dna', 'rna' based on the alphabet (PRIVATE).
+ """Return 'protein', 'dna', or 'rna' based on the alphabet (PRIVATE).
- Raises an exception if this is not possible."""
+ Raises an exception if this is not possible.
+ """
# Get the base alphabet (underneath any Gapped or StopCodon encoding)
a = Alphabet._get_base_alphabet(alphabet)
@@ -139,76 +142,7 @@ class NexusWriter(AlignmentWriter):
# just the generic Alphabet (default for fasta files)
raise ValueError("Need a DNA, RNA or Protein alphabet")
+
if __name__ == "__main__":
- from Bio._py3k import StringIO
- print("Quick self test")
- print("")
- print("Repeated names without a TAXA block")
- handle = StringIO("""#NEXUS
- [TITLE: NoName]
-
- begin data;
- dimensions ntax=4 nchar=50;
- format interleave datatype=protein gap=- symbols="FSTNKEYVQMCLAWPHDRIG";
-
- matrix
- CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ----
- ALEU_HORVU MAHARVLLLA LAVLATAAVA VASSSSFADS NPIRPVTDRA ASTLESAVLG
- CATH_HUMAN ------MWAT LPLLCAGAWL LGV------- -PVCGAAELS VNSLEK----
- CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ---X
- ;
- end;
- """) # noqa for pep8 W291 trailing whitespace
- for a in NexusIterator(handle):
- print(a)
- for r in a:
- print("%r %s %s" % (r.seq, r.name, r.id))
- print("Done")
-
- print("")
- print("Repeated names with a TAXA block")
- handle = StringIO("""#NEXUS
- [TITLE: NoName]
-
- begin taxa
- CYS1_DICDI
- ALEU_HORVU
- CATH_HUMAN
- CYS1_DICDI;
- end;
-
- begin data;
- dimensions ntax=4 nchar=50;
- format interleave datatype=protein gap=- symbols="FSTNKEYVQMCLAWPHDRIG";
-
- matrix
- CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ----
- ALEU_HORVU MAHARVLLLA LAVLATAAVA VASSSSFADS NPIRPVTDRA ASTLESAVLG
- CATH_HUMAN ------MWAT LPLLCAGAWL LGV------- -PVCGAAELS VNSLEK----
- CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ---X
- ;
- end;
- """) # noqa for pep8 W291 trailing whitespace
- for a in NexusIterator(handle):
- print(a)
- for r in a:
- print("%r %s %s" % (r.seq, r.name, r.id))
- print("Done")
- print("")
- print("Reading an empty file")
- assert 0 == len(list(NexusIterator(StringIO())))
- print("Done")
- print("")
- print("Writing...")
-
- handle = StringIO()
- NexusWriter(handle).write_file([a])
- handle.seek(0)
- print(handle.read())
-
- handle = StringIO()
- try:
- NexusWriter(handle).write_file([a, a])
- assert False, "Should have rejected more than one alignment!"
- except ValueError:
- pass
+ from Bio._utils import run_doctest
+ run_doctest(verbose=0)
diff --git a/Bio/AlignIO/PhylipIO.py b/Bio/AlignIO/PhylipIO.py
index 86b9f43..92504ba 100644
--- a/Bio/AlignIO/PhylipIO.py
+++ b/Bio/AlignIO/PhylipIO.py
@@ -1,8 +1,10 @@
# Copyright 2006-2016 by Peter Cock. All rights reserved.
# Revisions copyright 2011 Brandon Invergo. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
"""AlignIO support for "phylip" format from Joe Felsenstein's PHYLIP tools.
You are expected to use this module via the Bio.AlignIO functions (or the
@@ -179,7 +181,7 @@ class PhylipIterator(AlignmentIterator):
return False # First line should have two integers
def _split_id(self, line):
- """Extracts the sequence ID from a Phylip line (PRIVATE).
+ """Extract the sequence ID from a Phylip line (PRIVATE).
Returning a tuple containing: (sequence_id, sequence_residues)
@@ -191,6 +193,7 @@ class PhylipIterator(AlignmentIterator):
return seq_id, seq
def __next__(self):
+ """Parse the next alignment from the handle."""
handle = self.handle
if self._header is None:
@@ -270,14 +273,10 @@ class PhylipIterator(AlignmentIterator):
# Relaxed Phylip
class RelaxedPhylipWriter(PhylipWriter):
- """
- Relaxed Phylip format writer
- """
+ """Relaxed Phylip format writer."""
def write_alignment(self, alignment):
- """
- Write a relaxed phylip alignment
- """
+ """Write a relaxed phylip alignment."""
# Check inputs
for name in (s.id.strip() for s in alignment):
if any(c in name for c in string.whitespace):
@@ -299,7 +298,7 @@ class RelaxedPhylipIterator(PhylipIterator):
"""Relaxed Phylip format Iterator."""
def _split_id(self, line):
- """Extracts the sequence ID from a Phylip line (PRIVATE).
+ """Extract the sequence ID from a Phylip line (PRIVATE).
Returns a tuple containing: (sequence_id, sequence_residues)
@@ -314,6 +313,7 @@ class SequentialPhylipWriter(SequentialAlignmentWriter):
"""Sequential Phylip format Writer."""
def write_alignment(self, alignment, id_width=_PHYLIP_ID_WIDTH):
+ """Write a Phylip alignment to the handle."""
handle = self.handle
if len(alignment) == 0:
diff --git a/Bio/AlignIO/StockholmIO.py b/Bio/AlignIO/StockholmIO.py
index 9358f93..b637b76 100644
--- a/Bio/AlignIO/StockholmIO.py
+++ b/Bio/AlignIO/StockholmIO.py
@@ -130,14 +130,16 @@ secondary structure string here, are also sliced:
AUCGUUUUAC
>>> print(sub_record.letter_annotations['secondary_structure'])
-------<<<
+
"""
from __future__ import print_function
+from collections import OrderedDict
+
from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
from Bio.Align import MultipleSeqAlignment
from .Interfaces import AlignmentIterator, SequentialAlignmentWriter
-from Bio._py3k import OrderedDict
class StockholmWriter(SequentialAlignmentWriter):
@@ -184,7 +186,7 @@ class StockholmWriter(SequentialAlignmentWriter):
self.handle.write("//\n")
def _write_record(self, record):
- """Write a single SeqRecord to the file"""
+ """Write a single SeqRecord to the file."""
if self._length_of_sequences != len(record.seq):
raise ValueError("Sequences must all be the same length")
@@ -203,9 +205,10 @@ class StockholmWriter(SequentialAlignmentWriter):
suffix = "/%s-%s" % (str(record.annotations["start"]),
str(record.annotations["end"]))
if seq_name[-len(suffix):] != suffix:
- seq_name = "%s/%s-%s" % (seq_name,
- str(record.annotations["start"]),
- str(record.annotations["end"]))
+ seq_name = "%s/%s-%s" % (
+ seq_name,
+ str(record.annotations["start"]),
+ str(record.annotations["end"]))
if seq_name in self._ids_written:
raise ValueError("Duplicate record identifier: %s" % seq_name)
@@ -225,21 +228,21 @@ class StockholmWriter(SequentialAlignmentWriter):
# AC = Accession
if "accession" in record.annotations:
- self.handle.write("#=GS %s AC %s\n"
- % (seq_name, self.clean(record.annotations["accession"])))
+ self.handle.write("#=GS %s AC %s\n" % (
+ seq_name, self.clean(record.annotations["accession"])))
elif record.id:
- self.handle.write("#=GS %s AC %s\n"
- % (seq_name, self.clean(record.id)))
+ self.handle.write("#=GS %s AC %s\n" % (
+ seq_name, self.clean(record.id)))
# DE = description
if record.description:
- self.handle.write("#=GS %s DE %s\n"
- % (seq_name, self.clean(record.description)))
+ self.handle.write("#=GS %s DE %s\n" % (
+ seq_name, self.clean(record.description)))
# DE = database links
for xref in record.dbxrefs:
- self.handle.write("#=GS %s DR %s\n"
- % (seq_name, self.clean(xref)))
+ self.handle.write("#=GS %s DR %s\n" % (
+ seq_name, self.clean(xref)))
# GS = other per sequence annotation
for key, value in record.annotations.items():
@@ -293,8 +296,9 @@ class StockholmIterator(AlignmentIterator):
a single line. However, interlaced sequences should work.
For more information on the file format, please see:
- http://www.bioperl.org/wiki/Stockholm_multiple_alignment_format
- http://www.cgb.ki.se/cgb/groups/sonnhammer/Stockholm.html
+ http://sonnhammer.sbc.su.se/Stockholm.html
+ https://en.wikipedia.org/wiki/Stockholm_format
+ http://bioperl.org/formats/alignment_formats/Stockholm_multiple_alignment_format.html
For consistency with BioPerl and EMBOSS we call this the "stockholm"
format.
@@ -317,6 +321,7 @@ class StockholmIterator(AlignmentIterator):
_header = None # for caching lines between __next__ calls
def __next__(self):
+ """Parse the next alignment from the handle."""
handle = self.handle
if self._header is None:
@@ -330,7 +335,7 @@ class StockholmIterator(AlignmentIterator):
if not line:
# Empty file - just give up.
raise StopIteration
- if not line.strip() == '# STOCKHOLM 1.0':
+ if line.strip() != '# STOCKHOLM 1.0':
raise ValueError("Did not find STOCKHOLM header")
# Note: If this file follows the PFAM conventions, there should be
@@ -366,13 +371,14 @@ class StockholmIterator(AlignmentIterator):
parts = [x.strip() for x in line.split(" ", 1)]
if len(parts) != 2:
# This might be someone attempting to store a zero length sequence?
- raise ValueError("Could not split line into identifier "
- "and sequence:\n" + line)
- id, seq = parts
- if id not in ids:
- ids[id] = True
- seqs.setdefault(id, '')
- seqs[id] += seq.replace(".", "-")
+ raise ValueError(
+ "Could not split line into identifier "
+ "and sequence:\n" + line)
+ seq_id, seq = parts
+ if seq_id not in ids:
+ ids[seq_id] = True
+ seqs.setdefault(seq_id, '')
+ seqs[seq_id] += seq.replace(".", "-")
elif len(line) >= 5:
# Comment line or meta-data
if line[:5] == "#=GF ":
@@ -392,26 +398,26 @@ class StockholmIterator(AlignmentIterator):
elif line[:5] == '#=GS ':
# Generic per-Sequence annotation, free text
# Format: "#=GS <seqname> <feature> <free text>"
- id, feature, text = line[5:].strip().split(None, 2)
- # if id not in ids:
- # ids.append(id)
- if id not in gs:
- gs[id] = {}
- if feature not in gs[id]:
- gs[id][feature] = [text]
+ seq_id, feature, text = line[5:].strip().split(None, 2)
+ # if seq_id not in ids:
+ # ids.append(seq_id)
+ if seq_id not in gs:
+ gs[seq_id] = {}
+ if feature not in gs[seq_id]:
+ gs[seq_id][feature] = [text]
else:
- gs[id][feature].append(text)
+ gs[seq_id][feature].append(text)
elif line[:5] == "#=GR ":
# Generic per-Sequence AND per-Column markup
# Format: "#=GR <seqname> <feature> <exactly 1 char per column>"
- id, feature, text = line[5:].strip().split(None, 2)
- # if id not in ids:
- # ids.append(id)
- if id not in gr:
- gr[id] = {}
- if feature not in gr[id]:
- gr[id][feature] = ""
- gr[id][feature] += text.strip() # append to any previous entry
+ seq_id, feature, text = line[5:].strip().split(None, 2)
+ # if seq_id not in ids:
+ # ids.append(seq_id)
+ if seq_id not in gr:
+ gr[seq_id] = {}
+ if feature not in gr[seq_id]:
+ gr[seq_id][feature] = ""
+ gr[seq_id][feature] += text.strip() # append to any previous entry
# TODO - Should we check the length matches the alignment length?
# For iterlaced sequences the GR data can be split over
# multiple lines
@@ -435,13 +441,13 @@ class StockholmIterator(AlignmentIterator):
alignment_length = len(list(seqs.values())[0])
records = [] # Alignment obj will put them all in a list anyway
- for id in ids:
- seq = seqs[id]
+ for seq_id in ids:
+ seq = seqs[seq_id]
if alignment_length != len(seq):
raise ValueError("Sequences have different lengths, or repeated identifier")
- name, start, end = self._identifier_split(id)
+ name, start, end = self._identifier_split(seq_id)
record = SeqRecord(Seq(seq, self.alphabet),
- id=id, name=name, description=id,
+ id=seq_id, name=name, description=seq_id,
annotations={"accession": name})
# Accession will be overridden by _populate_meta_data if an explicit
# accession is provided:
@@ -452,7 +458,7 @@ class StockholmIterator(AlignmentIterator):
if end is not None:
record.annotations["end"] = end
- self._populate_meta_data(id, record)
+ self._populate_meta_data(seq_id, record)
records.append(record)
alignment = MultipleSeqAlignment(records, self.alphabet)
@@ -465,7 +471,7 @@ class StockholmIterator(AlignmentIterator):
raise StopIteration
def _identifier_split(self, identifier):
- """Returns (name, start, end) string tuple from an identier."""
+ """Return (name, start, end) string tuple from an identier."""
if '/' in identifier:
name, start_end = identifier.rsplit("/", 1)
if start_end.count("-") == 1:
@@ -478,7 +484,7 @@ class StockholmIterator(AlignmentIterator):
return identifier, None, None
def _get_meta_data(self, identifier, meta_dict):
- """Takes an itentifier and returns dict of all meta-data matching it.
+ """Take an itentifier and returns dict of all meta-data matching it.
For example, given "Q9PN73_CAMJE/149-220" will return all matches to
this or "Q9PN73_CAMJE" which the identifier without its /start-end
@@ -495,7 +501,8 @@ class StockholmIterator(AlignmentIterator):
#=GS Q9PN73_CAMJE OS Campylobacter jejuni
#=GS Q9PN73_CAMJE OC Bacteria
- This function will return an empty dictionary if no data is found."""
+ This function will return an empty dictionary if no data is found.
+ """
name, start, end = self._identifier_split(identifier)
if name == identifier:
identifier_keys = [identifier]
@@ -511,10 +518,10 @@ class StockholmIterator(AlignmentIterator):
return answer
def _populate_meta_data(self, identifier, record):
- """Adds meta-date to a SecRecord's annotations dictionary.
-
- This function applies the PFAM conventions."""
+ """Add meta-date to a SecRecord's annotations dictionary.
+ This function applies the PFAM conventions.
+ """
seq_data = self._get_meta_data(identifier, self.seq_annotation)
for feature in seq_data:
# Note this dictionary contains lists!
diff --git a/Bio/AlignIO/__init__.py b/Bio/AlignIO/__init__.py
index 57e9e26..acf9744 100644
--- a/Bio/AlignIO/__init__.py
+++ b/Bio/AlignIO/__init__.py
@@ -1,4 +1,4 @@
-# Copyright 2008-2016 by Peter Cock. All rights reserved.
+# Copyright 2008-2017 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -114,6 +114,7 @@ names are also used in Bio.SeqIO and include the following:
- phylip-sequential - Sequential PHYLIP.
- phylip-relaxed - PHYLIP like format allowing longer names.
- stockholm - A richly annotated alignment file format used by PFAM.
+ - mauve - Output from progressiveMauve/Mauve
Note that while Bio.AlignIO can read all the above file formats, it cannot
write to all of them.
@@ -142,7 +143,6 @@ from Bio._py3k import basestring
# http://www.bioperl.org/wiki/MSF_multiple_alignment_format
from Bio.Align import MultipleSeqAlignment
-from Bio.Align.Generic import Alignment
from Bio.Alphabet import Alphabet, AlphabetEncoder, _get_base_alphabet
from Bio.File import as_handle
@@ -152,6 +152,8 @@ from . import NexusIO
from . import PhylipIO
from . import EmbossIO
from . import FastaIO
+from . import MafIO
+from . import MauveIO
# Convention for format names is "mainname-subtype" in lower case.
# Please use the same names as BioPerl and EMBOSS where possible.
@@ -160,6 +162,8 @@ _FormatToIterator = { # "fasta" is done via Bio.SeqIO
"clustal": ClustalIO.ClustalIterator,
"emboss": EmbossIO.EmbossIterator,
"fasta-m10": FastaIO.FastaM10Iterator,
+ "maf": MafIO.MafIterator,
+ "mauve": MauveIO.MauveIterator,
"nexus": NexusIO.NexusIterator,
"phylip": PhylipIO.PhylipIterator,
"phylip-sequential": PhylipIO.SequentialPhylipIterator,
@@ -169,12 +173,14 @@ _FormatToIterator = { # "fasta" is done via Bio.SeqIO
_FormatToWriter = { # "fasta" is done via Bio.SeqIO
# "emboss" : EmbossIO.EmbossWriter, (unfinished)
+ "clustal": ClustalIO.ClustalWriter,
+ "maf": MafIO.MafWriter,
+ "mauve": MauveIO.MauveWriter,
"nexus": NexusIO.NexusWriter,
"phylip": PhylipIO.PhylipWriter,
"phylip-sequential": PhylipIO.SequentialPhylipWriter,
"phylip-relaxed": PhylipIO.RelaxedPhylipWriter,
"stockholm": StockholmIO.StockholmWriter,
- "clustal": ClustalIO.ClustalWriter,
}
@@ -182,12 +188,11 @@ def write(alignments, handle, format):
"""Write complete set of alignments to a file.
Arguments:
- - alignments - A list (or iterator) of Alignment objects (ideally the
- new MultipleSeqAlignment objects), or (if using Biopython
- 1.54 or later) a single alignment object.
- - handle - File handle object to write to, or filename as string
- (note older versions of Biopython only took a handle).
- - format - lower case string describing the file format to write.
+ - alignments - A list (or iterator) of MultipleSeqAlignment objects,
+ or a single alignment object.
+ - handle - File handle object to write to, or filename as string
+ (note older versions of Biopython only took a handle).
+ - format - lower case string describing the file format to write.
You should close the handle after calling this function.
@@ -203,7 +208,7 @@ def write(alignments, handle, format):
if format != format.lower():
raise ValueError("Format string '%s' should be lower case" % format)
- if isinstance(alignments, Alignment):
+ if isinstance(alignments, MultipleSeqAlignment):
# This raised an exception in older versions of Biopython
alignments = [alignments]
@@ -217,8 +222,8 @@ def write(alignments, handle, format):
# TODO - Can we make one call to SeqIO.write() and count the alignments?
count = 0
for alignment in alignments:
- if not isinstance(alignment, Alignment):
- raise TypeError("Expect a list or iterator of Alignment "
+ if not isinstance(alignment, MultipleSeqAlignment):
+ raise TypeError("Expect a list or iterator of MultipleSeqAlignment "
"objects, got: %r" % alignment)
SeqIO.write(alignment, fp, format)
count += 1
@@ -237,16 +242,16 @@ def write(alignments, handle, format):
# This is a generator function!
def _SeqIO_to_alignment_iterator(handle, format, alphabet=None, seq_count=None):
- """Uses Bio.SeqIO to create an MultipleSeqAlignment iterator (PRIVATE).
+ """Use Bio.SeqIO to create an MultipleSeqAlignment iterator (PRIVATE).
Arguments:
- - handle - handle to the file.
- - format - string describing the file format.
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. fasta, phylip, clustal)
- - seq_count - Optional integer, number of sequences expected in each
- alignment. Recommended for fasta format files.
+ - handle - handle to the file.
+ - format - string describing the file format.
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. fasta, phylip, clustal)
+ - seq_count - Optional integer, number of sequences expected in each
+ alignment. Recommended for fasta format files.
If count is omitted (default) then all the sequences in the file are
combined into a single MultipleSeqAlignment.
@@ -299,14 +304,14 @@ def parse(handle, format, seq_count=None, alphabet=None):
"""Iterate over an alignment file as MultipleSeqAlignment objects.
Arguments:
- - handle - handle to the file, or the filename as a string
- (note older versions of Biopython only took a handle).
- - format - string describing the file format.
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. fasta, phylip, clustal)
- - seq_count - Optional integer, number of sequences expected in each
- alignment. Recommended for fasta format files.
+ - handle - handle to the file, or the filename as a string
+ (note older versions of Biopython only took a handle).
+ - format - string describing the file format.
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. fasta, phylip, clustal)
+ - seq_count - Optional integer, number of sequences expected in each
+ alignment. Recommended for fasta format files.
If you have the file name in a string 'filename', use:
@@ -373,17 +378,17 @@ def parse(handle, format, seq_count=None, alphabet=None):
def read(handle, format, seq_count=None, alphabet=None):
- """Turns an alignment file into a single MultipleSeqAlignment object.
+ """Turn an alignment file into a single MultipleSeqAlignment object.
Arguments:
- - handle - handle to the file, or the filename as a string
- (note older versions of Biopython only took a handle).
- - format - string describing the file format.
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. fasta, phylip, clustal)
- - seq_count - Optional integer, number of sequences expected in each
- alignment. Recommended for fasta format files.
+ - handle - handle to the file, or the filename as a string
+ (note older versions of Biopython only took a handle).
+ - format - string describing the file format.
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. fasta, phylip, clustal)
+ - seq_count - Optional integer, number of sequences expected in each
+ alignment. Recommended for fasta format files.
If the handle contains no alignments, or more than one alignment,
an exception is raised. For example, using a PFAM/Stockholm file
@@ -440,11 +445,12 @@ def read(handle, format, seq_count=None, alphabet=None):
def convert(in_file, in_format, out_file, out_format, alphabet=None):
"""Convert between two alignment files, returns number of alignments.
- - in_file - an input handle or filename
- - in_format - input file format, lower case string
- - output - an output handle or filename
- - out_file - output file format, lower case string
- - alphabet - optional alphabet to assume
+ Arguments:
+ - in_file - an input handle or filename
+ - in_format - input file format, lower case string
+ - output - an output handle or filename
+ - out_file - output file format, lower case string
+ - alphabet - optional alphabet to assume
**NOTE** - If you provide an output filename, it will be opened which will
overwrite any existing file without warning. This may happen if even the
diff --git a/Bio/Alphabet/IUPAC.py b/Bio/Alphabet/IUPAC.py
index a1433b5..84f9a6e 100644
--- a/Bio/Alphabet/IUPAC.py
+++ b/Bio/Alphabet/IUPAC.py
@@ -24,18 +24,20 @@ class ExtendedIUPACProtein(Alphabet.ProteinAlphabet):
In addition to the standard 20 single letter protein codes, this includes:
- - B = "Asx"; Aspartic acid (R) or Asparagine (N)
- - X = "Xxx"; Unknown or 'other' amino acid
- - Z = "Glx"; Glutamic acid (E) or Glutamine (Q)
- - J = "Xle"; Leucine (L) or Isoleucine (I), used in mass-spec (NMR)
- - U = "Sec"; Selenocysteine
- - O = "Pyl"; Pyrrolysine
-
- This alphabet is not intended to be used with X for Selenocysteine
- (an ad-hoc standard prior to the IUPAC adoption of U instead).
+ - `B` = "Asx"; Aspartic acid (R) or Asparagine (N)
+ - `X` = "Xxx"; Unknown or 'other' amino acid
+ - `Z` = "Glx"; Glutamic acid (E) or Glutamine (Q)
+ - `J` = "Xle"; Leucine (L) or Isoleucine (I), used in mass-spec (NMR)
+ - `U` = "Sec"; Selenocysteine
+ - `O` = "Pyl"; Pyrrolysine
+
+ This alphabet is not intended to be used with `X` for Selenocysteine
+ (an ad-hoc standard prior to the IUPAC adoption of `U` instead).
"""
+
letters = IUPACData.extended_protein_letters
+
extended_protein = ExtendedIUPACProtein()
assert IUPACData.protein_letters == IUPACData.protein_letters.upper()
@@ -43,8 +45,10 @@ assert IUPACData.protein_letters == IUPACData.protein_letters.upper()
class IUPACProtein(ExtendedIUPACProtein):
"""Uppercase IUPAC protein single letter alphabet of the 20 standard amino acids."""
+
letters = IUPACData.protein_letters
+
protein = IUPACProtein()
# #################### DNA
@@ -54,15 +58,19 @@ protein = IUPACProtein()
# http://www.chem.qmw.ac.uk/iubmb/misc/naseq.html
class IUPACAmbiguousDNA(Alphabet.DNAAlphabet):
"""Uppercase IUPAC ambiguous DNA."""
+
letters = IUPACData.ambiguous_dna_letters
+
ambiguous_dna = IUPACAmbiguousDNA()
class IUPACUnambiguousDNA(IUPACAmbiguousDNA):
"""Uppercase IUPAC unambiguous DNA (letters GATC only)."""
+
letters = IUPACData.unambiguous_dna_letters
+
unambiguous_dna = IUPACUnambiguousDNA()
@@ -72,13 +80,16 @@ class ExtendedIUPACDNA(Alphabet.DNAAlphabet):
In addition to the standard letter codes GATC, this includes:
- - B = 5-bromouridine
- - D = 5,6-dihydrouridine
- - S = thiouridine
- - W = wyosine
+ - `B` = 5-bromouridine
+ - `D` = 5,6-dihydrouridine
+ - `S` = thiouridine
+ - `W` = wyosine
+
"""
+
letters = IUPACData.extended_dna_letters
+
extended_dna = ExtendedIUPACDNA()
# #################### RNA
@@ -86,15 +97,19 @@ extended_dna = ExtendedIUPACDNA()
class IUPACAmbiguousRNA(Alphabet.RNAAlphabet):
"""Uppercase IUPAC ambiguous RNA."""
+
letters = IUPACData.ambiguous_rna_letters
+
ambiguous_rna = IUPACAmbiguousRNA()
class IUPACUnambiguousRNA(IUPACAmbiguousRNA):
"""Uppercase IUPAC unambiguous RNA (letters GAUC only)."""
+
letters = IUPACData.unambiguous_rna_letters
+
unambiguous_rna = IUPACUnambiguousRNA()
# are there extended forms?
diff --git a/Bio/Alphabet/Reduced.py b/Bio/Alphabet/Reduced.py
index 6a4885c..a5627a5 100644
--- a/Bio/Alphabet/Reduced.py
+++ b/Bio/Alphabet/Reduced.py
@@ -53,6 +53,8 @@ murphy_15_tab = {"L": "L",
class Murphy15(Alphabet.ProteinAlphabet):
letters = "LCAGSTPFWEDNQKH"
size = 15
+
+
murphy_15 = Murphy15()
murphy_10_tab = {"L": "L",
@@ -80,6 +82,8 @@ murphy_10_tab = {"L": "L",
class Murphy10(Alphabet.ProteinAlphabet):
letters = "LCAGSPFEKH"
size = 10
+
+
murphy_10 = Murphy10()
murphy_8_tab = {"L": "L",
@@ -107,6 +111,8 @@ murphy_8_tab = {"L": "L",
class Murphy8(Alphabet.ProteinAlphabet):
letters = "LASPFEKH"
size = 8
+
+
murphy_8 = Murphy8()
murphy_4_tab = {"L": "L",
@@ -134,6 +140,8 @@ murphy_4_tab = {"L": "L",
class Murphy4(Alphabet.ProteinAlphabet):
letters = "LAFE"
size = 4
+
+
murphy_4 = Murphy4()
hp_model_tab = {"A": "P", # Hydrophilic
@@ -161,6 +169,8 @@ hp_model_tab = {"A": "P", # Hydrophilic
class HPModel(Alphabet.ProteinAlphabet):
letters = "HP"
size = 2
+
+
hp_model = HPModel()
pc_5_table = {"I": "A", # Aliphatic
@@ -188,4 +198,6 @@ pc_5_table = {"I": "A", # Aliphatic
class PC5(Alphabet.ProteinAlphabet):
letters = "ARCTD"
size = 5
+
+
hp_model = HPModel()
diff --git a/Bio/Alphabet/__init__.py b/Bio/Alphabet/__init__.py
index 022a2e3..9573db6 100644
--- a/Bio/Alphabet/__init__.py
+++ b/Bio/Alphabet/__init__.py
@@ -21,6 +21,7 @@ class Alphabet(object):
Usually it is a string when letters are single characters.
- size - size of the alphabet's letters (e.g. 1 when letters are
single characters).
+
"""
size = None # default to no fixed size for words
@@ -39,7 +40,8 @@ class Alphabet(object):
Returns a boolean. This relies on the Alphabet subclassing
hierarchy only, and does not check the letters property.
This isn't ideal, and doesn't seem to work as intended
- with the AlphabetEncoder classes."""
+ with the AlphabetEncoder classes.
+ """
return isinstance(other, self.__class__)
def _case_less(self):
@@ -76,14 +78,17 @@ class Alphabet(object):
# TODO - Raise NotImplementedError and handle via subclass?
return self._case_less()
+
generic_alphabet = Alphabet()
class SingleLetterAlphabet(Alphabet):
"""Generic alphabet with letters of size one."""
+
size = 1
letters = None # string of all letters in the alphabet
+
single_letter_alphabet = SingleLetterAlphabet()
# ########## Protein
@@ -91,8 +96,10 @@ single_letter_alphabet = SingleLetterAlphabet()
class ProteinAlphabet(SingleLetterAlphabet):
"""Generic single letter protein alphabet."""
+
pass
+
generic_protein = ProteinAlphabet()
# ########## DNA
@@ -100,15 +107,19 @@ generic_protein = ProteinAlphabet()
class NucleotideAlphabet(SingleLetterAlphabet):
"""Generic single letter nucleotide alphabet."""
+
pass
+
generic_nucleotide = NucleotideAlphabet()
class DNAAlphabet(NucleotideAlphabet):
"""Generic single letter DNA alphabet."""
+
pass
+
generic_dna = DNAAlphabet()
@@ -117,8 +128,10 @@ generic_dna = DNAAlphabet()
class RNAAlphabet(NucleotideAlphabet):
"""Generic single letter RNA alphabet."""
+
pass
+
generic_rna = RNAAlphabet()
# ########## Other per-sequence encodings
@@ -129,11 +142,13 @@ class SecondaryStructure(SingleLetterAlphabet):
Letters are 'H' (helix), 'S' (strand), 'T' (turn) and 'C' (coil).
"""
+
letters = "HSTC"
class ThreeLetterProtein(Alphabet):
"""Three letter protein alphabet."""
+
size = 3
letters = [
"Ala", "Asx", "Cys", "Asp", "Glu", "Phe", "Gly", "His", "Ile",
@@ -174,7 +189,8 @@ class AlphabetEncoder(object):
"""Does this alphabet 'contain' the other (OBSOLETE?).
This is isn't implemented for the base AlphabetEncoder,
- which will always return 0 (False)."""
+ which will always return 0 (False).
+ """
return 0
def _upper(self):
@@ -265,7 +281,8 @@ def _consensus_base_alphabet(alphabets):
This throws away any AlphabetEncoder information, e.g. Gapped alphabets.
Note that DNA+RNA -> Nucleotide, and Nucleotide+Protein-> generic single
- letter. These DO NOT raise an exception!"""
+ letter. These DO NOT raise an exception!
+ """
common = None
for alpha in alphabets:
a = _get_base_alphabet(alpha)
@@ -384,7 +401,8 @@ def _check_type_compatible(alphabets):
True
This relies on the Alphabet subclassing hierarchy. It does not
- check things like gap characters or stop symbols."""
+ check things like gap characters or stop symbols.
+ """
dna, rna, nucl, protein = False, False, False, False
for alpha in alphabets:
a = _get_base_alphabet(alpha)
diff --git a/Bio/Application/__init__.py b/Bio/Application/__init__.py
index 1cb7e36..60686de 100644
--- a/Bio/Application/__init__.py
+++ b/Bio/Application/__init__.py
@@ -70,13 +70,16 @@ class ApplicationError(_ProcessCalledError):
Non-zero return code -11 from 'helloworld', message 'Some error text'
"""
+
def __init__(self, returncode, cmd, stdout="", stderr=""):
+ """Initialize."""
self.returncode = returncode
self.cmd = cmd
self.stdout = stdout
self.stderr = stderr
def __str__(self):
+ """Format the error as a string."""
# get first line of any stderr message
try:
msg = self.stderr.lstrip().split("\n", 1)[0].rstrip()
@@ -90,12 +93,13 @@ class ApplicationError(_ProcessCalledError):
% (self.returncode, self.cmd)
def __repr__(self):
+ """Represent the error as a string."""
return "ApplicationError(%i, %s, %s, %s)" \
% (self.returncode, self.cmd, self.stdout, self.stderr)
class AbstractCommandline(object):
- """Generic interface for constructing command line strings.
+ r"""Generic interface for constructing command line strings.
This class shouldn't be called directly; it should be subclassed to
provide an implementation for a specific application.
@@ -158,7 +162,7 @@ class AbstractCommandline(object):
the full path to the binary as the first argument (cmd):
>>> from Bio.Emboss.Applications import WaterCommandline
- >>> water_cmd = WaterCommandline("C:\Program Files\EMBOSS\water.exe",
+ >>> water_cmd = WaterCommandline(r"C:\Program Files\EMBOSS\water.exe",
... gapopen=10, gapextend=0.5,
... asequence="asis:ACCCGGGCGCGGT",
... bsequence="asis:ACCCGAGCGCGGT",
@@ -170,6 +174,7 @@ class AbstractCommandline(object):
been quoted.
"""
+
# TODO - Replace the above example since EMBOSS doesn't work properly
# if installed into a folder with a space like "C:\Program Files\EMBOSS"
#
@@ -269,6 +274,7 @@ class AbstractCommandline(object):
"""Make the commandline string with the currently set options.
e.g.
+
>>> from Bio.Emboss.Applications import WaterCommandline
>>> cline = WaterCommandline(gapopen=10, gapextend=0.5)
>>> cline.asequence = "asis:ACCCGGGCGCGGT"
@@ -291,6 +297,7 @@ class AbstractCommandline(object):
"""Return a representation of the command line object for debugging.
e.g.
+
>>> from Bio.Emboss.Applications import WaterCommandline
>>> cline = WaterCommandline(gapopen=10, gapextend=0.5)
>>> cline.asequence = "asis:ACCCGGGCGCGGT"
@@ -411,7 +418,7 @@ class AbstractCommandline(object):
def __call__(self, stdin=None, stdout=True, stderr=True,
cwd=None, env=None):
- """Executes the command, waits for it to finish, and returns output.
+ """Execute command, wait for it to finish, return (stdout, stderr).
Runs the command line tool and waits for it to finish. If it returns
a non-zero error level, an exception is raised. Otherwise two strings
@@ -522,6 +529,7 @@ class _AbstractParameter(object):
Do not use this directly, instead use one of the subclasses.
"""
+
def __init__(self):
raise NotImplementedError
@@ -539,36 +547,30 @@ class _Option(_AbstractParameter):
take a value, use the _Switch object instead.
Attributes:
+ - names -- a list of string names (typically two entries) by which
+ the parameter can be set via the legacy set_parameter method
+ (eg ["-a", "--append", "append"]). The first name in list is used
+ when building the command line. The last name in the list is a
+ "human readable" name describing the option in one word. This
+ must be a valid Python identifier as it is used as the property
+ name and as a keyword argument, and should therefore follow PEP8
+ naming.
+ - description -- a description of the option. This is used as
+ the property docstring.
+ - filename -- True if this argument is a filename and should be
+ automatically quoted if it contains spaces.
+ - checker_function -- a reference to a function that will determine
+ if a given value is valid for this parameter. This function can either
+ raise an error when given a bad value, or return a [0, 1] decision on
+ whether the value is correct.
+ - equate -- should an equals sign be inserted if a value is used?
+ - is_required -- a flag to indicate if the parameter must be set for
+ the program to be run.
+ - is_set -- if the parameter has been set
+ - value -- the value of a parameter
- o names -- a list of string names (typically two entries) by which
- the parameter can be set via the legacy set_parameter method
- (eg ["-a", "--append", "append"]). The first name in list is used
- when building the command line. The last name in the list is a
- "human readable" name describing the option in one word. This
- must be a valid Python identifier as it is used as the property
- name and as a keyword argument, and should therefore follow PEP8
- naming.
-
- o description -- a description of the option. This is used as
- the property docstring.
-
- o filename -- True if this argument is a filename and should be
- automatically quoted if it contains spaces.
-
- o checker_function -- a reference to a function that will determine
- if a given value is valid for this parameter. This function can either
- raise an error when given a bad value, or return a [0, 1] decision on
- whether the value is correct.
-
- o equate -- should an equals sign be inserted if a value is used?
-
- o is_required -- a flag to indicate if the parameter must be set for
- the program to be run.
-
- o is_set -- if the parameter has been set
-
- o value -- the value of a parameter
"""
+
def __init__(self, names, description, filename=False, checker_function=None,
is_required=False, equate=True):
self.names = names
@@ -611,22 +613,23 @@ class _Switch(_AbstractParameter):
take a value, they are either included in the command string
or omitted.
- o names -- a list of string names (typically two entries) by which
- the parameter can be set via the legacy set_parameter method
- (eg ["-a", "--append", "append"]). The first name in list is used
- when building the command line. The last name in the list is a
- "human readable" name describing the option in one word. This
- must be a valid Python identifer as it is used as the property
- name and as a keyword argument, and should therefore follow PEP8
- naming.
-
- o description -- a description of the option. This is used as
- the property docstring.
-
- o is_set -- if the parameter has been set
+ Attributes:
+ - names -- a list of string names (typically two entries) by which
+ the parameter can be set via the legacy set_parameter method
+ (eg ["-a", "--append", "append"]). The first name in list is used
+ when building the command line. The last name in the list is a
+ "human readable" name describing the option in one word. This
+ must be a valid Python identifer as it is used as the property
+ name and as a keyword argument, and should therefore follow PEP8
+ naming.
+ - description -- a description of the option. This is used as
+ the property docstring.
+ - is_set -- if the parameter has been set
NOTE - There is no value attribute, see is_set instead,
+
"""
+
def __init__(self, names, description):
self.names = names
self.description = description
@@ -653,6 +656,7 @@ class _Argument(_AbstractParameter):
property name and as a keyword argument, and should therefore
follow PEP8 naming.
"""
+
def __init__(self, names, description, filename=False,
checker_function=None, is_required=False):
# if len(names) != 1:
@@ -679,6 +683,7 @@ class _Argument(_AbstractParameter):
class _ArgumentList(_Argument):
"""Represent a variable list of arguments on a command line, e.g. multiple filenames."""
+
# TODO - Option to require at least one value? e.g. min/max count?
def __str__(self):
@@ -701,6 +706,7 @@ class _StaticArgument(_AbstractParameter):
This is not intended to be exposed as a named argument or
property of a command line wrapper object.
"""
+
def __init__(self, value):
self.names = []
self.is_required = False
@@ -749,6 +755,7 @@ def _test():
import doctest
doctest.testmod(verbose=1)
+
if __name__ == "__main__":
# Run the doctests
_test()
diff --git a/Bio/Blast/Applications.py b/Bio/Blast/Applications.py
index 82d700d..721645d 100644
--- a/Bio/Blast/Applications.py
+++ b/Bio/Blast/Applications.py
@@ -38,6 +38,7 @@ class _NcbibaseblastCommandline(AbstractCommandline):
common to all the BLAST tools (blastn, rpsblast, rpsblast, etc
AND blast_formatter).
"""
+
def __init__(self, cmd=None, **kwargs):
assert cmd is not None
extra_parameters = [
@@ -113,6 +114,7 @@ class _NcbiblastCommandline(_NcbibaseblastCommandline):
This is provided for subclassing, it deals with shared options
common to all the BLAST tools (blastn, rpsblast, rpsblast, etc).
"""
+
def __init__(self, cmd=None, **kwargs):
assert cmd is not None
extra_parameters = [
@@ -264,6 +266,7 @@ class _Ncbiblast2SeqCommandline(_NcbiblastCommandline):
common to all the BLAST tools supporting two-sequence BLAST
(blastn, psiblast, etc) but not rpsblast or rpstblastn.
"""
+
def __init__(self, cmd=None, **kwargs):
assert cmd is not None
extra_parameters = [
@@ -339,6 +342,7 @@ class _NcbiblastMain2SeqCommandline(_Ncbiblast2SeqCommandline):
common to the main BLAST tools blastp, blastn, blastx, tblastx, tblastn
but not psiblast, rpsblast or rpstblastn.
"""
+
def __init__(self, cmd=None, **kwargs):
assert cmd is not None
extra_parameters = [
@@ -392,6 +396,7 @@ class NcbiblastpCommandline(_NcbiblastMain2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="blastp", **kwargs):
self.parameters = [
# General search options:
@@ -455,6 +460,7 @@ class NcbiblastnCommandline(_NcbiblastMain2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="blastn", **kwargs):
self.parameters = [
# Input query options:
@@ -571,6 +577,7 @@ class NcbiblastxCommandline(_NcbiblastMain2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="blastx", **kwargs):
self.parameters = [
# Input query options:
@@ -656,6 +663,7 @@ class NcbitblastnCommandline(_NcbiblastMain2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="tblastn", **kwargs):
self.parameters = [
# General search options:
@@ -739,6 +747,7 @@ class NcbitblastxCommandline(_NcbiblastMain2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="tblastx", **kwargs):
self.parameters = [
# Input query options:
@@ -797,6 +806,7 @@ class NcbipsiblastCommandline(_Ncbiblast2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="psiblast", **kwargs):
self.parameters = [
# General search options:
@@ -925,6 +935,7 @@ class NcbirpsblastCommandline(_NcbiblastCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="rpsblast", **kwargs):
# TODO - remove the -word_size argument as per BLAST+ 2.2.30
# (BLAST team say it should never have been included, since
@@ -1004,6 +1015,7 @@ class NcbirpstblastnCommandline(_NcbiblastCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="rpstblastn", **kwargs):
# TODO - remove the -word_size argument as per BLAST+ 2.2.30
# (BLAST team say it should never have been included, since
@@ -1030,9 +1042,25 @@ class NcbirpstblastnCommandline(_NcbiblastCommandline):
Format: "yes", "window locut hicut", or "no" to disable.
Default is "12 2.2 2.5""",
equate=False),
+ # General search options:
+ _Option(["-comp_based_stats", "comp_based_stats"],
+ """Use composition-based statistics.
+
+ D or d: default (equivalent to 0 )
+ 0 or F or f: Simplified Composition-based statistics as in
+ Bioinformatics 15:1000-1011, 1999
+ 1 or T or t: Composition-based statistics as in NAR 29:2994-3005, 2001
+
+ Default = `0'
+ """,
+ checker_function=lambda value: value in "Dd0Ff1Tt",
+ equate=False),
# Extension options:
_Switch(["-ungapped", "ungapped"],
"Perform ungapped alignment only?"),
+ # Miscellaneous options:
+ _Switch(["-use_sw_tback", "use_sw_tback"],
+ "Compute locally optimal Smith-Waterman alignments?"),
]
_NcbiblastCommandline.__init__(self, cmd, **kwargs)
@@ -1064,6 +1092,7 @@ class NcbiblastformatterCommandline(_NcbibaseblastCommandline):
(instead -rid is a mandatory argument), and is not supported by this
wrapper.
"""
+
def __init__(self, cmd="blast_formatter", **kwargs):
self.parameters = [
# Input options
@@ -1105,6 +1134,7 @@ class NcbideltablastCommandline(_Ncbiblast2SeqCommandline):
You would typically run the command line with cline() or via the Python
subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="deltablast", **kwargs):
self.parameters = [
# General search options:
@@ -1187,6 +1217,7 @@ def _test():
import doctest
doctest.testmod(verbose=1)
+
if __name__ == "__main__":
# Run the doctests
_test()
diff --git a/Bio/Blast/NCBIStandalone.py b/Bio/Blast/NCBIStandalone.py
index be4e4d0..797e9c8 100644
--- a/Bio/Blast/NCBIStandalone.py
+++ b/Bio/Blast/NCBIStandalone.py
@@ -53,6 +53,7 @@ class LowQualityBlastError(Exception):
search. This error should be raised for the BLAST reports produced
in this case.
"""
+
pass
@@ -68,6 +69,7 @@ class ShortQueryBlastError(Exception):
This exception is raised when that condition is detected.
"""
+
pass
@@ -78,7 +80,9 @@ class _Scanner(object):
Methods:
- feed Feed data into the scanner.
+
"""
+
def feed(self, handle, consumer):
"""S.feed(handle, consumer)
@@ -799,9 +803,8 @@ class _Scanner(object):
class BlastParser(AbstractParser):
- """Parses BLAST data into a Record.Blast object.
+ """Parses BLAST data into a Record.Blast object."""
- """
def __init__(self):
"""__init__(self)"""
self._scanner = _Scanner()
@@ -814,9 +817,8 @@ class BlastParser(AbstractParser):
class PSIBlastParser(AbstractParser):
- """Parses BLAST data into a Record.PSIBlast object.
+ """Parses BLAST data into a Record.PSIBlast object."""
- """
def __init__(self):
"""__init__(self)"""
self._scanner = _Scanner()
@@ -1608,6 +1610,7 @@ class Iterator(object):
next Return the next record from the stream, or None.
"""
+
def __init__(self, handle, parser=None):
"""__init__(self, handle, parser=None)
@@ -1631,7 +1634,6 @@ class Iterator(object):
Return the next Blast record from the file. If no more records,
return None.
-
"""
lines = []
query = False
@@ -1772,7 +1774,7 @@ class BlastErrorParser(AbstractParser):
that may actually indicate problems during BLAST parsing.
Current BLAST problems this detects are:
- o LowQualityBlastError - When BLASTing really low quality sequences
+ - LowQualityBlastError - When BLASTing really low quality sequences
(ie. some GenBank entries which are just short stretches of a single
nucleotide), BLAST will report an error with the sequence and be
unable to search with this. This will lead to a badly formatted
@@ -1780,11 +1782,12 @@ class BlastErrorParser(AbstractParser):
ValueError to a LowQualityBlastError and attempt to provide useful
information.
"""
+
def __init__(self, bad_report_handle=None):
"""Initialize a parser that tries to catch BlastErrors.
Arguments:
- o bad_report_handle - An optional argument specifying a handle
+ - bad_report_handle - An optional argument specifying a handle
where bad reports should be sent. This would allow you to save
all of the bad reports to a file, for instance. If no handle
is specified, the bad reports will not be saved.
@@ -1796,8 +1799,7 @@ class BlastErrorParser(AbstractParser):
self._consumer = _BlastErrorConsumer()
def parse(self, handle):
- """Parse a handle, attempting to diagnose errors.
- """
+ """Parse a handle, attempting to diagnose errors."""
results = handle.read()
try:
@@ -1821,8 +1823,8 @@ class BlastErrorParser(AbstractParser):
"""Attempt to diagnose an error in the passed handle.
Arguments:
- o handle - The handle potentially containing the error
- o data_record - The data record partially created by the consumer.
+ - handle - The handle potentially containing the error
+ - data_record - The data record partially created by the consumer.
"""
line = handle.readline()
diff --git a/Bio/Blast/NCBIXML.py b/Bio/Blast/NCBIXML.py
index 8b5d32f..dffa358 100644
--- a/Bio/Blast/NCBIXML.py
+++ b/Bio/Blast/NCBIXML.py
@@ -14,7 +14,6 @@ from __future__ import print_function
from Bio.Blast import Record
import xml.sax
from xml.sax.handler import ContentHandler
-from functools import reduce
class _XMLparser(ContentHandler):
@@ -24,10 +23,13 @@ class _XMLparser(ContentHandler):
Redefine the methods startElement, characters and endElement.
"""
+
def __init__(self, debug=0):
"""Constructor.
- debug - integer, amount of debug information to print
+ Arguments:
+ - debug - integer, amount of debug information to print
+
"""
self._tag = []
self._value = ''
@@ -37,7 +39,9 @@ class _XMLparser(ContentHandler):
def _secure_name(self, name):
"""Removes 'dangerous' from tag names.
- name -- name to be 'secured'
+ Arguments:
+ - name -- name to be 'secured'
+
"""
# Replace '-' with '_' in XML tag names
return name.replace('-', '_')
@@ -47,9 +51,10 @@ class _XMLparser(ContentHandler):
No real need of attr, BLAST DTD doesn't use them
- name -- name of the tag
+ Arguments:
+ - name -- name of the tag
+ - attr -- tag attributes
- attr -- tag attributes
"""
self._tag.append(name)
@@ -78,14 +83,18 @@ class _XMLparser(ContentHandler):
def characters(self, ch):
"""Found some text.
- ch -- characters read
+ Arguments:
+ - ch -- characters read
+
"""
self._value += ch # You don't ever get the whole string
def endElement(self, name):
"""Found XML end tag.
- name -- tag name
+ Arguments:
+ - name -- tag name
+
"""
# DON'T strip any white space, we may need it e.g. the hsp-midline
@@ -116,14 +125,18 @@ class BlastParser(_XMLparser):
You are expected to use this via the parse or read functions.
All XML 'action' methods are private methods and may be:
- - ``_start_TAG`` called when the start tag is found
- - ``_end_TAG`` called when the end tag is found
+
+ - ``_start_TAG`` called when the start tag is found
+ - ``_end_TAG`` called when the end tag is found
+
"""
def __init__(self, debug=0):
"""Constructor.
- debug - integer, amount of debug information to print
+ Arguments:
+ - debug - integer, amount of debug information to print
+
"""
# Calling superclass method
_XMLparser.__init__(self, debug)
@@ -216,7 +229,7 @@ class BlastParser(_XMLparser):
self._header.application = self._value.upper()
def _end_BlastOutput_version(self):
- """version number and date of the BLAST engine.
+ """Version number and date of the BLAST engine.
e.g. "BLASTX 2.2.12 [Aug-07-2005]" but there can also be
variants like "BLASTP 2.2.18+" without the date.
@@ -239,21 +252,21 @@ class BlastParser(_XMLparser):
self._header.date = parts[2]
def _end_BlastOutput_reference(self):
- """a reference to the article describing the algorithm (PRIVATE).
+ """A reference to the article describing the algorithm (PRIVATE).
Save this to put on each blast record object
"""
self._header.reference = self._value
def _end_BlastOutput_db(self):
- """the database(s) searched (PRIVATE).
+ """The database(s) searched (PRIVATE).
Save this to put on each blast record object
"""
self._header.database = self._value
def _end_BlastOutput_query_ID(self):
- """the identifier of the query (PRIVATE).
+ """The identifier of the query (PRIVATE).
Important in old pre 2.2.14 BLAST, for recent versions
<Iteration_query-ID> is enough
@@ -261,7 +274,7 @@ class BlastParser(_XMLparser):
self._header.query_id = self._value
def _end_BlastOutput_query_def(self):
- """the definition line of the query (PRIVATE).
+ """The definition line of the query (PRIVATE).
Important in old pre 2.2.14 BLAST, for recent versions
<Iteration_query-def> is enough
@@ -269,7 +282,7 @@ class BlastParser(_XMLparser):
self._header.query = self._value
def _end_BlastOutput_query_len(self):
- """the length of the query (PRIVATE).
+ """The length of the query (PRIVATE).
Important in old pre 2.2.14 BLAST, for recent versions
<Iteration_query-len> is enough
@@ -277,27 +290,27 @@ class BlastParser(_XMLparser):
self._header.query_letters = int(self._value)
def _end_Iteration_query_ID(self):
- """the identifier of the query (PRIVATE)."""
+ """The identifier of the query (PRIVATE)."""
self._blast.query_id = self._value
def _end_Iteration_query_def(self):
- """the definition line of the query (PRIVATE)."""
+ """The definition line of the query (PRIVATE)."""
self._blast.query = self._value
def _end_Iteration_query_len(self):
- """the length of the query (PRIVATE)."""
+ """The length of the query (PRIVATE)."""
self._blast.query_letters = int(self._value)
# def _end_BlastOutput_query_seq(self):
- # """the query sequence (PRIVATE)."""
+ # """The query sequence (PRIVATE)."""
# pass # XXX Missing in Record.Blast ?
# def _end_BlastOutput_iter_num(self):
- # """the psi-blast iteration number (PRIVATE)."""
+ # """The psi-blast iteration number (PRIVATE)."""
# pass # XXX TODO PSI
def _end_BlastOutput_hits(self):
- """hits to the database sequences, one for every sequence (PRIVATE)."""
+ """Hits to the database sequences, one for every sequence (PRIVATE)."""
self._blast.num_hits = int(self._value)
# def _end_BlastOutput_message(self):
@@ -306,11 +319,11 @@ class BlastParser(_XMLparser):
# Parameters
def _end_Parameters_matrix(self):
- """matrix used (-M on legacy BLAST) (PRIVATE)."""
+ """Matrix used (-M on legacy BLAST) (PRIVATE)."""
self._parameters.matrix = self._value
def _end_Parameters_expect(self):
- """expect values cutoff (PRIVATE)."""
+ """Expect values cutoff (PRIVATE)."""
# NOTE: In old text output there was a line:
# Number of sequences better than 1.0e-004: 1
# As far as I can see, parameters.num_seqs_better_e
@@ -321,37 +334,37 @@ class BlastParser(_XMLparser):
self._parameters.expect = self._value
# def _end_Parameters_include(self):
- # """inclusion threshold for a psi-blast iteration (-h) (PRIVATE)."""
+ # """Inclusion threshold for a psi-blast iteration (-h) (PRIVATE)."""
# pass # XXX TODO PSI
def _end_Parameters_sc_match(self):
- """match score for nucleotide-nucleotide comparison (-r) (PRIVATE)."""
+ """Match score for nucleotide-nucleotide comparison (-r) (PRIVATE)."""
self._parameters.sc_match = int(self._value)
def _end_Parameters_sc_mismatch(self):
- """mismatch penalty for nucleotide-nucleotide comparison (-r) (PRIVATE)."""
+ """Mismatch penalty for nucleotide-nucleotide comparison (-r) (PRIVATE)."""
self._parameters.sc_mismatch = int(self._value)
def _end_Parameters_gap_open(self):
- """gap existence cost (-G) (PRIVATE)."""
+ """Gap existence cost (-G) (PRIVATE)."""
self._parameters.gap_penalties = int(self._value)
def _end_Parameters_gap_extend(self):
- """gap extension cose (-E) (PRIVATE)."""
+ """Gap extension cose (-E) (PRIVATE)."""
self._parameters.gap_penalties = (self._parameters.gap_penalties,
int(self._value))
def _end_Parameters_filter(self):
- """filtering options (-F) (PRIVATE)."""
+ """Filtering options (-F) (PRIVATE)."""
self._parameters.filter = self._value
# def _end_Parameters_pattern(self):
- # """pattern used for phi-blast search
+ # """Pattern used for phi-blast search
# """
# pass # XXX TODO PSI
# def _end_Parameters_entrez_query(self):
- # """entrez query used to limit search
+ # """Entrez query used to limit search
# """
# pass # XXX TODO PSI
@@ -371,18 +384,18 @@ class BlastParser(_XMLparser):
self._descr = None
def _end_Hit_id(self):
- """identifier of the database sequence (PRIVATE)."""
+ """Identifier of the database sequence (PRIVATE)."""
self._hit.hit_id = self._value
self._hit.title = self._value + ' '
def _end_Hit_def(self):
- """definition line of the database sequence (PRIVATE)."""
+ """Definition line of the database sequence (PRIVATE)."""
self._hit.hit_def = self._value
self._hit.title += self._value
self._descr.title = self._hit.title
def _end_Hit_accession(self):
- """accession of the database sequence (PRIVATE)."""
+ """Accession of the database sequence (PRIVATE)."""
self._hit.accession = self._value
self._descr.accession = self._value
@@ -401,81 +414,81 @@ class BlastParser(_XMLparser):
# Hsp_num is useless
def _end_Hsp_score(self):
- """raw score of HSP (PRIVATE)."""
+ """Raw score of HSP (PRIVATE)."""
self._hsp.score = float(self._value)
if self._descr.score is None:
self._descr.score = float(self._value)
def _end_Hsp_bit_score(self):
- """bit score of HSP (PRIVATE)."""
+ """Bit score of HSP (PRIVATE)."""
self._hsp.bits = float(self._value)
if self._descr.bits is None:
self._descr.bits = float(self._value)
def _end_Hsp_evalue(self):
- """expect value of the HSP (PRIVATE)."""
+ """Expect value of the HSP (PRIVATE)."""
self._hsp.expect = float(self._value)
if self._descr.e is None:
self._descr.e = float(self._value)
def _end_Hsp_query_from(self):
- """offset of query at the start of the alignment (one-offset) (PRIVATE)."""
+ """Offset of query at the start of the alignment (one-offset) (PRIVATE)."""
self._hsp.query_start = int(self._value)
def _end_Hsp_query_to(self):
- """offset of query at the end of the alignment (one-offset) (PRIVATE)."""
+ """Offset of query at the end of the alignment (one-offset) (PRIVATE)."""
self._hsp.query_end = int(self._value)
def _end_Hsp_hit_from(self):
- """offset of the database at the start of the alignment (one-offset) (PRIVATE)."""
+ """Offset of the database at the start of the alignment (one-offset) (PRIVATE)."""
self._hsp.sbjct_start = int(self._value)
def _end_Hsp_hit_to(self):
- """offset of the database at the end of the alignment (one-offset) (PRIVATE)."""
+ """Offset of the database at the end of the alignment (one-offset) (PRIVATE)."""
self._hsp.sbjct_end = int(self._value)
# def _end_Hsp_pattern_from(self):
- # """start of phi-blast pattern on the query (one-offset) (PRIVATE)."""
+ # """Start of phi-blast pattern on the query (one-offset) (PRIVATE)."""
# pass # XXX TODO PSI
# def _end_Hsp_pattern_to(self):
- # """end of phi-blast pattern on the query (one-offset) (PRIVATE)."""
+ # """End of phi-blast pattern on the query (one-offset) (PRIVATE)."""
# pass # XXX TODO PSI
def _end_Hsp_query_frame(self):
- """frame of the query if applicable (PRIVATE)."""
+ """Frame of the query if applicable (PRIVATE)."""
self._hsp.frame = (int(self._value),)
def _end_Hsp_hit_frame(self):
- """frame of the database sequence if applicable (PRIVATE)."""
+ """Frame of the database sequence if applicable (PRIVATE)."""
self._hsp.frame += (int(self._value),)
def _end_Hsp_identity(self):
- """number of identities in the alignment (PRIVATE)."""
+ """Number of identities in the alignment (PRIVATE)."""
self._hsp.identities = int(self._value)
def _end_Hsp_positive(self):
- """number of positive (conservative) substitutions in the alignment (PRIVATE)."""
+ """Number of positive (conservative) substitutions in the alignment (PRIVATE)."""
self._hsp.positives = int(self._value)
def _end_Hsp_gaps(self):
- """number of gaps in the alignment (PRIVATE)."""
+ """Number of gaps in the alignment (PRIVATE)."""
self._hsp.gaps = int(self._value)
def _end_Hsp_align_len(self):
- """length of the alignment (PRIVATE)."""
+ """Length of the alignment (PRIVATE)."""
self._hsp.align_length = int(self._value)
# def _en_Hsp_density(self):
- # """score density (PRIVATE)."""
+ # """Score density (PRIVATE)."""
# pass # XXX ???
def _end_Hsp_qseq(self):
- """alignment string for the query (PRIVATE)."""
+ """Alignment string for the query (PRIVATE)."""
self._hsp.query = self._value
def _end_Hsp_hseq(self):
- """alignment string for the database (PRIVATE)."""
+ """Alignment string for the database (PRIVATE)."""
self._hsp.sbjct = self._value
def _end_Hsp_midline(self):
@@ -486,19 +499,19 @@ class BlastParser(_XMLparser):
# Statistics
def _end_Statistics_db_num(self):
- """number of sequences in the database (PRIVATE)."""
+ """Number of sequences in the database (PRIVATE)."""
self._blast.num_sequences_in_database = int(self._value)
def _end_Statistics_db_len(self):
- """number of letters in the database (PRIVATE)."""
+ """Number of letters in the database (PRIVATE)."""
self._blast.num_letters_in_database = int(self._value)
def _end_Statistics_hsp_len(self):
- """the effective HSP length (PRIVATE)."""
+ """The effective HSP length (PRIVATE)."""
self._blast.effective_hsp_length = int(self._value)
def _end_Statistics_eff_space(self):
- """the effective search space (PRIVATE)."""
+ """The effective search space (PRIVATE)."""
self._blast.effective_search_space = float(self._value)
def _end_Statistics_kappa(self):
@@ -642,32 +655,3 @@ def parse(handle, debug=0):
assert text == ""
assert pending == ""
assert len(blast_parser._records) == 0
-
-if __name__ == '__main__':
- import sys
- with open(sys.argv[1]) as handle:
- r_list = parse(handle)
-
- for r in r_list:
- # Small test
- print('Blast of %s' % r.query)
- print('Found %s alignments with a total of %s HSPs'
- % (len(r.alignments),
- reduce(lambda a, b: a + b,
- [len(a.hsps) for a in r.alignments])))
-
- for al in r.alignments:
- print("%s %i bp %i HSPs" % (al.title[:50], al.length, len(al.hsps)))
-
- # Cookbook example
- E_VALUE_THRESH = 0.04
- for alignment in r.alignments:
- for hsp in alignment.hsps:
- if hsp.expect < E_VALUE_THRESH:
- print('*****')
- print('sequence %s' % alignment.title)
- print('length %i' % alignment.length)
- print('e value %f' % hsp.expect)
- print(hsp.query[:75] + '...')
- print(hsp.match[:75] + '...')
- print(hsp.sbjct[:75] + '...')
diff --git a/Bio/Blast/ParseBlastTable.py b/Bio/Blast/ParseBlastTable.py
index 35df8dc..89b48ea 100644
--- a/Bio/Blast/ParseBlastTable.py
+++ b/Bio/Blast/ParseBlastTable.py
@@ -39,6 +39,7 @@ class BlastTableRec(object):
def add_entry(self, entry):
self.entries.append(entry)
+
reader_keywords = {'BLASTP': 'version',
'Iteration': 'iteration',
'Query': 'query',
diff --git a/Bio/Blast/Record.py b/Bio/Blast/Record.py
index e48e28c..bb330c7 100644
--- a/Bio/Blast/Record.py
+++ b/Bio/Blast/Record.py
@@ -42,6 +42,7 @@ class Header(object):
database_letters Number of letters in the database. (int)
"""
+
def __init__(self):
self.application = ''
self.version = ''
@@ -66,6 +67,7 @@ class Description(object):
e E value. (float)
num_alignments Number of alignments for the same subject. (int)
"""
+
def __init__(self):
self.title = ''
self.score = None
@@ -88,6 +90,7 @@ class Alignment(object):
hsps A list of HSP objects.
"""
+
def __init__(self):
self.title = ''
self.hit_id = ''
@@ -149,6 +152,7 @@ class HSP(object):
query_start and counts down.
"""
+
def __init__(self):
self.score = None
self.bits = None
@@ -208,6 +212,7 @@ class MultipleAlignment(object):
not aligned in the multiple alignment.
"""
+
def __init__(self):
self.alignment = []
@@ -257,6 +262,7 @@ class Round(object):
alignments A list of Alignment objects.
multiple_alignment A MultipleAlignment object.
"""
+
def __init__(self):
self.number = None
self.reused_seqs = []
@@ -278,6 +284,7 @@ class DatabaseReport(object):
ka_params_gap A tuple of (lambda, k, h) values. (floats)
"""
+
def __init__(self):
self.database_name = []
self.posted_date = []
@@ -321,6 +328,7 @@ class Parameters(object):
gap_trigger Tuple of (score, bits). (int, float)
blast_cutoff Tuple of (score, bits). (int, float)
"""
+
def __init__(self):
self.matrix = ''
self.gap_penalties = (None, None)
@@ -363,6 +371,7 @@ class Blast(Header, DatabaseReport, Parameters):
+ members inherited from base classes
"""
+
def __init__(self):
Header.__init__(self)
DatabaseReport.__init__(self)
@@ -381,6 +390,7 @@ class PSIBlast(Header, DatabaseReport, Parameters):
+ members inherited from base classes
"""
+
def __init__(self):
Header.__init__(self)
DatabaseReport.__init__(self)
diff --git a/Bio/CAPS/__init__.py b/Bio/CAPS/__init__.py
index 1820490..fdd40d8 100644
--- a/Bio/CAPS/__init__.py
+++ b/Bio/CAPS/__init__.py
@@ -3,13 +3,14 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""This module deals with CAPS markers.
+"""Cleaved amplified polymorphic sequence (CAPS) markers.
A CAPS marker is a location a DifferentialCutsite as described below and a
set of primers that can be used to visualize this. More information can
be found in the paper `Konieczny and Ausubel (1993)`_ (PMID 8106085).
.. _`Konieczny and Ausubel (1993)`: http://dx.doi.org/10.1046/j.1365-313X.1993.04020403.x
+
"""
@@ -35,7 +36,6 @@ class DifferentialCutsite(object):
Each member (as listed in the class description) should be included as a
keyword.
"""
-
self.start = int(kwds["start"])
self.enzyme = kwds["enzyme"]
self.cuts_in = kwds["cuts_in"]
@@ -53,6 +53,7 @@ class CAPSMap(object):
- alignment - The alignment that is mapped.
- dcuts - A list of possible CAPS markers in the form of
DifferentialCutsites.
+
"""
def __init__(self, alignment, enzymes=None):
@@ -64,6 +65,7 @@ class CAPSMap(object):
Optional:
- enzymes - List of enzymes to be used to create the map.
Defaults to an empty list.
+
"""
if enzymes is None:
enzymes = []
diff --git a/Bio/Cluster/__init__.py b/Bio/Cluster/__init__.py
index e3dea5c..fb8bde5 100644
--- a/Bio/Cluster/__init__.py
+++ b/Bio/Cluster/__init__.py
@@ -2,10 +2,22 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
#
+"""Cluster Analysis.
+
+The Bio.Cluster provides commonly used clustering algorithms and was
+designed with the application to gene expression data in mind. However,
+this module can also be used for cluster analysis of other types of data.
+
+Bio.Cluster and the underlying C Clustering Library is described in
+M. De Hoon et al. (2004) http://dx.doi.org/10.1093/bioinformatics/bth078
+"""
import numpy
-from Bio.Cluster.cluster import *
+from Bio.Cluster.cluster import version, kcluster, kmedoids, treecluster
+from Bio.Cluster.cluster import somcluster, median, mean, clusterdistance
+from Bio.Cluster.cluster import clustercentroids, distancematrix, pca
+from Bio.Cluster.cluster import Node, Tree
def _treesort(order, nodeorder, nodecounts, tree):
@@ -116,39 +128,39 @@ def _savetree(jobname, tree, order, transpose):
class Record(object):
"""Store gene expression data.
-A Record stores the gene expression data and related information contained
-in a data file following the file format defined for Michael Eisen's
-Cluster/TreeView program. A Record has the following members:
-
- - data: a matrix containing the gene expression data
- - mask: a matrix containing only 1's and 0's, denoting which values
- are present (1) or missing (0). If all elements of mask are
- one (no missing data), then mask is set to None.
- - geneid: a list containing a unique identifier for each gene
- (e.g., ORF name)
- - genename: a list containing an additional description for each gene
- (e.g., gene name)
- - gweight: the weight to be used for each gene when calculating the
- distance
- - gorder: an array of real numbers indicating the preferred order of the
- genes in the output file
- - expid: a list containing a unique identifier for each experimental
- condition
- - eweight: the weight to be used for each experimental condition when
- calculating the distance
- - eorder: an array of real numbers indication the preferred order in the
- output file of the experimental conditions
- - uniqid: the string that was used instead of UNIQID in the input file.
-
-"""
+ A Record stores the gene expression data and related information contained
+ in a data file following the file format defined for Michael Eisen's
+ Cluster/TreeView program.
+
+ Attributes:
+ - data: a matrix containing the gene expression data
+ - mask: a matrix containing only 1's and 0's, denoting which values
+ are present (1) or missing (0). If all elements of mask are
+ one (no missing data), then mask is set to None.
+ - geneid: a list containing a unique identifier for each gene
+ (e.g., ORF name)
+ - genename: a list containing an additional description for each gene
+ (e.g., gene name)
+ - gweight: the weight to be used for each gene when calculating the
+ distance
+ - gorder: an array of real numbers indicating the preferred order of the
+ genes in the output file
+ - expid: a list containing a unique identifier for each experimental
+ condition
+ - eweight: the weight to be used for each experimental condition when
+ calculating the distance
+ - eorder: an array of real numbers indication the preferred order in the
+ output file of the experimental conditions
+ - uniqid: the string that was used instead of UNIQID in the input file.
+
+ """
def __init__(self, handle=None):
"""Read gene expression data from the file handle and return a Record.
-The file should be in the format defined for Michael Eisen's
-Cluster/TreeView program.
-
-"""
+ The file should be in the format defined for Michael Eisen's
+ Cluster/TreeView program.
+ """
self.data = None
self.mask = None
self.geneid = None
@@ -232,33 +244,33 @@ Cluster/TreeView program.
def treecluster(self, transpose=0, method='m', dist='e'):
"""Apply hierarchical clustering and return a Tree object.
-The pairwise single, complete, centroid, and average linkage hierarchical
-clustering methods are available.
-
-- transpose: if equal to 0, genes (rows) are clustered;
- if equal to 1, microarrays (columns) are clustered.
-- dist : specifies the distance function to be used:
-
- - dist=='e': Euclidean distance
- - dist=='b': City Block distance
- - dist=='c': Pearson correlation
- - dist=='a': absolute value of the correlation
- - dist=='u': uncentered correlation
- - dist=='x': absolute uncentered correlation
- - dist=='s': Spearman's rank correlation
- - dist=='k': Kendall's tau
-
-- method : specifies which linkage method is used:
-
- - method=='s': Single pairwise linkage
- - method=='m': Complete (maximum) pairwise linkage (default)
- - method=='c': Centroid linkage
- - method=='a': Average pairwise linkage
-
-See the description of the Tree class for more information about the Tree
-object returned by this method.
-
-"""
+ The pairwise single, complete, centroid, and average linkage
+ hierarchical clustering methods are available.
+
+ Arguments:
+ - transpose: if equal to 0, genes (rows) are clustered;
+ if equal to 1, microarrays (columns) are clustered.
+ - dist : specifies the distance function to be used:
+
+ - dist=='e': Euclidean distance
+ - dist=='b': City Block distance
+ - dist=='c': Pearson correlation
+ - dist=='a': absolute value of the correlation
+ - dist=='u': uncentered correlation
+ - dist=='x': absolute uncentered correlation
+ - dist=='s': Spearman's rank correlation
+ - dist=='k': Kendall's tau
+
+ - method : specifies which linkage method is used:
+
+ - method=='s': Single pairwise linkage
+ - method=='m': Complete (maximum) pairwise linkage (default)
+ - method=='c': Centroid linkage
+ - method=='a': Average pairwise linkage
+
+ See the description of the Tree class for more information about
+ the Tree object returned by this method.
+ """
if transpose == 0:
weight = self.eweight
else:
@@ -270,48 +282,48 @@ object returned by this method.
initialid=None):
"""Apply k-means or k-median clustering.
-This method returns a tuple (clusterid, error, nfound).
-
- - nclusters: number of clusters (the 'k' in k-means)
- - transpose: if equal to 0, genes (rows) are clustered;
- if equal to 1, microarrays (columns) are clustered.
- - npass : number of times the k-means clustering algorithm is
- performed, each time with a different (random) initial
- condition.
- - method : specifies how the center of a cluster is found:
- method=='a': arithmetic mean
- method=='m': median
- - dist : specifies the distance function to be used:
-
- - dist=='e': Euclidean distance
- - dist=='b': City Block distance
- - dist=='c': Pearson correlation
- - dist=='a': absolute value of the correlation
- - dist=='u': uncentered correlation
- - dist=='x': absolute uncentered correlation
- - dist=='s': Spearman's rank correlation
- - dist=='k': Kendall's tau
-
- - initialid: the initial clustering from which the algorithm should start.
- If initialid is None, the routine carries out npass
- repetitions of the EM algorithm, each time starting from a
- different random initial clustering. If initialid is given,
- the routine carries out the EM algorithm only once, starting
- from the given initial clustering and without randomizing the
- order in which items are assigned to clusters (i.e., using
- the same order as in the data matrix). In that case, the
- k-means algorithm is fully deterministic.
-
-Return values:
- - clusterid: array containing the number of the cluster to which each
- gene/microarray was assigned in the best k-means clustering
- solution that was found in the npass runs;
- - error: the within-cluster sum of distances for the returned k-means
- clustering solution;
- - nfound: the number of times this solution was found.
-
-"""
-
+ This method returns a tuple (clusterid, error, nfound).
+
+ Arguments:
+ - nclusters: number of clusters (the 'k' in k-means)
+ - transpose: if equal to 0, genes (rows) are clustered;
+ if equal to 1, microarrays (columns) are clustered.
+ - npass : number of times the k-means clustering algorithm is
+ performed, each time with a different (random) initial condition.
+ - method : specifies how the center of a cluster is found:
+
+ - method=='a': arithmetic mean
+ - method=='m': median
+
+ - dist : specifies the distance function to be used:
+
+ - dist=='e': Euclidean distance
+ - dist=='b': City Block distance
+ - dist=='c': Pearson correlation
+ - dist=='a': absolute value of the correlation
+ - dist=='u': uncentered correlation
+ - dist=='x': absolute uncentered correlation
+ - dist=='s': Spearman's rank correlation
+ - dist=='k': Kendall's tau
+
+ - initialid: the initial clustering from which the algorithm should
+ start. If initialid is None, the routine carries out npass
+ repetitions of the EM algorithm, each time starting from a different
+ random initial clustering. If initialid is given, the routine
+ carries out the EM algorithm only once, starting from the given
+ initial clustering and without randomizing the order in which items
+ are assigned to clusters (i.e., using the same order as in the data
+ matrix). In that case, the k-means algorithm is fully deterministic.
+
+ Return values:
+ - clusterid: array containing the number of the cluster to which each
+ gene/microarray was assigned in the best k-means clustering
+ solution that was found in the npass runs;
+ - error: the within-cluster sum of distances for the returned
+ k-means clustering solution;
+ - nfound: the number of times this solution was found.
+
+ """
if transpose == 0:
weight = self.eweight
else:
@@ -323,42 +335,40 @@ Return values:
niter=1, dist='e'):
"""Calculate a self-organizing map on a rectangular grid.
-The somcluster method returns a tuple (clusterid, celldata).
-
- - transpose: if equal to 0, genes (rows) are clustered;
- if equal to 1, microarrays (columns) are clustered.
- - nxgrid : the horizontal dimension of the rectangular SOM map
- - nygrid : the vertical dimension of the rectangular SOM map
- - inittau : the initial value of tau (the neighborbood function)
- - niter : the number of iterations
- - dist : specifies the distance function to be used:
-
- - dist=='e': Euclidean distance
- - dist=='b': City Block distance
- - dist=='c': Pearson correlation
- - dist=='a': absolute value of the correlation
- - dist=='u': uncentered correlation
- - dist=='x': absolute uncentered correlation
- - dist=='s': Spearman's rank correlation
- - dist=='k': Kendall's tau
-
-Return values:
-
- - clusterid: array with two columns, while the number of rows is equal to
- the number of genes or the number of microarrays depending on
- whether genes or microarrays are being clustered. Each row in
- the array contains the x and y coordinates of the cell in the
- rectangular SOM grid to which the gene or microarray was
- assigned.
- - celldata: an array with dimensions (nxgrid, nygrid, number of
- microarrays) if genes are being clustered, or (nxgrid,
- nygrid, number of genes) if microarrays are being clustered.
- Each element [ix][iy] of this array is a 1D vector containing
- the gene expression data for the centroid of the cluster in
- the SOM grid cell with coordinates (ix, iy).
-
-"""
-
+ The somcluster method returns a tuple (clusterid, celldata).
+
+ Arguments:
+ - transpose: if equal to 0, genes (rows) are clustered;
+ if equal to 1, microarrays (columns) are clustered.
+ - nxgrid : the horizontal dimension of the rectangular SOM map
+ - nygrid : the vertical dimension of the rectangular SOM map
+ - inittau : the initial value of tau (the neighborbood function)
+ - niter : the number of iterations
+ - dist : specifies the distance function to be used:
+
+ - dist=='e': Euclidean distance
+ - dist=='b': City Block distance
+ - dist=='c': Pearson correlation
+ - dist=='a': absolute value of the correlation
+ - dist=='u': uncentered correlation
+ - dist=='x': absolute uncentered correlation
+ - dist=='s': Spearman's rank correlation
+ - dist=='k': Kendall's tau
+
+ Return values:
+ - clusterid: array with two columns, while the number of rows is equal
+ to the number of genes or the number of microarrays depending on
+ whether genes or microarrays are being clustered. Each row in
+ the array contains the x and y coordinates of the cell in the
+ rectangular SOM grid to which the gene or microarray was assigned.
+ - celldata: an array with dimensions (nxgrid, nygrid, number of
+ microarrays) if genes are being clustered, or (nxgrid, nygrid,
+ number of genes) if microarrays are being clustered. Each element
+ [ix][iy] of this array is a 1D vector containing the gene
+ expression data for the centroid of the cluster in the SOM grid
+ cell with coordinates (ix, iy).
+
+ """
if transpose == 0:
weight = self.eweight
else:
@@ -369,29 +379,30 @@ Return values:
def clustercentroids(self, clusterid=None, method='a', transpose=0):
"""Calculate the cluster centroids and return a tuple (cdata, cmask).
-The centroid is defined as either the mean or the median over all elements
-for each dimension.
-
- - data : nrows x ncolumns array containing the expression data
- - mask : nrows x ncolumns array of integers, showing which data are
- missing. If mask[i][j]==0, then data[i][j] is missing.
- - transpose: if equal to 0, gene (row) clusters are considered;
- if equal to 1, microarray (column) clusters are considered.
- - clusterid: array containing the cluster number for each gene or
- microarray. The cluster number should be non-negative.
- - method : specifies how the centroid is calculated:
- method=='a': arithmetic mean over each dimension. (default)
- method=='m': median over each dimension.
-
-Return values:
- - cdata : 2D array containing the cluster centroids. If transpose==0,
- then the dimensions of cdata are nclusters x ncolumns. If
- transpose==1, then the dimensions of cdata are
- nrows x nclusters.
- - cmask : 2D array of integers describing which elements in cdata,
- if any, are missing.
-
-"""
+ The centroid is defined as either the mean or the median over all
+ elements for each dimension.
+
+ Arguments:
+ - data : nrows x ncolumns array containing the expression data
+ - mask : nrows x ncolumns array of integers, showing which data
+ are missing. If mask[i][j]==0, then data[i][j] is missing.
+ - transpose: if equal to 0, gene (row) clusters are considered;
+ if equal to 1, microarray (column) clusters are considered.
+ - clusterid: array containing the cluster number for each gene or
+ microarray. The cluster number should be non-negative.
+ - method : specifies how the centroid is calculated:
+
+ - method=='a': arithmetic mean over each dimension. (default)
+ - method=='m': median over each dimension.
+
+ Return values:
+ - cdata : 2D array containing the cluster centroids. If transpose==0,
+ then the dimensions of cdata are nclusters x ncolumns. If
+ transpose==1, then the dimensions of cdata are nrows x nclusters.
+ - cmask : 2D array of integers describing which elements in cdata,
+ if any, are missing.
+
+ """
return clustercentroids(self.data, self.mask, clusterid, method,
transpose)
@@ -399,43 +410,42 @@ Return values:
transpose=0):
"""Calculate the distance between two clusters.
- - index1 : 1D array identifying which genes/microarrays belong to the
- first cluster. If the cluster contains only one gene, then
- index1 can also be written as a single integer.
- - index2 : 1D array identifying which genes/microarrays belong to the
- second cluster. If the cluster contains only one gene, then
- index2 can also be written as a single integer.
- - transpose: if equal to 0, genes (rows) are clustered;
- if equal to 1, microarrays (columns) are clustered.
- - dist : specifies the distance function to be used:
-
- - dist=='e': Euclidean distance
- - dist=='b': City Block distance
- - dist=='c': Pearson correlation
- - dist=='a': absolute value of the correlation
- - dist=='u': uncentered correlation
- - dist=='x': absolute uncentered correlation
- - dist=='s': Spearman's rank correlation
- - dist=='k': Kendall's tau
-
- - method : specifies how the distance between two clusters is defined:
-
- - method=='a': the distance between the arithmetic means of the
- two clusters
- - method=='m': the distance between the medians of the two
- clusters
- - method=='s': the smallest pairwise distance between members
- of the two clusters
- - method=='x': the largest pairwise distance between members of
- the two clusters
- - method=='v': average of the pairwise distances between
- members of the clusters
-
- - transpose: if equal to 0: clusters of genes (rows) are considered;
- if equal to 1: clusters of microarrays (columns) are considered.
-
-"""
-
+ Arguments:
+ - index1 : 1D array identifying which genes/microarrays belong to the
+ first cluster. If the cluster contains only one gene, then
+ index1 can also be written as a single integer.
+ - index2 : 1D array identifying which genes/microarrays belong to the
+ second cluster. If the cluster contains only one gene, then
+ index2 can also be written as a single integer.
+ - transpose: if equal to 0, genes (rows) are clustered;
+ if equal to 1, microarrays (columns) are clustered.
+ - dist : specifies the distance function to be used:
+
+ - dist=='e': Euclidean distance
+ - dist=='b': City Block distance
+ - dist=='c': Pearson correlation
+ - dist=='a': absolute value of the correlation
+ - dist=='u': uncentered correlation
+ - dist=='x': absolute uncentered correlation
+ - dist=='s': Spearman's rank correlation
+ - dist=='k': Kendall's tau
+
+ - method : specifies how the distance between two clusters is defined:
+
+ - method=='a': the distance between the arithmetic means of the
+ two clusters
+ - method=='m': the distance between the medians of the two clusters
+ - method=='s': the smallest pairwise distance between members of
+ the two clusters
+ - method=='x': the largest pairwise distance between members of
+ the two clusters
+ - method=='v': average of the pairwise distances between members
+ of the clusters
+
+ - transpose: if equal to 0: clusters of genes (rows) are considered;
+ if equal to 1: clusters of microarrays (columns) are considered.
+
+ """
if transpose == 0:
weight = self.eweight
else:
@@ -444,41 +454,43 @@ Return values:
index1, index2, method, dist, transpose)
def distancematrix(self, transpose=0, dist='e'):
- """Calculate the distance matrix and return it as a list of arrays
-
- - transpose: if equal to 0: calculate the distances between genes (rows);
- if equal to 1: calculate the distances beteeen microarrays
- (columns).
- - dist : specifies the distance function to be used:
-
- - dist=='e': Euclidean distance
- - dist=='b': City Block distance
- - dist=='c': Pearson correlation
- - dist=='a': absolute value of the correlation
- - dist=='u': uncentered correlation
- - dist=='x': absolute uncentered correlation
- - dist=='s': Spearman's rank correlation
- - dist=='k': Kendall's tau
-
-Return value:
-The distance matrix is returned as a list of 1D arrays containing the
-distance matrix between the gene expression data. The number of columns
-in each row is equal to the row number. Hence, the first row has zero
-elements. An example of the return value is::
-
- matrix = [[],
- array([1.]),
- array([7., 3.]),
- array([4., 2., 6.])]
-
-This corresponds to the distance matrix::
-
- [0., 1., 7., 4.]
- [1., 0., 3., 2.]
- [7., 3., 0., 6.]
- [4., 2., 6., 0.]
-
-"""
+ """Calculate the distance matrix and return it as a list of arrays.
+
+ Arguments:
+ - transpose: if equal to 0: calculate the distances between genes
+ (rows); if equal to 1: calculate the distances beteeen microarrays
+ (columns).
+ - dist : specifies the distance function to be used:
+
+ - dist=='e': Euclidean distance
+ - dist=='b': City Block distance
+ - dist=='c': Pearson correlation
+ - dist=='a': absolute value of the correlation
+ - dist=='u': uncentered correlation
+ - dist=='x': absolute uncentered correlation
+ - dist=='s': Spearman's rank correlation
+ - dist=='k': Kendall's tau
+
+ Return value:
+
+ The distance matrix is returned as a list of 1D arrays containing the
+ distance matrix between the gene expression data. The number of columns
+ in each row is equal to the row number. Hence, the first row has zero
+ elements. An example of the return value is::
+
+ matrix = [[],
+ array([1.]),
+ array([7., 3.]),
+ array([4., 2., 6.])]
+
+ This corresponds to the distance matrix::
+
+ [0., 1., 7., 4.]
+ [1., 0., 3., 2.]
+ [7., 3., 0., 6.]
+ [4., 2., 6., 0.]
+
+ """
if transpose == 0:
weight = self.eweight
else:
@@ -488,30 +500,26 @@ This corresponds to the distance matrix::
def save(self, jobname, geneclusters=None, expclusters=None):
"""Save the clustering results.
-The saved files follow the convention for the Java TreeView program,
-which can therefore be used to view the clustering result.
-
-Arguments:
-
- - jobname: The base name of the files to be saved. The filenames are
- jobname.cdt, jobname.gtr, and jobname.atr for
- hierarchical clustering, and jobname-K*.cdt,
- jobname-K*.kgg, jobname-K*.kag for k-means clustering
- results.
- - geneclusters=None: For hierarchical clustering results, geneclusters
- is a Tree object as returned by the treecluster method.
- For k-means clustering results, geneclusters is a vector
- containing ngenes integers, describing to which cluster a
- given gene belongs. This vector can be calculated by
- kcluster.
- - expclusters=None: For hierarchical clustering results, expclusters
- is a Tree object as returned by the treecluster method.
- For k-means clustering results, expclusters is a vector
- containing nexps integers, describing to which cluster a
- given experimental condition belongs. This vector can be
- calculated by kcluster.
-
-"""
+ The saved files follow the convention for the Java TreeView program,
+ which can therefore be used to view the clustering result.
+
+ Arguments:
+ - jobname: The base name of the files to be saved. The filenames
+ are jobname.cdt, jobname.gtr, and jobname.atr for hierarchical
+ clustering, and jobname-K*.cdt, jobname-K*.kgg, jobname-K*.kag
+ for k-means clustering results.
+ - geneclusters=None: For hierarchical clustering results,
+ geneclusters is a Tree object as returned by the treecluster
+ method. For k-means clustering results, geneclusters is a vector
+ containing ngenes integers, describing to which cluster a given
+ gene belongs. This vector can be calculated by kcluster.
+ - expclusters=None: For hierarchical clustering results, expclusters
+ is a Tree object as returned by the treecluster method. For k-means
+ clustering results, expclusters is a vector containing nexps
+ integers, describing to which cluster a given experimental
+ condition belongs. This vector can be calculated by kcluster.
+
+ """
(ngenes, nexps) = numpy.shape(self.data)
if self.gorder is None:
gorder = numpy.arange(ngenes)
@@ -641,8 +649,7 @@ Arguments:
def read(handle):
"""Read gene expression data from the file handle and return a Record.
-The file should be in the file format defined for Michael Eisen's
-Cluster/TreeView program.
-
-"""
+ The file should be in the file format defined for Michael Eisen's
+ Cluster/TreeView program.
+ """
return Record(handle)
diff --git a/Bio/Compass/__init__.py b/Bio/Compass/__init__.py
index 8fcc858..d03c62c 100644
--- a/Bio/Compass/__init__.py
+++ b/Bio/Compass/__init__.py
@@ -129,6 +129,7 @@ class Record(object):
# Everything below is private
+
__regex = {"names": re.compile("Ali1:\s+(\S+)\s+Ali2:\s+(\S+)\s+"),
"threshold": re.compile("Threshold of effective gap content in columns: (\S+)"),
"lengths": re.compile("length1=(\S+)\s+filtered_length1=(\S+)\s+length2=(\S+)\s+filtered_length2=(\S+)"),
diff --git a/Bio/Crystal/__init__.py b/Bio/Crystal/__init__.py
index c381df4..d21169c 100644
--- a/Bio/Crystal/__init__.py
+++ b/Bio/Crystal/__init__.py
@@ -3,8 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-Module to represent the NDB Atlas structure (a minimal subset of PDB format).
+"""Represent the NDB Atlas structure (a minimal subset of PDB format).
Hetero, Crystal and Chain exist to represent the NDB Atlas structure. Atlas
is a minimal subset of the PDB format. Heteo supports a 3 alphameric code.
@@ -37,11 +36,12 @@ def validate_key(key):
class Hetero(object):
- """This class exists to support the PDB hetero codes.
+ """Class to support the PDB hetero codes.
Supports only the 3 alphameric code.
The annotation is available from http://alpha2.bmc.uu.se/hicup/
"""
+
def __init__(self, data):
# Enforce string storage
if not isinstance(data, str):
@@ -73,7 +73,7 @@ class Hetero(object):
class Chain(object):
- """This class represents a sequence of Hetero elements."""
+ """Class representing a sequence of Hetero elements."""
def __init__(self, residues=''):
self.data = []
diff --git a/Bio/Data/CodonTable.py b/Bio/Data/CodonTable.py
index c0aea76..f699b58 100644
--- a/Bio/Data/CodonTable.py
+++ b/Bio/Data/CodonTable.py
@@ -46,6 +46,7 @@ class TranslationError(Exception):
class CodonTable(object):
"""A codon-table, or genetic code."""
+
nucleotide_alphabet = Alphabet.generic_nucleotide
protein_alphabet = Alphabet.generic_protein
@@ -75,7 +76,6 @@ class CodonTable(object):
>>> print(Bio.Data.CodonTable.standard_dna_table)
>>> print(Bio.Data.CodonTable.generic_by_id[1])
"""
-
if self.id:
answer = "Table %i" % self.id
else:
@@ -230,7 +230,6 @@ def list_ambiguous_codons(codons, ambiguous_nucleotide_values):
Returns a new (longer) list of codon strings.
"""
-
# Note ambiguous_nucleotide_values['R'] = 'AG' (etc)
# This will generate things like 'TRR' from ['TAG', 'TGA'], which
# we don't want to include:
@@ -269,6 +268,7 @@ def list_ambiguous_codons(codons, ambiguous_nucleotide_values):
answer.append(ambig_codon)
return answer
+
assert list_ambiguous_codons(['TGA', 'TAA'], IUPACData.ambiguous_dna_values) == ['TGA', 'TAA', 'TRA']
assert list_ambiguous_codons(['TAG', 'TGA'], IUPACData.ambiguous_dna_values) == ['TAG', 'TGA']
assert list_ambiguous_codons(['TAG', 'TAA'], IUPACData.ambiguous_dna_values) == ['TAG', 'TAA', 'TAR']
diff --git a/Bio/Data/IUPACData.py b/Bio/Data/IUPACData.py
index 0b39a4a..a24e3c5 100644
--- a/Bio/Data/IUPACData.py
+++ b/Bio/Data/IUPACData.py
@@ -145,6 +145,7 @@ def _make_ranges(mydict):
# Mass data taken from PubChem
+
# Average masses of monophosphate deoxy nucleotides
unambiguous_dna_weights = {
"A": 331.2218,
@@ -196,6 +197,7 @@ def _make_ambiguous_ranges(mydict, weight_table):
avg_d[letter] = total_w / len(weights)
return range_d, avg_d
+
ambiguous_dna_weight_ranges, avg_ambiguous_dna_weights = \
_make_ambiguous_ranges(ambiguous_dna_values,
unambiguous_dna_weights)
@@ -297,6 +299,7 @@ extended_protein_weight_ranges, avg_extended_protein_weights = \
# Taken from http://www.chem.qmul.ac.uk/iupac/AtWt/ & PyMol
atom_weights = {
'H': 1.00794,
+ 'D': 2.01410,
'He': 4.002602,
'Li': 6.941,
'Be': 9.012182,
diff --git a/Bio/DocSQL.py b/Bio/DocSQL.py
index 9bace71..13fc407 100755
--- a/Bio/DocSQL.py
+++ b/Bio/DocSQL.py
@@ -5,7 +5,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Bio.DocSQL: easy access to DB API databases.
+"""Bio.DocSQL: easy access to DB API databases (DEPRECATED).
>>> import os
>>> import MySQLdb
@@ -26,12 +26,17 @@ CreatePeople(message=Success)
from __future__ import print_function
import sys
+import warnings
from Bio import MissingPythonDependencyError
+from Bio import BiopythonDeprecationWarning
+
+warnings.warn("Bio.DocSQL is now deprecated will be removed in a "
+ "future release of Biopython.", BiopythonDeprecationWarning)
try:
import MySQLdb
-except:
+except ImportError:
raise MissingPythonDependencyError("Install MySQLdb if you want to use "
"Bio.DocSQL.")
@@ -85,9 +90,8 @@ class QueryRow(list):
class Query(object):
- """
- SHOW TABLES
- """
+ """SHOW TABLES."""
+
MSG_FAILURE = "Failure"
MSG_SUCCESS = "Success"
message = "not executed"
@@ -222,6 +226,7 @@ def _test(*args, **keywds):
import doctest
doctest.testmod(sys.modules[__name__], *args, **keywds)
+
if __name__ == "__main__":
if __debug__:
_test()
diff --git a/Bio/Emboss/Applications.py b/Bio/Emboss/Applications.py
index 41ad5ff..357f6c2 100644
--- a/Bio/Emboss/Applications.py
+++ b/Bio/Emboss/Applications.py
@@ -23,6 +23,7 @@ class _EmbossMinimalCommandLine(AbstractCommandline):
This is provided for subclassing, it deals with shared options
common to all the EMBOSS tools:
+ Attributes:
- auto Turn off prompts
- stdout Write standard output
- filter Read standard input, write standard output
@@ -36,7 +37,9 @@ class _EmbossMinimalCommandLine(AbstractCommandline):
- error Report errors
- fatal Report fatal errors
- die Report dying program messages
+
"""
+
def __init__(self, cmd=None, **kwargs):
assert cmd is not None
extra_parameters = [
@@ -93,6 +96,7 @@ class _EmbossCommandLine(_EmbossMinimalCommandLine):
- outfile Output filename
"""
+
def __init__(self, cmd=None, **kwargs):
assert cmd is not None
extra_parameters = [
@@ -151,6 +155,7 @@ class Primer3Commandline(_EmbossCommandLine):
eprimer3 -auto -outfile=myresults.out -sequence=mysequence.fas -hybridprobe=True -productosize=200 -oligosize=20 -explainflag=True
"""
+
def __init__(self, cmd="eprimer3", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -488,6 +493,7 @@ class FDNADistCommandline(_EmbossCommandLine):
fdnadist is an EMBOSS wrapper for the PHYLIP program dnadist for
calulating distance matrices from DNA sequence files.
"""
+
def __init__(self, cmd="fdnadist", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -529,6 +535,7 @@ class FTreeDistCommandline(_EmbossCommandLine):
ftreedist is an EMBOSS wrapper for the PHYLIP program treedist used for
calulating distance measures between phylogentic trees.
"""
+
def __init__(self, cmd="ftreedist", **kwargs):
self.parameters = [
_Option(["-intreefile", "intreefile"],
@@ -555,6 +562,7 @@ class FNeighborCommandline(_EmbossCommandLine):
fneighbor is an EMBOSS wrapper for the PHYLIP program neighbor used for
calulating neighbor-joining or UPGMA trees from distance matrices.
"""
+
def __init__(self, cmd="fneighbor", **kwargs):
self.parameters = [
_Option(["-datafile", "datafile"],
@@ -589,6 +597,7 @@ class FSeqBootCommandline(_EmbossCommandLine):
fseqboot is an EMBOSS wrapper for the PHYLIP program seqboot used to
pseudo-sample alignment files.
"""
+
def __init__(self, cmd="fseqboot", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -632,6 +641,7 @@ class FDNAParsCommandline(_EmbossCommandLine):
"interactive mode" (and as a result fail if called with subprocess) if
"-auto" is not set to true.
"""
+
def __init__(self, cmd="fdnapars", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -679,6 +689,7 @@ class FProtParsCommandline(_EmbossCommandLine):
"interactive mode" (and as a result fail if called with subprocess) if
"-auto" is not set to true.
"""
+
def __init__(self, cmd="fprotpars", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -719,6 +730,7 @@ class FProtDistCommandline(_EmbossCommandLine):
fprotdist is an EMBOSS wrapper for the PHYLIP program protdist used to
estimate trees from protein sequences using parsimony
"""
+
def __init__(self, cmd="fprotdist", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -761,6 +773,7 @@ class FConsenseCommandline(_EmbossCommandLine):
fconsense is an EMBOSS wrapper for the PHYLIP program consense used to
calculate consensus trees.
"""
+
def __init__(self, cmd="fconsense", **kwargs):
self.parameters = [
_Option(["-intreefile", "intreefile"],
@@ -784,8 +797,8 @@ class FConsenseCommandline(_EmbossCommandLine):
class WaterCommandline(_EmbossCommandLine):
- """Commandline object for the water program from EMBOSS.
- """
+ """Commandline object for the water program from EMBOSS."""
+
def __init__(self, cmd="water", **kwargs):
self.parameters = [
_Option(["-asequence", "asequence"],
@@ -823,6 +836,7 @@ class WaterCommandline(_EmbossCommandLine):
class NeedleCommandline(_EmbossCommandLine):
"""Commandline object for the needle program from EMBOSS."""
+
def __init__(self, cmd="needle", **kwargs):
self.parameters = [
_Option(["-asequence", "asequence"],
@@ -1168,6 +1182,7 @@ class IepCommandline(_EmbossCommandLine):
You would typically run the command line with iep_cline() or via the
Python subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="iep", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -1213,6 +1228,7 @@ class SeqretCommandline(_EmbossMinimalCommandLine):
This wrapper currently only supports the core functionality, things like
feature tables (in EMBOSS 6.1.0 onwards) are not yet included.
"""
+
def __init__(self, cmd="seqret", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
@@ -1242,7 +1258,7 @@ class SeqretCommandline(_EmbossMinimalCommandLine):
class SeqmatchallCommandline(_EmbossCommandLine):
- """ Commandline object for the seqmatchall program from EMBOSS
+ """Commandline object for the seqmatchall program from EMBOSS
e.g.
>>> cline = SeqmatchallCommandline(sequence="opuntia.fasta", outfile="opuntia.txt")
@@ -1253,6 +1269,7 @@ class SeqmatchallCommandline(_EmbossCommandLine):
seqmatchall -auto -outfile=opuntia.txt -sequence=opuntia.fasta -wordsize=18 -aformat=pair
"""
+
def __init__(self, cmd="seqmatchall", **kwargs):
self.parameters = [
_Option(["-sequence", "sequence"],
diff --git a/Bio/Emboss/Primer3.py b/Bio/Emboss/Primer3.py
index 45e0591..9a7e1c5 100644
--- a/Bio/Emboss/Primer3.py
+++ b/Bio/Emboss/Primer3.py
@@ -31,6 +31,7 @@ class Record(object):
- comments - the comment line(s) for the record
"""
+
def __init__(self):
self.comments = ""
self.primers = []
@@ -63,6 +64,7 @@ class Primers(object):
- internal_gc
"""
+
def __init__(self):
self.size = 0
self.forward_seq = ""
@@ -87,8 +89,7 @@ class Primers(object):
def parse(handle):
- """Iterate over primer3 output as Bio.Emboss.Primer3.Record objects.
- """
+ """Iterate over primer3 output as Bio.Emboss.Primer3.Record objects."""
# Skip blank lines at head of file
while True:
line = handle.readline()
diff --git a/Bio/Emboss/PrimerSearch.py b/Bio/Emboss/PrimerSearch.py
index 530ce17..7910631 100644
--- a/Bio/Emboss/PrimerSearch.py
+++ b/Bio/Emboss/PrimerSearch.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Code to interact with the primersearch program from EMBOSS.
-"""
+"""Code to interact with the primersearch program from EMBOSS."""
class InputRecord(object):
@@ -13,6 +12,7 @@ class InputRecord(object):
This makes it easy to add primer information and write it out to the
simple primer file format.
"""
+
def __init__(self):
self.primer_info = []
@@ -24,8 +24,7 @@ class InputRecord(object):
def add_primer_set(self, primer_name, first_primer_seq,
second_primer_seq):
- """Add primer information to the record.
- """
+ """Add primer information to the record."""
self.primer_info.append((primer_name, first_primer_seq,
second_primer_seq))
@@ -36,21 +35,21 @@ class OutputRecord(object):
amplifiers is a dictionary where the keys are the primer names and
the values are a list of PrimerSearchAmplifier objects.
"""
+
def __init__(self):
self.amplifiers = {}
class Amplifier(object):
- """Represent a single amplification from a primer.
- """
+ """Represent a single amplification from a primer."""
+
def __init__(self):
self.hit_info = ""
self.length = 0
def read(handle):
- """Get output from primersearch into a PrimerSearchOutputRecord
- """
+ """Get output from primersearch into a PrimerSearchOutputRecord."""
record = OutputRecord()
for line in handle:
diff --git a/Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd b/Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd
new file mode 100644
index 0000000..02a1993
--- /dev/null
+++ b/Bio/Entrez/DTDs/nlmcatalogrecordset_170601.dtd
@@ -0,0 +1,280 @@
+<!-- NLMCatalogRecordSet DTD
+
+ Comments and suggestions are welcome.
+ June 1, 2017
+
+ **THIS IS THE CURRENT DTD FOR 2017 CURRENTLY IN USE.**
+
+ This is the DTD which NLM has written for Internal and External Use.
+ If you are a data Licensee, use the information
+ from the NLMCatalogRecordSet.
+
+
+* = 0 or more occurrences (optional element, repeatable)
+? = 0 or 1 occurrences (optional element, at most 1)
++ = 1 or more occurrences (required element, repeatable)
+| = choice, one or the other but not both
+no symbol = required element
+
+-->
+<!-- ================================================================= -->
+<!-- Revision Notes Section
+
+ The following changes were made in the nlmcatalogrecordset_170101.dtd:
+
+ a. Changed nlmcatalogrecordset_170101.dtd to nlmcatalogrecordset_170601.dtd.
+ b. Added URI attribute to MeshHeading to accommodate MeSH RDF URIs
+
+See http://www.nlm.nih.gov/databases/dtd/history_dtd_nlmcatalogrecord.html
+for historic Revision Notes for previous versions of NLMCatalogRecordSet DTD.
+-->
+<!-- ================================================================= -->
+<!ELEMENT NLMCatalogRecordSet (NLMCatalogRecord+, DeleteCatalogRecord?)>
+<!ELEMENT NLMCatalogRecord (NlmUniqueID, DateCreated, DateRevised, DateAuthorized?,
+ DateCompleted?, DateRevisedMajor?, CollaborativePartnerDate*, TitleMain,
+ MedlineTA?,TitleAlternate*, TitleRelated*, AuthorList?, InvestigatorList?, ResourceInfo,
+ ResourceCharacteristics*, PublicationTypeList?, GenreList?, PublicationInfo,
+ Language*, PhysicalDescription?, Abstract?,
+ OtherAbstract*, ContentsNote*, IndexingSourceList?,
+ GeneralNote*, LocalNote*, PersonalNameSubjectList?, MeshHeadingList?,
+ OtherSubjectList*, SpaceFlightMission*, KeywordList*,
+ BroadJournalHeadingList?, Classification*,
+ GovDocClassNumber*, ELocationList?, Host*, LCCN*, ISBN*, ISSN*,
+ ISSNLinking*, NCBIIssnAlias*, STRN*, Coden*, OtherID*,
+ AcquisitionInfoList?, ReportNumber*)>
+<!ATTLIST NLMCatalogRecord
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM |
+ NOTNLM | NYA | PIP | Undetermined) "Undetermined"
+ Status (Brief | Cataloging-In-Publication | Completed | In-Process |
+ Not-Our-Cataloging | On-Order | Undetermined | Withdrawn) #REQUIRED>
+<!ELEMENT Abstract (AbstractText)>
+<!ELEMENT AbstractText (#PCDATA)>
+<!ELEMENT AcquisitionInfo (StockNumber?, AcquisitionSource?)>
+<!ELEMENT AcquisitionInfoList (AcquisitionInfo+)>
+<!ELEMENT AcquisitionSource (#PCDATA)>
+<!ELEMENT Affiliation (#PCDATA)>
+<!ELEMENT Author (((LastName, ForeName?, Initials?, Suffix?) | CollectiveName),
+ Affiliation?, DatesAssociatedWithName?, Identifier*,
+ NameQualifier?, OtherInformation?, TitleAssociatedWithName?,Role*)>
+<!ELEMENT AuthorList (Author+)>
+<!ATTLIST AuthorList
+ CompleteYN (Y | N) "Y">
+<!ELEMENT BookFormat (#PCDATA)>
+<!ELEMENT BroadJournalHeading (#PCDATA)>
+<!ELEMENT BroadJournalHeadingList (BroadJournalHeading+)>
+<!ELEMENT CarrierType (#PCDATA)>
+<!ELEMENT ChapterPgn (#PCDATA)>
+<!ELEMENT Classification (#PCDATA)>
+<!ATTLIST Classification
+ NLMCallNumberYN (Y | N) "Y"
+ Authority (KIE | MARC | NLM | Other | Undetermined) "Undetermined"
+ CallNumberType (NLMClass | Other | ShelvingNumber) "Other">
+<!ELEMENT Coden (#PCDATA)>
+<!ELEMENT CollaborativePartnerDate (#PCDATA)>
+<!ATTLIST CollaborativePartnerDate
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM | NOTNLM |
+ NYA | PIP | Undetermined) "Undetermined"
+ CollaborativeStatus (Create | In-House-Review | Other |
+ Released | Review) "Other">
+<!ELEMENT CollectiveName (#PCDATA)>
+<!ELEMENT ContentsNote (#PCDATA)>
+<!ELEMENT ContentType (#PCDATA)>
+<!ELEMENT CopyrightDate (#PCDATA)>
+<!ELEMENT Country (#PCDATA)>
+<!ELEMENT Coverage (#PCDATA)>
+<!ELEMENT DateAuthorized (Year, Month, Day)>
+<!ELEMENT DateCompleted (Year, Month, Day)>
+<!ELEMENT DateCreated (Year, Month, Day)>
+<!ELEMENT DateIssued (#PCDATA)>
+<!ELEMENT DateRevised (Year, Month, Day)>
+<!ELEMENT DateRevisedMajor (Year, Month, Day)>
+<!ELEMENT DatesAssociatedWithName (#PCDATA)>
+<!ELEMENT DatesOfSerialPublication (#PCDATA)>
+<!ELEMENT Day (#PCDATA)>
+<!ELEMENT DescriptiveInformation (#PCDATA)>
+<!ELEMENT DescriptorName (#PCDATA)>
+<!ATTLIST DescriptorName
+ MajorTopicYN (Y | N) "N"
+ Type (Geographic) #IMPLIED
+ UI CDATA #IMPLIED>
+<!ELEMENT Edition (#PCDATA)>
+<!ELEMENT ELocation ((ELocationID, DescriptiveInformation?) |
+ DescriptiveInformation)>
+<!ELEMENT ELocationID (#PCDATA)>
+<!ATTLIST ELocationID
+ EIdType (url) #REQUIRED
+ ValidYN (Y | N) "Y">
+<!ELEMENT ELocationList (ELocation+)>
+<!ELEMENT Entity (#PCDATA)>
+<!ELEMENT Extent (#PCDATA)>
+<!ELEMENT ForeName (#PCDATA)>
+<!ELEMENT Form (#PCDATA)>
+<!ELEMENT Frequency (#PCDATA)>
+<!ATTLIST Frequency
+ FrequencyType (Current | Former) "Current">
+<!ELEMENT GeneralNote (#PCDATA)>
+<!ATTLIST GeneralNote
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM | NOTNLM |
+ NYA | PIP | Undetermined) "Undetermined"
+ NoteType (Binding | Biography | BoundWith |CiteAs | Dissertation |
+ FindingAid | LinkComplexNote | Provenance |
+ ProvHistory | Restriction | CopyrightStatus |
+ CopyrightHolder) #IMPLIED>
+<!ELEMENT Generation (#PCDATA)>
+<!ELEMENT Genre (#PCDATA)>
+<!ELEMENT GenreList (Genre+)>
+<!ELEMENT GovDocClassNumber (#PCDATA)>
+<!ATTLIST GovDocClassNumber
+ ValidYN (Y | N) "Y">
+<!ELEMENT Host (#PCDATA)>
+<!ELEMENT Identifier (#PCDATA)>
+<!ATTLIST Identifier
+ Source CDATA #IMPLIED>
+<!ELEMENT Imprint (Place*, Entity*, DateIssued*, ImprintFull)>
+<!ATTLIST Imprint
+ ImprintType (Current | Original) #REQUIRED
+ FunctionType (UnpublishedProduction | Publication | Distribution |
+ Manufacture) #REQUIRED>
+<!ELEMENT ImprintFull (#PCDATA)>
+<!ELEMENT IndexingSource (IndexingSourceName, Coverage?)>
+<!ELEMENT IndexingSourceList (IndexingSource+)>
+<!ELEMENT IndexingSourceName (#PCDATA)>
+<!ATTLIST IndexingSourceName
+ IndexingTreatment (Unknown | Full | Selective | ReferencedIn |
+ ReferencedInNoDetails) #IMPLIED
+ IndexingStatus (Ceased-publication | Continued-by-another-title |
+ Currently-indexed | Deselected) #IMPLIED>
+<!ELEMENT Initials (#PCDATA)>
+<!ELEMENT Investigator (LastName, ForeName?, Initials?, Suffix?, Affiliation?)>
+<!ATTLIST Investigator
+ ValidYN (Y | N) "Y">
+<!ELEMENT InvestigatorList (Investigator+)>
+<!ELEMENT ISBN (#PCDATA)>
+<!ATTLIST ISBN
+ ValidYN (Y | N) "Y">
+<!ELEMENT ISSN (#PCDATA)>
+<!ATTLIST ISSN
+ IssnType (Electronic | Print | Undetermined) #REQUIRED
+ ValidYN (Y | N) "Y">
+<!ELEMENT ISSNLinking (#PCDATA)>
+<!ATTLIST ISSNLinking
+ ValidYN (Y | N) "Y">
+<!ELEMENT Issuance (#PCDATA)>
+<!ELEMENT Keyword (#PCDATA)>
+<!ATTLIST Keyword
+ MajorTopicYN (Y | N) "N">
+<!ELEMENT KeywordList (Keyword+)>
+<!ATTLIST KeywordList
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM |
+ NOTNLM | NYA | PIP | Undetermined) "NLM">
+<!ELEMENT Language (#PCDATA)>
+<!ATTLIST Language
+ LangType (Primary | Original | Summary | TableOfContents | Captions) #REQUIRED>
+<!ELEMENT LastName (#PCDATA)>
+<!ELEMENT LCCN (#PCDATA)>
+<!ATTLIST LCCN
+ ValidYN (Y | N) "Y">
+<!ELEMENT LocalNote (#PCDATA)>
+<!ATTLIST LocalNote
+ LocalNoteType (DashedOn | Other | PreservationAction) "Other">
+<!ELEMENT MaterialSpecified (#PCDATA)>
+<!ELEMENT MediaType (#PCDATA)>
+<!-- NOTE: The use of "Medline" in the MedlineTA element name does not mean the data
+ represents a Medline-selected journal. -->
+<!ELEMENT MedlineTA (#PCDATA)>
+<!ELEMENT MeshHeading (DescriptorName, QualifierName*)>
+<!ATTLIST MeshHeading
+ URI CDATA #IMPLIED>
+<!ELEMENT MeshHeadingList (MeshHeading+)>
+<!ELEMENT Month (#PCDATA)>
+<!ELEMENT NameQualifier (#PCDATA)>
+<!ELEMENT NCBIIssnAlias (#PCDATA)>
+<!ELEMENT NlmUniqueID (#PCDATA)>
+<!ELEMENT OtherAbstract (AbstractText)>
+<!ATTLIST OtherAbstract
+ Type (AAMC | HMD | HSR | KIE | NASA | NCBI | NLM | NTIS |
+ NYA | PIP | Producer | Undetermined) #REQUIRED>
+<!ELEMENT OtherID (#PCDATA)>
+<!ATTLIST OtherID
+ Prefix CDATA #IMPLIED
+ Source (CIT | HMD | HSR | IDM | IHM | KIE | NASA | NLM |
+ NYA | OCLC | PIP | Undetermined) #REQUIRED>
+<!ELEMENT OtherInformation (#PCDATA)>
+<!ELEMENT OtherSubject (OtherSubjectName, OtherInformation?, TitleAssociatedWithName?)>
+<!ELEMENT OtherSubjectList (OtherSubject+)>
+<!ATTLIST OtherSubjectList
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM |
+ NOTNLM | NYA | PIP | Undetermined) "Undetermined">
+<!ELEMENT OtherSubjectName (#PCDATA)>
+<!ATTLIST OtherSubjectName
+ MajorTopicYN (Y | N) "N"
+ SubjectType (CorpName | Title | Other) #REQUIRED>
+<!ELEMENT PersonalNameSubject ((LastName, ForeName?, Initials?, Suffix?),
+ DatesAssociatedWithName?, NameQualifier?, OtherInformation?,
+ TitleAssociatedWithName?)>
+<!ELEMENT PersonalNameSubjectList (PersonalNameSubject+)>
+<!ELEMENT PhysicalDescription (Form*, Extent*, Runtime?, Generation*,
+ BookFormat*, Polarity*, ChapterPgn?)>
+<!ELEMENT Place (#PCDATA)>
+<!ELEMENT PlaceCode (#PCDATA)>
+<!ATTLIST PlaceCode
+ Authority (KIE | MARC | NLM | Other | Undetermined) "Undetermined">
+<!ELEMENT Polarity (#PCDATA)>
+<!ELEMENT ProjectedPublicationDate (#PCDATA)>
+<!ELEMENT PublicationEndYear (#PCDATA)>
+<!ELEMENT PublicationFirstYear (#PCDATA)>
+<!ELEMENT PublicationInfo (Country?, PlaceCode?, Imprint*,
+ ProjectedPublicationDate?, CopyrightDate?,
+ PublicationFirstYear?, PublicationEndYear?, Edition?,
+ DatesOfSerialPublication*, Frequency*)>
+<!ELEMENT PublicationType (#PCDATA)>
+<!ATTLIST PublicationType
+ UI CDATA #IMPLIED>
+<!ELEMENT PublicationTypeList (PublicationType+)>
+<!ELEMENT QualifierName (#PCDATA)>
+<!ATTLIST QualifierName
+ MajorTopicYN (Y | N) "N"
+ UI CDATA #IMPLIED>
+<!ELEMENT RecordID (#PCDATA)>
+<!ATTLIST RecordID
+ Source (NLM | LC | OCLC) #REQUIRED>
+<!ELEMENT ReportNumber (#PCDATA)>
+<!ATTLIST ReportNumber
+ ValidYN (Y | N) "Y">
+<!ELEMENT Resource (ContentType*, MediaType*, CarrierType*)>
+<!ELEMENT ResourceCharacteristics (#PCDATA)>
+<!ATTLIST ResourceCharacteristics
+ Format (Sound | Video | ProjectedMovingImage | DigitalFile) #REQUIRED>
+<!ELEMENT ResourceInfo (TypeOfResource, Issuance, ResourceUnit*, Resource*)>
+<!ELEMENT ResourceUnit (#PCDATA)>
+<!ELEMENT Role (#PCDATA)>
+<!ATTLIST Role
+ CodedYN (Y | N) #REQUIRED>
+<!ELEMENT Runtime (#PCDATA)>
+<!ELEMENT SpaceFlightMission (#PCDATA)>
+<!ELEMENT StockNumber (#PCDATA)>
+<!ELEMENT STRN (#PCDATA)>
+<!ELEMENT Suffix (#PCDATA)>
+<!ELEMENT Title (#PCDATA)>
+<!ATTLIST Title
+ Sort (0 | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | N) #REQUIRED>
+<!ELEMENT TitleAlternate (Title, MaterialSpecified?, OtherInformation?)>
+<!ATTLIST TitleAlternate
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM |
+ NOTNLM | NYA | PIP | Undetermined) "Undetermined"
+ TitleType (Former | Key | Other | OtherTA | Translated |
+ Undetermined | Uniform) "Undetermined">
+<!ELEMENT TitleAssociatedWithName (#PCDATA)>
+<!ELEMENT TitleMain (Title, OtherInformation?)>
+<!ELEMENT TitleRelated (Title, OtherInformation?, RecordID*, ISSN?)>
+<!ATTLIST TitleRelated
+ Owner (CIT | HMD | HSR | IHM | KIE | NASA | NCBI | NLM |
+ NOTNLM | NYA | PIP | Undetermined) "Undetermined"
+ TitleType (Absorbed | AbsorbedBy | AbsorbedInPart | AbsorbedInPartBy |
+ Analytic | MergedTo | MergerOf | Other | Preceding | PrecedingInPart |
+ Related | Reversion | Series | SeriesAuthority | SplitFrom | SplitTo | Succeeding |
+ SucceedingInPart | SupersededBy | SupersededInPartBy |
+ Supersedes | SupersedesInPart | Translated | Undetermined) "Undetermined">
+<!ELEMENT TypeOfResource (#PCDATA)>
+<!ELEMENT Year (#PCDATA)>
+<!ELEMENT DeleteCatalogRecord (NlmUniqueID+)>
diff --git a/Bio/Entrez/Parser.py b/Bio/Entrez/Parser.py
index 3d9b9e6..eee950a 100644
--- a/Bio/Entrez/Parser.py
+++ b/Bio/Entrez/Parser.py
@@ -152,6 +152,7 @@ class ValidationError(ValueError):
error. The Bio.Entrez.read and Bio.Entrez.parse functions use validating
parsers by default (see those functions for more information).
"""
+
def __init__(self, name):
self.name = name
@@ -226,7 +227,6 @@ class DataHandler(object):
# since the Entrez XML parser expects binary data (bytes)
from io import StringIO
if isinstance(handle, StringIO):
- from io import BytesIO
from Bio._py3k import _as_bytes
handle = BytesIO(_as_bytes(handle.read()))
try:
@@ -446,11 +446,16 @@ class DataHandler(object):
self.lists.append(name)
def elementDecl(self, name, model):
- """This callback function is called for each element declaration:
- <!ELEMENT name (...)>
- encountered in a DTD. The purpose of this function is to determine
- whether this element should be regarded as a string, integer, list
- dictionary, structure, or error."""
+ """Callback function is called for each element declaration in a DTD.
+
+ This is used for each element declaration in a DTD like::
+
+ <!ELEMENT name (...)>
+
+ The purpose of this function is to determine whether this element
+ should be regarded as a string, integer, list, dictionary, structure,
+ or error.
+ """
if name.upper() == "ERROR":
self.errors.append(name)
return
@@ -583,7 +588,8 @@ class DataHandler(object):
of downloading it from the URL specified in the XML. Using the local
DTD results in much faster parsing. If the DTD is not found locally,
we try to download it. If new DTDs become available from NCBI,
- putting them in Bio/Entrez/DTDs will allow the parser to see them."""
+ putting them in Bio/Entrez/DTDs will allow the parser to see them.
+ """
urlinfo = _urlparse(systemId)
# Following attribute requires Python 2.5+
# if urlinfo.scheme=='http':
diff --git a/Bio/Entrez/__init__.py b/Bio/Entrez/__init__.py
index 40edccc..977ec3a 100644
--- a/Bio/Entrez/__init__.py
+++ b/Bio/Entrez/__init__.py
@@ -77,11 +77,11 @@ Functions:
which can return multiple records - such as efetch, esummary
and elink. Typical usage is:
- >>> handle = Entrez.efetch("pubmed", id="19304878,14630660", retmode="xml")
+ >>> handle = Entrez.esummary(db="pubmed", id="19304878,14630660", retmode="xml")
>>> records = Entrez.parse(handle)
>>> for record in records:
... # each record is a Python dictionary or list.
- ... print(record['MedlineCitation']['Article']['ArticleTitle'])
+ ... print(record['Title'])
Biopython: freely available Python tools for computational molecular biology and bioinformatics.
PDB file parser and structure class implemented in Python.
>>> handle.close()
@@ -146,7 +146,7 @@ def efetch(db, **keywords):
>>> from Bio import Entrez
>>> Entrez.email = "Your.Name.Here at example.org"
- >>> handle = Entrez.efetch(db="nucleotide", id="57240072", rettype="gb", retmode="text")
+ >>> handle = Entrez.efetch(db="nucleotide", id="AY851612", rettype="gb", retmode="text")
>>> print(handle.readline().strip())
LOCUS AY851612 892 bp DNA linear PLN 10-APR-2007
>>> handle.close()
@@ -198,14 +198,14 @@ def esearch(db, term, **keywds):
>>> from Bio import Entrez
>>> Entrez.email = "Your.Name.Here at example.org"
- >>> handle = Entrez.esearch(db="nucleotide", retmax=10, term="opuntia[ORGN] accD")
+ >>> handle = Entrez.esearch(db="nucleotide", retmax=10, term="opuntia[ORGN] accD", idtype="acc")
>>> record = Entrez.read(handle)
>>> handle.close()
- >>> record["Count"] >= 2
+ >>> int(record["Count"]) >= 2
True
- >>> "156535671" in record["IdList"]
+ >>> "EF590893.1" in record["IdList"]
True
- >>> "156535673" in record["IdList"]
+ >>> "EF590892.1" in record["IdList"]
True
"""
@@ -296,17 +296,18 @@ def esummary(**keywds):
Raises an IOError exception if there's a network error.
- This example discovers more about entry 30367 in the journals database:
+ This example discovers more about entry 19923 in the structure
+ database:
>>> from Bio import Entrez
>>> Entrez.email = "Your.Name.Here at example.org"
- >>> handle = Entrez.esummary(db="journals", id="30367")
+ >>> handle = Entrez.esummary(db="structure", id="19923")
>>> record = Entrez.read(handle)
>>> handle.close()
>>> print(record[0]["Id"])
- 30367
- >>> print(record[0]["Title"])
- Computational biology and chemistry
+ 19923
+ >>> print(record[0]["PdbDescr"])
+ Crystal Structure Of E. Coli Aconitase B
"""
cgi = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi'
@@ -339,7 +340,7 @@ def egquery(**keywds):
>>> handle.close()
>>> for row in record["eGQueryResult"]:
... if "pmc" in row["DbName"]:
- ... print(row["Count"] > 60)
+ ... print(int(row["Count"]) > 60)
True
"""
@@ -413,12 +414,14 @@ def ecitmatch(**keywds):
>>> from Bio import Entrez
>>> Entrez.email = "Your.Name.Here at example.org"
- >>> citation_1 = {
- ... "journal_title": "proc natl acad sci u s a",
- ... "year": "1991", "volume": "88", "first_page": "3248",
- ... "author_name": "mann bj", "key": "citation_1"}
- >>> record = Entrez.ecitmatch(db="pubmed", bdata=[citation_1])
- >>> print(record["Query"])
+ >>> citation_1 = {"journal_title": "proc natl acad sci u s a",
+ ... "year": "1991", "volume": "88", "first_page": "3248",
+ ... "author_name": "mann bj", "key": "citation_1"}
+ >>> handle = Entrez.ecitmatch(db="pubmed", bdata=[citation_1])
+ >>> print(handle.read().strip().split("|"))
+ ['proc natl acad sci u s a', '1991', '88', '3248', 'mann bj', 'citation_1', '2014248']
+ >>> handle.close()
+
"""
cgi = 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/ecitmatch.cgi'
variables = _update_ecitmatch_variables(keywds)
@@ -526,6 +529,8 @@ def _open(cgi, params=None, post=None, ecitmatch=False):
raise exception
return _binary_to_string_handle(handle)
+
+
_open.previous = 0
@@ -576,12 +581,6 @@ def _construct_cgi(cgi, post, options):
return cgi
-def _test():
- """Run the module's doctests (PRIVATE)."""
- print("Running doctests...")
- import doctest
- doctest.testmod()
- print("Done")
-
if __name__ == "__main__":
- _test()
+ from Bio._utils import run_doctest
+ run_doctest()
diff --git a/Bio/ExPASy/Enzyme.py b/Bio/ExPASy/Enzyme.py
index a10ce64..124c406 100644
--- a/Bio/ExPASy/Enzyme.py
+++ b/Bio/ExPASy/Enzyme.py
@@ -4,21 +4,18 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module provides code to work with the enzyme.dat file from
-Enzyme.
-http://www.expasy.ch/enzyme/
+"""Parse the enzyme.dat file from Enzyme at ExPASy.
+
+See http://www.expasy.ch/enzyme/
Tested with the release of 03-Mar-2009.
Functions:
-
- - read Reads a file containing one ENZYME entry
- - parse Reads a file containing multiple ENZYME entries
+ - read Reads a file containing one ENZYME entry
+ - parse Reads a file containing multiple ENZYME entries
Classes:
-
- - Record Holds ENZYME data.
+ - Record Holds ENZYME data.
"""
@@ -29,8 +26,10 @@ def parse(handle):
This function is for parsing ENZYME files containing multiple
records.
- handle - handle to the file."""
+ Arguments:
+ - handle - handle to the file.
+ """
while True:
record = __read(handle)
if not record:
@@ -44,8 +43,10 @@ def read(handle):
This function is for parsing ENZYME files containing
exactly one record.
- handle - handle to the file."""
+ Arguments:
+ - handle - handle to the file.
+ """
record = __read(handle)
# We should have reached the end of the record by now
remainder = handle.read()
@@ -55,10 +56,10 @@ def read(handle):
class Record(dict):
- """\
-Holds information from an ExPASy ENZYME record as a Python dictionary.
+ """Holds information from an ExPASy ENZYME record as a Python dictionary.
+
+ Each record contains the following keys:
-Each record contains the following keys:
- ID: EC number
- DE: Recommended name
- AN: Alternative names (if any)
@@ -69,7 +70,8 @@ Each record contains the following keys:
- DR: Pointers to the Swiss-Prot protein sequence entrie(s)
that correspond to the enzyme (if any)
- CC: Comments
-"""
+
+ """
def __init__(self):
dict.__init__(self)
diff --git a/Bio/ExPASy/Prodoc.py b/Bio/ExPASy/Prodoc.py
index 65817df..092ff12 100644
--- a/Bio/ExPASy/Prodoc.py
+++ b/Bio/ExPASy/Prodoc.py
@@ -8,11 +8,10 @@
See http://www.expasy.ch/prosite/
Tested with:
-Release 15.0, July 1998
-Release 16.0, July 1999
-Release 20.22, 13 November 2007
-Release 20.43, 10 February 2009
-
+ - Release 15.0, July 1998
+ - Release 16.0, July 1999
+ - Release 20.22, 13 November 2007
+ - Release 20.43, 10 February 2009
Functions:
- read Read a Prodoc file containing exactly one Prodoc entry.
@@ -21,6 +20,7 @@ Functions:
Classes:
- Record Holds Prodoc data.
- Reference Holds data from a Prodoc reference.
+
"""
@@ -46,13 +46,14 @@ def parse(handle):
class Record(object):
"""Holds information from a Prodoc record.
- Members:
- accession Accession number of the record.
- prosite_refs List of tuples (prosite accession, prosite name).
- text Free format text.
- references List of reference objects.
+ Attributes:
+ - accession Accession number of the record.
+ - prosite_refs List of tuples (prosite accession, prosite name).
+ - text Free format text.
+ - references List of reference objects.
"""
+
def __init__(self):
self.accession = ''
self.prosite_refs = []
@@ -63,12 +64,13 @@ class Record(object):
class Reference(object):
"""Holds information from a Prodoc citation.
- Members:
+ Attributes:
- number Number of the reference. (string)
- authors Names of the authors.
- citation Describes the citation.
"""
+
def __init__(self):
self.number = ''
self.authors = ''
diff --git a/Bio/ExPASy/Prosite.py b/Bio/ExPASy/Prosite.py
index c195f50..4842778 100644
--- a/Bio/ExPASy/Prosite.py
+++ b/Bio/ExPASy/Prosite.py
@@ -5,23 +5,21 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module provides code to work with the prosite dat file from
-Prosite.
-http://www.expasy.ch/prosite/
+"""Parser for the prosite dat file from Prosite at ExPASy.
-Tested with:
-Release 20.43, 10-Feb-2009
+See http://www.expasy.ch/prosite/
+Tested with:
+ - Release 20.43, 10-Feb-2009
+ - Release 2017_03 of 15-Mar-2017.
Functions:
-
- - read Reads a Prosite file containing one Prosite record
- - parse Iterates over records in a Prosite file.
+ - read Reads a Prosite file containing one Prosite record
+ - parse Iterates over records in a Prosite file.
Classes:
+ - Record Holds Prosite data.
- - Record Holds Prosite data.
"""
@@ -31,7 +29,10 @@ def parse(handle):
This function is for parsing Prosite files containing multiple
records.
- handle - handle to the file."""
+ Arguments:
+ - handle - handle to the file.
+
+ """
while True:
record = __read(handle)
if not record:
@@ -45,8 +46,10 @@ def read(handle):
This function is for parsing Prosite files containing
exactly one record.
- handle - handle to the file."""
+ Arguments:
+ - handle - handle to the file.
+ """
record = __read(handle)
# We should have reached the end of the record by now
remainder = handle.read()
@@ -58,58 +61,55 @@ def read(handle):
class Record(object):
"""Holds information from a Prosite record.
- Members:
-
- - name ID of the record. e.g. ADH_ZINC
- - type Type of entry. e.g. PATTERN, MATRIX, or RULE
- - accession e.g. PS00387
- - created Date the entry was created. (MMM-YYYY)
- - data_update Date the 'primary' data was last updated.
- - info_update Date data other than 'primary' data was last updated.
- - pdoc ID of the PROSITE DOCumentation.
-
- - description Free-format description.
- - pattern The PROSITE pattern. See docs.
- - matrix List of strings that describes a matrix entry.
- - rules List of rule definitions (from RU lines). (strings)
- - prorules List of prorules (from PR lines). (strings)
-
- NUMERICAL RESULTS
-
- - nr_sp_release SwissProt release.
- - nr_sp_seqs Number of seqs in that release of Swiss-Prot. (int)
- - nr_total Number of hits in Swiss-Prot. tuple of (hits, seqs)
- - nr_positive True positives. tuple of (hits, seqs)
- - nr_unknown Could be positives. tuple of (hits, seqs)
- - nr_false_pos False positives. tuple of (hits, seqs)
- - nr_false_neg False negatives. (int)
- - nr_partial False negatives, because they are fragments. (int)
-
- COMMENTS
-
- - cc_taxo_range Taxonomic range. See docs for format
- - cc_max_repeat Maximum number of repetitions in a protein
- - cc_site Interesting site. list of tuples (pattern pos, desc.)
- - cc_skip_flag Can this entry be ignored?
- - cc_matrix_type
- - cc_scaling_db
- - cc_author
- - cc_ft_key
- - cc_ft_desc
- - cc_version version number (introduced in release 19.0)
+ Main attributes:
+ - name ID of the record. e.g. ADH_ZINC
+ - type Type of entry. e.g. PATTERN, MATRIX, or RULE
+ - accession e.g. PS00387
+ - created Date the entry was created. (MMM-YYYY for releases
+ before January 2017, DD-MMM-YYYY since January 2017)
+ - data_update Date the 'primary' data was last updated.
+ - info_update Date data other than 'primary' data was last updated.
+ - pdoc ID of the PROSITE DOCumentation.
+ - description Free-format description.
+ - pattern The PROSITE pattern. See docs.
+ - matrix List of strings that describes a matrix entry.
+ - rules List of rule definitions (from RU lines). (strings)
+ - prorules List of prorules (from PR lines). (strings)
+
+ NUMERICAL RESULTS:
+ - nr_sp_release SwissProt release.
+ - nr_sp_seqs Number of seqs in that release of Swiss-Prot. (int)
+ - nr_total Number of hits in Swiss-Prot. tuple of (hits, seqs)
+ - nr_positive True positives. tuple of (hits, seqs)
+ - nr_unknown Could be positives. tuple of (hits, seqs)
+ - nr_false_pos False positives. tuple of (hits, seqs)
+ - nr_false_neg False negatives. (int)
+ - nr_partial False negatives, because they are fragments. (int)
+
+ COMMENTS:
+ - cc_taxo_range Taxonomic range. See docs for format
+ - cc_max_repeat Maximum number of repetitions in a protein
+ - cc_site Interesting site. list of tuples (pattern pos, desc.)
+ - cc_skip_flag Can this entry be ignored?
+ - cc_matrix_type
+ - cc_scaling_db
+ - cc_author
+ - cc_ft_key
+ - cc_ft_desc
+ - cc_version version number (introduced in release 19.0)
The following are all lists if tuples (swiss-prot accession, swiss-prot name).
- DATA BANK REFERENCES
-
- - dr_positive
- - dr_false_neg
- - dr_false_pos
- - dr_potential Potential hits, but fingerprint region not yet available.
- - dr_unknown Could possibly belong
- - pdb_structs List of PDB entries.
+ DATA BANK REFERENCES:
+ - dr_positive
+ - dr_false_neg
+ - dr_false_pos
+ - dr_potential Potential hits, but fingerprint region not yet available.
+ - dr_unknown Could possibly belong
+ - pdb_structs List of PDB entries.
"""
+
def __init__(self):
self.name = ''
self.type = ''
@@ -167,14 +167,25 @@ def __read(handle):
elif keyword == 'AC':
record.accession = value.rstrip(';')
elif keyword == 'DT':
+ # e.g. from January 2017,
+ # DT 01-APR-1990 CREATED; 01-APR-1990 DATA UPDATE; 01-APR-1990 INFO UPDATE.
+ # Older files had brackets round the date descriptions and used MMM-YYYY
dates = value.rstrip('.').split("; ")
- if (not dates[0].endswith('(CREATED)')) or \
- (not dates[1].endswith('(DATA UPDATE)')) or \
- (not dates[2].endswith('(INFO UPDATE)')):
+ if dates[0].endswith((' (CREATED)', ' CREATED')):
+ # Remove last word
+ record.created = dates[0].rsplit(" ", 1)[0]
+ else:
+ raise ValueError("I don't understand date line\n%s" % line)
+ if dates[1].endswith((' (DATA UPDATE)', ' DATA UPDATE')):
+ # Remove last two words
+ record.data_update = dates[1].rsplit(" ", 2)[0]
+ else:
+ raise ValueError("I don't understand date line\n%s" % line)
+ if dates[2].endswith((' (INFO UPDATE)', ' INFO UPDATE')):
+ # Remove last two words
+ record.info_update = dates[2].rsplit(" ", 2)[0]
+ else:
raise ValueError("I don't understand date line\n%s" % line)
- record.created = dates[0].rstrip(' (CREATED)')
- record.data_update = dates[1].rstrip(' (DATA UPDATE)')
- record.info_update = dates[2].rstrip(' (INFO UPDATE)')
elif keyword == 'DE':
record.description = value
elif keyword == 'PA':
diff --git a/Bio/ExPASy/ScanProsite.py b/Bio/ExPASy/ScanProsite.py
index 881d040..76d374f 100644
--- a/Bio/ExPASy/ScanProsite.py
+++ b/Bio/ExPASy/ScanProsite.py
@@ -58,7 +58,7 @@ def scan(seq="", mirror='http://www.expasy.org', output='xml', **keywords):
def read(handle):
- """Parse search results returned by ScanProsite into a Python object"""
+ """Parse search results returned by ScanProsite into a Python object."""
content_handler = ContentHandler()
saxparser = Parser()
saxparser.setContentHandler(content_handler)
diff --git a/Bio/ExPASy/__init__.py b/Bio/ExPASy/__init__.py
index 72cc6d9..6ff9974 100644
--- a/Bio/ExPASy/__init__.py
+++ b/Bio/ExPASy/__init__.py
@@ -5,7 +5,7 @@
"""Code to access resources at ExPASy over the WWW.
-See http://www.expasy.ch/
+See http://www.expasy.org/
Functions:
@@ -15,70 +15,109 @@ Functions:
- get_sprot_raw Interface to the get-sprot-raw CGI script.
- sprot_search_ful Interface to the sprot-search-ful CGI script.
- sprot_search_de Interface to the sprot-search-de CGI script.
+
"""
# Importing these functions with leading underscore as not intended for reuse
from Bio._py3k import urlopen as _urlopen
from Bio._py3k import urlencode as _urlencode
+from Bio._py3k import _binary_to_string_handle
-def get_prodoc_entry(id, cgi='http://www.expasy.ch/cgi-bin/get-prodoc-entry'):
- """get_prodoc_entry(id,
- cgi='http://www.expasy.ch/cgi-bin/get-prodoc-entry') -> handle
+def get_prodoc_entry(id,
+ cgi='http://prosite.expasy.org/cgi-bin/prosite/get-prodoc-entry'):
+ """Get a text handle to a PRODOC entry at ExPASy in HTML format.
- Get a handle to a PRODOC entry at ExPASy in HTML format.
+ >>> from Bio import ExPASy
+ >>> with ExPASy.get_prodoc_entry('PDOC00001') as in_handle:
+ ... html = in_handle.read()
+ ...
+ >>> with open("myprodocrecord.html", "w") as out_handle:
+ ... out_handle.write(html)
+ ...
For a non-existing key XXX, ExPASy returns an HTML-formatted page
- containing this line:
- 'There is no PROSITE documentation entry XXX. Please try again.'
+ containing this text: 'There is currently no PROSITE entry for'
"""
- # Open a handle to ExPASy.
- return _urlopen("%s?%s" % (cgi, id))
+ return _binary_to_string_handle(_urlopen("%s?%s" % (cgi, id)))
def get_prosite_entry(id,
- cgi='http://www.expasy.ch/cgi-bin/get-prosite-entry'):
- """get_prosite_entry(id,
- cgi='http://www.expasy.ch/cgi-bin/get-prosite-entry') -> handle
+ cgi='http://prosite.expasy.org/cgi-bin/prosite/get-prosite-entry'):
+ """Get a text handle to a PROSITE entry at ExPASy in HTML format.
- Get a handle to a PROSITE entry at ExPASy in HTML format.
+ >>> from Bio import ExPASy
+ >>> with ExPASy.get_prosite_entry('PS00001') as in_handle:
+ ... html = in_handle.read()
+ ...
+ >>> with open("myprositerecord.html", "w") as out_handle:
+ ... out_handle.write(html)
+ ...
For a non-existing key XXX, ExPASy returns an HTML-formatted page
- containing this line:
- 'There is currently no PROSITE entry for XXX. Please try again.'
+ containing this text: 'There is currently no PROSITE entry for'
"""
- return _urlopen("%s?%s" % (cgi, id))
+ return _binary_to_string_handle(_urlopen("%s?%s" % (cgi, id)))
-def get_prosite_raw(id, cgi='http://www.expasy.ch/cgi-bin/get-prosite-raw.pl'):
- """get_prosite_raw(id,
- cgi='http://www.expasy.ch/cgi-bin/get-prosite-raw.pl')
- -> handle
+def get_prosite_raw(id, cgi=None):
+ """Get a text handle to a raw PROSITE or PRODOC record at ExPASy.
- Get a handle to a raw PROSITE or PRODOC entry at ExPASy.
+ The cgi argument is deprecated due to changes in the ExPASy
+ website.
For a non-existing key, ExPASy returns nothing.
+
+ >>> from Bio import ExPASy
+ >>> from Bio.ExPASy import Prosite
+ >>> with ExPASy.get_prosite_raw('PS00001') as handle:
+ ... record = Prosite.read(handle)
+ ...
+ >>> print(record.accession)
+ PS00001
+
+
+ For a non-existing key, ExPASy returns an error:
+
+ >>> handle = get_prosite_raw("does_not_exist")
+ Traceback (most recent call last):
+ ...
+ urllib.error.HTTPError: HTTP Error 404: Not Found
+
"""
- return _urlopen("%s?%s" % (cgi, id))
+ url = "http://prosite.expasy.org/%s.txt" % id
+ return _binary_to_string_handle(_urlopen(url))
def get_sprot_raw(id):
- """Get a handle to a raw SwissProt entry at ExPASy.
+ """Get a text handle to a raw SwissProt entry at ExPASy.
For an ID of XXX, fetches http://www.uniprot.org/uniprot/XXX.txt
(as per the http://www.expasy.ch/expasy_urls.html documentation).
- """
- return _urlopen("http://www.uniprot.org/uniprot/%s.txt" % id)
+ >>> from Bio import ExPASy
+ >>> from Bio import SwissProt
+ >>> with ExPASy.get_sprot_raw("O23729") as handle:
+ ... record = SwissProt.read(handle)
+ ...
+ >>> print(record.entry_name)
+ CHS3_BROFI
-def sprot_search_ful(text, make_wild=None, swissprot=1, trembl=None,
- cgi='http://www.expasy.ch/cgi-bin/sprot-search-ful'):
- """sprot_search_ful(text, make_wild=None, swissprot=1, trembl=None,
- cgi='http://www.expasy.ch/cgi-bin/sprot-search-ful') -> handle
+ For a non-existing identifier, UniProt returns an error:
- Search SwissProt by full text.
+ >>> ExPASy.get_sprot_raw("DOES_NOT_EXIST")
+ Traceback (most recent call last):
+ ...
+ urllib.error.HTTPError: HTTP Error 404: Not Found
"""
+ url = "http://www.uniprot.org/uniprot/%s.txt" % id
+ return _binary_to_string_handle(_urlopen(url))
+
+
+def sprot_search_ful(text, make_wild=None, swissprot=1, trembl=None,
+ cgi='http://www.expasy.ch/cgi-bin/sprot-search-ful'):
+ """Search SwissProt by full text (BROKEN)."""
variables = {'SEARCH': text}
if make_wild:
variables['makeWild'] = 'on'
@@ -88,18 +127,15 @@ def sprot_search_ful(text, make_wild=None, swissprot=1, trembl=None,
variables['T'] = 'on'
options = _urlencode(variables)
fullcgi = "%s?%s" % (cgi, options)
- handle = _urlopen(fullcgi)
+ handle = _binary_to_string_handle(_urlopen(fullcgi))
return handle
def sprot_search_de(text, swissprot=1, trembl=None,
cgi='http://www.expasy.ch/cgi-bin/sprot-search-de'):
- """sprot_search_de(text, swissprot=1, trembl=None,
- cgi='http://www.expasy.ch/cgi-bin/sprot-search-de') -> handle
-
- Search SwissProt by name, description, gene name, species, or
- organelle.
+ """Search SwissProt (BROKEN).
+ Search by name, description, gene name, species, or organelle.
"""
variables = {'SEARCH': text}
if swissprot:
@@ -108,5 +144,4 @@ def sprot_search_de(text, swissprot=1, trembl=None,
variables['T'] = 'on'
options = _urlencode(variables)
fullcgi = "%s?%s" % (cgi, options)
- handle = _urlopen(fullcgi)
- return handle
+ return _binary_to_string_handle(_urlopen(fullcgi))
diff --git a/Bio/ExPASy/cellosaurus.py b/Bio/ExPASy/cellosaurus.py
new file mode 100644
index 0000000..88f5a8b
--- /dev/null
+++ b/Bio/ExPASy/cellosaurus.py
@@ -0,0 +1,164 @@
+# Copyright 2016 by Stephen Marshall. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+
+"""Parser for the cellosaurus.txt file from ExPASy.
+
+See http://web.expasy.org/cellosaurus/
+
+Tested with the release of Version 18 (July 2016).
+
+Functions:
+ - read Reads a file containing one cell line entry
+ - parse Reads a file containing multiple cell line entries
+
+Classes:
+ - Record Holds cell line data.
+
+Example:
+
+>>> from Bio.ExPASy import Cellosaurus
+>>> handle = open("cellosaurus.txt")
+>>> records = Cellosaurus.parse(handle)
+
+"""
+
+
+def parse(handle):
+ """Parse cell line records.
+
+ This function is for parsing cell line files containing multiple
+ records.
+
+ Arguments:
+ - handle - handle to the file.
+
+ """
+ while True:
+ record = __read(handle)
+ if not record:
+ break
+ yield record
+
+
+def read(handle):
+ """Read one cell line record.
+
+ This function is for parsing cell line files containing
+ exactly one record.
+
+ Arguments:
+ - handle - handle to the file.
+
+ """
+ record = __read(handle)
+ # We should have reached the end of the record by now
+ remainder = handle.read()
+ if remainder:
+ raise ValueError("More than one cell line record found")
+ return record
+
+
+class Record(dict):
+ """Holds information from an ExPASy Cellosaurus record as a Python dictionary.
+
+ Each record contains the following keys:
+
+ --------- --------------------------- ----------------------
+ Line code Content Occurrence in an entry
+ --------- --------------------------- ----------------------
+ ID Identifier (cell line name) Once; starts an entry
+ AC Accession (CVCL_xxxx) Once
+ AS Secondary accession number(s) Optional; once
+ SY Synonyms Optional; once
+ DR Cross-references Optional; once or more
+ RX References identifiers Optional: once or more
+ WW Web pages Optional; once or more
+ CC Comments Optional; once or more
+ ST STR profile data Optional; once or more
+ DI Diseases Optional; once or more
+ OX Species of origin Once or more
+ HI Hierarchy Optional; once or more
+ OI Originate from same individual Optional; once or more
+ SX Sex (gender) of cell Optional; once
+ CA Category Once
+ // Terminator Once; ends an entry
+
+ """
+
+ def __init__(self):
+ dict.__init__(self)
+ self["ID"] = ''
+ self["AC"] = ''
+ self["AS"] = ''
+ self["SY"] = ''
+ self["DR"] = []
+ self["RX"] = []
+ self["WW"] = []
+ self["CC"] = []
+ self["ST"] = []
+ self["DI"] = []
+ self["OX"] = []
+ self["HI"] = []
+ self["OI"] = []
+ self["SX"] = ''
+ self["CA"] = ''
+
+ def __repr__(self):
+ if self["ID"]:
+ if self["AC"]:
+ return "%s (%s, %s)" % (
+ self.__class__.__name__, self["ID"], self["AC"]
+ )
+ else:
+ return "%s (%s)" % (self.__class__.__name__, self["ID"])
+ else:
+ return "%s ( )" % (self.__class__.__name__)
+
+ def __str__(self):
+ output = "ID: " + self["ID"]
+ output += " AC: " + self["AC"]
+ output += " AS: " + self["AS"]
+ output += " SY: " + self["SY"]
+ output += " DR: " + repr(self["DR"])
+ output += " RX: " + repr(self["RX"])
+ output += " WW: " + repr(self["WW"])
+ output += " CC: " + repr(self["CC"])
+ output += " ST: " + repr(self["ST"])
+ output += " DI: " + repr(self["DI"])
+ output += " OX: " + repr(self["OX"])
+ output += " HI: " + repr(self["HI"])
+ output += " OI: " + repr(self["OI"])
+ output += " SX: " + self["SX"]
+ output += " CA: " + self["CA"]
+ return output
+
+
+# Everything below is private
+
+
+def __read(handle):
+ record = None
+
+ for line in handle:
+
+ key, value = line[:2], line[5:].rstrip()
+ if key == "ID":
+ record = Record()
+ record["ID"] = value
+ elif key in ["AC", "AS", "SY", "SX", "CA"]:
+ record[key] += value
+ elif key in ["AC", "AS", "SY", "RX", "WW", "CC",
+ "ST", "DI", "OX", "HI", "OI", "SX", "CA"]:
+ record[key].append(value)
+ elif key == "DR":
+ k, v = value.split(';')
+ record["DR"].append((k.strip(), v.strip()))
+ elif key == "//":
+ if record:
+ return record
+ else:
+ continue
+ if record:
+ raise ValueError("Unexpected end of stream")
diff --git a/Bio/FSSP/FSSPTools.py b/Bio/FSSP/FSSPTools.py
index 09f6e67..e8d354e 100644
--- a/Bio/FSSP/FSSPTools.py
+++ b/Bio/FSSP/FSSPTools.py
@@ -61,7 +61,8 @@ def mult_align(sum_dict, align_dict):
def filter(sum_dict, align_dict, filter_attribute, low_bound, high_bound):
"""Filters a passed summary section and alignment section according to a numeric
- attribute in the summary section. Returns new summary and alignment sections"""
+ attribute in the summary section. Returns new summary and alignment sections.
+ """
new_sum_dict = FSSP.FSSPSumDict()
new_align_dict = copy.deepcopy(align_dict)
# for i in align_dict:
@@ -82,7 +83,8 @@ def filter(sum_dict, align_dict, filter_attribute, low_bound, high_bound):
def name_filter(sum_dict, align_dict, name_list):
"""Accepts a list of names. Returns a new Summary block and Alignment block which
- contain the info only for those names passed."""
+ contain the info only for those names passed.
+ """
new_sum_dict = FSSP.FSSPSumDict()
new_align_dict = copy.deepcopy(align_dict)
for cur_pdb_name in name_list:
diff --git a/Bio/FSSP/__init__.py b/Bio/FSSP/__init__.py
index 189bb03..9c20842 100644
--- a/Bio/FSSP/__init__.py
+++ b/Bio/FSSP/__init__.py
@@ -11,16 +11,16 @@ summary and alignment sections.
See: Holm and Sander (1996) The FSSP database: fold classification based on
structure-structure alignment of proteins.
-functions: read_fssp(file_handle): reads an fssp file into the records. Returns a
-tuple of two instances.
+functions: read_fssp(file_handle): reads an fssp file into the records. Returns
+a tuple of two instances.
+
mult_align: returns a Biopython alignment object
"""
from __future__ import print_function
import re
+
from . import fssp_rec
-from Bio.Align import Generic
-from Bio import Alphabet
fff_rec = fssp_rec.fff_rec
@@ -96,7 +96,8 @@ class PosAlign(object):
class FSSPSumRec(object):
- """ Contains info from an FSSP summary record"""
+ """Contains info from an FSSP summary record"""
+
def __init__(self, in_str):
self.raw = in_str
in_rec = in_str.strip().split()
@@ -199,9 +200,9 @@ class FSSPAlignDict(dict):
mult_align_dict = {}
for j in self.abs(1).pos_align_dict:
mult_align_dict[j] = ''
- for fssp_rec in self.values():
+ for fssp_record in self.values():
for j in fssp_rec.pos_align_dict:
- mult_align_dict[j] += fssp_rec.pos_align_dict[j].aa
+ mult_align_dict[j] += fssp_record.pos_align_dict[j].aa
out_str = ''
for i in sorted(mult_align_dict):
out_str += '> %d\n' % i
diff --git a/Bio/FSSP/fssp_rec.py b/Bio/FSSP/fssp_rec.py
index 6b79d88..835fc07 100644
--- a/Bio/FSSP/fssp_rec.py
+++ b/Bio/FSSP/fssp_rec.py
@@ -25,6 +25,7 @@ class fff_rec(object):
class align(object):
"""Definition of the align section in a FSSP file."""
+
abs_res_num = (0, 4)
pdb_res_num = (4, 9)
chain_id = 10
diff --git a/Bio/File.py b/Bio/File.py
index 33e66d3..1983306 100644
--- a/Bio/File.py
+++ b/Bio/File.py
@@ -7,10 +7,8 @@
"""Code for more fancy file handles.
-
Classes:
-
- - UndoHandle File object decorator with support for undo-like operations.
+ - UndoHandle File object decorator with support for undo-like operations.
Additional private classes used in Bio.SeqIO and Bio.SearchIO for indexing
files are also defined under Bio.File but these are not intended for direct
@@ -54,11 +52,12 @@ def as_handle(handleish, mode='r', **kwargs):
When given a string, returns a file handle open to handleish with provided
mode which will be closed when the manager exits.
- All other inputs are returned, and are *not* closed
+ All other inputs are returned, and are *not* closed.
- - handleish - Either a string or file handle
- - mode - Mode to open handleish (used only if handleish is a string)
- - kwargs - Further arguments to pass to open(...)
+ Arguments:
+ - handleish - Either a string or file handle
+ - mode - Mode to open handleish (used only if handleish is a string)
+ - kwargs - Further arguments to pass to open(...)
Example:
@@ -114,12 +113,13 @@ class UndoHandle(object):
Saves lines in a LIFO fashion.
Added methods:
-
- - saveline Save a line to be returned next time.
- - peekline Peek at the next line without consuming it.
+ - saveline Save a line to be returned next time.
+ - peekline Peek at the next line without consuming it.
"""
+
def __init__(self, handle):
+ """Initialize the class."""
self._handle = handle
self._saved = []
try:
@@ -129,9 +129,11 @@ class UndoHandle(object):
pass
def __iter__(self):
+ """Iterate over the lines in the File."""
return self
def __next__(self):
+ """Return the next line."""
next = self.readline()
if not next:
raise StopIteration
@@ -143,11 +145,13 @@ class UndoHandle(object):
return self.__next__()
def readlines(self, *args, **keywds):
+ """Read all the lines from the file as a list of strings."""
lines = self._saved + self._handle.readlines(*args, **keywds)
self._saved = []
return lines
def readline(self, *args, **keywds):
+ """Read the next line from the file as string."""
if self._saved:
line = self._saved.pop(0)
else:
@@ -155,6 +159,7 @@ class UndoHandle(object):
return line
def read(self, size=-1):
+ """Read the File."""
if size == -1:
saved = "".join(self._saved)
self._saved[:] = []
@@ -171,10 +176,15 @@ class UndoHandle(object):
return saved + self._handle.read(size)
def saveline(self, line):
+ """Store a line in the cache memory for later use.
+
+ This acts to undo a readline, reflecting the name of the class: UndoHandle.
+ """
if line:
self._saved = [line] + self._saved
def peekline(self):
+ """Return the next line in the file, but do not move forward though the file."""
if self._saved:
line = self._saved[0]
else:
@@ -183,19 +193,24 @@ class UndoHandle(object):
return line
def tell(self):
+ """Return the current position of the file read/write pointer within the File."""
return self._handle.tell() - sum(len(line) for line in self._saved)
def seek(self, *args):
+ """Set the current position at the offset specified."""
self._saved = []
self._handle.seek(*args)
def __getattr__(self, attr):
+ """Return File attribute."""
return getattr(self._handle, attr)
def __enter__(self):
+ """Call special method when opening the file using a with-statement."""
return self
def __exit__(self, type, value, traceback):
+ """Call special method when closing the file using a with-statement."""
self._handle.close()
@@ -213,7 +228,7 @@ class _IndexedSeqFileProxy(object):
"""
def __iter__(self):
- """Returns (identifier, offset, length in bytes) tuples.
+ """Return (identifier, offset, length in bytes) tuples.
The length can be zero where it is not implemented or not
possible for a particular file format.
@@ -221,7 +236,7 @@ class _IndexedSeqFileProxy(object):
raise NotImplementedError("Subclass should implement this")
def get(self, offset):
- """Returns parsed object for this entry."""
+ """Return parsed object for this entry."""
# Most file formats with self contained records can be handled by
# parsing StringIO(_bytes_to_string(self.get_raw(offset)))
raise NotImplementedError("Subclass should implement this")
@@ -261,8 +276,10 @@ class _IndexedSeqFileDict(_dict_base):
Note that this dictionary is essentially read only. You cannot
add or change values, pop values, nor clear the dictionary.
"""
+
def __init__(self, random_access_proxy, key_function,
repr, obj_repr):
+ """Initialize the class."""
# Use key_function=None for default value
self._proxy = random_access_proxy
self._key_function = key_function
@@ -292,9 +309,11 @@ class _IndexedSeqFileDict(_dict_base):
self._offsets = offsets
def __repr__(self):
+ """Return a string representation of the File object."""
return self._repr
def __str__(self):
+ """Create a string representation of the File object."""
# TODO - How best to handle the __str__ for SeqIO and SearchIO?
if self:
return "{%r : %s(...), ...}" % (list(self.keys())[0], self._obj_repr)
@@ -302,10 +321,11 @@ class _IndexedSeqFileDict(_dict_base):
return "{}"
def __contains__(self, key):
+ """Return key if contained in the offsets dictionary."""
return key in self._offsets
def __len__(self):
- """How many records are there?"""
+ """Return the number of records."""
return len(self._offsets)
def items(self):
@@ -355,7 +375,7 @@ class _IndexedSeqFileDict(_dict_base):
return iter(self._offsets)
def __getitem__(self, key):
- """x.__getitem__(y) <==> x[y]"""
+ """Return record for the specified key."""
# Pass the offset to the proxy
record = self._proxy.get(self._offsets[key])
if self._key_function:
@@ -367,7 +387,11 @@ class _IndexedSeqFileDict(_dict_base):
return record
def get(self, k, d=None):
- """D.get(k[,d]) -> D[k] if k in D, else d. d defaults to None."""
+ """Return the value in the dictionary.
+
+ If the key (k) is not found, this returns None unless a
+ default (d) is specified.
+ """
try:
return self.__getitem__(k)
except KeyError:
@@ -382,32 +406,60 @@ class _IndexedSeqFileDict(_dict_base):
return self._proxy.get_raw(self._offsets[key])
def __setitem__(self, key, value):
- """Would allow setting or replacing records, but not implemented."""
+ """Would allow setting or replacing records, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file is read only.")
def update(self, *args, **kwargs):
- """Would allow adding more values, but not implemented."""
+ """Would allow adding more values, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file is read only.")
def pop(self, key, default=None):
- """Would remove specified record, but not implemented."""
+ """Would remove specified record, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file is read only.")
def popitem(self):
- """Would remove and return a SeqRecord, but not implemented."""
+ """Would remove and return a SeqRecord, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file is read only.")
def clear(self):
- """Would clear dictionary, but not implemented."""
+ """Would clear dictionary, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file is read only.")
def fromkeys(self, keys, value=None):
- """A dictionary method which we don't implement."""
+ """Would return a new dictionary with keys and values, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file doesn't "
"support this.")
def copy(self):
- """A dictionary method which we don't implement."""
+ """Would copy a dictionary, but not implemented.
+
+ Python dictionaries provide this method for modifying data in the
+ dictionary. This class mimics the dictionary interface but is read only.
+ """
raise NotImplementedError("An indexed a sequence file doesn't "
"support this.")
@@ -436,10 +488,11 @@ class _SQLiteManySeqFilesDict(_IndexedSeqFileDict):
so a pool are kept. If a record is required from a closed file, then
one of the open handles is closed first.
"""
+
def __init__(self, index_filename, filenames,
proxy_factory, format,
key_function, repr, max_open=10):
- """Loads or creates an SQLite based index."""
+ """Initialize the class."""
# TODO? - Don't keep filename list in memory (just in DB)?
# Should save a chunk of memory if dealing with 1000s of files.
# Furthermore could compare a generator to the DB on reloading
@@ -473,7 +526,7 @@ class _SQLiteManySeqFilesDict(_IndexedSeqFileDict):
self._build_index()
def _load_index(self):
- """Called from __init__ to re-use an existing index (PRIVATE)."""
+ """Call from __init__ to re-use an existing index (PRIVATE)."""
index_filename = self._index_filename
relative_path = self._relative_path
filenames = self._filenames
@@ -556,7 +609,7 @@ class _SQLiteManySeqFilesDict(_IndexedSeqFileDict):
raise ValueError("Unsupported format '%s'" % self._format)
def _build_index(self):
- """Called from __init__ to create a new index (PRIVATE)."""
+ """Call from __init__ to create a new index (PRIVATE)."""
index_filename = self._index_filename
relative_path = self._relative_path
filenames = self._filenames
@@ -661,7 +714,7 @@ class _SQLiteManySeqFilesDict(_IndexedSeqFileDict):
(key,)).fetchone())
def __len__(self):
- """How many records are there?"""
+ """Return the number of records indexed."""
return self._length
# return self._con.execute("SELECT COUNT(key) FROM offset_data;").fetchone()[0]
@@ -674,12 +727,16 @@ class _SQLiteManySeqFilesDict(_IndexedSeqFileDict):
# Python 2, use iteritems but not items etc
# Just need to override this...
def keys(self):
- """Return a list of all the keys (SeqRecord identifiers)."""
+ """Iterate over the keys.
+
+ This tries to act like a Python 3 dictionary, and does not return
+ a list of keys due to memory concerns.
+ """
return [str(row[0]) for row in
self._con.execute("SELECT key FROM offset_data;").fetchall()]
def __getitem__(self, key):
- """x.__getitem__(y) <==> x[y]"""
+ """Return record for the specified key."""
# Pass the offset to the proxy
row = self._con.execute(
"SELECT file_number, offset FROM offset_data WHERE key=?;",
@@ -707,7 +764,11 @@ class _SQLiteManySeqFilesDict(_IndexedSeqFileDict):
return record
def get(self, k, d=None):
- """D.get(k[,d]) -> D[k] if k in D, else d. d defaults to None."""
+ """Return the value in the dictionary.
+
+ If the key (k) is not found, this returns None unless a
+ default (d) is specified.
+ """
try:
return self.__getitem__(k)
except KeyError:
diff --git a/Bio/GA/Crossover/General.py b/Bio/GA/Crossover/General.py
index 9c7d595..39d47dc 100644
--- a/Bio/GA/Crossover/General.py
+++ b/Bio/GA/Crossover/General.py
@@ -23,25 +23,24 @@ class SafeFitnessCrossover(object):
organisms do not have less fitness. This is useful for cases where
crossovers can
"""
+
def __init__(self, actual_crossover, accept_less=0.0):
"""Initialize to do safe crossovers.
Arguments:
+ - actual_crossover - A Crossover class which actually implements
+ crossover functionality.
+ - accept_less - A probability to accept crossovers which
+ generate less fitness. This allows you to accept some
+ crossovers which reduce fitness, but not all of them.
- o actual_crossover - A Crossover class which actually implements
- crossover functionality.
-
- o accept_less - A probability to accept crossovers which
- generate less fitness. This allows you to accept some
- crossovers which reduce fitness, but not all of them.
"""
self._crossover = actual_crossover
self._accept_less_percent = accept_less
self._accept_less_rand = random.Random()
def do_crossover(self, org_1, org_2):
- """Perform a safe crossover between the two organism.
- """
+ """Perform a safe crossover between the two organism."""
new_org_1, new_org_2 = self._crossover.do_crossover(org_1, org_2)
return_orgs = []
diff --git a/Bio/GA/Crossover/GeneralPoint.py b/Bio/GA/Crossover/GeneralPoint.py
index c98340d..37e31aa 100644
--- a/Bio/GA/Crossover/GeneralPoint.py
+++ b/Bio/GA/Crossover/GeneralPoint.py
@@ -3,15 +3,15 @@
# as part of this package.
#
-"""
-Generalized N-Point Crossover.
+"""Generalized N-Point Crossover.
For even values of N, perform N point crossover
- (select N/2 points each in the two genomes, and alternate)
+(select N/2 points each in the two genomes, and alternate)
+
For odd values of N, perform symmetric N+1 point crossover
- (select N/2 points for both genomes)
+(select N/2 points for both genomes)
-N-Point introduction (my notation):
+N-Point introduction (my notation)::
| genome 1: A-----B-----C-----D-----E-----F-----G
| genome 2: a=====b=====c=====d=====e=====f=====g
@@ -26,7 +26,7 @@ N-Point introduction (my notation):
| a=====b=====c=====d=====e= 2 =f=====g
| returns: (ABfg, abcdeCDEFG)
-and for the drastic (n can be arbitrary to the length of the genome!):
+and for the drastic (n can be arbitrary to the length of the genome!)::
| 12-point, symmetric (points=11):
| A- 1 -B- 2 -C- 3 -D- 4 -E- 5 -F- 6 -G
@@ -34,6 +34,7 @@ and for the drastic (n can be arbitrary to the length of the genome!):
| returns: (AbCdEfG, aBcDeFg)
| (note that points=12 will yield the same result, but 11
| may be somewhat faster)
+
"""
# standard modules
import random
@@ -44,27 +45,26 @@ from Bio._py3k import range
class GeneralPointCrossover(object):
"""Perform n-point crossover between genomes at some defined rates.
- Ideas on how to use this class:
+ Ideas on how to use this class:
+ - Call it directly ( construct, do_crossover )
+ - Use one of the provided subclasses
+ - Inherit from it:
+
+ * replace _generate_locs with a more domain specific technique
+ * replace _crossover with a more efficient technique for your
+ point-count
- - Call it directly ( construct, do_crossover )
- - Use one of the provided subclasses
- - Inherit from it:
- * replace _generate_locs with a more domain
- specific technique
- * replace _crossover with a more efficient
- technique for your point-count
"""
+
def __init__(self, points, crossover_prob=.1):
- """Initialize to do crossovers at the specified probability.
- """
+ """Initialize to do crossovers at the specified probability."""
self._crossover_prob = crossover_prob
self._sym = points % 2 # odd n, gets a symmetry flag
self._npoints = (points + self._sym) // 2 # (N or N+1)//2
def do_crossover(self, org_1, org_2):
- """Potentially do a crossover between the two organisms.
- """
+ """Potentially do a crossover between the two organisms."""
new_org = (org_1.copy(), org_2.copy())
# determine if we have a crossover
@@ -102,15 +102,14 @@ class GeneralPointCrossover(object):
return new_org
def _generate_locs(self, bound):
- """Generalized Location Generator:
+ """Generalized Location Generator.
- arguments:
+ Arguments:
+ - bound (int) - upper bound
- - bound (int) - upper bound
+ Returns: [0]+x_0...x_n+[bound] where n=self._npoints-1
+ and 0 < x_0 < x_1 ... < bound
- returns: [0]+x_0...x_n+[bound]
- where n=self._npoints-1
- and 0 < x_0 < x_1 ... < bound
"""
results = []
for increment in range(self._npoints):
@@ -122,22 +121,22 @@ class GeneralPointCrossover(object):
return [0] + results + [bound] # [0, +n points+, bound]
def _crossover(self, x, no, locs):
- """Generalized Crossover Function:
-
- arguments:
- - x (int) - genome number [0|1]
- - no (organism,organism)
+ """Generalized Crossover Function.
- - new organisms
+ Arguments:
+ - x (int) - genome number [0|1]
+ - no (organism, organism)
- - locs (int list, int list)
+ - new organisms
+ - locs (int list, int list)
- - lists of locations,
- [0, +n points+, bound]
- for each genome (sync'd with x)
+ - lists of locations,
+ [0, +n points+, bound]
+ for each genome (sync'd with x)
- return type: sequence (to replace no[x])
+ Return type: sequence (to replace no[x])
"""
+ # TODO: The above docstring is unclear
s = no[x].genome[:locs[x][1]]
for n in range(1, self._npoints):
# flipflop between genome_0 and genome_1
@@ -158,17 +157,18 @@ class TwoCrossover(GeneralPointCrossover):
Offers more efficient replacements to the GeneralPoint framework
for single pivot crossovers
"""
+
def _generate_locs(self, bound):
- """Replacement generation.
+ """Generate replacement (PRIVATE).
See GeneralPoint._generate_locs documentation for details
"""
return [0, random.randint(1, bound - 1), bound]
def _crossover(self, x, no, locs):
- """Replacement crossover
+ """Crossover replacement (PRIVATE)..
- see GeneralPoint._crossover documentation for details
+ See GeneralPoint._crossover documentation for details
"""
y = (x + 1) % 2
return no[x].genome[:locs[x][1]] + no[y].genome[locs[y][1]:]
@@ -179,6 +179,7 @@ class InterleaveCrossover(GeneralPointCrossover):
Interleaving: AbCdEfG, aBcDeFg
"""
+
def __init__(self, crossover_prob=0.1):
GeneralPointCrossover.__init__(self, 0, crossover_prob)
diff --git a/Bio/GA/Crossover/Point.py b/Bio/GA/Crossover/Point.py
index 3ee24d4..da50f65 100644
--- a/Bio/GA/Crossover/Point.py
+++ b/Bio/GA/Crossover/Point.py
@@ -26,7 +26,7 @@ class SinglePointCrossover(TwoCrossover):
frequency. Length of genome is preserved, as the crossover
point is the same for either genome.
"""
+
def __init__(self, crossover_prob=.1):
- """Initialize to do crossovers at the specified probability.
- """
+ """Initialize to do crossovers at the specified probability."""
TwoCrossover.__init__(self, 1, crossover_prob)
diff --git a/Bio/GA/Crossover/TwoPoint.py b/Bio/GA/Crossover/TwoPoint.py
index 30c24b6..0f57405 100644
--- a/Bio/GA/Crossover/TwoPoint.py
+++ b/Bio/GA/Crossover/TwoPoint.py
@@ -12,12 +12,13 @@ TwoPointCrossover is the minimal crossover technique that
facilitates diverse genome length. Do not use this if you need to
maintain consistent genome length.
-TwoPointCrossover:
-genome 1 -- A B*C D E F
-genome 2 -- a b c*d e f
+TwoPointCrossover::
-new genome 1 -- A B d e f
-new genome 2 -- a b c C D E F
+ genome 1 -- A B*C D E F
+ genome 2 -- a b c*d e f
+
+ new genome 1 -- A B d e f
+ new genome 2 -- a b c C D E F
"""
# standard modules
@@ -31,7 +32,7 @@ class TwoPointCrossover(TwoCrossover):
The location of the points of crossover are chosen randomly if the
crossover meets the probability to occur.
"""
+
def __init__(self, crossover_prob=.1):
- """Initialize to do crossovers at the specified probability.
- """
+ """Initialize to do crossovers at the specified probability."""
TwoCrossover.__init__(self, 2, crossover_prob)
diff --git a/Bio/GA/Crossover/Uniform.py b/Bio/GA/Crossover/Uniform.py
index 623a688..b19af73 100644
--- a/Bio/GA/Crossover/Uniform.py
+++ b/Bio/GA/Crossover/Uniform.py
@@ -5,6 +5,7 @@
"""Perform uniform crossovers between the genomes of two organisms.
+Example::
| genome 1 -- A B C D E F G
| . . . .
@@ -29,16 +30,15 @@ class UniformCrossover(object):
defined frequency. The location of the crossover is chosen randomly
if the crossover meets the probability to occur.
"""
+
def __init__(self, crossover_prob=.1, uniform_prob=0.7):
- """Initialize to do uniform crossover at the specified probability and frequency.
- """
+ """Initialize to do uniform crossover at the specified probability and frequency."""
self._crossover_prob = crossover_prob
self._uniform_prob = uniform_prob
return
def do_crossover(self, org_1, org_2):
- """Potentially do a crossover between the two organisms.
- """
+ """Potentially do a crossover between the two organisms."""
new_org_1 = org_1.copy()
new_org_2 = org_2.copy()
diff --git a/Bio/GA/Evolver.py b/Bio/GA/Evolver.py
index f38fcef..b9f9124 100644
--- a/Bio/GA/Evolver.py
+++ b/Bio/GA/Evolver.py
@@ -20,6 +20,7 @@ class SteadyStateEvolver(object):
This implements a Steady State GA, where the population of individuals
is evolved in place.
"""
+
def __init__(self):
raise NotImplementedError("Need to code this.")
@@ -30,18 +31,18 @@ class GenerationEvolver(object):
This implements a Generational GA, in which the population moves from
generation to generation.
"""
+
def __init__(self, starting_population, selector):
"""Initialize the evolver.
Arguments:
+ - starting_population - An initial set of individuals to begin
+ the evolution process from. This should be a list of Organism
+ objects.
+ - selector - A Selection object that implements selection, along
+ with mutation and crossover to select a new population from a
+ given population.
- o starting_population -- An initial set of individuals to begin
- the evolution process from. This should be a list of Organism
- objects.
-
- o selector -- A Selection object that implements selection, along
- with mutation and crossover to select a new population from a
- given population.
"""
self._population = starting_population
self._selector = selector
@@ -50,14 +51,13 @@ class GenerationEvolver(object):
"""Evolve the population through multiple generations.
Arguments:
-
- o stoppping_criteria -- A function which, when passed the current
- individuals in the population, will determine when to stop
- the evolution process.
+ - stopping_criteria - A function which, when passed the current
+ individuals in the population, will determine when to stop
+ the evolution process.
Returns:
+ - The final evolved population.
- o The final evolved population.
"""
while not(stopping_criteria(self._population)):
try:
diff --git a/Bio/GA/Mutation/General.py b/Bio/GA/Mutation/General.py
index 693e780..9d2f202 100644
--- a/Bio/GA/Mutation/General.py
+++ b/Bio/GA/Mutation/General.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""General functionality for mutations.
-"""
+"""General functionality for mutations."""
# standard library
import random
@@ -18,25 +17,24 @@ class SafeFitnessMutation(object):
This doesn't actually do any mutation work, but just checks that
newly create organisms do not have lower fitnesses.
"""
+
def __init__(self, actual_mutation, accept_less=0.0):
- """Initialize to do safe mutations
+ """Initialize to do safe mutations.
Arguments:
+ - actual_mutation - A Mutation class which actually implements
+ mutation. functionality.
+ - accept_less - A probability to accept mutations which
+ generate lower fitness. This allows you to accept some
+ crossovers which reduce fitness, but not all of them.
- o actual_mutation - A Mutation class which actually implements
- mutation. functionality.
-
- o accept_less - A probability to accept mutations which
- generate lower fitness. This allows you to accept some
- crossovers which reduce fitness, but not all of them.
"""
self._mutation = actual_mutation
self._accept_less_percent = accept_less
self._accept_less_rand = random.Random()
def mutate(self, org):
- """Perform safe mutation of the specified organism.
- """
+ """Perform safe mutation of the specified organism."""
new_org = self._mutation.mutate(org)
new_org.recalculate_fitness()
diff --git a/Bio/GA/Mutation/Simple.py b/Bio/GA/Mutation/Simple.py
index 300499e..4de6329 100644
--- a/Bio/GA/Mutation/Simple.py
+++ b/Bio/GA/Mutation/Simple.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Perform Simple mutations on an organism's genome.
-"""
+"""Perform Simple mutations on an organism's genome."""
# standard modules
import random
@@ -17,25 +16,30 @@ class SinglePositionMutation(object):
This does not randomize the genome as much as ConversionMutation, since
only one change is allowed per genome at the specified mutation rate.
"""
+
def __init__(self, mutation_rate=0.001):
"""Initialize a mutator.
Arguments:
+ - mutation_rate - The chance of a mutation happening once in the
+ genome.
- o mutation_rate - The chance of a mutation happening once in the
- genome.
"""
self._mutation_rate = mutation_rate
+ # Originally there was an RNG for each case. Python 3.6 was
+ # released with a bug under Windows where all RNGs created
+ # within a 15ms window have the same initial seed.
+ # To reduce possible correlations, re-use a single RNG.
+ rng = random.Random()
# a random number generator to test if we have a mutation
- self._mutation_rand = random.Random()
+ self._mutation_rand = rng
# a random number generator to switch to a new alphabet letter
- self._switch_rand = random.Random()
+ self._switch_rand = rng
# a random number generator to find the mutation position
- self._pos_rand = random.Random()
+ self._pos_rand = rng
def mutate(self, organism):
- """Mutate the organisms genome.
- """
+ """Mutate the organism's genome."""
mutated_org = organism.copy()
gene_choices = mutated_org.genome.alphabet.letters
@@ -61,13 +65,14 @@ class ConversionMutation(object):
is determined to mutate, then the alphabet item it is equally likely
to switch to any other letter in the alphabet.
"""
+
def __init__(self, mutation_rate=0.001):
"""Inititialize a mutator.
Arguments:
+ - mutation_rate -- The chance of a mutation happening at any
+ position in the genome.
- o mutation_rate -- The chance of a mutation happening at any
- position in the genome.
"""
self._mutation_rate = mutation_rate
# a random number generator to test if we have a mutation
@@ -76,8 +81,7 @@ class ConversionMutation(object):
self._switch_rand = random.Random()
def mutate(self, organism):
- """Mutate the organisms genome.
- """
+ """Mutate the organism's genome."""
mutated_org = organism.copy()
gene_choices = mutated_org.genome.alphabet.letters
diff --git a/Bio/GA/Organism.py b/Bio/GA/Organism.py
index c876247..602f7ad 100644
--- a/Bio/GA/Organism.py
+++ b/Bio/GA/Organism.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Deal with an Organism in a Genetic Algorithm population.
-"""
+"""Deal with an Organism in a Genetic Algorithm population."""
# standard modules
import sys # for Python 3 hack
import random
@@ -15,18 +14,16 @@ from Bio.Seq import MutableSeq
def function_population(new_genome, num_organisms, fitness_calculator):
- """Generate a population given a function to create genomes
+ """Generate a population given a function to create genomes.
Arguments:
+ - new_genome - A function or callable object that will return
+ a genome that can be used for a new organism. This new genome
+ should be a MutableSeq object with a specified alphabet.
+ - num_organisms - The number of individuals we want in the population.
+ - fitness_calculator -- A function that will calculate the fitness
+ of the organism when given the organisms genome.
- o new_genome - A function or callable object that will return
- a genome that can be used for a new organism. This new genome
- should be a MutableSeq object with a specified alphabet.
-
- o num_organisms - The number of individuals we want in the population.
-
- o fitness_calculator -- A function that will calculate the fitness
- of the organism when given the organisms genome.
"""
all_orgs = []
@@ -42,17 +39,14 @@ def random_population(genome_alphabet, genome_size, num_organisms,
"""Generate a population of individuals with randomly set genomes.
Arguments:
+ - genome_alphabet -- An Alphabet object describing all of the
+ possible letters that could potentially be in the genome of an
+ organism.
+ - genome_size -- The size of each organisms genome.
+ - num_organism -- The number of organisms we want in the population.
+ - fitness_calculator -- A function that will calculate the fitness
+ of the organism when given the organisms genome.
- o genome_alphabet -- An Alphabet object describing all of the
- possible letters that could potentially be in the genome of an
- organism.
-
- o genome_size -- The size of each organisms genome.
-
- o num_organism -- The number of organisms we want in the population.
-
- o fitness_calculator -- A function that will calculate the fitness
- of the organism when given the organisms genome.
"""
all_orgs = []
@@ -91,31 +85,29 @@ class Organism(object):
"""Represent a single individual in a population.
Attributes:
+ - genome -- The genome of the organism. This is a Bio.MutableSeq
+ object that has the sequence of the genome, and the alphabet
+ describing all elements that can be a part of the genome.
+ - fitness -- The calculate fitness of the organism. This fitness is
+ based on the last time it was calculated using the fitness_calculator.
+ So... the fitness could potentially be out of date with the real genome
+ if you are not careful to recalculate it after changes with
+ recalculate_fitness()
- o genome -- The genome of the organism. This is a Bio.MutableSeq
- object that has the sequence of the genome, and the alphabet
- describing all elements that can be a part of the genome.
-
- o fitness -- The calculate fitness of the organism. This fitness is
- based on the last time it was calculated using the fitness_calculator.
- So... the fitness could potentially be out of date with the real genome
- if you are not careful to recalculate it after changes with
- recalculate_fitness()
"""
+
def __init__(self, genome, fitness_calculator, start_fitness=None):
- """Initialize an organism
+ """Initialize an organism.
Arguments:
+ - genome -- A MutableSeq object representing the sequence of the
+ genome.
+ - fitness_calculator -- A function that will calculate the fitness
+ of the organism when given the organisms genome.
+ - start_fitness - the starting fitness corresponding with the
+ given genome. If not supplied, the fitness will be calculated
+ using fitness_calculator.
- o genome -- A MutableSeq object representing the sequence of the
- genome.
-
- o fitness_calculator -- A function that will calculate the fitness
- of the organism when given the organisms genome.
-
- o start_fitness - the starting fitness corresponding with the
- given genome. If not supplied, the fitness will be calculated
- using fitness_calculator.
"""
assert isinstance(genome, MutableSeq), "Genome must be a MutableSeq"
@@ -129,13 +121,11 @@ class Organism(object):
self.fitness = start_fitness
def __str__(self):
- """Provide a string output for debugging.
- """
+ """Provide a string output for debugging."""
return "Genome: %s; Fitness %s" % (str(self.genome), self.fitness)
def __eq__(self, other):
- """Compare organisms by their genomes (as strings of letters).
- """
+ """Compare organisms by their genomes (as strings of letters)."""
# See Bio/Seq.py and the comments there about shifting to
# using simple string equality. Previously Seq objects used
# object equality, while MutableSeq objects used alphabet
@@ -143,28 +133,23 @@ class Organism(object):
return str(self.genome) == str(other.genome)
def __ne__(self, other):
- """Compare organisms by their genomes (as strings of letters).
- """
+ """Compare organisms by their genomes (as strings of letters)."""
return str(self.genome) != str(other.genome)
def __lt__(self, other):
- """Compare organisms by their genomes (as strings of letters).
- """
+ """Compare organisms by their genomes (as strings of letters)."""
return str(self.genome) < str(other.genome)
def __le__(self, other):
- """Compare organisms by their genomes (as strings of letters).
- """
+ """Compare organisms by their genomes (as strings of letters)."""
return str(self.genome) <= str(other.genome)
def __gt__(self, other):
- """Compare organisms by their genomes (as strings of letters).
- """
+ """Compare organisms by their genomes (as strings of letters)."""
return str(self.genome) > str(other.genome)
def __ge__(self, other):
- """Compare organisms by their genomes (as strings of letters).
- """
+ """Compare organisms by their genomes (as strings of letters)."""
return str(self.genome) >= str(other.genome)
def copy(self):
@@ -176,7 +161,7 @@ class Organism(object):
return Organism(copy_genome, self._fitness_calc, self.fitness)
def recalculate_fitness(self):
- """Calculate and reset the fitness of the current genome
+ """Calculate and reset the fitness of the current genome.
This should be called after the genome is updated to ensure that
fitness always stays in sync with the current genome.
diff --git a/Bio/GA/Repair/Stabilizing.py b/Bio/GA/Repair/Stabilizing.py
index 55a52f0..df0d652 100644
--- a/Bio/GA/Repair/Stabilizing.py
+++ b/Bio/GA/Repair/Stabilizing.py
@@ -23,27 +23,26 @@ class AmbiguousRepair(object):
best fitness is someting like '*******'. This repair protects against
that by changing ambiguous characters into some non-ambiguous gene.
"""
+
def __init__(self, ambig_finder, num_ambiguous):
"""Initialize the repair class.
Arguments:
+ - ambig_finder - A class implementing the function find_ambiguous
+ which will return a list of all ambiguous positions in a sequence.
+ It also must have the function all_unambiguous, which will return
+ all allowed unambiguous letters.
+ - num_ambiguous - The minimum number of ambiguous items that are
+ allowed in a genome. If there are more than this present, repair
+ will be performed.
- o ambig_finder - A class implementing the function find_ambiguous
- which will return a list of all ambiguous positions in a sequence.
- It also must have the function all_unambiguous, which will return
- all allowed unambiguous letters.
-
- o num_ambiguous - The minimum number of ambiguous items that are
- allowed in a genome. If there are more than this present, repair
- will be performed.
"""
self._ambig_finder = ambig_finder
self._num_ambiguous = num_ambiguous
self._alphabet_letters = ambig_finder.all_unambiguous()
def repair(self, organism):
- """Perform a repair to remove excess ambiguous genes.
- """
+ """Perform a repair to remove excess ambiguous genes."""
new_org = organism.copy()
# start getting rid of ambiguous items
diff --git a/Bio/GA/Selection/Abstract.py b/Bio/GA/Selection/Abstract.py
index fc58872..21b9989 100644
--- a/Bio/GA/Selection/Abstract.py
+++ b/Bio/GA/Selection/Abstract.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Base selection class from which all Selectors should derive.
-"""
+"""Base selection class from which all Selectors should derive."""
class AbstractSelection(object):
@@ -16,21 +15,20 @@ class AbstractSelection(object):
This class should not be used directly, but rather should be subclassed.
"""
+
def __init__(self, mutator, crossover, repairer=None):
"""Initialize a selector.
Arguments:
+ - mutator - A Mutation object which will perform mutation
+ on an individual.
+ - crossover - A Crossover object which will take two
+ individuals and produce two new individuals which may
+ have had crossover occur.
+ - repairer - A class which can do repair on rearranged genomes
+ to eliminate infeasible individuals. If set at None, so repair
+ will be done.
- o mutator -- A Mutation object which will perform mutation
- on an individual.
-
- o crossover -- A Crossover object which will take two
- individuals and produce two new individuals which may
- have had crossover occur.
-
- o repairer -- A class which can do repair on rearranged genomes
- to eliminate infeasible individuals. If set at None, so repair
- will be done.
"""
self._mutator = mutator
self._crossover = crossover
diff --git a/Bio/GA/Selection/Diversity.py b/Bio/GA/Selection/Diversity.py
index d9b1bce..4dad418 100644
--- a/Bio/GA/Selection/Diversity.py
+++ b/Bio/GA/Selection/Diversity.py
@@ -31,17 +31,17 @@ class DiversitySelection(AbstractSelection):
If new individuals can not be selected, new individuals will be
randomly generated and inserted into the population.
"""
+
def __init__(self, internal_selector, genome_generator):
"""Initialize a diversity selector.
Arguments:
+ - internal_selector - A selection object that will be used to select
+ individuals based on fitness, perform crossover, mutation and repair.
+ - genome_generator - A function that, when called, will return a
+ genome to be used for a new organism. The genome returned must
+ be a MutableSeq() object.
- o internal_selector - A selection object that will be used to select
- individuals based on fitness, perform crossover, mutation and repair.
-
- o genome_generator - A function that, when called, will return a
- genome to be used for a new organism. The genome returned must
- be a MutableSeq() object.
"""
self._internal_selector = internal_selector
self._genome_generator = genome_generator
@@ -78,8 +78,7 @@ class DiversitySelection(AbstractSelection):
return new_org
def select(self, population):
- """Perform selection on the current population, encouraging diversity.
- """
+ """Perform selection on the current population, encouraging diversity."""
new_population = []
while len(new_population) < len(population):
diff --git a/Bio/GA/Selection/RouletteWheel.py b/Bio/GA/Selection/RouletteWheel.py
index bc8efae..e1bc1d3 100644
--- a/Bio/GA/Selection/RouletteWheel.py
+++ b/Bio/GA/Selection/RouletteWheel.py
@@ -24,21 +24,20 @@ class RouletteWheelSelection(AbstractSelection):
from the population, and performs mutation and crossover on
the selected individuals.
"""
+
def __init__(self, mutator, crossover, repairer=None):
"""Initialize the selector.
Arguments:
+ - mutator - A Mutation object which will perform mutation
+ on an individual.
+ - crossover - A Crossover object which will take two
+ individuals and produce two new individuals which may
+ have had crossover occur.
+ - repairer - A class which can do repair on rearranged genomes
+ to eliminate infeasible individuals. If set at None, so repair
+ will be done.
- o mutator -- A Mutation object which will perform mutation
- on an individual.
-
- o crossover -- A Crossover object which will take two
- individuals and produce two new individuals which may
- have had crossover occur.
-
- o repairer -- A class which can do repair on rearranged genomes
- to eliminate infeasible individuals. If set at None, so repair
- will be done.
"""
AbstractSelection.__init__(self, mutator, crossover, repairer)
@@ -46,10 +45,10 @@ class RouletteWheelSelection(AbstractSelection):
"""Perform selection on the population based using a Roulette model.
Arguments:
+ - population - A population of organisms on which we will perform
+ selection. The individuals are assumed to have fitness values which
+ are due to their current genome.
- o population -- A population of organisms on which we will perform
- selection. The individuals are assumed to have fitness values which
- are due to their current genome.
"""
# set up the current probabilities for selecting organisms
# from the population
@@ -93,20 +92,21 @@ class RouletteWheelSelection(AbstractSelection):
This creates a fitness proportional 'wheel' that will be used for
selecting based on random numbers.
- Returns:
+ Return value:
- o A dictionary where the keys are the 'high' value that an
+ A dictionary where the keys are the 'high' value that an
individual will be selected. The low value is determined by
the previous key in a sorted list of keys. For instance, if we
- have a sorted list of keys like:
+ have a sorted list of keys like::
- [.1, .3, .7, 1]
+ [.1, .3, .7, 1]
Then the individual whose key is .1 will be selected if a number
between 0 and .1 is chosen, the individual whose key is .3 will
be selected if the number is between .1 and .3, and so on.
The values of the dictionary are the organism instances.
+
"""
# first sum up the total fitness in the population
total_fitness = 0
diff --git a/Bio/GA/Selection/Tournament.py b/Bio/GA/Selection/Tournament.py
index 78aaaba..6a3bdc9 100644
--- a/Bio/GA/Selection/Tournament.py
+++ b/Bio/GA/Selection/Tournament.py
@@ -10,6 +10,7 @@ selection, two individuals are randomly chosen from the population, and
the organism with the higher fitness is considered the 'winner' and moves
to the next generation.
"""
+
# standard modules
import random
@@ -18,16 +19,15 @@ from .Abstract import AbstractSelection
class TournamentSelection(AbstractSelection):
- """Implement tournament style selection.
- """
+ """Implement tournament style selection."""
+
def __init__(self, mutator, crossover, repairer, num_competitors=2):
"""Initialize the tournament selector.
Arguments:
-
- o num_competitors-- The number of individiuals that should be
- involved in a selection round. By default we just have two
- individuals (head to head!).
+ - num_competitors - The number of individiuals that should be
+ involved in a selection round. By default we just have two
+ individuals (head to head!).
See AbstractSelection for a description of the arguments to
the initializer.
@@ -43,10 +43,10 @@ class TournamentSelection(AbstractSelection):
"""Perform selection on the population using the Tournament model.
Arguments:
+ - population - A population of organisms on which we will perform
+ selection. The individuals are assumed to have fitness values which
+ are due to their current genome (ie. the fitness is up to date).
- o population -- A population of organisms on which we will perform
- selection. The individuals are assumed to have fitness values which
- are due to their current genome (ie. the fitness is up to date).
"""
# we want to create a new population of the same size as the original
new_population = []
diff --git a/Bio/GA/__init__.py b/Bio/GA/__init__.py
index 4d08216..9576401 100644
--- a/Bio/GA/__init__.py
+++ b/Bio/GA/__init__.py
@@ -1,2 +1,14 @@
-# make files in this directory importable
-"""A selection of genetic algorithm code."""
+# Copyright 2001 by Brad Chapman. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+"""Genetic Algorithm library (DEPRECATED)."""
+
+import warnings
+from Bio import BiopythonDeprecationWarning
+warnings.warn("Bio.GA has been deprecated, and we intend to remove"
+ " it in a future release of Biopython. Please consider using"
+ " DEAP instead. If you would like to"
+ " continue using Bio.GA, please contact the Biopython"
+ " developers via the mailing list or GitHub.",
+ BiopythonDeprecationWarning)
diff --git a/Bio/GenBank/Record.py b/Bio/GenBank/Record.py
index b148be9..c2161f6 100644
--- a/Bio/GenBank/Record.py
+++ b/Bio/GenBank/Record.py
@@ -5,12 +5,11 @@
"""Hold GenBank data in a straightforward format.
-classes:
-
- - Record - All of the information in a GenBank record.
- - Reference - hold reference data for a record.
- - Feature - Hold the information in a Feature Table.
- - Qualifier - Qualifiers on a Feature.
+Classes:
+ - Record - All of the information in a GenBank record.
+ - Reference - hold reference data for a record.
+ - Feature - Hold the information in a Feature Table.
+ - Qualifier - Qualifiers on a Feature.
17-MAR-2009: added support for WGS and WGS_SCAFLD lines. Ying Huang & Iddo Friedberg
"""
@@ -26,17 +25,14 @@ def _wrapped_genbank(information, indent, wrap_space=1, split_char=" "):
indentation so it fits properly into a GenBank record.
Arguments:
+ - information - The string holding the information we want
+ wrapped in GenBank method.
+ - indent - The indentation on the lines we are writing.
+ - wrap_space - Whether or not to wrap only on spaces in the
+ information.
+ - split_char - A specific character to split the lines on. By default
+ spaces are used.
- - information - The string holding the information we want
- wrapped in GenBank method.
-
- - indent - The indentation on the lines we are writing.
-
- - wrap_space - Whether or not to wrap only on spaces in the
- information.
-
- - split_char - A specific character to split the lines on. By default
- spaces are used.
"""
info_length = Record.GB_LINE_LENGTH - indent
@@ -107,41 +103,42 @@ class Record(object):
just interested in looking at GenBank data.
Attributes:
+ - locus - The name specified after the LOCUS keyword in the GenBank
+ record. This may be the accession number, or a clone id or something else.
+ - size - The size of the record.
+ - residue_type - The type of residues making up the sequence in this
+ record. Normally something like RNA, DNA or PROTEIN, but may be as
+ esoteric as 'ss-RNA circular'.
+ - data_file_division - The division this record is stored under in
+ GenBank (ie. PLN -> plants; PRI -> humans, primates; BCT -> bacteria...)
+ - date - The date of submission of the record, in a form like '28-JUL-1998'
+ - accession - list of all accession numbers for the sequence.
+ - nid - Nucleotide identifier number.
+ - pid - Proteint identifier number
+ - version - The accession number + version (ie. AB01234.2)
+ - db_source - Information about the database the record came from
+ - gi - The NCBI gi identifier for the record.
+ - keywords - A list of keywords related to the record.
+ - segment - If the record is one of a series, this is info about which
+ segment this record is (something like '1 of 6').
+ - source - The source of material where the sequence came from.
+ - organism - The genus and species of the organism (ie. 'Homo sapiens')
+ - taxonomy - A listing of the taxonomic classification of the organism,
+ starting general and getting more specific.
+ - references - A list of Reference objects.
+ - comment - Text with any kind of comment about the record.
+ - features - A listing of Features making up the feature table.
+ - base_counts - A string with the counts of bases for the sequence.
+ - origin - A string specifying info about the origin of the sequence.
+ - sequence - A string with the sequence itself.
+ - contig - A string of location information for a CONTIG in a RefSeq file
+ - project - The genome sequencing project numbers
+ (will be replaced by the dblink cross-references in 2009).
+ - dblinks - The genome sequencing project number(s) and other links.
+ (will replace the project information in 2009).
- - locus - The name specified after the LOCUS keyword in the GenBank
- record. This may be the accession number, or a clone id or something else.
- - size - The size of the record.
- - residue_type - The type of residues making up the sequence in this
- record. Normally something like RNA, DNA or PROTEIN, but may be as
- esoteric as 'ss-RNA circular'.
- - data_file_division - The division this record is stored under in
- GenBank (ie. PLN -> plants; PRI -> humans, primates; BCT -> bacteria...)
- - date - The date of submission of the record, in a form like '28-JUL-1998'
- - accession - list of all accession numbers for the sequence.
- - nid - Nucleotide identifier number.
- - pid - Proteint identifier number
- - version - The accession number + version (ie. AB01234.2)
- - db_source - Information about the database the record came from
- - gi - The NCBI gi identifier for the record.
- - keywords - A list of keywords related to the record.
- - segment - If the record is one of a series, this is info about which
- segment this record is (something like '1 of 6').
- - source - The source of material where the sequence came from.
- - organism - The genus and species of the organism (ie. 'Homo sapiens')
- - taxonomy - A listing of the taxonomic classification of the organism,
- starting general and getting more specific.
- - references - A list of Reference objects.
- - comment - Text with any kind of comment about the record.
- - features - A listing of Features making up the feature table.
- - base_counts - A string with the counts of bases for the sequence.
- - origin - A string specifying info about the origin of the sequence.
- - sequence - A string with the sequence itself.
- - contig - A string of location information for a CONTIG in a RefSeq file
- - project - The genome sequencing project numbers
- (will be replaced by the dblink cross-references in 2009).
- - dblinks - The genome sequencing project number(s) and other links.
- (will replace the project information in 2009).
"""
+
# constants for outputting GenBank information
GB_LINE_LENGTH = 79
GB_BASE_INDENT = 12
@@ -165,33 +162,34 @@ class Record(object):
SEQUENCE_FORMAT = "%" + str(GB_SEQUENCE_INDENT) + "s"
def __init__(self):
- self.locus = ''
- self.size = ''
- self.residue_type = ''
+ """Initialize."""
+ self.accession = []
+ self.base_counts = ''
+ self.comment = ''
+ self.contig = ''
self.data_file_division = ''
self.date = ''
+ self.db_source = ''
+ self.dblinks = []
self.definition = ''
- self.accession = []
+ self.features = []
+ self.gi = ''
+ self.keywords = []
+ self.locus = ''
self.nid = ''
+ self.organism = ''
+ self.origin = ''
self.pid = ''
- self.version = ''
+ self.primary = []
self.projects = []
- self.dblinks = []
- self.db_source = ''
- self.gi = ''
- self.keywords = []
+ self.references = []
+ self.residue_type = ''
self.segment = ''
+ self.sequence = ''
+ self.size = ''
self.source = ''
- self.organism = ''
self.taxonomy = []
- self.references = []
- self.comment = ''
- self.features = []
- self.base_counts = ''
- self.origin = ''
- self.sequence = ''
- self.contig = ''
- self.primary = []
+ self.version = ''
self.wgs = ''
self.wgs_scafld = []
@@ -237,8 +235,7 @@ class Record(object):
return output
def _locus_line(self):
- """Provide the output string for the LOCUS line.
- """
+ """Provide the output string for the LOCUS line."""
output = "LOCUS"
output += " " * 7 # 6-12 spaces
output += "%-9s" % self.locus
@@ -270,15 +267,13 @@ class Record(object):
return output
def _definition_line(self):
- """Provide output for the DEFINITION line.
- """
+ """Provide output for the DEFINITION line."""
output = Record.BASE_FORMAT % "DEFINITION"
- output += _wrapped_genbank(self.definition, Record.GB_BASE_INDENT)
+ output += _wrapped_genbank(self.definition + ".", Record.GB_BASE_INDENT)
return output
def _accession_line(self):
- """Output for the ACCESSION line.
- """
+ """Output for the ACCESSION line."""
if self.accession:
output = Record.BASE_FORMAT % "ACCESSION"
@@ -294,8 +289,7 @@ class Record(object):
return output
def _version_line(self):
- """Output for the VERSION line.
- """
+ """Output for the VERSION line."""
if self.version:
output = Record.BASE_FORMAT % "VERSION"
output += self.version
@@ -321,8 +315,7 @@ class Record(object):
return output
def _nid_line(self):
- """Output for the NID line. Use of NID is obsolete in GenBank files.
- """
+ """Output for the NID line. Use of NID is obsolete in GenBank files."""
if self.nid:
output = Record.BASE_FORMAT % "NID"
output += "%s\n" % self.nid
@@ -331,8 +324,7 @@ class Record(object):
return output
def _pid_line(self):
- """Output for PID line. Presumedly, PID usage is also obsolete.
- """
+ """Output for PID line. Presumedly, PID usage is also obsolete."""
if self.pid:
output = Record.BASE_FORMAT % "PID"
output += "%s\n" % self.pid
@@ -341,8 +333,7 @@ class Record(object):
return output
def _keywords_line(self):
- """Output for the KEYWORDS line.
- """
+ """Output for the KEYWORDS line."""
output = ""
if len(self.keywords) >= 0:
output += Record.BASE_FORMAT % "KEYWORDS"
@@ -359,8 +350,7 @@ class Record(object):
return output
def _db_source_line(self):
- """Output for DBSOURCE line.
- """
+ """Output for DBSOURCE line."""
if self.db_source:
output = Record.BASE_FORMAT % "DBSOURCE"
output += "%s\n" % self.db_source
@@ -369,8 +359,7 @@ class Record(object):
return output
def _segment_line(self):
- """Output for the SEGMENT line.
- """
+ """Output for the SEGMENT line."""
output = ""
if self.segment:
output += Record.BASE_FORMAT % "SEGMENT"
@@ -378,15 +367,13 @@ class Record(object):
return output
def _source_line(self):
- """Output for SOURCE line on where the sample came from.
- """
+ """Output for SOURCE line on where the sample came from."""
output = Record.BASE_FORMAT % "SOURCE"
output += _wrapped_genbank(self.source, Record.GB_BASE_INDENT)
return output
def _organism_line(self):
- """Output for ORGANISM line with taxonomy info.
- """
+ """Output for ORGANISM line with taxonomy info."""
output = Record.INTERNAL_FORMAT % "ORGANISM"
# Now that species names can be too long, this line can wrap (Bug 2591)
output += _wrapped_genbank(self.organism, Record.GB_BASE_INDENT)
@@ -402,8 +389,7 @@ class Record(object):
return output
def _comment_line(self):
- """Output for the COMMENT lines.
- """
+ """Output for the COMMENT lines."""
output = ""
if self.comment:
output += Record.BASE_FORMAT % "COMMENT"
@@ -412,8 +398,7 @@ class Record(object):
return output
def _features_line(self):
- """Output for the FEATURES line.
- """
+ """Output for the FEATURES line."""
output = ""
if len(self.features) > 0:
output += Record.BASE_FEATURE_FORMAT % "FEATURES"
@@ -421,8 +406,7 @@ class Record(object):
return output
def _base_count_line(self):
- """Output for the BASE COUNT line with base information.
- """
+ """Output for the BASE COUNT line with base information."""
output = ""
if self.base_counts:
output += Record.BASE_FORMAT % "BASE COUNT "
@@ -447,8 +431,7 @@ class Record(object):
return output
def _origin_line(self):
- """Output for the ORIGIN line
- """
+ """Output for the ORIGIN line."""
output = ""
# only output the ORIGIN line if we have a sequence
if self.sequence:
@@ -461,8 +444,7 @@ class Record(object):
return output
def _sequence_line(self):
- """Output for all of the sequence.
- """
+ """Output for all of the sequence."""
output = ""
if self.sequence:
cur_seq_pos = 0
@@ -498,8 +480,7 @@ class Record(object):
return output
def _contig_line(self):
- """Output for CONTIG location information from RefSeq.
- """
+ """Output for CONTIG location information from RefSeq."""
output = ""
if self.contig:
output += Record.BASE_FORMAT % "CONTIG"
@@ -512,18 +493,20 @@ class Reference(object):
"""Hold information from a GenBank reference.
Attributes:
+ - number - The number of the reference in the listing of references.
+ - bases - The bases in the sequence the reference refers to.
+ - authors - String with all of the authors.
+ - consrtm - Consortium the authors belong to.
+ - title - The title of the reference.
+ - journal - Information about the journal where the reference appeared.
+ - medline_id - The medline id for the reference.
+ - pubmed_id - The pubmed_id for the reference.
+ - remark - Free-form remarks about the reference.
- - number - The number of the reference in the listing of references.
- - bases - The bases in the sequence the reference refers to.
- - authors - String with all of the authors.
- - consrtm - Consortium the authors belong to.
- - title - The title of the reference.
- - journal - Information about the journal where the reference appeared.
- - medline_id - The medline id for the reference.
- - pubmed_id - The pubmed_id for the reference.
- - remark - Free-form remarks about the reference.
"""
+
def __init__(self):
+ """Initialize."""
self.number = ''
self.bases = ''
self.authors = ''
@@ -535,6 +518,7 @@ class Reference(object):
self.remark = ''
def __str__(self):
+ """Convert the reference to a GenBank format string."""
output = self._reference_line()
output += self._authors_line()
output += self._consrtm_line()
@@ -547,8 +531,7 @@ class Reference(object):
return output
def _reference_line(self):
- """Output for REFERENCE lines.
- """
+ """Output for REFERENCE lines."""
output = Record.BASE_FORMAT % "REFERENCE"
if self.number:
if self.bases:
@@ -561,8 +544,7 @@ class Reference(object):
return output
def _authors_line(self):
- """Output for AUTHORS information.
- """
+ """Output for AUTHORS information."""
output = ""
if self.authors:
output += Record.INTERNAL_FORMAT % "AUTHORS"
@@ -570,8 +552,7 @@ class Reference(object):
return output
def _consrtm_line(self):
- """Output for CONSRTM information.
- """
+ """Output for CONSRTM information."""
output = ""
if self.consrtm:
output += Record.INTERNAL_FORMAT % "CONSRTM"
@@ -579,8 +560,7 @@ class Reference(object):
return output
def _title_line(self):
- """Output for TITLE information.
- """
+ """Output for TITLE information."""
output = ""
if self.title:
output += Record.INTERNAL_FORMAT % "TITLE"
@@ -588,8 +568,7 @@ class Reference(object):
return output
def _journal_line(self):
- """Output for JOURNAL information.
- """
+ """Output for JOURNAL information."""
output = ""
if self.journal:
output += Record.INTERNAL_FORMAT % "JOURNAL"
@@ -597,8 +576,7 @@ class Reference(object):
return output
def _medline_line(self):
- """Output for MEDLINE information.
- """
+ """Output for MEDLINE information."""
output = ""
if self.medline_id:
output += Record.INTERNAL_FORMAT % "MEDLINE"
@@ -606,8 +584,7 @@ class Reference(object):
return output
def _pubmed_line(self):
- """Output for PUBMED information.
- """
+ """Output for PUBMED information."""
output = ""
if self.pubmed_id:
output += Record.OTHER_INTERNAL_FORMAT % "PUBMED"
@@ -615,8 +592,7 @@ class Reference(object):
return output
def _remark_line(self):
- """Output for REMARK information.
- """
+ """Output for REMARK information."""
output = ""
if self.remark:
output += Record.INTERNAL_FORMAT % "REMARK"
@@ -628,17 +604,20 @@ class Feature(object):
"""Hold information about a Feature in the Feature Table of GenBank record.
Attributes:
+ - key - The key name of the featue (ie. source)
+ - location - The string specifying the location of the feature.
+ - qualfiers - A listing Qualifier objects in the feature.
- - key - The key name of the featue (ie. source)
- - location - The string specifying the location of the feature.
- - qualfiers - A listing Qualifier objects in the feature.
"""
+
def __init__(self):
+ """Initialize."""
self.key = ''
self.location = ''
self.qualifiers = []
def __str__(self):
+ """Return feature as a GenBank format string."""
output = Record.INTERNAL_FEATURE_FORMAT % self.key
output += _wrapped_genbank(self.location, Record.GB_FEATURE_INDENT,
split_char=',')
@@ -661,10 +640,12 @@ class Qualifier(object):
"""Hold information about a qualifier in a GenBank feature.
Attributes:
+ - key - The key name of the qualifier (ie. /organism=)
+ - value - The value of the qualifier ("Dictyostelium discoideum").
- - key - The key name of the qualifier (ie. /organism=)
- - value - The value of the qualifier ("Dictyostelium discoideum").
"""
+
def __init__(self):
+ """Initialize."""
self.key = ''
self.value = ''
diff --git a/Bio/GenBank/Scanner.py b/Bio/GenBank/Scanner.py
index 20047d6..f3e0517 100644
--- a/Bio/GenBank/Scanner.py
+++ b/Bio/GenBank/Scanner.py
@@ -1,4 +1,4 @@
-# Copyright 2007-2010 by Peter Cock. All rights reserved.
+# Copyright 2007-2017 by Peter Cock. All rights reserved.
# Revisions copyright 2010 by Uri Laserson. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
@@ -30,7 +30,7 @@ from __future__ import print_function
import warnings
import re
-from collections import defaultdict
+from collections import OrderedDict
from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
from Bio.Alphabet import generic_protein
@@ -45,7 +45,8 @@ class InsdcScanner(object):
same "Feature Table" layout in their plain text flat file formats.
However, the header and sequence sections of an EMBL file are very
- different in layout to those produced by GenBank/DDBJ."""
+ different in layout to those produced by GenBank/DDBJ.
+ """
# These constants get redefined with sensible values in the sub classes:
RECORD_START = "XXX" # "LOCUS " or "ID "
@@ -57,14 +58,17 @@ class InsdcScanner(object):
SEQUENCE_HEADERS = ["XXX"] # with right hand side spaces removed
def __init__(self, debug=0):
+ """Initialize."""
assert len(self.RECORD_START) == self.HEADER_WIDTH
for marker in self.SEQUENCE_HEADERS:
assert marker == marker.rstrip()
assert len(self.FEATURE_QUALIFIER_SPACER) == self.FEATURE_QUALIFIER_INDENT
self.debug = debug
+ self.handle = None
self.line = None
def set_handle(self, handle):
+ """Set the handle attribute."""
self.handle = handle
self.line = ""
@@ -72,7 +76,8 @@ class InsdcScanner(object):
"""Read in lines until find the ID/LOCUS line, which is returned.
Any preamble (such as the header used by the NCBI on ``*.seq.gz`` archives)
- will we ignored."""
+ will we ignored.
+ """
while True:
if self.line:
line = self.line
@@ -102,7 +107,7 @@ class InsdcScanner(object):
return line
def parse_header(self):
- """Return list of strings making up the header
+ """Return list of strings making up the header.
New line characters are removed.
@@ -135,7 +140,7 @@ class InsdcScanner(object):
return header_lines
def parse_features(self, skip=False):
- """Return list of tuples for the features (if present)
+ """Return list of tuples for the features (if present).
Each feature is returned as a tuple (key, location, qualifiers)
where key and location are strings (e.g. "CDS" and
@@ -210,7 +215,10 @@ class InsdcScanner(object):
return features
def parse_feature(self, feature_key, lines):
- r"""Expects a feature as a list of strings, returns a tuple (key, location, qualifiers)
+ r"""Parse a feature given as a list of strings into a tuple.
+
+ Expects a feature as a list of strings, returns a tuple (key, location,
+ qualifiers)
For example given this GenBank feature::
@@ -325,14 +333,14 @@ class InsdcScanner(object):
if qualifiers[-1][1] is None:
raise StopIteration
qualifiers[-1] = (key, qualifiers[-1][1] + "\n" + line)
- return (feature_key, feature_location, qualifiers)
+ return feature_key, feature_location, qualifiers
except StopIteration:
# Bummer
raise ValueError("Problem with '%s' feature:\n%s"
% (feature_key, "\n".join(lines)))
def parse_footer(self):
- """returns a tuple containing a list of any misc strings, and the sequence"""
+ """Return a tuple containing a list of any misc strings, and the sequence."""
# This is a basic bit of code to scan and discard the sequence,
# which was useful when developing the sub classes.
if self.line in self.FEATURE_END_MARKERS:
@@ -352,10 +360,10 @@ class InsdcScanner(object):
if line == "//":
break
self.line = line
- return ([], "") # Dummy values!
+ return [], "" # Dummy values!
def _feed_first_line(self, consumer, line):
- """Handle the LOCUS/ID line, passing data to the comsumer
+ """Handle the LOCUS/ID line, passing data to the comsumer (PRIVATE).
This should be implemented by the EMBL / GenBank specific subclass
@@ -364,7 +372,7 @@ class InsdcScanner(object):
pass
def _feed_header_lines(self, consumer, lines):
- """Handle the header lines (list of strings), passing data to the comsumer
+ """Handle the header lines (list of strings), passing data to the comsumer (PRIVATE).
This should be implemented by the EMBL / GenBank specific subclass
@@ -372,8 +380,9 @@ class InsdcScanner(object):
"""
pass
- def _feed_feature_table(self, consumer, feature_tuples):
- """Handle the feature table (list of tuples), passing data to the comsumer
+ @staticmethod
+ def _feed_feature_table(consumer, feature_tuples):
+ """Handle the feature table (list of tuples), passing data to the comsumer (PRIVATE).
Used by the parse_records() and parse() methods.
"""
@@ -388,7 +397,7 @@ class InsdcScanner(object):
consumer.feature_qualifier(q_key, q_value.replace("\n", " "))
def _feed_misc_lines(self, consumer, lines):
- """Handle any lines between features and sequence (list of strings), passing data to the consumer
+ """Handle any lines between features and sequence (list of strings), passing data to the consumer (PRIVATE).
This should be implemented by the EMBL / GenBank specific subclass
@@ -402,16 +411,15 @@ class InsdcScanner(object):
This method is intended for use with the "old" code in Bio.GenBank
Arguments:
-
- - handle - A handle with the information to parse.
- - consumer - The consumer that should be informed of events.
- - do_features - Boolean, should the features be parsed?
- Skipping the features can be much faster.
+ - handle - A handle with the information to parse.
+ - consumer - The consumer that should be informed of events.
+ - do_features - Boolean, should the features be parsed?
+ Skipping the features can be much faster.
Return values:
+ - true - Passed a record
+ - false - Did not find a record
- - true - Passed a record
- - false - Did not find a record
"""
# Should work with both EMBL and GenBank files provided the
# equivalent Bio.GenBank._FeatureConsumer methods are called...
@@ -449,7 +457,7 @@ class InsdcScanner(object):
return True
def parse(self, handle, do_features=True):
- """Returns a SeqRecord (with SeqFeatures if do_features=True)
+ """Return a SeqRecord (with SeqFeatures if do_features=True).
See also the method parse_records() for use on multi-record files.
"""
@@ -465,7 +473,7 @@ class InsdcScanner(object):
return None
def parse_records(self, handle, do_features=True):
- """Returns a SeqRecord object iterator
+ """Parse records, return a SeqRecord object iterator.
Each record (from the ID/LOCUS line to the // line) becomes a SeqRecord
@@ -489,13 +497,14 @@ class InsdcScanner(object):
def parse_cds_features(self, handle,
alphabet=generic_protein,
tags2id=('protein_id', 'locus_tag', 'product')):
- """Returns SeqRecord object iterator
+ """Parse CDS features, return SeqRecord object iterator.
Each CDS feature becomes a SeqRecord.
- - alphabet - Used for any sequence found in a translation field.
- - tags2id - Tupple of three strings, the feature keys to use
- for the record id, name and description,
+ Arguments:
+ - alphabet - Used for any sequence found in a translation field.
+ - tags2id - Tupple of three strings, the feature keys to use
+ for the record id, name and description,
This method is intended for use in Bio.SeqIO
"""
@@ -569,7 +578,7 @@ class InsdcScanner(object):
class EmblScanner(InsdcScanner):
- """For extracting chunks of information in EMBL files"""
+ """For extracting chunks of information in EMBL files."""
RECORD_START = "ID "
HEADER_WIDTH = 5
@@ -579,8 +588,11 @@ class EmblScanner(InsdcScanner):
FEATURE_QUALIFIER_SPACER = "FT" + " " * (FEATURE_QUALIFIER_INDENT - 2)
SEQUENCE_HEADERS = ["SQ", "CO"] # Remove trailing spaces
+ EMBL_INDENT = HEADER_WIDTH
+ EMBL_SPACER = " " * EMBL_INDENT
+
def parse_footer(self):
- """returns a tuple containing a list of any misc strings, and the sequence"""
+ """Return a tuple containing a list of any misc strings, and the sequence."""
assert self.line[:self.HEADER_WIDTH].rstrip() in self.SEQUENCE_HEADERS, \
"Eh? '%s'" % self.line
@@ -610,11 +622,11 @@ class EmblScanner(InsdcScanner):
repr(self.line)
# Remove tailing number now, remove spaces later
linersplit = line.rsplit(None, 1)
- if(len(linersplit) > 1):
+ if len(linersplit) > 1:
seq_lines.append(linersplit[0])
line = self.handle.readline()
self.line = line
- return (misc_lines, "".join(seq_lines).replace(" ", ""))
+ return misc_lines, "".join(seq_lines).replace(" ", "")
def _feed_first_line(self, consumer, line):
assert line[:self.HEADER_WIDTH].rstrip() == "ID"
@@ -628,10 +640,17 @@ class EmblScanner(InsdcScanner):
else:
# Looks like the pre 2006 style
self._feed_first_line_old(consumer, line)
+ elif line[self.HEADER_WIDTH:].count(";") == 2:
+ # Looks like KIKO patent data
+ self._feed_first_line_patents_kipo(consumer, line)
else:
raise ValueError('Did not recognise the ID line layout:\n' + line)
def _feed_first_line_patents(self, consumer, line):
+ # Old style EMBL patent records where ID line ended SQ
+ # Not 100% sure that PRT here is really molecule type and
+ # not the data file division...
+ #
# Either Non-Redundant Level 1 database records,
# ID <accession>; <molecule type>; <non-redundant level 1>; <cluster size L1>
# e.g. ID NRP_AX000635; PRT; NR1; 15 SQ
@@ -639,13 +658,39 @@ class EmblScanner(InsdcScanner):
# Or, Non-Redundant Level 2 database records:
# ID <L2-accession>; <molecule type>; <non-redundant level 2>; <cluster size L2>
# e.g. ID NRP0000016E; PRT; NR2; 5 SQ
- fields = line[self.HEADER_WIDTH:].rstrip()[:-3].split(";")
+ # e.g. ID NRP_AX000635; PRT; NR1; 15 SQ
+ fields = [data.strip() for data in line[self.HEADER_WIDTH:].strip()[:-3].split(";")]
assert len(fields) == 4
consumer.locus(fields[0])
- consumer.residue_type(fields[1])
+ consumer.residue_type(fields[1]) # semi-redundant
consumer.data_file_division(fields[2])
# TODO - Record cluster size?
+ def _feed_first_line_patents_kipo(self, consumer, line):
+ # EMBL format patent sequence from KIPO, e.g.
+ # ftp://ftp.ebi.ac.uk/pub/databases/patentdata/kipo_prt.dat.gz
+ #
+ # e.g. ID DI500001 STANDARD; PRT; 111 AA.
+ #
+ # This follows the style of _feed_first_line_old
+ assert line[:self.HEADER_WIDTH].rstrip() == "ID"
+ fields = [line[self.HEADER_WIDTH:].split(None, 1)[0]]
+ fields.extend(line[self.HEADER_WIDTH:].split(None, 1)[1].split(";"))
+ fields = [entry.strip() for entry in fields]
+ """
+ The tokens represent:
+
+ 0. Primary accession number
+ (space sep)
+ 1. ??? (e.g. standard)
+ (semi-colon)
+ 2. Molecule type (protein)? Division? Always 'PRT'
+ 3. Sequence length (e.g. '111 AA.')
+ """
+ consumer.locus(fields[0]) # Should we also call the accession consumer?
+ # consumer.molecule_type(fields[2])
+ self._feed_seq_length(consumer, fields[3])
+
def _feed_first_line_old(self, consumer, line):
# Expects an ID line in the style before 2006, e.g.
# ID SC10H5 standard; DNA; PRO; 4870 BP.
@@ -664,9 +709,18 @@ class EmblScanner(InsdcScanner):
2. Topology and/or Molecule type (e.g. 'circular DNA' or 'DNA')
3. Taxonomic division (e.g. 'PRO')
4. Sequence length (e.g. '4639675 BP.')
+
"""
consumer.locus(fields[0]) # Should we also call the accession consumer?
consumer.residue_type(fields[2])
+ if "circular" in fields[2]:
+ consumer.topology("circular")
+ consumer.molecule_type(fields[2].replace("circular", "").strip())
+ elif "linear" in fields[2]:
+ consumer.topology("linear")
+ consumer.molecule_type(fields[2].replace("linear", "").strip())
+ else:
+ consumer.molecule_type(fields[2].strip())
consumer.data_file_division(fields[3])
self._feed_seq_length(consumer, fields[4])
@@ -687,6 +741,7 @@ class EmblScanner(InsdcScanner):
4. Data class (e.g. 'STD')
5. Taxonomic division (e.g. 'PRO')
6. Sequence length (e.g. '4639675 BP.')
+
"""
consumer.locus(fields[0])
@@ -704,7 +759,10 @@ class EmblScanner(InsdcScanner):
consumer.version_suffix(version_parts[1])
# Based on how the old GenBank parser worked, merge these two:
- consumer.residue_type(" ".join(fields[2:4])) # TODO - Store as two fields?
+ consumer.residue_type(" ".join(fields[2:4])) # Semi-obsolete
+
+ consumer.topology(fields[2])
+ consumer.molecule_type(fields[3])
# consumer.xxx(fields[4]) # TODO - What should we do with the data class?
@@ -712,15 +770,14 @@ class EmblScanner(InsdcScanner):
self._feed_seq_length(consumer, fields[6])
- def _feed_seq_length(self, consumer, text):
+ @staticmethod
+ def _feed_seq_length(consumer, text):
length_parts = text.split()
assert len(length_parts) == 2, "Invalid sequence length string %r" % text
assert length_parts[1].upper() in ["BP", "BP.", "AA", "AA."]
consumer.size(length_parts[0])
def _feed_header_lines(self, consumer, lines):
- EMBL_INDENT = self.HEADER_WIDTH
- EMBL_SPACER = " " * EMBL_INDENT
consumer_dict = {
'AC': 'accession',
'SV': 'version', # SV line removed in June 2006, now part of ID line
@@ -742,8 +799,8 @@ class EmblScanner(InsdcScanner):
# We have to handle the following specially:
# RX (depending on reference type...)
for line in lines:
- line_type = line[:EMBL_INDENT].strip()
- data = line[EMBL_INDENT:].strip()
+ line_type = line[:self.EMBL_INDENT].strip()
+ data = line[self.EMBL_INDENT:].strip()
if line_type == 'XX':
pass
elif line_type == 'RN':
@@ -753,12 +810,16 @@ class EmblScanner(InsdcScanner):
data = data[1:-1]
consumer.reference_num(data)
elif line_type == 'RP':
- # Reformat reference numbers for the GenBank based consumer
- # e.g. '1-4639675' becomes '(bases 1 to 4639675)'
- # and '160-550, 904-1055' becomes '(bases 160 to 550; 904 to 1055)'
- # Note could be multi-line, and end with a comma
- parts = [bases.replace("-", " to ").strip() for bases in data.split(",") if bases.strip()]
- consumer.reference_bases("(bases %s)" % "; ".join(parts))
+ if data.strip() == "[-]":
+ # Patent EMBL files from KIPO just use: RN [-]
+ pass
+ else:
+ # Reformat reference numbers for the GenBank based consumer
+ # e.g. '1-4639675' becomes '(bases 1 to 4639675)'
+ # and '160-550, 904-1055' becomes '(bases 160 to 550; 904 to 1055)'
+ # Note could be multi-line, and end with a comma
+ parts = [bases.replace("-", " to ").strip() for bases in data.split(",") if bases.strip()]
+ consumer.reference_bases("(bases %s)" % "; ".join(parts))
elif line_type == 'RT':
# Remove the enclosing quotes and trailing semi colon.
# Note the title can be split over multiple lines.
@@ -885,8 +946,60 @@ class _ImgtScanner(EmblScanner):
"FH Key Location/Qualifiers",
"FH"]
+ def _feed_first_line(self, consumer, line):
+ assert line[:self.HEADER_WIDTH].rstrip() == "ID"
+ if line[self.HEADER_WIDTH:].count(";") != 5:
+ # Assume its an older EMBL-like line,
+ return EmblScanner._feed_first_line(self, consumer, line)
+ # Otherwise assume its the new (circa 2016) IMGT style
+ # as used in the IPD-IMGT/HLA Database
+ #
+ # https://github.com/ANHIG/IMGTHLA/
+ #
+ # The key changes post 3.16 are the addition of an SV value
+ # to the ID line, these additions should make the format more
+ # similar to the ENA style.
+ #
+ # ID HLA00001 standard; DNA; HUM; 3503 BP.
+ #
+ # becomes
+ #
+ # ID HLA00001; SV 1; standard; DNA; HUM; 3503 BP.
+ fields = [data.strip() for data in line[self.HEADER_WIDTH:].strip().split(";")]
+ assert len(fields) == 6
+ """
+ The tokens represent:
+
+ 0. Primary accession number (eg 'HLA00001')
+ 1. Sequence version number (eg 'SV 1')
+ 2. ??? eg 'standard'
+ 3. Molecule type (e.g. 'DNA')
+ 4. Taxonomic division (e.g. 'HUM')
+ 5. Sequence length (e.g. '3503 BP.')
+ """
+ consumer.locus(fields[0])
+
+ # See TODO on the EMBL _feed_first_line_new about version field
+ version_parts = fields[1].split()
+ if len(version_parts) == 2 \
+ and version_parts[0] == "SV" \
+ and version_parts[1].isdigit():
+ consumer.version_suffix(version_parts[1])
+
+ consumer.residue_type(fields[3])
+ if "circular" in fields[3]:
+ consumer.topology("circular")
+ consumer.molecule_type(fields[3].replace("circular", "").strip())
+ elif "linear" in fields[3]:
+ consumer.topology("linear")
+ consumer.molecule_type(fields[3].replace("linear", "").strip())
+ else:
+ consumer.molecule_type(fields[3].strip())
+ consumer.data_file_division(fields[4])
+ self._feed_seq_length(consumer, fields[5])
+
def parse_features(self, skip=False):
- """Return list of tuples for the features (if present)
+ """Return list of tuples for the features (if present).
Each feature is returned as a tuple (key, location, qualifiers)
where key and location are strings (e.g. "CDS" and
@@ -903,7 +1016,7 @@ class _ImgtScanner(EmblScanner):
while self.line.rstrip() in self.FEATURE_START_MARKERS:
self.line = self.handle.readline()
- bad_position_re = re.compile(r'([0-9]+)>{1}')
+ bad_position_re = re.compile(r'([0-9]+)>')
features = []
line = self.line
@@ -968,7 +1081,7 @@ class _ImgtScanner(EmblScanner):
class GenBankScanner(InsdcScanner):
- """For extracting chunks of information in GenBank files"""
+ """For extracting chunks of information in GenBank files."""
RECORD_START = "LOCUS "
HEADER_WIDTH = 12
@@ -978,8 +1091,15 @@ class GenBankScanner(InsdcScanner):
FEATURE_QUALIFIER_SPACER = " " * FEATURE_QUALIFIER_INDENT
SEQUENCE_HEADERS = ["CONTIG", "ORIGIN", "BASE COUNT", "WGS"] # trailing spaces removed
+ GENBANK_INDENT = HEADER_WIDTH
+ GENBANK_SPACER = " " * GENBANK_INDENT
+
+ STRUCTURED_COMMENT_START = "-START##"
+ STRUCTURED_COMMENT_END = "-END##"
+ STRUCTURED_COMMENT_DELIM = " :: "
+
def parse_footer(self):
- """returns a tuple containing a list of any misc strings, and the sequence"""
+ """Return a tuple containing a list of any misc strings, and the sequence."""
assert self.line[:self.HEADER_WIDTH].rstrip() in self.SEQUENCE_HEADERS, \
"Eh? '%s'" % self.line
@@ -1029,7 +1149,7 @@ class GenBankScanner(InsdcScanner):
self.line = line
# Seq("".join(seq_lines), self.alphabet)
- return (misc_lines, "".join(seq_lines).replace(" ", ""))
+ return misc_lines, "".join(seq_lines).replace(" ", "")
def _feed_first_line(self, consumer, line):
"""Scan over and parse GenBank LOCUS line (PRIVATE).
@@ -1044,9 +1164,7 @@ class GenBankScanner(InsdcScanner):
#####################################
# LOCUS line #
#####################################
- GENBANK_INDENT = self.HEADER_WIDTH
- GENBANK_SPACER = " " * GENBANK_INDENT
- assert line[0:GENBANK_INDENT] == 'LOCUS ', \
+ assert line[0:self.GENBANK_INDENT] == 'LOCUS ', \
'LOCUS line does not start correctly:\n' + line
# Have to break up the locus line, and handle the different bits of it.
@@ -1063,7 +1181,7 @@ class GenBankScanner(InsdcScanner):
# ??:?? space
# ??:29 Length of sequence, right-justified
# 29:33 space, bp, space
- # 33:41 strand type
+ # 33:41 strand type / molecule type, e.g. DNA
# 41:42 space
# 42:51 Blank (implies linear), linear or circular
# 51:52 space
@@ -1087,7 +1205,7 @@ class GenBankScanner(InsdcScanner):
assert line[68:69] == '-', \
'LOCUS line does not contain - at position 69 in date:\n' + line
- name_and_length_str = line[GENBANK_INDENT:29]
+ name_and_length_str = line[self.GENBANK_INDENT:29]
while ' ' in name_and_length_str:
name_and_length_str = name_and_length_str.replace(' ', ' ')
name_and_length = name_and_length_str.split(' ')
@@ -1118,6 +1236,8 @@ class GenBankScanner(InsdcScanner):
else:
consumer.residue_type(line[33:51].strip())
+ consumer.molecule_type(line[33:41].strip())
+ consumer.topology(line[42:51].strip())
consumer.data_file_division(line[52:55])
if line[62:73].strip():
consumer.date(line[62:73])
@@ -1165,7 +1285,7 @@ class GenBankScanner(InsdcScanner):
assert line[74:75] == '-', \
'LOCUS line does not contain - at position 75 in date:\n' + line
- name_and_length_str = line[GENBANK_INDENT:40]
+ name_and_length_str = line[self.GENBANK_INDENT:40]
while ' ' in name_and_length_str:
name_and_length_str = name_and_length_str.replace(' ', ' ')
name_and_length = name_and_length_str.split(' ')
@@ -1188,10 +1308,12 @@ class GenBankScanner(InsdcScanner):
else:
consumer.residue_type(line[44:63].strip())
+ consumer.molecule_type(line[44:54].strip())
+ consumer.topology(line[55:63].strip())
consumer.data_file_division(line[64:67])
if line[68:79].strip():
consumer.date(line[68:79])
- elif line[GENBANK_INDENT:].strip().count(" ") == 0:
+ elif line[self.GENBANK_INDENT:].strip().count(" ") == 0:
# Truncated LOCUS line, as produced by some EMBOSS tools - see bug 1762
#
# e.g.
@@ -1207,27 +1329,29 @@ class GenBankScanner(InsdcScanner):
# 00:06 LOCUS
# 06:12 spaces
# 12:?? Locus name
- if line[GENBANK_INDENT:].strip() != "":
- consumer.locus(line[GENBANK_INDENT:].strip())
+ if line[self.GENBANK_INDENT:].strip() != "":
+ consumer.locus(line[self.GENBANK_INDENT:].strip())
else:
# Must just have just "LOCUS ", is this even legitimate?
# We should be able to continue parsing... we need real world testcases!
warnings.warn("Minimal LOCUS line found - is this "
"correct?\n:%r" % line, BiopythonParserWarning)
- elif len(line.split()) == 8 and line.split()[3] in ("aa", "bp") and \
- line.split()[5] in ('linear', 'circular'):
+ elif len(line.split()) == 8 and line.split()[3] in ("aa", "bp") \
+ and line.split()[5] in ('linear', 'circular'):
# Cope with invalidly spaced GenBank LOCUS lines like
# LOCUS AB070938 6497 bp DNA linear BCT 11-OCT-2001
splitline = line.split()
consumer.locus(splitline[1])
consumer.size(splitline[2])
consumer.residue_type(splitline[4])
+ consumer.topology(splitline[5])
consumer.data_file_division(splitline[6])
consumer.date(splitline[7])
warnings.warn("Attempting to parse malformed locus line:\n%r\n"
"Found locus %r size %r residue_type %r\n"
- "Some fields may be wrong." % (line, splitline[1],
- splitline[2], splitline[4]), BiopythonParserWarning)
+ "Some fields may be wrong."
+ % (line, splitline[1], splitline[2], splitline[4]),
+ BiopythonParserWarning)
elif len(line.split()) == 7 and line.split()[3] in ["aa", "bp"]:
# Cope with EnsEMBL genbank files which use space separation rather
# than the expected column based layout. e.g.
@@ -1266,11 +1390,6 @@ class GenBankScanner(InsdcScanner):
# consumer methods - the special cases like LOCUS where one
# genbank line triggers several consumer calls have to be
# handled individually.
- GENBANK_INDENT = self.HEADER_WIDTH
- GENBANK_SPACER = " " * GENBANK_INDENT
- STRUCTURED_COMMENT_START = "-START##"
- STRUCTURED_COMMENT_END = "-END##"
- STRUCTURED_COMMENT_DELIM = " :: "
consumer_dict = {
'DEFINITION': 'definition',
'ACCESSION': 'accession',
@@ -1303,8 +1422,8 @@ class GenBankScanner(InsdcScanner):
while True:
if not line:
break
- line_type = line[:GENBANK_INDENT].strip()
- data = line[GENBANK_INDENT:].strip()
+ line_type = line[:self.GENBANK_INDENT].strip()
+ data = line[self.GENBANK_INDENT:].strip()
if line_type == 'VERSION':
# Need to call consumer.version(), and maybe also consumer.gi() as well.
@@ -1329,9 +1448,9 @@ class GenBankScanner(InsdcScanner):
# Read in the next line, and see if its more of the DBLINK section:
while True:
line = next(line_iter)
- if line[:GENBANK_INDENT] == GENBANK_SPACER:
+ if line[:self.GENBANK_INDENT] == self.GENBANK_SPACER:
# Add this continuation to the data string
- consumer.dblink(line[GENBANK_INDENT:].strip())
+ consumer.dblink(line[self.GENBANK_INDENT:].strip())
else:
# End of the DBLINK, leave this text in the variable "line"
break
@@ -1353,9 +1472,9 @@ class GenBankScanner(InsdcScanner):
# Read in the next line, and see if its more of the reference:
while True:
line = next(line_iter)
- if line[:GENBANK_INDENT] == GENBANK_SPACER:
+ if line[:self.GENBANK_INDENT] == self.GENBANK_SPACER:
# Add this continuation to the data string
- data += " " + line[GENBANK_INDENT:]
+ data += " " + line[self.GENBANK_INDENT:]
if self.debug > 1:
print("Extended reference text [" + data + "]")
else:
@@ -1388,14 +1507,14 @@ class GenBankScanner(InsdcScanner):
lineage_data = ""
while True:
line = next(line_iter)
- if line[0:GENBANK_INDENT] == GENBANK_SPACER:
+ if line[0:self.GENBANK_INDENT] == self.GENBANK_SPACER:
if lineage_data or ";" in line:
- lineage_data += " " + line[GENBANK_INDENT:]
- elif line[GENBANK_INDENT:].strip() == ".":
+ lineage_data += " " + line[self.GENBANK_INDENT:]
+ elif line[self.GENBANK_INDENT:].strip() == ".":
# No lineage data, just . place holder
pass
else:
- organism_data += " " + line[GENBANK_INDENT:].strip()
+ organism_data += " " + line[self.GENBANK_INDENT:].strip()
else:
# End of organism and taxonomy
break
@@ -1406,7 +1525,7 @@ class GenBankScanner(InsdcScanner):
del organism_data, lineage_data
elif line_type == 'COMMENT':
# A COMMENT can either be plain text or tabular (Structured Comment),
- # or contain both. Multiline comments are common. The code calls
+ # or contain both. Multi-line comments are common. The code calls
# consumer.comment() once with a list where each entry
# is a line. If there's a structured comment consumer.structured_comment()
# is called with a dict of dicts where the secondary key/value pairs are
@@ -1414,15 +1533,15 @@ class GenBankScanner(InsdcScanner):
# the title or header of the table (e.g. Assembly-Data, FluData). See
# http://www.ncbi.nlm.nih.gov/genbank/structuredcomment
# for more information on Structured Comments.
- data = line[GENBANK_INDENT:]
+ data = line[self.GENBANK_INDENT:]
if self.debug > 1:
print("Found comment")
comment_list = []
- structured_comment_dict = defaultdict(dict)
- structured_comment_key = ''
-
- if STRUCTURED_COMMENT_START in data:
- structured_comment_key = re.search(r"([^#]+){0}$".format(STRUCTURED_COMMENT_START), data).group(1)
+ structured_comment_dict = OrderedDict()
+ regex = r"([^#]+){0}$".format(self.STRUCTURED_COMMENT_START)
+ structured_comment_key = re.search(regex, data)
+ if structured_comment_key is not None:
+ structured_comment_key = structured_comment_key.group(1)
if self.debug > 1:
print("Found Structured Comment")
else:
@@ -1430,16 +1549,22 @@ class GenBankScanner(InsdcScanner):
while True:
line = next(line_iter)
- data = line[GENBANK_INDENT:]
- if line[0:GENBANK_INDENT] == GENBANK_SPACER:
- if STRUCTURED_COMMENT_START in data:
- structured_comment_key = re.search(r"([^#]+){0}$".format(STRUCTURED_COMMENT_START), data).group(1)
- elif structured_comment_key is not None and STRUCTURED_COMMENT_DELIM in data:
- match = re.search(r"(.+?)\s*{0}\s*(.+)".format(STRUCTURED_COMMENT_DELIM), data)
+ data = line[self.GENBANK_INDENT:]
+ if line[0:self.GENBANK_INDENT] == self.GENBANK_SPACER:
+ if self.STRUCTURED_COMMENT_START in data:
+ regex = r"([^#]+){0}$".format(self.STRUCTURED_COMMENT_START)
+ structured_comment_key = re.search(regex, data)
+ if structured_comment_key is not None:
+ structured_comment_key = structured_comment_key.group(1)
+ else:
+ comment_list.append(data)
+ elif structured_comment_key is not None and self.STRUCTURED_COMMENT_DELIM in data:
+ match = re.search(r"(.+?)\s*{0}\s*(.+)".format(self.STRUCTURED_COMMENT_DELIM), data)
+ structured_comment_dict.setdefault(structured_comment_key, OrderedDict())
structured_comment_dict[structured_comment_key][match.group(1)] = match.group(2)
if self.debug > 2:
print("Structured Comment continuation [" + data + "]")
- elif STRUCTURED_COMMENT_END not in data:
+ elif self.STRUCTURED_COMMENT_END not in data:
comment_list.append(data)
if self.debug > 2:
print("Comment continuation [" + data + "]")
@@ -1456,10 +1581,18 @@ class GenBankScanner(InsdcScanner):
# Now, this may be a multi line entry...
while True:
line = next(line_iter)
- if line[0:GENBANK_INDENT] == GENBANK_SPACER:
- data += ' ' + line[GENBANK_INDENT:]
+ if line[0:self.GENBANK_INDENT] == self.GENBANK_SPACER:
+ data += ' ' + line[self.GENBANK_INDENT:]
else:
# We now have all the data for this entry:
+
+ # The DEFINITION field must ends with a period
+ # # see ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt [3.4.5]
+ # and discussion https://github.com/biopython/biopython/pull/616
+ # We consider this period belong to the syntax, not to the data
+ # So remove it if it exist
+ if line_type == 'DEFINITION' and data.endswith('.'):
+ data = data[:-1]
getattr(consumer, consumer_dict[line_type])(data)
# End of continuation - return to top of loop!
break
@@ -1473,8 +1606,6 @@ class GenBankScanner(InsdcScanner):
def _feed_misc_lines(self, consumer, lines):
# Deals with a few misc lines between the features and the sequence
- GENBANK_INDENT = self.HEADER_WIDTH
- GENBANK_SPACER = " " * GENBANK_INDENT
lines.append("")
line_iter = iter(lines)
try:
@@ -1504,9 +1635,9 @@ class GenBankScanner(InsdcScanner):
line = next(line_iter)
if not line:
break
- elif line[:GENBANK_INDENT] == GENBANK_SPACER:
+ elif line[:self.GENBANK_INDENT] == self.GENBANK_SPACER:
# Don't need to preseve the whitespace here.
- contig_location += line[GENBANK_INDENT:].rstrip()
+ contig_location += line[self.GENBANK_INDENT:].rstrip()
elif line.startswith('ORIGIN'):
# Strange, seen this in GenPept files via Entrez gbwithparts
line = line[6:].strip()
@@ -1520,6 +1651,7 @@ class GenBankScanner(InsdcScanner):
except StopIteration:
raise ValueError("Problem in misc lines before sequence")
+
if __name__ == "__main__":
from Bio._py3k import StringIO
diff --git a/Bio/GenBank/__init__.py b/Bio/GenBank/__init__.py
index 305c33f..46f4937 100644
--- a/Bio/GenBank/__init__.py
+++ b/Bio/GenBank/__init__.py
@@ -1,5 +1,5 @@
# Copyright 2000 by Jeffrey Chang, Brad Chapman. All rights reserved.
-# Copyright 2006-2016 by Peter Cock. All rights reserved.
+# Copyright 2006-2017 by Peter Cock. All rights reserved.
#
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
@@ -27,18 +27,16 @@ The following internal classes are not intended for direct use and may
be deprecated in a future release.
Classes:
-
- - Iterator Iterate through a file of GenBank entries
- - ErrorFeatureParser Catch errors caused during parsing.
- - FeatureParser Parse GenBank data in SeqRecord and SeqFeature objects.
- - RecordParser Parse GenBank data into a Record object.
+ - Iterator Iterate through a file of GenBank entries
+ - ErrorFeatureParser Catch errors caused during parsing.
+ - FeatureParser Parse GenBank data in SeqRecord and SeqFeature objects.
+ - RecordParser Parse GenBank data into a Record object.
Exceptions:
-
- - ParserFailureError Exception indicating a failure in the parser (ie.
- scanner or consumer)
- - LocationParserError Exception indicating a problem with the spark based
- location parser.
+ - ParserFailureError Exception indicating a failure in the parser (ie.
+ scanner or consumer)
+ - LocationParserError Exception indicating a problem with the spark based
+ location parser.
"""
from __future__ import print_function
@@ -103,8 +101,8 @@ _re_complex_location = re.compile(r"^%s$" % _complex_location)
_possibly_complemented_complex_location = r"(%s|complement\(%s\))" \
% (_complex_location, _complex_location)
_re_complex_compound = re.compile(r"^(join|order|bond)\(%s(,%s)*\)$"
- % (_possibly_complemented_complex_location,
- _possibly_complemented_complex_location))
+ % (_possibly_complemented_complex_location,
+ _possibly_complemented_complex_location))
assert _re_simple_location.match("104..160")
@@ -241,7 +239,7 @@ def _pos(pos_str, offset=0):
def _loc(loc_str, expected_seq_length, strand):
- """FeatureLocation from non-compound non-complement location (PRIVATE).
+ """Make FeatureLocation from non-compound non-complement location (PRIVATE).
Simple examples,
@@ -381,14 +379,15 @@ class Iterator(object):
Please use Bio.SeqIO.parse(..., format="gb") or Bio.GenBank.parse(...)
for SeqRecord and GenBank specific Record objects respectively instead.
"""
+
def __init__(self, handle, parser=None):
"""Initialize the iterator.
Arguments:
+ - handle - A handle with GenBank entries to iterate through.
+ - parser - An optional parser to pass the entries through before
+ returning them. If None, then the raw entry will be returned.
- - handle - A handle with GenBank entries to iterate through.
- - parser - An optional parser to pass the entries through before
- returning them. If None, then the raw entry will be returned.
"""
self.handle = handle
self._parser = parser
@@ -419,18 +418,19 @@ class Iterator(object):
return self.__next__()
def __iter__(self):
+ """Iterate over the records."""
return iter(self.__next__, None)
class ParserFailureError(Exception):
- """Failure caused by some kind of problem in the parser.
- """
+ """Failure caused by some kind of problem in the parser."""
+
pass
class LocationParserError(Exception):
- """Could not Properly parse out a location from a GenBank file.
- """
+ """Could not Properly parse out a location from a GenBank file."""
+
pass
@@ -442,34 +442,34 @@ class FeatureParser(object):
Please use Bio.SeqIO.parse(...) or Bio.SeqIO.read(...) instead.
"""
+
def __init__(self, debug_level=0, use_fuzziness=1,
feature_cleaner=FeatureValueCleaner()):
"""Initialize a GenBank parser and Feature consumer.
Arguments:
+ - debug_level - An optional argument that species the amount of
+ debugging information the parser should spit out. By default we have
+ no debugging info (the fastest way to do things), but if you want
+ you can set this as high as two and see exactly where a parse fails.
+ - use_fuzziness - Specify whether or not to use fuzzy representations.
+ The default is 1 (use fuzziness).
+ - feature_cleaner - A class which will be used to clean out the
+ values of features. This class must implement the function
+ clean_value. GenBank.utils has a "standard" cleaner class, which
+ is used by default.
- - debug_level - An optional argument that species the amount of
- debugging information the parser should spit out. By default we have
- no debugging info (the fastest way to do things), but if you want
- you can set this as high as two and see exactly where a parse fails.
- - use_fuzziness - Specify whether or not to use fuzzy representations.
- The default is 1 (use fuzziness).
- - feature_cleaner - A class which will be used to clean out the
- values of features. This class must implement the function
- clean_value. GenBank.utils has a "standard" cleaner class, which
- is used by default.
"""
self._scanner = GenBankScanner(debug_level)
self.use_fuzziness = use_fuzziness
self._cleaner = feature_cleaner
def parse(self, handle):
- """Parse the specified handle.
- """
- self._consumer = _FeatureConsumer(self.use_fuzziness,
- self._cleaner)
- self._scanner.feed(handle, self._consumer)
- return self._consumer.data
+ """Parse the specified handle."""
+ _consumer = _FeatureConsumer(self.use_fuzziness,
+ self._cleaner)
+ self._scanner.feed(handle, _consumer)
+ return _consumer.data
class RecordParser(object):
@@ -481,25 +481,25 @@ class RecordParser(object):
Please use the Bio.GenBank.parse(...) or Bio.GenBank.read(...) functions
instead.
"""
+
def __init__(self, debug_level=0):
"""Initialize the parser.
Arguments:
+ - debug_level - An optional argument that species the amount of
+ debugging information the parser should spit out. By default we have
+ no debugging info (the fastest way to do things), but if you want
+ you can set this as high as two and see exactly where a parse fails.
- - debug_level - An optional argument that species the amount of
- debugging information the parser should spit out. By default we have
- no debugging info (the fastest way to do things), but if you want
- you can set this as high as two and see exactly where a parse fails.
"""
self._scanner = GenBankScanner(debug_level)
def parse(self, handle):
- """Parse the specified handle into a GenBank record.
- """
- self._consumer = _RecordConsumer()
+ """Parse the specified handle into a GenBank record."""
+ _consumer = _RecordConsumer()
- self._scanner.feed(handle, self._consumer)
- return self._consumer.data
+ self._scanner.feed(handle, _consumer)
+ return _consumer.data
class _BaseGenBankConsumer(object):
@@ -508,6 +508,7 @@ class _BaseGenBankConsumer(object):
This just helps to eliminate some duplication in things that most
GenBank consumers want to do.
"""
+
# Special keys in GenBank records that we should remove spaces from
# For instance, \translation keys have values which are proteins and
# should have spaces and newlines removed from them. This class
@@ -523,9 +524,9 @@ class _BaseGenBankConsumer(object):
def __getattr__(self, attr):
return self._unhandled
- def _split_keywords(self, keyword_string):
- """Split a string of keywords into a nice clean list.
- """
+ @staticmethod
+ def _split_keywords(keyword_string):
+ """Split a string of keywords into a nice clean list."""
# process the keywords into a python list
if keyword_string == "" or keyword_string == ".":
keywords = ""
@@ -537,18 +538,18 @@ class _BaseGenBankConsumer(object):
clean_keyword_list = [x.strip() for x in keyword_list]
return clean_keyword_list
- def _split_accessions(self, accession_string):
- """Split a string of accession numbers into a list.
- """
+ @staticmethod
+ def _split_accessions(accession_string):
+ """Split a string of accession numbers into a list."""
# first replace all line feeds with spaces
# Also, EMBL style accessions are split with ';'
accession = accession_string.replace("\n", " ").replace(";", " ")
return [x.strip() for x in accession.split() if x.strip()]
- def _split_taxonomy(self, taxonomy_string):
- """Split a string with taxonomy info into a list.
- """
+ @staticmethod
+ def _split_taxonomy(taxonomy_string):
+ """Split a string with taxonomy info into a list."""
if not taxonomy_string or taxonomy_string == ".":
# Missing data, no taxonomy
return []
@@ -568,7 +569,8 @@ class _BaseGenBankConsumer(object):
return clean_tax_list
- def _clean_location(self, location_string):
+ @staticmethod
+ def _clean_location(location_string):
"""Clean whitespace out of a location string.
The location parser isn't a fan of whitespace, so we clean it out
@@ -579,9 +581,9 @@ class _BaseGenBankConsumer(object):
# the string - and this avoids importing string too. See Bug 2684.
return ''.join(location_string.split())
- def _remove_newlines(self, text):
- """Remove any newlines in the passed text, returning the new string.
- """
+ @staticmethod
+ def _remove_newlines(text):
+ """Remove any newlines in the passed text, returning the new string."""
# get rid of newlines in the qualifier value
newlines = ["\n", "\r"]
for ws in newlines:
@@ -589,18 +591,19 @@ class _BaseGenBankConsumer(object):
return text
- def _normalize_spaces(self, text):
- """Replace multiple spaces in the passed text with single spaces.
- """
+ @staticmethod
+ def _normalize_spaces(text):
+ """Replace multiple spaces in the passed text with single spaces."""
# get rid of excessive spaces
return ' '.join(x for x in text.split(" ") if x)
- def _remove_spaces(self, text):
- """Remove all spaces from the passed text.
- """
+ @staticmethod
+ def _remove_spaces(text):
+ """Remove all spaces from the passed text."""
return text.replace(" ", "")
- def _convert_to_python_numbers(self, start, end):
+ @staticmethod
+ def _convert_to_python_numbers(start, end):
"""Convert a start and end range to python notation.
In GenBank, starts and ends are defined in "biological" coordinates,
@@ -623,12 +626,13 @@ class _FeatureConsumer(_BaseGenBankConsumer):
"""Create a SeqRecord object with Features to return (PRIVATE).
Attributes:
-
- use_fuzziness - specify whether or not to parse with fuzziness in
feature locations.
- feature_cleaner - a class that will be used to provide specialized
cleaning-up of feature values.
+
"""
+
def __init__(self, use_fuzziness, feature_cleaner=None):
from Bio.SeqRecord import SeqRecord
_BaseGenBankConsumer.__init__(self)
@@ -646,8 +650,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self._expected_size = None
def locus(self, locus_name):
- """Set the locus name is set as the name of the Sequence.
- """
+ """Set the locus name is set as the name of the Sequence."""
self.data.name = locus_name
def size(self, content):
@@ -655,10 +658,28 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self._expected_size = int(content)
def residue_type(self, type):
- """Record the sequence type so we can choose an appropriate alphabet.
+ """Record the sequence type (SEMI-OBSOLETE).
+
+ This reflects the fact that the topology (linear/circular) and
+ molecule type (e.g. DNA vs RNA) were a single field in early
+ files. Current GenBank/EMBL files have two fields.
"""
self._seq_type = type.strip()
+ def topology(self, topology): # noqa: D402
+ """Validate and record sequence topology (linear or circular as strings)."""
+ if topology:
+ if topology not in ['linear', 'circular']:
+ raise ParserFailureError("Unexpected topology %r should be linear or circular" % topology)
+ self.data.annotations['topology'] = topology
+
+ def molecule_type(self, mol_type):
+ """Validate and record the molecule type (for round-trip etc)."""
+ if mol_type:
+ if "circular" in mol_type or 'linear' in mol_type:
+ raise ParserFailureError("Molecule type %r should not include topology" % mol_type)
+ self.data.annotations['molecule_type'] = mol_type
+
def data_file_division(self, division):
self.data.annotations['data_file_division'] = division
@@ -666,8 +687,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self.data.annotations['date'] = submit_date
def definition(self, definition):
- """Set the definition as the description of the sequence.
- """
+ """Set the definition as the description of the sequence."""
if self.data.description:
# Append to any existing description
# e.g. EMBL files with two DE lines.
@@ -829,8 +849,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self.data.annotations['organism'] = content
def taxonomy(self, content):
- """Records (another line of) the taxonomy lineage.
- """
+ """Record (another line of) the taxonomy lineage."""
lineage = self._split_taxonomy(content)
try:
self.data.annotations['taxonomy'].extend(lineage)
@@ -838,8 +857,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self.data.annotations['taxonomy'] = lineage
def reference_num(self, content):
- """Signal the beginning of a new reference object.
- """
+ """Signal the beginning of a new reference object."""
# if we have a current reference that hasn't been added to
# the list of references, add it.
if self._cur_reference is not None:
@@ -859,7 +877,8 @@ class _FeatureConsumer(_BaseGenBankConsumer):
(bases 1 to 105654; 110423 to 111122)
1 (residues 1 to 182)
"""
- # first remove the parentheses or other junk
+ # first remove the parentheses
+ assert content.endswith(")"), content
ref_base_info = content[1:-1]
all_locations = []
@@ -889,7 +908,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self._cur_reference.location = all_locations
def _split_reference_locations(self, location_string):
- """Get reference locations out of a string of reference information
+ """Get reference locations out of a string of reference information.
The passed string should be of the form::
@@ -905,8 +924,8 @@ class _FeatureConsumer(_BaseGenBankConsumer):
for base_info in all_base_info:
start, end = base_info.split('to')
new_start, new_end = \
- self._convert_to_python_numbers(int(start.strip()),
- int(end.strip()))
+ self._convert_to_python_numbers(int(start.strip()),
+ int(end.strip()))
this_location = SeqFeature.FeatureLocation(new_start, new_end)
new_locations.append(this_location)
return new_locations
@@ -963,13 +982,11 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self.data.annotations['structured_comment'] = content
def features_line(self, content):
- """Get ready for the feature table when we reach the FEATURE line.
- """
+ """Get ready for the feature table when we reach the FEATURE line."""
self.start_feature_table()
def start_feature_table(self):
- """Indicate we've got to the start of the feature table.
- """
+ """Indicate we've got to the start of the feature table."""
# make sure we've added on our last reference object
if self._cur_reference is not None:
self.data.annotations['references'].append(self._cur_reference)
@@ -1023,6 +1040,13 @@ class _FeatureConsumer(_BaseGenBankConsumer):
strand)
return
+ if ",)" in location_line:
+ import warnings
+ from Bio import BiopythonParserWarning
+ warnings.warn("Dropping trailing comma in malformed feature location",
+ BiopythonParserWarning)
+ location_line = location_line.replace(",)", ")")
+
if _solo_bond.search(location_line):
# e.g. bond(196)
# e.g. join(bond(284),bond(305),bond(309),bond(305))
@@ -1045,6 +1069,14 @@ class _FeatureConsumer(_BaseGenBankConsumer):
locs.append(SeqFeature.FeatureLocation(int(s) - 1,
int(e),
strand))
+ if len(locs) < 2:
+ # The CompoundLocation will raise a ValueError here!
+ import warnings
+ from Bio import BiopythonParserWarning
+ warnings.warn("Should have at least 2 parts for compound location",
+ BiopythonParserWarning)
+ cur_feature.location = None
+ return
if strand == -1:
cur_feature.location = SeqFeature.CompoundLocation(locs[::-1],
operator=location_line[:i])
@@ -1108,7 +1140,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
import warnings
from Bio import BiopythonParserWarning
warnings.warn(BiopythonParserWarning("Couldn't parse feature location: %r"
- % (location_line)))
+ % location_line))
def feature_qualifier(self, key, value):
"""When we get a qualifier key and its value.
@@ -1182,8 +1214,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
self._seq_data.append(content.upper())
def record_end(self, content):
- """Clean up when we've finished the record.
- """
+ """Clean up when we've finished the record."""
from Bio import Alphabet
from Bio.Alphabet import IUPAC
from Bio.Seq import Seq, UnknownSeq
@@ -1209,8 +1240,8 @@ class _FeatureConsumer(_BaseGenBankConsumer):
sequence = "".join(self._seq_data)
if self._expected_size is not None \
- and len(sequence) != 0 \
- and self._expected_size != len(sequence):
+ and len(sequence) != 0 \
+ and self._expected_size != len(sequence):
import warnings
from Bio import BiopythonParserWarning
warnings.warn("Expected sequence length %i, found %i (%s)."
@@ -1230,7 +1261,7 @@ class _FeatureConsumer(_BaseGenBankConsumer):
else:
seq_alphabet = IUPAC.ambiguous_rna
elif 'PROTEIN' in self._seq_type.upper() \
- or self._seq_type == "PRT": # PRT is used in EMBL-bank for patents
+ or self._seq_type == "PRT": # PRT is used in EMBL-bank for patents
seq_alphabet = IUPAC.protein # or extended protein?
# work around ugly GenBank records which have circular or
# linear but no indication of sequence type
@@ -1241,12 +1272,6 @@ class _FeatureConsumer(_BaseGenBankConsumer):
raise ValueError("Could not determine alphabet for seq_type %s"
% self._seq_type)
- # Also save the chomosome layout
- if 'circular' in self._seq_type.lower():
- self.data.annotations['topology'] = 'circular'
- elif 'linear' in self._seq_type.lower():
- self.data.annotations['topology'] = 'linear'
-
if not sequence and self.__expected_size:
self.data.seq = UnknownSeq(self._expected_size, seq_alphabet)
else:
@@ -1254,8 +1279,8 @@ class _FeatureConsumer(_BaseGenBankConsumer):
class _RecordConsumer(_BaseGenBankConsumer):
- """Create a GenBank Record object from scanner generated information (PRIVATE).
- """
+ """Create a GenBank Record object from scanner generated information (PRIVATE)."""
+
def __init__(self):
_BaseGenBankConsumer.__init__(self)
from . import Record
@@ -1338,8 +1363,7 @@ class _RecordConsumer(_BaseGenBankConsumer):
self.data.taxonomy = self._split_taxonomy(content)
def reference_num(self, content):
- """Grab the reference number and signal the start of a new reference.
- """
+ """Grab the reference number and signal the start of a new reference."""
# check if we have a reference to add
if self._cur_reference is not None:
self.data.references.append(self._cur_reference)
@@ -1385,27 +1409,24 @@ class _RecordConsumer(_BaseGenBankConsumer):
self.data.structured_comment = content
def primary_ref_line(self, content):
- """Data for the PRIMARY line"""
+ """Save reference data for the PRIMARY line."""
self.data.primary.append(content)
def primary(self, content):
pass
def features_line(self, content):
- """Get ready for the feature table when we reach the FEATURE line.
- """
+ """Get ready for the feature table when we reach the FEATURE line."""
self.start_feature_table()
def start_feature_table(self):
- """Signal the start of the feature table.
- """
+ """Signal the start of the feature table."""
# we need to add on the last reference
if self._cur_reference is not None:
self.data.references.append(self._cur_reference)
def feature_key(self, content):
- """Grab the key of the feature and signal the start of a new feature.
- """
+ """Grab the key of the feature and signal the start of a new feature."""
# first add on feature information if we've got any
self._add_feature()
@@ -1414,7 +1435,7 @@ class _RecordConsumer(_BaseGenBankConsumer):
self._cur_feature.key = content
def _add_feature(self):
- """Utility function to add a feature to the Record.
+ """Add a feature to the record, with relevant checks (PRIVATE).
This does all of the appropriate checking to make sure we haven't
left any info behind, and that we are only adding info if it
@@ -1438,7 +1459,7 @@ class _RecordConsumer(_BaseGenBankConsumer):
self.feature_qualifier_description(value)
def feature_qualifier_name(self, content_list):
- """Deal with qualifier names
+ """Deal with qualifier names.
We receive a list of keys, since you can have valueless keys such as
/pseudo which would be passed in with the next key (since no other
@@ -1475,8 +1496,7 @@ class _RecordConsumer(_BaseGenBankConsumer):
self.data.origin = content
def contig_location(self, content):
- """Signal that we have contig information to add to the record.
- """
+ """Signal that we have contig information to add to the record."""
self.data.contig = self._clean_location(content)
def sequence(self, content):
@@ -1491,8 +1511,7 @@ class _RecordConsumer(_BaseGenBankConsumer):
self._seq_data.append(content.upper())
def record_end(self, content):
- """Signal the end of the record and do any necessary clean-up.
- """
+ """Signal the end of the record and do any necessary clean-up."""
# add together all of the sequence parts to create the
# final sequence string
self.data.sequence = "".join(self._seq_data)
@@ -1543,26 +1562,6 @@ def read(handle):
return first
-def _test():
- """Run the Bio.GenBank module's doctests."""
- import doctest
- import os
- if os.path.isdir(os.path.join("..", "..", "Tests")):
- print("Running doctests...")
- cur_dir = os.path.abspath(os.curdir)
- os.chdir(os.path.join("..", "..", "Tests"))
- doctest.testmod()
- os.chdir(cur_dir)
- del cur_dir
- print("Done")
- elif os.path.isdir(os.path.join("Tests")):
- print("Running doctests...")
- cur_dir = os.path.abspath(os.curdir)
- os.chdir(os.path.join("Tests"))
- doctest.testmod()
- os.chdir(cur_dir)
- del cur_dir
- print("Done")
-
if __name__ == "__main__":
- _test()
+ from Bio._utils import run_doctest
+ run_doctest()
diff --git a/Bio/GenBank/utils.py b/Bio/GenBank/utils.py
index a4c4304..0fe25ee 100644
--- a/Bio/GenBank/utils.py
+++ b/Bio/GenBank/utils.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Useful utilities for helping in parsing GenBank files.
-"""
+"""Useful utilities for helping in parsing GenBank files."""
class FeatureValueCleaner(object):
@@ -28,11 +27,11 @@ class FeatureValueCleaner(object):
(as in translations), or combining things with spaces (as might be
the case with /notes).
"""
+
keys_to_process = ["translation"]
def __init__(self, to_process=keys_to_process):
- """Initialize with the keys we should deal with.
- """
+ """Initialize with the keys we should deal with."""
self._to_process = to_process
def clean_value(self, key_name, value):
@@ -51,7 +50,6 @@ class FeatureValueCleaner(object):
return value
def _clean_translation(self, value):
- """Concatenate a translation value to one long protein string.
- """
+ """Concatenate a translation value to one long protein string."""
translation_parts = value.split()
return "".join(translation_parts)
diff --git a/Bio/Geo/Record.py b/Bio/Geo/Record.py
index 026f3fe..a424e51 100644
--- a/Bio/Geo/Record.py
+++ b/Bio/Geo/Record.py
@@ -29,6 +29,7 @@ class Record(object):
table_rows
"""
+
def __init__(self):
self.entity_type = ''
self.entity_id = ''
diff --git a/Bio/Graphics/BasicChromosome.py b/Bio/Graphics/BasicChromosome.py
index d7c3f23..1ae3279 100644
--- a/Bio/Graphics/BasicChromosome.py
+++ b/Bio/Graphics/BasicChromosome.py
@@ -53,20 +53,20 @@ class _ChromosomeComponent(Widget):
This class should not be instantiated directly, but should be used
from derived classes.
"""
+
def __init__(self):
"""Initialize a chromosome component.
Attributes:
-
- o _sub_components -- Any components which are contained under
+ - _sub_components -- Any components which are contained under
this parent component. This attribute should be accessed through
the add() and remove() functions.
+
"""
self._sub_components = []
def add(self, component):
- """Add a sub_component to the list of components under this item.
- """
+ """Add a sub_component to the list of components under this item."""
assert isinstance(component, _ChromosomeComponent), \
"Expected a _ChromosomeComponent object, got %s" % component
@@ -85,8 +85,7 @@ class _ChromosomeComponent(Widget):
component)
def draw(self):
- """Draw the specified component.
- """
+ """Draw the specified component."""
raise AssertionError("Subclasses must implement.")
@@ -100,7 +99,9 @@ class Organism(_ChromosomeComponent):
Chromosomes should be added and removed from the Organism via the
add and remove functions.
"""
+
def __init__(self, output_format='pdf'):
+ """Initialize."""
_ChromosomeComponent.__init__(self)
# customizable attributes
@@ -117,15 +118,14 @@ class Organism(_ChromosomeComponent):
"""Draw out the information for the Organism.
Arguments:
+ - output_file -- The name of a file specifying where the
+ document should be saved, or a handle to be written to.
+ The output format is set when creating the Organism object.
+ Alternatively, output_file=None will return the drawing using
+ the low-level ReportLab objects (for further processing, such
+ as adding additional graphics, before writing).
+ - title -- The output title of the produced document.
- o output_file -- The name of a file specifying where the
- document should be saved, or a handle to be written to.
- The output format is set when creating the Organism object.
- Alternatively, output_file=None will return the drawing using
- the low-level ReportLab objects (for further processing, such
- as adding additional graphics, before writing).
-
- o title -- The output title of the produced document.
"""
width, height = self.page_size
cur_drawing = Drawing(width, height)
@@ -161,8 +161,7 @@ class Organism(_ChromosomeComponent):
return _write(cur_drawing, output_file, self.output_format)
def _draw_title(self, cur_drawing, title, width, height):
- """Write out the title of the organism figure.
- """
+ """Write out the title of the organism figure."""
title_string = String(width / 2, height - inch, title)
title_string.fontName = 'Helvetica-Bold'
title_string.fontSize = self.title_size
@@ -186,31 +185,28 @@ class Chromosome(_ChromosomeComponent):
class can be instantiated directly, but the draw method makes the
most sense to be called in the context of an organism.
"""
+
def __init__(self, chromosome_name):
"""Initialize a Chromosome for drawing.
Arguments:
-
- o chromosome_name - The label for the chromosome.
+ - chromosome_name - The label for the chromosome.
Attributes:
-
- o start_x_position, end_x_position - The x positions on the page
- where the chromosome should be drawn. This allows multiple
- chromosomes to be drawn on a single page.
-
- o start_y_position, end_y_position - The y positions on the page
- where the chromosome should be contained.
+ - start_x_position, end_x_position - The x positions on the page
+ where the chromosome should be drawn. This allows multiple
+ chromosomes to be drawn on a single page.
+ - start_y_position, end_y_position - The y positions on the page
+ where the chromosome should be contained.
Configuration Attributes:
+ - title_size - The size of the chromosome title.
+ - scale_num - A number of scale the drawing by. This is useful if
+ you want to draw multiple chromosomes of different sizes at the
+ same scale. If this is not set, then the chromosome drawing will
+ be scaled by the number of segements in the chromosome (so each
+ chromosome will be the exact same final size).
- o title_size - The size of the chromosome title.
-
- o scale_num - A number of scale the drawing by. This is useful if
- you want to draw multiple chromosomes of different sizes at the
- same scale. If this is not set, then the chromosome drawing will
- be scaled by the number of segements in the chromosome (so each
- chromosome will be the exact same final size).
"""
_ChromosomeComponent.__init__(self)
@@ -230,8 +226,7 @@ class Chromosome(_ChromosomeComponent):
self._color_labels = False
def subcomponent_size(self):
- """Return the scaled size of all subcomponents of this component.
- """
+ """Return the scaled size of all subcomponents of this component."""
total_sub = 0
for sub_component in self._sub_components:
total_sub += sub_component.scale
@@ -286,8 +281,7 @@ class Chromosome(_ChromosomeComponent):
self._draw_label(cur_drawing, self._name)
def _draw_label(self, cur_drawing, label_name):
- """Draw a label for the chromosome.
- """
+ """Draw a label for the chromosome."""
x_position = 0.5 * (self.start_x_position + self.end_x_position)
y_position = self.end_y_position
@@ -371,32 +365,28 @@ class ChromosomeSegment(_ChromosomeComponent):
be subclassed to define additional functionality. Most of the interesting
drawing stuff is likely to happen at the ChromosomeSegment level.
"""
+
def __init__(self):
"""Initialize a ChromosomeSegment.
Attributes:
- o start_x_position, end_x_position - Defines the x range we have
- to draw things in.
-
- o start_y_position, end_y_position - Defines the y range we have
- to draw things in.
+ - start_x_position, end_x_position - Defines the x range we have
+ to draw things in.
+ - start_y_position, end_y_position - Defines the y range we have
+ to draw things in.
Configuration Attributes:
+ - scale - A scaling value for the component. By default this is
+ set at 1 (ie -- has the same scale as everything else). Higher
+ values give more size to the component, smaller values give less.
+ - fill_color - A color to fill in the segment with. Colors are
+ available in reportlab.lib.colors
+ - label - A label to place on the chromosome segment. This should
+ be a text string specifying what is to be included in the label.
+ - label_size - The size of the label.
+ - chr_percent - The percentage of area that the chromosome
+ segment takes up.
- o scale - A scaling value for the component. By default this is
- set at 1 (ie -- has the same scale as everything else). Higher
- values give more size to the component, smaller values give less.
-
- o fill_color - A color to fill in the segment with. Colors are
- available in reportlab.lib.colors
-
- o label - A label to place on the chromosome segment. This should
- be a text string specifying what is to be included in the label.
-
- o label_size - The size of the label.
-
- o chr_percent - The percentage of area that the chromosome
- segment takes up.
"""
_ChromosomeComponent.__init__(self)
@@ -435,8 +425,7 @@ class ChromosomeSegment(_ChromosomeComponent):
pass
def _draw_segment(self, cur_drawing):
- """Draw the current chromosome segment.
- """
+ """Draw the current chromosome segment."""
# set the coordinates of the segment -- it'll take up the MIDDLE part
# of the space we have.
segment_y = self.end_y_position
@@ -495,7 +484,7 @@ class ChromosomeSegment(_ChromosomeComponent):
def _spring_layout(desired, minimum, maximum, gap=0):
- """Function to try and layout label co-ordinates (or other floats, PRIVATE).
+ """Try to layout label co-ordinates (or other floats, PRIVATE).
Originally written for the y-axis vertical positioning of labels on a
chromosome diagram (where the minimum gap between y-axis co-ordinates is
@@ -603,10 +592,15 @@ def _place_labels(desired_etc, minimum, maximum, gap=0):
class AnnotatedChromosomeSegment(ChromosomeSegment):
+ """Annotated chromosome segment.
+
+ This is like the ChromosomeSegment, but accepts a list of features.
+ """
+
def __init__(self, bp_length, features,
default_feature_color=colors.blue,
name_qualifiers=('gene', 'label', 'name', 'locus_tag', 'product')):
- """Like the ChromosomeSegment, but accepts a list of features.
+ """Initialize.
The features can either be SeqFeature objects, or tuples of values:
start (int), end (int), strand (+1, -1, O or None), label (string),
@@ -726,6 +720,7 @@ class TelomereSegment(ChromosomeSegment):
_draw_segment class of ChromosomeSegment to provide that specialized
drawing.
"""
+
def __init__(self, inverted=0):
"""Initialize a segment at the end of a chromosome.
@@ -733,17 +728,16 @@ class TelomereSegment(ChromosomeSegment):
customized in a TelomereSegments.
Arguments:
+ - inverted -- Whether or not the telomere should be inverted
+ (ie. drawn on the bottom of a chromosome)
- o inverted -- Whether or not the telomere should be inverted
- (ie. drawn on the bottom of a chromosome)
"""
ChromosomeSegment.__init__(self)
self._inverted = inverted
def _draw_segment(self, cur_drawing):
- """Draw a half circle representing the end of a linear chromosome.
- """
+ """Draw a half circle representing the end of a linear chromosome."""
# set the coordinates of the segment -- it'll take up the MIDDLE part
# of the space we have.
width = (self.end_x_position - self.start_x_position) \
@@ -782,4 +776,10 @@ class SpacerSegment(ChromosomeSegment):
"""
def draw(self, cur_diagram):
+ """Draw nothing to the current diagram (dummy method).
+
+ The segment spacer has no actual image in the diagram,
+ so this method therefore does nothing, but is defined
+ to match the expected API of the other segment objects.
+ """
pass
diff --git a/Bio/Graphics/ColorSpiral.py b/Bio/Graphics/ColorSpiral.py
index 696b74b..bb42a3d 100644
--- a/Bio/Graphics/ColorSpiral.py
+++ b/Bio/Graphics/ColorSpiral.py
@@ -47,12 +47,12 @@ class ColorSpiral(object):
V-space, to aid in distinguishing consecutive colour points on the
path.
"""
+
def __init__(self, a=1, b=0.33, v_init=0.85, v_final=0.5,
jitter=0.05):
- """Initialise a logarithmic spiral path through HSV colour space
+ """Initialize a logarithmic spiral path through HSV colour space.
Arguments:
-
- a - Parameter a for the spiral, controls the initial spiral
direction. a > 0
- b - parameter b for the spiral, controls the rate at which the
@@ -65,8 +65,9 @@ class ColorSpiral(object):
selected colour. The amount of jitter will be selected
from a uniform random distribution [-jitter, jitter],
and V will be maintained in [0,1].
+
"""
- # Initialise attributes
+ # Initialize attributes
self.a = a
self.b = b
self.v_init = v_init
@@ -80,9 +81,9 @@ class ColorSpiral(object):
evenly-spaced points along the defined spiral in HSV space.
Arguments:
-
- k - the number of points to return
- offset - how far along the spiral path to start.
+
"""
# We use the offset to skip a number of similar colours near to HSV axis
assert offset > 0 and offset < 1, "offset must be in (0,1)"
@@ -161,27 +162,27 @@ class ColorSpiral(object):
# Convenience functions for those who don't want to bother with a
# ColorSpiral object
def get_colors(k, **kwargs):
- """Returns k colours selected by the ColorSpiral object, as a generator.
+ """Return k colours selected by the ColorSpiral object, as a generator.
Arguments:
-
- k - the number of colours to return
- kwargs - pass-through arguments to the ColorSpiral object
+
"""
cs = ColorSpiral(**kwargs)
return cs.get_colors(k)
def get_color_dict(l, **kwargs):
- """Returns a dictionary of colours using the provided values as keys.
+ """Return a dictionary of colours using the provided values as keys.
Returns a dictionary, keyed by the members of iterable l, with a
colour assigned to each member.
Arguments:
-
- l - an iterable representing classes to be coloured
- kwargs - pass-through arguments to the ColorSpiral object
+
"""
cs = ColorSpiral(**kwargs)
colors = cs.get_colors(len(l))
diff --git a/Bio/Graphics/Comparative.py b/Bio/Graphics/Comparative.py
index 3f804f3..42a3a99 100644
--- a/Bio/Graphics/Comparative.py
+++ b/Bio/Graphics/Comparative.py
@@ -39,8 +39,11 @@ class ComparativeScatterPlot(object):
If everything is just one set of points, display_info can look like::
display_info = [[(1, 2), (3, 4), (5, 6)]]
+
"""
+
def __init__(self, output_format='pdf'):
+ """Initialize."""
# customizable attributes
self.number_of_columns = 1
self.page_size = letter
@@ -62,10 +65,10 @@ class ComparativeScatterPlot(object):
"""Write the comparative plot to a file.
Arguments:
-
- output_file - The name of the file to output the information to,
or a handle to write to.
- title - A title to display on the graphic.
+
"""
width, height = self.page_size
cur_drawing = Drawing(width, height)
@@ -81,8 +84,7 @@ class ComparativeScatterPlot(object):
return _write(cur_drawing, output_file, self.output_format)
def _draw_title(self, cur_drawing, title, width, height):
- """Add a title to the page we are outputting.
- """
+ """Add a title to the page we are outputting."""
title_string = String(width / 2, height - inch, title)
title_string.fontName = 'Helvetica-Bold'
title_string.fontSize = self.title_size
diff --git a/Bio/Graphics/DisplayRepresentation.py b/Bio/Graphics/DisplayRepresentation.py
index 859c8d7..ed03565 100644
--- a/Bio/Graphics/DisplayRepresentation.py
+++ b/Bio/Graphics/DisplayRepresentation.py
@@ -39,18 +39,18 @@ class ChromosomeCounts(object):
the chromosome will be especially abundant in the counts, and you
want to pick those out.
"""
+
def __init__(self, segment_names, color_scheme=RAINBOW_COLORS):
"""Initialize a representation of chromosome counts.
Arguments:
+ - segment_names - An ordered list of all segment names along
+ the chromosome. The count and other information will be added
+ to these.
+ - color_scheme - A coloring scheme to use in the counts. This
+ should be a dictionary mapping count ranges to colors (specified
+ in reportlab.lib.colors).
- o segment_names - An ordered list of all segment names along
- the chromosome. The count and other information will be added to
- these.
-
- o color_scheme - A coloring scheme to use in the counts. This should
- be a dictionary mapping count ranges to colors (specified in
- reportlab.lib.colors).
"""
self._names = segment_names
self._count_info = {}
@@ -67,12 +67,11 @@ class ChromosomeCounts(object):
"""Add counts to the given segment name.
Arguments:
+ - segment_name - The name of the segment we should add counts to.
+ If the name is not present, a KeyError will be raised.
+ - count - The counts to add the current segment. This defaults to
+ a single count.
- o segment_name - The name of the segment we should add counts to.
- If the name is not present, a KeyError will be raised.
-
- o count - The counts to add the current segment. This defaults to
- a single count.
"""
try:
self._count_info[segment_name] += count
@@ -134,9 +133,8 @@ class ChromosomeCounts(object):
"""Add the collected segment information to a chromosome for drawing.
Arguments:
-
- o chromosome - A Chromosome graphics object that we can add
- chromosome segments to.
+ - chromosome - A Chromosome graphics object that we can add
+ chromosome segments to.
This creates ChromosomeSegment (and TelomereSegment) objects to
fill in the chromosome. The information is derived from the
@@ -177,8 +175,7 @@ class ChromosomeCounts(object):
return chromosome
def _color_from_count(self, count):
- """Translate the given count into a color using the color scheme.
- """
+ """Translate the given count into a color using the color scheme."""
for count_start, count_end in self._color_scheme:
if count >= count_start and count <= count_end:
return self._color_scheme[(count_start, count_end)]
diff --git a/Bio/Graphics/Distribution.py b/Bio/Graphics/Distribution.py
index 4422903..10704eb 100644
--- a/Bio/Graphics/Distribution.py
+++ b/Bio/Graphics/Distribution.py
@@ -34,7 +34,9 @@ class DistributionPage(object):
This organizes Distributions, and will display them nicely
on a single page.
"""
+
def __init__(self, output_format='pdf'):
+ """Initialize."""
self.distributions = []
# customizable attributes
@@ -48,10 +50,10 @@ class DistributionPage(object):
"""Draw out the distribution information.
Arguments:
-
- output_file - The name of the file to output the information to,
or a handle to write to.
- title - A title to display on the graphic.
+
"""
width, height = self.page_size
cur_drawing = Drawing(width, height)
@@ -89,7 +91,6 @@ class DistributionPage(object):
"""Draw all of the distributions on the page.
Arguments:
-
- cur_drawing - The drawing we are working with.
- start_x_pos - The x position on the page to start drawing at.
- x_pos_change - The change in x position between each figure.
@@ -97,6 +98,7 @@ class DistributionPage(object):
- y_pos_change - The change in y position between each figure.
- num_y_drawings - The number of drawings we'll have in the y
(up/down) direction.
+
"""
for y_drawing in range(int(num_y_drawings)):
# if we are on the last y position, we may not be able
@@ -135,11 +137,11 @@ class BarChartDistribution(object):
def __init__(self, display_info=None):
"""Initialize a Bar Chart display of distribution info.
- Class attributes:
-
+ Attributes:
- display_info - the information to be displayed in the distribution.
This should be ordered as a list of lists, where each internal list
is a data set to display in the bar chart.
+
"""
if display_info is None:
display_info = []
@@ -236,8 +238,11 @@ class LineDistribution(object):
lines. This also allows multiple distributions to be displayed on a
single graph.
"""
+
def __init__(self):
+ """Initialize."""
pass
def draw(self, cur_drawing, start_x, start_y, end_x, end_y):
+ """Draw a line distrubution into the current drawing."""
pass
diff --git a/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py b/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py
index 090c2cd..3e81971 100644
--- a/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py
+++ b/Bio/Graphics/GenomeDiagram/_AbstractDrawer.py
@@ -1,5 +1,5 @@
# Copyright 2003-2008 by Leighton Pritchard. All rights reserved.
-# Revisions copyright 2008-2009 by Peter Cock.
+# Revisions copyright 2008-2017 by Peter Cock.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -9,22 +9,17 @@
# L.Pritchard at scri.ac.uk
################################################################################
-"""AbstractDrawer module (considered to be a private module, the API may change!)
+"""AbstractDrawer module (considered to be a private module, the API may change!).
Provides:
-
- - AbstractDrawer - Superclass for methods common to the Drawer objects
-
- - page_sizes - Method that returns a ReportLab pagesize when passed
+ - AbstractDrawer - Superclass for methods common to the Drawer objects
+ - page_sizes - Method that returns a ReportLab pagesize when passed
a valid ISO size
-
- - draw_box - Method that returns a closed path object when passed
+ - draw_box - Method that returns a closed path object when passed
the proper co-ordinates. For HORIZONTAL boxes only.
-
- - angle2trig - Method that returns a tuple of values that are the
+ - angle2trig - Method that returns a tuple of values that are the
vector for rotating a point through a passed angle,
about an origin
-
- intermediate_points - Method that returns a list of values intermediate
between the points in a passed dataset
@@ -57,8 +52,8 @@ def page_sizes(size):
"""Convert size string into a Reportlab pagesize.
Arguments:
-
- size - A string representing a standard page size, eg 'A4' or 'LETTER'
+
"""
sizes = {'A0': pagesizes.A0, # ReportLab pagesizes, keyed by ISO string
'A1': pagesizes.A1,
@@ -80,12 +75,12 @@ def page_sizes(size):
}
try:
return sizes[size]
- except:
+ except KeyError:
raise ValueError("%s not in list of page sizes" % size)
def _stroke_and_fill_colors(color, border):
- """Helper function handle border and fill colors (PRIVATE)."""
+ """Deal with border and fill colors (PRIVATE)."""
if not isinstance(color, colors.Color):
raise ValueError("Invalid color %r" % color)
@@ -110,11 +105,10 @@ def draw_box(point1, point2,
"""Draw a box.
Arguments:
-
- point1, point2 - coordinates for opposite corners of the box
(x,y tuples)
- - color /colour - The color for the box
- (colour takes priority over color)
+ - color /colour - The color for the box (colour takes priority
+ over color)
- border - Border color for the box
Returns a closed path object, beginning at (x1,y1) going round
@@ -176,12 +170,12 @@ def draw_polygon(list_of_points,
"""Draw polygon.
Arguments:
-
- list_of_point - list of (x,y) tuples for the corner coordinates
- color / colour - The color for the box
Returns a closed path object, beginning at (x1,y1) going round
the four points in order, and filling with the passed colour.
+
"""
# Let the UK spelling (colour) override the USA spelling (color)
if colour is not None:
@@ -275,7 +269,6 @@ def angle2trig(theta):
"""Convert angle to a reportlab ready tuple.
Arguments:
-
- theta - Angle in degrees, counter clockwise from horizontal
Returns a representation of the passed angle in a format suitable
@@ -319,107 +312,59 @@ def intermediate_points(start, end, graph_data):
class AbstractDrawer(object):
- """AbstractDrawer
-
- Provides:
-
- Methods:
-
- - __init__(self, parent, pagesize='A3', orientation='landscape',
- x=0.05, y=0.05, xl=None, xr=None, yt=None, yb=None,
- start=None, end=None, tracklines=0) Called on instantiation
-
- - set_page_size(self, pagesize, orientation) Set the page size to the
- passed size and orientation
-
- - set_margins(self, x, y, xl, xr, yt, yb) Set the drawable area of the
- page
-
- - set_bounds(self, start, end) Set the bounds for the elements to be
- drawn
-
- - is_in_bounds(self, value) Returns a boolean for whether the position
- is actually to be drawn
-
- - __len__(self) Returns the length of sequence that will be drawn
-
- Attributes:
-
- - tracklines Boolean for whether to draw lines delineating tracks
-
- - pagesize Tuple describing the size of the page in pixels
-
- - x0 Float X co-ord for leftmost point of drawable area
-
- - xlim Float X co-ord for rightmost point of drawable area
-
- - y0 Float Y co-ord for lowest point of drawable area
-
- - ylim Float Y co-ord for topmost point of drawable area
-
- - pagewidth Float pixel width of drawable area
-
- - pageheight Float pixel height of drawable area
+ """Abstract Drawer.
+
+ Attributes:
+ - tracklines Boolean for whether to draw lines delineating tracks
+ - pagesize Tuple describing the size of the page in pixels
+ - x0 Float X co-ord for leftmost point of drawable area
+ - xlim Float X co-ord for rightmost point of drawable area
+ - y0 Float Y co-ord for lowest point of drawable area
+ - ylim Float Y co-ord for topmost point of drawable area
+ - pagewidth Float pixel width of drawable area
+ - pageheight Float pixel height of drawable area
+ - xcenter Float X co-ord of center of drawable area
+ - ycenter Float Y co-ord of center of drawable area
+ - start Int, base to start drawing from
+ - end Int, base to stop drawing at
+ - length Size of sequence to be drawn
+ - cross_track_links List of tuples each with four entries (track A,
+ feature A, track B, feature B) to be linked.
- - xcenter Float X co-ord of center of drawable area
-
- - ycenter Float Y co-ord of center of drawable area
-
- - start Int, base to start drawing from
-
- - end Int, base to stop drawing at
-
- - length Size of sequence to be drawn
-
- - cross_track_links List of tuples each with four entries (track A,
- feature A, track B, feature B) to be linked.
"""
+
def __init__(self, parent, pagesize='A3', orientation='landscape',
x=0.05, y=0.05, xl=None, xr=None, yt=None, yb=None,
start=None, end=None, tracklines=0, cross_track_links=None):
"""Create the object.
Arguments:
+ - parent Diagram object containing the data that the drawer draws
+ - pagesize String describing the ISO size of the image, or a tuple
+ of pixels
+ - orientation String describing the required orientation of the
+ final drawing ('landscape' or 'portrait')
+ - x Float (0->1) describing the relative size of the X
+ margins to the page
+ - y Float (0->1) describing the relative size of the Y
+ margins to the page
+ - xl Float (0->1) describing the relative size of the left X
+ margin to the page (overrides x)
+ - xl Float (0->1) describing the relative size of the left X
+ margin to the page (overrides x)
+ - xr Float (0->1) describing the relative size of the right X
+ margin to the page (overrides x)
+ - yt Float (0->1) describing the relative size of the top Y
+ margin to the page (overrides y)
+ - yb Float (0->1) describing the relative size of the lower Y
+ margin to the page (overrides y)
+ - start Int, the position to begin drawing the diagram at
+ - end Int, the position to stop drawing the diagram at
+ - tracklines Boolean flag to show (or not) lines delineating tracks
+ on the diagram
+ - cross_track_links List of tuples each with four entries (track A,
+ feature A, track B, feature B) to be linked.
- - parent Diagram object containing the data that the drawer
- draws
-
- - pagesize String describing the ISO size of the image, or a tuple
- of pixels
-
- - orientation String describing the required orientation of the
- final drawing ('landscape' or 'portrait')
-
- - x Float (0->1) describing the relative size of the X
- margins to the page
-
- - y Float (0->1) describing the relative size of the Y
- margins to the page
-
- - xl Float (0->1) describing the relative size of the left X
- margin to the page (overrides x)
-
- - xl Float (0->1) describing the relative size of the left X
- margin to the page (overrides x)
-
- - xr Float (0->1) describing the relative size of the right X
- margin to the page (overrides x)
-
- - yt Float (0->1) describing the relative size of the top Y
- margin to the page (overrides y)
-
- - yb Float (0->1) describing the relative size of the lower Y
- margin to the page (overrides y)
-
- - start Int, the position to begin drawing the diagram at
-
- - end Int, the position to stop drawing the diagram at
-
- - tracklines Boolean flag to show (or not) lines delineating tracks
- on the diagram
-
- - cross_track_links List of tuples each with four entries (track A,
- feature A, track B, feature B) to be linked.
"""
self._parent = parent # The calling Diagram object
@@ -437,12 +382,11 @@ class AbstractDrawer(object):
"""Set page size of the drawing..
Arguments:
-
- pagesize Size of the output image, a tuple of pixels (width,
height, or a string in the reportlab.lib.pagesizes
set of ISO sizes.
-
- orientation String: 'landscape' or 'portrait'
+
"""
if isinstance(pagesize, str): # A string, so translate
pagesize = page_sizes(pagesize)
@@ -464,13 +408,12 @@ class AbstractDrawer(object):
"""Set page margins.
Arguments:
-
- - x Float(0->1), Absolute X margin as % of page
- - y Float(0->1), Absolute Y margin as % of page
- - xl Float(0->1), Left X margin as % of page
- - xr Float(0->1), Right X margin as % of page
- - yt Float(0->1), Top Y margin as % of page
- - yb Float(0->1), Bottom Y margin as % of page
+ - x Float(0->1), Absolute X margin as % of page
+ - y Float(0->1), Absolute Y margin as % of page
+ - xl Float(0->1), Left X margin as % of page
+ - xr Float(0->1), Right X margin as % of page
+ - yt Float(0->1), Top Y margin as % of page
+ - yb Float(0->1), Bottom Y margin as % of page
Set the page margins as proportions of the page 0->1, and also
set the page limits x0, y0 and xlim, ylim, and page center
@@ -493,9 +436,9 @@ class AbstractDrawer(object):
"""Set start and end points for the drawing as a whole.
Arguments:
-
- start - The first base (or feature mark) to draw from
- end - The last base (or feature mark) to draw to
+
"""
low, high = self._parent.range() # Extent of tracks
@@ -511,18 +454,18 @@ class AbstractDrawer(object):
self.length = self.end - self.start + 1
def is_in_bounds(self, value):
- """Check if given value is within the region selected for drawing,
+ """Check if given value is within the region selected for drawing.
Arguments:
-
- value - A base position
+
"""
if value >= self.start and value <= self.end:
return 1
return 0
def __len__(self):
- """Returns the length of the region to be drawn."""
+ """Return the length of the region to be drawn."""
return self.length
def _current_track_start_end(self):
diff --git a/Bio/Graphics/GenomeDiagram/_CircularDrawer.py b/Bio/Graphics/GenomeDiagram/_CircularDrawer.py
index 29519e6..e58181a 100644
--- a/Bio/Graphics/GenomeDiagram/_CircularDrawer.py
+++ b/Bio/Graphics/GenomeDiagram/_CircularDrawer.py
@@ -1,5 +1,5 @@
# Copyright 2003-2008 by Leighton Pritchard. All rights reserved.
-# Revisions copyright 2008-2012 by Peter Cock.
+# Revisions copyright 2008-2017 by Peter Cock.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -32,174 +32,73 @@ from math import pi, cos, sin
class CircularDrawer(AbstractDrawer):
"""Object for drawing circular diagrams.
- o __init__(self, ...) Called on instantiation
+ Attributes:
+ - tracklines Boolean for whether to draw lines dilineating tracks
+ - pagesize Tuple describing the size of the page in pixels
+ - x0 Float X co-ord for leftmost point of drawable area
+ - xlim Float X co-ord for rightmost point of drawable area
+ - y0 Float Y co-ord for lowest point of drawable area
+ - ylim Float Y co-ord for topmost point of drawable area
+ - pagewidth Float pixel width of drawable area
+ - pageheight Float pixel height of drawable area
+ - xcenter Float X co-ord of center of drawable area
+ - ycenter Float Y co-ord of center of drawable area
+ - start Int, base to start drawing from
+ - end Int, base to stop drawing at
+ - length Size of sequence to be drawn
+ - track_size Float (0->1) the proportion of the track height to draw in
+ - drawing Drawing canvas
+ - drawn_tracks List of ints denoting which tracks are to be drawn
+ - current_track_level Int denoting which track is currently being drawn
+ - track_offsets Dictionary of number of pixels that each track top,
+ center and bottom is offset from the base of a fragment, keyed by track
+ - sweep Float (0->1) the proportion of the circle circumference to
+ use for the diagram
+ - cross_track_links List of tuples each with four entries (track A,
+ feature A, track B, feature B) to be linked.
- o set_page_size(self, pagesize, orientation) Set the page size to the
- passed size and orientation
-
- o set_margins(self, x, y, xl, xr, yt, yb) Set the drawable area of the
- page
-
- o set_bounds(self, start, end) Set the bounds for the elements to be
- drawn
-
- o is_in_bounds(self, value) Returns a boolean for whether the position
- is actually to be drawn
-
- o __len__(self) Returns the length of sequence that will be drawn
-
-
- o draw(self) Place the drawing elements on the diagram
-
- o init_fragments(self) Calculate information
- about sequence fragment locations on the drawing
-
- o set_track_heights(self) Calculate information about the offset of
- each track from the fragment base
-
- o draw_test_tracks(self) Add lines demarcating each track to the
- drawing
-
- o draw_track(self, track) Return the contents of the passed track as
- drawing elements
-
- o draw_scale(self, track) Return a scale for the passed track as
- drawing elements
-
- o draw_greytrack(self, track) Return a grey background and superposed
- label for the passed track as drawing
- elements
-
- o draw_feature_set(self, set) Return the features in the passed set as
- drawing elements
-
- o draw_feature(self, feature) Return a single feature as drawing
- elements
-
- o get_feature_sigil(self, feature, x0, x1, fragment) Return a single
- feature as its sigil in drawing elements
-
- o draw_graph_set(self, set) Return the data in a set of graphs as
- drawing elements
-
- o draw_line_graph(self, graph) Return the data in a graph as a line
- graph in drawing elements
-
- o draw_heat_graph(self, graph) Return the data in a graph as a heat
- graph in drawing elements
-
- o draw_bar_graph(self, graph) Return the data in a graph as a bar
- graph in drawing elements
-
- o canvas_angle(self, base) Return the angle, and cos and sin of
- that angle, subtended by the passed
- base position at the diagram center
-
- o draw_arc(self, inner_radius, outer_radius, startangle, endangle,
- color) Return a drawable element describing an arc
-
- Attributes:
-
- o tracklines Boolean for whether to draw lines dilineating tracks
-
- o pagesize Tuple describing the size of the page in pixels
-
- o x0 Float X co-ord for leftmost point of drawable area
-
- o xlim Float X co-ord for rightmost point of drawable area
-
- o y0 Float Y co-ord for lowest point of drawable area
-
- o ylim Float Y co-ord for topmost point of drawable area
-
- o pagewidth Float pixel width of drawable area
-
- o pageheight Float pixel height of drawable area
-
- o xcenter Float X co-ord of center of drawable area
-
- o ycenter Float Y co-ord of center of drawable area
-
- o start Int, base to start drawing from
-
- o end Int, base to stop drawing at
-
- o length Size of sequence to be drawn
-
- o track_size Float (0->1) the proportion of the track height to
- draw in
-
- o drawing Drawing canvas
-
- o drawn_tracks List of ints denoting which tracks are to be drawn
-
- o current_track_level Int denoting which track is currently being
- drawn
-
- o track_offsets Dictionary of number of pixels that each track top,
- center and bottom is offset from the base of a
- fragment, keyed by track
-
- o sweep Float (0->1) the proportion of the circle circumference to
- use for the diagram
-
- o cross_track_links List of tuples each with four entries (track A,
- feature A, track B, feature B) to be linked.
"""
+
def __init__(self, parent=None, pagesize='A3', orientation='landscape',
x=0.05, y=0.05, xl=None, xr=None, yt=None, yb=None,
start=None, end=None, tracklines=0, track_size=0.75,
circular=1, circle_core=0.0, cross_track_links=None):
"""Create CircularDrawer object.
- o parent Diagram object containing the data that the drawer
- draws
-
- o pagesize String describing the ISO size of the image, or a tuple
- of pixels
-
- o orientation String describing the required orientation of the
- final drawing ('landscape' or 'portrait')
-
- o x Float (0->1) describing the relative size of the X
- margins to the page
-
- o y Float (0->1) describing the relative size of the Y
- margins to the page
-
- o xl Float (0->1) describing the relative size of the left X
- margin to the page (overrides x)
-
- o xl Float (0->1) describing the relative size of the left X
- margin to the page (overrides x)
-
- o xr Float (0->1) describing the relative size of the right X
- margin to the page (overrides x)
-
- o yt Float (0->1) describing the relative size of the top Y
- margin to the page (overrides y)
-
- o yb Float (0->1) describing the relative size of the lower Y
- margin to the page (overrides y)
-
- o start Int, the position to begin drawing the diagram at
-
- o end Int, the position to stop drawing the diagram at
-
- o tracklines Boolean flag to show (or not) lines delineating tracks
- on the diagram
-
- o track_size The proportion of the available track height that
- should be taken up in drawing
+ Arguments:
+ - parent Diagram object containing the data that the drawer
+ draws
+ - pagesize String describing the ISO size of the image, or a tuple
+ of pixels
+ - orientation String describing the required orientation of the
+ final drawing ('landscape' or 'portrait')
+ - x Float (0->1) describing the relative size of the X
+ margins to the page
+ - y Float (0->1) describing the relative size of the Y
+ margins to the page
+ - xl Float (0->1) describing the relative size of the left X
+ margin to the page (overrides x)
+ - xl Float (0->1) describing the relative size of the left X
+ margin to the page (overrides x)
+ - xr Float (0->1) describing the relative size of the right X
+ margin to the page (overrides x)
+ - yt Float (0->1) describing the relative size of the top Y
+ margin to the page (overrides y)
+ - yb Float (0->1) describing the relative size of the lower Y
+ margin to the page (overrides y)
+ - start Int, the position to begin drawing the diagram at
+ - end Int, the position to stop drawing the diagram at
+ - tracklines Boolean flag to show (or not) lines delineating tracks
+ on the diagram
+ - track_size The proportion of the available track height that
+ should be taken up in drawing
+ - circular Boolean flaw to show whether the passed sequence is
+ circular or not
+ - circle_core The proportion of the available radius to leave
+ empty at the center of a circular diagram (0 to 1).
+ - cross_track_links List of tuples each with four entries (track A,
+ feature A, track B, feature B) to be linked.
- o circular Boolean flaw to show whether the passed sequence is
- circular or not
-
- o circle_core The proportion of the available radius to leave
- empty at the center of a circular diagram (0 to 1).
-
- o cross_track_links List of tuples each with four entries (track A,
- feature A, track B, feature B) to be linked.
"""
# Use the superclass' instantiation method
AbstractDrawer.__init__(self, parent, pagesize, orientation,
@@ -215,7 +114,7 @@ class CircularDrawer(AbstractDrawer):
self.sweep = 1
def set_track_heights(self):
- """Initialise track heights.
+ """Initialize track heights.
Since tracks may not be of identical heights, the bottom and top
radius for each track is stored in a dictionary - self.track_radii,
@@ -309,7 +208,7 @@ class CircularDrawer(AbstractDrawer):
self.draw_test_tracks()
def draw_track(self, track):
- """Returns list of track elements and list of track labels."""
+ """Return list of track elements and list of track labels."""
track_elements = [] # Holds elements for features and graphs
track_labels = [] # Holds labels for features and graphs
@@ -325,7 +224,7 @@ class CircularDrawer(AbstractDrawer):
return track_elements, track_labels
def draw_feature_set(self, set):
- """Returns list of feature elements and list of labels for them."""
+ """Return list of feature elements and list of labels for them."""
# print 'draw feature set'
feature_elements = [] # Holds diagram elements belonging to the features
label_elements = [] # Holds diagram elements belonging to feature labels
@@ -340,7 +239,7 @@ class CircularDrawer(AbstractDrawer):
return feature_elements, label_elements
def draw_feature(self, feature):
- """Returns list of feature elements and list of labels for them."""
+ """Return list of feature elements and list of labels for them."""
feature_elements = [] # Holds drawable elements for a single feature
label_elements = [] # Holds labels for a single feature
@@ -365,13 +264,13 @@ class CircularDrawer(AbstractDrawer):
return feature_elements, label_elements
def get_feature_sigil(self, feature, locstart, locend, **kwargs):
- """Returns graphics for feature, and any required label for it.
-
- o feature Feature object
+ """Return graphics for feature, and any required label for it.
- o locstart The start position of the feature
+ Arguments:
+ - feature Feature object
+ - locstart The start position of the feature
+ - locend The end position of the feature
- o locend The end position of the feature
"""
# Establish the co-ordinates for the sigil
btm, ctr, top = self.track_radii[self.current_track_level]
@@ -474,6 +373,7 @@ class CircularDrawer(AbstractDrawer):
return sigil, labelgroup
def draw_cross_link(self, cross_link):
+ """Draw a cross-link between features."""
startA = cross_link.startA
startB = cross_link.startB
endA = cross_link.endA
@@ -548,9 +448,11 @@ class CircularDrawer(AbstractDrawer):
cross_link.color, cross_link.border, cross_link.flip)]
def draw_graph_set(self, set):
- """Returns list of graph elements and list of their labels.
+ """Return list of graph elements and list of their labels.
+
+ Arguments:
+ - set GraphSet object
- o set GraphSet object
"""
# print 'draw graph set'
elements = [] # Holds graph elements
@@ -567,9 +469,11 @@ class CircularDrawer(AbstractDrawer):
return elements, []
def draw_line_graph(self, graph):
- """Returns line graph as list of drawable elements.
+ """Return line graph as list of drawable elements.
+
+ Arguments:
+ - graph GraphData object
- o graph GraphData object
"""
line_elements = [] # holds drawable elements
@@ -618,9 +522,11 @@ class CircularDrawer(AbstractDrawer):
return line_elements
def draw_bar_graph(self, graph):
- """Returns list of drawable elements for a bar graph.
+ """Return list of drawable elements for a bar graph.
+
+ Arguments:
+ - graph Graph object
- o graph Graph object
"""
# At each point contained in the graph data, we draw a vertical bar
# from the track center to the height of the datapoint value (positive
@@ -677,9 +583,11 @@ class CircularDrawer(AbstractDrawer):
return bar_elements
def draw_heat_graph(self, graph):
- """Returns list of drawable elements for the heat graph.
+ """Return list of drawable elements for the heat graph.
+
+ Arguments:
+ - graph Graph object
- o graph Graph object
"""
# At each point contained in the graph data, we draw a box that is the
# full height of the track, extending from the midpoint between the
@@ -716,9 +624,11 @@ class CircularDrawer(AbstractDrawer):
return heat_elements
def draw_scale(self, track):
- """Returns list of elements in the scale and list of their labels.
+ """Return list of elements in the scale and list of their labels.
+
+ Arguments:
+ - track Track object
- o track Track object
"""
scale_elements = [] # holds axes and ticks
scale_labels = [] # holds labels
@@ -871,17 +781,15 @@ class CircularDrawer(AbstractDrawer):
return scale_elements, scale_labels
def draw_tick(self, tickpos, ctr, ticklen, track, draw_label):
- """Returns drawing element for a tick on the scale.
-
- o tickpos Int, position of the tick on the sequence
+ """Return drawing element for a tick on the scale.
- o ctr Float, Y co-ord of the center of the track
+ Arguments:
+ - tickpos Int, position of the tick on the sequence
+ - ctr Float, Y co-ord of the center of the track
+ - ticklen How long to draw the tick
+ - track Track, the track the tick is drawn on
+ - draw_label Boolean, write the tick label?
- o ticklen How long to draw the tick
-
- o track Track, the track the tick is drawn on
-
- o draw_label Boolean, write the tick label?
"""
# Calculate tick co-ordinates
tickangle, tickcos, ticksin = self.canvas_angle(tickpos)
@@ -936,10 +844,7 @@ class CircularDrawer(AbstractDrawer):
fillColor=None)) # bottom line
def draw_greytrack(self, track):
- """Drawing element for grey background to passed track.
-
- o track Track object
- """
+ """Drawing element for grey background to passed Track object."""
greytrack_bgs = [] # Holds track backgrounds
greytrack_labels = [] # Holds track foreground labels
@@ -1017,20 +922,17 @@ class CircularDrawer(AbstractDrawer):
def _draw_arc(self, inner_radius, outer_radius, startangle, endangle,
color, border=None, colour=None, **kwargs):
- """Returns close path describing an arc box.
-
- o inner_radius Float distance of inside of arc from drawing center
-
- o outer_radius Float distance of outside of arc from drawing center
-
- o startangle Float angle subtended by start of arc at drawing center
- (in radians)
-
- o endangle Float angle subtended by end of arc at drawing center
- (in radians)
-
- o color colors.Color object for arc (overridden by backwards
- compatible argument with UK spelling, colour).
+ """Return closed path describing an arc box.
+
+ Arguments:
+ - inner_radius Float distance of inside of arc from drawing center
+ - outer_radius Float distance of outside of arc from drawing center
+ - startangle Float angle subtended by start of arc at drawing center
+ (in radians)
+ - endangle Float angle subtended by end of arc at drawing center
+ (in radians)
+ - color colors.Color object for arc (overridden by backwards
+ compatible argument with UK spelling, colour).
Returns a closed path object describing an arced box corresponding to
the passed values. For very small angles, a simple four sided
@@ -1073,7 +975,7 @@ class CircularDrawer(AbstractDrawer):
def _draw_arc_line(self, path, start_radius, end_radius, start_angle, end_angle,
move=False):
- """Adds a list of points to a path object.
+ """Add a list of points to a path object.
Assumes angles given are in degrees!
@@ -1104,7 +1006,7 @@ class CircularDrawer(AbstractDrawer):
outer_startangle, outer_endangle,
color, border=None, flip=False,
**kwargs):
- """Returns polygon path describing an arc."""
+ """Return polygon path describing an arc."""
strokecolor, color = _stroke_and_fill_colors(color, border)
x0, y0 = self.xcenter, self.ycenter # origin of the circle
diff --git a/Bio/Graphics/GenomeDiagram/_Colors.py b/Bio/Graphics/GenomeDiagram/_Colors.py
index ef33658..b0c1ea1 100644
--- a/Bio/Graphics/GenomeDiagram/_Colors.py
+++ b/Bio/Graphics/GenomeDiagram/_Colors.py
@@ -8,16 +8,15 @@
# L.Pritchard at scri.ac.uk
################################################################################
-""" Colors module
+"""Colors module.
- Provides:
+Provides:
- o ColorTranslator - class to convert tuples of integers and floats into
- colors.Color objects
+- ColorTranslator - class to convert tuples of integers and floats into
+ colors.Color objects
- For drawing capabilities, this module uses reportlab to define colors:
-
- http://www.reportlab.com
+For drawing capabilities, this module uses reportlab to define colors:
+http://www.reportlab.com
"""
# ReportLab imports
@@ -28,15 +27,39 @@ from reportlab.lib import colors
class ColorTranslator(object):
- """ Class providing methods for translating representations of color into
+ """Class providing methods for translating representations of color into.
+
+ Example:
+
+ >>> from Bio.Graphics import GenomeDiagram
+ >>> gdct=GenomeDiagram._Colors.ColorTranslator()
+ >>> print(gdct.float1_color((0.5, 0.5, 0.5)))
+ Color(.5,.5,.5,1)
+ >>> print(gdct.int255_color((1, 75, 240)))
+ Color(.003922,.294118,.941176,1)
+ >>> print(gdct.artemis_color(7))
+ Color(1,1,0,1)
+ >>> print(gdct.scheme_color(2))
+ Color(1,0,0,1)
+ >>> gdct.get_artemis_colorscheme()
+ {0: (Color(1,1,1,1), 'pathogenicity, adaptation, chaperones'), 1: (Color(.39,.39,.39,1), 'energy metabolism'), 2: (Color(1,0,0,1), 'information transfer'), 3: (Color(0,1,0,1), 'surface'), 4: (Color(0,0,1,1), 'stable RNA'), 5: (Color(0,1,1,1), 'degradation of large molecules'), 6: (Color(1,0,1,1), 'degradation of small molecules'), 7: (Color(1,1,0,1), 'central/intermediary/miscellaneous metabolism'), 8: (Color(.6,.98,.6,1), 'unknown'), 9: (Color(.53,.81,.98,1), 'regulators'), 10: (Col [...]
+
+ >>> print(gdct.translate((0.5, 0.5, 0.5)))
+ Color(.5,.5,.5,1)
+ >>> print(gdct.translate((1, 75, 240)))
+ Color(.003922,.294118,.941176,1)
+ >>> print(gdct.translate(7))
+ Color(1,1,0,1)
+ >>> print(gdct.translate(2))
+ Color(1,0,0,1)
+
"""
- def __init__(self, filename=None):
- """ __init__(self, filename)
- o filename Location of a file containing colorscheme
- information
+ def __init__(self, filename=None):
+ """Initialize.
- Optional parameters set the color scheme
+ Argument filename is the location of a file containing
+ colorscheme information.
"""
self._artemis_colorscheme = {0: (colors.Color(1, 1, 1,), "pathogenicity, adaptation, chaperones"),
1: (colors.Color(0.39, 0.39, 0.39), "energy metabolism"),
@@ -64,18 +87,19 @@ class ColorTranslator(object):
self._colorscheme = self._artemis_colorscheme
def translate(self, color=None, colour=None):
- """ translate(self, color)
+ """Translate a color into a ReportLab Color object.
- o color Color defined as an int, a tuple of three ints 0->255
- or a tuple of three floats 0 -> 1, or a string giving
- one of the named colors defined by ReportLab, or a
- ReportLab color object (returned as is).
+ Arguments:
- (This argument is overridden by a backwards compatible
- argument with UK spelling, colour).
+ - color - Color defined as an int, a tuple of three ints 0->255
+ or a tuple of three floats 0 -> 1, or a string giving
+ one of the named colors defined by ReportLab, or a
+ ReportLab color object (returned as is).
+ - colour - Backards compatible alias using UK spelling (which
+ will over-ride any color argument).
- Returns a colors.Color object, determined semi-intelligently
- depending on the input values
+ Returns a colors.Color object, determined semi-intelligently
+ depending on the input values
"""
# Let the UK spelling (colour) override the USA spelling (color)
if colour is not None:
@@ -97,18 +121,20 @@ class ColorTranslator(object):
return color
def read_colorscheme(self, filename):
- """ read_colorscheme(self, filename)
-
- o filename The location of a file defining colors in tab-separated
- format plaintext as:
- INT \t RED \t GREEN \t BLUE \t Comment
- Where RED, GREEN and BLUE are intensities in the range
- 0 -> 255
- e.g.
- 2 \t 255 \t 0 \t 0 \t Red: Information transfer
-
- Reads information from a file containing color information and
- stores it internally
+ r"""Load colour scheme from file.
+
+ Reads information from a file containing color information and stores
+ it internally.
+
+ Argument filename is the location of a file defining colors in
+ tab-separated format plaintext as::
+
+ INT \t RED \t GREEN \t BLUE \t Comment
+
+ Where RED, GREEN and BLUE are intensities in the range 0 -> 255, e.g.::
+
+ 2 \t 255 \t 0 \t 0 \t Red: Information transfer
+
"""
with open(filename, 'r').readlines() as lines:
for line in lines:
@@ -122,7 +148,7 @@ class ColorTranslator(object):
comment = ""
self._colorscheme[label] = (self.int255_color((red, green, blue)),
comment)
- except:
+ except ValueError:
raise ValueError("Expected INT \t INT \t INT \t INT \t string input")
def get_artemis_colorscheme(self):
@@ -133,11 +159,12 @@ class ColorTranslator(object):
"""Artemis color (integer) to ReportLab Color object.
Arguments:
- - value: An int representing a functional class in the Artemis
- color scheme (see www.sanger.ac.uk for a description),
- or a string from a GenBank feature annotation for the
- color which may be dot delimited (in which case the
- first value is used).
+
+ - value: An int representing a functional class in the Artemis
+ color scheme (see www.sanger.ac.uk for a description),
+ or a string from a GenBank feature annotation for the
+ color which may be dot delimited (in which case the
+ first value is used).
Takes an int representing a functional class in the Artemis color
scheme, and returns the appropriate colors.Color object
@@ -159,13 +186,13 @@ class ColorTranslator(object):
return self._colorscheme
def scheme_color(self, value):
- """ scheme_color(self, value)
+ """Map a user-defined color integer to a ReportLab Color object.
- o value An int representing a single color in the user-defined
- color scheme
+ - value: An int representing a single color in the user-defined
+ color scheme
- Takes an int representing a user-defined color and returns the
- appropriate colors.Color object
+ Takes an int representing a user-defined color and returns the
+ appropriate colors.Color object.
"""
if value in self._colorscheme:
return self._colorscheme[value][0]
@@ -173,13 +200,13 @@ class ColorTranslator(object):
raise ValueError("Scheme color out of range: %d" % value)
def int255_color(self, values):
- """ int255_color(self, values)
+ """Map integer (red, green, blue) tuple to a ReportLab Color object.
- o values A tuple of (red, green, blue) intensities as
- integers in the range 0->255
+ - values: A tuple of (red, green, blue) intensities as
+ integers in the range 0->255
- Takes a tuple of (red, green, blue) intensity values in the range
- 0 -> 255 and returns an appropriate colors.Color object
+ Takes a tuple of (red, green, blue) intensity values in the range
+ 0 -> 255 and returns an appropriate colors.Color object.
"""
red, green, blue = values
factor = 1 / 255.
@@ -187,32 +214,18 @@ class ColorTranslator(object):
return colors.Color(red, green, blue)
def float1_color(self, values):
- """ float1_color(self, values)
+ """Map float (red, green, blue) tuple to a ReportLab Color object.
- o values A tuple of (red, green, blue) intensities as floats
- in the range 0 -> 1
+ - values: A tuple of (red, green, blue) intensities as floats
+ in the range 0 -> 1
- Takes a tuple of (red, green, blue) intensity values in the range
- 0 -> 1 and returns an appropriate colors.Color object
+ Takes a tuple of (red, green, blue) intensity values in the range
+ 0 -> 1 and returns an appropriate colors.Color object.
"""
red, green, blue = values
return colors.Color(red, green, blue)
-################################################################################
-# RUN AS SCRIPT
-################################################################################
-
if __name__ == '__main__':
-
- # Test code
- gdct = ColorTranslator()
- print(gdct.float1_color((0.5, 0.5, 0.5)))
- print(gdct.int255_color((1, 75, 240)))
- print(gdct.artemis_color(7))
- print(gdct.scheme_color(2))
-
- print(gdct.translate((0.5, 0.5, 0.5)))
- print(gdct.translate((1, 75, 240)))
- print(gdct.translate(7))
- print(gdct.translate(2))
+ from Bio._utils import run_doctest
+ run_doctest(verbose=2)
diff --git a/Bio/Graphics/GenomeDiagram/_CrossLink.py b/Bio/Graphics/GenomeDiagram/_CrossLink.py
index c42008f..05ee82d 100644
--- a/Bio/Graphics/GenomeDiagram/_CrossLink.py
+++ b/Bio/Graphics/GenomeDiagram/_CrossLink.py
@@ -1,18 +1,17 @@
-# Copyright 2011 by Peter Cock. All rights reserved.
+# Copyright 2011-2017 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
################################################################################
-"""Genome Diagram Feature cross-link module
-"""
+"""Genome Diagram Feature cross-link module."""
from reportlab.lib import colors
class CrossLink(object):
- """Hold information for drawing a cross link between features.
- """
+ """Hold information for drawing a cross link between features."""
+
def __init__(self, featureA, featureB,
color=colors.lightgreen, border=None, flip=False):
"""Create a new cross link.
@@ -30,7 +29,7 @@ class CrossLink(object):
also use a different colour (e.g. red for simple links, blue for any
flipped links).
"""
- # Initialise attributes
+ # Initialize attributes
self.featureA = featureA
self.featureB = featureB
self.color = color # default color to draw the feature
@@ -39,6 +38,7 @@ class CrossLink(object):
@property
def startA(self):
+ """Start position of Feature A."""
try:
return self.featureA.start
except AttributeError:
@@ -47,6 +47,7 @@ class CrossLink(object):
@property
def endA(self):
+ """End position of Feature A."""
try:
return self.featureA.end
except AttributeError:
@@ -58,7 +59,7 @@ class CrossLink(object):
track, start, end = self.featureA
assert track in tracks
return track
- except Exception: # TODO: ValueError?
+ except TypeError:
for track in tracks:
for feature_set in track.get_sets():
if hasattr(feature_set, "features"):
@@ -68,6 +69,7 @@ class CrossLink(object):
@property
def startB(self):
+ """Start position of Feature B."""
try:
return self.featureB.start
except AttributeError:
@@ -76,6 +78,7 @@ class CrossLink(object):
@property
def endB(self):
+ """End position of Feature B."""
try:
return self.featureB.end
except AttributeError:
@@ -87,7 +90,7 @@ class CrossLink(object):
track, start, end = self.featureB
assert track in tracks
return track
- except:
+ except TypeError:
for track in tracks:
for feature_set in track.get_sets():
if hasattr(feature_set, "features"):
diff --git a/Bio/Graphics/GenomeDiagram/_Diagram.py b/Bio/Graphics/GenomeDiagram/_Diagram.py
index 3a39f6e..6730d3d 100644
--- a/Bio/Graphics/GenomeDiagram/_Diagram.py
+++ b/Bio/Graphics/GenomeDiagram/_Diagram.py
@@ -37,46 +37,49 @@ class Diagram(object):
"""Diagram container.
Arguments:
- - name - a string, identifier for the diagram.
- - tracks - a list of Track objects comprising the diagram.
- - format - a string, format of the diagram 'circular' or
- 'linear', depending on the sort of diagram required.
- - pagesize - a string, the pagesize of output describing the ISO
- size of the image, or a tuple of pixels.
- - orientation - a string describing the required orientation of the
- final drawing ('landscape' or 'portrait').
- - x - a float (0->1), the proportion of the page to take
- up with even X margins t the page.
- - y - a float (0->1), the proportion of the page to take
- up with even Y margins to the page.
- - xl - a float (0->1), the proportion of the page to take
- up with the left X margin to the page (overrides x).
- - xr - a float (0->1), the proportion of the page to take
- up with the right X margin to the page (overrides x).
- - yt - a float (0->1), the proportion of the page to take
- up with the top Y margin to the page (overrides y).
- - yb - a float (0->1), the proportion of the page to take
- up with the bottom Y margin to the page (overrides y).
- - circle_core - a float, the proportion of the available radius to
- leave empty at the center of a circular diagram (0 to 1).
- - start - an integer, the base/aa position to start the diagram at.
- - end - an integer, the base/aa position to end the diagram at.
- - tracklines - a boolean, True if track guidelines are to be drawn.
- - fragments - and integer, for a linear diagram, the number of equal
- divisions into which the sequence is divided.
- - fragment_size - a float (0->1), the proportion of the space
- available to each fragment that should be used in drawing.
- - track_size - a float (0->1), the proportion of the space
- available to each track that should be used in drawing with sigils.
- - circular - a boolean, True if the genome/sequence to be drawn
- is, in reality, circular.
+
+ - name - a string, identifier for the diagram.
+ - tracks - a list of Track objects comprising the diagram.
+ - format - a string, format of the diagram 'circular' or
+ 'linear', depending on the sort of diagram required.
+ - pagesize - a string, the pagesize of output describing the ISO
+ size of the image, or a tuple of pixels.
+ - orientation - a string describing the required orientation of the
+ final drawing ('landscape' or 'portrait').
+ - x - a float (0->1), the proportion of the page to take
+ up with even X margins t the page.
+ - y - a float (0->1), the proportion of the page to take
+ up with even Y margins to the page.
+ - xl - a float (0->1), the proportion of the page to take
+ up with the left X margin to the page (overrides x).
+ - xr - a float (0->1), the proportion of the page to take
+ up with the right X margin to the page (overrides x).
+ - yt - a float (0->1), the proportion of the page to take
+ up with the top Y margin to the page (overrides y).
+ - yb - a float (0->1), the proportion of the page to take
+ up with the bottom Y margin to the page (overrides y).
+ - circle_core - a float, the proportion of the available radius to
+ leave empty at the center of a circular diagram (0 to 1).
+ - start - an integer, the base/aa position to start the diagram at.
+ - end - an integer, the base/aa position to end the diagram at.
+ - tracklines - a boolean, True if track guidelines are to be drawn.
+ - fragments - and integer, for a linear diagram, the number of equal
+ divisions into which the sequence is divided.
+ - fragment_size - a float (0->1), the proportion of the space
+ available to each fragment that should be used in drawing.
+ - track_size - a float (0->1), the proportion of the space
+ available to each track that should be used in drawing with sigils.
+ - circular - a boolean, True if the genome/sequence to be drawn
+ is, in reality, circular.
+
"""
+
def __init__(self, name=None, format='circular', pagesize='A3',
orientation='landscape', x=0.05, y=0.05, xl=None,
xr=None, yt=None, yb=None, start=None, end=None,
tracklines=False, fragments=10, fragment_size=0.9,
track_size=0.75, circular=True, circle_core=0.0):
- """Called on instantiation.
+ """Initialize.
gdd = Diagram(name=None)
"""
@@ -158,7 +161,7 @@ class Diagram(object):
self.drawing = drawer.drawing # Get the completed drawing
def write(self, filename='test1.ps', output='PS', dpi=72):
- """Writes the drawn diagram to a specified file, in a specified format.
+ """Write the drawn diagram to a specified file, in a specified format.
Arguments:
- filename - a string indicating the name of the output file,
@@ -173,11 +176,12 @@ class Diagram(object):
No return value.
write(self, filename='test1.ps', output='PS', dpi=72)
+
"""
return _write(self.drawing, filename, output, dpi=dpi)
def write_to_string(self, output='PS', dpi=72):
- """Returns a byte string containing the diagram in the requested format.
+ """Return a byte string containing the diagram in the requested format.
Arguments:
- output - a string indicating output format, one of PS, PDF,
@@ -188,6 +192,7 @@ class Diagram(object):
Returns:
Return the completed drawing as a bytes string in a prescribed
format.
+
"""
# The ReportLab drawToString method, which this function used to call,
# just used a cStringIO or StringIO handle with the drawToFile method.
@@ -202,7 +207,7 @@ class Diagram(object):
return handle.getvalue()
def add_track(self, track, track_level):
- """Adds a Track object to the diagram.
+ """Add a Track object to the diagram.
It also accepts instructions to place it at a particular level on the
diagram.
@@ -255,7 +260,7 @@ class Diagram(object):
return newtrack
def del_track(self, track_level):
- """Removes the track to be drawn at a particular level on the diagram.
+ """Remove the track to be drawn at a particular level on the diagram.
Arguments:
- track_level - an integer. The level of the track on the diagram
@@ -266,37 +271,34 @@ class Diagram(object):
del self.tracks[track_level]
def get_tracks(self):
- """Returns a list of the tracks contained in the diagram.
-
- get_tracks(self)
- """
+ """Return a list of the tracks contained in the diagram."""
return list(self.tracks.values())
def move_track(self, from_level, to_level):
- """Moves a track from one level on the diagram to another.
+ """Move a track from one level on the diagram to another.
Arguments:
- - from_level - an integer. The level at which the track to be
- moved is found.
- - to_level - an integer. The level to move the track to.
- move_track(self, from_level, to_level)
+ - from_level - an integer. The level at which the track to be
+ moved is found.
+ - to_level - an integer. The level to move the track to.
+
"""
aux = self.tracks[from_level]
del self.tracks[from_level]
self.add_track(aux, to_level)
def renumber_tracks(self, low=1, step=1):
- """Renumbers all tracks consecutively.
+ """Renumber all tracks consecutively.
Optionally from a passed lowest number.
Arguments:
- - low - an integer. The track number to start from.
- - step - an integer. The track interval for separation of
- tracks.
- renumber_tracks(self, low=1, step=1)
+ - low - an integer. The track number to start from.
+ - step - an integer. The track interval for separation of
+ tracks.
+
"""
track = low # Start numbering from here
levels = self.get_levels()
@@ -309,27 +311,20 @@ class Diagram(object):
self.tracks = conversion # Replace old set of levels with new set
def get_levels(self):
- """Return a sorted list of levels occupied by tracks in the diagram.
-
- get_levels(self)
- """
+ """Return a sorted list of levels occupied by tracks in the diagram."""
return sorted(self.tracks)
def get_drawn_levels(self):
"""Return a sorted list of levels occupied by tracks.
These tracks are not explicitly hidden.
-
- get_drawn_levels(self)
"""
return sorted(key for key in self.tracks if not self.tracks[key].hide)
def range(self):
- """Returns lowest and highest base numbers from track features.
+ """Return lowest and highest base numbers from track features.
Returned type is a tuple.
-
- range(self)
"""
lows, highs = [], []
for track in self.tracks.values(): # Get ranges for each track
@@ -339,20 +334,11 @@ class Diagram(object):
return min(lows), max(highs) # Return extremes from all tracks
def __getitem__(self, key):
- """Returns the track contained at the level of the passed key.
-
- Arguments:
- - key - The id of a track in the diagram.
-
- __getitem__(self, key)
- """
+ """Return the track contained at the level of the passed key."""
return self.tracks[key]
def __str__(self):
- """Returns a formatted string describing the diagram.
-
- __str__(self)
- """
+ """Return a formatted string describing the diagram."""
outstr = ["\n<%s: %s>" % (self.__class__, self.name)]
outstr.append("%d tracks" % len(self.tracks))
for level in self.get_levels():
diff --git a/Bio/Graphics/GenomeDiagram/_Feature.py b/Bio/Graphics/GenomeDiagram/_Feature.py
index c92de6d..fbd1672 100644
--- a/Bio/Graphics/GenomeDiagram/_Feature.py
+++ b/Bio/Graphics/GenomeDiagram/_Feature.py
@@ -8,19 +8,13 @@
# L.Pritchard at scri.ac.uk
################################################################################
-""" Feature module
+"""Feature module.
- Provides:
+Provides:
+ - Feature - class to wrap Bio.SeqFeature objects with drawing information
- o Feature - class to wrap Bio.SeqFeature objects with drawing information
-
- For drawing capabilities, this module uses reportlab to define colors:
-
- http://www.reportlab.com
-
- For dealing with biological information, the package uses BioPython:
-
- http://www.biopython.org
+For drawing capabilities, this module uses reportlab to define colors:
+http://www.reportlab.com
"""
# ReportLab imports
@@ -31,105 +25,62 @@ from ._Colors import ColorTranslator
class Feature(object):
- """ Class to wrap Bio.SeqFeature objects for GenomeDiagram
-
- Provides:
-
- Methods:
-
- o __init__(self, parent=None, feature_id=None, feature=None,
- color=colors.lightgreen) Called when the feature is
- instantiated
-
- o set_feature(self, feature) Wrap the passed feature
-
- o get_feature(self) Return the unwrapped Bio.SeqFeature object
-
- o set_color(self, color) Set the color in which the feature will
- be drawn (accepts multiple formats: reportlab color.Color()
- tuple and color.name, or integer representing Artemis color
-
- o get_color(self) Returns color.Color tuple of the feature's color
-
- o __getattr__(self, name) Catches attribute requests and passes them to
- the wrapped Bio.SeqFeature object
-
- Attributes:
-
- o parent FeatureSet, container for the object
-
- o id Unique id
-
- o color color.Color, color to draw the feature
-
- o hide Boolean for whether the feature will be drawn or not
-
- o sigil String denoting the type of sigil to use for the feature.
- Currently either "BOX" or "ARROW" are supported.
-
- o arrowhead_length Float denoting length of the arrow head to be drawn,
- relative to the bounding box height. The arrow shaft
- takes up the remainder of the bounding box's length.
-
- o arrowshaft_height Float denoting length of the representative arrow
- shaft to be drawn, relative to the bounding box height.
- The arrow head takes the full height of the bound box.
-
- o name_qualifiers List of Strings, describes the qualifiers that may
- contain feature names in the wrapped Bio.SeqFeature object
-
- o label Boolean, 1 if the label should be shown
-
- o label_font String describing the font to use for the feature label
-
- o label_size Int describing the feature label font size
-
- o label_color color.Color describing the feature label color
-
- o label_angle Float describing the angle through which to rotate the
- feature label in degrees (default = 45, linear only)
-
- o label_position String, 'start', 'end' or 'middle' denoting where
- to place the feature label. Leave as None for the default
- which is 'start' for linear diagrams, and at the bottom of
- the feature as drawn on circular diagrams.
-
- o label_strand Integer -1 or +1 to explicitly place the label on the
- forward or reverse strand. Default (None) follows th
- feature's strand. Use -1 to put labels under (linear) or
- inside (circular) the track, +1 to put them above (linear)
- or outside (circular) the track.
-
- o locations List of tuples of (start, end) ints describing where the
- feature and any subfeatures start and end
-
- o type String denoting the feature type
-
- o name String denoting the feature name
-
- o strand Int describing the strand on which the feature is found
+ """Class to wrap Bio.SeqFeature objects for GenomeDiagram.
+
+ Attributes:
+ - parent FeatureSet, container for the object
+ - id Unique id
+ - color color.Color, color to draw the feature
+ - hide Boolean for whether the feature will be drawn or not
+ - sigil String denoting the type of sigil to use for the feature.
+ Currently either "BOX" or "ARROW" are supported.
+ - arrowhead_length Float denoting length of the arrow head to be drawn,
+ relative to the bounding box height. The arrow shaft
+ takes up the remainder of the bounding box's length.
+ - arrowshaft_height Float denoting length of the representative arrow
+ shaft to be drawn, relative to the bounding box height.
+ The arrow head takes the full height of the bound box.
+ - name_qualifiers List of Strings, describes the qualifiers that may
+ contain feature names in the wrapped Bio.SeqFeature object
+ - label Boolean, 1 if the label should be shown
+ - label_font String describing the font to use for the feature label
+ - label_size Int describing the feature label font size
+ - label_color color.Color describing the feature label color
+ - label_angle Float describing the angle through which to rotate the
+ feature label in degrees (default = 45, linear only)
+ - label_position String, 'start', 'end' or 'middle' denoting where
+ to place the feature label. Leave as None for the default
+ which is 'start' for linear diagrams, and at the bottom of
+ the feature as drawn on circular diagrams.
+ - label_strand Integer -1 or +1 to explicitly place the label on the
+ forward or reverse strand. Default (None) follows th
+ feature's strand. Use -1 to put labels under (linear) or
+ inside (circular) the track, +1 to put them above (linear)
+ or outside (circular) the track.
+ - locations List of tuples of (start, end) ints describing where the
+ feature and any subfeatures start and end
+ - type String denoting the feature type
+ - name String denoting the feature name
+ - strand Int describing the strand on which the feature is found
"""
+
def __init__(self, parent=None, feature_id=None, feature=None,
color=colors.lightgreen, label=0, border=None, colour=None):
- """ __init__(self, parent=None, feature_id=None, feature=None,
- color=colors.lightgreen, label=0)
-
- o parent FeatureSet containing the feature
+ """Initialize.
+
+ Arguments:
+ - parent FeatureSet containing the feature
+ - feature_id Unique id for the feature
+ - feature Bio.SeqFeature object to be wrapped
+ - color color.Color Color to draw the feature (overridden
+ by backwards compatible argument with UK spelling, colour).
+ Either argument is overridden if 'color' is found in feature
+ qualifiers
+ - border color.Color Color to draw the feature border, use
+ None for the same as the fill color, False for no border.
+ - label Boolean, 1 if the label should be shown
- o feature_id Unique id for the feature
-
- o feature Bio.SeqFeature object to be wrapped
-
- o color color.Color Color to draw the feature (overridden
- by backwards compatible argument with UK spelling,
- colour). Either argument is overridden if 'color'
- is found in feature qualifiers
-
- o border color.Color Color to draw the feature border, use
- None for the same as the fill color, False for no border.
-
- o label Boolean, 1 if the label should be shown
"""
# Let the UK spelling (colour) override the USA spelling (color)
if colour is not None:
@@ -137,7 +88,7 @@ class Feature(object):
self._colortranslator = ColorTranslator()
- # Initialise attributes
+ # Initialize attributes
self.parent = parent
self.id = feature_id
self.color = color # default color to draw the feature
@@ -160,21 +111,12 @@ class Feature(object):
self.set_feature(feature)
def set_feature(self, feature):
- """ set_feature(self, feature)
-
- o feature Bio.SeqFeature object to be wrapped
-
- Defines the Bio.SeqFeature object to be wrapped
- """
+ """Define the Bio.SeqFeature object to be wrapped."""
self._feature = feature
self.__process_feature()
def __process_feature(self):
- """ __process_feature(self)
-
- Examine the feature to be wrapped, and set some of the Feature's
- properties accordingly
- """
+ """Examine wrapped feature and set some properties accordingly (PRIVATE)."""
self.locations = []
bounds = []
# This will be a list of length one for simple FeatureLocation:
@@ -205,10 +147,7 @@ class Feature(object):
self.start, self.end = min(bounds), max(bounds)
def get_feature(self):
- """ get_feature(self) -> Bio.SeqFeature
-
- Returns the unwrapped Bio.SeqFeature object
- """
+ """Return the unwrapped Bio.SeqFeature object."""
return self._feature
def set_colour(self, colour):
@@ -217,23 +156,23 @@ class Feature(object):
self.color = color
def set_color(self, color):
- """ set_color(self, color)
+ """Set the color in which the feature will be drawn.
- o color The color to draw the feature - either a colors.Color
- object, an RGB tuple of floats, or an integer
- corresponding to colors in colors.txt
+ Arguments:
+ - color The color to draw the feature - either a colors.Color
+ object, an RGB tuple of floats, or an integer corresponding a
+ colors in colors.txt
- Set the color in which the feature will be drawn
"""
# TODO - Make this into the set method for a color property?
color = self._colortranslator.translate(color)
self.color = color
def __getattr__(self, name):
- """ __getattr__(self, name) -> various
+ """Get attribute by name.
- If the Feature class doesn't have the attribute called for,
- check in self._feature for it
+ If the Feature class doesn't have the attribute called for,
+ check in self._feature for it.
"""
return getattr(self._feature, name) # try to get the attribute from the feature
diff --git a/Bio/Graphics/GenomeDiagram/_FeatureSet.py b/Bio/Graphics/GenomeDiagram/_FeatureSet.py
index 1add356..6e6849f 100644
--- a/Bio/Graphics/GenomeDiagram/_FeatureSet.py
+++ b/Bio/Graphics/GenomeDiagram/_FeatureSet.py
@@ -13,7 +13,7 @@
#
################################################################################
-"""FeatureSet module
+"""FeatureSet module.
Provides:
- FeatureSet - container for Feature objects
@@ -40,6 +40,7 @@ class FeatureSet(object):
Arguments:
- set_id: Unique id for the set
- name: String identifying the feature set
+
"""
self.parent = parent
self.id = id # Unique id for the set
@@ -155,7 +156,7 @@ class FeatureSet(object):
return list(self.features.keys())
def range(self):
- """Returns the lowest and highest base (or mark) numbers as a tuple."""
+ """Return the lowest and highest base (or mark) numbers as a tuple."""
lows, highs = [], []
for feature in self.features.values():
for start, end in feature.locations:
@@ -166,11 +167,13 @@ class FeatureSet(object):
return 0, 0
def to_string(self, verbose=0):
- """Returns a formatted string with information about the set
+ """Return a formatted string with information about the set.
Arguments:
- - verbose: Boolean indicating whether a short (default) or
- complete account of the set is required
+
+ - verbose: Boolean indicating whether a short (default) or
+ complete account of the set is required
+
"""
if not verbose: # Short account only required
return "%s" % self
@@ -190,7 +193,7 @@ class FeatureSet(object):
return self.features[key]
def __str__(self):
- """Returns a formatted string with information about the feature set."""
+ """Return a formatted string with information about the feature set."""
outstr = ["\n<%s: %s %d features>" % (self.__class__, self.name,
len(self.features))]
return "\n".join(outstr)
@@ -199,6 +202,7 @@ class FeatureSet(object):
# RUN AS SCRIPT
################################################################################
+
if __name__ == '__main__':
from Bio import SeqIO
diff --git a/Bio/Graphics/GenomeDiagram/_Graph.py b/Bio/Graphics/GenomeDiagram/_Graph.py
index 7ff6b0d..57160bc 100644
--- a/Bio/Graphics/GenomeDiagram/_Graph.py
+++ b/Bio/Graphics/GenomeDiagram/_Graph.py
@@ -9,22 +9,14 @@
# L.Pritchard at scri.ac.uk
################################################################################
-""" Graph module
+"""Graph module.
- Provides:
+Provides:
+ - GraphData - Contains data from which a graph will be drawn, and
+ information about its presentation
- o GraphData - Contains data from which a graph will be drawn, and
- information about its presentation
-
- For drawing capabilities, this module uses reportlab to draw and write
- the diagram:
-
- http://www.reportlab.com
-
- For dealing with biological information, the package expects BioPython
- objects:
-
- http://www.biopython.org
+For drawing capabilities, this module uses reportlab to draw and write
+the diagram: http://www.reportlab.com
"""
# ReportLab imports
@@ -36,83 +28,40 @@ from math import sqrt
class GraphData(object):
- """ GraphData
-
- Provides:
-
- Methods:
-
- o __init__(self, id=None, data=None, name=None, style='bar',
- color=colors.lightgreen, altcolor=colors.darkseagreen)
- Called on instantiation
-
- o set_data(self, data) Load the object with data to be plotted
-
- o get_data(self) Returns the data to be plotted as a list of
- (position, value) tuples
-
- o add_point(self, point) Add a single point to the data set
-
- o quartiles(self) Returns a tuple of the data quartiles
-
- o range(self) Returns a tuple of the base range covered by the graph
- data
-
- o mean(self) Returns a float of the mean data point value
+ """Graph Data.
+
+ Attributes:
+ - id Unique identifier for the data
+ - data Dictionary of describing the data, keyed by position
+ - name String describing the data
+ - style String ('bar', 'heat', 'line') describing how to draw the data
+ - poscolor colors.Color for drawing high (some styles) or all
+ values
+ - negcolor colors.Color for drawing low values (some styles)
+ - linewidth Int, thickness to draw the line in 'line' styles
- o stdev(self) Returns the sample standard deviation of the data values
-
- o __len__(self) Returns the length of sequence covered by the data
-
- o __getitem__(self, index) Returns the value at the base specified,
- or graph data in the base range
-
- o __str__(self) Returns a formatted string describing the graph data
-
- Attributes:
-
- o id Unique identifier for the data
-
- o data Dictionary of describing the data, keyed by position
-
- o name String describing the data
-
- o style String ('bar', 'heat', 'line') describing how to draw the data
-
- o poscolor colors.Color for drawing high (some styles) or all
- values
-
- o negcolor colors.Color for drawing low values (some styles)
-
- o linewidth Int, thickness to draw the line in 'line' styles
"""
+
def __init__(self, id=None, data=None, name=None, style='bar',
color=colors.lightgreen, altcolor=colors.darkseagreen,
center=None, colour=None, altcolour=None):
- """__init__(self, id=None, data=None, name=None, style='bar',
- color=colors.lightgreen, altcolor=colors.darkseagreen)
-
- o id Unique ID for the graph
-
- o data List of (position, value) tuples
-
- o name String describing the graph
-
- o style String describing the presentation style ('bar', 'line',
- 'heat')
-
- o color colors.Color describing the color to draw all or the
- 'high' (some styles) values (overridden by backwards
- compatible argument with UK spelling, colour).
-
- o altcolor colors.Color describing the color to draw the 'low'
- values (some styles only) (overridden by backwards
- compatible argument with UK spelling, colour).
-
- o center Value at which x-axis crosses y-axis.
+ """Initialize.
+
+ Arguments:
+ - id Unique ID for the graph
+ - data List of (position, value) tuples
+ - name String describing the graph
+ - style String describing the presentation style ('bar', 'line',
+ 'heat')
+ - color colors.Color describing the color to draw all or the
+ 'high' (some styles) values (overridden by backwards
+ compatible argument with UK spelling, colour).
+ - altcolor colors.Color describing the color to draw the 'low'
+ values (some styles only) (overridden by backwards
+ compatible argument with UK spelling, colour).
+ - center Value at which x-axis crosses y-axis.
"""
-
# Let the UK spelling (colour) override the USA spelling (color)
if colour is not None:
color = colour
@@ -133,20 +82,12 @@ class GraphData(object):
self.center = center # value at which x-axis crosses y-axis
def set_data(self, data):
- """ set_data(self, data)
-
- o data List of (position, value) tuples
-
- Add data with a list of (position, value) tuples
- """
+ """Add data as a list of (position, value) tuples."""
for (pos, val) in data: # Fill data dictionary
self.data[pos] = val
def get_data(self):
- """ get_data(self) -> [(int, float), (int, float), ...]
-
- Return data as a list of sorted (position, value) tuples
- """
+ """Return data as a list of sorted (position, value) tuples."""
data = []
for xval in self.data:
yval = self.data[xval]
@@ -155,31 +96,22 @@ class GraphData(object):
return data
def add_point(self, point):
- """ add_point(self, point)
-
- o point (position, value) tuple
-
- Add a single point to the set of data
- """
+ """Add a single point to the set of data as a (position, value) tuple."""
pos, val = point
self.data[pos] = val
def quartiles(self):
- """ quartiles(self) -> (float, float, float, float, float)
-
- Returns the (minimum, lowerQ, medianQ, upperQ, maximum) values as
- a tuple
- """
+ """Return (minimum, lowerQ, medianQ, upperQ, maximum) values as tuple."""
data = sorted(self.data.values())
datalen = len(data)
return(data[0], data[datalen // 4], data[datalen // 2],
data[3 * datalen // 4], data[-1])
def range(self):
- """ range(self) -> (int, int)
+ """Return range of data as (start, end) tuple.
- Returns the range of the data, i.e. its start and end points on
- the genome as a (start, end) tuple
+ Returns the range of the data, i.e. its start and end points on
+ the genome as a (start, end) tuple.
"""
positions = sorted(self.data) # i.e. dict keys
# Return first and last positions in graph
@@ -187,10 +119,7 @@ class GraphData(object):
return (positions[0], positions[-1])
def mean(self):
- """ mean(self) -> Float
-
- Returns the mean value for the data points
- """
+ """Return the mean value for the data points (float)."""
data = list(self.data.values())
sum = 0.
for item in data:
@@ -198,10 +127,7 @@ class GraphData(object):
return sum / len(data)
def stdev(self):
- """ stdev(self) -> Float
-
- Returns the sample standard deviation for the data
- """
+ """Return the sample standard deviation for the data (float)."""
data = list(self.data.values())
m = self.mean()
runtotal = 0.
@@ -212,22 +138,17 @@ class GraphData(object):
return sqrt(runtotal / (len(data) - 1))
def __len__(self):
- """ __len__(self) -> Int
-
- Returns the number of points in the data set
- """
+ """Return the number of points in the data set."""
return len(self.data)
def __getitem__(self, index):
- """ __getitem__(self, index) -> Float or list of tuples
+ """Return data value(s) at the given position.
- Given an integer representing position on the sequence
- returns a float - the data value at the passed position.
+ Given an integer representing position on the sequence
+ returns a float - the data value at the passed position.
- If a slice, returns graph data from the region as a list or
- (position, value) tuples. Slices with step are not supported.
-
- Returns the data value at the passed position
+ If a slice, returns graph data from the region as a list or
+ (position, value) tuples. Slices with step are not supported.
"""
if isinstance(index, int):
return self.data[index]
@@ -247,10 +168,7 @@ class GraphData(object):
raise TypeError("Need an integer or a slice")
def __str__(self):
- """ __str__(self) -> ""
-
- Returns a string describing the graph data
- """
+ """Return a string describing the graph data."""
outstr = ["\nGraphData: %s, ID: %s" % (self.name, self.id)]
outstr.append("Number of points: %d" % len(self.data))
outstr.append("Mean data value: %s" % self.mean())
diff --git a/Bio/Graphics/GenomeDiagram/_GraphSet.py b/Bio/Graphics/GenomeDiagram/_GraphSet.py
index cbc7be4..d3fd7bd 100644
--- a/Bio/Graphics/GenomeDiagram/_GraphSet.py
+++ b/Bio/Graphics/GenomeDiagram/_GraphSet.py
@@ -12,21 +12,13 @@
# TODO: Make representation of Ymax and Ymin values at this level, so that
# calculation of graph/axis drawing is simplified
-""" GraphSet module
+"""GraphSet module.
- Provides:
+Provides:
+ - GraphSet - container for GraphData objects
- o GraphSet - container for GraphData objects
-
- For drawing capabilities, this module uses reportlab to draw and write
- the diagram:
-
- http://www.reportlab.com
-
- For dealing with biological information, the package expects BioPython
- objects:
-
- http://www.biopython.org
+For drawing capabilities, this module uses reportlab to draw and write
+the diagram: http://www.reportlab.com
"""
# ReportLab imports
@@ -38,45 +30,20 @@ from ._Graph import GraphData
class GraphSet(object):
- """ GraphSet
-
- Provides:
-
- Methods:
-
- o __init__(self, set_id=None, name=None) Called on instantiation
-
- o new_graph(self, data, name, style='bar', color=colors.lightgreen,
- altcolor=colors.darkseagreen) Create new graph in the set
- from the passed data, with the passed parameters
-
- o del_graph(self, graph_id) Delete graph with the passed id
-
- o get_graphs(self) Returns a list of all graphs
-
- o get_ids(self) Returns a list of graph ids
+ """Graph Set.
- o range(self) Returns the range covered by the graphs in the set
-
- o to_string(self, verbose=0) Returns a string describing the set
-
- o __len__(self) Returns the length of sequence covered by the set
-
- o __getitem__(self, key) Returns the graph with the id of the passed key
-
- o __str__(self) Returns a string describing the set
-
- Attributes:
-
- o id Unique identifier for the set
-
- o name String describing the set
+ Attributes:
+ - id Unique identifier for the set
+ - name String describing the set
"""
+
def __init__(self, name=None):
- """ __init__(self, name=None)
+ """Initialize.
+
+ Arguments:
+ - name String identifying the graph set sensibly
- o name String identifying the graph set sensibly
"""
self.id = id # Unique identifier for the set
self._next_id = 0 # Holds unique ids for graphs
@@ -86,32 +53,25 @@ class GraphSet(object):
def new_graph(self, data, name=None, style='bar', color=colors.lightgreen,
altcolor=colors.darkseagreen, linewidth=1, center=None,
colour=None, altcolour=None, centre=None):
- """ new_graph(self, data, name=None, style='bar', color=colors.lightgreen,
- altcolor=colors.darkseagreen)
-
- o data List of (position, value) int tuples
-
- o name String, description of the graph
-
- o style String ('bar', 'heat', 'line') describing how the graph
- will be drawn
-
- o color colors.Color describing the color to draw all or 'high'
- (some styles) data (overridden by backwards compatible
- argument with UK spelling, colour).
-
- o altcolor colors.Color describing the color to draw 'low' (some
- styles) data (overridden by backwards compatible argument
- with UK spelling, colour).
-
- o linewidth Float describing linewidth for graph
-
- o center Float setting the value at which the x-axis
- crosses the y-axis (overridden by backwards
- compatible argument with UK spelling, centre)
-
- Add a GraphData object to the diagram (will be stored
- internally
+ """Add a GraphData object to the diagram.
+
+ Arguments:
+ - data List of (position, value) int tuples
+ - name String, description of the graph
+ - style String ('bar', 'heat', 'line') describing how the graph
+ will be drawn
+ - color colors.Color describing the color to draw all or 'high'
+ (some styles) data (overridden by backwards compatible
+ argument with UK spelling, colour).
+ - altcolor colors.Color describing the color to draw 'low' (some
+ styles) data (overridden by backwards compatible argument
+ with UK spelling, colour).
+ - linewidth Float describing linewidth for graph
+ - center Float setting the value at which the x-axis
+ crosses the y-axis (overridden by backwards
+ compatible argument with UK spelling, centre)
+
+ Add a GraphData object to the diagram (will be stored internally).
"""
# Let the UK spelling (colour) override the USA spelling (color)
if colour is not None:
@@ -129,34 +89,22 @@ class GraphSet(object):
return graph
def del_graph(self, graph_id):
- """ del_graph(self, graph_id)
-
- o graph_id Identifying value of the graph
-
- Remove a graph from the set, indicated by its id
- """
+ """Remove a graph from the set, indicated by its id."""
del self._graphs[graph_id]
def get_graphs(self):
- """ get_graphs(self) -> [Graph, Graph, ...]
+ """Return list of all graphs in the graph set, sorted by id.
- Return a list of all graphs in the graph set, sorted by id (for
- reliable stacking...)
+ Sorting is to ensure reliable stacking.
"""
return [self._graphs[id] for id in sorted(self._graphs)]
def get_ids(self):
- """ get_ids(self) -> [int, int, ...]
-
- Return a list of all ids for the graph set
- """
+ """Return a list of all ids for the graph set."""
return list(self._graphs.keys())
def range(self):
- """ range(self) -> (int, int)
-
- Returns the lowest and highest base (or mark) numbers as a tuple
- """
+ """Return the lowest and highest base (or mark) numbers as a tuple."""
lows, highs = [], []
for graph in self._graphs.values():
low, high = graph.range()
@@ -165,11 +113,7 @@ class GraphSet(object):
return (min(lows), max(highs))
def data_quartiles(self):
- """ data_quartiles(self) -> (float, float, float, float, float)
-
- Returns the (minimum, lowerQ, medianQ, upperQ, maximum) values as
- a tuple
- """
+ """Return (minimum, lowerQ, medianQ, upperQ, maximum) values as a tuple."""
data = []
for graph in self._graphs.values():
data += list(graph.data.values())
@@ -179,12 +123,12 @@ class GraphSet(object):
data[3 * datalen / 4], data[-1])
def to_string(self, verbose=0):
- """ to_string(self, verbose=0) -> ""
+ """Return a formatted string with information about the set.
- o verbose Flag indicating whether a short or complete account
- of the set is required
+ Arguments:
+ - verbose - Flag indicating whether a short or complete account
+ of the set is required
- Returns a formatted string with information about the set
"""
if not verbose:
return "%s" % self
@@ -196,24 +140,15 @@ class GraphSet(object):
return "\n".join(outstr)
def __len__(self):
- """ __len__(self) -> int
-
- Return the number of graphs in the set
- """
+ """Return the number of graphs in the set."""
return len(self._graphs)
def __getitem__(self, key):
- """ __getitem__(self, key) -> Graph
-
- Return a graph, keyed by id
- """
+ """Return a graph, keyed by id."""
return self._graphs[key]
def __str__(self):
- """ __str__(self) -> ""
-
- Returns a formatted string with information about the feature set
- """
+ """Return a formatted string with information about the feature set."""
outstr = ["\n<%s: %s>" % (self.__class__, self.name)]
outstr.append("%d graphs" % len(self._graphs))
outstr = "\n".join(outstr)
diff --git a/Bio/Graphics/GenomeDiagram/_LinearDrawer.py b/Bio/Graphics/GenomeDiagram/_LinearDrawer.py
index 6a4cfec..ced6f1f 100644
--- a/Bio/Graphics/GenomeDiagram/_LinearDrawer.py
+++ b/Bio/Graphics/GenomeDiagram/_LinearDrawer.py
@@ -9,21 +9,13 @@
# L.Pritchard at scri.ac.uk
################################################################################
-""" LinearDrawer module
+"""Linear Drawer module.
- Provides:
+Provides:
+ - LinearDrawer - Drawing object for linear diagrams
- o LinearDrawer - Drawing object for linear diagrams
-
- For drawing capabilities, this module uses reportlab to draw and write
- the diagram:
-
- http://www.reportlab.com
-
- For dealing with biological information, the package expects BioPython
- objects:
-
- http://www.biopython.org
+For drawing capabilities, this module uses reportlab to draw and write
+the diagram: http://www.reportlab.com
"""
# ReportLab imports
@@ -43,201 +35,87 @@ from math import ceil
class LinearDrawer(AbstractDrawer):
- """ LinearDrawer(AbstractDrawer)
-
- Inherits from:
-
- o AbstractDrawer
-
- Provides:
-
- Methods:
-
- o __init__(self, ...) Called on instantiation
-
- o set_page_size(self, pagesize, orientation) Set the page size to the
- passed size and orientation
-
- o set_margins(self, x, y, xl, xr, yt, yb) Set the drawable area of the
- page
-
- o set_bounds(self, start, end) Set the bounds for the elements to be
- drawn
-
- o is_in_bounds(self, value) Returns a boolean for whether the position
- is actually to be drawn
-
- o __len__(self) Returns the length of sequence that will be drawn
-
-
- o draw(self) Place the drawing elements on the diagram
-
- o init_fragments(self) Calculate information
- about sequence fragment locations on the drawing
-
- o set_track_heights(self) Calculate information about the offset of
- each track from the fragment base
-
- o draw_test_tracks(self) Add lines demarcating each track to the
- drawing
-
- o draw_track(self, track) Return the contents of the passed track as
- drawing elements
-
- o draw_scale(self, track) Return a scale for the passed track as
- drawing elements
-
- o draw_tick(self, tickpos, ctr, ticklen, track, draw_label) Return a
- tick line and possibly a label
-
- o draw_greytrack(self, track) Return a grey background and superposed
- label for the passed track as drawing
- elements
-
- o draw_feature_set(self, set) Return the features in the passed set as
- drawing elements
-
- o draw_feature(self, feature) Return a single feature as drawing
- elements
-
- o get_feature_sigil(self, feature, x0, x1, fragment) Return a single
- feature as its sigil in drawing elements
-
- o draw_graph_set(self, set) Return the data in a set of graphs as
- drawing elements
-
- o draw_line_graph(self, graph) Return the data in a graph as a line
- graph in drawing elements
-
- o draw_heat_graph(self, graph) Return the data in a graph as a heat
- graph in drawing elements
-
- o draw_bar_graph(self, graph) Return the data in a graph as a bar
- graph in drawing elements
-
- o canvas_location(self, base) Return the fragment, and the offset from
- the left margin, of a passed position
- in the sequence, on the diagram.
-
- Attributes:
-
- o tracklines Boolean for whether to draw lines delineating tracks
-
- o pagesize Tuple describing the size of the page in pixels
-
- o x0 Float X co-ord for leftmost point of drawable area
-
- o xlim Float X co-ord for rightmost point of drawable area
-
- o y0 Float Y co-ord for lowest point of drawable area
-
- o ylim Float Y co-ord for topmost point of drawable area
-
- o pagewidth Float pixel width of drawable area
-
- o pageheight Float pixel height of drawable area
-
- o xcenter Float X co-ord of center of drawable area
-
- o ycenter Float Y co-ord of center of drawable area
-
- o start Int, base to start drawing from
-
- o end Int, base to stop drawing at
-
- o length Int, size of sequence to be drawn
-
- o fragments Int, number of fragments into which to divide the
- drawn sequence
-
- o fragment_size Float (0->1) the proportion of the fragment height to
- draw in
-
- o track_size Float (0->1) the proportion of the track height to
- draw in
-
- o drawing Drawing canvas
-
- o drawn_tracks List of ints denoting which tracks are to be drawn
-
- o current_track_level Int denoting which track is currently being
- drawn
-
- o fragment_height Float total fragment height in pixels
-
- o fragment_bases Int total fragment length in bases
-
- o fragment_lines Dictionary of top and bottom y-coords of fragment,
- keyed by fragment number
-
- o fragment_limits Dictionary of start and end bases of each fragment,
- keyed by fragment number
-
- o track_offsets Dictionary of number of pixels that each track top,
- center and bottom is offset from the base of a
- fragment, keyed by track
-
- o cross_track_links List of tuples each with four entries (track A,
- feature A, track B, feature B) to be linked.
+ """Linear Drawer.
+
+ Inherits from:
+ - AbstractDrawer
+
+ Attributes:
+ - tracklines Boolean for whether to draw lines delineating tracks
+ - pagesize Tuple describing the size of the page in pixels
+ - x0 Float X co-ord for leftmost point of drawable area
+ - xlim Float X co-ord for rightmost point of drawable area
+ - y0 Float Y co-ord for lowest point of drawable area
+ - ylim Float Y co-ord for topmost point of drawable area
+ - pagewidth Float pixel width of drawable area
+ - pageheight Float pixel height of drawable area
+ - xcenter Float X co-ord of center of drawable area
+ - ycenter Float Y co-ord of center of drawable area
+ - start Int, base to start drawing from
+ - end Int, base to stop drawing at
+ - length Int, size of sequence to be drawn
+ - fragments Int, number of fragments into which to divide the
+ drawn sequence
+ - fragment_size Float (0->1) the proportion of the fragment height to
+ draw in
+ - track_size Float (0->1) the proportion of the track height to
+ draw in
+ - drawing Drawing canvas
+ - drawn_tracks List of ints denoting which tracks are to be drawn
+ - current_track_level Int denoting which track is currently being
+ drawn
+ - fragment_height Float total fragment height in pixels
+ - fragment_bases Int total fragment length in bases
+ - fragment_lines Dictionary of top and bottom y-coords of fragment,
+ keyed by fragment number
+ - fragment_limits Dictionary of start and end bases of each fragment,
+ keyed by fragment number
+ - track_offsets Dictionary of number of pixels that each track top,
+ center and bottom is offset from the base of a fragment, keyed by track
+ - cross_track_links List of tuples each with four entries (track A,
+ feature A, track B, feature B) to be linked.
"""
+
def __init__(self, parent=None, pagesize='A3', orientation='landscape',
x=0.05, y=0.05, xl=None, xr=None, yt=None, yb=None,
start=None, end=None, tracklines=0, fragments=10,
fragment_size=0.9, track_size=0.75, cross_track_links=None):
- """ __init__(self, parent, pagesize='A3', orientation='landscape',
- x=0.05, y=0.05, xl=None, xr=None, yt=None, yb=None,
- start=None, end=None, tracklines=0, fragments=10,
- fragment_size=0.9, track_size=0.75)
-
- o parent Diagram object containing the data that the drawer
- draws
-
- o pagesize String describing the ISO size of the image, or a tuple
- of pixels
-
- o orientation String describing the required orientation of the
- final drawing ('landscape' or 'portrait')
-
- o x Float (0->1) describing the relative size of the X
- margins to the page
-
- o y Float (0->1) describing the relative size of the Y
- margins to the page
-
- o xl Float (0->1) describing the relative size of the left X
- margin to the page (overrides x)
-
- o xl Float (0->1) describing the relative size of the left X
- margin to the page (overrides x)
-
- o xr Float (0->1) describing the relative size of the right X
- margin to the page (overrides x)
-
- o yt Float (0->1) describing the relative size of the top Y
- margin to the page (overrides y)
-
- o yb Float (0->1) describing the relative size of the lower Y
- margin to the page (overrides y)
-
- o start Int, the position to begin drawing the diagram at
+ """Initialize.
+
+ Arguments:
+ - parent Diagram object containing the data that the drawer draws
+ - pagesize String describing the ISO size of the image, or a tuple
+ of pixels
+ - orientation String describing the required orientation of the
+ final drawing ('landscape' or 'portrait')
+ - x Float (0->1) describing the relative size of the X
+ margins to the page
+ - y Float (0->1) describing the relative size of the Y
+ margins to the page
+ - xl Float (0->1) describing the relative size of the left X
+ margin to the page (overrides x)
+ - xl Float (0->1) describing the relative size of the left X
+ margin to the page (overrides x)
+ - xr Float (0->1) describing the relative size of the right X
+ margin to the page (overrides x)
+ - yt Float (0->1) describing the relative size of the top Y
+ margin to the page (overrides y)
+ - yb Float (0->1) describing the relative size of the lower Y
+ margin to the page (overrides y)
+ - start Int, the position to begin drawing the diagram at
+ - end Int, the position to stop drawing the diagram at
+ - tracklines Boolean flag to show (or not) lines delineating tracks
+ on the diagram
+ - fragments Int, the number of equal fragments into which the
+ sequence should be divided for drawing
+ - fragment_size Float(0->1) The proportion of the available height
+ for the fragment that should be taken up in drawing
+ - track_size The proportion of the available track height that
+ should be taken up in drawing
+ - cross_track_links List of tuples each with four entries (track A,
+ feature A, track B, feature B) to be linked.
- o end Int, the position to stop drawing the diagram at
-
- o tracklines Boolean flag to show (or not) lines delineating tracks
- on the diagram
-
- o fragments Int, the number of equal fragments into which the
- sequence should be divided for drawing
-
- o fragment_size Float(0->1) The proportion of the available height
- for the fragment that should be taken up in drawing
-
- o track_size The proportion of the available track height that
- should be taken up in drawing
-
- o cross_track_links List of tuples each with four entries (track A,
- feature A, track B, feature B) to be linked.
"""
# Use the superclass' instantiation method
AbstractDrawer.__init__(self, parent, pagesize, orientation,
@@ -250,10 +128,7 @@ class LinearDrawer(AbstractDrawer):
self.track_size = track_size
def draw(self):
- """ draw(self)
-
- Draw a linear diagram of the data in the parent Diagram object
- """
+ """Draw a linear diagram of the data in the parent Diagram object."""
# Instantiate the drawing canvas
self.drawing = Drawing(self.pagesize[0], self.pagesize[1])
@@ -312,11 +187,7 @@ class LinearDrawer(AbstractDrawer):
self.draw_test_tracks()
def init_fragments(self):
- """ init_fragments(self)
-
- Initialises useful values for calculating the positioning of
- diagram elements
- """
+ """Initialize useful values for positioning diagram elements."""
# Set basic heights, lengths etc
self.fragment_height = 1. * self.pageheight / self.fragments # total fragment height in pixels
self.fragment_bases = ceil(1. * self.length / self.fragments) # fragment length in bases
@@ -341,11 +212,11 @@ class LinearDrawer(AbstractDrawer):
fragment_count += 1
def set_track_heights(self):
- """ set_track_heights(self)
+ """Set track heights.
- Since tracks may not be of identical heights, the bottom and top
- offsets of each track relative to the fragment top and bottom is
- stored in a dictionary - self.track_offsets, keyed by track number
+ Since tracks may not be of identical heights, the bottom and top
+ offsets of each track relative to the fragment top and bottom is
+ stored in a dictionary - self.track_offsets, keyed by track number.
"""
bot_track = min(min(self.drawn_tracks), 1)
top_track = max(self.drawn_tracks) # The 'highest' track number to draw
@@ -376,10 +247,10 @@ class LinearDrawer(AbstractDrawer):
self.track_offsets = track_offsets
def draw_test_tracks(self):
- """ draw_test_tracks(self)
+ """Draw test tracks.
- Draw red lines indicating the top and bottom of each fragment,
- and blue ones indicating tracks to be drawn.
+ Draw red lines indicating the top and bottom of each fragment,
+ and blue ones indicating tracks to be drawn.
"""
# Add lines for each fragment
for fbtm, ftop in self.fragment_lines.values():
@@ -401,12 +272,13 @@ class LinearDrawer(AbstractDrawer):
strokeColor=colors.blue)) # bottom line
def draw_track(self, track):
- """ draw_track(self, track) -> ([element, element,...], [element, element,...])
+ """Draw track.
- o track Track object
+ Arguments:
+ - track Track object
- Returns a tuple (list of elements in the track, list of labels in
- the track)
+ Returns a tuple (list of elements in the track, list of labels in
+ the track).
"""
track_elements = [] # Holds elements from features and graphs
track_labels = [] # Holds labels from features and graphs
@@ -423,19 +295,16 @@ class LinearDrawer(AbstractDrawer):
return track_elements, track_labels
def draw_tick(self, tickpos, ctr, ticklen, track, draw_label):
- """ draw_tick(self, tickpos, ctr, ticklen) -> (element, element)
-
- o tickpos Int, position of the tick on the sequence
-
- o ctr Float, Y co-ord of the center of the track
+ """Draw tick.
- o ticklen How long to draw the tick
+ Arguments:
+ - tickpos Int, position of the tick on the sequence
+ - ctr Float, Y co-ord of the center of the track
+ - ticklen How long to draw the tick
+ - track Track, the track the tick is drawn on
+ - draw_label Boolean, write the tick label?
- o track Track, the track the tick is drawn on
-
- o draw_label Boolean, write the tick label?
-
- Returns a drawing element that is the tick on the scale
+ Returns a drawing element that is the tick on the scale
"""
assert self.start <= tickpos and tickpos <= self.end, \
"Tick at %i, but showing %i to %i" \
@@ -474,12 +343,13 @@ class LinearDrawer(AbstractDrawer):
return tick, labelgroup
def draw_scale(self, track):
- """ draw_scale(self, track) -> ([element, element,...], [element, element,...])
+ """Draw scale.
- o track Track object
+ Argument:
+ - track Track object
- Returns a tuple of (list of elements in the scale, list of labels
- in the scale)
+ Returns a tuple of (list of elements in the scale, list of labels
+ in the scale).
"""
scale_elements = [] # Holds axes and ticks
scale_labels = [] # Holds labels
@@ -603,12 +473,13 @@ class LinearDrawer(AbstractDrawer):
return scale_elements, scale_labels
def draw_greytrack(self, track):
- """ draw_greytrack(self) -> ([element, element,...], [element, element,...])
+ """Draw greytrack.
- o track Track object
+ Arguments:
+ - track Track object
- Put in a grey background to the current track in all fragments,
- if track specifies that we should
+ Put in a grey background to the current track in all fragments,
+ if track specifies that we should.
"""
greytrack_bgs = [] # Holds grey track backgrounds
greytrack_labels = [] # Holds grey foreground labels
@@ -662,12 +533,13 @@ class LinearDrawer(AbstractDrawer):
return greytrack_bgs, greytrack_labels
def draw_feature_set(self, set):
- """ draw_feature_set(self, set) -> ([element, element,...], [element, element,...])
+ """Draw feature set.
- o set FeatureSet object
+ Arguments:
+ - set FeatureSet object
- Returns a tuple (list of elements describing features, list of
- labels for elements)
+ Returns a tuple (list of elements describing features, list of
+ labels for elements).
"""
# print 'draw feature set'
feature_elements = [] # Holds diagram elements belonging to the features
@@ -683,12 +555,13 @@ class LinearDrawer(AbstractDrawer):
return feature_elements, label_elements
def draw_feature(self, feature):
- """ draw_feature(self, feature, parent_feature=None) -> ([element, element,...], [element, element,...])
+ """Draw feature.
- o feature Feature containing location info
+ Arguments:
+ - feature Feature containing location info
- Returns tuple of (list of elements describing single feature, list
- of labels for those elements)
+ Returns tuple of (list of elements describing single feature, list
+ of labels for those elements).
"""
if feature.hide: # Feature hidden, don't draw it...
return [], []
@@ -714,6 +587,7 @@ class LinearDrawer(AbstractDrawer):
return feature_elements, label_elements
def draw_feature_location(self, feature, locstart, locend):
+ """Draw feature location."""
feature_boxes = []
# Get start and end positions for feature/subfeatures
start_fragment, start_offset = self.canvas_location(locstart)
@@ -764,6 +638,7 @@ class LinearDrawer(AbstractDrawer):
return feature_boxes
def draw_cross_link(self, cross_link):
+ """Draw cross-link between two features."""
startA = cross_link.startA
startB = cross_link.startB
endA = cross_link.endA
@@ -970,18 +845,16 @@ class LinearDrawer(AbstractDrawer):
return answer
def get_feature_sigil(self, feature, x0, x1, fragment, **kwargs):
- """ get_feature_sigil(self, feature, x0, x1, fragment) -> (element, element, element)
-
- o feature Feature object
+ """Get feature sigil.
- o x0 Start X co-ordinate on diagram
+ Arguments:
+ - feature Feature object
+ - x0 Start X co-ordinate on diagram
+ - x1 End X co-ordinate on diagram
+ - fragment The fragment on which the feature appears
- o x1 End X co-ordinate on diagram
-
- o fragment The fragment on which the feature appears
-
- Returns a drawable indicator of the feature, and any required label
- for it
+ Returns a drawable indicator of the feature, and any required label
+ for it.
"""
# Establish co-ordinates for drawing
x0, x1 = self.x0 + x0, self.x0 + x1
@@ -990,7 +863,7 @@ class LinearDrawer(AbstractDrawer):
btm += self.fragment_lines[fragment][0]
ctr += self.fragment_lines[fragment][0]
top += self.fragment_lines[fragment][0]
- except: # Only called if the method screws up big time
+ except Exception: # Only called if the method screws up big time
print("We've got a screw-up")
print("%s %s" % (self.start, self.end))
print(self.fragment_bases)
@@ -1064,11 +937,12 @@ class LinearDrawer(AbstractDrawer):
return sigil, labelgroup
def draw_graph_set(self, set):
- """ draw_graph_set(self, set) -> ([element, element,...], [element, element,...])
+ """Draw graph set.
- o set GraphSet object
+ Arguments:
+ - set GraphSet object
- Returns tuple (list of graph elements, list of graph labels)
+ Returns tuple (list of graph elements, list of graph labels).
"""
# print 'draw graph set'
elements = [] # Holds graph elements
@@ -1085,11 +959,11 @@ class LinearDrawer(AbstractDrawer):
return elements, []
def draw_line_graph(self, graph):
- """ draw_line_graph(self, graph) -> [element, element,...]
+ """Return a line graph as a list of drawable elements.
- o graph Graph object
+ Arguments:
+ - graph Graph object
- Returns a line graph as a list of drawable elements
"""
# print '\tdraw_line_graph'
line_elements = [] # Holds drawable elements
@@ -1150,12 +1024,7 @@ class LinearDrawer(AbstractDrawer):
return line_elements
def draw_heat_graph(self, graph):
- """ draw_heat_graph(self, graph) -> [element, element,...]
-
- o graph Graph object
-
- Returns a list of drawable elements for the heat graph
- """
+ """Return a list of drawable elements for the heat graph."""
# print '\tdraw_heat_graph'
# At each point contained in the graph data, we draw a box that is the
# full height of the track, extending from the midpoint between the
@@ -1227,13 +1096,7 @@ class LinearDrawer(AbstractDrawer):
return heat_elements
def draw_bar_graph(self, graph):
- """ draw_bar_graph(self, graph) -> [element, element,...]
-
- o graph Graph object
-
- Returns a list of drawable elements for a bar graph of the passed
- Graph object
- """
+ """Return list of drawable elements for a bar graph."""
# print '\tdraw_bar_graph'
# At each point contained in the graph data, we draw a vertical bar
# from the track center to the height of the datapoint value (positive
@@ -1314,12 +1177,13 @@ class LinearDrawer(AbstractDrawer):
return bar_elements
def canvas_location(self, base):
- """ canvas_location(self, base) -> (int, float)
+ """Canvas location of a base on the genome.
- o base The base number on the genome sequence
+ Arguments:
+ - base The base number on the genome sequence
- Returns the x-coordinate and fragment number of a base on the
- genome sequence, in the context of the current drawing setup
+ Returns the x-coordinate and fragment number of a base on the
+ genome sequence, in the context of the current drawing setup
"""
base = int(base - self.start) # number of bases we are from the start
fragment = int(base / self.fragment_bases)
diff --git a/Bio/Graphics/GenomeDiagram/_Track.py b/Bio/Graphics/GenomeDiagram/_Track.py
index 7245fdc..ac483bc 100644
--- a/Bio/Graphics/GenomeDiagram/_Track.py
+++ b/Bio/Graphics/GenomeDiagram/_Track.py
@@ -8,23 +8,14 @@
# L.Pritchard at scri.ac.uk
################################################################################
-""" Track module
+"""Track module.
- Provides:
-
- o Track - Container for a single track on the diagram, containing
- FeatureSet and GraphSet objects
-
- For drawing capabilities, this module uses reportlab to draw and write
- the diagram:
-
- http://www.reportlab.com
-
- For dealing with biological information, the package expects BioPython
- objects:
-
- http://www.biopython.org
+Provides:
+ - Track - Container for a single track on the diagram, containing
+ FeatureSet and GraphSet objects
+For drawing capabilities, this module uses reportlab to draw and write
+the diagram: http://www.reportlab.com
"""
from __future__ import print_function
@@ -39,102 +30,55 @@ from ._GraphSet import GraphSet
class Track(object):
- """ Track
-
- Provides:
-
- Methods:
-
- o __init__(self, name=None, ...) Called on instantiation
-
- o add_set(self, set) Add a FeatureSet or GraphSet to the diagram
-
- o del_set(self, set_id) Delete a FeatureSet or GraphSet from the
- diagram
-
- o get_sets(self) Returns a list of the sets in the track
-
- o get_ids(self) Returns a list of the ids for sets in the track
-
- o range(self) Returns the base/position range covered by the data in
- the track
-
- o to_string(self, verbose=0) Returns a string describing the data in
- the track
-
- o __getitem__(self, key) Returns the set with the passed id
-
- o __str__(self) Returns a formatted string describing the track
-
- Attributes:
-
- o height Int describing the relative height to other trackscale_fontsizes in the
- diagram
-
- o name String describing the track
-
- o hide Boolean, 0 if the track is not to be drawn
-
- o start, end Integers (or None) specifying start/end to draw just
- a partial track.
+ """Track.
+
+ Attributes:
+ - height Int describing the relative height to other trackscale_fontsizes
+ in the diagram
+ - name String describing the track
+ - hide Boolean, 0 if the track is not to be drawn
+ - start, end Integers (or None) specifying start/end to draw just
+ a partial track.
+ - greytrack Boolean, 1 if a grey background to the track is to be
+ drawn
+ - greytrack_labels Int describing how many track-identifying labels
+ should be placed on the track at regular intervals
+ - greytrack_font String describing the font to use for the greytrack
+ labels
+ - greytrack_fontsize Int describing the font size to display the
+ labels on the grey track
+ - greytrack_font_rotation Int describing the angle through which to
+ rotate the grey track labels (Linear only)
+ - greytrack_font_color colors.Color describing the color to draw
+ the grey track labels
+ - scale Boolean, 1 if a scale is to be drawn on the track
+ - scale_format String, defaults to None, when scale values are written
+ as numerals. Setting this to 'SInt' invokes SI
+ unit-like multiples, such as Mbp, Kbp and so on.
+ - scale_color colors.Color to draw the elements of the scale
+ - scale_font String describing the font to use for the scale labels
+ - scale_fontsize Int describing the size of the scale label font
+ - scale_fontangle Int describing the angle at which to draw the scale
+ labels (linear only)
+ - scale_ticks Boolean, 1 if ticks should be drawn at all on the
+ scale
+ - scale_largeticks Float (0->1) describing the height of large
+ scale ticks relative to the track height.
+ - scale_smallticks Float (0->1) describing the height of large
+ scale ticks relative to the track height.
+ - scale_largetick_interval Int, describing the number of bases that
+ should separate large ticks
+ - scale_smalltick_interval Int, describing the number of bases that
+ should separate small ticks
+ - scale_largetick_labels Boolean describing whether position labels
+ should be written over large ticks
+ - scale_smalltick_labels Boolean describing whether position labels
+ should be written over small ticks
+ - axis_labels Boolean describing whether the value labels should
+ be placed on the Y axes
- o greytrack Boolean, 1 if a grey background to the track is to be
- drawn
-
- o greytrack_labels Int describing how many track-identifying labels
- should be placed on the track at regular intervals
-
- o greytrack_font String describing the font to use for the greytrack
- labels
-
- o greytrack_fontsize Int describing the font size to display the
- labels on the grey track
-
- o greytrack_font_rotation Int describing the angle through which to
- rotate the grey track labels (Linear only)
-
- o greytrack_font_color colors.Color describing the color to draw
- the grey track labels
-
- o scale Boolean, 1 if a scale is to be drawn on the track
-
- o scale_format String, defaults to None, when scale values are written
- as numerals. Setting this to 'SInt' invokes SI
- unit-like multiples, such as Mbp, Kbp and so on.
-
- o scale_color colors.Color to draw the elements of the scale
-
- o scale_font String describing the font to use for the scale labels
-
- o scale_fontsize Int describing the size of the scale label font
-
- o scale_fontangle Int describing the angle at which to draw the scale
- labels (linear only)
-
- o scale_ticks Boolean, 1 if ticks should be drawn at all on the
- scale
-
- o scale_largeticks Float (0->1) describing the height of large
- scale ticks relative to the track height.
-
- o scale_smallticks Float (0->1) describing the height of large
- scale ticks relative to the track height.
-
- o scale_largetick_interval Int, describing the number of bases that
- should separate large ticks
-
- o scale_smalltick_interval Int, describing the number of bases that
- should separate small ticks
-
- o scale_largetick_labels Boolean describing whether position labels
- should be written over large ticks
-
- o scale_smalltick_labels Boolean describing whether position labels
- should be written over small ticks
-
- o axis_labels Boolean describing whether the value labels should
- be placed on the Y axes
"""
+
def __init__(self, name=None, height=1, hide=0, greytrack=0,
greytrack_labels=5, greytrack_fontsize=8,
greytrack_font='Helvetica', greytrack_font_rotation=0,
@@ -147,75 +91,53 @@ class Track(object):
scale_smalltick_labels=0, axis_labels=1,
start=None, end=None,
greytrack_font_colour=None, scale_colour=None):
- """ __init__(self, name=None, ...)
+ """Initialize.
+
+ Arguments:
+ - height Int describing the relative height to other tracks in the
+ diagram
+ - name String describing the track
+ - hide Boolean, 0 if the track is not to be drawn
+ - greytrack Boolean, 1 if a grey background to the track is to be
+ drawn
+ - greytrack_labels Int describing how many track-identifying labels
+ should be placed on the track at regular intervals
+ - greytrack_font String describing the font to use for the greytrack
+ labels
+ - greytrack_fontsize Int describing the font size to display the
+ labels on the grey track
+ - greytrack_font_rotation Int describing the angle through which to
+ rotate the grey track labels (Linear only)
+ - greytrack_font_color colors.Color describing the color to draw
+ the grey track labels (overridden by backwards compatible argument
+ with UK spelling, colour).
+ - scale Boolean, 1 if a scale is to be drawn on the track
+ - scale_color colors.Color to draw the elements of the scale
+ (overridden by backwards compatible argument with UK
+ spelling, colour).
+ - scale_font String describing the font to use for the scale labels
+ - scale_fontsize Int describing the size of the scale label font
+ - scale_fontangle Int describing the angle at which to draw the scale
+ labels (linear only)
+ - scale_ticks Boolean, 1 if ticks should be drawn at all on the
+ scale
+ - scale_largeticks Float (0->1) describing the height of large
+ scale ticks relative to the track height.
+ - scale_smallticks Float (0->1) describing the height of large
+ scale ticks relative to the track height.
+ - scale_largetick_interval Int, describing the number of bases that
+ should separate large ticks
+ - scale_smalltick_interval Int, describing the number of bases that
+ should separate small ticks
+ - scale_largetick_labels Boolean describing whether position labels
+ should be written over large ticks
+ - scale_smalltick_labels Boolean describing whether position labels
+ should be written over small ticks
+ - name String to help identify the track
+ - height Relative height to draw the track
+ - axis_labels Boolean describing whether the value labels should
+ be placed on the Y axes
- o height Int describing the relative height to other tracks in the
- diagram
-
- o name String describing the track
-
- o hide Boolean, 0 if the track is not to be drawn
-
- o greytrack Boolean, 1 if a grey background to the track is to be
- drawn
-
- o greytrack_labels Int describing how many track-identifying labels
- should be placed on the track at regular intervals
-
- o greytrack_font String describing the font to use for the greytrack
- labels
-
- o greytrack_fontsize Int describing the font size to display the
- labels on the grey track
-
- o greytrack_font_rotation Int describing the angle through which to
- rotate the grey track labels (Linear only)
-
- o greytrack_font_color colors.Color describing the color to draw
- the grey track labels (overridden by
- backwards compatible argument with UK
- spelling, colour).
-
- o scale Boolean, 1 if a scale is to be drawn on the track
-
- o scale_color colors.Color to draw the elements of the scale
- (overridden by backwards compatible argument with UK
- spelling, colour).
-
- o scale_font String describing the font to use for the scale labels
-
- o scale_fontsize Int describing the size of the scale label font
-
- o scale_fontangle Int describing the angle at which to draw the scale
- labels (linear only)
-
- o scale_ticks Boolean, 1 if ticks should be drawn at all on the
- scale
-
- o scale_largeticks Float (0->1) describing the height of large
- scale ticks relative to the track height.
-
- o scale_smallticks Float (0->1) describing the height of large
- scale ticks relative to the track height.
-
- o scale_largetick_interval Int, describing the number of bases that
- should separate large ticks
-
- o scale_smalltick_interval Int, describing the number of bases that
- should separate small ticks
-
- o scale_largetick_labels Boolean describing whether position labels
- should be written over large ticks
-
- o scale_smalltick_labels Boolean describing whether position labels
- should be written over small ticks
-
- o name String to help identify the track
-
- o height Relative height to draw the track
-
- o axis_labels Boolean describing whether the value labels should
- be placed on the Y axes
"""
# Let the UK spelling (colour) override the USA spelling (color)
if greytrack_font_colour is not None:
@@ -261,22 +183,17 @@ class Track(object):
self.axis_labels = axis_labels
def add_set(self, set):
- """ add_set(self, set)
-
- o set A FeatureSet or GraphSet object
-
- Add a preexisting FeatureSet or GraphSet object to the track
- """
+ """Add a preexisting FeatureSet or GraphSet object to the track."""
set.id = self._next_id # Assign unique id to set
set.parent = self # Make set's parent this track
self._sets[self._next_id] = set # Add set, keyed by unique id
self._next_id += 1 # Increment unique set ids
def new_set(self, type='feature', **args):
- """ new_set(self, type='feature') -> FeatureSet or GraphSet
+ """Create a new FeatureSet or GraphSet object.
- Create a new FeatureSet or GraphSet object, add it to the
- track, and return for user manipulation
+ Create a new FeatureSet or GraphSet object, add it to the
+ track, and return for user manipulation
"""
type_dict = {'feature': FeatureSet,
'graph': GraphSet
@@ -291,33 +208,19 @@ class Track(object):
return set
def del_set(self, set_id):
- """ del_set(self, set_id)
-
- o set_id The unique id for the set in this track
-
- Remove the set with the passed id from the track
- """
+ """Remove the set with the passed id from the track."""
del self._sets[set_id]
def get_sets(self):
- """ get_sets(self) -> FeatureSet or GraphSet
-
- Return the sets contained in this track
- """
+ """Return the sets contained in this track."""
return list(self._sets.values())
def get_ids(self):
- """ get_ids(self) -> [int, int, ...]
-
- Return the ids of all sets contained in this track
- """
+ """Return the ids of all sets contained in this track."""
return list(self._sets.keys())
def range(self):
- """ range(self) -> (int, int)
-
- Returns the lowest and highest base (or mark) numbers as a tuple
- """
+ """Return the lowest and highest base (or mark) numbers as a tuple."""
lows, highs = [], [] # Holds set of low and high values from sets
if self.start is not None:
lows.append(self.start)
@@ -338,12 +241,12 @@ class Track(object):
return low, high # Return lowest and highest values
def to_string(self, verbose=0):
- """ to_string(self, verbose=0) -> ""
+ """Return a formatted string with information about the track.
- o verbose Boolean indicating whether a short or complete
- account of the track is required
+ Arguments:
+ - verbose - Boolean indicating whether a short or complete
+ account of the track is required
- Returns a formatted string with information about the track
"""
if not verbose: # Return the short description
return "%s" % self # Use __str__ method instead
@@ -355,19 +258,11 @@ class Track(object):
return "\n".join(outstr)
def __getitem__(self, key):
- """ __getitem__(self, key) -> int
-
- o key The id of a set in the track
-
- Return the set with the passed id
- """
+ """Return the set with the passed id."""
return self._sets[key]
def __str__(self):
- """ __str__(self) -> ""
-
- Returns a formatted string with information about the Track
- """
+ """Return a formatted string with information about the Track."""
outstr = ["\n<%s: %s>" % (self.__class__, self.name)]
outstr.append("%d sets" % len(self._sets))
return "\n".join(outstr)
diff --git a/Bio/Graphics/KGML_vis.py b/Bio/Graphics/KGML_vis.py
index 0219a7a..84bedc0 100644
--- a/Bio/Graphics/KGML_vis.py
+++ b/Bio/Graphics/KGML_vis.py
@@ -1,4 +1,4 @@
-""" This module provides classes and functions to visualise a KGML Pathway Map
+"""Classes and functions to visualise a KGML Pathway Map.
The KGML definition is as of release KGML v0.7.1
(http://www.kegg.jp/kegg/xml/docs/)
@@ -13,7 +13,6 @@ import tempfile
from io import BytesIO
from reportlab.lib import colors
-from reportlab.graphics.shapes import *
from reportlab.pdfgen import canvas
from PIL import Image
@@ -24,7 +23,7 @@ from Bio.KEGG.KGML.KGML_pathway import Pathway
def darken(color, factor=0.7):
- """Returns darkened color as a ReportLab RGB color.
+ """Return darkened color as a ReportLab RGB color.
Take a passed color and returns a Reportlab color that is darker by the
factor indicated in the parameter.
@@ -36,7 +35,7 @@ def darken(color, factor=0.7):
def color_to_reportlab(color):
- """Returns the passed color in Reportlab Color format.
+ """Return the passed color in Reportlab Color format.
We allow colors to be specified as hex values, tuples, or Reportlab Color
objects, and with or without an alpha channel. This function acts as a
@@ -64,7 +63,7 @@ def color_to_reportlab(color):
def get_temp_imagefilename(url):
- """Returns filename of temporary file containing downloaded image.
+ """Return filename of temporary file containing downloaded image.
Create a new temporary file to hold the image file at the passed URL
and return the filename.
@@ -88,6 +87,7 @@ class KGMLCanvas(object):
fontsize=6, draw_relations=True, show_orthologs=True,
show_compounds=True, show_genes=True,
show_reaction_entries=True, margins=(0.02, 0.02)):
+ """Initialize."""
self.pathway = pathway
self.show_maps = show_maps
self.show_orthologs = show_orthologs
@@ -163,7 +163,7 @@ class KGMLCanvas(object):
self.drawing.save()
def __add_maps(self):
- """Adds maps to the drawing of the map.
+ """Add maps to the drawing of the map (PRIVATE).
We do this first, as they're regional labels to be overlaid by
information. Also, we want to set the color to something subtle.
@@ -181,7 +181,7 @@ class KGMLCanvas(object):
self.__add_labels(g)
def __add_graphics(self, graphics):
- """Adds the passed graphics object to the map.
+ """Add the passed graphics object to the map (PRIVATE).
Add text, add after the graphics object, for sane Z-ordering.
"""
@@ -218,7 +218,7 @@ class KGMLCanvas(object):
stroke=1, fill=1)
def __add_labels(self, graphics):
- """Adds labels for the passed graphics objects to the map (PRIVATE).
+ """Add labels for the passed graphics objects to the map (PRIVATE).
We don't check that the labels fit inside objects such as circles/
rectangles/roundrectangles.
@@ -253,7 +253,7 @@ class KGMLCanvas(object):
self.drawing.setFont(self.fontname, self.fontsize)
def __add_orthologs(self):
- """Adds 'ortholog' Entry elements to the drawing of the map (PRIVATE).
+ """Add 'ortholog' Entry elements to the drawing of the map (PRIVATE).
In KGML, these are typically line objects, so we render them
before the compound circles to cover the unsightly ends/junctions.
@@ -270,7 +270,7 @@ class KGMLCanvas(object):
self.__add_labels(g)
def __add_reaction_entries(self):
- """Adds Entry elements for Reactions to the map drawing (PRIVATE).
+ """Add Entry elements for Reactions to the map drawing (PRIVATE).
In KGML, these are typically line objects, so we render them
before the compound circles to cover the unsightly ends/junctions
@@ -287,7 +287,7 @@ class KGMLCanvas(object):
self.__add_labels(g)
def __add_compounds(self):
- """Adds compound elements to the drawing of the map (PRIVATE)."""
+ """Add compound elements to the drawing of the map (PRIVATE)."""
for compound in self.pathway.compounds:
for g in compound.graphics:
# Modify transparency of compounds that don't participate
@@ -307,7 +307,7 @@ class KGMLCanvas(object):
self.__add_labels(g)
def __add_genes(self):
- """Adds gene elements to the drawing of the map (PRIVATE)."""
+ """Add gene elements to the drawing of the map (PRIVATE)."""
for gene in self.pathway.genes:
for g in gene.graphics:
self.drawing.setStrokeColor(color_to_reportlab(g.fgcolor))
@@ -318,7 +318,7 @@ class KGMLCanvas(object):
self.__add_labels(g)
def __add_relations(self):
- """Adds relations to the map (PRIVATE).
+ """Add relations to the map (PRIVATE).
This is tricky. There is no defined graphic in KGML for a
relation, and the corresponding entries are typically defined
diff --git a/Bio/Graphics/__init__.py b/Bio/Graphics/__init__.py
index 6c2764a..d216a9e 100644
--- a/Bio/Graphics/__init__.py
+++ b/Bio/Graphics/__init__.py
@@ -24,7 +24,7 @@ except ImportError:
def _write(drawing, output_file, format, dpi=72):
- """Helper function to standardize output to files (PRIVATE).
+ """Standardize output to files (PRIVATE).
Writes the provided drawing out to a file in a prescribed format.
diff --git a/Bio/HMM/DynamicProgramming.py b/Bio/HMM/DynamicProgramming.py
index a16c743..94d8fbe 100644
--- a/Bio/HMM/DynamicProgramming.py
+++ b/Bio/HMM/DynamicProgramming.py
@@ -24,27 +24,26 @@ class AbstractDPAlgorithms(object):
Derived class of this must implement:
- o _forward_recursion -- Calculate the forward values in the recursion
- using some kind of technique for preventing underflow errors.
+ - _forward_recursion -- Calculate the forward values in the recursion
+ using some kind of technique for preventing underflow errors.
+ - _backward_recursion -- Calculate the backward values in the recursion
+ step using some technique to prevent underflow errors.
- o _backward_recursion -- Calculate the backward values in the recursion
- step using some technique to prevent underflow errors.
"""
+
def __init__(self, markov_model, sequence):
"""Initialize to calculate forward and backward probabilities.
Arguments:
+ - markov_model -- The current Markov model we are working with.
+ - sequence -- A training sequence containing a set of emissions.
- o markov_model -- The current Markov model we are working with.
-
- o sequence -- A training sequence containing a set of emissions.
"""
self._mm = markov_model
self._seq = sequence
def _forward_recursion(self, cur_state, sequence_pos, forward_vars):
- """Calculate the forward recursion value.
- """
+ """Calculate the forward recursion value."""
raise NotImplementedError("Subclasses must implement")
def forward_algorithm(self):
@@ -54,12 +53,11 @@ class AbstractDPAlgorithms(object):
Durbin et al.
Returns:
+ - A dictionary containing the forward variables. This has keys of the
+ form (state letter, position in the training sequence), and values
+ containing the calculated forward variable.
+ - The calculated probability of the sequence.
- o A dictionary containing the forward variables. This has keys of the
- form (state letter, position in the training sequence), and values
- containing the calculated forward variable.
-
- o The calculated probability of the sequence.
"""
# all of the different letters that the state path can be in
state_letters = self._seq.states.alphabet.letters
@@ -108,8 +106,7 @@ class AbstractDPAlgorithms(object):
return forward_var, seq_prob
def _backward_recursion(self, cur_state, sequence_pos, forward_vars):
- """Calculate the backward recursion value.
- """
+ """Calculate the backward recursion value."""
raise NotImplementedError("Subclasses must implement")
def backward_algorithm(self):
@@ -119,10 +116,10 @@ class AbstractDPAlgorithms(object):
Durbin et al.
Returns:
+ - A dictionary containing the backwards variables. This has keys
+ of the form (state letter, position in the training sequence),
+ and values containing the calculated backward variable.
- o A dictionary containing the backwards variables. This has keys
- of the form (state letter, position in the training sequence),
- and values containing the calculated backward variable.
"""
# all of the different letters that the state path can be in
state_letters = self._seq.states.alphabet.letters
@@ -174,14 +171,15 @@ class ScaledDPAlgorithms(AbstractDPAlgorithms):
but may still give underflow errors for some types of models. In these
cases, the LogDPAlgorithms class should be used.
"""
+
def __init__(self, markov_model, sequence):
"""Initialize the scaled approach to calculating probabilities.
- Arguments:
- o markov_model -- The current Markov model we are working with.
+ Arguments:
+ - markov_model -- The current Markov model we are working with.
+ - sequence -- A TrainingSequence object that must have a
+ set of emissions to work with.
- o sequence -- A TrainingSequence object that must have a
- set of emissions to work with.
"""
AbstractDPAlgorithms.__init__(self, markov_model, sequence)
@@ -194,15 +192,13 @@ class ScaledDPAlgorithms(AbstractDPAlgorithms):
sum of all of the scaled f values is equal to 1.
Arguments:
-
- o seq_pos -- The current position we are at in the sequence.
-
- o previous_vars -- All of the forward or backward variables
- calculated so far.
+ - seq_pos -- The current position we are at in the sequence.
+ - previous_vars -- All of the forward or backward variables
+ calculated so far.
Returns:
+ - The calculated scaling variable for the sequence item.
- o The calculated scaling variable for the sequence item.
"""
# all of the different letters the state can have
state_letters = self._seq.states.alphabet.letters
@@ -233,13 +229,11 @@ class ScaledDPAlgorithms(AbstractDPAlgorithms):
"""Calculate the value of the forward recursion.
Arguments:
+ - cur_state -- The letter of the state we are calculating the
+ forward variable for.
+ - sequence_pos -- The position we are at in the training seq.
+ - forward_vars -- The current set of forward variables
- o cur_state -- The letter of the state we are calculating the
- forward variable for.
-
- o sequence_pos -- The position we are at in the training seq.
-
- o forward_vars -- The current set of forward variables
"""
# calculate the s value, if we haven't done so already (ie. during
# a previous forward or backward recursion)
@@ -277,16 +271,14 @@ class ScaledDPAlgorithms(AbstractDPAlgorithms):
return None
def _backward_recursion(self, cur_state, sequence_pos, backward_vars):
- """Calculate the value of the backward recursion
+ """Calculate the value of the backward recursion.
Arguments:
+ - cur_state -- The letter of the state we are calculating the
+ forward variable for.
+ - sequence_pos -- The position we are at in the training seq.
+ - backward_vars -- The current set of backward variables
- o cur_state -- The letter of the state we are calculating the
- forward variable for.
-
- o sequence_pos -- The position we are at in the training seq.
-
- o backward_vars -- The current set of backward variables
"""
# calculate the s value, if we haven't done so already (ie. during
# a previous forward or backward recursion)
@@ -331,5 +323,7 @@ class LogDPAlgorithms(AbstractDPAlgorithms):
XXX This is not implemented yet!
"""
+
def __init__(self, markov_model, sequence):
+ """Initialize."""
raise NotImplementedError("Haven't coded this yet...")
diff --git a/Bio/HMM/MarkovModel.py b/Bio/HMM/MarkovModel.py
index 6cfa287..c0f28c1 100644
--- a/Bio/HMM/MarkovModel.py
+++ b/Bio/HMM/MarkovModel.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Deal with representations of Markov Models.
-"""
+"""Deal with representations of Markov Models."""
# standard modules
import copy
import math
@@ -19,8 +18,7 @@ from Bio.Seq import MutableSeq
def _gen_random_array(n):
- """ Return an array of n random numbers, where the elements of the array sum
- to 1.0"""
+ """Return an array of n random numbers summing to 1.0 (PRIVATE)."""
randArray = [random.random() for i in range(n)]
total = sum(randArray)
normalizedRandArray = [x / total for x in randArray]
@@ -29,8 +27,7 @@ def _gen_random_array(n):
def _calculate_emissions(emission_probs):
- """Calculate which symbols can be emitted in each state
- """
+ """Calculate which symbols can be emitted in each state."""
# loop over all of the state-symbol duples, mapping states to
# lists of emitted symbols
emissions = dict()
@@ -44,7 +41,7 @@ def _calculate_emissions(emission_probs):
def _calculate_from_transitions(trans_probs):
- """Calculate which 'from transitions' are allowed for each state
+ """Calculate which 'from transitions' are allowed for each state.
This looks through all of the trans_probs, and uses this dictionary
to determine allowed transitions. It converts this information into
@@ -63,7 +60,7 @@ def _calculate_from_transitions(trans_probs):
def _calculate_to_transitions(trans_probs):
- """Calculate which 'to transitions' are allowed for each state
+ """Calculate which 'to transitions' are allowed for each state.
This looks through all of the trans_probs, and uses this dictionary
to determine allowed transitions. It converts this information into
@@ -91,6 +88,7 @@ class MarkovModelBuilder(object):
So, this builder class should be used to create Markov models instead
of trying to initiate a Markov Model directly.
"""
+
# the default pseudo counts to use
DEFAULT_PSEUDO = 1
@@ -98,12 +96,11 @@ class MarkovModelBuilder(object):
"""Initialize a builder to create Markov Models.
Arguments:
+ - state_alphabet -- An alphabet containing all of the letters that
+ can appear in the states
+ - emission_alphabet -- An alphabet containing all of the letters for
+ states that can be emitted by the HMM.
- o state_alphabet -- An alphabet containing all of the letters that
- can appear in the states
-
- o emission_alphabet -- An alphabet containing all of the letters for
- states that can be emitted by the HMM.
"""
self._state_alphabet = state_alphabet
self._emission_alphabet = emission_alphabet
@@ -159,7 +156,6 @@ class MarkovModelBuilder(object):
Each markov model returned by a call to this function is unique
(ie. they don't influence each other).
"""
-
# user must set initial probabilities
if not self.initial_prob:
raise Exception("set_initial_probabilities must be called to " +
@@ -233,7 +229,6 @@ class MarkovModelBuilder(object):
emissions to total up to 1, so it doesn't ensure that the sum of
each set of transitions adds up to 1.
"""
-
# set initial state probabilities
new_initial_prob = float(1) / float(len(self.transition_prob))
for state in self._state_alphabet.letters:
@@ -251,6 +246,7 @@ class MarkovModelBuilder(object):
def set_random_initial_probabilities(self):
"""Set all initial state probabilities to a randomly generated distribution.
+
Returns the dictionary containing the initial probabilities.
"""
initial_freqs = _gen_random_array(len(self._state_alphabet.letters))
@@ -261,9 +257,9 @@ class MarkovModelBuilder(object):
def set_random_transition_probabilities(self):
"""Set all allowed transition probabilities to a randomly generated distribution.
+
Returns the dictionary containing the transition probabilities.
"""
-
if not self.transition_prob:
raise Exception("No transitions have been allowed yet. " +
"Allow some or all transitions by calling " +
@@ -278,11 +274,10 @@ class MarkovModelBuilder(object):
return self.transition_prob
def set_random_emission_probabilities(self):
- """Set all allowed emission probabilities to a randomly generated
- distribution. Returns the dictionary containing the emission
- probabilities.
- """
+ """Set all allowed emission probabilities to a randomly generated distribution.
+ Returns the dictionary containing the emission probabilities.
+ """
if not self.emission_prob:
raise Exception("No emissions have been allowed yet. " +
"Allow some or all emissions.")
@@ -308,10 +303,11 @@ class MarkovModelBuilder(object):
# --- functions to deal with the transitions in the sequence
def allow_all_transitions(self):
- """A convenience function to create transitions between all states.
+ """Create transitions between all states.
- By default all transitions within the alphabet are disallowed; this
- is a way to change this to allow all possible transitions.
+ By default all transitions within the alphabet are disallowed;
+ this is a convenience function to change this to allow all
+ possible transitions.
"""
# first get all probabilities and pseudo counts set
# to the default values
@@ -344,6 +340,7 @@ class MarkovModelBuilder(object):
Raises:
KeyError -- if the two states already have an allowed transition.
+
"""
# check the sanity of adding these states
for state in [from_state, to_state]:
@@ -371,6 +368,7 @@ class MarkovModelBuilder(object):
Raises:
KeyError if the transition is not currently allowed.
+
"""
try:
del self.transition_prob[(from_state, to_state)]
@@ -384,6 +382,7 @@ class MarkovModelBuilder(object):
Raises:
KeyError if the transition is not allowed.
+
"""
if (from_state, to_state) in self.transition_prob:
self.transition_prob[(from_state, to_state)] = probability
@@ -402,6 +401,7 @@ class MarkovModelBuilder(object):
Raises:
KeyError if the transition is not allowed.
+
"""
if (from_state, to_state) in self.transition_pseudo:
self.transition_pseudo[(from_state, to_state)] = count
@@ -416,6 +416,7 @@ class MarkovModelBuilder(object):
Raises:
KeyError if the emission from the given state is not allowed.
+
"""
if (seq_state, emission_state) in self.emission_prob:
self.emission_prob[(seq_state, emission_state)] = probability
@@ -434,6 +435,7 @@ class MarkovModelBuilder(object):
Raises:
KeyError if the emission from the given state is not allowed.
+
"""
if (seq_state, emission_state) in self.emission_pseudo:
self.emission_pseudo[(seq_state, emission_state)] = count
@@ -443,8 +445,8 @@ class MarkovModelBuilder(object):
class HiddenMarkovModel(object):
- """Represent a hidden markov model that can be used for state estimation.
- """
+ """Represent a hidden markov model that can be used for state estimation."""
+
def __init__(self, initial_prob, transition_prob, emission_prob,
transition_pseudo, emission_pseudo):
"""Initialize a Markov Model.
@@ -453,22 +455,17 @@ class HiddenMarkovModel(object):
initiating this class directly.
Arguments:
+ - initial_prob - A dictionary of initial probabilities for all states.
+ - transition_prob -- A dictionary of transition probabilities for all
+ possible transitions in the sequence.
+ - emission_prob -- A dictionary of emission probabilities for all
+ possible emissions from the sequence states.
+ - transition_pseudo -- Pseudo-counts to be used for the transitions,
+ when counting for purposes of estimating transition probabilities.
+ - emission_pseudo -- Pseudo-counts to be used for the emissions,
+ when counting for purposes of estimating emission probabilities.
- o initial_prob - A dictionary of initial probabilities for all states.
-
- o transition_prob -- A dictionary of transition probabilities for all
- possible transitions in the sequence.
-
- o emission_prob -- A dictionary of emission probabilities for all
- possible emissions from the sequence states.
-
- o transition_pseudo -- Pseudo-counts to be used for the transitions,
- when counting for purposes of estimating transition probabilities.
-
- o emission_pseudo -- Pseudo-counts to be used for the emissions,
- when counting for purposes of estimating emission probabilities.
"""
-
self.initial_prob = initial_prob
self._transition_pseudo = transition_pseudo
@@ -510,12 +507,12 @@ class HiddenMarkovModel(object):
return self._emission_pseudo
def transitions_from(self, state_letter):
- """Get all destination states to which there are transitions from the
- state_letter source state.
+ """Get all destination states which can transition from source state_letter.
This returns all letters which the given state_letter can transition
- to. An empty list is returned if state_letter has no outgoing
- transitions.
+ to, i.e. all the destination states reachable from state_letter.
+
+ An empty list is returned if state_letter has no outgoing transitions.
"""
if state_letter in self._transitions_from:
return self._transitions_from[state_letter]
@@ -523,11 +520,12 @@ class HiddenMarkovModel(object):
return []
def transitions_to(self, state_letter):
- """Get all source states from which there are transitions to the
- state_letter destination state.
+ """Get all source states which can transition to destination state_letter.
This returns all letters which the given state_letter is reachable
- from. An empty list is returned if state_letter is unreachable.
+ from, i.e. all the source states which can reach state_later
+
+ An empty list is returned if state_letter is unreachable.
"""
if state_letter in self._transitions_to:
return self._transitions_to[state_letter]
@@ -543,14 +541,12 @@ class HiddenMarkovModel(object):
of emissions.
Arguments:
+ - sequence -- A Seq object with the emission sequence that we
+ want to decode.
+ - state_alphabet -- The alphabet of the possible state sequences
+ that can be generated.
- o sequence -- A Seq object with the emission sequence that we
- want to decode.
-
- o state_alphabet -- The alphabet of the possible state sequences
- that can be generated.
"""
-
# calculate logarithms of the initial, transition, and emission probs
log_initial = self._log_transform(self.initial_prob)
log_trans = self._log_transform(self.transition_prob)
diff --git a/Bio/HMM/Trainer.py b/Bio/HMM/Trainer.py
index 696571d..f502f14 100644
--- a/Bio/HMM/Trainer.py
+++ b/Bio/HMM/Trainer.py
@@ -11,11 +11,11 @@ to work from, these classes will estimate parameters of the model.
This aims to estimate two parameters:
- - a_{kl} -- the number of times there is a transition from k to l in the
- training data.
+- a_{kl} -- the number of times there is a transition from k to l in the
+ training data.
+- e_{k}(b) -- the number of emissions of the state b from the letter k
+ in the training data.
- - e_{k}(b) -- the number of emissions of the state b from the letter k
- in the training data.
"""
# standard modules
import math
@@ -25,19 +25,18 @@ from .DynamicProgramming import ScaledDPAlgorithms
class TrainingSequence(object):
- """Hold a training sequence with emissions and optionally, a state path.
- """
+ """Hold a training sequence with emissions and optionally, a state path."""
+
def __init__(self, emissions, state_path):
"""Initialize a training sequence.
Arguments:
+ - emissions - A Seq object containing the sequence of emissions in
+ the training sequence, and the alphabet of the sequence.
+ - state_path - A Seq object containing the sequence of states and
+ the alphabet of the states. If there is no known state path, then
+ the sequence of states should be an empty string.
- o emissions - A Seq object containing the sequence of emissions in
- the training sequence, and the alphabet of the sequence.
-
- o state_path - A Seq object containing the sequence of states and
- the alphabet of the states. If there is no known state path, then
- the sequence of states should be an empty string.
"""
if len(state_path) > 0:
assert len(emissions) == len(state_path), \
@@ -47,19 +46,20 @@ class TrainingSequence(object):
class AbstractTrainer(object):
- """Provide generic functionality needed in all trainers.
- """
+ """Provide generic functionality needed in all trainers."""
+
def __init__(self, markov_model):
+ """Initialize."""
self._markov_model = markov_model
def log_likelihood(self, probabilities):
"""Calculate the log likelihood of the training seqs.
Arguments:
+ - probabilities -- A list of the probabilities of each training
+ sequence under the current parameters, calculated using the
+ forward algorithm.
- o probabilities -- A list of the probabilities of each training
- sequence under the current parameters, calculated using the forward
- algorithm.
"""
total_likelihood = 0
for probability in probabilities:
@@ -71,23 +71,22 @@ class AbstractTrainer(object):
"""Get a maximum likelihood estimation of transition and emmission.
Arguments:
-
- o transition_counts -- A dictionary with the total number of counts
- of transitions between two states.
-
- o emissions_counts -- A dictionary with the total number of counts
- of emmissions of a particular emission letter by a state letter.
+ - transition_counts -- A dictionary with the total number of counts
+ of transitions between two states.
+ - emissions_counts -- A dictionary with the total number of counts
+ of emmissions of a particular emission letter by a state letter.
This then returns the maximum likelihood estimators for the
transitions and emissions, estimated by formulas 3.18 in
- Durbin et al:
+ Durbin et al::
- a_{kl} = A_{kl} / sum(A_{kl'})
- e_{k}(b) = E_{k}(b) / sum(E_{k}(b'))
+ a_{kl} = A_{kl} / sum(A_{kl'})
+ e_{k}(b) = E_{k}(b) / sum(E_{k}(b'))
Returns:
Transition and emission dictionaries containing the maximum
likelihood estimators.
+
"""
# now calculate the information
ml_transitions = self.ml_estimator(transition_counts)
@@ -102,8 +101,7 @@ class AbstractTrainer(object):
and emissions.
Arguments:
-
- o counts -- A dictionary of the counts for each item.
+ - counts -- A dictionary of the counts for each item.
See estimate_params for a description of the formula used for
calculation.
@@ -161,14 +159,15 @@ class BaumWelchTrainer(AbstractTrainer):
This algorithm is guaranteed to converge to a local maximum, but not
necessarily to the global maxima, so use with care!
"""
+
def __init__(self, markov_model):
"""Initialize the trainer.
Arguments:
+ - markov_model - The model we are going to estimate parameters for.
+ This should have the parameters with some initial estimates, that
+ we can build from.
- o markov_model - The model we are going to estimate parameters for.
- This should have the parameters with some initial estimates, that
- we can build from.
"""
AbstractTrainer.__init__(self, markov_model)
@@ -180,17 +179,15 @@ class BaumWelchTrainer(AbstractTrainer):
is a good place to go for a reference on what is going on.
Arguments:
+ - training_seqs -- A list of TrainingSequence objects to be used
+ for estimating the parameters.
+ - stopping_criteria -- A function, that when passed the change
+ in log likelihood and threshold, will indicate if we should stop
+ the estimation iterations.
+ - dp_method -- A class instance specifying the dynamic programming
+ implementation we should use to calculate the forward and
+ backward variables. By default, we use the scaling method.
- o training_seqs -- A list of TrainingSequence objects to be used
- for estimating the parameters.
-
- o stopping_criteria -- A function, that when passed the change
- in log likelihood and threshold, will indicate if we should stop
- the estimation iterations.
-
- o dp_method -- A class instance specifying the dynamic programming
- implementation we should use to calculate the forward and
- backward variables. By default, we use the scaling method.
"""
prev_log_likelihood = None
num_iterations = 1
@@ -255,19 +252,14 @@ class BaumWelchTrainer(AbstractTrainer):
"""Add the contribution of a new training sequence to the transitions.
Arguments:
-
- o transition_counts -- A dictionary of the current counts for the
- transitions
-
- o training_seq -- The training sequence we are working with
-
- o forward_vars -- Probabilities calculated using the forward
- algorithm.
-
- o backward_vars -- Probabilities calculated using the backwards
- algorithm.
-
- o training_seq_prob - The probability of the current sequence.
+ - transition_counts -- A dictionary of the current counts for the
+ transitions
+ - training_seq -- The training sequence we are working with
+ - forward_vars -- Probabilities calculated using the forward
+ algorithm.
+ - backward_vars -- Probabilities calculated using the backwards
+ algorithm.
+ - training_seq_prob - The probability of the current sequence.
This calculates A_{kl} (the estimated transition counts from state
k to state l) using formula 3.20 in Durbin et al.
@@ -305,22 +297,17 @@ class BaumWelchTrainer(AbstractTrainer):
def update_emissions(self, emission_counts, training_seq,
forward_vars, backward_vars, training_seq_prob):
- """Add the contribution of a new training sequence to the emissions
+ """Add the contribution of a new training sequence to the emissions.
Arguments:
-
- o emission_counts -- A dictionary of the current counts for the
- emissions
-
- o training_seq -- The training sequence we are working with
-
- o forward_vars -- Probabilities calculated using the forward
- algorithm.
-
- o backward_vars -- Probabilities calculated using the backwards
- algorithm.
-
- o training_seq_prob - The probability of the current sequence.
+ - emission_counts -- A dictionary of the current counts for the
+ emissions
+ - training_seq -- The training sequence we are working with
+ - forward_vars -- Probabilities calculated using the forward
+ algorithm.
+ - backward_vars -- Probabilities calculated using the backwards
+ algorithm.
+ - training_seq_prob - The probability of the current sequence.
This calculates E_{k}(b) (the estimated emission probability for
emission letter b from state k) using formula 3.21 in Durbin et al.
@@ -353,7 +340,9 @@ class KnownStateTrainer(AbstractTrainer):
probabilities when both the state path and emission sequence are
known for the training examples.
"""
+
def __init__(self, markov_model):
+ """Initialize."""
AbstractTrainer.__init__(self, markov_model)
def train(self, training_seqs):
@@ -388,11 +377,10 @@ class KnownStateTrainer(AbstractTrainer):
"""Add emissions from the training sequence to the current counts.
Arguments:
+ - training_seq -- A TrainingSequence with states and emissions
+ to get the counts from
+ - emission_counts -- The current emission counts to add to.
- o training_seq -- A TrainingSequence with states and emissions
- to get the counts from
-
- o emission_counts -- The current emission counts to add to.
"""
for index in range(len(training_seq.emissions)):
cur_state = training_seq.states[index]
@@ -409,11 +397,10 @@ class KnownStateTrainer(AbstractTrainer):
"""Add transitions from the training sequence to the current counts.
Arguments:
+ - state_seq -- A Seq object with the states of the current training
+ sequence.
+ - transition_counts -- The current transition counts to add to.
- o state_seq -- A Seq object with the states of the current training
- sequence.
-
- o transition_counts -- The current transition counts to add to.
"""
for cur_pos in range(len(state_seq) - 1):
cur_state = state_seq[cur_pos]
diff --git a/Bio/HMM/Utilities.py b/Bio/HMM/Utilities.py
index f03bda3..2cb9af6 100644
--- a/Bio/HMM/Utilities.py
+++ b/Bio/HMM/Utilities.py
@@ -20,13 +20,11 @@ def pretty_print_prediction(emissions, real_state, predicted_state,
"""Print out a state sequence prediction in a nice manner.
Arguments:
+ - emissions -- The sequence of emissions of the sequence you are
+ dealing with.
+ - real_state -- The actual state path that generated the emissions.
+ - predicted_state -- A state path predicted by some kind of HMM model.
- o emissions -- The sequence of emissions of the sequence you are
- dealing with.
-
- o real_state -- The actual state path that generated the emissions.
-
- o predicted_state -- A state path predicted by some kind of HMM model.
"""
# calculate the length of the titles and sequences
title_length = max(len(emission_title), len(real_title),
diff --git a/Bio/Index.py b/Bio/Index.py
index 3d2b492..8f5296f 100644
--- a/Bio/Index.py
+++ b/Bio/Index.py
@@ -27,9 +27,8 @@ except ImportError:
class _ShelveIndex(dict):
- """An index file wrapped around shelve.
+ """An index file wrapped around shelve."""
- """
# Without a good dbm module installed, this is pretty slow and
# generates large files. When generating an index on a FASTA-
# formatted file with 82000 sequences (37Mb), the
@@ -72,9 +71,8 @@ class _ShelveIndex(dict):
class _InMemoryIndex(dict):
- """This creates an in-memory index file.
+ """Creates an in-memory index file (PRIVATE)."""
- """
# File Format:
# version
# key value
@@ -147,4 +145,5 @@ class _InMemoryIndex(dict):
intlist = array.array('b', intlist)
return pickle.loads(''.join(chr(i) for i in intlist))
+
Index = _InMemoryIndex
diff --git a/Bio/KDTree/KDTree.py b/Bio/KDTree/KDTree.py
index cb83a45..59b8131 100644
--- a/Bio/KDTree/KDTree.py
+++ b/Bio/KDTree/KDTree.py
@@ -149,6 +149,7 @@ class KDTree(object):
- coords: two dimensional NumPy array. E.g. if the points
have dimensionality D and there are N points, the coords
array should be NxD dimensional.
+
"""
if coords.min() <= -1e6 or coords.max() >= 1e6:
raise Exception("Points should lie between -1e6 and 1e6")
@@ -166,6 +167,7 @@ class KDTree(object):
- center: one dimensional NumPy array. E.g. if the points have
dimensionality D, the center array should be D dimensional.
- radius: float>0
+
"""
if not self.built:
raise Exception("No point set specified")
@@ -208,6 +210,7 @@ class KDTree(object):
Arguments:
- radius: float (>0)
+
"""
if not self.built:
raise Exception("No point set specified")
@@ -232,6 +235,7 @@ class KDTree(object):
"""
return [neighbor.radius for neighbor in self.neighbors]
+
if __name__ == "__main__":
nr_points = 100000
diff --git a/Bio/KEGG/Compound/__init__.py b/Bio/KEGG/Compound/__init__.py
index 16f2972..f56157d 100644
--- a/Bio/KEGG/Compound/__init__.py
+++ b/Bio/KEGG/Compound/__init__.py
@@ -42,6 +42,7 @@ class Record(object):
dblinks A list of 2-tuples: (database, list of link ids)
"""
+
def __init__(self):
"""__init___(self)
diff --git a/Bio/KEGG/Enzyme/__init__.py b/Bio/KEGG/Enzyme/__init__.py
index ff6d3ad..61222e0 100644
--- a/Bio/KEGG/Enzyme/__init__.py
+++ b/Bio/KEGG/Enzyme/__init__.py
@@ -53,6 +53,7 @@ class Record(object):
structures A list of 2-tuples: (database, list of struct ids)
dblinks A list of 2-tuples: (database, list of db ids)
"""
+
def __init__(self):
"""__init___(self)
@@ -260,7 +261,7 @@ def parse(handle):
elif keyword == "EFFECTOR ":
record.effector.append(data.strip(";"))
elif keyword == "GENES ":
- if data[3:5] == ': ':
+ if data[3:5] == ': ' or data[4:6] == ': ':
key, values = data.split(":", 1)
values = [value.split("(")[0] for value in values.split()]
row = (key, values)
@@ -320,7 +321,6 @@ def read(handle):
...
6.2.1.25 benzoate---CoA ligase
"""
-
iterator = parse(handle)
try:
first = next(iterator)
diff --git a/Bio/KEGG/KGML/KGML_parser.py b/Bio/KEGG/KGML/KGML_parser.py
index c15596c..32e6882 100644
--- a/Bio/KEGG/KGML/KGML_parser.py
+++ b/Bio/KEGG/KGML/KGML_parser.py
@@ -3,19 +3,17 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""This module provides classes and functions to parse a KGML pathway map.
+"""Classes and functions to parse a KGML pathway map.
The KGML pathway map is parsed into the object structure defined in
KGML_Pathway.py in this module.
Classes:
-
- - KGMLParser Parses KGML file
+ - KGMLParser - Parses KGML file
Functions:
+ - read - Returns a single Pathway object, using KGMLParser internally
- - read Returns a single Pathway object, using KGMLParser
- internally
"""
from __future__ import print_function
@@ -25,10 +23,10 @@ try:
except ImportError:
import xml.etree.ElementTree as ElementTree
-
from Bio._py3k import StringIO
-from Bio.KEGG.KGML.KGML_pathway import *
+from Bio.KEGG.KGML.KGML_pathway import Component, Entry, Graphics
+from Bio.KEGG.KGML.KGML_pathway import Pathway, Reaction, Relation
def read(handle, debug=0):
@@ -58,8 +56,8 @@ def parse(handle, debug=0):
"""Returns an iterator over Pathway elements.
Arguments:
- - handle - file handle to a KGML file for parsing
- - debug - integer for amount of debug information to print
+ - handle - file handle to a KGML file for parsing
+ - debug - integer for amount of debug information to print
This is a generator for the return of multiple Pathway objects.
"""
@@ -68,8 +66,8 @@ def parse(handle, debug=0):
if isinstance(handle, str):
handle = StringIO(handle)
else:
- exc_txt = "An XML-containing handle or an XML string " +\
- "must be provided"
+ exc_txt = "An XML-containing handle or an XML string " + \
+ "must be provided"
raise Exception(exc_txt)
# Parse XML and return each Pathway
for event, elem in \
@@ -80,14 +78,38 @@ def parse(handle, debug=0):
class KGMLParser(object):
- """Parses a KGML XML Pathway entry into a Pathway object."""
+ """Parses a KGML XML Pathway entry into a Pathway object.
+
+ Example: Read and parse large metabolism file
+
+ >>> from Bio.KEGG.KGML.KGML_parser import read
+ >>> pathway = read(open('KEGG/ko01100.xml', 'r'))
+ >>> print(len(pathway.entries))
+ 3628
+ >>> print(len(pathway.reactions))
+ 1672
+ >>> print(len(pathway.maps))
+ 149
+
+ >>> pathway = read(open('KEGG/ko00010.xml', 'r'))
+ >>> print(pathway) #doctest: +NORMALIZE_WHITESPACE
+ Pathway: Glycolysis / Gluconeogenesis
+ KEGG ID: path:ko00010
+ Image file: http://www.kegg.jp/kegg/pathway/ko/ko00010.png
+ Organism: ko
+ Entries: 99
+ Entry types:
+ ortholog: 61
+ compound: 31
+ map: 7
+
+ """
def __init__(self, elem):
self.entry = elem
def parse(self):
"""Parse the input elements."""
-
def _parse_pathway(attrib):
for k, v in attrib.items():
self.pathway.__setattr__(k, v)
@@ -140,7 +162,7 @@ class KGMLParser(object):
self.pathway.add_relation(new_relation)
# ==========
- # Initialise Pathway
+ # Initialize Pathway
self.pathway = Pathway()
# Get information about the pathway itself
_parse_pathway(self.entry.attrib)
@@ -161,36 +183,7 @@ class KGMLParser(object):
return self.pathway
-if __name__ == '__main__':
- # Check large metabolism
- pathway = read(open('ko01100.xml', 'rU'))
- print(pathway)
- for k, v in list(pathway.entries.items())[:20]:
- print(v)
- for r in list(pathway.reactions)[:20]:
- print(r)
- print(len(pathway.maps))
-
- # Check relations
- pathway = read(open('ko_metabolic/ko00010.xml', 'rU'))
- print(pathway)
- for k, v in list(pathway.entries.items())[:20]:
- print(v)
- for r in list(pathway.reactions[:20]):
- print(r)
- for r in list(pathway.relations[:20]):
- print(r)
- print(len(pathway.maps))
-
- # Check components
- pathway = read(open('ko_metabolic/ko00253.xml', 'rU'))
- print(pathway)
- for k, v in pathway.entries.items():
- print(v)
- print(len(pathway.maps))
-
- # Test XML representation
- print(pathway.get_KGML())
-
- # Test bounds of pathway
- print(pathway.bounds)
+if __name__ == "__main__":
+ from Bio._utils import run_doctest
+
+ run_doctest(verbose=0)
diff --git a/Bio/KEGG/KGML/KGML_pathway.py b/Bio/KEGG/KGML/KGML_pathway.py
index ccdc439..413dd0a 100644
--- a/Bio/KEGG/KGML/KGML_pathway.py
+++ b/Bio/KEGG/KGML/KGML_pathway.py
@@ -3,22 +3,21 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""This module provides classes to represent a KGML Pathway Map.
+"""Classes to represent a KGML Pathway Map.
The KGML definition is as of release KGML v0.7.1
(http://www.kegg.jp/kegg/xml/docs/)
Classes:
+ - Pathway - Specifies graph information for the pathway map
+ - Relation - Specifies a relationship between two proteins or KOs,
+ or protein and compound. There is an implied direction to the
+ relationship in some cases.
+ - Reaction - A specific chemical reaction between a substrate and
+ a product.
+ - Entry - A node in the pathway graph
+ - Graphics - Entry subelement describing its visual representation
- - Pathway Specifies graph information for the pathway map
- - Relation Specifies a relationship between two proteins or
- KOs, or protein and compound. There is an implied
- direction to the relationship in some cases.
- - Reaction A specific chemical reaction between a substrate
- and a product.
- - Entry A node in the pathway graph
- - Graphics Entry subelement describing its visual
- representation
"""
import time
@@ -37,14 +36,14 @@ class Pathway(object):
release KGML v0.7.1 (http://www.kegg.jp/kegg/xml/docs/)
Attributes:
- name KEGGID of the pathway map
- org ko/ec/[org prefix]
- number map number (integer)
- title the map title
- image URL of the image map for the pathway
- link URL of information about the pathway
- entries Dictionary of entries in the pathway, keyed by node ID
- reactions Set of reactions in the pathway
+ - name - KEGGID of the pathway map
+ - org - ko/ec/[org prefix]
+ - number - map number (integer)
+ - title - the map title
+ - image - URL of the image map for the pathway
+ - link - URL of information about the pathway
+ - entries - Dictionary of entries in the pathway, keyed by node ID
+ - reactions - Set of reactions in the pathway
The name attribute has a restricted format, so we make it a property and
enforce the formatting.
@@ -60,7 +59,9 @@ class Pathway(object):
Reactions are held in a dictionary, keyed by node ID for the path.
The elements referred to in the reaction must be added before the
reaction itself.
+
"""
+
def __init__(self):
self._name = ''
self.org = ''
@@ -200,9 +201,7 @@ class Pathway(object):
@property
def reaction_entries(self):
- """Get a list of entries corresponding to each reaction
- in the pathway.
- """
+ """List of entries corresponding to each reaction in the pathway."""
return [self.entries[i] for i in self._reactions]
@property
@@ -255,20 +254,22 @@ class Entry(object):
release KGML v0.7.1 (http://www.kegg.jp/kegg/xml/docs/)
Attributes:
- - id The ID of the entry in the pathway map (integer)
- - names List of KEGG IDs for the entry
- - type The type of the entry
- - link URL of information about the entry
- - reaction List of KEGG IDs of the corresponding reactions
- (integer)
- - graphics List of Graphics objects describing the Entry's visual
- representation
- - components List of component node ID for this Entry ('group')
- - alt List of alternate names for the Entry
+ - id - The ID of the entry in the pathway map (integer)
+ - names - List of KEGG IDs for the entry
+ - type - The type of the entry
+ - link - URL of information about the entry
+ - reaction - List of KEGG IDs of the corresponding reactions
+ (integer)
+ - graphics - List of Graphics objects describing the Entry's visual
+ representation
+ - components - List of component node ID for this Entry ('group')
+ - alt - List of alternate names for the Entry
NOTE: The alt attribute represents a subelement of the substrate and
product elements in the KGML file
+
"""
+
def __init__(self):
self._id = None
self._names = []
@@ -409,6 +410,7 @@ class Component(object):
The Component acts as a collection (with type 'group', and typically
its own Graphics subelement), having only an ID.
"""
+
def __init__(self, parent):
self._id = None
self._parent = parent
@@ -443,22 +445,24 @@ class Graphics(object):
described in release KGML v0.7.1 (http://www.kegg.jp/kegg/xml/docs/)
Attributes:
- name Label for the graphics object
- x X-axis position of the object (int)
- y Y-axis position of the object (int)
- coords polyline co-ordinates, list of (int, int) tuples
- type object shape
- width object width (int)
- height object height (int)
- fgcolor object foreground color (hex RGB)
- bgcolor object background color (hex RGB)
+ - name Label for the graphics object
+ - x X-axis position of the object (int)
+ - y Y-axis position of the object (int)
+ - coords polyline co-ordinates, list of (int, int) tuples
+ - type object shape
+ - width object width (int)
+ - height object height (int)
+ - fgcolor object foreground color (hex RGB)
+ - bgcolor object background color (hex RGB)
Some attributes are present only for specific graphics types. For
example, line types do not (typically) have a width.
We permit non-DTD attributes and attribute settings, such as
dash List of ints, describing an on/off pattern for dashes
+
"""
+
def __init__(self, parent):
self.name = ''
self._x = None
@@ -617,12 +621,14 @@ class Reaction(object):
substrates and one or more products.
Attributes:
- id Pathway graph node ID of the entry
- names List of KEGG identifier(s) from the REACTION database
- type String: reversible or irreversible
- substrate Entry object of the substrate
- product Entry object of the product
+ - id Pathway graph node ID of the entry
+ - names List of KEGG identifier(s) from the REACTION database
+ - type String: reversible or irreversible
+ - substrate Entry object of the substrate
+ - product Entry object of the product
+
"""
+
def __init__(self):
self._id = None
self._names = []
@@ -707,11 +713,6 @@ class Reaction(object):
return self._products.union(self._substrates)
@property
- def entry(self):
- """Return the Entry corresponding to this reaction."""
- return self._pathway.entries[self._id]
-
- @property
def element(self):
"""Return KGML element describing the Reaction."""
# The root is this Relation element
@@ -741,15 +742,16 @@ class Relation(object):
(http://www.kegg.jp/kegg/xml/docs/)
Attributes:
+ - entry1 - The first Entry object node ID defining the
+ relation (int)
+ - entry2 - The second Entry object node ID defining the
+ relation (int)
+ - type - The relation type
+ - subtypes - List of subtypes for the relation, as a list of
+ (name, value) tuples
- - entry1 The first Entry object node ID defining the
- relation (int)
- - entry2 The second Entry object node ID defining the
- relation (int)
- - type The relation type
- - subtypes List of subtypes for the relation, as a list of
- (name, value) tuples
"""
+
def __init__(self):
self._entry1 = None
self._entry2 = None
diff --git a/Bio/KEGG/KGML/__init__.py b/Bio/KEGG/KGML/__init__.py
index c687a1c..b4a7bc3 100644
--- a/Bio/KEGG/KGML/__init__.py
+++ b/Bio/KEGG/KGML/__init__.py
@@ -3,13 +3,12 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module provides code to work with data from the KEGG database.
+"""Code to work with data from the KEGG database.
References:
-
Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes.
Nucleic Acids Res. 28, 29-34 (2000).
URL: http://www.genome.ad.jp/kegg/
+
"""
diff --git a/Bio/KEGG/Map/__init__.py b/Bio/KEGG/Map/__init__.py
index fdcbed6..23c0f6a 100644
--- a/Bio/KEGG/Map/__init__.py
+++ b/Bio/KEGG/Map/__init__.py
@@ -4,15 +4,13 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module provides code to import KEGG Pathway maps for use with
-the Biopython Pathway module.
+"""Load KEGG Pathway maps for use with the Biopython Pathway module.
-The pathway maps are in the format:
+The pathway maps are in the format::
-RXXXXX:[X.X.X.X:] A + 2 B <=> C
-RXXXXX:[X.X.X.X:] 3C <=> 2 D + E
-...
+ RXXXXX:[X.X.X.X:] A + 2 B <=> C
+ RXXXXX:[X.X.X.X:] 3C <=> 2 D + E
+ ...
where RXXXXX is a five-digit reaction id, and X.X.X.X is the optional
EC number of the enzyme that catalyze the reaction.
diff --git a/Bio/KEGG/REST.py b/Bio/KEGG/REST.py
index df5ce2b..b183dd4 100644
--- a/Bio/KEGG/REST.py
+++ b/Bio/KEGG/REST.py
@@ -22,9 +22,9 @@ requirements are reasonably clear). To avoid risking overloading the service,
Biopython will only allow three calls per second.
References:
-
Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes.
Nucleic Acids Res. 28, 29-34 (2000).
+
"""
from Bio._py3k import urlopen as _urlopen
diff --git a/Bio/KEGG/__init__.py b/Bio/KEGG/__init__.py
index d413c3a..9472837 100644
--- a/Bio/KEGG/__init__.py
+++ b/Bio/KEGG/__init__.py
@@ -6,11 +6,11 @@
"""Code to work with data from the KEGG database.
References:
-
Kanehisa, M. and Goto, S.; KEGG: Kyoto Encyclopedia of Genes and Genomes.
Nucleic Acids Res. 28, 29-34 (2000).
URL: http://www.genome.ad.jp/kegg/
+
"""
@@ -26,12 +26,12 @@ def _wrap_kegg(line, max_width=KEGG_DATA_LENGTH, wrap_rule=_default_wrap):
"""Wraps the input line for KEGG output.
Arguments:
+ - info - String holding the information we want wrapped
+ for KEGG output.
+ - max_width - Maximum width of a line.
+ - wrap_rule - A wrap rule (see above) for deciding how to split
+ strings that must be wrapped.
- o info - String holding the information we want wrapped
- for KEGG output.
- o max_width - Maximum width of a line.
- o wrap_rule - A wrap rule (see above) for deciding how to split
- strings that must be wrapped.
"""
s = ""
wrapped_line = ""
@@ -69,10 +69,10 @@ def _write_kegg(item, info, indent=KEGG_ITEM_LENGTH):
"""Write a indented KEGG record item.
Arguments:
+ - item - The name of the item to be written.
+ - info - The (wrapped) information to write.
+ - indent - Width of item field.
- o item - The name of the item to be written.
- o info - The (wrapped) information to write.
- o indent - Width of item field.
"""
s = ""
for line in info:
diff --git a/Bio/LogisticRegression.py b/Bio/LogisticRegression.py
index 702ea15..983f50b 100644
--- a/Bio/LogisticRegression.py
+++ b/Bio/LogisticRegression.py
@@ -29,6 +29,7 @@ class LogisticRegression(object):
beta List of the weights for each dimension.
"""
+
def __init__(self):
"""LogisticRegression()"""
self.beta = []
diff --git a/Bio/MarkovModel.py b/Bio/MarkovModel.py
index 163ef8c..e10150c 100644
--- a/Bio/MarkovModel.py
+++ b/Bio/MarkovModel.py
@@ -3,9 +3,9 @@
# as part of this package.
#
-"""
-This is an implementation of a state-emitting MarkovModel. I am using
-terminology similar to Manning and Schutze.
+"""A state-emitting MarkovModel.
+
+Note terminology similar to Manning and Schutze is used.
Functions:
@@ -34,6 +34,7 @@ except AttributeError:
warnings.warn("For optimal speed, please update to Numpy version 1.3 or later (current version is %s)" % numpy.__version__)
def logaddexp(logx, logy):
+ """Implement logaddexp method if Numpy version is older than 1.3."""
if logy - logx > 100:
return logy
elif logx - logy > 100:
@@ -43,6 +44,7 @@ except AttributeError:
def itemindex(values):
+ """Return a dictionary of values with their sequence offset as keys."""
d = {}
entries = enumerate(values[::-1])
n = len(values) - 1
@@ -50,6 +52,7 @@ def itemindex(values):
d[key] = n - index
return d
+
numpy.random.seed()
VERY_SMALL_NUMBER = 1E-300
@@ -57,8 +60,11 @@ LOG0 = numpy.log(VERY_SMALL_NUMBER)
class MarkovModel(object):
+ """Create a state-emitting MarkovModel object."""
+
def __init__(self, states, alphabet,
p_initial=None, p_transition=None, p_emission=None):
+ """Initialize the class."""
self.states = states
self.alphabet = alphabet
self.p_initial = p_initial
@@ -66,6 +72,7 @@ class MarkovModel(object):
self.p_emission = p_emission
def __str__(self):
+ """Create a string representation of the MarkovModel object."""
from Bio._py3k import StringIO
handle = StringIO()
save(self, handle)
@@ -74,6 +81,7 @@ class MarkovModel(object):
def _readline_and_check_start(handle, start):
+ """Read the first line and evaluate that begisn with the correct start (PRIVATE)."""
line = handle.readline()
if not line.startswith(start):
raise ValueError("I expected %r but got %r" % (start, line))
@@ -81,7 +89,7 @@ def _readline_and_check_start(handle, start):
def load(handle):
- """load(handle) -> MarkovModel()"""
+ """Parse a file handle into a MarkovModel object."""
# Load the states.
line = _readline_and_check_start(handle, "STATES:")
states = line.split()[1:]
@@ -118,7 +126,7 @@ def load(handle):
def save(mm, handle):
- """save(mm, handle)"""
+ """Save MarkovModel object into handle."""
# This will fail if there are spaces in the states or alphabet.
w = handle.write
w("STATES: %s\n" % ' '.join(mm.states))
@@ -139,8 +147,7 @@ def train_bw(states, alphabet, training_data,
pseudo_initial=None, pseudo_transition=None, pseudo_emission=None,
update_fn=None,
):
- """train_bw(states, alphabet, training_data[, pseudo_initial]
- [, pseudo_transition][, pseudo_emission][, update_fn]) -> MarkovModel
+ """Train a MarkovModel using the Baum-Welch algorithm.
Train a MarkovModel using the Baum-Welch algorithm. states is a list
of strings that describe the names of each state. alphabet is a
@@ -156,7 +163,6 @@ def train_bw(states, alphabet, training_data,
update_fn is an optional callback that takes parameters
(iteration, log_likelihood). It is called once per iteration.
-
"""
N, M = len(states), len(alphabet)
if not training_data:
@@ -198,6 +204,7 @@ def train_bw(states, alphabet, training_data,
p_initial, p_transition, p_emission = x
return MarkovModel(states, alphabet, p_initial, p_transition, p_emission)
+
MAX_ITERATIONS = 1000
@@ -205,7 +212,7 @@ def _baum_welch(N, M, training_outputs,
p_initial=None, p_transition=None, p_emission=None,
pseudo_initial=None, pseudo_transition=None,
pseudo_emission=None, update_fn=None):
- # Returns (p_initial, p_transition, p_emission)
+ """Implement the Baum-Welch algorithm to evaluate unknown parameters in the MarkovModel object (PRIVATE)."""
if p_initial is None:
p_initial = _random_norm(N)
else:
@@ -265,9 +272,11 @@ def _baum_welch(N, M, training_outputs,
def _baum_welch_one(N, M, outputs,
lp_initial, lp_transition, lp_emission,
lpseudo_initial, lpseudo_transition, lpseudo_emission):
- # Do one iteration of Baum-Welch based on a sequence of output.
- # NOTE: This will change the values of lp_initial, lp_transition,
- # and lp_emission in place.
+ """Execute one step for Baum-Welch algorithm (PRIVATE).
+
+ Do one iteration of Baum-Welch based on a sequence of output.
+ Changes the value for lp_initial, lp_transition and lp_emission in place.
+ """
T = len(outputs)
fmat = _forward(N, T, lp_initial, lp_transition, lp_emission, outputs)
bmat = _backward(N, T, lp_transition, lp_emission, outputs)
@@ -345,10 +354,11 @@ def _baum_welch_one(N, M, outputs,
def _forward(N, T, lp_initial, lp_transition, lp_emission, outputs):
- # Implement the forward algorithm. This actually calculates a
- # Nx(T+1) matrix, where the last column is the total probability
- # of the output.
+ """Implement forward algorithm (PRIVATE).
+ Calculate a Nx(T+1) matrix, where the last column is the total
+ probability of the output.
+ """
matrix = numpy.zeros((N, T + 1))
# Initialize the first column to be the initial values.
@@ -367,6 +377,7 @@ def _forward(N, T, lp_initial, lp_transition, lp_emission, outputs):
def _backward(N, T, lp_transition, lp_emission, outputs):
+ """Implement backward algorithm."""
matrix = numpy.zeros((N, T + 1))
for t in range(T - 1, -1, -1):
k = outputs[t]
@@ -386,8 +397,7 @@ def _backward(N, T, lp_transition, lp_emission, outputs):
def train_visible(states, alphabet, training_data,
pseudo_initial=None, pseudo_transition=None,
pseudo_emission=None):
- """train_visible(states, alphabet, training_data[, pseudo_initial]
- [, pseudo_transition][, pseudo_emission]) -> MarkovModel
+ """Train a visible MarkovModel using maximum likelihoood estimates for each of the parameters.
Train a visible MarkovModel using maximum likelihoood estimates
for each of the parameters. states is a list of strings that
@@ -400,8 +410,7 @@ def train_visible(states, alphabet, training_data,
pseudo_initial, pseudo_transition, and pseudo_emission are
optional parameters that you can use to assign pseudo-counts to
different matrices. They should be matrices of the appropriate
- size that contain numbers to add to each parameter matrix
-
+ size that contain numbers to add to each parameter matrix.
"""
N, M = len(states), len(alphabet)
if pseudo_initial is not None:
@@ -440,6 +449,7 @@ def train_visible(states, alphabet, training_data,
def _mle(N, M, training_outputs, training_states, pseudo_initial,
pseudo_transition, pseudo_emission):
+ """Implement Maximum likelihood estimation algorithm (PRIVATE)."""
# p_initial is the probability that a sequence of states starts
# off with a particular one.
p_initial = numpy.zeros(N)
@@ -477,11 +487,15 @@ def _mle(N, M, training_outputs, training_states, pseudo_initial,
def _argmaxes(vector, allowance=None):
+ """Return indeces of the maximum values aong the vector (PRIVATE)."""
return [numpy.argmax(vector)]
def find_states(markov_model, output):
- """find_states(markov_model, output) -> list of (states, score)"""
+ """Find states in the given Markov model output.
+
+ Returns a list of (states, score) tuples.
+ """
mm = markov_model
N = len(mm.states)
@@ -504,9 +518,7 @@ def find_states(markov_model, output):
def _viterbi(N, lp_initial, lp_transition, lp_emission, output):
- # The Viterbi algorithm finds the most likely set of states for a
- # given output. Returns a list of states.
-
+ """Implement Viterbi algorithm to find most likely states for a given input (PRIVATE)."""
T = len(output)
# Store the backtrace in a NxT matrix.
backtrace = [] # list of indexes of states in previous timestep.
@@ -549,7 +561,7 @@ def _viterbi(N, lp_initial, lp_transition, lp_emission, output):
def _normalize(matrix):
- # Make sure numbers add up to 1.0
+ """Normalize matrix object (PRIVATE)."""
if len(matrix.shape) == 1:
matrix = matrix / float(sum(matrix))
elif len(matrix.shape) == 2:
@@ -562,16 +574,19 @@ def _normalize(matrix):
def _uniform_norm(shape):
+ """Normalize a uniform matrix (PRIVATE)."""
matrix = numpy.ones(shape)
return _normalize(matrix)
def _random_norm(shape):
+ """Normalize a random matrix (PRIVATE)."""
matrix = numpy.random.random(shape)
return _normalize(matrix)
def _copy_and_check(matrix, desired_shape):
+ """Copy a matrix and check its dimension. Normalize at the end (PRIVATE)."""
# Copy the matrix.
matrix = numpy.array(matrix, copy=1)
# Check the dimensions.
@@ -591,6 +606,7 @@ def _copy_and_check(matrix, desired_shape):
def _logsum(matrix):
+ """Implement logsum for a matrix object (PRIVATE)."""
if len(matrix.shape) > 1:
vec = numpy.reshape(matrix, (numpy.product(matrix.shape),))
else:
@@ -602,6 +618,7 @@ def _logsum(matrix):
def _logvecadd(logvec1, logvec2):
+ """Implement a log sum for two vector objects (PRIVATE)."""
assert len(logvec1) == len(logvec2), "vectors aren't the same length"
sumvec = numpy.zeros(len(logvec1))
for i in range(len(logvec1)):
@@ -610,5 +627,6 @@ def _logvecadd(logvec1, logvec2):
def _exp_logsum(numbers):
+ """Return the exponential of a logsum (PRIVATE)."""
sum = _logsum(numbers)
return numpy.exp(sum)
diff --git a/Bio/MaxEntropy.py b/Bio/MaxEntropy.py
index 4860692..9671f28 100644
--- a/Bio/MaxEntropy.py
+++ b/Bio/MaxEntropy.py
@@ -12,34 +12,81 @@ Uses Improved Iterative Scaling.
from __future__ import print_function
from functools import reduce
-from Bio._py3k import map
-
-import numpy
+try:
+ import numpy
+except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Install NumPy if you want to use Bio.MaxEntropy.")
class MaxEntropy(object):
- """Holds information for a Maximum Entropy classifier.
+ """Hold information for a Maximum Entropy classifier.
Members:
classes List of the possible classes of data.
alphas List of the weights for each feature.
feature_fns List of the feature functions.
+ Car data from example Naive Bayes Classifier example by Eric Meisner November 22, 2003
+ http://www.inf.u-szeged.hu/~ormandi/teaching
+
+ >>> from Bio.MaxEntropy import train, classify
+ >>> xcar = [
+ ... ['Red', 'Sports', 'Domestic'],
+ ... ['Red', 'Sports', 'Domestic'],
+ ... ['Red', 'Sports', 'Domestic'],
+ ... ['Yellow', 'Sports', 'Domestic'],
+ ... ['Yellow', 'Sports', 'Imported'],
+ ... ['Yellow', 'SUV', 'Imported'],
+ ... ['Yellow', 'SUV', 'Imported'],
+ ... ['Yellow', 'SUV', 'Domestic'],
+ ... ['Red', 'SUV', 'Imported'],
+ ... ['Red', 'Sports', 'Imported']]
+ >>> ycar = ['Yes','No','Yes','No','Yes','No','Yes','No','No','Yes']
+
+ Requires some rules or features
+
+ >>> def udf1(ts, cl):
+ ... return ts[0] != 'Red'
+ ...
+ >>> def udf2(ts, cl):
+ ... return ts[1] != 'Sports'
+ ...
+ >>> def udf3(ts, cl):
+ ... return ts[2] != 'Domestic'
+ ...
+ >>> user_functions = [udf1, udf2, udf3] # must be an iterable type
+ >>> xe = train(xcar, ycar, user_functions)
+ >>> for xv, yv in zip(xcar, ycar):
+ ... xc = classify(xe, xv)
+ ... print('Pred: %s gives %s y is %s' % (xv, xc, yv))
+ ...
+ Pred: ['Red', 'Sports', 'Domestic'] gives No y is Yes
+ Pred: ['Red', 'Sports', 'Domestic'] gives No y is No
+ Pred: ['Red', 'Sports', 'Domestic'] gives No y is Yes
+ Pred: ['Yellow', 'Sports', 'Domestic'] gives No y is No
+ Pred: ['Yellow', 'Sports', 'Imported'] gives No y is Yes
+ Pred: ['Yellow', 'SUV', 'Imported'] gives No y is No
+ Pred: ['Yellow', 'SUV', 'Imported'] gives No y is Yes
+ Pred: ['Yellow', 'SUV', 'Domestic'] gives No y is No
+ Pred: ['Red', 'SUV', 'Imported'] gives No y is No
+ Pred: ['Red', 'Sports', 'Imported'] gives No y is Yes
"""
+
def __init__(self):
+ """Initialize the class."""
self.classes = []
self.alphas = []
self.feature_fns = []
def calculate(me, observation):
- """calculate(me, observation) -> list of log probs
+ """Calculate the log of the probability for each class.
- Calculate the log of the probability for each class. me is a
- MaxEntropy object that has been trained. observation is a vector
+ me is a MaxEntropy object that has been trained. observation is a vector
representing the observed data. The return value is a list of
unnormalized log probabilities for each class.
-
"""
scores = []
assert len(me.feature_fns) == len(me.alphas)
@@ -52,11 +99,7 @@ def calculate(me, observation):
def classify(me, observation):
- """classify(me, observation) -> class
-
- Classify an observation into a class.
-
- """
+ """Classify an observation into a class."""
scores = calculate(me, observation)
max_score, klass = scores[0], me.classes[0]
for i in range(1, len(scores)):
@@ -66,14 +109,12 @@ def classify(me, observation):
def _eval_feature_fn(fn, xs, classes):
- """_eval_feature_fn(fn, xs, classes) -> dict of values
+ """Evaluate a feature function on every instance of the training set and class (PRIVATE).
- Evaluate a feature function on every instance of the training set
- and class. fn is a callback function that takes two parameters: a
+ fn is a callback function that takes two parameters: a
training instance and a class. Return a dictionary of (training
set index, class index) -> non-zero value. Values of 0 are not
stored in the dictionary.
-
"""
values = {}
for i in range(len(xs)):
@@ -85,12 +126,10 @@ def _eval_feature_fn(fn, xs, classes):
def _calc_empirical_expects(xs, ys, classes, features):
- """_calc_empirical_expects(xs, ys, classes, features) -> list of expectations
+ """Calculate the expectation of each function from the data (PRIVATE).
- Calculate the expectation of each function from the data. This is
- the constraint for the maximum entropy distribution. Return a
+ This is the constraint for the maximum entropy distribution. Return a
list of expectations, parallel to the list of features.
-
"""
# E[f_i] = SUM_x,y P(x, y) f(x, y)
# = 1/N f(x, y)
@@ -110,12 +149,10 @@ def _calc_empirical_expects(xs, ys, classes, features):
def _calc_model_expects(xs, classes, features, alphas):
- """_calc_model_expects(xs, classes, features, alphas) -> list of expectations.
+ """Calculate the expectation of each feature from the model (PRIVATE).
- Calculate the expectation of each feature from the model. This is
- not used in maximum entropy training, but provides a good function
+ This is not used in maximum entropy training, but provides a good function
for debugging.
-
"""
# SUM_X P(x) SUM_Y P(Y|X) F(X, Y)
# = 1/N SUM_X SUM_Y P(Y|X) F(X, Y)
@@ -131,11 +168,10 @@ def _calc_model_expects(xs, classes, features, alphas):
def _calc_p_class_given_x(xs, classes, features, alphas):
- """_calc_p_class_given_x(xs, classes, features, alphas) -> matrix
-
- Calculate P(y|x), where y is the class and x is an instance from
- the training set. Return a XSxCLASSES matrix of probabilities.
+ """Calculate conditional probability P(y|x) (PRIVATE).
+ y is the class and x is an instance from the training set.
+ Return a XSxCLASSES matrix of probabilities.
"""
prob_yx = numpy.zeros((len(xs), len(classes)))
@@ -154,7 +190,7 @@ def _calc_p_class_given_x(xs, classes, features, alphas):
def _calc_f_sharp(N, nclasses, features):
- """_calc_f_sharp(N, nclasses, features) -> matrix of f sharp values."""
+ """Calculate a matrix of f sharp values (PRIVATE)."""
# f#(x, y) = SUM_i feature(x, y)
f_sharp = numpy.zeros((N, nclasses))
for feature in features:
@@ -165,7 +201,7 @@ def _calc_f_sharp(N, nclasses, features):
def _iis_solve_delta(N, feature, f_sharp, empirical, prob_yx,
max_newton_iterations, newton_converge):
- # Solve delta using Newton's method for:
+ """Solve delta using Newton's method (PRIVATE)."""
# SUM_x P(x) * SUM_c P(c|x) f_i(x, c) e^[delta_i * f#(x, c)] = 0
delta = 0.0
iters = 0
@@ -250,8 +286,8 @@ def train(training_set, results, feature_fns, update_fn=None,
nalphas = _train_iis(xs, classes, features, f_sharp,
alphas, e_empirical,
max_newton_iterations, newton_converge)
- diff = map(lambda x, y: numpy.fabs(x - y), alphas, nalphas)
- diff = reduce(lambda x, y: x + y, diff, 0)
+ diff = [numpy.fabs(x - y) for x, y in zip(alphas, nalphas)]
+ diff = reduce(numpy.add, diff, 0)
alphas = nalphas
me = MaxEntropy()
@@ -268,57 +304,5 @@ def train(training_set, results, feature_fns, update_fn=None,
if __name__ == "__main__":
- # Car data from example Naive Bayes Classifier example by Eric Meisner November 22, 2003
- # http://www.inf.u-szeged.hu/~ormandi/teaching/mi2/02-naiveBayes-example.pdf
-
- xcar = [
- ['Red', 'Sports', 'Domestic'],
- ['Red', 'Sports', 'Domestic'],
- ['Red', 'Sports', 'Domestic'],
- ['Yellow', 'Sports', 'Domestic'],
- ['Yellow', 'Sports', 'Imported'],
- ['Yellow', 'SUV', 'Imported'],
- ['Yellow', 'SUV', 'Imported'],
- ['Yellow', 'SUV', 'Domestic'],
- ['Red', 'SUV', 'Imported'],
- ['Red', 'Sports', 'Imported']
- ]
-
- ycar = [
- 'Yes',
- 'No',
- 'Yes',
- 'No',
- 'Yes',
- 'No',
- 'Yes',
- 'No',
- 'No',
- 'Yes'
- ]
-
- # Requires some rules or features
- def udf1(ts, cl):
- if ts[0] == 'Red':
- return 0
- else:
- return 1
-
- def udf2(ts, cl):
- if ts[1] == 'Sports':
- return 0
- else:
- return 1
-
- def udf3(ts, cl):
- if ts[2] == 'Domestic':
- return 0
- else:
- return 1
-
- user_functions = [udf1, udf2, udf3] # must be an iterable type
-
- xe = train(xcar, ycar, user_functions)
- for xv, yv in zip(xcar, ycar):
- xc = classify(xe, xv)
- print('Pred: %s gives %s y is %s' % (xv, xc, yv))
+ from Bio._utils import run_doctest
+ run_doctest(verbose=0)
diff --git a/Bio/Medline/__init__.py b/Bio/Medline/__init__.py
index 25b5ae0..21d02bb 100644
--- a/Bio/Medline/__init__.py
+++ b/Bio/Medline/__init__.py
@@ -11,6 +11,7 @@ Classes:
Functions:
- read Reads one Medline record
- parse Allows you to iterate over a bunch of Medline records
+
"""
@@ -96,6 +97,7 @@ class Record(dict):
SPIN Summary for patients in
ORI Original report in
========= ==============================
+
"""
diff --git a/Bio/NMR/NOEtools.py b/Bio/NMR/NOEtools.py
index 7e87454..ef5772f 100644
--- a/Bio/NMR/NOEtools.py
+++ b/Bio/NMR/NOEtools.py
@@ -51,8 +51,8 @@ def predictNOE(peaklist, originNuc, detectedNuc, originResNum, toResNum):
and currently there is no checking done to insure that this
assumption holds true. Check your peaklist for errors and
off diagonal peaks before attempting to use predictNOE.
- """
+ """
returnLine = "" # The modified line to be returned to the caller
datamap = _data_map(peaklist.datalabels)
diff --git a/Bio/NMR/xpktools.py b/Bio/NMR/xpktools.py
index 9f71e7a..2801bac 100644
--- a/Bio/NMR/xpktools.py
+++ b/Bio/NMR/xpktools.py
@@ -2,13 +2,10 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Tools to manipulate data from nmrview .xpk peaklist files.
-"""
+"""Tools to manipulate data from nmrview .xpk peaklist files."""
from __future__ import print_function
-import sys
-
HEADERLEN = 6
@@ -38,6 +35,7 @@ class XpkEntry(object):
self.field["entrynum"] returns the line number (1st field of line)
"""
+
def __init__(self, entry, headline):
# Holds all fields from input line in a dictionary
# keys are data labels from the .xpk header
@@ -87,7 +85,6 @@ class Peaklist(object):
Examples
--------
-
>>> from Bio.NMR.xpktools import Peaklist
>>> peaklist = Peaklist('../Doc/examples/nmr/noed.xpk')
>>> peaklist.firstline
@@ -100,6 +97,7 @@ class Peaklist(object):
' H1.L H1.P H1.W H1.B H1.E H1.J 15N2.L 15N2.P 15N2.W 15N2.B 15N2.E 15N2.J N15.L N15.P N15.W N15.B N15.E N15.J vol int stat '
"""
+
def __init__(self, infn):
with open(infn, 'r') as infile:
@@ -133,7 +131,6 @@ class Peaklist(object):
Examples
--------
-
>>> from Bio.NMR.xpktools import Peaklist
>>> peaklist = Peaklist('../Doc/examples/nmr/noed.xpk')
>>> residue_d = peaklist.residue_dict('H1')
@@ -143,7 +140,6 @@ class Peaklist(object):
['8 10.hn 7.663 0.021 0.010 ++ 0.000 10.n 118.341 0.324 0.010 +E 0.000 10.n 118.476 0.324 0.010 +E 0.000 0.49840 0.49840 0']
"""
-
maxres = -1
minres = -1
@@ -221,6 +217,7 @@ def _find_start_entry(line, n):
-------
starting character : str
The starting character for entry `n`.
+
"""
# This function is used by replace_entry
diff --git a/Bio/NaiveBayes.py b/Bio/NaiveBayes.py
index 3956722..9ceee18 100644
--- a/Bio/NaiveBayes.py
+++ b/Bio/NaiveBayes.py
@@ -3,7 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""This provides code for a general Naive Bayes learner.
+"""General Naive Bayes learner.
Naive Bayes is a supervised classification algorithm that uses Bayes
rule to compute the fit between a new observation and some previously
@@ -12,17 +12,17 @@ the Bayes assumption that the features are independent. Although this
is hardly ever true, the classifier works well enough in practice.
Glossary:
- - observation - A feature vector of discrete data.
- - class - A possible classification for an observation.
-
+ - observation - A feature vector of discrete data.
+ - class - A possible classification for an observation.
Classes:
- - NaiveBayes - Holds information for a naive Bayes classifier.
+ - NaiveBayes - Holds information for a naive Bayes classifier.
Functions:
- - train - Train a new naive Bayes classifier.
- - calculate - Calculate the probabilities of each class, given an observation.
- - classify - Classify an observation into a class.
+ - train - Train a new naive Bayes classifier.
+ - calculate - Calculate the probabilities of each class,
+ given an observation.
+ - classify - Classify an observation into a class.
"""
@@ -32,6 +32,7 @@ import numpy
def _contents(items):
+ """Return a dictionary where the key is the item and the value is the probablity associated (PRIVATE)."""
term = 1.0 / len(items)
counts = {}
for item in items:
@@ -40,16 +41,18 @@ def _contents(items):
class NaiveBayes(object):
- """Holds information for a NaiveBayes classifier.
+ """Hold information for a NaiveBayes classifier.
Attributes:
- - classes - List of the possible classes of data.
- - p_conditional - CLASS x DIM array of dicts of value -> ``P(value|class,dim)``
- - p_prior - List of the prior probabilities for every class.
- - dimensionality - Dimensionality of the data.
+ - classes - List of the possible classes of data.
+ - p_conditional - CLASS x DIM array of dicts of value -> ``P(value|class,dim)``
+ - p_prior - List of the prior probabilities for every class.
+ - dimensionality - Dimensionality of the data.
"""
+
def __init__(self):
+ """Initialize the class."""
self.classes = []
self.p_conditional = None
self.p_prior = []
@@ -57,16 +60,16 @@ class NaiveBayes(object):
def calculate(nb, observation, scale=False):
- """Calculate ``log P(class|observation)`` for each class.
+ """Calculate the logarithmic conditional probability for each class.
- - nb - A NaiveBayes classifier that has been trained.
- - observation - A list representing the observed data.
- - scale - Boolean to indicate whether the probability should be
- scaled by ``P(observation)``. By default, no scaling is done.
+ Arguments:
+ - nb - A NaiveBayes classifier that has been trained.
+ - observation - A list representing the observed data.
+ - scale - Boolean to indicate whether the probability should be
+ scaled by ``P(observation)``. By default, no scaling is done.
- Returns:
- A dictionary where the keys is the class and the value is the log
- probability of the class.
+ A dictionary is returned where the key is the class and the value is
+ the log probability of the class.
"""
# P(class|observation) = P(observation|class)*P(class)/P(observation)
# Taking the log:
@@ -108,11 +111,7 @@ def calculate(nb, observation, scale=False):
def classify(nb, observation):
- """ Classify an observation into a class.
-
- ``classify(nb, observation) -> class``
-
- """
+ """Classify an observation into a class."""
# The class is the one with the highest probability.
probs = calculate(nb, observation, scale=False)
max_prob = max_class = None
@@ -123,16 +122,15 @@ def classify(nb, observation):
def train(training_set, results, priors=None, typecode=None):
- """ Train a naive bayes classifier on a training set.
-
- ``train(training_set, results[, priors]) -> NaiveBayes``
-
- - training_set - List of observations.
- - results - List of the class assignments for each observation.
- Thus, training_set and results must be the same length.
- - priors - Optional dictionary specifying the prior probabilities
- for each type of result. If not specified, the priors will be
- estimated from the training results.
+ """Train a NaiveBayes classifier on a training set.
+
+ Arguments:
+ - training_set - List of observations.
+ - results - List of the class assignments for each observation.
+ Thus, training_set and results must be the same length.
+ - priors - Optional dictionary specifying the prior probabilities
+ for each type of result. If not specified, the priors will
+ be estimated from the training results.
"""
if not len(training_set):
diff --git a/Bio/NeuralNetwork/BackPropagation/Layer.py b/Bio/NeuralNetwork/BackPropagation/Layer.py
index 4097646..d899588 100644
--- a/Bio/NeuralNetwork/BackPropagation/Layer.py
+++ b/Bio/NeuralNetwork/BackPropagation/Layer.py
@@ -16,27 +16,24 @@ from Bio._py3k import range
def logistic_function(value):
- """Transform the value with the logistic function.
-
- XXX This is in the wrong place -- I need to find a place to put it
- that makes sense.
- """
+ """Transform the value with the logistic function."""
+ # TODO: This is in the wrong place -- I need to find a place to put it
+ # that makes sense.
return 1.0 / (1.0 + math.exp(-value))
class AbstractLayer(object):
- """Abstract base class for all layers.
- """
+ """Abstract base class for all layers."""
+
def __init__(self, num_nodes, has_bias_node):
"""Initialize the layer.
Arguments:
+ - num_nodes -- The number of nodes that are contained in this layer.
+ - has_bias_node -- Specify whether or not this node has a bias
+ node. This node is not included in the number of nodes in the
+ network, but is used in constructing and dealing with the network.
- o num_nodes -- The number of nodes that are contained in this layer.
-
- o has_bias_node -- Specify whether or not this node has a bias
- node. This node is not included in the number of nodes in the network,
- but is used in constructing and dealing with the network.
"""
# specify all of the nodes in the network
if has_bias_node:
@@ -49,8 +46,7 @@ class AbstractLayer(object):
self.weights = {}
def __str__(self):
- """Debugging output.
- """
+ """Debugging output."""
return "weights: %s" % self.weights
def set_weight(self, this_node, next_node, value):
@@ -70,11 +66,10 @@ class InputLayer(AbstractLayer):
"""Initialize the input layer.
Arguments:
+ - num_nodes -- The number of nodes in the input layer.
+ - next_layer -- The next layer in the neural network this is
+ connected to.
- o num_nodes -- The number of nodes in the input layer.
-
- o next_layer -- The next layer in the neural network this is
- connected to.
"""
AbstractLayer.__init__(self, num_nodes, 1)
@@ -107,9 +102,9 @@ class InputLayer(AbstractLayer):
"""Update the values of the nodes using given inputs.
Arguments:
+ - inputs -- A list of inputs into the network -- this must be
+ equal to the number of nodes in the layer.
- o inputs -- A list of inputs into the network -- this must be
- equal to the number of nodes in the layer.
"""
if len(inputs) != len(self.values) - 1:
raise ValueError("Inputs do not match input layer nodes.")
@@ -125,13 +120,11 @@ class InputLayer(AbstractLayer):
"""Recalculate all weights based on the last round of prediction.
Arguments:
+ - learning_rate -- The learning rate of the network
+ - momentum - The amount of weight to place on the previous weight
+ change.
+ - outputs - The output info we are using to calculate error.
- o learning_rate -- The learning rate of the network
-
- o momentum - The amount of weight to place on the previous weight
- change.
-
- o outputs - The output info we are using to calculate error.
"""
# first backpropagate to the next layers
next_errors = self._next_layer.backpropagate(outputs, learning_rate,
@@ -157,14 +150,12 @@ class HiddenLayer(AbstractLayer):
"""Initialize a hidden layer.
Arguments:
+ - num_nodes -- The number of nodes in this hidden layer.
+ - next_layer -- The next layer in the neural network that this
+ is connected to.
+ - activation -- The transformation function used to transform
+ predicted values.
- o num_nodes -- The number of nodes in this hidden layer.
-
- o next_layer -- The next layer in the neural network that this
- is connected to.
-
- o activation -- The transformation function used to transform
- predicted values.
"""
AbstractLayer.__init__(self, num_nodes, 1)
@@ -197,8 +188,8 @@ class HiddenLayer(AbstractLayer):
"""Update the values of nodes from the previous layer info.
Arguments:
+ - previous_layer -- The previous layer in the network.
- o previous_layer -- The previous layer in the network.
"""
# update each node in this network
for update_node in self.nodes[1:]:
@@ -217,14 +208,12 @@ class HiddenLayer(AbstractLayer):
"""Recalculate all weights based on the last round of prediction.
Arguments:
+ - learning_rate -- The learning rate of the network
+ - momentum - The amount of weight to place on the previous weight
+ change.
+ - outputs - The output values we are using to see how good our
+ network is at predicting things.
- o learning_rate -- The learning rate of the network
-
- o momentum - The amount of weight to place on the previous weight
- change.
-
- o outputs - The output values we are using to see how good our
- network is at predicting things.
"""
# first backpropagate to the next layers
next_errors = self._next_layer.backpropagate(outputs, learning_rate,
@@ -269,12 +258,11 @@ class OutputLayer(AbstractLayer):
"""Initialize the Output Layer.
Arguments:
+ - num_nodes -- The number of nodes in this layer. This corresponds
+ to the number of outputs in the neural network.
+ - activation -- The transformation function used to transform
+ predicted values.
- o num_nodes -- The number of nodes in this layer. This corresponds
- to the number of outputs in the neural network.
-
- o activation -- The transformation function used to transform
- predicted values.
"""
AbstractLayer.__init__(self, num_nodes, 0)
@@ -288,8 +276,8 @@ class OutputLayer(AbstractLayer):
"""Update the value of output nodes from the previous layers.
Arguments:
+ - previous_layer -- The hidden layer preceding this.
- o previous_layer -- The hidden layer preceding this.
"""
# update all of the nodes in this layer
for update_node in self.nodes:
@@ -312,9 +300,9 @@ class OutputLayer(AbstractLayer):
real value.
Arguments:
+ - outputs - The list of output values we use to calculate the
+ errors in our predictions.
- o outputs - The list of output values we use to calculate the
- errors in our predictions.
"""
errors = {}
for node in self.nodes:
@@ -328,8 +316,7 @@ class OutputLayer(AbstractLayer):
return errors
def get_error(self, real_value, node_number):
- """Return the error value at a particular node.
- """
+ """Return the error value at a particular node."""
predicted_value = self.values[node_number]
return 0.5 * math.pow((real_value - predicted_value), 2)
diff --git a/Bio/NeuralNetwork/BackPropagation/Network.py b/Bio/NeuralNetwork/BackPropagation/Network.py
index a3dedd4..7d27288 100644
--- a/Bio/NeuralNetwork/BackPropagation/Network.py
+++ b/Bio/NeuralNetwork/BackPropagation/Network.py
@@ -25,15 +25,14 @@ class BasicNetwork(object):
This deals with a Neural Network containing three layers:
- o Input Layer
+ - Input Layer
+ - Hidden Layer
+ - Output Layer
- o Hidden Layer
-
- o Output Layer
"""
+
def __init__(self, input_layer, hidden_layer, output_layer):
- """Initialize the network with the three layers.
- """
+ """Initialize the network with the three layers."""
self._input = input_layer
self._hidden = hidden_layer
self._output = output_layer
@@ -43,25 +42,21 @@ class BasicNetwork(object):
"""Train the neural network to recognize particular examples.
Arguments:
+ - training_examples -- A list of TrainingExample classes that will
+ be used to train the network.
+ - validation_examples -- A list of TrainingExample classes that
+ are used to validate the network as it is trained. These examples
+ are not used to train so the provide an independent method of
+ checking how the training is doing. Normally, when the error
+ from these examples starts to rise, then it's time to stop
+ training.
+ - stopping_criteria -- A function, that when passed the number of
+ iterations, the training error, and the validation error, will
+ determine when to stop learning.
+ - learning_rate -- The learning rate of the neural network.
+ - momentum -- The momentum of the NN, which describes how much
+ of the prevoious weight change to use.
- o training_examples -- A list of TrainingExample classes that will
- be used to train the network.
-
- o validation_examples -- A list of TrainingExample classes that
- are used to validate the network as it is trained. These examples
- are not used to train so the provide an independent method of
- checking how the training is doing. Normally, when the error
- from these examples starts to rise, then it's time to stop
- training.
-
- o stopping_criteria -- A function, that when passed the number of
- iterations, the training error, and the validation error, will
- determine when to stop learning.
-
- o learning_rate -- The learning rate of the neural network.
-
- o momentum -- The momentum of the NN, which describes how much
- of the prevoious weight change to use.
"""
num_iterations = 0
while True:
diff --git a/Bio/NeuralNetwork/Gene/Motif.py b/Bio/NeuralNetwork/Gene/Motif.py
index 647cd4d..8db64ef 100644
--- a/Bio/NeuralNetwork/Gene/Motif.py
+++ b/Bio/NeuralNetwork/Gene/Motif.py
@@ -21,17 +21,17 @@ from .Pattern import PatternRepository
class MotifFinder(object):
- """Find motifs in a set of Sequence Records.
- """
+ """Find motifs in a set of Sequence Records."""
+
def __init__(self, alphabet_strict=1):
"""Initialize a finder to get motifs.
Arguments:
+ - alphabet_strict - Whether or not motifs should be restricted
+ to having all of there elements within the alphabet of the
+ sequences. This requires that the Sequences have a real
+ alphabet, and that all sequences have the same alphabet.
- o alphabet_strict - Whether or not motifs should be
- restricted to having all of there elements within the alphabet
- of the sequences. This requires that the Sequences have a real
- alphabet, and that all sequences have the same alphabet.
"""
self.alphabet_strict = alphabet_strict
@@ -39,15 +39,14 @@ class MotifFinder(object):
"""Find all motifs of the given size in the passed SeqRecords.
Arguments:
-
- o seq_records - A list of SeqRecord objects which the motifs
- will be found from.
-
- o motif_size - The size of the motifs we want to look for.
+ - seq_records - A list of SeqRecord objects which the motifs
+ will be found from.
+ - motif_size - The size of the motifs we want to look for.
Returns:
A PatternRepository object that contains all of the motifs (and their
counts) found in the training sequences).
+
"""
motif_info = self._get_motif_dict(seq_records, motif_size)
@@ -99,15 +98,16 @@ class MotifFinder(object):
of the motifs in a set of records, this returns the differences
between two listings of seq_records.
- o first_records, second_records - Two listings of SeqRecord objects
- to have their motifs compared.
-
- o motif_size - The size of the motifs we are looking for.
+ Arguments:
+ - first_records, second_records - Two listings of SeqRecord objects
+ to have their motifs compared.
+ - motif_size - The size of the motifs we are looking for.
Returns:
A PatternRepository object that has motifs, but instead of their
raw counts, this has the counts in the first set of records
subtracted from the counts in the second set.
+
"""
first_motifs = self._get_motif_dict(first_records, motif_size)
second_motifs = self._get_motif_dict(second_records, motif_size)
@@ -138,8 +138,7 @@ class MotifFinder(object):
return PatternRepository(motif_diffs)
def _add_motif(self, motif_dict, motif_to_add):
- """Add a motif to the given dictionary.
- """
+ """Add a motif to the given dictionary."""
# incrememt the count of the motif if it is already present
if motif_to_add in motif_dict:
motif_dict[motif_to_add] += 1
@@ -157,13 +156,14 @@ class MotifCoder(object):
can be fed as an input into a neural network. It does this by
representing a sequence based the motifs present.
"""
+
def __init__(self, motifs):
"""Initialize an input producer with motifs to look for.
Arguments:
+ - motifs - A complete list of motifs, in order, that are to be
+ searched for in a sequence.
- o motifs - A complete list of motifs, in order, that are to be
- searched for in a sequence.
"""
self._motifs = motifs
@@ -178,8 +178,7 @@ class MotifCoder(object):
"""Represent a sequence as a set of motifs.
Arguments:
-
- o sequence - A Bio.Seq object to represent as a motif.
+ - sequence - A Bio.Seq object to represent as a motif.
This converts a sequence into a representation based on the motifs.
The representation is returned as a list of the relative amount of
diff --git a/Bio/NeuralNetwork/Gene/Pattern.py b/Bio/NeuralNetwork/Gene/Pattern.py
index 2909f63..580cc91 100644
--- a/Bio/NeuralNetwork/Gene/Pattern.py
+++ b/Bio/NeuralNetwork/Gene/Pattern.py
@@ -24,28 +24,28 @@ class PatternIO(object):
This just defines a simple persistence class for patterns, making
it easy to write them to a file and read 'em back.
"""
+
def __init__(self, alphabet=None):
"""Intialize the reader and writer class.
Arguments:
-
- o alphabet - An optional argument specifying the alphabet
- which patterns should follow. If an alphabet is set it'll be used
- to verify that all patterns follow it.
+ - alphabet - An optional argument specifying the alphabet
+ which patterns should follow. If an alphabet is set it'll be used
+ to verify that all patterns follow it.
Attributes:
- o separator - A character to use in separating items in a signature
- when it is written to a file and read back. This character should
- not be in the possible alphabet of the sequences, or there will
- be trouble.
+ - separator - A character to use in separating items in a signature
+ when it is written to a file and read back. This character should
+ not be in the possible alphabet of the sequences, or there will
+ be trouble.
+
"""
self._alphabet = alphabet
self.separator = ";"
def write(self, pattern_list, output_handle):
- """Write a list of patterns to the given handle.
- """
+ """Write a list of patterns to the given handle."""
for pattern in pattern_list:
# deal with signatures, concatentate them with the separator
if isinstance(pattern, (list, tuple)):
@@ -77,8 +77,7 @@ class PatternIO(object):
self.write(all_patterns, output_handle)
def read(self, input_handle):
- """Read patterns from the specified handle.
- """
+ """Read patterns from the specified handle."""
all_patterns = []
while True:
@@ -111,21 +110,21 @@ class PatternIO(object):
class PatternRepository(object):
- """This holds a list of specific patterns found in sequences.
+ """Hold a list of specific patterns found in sequences.
This is designed to be a general holder for a set of patterns and
should be subclassed for specific implementations (ie. holding Motifs
or Signatures.
"""
+
def __init__(self, pattern_info):
"""Initialize a repository with patterns,
Arguments:
-
- - pattern_info - A representation of all of the patterns found in
- a finder search. This should be a dictionary, where the keys
- are patterns, and the values are the number of times a pattern is
- found.
+ - pattern_info - A representation of all of the patterns found in
+ a finder search. This should be a dictionary, where the keys
+ are patterns, and the values are the number of times a pattern
+ is found.
The patterns are represented interally as a list of two
tuples, where the first element is the number of times a pattern
@@ -144,8 +143,7 @@ class PatternRepository(object):
self._pattern_list.reverse()
def get_all(self):
- """Retrieve all of the patterns in the repository.
- """
+ """Retrieve all of the patterns in the repository."""
patterns = []
for pattern_info in self._pattern_list:
patterns.append(pattern_info[1])
@@ -158,8 +156,8 @@ class PatternRepository(object):
Randomly selects patterns from the list and returns them.
Arguments:
+ - num_patterns - The total number of patterns to return.
- o num_patterns - The total number of patterns to return.
"""
all_patterns = []
@@ -188,8 +186,8 @@ class PatternRepository(object):
"""Return the specified number of most frequently occurring patterns
Arguments:
+ - num_patterns - The number of patterns to return.
- o num_patterns - The number of patterns to return.
"""
all_patterns = []
for pattern_info in self._pattern_list[:num_patterns]:
@@ -206,11 +204,10 @@ class PatternRepository(object):
two sets of patterns.
Arguments:
+ - top_num - The number of patterns to take from the top of the list.
+ - bottom_num - The number of patterns to take from the bottom of
+ the list.
- o top_num - The number of patterns to take from the top of the list.
-
- o bottom_num - The number of patterns to take from the bottom of
- the list.
"""
all_patterns = []
# first get from the top of the list
@@ -235,9 +232,9 @@ class PatternRepository(object):
or something like that?
Arguments:
+ - at_percentage - The percentage of A and T residues in a pattern
+ that qualifies it for being removed.
- o at_percentage - The percentage of A and T residues in a pattern
- that qualifies it for being removed.
"""
remove_list = []
# find all of the really AT rich patterns
@@ -251,8 +248,7 @@ class PatternRepository(object):
self._pattern_list.remove(to_remove)
def count(self, pattern):
- """Return the number of times the specified pattern is found.
- """
+ """Return the number of times the specified pattern is found."""
try:
return self._pattern_dict[pattern]
except KeyError:
diff --git a/Bio/NeuralNetwork/Gene/Schema.py b/Bio/NeuralNetwork/Gene/Schema.py
index f8853ac..6580c3a 100644
--- a/Bio/NeuralNetwork/Gene/Schema.py
+++ b/Bio/NeuralNetwork/Gene/Schema.py
@@ -6,7 +6,7 @@
"""Deal with Motifs or Signatures allowing ambiguity in the sequences.
This class contains Schema which deal with Motifs and Signatures at
-a higher level, by introducing \`don't care\` (ambiguity) symbols into
+a higher level, by introducing "don't care" (ambiguity) symbols into
the sequences. For instance, you could combine the following Motifs:
'GATC', 'GATG', 'GATG', 'GATT'
@@ -48,16 +48,17 @@ class Schema(object):
This is likely to be a replacement for the Schema representation,
since it allows multiple ambiguity characters to be used.
"""
+
def __init__(self, ambiguity_info):
"""Initialize with ambiguity information.
Arguments:
+ - ambiguity_info - A dictionary which maps letters in the motifs to
+ the ambiguous characters which they might represent. For example,
+ {'R' : 'AG'} specifies that Rs in the motif can match an A or a G.
+ All letters in the motif must be represented in the ambiguity_info
+ dictionary.
- o ambiguity_info - A dictionary which maps letters in the motifs to
- the ambiguous characters which they might represent. For example,
- {'R' : 'AG'} specifies that Rs in the motif can match an A or a G.
- All letters in the motif must be represented in the ambiguity_info
- dictionary.
"""
self._ambiguity_info = ambiguity_info
@@ -68,12 +69,12 @@ class Schema(object):
"""Encode the passed motif as a regular expression pattern object.
Arguments:
-
- o motif - The motif we want to encode. This should be a string.
+ - motif - The motif we want to encode. This should be a string.
Returns:
A compiled regular expression pattern object that can be used
for searching strings.
+
"""
regexp_string = ""
@@ -118,8 +119,7 @@ class Schema(object):
return ambig_positions
def num_ambiguous(self, motif):
- """Return the number of ambiguous letters in a given motif.
- """
+ """Return the number of ambiguous letters in a given motif."""
ambig_positions = self.find_ambiguous(motif)
return len(ambig_positions)
@@ -139,14 +139,12 @@ class Schema(object):
return motif_pattern.findall(query)
def num_matches(self, motif, query):
- """Find the number of non-overlapping times motif occurs in query.
- """
+ """Find the number of non-overlapping times motif occurs in query."""
all_matches = self.find_matches(motif, query)
return len(all_matches)
def all_unambiguous(self):
- """Return a listing of all unambiguous letters allowed in motifs.
- """
+ """Return a listing of all unambiguous letters allowed in motifs."""
all_letters = sorted(self._ambiguity_info)
unambig_letters = []
@@ -166,12 +164,13 @@ class SchemaDNAAlphabet(Alphabet.Alphabet):
"""Alphabet of a simple Schema for DNA sequences.
This defines a simple alphabet for DNA sequences that has a single
- character which can match any other character.
+ character which can match any other character:
- o G,A,T,C - The standard unambiguous DNA alphabet.
+ - `G`, `A`, `T`, `C` - The standard unambiguous DNA alphabet.
+ - `*` - Any letter
- o * - Any letter
"""
+
letters = ["G", "A", "T", "C", "*"]
alphabet_matches = {"G": "G",
@@ -194,16 +193,17 @@ class GeneticAlgorithmFinder(object):
can be overridden easily by creating a GeneticAlgorithmFinder
with a different alphabet.
"""
+
def __init__(self, alphabet=SchemaDNAAlphabet()):
"""Initialize a finder to get schemas using Genetic Algorithms.
Arguments:
+ - alphabet -- The alphabet which specifies the contents of the
+ schemas we'll be generating. This alphabet must contain the
+ attribute 'alphabet_matches', which is a dictionary specifying
+ the potential ambiguities of each letter in the alphabet. These
+ ambiguities will be used in building up the schema.
- o alphabet -- The alphabet which specifies the contents of the
- schemas we'll be generating. This alphabet must contain the
- attribute 'alphabet_matches', which is a dictionary specifying
- the potential ambiguities of each letter in the alphabet. These
- ambiguities will be used in building up the schema.
"""
self.alphabet = alphabet
@@ -213,7 +213,7 @@ class GeneticAlgorithmFinder(object):
self._set_up_genetic_algorithm()
def _set_up_genetic_algorithm(self):
- """Overrideable function to set up the genetic algorithm parameters.
+ """Set up the genetic algorithm parameters (PRIVATE).
This functions sole job is to set up the different genetic
algorithm functionality. Since this can be quite complicated, this
@@ -233,15 +233,14 @@ class GeneticAlgorithmFinder(object):
self.motif_generator.random_motif)
def find_schemas(self, fitness, num_schemas):
- """Find the given number of unique schemas using a genetic algorithm
+ """Find the given number of unique schemas using a genetic algorithm.
Arguments:
+ - fitness - A callable object (ie. function) which will evaluate
+ the fitness of a motif.
+ - num_schemas - The number of unique schemas with good fitness
+ that we want to generate.
- o fitness - A callable object (ie. function) which will evaluate
- the fitness of a motif.
-
- o num_schemas - The number of unique schemas with good fitness
- that we want to generate.
"""
start_population = \
Organism.function_population(self.motif_generator.random_motif,
@@ -267,21 +266,19 @@ class GeneticAlgorithmFinder(object):
class DifferentialSchemaFitness(object):
- """Calculate fitness for schemas that differentiate between sequences.
- """
+ """Calculate fitness for schemas that differentiate between sequences."""
+
def __init__(self, positive_seqs, negative_seqs, schema_evaluator):
- """Initialize with different sequences to evaluate
+ """Initialize with different sequences to evaluate.
Arguments:
+ - positive_seq - A list of SeqRecord objects which are the 'positive'
+ sequences -- the ones we want to select for.
+ - negative_seq - A list of SeqRecord objects which are the 'negative'
+ sequences that we want to avoid selecting.
+ - schema_evaluator - An Schema class which can be used to
+ evaluate find motif matches in sequences.
- o positive_seq - A list of SeqRecord objects which are the 'positive'
- sequences -- the ones we want to select for.
-
- o negative_seq - A list of SeqRecord objects which are the 'negative'
- sequences that we want to avoid selecting.
-
- o schema_evaluator - An Schema class which can be used to
- evaluate find motif matches in sequences.
"""
self._pos_seqs = positive_seqs
self._neg_seqs = negative_seqs
@@ -339,16 +336,16 @@ class MostCountSchemaFitness(object):
This fitness function tries to maximize schemas which are found many
times in a group of sequences.
"""
+
def __init__(self, seq_records, schema_evaluator):
"""Initialize with sequences to evaluate.
Arguments:
+ - seq_records -- A set of SeqRecord objects which we use to
+ calculate the fitness.
+ - schema_evaluator - An Schema class which can be used to
+ evaluate find motif matches in sequences.
- o seq_records -- A set of SeqRecord objects which we use to
- calculate the fitness.
-
- o schema_evaluator - An Schema class which can be used to
- evaluate find motif matches in sequences.
"""
self._records = seq_records
self._evaluator = schema_evaluator
@@ -376,17 +373,16 @@ class MostCountSchemaFitness(object):
# -- Helper classes
class RandomMotifGenerator(object):
- """Generate a random motif within given parameters.
- """
+ """Generate a random motif within given parameters."""
+
def __init__(self, alphabet, min_size=12, max_size=17):
"""Initialize with the motif parameters.
Arguments:
+ - alphabet - An alphabet specifying what letters can be inserted in
+ a motif.
+ - min_size, max_size - Specify the range of sizes for motifs.
- o alphabet - An alphabet specifying what letters can be inserted in
- a motif.
-
- o min_size, max_size - Specify the range of sizes for motifs.
"""
self._alphabet = alphabet
self._min_size = min_size
@@ -416,16 +412,16 @@ class SimpleFinisher(object):
GA has proceeded for a specified number of generations and has
a given number of unique schema with positive fitness.
"""
+
def __init__(self, num_schemas, min_generations=100):
"""Initialize the finisher with its parameters.
Arguments:
+ - num_schemas -- the number of useful (positive fitness) schemas
+ we want to generate.
+ - min_generations -- The minimum number of generations to allow
+ the GA to proceed.
- o num_schemas -- the number of useful (positive fitness) schemas
- we want to generation
-
- o min_generations -- The minimum number of generations to allow
- the GA to proceed.
"""
self.num_generations = 0
@@ -433,8 +429,7 @@ class SimpleFinisher(object):
self.min_generations = min_generations
def is_finished(self, organisms):
- """Determine when we can stop evolving the population.
- """
+ """Determine when we can stop evolving the population."""
self.num_generations += 1
# print "generation %s" % self.num_generations
@@ -464,16 +459,23 @@ class SchemaFinder(object):
in a set of DNA sequences, but the finder can be customized to deal
with any type of data.
"""
+
def __init__(self, num_schemas=100,
schema_finder=GeneticAlgorithmFinder()):
+ """Initialize the Schema Finder with its parameters.
+
+ Arguments:
+ - num_schemas -- the number of useful (positive fitness) schemas
+ we want to generate.
+
+ """
self.num_schemas = num_schemas
self._finder = schema_finder
self.evaluator = Schema(self._finder.alphabet.alphabet_matches)
def find(self, seq_records):
- """Find well-represented schemas in the given set of SeqRecords.
- """
+ """Find well-represented schemas in the given set of SeqRecords."""
fitness_evaluator = MostCountSchemaFitness(seq_records,
self.evaluator)
@@ -481,8 +483,7 @@ class SchemaFinder(object):
self.num_schemas)
def find_differences(self, first_records, second_records):
- """Find schemas which differentiate between the two sets of SeqRecords.
- """
+ """Find schemas which differentiate between the two sets of SeqRecords."""
fitness_evaluator = DifferentialSchemaFitness(first_records,
second_records,
self.evaluator)
@@ -498,16 +499,16 @@ class SchemaCoder(object):
motifs are found in the sequence. This lets you represent a sequence
as just a count of (possibly ambiguous) motifs.
"""
+
def __init__(self, schemas, ambiguous_converter):
- """Initialize the coder to convert sequences
+ """Initialize the coder to convert sequences.
Arguments:
+ - schema - A list of all of the schemas we want to search for
+ in input sequences.
+ - ambiguous_converter - An Schema class which can be
+ used to convert motifs into regular expressions for searching.
- o schema - A list of all of the schemas we want to search for
- in input sequences.
-
- o ambiguous_converter - An Schema class which can be
- used to convert motifs into regular expressions for searching.
"""
self._schemas = schemas
self._converter = ambiguous_converter
@@ -516,8 +517,7 @@ class SchemaCoder(object):
"""Represent the given input sequence as a bunch of motif counts.
Arguments:
-
- o sequence - A Bio.Seq object we are going to represent as schemas.
+ - sequence - A Bio.Seq object we are going to represent as schemas.
This takes the sequence, searches for the motifs within it, and then
returns counts specifying the relative number of times each motifs
@@ -548,14 +548,12 @@ def matches_schema(pattern, schema, ambiguity_character='*'):
"""Determine whether or not the given pattern matches the schema.
Arguments:
+ - pattern - A string representing the pattern we want to check for
+ matching. This pattern can contain ambiguity characters (which are
+ assumed to be the same as those in the schema).
+ - schema - A string schema with ambiguity characters.
+ - ambiguity_character - The character used for ambiguity in the schema.
- o pattern - A string representing the pattern we want to check for
- matching. This pattern can contain ambiguity characters (which are
- assumed to be the same as those in the schema).
-
- o schema - A string schema with ambiguity characters.
-
- o ambiguity_character - The character used for ambiguity in the schema.
"""
if len(pattern) != len(schema):
return 0
@@ -573,15 +571,15 @@ def matches_schema(pattern, schema, ambiguity_character='*'):
class SchemaFactory(object):
- """Generate Schema from inputs of Motifs or Signatures.
- """
+ """Generate Schema from inputs of Motifs or Signatures."""
+
def __init__(self, ambiguity_symbol='*'):
- """Initialize the SchemaFactory
+ """Initialize the SchemaFactory.
Arguments:
+ - ambiguity_symbol -- The symbol to use when specifying that
+ a position is arbitrary.
- o ambiguity_symbol -- The symbol to use when specifying that
- a position is arbitrary.
"""
self._ambiguity_symbol = ambiguity_symbol
@@ -589,17 +587,15 @@ class SchemaFactory(object):
"""Generate schema from a list of motifs.
Arguments:
+ - motif_repository - A MotifRepository class that has all of the
+ motifs we want to convert to Schema.
+ - motif_percent - The percentage of motifs in the motif bank which
+ should be matches. We'll try to create schema that match this
+ percentage of motifs.
+ - num_ambiguous - The number of ambiguous characters to include
+ in each schema. The positions of these ambiguous characters will
+ be randomly selected.
- o motif_repository - A MotifRepository class that has all of the
- motifs we want to convert to Schema.
-
- o motif_percent - The percentage of motifs in the motif bank which
- should be matches. We'll try to create schema that match this
- percentage of motifs.
-
- o num_ambiguous - The number of ambiguous characters to include
- in each schema. The positions of these ambiguous characters will
- be randomly selected.
"""
# get all of the motifs we can deal with
all_motifs = motif_repository.get_top_percentage(motif_percent)
@@ -637,8 +633,7 @@ class SchemaFactory(object):
return PatternRepository(schema_info)
def _get_num_motifs(self, repository, motif_list):
- """Return the number of motif counts for the list of motifs.
- """
+ """Return the number of motif counts for the list of motifs."""
motif_count = 0
for motif in motif_list:
motif_count += repository.count(motif)
@@ -690,19 +685,15 @@ class SchemaFactory(object):
"""Create a schema from a given starting motif.
Arguments:
-
- o motif - A motif with the pattern we will start from.
-
- o motif_list - The total motifs we have.to match to.
-
- o num_ambiguous - The number of ambiguous characters that should
- be present in the schema.
+ - motif - A motif with the pattern we will start from.
+ - motif_list - The total motifs we have.to match to.
+ - num_ambiguous - The number of ambiguous characters that should
+ be present in the schema.
Returns:
+ - A string representing the newly generated schema.
+ - A list of all of the motifs in motif_list that match the schema.
- o A string representing the newly generated schema.
-
- o A list of all of the motifs in motif_list that match the schema.
"""
assert motif in motif_list, \
"Expected starting motif present in remaining motifs."
@@ -733,4 +724,5 @@ class SchemaFactory(object):
return new_schema, matched_motifs
def from_signatures(self, signature_repository, num_ambiguous):
+ """Initialize from a signature repository (not implemented yet)."""
raise NotImplementedError("Still need to code this.")
diff --git a/Bio/NeuralNetwork/Gene/Signature.py b/Bio/NeuralNetwork/Gene/Signature.py
index 97730e8..92c5bb5 100644
--- a/Bio/NeuralNetwork/Gene/Signature.py
+++ b/Bio/NeuralNetwork/Gene/Signature.py
@@ -26,16 +26,17 @@ class SignatureFinder(object):
two motifs separated by a gap. We need something a lot smarter than
this to find more complicated signatures.
"""
+
def __init__(self, alphabet_strict=1):
"""Initialize a finder to get signatures.
Arguments:
+ - alphabet_strict - Specify whether signatures should be required
+ to have all letters in the signature be consistent with the
+ alphabet of the original sequence. This requires that all Seqs
+ used have a consistent alphabet. This helps protect against getting
+ useless signatures full of ambiguity signals.
- o alphabet_strict - Specify whether signatures should be required
- to have all letters in the signature be consistent with the
- alphabet of the original sequence. This requires that all Seqs
- used have a consistent alphabet. This helps protect against getting
- useless signatures full of ambiguity signals.
"""
self._alphabet_strict = alphabet_strict
@@ -43,14 +44,12 @@ class SignatureFinder(object):
"""Find all signatures in a group of sequences.
Arguments:
+ - seq_records - A list of SeqRecord objects we'll use the sequences
+ from to find signatures.
+ - signature_size - The size of each half of a signature (ie. if this
+ is set at 3, then the signature could be AGC-----GAC)
+ - max_gap - The maximum gap size between two parts of a signature.
- o seq_records - A list of SeqRecord objects we'll use the sequences
- from to find signatures.
-
- o signature_size - The size of each half of a signature (ie. if this
- is set at 3, then the signature could be AGC-----GAC)
-
- o max_gap - The maximum gap size between two parts of a signature.
"""
sig_info = self._get_signature_dict(seq_records, signature_size,
max_gap)
@@ -105,8 +104,7 @@ class SignatureFinder(object):
return all_sigs
def _add_sig(self, sig_dict, sig_to_add):
- """Add a signature to the given dictionary.
- """
+ """Add a signature to the given dictionary."""
# incrememt the count of the signature if it is already present
if sig_to_add in sig_dict:
sig_dict[sig_to_add] += 1
@@ -125,18 +123,18 @@ class SignatureCoder(object):
each signature is seen in the sequence. This allows a sequence to
serve as input into a neural network.
"""
+
def __init__(self, signatures, max_gap):
"""Initialize with the signatures to look for.
Arguments:
+ - signatures - A complete list of signatures, in order, that
+ are to be searched for in the sequences. The signatures should
+ be represented as a tuple of (first part of the signature,
+ second_part of the signature) -- ('GATC', 'GATC').
+ - max_gap - The maximum gap we can have between the two
+ elements of the signature.
- o signatures - A complete list of signatures, in order, that
- are to be searched for in the sequences. The signatures should
- be represented as a tuple of (first part of the signature,
- second_part of the signature) -- ('GATC', 'GATC').
-
- o max_gap - The maximum gap we can have between the two
- elements of the signature.
"""
self._signatures = signatures
self._max_gap = max_gap
@@ -163,15 +161,15 @@ class SignatureCoder(object):
"""Convert a sequence into a representation of its signatures.
Arguments:
-
- o sequence - A Seq object we are going to convert into a set of
- signatures.
+ - sequence - A Seq object we are going to convert into a set of
+ signatures.
Returns:
A list of relative signature representations. Each item in the
list corresponds to the signature passed in to the initializer and
is the number of times that the signature was found, divided by the
total number of signatures found in the sequence.
+
"""
# check to be sure we have signatures to deal with,
# otherwise just return an empty list
diff --git a/Bio/NeuralNetwork/StopTraining.py b/Bio/NeuralNetwork/StopTraining.py
index 8ab089b..73ddfa4 100644
--- a/Bio/NeuralNetwork/StopTraining.py
+++ b/Bio/NeuralNetwork/StopTraining.py
@@ -31,20 +31,19 @@ class ValidationIncreaseStop(object):
set. This stopping criterion function will stop when the validation
error increases.
"""
+
def __init__(self, max_iterations=None, min_iterations=0,
verbose=0):
"""Initialize the stopping criterion class.
Arguments:
+ - max_iterations - The maximum number of iterations that
+ should be performed, regardless of error.
+ - min_iterations - The minimum number of iterations to perform,
+ to prevent premature stoppage of training.
+ - verbose - Whether or not the error should be printed during
+ training.
- o max_iterations - The maximum number of iterations that
- should be performed, regardless of error.
-
- o min_iterations - The minimum number of iterations to perform,
- to prevent premature stoppage of training.
-
- o verbose - Whether or not the error should be printed during
- training.
"""
self.verbose = verbose
self.max_iterations = max_iterations
@@ -54,8 +53,7 @@ class ValidationIncreaseStop(object):
def stopping_criteria(self, num_iterations, training_error,
validation_error):
- """Define when to stop iterating.
- """
+ """Define when to stop iterating."""
if num_iterations % 10 == 0:
if self.verbose:
print("%s; Training Error:%s; Validation Error:%s"
diff --git a/Bio/NeuralNetwork/Training.py b/Bio/NeuralNetwork/Training.py
index 6c26410..4846121 100644
--- a/Bio/NeuralNetwork/Training.py
+++ b/Bio/NeuralNetwork/Training.py
@@ -24,39 +24,35 @@ class ExampleManager(object):
This is meant to make it easy to split a bunch of training examples
into three types of data:
- o Training Data -- These are the data used to do the actual training
- of the network.
-
- o Validation Data -- These data are used to validate the network
- while training. They provide an independent method to evaluate how
- the network is doing, and make sure the network gets trained independent
- of noise in the training data set.
-
- o Testing Data -- The data which are used to verify how well a network
- works. They should not be used at all in the training process, so they
- provide a completely independent method of testing how well a network
- performs.
+ - Training Data -- These are the data used to do the actual training
+ of the network.
+ - Validation Data -- These data are used to validate the network
+ while training. They provide an independent method to evaluate how
+ the network is doing, and make sure the network gets trained
+ independent of noise in the training data set.
+ - Testing Data -- The data which are used to verify how well a network
+ works. They should not be used at all in the training process, so they
+ provide a completely independent method of testing how well a network
+ performs.
+
"""
+
def __init__(self, training_percent=.4, validation_percent=.4):
"""Initialize the manager with the training examples.
Arguments:
-
- o training_percent - The percentage of the training examples that
- should be used for training the network.
-
- o validation_percent - Percent of training examples for validating
- a network during training.
+ - training_percent - The percentage of the training examples that
+ should be used for training the network.
+ - validation_percent - Percent of training examples for validating
+ a network during training.
Attributes:
+ - train_examples - A randomly chosen set of examples for training
+ purposes.
+ - valdiation_examples - Randomly chosesn set of examples for
+ use in validation of a network during training.
+ - test_examples - Examples for training purposes.
- o train_examples - A randomly chosen set of examples for training
- purposes.
-
- o valdiation_examples - Randomly chosesn set of examples for
- use in validation of a network during training.
-
- o test_examples - Examples for training purposes.
"""
assert training_percent + validation_percent <= 1.0, \
"Training and validation percentages more than 100 percent"
@@ -72,8 +68,8 @@ class ExampleManager(object):
"""Add a set of training examples to the manager.
Arguments:
+ - training_examples - A list of TrainingExamples to manage.
- o training_examples - A list of TrainingExamples to manage.
"""
placement_rand = random.Random()
diff --git a/Bio/NeuralNetwork/__init__.py b/Bio/NeuralNetwork/__init__.py
index 6b137bb..cf186bb 100644
--- a/Bio/NeuralNetwork/__init__.py
+++ b/Bio/NeuralNetwork/__init__.py
@@ -1 +1,14 @@
-# Allow files in this directory to be imported
+# Copyright 2001 by Brad Chapman. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+"""Neural Network library (DEPRECATED)."""
+
+import warnings
+from Bio import BiopythonDeprecationWarning
+warnings.warn("Bio.NeuralNetwork has been deprecated, and we intend to remove"
+ " it in a future release of Biopython. Please consider using"
+ " scikit-learn or TensorFlow instead. If you would like to"
+ " continue using Bio.SomeModule, please contact the Biopython"
+ " developers via the mailing list or GitHub.",
+ BiopythonDeprecationWarning)
diff --git a/Bio/Nexus/Nexus.py b/Bio/Nexus/Nexus.py
index 2a40e46..4bcd243 100644
--- a/Bio/Nexus/Nexus.py
+++ b/Bio/Nexus/Nexus.py
@@ -36,7 +36,7 @@ SPECIAL_COMMANDS = ['charstatelabels', 'charlabels', 'taxlabels', 'taxset',
'charset', 'charpartition', 'taxpartition', 'matrix',
'tree', 'utree', 'translate', 'codonposset', 'title']
KNOWN_NEXUS_BLOCKS = ['trees', 'data', 'characters', 'taxa', 'sets', 'codons']
-PUNCTUATION = '()[]{}/\,;:=*\'"`+-<>'
+PUNCTUATION = '()[]{}\,;:=*\'"`+-<>'
MRBAYESSAFE = 'abcdefghijklmnopqrstuvwxyzABCDEFGHIJKLMNOPQRSTUVWXYZ1234567890_'
WHITESPACE = ' \t\n'
# SPECIALCOMMENTS = ['!','&','%','/','\\','@'] # original list of special comments
@@ -56,6 +56,7 @@ class CharBuffer(object):
This class is not intended for public use (any more).
"""
+
def __init__(self, string):
if string:
self.buffer = list(string)
@@ -76,6 +77,7 @@ class CharBuffer(object):
return None
def __next__(self):
+ """Iterates over NEXUS characters in the file."""
if self.buffer:
return self.buffer.pop(0)
else:
@@ -87,6 +89,7 @@ class CharBuffer(object):
return self.__next__()
def next_nonwhitespace(self):
+ """Checks for next non whitespace character in NEXUS file."""
while True:
p = next(self)
if p is None:
@@ -96,10 +99,15 @@ class CharBuffer(object):
return None
def skip_whitespace(self):
+ """Skips whitespace characters in NEXUS file."""
while self.buffer[0] in WHITESPACE:
self.buffer = self.buffer[1:]
def next_until(self, target):
+ """Keeps iterating the NEXUS file until it reaches a target character.
+
+ Returns the word found in the NEXUS file.
+ """
for t in target:
try:
pos = self.buffer.index(t)
@@ -113,6 +121,7 @@ class CharBuffer(object):
return None
def peek_word(self, word):
+ """Returns a word stored in the buffer."""
return ''.join(self.buffer[:len(word)]) == word
def next_word(self):
@@ -163,6 +172,7 @@ class StepMatrix(object):
See Wheeler (1990), Cladistics 6:269-275.
"""
+
def __init__(self, symbols, gap):
self.data = {}
self.symbols = sorted(symbols)
@@ -173,6 +183,7 @@ class StepMatrix(object):
self.set(x, y, 0)
def set(self, x, y, value):
+ """Swaps the value."""
if x > y:
x, y = y, x
self.data[x + y] = value
@@ -199,6 +210,7 @@ class StepMatrix(object):
return self
def smprint(self, name='your_name_here'):
+ """Prints a stepmatrix."""
matrix = 'usertype %s stepmatrix=%d\n' % (name, len(self.symbols))
matrix += ' %s\n' % ' '.join(self.symbols)
for x in self.symbols:
@@ -302,7 +314,6 @@ def _compact4nexus(orig_list):
"""Transform [1 2 3 5 6 7 8 12 15 18 20] (baseindex 0, used in the Nexus class)
into '2-4 6-9 13-19\\3 21' (baseindex 1, used in programs like Paup or MrBayes.).
"""
-
if not orig_list:
return ''
orig_list = sorted(set(orig_list))
@@ -339,7 +350,6 @@ def combine(matrices):
Character sets, character partitions and taxon sets are prefixed, readjusted
and present in the combined matrix.
"""
-
if not matrices:
return None
name = matrices[0][0]
@@ -382,10 +392,10 @@ def combine(matrices):
for t in m_only:
combined.matrix[t] = Seq(combined.missing * combined.nchar,
combined.alphabet) + \
- Seq(str(m.matrix[t])
- .replace(m.gap, combined.gap)
- .replace(m.missing, combined.missing),
- combined.alphabet)
+ Seq(str(m.matrix[t])
+ .replace(m.gap, combined.gap)
+ .replace(m.missing, combined.missing),
+ combined.alphabet)
combined.taxlabels.extend(m_only) # new taxon list
for cn, cs in m.charsets.items(): # adjust character sets for new matrix
combined.charsets['%s.%s' % (n, cn)] = [x + combined.nchar for x in cs]
@@ -502,7 +512,6 @@ def _adjust_lines(lines):
def _replace_parenthesized_ambigs(seq, rev_ambig_values):
"""Replaces ambigs in xxx(ACG)xxx format by IUPAC ambiguity code."""
-
opening = seq.find('(')
while opening > -1:
closing = seq.find(')')
@@ -558,6 +567,7 @@ class Commandline(object):
class Block(object):
"""Represent a NEXUS block with block name and list of commandlines."""
+
def __init__(self, title=None):
self.title = title
self.commandlines = []
@@ -617,7 +627,6 @@ class Nexus(object):
def read(self, input):
"""Read and parse NEXUS input (a filename, file-handle, or string)."""
-
# 1. Assume we have the name of a file in the execution dir or a
# file-like object.
# Note we need to add parsing of the path to dir/filename
@@ -840,6 +849,7 @@ class Nexus(object):
return nextaxa.get(nexid)
def _charlabels(self, options):
+ """Get labels for characters."""
self.charlabels = {}
opts = CharBuffer(options)
while True:
@@ -924,6 +934,7 @@ class Nexus(object):
pass
def _matrix(self, options):
+ """Creates a matrix for NEXUS object (PRIVATE)."""
if not self.ntax or not self.nchar:
raise NexusError('Dimensions must be specified before matrix!')
self.matrix = {}
@@ -1032,6 +1043,7 @@ class Nexus(object):
"Please Report this as a bug, and send in data file."
def _translate(self, options):
+ """Translates a Nexus file (PRIVATE)."""
self.translate = {}
opts = CharBuffer(options)
while True:
@@ -1094,6 +1106,7 @@ class Nexus(object):
self.trees.append(tree)
def _apply_block_structure(self, title, lines):
+ """Applies Block structure to the NEXUS file (PRIVATE)."""
block = Block('')
block.title = title
for line in lines:
@@ -1101,14 +1114,17 @@ class Nexus(object):
self.structured.append(block)
def _taxset(self, options):
+ """Creates unique taxset (PRIVATE)."""
name, taxa = self._get_indices(options, set_type=TAXSET)
self.taxsets[name] = _make_unique(taxa)
def _charset(self, options):
+ """Creates unique character set (PRIVATE)."""
name, sites = self._get_indices(options, set_type=CHARSET)
self.charsets[name] = _make_unique(sites)
def _taxpartition(self, options):
+ """Collects taxpartition from a NEXUS file (PRIVATE)."""
taxpartition = {}
quotelevel = False
opts = CharBuffer(options)
@@ -1139,7 +1155,6 @@ class Nexus(object):
Here codonposset is just a fancy name for a character partition with
the name CodonPositions and the partitions N,1,2,3
"""
-
prev_partitions = list(self.charpartitions.keys())
self._charpartition(options)
# mcclade calls it CodonPositions, but you never know...
@@ -1153,6 +1168,7 @@ class Nexus(object):
pass
def _charpartition(self, options):
+ """Collects character partition from NEXUS file (PRIVATE)."""
charpartition = {}
quotelevel = False
opts = CharBuffer(options)
@@ -1258,7 +1274,7 @@ class Nexus(object):
plain_list.append(start)
except NexusError:
raise
- except:
+ except Exception: # FIXME - this seems unwise
return None
return plain_list
@@ -1274,6 +1290,7 @@ class Nexus(object):
Plain numbers are translated in their taxon name, underscores and spaces are considered equal.
Names are returned unchanged (if plain taxon identifiers), or the names in
the corresponding taxon set is returned.
+
"""
identifier = quotestrip(identifier)
if not set_type:
@@ -1342,7 +1359,6 @@ class Nexus(object):
Only non-excluded characters and non-deleted taxa are included,
just the data block is written.
"""
-
if not matrix:
matrix = self.matrix
if not matrix:
@@ -1561,9 +1577,9 @@ class Nexus(object):
newpartition[sn] = nsp
if newpartition:
setsb.append('taxpartition %s = %s' % (safename(n),
- ', '.join('%s: %s' % (safename(sn),
- ' '.join(safename(x) for x in newpartition[sn]))
- for sn in names if sn in newpartition)))
+ ', '.join('%s: %s' % (safename(sn),
+ ' '.join(safename(x) for x in newpartition[sn]))
+ for sn in names if sn in newpartition)))
# add 'end' and return everything
setsb.append('end;\n')
if len(setsb) == 2: # begin and end only
@@ -1589,7 +1605,8 @@ class Nexus(object):
"""Writes matrix into a PHYLIP file.
Note that this writes a relaxed PHYLIP format file, where the names
- are not truncated, nor checked for invalid characters."""
+ are not truncated, nor checked for invalid characters.
+ """
if not filename:
if '.' in self.filename and self.filename.split('.')[-1].lower() in ['paup', 'nexus', 'nex', 'dat']:
filename = '.'.join(self.filename.split('.')[:-1]) + '.phy'
@@ -1729,7 +1746,6 @@ class Nexus(object):
def add_sequence(self, name, sequence):
"""Adds a sequence (string) to the matrix."""
-
if not name:
raise NexusError('New sequence must have a name')
@@ -1759,10 +1775,10 @@ class Nexus(object):
pos=0: first position
pos=nchar: last position
"""
-
def _adjust(set, x, d, leftgreedy=False):
"""Adjusts character sets if gaps are inserted, taking care of
- new gaps within a coherent character set."""
+ new gaps within a coherent character set.
+ """
# if 3 gaps are inserted at pos. 9 in a set that looks like 1 2 3 8 9 10 11 13 14 15
# then the adjusted set will be 1 2 3 8 9 10 11 12 13 14 15 16 17 18
# but inserting into position 8 it will stay like 1 2 3 11 12 13 14 15 16 17 18
@@ -1844,8 +1860,8 @@ class Nexus(object):
def terminal_gap_to_missing(self, missing=None, skip_n=True):
"""Replaces all terminal gaps with missing character.
- Mixtures like ???------??------- are properly resolved."""
-
+ Mixtures like ???------??------- are properly resolved.
+ """
if not missing:
missing = self.missing
replace = [self.missing, self.gap]
@@ -1883,70 +1899,3 @@ else:
# nexus file under normal circumstances)
commandlines = _adjust_lines(decommented.split(chr(7)))
return commandlines
-
-
-# Test code from command line (python Nexus.py)
-if __name__ == '__main__':
- print()
- print()
- print('=== NEXUS PARSING TEST ===')
- print()
-
- # 1. Check basic tree file with TREES and TAXA block
- print('Testing file "bats.nex": TREES and TAXA')
- nexus1 = Nexus()
- try:
- nexus1.read('../../Tests/Nexus/bats.nex')
- except Exception as nexus_error:
- raise Exception(nexus_error.message)
-
- # 2. Check simple sequence data file with DATA and CODONS block
- print('Testing file "codonposset.nex": DATA and CODONS')
- nexus2 = Nexus()
- try:
- nexus2.read('../../Tests/Nexus/codonposset.nex')
- except Exception as nexus_error:
- raise Exception(nexus_error.message)
-
- # 3. Check sequence data file with DATA, SETS, TREES and an unknown block
- print('Testing file "test_Nexus_input.nex": DATA, SETS, TREES and unknown')
- nexus3 = Nexus()
- try:
- nexus3.read('../../Tests/Nexus/test_Nexus_input.nex')
- except Exception as nexus_error:
- raise Exception(nexus_error.message)
-
- # 4. Check simple multi-state character data file with TAXA and CHARACTERS
- # block
- print('Testing file "vSysLab_Ganaspidium_multistate.nex": TAXA, CHARACTERS (multi-state)')
- nexus4 = Nexus()
- try:
- nexus4.read('../../Tests/Nexus/vSysLab_Ganaspidium_multistate.nex')
- except Exception as nexus_error:
- raise Exception(nexus_error.message)
-
- # 5. Check character data file with TAXA and CHARACTERS block with more
- # than 9 codings and a character without states
- print('Testing file "vSysLab_Heptascelio_no-states_10+chars.nex": TAXA, CHARACTERS (stateless and 10+ codings)')
- nexus5 = Nexus()
- try:
- nexus5.read('../../Tests/Nexus/vSysLab_Heptascelio_no-states_10+chars.nex')
- except Exception as nexus_error:
- raise Exception(nexus_error.message)
-
- # TODO: Not supported
- # 6. Check character data file with TAXA and two CHARACTERS blocks (one with continuous characters)
- # print('Testing file "vSysLab_Oreiscelio_discrete+continuous.nex": TAXA, 2 CHARACTERS (discrete and continuous)')
- #
- # nexus6 = Nexus()
- #
- # try:
- # nexus6.read('../../Tests/Nexus/vSysLab_Oreiscelio_discrete+continuous.nex')
- # except Exception as nexus_error:
- # raise Exception(nexus_error.message)
-
- # Made it here, so success
- print()
- print('Successfully completed test suite.')
- print()
- print()
diff --git a/Bio/Nexus/StandardData.py b/Bio/Nexus/StandardData.py
index 3cf7709..791927b 100644
--- a/Bio/Nexus/StandardData.py
+++ b/Bio/Nexus/StandardData.py
@@ -1,12 +1,16 @@
# Copyright 2014 Joe Cora.
+# Revisions copyright 2017 Peter Cock.
# All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Provides objects to represent NEXUS standard data type matrix coding.
-"""
+"""Objects to represent NEXUS standard data type matrix coding."""
from __future__ import print_function
+import sys
+
+from Bio._py3k import basestring
+
class NexusError(Exception):
pass
@@ -18,6 +22,7 @@ class StandardData(object):
Each coding specifies t [type] => (std [standard], multi [multistate] or
uncer [uncertain]) and d [data]
"""
+
def __init__(self, data):
self._data = []
self._current_pos = 0
@@ -80,16 +85,21 @@ class StandardData(object):
def __iter__(self):
return self
- def next(self):
+ def __next__(self):
try:
return_coding = self._data[self._current_pos]
- except:
+ except IndexError:
self._current_pos = 0
raise StopIteration
else:
self._current_pos += 1
return return_coding
+ if sys.version_info[0] < 3:
+ def next(self):
+ """Deprecated Python 2 style alias for Python 3 style __next__ method."""
+ return self.__next__()
+
def raw(self):
"""Returns the full coding as a python list."""
return self._data
diff --git a/Bio/Nexus/Trees.py b/Bio/Nexus/Trees.py
index af8c540..ff7a3dc 100755
--- a/Bio/Nexus/Trees.py
+++ b/Bio/Nexus/Trees.py
@@ -31,6 +31,7 @@ class TreeError(Exception):
class NodeData(object):
"""Stores tree-relevant data associated with nodes (e.g. branches or otus)."""
+
def __init__(self, taxon=None, branchlength=0.0, support=None, comment=None):
self.taxon = taxon
self.branchlength = branchlength
@@ -42,6 +43,7 @@ class Tree(Nodes.Chain):
"""Represents a tree using a chain of nodes with on predecessor (=ancestor)
and multiple successors (=subclades).
"""
+
# A newick tree is parsed into nested list and then converted to a node list in two stages
# mostly due to historical reasons. This could be done in one swoop). Note: parentheses ( ) and
# colon : are not allowed in taxon names. This is against NEXUS standard, but makes life much
@@ -100,14 +102,20 @@ class Tree(Nodes.Chain):
subtrees = []
plevel = 0
prev = 1
+ incomment = False
for p in range(1, closing):
- if tree[p] == '(':
+ if not incomment and tree[p] == '(':
plevel += 1
- elif tree[p] == ')':
+ elif not incomment and tree[p] == ')':
plevel -= 1
- elif tree[p] == ',' and plevel == 0:
+ elif tree[p:].startswith(NODECOMMENT_START):
+ incomment = True
+ elif incomment and tree[p] == NODECOMMENT_END:
+ incomment = False
+ elif not incomment and tree[p] == ',' and plevel == 0:
subtrees.append(tree[prev:p])
prev = p + 1
+
subtrees.append(tree[prev:closing])
subclades = [self._parse(subtree) for subtree in subtrees]
return [subclades, val]
@@ -129,8 +137,7 @@ class Tree(Nodes.Chain):
self.add(leaf, parent_id)
def _add_nodedata(self, nd, st):
- """Add data to the node parsed from the comments, taxon and support.
- """
+ """Add data to the node parsed from the comments, taxon and support."""
if isinstance(st[1][-1], str) and st[1][-1].startswith(NODECOMMENT_START):
nd.comment = st[1].pop(-1)
# if the first element is a string, it's the subtree node taxon
@@ -152,7 +159,6 @@ class Tree(Nodes.Chain):
def _get_values(self, text):
"""Extracts values (support/branchlength) from xx[:yyy], xx."""
-
if text == '':
return None
nodecomment = None
@@ -183,7 +189,6 @@ class Tree(Nodes.Chain):
def _walk(self, node=None):
"""Return all node_ids downwards from a node."""
-
if node is None:
node = self.root
for n in self.node(node).succ:
@@ -238,7 +243,6 @@ class Tree(Nodes.Chain):
and its branchlength added to remaining terminal node. This might be no
longer a meaningful value'
"""
-
id = self.search_taxon(taxon)
if id is None:
raise TreeError('Taxon not found: %s' % taxon)
@@ -264,7 +268,6 @@ class Tree(Nodes.Chain):
nodes = get_taxa(self,node_id=None)
"""
-
if node_id is None:
node_id = self.root
if node_id not in self.chain:
@@ -306,8 +309,10 @@ class Tree(Nodes.Chain):
return len([n for n in self._walk(node) if self.is_terminal(n)])
def collapse_genera(self, space_equals_underscore=True):
- """Collapses all subtrees which belong to the same genus (i.e share the same first word in their taxon name.)"""
+ """Collapses all subtrees which belong to the same genus.
+ (i.e share the same first word in their taxon name.)
+ """
while True:
for n in self._walk():
if self.is_terminal(n):
@@ -339,7 +344,6 @@ class Tree(Nodes.Chain):
sum = sum_branchlength(self,root=None,node=None)
"""
-
if root is None:
root = self.root
if node is None:
@@ -355,13 +359,12 @@ class Tree(Nodes.Chain):
sets = set_subtree(self,node)
"""
-
if self.node(node).succ == []:
return self.node(node).data.taxon
else:
try:
return frozenset(self.set_subtree(n) for n in self.node(node).succ)
- except:
+ except Exception:
print(node)
print(self.node(node).succ)
for n in self.node(node).succ:
@@ -381,7 +384,6 @@ class Tree(Nodes.Chain):
result = is_compatible(self,tree2,threshold)
"""
-
# check if both trees have the same set of taxa. strict=True enforces this.
missing2 = set(self.get_taxa()) - set(tree2.get_taxa())
missing1 = set(tree2.get_taxa()) - set(self.get_taxa())
@@ -412,16 +414,15 @@ class Tree(Nodes.Chain):
node_id = common_ancestor(self,node1,node2)
"""
-
l1 = [self.root] + self.trace(self.root, node1)
l2 = [self.root] + self.trace(self.root, node2)
return [n for n in l1 if n in l2][-1]
def distance(self, node1, node2):
"""Add and return the sum of the branchlengths between two nodes.
+
dist = distance(self,node1,node2)
"""
-
ca = self.common_ancestor(node1, node2)
return self.sum_branchlength(ca, node1) + self.sum_branchlength(ca, node2)
@@ -468,7 +469,6 @@ class Tree(Nodes.Chain):
This is necessary when support has been stored as branchlength (e.g. paup), and has thus
been read in as branchlength.
"""
-
for n in self.chain:
self.node(n).data.support = self.node(n).data.branchlength
self.node(n).data.branchlength = 0.0
@@ -477,8 +477,8 @@ class Tree(Nodes.Chain):
"""Convert absolute support (clade-count) to rel. frequencies.
Some software (e.g. PHYLIP consense) just calculate how often clades appear, instead of
- calculating relative frequencies."""
-
+ calculating relative frequencies.
+ """
for n in self._walk():
if self.node(n).data.support:
self.node(n).data.support /= float(nrep)
@@ -497,7 +497,6 @@ class Tree(Nodes.Chain):
new_tree = randomize(self,ntax=None,taxon_list=None,branchlength=1.0,branchlength_sd=None,bifurcate=True)
Trees are bifurcating by default. (Polytomies not yet supported).
"""
-
if not ntax and taxon_list:
ntax = len(taxon_list)
elif not taxon_list and ntax:
@@ -616,7 +615,6 @@ class Tree(Nodes.Chain):
def newickize(node, ladderize=None):
"""Convert a node tree to a newick tree recursively."""
-
if not self.node(node).succ: # terminal
return self.node(node).data.taxon + make_info_string(self.node(node).data, terminal=True)
else:
@@ -648,7 +646,6 @@ class Tree(Nodes.Chain):
def unroot(self):
"""Defines a unrooted Tree structure, using data of a rooted Tree."""
-
# travel down the rooted tree structure and save all branches and the nodes they connect
def _get_branches(node):
@@ -756,7 +753,6 @@ class Tree(Nodes.Chain):
or
tree=merge_bootstrap(phylo,consree=consensus_tree with clade support)
"""
-
if bstrees and constree:
raise TreeError('Specify either list of bootstrap trees or consensus tree, not both')
if not (bstrees or constree):
@@ -767,7 +763,7 @@ class Tree(Nodes.Chain):
succnodes = self.node(self.root).succ
smallest = min((len(self.get_taxa(n)), n) for n in succnodes)
outgroup = self.get_taxa(smallest[1])
- except:
+ except Exception:
raise TreeError("Error determining outgroup.")
else: # root with user specified outgroup
self.root_with_outgroup(outgroup)
@@ -787,7 +783,6 @@ class Tree(Nodes.Chain):
def consensus(trees, threshold=0.5, outgroup=None):
"""Compute a majority rule consensus tree of all clades with relative frequency>=threshold from a list of trees."""
-
total = len(trees)
if total == 0:
return None
diff --git a/Bio/PDB/AbstractPropertyMap.py b/Bio/PDB/AbstractPropertyMap.py
index 745d736..ed4fede 100644
--- a/Bio/PDB/AbstractPropertyMap.py
+++ b/Bio/PDB/AbstractPropertyMap.py
@@ -34,8 +34,7 @@ class AbstractPropertyMap(object):
return (translated_id in self.property_dict)
def __getitem__(self, key):
- """
- Return property for a residue.
+ """Return property for a residue.
@param chain_id: chain id
@type chain_id: char
@@ -50,8 +49,7 @@ class AbstractPropertyMap(object):
return self.property_dict[translated_id]
def __len__(self):
- """
- Return number of residues for which the property is available.
+ """Return number of residues for which the property is available.
@return: number of residues
@rtype: int
@@ -85,8 +83,7 @@ class AbstractPropertyMap(object):
return (id in self)
def keys(self):
- """
- Return the list of residues.
+ """Return the list of residues.
@return: list of residues for which the property was calculated
@rtype: [(chain_id, res_id), (chain_id, res_id),...]
@@ -94,13 +91,15 @@ class AbstractPropertyMap(object):
return self.property_keys
def __iter__(self):
- """
- Iterate over the (entity, property) list. Handy alternative to
- the dictionary-like access.
+ """Iterate over the (entity, property) list.
+
+ Handy alternative to the dictionary-like access.
Example:
+
>>> for (res, property) in iter(map):
... print(res, property)
+ ...
@return: iterator
"""
diff --git a/Bio/PDB/Atom.py b/Bio/PDB/Atom.py
index 9bac75a..23e2c59 100644
--- a/Bio/PDB/Atom.py
+++ b/Bio/PDB/Atom.py
@@ -187,6 +187,7 @@ class Atom(object):
Arguments:
- parent - Residue object
+
"""
self.parent = parent
@@ -256,9 +257,10 @@ class Atom(object):
"""Apply rotation and translation to the atomic coordinates.
Example:
- >>> rotation=rotmat(pi, Vector(1, 0, 0))
- >>> translation=array((0, 0, 1), 'f')
- >>> atom.transform(rotation, translation)
+
+ >>> rotation=rotmat(pi, Vector(1, 0, 0))
+ >>> translation=array((0, 0, 1), 'f')
+ >>> atom.transform(rotation, translation)
@param rot: A right multiplying rotation matrix
@type rot: 3x3 Numeric array
@@ -300,11 +302,13 @@ class DisorderedAtom(DisorderedEntityWrapper):
different Atom object can be selected by using the disordered_select(altloc)
method.
"""
+
def __init__(self, id):
"""Create DisorderedAtom.
Arguments:
- id - string, atom name
+
"""
# TODO - make this a private attribute?
self.last_occupancy = -999999
diff --git a/Bio/PDB/Chain.py b/Bio/PDB/Chain.py
index 74ab570..f1e07b0 100644
--- a/Bio/PDB/Chain.py
+++ b/Bio/PDB/Chain.py
@@ -16,7 +16,7 @@ class Chain(Entity):
# Private methods
def _sort(self, r1, r2):
- """Sort function for residues in a chain
+ """Sort function for residues in a chain (PRIVATE).
Residues are first sorted according to their hetatm records.
Protein and nucleic acid residues first, hetatm residues next,
@@ -26,7 +26,8 @@ class Chain(Entity):
Arguments:
- - r1, r2 - Residue objects
+ - r1, r2 - Residue objects
+
"""
hetflag1, resseq1, icode1 = r1.id
hetflag2, resseq2, icode2 = r2.id
@@ -37,7 +38,8 @@ class Chain(Entity):
return cmp(icode1, icode2)
def _translate_id(self, id):
- """
+ """Translate sequence identifer to tuple form (PRIVATE).
+
A residue id is normally a tuple (hetero flag, sequence identifier,
insertion code). Since for most residues the hetero flag and the
insertion code are blank (i.e. " "), you can just use the sequence
@@ -46,7 +48,9 @@ class Chain(Entity):
" ") tuple.
Arguments:
- o id - int, residue resseq
+
+ - id - int, residue resseq
+
"""
if isinstance(id, int):
id = (' ', id, ' ')
@@ -62,7 +66,9 @@ class Chain(Entity):
method.
Arguments:
- o id - (string, int, string) or int
+
+ - id - (string, int, string) or int
+
"""
id = self._translate_id(id)
return Entity.__getitem__(self, id)
@@ -71,15 +77,20 @@ class Chain(Entity):
"""True if a residue with given id is present in this chain.
Arguments:
- o id - (string, int, string) or int
+
+ - id - (string, int, string) or int
+
"""
id = self._translate_id(id)
return Entity.__contains__(self, id)
def __delitem__(self, id):
- """
+ """Delete item.
+
Arguments:
- o id - (string, int, string) or int
+
+ - id - (string, int, string) or int
+
"""
id = self._translate_id(id)
return Entity.__delitem__(self, id)
@@ -115,7 +126,8 @@ class Chain(Entity):
Arguments:
- - id - (string, int, string) or int
+ - id - (string, int, string) or int
+
"""
id = self._translate_id(id)
return Entity.has_id(self, id)
diff --git a/Bio/PDB/DSSP.py b/Bio/PDB/DSSP.py
index 0350d4d..99fad96 100644
--- a/Bio/PDB/DSSP.py
+++ b/Bio/PDB/DSSP.py
@@ -3,29 +3,10 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Use the DSSP program to calculate secondary structure and accessibility.
+r"""Use the DSSP program to calculate secondary structure and accessibility.
You need to have a working version of DSSP (and a license, free for academic
-use) in order to use this. For DSSP, see U{http://swift.cmbi.ru.nl/gv/dssp/}.
-
-The DSSP codes for secondary structure used here are:
-
- H
- Alpha helix (4-12)
- B
- Isolated beta-bridge residue
- E
- Strand
- G
- 3-10 helix
- I
- pi helix
- T
- Turn
- S
- Bend
- \-
- None
+use) in order to use this. For DSSP, see http://swift.cmbi.ru.nl/gv/dssp/.
The following Accessible surface area (ASA) values can be used, defaulting
to the Sander and Rost values:
@@ -37,6 +18,74 @@ to the Sander and Rost values:
Wilke
Tien et al. 2013 http://dx.doi.org/10.1371/journal.pone.0080635
+The DSSP codes for secondary structure used here are:
+
+ ===== ====
+ Code Structure
+ ===== ====
+ H Alpha helix (4-12)
+ B Isolated beta-bridge residue
+ E Strand
+ G 3-10 helix
+ I Pi helix
+ T Turn
+ S Bend
+ \- None
+ ===== ====
+
+Usage
+-----
+
+The DSSP class can be used to run DSSP on a pdb file, and provides a
+handle to the DSSP secondary structure and accessibility.
+
+**Note** that DSSP can only handle one model, and will only run
+calculations on the first model in the provided PDB file.
+
+Example:
+--------
+
+>>> p = PDBParser()
+>>> structure = p.get_structure("1MOT", "1mot.pdb")
+>>> model = structure[0]
+>>> dssp = DSSP(model, "1mot.pdb")
+
+Note that the recent DSSP executable from the DSSP-2 package was
+renamed from `dssp` to `mkdssp`. If using a recent DSSP release,
+you may need to provide the name of your DSSP executable:
+
+>>> dssp = DSSP(model, '1mot.pdb', dssp='mkdssp')
+
+DSSP data is accessed by a tuple - (chain id, residue id):
+
+>>> a_key = list(dssp.keys())[2]
+>>> a_key
+('A', (' ', 251, ' '))
+>>> dssp[a_key]
+(3, 'A', 'H', 0.7075471698113207, -61.2, -42.4,
+ -2, -0.7, 4, -3.0, 1, -0.2, 5, -0.2)
+
+The dssp data returned for a single residue is a tuple in the form:
+
+ ============ ===
+ Tuple Index Value
+ ============ ===
+ 0 DSSP index
+ 1 Amino acid
+ 2 Secondary structure
+ 3 Relative ASA
+ 4 Phi
+ 5 Psi
+ 6 NH-->O_1_relidx
+ 7 NH-->O_1_energy
+ 8 O-->NH_1_relidx
+ 9 O-->NH_1_energy
+ 10 NH-->O_2_relidx
+ 11 NH-->O_2_energy
+ 12 O-->NH_2_relidx
+ 13 O-->NH_2_energy
+ ============ ===
+
"""
from __future__ import print_function
@@ -46,12 +95,10 @@ from Bio._py3k import StringIO
import subprocess
import warnings
-from Bio.Data import SCOPData
-
from Bio.PDB.AbstractPropertyMap import AbstractResiduePropertyMap
from Bio.PDB.PDBExceptions import PDBException
from Bio.PDB.PDBParser import PDBParser
-
+from Bio.PDB.Polypeptide import three_to_one
# Match C in DSSP
_dssp_cys = re.compile('[a-z]')
@@ -125,11 +172,21 @@ def dssp_dict_from_pdb_file(in_file, DSSP="dssp"):
a dictionary that maps (chainid, resid) to
amino acid type, secondary structure code and
accessibility.
+
"""
# Using universal newlines is important on Python 3, this
# gives unicode handles rather than bytes handles.
- p = subprocess.Popen([DSSP, in_file], universal_newlines=True,
- stdout=subprocess.PIPE, stderr=subprocess.PIPE)
+ # Newer version of DSSP executable is named 'mkdssp',
+ # and calling 'dssp' will hence not work in some operating systems
+ # (Debian distribution of DSSP includes a symlink for 'dssp' argument)
+ try:
+ p = subprocess.Popen([DSSP, in_file], universal_newlines=True,
+ stdout=subprocess.PIPE, stderr=subprocess.PIPE)
+ except OSError: # TODO: Use FileNotFoundError once drop Python 2
+ if DSSP == "mkdssp":
+ raise
+ p = subprocess.Popen(["mkdssp", in_file], universal_newlines=True,
+ stdout=subprocess.PIPE, stderr=subprocess.PIPE)
out, err = p.communicate()
# Alert user for errors
@@ -146,12 +203,13 @@ def make_dssp_dict(filename):
"""DSSP dictionary mapping identifers to properties.
Return a DSSP dictionary that maps (chainid, resid) to
- aa, ss and accessibility, from a DSSP file. ::
+ aa, ss and accessibility, from a DSSP file.
Parameters
----------
filename : string
the DSSP output file
+
"""
with open(filename, "r") as handle:
return _make_dssp_dict(handle)
@@ -163,12 +221,13 @@ def _make_dssp_dict(handle):
Return a DSSP dictionary that maps (chainid, resid) to an amino acid,
secondary structure symbol, solvent accessibility value, and hydrogen bond
information (relative dssp indices and hydrogen bond energies) from an open
- DSSP file object. ::
+ DSSP file object.
Parameters
----------
handle : file
the open DSSP output file handle
+
"""
dssp = {}
start = 0
@@ -251,20 +310,17 @@ class DSSP(AbstractResiduePropertyMap):
--------
>>> p = PDBParser()
- >>> structure = p.get_structure("1MOT", "1MOT.pdb")
+ >>> structure = p.get_structure("1MOT", "1mot.pdb")
>>> model = structure[0]
- >>> dssp = DSSP(model, "1MOT.pdb")
+ >>> dssp = DSSP(model, "1mot.pdb")
>>> # DSSP data is accessed by a tuple (chain_id, res_id)
>>> a_key = list(dssp.keys())[2]
- >>> # residue object, secondary structure, solvent accessibility,
- >>> # relative accessiblity, phi, psi
+ >>> # (dssp index, amino acid, secondary structure, relative ASA, phi, psi,
+ >>> # NH_O_1_relidx, NH_O_1_energy, O_NH_1_relidx, O_NH_1_energy,
+ >>> # NH_O_2_relidx, NH_O_2_energy, O_NH_2_relidx, O_NH_2_energy)
>>> dssp[a_key]
- (<Residue ALA het= resseq=251 icode= >,
- 'H',
- 72,
- 0.67924528301886788,
- -61.200000000000003,
- -42.399999999999999)
+ (3, 'A', 'H', 0.7075471698113207, -61.2, -42.4,
+ -2, -0.7, 4, -3.0, 1, -0.2, 5, -0.2)
"""
def __init__(self, model, in_file, dssp="dssp", acc_array="Sander", file_type='PDB'):
@@ -284,8 +340,8 @@ class DSSP(AbstractResiduePropertyMap):
Sander/Wilke/Miller. Defaults to Sander.
file_type: string
File type switch, either PDB or DSSP with PDB as default.
- """
+ """
self.residue_max_acc = residue_max_acc[acc_array]
# create DSSP dictionary
@@ -293,6 +349,18 @@ class DSSP(AbstractResiduePropertyMap):
assert(file_type in ['PDB', 'DSSP'])
# If the input file is a PDB file run DSSP and parse output:
if file_type == 'PDB':
+ # Newer versions of DSSP program call the binary 'mkdssp', so
+ # calling 'dssp' will not work in some operating systems
+ # (Debian distribution of DSSP includes a symlink for 'dssp' argument)
+ try:
+ dssp_dict, dssp_keys = dssp_dict_from_pdb_file(in_file, dssp)
+ except OSError: # TODO: Use FileNotFoundError once drop Python 2
+ if dssp == 'dssp':
+ dssp = 'mkdssp'
+ elif dssp == 'mkdssp':
+ dssp = 'dssp'
+ else:
+ raise
dssp_dict, dssp_keys = dssp_dict_from_pdb_file(in_file, dssp)
# If the input file is a DSSP file just parse it directly:
elif file_type == 'DSSP':
@@ -405,7 +473,10 @@ class DSSP(AbstractResiduePropertyMap):
# Verify if AA in DSSP == AA in Structure
# Something went wrong if this is not true!
# NB: DSSP uses X often
- resname = SCOPData.protein_letters_3to1.get(resname, 'X')
+ try:
+ resname = three_to_one(resname)
+ except KeyError:
+ resname = 'X'
if resname == "C":
# DSSP renames C in C-bridges to a,b,c,d,...
# - we rename it back to 'C'
diff --git a/Bio/PDB/Dice.py b/Bio/PDB/Dice.py
index 94d971e..cda2f67 100644
--- a/Bio/PDB/Dice.py
+++ b/Bio/PDB/Dice.py
@@ -2,22 +2,26 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
+"""Code for chopping up (dicing) a structure.
+
+This module is used internally by the Bio.PDB.extract() function.
+"""
import re
import warnings
from Bio.PDB.PDBIO import PDBIO
-
+from Bio import BiopythonWarning
_hydrogen = re.compile("[123 ]*H.*")
class ChainSelector(object):
+ """Only accepts residues with right chainid, between start and end.
+
+ Remove hydrogens, waters and ligands. Only use model 0 by default.
"""
- Only accepts residues with right chainid
- and between start and end. Remove hydrogens, waters and ligands.
- Only use model 0 by default.
- """
+
def __init__(self, chain_id, start, end, model_id=0):
self.chain_id = chain_id
self.start = start
@@ -42,8 +46,8 @@ class ChainSelector(object):
# skip HETATMS
return 0
if icode != " ":
- warnings.warn("WARNING: Icode at %s" % residue.get_id(),
- RuntimeWarning)
+ warnings.warn("WARNING: Icode %s at position %s"
+ % (icode, resseq), BiopythonWarning)
if self.start <= resseq <= self.end:
return 1
return 0
@@ -58,9 +62,7 @@ class ChainSelector(object):
def extract(structure, chain_id, start, end, filename):
- """
- Write out selected portion to filename.
- """
+ """Write out selected portion to filename."""
sel = ChainSelector(chain_id, start, end)
io = PDBIO()
io.set_structure(structure)
diff --git a/Bio/PDB/Entity.py b/Bio/PDB/Entity.py
index de591ad..4f74b14 100644
--- a/Bio/PDB/Entity.py
+++ b/Bio/PDB/Entity.py
@@ -3,8 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-Base class for Residue, Chain, Model and Structure classes.
+"""Base class for Residue, Chain, Model and Structure classes.
It is a simple container class, with list and dictionary like properties.
"""
@@ -15,12 +14,14 @@ from Bio.PDB.PDBExceptions import PDBConstructionException
class Entity(object):
+ """Basic container object for PDB heirachy.
+
+ Structure, Model, Chain and Residue are subclasses of Entity.
+ It deals with storage and lookup.
"""
- Basic container object. Structure, Model, Chain and Residue
- are subclasses of Entity. It deals with storage and lookup.
- """
+
def __init__(self, id):
- self.id = id
+ self._id = id
self.full_id = None
self.parent = None
self.child_list = []
@@ -31,28 +32,70 @@ class Entity(object):
# Special methods
def __len__(self):
- "Return the number of children."
+ """Return the number of children."""
return len(self.child_list)
def __getitem__(self, id):
- "Return the child with given id."
+ """Return the child with given id."""
return self.child_dict[id]
def __delitem__(self, id):
- "Remove a child."
+ """Remove a child."""
return self.detach_child(id)
def __contains__(self, id):
- "True if there is a child element with the given id."
+ """True if there is a child element with the given id."""
return (id in self.child_dict)
def __iter__(self):
- "Iterate over children."
+ """Iterate over children."""
for child in self.child_list:
yield child
+ # Private methods
+
+ def _reset_full_id(self):
+ """Reset the full_id.
+
+ Sets the full_id of this entity and
+ recursively of all its children to None.
+ This means that it will be newly generated
+ at the next call to get_full_id.
+ """
+ for child in self:
+ try:
+ child._reset_full_id()
+ except AttributeError:
+ pass # Atoms do not cache their full ids.
+ self.full_id = None
+
# Public methods
+ @property
+ def id(self):
+ return self._id
+
+ @id.setter
+ def id(self, value):
+ """Change the id of this entity.
+
+ This will update the child_dict of this entity's parent
+ and invalidate all cached full ids involving this entity.
+
+ @raises: ValueError
+ """
+ if self.parent:
+ if value in self.parent.child_dict:
+ raise ValueError(
+ "Cannot change id from `{}` to `{}`. "
+ "The id `{}` is already used for a sibling of"
+ " this entity.".format(self._id, value, value))
+ del self.parent.child_dict[self._id]
+ self.parent.child_dict[value] = self
+
+ self._id = value
+ self._reset_full_id()
+
def get_level(self):
"""Return level in hierarchy.
@@ -65,22 +108,22 @@ class Entity(object):
return self.level
def set_parent(self, entity):
- "Set the parent Entity object."
+ """Set the parent Entity object."""
self.parent = entity
def detach_parent(self):
- "Detach the parent."
+ """Detach the parent."""
self.parent = None
def detach_child(self, id):
- "Remove a child."
+ """Remove a child."""
child = self.child_dict[id]
child.detach_parent()
del self.child_dict[id]
self.child_list.remove(child)
def add(self, entity):
- "Add a child to the Entity."
+ """Add a child to the Entity."""
entity_id = entity.get_id()
if self.has_id(entity_id):
raise PDBConstructionException(
@@ -90,7 +133,7 @@ class Entity(object):
self.child_dict[entity_id] = entity
def insert(self, pos, entity):
- "Add a child to the Entity at a specified position."
+ """Add a child to the Entity at a specified position."""
entity_id = entity.get_id()
if self.has_id(entity_id):
raise PDBConstructionException(
@@ -100,12 +143,12 @@ class Entity(object):
self.child_dict[entity_id] = entity
def get_iterator(self):
- "Return iterator over children."
+ """Return iterator over children."""
for child in self.child_list:
yield child
def get_list(self):
- "Return a copy of the list of children."
+ """Return a copy of the list of children."""
return copy(self.child_list)
def has_id(self, id):
@@ -113,11 +156,11 @@ class Entity(object):
return (id in self.child_dict)
def get_parent(self):
- "Return the parent Entity object."
+ """Return the parent Entity object."""
return self.parent
def get_id(self):
- "Return the id."
+ """Return the id."""
return self.id
def get_full_id(self):
@@ -153,8 +196,7 @@ class Entity(object):
return self.full_id
def transform(self, rot, tran):
- """
- Apply rotation and translation to the atomic coordinates.
+ """Apply rotation and translation to the atomic coordinates.
Example:
>>> rotation=rotmat(pi, Vector(1, 0, 0))
@@ -185,7 +227,8 @@ class Entity(object):
class DisorderedEntityWrapper(object):
- """
+ """Wrapper class to group equivalent Entities.
+
This class is a simple wrapper class that groups a number of equivalent
Entities and forwards all method calls to one of them (the currently selected
object). DisorderedResidue and DisorderedAtom are subclasses of this class.
@@ -194,6 +237,7 @@ class DisorderedEntityWrapper(object):
where each Atom object represents a specific position of a disordered
atom in the structure.
"""
+
def __init__(self, id):
self.id = id
self.child_dict = {}
@@ -203,7 +247,10 @@ class DisorderedEntityWrapper(object):
# Special methods
def __getattr__(self, method):
- "Forward the method call to the selected child."
+ """Forward the method call to the selected child."""
+ if method == '__setstate__':
+ # Avoid issues with recursion when attempting deepcopy
+ raise AttributeError
if not hasattr(self, 'selected_child'):
# Avoid problems with pickling
# Unpickling goes into infinite loop!
@@ -211,25 +258,25 @@ class DisorderedEntityWrapper(object):
return getattr(self.selected_child, method)
def __getitem__(self, id):
- "Return the child with the given id."
+ """Return the child with the given id."""
return self.selected_child[id]
# XXX Why doesn't this forward to selected_child?
# (NB: setitem was here before getitem, iter, len, sub)
def __setitem__(self, id, child):
- "Add a child, associated with a certain id."
+ """Add a child, associated with a certain id."""
self.child_dict[id] = child
def __contains__(self, id):
- "True if the child has the given id."
+ """True if the child has the given id."""
return (id in self.selected_child)
def __iter__(self):
- "Return the number of children."
+ """Return the number of children."""
return iter(self.selected_child)
def __len__(self):
- "Return the number of children."
+ """Return the number of children."""
return len(self.selected_child)
def __sub__(self, other):
@@ -239,7 +286,7 @@ class DisorderedEntityWrapper(object):
# Public methods
def get_id(self):
- "Return the id."
+ """Return the id."""
return self.id
def disordered_has_id(self, id):
@@ -247,17 +294,17 @@ class DisorderedEntityWrapper(object):
return (id in self.child_dict)
def detach_parent(self):
- "Detach the parent"
+ """Detach the parent."""
self.parent = None
for child in self.disordered_get_list():
child.detach_parent()
def get_parent(self):
- "Return parent."
+ """Return parent."""
return self.parent
def set_parent(self, parent):
- "Set the parent for the object and its children."
+ """Set the parent for the object and its children."""
self.parent = parent
for child in self.disordered_get_list():
child.set_parent(parent)
@@ -270,17 +317,18 @@ class DisorderedEntityWrapper(object):
self.selected_child = self.child_dict[id]
def disordered_add(self, child):
- "This is implemented by DisorderedAtom and DisorderedResidue."
+ """Add disordered entry.
+
+ This is implemented by DisorderedAtom and DisorderedResidue.
+ """
raise NotImplementedError
def is_disordered(self):
- """
- Return 2, indicating that this Entity is a collection of Entities.
- """
+ """Return 2, indicating that this Entity is a collection of Entities."""
return 2
def disordered_get_id_list(self):
- "Return a list of id's."
+ """Return a list of id's."""
# sort id list alphabetically
return sorted(self.child_dict)
@@ -294,5 +342,5 @@ class DisorderedEntityWrapper(object):
return self.child_dict[id]
def disordered_get_list(self):
- "Return list of children."
+ """Return list of children."""
return list(self.child_dict.values())
diff --git a/Bio/PDB/FragmentMapper.py b/Bio/PDB/FragmentMapper.py
index 0bb36b2..109639c 100644
--- a/Bio/PDB/FragmentMapper.py
+++ b/Bio/PDB/FragmentMapper.py
@@ -18,7 +18,7 @@ J Mol Biol. 2002 323(2):297-307.
The definition files of the fragments can be obtained from:
-U{http://csb.stanford.edu/~rachel/fragments/}
+http://github.com/csblab/fragments/
You need these files to use this module.
@@ -28,6 +28,7 @@ The library files can be found in directory 'fragment_data'.
>>> model = structure[0]
>>> fm = FragmentMapper(model, lsize=10, flength=5, dir="fragment_data")
>>> fragment = fm[residue]
+
"""
from __future__ import print_function
@@ -49,9 +50,10 @@ _FRAGMENT_FILE = "lib_%s_z_%s.txt"
def _read_fragments(size, length, dir="."):
- """
- Read a fragment spec file (available from
- U{http://csb.stanford.edu/rachel/fragments/}
+ """Read a fragment spec file (PRIVATE).
+
+ Read a fragment spec file available from
+ http://github.com/csblab/fragments/
and return a list of Fragment objects.
@param size: number of fragments in the library
@@ -88,11 +90,11 @@ def _read_fragments(size, length, dir="."):
class Fragment(object):
- """
- Represent a polypeptide C-alpha fragment.
- """
+ """Represent a polypeptide C-alpha fragment."""
+
def __init__(self, length, fid):
- """
+ """Initialize fragment object.
+
@param length: length of the fragment
@type length: int
@@ -109,28 +111,32 @@ class Fragment(object):
self.fid = fid
def get_resname_list(self):
- """
+ """Get residue list.
+
@return: the residue names
@rtype: [string, string,...]
"""
return self.resname_list
def get_id(self):
- """
+ """Get identifier for the fragment.
+
@return: id for the fragment
@rtype: int
"""
return self.fid
def get_coords(self):
- """
+ """Get the CA coordinates in the fragment.
+
@return: the CA coords in the fragment
@rtype: Numeric (Nx3) array
"""
return self.coords_ca
def add_residue(self, resname, ca_coord):
- """
+ """Add a residue.
+
@param resname: residue name (eg. GLY).
@type resname: string
@@ -144,17 +150,14 @@ class Fragment(object):
self.counter = self.counter + 1
def __len__(self):
- """
- @return: length of fragment
- @rtype: int
- """
+ """Return lengt of the fragment."""
return self.length
def __sub__(self, other):
- """
- Return rmsd between two fragments.
+ """Return rmsd between two fragments.
Example:
+
>>> rmsd=fragment1-fragment2
@return: rmsd between fragments
@@ -166,7 +169,8 @@ class Fragment(object):
return sup.get_rms()
def __repr__(self):
- """
+ """String representing the fragment object.
+
Returns <Fragment length=L id=ID> where L=length of fragment
and ID the identifier (rank in the library).
"""
@@ -174,8 +178,7 @@ class Fragment(object):
def _make_fragment_list(pp, length):
- """
- Dice up a peptide in fragments of length "length".
+ """Dice up a peptide in fragments of length "length".
@param pp: a list of residues (part of one peptide)
@type pp: [L{Residue}, L{Residue}, ...]
@@ -202,9 +205,9 @@ def _make_fragment_list(pp, length):
def _map_fragment_list(flist, reflist):
- """
- Map all frgaments in flist to the closest
- (in RMSD) fragment in reflist.
+ """Map flist fragments to closest entry in reflist (PRIVATE).
+
+ Map all frgaments in flist to the closest (in RMSD) fragment in reflist.
Returns a list of reflist indices.
@@ -228,24 +231,23 @@ def _map_fragment_list(flist, reflist):
class FragmentMapper(object):
- """
- Map polypeptides in a model to lists of representative fragments.
- """
+ """Map polypeptides in a model to lists of representative fragments."""
+
def __init__(self, model, lsize=20, flength=5, fdir="."):
"""Create instance of FragmentMapper
- @param model: the model that will be mapped
- @type model: L{Model}
+ @param model: the model that will be mapped
+ @type model: L{Model}
- @param lsize: number of fragments in the library
- @type lsize: int
+ @param lsize: number of fragments in the library
+ @type lsize: int
- @param flength: length of fragments in the library
- @type flength: int
+ @param flength: length of fragments in the library
+ @type flength: int
- @param fdir: directory where the definition files are
- found (default=".")
- @type fdir: string
+ @param fdir: directory where the definition files are
+ found (default=".")
+ @type fdir: string
"""
if flength == 5:
self.edge = 2
@@ -260,8 +262,7 @@ class FragmentMapper(object):
self.fd = self._map(self.model)
def _map(self, model):
- """
- @param model: the model that will be mapped
+ """@param model: the model that will be mapped
@type model: L{Model}
"""
ppb = PPBuilder()
@@ -312,25 +313,11 @@ class FragmentMapper(object):
return (res in self.fd)
def __getitem__(self, res):
- """
+ """Get an entry.
+
@type res: L{Residue}
@return: fragment classification
@rtype: L{Fragment}
"""
return self.fd[res]
-
-
-if __name__ == "__main__":
-
- import sys
-
- p = PDBParser()
- s = p.get_structure("X", sys.argv[1])
- m = s[0]
- fm = FragmentMapper(m, 10, 5, "levitt_data")
-
- for r in Selection.unfold_entities(m, "R"):
- print("%s:" % r)
- if r in fm:
- print(fm[r])
diff --git a/Bio/PDB/HSExposure.py b/Bio/PDB/HSExposure.py
index 7ece35e..06a0f8a 100644
--- a/Bio/PDB/HSExposure.py
+++ b/Bio/PDB/HSExposure.py
@@ -11,24 +11,22 @@ import warnings
from math import pi
from Bio.PDB.AbstractPropertyMap import AbstractPropertyMap
-from Bio.PDB.PDBParser import PDBParser
from Bio.PDB.Polypeptide import CaPPBuilder, is_aa
from Bio.PDB.Vector import rotaxis
class _AbstractHSExposure(AbstractPropertyMap):
- """
- Abstract class to calculate Half-Sphere Exposure (HSE).
+ """Abstract class to calculate Half-Sphere Exposure (HSE).
The HSE can be calculated based on the CA-CB vector, or the pseudo CB-CA
vector based on three consecutive CA atoms. This is done by two separate
subclasses.
"""
+
def __init__(self, model, radius, offset, hse_up_key, hse_down_key,
angle_key=None):
- """
- @param model: model
- @type model: L{Model}
+ """@param model: model
+ @type model: L{Model}
@param radius: HSE radius
@type radius: float
@@ -104,12 +102,12 @@ class _AbstractHSExposure(AbstractPropertyMap):
AbstractPropertyMap.__init__(self, hse_map, hse_keys, hse_list)
def _get_cb(self, r1, r2, r3):
- """This method is provided by the subclasses to calculate HSE."""
+ """Method is provided by the subclasses to calculate HSE (PRIVATE)."""
return NotImplemented
def _get_gly_cb_vector(self, residue):
- """
- Return a pseudo CB vector for a Gly residue.
+ """Return a pseudo CB vector for a Gly residue (PRIVATE).
+
The pseudoCB vector is centered at the origin.
CB coord=N coord rotated over -120 degrees
@@ -119,7 +117,7 @@ class _AbstractHSExposure(AbstractPropertyMap):
n_v = residue["N"].get_vector()
c_v = residue["C"].get_vector()
ca_v = residue["CA"].get_vector()
- except:
+ except Exception:
return None
# center at origin
n_v = n_v - ca_v
@@ -135,12 +133,14 @@ class _AbstractHSExposure(AbstractPropertyMap):
class HSExposureCA(_AbstractHSExposure):
+ """Class to calculate HSE based on the approximate CA-CB vectors.
+
+ Uses three consecutive CA positions.
"""
- Class to calculate HSE based on the approximate CA-CB vectors,
- using three consecutive CA positions.
- """
+
def __init__(self, model, radius=12, offset=0):
- """
+ """Initialse class.
+
@param model: the model that contains the residues
@type model: L{Model}
@@ -154,7 +154,8 @@ class HSExposureCA(_AbstractHSExposure):
'EXP_HSE_A_U', 'EXP_HSE_A_D', 'EXP_CB_PCB_ANGLE')
def _get_cb(self, r1, r2, r3):
- """
+ """Calculate approx CA-CB direction (PRIVATE).
+
Calculate the approximate CA-CB direction for a central
CA atom based on the two flanking CA positions, and the angle
with the real CA-CB vector.
@@ -170,7 +171,7 @@ class HSExposureCA(_AbstractHSExposure):
ca1 = r1['CA'].get_vector()
ca2 = r2['CA'].get_vector()
ca3 = r3['CA'].get_vector()
- except:
+ except Exception:
return None
# center
d1 = ca2 - ca1
@@ -199,7 +200,8 @@ class HSExposureCA(_AbstractHSExposure):
return b, angle
def pcb_vectors_pymol(self, filename="hs_exp.py"):
- """
+ """Write PyMol script for visualization.
+
Write a PyMol script that visualizes the pseudo CB-CA directions
at the CA coordinates.
@@ -225,11 +227,11 @@ class HSExposureCA(_AbstractHSExposure):
class HSExposureCB(_AbstractHSExposure):
- """
- Class to calculate HSE based on the real CA-CB vectors.
- """
+ """Class to calculate HSE based on the real CA-CB vectors."""
+
def __init__(self, model, radius=12, offset=0):
- """
+ """Initialize class.
+
@param model: the model that contains the residues
@type model: L{Model}
@@ -243,8 +245,7 @@ class HSExposureCB(_AbstractHSExposure):
'EXP_HSE_B_U', 'EXP_HSE_B_D')
def _get_cb(self, r1, r2, r3):
- """
- Method to calculate CB-CA vector.
+ """Method to calculate CB-CA vector.
@param r1, r2, r3: three consecutive residues (only r2 is used)
@type r1, r2, r3: L{Residue}
@@ -260,8 +261,11 @@ class HSExposureCB(_AbstractHSExposure):
class ExposureCN(AbstractPropertyMap):
+ """Residue exposure as number of CA atoms around its CA atom."""
+
def __init__(self, model, radius=12.0, offset=0):
- """
+ """Initialize.
+
A residue's exposure is defined as the number of CA atoms around
that residues CA atom. A dictionary is returned that uses a L{Residue}
object as key, and the residue exposure as corresponding value.
@@ -309,38 +313,3 @@ class ExposureCN(AbstractPropertyMap):
# Add to xtra
r1.xtra['EXP_CN'] = fs
AbstractPropertyMap.__init__(self, fs_map, fs_keys, fs_list)
-
-
-if __name__ == "__main__":
-
- import sys
-
- p = PDBParser()
- s = p.get_structure('X', sys.argv[1])
- model = s[0]
-
- # Neighbor sphere radius
- RADIUS = 13.0
- OFFSET = 0
-
- hse = HSExposureCA(model, radius=RADIUS, offset=OFFSET)
- for l in hse:
- print(l)
- print("")
-
- hse = HSExposureCB(model, radius=RADIUS, offset=OFFSET)
- for l in hse:
- print(l)
- print("")
-
- hse = ExposureCN(model, radius=RADIUS, offset=OFFSET)
- for l in hse:
- print(l)
- print("")
-
- for c in model:
- for r in c:
- try:
- print(r.xtra['PCB_CB_ANGLE'])
- except:
- pass
diff --git a/Bio/PDB/MMCIF2Dict.py b/Bio/PDB/MMCIF2Dict.py
index 908ccaa..7de81ae 100644
--- a/Bio/PDB/MMCIF2Dict.py
+++ b/Bio/PDB/MMCIF2Dict.py
@@ -7,11 +7,10 @@
from __future__ import print_function
-from Bio.File import as_handle
-from Bio._py3k import input as _input
-
import shlex
+from Bio.File import as_handle
+
class MMCIF2Dict(dict):
"""Parse a mmCIF file and return a dictionary."""
@@ -21,6 +20,7 @@ class MMCIF2Dict(dict):
Arguments:
- file - name of the PDB file OR an open filehandle
+
"""
with as_handle(filename) as handle:
loop_flag = False
@@ -74,35 +74,3 @@ class MMCIF2Dict(dict):
tokens = shlex.split(line)
for token in tokens:
yield token
-
-
-if __name__ == "__main__":
-
- import sys
-
- if len(sys.argv) != 2:
- print("Usage: python MMCIF2Dict filename.")
-
- filename = sys.argv[1]
-
- mmcif_dict = MMCIF2Dict(filename)
-
- entry = ""
- print("Now type a key ('q' to end, 'k' for a list of all keys):")
- while(entry != "q"):
- entry = _input("MMCIF dictionary key ==> ")
- if entry == "q":
- sys.exit()
- if entry == "k":
- for key in mmcif_dict:
- print(key)
- continue
- try:
- value = mmcif_dict[entry]
- if isinstance(value, list):
- for item in value:
- print(item)
- else:
- print(value)
- except KeyError:
- print("No such key found.")
diff --git a/Bio/PDB/MMCIFParser.py b/Bio/PDB/MMCIFParser.py
index d673dc9..0b0dba4 100644
--- a/Bio/PDB/MMCIFParser.py
+++ b/Bio/PDB/MMCIFParser.py
@@ -3,12 +3,10 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""mmCIF parsers"""
+"""mmCIF parsers."""
from __future__ import print_function
-from string import ascii_letters
-
import numpy
import warnings
@@ -37,6 +35,7 @@ class MMCIFParser(object):
- QUIET - Evaluated as a Boolean. If true, warnings issued in constructing
the SMCRA data will be suppressed. If false (DEFAULT), they will be shown.
These warnings might be indicative of problems in the mmCIF file!
+
"""
if structure_builder is not None:
self._structure_builder = structure_builder
@@ -56,6 +55,7 @@ class MMCIFParser(object):
Arguments:
- structure_id - string, the id that will be used for the structure
- filename - name of the mmCIF file OR an open filehandle
+
"""
with warnings.catch_warnings():
if self.QUIET:
@@ -113,6 +113,7 @@ class MMCIFParser(object):
# Now loop over atoms and build the structure
current_chain_id = None
current_residue_id = None
+ current_resname = None
structure_builder = self._structure_builder
structure_builder.init_structure(structure_id)
structure_builder.init_seg(" ")
@@ -151,7 +152,10 @@ class MMCIFParser(object):
raise PDBConstructionException("Invalid or missing occupancy")
fieldname = fieldname_list[i]
if fieldname == "HETATM":
- hetatm_flag = "H"
+ if resname == "HOH" or resname == "WAT":
+ hetatm_flag = "W"
+ else:
+ hetatm_flag = "H"
else:
hetatm_flag = " "
@@ -167,6 +171,7 @@ class MMCIFParser(object):
structure_builder.init_model(current_model_id, current_serial_id)
current_chain_id = None
current_residue_id = None
+ current_resname = None
else:
# no explicit model column; initialize single model
structure_builder.init_model(current_model_id)
@@ -175,9 +180,11 @@ class MMCIFParser(object):
current_chain_id = chainid
structure_builder.init_chain(current_chain_id)
current_residue_id = None
+ current_resname = None
- if current_residue_id != resseq:
+ if current_residue_id != resseq or current_resname != resname:
current_residue_id = resseq
+ current_resname = resname
structure_builder.init_residue(resname, hetatm_flag, int_resseq, icode)
coord = numpy.array((x, y, z), 'f')
@@ -228,6 +235,7 @@ class FastMMCIFParser(object):
- QUIET - Evaluated as a Boolean. If true, warnings issued in constructing
the SMCRA data will be suppressed. If false (DEFAULT), they will be shown.
These warnings might be indicative of problems in the mmCIF file!
+
"""
if structure_builder is not None:
self._structure_builder = structure_builder
@@ -246,12 +254,13 @@ class FastMMCIFParser(object):
Arguments:
- structure_id - string, the id that will be used for the structure
- filename - name of the mmCIF file OR an open filehandle
+
"""
with warnings.catch_warnings():
if self.QUIET:
warnings.filterwarnings("ignore", category=PDBConstructionWarning)
- with as_handle(filename) as handle:
- self._build_structure(structure_id, handle)
+ with as_handle(filename) as handle:
+ self._build_structure(structure_id, handle)
return self._structure_builder.get_structure()
@@ -340,6 +349,7 @@ class FastMMCIFParser(object):
# Now loop over atoms and build the structure
current_chain_id = None
current_residue_id = None
+ current_resname = None
structure_builder = self._structure_builder
structure_builder.init_structure(structure_id)
structure_builder.init_seg(" ")
@@ -398,6 +408,7 @@ class FastMMCIFParser(object):
structure_builder.init_model(current_model_id, current_serial_id)
current_chain_id = None
current_residue_id = None
+ current_resname = None
else:
# no explicit model column; initialize single model
structure_builder.init_model(current_model_id)
@@ -406,9 +417,11 @@ class FastMMCIFParser(object):
current_chain_id = chainid
structure_builder.init_chain(current_chain_id)
current_residue_id = None
+ current_resname = None
- if current_residue_id != resseq:
+ if current_residue_id != resseq or current_resname != resname:
current_residue_id = resseq
+ current_resname = resname
structure_builder.init_residue(resname, hetatm_flag, int_resseq, icode)
coord = numpy.array((x, y, z), 'f')
@@ -421,21 +434,3 @@ class FastMMCIFParser(object):
mapped_anisou = [float(x) for x in u]
anisou_array = numpy.array(mapped_anisou, 'f')
structure_builder.set_anisou(anisou_array)
-
-if __name__ == "__main__":
- import sys
-
- if len(sys.argv) != 2:
- print("Usage: python MMCIFparser.py filename")
- raise SystemExit
- filename = sys.argv[1]
-
- p = MMCIFParser()
-
- structure = p.get_structure("test", filename)
-
- for model in structure.get_list():
- print(model)
- for chain in model.get_list():
- print(chain)
- print("Found %d residues." % len(chain.get_list()))
diff --git a/Bio/PDB/Model.py b/Bio/PDB/Model.py
index 336a0dd..cbc4843 100644
--- a/Bio/PDB/Model.py
+++ b/Bio/PDB/Model.py
@@ -9,18 +9,19 @@ from Bio.PDB.Entity import Entity
class Model(Entity):
- """
- The object representing a model in a structure. In a structure
+ """The object representing a model in a structure. In a structure
derived from an X-ray crystallography experiment, only a single
model will be present (with some exceptions). NMR structures
normally contain many different models.
"""
def __init__(self, id, serial_num=None):
- """
+ """Initialize.
+
Arguments:
- o id - int
- o serial_num - int
+ - id - int
+ - serial_num - int
+
"""
self.level = "M"
if serial_num is None:
@@ -40,7 +41,8 @@ class Model(Entity):
of waters.
Arguments:
- o c1, c2 - Chain objects
+ - c1, c2 - Chain objects
+
"""
id1 = c1.get_id()
id2 = c2.get_id()
diff --git a/Bio/PDB/NeighborSearch.py b/Bio/PDB/NeighborSearch.py
index c6ce599..939531b 100644
--- a/Bio/PDB/NeighborSearch.py
+++ b/Bio/PDB/NeighborSearch.py
@@ -27,15 +27,16 @@ class NeighborSearch(object):
NeighborSearch makes use of the Bio.KDTree C++ module, so it's fast.
"""
+
def __init__(self, atom_list, bucket_size=10):
"""Create the object.
Arguments:
-
- atom_list - list of atoms. This list is used in the queries.
It can contain atoms from different structures.
- bucket_size - bucket size of KD tree. You can play around
with this to optimize speed if you feel like it.
+
"""
self.atom_list = atom_list
# get the coordinates
@@ -79,10 +80,10 @@ class NeighborSearch(object):
M=models, S=structures).
Arguments:
-
- center - Numeric array
- radius - float
- level - char (A, R, C, M, S)
+
"""
if level not in entity_levels:
raise PDBException("%s: Unknown level" % level)
@@ -105,9 +106,9 @@ class NeighborSearch(object):
radius.
Arguments:
-
- radius - float
- level - char (A, R, C, M, S)
+
"""
if level not in entity_levels:
raise PDBException("%s: Unknown level" % level)
@@ -128,6 +129,7 @@ class NeighborSearch(object):
if level == l:
return next_level_pair_list
+
if __name__ == "__main__":
from numpy.random import random
diff --git a/Bio/PDB/PDBIO.py b/Bio/PDB/PDBIO.py
index 67a088c..d3703b9 100644
--- a/Bio/PDB/PDBIO.py
+++ b/Bio/PDB/PDBIO.py
@@ -51,7 +51,9 @@ class PDBIO(object):
>>> io=PDBIO()
>>> io.set_structure(s)
>>> io.save("out.pdb")
+
"""
+
def __init__(self, use_model_flag=0):
"""Creat the PDBIO object.
@@ -69,6 +71,7 @@ class PDBIO(object):
record_type = "HETATM"
else:
record_type = "ATOM "
+
if atom.element:
element = atom.element.strip().upper()
if element.capitalize() not in atom_weights:
@@ -76,7 +79,15 @@ class PDBIO(object):
element = element.rjust(2)
else:
element = " "
- name = atom.get_fullname()
+
+ name = atom.get_fullname().strip()
+ # Pad atom name if:
+ # - smaller than 4 characters
+ # AND - is not C, N, O, S, H, F, P, ..., one letter elements
+ # AND - first character is NOT numeric (funky hydrogen naming rules)
+ if len(name) < 4 and name[:1].isalpha() and len(element.strip()) < 2:
+ name = " " + name
+
altloc = atom.get_altloc()
x, y, z = atom.get_coord()
bfactor = atom.get_bfactor()
@@ -140,9 +151,8 @@ class PDBIO(object):
structure = sb.structure
self.structure = structure
- def save(self, file, select=Select(), write_end=True):
- """
- @param file: output file
+ def save(self, file, select=Select(), write_end=True, preserve_atom_numbering=False):
+ """@param file: output file
@type file: string or filehandle
@param select: selects which entities will be written.
@@ -181,7 +191,8 @@ class PDBIO(object):
# do not write ENDMDL if no residues were written
# for this model
model_residues_written = 0
- atom_number = 1
+ if not preserve_atom_numbering:
+ atom_number = 1
if model_flag:
fp.write("MODEL %s\n" % model.serial_num)
for chain in model.get_list():
@@ -202,12 +213,17 @@ class PDBIO(object):
if select.accept_atom(atom):
chain_residues_written = 1
model_residues_written = 1
+ if preserve_atom_numbering:
+ atom_number = atom.get_serial_number()
s = get_atom_line(atom, hetfield, segid, atom_number, resname,
- resseq, icode, chain_id)
+ resseq, icode, chain_id)
fp.write(s)
- atom_number = atom_number + 1
+ if not preserve_atom_numbering:
+ atom_number += 1
if chain_residues_written:
- fp.write("TER\n")
+ fp.write("TER %5i %3s %c%4i%c \n"
+ % (atom_number, resname, chain_id, resseq, icode))
+
if model_flag and model_residues_written:
fp.write("ENDMDL\n")
if write_end:
@@ -215,6 +231,7 @@ class PDBIO(object):
if close_file:
fp.close()
+
if __name__ == "__main__":
from Bio.PDB.PDBParser import PDBParser
diff --git a/Bio/PDB/PDBList.py b/Bio/PDB/PDBList.py
index 20f72f0..9cd981a 100644
--- a/Bio/PDB/PDBList.py
+++ b/Bio/PDB/PDBList.py
@@ -13,12 +13,24 @@
# email : krother at genesilico.pl
#
#
+# (c) 2016 Wiktoria Karwicka & Jacek Smietanski
+# - updated and Python 3.x compatible code
+# - new options to enable download PDBx/mmCif, PDBML and mmtf formatted
+# files as well as large PDB bundles
+# - unit tests for the module
+#
+# Contact the corresponding author
+# homepage : http://jaceksmietanski.net
+# email : jacek.smietanski at ii.uj.edu.pl
+#
# This code is released under the conditions of the Biopython license.
-# It may be distributed freely with respect to the original author.
+# Please see the LICENSE file that should have been included as part of this
+# package.
+# It may be distributed freely with respect to the original authors.
# Any maintainer of the Biopython code may change this notice
# when appropriate.
-""" Access the PDB over the internet (e.g. to download structures). """
+"""Access the PDB over the internet (e.g. to download structures)."""
from __future__ import print_function
@@ -26,14 +38,19 @@ import contextlib
import gzip
import os
import shutil
+import re
+import sys
# Importing these functions with leading underscore as not intended for reuse
+from Bio._py3k import _as_string
from Bio._py3k import urlopen as _urlopen
from Bio._py3k import urlretrieve as _urlretrieve
+from Bio._py3k import urlcleanup as _urlcleanup
class PDBList(object):
- """
+ """Quick access to the structure lists on the PDB or its mirrors.
+
This class provides quick access to the structure lists on the
PDB server or its mirrors. The structure lists contain
four-letter PDB codes, indicating that structures are
@@ -44,6 +61,15 @@ class PDBList(object):
To use it properly, prepare a directory /pdb or the like,
where PDB files are stored.
+ All available file formats (PDB, PDBx/mmCif, PDBML, mmtf) are supported.
+ Please note that large structures (containing >62 chains
+ and/or 99999 ATOM lines) are no longer stored as a single PDB file
+ and by default (when PDB format selected) are not downloaded.
+
+ Large structures can be downloaded in other formats, including PDBx/mmCif
+ or as a .tar file (a collection of PDB-like formatted files for a given
+ structure).
+
If you want to use this module from inside a proxy, add
the proxy variable to your environment, e.g. in Unix:
export HTTP_PROXY='http://realproxy.charite.de:888'
@@ -57,9 +83,6 @@ class PDBList(object):
http://www.pdb.org/.
"""
- alternative_download_url = "http://www.rcsb.org/pdb/files/"
- # just append PDB code to this, and then it works.
-
def __init__(self, server='ftp://ftp.wwpdb.org', pdb=os.getcwd(),
obsolete_pdb=None):
"""Initialize the class with the default server or a custom one."""
@@ -74,11 +97,19 @@ class PDBList(object):
if not os.access(self.obsolete_pdb, os.F_OK):
os.makedirs(self.obsolete_pdb)
- # variables for command-line options
- self.overwrite = 0
- self.flat_tree = 0
+ # variable for command-line option
+ self.flat_tree = False
- def get_status_list(self, url):
+ @staticmethod
+ def _print_default_format_warning(file_format):
+ """Temporary warning (similar to a deprecation warning) that files are being downloaded in mmCIF"""
+ if file_format is None:
+ sys.stderr.write("WARNING: The default download format has changed from PDB to PDBx/mmCif\n")
+ return "mmCif"
+ return file_format
+
+ @staticmethod
+ def get_status_list(url):
"""Retrieves a list of pdb codes in the weekly pdb status file
from the given URL. Used by get_recent_files.
@@ -90,7 +121,7 @@ class PDBList(object):
for line in handle:
pdb = line.strip()
assert len(pdb) == 4
- answer.append(pdb)
+ answer.append(_as_string(pdb))
return answer
def get_recent_changes(self):
@@ -102,18 +133,14 @@ class PDBList(object):
largest numerical name is used.
Returns None if something goes wrong.
- Contents of the data/status dir (20031013 would be used);
- drwxrwxr-x 2 1002 sysadmin 512 Oct 6 18:28 20031006
- drwxrwxr-x 2 1002 sysadmin 512 Oct 14 02:14 20031013
- -rw-r--r-- 1 1002 sysadmin 1327 Mar 12 2001 README
- """
- url = self.pdb_server + '/pub/pdb/data/status/'
- with contextlib.closing(_urlopen(url)) as handle:
- recent = filter(str.isdigit,
- (x.split()[-1] for x in handle.readlines())
- )[-1]
+ Contents of the data/status dir (20031013 would be used);:
- path = self.pdb_server + '/pub/pdb/data/status/%s/' % (recent)
+ drwxrwxr-x 2 1002 sysadmin 512 Oct 6 18:28 20031006
+ drwxrwxr-x 2 1002 sysadmin 512 Oct 14 02:14 20031013
+ -rw-r--r-- 1 1002 sysadmin 1327 Mar 12 2001 README
+
+ """
+ path = self.pdb_server + '/pub/pdb/data/status/latest/'
# Retrieve the lists
added = self.get_status_list(path + 'added.pdb')
@@ -122,14 +149,14 @@ class PDBList(object):
return [added, modified, obsolete]
def get_all_entries(self):
- """Retrieves a big file containing all the
- PDB entries and some annotation to them.
+ """Retrieves a big file containing all the PDB entries and some annotation.
+
Returns a list of PDB codes in the index file.
"""
- print("retrieving index file. Takes about 5 MB.")
url = self.pdb_server + '/pub/pdb/derived_data/index/entries.idx'
+ print("Retrieving index file. Takes about 27 MB.")
with contextlib.closing(_urlopen(url)) as handle:
- all_entries = [line[:4] for line in handle.readlines()[2:]
+ all_entries = [_as_string(line[:4]) for line in handle.readlines()[2:]
if len(line) > 4]
return all_entries
@@ -162,33 +189,76 @@ class PDBList(object):
# to include an assert to check for mis-reading the data.
obsolete = []
for line in handle:
- if not line.startswith("OBSLTE "):
+ if not line.startswith(b"OBSLTE "):
continue
pdb = line.split()[2]
assert len(pdb) == 4
- obsolete.append(pdb)
+ obsolete.append(_as_string(pdb))
return obsolete
- def retrieve_pdb_file(self, pdb_code, obsolete=False, pdir=None):
- """ Retrieves a PDB structure file from the PDB server and
- stores it in a local file tree.
+ def retrieve_pdb_file(self, pdb_code, obsolete=False, pdir=None, file_format=None, overwrite=False):
+ """Fetch PDB structure file from PDB server, and store it locally.
The PDB structure's file name is returned as a single string.
If obsolete ``==`` True, the file will be saved in a special file tree.
+ NOTE. The default download format has changed from PDB to PDBx/mmCif
+
+ @param pdb_code: 4-symbols structure Id from PDB (e.g. 3J92).
+ @type pdb_code: string
+
+ @param file_format:
+ File format. Available options:
+
+ * "mmCif" (default, PDBx/mmCif file),
+ * "pdb" (format PDB),
+ * "xml" (PDBML/XML format),
+ * "mmtf" (highly compressed),
+ * "bundle" (PDB formatted archive for large structure}
+
+ @type file_format: string
+
+ @param overwrite: if set to True, existing structure files will be overwritten. Default: False
+ @type overwrite: bool
+
+ @param obsolete:
+ Has a meaning only for obsolete structures. If True, download the obsolete structure
+ to 'obsolete' folder, otherwise download won't be performed.
+ This option doesn't work for mmtf format as obsoleted structures aren't stored in mmtf.
+ Also doesn't have meaning when parameter pdir is specified.
+ Note: make sure that you are about to download the really obsolete structure.
+ Trying to download non-obsolete structure into obsolete folder will not work
+ and you face the "structure doesn't exists" error.
+ Default: False
+
+ @type obsolete: bool
+
@param pdir: put the file in this directory (default: create a PDB-style directory tree)
@type pdir: string
@return: filename
@rtype: string
"""
+ file_format = self._print_default_format_warning(file_format) # Deprecation warning
+
# Get the compressed PDB structure
code = pdb_code.lower()
- archive_fn = "pdb%s.ent.gz" % code
- pdb_dir = "divided" if not obsolete else "obsolete"
- url = (self.pdb_server +
- '/pub/pdb/data/structures/%s/pdb/%s/%s' %
- (pdb_dir, code[1:3], archive_fn))
+ archive = {'pdb': 'pdb%s.ent.gz', 'mmCif': '%s.cif.gz', 'xml': '%s.xml.gz', 'mmtf': '%s',
+ 'bundle': '%s-pdb-bundle.tar.gz'}
+ archive_fn = archive[file_format] % code
+
+ if file_format not in archive.keys():
+ raise("Specified file_format %s doesn't exists or is not supported. Maybe a typo. "
+ "Please, use one of the following: mmCif, pdb, xml, mmtf, bundle" % file_format)
+
+ if file_format in ('pdb', 'mmCif', 'xml'):
+ pdb_dir = "divided" if not obsolete else "obsolete"
+ file_type = "pdb" if file_format == "pdb" else "mmCIF" if file_format == "mmCif" else "XML"
+ url = (self.pdb_server + '/pub/pdb/data/structures/%s/%s/%s/%s' % (pdb_dir, file_type, code[1:3], archive_fn))
+ elif file_format == 'bundle':
+ url = (self.pdb_server + '/pub/pdb/compatible/pdb_bundle/%s/%s/%s' % (code[1:3], code, archive_fn))
+ else:
+ url = ('http://mmtf.rcsb.org/v1.0/full/%s' % code)
# Where does the final PDB file get saved?
if pdir is None:
@@ -199,45 +269,49 @@ class PDBList(object):
path = pdir
if not os.access(path, os.F_OK):
os.makedirs(path)
-
filename = os.path.join(path, archive_fn)
- final_file = os.path.join(path, "pdb%s.ent" % code) # (decompressed)
+ final = {'pdb': 'pdb%s.ent', 'mmCif': '%s.cif', 'xml': '%s.xml',
+ 'mmtf': '%s.mmtf', 'bundle': '%s-pdb-bundle.tar'}
+ final_file = os.path.join(path, final[file_format] % code)
# Skip download if the file already exists
- if not self.overwrite:
+ if not overwrite:
if os.path.exists(final_file):
print("Structure exists: '%s' " % final_file)
return final_file
# Retrieve the file
print("Downloading PDB structure '%s'..." % pdb_code)
- _urlretrieve(url, filename)
-
- # Uncompress the archive, delete when done
- # Can't use context manager with gzip.open until Python 2.7
- gz = gzip.open(filename, 'rb')
- with open(final_file, 'wb') as out:
- out.writelines(gz)
- gz.close()
- os.remove(filename)
-
+ try:
+ _urlcleanup()
+ _urlretrieve(url, filename)
+ except IOError:
+ print("Desired structure doesn't exists")
+ else:
+ with gzip.open(filename, 'rb') as gz:
+ with open(final_file, 'wb') as out:
+ out.writelines(gz)
+ os.remove(filename)
return final_file
- def update_pdb(self):
- """
+ def update_pdb(self, file_format=None):
+ """Update your local copy of the PDB files.
+
I guess this is the 'most wanted' function from this module.
It gets the weekly lists of new and modified pdb entries and
automatically downloads the according PDB files.
- You can call this module as a weekly cronjob.
+ You can call this module as a weekly cron job.
"""
assert os.path.isdir(self.local_pdb)
assert os.path.isdir(self.obsolete_pdb)
+ file_format = self._print_default_format_warning(file_format) # Deprecation warning
+
new, modified, obsolete = self.get_recent_changes()
for pdb_code in new + modified:
try:
- self.retrieve_pdb_file(pdb_code)
+ self.retrieve_pdb_file(pdb_code, file_format=file_format)
except Exception:
print('error %s\n' % pdb_code)
# you can insert here some more log notes that
@@ -266,30 +340,88 @@ class PDBList(object):
else:
print("Obsolete file %s is missing" % old_file)
- def download_entire_pdb(self, listfile=None):
+ def download_pdb_files(self, pdb_codes, obsolete=False, pdir=None, file_format=None, overwrite=False):
+ """Fetch set of PDB structure files from the PDB server and stores them locally.
+
+ The PDB structure's file name is returned as a single string.
+ If obsolete ``==`` True, the files will be saved in a special file tree.
+
+ @param pdb_codes: a list of 4-symbols structure Ids from PDB
+ @type pdb_codes: list of strings
+
+ @param file_format:
+ File format. Available options:
+
+ * "mmCif" (default, PDBx/mmCif file),
+ * "pdb" (format PDB),
+ * "xml" (PMDML/XML format),
+ * "mmtf" (highly compressed),
+ * "bundle" (PDB formatted archive for large structure}
+
+ @param overwrite: if set to True, existing structure files will be overwritten. Default: False
+ @type overwrite: bool
+
+ @param obsolete:
+ Has a meaning only for obsolete structures.
+ If True, download the obsolete structure
+ to 'obsolete' folder, otherwise download won't be performed.
+ This option doesn't work for mmtf format as obsoleted structures are not availbe as mmtf.
+ (default: False)
+
+ @type obsolete: bool
+
+ @param pdir: put the file in this directory (default: create a PDB-style directory tree)
+ @type pdir: string
+
+ @return: filenames
+ @rtype: string
+ """
+ file_format = self._print_default_format_warning(file_format) # Deprecation warning
+ for pdb_code in pdb_codes:
+ self.retrieve_pdb_file(pdb_code, obsolete=obsolete, pdir=pdir, file_format=file_format, overwrite=overwrite)
+
+ def download_entire_pdb(self, listfile=None, file_format=None):
"""Retrieve all PDB entries not present in the local PDB copy.
- Writes a list file containing all PDB codes (optional, if listfile is
- given).
+ @param listfile: filename to which all PDB codes will be written (optional)
+
+ @param file_format:
+ File format. Available options:
+
+ * "mmCif" (default, PDBx/mmCif file),
+ * "pdb" (format PDB),
+ * "xml" (PMDML/XML format),
+ * "mmtf" (highly compressed),
+ * "bundle" (PDB formatted archive for large structure}
+
+ NOTE. The default download format has changed from PDB to PDBx/mmCif
"""
+ file_format = self._print_default_format_warning(file_format) # Deprecation warning
entries = self.get_all_entries()
for pdb_code in entries:
- self.retrieve_pdb_file(pdb_code)
+ self.retrieve_pdb_file(pdb_code, file_format=file_format)
# Write the list
if listfile:
with open(listfile, 'w') as outfile:
outfile.writelines((x + '\n' for x in entries))
- def download_obsolete_entries(self, listfile=None):
+ def download_obsolete_entries(self, listfile=None, file_format=None):
"""Retrieve all obsolete PDB entries not present in the local obsolete
PDB copy.
- Writes a list file containing all PDB codes (optional, if listfile is
- given).
+ @param listfile: filename to which all PDB codes will be written (optional)
+
+ @param file_format: file format. Available options:
+ "mmCif" (default, PDBx/mmCif file),
+ "pdb" (format PDB),
+ "xml" (PMDML/XML format),
+
+ NOTE. The default download format has changed from PDB to PDBx/mmCif
"""
+ file_format = self._print_default_format_warning(file_format) # Deprecation warning
entries = self.get_all_obsolete()
for pdb_code in entries:
- self.retrieve_pdb_file(pdb_code, obsolete=1)
+ self.retrieve_pdb_file(pdb_code, obsolete=True, file_format=file_format)
# Write the list
if listfile:
@@ -297,65 +429,82 @@ class PDBList(object):
outfile.writelines((x + '\n' for x in entries))
def get_seqres_file(self, savefile='pdb_seqres.txt'):
- """Retrieves a (big) file containing all the sequences of PDB entries
- and writes it to a file.
- """
- print("Retrieving sequence file (takes about 15 MB).")
+ """Retrieves and save a (big) file containing all the sequences of PDB entries."""
+ print("Retrieving sequence file (takes over 110 MB).")
url = self.pdb_server + '/pub/pdb/derived_data/pdb_seqres.txt'
_urlretrieve(url, savefile)
if __name__ == '__main__':
- import sys
-
doc = """PDBList.py
- (c) Kristian Rother 2003, Contributed to BioPython
+ (c) Kristian Rother 2003, Wiktoria Karwicka & Jacek Smietanski 2016
+ Contributed to Biopython
+
+ Usage::
- Usage:
- PDBList.py update <pdb_path> [options] - write weekly PDB updates to
- local pdb tree.
- PDBList.py all <pdb_path> [options] - write all PDB entries to
- local pdb tree.
- PDBList.py obsol <pdb_path> [options] - write all obsolete PDB
- entries to local pdb tree.
- PDBList.py <PDB-ID> <pdb_path> [options] - retrieve single structure
+ PDBList.py update <pdb_path> [options] - write weekly PDB updates to
+ local pdb tree.
+ PDBList.py all <pdb_path> [options] - write all PDB entries to
+ local pdb tree.
+ PDBList.py obsol <pdb_path> [options] - write all obsolete PDB
+ entries to local pdb tree.
+ PDBList.py <PDB-ID> <pdb_path> [options] - retrieve single structure
+ PDBList.py (<PDB-ID1>,<PDB-ID2>,...) <pdb_path> [options] - retrieve a set
+ of structures
Options:
- -d A single directory will be used as <pdb_path>, not a tree.
- -o Overwrite existing structure files.
+ -d A single directory will be used as <pdb_path>, not a tree.
+ -o Overwrite existing structure files.
+ -pdb Downloads structures in PDB format
+ -xml Downloads structures in PDBML (XML) format
+ -mmtf Downloads structures in mmtf format
+
+ Maximum one format can be specified simultaneously (if more selected, only
+ the last will be considered). By default (no format specified) structures are
+ downloaded as PDBx/mmCif files.
"""
print(doc)
+ file_format = "mmCif"
+ overwrite = False
+
if len(sys.argv) > 2:
pdb_path = sys.argv[2]
pl = PDBList(pdb=pdb_path)
if len(sys.argv) > 3:
for option in sys.argv[3:]:
if option == '-d':
- pl.flat_tree = 1
+ pl.flat_tree = True
elif option == '-o':
- pl.overwrite = 1
-
+ overwrite = True
+ elif option in ('-pdb', '-xml', '-mmtf'):
+ file_format = option[1:]
else:
pdb_path = os.getcwd()
pl = PDBList()
- pl.flat_tree = 1
+ pl.flat_tree = True
if len(sys.argv) > 1:
if sys.argv[1] == 'update':
# update PDB
print("updating local PDB at " + pdb_path)
- pl.update_pdb()
+ pl.update_pdb(file_format=file_format)
elif sys.argv[1] == 'all':
# get the entire PDB
- pl.download_entire_pdb()
+ pl.download_entire_pdb(file_format=file_format)
elif sys.argv[1] == 'obsol':
# get all obsolete entries
- pl.download_obsolete_entries(pdb_path)
+ pl.download_obsolete_entries(pdb_path, file_format=file_format)
elif len(sys.argv[1]) == 4 and sys.argv[1][0].isdigit():
# get single PDB entry
- pl.retrieve_pdb_file(sys.argv[1], pdir=pdb_path)
+ pl.retrieve_pdb_file(sys.argv[1], pdir=pdb_path, file_format=file_format, overwrite=overwrite)
+
+ elif sys.argv[1][0] == '(':
+ # get a set of PDB entries
+ pdb_ids = re.findall(sys.argv[1], "[0-9A-Za-z]{4}")
+ for pdb_id in pdb_ids:
+ pl.retrieve_pdb_file(pdb_id, pdir=pdb_path, file_format=file_format, overwrite=overwrite)
diff --git a/Bio/PDB/PDBParser.py b/Bio/PDB/PDBParser.py
index a8bf608..8270cd3 100644
--- a/Bio/PDB/PDBParser.py
+++ b/Bio/PDB/PDBParser.py
@@ -49,6 +49,7 @@ class PDBParser(object):
- QUIET - Evaluated as a Boolean. If true, warnings issued in constructing
the SMCRA data will be suppressed. If false (DEFAULT), they will be shown.
These warnings might be indicative of problems in the PDB file!
+
"""
if structure_builder is not None:
self.structure_builder = structure_builder
@@ -68,6 +69,7 @@ class PDBParser(object):
Arguments:
- id - string, the id that will be used for the structure
- file - name of the PDB file OR an open filehandle
+
"""
with warnings.catch_warnings():
if self.QUIET:
@@ -288,28 +290,3 @@ class PDBParser(object):
else:
# exceptions are fatal - raise again with new message (including line nr)
raise PDBConstructionException(message)
-
-
-if __name__ == "__main__":
-
- import sys
-
- p = PDBParser(PERMISSIVE=True)
-
- filename = sys.argv[1]
- s = p.get_structure("scr", filename)
-
- for m in s:
- p = m.get_parent()
- assert(p is s)
- for c in m:
- p = c.get_parent()
- assert(p is m)
- for r in c:
- print(r)
- p = r.get_parent()
- assert(p is c)
- for a in r:
- p = a.get_parent()
- if p is not r:
- print("%s %s" % (p, r))
diff --git a/Bio/PDB/PSEA.py b/Bio/PDB/PSEA.py
index d16b4f3..47bfa60 100644
--- a/Bio/PDB/PSEA.py
+++ b/Bio/PDB/PSEA.py
@@ -93,9 +93,7 @@ class PSEA(object):
self.ss_seq = ss_seq
def get_seq(self):
- """
- Return secondary structure string.
- """
+ """Return secondary structure string."""
return self.ss_seq
diff --git a/Bio/PDB/Polypeptide.py b/Bio/PDB/Polypeptide.py
index 83b00e9..887a1ab 100644
--- a/Bio/PDB/Polypeptide.py
+++ b/Bio/PDB/Polypeptide.py
@@ -189,6 +189,7 @@ def is_aa(residue, standard=False):
class Polypeptide(list):
"""A polypeptide is simply a list of L{Residue} objects."""
+
def get_ca_list(self):
"""Get list of C-alpha atoms in the polypeptide.
@@ -306,8 +307,10 @@ class _PPBuilder(object):
This assumes you want both standard and non-standard amino acids.
"""
+
def __init__(self, radius):
- """
+ """Initialize the base class.
+
@param radius: distance
@type radius: float
"""
@@ -380,6 +383,7 @@ class _PPBuilder(object):
class CaPPBuilder(_PPBuilder):
"""Use CA--CA distance to find polypeptides."""
+
def __init__(self, radius=4.3):
_PPBuilder.__init__(self, radius)
@@ -407,6 +411,7 @@ class CaPPBuilder(_PPBuilder):
class PPBuilder(_PPBuilder):
"""Use C--N distance to find polypeptides."""
+
def __init__(self, radius=1.8):
_PPBuilder.__init__(self, radius)
@@ -451,36 +456,3 @@ class PPBuilder(_PPBuilder):
return 1
else:
return 0
-
-
-if __name__ == "__main__":
- import sys
- from Bio.PDB.PDBParser import PDBParser
-
- p = PDBParser(PERMISSIVE=True)
-
- s = p.get_structure("scr", sys.argv[1])
-
- ppb = PPBuilder()
-
- print("C-N")
- for pp in ppb.build_peptides(s):
- print(pp.get_sequence())
- for pp in ppb.build_peptides(s[0]):
- print(pp.get_sequence())
- for pp in ppb.build_peptides(s[0]["A"]):
- print(pp.get_sequence())
-
- for pp in ppb.build_peptides(s):
- for phi, psi in pp.get_phi_psi_list():
- print("%f %f" % (phi, psi))
-
- ppb = CaPPBuilder()
-
- print("CA-CA")
- for pp in ppb.build_peptides(s):
- print(pp.get_sequence())
- for pp in ppb.build_peptides(s[0]):
- print(pp.get_sequence())
- for pp in ppb.build_peptides(s[0]["A"]):
- print(pp.get_sequence())
diff --git a/Bio/PDB/QCPSuperimposer/__init__.py b/Bio/PDB/QCPSuperimposer/__init__.py
index 09194bc..d78e576 100644
--- a/Bio/PDB/QCPSuperimposer/__init__.py
+++ b/Bio/PDB/QCPSuperimposer/__init__.py
@@ -2,7 +2,8 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
+"""Structural alignment using Quaternion Characteristic Polynomial (QCP).
+
QCPSuperimposer finds the best rotation and translation to put
two point sets on top of each other (minimizing the RMSD). This is
eg. useful to superimpose crystal structures. QCP stands for
@@ -16,8 +17,8 @@ from .qcprotmodule import FastCalcRMSDAndRotation
class QCPSuperimposer(object):
+ """Quaternion Characteristic Polynomial (QCP) Superimposer.
- """
QCPSuperimposer finds the best rotation and translation to put
two point sets on top of each other (minimizing the RMSD). This is
eg. useful to superimposing 3D structures of proteins.
@@ -47,7 +48,7 @@ class QCPSuperimposer(object):
self.init_rms = None
def _rms(self, coords1, coords2):
- "Return rms deviations between coords1 and coords2."
+ """Return rms deviations between coords1 and coords2."""
diff = coords1 - coords2
l = coords1.shape[0]
return sqrt(sum(dot(diff, diff)) / l)
@@ -69,12 +70,12 @@ class QCPSuperimposer(object):
# Public methods
def set(self, reference_coords, coords):
- """
- Set the coordinates to be superimposed.
+ """Set the coordinates to be superimposed.
+
coords will be put on top of reference_coords.
- o reference_coords: an NxDIM array
- o coords: an NxDIM array
+ - reference_coords: an NxDIM array
+ - coords: an NxDIM array
DIM is the dimension of the points, N is the number
of points to be superimposed.
@@ -91,7 +92,7 @@ class QCPSuperimposer(object):
self.n = n[0]
def run(self):
- "Superimpose the coordinate sets."
+ """Superimpose the coordinate sets."""
if self.coords is None or self.reference_coords is None:
raise Exception("No coordinates set.")
coords = self.coords
@@ -107,7 +108,7 @@ class QCPSuperimposer(object):
self.tran = av2 - dot(av1, self.rot)
def get_transformed(self):
- "Get the transformed coordinate set."
+ """Get the transformed coordinate set."""
if self.coords is None or self.reference_coords is None:
raise Exception("No coordinates set.")
if self.rot is None:
@@ -117,13 +118,13 @@ class QCPSuperimposer(object):
return self.transformed_coords
def get_rotran(self):
- "Right multiplying rotation matrix and translation."
+ """Right multiplying rotation matrix and translation."""
if self.rot is None:
raise Exception("Nothing superimposed yet.")
return self.rot, self.tran
def get_init_rms(self):
- "Root mean square deviation of untransformed coordinates."
+ """Root mean square deviation of untransformed coordinates."""
if self.coords is None:
raise Exception("No coordinates set yet.")
if self.init_rms is None:
@@ -131,62 +132,7 @@ class QCPSuperimposer(object):
return self.init_rms
def get_rms(self):
- "Root mean square deviation of superimposed coordinates."
+ """Root mean square deviation of superimposed coordinates."""
if self.rms is None:
raise Exception("Nothing superimposed yet.")
return self.rms
-
-
-if __name__ == "__main__":
- from datetime import datetime
-
- # start with two coordinate sets (Nx3 arrays - float)
-
- x = array([[-2.803, -15.373, 24.556],
- [0.893, -16.062, 25.147],
- [1.368, -12.371, 25.885],
- [-1.651, -12.153, 28.177],
- [-0.440, -15.218, 30.068],
- [2.551, -13.273, 31.372],
- [0.105, -11.330, 33.567]], 'f')
-
- y = array([[-14.739, -18.673, 15.040],
- [-12.473, -15.810, 16.074],
- [-14.802, -13.307, 14.408],
- [-17.782, -14.852, 16.171],
- [-16.124, -14.617, 19.584],
- [-15.029, -11.037, 18.902],
- [-18.577, -10.001, 17.996]], 'f')
-
- t0 = datetime.now()
- for loop in range(0, 10000):
- # start!
- sup = QCPSuperimposer()
-
- # set the coords
- # y will be rotated and translated on x
- sup.set(x, y)
-
- # do the lsq fit
- sup.run()
-
- # get the rmsd
- rms = sup.get_rms()
-
- # get rotation (right multiplying!) and the translation
- rot, tran = sup.get_rotran()
-
- # rotate y on x
- y_on_x1 = dot(y, rot) + tran
-
- # same thing
- y_on_x2 = sup.get_transformed()
- t1 = datetime.now()
- dif = t1 - t0
- print("process wall time (msec): %d" % (dif.total_seconds() * 1000))
-
- print(y_on_x1)
- print("")
- print(y_on_x2)
- print("")
- print("%.2f" % rms)
diff --git a/Bio/PDB/Residue.py b/Bio/PDB/Residue.py
index 076286e..5bda82e 100644
--- a/Bio/PDB/Residue.py
+++ b/Bio/PDB/Residue.py
@@ -6,6 +6,8 @@
"""Residue class, used by Structure objects."""
# My Stuff
+import warnings
+from Bio import BiopythonDeprecationWarning
from Bio.PDB.PDBExceptions import PDBConstructionException
from Bio.PDB.Entity import Entity, DisorderedEntityWrapper
@@ -18,9 +20,8 @@ _atom_name_dict["O"] = 4
class Residue(Entity):
- """
- Represents a residue. A Residue object stores atoms.
- """
+ """Represents a residue. A Residue object stores atoms."""
+
def __init__(self, id, resname, segid):
self.level = "R"
self.disordered = 0
@@ -45,7 +46,8 @@ class Residue(Entity):
but N, CA, C, O always come first.
Arguments:
- o a1, a2 - Atom objects
+ - a1, a2 - Atom objects
+
"""
name1 = a1.get_name()
name2 = a2.get_name()
@@ -85,20 +87,18 @@ class Residue(Entity):
self.child_list.sort(self._sort)
def flag_disordered(self):
- "Set the disordered flag."
+ """Set the disordered flag."""
self.disordered = 1
def is_disordered(self):
- "Return 1 if the residue contains disordered atoms."
+ """Return 1 if the residue contains disordered atoms."""
return self.disordered
def get_resname(self):
return self.resname
def get_unpacked_list(self):
- """
- Returns the list of all atoms, unpack DisorderedAtoms."
- """
+ """Returns the list of all atoms, unpack DisorderedAtoms."""
atom_list = self.get_list()
undisordered_atom_list = []
for atom in atom_list:
@@ -111,17 +111,25 @@ class Residue(Entity):
def get_segid(self):
return self.segid
+ def get_atoms(self):
+ for a in self:
+ yield a
+
def get_atom(self):
+ warnings.warn("`get_atom` has been deprecated and we intend to remove it"
+ " in a future release of Biopython. Please use `get_atoms` instead.",
+ BiopythonDeprecationWarning)
for a in self:
yield a
class DisorderedResidue(DisorderedEntityWrapper):
+ """DisorderedResidue is a wrapper around two or more Residue objects.
+
+ It is used to represent point mutations (e.g. there is a Ser 60 and a Cys 60
+ residue, each with 50 % occupancy).
"""
- DisorderedResidue is a wrapper around two or more Residue objects. It is
- used to represent point mutations (e.g. there is a Ser 60 and a Cys 60 residue,
- each with 50 % occupancy).
- """
+
def __init__(self, id):
DisorderedEntityWrapper.__init__(self, id)
@@ -146,7 +154,7 @@ class DisorderedResidue(DisorderedEntityWrapper):
residue.add(atom)
def sort(self):
- "Sort the atoms in the child Residue objects."
+ """Sort the atoms in the child Residue objects."""
for residue in self.disordered_get_list():
residue.sort()
@@ -154,7 +162,8 @@ class DisorderedResidue(DisorderedEntityWrapper):
"""Add a residue object and use its resname as key.
Arguments:
- o residue - Residue object
+ - residue - Residue object
+
"""
resname = residue.get_resname()
# add chain parent to residue
diff --git a/Bio/PDB/ResidueDepth.py b/Bio/PDB/ResidueDepth.py
index 6e0cbd9..acb88b5 100644
--- a/Bio/PDB/ResidueDepth.py
+++ b/Bio/PDB/ResidueDepth.py
@@ -1,25 +1,28 @@
# Copyright (C) 2002, Thomas Hamelryck (thamelry at binf.ku.dk)
+# Copyright (C) 2017, Joao Rodrigues (j.p.g.l.m.rodrigues at gmail.com)
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Calculation of residue depth using command line tool MSMS.
-This module uses Michel Sanner's MSMS program for the surface calculation
-(specifically commands msms and pdb_to_xyzr). See:
-http://mgltools.scripps.edu/packages/MSMS
+This module uses Michel Sanner's MSMS program for the surface calculation.
+See: http://mgltools.scripps.edu/packages/MSMS
Residue depth is the average distance of the atoms of a residue from
the solvent accessible surface.
Residue Depth:
- >>> rd = ResidueDepth(model, pdb_file)
+ >>> rd = ResidueDepth(model)
>>> print(rd[(chain_id, res_id)])
Direct MSMS interface, typical use:
- >>> surface = get_surface("1FAT.pdb")
+ >>> parser = PDBParser()
+ >>> structure = parser.get_structure('1FAT.pdb')
+ >>> model = structure[0]
+ >>> surface = get_surface(model)
The surface is a Numeric array with all the surface vertices.
@@ -41,23 +44,401 @@ from __future__ import print_function
import os
import tempfile
+import warnings
import numpy
+from Bio.PDB import PDBParser
from Bio.PDB import Selection
from Bio.PDB.AbstractPropertyMap import AbstractPropertyMap
from Bio.PDB.Polypeptide import is_aa
+from Bio import BiopythonWarning
+from Bio import BiopythonDeprecationWarning
+
+# PDB_TO_XYZR is a BASH script and will not run on Windows
+# Since it only reads atmtypenumbers to a mapping structure we can replicate
+# that functionality here and avoid this dependency altogether.
+#
+# Description of PDB_TO_XYZR
+# Maps residue type and atom name pairs into Connolly ".atm" numeric codes
+# as used in MS and AMS, and into actual radius values
+#
+# In case of missing radius, use 0.01
+#
+# Table 1: Atom Type to radius
+_atomic_radii = {
+ # atom num dist Rexplicit Runited-atom
+ 1: (0.57, 1.40, 1.40),
+ 2: (0.66, 1.40, 1.60),
+ 3: (0.57, 1.40, 1.40),
+ 4: (0.70, 1.54, 1.70),
+ 5: (0.70, 1.54, 1.80),
+ 6: (0.70, 1.54, 2.00),
+ 7: (0.77, 1.74, 2.00),
+ 8: (0.77, 1.74, 2.00),
+ 9: (0.77, 1.74, 2.00),
+ 10: (0.67, 1.74, 1.74),
+ 11: (0.70, 1.74, 1.86),
+ 12: (1.04, 1.80, 1.85),
+ 13: (1.04, 1.80, 1.80), # P, S, and LonePairs
+ 14: (0.70, 1.54, 1.54), # non-protonated nitrogens
+ 15: (0.37, 1.20, 1.20), # H, D hydrogen and deuterium
+ 16: (0.70, 0.00, 1.50), # obsolete entry, purpose unknown
+ 17: (3.50, 5.00, 5.00), # pseudoatom - big ball
+ 18: (1.74, 1.97, 1.97), # Ca calcium
+ 19: (1.25, 1.40, 1.40), # Zn zinc (traditional radius)
+ 20: (1.17, 1.40, 1.40), # Cu copper (traditional radius)
+ 21: (1.45, 1.30, 1.30), # Fe heme iron
+ 22: (1.41, 1.49, 1.49), # Cd cadmium
+ 23: (0.01, 0.01, 0.01), # pseudoatom - tiny dot
+ 24: (0.37, 1.20, 0.00), # hydrogen vanishing if united-atoms
+ 25: (1.16, 1.24, 1.24), # Fe not in heme
+ 26: (1.36, 1.60, 1.60), # Mg magnesium
+ 27: (1.17, 1.24, 1.24), # Mn manganese
+ 28: (1.16, 1.25, 1.25), # Co cobalt
+ 29: (1.17, 2.15, 2.15), # Se selenium
+ 30: (3.00, 3.00, 3.00), # obsolete entry, original purpose unknown
+ 31: (1.15, 1.15, 1.15), # Yb ytterbium +3 ion --- wild guess only
+ 38: (0.95, 1.80, 1.80), # obsolete entry, original purpose unknown
+}
+
+# Table 2: Resname/Aname to Atom Type
+# MSMS uses an awk/gawk pattern matching strategy that we cannot replicate
+# We will take advantage of our parser to help us in the mapping.
+
+
+def _get_atom_radius(atom, rtype='united'):
+ """Translates an atom object to an atomic radius defined in MSMS.
+
+ Uses information from the parent residue and the atom object to define
+ the atom type.
+
+ Returns the radius (float) according to the selected type:
+ - explicit (reads hydrogens)
+ - united (default)
-def _read_vertex_array(filename):
- """
- Read the vertex list into a Numeric array.
"""
+ if rtype == 'explicit':
+ typekey = 1
+ elif rtype == 'united':
+ typekey = 2
+ else:
+ raise ValueError("Radius type (%r) not understood. "
+ "Must be 'explicit' or 'united'" % rtype)
+
+ resname = atom.parent.resname
+ het_atm = atom.parent.id[0]
+
+ at_name = atom.name
+ at_elem = atom.element
+
+ # Hydrogens
+ if at_elem == 'H' or at_elem == 'D':
+ return _atomic_radii[15][typekey]
+ # HETATMs
+ elif het_atm == 'W' and at_elem == 'O':
+ return _atomic_radii[2][typekey]
+ elif het_atm != ' ' and at_elem == 'CA':
+ return _atomic_radii[18][typekey]
+ elif het_atm != ' ' and at_elem == 'CD':
+ return _atomic_radii[22][typekey]
+ elif resname == 'ACE' and at_name == 'CA':
+ return _atomic_radii[9][typekey]
+ # Main chain atoms
+ elif at_name == 'N':
+ return _atomic_radii[4][typekey]
+ elif at_name == 'CA':
+ return _atomic_radii[7][typekey]
+ elif at_name == 'C':
+ return _atomic_radii[10][typekey]
+ elif at_name == 'O':
+ return _atomic_radii[1][typekey]
+ elif at_name == 'P':
+ return _atomic_radii[13][typekey]
+ # CB atoms
+ elif at_name == 'CB' and resname == 'ALA':
+ return _atomic_radii[9][typekey]
+ elif at_name == 'CB' and resname in set(('ILE', 'THR', 'VAL')):
+ return _atomic_radii[7][typekey]
+ elif at_name == 'CB':
+ return _atomic_radii[8][typekey]
+ # CG atoms
+ elif at_name == 'CG' and resname in set(('ASN', 'ASP', 'ASX', 'HIS', 'HIP',
+ 'HIE', 'HID', 'HISN', 'HISL',
+ 'LEU', 'PHE', 'TRP', 'TYR')):
+ return _atomic_radii[10][typekey]
+ elif at_name == 'CG' and resname == 'LEU':
+ return _atomic_radii[7][typekey]
+ elif at_name == 'CG':
+ return _atomic_radii[8][typekey]
+ # General amino acids in alphabetical order
+ elif resname == 'GLN' and at_elem == 'O':
+ return _atomic_radii[3][typekey]
+ elif resname == 'ACE' and at_name == 'CH3':
+ return _atomic_radii[9][typekey]
+ elif resname == 'ARG' and at_name == 'CD':
+ return _atomic_radii[8][typekey]
+ elif resname == 'ARG' and at_name in set(('NE', 'RE')):
+ return _atomic_radii[4][typekey]
+ elif resname == 'ARG' and at_name == 'CZ':
+ return _atomic_radii[10][typekey]
+ elif resname == 'ARG' and at_name.startswith(('NH', 'RH')):
+ return _atomic_radii[5][typekey]
+ elif resname == 'ASN' and at_name == 'OD1':
+ return _atomic_radii[1][typekey]
+ elif resname == 'ASN' and at_name == 'ND2':
+ return _atomic_radii[5][typekey]
+ elif resname == 'ASN' and at_name.startswith('AD'):
+ return _atomic_radii[3][typekey]
+ elif resname == 'ASP' and at_name.startswith(('OD', 'ED')):
+ return _atomic_radii[3][typekey]
+ elif resname == 'ASX' and at_name.startswith('OD1'):
+ return _atomic_radii[1][typekey]
+ elif resname == 'ASX' and at_name == 'ND2':
+ return _atomic_radii[3][typekey]
+ elif resname == 'ASX' and at_name.startswith(('OD', 'AD')):
+ return _atomic_radii[3][typekey]
+ elif resname in set(('CYS', 'CYX', 'CYM')) and at_name == 'SG':
+ return _atomic_radii[13][typekey]
+ elif resname in set(('CYS', 'MET')) and at_name.startswith('LP'):
+ return _atomic_radii[13][typekey]
+ elif resname == 'CUH' and at_name == 'SG':
+ return _atomic_radii[12][typekey]
+ elif resname == 'GLU' and at_name.startswith(('OE', 'EE')):
+ return _atomic_radii[3][typekey]
+ elif resname in set(('GLU', 'GLN', 'GLX')) and at_name == 'CD':
+ return _atomic_radii[10][typekey]
+ elif resname == 'GLN' and at_name == 'OE1':
+ return _atomic_radii[1][typekey]
+ elif resname == 'GLN' and at_name == 'NE2':
+ return _atomic_radii[5][typekey]
+ elif resname in set(('GLN', 'GLX')) and at_name.startswith('AE'):
+ return _atomic_radii[3][typekey]
+ # Histdines and friends
+ # There are 4 kinds of HIS rings: HIS (no protons), HID (proton on Delta),
+ # HIE (proton on epsilon), and HIP (protons on both)
+ # Protonated nitrogens are numbered 4, else 14
+ # HIS is treated here as the same as HIE
+ #
+ # HISL is a deprotonated HIS (the L means liganded)
+ elif resname in set(('HIS', 'HID', 'HIE', 'HIP', 'HISL')) and at_name in set(('CE1', 'CD2')): # noqa: E501
+ return _atomic_radii[11][typekey]
+ elif resname in set(('HIS', 'HID', 'HIE', 'HISL')) and at_name == 'ND1':
+ return _atomic_radii[14][typekey]
+ elif resname in set(('HID', 'HIP')) and at_name in set(('ND1', 'RD1')):
+ return _atomic_radii[4][typekey]
+ elif resname in set(('HIS', 'HIE', 'HIP')) and at_name in set(('NE2', 'RE2')):
+ return _atomic_radii[4][typekey]
+ elif resname in set(('HID', 'HISL')) and at_name in set(('NE2', 'RE2')):
+ return _atomic_radii[14][typekey]
+ elif resname in set(('HIS', 'HID', 'HIP', 'HISL')) and at_name.startswith(('AD', 'AE')): # noqa: E501
+ return _atomic_radii[4][typekey]
+ # More amino acids
+ elif resname == 'ILE' and at_name == 'CG1':
+ return _atomic_radii[8][typekey]
+ elif resname == 'ILE' and at_name == 'CG2':
+ return _atomic_radii[9][typekey]
+ elif resname == 'ILE' and at_name in set(('CD', 'CD1')):
+ return _atomic_radii[9][typekey]
+ elif resname == 'LEU' and at_name.startswith('CD'):
+ return _atomic_radii[9][typekey]
+ elif resname == 'LYS' and at_name in set(('CG', 'CD', 'CE')):
+ return _atomic_radii[8][typekey]
+ elif resname == 'LYS' and at_name in set(('NZ', 'KZ')):
+ return _atomic_radii[6][typekey]
+ elif resname == 'MET' and at_name == 'SD':
+ return _atomic_radii[13][typekey]
+ elif resname == 'MET' and at_name == 'CE':
+ return _atomic_radii[9][typekey]
+ elif resname == 'PHE' and at_name.startswith(('CD', 'CE', 'CZ')):
+ return _atomic_radii[11][typekey]
+ elif resname == 'PRO' and at_name in set(('CG', 'CD')):
+ return _atomic_radii[8][typekey]
+ elif resname == 'CSO' and at_name in set(('SE', 'SEG')):
+ return _atomic_radii[9][typekey]
+ elif resname == 'CSO' and at_name.startswith('OD'):
+ return _atomic_radii[3][typekey]
+ elif resname == 'SER' and at_name == 'OG':
+ return _atomic_radii[2][typekey]
+ elif resname == 'THR' and at_name == 'OG1':
+ return _atomic_radii[2][typekey]
+ elif resname == 'THR' and at_name == 'CG2':
+ return _atomic_radii[9][typekey]
+ elif resname == 'TRP' and at_name == 'CD1':
+ return _atomic_radii[11][typekey]
+ elif resname == 'TRP' and at_name in set(('CD2', 'CE2')):
+ return _atomic_radii[10][typekey]
+ elif resname == 'TRP' and at_name == 'NE1':
+ return _atomic_radii[4][typekey]
+ elif resname == 'TRP' and at_name in set(('CE3', 'CZ2', 'CZ3', 'CH2')):
+ return _atomic_radii[11][typekey]
+ elif resname == 'TYR' and at_name in set(('CD1', 'CD2', 'CE1', 'CE2')):
+ return _atomic_radii[11][typekey]
+ elif resname == 'TYR' and at_name == 'CZ':
+ return _atomic_radii[10][typekey]
+ elif resname == 'TYR' and at_name == 'OH':
+ return _atomic_radii[2][typekey]
+ elif resname == 'VAL' and at_name in set(('CG1', 'CG2')):
+ return _atomic_radii[9][typekey]
+ elif at_name in set(('CD', 'CD')):
+ return _atomic_radii[8][typekey]
+ # Co-factors, and other weirdos
+ elif resname in set(('FS3', 'FS4')) and at_name.startswith('FE') \
+ and at_name.endswith(('1', '2', '3', '4', '5', '6', '7')):
+ return _atomic_radii[21][typekey]
+ elif resname in set(('FS3', 'FS4')) and at_name.startswith('S') \
+ and at_name.endswith(('1', '2', '3', '4', '5', '6', '7')):
+ return _atomic_radii[13][typekey]
+ elif resname == 'FS3' and at_name == 'OXO':
+ return _atomic_radii[1][typekey]
+ elif resname == 'FEO' and at_name in set(('FE1', 'FE2')):
+ return _atomic_radii[21][typekey]
+ elif resname == 'HEM' and at_name in set(('O1', 'O2')):
+ return _atomic_radii[1][typekey]
+ elif resname == 'HEM' and at_name == 'FE':
+ return _atomic_radii[21][typekey]
+ elif resname == 'HEM' and at_name in set(('CHA', 'CHB', 'CHC', 'CHD',
+ 'CAB', 'CAC', 'CBB', 'CBC')):
+ return _atomic_radii[11][typekey]
+ elif resname == 'HEM' and at_name in set(('NA', 'NB', 'NC', 'ND',
+ 'N A', 'N B', 'N C', 'N D')):
+ return _atomic_radii[14][typekey]
+ elif resname == 'HEM' and at_name in set(('C1A', 'C1B', 'C1C', 'C1D',
+ 'C2A', 'C2B', 'C2C', 'C2D',
+ 'C3A', 'C3B', 'C3C', 'C3D',
+ 'C4A', 'C4B', 'C4C', 'C4D',
+ 'CGA', 'CGD')):
+ return _atomic_radii[10][typekey]
+ elif resname == 'HEM' and at_name in set(('CMA', 'CMB', 'CMC', 'CMD')):
+ return _atomic_radii[9][typekey]
+ elif resname == 'HEM' and at_name == 'OH2':
+ return _atomic_radii[2][typekey]
+ elif resname == 'AZI' and at_name in set(('N1', 'N2', 'N3')):
+ return _atomic_radii[14][typekey]
+ elif resname == 'MPD' and at_name in set(('C1', 'C5', 'C6')):
+ return _atomic_radii[9][typekey]
+ elif resname == 'MPD' and at_name == 'C2':
+ return _atomic_radii[10][typekey]
+ elif resname == 'MPD' and at_name == 'C3':
+ return _atomic_radii[8][typekey]
+ elif resname == 'MPD' and at_name == 'C4':
+ return _atomic_radii[7][typekey]
+ elif resname == 'MPD' and at_name in set(('O7', 'O8')):
+ return _atomic_radii[2][typekey]
+ elif resname in set(('SO4', 'SUL')) and at_name == 'S':
+ return _atomic_radii[13][typekey]
+ elif resname in set(('SO4', 'SUL', 'PO4', 'PHO')) and at_name in set(('O1', 'O2', 'O3', 'O4')): # noqa: E501
+ return _atomic_radii[3][typekey]
+ elif resname == 'PC ' and at_name in set(('O1', 'O2', 'O3', 'O4')):
+ return _atomic_radii[3][typekey]
+ elif resname == 'PC ' and at_name == 'P1':
+ return _atomic_radii[13][typekey]
+ elif resname == 'PC ' and at_name in set(('C1', 'C2')):
+ return _atomic_radii[8][typekey]
+ elif resname == 'PC ' and at_name in set(('C3', 'C4', 'C5')):
+ return _atomic_radii[9][typekey]
+ elif resname == 'PC ' and at_name == 'N1':
+ return _atomic_radii[14][typekey]
+ elif resname == 'BIG' and at_name == 'BAL':
+ return _atomic_radii[17][typekey]
+ elif resname in set(('POI', 'DOT')) and at_name in set(('POI', 'DOT')):
+ return _atomic_radii[23][typekey]
+ elif resname == 'FMN' and at_name in set(('N1', 'N5', 'N10')):
+ return _atomic_radii[4][typekey]
+ elif resname == 'FMN' and at_name in set(('C2', 'C4', 'C7', 'C8', 'C10',
+ 'C4A', 'C5A', 'C9A')):
+ return _atomic_radii[10][typekey]
+ elif resname == 'FMN' and at_name in set(('O2', 'O4')):
+ return _atomic_radii[1][typekey]
+ elif resname == 'FMN' and at_name == 'N3':
+ return _atomic_radii[14][typekey]
+ elif resname == 'FMN' and at_name in set(('C6', 'C9')):
+ return _atomic_radii[11][typekey]
+ elif resname == 'FMN' and at_name in set(('C7M', 'C8M')):
+ return _atomic_radii[9][typekey]
+ elif resname == 'FMN' and at_name.startswith(('C1', 'C2', 'C3', 'C4', 'C5')): # noqa: E501
+ return _atomic_radii[8][typekey]
+ elif resname == 'FMN' and at_name.startswith(('O2', 'O3', 'O4')):
+ return _atomic_radii[2][typekey]
+ elif resname == 'FMN' and at_name.startswith('O5'):
+ return _atomic_radii[3][typekey]
+ elif resname == 'FMN' and at_name in set(('OP1', 'OP2', 'OP3')):
+ return _atomic_radii[3][typekey]
+ elif resname in set(('ALK', 'MYR')) and at_name == 'OT1':
+ return _atomic_radii[3][typekey]
+ elif resname in set(('ALK', 'MYR')) and at_name == 'C01':
+ return _atomic_radii[10][typekey]
+ elif resname == 'ALK' and at_name == 'C16':
+ return _atomic_radii[9][typekey]
+ elif resname == 'MYR' and at_name == 'C14':
+ return _atomic_radii[9][typekey]
+ elif resname in set(('ALK', 'MYR')) and at_name.startswith('C'):
+ return _atomic_radii[8][typekey]
+ # Metals
+ elif at_elem == 'CU':
+ return _atomic_radii[20][typekey]
+ elif at_elem == 'ZN':
+ return _atomic_radii[19][typekey]
+ elif at_elem == 'MN':
+ return _atomic_radii[27][typekey]
+ elif at_elem == 'FE':
+ return _atomic_radii[25][typekey]
+ elif at_elem == 'MG':
+ return _atomic_radii[26][typekey]
+ elif at_elem == 'CO':
+ return _atomic_radii[28][typekey]
+ elif at_elem == 'SE':
+ return _atomic_radii[29][typekey]
+ elif at_elem == 'YB':
+ return _atomic_radii[31][typekey]
+ # Others
+ elif at_name == 'SEG':
+ return _atomic_radii[9][typekey]
+ elif at_name == 'OXT':
+ return _atomic_radii[3][typekey]
+ # Catch-alls
+ elif at_name.startswith(('OT', 'E')):
+ return _atomic_radii[3][typekey]
+ elif at_name.startswith('S'):
+ return _atomic_radii[13][typekey]
+ elif at_name.startswith('C'):
+ return _atomic_radii[7][typekey]
+ elif at_name.startswith('A'):
+ return _atomic_radii[11][typekey]
+ elif at_name.startswith('O'):
+ return _atomic_radii[1][typekey]
+ elif at_name.startswith(('N', 'R')):
+ return _atomic_radii[4][typekey]
+ elif at_name.startswith('K'):
+ return _atomic_radii[6][typekey]
+ elif at_name in set(('PA', 'PB', 'PC', 'PD')):
+ return _atomic_radii[13][typekey]
+ elif at_name.startswith('P'):
+ return _atomic_radii[13][typekey]
+ elif resname in set(('FAD', 'NAD', 'AMX', 'APU')) and at_name.startswith('O'): # noqa: E501
+ return _atomic_radii[1][typekey]
+ elif resname in set(('FAD', 'NAD', 'AMX', 'APU')) and at_name.startswith('N'): # noqa: E501
+ return _atomic_radii[4][typekey]
+ elif resname in set(('FAD', 'NAD', 'AMX', 'APU')) and at_name.startswith('C'): # noqa: E501
+ return _atomic_radii[7][typekey]
+ elif resname in set(('FAD', 'NAD', 'AMX', 'APU')) and at_name.startswith('P'): # noqa: E501
+ return _atomic_radii[13][typekey]
+ elif resname in set(('FAD', 'NAD', 'AMX', 'APU')) and at_name.startswith('H'): # noqa: E501
+ return _atomic_radii[15][typekey]
+ else:
+ warnings.warn('{}:{} not in radii library.'.format(at_name, resname),
+ BiopythonWarning)
+ return 0.01
+
+
+def _read_vertex_array(filename):
+ """Read the vertex list into a Numeric array."""
with open(filename, "r") as fp:
vertex_list = []
- for l in fp.readlines():
+ for l in fp:
sl = l.split()
- if not len(sl) == 9:
+ if len(sl) != 9:
# skip header
continue
vl = [float(x) for x in sl[0:3]]
@@ -65,21 +446,35 @@ def _read_vertex_array(filename):
return numpy.array(vertex_list)
-def get_surface(pdb_file, PDB_TO_XYZR="pdb_to_xyzr", MSMS="msms"):
- """
- Return a Numeric array that represents
- the vertex list of the molecular surface.
+def get_surface(model, PDB_TO_XYZR=None, MSMS="msms"):
+ """Represent molecular surface as a vertex list array.
+
+ Return a Numpy array that represents the vertex list of the
+ molecular surface.
+
+ Arguments:
+ - PDB_TO_XYZR - deprecated, ignore this.
+ - MSMS - msms executable (used as argument to os.system)
- PDB_TO_XYZR --- pdb_to_xyzr executable (arg. to os.system)
- MSMS --- msms executable (arg. to os.system)
"""
- # extract xyz and set radii
+ # Issue warning if PDB_TO_XYZR is given
+ if PDB_TO_XYZR is not None:
+ warnings.warn(("PDB_TO_XYZR argument will be deprecated soon"
+ " in favor of an internal mapping algorithm."),
+ BiopythonDeprecationWarning)
+
+ # Replace pdb_to_xyzr
+ # Make x,y,z,radius file
+ atom_list = Selection.unfold_entities(model, 'A')
+
xyz_tmp = tempfile.mktemp()
- PDB_TO_XYZR = PDB_TO_XYZR + " %s > %s"
- make_xyz = PDB_TO_XYZR % (pdb_file, xyz_tmp)
- os.system(make_xyz)
- assert os.path.isfile(xyz_tmp), \
- "Failed to generate XYZR file using command:\n%s" % make_xyz
+ with open(xyz_tmp, 'w') as pdb_to_xyzr:
+ for atom in atom_list:
+ x, y, z = atom.coord
+ radius = _get_atom_radius(atom, rtype='united')
+ print('{:6.3f}\t{:6.3f}\t{:6.3f}\t{:1.2f}'.format(x, y, z, radius),
+ file=pdb_to_xyzr)
+
# make surface
surface_tmp = tempfile.mktemp()
MSMS = MSMS + " -probe_radius 1.5 -if %s -of %s > " + tempfile.mktemp()
@@ -88,30 +483,24 @@ def get_surface(pdb_file, PDB_TO_XYZR="pdb_to_xyzr", MSMS="msms"):
surface_file = surface_tmp + ".vert"
assert os.path.isfile(surface_file), \
"Failed to generate surface file using command:\n%s" % make_surface
+
# read surface vertices from vertex file
surface = _read_vertex_array(surface_file)
- # clean up tmp files
- # ...this is dangerous
- # os.system("rm "+xyz_tmp)
- # os.system("rm "+surface_tmp+".vert")
- # os.system("rm "+surface_tmp+".face")
return surface
def min_dist(coord, surface):
- """
- Return minimum distance between coord
- and surface.
- """
+ """Return minimum distance between coord and surface."""
d = surface - coord
d2 = numpy.sum(d * d, 1)
return numpy.sqrt(min(d2))
def residue_depth(residue, surface):
- """
- Return average distance to surface for all
- atoms in a residue, ie. the residue depth.
+ """Residue depth as average depth of all its atoms.
+
+ Return average distance to surface for all atoms in a residue,
+ ie. the residue depth.
"""
atom_list = residue.get_unpacked_list()
length = len(atom_list)
@@ -131,17 +520,24 @@ def ca_depth(residue, surface):
class ResidueDepth(AbstractPropertyMap):
- """
- Calculate residue and CA depth for all residues.
- """
- def __init__(self, model, pdb_file):
+ """Calculate residue and CA depth for all residues."""
+
+ def __init__(self, model, pdb_file=None):
+
+ # Issue warning if pdb_file is given
+ if pdb_file is not None:
+ warnings.warn(("ResidueDepth no longer requires a pdb file."
+ " This argument will be removed in a future release"
+ " of Biopython."),
+ BiopythonDeprecationWarning)
+
depth_dict = {}
depth_list = []
depth_keys = []
# get_residue
residue_list = Selection.unfold_entities(model, 'R')
- # make surface from PDB file
- surface = get_surface(pdb_file)
+ # make surface from PDB file using MSMS
+ surface = get_surface(model)
# calculate rdepth for each residue
for residue in residue_list:
if not is_aa(residue):
@@ -163,13 +559,12 @@ class ResidueDepth(AbstractPropertyMap):
if __name__ == "__main__":
import sys
- from Bio.PDB import PDBParser
p = PDBParser()
s = p.get_structure("X", sys.argv[1])
model = s[0]
- rd = ResidueDepth(model, sys.argv[1])
+ rd = ResidueDepth(model)
for item in rd:
print(item)
diff --git a/Bio/PDB/Selection.py b/Bio/PDB/Selection.py
index 5d07ef6..15a2596 100644
--- a/Bio/PDB/Selection.py
+++ b/Bio/PDB/Selection.py
@@ -41,8 +41,8 @@ def unfold_entities(entity_list, target_level):
list of modules -> list of atoms
list of residues -> list of chains
- o entity_list - list of entities or a single entity
- o target_level - char (A, R, C, M, S)
+ - entity_list - list of entities or a single entity
+ - target_level - char (A, R, C, M, S)
Note that if entity_list is an empty list, you get an empty list back:
@@ -77,13 +77,6 @@ def unfold_entities(entity_list, target_level):
return list(entity_list)
-def _test():
- """Run the Bio.PDB.Selection module's doctests (PRIVATE)."""
- import doctest
- print("Running doctests ...")
- doctest.testmod()
- print("Done")
-
-
if __name__ == "__main__":
- _test()
+ from Bio._utils import run_doctest
+ run_doctest()
diff --git a/Bio/PDB/Structure.py b/Bio/PDB/Structure.py
index 45c2b62..4bdaa10 100644
--- a/Bio/PDB/Structure.py
+++ b/Bio/PDB/Structure.py
@@ -9,9 +9,8 @@ from Bio.PDB.Entity import Entity
class Structure(Entity):
- """
- The Structure class contains a collection of Model instances.
- """
+ """The Structure class contains a collection of Model instances."""
+
def __init__(self, id):
self.level = "S"
Entity.__init__(self, id)
@@ -31,7 +30,8 @@ class Structure(Entity):
reflects the order of the models in the PDB file.
Arguments:
- o m1, m2 - Model instances
+ - m1, m2 - Model instances
+
"""
return cmp(m1.get_id(), m2.get_id())
diff --git a/Bio/PDB/StructureAlignment.py b/Bio/PDB/StructureAlignment.py
index ccf3d51..4e46110 100644
--- a/Bio/PDB/StructureAlignment.py
+++ b/Bio/PDB/StructureAlignment.py
@@ -3,9 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Map the residues of two structures to each other based on a FASTA alignment
-file.
-"""
+"""Map residues of two structures to each other based on a FASTA alignment."""
from __future__ import print_function
@@ -16,18 +14,17 @@ from Bio.PDB.Polypeptide import is_aa
class StructureAlignment(object):
- """
- This class aligns two structures based on an alignment of their
- sequences.
- """
+ """Class to align two structures based on an alignment of their sequences."""
+
def __init__(self, fasta_align, m1, m2, si=0, sj=1):
- """
+ """Initialize.
+
Attributes:
+ - fasta_align - Alignment object
+ - m1, m2 - two models
+ - si, sj - the sequences in the Alignment object that
+ correspond to the structures
- - fasta_align --- Alignment object
- - m1, m2 --- two models
- - si, sj --- the sequences in the Alignment object that
- correspond to the structures
"""
l = fasta_align.get_alignment_length()
# Get the residues in the models
@@ -42,7 +39,7 @@ class StructureAlignment(object):
# List of residue pairs (None if -)
duos = []
for i in range(0, l):
- column = fasta_align.get_column(i)
+ column = fasta_align[:, i]
aa1 = column[si]
aa2 = column[sj]
if aa1 != "-":
@@ -80,57 +77,20 @@ class StructureAlignment(object):
self.duos = duos
def _test_equivalence(self, r1, aa1):
- "Test if aa in sequence fits aa in structure."
+ """Test if aa in sequence fits aa in structure."""
resname = r1.get_resname()
resname = SCOPData.protein_letters_3to1[resname]
assert(aa1 == resname)
def get_maps(self):
- """
+ """Map residues between the structures.
+
Return two dictionaries that map a residue in one structure to
the equivealent residue in the other structure.
"""
return self.map12, self.map21
def get_iterator(self):
- """
- Iterator over all residue pairs.
- """
+ """Iterator over all residue pairs."""
for i in range(0, len(self.duos)):
yield self.duos[i]
-
-
-if __name__ == "__main__":
- import sys
- from Bio.Alphabet import generic_protein
- from Bio import AlignIO
- from Bio.PDB import PDBParser
-
- if len(sys.argv) != 4:
- print("Expects three arguments,")
- print(" - FASTA alignment filename (expect two sequences)")
- print(" - PDB file one")
- print(" - PDB file two")
- sys.exit()
-
- # The alignment
- fa = AlignIO.read(open(sys.argv[1]), "fasta", generic_protein)
-
- pdb_file1 = sys.argv[2]
- pdb_file2 = sys.argv[3]
-
- # The structures
- p = PDBParser()
- s1 = p.get_structure('1', pdb_file1)
- p = PDBParser()
- s2 = p.get_structure('2', pdb_file2)
-
- # Get the models
- m1 = s1[0]
- m2 = s2[0]
-
- al = StructureAlignment(fa, m1, m2)
-
- # Print aligned pairs (r is None if gap)
- for (r1, r2) in al.get_iterator():
- print("%s %s" % (r1, r2))
diff --git a/Bio/PDB/StructureBuilder.py b/Bio/PDB/StructureBuilder.py
index da38469..d48b8dc 100644
--- a/Bio/PDB/StructureBuilder.py
+++ b/Bio/PDB/StructureBuilder.py
@@ -22,16 +22,18 @@ from Bio.PDB.PDBExceptions import PDBConstructionWarning
class StructureBuilder(object):
+ """Deals with contructing the Structure object.
+
+ The StructureBuilder class is used by the PDBParser classes to
+ translate a file to a Structure object.
"""
- Deals with contructing the Structure object. The StructureBuilder class is used
- by the PDBParser classes to translate a file to a Structure object.
- """
+
def __init__(self):
self.line_counter = 0
self.header = {}
def _is_completely_disordered(self, residue):
- "Return 1 if all atoms in the residue have a non blank altloc."
+ """Return 1 if all atoms in the residue have a non blank altloc."""
atom_list = residue.get_unpacked_list()
for atom in atom_list:
altloc = atom.get_altloc()
@@ -45,12 +47,11 @@ class StructureBuilder(object):
self.header = header
def set_line_counter(self, line_counter):
- """
- The line counter keeps track of the line in the PDB file that
- is being parsed.
+ """Tracks line in the PDB file that is being parsed.
Arguments:
- o line_counter - int
+ - line_counter - int
+
"""
self.line_counter = line_counter
@@ -58,7 +59,8 @@ class StructureBuilder(object):
"""Initiate a new Structure object with given id.
Arguments:
- o id - string
+ - id - string
+
"""
self.structure = Structure(structure_id)
@@ -66,8 +68,9 @@ class StructureBuilder(object):
"""Initiate a new Model object with given id.
Arguments:
- o id - int
- o serial_num - int
+ - id - int
+ - serial_num - int
+
"""
self.model = Model(model_id, serial_num)
self.structure.add(self.model)
@@ -76,7 +79,8 @@ class StructureBuilder(object):
"""Initiate a new Chain object with given id.
Arguments:
- o chain_id - string
+ - chain_id - string
+
"""
if self.model.has_id(chain_id):
self.chain = self.model[chain_id]
@@ -91,21 +95,21 @@ class StructureBuilder(object):
"""Flag a change in segid.
Arguments:
- o segid - string
+ - segid - string
+
"""
self.segid = segid
def init_residue(self, resname, field, resseq, icode):
- """
- Initiate a new Residue object.
+ """Initiate a new Residue object.
Arguments:
+ - resname - string, e.g. "ASN"
+ - field - hetero flag, "W" for waters, "H" for
+ hetero residues, otherwise blank.
+ - resseq - int, sequence identifier
+ - icode - string, insertion code
- - resname - string, e.g. "ASN"
- - field - hetero flag, "W" for waters, "H" for
- hetero residues, otherwise blank.
- - resseq - int, sequence identifier
- - icode - string, insertion code
"""
if field != " ":
if field == "H":
@@ -166,17 +170,17 @@ class StructureBuilder(object):
def init_atom(self, name, coord, b_factor, occupancy, altloc, fullname,
serial_number=None, element=None):
- """
- Initiate a new Atom object.
+ """Initiate a new Atom object.
Arguments:
- o name - string, atom name, e.g. CA, spaces should be stripped
- o coord - Numeric array (Float0, size 3), atomic coordinates
- o b_factor - float, B factor
- o occupancy - float
- o altloc - string, alternative location specifier
- o fullname - string, atom name including spaces, e.g. " CA "
- o element - string, upper case, e.g. "HG" for mercury
+ - name - string, atom name, e.g. CA, spaces should be stripped
+ - coord - Numeric array (Float0, size 3), atomic coordinates
+ - b_factor - float, B factor
+ - occupancy - float
+ - altloc - string, alternative location specifier
+ - fullname - string, atom name including spaces, e.g. " CA "
+ - element - string, upper case, e.g. "HG" for mercury
+
"""
residue = self.residue
# if residue is None, an exception was generated during
@@ -239,19 +243,19 @@ class StructureBuilder(object):
residue.add(self.atom)
def set_anisou(self, anisou_array):
- "Set anisotropic B factor of current Atom."
+ """Set anisotropic B factor of current Atom."""
self.atom.set_anisou(anisou_array)
def set_siguij(self, siguij_array):
- "Set standard deviation of anisotropic B factor of current Atom."
+ """Set standard deviation of anisotropic B factor of current Atom."""
self.atom.set_siguij(siguij_array)
def set_sigatm(self, sigatm_array):
- "Set standard deviation of atom position of current Atom."
+ """Set standard deviation of atom position of current Atom."""
self.atom.set_sigatm(sigatm_array)
def get_structure(self):
- "Return the structure."
+ """Return the structure."""
# first sort everything
# self.structure.sort()
# Add the header dict
diff --git a/Bio/PDB/Superimposer.py b/Bio/PDB/Superimposer.py
index cfe89ba..ecee6b2 100644
--- a/Bio/PDB/Superimposer.py
+++ b/Bio/PDB/Superimposer.py
@@ -14,17 +14,16 @@ from Bio.PDB.PDBExceptions import PDBException
class Superimposer(object):
- """
- Rotate/translate one set of atoms on top of another,
+ """Rotate/translate one set of atoms on top of another,
thereby minimizing the RMSD.
"""
+
def __init__(self):
self.rotran = None
self.rms = None
def set_atoms(self, fixed, moving):
- """
- Put (translate/rotate) the atoms in fixed on the atoms in
+ """Put (translate/rotate) the atoms in fixed on the atoms in
moving, in such a way that the RMSD is minimized.
@param fixed: list of (fixed) atoms
@@ -46,9 +45,7 @@ class Superimposer(object):
self.rotran = sup.get_rotran()
def apply(self, atom_list):
- """
- Rotate/translate a list of atoms.
- """
+ """Rotate/translate a list of atoms."""
if self.rotran is None:
raise PDBException("No transformation has been calculated yet")
rot, tran = self.rotran
@@ -56,31 +53,3 @@ class Superimposer(object):
tran = tran.astype('f')
for atom in atom_list:
atom.transform(rot, tran)
-
-
-if __name__ == "__main__":
- import sys
-
- from Bio.PDB import PDBParser, Selection
-
- p = PDBParser()
- s1 = p.get_structure("FIXED", sys.argv[1])
- fixed = Selection.unfold_entities(s1, "A")
-
- s2 = p.get_structure("MOVING", sys.argv[1])
- moving = Selection.unfold_entities(s2, "A")
-
- rot = numpy.identity(3).astype('f')
- tran = numpy.array((1.0, 2.0, 3.0), 'f')
-
- for atom in moving:
- atom.transform(rot, tran)
-
- sup = Superimposer()
-
- sup.set_atoms(fixed, moving)
-
- print(sup.rotran)
- print(sup.rms)
-
- sup.apply(moving)
diff --git a/Bio/PDB/Vector.py b/Bio/PDB/Vector.py
index 1f34275..76e8e74 100644
--- a/Bio/PDB/Vector.py
+++ b/Bio/PDB/Vector.py
@@ -11,15 +11,28 @@ import numpy
def m2rotaxis(m):
+ """Return angles, axis pair that corresponds to rotation matrix m.
+
+ The case where `m` is the identity matrix corresponds to a singularity where any
+ rotation axis is valid. In that case, `Vector([1,0,0])`, is returned.
"""
- Return angles, axis pair that corresponds to rotation matrix m.
- """
- # Angle always between 0 and pi
- # Sense of rotation is defined by axis orientation
- t = 0.5 * (numpy.trace(m) - 1)
- t = max(-1, t)
- t = min(1, t)
- angle = numpy.arccos(t)
+ eps = 1e-5
+
+ # Check for singularities a la http://www.euclideanspace.com/maths/geometry/rotations/conversions/matrixToAngle/
+ if abs(m[0, 1] - m[1, 0]) < eps and abs(m[0, 2] - m[2, 0]) < eps and abs(m[1, 2] - m[2, 1]) < eps:
+ # Singularity encountered. Check if its 0 or 180 deg
+ if abs(m[0, 1] + m[1, 0]) < eps and abs(m[0, 2] + m[2, 0]) < eps and abs(m[1, 2] + m[2, 1]) < eps and abs(m[0, 0] + m[1, 1] + m[2, 2] - 3) < eps:
+ angle = 0
+ else:
+ angle = numpy.pi
+ else:
+ # Angle always between 0 and pi
+ # Sense of rotation is defined by axis orientation
+ t = 0.5 * (numpy.trace(m) - 1)
+ t = max(-1, t)
+ t = min(1, t)
+ angle = numpy.arccos(t)
+
if angle < 1e-15:
# Angle is 0
return 0.0, Vector(1, 0, 0)
@@ -54,8 +67,9 @@ def m2rotaxis(m):
def vector_to_axis(line, point):
- """
- Returns the vector between a point and
+ """Vector to axis method.
+
+ Return the vector between a point and
the closest point on a line (ie. the perpendicular
projection of the point on the line).
@@ -72,7 +86,8 @@ def vector_to_axis(line, point):
def rotaxis2m(theta, vector):
- """
+ """Calculate left multiplying rotation matrix.
+
Calculate a left multiplying rotation matrix that rotates
theta rad around vector.
@@ -90,8 +105,7 @@ def rotaxis2m(theta, vector):
@return: The rotation matrix, a 3x3 Numeric array.
"""
- vector = vector.copy()
- vector.normalize()
+ vector = vector.normalized()
c = numpy.cos(theta)
s = numpy.sin(theta)
t = 1 - c
@@ -111,12 +125,12 @@ def rotaxis2m(theta, vector):
rot[2, 2] = t * z * z + c
return rot
+
rotaxis = rotaxis2m
def refmat(p, q):
- """
- Return a (left multiplying) matrix that mirrors p onto q.
+ """Return a (left multiplying) matrix that mirrors p onto q.
Example:
>>> mirror=refmat(p, q)
@@ -127,8 +141,8 @@ def refmat(p, q):
@type p,q: L{Vector}
@return: The mirror operation, a 3x3 Numeric array.
"""
- p.normalize()
- q.normalize()
+ p = p.normalized()
+ q = q.normalized()
if (p - q).norm() < 1e-5:
return numpy.identity(3)
pq = p - q
@@ -141,8 +155,7 @@ def refmat(p, q):
def rotmat(p, q):
- """
- Return a (left multiplying) matrix that rotates p onto q.
+ """Return a (left multiplying) matrix that rotates p onto q.
Example:
>>> r=rotmat(p, q)
@@ -163,7 +176,8 @@ def rotmat(p, q):
def calc_angle(v1, v2, v3):
- """
+ """Calculate angle method.
+
Calculate the angle between 3 vectors
representing 3 connected points.
@@ -179,7 +193,8 @@ def calc_angle(v1, v2, v3):
def calc_dihedral(v1, v2, v3, v4):
- """
+ """Calculate dihedral angle method.
+
Calculate the dihedral angle between 4 vectors
representing 4 connected points. The angle is in
]-pi, pi].
@@ -205,7 +220,7 @@ def calc_dihedral(v1, v2, v3, v4):
class Vector(object):
- "3D vector"
+ """3D vector."""
def __init__(self, x, y=None, z=None):
if y is None and z is None:
@@ -223,12 +238,12 @@ class Vector(object):
return "<Vector %.2f, %.2f, %.2f>" % (x, y, z)
def __neg__(self):
- "Return Vector(-x, -y, -z)"
+ """Return Vector(-x, -y, -z)."""
a = -self._ar
return Vector(a)
def __add__(self, other):
- "Return Vector+other Vector or scalar"
+ """Return Vector+other Vector or scalar."""
if isinstance(other, Vector):
a = self._ar + other._ar
else:
@@ -236,7 +251,7 @@ class Vector(object):
return Vector(a)
def __sub__(self, other):
- "Return Vector-other Vector or scalar"
+ """Return Vector-other Vector or scalar."""
if isinstance(other, Vector):
a = self._ar - other._ar
else:
@@ -244,16 +259,16 @@ class Vector(object):
return Vector(a)
def __mul__(self, other):
- "Return Vector.Vector (dot product)"
+ """Return Vector.Vector (dot product)."""
return sum(self._ar * other._ar)
def __div__(self, x):
- "Return Vector(coords/a)"
+ """Return Vector(coords/a)."""
a = self._ar / numpy.array(x)
return Vector(a)
def __pow__(self, other):
- "Return VectorxVector (cross product) or Vectorxscalar"
+ """Return VectorxVector (cross product) or Vectorxscalar."""
if isinstance(other, Vector):
a, b, c = self._ar
d, e, f = other._ar
@@ -275,25 +290,33 @@ class Vector(object):
return (i in self._ar)
def norm(self):
- "Return vector norm"
+ """Return vector norm."""
return numpy.sqrt(sum(self._ar * self._ar))
def normsq(self):
- "Return square of vector norm"
+ """Return square of vector norm."""
return abs(sum(self._ar * self._ar))
def normalize(self):
- "Normalize the Vector"
- self._ar = self._ar / self.norm()
+ """Normalize the Vector object.
+
+ Changes the state of `self` and doesn't return a value. If you need to chain function
+ calls or create a new object use the `normalized` method.
+ """
+ if self.norm():
+ self._ar = self._ar / self.norm()
def normalized(self):
- "Return a normalized copy of the Vector"
+ """Return a normalized copy of the Vector.
+
+ To avoid allocating new objects use the `normalize` method.
+ """
v = self.copy()
v.normalize()
return v
def angle(self, other):
- "Return angle between two vectors"
+ """Return angle between two vectors."""
n1 = self.norm()
n2 = other.norm()
c = (self * other) / (n1 * n2)
@@ -303,89 +326,19 @@ class Vector(object):
return numpy.arccos(c)
def get_array(self):
- "Return (a copy of) the array of coordinates"
+ """Return (a copy of) the array of coordinates."""
return numpy.array(self._ar)
def left_multiply(self, matrix):
- "Return Vector=Matrix x Vector"
+ """Return Vector=Matrix x Vector."""
a = numpy.dot(matrix, self._ar)
return Vector(a)
def right_multiply(self, matrix):
- "Return Vector=Vector x Matrix"
+ """Return Vector=Vector x Matrix."""
a = numpy.dot(self._ar, matrix)
return Vector(a)
def copy(self):
- "Return a deep copy of the Vector"
+ """Return a deep copy of the Vector."""
return Vector(self._ar)
-
-if __name__ == "__main__":
-
- from numpy.random import random
-
- v1 = Vector(0, 0, 1)
- v2 = Vector(0, 0, 0)
- v3 = Vector(0, 1, 0)
- v4 = Vector(1, 1, 0)
-
- v4.normalize()
-
- print(v4)
-
- print(calc_angle(v1, v2, v3))
- dih = calc_dihedral(v1, v2, v3, v4)
- # Test dihedral sign
- assert(dih > 0)
- print("DIHEDRAL %f" % dih)
-
- ref = refmat(v1, v3)
- rot = rotmat(v1, v3)
-
- print(v3)
- print(v1.left_multiply(ref))
- print(v1.left_multiply(rot))
- print(v1.right_multiply(numpy.transpose(rot)))
-
- # -
- print(v1 - v2)
- print(v1 - 1)
- print(v1 + (1, 2, 3))
- # +
- print(v1 + v2)
- print(v1 + 3)
- print(v1 - (1, 2, 3))
- # *
- print(v1 * v2)
- # /
- print(v1 / 2)
- print(v1 / (1, 2, 3))
- # **
- print(v1 ** v2)
- print(v1 ** 2)
- print(v1 ** (1, 2, 3))
- # norm
- print(v1.norm())
- # norm squared
- print(v1.normsq())
- # setitem
- v1[2] = 10
- print(v1)
- # getitem
- print(v1[2])
-
- print(numpy.array(v1))
-
- print("ROT")
-
- angle = random() * numpy.pi
- axis = Vector(random(3) - random(3))
- axis.normalize()
-
- m = rotaxis(angle, axis)
-
- cangle, caxis = m2rotaxis(m)
-
- print(angle - cangle)
- print(axis - caxis)
- print("")
diff --git a/Bio/PDB/mmtf/DefaultParser.py b/Bio/PDB/mmtf/DefaultParser.py
index 6d3af7a..9f1c40b 100644
--- a/Bio/PDB/mmtf/DefaultParser.py
+++ b/Bio/PDB/mmtf/DefaultParser.py
@@ -10,14 +10,15 @@ class StructureDecoder(object):
def init_structure(self, total_num_bonds, total_num_atoms,
total_num_groups, total_num_chains, total_num_models,
structure_id):
- """Initialise the structure object.
+ """Initialize the structure object.
:param total_num_bonds: the number of bonds in the structure
:param total_num_atoms: the number of atoms in the structure
:param total_num_groups: the number of groups in the structure
:param total_num_chains: the number of chains in the structure
:param total_num_models: the number of models in the structure
- :param structure_id the: id of the structure (e.g. PDB id)
+ :param structure_id: the id of the structure (e.g. PDB id)
+
"""
self.structure_bulder = StructureBuilder()
self.structure_bulder.init_structure(structure_id=structure_id)
@@ -40,7 +41,13 @@ class StructureDecoder(object):
:param temperature_factor: the temperature factor of the atom
:param element: the element of the atom, e.g. C for carbon. According to IUPAC. Calcium is Ca
:param charge: the formal atomic charge of the atom
+
"""
+ # MMTF uses "\x00" (the NUL character) to indicate to altloc, so convert
+ # that to the space required by StructureBuilder
+ if alternative_location_id == "\x00":
+ alternative_location_id = " "
+
# Atom_name is in twice - the full_name is with spaces
self.structure_bulder.init_atom(str(atom_name), [x, y, z],
temperature_factor, occupancy,
@@ -54,12 +61,13 @@ class StructureDecoder(object):
:param chain_id: the asym chain id from mmCIF
:param chain_name: the auth chain id from mmCIF
:param num_groups: the number of groups this chain has
+
"""
# A Bradley - chose to use chain_name (auth_id) as it complies
# with current BioPython. Chain_id might be better.
self.structure_bulder.init_chain(chain_id=chain_name)
if self.chain_index_to_type_map[self.chain_counter] == "polymer":
- self.this_type = ""
+ self.this_type = " "
elif self.chain_index_to_type_map[self.chain_counter] == "non-polymer":
self.this_type = "H"
elif self.chain_index_to_type_map[self.chain_counter] == "water":
@@ -73,6 +81,7 @@ class StructureDecoder(object):
:param sequence: the one letter code sequence for this entity
:param description: the description for this entity
:param entity_type: the entity type (polymer,non-polymer,water)
+
"""
for chain_ind in chain_indices:
self.chain_index_to_type_map[chain_ind] = entity_type
@@ -88,14 +97,20 @@ class StructureDecoder(object):
:param group_number: the residue number of this group
:param insertion_code: the insertion code for this group
:param group_type: a string indicating the type of group (as found in the chemcomp dictionary.
- Empty string if none available.
+ Empty string if none available.
:param atom_count: the number of atoms in the group
:param bond_count: the number of unique bonds in the group
:param single_letter_code: the single letter code of the group
:param sequence_index: the index of this group in the sequence defined by the enttiy
- :param secondary_structure_type: the type of secondary structure used (types are according to DSSP and
- number to type mappings are defined in the specification)
+ :param secondary_structure_type: the type of secondary structure used
+ (types are according to DSSP and number to type mappings are defined in the specification)
+
"""
+ # MMTF uses a NUL character to indicate a blank insertion code, but
+ # StructureBuilder expects a space instead.
+ if insertion_code == "\x00":
+ insertion_code = " "
+
self.structure_bulder.init_seg(' ')
self.structure_bulder.init_residue(group_name, self.this_type,
group_number, insertion_code)
@@ -105,6 +120,7 @@ class StructureDecoder(object):
:param model_id: the index for the model
:param chain_count: the number of chains in the model
+
"""
self.structure_bulder.init_model(model_id)
@@ -113,6 +129,7 @@ class StructureDecoder(object):
:param space_group: the space group name, e.g. "P 21 21 21"
:param unit_cell: an array of length 6 with the unit cell parameters in order: a, b, c, alpha, beta, gamma
+
"""
self.structure_bulder.set_symmetry(space_group, unit_cell)
@@ -127,6 +144,7 @@ class StructureDecoder(object):
:param deposition_date: the deposition date of the structure
:param release_date: the release date of the structure
:param experimnetal_methods: the list of experimental methods in the structure
+
"""
pass
@@ -136,7 +154,9 @@ class StructureDecoder(object):
:param bio_assembly_index: the integer index of the bioassembly
:param input_chain_indices: the list of integer indices for the chains of this bioassembly
- :param input_transformation: the list of doubles for the transform of this bioassmbly transform"""
+ :param input_transform: the list of doubles for the transform of this bioassmbly transform.
+
+ """
pass
def finalize_structure(self):
@@ -149,6 +169,7 @@ class StructureDecoder(object):
:param atom_index_one: the integer atom index (in the group) of the first partner in the bond
:param atom_index_two: the integer atom index (in the group) of the second partner in the bond
:param bond_order: the integer bond order
+
"""
pass
@@ -157,6 +178,7 @@ class StructureDecoder(object):
:param atom_index_one: the integer atom index (in the structure) of the first partner in the bond
:param atom_index_two: the integer atom index (in the structure) of the second partner in the bond
- :param bond_order the bond order
+ :param bond_order: the bond order
+
"""
pass
diff --git a/Bio/PDB/mmtf/__init__.py b/Bio/PDB/mmtf/__init__.py
index c0650e6..2af6bc7 100644
--- a/Bio/PDB/mmtf/__init__.py
+++ b/Bio/PDB/mmtf/__init__.py
@@ -15,12 +15,14 @@ def get_from_decoded(decoder):
class MMTFParser(object):
"""Class to get a BioPython structure from a URL or a filename."""
+
@staticmethod
def get_structure_from_url(pdb_id):
"""Get a structure from a URL - given a PDB id.
:param pdb_id: the input PDB id
- :return the structure
+ :return: the structure
+
"""
decoder = fetch(pdb_id)
return get_from_decoded(decoder)
@@ -30,7 +32,8 @@ class MMTFParser(object):
"""Get a structrue from a file - given a file path.
:param file_path: the input file path
- :return the structure
+ :return: the structure
+
"""
decoder = parse(file_path)
return get_from_decoded(decoder)
diff --git a/Bio/PDB/parse_pdb_header.py b/Bio/PDB/parse_pdb_header.py
index 8de971c..f98d35c 100644
--- a/Bio/PDB/parse_pdb_header.py
+++ b/Bio/PDB/parse_pdb_header.py
@@ -65,7 +65,7 @@ def _get_references(inl):
# bring dates to format: 1909-01-08
def _format_date(pdb_date):
- """Converts dates from DD-Mon-YY to YYYY-MM-DD format."""
+ """Convert dates from DD-Mon-YY to YYYY-MM-DD format."""
date = ""
year = int(pdb_date[7:])
if year < 50:
@@ -93,7 +93,7 @@ def _chop_end_misc(line):
def _nice_case(line):
- """Makes A Lowercase String With Capitals."""
+ """Make A Lowercase String With Capitals."""
l = line.lower()
s = ""
i = 0
@@ -112,8 +112,7 @@ def _nice_case(line):
def parse_pdb_header(infile):
- """
- Returns the header lines of a pdb file as a dictionary.
+ """Return the header lines of a pdb file as a dictionary.
Dictionary keys are: head, deposition_date, release_date, structure_method,
resolution, structure_reference, journal_reference, author and
@@ -245,7 +244,7 @@ def _parse_pdb_header_list(header):
r = re.sub("\s+ANGSTROM.*", "", r)
try:
dict['resolution'] = float(r)
- except:
+ except ValueError:
# print('nonstandard resolution %r' % r)
dict['resolution'] = None
else:
@@ -255,17 +254,3 @@ def _parse_pdb_header_list(header):
if dict['resolution'] > 0.0:
dict['structure_method'] = 'x-ray diffraction'
return dict
-
-if __name__ == '__main__':
- # Reads a PDB file passed as argument, parses its header, extracts
- # some data and returns it as a dictionary.
- import sys
- filename = sys.argv[1]
- with open(filename, 'r') as handle:
- data_dict = parse_pdb_header(handle)
-
- # print the dictionary
- for k, y in data_dict.items():
- print("-" * 40)
- print(k)
- print(y)
diff --git a/Bio/ParserSupport.py b/Bio/ParserSupport.py
index 62437f9..5f4376a 100644
--- a/Bio/ParserSupport.py
+++ b/Bio/ParserSupport.py
@@ -6,20 +6,18 @@
"""Code to support writing parsers (DEPRECATED).
Classes:
-
- - AbstractParser Base class for parsers.
- - AbstractConsumer Base class of all Consumers.
- - TaggingConsumer Consumer that tags output with its event. For debugging
+ - AbstractParser Base class for parsers.
+ - AbstractConsumer Base class of all Consumers.
+ - TaggingConsumer Consumer that tags output with its event. For debugging
Functions:
-
- - safe_readline Read a line from a handle, with check for EOF.
- - safe_peekline Peek at next line, with check for EOF.
- - read_and_call Read a line from a handle and pass it to a method.
- - read_and_call_while Read many lines, as long as a condition is met.
- - read_and_call_until Read many lines, until a condition is met.
- - attempt_read_and_call Like read_and_call, but forgiving of errors.
- - is_blank_line Test whether a line is blank.
+ - safe_readline Read a line from a handle, with check for EOF.
+ - safe_peekline Peek at next line, with check for EOF.
+ - read_and_call Read a line from a handle and pass it to a method.
+ - read_and_call_while Read many lines, as long as a condition is met.
+ - read_and_call_until Read many lines, until a condition is met.
+ - attempt_read_and_call Like read_and_call, but forgiving of errors.
+ - is_blank_line Test whether a line is blank.
"""
@@ -33,9 +31,8 @@ warnings.warn("Bio.ParserSupport is now deprecated will be removed in a "
class AbstractParser(object):
- """Base class for other parsers.
+ """Base class for other parsers."""
- """
def parse(self, handle):
raise NotImplementedError("Please implement in a derived class")
@@ -55,6 +52,7 @@ class AbstractConsumer(object):
methods for each event that you want to receive.
"""
+
def _unhandled_section(self):
pass
@@ -70,12 +68,22 @@ class AbstractConsumer(object):
class TaggingConsumer(AbstractConsumer):
- """A Consumer that tags the data stream with the event and
+ """Debugging consumer which tags data with the event and logs it.
+
+ This is a Consumer that tags the data stream with the event and
prints it to a handle. Useful for debugging.
"""
+
def __init__(self, handle=None, colwidth=15, maxwidth=80):
- """TaggingConsumer(handle=sys.stdout, colwidth=15, maxwidth=80)"""
+ """Initialize.
+
+ Arguments:
+ - handle to log to, defaults to `sys.stdout`
+ - colwidth for logging to the handle
+ - maxwidth for truncation when logging
+
+ """
# I can't assign sys.stdout to handle in the argument list.
# If I do that, handle will be assigned the value of sys.stdout
# the first time this function is called. This will fail if
@@ -112,7 +120,7 @@ class TaggingConsumer(AbstractConsumer):
def read_and_call(uhandle, method, **keywds):
- """read_and_call(uhandle, method[, start][, end][, contains][, blank][, has_re])
+ """Read line and pass it to the method.
Read a line from uhandle, check it, and pass it to the method.
Raises a ValueError if the line does not pass the checks.
@@ -134,7 +142,7 @@ def read_and_call(uhandle, method, **keywds):
def read_and_call_while(uhandle, method, **keywds):
- """read_and_call_while(uhandle, method[, start][, end][, contains][, blank][, has_re]) -> number of lines
+ """Read line and pass it to the method while condition is true.
Read a line from uhandle and pass it to the method as long as
some condition is true. Returns the number of lines that were read.
@@ -155,8 +163,7 @@ def read_and_call_while(uhandle, method, **keywds):
def read_and_call_until(uhandle, method, **keywds):
- """read_and_call_until(uhandle, method,
- start=None, end=None, contains=None, blank=None) -> number of lines
+ """Read line and pass it to the method until condition is true.
Read a line from uhandle and pass it to the method until
some condition is true. Returns the number of lines that were read.
@@ -177,7 +184,7 @@ def read_and_call_until(uhandle, method, **keywds):
def attempt_read_and_call(uhandle, method, **keywds):
- """attempt_read_and_call(uhandle, method, **keywds) -> boolean
+ """Attempt read line and call method.
Similar to read_and_call, but returns a boolean specifying
whether the line has passed the checks. Does not raise
@@ -222,7 +229,7 @@ def _fails_conditions(line, start=None, end=None, contains=None, blank=None,
def is_blank_line(line, allow_spaces=0):
- """is_blank_line(line, allow_spaces=0) -> boolean
+ """Check if a line is blank.
Return whether a line is blank. allow_spaces specifies whether to
allow whitespaces in a blank line. A true value signifies that a
@@ -238,7 +245,7 @@ def is_blank_line(line, allow_spaces=0):
def safe_readline(handle):
- """safe_readline(handle) -> line
+ """Read a line, otherwise raises ValueError.
Read a line from an UndoHandle and return it. If there are no more
lines to read, I will raise a ValueError.
@@ -251,7 +258,7 @@ def safe_readline(handle):
def safe_peekline(handle):
- """safe_peekline(handle) -> line
+ """Peek at the next line if present, otherwise raises ValueError.
Peek at the next line in an UndoHandle and return it. If there are no
more lines to peek, I will raise a ValueError.
diff --git a/Bio/Pathway/__init__.py b/Bio/Pathway/__init__.py
index 369f6de..c3db93f 100644
--- a/Bio/Pathway/__init__.py
+++ b/Bio/Pathway/__init__.py
@@ -28,25 +28,26 @@ graph theoretic and numeric analysis.
Note: This module should be regarded as a prototype only. API changes are likely.
Comments and feature requests are most welcome.
+
"""
from functools import reduce
-from Bio.Pathway.Rep.MultiGraph import *
+from Bio.Pathway.Rep.MultiGraph import MultiGraph, bf_search, df_search
class Reaction(object):
"""Abstraction for a biochemical transformation.
This class represents a (potentially reversible) biochemical
- transformation of the type:
+ transformation of the type::
a S1 + b S2 + ... --> c P1 + d P2 + ...
- where
- - a, b, c, d ... are positive numeric stochiometric coefficients,
- - S1, S2, ... are substrates
- - P1, P2, ... are products
+ where:
+ - a, b, c, d ... are positive numeric stochiometric coefficients,
+ - S1, S2, ... are substrates
+ - P1, P2, ... are products
A Reaction should be viewed as the net result of one or more individual
reaction steps, where each step is potentially facilitated by a different
@@ -54,17 +55,15 @@ class Reaction(object):
the future.
Attributes:
-
- - reactants -- dict of involved species to their stochiometric coefficients:
- reactants[S] = stochiometric constant for S
- - catalysts -- list/tuple of tuples of catalysts required for this reaction
- - reversible -- true iff reaction is reversible
- - data -- reference to arbitrary additional data
+ - reactants -- dict of involved species to their stochiometric coefficients:
+ reactants[S] = stochiometric constant for S
+ - catalysts -- list/tuple of tuples of catalysts required for this reaction
+ - reversible -- true iff reaction is reversible
+ - data -- reference to arbitrary additional data
Invariants:
-
- - for all S in reactants: reactants[S] != 0
- - for all C in catalysts: catalysts[C] != 0
+ - for all S in reactants: reactants[S] != 0
+ - for all C in catalysts: catalysts[C] != 0
"""
@@ -157,8 +156,8 @@ class System(object):
collection of reactions without explicitly defined links.
Attributes:
+ - None
- None
"""
def __init__(self, reactions=()):
@@ -199,13 +198,13 @@ class System(object):
def stochiometry(self):
"""Computes the stoichiometry matrix for self.
- Returns (species, reactions, stoch) where
+ Returns (species, reactions, stoch) where:
+ - species = ordered list of species in this system
+ - reactions = ordered list of reactions in this system
+ - stoch = 2D array where stoch[i][j] is coef of the
+ jth species in the ith reaction, as defined
+ by species and reactions above
- - species = ordered list of species in this system
- - reactions = ordered list of reactions in this system
- - stoch = 2D array where stoch[i][j] is coef of the
- jth species in the ith reaction, as defined
- by species and reactions above
"""
# Note: This an inefficient and ugly temporary implementation.
# To be practical, stochiometric matrices should probably
@@ -230,8 +229,8 @@ class Interaction(object):
be implemented and extended by more specific abstractions.
Attributes:
+ - data -- reference to arbitrary additional data
- - data -- reference to arbitrary additional data
"""
def __init_(self, data):
@@ -259,8 +258,8 @@ class Network(object):
object.
Attributes:
+ - None
- None
"""
def __init__(self, species=()):
diff --git a/Bio/Phylo/Applications/__init__.py b/Bio/Phylo/Applications/__init__.py
index dd5b82f..153dd79 100644
--- a/Bio/Phylo/Applications/__init__.py
+++ b/Bio/Phylo/Applications/__init__.py
@@ -9,7 +9,7 @@ from ._Raxml import RaxmlCommandline
from ._Fasttree import FastTreeCommandline
# Make this explicit, then they show up in the API docs
-__all__ = ["PhymlCommandline",
+__all__ = ("PhymlCommandline",
"RaxmlCommandline",
"FastTreeCommandline",
- ]
+ )
diff --git a/Bio/Phylo/BaseTree.py b/Bio/Phylo/BaseTree.py
index d82436f..903e9e9 100644
--- a/Bio/Phylo/BaseTree.py
+++ b/Bio/Phylo/BaseTree.py
@@ -24,6 +24,7 @@ from Bio import _utils
import sys
if sys.version_info[0] < 3:
def as_string(s):
+ """Encode string to UTF-8."""
if isinstance(s, unicode):
return s.encode('utf-8')
return str(s)
@@ -262,12 +263,14 @@ class TreeMixin(object):
required to have all of Tree's attributes -- just ``root`` (a Clade
instance) and ``is_terminal``.
"""
+
# Traversal methods
def _filter_search(self, filter_func, order, follow_attrs):
"""Perform a BFS or DFS traversal through all elements in this tree.
:returns: generator of all elements for which `filter_func` is True.
+
"""
order_opts = {'preorder': _preorder_traverse,
'postorder': _postorder_traverse,
@@ -354,6 +357,7 @@ class TreeMixin(object):
:returns: an iterable through all matching objects, searching
depth-first (preorder) by default.
+
"""
def match_attrs(elem):
orig_clades = elem.__dict__.pop('clades')
@@ -373,6 +377,7 @@ class TreeMixin(object):
:returns: list of all clade objects along this path, ending with the
given target, but excluding the root clade.
+
"""
# Only one path will work -- ignore weights and visits
path = []
@@ -418,9 +423,10 @@ class TreeMixin(object):
"""Most recent common ancestor (clade) of all the given targets.
Edge cases:
- - If no target is given, returns self.root
- - If 1 target is given, returns the target
- - If any target is not found in this tree, raises a ValueError
+ - If no target is given, returns self.root
+ - If 1 target is given, returns the target
+ - If any target is not found in this tree, raises a ValueError
+
"""
paths = [self.get_path(t)
for t in _combine_args(targets, *more_targets)]
@@ -456,6 +462,7 @@ class TreeMixin(object):
:returns: dict of {clade: depth}, where keys are all of the Clade
instances in the tree, and values are the distance from the root to
each clade (including terminals).
+
"""
if unit_branch_lengths:
depth_of = lambda c: 1
@@ -520,6 +527,7 @@ class TreeMixin(object):
otherwise.
:returns: common ancestor if terminals are monophyletic, otherwise False.
+
"""
target_set = set(_combine_args(terminals, *more_terminals))
current = self.root
@@ -564,6 +572,7 @@ class TreeMixin(object):
"""Deletes target from the tree, relinking its children to its parent.
:returns: the parent clade.
+
"""
path = self.get_path(target, **kwargs)
if not path:
@@ -649,6 +658,7 @@ class TreeMixin(object):
longer be a meaningful value.
:returns: parent clade of the pruned target
+
"""
if 'terminal' in kwargs and kwargs['terminal']:
raise ValueError("target must be terminal")
@@ -720,9 +730,11 @@ class Tree(TreeElement, TreeMixin):
The identifier of the tree, if there is one.
name : str
The name of the tree, in essence a label.
+
"""
def __init__(self, root=None, rooted=True, id=None, name=None):
+ """Initialize parameter for phylogenetic tree."""
self.root = root or Clade()
self.rooted = rooted
self.id = id
@@ -746,6 +758,7 @@ class Tree(TreeElement, TreeMixin):
strings.
:returns: a tree of the same type as this class.
+
"""
if isinstance(taxa, int):
taxa = ['taxon%s' % (i + 1) for i in range(taxa)]
@@ -795,14 +808,13 @@ class Tree(TreeElement, TreeMixin):
Operates in-place.
Edge cases:
-
- - If ``outgroup == self.root``, no change
- - If outgroup is terminal, create new bifurcating root node with a
- 0-length branch to the outgroup
- - If outgroup is internal, use the given outgroup node as the new
- trifurcating root, keeping branches the same
- - If the original root was bifurcating, drop it from the tree,
- preserving total branch lengths
+ - If ``outgroup == self.root``, no change
+ - If outgroup is terminal, create new bifurcating root node with a
+ 0-length branch to the outgroup
+ - If outgroup is internal, use the given outgroup node as the new
+ trifurcating root, keeping branches the same
+ - If the original root was bifurcating, drop it from the tree,
+ preserving total branch lengths
:param outgroup_branch_length: length of the branch leading to the
outgroup after rerooting. If not specified (None), then:
@@ -938,6 +950,7 @@ class Tree(TreeElement, TreeMixin):
:param format_spec: a lower-case string supported by `Bio.Phylo.write`
as an output file format.
+
"""
if format_spec:
from Bio._py3k import StringIO
@@ -1008,10 +1021,12 @@ class Clade(TreeElement, TreeMixin):
The display color of the branch and descendents.
width : number
The display width of the branch and descendents.
+
"""
def __init__(self, branch_length=None, name=None, clades=None,
confidence=None, color=None, width=None):
+ """Define parameters for the Clade tree."""
self.branch_length = branch_length
self.name = name
self.clades = clades or []
@@ -1060,6 +1075,7 @@ class Clade(TreeElement, TreeMixin):
__nonzero__ = __bool__
def __str__(self):
+ """Return name of the class instance."""
if self.name:
return _utils.trim_str(self.name, 40, '...')
return self.__class__.__name__
@@ -1139,6 +1155,7 @@ class BranchColor(object):
}
def __init__(self, red, green, blue):
+ """Initialize BranchColor for a tree."""
for color in (red, green, blue):
assert (isinstance(color, int) and
0 <= color <= 255
@@ -1178,6 +1195,7 @@ class BranchColor(object):
>>> bc = BranchColor(12, 200, 100)
>>> bc.to_hex()
'#0cc864'
+
"""
return "#%02x%02x%02x" % (self.red, self.green, self.blue)
@@ -1189,6 +1207,7 @@ class BranchColor(object):
>>> bc = BranchColor(255, 165, 0)
>>> bc.to_rgb()
(255, 165, 0)
+
"""
return (self.red, self.green, self.blue)
diff --git a/Bio/Phylo/CDAO.py b/Bio/Phylo/CDAO.py
index 91a79e9..60f62bd 100644
--- a/Bio/Phylo/CDAO.py
+++ b/Bio/Phylo/CDAO.py
@@ -16,6 +16,7 @@ class Tree(BaseTree.Tree):
"""CDAO Tree object."""
def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
+ """Initialize value of for the CDAO tree object."""
BaseTree.Tree.__init__(self, root=root or Clade(),
rooted=rooted, id=id, name=name)
self.weight = weight
@@ -29,6 +30,7 @@ class Clade(BaseTree.Clade):
def __init__(self, branch_length=1.0, name=None, clades=None,
confidence=None, comment=None):
+ """Initialize values for the CDAO Clade object."""
BaseTree.Clade.__init__(self, branch_length=branch_length,
name=name, clades=clades, confidence=confidence)
self.comment = comment
diff --git a/Bio/Phylo/CDAOIO.py b/Bio/Phylo/CDAOIO.py
index b9ef6be..9458099 100644
--- a/Bio/Phylo/CDAOIO.py
+++ b/Bio/Phylo/CDAOIO.py
@@ -21,23 +21,28 @@ them to a file.
from Bio._py3k import StringIO
+from Bio import MissingPythonDependencyError
+
from Bio.Phylo import CDAO
from ._cdao_owl import cdao_elements, cdao_namespaces, resolve_uri
import os
class CDAOError(Exception):
- """Exception raised when CDAO object construction cannot continue."""
+ """Exception raised when CDAO object construction cannot continue (DEPRECATED)."""
+
pass
+
try:
import rdflib
rdfver = rdflib.__version__
if rdfver[0] in ["1", "2"] or (rdfver in ["3.0.0", "3.1.0", "3.2.0"]):
- raise CDAOError(
+ raise MissingPythonDependencyError(
'Support for CDAO tree format requires RDFlib v3.2.1 or later.')
except ImportError:
- raise CDAOError('Support for CDAO tree format requires RDFlib.')
+ raise MissingPythonDependencyError(
+ 'Support for CDAO tree format requires RDFlib.')
RDF_NAMESPACES = {
'owl': 'http://www.w3.org/2002/07/owl#',
@@ -50,10 +55,12 @@ ZEROES = 8
def qUri(x):
+ """Resolve URI for librdf."""
return resolve_uri(x, namespaces=RDF_NAMESPACES)
def format_label(x):
+ """Format label for librdf."""
return x.replace('_', ' ')
@@ -64,6 +71,7 @@ def parse(handle, **kwargs):
"""Iterate over the trees in a CDAO file handle.
:returns: generator of Bio.Phylo.CDAO.Tree objects.
+
"""
return Parser(handle).parse(**kwargs)
@@ -72,6 +80,7 @@ def write(trees, handle, plain=False, **kwargs):
"""Write a trees in CDAO format to the given file handle.
:returns: number of trees written.
+
"""
return Writer(trees).write(handle, plain=plain, **kwargs)
@@ -83,6 +92,7 @@ class Parser(object):
"""Parse a CDAO tree given a file handle."""
def __init__(self, handle=None):
+ """initialize the value for CDAO tree parser."""
self.handle = handle
self.graph = None
self.node_info = None
@@ -91,6 +101,7 @@ class Parser(object):
@classmethod
def from_string(cls, treetext):
+ """Instantiate the class from the given string."""
handle = StringIO(treetext)
return cls(handle)
@@ -102,7 +113,6 @@ class Parser(object):
def parse_handle_to_graph(self, rooted=False,
parse_format='turtle', context=None, **kwargs):
"""Parse self.handle into RDF model self.model."""
-
if self.graph is None:
self.graph = rdflib.Graph()
graph = self.graph
@@ -124,7 +134,6 @@ class Parser(object):
def parse_graph(self, graph=None, context=None):
"""Generator that yields CDAO.Tree instances from an RDF model."""
-
if graph is None:
graph = self.graph
@@ -138,7 +147,6 @@ class Parser(object):
def new_clade(self, node):
"""Returns a CDAO.Clade object for a given named node."""
-
result = self.node_info[node]
kwargs = {}
@@ -155,7 +163,6 @@ class Parser(object):
def get_node_info(self, graph, context=None):
"""Creates a dictionary containing information about all nodes in the tree."""
-
self.node_info = {}
self.obj_info = {}
self.children = {}
@@ -233,7 +240,6 @@ class Parser(object):
traversing the entire tree and creating a nested structure of CDAO.Clade
objects.
"""
-
clade = self.new_clade(node)
children = self.children[node] if node in self.children else []
@@ -248,9 +254,11 @@ class Parser(object):
class Writer(object):
"""Based on the writer in Bio.Nexus.Trees (str, to_string)."""
+
prefixes = RDF_NAMESPACES
def __init__(self, trees):
+ """initialize parameters for writing a CDAO tree."""
self.trees = trees
self.node_counter = 0
@@ -261,7 +269,6 @@ class Writer(object):
def write(self, handle, tree_uri='', record_complete_ancestry=False,
rooted=False, **kwargs):
"""Write this instance's trees to a file handle."""
-
self.rooted = rooted
self.record_complete_ancestry = record_complete_ancestry
@@ -287,6 +294,7 @@ class Writer(object):
self.add_stmt_to_handle(handle, stmt)
def add_stmt_to_handle(self, handle, stmt):
+ """Add URI prefix to handle."""
# apply URI prefixes
stmt_strings = []
for n, part in enumerate(stmt):
@@ -313,8 +321,7 @@ class Writer(object):
handle.write('%s .\n' % ' '.join(stmt_strings))
def process_clade(self, clade, parent=None, root=False):
- """recursively generate triples describing a tree of clades"""
-
+ """recursively generate triples describing a tree of clades."""
self.node_counter += 1
clade.uri = 'node%s' % str(self.node_counter).zfill(ZEROES)
if parent:
diff --git a/Bio/Phylo/Consensus.py b/Bio/Phylo/Consensus.py
index 3d7805b..12e4647 100644
--- a/Bio/Phylo/Consensus.py
+++ b/Bio/Phylo/Consensus.py
@@ -3,7 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-""" Classes and methods for finding consensus trees.
+"""Classes and methods for finding consensus trees.
This module contains a ``_BitString`` class to assist the consensus tree
searching and some common consensus algorithms such as strict, majority rule and
@@ -119,7 +119,7 @@ class _BitString(str):
"""
def __new__(cls, strdata):
- """init from a binary string data"""
+ """Init from a binary string data"""
if (isinstance(strdata, str) and
len(strdata) == strdata.count('0') + strdata.count('1')):
return str.__new__(cls, strdata)
@@ -185,6 +185,7 @@ class _BitString(str):
Be careful, "011011" also contains "000000". Actually, all _BitString
objects contain all-zero _BitString of the same length.
+
"""
xorbit = self ^ other
return (xorbit.count('1') == self.count('1') - other.count('1'))
@@ -205,9 +206,9 @@ class _BitString(str):
"""Check if current bitstr1 is compatible with another bitstr2.
Two conditions are considered as compatible:
+ 1. bitstr1.contain(bitstr2) or vise versa;
+ 2. bitstr1.independent(bitstr2).
- 1. bitstr1.contain(bitstr2) or vise versa;
- 2. bitstr1.independent(bitstr2).
"""
return (self.contains(other) or other.contains(self) or
self.independent(other))
@@ -223,6 +224,7 @@ def strict_consensus(trees):
:Parameters:
trees : iterable
iterable of trees to produce consensus tree.
+
"""
trees_iter = iter(trees)
first_tree = next(trees_iter)
@@ -282,6 +284,7 @@ def majority_consensus(trees, cutoff=0):
:Parameters:
trees : iterable
iterable of trees to produce consensus tree.
+
"""
tree_iter = iter(trees)
first_tree = next(tree_iter)
@@ -375,13 +378,14 @@ def adam_consensus(trees):
:Parameters:
trees : list
list of trees to produce consensus tree.
+
"""
clades = [tree.root for tree in trees]
return BaseTree.Tree(root=_part(clades), rooted=True)
def _part(clades):
- """recursive function of adam consensus algorithm"""
+ """Recursive function of adam consensus algorithm"""
new_clade = None
terms = clades[0].get_terminals()
term_names = [term.name for term in terms]
@@ -440,7 +444,7 @@ def _part(clades):
def _sub_clade(clade, term_names):
- """extract a compatible subclade that only contains the given terminal names"""
+ """Extract a compatible subclade that only contains the given terminal names"""
term_clades = [clade.find_any(name) for name in term_names]
sub_clade = clade.common_ancestor(term_clades)
if len(term_names) != sub_clade.count_terminals():
@@ -473,6 +477,7 @@ def _count_clades(trees):
:Parameters:
trees : iterable
An iterable that returns the trees to count
+
"""
bitstrs = {}
tree_count = 0
@@ -502,6 +507,7 @@ def get_support(target_tree, trees, len_trees=None):
len_trees : int
optional count of replicates in trees. len_trees must be provided
when len(trees) is not a valid operation.
+
"""
term_names = sorted(term.name
for term in target_tree.find_clades(terminal=True))
@@ -537,8 +543,8 @@ def bootstrap(msa, times):
multiple sequence alignment to generate replicates.
times : int
number of bootstrap times.
- """
+ """
length = len(msa[0])
i = 0
while i < times:
@@ -563,8 +569,8 @@ def bootstrap_trees(msa, times, tree_constructor):
number of bootstrap times.
tree_constructor : TreeConstructor
tree constructor to be used to build trees.
- """
+ """
msas = bootstrap(msa, times)
for aln in msas:
tree = tree_constructor.build_tree(aln)
@@ -584,6 +590,7 @@ def bootstrap_consensus(msa, times, tree_constructor, consensus):
consensus : function
Consensus method in this module: `strict_consensus`,
`majority_consensus`, `adam_consensus`.
+
"""
trees = bootstrap_trees(msa, times, tree_constructor)
tree = consensus(list(trees))
@@ -612,7 +619,8 @@ def _bitstring_topology(tree):
"""Generates a branch length dict for a tree, keyed by BitStrings.
Create a dict of all clades' BitStrings to the corresponding branch
- lengths (rounded to 5 decimal places)."""
+ lengths (rounded to 5 decimal places).
+ """
bitstrs = {}
for clade, bitstr in _tree_to_bitstrs(tree).items():
bitstrs[bitstr] = round(clade.branch_length or 0.0, 5)
diff --git a/Bio/Phylo/NeXML.py b/Bio/Phylo/NeXML.py
index 60fb873..8e87351 100644
--- a/Bio/Phylo/NeXML.py
+++ b/Bio/Phylo/NeXML.py
@@ -16,6 +16,7 @@ class Tree(BaseTree.Tree):
"""NeXML Tree object."""
def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
+ """Instantiate a NeXML tree object with the given parameters."""
BaseTree.Tree.__init__(self, root=root or Clade(),
rooted=rooted, id=id, name=name)
self.weight = weight
@@ -26,6 +27,7 @@ class Clade(BaseTree.Clade):
def __init__(self, branch_length=1.0, name=None, clades=None,
confidence=None, comment=None, **kwargs):
+ """Initialize parameters for NeXML Clade object."""
BaseTree.Clade.__init__(self, branch_length=branch_length,
name=name, clades=clades, confidence=confidence)
self.comment = comment
diff --git a/Bio/Phylo/NeXMLIO.py b/Bio/Phylo/NeXMLIO.py
index d009b04..1b500eb 100644
--- a/Bio/Phylo/NeXMLIO.py
+++ b/Bio/Phylo/NeXMLIO.py
@@ -78,6 +78,7 @@ def matches(s):
class NeXMLError(Exception):
"""Exception raised when NeXML object construction cannot continue."""
+
pass
@@ -88,6 +89,7 @@ def parse(handle, **kwargs):
"""Iterate over the trees in a NeXML file handle.
:returns: generator of Bio.Phylo.NeXML.Tree objects.
+
"""
return Parser(handle).parse(**kwargs)
@@ -96,6 +98,7 @@ def write(trees, handle, plain=False, **kwargs):
"""Write a trees in NeXML format to the given file handle.
:returns: number of trees written.
+
"""
return Writer(trees).write(handle, plain=plain, **kwargs)
@@ -110,14 +113,17 @@ class Parser(object):
"""
def __init__(self, handle):
+ """Initialize parameters for NeXML file parser."""
self.handle = handle
@classmethod
def from_string(cls, treetext):
+ """Convert file handle to StringIO object."""
handle = StringIO(treetext)
return cls(handle)
def add_annotation(self, node_dict, meta_node):
+ """Add annotations for the NeXML parser."""
if 'property' in meta_node.attrib:
prop = meta_node.attrib['property']
else:
@@ -130,7 +136,6 @@ class Parser(object):
def parse(self, values_are_confidence=False, rooted=False):
"""Parse the text stream this object was initialized with."""
-
nexml_doc = ElementTree.iterparse(self.handle, events=('end',))
for event, node in nexml_doc:
@@ -200,7 +205,6 @@ class Parser(object):
traversing the entire tree and creating a nested structure of NeXML.Clade
objects.
"""
-
this_node = node_dict[node]
clade = NeXML.Clade(**this_node)
@@ -218,6 +222,7 @@ class Writer(object):
"""Based on the writer in Bio.Nexus.Trees (str, to_string)."""
def __init__(self, trees):
+ """Initialize parameters for NeXML writer."""
self.trees = trees
self.node_counter = 0
@@ -225,13 +230,13 @@ class Writer(object):
self.tree_counter = 0
def new_label(self, obj_type):
+ """Create new labels for the NeXML writer."""
counter = '%s_counter' % obj_type
setattr(self, counter, getattr(self, counter) + 1)
return '%s%s' % (obj_type, getattr(self, counter))
def write(self, handle, cdao_to_obo=True, **kwargs):
"""Write this instance's trees to a file handle."""
-
self.cdao_to_obo = cdao_to_obo
# set XML namespaces
diff --git a/Bio/Phylo/Newick.py b/Bio/Phylo/Newick.py
index 5442a3a..3c60547 100644
--- a/Bio/Phylo/Newick.py
+++ b/Bio/Phylo/Newick.py
@@ -15,6 +15,7 @@ class Tree(BaseTree.Tree):
"""Newick Tree object."""
def __init__(self, root=None, rooted=False, id=None, name=None, weight=1.0):
+ """Initialize parameters for a Newick tree object."""
BaseTree.Tree.__init__(self, root=root or Clade(),
rooted=rooted, id=id, name=name)
self.weight = weight
@@ -25,6 +26,7 @@ class Clade(BaseTree.Clade):
def __init__(self, branch_length=None, name=None, clades=None,
confidence=None, comment=None):
+ """Initialize parameters for a Newick Clade object."""
BaseTree.Clade.__init__(self, branch_length=branch_length,
name=name, clades=clades, confidence=confidence)
self.comment = comment
diff --git a/Bio/Phylo/NewickIO.py b/Bio/Phylo/NewickIO.py
index cdf5803..94198f0 100644
--- a/Bio/Phylo/NewickIO.py
+++ b/Bio/Phylo/NewickIO.py
@@ -18,6 +18,7 @@ from Bio.Phylo import Newick
class NewickError(Exception):
"""Exception raised when Newick object construction cannot continue."""
+
pass
@@ -43,6 +44,7 @@ def parse(handle, **kwargs):
"""Iterate over the trees in a Newick file handle.
:returns: generator of Bio.Phylo.Newick.Tree objects.
+
"""
return Parser(handle).parse(**kwargs)
@@ -51,6 +53,7 @@ def write(trees, handle, plain=False, **kwargs):
"""Write a trees in Newick format to the given file handle.
:returns: number of trees written.
+
"""
return Writer(trees).write(handle, plain=plain, **kwargs)
@@ -89,10 +92,12 @@ class Parser(object):
"""
def __init__(self, handle):
+ """Initialize file handle for the Newick Tree."""
self.handle = handle
@classmethod
def from_string(cls, treetext):
+ """Instantiate the Newick Tree class from the given string."""
handle = StringIO(treetext)
return cls(handle)
@@ -208,7 +213,8 @@ class Parser(object):
def new_clade(self, parent=None):
"""Returns a new Newick.Clade, optionally with a temporary reference
- to its parent clade."""
+ to its parent clade.
+ """
clade = Newick.Clade()
if parent:
clade.parent = parent
@@ -216,7 +222,8 @@ class Parser(object):
def process_clade(self, clade):
"""Final processing of a parsed clade. Removes the node's parent and
- returns it."""
+ returns it.
+ """
if ((clade.name) and not
(self.values_are_confidence or self.comments_are_confidence) and
(clade.confidence is None) and
@@ -239,6 +246,7 @@ class Writer(object):
"""Based on the writer in Bio.Nexus.Trees (str, to_string)."""
def __init__(self, trees):
+ """Initialize parameter for Tree Writer object."""
self.trees = trees
def write(self, handle, **kwargs):
diff --git a/Bio/Phylo/NexusIO.py b/Bio/Phylo/NexusIO.py
index cf6b5af..c808098 100644
--- a/Bio/Phylo/NexusIO.py
+++ b/Bio/Phylo/NexusIO.py
@@ -67,7 +67,7 @@ def write(obj, handle, **kwargs):
for idx, nwk in enumerate(
writer.to_strings(plain=False, plain_newick=True,
**kwargs))]
- tax_labels = [str(x) for x in chain(*(t.get_terminals() for t in trees))]
+ tax_labels = [str(x.name) for x in chain(*(t.get_terminals() for t in trees))]
text = NEX_TEMPLATE % {
'count': len(tax_labels),
'labels': ' '.join(tax_labels),
diff --git a/Bio/Phylo/PAML/_paml.py b/Bio/Phylo/PAML/_paml.py
index 9625171..7437629 100644
--- a/Bio/Phylo/PAML/_paml.py
+++ b/Bio/Phylo/PAML/_paml.py
@@ -9,41 +9,11 @@ import os
import subprocess
-try:
- from os.path import relpath as _relpath
-except ImportError:
- # New in Python 2.6
- def _relpath(path, start=None):
- """Return a relative version of a path.
-
- Implementation by James Gardner in his BareNecessities
- package, under MIT licence.
-
- With a fix for Windows where posixpath.sep (and functions like
- join) use the Unix slash not the Windows slash.
- """
- import posixpath
- if start is None:
- start = posixpath.curdir
- else:
- start = start.replace(os.path.sep, posixpath.sep)
- if not path:
- raise ValueError("no path specified")
- else:
- path = path.replace(os.path.sep, posixpath.sep)
- start_list = posixpath.abspath(start).split(posixpath.sep)
- path_list = posixpath.abspath(path).split(posixpath.sep)
- # Work out how much of the filepath is shared by start and path.
- i = len(posixpath.commonprefix([start_list, path_list]))
- rel_list = [posixpath.pardir] * (len(start_list) - i) + path_list[i:]
- if not rel_list:
- return posixpath.curdir.replace(posixpath.sep, os.path.sep)
- return posixpath.join(*rel_list).replace(posixpath.sep, os.path.sep)
-
-
class PamlError(EnvironmentError):
- """paml has failed. Run with verbose = True to view the error
- message"""
+ """paml has failed.
+
+ Run with verbose=True to view the error message.
+ """
class Paml(object):
@@ -104,12 +74,12 @@ class Paml(object):
absolute paths.
"""
if self.working_dir is not None:
- self._rel_working_dir = _relpath(self.working_dir)
+ self._rel_working_dir = os.path.relpath(self.working_dir)
if self.alignment is not None:
- self._rel_alignment = _relpath(self.alignment,
+ self._rel_alignment = os.path.relpath(self.alignment,
self.working_dir)
if self.out_file is not None:
- self._rel_out_file = _relpath(self.out_file, self.working_dir)
+ self._rel_out_file = os.path.relpath(self.out_file, self.working_dir)
def run(self, ctl_file, verbose, command):
"""Run a paml program using the current configuration and then parse the results.
@@ -138,20 +108,15 @@ class Paml(object):
if ctl_file is None:
# Dynamically build a control file
self.write_ctl_file()
- if verbose:
- result_code = subprocess.call([command, self.ctl_file])
- else:
- # To suppress output, redirect it to a pipe to nowhere
- result_code = subprocess.call([command, self.ctl_file],
- stdout=subprocess.PIPE)
+ ctl_file = self.ctl_file
else:
if not os.path.exists(ctl_file):
raise IOError("The specified control file does not exist.")
- if verbose:
- result_code = subprocess.call([command, ctl_file])
- else:
- result_code = subprocess.call([command, ctl_file],
- stdout=subprocess.PIPE)
+ if verbose:
+ result_code = subprocess.call([command, ctl_file])
+ else:
+ with open(os.devnull) as dn:
+ result_code = subprocess.call([command, ctl_file], stdout=dn, stderr=dn)
os.chdir(cwd)
if result_code > 0:
# If the program fails for any reason
diff --git a/Bio/Phylo/PAML/_parse_baseml.py b/Bio/Phylo/PAML/_parse_baseml.py
index 5d55854..3a59fc9 100644
--- a/Bio/Phylo/PAML/_parse_baseml.py
+++ b/Bio/Phylo/PAML/_parse_baseml.py
@@ -10,8 +10,7 @@ line_floats_re = re.compile("-*\d+\.\d+")
def parse_basics(lines, results):
- """Parse the basics that should be present in most baseml results files.
- """
+ """Parse the basics that should be present in most baseml results files."""
version_re = re.compile("BASEML \(in paml version (\d+\.\d+[a-z]*).*")
np_re = re.compile("lnL\(ntime:\s+\d+\s+np:\s+(\d+)\)")
num_params = -1
@@ -51,8 +50,7 @@ def parse_basics(lines, results):
def parse_parameters(lines, results, num_params):
- """Parse the various parameters from the file.
- """
+ """Parse the various parameters from the file."""
parameters = {}
parameters = parse_parameter_list(lines, parameters, num_params)
parameters = parse_kappas(lines, parameters)
@@ -63,8 +61,7 @@ def parse_parameters(lines, results, num_params):
def parse_parameter_list(lines, parameters, num_params):
- """Parse the parameters list, which is just an unlabeled list of numeric values.
- """
+ """Parse the parameters list, which is just an unlabeled list of numeric values."""
for line_num in range(len(lines)):
line = lines[line_num]
# Find all floating point numbers in this line
@@ -92,8 +89,7 @@ def parse_parameter_list(lines, parameters, num_params):
def parse_kappas(lines, parameters):
- """Parse out the kappa parameters.
- """
+ """Parse out the kappa parameters."""
kappa_found = False
for line in lines:
# Find all floating point numbers in this line
@@ -133,8 +129,7 @@ def parse_kappas(lines, parameters):
def parse_rates(lines, parameters):
- """Parse the rate parameters.
- """
+ """Parse the rate parameters."""
Q_mat_found = False
trans_probs_found = False
for line in lines:
@@ -186,8 +181,7 @@ def parse_rates(lines, parameters):
def parse_freqs(lines, parameters):
- """Parse the basepair frequencies.
- """
+ """Parse the basepair frequencies."""
root_re = re.compile("Note: node (\d+) is root.")
branch_freqs_found = False
base_freqs_found = False
diff --git a/Bio/Phylo/PAML/_parse_codeml.py b/Bio/Phylo/PAML/_parse_codeml.py
index db2a174..399e593 100644
--- a/Bio/Phylo/PAML/_parse_codeml.py
+++ b/Bio/Phylo/PAML/_parse_codeml.py
@@ -5,7 +5,6 @@
import re
-
line_floats_re = re.compile("-*\d+\.\d+")
try:
@@ -25,8 +24,7 @@ except ValueError:
def parse_basics(lines, results):
- """Parse the basic information that should be present in most codeml output files.
- """
+ """Parse the basic information that should be present in most codeml output files."""
# multi_models is used to designate there being results for more than one
# model in the file
multi_models = False
@@ -87,9 +85,7 @@ def parse_basics(lines, results):
def parse_nssites(lines, results, multi_models, multi_genes):
- """Determine which NSsites models are present and parse them.
- """
-
+ """Determine which NSsites models are present and parse them."""
ns_sites = {}
model_re = re.compile("Model (\d+):\s+(.+)")
gene_re = re.compile("Gene\s+([0-9]+)\s+.+")
@@ -110,10 +106,12 @@ def parse_nssites(lines, results, multi_models, multi_genes):
genes = results["genes"]
current_gene = None
gene_start = None
+ model_results = None
for line_num, line in enumerate(lines):
gene_res = gene_re.match(line)
if gene_res:
if current_gene is not None:
+ assert model_results is not None
parse_model(lines[gene_start:line_num], model_results)
genes[current_gene - 1] = model_results
gene_start = line_num
@@ -165,8 +163,7 @@ def parse_nssites(lines, results, multi_models, multi_genes):
def parse_model(lines, results):
- """Parse an individual NSsites model's results.
- """
+ """Parse an individual NSsites model's results."""
parameters = {}
SEs_flag = False
dS_tree_flag = False
@@ -374,8 +371,7 @@ def parse_siteclass_omegas(line, site_classes):
def parse_clademodelc(branch_type_no, line_floats, site_classes):
- """Parse results specific to the clade model C.
- """
+ """Parse results specific to the clade model C."""
if not site_classes or len(line_floats) == 0:
return
for n in range(len(line_floats)):
@@ -386,8 +382,7 @@ def parse_clademodelc(branch_type_no, line_floats, site_classes):
def parse_branch_site_a(foreground, line_floats, site_classes):
- """Parse results specific to the branch site A model.
- """
+ """Parse results specific to the branch site A model."""
if not site_classes or len(line_floats) == 0:
return
for n in range(len(line_floats)):
@@ -401,8 +396,7 @@ def parse_branch_site_a(foreground, line_floats, site_classes):
def parse_pairwise(lines, results):
- """Parse results from pairwise comparisons.
- """
+ """Parse results from pairwise comparisons."""
# Find pairwise comparisons
# Example:
# 2 (Pan_troglo) ... 1 (Homo_sapie)
@@ -412,6 +406,8 @@ def parse_pairwise(lines, results):
# t= 0.0126 S= 81.4 N= 140.6 dN/dS= 0.0010 dN= 0.0000 dS= 0.0115
pair_re = re.compile("\d+ \((.+)\) ... \d+ \((.+)\)")
pairwise = {}
+ seq1 = None
+ seq2 = None
for line in lines:
# Find all floating point numbers in this line
line_floats_res = line_floats_re.findall(line)
@@ -420,29 +416,28 @@ def parse_pairwise(lines, results):
if pair_res:
seq1 = pair_res.group(1)
seq2 = pair_res.group(2)
- if pairwise.get(seq1) is None:
+ if seq1 not in pairwise:
pairwise[seq1] = {}
- if pairwise.get(seq2) is None:
+ if seq2 not in pairwise:
pairwise[seq2] = {}
- if len(line_floats) == 1:
- pairwise[seq1][seq2] = {"lnL": line_floats[0]}
- pairwise[seq2][seq1] = pairwise[seq1][seq2]
- elif len(line_floats) == 6:
- pairwise[seq1][seq2] = {"t": line_floats[0],
- "S": line_floats[1],
- "N": line_floats[2],
- "omega": line_floats[3],
- "dN": line_floats[4],
- "dS": line_floats[5]}
- pairwise[seq2][seq1] = pairwise[seq1][seq2]
+ if len(line_floats) == 1 and seq1 is not None and seq2 is not None:
+ pairwise[seq1][seq2] = {"lnL": line_floats[0]}
+ pairwise[seq2][seq1] = pairwise[seq1][seq2]
+ elif len(line_floats) == 6 and seq1 is not None and seq2 is not None:
+ pairwise[seq1][seq2].update({"t": line_floats[0],
+ "S": line_floats[1],
+ "N": line_floats[2],
+ "omega": line_floats[3],
+ "dN": line_floats[4],
+ "dS": line_floats[5]})
+ pairwise[seq2][seq1] = pairwise[seq1][seq2]
if pairwise:
results["pairwise"] = pairwise
return results
def parse_distances(lines, results):
- """Parse amino acid sequence distance results.
- """
+ """Parse amino acid sequence distance results."""
distances = {}
sequences = []
raw_aa_distances_flag = False
diff --git a/Bio/Phylo/PAML/_parse_yn00.py b/Bio/Phylo/PAML/_parse_yn00.py
index d9f5bc5..7514c68 100644
--- a/Bio/Phylo/PAML/_parse_yn00.py
+++ b/Bio/Phylo/PAML/_parse_yn00.py
@@ -7,19 +7,33 @@ import re
def parse_ng86(lines, results):
- """ Parse the Nei & Gojobori (1986) section of the results.
+ """Parse the Nei & Gojobori (1986) section of the results.
+
Nei_Gojobori results are organized in a lower
triangular matrix, with the sequence names labeling
the rows and statistics in the format:
w (dN dS) per column
Example row (2 columns):
- 0.0000 (0.0000 0.0207) 0.0000 (0.0000 0.0421)"""
+ 0.0000 (0.0000 0.0207) 0.0000 (0.0000 0.0421)
+ """
sequences = []
for line in lines:
# Find all floating point numbers in this line
line_floats_res = re.findall("-*\d+\.\d+", line)
line_floats = [float(val) for val in line_floats_res]
- matrix_row_res = re.match("(.+)\s{5,15}", line)
+
+ # The purpose of this complex regex is to parse the NG86 section for
+ # valid lines of data that are mixed in with citations and comments.
+ # The data lines begin with a taxon name, followed by zero or more
+ # fields containing numeric values, sometimes enclosed in parens.
+ # Taxon names are from 1-30 characters and are usually separated from
+ # the numeric portion of the line by space(s). Long taxon names to are
+ # truncated to 30 characters, and may run into the data fields without
+ # any separator., e.g. some_long_name-1.0000
+ # This regex is an attempt to cover more pathological cases while also
+ # parsing all existing versions of yn00 output with shorter names.
+
+ matrix_row_res = re.match("^([^\s]+?)(?:\s+-?\d+\.\d+|\s*$|-1.0000\s*\()", line)
if matrix_row_res is not None:
seq_name = matrix_row_res.group(1).strip()
sequences.append(seq_name)
@@ -35,12 +49,13 @@ def parse_ng86(lines, results):
def parse_yn00(lines, results, sequences):
- """ Parse the Yang & Nielsen (2000) part of the results.
+ """Parse the Yang & Nielsen (2000) part of the results.
+
Yang & Nielsen results are organized in a table with
each row comprising one pairwise species comparison.
Rows are labeled by sequence number rather than by
- sequence name."""
-
+ sequence name.
+ """
# Example (header row and first table row):
# seq. seq. S N t kappa omega dN +- SE dS +- SE
# 2 1 67.3 154.7 0.0136 3.6564 0.0000 -0.0000 +- 0.0000 0.0150
@@ -118,7 +133,7 @@ def parse_others(lines, results, sequences):
value = stat_pair.split('=')[1].strip()
try:
stats[stat] = float(value)
- except:
+ except ValueError:
stats[stat] = None
if "LWL85:" in line:
results[seq_name1][seq_name2]["LWL85"] = stats
diff --git a/Bio/Phylo/PAML/baseml.py b/Bio/Phylo/PAML/baseml.py
index d85138e..5a2d782 100644
--- a/Bio/Phylo/PAML/baseml.py
+++ b/Bio/Phylo/PAML/baseml.py
@@ -5,17 +5,16 @@
import os
import os.path
-from ._paml import Paml, _relpath
+from ._paml import Paml
from . import _parse_baseml
class BasemlError(EnvironmentError):
- """BASEML has failed. Run with verbose = True to view BASEML's error
- message"""
+ """BASEML failed. Run with verbose=True to view BASEML's error message."""
class Baseml(Paml):
- """This class implements an interface to BASEML, part of the PAML package."""
+ """An interface to BASEML, part of the PAML package."""
def __init__(self, alignment=None, tree=None, working_dir=None,
out_file=None):
@@ -92,8 +91,7 @@ class Baseml(Paml):
ctl_handle.write("%s = %s\n" % (option[0], option[1]))
def read_ctl_file(self, ctl_file):
- """Parse a control file and load the options into the Baseml instance.
- """
+ """Parse a control file and load the options into the Baseml instance."""
temp_options = {}
if not os.path.isfile(ctl_file):
raise IOError("File not found: %r" % ctl_file)
@@ -130,12 +128,12 @@ class Baseml(Paml):
if "." in value or "e-" in value:
try:
converted_value = float(value)
- except:
+ except ValueError:
converted_value = value
else:
try:
converted_value = int(value)
- except:
+ except ValueError:
converted_value = value
temp_options[option] = converted_value
for option in self._options:
@@ -154,7 +152,7 @@ class Baseml(Paml):
"""
Paml._set_rel_paths(self)
if self.tree is not None:
- self._rel_tree = _relpath(self.tree, self.working_dir)
+ self._rel_tree = os.path.relpath(self.tree, self.working_dir)
def run(self, ctl_file=None, verbose=False, command="baseml",
parse=True):
diff --git a/Bio/Phylo/PAML/codeml.py b/Bio/Phylo/PAML/codeml.py
index 666478d..bfeee49 100644
--- a/Bio/Phylo/PAML/codeml.py
+++ b/Bio/Phylo/PAML/codeml.py
@@ -5,19 +5,17 @@
from __future__ import print_function
-import os
import os.path
-from ._paml import Paml, _relpath
+from ._paml import Paml
from . import _parse_codeml
class CodemlError(EnvironmentError):
- """CODEML has failed. Run with verbose = True to view CODEML's error
- message"""
+ """CODEML failed. Run with verbose=True to view CODEML's error message."""
class Codeml(Paml):
- """This class implements an interface to CODEML, part of the PAML package."""
+ """An interface to CODEML, part of the PAML package."""
def __init__(self, alignment=None, tree=None, working_dir=None,
out_file=None):
@@ -94,8 +92,7 @@ class Codeml(Paml):
ctl_handle.write("%s = %s\n" % (option[0], option[1]))
def read_ctl_file(self, ctl_file):
- """Parse a control file and load the options into the Codeml instance.
- """
+ """Parse a control file and load the options into the Codeml instance."""
temp_options = {}
if not os.path.isfile(ctl_file):
raise IOError("File not found: %r" % ctl_file)
@@ -122,7 +119,7 @@ class Codeml(Paml):
for n in range(len(site_classes)):
try:
site_classes[n] = int(site_classes[n])
- except:
+ except ValueError:
raise TypeError(
"Invalid site class: %s" % site_classes[n])
temp_options["NSsites"] = site_classes
@@ -132,12 +129,12 @@ class Codeml(Paml):
if "." in value:
try:
converted_value = float(value)
- except:
+ except ValueError:
converted_value = value
else:
try:
converted_value = int(value)
- except:
+ except ValueError:
converted_value = value
temp_options[option] = converted_value
for option in self._options:
@@ -168,7 +165,7 @@ class Codeml(Paml):
"""
Paml._set_rel_paths(self)
if self.tree is not None:
- self._rel_tree = _relpath(self.tree, self.working_dir)
+ self._rel_tree = os.path.relpath(self.tree, self.working_dir)
def run(self, ctl_file=None, verbose=False, command="codeml", parse=True):
"""Run codeml using the current configuration and then parse the results.
diff --git a/Bio/Phylo/PAML/yn00.py b/Bio/Phylo/PAML/yn00.py
index 2b8df97..881a90b 100644
--- a/Bio/Phylo/PAML/yn00.py
+++ b/Bio/Phylo/PAML/yn00.py
@@ -13,12 +13,11 @@ from . import _parse_yn00
class Yn00Error(EnvironmentError):
- """yn00 has failed. Run with verbose = True to view yn00's error
- message"""
+ """yn00 failed. Run with verbose=True to view yn00's error message."""
class Yn00(Paml):
- """This class implements an interface to yn00, part of the PAML package."""
+ """An interface to yn00, part of the PAML package."""
def __init__(self, alignment=None, working_dir=None, out_file=None):
"""Initialize the Yn00 instance.
@@ -55,8 +54,7 @@ class Yn00(Paml):
ctl_handle.write("%s = %s\n" % (option[0], option[1]))
def read_ctl_file(self, ctl_file):
- """Parse a control file and load the options into the yn00 instance.
- """
+ """Parse a control file and load the options into the yn00 instance."""
temp_options = {}
if not os.path.isfile(ctl_file):
raise IOError("File not found: %r" % ctl_file)
@@ -82,12 +80,12 @@ class Yn00(Paml):
if "." in value or "e-" in value:
try:
converted_value = float(value)
- except:
+ except ValueError:
converted_value = value
else:
try:
converted_value = int(value)
- except:
+ except ValueError:
converted_value = value
temp_options[option] = converted_value
for option in self._options:
diff --git a/Bio/Phylo/PhyloXML.py b/Bio/Phylo/PhyloXML.py
index 273ffbd..c535113 100644
--- a/Bio/Phylo/PhyloXML.py
+++ b/Bio/Phylo/PhyloXML.py
@@ -11,9 +11,11 @@ Official specification:
http://phyloxml.org/
Journal article:
Han and Zmasek (2009), doi:10.1186/1471-2105-10-356
+
"""
import re
+import sys
import warnings
from Bio._py3k import basestring
@@ -30,6 +32,7 @@ from Bio.Phylo import BaseTree
class PhyloXMLWarning(BiopythonWarning):
"""Warning for non-compliance with the phyloXML specification."""
+
pass
@@ -59,9 +62,11 @@ class Phyloxml(PhyloElement):
The phylogenetic trees
other : list
Arbitrary non-phyloXML elements, if any
+
"""
def __init__(self, attributes, phylogenies=None, other=None):
+ """Initialize parameters for PhyloXML object."""
self.attributes = {
# standard
"xmlns:xsi": "http://www.w3.org/2001/XMLSchema-instance",
@@ -94,6 +99,7 @@ class Phyloxml(PhyloElement):
return len(self.phylogenies)
def __str__(self):
+ """Return name of phylogenies in the object."""
return '%s([%s])' % (self.__class__.__name__,
',\n'.join(map(str, self.phylogenies)))
@@ -116,10 +122,12 @@ class Other(PhyloElement):
text contained directly within this XML node
children : list
child nodes, if any (also `Other` instances)
+
"""
def __init__(self, tag, namespace=None, attributes=None, value=None,
children=None):
+ """Initialize values for non-phyloXML elements."""
self.tag = tag
self.namespace = namespace
self.attributes = attributes or {}
@@ -161,6 +169,7 @@ class Phylogeny(PhyloElement, BaseTree.Tree):
Property objects
other : list
non-phyloXML elements (type `Other`)
+
"""
def __init__(self, root=None, rooted=True,
@@ -171,6 +180,7 @@ class Phylogeny(PhyloElement, BaseTree.Tree):
confidences=None, clade_relations=None, sequence_relations=None,
properties=None, other=None,
):
+ """Initialize values for phylogenetic tree object."""
assert isinstance(rooted, bool)
self.root = root
self.rooted = rooted
@@ -241,7 +251,8 @@ class Phylogeny(PhyloElement, BaseTree.Tree):
def _get_confidence(self):
"""Equivalent to self.confidences[0] if there is only 1 value.
- See also: `Clade.confidence`, `Clade.taxonomy`
+ See Also: `Clade.confidence`, `Clade.taxonomy`
+
"""
if len(self.confidences) == 0:
return None
@@ -319,6 +330,7 @@ class Clade(PhyloElement, BaseTree.Clade):
Sub-clades
other : list of Other objects
non-phyloXML objects
+
"""
def __init__(self,
@@ -332,6 +344,7 @@ class Clade(PhyloElement, BaseTree.Clade):
distributions=None, references=None, properties=None, clades=None,
other=None,
):
+ """Initialize value for the Clade object."""
self.branch_length = branch_length
self.id_source = id_source
self.name = name
@@ -432,6 +445,7 @@ class Clade(PhyloElement, BaseTree.Clade):
class BranchColor(PhyloElement, BaseTree.BranchColor):
def __init__(self, *args, **kwargs):
+ """Initialize parameters for the BranchColor object."""
BaseTree.BranchColor.__init__(self, *args, **kwargs)
@@ -445,6 +459,7 @@ class Accession(PhyloElement):
"""
def __init__(self, value, source):
+ """Initialize value for Accession object."""
self.value = value
self.source = source
@@ -474,7 +489,9 @@ class Annotation(PhyloElement):
typed and referenced annotations from external resources
uri : Uri
link
+
"""
+
re_ref = re.compile(r'[a-zA-Z0-9_]+:[a-zA-Z0-9_\.\-\s]+')
def __init__(self,
@@ -484,6 +501,7 @@ class Annotation(PhyloElement):
desc=None, confidence=None, uri=None,
# Collection
properties=None):
+ """Initialize value for the Annotation object."""
_check_str(ref, self.re_ref.match)
self.ref = ref
self.source = source
@@ -508,6 +526,7 @@ class BinaryCharacters(PhyloElement):
absent_count=None,
# Child nodes (flattened into collections)
gained=None, lost=None, present=None, absent=None):
+ """Initialize values for the BinaryCharacters object."""
self.type = type
self.gained_count = gained_count
self.lost_count = lost_count
@@ -534,6 +553,7 @@ class CladeRelation(PhyloElement):
def __init__(self, type, id_ref_0, id_ref_1,
distance=None, confidence=None):
+ """Initialize values for the CladeRelation object."""
self.distance = distance
self.type = type
self.id_ref_0 = id_ref_0
@@ -552,9 +572,11 @@ class Confidence(PhyloElement):
confidence value
type : string
label for the type of confidence, e.g. 'bootstrap'
+
"""
def __init__(self, value, type='unknown'):
+ """Initialize values for the Confidence object."""
self.value = value
self.type = type
@@ -571,11 +593,13 @@ class Confidence(PhyloElement):
return id(self)
def __eq__(self, other):
+ """Checks for equality between Confidence objects."""
if isinstance(other, Confidence):
return self.value == other.value
return self.value == other
def __ne__(self, other):
+ """Checks for inequality between two Confidence objects."""
if isinstance(other, Confidence):
return self.value != other.value
return self.value != other
@@ -599,24 +623,28 @@ class Confidence(PhyloElement):
# Arithmetic operators, including reverse
def __add__(self, other):
+ """Conducts additions between value of two Confidence objects."""
return self.value + other
def __radd__(self, other):
return other + self.value
def __sub__(self, other):
+ """Conduct subtraction between value of two Confidence objects."""
return self.value - other
def __rsub__(self, other):
return other - self.value
def __mul__(self, other):
+ """Conduct multiplication between value of two Confidence objects."""
return self.value * other
def __rmul__(self, other):
return other * self.value
def __div__(self, other):
+ """Conduct division between value of two Confidence objects."""
return self.value.__div__(other)
def __rdiv__(self, other):
@@ -643,6 +671,7 @@ class Confidence(PhyloElement):
return other.__floordiv__(self.value)
def __mod__(self, other):
+ """Conducts modulus between value of two Confidence objects."""
return self.value % other
def __rmod__(self, other):
@@ -665,24 +694,31 @@ class Confidence(PhyloElement):
# Unary arithmetic operations: -, +, abs()
def __neg__(self):
+ """Conducts negation of a Confidence object."""
return -self.value
def __pos__(self):
return self.value
def __abs__(self):
+ """Return absolute value of Confidence object."""
return abs(self.value)
- # Explicit coercion to numeric types: int, long, float
+ # Explicit coercion to numeric types: float, int
+ # (and under Python 2 only long)
def __float__(self):
+ """Returns float value of Confidence object."""
return float(self.value)
def __int__(self):
+ """Returns integer value of Confidence object."""
return int(self.value)
- def __long__(self):
- return long(self.value)
+ if sys.version_info[0] < 3:
+ def __long__(self):
+ """Returns long value of Confidence object."""
+ return long(self.value) # noqa : F821
class Date(PhyloElement):
@@ -703,10 +739,12 @@ class Date(PhyloElement):
lower bound on the date value
maximum : float
upper bound on the date value
+
"""
def __init__(self, value=None, unit=None, desc=None,
minimum=None, maximum=None):
+ """Initialize values of the Date object."""
self.value = value
self.unit = unit
self.desc = desc
@@ -734,9 +772,11 @@ class Distribution(PhyloElement):
coordinates (similar to the 'Point' element in Google's KML format)
polygons : list of `Polygon` objects
coordinate sets defining geographic regions
+
"""
def __init__(self, desc=None, points=None, polygons=None):
+ """Initialize values of Distribution object."""
self.desc = desc
self.points = points or []
self.polygons = polygons or []
@@ -750,9 +790,11 @@ class DomainArchitecture(PhyloElement):
total length of the protein sequence
domains : list ProteinDomain objects
the domains within this protein
+
"""
def __init__(self, length=None, domains=None):
+ """Initialize values of the DomainArchitecture object."""
self.length = length
self.domains = domains
@@ -764,11 +806,13 @@ class Events(PhyloElement):
treated as a dictionary, in which case None values are treated as missing
keys and deleting a key resets that attribute's value back to None.
"""
+
ok_type = set(('transfer', 'fusion', 'speciation_or_duplication', 'other',
'mixed', 'unassigned'))
def __init__(self, type=None, duplications=None, speciations=None,
losses=None, confidence=None):
+ """Initialize values of the Events object."""
_check_str(type, self.ok_type.__contains__)
self.type = type
self.duplications = duplications
@@ -783,6 +827,7 @@ class Events(PhyloElement):
return [k for k, v in self.__dict__.items() if v is not None]
def values(self):
+ """Returns values from a key-value pair in an Events dict."""
return [v for v in self.__dict__.values() if v is not None]
def __len__(self):
@@ -804,6 +849,7 @@ class Events(PhyloElement):
setattr(self, key, None)
def __iter__(self):
+ """Iterates over the keys present in a Events dict."""
return iter(self.keys())
def __contains__(self, key):
@@ -818,6 +864,7 @@ class Id(PhyloElement):
"""
def __init__(self, value, provider=None):
+ """Initialize vakues for the identifier object."""
self.value = value
self.provider = provider
@@ -836,15 +883,19 @@ class MolSeq(PhyloElement):
is_aligned : bool
True if this sequence is aligned with the others (usually meaning
all aligned seqs are the same length and gaps may be present)
+
"""
+
re_value = re.compile(r'[a-zA-Z\.\-\?\*_]+')
def __init__(self, value, is_aligned=None):
+ """Initialize parameters for the MolSeq object."""
_check_str(value, self.re_value.match)
self.value = value
self.is_aligned = is_aligned
def __str__(self):
+ """Returns the value of the Molecular Sequence object."""
return self.value
@@ -865,9 +916,11 @@ class Point(PhyloElement):
altitude
alt_unit : string
unit for the altitude (e.g. 'meter')
+
"""
def __init__(self, geodetic_datum, lat, long, alt=None, alt_unit=None):
+ """Initialize value for the Point object."""
self.geodetic_datum = geodetic_datum
self.lat = lat
self.long = long
@@ -879,9 +932,11 @@ class Polygon(PhyloElement):
"""A polygon defined by a list of 'Points' (used by element 'Distribution').
:param points: list of 3 or more points representing vertices.
+
"""
def __init__(self, points=None):
+ """Initialize value for the Polygon object."""
self.points = points or []
def __str__(self):
@@ -912,7 +967,9 @@ class Property(PhyloElement):
id_ref : Id (optional)
allows to attached a property specifically to one element (on the
xml-level)
+
"""
+
re_ref = re.compile(r'[a-zA-Z0-9_]+:[a-zA-Z0-9_\.\-\s]+')
ok_applies_to = set(('phylogeny', 'clade', 'node', 'annotation',
'parent_branch', 'other'))
@@ -928,6 +985,7 @@ class Property(PhyloElement):
def __init__(self, value, ref, applies_to, datatype,
unit=None, id_ref=None):
+ """Initialize value for the Property object."""
_check_str(ref, self.re_ref.match)
_check_str(applies_to, self.ok_applies_to.__contains__)
_check_str(datatype, self.ok_datatype.__contains__)
@@ -957,9 +1015,11 @@ class ProteinDomain(PhyloElement):
can be used to store e.g. E-values
id : string
unique identifier/name
+
"""
def __init__(self, value, start, end, confidence=None, id=None):
+ """Initialize value for a ProteinDomain object."""
self.value = value
self.start = start
self.end = end
@@ -974,6 +1034,7 @@ class ProteinDomain(PhyloElement):
confidence=feat.qualifiers.get('confidence'))
def to_seqfeature(self):
+ """Create a SeqFeature from the ProteinDomain Object."""
feat = SeqFeature(location=FeatureLocation(self.start, self.end),
id=self.value)
if hasattr(self, 'confidence'):
@@ -987,9 +1048,11 @@ class Reference(PhyloElement):
NB: Whenever possible, use the ``doi`` attribute instead of the free-text
``desc`` element.
"""
+
re_doi = re.compile(r'[a-zA-Z0-9_\.]+/[a-zA-Z0-9_\.]+')
def __init__(self, doi=None, desc=None):
+ """Initialize elements of the Reference class object."""
_check_str(doi, self.re_doi.match)
self.doi = doi
self.desc = desc
@@ -1027,7 +1090,9 @@ class Sequence(PhyloElement):
protein domains on this sequence
other : list of Other objects
non-phyloXML elements
+
"""
+
alphabets = {'dna': Alphabet.generic_dna,
'rna': Alphabet.generic_rna,
'protein': Alphabet.generic_protein}
@@ -1042,6 +1107,7 @@ class Sequence(PhyloElement):
# Collections
annotations=None, other=None,
):
+ """Initialize value for a Sequence object."""
_check_str(type, self.alphabets.__contains__)
_check_str(symbol, self.re_symbol.match)
self.type = type
@@ -1135,6 +1201,7 @@ class Sequence(PhyloElement):
for prop in ann.properties],
} for ann in self.annotations],
}
+
"""
def clean_dict(dct):
"""Remove None-valued items from a dictionary."""
@@ -1206,7 +1273,9 @@ class SequenceRelation(PhyloElement):
describe the type of relationship
confidence : Confidence
confidence value for this relation
+
"""
+
ok_type = set(('orthology', 'one_to_one_orthology', 'super_orthology',
'paralogy', 'ultra_paralogy', 'xenology', 'unknown', 'other'))
@@ -1248,7 +1317,9 @@ class Taxonomy(PhyloElement):
link
other : list of Other objects
non-phyloXML elements
+
"""
+
re_code = re.compile(r'[a-zA-Z0-9_]{2,10}')
ok_rank = set(('domain', 'kingdom', 'subkingdom', 'branch', 'infrakingdom',
'superphylum', 'phylum', 'subphylum', 'infraphylum', 'microphylum',
diff --git a/Bio/Phylo/PhyloXMLIO.py b/Bio/Phylo/PhyloXMLIO.py
index 95e79d3..29a5f0a 100644
--- a/Bio/Phylo/PhyloXMLIO.py
+++ b/Bio/Phylo/PhyloXMLIO.py
@@ -9,12 +9,12 @@ Instantiates tree elements from a parsed PhyloXML file, and constructs an XML
file from a `Bio.Phylo.PhyloXML` object.
About capitalization:
+ - phyloXML means the file format specification
+ - PhyloXML means the Biopython module `Bio.Phylo.PhyloXML` and its classes
+ - Phyloxml means the top-level class used by `PhyloXMLIO.read` (but not
+ `Bio.Phylo.read`!), containing a list of Phylogenies (objects derived from
+ `BaseTree.Tree`)
-- phyloXML means the file format specification
-- PhyloXML means the Biopython module `Bio.Phylo.PhyloXML` and its classes
-- Phyloxml means the top-level class used by `PhyloXMLIO.read` (but not
- `Bio.Phylo.read`!), containing a list of Phylogenies (objects derived from
- `BaseTree.Tree`)
"""
import sys
@@ -67,6 +67,7 @@ class PhyloXMLError(Exception):
module; this exception is for valid XML that breaks the phyloXML
specification.
"""
+
pass
@@ -80,6 +81,7 @@ def read(file):
(non-phyloXML) objects.
:returns: a single `Bio.Phylo.PhyloXML.Phyloxml` object.
+
"""
return Parser(file).read()
@@ -91,6 +93,7 @@ def parse(file):
memory-efficient than the `read` function.
:returns: a generator of `Bio.Phylo.PhyloXML.Phylogeny` objects.
+
"""
return Parser(file).parse()
@@ -105,6 +108,7 @@ def write(obj, file, encoding=DEFAULT_ENCODING, indent=True):
to a Phyloxml object before serialization.
file
either an open handle or a file name.
+
"""
def fix_single(tree):
if isinstance(tree, PX.Phylogeny):
@@ -144,7 +148,7 @@ def _split_namespace(tag):
"""Split a tag into namespace and local tag strings."""
try:
return tag[1:].split('}', 1)
- except:
+ except ValueError:
return ('', tag)
@@ -196,9 +200,9 @@ def _indent(elem, level=0):
"""Add line breaks and indentation to ElementTree in-place.
Sources:
+ - http://effbot.org/zone/element-lib.htm#prettyprint
+ - http://infix.se/2007/02/06/gentlemen-indent-your-xml
- - http://effbot.org/zone/element-lib.htm#prettyprint
- - http://infix.se/2007/02/06/gentlemen-indent-your-xml
"""
i = "\n" + level * " "
if len(elem):
diff --git a/Bio/Phylo/TreeConstruction.py b/Bio/Phylo/TreeConstruction.py
index c975a46..f2c5c3c 100644
--- a/Bio/Phylo/TreeConstruction.py
+++ b/Bio/Phylo/TreeConstruction.py
@@ -11,6 +11,7 @@ from Bio.Phylo import BaseTree
from Bio.Align import MultipleSeqAlignment
from Bio.SubsMat import MatrixInfo
from Bio import _py3k
+from Bio._py3k import zip, range
def _is_numeric(x):
@@ -85,7 +86,8 @@ class _Matrix(object):
def __init__(self, names, matrix=None):
"""Initialize matrix by a list of names and a list of
- lower triangular matrix data"""
+ lower triangular matrix data.
+ """
# check names
if isinstance(names, list) and all(isinstance(s, str) for s in names):
if len(set(names)) == len(names):
@@ -129,6 +131,7 @@ class _Matrix(object):
dm[i, j] get the value between 'i' and 'j';
dm['name'] map name to index first
dm['name1', 'name2'] map name to index first
+
"""
# Handle single indexing
if isinstance(item, (int, str)):
@@ -180,7 +183,6 @@ class _Matrix(object):
dm[i, j] = 2 set the value from 'i' to 'j'
"""
-
# Handle single indexing
if isinstance(item, (int, str)):
index = None
@@ -260,6 +262,7 @@ class _Matrix(object):
name of a row/col to be inserted
value : list
a row/col of values to be inserted
+
"""
if isinstance(name, str):
# insert at the given index or at the end
@@ -296,7 +299,7 @@ class _Matrix(object):
return matrix_string
-class _DistanceMatrix(_Matrix):
+class DistanceMatrix(_Matrix):
"""Distance matrix class that can be used for distance based tree algorithms.
All diagonal elements will be zero no matter what the users provide.
@@ -311,10 +314,41 @@ class _DistanceMatrix(_Matrix):
self._set_zero_diagonal()
def _set_zero_diagonal(self):
- """set all diagonal elements to zero"""
+ """Set all diagonal elements to zero"""
for i in range(0, len(self)):
self.matrix[i][i] = 0
+ def format_phylip(self, handle):
+ """Write data in Phylip format to a given file-like object or handle.
+
+ The output stream is the input distance matrix format used with Phylip
+ programs (e.g. 'neighbor'). See:
+ http://evolution.genetics.washington.edu/phylip/doc/neighbor.html
+
+ :Parameters:
+ handle : file or file-like object
+ A writeable file handle or other object supporting the 'write'
+ method, such as StringIO or sys.stdout. On Python 3, should be
+ open in text mode.
+
+ """
+ handle.write(" {0}\n".format(len(self.names)))
+ # Phylip needs space-separated, vertically aligned columns
+ name_width = max(12, max(map(len, self.names)) + 1)
+ value_fmts = ("{" + str(x) + ":.4f}"
+ for x in range(1, len(self.matrix) + 1))
+ row_fmt = "{0:" + str(name_width) + "s}" + " ".join(value_fmts) + "\n"
+ for i, (name, values) in enumerate(zip(self.names, self.matrix)):
+ # Mirror the matrix values across the diagonal
+ mirror_values = (self.matrix[j][i]
+ for j in range(i + 1, len(self.matrix)))
+ fields = itertools.chain([name], values, mirror_values)
+ handle.write(row_fmt.format(*fields))
+
+
+# Shim for compatibility with Biopython<1.70 (#1304)
+_DistanceMatrix = DistanceMatrix
+
class DistanceCalculator(object):
"""Class to calculate the distance matrix from a DNA or Protein
@@ -368,6 +402,7 @@ class DistanceCalculator(object):
Delta 0.585365853659 0.547619047619 0.566265060241 0
Epsilon 0.7 0.355555555556 0.488888888889 0.222222222222 0
Alpha Beta Gamma Delta Epsilon
+
"""
dna_alphabet = ['A', 'T', 'C', 'G']
@@ -398,8 +433,15 @@ class DistanceCalculator(object):
models = ['identity'] + dna_models + protein_models
- def __init__(self, model='identity'):
- """Initialize with a distance model"""
+ def __init__(self, model='identity', skip_letters=None):
+ """Initialize with a distance model."""
+ # Shim for backward compatibility (#491)
+ if skip_letters:
+ self.skip_letters = skip_letters
+ elif model == 'identity':
+ self.skip_letters = ()
+ else:
+ self.skip_letters = ('-', '*')
if model == 'identity':
self.scoring_matrix = None
@@ -424,11 +466,10 @@ class DistanceCalculator(object):
if self.scoring_matrix:
max_score1 = 0
max_score2 = 0
- skip_letters = ['-', '*']
for i in range(0, len(seq1)):
l1 = seq1[i]
l2 = seq2[i]
- if l1 in skip_letters or l2 in skip_letters:
+ if l1 in self.skip_letters or l2 in self.skip_letters:
continue
if l1 not in self.scoring_matrix.names:
raise ValueError("Bad alphabet '%s' in sequence '%s' at position '%s'"
@@ -443,31 +484,27 @@ class DistanceCalculator(object):
max_score = max(max_score1, max_score2)
else:
# Score by character identity, not skipping any special letters
- for i in range(0, len(seq1)):
- l1 = seq1[i]
- l2 = seq2[i]
- if l1 == l2:
- score += 1
+ score = sum(l1 == l2
+ for l1, l2 in zip(seq1, seq2)
+ if l1 not in self.skip_letters and l2 not in self.skip_letters)
max_score = len(seq1)
-
if max_score == 0:
return 1 # max possible scaled distance
return 1 - (score * 1.0 / max_score)
def get_distance(self, msa):
- """Return a _DistanceMatrix for MSA object
+ """Return a DistanceMatrix for MSA object
:Parameters:
msa : MultipleSeqAlignment
DNA or Protein multiple sequence alignment.
"""
-
if not isinstance(msa, MultipleSeqAlignment):
raise TypeError("Must provide a MultipleSeqAlignment object.")
names = [s.id for s in msa]
- dm = _DistanceMatrix(names)
+ dm = DistanceMatrix(names)
for seq1, seq2 in itertools.combinations(msa, 2):
dm[seq1.id, seq2.id] = self._pairwise(seq1, seq2)
return dm
@@ -487,7 +524,8 @@ class TreeConstructor(object):
def build_tree(self, msa):
"""Caller to built the tree from a MultipleSeqAlignment object.
- This should be implemented in subclass"""
+ This should be implemented in subclass.
+ """
raise NotImplementedError("Method not implemented!")
@@ -542,8 +580,7 @@ class DistanceTreeConstructor(TreeConstructor):
methods = ['nj', 'upgma']
def __init__(self, distance_calculator=None, method="nj"):
- if (distance_calculator is None or
- isinstance(distance_calculator, DistanceCalculator)):
+ if (distance_calculator is None or isinstance(distance_calculator, DistanceCalculator)):
self.distance_calculator = distance_calculator
else:
raise TypeError("Must provide a DistanceCalculator object.")
@@ -572,11 +609,12 @@ class DistanceTreeConstructor(TreeConstructor):
with Arithmetic mean (UPGMA) tree.
:Parameters:
- distance_matrix : _DistanceMatrix
+ distance_matrix : DistanceMatrix
The distance matrix for tree construction.
+
"""
- if not isinstance(distance_matrix, _DistanceMatrix):
- raise TypeError("Must provide a _DistanceMatrix object.")
+ if not isinstance(distance_matrix, DistanceMatrix):
+ raise TypeError("Must provide a DistanceMatrix object.")
# make a copy of the distance matrix to be used
dm = copy.deepcopy(distance_matrix)
@@ -636,12 +674,12 @@ class DistanceTreeConstructor(TreeConstructor):
"""Construct and return an Neighbor Joining tree.
:Parameters:
- distance_matrix : _DistanceMatrix
+ distance_matrix : DistanceMatrix
The distance matrix for tree construction.
- """
- if not isinstance(distance_matrix, _DistanceMatrix):
- raise TypeError("Must provide a _DistanceMatrix object.")
+ """
+ if not isinstance(distance_matrix, DistanceMatrix):
+ raise TypeError("Must provide a DistanceMatrix object.")
# make a copy of the distance matrix to be used
dm = copy.deepcopy(distance_matrix)
@@ -714,7 +752,7 @@ class DistanceTreeConstructor(TreeConstructor):
return BaseTree.Tree(root, rooted=False)
def _height_of(self, clade):
- """calculate clade height -- the longest path to any terminal."""
+ """Calculate clade height -- the longest path to any terminal."""
height = 0
if clade.is_terminal():
height = clade.branch_length
@@ -731,7 +769,8 @@ class Scorer(object):
def get_score(self, tree, alignment):
"""Caller to get the score of a tree for the given alignment.
- This should be implemented in subclass"""
+ This should be implemented in subclass.
+ """
raise NotImplementedError("Method not implemented!")
@@ -741,7 +780,8 @@ class TreeSearcher(object):
def search(self, starting_tree, alignment):
"""Caller to search the best tree with a starting tree.
- This should be implemented in subclass"""
+ This should be implemented in subclass.
+ """
raise NotImplementedError("Method not implemented!")
@@ -752,6 +792,7 @@ class NNITreeSearcher(TreeSearcher):
scorer : ParsimonyScorer
parsimony scorer to calculate the parsimony score of
different trees during NNI algorithm.
+
"""
def __init__(self, scorer):
@@ -769,8 +810,8 @@ class NNITreeSearcher(TreeSearcher):
alignment : MultipleSeqAlignment
multiple sequence alignment used to calculate parsimony
score of different NNI trees.
- """
+ """
return self._nni(starting_tree, alignment)
def _nni(self, starting_tree, alignment):
@@ -902,6 +943,7 @@ class ParsimonyScorer(Scorer):
:Parameters:
matrix : _Matrix
scoring matrix used in parsimony score calculation.
+
"""
def __init__(self, matrix=None):
@@ -911,9 +953,12 @@ class ParsimonyScorer(Scorer):
raise TypeError("Must provide a _Matrix object.")
def get_score(self, tree, alignment):
- """Calculate and return the parsimony score given a tree and
- the MSA using the Fitch algorithm without the penalty matrix
- the Sankoff algorithm with the matrix"""
+ """Calculate parsimony score using the Fitch algorithm
+
+ Calculate and return the parsimony score given a tree and the
+ MSA using either the Fitch algorithm (without a penalty matrix)
+ or the Sankoff algorithm (with a matrix).
+ """
# make sure the tree is rooted and bifurcating
if not tree.is_bifurcating():
raise ValueError("The tree provided should be bifurcating.")
@@ -1001,7 +1046,7 @@ class ParsimonyTreeConstructor(TreeConstructor):
starting tree provided to the searcher.
Example
- --------
+ -------
>>> from Bio import AlignIO
>>> from TreeConstruction import *
@@ -1052,6 +1097,7 @@ class ParsimonyTreeConstructor(TreeConstructor):
:Parameters:
alignment : MultipleSeqAlignment
multiple sequence alignment to calculate parsimony tree.
+
"""
# if starting_tree is none,
# create a upgma tree with 'identity' scoring matrix
diff --git a/Bio/Phylo/__init__.py b/Bio/Phylo/__init__.py
index 8bf9708..df835ed 100644
--- a/Bio/Phylo/__init__.py
+++ b/Bio/Phylo/__init__.py
@@ -5,7 +5,8 @@
"""Package for working with phylogenetic trees.
-See also: http://biopython.org/wiki/Phylo
+See Also: http://biopython.org/wiki/Phylo
+
"""
from Bio.Phylo._io import parse, read, write, convert
diff --git a/Bio/Phylo/_cdao_owl.py b/Bio/Phylo/_cdao_owl.py
index ab1c20d..83c6120 100644
--- a/Bio/Phylo/_cdao_owl.py
+++ b/Bio/Phylo/_cdao_owl.py
@@ -13,11 +13,10 @@ cdao_namespaces = {
def resolve_uri(s, namespaces=cdao_namespaces, cdao_to_obo=True, xml_style=False):
- """Converts prefixed URIs to full URIs.
+ """Convert prefixed URIs to full URIs.
Optionally, converts CDAO named identifiers to OBO numeric identifiers.
"""
-
if cdao_to_obo and s.startswith('cdao:'):
return resolve_uri('obo:%s' % cdao_elements[s[5:]], namespaces, cdao_to_obo)
diff --git a/Bio/Phylo/_io.py b/Bio/Phylo/_io.py
index e51b1df..def7060 100644
--- a/Bio/Phylo/_io.py
+++ b/Bio/Phylo/_io.py
@@ -29,7 +29,7 @@ supported_formats = {
try:
from Bio.Phylo import CDAOIO
supported_formats['cdao'] = CDAOIO
-except:
+except ImportError:
pass
diff --git a/Bio/Phylo/_utils.py b/Bio/Phylo/_utils.py
index 6c55a1a..2b21fb6 100644
--- a/Bio/Phylo/_utils.py
+++ b/Bio/Phylo/_utils.py
@@ -128,6 +128,12 @@ def draw_graphviz(tree, label_func=str, prog='twopi', args='',
>>> pylab.show()
>>> pylab.savefig('apaf.png')
"""
+ # Deprecated in Biopython 1.70 (#1247)
+ import warnings
+ from Bio import BiopythonDeprecationWarning
+ warnings.warn("draw_graphviz is deprecated; use Bio.Phylo.draw instead",
+ BiopythonDeprecationWarning)
+
try:
import networkx
except ImportError:
@@ -149,7 +155,13 @@ def draw_graphviz(tree, label_func=str, prog='twopi', args='',
int_labels = Gi.node_labels
try:
- posi = networkx.graphviz_layout(Gi, prog, args=args)
+ if hasattr(networkx, 'graphviz_layout'):
+ # networkx versions before 1.11 (#1247)
+ graphviz_layout = networkx.graphviz_layout
+ else:
+ # networkx version 1.11
+ graphviz_layout = networkx.drawing.nx_agraph.graphviz_layout
+ posi = graphviz_layout(Gi, prog, args=args)
except ImportError:
raise MissingPythonDependencyError(
"Install PyGraphviz or pydot if you want to use draw_graphviz.")
@@ -206,6 +218,7 @@ def draw_ascii(tree, file=None, column_width=80):
standard output)
column_width : int
Total number of text columns used by the drawing.
+
"""
if file is None:
file = sys.stdout
@@ -325,8 +338,8 @@ def draw(tree, label_func=str, do_show=True, show_confidence=True,
A function or a dictionary specifying the color of the tip label.
If the tip label can't be found in the dict or label_colors is
None, the label will be shown in black.
- """
+ """
try:
import matplotlib.pyplot as plt
except ImportError:
diff --git a/Bio/PopGen/Async/Local.py b/Bio/PopGen/Async/Local.py
deleted file mode 100644
index f3600c9..0000000
--- a/Bio/PopGen/Async/Local.py
+++ /dev/null
@@ -1,65 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""Asynchronous local execution (DEPRECATED).
-
-Supports multicore architectures.
-"""
-
-import threading
-
-from Bio.PopGen.Async import Async
-
-
-class Local(Async):
- """Execution on Local machine."""
-
- def __init__(self, num_cores=1):
- """Constructor.
-
- parameters:
-
- - num_cores - Number of cores (for multiprocessor machines,
- multiply accordingly)
- """
- Async.__init__(self)
- self.num_cores = num_cores
- self.cores_used = 0
-
- def _run_program(self, id, hook, parameters, input_files):
- """Run program.
-
- For parameters, please check Async.run_program.
-
- Either runs a program if a core is available or
- schedules it.
- """
- self.access_ds.acquire()
- self.waiting.append((id, hook, parameters, input_files))
- if self.cores_used < self.num_cores:
- self.cores_used += 1
- threading.Thread(target=self.start_work).run()
- self.access_ds.release()
-
- def start_work(self):
- """Starts work.
-
- Thread initial point.
- While there are tasks to be done, runs them.
- The thread dies as soon as there is nothing waiting to be
- executed.
- """
- self.access_ds.acquire()
- while (len(self.waiting) > 0):
- id, hook, parameters, input_files = self.waiting[0]
- del self.waiting[0]
- self.running[id] = True
- self.access_ds.release()
- ret_code, output_files = hook.run_job(parameters, input_files)
- self.access_ds.acquire()
- del self.running[id]
- self.done[id] = ret_code, output_files
- self.cores_used -= 1
- self.access_ds.release()
diff --git a/Bio/PopGen/Async/__init__.py b/Bio/PopGen/Async/__init__.py
deleted file mode 100644
index fca05b6..0000000
--- a/Bio/PopGen/Async/__init__.py
+++ /dev/null
@@ -1,122 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""Support for asynchronous execution (DEPRECATED)."""
-
-import os
-import threading
-import warnings
-
-from Bio import BiopythonDeprecationWarning
-
-warnings.warn("Bio.PopGen.Async has been deprecated, and we intend to remove"
- " it in a future release of Biopython. If you would like to"
- " continue using it, please contact the Biopython developers"
- " via the mailing list.", BiopythonDeprecationWarning)
-
-
-class Async(object):
- """Abstract Asynchronous execution class.
-
- This is the top abstract class.
- Concrete classes must implement the _run_program method.
- """
-
- def __init__(self):
- """Async constructor.
-
- Initializes the queues, among other things.
- Of notice, is the access_ds lock for controlling exclusive
- access to this object.
- """
- self.running = {}
- self.waiting = []
- self.done = {}
- self.id = 0
- self.hooks = {}
- self.access_ds = threading.Lock()
-
- def run_program(self, program, parameters, input_files):
- """Runs a program.
-
- Real _run_program to be implemented by concrete classes.
-
- parameters:
- program String identifying program.
- parameters List of String parameters.
- input_files Hash of Input file descriptors.
-
- returns:
- Task Id.
-
- The input_files hash key is the path that is passed
- to the program. It should always be relative.
- Value is a stream.
- """
- if program in self.hooks:
- self.access_ds.acquire()
- self.id += 1
- id = self.id
- self.access_ds.release()
- self._run_program(id, self.hooks[program], parameters, input_files)
- return id
-
- def _run_program(self, id, program, parameters, input_files):
- """Actually run the program, handled by a subclass (PRIVATE).
-
- This method should be replaced by any derived class to do
- something useful. It will be called by the run_program method.
- """
- raise NotImplementedError("This object should be subclassed")
-
- def get_result(self, id):
- """ Returns results for a certain Id, the info for that Id is forgotten.
-
- parameters:
- id Id of the task.
-
- returns:
- (return_code, output_files) return code and file access object.
-
- The output_files hash key is a relative file name, and the value a
- output stream.
- """
- self.access_ds.acquire()
- if id in self.done:
- returnCode, fileObject = self.done[id]
- del self.done[id]
- self.access_ds.release()
- else:
- self.access_ds.release()
- return None
-
-
-class FileRetriever(object):
- """An Abstract Support class to retrieve files."""
-
- def __init__(self):
- self.file_list = []
-
- def get_File_list(self):
- """Returns the list of available files."""
- return self.file_list
-
- def get_file(self, name):
- raise NotImplementedError('Abstract method')
-
-
-class DirectoryRetriever(FileRetriever):
- """Retrieves a directory content."""
-
- def __init__(self, directory):
- FileRetriever.__init__(self)
- self.directory = directory
- walk_list = os.walk(directory)
- for dir, dir_list, file_list in walk_list:
- for file in file_list:
- self.file_list.append(file[len(directory) + 1:])
-
- def get_file(self, name):
- return open(self.directory + os.sep + name)
diff --git a/Bio/PopGen/FDist/Async.py b/Bio/PopGen/FDist/Async.py
deleted file mode 100644
index 5eebfde..0000000
--- a/Bio/PopGen/FDist/Async.py
+++ /dev/null
@@ -1,180 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""Asynchronous execution of Fdist and spliting of loads (DEPRECATED).
-
-FDistAsync Allows for the execution of FDist.
-
-SplitFDist splits a single Fdist execution in several, taking advantage
-of multi-core architectures.
-"""
-
-import os
-import shutil
-import threading
-from time import sleep
-
-from Bio.PopGen.Async import Local
-from Bio.PopGen.FDist.Controller import FDistController
-
-
-class FDistAsync(FDistController):
- """Asynchronous FDist execution.
- """
-
- def __init__(self, fdist_dir="", ext=None):
- """Constructor.
-
- Parameters:
-
- - fdist_dir - Where fdist can be found, if = "", then it
- should be on the path.
- - ext - Extension of binary names (e.g. nothing on Unix,
- ".exe" on Windows
- """
- FDistController.__init__(self, fdist_dir, ext)
-
- def run_job(self, parameters, input_files):
- """Runs FDist asynchronously.
-
- Gets typical Fdist parameters from a dictionary and
- makes a "normal" call. This is run, normally, inside
- a separate thread.
- """
- npops = parameters['npops']
- nsamples = parameters['nsamples']
- fst = parameters['fst']
- sample_size = parameters['sample_size']
- mut = parameters.get('mut', 0)
- num_sims = parameters.get('num_sims', 20000)
- data_dir = parameters.get('data_dir', '.')
- is_dominant = parameters.get('is_dominant', False)
- theta = parameters.get('theta', 0.06)
- beta = parameters.get('beta', (0.25, 0.25))
- max_freq = parameters.get('max_freq', 0.99)
- fst = self.run_fdist(npops, nsamples, fst, sample_size,
- mut, num_sims, data_dir,
- is_dominant, theta, beta,
- max_freq)
- output_files = {}
- output_files['out.dat'] = open(data_dir + os.sep + 'out.dat', 'r')
- return fst, output_files
-
-
-class SplitFDist(object):
- """Splits a FDist run.
-
- The idea is to split a certain number of simulations in smaller
- numbers (e.g. 30.000 sims split in 30 packets of 1.000). This
- allows to run simulations in parallel, thus taking advantage
- of multi-core CPUs.
-
- Each SplitFDist object can only be used to run a single FDist
- simulation.
- """
- def __init__(self, report_fun=None,
- num_thr=2, split_size=1000, fdist_dir='', ext=None):
- """Constructor.
-
- Parameters:
-
- - report_fun - Function that is called when a single packet is
- run, it should have a single parameter: Fst.
- - num_thr - Number of desired threads, typically the number
- of cores.
- - split_size - Size that a full simulation will be split in.
- - ext - Binary extension name (e.g. nothing on Unix, '.exe' on
- Windows).
- """
- self.async = Local.Local(num_thr)
- self.async.hooks['fdist'] = FDistAsync(fdist_dir, ext)
- self.report_fun = report_fun
- self.split_size = split_size
-
- # There might be races when reporting...
- def monitor(self):
- """Monitors and reports (using report_fun) execution.
-
- Every time a partial simulation ends, calls report_fun.
- IMPORTANT: monitor calls can be concurrent with other
- events, ie, a tasks might end while report_fun is being
- called. This means that report_fun should be consider that
- other events might be happening while it is running (it
- can call acquire/release if necessary).
- """
- while(True):
- sleep(1)
- self.async.access_ds.acquire()
- keys = list(self.async.done.keys()) # copy it
- self.async.access_ds.release()
- for done in keys:
- self.async.access_ds.acquire()
- fst, files = self.async.done[done]
- del self.async.done[done]
- out_dat = files['out.dat']
- f = open(self.data_dir + os.sep + 'out.dat', 'a')
- f.writelines(out_dat.readlines())
- f.close()
- out_dat.close()
- self.async.access_ds.release()
- for file in os.listdir(self.parts[done]):
- os.remove(self.parts[done] + os.sep + file)
- os.rmdir(self.parts[done])
- if self.report_fun:
- self.report_fun(fst)
- self.async.access_ds.acquire()
- if len(self.async.waiting) == 0 and len(self.async.running) == 0 \
- and len(self.async.done) == 0:
- break
- self.async.access_ds.release()
-
- def acquire(self):
- """Allows the external acquisition of the lock.
- """
- self.async.access_ds.acquire()
-
- def release(self):
- """Allows the external release of the lock.
- """
- self.async.access_ds.release()
-
- # You can only run a fdist case at a time
- def run_fdist(self, npops, nsamples, fst, sample_size,
- mut=0, num_sims=20000, data_dir='.',
- is_dominant=False, theta=0.06, beta=(0.25, 0.25),
- max_freq=0.99):
- """Runs FDist.
-
- Parameters can be seen on FDistController.run_fdist.
-
- It will split a single execution in several parts and
- create separated data directories.
- """
- num_parts = num_sims // self.split_size
- self.parts = {}
- self.data_dir = data_dir
- for directory in range(num_parts):
- full_path = data_dir + os.sep + str(directory)
- try:
- os.mkdir(full_path)
- except OSError:
- pass # Its ok, if it is already there
- if "ss_file" in os.listdir(data_dir):
- shutil.copy(data_dir + os.sep + "ss_file", full_path)
- id = self.async.run_program('fdist', {
- 'npops': npops,
- 'nsamples': nsamples,
- 'fst': fst,
- 'sample_size': sample_size,
- 'mut': mut,
- 'num_sims': self.split_size,
- 'data_dir': full_path,
- 'is_dominant': is_dominant,
- 'theta': theta,
- 'beta': beta,
- 'max_freq': max_freq
- }, {})
- self.parts[id] = full_path
- threading.Thread(target=self.monitor).run()
diff --git a/Bio/PopGen/FDist/Controller.py b/Bio/PopGen/FDist/Controller.py
deleted file mode 100644
index a991f49..0000000
--- a/Bio/PopGen/FDist/Controller.py
+++ /dev/null
@@ -1,297 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""This module allows you to control fdist (DEPRECATED).
-
-This will allow you to call fdist and associated programs (cplot,
-datacal, pv) by Mark Beaumont.
-
-http://www.rubic.rdg.ac.uk/~mab/software.html (old)
-http://www.maths.bris.ac.uk/~mamab/ (new)
-"""
-
-import os
-import subprocess
-import sys
-from random import randint
-from time import strftime, clock
-# from logging import debug
-
-
-def my_float(f):
- # Because of Jython, mostly
- if f == "-nan":
- f = "nan"
- return float(f)
-
-
-class FDistController(object):
- def __init__(self, fdist_dir='', ext=None):
- """Initializes the controller.
-
- fdist_dir is the directory where fdist2 is.
- ext is the extension of binaries (.exe on windows,
- none on Unix)
-
- """
- self.tmp_idx = 0
- self.fdist_dir = fdist_dir
- self.os_name = os.name
- if sys.platform == 'win32':
- py_ext = '.exe'
- else:
- py_ext = ''
- if ext is None:
- self.ext = py_ext
- else:
- self.ext = ext
-
- def _get_path(self, app):
- """Returns the path to an fdist application.
-
- Includes Path where fdist can be found plus executable extension.
- """
- if self.fdist_dir == '':
- return app + self.ext
- else:
- return os.sep.join([self.fdist_dir, app]) + self.ext
-
- def _get_temp_file(self):
- """Gets a temporary file name.
-
- Returns a temporary file name, if executing inside jython
- tries to replace unexisting tempfile.mkstemp().
- """
- self.tmp_idx += 1
- return strftime("%H%M%S") + str(int(clock() * 100)) + str(randint(0, 1000)) + str(self.tmp_idx)
-
- def run_datacal(self, data_dir='.', version=1,
- crit_freq=0.99, p=0.5, beta=(0.25, 0.25)):
- """Executes datacal.
-
- data_dir - Where the data is found.
- """
- if version == 1:
- datacal_name = "datacal"
- else:
- datacal_name = "Ddatacal"
- proc = subprocess.Popen([self._get_path(datacal_name)],
- universal_newlines=True,
- stdin=subprocess.PIPE,
- shell=(sys.platform != "win32"),
- stdout=subprocess.PIPE, cwd=data_dir)
- if version == 1:
- out, err = proc.communicate('a\n')
- lines = out.split("\n")
- fst_line = lines[0].rstrip().split(' ')
- fst = my_float(fst_line[4])
- sample_line = lines[1].rstrip().split(' ')
- sample = int(sample_line[9])
- else:
- out, err = proc.communicate('%f\n%f\n%f %f\na\n' % (
- crit_freq, p, beta[0], beta[1]))
- lines = out.split("\n")
- l = lines[0].rstrip().split(" ")
- loci, pops = int(l[-5]), int(l[-2])
- fst_line = lines[1].rstrip().split(' ')
- fst = my_float(fst_line[4])
- sample_line = lines[2].rstrip().split(' ')
- sample = int(sample_line[9])
- F_line = lines[3].rstrip().split(' ')
- F, obs = my_float(F_line[5]), int(F_line[8])
- if version == 1:
- return fst, sample
- else:
- return fst, sample, loci, pops, F, obs
-
- def _generate_intfile(self, data_dir):
- """Generates an INTFILE.
-
- Parameter:
- data_dir - data directory
- """
- inf = open(data_dir + os.sep + 'INTFILE', 'w')
- for i in range(98):
- inf.write(str(randint(-2 ** 31 + 1, 2 ** 31 - 1)) + '\n')
- inf.write('8\n')
- inf.close()
-
- def run_fdist(self, npops, nsamples, fst, sample_size,
- mut=0, num_sims=50000, data_dir='.',
- is_dominant=False, theta=0.06, beta=(0.25, 0.25),
- max_freq=0.99):
- """Executes (d)fdist.
-
- Parameters:
-
- - npops - Number of populations
- - nsamples - Number of populations sampled
- - fst - expected Fst
- - sample_size - Sample size per population
- For dfdist: if zero a sample size file has to be provided
- - mut - 1=Stepwise, 0=Infinite allele
- - num_sims - number of simulations
- - data_dir - Where the data is found
- - is_dominant - If true executes dfdist
- - theta - Theta (=2Nmu)
- - beta - Parameters for the beta prior
- - max_freq - Maximum allowed frequency of the commonest allele
-
- Returns:
-
- - fst - Average Fst
-
- Important Note: This can take quite a while to run!
- """
- if fst >= 0.9:
- # Lets not joke
- fst = 0.899
- if fst <= 0.0:
- # 0 will make fdist run forever
- fst = 0.001
- if is_dominant:
- config_name = "Dfdist_params"
- else:
- config_name = "fdist_params2.dat"
-
- f = open(data_dir + os.sep + config_name, 'w')
- f.write(str(npops) + '\n')
- f.write(str(nsamples) + '\n')
- f.write(str(fst) + '\n')
- f.write(str(sample_size) + '\n')
- if is_dominant:
- f.write(str(theta) + '\n')
- else:
- f.write(str(mut) + '\n')
- f.write(str(num_sims) + '\n')
- if is_dominant:
- f.write("%f %f\n" % beta)
- f.write("%f\n" % max_freq)
- f.close()
-
- self._generate_intfile(data_dir)
-
- if is_dominant:
- bin_name = "Dfdist"
- else:
- bin_name = "fdist2"
- proc = subprocess.Popen([self._get_path(bin_name)], cwd=data_dir,
- universal_newlines=True,
- stdin=subprocess.PIPE, stdout=subprocess.PIPE,
- shell=(sys.platform != "win32"))
- out, err = proc.communicate('y\n\n')
- lines = out.split("\n")
- for line in lines:
- if line.startswith('average Fst'):
- fst = my_float(line.rstrip().split(' ')[-1])
- return fst
-
- def run_fdist_force_fst(self, npops, nsamples, fst, sample_size,
- mut=0, num_sims=50000, data_dir='.',
- try_runs=5000, limit=0.001, is_dominant=False,
- theta=0.06, beta=(0.25, 0.25),
- max_freq=0.99):
- """Executes fdist trying to force Fst.
-
- Parameters:
-
- - try_runs - Number of simulations on the part trying to get
- Fst correct
- - limit - Interval limit
-
- Other parameters can be seen on run_fdist.
- """
- max_run_fst = 1
- min_run_fst = 0
- current_run_fst = fst
- while True:
- real_fst = self.run_fdist(npops, nsamples, current_run_fst,
- sample_size, mut, try_runs, data_dir,
- is_dominant, theta, beta, max_freq)
- if abs(real_fst - fst) < limit:
- return self.run_fdist(npops, nsamples, current_run_fst,
- sample_size, mut, num_sims, data_dir,
- is_dominant, theta, beta, max_freq)
- if real_fst > fst:
- max_run_fst = current_run_fst
- if current_run_fst < min_run_fst + limit:
- # we can do no better
- # debug('Lower limit is ' + str(min_run_fst))
- return self.run_fdist(npops, nsamples, current_run_fst,
- sample_size, mut, num_sims,
- data_dir)
- current_run_fst = (min_run_fst + current_run_fst) / 2
- else:
- min_run_fst = current_run_fst
- if current_run_fst > max_run_fst - limit:
- return self.run_fdist(npops, nsamples, current_run_fst,
- sample_size, mut, num_sims,
- data_dir, is_dominant, theta,
- beta, max_freq)
- current_run_fst = (max_run_fst + current_run_fst) / 2
-
- def run_cplot(self, ci=0.95, data_dir='.', version=1, smooth=0.04):
- """Executes cplot.
-
- ci - Confidence interval.
- data_dir - Where the data is found.
- """
-
- self._generate_intfile(data_dir)
- if version == 1:
- cplot_name = "cplot"
- else:
- cplot_name = "cplot2"
- proc = subprocess.Popen([self._get_path(cplot_name)], cwd=data_dir,
- stdin=subprocess.PIPE, stdout=subprocess.PIPE,
- shell=(sys.platform != "win32"),
- universal_newlines=True)
- if version == 1:
- proc.communicate('out.dat out.cpl\n' + str(ci) + '\n')
- else:
- proc.communicate("\n".join([
- "data_fst_outfile out.cpl out.dat",
- str(ci), str(smooth)]))
-
- f = open(data_dir + os.sep + 'out.cpl')
- conf_lines = []
- l = f.readline()
- try:
- while l != '':
- conf_lines.append(
- tuple(my_float(x) for x in l.rstrip().split(' ')))
- l = f.readline()
- except ValueError:
- f.close()
- return []
- f.close()
- return conf_lines
-
- def run_pv(self, out_file='probs.dat', data_dir='.',
- version=1, smooth=0.04):
- """Executes pv.
-
- out_file - Name of output file.
- data_dir - Where the data is found.
- """
-
- self._generate_intfile(data_dir)
-
- if version == 1:
- pv_name = "pv"
- else:
- pv_name = "pv2"
-
- proc = subprocess.Popen([self._get_path(pv_name)], cwd=data_dir,
- shell=(sys.platform != "win32"),
- stdin=subprocess.PIPE,
- stdout=subprocess.PIPE,
- universal_newlines=True)
- proc.communicate('data_fst_outfile ' + out_file +
- ' out.dat\n' + str(smooth) + '\n')
- pvf = open(data_dir + os.sep + out_file, 'r')
- result = [tuple(my_float(y) for y in x.rstrip().split(' ')) for x in pvf.readlines()]
- pvf.close()
- return result
diff --git a/Bio/PopGen/FDist/Utils.py b/Bio/PopGen/FDist/Utils.py
deleted file mode 100644
index 6b778c6..0000000
--- a/Bio/PopGen/FDist/Utils.py
+++ /dev/null
@@ -1,214 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""Utility functions for working with FDist (DEPRECATED)."""
-
-from Bio.PopGen.GenePop import FileParser
-import Bio.PopGen.FDist
-
-
-# Quite a few utility functions could be done (like remove pop,
-# add locus, etc...). The recommended strategy is convert back
-# and forth from/to GenePop and use GenePop Utils
-
-
-def convert_genepop_to_fdist(gp_rec, report_pops=None):
- """Converts a GenePop record to a FDist one.
-
- Parameters:
- gp_rec - Genepop Record (either standard or big)
-
- Returns:
- FDist record.
- """
- if hasattr(gp_rec, "populations"):
- return _convert_genepop_to_fdist(gp_rec)
- else:
- return _convert_genepop_to_fdist_big(gp_rec, report_pops)
-
-
-def _convert_genepop_to_fdist(gp_rec):
- """Converts a standard GenePop record to a FDist one.
-
- Parameters:
- gp_rec - Genepop Record (Standard)
-
- Returns:
- FDist record.
- """
- fd_rec = Bio.PopGen.FDist.Record()
-
- fd_rec.data_org = 0
- fd_rec.num_loci = len(gp_rec.loci_list)
- fd_rec.num_pops = len(gp_rec.populations)
- for lc_i in range(len(gp_rec.loci_list)):
- alleles = []
- pop_data = []
- for pop_i in range(len(gp_rec.populations)):
- for indiv in gp_rec.populations[pop_i]:
- for al in indiv[1][lc_i]:
- if al is not None and al not in alleles:
- alleles.append(al)
- alleles.sort() # Dominance requires this
-
- # here we go again (necessary...)
- for pop_i in range(len(gp_rec.populations)):
- allele_counts = {}
- for indiv in gp_rec.populations[pop_i]:
- for al in indiv[1][lc_i]:
- if al is not None:
- count = allele_counts.get(al, 0)
- allele_counts[al] = count + 1
- allele_array = [] # We need the same order as in alleles
- for allele in alleles:
- allele_array.append(allele_counts.get(allele, 0))
- pop_data.append(allele_array)
- fd_rec.loci_data.append((len(alleles), pop_data))
- return fd_rec
-
-
-def _convert_genepop_to_fdist_big(gp_rec, report_pops=None):
- """Converts a big GenePop record to a FDist one.
-
- Parameters:
- gp_rec - Genepop Record (Big)
-
- Returns:
- FDist record.
- """
- fd_rec = Bio.PopGen.FDist.Record()
-
- fd_rec.data_org = 1
- fd_rec.num_loci = len(gp_rec.loci_list)
- num_loci = len(gp_rec.loci_list)
- loci = []
- for i in range(num_loci):
- loci.append(set())
- pops = []
- work_rec = FileParser.read(gp_rec.fname)
- lParser = work_rec.get_individual()
-
- def init_pop():
- my_pop = []
- for i in range(num_loci):
- my_pop.append({})
- return my_pop
-
- curr_pop = init_pop()
- num_pops = 1
- if report_pops:
- report_pops(num_pops)
- while lParser:
- if lParser is not True:
- for loci_pos in range(num_loci):
- for al in lParser[1][loci_pos]:
- if al is not None:
- loci[loci_pos].add(al)
- curr_pop[loci_pos][al] = curr_pop[loci_pos].get(al, 0) + 1
- else:
- pops.append(curr_pop)
- num_pops += 1
- if report_pops:
- report_pops(num_pops)
- curr_pop = init_pop()
- lParser = work_rec.get_individual()
- work_rec._handle.close() # TODO - Needs a proper fix
- pops.append(curr_pop)
- fd_rec.num_pops = num_pops
- for loci_pos in range(num_loci):
- alleles = sorted(loci[loci_pos])
- loci_rec = [len(alleles), []]
- for pop in pops:
- pop_rec = []
- for allele in alleles:
- pop_rec.append(pop[loci_pos].get(allele, 0))
- loci_rec[1].append(pop_rec)
- fd_rec.loci_data.append(tuple(loci_rec))
- return fd_rec
-
-
-def _convert_genepop_to_fdist_big_old(gp_rec, report_loci=None):
- """Converts a big GenePop record to a FDist one.
-
- Parameters:
- gp_rec - Genepop Record (Big)
-
- Returns:
- FDist record.
- """
- fd_rec = Bio.PopGen.FDist.Record()
-
- def countPops(rec):
- f2 = FileParser.read(rec.fname)
- popCnt = 1
- while f2.skip_population():
- popCnt += 1
- return popCnt
-
- fd_rec.data_org = 0
- fd_rec.num_loci = len(gp_rec.loci_list)
- work_rec0 = FileParser.read(gp_rec.fname)
- fd_rec.num_pops = countPops(work_rec0)
-
- num_loci = len(gp_rec.loci_list)
- for lc_i in range(num_loci):
- if report_loci:
- report_loci(lc_i, num_loci)
- work_rec = FileParser.read(gp_rec.fname)
- work_rec2 = FileParser.read(gp_rec.fname)
-
- alleles = []
- pop_data = []
- lParser = work_rec.get_individual()
- while lParser:
- if lParser is not True:
- for al in lParser[1][lc_i]:
- if al is not None and al not in alleles:
- alleles.append(al)
- lParser = work_rec.get_individual()
- # here we go again (necessary...)
- alleles.sort()
-
- def process_pop(pop_data, alleles, allele_counts):
- allele_array = [] # We need the same order as in alleles
- for allele in alleles:
- allele_array.append(allele_counts.get(allele, 0))
- pop_data.append(allele_array)
-
- lParser = work_rec2.get_individual()
- allele_counts = {}
- for allele in alleles:
- allele_counts[allele] = 0
- allele_counts[None] = 0
- while lParser:
- if lParser is True:
- process_pop(pop_data, alleles, allele_counts)
- allele_counts = {}
- for allele in alleles:
- allele_counts[allele] = 0
- allele_counts[None] = 0
- else:
- for al in lParser[1][lc_i]:
- allele_counts[al] += 1
- lParser = work_rec2.get_individual()
- process_pop(pop_data, alleles, allele_counts)
- fd_rec.loci_data.append((len(alleles), pop_data))
- return fd_rec
-
-
-def approximate_fst(desired_fst, simulated_fst, parameter_fst,
- max_run_fst=1, min_run_fst=0, limit=0.005):
- """Calculates the next Fst attempt in order to approximate a
- desired Fst.
- """
- if abs(simulated_fst - desired_fst) < limit:
- return parameter_fst, max_run_fst, min_run_fst
- if simulated_fst > desired_fst:
- max_run_fst = parameter_fst
- next_parameter_fst = (min_run_fst + parameter_fst) / 2
- else:
- min_run_fst = parameter_fst
- next_parameter_fst = (max_run_fst + parameter_fst) / 2
- return next_parameter_fst, max_run_fst, min_run_fst
diff --git a/Bio/PopGen/FDist/__init__.py b/Bio/PopGen/FDist/__init__.py
deleted file mode 100644
index 75c6746..0000000
--- a/Bio/PopGen/FDist/__init__.py
+++ /dev/null
@@ -1,93 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""This module provides code to work with FDist (DEPRECATED).
-
-See http://www.rubic.rdg.ac.uk/~mab/software.html (old) and
-http://www.maths.bris.ac.uk/~mamab/ (new) for downloading the
-FDist tool by Mark Beaumont.
-
-Classes:
-Record Holds FDist data.
-
-Functions:
-read Parses a FDist record (file) into a Record object.
-
-
-"""
-
-import warnings
-
-from Bio import BiopythonDeprecationWarning
-
-warnings.warn("Bio.PopGen.FDist has been deprecated, and we intend to remove"
- " it in a future release of Biopython. If you would like to"
- " continue using it, please contact the Biopython developers"
- " via the mailing list.", BiopythonDeprecationWarning)
-
-
-def read(handle):
- """Parses FDist data into a Record object.
-
- handle is a file-like object that contains a FDist record.
- """
- record = Record()
- record.data_org = int(str(next(handle)).rstrip())
- record.num_pops = int(str(next(handle)).rstrip())
- record.num_loci = int(str(next(handle)).rstrip())
- for i in range(record.num_loci):
- next(handle)
- num_alleles = int(str(next(handle)).rstrip())
- pops_data = []
- if record.data_org == 0:
- for j in range(record.num_pops):
- line_comp = str(next(handle)).rstrip().split(' ')
- pop_dist = [int(x) for x in line_comp]
- pops_data.append(pop_dist)
- else:
- raise NotImplementedError('1/alleles by rows not implemented')
- record.loci_data.append((num_alleles, pops_data))
- return record
-
-
-class Record(object):
- """Holds information from a FDist record.
-
- Members:
-
- - data_org Data organization (0 pops by rows, 1 alleles by rows).
- The Record will behave as if data was 0 (converting if needed)
-
- - num_pops Number of populations
-
- - num_loci Number of loci
-
- - loci_data Loci data
-
- loci_data is a list, where each element represents a locus. Each element
- is a tuple, the first element is the number of alleles, the second
- element a list. Each element of the list is the count of each allele
- per population.
- """
- def __init__(self):
- self.data_org = 0
- self.num_pops = 0
- self.num_loci = 0
- self.loci_data = []
-
- def __str__(self):
- rep = ['0\n'] # We only export in 0 format, even if originally was 1
- rep.append(str(self.num_pops) + '\n')
- rep.append(str(self.num_loci) + '\n')
- rep.append('\n')
- for locus_data in self.loci_data:
- num_alleles, pops_data = locus_data
- rep.append(str(num_alleles) + '\n')
- for pop_data in pops_data:
- for allele_count in pop_data:
- rep.append(str(allele_count) + ' ')
- rep.append('\n')
- rep.append('\n')
- return "".join(rep)
diff --git a/Bio/PopGen/GenePop/Controller.py b/Bio/PopGen/GenePop/Controller.py
index a2ee560..37aac37 100644
--- a/Bio/PopGen/GenePop/Controller.py
+++ b/Bio/PopGen/GenePop/Controller.py
@@ -3,10 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module allows to control GenePop.
-
-"""
+"""Module to control GenePop."""
import os
import re
@@ -122,7 +119,7 @@ def _hw_func(stream, is_locus, has_fisher=False):
# loci might mean pop if hook="Locus "
loci = {}
for entry in table:
- if len(entry) < 3:
+ if len(entry) < 4:
loci[entry[0]] = None
else:
locus, p, se, fis_wc, fis_rh, steps = entry[:-1]
@@ -141,6 +138,7 @@ class _FileIterator(object):
The generator function is expected to yield a tuple, while
consuming input
"""
+
def __init__(self, func, fname, handle=None):
self.func = func
if handle is None:
@@ -273,7 +271,6 @@ class GenePopController(object):
"""Global Hardy-Weinberg test for heterozygote deficiency/excess.
Returns a triple with:
-
- A list per population containing (pop_name, P-val, SE, switches).
Some pops have a None if the info is not available.
SE might be none (for enumerations).
@@ -281,6 +278,7 @@ class GenePopController(object):
Some loci have a None if the info is not available.
SE might be none (for enumerations).
- Overall results (P-val, SE, switches).
+
"""
opts = self._get_opts(dememorization, batches, iterations, enum_test)
self._run_genepop([ext], [1, type], fname, opts)
@@ -348,17 +346,18 @@ class GenePopController(object):
Returns 2 iterators and a final tuple:
- 1. Returns a loci iterator containing:
+ 1. Returns a loci iterator containing:
- A dictionary[pop_pos]=(P-val, SE, Fis-WC, Fis-RH, steps).
Some pops have a None if the info is not available.
SE might be none (for enumerations).
- Result of Fisher's test (Chi2, deg freedom, prob).
- 2. Returns a population iterator containing:
+ 2. Returns a population iterator containing:
- A dictionary[locus]=(P-val, SE, Fis-WC, Fis-RH, steps).
Some loci have a None if the info is not available.
SE might be none (for enumerations).
- Result of Fisher's test (Chi2, deg freedom, prob).
- 3. Final tuple (Chi2, deg freedom, prob).
+ 3. Final tuple (Chi2, deg freedom, prob).
+
"""
opts = self._get_opts(dememorization, batches, iterations, enum_test)
self._run_genepop([ext], [1, 3], fname, opts)
@@ -380,7 +379,6 @@ class GenePopController(object):
"""Global Hardy-Weinberg test for heterozygote deficiency.
Returns a triple with:
-
- An list per population containing (pop_name, P-val, SE, switches).
Some pops have a None if the info is not available.
SE might be none (for enumerations).
@@ -388,6 +386,7 @@ class GenePopController(object):
Some loci have a None if the info is not available.
SE might be none (for enumerations).
- Overall results (P-val, SE, switches).
+
"""
return self._test_global_hz_both(fname, 4, ".DG", enum_test,
dememorization, batches, iterations)
@@ -399,7 +398,6 @@ class GenePopController(object):
"""Global Hardy-Weinberg test for heterozygote excess.
Returns a triple with:
-
- A list per population containing (pop_name, P-val, SE, switches).
Some pops have a None if the info is not available.
SE might be none (for enumerations).
@@ -407,6 +405,7 @@ class GenePopController(object):
Some loci have a None if the info is not available.
SE might be none (for enumerations).
- Overall results (P-val, SE, switches)
+
"""
return self._test_global_hz_both(fname, 5, ".EG", enum_test,
dememorization, batches, iterations)
@@ -518,37 +517,36 @@ class GenePopController(object):
"""Calculates allele and genotype frequencies per locus and per sample.
Parameters:
-
- - fname - file name
+ - fname - file name
Returns tuple with 2 elements:
-
- - Population iterator with
-
- - population name
- - Locus dictionary with key = locus name and content tuple as
- Genotype List with
- (Allele1, Allele2, observed, expected)
- (expected homozygotes, observed hm,
- expected heterozygotes, observed ht)
- Allele frequency/Fis dictionary with allele as key and
- (count, frequency, Fis Weir & Cockerham)
- - Totals as a pair
- - count
- - Fis Weir & Cockerham,
- - Fis Robertson & Hill
-
- - Locus iterator with
-
- - Locus name
- - allele list
- - Population list with a triple
-
- - population name
- - list of allele frequencies in the same order as allele list above
- - number of genes
+ - Population iterator with
+
+ - population name
+ - Locus dictionary with key = locus name and content tuple as
+ Genotype List with
+ (Allele1, Allele2, observed, expected)
+ (expected homozygotes, observed hm,
+ expected heterozygotes, observed ht)
+ Allele frequency/Fis dictionary with allele as key and
+ (count, frequency, Fis Weir & Cockerham)
+ - Totals as a pair
+ - count
+ - Fis Weir & Cockerham,
+ - Fis Robertson & Hill
+
+ - Locus iterator with
+
+ - Locus name
+ - allele list
+ - Population list with a triple
+
+ - population name
+ - list of allele frequencies in the same order as allele list above
+ - number of genes
Will create a file called fname.INF
+
"""
self._run_genepop(["INF"], [5, 1], fname)
# First pass, general information
@@ -711,18 +709,17 @@ class GenePopController(object):
"""Executes GenePop and gets Fst/Fis/Fit (all populations)
Parameters:
-
- - fname - file name
+ - fname - file name
Returns:
+ - (multiLocusFis, multiLocusFst, multiLocus Fit),
+ - Iterator of tuples
+ (Locus name, Fis, Fst, Fit, Qintra, Qinter)
- - (multiLocusFis, multiLocusFst, multiLocus Fit),
- - Iterator of tuples
- (Locus name, Fis, Fst, Fit, Qintra, Qinter)
-
- Will create a file called fname.FST .
+ Will create a file called `fname.FST`.
This does not return the genotype frequencies.
+
"""
self._run_genepop([".FST"], [6, 1], fname)
with open(fname + ".FST") as f:
@@ -819,8 +816,7 @@ class GenePopController(object):
raise NotImplementedError
def _calc_ibd(self, fname, sub, stat="a", scale="Log", min_dist=0.00001):
- """Calculates isolation by distance statistics
- """
+ """Calculates isolation by distance statistics."""
self._run_genepop([".GRA", ".MIG", ".ISO"], [6, sub],
fname, opts={
"MinimalDistance": min_dist,
@@ -855,9 +851,10 @@ class GenePopController(object):
def calc_ibd_diplo(self, fname, stat="a", scale="Log", min_dist=0.00001):
"""Calculates isolation by distance statistics for diploid data.
- See _calc_ibd for parameter details.
- Note that each pop can only have a single individual and
- the individual name has to be the sample coordinates.
+ See _calc_ibd for parameter details.
+
+ Note that each pop can only have a single individual and
+ the individual name has to be the sample coordinates.
"""
return self._calc_ibd(fname, 5, stat, scale, min_dist)
@@ -865,8 +862,9 @@ class GenePopController(object):
def calc_ibd_haplo(self, fname, stat="a", scale="Log", min_dist=0.00001):
"""Calculates isolation by distance statistics for haploid data.
- See _calc_ibd for parameter details.
- Note that each pop can only have a single individual and
- the individual name has to be the sample coordinates.
+ See _calc_ibd for parameter details.
+
+ Note that each pop can only have a single individual and
+ the individual name has to be the sample coordinates.
"""
return self._calc_ibd(fname, 6, stat, scale, min_dist)
diff --git a/Bio/PopGen/GenePop/EasyController.py b/Bio/PopGen/GenePop/EasyController.py
index ac80da6..aa2d836 100644
--- a/Bio/PopGen/GenePop/EasyController.py
+++ b/Bio/PopGen/GenePop/EasyController.py
@@ -3,8 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module allows to control GenePop through an easier interface.
+"""Control GenePop through an easier interface.
This interface is less efficient than the standard GenePopControler
@@ -62,15 +61,14 @@ class EasyController(object):
return result
def estimate_nm(self):
- """ Estimate Nm. Just a simple bridge.
- """
+ """Estimate Nm. Just a simple bridge."""
return self._controller.estimate_nm(self._fname)
def get_heterozygosity_info(self, pop_pos, locus_name):
"""Returns the heterozygosity info for a certain locus on a population.
- Returns (Expected homozygotes, observed homozygotes,
- Expected heterozygotes, observed heterozygotes)
+ Returns (Expected homozygotes, observed homozygotes,
+ Expected heterozygotes, observed heterozygotes)
"""
geno_freqs = self._controller.calc_allele_genotype_freqs(self._fname)
pop_iter, loc_iter = geno_freqs
@@ -78,25 +76,22 @@ class EasyController(object):
return pops[pop_pos][1][locus_name][1]
def get_genotype_count(self, pop_pos, locus_name):
- """Returns the genotype counts for a certain population and locus
-
- """
+ """Returns the genotype counts for a certain population and locus."""
geno_freqs = self._controller.calc_allele_genotype_freqs(self._fname)
pop_iter, loc_iter = geno_freqs
pop_iter = list(pop_iter)
return pop_iter[pop_pos][1][locus_name][0]
def get_fis(self, pop_pos, locus_name):
- """Returns the Fis for a certain population and locus
-
- Below CW means Cockerham and Weir and RH means Robertson and Hill.
+ """Returns the Fis for a certain population and locus.
- Returns a pair:
+ Below CW means Cockerham and Weir and RH means Robertson and Hill.
- - dictionary [allele] = (repetition count, frequency, Fis CW )
- with information for each allele
- - a triple with total number of alleles, Fis CW, Fis RH
+ Returns a pair:
+ - dictionary [allele] = (repetition count, frequency, Fis CW )
+ with information for each allele
+ - a triple with total number of alleles, Fis CW, Fis RH
"""
geno_freqs = self._controller.calc_allele_genotype_freqs(self._fname)
@@ -105,18 +100,14 @@ class EasyController(object):
return pops[pop_pos][1][locus_name][2:]
def get_alleles(self, pop_pos, locus_name):
- """Returns the alleles for a certain population and locus.
-
- """
+ """Returns the alleles for a certain population and locus."""
geno_freqs = self._controller.calc_allele_genotype_freqs(self._fname)
pop_iter, loc_iter = geno_freqs
pop_iter = list(pop_iter)
return list(pop_iter[pop_pos][1][locus_name][2].keys())
def get_alleles_all_pops(self, locus_name):
- """Returns the alleles for a certain population and locus.
-
- """
+ """Returns the alleles for a certain population and locus."""
geno_freqs = self._controller.calc_allele_genotype_freqs(self._fname)
pop_iter, loc_iter = geno_freqs
for locus_info in loc_iter:
@@ -141,17 +132,17 @@ class EasyController(object):
return total, allele_freq
def get_multilocus_f_stats(self):
- """ Returns the multilocus F stats
+ """Returns the multilocus F stats.
- Explain averaging.
- Returns Fis(CW), Fst, Fit
+ Explain averaging.
+ Returns Fis(CW), Fst, Fit
"""
return self._controller.calc_fst_all(self._fname)[0]
def get_f_stats(self, locus_name):
- """ Returns F stats for a locus
+ """Returns F stats for a locus.
- Returns Fis(CW), Fst, Fit, Qintra, Qinter
+ Returns Fis(CW), Fst, Fit, Qintra, Qinter
"""
loci_iter = self._controller.calc_fst_all(self._fname)[1]
for name, fis, fst, fit, qintra, qinter in loci_iter:
diff --git a/Bio/PopGen/GenePop/FileParser.py b/Bio/PopGen/GenePop/FileParser.py
index ebdd948..3621668 100644
--- a/Bio/PopGen/GenePop/FileParser.py
+++ b/Bio/PopGen/GenePop/FileParser.py
@@ -3,8 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This class provides code to parse BIG GenePop files.
+"""Code to parse BIG GenePop files.
The difference between this class and the standard Bio.PopGen.GenePop.Record
class is that this one does not read the whole file to memory.
@@ -15,7 +14,7 @@ See http://wbiomed.curtin.edu.au/genepop/ , the format is documented
here: http://wbiomed.curtin.edu.au/genepop/help_input.html .
Classes:
-FileRecord Holds GenePop data.
+ - FileRecord Holds GenePop data.
Functions:
@@ -27,7 +26,7 @@ from Bio.PopGen.GenePop import get_indiv
def read(fname):
"""Parses a file containing a GenePop file.
- fname is a file name that contains a GenePop record.
+ fname is a file name that contains a GenePop record.
"""
record = FileRecord(fname)
return record
@@ -36,18 +35,13 @@ def read(fname):
class FileRecord(object):
"""Holds information from a GenePop record.
- Members:
-
+ Attributes:
- marker_len The marker length (2 or 3 digit code per allele).
-
- comment_line Comment line.
-
- loci_list List of loci names.
- Functions:
-
+ Methods:
- get_individual Returns the next individual of the current population.
-
- skip_population Skips the current population.
skip_population skips the individuals of the current population, returns
@@ -55,16 +49,16 @@ class FileRecord(object):
get_individual returns an individual of the current population (or None
if the list ended).
- Each individual is a pair composed by individual
- name and a list of alleles (2 per marker or 1 for haploid data).
- Examples::
+
+ Each individual is a pair composed by individual name and a list of alleles
+ (2 per marker or 1 for haploid data). Examples::
('Ind1', [(1,2), (3,3), (200,201)]
('Ind2', [(2,None), (3,3), (None,None)]
('Other1', [(1,1), (4,3), (200,200)]
-
"""
+
def __init__(self, fname):
self.comment_line = ""
self.loci_list = []
@@ -74,8 +68,8 @@ class FileRecord(object):
def __str__(self):
"""Returns (reconstructs) a GenePop textual representation.
- This might take a lot of memory.
- Marker length will be 3.
+ This might take a lot of memory.
+ Marker length will be 3.
"""
marker_len = 3
rep = [self.comment_line + '\n']
@@ -110,8 +104,7 @@ class FileRecord(object):
return "".join(rep)
def start_read(self):
- """Starts parsing a file containing a GenePop file.
- """
+ """Starts parsing a file containing a GenePop file."""
self._handle = open(self.fname)
self.comment_line = self._handle.readline().rstrip()
# We can now have one loci per line or all loci in a single line
@@ -142,8 +135,10 @@ class FileRecord(object):
def seek_position(self, pop, indiv):
"""Seeks a certain position in the file.
- pop - pop position (0 is first)
- indiv - individual in pop
+ Arguments:
+ - pop - pop position (0 is first)
+ - indiv - individual in pop
+
"""
self._handle.seek(0)
self.skip_header()
@@ -155,7 +150,7 @@ class FileRecord(object):
indiv -= 1
def skip_population(self):
- "Skips the current population. Returns true if there is another pop."
+ """Skips the current population. Returns true if there is another pop."""
for line in self._handle:
if line == "":
return False
@@ -168,12 +163,12 @@ class FileRecord(object):
def get_individual(self):
"""Gets the next individual.
- Returns individual information if there are more individuals
- in the current population.
- Returns True if there are no more individuals in the current
- population, but there are more populations. Next read will
- be of the following pop.
- Returns False if at end of file.
+ Returns individual information if there are more individuals
+ in the current population.
+ Returns True if there are no more individuals in the current
+ population, but there are more populations. Next read will
+ be of the following pop.
+ Returns False if at end of file.
"""
for line in self._handle:
line = line.rstrip()
@@ -190,8 +185,10 @@ class FileRecord(object):
def remove_population(self, pos, fname):
"""Removes a population (by position).
- pos - position
- fname - file to be created with population removed
+ Arguments:
+ - pos - position
+ - fname - file to be created with population removed
+
"""
old_rec = read(self.fname)
with open(fname, "w") as f:
@@ -231,8 +228,10 @@ class FileRecord(object):
def remove_locus_by_position(self, pos, fname):
"""Removes a locus by position.
- pos - position
- fname - file to be created with locus removed
+ Arguments:
+ - pos - position
+ - fname - file to be created with locus removed
+
"""
old_rec = read(self.fname)
with open(fname, "w") as f:
@@ -270,8 +269,10 @@ class FileRecord(object):
def remove_loci_by_position(self, positions, fname):
"""Removes a set of loci by position.
- positions - positions
- fname - file to be created with locus removed
+ Arguments:
+ - positions - positions
+ - fname - file to be created with locus removed
+
"""
old_rec = read(self.fname)
with open(fname, "w") as f:
@@ -314,8 +315,10 @@ class FileRecord(object):
def remove_locus_by_name(self, name, fname):
"""Removes a locus by name.
- name - name
- fname - file to be created with locus removed
+ Arguments:
+ - name - name
+ - fname - file to be created with locus removed
+
"""
for i in range(len(self.loci_list)):
if self.loci_list[i] == name:
@@ -327,8 +330,10 @@ class FileRecord(object):
def remove_loci_by_name(self, names, fname):
"""Removes a loci list (by name).
- names - names
- fname - file to be created with loci removed
+ Arguments:
+ - names - names
+ - fname - file to be created with loci removed
+
"""
positions = []
for i in range(len(self.loci_list)):
diff --git a/Bio/PopGen/GenePop/LargeFileParser.py b/Bio/PopGen/GenePop/LargeFileParser.py
index fbcda34..a204989 100644
--- a/Bio/PopGen/GenePop/LargeFileParser.py
+++ b/Bio/PopGen/GenePop/LargeFileParser.py
@@ -3,17 +3,16 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-Large file parsing of Genepop files
+"""Large file parsing of Genepop files
The standard parser loads the whole file into memory. This parser
provides an iterator over data.
Classes:
-LargeRecord Holds GenePop data.
+- LargeRecord - Holds GenePop data.
Functions:
-read Parses a GenePop record (file) into a Record object.
+- read - Parses a GenePop record (file) into a Record object.
"""
@@ -39,7 +38,9 @@ def get_indiv(line):
def read(handle):
"""Parses a handle containing a GenePop file.
- handle is a file-like object that contains a GenePop record.
+ Arguments:
+ - handle is a file-like object that contains a GenePop record.
+
"""
record = Record(handle)
record.comment_line = str(handle.readline()).rstrip()
@@ -86,6 +87,7 @@ class Record(object):
is unknown.
"""
+
def __init__(self, handle):
self.handle = handle
self.marker_len = 0
diff --git a/Bio/PopGen/GenePop/__init__.py b/Bio/PopGen/GenePop/__init__.py
index 8c6feab..34037b7 100644
--- a/Bio/PopGen/GenePop/__init__.py
+++ b/Bio/PopGen/GenePop/__init__.py
@@ -3,8 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module provides code to work with GenePop.
+"""Code to work with GenePop.
See http://wbiomed.curtin.edu.au/genepop/ , the format is documented
here: http://wbiomed.curtin.edu.au/genepop/help_input.html .
@@ -16,7 +15,7 @@ Functions:
read Parses a GenePop record (file) into a Record object.
-Partially inspired on MedLine Code.
+Partially inspired by MedLine Code.
"""
from copy import deepcopy
@@ -48,7 +47,7 @@ def get_indiv(line):
def read(handle):
"""Parses a handle containing a GenePop file.
- handle is a file-like object that contains a GenePop record.
+ handle is a file-like object that contains a GenePop record.
"""
record = Record()
record.comment_line = str(next(handle)).rstrip()
@@ -123,6 +122,7 @@ class Record(object):
]
"""
+
def __init__(self):
self.marker_len = 0
self.comment_line = ""
@@ -131,8 +131,7 @@ class Record(object):
self.populations = []
def __str__(self):
- """Returns (reconstructs) a GenePop textual representation.
- """
+ """Returns (reconstructs) a GenePop textual representation."""
rep = [self.comment_line + '\n']
rep.append('\n'.join(self.loci_list) + '\n')
for pop in self.populations:
@@ -156,12 +155,13 @@ class Record(object):
def split_in_pops(self, pop_names):
"""Splits a GP record in a dictionary with 1 pop per entry.
- Given a record with n pops and m loci returns a dictionary
- of records (key pop_name) where each item is a record
- with a single pop and m loci.
+ Given a record with n pops and m loci returns a dictionary
+ of records (key pop_name) where each item is a record
+ with a single pop and m loci.
+
+ Arguments:
+ - pop_names - Population names
- Parameters:
- pop_names - Population names
"""
gp_pops = {}
for i in range(len(self.populations)):
@@ -176,9 +176,9 @@ class Record(object):
def split_in_loci(self, gp):
"""Splits a GP record in a dictionary with 1 locus per entry.
- Given a record with n pops and m loci returns a dictionary
- of records (key locus name) where each item is a record
- with a single locus and n pops.
+ Given a record with n pops and m loci returns a dictionary
+ of records (key locus name) where each item is a record
+ with a single locus and n pops.
"""
gp_loci = {}
for i in range(len(self.loci_list)):
@@ -196,13 +196,11 @@ class Record(object):
return gp_loci
def remove_population(self, pos):
- """Removes a population (by position).
- """
+ """Removes a population (by position)."""
del self.populations[pos]
def remove_locus_by_position(self, pos):
- """Removes a locus by position.
- """
+ """Removes a locus by position."""
del self.loci_list[pos]
for pop in self.populations:
for indiv in pop:
@@ -210,8 +208,7 @@ class Record(object):
del loci[pos]
def remove_locus_by_name(self, name):
- """Removes a locus by name.
- """
+ """Removes a locus by name."""
for i in range(len(self.loci_list)):
if self.loci_list[i] == name:
self.remove_locus_by_position(i)
diff --git a/Bio/PopGen/SimCoal/Async.py b/Bio/PopGen/SimCoal/Async.py
deleted file mode 100644
index e14ec5c..0000000
--- a/Bio/PopGen/SimCoal/Async.py
+++ /dev/null
@@ -1,31 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-
-"""Async. caching of Simcoal2 results (DEPRECATED).
-
-This module allows to cache Simcoal2 results, and return on the fly
-in case the calculation was done. Async version
-
-This version will run Sincoal2 (if necessary) Asynchrously.
-
-"""
-
-import os
-from . import Cache
-
-
-class SimCoalCache(Cache.SimCoalCache):
- def __init__(self, data_dir, simcoal_dir):
- self.data_dir = data_dir
- Cache.SimCoalCache.__init__(self, data_dir, simcoal_dir)
-
- def runJob(self, parameters, inputFiles):
- parFile = parameters['parFile']
- numSims = parameters['numSims']
- ploydi = parameters.get('ploydi', '1')
- f = inputFiles[parFile]
- text = f.read()
- f.close()
- with open(os.sep.join([self.data_dir, 'SimCoal', 'runs', parFile]), 'w') as w:
- w.write(text)
- self.run_simcoal(parFile, numSims, ploydi)
- return 0, None
diff --git a/Bio/PopGen/SimCoal/Cache.py b/Bio/PopGen/SimCoal/Cache.py
deleted file mode 100644
index f837adc..0000000
--- a/Bio/PopGen/SimCoal/Cache.py
+++ /dev/null
@@ -1,86 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-
-"""Cache for Simcoal2 results (DEPRECATED).
-
-This module allows you to cache Simcoal2 results, and return on the fly
-in case the calculation was done.
-"""
-
-import os
-import tarfile
-from .Controller import SimCoalController
-
-
-class SimCoalCache(object):
- def __init__(self, data_dir, simcoal_dir):
- """Initializes the cache.
-
- - data_dir - Where the cache can be found
- - simcoal_dir - where the binaries are
-
- IMPORTANT: The cache only makes sense if the file name univocally
- identifies the model.
- For now use use the model name as key,
- and it will probably stay like that.
- """
- self.dataDir = data_dir
- self.cacheDir = os.sep.join([data_dir, 'SimCoal', 'cache'])
- self.simcoalDir = simcoal_dir
-
- def run_simcoal(self, par_file, num_sims, ploydi='1', parDir=None):
- if parDir is None:
- parDir = os.sep.join([self.dataDir, 'SimCoal', 'runs'])
- par_file_root = par_file[:-4]
- tar_name = os.sep.join([self.cacheDir, ploydi, par_file_root +
- '.tar.bz2'])
- if os.access(tar_name, os.R_OK):
- tf = tarfile.open(tar_name)
- tar_num_sims = len(tf.getmembers()) - 3
- else:
- tar_num_sims = 0
- if tar_num_sims >= num_sims:
- tf.extractall(parDir)
- tf.close()
- return
- else:
- try:
- tf.close()
- except NameError:
- pass # not opened in the first place, OK.
- scc = SimCoalController(self.simcoalDir)
- scc.run_simcoal(par_file, num_sims, ploydi, parDir)
- tf = tarfile.open(tar_name, 'w:bz2')
- tf.add(os.sep.join([parDir, par_file_root]), par_file_root)
- tf.close()
-
- def listSimulations(self, ploidy='1'):
- """
- Lists available simulations.
- """
- files = os.listdir(self.cacheDir + os.sep + ploidy)
- sims = []
- for file in files:
- if file.endswith('.tar.bz2'):
- sims.append(file[:-8])
- return sims
-
- def getSimulation(self, sim_name, ploidy='1', parDir=None):
- """Makes available a cached simulation.
-
- @param sim_name simulation name.
-
- This mainly means untaring a file.
- """
- if parDir is None:
- parDir = os.sep.join([self.dataDir, 'SimCoal', 'runs'])
- tar_name = os.sep.join([self.cacheDir, ploidy, sim_name +
- '.tar.bz2'])
- tf = tarfile.open(tar_name)
- tf.extractall(parDir)
- tf.close()
-
-
-# if __name__ == '__main__':
-# cache = Cache('/home/work/werk/consolidator/sc_cache',
-# '/home/work/software/simcoal')
-# cache.run_simcoal('.', 'island_snp-50_0.0025_10_0.083_100_60.par', 102)
diff --git a/Bio/PopGen/SimCoal/Controller.py b/Bio/PopGen/SimCoal/Controller.py
deleted file mode 100644
index d6c5fdc..0000000
--- a/Bio/PopGen/SimCoal/Controller.py
+++ /dev/null
@@ -1,222 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>.
-# Revisions copyright 2014 by Melissa Gymrek <mgymrek at mit.edu>.
-# All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""This module allows you to control Simcoal2 and FastSimcoal (DEPRECATED)."""
-
-import os
-import sys
-from Bio.Application import AbstractCommandline, _Option, _Switch
-
-
-class SimCoalController(object):
- def __init__(self, simcoal_dir):
- """Initializes the controller. (DEPRECATED)
-
- simcoal_dir is the directory where simcoal is.
-
- The initializer checks for existence and executability of binaries.
- """
- self.simcoal_dir = simcoal_dir
- self.os_name = os.name # remove this?
- dir_contents = os.listdir(self.simcoal_dir)
- # We expect the tool to be installed as simcoal2(.exe)
- # without any trailing version number.
- self.bin_name = "simcoal2"
- if self.bin_name not in dir_contents:
- # Try case insensitive,
- dir_contents = [x.lower() for x in dir_contents]
- if self.bin_name not in dir_contents:
- # Try with .exe
- self.bin_name += '.exe'
- if self.bin_name not in dir_contents:
- raise IOError("SimCoal not available")
- if not os.access(os.path.join(self.simcoal_dir, self.bin_name),
- os.X_OK):
- raise IOError("SimCoal not executable")
-
- def run_simcoal(self, par_file, num_sims, ploydi='1', par_dir='.'):
- """Executes SimCoal.
- """
- if par_dir is None:
- par_dir = os.sep.join([".", 'SimCoal', 'runs'])
- curr_dir = os.getcwd()
- # TODO - Make sure we change drive on Windows as well?
- os.chdir(par_dir)
- exe = os.path.join(self.simcoal_dir, self.bin_name)
- if " " in exe:
- exe = '"' + exe + '"'
- cmd = exe + ' ' + par_file + ' ' + str(num_sims) + ' ' + ploydi
- # TODO - Better way to spot if on Jython on Windows?
- if sys.platform == "win32" or self.bin_name.endswith(".exe"):
- # There is no /dev/nul on Windows
- cmd += ' > nul 2>nul'
- else:
- cmd += ' >/dev/null 2>&1'
- os.system(cmd)
- os.chdir(curr_dir)
-
-
-class _FastSimCoalCommandLine(AbstractCommandline):
- """ Command Line Wrapper for Fastsimcoal
- """
- def __init__(self, fastsimcoal_dir=None, cmd='fastsimcoal', **kwargs):
- self.parameters = [
- _Option(["-i", "--ifile", "parfile"], "Name of the parameter file",
- filename=True, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, str)),
- _Option(["-n", "--numsims", "numsims"], "Number of simulations to perform",
- filename=False, equate=False, is_required=True,
- checker_function=lambda x: isinstance(x, int)),
- _Option(["-t", "--tfile", "tfile"], "Name of template parameter file",
- filename=True, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, str)),
- _Option(["-f", "--dfile", "dfile"], "Name of parameter definition file",
- filename=True, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, str)),
- _Option(["-F", "--dFile", "dFile"],
- """Same as -f but only uses simple parameters defined
- in the template file. Complex params are recomputed""",
- filename=True, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, str)),
- _Option(["-e", "--efile", "efile"],
- """Parameter prior definition file.
- Parameters drawn from specified distributions are
- substituted into template file.""",
- filename=True, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, str)),
- _Option(["-E", "--numest", "numest"],
- """Number of estimations from parameter priors.
- Listed parameter values are substituted in template file.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Switch(["-g", "--genotypic", "genotypic"], "Generates Arlequin projects with genotypic data"),
- _Switch(["-p", "--phased", "phased"], "Specifies that phase is known in Arlequin output"),
- _Option(["-s", "--dnatosnp", "dnatosnp"],
- """"Output DNA as SNP data (0: ancestral, 1: derived
- and specify maximum no. SNPs to output.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Switch(["-S", "--allsites", "allsites"],
- """Output the whole DNA sequence, including monomorphic sites"""),
- _Switch(["-I", "--inf", "inf"],
- """Generates DNA mutations according to an
- infinite sites (IS) mutation model."""),
- _Switch(["-d", "--dsfs", "dsfs"], "Computes derived site frequency spectrum"),
- _Switch(["-m", "--msfs", "msfs"], "Computes minor site frequency spectrum"),
- _Option(["-o", "--oname", "oname"], "Generic name for observed SFS files",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, str)),
- _Switch(["-H", "--header", "header"], "Generates header in site frequency spectrum files."),
- _Switch(["-q", "--quiet", "quiet"], "Minimal messages output to console"),
- _Switch(["-T", "--tree", "tree"], "Output coalescent tree in nexus format."),
- _Option(["-k", "--keep", "keep"],
- """Number of simulated polymorphic sites kept in memory.
- If the simulated no. is larger, then temporary files are created.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Option(["--seed", "seed"], "Seed for the random number generator (positive int <=1E6)",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Switch(["-x", "--noarloutput", "noarloutput"], "Does not generate Arlequin output"),
- _Switch(["-D", "--dadioutput", "dadioutput"], "Output SFS in dadi format"),
- _Option(["-M", "--maxlhood", "maxlhood"],
- """Perform parameter estimation by max lhood from SFS, and
- define stop criterion as min., rel., diff. in parameter
- values between iterations""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, float)),
- _Option(["-N", "--maxnumsims", "maxnumsims"],
- """Maximum number of simulations to perform during
- likelihood maximization.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Option(["-l", "--minnumloops", "minnumloops"],
- """Minimum number of iteration loops to perform during
- likelihood maximization.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Option(["-L", "--maxnumloops", "maxnumloops"],
- """Maximum number of iterations to perform during
- likelihood maximization""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Option(["-C", "--minSFSCount", "minSFSCount"],
- """Minimum observed SFS entry count taken into account
- in likelihood computation""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Switch(["-0", "--removeZeroSFS", "removeZeroSFS"],
- """Do not take into account monomorphic sites for
- SFS likelihood computation."""),
- _Option(["-a", "--ascDeme", "ascDeme"],
- """This is the deme id where ascertainment is performed
- when simulating SNPs.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Option(["-A", "--ascSize", "ascSize"],
- """Number of ascertained chromosomes used to define SNPs in
- a given deme.""",
- filename=False, equate=False, is_required=False,
- checker_function=lambda x: isinstance(x, int)),
- _Switch(["-u", "--multiSFS", "multiSFS"],
- "Generate or use multidimensional SFS")]
- AbstractCommandline.__init__(self, cmd, **kwargs)
-
-
-class FastSimCoalController(object):
- def __init__(self, fastsimcoal_dir=None, bin_name="fsc252"):
- """Initializes the controller.
-
- fastsimcoal_dir is the directory where fastsimcoal is.
- By default the binary should be called fsc252.
- bin_name specifies a different name for the binary.
-
- The initializer checks for existence and executability of binaries
- and sets up the command line controller.
-
- Fastsimcoal2 is available here: http://cmpg.unibe.ch/software/fastsimcoal2/.
- This wrapper was written and tested for fastsimcoal version 2.51.
- """
- self.bin_name = bin_name
- self.fastsimcoal_dir = fastsimcoal_dir
- if fastsimcoal_dir is None:
- for path in os.environ["PATH"].split(os.pathsep):
- if os.path.isfile(os.path.join(path, self.bin_name)):
- self.fastsimcoal_dir = path
- if self.fastsimcoal_dir is None:
- raise IOError("Fastsimcoal not available")
- else:
- dir_contents = os.listdir(fastsimcoal_dir)
- if self.bin_name not in dir_contents:
- raise IOError("Fastsimcoal not available")
- if not os.access(os.path.join(self.fastsimcoal_dir, self.bin_name), os.X_OK):
- raise IOError("Fastsimcoal not executable")
-
- def run_fastsimcoal(self, par_file, num_sims, par_dir='.', opts=None):
- """Executes Fastsimcoal.
-
- par_file is the input parameter file (--ifile) for fastsimcoal.
- num_sims is the number of simulations to perform.
- par_dir is the directory where par_file is and where output will be written.
- opts is a dictionary of additional options to fastsimcoal.
- """
- if opts is None:
- opts = {}
- if par_dir is None:
- par_dir = os.sep.join([".", "Fastsimcoal", "runs"])
- if not os.path.exists(par_dir):
- os.mkdir(par_dir)
- curr_dir = os.getcwd()
- os.chdir(par_dir)
- if par_file is None: # Must use .tpl for -t instead if no par_file
- controller = _FastSimCoalCommandLine(cmd=os.path.join(self.fastsimcoal_dir, self.bin_name),
- numsims=num_sims, **opts)
- else:
- controller = _FastSimCoalCommandLine(cmd=os.path.join(self.fastsimcoal_dir, self.bin_name),
- parfile=par_file, numsims=num_sims, **opts)
- controller()
- os.chdir(curr_dir)
diff --git a/Bio/PopGen/SimCoal/Template.py b/Bio/PopGen/SimCoal/Template.py
deleted file mode 100644
index e10d011..0000000
--- a/Bio/PopGen/SimCoal/Template.py
+++ /dev/null
@@ -1,228 +0,0 @@
-# Copyright 2007 by Tiago Antao. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""Utility code for using SimCoal (DEPRECATED)."""
-
-from __future__ import print_function
-
-from os import sep
-import re
-from functools import reduce
-
-from Bio.PopGen.SimCoal import builtin_tpl_dir
-
-
-def exec_template(template):
- executed_template = template
- match = re.search('!!!(.*?)!!!', executed_template, re.MULTILINE)
- # while len(match.groups())>0:
- while match:
- exec_result = str(eval(match.groups()[0]))
- executed_template = executed_template.replace(
- '!!!' + match.groups()[0] + '!!!',
- exec_result, 1)
- match = re.search('!!!(.*?)!!!', executed_template, re.MULTILINE)
- # match = patt.matcher(String(executed_template))
- return executed_template
-
-
-def process_para(in_string, out_file_prefix, para_list, curr_values):
- if (para_list == []):
- template = in_string
- f_name = out_file_prefix
- # f_name += '_' + str(total_size)
- for tup in curr_values:
- name, val = tup
- f_name += '_' + str(val)
- # reg = re.compile('\?' + name, re.MULTILINE)
- # template = re.sub(reg, str(val), template)
- template = template.replace('?' + name, str(val))
- with open(f_name + '.par', 'w') as f:
- # executed_template = template
- executed_template = exec_template(template)
- clean_template = executed_template.replace('\r\n', '\n').replace('\n\n', '\n')
- f.write(clean_template)
- return [f_name]
- else:
- name, rng = para_list[0]
- fnames = []
- for val in rng:
- new_values = [(name, val)]
- new_values.extend(curr_values)
- more_names = process_para(in_string, out_file_prefix, para_list[1:], new_values)
- fnames.extend(more_names)
- return fnames
-
-
-def dupe(motif, times):
- ret_str = ''
- for i in range(1, times + 1):
- ret_str += motif + '\r\n'
- return ret_str
-
-
-def get_xy_from_matrix(x_max, y_max, pos):
- y = (pos - 1) / x_max
- x = (pos - 1) % x_max
- return x, y
-
-
-def get_step_2d(x_max, y_max, x, y, mig):
- my_x, my_y = get_xy_from_matrix(x_max, y_max, y)
- other_x, other_y = get_xy_from_matrix(x_max, y_max, x)
-
- if (my_x - other_x) ** 2 + (my_y - other_y) ** 2 == 1:
- return str(mig) + ' '
- else:
- return '0 '
-
-
-def generate_ssm2d_mat(x_max, y_max, mig):
- mig_mat = ''
- for x in range(1, x_max * y_max + 1):
- for y in range(1, x_max * y_max + 1):
- mig_mat += get_step_2d(x_max, y_max, x, y, mig)
- mig_mat += "\r\n"
- return mig_mat
-
-
-def generate_island_mat(total_size, mig):
- mig_mat = ''
- for x in range(1, total_size + 1):
- for y in range(1, total_size + 1):
- if (x == y):
- mig_mat += '0 '
- else:
- mig_mat += '!!!' + str(mig) + '!!! '
- mig_mat += "\r\n"
- return mig_mat
-
-
-def generate_null_mat(total_size):
- null_mat = ''
- for x in range(1, total_size + 1):
- for y in range(1, total_size + 1):
- null_mat += '0 '
- null_mat += '\r\n'
- return null_mat
-
-
-def generate_join_events(t, total_size, join_size, orig_size):
- events = ''
- for i in range(1, total_size - 1):
- events += str(t) + ' ' + str(i) + ' 0 1 1 0 1\r\n'
- events += str(t) + ' ' + str(total_size - 1) + ' 0 1 ' + str(1.0 * total_size * join_size / orig_size) + ' 0 1\r\n'
- return events
-
-
-def no_processor(in_string):
- return in_string
-
-
-def process_text(in_string, out_file_prefix, para_list, curr_values,
- specific_processor):
- text = specific_processor(in_string)
- return process_para(text, out_file_prefix, para_list, [])
-
-
-# def prepare_dir():
-# try:
-# mkdir(sep.join([Config.dataDir, 'SimCoal'])) # Should exist, but...
-# except OSError:
-# pass # Its ok if already exists
-# try:
-# mkdir(sep.join([Config.dataDir, 'SimCoal', 'runs']))
-# except OSError:
-# pass # Its ok if already exists
-
-
-# sep is because of jython
-def generate_model(par_stream, out_prefix, params,
- specific_processor=no_processor, out_dir='.'):
- # prepare_dir()
- text = par_stream.read()
- out_file_prefix = sep.join([out_dir, out_prefix])
- return process_text(text, out_file_prefix, params, [], specific_processor)
-
-
-def get_demography_template(stream, model, tp_dir=None):
- """Gets a demograpy template.
-
- Most probably this model needs to be sent to GenCases.
-
- - stream - Writable stream.
- - param - Template file.
- - tp_dir - Directory where to find the template, if None
- use an internal template
- """
- if tp_dir is None:
- # Internal Template
- filename = sep.join([builtin_tpl_dir, model + '.par'])
- else:
- # External template
- filename = sep.join([tp_dir, model + '.par'])
- with open(filename, 'r') as f:
- l = f.readline()
- while l != '':
- stream.write(l)
- l = f.readline()
-
-
-def _gen_loci(stream, loci):
- stream.write('//Number of contiguous linkage blocks in chromosome\n')
- stream.write(str(len(loci)) + '\n')
- stream.write('//Per Block: Data type, No. of loci, Recombination rate to the right-side locus, plus optional parameters\n')
- for locus in loci:
- stream.write(' '.join([locus[0]] +
- [str(x) for x in list(locus[1])]) + '\n')
-
-
-def get_chr_template(stream, chrs):
- """Writes a Simcoal2 loci template part.
-
- stream - Writable stream.
- chr - Chromosome list.
-
- Current loci list:
-
- - [(chr_repeats,[(marker, (params))])]
-
- - chr_repeats --> Number of chromosome repeats
- - marker --> 'SNP', 'DNA', 'RFLP', 'MICROSAT'
- - params --> Simcoal2 parameters for markers (list of floats
- or ints - if to be processed by generate_model)
- """
- num_chrs = reduce(lambda x, y: x + y[0], chrs, 0)
- stream.write('//Number of independent (unlinked) chromosomes, and "chromosome structure" flag: 0 for identical structure across chromosomes, and 1 for different structures on different chromosomes.\n')
- if len(chrs) > 1 or num_chrs == 1:
- stream.write(str(num_chrs) + ' 1\n')
- else:
- stream.write(str(num_chrs) + ' 0\n')
- for chr in chrs:
- repeats = chr[0]
- loci = chr[1]
- if len(chrs) == 1:
- _gen_loci(stream, loci)
- else:
- for i in range(repeats):
- _gen_loci(stream, loci)
-
-
-def generate_simcoal_from_template(model, chrs, params, out_dir='.', tp_dir=None):
- """Writes a complete SimCoal2 template file.
-
- This joins together get_demography_template and get_chr_template,
- which are feed into generate_model
- Please check the three functions for parameters (model from
- get_demography_template, chrs from get_chr_template and
- params from generate_model).
- """
- with open(out_dir + sep + 'tmp.par', 'w') as stream:
- get_demography_template(stream, model, tp_dir)
- get_chr_template(stream, chrs)
- # with open(out_dir + sep + 'tmp.par', 'r') as par_stream:
- # print par_stream.read()
- with open(out_dir + sep + 'tmp.par', 'r') as par_stream:
- generate_model(par_stream, model, params, out_dir=out_dir)
diff --git a/Bio/PopGen/SimCoal/__init__.py b/Bio/PopGen/SimCoal/__init__.py
deleted file mode 100644
index be105e8..0000000
--- a/Bio/PopGen/SimCoal/__init__.py
+++ /dev/null
@@ -1,26 +0,0 @@
-# Copyright 2007 by Tiago Antao. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""SimCoal2 execution module and support functions (DEPRECATED)."""
-
-import os
-import sys
-import warnings
-
-from Bio import BiopythonDeprecationWarning
-
-warnings.warn("Bio.PopGen.SimCoal has been deprecated, and we intend to "
- " remove it in a future release of Biopython. If you would like"
- " to continue using it, please contact the Biopython developers"
- " via the mailing list.", BiopythonDeprecationWarning)
-
-
-# This is a workaround to work with the test system
-# In any case the problem is with the test system
-for instance in sys.path:
- test_path = os.path.join(instance, 'Bio', 'PopGen', 'SimCoal', 'data')
- if os.access(test_path, os.F_OK):
- builtin_tpl_dir = test_path
- break
diff --git a/Bio/PopGen/SimCoal/data/bottle.par b/Bio/PopGen/SimCoal/data/bottle.par
deleted file mode 100644
index bbe7d4f..0000000
--- a/Bio/PopGen/SimCoal/data/bottle.par
+++ /dev/null
@@ -1,14 +0,0 @@
-//Parameters for the coalescence simulation program : simcoal.exe
-1 samples
-//Population effective sizes (number of genes 2*diploids)
-?pop_size
-//Samples sizes (number of genes 2*diploids)
-?sample_size
-//Growth rates : negative growth implies population expansion
-0
-//Number of migration matrices : 0 implies no migration between demes
-0
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-2 historical events
-?contract_gen 0 0 1 !!!1.0*?ne1/?ne2!!! 0 1
-?expand_gen 0 0 1 !!!1.0*?ne2/?pop_size!!! 0 1
diff --git a/Bio/PopGen/SimCoal/data/decline_lambda.par b/Bio/PopGen/SimCoal/data/decline_lambda.par
deleted file mode 100644
index 163e813..0000000
--- a/Bio/PopGen/SimCoal/data/decline_lambda.par
+++ /dev/null
@@ -1,14 +0,0 @@
-//Parameters for the coalescence simulation program : simcoal.exe
-1 samples
-//Population effective sizes (number of genes 2*diploids)
-?pop_size
-//Samples sizes (number of genes 2*diploids)
-?sample_size
-//Growth rates : negative growth implies population expansion
-0
-//Number of migration matrices : 0 implies no migration between demes
-0
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-2 historical events
-?t2 0 0 1 1 0 1
-?t1 0 0 1 1 ?r 1
diff --git a/Bio/PopGen/SimCoal/data/decline_split.par b/Bio/PopGen/SimCoal/data/decline_split.par
deleted file mode 100644
index a811405..0000000
--- a/Bio/PopGen/SimCoal/data/decline_split.par
+++ /dev/null
@@ -1,23 +0,0 @@
-//Parameters for the coalescence simulation program : simcoal.exe
-2 samples
-//Population effective sizes (number of genes 2*diploids)
-?pop_size
-?pop_size
-//Samples sizes (number of genes 2*diploids)
-?sample_size
-?sample_size
-//Growth rates : negative growth implies population expansion
-0
-0
-//Number of migration matrices : 0 implies no migration between demes
-2
-//mig
-0 ?mig
-?mig 0
-//nothing
-0 0
-0 0
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-2 historical events
-?contract_gen 0 0 1 !!!1.0*?ne1/?ne2!!! 0 1
-?split_gen 1 0 1 !!!1.0*?ne2/(2*?pop_size)!!! 0 1
diff --git a/Bio/PopGen/SimCoal/data/island.par b/Bio/PopGen/SimCoal/data/island.par
deleted file mode 100644
index e6512ee..0000000
--- a/Bio/PopGen/SimCoal/data/island.par
+++ /dev/null
@@ -1,14 +0,0 @@
-//Parameters for the coalescence simulation program simcoal.
-?total_demes samples
-//Population effective sizes (number of genes 2*diploids)
-!!!dupe('?pop_size', ?total_demes)!!!
-//Samples sizes (number of genes 2*diploids)
-!!!dupe('?sample_size', ?total_demes)!!!
-//Growth rates : negative growth implies population expansion
-!!!dupe('0', ?total_demes)!!!
-//Number of migration matrices : 0 implies no migration between demes
-1
-//mig
-!!!generate_island_mat(?total_demes,?mig)!!!
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-0 historical events
diff --git a/Bio/PopGen/SimCoal/data/simple.par b/Bio/PopGen/SimCoal/data/simple.par
deleted file mode 100644
index 9d7ccf7..0000000
--- a/Bio/PopGen/SimCoal/data/simple.par
+++ /dev/null
@@ -1,12 +0,0 @@
-//Parameters for the coalescence simulation program : simcoal.exe
-1 samples
-//Population effective sizes (number of genes 2*diploids)
-?pop_size
-//Samples sizes (number of genes 2*diploids)
-?sample_size
-//Growth rates : negative growth implies population expansion
-0
-//Number of migration matrices : 0 implies no migration between demes
-0
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-0 historical events
diff --git a/Bio/PopGen/SimCoal/data/split_island.par b/Bio/PopGen/SimCoal/data/split_island.par
deleted file mode 100644
index 8104c46..0000000
--- a/Bio/PopGen/SimCoal/data/split_island.par
+++ /dev/null
@@ -1,17 +0,0 @@
-//Parameters for the coalescence simulation program simcoal.
-?total_demes samples
-//Population effective sizes (number of genes 2*diploids)
-!!!dupe('?pop_size', ?total_demes)!!!
-//Samples sizes (number of genes 2*diploids)
-!!!dupe('?sample_size', ?total_demes)!!!
-//Growth rates : negative growth implies population expansion
-!!!dupe('0', ?total_demes)!!!
-//Number of migration matrices : 0 implies no migration between demes
-2
-//mig
-!!!generate_island_mat(?total_demes,?mig)!!!
-//nothing
-!!!generate_null_mat(?total_demes)!!!
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-!!!?total_demes-1!!! historical events
-!!!generate_join_events(?t1,?total_demes,?ne1,?pop_size)!!!
diff --git a/Bio/PopGen/SimCoal/data/split_ssm_1d.par b/Bio/PopGen/SimCoal/data/split_ssm_1d.par
deleted file mode 100644
index c5fb5d6..0000000
--- a/Bio/PopGen/SimCoal/data/split_ssm_1d.par
+++ /dev/null
@@ -1,17 +0,0 @@
-//Parameters for the coalescence simulation program simcoal.
-?total_demes samples
-//Population effective sizes (number of genes 2*diploids)
-!!!dupe('?pop_size', ?total_demes)!!!
-//Samples sizes (number of genes 2*diploids)
-!!!dupe('?sample_size', ?total_demes)!!!
-//Growth rates : negative growth implies population expansion
-!!!dupe('0', ?total_demes)!!!
-//Number of migration matrices : 0 implies no migration between demes
-2
-//mig
-!!!generate_ssm2d_mat(?total_demes, 1, ?mig)!!!
-//nothing
-!!!generate_null_mat(?total_demes)!!!
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-!!!?total_demes-1!!! historical events
-!!!generate_join_events(?t, ?total_demes, ?ne, ?pop_size)!!!
diff --git a/Bio/PopGen/SimCoal/data/split_ssm_2d.par b/Bio/PopGen/SimCoal/data/split_ssm_2d.par
deleted file mode 100644
index 74c6289..0000000
--- a/Bio/PopGen/SimCoal/data/split_ssm_2d.par
+++ /dev/null
@@ -1,17 +0,0 @@
-//Parameters for the coalescence simulation program simcoal.
-!!!?x * ?y!!! samples
-//Population effective sizes (number of genes 2*diploids)
-!!!dupe('?pop_size', ?x * ?y)!!!
-//Samples sizes (number of genes 2*diploids)
-!!!dupe('?sample_size', ?x * ?y)!!!
-//Growth rates : negative growth implies population expansion
-!!!dupe('0', ?x * ?y)!!!
-//Number of migration matrices : 0 implies no migration between demes
-2
-//mig
-!!!generate_ssm2d_mat(?x, ?y, ?mig)!!!
-//nothing
-!!!generate_null_mat(?x * ?y)!!!
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-!!!?x * ?y -1!!! historical events
-!!!generate_join_events(?t, ?x * ?y, ?ne, ?pop_size)!!!
diff --git a/Bio/PopGen/SimCoal/data/ssm_1d.par b/Bio/PopGen/SimCoal/data/ssm_1d.par
deleted file mode 100644
index 5292758..0000000
--- a/Bio/PopGen/SimCoal/data/ssm_1d.par
+++ /dev/null
@@ -1,14 +0,0 @@
-//Parameters for the coalescence simulation program simcoal.
-?total_demes samples
-//Population effective sizes (number of genes 2*diploids)
-!!!dupe('?pop_size', ?total_demes)!!!
-//Samples sizes (number of genes 2*diploids)
-!!!dupe('?sample_size', ?total_demes)!!!
-//Growth rates : negative growth implies population expansion
-!!!dupe('0', ?total_demes)!!!
-//Number of migration matrices : 0 implies no migration between demes
-1
-//mig
-!!!generate_ssm2d_mat(?total_demes, 1, ?mig)!!!
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-0 historical events
diff --git a/Bio/PopGen/SimCoal/data/ssm_2d.par b/Bio/PopGen/SimCoal/data/ssm_2d.par
deleted file mode 100644
index 6625c46..0000000
--- a/Bio/PopGen/SimCoal/data/ssm_2d.par
+++ /dev/null
@@ -1,14 +0,0 @@
-//Parameters for the coalescence simulation program simcoal.
-!!!?x * ?y!!! samples
-//Population effective sizes (number of genes 2*diploids)
-!!!dupe('?pop_size', ?x * ?y)!!!
-//Samples sizes (number of genes 2*diploids)
-!!!dupe('?sample_size', ?x * ?y)!!!
-//Growth rates : negative growth implies population expansion
-!!!dupe('0', ?x * ?y)!!!
-//Number of migration matrices : 0 implies no migration between demes
-1
-//mig
-!!!generate_ssm2d_mat(?x, ?y, ?mig)!!!
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-0 historical events
diff --git a/Bio/Restriction/PrintFormat.py b/Bio/Restriction/PrintFormat.py
index 1cd8928..a09ef29 100644
--- a/Bio/Restriction/PrintFormat.py
+++ b/Bio/Restriction/PrintFormat.py
@@ -87,8 +87,8 @@ class PrintFormat(object):
return
- def print_that(self, dct, title='', s1=''):
- """PF.print_that(dct, [title[, s1]]) -> Print dct nicely formatted.
+ def format_output(self, dct, title='', s1=''):
+ """PF.print_that(dct, [title[, s1]]) -> string nicely formatted.
Arguments:
- dct is a dictionary as returned by a RestrictionBatch.search()
@@ -98,7 +98,8 @@ class PrintFormat(object):
those without sites.
- s1 must be a formatted string as well.
- The format of print_that is a list."""
+ The format of print_that is a list.
+ """
if not dct:
dct = self.results
ls, nc = [], []
@@ -107,7 +108,23 @@ class PrintFormat(object):
ls.append((k, v))
else:
nc.append(k)
- print(self.make_format(ls, title, nc, s1))
+ return self.make_format(ls, title, nc, s1)
+
+ def print_that(self, dct, title='', s1=''):
+ """PF.print_that(dct, [title[, s1]]) -> string nicely formatted.
+
+ Arguments:
+ - dct is a dictionary as returned by a RestrictionBatch.search()
+ - title is the title of the map.
+ It must be a formatted string, i.e. you must include the line break.
+ - s1 is the title separating the list of enzymes that have sites from
+ those without sites.
+ - s1 must be a formatted string as well.
+
+ This method prints the output of A.format_output() and it is here
+ for backwards compatibility.
+ """
+ print(self.format_output(dct, title, s1))
return
def make_format(self, cut=(), title='', nc=(), s1=''):
@@ -136,6 +153,7 @@ class PrintFormat(object):
- title is the title.
- nc is a tuple or list of non cutting enzymes.
- s1 is the sentence before the non cutting enzymes.
+
"""
return self._make_list_only(ls, title) + self._make_nocut_only(nc, s1)
@@ -157,6 +175,7 @@ class PrintFormat(object):
- title is the title.
- nc is a list of non cutting enzymes.
- s1 is the sentence before the non cutting enzymes.
+
"""
return self._make_map_only(ls, title) + self._make_nocut_only(nc, s1)
@@ -181,6 +200,7 @@ class PrintFormat(object):
- title is the title.
- nc is a list of non cutting enzymes.
- s1 is the sentence before the non cutting enzymes.
+
"""
return self._make_number_only(ls, title) + self._make_nocut_only(nc, s1)
@@ -196,6 +216,7 @@ class PrintFormat(object):
- title is the title.
- nc is a list of non cutting enzymes.
- s1 is the sentence before the non cutting enzymes.
+
"""
return title + self._make_nocut_only(nc, s1)
@@ -207,6 +228,7 @@ class PrintFormat(object):
Arguments:
- nc is a tuple or list of non cutting enzymes.
- s1 is the sentence before the non cutting enzymes.
+
"""
if not nc:
return s1
@@ -236,6 +258,7 @@ class PrintFormat(object):
- ls is a tuple or list of results.
- title is a string.
- Non cutting enzymes are not included.
+
"""
if not ls:
return title
@@ -261,11 +284,11 @@ class PrintFormat(object):
- ls is a list of results.
- title is a string.
- Non cutting enzymes are not included.
+
"""
if not ls:
return title
- # TODO: Use key to sort!
- ls.sort(lambda x, y: cmp(len(x[1]), len(y[1])))
+ ls.sort(key=lambda x: len(x[1]))
iterator = iter(ls)
cur_len = 1
new_sect = []
@@ -297,6 +320,7 @@ class PrintFormat(object):
- ls is a list of results.
- title is a string.
- Non cutting enzymes are not included.
+
"""
if not ls:
return title
@@ -391,7 +415,7 @@ class PrintFormat(object):
# private method to do lists:
def __next_section(self, ls, into):
- """FP.__next_section(ls, into) -> string.
+ """FP.__next_section(ls, into) -> string (PRIVATE).
Arguments:
- ls is a tuple/list of tuple (string, [int, int]).
diff --git a/Bio/Restriction/Restriction.py b/Bio/Restriction/Restriction.py
index ddda53e..eafce37 100644
--- a/Bio/Restriction/Restriction.py
+++ b/Bio/Restriction/Restriction.py
@@ -79,9 +79,13 @@ Notes about the diverses class of the restriction enzyme implementation::
the list of suppliers is extracted from
emboss_s.NNN
----------------------------------------------------------------------------
+
"""
from __future__ import print_function
+
+import warnings
+
from Bio._py3k import zip
from Bio._py3k import filter
from Bio._py3k import range
@@ -90,14 +94,11 @@ import re
import itertools
from Bio.Seq import Seq, MutableSeq
-from Bio.Alphabet import IUPAC
-
from Bio.Restriction.Restriction_Dictionary import rest_dict as enzymedict
from Bio.Restriction.Restriction_Dictionary import typedict
from Bio.Restriction.Restriction_Dictionary import suppliers as suppliers_dict
-# TODO: Consider removing this wildcard import.
-from Bio.Restriction.RanaConfig import *
from Bio.Restriction.PrintFormat import PrintFormat
+from Bio import BiopythonWarning
# Used to use Bio.Restriction.DNAUtils.check_bases (and expose it under this
@@ -142,15 +143,13 @@ class FormattedSeq(object):
Translate a Bio.Seq into a formatted sequence to be used with Restriction.
- Roughly:
- remove anything which is not IUPAC alphabet and then add a space
- in front of the sequence to get a biological index instead of a
- python index (i.e. index of the first base is 1 not 0).
+ Roughly: remove anything which is not IUPAC alphabet and then add a space
+ in front of the sequence to get a biological index instead of a
+ python index (i.e. index of the first base is 1 not 0).
- Retains information about the shape of the molecule linear (default)
- or circular. Restriction sites are search over the edges of circular
- sequence.
- """
+ Retains information about the shape of the molecule linear (default) or
+ circular. Restriction sites are search over the edges of circular sequence.
+ """
def __init__(self, seq, linear=True):
"""FormattedSeq(seq, [linear=True])-> new FormattedSeq.
@@ -192,42 +191,39 @@ class FormattedSeq(object):
return False
def circularise(self):
- """FS.circularise() -> circularise FS"""
+ """Circularise sequence in place."""
self.linear = False
return
def linearise(self):
- """FS.linearise() -> linearise FS"""
+ """Linearise sequence in place."""
self.linear = True
return
def to_linear(self):
- """FS.to_linear() -> new linear FS instance"""
+ """Make a new instance of sequence as linear."""
new = self.__class__(self)
new.linear = True
return new
def to_circular(self):
- """FS.to_circular() -> new circular FS instance"""
+ """Make a new instance of sequence as circular."""
new = self.__class__(self)
new.linear = False
return new
def is_linear(self):
- """FS.is_linear() -> bool.
-
- True if the sequence will analysed as a linear sequence."""
+ """Return if sequence is linear (True) or circular (False)."""
return self.linear
def finditer(self, pattern, size):
- """FS.finditer(pattern, size) -> list.
+ """Return a list of a given pattern which occurs in the sequence.
- return a list of pattern into the sequence.
- the list is made of tuple (location, pattern.group).
- the latter is used with non palindromic sites.
- pattern is the regular expression pattern corresponding to the
+ The list is made of tuple (location, pattern.group).
+ The latter is used with non palindromic sites.
+ Pattern is the regular expression pattern corresponding to the
enzyme restriction site.
- size is the size of the restriction enzyme recognition-site size.
+ Size is the size of the restriction enzyme recognition-site size.
"""
if self.is_linear():
data = self.data
@@ -242,18 +238,18 @@ class FormattedSeq(object):
class RestrictionType(type):
- """RestrictionType. Type from which derives all enzyme classes.
+ """RestrictionType. Type from which all enzyme classes are derived.
Implement the operator methods.
"""
def __init__(cls, name='', bases=(), dct=None):
- """RE(name, bases, dct) -> RestrictionType instance.
+ """Initialize RestrictionType instance.
Not intended to be used in normal operation. The enzymes are
instantiated when importing the module.
-
- see below."""
+ See below.
+ """
if "-" in name:
raise ValueError("Problem with hyphen in %s as enzyme name"
% repr(name))
@@ -262,15 +258,15 @@ class RestrictionType(type):
# super(RestrictionType, cls).__init__(cls, name, bases, dct)
try:
cls.compsite = re.compile(cls.compsite)
- except Exception as err:
+ except Exception:
raise ValueError("Problem with regular expression, re.compiled(%s)"
% repr(cls.compsite))
def __add__(cls, other):
- """RE.__add__(other) -> RestrictionBatch().
+ """Add restriction enzyme to a RestrictionBatch().
- if other is an enzyme returns a batch of the two enzymes.
- if other is already a RestrictionBatch add enzyme to it.
+ If other is an enzyme returns a batch of the two enzymes.
+ If other is already a RestrictionBatch add enzyme to it.
"""
if isinstance(other, RestrictionType):
return RestrictionBatch([cls, other])
@@ -280,63 +276,68 @@ class RestrictionType(type):
raise TypeError
def __div__(cls, other):
- """RE.__div__(other) -> list.
+ """Override '/' operator to use as search method.
- RE/other
- returns RE.search(other)."""
+ >>> EcoRI/Seq('GAATTC')
+ [2]
+ Returns RE.search(other).
+ """
return cls.search(other)
def __rdiv__(cls, other):
- """RE.__rdiv__(other) -> list.
+ """Override division with reversed operands to use as search method.
- other/RE
- returns RE.search(other)."""
+ >>> Seq('GAATTC')/EcoRI
+ [2]
+ Returns RE.search(other).
+ """
return cls.search(other)
def __truediv__(cls, other):
- """RE.__truediv__(other) -> list.
+ """Override Python 3 division operator to use as search method.
- RE/other
- returns RE.search(other)."""
+ Like __div__.
+ """
return cls.search(other)
def __rtruediv__(cls, other):
- """RE.__rtruediv__(other) -> list.
+ """As __truediv___, with reversed operands.
- other/RE
- returns RE.search(other)."""
+ Like __rdiv__.
+ """
return cls.search(other)
def __floordiv__(cls, other):
- """RE.__floordiv__(other) -> list.
+ """Override '//' operator to use as catalyse method.
- RE//other
- returns RE.catalyse(other)."""
+ >>> EcoRI//Seq('GAATTC')
+ (Seq('G', Alphabet()), Seq('AATTC', Alphabet()))
+ Returns RE.catalyse(other).
+ """
return cls.catalyse(other)
def __rfloordiv__(cls, other):
- """RE.__rfloordiv__(other) -> list.
+ """As __floordiv__, with reversed operands.
- other//RE
- returns RE.catalyse(other)."""
+ >>> Seq('GAATTC')//EcoRI
+ (Seq('G', Alphabet()), Seq('AATTC', Alphabet()))
+ Returns RE.catalyse(other).
+ """
return cls.catalyse(other)
def __str__(cls):
- """RE.__str__() -> str.
-
- return the name of the enzyme."""
+ """Return the name of the enzyme as string."""
return cls.__name__
def __repr__(cls):
- """RE.__repr__() -> str.
+ """Implement repr method.
- used with eval or exec will instantiate the enzyme."""
+ Used with eval or exec will instantiate the enzyme.
+ """
return "%s" % cls.__name__
def __len__(cls):
- """RE.__len__() -> int.
-
- length of the recognition site."""
+ """Return lenght of recognition site of enzyme as int."""
return cls.size
def __hash__(cls):
@@ -345,7 +346,7 @@ class RestrictionType(type):
return id(cls)
def __eq__(cls, other):
- """RE == other -> bool
+ """Override '==' operator.
True if RE and other are the same enzyme.
@@ -355,11 +356,16 @@ class RestrictionType(type):
return id(cls) == id(other)
def __ne__(cls, other):
- """RE != other -> bool.
- isoschizomer strict, same recognition site, same restriction -> False
- all the other-> True
+ """Override '!=' operator.
- WARNING - This is not the inverse of the __eq__ method.
+ Isoschizomer strict (same recognition site, same restriction) -> False
+ All the other-> True
+
+ WARNING - This is not the inverse of the __eq__ method
+ >>> SacI != SstI # true isoschizomers
+ False
+ >>> SacI == SstI
+ False
"""
if not isinstance(other, RestrictionType):
return True
@@ -369,10 +375,12 @@ class RestrictionType(type):
return True
def __rshift__(cls, other):
- """RE >> other -> bool.
+ """Override '>>' operator to test for neoschizomers.
neoschizomer : same recognition site, different restriction. -> True
all the others : -> False
+ >>> SmaI >> XmaI
+ True
"""
if not isinstance(other, RestrictionType):
return False
@@ -382,10 +390,11 @@ class RestrictionType(type):
return False
def __mod__(cls, other):
- """a % b -> bool.
+ """Override '%' operator to test for compatible overhangs.
- Test compatibility of the overhang of a and b.
True if a and b have compatible overhang.
+ >>> XhoI % SalI
+ True
"""
if not isinstance(other, RestrictionType):
raise TypeError(
@@ -393,11 +402,18 @@ class RestrictionType(type):
return cls._mod1(other)
def __ge__(cls, other):
- """a >= b -> bool.
-
- a is greater or equal than b if the a site is longer than b site.
- if their site have the same length sort by alphabetical order of their
- names."""
+ """Compare length of recognition site of two enzymes.
+
+ Override '>='. a is greater or equal than b if the a site is longer
+ than b site. If their site have the same length sort by alphabetical
+ order of their names.
+ >>> EcoRI.size
+ 6
+ >>> EcoRV.size
+ 6
+ >>> EcoRI >= EcoRV
+ False
+ """
if not isinstance(other, RestrictionType):
raise NotImplementedError
if len(cls) > len(other):
@@ -408,11 +424,13 @@ class RestrictionType(type):
return False
def __gt__(cls, other):
- """a > b -> bool.
+ """Compare length of recognition site of two enzymes.
- sorting order:
- 1. size of the recognition site.
- 2. if equal size, alphabetical order of the names."""
+ Override '>'. Sorting order:
+ 1. size of the recognition site.
+ 2. if equal size, alphabetical order of the names.
+
+ """
if not isinstance(other, RestrictionType):
raise NotImplementedError
if len(cls) > len(other):
@@ -423,11 +441,12 @@ class RestrictionType(type):
return False
def __le__(cls, other):
- """a <= b -> bool.
+ """Compare length of recognition site of two enzymes.
+
+ Override '<='. Sorting order:
+ 1. size of the recognition site.
+ 2. if equal size, alphabetical order of the names.
- sorting order:
- 1. size of the recognition site.
- 2. if equal size, alphabetical order of the names.
"""
if not isinstance(other, RestrictionType):
raise NotImplementedError
@@ -439,11 +458,12 @@ class RestrictionType(type):
return False
def __lt__(cls, other):
- """a < b -> bool.
+ """Compare length of recognition site of two enzymes.
+
+ Override '<'. Sorting order:
+ 1. size of the recognition site.
+ 2. if equal size, alphabetical order of the names.
- sorting order:
- 1. size of the recognition site.
- 2. if equal size, alphabetical order of the names.
"""
if not isinstance(other, RestrictionType):
raise NotImplementedError
@@ -460,19 +480,18 @@ class AbstractCut(RestrictionType):
All the methods are classmethod.
- For internal use only. Not meant to be instantiate.
+ For internal use only. Not meant to be instantiated.
"""
@classmethod
def search(cls, dna, linear=True):
- """RE.search(dna, linear=True) -> list.
+ """Return a list of cutting sites of the enzyme in the sequence.
- return a list of all the site of RE in dna. Compensate for circular
- sequences and so on.
+ Compensate for circular sequences and so on.
dna must be a Bio.Seq.Seq instance or a Bio.Seq.MutableSeq instance.
- if linear is False, the restriction sites than span over the boundaries
+ If linear is False, the restriction sites that span over the boundaries
will be included.
The positions are the first base of the 3' fragment,
@@ -494,51 +513,59 @@ class AbstractCut(RestrictionType):
@classmethod
def all_suppliers(cls):
- """RE.all_suppliers -> print all the suppliers of R"""
+ """Print all the suppliers of restriction enzyme."""
supply = sorted(x[0] for x in suppliers_dict.values())
print(",\n".join(supply))
return
@classmethod
def is_equischizomer(cls, other):
- """RE.is_equischizomers(other) -> bool.
+ """Test for real isoschizomer.
+
+ True if other is an isoschizomer of RE, but not an neoschizomer,
+ else False.
- True if other is an isoschizomer of RE.
- False else.
+ Equischizomer: same site, same position of restriction.
+ >>> SacI.is_equischizomer(SstI)
+ True
+ >>> SmaI.is_equischizomer(XmaI)
+ False
- equischizomer <=> same site, same position of restriction.
"""
return not cls != other
@classmethod
def is_neoschizomer(cls, other):
- """RE.is_neoschizomers(other) -> bool.
+ """Test for neoschizomer.
- True if other is an isoschizomer of RE.
- False else.
-
- neoschizomer <=> same site, different position of restriction.
+ True if other is an isoschizomer of RE, else False.
+ Neoschizomer: same site, different position of restriction.
"""
return cls >> other
@classmethod
def is_isoschizomer(cls, other):
- """RE.is_isoschizomers(other) -> bool.
+ """Test for same recognition site.
+
+ True if other has the same recognition site, else False.
- True if other is an isoschizomer of RE.
- False else.
+ Isoschizomer: same site.
+ >>> SacI.is_isoschizomer(SstI)
+ True
+ >>> SmaI.is_isoschizomer(XmaI)
+ True
- isoschizomer <=> same site."""
+ """
return (not cls != other) or cls >> other
@classmethod
def equischizomers(cls, batch=None):
- """RE.equischizomers([batch]) -> list.
+ """List equischizomers of the enzyme.
- return a tuple of all the isoschizomers of RE.
- if batch is supplied it is used instead of the default AllEnzymes.
+ Return a tuple of all the isoschizomers of RE.
+ If batch is supplied it is used instead of the default AllEnzymes.
- equischizomer <=> same site, same position of restriction.
+ Equischizomer: same site, same position of restriction.
"""
if not batch:
batch = AllEnzymes
@@ -550,12 +577,13 @@ class AbstractCut(RestrictionType):
@classmethod
def neoschizomers(cls, batch=None):
- """RE.neoschizomers([batch]) -> list.
+ """List neoschizomers of the enzyme.
- return a tuple of all the neoschizomers of RE.
- if batch is supplied it is used instead of the default AllEnzymes.
+ Return a tuple of all the neoschizomers of RE.
+ If batch is supplied it is used instead of the default AllEnzymes.
- neoschizomer <=> same site, different position of restriction."""
+ Neoschizomer: same site, different position of restriction.
+ """
if not batch:
batch = AllEnzymes
r = sorted(x for x in batch if cls >> x)
@@ -563,10 +591,10 @@ class AbstractCut(RestrictionType):
@classmethod
def isoschizomers(cls, batch=None):
- """RE.isoschizomers([batch]) -> list.
+ """List all isoschizomers of the enzyme.
- return a tuple of all the equischizomers and neoschizomers of RE.
- if batch is supplied it is used instead of the default AllEnzymes.
+ Return a tuple of all the equischizomers and neoschizomers of RE.
+ If batch is supplied it is used instead of the default AllEnzymes.
"""
if not batch:
batch = AllEnzymes
@@ -578,9 +606,10 @@ class AbstractCut(RestrictionType):
@classmethod
def frequency(cls):
- """RE.frequency() -> int.
+ """Return the theoretically cutting frequency of the enzyme.
- frequency of the site."""
+ Frequency of the site, given as 'one cut per x bases' (int).
+ """
return cls.freq
@@ -604,29 +633,31 @@ class NoCut(AbstractCut):
@classmethod
def cut_once(cls):
- """RE.cut_once() -> bool.
+ """Return if the cutting pattern has one cut.
- True if the enzyme cut the sequence one time on each strand."""
+ True if the enzyme cut the sequence one time on each strand.
+ """
return False
@classmethod
def cut_twice(cls):
- """RE.cut_twice() -> bool.
+ """Return if the cutting pattern has two cuts.
- True if the enzyme cut the sequence twice on each strand."""
+ True if the enzyme cut the sequence twice on each strand.
+ """
return False
@classmethod
def _modify(cls, location):
- """RE._modify(location) -> int.
+ """Return a generator that moves the cutting position by 1 (PRIVATE).
- for internal use only.
+ For internal use only.
location is an integer corresponding to the location of the match for
the enzyme pattern in the sequence.
_modify returns the real place where the enzyme will cut.
- example::
+ Example::
EcoRI pattern : GAATTC
EcoRI will cut after the G.
@@ -639,38 +670,39 @@ class NoCut(AbstractCut):
EcoRI cut after the G so:
EcoRI._modify(10) -> 11.
- if the enzyme cut twice _modify will returns two integer corresponding
+ If the enzyme cut twice _modify will returns two integer corresponding
to each cutting site.
"""
yield location
@classmethod
def _rev_modify(cls, location):
- """RE._rev_modify(location) -> generator of int.
+ """Return a generator that moves the cutting position by 1 (PRIVATE).
- for internal use only.
+ For internal use only.
- as _modify for site situated on the antiparallel strand when the
- enzyme is not palindromic
+ As _modify for site situated on the antiparallel strand when the
+ enzyme is not palindromic.
"""
yield location
@classmethod
def characteristic(cls):
- """RE.characteristic() -> tuple.
+ """Return a list of the enzyme's characteristics as tuple.
the tuple contains the attributes:
- fst5 -> first 5' cut ((current strand) or None
- fst3 -> first 3' cut (complementary strand) or None
- scd5 -> second 5' cut (current strand) or None
- scd5 -> second 3' cut (complementary strand) or None
- site -> recognition site.
+ - fst5 -> first 5' cut ((current strand) or None
+ - fst3 -> first 3' cut (complementary strand) or None
+ - scd5 -> second 5' cut (current strand) or None
+ - scd5 -> second 3' cut (complementary strand) or None
+ - site -> recognition site.
+
"""
return None, None, None, None, cls.site
class OneCut(AbstractCut):
- """Implement the methods specific to the enzymes that cut the DNA only once
+ """Implement the methods for enzymes that cut the DNA only once.
Correspond to ncuts values of 2 in emboss_e.###
@@ -679,7 +711,7 @@ class OneCut(AbstractCut):
@classmethod
def cut_once(cls):
- """RE.cut_once() -> bool.
+ """Return if the cutting pattern has one cut.
True if the enzyme cut the sequence one time on each strand.
"""
@@ -687,7 +719,7 @@ class OneCut(AbstractCut):
@classmethod
def cut_twice(cls):
- """RE.cut_twice() -> bool.
+ """Return if the cutting pattern has two cuts.
True if the enzyme cut the sequence twice on each strand.
"""
@@ -695,15 +727,15 @@ class OneCut(AbstractCut):
@classmethod
def _modify(cls, location):
- """RE._modify(location) -> int.
+ """Return a generator that moves the cutting position by 1 (PRIVATE).
- for internal use only.
+ For internal use only.
location is an integer corresponding to the location of the match for
the enzyme pattern in the sequence.
_modify returns the real place where the enzyme will cut.
- example::
+ Example::
EcoRI pattern : GAATTC
EcoRI will cut after the G.
@@ -723,46 +755,49 @@ class OneCut(AbstractCut):
@classmethod
def _rev_modify(cls, location):
- """RE._rev_modify(location) -> generator of int.
+ """Return a generator that moves the cutting position by 1 (PRIVATE).
- for internal use only.
+ For internal use only.
- as _modify for site situated on the antiparallel strand when the
+ As _modify for site situated on the antiparallel strand when the
enzyme is not palindromic
"""
yield location - cls.fst3
@classmethod
def characteristic(cls):
- """RE.characteristic() -> tuple.
+ """Return a list of the enzyme's characteristics as tuple.
- the tuple contains the attributes:
- fst5 -> first 5' cut ((current strand) or None
- fst3 -> first 3' cut (complementary strand) or None
- scd5 -> second 5' cut (current strand) or None
- scd5 -> second 3' cut (complementary strand) or None
- site -> recognition site.
- """
+ The tuple contains the attributes:
+ - fst5 -> first 5' cut ((current strand) or None
+ - fst3 -> first 3' cut (complementary strand) or None
+ - scd5 -> second 5' cut (current strand) or None
+ - scd5 -> second 3' cut (complementary strand) or None
+ - site -> recognition site.
+
+ """
return cls.fst5, cls.fst3, None, None, cls.site
class TwoCuts(AbstractCut):
- """Implement the methods specific to the enzymes that cut the DNA twice
+ """Implement the methods for enzymes that cut the DNA twice.
Correspond to ncuts values of 4 in emboss_e.###
- Internal use only. Not meant to be instantiated."""
+ Internal use only. Not meant to be instantiated.
+ """
@classmethod
def cut_once(cls):
- """RE.cut_once() -> bool.
+ """Return if the cutting pattern has one cut.
- True if the enzyme cut the sequence one time on each strand."""
+ True if the enzyme cut the sequence one time on each strand.
+ """
return False
@classmethod
def cut_twice(cls):
- """RE.cut_twice() -> bool.
+ """Return if the cutting pattern has two cuts.
True if the enzyme cut the sequence twice on each strand.
"""
@@ -770,9 +805,9 @@ class TwoCuts(AbstractCut):
@classmethod
def _modify(cls, location):
- """RE._modify(location) -> int.
+ """Return a generator that moves the cutting position by 1 (PRIVATE).
- for internal use only.
+ For internal use only.
location is an integer corresponding to the location of the match for
the enzyme pattern in the sequence.
@@ -799,7 +834,7 @@ class TwoCuts(AbstractCut):
@classmethod
def _rev_modify(cls, location):
- """RE._rev_modify(location) -> generator of int.
+ """Return a generator that moves the cutting position by 1.
for internal use only.
@@ -811,14 +846,15 @@ class TwoCuts(AbstractCut):
@classmethod
def characteristic(cls):
- """RE.characteristic() -> tuple.
+ """Return a list of the enzyme's characteristics as tuple.
the tuple contains the attributes:
- fst5 -> first 5' cut ((current strand) or None
- fst3 -> first 3' cut (complementary strand) or None
- scd5 -> second 5' cut (current strand) or None
- scd5 -> second 3' cut (complementary strand) or None
- site -> recognition site.
+ - fst5 -> first 5' cut ((current strand) or None
+ - fst3 -> first 3' cut (complementary strand) or None
+ - scd5 -> second 5' cut (current strand) or None
+ - scd5 -> second 3' cut (complementary strand) or None
+ - site -> recognition site.
+
"""
return cls.fst5, cls.fst3, cls.scd5, cls.scd3, cls.site
@@ -831,7 +867,7 @@ class Meth_Dep(AbstractCut):
@classmethod
def is_methylable(cls):
- """RE.is_methylable() -> bool.
+ """Return if recognition site can be methylated.
True if the recognition site is a methylable.
"""
@@ -846,7 +882,7 @@ class Meth_Undep(AbstractCut):
@classmethod
def is_methylable(cls):
- """RE.is_methylable() -> bool.
+ """Return if recognition site can be methylated.
True if the recognition site is a methylable.
"""
@@ -854,7 +890,7 @@ class Meth_Undep(AbstractCut):
class Palindromic(AbstractCut):
- """Implement the methods specific to the enzymes which are palindromic
+ """Implement methods for enzymes with palindromic recognition sites.
palindromic means : the recognition site and its reverse complement are
identical.
@@ -862,15 +898,16 @@ class Palindromic(AbstractCut):
of the sites that it will recognise are not.
for example here : CGAACG
- Internal use only. Not meant to be instantiated."""
+ Internal use only. Not meant to be instantiated.
+ """
@classmethod
def _search(cls):
- """RE._search() -> list.
+ """Return a list of cutting sites of the enzyme in the sequence (PRIVATE).
- for internal use only.
+ For internal use only.
- implement the search method for palindromic and non palindromic enzyme.
+ Implement the search method for palindromic enzymes.
"""
siteloc = cls.dna.finditer(cls.compsite, cls.size)
cls.results = [r for s, g in siteloc for r in cls._modify(s)]
@@ -880,41 +917,44 @@ class Palindromic(AbstractCut):
@classmethod
def is_palindromic(cls):
- """RE.is_palindromic() -> bool.
-
- True if the recognition site is a palindrom.
- """
+ """Return if the enzyme has a palindromic recoginition site."""
return True
class NonPalindromic(AbstractCut):
- """Implement the methods specific to the enzymes which are not palindromic
+ """Implement methods for enzymes with non-palindromic recognition sites.
- palindromic means : the recognition site and its reverse complement are
+ Palindromic means : the recognition site and its reverse complement are
identical.
- Internal use only. Not meant to be instantiated."""
+ Internal use only. Not meant to be instantiated.
+ """
@classmethod
def _search(cls):
- """RE._search() -> list.
+ """Return a list of cutting sites of the enzyme in the sequence (PRIVATE).
- for internal use only.
+ For internal use only.
- implement the search method for palindromic and non palindromic enzyme.
+ Implement the search method for non palindromic enzymes.
"""
- iterator = cls.dna.finditer(cls.compsite, cls.size)
+ compsite_for, compsite_rev = cls.compsite.pattern.split('|')
+ iterator_for = cls.dna.finditer(compsite_for, cls.size)
+ iterator_rev = cls.dna.finditer(compsite_rev, cls.size)
cls.results = []
modif = cls._modify
revmodif = cls._rev_modify
s = str(cls)
cls.on_minus = []
- for start, group in iterator:
+
+ for start, group in iterator_for:
if group(s):
cls.results += [r for r in modif(start)]
- else:
- cls.on_minus += [r for r in revmodif(start)]
- cls.results += cls.on_minus
+ s += '_as'
+ for start, group in iterator_rev:
+ if group(s):
+ cls.results += [r for r in revmodif(start)]
+
if cls.results:
cls.results.sort()
cls._drop()
@@ -922,16 +962,12 @@ class NonPalindromic(AbstractCut):
@classmethod
def is_palindromic(cls):
- """RE.is_palindromic() -> bool.
-
- True if the recognition site is a palindrom.
- """
+ """Return if the enzyme has a palindromic recoginition site."""
return False
class Unknown(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- is unknown.
+ """Implement methods for enzymes that produce unknown overhangs.
These enzymes are also NotDefined and NoCut.
@@ -940,15 +976,16 @@ class Unknown(AbstractCut):
@classmethod
def catalyse(cls, dna, linear=True):
- """RE.catalyse(dna, linear=True) -> tuple of DNA.
+ """List the sequence fragments after cutting dna with enzyme.
+
RE.catalyze(dna, linear=True) -> tuple of DNA.
- return a tuple of dna as will be produced by using RE to restrict the
+ Return a tuple of dna as will be produced by using RE to restrict the
dna.
dna must be a Bio.Seq.Seq instance or a Bio.Seq.MutableSeq instance.
- if linear is False, the sequence is considered to be circular and the
+ If linear is False, the sequence is considered to be circular and the
output will be modified accordingly.
"""
raise NotImplementedError('%s restriction is unknown.'
@@ -957,73 +994,72 @@ class Unknown(AbstractCut):
@classmethod
def is_blunt(cls):
- """RE.is_blunt() -> bool.
+ """Return if the enzyme produces blunt ends.
True if the enzyme produces blunt end.
- see also:
- RE.is_3overhang()
- RE.is_5overhang()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_5overhang()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_5overhang(cls):
- """RE.is_5overhang() -> bool.
+ """Return if the enzymes produces 5' overhanging ends.
True if the enzyme produces 5' overhang sticky end.
- see also:
- RE.is_3overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_3overhang(cls):
- """RE.is_3overhang() -> bool.
+ """Return if the enzyme produces 3' overhanging ends.
True if the enzyme produces 3' overhang sticky end.
- see also:
- RE.is_5overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_5overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def overhang(cls):
- """RE.overhang() -> str. type of overhang of the enzyme.,
+ """Return the type of the enzyme's overhang as string.
- can be "3' overhang", "5' overhang", "blunt", "unknown"
+ Can be "3' overhang", "5' overhang", "blunt", "unknown".
"""
return 'unknown'
@classmethod
def compatible_end(cls):
- """RE.compatible_end() -> list.
-
- list of all the enzymes that share compatible end with RE.
- """
+ """List all enzymes that produce compatible ends for the enzyme."""
return []
@classmethod
def _mod1(cls, other):
- """RE._mod1(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only.
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
return False
class Blunt(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- is blunt.
+ """Implement methods for enzymes that produce blunt ends.
The enzyme cuts the + strand and the - strand of the DNA at the same
place.
@@ -1033,15 +1069,16 @@ class Blunt(AbstractCut):
@classmethod
def catalyse(cls, dna, linear=True):
- """RE.catalyse(dna, linear=True) -> tuple of DNA.
+ """List the sequence fragments after cutting dna with enzyme.
+
RE.catalyze(dna, linear=True) -> tuple of DNA.
- return a tuple of dna as will be produced by using RE to restrict the
+ Return a tuple of dna as will be produced by using RE to restrict the
dna.
dna must be a Bio.Seq.Seq instance or a Bio.Seq.MutableSeq instance.
- if linear is False, the sequence is considered to be circular and the
+ If linear is False, the sequence is considered to be circular and the
output will be modified accordingly.
"""
r = cls.search(dna, linear)
@@ -1083,57 +1120,57 @@ class Blunt(AbstractCut):
@classmethod
def is_blunt(cls):
- """RE.is_blunt() -> bool.
+ """Return if the enzyme produces blunt ends.
True if the enzyme produces blunt end.
- see also:
- RE.is_3overhang()
- RE.is_5overhang()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_5overhang()
+ - RE.is_unknown()
+
"""
return True
@classmethod
def is_5overhang(cls):
- """RE.is_5overhang() -> bool.
+ """Return if the enzymes produces 5' overhanging ends.
True if the enzyme produces 5' overhang sticky end.
- see also:
- RE.is_3overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_3overhang(cls):
- """RE.is_3overhang() -> bool.
+ """Return if the enzyme produces 3' overhanging ends.
True if the enzyme produces 3' overhang sticky end.
- see also:
- RE.is_5overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_5overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def overhang(cls):
- """RE.overhang() -> str. type of overhang of the enzyme.,
+ """Return the type of the enzyme's overhang as string.
- can be "3' overhang", "5' overhang", "blunt", "unknown"
+ Can be "3' overhang", "5' overhang", "blunt", "unknown".
"""
return 'blunt'
@classmethod
def compatible_end(cls, batch=None):
- """RE.compatible_end() -> list.
-
- list of all the enzymes that share compatible end with RE.
- """
+ """List all enzymes that produce compatible ends for the enzyme."""
if not batch:
batch = AllEnzymes
r = sorted(x for x in iter(AllEnzymes) if x.is_blunt())
@@ -1141,18 +1178,17 @@ class Blunt(AbstractCut):
@staticmethod
def _mod1(other):
- """RE._mod1(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
return issubclass(other, Blunt)
class Ov5(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- is recessed in 3'.
+ """Implement methods for enzymes that produce 5' overhanging ends.
The enzyme cuts the + strand after the - strand of the DNA.
@@ -1161,15 +1197,16 @@ class Ov5(AbstractCut):
@classmethod
def catalyse(cls, dna, linear=True):
- """RE.catalyse(dna, linear=True) -> tuple of DNA.
+ """List the sequence fragments after cutting dna with enzyme.
+
RE.catalyze(dna, linear=True) -> tuple of DNA.
- return a tuple of dna as will be produced by using RE to restrict the
+ Return a tuple of dna as will be produced by using RE to restrict the
dna.
dna must be a Bio.Seq.Seq instance or a Bio.Seq.MutableSeq instance.
- if linear is False, the sequence is considered to be circular and the
+ If linear is False, the sequence is considered to be circular and the
output will be modified accordingly.
"""
r = cls.search(dna, linear)
@@ -1211,56 +1248,57 @@ class Ov5(AbstractCut):
@classmethod
def is_blunt(cls):
- """RE.is_blunt() -> bool.
+ """Return if the enzyme produces blunt ends.
True if the enzyme produces blunt end.
- see also:
- RE.is_3overhang()
- RE.is_5overhang()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_5overhang()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_5overhang(cls):
- """RE.is_5overhang() -> bool.
+ """Return if the enzymes produces 5' overhanging ends.
True if the enzyme produces 5' overhang sticky end.
- see also:
- RE.is_3overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return True
@classmethod
def is_3overhang(cls):
- """RE.is_3overhang() -> bool.
+ """Return if the enzyme produces 3' overhanging ends.
True if the enzyme produces 3' overhang sticky end.
- see also:
- RE.is_5overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_5overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def overhang(cls):
- """RE.overhang() -> str. type of overhang of the enzyme.,
+ """Return the type of the enzyme's overhang as string.
- can be "3' overhang", "5' overhang", "blunt", "unknown"
+ Can be "3' overhang", "5' overhang", "blunt", "unknown".
"""
return "5' overhang"
@classmethod
def compatible_end(cls, batch=None):
- """RE.compatible_end() -> list.
-
- list of all the enzymes that share compatible end with RE."""
+ """List all enzymes that produce compatible ends for the enzyme."""
if not batch:
batch = AllEnzymes
r = sorted(x for x in iter(AllEnzymes) if x.is_5overhang() and
@@ -1269,11 +1307,11 @@ class Ov5(AbstractCut):
@classmethod
def _mod1(cls, other):
- """RE._mod1(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only.
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
if issubclass(other, Ov5):
return cls._mod2(other)
@@ -1282,8 +1320,7 @@ class Ov5(AbstractCut):
class Ov3(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- is recessed in 5'.
+ """Implement methods for enzymes that produce 3' overhanging ends.
The enzyme cuts the - strand after the + strand of the DNA.
@@ -1292,15 +1329,16 @@ class Ov3(AbstractCut):
@classmethod
def catalyse(cls, dna, linear=True):
- """RE.catalyse(dna, linear=True) -> tuple of DNA.
+ """List the sequence fragments after cutting dna with enzyme.
+
RE.catalyze(dna, linear=True) -> tuple of DNA.
- return a tuple of dna as will be produced by using RE to restrict the
+ Return a tuple of dna as will be produced by using RE to restrict the
dna.
dna must be a Bio.Seq.Seq instance or a Bio.Seq.MutableSeq instance.
- if linear is False, the sequence is considered to be circular and the
+ If linear is False, the sequence is considered to be circular and the
output will be modified accordingly.
"""
r = cls.search(dna, linear)
@@ -1342,57 +1380,57 @@ class Ov3(AbstractCut):
@classmethod
def is_blunt(cls):
- """RE.is_blunt() -> bool.
+ """Return if the enzyme produces blunt ends.
True if the enzyme produces blunt end.
- see also:
- RE.is_3overhang()
- RE.is_5overhang()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_5overhang()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_5overhang(cls):
- """RE.is_5overhang() -> bool.
+ """Return if the enzymes produces 5' overhanging ends.
True if the enzyme produces 5' overhang sticky end.
- see also:
- RE.is_3overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_3overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_3overhang(cls):
- """RE.is_3overhang() -> bool.
+ """Return if the enzyme produces 3' overhanging ends.
True if the enzyme produces 3' overhang sticky end.
- see also:
- RE.is_5overhang()
- RE.is_blunt()
- RE.is_unknown()
+ Related methods:
+ - RE.is_5overhang()
+ - RE.is_blunt()
+ - RE.is_unknown()
+
"""
return True
@classmethod
def overhang(cls):
- """RE.overhang() -> str. type of overhang of the enzyme.,
+ """Return the type of the enzyme's overhang as string.
- can be "3' overhang", "5' overhang", "blunt", "unknown"
+ Can be "3' overhang", "5' overhang", "blunt", "unknown".
"""
return "3' overhang"
@classmethod
def compatible_end(cls, batch=None):
- """RE.compatible_end() -> list.
-
- list of all the enzymes that share compatible end with RE.
- """
+ """List all enzymes that produce compatible ends for the enzyme."""
if not batch:
batch = AllEnzymes
r = sorted(x for x in iter(AllEnzymes) if x.is_3overhang() and
@@ -1401,11 +1439,11 @@ class Ov3(AbstractCut):
@classmethod
def _mod1(cls, other):
- """RE._mod1(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only.
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
#
# called by RE._mod1(other) when the one of the enzyme is ambiguous
@@ -1417,25 +1455,25 @@ class Ov3(AbstractCut):
class Defined(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- and the cut are not variable.
+ """Implement methods for enzymes with defined recognition site and cut.
Typical example : EcoRI -> G^AATT_C
The overhang will always be AATT
Notes:
- Blunt enzymes are always defined. even if there site is GGATCCNNN^_N
- There overhang is always the same : blunt!
+ Blunt enzymes are always defined. Even if their site is GGATCCNNN^_N
+ Their overhang is always the same : blunt!
- Internal use only. Not meant to be instantiated."""
+ Internal use only. Not meant to be instantiated.
+ """
@classmethod
def _drop(cls):
- """RE._drop() -> list.
+ """Remove cuts that are outsite of the sequence (PRIVATE).
- for internal use only.
+ For internal use only.
- drop the site that are situated outside the sequence in linear
- sequence. modify the index for site in circular sequences.
+ Drop the site that are situated outside the sequence in linear
+ sequence. Modify the index for site in circular sequences.
"""
#
# remove or modify the results that are outside the sequence.
@@ -1449,8 +1487,8 @@ class Defined(AbstractCut):
drop = itertools.dropwhile
take = itertools.takewhile
if cls.dna.is_linear():
- cls.results = [x for x in drop(lambda x:x < 1, cls.results)]
- cls.results = [x for x in take(lambda x:x < length, cls.results)]
+ cls.results = [x for x in drop(lambda x:x <= 1, cls.results)]
+ cls.results = [x for x in take(lambda x:x <= length, cls.results)]
else:
for index, location in enumerate(cls.results):
if location < 1:
@@ -1466,52 +1504,56 @@ class Defined(AbstractCut):
@classmethod
def is_defined(cls):
- """RE.is_defined() -> bool.
+ """Return if recognition sequence and cut are defined.
True if the sequence recognised and cut is constant,
i.e. the recognition site is not degenerated AND the enzyme cut inside
the site.
- see also:
- RE.is_ambiguous()
- RE.is_unknown()
+ Related methods:
+ - RE.is_ambiguous()
+ - RE.is_unknown()
+
"""
return True
@classmethod
def is_ambiguous(cls):
- """RE.is_ambiguous() -> bool.
+ """Return if recognition sequence and cut may be ambiguous.
True if the sequence recognised and cut is ambiguous,
i.e. the recognition site is degenerated AND/OR the enzyme cut outside
the site.
- see also:
- RE.is_defined()
- RE.is_unknown()
+ Related methods:
+ - RE.is_defined()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_unknown(cls):
- """RE.is_unknown() -> bool.
+ """Return if recognition sequence is unknown.
True if the sequence is unknown,
i.e. the recognition site has not been characterised yet.
- see also:
- RE.is_defined()
- RE.is_ambiguous()
+ Related methods:
+ - RE.is_defined()
+ - RE.is_ambiguous()
+
"""
return False
@classmethod
def elucidate(cls):
- """RE.elucidate() -> str
+ """Return a string representing the recognition site and cuttings.
- return a representation of the site with the cut on the (+) strand
+ Return a representation of the site with the cut on the (+) strand
represented as '^' and the cut on the (-) strand as '_'.
ie:
+
>>> EcoRI.elucidate() # 5' overhang
'G^AATT_C'
>>> KpnI.elucidate() # 3' overhang
@@ -1521,6 +1563,7 @@ class Defined(AbstractCut):
>>> SnaI.elucidate() # NotDefined, cut profile unknown.
'? GTATAC ?'
>>>
+
"""
f5 = cls.fst5
f3 = cls.fst3
@@ -1545,11 +1588,11 @@ class Defined(AbstractCut):
@classmethod
def _mod2(cls, other):
- """RE._mod2(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only.
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
#
# called by RE._mod1(other) when the one of the enzyme is ambiguous
@@ -1563,34 +1606,34 @@ class Defined(AbstractCut):
class Ambiguous(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- is variable.
+ """Implement methods for enzymes that produce variable overhangs.
Typical example : BstXI -> CCAN_NNNN^NTGG
The overhang can be any sequence of 4 bases.
+
Notes:
- Blunt enzymes are always defined. even if there site is GGATCCNNN^_N
- There overhang is always the same : blunt!
+ Blunt enzymes are always defined. Even if their site is GGATCCNNN^_N
+ Their overhang is always the same : blunt!
Internal use only. Not meant to be instantiated.
+
"""
@classmethod
def _drop(cls):
- """RE._drop() -> list.
+ """Remove cuts that are outsite of the sequence (PRIVATE).
- for internal use only.
+ For internal use only.
- drop the site that are situated outside the sequence in linear
- sequence. modify the index for site in circular sequences.
+ Drop the site that are situated outside the sequence in linear
+ sequence. Modify the index for site in circular sequences.
"""
length = len(cls.dna)
drop = itertools.dropwhile
take = itertools.takewhile
if cls.dna.is_linear():
- cls.results = [x for x in drop(lambda x: x < 1, cls.results)]
- cls.results = [x for x in take(lambda x: x <
- length, cls.results)]
+ cls.results = [x for x in drop(lambda x: x <= 1, cls.results)]
+ cls.results = [x for x in take(lambda x: x <= length, cls.results)]
else:
for index, location in enumerate(cls.results):
if location < 1:
@@ -1606,52 +1649,55 @@ class Ambiguous(AbstractCut):
@classmethod
def is_defined(cls):
- """RE.is_defined() -> bool.
+ """Return if recognition sequence and cut are defined.
True if the sequence recognised and cut is constant,
i.e. the recognition site is not degenerated AND the enzyme cut inside
the site.
- see also:
- RE.is_ambiguous()
- RE.is_unknown()
+ Related methods:
+ - RE.is_ambiguous()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_ambiguous(cls):
- """RE.is_ambiguous() -> bool.
+ """Return if recognition sequence and cut may be ambiguous.
True if the sequence recognised and cut is ambiguous,
i.e. the recognition site is degenerated AND/OR the enzyme cut outside
the site.
- see also:
- RE.is_defined()
- RE.is_unknown()
+ Related methods:
+ - RE.is_defined()
+ - RE.is_unknown()
+
"""
return True
@classmethod
def is_unknown(cls):
- """RE.is_unknown() -> bool.
+ """Return if recognition sequence is unknown.
True if the sequence is unknown,
i.e. the recognition site has not been characterised yet.
- see also:
- RE.is_defined()
- RE.is_ambiguous()
+ Related methods:
+ - RE.is_defined()
+ - RE.is_ambiguous()
+
"""
return False
@classmethod
def _mod2(cls, other):
- """RE._mod2(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only.
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
#
# called by RE._mod1(other) when the one of the enzyme is ambiguous
@@ -1675,11 +1721,12 @@ class Ambiguous(AbstractCut):
@classmethod
def elucidate(cls):
- """RE.elucidate() -> str
+ """Return a string representing the recognition site and cuttings.
- return a representation of the site with the cut on the (+) strand
+ Return a representation of the site with the cut on the (+) strand
represented as '^' and the cut on the (-) strand as '_'.
ie:
+
>>> EcoRI.elucidate() # 5' overhang
'G^AATT_C'
>>> KpnI.elucidate() # 3' overhang
@@ -1689,6 +1736,7 @@ class Ambiguous(AbstractCut):
>>> SnaI.elucidate() # NotDefined, cut profile unknown.
'? GTATAC ?'
>>>
+
"""
f5 = cls.fst5
f3 = cls.fst3
@@ -1744,8 +1792,7 @@ class Ambiguous(AbstractCut):
class NotDefined(AbstractCut):
- """Implement the methods specific to the enzymes for which the overhang
- is not characterised.
+ """Implement methods for enzymes with non-characterized overhangs.
Correspond to NoCut and Unknown.
@@ -1754,12 +1801,12 @@ class NotDefined(AbstractCut):
@classmethod
def _drop(cls):
- """RE._drop() -> list.
+ """Remove cuts that are outsite of the sequence (PRIVATE).
- for internal use only.
+ For internal use only.
- drop the site that are situated outside the sequence in linear
- sequence. modify the index for site in circular sequences.
+ Drop the site that are situated outside the sequence in linear
+ sequence. Modify the index for site in circular sequences.
"""
if cls.dna.is_linear():
return
@@ -1779,51 +1826,55 @@ class NotDefined(AbstractCut):
@classmethod
def is_defined(cls):
- """RE.is_defined() -> bool.
+ """Return if recognition sequence and cut are defined.
True if the sequence recognised and cut is constant,
i.e. the recognition site is not degenerated AND the enzyme cut inside
the site.
- see also:
- RE.is_ambiguous()
- RE.is_unknown()
+ Related methods:
+ - RE.is_ambiguous()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_ambiguous(cls):
- """RE.is_ambiguous() -> bool.
+ """Return if recognition sequence and cut may be ambiguous.
True if the sequence recognised and cut is ambiguous,
i.e. the recognition site is degenerated AND/OR the enzyme cut outside
the site.
- see also:
- RE.is_defined()
- RE.is_unknown()
+ Related methods:
+ - RE.is_defined()
+ - RE.is_unknown()
+
"""
return False
@classmethod
def is_unknown(cls):
- """RE.is_unknown() -> bool.
+ """Return if recognition sequence is unknown.
True if the sequence is unknown,
i.e. the recognition site has not been characterised yet.
- see also:
- RE.is_defined()
- RE.is_ambiguous()"""
+ Related methods:
+ - RE.is_defined()
+ - RE.is_ambiguous()
+
+ """
return True
@classmethod
def _mod2(cls, other):
- """RE._mod2(other) -> bool.
+ """Test if other enzyme produces compatible ends for enzyme (PRIVATE).
- for internal use only
+ For internal use only.
- test for the compatibility of restriction ending of RE and other.
+ Test for the compatibility of restriction ending of RE and other.
"""
#
# Normally we should not arrive here. But well better safe than
@@ -1837,11 +1888,12 @@ class NotDefined(AbstractCut):
@classmethod
def elucidate(cls):
- """RE.elucidate() -> str
+ """Return a string representing the recognition site and cuttings.
- return a representation of the site with the cut on the (+) strand
+ Return a representation of the site with the cut on the (+) strand
represented as '^' and the cut on the (-) strand as '_'.
ie:
+
>>> EcoRI.elucidate() # 5' overhang
'G^AATT_C'
>>> KpnI.elucidate() # 3' overhang
@@ -1851,47 +1903,45 @@ class NotDefined(AbstractCut):
>>> SnaI.elucidate() # NotDefined, cut profile unknown.
'? GTATAC ?'
>>>
+
"""
return '? %s ?' % cls.site
class Commercially_available(AbstractCut):
+ """Implement methods for enzymes which are commercially available.
+
+ Internal use only. Not meant to be instantiated.
+ """
+
#
# Recent addition to Rebase make this naming convention uncertain.
# May be better to says enzymes which have a supplier.
#
- """Implement the methods specific to the enzymes which are commercially
- available.
-
- Internal use only. Not meant to be instantiated.
- """
@classmethod
def suppliers(cls):
- """RE.suppliers() -> print the suppliers of RE."""
+ """Print a list of suppliers of the enzyme."""
for s in cls.suppl:
print(suppliers_dict[s][0] + ',')
return
@classmethod
def supplier_list(cls):
- """RE.supplier_list() -> list.
-
- list of the supplier names for RE.
- """
+ """Return a list of suppliers of the enzyme."""
return [v[0] for k, v in suppliers_dict.items() if k in cls.suppl]
@classmethod
def buffers(cls, supplier):
- """RE.buffers(supplier) -> string.
+ """Return the recommended buffer of the supplier for this enzyme.
- not implemented yet.
+ Not implemented yet.
"""
return
@classmethod
def is_comm(cls):
- """RE.iscomm() -> bool.
+ """Return if enzyme is commercially available.
True if RE has suppliers.
"""
@@ -1899,36 +1949,32 @@ class Commercially_available(AbstractCut):
class Not_available(AbstractCut):
- """Implement the methods specific to the enzymes which are not commercially
- available.
+ """Implement methods for enzymes which are not commercially available.
Internal use only. Not meant to be instantiated.
"""
@staticmethod
def suppliers():
- """RE.suppliers() -> print the suppliers of RE."""
+ """Print a list of suppliers of the enzyme."""
return None
@classmethod
def supplier_list(cls):
- """RE.supplier_list() -> list.
-
- list of the supplier names for RE.
- """
+ """Return a list of suppliers of the enzyme."""
return []
@classmethod
def buffers(cls, supplier):
- """RE.buffers(supplier) -> string.
+ """Return the recommended buffer of the supplier for this enzyme.
- not implemented yet.
+ Not implemented yet.
"""
raise TypeError("Enzyme not commercially available.")
@classmethod
def is_comm(cls):
- """RE.iscomm() -> bool.
+ """Return if enzyme is commercially available.
True if RE has suppliers.
"""
@@ -1943,14 +1989,16 @@ class Not_available(AbstractCut):
class RestrictionBatch(set):
+ """Class for operations on more than one enzyme."""
def __init__(self, first=(), suppliers=()):
- """RestrictionBatch([sequence]) -> new RestrictionBatch."""
+ """Initialize empty RB or pre-fill with enzymes (from supplier)."""
first = [self.format(x) for x in first]
first += [eval(x) for n in suppliers for x in suppliers_dict[n][1]]
set.__init__(self, first)
self.mapping = dict.fromkeys(self)
self.already_mapped = None
+ self.suppliers = [x for x in suppliers if x in suppliers_dict]
def __str__(self):
if len(self) < 5:
@@ -1970,17 +2018,33 @@ class RestrictionBatch(set):
return set.__contains__(self, other)
def __div__(self, other):
+ """Override '/' operator to use as search method."""
return self.search(other)
def __rdiv__(self, other):
+ """Override division with reversed operands to use as search method."""
+ return self.search(other)
+
+ def __truediv__(self, other):
+ """Override Python 3 division operator to use as search method.
+
+ Like __div__.
+ """
+ return self.search(other)
+
+ def __rtruediv__(self, other):
+ """As __truediv___, with reversed operands.
+
+ Like __rdiv__.
+ """
return self.search(other)
def get(self, enzyme, add=False):
- """B.get(enzyme[, add]) -> enzyme class.
+ """Check if enzyme is in batch and return it.
- if add is True and enzyme is not in B add enzyme to B.
- if add is False (which is the default) only return enzyme.
- if enzyme is not a RestrictionType or can not be evaluated to
+ If add is True and enzyme is not in batch add enzyme to batch.
+ If add is False (which is the default) only return enzyme.
+ If enzyme is not a RestrictionType or can not be evaluated to
a RestrictionType, raise a ValueError.
"""
e = self.format(enzyme)
@@ -1994,9 +2058,9 @@ class RestrictionBatch(set):
% e.__name__)
def lambdasplit(self, func):
- """B.lambdasplit(func) -> RestrictionBatch .
+ """Filter enzymes in batch with supplied function.
- the new batch will contains only the enzymes for which
+ The new batch will contain only the enzymes for which
func return True.
"""
d = [x for x in filter(func, self)]
@@ -2005,12 +2069,12 @@ class RestrictionBatch(set):
return new
def add_supplier(self, letter):
- """B.add_supplier(letter) -> add a new set of enzyme to B.
+ """Add all enzymes from a given supplier to batch.
letter represents the suppliers as defined in the dictionary
RestrictionDictionary.suppliers
- return None.
- raise a KeyError if letter is not a supplier code.
+ Returns None.
+ Raise a KeyError if letter is not a supplier code.
"""
supplier = suppliers_dict[letter]
self.suppliers.append(letter)
@@ -2019,56 +2083,60 @@ class RestrictionBatch(set):
return
def current_suppliers(self):
- """B.current_suppliers() -> add a new set of enzyme to B.
+ """List the current suppliers for the restriction batch.
- return a sorted list of the suppliers which have been used to
+ Return a sorted list of the suppliers which have been used to
create the batch.
"""
suppl_list = sorted(suppliers_dict[x][0] for x in self.suppliers)
return suppl_list
def __iadd__(self, other):
- """ b += other -> add other to b, check the type of other."""
+ """Override '+=' for use with sets.
+
+ b += other -> add other to b, check the type of other.
+ """
self.add(other)
return self
def __add__(self, other):
- """ b + other -> new RestrictionBatch."""
+ """Overide '+' for use with sets.
+
+ b + other -> new RestrictionBatch.
+ """
new = self.__class__(self)
new.add(other)
return new
def remove(self, other):
- """B.remove(other) -> remove other from B if other is a
- RestrictionType.
+ """Remove enzyme from restriction batch.
Safe set.remove method. Verify that other is a RestrictionType or can
be evaluated to a RestrictionType.
- raise a ValueError if other can not be evaluated to a RestrictionType.
- raise a KeyError if other is not in B.
+ Raise a ValueError if other can not be evaluated to a RestrictionType.
+ Raise a KeyError if other is not in B.
"""
return set.remove(self, self.format(other))
def add(self, other):
- """B.add(other) -> add other to B if other is a RestrictionType.
+ """Add a restriction enzyme to the restriction batch.
Safe set.add method. Verify that other is a RestrictionType or can be
evaluated to a RestrictionType.
- raise a ValueError if other can not be evaluated to a RestrictionType.
+ Raise a ValueError if other can not be evaluated to a RestrictionType.
"""
return set.add(self, self.format(other))
def add_nocheck(self, other):
- """B.add_nocheck(other) -> add other to B. don't check type of other.
- """
+ """Add restriction enzyme to batch without checking its type."""
return set.add(self, other)
def format(self, y):
- """B.format(y) -> RestrictionType or raise ValueError.
+ """Evaluate enzyme (name) and return it (as RestrictionType).
- if y is a RestrictionType return y
- if y can be evaluated to a RestrictionType return eval(y)
- raise a Value Error in all other case.
+ If y is a RestrictionType return y.
+ If y can be evaluated to a RestrictionType return eval(y).
+ Raise a ValueError in all other case.
"""
try:
if isinstance(y, RestrictionType):
@@ -2082,17 +2150,19 @@ class RestrictionBatch(set):
raise ValueError('%s is not a RestrictionType' % y.__class__)
def is_restriction(self, y):
- """B.is_restriction(y) -> bool.
+ """Return if enzyme (name) is a known enzyme.
- True is y or eval(y) is a RestrictionType.
+ True if y or eval(y) is a RestrictionType.
"""
return (isinstance(y, RestrictionType) or
isinstance(eval(str(y)), RestrictionType))
def split(self, *classes, **bool):
- """B.split(class, [class.__name__ = True]) -> new RestrictionBatch.
+ """Extract enzymes of a certain class and put in new RestrictionBatch.
+
+ B.split(class, [class.__name__ = True]) -> new RestrictionBatch.
- it works but it is slow, so it has really an interest when splitting
+ It works but it is slow, so it has really an interest when splitting
over multiple conditions.
"""
def splittest(element):
@@ -2114,38 +2184,38 @@ class RestrictionBatch(set):
return new
def elements(self):
- """B.elements() -> tuple.
+ """List the enzymes of the RestrictionBatch as list of strings.
- give all the names of the enzymes in B sorted alphabetically.
+ Give all the names of the enzymes in B sorted alphabetically.
"""
l = sorted(str(e) for e in self)
return l
def as_string(self):
- """B.as_string() -> list.
+ """List the names of the enzymes of the RestrictionBatch.
- return a list of the name of the elements of B.
+ Return a list of the name of the elements of the batch.
"""
return [str(e) for e in self]
@classmethod
def suppl_codes(cls):
- """B.suppl_codes() -> dict
+ """Return a dicionary with supplier codes.
- letter code for the suppliers
+ Letter code for the suppliers.
"""
supply = dict((k, v[0]) for k, v in suppliers_dict.items())
return supply
@classmethod
def show_codes(cls):
- """B.show_codes() -> letter codes for the suppliers"""
+ """Print a list of supplier codes."""
supply = [' = '.join(i) for i in cls.suppl_codes().items()]
print('\n'.join(supply))
return
def search(self, dna, linear=True):
- """B.search(dna) -> dict."""
+ """Return a dic of cutting sites in the seq for the batch enzymes."""
#
# here we replace the search method of the individual enzymes
# with one unique testing method.
@@ -2184,15 +2254,21 @@ class RestrictionBatch(set):
class Analysis(RestrictionBatch, PrintFormat):
+ """Provide methods for enhanced analysis and pretty printing."""
def __init__(self, restrictionbatch=RestrictionBatch(), sequence=DNA(''),
linear=True):
- """Analysis([restrictionbatch [, sequence] linear=True]) -> New Analysis class.
+ """Initialize an Analysis with RestrictionBatch and sequence.
+
+ Analysis([restrictionbatch [, sequence] linear=True])
+ -> New Analysis class.
- For most of the method of this class if a dictionary is given it will
+ For most of the methods of this class if a dictionary is given it will
be used as the base to calculate the results.
- If no dictionary is given a new analysis using the Restriction Batch
- which has been given when the Analysis class has been instantiated."""
+ If no dictionary is given a new analysis using the RestrictionBatch
+ which has been given when the Analysis class has been instantiated,
+ will be carried out and used.
+ """
RestrictionBatch.__init__(self, restrictionbatch)
self.rb = restrictionbatch
self.sequence = sequence
@@ -2205,17 +2281,20 @@ class Analysis(RestrictionBatch, PrintFormat):
(repr(self.rb), repr(self.sequence), self.linear)
def _sub_set(self, wanted):
- """A._sub_set(other_set) -> dict.
+ """Filter result for keys which are in wanted.
+
+ A._sub_set(other_set) -> dict.
Internal use only.
- screen the results through wanted set.
+ Screen the results through wanted set.
Keep only the results for which the enzymes is in wanted set.
"""
+ # It seems that this method is not used in the whole class!
return dict((k, v) for k, v in self.mapping.items() if k in wanted)
def _boundaries(self, start, end):
- """A._boundaries(start, end) -> tuple.
+ """Set boundaries to correct values.
Format the boundaries for use with the methods that limit the
search to only part of the sequence given to analyse.
@@ -2224,49 +2303,59 @@ class Analysis(RestrictionBatch, PrintFormat):
raise TypeError('expected int, got %s instead' % type(start))
if not isinstance(end, int):
raise TypeError('expected int, got %s instead' % type(end))
- if start < 1:
+ if start < 1: # Looks like this tries to do python list like indexing
start += len(self.sequence)
if end < 1:
end += len(self.sequence)
if start < end:
pass
else:
- start, end == end, start
- if start < 1:
- start == 1
+ start, end = end, start
if start < end:
return start, end, self._test_normal
- else:
- return start, end, self._test_reverse
def _test_normal(self, start, end, site):
- """A._test_normal(start, end, site) -> bool.
+ """Test if site is between start and end.
Internal use only
- Test if site is in between start and end.
"""
return start <= site < end
def _test_reverse(self, start, end, site):
- """A._test_reverse(start, end, site) -> bool.
+ """Test if site is between end and start (for circular sequences).
- Internal use only
- Test if site is in between end and start (for circular sequences).
+ Internal use only.
"""
return start <= site <= len(self.sequence) or 1 <= site < end
- def print_that(self, dct=None, title='', s1=''):
- """A.print_that([dct[, title[, s1]]]) -> print the results from dct.
+ def format_output(self, dct=None, title='', s1=''):
+ """Collect data and pass to PrintFormat.
+
+ A.format_output([dct[, title[, s1]]]) -> dct.
If dct is not given the full dictionary is used.
"""
if not dct:
dct = self.mapping
- print("")
- return PrintFormat.print_that(self, dct, title, s1)
+ return PrintFormat.format_output(self, dct, title, s1)
+
+ def print_that(self, dct=None, title='', s1=''):
+ """Print the output of the analysis.
+
+ A.print_that([dct[, title[, s1[,print_]]]]) -> print the results
+ from dct.
+
+ If dct is not given the full dictionary is used.
+ s1: Title for non-cutting enzymes
+ This method prints the output of A.format_output() and it is here
+ for backwards compatibility.
+ """
+ print(self.format_output(dct, title, s1))
def change(self, **what):
- """A.change(**attribute_name) -> Change attribute of Analysis.
+ """Change parameters of print output.
+
+ `A.change(**attribute_name)` -> Change attribute of Analysis.
It is possible to change the width of the shell by setting
self.ConsoleWidth to what you want.
@@ -2282,128 +2371,100 @@ class Analysis(RestrictionBatch, PrintFormat):
setattr(self, k, v)
self.Cmodulo = self.ConsoleWidth % self.NameWidth
self.PrefWidth = self.ConsoleWidth - self.Cmodulo
- elif k is 'sequence':
+ elif k == 'sequence':
setattr(self, 'sequence', v)
self.search(self.sequence, self.linear)
- elif k is 'rb':
+ elif k == 'rb':
self = Analysis.__init__(self, v, self.sequence, self.linear)
- elif k is 'linear':
+ elif k == 'linear':
setattr(self, 'linear', v)
self.search(self.sequence, v)
elif k in ('Indent', 'Maxsize'):
setattr(self, k, v)
elif k in ('Cmodulo', 'PrefWidth'):
raise AttributeError(
- 'To change %s, change NameWidth and/or ConsoleWidth'
- % name)
+ 'To change %s, change NameWidth and/or ConsoleWidth' % k)
else:
- raise AttributeError(
- 'Analysis has no attribute %s' % name)
+ raise AttributeError('Analysis has no attribute %s' % k)
return
def full(self, linear=True):
- """A.full() -> dict.
+ """Perform analysis with all enzymes of batch and return all results.
+
+ A.full() -> dict.
Full Restriction Map of the sequence.
"""
return self.mapping
def blunt(self, dct=None):
- """A.blunt([dct]) -> dict.
-
- Only the enzymes which have a 3'overhang restriction site.
- """
+ """Return only cuts that have blunt ends."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if k.is_blunt())
def overhang5(self, dct=None):
- """A.overhang5([dct]) -> dict.
-
- Only the enzymes which have a 5' overhang restriction site.
- """
+ """Return only cuts that have 5' overhangs."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if k.is_5overhang())
def overhang3(self, dct=None):
- """A.Overhang3([dct]) -> dict.
-
- Only the enzymes which have a 3'overhang restriction site.
- """
+ """Return only cuts that have 3' overhangs."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if k.is_3overhang())
def defined(self, dct=None):
- """A.defined([dct]) -> dict.
-
- Only the enzymes that have a defined restriction site in Rebase.
- """
+ """Return only results from enzymes that produce defined overhangs."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if k.is_defined())
def with_sites(self, dct=None):
- """A.with_sites([dct]) -> dict.
-
- Enzymes which have at least one site in the sequence.
- """
+ """Return only results from enzyme with at least one cut."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if v)
def without_site(self, dct=None):
- """A.without_site([dct]) -> dict.
-
- Enzymes which have no site in the sequence.
- """
+ """Return only results from enzymes that don't cut the sequence."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if not v)
def with_N_sites(self, N, dct=None):
- """A.With_N_Sites(N [, dct]) -> dict.
-
- Enzymes which cut N times the sequence.
- """
+ """Return only results from enzymes that cut the sequence N times."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items()if len(v) == N)
def with_number_list(self, list, dct=None):
+ """Return only results from enzymes that cut (x,y,z,...) times."""
if not dct:
dct = self.mapping
return dict((k, v) for k, v in dct.items() if len(v) in list)
def with_name(self, names, dct=None):
- """A.with_name(list_of_names [, dct]) ->
-
- Limit the search to the enzymes named in list_of_names.
- """
+ """Return only results from enzymes which names are listed."""
for i, enzyme in enumerate(names):
if enzyme not in AllEnzymes:
- print("no data for the enzyme: %s" % name)
+ warnings.warn("no data for the enzyme: %s" % enzyme,
+ BiopythonWarning)
del names[i]
if not dct:
- return RestrictionBatch(names).search(self.sequence)
+ return RestrictionBatch(names).search(self.sequence, self.linear)
return dict((n, dct[n]) for n in names if n in dct)
def with_site_size(self, site_size, dct=None):
- """A.with_site_size(site_size [, dct]) ->
-
- Limit the search to the enzymes whose site is of size <site_size>.
- """
+ """Return only results form enzymes with a given site size."""
sites = [name for name in self if name.size == site_size]
if not dct:
return RestrictionBatch(sites).search(self.sequence)
return dict((k, v) for k, v in dct.items() if k in site_size)
def only_between(self, start, end, dct=None):
- """A.only_between(start, end[, dct]) -> dict.
-
- Enzymes that cut the sequence only in between start and end.
- """
+ """Return only results from enzymes that only cut within start, end."""
start, end, test = self._boundaries(start, end)
if not dct:
dct = self.mapping
@@ -2421,7 +2482,7 @@ class Analysis(RestrictionBatch, PrintFormat):
return d
def between(self, start, end, dct=None):
- """A.between(start, end [, dct]) -> dict.
+ """Return only results from enzymes that cut at least within borders.
Enzymes that cut the sequence at least in between start and end.
They may cut outside as well.
@@ -2439,22 +2500,22 @@ class Analysis(RestrictionBatch, PrintFormat):
return d
def show_only_between(self, start, end, dct=None):
- """A.show_only_between(start, end [, dct]) -> dict.
+ """Return only results from within start, end.
- Enzymes that cut the sequence outside of the region
- in between start and end but do not cut inside.
+ Enzymes must cut inside start/end and may also cut outside. However,
+ only the cutting positions within start/end will be returned.
"""
d = []
if start <= end:
d = [(k, [vv for vv in v if start <= vv <= end])
- for v in self.between(start, end, dct)]
+ for k, v in self.between(start, end, dct).items()]
else:
d = [(k, [vv for vv in v if start <= vv or vv <= end])
- for v in self.between(start, end, dct)]
+ for k, v in self.between(start, end, dct).items()]
return dict(d)
def only_outside(self, start, end, dct=None):
- """A.only_outside(start, end [, dct]) -> dict.
+ """Return only results from enzymes that only cut outside start, end.
Enzymes that cut the sequence outside of the region
in between start and end but do not cut inside.
@@ -2476,10 +2537,10 @@ class Analysis(RestrictionBatch, PrintFormat):
return d
def outside(self, start, end, dct=None):
- """A.outside((start, end [, dct]) -> dict.
+ """Return only results from enzymes that at least cut outside borders.
Enzymes that cut outside the region in between start and end.
- No test is made to know if they cut or not inside this region.
+ They may cut inside as well.
"""
start, end, test = self._boundaries(start, end)
if not dct:
@@ -2495,16 +2556,14 @@ class Analysis(RestrictionBatch, PrintFormat):
return d
def do_not_cut(self, start, end, dct=None):
- """A.do_not_cut(start, end [, dct]) -> dict.
-
- Enzymes that do not cut the region in between start and end.
- """
+ """Return only results from enzymes that don't cut between borders."""
if not dct:
dct = self.mapping
d = self.without_site()
d.update(self.only_outside(start, end, dct))
return d
+
#
# The restriction enzyme classes are created dynamically when the module is
# imported. Here is the magic which allow the creation of the
@@ -2572,17 +2631,18 @@ for TYPE, (bases, enzymes) in typedict.items():
#
# AllEnzymes is a RestrictionBatch with all the enzymes from Rebase.
#
-AllEnzymes = CommOnly | NonComm
+AllEnzymes = RestrictionBatch(CommOnly)
+AllEnzymes.update(NonComm)
#
# Now, place the enzymes in locals so they can be imported.
#
names = [str(x) for x in AllEnzymes]
try:
- del x
+ del x # noqa
except NameError:
# Scoping changed in Python 3, the variable isn't leaked
pass
locals().update(dict(zip(names, AllEnzymes)))
-__all__ = ['FormattedSeq', 'Analysis', 'RestrictionBatch', 'AllEnzymes',
- 'CommOnly', 'NonComm'] + names
+__all__ = ('FormattedSeq', 'Analysis', 'RestrictionBatch', 'AllEnzymes',
+ 'CommOnly', 'NonComm') + tuple(names)
del k, enzymes, TYPE, bases, names
diff --git a/Bio/Restriction/Restriction_Dictionary.py b/Bio/Restriction/Restriction_Dictionary.py
index 6c5cb82..4aba9af 100644
--- a/Bio/Restriction/Restriction_Dictionary.py
+++ b/Bio/Restriction/Restriction_Dictionary.py
@@ -15,19967 +15,22406 @@
# not work on Jython due to JVM limitations. Therefore we break this up
# into steps, using temporary functions to avoid the JVM limits.
#
-# Used REBASE emboss files version 605 (2016).
+# Used REBASE emboss files version 702 (2017).
rest_dict = {}
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TTATAA'),
'compsite': '(?P<AanI>TTATAA)',
- 'results': None,
- 'site': 'TTATAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TTATAA'),
- 'ovhgseq': '',
+ 'site': 'TTATAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AanI'] = _temp()
def _temp():
return {
+ 'charac': (11, 8, None, None, 'CACCTGC'),
'compsite': '(?P<AarI>CACCTGC)|(?P<AarI_as>GCAGGTG)',
- 'results': None,
- 'site': 'CACCTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 8,
'fst5': 11,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (11, 8, None, None, 'CACCTGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CACCTGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AarI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GACNNNNNNGTC'),
'compsite': '(?P<AasI>GAC......GTC)',
- 'results': None,
- 'site': 'GACNNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, -7, None, None, 'GACNNNNNNGTC'),
- 'ovhgseq': 'NN',
+ 'site': 'GACNNNNNNGTC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AasI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GACGTC'),
'compsite': '(?P<AatII>GACGTC)',
- 'results': None,
- 'site': 'GACGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'ACGT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'K', 'M', 'N', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GACGTC'),
- 'ovhgseq': 'ACGT',
+ 'site': 'GACGTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'K', 'M', 'N', 'V'),
}
+
+
rest_dict['AatII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CRRTAAG'),
'compsite': '(?P<Aba6411II>C[AG][AG]TAAG)|(?P<Aba6411II_as>CTTA[CT][CT]G)',
- 'results': None,
- 'site': 'CRRTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CRRTAAG'),
- 'ovhgseq': None,
+ 'site': 'CRRTAAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Aba6411II'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CTATCAV'),
'compsite': '(?P<AbaCIII>CTATCA[ACG])|(?P<AbaCIII_as>[CGT]TGATAG)',
- 'results': None,
- 'site': 'CTATCAV',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 5461.333333333333,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CTATCAV'),
- 'ovhgseq': None,
+ 'site': 'CTATCAV',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AbaCIII'] = _temp()
def _temp():
return {
+ 'charac': (12, 9, None, None, 'C'),
'compsite': '(?P<AbaSI>C)|(?P<AbaSI_as>G)',
- 'results': None,
- 'site': 'C',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4.0,
'fst3': 9,
'fst5': 12,
- 'freq': 4,
- 'size': 1,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (12, 9, None, None, 'C'),
- 'ovhgseq': 'NN',
+ 'site': 'C',
+ 'size': 1,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AbaSI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'YCCGSS'),
'compsite': '(?P<AbaUMB2I>[CT]CCG[CG][CG])|(?P<AbaUMB2I_as>[CG][CG]CGG[AG])',
- 'results': None,
- 'site': 'YCCGSS',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': None,
'fst5': None,
- 'freq': 512,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'YCCGSS'),
- 'ovhgseq': None,
+ 'site': 'YCCGSS',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AbaUMB2I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTCGAGG'),
'compsite': '(?P<AbsI>CCTCGAGG)',
- 'results': None,
- 'site': 'CCTCGAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTCGAGG'),
- 'ovhgseq': 'TCGA',
+ 'site': 'CCTCGAGG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AbsI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGCGCA'),
'compsite': '(?P<Acc16I>TGCGCA)',
- 'results': None,
- 'site': 'TGCGCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGCGCA'),
- 'ovhgseq': '',
+ 'site': 'TGCGCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Acc16I'] = _temp()
def _temp():
return {
+ 'charac': (10, 8, None, None, 'ACCTGC'),
'compsite': '(?P<Acc36I>ACCTGC)|(?P<Acc36I_as>GCAGGT)',
- 'results': None,
- 'site': 'ACCTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 8,
'fst5': 10,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (10, 8, None, None, 'ACCTGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'ACCTGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Acc36I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTACC'),
'compsite': '(?P<Acc65I>GGTACC)',
- 'results': None,
- 'site': 'GGTACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'N', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTACC'),
- 'ovhgseq': 'GTAC',
+ 'site': 'GGTACC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'N', 'V'),
}
+
+
rest_dict['Acc65I'] = _temp()
def _temp():
return {
- 'compsite': '(?P<AccB1I>GG[CT][AG]CC)',
- 'results': None,
- 'site': 'GGYRCC',
- 'substrat': 'DNA',
- 'fst3': -1,
- 'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
+ 'charac': (None, None, None, None, 'GACGCA'),
+ 'compsite': '(?P<Acc65V>GACGCA)|(?P<Acc65V_as>TGCGTC)',
'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
- 'ovhg': -4,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
+ 'site': 'GACGCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Acc65V'] = _temp()
+
+
+def _temp():
+ return {
'charac': (1, -1, None, None, 'GGYRCC'),
+ 'compsite': '(?P<AccB1I>GG[CT][AG]CC)',
+ 'dna': None,
+ 'freq': 1024.0,
+ 'fst3': -1,
+ 'fst5': 1,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': -4,
'ovhgseq': 'GYRC',
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GGYRCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AccB1I'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCANNNNNTGG'),
'compsite': '(?P<AccB7I>CCA.....TGG)',
- 'results': None,
- 'site': 'CCANNNNNTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCANNNNNTGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCANNNNNTGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AccB7I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CCGCTC'),
'compsite': '(?P<AccBSI>CCGCTC)|(?P<AccBSI_as>GAGCGG)',
- 'results': None,
- 'site': 'CCGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'CCGCTC'),
- 'ovhgseq': '',
+ 'site': 'CCGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AccBSI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GTMKAC'),
'compsite': '(?P<AccI>GT[AC][GT]AC)',
- 'results': None,
- 'site': 'GTMKAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'MK',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GTMKAC'),
- 'ovhgseq': 'MK',
+ 'site': 'GTMKAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'M', 'N', 'Q', 'R', 'X'),
}
+
+
rest_dict['AccI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<AccII>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'K'),
}
+
+
rest_dict['AccII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<AccIII>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'K', 'R'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'K', 'R'),
}
+
+
rest_dict['AccIII'] = _temp()
def _temp():
return {
+ 'charac': (13, 11, None, None, 'CAGCTC'),
'compsite': '(?P<AceIII>CAGCTC)|(?P<AceIII_as>GAGCTG)',
- 'results': None,
- 'site': 'CAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 11,
'fst5': 13,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (13, 11, None, None, 'CAGCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AceIII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'AGCCAG'),
'compsite': '(?P<AchA6III>AGCCAG)|(?P<AchA6III_as>CTGGCT)',
- 'results': None,
- 'site': 'AGCCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'AGCCAG'),
- 'ovhgseq': None,
+ 'site': 'AGCCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AchA6III'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGC'),
'compsite': '(?P<AciI>CCGC)|(?P<AciI_as>GCGG)',
- 'results': None,
- 'site': 'CCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AciI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'AACGTT'),
'compsite': '(?P<AclI>AACGTT)',
- 'results': None,
- 'site': 'AACGTT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'AACGTT'),
- 'ovhgseq': 'CG',
+ 'site': 'AACGTT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'V'),
}
+
+
rest_dict['AclI'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'GGATC'),
'compsite': '(?P<AclWI>GGATC)|(?P<AclWI_as>GATCC)',
- 'results': None,
- 'site': 'GGATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (9, 5, None, None, 'GGATC'),
- 'ovhgseq': 'N',
+ 'site': 'GGATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AclWI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCRGAG'),
'compsite': '(?P<Aco12261II>CC[AG]GAG)|(?P<Aco12261II_as>CTC[CT]GG)',
- 'results': None,
- 'site': 'CCRGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCRGAG'),
- 'ovhgseq': None,
+ 'site': 'CCRGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Aco12261II'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'YGGCCR'),
'compsite': '(?P<AcoI>[CT]GGCC[AG])',
- 'results': None,
- 'site': 'YGGCCR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
- 'scd3': None,
- 'suppl': ('I',),
- 'scd5': None,
- 'charac': (1, -1, None, None, 'YGGCCR'),
'ovhgseq': 'GGCC',
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'YGGCCR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AcoI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RAATTY'),
'compsite': '(?P<AcsI>[AG]AATT[CT])',
- 'results': None,
- 'site': 'RAATTY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'RAATTY'),
- 'ovhgseq': 'AATT',
+ 'site': 'RAATTY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AcsI'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTGAAG'),
'compsite': '(?P<AcuI>CTGAAG)|(?P<AcuI_as>CTTCAG)',
- 'results': None,
- 'site': 'CTGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTGAAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['AcuI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTG'),
'compsite': '(?P<AcvI>CACGTG)',
- 'results': None,
- 'site': 'CACGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('Q', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTG'),
- 'ovhgseq': '',
+ 'site': 'CACGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['AcvI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GRCGYC'),
'compsite': '(?P<AcyI>G[AG]CG[CT]C)',
- 'results': None,
- 'site': 'GRCGYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('J',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GRCGYC'),
- 'ovhgseq': 'CG',
+ 'site': 'GRCGYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J',),
}
+
+
rest_dict['AcyI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CACNNNGTG'),
'compsite': '(?P<AdeI>CAC...GTG)',
- 'results': None,
- 'site': 'CACNNNGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (6, -6, None, None, 'CACNNNGTG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CACNNNGTG',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AdeI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GTAC'),
'compsite': '(?P<AfaI>GTAC)',
- 'results': None,
- 'site': 'GTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GTAC'),
- 'ovhgseq': '',
+ 'site': 'GTAC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['AfaI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGCGCT'),
'compsite': '(?P<AfeI>AGCGCT)',
- 'results': None,
- 'site': 'AGCGCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGCGCT'),
- 'ovhgseq': '',
+ 'site': 'AGCGCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['AfeI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
'compsite': '(?P<AfiI>CC.......GG)',
- 'results': None,
- 'site': 'CCNNNNNNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCNNNNNNNGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['AfiI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTTAAG'),
'compsite': '(?P<AflII>CTTAAG)',
- 'results': None,
- 'site': 'CTTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TTAA',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'K', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTTAAG'),
- 'ovhgseq': 'TTAA',
+ 'site': 'CTTAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'K', 'N'),
}
+
+
rest_dict['AflII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACRYGT'),
'compsite': '(?P<AflIII>AC[AG][CT]GT)',
- 'results': None,
- 'site': 'ACRYGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CRYG',
+ 'results': None,
'scd3': None,
- 'suppl': ('M', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACRYGT'),
- 'ovhgseq': 'CRYG',
+ 'site': 'ACRYGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'N', 'S'),
}
+
+
rest_dict['AflIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCGGT'),
'compsite': '(?P<AgeI>ACCGGT)',
- 'results': None,
- 'site': 'ACCGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N', 'R'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCGGT'),
- 'ovhgseq': 'CCGG',
+ 'site': 'ACCGGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N', 'R'),
}
+
+
rest_dict['AgeI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TTSAA'),
'compsite': '(?P<AgsI>TT[CG]AA)',
- 'results': None,
- 'site': 'TTSAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -3,
'fst5': 3,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'S',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TTSAA'),
- 'ovhgseq': 'S',
+ 'site': 'TTSAA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AgsI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TTTAAA'),
'compsite': '(?P<AhaIII>TTTAAA)',
- 'results': None,
- 'site': 'TTTAAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'TTTAAA'),
- 'ovhgseq': '',
+ 'site': 'TTTAAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AhaIII'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
'compsite': '(?P<AhdI>GAC.....GTC)',
- 'results': None,
- 'site': 'GACNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNNNGTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AhdI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACTAGT'),
'compsite': '(?P<AhlI>ACTAGT)',
- 'results': None,
- 'site': 'ACTAGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACTAGT'),
- 'ovhgseq': 'CTAG',
+ 'site': 'ACTAGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AhlI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<AhyYL17I>[CT]AA[AC]GAG)|(?P<AhyYL17I_as>CTC[GT]TT[AG])',
- 'results': None,
- 'site': 'YAAMGAG',
- 'substrat': 'DNA',
+ 'charac': (None, None, None, None, 'GCYYGAC'),
+ 'compsite': '(?P<AhyRBAHI>GC[CT][CT]GAC)|(?P<AhyRBAHI_as>GTC[AG][AG]GC)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
+ 'site': 'GCYYGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['AhyRBAHI'] = _temp()
+
+
+def _temp():
+ return {
'charac': (None, None, None, None, 'YAAMGAG'),
+ 'compsite': '(?P<AhyYL17I>[CT]AA[AC]GAG)|(?P<AhyYL17I_as>CTC[GT]TT[AG])',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'YAAMGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AhyYL17I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTC'),
'compsite': '(?P<AjiI>CACGTC)|(?P<AjiI_as>GACGTG)',
- 'results': None,
- 'site': 'CACGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTC'),
- 'ovhgseq': '',
+ 'site': 'CACGTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AjiI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCWGG'),
'compsite': '(?P<AjnI>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCWGG'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AjnI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -26, 25, 6, 'GAANNNNNNNTTGG'),
'compsite': '(?P<AjuI>GAA.......TTGG)|(?P<AjuI_as>CCAA.......TTC)',
- 'results': None,
- 'site': 'GAANNNNNNNTTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -26,
'fst5': -7,
- 'freq': 16384,
- 'size': 14,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 6,
- 'suppl': ('B',),
'scd5': 25,
- 'charac': (-7, -26, 25, 6, 'GAANNNNNNNTTGG'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAANNNNNNNTTGG',
+ 'size': 14,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AjuI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CACNNNNGTG'),
'compsite': '(?P<AleI>CAC....GTG)',
- 'results': None,
- 'site': 'CACNNNNGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CACNNNNGTG'),
- 'ovhgseq': '',
+ 'site': 'CACNNNNGTG',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AleI'] = _temp()
def _temp():
return {
+ 'charac': (-10, -24, 24, 10, 'GCANNNNNNTGC'),
'compsite': '(?P<AlfI>GCA......TGC)',
- 'results': None,
- 'site': 'GCANNNNNNTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -24,
'fst5': -10,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 10,
- 'suppl': (),
'scd5': 24,
- 'charac': (-10, -24, 24, 10, 'GCANNNNNNTGC'),
- 'ovhgseq': 'NN',
+ 'site': 'GCANNNNNNTGC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AlfI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -25, 25, 7, 'GAACNNNNNNTCC'),
'compsite': '(?P<AloI>GAAC......TCC)|(?P<AloI_as>GGA......GTTC)',
- 'results': None,
- 'site': 'GAACNNNNNNTCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -25,
'fst5': -7,
- 'freq': 16384,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 7,
- 'suppl': ('B',),
'scd5': 25,
- 'charac': (-7, -25, 25, 7, 'GAACNNNNNNTCC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAACNNNNNNTCC',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['AloI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'AGCT'),
'compsite': '(?P<AluBI>AGCT)',
- 'results': None,
- 'site': 'AGCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'AGCT'),
- 'ovhgseq': '',
+ 'site': 'AGCT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AluBI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'AGCT'),
'compsite': '(?P<AluI>AGCT)',
- 'results': None,
- 'site': 'AGCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (2, -2, None, None, 'AGCT'),
- 'ovhgseq': '',
+ 'site': 'AGCT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['AluI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GWGCWC'),
'compsite': '(?P<Alw21I>G[AT]GC[AT]C)',
- 'results': None,
- 'site': 'GWGCWC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'WGCW',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GWGCWC'),
- 'ovhgseq': 'WGCW',
+ 'site': 'GWGCWC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Alw21I'] = _temp()
def _temp():
return {
+ 'charac': (6, 5, None, None, 'GTCTC'),
'compsite': '(?P<Alw26I>GTCTC)|(?P<Alw26I_as>GAGAC)',
- 'results': None,
- 'site': 'GTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (6, 5, None, None, 'GTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GTCTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Alw26I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTGCAC'),
'compsite': '(?P<Alw44I>GTGCAC)',
- 'results': None,
- 'site': 'GTGCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTGCAC'),
- 'ovhgseq': 'TGCA',
+ 'site': 'GTGCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J'),
}
+
+
rest_dict['Alw44I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAAAYNNNNNRTG'),
'compsite': '(?P<AlwFI>GAAA[CT].....[AG]TG)|(?P<AlwFI_as>CA[CT].....[AG]TTTC)',
- 'results': None,
- 'site': 'GAAAYNNNNNRTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAAAYNNNNNRTG'),
- 'ovhgseq': None,
+ 'site': 'GAAAYNNNNNRTG',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AlwFI'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'GGATC'),
'compsite': '(?P<AlwI>GGATC)|(?P<AlwI_as>GATCC)',
- 'results': None,
- 'site': 'GGATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (9, 5, None, None, 'GGATC'),
- 'ovhgseq': 'N',
+ 'site': 'GGATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AlwI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CAGNNNCTG'),
'compsite': '(?P<AlwNI>CAG...CTG)',
- 'results': None,
- 'site': 'CAGNNNCTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (6, -6, None, None, 'CAGNNNCTG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CAGNNNCTG',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AlwNI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CYCGRG'),
'compsite': '(?P<Ama87I>C[CT]CG[AG]G)',
- 'results': None,
- 'site': 'CYCGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Ama87I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<Aor13HI>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['Aor13HI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGCGCT'),
'compsite': '(?P<Aor51HI>AGCGCT)',
- 'results': None,
- 'site': 'AGCGCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGCGCT'),
- 'ovhgseq': '',
+ 'site': 'AGCGCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['Aor51HI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GGCC'),
'compsite': '(?P<AoxI>GGCC)',
- 'results': None,
- 'site': 'GGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GGCC'),
- 'ovhgseq': 'GGCC',
+ 'site': 'GGCC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AoxI'] = _temp()
def _temp():
return {
+ 'charac': (8, -8, None, None, 'GCANNNNNTGC'),
'compsite': '(?P<ApaBI>GCA.....TGC)',
- 'results': None,
- 'site': 'GCANNNNNTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -8,
'fst5': 8,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (8, -8, None, None, 'GCANNNNNTGC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GCANNNNNTGC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['ApaBI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GGGCCC'),
'compsite': '(?P<ApaI>GGGCCC)',
- 'results': None,
- 'site': 'GGGCCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GGGCCC'),
- 'ovhgseq': 'GGCC',
+ 'site': 'GGGCCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['ApaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTGCAC'),
'compsite': '(?P<ApaLI>GTGCAC)',
- 'results': None,
- 'site': 'GTGCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'K', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTGCAC'),
- 'ovhgseq': 'TGCA',
+ 'site': 'GTGCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'K', 'N'),
}
-rest_dict['ApaLI'] = _temp()
+
+
+rest_dict['ApaLI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCWGC'),
'compsite': '(?P<ApeKI>GC[AT]GC)',
- 'results': None,
- 'site': 'GCWGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'CWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCWGC'),
- 'ovhgseq': 'CWG',
+ 'site': 'GCWGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['ApeKI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RAATTY'),
'compsite': '(?P<ApoI>[AG]AATT[CT])',
- 'results': None,
- 'site': 'RAATTY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RAATTY'),
- 'ovhgseq': 'AATT',
+ 'site': 'RAATTY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['ApoI'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'ATCGAC'),
'compsite': '(?P<ApyPI>ATCGAC)|(?P<ApyPI_as>GTCGAT)',
- 'results': None,
- 'site': 'ATCGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 26,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 18, None, None, 'ATCGAC'),
- 'ovhgseq': 'NN',
+ 'site': 'ATCGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['ApyPI'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'GCCGNAC'),
'compsite': '(?P<AquII>GCCG.AC)|(?P<AquII_as>GT.CGGC)',
- 'results': None,
- 'site': 'GCCGNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 27,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'GCCGNAC'),
- 'ovhgseq': 'NN',
+ 'site': 'GCCGNAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AquII'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'GAGGAG'),
'compsite': '(?P<AquIII>GAGGAG)|(?P<AquIII_as>CTCCTC)',
- 'results': None,
- 'site': 'GAGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 26,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 18, None, None, 'GAGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GAGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AquIII'] = _temp()
def _temp():
return {
+ 'charac': (26, 17, None, None, 'GRGGAAG'),
'compsite': '(?P<AquIV>G[AG]GGAAG)|(?P<AquIV_as>CTTCC[CT]C)',
- 'results': None,
- 'site': 'GRGGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': 17,
'fst5': 26,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 17, None, None, 'GRGGAAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GRGGAAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AquIV'] = _temp()
def _temp():
return {
+ 'charac': (-8, -26, 24, 6, 'GACNNNNNNTTYG'),
'compsite': '(?P<ArsI>GAC......TT[CT]G)|(?P<ArsI_as>C[AG]AA......GTC)',
- 'results': None,
- 'site': 'GACNNNNNNTTYG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -26,
'fst5': -8,
- 'freq': 8192,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 6,
- 'suppl': ('I',),
'scd5': 24,
- 'charac': (-8, -26, 24, 6, 'GACNNNNNNTTYG'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GACNNNNNNTTYG',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['ArsI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCGCGCC'),
'compsite': '(?P<AscI>GGCGCGCC)',
- 'results': None,
- 'site': 'GGCGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCGCGCC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GGCGCGCC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AscI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATTAAT'),
'compsite': '(?P<AseI>ATTAAT)',
- 'results': None,
- 'site': 'ATTAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N'),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATTAAT'),
- 'ovhgseq': 'TA',
+ 'site': 'ATTAAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N'),
}
+
+
rest_dict['AseI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GATC'),
'compsite': '(?P<Asi256I>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'GATC'),
- 'ovhgseq': 'AT',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Asi256I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCGGT'),
'compsite': '(?P<AsiGI>ACCGGT)',
- 'results': None,
- 'site': 'ACCGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCGGT'),
- 'ovhgseq': 'CCGG',
+ 'site': 'ACCGGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AsiGI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCGATCGC'),
'compsite': '(?P<AsiSI>GCGATCGC)',
- 'results': None,
- 'site': 'GCGATCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -5,
'fst5': 5,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCGATCGC'),
- 'ovhgseq': 'AT',
+ 'site': 'GCGATCGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['AsiSI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAANNNNTTC'),
'compsite': '(?P<Asp700I>GAA....TTC)',
- 'results': None,
- 'site': 'GAANNNNTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAANNNNTTC'),
- 'ovhgseq': '',
+ 'site': 'GAANNNNTTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('M',),
}
+
+
rest_dict['Asp700I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTACC'),
'compsite': '(?P<Asp718I>GGTACC)',
- 'results': None,
- 'site': 'GGTACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTACC'),
- 'ovhgseq': 'GTAC',
+ 'site': 'GGTACC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'S'),
}
+
+
rest_dict['Asp718I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCTAGG'),
'compsite': '(?P<AspA2I>CCTAGG)',
- 'results': None,
- 'site': 'CCTAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCTAGG'),
- 'ovhgseq': 'CTAG',
+ 'site': 'CCTAGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AspA2I'] = _temp()
def _temp():
return {
+ 'charac': (13, 12, None, None, 'YSCNS'),
'compsite': '(?P<AspBHI>[CT][CG]C.[CG])|(?P<AspBHI_as>[CG].G[CG][AG])',
- 'results': None,
- 'site': 'YSCNS',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 32.0,
'fst3': 12,
'fst5': 13,
- 'freq': 32,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (13, 12, None, None, 'YSCNS'),
- 'ovhgseq': 'NNNN',
+ 'site': 'YSCNS',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AspBHI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GNGCAAC'),
'compsite': '(?P<AspDUT2V>G.GCAAC)|(?P<AspDUT2V_as>GTTGC.C)',
- 'results': None,
- 'site': 'GNGCAAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GNGCAAC'),
- 'ovhgseq': None,
+ 'site': 'GNGCAAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AspDUT2V'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGCCCAG'),
'compsite': '(?P<AspJHL3II>CGCCCAG)|(?P<AspJHL3II_as>CTGGGCG)',
- 'results': None,
- 'site': 'CGCCCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGCCCAG'),
- 'ovhgseq': None,
+ 'site': 'CGCCCAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AspJHL3II'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCGC'),
'compsite': '(?P<AspLEI>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AspLEI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGNCC'),
'compsite': '(?P<AspS9I>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AspS9I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGTRAC'),
'compsite': '(?P<Asu14238IV>CGT[AG]AC)|(?P<Asu14238IV_as>GT[CT]ACG)',
- 'results': None,
- 'site': 'CGTRAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGTRAC'),
- 'ovhgseq': None,
+ 'site': 'CGTRAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Asu14238IV'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCSGG'),
'compsite': '(?P<AsuC2I>CC[CG]GG)',
- 'results': None,
- 'site': 'CCSGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'S',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCSGG'),
- 'ovhgseq': 'S',
+ 'site': 'CCSGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['AsuC2I'] = _temp()
def _temp():
return {
+ 'charac': (13, 7, None, None, 'GGTGA'),
'compsite': '(?P<AsuHPI>GGTGA)|(?P<AsuHPI_as>TCACC)',
- 'results': None,
- 'site': 'GGTGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 7,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (13, 7, None, None, 'GGTGA'),
- 'ovhgseq': 'N',
+ 'site': 'GGTGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AsuHPI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGNCC'),
'compsite': '(?P<AsuI>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AsuI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<AsuII>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['AsuII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCTAGC'),
'compsite': '(?P<AsuNHI>GCTAGC)',
- 'results': None,
- 'site': 'GCTAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCTAGC'),
- 'ovhgseq': 'CTAG',
+ 'site': 'GCTAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['AsuNHI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<AvaI>C[CT]CG[AG]G)',
+ 'charac': (None, None, None, None, 'GGGRAG'),
+ 'compsite': '(?P<AteTI>GGG[AG]AG)|(?P<AteTI_as>CT[CT]CCC)',
+ 'dna': None,
+ 'freq': 2048.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'CYCGRG',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GGGRAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['AteTI'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (1, -1, None, None, 'CYCGRG'),
+ 'compsite': '(?P<AvaI>C[CT]CG[AG]G)',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N', 'Q', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N', 'Q', 'X'),
}
+
+
rest_dict['AvaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGWCC'),
'compsite': '(?P<AvaII>GG[AT]CC)',
- 'results': None,
- 'site': 'GGWCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N', 'R', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGWCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N', 'R', 'X'),
}
+
+
rest_dict['AvaII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ATGCAT'),
'compsite': '(?P<AvaIII>ATGCAT)',
- 'results': None,
- 'site': 'ATGCAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ATGCAT'),
- 'ovhgseq': None,
+ 'site': 'ATGCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['AvaIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCTAGG'),
'compsite': '(?P<AvrII>CCTAGG)',
- 'results': None,
- 'site': 'CCTAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCTAGG'),
- 'ovhgseq': 'CTAG',
+ 'site': 'CCTAGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['AvrII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCCRAG'),
'compsite': '(?P<Awo1030IV>GCC[AG]AG)|(?P<Awo1030IV_as>CT[CT]GGC)',
- 'results': None,
- 'site': 'GCCRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCCRAG'),
- 'ovhgseq': None,
+ 'site': 'GCCRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Awo1030IV'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTNAGG'),
'compsite': '(?P<AxyI>CCT.AGG)',
- 'results': None,
- 'site': 'CCTNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('J',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTNAGG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CCTNAGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('J',),
}
+
+
rest_dict['AxyI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GKGCMC'),
'compsite': '(?P<BaeGI>G[GT]GC[AC]C)',
- 'results': None,
- 'site': 'GKGCMC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'KGCM',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GKGCMC'),
- 'ovhgseq': 'KGCM',
+ 'site': 'GKGCMC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BaeGI'] = _temp()
def _temp():
return {
+ 'charac': (-10, -26, 23, 7, 'ACNNNNGTAYC'),
'compsite': '(?P<BaeI>AC....GTA[CT]C)|(?P<BaeI_as>G[AG]TAC....GT)',
- 'results': None,
- 'site': 'ACNNNNGTAYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -26,
'fst5': -10,
- 'freq': 8192,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 7,
- 'suppl': ('N',),
'scd5': 23,
- 'charac': (-10, -26, 23, 7, 'ACNNNNGTAYC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'ACNNNNGTAYC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BaeI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCCGAG'),
'compsite': '(?P<Bag18758I>CCCGAG)|(?P<Bag18758I_as>CTCGGG)',
- 'results': None,
- 'site': 'CCCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCCGAG'),
- 'ovhgseq': None,
+ 'site': 'CCCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Bag18758I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGGCCA'),
'compsite': '(?P<BalI>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGGCCA'),
- 'ovhgseq': '',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'Q', 'R', 'X'),
}
+
+
rest_dict['BalI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGATCC'),
'compsite': '(?P<BamHI>GGATCC)',
- 'results': None,
- 'site': 'GGATCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGATCC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GGATCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['BamHI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGYRCC'),
'compsite': '(?P<BanI>GG[CT][AG]CC)',
- 'results': None,
- 'site': 'GGYRCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
+ 'inact_temp': 65,
'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
'ovhg': -4,
+ 'ovhgseq': 'GYRC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N', 'R'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGYRCC'),
- 'ovhgseq': 'GYRC',
+ 'site': 'GGYRCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N', 'R'),
}
+
+
rest_dict['BanI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GRGCYC'),
'compsite': '(?P<BanII>G[AG]GC[CT]C)',
- 'results': None,
- 'site': 'GRGCYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'RGCY',
+ 'results': None,
'scd3': None,
- 'suppl': ('K', 'N', 'X'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GRGCYC'),
- 'ovhgseq': 'RGCY',
+ 'site': 'GRGCYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K', 'N', 'X'),
}
+
+
rest_dict['BanII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'RTCAGG'),
'compsite': '(?P<BanLI>[AG]TCAGG)|(?P<BanLI_as>CCTGA[CT])',
- 'results': None,
- 'site': 'RTCAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'RTCAGG'),
- 'ovhgseq': None,
+ 'site': 'RTCAGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BanLI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -25, 25, 7, 'GAAGNNNNNNTAC'),
'compsite': '(?P<BarI>GAAG......TAC)|(?P<BarI_as>GTA......CTTC)',
- 'results': None,
- 'site': 'GAAGNNNNNNTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -25,
'fst5': -7,
- 'freq': 16384,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 7,
- 'suppl': ('I',),
'scd5': 25,
- 'charac': (-7, -25, 25, 7, 'GAAGNNNNNNTAC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAAGNNNNNNTAC',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BarI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CACGAG'),
'compsite': '(?P<BauI>CACGAG)|(?P<BauI_as>CTCGTG)',
- 'results': None,
- 'site': 'CACGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'ACGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CACGAG'),
- 'ovhgseq': 'ACGA',
+ 'site': 'CACGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BauI'] = _temp()
def _temp():
return {
+ 'charac': (13, 11, None, None, 'GAAGAC'),
'compsite': '(?P<Bbr7I>GAAGAC)|(?P<Bbr7I_as>GTCTTC)',
- 'results': None,
- 'site': 'GAAGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 11,
'fst5': 13,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (13, 11, None, None, 'GAAGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GAAGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Bbr7I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTG'),
'compsite': '(?P<BbrPI>CACGTG)',
- 'results': None,
- 'site': 'CACGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTG'),
- 'ovhgseq': '',
+ 'site': 'CACGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M',),
}
+
+
rest_dict['BbrPI'] = _temp()
def _temp():
return {
+ 'charac': (8, 6, None, None, 'GAAGAC'),
'compsite': '(?P<BbsI>GAAGAC)|(?P<BbsI_as>GTCTTC)',
- 'results': None,
- 'site': 'GAAGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 6,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (8, 6, None, None, 'GAAGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GAAGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BbsI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GWGCWC'),
'compsite': '(?P<Bbv12I>G[AT]GC[AT]C)',
- 'results': None,
- 'site': 'GWGCWC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'WGCW',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GWGCWC'),
- 'ovhgseq': 'WGCW',
+ 'site': 'GWGCWC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bbv12I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTCAGC'),
'compsite': '(?P<BbvCI>CCTCAGC)|(?P<BbvCI_as>GCTGAGG)',
- 'results': None,
- 'site': 'CCTCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -2,
'fst5': 2,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTCAGC'),
- 'ovhgseq': 'TCA',
+ 'site': 'CCTCAGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BbvCI'] = _temp()
def _temp():
return {
+ 'charac': (13, 12, None, None, 'GCAGC'),
'compsite': '(?P<BbvI>GCAGC)|(?P<BbvI_as>GCTGC)',
- 'results': None,
- 'site': 'GCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 12,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (13, 12, None, None, 'GCAGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCAGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BbvI'] = _temp()
def _temp():
return {
+ 'charac': (8, 6, None, None, 'GAAGAC'),
'compsite': '(?P<BbvII>GAAGAC)|(?P<BbvII_as>GTCTTC)',
- 'results': None,
- 'site': 'GAAGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 6,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (8, 6, None, None, 'GAAGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GAAGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BbvII'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'CCATC'),
'compsite': '(?P<BccI>CCATC)|(?P<BccI_as>GATGG)',
- 'results': None,
- 'site': 'CCATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (9, 5, None, None, 'CCATC'),
- 'ovhgseq': 'N',
+ 'site': 'CCATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BccI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TAGGAG'),
'compsite': '(?P<Bce3081I>TAGGAG)|(?P<Bce3081I_as>CTCCTA)',
- 'results': None,
- 'site': 'TAGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TAGGAG'),
- 'ovhgseq': None,
+ 'site': 'TAGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Bce3081I'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTTGAG'),
'compsite': '(?P<Bce83I>CTTGAG)|(?P<Bce83I_as>CTCAAG)',
- 'results': None,
- 'site': 'CTTGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTTGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTTGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Bce83I'] = _temp()
def _temp():
return {
+ 'charac': (17, 14, None, None, 'ACGGC'),
'compsite': '(?P<BceAI>ACGGC)|(?P<BceAI_as>GCCGT)',
- 'results': None,
- 'site': 'ACGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 14,
'fst5': 17,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (17, 14, None, None, 'ACGGC'),
- 'ovhgseq': 'NN',
+ 'site': 'ACGGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BceAI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -10, 14, 11, 'GCAGC'),
'compsite': '(?P<BceSIV>GCAGC)|(?P<BceSIV_as>GCTGC)',
- 'results': None,
- 'site': 'GCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -10,
'fst5': -7,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 11,
- 'suppl': (),
'scd5': 14,
- 'charac': (-7, -10, 14, 11, 'GCAGC'),
- 'ovhgseq': 'NN',
+ 'site': 'GCAGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BceSIV'] = _temp()
def _temp():
return {
+ 'charac': (17, 13, None, None, 'ACGGC'),
'compsite': '(?P<BcefI>ACGGC)|(?P<BcefI_as>GCCGT)',
- 'results': None,
- 'site': 'ACGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 13,
'fst5': 17,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (17, 13, None, None, 'ACGGC'),
- 'ovhgseq': 'N',
+ 'site': 'ACGGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BcefI'] = _temp()
def _temp():
return {
+ 'charac': (-10, -24, 24, 10, 'CGANNNNNNTGC'),
'compsite': '(?P<BcgI>CGA......TGC)|(?P<BcgI_as>GCA......TCG)',
- 'results': None,
- 'site': 'CGANNNNNNTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -24,
'fst5': -10,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 10,
- 'suppl': ('N',),
'scd5': 24,
- 'charac': (-10, -24, 24, 10, 'CGANNNNNNTGC'),
- 'ovhgseq': 'NN',
+ 'site': 'CGANNNNNNTGC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BcgI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCWGG'),
'compsite': '(?P<BciT130I>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'W',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCWGG'),
- 'ovhgseq': 'W',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['BciT130I'] = _temp()
def _temp():
return {
+ 'charac': (12, 5, None, None, 'GTATCC'),
'compsite': '(?P<BciVI>GTATCC)|(?P<BciVI_as>GGATAC)',
- 'results': None,
- 'site': 'GTATCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 12,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (12, 5, None, None, 'GTATCC'),
- 'ovhgseq': 'N',
+ 'site': 'GTATCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BciVI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TGATCA'),
'compsite': '(?P<BclI>TGATCA)',
- 'results': None,
- 'site': 'TGATCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'J', 'M', 'N', 'O', 'R', 'S'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TGATCA'),
- 'ovhgseq': 'GATC',
+ 'site': 'TGATCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'J', 'M', 'N', 'O', 'R', 'S'),
}
+
+
rest_dict['BclI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCSGG'),
'compsite': '(?P<BcnI>CC[CG]GG)',
- 'results': None,
- 'site': 'CCSGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'S',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCSGG'),
- 'ovhgseq': 'S',
+ 'site': 'CCSGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['BcnI'] = _temp()
def _temp():
return {
+ 'charac': (6, 5, None, None, 'GTCTC'),
'compsite': '(?P<BcoDI>GTCTC)|(?P<BcoDI_as>GAGAC)',
- 'results': None,
- 'site': 'GTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (6, 5, None, None, 'GTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GTCTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BcoDI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACTAGT'),
'compsite': '(?P<BcuI>ACTAGT)',
- 'results': None,
- 'site': 'ACTAGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACTAGT'),
- 'ovhgseq': 'CTAG',
+ 'site': 'ACTAGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BcuI'] = _temp()
def _temp():
return {
+ 'charac': (-10, -24, 24, 10, 'TGANNNNNNTCA'),
'compsite': '(?P<BdaI>TGA......TCA)',
- 'results': None,
- 'site': 'TGANNNNNNTCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -24,
'fst5': -10,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 10,
- 'suppl': (),
'scd5': 24,
- 'charac': (-10, -24, 24, 10, 'TGANNNNNNTCA'),
- 'ovhgseq': 'NN',
+ 'site': 'TGANNNNNNTCA',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['BdaI'] = _temp()
+
+
+rest_dict['BdaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'WCCGGW'),
'compsite': '(?P<BetI>[AT]CCGG[AT])',
- 'results': None,
- 'site': 'WCCGGW',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'WCCGGW'),
- 'ovhgseq': 'CCGG',
+ 'site': 'WCCGGW',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BetI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTAG'),
'compsite': '(?P<BfaI>CTAG)',
- 'results': None,
- 'site': 'CTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTAG'),
- 'ovhgseq': 'TA',
+ 'site': 'CTAG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BfaI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GANGGAG'),
'compsite': '(?P<BfaSII>GA.GGAG)|(?P<BfaSII_as>CTCC.TC)',
- 'results': None,
- 'site': 'GANGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GANGGAG'),
- 'ovhgseq': None,
+ 'site': 'GANGGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BfaSII'] = _temp()
def _temp():
return {
+ 'charac': (11, 4, None, None, 'ACTGGG'),
'compsite': '(?P<BfiI>ACTGGG)|(?P<BfiI_as>CCCAGT)',
- 'results': None,
- 'site': 'ACTGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 11,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (11, 4, None, None, 'ACTGGG'),
- 'ovhgseq': 'N',
+ 'site': 'ACTGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BfiI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTRYAG'),
'compsite': '(?P<BfmI>CT[AG][CT]AG)',
- 'results': None,
- 'site': 'CTRYAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TRYA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTRYAG'),
- 'ovhgseq': 'TRYA',
+ 'site': 'CTRYAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BfmI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'RGCGCY'),
'compsite': '(?P<BfoI>[AG]GCGC[CT])',
- 'results': None,
- 'site': 'RGCGCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GCGC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'RGCGCY'),
- 'ovhgseq': 'GCGC',
+ 'site': 'RGCGCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BfoI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTTAAG'),
'compsite': '(?P<BfrI>CTTAAG)',
- 'results': None,
- 'site': 'CTTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TTAA',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTTAAG'),
- 'ovhgseq': 'TTAA',
+ 'site': 'CTTAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'S'),
}
+
+
rest_dict['BfrI'] = _temp()
def _temp():
return {
+ 'charac': (10, 8, None, None, 'ACCTGC'),
'compsite': '(?P<BfuAI>ACCTGC)|(?P<BfuAI_as>GCAGGT)',
- 'results': None,
- 'site': 'ACCTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 8,
'fst5': 10,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (10, 8, None, None, 'ACCTGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'ACCTGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BfuAI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<BfuCI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BfuCI'] = _temp()
def _temp():
return {
+ 'charac': (12, 5, None, None, 'GTATCC'),
'compsite': '(?P<BfuI>GTATCC)|(?P<BfuI_as>GGATAC)',
- 'results': None,
- 'site': 'GTATCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 12,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (12, 5, None, None, 'GTATCC'),
- 'ovhgseq': 'N',
+ 'site': 'GTATCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BfuI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GCCNNNNNGGC'),
'compsite': '(?P<BglI>GCC.....GGC)',
- 'results': None,
- 'site': 'GCCNNNNNGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'N', 'O', 'Q', 'R', 'V', 'X'),
'scd5': None,
- 'charac': (7, -7, None, None, 'GCCNNNNNGGC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCCNNNNNGGC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'N', 'O', 'Q', 'R', 'V', 'X'),
}
+
+
rest_dict['BglI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'AGATCT'),
'compsite': '(?P<BglII>AGATCT)',
- 'results': None,
- 'site': 'AGATCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'AGATCT'),
- 'ovhgseq': 'GATC',
+ 'site': 'AGATCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['BglII'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'GGATC'),
'compsite': '(?P<BinI>GGATC)|(?P<BinI_as>GATCC)',
- 'results': None,
- 'site': 'GGATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (9, 5, None, None, 'GGATC'),
- 'ovhgseq': 'N',
+ 'site': 'GGATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BinI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCNGC'),
'compsite': '(?P<BisI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BisI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<BlnI>CCTAGG)',
+ 'charac': (None, None, None, None, 'GRAGCAG'),
+ 'compsite': '(?P<Ble402II>G[AG]AGCAG)|(?P<Ble402II_as>CTGCT[CT]C)',
+ 'dna': None,
+ 'freq': 8192.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'CCTAGG',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GRAGCAG',
+ 'size': 7,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Ble402II'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (1, -1, None, None, 'CCTAGG'),
+ 'compsite': '(?P<BlnI>CCTAGG)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('K', 'M', 'S'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCTAGG'),
- 'ovhgseq': 'CTAG',
+ 'site': 'CCTAGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K', 'M', 'S'),
}
+
+
rest_dict['BlnI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAGGAC'),
'compsite': '(?P<BloAII>GAGGAC)|(?P<BloAII_as>GTCCTC)',
- 'results': None,
- 'site': 'GAGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAGGAC'),
- 'ovhgseq': None,
+ 'site': 'GAGGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BloAII'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCTNAGC'),
'compsite': '(?P<BlpI>GCT.AGC)',
- 'results': None,
- 'site': 'GCTNAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCTNAGC'),
- 'ovhgseq': 'TNA',
+ 'site': 'GCTNAGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BlpI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCNGC'),
'compsite': '(?P<BlsI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BlsI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGTACT'),
'compsite': '(?P<BmcAI>AGTACT)',
- 'results': None,
- 'site': 'AGTACT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGTACT'),
- 'ovhgseq': '',
+ 'site': 'AGTACT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BmcAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCNGG'),
'compsite': '(?P<Bme1390I>CC.GG)',
- 'results': None,
- 'site': 'CCNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCNGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCNGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bme1390I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGWCC'),
'compsite': '(?P<Bme18I>GG[AT]CC)',
- 'results': None,
- 'site': 'GGWCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGWCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bme18I'] = _temp()
def _temp():
return {
+ 'charac': (3, 0, None, None, 'C'),
'compsite': '(?P<BmeDI>C)|(?P<BmeDI_as>G)',
- 'results': None,
- 'site': 'C',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4.0,
'fst3': 0,
'fst5': 3,
- 'freq': 4,
- 'size': 1,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, 0, None, None, 'C'),
- 'ovhgseq': 'NN',
+ 'site': 'C',
+ 'size': 1,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BmeDI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
'compsite': '(?P<BmeRI>GAC.....GTC)',
- 'results': None,
- 'site': 'GACNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNNNGTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BmeRI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CYCGRG'),
'compsite': '(?P<BmeT110I>C[CT]CG[AG]G)',
- 'results': None,
- 'site': 'CYCGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['BmeT110I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTC'),
'compsite': '(?P<BmgBI>CACGTC)|(?P<BmgBI_as>GACGTG)',
- 'results': None,
- 'site': 'CACGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTC'),
- 'ovhgseq': '',
+ 'site': 'CACGTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BmgBI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GKGCCC'),
'compsite': '(?P<BmgI>G[GT]GCCC)|(?P<BmgI_as>GGGC[AC]C)',
- 'results': None,
- 'site': 'GKGCCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GKGCCC'),
- 'ovhgseq': None,
+ 'site': 'GKGCCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BmgI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGNCC'),
'compsite': '(?P<BmgT120I>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['BmgT120I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGNNCC'),
'compsite': '(?P<BmiI>GG..CC)',
- 'results': None,
- 'site': 'GGNNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGNNCC'),
- 'ovhgseq': '',
+ 'site': 'GGNNCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BmiI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCNGG'),
'compsite': '(?P<BmrFI>CC.GG)',
- 'results': None,
- 'site': 'CCNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCNGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCNGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BmrFI'] = _temp()
def _temp():
return {
+ 'charac': (11, 4, None, None, 'ACTGGG'),
'compsite': '(?P<BmrI>ACTGGG)|(?P<BmrI_as>CCCAGT)',
- 'results': None,
- 'site': 'ACTGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 11,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (11, 4, None, None, 'ACTGGG'),
- 'ovhgseq': 'N',
+ 'site': 'ACTGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BmrI'] = _temp()
def _temp():
return {
+ 'charac': (10, 9, None, None, 'GCATC'),
'compsite': '(?P<BmsI>GCATC)|(?P<BmsI_as>GATGC)',
- 'results': None,
- 'site': 'GCATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 9,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (10, 9, None, None, 'GCATC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BmsI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCTAGC'),
'compsite': '(?P<BmtI>GCTAGC)',
- 'results': None,
- 'site': 'GCTAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCTAGC'),
- 'ovhgseq': 'CTAG',
+ 'site': 'GCTAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'V'),
}
+
+
rest_dict['BmtI'] = _temp()
def _temp():
return {
+ 'charac': (11, 4, None, None, 'ACTGGG'),
'compsite': '(?P<BmuI>ACTGGG)|(?P<BmuI_as>CCCAGT)',
- 'results': None,
- 'site': 'ACTGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 11,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (11, 4, None, None, 'ACTGGG'),
- 'ovhgseq': 'N',
+ 'site': 'ACTGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BmuI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GACNNNNGTC'),
'compsite': '(?P<BoxI>GAC....GTC)',
- 'results': None,
- 'site': 'GACNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GACNNNNGTC'),
- 'ovhgseq': '',
+ 'site': 'GACNNNNGTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BoxI'] = _temp()
def _temp():
return {
+ 'charac': (8, 6, None, None, 'GAAGAC'),
'compsite': '(?P<BpiI>GAAGAC)|(?P<BpiI_as>GTCTTC)',
- 'results': None,
- 'site': 'GAAGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 6,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (8, 6, None, None, 'GAAGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GAAGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BpiI'] = _temp()
def _temp():
return {
+ 'charac': (-8, -24, 24, 8, 'GAGNNNNNCTC'),
'compsite': '(?P<BplI>GAG.....CTC)',
- 'results': None,
- 'site': 'GAGNNNNNCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -24,
'fst5': -8,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 8,
- 'suppl': ('B',),
'scd5': 24,
- 'charac': (-8, -24, 24, 8, 'GAGNNNNNCTC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAGNNNNNCTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BplI'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTGGAG'),
'compsite': '(?P<BpmI>CTGGAG)|(?P<BpmI_as>CTCCAG)',
- 'results': None,
- 'site': 'CTGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['BpmI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTNAGC'),
'compsite': '(?P<Bpu10I>CCT.AGC)|(?P<Bpu10I_as>GCT.AGG)',
- 'results': None,
- 'site': 'CCTNAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'N', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTNAGC'),
- 'ovhgseq': 'TNA',
+ 'site': 'CCTNAGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'N', 'V'),
}
+
+
rest_dict['Bpu10I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCTNAGC'),
'compsite': '(?P<Bpu1102I>GCT.AGC)',
- 'results': None,
- 'site': 'GCTNAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCTNAGC'),
- 'ovhgseq': 'TNA',
+ 'site': 'GCTNAGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Bpu1102I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<Bpu14I>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bpu14I'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTTGAG'),
'compsite': '(?P<BpuEI>CTTGAG)|(?P<BpuEI_as>CTCAAG)',
- 'results': None,
- 'site': 'CTTGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTTGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTTGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BpuEI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCSGG'),
'compsite': '(?P<BpuMI>CC[CG]GG)',
- 'results': None,
- 'site': 'CCSGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'S',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCSGG'),
- 'ovhgseq': 'S',
+ 'site': 'CCSGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BpuMI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<Bsa29I>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Bsa29I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'YACGTR'),
'compsite': '(?P<BsaAI>[CT]ACGT[AG])',
- 'results': None,
- 'site': 'YACGTR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'YACGTR'),
- 'ovhgseq': '',
+ 'site': 'YACGTR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaAI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GATNNNNATC'),
'compsite': '(?P<BsaBI>GAT....ATC)',
- 'results': None,
- 'site': 'GATNNNNATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GATNNNNATC'),
- 'ovhgseq': '',
+ 'site': 'GATNNNNATC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaBI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GRCGYC'),
'compsite': '(?P<BsaHI>G[AG]CG[CT]C)',
- 'results': None,
- 'site': 'GRCGYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GRCGYC'),
- 'ovhgseq': 'CG',
+ 'site': 'GRCGYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaHI'] = _temp()
def _temp():
return {
+ 'charac': (7, 5, None, None, 'GGTCTC'),
'compsite': '(?P<BsaI>GGTCTC)|(?P<BsaI_as>GAGACC)',
- 'results': None,
- 'site': 'GGTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, 5, None, None, 'GGTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGTCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCNNGG'),
'compsite': '(?P<BsaJI>CC..GG)',
- 'results': None,
- 'site': 'CCNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CNNG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCNNGG'),
- 'ovhgseq': 'CNNG',
+ 'site': 'CCNNGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaJI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'WCCGGW'),
'compsite': '(?P<BsaWI>[AT]CCGG[AT])',
- 'results': None,
- 'site': 'WCCGGW',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'WCCGGW'),
- 'ovhgseq': 'CCGG',
+ 'site': 'WCCGGW',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaWI'] = _temp()
def _temp():
return {
+ 'charac': (-9, -23, 21, 7, 'ACNNNNNCTCC'),
'compsite': '(?P<BsaXI>AC.....CTCC)|(?P<BsaXI_as>GGAG.....GT)',
- 'results': None,
- 'site': 'ACNNNNNCTCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -23,
'fst5': -9,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': 7,
- 'suppl': ('N',),
'scd5': 21,
- 'charac': (-9, -23, 21, 7, 'ACNNNNNCTCC'),
- 'ovhgseq': 'NNN',
+ 'site': 'ACNNNNNCTCC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsaXI'] = _temp()
def _temp():
return {
+ 'charac': (27, 19, None, None, 'CAACAC'),
'compsite': '(?P<BsbI>CAACAC)|(?P<BsbI_as>GTGTTG)',
- 'results': None,
- 'site': 'CAACAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 19,
'fst5': 27,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 19, None, None, 'CAACAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CAACAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BsbI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
'compsite': '(?P<Bsc4I>CC.......GG)',
- 'results': None,
- 'site': 'CCNNNNNNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCNNNNNNNGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Bsc4I'] = _temp()
def _temp():
return {
+ 'charac': (9, 6, None, None, 'GCATC'),
'compsite': '(?P<BscAI>GCATC)|(?P<BscAI_as>GATGC)',
- 'results': None,
- 'site': 'GCATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 6,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (9, 6, None, None, 'GCATC'),
- 'ovhgseq': 'NN',
+ 'site': 'GCATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BscAI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCCGT'),
'compsite': '(?P<BscGI>CCCGT)|(?P<BscGI_as>ACGGG)',
- 'results': None,
- 'site': 'CCCGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCCGT'),
- 'ovhgseq': None,
+ 'site': 'CCCGT',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BscGI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RCCGGY'),
'compsite': '(?P<Bse118I>[AG]CCGG[CT])',
- 'results': None,
- 'site': 'RCCGGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'RCCGGY'),
- 'ovhgseq': 'CCGG',
+ 'site': 'RCCGGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bse118I'] = _temp()
def _temp():
return {
+ 'charac': (6, -1, None, None, 'ACTGG'),
'compsite': '(?P<Bse1I>ACTGG)|(?P<Bse1I_as>CCAGT)',
- 'results': None,
- 'site': 'ACTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (6, -1, None, None, 'ACTGG'),
- 'ovhgseq': 'GN',
+ 'site': 'ACTGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bse1I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTNAGG'),
'compsite': '(?P<Bse21I>CCT.AGG)',
- 'results': None,
- 'site': 'CCTNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTNAGG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CCTNAGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bse21I'] = _temp()
def _temp():
return {
+ 'charac': (8, 0, None, None, 'GCAATG'),
'compsite': '(?P<Bse3DI>GCAATG)|(?P<Bse3DI_as>CATTGC)',
- 'results': None,
- 'site': 'GCAATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 0,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (8, 0, None, None, 'GCAATG'),
- 'ovhgseq': 'NN',
+ 'site': 'GCAATG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bse3DI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GATNNNNATC'),
'compsite': '(?P<Bse8I>GAT....ATC)',
- 'results': None,
- 'site': 'GATNNNNATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GATNNNNATC'),
- 'ovhgseq': '',
+ 'site': 'GATNNNNATC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bse8I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<BseAI>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['BseAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCWGG'),
'compsite': '(?P<BseBI>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'W',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCWGG'),
- 'ovhgseq': 'W',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['BseBI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<BseCI>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['BseCI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCNNGG'),
'compsite': '(?P<BseDI>CC..GG)',
- 'results': None,
- 'site': 'CCNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CNNG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCNNGG'),
- 'ovhgseq': 'CNNG',
- }
-rest_dict['BseDI'] = _temp()
-
+ 'site': 'CCNNGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
+ }
+
+
+rest_dict['BseDI'] = _temp()
+
def _temp():
return {
+ 'charac': (7, 0, None, None, 'GGATG'),
'compsite': '(?P<BseGI>GGATG)|(?P<BseGI_as>CATCC)',
- 'results': None,
- 'site': 'GGATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 0,
'fst5': 7,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, 0, None, None, 'GGATG'),
- 'ovhgseq': 'NN',
+ 'site': 'GGATG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseGI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GATNNNNATC'),
'compsite': '(?P<BseJI>GAT....ATC)',
- 'results': None,
- 'site': 'GATNNNNATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GATNNNNATC'),
- 'ovhgseq': '',
+ 'site': 'GATNNNNATC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseJI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
'compsite': '(?P<BseLI>CC.......GG)',
- 'results': None,
- 'site': 'CCNNNNNNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCNNNNNNNGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseLI'] = _temp()
def _temp():
return {
+ 'charac': (8, 0, None, None, 'GCAATG'),
'compsite': '(?P<BseMI>GCAATG)|(?P<BseMI_as>CATTGC)',
- 'results': None,
- 'site': 'GCAATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 0,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (8, 0, None, None, 'GCAATG'),
- 'ovhgseq': 'NN',
+ 'site': 'GCAATG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseMI'] = _temp()
def _temp():
return {
+ 'charac': (15, 8, None, None, 'CTCAG'),
'compsite': '(?P<BseMII>CTCAG)|(?P<BseMII_as>CTGAG)',
- 'results': None,
- 'site': 'CTCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 8,
'fst5': 15,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (15, 8, None, None, 'CTCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTCAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseMII'] = _temp()
def _temp():
return {
+ 'charac': (6, -1, None, None, 'ACTGG'),
'compsite': '(?P<BseNI>ACTGG)|(?P<BseNI_as>CCAGT)',
- 'results': None,
- 'site': 'ACTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (6, -1, None, None, 'ACTGG'),
- 'ovhgseq': 'GN',
+ 'site': 'ACTGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseNI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGCGC'),
'compsite': '(?P<BsePI>GCGCGC)',
- 'results': None,
- 'site': 'GCGCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGCGC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GCGCGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BsePI'] = _temp()
def _temp():
return {
+ 'charac': (16, 8, None, None, 'GAGGAG'),
'compsite': '(?P<BseRI>GAGGAG)|(?P<BseRI_as>CTCCTC)',
- 'results': None,
- 'site': 'GAGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 8,
'fst5': 16,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (16, 8, None, None, 'GAGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GAGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BseRI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GKGCMC'),
'compsite': '(?P<BseSI>G[GT]GC[AC]C)',
- 'results': None,
- 'site': 'GKGCMC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'KGCM',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GKGCMC'),
- 'ovhgseq': 'KGCM',
+ 'site': 'GKGCMC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseSI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCG'),
'compsite': '(?P<BseX3I>CGGCCG)',
- 'results': None,
- 'site': 'CGGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCG'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BseX3I'] = _temp()
def _temp():
return {
+ 'charac': (13, 12, None, None, 'GCAGC'),
'compsite': '(?P<BseXI>GCAGC)|(?P<BseXI_as>GCTGC)',
- 'results': None,
- 'site': 'GCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 12,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (13, 12, None, None, 'GCAGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCAGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BseXI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCCAGC'),
'compsite': '(?P<BseYI>CCCAGC)|(?P<BseYI_as>GCTGGG)',
- 'results': None,
- 'site': 'CCCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCCAGC'),
- 'ovhgseq': 'CCAG',
+ 'site': 'CCCAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BseYI'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'GTGCAG'),
'compsite': '(?P<BsgI>GTGCAG)|(?P<BsgI_as>CTGCAC)',
- 'results': None,
- 'site': 'GTGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
+ 'inact_temp': 65,
'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (22, 14, None, None, 'GTGCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GTGCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsgI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<Bsh1236I>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsh1236I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CGRYCG'),
'compsite': '(?P<Bsh1285I>CG[AG][CT]CG)',
- 'results': None,
- 'site': 'CGRYCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -4,
'fst5': 4,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'RY',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CGRYCG'),
- 'ovhgseq': 'RY',
+ 'site': 'CGRYCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsh1285I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCC'),
'compsite': '(?P<BshFI>GGCC)',
- 'results': None,
- 'site': 'GGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['BshFI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGYRCC'),
'compsite': '(?P<BshNI>GG[CT][AG]CC)',
- 'results': None,
- 'site': 'GGYRCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GYRC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGYRCC'),
- 'ovhgseq': 'GYRC',
+ 'site': 'GGYRCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BshNI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCGGT'),
'compsite': '(?P<BshTI>ACCGGT)',
- 'results': None,
- 'site': 'ACCGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCGGT'),
- 'ovhgseq': 'CCGG',
+ 'site': 'ACCGGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BshTI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<BshVI>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BshVI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CGRYCG'),
'compsite': '(?P<BsiEI>CG[AG][CT]CG)',
- 'results': None,
- 'site': 'CGRYCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -4,
'fst5': 4,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'RY',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CGRYCG'),
- 'ovhgseq': 'RY',
+ 'site': 'CGRYCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsiEI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GWGCWC'),
'compsite': '(?P<BsiHKAI>G[AT]GC[AT]C)',
- 'results': None,
- 'site': 'GWGCWC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'WGCW',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GWGCWC'),
- 'ovhgseq': 'WGCW',
+ 'site': 'GWGCWC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsiHKAI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CYCGRG'),
'compsite': '(?P<BsiHKCI>C[CT]CG[AG]G)',
- 'results': None,
- 'site': 'CYCGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': ('Q', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['BsiHKCI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CACGAG'),
'compsite': '(?P<BsiI>CACGAG)|(?P<BsiI_as>CTCGTG)',
- 'results': None,
- 'site': 'CACGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'ACGA',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CACGAG'),
- 'ovhgseq': 'ACGA',
+ 'site': 'CACGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BsiI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGG'),
'compsite': '(?P<BsiSI>CCGG)',
- 'results': None,
- 'site': 'CCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGG'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'Y'),
}
+
+
rest_dict['BsiSI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGTACG'),
'compsite': '(?P<BsiWI>CGTACG)',
- 'results': None,
- 'site': 'CGTACG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGTACG'),
- 'ovhgseq': 'GTAC',
+ 'site': 'CGTACG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsiWI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
'compsite': '(?P<BsiYI>CC.......GG)',
- 'results': None,
- 'site': 'CCNNNNNNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCNNNNNNNGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BsiYI'] = _temp()
def _temp():
return {
+ 'charac': (15, 14, None, None, 'GGGAC'),
'compsite': '(?P<BslFI>GGGAC)|(?P<BslFI_as>GTCCC)',
- 'results': None,
- 'site': 'GGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 14,
'fst5': 15,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (15, 14, None, None, 'GGGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGGAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BslFI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
'compsite': '(?P<BslI>CC.......GG)',
- 'results': None,
- 'site': 'CCNNNNNNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCNNNNNNNGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCNNNNNNNGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BslI'] = _temp()
def _temp():
return {
+ 'charac': (6, 5, None, None, 'GTCTC'),
'compsite': '(?P<BsmAI>GTCTC)|(?P<BsmAI_as>GAGAC)',
- 'results': None,
- 'site': 'GTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (6, 5, None, None, 'GTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GTCTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsmAI'] = _temp()
def _temp():
return {
+ 'charac': (7, 5, None, None, 'CGTCTC'),
'compsite': '(?P<BsmBI>CGTCTC)|(?P<BsmBI_as>GAGACG)',
- 'results': None,
- 'site': 'CGTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, 5, None, None, 'CGTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CGTCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsmBI'] = _temp()
def _temp():
return {
+ 'charac': (15, 14, None, None, 'GGGAC'),
'compsite': '(?P<BsmFI>GGGAC)|(?P<BsmFI_as>GTCCC)',
- 'results': None,
- 'site': 'GGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 14,
'fst5': 15,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (15, 14, None, None, 'GGGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGGAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsmFI'] = _temp()
def _temp():
return {
+ 'charac': (7, -1, None, None, 'GAATGC'),
'compsite': '(?P<BsmI>GAATGC)|(?P<BsmI_as>GCATTC)',
- 'results': None,
- 'site': 'GAATGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CN',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'M', 'N', 'S'),
'scd5': None,
- 'charac': (7, -1, None, None, 'GAATGC'),
- 'ovhgseq': 'CN',
+ 'site': 'GAATGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'M', 'N', 'S'),
}
+
+
rest_dict['BsmI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCC'),
'compsite': '(?P<BsnI>GGCC)',
- 'results': None,
- 'site': 'GGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BsnI'] = _temp()
def _temp():
return {
+ 'charac': (7, 5, None, None, 'GGTCTC'),
'compsite': '(?P<Bso31I>GGTCTC)|(?P<Bso31I_as>GAGACC)',
- 'results': None,
- 'site': 'GGTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (7, 5, None, None, 'GGTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGTCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bso31I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CYCGRG'),
'compsite': '(?P<BsoBI>C[CT]CG[AG]G)',
- 'results': None,
- 'site': 'CYCGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsoBI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<Bsp119I>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsp119I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGGCCC'),
'compsite': '(?P<Bsp120I>GGGCCC)',
- 'results': None,
- 'site': 'GGGCCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGGCCC'),
- 'ovhgseq': 'GGCC',
+ 'site': 'GGGCCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsp120I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GDGCHC'),
'compsite': '(?P<Bsp1286I>G[AGT]GC[ACT]C)',
- 'results': None,
- 'site': 'GDGCHC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 455.1111111111111,
'fst3': -5,
'fst5': 5,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'DGCH',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'K', 'N'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GDGCHC'),
- 'ovhgseq': 'DGCH',
+ 'site': 'GDGCHC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'K', 'N'),
}
-rest_dict['Bsp1286I'] = _temp()
+
+
+rest_dict['Bsp1286I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<Bsp13I>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bsp13I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TGTACA'),
'compsite': '(?P<Bsp1407I>TGTACA)',
- 'results': None,
- 'site': 'TGTACA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TGTACA'),
- 'ovhgseq': 'GTAC',
+ 'site': 'TGTACA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Bsp1407I'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<Bsp143I>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsp143I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCTNAGC'),
'compsite': '(?P<Bsp1720I>GCT.AGC)',
- 'results': None,
- 'site': 'GCTNAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCTNAGC'),
- 'ovhgseq': 'TNA',
+ 'site': 'GCTNAGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bsp1720I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCATGG'),
'compsite': '(?P<Bsp19I>CCATGG)',
- 'results': None,
- 'site': 'CCATGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCATGG'),
- 'ovhgseq': 'CATG',
+ 'site': 'CCATGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bsp19I'] = _temp()
def _temp():
return {
+ 'charac': (-8, -25, 24, 7, 'GACNNNNNNTGG'),
'compsite': '(?P<Bsp24I>GAC......TGG)|(?P<Bsp24I_as>CCA......GTC)',
- 'results': None,
- 'site': 'GACNNNNNNTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -25,
'fst5': -8,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 7,
- 'suppl': (),
'scd5': 24,
- 'charac': (-8, -25, 24, 7, 'GACNNNNNNTGG'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GACNNNNNNTGG',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Bsp24I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCGCAT'),
'compsite': '(?P<Bsp3004IV>CCGCAT)|(?P<Bsp3004IV_as>ATGCGG)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
+ 'scd3': None,
+ 'scd5': None,
'site': 'CCGCAT',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Bsp3004IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'CGCGCAG'),
+ 'compsite': '(?P<Bsp460III>CGCGCAG)|(?P<Bsp460III_as>CTGCGCG)',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCGCAT'),
- 'ovhgseq': None,
+ 'site': 'CGCGCAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['Bsp3004IV'] = _temp()
+
+
+rest_dict['Bsp460III'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TCGCGA'),
'compsite': '(?P<Bsp68I>TCGCGA)',
- 'results': None,
- 'site': 'TCGCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TCGCGA'),
- 'ovhgseq': '',
+ 'site': 'TCGCGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsp68I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGC'),
'compsite': '(?P<BspACI>CCGC)|(?P<BspACI_as>GCGG)',
- 'results': None,
- 'site': 'CCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BspACI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCC'),
'compsite': '(?P<BspANI>GGCC)',
- 'results': None,
- 'site': 'GGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('X',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('X',),
}
+
+
rest_dict['BspANI'] = _temp()
def _temp():
return {
+ 'charac': (14, 7, None, None, 'CTCAG'),
'compsite': '(?P<BspCNI>CTCAG)|(?P<BspCNI_as>CTGAG)',
- 'results': None,
- 'site': 'CTCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 7,
'fst5': 14,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (14, 7, None, None, 'CTCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTCAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BspCNI'] = _temp()
def _temp():
return {
+ 'charac': (9, 6, None, None, 'GACTC'),
'compsite': '(?P<BspD6I>GACTC)|(?P<BspD6I_as>GAGTC)',
- 'results': None,
- 'site': 'GACTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 6,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (9, 6, None, None, 'GACTC'),
- 'ovhgseq': 'NN',
- }
-rest_dict['BspD6I'] = _temp()
-
+ 'site': 'GACTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['BspD6I'] = _temp()
+
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<BspDI>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BspDI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<BspEI>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BspEI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<BspFNI>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BspFNI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CTGGAC'),
'compsite': '(?P<BspGI>CTGGAC)|(?P<BspGI_as>GTCCAG)',
- 'results': None,
- 'site': 'CTGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CTGGAC'),
- 'ovhgseq': None,
+ 'site': 'CTGGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BspGI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCATGA'),
'compsite': '(?P<BspHI>TCATGA)',
- 'results': None,
- 'site': 'TCATGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCATGA'),
- 'ovhgseq': 'CATG',
+ 'site': 'TCATGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BspHI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGNNCC'),
'compsite': '(?P<BspLI>GG..CC)',
- 'results': None,
- 'site': 'GGNNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGNNCC'),
- 'ovhgseq': '',
+ 'site': 'GGNNCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BspLI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACATGT'),
'compsite': '(?P<BspLU11I>ACATGT)',
- 'results': None,
- 'site': 'ACATGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACATGT'),
- 'ovhgseq': 'CATG',
+ 'site': 'ACATGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BspLU11I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CTGCAG'),
'compsite': '(?P<BspMAI>CTGCAG)',
- 'results': None,
- 'site': 'CTGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('X',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CTGCAG'),
- 'ovhgseq': 'TGCA',
+ 'site': 'CTGCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('X',),
}
+
+
rest_dict['BspMAI'] = _temp()
def _temp():
return {
+ 'charac': (10, 8, None, None, 'ACCTGC'),
'compsite': '(?P<BspMI>ACCTGC)|(?P<BspMI_as>GCAGGT)',
- 'results': None,
- 'site': 'ACCTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 8,
'fst5': 10,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (10, 8, None, None, 'ACCTGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'ACCTGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BspMI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<BspMII>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BspMII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCAGA'),
'compsite': '(?P<BspNCI>CCAGA)|(?P<BspNCI_as>TCTGG)',
- 'results': None,
- 'site': 'CCAGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCAGA'),
- 'ovhgseq': None,
+ 'site': 'CCAGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BspNCI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCTAGC'),
'compsite': '(?P<BspOI>GCTAGC)',
- 'results': None,
- 'site': 'GCTAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCTAGC'),
- 'ovhgseq': 'CTAG',
+ 'site': 'GCTAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BspOI'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'GGATC'),
'compsite': '(?P<BspPI>GGATC)|(?P<BspPI_as>GATCC)',
- 'results': None,
- 'site': 'GGATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
+ 'inact_temp': 65,
'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (9, 5, None, None, 'GGATC'),
- 'ovhgseq': 'N',
+ 'site': 'GGATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BspPI'] = _temp()
def _temp():
return {
+ 'charac': (8, 4, None, None, 'GCTCTTC'),
'compsite': '(?P<BspQI>GCTCTTC)|(?P<BspQI_as>GAAGAGC)',
- 'results': None,
- 'site': 'GCTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 4,
'fst5': 8,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (8, 4, None, None, 'GCTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCTCTTC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BspQI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<BspT104I>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['BspT104I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGYRCC'),
'compsite': '(?P<BspT107I>GG[CT][AG]CC)',
- 'results': None,
- 'site': 'GGYRCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GYRC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGYRCC'),
- 'ovhgseq': 'GYRC',
+ 'site': 'GGYRCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['BspT107I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTTAAG'),
'compsite': '(?P<BspTI>CTTAAG)',
- 'results': None,
- 'site': 'CTTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TTAA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTTAAG'),
- 'ovhgseq': 'TTAA',
+ 'site': 'CTTAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BspTI'] = _temp()
def _temp():
return {
+ 'charac': (7, 5, None, None, 'GGTCTC'),
'compsite': '(?P<BspTNI>GGTCTC)|(?P<BspTNI_as>GAGACC)',
- 'results': None,
- 'site': 'GGTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('X',),
'scd5': None,
- 'charac': (7, 5, None, None, 'GGTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGTCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('X',),
}
+
+
rest_dict['BspTNI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CCGCTC'),
'compsite': '(?P<BsrBI>CCGCTC)|(?P<BsrBI_as>GAGCGG)',
- 'results': None,
- 'site': 'CCGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CCGCTC'),
- 'ovhgseq': '',
+ 'site': 'CCGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsrBI'] = _temp()
def _temp():
return {
+ 'charac': (8, 0, None, None, 'GCAATG'),
'compsite': '(?P<BsrDI>GCAATG)|(?P<BsrDI_as>CATTGC)',
- 'results': None,
- 'site': 'GCAATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 0,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (8, 0, None, None, 'GCAATG'),
- 'ovhgseq': 'NN',
+ 'site': 'GCAATG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsrDI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RCCGGY'),
'compsite': '(?P<BsrFI>[AG]CCGG[CT])',
- 'results': None,
- 'site': 'RCCGGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RCCGGY'),
- 'ovhgseq': 'CCGG',
+ 'site': 'RCCGGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsrFI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TGTACA'),
'compsite': '(?P<BsrGI>TGTACA)',
- 'results': None,
- 'site': 'TGTACA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TGTACA'),
- 'ovhgseq': 'GTAC',
+ 'site': 'TGTACA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsrGI'] = _temp()
def _temp():
return {
+ 'charac': (6, -1, None, None, 'ACTGG'),
'compsite': '(?P<BsrI>ACTGG)|(?P<BsrI_as>CCAGT)',
- 'results': None,
- 'site': 'ACTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (6, -1, None, None, 'ACTGG'),
- 'ovhgseq': 'GN',
+ 'site': 'ACTGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BsrI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RCCGGY'),
'compsite': '(?P<BssAI>[AG]CCGG[CT])',
- 'results': None,
- 'site': 'RCCGGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RCCGGY'),
- 'ovhgseq': 'CCGG',
+ 'site': 'RCCGGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['BssAI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCNNGG'),
'compsite': '(?P<BssECI>CC..GG)',
- 'results': None,
- 'site': 'CCNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CNNG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCNNGG'),
- 'ovhgseq': 'CNNG',
+ 'site': 'CCNNGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BssECI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGCGC'),
'compsite': '(?P<BssHII>GCGCGC)',
- 'results': None,
- 'site': 'GCGCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'K', 'M', 'N', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGCGC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GCGCGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'K', 'M', 'N', 'Q', 'R', 'X'),
}
+
+
rest_dict['BssHII'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<BssMI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BssMI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTATAC'),
'compsite': '(?P<BssNAI>GTATAC)',
- 'results': None,
- 'site': 'GTATAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTATAC'),
- 'ovhgseq': '',
+ 'site': 'GTATAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BssNAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GRCGYC'),
'compsite': '(?P<BssNI>G[AG]CG[CT]C)',
- 'results': None,
- 'site': 'GRCGYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GRCGYC'),
- 'ovhgseq': 'CG',
+ 'site': 'GRCGYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BssNI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CACGAG'),
'compsite': '(?P<BssSI>CACGAG)|(?P<BssSI_as>CTCGTG)',
- 'results': None,
- 'site': 'CACGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'ACGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CACGAG'),
- 'ovhgseq': 'ACGA',
+ 'site': 'CACGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BssSI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCWWGG'),
'compsite': '(?P<BssT1I>CC[AT][AT]GG)',
- 'results': None,
- 'site': 'CCWWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CWWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCWWGG'),
- 'ovhgseq': 'CWWG',
+ 'site': 'CCWWGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BssT1I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTATAC'),
'compsite': '(?P<Bst1107I>GTATAC)',
- 'results': None,
- 'site': 'GTATAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTATAC'),
- 'ovhgseq': '',
+ 'site': 'GTATAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Bst1107I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CACGAG'),
'compsite': '(?P<Bst2BI>CACGAG)|(?P<Bst2BI_as>CTCGTG)',
- 'results': None,
- 'site': 'CACGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'ACGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CACGAG'),
- 'ovhgseq': 'ACGA',
+ 'site': 'CACGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Bst2BI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCWGG'),
'compsite': '(?P<Bst2UI>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'W',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCWGG'),
- 'ovhgseq': 'W',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bst2UI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'ACNGT'),
'compsite': '(?P<Bst4CI>AC.GT)',
- 'results': None,
- 'site': 'ACNGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'ACNGT'),
- 'ovhgseq': 'N',
+ 'site': 'ACNGT',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bst4CI'] = _temp()
def _temp():
return {
+ 'charac': (7, 4, None, None, 'CTCTTC'),
'compsite': '(?P<Bst6I>CTCTTC)|(?P<Bst6I_as>GAAGAG)',
- 'results': None,
- 'site': 'CTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (7, 4, None, None, 'CTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'CTCTTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Bst6I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GRCGYC'),
'compsite': '(?P<BstACI>G[AG]CG[CT]C)',
- 'results': None,
- 'site': 'GRCGYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GRCGYC'),
- 'ovhgseq': 'CG',
+ 'site': 'GRCGYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstACI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTTAAG'),
'compsite': '(?P<BstAFI>CTTAAG)',
- 'results': None,
- 'site': 'CTTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TTAA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTTAAG'),
- 'ovhgseq': 'TTAA',
+ 'site': 'CTTAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
-rest_dict['BstAFI'] = _temp()
+
+
+rest_dict['BstAFI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GCANNNNNTGC'),
'compsite': '(?P<BstAPI>GCA.....TGC)',
- 'results': None,
- 'site': 'GCANNNNNTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (7, -7, None, None, 'GCANNNNNTGC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCANNNNNTGC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['BstAPI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TGTACA'),
'compsite': '(?P<BstAUI>TGTACA)',
- 'results': None,
- 'site': 'TGTACA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TGTACA'),
- 'ovhgseq': 'GTAC',
+ 'site': 'TGTACA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstAUI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'YACGTR'),
'compsite': '(?P<BstBAI>[CT]ACGT[AG])',
- 'results': None,
- 'site': 'YACGTR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'YACGTR'),
- 'ovhgseq': '',
+ 'site': 'YACGTR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstBAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<BstBI>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BstBI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCNNGC'),
'compsite': '(?P<BstC8I>GC..GC)',
- 'results': None,
- 'site': 'GCNNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCNNGC'),
- 'ovhgseq': '',
+ 'site': 'GCNNGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstC8I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTNAG'),
'compsite': '(?P<BstDEI>CT.AG)',
- 'results': None,
- 'site': 'CTNAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTNAG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CTNAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstDEI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCRYGG'),
'compsite': '(?P<BstDSI>CC[AG][CT]GG)',
- 'results': None,
- 'site': 'CCRYGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CRYG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCRYGG'),
- 'ovhgseq': 'CRYG',
+ 'site': 'CCRYGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstDSI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTNACC'),
'compsite': '(?P<BstEII>GGT.ACC)',
- 'results': None,
- 'site': 'GGTNACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTNAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'J', 'N', 'R', 'S'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTNACC'),
- 'ovhgseq': 'GTNAC',
+ 'site': 'GGTNACC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'J', 'N', 'R'),
}
+
+
rest_dict['BstEII'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CCTNNNNNAGG'),
'compsite': '(?P<BstENI>CCT.....AGG)',
- 'results': None,
- 'site': 'CCTNNNNNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'CCTNNNNNAGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCTNNNNNAGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstENI'] = _temp()
def _temp():
return {
+ 'charac': (7, 0, None, None, 'GGATG'),
'compsite': '(?P<BstF5I>GGATG)|(?P<BstF5I_as>CATCC)',
- 'results': None,
- 'site': 'GGATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 0,
'fst5': 7,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (7, 0, None, None, 'GGATG'),
- 'ovhgseq': 'NN',
+ 'site': 'GGATG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstF5I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<BstFNI>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstFNI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'RGCGCY'),
'compsite': '(?P<BstH2I>[AG]GCGC[CT])',
- 'results': None,
- 'site': 'RGCGCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GCGC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'RGCGCY'),
- 'ovhgseq': 'GCGC',
+ 'site': 'RGCGCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstH2I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCGC'),
'compsite': '(?P<BstHHI>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
- }
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
+ }
+
+
rest_dict['BstHHI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GATC'),
'compsite': '(?P<BstKTI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GATC'),
- 'ovhgseq': 'AT',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstKTI'] = _temp()
def _temp():
return {
+ 'charac': (6, 5, None, None, 'GTCTC'),
'compsite': '(?P<BstMAI>GTCTC)|(?P<BstMAI_as>GAGAC)',
- 'results': None,
- 'site': 'GTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (6, 5, None, None, 'GTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GTCTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstMAI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<BstMBI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstMBI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CGRYCG'),
'compsite': '(?P<BstMCI>CG[AG][CT]CG)',
- 'results': None,
- 'site': 'CGRYCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -4,
'fst5': 4,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'RY',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (4, -4, None, None, 'CGRYCG'),
- 'ovhgseq': 'RY',
+ 'site': 'CGRYCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstMCI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GCNNNNNNNGC'),
'compsite': '(?P<BstMWI>GC.......GC)',
- 'results': None,
- 'site': 'GCNNNNNNNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (7, -7, None, None, 'GCNNNNNNNGC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCNNNNNNNGC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstMWI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCWGG'),
'compsite': '(?P<BstNI>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'W',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCWGG'),
- 'ovhgseq': 'W',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BstNI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'RCATGY'),
'compsite': '(?P<BstNSI>[AG]CATG[CT])',
- 'results': None,
- 'site': 'RCATGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'RCATGY'),
- 'ovhgseq': 'CATG',
+ 'site': 'RCATGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstNSI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GACNNNNGTC'),
'compsite': '(?P<BstPAI>GAC....GTC)',
- 'results': None,
- 'site': 'GACNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GACNNNNGTC'),
- 'ovhgseq': '',
+ 'site': 'GACNNNNGTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstPAI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTNACC'),
'compsite': '(?P<BstPI>GGT.ACC)',
- 'results': None,
- 'site': 'GGTNACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTNAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTNACC'),
- 'ovhgseq': 'GTNAC',
+ 'site': 'GGTNACC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['BstPI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCNGG'),
'compsite': '(?P<BstSCI>CC.GG)',
- 'results': None,
- 'site': 'CCNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCNGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCNGG'),
- 'ovhgseq': 'CCNGG',
+ 'site': 'CCNGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstSCI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTRYAG'),
'compsite': '(?P<BstSFI>CT[AG][CT]AG)',
- 'results': None,
- 'site': 'CTRYAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TRYA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTRYAG'),
- 'ovhgseq': 'TRYA',
+ 'site': 'CTRYAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstSFI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GKGCMC'),
'compsite': '(?P<BstSLI>G[GT]GC[AC]C)',
- 'results': None,
- 'site': 'GKGCMC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'KGCM',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GKGCMC'),
- 'ovhgseq': 'KGCM',
+ 'site': 'GKGCMC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstSLI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TACGTA'),
'compsite': '(?P<BstSNI>TACGTA)',
- 'results': None,
- 'site': 'TACGTA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TACGTA'),
- 'ovhgseq': '',
+ 'site': 'TACGTA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstSNI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<BstUI>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BstUI'] = _temp()
def _temp():
return {
+ 'charac': (13, 12, None, None, 'GCAGC'),
'compsite': '(?P<BstV1I>GCAGC)|(?P<BstV1I_as>GCTGC)',
- 'results': None,
- 'site': 'GCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 12,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (13, 12, None, None, 'GCAGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCAGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BstV1I'] = _temp()
def _temp():
return {
+ 'charac': (8, 6, None, None, 'GAAGAC'),
'compsite': '(?P<BstV2I>GAAGAC)|(?P<BstV2I_as>GTCTTC)',
- 'results': None,
- 'site': 'GAAGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 6,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (8, 6, None, None, 'GAAGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GAAGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstV2I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RGATCY'),
'compsite': '(?P<BstX2I>[AG]GATC[CT])',
- 'results': None,
- 'site': 'RGATCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'RGATCY'),
- 'ovhgseq': 'GATC',
+ 'site': 'RGATCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['BstX2I'] = _temp()
def _temp():
return {
+ 'charac': (8, -8, None, None, 'CCANNNNNNTGG'),
'compsite': '(?P<BstXI>CCA......TGG)',
- 'results': None,
- 'site': 'CCANNNNNNTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -8,
'fst5': 8,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (8, -8, None, None, 'CCANNNNNNTGG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CCANNNNNNTGG',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'V', 'X', 'Y'),
}
+
+
rest_dict['BstXI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RGATCY'),
'compsite': '(?P<BstYI>[AG]GATC[CT])',
- 'results': None,
- 'site': 'RGATCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RGATCY'),
- 'ovhgseq': 'GATC',
+ 'site': 'RGATCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BstYI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTATAC'),
'compsite': '(?P<BstZ17I>GTATAC)',
- 'results': None,
- 'site': 'GTATAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTATAC'),
- 'ovhgseq': '',
+ 'site': 'GTATAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BstZ17I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCG'),
'compsite': '(?P<BstZI>CGGCCG)',
- 'results': None,
- 'site': 'CGGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('R',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCG'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('R',),
}
+
+
rest_dict['BstZI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<Bsu15I>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Bsu15I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTNAGG'),
'compsite': '(?P<Bsu36I>CCT.AGG)',
- 'results': None,
- 'site': 'CCTNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
- 'scd3': None,
- 'suppl': ('N',),
- 'scd5': None,
- 'charac': (2, -2, None, None, 'CCTNAGG'),
'ovhgseq': 'TNA',
- }
-rest_dict['Bsu36I'] = _temp()
-
-
-def _temp():
- return {
- 'compsite': '(?P<Bsu7003I>GACGAGC)|(?P<Bsu7003I_as>GCTCGTC)',
'results': None,
- 'site': 'GACGAGC',
- 'substrat': 'DNA',
- 'fst3': None,
- 'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
- 'ovhg': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GACGAGC'),
- 'ovhgseq': None,
+ 'site': 'CCTNAGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
-rest_dict['Bsu7003I'] = _temp()
+
+
+rest_dict['Bsu36I'] = _temp()
def _temp():
return {
+ 'charac': (12, 5, None, None, 'GTATCC'),
'compsite': '(?P<BsuI>GTATCC)|(?P<BsuI_as>GGATAC)',
- 'results': None,
- 'site': 'GTATCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 12,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (12, 5, None, None, 'GTATCC'),
- 'ovhgseq': 'N',
+ 'site': 'GTATCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BsuI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCC'),
'compsite': '(?P<BsuRI>GGCC)',
- 'results': None,
- 'site': 'GGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I'),
}
+
+
rest_dict['BsuRI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<BsuTUI>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('X',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('X',),
}
+
+
rest_dict['BsuTUI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCRYGG'),
'compsite': '(?P<BtgI>CC[AG][CT]GG)',
- 'results': None,
- 'site': 'CCRYGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CRYG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCRYGG'),
- 'ovhgseq': 'CRYG',
+ 'site': 'CCRYGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BtgI'] = _temp()
def _temp():
return {
+ 'charac': (16, 14, None, None, 'GCGATG'),
'compsite': '(?P<BtgZI>GCGATG)|(?P<BtgZI_as>CATCGC)',
- 'results': None,
- 'site': 'GCGATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 16,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (16, 14, None, None, 'GCGATG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCGATG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BtgZI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GCNGC'),
'compsite': '(?P<BthCI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'CNG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (4, -4, None, None, 'GCNGC'),
- 'ovhgseq': 'CNG',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['BthCI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTC'),
'compsite': '(?P<BtrI>CACGTC)|(?P<BtrI_as>GACGTG)',
- 'results': None,
- 'site': 'CACGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTC'),
- 'ovhgseq': '',
+ 'site': 'CACGTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['BtrI'] = _temp()
def _temp():
return {
+ 'charac': (7, 0, None, None, 'GGATG'),
'compsite': '(?P<BtsCI>GGATG)|(?P<BtsCI_as>CATCC)',
- 'results': None,
- 'site': 'GGATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 0,
'fst5': 7,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, 0, None, None, 'GGATG'),
- 'ovhgseq': 'NN',
+ 'site': 'GGATG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BtsCI'] = _temp()
def _temp():
return {
+ 'charac': (8, 0, None, None, 'GCAGTG'),
'compsite': '(?P<BtsI>GCAGTG)|(?P<BtsI_as>CACTGC)',
- 'results': None,
- 'site': 'GCAGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 0,
'fst5': 8,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (8, 0, None, None, 'GCAGTG'),
- 'ovhgseq': 'NN',
+ 'site': 'GCAGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BtsI'] = _temp()
def _temp():
return {
+ 'charac': (7, 0, None, None, 'CAGTG'),
'compsite': '(?P<BtsIMutI>CAGTG)|(?P<BtsIMutI_as>CACTG)',
- 'results': None,
- 'site': 'CAGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 0,
'fst5': 7,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, 0, None, None, 'CAGTG'),
- 'ovhgseq': 'NN',
+ 'site': 'CAGTG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['BtsIMutI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TCGCGA'),
'compsite': '(?P<BtuMI>TCGCGA)',
- 'results': None,
- 'site': 'TCGCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TCGCGA'),
- 'ovhgseq': '',
+ 'site': 'TCGCGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['BtuMI'] = _temp()
def _temp():
return {
+ 'charac': (10, 8, None, None, 'ACCTGC'),
'compsite': '(?P<BveI>ACCTGC)|(?P<BveI_as>GCAGGT)',
- 'results': None,
- 'site': 'ACCTGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 8,
'fst5': 10,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (10, 8, None, None, 'ACCTGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'ACCTGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['BveI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCNNGC'),
'compsite': '(?P<Cac8I>GC..GC)',
- 'results': None,
- 'site': 'GCNNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCNNGC'),
- 'ovhgseq': '',
+ 'site': 'GCNNGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Cac8I'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CAGNNNCTG'),
'compsite': '(?P<CaiI>CAG...CTG)',
- 'results': None,
- 'site': 'CAGNNNCTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (6, -6, None, None, 'CAGNNNCTG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CAGNNNCTG',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['CaiI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGTTAG'),
'compsite': '(?P<Cal14237I>GGTTAG)|(?P<Cal14237I_as>CTAACC)',
- 'results': None,
- 'site': 'GGTTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGTTAG'),
- 'ovhgseq': None,
+ 'site': 'GGTTAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cal14237I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GRTTRAG'),
'compsite': '(?P<CalB3II>G[AG]TT[AG]AG)|(?P<CalB3II_as>CT[CT]AA[CT]C)',
- 'results': None,
- 'site': 'GRTTRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GRTTRAG'),
- 'ovhgseq': None,
+ 'site': 'GRTTRAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CalB3II'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GTTAAT'),
'compsite': '(?P<Cau10061II>GTTAAT)|(?P<Cau10061II_as>ATTAAC)',
- 'results': None,
- 'site': 'GTTAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GTTAAT'),
- 'ovhgseq': None,
+ 'site': 'GTTAAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cau10061II'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCSGG'),
'compsite': '(?P<CauII>CC[CG]GG)',
- 'results': None,
- 'site': 'CCSGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'S',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCSGG'),
- 'ovhgseq': 'S',
+ 'site': 'CCSGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CauII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'AGGAAT'),
'compsite': '(?P<Cba13II>AGGAAT)|(?P<Cba13II_as>ATTCCT)',
- 'results': None,
- 'site': 'AGGAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'AGGAAT'),
- 'ovhgseq': None,
+ 'site': 'AGGAAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cba13II'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCTNAYNC'),
'compsite': '(?P<Cba16038I>CCT.A[CT].C)|(?P<Cba16038I_as>G.[AG]T.AGG)',
- 'results': None,
- 'site': 'CCTNAYNC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCTNAYNC'),
- 'ovhgseq': None,
+ 'site': 'CCTNAYNC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cba16038I'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'GGARGA'),
'compsite': '(?P<CchII>GGA[AG]GA)|(?P<CchII_as>TC[CT]TCC)',
- 'results': None,
- 'site': 'GGARGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 9,
'fst5': 17,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (17, 9, None, None, 'GGARGA'),
- 'ovhgseq': 'NN',
+ 'site': 'GGARGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CchII'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'CCCAAG'),
'compsite': '(?P<CchIII>CCCAAG)|(?P<CchIII_as>CTTGGG)',
- 'results': None,
- 'site': 'CCCAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 26,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 18, None, None, 'CCCAAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CCCAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CchIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCATGA'),
'compsite': '(?P<CciI>TCATGA)',
- 'results': None,
- 'site': 'TCATGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCATGA'),
- 'ovhgseq': 'CATG',
+ 'site': 'TCATGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['CciI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCGGCCGC'),
'compsite': '(?P<CciNI>GCGGCCGC)',
- 'results': None,
- 'site': 'GCGGCCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCGGCCGC'),
- 'ovhgseq': 'GGCC',
+ 'site': 'GCGGCCGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['CciNI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGACCAG'),
'compsite': '(?P<CcrNAIII>CGACCAG)|(?P<CcrNAIII_as>CTGGTCG)',
- 'results': None,
- 'site': 'CGACCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGACCAG'),
- 'ovhgseq': None,
+ 'site': 'CGACCAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CcrNAIII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCGCAG'),
'compsite': '(?P<Cdi11397I>GCGCAG)|(?P<Cdi11397I_as>CTGCGC)',
- 'results': None,
- 'site': 'GCGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCGCAG'),
- 'ovhgseq': None,
+ 'site': 'GCGCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cdi11397I'] = _temp()
def _temp():
return {
+ 'charac': (4, -1, None, None, 'CATCG'),
'compsite': '(?P<CdiI>CATCG)|(?P<CdiI_as>CGATG)',
- 'results': None,
- 'site': 'CATCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 4,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (4, -1, None, None, 'CATCG'),
- 'ovhgseq': '',
+ 'site': 'CATCG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CdiI'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'GCGGAG'),
'compsite': '(?P<CdpI>GCGGAG)|(?P<CdpI_as>CTCCGC)',
- 'results': None,
- 'site': 'GCGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 26,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 18, None, None, 'GCGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GCGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CdpI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GTGAAG'),
'compsite': '(?P<Cdu23823II>GTGAAG)|(?P<Cdu23823II_as>CTTCAC)',
- 'results': None,
- 'site': 'GTGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GTGAAG'),
- 'ovhgseq': None,
+ 'site': 'GTGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cdu23823II'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCGC'),
'compsite': '(?P<CfoI>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('M', 'R', 'S'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'R', 'S'),
}
+
+
rest_dict['CfoI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RCCGGY'),
'compsite': '(?P<Cfr10I>[AG]CCGG[CT])',
- 'results': None,
- 'site': 'RCCGGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (1, -1, None, None, 'RCCGGY'),
- 'ovhgseq': 'CCGG',
+ 'site': 'RCCGGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Cfr10I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGNCC'),
'compsite': '(?P<Cfr13I>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Cfr13I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CCGCGG'),
'compsite': '(?P<Cfr42I>CCGCGG)',
- 'results': None,
- 'site': 'CCGCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CCGCGG'),
- 'ovhgseq': 'GC',
+ 'site': 'CCGCGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Cfr42I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCCGGG'),
'compsite': '(?P<Cfr9I>CCCGGG)',
- 'results': None,
- 'site': 'CCCGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCCGGG'),
- 'ovhgseq': 'CCGG',
+ 'site': 'CCCGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Cfr9I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'YGGCCR'),
'compsite': '(?P<CfrI>[CT]GGCC[AG])',
- 'results': None,
- 'site': 'YGGCCR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'YGGCCR'),
- 'ovhgseq': 'GGCC',
+ 'site': 'YGGCCR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CfrI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<Cgl13032I>GGCGCA)|(?P<Cgl13032I_as>TGCGCC)',
- 'results': None,
- 'site': 'GGCGCA',
- 'substrat': 'DNA',
+ 'charac': (None, None, None, None, 'GARCAG'),
+ 'compsite': '(?P<Cfupf3II>GA[AG]CAG)|(?P<Cfupf3II_as>CTG[CT]TC)',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
+ 'site': 'GARCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Cfupf3II'] = _temp()
+
+
+def _temp():
+ return {
'charac': (None, None, None, None, 'GGCGCA'),
+ 'compsite': '(?P<Cgl13032I>GGCGCA)|(?P<Cgl13032I_as>TGCGCC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GGCGCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cgl13032I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ACGABGG'),
'compsite': '(?P<Cgl13032II>ACGA[CGT]GG)|(?P<Cgl13032II_as>CC[ACG]TCGT)',
- 'results': None,
- 'site': 'ACGABGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 5461.333333333333,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ACGABGG'),
- 'ovhgseq': None,
+ 'site': 'ACGABGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cgl13032II'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GATC'),
'compsite': '(?P<ChaI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (4, -4, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['ChaI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCAAGG'),
'compsite': '(?P<CjeFIII>GCAAGG)|(?P<CjeFIII_as>CCTTGC)',
- 'results': None,
- 'site': 'GCAAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCAAGG'),
- 'ovhgseq': None,
+ 'site': 'GCAAGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['CjeFIII'] = _temp()
+
+
+rest_dict['CjeFIII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGRCA'),
'compsite': '(?P<CjeFV>GG[AG]CA)|(?P<CjeFV_as>TG[CT]CC)',
- 'results': None,
- 'site': 'GGRCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': None,
'fst5': None,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGRCA'),
- 'ovhgseq': None,
+ 'site': 'GGRCA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjeFV'] = _temp()
def _temp():
return {
+ 'charac': (-8, -25, 26, 9, 'CCANNNNNNGT'),
'compsite': '(?P<CjeI>CCA......GT)|(?P<CjeI_as>AC......TGG)',
- 'results': None,
- 'site': 'CCANNNNNNGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -25,
'fst5': -8,
- 'freq': 1024,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 6,
+ 'ovhgseq': 'NNNNNN',
+ 'results': None,
'scd3': 9,
- 'suppl': (),
'scd5': 26,
- 'charac': (-8, -25, 26, 9, 'CCANNNNNNGT'),
- 'ovhgseq': 'NNNNNN',
+ 'site': 'CCANNNNNNGT',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjeI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAGNNNNNGT'),
'compsite': '(?P<CjeNII>GAG.....GT)|(?P<CjeNII_as>AC.....CTC)',
- 'results': None,
- 'site': 'GAGNNNNNGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAGNNNNNGT'),
- 'ovhgseq': None,
+ 'site': 'GAGNNNNNGT',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjeNII'] = _temp()
def _temp():
return {
+ 'charac': (25, 17, None, None, 'GKAAYG'),
'compsite': '(?P<CjeNIII>G[GT]AA[CT]G)|(?P<CjeNIII_as>C[AG]TT[AC]C)',
- 'results': None,
- 'site': 'GKAAYG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 17,
'fst5': 25,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (25, 17, None, None, 'GKAAYG'),
- 'ovhgseq': 'NN',
+ 'site': 'GKAAYG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjeNIII'] = _temp()
def _temp():
return {
- 'compsite': '(?P<CjeP659IV>CAC.......GAA)|(?P<CjeP659IV_as>TTC.......GTG)',
- 'results': None,
- 'site': 'CACNNNNNNNGAA',
- 'substrat': 'DNA',
+ 'charac': (None, None, None, None, 'CCYGA'),
+ 'compsite': '(?P<CjeNV>CC[CT]GA)|(?P<CjeNV_as>TC[AG]GG)',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
+ 'site': 'CCYGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['CjeNV'] = _temp()
+
+
+def _temp():
+ return {
'charac': (None, None, None, None, 'CACNNNNNNNGAA'),
+ 'compsite': '(?P<CjeP659IV>CAC.......GAA)|(?P<CjeP659IV_as>TTC.......GTG)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'CACNNNNNNNGAA',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjeP659IV'] = _temp()
def _temp():
return {
+ 'charac': (-7, -25, 26, 8, 'CCANNNNNNNTC'),
'compsite': '(?P<CjePI>CCA.......TC)|(?P<CjePI_as>GA.......TGG)',
- 'results': None,
- 'site': 'CCANNNNNNNTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -25,
'fst5': -7,
- 'freq': 1024,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 6,
+ 'ovhgseq': 'NNNNNN',
+ 'results': None,
'scd3': 8,
- 'suppl': (),
'scd5': 26,
- 'charac': (-7, -25, 26, 8, 'CCANNNNNNNTC'),
- 'ovhgseq': 'NNNNNN',
+ 'site': 'CCANNNNNNNTC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjePI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CAYNNNNNRTG'),
'compsite': '(?P<CjuI>CA[CT].....[AG]TG)',
- 'results': None,
- 'site': 'CAYNNNNNRTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CAYNNNNNRTG'),
- 'ovhgseq': None,
+ 'site': 'CAYNNNNNRTG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjuI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CAYNNNNNCTC'),
'compsite': '(?P<CjuII>CA[CT].....CTC)|(?P<CjuII_as>GAG.....[AG]TG)',
- 'results': None,
- 'site': 'CAYNNNNNCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CAYNNNNNCTC'),
- 'ovhgseq': None,
+ 'site': 'CAYNNNNNCTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CjuII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCGAA'),
'compsite': '(?P<Cla11845III>GCGAA)|(?P<Cla11845III_as>TTCGC)',
- 'results': None,
- 'site': 'GCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCGAA'),
- 'ovhgseq': None,
+ 'site': 'GCGAA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cla11845III'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATCGAT'),
'compsite': '(?P<ClaI>ATCGAT)',
- 'results': None,
- 'site': 'ATCGAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATCGAT'),
- 'ovhgseq': 'CG',
+ 'site': 'ATCGAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['ClaI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'AAAAGRG'),
'compsite': '(?P<Cly7489II>AAAAG[AG]G)|(?P<Cly7489II_as>C[CT]CTTTT)',
- 'results': None,
- 'site': 'AAAAGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'AAAAGRG'),
- 'ovhgseq': None,
+ 'site': 'AAAAGRG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Cly7489II'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGGAAG'),
'compsite': '(?P<Cma23826I>CGGAAG)|(?P<Cma23826I_as>CTTCCG)',
- 'results': None,
- 'site': 'CGGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGGAAG'),
- 'ovhgseq': None,
- }
+ 'site': 'CGGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
rest_dict['Cma23826I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGGWCCG'),
'compsite': '(?P<CpoI>CGG[AT]CCG)',
- 'results': None,
- 'site': 'CGGWCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGGWCCG'),
- 'ovhgseq': 'GWC',
+ 'site': 'CGGWCCG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['CpoI'] = _temp()
def _temp():
return {
+ 'charac': (10, 10, None, None, 'GACGC'),
'compsite': '(?P<CseI>GACGC)|(?P<CseI_as>GCGTC)',
- 'results': None,
- 'site': 'GACGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 10,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (10, 10, None, None, 'GACGC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GACGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['CseI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCWGGT'),
'compsite': '(?P<CsiI>ACC[AT]GGT)',
- 'results': None,
- 'site': 'ACCWGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -1,
'fst5': 1,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCWGGT'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'ACCWGGT',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['CsiI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGAGGC'),
'compsite': '(?P<Csp2014I>GGAGGC)|(?P<Csp2014I_as>GCCTCC)',
- 'results': None,
- 'site': 'GGAGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGAGGC'),
- 'ovhgseq': None,
+ 'site': 'GGAGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Csp2014I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTAC'),
'compsite': '(?P<Csp6I>GTAC)',
- 'results': None,
- 'site': 'GTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTAC'),
- 'ovhgseq': 'TA',
+ 'site': 'GTAC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Csp6I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCGGT'),
'compsite': '(?P<CspAI>ACCGGT)',
- 'results': None,
- 'site': 'ACCGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCGGT'),
- 'ovhgseq': 'CCGG',
+ 'site': 'ACCGGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['CspAI'] = _temp()
def _temp():
return {
+ 'charac': (-11, -25, 24, 10, 'CAANNNNNGTGG'),
'compsite': '(?P<CspCI>CAA.....GTGG)|(?P<CspCI_as>CCAC.....TTG)',
- 'results': None,
- 'site': 'CAANNNNNGTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -25,
'fst5': -11,
- 'freq': 16384,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 10,
- 'suppl': ('N',),
'scd5': 24,
- 'charac': (-11, -25, 24, 10, 'CAANNNNNGTGG'),
- 'ovhgseq': 'NN',
+ 'site': 'CAANNNNNGTGG',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['CspCI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGGWCCG'),
'compsite': '(?P<CspI>CGG[AT]CCG)',
- 'results': None,
- 'site': 'CGGWCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('R',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGGWCCG'),
- 'ovhgseq': 'GWC',
+ 'site': 'CGGWCCG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('R',),
}
+
+
rest_dict['CspI'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'AAGGAG'),
'compsite': '(?P<CstMI>AAGGAG)|(?P<CstMI_as>CTCCTT)',
- 'results': None,
- 'site': 'AAGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 26,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 18, None, None, 'AAGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'AAGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CstMI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CATG'),
'compsite': '(?P<CviAII>CATG)',
- 'results': None,
- 'site': 'CATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CATG'),
- 'ovhgseq': 'AT',
+ 'site': 'CATG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['CviAII'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGCY'),
'compsite': '(?P<CviJI>[AG]GC[CT])',
- 'results': None,
- 'site': 'RGCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 64.0,
'fst3': -2,
'fst5': 2,
- 'freq': 64,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('Q', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGCY'),
- 'ovhgseq': '',
+ 'site': 'RGCY',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['CviJI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGCY'),
'compsite': '(?P<CviKI_1>[AG]GC[CT])',
- 'results': None,
- 'site': 'RGCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 64.0,
'fst3': -2,
'fst5': 2,
- 'freq': 64,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGCY'),
- 'ovhgseq': '',
+ 'site': 'RGCY',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['CviKI_1'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTAC'),
'compsite': '(?P<CviQI>GTAC)',
- 'results': None,
- 'site': 'GTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTAC'),
- 'ovhgseq': 'TA',
+ 'site': 'GTAC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['CviQI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TGCA'),
'compsite': '(?P<CviRI>TGCA)',
- 'results': None,
- 'site': 'TGCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'TGCA'),
- 'ovhgseq': '',
+ 'site': 'TGCA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['CviRI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTNAG'),
'compsite': '(?P<DdeI>CT.AG)',
- 'results': None,
- 'site': 'CTNAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTNAG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CTNAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['DdeI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGCGCC'),
'compsite': '(?P<DinI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGCGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['DinI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GATC'),
'compsite': '(?P<DpnI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'E', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GATC'),
- 'ovhgseq': '',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'E', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['DpnI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<DpnII>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['DpnII'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TTTAAA'),
'compsite': '(?P<DraI>TTTAAA)',
- 'results': None,
- 'site': 'TTTAAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TTTAAA'),
- 'ovhgseq': '',
+ 'site': 'TTTAAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['DraI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGGNCCY'),
'compsite': '(?P<DraII>[AG]GG.CC[CT])',
- 'results': None,
- 'site': 'RGGNCCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGGNCCY'),
- 'ovhgseq': 'GNC',
+ 'site': 'RGGNCCY',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['DraII'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CACNNNGTG'),
'compsite': '(?P<DraIII>CAC...GTG)',
- 'results': None,
- 'site': 'CACNNNGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'M', 'N', 'V'),
'scd5': None,
- 'charac': (6, -6, None, None, 'CACNNNGTG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CACNNNGTG',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'M', 'N', 'V'),
}
+
+
rest_dict['DraIII'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'CAAGNAC'),
'compsite': '(?P<DraRI>CAAG.AC)|(?P<DraRI_as>GT.CTTG)',
- 'results': None,
- 'site': 'CAAGNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 27,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'CAAGNAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CAAGNAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['DraRI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GACNNNNNNGTC'),
'compsite': '(?P<DrdI>GAC......GTC)',
- 'results': None,
- 'site': 'GACNNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, -7, None, None, 'GACNNNNNNGTC'),
- 'ovhgseq': 'NN',
+ 'site': 'GACNNNNNNGTC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['DrdI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAACCA'),
'compsite': '(?P<DrdII>GAACCA)|(?P<DrdII_as>TGGTTC)',
- 'results': None,
- 'site': 'GAACCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAACCA'),
- 'ovhgseq': None,
+ 'site': 'GAACCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['DrdII'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
'compsite': '(?P<DriI>GAC.....GTC)',
- 'results': None,
- 'site': 'GACNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNNNGTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['DriI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCRYGG'),
'compsite': '(?P<DsaI>CC[AG][CT]GG)',
- 'results': None,
- 'site': 'CCRYGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CRYG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCRYGG'),
- 'ovhgseq': 'CRYG',
+ 'site': 'CCRYGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['DsaI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GACNNNNNNGTC'),
'compsite': '(?P<DseDI>GAC......GTC)',
- 'results': None,
- 'site': 'GACNNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (7, -7, None, None, 'GACNNNNNNGTC'),
- 'ovhgseq': 'NN',
+ 'site': 'GACNNNNNNGTC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['DseDI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'YGGCCR'),
'compsite': '(?P<EaeI>[CT]GGCC[AG])',
- 'results': None,
- 'site': 'YGGCCR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'YGGCCR'),
- 'ovhgseq': 'GGCC',
+ 'site': 'YGGCCR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K', 'N'),
}
+
+
rest_dict['EaeI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCG'),
'compsite': '(?P<EagI>CGGCCG)',
- 'results': None,
- 'site': 'CGGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCG'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['EagI'] = _temp()
def _temp():
return {
+ 'charac': (7, 4, None, None, 'CTCTTC'),
'compsite': '(?P<Eam1104I>CTCTTC)|(?P<Eam1104I_as>GAAGAG)',
- 'results': None,
- 'site': 'CTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, 4, None, None, 'CTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'CTCTTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eam1104I'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
'compsite': '(?P<Eam1105I>GAC.....GTC)',
- 'results': None,
- 'site': 'GACNNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (6, -6, None, None, 'GACNNNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNNNGTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Eam1105I'] = _temp()
def _temp():
return {
+ 'charac': (7, 4, None, None, 'CTCTTC'),
'compsite': '(?P<EarI>CTCTTC)|(?P<EarI_as>GAAGAG)',
- 'results': None,
- 'site': 'CTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, 4, None, None, 'CTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'CTCTTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['EarI'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'GGCGGA'),
'compsite': '(?P<EciI>GGCGGA)|(?P<EciI_as>TCCGCC)',
- 'results': None,
- 'site': 'GGCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 9,
'fst5': 17,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (17, 9, None, None, 'GGCGGA'),
- 'ovhgseq': 'NN',
+ 'site': 'GGCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['EciI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GAGCTC'),
'compsite': '(?P<Ecl136II>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GAGCTC'),
- 'ovhgseq': '',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Ecl136II'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAAAYTC'),
'compsite': '(?P<Ecl35734I>GAAA[CT]TC)|(?P<Ecl35734I_as>GA[AG]TTTC)',
- 'results': None,
- 'site': 'GAAAYTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAAAYTC'),
- 'ovhgseq': None,
+ 'site': 'GAAAYTC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Ecl35734I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCG'),
'compsite': '(?P<EclXI>CGGCCG)',
- 'results': None,
- 'site': 'CGGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('S',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCG'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('S',),
}
+
+
rest_dict['EclXI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TACGTA'),
'compsite': '(?P<Eco105I>TACGTA)',
- 'results': None,
- 'site': 'TACGTA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TACGTA'),
- 'ovhgseq': '',
+ 'site': 'TACGTA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco105I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCWWGG'),
'compsite': '(?P<Eco130I>CC[AT][AT]GG)',
- 'results': None,
- 'site': 'CCWWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CWWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCWWGG'),
- 'ovhgseq': 'CWWG',
+ 'site': 'CCWWGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco130I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGGCCT'),
'compsite': '(?P<Eco147I>AGGCCT)',
- 'results': None,
- 'site': 'AGGCCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGGCCT'),
- 'ovhgseq': '',
+ 'site': 'AGGCCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco147I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GRGCYC'),
'compsite': '(?P<Eco24I>G[AG]GC[CT]C)',
- 'results': None,
- 'site': 'GRGCYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'RGCY',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GRGCYC'),
- 'ovhgseq': 'RGCY',
+ 'site': 'GRGCYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco24I'] = _temp()
def _temp():
return {
+ 'charac': (7, 5, None, None, 'GGTCTC'),
'compsite': '(?P<Eco31I>GGTCTC)|(?P<Eco31I_as>GAGACC)',
- 'results': None,
- 'site': 'GGTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, 5, None, None, 'GGTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGTCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco31I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GATATC'),
'compsite': '(?P<Eco32I>GATATC)',
- 'results': None,
- 'site': 'GATATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GATATC'),
- 'ovhgseq': '',
+ 'site': 'GATATC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco32I'] = _temp()
def _temp():
return {
- 'compsite': '(?P<Eco47I>GG[AT]CC)',
+ 'charac': (None, None, None, None, 'GAAABCC'),
+ 'compsite': '(?P<Eco4465II>GAAA[CGT]CC)|(?P<Eco4465II_as>GG[ACG]TTTC)',
+ 'dna': None,
+ 'freq': 5461.333333333333,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'GGWCC',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GAAABCC',
+ 'size': 7,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Eco4465II'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (1, -1, None, None, 'GGWCC'),
+ 'compsite': '(?P<Eco47I>GG[AT]CC)',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGWCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco47I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGCGCT'),
'compsite': '(?P<Eco47III>AGCGCT)',
- 'results': None,
- 'site': 'AGCGCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'M', 'R'),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGCGCT'),
- 'ovhgseq': '',
+ 'site': 'AGCGCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'M', 'R', 'S'),
}
+
+
rest_dict['Eco47III'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCG'),
'compsite': '(?P<Eco52I>CGGCCG)',
- 'results': None,
- 'site': 'CGGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCG'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Eco52I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GAGCTC'),
'compsite': '(?P<Eco53kI>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GAGCTC'),
- 'ovhgseq': '',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Eco53kI'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTGAAG'),
'compsite': '(?P<Eco57I>CTGAAG)|(?P<Eco57I_as>CTTCAG)',
- 'results': None,
- 'site': 'CTGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTGAAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco57I'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTGRAG'),
'compsite': '(?P<Eco57MI>CTG[AG]AG)|(?P<Eco57MI_as>CT[CT]CAG)',
- 'results': None,
- 'site': 'CTGRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 14,
'fst5': 22,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTGRAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTGRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Eco57MI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTG'),
'compsite': '(?P<Eco72I>CACGTG)',
- 'results': None,
- 'site': 'CACGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTG'),
- 'ovhgseq': '',
+ 'site': 'CACGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco72I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTNAGG'),
'compsite': '(?P<Eco81I>CCT.AGG)',
- 'results': None,
- 'site': 'CCTNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTNAGG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CCTNAGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Eco81I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CYCGRG'),
'compsite': '(?P<Eco88I>C[CT]CG[AG]G)',
- 'results': None,
- 'site': 'CYCGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco88I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTNACC'),
'compsite': '(?P<Eco91I>GGT.ACC)',
- 'results': None,
- 'site': 'GGTNACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTNAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTNACC'),
- 'ovhgseq': 'GTNAC',
+ 'site': 'GGTNACC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Eco91I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ACCYAC'),
'compsite': '(?P<EcoE1140I>ACC[CT]AC)|(?P<EcoE1140I_as>GT[AG]GGT)',
- 'results': None,
- 'site': 'ACCYAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ACCYAC'),
- 'ovhgseq': None,
+ 'site': 'ACCYAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['EcoE1140I'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCSGG'),
'compsite': '(?P<EcoHI>CC[CG]GG)',
- 'results': None,
- 'site': 'CCSGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCSGG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCSGG'),
- 'ovhgseq': 'CCSGG',
+ 'site': 'CCSGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['EcoHI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GAGCTC'),
'compsite': '(?P<EcoICRI>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'R', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GAGCTC'),
- 'ovhgseq': '',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'R', 'V'),
}
+
+
rest_dict['EcoICRI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<EcoMII>CA.CATC)|(?P<EcoMII_as>GATG.TG)',
- 'results': None,
- 'site': 'CANCATC',
- 'substrat': 'DNA',
+ 'charac': (None, None, None, None, 'CANCATC'),
+ 'compsite': '(?P<EcoMVII>CA.CATC)|(?P<EcoMVII_as>GATG.TG)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CANCATC'),
- 'ovhgseq': None,
+ 'site': 'CANCATC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['EcoMII'] = _temp()
+
+
+rest_dict['EcoMVII'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CCTNNNNNAGG'),
'compsite': '(?P<EcoNI>CCT.....AGG)',
- 'results': None,
- 'site': 'CCTNNNNNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CCTNNNNNAGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCTNNNNNAGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['EcoNI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGGNCCY'),
'compsite': '(?P<EcoO109I>[AG]GG.CC[CT])',
- 'results': None,
- 'site': 'RGGNCCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'N'),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGGNCCY'),
- 'ovhgseq': 'GNC',
+ 'site': 'RGGNCCY',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'N'),
}
+
+
rest_dict['EcoO109I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTNACC'),
'compsite': '(?P<EcoO65I>GGT.ACC)',
- 'results': None,
- 'site': 'GGTNACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTNAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTNACC'),
- 'ovhgseq': 'GTNAC',
+ 'site': 'GGTNACC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['EcoO65I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GAATTC'),
'compsite': '(?P<EcoRI>GAATTC)',
- 'results': None,
- 'site': 'GAATTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GAATTC'),
- 'ovhgseq': 'AATT',
+ 'site': 'GAATTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['EcoRI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCWGG'),
'compsite': '(?P<EcoRII>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J'),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCWGG'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J'),
}
+
+
rest_dict['EcoRII'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GATATC'),
'compsite': '(?P<EcoRV>GATATC)',
- 'results': None,
- 'site': 'GATATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GATATC'),
- 'ovhgseq': '',
+ 'site': 'GATATC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['EcoRV'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCWWGG'),
'compsite': '(?P<EcoT14I>CC[AT][AT]GG)',
- 'results': None,
- 'site': 'CCWWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CWWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCWWGG'),
- 'ovhgseq': 'CWWG',
- }
-rest_dict['EcoT14I'] = _temp()
-
+ 'site': 'CCWWGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
+ }
+
+
+rest_dict['EcoT14I'] = _temp()
+
def _temp():
return {
+ 'charac': (5, -5, None, None, 'ATGCAT'),
'compsite': '(?P<EcoT22I>ATGCAT)',
- 'results': None,
- 'site': 'ATGCAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (5, -5, None, None, 'ATGCAT'),
- 'ovhgseq': 'TGCA',
+ 'site': 'ATGCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['EcoT22I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GRGCYC'),
'compsite': '(?P<EcoT38I>G[AG]GC[CT]C)',
- 'results': None,
- 'site': 'GRGCYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'RGCY',
+ 'results': None,
'scd3': None,
- 'suppl': ('J',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GRGCYC'),
- 'ovhgseq': 'RGCY',
+ 'site': 'GRGCYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J',),
}
+
+
rest_dict['EcoT38I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGCGCC'),
'compsite': '(?P<EgeI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGCGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['EgeI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGCGCC'),
'compsite': '(?P<EheI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGCGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['EheI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<ErhI>CC[AT][AT]GG)',
+ 'charac': (None, None, None, None, 'CCGGAG'),
+ 'compsite': '(?P<Eli8509II>CCGGAG)|(?P<Eli8509II_as>CTCCGG)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'CCWWGG',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'CCGGAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Eli8509II'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (1, -1, None, None, 'CCWWGG'),
+ 'compsite': '(?P<ErhI>CC[AT][AT]GG)',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CWWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCWWGG'),
- 'ovhgseq': 'CWWG',
+ 'site': 'CCWWGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['ErhI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TCGA'),
'compsite': '(?P<EsaBC3I>TCGA)',
- 'results': None,
- 'site': 'TCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'TCGA'),
- 'ovhgseq': '',
+ 'site': 'TCGA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['EsaBC3I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GACCAC'),
'compsite': '(?P<EsaSSI>GACCAC)|(?P<EsaSSI_as>GTGGTC)',
- 'results': None,
- 'site': 'GACCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GACCAC'),
- 'ovhgseq': None,
+ 'site': 'GACCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['EsaSSI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CAGAAG'),
'compsite': '(?P<Esp3007I>CAGAAG)|(?P<Esp3007I_as>CTTCTG)',
- 'results': None,
- 'site': 'CAGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CAGAAG'),
- 'ovhgseq': None,
+ 'site': 'CAGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Esp3007I'] = _temp()
def _temp():
return {
+ 'charac': (7, 5, None, None, 'CGTCTC'),
'compsite': '(?P<Esp3I>CGTCTC)|(?P<Esp3I_as>GAGACG)',
- 'results': None,
- 'site': 'CGTCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 5,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, 5, None, None, 'CGTCTC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CGTCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Esp3I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCTNAGC'),
'compsite': '(?P<EspI>GCT.AGC)',
- 'results': None,
- 'site': 'GCTNAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCTNAGC'),
- 'ovhgseq': 'TNA',
+ 'site': 'GCTNAGC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['EspI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<FaeI>CATG)',
- 'results': None,
- 'site': 'CATG',
- 'substrat': 'DNA',
- 'fst3': -4,
- 'fst5': 4,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
+ 'charac': (None, None, None, None, 'GCCGAC'),
+ 'compsite': '(?P<Exi27195I>GCCGAC)|(?P<Exi27195I_as>GTCGGC)',
'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
- 'ovhg': 4,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CATG'),
- 'ovhgseq': 'CATG',
+ 'site': 'GCCGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['FaeI'] = _temp()
+
+
+rest_dict['Exi27195I'] = _temp()
def _temp():
return {
- 'compsite': '(?P<FaiI>[CT]AT[AG])',
- 'results': None,
- 'site': 'YATR',
- 'substrat': 'DNA',
- 'fst3': -2,
- 'fst5': 2,
- 'freq': 64,
- 'size': 4,
- 'opt_temp': 37,
+ 'charac': (4, -4, None, None, 'CATG'),
+ 'compsite': '(?P<FaeI>CATG)',
'dna': None,
+ 'freq': 256.0,
+ 'fst3': -4,
+ 'fst5': 4,
'inact_temp': 65,
- 'ovhg': 0,
+ 'opt_temp': 37,
+ 'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
+ 'site': 'CATG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
+ }
+
+
+rest_dict['FaeI'] = _temp()
+
+
+def _temp():
+ return {
'charac': (2, -2, None, None, 'YATR'),
+ 'compsite': '(?P<FaiI>[CT]AT[AG])',
+ 'dna': None,
+ 'freq': 64.0,
+ 'fst3': -2,
+ 'fst5': 2,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': 0,
'ovhgseq': '',
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'YATR',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['FaiI'] = _temp()
def _temp():
return {
+ 'charac': (-8, -24, 24, 8, 'AAGNNNNNCTT'),
'compsite': '(?P<FalI>AAG.....CTT)',
- 'results': None,
- 'site': 'AAGNNNNNCTT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -24,
'fst5': -8,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 8,
- 'suppl': ('I',),
'scd5': 24,
- 'charac': (-8, -24, 24, 8, 'AAGNNNNNCTT'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'AAGNNNNNCTT',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['FalI'] = _temp()
def _temp():
return {
+ 'charac': (15, 14, None, None, 'GGGAC'),
'compsite': '(?P<FaqI>GGGAC)|(?P<FaqI_as>GTCCC)',
- 'results': None,
- 'site': 'GGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 14,
'fst5': 15,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (15, 14, None, None, 'GGGAC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGGAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['FaqI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CATG'),
'compsite': '(?P<FatI>CATG)',
- 'results': None,
- 'site': 'CATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (0, 0, None, None, 'CATG'),
- 'ovhgseq': 'CATG',
+ 'site': 'CATG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['FatI'] = _temp()
def _temp():
return {
+ 'charac': (9, 6, None, None, 'CCCGC'),
'compsite': '(?P<FauI>CCCGC)|(?P<FauI_as>GCGGG)',
- 'results': None,
- 'site': 'CCCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 6,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (9, 6, None, None, 'CCCGC'),
- 'ovhgseq': 'NN',
+ 'site': 'CCCGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['FauI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CATATG'),
'compsite': '(?P<FauNDI>CATATG)',
- 'results': None,
- 'site': 'CATATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CATATG'),
- 'ovhgseq': 'TA',
+ 'site': 'CATATG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['FauNDI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TGATCA'),
'compsite': '(?P<FbaI>TGATCA)',
- 'results': None,
- 'site': 'TGATCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TGATCA'),
- 'ovhgseq': 'GATC',
+ 'site': 'TGATCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['FbaI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GTMKAC'),
'compsite': '(?P<FblI>GT[AC][GT]AC)',
- 'results': None,
- 'site': 'GTMKAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'MK',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GTMKAC'),
- 'ovhgseq': 'MK',
+ 'site': 'GTMKAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['FblI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGGAC'),
'compsite': '(?P<FinI>GGGAC)|(?P<FinI_as>GTCCC)',
- 'results': None,
- 'site': 'GGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGGAC'),
- 'ovhgseq': None,
+ 'site': 'GGGAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['FinI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GGNCC'),
'compsite': '(?P<FmuI>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (4, -4, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['FmuI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCNGC'),
'compsite': '(?P<Fnu4HI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Fnu4HI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<FnuDII>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
- }
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
rest_dict['FnuDII'] = _temp()
def _temp():
return {
+ 'charac': (14, 13, None, None, 'GGATG'),
'compsite': '(?P<FokI>GGATG)|(?P<FokI_as>CATCC)',
- 'results': None,
- 'site': 'GGATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 13,
'fst5': 14,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (14, 13, None, None, 'GGATG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGATG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'V', 'X', 'Y'),
}
+
+
rest_dict['FokI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GRGCYC'),
'compsite': '(?P<FriOI>G[AG]GC[CT]C)',
- 'results': None,
- 'site': 'GRGCYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'RGCY',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GRGCYC'),
- 'ovhgseq': 'RGCY',
+ 'site': 'GRGCYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['FriOI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'GGCCGGCC'),
'compsite': '(?P<FseI>GGCCGGCC)',
- 'results': None,
- 'site': 'GGCCGGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -6,
'fst5': 6,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (6, -6, None, None, 'GGCCGGCC'),
- 'ovhgseq': 'CCGG',
+ 'site': 'GGCCGGCC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['FseI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCNGC'),
'compsite': '(?P<Fsp4HI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Fsp4HI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'RTGCGCAY'),
'compsite': '(?P<FspAI>[AG]TGCGCA[CT])',
- 'results': None,
- 'site': 'RTGCGCAY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -4,
'fst5': 4,
- 'freq': 16384,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'RTGCGCAY'),
- 'ovhgseq': '',
+ 'site': 'RTGCGCAY',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['FspAI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTAG'),
'compsite': '(?P<FspBI>CTAG)',
- 'results': None,
- 'site': 'CTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTAG'),
- 'ovhgseq': 'TA',
+ 'site': 'CTAG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['FspBI'] = _temp()
def _temp():
return {
+ 'charac': (14, 16, None, None, 'CC'),
'compsite': '(?P<FspEI>CC)|(?P<FspEI_as>GG)',
- 'results': None,
- 'site': 'CC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16.0,
'fst3': 16,
'fst5': 14,
- 'freq': 16,
- 'size': 2,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (14, 16, None, None, 'CC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CC',
+ 'size': 2,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['FspEI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGCGCA'),
'compsite': '(?P<FspI>TGCGCA)',
- 'results': None,
- 'site': 'TGCGCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGCGCA'),
- 'ovhgseq': '',
+ 'site': 'TGCGCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N'),
}
+
+
rest_dict['FspI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAAACA'),
'compsite': '(?P<FtnUV>GAAACA)|(?P<FtnUV_as>TGTTTC)',
- 'results': None,
- 'site': 'GAAACA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAAACA'),
- 'ovhgseq': None,
+ 'site': 'GAAACA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['FtnUV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGCGCAGG'),
'compsite': '(?P<GauT27I>CGCGCAGG)|(?P<GauT27I_as>CCTGCGCG)',
- 'results': None,
- 'site': 'CGCGCAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': None,
'fst5': None,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGCGCAGG'),
- 'ovhgseq': None,
+ 'site': 'CGCGCAGG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['GauT27I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ATGCAC'),
'compsite': '(?P<Gba708II>ATGCAC)|(?P<Gba708II_as>GTGCAT)',
- 'results': None,
- 'site': 'ATGCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ATGCAC'),
- 'ovhgseq': None,
+ 'site': 'ATGCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Gba708II'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCR'),
'compsite': '(?P<GdiII>CGGCC[AG])|(?P<GdiII_as>[CT]GGCCG)',
- 'results': None,
- 'site': 'CGGCCR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': -1,
'fst5': 1,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCR'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['GdiII'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCGC'),
'compsite': '(?P<GlaI>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCGC'),
- 'ovhgseq': '',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['GlaI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCNGC'),
'compsite': '(?P<GluI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['GluI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CCCAGC'),
'compsite': '(?P<GsaI>CCCAGC)|(?P<GsaI_as>GCTGGG)',
- 'results': None,
- 'site': 'CCCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CCAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CCCAGC'),
- 'ovhgseq': 'CCAG',
+ 'site': 'CCCAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['GsaI'] = _temp()
def _temp():
return {
+ 'charac': (22, 14, None, None, 'CTGGAG'),
'compsite': '(?P<GsuI>CTGGAG)|(?P<GsuI_as>CTCCAG)',
- 'results': None,
- 'site': 'CTGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 14,
'fst5': 22,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (22, 14, None, None, 'CTGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CTGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['GsuI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'WGGCCW'),
'compsite': '(?P<HaeI>[AT]GGCC[AT])',
- 'results': None,
- 'site': 'WGGCCW',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'WGGCCW'),
- 'ovhgseq': '',
+ 'site': 'WGGCCW',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HaeI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'RGCGCY'),
'compsite': '(?P<HaeII>[AG]GCGC[CT])',
- 'results': None,
- 'site': 'RGCGCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GCGC',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'K', 'N', 'R'),
'scd5': None,
- 'charac': (5, -5, None, None, 'RGCGCY'),
- 'ovhgseq': 'GCGC',
+ 'site': 'RGCGCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'K', 'N', 'R'),
}
+
+
rest_dict['HaeII'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCC'),
'compsite': '(?P<HaeIII>GGCC)',
- 'results': None,
- 'site': 'GGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['HaeIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGG'),
'compsite': '(?P<HapII>CCGG)',
- 'results': None,
- 'site': 'CCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGG'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['HapII'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'TGGCCA'),
'compsite': '(?P<HauII>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 9,
'fst5': 17,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (17, 9, None, None, 'TGGCCA'),
- 'ovhgseq': 'NN',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HauII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCCCAG'),
'compsite': '(?P<HbaII>GCCCAG)|(?P<HbaII_as>CTGGGC)',
- 'results': None,
- 'site': 'GCCCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCCCAG'),
- 'ovhgseq': None,
+ 'site': 'GCCCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HbaII'] = _temp()
def _temp():
return {
+ 'charac': (10, 10, None, None, 'GACGC'),
'compsite': '(?P<HgaI>GACGC)|(?P<HgaI_as>GCGTC)',
- 'results': None,
- 'site': 'GACGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 10,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (10, 10, None, None, 'GACGC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GACGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['HgaI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GWGCWC'),
'compsite': '(?P<HgiAI>G[AT]GC[AT]C)',
- 'results': None,
- 'site': 'GWGCWC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'WGCW',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (5, -5, None, None, 'GWGCWC'),
- 'ovhgseq': 'WGCW',
+ 'site': 'GWGCWC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HgiAI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGYRCC'),
'compsite': '(?P<HgiCI>GG[CT][AG]CC)',
- 'results': None,
- 'site': 'GGYRCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GYRC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGYRCC'),
- 'ovhgseq': 'GYRC',
+ 'site': 'GGYRCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HgiCI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ACCNNNNNNGGT'),
'compsite': '(?P<HgiEII>ACC......GGT)',
- 'results': None,
- 'site': 'ACCNNNNNNGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ACCNNNNNNGGT'),
- 'ovhgseq': None,
+ 'site': 'ACCNNNNNNGGT',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HgiEII'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GRGCYC'),
'compsite': '(?P<HgiJII>G[AG]GC[CT]C)',
- 'results': None,
- 'site': 'GRGCYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'RGCY',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (5, -5, None, None, 'GRGCYC'),
- 'ovhgseq': 'RGCY',
+ 'site': 'GRGCYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HgiJII'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCGC'),
'compsite': '(?P<HhaI>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'N', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'N', 'Q', 'R', 'X'),
}
+
+
rest_dict['HhaI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GRCGYC'),
'compsite': '(?P<Hin1I>G[AG]CG[CT]C)',
- 'results': None,
- 'site': 'GRCGYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GRCGYC'),
- 'ovhgseq': 'CG',
+ 'site': 'GRCGYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Hin1I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CATG'),
'compsite': '(?P<Hin1II>CATG)',
- 'results': None,
- 'site': 'CATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CATG'),
- 'ovhgseq': 'CATG',
+ 'site': 'CATG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Hin1II'] = _temp()
def _temp():
return {
+ 'charac': (-8, -24, 24, 8, 'GAYNNNNNVTC'),
'compsite': '(?P<Hin4I>GA[CT].....[ACG]TC)|(?P<Hin4I_as>GA[CGT].....[AG]TC)',
- 'results': None,
- 'site': 'GAYNNNNNVTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 682.6666666666666,
'fst3': -24,
'fst5': -8,
- 'freq': 512,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 8,
- 'suppl': (),
'scd5': 24,
- 'charac': (-8, -24, 24, 8, 'GAYNNNNNVTC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAYNNNNNVTC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hin4I'] = _temp()
def _temp():
return {
+ 'charac': (11, 5, None, None, 'CCTTC'),
'compsite': '(?P<Hin4II>CCTTC)|(?P<Hin4II_as>GAAGG)',
- 'results': None,
- 'site': 'CCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 11,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (11, 5, None, None, 'CCTTC'),
- 'ovhgseq': 'N',
+ 'site': 'CCTTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hin4II'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGC'),
'compsite': '(?P<Hin6I>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Hin6I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGC'),
'compsite': '(?P<HinP1I>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['HinP1I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTYRAC'),
'compsite': '(?P<HincII>GT[CT][AG]AC)',
- 'results': None,
- 'site': 'GTYRAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'N', 'O', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTYRAC'),
- 'ovhgseq': '',
+ 'site': 'GTYRAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'N', 'O', 'Q', 'R', 'X'),
}
+
+
rest_dict['HincII'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTYRAC'),
'compsite': '(?P<HindII>GT[CT][AG]AC)',
- 'results': None,
- 'site': 'GTYRAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'M', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTYRAC'),
- 'ovhgseq': '',
+ 'site': 'GTYRAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'M', 'S', 'V'),
}
+
+
rest_dict['HindII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'AAGCTT'),
'compsite': '(?P<HindIII>AAGCTT)',
- 'results': None,
- 'site': 'AAGCTT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AGCT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'AAGCTT'),
- 'ovhgseq': 'AGCT',
+ 'site': 'AAGCTT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['HindIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GANTC'),
'compsite': '(?P<HinfI>GA.TC)',
- 'results': None,
- 'site': 'GANTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'ANT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GANTC'),
- 'ovhgseq': 'ANT',
+ 'site': 'GANTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['HinfI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTTAAC'),
'compsite': '(?P<HpaI>GTTAAC)',
- 'results': None,
- 'site': 'GTTAAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTTAAC'),
- 'ovhgseq': '',
+ 'site': 'GTTAAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['HpaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGG'),
'compsite': '(?P<HpaII>CCGG)',
- 'results': None,
- 'site': 'CCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGG'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'N', 'Q', 'R', 'V', 'X'),
}
+
+
rest_dict['HpaII'] = _temp()
def _temp():
return {
+ 'charac': (13, 7, None, None, 'GGTGA'),
'compsite': '(?P<HphI>GGTGA)|(?P<HphI_as>TCACC)',
- 'results': None,
- 'site': 'GGTGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 7,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'N'),
'scd5': None,
- 'charac': (13, 7, None, None, 'GGTGA'),
- 'ovhgseq': 'N',
+ 'site': 'GGTGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'N'),
}
+
+
rest_dict['HphI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTNNAC'),
'compsite': '(?P<Hpy166II>GT..AC)',
- 'results': None,
- 'site': 'GTNNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTNNAC'),
- 'ovhgseq': '',
+ 'site': 'GTNNAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Hpy166II'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TCNNGA'),
'compsite': '(?P<Hpy178III>TC..GA)',
- 'results': None,
- 'site': 'TCNNGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'TCNNGA'),
- 'ovhgseq': 'NN',
+ 'site': 'TCNNGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hpy178III'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TCNGA'),
'compsite': '(?P<Hpy188I>TC.GA)',
- 'results': None,
- 'site': 'TCNGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TCNGA'),
- 'ovhgseq': 'N',
+ 'site': 'TCNGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Hpy188I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TCNNGA'),
'compsite': '(?P<Hpy188III>TC..GA)',
- 'results': None,
- 'site': 'TCNNGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TCNNGA'),
- 'ovhgseq': 'NN',
+ 'site': 'TCNNGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Hpy188III'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTNNAC'),
'compsite': '(?P<Hpy8I>GT..AC)',
- 'results': None,
- 'site': 'GTNNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTNNAC'),
- 'ovhgseq': '',
+ 'site': 'GTNNAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Hpy8I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CGWCG'),
'compsite': '(?P<Hpy99I>CG[AT]CG)',
- 'results': None,
- 'site': 'CGWCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -5,
'fst5': 5,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'CGWCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CGWCG'),
- 'ovhgseq': 'CGWCG',
+ 'site': 'CGWCG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Hpy99I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCCTA'),
'compsite': '(?P<Hpy99XIII>GCCTA)|(?P<Hpy99XIII_as>TAGGC)',
- 'results': None,
- 'site': 'GCCTA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCCTA'),
- 'ovhgseq': None,
+ 'site': 'GCCTA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hpy99XIII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGWTAA'),
'compsite': '(?P<Hpy99XIV>GG[AT]TAA)|(?P<Hpy99XIV_as>TTA[AT]CC)',
- 'results': None,
- 'site': 'GGWTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGWTAA'),
- 'ovhgseq': None,
+ 'site': 'GGWTAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hpy99XIV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGWCNA'),
'compsite': '(?P<Hpy99XIV_mut1>GG[AT]C.A)|(?P<Hpy99XIV_mut1_as>T.G[AT]CC)',
- 'results': None,
- 'site': 'GGWCNA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': None,
'fst5': None,
- 'freq': 512,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGWCNA'),
- 'ovhgseq': None,
+ 'site': 'GGWCNA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hpy99XIV_mut1'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TCANNNNNNTRG'),
'compsite': '(?P<Hpy99XXII>TCA......T[AG]G)|(?P<Hpy99XXII_as>C[CT]A......TGA)',
- 'results': None,
- 'site': 'TCANNNNNNTRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TCANNNNNNTRG'),
- 'ovhgseq': None,
+ 'site': 'TCANNNNNNTRG',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Hpy99XXII'] = _temp()
def _temp():
return {
+ 'charac': (11, 5, None, None, 'CCTTC'),
'compsite': '(?P<HpyAV>CCTTC)|(?P<HpyAV_as>GAAGG)',
- 'results': None,
- 'site': 'CCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 11,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (11, 5, None, None, 'CCTTC'),
- 'ovhgseq': 'N',
+ 'site': 'CCTTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['HpyAV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCGTA'),
'compsite': '(?P<HpyAXIV>GCGTA)|(?P<HpyAXIV_as>TACGC)',
- 'results': None,
- 'site': 'GCGTA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCGTA'),
- 'ovhgseq': None,
+ 'site': 'GCGTA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyAXIV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CRTTAA'),
'compsite': '(?P<HpyAXVI_mut1>C[AG]TTAA)|(?P<HpyAXVI_mut1_as>TTAA[CT]G)',
- 'results': None,
- 'site': 'CRTTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CRTTAA'),
- 'ovhgseq': None,
+ 'site': 'CRTTAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyAXVI_mut1'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CRTCNA'),
'compsite': '(?P<HpyAXVI_mut2>C[AG]TC.A)|(?P<HpyAXVI_mut2_as>T.GA[CT]G)',
- 'results': None,
- 'site': 'CRTCNA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': None,
'fst5': None,
- 'freq': 512,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CRTCNA'),
- 'ovhgseq': None,
+ 'site': 'CRTCNA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyAXVI_mut2'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'ACNGT'),
'compsite': '(?P<HpyCH4III>AC.GT)',
- 'results': None,
- 'site': 'ACNGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'ACNGT'),
- 'ovhgseq': 'N',
+ 'site': 'ACNGT',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['HpyCH4III'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACGT'),
'compsite': '(?P<HpyCH4IV>ACGT)',
- 'results': None,
- 'site': 'ACGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACGT'),
- 'ovhgseq': 'CG',
+ 'site': 'ACGT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['HpyCH4IV'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TGCA'),
'compsite': '(?P<HpyCH4V>TGCA)',
- 'results': None,
- 'site': 'TGCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TGCA'),
- 'ovhgseq': '',
+ 'site': 'TGCA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['HpyCH4V'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GCNNNNNNNGC'),
'compsite': '(?P<HpyF10VI>GC.......GC)',
- 'results': None,
- 'site': 'GCNNNNNNNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, -7, None, None, 'GCNNNNNNNGC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCNNNNNNNGC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['HpyF10VI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTNAG'),
'compsite': '(?P<HpyF3I>CT.AG)',
- 'results': None,
- 'site': 'CTNAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTNAG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CTNAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['HpyF3I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACGT'),
'compsite': '(?P<HpySE526I>ACGT)',
- 'results': None,
- 'site': 'ACGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACGT'),
- 'ovhgseq': 'CG',
+ 'site': 'ACGT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['HpySE526I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CYANNNNNNNTRG'),
'compsite': '(?P<HpyUM032XIII>C[CT]A.......T[AG]G)',
- 'results': None,
- 'site': 'CYANNNNNNNTRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CYANNNNNNNTRG'),
- 'ovhgseq': None,
+ 'site': 'CYANNNNNNNTRG',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyUM032XIII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CYANNNNNNNTTC'),
'compsite': '(?P<HpyUM032XIII_mut1>C[CT]A.......TTC)|(?P<HpyUM032XIII_mut1_as>GAA.......T[AG]G)',
- 'results': None,
- 'site': 'CYANNNNNNNTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CYANNNNNNNTTC'),
- 'ovhgseq': None,
+ 'site': 'CYANNNNNNNTTC',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyUM032XIII_mut1'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAAAG'),
'compsite': '(?P<HpyUM032XIV>GAAAG)|(?P<HpyUM032XIV_as>CTTTC)',
- 'results': None,
- 'site': 'GAAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAAAG'),
- 'ovhgseq': None,
+ 'site': 'GAAAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyUM032XIV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TNGGNAG|GTGGNAG'),
'compsite': '(?P<HpyUM037X>T.GG.AG)|(?P<HpyUM037X_as>CT.CC.A)',
- 'results': None,
- 'site': 'TNGGNAG|GTGGNAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TNGGNAG|GTGGNAG'),
- 'ovhgseq': None,
+ 'site': 'TNGGNAG|GTGGNAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['HpyUM037X'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GRCGYC'),
'compsite': '(?P<Hsp92I>G[AG]CG[CT]C)',
- 'results': None,
- 'site': 'GRCGYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('R',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GRCGYC'),
- 'ovhgseq': 'CG',
+ 'site': 'GRCGYC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('R',),
}
+
+
rest_dict['Hsp92I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CATG'),
'compsite': '(?P<Hsp92II>CATG)',
- 'results': None,
- 'site': 'CATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('R',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CATG'),
- 'ovhgseq': 'CATG',
+ 'site': 'CATG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('R',),
}
+
+
rest_dict['Hsp92II'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGC'),
'compsite': '(?P<HspAI>GCGC)',
- 'results': None,
- 'site': 'GCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'GCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['HspAI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GTATNAC'),
'compsite': '(?P<Jma19592I>GTAT.AC)|(?P<Jma19592I_as>GT.ATAC)',
- 'results': None,
- 'site': 'GTATNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GTATNAC'),
- 'ovhgseq': None,
+ 'site': 'GTATNAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Jma19592I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GRGCRAC'),
'compsite': '(?P<Jma19592II>G[AG]GC[AG]AC)|(?P<Jma19592II_as>GT[CT]GC[CT]C)',
- 'results': None,
- 'site': 'GRGCRAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GRGCRAC'),
- 'ovhgseq': None,
+ 'site': 'GRGCRAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Jma19592II'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGCGCC'),
'compsite': '(?P<KasI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GCGC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGCGCC'),
- 'ovhgseq': 'GCGC',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['KasI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGGWCCC'),
'compsite': '(?P<KflI>GGG[AT]CCC)',
- 'results': None,
- 'site': 'GGGWCCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGGWCCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGGWCCC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['KflI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<Kpn2I>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Kpn2I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GGTACC'),
'compsite': '(?P<KpnI>GGTACC)',
- 'results': None,
- 'site': 'GGTACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GGTACC'),
- 'ovhgseq': 'GTAC',
+ 'site': 'GGTACC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['KpnI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GTTCNAC'),
'compsite': '(?P<KpnNIH30III>GTTC.AC)|(?P<KpnNIH30III_as>GT.GAAC)',
- 'results': None,
- 'site': 'GTTCNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GTTCNAC'),
- 'ovhgseq': None,
+ 'site': 'GTTCNAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['KpnNIH30III'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCCGGC'),
'compsite': '(?P<KroI>GCCGGC)',
- 'results': None,
- 'site': 'GCCGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCCGGC'),
- 'ovhgseq': 'CCGG',
+ 'site': 'GCCGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['KroI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TGATCA'),
'compsite': '(?P<Ksp22I>TGATCA)',
- 'results': None,
- 'site': 'TGATCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TGATCA'),
- 'ovhgseq': 'GATC',
+ 'site': 'TGATCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Ksp22I'] = _temp()
def _temp():
return {
+ 'charac': (7, 4, None, None, 'CTCTTC'),
'compsite': '(?P<Ksp632I>CTCTTC)|(?P<Ksp632I_as>GAAGAG)',
- 'results': None,
- 'site': 'CTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 4,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (7, 4, None, None, 'CTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'CTCTTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Ksp632I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTTAAC'),
'compsite': '(?P<KspAI>GTTAAC)',
- 'results': None,
- 'site': 'GTTAAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTTAAC'),
- 'ovhgseq': '',
+ 'site': 'GTTAAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['KspAI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CCGCGG'),
'compsite': '(?P<KspI>CCGCGG)',
- 'results': None,
- 'site': 'CCGCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GC',
+ 'results': None,
'scd3': None,
- 'suppl': ('M', 'S'),
'scd5': None,
- 'charac': (4, -4, None, None, 'CCGCGG'),
- 'ovhgseq': 'GC',
+ 'site': 'CCGCGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'S'),
}
+
+
rest_dict['KspI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<Kzo9I>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Kzo9I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CYAAANG'),
'compsite': '(?P<Lba2029III>C[CT]AAA.G)|(?P<Lba2029III_as>C.TTT[AG]G)',
- 'results': None,
- 'site': 'CYAAANG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CYAAANG'),
- 'ovhgseq': None,
+ 'site': 'CYAAANG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Lba2029III'] = _temp()
def _temp():
return {
+ 'charac': (8, 4, None, None, 'GCTCTTC'),
'compsite': '(?P<LguI>GCTCTTC)|(?P<LguI_as>GAAGAGC)',
- 'results': None,
- 'site': 'GCTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 4,
'fst5': 8,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (8, 4, None, None, 'GCTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCTCTTC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['LguI'] = _temp()
def _temp():
return {
+ 'charac': (6, -1, None, None, 'GCTCC'),
'compsite': '(?P<LmnI>GCTCC)|(?P<LmnI_as>GGAGC)',
- 'results': None,
- 'site': 'GCTCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 6,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (6, -1, None, None, 'GCTCC'),
- 'ovhgseq': 'CN',
+ 'site': 'GCTCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['LmnI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'AGCGCCG'),
'compsite': '(?P<Lmo370I>AGCGCCG)|(?P<Lmo370I_as>CGGCGCT)',
- 'results': None,
- 'site': 'AGCGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'AGCGCCG'),
- 'ovhgseq': None,
+ 'site': 'AGCGCCG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Lmo370I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TAGRAG'),
'compsite': '(?P<Lmo911II>TAG[AG]AG)|(?P<Lmo911II_as>CT[CT]CTA)',
- 'results': None,
- 'site': 'TAGRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TAGRAG'),
- 'ovhgseq': None,
+ 'site': 'TAGRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Lmo911II'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'RGCGCY'),
'compsite': '(?P<LpnI>[AG]GCGC[CT])',
- 'results': None,
- 'site': 'RGCGCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'RGCGCY'),
- 'ovhgseq': '',
+ 'site': 'RGCGCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['LpnI'] = _temp()
def _temp():
return {
+ 'charac': (14, 14, None, None, 'CCDG'),
'compsite': '(?P<LpnPI>CC[AGT]G)|(?P<LpnPI_as>C[ACT]GG)',
- 'results': None,
- 'site': 'CCDG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 85.33333333333333,
'fst3': 14,
'fst5': 14,
- 'freq': 64,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (14, 14, None, None, 'CCDG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CCDG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['LpnPI'] = _temp()
def _temp():
return {
+ 'charac': (13, 12, None, None, 'GCAGC'),
'compsite': '(?P<Lsp1109I>GCAGC)|(?P<Lsp1109I_as>GCTGC)',
- 'results': None,
- 'site': 'GCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 12,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (13, 12, None, None, 'GCAGC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCAGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Lsp1109I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'AGCACC'),
'compsite': '(?P<Lsp48III>AGCACC)|(?P<Lsp48III_as>GGTGCT)',
- 'results': None,
- 'site': 'AGCACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
- 'scd3': None,
- 'suppl': (),
- 'scd5': None,
- 'charac': (None, None, None, None, 'AGCACC'),
'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'AGCACC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Lsp48III'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CRAGCAC'),
'compsite': '(?P<Lsp6406VI>C[AG]AGCAC)|(?P<Lsp6406VI_as>GTGCT[CT]G)',
- 'results': None,
- 'site': 'CRAGCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CRAGCAC'),
- 'ovhgseq': None,
+ 'site': 'CRAGCAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Lsp6406VI'] = _temp()
def _temp():
return {
+ 'charac': (10, 9, None, None, 'GCATC'),
'compsite': '(?P<LweI>GCATC)|(?P<LweI_as>GATGC)',
- 'results': None,
- 'site': 'GCATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 9,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (10, 9, None, None, 'GCATC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['LweI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCWGGT'),
'compsite': '(?P<MabI>ACC[AT]GGT)',
- 'results': None,
- 'site': 'ACCWGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -1,
'fst5': 1,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCWGGT'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'ACCWGGT',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['MabI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTAG'),
'compsite': '(?P<MaeI>CTAG)',
- 'results': None,
- 'site': 'CTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTAG'),
- 'ovhgseq': 'TA',
+ 'site': 'CTAG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('M',),
}
+
+
rest_dict['MaeI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACGT'),
'compsite': '(?P<MaeII>ACGT)',
- 'results': None,
- 'site': 'ACGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACGT'),
- 'ovhgseq': 'CG',
+ 'site': 'ACGT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('M',),
}
+
+
rest_dict['MaeII'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GTNAC'),
'compsite': '(?P<MaeIII>GT.AC)',
- 'results': None,
- 'site': 'GTNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTNAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GTNAC'),
- 'ovhgseq': 'GTNAC',
+ 'site': 'GTNAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'S'),
}
+
+
rest_dict['MaeIII'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GATC'),
'compsite': '(?P<MalI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GATC'),
- 'ovhgseq': '',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['MalI'] = _temp()
def _temp():
return {
+ 'charac': (28, 19, None, None, 'CRTTGAC'),
'compsite': '(?P<MaqI>C[AG]TTGAC)|(?P<MaqI_as>GTCAA[CT]G)',
- 'results': None,
- 'site': 'CRTTGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': 19,
'fst5': 28,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (28, 19, None, None, 'CRTTGAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CRTTGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['MaqI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCGCGCG'),
'compsite': '(?P<MauBI>CGCGCGCG)',
- 'results': None,
- 'site': 'CGCGCGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCGCGCG'),
- 'ovhgseq': 'CGCG',
+ 'site': 'CGCGCGCG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['MauBI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'AGGCGA'),
'compsite': '(?P<Mba11I>AGGCGA)|(?P<Mba11I_as>TCGCCT)',
- 'results': None,
- 'site': 'AGGCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'AGGCGA'),
- 'ovhgseq': None,
+ 'site': 'AGGCGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Mba11I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CCGCTC'),
'compsite': '(?P<MbiI>CCGCTC)|(?P<MbiI_as>GAGCGG)',
- 'results': None,
- 'site': 'CCGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CCGCTC'),
- 'ovhgseq': '',
+ 'site': 'CCGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['MbiI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<MboI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'K', 'N', 'Q', 'R', 'X', 'Y'),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'K', 'N', 'Q', 'R', 'X', 'Y'),
}
+
+
rest_dict['MboI'] = _temp()
def _temp():
return {
+ 'charac': (13, 7, None, None, 'GAAGA'),
'compsite': '(?P<MboII>GAAGA)|(?P<MboII_as>TCTTC)',
- 'results': None,
- 'site': 'GAAGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 7,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'N', 'Q', 'R', 'V', 'X'),
'scd5': None,
- 'charac': (13, 7, None, None, 'GAAGA'),
- 'ovhgseq': 'N',
+ 'site': 'GAAGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'N', 'Q', 'R', 'V', 'X'),
}
+
+
rest_dict['MboII'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GCGCGC'),
'compsite': '(?P<McaTI>GCGCGC)',
- 'results': None,
- 'site': 'GCGCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (4, -4, None, None, 'GCGCGC'),
- 'ovhgseq': 'GC',
+ 'site': 'GCGCGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['McaTI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAAGNNNNNCTC'),
'compsite': '(?P<Mcr10I>GAAG.....CTC)|(?P<Mcr10I_as>GAG.....CTTC)',
- 'results': None,
- 'site': 'GAAGNNNNNCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAAGNNNNNCTC'),
- 'ovhgseq': None,
+ 'site': 'GAAGNNNNNCTC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Mcr10I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CGRYCG'),
'compsite': '(?P<McrI>CG[AG][CT]CG)',
- 'results': None,
- 'site': 'CGRYCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -4,
'fst5': 4,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'RY',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (4, -4, None, None, 'CGRYCG'),
- 'ovhgseq': 'RY',
+ 'site': 'CGRYCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['McrI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CAATTG'),
'compsite': '(?P<MfeI>CAATTG)',
- 'results': None,
- 'site': 'CAATTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CAATTG'),
- 'ovhgseq': 'AATT',
+ 'site': 'CAATTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['MfeI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RGATCY'),
'compsite': '(?P<MflI>[AG]GATC[CT])',
- 'results': None,
- 'site': 'RGATCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RGATCY'),
- 'ovhgseq': 'GATC',
+ 'site': 'RGATCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['MflI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GDGCHC'),
'compsite': '(?P<MhlI>G[AGT]GC[ACT]C)',
- 'results': None,
- 'site': 'GDGCHC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 455.1111111111111,
'fst3': -5,
'fst5': 5,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'DGCH',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GDGCHC'),
- 'ovhgseq': 'DGCH',
+ 'site': 'GDGCHC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['MhlI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GTNNAC'),
'compsite': '(?P<MjaIV>GT..AC)',
- 'results': None,
- 'site': 'GTNNAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': None,
'fst5': None,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GTNNAC'),
- 'ovhgseq': None,
+ 'site': 'GTNNAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['MjaIV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAGAYGT'),
'compsite': '(?P<MkaDII>GAGA[CT]GT)|(?P<MkaDII_as>AC[AG]TCTC)',
- 'results': None,
- 'site': 'GAGAYGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAGAYGT'),
- 'ovhgseq': None,
+ 'site': 'GAGAYGT',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['MkaDII'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGGCCA'),
'compsite': '(?P<MlsI>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGGCCA'),
- 'ovhgseq': '',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['MlsI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'AATT'),
'compsite': '(?P<MluCI>AATT)',
- 'results': None,
- 'site': 'AATT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (0, 0, None, None, 'AATT'),
- 'ovhgseq': 'AATT',
+ 'site': 'AATT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['MluCI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACGCGT'),
'compsite': '(?P<MluI>ACGCGT)',
- 'results': None,
- 'site': 'ACGCGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACGCGT'),
- 'ovhgseq': 'CGCG',
+ 'site': 'ACGCGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['MluI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGGCCA'),
'compsite': '(?P<MluNI>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGGCCA'),
- 'ovhgseq': '',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M',),
}
+
+
rest_dict['MluNI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCGCC'),
'compsite': '(?P<Mly113I>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCGCC'),
- 'ovhgseq': 'CG',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Mly113I'] = _temp()
def _temp():
return {
+ 'charac': (10, 5, None, None, 'GAGTC'),
'compsite': '(?P<MlyI>GAGTC)|(?P<MlyI_as>GACTC)',
- 'results': None,
- 'site': 'GAGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (10, 5, None, None, 'GAGTC'),
- 'ovhgseq': '',
+ 'site': 'GAGTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['MlyI'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'TCCRAC'),
'compsite': '(?P<MmeI>TCC[AG]AC)|(?P<MmeI_as>GT[CT]GGA)',
- 'results': None,
- 'site': 'TCCRAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 18,
'fst5': 26,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N', 'X'),
'scd5': None,
- 'charac': (26, 18, None, None, 'TCCRAC'),
- 'ovhgseq': 'NN',
+ 'site': 'TCCRAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N', 'X'),
}
+
+
rest_dict['MmeI'] = _temp()
def _temp():
return {
+ 'charac': (11, 6, None, None, 'CCTC'),
'compsite': '(?P<MnlI>CCTC)|(?P<MnlI_as>GAGG)',
- 'results': None,
- 'site': 'CCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 6,
'fst5': 11,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'N', 'Q', 'V', 'X'),
'scd5': None,
- 'charac': (11, 6, None, None, 'CCTC'),
- 'ovhgseq': 'N',
+ 'site': 'CCTC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'N', 'Q', 'V', 'X'),
}
+
+
rest_dict['MnlI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGGCCA'),
'compsite': '(?P<Mox20I>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGGCCA'),
- 'ovhgseq': '',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Mox20I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'ATGCAT'),
'compsite': '(?P<Mph1103I>ATGCAT)',
- 'results': None,
- 'site': 'ATGCAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'ATGCAT'),
- 'ovhgseq': 'TGCA',
+ 'site': 'ATGCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Mph1103I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCCGGCG'),
'compsite': '(?P<MreI>CGCCGGCG)',
- 'results': None,
- 'site': 'CGCCGGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCCGGCG'),
- 'ovhgseq': 'CCGG',
+ 'site': 'CGCCGGCG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['MreI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCGGA'),
'compsite': '(?P<MroI>TCCGGA)',
- 'results': None,
- 'site': 'TCCGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('M', 'O'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCGGA'),
- 'ovhgseq': 'CCGG',
+ 'site': 'TCCGGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'O'),
}
+
+
rest_dict['MroI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCCGGC'),
'compsite': '(?P<MroNI>GCCGGC)',
- 'results': None,
- 'site': 'GCCGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCCGGC'),
- 'ovhgseq': 'CCGG',
+ 'site': 'GCCGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['MroNI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAANNNNTTC'),
'compsite': '(?P<MroXI>GAA....TTC)',
- 'results': None,
- 'site': 'GAANNNNTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAANNNNTTC'),
- 'ovhgseq': '',
+ 'site': 'GAANNNNTTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['MroXI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGGCCA'),
'compsite': '(?P<MscI>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N', 'O'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGGCCA'),
- 'ovhgseq': '',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N', 'O'),
}
+
+
rest_dict['MscI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TTAA'),
'compsite': '(?P<MseI>TTAA)',
- 'results': None,
- 'site': 'TTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TTAA'),
- 'ovhgseq': 'TA',
+ 'site': 'TTAA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['MseI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CAYNNNNRTG'),
'compsite': '(?P<MslI>CA[CT]....[AG]TG)',
- 'results': None,
- 'site': 'CAYNNNNRTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CAYNNNNRTG'),
- 'ovhgseq': '',
+ 'site': 'CAYNNNNRTG',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['MslI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGGCCA'),
'compsite': '(?P<Msp20I>TGGCCA)',
- 'results': None,
- 'site': 'TGGCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGGCCA'),
- 'ovhgseq': '',
+ 'site': 'TGGCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['Msp20I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CMGCKG'),
'compsite': '(?P<MspA1I>C[AC]GC[GT]G)',
- 'results': None,
- 'site': 'CMGCKG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'R', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'CMGCKG'),
- 'ovhgseq': '',
+ 'site': 'CMGCKG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'R', 'V'),
}
+
+
rest_dict['MspA1I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTTAAG'),
'compsite': '(?P<MspCI>CTTAAG)',
- 'results': None,
- 'site': 'CTTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TTAA',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTTAAG'),
- 'ovhgseq': 'TTAA',
+ 'site': 'CTTAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['MspCI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGG'),
'compsite': '(?P<MspI>CCGG)',
- 'results': None,
- 'site': 'CCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'J', 'K', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGG'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'J', 'K', 'N', 'Q', 'R', 'V', 'X'),
}
+
+
rest_dict['MspI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ACGRAG'),
'compsite': '(?P<MspI7II>ACG[AG]AG)|(?P<MspI7II_as>CT[CT]CGT)',
- 'results': None,
- 'site': 'ACGRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ACGRAG'),
- 'ovhgseq': None,
+ 'site': 'ACGRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['MspI7II'] = _temp()
def _temp():
return {
+ 'charac': (13, 13, None, None, 'CNNR'),
'compsite': '(?P<MspJI>C..[AG])|(?P<MspJI_as>[CT]..G)',
- 'results': None,
- 'site': 'CNNR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8.0,
'fst3': 13,
'fst5': 13,
- 'freq': 8,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (13, 13, None, None, 'CNNR'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CNNR',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['MspJI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCNGG'),
'compsite': '(?P<MspR9I>CC.GG)',
- 'results': None,
- 'site': 'CCNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCNGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCNGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['MspR9I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GTTTAAAC'),
'compsite': '(?P<MssI>GTTTAAAC)',
- 'results': None,
- 'site': 'GTTTAAAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -4,
'fst5': 4,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'GTTTAAAC'),
- 'ovhgseq': '',
+ 'site': 'GTTTAAAC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['MssI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGCGCA'),
'compsite': '(?P<MstI>TGCGCA)',
- 'results': None,
- 'site': 'TGCGCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGCGCA'),
- 'ovhgseq': '',
+ 'site': 'TGCGCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['MstI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GCGCNGCGC'),
'compsite': '(?P<MteI>GCGC.GCGC)',
- 'results': None,
- 'site': 'GCGCNGCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -4,
'fst5': 4,
- 'freq': 65536,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (4, -4, None, None, 'GCGCNGCGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCGCNGCGC',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['MteI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CACGCAG'),
'compsite': '(?P<MtuHN878II>CACGCAG)|(?P<MtuHN878II_as>CTGCGTG)',
- 'results': None,
- 'site': 'CACGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CACGCAG'),
- 'ovhgseq': None,
+ 'site': 'CACGCAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['MtuHN878II'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CAATTG'),
'compsite': '(?P<MunI>CAATTG)',
- 'results': None,
- 'site': 'CAATTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K', 'M'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CAATTG'),
- 'ovhgseq': 'AATT',
+ 'site': 'CAATTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K', 'M', 'S'),
}
+
+
rest_dict['MunI'] = _temp()
def _temp():
return {
+ 'charac': (7, -1, None, None, 'GAATGC'),
'compsite': '(?P<Mva1269I>GAATGC)|(?P<Mva1269I_as>GCATTC)',
- 'results': None,
- 'site': 'GAATGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, -1, None, None, 'GAATGC'),
- 'ovhgseq': 'CN',
- }
-rest_dict['Mva1269I'] = _temp()
-
+ 'site': 'GAATGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
+ }
+
+
+rest_dict['Mva1269I'] = _temp()
+
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCWGG'),
'compsite': '(?P<MvaI>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'W',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'M', 'S'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCWGG'),
- 'ovhgseq': 'W',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'M'),
}
+
+
rest_dict['MvaI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCG'),
'compsite': '(?P<MvnI>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCG'),
- 'ovhgseq': '',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('M',),
}
+
+
rest_dict['MvnI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'GCNNNNNNNGC'),
'compsite': '(?P<MwoI>GC.......GC)',
- 'results': None,
- 'site': 'GCNNNNNNNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -7,
'fst5': 7,
- 'freq': 256,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, -7, None, None, 'GCNNNNNNNGC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCNNNNNNNGC',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['MwoI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCCGGC'),
'compsite': '(?P<NaeI>GCCGGC)',
- 'results': None,
- 'site': 'GCCGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'K', 'N'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCCGGC'),
- 'ovhgseq': '',
+ 'site': 'GCCGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'K', 'N'),
}
+
+
rest_dict['NaeI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'ACCAGC'),
'compsite': '(?P<Nal45188II>ACCAGC)|(?P<Nal45188II_as>GCTGGT)',
- 'results': None,
- 'site': 'ACCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'ACCAGC'),
- 'ovhgseq': None,
+ 'site': 'ACCAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Nal45188II'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCGCC'),
'compsite': '(?P<NarI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'M', 'N', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCGCC'),
- 'ovhgseq': 'CG',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'M', 'N', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['NarI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<NciI>CC[CG]GG)',
+ 'charac': (None, None, None, None, 'ACCGAC'),
+ 'compsite': '(?P<Nbr128II>ACCGAC)|(?P<Nbr128II_as>GTCGGT)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'CCSGG',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'ACCGAC',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Nbr128II'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (2, -2, None, None, 'CCSGG'),
+ 'compsite': '(?P<NciI>CC[CG]GG)',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -2,
'fst5': 2,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'S',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N', 'R'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCSGG'),
- 'ovhgseq': 'S',
+ 'site': 'CCSGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N', 'R'),
}
+
+
rest_dict['NciI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCATGG'),
'compsite': '(?P<NcoI>CCATGG)',
- 'results': None,
- 'site': 'CCATGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCATGG'),
- 'ovhgseq': 'CATG',
+ 'site': 'CCATGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X', 'Y'),
}
+
+
rest_dict['NcoI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CATATG'),
'compsite': '(?P<NdeI>CATATG)',
- 'results': None,
- 'site': 'CATATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CATATG'),
- 'ovhgseq': 'TA',
+ 'site': 'CATATG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['NdeI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<NdeII>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'M'),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'M'),
}
+
+
rest_dict['NdeII'] = _temp()
def _temp():
return {
+ 'charac': (12, 7, None, None, 'GCCGC'),
'compsite': '(?P<NgoAVII>GCCGC)|(?P<NgoAVII_as>GCGGC)',
- 'results': None,
- 'site': 'GCCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 7,
'fst5': 12,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (12, 7, None, None, 'GCCGC'),
- 'ovhgseq': '',
+ 'site': 'GCCGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NgoAVII'] = _temp()
def _temp():
return {
+ 'charac': (-12, -25, 24, 11, 'GACNNNNNTGA'),
'compsite': '(?P<NgoAVIII>GAC.....TGA)|(?P<NgoAVIII_as>TCA.....GTC)',
- 'results': None,
- 'site': 'GACNNNNNTGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -25,
'fst5': -12,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 11,
- 'suppl': (),
'scd5': 24,
- 'charac': (-12, -25, 24, 11, 'GACNNNNNTGA'),
- 'ovhgseq': 'NN',
+ 'site': 'GACNNNNNTGA',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NgoAVIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCCGGC'),
'compsite': '(?P<NgoMIV>GCCGGC)',
- 'results': None,
- 'site': 'GCCGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCCGGC'),
- 'ovhgseq': 'CCGG',
+ 'site': 'GCCGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['NgoMIV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CAAGRAG'),
'compsite': '(?P<NhaXI>CAAG[AG]AG)|(?P<NhaXI_as>CT[CT]CTTG)',
- 'results': None,
- 'site': 'CAAGRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CAAGRAG'),
- 'ovhgseq': None,
+ 'site': 'CAAGRAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NhaXI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCTAGC'),
'compsite': '(?P<NheI>GCTAGC)',
- 'results': None,
- 'site': 'GCTAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCTAGC'),
- 'ovhgseq': 'CTAG',
+ 'site': 'GCTAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['NheI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCWGC'),
'compsite': '(?P<NhoI>GC[AT]GC)',
- 'results': None,
- 'site': 'GCWGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': None,
'fst5': None,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCWGC'),
- 'ovhgseq': None,
+ 'site': 'GCWGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NhoI'] = _temp()
def _temp():
return {
+ 'charac': (25, 17, None, None, 'CATCAC'),
'compsite': '(?P<NlaCI>CATCAC)|(?P<NlaCI_as>GTGATG)',
- 'results': None,
- 'site': 'CATCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 17,
'fst5': 25,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (25, 17, None, None, 'CATCAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CATCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NlaCI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CATG'),
'compsite': '(?P<NlaIII>CATG)',
- 'results': None,
- 'site': 'CATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CATG'),
- 'ovhgseq': 'CATG',
+ 'site': 'CATG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['NlaIII'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGNNCC'),
'compsite': '(?P<NlaIV>GG..CC)',
- 'results': None,
- 'site': 'GGNNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGNNCC'),
- 'ovhgseq': '',
+ 'site': 'GGNNCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['NlaIV'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CYCGRG'),
'compsite': '(?P<Nli3877I>C[CT]CG[AG]G)',
- 'results': None,
- 'site': 'CYCGRG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'YCGR',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (5, -5, None, None, 'CYCGRG'),
- 'ovhgseq': 'YCGR',
+ 'site': 'CYCGRG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Nli3877I'] = _temp()
def _temp():
return {
+ 'charac': (27, 19, None, None, 'GCCGAG'),
'compsite': '(?P<NmeAIII>GCCGAG)|(?P<NmeAIII_as>CTCGGC)',
- 'results': None,
- 'site': 'GCCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 19,
'fst5': 27,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (27, 19, None, None, 'GCCGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GCCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['NmeAIII'] = _temp()
def _temp():
return {
+ 'charac': (-12, -13, 13, 12, 'RCCGGY'),
'compsite': '(?P<NmeDI>[AG]CCGG[CT])',
- 'results': None,
- 'site': 'RCCGGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -13,
'fst5': -12,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 12,
- 'suppl': (),
'scd5': 13,
- 'charac': (-12, -13, 13, 12, 'RCCGGY'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'RCCGGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NmeDI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GTSAC'),
'compsite': '(?P<NmuCI>GT[CG]AC)',
- 'results': None,
- 'site': 'GTSAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTSAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GTSAC'),
- 'ovhgseq': 'GTSAC',
+ 'site': 'GTSAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['NmuCI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCGGCCGC'),
'compsite': '(?P<NotI>GCGGCCGC)',
- 'results': None,
- 'site': 'GCGGCCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCGGCCGC'),
- 'ovhgseq': 'GGCC',
+ 'site': 'GCGGCCGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['NotI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<NruI>TCGCGA)',
- 'results': None,
- 'site': 'TCGCGA',
- 'substrat': 'DNA',
- 'fst3': -3,
- 'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
+ 'charac': (None, None, None, None, 'GATCGAC'),
+ 'compsite': '(?P<NpeUS61II>GATCGAC)|(?P<NpeUS61II_as>GTCGATC)',
'dna': None,
+ 'freq': 16384.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
- 'ovhg': 0,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'X'),
'scd5': None,
+ 'site': 'GATCGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['NpeUS61II'] = _temp()
+
+
+def _temp():
+ return {
'charac': (3, -3, None, None, 'TCGCGA'),
+ 'compsite': '(?P<NruI>TCGCGA)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': -3,
+ 'fst5': 3,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': 0,
'ovhgseq': '',
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'TCGCGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['NruI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TGCGCA'),
'compsite': '(?P<NsbI>TGCGCA)',
- 'results': None,
- 'site': 'TGCGCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TGCGCA'),
- 'ovhgseq': '',
+ 'site': 'TGCGCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['NsbI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'ATGCAT'),
'compsite': '(?P<NsiI>ATGCAT)',
- 'results': None,
- 'site': 'ATGCAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'M', 'N', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (5, -5, None, None, 'ATGCAT'),
- 'ovhgseq': 'TGCA',
+ 'site': 'ATGCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'M', 'N', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['NsiI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CMGCKG'),
'compsite': '(?P<NspBII>C[AC]GC[GT]G)',
- 'results': None,
- 'site': 'CMGCKG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'CMGCKG'),
- 'ovhgseq': '',
+ 'site': 'CMGCKG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['NspBII'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'RCATGY'),
'compsite': '(?P<NspI>[AG]CATG[CT])',
- 'results': None,
- 'site': 'RCATGY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'RCATGY'),
- 'ovhgseq': 'CATG',
+ 'site': 'RCATGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['NspI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<NspV>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('J',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('J',),
}
+
+
rest_dict['NspV'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CACNNNNGTG'),
'compsite': '(?P<OliI>CAC....GTG)',
- 'results': None,
- 'site': 'CACNNNNGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CACNNNNGTG'),
- 'ovhgseq': '',
+ 'site': 'CACNNNNGTG',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['OliI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'YAGGAG'),
'compsite': '(?P<OspHL35III>[CT]AGGAG)|(?P<OspHL35III_as>CTCCT[AG])',
- 'results': None,
- 'site': 'YAGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'YAGGAG'),
- 'ovhgseq': None,
+ 'site': 'YAGGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['OspHL35III'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GTAC'),
'compsite': '(?P<PabI>GTAC)',
- 'results': None,
- 'site': 'GTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'GTAC'),
- 'ovhgseq': 'TA',
+ 'site': 'GTAC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PabI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCTTGA'),
'compsite': '(?P<Pac19842II>CCTTGA)|(?P<Pac19842II_as>TCAAGG)',
- 'results': None,
- 'site': 'CCTTGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCTTGA'),
- 'ovhgseq': None,
+ 'site': 'CCTTGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Pac19842II'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'TTAATTAA'),
'compsite': '(?P<PacI>TTAATTAA)',
- 'results': None,
- 'site': 'TTAATTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -5,
'fst5': 5,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'N', 'O'),
'scd5': None,
- 'charac': (5, -5, None, None, 'TTAATTAA'),
- 'ovhgseq': 'AT',
+ 'site': 'TTAATTAA',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'N', 'O'),
}
+
+
rest_dict['PacI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<PaeI>GCATGC)',
- 'results': None,
- 'site': 'GCATGC',
- 'substrat': 'DNA',
- 'fst3': -5,
- 'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
+ 'charac': (None, None, None, None, 'GTAATC'),
+ 'compsite': '(?P<PacIII>GTAATC)|(?P<PacIII_as>GATTAC)',
'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
- 'ovhg': 4,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCATGC'),
- 'ovhgseq': 'CATG',
+ 'site': 'GTAATC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['PaeI'] = _temp()
+
+
+rest_dict['PacIII'] = _temp()
def _temp():
return {
- 'compsite': '(?P<PaeR7I>CTCGAG)',
+ 'charac': (5, -5, None, None, 'GCATGC'),
+ 'compsite': '(?P<PaeI>GCATGC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': -5,
+ 'fst5': 5,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': 4,
+ 'ovhgseq': 'CATG',
'results': None,
- 'site': 'CTCGAG',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GCATGC',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': ('B',),
+ }
+
+
+rest_dict['PaeI'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (1, -1, None, None, 'CTCGAG'),
+ 'compsite': '(?P<PaeR7I>CTCGAG)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTCGAG'),
- 'ovhgseq': 'TCGA',
+ 'site': 'CTCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PaeR7I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCATGA'),
'compsite': '(?P<PagI>TCATGA)',
- 'results': None,
- 'site': 'TCATGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCATGA'),
- 'ovhgseq': 'CATG',
+ 'site': 'TCATGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PagI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCRTGAG'),
'compsite': '(?P<Pal408I>CC[AG]TGAG)|(?P<Pal408I_as>CTCA[CT]GG)',
- 'results': None,
- 'site': 'CCRTGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCRTGAG'),
- 'ovhgseq': None,
+ 'site': 'CCRTGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Pal408I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCGCGCC'),
'compsite': '(?P<PalAI>GGCGCGCC)',
- 'results': None,
- 'site': 'GGCGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCGCGCC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GGCGCGCC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PalAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCCWGGG'),
'compsite': '(?P<PasI>CCC[AT]GGG)',
- 'results': None,
- 'site': 'CCCWGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'CWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCCWGGG'),
- 'ovhgseq': 'CWG',
+ 'site': 'CCCWGGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PasI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGCGC'),
'compsite': '(?P<PauI>GCGCGC)',
- 'results': None,
- 'site': 'GCGCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGCGC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GCGCGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PauI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<PceI>AGGCCT)',
+ 'charac': (None, None, None, None, 'GACGAG'),
+ 'compsite': '(?P<PcaII>GACGAG)|(?P<PcaII_as>CTCGTC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'AGGCCT',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GACGAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['PcaII'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (3, -3, None, None, 'AGGCCT'),
+ 'compsite': '(?P<PceI>AGGCCT)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGGCCT'),
- 'ovhgseq': '',
+ 'site': 'AGGCCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['PceI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACATGT'),
'compsite': '(?P<PciI>ACATGT)',
- 'results': None,
- 'site': 'ACATGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACATGT'),
- 'ovhgseq': 'CATG',
+ 'site': 'ACATGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['PciI'] = _temp()
def _temp():
return {
+ 'charac': (8, 4, None, None, 'GCTCTTC'),
'compsite': '(?P<PciSI>GCTCTTC)|(?P<PciSI_as>GAAGAGC)',
- 'results': None,
- 'site': 'GCTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 4,
'fst5': 8,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (8, 4, None, None, 'GCTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCTCTTC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PciSI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'WCGNNNNNNNCGW'),
'compsite': '(?P<PcsI>[AT]CG.......CG[AT])',
- 'results': None,
- 'site': 'WCGNNNNNNNCGW',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -7,
'fst5': 7,
- 'freq': 1024,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (7, -7, None, None, 'WCGNNNNNNNCGW'),
- 'ovhgseq': 'N',
+ 'site': 'WCGNNNNNNNCGW',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PcsI'] = _temp()
def _temp():
return {
+ 'charac': (7, -1, None, None, 'GAATGC'),
'compsite': '(?P<PctI>GAATGC)|(?P<PctI_as>GCATTC)',
- 'results': None,
- 'site': 'GAATGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'CN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (7, -1, None, None, 'GAATGC'),
- 'ovhgseq': 'CN',
+ 'site': 'GAATGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['PctI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCGGNAG'),
'compsite': '(?P<Pdi8503III>CCGG.AG)|(?P<Pdi8503III_as>CT.CCGG)',
- 'results': None,
- 'site': 'CCGGNAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCGGNAG'),
- 'ovhgseq': None,
+ 'site': 'CCGGNAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Pdi8503III'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCCGGC'),
'compsite': '(?P<PdiI>GCCGGC)',
- 'results': None,
- 'site': 'GCCGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCCGGC'),
- 'ovhgseq': '',
+ 'site': 'GCCGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PdiI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAANNNNTTC'),
'compsite': '(?P<PdmI>GAA....TTC)',
- 'results': None,
- 'site': 'GAANNNNTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAANNNNTTC'),
- 'ovhgseq': '',
+ 'site': 'GAANNNNTTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PdmI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CACCAC'),
'compsite': '(?P<Pdu1735I>CACCAC)|(?P<Pdu1735I_as>GTGGTG)',
- 'results': None,
- 'site': 'CACCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CACCAC'),
- 'ovhgseq': None,
+ 'site': 'CACCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Pdu1735I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCAGT'),
'compsite': '(?P<PenI>GCAGT)|(?P<PenI_as>ACTGC)',
- 'results': None,
- 'site': 'GCAGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCAGT'),
- 'ovhgseq': None,
+ 'site': 'GCAGT',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PenI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GAWTC'),
'compsite': '(?P<PfeI>GA[AT]TC)',
- 'results': None,
- 'site': 'GAWTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'AWT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GAWTC'),
- 'ovhgseq': 'AWT',
+ 'site': 'GAWTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PfeI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TCGTAG'),
'compsite': '(?P<Pfl1108I>TCGTAG)|(?P<Pfl1108I_as>CTACGA)',
- 'results': None,
- 'site': 'TCGTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TCGTAG'),
- 'ovhgseq': None,
+ 'site': 'TCGTAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Pfl1108I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGTACG'),
'compsite': '(?P<Pfl23II>CGTACG)',
- 'results': None,
- 'site': 'CGTACG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGTACG'),
- 'ovhgseq': 'GTAC',
+ 'site': 'CGTACG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Pfl23II'] = _temp()
def _temp():
return {
- 'compsite': '(?P<PflFI>GAC...GTC)',
+ 'charac': (3, -3, None, None, 'GCNNGC'),
+ 'compsite': '(?P<Pfl8569I>GC..GC)',
+ 'dna': None,
+ 'freq': 256.0,
+ 'fst3': -3,
+ 'fst5': 3,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': 0,
+ 'ovhgseq': '',
'results': None,
- 'site': 'GACNNNGTC',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GCNNGC',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Pfl8569I'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (4, -4, None, None, 'GACNNNGTC'),
+ 'compsite': '(?P<PflFI>GAC...GTC)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (4, -4, None, None, 'GACNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNGTC',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PflFI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCANNNNNTGG'),
'compsite': '(?P<PflMI>CCA.....TGG)',
- 'results': None,
- 'site': 'CCANNNNNTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCANNNNNTGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCANNNNNTGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PflMI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCCNGGA'),
'compsite': '(?P<PfoI>TCC.GGA)',
- 'results': None,
- 'site': 'TCCNGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCNGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCCNGGA'),
- 'ovhgseq': 'CCNGG',
+ 'site': 'TCCNGGA',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PfoI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCGGT'),
'compsite': '(?P<PinAI>ACCGGT)',
- 'results': None,
- 'site': 'ACCGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
- 'scd3': None,
- 'suppl': ('Q', 'X'),
- 'scd5': None,
- 'charac': (1, -1, None, None, 'ACCGGT'),
'ovhgseq': 'CCGG',
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'ACCGGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['PinAI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GCNGC'),
'compsite': '(?P<PkrI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PkrI'] = _temp()
def _temp():
return {
+ 'charac': (27, 19, None, None, 'CATCAG'),
'compsite': '(?P<PlaDI>CATCAG)|(?P<PlaDI_as>CTGATG)',
- 'results': None,
- 'site': 'CATCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 19,
'fst5': 27,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 19, None, None, 'CATCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PlaDI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CGATCG'),
'compsite': '(?P<Ple19I>CGATCG)',
- 'results': None,
- 'site': 'CGATCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CGATCG'),
- 'ovhgseq': 'AT',
+ 'site': 'CGATCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Ple19I'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'GAGTC'),
'compsite': '(?P<PleI>GAGTC)|(?P<PleI_as>GACTC)',
- 'results': None,
- 'site': 'GAGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (9, 5, None, None, 'GAGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GAGTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PleI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGCCGAC'),
'compsite': '(?P<PliMI>CGCCGAC)|(?P<PliMI_as>GTCGGCG)',
- 'results': None,
- 'site': 'CGCCGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGCCGAC'),
- 'ovhgseq': None,
+ 'site': 'CGCCGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PliMI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GGCGCC'),
'compsite': '(?P<PluTI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'GCGC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GGCGCC'),
- 'ovhgseq': 'GCGC',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PluTI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTG'),
'compsite': '(?P<PmaCI>CACGTG)',
- 'results': None,
- 'site': 'CACGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
- 'scd3': None,
- 'suppl': ('K',),
- 'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTG'),
'ovhgseq': '',
- }
-rest_dict['PmaCI'] = _temp()
-
-
-def _temp():
- return {
- 'compsite': '(?P<Pme5II>GACGAG)|(?P<Pme5II_as>CTCGTC)',
'results': None,
- 'site': 'GACGAG',
- 'substrat': 'DNA',
- 'fst3': None,
- 'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
- 'ovhg': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GACGAG'),
- 'ovhgseq': None,
+ 'site': 'CACGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
-rest_dict['Pme5II'] = _temp()
+
+
+rest_dict['PmaCI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GTTTAAAC'),
'compsite': '(?P<PmeI>GTTTAAAC)',
- 'results': None,
- 'site': 'GTTTAAAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -4,
'fst5': 4,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
- 'scd3': None,
- 'suppl': ('N',),
- 'scd5': None,
- 'charac': (4, -4, None, None, 'GTTTAAAC'),
'ovhgseq': '',
- }
-rest_dict['PmeI'] = _temp()
-
-
-def _temp():
- return {
- 'compsite': '(?P<PmeS132I>GACGAG)|(?P<PmeS132I_as>CTCGTC)',
'results': None,
- 'site': 'GACGAG',
- 'substrat': 'DNA',
- 'fst3': None,
- 'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
- 'ovhg': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GACGAG'),
- 'ovhgseq': None,
+ 'site': 'GTTTAAAC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
-rest_dict['PmeS132I'] = _temp()
+
+
+rest_dict['PmeI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTG'),
'compsite': '(?P<PmlI>CACGTG)',
- 'results': None,
- 'site': 'CACGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTG'),
- 'ovhgseq': '',
+ 'site': 'CACGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PmlI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -24, 25, 8, 'GAACNNNNNCTC'),
'compsite': '(?P<PpiI>GAAC.....CTC)|(?P<PpiI_as>GAG.....GTTC)',
- 'results': None,
- 'site': 'GAACNNNNNCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -24,
'fst5': -7,
- 'freq': 16384,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 8,
- 'suppl': (),
'scd5': 25,
- 'charac': (-7, -24, 25, 8, 'GAACNNNNNCTC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAACNNNNNCTC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PpiI'] = _temp()
def _temp():
return {
+ 'charac': (9, 5, None, None, 'GAGTC'),
'compsite': '(?P<PpsI>GAGTC)|(?P<PpsI_as>GACTC)',
- 'results': None,
- 'site': 'GAGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 9,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (9, 5, None, None, 'GAGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GAGTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PpsI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ATGCAT'),
'compsite': '(?P<Ppu10I>ATGCAT)',
- 'results': None,
- 'site': 'ATGCAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'ATGCAT'),
- 'ovhgseq': 'TGCA',
+ 'site': 'ATGCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Ppu10I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'YACGTR'),
'compsite': '(?P<Ppu21I>[CT]ACGT[AG])',
- 'results': None,
- 'site': 'YACGTR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -3,
'fst5': 3,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'YACGTR'),
- 'ovhgseq': '',
+ 'site': 'YACGTR',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Ppu21I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGGWCCY'),
'compsite': '(?P<PpuMI>[AG]GG[AT]CC[CT])',
- 'results': None,
- 'site': 'RGGWCCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': -2,
'fst5': 2,
- 'freq': 2048,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGGWCCY'),
- 'ovhgseq': 'GWC',
+ 'site': 'RGGWCCY',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PpuMI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACATGT'),
'compsite': '(?P<PscI>ACATGT)',
- 'results': None,
- 'site': 'ACATGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACATGT'),
- 'ovhgseq': 'CATG',
+ 'site': 'ACATGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PscI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'RCCGAAG'),
'compsite': '(?P<Pse18267I>[AG]CCGAAG)|(?P<Pse18267I_as>CTTCGG[CT])',
- 'results': None,
- 'site': 'RCCGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'RCCGAAG'),
- 'ovhgseq': None,
+ 'site': 'RCCGAAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Pse18267I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GACNNNNGTC'),
'compsite': '(?P<PshAI>GAC....GTC)',
- 'results': None,
- 'site': 'GACNNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('K', 'N'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GACNNNNGTC'),
- 'ovhgseq': '',
+ 'site': 'GACNNNNGTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('K', 'N'),
}
+
+
rest_dict['PshAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATTAAT'),
'compsite': '(?P<PshBI>ATTAAT)',
- 'results': None,
- 'site': 'ATTAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATTAAT'),
- 'ovhgseq': 'TA',
+ 'site': 'ATTAAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['PshBI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TTATAA'),
'compsite': '(?P<PsiI>TTATAA)',
- 'results': None,
- 'site': 'TTATAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TTATAA'),
- 'ovhgseq': '',
+ 'site': 'TTATAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['PsiI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCGAAG'),
'compsite': '(?P<Psp0357II>GCGAAG)|(?P<Psp0357II_as>CTTCGC)',
- 'results': None,
- 'site': 'GCGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCGAAG'),
- 'ovhgseq': None,
+ 'site': 'GCGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Psp0357II'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GGWCC'),
'compsite': '(?P<Psp03I>GG[AT]CC)',
- 'results': None,
- 'site': 'GGWCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -4,
'fst5': 4,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
- 'scd3': None,
- 'suppl': (),
- 'scd5': None,
- 'charac': (4, -4, None, None, 'GGWCC'),
'ovhgseq': 'GWC',
- }
-rest_dict['Psp03I'] = _temp()
-
-
-def _temp():
- return {
- 'compsite': '(?P<Psp10HII>G[AG]AGCAG)|(?P<Psp10HII_as>CTGCT[CT]C)',
'results': None,
- 'site': 'GRAGCAG',
- 'substrat': 'DNA',
- 'fst3': None,
- 'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
- 'inact_temp': 65,
- 'ovhg': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GRAGCAG'),
- 'ovhgseq': None,
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['Psp10HII'] = _temp()
+
+
+rest_dict['Psp03I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAGCTC'),
'compsite': '(?P<Psp124BI>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'AGCT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAGCTC'),
- 'ovhgseq': 'AGCT',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Psp124BI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'AACGTT'),
'compsite': '(?P<Psp1406I>AACGTT)',
- 'results': None,
- 'site': 'AACGTT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (2, -2, None, None, 'AACGTT'),
- 'ovhgseq': 'CG',
+ 'site': 'AACGTT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Psp1406I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGGWCCY'),
'compsite': '(?P<Psp5II>[AG]GG[AT]CC[CT])',
- 'results': None,
- 'site': 'RGGWCCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': -2,
'fst5': 2,
- 'freq': 2048,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGGWCCY'),
- 'ovhgseq': 'GWC',
+ 'site': 'RGGWCCY',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Psp5II'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCWGG'),
'compsite': '(?P<Psp6I>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCWGG'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['Psp6I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CACGTG'),
'compsite': '(?P<PspCI>CACGTG)',
- 'results': None,
- 'site': 'CACGTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'CACGTG'),
- 'ovhgseq': '',
+ 'site': 'CACGTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['PspCI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGTNACC'),
'compsite': '(?P<PspEI>GGT.ACC)',
- 'results': None,
- 'site': 'GGTNACC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTNAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGTNACC'),
- 'ovhgseq': 'GTNAC',
+ 'site': 'GGTNACC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['PspEI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCCAGC'),
'compsite': '(?P<PspFI>CCCAGC)|(?P<PspFI_as>GCTGGG)',
- 'results': None,
- 'site': 'CCCAGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCCAGC'),
- 'ovhgseq': 'CCAG',
+ 'site': 'CCCAGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PspFI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCWGG'),
'compsite': '(?P<PspGI>CC[AT]GG)',
- 'results': None,
- 'site': 'CCWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCWGG'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'CCWGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['PspGI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGTACG'),
'compsite': '(?P<PspLI>CGTACG)',
- 'results': None,
- 'site': 'CGTACG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGTACG'),
- 'ovhgseq': 'GTAC',
+ 'site': 'CGTACG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PspLI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGNNCC'),
'compsite': '(?P<PspN4I>GG..CC)',
- 'results': None,
- 'site': 'GGNNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGNNCC'),
- 'ovhgseq': '',
+ 'site': 'GGNNCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PspN4I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGGCCC'),
'compsite': '(?P<PspOMI>GGGCCC)',
- 'results': None,
- 'site': 'GGGCCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGGCCC'),
- 'ovhgseq': 'GGCC',
+ 'site': 'GGGCCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'V'),
}
+
+
rest_dict['PspOMI'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'CGCCCAR'),
'compsite': '(?P<PspOMII>CGCCCA[AG])|(?P<PspOMII_as>[CT]TGGGCG)',
- 'results': None,
- 'site': 'CGCCCAR',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': 18,
'fst5': 27,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'CGCCCAR'),
- 'ovhgseq': 'NN',
+ 'site': 'CGCCCAR',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PspOMII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGNCC'),
'compsite': '(?P<PspPI>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['PspPI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'RGGWCCY'),
'compsite': '(?P<PspPPI>[AG]GG[AT]CC[CT])',
- 'results': None,
- 'site': 'RGGWCCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': -2,
'fst5': 2,
- 'freq': 2048,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (2, -2, None, None, 'RGGWCCY'),
- 'ovhgseq': 'GWC',
+ 'site': 'RGGWCCY',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PspPPI'] = _temp()
def _temp():
return {
+ 'charac': (21, 13, None, None, 'CCYCAG'),
'compsite': '(?P<PspPRI>CC[CT]CAG)|(?P<PspPRI_as>CTG[AG]GG)',
- 'results': None,
- 'site': 'CCYCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 13,
'fst5': 21,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (21, 13, None, None, 'CCYCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CCYCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PspPRI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'VCTCGAGB'),
'compsite': '(?P<PspXI>[ACG]CTCGAG[CGT])',
- 'results': None,
- 'site': 'VCTCGAGB',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 7281.777777777777,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N'),
'scd5': None,
- 'charac': (2, -2, None, None, 'VCTCGAGB'),
- 'ovhgseq': 'TCGA',
+ 'site': 'VCTCGAGB',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N'),
}
+
+
rest_dict['PspXI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -25, 25, 7, 'GAACNNNNNNTAC'),
'compsite': '(?P<PsrI>GAAC......TAC)|(?P<PsrI_as>GTA......GTTC)',
- 'results': None,
- 'site': 'GAACNNNNNNTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -25,
'fst5': -7,
- 'freq': 16384,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 7,
- 'suppl': ('I',),
'scd5': 25,
- 'charac': (-7, -25, 25, 7, 'GAACNNNNNNTAC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'GAACNNNNNNTAC',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PsrI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'RGGNCCY'),
'compsite': '(?P<PssI>[AG]GG.CC[CT])',
- 'results': None,
- 'site': 'RGGNCCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (5, -5, None, None, 'RGGNCCY'),
- 'ovhgseq': 'GNC',
+ 'site': 'RGGNCCY',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PssI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CNYACAC'),
'compsite': '(?P<Pst14472I>C.[CT]ACAC)|(?P<Pst14472I_as>GTGT[AG].G)',
+ 'dna': None,
+ 'freq': 2048.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
+ 'scd3': None,
+ 'scd5': None,
'site': 'CNYACAC',
+ 'size': 7,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Pst14472I'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCGAG'),
+ 'compsite': '(?P<Pst273I>GATCGAG)|(?P<Pst273I_as>CTCGATC)',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 2048,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CNYACAC'),
- 'ovhgseq': None,
+ 'site': 'GATCGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['Pst14472I'] = _temp()
+
+
+rest_dict['Pst273I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CTGCAG'),
'compsite': '(?P<PstI>CTGCAG)',
- 'results': None,
- 'site': 'CTGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (5, -5, None, None, 'CTGCAG'),
- 'ovhgseq': 'TGCA',
+ 'site': 'CTGCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['PstI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CAGNNNCTG'),
'compsite': '(?P<PstNI>CAG...CTG)',
- 'results': None,
- 'site': 'CAGNNNCTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -6,
'fst5': 6,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (6, -6, None, None, 'CAGNNNCTG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CAGNNNCTG',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['PstNI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'BBCGD'),
'compsite': '(?P<PsuGI>[CGT][CGT]CG[AGT])|(?P<PsuGI_as>[ACT]CG[ACG][ACG])',
- 'results': None,
- 'site': 'BBCGD',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 37.925925925925924,
'fst3': None,
'fst5': None,
- 'freq': 16,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'BBCGD'),
- 'ovhgseq': None,
+ 'site': 'BBCGD',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['PsuGI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RGATCY'),
'compsite': '(?P<PsuI>[AG]GATC[CT])',
- 'results': None,
- 'site': 'RGATCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RGATCY'),
- 'ovhgseq': 'GATC',
+ 'site': 'RGATCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PsuI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GACNNNGTC'),
'compsite': '(?P<PsyI>GAC...GTC)',
- 'results': None,
- 'site': 'GACNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'GACNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNGTC',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PsyI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCGCGC'),
'compsite': '(?P<PteI>GCGCGC)',
- 'results': None,
- 'site': 'GCGCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCGCGC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GCGCGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['PteI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CGATCG'),
'compsite': '(?P<PvuI>CGATCG)',
- 'results': None,
- 'site': 'CGATCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (4, -4, None, None, 'CGATCG'),
- 'ovhgseq': 'AT',
+ 'site': 'CGATCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['PvuI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CAGCTG'),
'compsite': '(?P<PvuII>CAGCTG)',
- 'results': None,
- 'site': 'CAGCTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'CAGCTG'),
- 'ovhgseq': '',
+ 'site': 'CAGCTG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['PvuII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CACGAGH'),
'compsite': '(?P<Rba2021I>CACGAG[ACT])|(?P<Rba2021I_as>[AGT]CTCGTG)',
- 'results': None,
- 'site': 'CACGAGH',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 5461.333333333333,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CACGAGH'),
- 'ovhgseq': None,
+ 'site': 'CACGAGH',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Rba2021I'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'CATCGAC'),
'compsite': '(?P<RceI>CATCGAC)|(?P<RceI_as>GTCGATG)',
- 'results': None,
- 'site': 'CATCGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 18,
'fst5': 27,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'CATCGAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CATCGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RceI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CCGCAG'),
'compsite': '(?P<RdeGBI>CCGCAG)|(?P<RdeGBI_as>CTGCGG)',
- 'results': None,
- 'site': 'CCGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCGCAG'),
- 'ovhgseq': None,
+ 'site': 'CCGCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RdeGBI'] = _temp()
def _temp():
return {
+ 'charac': (26, 18, None, None, 'ACCCAG'),
'compsite': '(?P<RdeGBII>ACCCAG)|(?P<RdeGBII_as>CTGGGT)',
- 'results': None,
- 'site': 'ACCCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 18,
'fst5': 26,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (26, 18, None, None, 'ACCCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'ACCCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RdeGBII'] = _temp()
def _temp():
return {
+ 'charac': (-9, -17, 17, 9, 'TGRYCA'),
'compsite': '(?P<RdeGBIII>TG[AG][CT]CA)',
- 'results': None,
- 'site': 'TGRYCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -17,
'fst5': -9,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 9,
- 'suppl': (),
'scd5': 17,
- 'charac': (-9, -17, 17, 9, 'TGRYCA'),
- 'ovhgseq': 'NN',
+ 'site': 'TGRYCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RdeGBIII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGCCAG'),
'compsite': '(?P<RflFIII>CGCCAG)|(?P<RflFIII_as>CTGGCG)',
- 'results': None,
- 'site': 'CGCCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGCCAG'),
- 'ovhgseq': None,
+ 'site': 'CGCCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RflFIII'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCGATCGC'),
'compsite': '(?P<RgaI>GCGATCGC)',
- 'results': None,
- 'site': 'GCGATCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -5,
'fst5': 5,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCGATCGC'),
- 'ovhgseq': 'AT',
+ 'site': 'GCGATCGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['RgaI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'GGCCGGCC'),
'compsite': '(?P<RigI>GGCCGGCC)',
- 'results': None,
- 'site': 'GGCCGGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -6,
'fst5': 6,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (6, -6, None, None, 'GGCCGGCC'),
- 'ovhgseq': 'CCGG',
+ 'site': 'GGCCGGCC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['RigI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'VCW'),
'compsite': '(?P<RlaI>[ACG]C[AT])|(?P<RlaI_as>[AT]G[CGT])',
- 'results': None,
- 'site': 'VCW',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 10.666666666666666,
'fst3': None,
'fst5': None,
- 'freq': 8,
- 'size': 3,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'VCW'),
- 'ovhgseq': None,
+ 'site': 'VCW',
+ 'size': 3,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RlaI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<RleAI>CCCACA)|(?P<RleAI_as>TGTGGG)',
+ 'charac': (26, 18, None, None, 'ACACAG'),
+ 'compsite': '(?P<RlaII>ACACAG)|(?P<RlaII_as>CTGTGT)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': 18,
+ 'fst5': 26,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': 2,
+ 'ovhgseq': 'NN',
'results': None,
- 'site': 'CCCACA',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'ACACAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['RlaII'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (18, 9, None, None, 'CCCACA'),
+ 'compsite': '(?P<RleAI>CCCACA)|(?P<RleAI_as>TGTGGG)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 9,
'fst5': 18,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (18, 9, None, None, 'CCCACA'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCCACA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RleAI'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'CGRGGAC'),
'compsite': '(?P<RpaB5I>CG[AG]GGAC)|(?P<RpaB5I_as>GTCC[CT]CG)',
- 'results': None,
- 'site': 'CGRGGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': 18,
'fst5': 27,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'CGRGGAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CGRGGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RpaB5I'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'CCCGCAG'),
'compsite': '(?P<RpaBI>CCCGCAG)|(?P<RpaBI_as>CTGCGGG)',
- 'results': None,
- 'site': 'CCCGCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 18,
'fst5': 27,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'CCCGCAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CCCGCAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RpaBI'] = _temp()
def _temp():
return {
+ 'charac': (18, 9, None, None, 'GTYGGAG'),
'compsite': '(?P<RpaI>GT[CT]GGAG)|(?P<RpaI_as>CTCC[AG]AC)',
- 'results': None,
- 'site': 'GTYGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': 9,
'fst5': 18,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (18, 9, None, None, 'GTYGGAG'),
- 'ovhgseq': 'NN',
+ 'site': 'GTYGGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RpaI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GRTGGAG'),
'compsite': '(?P<RpaTI>G[AG]TGGAG)|(?P<RpaTI_as>CTCCA[CT]C)',
- 'results': None,
- 'site': 'GRTGGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GRTGGAG'),
- 'ovhgseq': None,
+ 'site': 'GRTGGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['RpaTI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TCGCGA'),
'compsite': '(?P<RruI>TCGCGA)',
- 'results': None,
- 'site': 'TCGCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'TCGCGA'),
- 'ovhgseq': '',
+ 'site': 'TCGCGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['RruI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GTAC'),
'compsite': '(?P<RsaI>GTAC)',
- 'results': None,
- 'site': 'GTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'M', 'N', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (2, -2, None, None, 'GTAC'),
- 'ovhgseq': '',
+ 'site': 'GTAC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'M', 'N', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['RsaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTAC'),
'compsite': '(?P<RsaNI>GTAC)',
- 'results': None,
- 'site': 'GTAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTAC'),
- 'ovhgseq': 'TA',
+ 'site': 'GTAC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['RsaNI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CAYNNNNRTG'),
'compsite': '(?P<RseI>CA[CT]....[AG]TG)',
- 'results': None,
- 'site': 'CAYNNNNRTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CAYNNNNRTG'),
- 'ovhgseq': '',
+ 'site': 'CAYNNNNRTG',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['RseI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<Rsr2I>CGG[AT]CCG)',
+ 'charac': (None, None, None, None, 'ACGCAG'),
+ 'compsite': '(?P<Rsp008IV>ACGCAG)|(?P<Rsp008IV_as>CTGCGT)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'CGGWCCG',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'ACGCAG',
+ 'size': 6,
'substrat': 'DNA',
- 'fst3': -2,
- 'fst5': 2,
- 'freq': 8192,
- 'size': 7,
+ 'suppl': (),
+ }
+
+
+rest_dict['Rsp008IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GCCCAT'),
+ 'compsite': '(?P<Rsp008V>GCCCAT)|(?P<Rsp008V_as>ATGGGC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GCCCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Rsp008V'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'CTTCGAG'),
+ 'compsite': '(?P<RspPBTS2III>CTTCGAG)|(?P<RspPBTS2III_as>CTCGAAG)',
'dna': None,
+ 'freq': 16384.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
- 'ovhg': -3,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
+ 'site': 'CTTCGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['RspPBTS2III'] = _temp()
+
+
+def _temp():
+ return {
'charac': (2, -2, None, None, 'CGGWCCG'),
+ 'compsite': '(?P<Rsr2I>CGG[AT]CCG)',
+ 'dna': None,
+ 'freq': 8192.0,
+ 'fst3': -2,
+ 'fst5': 2,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': -3,
'ovhgseq': 'GWC',
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'CGGWCCG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Rsr2I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGGWCCG'),
'compsite': '(?P<RsrII>CGG[AT]CCG)',
- 'results': None,
- 'site': 'CGGWCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N', 'Q', 'X'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGGWCCG'),
- 'ovhgseq': 'GWC',
+ 'site': 'CGGWCCG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N', 'Q', 'X'),
}
+
+
rest_dict['RsrII'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAGCTC'),
'compsite': '(?P<SacI>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'AGCT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAGCTC'),
- 'ovhgseq': 'AGCT',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['SacI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CCGCGG'),
'compsite': '(?P<SacII>CCGCGG)',
- 'results': None,
- 'site': 'CCGCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'N', 'O', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (4, -4, None, None, 'CCGCGG'),
- 'ovhgseq': 'GC',
+ 'site': 'CCGCGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'N', 'O', 'Q', 'R', 'X'),
}
+
+
rest_dict['SacII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CAATNAG'),
'compsite': '(?P<Saf8902III>CAAT.AG)|(?P<Saf8902III_as>CT.ATTG)',
- 'results': None,
- 'site': 'CAATNAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CAATNAG'),
- 'ovhgseq': None,
+ 'site': 'CAATNAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Saf8902III'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTCGAC'),
'compsite': '(?P<SalI>GTCGAC)',
- 'results': None,
- 'site': 'GTCGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTCGAC'),
- 'ovhgseq': 'TCGA',
+ 'site': 'GTCGAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['SalI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGGWCCC'),
'compsite': '(?P<SanDI>GGG[AT]CCC)',
- 'results': None,
- 'site': 'GGGWCCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGGWCCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGGWCCC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SanDI'] = _temp()
def _temp():
return {
+ 'charac': (8, 4, None, None, 'GCTCTTC'),
'compsite': '(?P<SapI>GCTCTTC)|(?P<SapI_as>GAAGAGC)',
- 'results': None,
- 'site': 'GCTCTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 4,
'fst5': 8,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (8, 4, None, None, 'GCTCTTC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GCTCTTC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['SapI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TTAA'),
'compsite': '(?P<SaqAI>TTAA)',
- 'results': None,
- 'site': 'TTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TTAA'),
- 'ovhgseq': 'TA',
+ 'site': 'TTAA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SaqAI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GCNGC'),
'compsite': '(?P<SatI>GC.GC)',
- 'results': None,
- 'site': 'GCNGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GCNGC'),
- 'ovhgseq': 'N',
+ 'site': 'GCNGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SatI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GATC'),
'compsite': '(?P<Sau3AI>GATC)',
- 'results': None,
- 'site': 'GATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'J', 'K', 'M', 'N', 'R', 'S'),
'scd5': None,
- 'charac': (0, 0, None, None, 'GATC'),
- 'ovhgseq': 'GATC',
+ 'site': 'GATC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'J', 'K', 'M', 'N', 'R'),
}
+
+
rest_dict['Sau3AI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGNCC'),
'compsite': '(?P<Sau96I>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GNC',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGNCC'),
- 'ovhgseq': 'GNC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N'),
}
+
+
rest_dict['Sau96I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCTNAGG'),
'compsite': '(?P<SauI>CCT.AGG)',
- 'results': None,
- 'site': 'CCTNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'TNA',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCTNAGG'),
- 'ovhgseq': 'TNA',
+ 'site': 'CCTNAGG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SauI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CCTGCAGG'),
'compsite': '(?P<SbfI>CCTGCAGG)',
- 'results': None,
- 'site': 'CCTGCAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -6,
'fst5': 6,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'V'),
'scd5': None,
- 'charac': (6, -6, None, None, 'CCTGCAGG'),
- 'ovhgseq': 'TGCA',
+ 'site': 'CCTGCAGG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'V'),
}
+
+
rest_dict['SbfI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TGAAC'),
'compsite': '(?P<Sbo46I>TGAAC)|(?P<Sbo46I_as>GTTCA)',
- 'results': None,
- 'site': 'TGAAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TGAAC'),
- 'ovhgseq': None,
+ 'site': 'TGAAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sbo46I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGTACT'),
'compsite': '(?P<ScaI>AGTACT)',
- 'results': None,
- 'site': 'AGTACT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGTACT'),
- 'ovhgseq': '',
+ 'site': 'AGTACT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['ScaI'] = _temp()
def _temp():
return {
+ 'charac': (10, 5, None, None, 'GAGTC'),
'compsite': '(?P<SchI>GAGTC)|(?P<SchI_as>GACTC)',
- 'results': None,
- 'site': 'GAGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 5,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (10, 5, None, None, 'GAGTC'),
- 'ovhgseq': '',
+ 'site': 'GAGTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SchI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CTCGAG'),
'compsite': '(?P<SciI>CTCGAG)',
- 'results': None,
- 'site': 'CTCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'CTCGAG'),
- 'ovhgseq': '',
+ 'site': 'CTCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SciI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCNGG'),
'compsite': '(?P<ScrFI>CC.GG)',
- 'results': None,
- 'site': 'CCNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'N'),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCNGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCNGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'N'),
}
+
+
rest_dict['ScrFI'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CCTGCAGG'),
'compsite': '(?P<SdaI>CCTGCAGG)',
- 'results': None,
- 'site': 'CCTGCAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -6,
'fst5': 6,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (6, -6, None, None, 'CCTGCAGG'),
- 'ovhgseq': 'TGCA',
+ 'site': 'CCTGCAGG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SdaI'] = _temp()
def _temp():
return {
+ 'charac': (27, 19, None, None, 'CAGRAG'),
'compsite': '(?P<SdeAI>CAG[AG]AG)|(?P<SdeAI_as>CT[CT]CTG)',
- 'results': None,
- 'site': 'CAGRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 19,
'fst5': 27,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 19, None, None, 'CAGRAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CAGRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SdeAI'] = _temp()
def _temp():
return {
+ 'charac': (-11, -24, 23, 10, 'GACNNNNRTGA'),
'compsite': '(?P<SdeOSI>GAC....[AG]TGA)|(?P<SdeOSI_as>TCA[CT]....GTC)',
- 'results': None,
- 'site': 'GACNNNNRTGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -24,
'fst5': -11,
- 'freq': 8192,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 10,
- 'suppl': (),
'scd5': 23,
- 'charac': (-11, -24, 23, 10, 'GACNNNNRTGA'),
- 'ovhgseq': 'NN',
+ 'site': 'GACNNNNRTGA',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SdeOSI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GDGCHC'),
'compsite': '(?P<SduI>G[AGT]GC[ACT]C)',
- 'results': None,
- 'site': 'GDGCHC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 455.1111111111111,
'fst3': -5,
'fst5': 5,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'DGCH',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GDGCHC'),
- 'ovhgseq': 'DGCH',
+ 'site': 'GDGCHC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SduI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCNNGG'),
'compsite': '(?P<SecI>CC..GG)',
- 'results': None,
- 'site': 'CCNNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CNNG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCNNGG'),
- 'ovhgseq': 'CNNG',
+ 'site': 'CCNNGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SecI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CGCG'),
'compsite': '(?P<SelI>CGCG)',
- 'results': None,
- 'site': 'CGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (0, 0, None, None, 'CGCG'),
- 'ovhgseq': 'CGCG',
+ 'site': 'CGCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SelI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GATCAG'),
'compsite': '(?P<Sen13311III>GATCAG)|(?P<Sen13311III_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
+ 'scd3': None,
+ 'scd5': None,
'site': 'GATCAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen13311III'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen13III>GATCAG)|(?P<Sen13III_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
+ 'inact_temp': 65,
'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen13III'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1736II>GATCAG)|(?P<Sen1736II_as>CTGATC)',
'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen1736II'] = _temp()
+
+
+def _temp():
+ return {
'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1878IV>GATCAG)|(?P<Sen1878IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['Sen13311III'] = _temp()
+
+
+rest_dict['Sen1878IV'] = _temp()
def _temp():
return {
- 'compsite': '(?P<Sen1736II>GATCAG)|(?P<Sen1736II_as>CTGATC)',
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1880IV>GATCAG)|(?P<Sen1880IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
+ 'scd3': None,
+ 'scd5': None,
'site': 'GATCAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen1880IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1896IV>GATCAG)|(?P<Sen1896IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
+ 'inact_temp': 65,
'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen1896IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1898IV>GATCAG)|(?P<Sen1898IV_as>CTGATC)',
'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
'suppl': (),
+ }
+
+
+rest_dict['Sen1898IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1906IV>GATCAG)|(?P<Sen1906IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen1906IV'] = _temp()
+
+
+def _temp():
+ return {
'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1908IV>GATCAG)|(?P<Sen1908IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
-rest_dict['Sen1736II'] = _temp()
+
+
+rest_dict['Sen1908IV'] = _temp()
def _temp():
return {
- 'compsite': '(?P<SenTFIV>GATCAG)|(?P<SenTFIV_as>CTGATC)',
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<Sen1910IV>GATCAG)|(?P<Sen1910IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
+ 'scd3': None,
+ 'scd5': None,
'site': 'GATCAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Sen1910IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<SenC1808III>GATCAG)|(?P<SenC1808III_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['SenC1808III'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<SenC1810IV>GATCAG)|(?P<SenC1810IV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['SenC1810IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'ACRCAG'),
+ 'compsite': '(?P<SenSARA26III>AC[AG]CAG)|(?P<SenSARA26III_as>CTG[CT]GT)',
'dna': None,
+ 'freq': 2048.0,
+ 'fst3': None,
+ 'fst5': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
+ 'scd5': None,
+ 'site': 'ACRCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
'suppl': (),
+ }
+
+
+rest_dict['SenSARA26III'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (None, None, None, None, 'GATCAG'),
+ 'compsite': '(?P<SenTFIV>GATCAG)|(?P<SenTFIV_as>CTGATC)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
+ 'scd3': None,
'scd5': None,
- 'charac': (None, None, None, None, 'GATCAG'),
- 'ovhgseq': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SenTFIV'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'ASST'),
'compsite': '(?P<SetI>A[CG][CG]T)',
- 'results': None,
- 'site': 'ASST',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 64.0,
'fst3': -4,
'fst5': 4,
- 'freq': 64,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'ASST',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (4, -4, None, None, 'ASST'),
- 'ovhgseq': 'ASST',
+ 'site': 'ASST',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['SetI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACCWGGT'),
'compsite': '(?P<SexAI>ACC[AT]GGT)',
- 'results': None,
- 'site': 'ACCWGGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -1,
'fst5': 1,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCWGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('M', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACCWGGT'),
- 'ovhgseq': 'CCWGG',
+ 'site': 'ACCWGGT',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'N'),
}
+
+
rest_dict['SexAI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCGATCGC'),
'compsite': '(?P<SfaAI>GCGATCGC)',
- 'results': None,
- 'site': 'GCGATCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -5,
'fst5': 5,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCGATCGC'),
- 'ovhgseq': 'AT',
+ 'site': 'GCGATCGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SfaAI'] = _temp()
def _temp():
return {
+ 'charac': (10, 9, None, None, 'GCATC'),
'compsite': '(?P<SfaNI>GCATC)|(?P<SfaNI_as>GATGC)',
- 'results': None,
- 'site': 'GCATC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 9,
'fst5': 10,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'V'),
'scd5': None,
- 'charac': (10, 9, None, None, 'GCATC'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GCATC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'V'),
}
+
+
rest_dict['SfaNI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTRYAG'),
'compsite': '(?P<SfcI>CT[AG][CT]AG)',
- 'results': None,
- 'site': 'CTRYAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TRYA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTRYAG'),
- 'ovhgseq': 'TRYA',
+ 'site': 'CTRYAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['SfcI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTRYAG'),
'compsite': '(?P<SfeI>CT[AG][CT]AG)',
- 'results': None,
- 'site': 'CTRYAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TRYA',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTRYAG'),
- 'ovhgseq': 'TRYA',
+ 'site': 'CTRYAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SfeI'] = _temp()
def _temp():
return {
+ 'charac': (8, -8, None, None, 'GGCCNNNNNGGCC'),
'compsite': '(?P<SfiI>GGCC.....GGCC)',
- 'results': None,
- 'site': 'GGCCNNNNNGGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -8,
'fst5': 8,
- 'freq': 65536,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (8, -8, None, None, 'GGCCNNNNNGGCC'),
- 'ovhgseq': 'NNN',
+ 'site': 'GGCCNNNNNGGCC',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['SfiI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GGCGCC'),
'compsite': '(?P<SfoI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (3, -3, None, None, 'GGCGCC'),
- 'ovhgseq': '',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['SfoI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTCGAG'),
'compsite': '(?P<Sfr274I>CTCGAG)',
- 'results': None,
- 'site': 'CTCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTCGAG'),
- 'ovhgseq': 'TCGA',
+ 'site': 'CTCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Sfr274I'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CCGCGG'),
'compsite': '(?P<Sfr303I>CCGCGG)',
- 'results': None,
- 'site': 'CCGCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (4, -4, None, None, 'CCGCGG'),
- 'ovhgseq': 'GC',
+ 'site': 'CCGCGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Sfr303I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'TTCGAA'),
'compsite': '(?P<SfuI>TTCGAA)',
- 'results': None,
- 'site': 'TTCGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('M',),
'scd5': None,
- 'charac': (2, -2, None, None, 'TTCGAA'),
- 'ovhgseq': 'CG',
+ 'site': 'TTCGAA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('M', 'S'),
}
+
+
rest_dict['SfuI'] = _temp()
def _temp():
return {
+ 'charac': (13, 13, None, None, 'CNNG'),
'compsite': '(?P<SgeI>C..G)',
- 'results': None,
- 'site': 'CNNG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16.0,
'fst3': 13,
'fst5': 13,
- 'freq': 16,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (13, 13, None, None, 'CNNG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CNNG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SgeI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCGATCGC'),
'compsite': '(?P<SgfI>GCGATCGC)',
- 'results': None,
- 'site': 'GCGATCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -5,
'fst5': 5,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'AT',
+ 'results': None,
'scd3': None,
- 'suppl': ('R',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCGATCGC'),
- 'ovhgseq': 'AT',
+ 'site': 'GCGATCGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('R',),
}
+
+
rest_dict['SgfI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CRCCGGYG'),
'compsite': '(?P<SgrAI>C[AG]CCGG[CT]G)',
- 'results': None,
- 'site': 'CRCCGGYG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': -2,
'fst5': 2,
- 'freq': 16384,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CRCCGGYG'),
- 'ovhgseq': 'CCGG',
+ 'site': 'CRCCGGYG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['SgrAI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'CCGCGG'),
'compsite': '(?P<SgrBI>CCGCGG)',
- 'results': None,
- 'site': 'CCGCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'GC',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (4, -4, None, None, 'CCGCGG'),
- 'ovhgseq': 'GC',
+ 'site': 'CCGCGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['SgrBI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGTCGACG'),
'compsite': '(?P<SgrDI>CGTCGACG)',
- 'results': None,
- 'site': 'CGTCGACG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGTCGACG'),
- 'ovhgseq': 'TCGA',
+ 'site': 'CGTCGACG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SgrDI'] = _temp()
def _temp():
return {
+ 'charac': (14, 14, None, None, 'CCDS'),
'compsite': '(?P<SgrTI>CC[AGT][CG])|(?P<SgrTI_as>[CG][ACT]GG)',
- 'results': None,
- 'site': 'CCDS',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 42.666666666666664,
'fst3': 14,
'fst5': 14,
- 'freq': 32,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (14, 14, None, None, 'CCDS'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CCDS',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SgrTI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GGCGCGCC'),
'compsite': '(?P<SgsI>GGCGCGCC)',
- 'results': None,
- 'site': 'GGCGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CGCG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GGCGCGCC'),
- 'ovhgseq': 'CGCG',
+ 'site': 'GGCGCGCC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SgsI'] = _temp()
def _temp():
return {
+ 'charac': (2, 0, None, None, 'GGGTC'),
'compsite': '(?P<SimI>GGGTC)|(?P<SimI_as>GACCC)',
- 'results': None,
- 'site': 'GGGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 0,
'fst5': 2,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GTC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, 0, None, None, 'GGGTC'),
- 'ovhgseq': 'GTC',
+ 'site': 'GGGTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SimI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGWCC'),
'compsite': '(?P<SinI>GG[AT]CC)',
- 'results': None,
- 'site': 'GGWCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('X',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGWCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('X',),
}
+
+
rest_dict['SinI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTCGAG'),
'compsite': '(?P<SlaI>CTCGAG)',
- 'results': None,
- 'site': 'CTCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'Y'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTCGAG'),
- 'ovhgseq': 'TCGA',
+ 'site': 'CTCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'Y'),
}
+
+
rest_dict['SlaI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'CCCGGG'),
'compsite': '(?P<SmaI>CCCGGG)',
- 'results': None,
- 'site': 'CCCGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
'scd5': None,
- 'charac': (3, -3, None, None, 'CCCGGG'),
- 'ovhgseq': '',
+ 'site': 'CCCGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X', 'Y'),
}
+
+
rest_dict['SmaI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'ATTTAAAT'),
'compsite': '(?P<SmiI>ATTTAAAT)',
- 'results': None,
- 'site': 'ATTTAAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -4,
'fst5': 4,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'K', 'V'),
'scd5': None,
- 'charac': (4, -4, None, None, 'ATTTAAAT'),
- 'ovhgseq': '',
+ 'site': 'ATTTAAAT',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'K', 'V'),
}
+
+
rest_dict['SmiI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CAYNNNNRTG'),
'compsite': '(?P<SmiMI>CA[CT]....[AG]TG)',
- 'results': None,
- 'site': 'CAYNNNNRTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'CAYNNNNRTG'),
- 'ovhgseq': '',
+ 'site': 'CAYNNNNRTG',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['SmiMI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTYRAG'),
'compsite': '(?P<SmlI>CT[CT][AG]AG)',
- 'results': None,
- 'site': 'CTYRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TYRA',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTYRAG'),
- 'ovhgseq': 'TYRA',
+ 'site': 'CTYRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['SmlI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTYRAG'),
'compsite': '(?P<SmoI>CT[CT][AG]AG)',
- 'results': None,
- 'site': 'CTYRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TYRA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTYRAG'),
- 'ovhgseq': 'TYRA',
+ 'site': 'CTYRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SmoI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'TACGTA'),
'compsite': '(?P<SnaBI>TACGTA)',
- 'results': None,
- 'site': 'TACGTA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'K', 'M', 'N', 'R'),
'scd5': None,
- 'charac': (3, -3, None, None, 'TACGTA'),
- 'ovhgseq': '',
+ 'site': 'TACGTA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'K', 'M', 'N', 'R'),
}
+
+
rest_dict['SnaBI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GTATAC'),
'compsite': '(?P<SnaI>GTATAC)',
- 'results': None,
- 'site': 'GTATAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GTATAC'),
- 'ovhgseq': None,
+ 'site': 'GTATAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SnaI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGCCGAG'),
'compsite': '(?P<Sno506I>GGCCGAG)|(?P<Sno506I_as>CTCGGCC)',
- 'results': None,
- 'site': 'GGCCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGCCGAG'),
- 'ovhgseq': None,
+ 'site': 'GGCCGAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sno506I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'ACTAGT'),
'compsite': '(?P<SpeI>ACTAGT)',
- 'results': None,
- 'site': 'ACTAGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'ACTAGT'),
- 'ovhgseq': 'CTAG',
+ 'site': 'ACTAGT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['SpeI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GCATGC'),
'compsite': '(?P<SphI>GCATGC)',
- 'results': None,
- 'site': 'GCATGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GCATGC'),
- 'ovhgseq': 'CATG',
+ 'site': 'GCATGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['SphI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGTACG'),
'compsite': '(?P<SplI>CGTACG)',
- 'results': None,
- 'site': 'CGTACG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGTACG'),
- 'ovhgseq': 'GTAC',
+ 'site': 'CGTACG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SplI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TCGAG'),
'compsite': '(?P<SpnRII>TCGAG)|(?P<SpnRII_as>CTCGA)',
- 'results': None,
- 'site': 'TCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TCGAG'),
- 'ovhgseq': None,
+ 'site': 'TCGAG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SpnRII'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCGGRAG'),
'compsite': '(?P<SpoDI>GCGG[AG]AG)|(?P<SpoDI_as>CT[CT]CCGC)',
- 'results': None,
- 'site': 'GCGGRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCGGRAG'),
- 'ovhgseq': None,
+ 'site': 'GCGGRAG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SpoDI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GCCCGGGC'),
'compsite': '(?P<SrfI>GCCCGGGC)',
- 'results': None,
- 'site': 'GCCCGGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -4,
'fst5': 4,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (4, -4, None, None, 'GCCCGGGC'),
- 'ovhgseq': '',
+ 'site': 'GCCCGGGC',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['SrfI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CGCCGGCG'),
'compsite': '(?P<Sse232I>CGCCGGCG)',
- 'results': None,
- 'site': 'CGCCGGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -2,
'fst5': 2,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'CGCCGGCG'),
- 'ovhgseq': 'CCGG',
+ 'site': 'CGCCGGCG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sse232I'] = _temp()
def _temp():
return {
+ 'charac': (6, -6, None, None, 'CCTGCAGG'),
'compsite': '(?P<Sse8387I>CCTGCAGG)',
- 'results': None,
- 'site': 'CCTGCAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -6,
'fst5': 6,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (6, -6, None, None, 'CCTGCAGG'),
- 'ovhgseq': 'TGCA',
+ 'site': 'CCTGCAGG',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['Sse8387I'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'AGGWCCT'),
'compsite': '(?P<Sse8647I>AGG[AT]CCT)',
- 'results': None,
- 'site': 'AGGWCCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': -2,
'fst5': 2,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'AGGWCCT'),
- 'ovhgseq': 'GWC',
+ 'site': 'AGGWCCT',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sse8647I'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'AATT'),
'compsite': '(?P<Sse9I>AATT)',
- 'results': None,
- 'site': 'AATT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (0, 0, None, None, 'AATT'),
- 'ovhgseq': 'AATT',
+ 'site': 'AATT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Sse9I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGGCCT'),
'compsite': '(?P<SseBI>AGGCCT)',
- 'results': None,
- 'site': 'AGGCCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGGCCT'),
- 'ovhgseq': '',
+ 'site': 'AGGCCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['SseBI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCGC'),
'compsite': '(?P<SsiI>CCGC)|(?P<SsiI_as>GCGG)',
- 'results': None,
- 'site': 'CCGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCGC'),
- 'ovhgseq': 'CG',
+ 'site': 'CCGC',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SsiI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAAGGC'),
'compsite': '(?P<Ssp6803IV>GAAGGC)|(?P<Ssp6803IV_as>GCCTTC)',
- 'results': None,
- 'site': 'GAAGGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAAGGC'),
- 'ovhgseq': None,
+ 'site': 'GAAGGC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Ssp6803IV'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGCAGCG'),
'compsite': '(?P<Ssp714II>CGCAGCG)|(?P<Ssp714II_as>CGCTGCG)',
- 'results': None,
- 'site': 'CGCAGCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGCAGCG'),
- 'ovhgseq': None,
+ 'site': 'CGCAGCG',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Ssp714II'] = _temp()
def _temp():
return {
+ 'charac': (13, 8, None, None, 'GGTGA'),
'compsite': '(?P<SspD5I>GGTGA)|(?P<SspD5I_as>TCACC)',
- 'results': None,
- 'site': 'GGTGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 8,
'fst5': 13,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (13, 8, None, None, 'GGTGA'),
- 'ovhgseq': '',
+ 'site': 'GGTGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SspD5I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGCGCC'),
'compsite': '(?P<SspDI>GGCGCC)',
- 'results': None,
- 'site': 'GGCGCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GCGC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGCGCC'),
- 'ovhgseq': 'GCGC',
+ 'site': 'GGCGCC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['SspDI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AATATT'),
'compsite': '(?P<SspI>AATATT)',
- 'results': None,
- 'site': 'AATATT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'N', 'Q', 'R', 'V', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'AATATT'),
- 'ovhgseq': '',
+ 'site': 'AATATT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'N', 'Q', 'R', 'V', 'X'),
}
+
+
rest_dict['SspI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTAG'),
'compsite': '(?P<SspMI>CTAG)',
- 'results': None,
- 'site': 'CTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTAG'),
- 'ovhgseq': 'TA',
+ 'site': 'CTAG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['SspMI'] = _temp()
def _temp():
return {
+ 'charac': (27, 18, None, None, 'CGAAGAC'),
'compsite': '(?P<SstE37I>CGAAGAC)|(?P<SstE37I_as>GTCTTCG)',
- 'results': None,
- 'site': 'CGAAGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': 18,
'fst5': 27,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 18, None, None, 'CGAAGAC'),
- 'ovhgseq': 'NN',
+ 'site': 'CGAAGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['SstE37I'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAGCTC'),
'compsite': '(?P<SstI>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'AGCT',
+ 'results': None,
'scd3': None,
- 'suppl': ('C',),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAGCTC'),
- 'ovhgseq': 'AGCT',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C',),
}
+
+
rest_dict['SstI'] = _temp()
def _temp():
return {
+ 'charac': (8, 8, None, None, 'CCCG'),
'compsite': '(?P<Sth132I>CCCG)|(?P<Sth132I_as>CGGG)',
- 'results': None,
- 'site': 'CCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 8,
'fst5': 8,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (8, 8, None, None, 'CCCG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'CCCG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sth132I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GGACGAC'),
'compsite': '(?P<Sth20745III>GGACGAC)|(?P<Sth20745III_as>GTCGTCC)',
- 'results': None,
- 'site': 'GGACGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GGACGAC'),
- 'ovhgseq': None,
+ 'site': 'GGACGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sth20745III'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'CCGG'),
'compsite': '(?P<Sth302II>CCGG)',
- 'results': None,
- 'site': 'CCGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -2,
'fst5': 2,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (2, -2, None, None, 'CCGG'),
- 'ovhgseq': '',
+ 'site': 'CCGG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sth302II'] = _temp()
def _temp():
return {
+ 'charac': (15, 14, None, None, 'GGATG'),
'compsite': '(?P<StsI>GGATG)|(?P<StsI_as>CATCC)',
- 'results': None,
- 'site': 'GGATG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 14,
'fst5': 15,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'NNNN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (15, 14, None, None, 'GGATG'),
- 'ovhgseq': 'NNNN',
+ 'site': 'GGATG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['StsI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGGCCT'),
'compsite': '(?P<StuI>AGGCCT)',
- 'results': None,
- 'site': 'AGGCCT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'M', 'N', 'Q', 'R', 'X'),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGGCCT'),
- 'ovhgseq': '',
+ 'site': 'AGGCCT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['StuI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GATCAG'),
'compsite': '(?P<Sty13348III>GATCAG)|(?P<Sty13348III_as>CTGATC)',
- 'results': None,
- 'site': 'GATCAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GATCAG'),
- 'ovhgseq': None,
+ 'site': 'GATCAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Sty13348III'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'CCNGG'),
'compsite': '(?P<StyD4I>CC.GG)',
- 'results': None,
- 'site': 'CCNGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'CCNGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (0, 0, None, None, 'CCNGG'),
- 'ovhgseq': 'CCNGG',
+ 'site': 'CCNGG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['StyD4I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCWWGG'),
'compsite': '(?P<StyI>CC[AT][AT]GG)',
- 'results': None,
- 'site': 'CCWWGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CWWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('C', 'J', 'N'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCWWGG'),
- 'ovhgseq': 'CWWG',
+ 'site': 'CCWWGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('C', 'J', 'N'),
}
+
+
rest_dict['StyI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'ATTTAAAT'),
'compsite': '(?P<SwaI>ATTTAAAT)',
- 'results': None,
- 'site': 'ATTTAAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 65536.0,
'fst3': -4,
'fst5': 4,
- 'freq': 65536,
- 'size': 8,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('J', 'M', 'N'),
'scd5': None,
- 'charac': (4, -4, None, None, 'ATTTAAAT'),
- 'ovhgseq': '',
+ 'site': 'ATTTAAAT',
+ 'size': 8,
+ 'substrat': 'DNA',
+ 'suppl': ('J', 'M', 'N', 'S'),
}
+
+
rest_dict['SwaI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'ACNGT'),
'compsite': '(?P<TaaI>AC.GT)',
- 'results': None,
- 'site': 'ACNGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (3, -3, None, None, 'ACNGT'),
- 'ovhgseq': 'N',
+ 'site': 'ACNGT',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['TaaI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'ACGT'),
'compsite': '(?P<TaiI>ACGT)',
- 'results': None,
- 'site': 'ACGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -4,
'fst5': 4,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'ACGT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'ACGT'),
- 'ovhgseq': 'ACGT',
+ 'site': 'ACGT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['TaiI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCGA'),
'compsite': '(?P<TaqI>TCGA)',
- 'results': None,
- 'site': 'TCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'CG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCGA'),
- 'ovhgseq': 'CG',
+ 'site': 'TCGA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['TaqI'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'GACCGA'),
'compsite': '(?P<TaqII>GACCGA)|(?P<TaqII_as>TCGGTC)',
- 'results': None,
- 'site': 'GACCGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 9,
'fst5': 17,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('Q', 'X'),
'scd5': None,
- 'charac': (17, 9, None, None, 'GACCGA'),
- 'ovhgseq': 'NN',
+ 'site': 'GACCGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['TaqII'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'CACCCA'),
'compsite': '(?P<TaqIII>CACCCA)|(?P<TaqIII_as>TGGGTG)',
- 'results': None,
- 'site': 'CACCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': 9,
'fst5': 17,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (17, 9, None, None, 'CACCCA'),
- 'ovhgseq': 'NN',
+ 'site': 'CACCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TaqIII'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'AATT'),
'compsite': '(?P<TasI>AATT)',
- 'results': None,
- 'site': 'AATT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
+ 'scd5': None,
+ 'site': 'AATT',
+ 'size': 4,
+ 'substrat': 'DNA',
'suppl': ('B',),
- 'scd5': None,
- 'charac': (0, 0, None, None, 'AATT'),
- 'ovhgseq': 'AATT',
}
+
+
rest_dict['TasI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'WGTACW'),
'compsite': '(?P<TatI>[AT]GTAC[AT])',
- 'results': None,
- 'site': 'WGTACW',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GTAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'WGTACW'),
- 'ovhgseq': 'GTAC',
+ 'site': 'WGTACW',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['TatI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GCSGC'),
'compsite': '(?P<TauI>GC[CG]GC)',
- 'results': None,
- 'site': 'GCSGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -4,
'fst5': 4,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'CSG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (4, -4, None, None, 'GCSGC'),
- 'ovhgseq': 'CSG',
+ 'site': 'GCSGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['TauI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GAWTC'),
'compsite': '(?P<TfiI>GA[AT]TC)',
- 'results': None,
- 'site': 'GAWTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'AWT',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GAWTC'),
- 'ovhgseq': 'AWT',
+ 'site': 'GAWTC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['TfiI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TTAA'),
'compsite': '(?P<Tru1I>TTAA)',
- 'results': None,
- 'site': 'TTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'TTAA'),
- 'ovhgseq': 'TA',
+ 'site': 'TTAA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['Tru1I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TTAA'),
'compsite': '(?P<Tru9I>TTAA)',
- 'results': None,
- 'site': 'TTAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'M', 'R', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TTAA'),
- 'ovhgseq': 'TA',
+ 'site': 'TTAA',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'M', 'R', 'V'),
}
+
+
rest_dict['Tru9I'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CASTG'),
'compsite': '(?P<TscAI>CA[CG]TG)',
- 'results': None,
- 'site': 'CASTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -7,
'fst5': 7,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 10,
+ 'ovhgseq': 'NNCASTGNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CASTG'),
- 'ovhgseq': 'NNCASTGNN',
+ 'site': 'CASTG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['TscAI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GTSAC'),
'compsite': '(?P<TseFI>GT[CG]AC)',
- 'results': None,
- 'site': 'GTSAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTSAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GTSAC'),
- 'ovhgseq': 'GTSAC',
+ 'site': 'GTSAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['TseFI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GCWGC'),
'compsite': '(?P<TseI>GC[AT]GC)',
- 'results': None,
- 'site': 'GCWGC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'CWG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GCWGC'),
- 'ovhgseq': 'CWG',
+ 'site': 'GCWGC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['TseI'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'TARCCA'),
'compsite': '(?P<TsoI>TA[AG]CCA)|(?P<TsoI_as>TGG[CT]TA)',
- 'results': None,
- 'site': 'TARCCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 9,
'fst5': 17,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (17, 9, None, None, 'TARCCA'),
- 'ovhgseq': 'NN',
+ 'site': 'TARCCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TsoI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GTSAC'),
'compsite': '(?P<Tsp45I>GT[CG]AC)',
- 'results': None,
- 'site': 'GTSAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GTSAC',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (0, 0, None, None, 'GTSAC'),
- 'ovhgseq': 'GTSAC',
+ 'site': 'GTSAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['Tsp45I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'ACNGT'),
'compsite': '(?P<Tsp4CI>AC.GT)',
- 'results': None,
- 'site': 'ACNGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -3,
'fst5': 3,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (3, -3, None, None, 'ACNGT'),
- 'ovhgseq': 'N',
+ 'site': 'ACNGT',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Tsp4CI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GRACGAC'),
'compsite': '(?P<TspARh3I>G[AG]ACGAC)|(?P<TspARh3I_as>GTCGT[CT]C)',
- 'results': None,
- 'site': 'GRACGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GRACGAC'),
- 'ovhgseq': None,
+ 'site': 'GRACGAC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TspARh3I'] = _temp()
def _temp():
return {
+ 'charac': (16, 9, None, None, 'ATGAA'),
'compsite': '(?P<TspDTI>ATGAA)|(?P<TspDTI_as>TTCAT)',
- 'results': None,
- 'site': 'ATGAA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 9,
'fst5': 16,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('Q', 'X'),
'scd5': None,
- 'charac': (16, 9, None, None, 'ATGAA'),
- 'ovhgseq': 'NN',
+ 'site': 'ATGAA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['TspDTI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'AATT'),
'compsite': '(?P<TspEI>AATT)',
- 'results': None,
- 'site': 'AATT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (0, 0, None, None, 'AATT'),
- 'ovhgseq': 'AATT',
+ 'site': 'AATT',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TspEI'] = _temp()
def _temp():
return {
+ 'charac': (16, 9, None, None, 'ACGGA'),
'compsite': '(?P<TspGWI>ACGGA)|(?P<TspGWI_as>TCCGT)',
- 'results': None,
- 'site': 'ACGGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': 9,
'fst5': 16,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': ('Q', 'X'),
'scd5': None,
- 'charac': (16, 9, None, None, 'ACGGA'),
- 'ovhgseq': 'NN',
+ 'site': 'ACGGA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('Q', 'X'),
}
+
+
rest_dict['TspGWI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCCGGG'),
'compsite': '(?P<TspMI>CCCGGG)',
- 'results': None,
- 'site': 'CCCGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCCGGG'),
- 'ovhgseq': 'CCGG',
+ 'site': 'CCCGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['TspMI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CASTG'),
'compsite': '(?P<TspRI>CA[CG]TG)',
- 'results': None,
- 'site': 'CASTG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -7,
'fst5': 7,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 10,
+ 'ovhgseq': 'NNCASTGNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (7, -7, None, None, 'CASTG'),
- 'ovhgseq': 'NNCASTGNN',
+ 'site': 'CASTG',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['TspRI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAGNNNCTC'),
'compsite': '(?P<TssI>GAG...CTC)',
- 'results': None,
- 'site': 'GAGNNNCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAGNNNCTC'),
- 'ovhgseq': None,
+ 'site': 'GAGNNNCTC',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TssI'] = _temp()
def _temp():
return {
+ 'charac': (-8, -25, 24, 7, 'CACNNNNNNTCC'),
'compsite': '(?P<TstI>CAC......TCC)|(?P<TstI_as>GGA......GTG)',
- 'results': None,
- 'site': 'CACNNNNNNTCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -25,
'fst5': -8,
- 'freq': 4096,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 5,
+ 'ovhgseq': 'NNNNN',
+ 'results': None,
'scd3': 7,
- 'suppl': (),
'scd5': 24,
- 'charac': (-8, -25, 24, 7, 'CACNNNNNNTCC'),
- 'ovhgseq': 'NNNNN',
+ 'site': 'CACNNNNNNTCC',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TstI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GCGAC'),
'compsite': '(?P<TsuI>GCGAC)|(?P<TsuI_as>GTCGC)',
- 'results': None,
- 'site': 'GCGAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GCGAC'),
- 'ovhgseq': None,
+ 'site': 'GCGAC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['TsuI'] = _temp()
def _temp():
return {
+ 'charac': (4, -4, None, None, 'GACNNNGTC'),
'compsite': '(?P<Tth111I>GAC...GTC)',
- 'results': None,
- 'site': 'GACNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -4,
'fst5': 4,
- 'freq': 4096,
- 'size': 9,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'K', 'N', 'Q', 'V', 'X'),
'scd5': None,
- 'charac': (4, -4, None, None, 'GACNNNGTC'),
- 'ovhgseq': 'N',
+ 'site': 'GACNNNGTC',
+ 'size': 9,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'K', 'N', 'Q', 'V', 'X'),
}
+
+
rest_dict['Tth111I'] = _temp()
def _temp():
return {
+ 'charac': (17, 9, None, None, 'CAARCA'),
'compsite': '(?P<Tth111II>CAA[AG]CA)|(?P<Tth111II_as>TG[CT]TTG)',
- 'results': None,
- 'site': 'CAARCA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 9,
'fst5': 17,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (17, 9, None, None, 'CAARCA'),
- 'ovhgseq': 'NN',
+ 'site': 'CAARCA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Tth111II'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TCGTA'),
'compsite': '(?P<UbaF11I>TCGTA)|(?P<UbaF11I_as>TACGA)',
- 'results': None,
- 'site': 'TCGTA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': None,
'fst5': None,
- 'freq': 1024,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TCGTA'),
- 'ovhgseq': None,
+ 'site': 'TCGTA',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UbaF11I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CTACNNNGTC'),
'compsite': '(?P<UbaF12I>CTAC...GTC)|(?P<UbaF12I_as>GAC...GTAG)',
- 'results': None,
- 'site': 'CTACNNNGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CTACNNNGTC'),
- 'ovhgseq': None,
+ 'site': 'CTACNNNGTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UbaF12I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'GAGNNNNNNCTGG'),
'compsite': '(?P<UbaF13I>GAG......CTGG)|(?P<UbaF13I_as>CCAG......CTC)',
- 'results': None,
- 'site': 'GAGNNNNNNCTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 16384.0,
'fst3': None,
'fst5': None,
- 'freq': 16384,
- 'size': 13,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'GAGNNNNNNCTGG'),
- 'ovhgseq': None,
+ 'site': 'GAGNNNNNNCTGG',
+ 'size': 13,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UbaF13I'] = _temp()
def _temp():
return {
- 'compsite': '(?P<UbaF14I>CCA.....TCG)|(?P<UbaF14I_as>CGA.....TGG)',
- 'results': None,
- 'site': 'CCANNNNNTCG',
- 'substrat': 'DNA',
+ 'charac': (None, None, None, None, 'CCANNNNNTCG'),
+ 'compsite': '(?P<UbaF14I>CCA.....TCG)|(?P<UbaF14I_as>CGA.....TGG)',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CCANNNNNTCG'),
- 'ovhgseq': None,
+ 'site': 'CCANNNNNTCG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UbaF14I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'TACNNNNNRTGT'),
'compsite': '(?P<UbaF9I>TAC.....[AG]TGT)|(?P<UbaF9I_as>ACA[CT].....GTA)',
- 'results': None,
- 'site': 'TACNNNNNRTGT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 8192.0,
'fst3': None,
'fst5': None,
- 'freq': 8192,
- 'size': 12,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'TACNNNNNRTGT'),
- 'ovhgseq': None,
+ 'site': 'TACNNNNNRTGT',
+ 'size': 12,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UbaF9I'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGAACG'),
'compsite': '(?P<UbaPI>CGAACG)|(?P<UbaPI_as>CGTTCG)',
- 'results': None,
- 'site': 'CGAACG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGAACG'),
- 'ovhgseq': None,
+ 'site': 'CGAACG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UbaPI'] = _temp()
def _temp():
return {
+ 'charac': (-7, -11, 11, 7, 'GAGCTC'),
'compsite': '(?P<UcoMSI>GAGCTC)',
- 'results': None,
- 'site': 'GAGCTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -11,
'fst5': -7,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': 7,
- 'suppl': (),
'scd5': 11,
- 'charac': (-7, -11, 11, 7, 'GAGCTC'),
- 'ovhgseq': 'NN',
+ 'site': 'GAGCTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UcoMSI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GGNCC'),
'compsite': '(?P<UnbI>GG.CC)',
- 'results': None,
- 'site': 'GGNCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': 0,
'fst5': 0,
- 'freq': 256,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GGNCC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (0, 0, None, None, 'GGNCC'),
- 'ovhgseq': 'GGNCC',
+ 'site': 'GGNCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['UnbI'] = _temp()
def _temp():
return {
+ 'charac': (7, -7, None, None, 'CCANNNNNTGG'),
'compsite': '(?P<Van91I>CCA.....TGG)',
- 'results': None,
- 'site': 'CCANNNNNTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -7,
'fst5': 7,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 3,
+ 'ovhgseq': 'NNN',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'K'),
'scd5': None,
- 'charac': (7, -7, None, None, 'CCANNNNNTGG'),
- 'ovhgseq': 'NNN',
+ 'site': 'CCANNNNNTGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'K'),
}
+
+
rest_dict['Van91I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTTAAG'),
'compsite': '(?P<Vha464I>CTTAAG)',
- 'results': None,
- 'site': 'CTTAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TTAA',
+ 'results': None,
'scd3': None,
- 'suppl': ('V',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTTAAG'),
- 'ovhgseq': 'TTAA',
+ 'site': 'CTTAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('V',),
}
+
+
rest_dict['Vha464I'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GTGCAC'),
'compsite': '(?P<VneI>GTGCAC)',
- 'results': None,
- 'site': 'GTGCAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'GTGCAC'),
- 'ovhgseq': 'TGCA',
+ 'site': 'GTGCAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['VneI'] = _temp()
def _temp():
return {
+ 'charac': (0, 0, None, None, 'GGWCC'),
'compsite': '(?P<VpaK11AI>GG[AT]CC)',
- 'results': None,
- 'site': 'GGWCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': 0,
'fst5': 0,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -5,
+ 'ovhgseq': 'GGWCC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (0, 0, None, None, 'GGWCC'),
- 'ovhgseq': 'GGWCC',
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['VpaK11AI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'GGWCC'),
'compsite': '(?P<VpaK11BI>GG[AT]CC)',
- 'results': None,
- 'site': 'GGWCC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 512.0,
'fst3': -1,
'fst5': 1,
- 'freq': 512,
- 'size': 5,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -3,
+ 'ovhgseq': 'GWC',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'GGWCC'),
- 'ovhgseq': 'GWC',
+ 'site': 'GGWCC',
+ 'size': 5,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['VpaK11BI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'ATTAAT'),
'compsite': '(?P<VspI>ATTAAT)',
- 'results': None,
- 'site': 'ATTAAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -2,
'fst5': 2,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'I', 'R', 'V'),
'scd5': None,
- 'charac': (2, -2, None, None, 'ATTAAT'),
- 'ovhgseq': 'TA',
+ 'site': 'ATTAAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'I', 'R', 'V'),
}
+
+
rest_dict['VspI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CACRAYC'),
'compsite': '(?P<Vtu19109I>CAC[AG]A[CT]C)|(?P<Vtu19109I_as>G[AG]T[CT]GTG)',
- 'results': None,
- 'site': 'CACRAYC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 7,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CACRAYC'),
- 'ovhgseq': None,
+ 'site': 'CACRAYC',
+ 'size': 7,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Vtu19109I'] = _temp()
def _temp():
return {
+ 'charac': (27, 19, None, None, 'CACRAG'),
'compsite': '(?P<WviI>CAC[AG]AG)|(?P<WviI_as>CT[CT]GTG)',
- 'results': None,
- 'site': 'CACRAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 2048.0,
'fst3': 19,
'fst5': 27,
- 'freq': 2048,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 2,
+ 'ovhgseq': 'NN',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (27, 19, None, None, 'CACRAG'),
- 'ovhgseq': 'NN',
+ 'site': 'CACRAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['WviI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'CCTNNNNNAGG'),
'compsite': '(?P<XagI>CCT.....AGG)',
- 'results': None,
- 'site': 'CCTNNNNNAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 11,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'CCTNNNNNAGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCTNNNNNAGG',
+ 'size': 11,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['XagI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RAATTY'),
'compsite': '(?P<XapI>[AG]AATT[CT])',
- 'results': None,
- 'site': 'RAATTY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'AATT',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'RAATTY'),
- 'ovhgseq': 'AATT',
+ 'site': 'RAATTY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['XapI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'TCTAGA'),
'compsite': '(?P<XbaI>TCTAGA)',
- 'results': None,
- 'site': 'TCTAGA',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'TCTAGA'),
- 'ovhgseq': 'CTAG',
+ 'site': 'TCTAGA',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'C', 'I', 'J', 'K', 'M', 'N', 'Q', 'R', 'S', 'V', 'X'),
}
+
+
rest_dict['XbaI'] = _temp()
def _temp():
return {
- 'compsite': '(?P<XceI>[AG]CATG[CT])',
+ 'charac': (None, None, None, None, 'TACGAG'),
+ 'compsite': '(?P<Xca85IV>TACGAG)|(?P<Xca85IV_as>CTCGTA)',
+ 'dna': None,
+ 'freq': 4096.0,
+ 'fst3': None,
+ 'fst5': None,
+ 'inact_temp': 65,
+ 'opt_temp': 37,
+ 'ovhg': None,
+ 'ovhgseq': None,
'results': None,
- 'site': 'RCATGY',
+ 'scd3': None,
+ 'scd5': None,
+ 'site': 'TACGAG',
+ 'size': 6,
'substrat': 'DNA',
+ 'suppl': (),
+ }
+
+
+rest_dict['Xca85IV'] = _temp()
+
+
+def _temp():
+ return {
+ 'charac': (5, -5, None, None, 'RCATGY'),
+ 'compsite': '(?P<XceI>[AG]CATG[CT])',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -5,
'fst5': 5,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'CATG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (5, -5, None, None, 'RCATGY'),
- 'ovhgseq': 'CATG',
+ 'site': 'RCATGY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['XceI'] = _temp()
def _temp():
return {
+ 'charac': (8, -8, None, None, 'CCANNNNNNNNNTGG'),
'compsite': '(?P<XcmI>CCA.........TGG)',
- 'results': None,
- 'site': 'CCANNNNNNNNNTGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -8,
'fst5': 8,
- 'freq': 4096,
- 'size': 15,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': ('N',),
'scd5': None,
- 'charac': (8, -8, None, None, 'CCANNNNNNNNNTGG'),
- 'ovhgseq': 'N',
+ 'site': 'CCANNNNNNNNNTGG',
+ 'size': 15,
+ 'substrat': 'DNA',
+ 'suppl': ('N',),
}
+
+
rest_dict['XcmI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTCGAG'),
'compsite': '(?P<XhoI>CTCGAG)',
- 'results': None,
- 'site': 'CTCGAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'TCGA',
+ 'results': None,
'scd3': None,
- 'suppl': ('B', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTCGAG'),
- 'ovhgseq': 'TCGA',
+ 'site': 'CTCGAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B', 'J', 'K', 'M', 'N', 'O', 'Q', 'R', 'S', 'X'),
}
+
+
rest_dict['XhoI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'RGATCY'),
'compsite': '(?P<XhoII>[AG]GATC[CT])',
- 'results': None,
- 'site': 'RGATCY',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -1,
'fst5': 1,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GATC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'RGATCY'),
- 'ovhgseq': 'GATC',
+ 'site': 'RGATCY',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['XhoII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCCGGG'),
'compsite': '(?P<XmaI>CCCGGG)',
- 'results': None,
- 'site': 'CCCGGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CCGG',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'R', 'V'),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCCGGG'),
- 'ovhgseq': 'CCGG',
+ 'site': 'CCCGGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'R', 'V'),
}
+
+
rest_dict['XmaI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CGGCCG'),
'compsite': '(?P<XmaIII>CGGCCG)',
- 'results': None,
- 'site': 'CGGCCG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'GGCC',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (1, -1, None, None, 'CGGCCG'),
- 'ovhgseq': 'GGCC',
+ 'site': 'CGGCCG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['XmaIII'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CCTAGG'),
'compsite': '(?P<XmaJI>CCTAGG)',
- 'results': None,
- 'site': 'CCTAGG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -1,
'fst5': 1,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -4,
+ 'ovhgseq': 'CTAG',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CCTAGG'),
- 'ovhgseq': 'CTAG',
+ 'site': 'CCTAGG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['XmaJI'] = _temp()
def _temp():
return {
+ 'charac': (2, -2, None, None, 'GTMKAC'),
'compsite': '(?P<XmiI>GT[AC][GT]AC)',
- 'results': None,
- 'site': 'GTMKAC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 1024.0,
'fst3': -2,
'fst5': 2,
- 'freq': 1024,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'MK',
+ 'results': None,
'scd3': None,
- 'suppl': ('B',),
'scd5': None,
- 'charac': (2, -2, None, None, 'GTMKAC'),
- 'ovhgseq': 'MK',
+ 'site': 'GTMKAC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('B',),
}
+
+
rest_dict['XmiI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'GAANNNNTTC'),
'compsite': '(?P<XmnI>GAA....TTC)',
- 'results': None,
- 'site': 'GAANNNNTTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 10,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('N', 'R'),
'scd5': None,
- 'charac': (5, -5, None, None, 'GAANNNNTTC'),
- 'ovhgseq': '',
+ 'site': 'GAANNNNTTC',
+ 'size': 10,
+ 'substrat': 'DNA',
+ 'suppl': ('N', 'R'),
}
+
+
rest_dict['XmnI'] = _temp()
def _temp():
return {
+ 'charac': (1, -1, None, None, 'CTAG'),
'compsite': '(?P<XspI>CTAG)',
- 'results': None,
- 'site': 'CTAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 256.0,
'fst3': -1,
'fst5': 1,
- 'freq': 256,
- 'size': 4,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': -2,
+ 'ovhgseq': 'TA',
+ 'results': None,
'scd3': None,
- 'suppl': ('K',),
'scd5': None,
- 'charac': (1, -1, None, None, 'CTAG'),
- 'ovhgseq': 'TA',
+ 'site': 'CTAG',
+ 'size': 4,
+ 'substrat': 'DNA',
+ 'suppl': ('K',),
}
+
+
rest_dict['XspI'] = _temp()
def _temp():
return {
+ 'charac': (11, 9, None, None, 'C'),
'compsite': '(?P<YkrI>C)|(?P<YkrI_as>G)',
- 'results': None,
- 'site': 'C',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4.0,
'fst3': 9,
'fst5': 11,
- 'freq': 4,
- 'size': 1,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 1,
+ 'ovhgseq': 'N',
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (11, 9, None, None, 'C'),
- 'ovhgseq': 'N',
+ 'site': 'C',
+ 'size': 1,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['YkrI'] = _temp()
def _temp():
return {
+ 'charac': (None, None, None, None, 'CGGAAG'),
'compsite': '(?P<Yps3606I>CGGAAG)|(?P<Yps3606I_as>CTTCCG)',
- 'results': None,
- 'site': 'CGGAAG',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': None,
'fst5': None,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': None,
+ 'ovhgseq': None,
+ 'results': None,
'scd3': None,
- 'suppl': (),
'scd5': None,
- 'charac': (None, None, None, None, 'CGGAAG'),
- 'ovhgseq': None,
+ 'site': 'CGGAAG',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': (),
}
+
+
rest_dict['Yps3606I'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'GACGTC'),
'compsite': '(?P<ZraI>GACGTC)',
- 'results': None,
- 'site': 'GACGTC',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'N', 'V'),
'scd5': None,
- 'charac': (3, -3, None, None, 'GACGTC'),
- 'ovhgseq': '',
+ 'site': 'GACGTC',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'N', 'V'),
}
+
+
rest_dict['ZraI'] = _temp()
def _temp():
return {
+ 'charac': (3, -3, None, None, 'AGTACT'),
'compsite': '(?P<ZrmI>AGTACT)',
- 'results': None,
- 'site': 'AGTACT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -3,
'fst5': 3,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 0,
+ 'ovhgseq': '',
+ 'results': None,
'scd3': None,
- 'suppl': ('I',),
'scd5': None,
- 'charac': (3, -3, None, None, 'AGTACT'),
- 'ovhgseq': '',
+ 'site': 'AGTACT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I',),
}
+
+
rest_dict['ZrmI'] = _temp()
def _temp():
return {
+ 'charac': (5, -5, None, None, 'ATGCAT'),
'compsite': '(?P<Zsp2I>ATGCAT)',
- 'results': None,
- 'site': 'ATGCAT',
- 'substrat': 'DNA',
+ 'dna': None,
+ 'freq': 4096.0,
'fst3': -5,
'fst5': 5,
- 'freq': 4096,
- 'size': 6,
- 'opt_temp': 37,
- 'dna': None,
'inact_temp': 65,
+ 'opt_temp': 37,
'ovhg': 4,
+ 'ovhgseq': 'TGCA',
+ 'results': None,
'scd3': None,
- 'suppl': ('I', 'V'),
'scd5': None,
- 'charac': (5, -5, None, None, 'ATGCAT'),
- 'ovhgseq': 'TGCA',
+ 'site': 'ATGCAT',
+ 'size': 6,
+ 'substrat': 'DNA',
+ 'suppl': ('I', 'V'),
}
+
+
rest_dict['Zsp2I'] = _temp()
+
suppliers = {}
def _temp():
return (
'Life Technologies',
- ['BshTI', 'MluI', 'HpaII', 'MreI', 'BclI', 'SacI', 'PauI', 'BglI', 'SalI', 'MspI', 'ScaI', 'Bsu15I', 'Mva1269I', 'Bsp68I', 'LweI', 'SmiI', 'PteI', 'TscAI', 'NcoI', 'PsyI', 'BseJI', 'ClaI', 'MauBI', 'CaiI', 'Eco24I', 'CseI', 'Eco47III', 'Eco91I', 'DraI', 'BseXI', 'BstXI', 'RruI', 'Esp3I', 'BseSI', 'Cfr9I', 'AarI', 'OliI', 'PvuI', 'BspOI', 'DpnI', 'Hin6I', 'Van91I', 'Bst1107I', 'Bme1390I', 'BveI', 'Psp5II', 'TaqI', 'Eco52I', 'GsuI', 'KpnI', 'SspDI', 'SsiI', 'RseI', 'MlsI', 'NdeI', [...]
+ ['AanI', 'AarI', 'AasI', 'AatII', 'AccI', 'Acc65I', 'AdeI', 'AfaI', 'AjiI', 'AjuI', 'AloI', 'AluI', 'Alw21I', 'Alw26I', 'Alw44I', 'ApaI', 'BalI', 'BamHI', 'BauI', 'BclI', 'BcnI', 'BcuI', 'BfmI', 'BfoI', 'BfuI', 'BglI', 'BglII', 'Bme1390I', 'BmeT110I', 'BmsI', 'BoxI', 'BpiI', 'BplI', 'Bpu10I', 'Bpu1102I', 'BseDI', 'BseGI', 'BseJI', 'BseLI', 'BseMI', 'BseMII', 'BseNI', 'BseSI', 'BseXI', 'Bsh1236I', 'Bsh1285I', 'BshNI', 'BshTI', 'Bsp68I', 'Bsp119I', 'Bsp120I', 'Bsp143I', 'Bsp1407I', [...]
)
+
+
suppliers['B'] = _temp()
def _temp():
return (
'Minotech Biotechnology',
- ['SgrBI', 'BclI', 'BglI', 'SalI', 'PspPI', 'ScaI', 'SnaBI', 'BstEII', 'NcoI', 'BshFI', 'AsuII', 'BssAI', 'BseAI', 'TaqI', 'KpnI', 'BglII', 'NaeI', 'BseBI', 'NruI', 'RsaI', 'BsiSI', 'XbaI', 'MboI', 'AluI', 'SlaI', 'SseBI', 'SmaI', 'NheI', 'SstI', 'Sau3AI', 'SphI', 'PvuII', 'ApaLI', 'HinfI', 'MspCI', 'HindIII', 'EcoRV', 'EcoRI', 'BseCI', 'PstI', 'SfiI', 'SspI', 'CspAI', 'NotI', 'BamHI', 'HpaI', 'StyI'],
+ ['AluI', 'ApaLI', 'AsuII', 'BamHI', 'BclI', 'BglI', 'BglII', 'BseAI', 'BseBI', 'BseCI', 'BshFI', 'BsiSI', 'BssAI', 'BstEII', 'CspAI', 'EcoRI', 'EcoRV', 'HindIII', 'HinfI', 'HpaI', 'KpnI', 'MboI', 'MspCI', 'NaeI', 'NcoI', 'NheI', 'NotI', 'NruI', 'PspPI', 'PstI', 'PvuII', 'RsaI', 'SalI', 'Sau3AI', 'ScaI', 'SfiI', 'SgrBI', 'SlaI', 'SmaI', 'SnaBI', 'SphI', 'SseBI', 'SspI', 'SstI', 'StyI', 'TaqI', 'XbaI'],
)
+
+
suppliers['C'] = _temp()
@@ -19984,104 +22423,131 @@ def _temp():
'Agilent Technologies',
['DpnI'],
)
+
+
suppliers['E'] = _temp()
def _temp():
return (
'SibEnzyme Ltd.',
- ['AsuNHI', 'AgsI', 'MluI', 'CciI', 'BstHHI', 'HpaII', 'AhlI', 'KroI', 'PspN4I', 'BglI', 'SalI', 'PspEI', 'MspI', 'VneI', 'BstH2I', 'BisI', 'BmtI', 'PspXI', 'AsiGI', 'CciNI', 'Sfr274I', 'SmiI', 'Ksp22I', 'BstSFI', 'BssT1I', 'MspA1I', 'Bsp19I', 'Bse1I', 'AspS9I', 'AbsI', 'FauNDI', 'BstMWI', 'LmnI', 'AclWI', 'DraI', 'Bst2UI', 'AluBI', 'PsrI', 'BstACI', 'BstXI', 'BstDEI', 'GluI', 'AcoI', 'XmaI', 'BstF5I', 'BstMBI', 'BstENI', 'BssECI', 'FalI', 'EgeI', 'Ama87I', 'BstDSI', 'BstV2I', 'Aj [...]
+ ['AatII', 'AbsI', 'Acc16I', 'Acc36I', 'Acc65I', 'AccB1I', 'AccB7I', 'AccBSI', 'AclI', 'AclWI', 'AcoI', 'AcsI', 'AcuI', 'AfeI', 'AgsI', 'AhlI', 'AjnI', 'AluI', 'AluBI', 'Ama87I', 'AoxI', 'ApaI', 'ArsI', 'AsiGI', 'AsiSI', 'AspA2I', 'AspLEI', 'AspS9I', 'AsuC2I', 'AsuHPI', 'AsuNHI', 'BamHI', 'BarI', 'Bbv12I', 'BglI', 'BglII', 'BisI', 'BlsI', 'Bme18I', 'BmtI', 'BmuI', 'BpmI', 'Bpu10I', 'Bpu14I', 'Bsa29I', 'Bsc4I', 'Bse1I', 'Bse8I', 'Bse21I', 'Bse118I', 'Bse3DI', 'BsePI', 'BseX3I', 'Bs [...]
)
+
+
suppliers['I'] = _temp()
def _temp():
return (
'Nippon Gene Co., Ltd.',
- ['BssHII', 'AxyI', 'MluI', 'BclI', 'SacI', 'EcoT38I', 'BglI', 'SalI', 'MspI', 'ScaI', 'BstEII', 'NcoI', 'DraI', 'BstXI', 'SwaI', 'AvaI', 'TaqI', 'AseI', 'KpnI', 'Sau96I', 'HaeII', 'NdeI', 'MboII', 'AflII', 'BglII', 'AccII', 'SacII', 'NruI', 'NarI', 'RsaI', 'HincII', 'XbaI', 'AluI', 'ScrFI', 'EcoRII', 'SmaI', 'NheI', 'StuI', 'Sau3AI', 'SphI', 'FspI', 'PvuII', 'FokI', 'SpeI', 'HinfI', 'NciI', 'EcoO109I', 'HindIII', 'EcoRV', 'EcoRI', 'XhoI', 'Bsp1286I', 'AccIII', 'AvaII', 'PstI', 'B [...]
+ ['AccI', 'AccII', 'AccIII', 'AcyI', 'AflII', 'AgeI', 'AluI', 'Alw44I', 'ApaI', 'AseI', 'AvaI', 'AvaII', 'AxyI', 'BalI', 'BamHI', 'BclI', 'BglI', 'BglII', 'BsmI', 'Bsp1286I', 'BssHII', 'BstEII', 'BstXI', 'DraI', 'EcoO109I', 'EcoRI', 'EcoRII', 'EcoRV', 'EcoT38I', 'FokI', 'FspI', 'HaeII', 'HaeIII', 'HhaI', 'HincII', 'HindIII', 'HinfI', 'HpaI', 'KpnI', 'MboII', 'MluI', 'MspI', 'NarI', 'NciI', 'NcoI', 'NdeI', 'NdeII', 'NheI', 'NotI', 'NruI', 'NsiI', 'NspV', 'PstI', 'PvuII', 'RsaI', 'S [...]
)
+
+
suppliers['J'] = _temp()
def _temp():
return (
'Takara Bio Inc.',
- ['BssHII', 'PshBI', 'MluI', 'BspT107I', 'SacI', 'XspI', 'BglI', 'SalI', 'MspI', 'BstPI', 'ScaI', 'BanII', 'PmaCI', 'SnaBI', 'SmiI', 'BmgT120I', 'NcoI', 'ClaI', 'DraI', 'BstXI', 'PshAI', 'PvuI', 'DpnI', 'Van91I', 'Bst1107I', 'TaqI', 'EaeI', 'Eco52I', 'BspT104I', 'KpnI', 'HaeII', 'EcoO65I', 'NdeI', 'HapII', 'MboII', 'AflII', 'EcoT14I', 'BglII', 'NaeI', 'AccII', 'SacII', 'BmeT110I', 'Aor51HI', 'Bsp1407I', 'NruI', 'Sse8387I', 'CpoI', 'HincII', 'XbaI', 'MboI', 'AluI', 'BcnI', 'SmaI', [...]
+ ['AatII', 'AccI', 'AccII', 'AccIII', 'AfaI', 'AflII', 'AluI', 'Aor13HI', 'Aor51HI', 'ApaI', 'ApaLI', 'BalI', 'BamHI', 'BanII', 'BciT130I', 'BcnI', 'BglI', 'BglII', 'BlnI', 'BmeT110I', 'BmgT120I', 'Bpu1102I', 'Bsp1286I', 'Bsp1407I', 'BspT104I', 'BspT107I', 'BssHII', 'Bst1107I', 'BstPI', 'BstXI', 'Cfr10I', 'ClaI', 'CpoI', 'DdeI', 'DpnI', 'DraI', 'EaeI', 'Eam1105I', 'Eco52I', 'Eco81I', 'EcoO65I', 'EcoO109I', 'EcoRI', 'EcoRV', 'EcoT14I', 'EcoT22I', 'FbaI', 'FokI', 'HaeII', 'HaeIII', [...]
)
+
+
suppliers['K'] = _temp()
def _temp():
return (
'Roche Applied Science',
- ['BssHII', 'MluI', 'BclI', 'SacI', 'SalI', 'Asp718I', 'ScaI', 'SnaBI', 'NcoI', 'ClaI', 'Eco47III', 'DraI', 'BstXI', 'SwaI', 'PvuI', 'DpnI', 'TaqI', 'SexAI', 'KpnI', 'NdeI', 'BglII', 'MaeI', 'NruI', 'MvaI', 'NarI', 'RsaI', 'MaeII', 'AflIII', 'XbaI', 'MvnI', 'AluI', 'CfoI', 'SmaI', 'NheI', 'StuI', 'Sau3AI', 'BbrPI', 'SphI', 'MaeIII', 'PvuII', 'FokI', 'SpeI', 'HinfI', 'DraIII', 'MluNI', 'HindIII', 'EcoRV', 'AatII', 'EcoRI', 'XhoI', 'MunI', 'PstI', 'BsmI', 'SfiI', 'BlnI', 'HaeIII', ' [...]
+ ['AatII', 'AccI', 'AflIII', 'AluI', 'ApaI', 'Asp700I', 'Asp718I', 'BamHI', 'BbrPI', 'BclI', 'BfrI', 'BglII', 'BlnI', 'BsmI', 'BssHII', 'BstXI', 'CfoI', 'ClaI', 'DdeI', 'DpnI', 'DraI', 'DraIII', 'Eco47III', 'EcoRI', 'EcoRV', 'FokI', 'HaeIII', 'HindII', 'HindIII', 'HinfI', 'HpaI', 'KpnI', 'KspI', 'MaeI', 'MaeII', 'MaeIII', 'MluI', 'MluNI', 'MroI', 'MunI', 'MvaI', 'MvnI', 'NarI', 'NcoI', 'NdeI', 'NdeII', 'NheI', 'NotI', 'NruI', 'NsiI', 'PstI', 'PvuI', 'PvuII', 'RsaI', 'SacI', 'SalI' [...]
)
+
+
suppliers['M'] = _temp()
def _temp():
return (
'New England Biolabs',
- ['BssHII', 'EciI', 'BsrFI', 'DpnII', 'AlwI', 'MluI', 'AlwNI', 'NgoMIV', 'HpaII', 'TspMI', 'BclI', 'MlyI', 'BsaWI', 'SacI', 'MwoI', 'BfaI', 'DrdI', 'BmgBI', 'BglI', 'SalI', 'MspI', 'ScaI', 'BanII', 'MslI', 'BmtI', 'PspXI', 'BsaBI', 'SnaBI', 'BstEII', 'TspRI', 'NcoI', 'MspA1I', 'BtgI', 'ClaI', 'BsaI', 'BsrBI', 'XmnI', 'DraI', 'Hpy166II', 'Hpy99I', 'StyD4I', 'BstXI', 'PspGI', 'BsiHKAI', 'BsoBI', 'BlpI', 'PshAI', 'XmaI', 'BtsIMutI', 'SwaI', 'AvaI', 'PvuI', 'DpnI', 'CspCI', 'PflFI', ' [...]
+ ['AatII', 'AbaSI', 'AccI', 'Acc65I', 'AciI', 'AclI', 'AcuI', 'AfeI', 'AflII', 'AflIII', 'AgeI', 'AhdI', 'AleI', 'AluI', 'AlwI', 'AlwNI', 'ApaI', 'ApaLI', 'ApeKI', 'ApoI', 'AscI', 'AseI', 'AsiSI', 'AvaI', 'AvaII', 'AvrII', 'BaeI', 'BaeGI', 'BamHI', 'BanI', 'BanII', 'BbsI', 'BbvI', 'BbvCI', 'BccI', 'BceAI', 'BcgI', 'BciVI', 'BclI', 'BcoDI', 'BfaI', 'BfuAI', 'BfuCI', 'BglI', 'BglII', 'BlpI', 'BmgBI', 'BmrI', 'BmtI', 'BpmI', 'Bpu10I', 'BpuEI', 'BsaI', 'BsaAI', 'BsaBI', 'BsaHI', 'BsaJ [...]
)
+
+
suppliers['N'] = _temp()
def _temp():
return (
'Toyobo Biochemicals',
- ['MluI', 'BclI', 'SacI', 'BglI', 'SalI', 'ScaI', 'NcoI', 'PvuI', 'DpnI', 'KpnI', 'BglII', 'SacII', 'HincII', 'AluI', 'MscI', 'SmaI', 'NheI', 'SphI', 'PvuII', 'SpeI', 'HinfI', 'HindIII', 'EcoRV', 'EcoRI', 'XhoI', 'PstI', 'SfiI', 'HaeIII', 'PacI', 'DdeI', 'NotI', 'MroI', 'BamHI'],
+ ['AluI', 'BamHI', 'BclI', 'BglI', 'BglII', 'DdeI', 'DpnI', 'EcoRI', 'EcoRV', 'HaeIII', 'HincII', 'HindIII', 'HinfI', 'KpnI', 'MluI', 'MroI', 'MscI', 'NcoI', 'NheI', 'NotI', 'PacI', 'PstI', 'PvuI', 'PvuII', 'SacI', 'SacII', 'SalI', 'ScaI', 'SfiI', 'SmaI', 'SpeI', 'SphI', 'XhoI'],
)
+
+
suppliers['O'] = _temp()
def _temp():
return (
'Molecular Biology Resources - CHIMERx',
- ['BssHII', 'MluI', 'HpaII', 'SacI', 'BglI', 'SalI', 'MspI', 'ScaI', 'NcoI', 'ClaI', 'CviJI', 'DraI', 'BstXI', 'AcvI', 'AvaI', 'PvuI', 'DpnI', 'TaqI', 'KpnI', 'NdeI', 'MboII', 'BglII', 'SacII', 'NruI', 'NarI', 'TaqII', 'RsaI', 'HincII', 'XbaI', 'TspGWI', 'MboI', 'AluI', 'RsrII', 'SmaI', 'NheI', 'StuI', 'SphI', 'PvuII', 'SpeI', 'HinfI', 'BsiHKCI', 'HindIII', 'EcoRV', 'EcoRI', 'XhoI', 'MnlI', 'PinAI', 'PstI', 'SfiI', 'Tth111I', 'HaeIII', 'AccI', 'SspI', 'NsiI', 'ApaI', 'TspDTI', 'Ba [...]
+ ['AccI', 'AcvI', 'AluI', 'ApaI', 'AvaI', 'BalI', 'BamHI', 'BglI', 'BglII', 'BsiHKCI', 'BssHII', 'BstXI', 'ClaI', 'CviJI', 'DdeI', 'DpnI', 'DraI', 'EcoRI', 'EcoRV', 'HaeIII', 'HhaI', 'HincII', 'HindIII', 'HinfI', 'HpaI', 'HpaII', 'KpnI', 'MboI', 'MboII', 'MluI', 'MnlI', 'MspI', 'NarI', 'NcoI', 'NdeI', 'NheI', 'NotI', 'NruI', 'NsiI', 'PinAI', 'PstI', 'PvuI', 'PvuII', 'RsaI', 'RsrII', 'SacI', 'SacII', 'SalI', 'ScaI', 'SfiI', 'SmaI', 'SpeI', 'SphI', 'SspI', 'StuI', 'TaqI', 'TaqII', ' [...]
)
+
+
suppliers['Q'] = _temp()
def _temp():
return (
'Promega Corporation',
- ['BssHII', 'MluI', 'HpaII', 'BclI', 'SacI', 'BglI', 'SalI', 'MspI', 'ScaI', 'SnaBI', 'BstEII', 'NcoI', 'MspA1I', 'ClaI', 'XmnI', 'Eco47III', 'DraI', 'BstXI', 'XmaI', 'PvuI', 'DpnI', 'TaqI', 'KpnI', 'HaeII', 'NdeI', 'MboII', 'BglII', 'SacII', 'NruI', 'CspI', 'NarI', 'RsaI', 'Hsp92II', 'HincII', 'XbaI', 'MboI', 'BanI', 'AluI', 'CfoI', 'SmaI', 'NheI', 'StuI', 'Sau3AI', 'SphI', 'PvuII', 'SpeI', 'HinfI', 'NciI', 'HindIII', 'SgfI', 'EcoRV', 'EcoRI', 'XhoI', 'AccIII', 'AvaII', 'PstI', ' [...]
+ ['AccI', 'AccIII', 'AgeI', 'AluI', 'ApaI', 'AvaII', 'BalI', 'BamHI', 'BanI', 'BclI', 'BglI', 'BglII', 'BssHII', 'BstEII', 'BstXI', 'BstZI', 'CfoI', 'ClaI', 'CspI', 'DdeI', 'DpnI', 'DraI', 'Eco47III', 'EcoICRI', 'EcoRI', 'EcoRV', 'HaeII', 'HaeIII', 'HhaI', 'HincII', 'HindIII', 'HinfI', 'HpaI', 'HpaII', 'Hsp92I', 'Hsp92II', 'KpnI', 'MboI', 'MboII', 'MluI', 'MspI', 'MspA1I', 'NarI', 'NciI', 'NcoI', 'NdeI', 'NheI', 'NotI', 'NruI', 'NsiI', 'PstI', 'PvuI', 'PvuII', 'RsaI', 'SacI', 'Sac [...]
)
+
+
suppliers['R'] = _temp()
def _temp():
return (
'Sigma Chemical Corporation',
- ['HpaII', 'BclI', 'SacI', 'SalI', 'MspI', 'ScaI', 'BstEII', 'NcoI', 'ClaI', 'DraI', 'PvuI', 'DpnI', 'TaqI', 'KpnI', 'NdeI', 'BglII', 'MvaI', 'RsaI', 'XbaI', 'AluI', 'CfoI', 'SmaI', 'NheI', 'Sau3AI', 'SphI', 'PvuII', 'SpeI', 'HindIII', 'EcoRV', 'EcoRI', 'XhoI', 'EclXI', 'PstI', 'BsmI', 'SfiI', 'BlnI', 'HaeIII', 'AccI', 'NsiI', 'ApaI', 'KspI', 'DdeI', 'NotI', 'BamHI', 'HpaI'],
+ ['AflIII', 'AluI', 'ApaI', 'Asp718I', 'BamHI', 'BclI', 'BfrI', 'BglII', 'BlnI', 'BsmI', 'CfoI', 'ClaI', 'DdeI', 'DpnI', 'DraI', 'EclXI', 'Eco47III', 'EcoRI', 'EcoRV', 'HaeIII', 'HindII', 'HindIII', 'HinfI', 'HpaI', 'KpnI', 'KspI', 'MaeIII', 'MluI', 'MunI', 'NarI', 'NcoI', 'NdeI', 'NheI', 'NotI', 'NruI', 'NsiI', 'PstI', 'PvuI', 'PvuII', 'RsaI', 'SacI', 'SalI', 'ScaI', 'SfiI', 'SfuI', 'SmaI', 'SpeI', 'SphI', 'StuI', 'SwaI', 'TaqI', 'XbaI', 'XhoI'],
)
+
+
suppliers['S'] = _temp()
def _temp():
return (
'Vivantis Technologies',
- ['BssMI', 'AsuNHI', 'MluI', 'BstHHI', 'HpaII', 'AhlI', 'BglI', 'SalI', 'PspEI', 'MspI', 'VneI', 'BstH2I', 'BmtI', 'AsiGI', 'CciNI', 'Sfr274I', 'SmiI', 'Ksp22I', 'BssT1I', 'MspA1I', 'Bsp19I', 'Bse1I', 'AspS9I', 'BmcAI', 'FauNDI', 'DraI', 'Bst2UI', 'Vha464I', 'BstXI', 'BstDEI', 'XmaI', 'BstF5I', 'BstMBI', 'BstENI', 'Ama87I', 'BstDSI', 'BstV2I', 'Zsp2I', 'DseDI', 'BstAUI', 'Bpu14I', 'TaqI', 'KpnI', 'BstSNI', 'AclI', 'MboII', 'BmrFI', 'BglII', 'AcsI', 'BstNSI', 'BmeRI', 'BseX3I', 'Bp [...]
+ ['AatII', 'Acc16I', 'Acc65I', 'AccB1I', 'AccB7I', 'AccBSI', 'AclI', 'AcsI', 'AfiI', 'AhlI', 'AluI', 'Ama87I', 'ApaI', 'AsiGI', 'AspA2I', 'AspLEI', 'AspS9I', 'AsuHPI', 'AsuNHI', 'BamHI', 'Bbv12I', 'BglI', 'BglII', 'BmcAI', 'Bme18I', 'BmeRI', 'BmiI', 'BmrFI', 'BmtI', 'Bpu10I', 'Bpu14I', 'BpuMI', 'Bse1I', 'Bse8I', 'Bse21I', 'Bse118I', 'Bse3DI', 'BsePI', 'BseX3I', 'BshVI', 'BsnI', 'Bso31I', 'Bsp13I', 'Bsp19I', 'Bsp1720I', 'BssMI', 'BssNI', 'BssNAI', 'BssT1I', 'Bst6I', 'BstAUI', 'BstB [...]
)
+
+
suppliers['V'] = _temp()
def _temp():
return (
'EURx Ltd.',
- ['BssHII', 'MluI', 'HpaII', 'BspTNI', 'SacI', 'BglI', 'SalI', 'MspI', 'ScaI', 'BanII', 'NcoI', 'ClaI', 'CviJI', 'DraI', 'BstXI', 'AcvI', 'AvaI', 'PvuI', 'DpnI', 'TaqI', 'SinI', 'KpnI', 'NdeI', 'MboII', 'BglII', 'SacII', 'NruI', 'NarI', 'TaqII', 'RsaI', 'HincII', 'XbaI', 'BspANI', 'TspGWI', 'MboI', 'AluI', 'RsrII', 'SmaI', 'NheI', 'StuI', 'SphI', 'PvuII', 'FokI', 'SpeI', 'HinfI', 'BsiHKCI', 'HindIII', 'EcoRV', 'EcoRI', 'XhoI', 'MnlI', 'AvaII', 'PinAI', 'PstI', 'BspMAI', 'SfiI', 'T [...]
+ ['AccI', 'AcvI', 'AluI', 'ApaI', 'AvaI', 'AvaII', 'BalI', 'BamHI', 'BanII', 'BglI', 'BglII', 'BsiHKCI', 'BspANI', 'BspMAI', 'BspTNI', 'BssHII', 'BstXI', 'BsuTUI', 'ClaI', 'CviJI', 'DdeI', 'DpnI', 'DraI', 'EcoRI', 'EcoRV', 'FokI', 'HaeIII', 'HhaI', 'HincII', 'HindIII', 'HinfI', 'HpaI', 'HpaII', 'KpnI', 'MboI', 'MboII', 'MluI', 'MmeI', 'MnlI', 'MspI', 'NarI', 'NcoI', 'NdeI', 'NheI', 'NotI', 'NruI', 'NsiI', 'PinAI', 'PstI', 'PvuI', 'PvuII', 'RsaI', 'RsrII', 'SacI', 'SacII', 'SalI', [...]
)
+
+
suppliers['X'] = _temp()
def _temp():
return (
'SinaClon BioScience Co.',
- ['NcoI', 'BstXI', 'KpnI', 'RsaI', 'BsiSI', 'MboI', 'AluI', 'SlaI', 'SmaI', 'FokI', 'HinfI', 'HindIII', 'EcoRI', 'BamHI'],
+ ['AluI', 'BamHI', 'BsiSI', 'BstXI', 'EcoRI', 'FokI', 'HindIII', 'HinfI', 'KpnI', 'MboI', 'NcoI', 'RsaI', 'SlaI', 'SmaI'],
)
+
+
suppliers['Y'] = _temp()
+
typedict = {}
@@ -20090,6 +22556,8 @@ def _temp():
('Palindromic', 'TwoCuts', 'Ov5', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['NmeDI'],
)
+
+
typedict['type130'] = _temp()
@@ -20098,6 +22566,8 @@ def _temp():
('Palindromic', 'TwoCuts', 'Ov5', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['UcoMSI'],
)
+
+
typedict['type132'] = _temp()
@@ -20106,54 +22576,68 @@ def _temp():
('Palindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['RdeGBIII'],
)
+
+
typedict['type142'] = _temp()
def _temp():
return (
('Palindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['FalI', 'BplI'],
+ ['BplI', 'FalI'],
)
+
+
typedict['type143'] = _temp()
def _temp():
return (
('Palindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['BdaI', 'AlfI'],
+ ['AlfI', 'BdaI'],
)
+
+
typedict['type144'] = _temp()
def _temp():
return (
('NonPalindromic', 'NoCut', 'Unknown', 'NotDefined', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['Sen13311III', 'SpoDI', 'OspHL35III', 'Cgl13032I', 'Pal408I', 'EsaSSI', 'Pse18267I', 'HpyUM032XIV', 'Hpy99XIV_mut1', 'Cdu23823II', 'RflFIII', 'Pdi8503III', 'Pme5II', 'Cgl13032II', 'Yps3606I', 'CjeFV', 'Bsu7003I', 'Psp10HII', 'Lsp48III', 'HpyAXVI_mut1', 'BscGI', 'Bsp3004IV', 'SpnRII', 'EcoE1140I', 'PliMI', 'Ecl35734I', 'Pac19842II', 'Sno506I', 'Hpy99XIV', 'Aco12261II', 'AspJHL3II', 'Sth20745III', 'Cdi11397I', 'Mba11I', 'TspARh3I', 'RdeGBI', 'Jma19592II', 'Vtu19109I', 'CjeFIII', ' [...]
+ ['Aba6411II', 'AbaCIII', 'Acc65V', 'AchA6III', 'Aco12261II', 'AhyRBAHI', 'AhyYL17I', 'AspDUT2V', 'AspJHL3II', 'Asu14238IV', 'AteTI', 'Awo1030IV', 'Bag18758I', 'BanLI', 'Bce3081I', 'BfaSII', 'Ble402II', 'BloAII', 'BscGI', 'Bsp460III', 'Bsp3004IV', 'Cal14237I', 'CalB3II', 'Cau10061II', 'Cba13II', 'Cba16038I', 'CcrNAIII', 'Cdi11397I', 'Cdu23823II', 'Cfupf3II', 'Cgl13032I', 'Cgl13032II', 'CjeFIII', 'CjeFV', 'CjeNII', 'CjeNV', 'Cla11845III', 'Cly7489II', 'Cma23826I', 'Csp2014I', 'DrdI [...]
)
+
+
typedict['type146'] = _temp()
def _temp():
return (
('NonPalindromic', 'NoCut', 'Unknown', 'NotDefined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['UbaF14I', 'CjeP659IV', 'PsuGI', 'UbaPI', 'CjuII', 'AlwFI', 'BspGI', 'Pfl1108I', 'UbaF13I', 'AbaUMB2I', 'RlaI', 'PenI', 'UbaF12I', 'BspNCI', 'TsuI', 'UbaF9I', 'FinI', 'UbaF11I', 'BmgI'],
+ ['AbaUMB2I', 'AlwFI', 'BmgI', 'BspGI', 'BspNCI', 'CjeP659IV', 'CjuII', 'FinI', 'PenI', 'Pfl1108I', 'PsuGI', 'RlaI', 'TsuI', 'UbaF9I', 'UbaF11I', 'UbaF12I', 'UbaF13I', 'UbaF14I', 'UbaPI'],
)
+
+
typedict['type148'] = _temp()
def _temp():
return (
('Palindromic', 'NoCut', 'Unknown', 'NotDefined', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['MjaIV', 'HpyUM032XIII'],
+ ['HpyUM032XIII', 'MjaIV'],
)
+
+
typedict['type2'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['MlyI', 'BmgBI', 'BsrBI'],
+ ['BsrBI', 'MlyI'],
)
+
+
typedict['type209'] = _temp()
@@ -20162,14 +22646,18 @@ def _temp():
('NonPalindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['NgoAVII'],
)
+
+
typedict['type210'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['SchI', 'BtrI', 'AjiI', 'AccBSI', 'MbiI'],
+ ['AccBSI', 'AjiI', 'BmgBI', 'BtrI', 'MbiI', 'SchI'],
)
+
+
typedict['type211'] = _temp()
@@ -20178,62 +22666,78 @@ def _temp():
('NonPalindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['CdiI', 'SspD5I'],
)
+
+
typedict['type212'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['AciI', 'BspACI', 'BssSI', 'BbvCI'],
+ ['AciI', 'BbvCI', 'BspACI', 'BssSI'],
)
+
+
typedict['type221'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['SsiI', 'Bst2BI', 'PspFI', 'BseYI', 'BauI'],
+ ['BauI', 'BseYI', 'Bst2BI', 'PspFI', 'SsiI'],
)
+
+
typedict['type223'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['SimI', 'GdiII', 'BsiI'],
+ ['BsiI', 'GdiII', 'SimI'],
)
+
+
typedict['type224'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['AlwI', 'Esp3I', 'Bpu10I', 'Lsp1109I', 'BfuAI', 'BbvI', 'HgaI', 'BspMI', 'BccI', 'BcoDI', 'FokI', 'Alw26I', 'Eco31I', 'BceAI', 'BsmAI', 'BsmFI', 'FauI', 'BsmBI', 'BtgZI'],
+ ['AlwI', 'Alw26I', 'BbvI', 'BccI', 'BceAI', 'BcoDI', 'BfuAI', 'Bpu10I', 'BsmAI', 'BsmBI', 'BsmFI', 'BspMI', 'BtgZI', 'Eco31I', 'Esp3I', 'FokI', 'HgaI', 'Lsp1109I'],
)
+
+
typedict['type225'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['StsI', 'BscAI'],
+ ['BscAI', 'StsI'],
)
+
+
typedict['type226'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['BspTNI', 'LweI', 'BsaI', 'CseI', 'AclWI', 'BseXI', 'BstV2I', 'AarI', 'BveI', 'BmsI', 'BspQI', 'MspJI', 'BstV1I', 'Bso31I', 'PleI', 'FaqI', 'FspEI', 'PpsI', 'Eam1104I', 'Acc36I', 'SapI', 'BspPI', 'BslFI', 'LguI', 'PciSI', 'Bst6I', 'BpiI', 'LpnPI', 'BstMAI', 'EarI', 'BbsI', 'SfaNI'],
+ ['AarI', 'Acc36I', 'AclWI', 'BbsI', 'BmsI', 'BpiI', 'BsaI', 'BseXI', 'BslFI', 'Bso31I', 'BspPI', 'BspQI', 'BspTNI', 'Bst6I', 'BstMAI', 'BstV1I', 'BstV2I', 'BveI', 'CseI', 'Eam1104I', 'EarI', 'FaqI', 'FauI', 'FspEI', 'LguI', 'LpnPI', 'LweI', 'MspJI', 'PciSI', 'PleI', 'PpsI', 'SapI', 'SfaNI'],
)
+
+
typedict['type227'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['SgrTI', 'Sth132I', 'BbvII', 'BinI', 'AspBHI', 'Bbr7I', 'BspD6I', 'BcefI', 'AceIII', 'Ksp632I'],
+ ['AceIII', 'AspBHI', 'Bbr7I', 'BbvII', 'BcefI', 'BinI', 'BspD6I', 'Ksp632I', 'SgrTI', 'Sth132I'],
)
+
+
typedict['type228'] = _temp()
@@ -20242,38 +22746,48 @@ def _temp():
('NonPalindromic', 'OneCut', 'Ov3', 'Defined', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
['GsaI'],
)
+
+
typedict['type235'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['BstF5I', 'BpuEI', 'BsrI', 'MboII', 'TaqII', 'BspCNI', 'BsgI', 'TspGWI', 'BmrI', 'HpyAV', 'HphI', 'BseMII', 'MnlI', 'BseRI', 'MmeI', 'Eco57I', 'BpmI', 'AcuI', 'NmeAIII'],
+ ['AcuI', 'BmrI', 'BpmI', 'BpuEI', 'BseMII', 'BseRI', 'BsgI', 'BspCNI', 'BsrI', 'BstF5I', 'Eco57I', 'HphI', 'HpyAV', 'MboII', 'MmeI', 'MnlI', 'NmeAIII', 'TaqII', 'TspGWI'],
)
+
+
typedict['type237'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['MaqI', 'RpaBI', 'DraRI', 'SdeAI', 'RceI', 'WviI', 'BfiI', 'CstMI', 'PspOMII', 'TaqIII', 'CchII', 'PlaDI', 'SstE37I', 'RpaB5I', 'CdpI', 'CchIII', 'Tth111II', 'CjeNIII', 'BsbI', 'NlaCI', 'AquII', 'AquIV', 'ApyPI', 'RpaI', 'PspPRI', 'AquIII', 'RdeGBII'],
+ ['ApyPI', 'AquII', 'AquIII', 'AquIV', 'BfiI', 'BsbI', 'CchII', 'CchIII', 'CdpI', 'CjeNIII', 'CstMI', 'DraRI', 'MaqI', 'NlaCI', 'PlaDI', 'PspOMII', 'PspPRI', 'RceI', 'RdeGBII', 'RlaII', 'RpaI', 'RpaBI', 'RpaB5I', 'SdeAI', 'SstE37I', 'TaqIII', 'Tth111II', 'WviI'],
)
+
+
typedict['type238'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['EciI', 'Mva1269I', 'Bse1I', 'LmnI', 'BtsIMutI', 'GsuI', 'BtsCI', 'BsuI', 'AsuHPI', 'AbaSI', 'BseGI', 'Bse3DI', 'BsrDI', 'BciVI', 'BtsI', 'BfuI', 'BsmI', 'BseMI', 'TspDTI', 'BmuI', 'PctI', 'BseNI'],
+ ['AbaSI', 'AsuHPI', 'BciVI', 'BfuI', 'BmuI', 'Bse1I', 'Bse3DI', 'BseGI', 'BseMI', 'BseNI', 'BsmI', 'BsrDI', 'BsuI', 'BtsI', 'BtsIMutI', 'BtsCI', 'EciI', 'GsuI', 'LmnI', 'Mva1269I', 'PctI', 'TspDTI'],
)
+
+
typedict['type239'] = _temp()
def _temp():
return (
('NonPalindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['BmeDI', 'Bce83I', 'Hin4II', 'TsoI', 'Eco57MI', 'YkrI', 'RleAI'],
+ ['Bce83I', 'BmeDI', 'Eco57MI', 'Hin4II', 'RleAI', 'TsoI', 'YkrI'],
)
+
+
typedict['type240'] = _temp()
@@ -20282,166 +22796,208 @@ def _temp():
('NonPalindromic', 'TwoCuts', 'Ov5', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['BceSIV'],
)
+
+
typedict['type274'] = _temp()
def _temp():
return (
('NonPalindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['CspCI', 'AloI', 'BcgI'],
+ ['AloI', 'BcgI', 'CspCI'],
)
+
+
typedict['type285'] = _temp()
def _temp():
return (
('NonPalindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['TstI', 'NgoAVIII', 'PpiI', 'SdeOSI', 'CjeI'],
+ ['CjeI', 'NgoAVIII', 'PpiI', 'SdeOSI', 'TstI'],
)
+
+
typedict['type286'] = _temp()
def _temp():
return (
('NonPalindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['PsrI', 'AjuI', 'BaeI', 'ArsI', 'BarI', 'BsaXI'],
+ ['AjuI', 'ArsI', 'BaeI', 'BarI', 'BsaXI', 'PsrI'],
)
+
+
typedict['type287'] = _temp()
def _temp():
return (
('NonPalindromic', 'TwoCuts', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['CjePI', 'Bsp24I', 'Hin4I'],
+ ['Bsp24I', 'CjePI', 'Hin4I'],
)
+
+
typedict['type288'] = _temp()
def _temp():
return (
('Palindromic', 'NoCut', 'Unknown', 'NotDefined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['NhoI', 'CjuI', 'AvaIII', 'TssI', 'SnaI', 'HgiEII'],
+ ['AvaIII', 'CjuI', 'HgiEII', 'NhoI', 'SnaI', 'TssI'],
)
+
+
typedict['type4'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['ScaI', 'SnaBI', 'MspA1I', 'CviJI', 'DraI', 'AluBI', 'PshAI', 'SwaI', 'NaeI', 'SfoI', 'RsaI', 'HincII', 'BstC8I', 'PmlI', 'AluI', 'Hpy8I', 'SmaI', 'FspI', 'PvuII', 'BsuRI', 'EcoRV', 'BstUI', 'HaeIII', 'SspI', 'BalI', 'NlaIV', 'HpaI', 'Cac8I', 'HindII', 'BsaAI'],
+ ['AleI', 'AluI', 'AluBI', 'BalI', 'BsaAI', 'BstC8I', 'BstUI', 'BsuRI', 'Cac8I', 'CviJI', 'DraI', 'EcoRV', 'FspI', 'HaeIII', 'HincII', 'HindII', 'HpaI', 'Hpy8I', 'MspA1I', 'NaeI', 'NlaIV', 'PmlI', 'PshAI', 'PvuII', 'RsaI', 'ScaI', 'SfoI', 'SmaI', 'SnaBI', 'SspI', 'SwaI', 'XmnI'],
)
+
+
typedict['type65'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['FnuDII', 'EsaBC3I', 'CviRI'],
+ ['CviRI', 'EsaBC3I', 'FnuDII'],
)
+
+
typedict['type66'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['PspN4I', 'MslI', 'Bsp68I', 'PmaCI', 'BsaBI', 'SmiI', 'BseJI', 'BshFI', 'BmcAI', 'XmnI', 'Eco47III', 'Hpy166II', 'AcvI', 'RruI', 'EgeI', 'OliI', 'DpnI', 'Bst1107I', 'BstSNI', 'RseI', 'MlsI', 'AccII', 'BtuMI', 'Aor51HI', 'NruI', 'Bsh1236I', 'MalI', 'MssI', 'BsnI', 'FspAI', 'BmiI', 'BoxI', 'BssNAI', 'BspANI', 'GlaI', 'MvnI', 'ZraI', 'Eco72I', 'MscI', 'SseBI', 'SmiMI', 'Ppu21I', 'StuI', 'BbrPI', 'Eco53kI', 'EheI', 'BstPAI', 'Ecl136II', 'Acc16I', 'MluNI', 'PsiI', 'MroXI', 'ZrmI', 'D [...]
+ ['AanI', 'AccII', 'Acc16I', 'AcvI', 'AfaI', 'AfeI', 'Aor51HI', 'Asp700I', 'BbrPI', 'BmcAI', 'BmiI', 'BoxI', 'BsaBI', 'Bse8I', 'BseJI', 'Bsh1236I', 'BshFI', 'BsnI', 'Bsp68I', 'BspANI', 'BspFNI', 'BspLI', 'BssNAI', 'Bst1107I', 'BstBAI', 'BstFNI', 'BstPAI', 'BstSNI', 'BstZ17I', 'BtuMI', 'CviKI_1', 'DinI', 'DpnI', 'Ecl136II', 'Eco32I', 'Eco47III', 'Eco72I', 'Eco105I', 'Eco147I', 'EcoICRI', 'Eco53kI', 'EgeI', 'EheI', 'FaiI', 'FspAI', 'GlaI', 'Hpy166II', 'HpyCH4V', 'KspAI', 'MalI', 'Ml [...]
)
+
+
typedict['type67'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Blunt', 'Defined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['NspBII', 'HaeI', 'SciI', 'LpnI', 'AhaIII', 'Sth302II', 'MstI'],
+ ['AhaIII', 'HaeI', 'LpnI', 'MstI', 'NspBII', 'Pfl8569I', 'SciI', 'Sth302II'],
)
+
+
typedict['type68'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['BssHII', 'BsrFI', 'DpnII', 'MluI', 'NgoMIV', 'HpaII', 'TspMI', 'BclI', 'BsaWI', 'SalI', 'MspI', 'Bsu15I', 'NcoI', 'ClaI', 'XmaI', 'Cfr9I', 'TaqI', 'EaeI', 'AseI', 'AclI', 'ApoI', 'HpyCH4IV', 'NdeI', 'HapII', 'MseI', 'BsaHI', 'XbaI', 'MboI', 'CviQI', 'NheI', 'Sau3AI', 'CviAII', 'MfeI', 'ApaLI', 'Cfr10I', 'HinP1I', 'HspAI', 'HindIII', 'EcoRI', 'XhoI', 'BseCI', 'MunI', 'EagI', 'AscI', 'VspI', 'KasI', 'Kpn2I', 'SgrAI', 'BspHI', 'BstYI', 'AgeI', 'BfuCI', 'Sse9I', 'NotI', 'FatI', 'Ba [...]
+ ['Acc65I', 'AclI', 'AflII', 'AgeI', 'ApaLI', 'ApoI', 'AscI', 'AseI', 'BamHI', 'BclI', 'BfuCI', 'BglII', 'BsaHI', 'BsaWI', 'BseCI', 'BspHI', 'BsrFI', 'BssHII', 'BstYI', 'Bsu15I', 'Cfr9I', 'Cfr10I', 'ClaI', 'CviAII', 'CviQI', 'DpnII', 'EaeI', 'EagI', 'EcoRI', 'FatI', 'HapII', 'HinP1I', 'HindIII', 'HpaII', 'HpyCH4IV', 'HspAI', 'KasI', 'Kpn2I', 'MboI', 'MfeI', 'MluI', 'MseI', 'MspI', 'MunI', 'NcoI', 'NdeI', 'NgoMIV', 'NheI', 'NotI', 'PaeR7I', 'SalI', 'Sau3AI', 'SgrAI', 'Sse9I', 'TaqI [...]
)
+
+
typedict['type77'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['XmaIII', 'CfrI', 'XhoII'],
+ ['CfrI', 'XhoII', 'XmaIII'],
)
+
+
typedict['type78'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['BssMI', 'AsuNHI', 'PshBI', 'BshTI', 'CciI', 'MreI', 'AhlI', 'XspI', 'KroI', 'BfaI', 'PauI', 'Asp718I', 'VneI', 'PspXI', 'AsiGI', 'CciNI', 'Sfr274I', 'PteI', 'Ksp22I', 'Bsp19I', 'MauBI', 'AbsI', 'AsuII', 'FauNDI', 'Vha464I', 'BstACI', 'AcoI', 'BstMBI', 'BssAI', 'BseAI', 'Hin6I', 'PalAI', 'BstAUI', 'Bpu14I', 'Eco52I', 'BspT104I', 'SspDI', 'AflII', 'BglII', 'TasI', 'AcsI', 'BseX3I', 'FspBI', 'RsaNI', 'Acc65I', 'AvrII', 'MaeI', 'XapI', 'PscI', 'Bsp1407I', 'SspMI', 'PciI', 'Bse118I' [...]
+ ['AbsI', 'AccIII', 'AcoI', 'AcsI', 'AcyI', 'AhlI', 'Alw44I', 'Aor13HI', 'AoxI', 'AsiGI', 'Asp718I', 'AspA2I', 'AsuII', 'AsuNHI', 'AvrII', 'BcuI', 'BfaI', 'BfrI', 'BlnI', 'Bpu14I', 'Bsa29I', 'Bse118I', 'BseAI', 'BsePI', 'BseX3I', 'BshTI', 'BshVI', 'BsiSI', 'BsiWI', 'Bsp13I', 'Bsp19I', 'Bsp119I', 'Bsp120I', 'Bsp143I', 'Bsp1407I', 'BspDI', 'BspEI', 'BspTI', 'BspT104I', 'BsrGI', 'BssAI', 'BssMI', 'BssNI', 'BstACI', 'BstAFI', 'BstAUI', 'BstBI', 'BstMBI', 'BstX2I', 'BstZI', 'BsuTUI', ' [...]
)
+
+
typedict['type79'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Defined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['SelI', 'BspLU11I', 'SplI', 'TspEI', 'Asi256I', 'Ppu10I', 'Sse232I', 'BetI', 'BspMII'],
+ ['Asi256I', 'BetI', 'BspLU11I', 'BspMII', 'Ppu10I', 'SelI', 'SplI', 'Sse232I', 'TspEI'],
)
+
+
typedict['type80'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['PspPI', 'AspS9I', 'StyD4I', 'PspGI', 'BsoBI', 'BlpI', 'BssECI', 'AjnI', 'AvaI', 'SexAI', 'SinI', 'Sau96I', 'BstNI', 'Cfr13I', 'TseI', 'MvaI', 'AflIII', 'TfiI', 'BanI', 'RsrII', 'BcnI', 'ScrFI', 'EcoRII', 'EcoNI', 'ApeKI', 'HinfI', 'NciI', 'Fsp4HI', 'EcoO109I', 'PpuMI', 'AvaII', 'Tth111I', 'AccI', 'DdeI', 'BsaJI', 'Fnu4HI', 'Tsp45I'],
+ ['AccI', 'AflIII', 'AjnI', 'ApeKI', 'AspS9I', 'AvaI', 'AvaII', 'BanI', 'BcnI', 'BlpI', 'BsaJI', 'BsoBI', 'BssECI', 'BstNI', 'Cfr13I', 'DdeI', 'EcoNI', 'EcoO109I', 'EcoRII', 'Fnu4HI', 'Fsp4HI', 'HinfI', 'MvaI', 'NciI', 'PpuMI', 'PspGI', 'PspPI', 'RsrII', 'Sau96I', 'ScrFI', 'SexAI', 'SinI', 'StyD4I', 'TfiI', 'TseI', 'Tsp45I', 'Tth111I'],
)
+
+
typedict['type81'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['HgiCI', 'EcoHI'],
+ ['EcoHI', 'HgiCI'],
)
+
+
typedict['type82'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['AxyI', 'BspT107I', 'PspEI', 'BisI', 'BstPI', 'BstSFI', 'BstEII', 'BmgT120I', 'BssT1I', 'PsyI', 'BtgI', 'Eco91I', 'Bst2UI', 'BstDEI', 'GluI', 'BstENI', 'Ama87I', 'BstDSI', 'PflFI', 'Bme1390I', 'Psp5II', 'EcoO65I', 'BmrFI', 'EcoT14I', 'PspPPI', 'SmlI', 'BseBI', 'PfoI', 'BshNI', 'Rsr2I', 'BmeT110I', 'PasI', 'TseFI', 'CpoI', 'Eco130I', 'CspI', 'BfmI', 'Eco47I', 'Bsu36I', 'Bme18I', 'MabI', 'Hpy188III', 'Bse21I', 'BstSCI', 'BpuMI', 'SgeI', 'XagI', 'SmoI', 'Bsp1720I', 'MaeIII', 'ErhI' [...]
+ ['AccB1I', 'Ama87I', 'AsuC2I', 'AxyI', 'BciT130I', 'BfmI', 'BisI', 'Bme18I', 'Bme1390I', 'BmeT110I', 'BmgT120I', 'BmrFI', 'Bpu1102I', 'BpuMI', 'Bse21I', 'BseBI', 'BseDI', 'BshNI', 'BsiHKCI', 'Bsp1720I', 'BspT107I', 'BssT1I', 'BstDEI', 'BstDSI', 'BstEII', 'BstENI', 'BstPI', 'BstSCI', 'BstSFI', 'Bst2UI', 'Bsu36I', 'BtgI', 'CpoI', 'CsiI', 'CspI', 'Eco47I', 'Eco81I', 'Eco88I', 'Eco91I', 'Eco130I', 'EcoO65I', 'EcoT14I', 'ErhI', 'FblI', 'GluI', 'Hpy188III', 'HpyF3I', 'KflI', 'MabI', 'M [...]
)
+
+
typedict['type83'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov5', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['SanDI', 'DsaI', 'SauI', 'DraII', 'UnbI', 'VpaK11AI', 'SfeI', 'CauII', 'Hpy178III', 'AsuI', 'SecI', 'EspI', 'Sse8647I'],
+ ['AsuI', 'CauII', 'DraII', 'DsaI', 'EspI', 'Hpy178III', 'SanDI', 'SauI', 'SecI', 'SfeI', 'Sse8647I', 'UnbI', 'VpaK11AI'],
)
+
+
typedict['type84'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov3', 'Defined', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['SacI', 'KpnI', 'HaeII', 'SacII', 'AatII', 'PluTI', 'NlaIII', 'PstI', 'Cfr42I', 'FseI', 'ApaI', 'NspI', 'HhaI', 'AsiSI'],
+ ['AatII', 'ApaI', 'AsiSI', 'Cfr42I', 'FseI', 'HaeII', 'HhaI', 'KpnI', 'NlaIII', 'NspI', 'PluTI', 'PstI', 'SacI', 'SacII'],
)
+
+
typedict['type89'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov3', 'Defined', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['PabI', 'McaTI'],
+ ['McaTI', 'PabI'],
)
+
+
typedict['type90'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov3', 'Defined', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['SgrBI', 'BstHHI', 'BstH2I', 'BmtI', 'PvuI', 'BspOI', 'Zsp2I', 'FaeI', 'SdaI', 'BstNSI', 'Ple19I', 'Hin1II', 'Sse8387I', 'TaiI', 'Hsp92II', 'Psp124BI', 'Sfr303I', 'Mph1103I', 'CfoI', 'PaeI', 'BstKTI', 'SstI', 'AspLEI', 'SphI', 'SfaAI', 'RgaI', 'SgfI', 'SbfI', 'BspMAI', 'XceI', 'NsiI', 'EcoT22I', 'PacI', 'KspI', 'BfoI', 'RigI'],
+ ['AspLEI', 'BfoI', 'BmtI', 'BspMAI', 'BspOI', 'BstH2I', 'BstHHI', 'BstKTI', 'BstNSI', 'CfoI', 'EcoT22I', 'FaeI', 'Hin1II', 'Hsp92II', 'KspI', 'Mph1103I', 'NsiI', 'PacI', 'PaeI', 'Ple19I', 'Psp124BI', 'PvuI', 'RgaI', 'RigI', 'SbfI', 'SdaI', 'SfaAI', 'Sfr303I', 'SgfI', 'SgrBI', 'SphI', 'Sse8387I', 'SstI', 'TaiI', 'XceI', 'Zsp2I'],
)
+
+
typedict['type91'] = _temp()
@@ -20450,14 +23006,18 @@ def _temp():
('Palindromic', 'OneCut', 'Ov3', 'Defined', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['ChaI'],
)
+
+
typedict['type92'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['AgsI', 'MwoI', 'EcoT38I', 'BanII', 'TspRI', 'Hpy99I', 'BstXI', 'Bsc4I', 'BaeGI', 'Hpy188I', 'DraIII', 'Bsp1286I', 'AhdI', 'SfiI', 'XcmI', 'BslI'],
+ ['AgsI', 'AhdI', 'BaeGI', 'BanII', 'BglI', 'Bsc4I', 'BslI', 'Bsp1286I', 'BstAPI', 'BstXI', 'DraIII', 'EcoT38I', 'Hpy99I', 'Hpy188I', 'MwoI', 'SfiI', 'TspRI', 'XcmI'],
)
+
+
typedict['type93'] = _temp()
@@ -20466,22 +23026,29 @@ def _temp():
('Palindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Dep', 'Not_available', 'AbstractCut', 'RestrictionType'),
['BthCI', 'HauII'],
)
+
+
typedict['type94'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Commercially_available', 'AbstractCut', 'RestrictionType'),
- ['AlwNI', 'DrdI', 'BglI', 'TscAI', 'CaiI', 'BstMWI', 'Eco24I', 'BsiHKAI', 'BseSI', 'Van91I', 'DseDI', 'SetI', 'BmeRI', 'TaaI', 'BstMCI', 'HpyF10VI', 'Bst4CI', 'SduI', 'Alw21I', 'AccB7I', 'AdeI', 'BsiEI', 'BseLI', 'FriOI', 'AasI', 'Eam1105I', 'TauI', 'AfiI', 'Bbv12I', 'BstAPI', 'HpyCH4III', 'BstSLI', 'BlsI', 'PcsI', 'PstNI', 'PkrI', 'MhlI', 'DriI', 'Bsh1285I', 'PflMI'],
+ ['AasI', 'AccB7I', 'AdeI', 'AfiI', 'Alw21I', 'AlwNI', 'Bbv12I', 'BlsI', 'BmeRI', 'BseLI', 'BseSI', 'Bsh1285I', 'BsiEI', 'BsiHKAI', 'Bst4CI', 'BstMCI', 'BstMWI', 'BstSLI', 'CaiI', 'DrdI', 'DriI', 'DseDI', 'Eam1105I', 'Eco24I', 'FriOI', 'HpyCH4III', 'HpyF10VI', 'MhlI', 'PcsI', 'PflMI', 'PkrI', 'PstNI', 'SduI', 'SetI', 'TaaI', 'TauI', 'TscAI', 'Van91I'],
)
+
+
typedict['type95'] = _temp()
def _temp():
return (
('Palindromic', 'OneCut', 'Ov3', 'Ambiguous', 'Meth_Undep', 'Not_available', 'AbstractCut', 'RestrictionType'),
- ['Nli3877I', 'Psp03I', 'BsiYI', 'ApaBI', 'Tsp4CI', 'FmuI', 'McrI', 'HgiJII', 'PssI', 'HgiAI'],
+ ['ApaBI', 'BsiYI', 'FmuI', 'HgiAI', 'HgiJII', 'McrI', 'Nli3877I', 'Psp03I', 'PssI', 'Tsp4CI'],
)
+
+
typedict['type96'] = _temp()
+
del _temp
diff --git a/Bio/Restriction/__init__.py b/Bio/Restriction/__init__.py
index 02dd01b..4d97dd1 100644
--- a/Bio/Restriction/__init__.py
+++ b/Bio/Restriction/__init__.py
@@ -54,7 +54,7 @@ Example:
"""
-from Bio.Restriction.Restriction import *
+from Bio.Restriction.Restriction import * # noqa (legacy module arrangement)
#
@@ -105,7 +105,7 @@ from Bio.Restriction.Restriction import *
# 3) I prefer to keep all the code together.
# 4) and 5) both are OK. Only a matter of preference.
#
-# So the following code has been moved back to Bio.Restricion.Restriction
+# So the following code has been moved back to Bio.Restriction.Restriction
# For the user the results is transparent:
# from Bio.Restriction import * works as before.
#
diff --git a/Bio/SCOP/Cla.py b/Bio/SCOP/Cla.py
index 736932d..843cc46 100644
--- a/Bio/SCOP/Cla.py
+++ b/Bio/SCOP/Cla.py
@@ -5,7 +5,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-""" Handle the SCOP CLAssification file, which describes SCOP domains.
+"""Handle the SCOP CLAssification file, which describes SCOP domains.
The file format is described in the scop
"release notes.":http://scop.mrc-lmb.cam.ac.uk/scop/release-notes.html
@@ -24,7 +24,6 @@ class Record(object):
"""Holds information for one SCOP domain.
Attributes:
-
- sid - SCOP identifier. e.g. d1danl2
- residues - The domain definition as a Residues object
- sccs - SCOP concise classification strings. e.g. b.1.2.1
@@ -34,7 +33,9 @@ class Record(object):
the Scop module for a description of nodetypes. This used to be a
list of (key,value) tuples in older versions of Biopython (see
Bug 3109).
+
"""
+
def __init__(self, line=None):
self.sid = ''
self.residues = None
@@ -76,8 +77,8 @@ def parse(handle):
"""Iterates over a CLA file as Cla records for each line.
Arguments:
-
- handle - file-like object.
+
"""
for line in handle:
if line.startswith('#'):
@@ -87,12 +88,13 @@ def parse(handle):
class Index(dict):
"""A CLA file indexed by SCOP identifiers for rapid random access."""
+
def __init__(self, filename):
"""Create CLA index.
Arguments:
-
- filename - The file to index
+
"""
dict.__init__(self)
self.filename = filename
diff --git a/Bio/SCOP/Des.py b/Bio/SCOP/Des.py
index b2996df..4b1d006 100644
--- a/Bio/SCOP/Des.py
+++ b/Bio/SCOP/Des.py
@@ -4,7 +4,7 @@
# as part of this package.
-""" Handle the SCOP DEScription file.
+"""Handle the SCOP DEScription file.
The file format is described in the scop
"release notes.":http://scop.berkeley.edu/release-notes-1.55.html
@@ -19,7 +19,6 @@ class Record(object):
"""Holds information for one node in the SCOP hierarchy.
Attributes:
-
- sunid - SCOP unique identifiers
- nodetype - One of 'cl' (class), 'cf' (fold), 'sf' (superfamily),
'fa' (family), 'dm' (protein), 'sp' (species), 'px' (domain).
@@ -29,6 +28,7 @@ class Record(object):
- description - e.g. "All beta proteins","Fibronectin type III",
"""
+
def __init__(self, line=None):
self.sunid = ''
self.nodetype = ''
@@ -79,8 +79,8 @@ def parse(handle):
"""Iterates over a DES file as a Des record for each line
Arguments:
-
- handle - file-like object
+
"""
for line in handle:
if line.startswith('#'):
diff --git a/Bio/SCOP/Dom.py b/Bio/SCOP/Dom.py
index 50077df..e52647c 100644
--- a/Bio/SCOP/Dom.py
+++ b/Bio/SCOP/Dom.py
@@ -7,7 +7,7 @@
# Interface and comments modified to reflect changes to the SCOP
# module, and to SCOP itself.
-""" Handle the SCOP DOMain file.
+"""Handle the SCOP DOMain file.
The DOM file has been officially deprecated. For more information see
the SCOP"release notes.":http://scop.berkeley.edu/release-notes-1.55.html
@@ -22,11 +22,12 @@ class Record(object):
"""Holds information for one SCOP domain.
Attribues:
-
- sid - The SCOP ID of the entry, e.g. d1anu1
- residues - The domain definition as a Residues object
- hierarchy - A string specifying where this domain is in the hierarchy.
+
"""
+
def __init__(self, line=None):
self.sid = ''
self.residues = []
@@ -67,8 +68,8 @@ def parse(handle):
"""Iterates over a DOM file as a Dom record for each line.
Arguments:
-
- handle -- file-like object.
+
"""
for line in handle:
if line.startswith('#'):
diff --git a/Bio/SCOP/Hie.py b/Bio/SCOP/Hie.py
index 3e2bc04..5ac93ee 100644
--- a/Bio/SCOP/Hie.py
+++ b/Bio/SCOP/Hie.py
@@ -20,11 +20,12 @@ class Record(object):
"""Holds information for one node in the SCOP hierarchy.
Attributes:
-
- sunid - SCOP unique identifiers of this node
- parent - Parents sunid
- children - Sequence of childrens sunids
+
"""
+
def __init__(self, line=None):
self.sunid = ''
self.parent = ''
@@ -90,8 +91,8 @@ def parse(handle):
"""Iterates over a HIE file as Hie records for each line.
Arguments:
-
- handle - file-like object.
+
"""
for line in handle:
if line.startswith('#'):
diff --git a/Bio/SCOP/Raf.py b/Bio/SCOP/Raf.py
index eac25aa..b8878bb 100644
--- a/Bio/SCOP/Raf.py
+++ b/Bio/SCOP/Raf.py
@@ -21,9 +21,9 @@ ascii alphabetic character, a-z, A-Z). e.g. "1", "10A", "1010b", "-1"
See "ASTRAL RAF Sequence Maps":http://astral.stanford.edu/raf.html
-protein_letters_3to1 -- A mapping from the 3-letter amino acid codes found
- in PDB files to 1-letter codes. The 3-letter codes
- include chemically modified residues.
+Dictionary `protein_letters_3to1` provides a mapping from the 3-letter amino
+acid codes found in PDB files to 1-letter codes. The 3-letter codes include
+chemically modified residues.
"""
from __future__ import print_function
@@ -60,10 +60,11 @@ class SeqMapIndex(dict):
"""
def __init__(self, filename):
- """
+ """Initialize the RAF file index.
+
Arguments:
+ - filename -- The file to index
- filename -- The file to index
"""
dict.__init__(self)
self.filename = filename
@@ -80,7 +81,7 @@ class SeqMapIndex(dict):
position = f.tell()
def __getitem__(self, key):
- """ Return an item from the indexed file. """
+ """Return an item from the indexed file."""
position = dict.__getitem__(self, key)
with open(self.filename, _universal_read_mode) as f:
@@ -92,8 +93,10 @@ class SeqMapIndex(dict):
def getSeqMap(self, residues):
"""Get the sequence map for a collection of residues.
- residues -- A Residues instance, or a string that can be converted into
- a Residues instance.
+ Arguments:
+ - residues -- A Residues instance, or a string that can be
+ converted into a Residues instance.
+
"""
if isinstance(residues, basestring):
residues = Residues(residues)
@@ -137,15 +140,13 @@ class SeqMap(object):
with index(), slice this SeqMap into fragments, and glue fragments back
together with extend().
- pdbid -- The PDB 4 character ID
-
- pdb_datestamp -- From the PDB file
-
- version -- The RAF format version. e.g. 0.01
+ Attributes:
+ - pdbid -- The PDB 4 character ID
+ - pdb_datestamp -- From the PDB file
+ - version -- The RAF format version. e.g. 0.01
+ - flags -- RAF flags. (See release notes for more information.)
+ - res -- A list of Res objects, one for each residue in this sequence map
- flags -- RAF flags. (See release notes for more information.)
-
- res -- A list of Res objects, one for each residue in this sequence map
"""
def __init__(self, line=None):
@@ -158,8 +159,7 @@ class SeqMap(object):
self._process(line)
def _process(self, line):
- """Parses a RAF record into a SeqMap object.
- """
+ """Parses a RAF record into a SeqMap object."""
header_len = 38
line = line.rstrip() # no trailing whitespace
@@ -247,9 +247,10 @@ class SeqMap(object):
This is typically used to find the coordinates of a domain, or other
residue subset.
- pdb_handle -- A handle to the relevant PDB file.
+ Arguments:
+ - pdb_handle -- A handle to the relevant PDB file.
+ - out_handle -- All output is written to this file like object.
- out_handle -- All output is written to this file like object.
"""
# This code should be refactored when (if?) biopython gets a PDB parser
@@ -289,16 +290,16 @@ class SeqMap(object):
class Res(object):
- """ A single residue mapping from a RAF record.
+ """A single residue mapping from a RAF record.
- chainid -- A single character chain ID.
+ Attributes:
+ - chainid -- A single character chain ID.
+ - resid -- The residue ID.
+ - atom -- amino acid one-letter code from ATOM records.
+ - seqres -- amino acid one-letter code from SEQRES records.
- resid -- The residue ID.
-
- atom -- amino acid one-letter code from ATOM records.
-
- seqres -- amino acid one-letter code from SEQRES records.
"""
+
def __init__(self):
self.chainid = ''
self.resid = ''
@@ -311,8 +312,8 @@ def parse(handle):
in the file.
Arguments:
+ - handle -- file-like object.
- handle -- file-like object.
"""
for line in handle:
yield SeqMap(line)
diff --git a/Bio/SCOP/__init__.py b/Bio/SCOP/__init__.py
index d2849c4..5dab432 100644
--- a/Bio/SCOP/__init__.py
+++ b/Bio/SCOP/__init__.py
@@ -15,16 +15,14 @@
# was previously in Bio.WWW.SCOP, has now been merged into this module.
-""" SCOP: Structural Classification of Proteins.
+"""SCOP: Structural Classification of Proteins.
The SCOP database aims to provide a manually constructed classification of
all know protein structures into a hierarchy, the main levels of which
are family, superfamily and fold.
* "SCOP":http://scop.mrc-lmb.cam.ac.uk/scop/
-
* "Introduction":http://scop.mrc-lmb.cam.ac.uk/scop/intro.html
-
* "SCOP parsable files":http://scop.mrc-lmb.cam.ac.uk/scop/parse/
The Scop object in this module represents the entire SCOP classification. It
@@ -33,8 +31,7 @@ converted back to the same file formats. A single SCOP domain (represented
by the Domain class) can be obtained from Scop using the domain's SCOP
identifier (sid).
-
-nodeCodeDict -- A mapping between known 2 letter node codes and a longer
+- nodeCodeDict -- A mapping between known 2 letter node codes and a longer
description. The known node types are 'cl' (class), 'cf'
(fold), 'sf' (superfamily), 'fa' (family), 'dm' (domain),
'sp' (species), 'px' (domain). Additional node types may
@@ -43,8 +40,8 @@ nodeCodeDict -- A mapping between known 2 letter node codes and a longer
This module also provides code to access SCOP over the WWW.
Functions:
-search -- Access the main CGI script.
-_open -- Internally used function.
+ - search -- Access the main CGI script.
+ - _open -- Internally used function.
"""
@@ -90,7 +87,7 @@ try:
_cmp = cmp
except NameError:
def _cmp(a, b):
- """Implementation of cmp(x,y) for Python 3 (PRIVATE).
+ """Implement cmp(x,y) for Python 3 (PRIVATE).
Based on Python 3 docs which say if you really need the cmp()
functionality, you could use the expression (a > b) - (a < b)
@@ -107,9 +104,7 @@ def cmp_sccs(sccs1, sccs2):
A sccs (e.g. a.4.5.11) compactly represents a domain's classification.
The letter represents the class, and the numbers are the fold,
superfamily, and family, respectively.
-
"""
-
s1 = sccs1.split(".")
s2 = sccs2.split(".")
@@ -138,7 +133,6 @@ def parse_domain(str):
A typical ASTRAL header looks like --
>d1tpt_1 a.46.2.1 (1-70) Thymidine phosphorylase {Escherichia coli}
"""
-
m = _domain_re.match(str)
if (not m):
raise ValueError("Domain: " + str)
@@ -165,6 +159,7 @@ class Scop(object):
root -- The root node of the hierarchy
"""
+
def __init__(self, cla_handle=None, des_handle=None, hie_handle=None,
dir_path=None, db_handle=None, version=None):
"""Build the SCOP hierarchy from the SCOP parsable files, or a sql backend.
@@ -279,10 +274,11 @@ class Scop(object):
hie_handle.close()
def getRoot(self):
+ """Get root node."""
return self.getNodeBySunid(0)
def getDomainBySid(self, sid):
- """Return a domain from its sid"""
+ """Return a domain from its sid."""
if sid in self._sidDict:
return self._sidDict[sid]
if self.db_handle:
@@ -293,7 +289,7 @@ class Scop(object):
return None
def getNodeBySunid(self, sunid):
- """Return a node from its sunid"""
+ """Return a node from its sunid."""
if sunid in self._sunidDict:
return self._sunidDict[sunid]
if self.db_handle:
@@ -304,33 +300,33 @@ class Scop(object):
return None
def getDomains(self):
- """Returns an ordered tuple of all SCOP Domains"""
+ """Return an ordered tuple of all SCOP Domains."""
if self.db_handle:
return self.getRoot().getDescendents('px')
else:
return self._domains
def write_hie(self, handle):
- """Build an HIE SCOP parsable file from this object"""
+ """Build an HIE SCOP parsable file from this object."""
# We order nodes to ease comparison with original file
for n in sorted(self._sunidDict.values(), key=lambda n: n.sunid):
handle.write(str(n.toHieRecord()))
def write_des(self, handle):
- """Build a DES SCOP parsable file from this object"""
+ """Build a DES SCOP parsable file from this object."""
# Original SCOP file is not ordered?
for n in sorted(self._sunidDict.values(), key=lambda n: n.sunid):
if n != self.root:
handle.write(str(n.toDesRecord()))
def write_cla(self, handle):
- """Build a CLA SCOP parsable file from this object"""
+ """Build a CLA SCOP parsable file from this object."""
# We order nodes to ease comparison with original file
for n in sorted(self._sidDict.values(), key=lambda n: n.sunid):
handle.write(str(n.toClaRecord()))
def getDomainFromSQL(self, sunid=None, sid=None):
- """Load a node from the SQL backend using sunid or sid"""
+ """Load a node from the SQL backend using sunid or sid."""
if sunid is None and sid is None:
return None
@@ -379,7 +375,7 @@ class Scop(object):
self._sunidDict[n.sunid] = n
def getAscendentFromSQL(self, node, type):
- """Get ascendents using SQL backend"""
+ """Get ascendents using SQL backend."""
if nodeCodeOrder.index(type) >= nodeCodeOrder.index(node.type):
return None
@@ -392,9 +388,10 @@ class Scop(object):
return None
def getDescendentsFromSQL(self, node, type):
- """Get descendents of a node using the database backend. This avoids
- repeated iteration of SQL calls and is therefore much quicker than
- repeatedly calling node.getChildren().
+ """Get descendents of a node using the database backend.
+
+ This avoids repeated iteration of SQL calls and is therefore much
+ quicker than repeatedly calling node.getChildren().
"""
if nodeCodeOrder.index(type) <= nodeCodeOrder.index(node.type):
return []
@@ -456,7 +453,7 @@ class Scop(object):
return des_list
def write_hie_sql(self, handle):
- """Write HIE data to SQL database"""
+ """Write HIE data to SQL database."""
cur = handle.cursor()
cur.execute("DROP TABLE IF EXISTS hie")
@@ -468,7 +465,7 @@ class Scop(object):
cur.execute("INSERT INTO hie VALUES (%s,%s)" % (p.sunid, c.sunid))
def write_cla_sql(self, handle):
- """Write CLA data to SQL database"""
+ """Write CLA data to SQL database."""
cur = handle.cursor()
cur.execute("DROP TABLE IF EXISTS cla")
@@ -486,7 +483,7 @@ class Scop(object):
n.sunid))
def write_des_sql(self, handle):
- """Write DES data to SQL database"""
+ """Write DES data to SQL database."""
cur = handle.cursor()
cur.execute("DROP TABLE IF EXISTS des")
@@ -500,26 +497,25 @@ class Scop(object):
class Node(object):
- """ A node in the Scop hierarchy
+ """A node in the Scop hierarchy.
- sunid -- SCOP unique identifiers. e.g. '14986'
-
- parent -- The parent node
-
- children -- A list of child nodes
-
- sccs -- SCOP concise classification string. e.g. 'a.1.1.2'
-
- type -- A 2 letter node type code. e.g. 'px' for domains
-
- description --
+ Attributes:
+ - sunid -- SCOP unique identifiers. e.g. '14986'
+ - parent -- The parent node
+ - children -- A list of child nodes
+ - sccs -- SCOP concise classification string. e.g. 'a.1.1.2'
+ - type -- A 2 letter node type code. e.g. 'px' for domains
+ - description -- Description text.
"""
+
def __init__(self, scop=None):
- """Create a Node in the scop hierarchy. If a Scop instance is provided to the
- constructor, this will be used to lookup related references using the SQL
- methods. If no instance is provided, it is assumed the whole tree exists
- and is connected."""
+ """Initialize a Node in the scop hierarchy.
+
+ If a Scop instance is provided to the constructor, this will be used
+ to lookup related references using the SQL methods. If no instance
+ is provided, it is assumed the whole tree exists and is connected.
+ """
self.sunid = ''
self.parent = None
self.children = []
@@ -529,6 +525,7 @@ class Node(object):
self.scop = scop
def __str__(self):
+ """Represent the node as a string."""
s = []
s.append(str(self.sunid))
s.append(self.sccs)
@@ -538,7 +535,7 @@ class Node(object):
return " ".join(s)
def toHieRecord(self):
- """Return an Hie.Record"""
+ """Return an Hie.Record."""
rec = Hie.Record()
rec.sunid = str(self.sunid)
if self.getParent(): # Not root node
@@ -550,7 +547,7 @@ class Node(object):
return rec
def toDesRecord(self):
- """Return a Des.Record"""
+ """Return a Des.Record."""
rec = Des.Record()
rec.sunid = str(self.sunid)
rec.nodetype = self.type
@@ -559,22 +556,24 @@ class Node(object):
return rec
def getChildren(self):
- """Return a list of children of this Node"""
+ """Return a list of children of this Node."""
if self.scop is None:
return self.children
else:
return [self.scop.getNodeBySunid(x) for x in self.children]
def getParent(self):
- """Return the parent of this Node"""
+ """Return the parent of this Node."""
if self.scop is None:
return self.parent
else:
return self.scop.getNodeBySunid(self.parent)
def getDescendents(self, node_type):
- """ Return a list of all descendant nodes of the given type. Node type can a
- two letter code or longer description. e.g. 'fa' or 'family'
+ """Return a list of all descendant nodes of the given type.
+
+ Node type can be a two letter code or longer description,
+ e.g. 'fa' or 'family'.
"""
if node_type in _nodetype_to_code:
node_type = _nodetype_to_code[node_type]
@@ -594,8 +593,11 @@ class Node(object):
return nodes
def getAscendent(self, node_type):
- """ Return the ancenstor node of the given type, or None.Node type can a
- two letter code or longer description. e.g. 'fa' or 'family'"""
+ """Return the ancenstor node of the given type, or None.
+
+ Node type can be a two letter code or longer description,
+ e.g. 'fa' or 'family'.
+ """
if node_type in _nodetype_to_code:
node_type = _nodetype_to_code[node_type]
@@ -615,19 +617,23 @@ class Node(object):
class Domain(Node):
- """ A SCOP domain. A leaf node in the Scop hierarchy.
+ """A SCOP domain. A leaf node in the Scop hierarchy.
- - sid -- The SCOP domain identifier. e.g. ``"d5hbib_"``
+ Attributes:
+ - sid - The SCOP domain identifier. e.g. ``"d5hbib_"``
+ - residues - A Residue object. It defines the collection of PDB
+ atoms that make up this domain.
- - residues -- A Residue object. It defines the collection
- of PDB atoms that make up this domain.
"""
+
def __init__(self, scop=None):
+ """Initialize a SCOP Domain object."""
Node.__init__(self, scop=scop)
self.sid = ''
self.residues = None
def __str__(self):
+ """Represent the SCOP Domain as a string."""
s = []
s.append(self.sid)
s.append(self.sccs)
@@ -644,13 +650,13 @@ class Domain(Node):
return " ".join(s)
def toDesRecord(self):
- """Return a Des.Record"""
+ """Return a Des.Record."""
rec = Node.toDesRecord(self)
rec.name = self.sid
return rec
def toClaRecord(self):
- """Return a Cla.Record"""
+ """Return a Cla.Record."""
rec = Cla.Record()
rec.sid = self.sid
rec.residues = self.residues
@@ -670,32 +676,30 @@ class Domain(Node):
class Astral(object):
- """Abstraction of the ASTRAL database, which has sequences for all the SCOP domains,
+ """Representation of the ASTRAL database.
+
+ Abstraction of the ASTRAL database, which has sequences for all the SCOP domains,
as well as clusterings by percent id or evalue.
"""
def __init__(self, dir_path=None, version=None, scop=None,
astral_file=None, db_handle=None):
- """
- Initialise the astral database.
+ """Initialize the astral database.
You must provide either a directory of SCOP files:
-
- dir_path - string, the path to location of the scopseq-x.xx directory
(not the directory itself), and
- version -a version number.
or, a FASTA file:
-
- astral_file - string, a path to a fasta file (which will be loaded in memory)
or, a MYSQL database:
-
- db_handle - a database handle for a MYSQL database containing a table
'astral' with the astral data in it. This can be created
using writeToSQL.
- """
+ """
if astral_file is None and dir_path is None and db_handle is None:
raise RuntimeError("Need either file handle, or (dir_path + version),"
" or database handle to construct Astral")
@@ -725,7 +729,7 @@ class Astral(object):
self.IdDatahash = {}
def domainsClusteredByEv(self, id):
- """get domains clustered by evalue"""
+ """Get domains clustered by evalue."""
if id not in self.EvDatasets:
if self.db_handle:
self.EvDatasets[id] = self.getAstralDomainsFromSQL(astralEv_to_sql[id])
@@ -742,7 +746,7 @@ class Astral(object):
return self.EvDatasets[id]
def domainsClusteredById(self, id):
- """get domains clustered by percent id"""
+ """Get domains clustered by percentage identity."""
if id not in self.IdDatasets:
if self.db_handle:
self.IdDatasets[id] = self.getAstralDomainsFromSQL("id" + str(id))
@@ -757,7 +761,7 @@ class Astral(object):
return self.IdDatasets[id]
def getAstralDomainsFromFile(self, filename=None, file_handle=None):
- """Get the scop domains from a file containing a list of sids"""
+ """Get the scop domains from a file containing a list of sids."""
if file_handle is None and filename is None:
raise RuntimeError("You must provide a filename or handle")
if not file_handle:
@@ -777,8 +781,11 @@ class Astral(object):
return doms
def getAstralDomainsFromSQL(self, column):
- """Load a set of astral domains from a column in the astral table of a MYSQL
- database (which can be created with writeToSQL(...)"""
+ """Load ASTRAL domains from the MySQL database.
+
+ Load a set of astral domains from a column in the astral table of a MYSQL
+ database (which can be created with writeToSQL(...).
+ """
cur = self.db_handle.cursor()
cur.execute("SELECT sid FROM astral WHERE " + column + "=1")
data = cur.fetchall()
@@ -787,7 +794,7 @@ class Astral(object):
return data
def getSeqBySid(self, domain):
- """get the seq record of a given domain from its sid"""
+ """Get the seq record of a given domain from its sid."""
if self.db_handle is None:
return self.fasta_dict[domain].seq
else:
@@ -796,11 +803,11 @@ class Astral(object):
return Seq(cur.fetchone()[0])
def getSeq(self, domain):
- """Return seq associated with domain"""
+ """Return seq associated with domain."""
return self.getSeqBySid(domain.sid)
def hashedDomainsById(self, id):
- """Get domains clustered by sequence identity in a dict"""
+ """Get domains clustered by sequence identity in a dict."""
if id not in self.IdDatahash:
self.IdDatahash[id] = {}
for d in self.domainsClusteredById(id):
@@ -808,7 +815,7 @@ class Astral(object):
return self.IdDatahash[id]
def hashedDomainsByEv(self, id):
- """Get domains clustered by evalue in a dict"""
+ """Get domains clustered by evalue in a dict."""
if id not in self.EvDatahash:
self.EvDatahash[id] = {}
for d in self.domainsClusteredByEv(id):
@@ -816,15 +823,15 @@ class Astral(object):
return self.EvDatahash[id]
def isDomainInId(self, dom, id):
- """Returns true if the domain is in the astral clusters for percent ID"""
+ """Return true if the domain is in the astral clusters for percent ID."""
return dom in self.hashedDomainsById(id)
def isDomainInEv(self, dom, id):
- """Returns true if the domain is in the ASTRAL clusters for evalues"""
+ """Return true if the domain is in the ASTRAL clusters for evalues."""
return dom in self.hashedDomainsByEv(id)
def writeToSQL(self, db_handle):
- """Write the ASTRAL database to a MYSQL database"""
+ """Write the ASTRAL database to a MYSQL database."""
cur = db_handle.cursor()
cur.execute("DROP TABLE IF EXISTS astral")
@@ -851,8 +858,7 @@ class Astral(object):
def search(pdb=None, key=None, sid=None, disp=None, dir=None, loc=None,
cgi='http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi', **keywds):
- """search(pdb=None, key=None, sid=None, disp=None, dir=None, loc=None,
- cgi='http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi', **keywds)
+ """Access SCOP search and return a handle to the results.
Access search.cgi and return a handle to the results. See the
online help file for an explanation of the parameters:
@@ -872,7 +878,7 @@ def search(pdb=None, key=None, sid=None, disp=None, dir=None, loc=None,
def _open(cgi, params=None, get=1):
- """Open a hnadle to SCOP, returns an UndoHandle
+ """Open a handle to SCOP, returns an UndoHandle.
Open a handle to SCOP. cgi is the URL for the cgi script to access.
params is a dictionary with the options to pass to it. get is a boolean
diff --git a/Bio/SVDSuperimposer/__init__.py b/Bio/SVDSuperimposer/__init__.py
index a6af2ff..db956ab 100644
--- a/Bio/SVDSuperimposer/__init__.py
+++ b/Bio/SVDSuperimposer/__init__.py
@@ -12,8 +12,13 @@ value decomposition, which is used in the algorithm.
from __future__ import print_function
-from numpy import dot, transpose, sqrt, array
-from numpy.linalg import svd, det
+try:
+ from numpy import dot, transpose, sqrt
+ from numpy.linalg import svd, det
+except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Install NumPy if you want to use Bio.SVDSuperimposer.")
class SVDSuperimposer(object):
@@ -30,7 +35,66 @@ class SVDSuperimposer(object):
Matrix computations, 2nd ed. Golub, G. & Van Loan, CF., The Johns
Hopkins University Press, Baltimore, 1989
+
+ start with two coordinate sets (Nx3 arrays - float)
+
+ >>> from Bio.SVDSuperimposer import SVDSuperimposer
+ >>> from numpy import array, dot, set_printoptions
+ >>>
+ >>> x = array([[51.65, -1.90, 50.07],
+ ... [50.40, -1.23, 50.65],
+ ... [50.68, -0.04, 51.54],
+ ... [50.22, -0.02, 52.85]], 'f')
+ >>>
+ >>> y = array([[51.30, -2.99, 46.54],
+ ... [51.09, -1.88, 47.58],
+ ... [52.36, -1.20, 48.03],
+ ... [52.71, -1.18, 49.38]], 'f')
+
+ start
+
+ >>> sup = SVDSuperimposer()
+
+ set the coords y will be rotated and translated on x
+
+ >>> sup.set(x, y)
+
+ do the lsq fit
+
+ >>> sup.run()
+
+ get the rmsd
+
+ >>> rms = sup.get_rms()
+
+ get rotation (right multiplying!) and the translation
+
+ >>> rot, tran = sup.get_rotran()
+
+ rotate y on x
+
+ >>> y_on_x1 = dot(y, rot) + tran
+
+ same thing
+
+ >>> y_on_x2 = sup.get_transformed()
+
+ >>> set_printoptions(precision=2)
+ >>> print(y_on_x1)
+ [[ 5.17e+01 -1.90e+00 5.01e+01]
+ [ 5.04e+01 -1.23e+00 5.06e+01]
+ [ 5.07e+01 -4.16e-02 5.15e+01]
+ [ 5.02e+01 -1.94e-02 5.29e+01]]
+ >>> print(y_on_x2)
+ [[ 5.17e+01 -1.90e+00 5.01e+01]
+ [ 5.04e+01 -1.23e+00 5.06e+01]
+ [ 5.07e+01 -4.16e-02 5.15e+01]
+ [ 5.02e+01 -1.94e-02 5.29e+01]]
+ >>> print("%.2f" % rms)
+ 0.00
+
"""
+
def __init__(self):
self._clear()
@@ -129,43 +193,5 @@ class SVDSuperimposer(object):
if __name__ == "__main__":
-
- # start with two coordinate sets (Nx3 arrays - float)
-
- x = array([[51.65, -1.90, 50.07],
- [50.40, -1.23, 50.65],
- [50.68, -0.04, 51.54],
- [50.22, -0.02, 52.85]], 'f')
-
- y = array([[51.30, -2.99, 46.54],
- [51.09, -1.88, 47.58],
- [52.36, -1.20, 48.03],
- [52.71, -1.18, 49.38]], 'f')
-
- # start!
- sup = SVDSuperimposer()
-
- # set the coords
- # y will be rotated and translated on x
- sup.set(x, y)
-
- # do the lsq fit
- sup.run()
-
- # get the rmsd
- rms = sup.get_rms()
-
- # get rotation (right multiplying!) and the translation
- rot, tran = sup.get_rotran()
-
- # rotate y on x
- y_on_x1 = dot(y, rot) + tran
-
- # same thing
- y_on_x2 = sup.get_transformed()
-
- print(y_on_x1)
- print("")
- print(y_on_x2)
- print("")
- print("%.2f" % rms)
+ from Bio._utils import run_doctest
+ run_doctest(verbose=0)
diff --git a/Bio/SearchIO/BlastIO/__init__.py b/Bio/SearchIO/BlastIO/__init__.py
index 6fd05a3..4170af8 100644
--- a/Bio/SearchIO/BlastIO/__init__.py
+++ b/Bio/SearchIO/BlastIO/__init__.py
@@ -156,10 +156,18 @@ The blast-xml parser is aware of these modifications and will attempt to extract
the true sequence IDs out of the descriptions. So when accessing QueryResult or
Hit objects, you will use the non-BLAST-generated IDs.
-Conversely, the blast-xml writer will try to concatenate the true sequence IDs
-with their descriptions and use the BLAST-generated IDs. This enables you to
-write BLAST XML files using SearchIO as if they were written by a real BLAST
-program.
+This behavior on the query IDs can be disabled using the 'use_raw_query_ids'
+parameter while the behavior on the hit IDs can be disabled using the
+'use_raw_hit_ids' parameter. Both are boolean values that can be supplied
+to SearchIO.read or SearchIO.parse, with the default values set to 'False'.
+
+In any case, the raw BLAST IDs can always be accessed using the query or hit
+object's 'blast_id' attribute.
+
+The blast-xml write function also accepts 'use_raw_query_ids' and
+'use_raw_hit_ids' parameters. However, note that the default values for the
+writer are set to 'True'. This is because the writer is meant to mimic native
+BLAST result as much as possible.
blast-tab
diff --git a/Bio/SearchIO/BlastIO/blast_tab.py b/Bio/SearchIO/BlastIO/blast_tab.py
index be45202..9548cf8 100644
--- a/Bio/SearchIO/BlastIO/blast_tab.py
+++ b/Bio/SearchIO/BlastIO/blast_tab.py
@@ -14,7 +14,7 @@ from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
-__all__ = ['BlastTabIndexer', 'BlastTabParser', 'BlastTabWriter']
+__all__ = ('BlastTabIndexer', 'BlastTabParser', 'BlastTabWriter')
# longname-shortname map
@@ -199,7 +199,6 @@ def _augment_blast_hsp(hsp, attr):
class BlastTabParser(object):
-
"""Parser for the BLAST tabular format."""
def __init__(self, handle, comments=False, fields=_DEFAULT_FIELDS):
@@ -306,7 +305,8 @@ class BlastTabParser(object):
def _parse_fields_line(self):
"""Returns a list of column short names from the 'Fields'
- comment line."""
+ comment line.
+ """
raw_field_str = self.line[len('# Fields: '):]
long_fields = raw_field_str.split(', ')
fields = [_LONG_SHORT_MAP[long_name] for long_name in long_fields]
@@ -472,7 +472,8 @@ class BlastTabParser(object):
def _get_frag_frame(self, frag, seq_type, parsedict):
"""Returns `HSPFragment` frame given the object, its sequence type,
- and its parsed dictionary values."""
+ and its parsed dictionary values.
+ """
assert seq_type in ('query', 'hit')
frame = getattr(frag, '%s_frame' % seq_type, None)
if frame is not None:
@@ -486,7 +487,8 @@ class BlastTabParser(object):
def _get_frag_strand(self, frag, seq_type, parsedict):
"""Returns `HSPFragment` strand given the object, its sequence type,
- and its parsed dictionary values."""
+ and its parsed dictionary values.
+ """
# NOTE: this will never set the strands as 0 for protein
# queries / hits, since we can't detect the blast flavors
# from the columns alone.
@@ -505,7 +507,6 @@ class BlastTabParser(object):
class BlastTabIndexer(SearchIndexer):
-
"""Indexer class for BLAST+ tab output."""
_parser = BlastTabParser
@@ -662,7 +663,6 @@ class BlastTabIndexer(SearchIndexer):
class BlastTabWriter(object):
-
"""Writer for blast-tab output format."""
def __init__(self, handle, comments=False, fields=_DEFAULT_FIELDS):
diff --git a/Bio/SearchIO/BlastIO/blast_text.py b/Bio/SearchIO/BlastIO/blast_text.py
index 832c440..9dead1a 100644
--- a/Bio/SearchIO/BlastIO/blast_text.py
+++ b/Bio/SearchIO/BlastIO/blast_text.py
@@ -20,11 +20,10 @@ with warnings.catch_warnings():
from Bio.Blast import NCBIStandalone
-__all__ = ['BlastTextParser']
+__all__ = ('BlastTextParser', )
class BlastTextParser(object):
-
"""Parser for the BLAST text format."""
def __init__(self, handle):
diff --git a/Bio/SearchIO/BlastIO/blast_xml.py b/Bio/SearchIO/BlastIO/blast_xml.py
index f4555f6..062c83b 100644
--- a/Bio/SearchIO/BlastIO/blast_xml.py
+++ b/Bio/SearchIO/BlastIO/blast_xml.py
@@ -33,7 +33,7 @@ from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
from Bio._py3k import _as_bytes, _bytes_to_string, unicode
_empty_bytes_string = _as_bytes("")
-__all__ = ['BlastXmlParser', 'BlastXmlIndexer', 'BlastXmlWriter']
+__all__ = ('BlastXmlParser', 'BlastXmlIndexer', 'BlastXmlWriter')
# element - optional qresult attribute name mapping
@@ -188,26 +188,45 @@ _RE_ID_DESC_PAIRS_PATTERN = re.compile(" +>")
_RE_ID_DESC_PATTERN = re.compile(" +")
-def _extract_ids_and_descs(concat_str):
- # Given a string space-separate string of IDs and descriptions,
- # return a list of tuples, each tuple containing an ID and
- # a description string (which may be empty)
+def _extract_ids_and_descs(raw_id, raw_desc):
+ """Extract IDs, descriptions, and raw ID from raw values (PRIVATE).
+
+ Given values of the `Hit_id` and `Hit_def` elements, this function returns
+ a tuple of three elements: all IDs, all descriptions, and the
+ BLAST-generated ID. The BLAST-generated ID is set to `None` if no
+ BLAST-generated IDs are present.
+
+ """
+ ids = []
+ descs = []
+
+ blast_gen_id = raw_id
+ if raw_id.startswith('gnl|BL_ORD_ID|'):
+ id_desc_line = raw_desc
+ else:
+ id_desc_line = raw_id + ' ' + raw_desc
# create a list of lists, each list containing an ID and description
# or just an ID, if description is not present
id_desc_pairs = [re.split(_RE_ID_DESC_PATTERN, x, 1)
- for x in re.split(_RE_ID_DESC_PAIRS_PATTERN, concat_str)]
+ for x in re.split(_RE_ID_DESC_PAIRS_PATTERN, id_desc_line)]
# make sure empty descriptions are added as empty strings
# also, we return lists for compatibility reasons between Py2 and Py3
add_descs = lambda x: x if len(x) == 2 else x + [""]
- return [pair for pair in map(add_descs, id_desc_pairs)]
+ for pair in (add_descs(p) for p in id_desc_pairs):
+ ids.append(pair[0])
+ descs.append(pair[1])
+
+ return (ids, descs, blast_gen_id)
class BlastXmlParser(object):
"""Parser for the BLAST XML format"""
- def __init__(self, handle):
+ def __init__(self, handle, use_raw_query_ids=False, use_raw_hit_ids=False):
self.xml_iter = iter(ElementTree.iterparse(handle, events=('start', 'end')))
+ self._use_raw_query_ids = use_raw_query_ids
+ self._use_raw_hit_ids = use_raw_hit_ids
self._meta, self._fallback = self._parse_preamble()
def __iter__(self):
@@ -290,20 +309,19 @@ class BlastXmlParser(object):
if query_len is None:
query_len = self._fallback['len']
+ blast_query_id = query_id
# handle blast searches against databases with Blast's IDs
# 'Query_' marks the beginning of a BLAST+-generated ID,
# 'lcl|' marks the beginning of a BLAST legacy-generated ID
- if query_id.startswith('Query_') or query_id.startswith('lcl|'):
+ if not self._use_raw_query_ids and \
+ (query_id.startswith('Query_') or query_id.startswith('lcl|')):
# store the Blast-generated query ID
- blast_query_id = query_id
id_desc = query_desc.split(' ', 1)
query_id = id_desc[0]
try:
query_desc = id_desc[1]
except IndexError:
query_desc = ''
- else:
- blast_query_id = ''
hit_list, key_list = [], []
for hit in self._parse_hit(qresult_elem.find('Iteration_hits'),
@@ -311,18 +329,18 @@ class BlastXmlParser(object):
if hit:
# need to keep track of hit IDs, since there could be duplicates,
if hit.id in key_list:
- warnings.warn("Adding hit with BLAST-generated ID "
- "%r since hit ID %r is already present "
- "in query %r. Your BLAST database may contain "
+ warnings.warn("Renaming hit ID %r to a BLAST-generated ID "
+ "%r since the ID was already matched "
+ "by your query %r. Your BLAST database may contain "
"duplicate entries." %
- (hit._blast_id, hit.id, query_id), BiopythonParserWarning)
+ (hit.id, hit.blast_id, query_id), BiopythonParserWarning)
# fallback to Blast-generated IDs, if the ID is already present
# and restore the desc, too
hit.description = '%s %s' % (hit.id, hit.description)
- hit.id = hit._blast_id
+ hit.id = hit.blast_id
# and change the hit_id of the HSPs contained
for hsp in hit:
- hsp.hit_id = hit._blast_id
+ hsp.hit_id = hit.blast_id
else:
key_list.append(hit.id)
@@ -332,7 +350,7 @@ class BlastXmlParser(object):
qresult = QueryResult(hit_list, query_id)
qresult.description = query_desc
qresult.seq_len = int(query_len)
- qresult._blast_id = blast_query_id
+ qresult.blast_id = blast_query_id
for key, value in self._meta.items():
setattr(qresult, key, value)
@@ -390,25 +408,17 @@ class BlastXmlParser(object):
for hit_elem in root_hit_elem:
- # create empty hit object
- hit_id = hit_elem.findtext('Hit_id')
- hit_desc = hit_elem.findtext('Hit_def')
- # handle blast searches against databases with Blast's IDs
- if hit_id.startswith('gnl|BL_ORD_ID|'):
- blast_hit_id = hit_id
- id_desc = hit_desc.split(' ', 1)
- hit_id = id_desc[0]
- try:
- hit_desc = id_desc[1]
- except IndexError:
- hit_desc = ''
+ # BLAST sometimes mangles the sequence IDs and descriptions, so we need
+ # to extract the actual values.
+ raw_hit_id = hit_elem.findtext('Hit_id')
+ raw_hit_desc = hit_elem.findtext('Hit_def')
+ if not self._use_raw_hit_ids:
+ ids, descs, blast_hit_id = _extract_ids_and_descs(raw_hit_id, raw_hit_desc)
else:
- blast_hit_id = ''
+ ids, descs, blast_hit_id = [raw_hit_id], [raw_hit_desc], raw_hit_id
- # combine primary ID and defline first before splitting
- full_id_desc = hit_id + ' ' + hit_desc
- id_descs = _extract_ids_and_descs(full_id_desc)
- hit_id, hit_desc = id_descs[0]
+ hit_id, alt_hit_ids = ids[0], ids[1:]
+ hit_desc, alt_hit_descs = descs[0], descs[1:]
hsps = [hsp for hsp in
self._parse_hsp(hit_elem.find('Hit_hsps'),
@@ -416,10 +426,9 @@ class BlastXmlParser(object):
hit = Hit(hsps)
hit.description = hit_desc
- hit._id_alt = [x[0] for x in id_descs[1:]]
- hit._description_alt = [x[1] for x in id_descs[1:]]
- # blast_hit_id is only set if the hit ID is Blast-generated
- hit._blast_id = blast_hit_id
+ hit._id_alt = alt_hit_ids
+ hit._description_alt = alt_hit_descs
+ hit.blast_id = blast_hit_id
for key, val_info in _ELEM_HIT.items():
value = hit_elem.findtext(key)
@@ -539,10 +548,10 @@ class BlastXmlIndexer(SearchIndexer):
qend_mark = _as_bytes('</Iteration>')
block_size = 16384
- def __init__(self, filename):
+ def __init__(self, filename, **kwargs):
SearchIndexer.__init__(self, filename)
# TODO: better way to do this?
- iter_obj = self._parser(self._handle)
+ iter_obj = self._parser(self._handle, **kwargs)
self._meta, self._fallback = iter_obj._meta, iter_obj._fallback
def __iter__(self):
@@ -723,8 +732,10 @@ class _BlastXmlGenerator(XMLGenerator):
class BlastXmlWriter(object):
"""Stream-based BLAST+ XML Writer."""
- def __init__(self, handle):
+ def __init__(self, handle, use_raw_query_ids=True, use_raw_hit_ids=True):
self.xml = _BlastXmlGenerator(handle, 'utf-8')
+ self._use_raw_query_ids = use_raw_query_ids
+ self._use_raw_hit_ids = use_raw_hit_ids
def write_file(self, qresults):
"""Writes the XML contents to the output handle."""
@@ -796,9 +807,9 @@ class BlastXmlWriter(object):
if elem == 'BlastOutput_version':
content = '%s %s' % (qresult.program.upper(),
qresult.version)
- elif qresult._blast_id:
+ elif qresult.blast_id:
if elem == 'BlastOutput_query-ID':
- content = qresult._blast_id
+ content = qresult.blast_id
elif elem == 'BlastOutput_query-def':
content = ' '.join([qresult.id,
qresult.description]).strip()
@@ -819,14 +830,17 @@ class BlastXmlWriter(object):
xml.startParent('Iteration')
xml.simpleElement('Iteration_iter-num', str(num + 1))
opt_dict = {}
- # use custom Iteration_query-ID and Iteration_query-def mapping
- # if the query has a BLAST-generated ID
- if qresult._blast_id:
- opt_dict = {
- 'Iteration_query-ID': qresult._blast_id,
- 'Iteration_query-def': ' '.join([qresult.id,
- qresult.description]).strip(),
- }
+ if self._use_raw_query_ids:
+ query_id = qresult.blast_id
+ query_desc = qresult.id + ' ' + qresult.description
+ else:
+ query_id = qresult.id
+ query_desc = qresult.description
+
+ opt_dict = {
+ 'Iteration_query-ID': query_id,
+ 'Iteration_query-def': query_desc,
+ }
self._write_elem_block('Iteration_', 'qresult', qresult, opt_dict)
# the Iteration_hits tag only has children if there are hits
if qresult:
@@ -856,11 +870,22 @@ class BlastXmlWriter(object):
# use custom hit_id and hit_def mapping if the hit has a
# BLAST-generated ID
opt_dict = {}
- if hit._blast_id:
- opt_dict = {
- 'Hit_id': hit._blast_id,
- 'Hit_def': ' '.join([hit.id, hit.description]).strip(),
- }
+
+ if self._use_raw_hit_ids:
+ hit_id = hit.blast_id
+ hit_desc = ' >'.join(
+ ['{} {}'.format(x, y)
+ for x, y in zip(hit.id_all, hit.description_all)])
+ else:
+ hit_id = hit.id
+ hit_desc = hit.description + ' >'.join(
+ ['{} {}'.format(x, y)
+ for x, y in zip(hit.id_all[1:], hit.description_all[1:])])
+
+ opt_dict = {
+ 'Hit_id': hit_id,
+ 'Hit_def': hit_desc,
+ }
self._write_elem_block('Hit_', 'hit', hit, opt_dict)
xml.startParent('Hit_hsps')
self._write_hsps(hit.hsps)
@@ -890,7 +915,6 @@ class BlastXmlWriter(object):
def _adjust_output(self, hsp, elem, attr):
"""Adjusts output to mimic native BLAST+ XML as much as possible."""
-
# adjust coordinates
if attr in ('query_start', 'query_end', 'hit_start', 'hit_end',
'pattern_start', 'pattern_end'):
diff --git a/Bio/SearchIO/BlatIO.py b/Bio/SearchIO/BlatIO.py
index e2314a7..2dccd0d 100644
--- a/Bio/SearchIO/BlatIO.py
+++ b/Bio/SearchIO/BlatIO.py
@@ -190,7 +190,7 @@ from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
-__all__ = ['BlatPslParser', 'BlatPslIndexer', 'BlatPslWriter']
+__all__ = ('BlatPslParser', 'BlatPslIndexer', 'BlatPslWriter')
# precompile regex patterns
@@ -302,13 +302,15 @@ def _create_hsp(hid, qid, psl):
except IndexError:
hstrand = 1 # hit strand defaults to plus
+ blocksize_multiplier = 3 if is_protein else 1
# query block starts
qstarts = _reorient_starts(psl['qstarts'],
psl['blocksizes'], psl['qsize'], qstrand)
# hit block starts
if len(psl['strand']) == 2:
hstarts = _reorient_starts(psl['tstarts'],
- psl['blocksizes'], psl['tsize'], hstrand)
+ [blocksize_multiplier * i for i in psl['blocksizes']],
+ psl['tsize'], hstrand)
else:
hstarts = psl['tstarts']
# set query and hit coords
@@ -316,7 +318,7 @@ def _create_hsp(hid, qid, psl):
assert len(qstarts) == len(hstarts) == len(psl['blocksizes'])
query_range_all = list(zip(qstarts, [x + y for x, y in
zip(qstarts, psl['blocksizes'])]))
- hit_range_all = list(zip(hstarts, [x + y for x, y in
+ hit_range_all = list(zip(hstarts, [x + y * blocksize_multiplier for x, y in
zip(hstarts, psl['blocksizes'])]))
# check length of sequences and coordinates, all must match
if 'tseqs' in psl and 'qseqs' in psl:
@@ -353,7 +355,8 @@ def _create_hsp(hid, qid, psl):
assert hsp.hit_start == psl['tstart']
assert hsp.hit_end == psl['tend']
# and check block spans as well
- assert hsp.query_span_all == hsp.hit_span_all == psl['blocksizes']
+ hit_spans = [span / blocksize_multiplier for span in hsp.hit_span_all]
+ assert hit_spans == hsp.query_span_all == psl['blocksizes']
# set its attributes
hsp.match_num = psl['matches']
hsp.mismatch_num = psl['mismatches']
@@ -377,7 +380,6 @@ def _create_hsp(hid, qid, psl):
class BlatPslParser(object):
-
"""Parser for the BLAT PSL format."""
def __init__(self, handle, pslx=False):
@@ -515,7 +517,6 @@ class BlatPslParser(object):
class BlatPslIndexer(SearchIndexer):
-
"""Indexer class for BLAT PSL output."""
_parser = BlatPslParser
@@ -530,7 +531,7 @@ class BlatPslIndexer(SearchIndexer):
# denotes column location for query identifier
query_id_idx = 9
qresult_key = None
- tab_char = _as_bytes('\t')
+ tab_char = b"\t"
start_offset = handle.tell()
line = handle.readline()
@@ -570,8 +571,8 @@ class BlatPslIndexer(SearchIndexer):
handle.seek(offset)
query_id_idx = 9
qresult_key = None
- qresult_raw = _as_bytes('')
- tab_char = _as_bytes('\t')
+ qresult_raw = b""
+ tab_char = b"\t"
while True:
line = handle.readline()
@@ -590,7 +591,6 @@ class BlatPslIndexer(SearchIndexer):
class BlatPslWriter(object):
-
"""Writer for the blat-psl format."""
def __init__(self, handle, header=False, pslx=False):
@@ -642,6 +642,9 @@ class BlatPslWriter(object):
for hit in qresult:
for hsp in hit.hsps:
+ query_is_protein = getattr(hsp, "query_is_protein", False)
+ blocksize_multiplier = 3 if query_is_protein else 1
+
line = []
line.append(hsp.match_num)
line.append(hsp.mismatch_num)
@@ -653,7 +656,9 @@ class BlatPslWriter(object):
line.append(hsp.hit_gap_num)
# check spans
- assert hsp.query_span_all == hsp.hit_span_all
+ eff_query_spans = [blocksize_multiplier * s for s in hsp.query_span_all]
+ if hsp.hit_span_all != eff_query_spans:
+ raise ValueError("HSP hit span and query span values do not match.")
block_sizes = hsp.query_span_all
# set strand and starts
diff --git a/Bio/SearchIO/ExonerateIO/_base.py b/Bio/SearchIO/ExonerateIO/_base.py
index 17f6d06..a42949b 100644
--- a/Bio/SearchIO/ExonerateIO/_base.py
+++ b/Bio/SearchIO/ExonerateIO/_base.py
@@ -6,6 +6,7 @@
"""Bio.SearchIO abstract base parser for Exonerate standard output format."""
import re
+from functools import reduce
from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
@@ -26,40 +27,129 @@ def _set_frame(frag):
frag.query_frame = (frag.query_start % 3 + 1) * frag.query_strand
-def _make_triplets(seq):
- """Splits a string into a list containing triplets of the original
- string."""
- return [seq[3 * i:3 * (i + 1)] for i in range(len(seq) // 3)]
+def _make_triplets(seq, phase=0):
+ """Selects a valid amino acid sequence given a 3-letter code input.
+
+ This function takes a single three-letter amino acid sequence and the phase
+ of the sequence to return the longest intact amino acid sequence possible.
+ Parts of the input sequence before and after the selected sequence are also
+ returned.
+
+ This is an internal private function and is meant for parsing Exonerate's
+ three-letter amino acid output.
+
+ >>> from Bio.SearchIO.ExonerateIO._base import _make_triplets
+ >>> _make_triplets('GlyThrSerAlaPro')
+ ('', ['Gly', 'Thr', 'Ser', 'Ala', 'Pro'], '')
+ >>> _make_triplets('yThSerAla', phase=1)
+ ('y', ['Thr', 'Ser', 'Ala'], '')
+ >>> _make_triplets('yThSerAlaPr', phase=1)
+ ('y', ['Thr', 'Ser', 'Ala'], 'Pr')
+
+ """
+ pre = seq[:phase]
+ np_seq = seq[phase:]
+ non_triplets = len(np_seq) % 3
+ post = "" if not non_triplets else np_seq[-1 * non_triplets:]
+ intacts = [np_seq[3 * i:3 * (i + 1)]
+ for i in range(len(np_seq) // 3)]
+ return pre, intacts, post
+
+
+def _get_fragments_coord(frags):
+ """Returns the letter coordinate of the given list of fragments.
+
+ This function takes a list of three-letter amino acid sequences and
+ returns a list of coordinates for each fragment had all the input
+ sequences been flattened.
+
+ This is an internal private function and is meant for parsing Exonerate's
+ three-letter amino acid output.
+
+ >>> from Bio.SearchIO.ExonerateIO._base import _get_fragments_coord
+ >>> _get_fragments_coord(['Thr', 'Ser', 'Ala'])
+ [0, 3, 6]
+ >>> _get_fragments_coord(['Thr', 'SerAlaPro', 'GlyLeu'])
+ [0, 3, 12, ]
+ >>> _get_fragments_coord(['Thr', 'SerAlaPro', 'GlyLeu', 'Cys'])
+ [0, 3, 12, 18]
+
+ """
+ if not frags:
+ return []
+ # first fragment always starts from position 0
+ init = [0]
+ return reduce(lambda acc, frag: acc + [acc[-1] + len(frag)],
+ frags[:-1], init)
+
+
+def _get_fragments_phase(frags):
+ """Returns the phases of the given list of 3-letter amino acid fragments.
+
+ This is an internal private function and is meant for parsing Exonerate's
+ three-letter amino acid output.
+
+ >>> from Bio.SearchIO.ExonerateIO._base import _get_fragments_phase
+ >>> _get_fragments_phase(['Thr', 'Ser', 'Ala'])
+ [0, 0, 0]
+ >>> _get_fragments_phase(['ThrSe', 'rAla'])
+ [0, 1]
+ >>> _get_fragments_phase(['ThrSe', 'rAlaLeu', 'ProCys'])
+ [0, 1, 0]
+ >>> _get_fragments_phase(['ThrSe', 'rAlaLeuP', 'roCys'])
+ [0, 1, 2]
+ >>> _get_fragments_phase(['ThrSe', 'rAlaLeuPr', 'oCys'])
+ [0, 1, 1]
+
+ """
+ return [(3 - (x % 3)) % 3 for x in _get_fragments_coord(frags)]
def _adjust_aa_seq(fraglist):
"""Transforms three-letter amino acid codes into one-letters in the
- given HSPFragments."""
+ given HSPFragments.
+ """
+ custom_map = {'***': '*', '<->': '-'}
hsp_hstart = fraglist[0].hit_start
hsp_qstart = fraglist[0].query_start
- for frag in fraglist:
+ frag_phases = _get_fragments_phase(fraglist)
+ for frag, phase in zip(fraglist, frag_phases):
assert frag.query_strand == 0 or frag.hit_strand == 0
- # fragment should have a length that is a multiple of 3
- assert len(frag) % 3 == 0
# hit step may be -1 as we're aligning to DNA
hstep = 1 if frag.hit_strand >= 0 else -1
+
+ # set fragment phase
+ frag.phase = phase
+
+ # fragment should have a length that is a multiple of 3
+ # assert len(frag) % 3 == 0
+ qseq = str(frag.query.seq)
+ q_triplets_pre, q_triplets, q_triplets_post = \
+ _make_triplets(qseq, phase)
+
+ hseq = str(frag.hit.seq)
+ h_triplets_pre, h_triplets, h_triplets_post = \
+ _make_triplets(hseq, phase)
+
# get one letter codes
# and replace gap codon markers and termination characters
- custom_map = {'***': '*', '<->': '-'}
-
- hseq1 = seq1(str(frag.hit.seq), custom_map=custom_map)
- hstart = hsp_hstart
+ hseq1_pre = "X" if h_triplets_pre else ""
+ hseq1_post = "X" if h_triplets_post else ""
+ hseq1 = seq1("".join(h_triplets), custom_map=custom_map)
+ hstart = hsp_hstart + (len(hseq1_pre) * hstep)
hend = hstart + len(hseq1.replace('-', '')) * hstep
- qseq1 = seq1(str(frag.query.seq), custom_map=custom_map)
- qstart = hsp_qstart
+ qseq1_pre = "X" if q_triplets_pre else ""
+ qseq1_post = "X" if q_triplets_post else ""
+ qseq1 = seq1("".join(q_triplets), custom_map=custom_map)
+ qstart = hsp_qstart + len(qseq1_pre)
qend = qstart + len(qseq1.replace('-', ''))
# replace the old frag sequences with the new ones
frag.hit = None
frag.query = None
- frag.hit = hseq1
- frag.query = qseq1
+ frag.hit = hseq1_pre + hseq1 + hseq1_post
+ frag.query = qseq1_pre + qseq1 + qseq1_post
# set coordinates for the protein sequence
if frag.query_strand == 0:
@@ -70,7 +160,9 @@ def _adjust_aa_seq(fraglist):
# update alignment annotation
# by turning them into list of triplets
for annot, annotseq in frag.aln_annotation.items():
- frag.aln_annotation[annot] = _make_triplets(annotseq)
+ pre, intact, post = _make_triplets(annotseq, phase)
+ frag.aln_annotation[annot] = \
+ list(filter(None, [pre])) + intact + list(filter(None, [post]))
# update values for next iteration
hsp_hstart, hsp_qstart = hend, qend
@@ -209,7 +301,6 @@ def _parse_hit_or_query_line(line):
class _BaseExonerateParser(object):
-
"""Abstract iterator for exonerate format."""
_ALN_MARK = None
@@ -393,7 +484,6 @@ class _BaseExonerateParser(object):
class _BaseExonerateIndexer(SearchIndexer):
-
"""Indexer class for Exonerate plain text."""
_parser = None # should be defined by subclass
diff --git a/Bio/SearchIO/ExonerateIO/exonerate_cigar.py b/Bio/SearchIO/ExonerateIO/exonerate_cigar.py
index 1578e28..251940f 100644
--- a/Bio/SearchIO/ExonerateIO/exonerate_cigar.py
+++ b/Bio/SearchIO/ExonerateIO/exonerate_cigar.py
@@ -7,13 +7,13 @@
import re
-from Bio._py3k import _as_bytes, _bytes_to_string
+from Bio._py3k import _bytes_to_string
from ._base import _BaseExonerateParser, _STRAND_MAP
from .exonerate_vulgar import ExonerateVulgarIndexer
-__all__ = ['ExonerateCigarParser', 'ExonerateCigarIndexer']
+__all__ = ('ExonerateCigarParser', 'ExonerateCigarIndexer')
# precompile regex
@@ -25,7 +25,6 @@ _RE_CIGAR = re.compile(r"""^cigar:\s+
class ExonerateCigarParser(_BaseExonerateParser):
-
"""Parser for Exonerate cigar strings."""
_ALN_MARK = 'cigar'
@@ -85,11 +84,10 @@ class ExonerateCigarParser(_BaseExonerateParser):
class ExonerateCigarIndexer(ExonerateVulgarIndexer):
-
"""Indexer class for exonerate cigar lines."""
_parser = ExonerateCigarParser
- _query_mark = _as_bytes('cigar')
+ _query_mark = b"cigar"
def get_qresult_id(self, pos):
"""Returns the query ID of the nearest cigar line."""
diff --git a/Bio/SearchIO/ExonerateIO/exonerate_text.py b/Bio/SearchIO/ExonerateIO/exonerate_text.py
index 85d0b0a..2812899 100644
--- a/Bio/SearchIO/ExonerateIO/exonerate_text.py
+++ b/Bio/SearchIO/ExonerateIO/exonerate_text.py
@@ -8,7 +8,7 @@
import re
from itertools import chain
-from Bio._py3k import _as_bytes, _bytes_to_string
+from Bio._py3k import _bytes_to_string
from Bio._py3k import zip
@@ -19,7 +19,7 @@ from ._base import _BaseExonerateParser, _BaseExonerateIndexer, _STRAND_MAP, \
from .exonerate_vulgar import _RE_VULGAR
-__all__ = ['ExonerateTextParser', 'ExonerateTextIndexer']
+__all__ = ('ExonerateTextParser', 'ExonerateTextIndexer')
# for capturing sequences in alignment blocks
@@ -78,7 +78,8 @@ def _get_block_coords(parsed_seq, row_dict, has_ner=False):
def _get_inter_coords(coords, strand=1):
"""From the given pairs of coordinates, returns a list of pairs
- covering the intervening ranges."""
+ covering the intervening ranges.
+ """
# adapted from Python's itertools guide
# if strand is -1, adjust coords to the ends and starts are chained
if strand == -1:
@@ -188,7 +189,8 @@ def _get_blocks(rows, coords, idx):
def _get_scodon_moves(tmp_seq_blocks):
"""Returns a dictionary of split codon locations relative to each
- fragment's end"""
+ fragment's end.
+ """
scodon_moves = {'query': [], 'hit': []}
for seq_type in scodon_moves:
scoords = []
@@ -289,7 +291,8 @@ def _comp_coords(hsp, seq_type, inter_lens):
def _comp_split_codons(hsp, seq_type, scodon_moves):
"""Computes the positions of split codons and puts the values in the given
- HSP dictionary."""
+ HSP dictionary.
+ """
scodons = []
for idx in range(len(scodon_moves[seq_type])):
pair = scodon_moves[seq_type][idx]
@@ -315,7 +318,6 @@ def _comp_split_codons(hsp, seq_type, scodon_moves):
class ExonerateTextParser(_BaseExonerateParser):
-
"""Parser for Exonerate plain text output."""
_ALN_MARK = 'C4 Alignment:'
@@ -476,17 +478,16 @@ class ExonerateTextParser(_BaseExonerateParser):
class ExonerateTextIndexer(_BaseExonerateIndexer):
-
"""Indexer class for Exonerate plain text."""
_parser = ExonerateTextParser
- _query_mark = _as_bytes('C4 Alignment')
+ _query_mark = b"C4 Alignment"
def get_qresult_id(self, pos):
"""Returns the query ID from the nearest "Query:" line."""
handle = self._handle
handle.seek(pos)
- sentinel = _as_bytes('Query:')
+ sentinel = b"Query:"
while True:
line = handle.readline().strip()
@@ -503,7 +504,7 @@ class ExonerateTextIndexer(_BaseExonerateIndexer):
handle = self._handle
handle.seek(offset)
qresult_key = None
- qresult_raw = _as_bytes('')
+ qresult_raw = b""
while True:
line = handle.readline()
diff --git a/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py b/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py
index da8edf8..610f71f 100644
--- a/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py
+++ b/Bio/SearchIO/ExonerateIO/exonerate_vulgar.py
@@ -13,7 +13,7 @@ from Bio._py3k import zip
from ._base import _BaseExonerateParser, _BaseExonerateIndexer, _STRAND_MAP
-__all__ = ['ExonerateVulgarParser', 'ExonerateVulgarIndexer']
+__all__ = ('ExonerateVulgarParser', 'ExonerateVulgarIndexer')
# precompile regex
@@ -109,7 +109,6 @@ def parse_vulgar_comp(hsp, vulgar_comp):
class ExonerateVulgarParser(_BaseExonerateParser):
-
"""Parser for Exonerate vulgar strings."""
_ALN_MARK = 'vulgar'
@@ -162,7 +161,6 @@ class ExonerateVulgarParser(_BaseExonerateParser):
class ExonerateVulgarIndexer(_BaseExonerateIndexer):
-
"""Indexer class for exonerate vulgar lines."""
_parser = ExonerateVulgarParser
diff --git a/Bio/SearchIO/FastaIO.py b/Bio/SearchIO/FastaIO.py
index e0d88dd..6d7f440 100644
--- a/Bio/SearchIO/FastaIO.py
+++ b/Bio/SearchIO/FastaIO.py
@@ -114,7 +114,7 @@ from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
-__all__ = ['FastaM10Parser', 'FastaM10Indexer']
+__all__ = ('FastaM10Parser', 'FastaM10Indexer')
# precompile regex patterns
@@ -390,6 +390,10 @@ class FastaM10Parser(object):
state = _STATE_NONE
strand = None
hsp_list = []
+ hsp = None
+ parsed_hsp = None
+ hit_desc = None
+ seq_len = None
while True:
peekline = self.handle.peekline()
# yield hit if we've reached the start of a new query or
@@ -521,7 +525,7 @@ class FastaM10Indexer(SearchIndexer):
handle.seek(0)
start_offset = handle.tell()
qresult_key = None
- query_mark = _as_bytes('>>>')
+ query_mark = b">>>"
while True:
line = handle.readline()
@@ -534,8 +538,7 @@ class FastaM10Indexer(SearchIndexer):
start_offset = end_offset - len(line)
# yield whenever we encounter a new query or at the end of the file
if qresult_key is not None:
- if (not peekline.startswith(query_mark) and
- query_mark in peekline) or not line:
+ if (not peekline.startswith(query_mark) and query_mark in peekline) or not line:
yield qresult_key, start_offset, end_offset - start_offset
if not line:
break
@@ -544,8 +547,8 @@ class FastaM10Indexer(SearchIndexer):
def get_raw(self, offset):
"""Return the raw record from the file as a bytes string."""
handle = self._handle
- qresult_raw = _as_bytes('')
- query_mark = _as_bytes('>>>')
+ qresult_raw = b""
+ query_mark = b">>>"
# read header first
handle.seek(0)
@@ -570,7 +573,7 @@ class FastaM10Indexer(SearchIndexer):
break
# append mock end marker to qresult_raw, since it's not always present
- return qresult_raw + _as_bytes('>>><<<\n')
+ return qresult_raw + b">>><<<\n"
# if not used as a module, run the doctest
diff --git a/Bio/SearchIO/HmmerIO/_base.py b/Bio/SearchIO/HmmerIO/_base.py
index bd396d0..45da450 100644
--- a/Bio/SearchIO/HmmerIO/_base.py
+++ b/Bio/SearchIO/HmmerIO/_base.py
@@ -5,22 +5,20 @@
"""Bio.SearchIO base classes for HMMER-related code."""
-from Bio._py3k import _as_bytes
from Bio.SearchIO._index import SearchIndexer
class _BaseHmmerTextIndexer(SearchIndexer):
-
"""Base indexer class for HMMER plain text output."""
def __init__(self, *args, **kwargs):
super(_BaseHmmerTextIndexer, self).__init__(*args, **kwargs)
- self._preamble = _as_bytes('')
+ self._preamble = b""
def get_raw(self, offset):
"""Return the raw record from the file as a bytes string."""
handle = self._handle
- qresult_raw = _as_bytes('')
+ qresult_raw = b""
# read header first
if not self._preamble:
diff --git a/Bio/SearchIO/HmmerIO/hmmer2_text.py b/Bio/SearchIO/HmmerIO/hmmer2_text.py
index 54e20e2..3c3fa09 100644
--- a/Bio/SearchIO/HmmerIO/hmmer2_text.py
+++ b/Bio/SearchIO/HmmerIO/hmmer2_text.py
@@ -14,7 +14,7 @@ from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
from ._base import _BaseHmmerTextIndexer
-__all__ = ['Hmmer2TextParser', 'Hmmer2TextIndexer']
+__all__ = ('Hmmer2TextParser', 'Hmmer2TextIndexer')
_HSP_ALIGN_LINE = re.compile(r'(\S+):\s+domain (\d+) of (\d+)')
@@ -136,7 +136,6 @@ class Hmmer2TextParser(object):
def parse_hits(self):
"""Parse a HMMER2 hit block, beginning with the hit table."""
-
hit_placeholders = []
while self.read_next():
if self.line.startswith('Parsed'):
@@ -302,7 +301,6 @@ class Hmmer2TextParser(object):
class Hmmer2TextIndexer(_BaseHmmerTextIndexer):
-
"""Indexer for hmmer2-text format."""
_parser = Hmmer2TextParser
@@ -343,6 +341,7 @@ class Hmmer2TextIndexer(_BaseHmmerTextIndexer):
line = read_forward(handle)
+
# if not used as a module, run the doctest
if __name__ == "__main__":
from Bio._utils import run_doctest
diff --git a/Bio/SearchIO/HmmerIO/hmmer3_domtab.py b/Bio/SearchIO/HmmerIO/hmmer3_domtab.py
index de3ce51..845d1e0 100644
--- a/Bio/SearchIO/HmmerIO/hmmer3_domtab.py
+++ b/Bio/SearchIO/HmmerIO/hmmer3_domtab.py
@@ -14,7 +14,6 @@ from .hmmer3_tab import Hmmer3TabParser, Hmmer3TabIndexer
class Hmmer3DomtabParser(Hmmer3TabParser):
-
"""Base hmmer3-domtab iterator."""
def _parse_row(self):
@@ -89,7 +88,8 @@ class Hmmer3DomtabParser(Hmmer3TabParser):
# dummies for initial parsed value containers
cur, prev = None, None
hit_list, hsp_list = [], []
-
+ cur_qid = None
+ cur_hid = None
while True:
# store previous line's parsed values, for every line after the 1st
if cur is not None:
@@ -152,43 +152,43 @@ class Hmmer3DomtabParser(Hmmer3TabParser):
class Hmmer3DomtabHmmhitParser(Hmmer3DomtabParser):
-
"""Parser for the HMMER domain table format that assumes HMM profile
- coordinates are hit coordinates."""
+ coordinates are hit coordinates.
+ """
hmm_as_hit = True
class Hmmer3DomtabHmmqueryParser(Hmmer3DomtabParser):
-
"""Parser for the HMMER domain table format that assumes HMM profile
- coordinates are query coordinates."""
+ coordinates are query coordinates.
+ """
hmm_as_hit = False
class Hmmer3DomtabHmmhitIndexer(Hmmer3TabIndexer):
-
"""Indexer class for HMMER domain table output that assumes HMM profile
- coordinates are hit coordinates."""
+ coordinates are hit coordinates.
+ """
_parser = Hmmer3DomtabHmmhitParser
_query_id_idx = 3
class Hmmer3DomtabHmmqueryIndexer(Hmmer3TabIndexer):
-
"""Indexer class for HMMER domain table output that assumes HMM profile
- coordinates are query coordinates."""
+ coordinates are query coordinates.
+ """
_parser = Hmmer3DomtabHmmqueryParser
_query_id_idx = 3
class Hmmer3DomtabHmmhitWriter(object):
-
"""Writer for hmmer3-domtab output format which writes hit coordinates
- as HMM profile coordinates."""
+ as HMM profile coordinates.
+ """
hmm_as_hit = True
@@ -224,7 +224,6 @@ class Hmmer3DomtabHmmhitWriter(object):
def _build_header(self, first_qresult=None):
"""Returns the header string of a domain HMMER table output."""
-
# calculate whitespace required
# adapted from HMMER's source: src/p7_tophits.c#L1157
if first_qresult:
@@ -309,9 +308,9 @@ class Hmmer3DomtabHmmhitWriter(object):
class Hmmer3DomtabHmmqueryWriter(Hmmer3DomtabHmmhitWriter):
-
"""Writer for hmmer3-domtab output format which writes query coordinates
- as HMM profile coordinates."""
+ as HMM profile coordinates.
+ """
hmm_as_hit = False
diff --git a/Bio/SearchIO/HmmerIO/hmmer3_tab.py b/Bio/SearchIO/HmmerIO/hmmer3_tab.py
index 44e0062..3c489a1 100644
--- a/Bio/SearchIO/HmmerIO/hmmer3_tab.py
+++ b/Bio/SearchIO/HmmerIO/hmmer3_tab.py
@@ -13,11 +13,10 @@ from Bio.SearchIO._index import SearchIndexer
from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
-__all__ = ['Hmmer3TabParser', 'Hmmer3TabIndexer', 'Hmmer3TabWriter']
+__all__ = ('Hmmer3TabParser', 'Hmmer3TabIndexer', 'Hmmer3TabWriter')
class Hmmer3TabParser(object):
-
"""Parser for the HMMER table format."""
def __init__(self, handle):
@@ -90,7 +89,7 @@ class Hmmer3TabParser(object):
cur, prev = None, None
# container for Hit objects, used to create QueryResult
hit_list = []
-
+ cur_qid = None
while True:
# store previous line's parsed values for all lines after the first
if cur is not None:
@@ -147,7 +146,6 @@ class Hmmer3TabParser(object):
class Hmmer3TabIndexer(SearchIndexer):
-
"""Indexer class for HMMER table output."""
_parser = Hmmer3TabParser
@@ -222,7 +220,6 @@ class Hmmer3TabIndexer(SearchIndexer):
class Hmmer3TabWriter(object):
-
"""Writer for hmmer3-tab output format."""
def __init__(self, handle):
@@ -257,7 +254,6 @@ class Hmmer3TabWriter(object):
def _build_header(self, first_qresult=None):
"""Returns the header string of a HMMER table output."""
-
# calculate whitespace required
# adapted from HMMER's source: src/p7_tophits.c#L1083
if first_qresult is not None:
diff --git a/Bio/SearchIO/HmmerIO/hmmer3_text.py b/Bio/SearchIO/HmmerIO/hmmer3_text.py
index a49478e..ec9caff 100644
--- a/Bio/SearchIO/HmmerIO/hmmer3_text.py
+++ b/Bio/SearchIO/HmmerIO/hmmer3_text.py
@@ -14,7 +14,7 @@ from Bio.SearchIO._model import QueryResult, Hit, HSP, HSPFragment
from ._base import _BaseHmmerTextIndexer
-__all__ = ['Hmmer3TextParser', 'Hmmer3TextIndexer']
+__all__ = ('Hmmer3TextParser', 'Hmmer3TextIndexer')
# precompile regex patterns for faster processing
@@ -35,7 +35,6 @@ _HRE_ID_LINE = re.compile(r'^(\s+\S+\s+[0-9-]+ )(.+?)(\s+[0-9-]+)')
class Hmmer3TextParser(object):
-
"""Parser for the HMMER 3.0 text output."""
def __init__(self, handle):
@@ -99,13 +98,17 @@ class Hmmer3TextParser(object):
def _parse_qresult(self):
"""Parses a HMMER3 query block."""
-
self._read_until(lambda line: line.startswith('Query:'))
while self.line:
- # get query id and length
regx = re.search(_QRE_ID_LEN, self.line)
+
+ while not regx:
+ self.line = read_forward(self.handle)
+ regx = re.search(_QRE_ID_LEN, self.line)
+
+ # get query id and length
qid = regx.group(1).strip()
# store qresult attributes
qresult_attrs = {
@@ -147,7 +150,7 @@ class Hmmer3TextParser(object):
# Skip line beginning with '# Alignment of', which are output
# when running phmmer with the '-A' flag.
- if self.line.startswith('# Alignment of'):
+ if self.line.startswith('#'):
self.line = self.handle.readline()
# HMMER >= 3.1 outputs '[ok]' at the end of all results file,
@@ -394,7 +397,6 @@ class Hmmer3TextParser(object):
class Hmmer3TextIndexer(_BaseHmmerTextIndexer):
-
"""Indexer class for HMMER plain text output."""
_parser = Hmmer3TextParser
@@ -423,6 +425,7 @@ class Hmmer3TextIndexer(_BaseHmmerTextIndexer):
elif not line:
break
+
# if not used as a module, run the doctest
if __name__ == "__main__":
from Bio._utils import run_doctest
diff --git a/Bio/SearchIO/__init__.py b/Bio/SearchIO/__init__.py
index 78cbd01..60326f0 100755
--- a/Bio/SearchIO/__init__.py
+++ b/Bio/SearchIO/__init__.py
@@ -211,7 +211,7 @@ warnings.warn('Bio.SearchIO is an experimental submodule which may undergo '
BiopythonExperimentalWarning)
-__all__ = ['read', 'parse', 'to_dict', 'index', 'index_db', 'write', 'convert']
+__all__ = ('read', 'parse', 'to_dict', 'index', 'index_db', 'write', 'convert')
# dictionary of supported formats for parse() and read()
diff --git a/Bio/SearchIO/_index.py b/Bio/SearchIO/_index.py
index 613cdde..37cdfbf 100644
--- a/Bio/SearchIO/_index.py
+++ b/Bio/SearchIO/_index.py
@@ -1,8 +1,10 @@
# Copyright 2012 by Wibowo Arindrarto. All rights reserved.
-# All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+# Revisions copyright 2012-2016 by Peter Cock. All rights reserved.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
"""Custom indexing for Bio.SearchIO objects."""
diff --git a/Bio/SearchIO/_model/__init__.py b/Bio/SearchIO/_model/__init__.py
index ecd90cc..3814694 100644
--- a/Bio/SearchIO/_model/__init__.py
+++ b/Bio/SearchIO/_model/__init__.py
@@ -49,7 +49,7 @@ from .hit import Hit
from .hsp import HSP, HSPFragment
-__all__ = ['QueryResult', 'Hit', 'HSP', 'HSPFragment']
+__all__ = ('QueryResult', 'Hit', 'HSP', 'HSPFragment')
# if not used as a module, run the doctest
diff --git a/Bio/SearchIO/_model/_base.py b/Bio/SearchIO/_model/_base.py
index 260ecdb..0cda92a 100644
--- a/Bio/SearchIO/_model/_base.py
+++ b/Bio/SearchIO/_model/_base.py
@@ -10,7 +10,6 @@ from Bio._utils import getattr_str, trim_str
class _BaseSearchObject(object):
-
"""Abstract class for SearchIO objects."""
_NON_STICKY_ATTRS = ()
@@ -36,7 +35,6 @@ class _BaseSearchObject(object):
class _BaseHSP(_BaseSearchObject):
-
"""Abstract base class for HSP objects."""
def _str_hsp_header(self):
diff --git a/Bio/SearchIO/_model/hit.py b/Bio/SearchIO/_model/hit.py
index 006322a..a546df2 100644
--- a/Bio/SearchIO/_model/hit.py
+++ b/Bio/SearchIO/_model/hit.py
@@ -19,7 +19,6 @@ from .hsp import HSP
class Hit(_BaseSearchObject):
-
"""Class representing a single database hit of a search result.
Hit objects are the second-level container in the SearchIO module. They
diff --git a/Bio/SearchIO/_model/hsp.py b/Bio/SearchIO/_model/hsp.py
index e87e617..65c4f86 100644
--- a/Bio/SearchIO/_model/hsp.py
+++ b/Bio/SearchIO/_model/hsp.py
@@ -25,7 +25,6 @@ from ._base import _BaseHSP
class HSP(_BaseHSP):
-
"""Class representing high-scoring region(s) between query and hit.
HSP (high-scoring pair) objects are contained by Hit objects (see Hit).
@@ -246,6 +245,7 @@ class HSP(_BaseHSP):
.. [1] may be used in HSPs with multiple fragments
"""
+
# attributes we don't want to transfer when creating a new Hit class
# from this one
_NON_STICKY_ATTRS = ('_items', )
@@ -629,7 +629,6 @@ class HSP(_BaseHSP):
class HSPFragment(_BaseHSP):
-
"""Class representing a contiguous alignment of hit-query sequence.
HSPFragment forms the core of any parsed search output file. Depending on
diff --git a/Bio/SearchIO/_model/query.py b/Bio/SearchIO/_model/query.py
index 0839998..35b61be 100644
--- a/Bio/SearchIO/_model/query.py
+++ b/Bio/SearchIO/_model/query.py
@@ -6,13 +6,13 @@
"""Bio.SearchIO object to model search results from a single query."""
from __future__ import print_function
-from Bio._py3k import basestring
from copy import deepcopy
from itertools import chain
+from collections import OrderedDict
-from Bio._py3k import OrderedDict
from Bio._py3k import filter
+from Bio._py3k import basestring
from Bio._utils import trim_str
from Bio.SearchIO._utils import optionalcascade
@@ -22,7 +22,6 @@ from .hit import Hit
class QueryResult(_BaseSearchObject):
-
"""Class representing search results from a single query.
QueryResult is the container object that stores all search hits from a
@@ -185,8 +184,7 @@ class QueryResult(_BaseSearchObject):
# from this one
_NON_STICKY_ATTRS = ('_items', '__alt_hit_ids', )
- def __init__(self, hits=(), id=None,
- hit_key_function=lambda hit: hit.id):
+ def __init__(self, hits=(), id=None, hit_key_function=None):
"""Initializes a QueryResult object.
:param id: query sequence ID
@@ -199,7 +197,7 @@ class QueryResult(_BaseSearchObject):
"""
# default values
self._id = id
- self._hit_key_function = hit_key_function
+ self._hit_key_function = hit_key_function or _hit_key_func
self._items = OrderedDict()
self._description = None
self.__alt_hit_ids = {}
@@ -436,7 +434,7 @@ class QueryResult(_BaseSearchObject):
del self.__alt_hit_ids[key]
deleted = True
if not deleted:
- raise KeyError('%r'.format(key))
+ raise KeyError(repr(key))
return
# properties #
@@ -764,6 +762,11 @@ class QueryResult(_BaseSearchObject):
return obj
+def _hit_key_func(hit):
+ """Default hit key function for QueryResult.__init__ (PRIVATE)."""
+ return hit.id
+
+
# if not used as a module, run the doctest
if __name__ == "__main__":
from Bio._utils import run_doctest
diff --git a/Bio/SearchIO/_utils.py b/Bio/SearchIO/_utils.py
index 4e442e2..66ce480 100644
--- a/Bio/SearchIO/_utils.py
+++ b/Bio/SearchIO/_utils.py
@@ -40,7 +40,8 @@ def get_processor(format, mapping):
def singleitem(attr=None, doc=''):
"""Returns a property that fetches the given attribute from
- the first item in a SearchIO container object."""
+ the first item in a SearchIO container object.
+ """
def getter(self):
if len(self._items) > 1:
raise ValueError("More than one HSPFragment objects "
@@ -53,7 +54,8 @@ def singleitem(attr=None, doc=''):
def allitems(attr=None, doc=''):
"""Returns a property that fetches the given attributes from
- all items in a SearchIO container object."""
+ all items in a SearchIO container object.
+ """
def getter(self):
if attr is None:
return self._items
diff --git a/Bio/Seq.py b/Bio/Seq.py
index fd05ca3..22ba6a9 100644
--- a/Bio/Seq.py
+++ b/Bio/Seq.py
@@ -5,15 +5,16 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Provides objects to represent biological sequences with alphabets.
+"""Provide objects to represent biological sequences with alphabets.
See also the Seq_ wiki and the chapter in our tutorial:
- - `HTML Tutorial`_
- - `PDF Tutorial`_
+ - `HTML Tutorial`_
+ - `PDF Tutorial`_
.. _Seq: http://biopython.org/wiki/Seq
.. _`HTML Tutorial`: http://biopython.org/DIST/docs/tutorial/Tutorial.html
.. _`PDF Tutorial`: http://biopython.org/DIST/docs/tutorial/Tutorial.pdf
+
"""
from __future__ import print_function
@@ -28,16 +29,17 @@ from Bio._py3k import basestring
from Bio import BiopythonWarning
from Bio import Alphabet
from Bio.Alphabet import IUPAC
-from Bio.Data.IUPACData import ambiguous_dna_complement, ambiguous_rna_complement
+from Bio.Data.IUPACData import (ambiguous_dna_complement,
+ ambiguous_rna_complement)
from Bio.Data import CodonTable
def _maketrans(complement_mapping):
- """Makes a python string translation table (PRIVATE).
+ """Make a python string translation table (PRIVATE).
Arguments:
- - complement_mapping - a dictionary such as ambiguous_dna_complement
- and ambiguous_rna_complement from Data.IUPACData.
+ - complement_mapping - a dictionary such as ambiguous_dna_complement
+ and ambiguous_rna_complement from Data.IUPACData.
Returns a translation table (a string of length 256) for use with the
python string's translate method to use in a (reverse) complement.
@@ -55,12 +57,13 @@ def _maketrans(complement_mapping):
else:
return string.maketrans(before, after)
+
_dna_complement_table = _maketrans(ambiguous_dna_complement)
_rna_complement_table = _maketrans(ambiguous_rna_complement)
class Seq(object):
- """A read-only sequence object (essentially a string with an alphabet).
+ """Read-only sequence object (essentially a string with an alphabet).
Like normal python strings, our basic sequence object is immutable.
This prevents you from doing my_seq[5] = "A" for example, but does allow
@@ -79,12 +82,14 @@ class Seq(object):
reverse_complement, transcribe, back_transcribe and translate (which are
not applicable to sequences with a protein alphabet).
"""
+
def __init__(self, data, alphabet=Alphabet.generic_alphabet):
"""Create a Seq object.
Arguments:
- - seq - Sequence, required (string)
- - alphabet - Optional argument, an Alphabet object from Bio.Alphabet
+ - seq - Sequence, required (string)
+ - alphabet - Optional argument, an Alphabet object from
+ Bio.Alphabet
You will typically use Bio.SeqIO to read in sequences from files as
SeqRecord objects, whose sequence will be exposed as a Seq object via
@@ -111,10 +116,10 @@ class Seq(object):
self.alphabet = alphabet # Seq API requirement
def __repr__(self):
- """Returns a (truncated) representation of the sequence for debugging."""
+ """Return (truncated) representation of the sequence for debugging."""
if len(self) > 60:
- # Shows the last three letters as it is often useful to see if there
- # is a stop codon at the end of a sequence.
+ # Shows the last three letters as it is often useful to see if
+ # there is a stop codon at the end of a sequence.
# Note total length is 54+3+3=60
return "{0}('{1}...{2}', {3!r})".format(self.__class__.__name__,
str(self)[:54],
@@ -126,7 +131,7 @@ class Seq(object):
self.alphabet)
def __str__(self):
- """Returns the full sequence as a python string, use str(my_seq).
+ """Return the full sequence as a python string, use str(my_seq).
Note that Biopython 1.44 and earlier would give a truncated
version of repr(my_seq) for str(my_seq). If you are writing code
@@ -194,12 +199,12 @@ class Seq(object):
return str(self) == str(other)
def __ne__(self, other):
- """Not equal, see __eq__ documentation."""
- # Seem to require this method under Python 2 but not needed on Python 3?
- return not (self == other)
+ """Implement the not-equal operand."""
+ # Require this method for Python 2 but not needed on Python 3
+ return not self == other
def __lt__(self, other):
- """Less than, see __eq__ documentation."""
+ """Implement the less-than operand."""
if hasattr(other, "alphabet"):
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
@@ -209,7 +214,7 @@ class Seq(object):
return str(self) < str(other)
def __le__(self, other):
- """Less than or equal, see __eq__ documentation."""
+ """Implement the less-than or equal operand."""
if hasattr(other, "alphabet"):
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
@@ -219,11 +224,11 @@ class Seq(object):
return str(self) <= str(other)
def __len__(self):
- """Returns the length of the sequence, use len(my_seq)."""
- return len(self._data) # Seq API requirement
+ """Return the length of the sequence, use len(my_seq)."""
+ return len(self._data) # Seq API requirement
- def __getitem__(self, index): # Seq API requirement
- """Returns a subsequence of single letter, use my_seq[index]."""
+ def __getitem__(self, index): # Seq API requirement
+ """Return a subsequence of single letter, use my_seq[index]."""
# Note since Python 2.0, __getslice__ is deprecated
# and __getitem__ is used instead.
# See http://docs.python.org/ref/sequence-methods.html
@@ -288,8 +293,9 @@ class Seq(object):
# other should be a Seq or a MutableSeq
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
- raise TypeError("Incompatible alphabets {0!r} and {1!r}".format(
- self.alphabet, other.alphabet))
+ raise TypeError(
+ "Incompatible alphabets {0!r} and {1!r}".format(
+ self.alphabet, other.alphabet))
# They should be the same sequence type (or one of them is generic)
a = Alphabet._consensus_alphabet([self.alphabet, other.alphabet])
return self.__class__(str(self) + str(other), a)
@@ -304,7 +310,7 @@ class Seq(object):
raise TypeError
def __radd__(self, other):
- """Adding a sequence on the left.
+ """Add a sequence on the left.
If adding a string to a Seq, the alphabet is preserved:
@@ -319,8 +325,9 @@ class Seq(object):
# other should be a Seq or a MutableSeq
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
- raise TypeError("Incompatible alphabets {0!r} and {1!r}".format(
- self.alphabet, other.alphabet))
+ raise TypeError(
+ "Incompatible alphabets {0!r} and {1!r}".format(
+ self.alphabet, other.alphabet))
# They should be the same sequence type (or one of them is generic)
a = Alphabet._consensus_alphabet([self.alphabet, other.alphabet])
return self.__class__(str(other) + str(self), a)
@@ -330,19 +337,20 @@ class Seq(object):
else:
raise TypeError
- def tostring(self): # Seq API requirement
- """Returns the full sequence as a python string (DEPRECATED).
+ def tostring(self): # Seq API requirement
+ """Return the full sequence as a python string (DEPRECATED).
You are now encouraged to use str(my_seq) instead of
- my_seq.tostring()."""
+ my_seq.tostring().
+ """
from Bio import BiopythonDeprecationWarning
warnings.warn("This method is obsolete; please use str(my_seq) "
"instead of my_seq.tostring().",
BiopythonDeprecationWarning)
return str(self)
- def tomutable(self): # Needed? Or use a function?
- """Returns the full sequence as a MutableSeq object.
+ def tomutable(self): # Needed? Or use a function?
+ """Return the full sequence as a MutableSeq object.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC
@@ -358,7 +366,7 @@ class Seq(object):
return MutableSeq(str(self), self.alphabet)
def _get_seq_str_and_check_alphabet(self, other_sequence):
- """string/Seq/MutableSeq to string, checking alphabet (PRIVATE).
+ """Convert string/Seq/MutableSeq to string, checking alphabet (PRIVATE).
For a string argument, returns the string.
@@ -379,20 +387,22 @@ class Seq(object):
return str(other_sequence)
def count(self, sub, start=0, end=sys.maxsize):
- """Non-overlapping count method, like that of a python string.
+ """Return a non-overlapping count, like that of a python string.
This behaves like the python string method of the same name,
which does a non-overlapping count!
+ For an overlapping search use the newer count_overlap() method.
+
Returns an integer, the number of occurrences of substring
argument sub in the (sub)sequence given by [start:end].
Optional arguments start and end are interpreted as in slice
notation.
Arguments:
- - sub - a string or another Seq object to look for
- - start - optional integer, slice start
- - end - optional integer, slice end
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
e.g.
@@ -416,14 +426,75 @@ class Seq(object):
>>> print(Seq("AAAA").count("AA"))
2
- An overlapping search would give the answer as three!
+ An overlapping search, as implemented in .count_overlap(),
+ would give the answer as three!
"""
# If it has one, check the alphabet:
sub_str = self._get_seq_str_and_check_alphabet(sub)
return str(self).count(sub_str, start, end)
+ def count_overlap(self, sub, start=0, end=sys.maxsize):
+ """Return an overlapping count.
+
+ For a non-overlapping search use the count() method.
+
+ Returns an integer, the number of occurrences of substring
+ argument sub in the (sub)sequence given by [start:end].
+ Optional arguments start and end are interpreted as in slice
+ notation.
+
+ Arguments:
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
+
+ e.g.
+
+ >>> from Bio.Seq import Seq
+ >>> print(Seq("AAAA").count_overlap("AA"))
+ 3
+ >>> print(Seq("ATATATATA").count_overlap("ATA"))
+ 4
+ >>> print(Seq("ATATATATA").count_overlap("ATA", 3, -1))
+ 1
+
+ Where substrings do not overlap, should behave the same as
+ the count() method:
+
+ >>> from Bio.Seq import Seq
+ >>> my_seq = Seq("AAAATGA")
+ >>> print(my_seq.count_overlap("A"))
+ 5
+ >>> my_seq.count_overlap("A") == my_seq.count("A")
+ True
+ >>> print(my_seq.count_overlap("ATG"))
+ 1
+ >>> my_seq.count_overlap("ATG") == my_seq.count("ATG")
+ True
+ >>> print(my_seq.count_overlap(Seq("AT")))
+ 1
+ >>> my_seq.count_overlap(Seq("AT")) == my_seq.count(Seq("AT"))
+ True
+ >>> print(my_seq.count_overlap("AT", 2, -1))
+ 1
+ >>> my_seq.count_overlap("AT", 2, -1) == my_seq.count("AT", 2, -1)
+ True
+
+ HOWEVER, do not use this method for such cases because the
+ count() method is much for efficient.
+ """
+ sub_str = self._get_seq_str_and_check_alphabet(sub)
+ self_str = str(self)
+ overlap_count = 0
+ while True:
+ start = self_str.find(sub_str, start, end) + 1
+ if start != 0:
+ overlap_count += 1
+ else:
+ return overlap_count
+
def __contains__(self, char):
- """Implements the 'in' keyword, like a python string.
+ """Implement the 'in' keyword, like a python string.
e.g.
@@ -462,9 +533,9 @@ class Seq(object):
argument sub in the (sub)sequence given by [start:end].
Arguments:
- - sub - a string or another Seq object to look for
- - start - optional integer, slice start
- - end - optional integer, slice end
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
Returns -1 if the subsequence is NOT found.
@@ -488,9 +559,9 @@ class Seq(object):
substring argument sub in the (sub)sequence given by [start:end].
Arguments:
- - sub - a string or another Seq object to look for
- - start - optional integer, slice start
- - end - optional integer, slice end
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
Returns -1 if the subsequence is NOT found.
@@ -506,7 +577,7 @@ class Seq(object):
return str(self).rfind(sub_str, start, end)
def startswith(self, prefix, start=0, end=sys.maxsize):
- """Does the Seq start with the given prefix? Returns True/False.
+ """Return True if the Seq starts with the given prefix, False otherwise.
This behaves like the python string method of the same name.
@@ -537,7 +608,7 @@ class Seq(object):
return str(self).startswith(prefix_str, start, end)
def endswith(self, suffix, start=0, end=sys.maxsize):
- """Does the Seq end with the given suffix? Returns True/False.
+ """Return True if the Seq ends with the given suffix, False otherwise.
This behaves like the python string method of the same name.
@@ -588,15 +659,22 @@ class Seq(object):
>>> my_aa = my_rna.translate()
>>> my_aa
Seq('VMAIVMGR*KGAR*L', HasStopCodon(ExtendedIUPACProtein(), '*'))
- >>> my_aa.split("*")
- [Seq('VMAIVMGR', HasStopCodon(ExtendedIUPACProtein(), '*')), Seq('KGAR', HasStopCodon(ExtendedIUPACProtein(), '*')), Seq('L', HasStopCodon(ExtendedIUPACProtein(), '*'))]
- >>> my_aa.split("*", 1)
- [Seq('VMAIVMGR', HasStopCodon(ExtendedIUPACProtein(), '*')), Seq('KGAR*L', HasStopCodon(ExtendedIUPACProtein(), '*'))]
+ >>> for pep in my_aa.split("*"):
+ ... pep
+ Seq('VMAIVMGR', HasStopCodon(ExtendedIUPACProtein(), '*'))
+ Seq('KGAR', HasStopCodon(ExtendedIUPACProtein(), '*'))
+ Seq('L', HasStopCodon(ExtendedIUPACProtein(), '*'))
+ >>> for pep in my_aa.split("*", 1):
+ ... pep
+ Seq('VMAIVMGR', HasStopCodon(ExtendedIUPACProtein(), '*'))
+ Seq('KGAR*L', HasStopCodon(ExtendedIUPACProtein(), '*'))
See also the rsplit method:
- >>> my_aa.rsplit("*", 1)
- [Seq('VMAIVMGR*KGAR', HasStopCodon(ExtendedIUPACProtein(), '*')), Seq('L', HasStopCodon(ExtendedIUPACProtein(), '*'))]
+ >>> for pep in my_aa.rsplit("*", 1):
+ ... pep
+ Seq('VMAIVMGR*KGAR', HasStopCodon(ExtendedIUPACProtein(), '*'))
+ Seq('L', HasStopCodon(ExtendedIUPACProtein(), '*'))
"""
# If it has one, check the alphabet:
sep_str = self._get_seq_str_and_check_alphabet(sep)
@@ -606,7 +684,7 @@ class Seq(object):
for part in str(self).split(sep_str, maxsplit)]
def rsplit(self, sep=None, maxsplit=-1):
- """Right split method, like that of a python string.
+ """Do a right split method, like that of a python string.
This behaves like the python string method of the same name.
@@ -629,7 +707,7 @@ class Seq(object):
for part in str(self).rsplit(sep_str, maxsplit)]
def strip(self, chars=None):
- """Returns a new Seq object with leading and trailing ends stripped.
+ """Return a new Seq object with leading and trailing ends stripped.
This behaves like the python string method of the same name.
@@ -646,7 +724,7 @@ class Seq(object):
return Seq(str(self).strip(strip_str), self.alphabet)
def lstrip(self, chars=None):
- """Returns a new Seq object with leading (left) end stripped.
+ """Return a new Seq object with leading (left) end stripped.
This behaves like the python string method of the same name.
@@ -663,7 +741,7 @@ class Seq(object):
return Seq(str(self).lstrip(strip_str), self.alphabet)
def rstrip(self, chars=None):
- """Returns a new Seq object with trailing (right) end stripped.
+ """Return a new Seq object with trailing (right) end stripped.
This behaves like the python string method of the same name.
@@ -688,7 +766,7 @@ class Seq(object):
return Seq(str(self).rstrip(strip_str), self.alphabet)
def upper(self):
- """Returns an upper case copy of the sequence.
+ """Return an upper case copy of the sequence.
>>> from Bio.Alphabet import HasStopCodon, generic_protein
>>> from Bio.Seq import Seq
@@ -705,15 +783,17 @@ class Seq(object):
return Seq(str(self).upper(), self.alphabet._upper())
def lower(self):
- """Returns a lower case copy of the sequence.
+ """Return a lower case copy of the sequence.
- This will adjust the alphabet if required. Note that the IUPAC alphabets
- are upper case only, and thus a generic alphabet must be substituted.
+ This will adjust the alphabet if required. Note that the IUPAC
+ alphabets are upper case only, and thus a generic alphabet must be
+ substituted.
>>> from Bio.Alphabet import Gapped, generic_dna
>>> from Bio.Alphabet import IUPAC
>>> from Bio.Seq import Seq
- >>> my_seq = Seq("CGGTACGCTTATGTCACGTAG*AAAAAA", Gapped(IUPAC.unambiguous_dna, "*"))
+ >>> my_seq = Seq("CGGTACGCTTATGTCACGTAG*AAAAAA",
+ ... Gapped(IUPAC.unambiguous_dna, "*"))
>>> my_seq
Seq('CGGTACGCTTATGTCACGTAG*AAAAAA', Gapped(IUPACUnambiguousDNA(), '*'))
>>> my_seq.lower()
@@ -724,7 +804,7 @@ class Seq(object):
return Seq(str(self).lower(), self.alphabet._lower())
def complement(self):
- """Returns the complement sequence. New Seq object.
+ """Return the complement sequence by creating a new Seq object.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC
@@ -770,12 +850,12 @@ class Seq(object):
ttable = _rna_complement_table
else:
ttable = _dna_complement_table
- # Much faster on really long sequences than the previous loop based one.
- # thx to Michael Palmer, University of Waterloo
+ # Much faster on really long sequences than the previous loop based
+ # one. Thanks to Michael Palmer, University of Waterloo.
return Seq(str(self).translate(ttable), self.alphabet)
def reverse_complement(self):
- """Returns the reverse complement sequence. New Seq object.
+ """Return the reverse complement sequence by creating a new Seq object.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC
@@ -810,7 +890,7 @@ class Seq(object):
return self.complement()[::-1]
def transcribe(self):
- """Returns the RNA sequence from a DNA sequence. New Seq object.
+ """Return the RNA sequence from a DNA sequence by creating a new Seq object.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC
@@ -844,7 +924,7 @@ class Seq(object):
return Seq(str(self).replace('T', 'U').replace('t', 'u'), alphabet)
def back_transcribe(self):
- """Returns the DNA sequence from an RNA sequence. New Seq object.
+ """Return the DNA sequence from an RNA sequence by creating a new Seq object.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC
@@ -880,34 +960,33 @@ class Seq(object):
def translate(self, table="Standard", stop_symbol="*", to_stop=False,
cds=False, gap=None):
- """Turns a nucleotide sequence into a protein sequence. New Seq object.
+ """Turn a nucleotide sequence into a protein sequence by creating a new Seq object.
This method will translate DNA or RNA sequences, and those with a
nucleotide or generic alphabet. Trying to translate a protein
sequence raises an exception.
Arguments:
- - table - Which codon table to use? This can be either a name
- (string), an NCBI identifier (integer), or a CodonTable
- object (useful for non-standard genetic codes). This
- defaults to the "Standard" table.
- - stop_symbol - Single character string, what to use for terminators.
- This defaults to the asterisk, "*".
- - to_stop - Boolean, defaults to False meaning do a full translation
- continuing on past any stop codons (translated as the
- specified stop_symbol). If True, translation is
- terminated at the first in frame stop codon (and the
- stop_symbol is not appended to the returned protein
- sequence).
- - cds - Boolean, indicates this is a complete CDS. If True,
- this checks the sequence starts with a valid alternative start
- codon (which will be translated as methionine, M), that the
- sequence length is a multiple of three, and that there is a
- single in frame stop codon at the end (this will be excluded
- from the protein sequence, regardless of the to_stop option).
- If these tests fail, an exception is raised.
- - gap - Single character string to denote symbol used for gaps.
- It will try to guess the gap character from the alphabet.
+ - table - Which codon table to use? This can be either a name
+ (string), an NCBI identifier (integer), or a CodonTable
+ object (useful for non-standard genetic codes). This
+ defaults to the "Standard" table.
+ - stop_symbol - Single character string, what to use for
+ terminators. This defaults to the asterisk, "*".
+ - to_stop - Boolean, defaults to False meaning do a full
+ translation continuing on past any stop codons (translated as the
+ specified stop_symbol). If True, translation is terminated at
+ the first in frame stop codon (and the stop_symbol is not
+ appended to the returned protein sequence).
+ - cds - Boolean, indicates this is a complete CDS. If True,
+ this checks the sequence starts with a valid alternative start
+ codon (which will be translated as methionine, M), that the
+ sequence length is a multiple of three, and that there is a
+ single in frame stop codon at the end (this will be excluded
+ from the protein sequence, regardless of the to_stop option).
+ If these tests fail, an exception is raised.
+ - gap - Single character string to denote symbol used for gaps.
+ It will try to guess the gap character from the alphabet.
e.g. Using the standard table:
@@ -932,8 +1011,8 @@ class Seq(object):
>>> coding_dna.translate(table=2, cds=True)
Seq('MAIVMGRWKGAR', ExtendedIUPACProtein())
- It isn't a valid CDS under NCBI table 1, due to both the start codon and
- also the in frame stop codons:
+ It isn't a valid CDS under NCBI table 1, due to both the start codon
+ and also the in frame stop codons:
>>> coding_dna.translate(table=1, cds=True)
Traceback (most recent call last):
@@ -1018,8 +1097,9 @@ class Seq(object):
if not gap:
gap = self.alphabet.gap_char
elif gap != self.alphabet.gap_char:
- raise ValueError("Gap {0!r} does not match {1!r} from alphabet".format(
- gap, self.alphabet.gap_char))
+ raise ValueError(
+ "Gap {0!r} does not match {1!r} from alphabet".format(
+ gap, self.alphabet.gap_char))
protein = _translate_str(str(self), codon_table, stop_symbol, to_stop,
cds, gap=gap)
@@ -1049,8 +1129,9 @@ class Seq(object):
Seq('ATATGAAATTTGAAAA', DNAAlphabet())
If the gap character is not given as an argument, it will be taken from
- the sequence's alphabet (if defined). Notice that the returned sequence's
- alphabet is adjusted since it no longer requires a gapped alphabet:
+ the sequence's alphabet (if defined). Notice that the returned
+ sequence's alphabet is adjusted since it no longer requires a gapped
+ alphabet:
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC, Gapped, HasStopCodon
@@ -1070,8 +1151,9 @@ class Seq(object):
>>> my_seq.ungap()
Seq('CGGGTAGAAAAAA', IUPACUnambiguousDNA())
- As long as it is consistent with the alphabet, although it is redundant,
- you can still supply the gap character as an argument to this method:
+ As long as it is consistent with the alphabet, although it is
+ redundant, you can still supply the gap character as an argument to
+ this method:
>>> my_seq
Seq('CGGGTAG=AAAAAA', Gapped(IUPACUnambiguousDNA(), '='))
@@ -1106,11 +1188,13 @@ class Seq(object):
if not gap:
gap = self.alphabet.gap_char
elif gap != self.alphabet.gap_char:
- raise ValueError("Gap {0!r} does not match {1!r} from alphabet".format(
- gap, self.alphabet.gap_char))
+ raise ValueError(
+ "Gap {0!r} does not match {1!r} from alphabet".format(
+ gap, self.alphabet.gap_char))
alpha = Alphabet._ungap(self.alphabet)
elif not gap:
- raise ValueError("Gap character not given and not defined in alphabet")
+ raise ValueError("Gap character not given and not defined in "
+ "alphabet")
else:
alpha = self.alphabet # modify!
if len(gap) != 1 or not isinstance(gap, str):
@@ -1119,7 +1203,7 @@ class Seq(object):
class UnknownSeq(Seq):
- """A read-only sequence object of known length but unknown contents.
+ """Read-only sequence object of known length but unknown contents.
If you have an unknown sequence, you can represent this with a normal
Seq object, for example:
@@ -1169,7 +1253,9 @@ class UnknownSeq(Seq):
>>> known_seq + unk_four
Seq('ACGT????', Alphabet())
"""
- def __init__(self, length, alphabet=Alphabet.generic_alphabet, character=None):
+
+ def __init__(self, length, alphabet=Alphabet.generic_alphabet,
+ character=None):
"""Create a new UnknownSeq object.
If character is omitted, it is determined from the alphabet, "N" for
@@ -1182,7 +1268,8 @@ class UnknownSeq(Seq):
self.alphabet = alphabet
if character:
if len(character) != 1:
- raise ValueError("character argument should be a single letter string.")
+ raise ValueError("character argument should be a single "
+ "letter string.")
self._character = character
else:
base = Alphabet._get_base_alphabet(alphabet)
@@ -1196,14 +1283,15 @@ class UnknownSeq(Seq):
self._character = "?"
def __len__(self):
- """Returns the stated length of the unknown sequence."""
+ """Return the stated length of the unknown sequence."""
return self._length
def __str__(self):
- """Returns the unknown sequence as full string of the given length."""
+ """Return the unknown sequence as full string of the given length."""
return self._character * self._length
def __repr__(self):
+ """Return (truncated) representation of the sequence for debugging."""
return "UnknownSeq({0}, alphabet = {1!r}, character = {2!r})".format(
self._length, self.alphabet, self._character)
@@ -1235,7 +1323,8 @@ class UnknownSeq(Seq):
>>> UnknownSeq(5, generic_protein) + "LV"
Seq('XXXXXLV', ProteinAlphabet())
"""
- if isinstance(other, UnknownSeq) and other._character == self._character:
+ if isinstance(other, UnknownSeq) and \
+ other._character == self._character:
# TODO - Check the alphabets match
return UnknownSeq(len(self) + len(other),
self.alphabet, self._character)
@@ -1243,6 +1332,7 @@ class UnknownSeq(Seq):
return Seq(str(self), self.alphabet) + other
def __radd__(self, other):
+ """Add a sequence on the left."""
# If other is an UnknownSeq, then __add__ would be called.
# Offload to the base class...
return other + Seq(str(self), self.alphabet)
@@ -1293,20 +1383,22 @@ class UnknownSeq(Seq):
return UnknownSeq(new_length, self.alphabet, self._character)
def count(self, sub, start=0, end=sys.maxsize):
- """Non-overlapping count method, like that of a python string.
+ """Return a non-overlapping count, like that of a python string.
This behaves like the python string (and Seq object) method of the
same name, which does a non-overlapping count!
+ For an overlapping search use the newer count_overlap() method.
+
Returns an integer, the number of occurrences of substring
argument sub in the (sub)sequence given by [start:end].
Optional arguments start and end are interpreted as in slice
notation.
Arguments:
- - sub - a string or another Seq object to look for
- - start - optional integer, slice start
- - end - optional integer, slice end
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
>>> "NNNN".count("N")
4
@@ -1348,8 +1440,72 @@ class UnknownSeq(Seq):
else:
return 0
+ def count_overlap(self, sub, start=0, end=sys.maxsize):
+ """Return an overlapping count.
+
+ For a non-overlapping search use the count() method.
+
+ Returns an integer, the number of occurrences of substring
+ argument sub in the (sub)sequence given by [start:end].
+ Optional arguments start and end are interpreted as in slice
+ notation.
+
+ Arguments:
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
+
+ e.g.
+
+ >>> from Bio.Seq import UnknownSeq
+ >>> UnknownSeq(4, character="N").count_overlap("NN")
+ 3
+ >>> UnknownSeq(4, character="N").count_overlap("NNN")
+ 2
+
+ Where substrings do not overlap, should behave the same as
+ the count() method:
+
+ >>> UnknownSeq(4, character="N").count_overlap("N")
+ 4
+ >>> UnknownSeq(4, character="N").count_overlap("N") == UnknownSeq(4, character="N").count("N")
+ True
+ >>> UnknownSeq(4, character="N").count_overlap("A")
+ 0
+ >>> UnknownSeq(4, character="N").count_overlap("A") == UnknownSeq(4, character="N").count("A")
+ True
+ >>> UnknownSeq(4, character="N").count_overlap("AA")
+ 0
+ >>> UnknownSeq(4, character="N").count_overlap("AA") == UnknownSeq(4, character="N").count("AA")
+ True
+ """
+ sub_str = self._get_seq_str_and_check_alphabet(sub)
+ len_self, len_sub_str = self._length, len(sub_str)
+ # Handling case where substring not in self
+ if set(sub_str) != set(self._character):
+ return 0
+ # Setting None to the default arguments
+ if start is None:
+ start = 0
+ if end is None:
+ end = sys.maxsize
+ # Truncating start and end to max of self._length and min of -self._length
+ start = max(min(start, len_self), -len_self)
+ end = max(min(end, len_self), -len_self)
+ # Convert start and ends to positive indexes
+ if start < 0:
+ start += len_self
+ if end < 0:
+ end += len_self
+ # Handle case where end <= start (no negative step argument here)
+ # and case where len_sub_str is larger than the search space
+ if end <= start or (end - start) < len_sub_str:
+ return 0
+ # 'Normal' calculation
+ return end - start - len_sub_str + 1
+
def complement(self):
- """The complement of an unknown nucleotide equals itself.
+ """Return the complement of an unknown nucleotide equals itself.
>>> my_nuc = UnknownSeq(8)
>>> my_nuc
@@ -1367,17 +1523,17 @@ class UnknownSeq(Seq):
return self
def reverse_complement(self):
- """The reverse complement of an unknown nucleotide equals itself.
+ """Return the reverse complement of an unknown sequence.
- >>> my_nuc = UnknownSeq(10)
- >>> my_nuc
- UnknownSeq(10, alphabet = Alphabet(), character = '?')
- >>> print(my_nuc)
- ??????????
- >>> my_nuc.reverse_complement()
- UnknownSeq(10, alphabet = Alphabet(), character = '?')
- >>> print(my_nuc.reverse_complement())
- ??????????
+ The reverse complement of an unknown nucleotide equals itself:
+
+ >>> from Bio.Seq import UnknownSeq
+ >>> from Bio.Alphabet import generic_dna
+ >>> example = UnknownSeq(6, generic_dna)
+ >>> print(example)
+ NNNNNN
+ >>> print(example.reverse_complement())
+ NNNNNN
"""
if isinstance(Alphabet._get_base_alphabet(self.alphabet),
Alphabet.ProteinAlphabet):
@@ -1385,7 +1541,7 @@ class UnknownSeq(Seq):
return self
def transcribe(self):
- """Returns unknown RNA sequence from an unknown DNA sequence.
+ """Return an unknown RNA sequence from an unknown DNA sequence.
>>> my_dna = UnknownSeq(10, character="N")
>>> my_dna
@@ -1403,7 +1559,7 @@ class UnknownSeq(Seq):
return UnknownSeq(self._length, s.alphabet, self._character)
def back_transcribe(self):
- """Returns unknown DNA sequence from an unknown RNA sequence.
+ """Return an unknown DNA sequence from an unknown RNA sequence.
>>> my_rna = UnknownSeq(20, character="N")
>>> my_rna
@@ -1421,7 +1577,7 @@ class UnknownSeq(Seq):
return UnknownSeq(self._length, s.alphabet, self._character)
def upper(self):
- """Returns an upper case copy of the sequence.
+ """Return an upper case copy of the sequence.
>>> from Bio.Alphabet import generic_dna
>>> from Bio.Seq import UnknownSeq
@@ -1437,10 +1593,11 @@ class UnknownSeq(Seq):
This will adjust the alphabet if required. See also the lower method.
"""
- return UnknownSeq(self._length, self.alphabet._upper(), self._character.upper())
+ return UnknownSeq(self._length, self.alphabet._upper(),
+ self._character.upper())
def lower(self):
- """Returns a lower case copy of the sequence.
+ """Return a lower case copy of the sequence.
This will adjust the alphabet if required:
@@ -1458,7 +1615,8 @@ class UnknownSeq(Seq):
See also the upper method.
"""
- return UnknownSeq(self._length, self.alphabet._lower(), self._character.lower())
+ return UnknownSeq(self._length, self.alphabet._lower(),
+ self._character.lower())
def translate(self, **kwargs):
"""Translate an unknown nucleotide sequence into an unknown protein.
@@ -1557,7 +1715,9 @@ class MutableSeq(object):
Note that the MutableSeq object does not support as many string-like
or biological methods as the Seq object.
"""
+
def __init__(self, data, alphabet=Alphabet.generic_alphabet):
+ """Initialize the class."""
if sys.version_info[0] == 3:
self.array_indicator = "u"
else:
@@ -1569,10 +1729,10 @@ class MutableSeq(object):
self.alphabet = alphabet
def __repr__(self):
- """Returns a (truncated) representation of the sequence for debugging."""
+ """Return (truncated) representation of the sequence for debugging."""
if len(self) > 60:
- # Shows the last three letters as it is often useful to see if there
- # is a stop codon at the end of a sequence.
+ # Shows the last three letters as it is often useful to see if
+ # there is a stop codon at the end of a sequence.
# Note total length is 54+3+3=60
return "{0}('{1}...{2}', {3!r})".format(self.__class__.__name__,
str(self[:54]),
@@ -1584,7 +1744,7 @@ class MutableSeq(object):
self.alphabet)
def __str__(self):
- """Returns the full sequence as a python string.
+ """Return the full sequence as a python string.
Note that Biopython 1.44 and earlier would give a truncated
version of repr(my_seq) for str(my_seq). If you are writing code
@@ -1637,12 +1797,12 @@ class MutableSeq(object):
return str(self) == str(other)
def __ne__(self, other):
- """Not equal, see __eq__ documentation."""
- # Seem to require this method under Python 2 but not needed on Python 3?
+ """Implement the not-equal operand."""
+ # Seem to require this method for Python 2 but not needed on Python 3?
return not (self == other)
def __lt__(self, other):
- """Less than, see __eq__ documentation."""
+ """Implement the less-than operand."""
if hasattr(other, "alphabet"):
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
@@ -1654,7 +1814,7 @@ class MutableSeq(object):
return str(self) < str(other)
def __le__(self, other):
- """Less than or equal, see __eq__ documentation."""
+ """Implement the less-than or equal operand."""
if hasattr(other, "alphabet"):
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
@@ -1666,9 +1826,11 @@ class MutableSeq(object):
return str(self) <= str(other)
def __len__(self):
+ """Return the length of the sequence, use len(my_seq)."""
return len(self.data)
def __getitem__(self, index):
+ """Return a subsequence of single letter, use my_seq[index]."""
# Note since Python 2.0, __getslice__ is deprecated
# and __getitem__ is used instead.
# See http://docs.python.org/ref/sequence-methods.html
@@ -1680,6 +1842,7 @@ class MutableSeq(object):
return MutableSeq(self.data[index], self.alphabet)
def __setitem__(self, index, value):
+ """Set a subsequence of single letter via value parameter."""
# Note since Python 2.0, __setslice__ is deprecated
# and __setitem__ is used instead.
# See http://docs.python.org/ref/sequence-methods.html
@@ -1697,6 +1860,7 @@ class MutableSeq(object):
str(value))
def __delitem__(self, index):
+ """Delete a subsequence of single letter."""
# Note since Python 2.0, __delslice__ is deprecated
# and __delitem__ is used instead.
# See http://docs.python.org/ref/sequence-methods.html
@@ -1707,13 +1871,15 @@ class MutableSeq(object):
def __add__(self, other):
"""Add another sequence or string to this sequence.
- Returns a new MutableSeq object."""
+ Returns a new MutableSeq object.
+ """
if hasattr(other, "alphabet"):
# other should be a Seq or a MutableSeq
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
- raise TypeError("Incompatible alphabets {0!r} and {1!r}".format(
- self.alphabet, other.alphabet))
+ raise TypeError(
+ "Incompatible alphabets {0!r} and {1!r}".format(
+ self.alphabet, other.alphabet))
# They should be the same sequence type (or one of them is generic)
a = Alphabet._consensus_alphabet([self.alphabet, other.alphabet])
if isinstance(other, MutableSeq):
@@ -1729,12 +1895,14 @@ class MutableSeq(object):
raise TypeError
def __radd__(self, other):
+ """Add a sequence on the left."""
if hasattr(other, "alphabet"):
# other should be a Seq or a MutableSeq
if not Alphabet._check_type_compatible([self.alphabet,
other.alphabet]):
- raise TypeError("Incompatible alphabets {0!r} and {1!r}".format(
- self.alphabet, other.alphabet))
+ raise TypeError(
+ "Incompatible alphabets {0!r} and {1!r}".format(
+ self.alphabet, other.alphabet))
# They should be the same sequence type (or one of them is generic)
a = Alphabet._consensus_alphabet([self.alphabet, other.alphabet])
if isinstance(other, MutableSeq):
@@ -1750,17 +1918,21 @@ class MutableSeq(object):
raise TypeError
def append(self, c):
+ """Add a subsequence to the mutable sequence object."""
self.data.append(c)
def insert(self, i, c):
+ """Add a subsequence to the mutable sequence object at a given index."""
self.data.insert(i, c)
def pop(self, i=(-1)):
+ """Remove a subsequence of a single letter at given index."""
c = self.data[i]
del self.data[i]
return c
def remove(self, item):
+ """Remove a subsequence of a single letter from mutable sequence."""
for i in range(len(self.data)):
if self.data[i] == item:
del self.data[i]
@@ -1768,20 +1940,22 @@ class MutableSeq(object):
raise ValueError("MutableSeq.remove(x): x not in list")
def count(self, sub, start=0, end=sys.maxsize):
- """Non-overlapping count method, like that of a python string.
+ """Return a non-overlapping count, like that of a python string.
This behaves like the python string method of the same name,
which does a non-overlapping count!
+ For an overlapping search use the newer count_overlap() method.
+
Returns an integer, the number of occurrences of substring
argument sub in the (sub)sequence given by [start:end].
Optional arguments start and end are interpreted as in slice
notation.
Arguments:
- - sub - a string or another Seq object to look for
- - start - optional integer, slice start
- - end - optional integer, slice end
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
e.g.
@@ -1827,7 +2001,70 @@ class MutableSeq(object):
# TODO - Can we do this more efficiently?
return str(self).count(search, start, end)
+ def count_overlap(self, sub, start=0, end=sys.maxsize):
+ """Return an overlapping count.
+
+ For a non-overlapping search use the count() method.
+
+ Returns an integer, the number of occurrences of substring
+ argument sub in the (sub)sequence given by [start:end].
+ Optional arguments start and end are interpreted as in slice
+ notation.
+
+ Arguments:
+ - sub - a string or another Seq object to look for
+ - start - optional integer, slice start
+ - end - optional integer, slice end
+
+ e.g.
+
+ >>> from Bio.Seq import MutableSeq
+ >>> print(MutableSeq("AAAA").count_overlap("AA"))
+ 3
+ >>> print(MutableSeq("ATATATATA").count_overlap("ATA"))
+ 4
+ >>> print(MutableSeq("ATATATATA").count_overlap("ATA", 3, -1))
+ 1
+
+ Where substrings do not overlap, should behave the same as
+ the count() method:
+
+ >>> from Bio.Seq import MutableSeq
+ >>> my_mseq = MutableSeq("AAAATGA")
+ >>> print(my_mseq.count_overlap("A"))
+ 5
+ >>> my_mseq.count_overlap("A") == my_mseq.count("A")
+ True
+ >>> print(my_mseq.count_overlap("ATG"))
+ 1
+ >>> my_mseq.count_overlap("ATG") == my_mseq.count("ATG")
+ True
+ >>> print(my_mseq.count_overlap(Seq("AT")))
+ 1
+ >>> my_mseq.count_overlap(Seq("AT")) == my_mseq.count(Seq("AT"))
+ True
+ >>> print(my_mseq.count_overlap("AT", 2, -1))
+ 1
+ >>> my_mseq.count_overlap("AT", 2, -1) == my_mseq.count("AT", 2, -1)
+ True
+
+ HOWEVER, do not use this method for such cases because the
+ count() method is much for efficient.
+ """
+ # The implementation is currently identical to that of
+ # Seq.count_overlap() apart from the definition of sub_str
+ sub_str = str(sub)
+ self = str(self)
+ overlap_count = 0
+ while True:
+ start = self.find(sub_str, start, end) + 1
+ if start != 0:
+ overlap_count += 1
+ else:
+ return overlap_count
+
def index(self, item):
+ """Return the position of a subsequence of a single letter."""
for i in range(len(self.data)):
if self.data[i] == item:
return i
@@ -1880,6 +2117,7 @@ class MutableSeq(object):
# def sort(self, *args): self.data.sort(*args)
def extend(self, other):
+ """Add a sequence to the original mutable sequence object."""
if isinstance(other, MutableSeq):
for c in other.data:
self.data.append(c)
@@ -1888,7 +2126,7 @@ class MutableSeq(object):
self.data.append(c)
def tostring(self):
- """Returns the full sequence as a python string (DEPRECATED).
+ """Return the full sequence as a python string (DEPRECATED).
You are now encouraged to use str(my_seq) instead of my_seq.tostring()
as this method is officially deprecated.
@@ -1913,7 +2151,7 @@ class MutableSeq(object):
return "".join(self.data)
def toseq(self):
- """Returns the full sequence as a new immutable Seq object.
+ """Return the full sequence as a new immutable Seq object.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import IUPAC
@@ -1934,7 +2172,7 @@ class MutableSeq(object):
# and Bio.Translate. The functions work both on Seq objects, and on strings.
def transcribe(dna):
- """Transcribes a DNA sequence into RNA.
+ """Transcribe a DNA sequence into RNA.
If given a string, returns a new string object.
@@ -1956,7 +2194,7 @@ def transcribe(dna):
def back_transcribe(rna):
- """Back-transcribes an RNA sequence into DNA.
+ """Return the RNA sequence back-transcribed into DNA.
If given a string, returns a new string object.
@@ -1979,26 +2217,26 @@ def back_transcribe(rna):
def _translate_str(sequence, table, stop_symbol="*", to_stop=False,
cds=False, pos_stop="X", gap=None):
- """Helper function to translate a nucleotide string (PRIVATE).
+ """Translate nucleotide string into a protein string (PRIVATE).
Arguments:
- - sequence - a string
- - table - a CodonTable object (NOT a table name or id number)
- - stop_symbol - a single character string, what to use for terminators.
- - to_stop - boolean, should translation terminate at the first
- in frame stop codon? If there is no in-frame stop codon
- then translation continues to the end.
- - pos_stop - a single character string for a possible stop codon
- (e.g. TAN or NNN)
- - cds - Boolean, indicates this is a complete CDS. If True, this
- checks the sequence starts with a valid alternative start
- codon (which will be translated as methionine, M), that the
- sequence length is a multiple of three, and that there is a
- single in frame stop codon at the end (this will be excluded
- from the protein sequence, regardless of the to_stop option).
- If these tests fail, an exception is raised.
- - gap - Single character string to denote symbol used for gaps.
- Defaults to None.
+ - sequence - a string
+ - table - a CodonTable object (NOT a table name or id number)
+ - stop_symbol - a single character string, what to use for terminators.
+ - to_stop - boolean, should translation terminate at the first
+ in frame stop codon? If there is no in-frame stop codon
+ then translation continues to the end.
+ - pos_stop - a single character string for a possible stop codon
+ (e.g. TAN or NNN)
+ - cds - Boolean, indicates this is a complete CDS. If True, this
+ checks the sequence starts with a valid alternative start
+ codon (which will be translated as methionine, M), that the
+ sequence length is a multiple of three, and that there is a
+ single in frame stop codon at the end (this will be excluded
+ from the protein sequence, regardless of the to_stop option).
+ If these tests fail, an exception is raised.
+ - gap - Single character string to denote symbol used for gaps.
+ Defaults to None.
Returns a string.
@@ -2071,9 +2309,11 @@ def _translate_str(sequence, table, stop_symbol="*", to_stop=False,
BiopythonWarning)
if gap is not None:
if not isinstance(gap, basestring):
- raise TypeError("Gap character should be a single character string.")
+ raise TypeError("Gap character should be a single character "
+ "string.")
elif len(gap) > 1:
- raise ValueError("Gap character should be a single character string.")
+ raise ValueError("Gap character should be a single character "
+ "string.")
for i in range(0, n - n % 3, 3):
codon = sequence[i:i + 3]
@@ -2107,27 +2347,27 @@ def translate(sequence, table="Standard", stop_symbol="*", to_stop=False,
MutableSeq, returns a Seq object with a protein alphabet.
Arguments:
- - table - Which codon table to use? This can be either a name (string),
- an NCBI identifier (integer), or a CodonTable object (useful
- for non-standard genetic codes). Defaults to the "Standard"
- table.
- - stop_symbol - Single character string, what to use for any
- terminators, defaults to the asterisk, "*".
- - to_stop - Boolean, defaults to False meaning do a full
- translation continuing on past any stop codons
- (translated as the specified stop_symbol). If
- True, translation is terminated at the first in
- frame stop codon (and the stop_symbol is not
- appended to the returned protein sequence).
- - cds - Boolean, indicates this is a complete CDS. If True, this
- checks the sequence starts with a valid alternative start
- codon (which will be translated as methionine, M), that the
- sequence length is a multiple of three, and that there is a
- single in frame stop codon at the end (this will be excluded
- from the protein sequence, regardless of the to_stop option).
- If these tests fail, an exception is raised.
- - gap - Single character string to denote symbol used for gaps.
- Defaults to None.
+ - table - Which codon table to use? This can be either a name
+ (string), an NCBI identifier (integer), or a CodonTable object
+ (useful for non-standard genetic codes). Defaults to the "Standard"
+ table.
+ - stop_symbol - Single character string, what to use for any
+ terminators, defaults to the asterisk, "*".
+ - to_stop - Boolean, defaults to False meaning do a full
+ translation continuing on past any stop codons
+ (translated as the specified stop_symbol). If
+ True, translation is terminated at the first in
+ frame stop codon (and the stop_symbol is not
+ appended to the returned protein sequence).
+ - cds - Boolean, indicates this is a complete CDS. If True, this
+ checks the sequence starts with a valid alternative start
+ codon (which will be translated as methionine, M), that the
+ sequence length is a multiple of three, and that there is a
+ single in frame stop codon at the end (this will be excluded
+ from the protein sequence, regardless of the to_stop option).
+ If these tests fail, an exception is raised.
+ - gap - Single character string to denote symbol used for gaps.
+ Defaults to None.
A simple string example using the default (standard) genetic code:
@@ -2146,9 +2386,9 @@ def translate(sequence, table="Standard", stop_symbol="*", to_stop=False,
>>> translate(coding_dna, table=2, to_stop=True)
'VAIVMGRWKGAR'
- In fact this example uses an alternative start codon valid under NCBI table 2,
- GTG, which means this example is a complete valid CDS which when translated
- should really start with methionine (not valine):
+ In fact this example uses an alternative start codon valid under NCBI
+ table 2, GTG, which means this example is a complete valid CDS which
+ when translated should really start with methionine (not valine):
>>> translate(coding_dna, table=2, cds=True)
'MAIVMGRWKGAR'
@@ -2189,10 +2429,11 @@ def translate(sequence, table="Standard", stop_symbol="*", to_stop=False,
def reverse_complement(sequence):
- """Returns the reverse complement sequence of a nucleotide string.
+ """Return the reverse complement sequence of a nucleotide string.
If given a string, returns a new string object.
- Given a Seq or a MutableSeq, returns a new Seq object with the same alphabet.
+ Given a Seq or a MutableSeq, returns a new Seq object with the same
+ alphabet.
Supports unambiguous and ambiguous nucleotide sequences.
@@ -2201,17 +2442,36 @@ def reverse_complement(sequence):
>>> reverse_complement("ACTG-NH")
'DN-CAGT'
"""
+ return complement(sequence)[::-1]
+
+
+def complement(sequence):
+ """Return the complement sequence of a nucleotide string.
+
+ If given a string, returns a new string object.
+ Given a Seq or a MutableSeq, returns a new Seq object with the same
+ alphabet.
+
+ Supports unambiguous and ambiguous nucleotide sequences.
+
+ e.g.
+
+ >>> complement("ACTG-NH")
+ 'TGAC-ND'
+ """
if isinstance(sequence, Seq):
# Return a Seq
- return sequence.reverse_complement()
+ return sequence.complement()
elif isinstance(sequence, MutableSeq):
# Return a Seq
- # Don't use the MutableSeq reverse_complement method as it is 'in place'.
- return sequence.toseq().reverse_complement()
+ # Don't use the MutableSeq reverse_complement method as it is
+ # 'in place'.
+ return sequence.toseq().complement()
# Assume its a string.
- # In order to avoid some code duplication, the old code would turn the string
- # into a Seq, use the reverse_complement method, and convert back to a string.
+ # In order to avoid some code duplication, the old code would turn the
+ # string into a Seq, use the reverse_complement method, and convert back
+ # to a string.
# This worked, but is over five times slower on short sequences!
if ('U' in sequence or 'u' in sequence) \
and ('T' in sequence or 't' in sequence):
@@ -2220,19 +2480,16 @@ def reverse_complement(sequence):
ttable = _rna_complement_table
else:
ttable = _dna_complement_table
- return sequence.translate(ttable)[::-1]
+ return sequence.translate(ttable)
def _test():
"""Run the Bio.Seq module's doctests (PRIVATE)."""
- if sys.version_info[0:2] == (3, 1):
- print("Not running Bio.Seq doctest on Python 3.1")
- print("See http://bugs.python.org/issue7490")
- else:
- print("Running doctests...")
- import doctest
- doctest.testmod(optionflags=doctest.IGNORE_EXCEPTION_DETAIL)
- print("Done")
+ print("Running doctests...")
+ import doctest
+ doctest.testmod(optionflags=doctest.IGNORE_EXCEPTION_DETAIL)
+ print("Done")
+
if __name__ == "__main__":
_test()
diff --git a/Bio/SeqFeature.py b/Bio/SeqFeature.py
index 4eb0dc5..6facd2a 100644
--- a/Bio/SeqFeature.py
+++ b/Bio/SeqFeature.py
@@ -1,6 +1,6 @@
# Copyright 2000-2003 Jeff Chang.
# Copyright 2001-2008 Brad Chapman.
-# Copyright 2005-2015 by Peter Cock.
+# Copyright 2005-2016 by Peter Cock.
# Copyright 2006-2009 Michiel de Hoon.
# All rights reserved.
# This code is part of the Biopython distribution and governed by its
@@ -17,9 +17,8 @@ What's here:
Base class to hold a Feature
----------------------------
-classes:
-
- - SeqFeature
+Classes:
+ - SeqFeature
Hold information about a Reference
----------------------------------
@@ -27,9 +26,8 @@ Hold information about a Reference
This is an attempt to create a General class to hold Reference type
information.
-classes:
-
- - Reference
+Classes:
+ - Reference
Specify locations of a feature on a Sequence
--------------------------------------------
@@ -38,22 +36,23 @@ This aims to handle, in Ewan Birney's words, 'the dreaded fuzziness issue'.
This has the advantages of allowing us to handle fuzzy stuff in case anyone
needs it, and also be compatible with BioPerl etc and BioSQL.
-classes:
+Classes:
+ - FeatureLocation - Specify the start and end location of a feature.
+ - CompoundLocation - Collection of FeatureLocation objects (for joins etc).
+ - ExactPosition - Specify the position as being exact.
+ - WithinPosition - Specify a position occurring within some range.
+ - BetweenPosition - Specify a position occurring between a range (OBSOLETE?).
+ - BeforePosition - Specify the position as being found before some base.
+ - AfterPosition - Specify the position as being found after some base.
+ - OneOfPosition - Specify a position where the location can be multiple positions.
+ - UnknownPosition - Represents missing information like '?' in UniProt.
- - FeatureLocation - Specify the start and end location of a feature.
- - CompoundLocation - Collection of FeatureLocation objects (for joins etc).
-
- - ExactPosition - Specify the position as being exact.
- - WithinPosition - Specify a position occurring within some range.
- - BetweenPosition - Specify a position occurring between a range (OBSOLETE?).
- - BeforePosition - Specify the position as being found before some base.
- - AfterPosition - Specify the position as being found after some base.
- - OneOfPosition - Specify a position where the location can be multiple positions.
- - UnknownPosition - Represents missing information like '?' in UniProt.
"""
from __future__ import print_function
+from collections import OrderedDict
+
from Bio._py3k import _is_int_or_long
from Bio.Seq import MutableSeq, reverse_complement
@@ -63,29 +62,29 @@ class SeqFeature(object):
"""Represent a Sequence Feature on an object.
Attributes:
+ - location - the location of the feature on the sequence (FeatureLocation)
+ - type - the specified type of the feature (ie. CDS, exon, repeat...)
+ - location_operator - a string specifying how this SeqFeature may
+ be related to others. For example, in the example GenBank feature
+ shown below, the location_operator would be "join". This is a proxy
+ for feature.location.operator and only applies to compound locations.
+ - strand - A value specifying on which strand (of a DNA sequence, for
+ instance) the feature deals with. 1 indicates the plus strand, -1
+ indicates the minus strand, 0 indicates stranded but unknown (? in GFF3),
+ while the default of None indicates that strand doesn't apply (dot in GFF3,
+ e.g. features on proteins). Note this is a shortcut for accessing the
+ strand property of the feature's location.
+ - id - A string identifier for the feature.
+ - ref - A reference to another sequence. This could be an accession
+ number for some different sequence. Note this is a shortcut for the
+ reference property of the feature's location.
+ - ref_db - A different database for the reference accession number.
+ Note this is a shortcut for the reference property of the location
+ - qualifiers - A dictionary of qualifiers on the feature. These are
+ analogous to the qualifiers from a GenBank feature table. The keys of
+ the dictionary are qualifier names, the values are the qualifier
+ values. As of Biopython 1.69 this is an ordered dictionary.
- - location - the location of the feature on the sequence (FeatureLocation)
- - type - the specified type of the feature (ie. CDS, exon, repeat...)
- - location_operator - a string specifying how this SeqFeature may
- be related to others. For example, in the example GenBank feature
- shown below, the location_operator would be "join". This is a proxy
- for feature.location.operator and only applies to compound locations.
- - strand - A value specifying on which strand (of a DNA sequence, for
- instance) the feature deals with. 1 indicates the plus strand, -1
- indicates the minus strand, 0 indicates stranded but unknown (? in GFF3),
- while the default of None indicates that strand doesn't apply (dot in GFF3,
- e.g. features on proteins). Note this is a shortcut for accessing the
- strand property of the feature's location.
- - id - A string identifier for the feature.
- - ref - A reference to another sequence. This could be an accession
- number for some different sequence. Note this is a shortcut for the
- reference property of the feature's location.
- - ref_db - A different database for the reference accession number.
- Note this is a shortcut for the reference property of the location
- - qualifiers - A dictionary of qualifiers on the feature. These are
- analogous to the qualifiers from a GenBank feature table. The keys of
- the dictionary are qualifier names, the values are the qualifier
- values.
"""
def __init__(self, location=None, type='', location_operator='',
@@ -150,7 +149,7 @@ class SeqFeature(object):
self.strand = strand
self.id = id
if qualifiers is None:
- qualifiers = {}
+ qualifiers = OrderedDict()
self.qualifiers = qualifiers
if sub_features is not None:
raise TypeError("Rather than sub_features, use a CompoundFeatureLocation")
@@ -162,9 +161,11 @@ class SeqFeature(object):
self.ref_db = ref_db
def _get_strand(self):
+ """Get function for the strand property (PRIVATE)."""
return self.location.strand
def _set_strand(self, value):
+ """Set function for the strand property (PRIVATE)."""
try:
self.location.strand = value
except AttributeError:
@@ -181,12 +182,14 @@ class SeqFeature(object):
""")
def _get_ref(self):
+ """Get function for the reference property (PRIVATE)."""
try:
return self.location.ref
except AttributeError:
return None
def _set_ref(self, value):
+ """Set function for the reference property (PRIVATE)."""
try:
self.location.ref = value
except AttributeError:
@@ -202,12 +205,14 @@ class SeqFeature(object):
""")
def _get_ref_db(self):
+ """Get function for the database reference property (PRIVATE)."""
try:
return self.location.ref_db
except AttributeError:
return None
def _set_ref_db(self, value):
+ """Set function for the database reference property (PRIVATE)."""
self.location.ref_db = value
ref_db = property(fget=_get_ref_db, fset=_set_ref_db,
doc="""Feature location reference's database.
@@ -216,12 +221,14 @@ class SeqFeature(object):
""")
def _get_location_operator(self):
+ """Get function for the location operator property (PRIVATE)."""
try:
return self.location.operator
except AttributeError:
return None
def _set_location_operator(self, value):
+ """Set function for the location operator property."""
if value:
if isinstance(self.location, CompoundLocation):
self.location.operator = value
@@ -235,7 +242,7 @@ class SeqFeature(object):
doc="Location operator for compound locations (e.g. join).")
def __repr__(self):
- """A string representation of the record for debugging."""
+ """Represent the feature as a string for debugging."""
answer = "%s(%s" % (self.__class__.__name__, repr(self.location))
if self.type:
answer += ", type=%s" % repr(self.type)
@@ -251,8 +258,7 @@ class SeqFeature(object):
return answer
def __str__(self):
- """A readable summary of the feature intended to be printed to screen.
- """
+ """Return the full feature as a python string."""
out = "type: %s\n" % self.type
out += "location: %s\n" % self.location
if self.id and self.id != "<unknown id>":
@@ -264,17 +270,18 @@ class SeqFeature(object):
return out
def _shift(self, offset):
- """Returns a copy of the feature with its location shifted (PRIVATE).
+ """Return a copy of the feature with its location shifted (PRIVATE).
- The annotation qaulifiers are copied."""
+ The annotation qaulifiers are copied.
+ """
return SeqFeature(location=self.location._shift(offset),
type=self.type,
location_operator=self.location_operator,
id=self.id,
- qualifiers=dict(self.qualifiers.items()))
+ qualifiers=OrderedDict(self.qualifiers.items()))
def _flip(self, length):
- """Returns a copy of the feature with its location flipped (PRIVATE).
+ """Return a copy of the feature with its location flipped (PRIVATE).
The argument length gives the length of the parent sequence. For
example a location 0..20 (+1 strand) with parent length 30 becomes
@@ -287,10 +294,10 @@ class SeqFeature(object):
type=self.type,
location_operator=self.location_operator,
id=self.id,
- qualifiers=dict(self.qualifiers.items()))
+ qualifiers=OrderedDict(self.qualifiers.items()))
def extract(self, parent_sequence):
- """Extract feature sequence from the supplied parent sequence.
+ """Extract the feature's sequence from supplied parent sequence.
The parent_sequence can be a Seq like object or a string, and will
generally return an object of the same type. The exception to this is
@@ -347,7 +354,7 @@ class SeqFeature(object):
__nonzero__ = __bool__
def __len__(self):
- """Returns the length of the region described by a feature.
+ """Return the length of the region where the feature is located.
>>> from Bio.Seq import Seq
>>> from Bio.Alphabet import generic_protein
@@ -462,19 +469,21 @@ class Reference(object):
"""Represent a Generic Reference object.
Attributes:
- o location - A list of Location objects specifying regions of
- the sequence that the references correspond to. If no locations are
- specified, the entire sequence is assumed.
- o authors - A big old string, or a list split by author, of authors
- for the reference.
- o title - The title of the reference.
- o journal - Journal the reference was published in.
- o medline_id - A medline reference for the article.
- o pubmed_id - A pubmed reference for the article.
- o comment - A place to stick any comments about the reference.
+ - location - A list of Location objects specifying regions of
+ the sequence that the references correspond to. If no locations are
+ specified, the entire sequence is assumed.
+ - authors - A big old string, or a list split by author, of authors
+ for the reference.
+ - title - The title of the reference.
+ - journal - Journal the reference was published in.
+ - medline_id - A medline reference for the article.
+ - pubmed_id - A pubmed reference for the article.
+ - comment - A place to stick any comments about the reference.
+
"""
def __init__(self):
+ """Initialize the class."""
self.location = []
self.authors = ''
self.consrtm = ''
@@ -485,8 +494,7 @@ class Reference(object):
self.comment = ''
def __str__(self):
- """Output an informative string for debugging.
- """
+ """Return the full Reference object as a python string."""
out = ""
for single_location in self.location:
out += "location: %s\n" % single_location
@@ -501,15 +509,16 @@ class Reference(object):
return out
def __repr__(self):
+ """Represent the Reference object as a string for debugging."""
# TODO - Update this is __init__ later accpets values
return "%s(title=%s, ...)" % (self.__class__.__name__,
repr(self.title))
def __eq__(self, other):
- """Check if two Reference objects should be considered equal
+ """Check if two Reference objects should be considered equal.
- Note that the location is not compared, as __eq__ for the
- FeatureLocation class is not defined.
+ Note prior to Biopython 1.70 the location was not compared, as
+ until then __eq__ for the FeatureLocation class was not defined.
"""
return self.authors == other.authors and \
self.consrtm == other.consrtm and \
@@ -517,7 +526,13 @@ class Reference(object):
self.journal == other.journal and \
self.medline_id == other.medline_id and \
self.pubmed_id == other.pubmed_id and \
- self.comment == other.comment
+ self.comment == other.comment and \
+ self.location == other.location
+
+ def __ne__(self, other):
+ """Implement the not-equal operand."""
+ # This is needed for py2, but not for py3.
+ return not self == other
# --- Handling feature locations
@@ -587,7 +602,7 @@ class FeatureLocation(object):
"""
def __init__(self, start, end, strand=None, ref=None, ref_db=None):
- """Specify the start, end, strand etc of a sequence feature.
+ """Initialize the class.
start and end arguments specify the values where the feature begins
and ends. These can either by any of the ``*Position`` objects that
@@ -659,9 +674,11 @@ class FeatureLocation(object):
self.ref_db = ref_db
def _get_strand(self):
+ """Get function for the strand property (PRIVATE)."""
return self._strand
def _set_strand(self, value):
+ """Set function for the strand property (PRIVATE)."""
if value not in [+1, -1, 0, None]:
raise ValueError("Strand should be +1, -1, 0 or None, not %r"
% value)
@@ -671,7 +688,7 @@ class FeatureLocation(object):
doc="Strand of the location (+1, -1, 0 or None).")
def __str__(self):
- """Returns a representation of the location (with python counting).
+ """Return a representation of the FeatureLocation object (with python counting).
For the simple case this uses the python splicing syntax, [122:150]
(zero based counting) which GenBank would call 123..150 (one based
@@ -694,7 +711,7 @@ class FeatureLocation(object):
return answer + "(?)"
def __repr__(self):
- """A string representation of the location for debugging."""
+ """Represent the FeatureLocation object as a string for debugging."""
optional = ""
if self.strand is not None:
optional += ", strand=%r" % self.strand
@@ -706,7 +723,7 @@ class FeatureLocation(object):
% (self.__class__.__name__, self.start, self.end, optional)
def __add__(self, other):
- """Combine location with another feature location, or shift it.
+ """Combine location with another FeatureLocation object, or shift it.
You can add two feature locations to make a join CompoundLocation:
@@ -747,20 +764,21 @@ class FeatureLocation(object):
"""
if isinstance(other, FeatureLocation):
return CompoundLocation([self, other])
- elif isinstance(other, int):
+ elif _is_int_or_long(other):
return self._shift(other)
else:
# This will allow CompoundLocation's __radd__ to be called:
return NotImplemented
def __radd__(self, other):
- if isinstance(other, int):
+ """Add a feature locationanother FeatureLocation object to the left."""
+ if _is_int_or_long(other):
return self._shift(other)
else:
return NotImplemented
def __nonzero__(self):
- """Returns True regardless of the length of the feature.
+ """Return True regardless of the length of the feature.
This behaviour is for backwards compatibility, since until the
__len__ method was added, a FeatureLocation always evaluated as True.
@@ -774,7 +792,7 @@ class FeatureLocation(object):
return True
def __len__(self):
- """Returns the length of the region described by the FeatureLocation.
+ """Return the length of the region described by the FeatureLocation object.
Note that extra care may be needed for fuzzy locations, e.g.
@@ -787,7 +805,7 @@ class FeatureLocation(object):
return int(self._end) - int(self._start)
def __contains__(self, value):
- """Check if an integer position is within the FeatureLocation.
+ """Check if an integer position is within the FeatureLocation object.
Note that extra care may be needed for fuzzy locations, e.g.
@@ -799,7 +817,7 @@ class FeatureLocation(object):
>>> [i for i in range(15) if i in loc]
[5, 6, 7, 8, 9]
"""
- if not isinstance(value, int):
+ if not _is_int_or_long(value):
raise ValueError("Currently we only support checking for integer "
"positions being within a FeatureLocation.")
if value < self._start or value >= self._end:
@@ -808,7 +826,7 @@ class FeatureLocation(object):
return True
def __iter__(self):
- """Iterate over the parent positions within the FeatureLocation.
+ """Iterate over the parent positions within the FeatureLocation object.
>>> from Bio.SeqFeature import FeatureLocation
>>> from Bio.SeqFeature import BeforePosition, AfterPosition
@@ -839,8 +857,23 @@ class FeatureLocation(object):
for i in range(self._start, self._end):
yield i
+ def __eq__(self, other):
+ """Implement equality by comparing all the location attributes."""
+ if not isinstance(other, FeatureLocation):
+ return False
+ return self._start == other.start and \
+ self._end == other.end and \
+ self._strand == other.strand and \
+ self.ref == other.ref and \
+ self.ref_db == other.ref_db
+
+ def __ne__(self, other):
+ """Implement the not-equal operand."""
+ # This is needed for py2, but not for py3.
+ return not self == other
+
def _shift(self, offset):
- """Returns a copy of the location shifted by the offset (PRIVATE)."""
+ """Return a copy of the FeatureLocation shifted by an offset (PRIVATE)."""
# TODO - What if offset is a fuzzy position?
if self.ref or self.ref_db:
# TODO - Return self?
@@ -850,7 +883,7 @@ class FeatureLocation(object):
strand=self.strand)
def _flip(self, length):
- """Returns a copy of the location after the parent is reversed (PRIVATE)."""
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
if self.ref or self.ref_db:
# TODO - Return self?
raise ValueError("Feature references another sequence.")
@@ -868,7 +901,7 @@ class FeatureLocation(object):
@property
def parts(self):
- """Read only list of parts (always one, the Feature Location).
+ """Read only list of sections (always one, the FeatureLocation object).
This is a convenience property allowing you to write code handling
both simple FeatureLocation objects (with one part) and more complex
@@ -925,7 +958,21 @@ class FeatureLocation(object):
raise
def extract(self, parent_sequence):
- """Extract feature sequence from the supplied parent sequence."""
+ """Extract the sequence from supplied parent sequence using the FeatureLocation object.
+
+ The parent_sequence can be a Seq like object or a string, and will
+ generally return an object of the same type. The exception to this is
+ a MutableSeq as the parent sequence will return a Seq object.
+
+ >>> from Bio.Seq import Seq
+ >>> from Bio.Alphabet import generic_protein
+ >>> from Bio.SeqFeature import FeatureLocation
+ >>> seq = Seq("MKQHKAMIVALIVICITAVVAAL", generic_protein)
+ >>> feature_loc = FeatureLocation(8, 15)
+ >>> feature_loc.extract(seq)
+ Seq('VALIVIC', ProteinAlphabet())
+
+ """
if self.ref or self.ref_db:
# TODO - Take a dictionary as an optional argument?
raise ValueError("Feature references another sequence.")
@@ -947,7 +994,7 @@ class CompoundLocation(object):
"""For handling joins etc where a feature location has several parts."""
def __init__(self, parts, operator="join"):
- """Create a compound location with several parts.
+ """Initialize the class.
>>> from Bio.SeqFeature import FeatureLocation, CompoundLocation
>>> f1 = FeatureLocation(10, 40, strand=+1)
@@ -1019,15 +1066,16 @@ class CompoundLocation(object):
"CompoundLocation should have at least 2 parts, not %r" % parts)
def __str__(self):
- """Returns a representation of the location (with python counting)."""
+ """Return a representation of the CompoundLocation object (with python counting)."""
return "%s{%s}" % (self.operator, ", ".join(str(loc) for loc in self.parts))
def __repr__(self):
- """String representation of the location for debugging."""
+ """Represent the CompoundLocation object as string for debugging."""
return "%s(%r, %r)" % (self.__class__.__name__,
self.parts, self.operator)
def _get_strand(self):
+ """Get function for the strand property (PRIVATE)."""
# Historically a join on the reverse strand has been represented
# in Biopython with both the parent SeqFeature and its children
# (the exons for a CDS) all given a strand of -1. Likewise, for
@@ -1040,6 +1088,7 @@ class CompoundLocation(object):
return None # i.e. mixed strands
def _set_strand(self, value):
+ """Set function for the strand property (PRIVATE)."""
# Should this be allowed/encouraged?
for loc in self.parts:
loc.strand = value
@@ -1115,29 +1164,29 @@ class CompoundLocation(object):
raise ValueError("Mixed operators %s and %s"
% (self.operator, other.operator))
return CompoundLocation(self.parts + other.parts, self.operator)
- elif isinstance(other, int):
+ elif _is_int_or_long(other):
return self._shift(other)
else:
raise NotImplementedError
def __radd__(self, other):
- """Combine locations."""
+ """Add a feature to the left."""
if isinstance(other, FeatureLocation):
return CompoundLocation([other] + self.parts, self.operator)
- elif isinstance(other, int):
+ elif _is_int_or_long(other):
return self._shift(other)
else:
raise NotImplementedError
def __contains__(self, value):
- """Check if an integer position is within the location."""
+ """Check if an integer position is within the CompoundLocation object."""
for loc in self.parts:
if value in loc:
return True
return False
def __nonzero__(self):
- """Returns True regardless of the length of the feature.
+ """Return True regardless of the length of the feature.
This behaviour is for backwards compatibility, since until the
__len__ method was added, a FeatureLocation always evaluated as True.
@@ -1151,20 +1200,40 @@ class CompoundLocation(object):
return True
def __len__(self):
+ """Return the length of the CompoundLocation object."""
return sum(len(loc) for loc in self.parts)
def __iter__(self):
+ """Iterate over the parent positions within the CompoundLocation object."""
for loc in self.parts:
for pos in loc:
yield pos
+ def __eq__(self, other):
+ """Check if all parts of CompoundLocation are equal to all parts of other CompoundLocation."""
+ if not isinstance(other, CompoundLocation):
+ return False
+ if len(self.parts) != len(other.parts):
+ return False
+ if self.operator != other.operator:
+ return False
+ for self_part, other_part in zip(self.parts, other.parts):
+ if self_part != other_part:
+ return False
+ return True
+
+ def __ne__(self, other):
+ """Implement the not-equal operand."""
+ # This is needed for py2, but not for py3.
+ return not self == other
+
def _shift(self, offset):
- """Returns a copy of the location shifted by the offset (PRIVATE)."""
+ """Return a copy of the CompoundLocation shifted by an offset (PRIVATE)."""
return CompoundLocation([loc._shift(offset) for loc in self.parts],
self.operator)
def _flip(self, length):
- """Returns a copy of the location after the parent is reversed (PRIVATE).
+ """Return a copy of the locations after the parent is reversed (PRIVATE).
Note that the order of the parts is NOT reversed too. Consider a CDS
on the forward strand with exons small, medium and large (in length).
@@ -1295,16 +1364,32 @@ class CompoundLocation(object):
@property
def ref(self):
- """CompoundLocation's don't have a ref (dummy method for API compatibility)."""
+ """Not present in CompoundLocation, dummy method for API compatibility."""
return None
@property
def ref_db(self):
- """CompoundLocation's don't have a ref_db (dummy method for API compatibility)."""
+ """Not present in CompoundLocation, dummy method for API compatibility."""
return None
def extract(self, parent_sequence):
- """Extract feature sequence from the supplied parent sequence."""
+ """Extract the sequence from supplied parent sequence using the CompoundLocation object.
+
+ The parent_sequence can be a Seq like object or a string, and will
+ generally return an object of the same type. The exception to this is
+ a MutableSeq as the parent sequence will return a Seq object.
+
+ >>> from Bio.Seq import Seq
+ >>> from Bio.Alphabet import generic_protein
+ >>> from Bio.SeqFeature import FeatureLocation, CompoundLocation
+ >>> seq = Seq("MKQHKAMIVALIVICITAVVAAL", generic_protein)
+ >>> fl1 = FeatureLocation(2, 8)
+ >>> fl2 = FeatureLocation(10, 15)
+ >>> fl3 = CompoundLocation([fl1,fl2])
+ >>> fl3.extract(seq)
+ Seq('QHKAMILIVIC', ProteinAlphabet())
+
+ """
# This copes with mixed strand features & all on reverse:
parts = [loc.extract(parent_sequence) for loc in self.parts]
# We use addition rather than a join to avoid alphabet issues:
@@ -1318,17 +1403,18 @@ class AbstractPosition(object):
"""Abstract base class representing a position."""
def __repr__(self):
- """String representation of the location for debugging."""
+ """Represent the AbstractPosition object as a string for debugging."""
return "%s(...)" % (self.__class__.__name__)
class ExactPosition(int, AbstractPosition):
"""Specify the specific position of a boundary.
- o position - The position of the boundary.
- o extension - An optional argument which must be zero since we don't
- have an extension. The argument is provided so that the same number of
- arguments can be passed to all position types.
+ Arguments:
+ - position - The position of the boundary.
+ - extension - An optional argument which must be zero since we don't
+ have an extension. The argument is provided so that the same number
+ of arguments can be passed to all position types.
In this case, there is no fuzziness associated with the position.
@@ -1355,14 +1441,16 @@ class ExactPosition(int, AbstractPosition):
15
"""
+
def __new__(cls, position, extension=0):
+ """Create an ExactPosition object."""
if extension != 0:
raise AttributeError("Non-zero extension %s for exact position."
% extension)
return int.__new__(cls, position)
def __repr__(self):
- """String representation of the ExactPosition location for debugging."""
+ """Represent the ExactPosition object as a string for debugging."""
return "%s(%i)" % (self.__class__.__name__, int(self))
@property
@@ -1372,14 +1460,16 @@ class ExactPosition(int, AbstractPosition):
@property
def extension(self):
- """Legacy attribute to get extension (zero) as integer (OBSOLETE)."""
+ """Not present in this object, return zero (OBSOLETE)."""
return 0
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
# By default preserve any subclass
return self.__class__(int(self) + offset)
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
# By default perserve any subclass
return self.__class__(length - int(self))
@@ -1390,6 +1480,7 @@ class UncertainPosition(ExactPosition):
This is used in UniProt, e.g. ?222 for uncertain position 222, or in the
XML format explicitly marked as uncertain. Does not apply to GenBank/EMBL.
"""
+
pass
@@ -1400,15 +1491,16 @@ class UnknownPosition(AbstractPosition):
"""
def __repr__(self):
- """String representation of the UnknownPosition location for debugging."""
+ """Represent the UnknownPosition object as a string for debugging."""
return "%s()" % self.__class__.__name__
def __hash__(self):
+ """Return the hash value of the UnknownPosition object."""
return hash(None)
@property
def position(self):
- """Legacy attribute to get position (None) (OBSOLETE)."""
+ """Legacy attribute to get location (None) (OBSOLETE)."""
return None
@property
@@ -1417,9 +1509,11 @@ class UnknownPosition(AbstractPosition):
return 0
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
return self
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
return self
@@ -1427,9 +1521,9 @@ class WithinPosition(int, AbstractPosition):
"""Specify the position of a boundary within some coordinates.
Arguments:
- o position - The default integer position
- o left - The start (left) position of the boundary
- o right - The end (right) position of the boundary
+ - position - The default integer position
+ - left - The start (left) position of the boundary
+ - right - The end (right) position of the boundary
This allows dealing with a position like ((1.4)..100). This
indicates that the start of the sequence is somewhere between 1
@@ -1507,7 +1601,9 @@ class WithinPosition(int, AbstractPosition):
True
"""
+
def __new__(cls, position, left, right):
+ """Create a WithinPosition object."""
assert position == left or position == right, \
"WithinPosition: %r should match left %r or right %r" \
% (position, left, right)
@@ -1517,12 +1613,13 @@ class WithinPosition(int, AbstractPosition):
return obj
def __repr__(self):
- """String representation of the WithinPosition location for debugging."""
+ """Represent the WithinPosition object as a string for debugging."""
return "%s(%i, left=%i, right=%i)" \
% (self.__class__.__name__, int(self),
self._left, self._right)
def __str__(self):
+ """Return a representation of the WithinPosition object (with python counting)."""
return "(%s.%s)" % (self._left, self._right)
@property
@@ -1536,11 +1633,13 @@ class WithinPosition(int, AbstractPosition):
return self._right - self._left
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
return self.__class__(int(self) + offset,
self._left + offset,
self._right + offset)
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
return self.__class__(length - int(self),
length - self._right,
length - self._left)
@@ -1550,9 +1649,9 @@ class BetweenPosition(int, AbstractPosition):
"""Specify the position of a boundary between two coordinates (OBSOLETE?).
Arguments:
- o position - The default integer position
- o left - The start (left) position of the boundary
- o right - The end (right) position of the boundary
+ - position - The default integer position
+ - left - The start (left) position of the boundary
+ - right - The end (right) position of the boundary
This allows dealing with a position like 123^456. This
indicates that the start of the sequence is somewhere between
@@ -1611,7 +1710,9 @@ class BetweenPosition(int, AbstractPosition):
i.e. For equality (and sorting) the position objects behave like
integers.
"""
+
def __new__(cls, position, left, right):
+ """Create a new instance in BetweenPosition object."""
assert position == left or position == right
obj = int.__new__(cls, position)
obj._left = left
@@ -1619,12 +1720,13 @@ class BetweenPosition(int, AbstractPosition):
return obj
def __repr__(self):
- """String representation of the WithinPosition location for debugging."""
+ """Represent the BetweenPosition object as a string for debugging."""
return "%s(%i, left=%i, right=%i)" \
% (self.__class__.__name__, int(self),
self._left, self._right)
def __str__(self):
+ """Return a representation of the BetweenPosition object (with python counting)."""
return "(%s^%s)" % (self._left, self._right)
@property
@@ -1638,11 +1740,13 @@ class BetweenPosition(int, AbstractPosition):
return self._right - self._left
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
return self.__class__(int(self) + offset,
self._left + offset,
self._right + offset)
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
return self.__class__(length - int(self),
length - self._right,
length - self._left)
@@ -1652,10 +1756,10 @@ class BeforePosition(int, AbstractPosition):
"""Specify a position where the actual location occurs before it.
Arguments:
- o position - The upper boundary of where the location can occur.
- o extension - An optional argument which must be zero since we don't
- have an extension. The argument is provided so that the same number of
- arguments can be passed to all position types.
+ - position - The upper boundary of where the location can occur.
+ - extension - An optional argument which must be zero since we don't
+ have an extension. The argument is provided so that the same number
+ of arguments can be passed to all position types.
This is used to specify positions like (<10..100) where the location
occurs somewhere before position 10.
@@ -1680,8 +1784,10 @@ class BeforePosition(int, AbstractPosition):
Just remember that for equality and sorting the position objects act
like integers.
"""
+
# Subclasses int so can't use __init__
def __new__(cls, position, extension=0):
+ """Create a new instance in BeforePosition object."""
if extension != 0:
raise AttributeError("Non-zero extension %s for exact position."
% extension)
@@ -1698,16 +1804,19 @@ class BeforePosition(int, AbstractPosition):
return 0
def __repr__(self):
- """A string representation of the location for debugging."""
+ """Represent the location as a string for debugging."""
return "%s(%i)" % (self.__class__.__name__, int(self))
def __str__(self):
+ """Return a representation of the BeforePosition object (with python counting)."""
return "<%s" % self.position
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
return self.__class__(int(self) + offset)
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
return AfterPosition(length - int(self))
@@ -1715,10 +1824,10 @@ class AfterPosition(int, AbstractPosition):
"""Specify a position where the actual location is found after it.
Arguments:
- o position - The lower boundary of where the location can occur.
- o extension - An optional argument which must be zero since we don't
- have an extension. The argument is provided so that the same number of
- arguments can be passed to all position types.
+ - position - The lower boundary of where the location can occur.
+ - extension - An optional argument which must be zero since we don't
+ have an extension. The argument is provided so that the same number
+ of arguments can be passed to all position types.
This is used to specify positions like (>10..100) where the location
occurs somewhere after position 10.
@@ -1750,8 +1859,10 @@ class AfterPosition(int, AbstractPosition):
Just remember that for equality and sorting the position objects act
like integers.
"""
+
# Subclasses int so can't use __init__
def __new__(cls, position, extension=0):
+ """Create a new instance of the AfterPosition object."""
if extension != 0:
raise AttributeError("Non-zero extension %s for exact position."
% extension)
@@ -1768,16 +1879,19 @@ class AfterPosition(int, AbstractPosition):
return 0
def __repr__(self):
- """A string representation of the location for debugging."""
+ """Represent the location as a string for debugging."""
return "%s(%i)" % (self.__class__.__name__, int(self))
def __str__(self):
+ """Return a representation of the AfterPosition object (with python counting)."""
return ">%s" % self.position
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
return self.__class__(int(self) + offset)
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
return BeforePosition(length - int(self))
@@ -1831,8 +1945,9 @@ class OneOfPosition(int, AbstractPosition):
True
"""
+
def __new__(cls, position, choices):
- """Initialize with a set of posssible positions.
+ """Initialize with a set of possible positions.
position_list is a list of AbstractPosition derived objects,
specifying possible locations.
@@ -1857,11 +1972,12 @@ class OneOfPosition(int, AbstractPosition):
return max(positions) - min(positions)
def __repr__(self):
- """String representation of the OneOfPosition location for debugging."""
+ """Represent the OneOfPosition object as a string for debugging."""
return "%s(%i, choices=%r)" % (self.__class__.__name__,
int(self), self.position_choices)
def __str__(self):
+ """Return a representation of the OneOfPosition object (with python counting)."""
out = "one-of("
for position in self.position_choices:
out += "%s," % position
@@ -1870,10 +1986,12 @@ class OneOfPosition(int, AbstractPosition):
return out
def _shift(self, offset):
+ """Return a copy of the position object with its location shifted (PRIVATE)."""
return self.__class__(int(self) + offset,
[p._shift(offset) for p in self.position_choices])
def _flip(self, length):
+ """Return a copy of the location after the parent is reversed (PRIVATE)."""
return self.__class__(length - int(self),
[p._flip(length) for p in self.position_choices[::-1]])
@@ -1882,15 +2000,15 @@ class PositionGap(object):
"""Simple class to hold information about a gap between positions."""
def __init__(self, gap_size):
- """Intialize with a position object containing the gap information.
- """
+ """Intialize with a position object containing the gap information."""
self.gap_size = gap_size
def __repr__(self):
- """A string representation of the position gap for debugging."""
+ """Represent the position gap as a string for debugging."""
return "%s(%s)" % (self.__class__.__name__, repr(self.gap_size))
def __str__(self):
+ """Return a representation of the PositionGap object (with python counting)."""
out = "gap(%s)" % self.gap_size
return out
diff --git a/Bio/SeqIO/AbiIO.py b/Bio/SeqIO/AbiIO.py
index efeac1d..eeed202 100644
--- a/Bio/SeqIO/AbiIO.py
+++ b/Bio/SeqIO/AbiIO.py
@@ -25,7 +25,7 @@ from Bio.Alphabet.IUPAC import ambiguous_dna, unambiguous_dna
from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
-from Bio._py3k import _bytes_to_string, _as_bytes
+from Bio._py3k import _bytes_to_string
from Bio._py3k import zip
# dictionary for determining which tags goes into SeqRecord annotation
@@ -331,8 +331,7 @@ for tag in _INSTRUMENT_SPECIFIC_TAGS.values():
def AbiIterator(handle, alphabet=None, trim=False):
- """Iterator for the Abi file format.
- """
+ """Iterator for the Abi file format."""
# raise exception is alphabet is not dna
if alphabet is not None:
if isinstance(Alphabet._get_base_alphabet(alphabet),
@@ -354,7 +353,7 @@ def AbiIterator(handle, alphabet=None, trim=False):
if not marker:
# handle empty file gracefully
raise StopIteration
- if marker != _as_bytes('ABIF'):
+ if marker != b"ABIF":
raise IOError('File should start ABIF, not %r' % marker)
# dirty hack for handling time information
@@ -401,32 +400,47 @@ def AbiIterator(handle, alphabet=None, trim=False):
# raw data (for advanced end users benefit)
annot['abif_raw'] = raw
- # use the file name as SeqRecord.name if available
- try:
- file_name = basename(handle.name).replace('.ab1', '')
- except AttributeError:
- file_name = ""
- record = SeqRecord(Seq(seq, alphabet),
- id=sample_id, name=file_name,
- description='',
- annotations=annot,
- letter_annotations={'phred_quality': qual})
-
- if not trim:
+ # fsa check
+ is_fsa_file = set(['SpNm1', 'LIMS1', 'CTID1']).issubset(raw)
+
+ if is_fsa_file:
+ try:
+ file_name = basename(handle.name).replace('.fsa', '')
+ except AttributeError:
+ file_name = ""
+ sample_id = raw['LIMS1']
+ description = raw['CTID1']
+ record = SeqRecord(Seq(''),
+ id=sample_id,
+ name=file_name,
+ description=description,
+ annotations=annot)
+
+ else:
+ # use the file name as SeqRecord.name if available
+ try:
+ file_name = basename(handle.name).replace('.ab1', '')
+ except AttributeError:
+ file_name = ""
+ record = SeqRecord(Seq(seq, alphabet),
+ id=sample_id, name=file_name,
+ description='',
+ annotations=annot,
+ letter_annotations={'phred_quality': qual})
+
+ if not trim or is_fsa_file:
yield record
else:
yield _abi_trim(record)
def _AbiTrimIterator(handle):
- """Iterator for the Abi file format that yields trimmed SeqRecord objects.
- """
+ """Iterator for the Abi file format that yields trimmed SeqRecord objects."""
return AbiIterator(handle, trim=True)
def _abi_parse_header(header, handle):
- """Generator that returns directory contents.
- """
+ """Generator that returns directory contents."""
# header structure (after ABIF marker):
# file version, tag name, tag number,
# element type code, element size, number of elements
@@ -479,7 +493,6 @@ def _abi_trim(seq_record):
http://www.phrap.org/phredphrap/phred.html
http://www.clcbio.com/manual/genomics/Quality_abif_trimming.html
"""
-
start = False # flag for starting position of trimmed sequence
segment = 20 # minimum sequence length
trim_start = 0 # init start index
@@ -519,9 +532,10 @@ def _parse_tag_data(elem_code, elem_num, raw_data):
"""Returns single data value.
Arguments:
- - elem_code - What kind of data
- - elem_num - How many data points
- - raw_data - abi file object from which the tags would be unpacked
+ - elem_code - What kind of data
+ - elem_num - How many data points
+ - raw_data - abi file object from which the tags would be unpacked
+
"""
if elem_code in _BYTEFMT:
# because '>1s' unpack differently from '>s'
@@ -557,5 +571,6 @@ def _parse_tag_data(elem_code, elem_num, raw_data):
else:
return None
+
if __name__ == '__main__':
pass
diff --git a/Bio/SeqIO/FastaIO.py b/Bio/SeqIO/FastaIO.py
index d279f18..96f4073 100644
--- a/Bio/SeqIO/FastaIO.py
+++ b/Bio/SeqIO/FastaIO.py
@@ -9,7 +9,8 @@
"""Bio.SeqIO support for the "fasta" (aka FastA or Pearson) file format.
-You are expected to use this module via the Bio.SeqIO functions."""
+You are expected to use this module via the Bio.SeqIO functions.
+"""
from __future__ import print_function
@@ -76,7 +77,6 @@ def FastaIterator(handle, alphabet=single_letter_alphabet, title2ids=None):
"""Generator function to iterate over Fasta records (as SeqRecord objects).
Arguments:
-
- handle - input file
- alphabet - optional alphabet
- title2ids - A function that, when given the title of the FASTA
@@ -132,11 +132,11 @@ def FastaIterator(handle, alphabet=single_letter_alphabet, title2ids=None):
class FastaWriter(SequentialSequenceWriter):
"""Class to write Fasta format files."""
+
def __init__(self, handle, wrap=60, record2title=None):
"""Create a Fasta writer.
Arguments:
-
- handle - Handle to an output file, e.g. as returned
by open(filename, "w")
- wrap - Optional line length used to wrap sequence lines.
@@ -210,6 +210,7 @@ class FastaWriter(SequentialSequenceWriter):
else:
self.handle.write(data + "\n")
+
if __name__ == "__main__":
from Bio._utils import run_doctest
run_doctest(verbose=0)
diff --git a/Bio/SeqIO/IgIO.py b/Bio/SeqIO/IgIO.py
index 7a1380f..51b3f4c 100644
--- a/Bio/SeqIO/IgIO.py
+++ b/Bio/SeqIO/IgIO.py
@@ -110,6 +110,7 @@ def IgIterator(handle, alphabet=single_letter_alphabet):
# We should be at the end of the file now
assert not line
+
if __name__ == "__main__":
from Bio._utils import run_doctest
run_doctest(verbose=0)
diff --git a/Bio/SeqIO/InsdcIO.py b/Bio/SeqIO/InsdcIO.py
index 72e8e43..46f1003 100644
--- a/Bio/SeqIO/InsdcIO.py
+++ b/Bio/SeqIO/InsdcIO.py
@@ -10,8 +10,7 @@ You are expected to use this module via the Bio.SeqIO functions.
Note that internally this module calls Bio.GenBank to do the actual
parsing of GenBank, EMBL and IMGT files.
-See also:
-
+See Also:
International Nucleotide Sequence Database Collaboration
http://www.insdc.org/
@@ -147,7 +146,8 @@ def ImgtIterator(handle):
a single SeqRecord with associated annotation and features.
Note that for genomes or chromosomes, there is typically only
- one record."""
+ one record.
+ """
# This calls a generator function:
return _ImgtScanner(debug=0).parse_records(handle)
@@ -275,7 +275,7 @@ def _insdc_location_string(location, rec_length):
for p in parts[::-1]))
else:
return "%s(%s)" % (location.operator,
- ",".join(_insdc_location_string(p, rec_length) for p in parts))
+ ",".join(_insdc_location_string(p, rec_length) for p in parts))
except AttributeError:
# Simple FeatureLocation
loc = _insdc_location_string_ignoring_strand_and_subfeatures(location, rec_length)
@@ -287,6 +287,7 @@ def _insdc_location_string(location, rec_length):
class _InsdcWriter(SequentialSequenceWriter):
"""Base class for GenBank and EMBL writers (PRIVATE)."""
+
MAX_WIDTH = 80
QUALIFIER_INDENT = 21
QUALIFIER_INDENT_STR = " " * QUALIFIER_INDENT
@@ -354,11 +355,11 @@ class _InsdcWriter(SequentialSequenceWriter):
location = _insdc_location_string(feature.location, record_length)
f_type = feature.type.replace(" ", "_")
line = (self.QUALIFIER_INDENT_TMP % f_type)[:self.QUALIFIER_INDENT] \
- + self._wrap_location(location) + "\n"
+ + self._wrap_location(location) + "\n"
self.handle.write(line)
# Now the qualifiers...
- for key in sorted(feature.qualifiers.keys()):
- values = feature.qualifiers[key]
+ # Note as of Biopython 1.69, this is an ordered-dict, don't sort it:
+ for key, values in feature.qualifiers.items():
if isinstance(values, (list, tuple)):
for value in values:
self._write_feature_qualifier(key, value)
@@ -366,12 +367,14 @@ class _InsdcWriter(SequentialSequenceWriter):
# String, int, etc - or None for a /pseudo tpy entry
self._write_feature_qualifier(key, values)
- def _get_annotation_str(self, record, key, default=".", just_first=False):
+ @staticmethod
+ def _get_annotation_str(record, key, default=".", just_first=False):
"""Get an annotation dictionary entry (as a string).
Some entries are lists, in which case if just_first=True the first entry
is returned. If just_first=False (default) this verifies there is only
- one entry before returning it."""
+ one entry before returning it.
+ """
try:
answer = record.annotations[key]
except KeyError:
@@ -383,7 +386,8 @@ class _InsdcWriter(SequentialSequenceWriter):
else:
return str(answer)
- def _split_multi_line(self, text, max_len):
+ @staticmethod
+ def _split_multi_line(text, max_len):
"""Returns a list of strings.
Any single words which are too long get returned as a whole line
@@ -439,6 +443,11 @@ class GenBankWriter(_InsdcWriter):
HEADER_WIDTH = 12
QUALIFIER_INDENT = 21
+ STRUCTURED_COMMENT_START = "-START##"
+ STRUCTURED_COMMENT_END = "-END##"
+ STRUCTURED_COMMENT_DELIM = " :: "
+ LETTERS_PER_LINE = 60
+ SEQUENCE_INDENT = 9
def _write_single_line(self, tag, text):
"""Used in the 'header' of each GenBank record."""
@@ -471,7 +480,8 @@ class GenBankWriter(_InsdcWriter):
else:
self._write_single_line("", text)
- def _get_date(self, record):
+ @staticmethod
+ def _get_date(record):
default = "01-JAN-1980"
try:
date = record.annotations["date"]
@@ -491,7 +501,8 @@ class GenBankWriter(_InsdcWriter):
return default
return date
- def _get_data_division(self, record):
+ @staticmethod
+ def _get_data_division(record):
try:
division = record.annotations["data_file_division"]
except KeyError:
@@ -569,7 +580,6 @@ class GenBankWriter(_InsdcWriter):
def _write_the_first_line(self, record):
"""Write the LOCUS line."""
-
locus = record.name
if not locus or locus == "<unknown name>":
locus = record.id
@@ -608,8 +618,20 @@ class GenBankWriter(_InsdcWriter):
raise ValueError("Need a Nucleotide or Protein alphabet")
# Get the molecule type
- # TODO - record this explicitly in the parser?
- if isinstance(a, Alphabet.ProteinAlphabet):
+ mol_type = self._get_annotation_str(record, "molecule_type", default=None)
+ if mol_type and len(mol_type) > 7:
+ # Deal with common cases from EMBL to GenBank
+ mol_type = mol_type.replace("unassigned ", "").replace("genomic ", "")
+ if len(mol_type) > 7:
+ warnings.warn("Molecule type %r too long" % mol_type,
+ BiopythonWarning)
+ mol_type = None
+ if mol_type == "protein":
+ mol_type = ""
+
+ if mol_type:
+ pass
+ elif isinstance(a, Alphabet.ProteinAlphabet):
mol_type = ""
elif isinstance(a, Alphabet.DNAAlphabet):
mol_type = "DNA"
@@ -723,13 +745,29 @@ class GenBankWriter(_InsdcWriter):
# A list of lines is also reasonable.
# A single (long) string is perhaps the most natural of all.
# This means we may need to deal with line wrapping.
- comment = record.annotations["comment"]
- if isinstance(comment, basestring):
- lines = comment.split("\n")
- elif isinstance(comment, (list, tuple)):
- lines = comment
- else:
- raise ValueError("Could not understand comment annotation")
+ lines = []
+ if "structured_comment" in record.annotations:
+ comment = record.annotations["structured_comment"]
+ # Find max length of keys for equal padded printing
+ padding = 0
+ for key, data in comment.items():
+ for subkey, subdata in data.items():
+ padding = len(subkey) if len(subkey) > padding else padding
+ # Construct output
+ for key, data in comment.items():
+ lines.append("##{0}{1}".format(key, self.STRUCTURED_COMMENT_START))
+ for subkey, subdata in data.items():
+ spaces = " " * (padding - len(subkey))
+ lines.append("{0}{1}{2}{3}".format(subkey, spaces, self.STRUCTURED_COMMENT_DELIM, subdata))
+ lines.append("##{0}{1}".format(key, self.STRUCTURED_COMMENT_END))
+ if "comment" in record.annotations:
+ comment = record.annotations["comment"]
+ if isinstance(comment, basestring):
+ lines += comment.split("\n")
+ elif isinstance(comment, (list, tuple)):
+ lines += list(comment)
+ else:
+ raise ValueError("Could not understand comment annotation")
self._write_multi_line("COMMENT", lines[0])
for line in lines[1:]:
self._write_multi_line("", line)
@@ -744,8 +782,6 @@ class GenBankWriter(_InsdcWriter):
def _write_sequence(self, record):
# Loosely based on code from Howard Salis
# TODO - Force lower case?
- LETTERS_PER_LINE = 60
- SEQUENCE_INDENT = 9
if isinstance(record.seq, UnknownSeq):
# We have already recorded the length, and there is no need
@@ -760,10 +796,10 @@ class GenBankWriter(_InsdcWriter):
data = self._get_seq_string(record).lower()
seq_len = len(data)
self.handle.write("ORIGIN\n")
- for line_number in range(0, seq_len, LETTERS_PER_LINE):
- self.handle.write(str(line_number + 1).rjust(SEQUENCE_INDENT))
+ for line_number in range(0, seq_len, self.LETTERS_PER_LINE):
+ self.handle.write(str(line_number + 1).rjust(self.SEQUENCE_INDENT))
for words in range(line_number,
- min(line_number + LETTERS_PER_LINE, seq_len), 10):
+ min(line_number + self.LETTERS_PER_LINE, seq_len), 10):
self.handle.write(" %s" % data[words:words + 10])
self.handle.write("\n")
@@ -793,6 +829,12 @@ class GenBankWriter(_InsdcWriter):
descr = record.description
if descr == "<unknown description>":
descr = "."
+
+ # The DEFINITION field must end with a period
+ # see ftp://ftp.ncbi.nih.gov/genbank/gbrel.txt [3.4.5]
+ # and discussion https://github.com/biopython/biopython/pull/616
+ # So let's add a period
+ descr += '.'
self._write_multi_line("DEFINITION", descr)
self._write_single_line("ACCESSION", accession)
@@ -800,12 +842,38 @@ class GenBankWriter(_InsdcWriter):
self._write_single_line("VERSION", "%s GI:%s"
% (acc_with_version, gi))
else:
- self._write_single_line("VERSION", "%s" % (acc_with_version))
+ self._write_single_line("VERSION", "%s" % acc_with_version)
- # The NCBI only expect two types of link so far,
+ # The NCBI initially expected two types of link,
# e.g. "Project:28471" and "Trace Assembly Archive:123456"
- # TODO - Filter the dbxrefs list to just these?
- self._write_multi_entries("DBLINK", record.dbxrefs)
+ #
+ # This changed and at some point the formatting switched to
+ # include a space after the colon, e.g.
+ #
+ # LOCUS NC_000011 1606 bp DNA linear CON 06-JUN-2016
+ # DEFINITION Homo sapiens chromosome 11, GRCh38.p7 Primary Assembly.
+ # ACCESSION NC_000011 REGION: complement(5225466..5227071) GPC_000001303
+ # VERSION NC_000011.10 GI:568815587
+ # DBLINK BioProject: PRJNA168
+ # Assembly: GCF_000001405.33
+ # ...
+ #
+ # Or,
+ #
+ # LOCUS JU120277 1044 bp mRNA linear TSA 27-NOV-2012
+ # DEFINITION TSA: Tupaia chinensis tbc000002.Tuchadli mRNA sequence.
+ # ACCESSION JU120277
+ # VERSION JU120277.1 GI:379775257
+ # DBLINK BioProject: PRJNA87013
+ # Sequence Read Archive: SRR433859
+ # ...
+ dbxrefs_with_space = []
+ for x in record.dbxrefs:
+ if ": " not in x:
+ x = x.replace(":", ": ")
+ dbxrefs_with_space.append(x)
+ self._write_multi_entries("DBLINK", dbxrefs_with_space)
+ del dbxrefs_with_space
try:
# List of strings
@@ -849,7 +917,7 @@ class GenBankWriter(_InsdcWriter):
if "references" in record.annotations:
self._write_references(record)
- if "comment" in record.annotations:
+ if "comment" in record.annotations or "structured_comment" in record.annotations:
self._write_comment(record)
handle.write("FEATURES Location/Qualifiers\n")
@@ -867,7 +935,13 @@ class EmblWriter(_InsdcWriter):
QUALIFIER_INDENT = 21
QUALIFIER_INDENT_STR = "FT" + " " * (QUALIFIER_INDENT - 2)
QUALIFIER_INDENT_TMP = "FT %s " # 21 if %s is empty
- FEATURE_HEADER = "FH Key Location/Qualifiers\n"
+ # Note second spacer line of just FH is expected:
+ FEATURE_HEADER = "FH Key Location/Qualifiers\nFH\n"
+
+ LETTERS_PER_BLOCK = 10
+ BLOCKS_PER_LINE = 6
+ LETTERS_PER_LINE = LETTERS_PER_BLOCK * BLOCKS_PER_LINE
+ POSITION_PADDING = 10
def _write_contig(self, record):
max_len = self.MAX_WIDTH - self.HEADER_WIDTH
@@ -876,10 +950,6 @@ class EmblWriter(_InsdcWriter):
self._write_single_line("CO", text)
def _write_sequence(self, record):
- LETTERS_PER_BLOCK = 10
- BLOCKS_PER_LINE = 6
- LETTERS_PER_LINE = LETTERS_PER_BLOCK * BLOCKS_PER_LINE
- POSITION_PADDING = 10
handle = self.handle # save looking up this multiple times
if isinstance(record.seq, UnknownSeq):
@@ -910,25 +980,25 @@ class EmblWriter(_InsdcWriter):
else:
handle.write("SQ \n")
- for line_number in range(0, seq_len // LETTERS_PER_LINE):
+ for line_number in range(0, seq_len // self.LETTERS_PER_LINE):
handle.write(" ") # Just four, not five
- for block in range(BLOCKS_PER_LINE):
- index = LETTERS_PER_LINE * line_number + \
- LETTERS_PER_BLOCK * block
- handle.write((" %s" % data[index:index + LETTERS_PER_BLOCK]))
+ for block in range(self.BLOCKS_PER_LINE):
+ index = self.LETTERS_PER_LINE * line_number + \
+ self.LETTERS_PER_BLOCK * block
+ handle.write((" %s" % data[index:index + self.LETTERS_PER_BLOCK]))
handle.write(str((line_number + 1) *
- LETTERS_PER_LINE).rjust(POSITION_PADDING))
+ self.LETTERS_PER_LINE).rjust(self.POSITION_PADDING))
handle.write("\n")
- if seq_len % LETTERS_PER_LINE:
+ if seq_len % self.LETTERS_PER_LINE:
# Final (partial) line
- line_number = (seq_len // LETTERS_PER_LINE)
+ line_number = (seq_len // self.LETTERS_PER_LINE)
handle.write(" ") # Just four, not five
- for block in range(BLOCKS_PER_LINE):
- index = LETTERS_PER_LINE * line_number + \
- LETTERS_PER_BLOCK * block
+ for block in range(self.BLOCKS_PER_LINE):
+ index = self.LETTERS_PER_LINE * line_number + \
+ self.LETTERS_PER_BLOCK * block
handle.write(
- (" %s" % data[index:index + LETTERS_PER_BLOCK]).ljust(11))
- handle.write(str(seq_len).rjust(POSITION_PADDING))
+ (" %s" % data[index:index + self.LETTERS_PER_BLOCK]).ljust(11))
+ handle.write(str(seq_len).rjust(self.POSITION_PADDING))
handle.write("\n")
def _write_single_line(self, tag, text):
@@ -986,6 +1056,12 @@ class EmblWriter(_InsdcWriter):
# Must be something like NucleotideAlphabet
raise ValueError("Need a DNA, RNA or Protein alphabet")
+ if record.annotations.get("molecule_type", None):
+ # Note often get RNA vs DNA discrepancy in real EMBL/NCBI files
+ mol_type = record.annotations["molecule_type"]
+ if mol_type in ["protein"]:
+ mol_type = "PROTEIN"
+
# Get the taxonomy division
division = self._get_data_division(record)
@@ -1006,7 +1082,8 @@ class EmblWriter(_InsdcWriter):
self._write_single_line("AC", accession + ";")
handle.write("XX\n")
- def _get_data_division(self, record):
+ @staticmethod
+ def _get_data_division(record):
try:
division = record.annotations["data_file_division"]
except KeyError:
@@ -1114,7 +1191,6 @@ class EmblWriter(_InsdcWriter):
def write_record(self, record):
"""Write a single record to the output file."""
-
handle = self.handle
self._write_the_first_lines(record)
@@ -1193,7 +1269,8 @@ class ImgtWriter(EmblWriter):
QUALIFIER_INDENT = 25 # Not 21 as in EMBL
QUALIFIER_INDENT_STR = "FT" + " " * (QUALIFIER_INDENT - 2)
QUALIFIER_INDENT_TMP = "FT %s " # 25 if %s is empty
- FEATURE_HEADER = "FH Key Location/Qualifiers\n"
+ FEATURE_HEADER = "FH Key Location/Qualifiers\nFH\n"
+
if __name__ == "__main__":
from Bio._utils import run_doctest
diff --git a/Bio/SeqIO/Interfaces.py b/Bio/SeqIO/Interfaces.py
index 6478837..eb5892c 100644
--- a/Bio/SeqIO/Interfaces.py
+++ b/Bio/SeqIO/Interfaces.py
@@ -20,40 +20,36 @@ from Bio.SeqRecord import SeqRecord
class SequenceIterator(object):
"""Base class for building SeqRecord iterators.
- You should write a next() method to return SeqRecord
- objects. You may wish to redefine the __init__
- method as well.
+ You should write a __next__ method to return SeqRecord objects. You may
+ wish to redefine the __init__ method as well.
"""
+
def __init__(self, handle, alphabet=generic_alphabet):
"""Create a SequenceIterator object.
- - handle - input file
- - alphabet - optional, e.g. Bio.Alphabet.generic_protein
+ Arguments:
+ - handle - input file
+ - alphabet - optional, e.g. Bio.Alphabet.generic_protein
- Note when subclassing:
+ This method MAY be overridden by any subclass, for example if you need
+ to process a header or accept additional arguments.
- - there should be a single non-optional argument,
- the handle.
- - you do not have to require an alphabet.
- - you can add additional optional arguments."""
+ Note when subclassing:
+ - there should be a single non-optional argument, the handle.
+ - you do not have to require an alphabet.
+ - you can add additional optional arguments.
+ """
self.handle = handle
self.alphabet = alphabet
- #####################################################
- # You may want to subclass this, for example #
- # to read through the file to find the first record,#
- # or if additional arguments are required. #
- #####################################################
def __next__(self):
"""Return the next record in the file.
- This method should be replaced by any derived class to do something useful."""
- raise NotImplementedError("This object should be subclassed")
- #####################################################
- # You SHOULD subclass this, to split the file up #
- # into your individual records, and convert these #
- # into useful objects, e.g. return SeqRecord object #
- #####################################################
+ This method's stub-implementation MUST be overridden by any subclass
+ to actually parse the file and return the next entry as a SeqRecord
+ object.
+ """
+ raise NotImplementedError("The subclass should implement the __next__ method.")
if sys.version_info[0] < 3:
def next(self):
@@ -70,22 +66,28 @@ class SequenceIterator(object):
for record in myFastaReader:
print(record.id)
print(record.seq)
+
+ This method SHOULD NOT be overridden by any subclass. It should be
+ left as is, which will call the subclass implementation of __next__
+ to actually parse the file.
"""
return iter(self.__next__, None)
class SequenceWriter(object):
- """This class should be subclassed.
+ """Base class for building SeqRecord writers.
Interlaced file formats (e.g. Clustal) should subclass directly.
- Sequential file formats (e.g. Fasta, GenBank) should subclass
- the SequentialSequenceWriter class instead.
+ Sequential file formats (e.g. Fasta, GenBank) should subclass the
+ SequentialSequenceWriter class instead.
"""
+
def __init__(self, handle):
"""Creates the writer object.
- Use the method write_file() to actually record your sequence records."""
+ Use the method write_file() to actually record your sequence records.
+ """
self.handle = handle
def _get_seq_string(self, record):
@@ -111,7 +113,8 @@ class SequenceWriter(object):
Should return the number of records (as an integer).
- This method can only be called once."""
+ This method can only be called once.
+ """
# Note when implementing this, your writer class should NOT close the
# file at the end, but the calling code should.
raise NotImplementedError("This object should be subclassed")
@@ -121,7 +124,7 @@ class SequenceWriter(object):
class SequentialSequenceWriter(SequenceWriter):
- """This class should be subclassed.
+ """Base class for sequence writers. This class should be subclassed.
It is intended for sequential file formats with an (optional)
header, repeated records, and an (optional) footer.
@@ -141,6 +144,7 @@ class SequentialSequenceWriter(SequenceWriter):
Note that write_header() cannot require any assumptions about
the number of records.
"""
+
def __init__(self, handle):
self.handle = handle
self._header_written = False
@@ -166,7 +170,8 @@ class SequentialSequenceWriter(SequenceWriter):
Once you have called write_header() you can call write_record()
and/or write_records() as many times as needed. Then call
- write_footer() and close()."""
+ write_footer() and close().
+ """
assert self._header_written, "You must call write_header() first"
assert not self._footer_written, "You have already called write_footer()"
self._record_written = True
diff --git a/Bio/SeqIO/PirIO.py b/Bio/SeqIO/PirIO.py
index 7fd58c9..bdc59d8 100644
--- a/Bio/SeqIO/PirIO.py
+++ b/Bio/SeqIO/PirIO.py
@@ -73,17 +73,17 @@ terminating in an asterisk. Space separated blocks of ten letters as shown
above are typical.
Sequence codes and their meanings:
+ - P1 - Protein (complete)
+ - F1 - Protein (fragment)
+ - D1 - DNA (e.g. EMBOSS seqret output)
+ - DL - DNA (linear)
+ - DC - DNA (circular)
+ - RL - RNA (linear)
+ - RC - RNA (circular)
+ - N3 - tRNA
+ - N1 - Other functional RNA
+ - XX - Unknown
- - P1 - Protein (complete)
- - F1 - Protein (fragment)
- - D1 - DNA (e.g. EMBOSS seqret output)
- - DL - DNA (linear)
- - DC - DNA (circular)
- - RL - RNA (linear)
- - RC - RNA (circular)
- - N3 - tRNA
- - N1 - Other functional RNA
- - XX - Unknown
"""
from __future__ import print_function
@@ -182,6 +182,7 @@ def PirIterator(handle):
return # StopIteration
assert False, "Should not reach this line"
+
if __name__ == "__main__":
from Bio._utils import run_doctest
run_doctest(verbose=0)
diff --git a/Bio/SeqIO/QualityIO.py b/Bio/SeqIO/QualityIO.py
index 93dac24..d71185c 100644
--- a/Bio/SeqIO/QualityIO.py
+++ b/Bio/SeqIO/QualityIO.py
@@ -536,6 +536,7 @@ def _get_phred_quality(record):
"letter_annotations of SeqRecord (id=%s)."
% record.id)
+
# Only map 0 to 93, we need to give a warning on truncating at 93
_phred_to_sanger_quality_str = dict((qp, chr(min(126, qp + SANGER_SCORE_OFFSET)))
for qp in range(0, 93 + 1))
@@ -655,6 +656,7 @@ def _get_sanger_quality_str(record):
return "".join(chr(min(126, int(round(phred_quality_from_solexa(qs))) + SANGER_SCORE_OFFSET))
for qs in qualities)
+
# Only map 0 to 62, we need to give a warning on truncating at 62
assert 62 + SOLEXA_SCORE_OFFSET == 126
_phred_to_illumina_quality_str = dict((qp, chr(qp + SOLEXA_SCORE_OFFSET))
@@ -723,6 +725,7 @@ def _get_illumina_quality_str(record):
return "".join(chr(min(126, int(round(phred_quality_from_solexa(qs))) + SOLEXA_SCORE_OFFSET))
for qs in qualities)
+
# Only map 0 to 62, we need to give a warning on truncating at 62
assert 62 + SOLEXA_SCORE_OFFSET == 126
_solexa_to_solexa_quality_str = dict((qs, chr(min(126, qs + SOLEXA_SCORE_OFFSET)))
@@ -952,20 +955,19 @@ def FastqGeneralIterator(handle):
# Return the record and then continue...
yield (title_line, seq_string, quality_string)
- raise StopIteration
def FastqPhredIterator(handle, alphabet=single_letter_alphabet, title2ids=None):
"""Generator function to iterate over FASTQ records (as SeqRecord objects).
- - handle - input file
- - alphabet - optional alphabet
- - title2ids - A function that, when given the title line from the FASTQ
- file (without the beginning >), will return the id, name and
- description (in that order) for the record as a tuple of
- strings. If this is not given, then the entire title line
- will be used as the description, and the first word as the
- id and name.
+ Arguments:
+ - handle - input file
+ - alphabet - optional alphabet
+ - title2ids - A function that, when given the title line from the FASTQ
+ file (without the beginning >), will return the id, name and
+ description (in that order) for the record as a tuple of strings.
+ If this is not given, then the entire title line will be used as
+ the description, and the first word as the id and name.
Note that use of title2ids matches that of Bio.SeqIO.FastaIO.
@@ -1418,6 +1420,7 @@ class FastqPhredWriter(SequentialSequenceWriter):
>>> import os
>>> os.remove("Quality/temp.fastq")
"""
+
assert SANGER_SCORE_OFFSET == ord("!")
def write_record(self, record):
@@ -1470,21 +1473,22 @@ class QualPhredWriter(SequentialSequenceWriter):
>>> import os
>>> os.remove("Quality/temp.qual")
"""
+
def __init__(self, handle, wrap=60, record2title=None):
"""Create a QUAL writer.
Arguments:
- handle - Handle to an output file, e.g. as returned
- by open(filename, "w")
+ by open(filename, "w")
- wrap - Optional line length used to wrap sequence lines.
- Defaults to wrapping the sequence at 60 characters
- Use zero (or None) for no wrapping, giving a single
- long line for the sequence.
+ Defaults to wrapping the sequence at 60 characters. Use
+ zero (or None) for no wrapping, giving a single long line
+ for the sequence.
- record2title - Optional function to return the text to be
- used for the title line of each record. By default
- a combination of the record.id and record.description
- is used. If the record.description starts with the
- record.id, then just the record.description is used.
+ used for the title line of each record. By default a
+ combination of the record.id and record.description is
+ used. If the record.description starts with the record.id,
+ then just the record.description is used.
The record2title argument is present for consistency with the
Bio.SeqIO.FastaIO writer class.
@@ -1607,6 +1611,7 @@ class FastqSolexaWriter(SequentialSequenceWriter):
>>> import os
>>> os.remove("Quality/temp.fastq")
"""
+
def write_record(self, record):
"""Write a single FASTQ record to the file."""
assert self._header_written
@@ -1663,6 +1668,7 @@ class FastqIlluminaWriter(SequentialSequenceWriter):
encoded as ASCII 126, the tilde. If your quality scores are truncated to fit, a
warning is issued.
"""
+
def write_record(self, record):
"""Write a single FASTQ record to the file."""
assert self._header_written
diff --git a/Bio/SeqIO/SeqXmlIO.py b/Bio/SeqIO/SeqXmlIO.py
index 3ea72c9..ce6fce0 100644
--- a/Bio/SeqIO/SeqXmlIO.py
+++ b/Bio/SeqIO/SeqXmlIO.py
@@ -43,15 +43,16 @@ class XMLRecordIterator(object):
def __init__(self, handle, recordTag, namespace=None):
"""Creating the object and initializing the XML parser."""
-
self._recordTag = recordTag
self._namespace = namespace
self._events = pulldom.parse(handle)
- def __iter__(self):
- """Iterate over the records in the XML file.
- Returns the last parsed record."""
+ # TODO: Implement __next__ in order for Python to treat this class as
+ # an interator and not just as an iterable. The SequenceIterator API
+ # expects base implementation of __iter__ to call __next__ internally.
+ def __iter__(self):
+ """Iterate over the records in the XML file."""
record = None
try:
for event, node in self._events:
@@ -94,7 +95,6 @@ class XMLRecordIterator(object):
def _attributes(self, node):
"""Return the attributes of a DOM node as dictionary."""
-
return dict((node.attributes.item(i).name, node.attributes.item(i).value)
for i in range(node.attributes.length))
@@ -102,7 +102,8 @@ class XMLRecordIterator(object):
class SeqXmlIterator(XMLRecordIterator):
"""Breaks seqXML file into SeqRecords.
- Assumes valid seqXML please validate beforehand."""
+ Assumes valid seqXML please validate beforehand.
+ """
def __init__(self, handle):
"""Create the object."""
@@ -116,7 +117,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _attr_seqXML(self, attr_dict, record):
"""Parse the document metadata."""
-
if "source" in attr_dict:
self._source = attr_dict["source"]
if "sourceVersion" in attr_dict:
@@ -130,7 +130,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _attr_property(self, attr_dict, record):
"""Parse key value pair properties and store them as annotations."""
-
if "name" not in attr_dict:
raise ValueError("Malformed property element.")
@@ -146,7 +145,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _attr_species(self, attr_dict, record):
"""Parse the species information."""
-
if "name" not in attr_dict or "ncbiTaxID" not in attr_dict:
raise ValueError("Malformed species element!")
@@ -157,7 +155,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _attr_entry(self, attr_dict, record):
"""New entry set id and the optional entry source."""
-
if "id" not in attr_dict:
raise ValueError("Malformed entry! Identifier is missing.")
@@ -176,7 +173,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _elem_DNAseq(self, node, record):
"""Parse DNA sequence."""
-
if not (node.hasChildNodes() and len(node.firstChild.data) > 0):
raise ValueError("Sequence length should be greater than 0.")
@@ -184,7 +180,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _elem_RNAseq(self, node, record):
"""Parse RNA sequence."""
-
if not (node.hasChildNodes() and len(node.firstChild.data) > 0):
raise ValueError("Sequence length should be greater than 0.")
@@ -192,7 +187,6 @@ class SeqXmlIterator(XMLRecordIterator):
def _elem_AAseq(self, node, record):
"""Parse protein sequence."""
-
if not (node.hasChildNodes() and len(node.firstChild.data) > 0):
raise ValueError("Sequence length should be greater than 0.")
@@ -200,13 +194,11 @@ class SeqXmlIterator(XMLRecordIterator):
def _elem_description(self, node, record):
"""Parse the description."""
-
if node.hasChildNodes() and len(node.firstChild.data) > 0:
record.description = node.firstChild.data
def _attr_DBRef(self, attr_dict, record):
"""Parse a database cross reference"""
-
if "source" not in attr_dict or "id" not in attr_dict:
raise ValueError("Invalid DB cross reference.")
@@ -226,7 +218,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
def __init__(self, handle, source=None, source_version=None,
species=None, ncbiTaxId=None):
"""Create Object and start the xml generator."""
-
SequentialSequenceWriter.__init__(self, handle)
self.xml_generator = XMLGenerator(handle, "utf-8")
@@ -261,7 +252,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
def write_record(self, record):
"""Write one record."""
-
if not record.id or record.id == "<unknown id>":
raise ValueError("SeqXML requires identifier")
@@ -285,7 +275,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
def write_footer(self):
"""Close the root node and finish the XML document."""
-
SequentialSequenceWriter.write_footer(self)
self.xml_generator.endElement("seqXML")
@@ -293,7 +282,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
def _write_species(self, record):
"""Write the species if given."""
-
local_ncbi_taxid = None
if "ncbi_taxid" in record.annotations:
local_ncbi_taxid = record.annotations["ncbi_taxid"]
@@ -326,7 +314,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
def _write_description(self, record):
"""Write the description if given."""
-
if record.description:
if not isinstance(record.description, basestring):
@@ -347,7 +334,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
Note that SeqXML requires a DNA, RNA or protein alphabet.
"""
-
if isinstance(record.seq, UnknownSeq):
raise TypeError(
"Sequence type is UnknownSeq but SeqXML requires sequence")
@@ -391,7 +377,6 @@ class SeqXmlWriter(SequentialSequenceWriter):
def _write_properties(self, record):
"""Write all annotations that are key value pairs with values of a primitive type or list of primitive types."""
-
for key, value in record.annotations.items():
if key not in ("organism", "ncbi_taxid", "source"):
diff --git a/Bio/SeqIO/SffIO.py b/Bio/SeqIO/SffIO.py
index b78f6cd..54e55d9 100644
--- a/Bio/SeqIO/SffIO.py
+++ b/Bio/SeqIO/SffIO.py
@@ -244,6 +244,7 @@ import sys
import re
from Bio._py3k import _bytes_to_string, _as_bytes
+
_null = b"\0"
_sff = b".sff"
_hsh = b".hsh"
@@ -322,8 +323,8 @@ def _sff_file_header(handle):
elif len(data) < 31:
raise ValueError("File too small to hold a valid SFF header.")
magic_number, ver0, ver1, ver2, ver3, index_offset, index_length, \
- number_of_reads, header_length, key_length, number_of_flows_per_read, \
- flowgram_format = struct.unpack(fmt, data)
+ number_of_reads, header_length, key_length, number_of_flows_per_read, \
+ flowgram_format = struct.unpack(fmt, data)
if magic_number in [_hsh, _srt, _mft]:
# Probably user error, calling Bio.SeqIO.parse() twice!
raise ValueError("Handle seems to be at SFF index block, not start")
@@ -354,8 +355,8 @@ def _sff_file_header(handle):
"null padding region contained data." % padding,
BiopythonParserWarning)
return header_length, index_offset, index_length, \
- number_of_reads, number_of_flows_per_read, \
- flow_chars, key_sequence
+ number_of_reads, number_of_flows_per_read, \
+ flow_chars, key_sequence
def _sff_do_slow_index(handle):
@@ -368,7 +369,7 @@ def _sff_do_slow_index(handle):
"""
handle.seek(0)
header_length, index_offset, index_length, number_of_reads, \
- number_of_flows_per_read, flow_chars, key_sequence \
+ number_of_flows_per_read, flow_chars, key_sequence \
= _sff_file_header(handle)
# Now on to the reads...
read_header_fmt = '>2HI4H'
@@ -394,7 +395,7 @@ def _sff_do_slow_index(handle):
# First the fixed header
data = handle.read(read_header_size)
read_header_length, name_length, seq_len, clip_qual_left, \
- clip_qual_right, clip_adapter_left, clip_adapter_right \
+ clip_qual_right, clip_adapter_left, clip_adapter_right \
= struct.unpack(read_header_fmt, data)
if read_header_length < 10 or read_header_length % 8 != 0:
raise ValueError("Malformed read header, says length is %i:\n%r"
@@ -442,7 +443,7 @@ def _sff_find_roche_index(handle):
"""
handle.seek(0)
header_length, index_offset, index_length, number_of_reads, \
- number_of_flows_per_read, flow_chars, key_sequence \
+ number_of_flows_per_read, flow_chars, key_sequence \
= _sff_file_header(handle)
assert handle.tell() == header_length
if not index_offset or not index_offset:
@@ -474,9 +475,9 @@ def _sff_find_roche_index(handle):
raise ValueError("Problem understanding .mft index header, %i != %i + %i + %i + %i"
% (index_length, fmt_size, fmt2_size, xml_size, data_size))
return number_of_reads, header_length, \
- index_offset, index_length, \
- index_offset + fmt_size + fmt2_size, xml_size, \
- index_offset + fmt_size + fmt2_size + xml_size, data_size
+ index_offset, index_length, \
+ index_offset + fmt_size + fmt2_size, xml_size, \
+ index_offset + fmt_size + fmt2_size + xml_size, data_size
elif magic_number == _srt: # 779317876
# Roche 454 sorted index
# I've had this from Roche tool sfffile when the read identifiers
@@ -490,9 +491,9 @@ def _sff_find_roche_index(handle):
raise ValueError(
"Did not find expected null four bytes in .srt index")
return number_of_reads, header_length, \
- index_offset, index_length, \
- 0, 0, \
- index_offset + fmt_size + 4, index_length - fmt_size - 4
+ index_offset, index_length, \
+ 0, 0, \
+ index_offset + fmt_size + 4, index_length - fmt_size - 4
elif magic_number == _hsh:
raise ValueError("Hash table style indexes (.hsh) in SFF files are "
"not (yet) supported")
@@ -521,8 +522,8 @@ def ReadRocheXmlManifest(handle):
found.
"""
number_of_reads, header_length, index_offset, index_length, xml_offset, \
- xml_size, read_index_offset, read_index_size = _sff_find_roche_index(
- handle)
+ xml_size, read_index_offset, read_index_size = _sff_find_roche_index(
+ handle)
if not xml_offset or not xml_size:
raise ValueError("No XML manifest found")
handle.seek(xml_offset)
@@ -548,8 +549,8 @@ def _sff_read_roche_index(handle):
omit the index (and manifest).
"""
number_of_reads, header_length, index_offset, index_length, xml_offset, \
- xml_size, read_index_offset, read_index_size = _sff_find_roche_index(
- handle)
+ xml_size, read_index_offset, read_index_size = _sff_find_roche_index(
+ handle)
# Now parse the read index...
handle.seek(read_index_offset)
fmt = ">5B"
@@ -577,6 +578,7 @@ def _sff_read_roche_index(handle):
raise ValueError("Problem with index length? %i vs %i"
% (handle.tell(), read_index_offset + read_index_size))
+
_valid_UAN_read_name = re.compile(r'^[a-zA-Z0-9]{14}$')
@@ -599,7 +601,7 @@ def _sff_read_seq_record(handle, number_of_flows_per_read, flow_chars,
read_flow_size = struct.calcsize(read_flow_fmt)
read_header_length, name_length, seq_len, clip_qual_left, \
- clip_qual_right, clip_adapter_left, clip_adapter_right \
+ clip_qual_right, clip_adapter_left, clip_adapter_right \
= struct.unpack(read_header_fmt, handle.read(read_header_size))
if clip_qual_left:
clip_qual_left -= 1 # python counting
@@ -673,8 +675,8 @@ def _sff_read_seq_record(handle, number_of_flows_per_read, flow_chars,
else:
# This use of mixed case mimics the Roche SFF tool's FASTA output
seq = seq[:clip_left].lower() + \
- seq[clip_left:clip_right].upper() + \
- seq[clip_right:].lower()
+ seq[clip_left:clip_right].upper() + \
+ seq[clip_right:].lower()
annotations = {"flow_values": struct.unpack(read_flow_fmt, flow_values),
"flow_index": struct.unpack(temp_fmt, flow_index),
"flow_chars": flow_chars,
@@ -699,6 +701,7 @@ def _sff_read_seq_record(handle, number_of_flows_per_read, flow_chars,
# Return the record and then continue...
return record
+
_powers_of_36 = [36 ** i for i in range(6)]
@@ -727,6 +730,7 @@ def _get_read_xy(read_name):
number = _string_as_base_36(read_name[9:])
return divmod(number, 4096)
+
_time_denominators = [13 * 32 * 24 * 60 * 60,
32 * 24 * 60 * 60,
24 * 60 * 60,
@@ -801,6 +805,7 @@ class _AddTellHandle(object):
seek) are not supported. The SFF file needs to track the current offset in
order to deal with the index block.
"""
+
def __init__(self, handle):
self._handle = handle
self._offset = 0
@@ -895,12 +900,13 @@ def SffIterator(handle, alphabet=Alphabet.generic_dna, trim=False):
Alphabet.RNAAlphabet):
raise ValueError("Invalid alphabet, SFF files do not hold RNA.")
try:
- assert 0 == handle.tell(), "Not at start of file, offset %i" % handle.tell()
+ if 0 != handle.tell():
+ raise ValueError("Not at start of file, offset %i" % handle.tell())
except AttributeError:
# Probably a network handle or something like that
handle = _AddTellHandle(handle)
header_length, index_offset, index_length, number_of_reads, \
- number_of_flows_per_read, flow_chars, key_sequence \
+ number_of_flows_per_read, flow_chars, key_sequence \
= _sff_file_header(handle)
# Now on to the reads...
# the read header format (fixed part):
@@ -1018,12 +1024,15 @@ class SffWriter(SequenceWriter):
"""SFF file writer."""
def __init__(self, handle, index=True, xml=None):
- """Creates the writer object.
+ """Initialize an SFF writer object.
+
+ Arguments:
+ - handle - Output handle, ideally in binary write mode.
+ - index - Boolean argument, should we try and write an index?
+ - xml - Optional string argument, xml manifest to be recorded
+ in the index block (see function ReadRocheXmlManifest for
+ reading this data).
- - handle - Output handle, ideally in binary write mode.
- - index - Boolean argument, should we try and write an index?
- - xml - Optional string argument, xml manifest to be recorded in the index
- block (see function ReadRocheXmlManifest for reading this data).
"""
_check_mode(handle)
self.handle = handle
@@ -1128,7 +1137,7 @@ class SffWriter(SequenceWriter):
assert offset == off0 + off1 + off2 + off3, \
"%i -> %i %i %i %i" % (offset, off0, off1, off2, off3)
off3, off2, off1, off0 = off3 // 16581375, off2 // 65025, \
- off1 // 255, off0
+ off1 // 255, off0
assert off0 < 255 and off1 < 255 and off2 < 255 and off3 < 255, \
"%i -> %i %i %i %i" % (offset, off0, off1, off2, off3)
handle.write(name + struct.pack(fmt2, 0,
@@ -1293,9 +1302,9 @@ class SffWriter(SequenceWriter):
read_flow_size = struct.calcsize(read_flow_fmt)
temp_fmt = ">%iB" % seq_len # used for flow index and quals
data += struct.pack(read_flow_fmt, *flow_values) \
- + struct.pack(temp_fmt, *flow_index) \
- + seq \
- + struct.pack(temp_fmt, *quals)
+ + struct.pack(temp_fmt, *flow_index) \
+ + seq \
+ + struct.pack(temp_fmt, *quals)
# now any final padding...
padding = (read_flow_size + seq_len * 3) % 8
if padding:
@@ -1304,203 +1313,5 @@ class SffWriter(SequenceWriter):
if __name__ == "__main__":
- print("Running quick self test")
- filename = "../../Tests/Roche/E3MFGYR02_random_10_reads.sff"
- with open(filename, "rb") as handle:
- metadata = ReadRocheXmlManifest(handle)
-
- from io import BytesIO
-
- with open(filename, "rb") as handle:
- sff = list(SffIterator(handle))
- with open(filename, "rb") as handle:
- sff_trim = list(SffIterator(handle, trim=True))
-
- from Bio import SeqIO
- filename = "../../Tests/Roche/E3MFGYR02_random_10_reads_no_trim.fasta"
- fasta_no_trim = list(SeqIO.parse(filename, "fasta"))
- filename = "../../Tests/Roche/E3MFGYR02_random_10_reads_no_trim.qual"
- qual_no_trim = list(SeqIO.parse(filename, "qual"))
-
- filename = "../../Tests/Roche/E3MFGYR02_random_10_reads.fasta"
- fasta_trim = list(SeqIO.parse(filename, "fasta"))
- filename = "../../Tests/Roche/E3MFGYR02_random_10_reads.qual"
- qual_trim = list(SeqIO.parse(filename, "qual"))
-
- for s, sT, f, q, fT, qT in zip(sff, sff_trim, fasta_no_trim,
- qual_no_trim, fasta_trim, qual_trim):
- # print("")
- print(s.id)
- # print(s.seq)
- # print(s.letter_annotations["phred_quality"])
-
- assert s.id == f.id == q.id
- assert str(s.seq) == str(f.seq)
- assert s.letter_annotations[
- "phred_quality"] == q.letter_annotations["phred_quality"]
-
- assert s.id == sT.id == fT.id == qT.id
- assert str(sT.seq) == str(fT.seq)
- assert sT.letter_annotations[
- "phred_quality"] == qT.letter_annotations["phred_quality"]
-
- print("Writing with a list of SeqRecords...")
- handle = BytesIO()
- w = SffWriter(handle, xml=metadata)
- w.write_file(sff) # list
- data = handle.getvalue()
- print("And again with an iterator...")
- handle = BytesIO()
- w = SffWriter(handle, xml=metadata)
- w.write_file(iter(sff))
- assert data == handle.getvalue()
- # Check 100% identical to the original:
- filename = "../../Tests/Roche/E3MFGYR02_random_10_reads.sff"
- with open(filename, "rb") as handle:
- original = handle.read()
- assert len(data) == len(original)
- assert data == original
- del data
-
- print("-" * 50)
- filename = "../../Tests/Roche/greek.sff"
- with open(filename, "rb") as handle:
- for record in SffIterator(handle):
- print(record.id)
- with open(filename, "rb") as handle:
- index1 = sorted(_sff_read_roche_index(handle))
- with open(filename, "rb") as handle:
- index2 = sorted(_sff_do_slow_index(handle))
- assert index1 == index2
- try:
- with open(filename, "rb") as handle:
- print(ReadRocheXmlManifest(handle))
- assert False, "Should fail!"
- except ValueError:
- pass
-
- with open(filename, "rb") as handle:
- for record in SffIterator(handle):
- pass
- try:
- for record in SffIterator(handle):
- print(record.id)
- assert False, "Should have failed"
- except ValueError as err:
- print("Checking what happens on re-reading a handle:")
- print(err)
-
- """
- # Ugly code to make test files...
- index = ".diy1.00This is a fake index block (DIY = Do It Yourself), which is allowed under the SFF standard.\0"
- padding = len(index)%8
- if padding:
- padding = 8 - padding
- index += chr(0)*padding
- assert len(index)%8 == 0
-
- # Ugly bit of code to make a fake index at start
- records = list(SffIterator(
- open("../../Tests/Roche/E3MFGYR02_random_10_reads.sff", "rb")))
- out_handle = open(
- "../../Tests/Roche/E3MFGYR02_alt_index_at_start.sff", "w")
- index = ".diy1.00This is a fake index block (DIY = Do It Yourself), which is allowed under the SFF standard.\0"
- padding = len(index)%8
- if padding:
- padding = 8 - padding
- index += chr(0)*padding
- w = SffWriter(out_handle, index=False, xml=None)
- # Fake the header...
- w._number_of_reads = len(records)
- w._index_start = 0
- w._index_length = 0
- w._key_sequence = records[0].annotations["flow_key"]
- w._flow_chars = records[0].annotations["flow_chars"]
- w._number_of_flows_per_read = len(w._flow_chars)
- w.write_header()
- w._index_start = out_handle.tell()
- w._index_length = len(index)
- out_handle.seek(0)
- w.write_header() # this time with index info
- w.handle.write(index)
- for record in records:
- w.write_record(record)
- out_handle.close()
- records2 = list(SffIterator(
- open("../../Tests/Roche/E3MFGYR02_alt_index_at_start.sff", "rb")))
- for old, new in zip(records, records2):
- assert str(old.seq)==str(new.seq)
- i = list(_sff_do_slow_index(
- open("../../Tests/Roche/E3MFGYR02_alt_index_at_start.sff", "rb")))
-
- # Ugly bit of code to make a fake index in middle
- records = list(SffIterator(
- open("../../Tests/Roche/E3MFGYR02_random_10_reads.sff", "rb")))
- out_handle = open(
- "../../Tests/Roche/E3MFGYR02_alt_index_in_middle.sff", "w")
- index = ".diy1.00This is a fake index block (DIY = Do It Yourself), which is allowed under the SFF standard.\0"
- padding = len(index)%8
- if padding:
- padding = 8 - padding
- index += chr(0)*padding
- w = SffWriter(out_handle, index=False, xml=None)
- # Fake the header...
- w._number_of_reads = len(records)
- w._index_start = 0
- w._index_length = 0
- w._key_sequence = records[0].annotations["flow_key"]
- w._flow_chars = records[0].annotations["flow_chars"]
- w._number_of_flows_per_read = len(w._flow_chars)
- w.write_header()
- for record in records[:5]:
- w.write_record(record)
- w._index_start = out_handle.tell()
- w._index_length = len(index)
- w.handle.write(index)
- for record in records[5:]:
- w.write_record(record)
- out_handle.seek(0)
- w.write_header() # this time with index info
- out_handle.close()
- records2 = list(SffIterator(
- open("../../Tests/Roche/E3MFGYR02_alt_index_in_middle.sff", "rb")))
- for old, new in zip(records, records2):
- assert str(old.seq)==str(new.seq)
- j = list(_sff_do_slow_index(
- open("../../Tests/Roche/E3MFGYR02_alt_index_in_middle.sff", "rb")))
-
- # Ugly bit of code to make a fake index at end
- records = list(SffIterator(
- open("../../Tests/Roche/E3MFGYR02_random_10_reads.sff", "rb")))
- with open("../../Tests/Roche/E3MFGYR02_alt_index_at_end.sff", "w") as out_handle:
- w = SffWriter(out_handle, index=False, xml=None)
- # Fake the header...
- w._number_of_reads = len(records)
- w._index_start = 0
- w._index_length = 0
- w._key_sequence = records[0].annotations["flow_key"]
- w._flow_chars = records[0].annotations["flow_chars"]
- w._number_of_flows_per_read = len(w._flow_chars)
- w.write_header()
- for record in records:
- w.write_record(record)
- w._index_start = out_handle.tell()
- w._index_length = len(index)
- out_handle.write(index)
- out_handle.seek(0)
- w.write_header() # this time with index info
- records2 = list(SffIterator(
- open("../../Tests/Roche/E3MFGYR02_alt_index_at_end.sff", "rb")))
- for old, new in zip(records, records2):
- assert str(old.seq)==str(new.seq)
- try:
- print(ReadRocheXmlManifest(
- open("../../Tests/Roche/E3MFGYR02_alt_index_at_end.sff", "rb")))
- assert False, "Should fail!"
- except ValueError:
- pass
- k = list(_sff_do_slow_index(
- open("../../Tests/Roche/E3MFGYR02_alt_index_at_end.sff", "rb")))
- """
-
- print("Done")
+ from Bio._utils import run_doctest
+ run_doctest(verbose=0)
diff --git a/Bio/SeqIO/SwissIO.py b/Bio/SeqIO/SwissIO.py
index ce4b2c6..cd79846 100644
--- a/Bio/SeqIO/SwissIO.py
+++ b/Bio/SeqIO/SwissIO.py
@@ -102,13 +102,18 @@ def SwissIterator(handle):
record.dbxrefs.append(dbxref)
annotations = record.annotations
annotations['accessions'] = swiss_record.accessions
+ if swiss_record.protein_existence:
+ annotations['protein_existence'] = swiss_record.protein_existence
if swiss_record.created:
annotations['date'] = swiss_record.created[0]
+ annotations['sequence_version'] = swiss_record.created[1]
if swiss_record.sequence_update:
annotations[
'date_last_sequence_update'] = swiss_record.sequence_update[0]
+ annotations['sequence_version'] = swiss_record.sequence_update[1]
if swiss_record.annotation_update:
annotations['date_last_annotation_update'] = swiss_record.annotation_update[0]
+ annotations['entry_version'] = swiss_record.annotation_update[1]
if swiss_record.gene_name:
annotations['gene_name'] = swiss_record.gene_name
annotations['organism'] = swiss_record.organism.rstrip(".")
diff --git a/Bio/SeqIO/TabIO.py b/Bio/SeqIO/TabIO.py
index 8deb96e..f3a6b0d 100644
--- a/Bio/SeqIO/TabIO.py
+++ b/Bio/SeqIO/TabIO.py
@@ -74,7 +74,7 @@ def TabIterator(handle, alphabet=single_letter_alphabet):
for line in handle:
try:
title, seq = line.split("\t") # will fail if more than one tab!
- except:
+ except ValueError:
if line.strip() == "":
# It's a blank line, ignore it
continue
@@ -95,6 +95,7 @@ class TabWriter(SequentialSequenceWriter):
Any description, name or other annotation is not recorded.
"""
+
def write_record(self, record):
"""Write a single tab line to the file."""
assert self._header_written
diff --git a/Bio/SeqIO/UniprotIO.py b/Bio/SeqIO/UniprotIO.py
index 504a3e6..3d49932 100644
--- a/Bio/SeqIO/UniprotIO.py
+++ b/Bio/SeqIO/UniprotIO.py
@@ -8,12 +8,12 @@
"""Bio.SeqIO support for the "uniprot-xml" file format.
-See also:
-
+See Also:
http://www.uniprot.org
The UniProt XML format essentially replaces the old plain text file format
originally introduced by SwissProt ("swiss" format in Bio.SeqIO).
+
"""
import sys
@@ -58,9 +58,14 @@ def UniprotIterator(handle, alphabet=Alphabet.ProteinAlphabet(), return_raw_comm
if not hasattr(handle, "read"):
if isinstance(handle, str):
+ import warnings
+ from Bio import BiopythonDeprecationWarning
+ warnings.warn("Passing an XML-containing handle is recommended",
+ BiopythonDeprecationWarning)
handle = StringIO(handle)
else:
- raise Exception('An XML-containing handler or an XML string must be passed')
+ raise TypeError("Requires an XML-containing handle"
+ " (or XML as a string, but that's deprectaed)")
if ElementTree is None:
from Bio import MissingExternalDependencyError
@@ -81,6 +86,7 @@ class Parser(object):
return_raw_comments=True to get back the complete comment field in XML format
alphabet=Alphabet.ProteinAlphabet() can be modified if needed, default is protein alphabet.
"""
+
def __init__(self, elem, alphabet=Alphabet.ProteinAlphabet(), return_raw_comments=False):
self.entry = elem
self.alphabet = alphabet
@@ -108,7 +114,7 @@ class Parser(object):
"""Parse protein names (PRIVATE)."""
descr_set = False
for protein_element in element:
- if protein_element.tag in [NS + 'recommendedName', NS + 'alternativeName']: # recommendedName tag are parsed before
+ if protein_element.tag in [NS + 'recommendedName', NS + 'submittedName', NS + 'alternativeName']: # recommendedName tag are parsed before
# use protein fields for name and description
for rec_name in protein_element:
ann_key = '%s_%s' % (protein_element.tag.replace(NS, ''),
@@ -181,37 +187,37 @@ class Parser(object):
The original XML is returned in the annotation fields.
Available comment types at december 2009:
- "allergen"
- "alternative products"
- "biotechnology"
- "biophysicochemical properties"
- "catalytic activity"
- "caution"
- "cofactor"
- "developmental stage"
- "disease"
- "domain"
- "disruption phenotype"
- "enzyme regulation"
- "function"
- "induction"
- "miscellaneous"
- "pathway"
- "pharmaceutical"
- "polymorphism"
- "PTM"
- "RNA editing"
- "similarity"
- "subcellular location"
- "sequence caution"
- "subunit"
- "tissue specificity"
- "toxic dose"
- "online information"
- "mass spectrometry"
- "interaction"
- """
+ - "allergen"
+ - "alternative products"
+ - "biotechnology"
+ - "biophysicochemical properties"
+ - "catalytic activity"
+ - "caution"
+ - "cofactor"
+ - "developmental stage"
+ - "disease"
+ - "domain"
+ - "disruption phenotype"
+ - "enzyme regulation"
+ - "function"
+ - "induction"
+ - "miscellaneous"
+ - "pathway"
+ - "pharmaceutical"
+ - "polymorphism"
+ - "PTM"
+ - "RNA editing"
+ - "similarity"
+ - "subcellular location"
+ - "sequence caution"
+ - "subunit"
+ - "tissue specificity"
+ - "toxic dose"
+ - "online information"
+ - "mass spectrometry"
+ - "interaction"
+ """
simple_comments = ["allergen",
"biotechnology",
"biophysicochemical properties",
@@ -271,7 +277,7 @@ class Parser(object):
else:
start = int(list(loc_element.getiterator(NS + 'begin'))[0].attrib['position']) - 1
end = int(list(loc_element.getiterator(NS + 'end'))[0].attrib['position'])
- except ValueError: # undefined positions or erroneously mapped
+ except (ValueError, KeyError): # undefined positions or erroneously mapped
pass
mass = element.attrib['mass']
method = element.attrib['method']
diff --git a/Bio/SeqIO/__init__.py b/Bio/SeqIO/__init__.py
index 80c8f97..75f379a 100644
--- a/Bio/SeqIO/__init__.py
+++ b/Bio/SeqIO/__init__.py
@@ -1,4 +1,4 @@
-# Copyright 2006-2016 by Peter Cock. All rights reserved.
+# Copyright 2006-2017 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -8,8 +8,7 @@
r"""Sequence input/output as SeqRecord objects.
-Bio.SeqIO is also documented at SeqIO_ and by
-a whole chapter in our tutorial:
+Bio.SeqIO is also documented at SeqIO_ and by a whole chapter in our tutorial:
- `HTML Tutorial`_
- `PDF Tutorial`_
@@ -35,6 +34,16 @@ Note that the parse() function will invoke the relevant parser for the
format with its default settings. You may want more control, in which case
you need to create a format specific sequence iterator directly.
+Some of these parsers are wrappers around low-level parsers which build up
+SeqRecord objects for the consistent SeqIO interface. In cases where the
+run-time is critical, such as large FASTA or FASTQ files, calling these
+underlying parsers will be much faster - in this case these generator
+functions which return tuples of strings:
+
+>>> from Bio.SeqIO.FastaIO import SimpleFastaParser
+>>> from Bio.SeqIO.QualityIO import FastqGeneralIterator
+
+
Input - Single Records
----------------------
If you expect your file to contain one-and-only-one record, then we provide
@@ -439,11 +448,12 @@ _BinaryFormats = ["sff", "sff-trim", "abi", "abi-trim"]
def write(sequences, handle, format):
"""Write complete set of sequences to a file.
- - sequences - A list (or iterator) of SeqRecord objects, or (if using
- Biopython 1.54 or later) a single SeqRecord.
- - handle - File handle object to write to, or filename as string
- (note older versions of Biopython only took a handle).
- - format - lower case string describing the file format to write.
+ Arguments:
+ - sequences - A list (or iterator) of SeqRecord objects, or (if using
+ Biopython 1.54 or later) a single SeqRecord.
+ - handle - File handle object to write to, or filename as string
+ (note older versions of Biopython only took a handle).
+ - format - lower case string describing the file format to write.
You should close the handle after calling this function.
@@ -505,12 +515,13 @@ def write(sequences, handle, format):
def parse(handle, format, alphabet=None):
r"""Turns a sequence file into an iterator returning SeqRecords.
- - handle - handle to the file, or the filename as a string
- (note older versions of Biopython only took a handle).
- - format - lower case string describing the file format.
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. format="fasta" or "tab")
+ Arguments:
+ - handle - handle to the file, or the filename as a string
+ (note older versions of Biopython only took a handle).
+ - format - lower case string describing the file format.
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. format="fasta" or "tab")
Typical usage, opening a file to read in, and looping over the record(s):
@@ -619,12 +630,13 @@ def _force_alphabet(record_iterator, alphabet):
def read(handle, format, alphabet=None):
"""Turns a sequence file into a single SeqRecord.
- - handle - handle to the file, or the filename as a string
- (note older versions of Biopython only took a handle).
- - format - string describing the file format.
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. format="fasta" or "tab")
+ Arguments:
+ - handle - handle to the file, or the filename as a string
+ (note older versions of Biopython only took a handle).
+ - format - string describing the file format.
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. format="fasta" or "tab")
This function is for use parsing sequence files containing
exactly one record. For example, reading a GenBank file:
@@ -678,10 +690,11 @@ def read(handle, format, alphabet=None):
def to_dict(sequences, key_function=None):
"""Turns a sequence iterator or list into a dictionary.
- - sequences - An iterator that returns SeqRecord objects,
- or simply a list of SeqRecord objects.
- - key_function - Optional callback function which when given a
- SeqRecord should return a unique key for the dictionary.
+ Arguments:
+ - sequences - An iterator that returns SeqRecord objects,
+ or simply a list of SeqRecord objects.
+ - key_function - Optional callback function which when given a
+ SeqRecord should return a unique key for the dictionary.
e.g. key_function = lambda rec : rec.name
or, key_function = lambda rec : rec.description.split()[0]
@@ -700,7 +713,7 @@ def to_dict(sequences, key_function=None):
>>> print(sorted(id_dict))
['AF297471.1', 'AJ237582.1', 'L31939.1', 'M81224.1', 'X55053.1', 'X62281.1']
>>> print(id_dict["L31939.1"].description)
- Brassica rapa (clone bif72) kin mRNA, complete cds.
+ Brassica rapa (clone bif72) kin mRNA, complete cds
A more complex example, using the key_function argument in order to
use a sequence checksum as the dictionary key:
@@ -739,14 +752,15 @@ def to_dict(sequences, key_function=None):
def index(filename, format, alphabet=None, key_function=None):
"""Indexes a sequence file and returns a dictionary like object.
- - filename - string giving name of file to be indexed
- - format - lower case string describing the file format
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. format="fasta" or "tab")
- - key_function - Optional callback function which when given a
- SeqRecord identifier string should return a unique
- key for the dictionary.
+ Arguments:
+ - filename - string giving name of file to be indexed
+ - format - lower case string describing the file format
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. format="fasta" or "tab")
+ - key_function - Optional callback function which when given a
+ SeqRecord identifier string should return a unique key for the
+ dictionary.
This indexing function will return a dictionary like object, giving the
SeqRecord objects as values:
@@ -842,7 +856,8 @@ def index(filename, format, alphabet=None, key_function=None):
to be completely parsed while building the index. Right now this is
usually avoided.
- See also: Bio.SeqIO.index_db() and Bio.SeqIO.to_dict()
+ See Also: Bio.SeqIO.index_db() and Bio.SeqIO.to_dict()
+
"""
# Try and give helpful error messages:
if not isinstance(filename, basestring):
@@ -877,18 +892,19 @@ def index_db(index_filename, filenames=None, format=None, alphabet=None,
The index is stored in an SQLite database rather than in memory (as in the
Bio.SeqIO.index(...) function).
- - index_filename - Where to store the SQLite index
- - filenames - list of strings specifying file(s) to be indexed, or when
- indexing a single file this can be given as a string.
- (optional if reloading an existing index, but must match)
- - format - lower case string describing the file format
- (optional if reloading an existing index, but must match)
- - alphabet - optional Alphabet object, useful when the sequence type
- cannot be automatically inferred from the file itself
- (e.g. format="fasta" or "tab")
- - key_function - Optional callback function which when given a
- SeqRecord identifier string should return a unique
- key for the dictionary.
+ Arguments:
+ - index_filename - Where to store the SQLite index
+ - filenames - list of strings specifying file(s) to be indexed, or when
+ indexing a single file this can be given as a string.
+ (optional if reloading an existing index, but must match)
+ - format - lower case string describing the file format
+ (optional if reloading an existing index, but must match)
+ - alphabet - optional Alphabet object, useful when the sequence type
+ cannot be automatically inferred from the file itself
+ (e.g. format="fasta" or "tab")
+ - key_function - Optional callback function which when given a
+ SeqRecord identifier string should return a unique
+ key for the dictionary.
This indexing function will return a dictionary like object, giving the
SeqRecord objects as values:
@@ -916,8 +932,9 @@ def index_db(index_filename, filenames=None, format=None, alphabet=None,
BGZF compressed files are supported, and detected automatically. Ordinary
GZIP compressed files are not supported.
- See also: Bio.SeqIO.index() and Bio.SeqIO.to_dict(), and the Python module
+ See Also: Bio.SeqIO.index() and Bio.SeqIO.to_dict(), and the Python module
glob which is useful for building lists of files.
+
"""
# Try and give helpful error messages:
if not isinstance(index_filename, basestring):
@@ -958,11 +975,12 @@ def index_db(index_filename, filenames=None, format=None, alphabet=None,
def convert(in_file, in_format, out_file, out_format, alphabet=None):
"""Convert between two sequence file formats, return number of records.
- - in_file - an input handle or filename
- - in_format - input file format, lower case string
- - out_file - an output handle or filename
- - out_format - output file format, lower case string
- - alphabet - optional alphabet to assume
+ Arguments:
+ - in_file - an input handle or filename
+ - in_format - input file format, lower case string
+ - out_file - an output handle or filename
+ - out_format - output file format, lower case string
+ - alphabet - optional alphabet to assume
**NOTE** - If you provide an output filename, it will be opened which will
overwrite any existing file without warning. This may happen if even
diff --git a/Bio/SeqIO/_index.py b/Bio/SeqIO/_index.py
index 3e5eeb9..952b485 100644
--- a/Bio/SeqIO/_index.py
+++ b/Bio/SeqIO/_index.py
@@ -26,8 +26,9 @@ temp lookup file might be one idea (e.g. using SQLite or an OBDA style index).
from __future__ import print_function
import re
+from io import BytesIO
from Bio._py3k import StringIO
-from Bio._py3k import _bytes_to_string, _as_bytes
+from Bio._py3k import _bytes_to_string
from Bio import SeqIO
from Bio import Alphabet
@@ -73,6 +74,7 @@ class SeqFileRandomAccess(_IndexedSeqFileProxy):
# number of flows.
class SffRandomAccess(SeqFileRandomAccess):
"""Random access to a Standard Flowgram Format (SFF) file."""
+
def __init__(self, filename, format, alphabet):
SeqFileRandomAccess.__init__(self, filename, format, alphabet)
header_length, index_offset, index_length, number_of_reads, \
@@ -166,28 +168,28 @@ class SffTrimedRandomAccess(SffRandomAccess):
class SequentialSeqFileRandomAccess(SeqFileRandomAccess):
def __init__(self, filename, format, alphabet):
SeqFileRandomAccess.__init__(self, filename, format, alphabet)
- marker = {"ace": "CO ",
- "embl": "ID ",
- "fasta": ">",
- "genbank": "LOCUS ",
- "gb": "LOCUS ",
- "imgt": "ID ",
- "phd": "BEGIN_SEQUENCE",
- "pir": ">..;",
- "qual": ">",
- "swiss": "ID ",
- "uniprot-xml": "<entry ",
+ marker = {"ace": b"CO ",
+ "embl": b"ID ",
+ "fasta": b">",
+ "genbank": b"LOCUS ",
+ "gb": b"LOCUS ",
+ "imgt": b"ID ",
+ "phd": b"BEGIN_SEQUENCE",
+ "pir": b">..;",
+ "qual": b">",
+ "swiss": b"ID ",
+ "uniprot-xml": b"<entry ",
}[format]
self._marker = marker
- self._marker_re = re.compile(_as_bytes("^%s" % marker))
+ self._marker_re = re.compile(b"^" + marker)
def __iter__(self):
- """Returns (id,offset) tuples."""
+ """Returns (id, offset, length) tuples."""
marker_offset = len(self._marker)
marker_re = self._marker_re
handle = self._handle
handle.seek(0)
- # Skip and header before first record
+ # Skip any header before first record
while True:
start_offset = handle.tell()
line = handle.readline()
@@ -224,7 +226,7 @@ class SequentialSeqFileRandomAccess(SeqFileRandomAccess):
# End of file, or start of next record => end of this record
break
lines.append(line)
- return _as_bytes("").join(lines)
+ return b"".join(lines)
#######################################
@@ -233,13 +235,13 @@ class SequentialSeqFileRandomAccess(SeqFileRandomAccess):
class GenBankRandomAccess(SequentialSeqFileRandomAccess):
"""Indexed dictionary like access to a GenBank file."""
+
def __iter__(self):
handle = self._handle
handle.seek(0)
marker_re = self._marker_re
- dot_char = _as_bytes(".")
- accession_marker = _as_bytes("ACCESSION ")
- version_marker = _as_bytes("VERSION ")
+ accession_marker = b"ACCESSION "
+ version_marker = b"VERSION "
# Skip and header before first record
while True:
start_offset = handle.tell()
@@ -266,7 +268,7 @@ class GenBankRandomAccess(SequentialSeqFileRandomAccess):
key = line.rstrip().split()[1]
elif line.startswith(version_marker):
version_id = line.rstrip().split()[1]
- if version_id.count(dot_char) == 1 and version_id.split(dot_char)[1].isdigit():
+ if version_id.count(b".") == 1 and version_id.split(b".")[1].isdigit():
# This should mimic the GenBank parser...
key = version_id
length += len(line)
@@ -275,14 +277,14 @@ class GenBankRandomAccess(SequentialSeqFileRandomAccess):
class EmblRandomAccess(SequentialSeqFileRandomAccess):
"""Indexed dictionary like access to an EMBL file."""
+
def __iter__(self):
handle = self._handle
handle.seek(0)
marker_re = self._marker_re
- semi_char = _as_bytes(";")
- dot_char = _as_bytes(".")
- sv_marker = _as_bytes("SV ")
- ac_marker = _as_bytes("AC ")
+ semi_char = b";"
+ sv_marker = b"SV "
+ ac_marker = b"AC "
# Skip any header before first record
while True:
start_offset = handle.tell()
@@ -295,24 +297,26 @@ class EmblRandomAccess(SequentialSeqFileRandomAccess):
# normally the SV line is used.
setbysv = False # resets sv as false
length = len(line)
- if line[2:].count(semi_char) == 6:
+ if line[2:].count(b";") in [5, 6]:
# Looks like the semi colon separated style introduced in 2006
- parts = line[3:].rstrip().split(semi_char)
+ # Or style from IPD-IMGT/HLA after their v3.16.0 release
+ parts = line[3:].rstrip().split(b";")
if parts[1].strip().startswith(sv_marker):
# The SV bit gives the version
- key = parts[0].strip() + dot_char + \
+ key = parts[0].strip() + b"." + \
parts[1].strip().split()[1]
setbysv = True
else:
key = parts[0].strip()
- elif line[2:].count(semi_char) == 3:
+ elif line[2:].count(b";") in [2, 3]:
# Looks like the pre 2006 style, take first word only
+ # Or, with two colons, the KIPO patent variantion
key = line[3:].strip().split(None, 1)[0]
- if key.endswith(semi_char):
+ if key.endswith(b";"):
key = key[:-1]
else:
raise ValueError(
- 'Did not recognise the ID line layout:\n' + line)
+ 'Did not recognise the ID line layout:\n%r' % line)
while True:
end_offset = handle.tell()
line = handle.readline()
@@ -323,7 +327,7 @@ class EmblRandomAccess(SequentialSeqFileRandomAccess):
break
elif line.startswith(ac_marker) and not setbysv:
key = line.rstrip().split()[1]
- if key.endswith(semi_char):
+ if key.endswith(b";"):
key = key[:-1]
elif line.startswith(sv_marker):
key = line.rstrip().split()[1]
@@ -334,11 +338,11 @@ class EmblRandomAccess(SequentialSeqFileRandomAccess):
class SwissRandomAccess(SequentialSeqFileRandomAccess):
"""Random access to a SwissProt file."""
+
def __iter__(self):
handle = self._handle
handle.seek(0)
marker_re = self._marker_re
- semi_char = _as_bytes(";")
# Skip any header before first record
while True:
start_offset = handle.tell()
@@ -352,8 +356,8 @@ class SwissRandomAccess(SequentialSeqFileRandomAccess):
# normally the following AC line is used.
line = handle.readline()
length += len(line)
- assert line.startswith(_as_bytes("AC "))
- key = line[3:].strip().split(semi_char)[0].strip()
+ assert line.startswith(b"AC ")
+ key = line[3:].strip().split(b";")[0].strip()
while True:
end_offset = handle.tell()
line = handle.readline()
@@ -367,14 +371,14 @@ class SwissRandomAccess(SequentialSeqFileRandomAccess):
class UniprotRandomAccess(SequentialSeqFileRandomAccess):
"""Random access to a UniProt XML file."""
+
def __iter__(self):
handle = self._handle
handle.seek(0)
marker_re = self._marker_re
- start_acc_marker = _as_bytes("<accession>")
- end_acc_marker = _as_bytes("</accession>")
- end_entry_marker = _as_bytes("</entry>")
- less_than = _as_bytes("<")
+ start_acc_marker = b"<accession>"
+ end_acc_marker = b"</accession>"
+ end_entry_marker = b"</entry>"
# Skip any header before first record
while True:
start_offset = handle.tell()
@@ -393,11 +397,13 @@ class UniprotRandomAccess(SequentialSeqFileRandomAccess):
if key is None and start_acc_marker in line:
assert end_acc_marker in line, line
key = line[line.find(
- start_acc_marker) + 11:].split(less_than, 1)[0]
+ start_acc_marker) + 11:].split(b"<", 1)[0]
length += len(line)
elif end_entry_marker in line:
+ length += line.find(end_entry_marker) + 8
end_offset = handle.tell() - len(line) \
+ line.find(end_entry_marker) + 8
+ assert start_offset + length == end_offset
break
elif marker_re.match(line) or not line:
# Start of next record or end of file
@@ -406,7 +412,7 @@ class UniprotRandomAccess(SequentialSeqFileRandomAccess):
length += len(line)
if not key:
raise ValueError("Did not find <accession> line in bytes %i to %i"
- % (start_offset, end_offset))
+ % (start_offset, start_offset + length))
yield _bytes_to_string(key), start_offset, length
# Find start of next record
while not marker_re.match(line) and line:
@@ -418,7 +424,7 @@ class UniprotRandomAccess(SequentialSeqFileRandomAccess):
"""Return the raw record from the file as a bytes string."""
handle = self._handle
marker_re = self._marker_re
- end_entry_marker = _as_bytes("</entry>")
+ end_entry_marker = b"</entry>"
handle.seek(offset)
data = [handle.readline()]
while True:
@@ -431,53 +437,57 @@ class UniprotRandomAccess(SequentialSeqFileRandomAccess):
# End of file, or start of next record
raise ValueError("Didn't find end of record")
data.append(line)
- return _as_bytes("").join(data)
+ return b"".join(data)
def get(self, offset):
# TODO - Can we handle this directly in the parser?
# This is a hack - use get_raw for <entry>...</entry> and wrap it with
# the apparently required XML header and footer.
- data = """<?xml version='1.0' encoding='UTF-8'?>
+ data = b"""<?xml version='1.0' encoding='UTF-8'?>
<uniprot xmlns="http://uniprot.org/uniprot"
xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
xsi:schemaLocation="http://uniprot.org/uniprot
http://www.uniprot.org/support/docs/uniprot.xsd">
- %s
- </uniprot>
- """ % _bytes_to_string(self.get_raw(offset))
- # TODO - For consistency, this function should not accept a string:
- return next(SeqIO.UniprotIO.UniprotIterator(data))
+ """ + self.get_raw(offset) + b"</uniprot>"
+ return next(SeqIO.UniprotIO.UniprotIterator(BytesIO(data)))
class IntelliGeneticsRandomAccess(SeqFileRandomAccess):
"""Random access to a IntelliGenetics file."""
+
def __init__(self, filename, format, alphabet):
SeqFileRandomAccess.__init__(self, filename, format, alphabet)
- self._marker_re = re.compile(_as_bytes("^;"))
+ self._marker_re = re.compile(b"^;")
def __iter__(self):
handle = self._handle
handle.seek(0)
- marker_re = self._marker_re
- semi_char = _as_bytes(";")
+ # Skip any header
+ offset = 0
+ line = ""
while True:
- offset = handle.tell()
+ offset += len(line)
line = handle.readline()
- length = len(line)
- if marker_re.match(line):
- # Now look for the first line which doesn't start ";"
- while True:
- line = handle.readline()
- if line[0:1] != semi_char and line.strip():
- key = line.split()[0]
- yield _bytes_to_string(key), offset, length
- break
- if not line:
- raise ValueError("Premature end of file?")
- length += len(line)
- elif not line:
- # End of file
+ if not line:
+ break # Premature end of file, or just empty?
+ if not line.startswith(b";;"):
break
+ while line:
+ length = 0
+ assert offset + len(line) == handle.tell()
+ if not line.startswith(b";"):
+ raise ValueError("Records should start with ';' and not:\n%r" % line)
+ while line.startswith(b";"):
+ length += len(line)
+ line = handle.readline()
+ key = line.rstrip()
+ # Now look for the first line which starts ";"
+ while line and not line.startswith(b";"):
+ length += len(line)
+ line = handle.readline()
+ yield _bytes_to_string(key), offset, length
+ offset += length
+ assert offset + len(line) == handle.tell()
def get_raw(self, offset):
"""Return the raw record from the file as a bytes string."""
@@ -486,22 +496,22 @@ class IntelliGeneticsRandomAccess(SeqFileRandomAccess):
marker_re = self._marker_re
lines = []
line = handle.readline()
- semi_char = _as_bytes(";")
- while line.startswith(semi_char):
+ while line.startswith(b";"):
lines.append(line)
line = handle.readline()
- while line and not line.startswith(semi_char):
+ while line and not line.startswith(b";"):
lines.append(line)
line = handle.readline()
- return _as_bytes("").join(lines)
+ return b"".join(lines)
class TabRandomAccess(SeqFileRandomAccess):
"""Random access to a simple tabbed file."""
+
def __iter__(self):
handle = self._handle
handle.seek(0)
- tab_char = _as_bytes("\t")
+ tab_char = b"\t"
while True:
start_offset = handle.tell()
line = handle.readline()
@@ -535,6 +545,7 @@ class FastqRandomAccess(SeqFileRandomAccess):
With FASTQ the records all start with a "@" line, but so can quality lines.
Note this will cope with line-wrapped FASTQ files.
"""
+
def __iter__(self):
handle = self._handle
handle.seek(0)
@@ -544,9 +555,7 @@ class FastqRandomAccess(SeqFileRandomAccess):
if not line:
# Empty file!
return
- at_char = _as_bytes("@")
- plus_char = _as_bytes("+")
- if line[0:1] != at_char:
+ if line[0:1] != b"@":
raise ValueError("Problem with FASTQ @ line:\n%r" % line)
while line:
# assert line[0]=="@"
@@ -558,7 +567,7 @@ class FastqRandomAccess(SeqFileRandomAccess):
while line:
line = handle.readline()
length += len(line)
- if line.startswith(plus_char):
+ if line.startswith(b"+"):
break
seq_len += len(line.strip())
if not line:
@@ -573,10 +582,11 @@ class FastqRandomAccess(SeqFileRandomAccess):
line = handle.readline()
if line.strip():
raise ValueError("Expected blank quality line, not %r" % line)
+ length += len(line) # Need to include the blank ling
# Should be end of record...
end_offset = handle.tell()
line = handle.readline()
- if line and line[0:1] != at_char:
+ if line and line[0:1] != b"@":
raise ValueError("Problem with line %r" % line)
break
else:
@@ -596,21 +606,19 @@ class FastqRandomAccess(SeqFileRandomAccess):
handle.seek(offset)
line = handle.readline()
data = line
- at_char = _as_bytes("@")
- plus_char = _as_bytes("+")
- if line[0:1] != at_char:
+ if line[0:1] != b"@":
raise ValueError("Problem with FASTQ @ line:\n%r" % line)
# Find the seq line(s)
seq_len = 0
while line:
line = handle.readline()
data += line
- if line.startswith(plus_char):
+ if line.startswith(b"+"):
break
seq_len += len(line.strip())
if not line:
raise ValueError("Premature end of file in seq section")
- assert line[0:1] == plus_char
+ assert line[0:1] == b"+"
# Find the qual line(s)
qual_len = 0
while line:
@@ -623,7 +631,7 @@ class FastqRandomAccess(SeqFileRandomAccess):
data += line
# Should be end of record...
line = handle.readline()
- if line and line[0:1] != at_char:
+ if line and line[0:1] != b"@":
raise ValueError("Problem with line %r" % line)
break
else:
diff --git a/Bio/SeqRecord.py b/Bio/SeqRecord.py
index 3a306aa..76002aa 100644
--- a/Bio/SeqRecord.py
+++ b/Bio/SeqRecord.py
@@ -1,10 +1,11 @@
-# Copyright 2000-2002 Andrew Dalke.
-# Copyright 2002-2004 Brad Chapman.
-# Copyright 2006-2010 by Peter Cock.
-# All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+# Copyright 2000-2002 Andrew Dalke. All rights reserved.
+# Copyright 2002-2004 Brad Chapman. All rights reserved.
+# Copyright 2006-2017 by Peter Cock. All rights reserved.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
"""Represent a Sequence Record, a sequence with annotation."""
@@ -93,22 +94,22 @@ class SeqRecord(object):
"""A SeqRecord object holds a sequence and information about it.
Main attributes:
- - id - Identifier such as a locus tag (string)
- - seq - The sequence itself (Seq object or similar)
+ - id - Identifier such as a locus tag (string)
+ - seq - The sequence itself (Seq object or similar)
Additional attributes:
- - name - Sequence name, e.g. gene name (string)
- - description - Additional text (string)
- - dbxrefs - List of database cross references (list of strings)
- - features - Any (sub)features defined (list of SeqFeature objects)
- - annotations - Further information about the whole sequence (dictionary).
- Most entries are strings, or lists of strings.
- - letter_annotations - Per letter/symbol annotation (restricted
- dictionary). This holds Python sequences (lists, strings
- or tuples) whose length matches that of the sequence.
- A typical use would be to hold a list of integers
- representing sequencing quality scores, or a string
- representing the secondary structure.
+ - name - Sequence name, e.g. gene name (string)
+ - description - Additional text (string)
+ - dbxrefs - List of database cross references (list of strings)
+ - features - Any (sub)features defined (list of SeqFeature objects)
+ - annotations - Further information about the whole sequence (dictionary).
+ Most entries are strings, or lists of strings.
+ - letter_annotations - Per letter/symbol annotation (restricted
+ dictionary). This holds Python sequences (lists, strings
+ or tuples) whose length matches that of the sequence.
+ A typical use would be to hold a list of integers
+ representing sequencing quality scores, or a string
+ representing the secondary structure.
You will typically use Bio.SeqIO to read in sequences from files as
SeqRecord objects. However, you may want to create your own SeqRecord
@@ -157,16 +158,16 @@ class SeqRecord(object):
"""Create a SeqRecord.
Arguments:
- - seq - Sequence, required (Seq, MutableSeq or UnknownSeq)
- - id - Sequence identifier, recommended (string)
- - name - Sequence name, optional (string)
- - description - Sequence description, optional (string)
- - dbxrefs - Database cross references, optional (list of strings)
- - features - Any (sub)features, optional (list of SeqFeature objects)
- - annotations - Dictionary of annotations for the whole sequence
- - letter_annotations - Dictionary of per-letter-annotations, values
- should be strings, list or tuples of the same
- length as the full sequence.
+ - seq - Sequence, required (Seq, MutableSeq or UnknownSeq)
+ - id - Sequence identifier, recommended (string)
+ - name - Sequence name, optional (string)
+ - description - Sequence description, optional (string)
+ - dbxrefs - Database cross references, optional (list of strings)
+ - features - Any (sub)features, optional (list of SeqFeature objects)
+ - annotations - Dictionary of annotations for the whole sequence
+ - letter_annotations - Dictionary of per-letter-annotations, values
+ should be strings, list or tuples of the same length as the full
+ sequence.
You will typically use Bio.SeqIO to read in sequences from files as
SeqRecord objects. However, you may want to create your own SeqRecord
@@ -217,7 +218,7 @@ class SeqRecord(object):
try:
self._per_letter_annotations = \
_RestrictedDict(length=len(seq))
- except:
+ except TypeError:
raise TypeError("seq argument should be a Seq object or similar")
else:
# This will be handled via the property set function, which will
@@ -986,6 +987,10 @@ class SeqRecord(object):
letter_annotations=True, dbxrefs=False):
"""Returns new SeqRecord with reverse complement sequence.
+ By default the new record does NOT preserve the sequence identifier,
+ name, description, general annotation or database cross-references -
+ these are unlikely to apply to the reversed sequence.
+
You can specify the returned record's id, name and description as
strings, or True to keep that of the parent, or False for a default.
@@ -1012,9 +1017,10 @@ class SeqRecord(object):
>>> print(record.letter_annotations["solexa_quality"])
[40, 39, 38, 37, 36, 35, 34, 33, 32, 31, 30, 29, 28, 27, 26, 25, 24, 23, 22, 21, 20, 19, 18, 17, 16, 15, 14, 13, 12, 11, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0, -1, -2, -3, -4, -5]
- Now take the reverse complement,
+ Now take the reverse complement, here we explicitly give a new
+ identifier (the old identifier with a suffix):
- >>> rc_record = record.reverse_complement(id=record.id+"_rc")
+ >>> rc_record = record.reverse_complement(id=record.id + "_rc")
>>> print("%s %s" % (rc_record.id, rc_record.seq))
slxa_0001_1_0001_01_rc NNNNNNACGTACGTACGTACGTACGTACGTACGTACGTACGTACGT
diff --git a/Bio/SeqUtils/CheckSum.py b/Bio/SeqUtils/CheckSum.py
index e35e4a3..fa24f97 100644
--- a/Bio/SeqUtils/CheckSum.py
+++ b/Bio/SeqUtils/CheckSum.py
@@ -54,6 +54,7 @@ def _init_table_h():
_table_h.append(part_h)
return _table_h
+
# Initialisation
_table_h = _init_table_h()
diff --git a/Bio/SeqUtils/CodonUsage.py b/Bio/SeqUtils/CodonUsage.py
index ff25aee..b6a7adb 100644
--- a/Bio/SeqUtils/CodonUsage.py
+++ b/Bio/SeqUtils/CodonUsage.py
@@ -81,7 +81,6 @@ class CodonAdaptationIndex(object):
(which must all have a whole number of codons) and generates a codon
usage index.
"""
-
# first make sure we're not overwriting an existing index:
if self.index != {} or self.codon_count != {}:
raise ValueError("an index has already been set or a codon count has been done. cannot overwrite either.")
diff --git a/Bio/SeqUtils/MeltingTemp.py b/Bio/SeqUtils/MeltingTemp.py
index 9e4496a..879f26f 100644
--- a/Bio/SeqUtils/MeltingTemp.py
+++ b/Bio/SeqUtils/MeltingTemp.py
@@ -52,7 +52,6 @@ Other public methods of this module:
be called additionally.
Examples:
-
>>> from Bio.SeqUtils import MeltingTemp as mt
>>> from Bio.Seq import Seq
>>> mystring = 'CGTTCCAAAGATGTGGGCATGAGCTTAC'
@@ -478,7 +477,6 @@ def salt_correction(Na=0, K=0, Tris=0, Mg=0, dNTPs=0, method=1, seq=None):
(Owczarzy et al. (2008), Biochemistry 47: 5336-5353)
Examples:
-
>>> from Bio.SeqUtils import MeltingTemp as mt
>>> print('%0.2f' % mt.salt_correction(Na=50, method=1))
-21.60
@@ -579,7 +577,6 @@ def chem_correction(melting_temp, DMSO=0, fmd=0, DMSOfactor=0.75,
- GC: GC content in percent.
Examples:
-
>>> from Bio.SeqUtils import MeltingTemp as mt
>>> mt.chem_correction(70)
70
@@ -622,7 +619,6 @@ def Tm_Wallace(seq, check=True, strict=True):
Non-DNA characters (e.g., E, F, J, !, 1, etc) are ignored by this method.
Examples:
-
>>> from Bio.SeqUtils import MeltingTemp as mt
>>> mt.Tm_Wallace('ACGTTGCAATGCCGTA')
48.0
@@ -1032,12 +1028,6 @@ def Tm_staluc(s, dnac=50, saltc=50, rna=0):
raise ValueError("rna={0} not supported".format(rna))
-def _test():
- """Run the module's doctests (PRIVATE)."""
- import doctest
- print("Running doctests...")
- doctest.testmod()
- print("Done")
-
if __name__ == "__main__":
- _test()
+ from Bio._utils import run_doctest
+ run_doctest()
diff --git a/Bio/SeqUtils/ProtParam.py b/Bio/SeqUtils/ProtParam.py
index be36ec5..fc53137 100644
--- a/Bio/SeqUtils/ProtParam.py
+++ b/Bio/SeqUtils/ProtParam.py
@@ -45,6 +45,7 @@ class ProteinAnalysis(object):
molecular mass will be used for the calculation.
"""
+
def __init__(self, prot_sequence, monoisotopic=False):
if prot_sequence.islower():
self.sequence = Seq(prot_sequence.upper(), IUPAC.protein)
@@ -268,7 +269,7 @@ class ProteinAnalysis(object):
Amino acids in Turn: N, P, G, S.
Amino acids in sheet: E, M, A, L.
- Returns a tuple of three integers (Helix, Turn, Sheet).
+ Returns a tuple of three floats (Helix, Turn, Sheet).
"""
aa_percentages = self.get_amino_acids_percent()
diff --git a/Bio/SeqUtils/ProtParamData.py b/Bio/SeqUtils/ProtParamData.py
index f068b9a..9683a6b 100644
--- a/Bio/SeqUtils/ProtParamData.py
+++ b/Bio/SeqUtils/ProtParamData.py
@@ -1,4 +1,4 @@
-"""This module contains indices to be used with ProtParam."""
+"""Indices to be used with ProtParam."""
# Kyte & Doolittle index of hydrophobicity
diff --git a/Bio/SeqUtils/__init__.py b/Bio/SeqUtils/__init__.py
index 77aba9d..0dcf0e3 100644
--- a/Bio/SeqUtils/__init__.py
+++ b/Bio/SeqUtils/__init__.py
@@ -18,7 +18,6 @@ from math import pi, sin, cos
from Bio.Seq import Seq, MutableSeq
from Bio import Alphabet
-from Bio.Alphabet import IUPAC
from Bio.Data import IUPACData
@@ -96,6 +95,8 @@ def GC_skew(seq, window=100):
Returns a list of ratios (floats), controlled by the length of the sequence
and the size of the window.
+ Returns 0 for windows without any G/C by handling zero division errors.
+
Does NOT look at any ambiguous nucleotides.
"""
# 8/19/03: Iddo: added lowercase
@@ -104,7 +105,10 @@ def GC_skew(seq, window=100):
s = seq[i: i + window]
g = s.count('G') + s.count('g')
c = s.count('C') + s.count('c')
- skew = (g - c) / float(g + c)
+ try:
+ skew = (g - c) / float(g + c)
+ except ZeroDivisionError:
+ skew = 0.0
values.append(skew)
return values
@@ -329,13 +333,14 @@ def molecular_weight(seq, seq_type=None, double_stranded=False, circular=False,
Only unambiguous letters are allowed. Nucleotide sequences are assumed to
have a 5' phosphate.
- - seq: String or Biopython sequence object.
- - seq_type: The default (None) is to take the alphabet from the seq argument,
- or assume DNA if the seq argument is a string. Override this with
- a string 'DNA', 'RNA', or 'protein'.
- - double_stranded: Calculate the mass for the double stranded molecule?
- - circular: Is the molecule circular (has no ends)?
- - monoisotopic: Use the monoisotopic mass tables?
+ Arguments:
+ - seq: String or Biopython sequence object.
+ - seq_type: The default (None) is to take the alphabet from the seq argument,
+ or assume DNA if the seq argument is a string. Override this with
+ a string 'DNA', 'RNA', or 'protein'.
+ - double_stranded: Calculate the mass for the double stranded molecule?
+ - circular: Is the molecule circular (has no ends)?
+ - monoisotopic: Use the monoisotopic mass tables?
Note that for backwards compatibility, if the seq argument is a string,
or Seq object with a generic alphabet, and no seq_type is specified
@@ -441,8 +446,6 @@ def molecular_weight(seq, seq_type=None, double_stranded=False, circular=False,
except KeyError as e:
raise ValueError('%s is not a valid unambiguous letter for %s'
% (e, seq_type))
- except:
- raise
if seq_type in ('DNA', 'RNA') and double_stranded:
seq = str(Seq(seq).complement())
@@ -522,27 +525,6 @@ def six_frame_translations(seq, genetic_code=1):
# }}}
-def _test():
- """Run the module's doctests (PRIVATE)."""
- import os
- import doctest
- if os.path.isdir(os.path.join("..", "Tests")):
- print("Running doctests...")
- cur_dir = os.path.abspath(os.curdir)
- os.chdir(os.path.join("..", "Tests"))
- doctest.testmod()
- os.chdir(cur_dir)
- del cur_dir
- print("Done")
- elif os.path.isdir(os.path.join("Tests")):
- print("Running doctests...")
- cur_dir = os.path.abspath(os.curdir)
- os.chdir(os.path.join("Tests"))
- doctest.testmod()
- os.chdir(cur_dir)
- del cur_dir
- print("Done")
-
-
if __name__ == "__main__":
- _test()
+ from Bio._utils import run_doctest
+ run_doctest()
diff --git a/Bio/SeqUtils/lcc.py b/Bio/SeqUtils/lcc.py
index c47e404..6be44a5 100644
--- a/Bio/SeqUtils/lcc.py
+++ b/Bio/SeqUtils/lcc.py
@@ -19,7 +19,8 @@ def lcc_mult(seq, wsize):
The result is the same as applying lcc_simp multiple times, but this
version is optimized for speed. The optimization works by using the
- value of previous window as a base to compute the next one."""
+ value of previous window as a base to compute the next one.
+ """
l2 = math.log(2)
tamseq = len(seq)
try:
diff --git a/Bio/Sequencing/Ace.py b/Bio/Sequencing/Ace.py
index 60a72ef..58b8e98 100644
--- a/Bio/Sequencing/Ace.py
+++ b/Bio/Sequencing/Ace.py
@@ -64,6 +64,7 @@ class rd(object):
The location and strand each read is mapped to is held in the AF lines.
"""
+
def __init__(self):
self.name = ''
self.padded_bases = None
@@ -74,6 +75,7 @@ class rd(object):
class qa(object):
"""QA (read quality), including which part if any was used as the consensus."""
+
def __init__(self, line=None):
self.qual_clipping_start = None
self.qual_clipping_end = None
@@ -89,6 +91,7 @@ class qa(object):
class ds(object):
"""DS lines, include file name of a read's chromatogram file."""
+
def __init__(self, line=None):
self.chromat_file = ''
self.phd_file = ''
@@ -115,6 +118,7 @@ class af(object):
since the strand information is stored in an ACE file using either the
C or U character.
"""
+
def __init__(self, line=None):
self.name = ''
self.coru = None
@@ -128,6 +132,7 @@ class af(object):
class bs(object):
"""BS (base segment), which read was chosen as the consensus at each position."""
+
def __init__(self, line=None):
self.name = ''
self.padded_start = None
@@ -141,6 +146,7 @@ class bs(object):
class rt(object):
"""RT (transient read tags), generated by crossmatch and phrap."""
+
def __init__(self, line=None):
self.name = ''
self.tag_type = ''
@@ -161,6 +167,7 @@ class rt(object):
class ct(object):
"""CT (consensus tags)."""
+
def __init__(self, line=None):
self.name = ''
self.tag_type = ''
@@ -185,6 +192,7 @@ class ct(object):
class wa(object):
"""WA (whole assembly tag), holds the assembly program name, version, etc."""
+
def __init__(self, line=None):
self.tag_type = ''
self.program = ''
@@ -199,6 +207,7 @@ class wa(object):
class wr(object):
"""WR lines."""
+
def __init__(self, line=None):
self.name = ''
self.aligned = ''
@@ -214,6 +223,7 @@ class wr(object):
class Reads(object):
"""Holds information about a read supporting an ACE contig."""
+
def __init__(self, line=None):
self.rd = None # one per read
self.qa = None # one per read
@@ -231,6 +241,7 @@ class Reads(object):
class Contig(object):
"""Holds information about a contig from an ACE record."""
+
def __init__(self, line=None):
self.name = ''
self.nbases = None
@@ -267,7 +278,6 @@ def parse(handle):
where each record is a Contig object.
"""
-
handle = iter(handle)
line = ""
@@ -462,8 +472,8 @@ def parse(handle):
class ACEFileRecord(object):
- """Holds data of an ACE file.
- """
+ """Holds data of an ACE file."""
+
def __init__(self):
self.ncontigs = None
self.nreads = None
@@ -472,7 +482,6 @@ class ACEFileRecord(object):
def sort(self):
"""Sorts wr, rt and ct tags into the appropriate contig / read instance, if possible."""
-
ct = []
rt = []
wr = []
@@ -524,10 +533,7 @@ class ACEFileRecord(object):
def read(handle):
- """Parses the full ACE file in list of contigs.
-
- """
-
+ """Parses the full ACE file in list of contigs."""
handle = iter(handle)
record = ACEFileRecord()
diff --git a/Bio/Sequencing/Applications/_Novoalign.py b/Bio/Sequencing/Applications/_Novoalign.py
index 9254efb..861dfa8 100644
--- a/Bio/Sequencing/Applications/_Novoalign.py
+++ b/Bio/Sequencing/Applications/_Novoalign.py
@@ -38,6 +38,7 @@ class NovoalignCommandline(AbstractCommandline):
Last checked against version: 2.05.04
"""
+
def __init__(self, cmd="novoalign", **kwargs):
READ_FORMAT = ['FA', 'SLXFQ', 'STDFQ', 'ILMFQ', 'PRB', 'PRBnSEQ']
diff --git a/Bio/Sequencing/Applications/__init__.py b/Bio/Sequencing/Applications/__init__.py
index 754c91f..94b351e 100644
--- a/Bio/Sequencing/Applications/__init__.py
+++ b/Bio/Sequencing/Applications/__init__.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Main entry point for application command line wrappers related to sequencing.
-"""
+"""Main entry point for sequencing related command line application wrappers."""
from ._Novoalign import NovoalignCommandline
from ._bwa import BwaIndexCommandline, BwaAlignCommandline, BwaSamseCommandline
from ._bwa import BwaSampeCommandline, BwaBwaswCommandline
@@ -14,11 +13,12 @@ from ._samtools import SamtoolsFixmateCommandline, SamtoolsIdxstatsCommandline
from ._samtools import SamtoolsIndexCommandline, SamtoolsMergeCommandline
from ._samtools import SamtoolsMpileupCommandline, SamtoolsPhaseCommandline
from ._samtools import SamtoolsReheaderCommandline, SamtoolsRmdupCommandline
-from ._samtools import SamtoolsSortCommandline, SamtoolsTargetcutCommandline
+from ._samtools import SamtoolsVersion0xSortCommandline, SamtoolsVersion1xSortCommandline, SamtoolsTargetcutCommandline
+from ._samtools import SamtoolsVersion0xSortCommandline as SamtoolsSortCommandline
# Make this explicit, then they show up in the API docs
-__all__ = ["BwaIndexCommandline",
+__all__ = ("BwaIndexCommandline",
"BwaAlignCommandline",
"BwaSamseCommandline",
"BwaSampeCommandline",
@@ -36,5 +36,7 @@ __all__ = ["BwaIndexCommandline",
"SamtoolsReheaderCommandline",
"SamtoolsRmdupCommandline",
"SamtoolsSortCommandline",
+ "SamtoolsVersion0xSortCommandline",
+ "SamtoolsVersion1xSortCommandline",
"SamtoolsTargetcutCommandline",
- ]
+ )
diff --git a/Bio/Sequencing/Applications/_bwa.py b/Bio/Sequencing/Applications/_bwa.py
index 3d51bdf..4258fb8 100644
--- a/Bio/Sequencing/Applications/_bwa.py
+++ b/Bio/Sequencing/Applications/_bwa.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""Command line wrapper for bwa
-"""
+"""Command line wrapper for bwa."""
from __future__ import print_function
from Bio._py3k import basestring
@@ -35,6 +34,7 @@ class BwaIndexCommandline(AbstractCommandline):
Python subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="bwa", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -85,6 +85,7 @@ class BwaAlignCommandline(AbstractCommandline):
You would typically run the command line using align_cmd(stdout=output_sai_file)
or via the Python subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="bwa", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -197,6 +198,7 @@ class BwaSamseCommandline(AbstractCommandline):
You would typically run the command line using samse_cmd(stdout=output_sam_file)
or via the Python subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="bwa", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -248,7 +250,9 @@ class BwaSampeCommandline(AbstractCommandline):
You would typically run the command line using sampe_cmd(stdout=output_sam_file)
or via the Python subprocess module, as described in the Biopython tutorial.
"""
+
# TODO - Should the read group have a raw tab in it, or \t?
+
def __init__(self, cmd="bwa", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -312,6 +316,7 @@ class BwaBwaswCommandline(AbstractCommandline):
You would typically run the command line using bwasw_cmd() or via the
Python subprocess module, as described in the Biopython tutorial.
"""
+
def __init__(self, cmd="bwa", **kwargs):
self.program_name = cmd
self.parameters = [
diff --git a/Bio/Sequencing/Applications/_samtools.py b/Bio/Sequencing/Applications/_samtools.py
index 910f88a..75ef853 100644
--- a/Bio/Sequencing/Applications/_samtools.py
+++ b/Bio/Sequencing/Applications/_samtools.py
@@ -11,7 +11,6 @@ from Bio.Application import _StaticArgument
class SamtoolsViewCommandline(AbstractCommandline):
-
"""Command line wrapper for samtools view.
Extract/print all or sub alignments in SAM or BAM format, equivalent to::
@@ -32,6 +31,7 @@ class SamtoolsViewCommandline(AbstractCommandline):
samtools view /path/to/sam_or_bam_file
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -125,6 +125,7 @@ class SamtoolsMpileupCommandline(AbstractCommandline):
samtools mpileup /path/to/sam_or_bam_file
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -264,6 +265,7 @@ class SamtoolsReheaderCommandline(AbstractCommandline):
samtools reheader /path/to/header_sam_file /path/to/input_bam_file
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -283,7 +285,7 @@ class SamtoolsCatCommandline(AbstractCommandline):
Concatenate BAMs, equivalent to::
- $ samtools cat [-h header.sam] [-o out.bam] <in1.bam> <in2.bam> [ ... ]
+ $ samtools cat [-h header.sam] [-o out.bam] <in1.bam> <in2.bam> [ ... ]
See http://samtools.sourceforge.net/samtools.shtml for more details
@@ -297,7 +299,8 @@ class SamtoolsCatCommandline(AbstractCommandline):
>>> print(samtools_cat_cmd)
samtools cat /path/to/input_bam1 /path/to/input_bam2
- """
+ """
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -315,8 +318,8 @@ class SamtoolsCatCommandline(AbstractCommandline):
AbstractCommandline.__init__(self, cmd, **kwargs)
-class SamtoolsSortCommandline(AbstractCommandline):
- """Command line wrapper for samtools sort.
+class SamtoolsVersion0xSortCommandline(AbstractCommandline):
+ """Command line wrapper for samtools version 0.1.x sort.
Concatenate BAMs, equivalent to::
@@ -327,18 +330,19 @@ class SamtoolsSortCommandline(AbstractCommandline):
Example
-------
- >>> from Bio.Sequencing.Applications import SamtoolsSortCommandline
+ >>> from Bio.Sequencing.Applications import SamtoolsVersion0xSortCommandline
>>> input_bam = "/path/to/input_bam"
>>> out_prefix = "/path/to/out_prefix"
- >>> samtools_sort_cmd = SamtoolsSortCommandline(\
- input_bam=input_bam,\
- out_prefix=out_prefix)
+ >>> samtools_sort_cmd = SamtoolsVersion0xSortCommandline(input=input_bam, out_prefix=out_prefix)
>>> print(samtools_sort_cmd)
samtools sort /path/to/input_bam /path/to/out_prefix
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
+
+ # options for version samtools 0.0.19
self.parameters = [
_StaticArgument("sort"),
_Switch(["-o", "o"], """Output the final alignment
@@ -348,10 +352,62 @@ class SamtoolsSortCommandline(AbstractCommandline):
_Option(["-m", "m"], "Approximately the maximum required memory",
equate=False,
checker_function=lambda x: isinstance(x, int)),
- _Argument(["input_bam"], "Input BAM file",
+ _Argument(["input"], "Input BAM file",
filename=True, is_required=True),
_Argument(["out_prefix"], "Output prefix",
- filename=True, is_required=True)
+ filename=True, is_required=True),
+ ]
+ AbstractCommandline.__init__(self, cmd, **kwargs)
+
+
+class SamtoolsVersion1xSortCommandline(AbstractCommandline):
+ """Command line wrapper for samtools version 1.3.x sort.
+
+ Concatenate BAMs, equivalent to::
+
+ $ samtools sort [-n] [-T FREFIX] [-o file] [-I INT] [-m maxMem] <in.bam>
+
+ See http://samtools.sourceforge.net/samtools.shtml for more details
+
+ Example
+ -------
+
+ >>> from Bio.Sequencing.Applications import SamtoolsVersion1xSortCommandline
+ >>> input_bam = "/path/to/input_bam"
+ >>> FREFIX = "/path/to/out_prefix"
+ >>> file_name = "/path/to/out_file"
+ >>> samtools_sort_cmd = SamtoolsVersion1xSortCommandline(input=input_bam, T=FREFIX, o=file_name)
+ >>> print(samtools_sort_cmd)
+ samtools sort -o /path/to/out_file -T /path/to/out_prefix /path/to/input_bam
+
+ """
+
+ def __init__(self, cmd="samtools", **kwargs):
+ self.program_name = cmd
+
+ # options for version samtools 1.3.1
+ self.parameters = [
+ _StaticArgument("sort"),
+ _Switch(["-n", "n"], """Sort by read names rather
+ than by chromosomal coordinates"""),
+ _Option(["-o", "o"], """(file) Write the final sorted output to FILE,
+ rather than to standard output""",
+ equate=False, checker_function=lambda x: isinstance(x, str)),
+ _Option(["-O", "O"], """(FORMAT) Write the final output as sam, bam, or cram""",
+ equate=False, checker_function=lambda x: isinstance(x, str)),
+ _Option(["-T", "T"], """(PREFIX) Write temporary files to PREFIX.nnnn.bam, or if the specified PREFIX
+ is an existing directory, to PREFIX/samtools.mmm.mmm.tmp.nnnn.bam,
+ where mmm is unique to this invocation of the sort command""",
+ equate=False, checker_function=lambda x: isinstance(x, str)),
+ _Option(["-I", "I"], """(INT) Set the desired compression level for the final output file,
+ ranging from 0 (uncompressed) or 1 (fastest but minimal compression)
+ to 9 (best compression but slowest to write), similarly to gzip(1)'s compression level setting.""",
+ equate=False, checker_function=lambda x: isinstance(x, str)),
+ _Option(["-m", "m"], "Approximately the maximum required memory",
+ equate=False,
+ checker_function=lambda x: isinstance(x, int)),
+ _Argument(["input"], "Input SAM/BAM/CRAM file",
+ filename=True, is_required=True),
]
AbstractCommandline.__init__(self, cmd, **kwargs)
@@ -379,6 +435,7 @@ class SamtoolsMergeCommandline(AbstractCommandline):
samtools merge /path/to/out_bam /path/to/input_bam1 /path/to/input_bam2
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -429,6 +486,7 @@ class SamtoolsIndexCommandline(AbstractCommandline):
samtools index /path/to/aln_bam
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -457,6 +515,7 @@ class SamtoolsIdxstatsCommandline(AbstractCommandline):
samtools idxstats /path/to/aln_bam
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -486,6 +545,7 @@ class SamtoolsFaidxCommandline(AbstractCommandline):
samtools faidx /path/to/reference.fasta
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -520,6 +580,7 @@ class SamtoolsFixmateCommandline(AbstractCommandline):
samtools fixmate /path/to/in.nameSrt.bam /path/to/out.bam
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -556,6 +617,7 @@ class SamtoolsRmdupCommandline(AbstractCommandline):
samtools rmdup /path/to/input.srt.bam /path/to/out.bam
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -599,6 +661,7 @@ class SamtoolsCalmdCommandline(AbstractCommandline):
samtools calmd /path/to/aln.bam /path/to/reference.fasta
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -659,6 +722,7 @@ class SamtoolsTargetcutCommandline(AbstractCommandline):
samtools targetcut /path/to/aln.bam
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
@@ -705,6 +769,7 @@ class SamtoolsPhaseCommandline(AbstractCommandline):
samtools phase /path/to/in.bam
"""
+
def __init__(self, cmd="samtools", **kwargs):
self.program_name = cmd
self.parameters = [
diff --git a/Bio/Sequencing/Phd.py b/Bio/Sequencing/Phd.py
index 9ae91a9..6396227 100644
--- a/Bio/Sequencing/Phd.py
+++ b/Bio/Sequencing/Phd.py
@@ -6,8 +6,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-Parser for PHD files output by PHRED and used by PHRAP and CONSED.
+"""Parser for PHD files output by PHRED and used by PHRAP and CONSED.
This module can be used directly which will return Record objects
which should contain all the original data in the file.
@@ -27,6 +26,7 @@ CKEYWORDS = ['CHROMAT_FILE', 'ABI_THUMBPRINT', 'PHRED_VERSION', 'CALL_METHOD',
class Record(object):
"""Hold information from a PHD file."""
+
def __init__(self):
self.file_name = ''
self.comments = {}
@@ -134,6 +134,7 @@ def parse(handle):
records = parse(handle)
for record in records:
# do something with the record object
+
"""
while True:
record = read(handle)
diff --git a/Bio/Statistics/lowess.py b/Bio/Statistics/lowess.py
index 18d513a..807c306 100644
--- a/Bio/Statistics/lowess.py
+++ b/Bio/Statistics/lowess.py
@@ -36,9 +36,8 @@ except ImportError as x:
def lowess(x, y, f=2. / 3., iter=3):
- """lowess(x, y, f=2./3., iter=3) -> yest
+ """Lowess smoother: Robust locally weighted regression.
- Lowess smoother: Robust locally weighted regression.
The lowess function fits a nonparametric regression curve to a scatterplot.
The arrays x and y contain an equal number of elements; each pair
(x[i], y[i]) defines a data point in the scatterplot. The function returns
@@ -52,6 +51,7 @@ def lowess(x, y, f=2. / 3., iter=3):
also a numpy float array of that length.
e.g.
+
>>> import numpy
>>> x = numpy.array([4, 4, 7, 7, 8, 9, 10, 10, 10, 11, 11, 12, 12, 12,
... 12, 13, 13, 13, 13, 14, 14, 14, 14, 15, 15, 15, 16, 16,
@@ -97,12 +97,6 @@ def lowess(x, y, f=2. / 3., iter=3):
return yest
-def _test():
- """Run the Bio.Statistics.lowess module's doctests."""
- print("Running doctests...")
- import doctest
- doctest.testmod()
- print("Done")
-
if __name__ == "__main__":
- _test()
+ from Bio._utils import run_doctest
+ run_doctest()
diff --git a/Bio/SubsMat/FreqTable.py b/Bio/SubsMat/FreqTable.py
index 077cda5..8d74997 100644
--- a/Bio/SubsMat/FreqTable.py
+++ b/Bio/SubsMat/FreqTable.py
@@ -2,9 +2,8 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
# Copyright Iddo Friedberg idoerg at cc.huji.ac.il
-"""A class to handle frequency tables
+"""A class to handle frequency tables or letter count files.
-Methods to read a letter frequency or a letter count file:
Example files for a DNA alphabet:
A count file (whitespace separated):
@@ -30,6 +29,7 @@ Functions:
Methods:
(all internal)
+
Attributes:
alphabet: The IUPAC alphabet set (or any other) whose letters you are
using. Common sets are: IUPAC.protein (20-letter protein),
diff --git a/Bio/SubsMat/MatrixInfo.py b/Bio/SubsMat/MatrixInfo.py
index e5fd428..307e475 100644
--- a/Bio/SubsMat/MatrixInfo.py
+++ b/Bio/SubsMat/MatrixInfo.py
@@ -91,6 +91,8 @@ def _temp():
('I', 'H'): -3.7, ('F', 'D'): -5.7, ('D', 'C'): -3.7, ('F', 'H'): 0.1,
('D', 'G'): 0.8, ('F', 'L'): 2.4
}
+
+
benner6 = _temp()
@@ -151,6 +153,8 @@ def _temp():
('I', 'H'): -3.2, ('F', 'D'): -5.4, ('D', 'C'): -3.7, ('F', 'H'): 0.3,
('D', 'G'): 0.7, ('F', 'L'): 2.2
}
+
+
benner22 = _temp()
del _temp
assert benner6 != benner22
@@ -213,6 +217,8 @@ def _temp():
('I', 'H'): -2.3, ('F', 'D'): -4.7, ('D', 'C'): -3.2, ('F', 'H'): 0.0,
('D', 'G'): 0.2, ('F', 'L'): 2.1
}
+
+
benner74 = _temp()
del _temp
@@ -290,6 +296,8 @@ def _temp():
('F', 'D'): -5, ('X', 'Y'): -3, ('Z', 'R'): -1, ('F', 'H'): -2,
('B', 'F'): -5, ('F', 'L'): 0, ('X', 'Q'): -2, ('B', 'B'): 4
}
+
+
blosum100 = _temp()
del _temp
@@ -367,6 +375,8 @@ def _temp():
('F', 'D'): -5, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -3,
('B', 'F'): -3, ('F', 'L'): 2, ('X', 'Q'): 0, ('B', 'B'): 5
}
+
+
blosum30 = _temp()
del _temp
@@ -444,6 +454,8 @@ def _temp():
('F', 'D'): -3, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -3,
('B', 'F'): -2, ('F', 'L'): 2, ('X', 'Q'): -1, ('B', 'B'): 5
}
+
+
blosum35 = _temp()
del _temp
@@ -521,6 +533,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -3, ('F', 'L'): 2, ('X', 'Q'): -1, ('B', 'B'): 5
}
+
+
blosum40 = _temp()
del _temp
@@ -598,6 +612,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -3, ('F', 'L'): 1, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum45 = _temp()
del _temp
@@ -675,6 +691,8 @@ def _temp():
('F', 'D'): -5, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -1,
('B', 'F'): -4, ('F', 'L'): 1, ('X', 'Q'): -1, ('B', 'B'): 5
}
+
+
blosum50 = _temp()
del _temp
@@ -752,6 +770,8 @@ def _temp():
('F', 'D'): -5, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -1,
('B', 'F'): -4, ('F', 'L'): 1, ('X', 'Q'): -1, ('B', 'B'): 5
}
+
+
blosum55 = _temp()
del _temp
@@ -829,6 +849,8 @@ def _temp():
('F', 'D'): -3, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -1,
('B', 'F'): -3, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum60 = _temp()
del _temp
@@ -906,6 +928,8 @@ def _temp():
('F', 'D'): -3, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -1,
('B', 'F'): -3, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum62 = _temp()
del _temp
@@ -983,6 +1007,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -1, ('Z', 'R'): 0, ('F', 'H'): -1,
('B', 'F'): -3, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum65 = _temp()
del _temp
@@ -1060,6 +1086,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -1,
('B', 'F'): -4, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum70 = _temp()
del _temp
@@ -1137,6 +1165,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -4, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum75 = _temp()
del _temp
@@ -1214,6 +1244,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -4, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum80 = _temp()
del _temp
@@ -1291,6 +1323,8 @@ def _temp():
('F', 'D'): -4, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -4, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum85 = _temp()
del _temp
@@ -1368,6 +1402,8 @@ def _temp():
('F', 'D'): -5, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -4, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum90 = _temp()
del _temp
@@ -1445,6 +1481,8 @@ def _temp():
('F', 'D'): -5, ('X', 'Y'): -2, ('Z', 'R'): -1, ('F', 'H'): -2,
('B', 'F'): -5, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
blosum95 = _temp()
del _temp
@@ -1506,6 +1544,8 @@ def _temp():
('I', 'H'): 1, ('F', 'D'): 1, ('D', 'C'): 1, ('F', 'H'): 2,
('D', 'G'): 4, ('F', 'L'): 4
}
+
+
feng = _temp()
del _temp
@@ -1557,6 +1597,8 @@ def _temp():
('Y', 'W'): 1, ('M', 'E'): 2, ('V', 'U'): 2, ('W', 'Q'): 0,
('U', 'U'): 3, ('V', 'O'): 1, ('F', 'F'): 3
}
+
+
fitch = _temp()
del _temp
@@ -1618,6 +1660,8 @@ def _temp():
('I', 'H'): -1.8, ('F', 'D'): -1.7, ('D', 'C'): -1.6, ('F', 'H'): -1.1,
('D', 'G'): 1.1, ('F', 'L'): 2.2
}
+
+
genetic = _temp()
del _temp
@@ -1679,6 +1723,8 @@ def _temp():
('I', 'H'): -2.2, ('F', 'D'): -4.5, ('D', 'C'): -3.2, ('F', 'H'): -0.1,
('D', 'G'): 0.1, ('F', 'L'): 2.0
}
+
+
gonnet = _temp()
del _temp
@@ -1740,6 +1786,8 @@ def _temp():
('F', 'P'): 101, ('N', 'Y'): 135, ('T', 'E'): 87, ('V', 'U'): 183,
('N', 'C'): 76, ('F', 'L'): 102
}
+
+
grant = _temp()
del _temp
@@ -1801,6 +1849,8 @@ def _temp():
('I', 'H'): -1, ('F', 'D'): -1, ('D', 'C'): -1, ('F', 'H'): -1,
('D', 'G'): -1, ('F', 'L'): -1
}
+
+
ident = _temp()
del _temp
@@ -1862,6 +1912,8 @@ def _temp():
('I', 'A'): -2.2, ('P', 'I'): -5.7, ('R', 'R'): 10.0, ('L', 'I'): 2.6,
('F', 'D'): -7.0, ('D', 'C'): -9.7
}
+
+
johnson = _temp()
del _temp
@@ -1923,6 +1975,8 @@ def _temp():
('K', 'K'): 2, ('I', 'H'): -1, ('F', 'D'): -1, ('F', 'H'): -1,
('D', 'G'): 0, ('F', 'L'): 0
}
+
+
levin = _temp()
del _temp
@@ -1984,6 +2038,8 @@ def _temp():
('N', 'C'): 1, ('E', 'C'): 0, ('D', 'C'): 1, ('D', 'G'): 3,
('F', 'L'): 5, ('W', 'F'): 6
}
+
+
mclach = _temp()
del _temp
@@ -2045,6 +2101,8 @@ def _temp():
('I', 'H'): -1.2, ('F', 'D'): -3.02, ('D', 'C'): -2.23, ('F', 'H'): -1.38,
('D', 'G'): -1.12, ('F', 'L'): 0.62
}
+
+
miyata = _temp()
del _temp
@@ -2117,6 +2175,8 @@ def _temp():
('Z', 'V'): -0.2, ('F', 'D'): -1.0, ('Z', 'R'): 0.2, ('D', 'C'): -0.5,
('B', 'B'): 1.1
}
+
+
nwsgappep = _temp()
del _temp
@@ -2194,6 +2254,8 @@ def _temp():
('F', 'D'): -7, ('X', 'Y'): -3, ('Z', 'R'): -1, ('F', 'H'): -3,
('B', 'F'): -5, ('F', 'L'): 0, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
pam120 = _temp()
del _temp
@@ -2271,6 +2333,8 @@ def _temp():
('F', 'D'): -8, ('X', 'Y'): -3, ('Z', 'R'): 0, ('F', 'H'): -3,
('B', 'F'): -6, ('F', 'L'): 1, ('X', 'Q'): -1, ('B', 'B'): 4
}
+
+
pam180 = _temp()
del _temp
@@ -2348,6 +2412,8 @@ def _temp():
('F', 'D'): -6, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -4, ('F', 'L'): 2, ('X', 'Q'): -1, ('B', 'B'): 3
}
+
+
pam250 = _temp()
del _temp
@@ -2425,6 +2491,8 @@ def _temp():
('F', 'D'): -15, ('X', 'Y'): -7, ('Z', 'R'): -4, ('F', 'H'): -6,
('B', 'F'): -10, ('F', 'L'): -3, ('X', 'Q'): -5, ('B', 'B'): 6
}
+
+
pam30 = _temp()
del _temp
@@ -2502,6 +2570,8 @@ def _temp():
('F', 'D'): -6, ('X', 'Y'): -2, ('Z', 'R'): 0, ('F', 'H'): -2,
('B', 'F'): -5, ('F', 'L'): 3, ('X', 'Q'): 0, ('B', 'B'): 3
}
+
+
pam300 = _temp()
del _temp
@@ -2579,6 +2649,8 @@ def _temp():
('F', 'D'): -11, ('X', 'Y'): -5, ('Z', 'R'): -2, ('F', 'H'): -4,
('B', 'F'): -8, ('F', 'L'): -1, ('X', 'Q'): -3, ('B', 'B'): 5
}
+
+
pam60 = _temp()
del _temp
@@ -2651,6 +2723,8 @@ def _temp():
('F', 'H'): -3, ('B', 'F'): -6, ('F', 'L'): 0, ('V', 'Y'): -4,
('B', 'B'): 4
}
+
+
pam90 = _temp()
del _temp
@@ -2712,6 +2786,8 @@ def _temp():
('I', 'A'): 9, ('P', 'I'): 3, ('R', 'R'): 16, ('L', 'I'): 10,
('F', 'D'): 4, ('D', 'C'): 8
}
+
+
rao = _temp()
del _temp
@@ -2773,6 +2849,8 @@ def _temp():
('I', 'A'): 1.7, ('P', 'I'): -0.6, ('R', 'R'): 2.2, ('L', 'I'): 2.1,
('F', 'D'): -0.3, ('D', 'C'): -1.7
}
+
+
risler = _temp()
del _temp
@@ -2834,5 +2912,7 @@ def _temp():
('I', 'H'): -5, ('F', 'D'): -5, ('D', 'C'): -7, ('F', 'H'): -2,
('D', 'G'): -1, ('F', 'L'): 2
}
+
+
structure = _temp()
del _temp
diff --git a/Bio/SubsMat/__init__.py b/Bio/SubsMat/__init__.py
index 287c150..05caa62 100644
--- a/Bio/SubsMat/__init__.py
+++ b/Bio/SubsMat/__init__.py
@@ -95,6 +95,7 @@ frequency table. The function returns the log-odds matrix.
Methods for subtraction, addition and multiplication of matrices:
-----------------------------------------------------------------
+
* Generation of an expected frequency table from an observed frequency
matrix.
* Calculation of linear correlation coefficient between two matrices.
@@ -106,6 +107,7 @@ Methods for subtraction, addition and multiplication of matrices:
* Jensen-Shannon distance between the distributions from which the
matrices are derived. This is a distance function based on the
distribution's entropies.
+
"""
@@ -115,10 +117,8 @@ import re
import sys
import copy
import math
-import warnings
# BioPython imports
-import Bio
from Bio import Alphabet
from Bio.SubsMat import FreqTable
@@ -135,12 +135,15 @@ EPSILON = 0.00000000000001
class SeqMat(dict):
- """A Generic sequence matrix class
+ """A Generic sequence matrix class.
+
The key is a 2-tuple containing the letter indices of the matrix. Those
should be sorted in the tuple (low, high). Because each matrix is dealt
- with as a half-matrix."""
+ with as a half-matrix.
+ """
def _alphabet_from_matrix(self):
+ """Set alphabet letters from the matrix entries (PRIVATE)."""
ab_dict = {}
s = ''
for i in self:
@@ -151,17 +154,20 @@ class SeqMat(dict):
self.alphabet.letters = s
def __init__(self, data=None, alphabet=None, mat_name='', build_later=0):
- # User may supply:
- # data: matrix itself
- # mat_name: its name. See below.
- # alphabet: an instance of Bio.Alphabet, or a subclass. If not
- # supplied, constructor builds its own from that matrix.
- # build_later: skip the matrix size assertion. User will build the
- # matrix after creating the instance. Constructor builds a half matrix
- # filled with zeroes.
+ """Initialize.
- assert isinstance(mat_name, str)
+ User may supply:
+
+ - data: matrix itself
+ - mat_name: its name. See below.
+ - alphabet: an instance of Bio.Alphabet, or a subclass. If not
+ supplied, constructor builds its own from that matrix.
+ - build_later: skip the matrix size assertion. User will build the
+ matrix after creating the instance. Constructor builds a half matrix
+ filled with zeroes.
+ """
+ assert isinstance(mat_name, str)
# "data" may be:
# 1) None --> then self.data is an empty dictionary
# 2) type({}) --> then self takes the items in data
@@ -200,15 +206,14 @@ class SeqMat(dict):
self.relative_entropy = 0
def _correct_matrix(self):
+ """Sort key tuples (PRIVATE)."""
for key in self:
if key[0] > key[1]:
self[(key[1], key[0])] = self[key]
del self[key]
def _full_to_half(self):
- """
- Convert a full-matrix to a half-matrix
- """
+ """Convert a full-matrix to a half-matrix."""
# For instance: two entries ('A','C'):13 and ('C','A'):20 will be summed
# into ('A','C'): 33 and the index ('C','A') will be deleted
# alphabet.letters:('A','A') and ('C','C') will remain the same.
@@ -224,11 +229,13 @@ class SeqMat(dict):
del self[i, j]
def _init_zero(self):
+ """Initialize the ab_list values to zero (PRIVATE)."""
for i in self.ab_list:
for j in self.ab_list[:self.ab_list.index(i) + 1]:
self[j, i] = 0.
def make_entropy(self):
+ """Calculate and set the entropy attribute."""
self.entropy = 0
for i in self:
if self[i] > EPSILON:
@@ -236,6 +243,7 @@ class SeqMat(dict):
self.entropy = -self.entropy
def sum(self):
+ """Return sum of the results."""
result = {}
for letter in self.alphabet.letters:
result[letter] = 0.0
@@ -250,6 +258,7 @@ class SeqMat(dict):
def print_full_mat(self, f=None, format="%4d", topformat="%4s",
alphabet=None, factor=1, non_sym=None):
+ """Print the full matrix to the file handle f or stdout."""
f = f or sys.stdout
# create a temporary dictionary, which holds the full matrix for
# printing
@@ -285,11 +294,14 @@ class SeqMat(dict):
def print_mat(self, f=None, format="%4d", bottomformat="%4s",
alphabet=None, factor=1):
- """Print a nice half-matrix. f=sys.stdout to see on the screen
+ """Print a nice half-matrix.
+
+ f=sys.stdout to see on the screen.
+
User may pass own alphabet, which should contain all letters in the
alphabet of the matrix, but may be in a different order. This
- order will be the order of the letters on the axes"""
-
+ order will be the order of the letters on the axes.
+ """
f = f or sys.stdout
if not alphabet:
alphabet = self.ab_list
@@ -338,21 +350,25 @@ class SeqMat(dict):
return output
def __sub__(self, other):
- """ returns a number which is the subtraction product of the two matrices"""
+ """Return integer subtraction product of the two matrices."""
mat_diff = 0
for i in self:
mat_diff += (self[i] - other[i])
return mat_diff
def __mul__(self, other):
- """ returns a matrix for which each entry is the multiplication product of the
- two matrices passed"""
+ """Matrix multiplication.
+
+ Returns a matrix for which each entry is the multiplication product of
+ the two matrices passed.
+ """
new_mat = copy.copy(self)
for i in self:
new_mat[i] *= other[i]
return new_mat
def __add__(self, other):
+ """Matrix addition."""
new_mat = copy.copy(self)
for i in self:
new_mat[i] += other[i]
@@ -360,23 +376,22 @@ class SeqMat(dict):
class AcceptedReplacementsMatrix(SeqMat):
- """Accepted replacements matrix"""
+ """Accepted replacements matrix."""
class ObservedFrequencyMatrix(SeqMat):
- """Observed frequency matrix"""
+ """Observed frequency matrix."""
class ExpectedFrequencyMatrix(SeqMat):
- """Expected frequency matrix"""
+ """Expected frequency matrix."""
class SubstitutionMatrix(SeqMat):
- """Substitution matrix"""
+ """Substitution matrix."""
def calculate_relative_entropy(self, obs_freq_mat):
- """Calculate and return the relative entropy with respect to an
- observed frequency matrix"""
+ """Calculate and return relative entropy w.r.t. observed frequency matrix."""
relative_entropy = 0.
for key, value in self.items():
if value > EPSILON:
@@ -386,11 +401,10 @@ class SubstitutionMatrix(SeqMat):
class LogOddsMatrix(SeqMat):
- """Log odds matrix"""
+ """Log odds matrix."""
def calculate_relative_entropy(self, obs_freq_mat):
- """Calculate and return the relative entropy with respect to an
- observed frequency matrix"""
+ """Calculate and return relative entropy w.r.t. observed frequency matrix."""
relative_entropy = 0.
for key, value in self.items():
relative_entropy += obs_freq_mat[key] * value / log(2)
@@ -398,9 +412,9 @@ class LogOddsMatrix(SeqMat):
def _build_obs_freq_mat(acc_rep_mat):
- """
- build_obs_freq_mat(acc_rep_mat):
- Build the observed frequency matrix, from an accepted replacements matrix
+ """Build observed frequency matrix (PRIVATE).
+
+ Build the observed frequency matrix. from an accepted replacements matrix.
The acc_rep_mat matrix should be generated by the user.
"""
# Note: acc_rep_mat should already be a half_matrix!!
@@ -413,6 +427,7 @@ def _build_obs_freq_mat(acc_rep_mat):
def _exp_freq_table_from_obs_freq(obs_freq_mat):
+ """Build expected frequence table from observed frequences (PRIVATE)."""
exp_freq_table = {}
for i in obs_freq_mat.alphabet.letters:
exp_freq_table[i] = 0.
@@ -426,7 +441,8 @@ def _exp_freq_table_from_obs_freq(obs_freq_mat):
def _build_exp_freq_mat(exp_freq_table):
- """Build an expected frequency matrix
+ """Build an expected frequency matrix (PRIVATE).
+
exp_freq_table: should be a FreqTable instance
"""
exp_freq_mat = ExpectedFrequencyMatrix(alphabet=exp_freq_table.alphabet,
@@ -443,7 +459,7 @@ def _build_exp_freq_mat(exp_freq_table):
# Build the substitution matrix
#
def _build_subs_mat(obs_freq_mat, exp_freq_mat):
- """ Build the substitution matrix """
+ """Build the substitution matrix OPRIVATE)."""
if obs_freq_mat.ab_list != exp_freq_mat.ab_list:
raise ValueError("Alphabet mismatch in passed matrices")
subs_mat = SubstitutionMatrix(obs_freq_mat)
@@ -456,14 +472,15 @@ def _build_subs_mat(obs_freq_mat, exp_freq_mat):
# Build a log-odds matrix
#
def _build_log_odds_mat(subs_mat, logbase=2, factor=10.0, round_digit=0, keep_nd=0):
- """_build_log_odds_mat(subs_mat,logbase=10,factor=10.0,round_digit=1):
- Build a log-odds matrix
- logbase=2: base of logarithm used to build (default 2)
- factor=10.: a factor by which each matrix entry is multiplied
- round_digit: roundoff place after decimal point
- keep_nd: if true, keeps the -999 value for non-determined values (for which there
- are no substitutions in the frequency substitutions matrix). If false, plants the
- minimum log-odds value of the matrix in entries containing -999
+ """Build a log-odds matrix (PRIVATE).
+
+ - logbase=2: base of logarithm used to build (default 2)
+ - factor=10.: a factor by which each matrix entry is multiplied
+ - round_digit: roundoff place after decimal point
+ - keep_nd: if true, keeps the -999 value for non-determined values (for which
+ there are no substitutions in the frequency substitutions matrix). If false,
+ plants the minimum log-odds value of the matrix in entries containing -999.
+
"""
lo_mat = LogOddsMatrix(subs_mat)
for key, value in subs_mat.items():
@@ -487,6 +504,7 @@ def _build_log_odds_mat(subs_mat, logbase=2, factor=10.0, round_digit=0, keep_nd
#
def make_log_odds_matrix(acc_rep_mat, exp_freq_table=None, logbase=2,
factor=1., round_digit=9, keep_nd=0):
+ """Make log-odds matrix."""
obs_freq_mat = _build_obs_freq_mat(acc_rep_mat)
if not exp_freq_table:
exp_freq_table = _exp_freq_table_from_obs_freq(obs_freq_mat)
@@ -497,6 +515,7 @@ def make_log_odds_matrix(acc_rep_mat, exp_freq_table=None, logbase=2,
def observed_frequency_to_substitution_matrix(obs_freq_mat):
+ """Convert observed frequency table into substitution matrix."""
exp_freq_table = _exp_freq_table_from_obs_freq(obs_freq_mat)
exp_freq_mat = _build_exp_freq_mat(exp_freq_table)
subs_mat = _build_subs_mat(obs_freq_mat, exp_freq_mat)
@@ -504,6 +523,7 @@ def observed_frequency_to_substitution_matrix(obs_freq_mat):
def read_text_matrix(data_file):
+ """Read a matrix from a text file."""
matrix = {}
tmp = data_file.read().split("\n")
table = []
@@ -541,12 +561,14 @@ def read_text_matrix(data_file):
ret_mat = SeqMat(matrix)
return ret_mat
+
diagNO = 1
diagONLY = 2
diagALL = 3
def two_mat_relative_entropy(mat_1, mat_2, logbase=2, diag=diagALL):
+ """Return relative entropy of two matrices."""
rel_ent = 0.
key_list_1 = sorted(mat_1)
key_list_2 = sorted(mat_2)
@@ -582,8 +604,8 @@ def two_mat_relative_entropy(mat_1, mat_2, logbase=2, diag=diagALL):
return rel_ent
-# Gives the linear correlation coefficient between two matrices
def two_mat_correlation(mat_1, mat_2):
+ """Return linear correlation coefficient between two matrices."""
try:
import numpy
except ImportError:
@@ -600,9 +622,8 @@ def two_mat_correlation(mat_1, mat_2):
return correlation
-# Jensen-Shannon Distance
-# Need to input observed frequency matrices
def two_mat_DJS(mat_1, mat_2, pi_1=0.5, pi_2=0.5):
+ """Return Jensen-Shannon Distance between two observed frequence matrices."""
assert mat_1.ab_list == mat_2.ab_list
assert pi_1 > 0 and pi_2 > 0 and pi_1 < 1 and pi_2 < 1
assert not (pi_1 + pi_2 - 1.0 > EPSILON)
@@ -617,6 +638,7 @@ def two_mat_DJS(mat_1, mat_2, pi_1=0.5, pi_2=0.5):
dJS = sum_mat.entropy - pi_1 * mat_1.entropy - pi_2 * mat_2.entropy
return dJS
+
"""
This isn't working yet. Boo hoo!
def two_mat_print(mat_1, mat_2, f=None, alphabet=None, factor_1=1, factor_2=1,
diff --git a/Bio/SwissProt/KeyWList.py b/Bio/SwissProt/KeyWList.py
index 4736f25..1e91c9d 100644
--- a/Bio/SwissProt/KeyWList.py
+++ b/Bio/SwissProt/KeyWList.py
@@ -6,25 +6,25 @@
"""Code to parse the keywlist.txt file from SwissProt/UniProt
See:
-http://www.expasy.ch/sprot/sprot-top.html
-ftp://ftp.expasy.org/databases/uniprot/current_release/knowledgebase/complete/docs/keywlist.txt
+ - http://www.expasy.ch/sprot/sprot-top.html
+ - ftp://ftp.expasy.org/databases/uniprot/current_release/knowledgebase/complete/docs/keywlist.txt
Classes:
-
- - Record Stores the information about one keyword or one category
- in the keywlist.txt file.
+ - Record Stores the information about one keyword or one category
+ in the keywlist.txt file.
Functions:
+ - parse Parses the keywlist.txt file and returns an iterator to
+ the records it contains.
- - parse Parses the keywlist.txt file and returns an iterator to
- the records it contains.
"""
from __future__ import print_function
class Record(dict):
- """
+ """Store information of one keyword or category from the keywords list.
+
This record stores the information of one keyword or category in the
keywlist.txt as a Python dictionary. The keys in this dictionary are
the line codes that can appear in the keywlist.txt file::
@@ -42,7 +42,9 @@ class Record(dict):
WW Relevant WWW site Optional; once or more
CA Category Once per keyword entry; absent
in category entries
+
"""
+
def __init__(self):
dict.__init__(self)
for keyword in ("DE", "SY", "GO", "HI", "WW"):
diff --git a/Bio/SwissProt/__init__.py b/Bio/SwissProt/__init__.py
index 93cffbd..f5e455a 100644
--- a/Bio/SwissProt/__init__.py
+++ b/Bio/SwissProt/__init__.py
@@ -11,14 +11,12 @@ Release 56.9, 03-March-2009.
Classes:
-
- - Record Holds SwissProt data.
- - Reference Holds reference data from a SwissProt record.
+ - Record Holds SwissProt data.
+ - Reference Holds reference data from a SwissProt record.
Functions:
-
- - read Read one SwissProt record
- - parse Read multiple SwissProt records
+ - read Read one SwissProt record
+ - parse Read multiple SwissProt records
"""
@@ -30,39 +28,56 @@ from Bio._py3k import _as_string
class Record(object):
"""Holds information from a SwissProt record.
- Members:
-
- - entry_name Name of this entry, e.g. RL1_ECOLI.
- - data_class Either 'STANDARD' or 'PRELIMINARY'.
- - molecule_type Type of molecule, 'PRT',
- - sequence_length Number of residues.
-
- - accessions List of the accession numbers, e.g. ['P00321']
- - created A tuple of (date, release).
- - sequence_update A tuple of (date, release).
- - annotation_update A tuple of (date, release).
-
- - description Free-format description.
- - gene_name Gene name. See userman.txt for description.
- - organism The source of the sequence.
- - organelle The origin of the sequence.
- - organism_classification The taxonomy classification. List of strings.
- (http://www.ncbi.nlm.nih.gov/Taxonomy/)
- - taxonomy_id A list of NCBI taxonomy id's.
- - host_organism A list of names of the hosts of a virus, if any.
- - host_taxonomy_id A list of NCBI taxonomy id's of the hosts, if any.
- - references List of Reference objects.
- - comments List of strings.
- - cross_references List of tuples (db, id1[, id2][, id3]). See the docs.
- - keywords List of the keywords.
- - features List of tuples (key name, from, to, description).
- from and to can be either integers for the residue
- numbers, '<', '>', or '?'
-
- - seqinfo tuple of (length, molecular weight, CRC32 value)
- - sequence The sequence.
+ Attributes:
+ - entry_name Name of this entry, e.g. RL1_ECOLI.
+ - data_class Either 'STANDARD' or 'PRELIMINARY'.
+ - molecule_type Type of molecule, 'PRT',
+ - sequence_length Number of residues.
+ - accessions List of the accession numbers, e.g. ['P00321']
+ - created A tuple of (date, release).
+ - sequence_update A tuple of (date, release).
+ - annotation_update A tuple of (date, release).
+ - description Free-format description.
+ - gene_name Gene name. See userman.txt for description.
+ - organism The source of the sequence.
+ - organelle The origin of the sequence.
+ - organism_classification The taxonomy classification. List of strings.
+ (http://www.ncbi.nlm.nih.gov/Taxonomy/)
+ - taxonomy_id A list of NCBI taxonomy id's.
+ - host_organism A list of names of the hosts of a virus, if any.
+ - host_taxonomy_id A list of NCBI taxonomy id's of the hosts, if any.
+ - references List of Reference objects.
+ - comments List of strings.
+ - cross_references List of tuples (db, id1[, id2][, id3]). See the docs.
+ - keywords List of the keywords.
+ - features List of tuples (key name, from, to, description).
+ from and to can be either integers for the residue
+ numbers, '<', '>', or '?'
+ - protein_existence Numerical value describing the evidence for the existence of the protein.
+ - seqinfo tuple of (length, molecular weight, CRC32 value)
+ - sequence The sequence.
+
+ Example:
+
+ >>> import Bio.SwissProt as sp
+ >>> example_filename = "SwissProt/sp008"
+ >>> with open(example_filename) as handle:
+ ... records = sp.parse(handle)
+ ... for record in records:
+ ... print(record.entry_name)
+ ... print(",".join(record.accessions))
+ ... print(record.keywords)
+ ... print(repr(record.organism))
+ ... print(record.sequence[:20] + "...")
+ ...
+ 1A02_HUMAN
+ P01892,P06338,P30514,P30444,P30445,P30446,Q29680,Q29899,Q95352,Q29837,Q95380
+ ['MHC I', 'Transmembrane', 'Glycoprotein', 'Signal', 'Polymorphism', '3D-structure']
+ 'Homo sapiens (Human).'
+ MAVMAPRTLVLLLSGALALT...
"""
+
def __init__(self):
self.entry_name = None
self.data_class = None
@@ -87,6 +102,7 @@ class Record(object):
self.cross_references = []
self.keywords = []
self.features = []
+ self.protein_existence = ''
self.seqinfo = None
self.sequence = ''
@@ -95,17 +111,18 @@ class Record(object):
class Reference(object):
"""Holds information from one reference in a SwissProt entry.
- Members:
- number Number of reference in an entry.
- evidence Evidence code. List of strings.
- positions Describes extent of work. List of strings.
- comments Comments. List of (token, text).
- references References. List of (dbname, identifier).
- authors The authors of the work.
- title Title of the work.
- location A citation for the work.
+ Attribues:
+ - number Number of reference in an entry.
+ - evidence Evidence code. List of strings.
+ - positions Describes extent of work. List of strings.
+ - comments Comments. List of (token, text).
+ - references References. List of (dbname, identifier).
+ - authors The authors of the work.
+ - title Title of the work.
+ - location A citation for the work.
"""
+
def __init__(self):
self.number = None
self.positions = []
@@ -225,8 +242,7 @@ def _read(handle):
elif key == 'DR':
_read_dr(record, value)
elif key == 'PE':
- # TODO - Record this information?
- pass
+ _read_pe(record, value)
elif key == 'KW':
_read_kw(record, value)
elif key == 'FT':
@@ -363,7 +379,10 @@ def _read_dt(record, line):
# Get the version number if there is one.
# For the three DT lines above: 0, 3, 14
try:
- version = int(cols[-1])
+ version = 0
+ for s in cols[-1].split('.'):
+ if s.isdigit():
+ version = int(s)
except ValueError:
version = 0
date = cols[0].rstrip(",")
@@ -515,6 +534,11 @@ def _read_dr(record, value):
record.cross_references.append(tuple(cols))
+def _read_pe(record, value):
+ pe = value.split(":")
+ record.protein_existence = int(pe[0])
+
+
def _read_kw(record, value):
# Old style - semi-colon separated, multi-line. e.g. Q13639.txt
# KW Alternative splicing; Cell membrane; Complete proteome;
@@ -583,21 +607,5 @@ def _read_ft(record, line):
if __name__ == "__main__":
- print("Quick self test...")
-
- example_filename = "../../Tests/SwissProt/sp008"
-
- import os
- if not os.path.isfile(example_filename):
- print("Missing test file %s" % example_filename)
- else:
- # Try parsing it!
-
- with open(example_filename) as handle:
- records = parse(handle)
- for record in records:
- print(record.entry_name)
- print(",".join(record.accessions))
- print(record.keywords)
- print(repr(record.organism))
- print(record.sequence[:20] + "...")
+ from Bio._utils import run_doctest
+ run_doctest(verbose=0)
diff --git a/Bio/TogoWS/__init__.py b/Bio/TogoWS/__init__.py
index 3c393f1..ad8b7f9 100644
--- a/Bio/TogoWS/__init__.py
+++ b/Bio/TogoWS/__init__.py
@@ -52,7 +52,7 @@ _convert_formats = []
def _get_fields(url):
- """Queries a TogoWS URL for a plain text list of values (PRIVATE)."""
+ """Query a TogoWS URL for a plain text list of values (PRIVATE)."""
handle = _open(url)
fields = handle.read().strip().split()
handle.close()
@@ -77,15 +77,16 @@ def _get_convert_formats():
def entry(db, id, format=None, field=None):
- """TogoWS fetch entry (returns a handle).
+ """Call TogoWS 'entry' to fetch a record.
- - db - database (string), see list below.
- - id - identier (string) or a list of identifiers (either as a list of
- strings or a single string with comma separators).
- - format - return data file format (string), options depend on the database
- e.g. "xml", "json", "gff", "fasta", "ttl" (RDF Turtle)
- - field - specific field from within the database record (string)
- e.g. "au" or "authors" for pubmed.
+ Arguments:
+ - db - database (string), see list below.
+ - id - identier (string) or a list of identifiers (either as a list of
+ strings or a single string with comma separators).
+ - format - return data file format (string), options depend on the database
+ e.g. "xml", "json", "gff", "fasta", "ttl" (RDF Turtle)
+ - field - specific field from within the database record (string)
+ e.g. "au" or "authors" for pubmed.
At the time of writing, this includes the following::
@@ -145,10 +146,11 @@ def entry(db, id, format=None, field=None):
def search_count(db, query):
- """TogoWS search count (returns an integer).
+ """Call TogoWS search count to see how many matches a search gives.
- db - database (string), see http://togows.dbcls.jp/search
- query - search term (string)
+ Arguments:
+ - db - database (string), see http://togows.dbcls.jp/search
+ - query - search term (string)
You could then use the count to download a large set of search results in
batches using the offset and limit options to Bio.TogoWS.search(). In
@@ -167,6 +169,8 @@ def search_count(db, query):
handle = _open(url)
data = handle.read()
handle.close()
+ if not data:
+ raise ValueError("TogoWS returned no data from URL %s" % url)
try:
count = int(data.strip())
except ValueError:
@@ -175,13 +179,14 @@ def search_count(db, query):
def search_iter(db, query, limit=None, batch=100):
- """TogoWS search iteratating over the results (generator function).
+ """Call TogoWS search iteratating over the results (generator function).
- - db - database (string), see http://togows.dbcls.jp/search
- - query - search term (string)
- - limit - optional upper bound on number of search results
- - batch - number of search results to pull back each time talk to
- TogoWS (currently limited to 100).
+ Arguments:
+ - db - database (string), see http://togows.dbcls.jp/search
+ - query - search term (string)
+ - limit - optional upper bound on number of search results
+ - batch - number of search results to pull back each time talk to
+ TogoWS (currently limited to 100).
You would use this function within a for loop, e.g.
@@ -220,18 +225,19 @@ def search_iter(db, query, limit=None, batch=100):
def search(db, query, offset=None, limit=None, format=None):
- """TogoWS search (returns a handle).
+ """Call TogoWS search.
This is a low level wrapper for the TogoWS search function, which
can return results in a several formats. In general, the search_iter
function is more suitable for end users.
- - db - database (string), see http://togows.dbcls.jp/search/
- - query - search term (string)
- - offset, limit - optional integers specifying which result to start from
- (1 based) and the number of results to return.
- - format - return data file format (string), e.g. "json", "ttl" (RDF)
- By default plain text is returned, one result per line.
+ Arguments:
+ - db - database (string), see http://togows.dbcls.jp/search/
+ - query - search term (string)
+ - offset, limit - optional integers specifying which result to start from
+ (1 based) and the number of results to return.
+ - format - return data file format (string), e.g. "json", "ttl" (RDF)
+ By default plain text is returned, one result per line.
At the time of writing, TogoWS applies a default count limit of 100
search results, and this is an upper bound. To access more results,
@@ -263,11 +269,11 @@ def search(db, query, offset=None, limit=None, format=None):
if offset is not None and limit is not None:
try:
offset = int(offset)
- except:
+ except ValueError:
raise ValueError("Offset should be an integer (at least one), not %r" % offset)
try:
limit = int(limit)
- except:
+ except ValueError:
raise ValueError("Limit should be an integer (at least one), not %r" % limit)
if offset <= 0:
raise ValueError("Offset should be at least one, not %i" % offset)
@@ -283,11 +289,12 @@ def search(db, query, offset=None, limit=None, format=None):
def convert(data, in_format, out_format):
- """TogoWS convert (returns a handle).
+ """Call TogoWS for file format convertion.
- data - string or handle containing input record(s)
- in_format - string describing the input file format (e.g. "genbank")
- out_format - string describing the requested output format (e.g. "fasta")
+ Arguments:
+ - data - string or handle containing input record(s)
+ - in_format - string describing the input file format (e.g. "genbank")
+ - out_format - string describing the requested output format (e.g. "fasta")
For a list of supported conversions (e.g. "genbank" to "fasta"), see
http://togows.dbcls.jp/convert/
@@ -312,7 +319,7 @@ def convert(data, in_format, out_format):
def _open(url, post=None):
- """Helper function to build the URL and open a handle to it (PRIVATE).
+ """Build the URL and open a handle to it (PRIVATE).
Open a handle to TogoWS, will raise an IOError if it encounters an error.
@@ -339,4 +346,5 @@ def _open(url, post=None):
# examine the start of the data returned back.
return _binary_to_string_handle(handle)
+
_open.previous = 0
diff --git a/Bio/UniGene/__init__.py b/Bio/UniGene/__init__.py
index d881bac..e16787c 100644
--- a/Bio/UniGene/__init__.py
+++ b/Bio/UniGene/__init__.py
@@ -76,6 +76,7 @@ Here is an overview of the flat file format that this parser deals with:
Possible values are mRNA, EST and HTC.
TRACE= The Trace ID of the EST sequence, as provided by
NCBI Trace Archive
+
"""
@@ -85,25 +86,25 @@ class SequenceLine(object):
Initialize with the text part of the SEQUENCE line, or nothing.
Attributes and descriptions (access as LOWER CASE):
+ - ACC= GenBank/EMBL/DDBJ accession number of sequence
+ - NID= Unique nucleotide sequence identifier (gi)
+ - PID= Unique protein sequence identifier (used for non-ESTs)
+ - CLONE= Clone identifier (used for ESTs only)
+ - END= End (5'/3') of clone insert read (used for ESTs only)
+ - LID= Library ID; see Hs.lib.info for library name and tissue
+ - MGC= 5' CDS-completeness indicator; if present,
+ the clone associated with this sequence
+ is believed CDS-complete. A value greater than 511
+ is the gi of the CDS-complete mRNA matched by the EST,
+ otherwise the value is an indicator of the reliability
+ of the test indicating CDS completeness;
+ higher values indicate more reliable CDS-completeness
+ predictions.
+ - SEQTYPE= Description of the nucleotide sequence. Possible values
+ are mRNA, EST and HTC.
+ - TRACE= The Trace ID of the EST sequence, as provided by NCBI
+ Trace Archive
- - ACC= GenBank/EMBL/DDBJ accession number of sequence
- - NID= Unique nucleotide sequence identifier (gi)
- - PID= Unique protein sequence identifier (used for non-ESTs)
- - CLONE= Clone identifier (used for ESTs only)
- - END= End (5'/3') of clone insert read (used for ESTs only)
- - LID= Library ID; see Hs.lib.info for library name and tissue
- - MGC= 5' CDS-completeness indicator; if present,
- the clone associated with this sequence
- is believed CDS-complete. A value greater than 511
- is the gi of the CDS-complete mRNA matched by the EST,
- otherwise the value is an indicator of the reliability
- of the test indicating CDS completeness;
- higher values indicate more reliable CDS-completeness
- predictions.
- - SEQTYPE= Description of the nucleotide sequence. Possible values
- are mRNA, EST and HTC.
- - TRACE= The Trace ID of the EST sequence, as provided by NCBI
- Trace Archive
"""
def __init__(self, text=None):
@@ -224,6 +225,7 @@ class Record(object):
self.sts = [] # STS entries, array of STS entries
# Type STSLine
self.txmap = [] # TXMAP entries, array of TXMap entries
+
"""
def __init__(self):
diff --git a/Bio/UniProt/GOA.py b/Bio/UniProt/GOA.py
index fbbd010..4ec2578 100644
--- a/Bio/UniProt/GOA.py
+++ b/Bio/UniProt/GOA.py
@@ -18,109 +18,108 @@ gp_information (GPI format) README:
ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/gp_information_readme
"""
+from __future__ import print_function
+
import copy
-import sys
from Bio._py3k import zip
-
# GAF: GO Annotation Format
#
# GAF version 2.0
GAF20FIELDS = ['DB',
- 'DB_Object_ID',
- 'DB_Object_Symbol',
- 'Qualifier',
- 'GO_ID',
- 'DB:Reference',
- 'Evidence',
- 'With',
- 'Aspect',
- 'DB_Object_Name',
- 'Synonym',
- 'DB_Object_Type',
- 'Taxon_ID',
- 'Date',
- 'Assigned_By',
- 'Annotation_Extension',
- 'Gene_Product_Form_ID']
+ 'DB_Object_ID',
+ 'DB_Object_Symbol',
+ 'Qualifier',
+ 'GO_ID',
+ 'DB:Reference',
+ 'Evidence',
+ 'With',
+ 'Aspect',
+ 'DB_Object_Name',
+ 'Synonym',
+ 'DB_Object_Type',
+ 'Taxon_ID',
+ 'Date',
+ 'Assigned_By',
+ 'Annotation_Extension',
+ 'Gene_Product_Form_ID']
# GAF version 1.0
GAF10FIELDS = ['DB',
- 'DB_Object_ID',
- 'DB_Object_Symbol',
- 'Qualifier',
- 'GO_ID',
- 'DB:Reference',
- 'Evidence',
- 'With',
- 'Aspect',
- 'DB_Object_Name',
- 'Synonym',
- 'DB_Object_Type',
- 'Taxon_ID',
- 'Date',
- 'Assigned_By']
-
+ 'DB_Object_ID',
+ 'DB_Object_Symbol',
+ 'Qualifier',
+ 'GO_ID',
+ 'DB:Reference',
+ 'Evidence',
+ 'With',
+ 'Aspect',
+ 'DB_Object_Name',
+ 'Synonym',
+ 'DB_Object_Type',
+ 'Taxon_ID',
+ 'Date',
+ 'Assigned_By']
# GPA version 1.0
GPA10FIELDS = [
- 'DB',
- 'DB_Object_ID',
- 'Qualifier',
- 'GO_ID',
- 'DB:Reference',
- 'Evidence code',
- 'With',
- 'Interacting_taxon_ID',
- 'Date',
- 'Assigned_by',
- 'Annotation_Extension',
- 'Spliceform_ID']
+ 'DB',
+ 'DB_Object_ID',
+ 'Qualifier',
+ 'GO_ID',
+ 'DB:Reference',
+ 'Evidence code',
+ 'With',
+ 'Interacting_taxon_ID',
+ 'Date',
+ 'Assigned_by',
+ 'Annotation_Extension',
+ 'Spliceform_ID']
# GPA version 1.1
GPA11FIELDS = [
- 'DB',
- 'DB_Object_ID',
- 'Qualifier',
- 'GO_ID',
- 'DB:Reference',
- 'ECO_Evidence_code',
- 'With',
- 'Interacting_taxon_ID',
- 'Date',
- 'Assigned_by',
- 'Annotation Extension',
- 'Annotation_Properties']
+ 'DB',
+ 'DB_Object_ID',
+ 'Qualifier',
+ 'GO_ID',
+ 'DB:Reference',
+ 'ECO_Evidence_code',
+ 'With',
+ 'Interacting_taxon_ID',
+ 'Date',
+ 'Assigned_by',
+ 'Annotation Extension',
+ 'Annotation_Properties']
# GPI version 1.0
GPI10FIELDS = [
- 'DB',
- 'DB_subset',
- 'DB_Object_ID',
- 'DB_Object_Symbol',
- 'DB_Object_Name',
- 'DB_Object_Synonym',
- 'DB_Object_Type',
- 'Taxon',
- 'Annotation_Target_Set',
- 'Annotation_Completed',
- 'Parent_Object_ID']
+ 'DB',
+ 'DB_subset',
+ 'DB_Object_ID',
+ 'DB_Object_Symbol',
+ 'DB_Object_Name',
+ 'DB_Object_Synonym',
+ 'DB_Object_Type',
+ 'Taxon',
+ 'Annotation_Target_Set',
+ 'Annotation_Completed',
+ 'Parent_Object_ID']
# GPI version 1.1
GPI11FIELDS = [
- 'DB_Object_ID',
- 'DB_Object_Symbol',
- 'DB_Object_Name',
- 'DB_Object_Synonym',
- 'DB_Object_Type',
- 'Taxon',
- 'Parent_Object_ID',
- 'DB_Xref',
- 'Gene_Product_Properties',
- 'Annotation_Target_Set',
- 'GO_Annotation_Complete']
+ 'DB_Object_ID',
+ 'DB_Object_Symbol',
+ 'DB_Object_Name',
+ 'DB_Object_Synonym',
+ 'DB_Object_Type',
+ 'Taxon',
+ 'Parent_Object_ID',
+ 'DB_Xref',
+ 'Gene_Product_Properties',
+ 'Annotation_Target_Set',
+ 'GO_Annotation_Complete']
def _gpi10iterator(handle):
@@ -169,14 +168,15 @@ def gpi_iterator(handle):
"""
inline = handle.readline()
if inline.strip() == '!gpi-version: 1.1':
- sys.stderr.write("gpi 1.1\n")
+ # sys.stderr.write("gpi 1.1\n")
return _gpi11iterator(handle)
elif inline.strip() == '!gpi-version: 1.0':
- sys.stderr.write("gpi 1.0\n")
+ # sys.stderr.write("gpi 1.0\n")
return _gpi10iterator(handle)
elif inline.strip() == '!gpi-version: 2.1':
- sys.stderr.write("gpi 2.1\n")
- return _gpi20iterator(handle)
+ # sys.stderr.write("gpi 2.1\n")
+ # return _gpi20iterator(handle)
+ raise NotImplementedError("Sorry, parsing GPI version 2 not implemented yet.")
else:
raise ValueError('Unknown GPI version {0}\n'.format(inline))
@@ -188,7 +188,6 @@ def _gpa10iterator(handle):
file which is in the GPA 1.0 format. Do not call directly. Rather,
use the gpaiterator function.
"""
-
for inline in handle:
if inline[0] == '!':
continue
@@ -231,10 +230,10 @@ def gpa_iterator(handle):
"""
inline = handle.readline()
if inline.strip() == '!gpa-version: 1.1':
- sys.stderr.write("gpa 1.1\n")
+ # sys.stderr.write("gpa 1.1\n")
return _gpa11iterator(handle)
elif inline.strip() == '!gpa-version: 1.0':
- sys.stderr.write("gpa 1.0\n")
+ # sys.stderr.write("gpa 1.0\n")
return _gpa10iterator(handle)
else:
raise ValueError('Unknown GPA version {0}\n'.format(inline))
@@ -332,36 +331,66 @@ def gafbyproteiniterator(handle):
"""
inline = handle.readline()
if inline.strip() == '!gaf-version: 2.0':
- sys.stderr.write("gaf 2.0\n")
+ # sys.stderr.write("gaf 2.0\n")
return _gaf20byproteiniterator(handle)
elif inline.strip() == '!gaf-version: 1.0':
- sys.stderr.write("gaf 1.0\n")
+ # sys.stderr.write("gaf 1.0\n")
return _gaf10byproteiniterator(handle)
elif inline.strip() == '!gaf-version: 2.1':
# Handle GAF 2.1 as GAF 2.0 for now TODO: fix
- sys.stderr.write("gaf 2.1\n")
+ # sys.stderr.write("gaf 2.1\n")
return _gaf20byproteiniterator(handle)
else:
raise ValueError('Unknown GAF version {0}\n'.format(inline))
def gafiterator(handle):
- """Iterate pver a GAF 1.0 or 2.0 file.
+ """Iterate over a GAF 1.0 or 2.0 file.
This function should be called to read a
gene_association.goa_uniprot file. Reads the first record and
returns a gaf 2.0 or a gaf 1.0 iterator as needed
+
+ Example: open, read, interat and filter results.
+
+ Original data file has been trimed to ~600 rows.
+
+ Original source ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/YEAST/goa_yeast.gaf.gz
+
+ >>> from Bio.UniProt.GOA import gafiterator, record_has
+ >>> Evidence = {'Evidence': set(['ND'])}
+ >>> Synonym = {'Synonym': set(['YA19A_YEAST', 'YAL019W-A'])}
+ >>> Taxon_ID = {'Taxon_ID': set(['taxon:559292'])}
+ >>> with open('UniProt/goa_yeast.gaf', 'r') as handle:
+ ... for rec in gafiterator(handle):
+ ... if record_has(rec, Taxon_ID) and record_has(rec, Evidence) and record_has(rec, Synonym):
+ ... for key in ('DB_Object_Name', 'Evidence', 'Synonym', 'Taxon_ID'):
+ ... print(rec[key])
+ ...
+ Putative uncharacterized protein YAL019W-A
+ ND
+ ['YA19A_YEAST', 'YAL019W-A']
+ ['taxon:559292']
+ Putative uncharacterized protein YAL019W-A
+ ND
+ ['YA19A_YEAST', 'YAL019W-A']
+ ['taxon:559292']
+ Putative uncharacterized protein YAL019W-A
+ ND
+ ['YA19A_YEAST', 'YAL019W-A']
+ ['taxon:559292']
+
"""
inline = handle.readline()
if inline.strip() == '!gaf-version: 2.0':
- sys.stderr.write("gaf 2.0\n")
+ # sys.stderr.write("gaf 2.0\n")
return _gaf20iterator(handle)
elif inline.strip() == '!gaf-version: 2.1':
- sys.stderr.write("gaf 2.1\n")
+ # sys.stderr.write("gaf 2.1\n")
# Handle GAF 2.1 as GAF 2.0 for now. TODO: fix
return _gaf20iterator(handle)
elif inline.strip() == '!gaf-version: 1.0':
- sys.stderr.write("gaf 1.0\n")
+ # sys.stderr.write("gaf 1.0\n")
return _gaf10iterator(handle)
else:
raise ValueError('Unknown GAF version {0}\n'.format(inline))
@@ -408,7 +437,7 @@ def record_has(inrec, fieldvals):
retval = False
for field in fieldvals:
if isinstance(inrec[field], str):
- set1 = set([inrec[field]])
+ set1 = {inrec[field]}
else:
set1 = set(inrec[field])
if (set1 & fieldvals[field]):
@@ -417,15 +446,6 @@ def record_has(inrec, fieldvals):
return retval
-if __name__ == '__main__':
- """Example: read and filter a GAF file.
-
- Write only S. cerevisiae records, but remove all
- records with IEA evidence
- """
- banned = {'Evidence': set(['IEA', 'EXP'])}
- allowed = {'Taxon_ID': set(['taxon:4932'])}
- for inrec in gafiterator(open(sys.argv[1])):
- if record_has(inrec, allowed) and \
- not record_has(inrec, banned):
- writerec(inrec, sys.stdout, GAF10FIELDS)
+if __name__ == "__main__":
+ from Bio._utils import run_doctest
+ run_doctest(verbose=0)
diff --git a/Bio/Wise/__init__.py b/Bio/Wise/__init__.py
index bed9637..75130dd 100755
--- a/Bio/Wise/__init__.py
+++ b/Bio/Wise/__init__.py
@@ -3,7 +3,8 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
#
-"""
+"""Run and process output from the Wise2 package tools.
+
Bio.Wise contains modules for running and processing the output of
some of the models in the Wise2 package by Ewan Birney available from:
ftp://ftp.ebi.ac.uk/pub/software/unix/wise2/
@@ -67,9 +68,7 @@ def _build_align_cmdline(cmdline, pair, output_filename, kbyte=None, force_type=
def align(cmdline, pair, kbyte=None, force_type=None, dry_run=False, quiet=False, debug=False):
- """
- Returns a filehandle
- """
+ """Run an alignment. Returns a filehandle."""
if not pair or len(pair) != 2:
raise ValueError("Expected pair of filename, not %s" % repr(pair))
@@ -118,8 +117,7 @@ def align(cmdline, pair, kbyte=None, force_type=None, dry_run=False, quiet=False
def all_pairs(singles):
- """
- Generate pairs list for all-against-all alignments
+ """Generate pairs list for all-against-all alignments.
>>> all_pairs(range(4))
[(0, 1), (0, 2), (0, 3), (1, 2), (1, 3), (2, 3)]
@@ -142,6 +140,7 @@ def _test(*args, **keywds):
import doctest
doctest.testmod(sys.modules[__name__], *args, **keywds)
+
if __name__ == "__main__":
if __debug__:
_test()
diff --git a/Bio/Wise/dnal.py b/Bio/Wise/dnal.py
index e34f831..4dbff91 100755
--- a/Bio/Wise/dnal.py
+++ b/Bio/Wise/dnal.py
@@ -3,7 +3,8 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
#
-"""
+"""Run and process output from the Wise2 package tool dnal.
+
Bio.Wise contains modules for running and processing the output of
some of the models in the Wise2 package by Ewan Birney available from:
ftp://ftp.ebi.ac.uk/pub/software/unix/wise2/
@@ -42,12 +43,14 @@ def _build_dnal_cmdline(match, mismatch, gap, extension):
return res
+
_CMDLINE_FGREP_COUNT = "fgrep -c '%s' %s"
def _fgrep_count(pattern, file):
return int(_getoutput(_CMDLINE_FGREP_COUNT % (pattern, file)))
+
_re_alb_line2coords = re.compile(r"^\[([^:]+):[^\[]+\[([^:]+):")
@@ -58,7 +61,7 @@ def _alb_line2coords(line):
def _get_coords(filename):
- alb = file(filename)
+ alb = open(filename)
start_line = None
end_line = None
@@ -77,9 +80,8 @@ def _get_coords(filename):
class Statistics(object):
- """
- Calculate statistics from an ALB report
- """
+ """Calculate statistics from an ALB report."""
+
def __init__(self, filename, match, mismatch, gap, extension):
self.matches = _fgrep_count('"SEQUENCE" %s' % match, filename)
self.mismatches = _fgrep_count('"SEQUENCE" %s' % mismatch, filename)
@@ -138,6 +140,7 @@ def _test(*args, **keywds):
import sys
doctest.testmod(sys.modules[__name__], *args, **keywds)
+
if __name__ == "__main__":
if __debug__:
_test()
diff --git a/Bio/Wise/psw.py b/Bio/Wise/psw.py
index c2d6612..e2d7232 100755
--- a/Bio/Wise/psw.py
+++ b/Bio/Wise/psw.py
@@ -3,7 +3,8 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
#
-"""
+"""Run and process output from the Wise2 package tool psw.
+
Bio.Wise contains modules for running and processing the output of
some of the models in the Wise2 package by Ewan Birney available from:
ftp://ftp.ebi.ac.uk/pub/software/unix/wise2/
@@ -76,11 +77,13 @@ class ColumnUnit(object):
__repr__ = __str__
+
_re_unit = re.compile(r"^Unit +([01])- \[ *(-?\d+)- *(-?\d+)\] \[(\w+)\]$")
def parse_line(line):
- """
+ """Parse a line from psw.
+
>>> print(parse_line("Column 0:"))
None
>>> parse_line("Unit 0- [ -1- 0] [SEQUENCE]")
@@ -97,7 +100,8 @@ def parse_line(line):
def parse(iterable):
- """
+ """Parse a file.
+
format
Column 0:
@@ -106,7 +110,6 @@ def parse(iterable):
means that seq1[0] == seq2[86] (0-based)
"""
-
alignment = Alignment()
for line in iterable:
try:
@@ -147,6 +150,7 @@ def _test(*args, **keywds):
import doctest
doctest.testmod(sys.modules[__name__], *args, **keywds)
+
if __name__ == "__main__":
if __debug__:
_test()
diff --git a/Bio/__init__.py b/Bio/__init__.py
index 0fba064..691276a 100644
--- a/Bio/__init__.py
+++ b/Bio/__init__.py
@@ -10,7 +10,7 @@ of freely available Python tools for computational molecular biology.
http://biopython.org
"""
-__version__ = "1.68"
+__version__ = "1.70"
class MissingExternalDependencyError(Exception):
@@ -19,6 +19,7 @@ class MissingExternalDependencyError(Exception):
Used for things like missing command line tools. Important for our unit
tests to allow skipping tests with missing external dependencies.
"""
+
pass
@@ -30,6 +31,7 @@ class MissingPythonDependencyError(MissingExternalDependencyError, ImportError):
python dependencies, while also allowing the exception to be caught as an
ImportError.
"""
+
pass
@@ -45,6 +47,7 @@ class BiopythonWarning(Warning):
Consult the warnings module documentation for more details.
"""
+
pass
@@ -61,6 +64,7 @@ class BiopythonParserWarning(BiopythonWarning):
Consult the warnings module documentation for more details.
"""
+
pass
@@ -80,6 +84,7 @@ class BiopythonDeprecationWarning(BiopythonWarning):
of Biopython. To avoid removal of this code, please contact the Biopython
developers by sending an email to biopython-dev at biopython.org.
"""
+
pass
@@ -94,12 +99,13 @@ class BiopythonExperimentalWarning(BiopythonWarning):
a subsequent release of Biopython. Such code should NOT be used for
production/stable code. It should only be used if:
- - You are running the latest release of Biopython, or ideally the
- latest code from our repository.
- - You are subscribed to the biopython-dev mailing list to provide
- feedback on this code, and to be alerted of changes to it.
+ - You are running the latest release of Biopython, or ideally the
+ latest code from our repository.
+ - You are subscribed to the biopython-dev mailing list to provide
+ feedback on this code, and to be alerted of changes to it.
If all goes well, experimental code would be promoted to stable in
a subsequent release, and this warning removed from it.
"""
+
pass
diff --git a/Bio/_py3k/__init__.py b/Bio/_py3k/__init__.py
index 4d7f4a4..862ba39 100644
--- a/Bio/_py3k/__init__.py
+++ b/Bio/_py3k/__init__.py
@@ -37,6 +37,11 @@ Instead, we can do this under either Python 2 or 3:
Once we drop support for Python 2, the whole of Bio._py3k will
go away.
"""
+
+# From the point of view of pep8 and flake8, there are lots of issues with
+# this file. This line tells flake8 to ignore it for quality assurance:
+# flake8: noqa
+
import sys
@@ -90,82 +95,25 @@ if sys.version_info[0] >= 3:
import io
- if sys.version_info[:2] <= (3, 3):
- def _binary_to_string_handle(handle):
- """Treat a binary (bytes) handle like a text (unicode) handle."""
- # TODO, once drop all of Python 3.0 - 3.3, remove this!
- #
- # See also http://bugs.python.org/issue5628
- # and http://bugs.python.org/issue13541
- # and http://bugs.python.org/issue13464 which should be fixed in Python 3.3
- #
- # However, still have problems under Python 3.3.0, e.g.
- #
- # $ python3.3 test_SeqIO_online.py
- # test_nuccore_X52960 (__main__.EntrezTests)
- # Bio.Entrez.efetch('nuccore', id='X52960', ...) ... ERROR
- # test_nucleotide_6273291 (__main__.EntrezTests)
- # Bio.Entrez.efetch('nucleotide', id='6273291', ...) ... ERROR
- # test_protein_16130152 (__main__.EntrezTests)
- # Bio.Entrez.efetch('protein', id='16130152', ...) ... ERROR
- # test_get_sprot_raw (__main__.ExPASyTests)
- # Bio.ExPASy.get_sprot_raw("O23729") ... ok
- # ..
- # ValueError: I/O operation on closed file.
- #
- class EvilHandleHack(object):
- """Biopython internal class to work around bugs in early versions of Python 3."""
- def __init__(self, handle):
- self._handle = handle
- try:
- # If wrapping an online handle, this this is nice to have:
- self.url = handle.url
- except AttributeError:
- pass
-
- def read(self, length=None):
- return _as_string(self._handle.read(length))
-
- def readline(self):
- return _as_string(self._handle.readline())
-
- def __iter__(self):
- for line in self._handle:
- yield _as_string(line)
-
- def close(self):
- return self._handle.close()
-
- def seek(self, pos):
- return self._handle.seek(pos)
-
- def tell(self):
- return self._handle.tell()
-
- return EvilHandleHack(handle)
- else:
- # Python 3.4 onwards, the standard library wrappers should work:
- def _binary_to_string_handle(handle):
- """Treat a binary (bytes) handle like a text (unicode) handle."""
- wrapped = io.TextIOWrapper(io.BufferedReader(handle))
- try:
- # If wrapping an online handle, this this is nice to have:
- wrapped.url = handle.url
- except AttributeError:
- pass
- return wrapped
+ # Python 3.4 onwards, the standard library wrappers should work:
+ def _binary_to_string_handle(handle):
+ """Treat a binary (bytes) handle like a text (unicode) handle."""
+ wrapped = io.TextIOWrapper(io.BufferedReader(handle))
+ try:
+ # If wrapping an online handle, this is nice to have:
+ wrapped.url = handle.url
+ except AttributeError:
+ pass
+ return wrapped
# This is to avoid the deprecation warning from open(filename, "rU")
_universal_read_mode = "r" # text mode does universal new lines
- # On Python 3, can depend on OrderedDict being present:
- from collections import OrderedDict
-
# On Python 3, this will be a unicode StringIO
from io import StringIO
# On Python 3 urllib, urllib2, and urlparse were merged:
- from urllib.request import urlopen, Request, urlretrieve, urlparse
+ from urllib.request import urlopen, Request, urlretrieve, urlparse, urlcleanup
from urllib.parse import urlencode, quote
from urllib.error import HTTPError
@@ -212,17 +160,6 @@ else:
# mode which include universal readlines mode
_universal_read_mode = "rU"
- try:
- # Present on Python 2.7
- from collections import OrderedDict
- except ImportError:
- try:
- # Raymond Hettinger's backport available on PyPI
- from ordereddict import OrderedDict
- except ImportError:
- # Use our bundled copy instead
- from ._ordereddict import OrderedDict
-
# On Python 2 this will be a (bytes) string based handle.
# Note this doesn't work as it is unicode based:
# from io import StringIO
@@ -233,7 +170,7 @@ else:
# Under urllib.request on Python 3:
from urllib2 import urlopen, Request
- from urllib import urlretrieve
+ from urllib import urlretrieve, urlcleanup
from urlparse import urlparse
# Under urllib.parse on Python 3:
diff --git a/Bio/_py3k/_ordereddict.py b/Bio/_py3k/_ordereddict.py
deleted file mode 100644
index f5e02f6..0000000
--- a/Bio/_py3k/_ordereddict.py
+++ /dev/null
@@ -1,129 +0,0 @@
-# Copyright (c) 2009 Raymond Hettinger
-#
-# Permission is hereby granted, free of charge, to any person
-# obtaining a copy of this software and associated documentation files
-# (the "Software"), to deal in the Software without restriction,
-# including without limitation the rights to use, copy, modify, merge,
-# publish, distribute, sublicense, and/or sell copies of the Software,
-# and to permit persons to whom the Software is furnished to do so,
-# subject to the following conditions:
-#
-# The above copyright notice and this permission notice shall be
-# included in all copies or substantial portions of the Software.
-#
-# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
-# EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES
-# OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
-# NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT
-# HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
-# WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
-# FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR
-# OTHER DEALINGS IN THE SOFTWARE.
-"""Python 3 compatibility tools (PRIVATE)."""
-
-from UserDict import DictMixin
-
-
-class OrderedDict(dict, DictMixin):
-
- def __init__(self, *args, **kwds):
- if len(args) > 1:
- raise TypeError('expected at most 1 arguments, got %d' % len(args))
- try:
- self.__end
- except AttributeError:
- self.clear()
- self.update(*args, **kwds)
-
- def clear(self):
- self.__end = end = []
- end += [None, end, end] # sentinel node for doubly linked list
- self.__map = {} # key --> [key, prev, next]
- dict.clear(self)
-
- def __setitem__(self, key, value):
- if key not in self:
- end = self.__end
- curr = end[1]
- curr[2] = end[1] = self.__map[key] = [key, curr, end]
- dict.__setitem__(self, key, value)
-
- def __delitem__(self, key):
- dict.__delitem__(self, key)
- key, prev, next = self.__map.pop(key)
- prev[2] = next
- next[1] = prev
-
- def __iter__(self):
- end = self.__end
- curr = end[2]
- while curr is not end:
- yield curr[0]
- curr = curr[2]
-
- def __reversed__(self):
- end = self.__end
- curr = end[1]
- while curr is not end:
- yield curr[0]
- curr = curr[1]
-
- def popitem(self, last=True):
- if not self:
- raise KeyError('dictionary is empty')
- if last:
- key = reversed(self).next()
- else:
- key = iter(self).next()
- value = self.pop(key)
- return key, value
-
- def __reduce__(self):
- items = [[k, self[k]] for k in self]
- tmp = self.__map, self.__end
- del self.__map, self.__end
- inst_dict = vars(self).copy()
- self.__map, self.__end = tmp
- if inst_dict:
- return (self.__class__, (items,), inst_dict)
- return self.__class__, (items,)
-
- def keys(self):
- return list(self)
-
- setdefault = DictMixin.setdefault
- update = DictMixin.update
- pop = DictMixin.pop
- values = DictMixin.values
- items = DictMixin.items
- iterkeys = DictMixin.iterkeys
- itervalues = DictMixin.itervalues
- iteritems = DictMixin.iteritems
-
- def __repr__(self):
- if not self:
- return '%s()' % (self.__class__.__name__,)
- return '%s(%r)' % (self.__class__.__name__, self.items())
-
- def copy(self):
- return self.__class__(self)
-
- @classmethod
- def fromkeys(cls, iterable, value=None):
- d = cls()
- for key in iterable:
- d[key] = value
- return d
-
- def __eq__(self, other):
- if isinstance(other, OrderedDict):
- if len(self) != len(other):
- return False
- for p, q in zip(self.items(), other.items()):
- if p != q:
- return False
- return True
- return dict.__eq__(self, other)
-
- def __ne__(self, other):
- return not self == other
diff --git a/Bio/_utils.py b/Bio/_utils.py
index 0f59456..aa3da03 100644
--- a/Bio/_utils.py
+++ b/Bio/_utils.py
@@ -54,7 +54,8 @@ def trim_str(string, max_len, concat_char):
def getattr_str(obj, attr, fmt=None, fallback='?'):
"""Returns a string of the given object's attribute, defaulting to the
- fallback value if attribute is not present."""
+ fallback value if attribute is not present.
+ """
if hasattr(obj, attr):
if fmt is not None:
return fmt % getattr(obj, attr)
@@ -116,5 +117,6 @@ def run_doctest(target_dir=None, *args, **kwargs):
os.chdir(cur_dir)
print("Done")
+
if __name__ == "__main__":
run_doctest()
diff --git a/Bio/bgzf.py b/Bio/bgzf.py
index a37780e..159de51 100755
--- a/Bio/bgzf.py
+++ b/Bio/bgzf.py
@@ -404,7 +404,7 @@ def BgzfBlocks(handle):
def _load_bgzf_block(handle, text_mode=False):
- """Internal function to load the next BGZF function (PRIVATE)."""
+ """Load the next BGZF block of compressed data (PRIVATE)."""
magic = handle.read(4)
if not magic:
# End of file
@@ -521,6 +521,7 @@ class BgzfReader(object):
"""
def __init__(self, filename=None, mode="r", fileobj=None, max_cache=100):
+ """Initialize the class."""
# TODO - Assuming we can seek, check for 28 bytes EOF empty block
# and if missing warn about possible truncation (as in samtools)?
if max_cache < 1:
@@ -587,7 +588,7 @@ class BgzfReader(object):
self._buffers[self._block_start_offset] = self._buffer, block_size
def tell(self):
- """Returns a 64-bit unsigned BGZF virtual offset."""
+ """Return a 64-bit unsigned BGZF virtual offset."""
if 0 < self._within_block_offset and \
self._within_block_offset == len(self._buffer):
# Special case where we're right at the end of a (non empty) block.
@@ -626,6 +627,7 @@ class BgzfReader(object):
return virtual_offset
def read(self, size=-1):
+ """Read method for the BGZF module."""
if size < 0:
raise NotImplementedError("Don't be greedy, that could be massive!")
elif size == 0:
@@ -656,6 +658,7 @@ class BgzfReader(object):
return data
def readline(self):
+ """Read a single line for the BGZF file."""
i = self._buffer.find(self._newline, self._within_block_offset)
# Three cases to consider,
if i == -1:
@@ -682,6 +685,7 @@ class BgzfReader(object):
return data
def __next__(self):
+ """Return the next line."""
line = self.readline()
if not line:
raise StopIteration
@@ -693,33 +697,42 @@ class BgzfReader(object):
return self.__next__()
def __iter__(self):
+ """Iterate over the lines in the BGZF file."""
return self
def close(self):
+ """Close BGZF file."""
self._handle.close()
self._buffer = None
self._block_start_offset = None
self._buffers = None
def seekable(self):
+ """Return True indicating the BGZF supports random access."""
return True
def isatty(self):
+ """Return True if connected to a TTY device."""
return False
def fileno(self):
+ """Return integer file descriptor."""
return self._handle.fileno()
def __enter__(self):
+ """Open a file operable with WITH statement."""
return self
def __exit__(self, type, value, traceback):
+ """Close a file with WITH statement."""
self.close()
class BgzfWriter(object):
+ """Define a BGZFWriter object."""
def __init__(self, filename=None, mode="w", fileobj=None, compresslevel=6):
+ """Initilize the class."""
if fileobj:
assert filename is None
handle = fileobj
@@ -736,6 +749,7 @@ class BgzfWriter(object):
self.compresslevel = compresslevel
def _write_block(self, block):
+ """Write provided data to file as a single BGZF compressed block (PRIVATE)."""
# print("Saving %i bytes" % len(block))
start_offset = self._handle.tell()
assert len(block) <= 65536
@@ -771,6 +785,7 @@ class BgzfWriter(object):
self._handle.write(data)
def write(self, data):
+ """Write method for the class."""
# TODO - Check bytes vs unicode
data = _as_bytes(data)
# block_size = 2**16 = 65536
@@ -787,6 +802,7 @@ class BgzfWriter(object):
self._buffer = self._buffer[65536:]
def flush(self):
+ """Flush data explicitally."""
while len(self._buffer) >= 65536:
self._write_block(self._buffer[:65535])
self._buffer = self._buffer[65535:]
@@ -809,23 +825,28 @@ class BgzfWriter(object):
self._handle.close()
def tell(self):
- """Returns a BGZF 64-bit virtual offset."""
+ """Return a BGZF 64-bit virtual offset."""
return make_virtual_offset(self._handle.tell(), len(self._buffer))
def seekable(self):
+ """Return True indicating the BGZF supports random access."""
# Not seekable, but we do support tell...
return False
def isatty(self):
+ """Return True if connected to a TTY device."""
return False
def fileno(self):
+ """Return integer file descriptor."""
return self._handle.fileno()
def __enter__(self):
+ """Open a file operable with WITH statement."""
return self
def __exit__(self, type, value, traceback):
+ """Close a file with WITH statement."""
self.close()
diff --git a/Bio/codonalign/__init__.py b/Bio/codonalign/__init__.py
index 0a127b3..eecc5d0 100644
--- a/Bio/codonalign/__init__.py
+++ b/Bio/codonalign/__init__.py
@@ -4,19 +4,15 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Code for dealing with Codon Alignment.
-"""
+"""Code for dealing with Codon Alignments."""
from __future__ import print_function
from Bio import BiopythonWarning
from Bio import BiopythonExperimentalWarning
-try:
- from itertools import izip
-except ImportError:
- izip = zip
-# from itertools import izip
+from Bio._py3k import zip
+from Bio.Alphabet import _get_base_alphabet
from Bio.SeqRecord import SeqRecord
from Bio.codonalign.codonseq import CodonSeq
@@ -34,18 +30,17 @@ warnings.warn('Bio.codonalign is an experimental module which may undergo '
def build(pro_align, nucl_seqs, corr_dict=None, gap_char='-', unknown='X',
codon_table=default_codon_table, alphabet=None,
complete_protein=False, anchor_len=10, max_score=10):
- """Build a codon alignment from a protein alignment and
- corresponding nucleotide sequences
+ """Build a codon alignment from protein alignment and corresponding nucleotides.
Arguments:
- - pro_align - a protein MultipleSeqAlignment object
- - nucl_align - an object returned by SeqIO.parse or SeqIO.index
- or a collection of SeqRecord.
- - alphabet - alphabet for the returned codon alignment
- - corr_dict - a dict that maps protein id to nucleotide id
- - complete_protein - whether the sequence begins with a start
- codon
- - frameshift - whether to apply frameshift detection
+ - pro_align - a protein MultipleSeqAlignment object
+ - nucl_align - an object returned by SeqIO.parse or SeqIO.index
+ or a collection of SeqRecord.
+ - alphabet - alphabet for the returned codon alignment
+ - corr_dict - a dict that maps protein id to nucleotide id
+ - complete_protein - whether the sequence begins with a start
+ codon
+ - frameshift - whether to apply frameshift detection
Return a CodonAlignment object
@@ -79,9 +74,9 @@ def build(pro_align, nucl_seqs, corr_dict=None, gap_char='-', unknown='X',
"object")
# check the alphabet of pro_align
for pro in pro_align:
- if not isinstance(pro.seq.alphabet, ProteinAlphabet):
+ if not isinstance(_get_base_alphabet(pro.seq.alphabet), ProteinAlphabet):
raise TypeError("Alphabet Error!\nThe input alignment should be "
- "a *PROTEIN* alignment")
+ "a *PROTEIN* alignemnt, found %r" % pro.seq.alphabet)
if alphabet is None:
alphabet = _get_codon_alphabet(codon_table, gap_char=gap_char)
# check whether the number of seqs in pro_align and nucl_seqs is
@@ -137,7 +132,7 @@ def build(pro_align, nucl_seqs, corr_dict=None, gap_char='-', unknown='X',
# set up pro-nucl correspondence based on corr_method
# corr_method = 0, consecutive pairing
if corr_method == 0:
- pro_nucl_pair = izip(pro_align, nucl_seqs)
+ pro_nucl_pair = zip(pro_align, nucl_seqs)
# corr_method = 1, keyword pairing
elif corr_method == 1:
nucl_id = set(nucl_seqs.keys())
@@ -174,7 +169,7 @@ def build(pro_align, nucl_seqs, corr_dict=None, gap_char='-', unknown='X',
anchor_len=anchor_len)
if not corr_span:
raise ValueError("Protein Record {0} and Nucleotide Record {1} do"
- " not match!".format((pair[0].id, pair[1].id)))
+ " not match!".format(pair[0].id, pair[1].id))
else:
codon_rec = _get_codon_rec(pair[0], pair[1], corr_span,
alphabet=alphabet,
@@ -191,10 +186,9 @@ def build(pro_align, nucl_seqs, corr_dict=None, gap_char='-', unknown='X',
def _codons2re(codons):
- """Generate regular expression based on a given list of codons
- """
+ """Generate regular expression based on a given list of codons (PRIVATE)."""
reg = ''
- for i in izip(*codons):
+ for i in zip(*codons):
if len(set(i)) == 1:
reg += ''.join(set(i))
else:
@@ -203,8 +197,7 @@ def _codons2re(codons):
def _get_aa_regex(codon_table, stop='*', unknown='X'):
- """Set up the regular expression of a given CodonTable for
- further use.
+ """Set up the regular expression of a given CodonTable.
>>> from Bio.Data.CodonTable import generic_by_id
>>> p = generic_by_id[1]
@@ -239,8 +232,9 @@ def _get_aa_regex(codon_table, stop='*', unknown='X'):
def _check_corr(pro, nucl, gap_char='-', codon_table=default_codon_table,
complete_protein=False, anchor_len=10):
- """check if a give protein SeqRecord can be translated by another
- nucleotide SeqRecord.
+ """Check if the nucleotide can be translated into the protein.
+
+ Expects two SeqRecord objects.
"""
import re
from Bio.Alphabet import NucleotideAlphabet
@@ -255,7 +249,8 @@ def _check_corr(pro, nucl, gap_char='-', codon_table=default_codon_table,
else:
return alpha
- if not isinstance(get_alpha(nucl.seq.alphabet), NucleotideAlphabet):
+ if not isinstance(_get_base_alphabet(get_alpha(nucl.seq.alphabet)),
+ NucleotideAlphabet):
raise TypeError("Alphabet for nucl should be an instance of "
"NucleotideAlphabet, {0} "
"detected".format(str(nucl.seq.alphabet)))
@@ -423,24 +418,24 @@ def _check_corr(pro, nucl, gap_char='-', codon_table=default_codon_table,
else:
raise RuntimeError("Protein SeqRecord ({0}) and Nucleotide "
"SeqRecord ({1}) do not "
- "match!".format((pro.id, nucl.id)))
+ "match!".format(pro.id, nucl.id))
def _get_shift_anchor_re(sh_anc, sh_nuc, shift_val, aa2re, anchor_len,
shift_id_pos):
- """This function tries all the best to come up with an re that
- matches a potentially shifted anchor.
+ """Find a regular expression matching a potentially shifted anchor.
Arguments:
- - sh_anc - shifted anchor sequence
- - sh_nuc - potentially corresponding nucleotide sequence
- of sh_anc
- - shift_val - 1 or 2 indicates forward frame shift, whereas
- 3*anchor_len-1 or 3*anchor_len-2 indicates
- backward shift
- - aa2re - aa to codon re dict
- - anchor_len - length of the anchor
- - shift_id_pos - specify current shift name we are at
+ - sh_anc - shifted anchor sequence
+ - sh_nuc - potentially corresponding nucleotide sequence
+ of sh_anc
+ - shift_val - 1 or 2 indicates forward frame shift, whereas
+ 3*anchor_len-1 or 3*anchor_len-2 indicates
+ backward shift
+ - aa2re - aa to codon re dict
+ - anchor_len - length of the anchor
+ - shift_id_pos - specify current shift name we are at
+
"""
import re
shift_id = [chr(i) for i in range(97, 107)]
@@ -491,9 +486,7 @@ def _get_shift_anchor_re(sh_anc, sh_nuc, shift_val, aa2re, anchor_len,
def _merge_aa2re(aa1, aa2, shift_val, aa2re, reid):
- """Function to merge two amino acids based on detected frame shift
- value.
- """
+ """Merge two amino acids based on detected frame shift value (PRIVATE)."""
def get_aa_from_codonre(re_aa):
aas = []
m = 0
@@ -533,16 +526,16 @@ def _merge_aa2re(aa1, aa2, shift_val, aa2re, reid):
def _get_codon_rec(pro, nucl, span_mode, alphabet, gap_char="-",
codon_table=default_codon_table, complete_protein=False,
max_score=10):
- """Generate codon alignment based on regular re match (PRIVATE)
+ """Generate codon alignment based on regular re match (PRIVATE).
span_mode is a tuple returned by _check_corr. The first element
is the span of a re search, and the second element is the mode
for the match.
mode
- - 0: direct match
- - 1: mismatch (no indels)
- - 2: frameshift
+ - 0: direct match
+ - 1: mismatch (no indels)
+ - 2: frameshift
"""
import re
@@ -556,7 +549,7 @@ def _get_codon_rec(pro, nucl, span_mode, alphabet, gap_char="-",
if mode in (0, 1):
if len(pro.seq.ungap(gap_char)) * 3 != (span[1] - span[0]):
raise ValueError("Protein Record {0} and Nucleotide Record {1} "
- "do not match!".format((pro.id, nucl.id)))
+ "do not match!".format(pro.id, nucl.id))
aa_num = 0
for aa in pro.seq:
if aa == "-":
@@ -672,12 +665,12 @@ def _get_codon_rec(pro, nucl, span_mode, alphabet, gap_char="-",
def _align_shift_recs(recs):
- """This function is useful to build alignment according to the
- frameshift detected by _check_corr.
+ """Build alignment according to the frameshift detected by _check_corr (PRIVATE).
Argument:
- - recs - a list of SeqRecords containing a CodonSeq dictated
- by a rf_table (with frameshift in some of them).
+ - recs - a list of SeqRecords containing a CodonSeq dictated
+ by a rf_table (with frameshift in some of them).
+
"""
def find_next_int(k, lst):
idx = lst.index(k)
diff --git a/Bio/codonalign/chisq.py b/Bio/codonalign/chisq.py
index 1a4f130..7e0fbd0 100644
--- a/Bio/codonalign/chisq.py
+++ b/Bio/codonalign/chisq.py
@@ -5,257 +5,6 @@ Adapted from SciPy: scipy/special/cephes/{chdtr,igam}.
import math
-try:
- from math import lgamma as _lgamma
-except ImportError:
- # Missing in Python 2.6, using Python Python recipe from
- # http://code.activestate.com/recipes/576393/
- # with PEP8 whitespace and minor import changes
- #
- # * ====================================================
- # * Copyright (C) 1993 by Sun Microsystems, Inc. All rights reserved.
- # *
- # * Developed at SunPro, a Sun Microsystems, Inc. business.
- # * Permission to use, copy, modify, and distribute this
- # * software is freely granted, provided that this notice
- # * is preserved.
- # * ====================================================
- two52 = 4.50359962737049600000e+15
- half = 5.00000000000000000000e-01
- one = 1.00000000000000000000e+00
- pi = 3.14159265358979311600e+00
- a0 = 7.72156649015328655494e-02
- a1 = 3.22467033424113591611e-01
- a2 = 6.73523010531292681824e-02
- a3 = 2.05808084325167332806e-02
- a4 = 7.38555086081402883957e-03
- a5 = 2.89051383673415629091e-03
- a6 = 1.19270763183362067845e-03
- a7 = 5.10069792153511336608e-04
- a8 = 2.20862790713908385557e-04
- a9 = 1.08011567247583939954e-04
- a10 = 2.52144565451257326939e-05
- a11 = 4.48640949618915160150e-05
- tc = 1.46163214496836224576e+00
- tf = -1.21486290535849611461e-01
- # /* tt = -(tail of tf) */
- tt = -3.63867699703950536541e-18
- t0 = 4.83836122723810047042e-01
- t1 = -1.47587722994593911752e-01
- t2 = 6.46249402391333854778e-02
- t3 = -3.27885410759859649565e-02
- t4 = 1.79706750811820387126e-02
- t5 = -1.03142241298341437450e-02
- t6 = 6.10053870246291332635e-03
- t7 = -3.68452016781138256760e-03
- t8 = 2.25964780900612472250e-03
- t9 = -1.40346469989232843813e-03
- t10 = 8.81081882437654011382e-04
- t11 = -5.38595305356740546715e-04
- t12 = 3.15632070903625950361e-04
- t13 = -3.12754168375120860518e-04
- t14 = 3.35529192635519073543e-04
- u0 = -7.72156649015328655494e-02
- u1 = 6.32827064025093366517e-01
- u2 = 1.45492250137234768737e+00
- u3 = 9.77717527963372745603e-01
- u4 = 2.28963728064692451092e-01
- u5 = 1.33810918536787660377e-02
- v1 = 2.45597793713041134822e+00
- v2 = 2.12848976379893395361e+00
- v3 = 7.69285150456672783825e-01
- v4 = 1.04222645593369134254e-01
- v5 = 3.21709242282423911810e-03
- s0 = -7.72156649015328655494e-02
- s1 = 2.14982415960608852501e-01
- s2 = 3.25778796408930981787e-01
- s3 = 1.46350472652464452805e-01
- s4 = 2.66422703033638609560e-02
- s5 = 1.84028451407337715652e-03
- s6 = 3.19475326584100867617e-05
- r1 = 1.39200533467621045958e+00
- r2 = 7.21935547567138069525e-01
- r3 = 1.71933865632803078993e-01
- r4 = 1.86459191715652901344e-02
- r5 = 7.77942496381893596434e-04
- r6 = 7.32668430744625636189e-06
- w0 = 4.18938533204672725052e-01
- w1 = 8.33333333333329678849e-02
- w2 = -2.77777777728775536470e-03
- w3 = 7.93650558643019558500e-04
- w4 = -5.95187557450339963135e-04
- w5 = 8.36339918996282139126e-04
- w6 = -1.63092934096575273989e-03
- zero = 0.00000000000000000000e+00
-
- # inf = float('inf')
- # nan = float('nan')
- inf = float(9e999)
-
- def _sin_pi(x):
- x = float(x)
- e, ix = math.frexp(x)
- if(abs(x) < 0.25):
- return -math.sin(pi * x)
- y = -x # /* x is assume negative */
-
- # * argument reduction, make sure inexact flag not raised if input
- # * is an integer
- z = floor(y)
- if(z != y):
- y *= 0.5
- y = 2.0 * (y - floor(y)) # /* y = |x| mod 2.0 */
- n = int(y * 4.0)
- else:
- if(abs(ix) >= 53):
- y = zero
- n = 0 # /* y must be even */
- else:
- if(abs(ix) < 52):
- z = y + two52 # /* exact */
- e, n = math.frexp(z)
- n &= 1
- y = n
- n <<= 2
-
- if n == 0:
- y = sin(pi * y)
- elif (n == 1 or n == 2):
- y = cos(pi * (0.5 - y))
- elif (n == 3 or n == 4):
- y = sin(pi * (one - y))
- elif (n == 5 or n == 6):
- y = -cos(pi * (y - 1.5))
- else:
- y = sin(pi * (y - 2.0))
-
- z = cos(pi * (z + 1.0))
- return -y * z
-
- def _lgamma(x):
- """Natural logarithm of gamma function of x
-
- raise ValueError if x is negative integer."""
- x = float(x)
-
- # /* purge off +-inf, NaN, +-0, and negative arguments */
- if ((x == inf) or (x == -inf)):
- return inf
- # if (x is nan):
- # return nan
-
- e, ix = math.frexp(x)
- nadj = 0
- signgamp = 1
-
- if ((e == 0.0) and (ix == 0)):
- return inf
-
- if (ix > 1020):
- return inf
-
- if ((e != 0.0) and (ix < -71)):
- if (x < 0):
- return -math.log(-x)
- else:
- return -math.log(x)
-
- if e < 0:
- if ix > 52:
- return inf # one/zero
- t = sin_pi(x)
- if t == zero:
- # return inf
- raise ValueError('gamma not defined for negative integer')
- nadj = math.log(pi / fabs(t * x))
- if t < zero:
- signgamp = -1
- x = -x
-
- # /* purge off 1 and 2 */
- if x == 2.0 or x == 1.0:
- r = 0.0
-
- # /* for x < 2.0 */
- elif ix < 2:
- if x <= 0.9: # /* lgamma(x) = lgamma(x+1)-log(x) */
- r = -math.log(x)
- if x >= 0.7316:
- y = one - x
- z = y * y
- p1 = a0 + z * (a2 + z * (a4 + z * (a6 + z * (a8 + z * a10))))
- p2 = z * (a1 + z * (a3 + z * (a5 + z * (a7 + z * (a9 + z * a11)))))
- p = y * p1 + p2
- r += (p - 0.5 * y)
- elif (x >= 0.23164):
- y = x - (tc - one)
- z = y * y
- w = z * y
- p1 = t0 + w * (t3 + w * (t6 + w * (t9 + w * t12))) # /* parallel comp */
- p2 = t1 + w * (t4 + w * (t7 + w * (t10 + w * t13)))
- p3 = t2 + w * (t5 + w * (t8 + w * (t11 + w * t14)))
- p = z * p1 - (tt - w * (p2 + y * p3))
- r += (tf + p)
- else:
- y = x
- p1 = y * (u0 + y * (u1 + y * (u2 + y * (u3 + y * (u4 + y * u5)))))
- p2 = one + y * (v1 + y * (v2 + y * (v3 + y * (v4 + y * v5))))
- r += (-0.5 * y + p1 / p2)
- else:
- r = zero
- if(x >= 1.7316):
- y = 2.0 - x # /* [1.7316,2] */
- z = y * y
- p1 = a0 + z * (a2 + z * (a4 + z * (a6 + z * (a8 + z * a10))))
- p2 = z * (a1 + z * (a3 + z * (a5 + z * (a7 + z * (a9 + z * a11)))))
- p = y * p1 + p2
- r += (p - 0.5 * y)
- elif(x >= 1.23164):
- y = x - tc # /* [1.23,1.73] */
- z = y * y
- w = z * y
- p1 = t0 + w * (t3 + w * (t6 + w * (t9 + w * t12))) # /* parallel comp */
- p2 = t1 + w * (t4 + w * (t7 + w * (t10 + w * t13)))
- p3 = t2 + w * (t5 + w * (t8 + w * (t11 + w * t14)))
- p = z * p1 - (tt - w * (p2 + y * p3))
- r += (tf + p)
- else:
- y = x - one
- p1 = y * (u0 + y * (u1 + y * (u2 + y * (u3 + y * (u4 + y * u5)))))
- p2 = one + y * (v1 + y * (v2 + y * (v3 + y * (v4 + y * v5))))
- r += (-0.5 * y + p1 / p2)
-
- # /* x < 8.0 */
- elif(ix < 4):
- i = int(x)
- t = zero
- y = x - i
- p = y * (s0 + y * (s1 + y * (s2 + y * (s3 + y * (s4 + y * (s5 + y * s6))))))
- q = one + y * (r1 + y * (r2 + y * (r3 + y * (r4 + y * (r5 + y * r6)))))
- r = half * y + p / q
- z = one # /* lgamma(1+s) = log(s) + lgamma(s) */
- while (i > 2):
- i -= 1
- z *= (y + i)
- r += log(z)
-
- # /* 8.0 <= x < 2**58 */
- elif (ix < 58):
- t = log(x)
- z = one / x
- y = z * z
- w = w0 + z * (w1 + y * (w2 + y * (w3 + y * (w4 + y * (w5 + y * w6)))))
- r = (x - half) * (t - one) + w
-
- # /* 2**58 <= x <= inf */
- else:
- r = x * (log(x) - one)
-
- if (e < 0):
- r = nadj - r
- return signgamp * r
-
-
# Cephes Math Library Release 2.0: April, 1987
# Copyright 1985, 1987 by Stephen L. Moshier
# Direct inquiries to 30 Frost Street, Cambridge, MA 02140
@@ -322,8 +71,7 @@ def _igamc(a, x):
values of a and x.
"""
# Compute x**a * exp(-x) / Gamma(a)
- # TODO: Return this to math.lgamma once drop Python 2.6
- ax = math.exp(a * math.log(x) - x - _lgamma(a))
+ ax = math.exp(a * math.log(x) - x - math.lgamma(a))
# Continued fraction
y = 1.0 - a
@@ -370,8 +118,8 @@ def _igam(a, x):
x e > ----------
- -
k=0 | (a+k+1)
- """
+ """
# Compute x**a * exp(-x) / Gamma(a)
ax = math.exp(a * math.log(x) - x - math.lgamma(a))
diff --git a/Bio/codonalign/codonalignment.py b/Bio/codonalign/codonalignment.py
index 1b89cfc..8f1bead 100644
--- a/Bio/codonalign/codonalignment.py
+++ b/Bio/codonalign/codonalignment.py
@@ -34,6 +34,7 @@ class CodonAlignment(MultipleSeqAlignment):
AAAAGGTGG Gamma
"""
+
def __init__(self, records='', name=None, alphabet=default_codon_alphabet):
MultipleSeqAlignment.__init__(self, records, alphabet=alphabet)
@@ -72,8 +73,7 @@ class CodonAlignment(MultipleSeqAlignment):
return "\n".join(lines)
def __getitem__(self, index, alphabet=None):
- """Return a CodonAlignment object for single indexing
- """
+ """Return a CodonAlignment object for single indexing."""
if isinstance(index, int):
return self._records[index]
elif isinstance(index, slice):
@@ -102,7 +102,9 @@ class CodonAlignment(MultipleSeqAlignment):
return self.get_alignment_length() // 3
def toMultipleSeqAlignment(self):
- """Return a MultipleSeqAlignment containing all the
+ """Convert the CodonAlignment to a MultipleSeqAlignment.
+
+ Return a MultipleSeqAlignment containing all the
SeqRecord in the CodonAlignment using Seq to store
sequences
"""
@@ -110,10 +112,15 @@ class CodonAlignment(MultipleSeqAlignment):
rec in self._records]
return MultipleSeqAlignment(alignments)
- def get_dn_ds_matrix(self, method="NG86"):
+ def get_dn_ds_matrix(self, method="NG86", codon_table=default_codon_table):
"""Available methods include NG86, LWL85, YN00 and ML.
+
+ Argument:
+ - method - Available methods include NG86, LWL85, YN00 and ML.
+ - codon_table - Codon table to use for forward translation.
+
"""
- from Bio.Phylo.TreeConstruction import _DistanceMatrix as DM
+ from Bio.Phylo.TreeConstruction import DistanceMatrix as DM
names = [i.id for i in self._records]
size = len(self._records)
dn_matrix = []
@@ -124,7 +131,7 @@ class CodonAlignment(MultipleSeqAlignment):
for j in range(i + 1):
if i != j:
dn, ds = cal_dn_ds(self._records[i], self._records[j],
- method=method)
+ method=method, codon_table=codon_table)
dn_matrix[i].append(dn)
ds_matrix[i].append(ds)
else:
@@ -134,16 +141,16 @@ class CodonAlignment(MultipleSeqAlignment):
ds_dm = DM(names, matrix=ds_matrix)
return dn_dm, ds_dm
- def get_dn_ds_tree(self, dn_ds_method="NG86", tree_method="UPGMA"):
- """Method for constructing dn tree and ds tree.
+ def get_dn_ds_tree(self, dn_ds_method="NG86", tree_method="UPGMA", codon_table=default_codon_table):
+ """Cnstruct dn tree and ds tree.
Argument:
+ - dn_ds_method - Available methods include NG86, LWL85, YN00 and ML.
+ - tree_method - Available methods include UPGMA and NJ.
- - dn_ds_method - Available methods include NG86, LWL85, YN00 and ML.
- - tree_method - Available methods include UPGMA and NJ.
"""
from Bio.Phylo.TreeConstruction import DistanceTreeConstructor
- dn_dm, ds_dm = self.get_dn_ds_matrix(method=dn_ds_method)
+ dn_dm, ds_dm = self.get_dn_ds_matrix(method=dn_ds_method, codon_table=codon_table)
dn_constructor = DistanceTreeConstructor()
ds_constructor = DistanceTreeConstructor()
if tree_method == "UPGMA":
@@ -159,7 +166,9 @@ class CodonAlignment(MultipleSeqAlignment):
@classmethod
def from_msa(cls, align, alphabet=default_codon_alphabet):
- """Function to convert a MultipleSeqAlignment to CodonAlignment.
+ """Convert a MultipleSeqAlignment to CodonAlignment.
+
+ Function to convert a MultipleSeqAlignment to CodonAlignment.
It is the user's responsibility to ensure all the requirement
needed by CodonAlignment is met.
"""
@@ -169,15 +178,17 @@ class CodonAlignment(MultipleSeqAlignment):
def mktest(codon_alns, codon_table=default_codon_table, alpha=0.05):
- """McDonald-Kreitman test for neutrality (PMID: 1904993) This method
- counts changes rather than sites (http://mkt.uab.es/mkt/help_mkt.asp).
- Arguments:
+ """McDonald-Kreitman test for neutrality.
- - codon_alns - list of CodonAlignment to compare (each
- CodonAlignment object corresponds to gene
- sampled from a species)
+ Implement the McDonald-Kreitman test for neutrality (PMID: 1904993)
+ This method counts changes rather than sites
+ (http://mkt.uab.es/mkt/help_mkt.asp).
+
+ Arguments:
+ - codon_alns - list of CodonAlignment to compare (each
+ CodonAlignment object corresponds to gene sampled from a species)
- Return the p-value of test result
+ Return the p-value of test result.
"""
import copy
if not all(isinstance(i, CodonAlignment) for i in codon_alns):
@@ -231,15 +242,11 @@ def mktest(codon_alns, codon_table=default_codon_table, alpha=0.05):
def _get_codon2codon_matrix(codon_table=default_codon_table):
- """Function to get codon codon substitution matrix. Elements
- in the matrix are number of synonymous and nonsynonymous
- substitutions required for the substitution (PRIVATE).
+ """Get codon codon substitution matrix (PRIVATE).
+
+ Elements in the matrix are number of synonymous and nonsynonymous
+ substitutions required for the substitution.
"""
- import platform
- if platform.python_implementation() == 'PyPy':
- import numpypy as np
- else:
- import numpy as np
base_tuple = ('A', 'T', 'C', 'G')
codons = [i for i in list(codon_table.forward_table.keys()) +
codon_table.stop_codons if 'U' not in i]
@@ -281,8 +288,8 @@ def _get_codon2codon_matrix(codon_table=default_codon_table):
def _dijkstra(graph, start, end):
- """
- Dijkstra's algorithm Python implementation.
+ """Dijkstra's algorithm Python implementation (PRIVATE).
+
Algorithm adapted from
http://thomas.pelletier.im/2010/02/dijkstras-algorithm-python-implementation/.
However, an obvious bug in::
@@ -293,13 +300,13 @@ def _dijkstra(graph, start, end):
This function will return the distance between start and end.
Arguments:
-
- - graph: Dictionary of dictionary (keys are vertices).
- - start: Start vertex.
- - end: End vertex.
+ - graph: Dictionary of dictionary (keys are vertices).
+ - start: Start vertex.
+ - end: End vertex.
Output:
- List of vertices from the beginning to the end.
+ List of vertices from the beginning to the end.
+
"""
D = {} # Final distances dict
P = {} # Predecessor dict
@@ -349,8 +356,7 @@ def _dijkstra(graph, start, end):
def _count_replacement(codon_set, G):
- """Count replacement needed for a given codon_set (PRIVATE).
- """
+ """Count replacement needed for a given codon_set (PRIVATE)."""
from math import floor
if len(codon_set) == 1:
return 0, 0
@@ -363,9 +369,10 @@ def _count_replacement(codon_set, G):
def _prim(G):
- """Prim's algorithm to find minimum spanning tree. Code is adapted from
+ """Prim's algorithm to find minimum spanning tree (PRIVATE).
+
+ Code is adapted from
http://programmingpraxis.com/2010/04/09/minimum-spanning-tree-prims-algorithm/
- (PRIVATE).
"""
from math import floor
from collections import defaultdict
@@ -400,8 +407,7 @@ def _prim(G):
def _get_subgraph(codons, G):
- """Get the subgraph that contains all codons in list (PRIVATE).
- """
+ """Get the subgraph that contains all codons in list (PRIVATE)."""
subgraph = {}
for i in codons:
subgraph[i] = {}
@@ -413,9 +419,9 @@ def _get_subgraph(codons, G):
def _G_test(site_counts):
"""G test for 2x2 contingency table (PRIVATE).
- Argument:
- - site_counts - [syn_fix, nonsyn_fix, syn_poly, nonsyn_poly]
+ Arguments:
+ - site_counts - [syn_fix, nonsyn_fix, syn_poly, nonsyn_poly]
>>> print("%0.6f" % _G_test([17, 7, 42, 2]))
0.004924
diff --git a/Bio/codonalign/codonalphabet.py b/Bio/codonalign/codonalphabet.py
index 4426284..2025ef7 100644
--- a/Bio/codonalign/codonalphabet.py
+++ b/Bio/codonalign/codonalphabet.py
@@ -21,28 +21,9 @@ from Bio.Data.CodonTable import generic_by_id
default_codon_table = copy.deepcopy(generic_by_id[1])
-def get_codon_alphabet(alphabet, gap="-", stop="*"):
- """Gets alignment alphabet for codon alignment.
-
- Only nucleotide alphabet is accepted. Raise an error when the type of
- alphabet is incompatible.
- """
- from Bio.Alphabet import NucleotideAlphabet
- if isinstance(alphabet, NucleotideAlphabet):
- alpha = alphabet
- if gap:
- alpha = Gapped(alpha, gap_char=gap)
- if stop:
- alpha = HasStopCodon(alpha, stop_symbol=stop)
- else:
- raise TypeError("Only Nuclteotide Alphabet is accepted!")
- return alpha
-
-default_alphabet = get_codon_alphabet(IUPAC.unambiguous_dna)
-
-
class CodonAlphabet(Alphabet):
- """Generic Codon Alphabet with a size of three"""
+ """Generic Codon Alphabet with a size of three."""
+
size = 3
letters = None
name = ''
@@ -63,6 +44,7 @@ def get_codon_alphabet(codon_table, gap_char="-"):
generic_codon_alphabet.names = codon_table.names
return generic_codon_alphabet
+
default_codon_alphabet = get_codon_alphabet(default_codon_table)
diff --git a/Bio/codonalign/codonseq.py b/Bio/codonalign/codonseq.py
index cb4b76f..813d12b 100644
--- a/Bio/codonalign/codonseq.py
+++ b/Bio/codonalign/codonseq.py
@@ -17,7 +17,7 @@ from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
from Bio.Alphabet import generic_dna, _ungap
-from Bio.codonalign.codonalphabet import default_codon_alphabet, default_codon_table
+from Bio.codonalign.codonalphabet import CodonAlphabet, default_codon_alphabet, default_codon_table
class CodonSeq(Seq):
@@ -53,6 +53,7 @@ class CodonSeq(Seq):
[0, 3.0, 6.0, 9.0, 12.0, 15]
"""
+
def __init__(self, data='', alphabet=default_codon_alphabet,
gap_char="-", rf_table=None):
# rf_table should be a tuple or list indicating the every
@@ -70,6 +71,8 @@ class CodonSeq(Seq):
Seq.__init__(self, data.upper(), alphabet=alphabet)
self.gap_char = gap_char
+ if not isinstance(alphabet, CodonAlphabet):
+ raise TypeError("Input alphabet should be a CodonAlphabet object.")
# check the length of the alignment to be a triple
if rf_table is None:
seq_ungapped = self._data.replace(gap_char, "")
@@ -81,8 +84,7 @@ class CodonSeq(Seq):
# only works for single alphabet
for i in self.rf_table:
if self._data[i:i + 3] not in alphabet.letters:
- raise ValueError("Sequence contain undefined letters from"
- " alphabet "
+ raise ValueError("Sequence contain codon not in the alphabet "
"({0})! ".format(self._data[i:i + 3]))
else:
# if gap_char in self._data:
@@ -106,8 +108,7 @@ class CodonSeq(Seq):
return Seq(self._data[index], alphabet=generic_dna)
def get_codon(self, index):
- """get the `index`-th codon from the self.seq
- """
+ """Get the `index`-th codon from the sequence."""
if len(set(i % 3 for i in self.rf_table)) != 1:
raise RuntimeError("frameshift detected. "
"CodonSeq object is not able to deal "
@@ -193,7 +194,7 @@ class CodonSeq(Seq):
return Seq(self._data, generic_dna)
def get_full_rf_table(self):
- """Returns full rf_table of the CodonSeq records.
+ """Return full rf_table of the CodonSeq records.
A full rf_table is different from a normal rf_table in that
it translate gaps in CodonSeq. It is helpful to construct
@@ -308,12 +309,13 @@ def cal_dn_ds(codon_seq1, codon_seq2, method="NG86",
.. _`Yang and Nielsen (2000)`: http://dx.doi.org/10.1093/oxfordjournals.molbev.a026236
Arguments:
- - codon_seq1 - CodonSeq or or SeqRecord that contains a CodonSeq
- - codon_seq2 - CodonSeq or or SeqRecord that contains a CodonSeq
- - w - transition/transversion ratio
- - cfreq - Current codon frequency vector can only be specified
- when you are using ML method. Possible ways of
- getting cfreq are: F1x4, F3x4 and F61.
+ - codon_seq1 - CodonSeq or or SeqRecord that contains a CodonSeq
+ - codon_seq2 - CodonSeq or or SeqRecord that contains a CodonSeq
+ - w - transition/transversion ratio
+ - cfreq - Current codon frequency vector can only be specified
+ when you are using ML method. Possible ways of
+ getting cfreq are: F1x4, F3x4 and F61.
+
"""
if isinstance(codon_seq1, CodonSeq) and isinstance(codon_seq2, CodonSeq):
pass
@@ -361,7 +363,7 @@ def cal_dn_ds(codon_seq1, codon_seq2, method="NG86",
#################################################################
def _ng86(seq1, seq2, k, codon_table):
- """Main function for NG86 method (PRIVATE)."""
+ """NG86 method main function (PRIVATE)."""
S_sites1, N_sites1 = _count_site_NG86(seq1,
codon_table=codon_table, k=k)
S_sites2, N_sites2 = _count_site_NG86(seq2,
@@ -387,12 +389,13 @@ def _ng86(seq1, seq2, k, codon_table):
def _count_site_NG86(codon_lst, k=1, codon_table=default_codon_table):
- """count synonymous and non-synonymous sites of a list of codons (PRIVATE).
+ """Count synonymous and non-synonymous sites of a list of codons (PRIVATE).
Arguments:
- - codon_lst - A three letter codon list from a CodonSeq object.
- This can be returned from _get_codon_list method.
- - k - transition/transversion rate ratio.
+ - codon_lst - A three letter codon list from a CodonSeq object.
+ This can be returned from _get_codon_list method.
+ - k - transition/transversion rate ratio.
+
"""
S_site = 0 # synonymous sites
N_site = 0 # non-synonymous sites
@@ -482,7 +485,7 @@ def _count_diff_NG86(codon1, codon2, codon_table=default_codon_table):
def compare_codon(codon1, codon2, codon_table=default_codon_table,
weight=1):
- """Method to compare two codon accounting for different pathways."""
+ """Compare two codon accounting for different pathways."""
sd = nd = 0
if len(set(map(codon_table.forward_table.get,
[codon1, codon2]))) == 1:
@@ -536,7 +539,7 @@ def _count_diff_NG86(codon1, codon2, codon_table=default_codon_table):
#################################################################
def _lwl85(seq1, seq2, k, codon_table):
- """Main function for LWL85 method (PRIVATE).
+ """LWL85 method main function (PRIVATE).
Nomenclature is according to Li et al. (1985), PMID 3916709.
"""
@@ -613,7 +616,7 @@ def _get_codon_fold(codon_table):
def _diff_codon(codon1, codon2, fold_dict):
- """Number of different types substitutions between two codons (PRIVATE).
+ """Count number of different substitution types between two codons (PRIVATE).
returns tuple (P0, P2, P4, Q0, Q2, Q4)
@@ -660,7 +663,7 @@ def _diff_codon(codon1, codon2, fold_dict):
#################################################################
def _yn00(seq1, seq2, k, codon_table):
- """Main function for yn00 method (PRIVATE).
+ """YN00 method main function (PRIVATE).
Nomenclature is according to Yang and Nielsen (2000), PMID 10666704.
"""
@@ -770,8 +773,9 @@ def _get_TV(codon_lst1, codon_lst2, codon_table=default_codon_table):
"""Get TV (PRIVATE).
Arguments:
- - T - proportions of transitional differences
- - V - proportions of transversional differences
+ - T - proportions of transitional differences
+ - V - proportions of transversional differences
+
"""
purine = ('A', 'G')
pyrimidine = ('C', 'T')
@@ -794,8 +798,9 @@ def _get_TV(codon_lst1, codon_lst2, codon_table=default_codon_table):
def _get_kappa_t(pi, TV, t=False):
- """The following formula and variable names are according to
- PMID: 10666704
+ """Calculate kappa (PRIVATE).
+
+ The following formula and variable names are according to PMID: 10666704
"""
pi['Y'] = pi['T'] + pi['C']
pi['R'] = pi['A'] + pi['G']
@@ -828,13 +833,12 @@ def _count_site_YN00(codon_lst1, codon_lst2, pi, k,
.. _`Ina (1995)`: http://dx.doi.org/10.1007/BF00167113
.. _`Yang and Nielsen (2000)`: http://dx.doi.org/10.1093/oxfordjournals.molbev.a026236
+
"""
if len(codon_lst1) != len(codon_lst2):
raise RuntimeError("Length of two codon_lst should be the same "
- "(%d and %d detected)".format(
- len(codon_lst1),
- len(codon_lst2))
- )
+ "(%d and %d detected)" %
+ (len(codon_lst1), len(codon_lst2)))
else:
length = len(codon_lst1)
purine = ('A', 'G')
@@ -1011,7 +1015,7 @@ def _count_diff_YN00(codon1, codon2, P, codon_lst,
#################################################################
def _ml(seq1, seq2, cmethod, codon_table):
- """Main function for ML method (PRIVATE)."""
+ """ML method main function (PRIVATE)."""
from collections import Counter
from scipy.optimize import minimize
codon_cnt = Counter()
@@ -1027,7 +1031,7 @@ def _ml(seq1, seq2, cmethod, codon_table):
# apply optimization
def func(params, pi=pi, codon_cnt=codon_cnt, codon_lst=codon_lst,
codon_table=codon_table):
- """params = [t, k, w]"""
+ """Temporary function, params = [t, k, w]."""
return -_likelihood_func(
params[0], params[1], params[2], pi,
codon_cnt, codon_lst=codon_lst,
@@ -1051,7 +1055,7 @@ def _ml(seq1, seq2, cmethod, codon_table):
else:
# nonsynonymous count
Nd += pi[c1] * Q[i, j]
- except:
+ except KeyError:
# This is probably due to stop codons
pass
Sd *= t
@@ -1074,7 +1078,7 @@ def _ml(seq1, seq2, cmethod, codon_table):
else:
# nonsynonymous count
rhoN += pi[c1] * Q[i, j]
- except:
+ except KeyError:
# This is probably due to stop codons
pass
rhoS *= 3
@@ -1135,14 +1139,15 @@ def _get_pi(seq1, seq2, cmethod, codon_table=default_codon_table):
def _q(i, j, pi, k, w, codon_table=default_codon_table):
- """Q matrix for codon substitution.
+ """Q matrix for codon substitution (PRIVATE).
Arguments:
- - i, j : three letter codon string
- - pi : expected codon frequency
- - k : transition/transversion ratio
- - w : nonsynonymous/synonymous rate ratio
- - codon_table: Bio.Data.CodonTable object
+ - i, j : three letter codon string
+ - pi : expected codon frequency
+ - k : transition/transversion ratio
+ - w : nonsynonymous/synonymous rate ratio
+ - codon_table: Bio.Data.CodonTable object
+
"""
if i == j:
# diagonal elements is the sum of all other elements
diff --git a/Bio/kNN.py b/Bio/kNN.py
index e5d0f65..ce337fd 100644
--- a/Bio/kNN.py
+++ b/Bio/kNN.py
@@ -2,32 +2,26 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-This module provides code for doing k-nearest-neighbors classification.
+"""Code for doing k-nearest-neighbors classification.
k Nearest Neighbors is a supervised learning algorithm that classifies
a new observation based the classes in its surrounding neighborhood.
Glossary:
-
- - distance The distance between two points in the feature space.
- - weight The importance given to each point for classification.
-
+ - distance The distance between two points in the feature space.
+ - weight The importance given to each point for classification.
Classes:
-
- - kNN Holds information for a nearest neighbors classifier.
+ - kNN Holds information for a nearest neighbors classifier.
Functions:
-
- - train Train a new kNN classifier.
- - calculate Calculate the probabilities of each class, given an observation.
- - classify Classify an observation into a class.
+ - train Train a new kNN classifier.
+ - calculate Calculate the probabilities of each class, given an observation.
+ - classify Classify an observation into a class.
Weighting Functions:
-
- - equal_weight Every example is given a weight of 1.
+ - equal_weight Every example is given a weight of 1.
"""
@@ -37,14 +31,14 @@ import numpy
class kNN(object):
"""Holds information necessary to do nearest neighbors classification.
- Members:
-
- - classes Set of the possible classes.
- - xs List of the neighbors.
- - ys List of the classes that the neighbors belong to.
- - k Number of neighbors to look at.
+ Attribues:
+ - classes Set of the possible classes.
+ - xs List of the neighbors.
+ - ys List of the classes that the neighbors belong to.
+ - k Number of neighbors to look at.
"""
+
def __init__(self):
"""kNN()"""
self.classes = set()
diff --git a/Bio/motifs/__init__.py b/Bio/motifs/__init__.py
index 350088c..79c5f40 100644
--- a/Bio/motifs/__init__.py
+++ b/Bio/motifs/__init__.py
@@ -17,8 +17,6 @@ from __future__ import print_function
from Bio._py3k import range
-import math
-
def create(instances, alphabet=None):
instances = Instances(instances, alphabet)
@@ -29,14 +27,13 @@ def parse(handle, format):
"""Parses an output file of motif finding programs.
Currently supported formats (case is ignored):
-
- - AlignAce: AlignAce output file format
- - MEME: MEME output file motif
- - MAST: MAST output file motif
- - TRANSFAC: TRANSFAC database file format
- - pfm: JASPAR-style position-frequency matrix
- - jaspar: JASPAR-style multiple PFM format
- - sites: JASPAR-style sites file
+ - AlignAce: AlignAce output file format
+ - MEME: MEME output file motif
+ - MAST: MAST output file motif
+ - TRANSFAC: TRANSFAC database file format
+ - pfm: JASPAR-style position-frequency matrix
+ - jaspar: JASPAR-style multiple PFM format
+ - sites: JASPAR-style sites file
As files in the pfm and sites formats contain only a single motif,
it is easier to use Bio.motifs.read() instead of Bio.motifs.parse()
@@ -147,9 +144,8 @@ def read(handle, format):
class Instances(list):
- """
- A class representing instances of sequence motifs.
- """
+ """A class representing instances of sequence motifs."""
+
def __init__(self, instances=None, alphabet=None):
from Bio.Alphabet import IUPAC
from Bio.Seq import Seq
@@ -198,8 +194,10 @@ class Instances(list):
return counts
def search(self, sequence):
- """
- a generator function, returning found positions of motif instances in a given sequence
+ """Find positions of motifs in a given sequence.
+
+ This is a generator function, returning found positions of motif
+ instances in a given sequence.
"""
for pos in range(0, len(sequence) - self.length + 1):
for instance in self:
@@ -217,9 +215,8 @@ class Instances(list):
class Motif(object):
- """
- A class representing sequence motifs.
- """
+ """A class representing sequence motifs."""
+
def __init__(self, alphabet=None, instances=None, counts=None):
from . import matrix
from Bio.Alphabet import IUPAC
@@ -328,8 +325,7 @@ class Motif(object):
return self.pwm.log_odds(self._background)
def __str__(self, masked=False):
- """ string representation of a motif.
- """
+ """String representation of a motif."""
text = ""
if self.instances is not None:
text += str(self.instances)
@@ -507,8 +503,8 @@ class Motif(object):
- pfm : JASPAR single Position Frequency Matrix
- jaspar : JASPAR multiple Position Frequency Matrix
- transfac : TRANSFAC like files
- """
+ """
if format in ('pfm', 'jaspar'):
from Bio.motifs import jaspar
motifs = [self]
@@ -528,8 +524,8 @@ def write(motifs, format):
- pfm : JASPAR simple single Position Frequency Matrix
- jaspar : JASPAR multiple PFM format
- transfac : TRANSFAC like files
- """
+ """
format = format.lower()
if format in ("pfm", "jaspar"):
from Bio.motifs import jaspar
diff --git a/Bio/motifs/alignace.py b/Bio/motifs/alignace.py
index 329b12a..f9c1718 100644
--- a/Bio/motifs/alignace.py
+++ b/Bio/motifs/alignace.py
@@ -3,8 +3,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Parsing AlignACE output files
-"""
+"""Parsing AlignACE output files."""
from Bio.motifs import Motif, Instances
from Bio.Alphabet import IUPAC
@@ -23,6 +22,8 @@ def read(handle):
record.version = line.strip()
line = next(handle)
record.command = line.strip()
+ mask = None
+ number = None
for line in handle:
line = line.strip()
if line == "":
diff --git a/Bio/motifs/applications/_xxmotif.py b/Bio/motifs/applications/_xxmotif.py
index f6c0ea7..4286def 100644
--- a/Bio/motifs/applications/_xxmotif.py
+++ b/Bio/motifs/applications/_xxmotif.py
@@ -13,7 +13,7 @@ from Bio.Application import AbstractCommandline, _Option, _Switch, _Argument
class XXmotifCommandline(AbstractCommandline):
- """Command line wrapper for XXmotif.
+ u"""Command line wrapper for XXmotif.
http://xxmotif.genzentrum.lmu.de/
diff --git a/Bio/motifs/jaspar/__init__.py b/Bio/motifs/jaspar/__init__.py
index ff4f549..7a7cb43 100644
--- a/Bio/motifs/jaspar/__init__.py
+++ b/Bio/motifs/jaspar/__init__.py
@@ -28,7 +28,6 @@ class Motif(motifs.Motif):
species=None, tax_group=None, acc=None, data_type=None,
medline=None, pazar_id=None, comment=None):
"""Construct a JASPAR Motif instance."""
-
motifs.Motif.__init__(self, alphabet, instances, counts)
self.name = name
self.matrix_id = matrix_id
@@ -104,6 +103,7 @@ class Motif(motifs.Motif):
"""Return the hash key corresponding to the JASPAR profile.
:note: We assume the unicity of matrix IDs
+
"""
return self.matrix_id.__hash__()
@@ -115,7 +115,6 @@ class Record(list):
"""Represent a list of jaspar motifs.
Attributes:
-
- version: The JASPAR version used
"""
@@ -259,7 +258,6 @@ def _read_jaspar(handle):
2 19 11 50 29 47 22 81 1 6
"""
-
alphabet = dna
counts = {}
@@ -348,7 +346,6 @@ def split_jaspar_id(id):
Components are base ID and version number, e.g. 'MA0047.2' is returned as
('MA0047', 2).
"""
-
id_split = id.split('.')
base_id = None
diff --git a/Bio/motifs/jaspar/db.py b/Bio/motifs/jaspar/db.py
index 2912ab7..579f896 100644
--- a/Bio/motifs/jaspar/db.py
+++ b/Bio/motifs/jaspar/db.py
@@ -69,7 +69,7 @@ from Bio import MissingPythonDependencyError
try:
import MySQLdb as mdb
-except:
+except ImportError:
raise MissingPythonDependencyError("Install MySQLdb if you want to use "
"Bio.motifs.jaspar.db")
@@ -81,28 +81,27 @@ JASPAR_DFLT_COLLECTION = 'CORE'
class JASPAR5(object):
- """
+ """Class representing a JASPAR5 database.
+
Class representing a JASPAR5 DB. The methods within are loosely based
on the perl TFBS::DB::JASPAR5 module.
Note: We will only implement reading of JASPAR motifs from the DB.
Unlike the perl module, we will not attempt to implement any methods to
store JASPAR motifs or create a new DB at this time.
-
"""
def __init__(self, host=None, name=None, user=None, password=None):
- """
- Construct a JASPAR5 instance and connect to specified DB
+ """Construct a JASPAR5 instance and connect to specified DB.
Arguments:
- host - host name of the the JASPAR DB server
- name - name of the JASPAR database
- user - user name to connect to the JASPAR DB
- password - JASPAR DB password
- """
+ - host - host name of the the JASPAR DB server
+ - name - name of the JASPAR database
+ - user - user name to connect to the JASPAR DB
+ - password - JASPAR DB password
+ """
self.name = name
self.host = host
self.user = user
@@ -111,19 +110,13 @@ class JASPAR5(object):
self.dbh = mdb.connect(host, user, password, name)
def __str__(self):
- """
- Return a string represention of the JASPAR5 DB connection.
-
- """
-
- text = "%s\@%s:%s" % (self.user, self.host, self.name)
-
- return text
+ """Return a string represention of the JASPAR5 DB connection."""
+ return "%s\@%s:%s" % (self.user, self.host, self.name)
def fetch_motif_by_id(self, id):
- """
- Fetch a single JASPAR motif from the DB by it's JASPAR matrix ID
- (e.g. 'MA0001.1').
+ """Fetch a single JASPAR motif from the DB by it's JASPAR matrix ID
+
+ Example id 'MA0001.1'.
Arguments:
@@ -133,7 +126,6 @@ class JASPAR5(object):
returned.
Returns:
-
- A Bio.motifs.jaspar.Motif object
**NOTE:** The perl TFBS module allows you to specify the type of matrix
@@ -143,7 +135,6 @@ class JASPAR5(object):
log-odds matrices.
"""
-
# separate stable ID and version number
(base_id, version) = jaspar.split_jaspar_id(id)
if not version:
@@ -163,8 +154,7 @@ class JASPAR5(object):
return motif
def fetch_motifs_by_name(self, name):
- """
- Fetch a list of JASPAR motifs from a JASPAR DB by the given TF name(s).
+ """Fetch a list of JASPAR motifs from a JASPAR DB by the given TF name(s).
Arguments:
name - a single name or list of names
@@ -183,7 +173,6 @@ class JASPAR5(object):
in the case where multiple matrices have the same name.
"""
-
return self.fetch_motifs(collection=None, tf_name=name)
def fetch_motifs(
@@ -192,9 +181,7 @@ class JASPAR5(object):
pazar_id=None, data_type=None, medline=None, min_ic=0, min_length=0,
min_sites=0, all=False, all_versions=False
):
- """
- Fetch a jaspar.Record (list) of motifs based on the provided selection
- criteria.
+ """Fetch jaspar.Record (list) of motifs using selection criteria.
Arguments::
@@ -248,11 +235,9 @@ class JASPAR5(object):
motifs are returned.
Returns:
-
- A Bio.motifs.jaspar.Record (list) of motifs.
"""
-
# Fetch the internal IDs of the motifs using the criteria provided
int_ids = self._fetch_internal_id_list(
collection=collection,
@@ -308,11 +293,7 @@ class JASPAR5(object):
return record
def _fetch_latest_version(self, base_id):
- """
- Get the latest version number for the given base_id,
-
- """
-
+ """Get the latest version number for the given base_id."""
cur = self.dbh.cursor()
cur.execute("""select VERSION from MATRIX where BASE_id = %s
order by VERSION desc limit 1""", (base_id,))
@@ -331,12 +312,10 @@ class JASPAR5(object):
return latest
def _fetch_internal_id(self, base_id, version):
- """
- Fetch the internal id for a base id + version. Also checks if this
- combo exists or not
+ """Fetch the internal id for a base id + version.
+ Also checks if this combo exists or not.
"""
-
cur = self.dbh.cursor()
cur.execute("""select id from MATRIX where BASE_id = %s
and VERSION = %s""", (base_id, version))
@@ -443,11 +422,9 @@ class JASPAR5(object):
return motif
def _fetch_counts_matrix(self, int_id):
- """
- Fetch the counts matrix from the JASPAR DB by the internal ID
+ """Fetch the counts matrix from the JASPAR DB by the internal ID
Returns a Bio.motifs.matrix.GenericPositionMatrix
-
"""
counts = {}
cur = self.dbh.cursor()
@@ -472,7 +449,8 @@ class JASPAR5(object):
pazar_id=None, data_type=None, medline=None, all=False,
all_versions=False
):
- """
+ """Fetch list of internal JASPAR motif IDs.
+
Fetch a list of internal JASPAR motif IDs based on various passed
parameters which may then be used to fetch the rest of the motif data.
@@ -501,7 +479,6 @@ class JASPAR5(object):
calling fetch_motifs() method.
"""
-
int_ids = []
cur = self.dbh.cursor()
@@ -758,10 +735,10 @@ class JASPAR5(object):
return int_ids
def _is_latest_version(self, int_id):
- """
+ """Check if the internal ID represents the latest JASPAR matrix.
+
Does this internal ID represent the latest version of the JASPAR
matrix (collapse on base ids)
-
"""
cur = self.dbh.cursor()
diff --git a/Bio/motifs/mast.py b/Bio/motifs/mast.py
index 433095a..c328abc 100644
--- a/Bio/motifs/mast.py
+++ b/Bio/motifs/mast.py
@@ -134,6 +134,7 @@ def __read_section_ii(record, handle):
line = next(handle)
if not line.startswith('---'):
raise ValueError("Line does not start with '---':\n%s" % line)
+ sequence = None
for line in handle:
if not line.strip():
break
diff --git a/Bio/motifs/matrix.py b/Bio/motifs/matrix.py
index 928f5bd..c7de531 100644
--- a/Bio/motifs/matrix.py
+++ b/Bio/motifs/matrix.py
@@ -16,6 +16,45 @@ from Bio.Alphabet import IUPAC
from Bio import Alphabet
+# Make sure that we use C-accelerated PWM calculations if running under CPython.
+# Fall back to the slower Python implementation if Jython or IronPython.
+try:
+ from . import _pwm
+
+ def _calculate(score_dict, sequence, m, n):
+ """Calculate scores using C code (PRIVATE)."""
+ logodds = [[score_dict[letter][i] for letter in "ACGT"] for i in range(m)]
+ return _pwm.calculate(sequence, logodds)
+
+except ImportError:
+ if platform.python_implementation() == 'CPython':
+ import warnings
+ from Bio import BiopythonWarning
+ warnings.warn("Using pure-Python as missing Biopython's C code for PWM. "
+ "This can happen if Biopython was installed without NumPy. "
+ "Try re-installing NumPy and then Biopython.",
+ BiopythonWarning)
+
+ def _calculate(score_dict, sequence, m, n):
+ """Calculate scores using Python code (PRIVATE).
+
+ The C code handles mixed case so Python version must too.
+ """
+ sequence = sequence.upper()
+ scores = []
+ for i in range(n - m + 1):
+ score = 0.0
+ for position in range(m):
+ letter = sequence[i + position]
+ try:
+ score += score_dict[letter][position]
+ except KeyError:
+ score = float("nan")
+ break
+ scores.append(score)
+ return scores
+
+
class GenericPositionMatrix(dict):
def __init__(self, alphabet, values):
@@ -323,44 +362,16 @@ class PositionWeightMatrix(GenericPositionMatrix):
class PositionSpecificScoringMatrix(GenericPositionMatrix):
- # Make sure that we use C-accelerated PWM calculations if running under CPython.
- # Fall back to the slower Python implementation if Jython or IronPython.
- try:
- from . import _pwm
-
- def _calculate(self, sequence, m, n):
- logodds = [[self[letter][i] for letter in "ACGT"] for i in range(m)]
- return self._pwm.calculate(sequence, logodds)
- except ImportError:
- if platform.python_implementation() == 'CPython':
- raise
- else:
- def _calculate(self, sequence, m, n):
- # The C code handles mixed case so Python version must too:
- sequence = sequence.upper()
- scores = []
- for i in range(n - m + 1):
- score = 0.0
- for position in range(m):
- letter = sequence[i + position]
- try:
- score += self[letter][position]
- except KeyError:
- score = float("nan")
- break
- scores.append(score)
- return scores
-
def calculate(self, sequence):
"""Returns the PWM score for a given sequence for all positions.
Notes:
-
- the sequence can only be a DNA sequence
- the search is performed only on one strand
- if the sequence and the motif have the same length, a single
number is returned
- otherwise, the result is a one-dimensional list or numpy array
+
"""
# TODO - Code itself tolerates ambiguous bases (as NaN).
if not isinstance(self.alphabet, IUPAC.IUPACUnambiguousDNA):
@@ -377,7 +388,7 @@ class PositionSpecificScoringMatrix(GenericPositionMatrix):
m = self.length
n = len(sequence)
- scores = self._calculate(sequence, m, n)
+ scores = _calculate(self, sequence, m, n)
if len(scores) == 1:
return scores[0]
@@ -528,7 +539,7 @@ class PositionSpecificScoringMatrix(GenericPositionMatrix):
return numerator / denominator
def distribution(self, background=None, precision=10 ** 3):
- """calculate the distribution of the scores at the given precision."""
+ """Calculate the distribution of the scores at the given precision."""
from .thresholds import ScoreDistribution
if background is None:
background = dict.fromkeys(self._letters, 1.0)
diff --git a/Bio/motifs/meme.py b/Bio/motifs/meme.py
index 9f23cbc..b73c3ec 100644
--- a/Bio/motifs/meme.py
+++ b/Bio/motifs/meme.py
@@ -33,6 +33,8 @@ def read(handle):
for line in handle:
if line.startswith('MOTIF 1'):
break
+ if record.version == '4.11.4' and line.startswith('MOTIF '):
+ break
else:
raise ValueError('Unexpected end of stream')
alphabet = record.alphabet
@@ -67,6 +69,7 @@ class Motif(motifs.Motif):
This includes the motif name, the evalue for a motif, and its number
of occurrences.
"""
+
def __init__(self, alphabet=None, instances=None):
motifs.Motif.__init__(self, alphabet, instances)
self.evalue = 0.0
@@ -75,8 +78,8 @@ class Motif(motifs.Motif):
class Instance(Seq.Seq):
- """A class describing the instances of a MEME motif, and the data thereof.
- """
+ """A class describing the instances of a MEME motif, and the data thereof."""
+
def __init__(self, *args, **kwds):
Seq.Seq.__init__(self, *args, **kwds)
self.sequence_name = ""
@@ -144,7 +147,9 @@ def __read_datafile(record, handle):
if line.startswith('TRAINING SET'):
break
else:
- raise ValueError("Unexpected end of stream: 'TRAINING SET' not found.")
+ raise ValueError(
+ "Unexpected end of stream: 'TRAINING SET' not found. This can happen with " +
+ "minimal MEME files (MEME databases) which are not supported yet.")
try:
line = next(handle)
except StopIteration:
@@ -219,10 +224,15 @@ def __read_motif_statistics(line):
# MOTIF 1 width = 19 sites = 3 llr = 43 E-value = 6.9e-002
# or like
# MOTIF 1 MEME width = 19 sites = 3 llr = 43 E-value = 6.9e-002
+ # or in v 4.11.4
+ # MOTIF ATTATAAAAAAA MEME-1 width = 12 sites = 5 llr = 43 E-value = 1.9e-003
words = line.split()
assert words[0] == 'MOTIF'
- motif_number = int(words[1])
- if words[2] == 'MEME':
+ if words[2][:5] == 'MEME-':
+ motif_number = int(words[2].split('-')[1])
+ else:
+ motif_number = int(words[1])
+ if words[2].startswith('MEME'):
key_values = words[3:]
else:
key_values = words[2:]
diff --git a/Bio/motifs/thresholds.py b/Bio/motifs/thresholds.py
index 1d6de80..66def9a 100644
--- a/Bio/motifs/thresholds.py
+++ b/Bio/motifs/thresholds.py
@@ -3,17 +3,17 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Approximate calculation of appropriate thresholds for motif finding
-"""
+"""Approximate calculation of appropriate thresholds for motif finding."""
class ScoreDistribution(object):
- """ Class representing approximate score distribution for a given motif.
+ """Class representing approximate score distribution for a given motif.
Utilizes a dynamic programming approach to calculate the distribution of
scores with a predefined precision. Provides a number of methods for calculating
thresholds for motif occurrences.
"""
+
def __init__(self, motif=None, precision=10 ** 3, pssm=None, background=None):
if pssm is None:
self.min_score = min(0.0, motif.min_score())
@@ -66,9 +66,7 @@ class ScoreDistribution(object):
self.bg_density = bg_new
def threshold_fpr(self, fpr):
- """
- Approximate the log-odds threshold which makes the type I error (false positive rate).
- """
+ """Approximate the log-odds threshold which makes the type I error (false positive rate)."""
i = self.n_points
prob = 0.0
while prob < fpr:
@@ -77,9 +75,7 @@ class ScoreDistribution(object):
return self.min_score + i * self.step
def threshold_fnr(self, fnr):
- """
- Approximate the log-odds threshold which makes the type II error (false negative rate).
- """
+ """Approximate the log-odds threshold which makes the type II error (false negative rate)."""
i = -1
prob = 0.0
while prob < fnr:
@@ -88,9 +84,7 @@ class ScoreDistribution(object):
return self.min_score + i * self.step
def threshold_balanced(self, rate_proportion=1.0, return_rate=False):
- """
- Approximate the log-odds threshold which makes FNR equal to FPR times rate_proportion
- """
+ """Approximate log-odds threshold making FNR equal to FPR times rate_proportion."""
i = self.n_points
fpr = 0.0
fnr = 1.0
diff --git a/Bio/motifs/transfac.py b/Bio/motifs/transfac.py
index a6c0473..026ea11 100644
--- a/Bio/motifs/transfac.py
+++ b/Bio/motifs/transfac.py
@@ -3,62 +3,66 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Parsing TRANSFAC files
-"""
+"""Parsing TRANSFAC files."""
+import warnings
+
+from Bio import BiopythonParserWarning
from Bio import motifs
from Bio.Alphabet import IUPAC
class Motif(motifs.Motif, dict):
- """A Bio.motifs.transfac.Motif stores the information in one TRANSFAC
-motif. This class inherits from the Bio.motifs.Motif base class, as well
-as from a Python dictionary. All motif information found by the parser
-is stored as attributes of the base class when possible; see the
-Bio.motifs.Motif base class for a description of these attributes. All
-other information associated with the motif is stored as (key, value)
-pairs in the dictionary, where the key is the two-letter fields as found
-in the TRANSFAC file. References are an exception: These are stored in
-the .references attribute.
-
-These fields are commonly found in TRANSFAC files::
-
- AC: Accession number
- AS: Accession numbers, secondary
- BA: Statistical basis
- BF: Binding factors
- BS: Factor binding sites underlying the matrix
- [sequence; SITE accession number; start position for matrix
- sequence; length of sequence used; number of gaps inserted;
- strand orientation.]
- CC: Comments
- CO: Copyright notice
- DE: Short factor description
- DR: External databases
- [database name: database accession number]
- DT: Date created/updated
- HC: Subfamilies
- HP: Superfamilies
- ID: Identifier
- NA: Name of the binding factor
- OC: Taxonomic classification
- OS: Species/Taxon
- OV: Older version
- PV: Preferred version
- TY: Type
- XX: Empty line; these are not stored in the Record.
-
-References are stored in an .references attribute, which is a list of
-dictionaries with the following keys::
-
- RN: Reference number
- RA: Reference authors
- RL: Reference data
- RT: Reference title
- RX: PubMed ID
-
-For more information, see the TRANSFAC documentation.
-"""
+ """Store the information for one TRANSFAC motif.
+
+ This class inherits from the Bio.motifs.Motif base class, as well
+ as from a Python dictionary. All motif information found by the parser
+ is stored as attributes of the base class when possible; see the
+ Bio.motifs.Motif base class for a description of these attributes. All
+ other information associated with the motif is stored as (key, value)
+ pairs in the dictionary, where the key is the two-letter fields as found
+ in the TRANSFAC file. References are an exception: These are stored in
+ the .references attribute.
+
+ These fields are commonly found in TRANSFAC files::
+
+ AC: Accession number
+ AS: Accession numbers, secondary
+ BA: Statistical basis
+ BF: Binding factors
+ BS: Factor binding sites underlying the matrix
+ [sequence; SITE accession number; start position for matrix
+ sequence; length of sequence used; number of gaps inserted;
+ strand orientation.]
+ CC: Comments
+ CO: Copyright notice
+ DE: Short factor description
+ DR: External databases
+ [database name: database accession number]
+ DT: Date created/updated
+ HC: Subfamilies
+ HP: Superfamilies
+ ID: Identifier
+ NA: Name of the binding factor
+ OC: Taxonomic classification
+ OS: Species/Taxon
+ OV: Older version
+ PV: Preferred version
+ TY: Type
+ XX: Empty line; these are not stored in the Record.
+
+ References are stored in an .references attribute, which is a list of
+ dictionaries with the following keys::
+
+ RN: Reference number
+ RA: Reference authors
+ RL: Reference data
+ RT: Reference title
+ RX: PubMed ID
+
+ For more information, see the TRANSFAC documentation.
+ """
+
multiple_value_keys = set(['BF', 'OV', 'HP', 'BS', 'HC', 'DT', 'DR'])
# These keys can occur multiple times for one motif
@@ -67,14 +71,16 @@ For more information, see the TRANSFAC documentation.
class Record(list):
- """A Bio.motifs.transfac.Record stores the information in a TRANSFAC
-matrix table. The record inherits from a list containing the individual
-motifs.
-
-Attributes:
- o version: The version number, corresponding to the 'VV' field
- in the TRANSFAC file;
-"""
+ """Store the information in a TRANSFAC matrix table.
+
+ The record inherits from a list containing the individual motifs.
+
+ Attributes:
+ - version - The version number, corresponding to the 'VV' field
+ in the TRANSFAC file;
+
+ """
+
def __init__(self):
self.version = None
@@ -83,41 +89,82 @@ Attributes:
def read(handle):
- """record = read(handle)"""
+ """Record = read(handle)"""
annotations = {}
references = []
counts = None
record = Record()
for line in handle:
line = line.strip()
- key, value = line[:2], line[4:]
+ if not line:
+ continue
+ key_value = line.split(None, 1)
+ key = key_value[0].strip()
+ assert len(key) == 2, 'The key value of a TRANSFAC motif line should have 2 characters: "{0:s}"'.format(line)
+ if len(key_value) == 2:
+ value = key_value[1].strip()
+ if not line.partition(' ')[1]:
+ warnings.warn(
+ 'A TRANSFAC motif line should have 2 spaces between key and value columns: "{0:s}"'.format(line),
+ BiopythonParserWarning
+ )
if key == 'VV':
record.version = value
elif key in ('P0', 'PO'): # Old TRANSFAC files use PO instead of P0
counts = {}
- assert value.split()[:4] == ['A', 'C', 'G', 'T']
+ assert value.split()[:4] == ['A', 'C', 'G', 'T'], \
+ 'A TRANSFAC matrix "{0:s}" line should be followed by "A C G T": "{0:s}"'.format(key, line)
length = 0
for c in "ACGT":
counts[c] = []
for line in handle:
- key, value = line[:2], line[4:]
+ line = line.strip()
+ key_value = line.split(None, 1)
+ key = key_value[0].strip()
+ if len(key_value) == 2:
+ value = key_value[1].strip()
+ if not line.partition(' ')[1]:
+ warnings.warn(
+ 'A TRANSFAC motif line should have 2 spaces between key and value columns: "{0:s}"'.format(
+ line),
+ BiopythonParserWarning)
try:
i = int(key)
except ValueError:
break
- length += 1
- assert i == length
- values = value.split()
+ if length == 0 and i == 0:
+ warnings.warn(
+ 'A TRANSFAC matrix should start with "01" as first row of the matrix, '
+ 'but this matrix uses "00": "{0:s}"'.format(line),
+ BiopythonParserWarning)
+ else:
+ length += 1
+ assert i == length, \
+ 'The TRANSFAC matrix row number does not match the position in the matrix: "{0:s}"'.format(line)
+ if len(key) == 1:
+ warnings.warn(
+ 'A TRANSFAC matrix line should have a 2 digit key at the start of the lin ("{0:02d}"), '
+ 'but this matrix uses "{0:d}": "{1:s}".'.format(i, line),
+ BiopythonParserWarning)
+ assert len(key_value) == 2, 'A TRANSFAC matrix line should have a key and a value: "{0:s}"'.format(line)
+ values = value.split()[:4]
+ assert len(values) == 4, \
+ 'A TRANSFAC matrix line should have a value for each nucleotide (A, C, G and T): "{0:s}"'.format(
+ line)
for c, v in zip("ACGT", values):
counts[c].append(float(v))
if line == 'XX':
pass
elif key == 'RN':
index, separator, accession = value.partition(";")
- assert index[0] == '['
- assert index[-1] == ']'
+ assert index[0] == '[', \
+ 'The index "{0:s}" in a TRANSFAC RN line should start with a "[": "{0:s}"'.format(index, line)
+ assert index[-1] == ']', \
+ 'The index "{0:s}" in a TRANSFAC RN line should end with a "]": "{0:s}"'.format(index, line)
index = int(index[1:-1])
- assert len(references) == index - 1
+ assert len(references) == index - 1, \
+ 'The index "{0:d}" of the TRANSFAC RN line does not match the current number ' \
+ 'of seen references "{1:d}": "{2:s}"'.format(index, len(references) + 1, line)
reference = {key: value}
references.append(reference)
elif key == '//':
@@ -140,8 +187,7 @@ def read(handle):
def write(motifs):
- """Write the representation of a motif in TRANSFAC format
- """
+ """Write the representation of a motif in TRANSFAC format."""
blocks = []
try:
version = motifs.version
diff --git a/Bio/pairwise2.py b/Bio/pairwise2.py
index 6b0c692..5c73397 100644
--- a/Bio/pairwise2.py
+++ b/Bio/pairwise2.py
@@ -5,8 +5,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""This package implements pairwise sequence alignment using a dynamic
-programming algorithm.
+"""Pairwise sequence alignment using a dynamic programming algorithm.
This provides functions to get global and local alignments between two
sequences. A global alignment finds the best concordance between all
@@ -227,24 +226,44 @@ MAX_ALIGNMENTS = 1000 # maximum alignments recovered in traceback
class align(object):
- """This class provides functions that do alignments."""
+ """Provide functions that do alignments.
+
+ Alignment functions are called as:
+
+ pairwise2.align.globalXX
+
+ or
+
+ pairwise2.align.localXX
+
+ Where XX is a 2 character code indicating the match/mismatch parameters
+ (first character, either x, m, d or c) and the gap penalty parameters
+ (second character, either x, s, d, or c).
+
+ For a detailed description read the main module's docstring (e.g.,
+ type ``help(pairwise2)``).
+ To see a description of the parameters for a function, please
+ look at the docstring for the function, e.g. type
+ ``help(pairwise2.align.localds``) at the Python prompt.
+ """
class alignment_function(object):
- """This class is callable impersonates an alignment function.
+ """Callable class which impersonates an alignment function.
+
The constructor takes the name of the function. This class
will decode the name of the function to figure out how to
interpret the parameters.
-
"""
+
# match code -> tuple of (parameters, docstring)
match2args = {
'x': ([], ''),
'm': (['match', 'mismatch'],
- "match is the score to given to identical characters. "
+ "match is the score to given to identical characters.\n"
"mismatch is the score given to non-identical ones."),
'd': (['match_dict'],
- "match_dict is a dictionary where the keys are tuples "
- "of pairs of characters and the values are the scores, "
+ "match_dict is a dictionary where the keys are tuples\n"
+ "of pairs of characters and the values are the scores,\n"
"e.g. ('A', 'C') : 2.5."),
'c': (['match_fn'],
"match_fn is a callback function that takes two "
@@ -254,21 +273,20 @@ class align(object):
penalty2args = {
'x': ([], ''),
's': (['open', 'extend'],
- "open and extend are the gap penalties when a gap is "
+ "open and extend are the gap penalties when a gap is\n"
"opened and extended. They should be negative."),
'd': (['openA', 'extendA', 'openB', 'extendB'],
- "openA and extendA are the gap penalties for sequenceA, "
- "and openB and extendB for sequeneB. The penalties "
+ "openA and extendA are the gap penalties for sequenceA,\n"
+ "and openB and extendB for sequenceB. The penalties\n"
"should be negative."),
'c': (['gap_A_fn', 'gap_B_fn'],
- "gap_A_fn and gap_B_fn are callback functions that takes "
- "(1) the index where the gap is opened, and (2) the length "
+ "gap_A_fn and gap_B_fn are callback functions that takes\n"
+ "(1) the index where the gap is opened, and (2) the length\n"
"of the gap. They should return a gap penalty."),
}
def __init__(self, name):
- # Check to make sure the name of the function is
- # reasonable.
+ """Check to make sure the name of the function is reasonable."""
if name.startswith("global"):
if len(name) != 8:
raise AttributeError("function should be globalXX")
@@ -314,9 +332,11 @@ alignment occurs.
self.__doc__ = doc
def decode(self, *args, **keywds):
- # Decode the arguments for the _align function. keywds
- # will get passed to it, so translate the arguments to
- # this function into forms appropriate for _align.
+ """Decode the arguments for the _align function.
+
+ keywds will get passed to it, so translate the arguments
+ to this function into forms appropriate for _align.
+ """
keywds = keywds.copy()
if len(args) != len(self.param_names):
raise TypeError("%s takes exactly %d argument (%d given)"
@@ -382,11 +402,24 @@ alignment occurs.
return keywds
def __call__(self, *args, **keywds):
+ """Call the alignment instance already created."""
keywds = self.decode(*args, **keywds)
return _align(**keywds)
def __getattr__(self, attr):
- return self.alignment_function(attr)
+ """Call alignment_function() to check and decode the attributes."""
+ # The following 'magic' is needed to rewrite the class docstring
+ # dynamically:
+ wrapper = self.alignment_function(attr)
+ wrapper_type = type(wrapper)
+ wrapper_dict = wrapper_type.__dict__.copy()
+ wrapper_dict['__doc__'] = wrapper.__doc__
+ new_alignment_function = type('alignment_function', (object,),
+ wrapper_dict)
+
+ return new_alignment_function(attr)
+
+
align = align()
@@ -394,21 +427,25 @@ def _align(sequenceA, sequenceB, match_fn, gap_A_fn, gap_B_fn,
penalize_extend_when_opening, penalize_end_gaps,
align_globally, gap_char, force_generic, score_only,
one_alignment_only):
- """Return a list of alignments between two sequences or its score"""
+ """Return a list of alignments between two sequences or its score (PRIVATE)."""
if not sequenceA or not sequenceB:
return []
try:
sequenceA + gap_char
sequenceB + gap_char
except TypeError:
- raise TypeError('both sequences must be of the same type, either ' +
- 'string/sequence object or list. Gap character must ' +
+ raise TypeError('both sequences must be of the same type, either '
+ 'string/sequence object or list. Gap character must '
'fit the sequence type (string or list)')
if not isinstance(sequenceA, list):
sequenceA = str(sequenceA)
if not isinstance(sequenceB, list):
sequenceB = str(sequenceB)
+ if not align_globally and (penalize_end_gaps[0] or penalize_end_gaps[1]):
+ warnings.warn('"penalize_end_gaps" should not be used in local '
+ 'alignments. The resulting score may be wrong.',
+ BiopythonWarning)
if (not force_generic) and isinstance(gap_A_fn, affine_penalty) \
and isinstance(gap_B_fn, affine_penalty):
@@ -452,7 +489,7 @@ def _align(sequenceA, sequenceB, match_fn, gap_A_fn, gap_B_fn,
def _make_score_matrix_generic(sequenceA, sequenceB, match_fn, gap_A_fn,
gap_B_fn, penalize_end_gaps, align_globally,
score_only):
- """Generate a score and traceback matrix according to Needleman-Wunsch
+ """Generate a score and traceback matrix according to Needleman-Wunsch (PRIVATE).
This implementation allows the usage of general gap functions and is rather
slow. It is automatically called if you define your own gap functions. You
@@ -549,16 +586,17 @@ def _make_score_matrix_generic(sequenceA, sequenceB, match_fn, gap_A_fn,
def _make_score_matrix_fast(sequenceA, sequenceB, match_fn, open_A, extend_A,
open_B, extend_B, penalize_extend_when_opening,
penalize_end_gaps, align_globally, score_only):
- """Generate a score and traceback matrix according to Gotoh"""
- # This is an implementation of the Needleman-Wunsch dynamic programming
- # algorithm as modified by Gotoh, implementing affine gap penalties.
- # In short, we have three matrices, holding scores for alignments ending
- # in (1) a match/mismatch, (2) a gap in sequence A, and (3) a gap in
- # sequence B, respectively. However, we can combine them in one matrix,
- # which holds the best scores, and store only those values from the
- # other matrices that are actually used for the next step of calculation.
- # The traceback matrix holds the positions for backtracing the alignment.
-
+ """Generate a score and traceback matrix according to Gotoh (PRIVATE).
+
+ This is an implementation of the Needleman-Wunsch dynamic programming
+ algorithm as modified by Gotoh, implementing affine gap penalties.
+ In short, we have three matrices, holding scores for alignments ending
+ in (1) a match/mismatch, (2) a gap in sequence A, and (3) a gap in
+ sequence B, respectively. However, we can combine them in one matrix,
+ which holds the best scores, and store only those values from the
+ other matrices that are actually used for the next step of calculation.
+ The traceback matrix holds the positions for backtracing the alignment.
+ """
first_A_gap = calc_affine_penalty(1, open_A, extend_A,
penalize_extend_when_opening)
first_B_gap = calc_affine_penalty(1, open_B, extend_B,
@@ -677,10 +715,21 @@ def _make_score_matrix_fast(sequenceA, sequenceB, match_fn, open_A, extend_A,
def _recover_alignments(sequenceA, sequenceB, starts, score_matrix,
trace_matrix, align_globally, gap_char,
one_alignment_only, gap_A_fn, gap_B_fn):
- """Do the backtracing and return a list of alignments"""
- # Recover the alignments by following the traceback matrix. This
- # is a recursive procedure, but it's implemented here iteratively
- # with a stack.
+ """Do the backtracing and return a list of alignments (PRIVATE).
+
+ Recover the alignments by following the traceback matrix. This
+ is a recursive procedure, but it's implemented here iteratively
+ with a stack.
+
+ sequenceA and sequenceB may be sequences, including strings,
+ lists, or list-like objects. In order to preserve the type of
+ the object, we need to use slices on the sequences instead of
+ indexes. For example, sequenceA[row] may return a type that's
+ not compatible with sequenceA, e.g. if sequenceA is a list and
+ sequenceA[row] is a string. Thus, avoid using indexes and use
+ slices, e.g. sequenceA[row:row+1]. Assume that client-defined
+ sequence classes preserve these semantics.
+ """
lenA, lenB = len(sequenceA), len(sequenceB)
ali_seqA, ali_seqB = sequenceA[0:0], sequenceB[0:0]
tracebacks = []
@@ -744,19 +793,19 @@ def _recover_alignments(sequenceA, sequenceB, starts, score_matrix,
else:
col -= 1
ali_seqA += gap_char
- ali_seqB += sequenceB[col]
+ ali_seqB += sequenceB[col:col + 1]
col_gap = False
elif trace % 4 == 2: # = match/mismatch of seqA with seqB
trace -= 2
row -= 1
col -= 1
- ali_seqA += sequenceA[row]
- ali_seqB += sequenceB[col]
+ ali_seqA += sequenceA[row:row + 1]
+ ali_seqB += sequenceB[col:col + 1]
col_gap = False
elif trace % 8 == 4: # = col open = open gap in seqB
trace -= 4
row -= 1
- ali_seqA += sequenceA[row]
+ ali_seqA += sequenceA[row:row + 1]
ali_seqB += gap_char
col_gap = True
elif trace in (8, 24): # = row extend = extend gap in seqA
@@ -796,7 +845,7 @@ def _recover_alignments(sequenceA, sequenceB, starts, score_matrix,
def _find_start(score_matrix, align_globally):
- """Return a list of starting points (score, (row, col)).
+ """Return a list of starting points (score, (row, col)) (PRIVATE).
Indicating every possible place to start the tracebacks.
"""
@@ -815,9 +864,11 @@ def _find_start(score_matrix, align_globally):
def _clean_alignments(alignments):
- """Take a list of alignments and return a cleaned version."""
- # Remove duplicates, make sure begin and end are set correctly, remove
- # empty alignments.
+ """Take a list of alignments and return a cleaned version (PRIVATE).
+
+ Remove duplicates, make sure begin and end are set correctly, remove
+ empty alignments.
+ """
unique_alignments = []
for align in alignments:
if align not in unique_alignments:
@@ -841,7 +892,7 @@ def _clean_alignments(alignments):
def _finish_backtrace(sequenceA, sequenceB, ali_seqA, ali_seqB, row, col,
gap_char):
- """Add remaining sequences and fill with gaps if neccessary"""
+ """Add remaining sequences and fill with gaps if neccessary (PRIVATE)."""
if row:
ali_seqA += sequenceA[row - 1::-1]
if col:
@@ -856,17 +907,17 @@ def _finish_backtrace(sequenceA, sequenceB, ali_seqA, ali_seqB, row, col,
def _find_gap_open(sequenceA, sequenceB, ali_seqA, ali_seqB, end, row, col,
col_gap, gap_char, score_matrix, trace_matrix, in_process,
gap_fn, target, index, direction):
- """Find the starting point(s) of the extended gap"""
+ """Find the starting point(s) of the extended gap (PRIVATE)."""
dead_end = False
target_score = score_matrix[row][col]
for n in range(target):
if direction == 'col':
col -= 1
ali_seqA += gap_char
- ali_seqB += sequenceB[col]
+ ali_seqB += sequenceB[col:col + 1]
else:
row -= 1
- ali_seqA += sequenceA[row]
+ ali_seqA += sequenceA[row:row + 1]
ali_seqB += gap_char
actual_score = score_matrix[row][col] + gap_fn(index, n + 1)
if rint(actual_score) == rint(target_score) and n > 0:
@@ -884,41 +935,46 @@ _PRECISION = 1000
def rint(x, precision=_PRECISION):
+ """Print number with declared precision."""
return int(x * precision + 0.5)
class identity_match(object):
- """identity_match([match][, mismatch]) -> match_fn
+ """Create a match function for use in an alignment.
- Create a match function for use in an alignment. match and
- mismatch are the scores to give when two residues are equal or
- unequal. By default, match is 1 and mismatch is 0.
+ match and mismatch are the scores to give when two residues are equal
+ or unequal. By default, match is 1 and mismatch is 0.
"""
+
def __init__(self, match=1, mismatch=0):
+ """Initialize the class."""
self.match = match
self.mismatch = mismatch
def __call__(self, charA, charB):
+ """Call a match function instance already created."""
if charA == charB:
return self.match
return self.mismatch
class dictionary_match(object):
- """dictionary_match(score_dict[, symmetric]) -> match_fn
-
- Create a match function for use in an alignment. score_dict is a
- dictionary where the keys are tuples (residue 1, residue 2) and
- the values are the match scores between those residues. symmetric
- is a flag that indicates whether the scores are symmetric. If
- true, then if (res 1, res 2) doesn't exist, I will use the score
- at (res 2, res 1).
+ """Create a match function for use in an alignment.
+
+ Attributes:
+ - score_dict - A dictionary where the keys are tuples (residue 1,
+ residue 2) and the values are the match scores between those residues.
+ - symmetric - A flag that indicates whether the scores are symmetric.
+
"""
+
def __init__(self, score_dict, symmetric=1):
+ """Initialize the class."""
self.score_dict = score_dict
self.symmetric = symmetric
def __call__(self, charA, charB):
+ """Call a dictionary match instance already created."""
if self.symmetric and (charA, charB) not in self.score_dict:
# If the score dictionary is symmetric, then look up the
# score both ways.
@@ -927,11 +983,10 @@ class dictionary_match(object):
class affine_penalty(object):
- """affine_penalty(open, extend[, penalize_extend_when_opening]) -> gap_fn
+ """Create a gap function for use in an alignment."""
- Create a gap function for use in an alignment.
- """
def __init__(self, open, extend, penalize_extend_when_opening=0):
+ """Initialize the class."""
if open > 0 or extend > 0:
raise ValueError("Gap penalties should be non-positive.")
if not penalize_extend_when_opening and (extend < open):
@@ -941,11 +996,13 @@ class affine_penalty(object):
self.penalize_extend_when_opening = penalize_extend_when_opening
def __call__(self, index, length):
+ """Call a gap function instance already created."""
return calc_affine_penalty(
length, self.open, self.extend, self.penalize_extend_when_opening)
def calc_affine_penalty(length, open, extend, penalize_extend_when_opening):
+ """Calculate a penality score for the gap function."""
if length <= 0:
return 0
penalty = open + extend * length
@@ -955,10 +1012,7 @@ def calc_affine_penalty(length, open, extend, penalize_extend_when_opening):
def print_matrix(matrix):
- """print_matrix(matrix)
-
- Print out a matrix. For debugging purposes.
- """
+ """Print out a matrix for debugging purposes."""
# Transpose the matrix and get the length of the values in each column.
matrixT = [[] for x in range(len(matrix[0]))]
for i in range(len(matrix)):
@@ -972,10 +1026,7 @@ def print_matrix(matrix):
def format_alignment(align1, align2, score, begin, end):
- """format_alignment(align1, align2, score, begin, end) -> string
-
- Format the alignment prettily into a string.
- """
+ """Format the alignment prettily into a string."""
s = []
s.append("%s\n" % align1)
s.append("%s%s\n" % (" " * begin, "|" * (end - begin)))
@@ -986,8 +1037,10 @@ def format_alignment(align1, align2, score, begin, end):
# Try and load C implementations of functions. If I can't,
# then throw a warning and use the pure Python implementations.
+# The redefinition is deliberate, thus the no quality assurance
+# flag for when using flake8:
try:
- from .cpairwise2 import rint, _make_score_matrix_fast
+ from .cpairwise2 import rint, _make_score_matrix_fast # noqa
except ImportError:
warnings.warn('Import of C module failed. Falling back to pure Python ' +
'implementation. This may be slooow...', BiopythonWarning)
diff --git a/Bio/phenotype/__init__.py b/Bio/phenotype/__init__.py
index f3ed9de..03f25a5 100644
--- a/Bio/phenotype/__init__.py
+++ b/Bio/phenotype/__init__.py
@@ -95,7 +95,6 @@ from . import phen_micro
import warnings
-__docformat__ = "epytext en" # not just plaintext
warnings.warn('Bio.phenotype is an experimental submodule which may undergo '
'significant changes prior to its future official release.',
diff --git a/Bio/phenotype/phen_micro.py b/Bio/phenotype/phen_micro.py
index 864a615..e610e6f 100644
--- a/Bio/phenotype/phen_micro.py
+++ b/Bio/phenotype/phen_micro.py
@@ -2,19 +2,17 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""This module provides classes to work with Phenotype Microarray data.
+"""Classes to work with Phenotype Microarray data.
More information on the single plates can be found here: http://www.biolog.com/
Classes:
-
- PlateRecord - Object that contain time course data on each well of the
plate, as well as metadata (if any).
- WellRecord - Object that contains the time course data of a single well
- JsonWriter - Writer of PlateRecord objects in JSON format.
Functions:
-
- JsonIterator - Incremental PM JSON parser, this is an iterator that returns
PlateRecord objects.
- CsvIterator - Incremental PM CSV parser, this is an iterator that returns
@@ -248,7 +246,6 @@ class PlateRecord(object):
This should all seem familiar to anyone who has used the NumPy
array or matrix objects.
"""
-
# Well identifier access
if isinstance(index, basestring):
try:
@@ -626,9 +623,7 @@ class WellRecord(object):
self._signals = signals
def _interpolate(self, time):
- """Private method to get a linear interpolation of the signals
- at certain time points.
- """
+ """Linear interpolation of the signals at certain time points (PRIVATE)."""
times = sorted(self._signals.keys())
return np.interp(time,
@@ -637,8 +632,7 @@ class WellRecord(object):
left=np.nan, right=np.nan)
def __setitem__(self, time, signal):
- """Assign a signal at a certain time point.
- """
+ """Assign a signal at a certain time point."""
try:
time = float(time)
except ValueError:
@@ -651,8 +645,7 @@ class WellRecord(object):
self._signals[time] = signal
def __getitem__(self, time):
- """Returns a subset of signals or a single signal.
- """
+ """Returns a subset of signals or a single signal."""
if isinstance(time, slice):
# Fix the missing values in the slice
if time.start is None:
@@ -800,9 +793,9 @@ class WellRecord(object):
calculated.
By default the following fitting functions will be used in order:
- * gompertz
- * logistic
- * richards
+ - gompertz
+ - logistic
+ - richards
The first function that is succesfuly fitted to the signals will
be used to extract the curve parameters and update ``.area`` and
@@ -858,7 +851,9 @@ def JsonIterator(handle):
"""Generator function to iterate over PM json records (as PlateRecord
objects).
- handle - input file
+ Arguments:
+ - handle - input file
+
"""
try:
data = json.load(handle)
@@ -936,7 +931,9 @@ def CsvIterator(handle):
"""Generator function to iterate over PM csv records (as PlateRecord
objects).
- handle - input file
+ Arguments:
+ - handle - input file
+
"""
plate = None
data = False
diff --git a/Bio/phenotype/pm_fitting.py b/Bio/phenotype/pm_fitting.py
index 3a2aa1e..e51707f 100644
--- a/Bio/phenotype/pm_fitting.py
+++ b/Bio/phenotype/pm_fitting.py
@@ -15,7 +15,8 @@ richards Richards growth model.
guess_plateau Guess the plateau point to improve sigmoid fitting.
guess_lag Guess the lag point to improve sigmoid fitting.
fit Sigmoid functions fit.
-get_area Calculate the area under the PM curve."""
+get_area Calculate the area under the PM curve.
+"""
import numpy as np
@@ -119,7 +120,8 @@ def guess_plateau(x, y):
def fit(function, x, y):
"""Fit the provided functrion to the x and y values.
- The function parameters and the parameters covariance."""
+ The function parameters and the parameters covariance.
+ """
# Compute guesses for the parameters
# This is necessary to get significant fits
p0 = [guess_plateau(x, y), 4.0, guess_lag(x, y), 0.1, min(y)]
diff --git a/Bio/trie.c b/Bio/trie.c
index 4c24922..802ee35 100644
--- a/Bio/trie.c
+++ b/Bio/trie.c
@@ -147,7 +147,7 @@ int Trie_set(Trie* trie, const char *key, const void *value) {
else {
/* Count the number of characters shared between key
and suffix. */
- int chars_shared = 0;
+ unsigned int chars_shared = 0;
while(key[chars_shared] && key[chars_shared] == suffix[chars_shared])
chars_shared++;
@@ -266,14 +266,14 @@ _print_trie(const Trie* trie) {
/* Mutually recursive, so need to make a forward declaration. */
static void
-_get_approximate_trie(const Trie* trie, const char *key, const int k,
+_get_approximate_trie(const Trie* trie, const char *key, const unsigned int k,
void (*callback)(const char *key,
const void *value,
const int mismatches,
void *data),
void *data,
const int mismatches,
- char *current_key, const int max_key
+ char *current_key, const unsigned int max_key
);
static void
@@ -354,14 +354,14 @@ _get_approximate_transition(const char *key,
}
static void
-_get_approximate_trie(const Trie* trie, const char *key, const int k,
+_get_approximate_trie(const Trie* trie, const char *key, const unsigned int k,
void (*callback)(const char *key,
const void *value,
const int mismatches,
void *data),
void *data,
const int mismatches,
- char *current_key, const int max_key
+ char *current_key, const unsigned int max_key
)
{
int i;
@@ -376,9 +376,9 @@ _get_approximate_trie(const Trie* trie, const char *key, const int k,
else if(!k) {
void *value = Trie_get(trie, key);
if(value) {
- int l = strlen(current_key);
+ unsigned int l = strlen(current_key);
/* Make sure I have enough space for the full key. */
- if(l + strlen(key) < max_key) {
+ if(l + strlen(key) < max_key) {
strcat(current_key, key);
(*callback)(current_key, value, mismatches, data);
current_key[l] = 0;
@@ -388,7 +388,7 @@ _get_approximate_trie(const Trie* trie, const char *key, const int k,
}
}
/* If there are no more transitions, then all the characters left
- in the key are mismatches. */
+ in the key are mismatches. */
else if(!trie->num_transitions) {
if(trie->value && (strlen(key) <= k)) {
(*callback)(current_key, trie->value,
@@ -491,7 +491,7 @@ _iterate_helper(const Trie* trie,
for(i=0; i<trie->num_transitions; i++) {
Transition* transition = &trie->transitions[i];
const char *suffix = transition->suffix;
- int keylen = strlen(current_key);
+ unsigned int keylen = strlen(current_key);
if(keylen + strlen(suffix) >= max_key) {
/* BUG: This will fail silently. It should raise some
diff --git a/Bio/triefind.py b/Bio/triefind.py
index e0c1019..796889d 100644
--- a/Bio/triefind.py
+++ b/Bio/triefind.py
@@ -3,8 +3,7 @@
# as part of this package.
#
-"""
-Given a trie, find all occurrences of a word in the trie in a string.
+"""Given a trie, find all occurrences of a word in the trie in a string.
Like searching a string for a substring, except that the substring is
any word in a trie.
@@ -14,7 +13,6 @@ match Find longest key in a trie matching the beginning of the string.
match_all Find all keys in a trie matching the beginning of the string.
find Find keys in a trie matching anywhere in a string.
find_words Find keys in a trie matching whole words in a string.
-
"""
import string
@@ -71,6 +69,7 @@ def find(string, trie):
start += 1
return results
+
DEFAULT_BOUNDARY_CHARS = string.punctuation + string.whitespace
diff --git a/Bio/triemodule.c b/Bio/triemodule.c
index ca64700..6ebaf9d 100644
--- a/Bio/triemodule.c
+++ b/Bio/triemodule.c
@@ -691,6 +691,12 @@ _read_from_handle(void *wasread, const int length, void *handle)
}
py_retval = PyObject_CallMethod(py_handle, "read", "i", length);
+ if (!py_retval)
+ {
+ PyErr_SetString(PyExc_RuntimeError, "Failed to read from file. "
+ "Verify that you did not open a binary file ('rb') in text mode ('r') or vice versa.");
+ goto error;
+ }
#ifdef IS_PY3K
if(!PyBytes_Check(py_retval)) {
#else
diff --git a/BioSQL/.flake8 b/BioSQL/.flake8
new file mode 100644
index 0000000..812bdc0
--- /dev/null
+++ b/BioSQL/.flake8
@@ -0,0 +1,15 @@
+[flake8]
+# Would like to enable this in future...
+# doctests = True
+max-line-length = 92
+ignore =
+ # =====================================
+ # pydocstyle: D### - Missing Docstrings
+ # =====================================
+ # D100 Missing docstring in public module
+ # D101 Missing docstring in public class
+ # D102 Missing docstring in public method
+ # D103 Missing docstring in public function
+ # D104 Missing docstring in public package
+ # D105 Missing docstring in magic method
+ D101,D102,D103,D105
diff --git a/BioSQL/BioSeq.py b/BioSQL/BioSeq.py
index 16b4340..7aed220 100644
--- a/BioSQL/BioSeq.py
+++ b/BioSQL/BioSeq.py
@@ -40,9 +40,11 @@ class DBSeq(Seq):
self.start = start
def __len__(self):
+ """Return the length of the sequence."""
return self._length
def __getitem__(self, index): # Seq API requirement
+ """Return a subsequence or single letter."""
# Note since Python 2.0, __getslice__ is deprecated
# and __getitem__ is used instead.
# See http://docs.python.org/ref/sequence-methods.html
@@ -59,7 +61,7 @@ class DBSeq(Seq):
self.start + i,
self.start + i + 1)
if not isinstance(index, slice):
- raise ValueError("Unexpected index type")
+ raise TypeError("Unexpected index type")
# Return the (sub)sequence as another DBSeq or Seq object
# (see the Seq obect's __getitem__ method)
@@ -103,10 +105,11 @@ class DBSeq(Seq):
return Seq(full[::index.step], self.alphabet)
def tostring(self):
- """Returns the full sequence as a python string (DEPRECATED).
+ """Return the full sequence as a python string (DEPRECATED).
You are now encouraged to use str(my_seq) instead of
- my_seq.tostring()."""
+ my_seq.tostring().
+ """
import warnings
warnings.warn("This method is obsolete; please use str(my_seq) "
"instead of my_seq.tostring().",
@@ -116,7 +119,7 @@ class DBSeq(Seq):
self.start + self._length)
def __str__(self):
- """Returns the full sequence as a python string."""
+ """Return the full sequence as a python string."""
return self.adaptor.get_subseq_as_string(self.primary_id,
self.start,
self.start + self._length)
@@ -124,15 +127,25 @@ class DBSeq(Seq):
data = property(tostring, doc="Sequence as string (DEPRECATED)")
def toseq(self):
- """Returns the full sequence as a Seq object."""
+ """Return the full sequence as a Seq object."""
# Note - the method name copies that of the MutableSeq object
return Seq(str(self), self.alphabet)
def __add__(self, other):
+ """Add another sequence or string to this sequence.
+
+ The sequence is first converted to a Seq object before the addition.
+ The returned object is a Seq object, not a DBSeq object
+ """
# Let the Seq object deal with the alphabet issues etc
return self.toseq() + other
def __radd__(self, other):
+ """Add another sequence or string to the left.
+
+ The sequence is first converted to a Seq object before the addition.
+ The returned object is a Seq object, not a DBSeq object
+ """
# Let the Seq object deal with the alphabet issues etc
return other + self.toseq()
@@ -267,12 +280,19 @@ def _retrieve_features(adaptor, primary_id):
if strand not in (+1, -1, None):
raise ValueError("Invalid strand %s found in database for "
"seqfeature_id %s" % (strand, seqfeature_id))
- if end < start:
+ if start is not None and end is not None and end < start:
import warnings
from Bio import BiopythonWarning
warnings.warn("Inverted location start/end (%i and %i) for "
"seqfeature_id %s" % (start, end, seqfeature_id),
BiopythonWarning)
+
+ # For SwissProt unknown positions (?)
+ if start is None:
+ start = SeqFeature.UnknownPosition()
+ if end is None:
+ end = SeqFeature.UnknownPosition()
+
locations.append((location_id, start, end, strand))
# Get possible remote reference information
remote_results = adaptor.execute_and_fetchall(
@@ -464,11 +484,8 @@ def _retrieve_taxon(adaptor, primary_id, taxon_id):
# load_ncbi_taxonomy.pl this is how top parent nodes are stored.
# Personally, I would have used a NULL parent_taxon_id here.
break
- if rank != "no rank":
- # For consistency with older versions of Biopython, we are only
- # interested in taxonomy entries with a stated rank.
- # Add this to the start of the lineage list.
- taxonomy.insert(0, name)
+
+ taxonomy.insert(0, name)
taxon_id = parent_taxon_id
if taxonomy:
@@ -493,6 +510,15 @@ class DBSeqRecord(SeqRecord):
"""BioSQL equivalent of the Biopython SeqRecord object."""
def __init__(self, adaptor, primary_id):
+ """Create a DBSeqRecord object.
+
+ Arguments:
+ - adaptor - A BioSQL.BioSeqDatabase.Adaptor object
+ - primary_id - An internal integer ID used by BioSQL
+
+ You wouldn't normally create a DBSeqRecord object yourself,
+ this is done for you when using a BioSeqDatabase object
+ """
self._adaptor = adaptor
self._primary_id = primary_id
diff --git a/BioSQL/BioSeqDatabase.py b/BioSQL/BioSeqDatabase.py
index 45a3260..40ed70e 100644
--- a/BioSQL/BioSeqDatabase.py
+++ b/BioSQL/BioSeqDatabase.py
@@ -29,7 +29,7 @@ _POSTGRES_RULES_PRESENT = False # Hack for BioSQL Bug 2839
def open_database(driver="MySQLdb", **kwargs):
- """Main interface for loading a existing BioSQL-style database.
+ """Load an existing BioSQL-style database.
This function is the easiest way to retrieve a connection to a
database, doing something like:
@@ -45,6 +45,7 @@ def open_database(driver="MySQLdb", **kwargs):
- password, passwd - the password to connect with
- host - the hostname of the database
- database or db - the name of the database
+
"""
if driver == "psycopg":
raise ValueError("Using BioSQL with psycopg (version one) is no "
@@ -141,6 +142,16 @@ class DBServer(object):
"""
def __init__(self, conn, module, module_name=None):
+ """Create a DBServer object.
+
+ Arguments:
+ - conn - A database connection object
+ - module - The module used to create the database connection
+ - module_name - Optionally, the name of the module. Default: module.__name__
+
+ Normally you would not want to create a DBServer object yourself.
+ Instead use the open_database function, which returns an instance of DBServer.
+ """
self.module = module
if module_name is None:
module_name = module.__name__
@@ -155,13 +166,20 @@ class DBServer(object):
self.module_name = module_name
def __repr__(self):
+ """Return a short description of the class name and database connection."""
return self.__class__.__name__ + "(%r)" % self.adaptor.conn
def __getitem__(self, name):
+ """Return a BioSeqDatabase object.
+
+ Arguments:
+ - name - The name of the BioSeqDatabase
+
+ """
return BioSeqDatabase(self.adaptor, name)
def __len__(self):
- """Number of namespaces (sub-databases) in this database."""
+ """Return number of namespaces (sub-databases) in this database."""
sql = "SELECT COUNT(name) FROM biodatabase;"
return int(self.adaptor.execute_and_fetch_col0(sql)[0])
@@ -229,13 +247,14 @@ class DBServer(object):
def remove_database(self, db_name):
"""Remove a namespace and all its entries (OBSOLETE).
- Try to remove all references to items in a database.
+ Try to remove all references to items in a database:
- server.remove_database(name)
+ >>> server.remove_database(name)
In keeping with the dictionary interface, you can now do this:
- del server[name]
+ >>> del server[name]
+
"""
import warnings
warnings.warn("This method is deprecated. In keeping with the "
@@ -244,8 +263,7 @@ class DBServer(object):
self.__delitem__(db_name)
def new_database(self, db_name, authority=None, description=None):
- """Add a new database to the server and return it.
- """
+ """Add a new database to the server and return it."""
# make the database
sql = r"INSERT INTO biodatabase (name, authority, description)" \
r" VALUES (%s, %s, %s)"
@@ -292,11 +310,11 @@ class DBServer(object):
(self.module_name))
def commit(self):
- """Commits the current transaction to the database."""
+ """Commit the current transaction to the database."""
return self.adaptor.commit()
def rollback(self):
- """Rolls backs the current transaction."""
+ """Roll-back the current transaction."""
return self.adaptor.rollback()
def close(self):
@@ -311,18 +329,15 @@ class _CursorWrapper(object):
self.real_cursor = real_cursor
def execute(self, operation, params=None, multi=False):
- """Execute a sql statement
- """
+ """Execute a sql statement."""
self.real_cursor.execute(operation, params, multi)
def executemany(self, operation, params):
- """Execute many sql statements
- """
+ """Execute many sql statements."""
self.real_cursor.executemany(operation, params)
def _convert_tuple(self, tuple_):
- """Decode any bytestrings present in the row
- """
+ """Decode any bytestrings present in the row."""
tuple_list = list(tuple_)
for i, elem in enumerate(tuple_list):
if type(elem) is bytes:
@@ -346,7 +361,7 @@ class _CursorWrapper(object):
class Adaptor(object):
- """High level wrapper for a database connection and cursor
+ """High level wrapper for a database connection and cursor.
Most database calls in BioSQL are done indirectly though this adaptor
class. This provides helper methods for fetching data and executing
@@ -354,6 +369,14 @@ class Adaptor(object):
"""
def __init__(self, conn, dbutils, wrap_cursor=False):
+ """Create an Adaptor object.
+
+ Arguments:
+ - conn - A database connection
+ - dbutils - A BioSQL.DBUtils object
+ - wrap_cursor - Optional, whether to wrap the cursor object
+
+ """
self.conn = conn
if wrap_cursor:
self.cursor = _CursorWrapper(conn.cursor())
@@ -362,6 +385,7 @@ class Adaptor(object):
self.dbutils = dbutils
def last_id(self, table):
+ """Return the last row id for the selected table."""
return self.dbutils.last_id(self.cursor, table)
def autocommit(self, y=True):
@@ -369,11 +393,11 @@ class Adaptor(object):
return self.dbutils.autocommit(self.conn, y)
def commit(self):
- """Commits the current transaction."""
+ """Commit the current transaction."""
return self.conn.commit()
def rollback(self):
- """Rolls backs the current transaction."""
+ """Roll-back the current transaction."""
return self.conn.rollback()
def close(self):
@@ -381,6 +405,7 @@ class Adaptor(object):
return self.conn.close()
def fetch_dbid_by_dbname(self, dbname):
+ """Return the internal id for the sub-database using its name."""
self.execute(
r"select biodatabase_id from biodatabase where name = %s",
(dbname,))
@@ -390,6 +415,14 @@ class Adaptor(object):
return rv[0][0]
def fetch_seqid_by_display_id(self, dbid, name):
+ """Return the internal id for a sequence using its display id.
+
+ Arguments:
+ - dbid - the internal id for the sub-database
+ - name - the name of the sequence. Corresponds to the
+ name column of the bioentry table of the SQL schema
+
+ """
sql = r"select bioentry_id from bioentry where name = %s"
fields = [name]
if dbid:
@@ -404,6 +437,14 @@ class Adaptor(object):
return rv[0][0]
def fetch_seqid_by_accession(self, dbid, name):
+ """Return the internal id for a sequence using its accession.
+
+ Arguments:
+ - dbid - the internal id for the sub-database
+ - name - the accession of the sequence. Corresponds to the
+ accession column of the bioentry table of the SQL schema
+
+ """
sql = r"select bioentry_id from bioentry where accession = %s"
fields = [name]
if dbid:
@@ -418,6 +459,14 @@ class Adaptor(object):
return rv[0][0]
def fetch_seqids_by_accession(self, dbid, name):
+ """Return a list internal ids using an accession.
+
+ Arguments:
+ - dbid - the internal id for the sub-database
+ - name - the accession of the sequence. Corresponds to the
+ accession column of the bioentry table of the SQL schema
+
+ """
sql = r"select bioentry_id from bioentry where accession = %s"
fields = [name]
if dbid:
@@ -426,6 +475,14 @@ class Adaptor(object):
return self.execute_and_fetch_col0(sql, fields)
def fetch_seqid_by_version(self, dbid, name):
+ """Return the internal id for a sequence using its accession and version.
+
+ Arguments:
+ - dbid - the internal id for the sub-database
+ - name - the accession of the sequence containing a version number.
+ Must correspond to <accession>.<version>
+
+ """
acc_version = name.split(".")
if len(acc_version) > 2:
raise IndexError("Bad version %r" % name)
@@ -449,6 +506,14 @@ class Adaptor(object):
return rv[0][0]
def fetch_seqid_by_identifier(self, dbid, identifier):
+ """Return the internal id for a sequence using its identifier.
+
+ Arguments:
+ - dbid - the internal id for the sub-database
+ - identifier - the identifier of the sequence. Corresponds to
+ the identifier column of the bioentry table in the SQL schema.
+
+ """
# YB: was fetch_seqid_by_seqid
sql = "SELECT bioentry_id FROM bioentry WHERE identifier = %s"
fields = [identifier]
@@ -462,15 +527,28 @@ class Adaptor(object):
return rv[0][0]
def list_biodatabase_names(self):
+ """Return a list of all of the sub-databases."""
return self.execute_and_fetch_col0(
"SELECT name FROM biodatabase")
def list_bioentry_ids(self, dbid):
+ """Return a list of internal ids for all of the sequences in a sub-databae.
+
+ Arguments:
+ - dbid - The internal id for a sub-database
+
+ """
return self.execute_and_fetch_col0(
"SELECT bioentry_id FROM bioentry WHERE biodatabase_id = %s",
(dbid,))
def list_bioentry_display_ids(self, dbid):
+ """Return a list of all sequence names in a sub-databae.
+
+ Arguments:
+ - dbid - The internal id for a sub-database
+
+ """
return self.execute_and_fetch_col0(
"SELECT name FROM bioentry WHERE biodatabase_id = %s",
(dbid,))
@@ -485,27 +563,33 @@ class Adaptor(object):
return self.execute_and_fetch_col0(sql, args)
def execute_one(self, sql, args=None):
- """Execute sql that returns 1 record, and return the record"""
+ """Execute sql that returns 1 record, and return the record."""
self.execute(sql, args or ())
rv = self.cursor.fetchall()
assert len(rv) == 1, "Expected 1 response, got %d" % len(rv)
return rv[0]
def execute(self, sql, args=None):
- """Just execute an sql command.
- """
+ """Just execute an sql command."""
if os.name == "java":
sql = sql.replace("%s", "?")
self.dbutils.execute(self.cursor, sql, args)
def executemany(self, sql, args):
- """Execute many sql commands.
- """
+ """Execute many sql commands."""
if os.name == "java":
sql = sql.replace("%s", "?")
self.dbutils.executemany(self.cursor, sql, args)
def get_subseq_as_string(self, seqid, start, end):
+ """Return a substring of a sequence.
+
+ Arguments:
+ - seqid - The internal id for the sequence
+ - start - The start position of the sequence; 0-indexed
+ - end - The end position of the sequence
+
+ """
length = end - start
# XXX Check this on MySQL and PostgreSQL. substr should be general,
# does it need dbutils?
@@ -522,20 +606,18 @@ class Adaptor(object):
(start + 1, length, seqid))[0])
def execute_and_fetch_col0(self, sql, args=None):
- """Return a list of values from the first column in the row
- """
+ """Return a list of values from the first column in the row."""
self.execute(sql, args or ())
return [field[0] for field in self.cursor.fetchall()]
def execute_and_fetchall(self, sql, args=None):
- """Return a list of tuples of all rows
- """
+ """Return a list of tuples of all rows."""
self.execute(sql, args or ())
return self.cursor.fetchall()
class MysqlConnectorAdaptor(Adaptor):
- """A BioSQL Adaptor class with fixes for the MySQL interface
+ """A BioSQL Adaptor class with fixes for the MySQL interface.
BioSQL was failing due to returns of bytearray objects from
the mysql-connector-python database connector. This adaptor
@@ -544,23 +626,27 @@ class MysqlConnectorAdaptor(Adaptor):
response to backwards incompatible changes added to
mysql-connector-python in release 2.0.0 of the package.
"""
+
def execute_one(self, sql, args=None):
+ """Execute sql that returns 1 record, and return the record."""
out = super(MysqlConnectorAdaptor, self).execute_one(sql, args)
return tuple(bytearray_to_str(v) for v in out)
def execute_and_fetch_col0(self, sql, args=None):
+ """Return a list of values from the first column in the row."""
out = super(MysqlConnectorAdaptor, self).execute_and_fetch_col0(sql, args)
return [bytearray_to_str(column) for column in out]
def execute_and_fetchall(self, sql, args=None):
+ """Return a list of tuples of all rows."""
out = super(MysqlConnectorAdaptor, self).execute_and_fetchall(sql, args)
return [tuple(bytearray_to_str(v) for v in o) for o in out]
_interface_specific_adaptors = {
# If SQL interfaces require a specific adaptor, use this to map the adaptor
- "mysql.connector": MysqlConnectorAdaptor
- }
+ "mysql.connector": MysqlConnectorAdaptor,
+}
_allowed_lookups = {
# Lookup name / function name to get id, function to list all ids
@@ -581,15 +667,23 @@ class BioSeqDatabase(object):
"""
def __init__(self, adaptor, name):
+ """Create a BioDatabase object.
+
+ Arguments:
+ - adaptor - A BioSQL.Adaptor object
+ - name - The name of the sub-database (namespace)
+
+ """
self.adaptor = adaptor
self.name = name
self.dbid = self.adaptor.fetch_dbid_by_dbname(name)
def __repr__(self):
+ """Return a short summary of the BioSeqDatabase."""
return "BioSeqDatabase(%r, %r)" % (self.adaptor, self.name)
def get_Seq_by_id(self, name):
- """Gets a DBSeqRecord object by its name
+ """Get a DBSeqRecord object by its name.
Example: seq_rec = db.get_Seq_by_id('ROA1_HUMAN')
@@ -600,7 +694,7 @@ class BioSeqDatabase(object):
return BioSeq.DBSeqRecord(self.adaptor, seqid)
def get_Seq_by_acc(self, name):
- """Gets a DBSeqRecord object by accession number
+ """Get a DBSeqRecord object by accession number.
Example: seq_rec = db.get_Seq_by_acc('X77802')
@@ -611,7 +705,7 @@ class BioSeqDatabase(object):
return BioSeq.DBSeqRecord(self.adaptor, seqid)
def get_Seq_by_ver(self, name):
- """Gets a DBSeqRecord object by version number
+ """Get a DBSeqRecord object by version number.
Example: seq_rec = db.get_Seq_by_ver('X77802.1')
@@ -622,7 +716,7 @@ class BioSeqDatabase(object):
return BioSeq.DBSeqRecord(self.adaptor, seqid)
def get_Seqs_by_acc(self, name):
- """Gets a list of DBSeqRecord objects by accession number
+ """Get a list of DBSeqRecord objects by accession number.
Example: seq_recs = db.get_Seq_by_acc('X77802')
@@ -649,6 +743,12 @@ class BioSeqDatabase(object):
return list(self.keys())
def __getitem__(self, key):
+ """Return a DBSeqRecord for one of the sequences in the sub-database.
+
+ Arguments:
+ - key - The internal id for the sequence
+
+ """
record = BioSeq.DBSeqRecord(self.adaptor, key)
if record._biodatabase_id != self.dbid:
raise KeyError("Entry %r does exist, but not in current name space" % key)
@@ -665,7 +765,7 @@ class BioSeqDatabase(object):
self.adaptor.execute(sql, (self.dbid, key))
def __len__(self):
- """Number of records in this namespace (sub database)."""
+ """Return number of records in this namespace (sub database)."""
sql = "SELECT COUNT(bioentry_id) FROM bioentry " + \
"WHERE biodatabase_id=%s;"
return int(self.adaptor.execute_and_fetch_col0(sql, (self.dbid, ))[0])
@@ -732,6 +832,13 @@ class BioSeqDatabase(object):
yield key, self[key]
def lookup(self, **kwargs):
+ """Return a DBSeqRecord using an acceptable identifier.
+
+ Arguments:
+ - kwargs - A single key-value pair where the key is one
+ of primary_id, gi, display_id, name, accession, version
+
+ """
if len(kwargs) != 1:
raise TypeError("single key/value parameter expected")
k, v = list(kwargs.items())[0]
@@ -770,9 +877,10 @@ class BioSeqDatabase(object):
(via Bio.Entrez) to fetch a detailed taxonomy for each
SeqRecord.
- Example:
- from Bio import SeqIO
- count = db.load(SeqIO.parse(open(filename), format))
+ Example::
+
+ from Bio import SeqIO
+ count = db.load(SeqIO.parse(open(filename), format))
Returns the number of records loaded.
"""
diff --git a/BioSQL/DBUtils.py b/BioSQL/DBUtils.py
index 5e16a5d..586f4a2 100644
--- a/BioSQL/DBUtils.py
+++ b/BioSQL/DBUtils.py
@@ -8,6 +8,8 @@
#
# Note that BioSQL (including the database schema and scripts) is
# available and licensed separately. Please consult www.biosql.org
+"""Helper code for Biopython's BioSQL code (for internal use)."""
+
import os
@@ -18,15 +20,18 @@ class Generic_dbutils(object):
"""Default database utilities."""
def __init__(self):
+ """Create a Generic_dbutils object."""
pass
def tname(self, table):
+ """Return the name of the table."""
if table != 'biosequence':
return table
else:
return 'bioentry'
def last_id(self, cursor, table):
+ """Return the last used id for a table."""
# XXX: Unsafe without transactions isolation
table = self.tname(table)
sql = r"select max(%s_id) from %s" % (table, table)
@@ -35,16 +40,15 @@ class Generic_dbutils(object):
return rv[0]
def execute(self, cursor, sql, args=None):
- """Just execute an sql command.
- """
+ """Just execute an sql command."""
cursor.execute(sql, args or ())
def executemany(self, cursor, sql, seq):
- """Execute many sql commands
- """
+ """Execute many sql commands."""
cursor.executemany(sql, seq)
def autocommit(self, conn, y=1):
+ """Set autocommit on the database connection."""
# Let's hope it was not really needed
pass
@@ -53,17 +57,19 @@ class Sqlite_dbutils(Generic_dbutils):
"""Custom database utilities for SQLite."""
def _sub_placeholder(self, sql):
- """Format the argument placeholders for sqlite
- """
+ """Format the argument placeholders for sqlite."""
return sql.replace("%s", "?")
def execute(self, cursor, sql, args=None):
- """Execute SQL command, replacing %s with ? for variable substitution in sqlite3.
+ """Execute SQL command.
+
+ Replaces %s with ? for variable substitution in sqlite3.
"""
sql = self._sub_placeholder(sql)
cursor.execute(sql, args or ())
def executemany(self, cursor, sql, seq):
+ """Execute many sql statements."""
sql = self._sub_placeholder(sql)
cursor.executemany(sql, seq)
@@ -75,6 +81,7 @@ class Mysql_dbutils(Generic_dbutils):
"""Custom database utilities for MySQL."""
def last_id(self, cursor, table):
+ """Return the last used id for a table."""
if os.name == "java":
return Generic_dbutils.last_id(self, cursor, table)
try:
@@ -86,6 +93,7 @@ class Mysql_dbutils(Generic_dbutils):
# same fix also suggested by Eric Gibert:
return cursor.lastrowid
+
_dbutils["MySQLdb"] = Mysql_dbutils
@@ -111,6 +119,7 @@ class Psycopg2_dbutils(_PostgreSQL_dbutils):
"""Custom database utilities for Psycopg2 (PostgreSQL)."""
def autocommit(self, conn, y=True):
+ """Set autocommit on the database connection."""
if y:
if os.name == "java":
conn.autocommit = 1
@@ -122,6 +131,7 @@ class Psycopg2_dbutils(_PostgreSQL_dbutils):
else:
conn.set_isolation_level(1)
+
_dbutils["psycopg2"] = Psycopg2_dbutils
@@ -129,12 +139,15 @@ class Pgdb_dbutils(_PostgreSQL_dbutils):
"""Custom database utilities for Pgdb (aka PyGreSQL, for PostgreSQL)."""
def autocommit(self, conn, y=True):
+ """Set autocommit on the database connection. Currently not implemented."""
raise NotImplementedError("pgdb does not support this!")
+
_dbutils["pgdb"] = Pgdb_dbutils
def get_dbutils(module_name):
+ """Return the correct dbutils object for the database driver."""
try:
return _dbutils[module_name]()
except KeyError:
diff --git a/BioSQL/Loader.py b/BioSQL/Loader.py
index bec6cb9..f8586f9 100644
--- a/BioSQL/Loader.py
+++ b/BioSQL/Loader.py
@@ -30,6 +30,8 @@ from Bio._py3k import _is_int_or_long
from Bio._py3k import range
from Bio._py3k import basestring
+from Bio.SeqFeature import UnknownPosition
+
class DatabaseLoader(object):
"""Object used to load SeqRecord objects into a BioSQL database."""
@@ -51,6 +53,7 @@ class DatabaseLoader(object):
except KeyError:
db = server.new_database("test",
description="For testing GBrowse")
+
"""
self.adaptor = adaptor
self.dbid = dbid
@@ -72,7 +75,7 @@ class DatabaseLoader(object):
self._load_seqfeature(seq_feature, seq_feature_num, bioentry_id)
def _get_ontology_id(self, name, definition=None):
- """Returns the identifier for the named ontology (PRIVATE).
+ """Return identifier for the named ontology (PRIVATE).
This looks through the onotology table for a the given entry name.
If it is not found, a row is added for this ontology (using the
@@ -104,7 +107,6 @@ class DatabaseLoader(object):
The ontology_id should be used to disambiguate the term.
"""
-
# try to get the term id
sql = r"SELECT term_id FROM term " \
r"WHERE name = %s"
@@ -137,7 +139,8 @@ class DatabaseLoader(object):
def _get_taxon_id(self, record):
"""Get the taxon id for this record (PRIVATE).
- record - a SeqRecord object
+ Arguments:
+ - record - a SeqRecord object
This searches the taxon/taxon_name tables using the
NCBI taxon ID, scientific name and common name to find
@@ -155,7 +158,6 @@ class DatabaseLoader(object):
will populate and update the taxon/taxon_name tables
with the latest information from the NCBI.
"""
-
# To find the NCBI taxid, first check for a top level annotation
ncbi_taxon_id = None
if "ncbi_taxid" in record.annotations:
@@ -307,10 +309,12 @@ class DatabaseLoader(object):
We need to make this conversion to match the taxon_name.name_class
values used by the BioSQL load_ncbi_taxonomy.pl script.
- e.g.
- "ScientificName" -> "scientific name",
- "EquivalentName" -> "equivalent name",
- "Synonym" -> "synonym",
+ e.g.::
+
+ "ScientificName" -> "scientific name",
+ "EquivalentName" -> "equivalent name",
+ "Synonym" -> "synonym",
+
"""
# Add any special cases here:
#
@@ -322,7 +326,7 @@ class DatabaseLoader(object):
# Try automatically by adding spaces before each capital
def add_space(letter):
- """Adds a space before a capital letter."""
+ """Add a space before a capital letter."""
if letter.isupper():
return " " + letter.lower()
else:
@@ -332,8 +336,7 @@ class DatabaseLoader(object):
return answer
def _update_left_right_taxon_values(self, left_value):
- """update the left and right values in the table
- """
+ """Update the left and right taxon values in the table."""
if not left_value:
return
# Due to the UNIQUE constraint on the left and right values in the taxon
@@ -378,9 +381,11 @@ class DatabaseLoader(object):
common_name=None):
"""Get the taxon id for record from NCBI taxon ID (PRIVATE).
- ncbi_taxon_id - string containing an NCBI taxon id
- scientific_name - string, used if a stub entry is recorded
- common_name - string, used if a stub entry is recorded
+ Arguments:
+
+ - ncbi_taxon_id - string containing an NCBI taxon id
+ - scientific_name - string, used if a stub entry is recorded
+ - common_name - string, used if a stub entry is recorded
This searches the taxon table using ONLY the NCBI taxon ID
to find the matching taxon table entry's ID (database key).
@@ -503,15 +508,18 @@ class DatabaseLoader(object):
return taxon_id
def _get_taxon_id_from_ncbi_lineage(self, taxonomic_lineage):
- """This is recursive! (PRIVATE).
+ """Recursive method to get taxon ID from NCBI lineage (PRIVATE).
- taxonomic_lineage - list of taxonomy dictionaries from Bio.Entrez
+ Arguments:
+ - taxonomic_lineage - list of taxonomy dictionaries from Bio.Entrez
First dictionary in list is the taxonomy root, highest would be
the species. Each dictionary includes:
+
- TaxID (string, NCBI taxon id)
- Rank (string, e.g. "species", "genus", ..., "phylum", ...)
- ScientificName (string)
+
(and that is all at the time of writing)
This method will record all the lineage given, returning the taxon id
@@ -575,7 +583,9 @@ class DatabaseLoader(object):
def _load_bioentry_table(self, record):
"""Fill the bioentry table with sequence information (PRIVATE).
- record - SeqRecord object to add to the database.
+ Arguments:
+ - record - SeqRecord object to add to the database.
+
"""
# get the pertinent info and insert it
@@ -667,8 +677,10 @@ class DatabaseLoader(object):
def _load_biosequence(self, record, bioentry_id):
"""Record SeqRecord's sequence and alphabet in DB (PRIVATE).
- record - a SeqRecord object with a seq property
- bioentry_id - corresponding database identifier
+ Arguments:
+ - record - a SeqRecord object with a seq property
+ - bioentry_id - corresponding database identifier
+
"""
if record.seq is None:
# The biosequence table entry is optional, so if we haven't
@@ -701,8 +713,10 @@ class DatabaseLoader(object):
def _load_comment(self, record, bioentry_id):
"""Record a SeqRecord's annotated comment in the database (PRIVATE).
- record - a SeqRecord object with an annotated comment
- bioentry_id - corresponding database identifier
+ Arguments:
+ - record - a SeqRecord object with an annotated comment
+ - bioentry_id - corresponding database identifier
+
"""
comments = record.annotations.get('comment')
if not comments:
@@ -726,8 +740,10 @@ class DatabaseLoader(object):
table, except for special cases like the reference, comment and
taxonomy which are handled with their own tables.
- record - a SeqRecord object with an annotations dictionary
- bioentry_id - corresponding database identifier
+ Arguments:
+ - record - a SeqRecord object with an annotations dictionary
+ - bioentry_id - corresponding database identifier
+
"""
mono_sql = "INSERT INTO bioentry_qualifier_value" \
"(bioentry_id, term_id, value)" \
@@ -764,10 +780,11 @@ class DatabaseLoader(object):
def _load_reference(self, reference, rank, bioentry_id):
"""Record SeqRecord's annotated references in the database (PRIVATE).
- record - a SeqRecord object with annotated references
- bioentry_id - corresponding database identifier
- """
+ Arguments:
+ - record - a SeqRecord object with annotated references
+ - bioentry_id - corresponding database identifier
+ """
refs = None
if reference.medline_id:
refs = self.adaptor.execute_and_fetch_col0(
@@ -884,6 +901,7 @@ class DatabaseLoader(object):
start = 1, end = 2, rank = 1
start = 3, end = 4, rank = 2
start = 5, end = 6, rank = 3
+
"""
# TODO - Record an ontology for the locations (using location.term_id)
# which for now as in BioPerl we leave defaulting to NULL.
@@ -911,8 +929,24 @@ class DatabaseLoader(object):
# convert biopython locations to the 1-based location system
# used in bioSQL
# XXX This could also handle fuzzies
- start = int(location.start) + 1
- end = int(location.end)
+
+ try:
+ start = int(location.start) + 1
+ except TypeError:
+ # Handle SwissProt unknown position (?)
+ if isinstance(location.start, UnknownPosition):
+ start = None
+ else:
+ raise
+
+ try:
+ end = int(location.end)
+ except TypeError:
+ # Handle SwissProt unknown position (?)
+ if isinstance(location.end, UnknownPosition):
+ end = None
+ else:
+ raise
# Biopython uses None when we don't know strand information but
# BioSQL requires something (non null) and sets this as zero
@@ -964,8 +998,10 @@ class DatabaseLoader(object):
def _load_seqfeature_qualifiers(self, qualifiers, seqfeature_id):
"""Insert feature's (key, value) pair qualifiers (PRIVATE).
- Qualifiers should be a dictionary of the form:
+ Qualifiers should be a dictionary of the form::
+
{key : [value1, value2]}
+
"""
tag_ontology_id = self._get_ontology_id('Annotation Tags')
for qualifier_key in qualifiers:
@@ -1002,18 +1038,18 @@ class DatabaseLoader(object):
def _load_seqfeature_dbxref(self, dbxrefs, seqfeature_id):
"""Add SeqFeature's DB cross-references to the database (PRIVATE).
- o dbxrefs List, dbxref data from the source file in the
- format <database>:<accession>
-
- o seqfeature_id Int, the identifier for the seqfeature in the
- seqfeature table
-
- Insert dbxref qualifier data for a seqfeature into the
- seqfeature_dbxref and, if required, dbxref tables.
- The dbxref_id qualifier/value sets go into the dbxref table
- as dbname, accession, version tuples, with dbxref.dbxref_id
- being automatically assigned, and into the seqfeature_dbxref
- table as seqfeature_id, dbxref_id, and rank tuples
+ Arguments:
+ - dbxrefs - List, dbxref data from the source file in the
+ format <database>:<accession>
+ - seqfeature_id - Int, the identifier for the seqfeature in the
+ seqfeature table
+
+ Insert dbxref qualifier data for a seqfeature into the
+ seqfeature_dbxref and, if required, dbxref tables.
+ The dbxref_id qualifier/value sets go into the dbxref table
+ as dbname, accession, version tuples, with dbxref.dbxref_id
+ being automatically assigned, and into the seqfeature_dbxref
+ table as seqfeature_id, dbxref_id, and rank tuples.
"""
# NOTE - In older versions of Biopython, we would map the GenBank
# db_xref "name", for example "GI" to "GeneIndex", and give a warning
@@ -1026,7 +1062,7 @@ class DatabaseLoader(object):
dbxref_data = value.replace(' ', '').replace('\n', '').split(':')
db = dbxref_data[0]
accessions = dbxref_data[1:]
- except:
+ except Exception:
raise ValueError("Parsing of db_xref failed: '%s'" % value)
# Loop over all the grabbed accessions, and attempt to fill the
# table
@@ -1037,16 +1073,16 @@ class DatabaseLoader(object):
self._get_seqfeature_dbxref(seqfeature_id, dbxref_id, rank + 1)
def _get_dbxref_id(self, db, accession):
- """ _get_dbxref_id(self, db, accession) -> Int
+ """Get DB cross-reference for accession.
- o db String, the name of the external database containing
- the accession number
+ Arguments:
+ - db - String, the name of the external database containing
+ the accession number
+ - accession - String, the accession of the dbxref data
- o accession String, the accession of the dbxref data
-
- Finds and returns the dbxref_id for the passed data. The method
- attempts to find an existing record first, and inserts the data
- if there is no record.
+ Finds and returns the dbxref_id for the passed data. The method
+ attempts to find an existing record first, and inserts the data
+ if there is no record.
"""
# Check for an existing record
sql = r'SELECT dbxref_id FROM dbxref WHERE dbname = %s ' \
@@ -1059,10 +1095,11 @@ class DatabaseLoader(object):
return self._add_dbxref(db, accession, 0)
def _get_seqfeature_dbxref(self, seqfeature_id, dbxref_id, rank):
- """ Check for a pre-existing seqfeature_dbxref entry with the passed
- seqfeature_id and dbxref_id. If one does not exist, insert new
- data
+ """Get DB cross-reference, creating it if needed (PRIVATE).
+ Check for a pre-existing seqfeature_dbxref entry with the passed
+ seqfeature_id and dbxref_id. If one does not exist, insert new
+ data.
"""
# Check for an existing record
sql = r"SELECT seqfeature_id, dbxref_id FROM seqfeature_dbxref " \
@@ -1076,8 +1113,10 @@ class DatabaseLoader(object):
return self._add_seqfeature_dbxref(seqfeature_id, dbxref_id, rank)
def _add_seqfeature_dbxref(self, seqfeature_id, dbxref_id, rank):
- """ Insert a seqfeature_dbxref row and return the seqfeature_id and
- dbxref_id
+ """Add DB cross-reference (PRIVATE).
+
+ Insert a seqfeature_dbxref row and return the seqfeature_id and
+ dbxref_id
"""
sql = r'INSERT INTO seqfeature_dbxref ' \
'(seqfeature_id, dbxref_id, rank) VALUES' \
@@ -1088,7 +1127,8 @@ class DatabaseLoader(object):
def _load_dbxrefs(self, record, bioentry_id):
"""Load any sequence level cross references into the database (PRIVATE).
- See table bioentry_dbxref."""
+ See table bioentry_dbxref.
+ """
for rank, value in enumerate(record.dbxrefs):
# Split the DB:accession string at first colon.
# We have to cope with things like:
@@ -1102,7 +1142,7 @@ class DatabaseLoader(object):
db, accession = value.split(':', 1)
db = db.strip()
accession = accession.strip()
- except:
+ except Exception:
raise ValueError(
"Parsing of dbxrefs list failed: '%s'" % value)
# Get the dbxref_id value for the dbxref data
diff --git a/BioSQL/__init__.py b/BioSQL/__init__.py
index 380fd42..83de828 100644
--- a/BioSQL/__init__.py
+++ b/BioSQL/__init__.py
@@ -6,9 +6,11 @@
#
# Note that BioSQL (including the database schema and scripts) is
# available and licensed separately. Please consult www.biosql.org
-"""Code for storing and retrieving biological sequences from a BioSQL
-relational database. See:
+"""Storing and retrieve biological sequences in a BioSQL relational database.
+
+See:
+
+- http://biopython.org/wiki/BioSQL
+- http://www.biosql.org/
-http://biopython.org/wiki/BioSQL
-http://www.biosql.org/
"""
diff --git a/CONTRIB b/CONTRIB
deleted file mode 100644
index a185bfa..0000000
--- a/CONTRIB
+++ /dev/null
@@ -1,161 +0,0 @@
-CONTRIBUTORS
-============
-
-This is a list of people who have made contributions to Biopython.
-This is certainly not comprehensive, and if you've been overlooked
-(sorry!), please mention it on the development mailing list.
-People are listed alphabetically by surname.
-
-Cecilia Alsmark <Cecilia.Alsmark at domain ebc.uu.se>
-Tiago Antao <tiagoantao at gmail.com>
-Wibowo Arindrarto <gmail, initial dot surname>
-Sebastian Bassi <sbassi at domain asalup.org>
-Bill Barnard <bill at domain barnard-engineering.com>
-Yves Bastide <ybastide at domain irisa.fr>
-Paul T. Bathen
-Yair Benita <Y.Benita at domain pharm.uu.nl>
-Peter Bienstman <Peter.Bienstman at domain rug.ac.be>
-Jose Blanca
-Kai Blin <https://github.com/kblin>
-Steve Bond <https://github.com/biologyguy>
-Bob Bussell <rgb2003 at domain med.cornell.edu>
-Anthony Bradley <https://github.com/abradle>
-John Bradley <https://github.com/johnbradley>
-Diego Brouard <diego at domain conysis.com>
-Christian Brueffer <christian at domain brueffer.de>
-David Cain <gmail, david joseph cain>
-Christiam Camacho <https://github.com/christiam>
-Franco Caramia <https://github.com/fcaramia>
-James Casbon <j.a.casbon at domain qmul.ac.uk>
-Hye-Shik Chang <perky at domain fallin.lv>
-Jeffrey Chang <jchang at domain smi.stanford.edu>
-Brad Chapman <chapmanb at domain arches.uga.edu>
-Saket Choudhary <https://github.com/saketkc>
-Peter Cock <https://github.com/peterjc>
-Marc Colosimo <mcolosimo at domain mitre.org>
-Andres Colubri <andres dot colubri at gmail dot com>
-Joe Cora <https://github.com/JoeCora>
-Cymon J Cox <cymon at domain duke.edu>
-Gavin E Crooks <gec at domain compbio.berkeley.edu>
-Andrew Dalke <dalke at domain acm.org>
-Kristian Davidsen <https://github.com/krdav>
-Wayne Decatur <https://github.com/fomightez>
-Nigel Delaney <https://github.com/evolvedmicrobe/>
-Michiel de Hoon <mdehoon at domain c2b2.columbia.edu>
-Bart de Koning <bratdaking gmail>
-Sjoerd de Vries <sjoerd at domain nmr.chem.uu.nl>
-Nathan J. Edwards <nje5 at edu domain georgetown>
-Kyle Ellrott <https://github.com/kellrott>
-Gokcen Eraslan <https://github.com/gokceneraslan>
-Tarcisio Fedrizzi <https://github.com/hcraT>
-João D Ferreira <https://github.com/jdferreira>
-Jeffrey Finkelstein <jeffrey.finkelstein at domain gmail.com>
-Konrad Förstner <https://github.com/konrad>
-Iddo Friedberg <idoerg at domain burnham.org>
-Bertrand Frottier <bertrand.frottier at domain free.fr>
-Ben Fulton <https://github.com/benfulton>
-Marco Galardini <https://github.com/mgalardini>
-Aaron Gallagher <habnabit at gmail>
-Phillip Garland <pgarland at gmail>
-Walter Gillett <https://github.com/wgillett>
-Chaitanya Gupta <https://github.com/iCHAIT>
-Melissa Gymrek <https://github.com/mgymrek>
-Frederik Gwinner
-Jason A. Hackney <jhackney at domain stanford.edu>
-Thomas Hamelryck <thamelry at domain binf.ku.dk>
-Kian Ho <https://github.com/kianho>
-Michael Hoffman <hoffman+biopython at domain ebi.ac.uk>
-Thomas Holder <https://github.com/speleo3>
-Yu Huang <krocea at domain yahoo.com.cn>
-Gert Hulselmans <https://github.com/ghuls>
-Jeff Hussmann <first dot last at gmail dot com>
-Kevin Jacobs <jacobs at bioinformed dot com>
-Diana Jaunzeikare
-Sunhwan Jo <https://github.com/sunhwan>
-Terry Jones <https://github.com/terrycojones>
-Joanna & Dominik Kasprzak
-Frank Kauff <fkauff at domain duke.edu>
-Siong Kong
-David Koppstein <https://github.com/dkoppstein>
-Andreas Kuntzagk <andreas.kuntzagk at domain mdc-berlin.de>
-Michal Kurowski <michal at domain genesilico.pl>
-Gleb Kuznetsov <https://github.com/glebkuznetsov>
-Uri Laserson <laserson at Massachusetts Institute of Technology dot edu>
-Chris Lasher <chris.lasher at gmail.com>
-Sergei Lebedev <https://github.com/superbobry>
-Antony Lee <https://github.com/anntzer>
-Gaetan Lehman <gaetan.lehmann at domain jouy.inra.fr>
-Kuan-Yi Li <https://github.com/kuanyili>
-Edward Liaw <https://github.com/edliaw>
-Katharine Lindner <katel at domain worldpath.net>
-Bryan Lunt <https://github.com/bryan-lunt>
-Fábio Madeira<https://github.com/biomadeira>
-Erick Matsen <surname at fhcrc dot org>
-Connor McCoy <cmccoy at the dot org domain fhcrc>
-Alan Medlar <https://github.com/ajm>
-Tarjei Mikkelsen <tarjei at domain genome.wi.mit.edu>
-Chris Mitchell <https://github.com/chrismit>
-Olivier Morelle <https://github.com/Oli4>
-Ben Morris <https://github.com/bendmorris>
-Nader Morshed <https://github.com/naderm>
-Barbara Mühlemann <https://github.com/bamueh>
-Bertrand Néron <https://github.com/bneron>
-David Nicholson <https://github.com/danich1>
-Kozo Nishida <https://github.com/kozo2>
-Emmanuel Noutahi <https://github.com/maclandrol>
-Konstantin Okonechnikov <k.okonechnikov at domain gmail.com>
-Cheng Soon Ong <chengsoon.ong at tuebingen.mpg.de>
-Brian Osborne <https://github.com/bosborne>
-Anne Pajon <ap one two at sanger ac uk>
-Alessio Papini <first dot last at unifi dot it>
-Claude Paroz <claude at two (as digit) xlibre dot net>
-Carlos Pena <https://github.com/carlosp420>
-Lenna Peterson <ark first-name at gmail dot com>
-Andrea Pierleoni <andrea at the Italian domain biocomp dot unibo>
-Markus Piotrowski <https://github.com/MarkusPiotrowski>
-Anders Pitman <https://github.com/anderspitman>
-Mike Poidinger <Michael.Poidinger at domain eBioinformatics.com>
-Leighton Pritchard <lpritc at domain scri.sari.ac.uk>
-Leszek Pryszcz <https://github.com/lpryszcz>
-Eric Rasche <https://github.com/erasche>
-Andrea Rizzi <https://github.com/andrrizzi>
-Joao Rodrigues <anaryin at the domain gmail dot com>
-Aaron Rosenfeld <https://github.com/arosenfeld>
-Thomas Rosleff Soerensen <rosleff at domain mpiz-koeln.mpg.de>
-Matt Ruffalo <https://github.com/mruffalo>
-Thomas Schmitt <Thomas dot Schmitt at Swedish domain sbc.su>
-Uwe Schmitt <https://github.com/uweschmitt>
-Wolfgang Schueler <wolfgang at domain proceryon.at>
-Anuj Sharma <https://github.com/xulesc>
-Matt Shirley <https://github.com/mdshw5>
-Thomas Sicheritz-Ponten <thomas at domain cbs.dtu.dk>
-Seth Sims <seth.sims at gmail>
-Lucas Sinclair <https://github.com/xapple>
-Connor T. Skennerton <https://github.com/ctSkennerton>
-Peter Slickers <piet at domain clondiag.com>
-Kamil Slowikowski <k no dot slowikowski at gmail dot com>
-Jacek Śmietański <https://github.com/dadoskawina>
-Frederic Sohm <fsms at domain users.sourceforge.net>
-Owen Solberg <https://github.com/odoublewen>
-Matteo Sticco <https://github.com/sticken88/>
-Nate Sutton <https://github.com/nmsutton>
-Anuj Sharma <https://github.com/xulesc>
-Eric Talevich <https://github.com/etal>
-Bartosz Telenczuk <bartosz.telenczuk at domain gmail.com>
-Bogdan T. <bogdan at pearlgen dot com>
-Tyghe Vallard <https://github.com/necrolyte2>
-Carlos Rios Vera <crosvera at domain gmail.com>
-Johann Visagie <wjv at domain cityip.co.za>
-Dan Vogel <dmv at domain andrew.cmu.edu>
-Chris Warth <https://github.com/cswarth>
-David Weisman <david.weisman at domain acm.org>
-Bartek Wilczynski <bartek at domain rezolwenta.eu.org>
-David Winter <david dot winter at gmail dot com>
-Ben Woodcroft <https://github.com/wwood>
-Chunlei Wu <https://github.com/newgene/>
-Kevin Wu <https://github.com/kevinwuhoo>
-Yanbo Ye <https://github.com/lijax>
-Hongbo Zhu <https://github.com/hongbo-zhu-cn>
-Christian Zmasek <https://github.com/cmzmasek>
-Xiaoyu Zhuo <https://github.com/xzhuo>
-Harry Zuzan <iliketobicycle at domain yahoo.ca>
diff --git a/CONTRIB b/CONTRIB
new file mode 120000
index 0000000..a14f4ae
--- /dev/null
+++ b/CONTRIB
@@ -0,0 +1 @@
+CONTRIB.rst
\ No newline at end of file
diff --git a/CONTRIB.rst b/CONTRIB.rst
new file mode 100644
index 0000000..c5012c3
--- /dev/null
+++ b/CONTRIB.rst
@@ -0,0 +1,214 @@
+CONTRIBUTORS
+============
+
+This is a list of people who have made contributions to Biopython.
+
+People are listed alphabetically, as verfied with Unix sort::
+
+ $ grep "^- " CONTRIB.rst | LC_ALL=C sort -u -c -f
+
+This is certainly not comprehensive, and if you've been overlooked (sorry!),
+please open an issue on GitHub or mention it on the development mailing list.
+
+- Aaron Gallagher <habnabit at gmail>
+- Aaron Kitzmiller <https://github.com/aaronk>
+- Aaron Rosenfeld <https://github.com/arosenfeld>
+- Adam Kurkiewicz <adam at kurkiewicz.pl>
+- Adam Novak <https://github.com/AdamNovak>
+- Adil Iqbal <https://github.com/Adil-Iqbal>
+- Adrian Altenhoff <https://github.com/alpae>
+- Alan Medlar <https://github.com/ajm>
+- Alessio Papini <first dot last at unifi dot it>
+- Allis Tauri <https://github.com/allista>
+- Anders Pitman <https://github.com/anderspitman>
+- Andrea Pierleoni <andrea at the Italian domain biocomp dot unibo>
+- Andrea Rizzi <https://github.com/andrrizzi>
+- Andreas Kuntzagk <andreas.kuntzagk at domain mdc-berlin.de>
+- Andres Colubri <andres dot colubri at gmail dot com>
+- Andrew Dalke <dalke at domain dalke scientific dot com>
+- Andrew Guy <https://github.com/andrewguy>
+- Andrew Sczesnak <https://github.com/polyatail>
+- Anne Pajon <ap one two at sanger ac uk>
+- Anthony Bradley <https://github.com/abradle>
+- Antony Lee <https://github.com/anntzer>
+- Anuj Sharma <https://github.com/xulesc>
+- Ariel Aptekmann <https://github.com/aralap>
+- Barbara Mühlemann <https://github.com/bamueh>
+- Bart de Koning <bratdaking gmail>
+- Bartek Wilczynski <bartek at domain rezolwenta.eu.org>
+- Bartosz Telenczuk <bartosz.telenczuk at domain gmail.com>
+- Ben Fulton <https://github.com/benfulton>
+- Ben Morris <https://github.com/bendmorris>
+- Ben Woodcroft <https://github.com/wwood>
+- Bernhard Thiel <https://github.com/Bernhard10>
+- Bertrand Caron <https://github.com/bertrand-caron>
+- Bertrand Frottier <bertrand.frottier at domain free.fr>
+- Bertrand Néron <https://github.com/bneron>
+- Bill Barnard <bill at domain barnard-engineering.com>
+- Blaise Li <https://github.com/blaiseli>
+- Bob Bussell <rgb2003 at domain med.cornell.edu>
+- Bogdan T. <bogdan at pearlgen dot com>
+- Brad Chapman <https://github.com/chapmanb>
+- Brandon Carter <https://github.com/b-carter>
+- Brandon Invergo <https://github.com/brandoninvergo>
+- Brian Osborne <https://github.com/bosborne>
+- Bryan Lunt <https://github.com/bryan-lunt>
+- Carlos Pena <https://github.com/carlosp420>
+- Carlos Ríos <https://github.com/Crosvera>
+- Cecilia Alsmark <Cecilia.Alsmark at domain ebc.uu.se>
+- Chaitanya Gupta <https://github.com/iCHAIT>
+- Cheng Soon Ong <chengsoon.ong at tuebingen.mpg.de>
+- Chris Lasher <chris.lasher at gmail.com>
+- Chris Mitchell <https://github.com/chrismit>
+- Chris Rands <https://github.com/chris-rands>
+- Chris Warth <https://github.com/cswarth>
+- Christiam Camacho <https://github.com/christiam>
+- Christian Brueffer <christian at domain brueffer.de>
+- Christian Zmasek <https://github.com/cmzmasek>
+- Chunlei Wu <https://github.com/newgene/>
+- Claude Paroz <claude at two (as digit) xlibre dot net>
+- Connor McCoy <cmccoy at the dot org domain fhcrc>
+- Connor T. Skennerton <https://github.com/ctSkennerton>
+- Cymon J Cox <cymon at domain duke.edu>
+- Dan Vogel <dmv at domain andrew.cmu.edu>
+- David Cain <gmail, david joseph cain>
+- David Koppstein <https://github.com/dkoppstein>
+- David Nicholson <https://github.com/danich1>
+- David Weisman <david.weisman at domain acm.org>
+- David Winter <david dot winter at gmail dot com>
+- Diana Jaunzeikare
+- Diego Brouard <diego at domain conysis.com>
+- Edward Liaw <https://github.com/edliaw>
+- Emmanuel Noutahi <https://github.com/maclandrol>
+- Eric Rasche <https://github.com/erasche>
+- Eric Talevich <https://github.com/etal>
+- Erick Matsen <surname at fhcrc dot org>
+- Foen Peng <https://github.com/foenpeng>
+- Francesco Gastaldello <https://github.com/Gasta88>
+- Francisco Pina-Martins <https://github.com/StuntsPT>
+- Franco Caramia <https://github.com/fcaramia>
+- Frank Kauff <fkauff at domain duke.edu>
+- François Coste <https://github.com/francoiscoste>
+- Frederic Sapet <https://github.com/FredericBGA>
+- Frederic Sohm <fsms at domain users.sourceforge.net>
+- Frederik Gwinner
+- Fábio Madeira <https://github.com/biomadeira>
+- Gaetan Lehman <gaetan.lehmann at domain jouy.inra.fr>
+- Gavin E Crooks <gec at domain compbio.berkeley.edu>
+- Gert Hulselmans <https://github.com/ghuls>
+- Gleb Kuznetsov <https://github.com/glebkuznetsov>
+- Gokcen Eraslan <https://github.com/gokceneraslan>
+- Harry Zuzan <iliketobicycle at domain yahoo.ca>
+- Hector Martinez <https://github.com/hmarlo>
+- Hongbo Zhu <https://github.com/hongbo-zhu-cn>
+- Hye-Shik Chang <perky at domain fallin.lv>
+- Iddo Friedberg <idoerg at domain burnham.org>
+- Jacek Śmietański <https://github.com/dadoskawina>
+- Jack Twilley <https://github.com/mathuin>
+- James Casbon <j.a.casbon at domain qmul.ac.uk>
+- Jared Andrews <https://github.com/j-andrews7>
+- Jason A. Hackney <jhackney at domain stanford.edu>
+- Jeff Hussmann <first dot last at gmail dot com>
+- Jeffrey Chang <jchang at domain smi.stanford.edu>
+- Jeffrey Finkelstein <jeffrey.finkelstein at domain gmail.com>
+- Jeroen Van Goey <https://github.com/BioGeek>
+- Jimmy O'Donnell <https://github.com/jimmyodonnell>
+- Joanna & Dominik Kasprzak
+- Joao Rodrigues <anaryin at the domain gmail dot com>
+- Joe Cora <https://github.com/JoeCora>
+- Johann Visagie <wjv at domain cityip.co.za>
+- John Bradley <https://github.com/johnbradley>
+- John Kern <https://github.com/kern3020>
+- Jordan Willis <https://github.com/jwillis0720>
+- Jose Blanca <https://github.com/JoseBlanca>
+- Joshua Meyers <https://github.com/JoshuaMeyers>
+- João D Ferreira <https://github.com/jdferreira>
+- Kai Blin <https://github.com/kblin>
+- Kamil Slowikowski <k no dot slowikowski at gmail dot com>
+- Katharine Lindner <katel at domain worldpath.net>
+- Kevin Jacobs <jacobs at bioinformed dot com>
+- Kevin Wu <https://github.com/kevinwuhoo>
+- Kian Ho <https://github.com/kianho>
+- Konrad Förstner <https://github.com/konrad>
+- Konstantin Okonechnikov <k.okonechnikov at domain gmail.com>
+- Kozo Nishida <https://github.com/kozo2>
+- Kristian Davidsen <https://github.com/krdav>
+- Kuan-Yi Li <https://github.com/kuanyili>
+- Kurt Graff <https://github.com/graph1994>
+- Kyle Ellrott <https://github.com/kellrott>
+- Leighton Pritchard <lpritc at domain scri.sari.ac.uk>
+- Lenna Peterson <ark first-name at gmail dot com>
+- Leonhard Heizinger <https://github.com/he-leon>
+- Leszek Pryszcz <https://github.com/lpryszcz>
+- Lucas Sinclair <https://github.com/xapple>
+- Marc Colosimo <mcolosimo at domain mitre.org>
+- Marcin Magnus <https://github.com/mmagnus>
+- Marco Galardini <https://github.com/mgalardini>
+- Markus Piotrowski <https://github.com/MarkusPiotrowski>
+- Mateusz Korycinski <https://github.com/mkorycinski>
+- Matt Ruffalo <https://github.com/mruffalo>
+- Matt Shirley <https://github.com/mdshw5>
+- Matteo Sticco <https://github.com/sticken88/>
+- Maximilian Greil <https://github.com/MaxGreil>
+- Melissa Gymrek <https://github.com/mgymrek>
+- Michael Hoffman <hoffman+biopython at domain ebi.ac.uk>
+- Michal Kurowski <michal at domain genesilico.pl>
+- Michał J. Gajda <https://github.com/mgajda>
+- Michiel de Hoon <mdehoon at domain c2b2.columbia.edu>
+- Mike Poidinger <Michael.Poidinger at domain eBioinformatics.com>
+- Milind Luthra <https://github.com/milindl>
+- morrme <https://github.com/morrme>
+- Nader Morshed <https://github.com/naderm>
+- Nate Sutton <https://github.com/nmsutton>
+- Nathan J. Edwards <nje5 at edu domain georgetown>
+- Nigel Delaney <https://github.com/evolvedmicrobe/>
+- Noam Kremen <https://github.com/noamkremen>
+- Olivier Morelle <https://github.com/Oli4>
+- Oscar G. Garcia <https://github.com/oscarmaestre>
+- Owen Solberg <https://github.com/odoublewen>
+- Patrick Kunzmann <https://github.com/padix-key>
+- Paul T. Bathen
+- Peter Bienstman <Peter.Bienstman at domain rug.ac.be>
+- Peter Cock <https://github.com/peterjc>
+- Peter Slickers <piet at domain clondiag.com>
+- Phillip Garland <pgarland at gmail>
+- Rasmus Fonseca <https://github.com/RasmusFonseca>
+- Richard Neher <https://github.com/rneher>
+- Rodrigo Dorantes-Gilardi <https://github.com/rodogi>
+- Sacha Laurent <https://github.com/Cashalow>
+- Saket Choudhary <https://github.com/saketkc>
+- Sebastian Bassi <https://about.me/bassi>
+- Sergei Lebedev <https://github.com/superbobry>
+- Seth Sims <seth.sims at gmail>
+- Siong Kong <https://github.com/siongkong>
+- Sjoerd de Vries <sjoerd at domain nmr.chem.uu.nl>
+- Sourav Singh <https://github.com/souravsingh>
+- Spencer Bliven <https://github.com/sbliven>
+- Stefans Mezulis <https://github.com/StefansM/>
+- Steve Bond <https://github.com/biologyguy>
+- Steve Marshall <https://github.com/hungryhoser>
+- Sunhwan Jo <https://github.com/sunhwan>
+- Tarcisio Fedrizzi <https://github.com/hcraT>
+- Tarjei Mikkelsen <tarjei at domain genome.wi.mit.edu>
+- Ted Cybulski <https://github.com/tcyb>
+- Terry Jones <https://github.com/terrycojones>
+- Thomas Hamelryck <thamelry at domain binf.ku.dk>
+- Thomas Holder <https://github.com/speleo3>
+- Thomas Rosleff Soerensen <rosleff at domain mpiz-koeln.mpg.de>
+- Thomas Schmitt <Thomas dot Schmitt at Swedish domain sbc.su>
+- Thomas Sicheritz-Ponten <thomas at domain cbs.dtu.dk>
+- Tiago Antao <https://github.com/tiagoantao>
+- Tyghe Vallard <https://github.com/necrolyte2>
+- Uri Laserson <https://github.com/laserson>
+- Uwe Schmitt <https://github.com/uweschmitt>
+- Veronika Berman <https://github.com/NikiB>
+- Walter Gillett <https://github.com/wgillett>
+- Wayne Decatur <https://github.com/fomightez>
+- Wibowo Arindrarto <https://github.com/bow>
+- Wolfgang Schueler <wolfgang at domain proceryon.at>
+- Xiaoyu Zhuo <https://github.com/xzhuo>
+- Yair Benita <Y.Benita at domain pharm.uu.nl>
+- Yanbo Ye <https://github.com/lijax>
+- Yu Huang <krocea at domain yahoo.com.cn>
+- Yves Bastide <ybastide at domain irisa.fr>
+- Zheng Ruan <https://github.com/zruan>
diff --git a/CONTRIBUTING.rst b/CONTRIBUTING.rst
new file mode 100644
index 0000000..07f1385
--- /dev/null
+++ b/CONTRIBUTING.rst
@@ -0,0 +1,113 @@
+Contributing to Biopython
+=========================
+
+We welcome pull requests to fix bugs or add new features. Please read
+http://biopython.org/wiki/Contributing for a general overview about
+contributing - this file is primarily concerned with the practicalities.
+
+
+Licensing
+---------
+
+Biopython is moving towards dual licensing the code. In your git commit and/or
+pull request, please explicitly state that you agree to your contributions
+being dual licensed under *both* our original "Biopython License Agreement"
+and the more widely used "3-Clause BSD License" (see our LICENSE file for more
+details).
+
+
+Git Usage
+---------
+
+We have a git introduction online at http://biopython.org/wiki/GitUsage
+
+If you are planning to make a pull request, start by creating a new branch
+with a short but descriptive name (rather than using your master branch).
+
+
+Coding Conventions
+------------------
+
+Biopython tries to follow the coding conventions laid out in PEP8 and PEP257,
+with the notable exception of existing module names which are not lower case.
+
+ - http://www.python.org/dev/peps/pep-0008/
+ - http://www.python.org/dev/peps/pep-0257/
+
+For docstrings (Python's in-code documentation) in addition to PEP257 we are
+using reStructuredText (RST) markup language which allows basic formatting
+like *italics* and **bold** once rendered into HTML webpages for our online
+API documentation.
+
+We use the continuous integration service TravisCI to enforce some of these
+checks, so if you are making a contribution it is best to check this locally.
+
+You can run the tool ``flake8`` directly as follows. This includes the checks
+from ``pycodestyle`` (formerly ``pep8``) and uses the ``pydocstyle`` plugin
+(``flake8-docstrings``) for checking the docstrings within the Python code::
+
+ $ pip install flake8 flake8-docstrings flake8-blind-except
+ $ flake8 Bio/
+ $ flake8 BioSQL/
+ $ flake8 Tests/
+ $ flake8 Scripts/
+ $ flake8 Doc/examples/
+
+Each of these folders has its own flake8 settings file, in the long term we
+would like all the code to follow the same strict settings.
+
+You can run the reStructuredText checks with the ``restructuredtext-lint``
+tool (also known as ``rst-lint``)::
+
+ $ pip install restructuredtext_lint
+ $ rst-lint --level warning *.rst
+
+More simply we currently suggest you install the git pre-commit hook described
+here which will check our basic coding conventions as you work:
+https://github.com/biopython/biopython/issues/493
+
+
+
+Testing
+-------
+
+Any new feature or functionality will not be accepted without tests. Likewise
+for any bug fix, we encourage including an additional test. See the testing
+chapter in the Biopython Tutorial for more information on our test framework:
+http://biopython.org/DIST/docs/tutorial/Tutorial.html
+
+
+Local Testing
+-------------
+
+Please always run the style checks (see above) and the full test suite on
+your local computer before submitting a pull request, e.g.::
+
+ $ git commit Bio/XXX.py Tests/test_XXX.py -m "Fixed bug 123"
+ $ python3.5 setup.py build
+ $ python3.5 setup.py test
+
+If you have multiple versions of Python installed, ideally test them all
+(the Python tool ``tox`` can be helpful here).
+
+
+Continous Integration
+---------------------
+
+Once you submit your pull request on GitHub, several automated tests should
+be run, and their results reported on the pull request.
+
+We use TravisCI to run most of the Biopython tests (although currently only
+under Linux, and not with all the optional dependencies included), plus also
+check Python coding style using the ``flake8`` tool with the ``pydocstyle``
+pluging (``flake8-docstrings``), and reStructuredText using ``rst-lint``.
+These checks must pass before your pull request will be merged.
+https://travis-ci.org/biopython/biopython
+
+Some of the TravisCI runs collect test coverage information via CodeCov:
+https://codecov.io/github/biopython/biopython/
+
+We also are using QuantifiedCode which provides an independent code analysis
+which can catch important errors. Some of the issues it flags are subjective,
+so in general we do not require this pass before merging a pull request.
+https://www.quantifiedcode.com/app/project/gh:biopython:biopython
diff --git a/DEPRECATED b/DEPRECATED
deleted file mode 100644
index 3bf30ad..0000000
--- a/DEPRECATED
+++ /dev/null
@@ -1,691 +0,0 @@
-This file provides documentation for modules in Biopython that have been moved
-or deprecated in favor of other modules. This provides some quick and easy
-to find documentation about how to update your code to work again.
-
-Python 2.3
-==========
-No longer supported as of Release 1.51, having triggered a warning with
-Release 1.50, with a mention in the release notes for Release 1.49.
-
-Python 2.4
-==========
-No longer supported as of Release 1.59, having triggered a warning since
-Release 1.55, with advance notice in the release notes for Release 1.54.
-
-Python 2.5
-==========
-No longer supported as of Release 1.63, having triggered a warning with
-Release 1.62, with advance notice in the release notes for Release 1.61.
-
-Python 2.6
-==========
-Still supported but deprecated as of Release 1.66, triggering a warning
-at installation time.
-
-Python 3.0, 3.1, 3.2
-====================
-Never officially supported, these triggered a warning in Release 1.62
-recommending Python 3.3 or later. As of Biopython Release 1.63 onwards,
-installation simply aborts with a error message.
-
-Python 3.3
-==========
-Still suported but deprecated as of Release 1.67, triggering a warning
-at installation time.
-
-Bio.CodonAlign
-==============
-This new experimental module included in Biopython 1.64 was renamed to
-Bio.codonalign in Biopython 1.65 to follow PEP8 module naming rules.
-
-Bio.SeqRecord equality
-======================
-As of Release 1.67, the SeqRecord objects (and their subclasses) no longer use
-the default Python object comparison. Instead they will raise an exception if
-you try to compare them.
-
-For backward compatibility and/or to explicitly use object comparison, please
-use id(record1) == id(record2) instead.
-
-Otherwise please test whichever specific attributes you are interested in
-explicitly, for example record1.id == record2.id or record1.seq == record.seq
-(see also the note below about sequence equality).
-
-Bio.Seq sequence equality
-=========================
-As of Release 1.65, the Seq and MutableSeq objects (and their subclasses)
-use string-like equality testing and hashing (ingoring any difference in
-alphabet except to issue warnings).
-
-Prior releases used Python's object comparison. Warnings of this change
-were first added in Release 1.54 (May 2010), with hash warnings added in
-Release 1.62 (August 2013).
-
-For backward compatibility and/or to silence the warnings, please use
-explicit string comparision, str(seq1) == str(seq2), or object comparison,
-id(seq1) == id(seq2), as required.
-
-Bio.Seq.Seq.tostring() and Bio.Seq.MutableSeq.tostring()
-========================================================
-Deprecated as of Release 1.64. You should now use str(Bio.Seq.Seq) or
-str(Bio.Seq.MutableSeq) instead of the tostring() methods.
-
-Iterator .next() methods
-========================
-The .next() method defined for any Biopython iterator is deprecated as of
-Biopython 1.63 under Python 2 (and not present on Python 3). Please replace
-my_iterator.next() with next(my_iterator) using the new built-in function
-next() instead.
-
-Bio.SVDSuperimposer
-===================
-As of Release 1.63, the main class (confusingly also called) SVDSuperimposer
-is best imported as follows:
-
->>> from Bio.SVDSuperimposer import SVDSuperimposer
->>> super_imposer = SVDSuperimposer()
-
-This short form also works on older releases. The longer even more
-confusing historical alternatives dependent on the double module name
-no longer work, e.g. you can no longer do this:
-
->>> from Bio.SVDSuperimposer.SVDSuperimposer import SVDSuperimposer
->>> super_imposer = SVDSuperimposer()
-
-Bio.PDB.mmCIF
-=============
-This was removed in Release 1.62, when MMCIF2Dict was updated to use shlex
-from the standard library instead. This had required manual intervention to
-include when installing Biopython from source due to a dependency on flex.
-
-Bio.SeqFeature
-==============
-With the introduction of the CompoundLocation in Release 1.62, the SeqFeature
-attribute sub_features was deprecated. It was removed in Release 1.68.
-
-Bio.Motif
-=========
-Declared obsolete with a PendingDeprecationWarning in Release 1.61, formally
-deprecated in Release 1.62, removed in Release 1.67. Please use the newer
-Bio.motifs module instead.
-
-AlignAceCommandline and CompareAceCommandline
-=============================================
-Deprecated in release 1.62, removed in Release 1.67. An up to date version of
-the software cannot be obtained anymore (affects Bio.Motif and its replacement
-Bio.motifs).
-
-Bio.SeqIO.Interfaces
-====================
-Unused class InterlacedSequenceIterator was deprecated in Release 1.61, and
-removed in Release 1.64.
-
-Bio.HotRand
-===========
-Obsolete file Bio/HotRand.py was deprecated in Release 1.61, and removed in
-Release 1.64. Consider using an alternative RNG, or the Python module
-"randomdotorg".
-
-Bio.Search
-==========
-Long obsolete file Bio/Search.py was deprecated in Release 1.61, and removed
-in Release 1.64.
-
-Bio.Pathway.Rep.HashSet
-=======================
-Deprecated in Release 1.59, removed in Release 1.62. Use Python's built in
-set object.
-
-Bio.SeqFeature.WithinPosition and OneOfPosition
-===============================================
-The arguments to create these fuzzy positions changed in Release 1.59.
-
-Bio.Encodings
-=============
-Explicitly declared obsolete in Release 1.55, deprecated in Release 1.56, and
-removed in Release 1.57.
-
-Bio.PropertyManager
-===================
-Explicitly declared obsolete in Release 1.55, deprecated in Release 1.56, and
-removed in Release 1.57.
-
-Bio.InterPro
-============
-This module was a parser for the EBI InterPro webpages, but no longer worked
-with their current website. Deprecated in Release 1.55, and removed in
-Release 1.58.
-
-Bio.GenBank.LocationParser
-==========================
-This module used to be used for parsing GenBank and EMBL feature locations.
-It has been replaced with faster code using regular expressions, and is no
-longer needed. Declared obsolete in Release 1.55, deprecated in Release 1.56,
-and removed in Release 1.59.
-
-Bio.Parsers and Bio.Parsers.spark
-=================================
-This module was a copy of John Aycock's SPARK parser included with Biopython
-solely for use in Bio.GenBank.LocationParser. Declared obsolete in Release
-1.55, deprecated in Release 1.56, and removed in Release 1.59.
-
-Bio.Restriction.DNAUtils and check_bases
-========================================
-This module (originally in C) offered complement and antiparallel functions
-(duplicating functionality in Bio.Seq) and a rather odd function called
-check_bases (also available as Bio.Restriction.Restriction.check_bases).
-Deprecated in Release 1.53, removed in Release 1.57.
-
-Bio.Blast.NCBIStandalone
-========================
-The three functions for calling the "legacy" NCBI BLAST command line tools
-blastall, blastpgp and rpsblast were declared obsolete in Biopython Release
-1.53, deprecated in Release 1.61, and removed in Release 1.64. Please use
-the BLAST+ wrappers in Bio.Blast.Applications instead.
-
-The remainder of this module is a parser for the plain text BLAST output,
-which was declared obsolete in Release 1.54, and deprecated in Release 1.63.
-
-For some time now, both the NCBI and Biopython have encouraged people to
-parse the XML output instead, however Bio.SearchIO will initially attempt
-to support plain text BLAST output.
-
-Bio.Blast.Applications
-======================
-NCBI "legacy" BLAST tool wrappers FastacmdCommandline, BlastallCommandline,
-BlastpgpCommandline and RpsBlastCommandline were declared obsolete in Release
-1.53, deprecated in Release 1.61, and removed in Release 1.64, having been
-replaced with wrappers for the new NCBI BLAST+ tools (e.g.
-NcbiblastpCommandline and NcbipsiblastCommandline).
-
-Bio.Clustalw
-============
-Declared obsolete in Release 1.52, deprecated in Release 1.55 final, and
-removed in Release 1.58. Replaced with Bio.AlignIO for parsing and writing
-clustal format alignments (since Release 1.46), and Bio.Align.Applications
-for calling the ClustalW command line tool (since Release 1.51). See the
-Tutorial for examples.
-
-BioSQL and psycopg
-==================
-Support for psycopg (version one) in Biopython's BioSQL code was deprecated
-in Release 1.51, and removed in Release 1.55. Please use psycopg2 instead.
-
-Bio.Application.generic_run and ApplicationResult
-=================================================
-Declared obsolete in Release 1.51, deprecated in Release 1.53, and removed in
-Release 1.57. Please use the Python subprocess module instead, or as of
-Release 1.55 the application wrappers can be used directly to execute the
-command.
-
-Bio.Entrez.efetch and rettype="genbank"
-=======================================
-As of Easter 2009, the NCBI have stopped supporting the unofficial return type
-of "genbank" in EFetch. Instead we should be using "gb" (GenBank) or "gp"
-(GenPept). As of Biopython 1.50, Bio.Entrez.efetch will correct this
-automatically, but issues a deprecation warning. The code to check and correct
-for "genbank" was removed in Biopython 1.55 final.
-
-Bio.Entrez.query function
-=========================
-Deprecated in Release 1.47, removed in Release 1.52.
-
-Bio.SwissProt.SProt
-===================
-Declared obsolete in Release 1.50, deprecated in Release 1.51, and removed in
-Release 1.56. Most of the functionality in Bio.SwissProt.SProt is available
-from Bio.SwissProt.
-
-Bio.Prosite and Bio.Enzyme
-==========================
-Declared obsolete in Release 1.50, deprecated in Release 1.53, and removed in
-Release 1.57. Most of the functionality has moved to Bio.ExPASy.Prosite and
-Bio.ExPASy.Enzyme, respectively.
-
-Bio.EZRetrieve, Bio.NetCatch, Bio.FilteredReader
-================================================
-Declared obsolete in Release 1.50, deprecated in Release 1.52, and removed in
-Release 1.56.
-
-Bio.File
-========
-Bio.File.SGMLHandle was declared obsolete in Release 1.50, deprecated in
-Release 1.52, and removed in Release 1.56. Bio.File.SGMLStripper was deprecated
-in Release 1.57, removed in Release 1.61. Bio.File.StringHandle was deprecated
-in Release 1.59, removed in Release 1.61.
-
-Bio.Graphics.GenomeDiagram and colour/color, centre/center
-==========================================================
-GenomeDiagram originally used colour and centre (UK spelling of color and
-center) for argument names. As part of its integration into Biopython 1.50,
-this will support both colour and color, and both centre and center, to help
-people port existing scripts written for the standalone version of
-GenomeDiagram. However, these were deprecated in Release 1.55 final.
-Support for centre was removed in Release 1.62, and we intend to eventually
-remove support for colour in later releases of Biopython.
-
-Bio.AlignAce and Bio.MEME
-=========================
-Declared obsolete in Release 1.50, deprecated in Release 1.52, and removed
-in Release 1.56. Please use Bio.Motif instead.
-
-Numeric support
-===============
-Following the Release of 1.48, Numeric support in Biopython is discontinued.
-Please move to NumPy for Biopython 1.49 or later.
-
-Bio.Seq and the data property
-=============================
-Direct use of the Seq object (and MutableSeq object) .data property is
-deprecated. As of Release 1.49, writing to the Seq object's .data property
-triggered a warning, and this property was made read only in Release 1.53. In
-Release 1.55 final, accessing the .data property gives a DeprecationWarning.
-The Seq object's .data property was removed in Release 1.61.
-
-Bio.Transcribe and Bio.Translate
-================================
-Declared obsolete in Release 1.49, deprecated in Release 1.51, and removed
-in Release 1.57. Please use the methods or functions in Bio.Seq instead.
-
-Bio.mathfns, Bio.stringfns and Bio.listfns (and their C code variants)
-==========================================
-Declared obsolete in Release 1.49. Bio.mathfns and Bio.stringfns were
-deprecated in Release 1.50, Bio.listfns was deprecated in Release 1.53.
-The three C implementations were all removed in Release 1.53. Bio.mathfns
-and Bio.stringfns were removed in Release 1.55. Bio.listfns was removed in
-Release 1.57.
-
-Bio.distance (and Bio.cdistance)
-================================
-Bio.distance was deprecated in Release 1.49, at which point its C code
-implementation Bio.cdistance was removed (this was not intended as a public
-API). Removed in Release 1.53.
-
-Bio.Ndb
-=======
-Deprecated in Release 1.49, as the website this parsed has been redesigned.
-Removed in Release 1.53.
-
-Martel
-======
-Declared obsolete in Release 1.48, deprecated in Release 1.49, and removed
-in Release 1.51. The source code for Martel is still in our repository if
-anyone wanted to develop this outside of Biopython.
-
-Bio.Mindy and associated modules.
-=================================
-Declared obsolete in Release 1.48, deprecated in Release 1.49, removed in
-Release 1.51. This includes the Bio.Writer, Bio.writers, Bio.builders,
-Bio.Std, Bio.StdHandler, Bio.Decode and Bio.DBXRef modules
-
-Bio.Fasta index_file and Dictionary
-===================================
-Deprecated in Release 1.44, removed in Biopython 1.46. For small to medium
-sized files, use Bio.SeqIO.to_dict() to make an in memory dictionary of
-SeqRecord objects. Biopython 1.52 onwards provides Bio.SeqIO.index()
-which is suitable even for very large files.
-
-Bio.Fasta (including Bio.Fasta.FastaAlign)
-==========================================
-Declared obsolete in Release 1.48, deprecated in Release 1.51, and removed
-in Release 1.55 final. Please use the "fasta" support in Bio.SeqIO or
-Bio.AlignIO instead.
-
-Note that ``Bio.Fasta`` could be used with a ``RecordParser`` which gave
-``FastaRecord`` objects, for example:
-
- # Old code which won't work any more
- from Bio import Fasta
- handle = open("example.fas")
- for record in Fasta.Iterator(handle, Fasta.RecordParser()) :
- # Here record was a Bio.Fasta.Record object
- print record.title # The full title line as a string
- print record.sequence # The sequence as a string
- handle.close()
-
-Alternatively using the old ``SequenceParser`` would give ``SeqRecord``
-objects like those from the new ``Bio.SeqIO`` code, for example:
-
- # Old code which won't work any more
- from Bio import Fasta
- handle = open("example.fas")
- for seq_record in Fasta.Iterator(handle, Fasta.SequenceParser()) :
- print seq_record.description # The full title line as a string
- print str(seq_record.seq) # The sequence as a string
- handle.close()
-
-Either of those examples using ``Bio.SeqIO`` becomes just:
-
- # Updated versions of above examples using Bio.SeqIO instead
- from Bio import SeqIO
- for seq_record in SeqIO.parse("example.fas", "fasta") :
- print seq_record.description # The full title line as a string
- print str(seq_record.seq) # The sequence as a string
-
-You can also continue to use handles with ``Bio.SeqIO`` if you want to.
-
-Bio.Align.FormatConvert
-=======================
-Declared obsolete in Release 1.48, deprecated in Release 1.51, and
-removed in Release 1.55 final. Please use Bio.AlignIO or the Alignment
-object's format method instead.
-
-Bio.Emboss.Primer
-=================
-Deprecated in Release 1.48, and removed in Release 1.51, this parser was
-replaced by Bio.Emboss.Primer3 and Bio.Emboss.PrimerSearch instead.
-
-Bio.Emboss.Applications
-=======================
-The wrappers for the "old" EMBOSS PHYLIP tools (e.g. eneighbor) were declared
-obsolete in Biopython 1.52, deprecated in Release 1.55 final, and removed in
-release 1.58. please use the wrappers for the "new" EMBOSS PHYLIP tools (e.g.
-fneighbor) instead. Specifically, EProtDistCommandline, ENeighborCommandline,
-EProtParsCommandline, EConsenseCommandline, and ESeqBootCommandline are
-replaced by FProtDistCommandline, FNeighborCommandline, FProtParsCommandline,
-FConsenseCommandline, and FSeqBootCommandline, respectively.
-
-Bio.MetaTool
-============
-Deprecated in Release 1.48, and removed in Release 1.51, this was a parser
-for the output of MetaTool 3.5 which is now obsolete.
-
-Bio.GenBank
-===========
-The online functionality (search_for, download_many, and NCBIDictionary) was
-declared obsolete in Release 1.48, deprecated in Release 1.50, and removed
-in Release 1.54. Please use Bio.Entrez instead.
-
-Bio.PubMed
-==========
-Declared obsolete in Release 1.48, deprecated in Release 1.49, and
-removed in Release 1.53. Please use Bio.Entrez instead.
-
-Bio.EUtils
-==========
-Deprecated in favor of Bio.Entrez in Release 1.48, removed in Release 1.52.
-
-Bio.Sequencing & Bio.Medline
-============================
-A revised API was added and the old one deprecated in Release 1.48,
-and removed in Biopython 1.52:
-Bio.Sequencing.Ace.RecordParser --> Bio.Sequencing.Ace.read(handle)
-Bio.Sequencing.Ace.Iterator --> Bio.Sequencing.Ace.parse(handle)
-Bio.Sequencing.Phd.RecordParser --> Bio.Sequencing.Phd.read(handle)
-Bio.Sequencing.Phd.Iterator --> Bio.Sequencing.Phd.parse(handle)
-Bio.Medline.RecordParser --> Bio.Medline.read(handle)
-Bio.Medline.Iterator --> Bio.Medline.parse(handle)
-
-Bio.Blast.NCBIWWW
-=================
-The HTML BLAST parser was deprecated in Release 1.48, and removed in 1.52.
-The deprecated functions blast and blasturl were removed in Release 1.44.
-
-Bio.Saf
-=======
-Deprecated as of Release 1.48, removed in Release 1.51. If useful, a parser
-for this "simple alignment format" could be developed for Bio.AlignIO instead.
-
-Bio.NBRF
-========
-Deprecated as of Release 1.48 in favor of the "pir" format in Bio.SeqIO,
-removed in Release 1.51.
-
-Bio.IntelliGenetics
-===================
-Deprecated as of Release 1.48 in favor of the "ig" format in Bio.SeqIO,
-removed in Release 1.51.
-
-Bio.SeqIO submodules PhylipIO, ClustalIO, NexusIO and StockholmIO
-=================================================================
-You can still use the "phylip", "clustal", "nexus" and "stockholm" formats
-in Bio.SeqIO, however these are now supported via Bio.AlignIO, with the
-old code deprecated in Releases 1.46 or 1.47, and removed in Release 1.49.
-
-Bio.SeqIO.to_alignment()
-========================
-This function was made obsolete with the introduction of Bio.AlignIO,
-deprecated in Release 1.54, and removed in Release 1.58. Use either the
-Bio.AlignIO functions, or the Bio.Align.MultipleSeqAlignment class
-directly instead.
-
-Bio.ECell
-=========
-Deprecated as of Release 1.47, as it appears to have no users, and the code
-does not seem relevant for ECell 3. Removed in Release 1.49.
-
-Bio.Ais
-=======
-Deprecated as of Release 1.45, removed in Release 1.49.
-
-Bio.LocusLink
-=============
-Deprecated as of Release 1.45, removed in Release 1.49.
-The NCBI's LocusLink was superseded by Entrez Gene.
-
-Bio.SGMLExtractor
-=================
-Deprecated as of Release 1.46, removed in Release 1.49.
-
-Bio.Rebase
-==========
-Deprecated as of Release 1.46, removed in Release 1.49.
-
-Bio.Gobase
-==========
-Deprecated as of Release 1.46, removed in Release 1.49.
-
-Bio.CDD
-=======
-Deprecated as of Release 1.46, removed in Release 1.49.
-
-Bio.biblio
-==========
-Deprecated as of Release 1.45, removed in Release 1.48
-
-Bio.WWW
-=======
-The modules under Bio.WWW were deprecated in Release 1.45, and removed in
-Release 1.48. The remaining stub Bio.WWW was deprecated in Release 1.48,
-and removed in Release 1.53.
-
-The functionality in Bio.WWW.SCOP, Bio.WWW.InterPro, Bio.WWW.ExPASy and
-Bio.WWW.NCBI is now available from Bio.SCOP, Bio.InterPro, Bio.ExPASy and
-Bio.Entrez instead.
-
-Bio.SeqIO
-=========
-The old Bio.SeqIO.FASTA and Bio.SeqIO.generic were deprecated in favour of
-the new Bio.SeqIO module as of Release 1.44, removed in Release 1.47.
-
-Bio.Medline.NLMMedlineXML
-=========================
-Deprecated in Release 1.44, removed in 1.46.
-
-Bio.MultiProc
-=============
-Deprecated in Release 1.44, removed in 1.46.
-
-Bio.MarkupEditor
-================
-Deprecated in Release 1.44, removed in 1.46.
-
-Bio.lcc
-=======
-Deprecated in favor of Bio.SeqUtils.lcc in Release 1.44, removed in 1.46.
-
-Bio.crc
-=======
-Deprecated in favor of Bio.SeqUtils.CheckSum in Release 1.44, removed in 1.46.
-
-Bio.FormatIO
-============
-This was removed in Release 1.44 (a deprecation was not possible).
-
-Bio.expressions, Bio.config, Bio.dbdefs, Bio.formatdefs and Bio.dbdefs
-======================================================================
-These were deprecated in Release 1.44, and removed in Release 1.49.
-
-Bio.Kabat
-=========
-This was deprecated in Release 1.43 and removed in Release 1.44.
-
-Bio.SeqUtils
-============
-Functions 'complement' and 'antiparallel' in Bio.SeqUtils were deprecated
-in Release 1.31, and removed in Release 1.43. Function 'translate' was
-deprecated in Release 1.49, and removed in Release 1.53. Use the functions
-and methods in Bio.Seq instead.
-
-Function makeTableX and classes ProteinX and MissingTable were deprecated
-in Release 1.54, and removed in Release 1.58. These were remnants of the
-removed translate function, and no longer served any useful purpose.
-
-Function 'reverse' in Bio.SeqUtils was deprecated in Release 1.54, and
-removed in Release 1.58. Instead just use the string's slice method with
-a step of minus one.
-
-Functions GC_Frame, fasta_uniqids, apply_on_multi_fasta, and
-quicker_apply_on_multi_fasta were deprecated in Release 1.55, and removed
-in Release 1.58.
-
-Function quick_FASTA_reader was declared obsolete in Release 1.61,
-deprecated in Release 1.64, and removed in Release 1.67. Use function
-list(SimpleFastaParser(handle)) from Bio.SeqIO.FastaIO instead (but
-ideally convert your code to using an iterator approach).
-
-Bio.GFF (for accessing a MySQL database created with BioPerl, etc)
-=======
-The functions 'forward_complement' and 'antiparallel' in Bio.GFF.easy have
-been deprecated as of Release 1.31, and removed in Release 1.43.
-Use the functions 'complement' and 'reverse_complement' in Bio.Seq instead.
-
-The whole of the old Bio.GFF module was deprecated in Release 1.53, and removed
-in Release 1.57 (with the intention of reusing this name space for a GFF
-parser).
-
-Bio.sequtils
-============
-Deprecated as of Release 1.30, removed in Release 1.42.
-Use Bio.SeqUtils instead.
-
-Bio.SVM
-=======
-Deprecated as of Release 1.30, removed in Release 1.42.
-The Support Vector Machine code in Biopython has been superseded by a
-more robust (and maintained) SVM library, which includes a python
-interface. We recommend using LIBSVM:
-
-http://www.csie.ntu.edu.tw/~cjlin/libsvm/
-
-Bio.RecordFile
-==============
-Deprecated as of Release 1.30, removed in Release 1.42. RecordFile wasn't
-completely implemented and duplicates the work of most standard parsers.
-
-Bio.kMeans and Bio.xkMeans
-==========================
-Deprecated as of Release 1.30, removed in Release 1.42. Instead, please use
-the function kcluster in Bio.Cluster which performs k-means or k-medians
-clustering.
-
-Bio.InterPro
-============
-The function pairlist_to_dict was deprecated in Release 1.45, and removed in
-Release 1.53.
-
-Bio.SCOP
-========
-The module Bio.SCOP.FileIndex was deprecated in Release 1.46, and removed in
-Release 1.53. The class Parser in Bio.SCOP.Dom was removed in Release 1.55
-final. The class Iterator in Bio.SCOP.Dom was removed in Release 1.56.
-
-Dictionary to_one_letter_code in module Bio.SCOP.three_to_one_dict was moved
-to protein_letters_3to1 in module Bio.Data.SCOPData in Release 1.62. The old
-alias was preserved with a deprecation warning, until it was removed in
-Release 1.66.
-
-Bio.utils
-=========
-Functions 'translate', 'translate_to_stop', 'back_translate', 'transcribe',
-and 'back_transcribe' were deprecated in Release 1.49, and removed in Release
-1.53. Function 'ungap' was deprecated in Release 1.53. Use Bio.Seq instead.
-The whole of Bio.utils was declared obsolete in Release 1.55, deprecated in
-Release 1.56, and removed in Release 1.57.
-
-Bio.Motif
-=========
-CompareAceParser and CompareAceConsumer from Bio.Motif.Parsers.AlignAce were
-declared obsolete in Release 1.53, deprecated in Release 1.55 final, and removed
-in Release 1.57.
-AlignAceConsumer, AlignAceParser, and AlignAceScanner were declared obsolete
-in Release 1.53 and deprecated in Release 1.55 final; their functionality is
-now available through a read() function in Bio.Motif.Parsers.AlignAce.
-MEMEParser, _MEMEScanner, _MEMEConsumer, _MASTConsumer, MASTParser,
-_MASTScanner, and MASTRecord were declared obsolete in Release 1.54 and
-deprecated in Release 1.55 final; their functionality is now available through
-a read() function in Bio.Motif.Parsers.MEME and Bio.Motif.Parsers.MAST,
-respectively.
-
-Bio.Compass
-===========
-The RecordParser and Iterator classes were declared obsolete in Release 1.54,
-deprecated in Release 1.55, removed in Release 1.59. Their functionality is
-now available through a read() and a parse() function, respectively.
-
-Bio.Affy.CelFile
-================
-The CelScanner, CelConsumer, CelRecord, and CelParser were declared obsolete
-in Release 1.54, deprecated in Release 1.55 and removed in Release 1.59.
-Their functionality is now available through a read() function.
-
-Bio.PopGen.FDist
-================
-The RecordParser, _Scanner, and _RecordConsumer classes were declared obsolete
-in Release 1.54, deprecated in Release 1.55, and removed in Release 1.58.
-Their functionality is now available through a read() function.
-
-Bio.UniGene
-===========
-The classes UnigeneSequenceRecord, UnigeneProtsimRecord, UnigeneSTSRecord,
-UnigeneRecord, _RecordConsumer, _Scanner, RecordParser, and Iterator in
-Bio.UniGene were declared obsolete in Release 1.54, deprecated in Release 1.55,
-and removed in Release 1.59. Their functionality is now available through a
-read() and a parse() function in Bio.UniGene.
-
-Submodule Bio.UniGene.UniGene which was an HTML parser was declared obsolete
-in Release 1.59, deprecated in Release 1.61, and removed in Release 1.64.
-
-Bio.SubsMat
-===========
-The methods letter_sum and all_letters_sum were removed from the SeqMat class in
-Bio.SubsMat in Release 1.57.
-
-Bio.Align
-=========
-The methods get_column and add_sequence of the MultipleSeqAlignment class were
-deprecated in Release 1.57. The Alignment class in Bio.Align.Generic and its
-method get_seq_by_num were deprecated in Release 1.57.
-
-Bio.ParserSupport
-=================
-Bio.ParserSupport was declared obsolete in Release 1.59, and deprecated in
-Release 1.63. The Martel specific EventGenerator was removed in Release 1.67..
-
-Bio.ParserSupport.SGMLStrippingConsumer was deprecated in Release 1.59, and
-removed in Release 1.61.
-
-Bio.PopGen.Async
-================
-Bio.PopGen.Async was deprecated in Release 1.68. It will be removed in
-Release 1.70.
-
-Bio.PopGen.FDist
-================
-Bio.PopGen.FDist was deprecated in Release 1.68. It will be removed in
-Release 1.70.
-
-Bio.PopGen.SimCoal
-==================
-Bio.PopGen.SimCoal was deprecated in Release 1.68. It will be removed in
-Release 1.70.
diff --git a/DEPRECATED b/DEPRECATED
new file mode 120000
index 0000000..f297180
--- /dev/null
+++ b/DEPRECATED
@@ -0,0 +1 @@
+DEPRECATED.rst
\ No newline at end of file
diff --git a/DEPRECATED b/DEPRECATED.rst
similarity index 87%
copy from DEPRECATED
copy to DEPRECATED.rst
index 3bf30ad..b3c5ac2 100644
--- a/DEPRECATED
+++ b/DEPRECATED.rst
@@ -19,8 +19,8 @@ Release 1.62, with advance notice in the release notes for Release 1.61.
Python 2.6
==========
-Still supported but deprecated as of Release 1.66, triggering a warning
-at installation time.
+No longer supported as of Release 1.69, having triggered a warning with
+release 1.66 onwards.
Python 3.0, 3.1, 3.2
====================
@@ -30,8 +30,32 @@ installation simply aborts with a error message.
Python 3.3
==========
-Still suported but deprecated as of Release 1.67, triggering a warning
-at installation time.
+No longer supported as of Release 1.70, having triggered a warning with
+release 1.67 onwards.
+
+Jython
+======
+Biopython is mostly working under Jython 2.7.0, but support for Jython
+is deprecated as of Release 1.70.
+
+Bio.GA
+======
+This was deprecated in Biopython 1.70. Please consider using a dedicated
+genetic algorithm library like DEAP instead.
+
+Bio.NeuralNetwork
+=================
+This was deprecated in Biopython 1.70. Please consider using a dedicated
+machine learning library like scikit-learn or TensorFlow instead.
+
+Bio.Phylo.CDAOIO.CDAOError
+==========================
+This exception was deprecated as of Release 1.70, and is no longer used
+within Biopython.
+
+Bio.DocSQL
+==========
+This was deprecated in Biopython 1.69.
Bio.CodonAlign
==============
@@ -109,6 +133,21 @@ Declared obsolete with a PendingDeprecationWarning in Release 1.61, formally
deprecated in Release 1.62, removed in Release 1.67. Please use the newer
Bio.motifs module instead.
+Before this, ``CompareAceParser`` and ``CompareAceConsumer`` from
+``Bio.Motif.Parsers.AlignAce`` were declared obsolete in Release 1.53,
+deprecated in Release 1.55 final, and removed in Release 1.57.
+
+``AlignAceConsumer``, ``AlignAceParser``, and ``AlignAceScanner`` were
+declared obsolete in Release 1.53 and deprecated in Release 1.55 final;
+their functionality is now available through a read() function in
+``Bio.Motif.Parsers.AlignAce``.
+
+``MEMEParser``, ``_MEMEScanner``, ``_MEMEConsumer``, ``_MASTConsumer``,
+``MASTParser``, ``_MASTScanner``, and ``MASTRecord`` were declared obsolete in
+Release 1.54 and deprecated in Release 1.55 final; their functionality is now
+available through a ``read()`` function in ``Bio.Motif.Parsers.MEME`` and
+``Bio.Motif.Parsers.MAST``, respectively.
+
AlignAceCommandline and CompareAceCommandline
=============================================
Deprecated in release 1.62, removed in Release 1.67. An up to date version of
@@ -156,6 +195,9 @@ This module was a parser for the EBI InterPro webpages, but no longer worked
with their current website. Deprecated in Release 1.55, and removed in
Release 1.58.
+Earlier the function ``pairlist_to_dict`` was deprecated in Release 1.45, and
+removed in Release 1.53.
+
Bio.GenBank.LocationParser
==========================
This module used to be used for parsing GenBank and EMBL feature locations.
@@ -288,7 +330,7 @@ Declared obsolete in Release 1.49, deprecated in Release 1.51, and removed
in Release 1.57. Please use the methods or functions in Bio.Seq instead.
Bio.mathfns, Bio.stringfns and Bio.listfns (and their C code variants)
-==========================================
+======================================================================
Declared obsolete in Release 1.49. Bio.mathfns and Bio.stringfns were
deprecated in Release 1.50, Bio.listfns was deprecated in Release 1.53.
The three C implementations were all removed in Release 1.53. Bio.mathfns
@@ -332,7 +374,7 @@ in Release 1.55 final. Please use the "fasta" support in Bio.SeqIO or
Bio.AlignIO instead.
Note that ``Bio.Fasta`` could be used with a ``RecordParser`` which gave
-``FastaRecord`` objects, for example:
+``FastaRecord`` objects, for example::
# Old code which won't work any more
from Bio import Fasta
@@ -344,7 +386,7 @@ Note that ``Bio.Fasta`` could be used with a ``RecordParser`` which gave
handle.close()
Alternatively using the old ``SequenceParser`` would give ``SeqRecord``
-objects like those from the new ``Bio.SeqIO`` code, for example:
+objects like those from the new ``Bio.SeqIO`` code, for example::
# Old code which won't work any more
from Bio import Fasta
@@ -354,7 +396,7 @@ objects like those from the new ``Bio.SeqIO`` code, for example:
print str(seq_record.seq) # The sequence as a string
handle.close()
-Either of those examples using ``Bio.SeqIO`` becomes just:
+Either of those examples using ``Bio.SeqIO`` becomes just::
# Updated versions of above examples using Bio.SeqIO instead
from Bio import SeqIO
@@ -555,19 +597,20 @@ list(SimpleFastaParser(handle)) from Bio.SeqIO.FastaIO instead (but
ideally convert your code to using an iterator approach).
Bio.GFF (for accessing a MySQL database created with BioPerl, etc)
-=======
-The functions 'forward_complement' and 'antiparallel' in Bio.GFF.easy have
-been deprecated as of Release 1.31, and removed in Release 1.43.
-Use the functions 'complement' and 'reverse_complement' in Bio.Seq instead.
+==================================================================
+The functions ``forward_complement`` and ``antiparallel`` in ``Bio.GFF.easy``
+have been deprecated as of Release 1.31, and removed in Release 1.43.
+Use the functions ``complement`` and ``reverse_complement`` in ``Bio.Seq``
+instead.
-The whole of the old Bio.GFF module was deprecated in Release 1.53, and removed
-in Release 1.57 (with the intention of reusing this name space for a GFF
-parser).
+The whole of the old ``Bio.GFF`` module was deprecated in Release 1.53, and
+removed in Release 1.57 (with the intention of reusing this name space for a
+GFF parser).
Bio.sequtils
============
-Deprecated as of Release 1.30, removed in Release 1.42.
-Use Bio.SeqUtils instead.
+Deprecated as of Release 1.30, removed in Release 1.42. Use ``Bio.SeqUtils``
+instead.
Bio.SVM
=======
@@ -589,11 +632,6 @@ Deprecated as of Release 1.30, removed in Release 1.42. Instead, please use
the function kcluster in Bio.Cluster which performs k-means or k-medians
clustering.
-Bio.InterPro
-============
-The function pairlist_to_dict was deprecated in Release 1.45, and removed in
-Release 1.53.
-
Bio.SCOP
========
The module Bio.SCOP.FileIndex was deprecated in Release 1.46, and removed in
@@ -613,20 +651,6 @@ and 'back_transcribe' were deprecated in Release 1.49, and removed in Release
The whole of Bio.utils was declared obsolete in Release 1.55, deprecated in
Release 1.56, and removed in Release 1.57.
-Bio.Motif
-=========
-CompareAceParser and CompareAceConsumer from Bio.Motif.Parsers.AlignAce were
-declared obsolete in Release 1.53, deprecated in Release 1.55 final, and removed
-in Release 1.57.
-AlignAceConsumer, AlignAceParser, and AlignAceScanner were declared obsolete
-in Release 1.53 and deprecated in Release 1.55 final; their functionality is
-now available through a read() function in Bio.Motif.Parsers.AlignAce.
-MEMEParser, _MEMEScanner, _MEMEConsumer, _MASTConsumer, MASTParser,
-_MASTScanner, and MASTRecord were declared obsolete in Release 1.54 and
-deprecated in Release 1.55 final; their functionality is now available through
-a read() function in Bio.Motif.Parsers.MEME and Bio.Motif.Parsers.MAST,
-respectively.
-
Bio.Compass
===========
The RecordParser and Iterator classes were declared obsolete in Release 1.54,
@@ -639,11 +663,23 @@ The CelScanner, CelConsumer, CelRecord, and CelParser were declared obsolete
in Release 1.54, deprecated in Release 1.55 and removed in Release 1.59.
Their functionality is now available through a read() function.
+Bio.PopGen.Async
+================
+``Bio.PopGen.Async`` was deprecated in Release 1.68, removed in Release 1.70.
+
Bio.PopGen.FDist
================
-The RecordParser, _Scanner, and _RecordConsumer classes were declared obsolete
-in Release 1.54, deprecated in Release 1.55, and removed in Release 1.58.
-Their functionality is now available through a read() function.
+``Bio.PopGen.FDist`` was deprecated in Release 1.68, removed in Release 1.70.
+
+Prior to this, the ``RecordParser``, ``_Scanner``, and ``_RecordConsumer``
+classes were declared obsolete in Release 1.54, deprecated in Release 1.55,
+and removed in Release 1.58. Their functionality is now available through
+a ``read()`` function.
+
+Bio.PopGen.SimCoal
+==================
+``Bio.PopGen.SimCoal`` was deprecated in Release 1.68, and removed in Release
+1.70.
Bio.UniGene
===========
@@ -664,28 +700,17 @@ Bio.SubsMat in Release 1.57.
Bio.Align
=========
The methods get_column and add_sequence of the MultipleSeqAlignment class were
-deprecated in Release 1.57. The Alignment class in Bio.Align.Generic and its
-method get_seq_by_num were deprecated in Release 1.57.
+deprecated in Release 1.57 and removed in Release 1.69.
+
+Bio.Align.Generic
+=================
+This module which defined to original (Multiple-Sequence) Alignment class was
+deprecated in Release 1.57 and removed in Release 1.69.
Bio.ParserSupport
=================
-Bio.ParserSupport was declared obsolete in Release 1.59, and deprecated in
-Release 1.63. The Martel specific EventGenerator was removed in Release 1.67..
+``Bio.ParserSupport`` was declared obsolete in Release 1.59, and deprecated in
+Release 1.63. The Martel specific ``EventGenerator`` was removed in Release 1.67.
-Bio.ParserSupport.SGMLStrippingConsumer was deprecated in Release 1.59, and
+``Bio.ParserSupport.SGMLStrippingConsumer`` was deprecated in Release 1.59, and
removed in Release 1.61.
-
-Bio.PopGen.Async
-================
-Bio.PopGen.Async was deprecated in Release 1.68. It will be removed in
-Release 1.70.
-
-Bio.PopGen.FDist
-================
-Bio.PopGen.FDist was deprecated in Release 1.68. It will be removed in
-Release 1.70.
-
-Bio.PopGen.SimCoal
-==================
-Bio.PopGen.SimCoal was deprecated in Release 1.68. It will be removed in
-Release 1.70.
diff --git a/Doc/Tutorial.tex b/Doc/Tutorial.tex
index 37463c6..3a2253d 100644
--- a/Doc/Tutorial.tex
+++ b/Doc/Tutorial.tex
@@ -73,7 +73,7 @@
\begin{latexonly}
\title{
%Hack to get the logo on the PDF front page:
-\includegraphics[width=\textwidth]{images/biopython.jpg}\\
+\includegraphics[width=\textwidth]{images/biopython_logo.pdf}\\
%Hack to get some white space using a blank line:
~\\
Biopython Tutorial and Cookbook}
@@ -81,13 +81,13 @@ Biopython Tutorial and Cookbook}
\author{Jeff Chang, Brad Chapman, Iddo Friedberg, Thomas Hamelryck, \\
Michiel de Hoon, Peter Cock, Tiago Antao, Eric Talevich, Bartek Wilczy\'{n}ski}
-\date{Last Update -- 25 August 2016 (Biopython 1.68)}
+\date{Last Update -- 10 July 2017 (Biopython 1.70)}
%Hack to get the logo at the start of the HTML front page:
%(hopefully this isn't going to be too wide for most people)
\begin{rawhtml}
<P ALIGN="center">
-<IMG ALIGN="center" SRC="images/biopython.jpg" TITLE="Biopython Logo" ALT="[Biopython Logo]" width="1024" height="288" />
+<IMG ALIGN="center" SRC="images/biopython_logo.svg" TITLE="Biopython Logo" ALT="[Biopython Logo]" width="450" height="300" />
</p>
\end{rawhtml}
@@ -235,6 +235,8 @@ Thomas Hamelryck: ``Efficient identification of side-chain patterns using a mult
Thomas Hamelryck: ``An amino acid has two sides; A new 2D measure provides a different view of solvent exposure''. \textit{Proteins} {\bf 59} (1): 29--48 (2005). \href{http://dx.doi.org/10.1002/prot.20379}{doi:10.1002/prot.20379}.
\bibitem{hartigan1975}
John A. Hartiga. \textit{Clustering algorithms}. New York: Wiley (1975).
+\bibitem{hihara2001}
+Yukako Hiharaa, Ayako Kameib, Minoru Kanehisac, Aaron Kapland and Masahiko Ikeuchib: ``DNA microarray analysis of cyanobacterial gene expression during acclimation to high light''. \textit{Plant Cell} {\bf 13} (4): 793--806 (2001). \href{http://dx.doi.org/10.1105/tpc.13.4.793}{doi:10.1105/tpc.13.4.793}.
\bibitem{jain1988}
Anil L. Jain, Richard C. Dubes: \textit{Algorithms for clustering data}. Englewood Cliffs, N.J.: Prentice Hall (1988).
\bibitem{kachitvichyanukul1988}
diff --git a/Doc/Tutorial/chapter_align.tex b/Doc/Tutorial/chapter_align.tex
index 0028abb..0f875a2 100644
--- a/Doc/Tutorial/chapter_align.tex
+++ b/Doc/Tutorial/chapter_align.tex
@@ -69,7 +69,7 @@ COATB_BPIF1/22-73 FAADDATSQAKAAFDSLTAQATEMSGYAWALVVLVVGATVGIKLFKKFVS
//
\end{verbatim}
-This is the seed alignment for the Phage\_Coat\_Gp8 (PF05371) PFAM entry, downloaded from a now out of date release of PFAM from \url{http://pfam.sanger.ac.uk/}. We can load this file as follows (assuming it has been saved to disk as ``PF05371\_seed.sth'' in the current working directory):
+This is the seed alignment for the Phage\_Coat\_Gp8 (PF05371) PFAM entry, downloaded from a now out of date release of PFAM from \url{http://pfam.xfam.org/}. We can load this file as follows (assuming it has been saved to disk as ``PF05371\_seed.sth'' in the current working directory):
%doctest examples
\begin{verbatim}
diff --git a/Doc/Tutorial/chapter_appendix.tex b/Doc/Tutorial/chapter_appendix.tex
index 7795914..0ed981f 100644
--- a/Doc/Tutorial/chapter_appendix.tex
+++ b/Doc/Tutorial/chapter_appendix.tex
@@ -76,12 +76,15 @@ compressed FASTA file you want to parse:
\begin{verbatim}
import gzip
from Bio import SeqIO
-handle = gzip.open("m_cold.fasta.gz")
+handle = gzip.open("m_cold.fasta.gz", "rt")
for record in SeqIO.parse(handle, "fasta"):
print(record.id, len(record))
handle.close()
\end{verbatim}
+With our parsers for plain text files, under Python 3 it is
+essential to use gzip in text mode.
+
See Section~\ref{sec:SeqIO_compressed} for more examples like this,
including reading bzip2 compressed files.
diff --git a/Doc/Tutorial/chapter_blast.tex b/Doc/Tutorial/chapter_blast.tex
index 66e41b4..8d11a07 100644
--- a/Doc/Tutorial/chapter_blast.tex
+++ b/Doc/Tutorial/chapter_blast.tex
@@ -134,9 +134,9 @@ read the BLAST output only once -- calling \verb|result_handle.read()| again
returns an empty string.
\begin{verbatim}
->>> save_file = open("my_blast.xml", "w")
->>> save_file.write(result_handle.read())
->>> save_file.close()
+>>> with open("my_blast.xml", "w") as out_handle:
+... out_handle.write(result_handle.read())
+...
>>> result_handle.close()
\end{verbatim}
diff --git a/Doc/Tutorial/chapter_cluster.tex b/Doc/Tutorial/chapter_cluster.tex
index fb7684f..144edbc 100644
--- a/Doc/Tutorial/chapter_cluster.tex
+++ b/Doc/Tutorial/chapter_cluster.tex
@@ -677,18 +677,19 @@ An object of the class \verb|Record| contains all information stored in a Cluste
\begin{verbatim}
>>> from Bio import Cluster
->>> handle = open("mydatafile.txt")
->>> record = Cluster.read(handle)
->>> handle.close()
+>>> with open("mydatafile.txt") as handle:
+... record = Cluster.read(handle)
+...
\end{verbatim}
This two-step process gives you some flexibility in the source of the data.
For example, you can use
\begin{verbatim}
>>> import gzip # Python standard library
->>> handle = gzip.open("mydatafile.txt.gz")
+>>> handle = gzip.open("mydatafile.txt.gz", "rt")
\end{verbatim}
to open a gzipped file, or
+% TODO: The urlopen example needs to be in text mode for Python 3..
\begin{verbatim}
>>> import urllib # Python standard library
>>> handle = urllib.urlopen("http://somewhere.org/mydatafile.txt")
@@ -930,13 +931,16 @@ This argument describes the (column-wise) clustering result for the experimental
This method writes the text file \verb|jobname.cdt|, \verb|jobname.gtr|, \verb|jobname.atr|, \verb|jobname*.kgg|, and/or \verb|jobname*.kag| for subsequent reading by the Java TreeView program. If \verb|geneclusters| and \verb|expclusters| are both \verb|None|, this method only writes the text file \verb|jobname.cdt|; this file can subsequently be read into a new \verb|Record| object.
\section{Example calculation}
-This is an example of a hierarchical clustering calculation, using single linkage clustering for genes and maximum linkage clustering for experimental conditions. As the Euclidean distance is being used for gene clustering, it is necessary to scale the node distances \verb|genetree| such that they are all between zero and one. This is needed for the Java TreeView code to display the tree diagram correctly. To cluster the experimental conditions, the uncentered correlation is being used. [...]
+This is an example of a hierarchical clustering calculation, using single linkage clustering for genes and maximum linkage clustering for experimental conditions. As the Euclidean distance is being used for gene clustering, it is necessary to scale the node distances \verb|genetree| such that they are all between zero and one. This is needed for the Java TreeView code to display the tree diagram correctly. To cluster the experimental conditions, the uncentered correlation is being used. [...]
+The example data \verb|cyano.txt| can be found in Biopython's \verb|Tests/Cluster| subdirectory and is from the paper \cite[Hihara \textit{et al.}, 2001]{hihara2001}.
+
+%TODO, Windows: doctest ../Tests/Cluster lib:numpy
\begin{verbatim}
>>> from Bio import Cluster
->>> handle = open("cyano.txt")
->>> record = Cluster.read(handle)
->>> handle.close()
+>>> with open("cyano.txt") as handle:
+... record = Cluster.read(handle)
+...
>>> genetree = record.treecluster(method='s')
>>> genetree.scale()
>>> exptree = record.treecluster(dist='u', transpose=1)
@@ -947,11 +951,12 @@ This will create the files \verb|cyano_result.cdt|, \verb|cyano_result.gtr|, and
Similarly, we can save a $k$-means clustering solution:
+%TODO, Windows: doctest ../Tests/Cluster lib:numpy
\begin{verbatim}
>>> from Bio import Cluster
->>> handle = open("cyano.txt")
->>> record = Cluster.read(handle)
->>> handle.close()
+>>> with open("cyano.txt") as handle:
+... record = Cluster.read(handle)
+...
>>> (geneclusters, error, ifound) = record.kcluster(nclusters=5, npass=1000)
>>> (expclusters, error, ifound) = record.kcluster(nclusters=2, npass=100, transpose=1)
>>> record.save("cyano_result", geneclusters, expclusters)
@@ -970,4 +975,9 @@ returns the mean of the 1D array \verb|data|.
\verb|version()|
returns the version number of the underlying C Clustering Library as a string.
-
+%TODO, Windows: doctest . lib:numpy
+\begin{verbatim}
+>>> from Bio import Cluster
+>>> print(Cluster.version())
+1.50
+\end{verbatim}
diff --git a/Doc/Tutorial/chapter_cookbook.tex b/Doc/Tutorial/chapter_cookbook.tex
index 6ef94e1..28173e1 100644
--- a/Doc/Tutorial/chapter_cookbook.tex
+++ b/Doc/Tutorial/chapter_cookbook.tex
@@ -36,21 +36,57 @@ Try something like this:
%makes it easier to copy and paste the example to a script file.
\begin{verbatim}
from Bio import SeqIO
+
input_file = "big_file.sff"
id_file = "short_list.txt"
output_file = "short_list.sff"
-wanted = set(line.rstrip("\n").split(None,1)[0] for line in open(id_file))
+
+with open(id_file) as id_handle:
+ wanted = set(line.rstrip("\n").split(None,1)[0] for line in id_handle)
print("Found %i unique identifiers in %s" % (len(wanted), id_file))
+
records = (r for r in SeqIO.parse(input_file, "sff") if r.id in wanted)
count = SeqIO.write(records, output_file, "sff")
print("Saved %i records from %s to %s" % (count, input_file, output_file))
if count < len(wanted):
- print("Warning %i IDs not found in %s" % (len(wanted)-count, input_file))
+ print("Warning %i IDs not found in %s" % (len(wanted) - count, input_file))
\end{verbatim}
Note that we use a Python \verb|set| rather than a \verb|list|, this makes
testing membership faster.
+As discussed in Section~\ref{sec:low-level-fasta-fastq}, for a large FASTA
+or FASTQ file for speed you would be better off not using the high-level
+\verb|SeqIO| interface, but working directly with strings. This next
+example shows how to do this with FASTQ files -- it is more complicated:
+
+%not a doctest to avoid temp files being left behind, also no >>>
+%makes it easier to copy and paste the example to a script file.
+\begin{verbatim}
+from Bio.SeqIO.QualityIO import FastqGeneralIterator
+
+input_file = "big_file.fastq"
+id_file = "short_list.txt"
+output_file = "short_list.fastq"
+
+with open(id_file) as id_handle:
+ # Taking first word on each line as an identifer
+ wanted = set(line.rstrip("\n").split(None,1)[0] for line in id_handle)
+print("Found %i unique identifiers in %s" % (len(wanted), id_file))
+
+with open(input_file) as in_handle:
+ with open(output_file, "w") as out_handle:
+ for title, seq, qual in FastqGeneralIterator(in_handle):
+ # The ID is the first word in the title line (after the @ sign):
+ if title.split(None, 1)[0] in wanted:
+ # This produces a standard 4-line FASTQ entry:
+ out_handle.write("@%s\n%s\n+\n%s\n" % (title, seq, qual))
+ count += 1
+print("Saved %i records from %s to %s" % (count, input_file, output_file))
+if count < len(wanted):
+ print("Warning %i IDs not found in %s" % (len(wanted) - count, input_file))
+\end{verbatim}
+
\subsection{Producing randomised genomes}
Let's suppose you are looking at genome sequence, hunting for some sequence
@@ -63,7 +99,7 @@ there just by chance).
For this discussion, we'll use the GenBank file for the pPCP1 plasmid from
\textit{Yersinia pestis biovar Microtus}. The file is included with the
Biopython unit tests under the GenBank folder, or you can get it from our
-website, \href{http://biopython.org/SRC/biopython/Tests/GenBank/NC_005816.gb}
+website, \href{https://raw.githubusercontent.com/biopython/biopython/master/Tests/GenBank/NC_005816.gb}
{\texttt{NC\_005816.gb}}.
This file contains one and only one record, so we can read it in as a
\verb|SeqRecord| using the \verb|Bio.SeqIO.read()| function:
@@ -83,7 +119,7 @@ use the built in Python \verb|random| module for this, in particular the functio
\begin{verbatim}
>>> import random
>>> nuc_list = list(original_rec.seq)
->>> random.shuffle(nuc_list) #acts in situ!
+>>> random.shuffle(nuc_list) # acts in situ!
\end{verbatim}
Now, in order to use \verb|Bio.SeqIO| to output the shuffled sequence, we need
@@ -98,6 +134,7 @@ this is with the string object's join method.
>>> from Bio.SeqRecord import SeqRecord
>>> shuffled_rec = SeqRecord(Seq("".join(nuc_list), original_rec.seq.alphabet),
... id="Shuffled", description="Based on %s" % original_rec.id)
+...
\end{verbatim}
Let's put all these pieces together to make a complete Python script which
@@ -116,15 +153,14 @@ from Bio import SeqIO
original_rec = SeqIO.read("NC_005816.gb","genbank")
-handle = open("shuffled.fasta", "w")
-for i in range(30):
- nuc_list = list(original_rec.seq)
- random.shuffle(nuc_list)
- shuffled_rec = SeqRecord(Seq("".join(nuc_list), original_rec.seq.alphabet), \
- id="Shuffled%i" % (i+1), \
- description="Based on %s" % original_rec.id)
- handle.write(shuffled_rec.format("fasta"))
-handle.close()
+with open("shuffled.fasta", "w") as output_handle:
+ for i in range(30):
+ nuc_list = list(original_rec.seq)
+ random.shuffle(nuc_list)
+ shuffled_rec = SeqRecord(Seq("".join(nuc_list), original_rec.seq.alphabet),
+ id="Shuffled%i" % (i+1),
+ description="Based on %s" % original_rec.id)
+ out_handle.write(shuffled_rec.format("fasta"))
\end{verbatim}
Personally I prefer the following version using a function to shuffle the record
@@ -139,15 +175,13 @@ from Bio import SeqIO
def make_shuffle_record(record, new_id):
nuc_list = list(record.seq)
random.shuffle(nuc_list)
- return SeqRecord(Seq("".join(nuc_list), record.seq.alphabet), \
- id=new_id, description="Based on %s" % original_rec.id)
+ return SeqRecord(Seq("".join(nuc_list), record.seq.alphabet),
+ id=new_id, description="Based on %s" % original_rec.id)
original_rec = SeqIO.read("NC_005816.gb","genbank")
-shuffled_recs = (make_shuffle_record(original_rec, "Shuffled%i" % (i+1)) \
+shuffled_recs = (make_shuffle_record(original_rec, "Shuffled%i" % (i+1))
for i in range(30))
-handle = open("shuffled.fasta", "w")
-SeqIO.write(shuffled_recs, handle, "fasta")
-handle.close()
+SeqIO.write(shuffled_recs, "shuffled.fasta", "fasta")
\end{verbatim}
\subsection{Translating a FASTA file of CDS entries}
@@ -233,20 +267,20 @@ as a list of \verb|SeqRecord| objects, sort the list, and save it:
\begin{verbatim}
from Bio import SeqIO
-records = list(SeqIO.parse("ls_orchid.fasta","fasta"))
-records.sort(cmp=lambda x,y: cmp(len(x),len(y)))
+records = list(SeqIO.parse("ls_orchid.fasta", "fasta"))
+records.sort(key=lambda r: len(r))
SeqIO.write(records, "sorted_orchids.fasta", "fasta")
\end{verbatim}
-The only clever bit is specifying a comparison function for how to
+The only clever bit is specifying a comparison method for how to
sort the records (here we sort them by length). If you wanted the
longest records first, you could flip the comparison or use the
reverse argument:
\begin{verbatim}
from Bio import SeqIO
-records = list(SeqIO.parse("ls_orchid.fasta","fasta"))
-records.sort(cmp=lambda x,y: cmp(len(y),len(x)))
+records = list(SeqIO.parse("ls_orchid.fasta", "fasta"))
+records.sort(key=lambda r: -len(r))
SeqIO.write(records, "sorted_orchids.fasta", "fasta")
\end{verbatim}
@@ -259,8 +293,8 @@ to sort by length. This can be solved using the
\begin{verbatim}
from Bio import SeqIO
# Get the lengths and ids, and sort on length
-len_and_ids = sorted((len(rec), rec.id) for rec in \
- SeqIO.parse("ls_orchid.fasta","fasta"))
+len_and_ids = sorted((len(rec), rec.id) for rec in
+ SeqIO.parse("ls_orchid.fasta", "fasta"))
ids = reversed([id for (length, id) in len_and_ids])
del len_and_ids # free this memory
record_index = SeqIO.index("ls_orchid.fasta", "fasta")
@@ -284,23 +318,43 @@ in Biopython 1.54 (see Section~\ref{sec:seqio-index-getraw}).
\begin{verbatim}
from Bio import SeqIO
+
# Get the lengths and ids, and sort on length
-len_and_ids = sorted((len(rec), rec.id) for rec in \
- SeqIO.parse("ls_orchid.fasta","fasta"))
+len_and_ids = sorted((len(rec), rec.id) for rec in
+ SeqIO.parse("ls_orchid.fasta", "fasta"))
ids = reversed([id for (length, id) in len_and_ids])
del len_and_ids # free this memory
+
record_index = SeqIO.index("ls_orchid.fasta", "fasta")
-handle = open("sorted.fasta", "wb")
-for id in ids:
- handle.write(record_index.get_raw(id))
-handle.close()
+with open("sorted.fasta", "wb") as out_handle:
+ for id in ids:
+ out_handle.write(record_index.get_raw(id))
\end{verbatim}
Note with Python 3 onwards, we have to open the file for writing in
binary mode because the \verb|get_raw()| method returns bytes strings.
As a bonus, because it doesn't parse the data into \verb|SeqRecord| objects
-a second time it should be faster.
+a second time it should be faster. If you only want to use this with FASTA
+format, we can speed this up one step further by using the low-level FASTA
+parser to get the record identifiers and lengths:
+
+\begin{verbatim}
+from Bio.SeqIO.FastaIO import SimpleFastaParser
+from Bio import SeqIO
+
+# Get the lengths and ids, and sort on length
+with open("ls_orchid.fasta") as in_handle:
+ len_and_ids = sorted((len(seq), title.split(None, 1)[0]) for
+ title, seq in SimpleFastaParser(in_handle))
+ids = reversed([id for (length, id) in len_and_ids])
+del len_and_ids # free this memory
+
+record_index = SeqIO.index("ls_orchid.fasta", "fasta")
+with open("sorted.fasta", "wb") as out_handle:
+ for id in ids:
+ out_handle.write(record_index.get_raw(id))
+\end{verbatim}
\subsection{Simple quality filtering for FASTQ files}
\label{sec:FASTQ-filtering-example}
@@ -357,6 +411,10 @@ them all into memory at once. This example uses a generator expression, which
means only one \verb|SeqRecord| is created at a time - avoiding any memory
limitations.
+Note that it would be faster to use the low-level \verb|FastqGeneralIterator|
+parser here (see Section~\ref{sec:low-level-fasta-fastq}), but that does not
+turn the quality string into integer scores.
+
\subsection{Trimming off primer sequences}
\label{sec:FASTQ-slicing-off-primer}
@@ -364,7 +422,11 @@ For this example we're going to pretend that \texttt{GATGACGGTGT} is a 5' primer
sequence we want to look for in some FASTQ formatted read data. As in the example
above, we'll use the \texttt{SRR020192.fastq} file downloaded from the ENA
(\url{ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR020/SRR020192/SRR020192.fastq.gz}).
-The same approach would work with any other supported file format (e.g. FASTA files).
+
+By using the main \verb|Bio.SeqIO| interface, the same approach would work with
+any other supported file format (e.g. FASTA files). However, for large FASTQ
+files it would be faster the low-level \verb|FastqGeneralIterator| parser here
+(see the earlier example, and Section~\ref{sec:low-level-fasta-fastq}).
This code uses \verb|Bio.SeqIO| with a generator expression (to avoid loading
all the sequences into memory at once), and the \verb|Seq| object's
@@ -400,7 +462,7 @@ print("Saved %i reads" % count)
but this time strip off the first ten characters, and save them to another new
FASTQ file, \texttt{with\_primer\_trimmed.fastq}.
-Finally, suppose you want to create a new FASTQ file where these reads have
+Now, suppose you want to create a new FASTQ file where these reads have
their primer removed, but all the other reads are kept as they were?
If we want to still use a generator expression, it is probably clearest to
define our own trim function:
@@ -668,17 +730,16 @@ pair of FASTA and QUAL files into a single FASTQ files:
\begin{verbatim}
from Bio import SeqIO
from Bio.SeqIO.QualityIO import PairedFastaQualIterator
-handle = open("temp.fastq", "w") #w=write
-records = PairedFastaQualIterator(open("example.fasta"), open("example.qual"))
-count = SeqIO.write(records, handle, "fastq")
-handle.close()
+with open("example.fasta") as f_handle, open("example.qual") as q_handle:
+ records = PairedFastaQualIterator(f_handle, q_handle)
+ count = SeqIO.write(records, "temp.fastq", "fastq")
print("Converted %i records" % count)
\end{verbatim}
\subsection{Indexing a FASTQ file}
\label{sec:fastq-indexing}
-FASTQ files are often very large, with millions of reads in them. Due to the
+FASTQ files are usually very large, with millions of reads in them. Due to the
sheer amount of data, you can't load all the records into memory at once.
This is why the examples above (filtering and trimming) iterate over the file
looking at just one \verb|SeqRecord| at a time.
@@ -706,6 +767,10 @@ Seq('GTCCCAGTATTCGGATTTGTCTGCCAAAACAATGAAATTGACACAGTTTACAAC...CCG', SingleLetter
When testing this on a FASTQ file with seven million reads,
indexing took about a minute, but record access was almost instant.
+The sister function \verb|Bio.SeqIO.index_db()| lets you save the index
+to an SQLite3 database file for near instantaneous reuse - see
+Section~\ref{sec:SeqIO-index} for more details.
+
The example in Section~\ref{sec:SeqIO-sort} show how you can use the
\verb|Bio.SeqIO.index()| function to sort a large FASTA file -- this
could also be used on FASTQ files.
@@ -785,7 +850,7 @@ too. However, this approach is still useful in viruses and Prokaryotes.
To show how you might approach this with Biopython, we'll need a sequence to
search, and as an example we'll again use the bacterial plasmid -- although
this time we'll start with a plain FASTA file with no pre-marked genes:
-\href{http://biopython.org/SRC/biopython/Tests/GenBank/NC_005816.fna}
+\href{https://raw.githubusercontent.com/biopython/biopython/master/Tests/GenBank/NC_005816.fna}
{\texttt{NC\_005816.fna}}. This is a bacterial sequence, so we'll want to use
NCBI codon table 11 (see Section~\ref{sec:translation} about translation).
@@ -1082,11 +1147,10 @@ the first two from our orchid FASTA file \href{https://raw.githubusercontent.com
\begin{verbatim}
from Bio import SeqIO
-handle = open("ls_orchid.fasta")
-record_iterator = SeqIO.parse(handle, "fasta")
-rec_one = next(record_iterator)
-rec_two = next(record_iterator)
-handle.close()
+with open("ls_orchid.fasta") as in_handle:
+ record_iterator = SeqIO.parse(in_handle, "fasta")
+ rec_one = next(record_iterator)
+ rec_two = next(record_iterator)
\end{verbatim}
We're going to show two approaches. Firstly, a simple naive implementation
@@ -1099,9 +1163,9 @@ comprehension:
window = 7
seq_one = str(rec_one.seq).upper()
seq_two = str(rec_two.seq).upper()
-data = [[(seq_one[i:i+window] <> seq_two[j:j+window]) \
- for j in range(len(seq_one)-window)] \
- for i in range(len(seq_two)-window)]
+data = [[(seq_one[i:i+window] <> seq_two[j:j+window])
+ for j in range(len(seq_one)-window)]
+ for i in range(len(seq_two)-window)]
\end{verbatim}
Note that we have \emph{not} checked for reverse complement matches here.
@@ -1478,6 +1542,28 @@ info_content = summary_align.information_content(5, 30, log_base = 10,
chars_to_ignore = ['N'])
\end{verbatim}
+By default nucleotide or amino acid residues with a frequency of 0 in a column are not take into account when the relative information column for that column is computed. If this is not the desired result, you can use \verb|pseudo_count| instead.
+
+\begin{verbatim}
+info_content = summary_align.information_content(5, 30,
+ chars_to_ignore = ['N'],
+ pseudo_count = 1)
+\end{verbatim}
+
+In this case, the observed frequency $P_{ij}$ of a particular letter $i$ in the $j$-th column is computed as follow :
+
+\begin{displaymath}
+P_{ij} = \frac{n_{ij} + k\times Q_{i}}{N_{j} + k}
+\end{displaymath}
+
+\noindent where:
+
+\begin{itemize}
+ \item $k$ -- the pseudo count you pass as argument.
+ \item $k$ -- the pseudo count you pass as argument.
+ \item $Q_{i}$ -- The expected frequency of the letter $i$ as described above.
+\end{itemize}
+
Well, now you are ready to calculate information content. If you want to try applying this to some real life problems, it would probably be best to dig into the literature on information content to get an idea of how it is used. Hopefully your digging won't reveal any mistakes made in coding this function!
\section{Substitution Matrices}
diff --git a/Doc/Tutorial/chapter_entrez.tex b/Doc/Tutorial/chapter_entrez.tex
index 336fb12..7182e65 100644
--- a/Doc/Tutorial/chapter_entrez.tex
+++ b/Doc/Tutorial/chapter_entrez.tex
@@ -34,12 +34,14 @@ To paraphrase:
\item Use the \url{http://eutils.ncbi.nlm.nih.gov} address, not the standard NCBI Web address. Biopython uses this web address.
\item Make no more than three requests every seconds (relaxed from at most one request every three seconds in early 2009). This is automatically enforced by Biopython.
\item Use the optional email parameter so the NCBI can contact you if there is a problem. You can either explicitly set this as a parameter with each call to Entrez (e.g. include {\tt email="A.N.Other at example.com"} in the argument list), or you can set a global email address:
+%doctest
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com"
\end{verbatim}
-{\tt Bio.Entrez} will then use this email address with each call to Entrez. The {\tt example.com} address is a reserved domain name specifically for documentation (RFC 2606). Please DO NOT use a random email -- it's better not to give an email at all. The email parameter will be mandatory from June 1, 2010. In case of excessive usage, NCBI will attempt to contact a user at the e-mail address provided prior to blocking access to the E-utilities.
+{\tt Bio.Entrez} will then use this email address with each call to Entrez. The {\tt example.com} address is a reserved domain name specifically for documentation (RFC 2606). Please DO NOT use a random email -- it's better not to give an email at all. The email parameter has been mandatory since June 1, 2010. In case of excessive usage, NCBI will attempt to contact a user at the e-mail address provided prior to blocking access to the E-utilities.
\item If you are using Biopython within some larger software suite, use the tool parameter to specify this. You can either explicitly set the tool name as a parameter with each call to Entrez (e.g. include {\tt tool="MyLocalScript"} in the argument list), or you can set a global tool name:
+%doctest
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.tool = "MyLocalScript"
@@ -53,11 +55,14 @@ In conclusion, be sensible with your usage levels. If you plan to download lots
\section{EInfo: Obtaining information about the Entrez databases}
\label{sec:entrez-einfo}
EInfo provides field index term counts, last update, and available links for each of NCBI's databases. In addition, you can use EInfo to obtain a list of all database names accessible through the Entrez utilities:
+%Run this as a doctest in current directory, requires internet access!
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
>>> handle = Entrez.einfo()
>>> result = handle.read()
+>>> handle.close()
\end{verbatim}
The variable \verb+result+ now contains a list of databases in XML format:
\begin{verbatim}
@@ -109,17 +114,20 @@ The variable \verb+result+ now contains a list of databases in XML format:
\end{verbatim}
Since this is a fairly simple XML file, we could extract the information it contains simply by string searching. Using \verb+Bio.Entrez+'s parser instead, we can directly parse this XML file into a Python object:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> handle = Entrez.einfo()
>>> record = Entrez.read(handle)
\end{verbatim}
Now \verb+record+ is a dictionary with exactly one key:
+%Not continuing doctest due as only Python 2 will show a u'string' prefix...
\begin{verbatim}
>>> record.keys()
-[u'DbList']
+['DbList']
\end{verbatim}
The values stored in this key is the list of database names shown in the XML above:
+%Line-wrapping for display so not using for doctest
\begin{verbatim}
>>> record["DbList"]
['pubmed', 'protein', 'nucleotide', 'nuccore', 'nucgss', 'nucest',
@@ -131,11 +139,15 @@ The values stored in this key is the list of database names shown in the XML abo
\end{verbatim}
For each of these databases, we can use EInfo again to obtain more information:
+%cont-doctest
\begin{verbatim}
>>> handle = Entrez.einfo(db="pubmed")
>>> record = Entrez.read(handle)
>>> record["DbInfo"]["Description"]
'PubMed bibliographic record'
+\end{verbatim}
+%These are too changable to use in doctest
+\begin{verbatim}
>>> record["DbInfo"]["Count"]
'17989604'
>>> record["DbInfo"]["LastUpdate"]
@@ -144,9 +156,11 @@ For each of these databases, we can use EInfo again to obtain more information:
Try \verb+record["DbInfo"].keys()+ for other information stored in this record.
One of the most useful is a list of possible search fields for use with ESearch:
+%Output is truncated so can't easily use in doctest
\begin{verbatim}
>>> for field in record["DbInfo"]["FieldList"]:
... print("%(Name)s, %(FullName)s, %(Description)s" % field)
+...
ALL, All Fields, All terms from all searchable fields
UID, UID, Unique number assigned to publication
FILT, Filter, Limits the records
@@ -169,31 +183,38 @@ familiar with a particular database.
\section{ESearch: Searching the Entrez databases}
\label{sec:entrez-esearch}
To search any of these databases, we use \verb+Bio.Entrez.esearch()+. For example, let's search in PubMed for publications related to Biopython:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
>>> handle = Entrez.esearch(db="pubmed", term="biopython")
>>> record = Entrez.read(handle)
->>> record["IdList"]
-['19304878', '18606172', '16403221', '16377612', '14871861', '14630660', '12230038']
+>>> "19304878" in record["IdList"]
+True
\end{verbatim}
-In this output, you see seven PubMed IDs (including 19304878 which is the PMID for the Biopython application note), which can be retrieved by EFetch (see section \ref{sec:efetch}).
+%truncted for display, so not in doctest
+\begin{verbatim}
+>>> print(record["IdList"])
+['28011774', '24929426', '24497503', '24267035', '24194598', ..., '14871861']
+\end{verbatim}
+In this output, you see lots of PubMed IDs (including 19304878 which is the PMID for the Biopython application note), which can be retrieved by EFetch (see section \ref{sec:efetch}).
You can also use ESearch to search GenBank. Here we'll do a quick
search for the \emph{matK} gene in \emph{Cypripedioideae} orchids
(see Section~\ref{sec:entrez-einfo} about EInfo for one way to
find out which fields you can search in each Entrez database):
+% Search results too changable for use in doctest
\begin{verbatim}
->>> handle = Entrez.esearch(db="nucleotide", term="Cypripedioideae[Orgn] AND matK[Gene]")
+>>> handle = Entrez.esearch(db="nucleotide", term="Cypripedioideae[Orgn] AND matK[Gene]", idtype="acc")
>>> record = Entrez.read(handle)
>>> record["Count"]
-'25'
+'348'
>>> record["IdList"]
-['126789333', '37222967', '37222966', '37222965', ..., '61585492']
+['JQ660909.1', 'JQ660908.1', 'JQ660907.1', 'JQ660906.1', ..., 'JQ660890.1']
\end{verbatim}
-\noindent Each of the IDs (126789333, 37222967, 37222966, \ldots) is a GenBank identifier.
+\noindent Each of the IDs (JQ660909.1, JQ660908.1, JQ660907.1, \ldots) is a GenBank identifier (Accession number).
See section~\ref{sec:efetch} for information on how to actually download these GenBank records.
Note that instead of a species name like \texttt{Cypripedioideae[Orgn]}, you can restrict the search using an NCBI taxon identifier, here this would be \texttt{txid158330[Orgn]}. This isn't currently documented on the ESearch help page - the NCBI explained this in reply to an email query. You can often deduce the search term formatting by playing with the Entrez web interface. For example, including \texttt{complete[prop]} in a genome search restricts to just completed genomes.
@@ -247,6 +268,7 @@ Let's look at a simple example to see how EPost works -- uploading some PubMed i
\end{verbatim}
\noindent The returned XML includes two important strings, \verb|QueryKey| and \verb|WebEnv| which together define your history session.
You would extract these values for use with another Entrez call such as EFetch:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
@@ -259,6 +281,7 @@ You would extract these values for use with another Entrez call such as EFetch:
\section{ESummary: Retrieving summaries from primary IDs}
ESummary retrieves document summaries from a list of primary IDs (see the \href{http://www.ncbi.nlm.nih.gov/entrez/query/static/esummary\_help.html}{ESummary help page} for more information). In Biopython, ESummary is available as \verb+Bio.Entrez.esummary()+. Using the search result above, we can for example find out more about the journal with ID 30367:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
@@ -279,18 +302,19 @@ This covers several possible databases, as described on the main \href{http://eu
For most of their databases, the NCBI support several different file formats. Requesting a specific file format from Entrez using \verb|Bio.Entrez.efetch()| requires specifying the \verb|rettype| and/or \verb|retmode| optional arguments. The different combinations are described for each database type on the pages linked to on \href{http://www.ncbi.nlm.nih.gov/entrez/query/static/efetch_help.html}{NCBI efetch webpage} (e.g. \href{http://eutils.ncbi.nlm.nih.gov/corehtml/query/static/efetc [...]
-One common usage is downloading sequences in the FASTA or GenBank/GenPept plain text formats (which can then be parsed with \verb|Bio.SeqIO|, see Sections~\ref{sec:SeqIO_GenBank_Online} and~\ref{sec:efetch}). From the \emph{Cypripedioideae} example above, we can download GenBank record 186972394 using \verb+Bio.Entrez.efetch+:
+One common usage is downloading sequences in the FASTA or GenBank/GenPept plain text formats (which can then be parsed with \verb|Bio.SeqIO|, see Sections~\ref{sec:SeqIO_GenBank_Online} and~\ref{sec:efetch}). From the \emph{Cypripedioideae} example above, we can download GenBank record EU490707 using \verb+Bio.Entrez.efetch+:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
->>> handle = Entrez.efetch(db="nucleotide", id="186972394", rettype="gb", retmode="text")
+>>> handle = Entrez.efetch(db="nucleotide", id="EU490707", rettype="gb", retmode="text")
>>> print(handle.read())
-LOCUS EU490707 1302 bp DNA linear PLN 05-MAY-2008
+LOCUS EU490707 1302 bp DNA linear PLN 26-JUL-2016
DEFINITION Selenipedium aequinoctiale maturase K (matK) gene, partial cds;
chloroplast.
ACCESSION EU490707
-VERSION EU490707.1 GI:186972394
+VERSION EU490707.1
KEYWORDS .
SOURCE chloroplast Selenipedium aequinoctiale
ORGANISM Selenipedium aequinoctiale
@@ -298,10 +322,11 @@ SOURCE chloroplast Selenipedium aequinoctiale
Spermatophyta; Magnoliophyta; Liliopsida; Asparagales; Orchidaceae;
Cypripedioideae; Selenipedium.
REFERENCE 1 (bases 1 to 1302)
- AUTHORS Neubig,K.M., Whitten,W.M., Carlsward,B.S., Blanco,M.A.,
- Endara,C.L., Williams,N.H. and Moore,M.J.
- TITLE Phylogenetic utility of ycf1 in orchids
- JOURNAL Unpublished
+ AUTHORS Neubig,K.M., Whitten,W.M., Carlsward,B.S., Blanco,M.A., Endara,L.,
+ Williams,N.H. and Moore,M.
+ TITLE Phylogenetic utility of ycf1 in orchids: a plastid gene more
+ variable than matK
+ JOURNAL Plant Syst. Evol. 277 (1-2), 75-84 (2009)
REFERENCE 2 (bases 1 to 1302)
AUTHORS Neubig,K.M., Whitten,W.M., Carlsward,B.S., Blanco,M.A.,
Endara,C.L., Williams,N.H. and Moore,M.J.
@@ -323,7 +348,6 @@ FEATURES Location/Qualifiers
/transl_table=11
/product="maturase K"
/protein_id="ACC99456.1"
- /db_xref="GI:186972395"
/translation="IFYEPVEIFGYDNKSSLVLVKRLITRMYQQNFLISSVNDSNQKG
FWGHKHFFSSHFSSQMVSEGFGVILEIPFSSQLVSSLEEKKIPKYQNLRSIHSIFPFL
EDKFLHLNYVSDLLIPHPIHLEILVQILQCRIKDVPSLHLLRLLFHEYHNLNSLITSK
@@ -332,7 +356,7 @@ FEATURES Location/Qualifiers
FWSQPYRIHIKQLSNYSFSFLGYFSSVLENHLVVRNQMLENSFIINLLTKKFDTIAPV
ISLIGSLSKAQFCTVLGHPISKPIWTDFSDSDILDRFCRICRNLCRYHSGSSKKQVLY
RIKYILRLSCARTLARKHKSTVRTFMRRLGSGLLEEFFMEEE"
-ORIGIN
+ORIGIN
1 attttttacg aacctgtgga aatttttggt tatgacaata aatctagttt agtacttgtg
61 aaacgtttaa ttactcgaat gtatcaacag aattttttga tttcttcggt taatgattct
121 aaccaaaaag gattttgggg gcacaagcat tttttttctt ctcatttttc ttctcaaatg
@@ -356,31 +380,40 @@ ORIGIN
1201 tcgtgtgcta gaactttggc acggaaacat aaaagtacag tacgcacttt tatgcgaaga
1261 ttaggttcgg gattattaga agaattcttt atggaagaag aa
//
+<BLANKLINE>
+<BLANKLINE>
\end{verbatim}
+Please be aware that as of October 2016 GI identifiers are discontinued in favour of accession numbers. You can still fetch sequences based on their GI, but new sequences are no longer given this identifier. You should instead refer to them by the ``Accession number'' as done in the example.
+
The arguments \verb+rettype="gb"+ and \verb+retmode="text"+ let us download this record in the GenBank format.
Note that until Easter 2009, the Entrez EFetch API let you use ``genbank'' as the
return type, however the NCBI now insist on using the official return types of
``gb'' or ``gbwithparts'' (or ``gp'' for proteins) as described on online.
-Also not that until Feb 2012, the Entrez EFetch API would default to returning
+Also note that until Feb 2012, the Entrez EFetch API would default to returning
plain text files, but now defaults to XML.
Alternatively, you could for example use \verb+rettype="fasta"+ to get the Fasta-format; see the \href{http://www.ncbi.nlm.nih.gov/entrez/query/static/efetchseq\_help.html}{EFetch Sequences Help page} for other options. Remember -- the available formats depend on which database you are downloading from - see the main \href{http://eutils.ncbi.nlm.nih.gov/entrez/query/static/efetch\_help.html}{EFetch Help page}.
If you fetch the record in one of the formats accepted by \verb+Bio.SeqIO+ (see Chapter~\ref{chapter:Bio.SeqIO}), you could directly parse it into a \verb+SeqRecord+:
+%doctest . internet
\begin{verbatim}
->>> from Bio import Entrez, SeqIO
->>> handle = Entrez.efetch(db="nucleotide", id="186972394", rettype="gb", retmode="text")
+>>> from Bio import Entrez
+>>> from Bio import SeqIO
+>>> handle = Entrez.efetch(db="nucleotide", id="EU490707", rettype="gb", retmode="text")
>>> record = SeqIO.read(handle, "genbank")
>>> handle.close()
->>> print(record)
-ID: EU490707.1
-Name: EU490707
-Description: Selenipedium aequinoctiale maturase K (matK) gene, partial cds; chloroplast.
-Number of features: 3
-...
+>>> print(record.id)
+EU490707.1
+>>> print(record.name)
+EU490707
+>>> print(record.description)
+Selenipedium aequinoctiale maturase K (matK) gene, partial cds; chloroplast
+>>> print(len(record.features))
+3
+>>> print(repr(record.seq))
Seq('ATTTTTTACGAACCTGTGGAAATTTTTGGTTATGACAATAAATCTAGTTTAGTA...GAA', IUPACAmbiguousDNA())
\end{verbatim}
@@ -391,10 +424,10 @@ import os
from Bio import SeqIO
from Bio import Entrez
Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
-filename = "gi_186972394.gbk"
+filename = "EU490707.gbk"
if not os.path.isfile(filename):
# Downloading...
- net_handle = Entrez.efetch(db="nucleotide", id="186972394", rettype="gb", retmode="text")
+ net_handle = Entrez.efetch(db="nucleotide", id="EU490707", rettype="gb", retmode="text")
out_handle = open(filename, "w")
out_handle.write(net_handle.read())
out_handle.close()
@@ -408,9 +441,10 @@ print(record)
To get the output in XML format, which you can parse using the \verb+Bio.Entrez.read()+ function, use \verb+retmode="xml"+:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
->>> handle = Entrez.efetch(db="nucleotide", id="186972394", retmode="xml")
+>>> handle = Entrez.efetch(db="nucleotide", id="EU490707", retmode="xml")
>>> record = Entrez.read(handle)
>>> handle.close()
>>> record[0]["GBSeq_definition"]
@@ -431,6 +465,7 @@ and other cool stuff.
Let's use ELink to find articles related to the Biopython application note published in \textit{Bioinformatics} in 2009. The PubMed ID of this article is 19304878:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com"
@@ -440,6 +475,7 @@ Let's use ELink to find articles related to the Biopython application note publi
The \verb+record+ variable consists of a Python list, one for each database in which we searched. Since we specified only one PubMed ID to search for, \verb+record+ contains only one item. This item is a dictionary containing information about our search term, as well as all the related items that were found:
+%cont-doctest
\begin{verbatim}
>>> record[0]["DbFrom"]
'pubmed'
@@ -449,32 +485,39 @@ The \verb+record+ variable consists of a Python list, one for each database in w
The \verb+"LinkSetDb"+ key contains the search results, stored as a list consisting of one item for each target database. In our search results, we only find hits in the PubMed database (although sub-divided into categories):
+%cont-doctest
\begin{verbatim}
>>> len(record[0]["LinkSetDb"])
-5
+8
+\end{verbatim}
+\noindent The exact numbers should increase over time:
+\begin{verbatim}
>>> for linksetdb in record[0]["LinkSetDb"]:
... print(linksetdb["DbTo"], linksetdb["LinkName"], len(linksetdb["Link"]))
...
-pubmed pubmed_pubmed 110
+pubmed pubmed_pubmed 162
+pubmed pubmed_pubmed_alsoviewed 3
+pubmed pubmed_pubmed_citedin 430
pubmed pubmed_pubmed_combined 6
pubmed pubmed_pubmed_five 6
-pubmed pubmed_pubmed_reviews 5
-pubmed pubmed_pubmed_reviews_five 5
+pubmed pubmed_pubmed_refs 17
+pubmed pubmed_pubmed_reviews 7
+pubmed pubmed_pubmed_reviews_five 6
\end{verbatim}
-The actual search results are stored as under the \verb+"Link"+ key. In total, 110 items were found under
-standard search.
+The actual search results are stored as under the \verb+"Link"+ key.
+
Let's now at the first search result:
\begin{verbatim}
>>> record[0]["LinkSetDb"][0]["Link"][0]
-{u'Id': '19304878'}
+{'Id': '19304878'}
\end{verbatim}
\noindent This is the article we searched for, which doesn't help us much, so let's look at the second search result:
\begin{verbatim}
>>> record[0]["LinkSetDb"][0]["Link"][1]
-{u'Id': '14630660'}
+{'Id': '14630660'}
\end{verbatim}
\noindent This paper, with PubMed ID 14630660, is about the Biopython PDB parser.
@@ -521,9 +564,10 @@ See the \href{http://www.ncbi.nlm.nih.gov/entrez/query/static/egquery\_help.html
\section{ESpell: Obtaining spelling suggestions}
ESpell retrieves spelling suggestions. In this example, we use \verb+Bio.Entrez.espell()+ to obtain the correct spelling of Biopython:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
->>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
+>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
>>> handle = Entrez.espell(term="biopythooon")
>>> record = Entrez.read(handle)
>>> record["Query"]
@@ -552,7 +596,6 @@ The XML file \verb+Homo_sapiens.xml+ consists of a list of Entrez gene records,
>>> from Bio import Entrez
>>> handle = open("Homo_sapiens.xml")
>>> records = Entrez.parse(handle)
-
>>> for record in records:
... status = record['Entrezgene_track-info']['Gene-track']['Gene-track_status']
... if status.attributes['value']=='discontinued':
@@ -560,6 +603,7 @@ The XML file \verb+Homo_sapiens.xml+ consists of a list of Entrez gene records,
... geneid = record['Entrezgene_track-info']['Gene-track']['Gene-track_geneid']
... genename = record['Entrezgene_gene']['Gene-ref']['Gene-ref_locus']
... print(geneid, genename)
+...
\end{verbatim}
This will print:
@@ -591,16 +635,13 @@ Three things can go wrong when parsing an XML file:
\end{itemize}
The first case occurs if, for example, you try to parse a Fasta file as if it were an XML file:
+%doctest ../Tests/GenBank
\begin{verbatim}
>>> from Bio import Entrez
>>> handle = open("NC_005816.fna") # a Fasta file
>>> record = Entrez.read(handle)
Traceback (most recent call last):
- File "<stdin>", line 1, in <module>
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/__init__.py", line 257, in read
- record = handler.read(handle)
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/Parser.py", line 164, in read
- raise NotXMLError(e)
+ ...
Bio.Entrez.Parser.NotXMLError: Failed to parse the XML data (syntax error: line 1, column 0). Please make sure that the input data are in XML format.
\end{verbatim}
Here, the parser didn't find the \verb|<?xml ...| tag with which an XML file is supposed to start, and therefore decides (correctly) that the file is not an XML file.
@@ -628,14 +669,8 @@ which will generate the following traceback:
\begin{verbatim}
>>> Entrez.read(handle)
Traceback (most recent call last):
- File "<stdin>", line 1, in <module>
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/__init__.py", line 257, in read
- record = handler.read(handle)
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/Parser.py", line 160, in read
- raise CorruptedXMLError(e)
+ ...
Bio.Entrez.Parser.CorruptedXMLError: Failed to parse the XML data (no element found: line 16, column 0). Please make sure that the input data are not corrupted.
-
->>>
\end{verbatim}
Note that the error message tells you at what point in the XML file the error was detected.
@@ -671,26 +706,22 @@ The third type of error occurs if the XML file contains tags that do not have a
In this file, for some reason the tag \verb|<DocsumList>| (and several others) are not listed in the DTD file \verb|eInfo_020511.dtd|, which is specified on the second line as the DTD for this XML file. By default, the parser will stop and raise a ValidationError if it cannot find some tag in the DTD:
+%doctest ../Tests/Entrez/
\begin{verbatim}
>>> from Bio import Entrez
>>> handle = open("einfo3.xml")
>>> record = Entrez.read(handle)
Traceback (most recent call last):
- File "<stdin>", line 1, in <module>
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/__init__.py", line 257, in read
- record = handler.read(handle)
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/Parser.py", line 154, in read
- self.parser.ParseFile(handle)
- File "/usr/local/lib/python2.7/site-packages/Bio/Entrez/Parser.py", line 246, in startElementHandler
- raise ValidationError(name)
+ ...
Bio.Entrez.Parser.ValidationError: Failed to find tag 'DocsumList' in the DTD. To skip all tags that are not represented in the DTD, please call Bio.Entrez.read or Bio.Entrez.parse with validate=False.
\end{verbatim}
Optionally, you can instruct the parser to skip such tags instead of raising a ValidationError. This is done by calling \verb|Entrez.read| or \verb|Entrez.parse| with the argument \verb|validate| equal to False:
+%doctest ../Tests/Entrez/
\begin{verbatim}
>>> from Bio import Entrez
>>> handle = open("einfo3.xml")
>>> record = Entrez.read(handle, validate=False)
->>>
+>>> handle.close()
\end{verbatim}
Of course, the information contained in the XML tags that are not in the DTD are not present in the record returned by \verb|Entrez.read|.
@@ -802,10 +833,9 @@ Here, we specify \verb+rettype="medline", retmode="text"+ to obtain the Medline
For comparison, here we show an example using the XML format:
\begin{verbatim}
->>> idlist = record["IdList"]
>>> handle = Entrez.efetch(db="pubmed", id=idlist, rettype="medline", retmode="xml")
>>> records = Entrez.read(handle)
->>> for record in records:
+>>> for record in records['PubmedArticle']:
... print(record["MedlineCitation"]["Article"]["ArticleTitle"])
Biopython: freely available Python tools for computational molecular biology and
bioinformatics.
@@ -843,15 +873,19 @@ The following code fragment shows how to parse the example GEO file
You can search the ``gds'' database (GEO datasets) with ESearch:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
>>> handle = Entrez.esearch(db="gds", term="GSE16")
>>> record = Entrez.read(handle)
+>>> handle.close()
>>> record["Count"]
-2
+'27'
+\end{verbatim}
+\begin{verbatim}
>>> record["IdList"]
-['200000016', '100000028']
+['200000016', '100000028', ...]
\end{verbatim}
From the Entrez website, UID ``200000016'' is GDS16 while the other hit
@@ -988,32 +1022,36 @@ In this example, we will query PubMed for all articles having to do with orchids
\end{verbatim}
Now we use the \verb+Bio.Entrez.efetch+ function to download the PubMed IDs of these 463 articles:
+%doctest . internet
\begin{verbatim}
+>>> from Bio import Entrez
>>> handle = Entrez.esearch(db="pubmed", term="orchid", retmax=463)
>>> record = Entrez.read(handle)
+>>> handle.close()
>>> idlist = record["IdList"]
->>> print(idlist)
\end{verbatim}
-
This returns a Python list containing all of the PubMed IDs of articles related to orchids:
\begin{verbatim}
+>>> print(idlist)
['18680603', '18665331', '18661158', '18627489', '18627452', '18612381',
'18594007', '18591784', '18589523', '18579475', '18575811', '18575690',
...
\end{verbatim}
Now that we've got them, we obviously want to get the corresponding Medline records and extract the information from them. Here, we'll download the Medline records in the Medline flat-file format, and use the \verb+Bio.Medline+ module to parse them:
+%cont-doctest
\begin{verbatim}
>>> from Bio import Medline
>>> handle = Entrez.efetch(db="pubmed", id=idlist, rettype="medline",
- retmode="text")
+... retmode="text")
>>> records = Medline.parse(handle)
\end{verbatim}
NOTE - We've just done a separate search and fetch here, the NCBI much prefer you to take advantage of their history support in this situation. See Section~\ref{sec:entrez-webenv}.
Keep in mind that \verb+records+ is an iterator, so you can iterate through the records only once. If you want to save the records, you can convert them to a list:
+%cont-doctest
\begin{verbatim}
>>> records = list(records)
\end{verbatim}
@@ -1026,6 +1064,7 @@ Let's now iterate over the records to print out some information about each reco
... print("authors:", record.get("AU", "?"))
... print("source:", record.get("SO", "?"))
... print("")
+...
\end{verbatim}
The output for this looks like:
@@ -1041,12 +1080,12 @@ source: J Comp Physiol [A] 2000 Jun;186(6):567-74
Especially interesting to note is the list of authors, which is returned as a standard Python list. This makes it easy to manipulate and search using standard Python tools. For instance, we could loop through a whole bunch of entries searching for a particular author with code like the following:
\begin{verbatim}
>>> search_author = "Waits T"
-
>>> for record in records:
... if not "AU" in record:
... continue
... if search_author in record["AU"]:
... print("Author %s found: %s" % (search_author, record["SO"]))
+...
\end{verbatim}
Hopefully this section gave you an idea of the power and flexibility of the Entrez and Medline interfaces and how they can be used together.
@@ -1065,27 +1104,33 @@ First, we use EGQuery to find out the number of results we will get before actua
>>> for row in record["eGQueryResult"]:
... if row["DbName"]=="nuccore":
... print(row["Count"])
-814
+4457
\end{verbatim}
-So, we expect to find 814 Entrez Nucleotide records (this is the number I obtained in 2008; it is likely to increase in the future). If you find some ridiculously high number of hits, you may want to reconsider if you really want to download all of them, which is our next step:
+So, we expect to find 4457 Entrez Nucleotide records (this increased from 814 records in 2008; it is likely to continue to increase in the future). If you find some ridiculously high number of hits, you may want to reconsider if you really want to download all of them, which is our next step.
+Let's use the \verb+retmax+ argument to restrict the maximum number of records retrieved to the number available in 2008:
+
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
->>> handle = Entrez.esearch(db="nucleotide", term="Cypripedioideae", retmax=814)
+>>> handle = Entrez.esearch(db="nucleotide", term="Cypripedioideae", retmax=814, idtype="acc")
>>> record = Entrez.read(handle)
+>>> handle.close()
\end{verbatim}
Here, \verb+record+ is a Python dictionary containing the search results and some auxiliary information. Just for information, let's look at what is stored in this dictionary:
\begin{verbatim}
>>> print(record.keys())
-[u'Count', u'RetMax', u'IdList', u'TranslationSet', u'RetStart', u'QueryTranslation']
+['Count', 'RetMax', 'IdList', 'TranslationSet', 'RetStart', 'QueryTranslation']
\end{verbatim}
First, let's check how many results were found:
\begin{verbatim}
>>> print(record["Count"])
-'814'
+'4457'
\end{verbatim}
-which is the number we expected. The 814 results are stored in \verb+record['IdList']+:
+You might have expected this to be 814, the maximum number of records we asked to retrieve.
+However, \verb+Count+ represents the total number of records available for that search, not how many were retrieved.
+The retrieved records are stored in \verb+record['IdList']+, which should contain the total number we asked for:
\begin{verbatim}
>>> len(record["IdList"])
814
@@ -1093,7 +1138,7 @@ which is the number we expected. The 814 results are stored in \verb+record['IdL
Let's look at the first five results:
\begin{verbatim}
>>> record["IdList"][:5]
-['187237168', '187372713', '187372690', '187372688', '187372686']
+['KX265015.1', 'KX265014.1', 'KX265013.1', 'KX265012.1', 'KX265011.1']
\end{verbatim}
\label{sec:entrez-batched-efetch}
@@ -1104,7 +1149,7 @@ However, in this situation you should ideally be using the history feature descr
\begin{verbatim}
>>> idlist = ",".join(record["IdList"][:5])
>>> print(idlist)
-187237168,187372713,187372690,187372688,187372686
+KX265015.1, KX265014.1, KX265013.1, KX265012.1, KX265011.1]
>>> handle = Entrez.efetch(db="nucleotide", id=idlist, retmode="xml")
>>> records = Entrez.read(handle)
>>> len(records)
@@ -1113,12 +1158,12 @@ However, in this situation you should ideally be using the history feature descr
Each of these records corresponds to one GenBank record.
\begin{verbatim}
>>> print(records[0].keys())
-[u'GBSeq_moltype', u'GBSeq_source', u'GBSeq_sequence',
- u'GBSeq_primary-accession', u'GBSeq_definition', u'GBSeq_accession-version',
- u'GBSeq_topology', u'GBSeq_length', u'GBSeq_feature-table',
- u'GBSeq_create-date', u'GBSeq_other-seqids', u'GBSeq_division',
- u'GBSeq_taxonomy', u'GBSeq_references', u'GBSeq_update-date',
- u'GBSeq_organism', u'GBSeq_locus', u'GBSeq_strandedness']
+['GBSeq_moltype', 'GBSeq_source', 'GBSeq_sequence',
+ 'GBSeq_primary-accession', 'GBSeq_definition', 'GBSeq_accession-version',
+ 'GBSeq_topology', 'GBSeq_length', 'GBSeq_feature-table',
+ 'GBSeq_create-date', 'GBSeq_other-seqids', 'GBSeq_division',
+ 'GBSeq_taxonomy', 'GBSeq_references', 'GBSeq_update-date',
+ 'GBSeq_organism', 'GBSeq_locus', 'GBSeq_strandedness']
>>> print(records[0]["GBSeq_primary-accession"])
DQ110336
@@ -1226,6 +1271,7 @@ Finally, if plan to repeat your analysis, rather than downloading the files from
\subsection{Finding the lineage of an organism}
Staying with a plant example, let's now find the lineage of the Cypripedioideae orchid family. First, we search the Taxonomy database for Cypripedioideae, which yields exactly one NCBI taxonomy identifier:
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "A.N.Other at example.com" # Always tell NCBI who you are
@@ -1237,6 +1283,7 @@ Staying with a plant example, let's now find the lineage of the Cypripedioideae
'158330'
\end{verbatim}
Now, we use \verb+efetch+ to download this entry in the Taxonomy database, and then parse it:
+%cont-doctest
\begin{verbatim}
>>> handle = Entrez.efetch(db="Taxonomy", id="158330", retmode="xml")
>>> records = Entrez.read(handle)
@@ -1244,9 +1291,9 @@ Now, we use \verb+efetch+ to download this entry in the Taxonomy database, and t
Again, this record stores lots of information:
\begin{verbatim}
>>> records[0].keys()
-[u'Lineage', u'Division', u'ParentTaxId', u'PubDate', u'LineageEx',
- u'CreateDate', u'TaxId', u'Rank', u'GeneticCode', u'ScientificName',
- u'MitoGeneticCode', u'UpdateDate']
+['Lineage', 'Division', 'ParentTaxId', 'PubDate', 'LineageEx',
+ 'CreateDate', 'TaxId', 'Rank', 'GeneticCode', 'ScientificName',
+ 'MitoGeneticCode', 'UpdateDate']
\end{verbatim}
We can get the lineage directly from this record:
\begin{verbatim}
@@ -1276,7 +1323,7 @@ to the session (instead of the identifiers).
Suppose we want to search and download all the \textit{Opuntia} rpl16
nucleotide sequences, and store them in a FASTA file. As shown in
Section~\ref{sec:entrez-search-fetch-genbank}, we can naively combine
-\verb|Bio.Entrez.esearch()| to get a list of GI numbers, and then call
+\verb|Bio.Entrez.esearch()| to get a list of Accession numbers, and then call
\verb|Bio.Entrez.efetch()| to download them all.
However, the approved approach is to run the search with the history
@@ -1286,25 +1333,31 @@ results - which the NCBI can anticipate and cache.
To do this, call \verb|Bio.Entrez.esearch()| as normal, but with the
additional argument of \verb|usehistory="y"|,
+%doctest . internet
\begin{verbatim}
>>> from Bio import Entrez
>>> Entrez.email = "history.user at example.com"
>>> search_handle = Entrez.esearch(db="nucleotide",term="Opuntia[orgn] and rpl16",
- usehistory="y")
+... usehistory="y", idtype="acc")
>>> search_results = Entrez.read(search_handle)
>>> search_handle.close()
\end{verbatim}
-\noindent When you get the XML output back, it will still include the usual search results:
+\noindent When you get the XML output back, it will still include the usual search results.
+%cont-doctest
\begin{verbatim}
->>> gi_list = search_results["IdList"]
+>>> acc_list = search_results["IdList"]
>>> count = int(search_results["Count"])
->>> assert count == len(gi_list)
+>>> count == len(acc_list)
+True
\end{verbatim}
+\noindent (Remember from Section~\ref{subsec:entrez_example_genbank} that the number of records retrieved will not necessarily be the same as the \verb+Count+, especially if the argument \verb+retmax+ is used.)
+
\noindent However, you also get given two additional pieces of information, the {\tt WebEnv} session cookie, and the {\tt QueryKey}:
+%cont-doctest
\begin{verbatim}
>>> webenv = search_results["WebEnv"]
>>> query_key = search_results["QueryKey"]
@@ -1316,28 +1369,32 @@ While for small searches you might be OK downloading everything at once, it is b
For example,
\begin{verbatim}
-from Bio import Entrez
-import time
+# This assumes you have already run a search as shown above,
+# and set the variables count, webenv, query_key
+
try:
from urllib.error import HTTPError # for Python 3
except ImportError:
from urllib2 import HTTPError # for Python 2
+
batch_size = 3
out_handle = open("orchid_rpl16.fasta", "w")
for start in range(0, count, batch_size):
end = min(count, start+batch_size)
print("Going to download record %i to %i" % (start+1, end))
- attempt = 1
- while attempt <= 3:
+ attempt = 0
+ while attempt < 3:
+ attempt += 1
try:
- fetch_handle = Entrez.efetch(db="nucleotide", rettype="fasta", retmode="text",
+ fetch_handle = Entrez.efetch(db="nucleotide",
+ rettype="fasta", retmode="text",
retstart=start, retmax=batch_size,
- webenv=webenv, query_key=query_key)
+ webenv=webenv, query_key=query_key,
+ idtype="acc")
except HTTPError as err:
if 500 <= err.code <= 599:
print("Received error from server %s" % err)
print("Attempt %i of 3" % attempt)
- attempt += 1
time.sleep(15)
else:
raise
diff --git a/Doc/Tutorial/chapter_graphics.tex b/Doc/Tutorial/chapter_graphics.tex
index d2b857e..3a1fa35 100644
--- a/Doc/Tutorial/chapter_graphics.tex
+++ b/Doc/Tutorial/chapter_graphics.tex
@@ -64,7 +64,7 @@ We're going to draw a whole genome from a \verb|SeqRecord| object read in from
a GenBank file (see Chapter~\ref{chapter:Bio.SeqIO}). This example uses the
pPCP1 plasmid from \textit{Yersinia pestis biovar Microtus}, the file is
included with the Biopython unit tests under the GenBank folder, or online
-\href{http://biopython.org/SRC/biopython/Tests/GenBank/NC_005816.gb}
+\href{https://raw.githubusercontent.com/biopython/biopython/master/Tests/GenBank/NC_005816.gb}
{\texttt{NC\_005816.gb}} from our website.
\begin{verbatim}
@@ -759,7 +759,7 @@ We can now turn those list of identifier pairs into SeqFeature pairs, and thus
find their location co-ordinates. We can now add all that code and the following
snippet to the previous example (just before the \verb|gd_diagram.draw(...)|
line -- see the finished example script
-\href{http://biopython.org/SRC/biopython/Doc/examples/Proux_et_al_2002_Figure_6.py}{Proux\_et\_al\_2002\_Figure\_6.py}
+\href{https://github.com/biopython/biopython/blob/master/Doc/examples/Proux_et_al_2002_Figure_6.py}{Proux\_et\_al\_2002\_Figure\_6.py}
included in the \texttt{Doc/examples} folder of the Biopython source code)
to add cross links to the figure:
@@ -825,7 +825,7 @@ in cases like this where there are no large gene overlaps, we can use
the axis-straddling \verb|BIGARROW| sigil, which allows us to further
reduce the vertical space needed for the track. These improvements
are demonstrated in the example script
-\href{http://biopython.org/SRC/biopython/Doc/examples/Proux_et_al_2002_Figure_6.py}{Proux\_et\_al\_2002\_Figure\_6.py}
+\href{https://github.com/biopython/biopython/blob/master/Doc/examples/Proux_et_al_2002_Figure_6.py}{Proux\_et\_al\_2002\_Figure\_6.py}
included in the \texttt{Doc/examples} folder of the Biopython source code.
%TODO - Add a link get the file directly (for Windows users etc).
\begin{htmlonly}
diff --git a/Doc/Tutorial/chapter_introduction.tex b/Doc/Tutorial/chapter_introduction.tex
index bd4c8bc..83b5105 100644
--- a/Doc/Tutorial/chapter_introduction.tex
+++ b/Doc/Tutorial/chapter_introduction.tex
@@ -123,6 +123,41 @@ and HTML formats
The correct capitalization is ``Biopython'', not ``BioPython'' (even though
that would have matched BioPerl, BioJava and BioRuby).
+ \item \emph{How is the Biopython software licensed?} \\
+ Biopython is distributed under the \emph{Biopython License Agreement}.
+ However, since the release of Biopython 1.69, some files are explicitly
+ dual licensed under your choice of the \emph{Biopython License Agreement}
+ or the \emph{BSD 3-Clause License}. This is with the intention of later
+ offering all of Biopython under this dual licensing approach.
+
+ \item \emph{What is the Biopython logo and how is it licensed?} \\
+ As of July 2017 and the Biopython 1.70 release, the Biopython logo is a
+ yellow and blue snake forming a double helix above the word ``biopython''
+ in lower case. It was designed by Patrick Kunzmann and this logo is dual
+ licensed under your choice of the \emph{Biopython License Agreement} or
+ the \emph{BSD 3-Clause License}.
+
+\begin{latexonly}
+ \includegraphics[width=6cm]{images/biopython_logo.pdf}\\
+\end{latexonly}
+\begin{rawhtml}
+ <IMG ALIGN="center" SRC="images/biopython_logo.svg" TITLE="Biopython Logo (2017 onwards)" ALT="[New Biopython Logo]" width="300" height="200" />
+ <IMG ALIGN="center" SRC="images/biopython_logo_old.jpg" TITLE="Old Biopython Logo (2003-2017)" ALT="[Old Biopython Logo]" width="512" height="144" />
+\end{rawhtml}
+
+ Prior to this, the Biopython logo was two yellow snakes forming a double
+ helix around the word ``BIOPYTHON'', designed by Henrik Vestergaard and
+ Thomas Hamelryck in 2003 as part of an open competition.
+
+\begin{latexonly}
+ \includegraphics[width=7cm]{images/biopython_logo_old.jpg}\\
+\end{latexonly}
+
+ \item \emph{Do you have a change-log listing what's new in each release?} \\
+ See the file \verb|NEWS.rst| included with the source code (originally called
+ just \verb|NEWS|), or read the
+ \href{https://github.com/biopython/biopython/blob/master/NEWS.rst}{latest NEWS file on GitHub}.
+
\item \emph{What is going wrong with my print commands?} \\
This tutorial now uses the Python 3 style print \emph{function}.
As of Biopython 1.62, we support both Python 2 and Python 3.
@@ -275,9 +310,8 @@ from __future__ import print_function
In late September 2009, just after the release of Biopython 1.52, we switched from using CVS to git, a distributed version control system. The old CVS server will remain available as a static and read only backup, but if you want to grab the latest code, you'll need to use git instead. See our website for more details.
\item \emph{Why doesn't} \verb|Bio.Fasta| \emph{work?} \\
- We deprecated the \verb|Bio.Fasta| module in Biopython 1.51 (August 2009) and removed it in Biopython 1.55 (August 2010). There is a brief example showing how to convert old code to use \verb|Bio.SeqIO| instead in the \href{http://biopython.org/SRC/biopython/DEPRECATED}{DEPRECATED} file.
+ We deprecated the \verb|Bio.Fasta| module in Biopython 1.51 (August 2009) and removed it in Biopython 1.55 (August 2010). There is a brief example showing how to convert old code to use \verb|Bio.SeqIO| instead in the \href{https://github.com/biopython/biopython/blob/master/DEPRECATED.rst}{DEPRECATED.rst} file.
\end{enumerate}
\noindent For more general questions, the Python FAQ pages \url{http://www.python.org/doc/faq/} may be useful.
-
diff --git a/Doc/Tutorial/chapter_kegg.tex b/Doc/Tutorial/chapter_kegg.tex
index c128352..fd2f780 100644
--- a/Doc/Tutorial/chapter_kegg.tex
+++ b/Doc/Tutorial/chapter_kegg.tex
@@ -9,6 +9,7 @@ Please note that the KEGG parser implementation in Biopython is incomplete. Whil
Parsing a KEGG record is as simple as using any other file format parser in Biopython.
(Before running the following codes, please open \url{http://rest.kegg.jp/get/ec:5.4.2.2} with your web browser and save it as \verb|ec_5.4.2.2.txt|.)
+%doctest examples
\begin{verbatim}
>>> from Bio.KEGG import Enzyme
>>> records = Enzyme.parse(open("ec_5.4.2.2.txt"))
@@ -19,6 +20,18 @@ Parsing a KEGG record is as simple as using any other file format parser in Biop
'5.4.2.2'
\end{verbatim}
+Alternatively, if the input KEGG file has exactly one entry, you can use \verb|read|:
+
+%doctest examples
+\begin{verbatim}
+>>> from Bio.KEGG import Enzyme
+>>> record = Enzyme.read(open("ec_5.4.2.2.txt"))
+>>> record.classname
+['Isomerases;', 'Intramolecular transferases;', 'Phosphotransferases (phosphomutases)']
+>>> record.entry
+'5.4.2.2'
+\end{verbatim}
+
The following section will shows how to download the above enzyme using the KEGG api as well as how to use the generic parser with data that does not have a custom parser implemented.
\section{Querying the KEGG API}
@@ -27,6 +40,7 @@ Biopython has full support for the querying of the KEGG api. Querying all KEGG e
First, here is how to extend the above example by downloading the relevant enzyme and passing it through the Enzyme parser.
+%want online doctest here
\begin{verbatim}
>>> from Bio.KEGG import REST
>>> from Bio.KEGG import Enzyme
@@ -42,6 +56,7 @@ First, here is how to extend the above example by downloading the relevant enzym
Now, here's a more realistic example which shows a combination of querying the KEGG API. This will demonstrate how to extract a unique set of all human pathway gene symbols which relate to DNA repair. The steps that need to be taken to do so are as follows. First, we need to get a list of all human pathways. Secondly, we need to filter those for ones which relate to "repair". Lastly, we need to get a list of all the gene symbols in all repair pathways.
+%want online doctest here
\begin{verbatim}
from Bio.KEGG import REST
diff --git a/Doc/Tutorial/chapter_motifs.tex b/Doc/Tutorial/chapter_motifs.tex
index 8ff7ec1..a82339b 100644
--- a/Doc/Tutorial/chapter_motifs.tex
+++ b/Doc/Tutorial/chapter_motifs.tex
@@ -575,9 +575,9 @@ matrix T aa:1::9::11:
To parse this file (stored as \verb+meme.dna.oops.txt+), use
%cont-doctest
\begin{verbatim}
->>> handle = open("meme.dna.oops.txt")
->>> record = motifs.parse(handle, "meme")
->>> handle.close()
+>>> with open("meme.dna.oops.txt") as handle:
+... record = motifs.parse(handle, "meme")
+...
\end{verbatim}
The \verb+motifs.parse+ command reads the complete file directly, so you can
close the file after calling \verb+motifs.parse+.
@@ -705,9 +705,9 @@ P0 A C G T
To parse a TRANSFAC file, use
%cont-doctest
\begin{verbatim}
->>> handle = open("transfac.dat")
->>> record = motifs.parse(handle, "TRANSFAC")
->>> handle.close()
+>>> with open("transfac.dat") as handle:
+... record = motifs.parse(handle, "TRANSFAC")
+...
\end{verbatim}
The overall version number, if available, is stored as \verb+record.version+:
%cont-doctest
@@ -822,9 +822,9 @@ You can export the motifs in the TRANSFAC format by capturing this output
in a string and saving it in a file:
\begin{verbatim}
>>> text = str(record)
->>> handle = open("mytransfacfile.dat", 'w')
->>> handle.write(text)
->>> handle.close()
+>>> with open("mytransfacfile.dat", 'w') as out_handle:
+... out_handle.write(text)
+...
\end{verbatim}
\section{Writing motifs}
diff --git a/Doc/Tutorial/chapter_pdb.tex b/Doc/Tutorial/chapter_pdb.tex
index 9d25454..e920ef9 100644
--- a/Doc/Tutorial/chapter_pdb.tex
+++ b/Doc/Tutorial/chapter_pdb.tex
@@ -12,17 +12,17 @@ First we create a \texttt{PDBParser} object:
\begin{verbatim}
>>> from Bio.PDB.PDBParser import PDBParser
->>> p = PDBParser(PERMISSIVE=1)
+>>> parser = PDBParser(PERMISSIVE=1)
\end{verbatim}
The {\tt PERMISSIVE} flag indicates that a number of common problems (see \ref{problem structures}) associated with PDB files will be ignored (but note that some atoms and/or residues will be missing). If the flag is not present a {\tt PDBConstructionException} will be generated if any problems are detected during the parse operation.
-The Structure object is then produced by letting the \texttt{PDBParser} object parse a PDB file (the PDB file in this case is called 'pdb1fat.ent', '1fat' is a user defined name for the structure):
+The Structure object is then produced by letting the \texttt{PDBParser} object parse a PDB file (the PDB file in this case is called \verb|pdb1fat.ent|, \verb|1fat| is a user defined name for the structure):
\begin{verbatim}
>>> structure_id = "1fat"
>>> filename = "pdb1fat.ent"
->>> s = p.get_structure(structure_id, filename)
+>>> structure = parser.get_structure(structure_id, filename)
\end{verbatim}
You can extract the header and trailer (simple lists of strings) of the PDB
@@ -50,14 +50,15 @@ The dictionary can also be created without creating a \texttt{Structure}
object, ie. directly from the PDB file:
\begin{verbatim}
->>> file = open(filename, 'r')
->>> header_dict = parse_pdb_header(file)
->>> file.close()
+>>> from Bio.PDB import parse_pdb_header
+>>> with open(filename, 'r') as handle:
+... header_dict = parse_pdb_header(handle)
+...
\end{verbatim}
\subsection{Reading an mmCIF file}
-Similarly to the case the case of PDB files, first create an \texttt{MMCIFParser} object:
+Similarly to the case of PDB files, first create an \texttt{MMCIFParser} object:
\begin{verbatim}
>>> from Bio.PDB.MMCIFParser import MMCIFParser
@@ -100,7 +101,7 @@ You can use the direct MMTFParser to read a structure from a file:
>>> structure = MMTFParser.get_structure("PDB/4CUP.mmtf")
\end{verbatim}
-Or you can use the same class to get a structure by it's PDB ID:
+Or you can use the same class to get a structure by its PDB ID:
%want online doctest here
\begin{verbatim}
>>> structure = MMTFParser.get_structure_from_url("4CUP")
diff --git a/Doc/Tutorial/chapter_phenotype.tex b/Doc/Tutorial/chapter_phenotype.tex
index 6495fe8..1b02d4e 100644
--- a/Doc/Tutorial/chapter_phenotype.tex
+++ b/Doc/Tutorial/chapter_phenotype.tex
@@ -37,7 +37,7 @@ files produced by analysis software, like
or \href{http://combogenomics.github.io/DuctApe/}{DuctApe}.
The parser will return one or a generator of PlateRecord objects, depending
on whether the read or parse method is being used.
-You can test the parse function by using the \href{http://biopython.org/SRC/biopython/Doc/examples/Plates.csv}{\texttt{Plates.csv}} file provided with the Biopython source code.
+You can test the parse function by using the \href{https://github.com/biopython/biopython/blob/master/Doc/examples/Plates.csv}{\texttt{Plates.csv}} file provided with the Biopython source code.
%doctest examples lib:numpy
\begin{verbatim}
diff --git a/Doc/Tutorial/chapter_phylo.tex b/Doc/Tutorial/chapter_phylo.tex
index 82d8fd4..c4ca9b7 100644
--- a/Doc/Tutorial/chapter_phylo.tex
+++ b/Doc/Tutorial/chapter_phylo.tex
@@ -15,7 +15,7 @@ inspect it a few different ways. Then we'll colorize the branches, to use a spe
feature, and finally save it.
Create a simple Newick file named \texttt{simple.dnd} using your favorite text editor,
-or use \href{http://biopython.org/SRC/biopython/Doc/examples/simple.dnd}{\texttt{simple.dnd}}
+or use \href{https://raw.githubusercontent.com/biopython/biopython/master/Doc/examples/simple.dnd}{\texttt{simple.dnd}}
provided with the Biopython source code:
\begin{verbatim}
diff --git a/Doc/Tutorial/chapter_popgen.tex b/Doc/Tutorial/chapter_popgen.tex
index 37fb271..b76034a 100644
--- a/Doc/Tutorial/chapter_popgen.tex
+++ b/Doc/Tutorial/chapter_popgen.tex
@@ -29,9 +29,8 @@ example GenePop data files in the Test/PopGen directory of Biopython):
\begin{verbatim}
from Bio.PopGen import GenePop
-handle = open("example.gen")
-rec = GenePop.read(handle)
-handle.close()
+with open("example.gen") as handle:
+ rec = GenePop.read(handle)
\end{verbatim}
This will read a file called example.gen and parse it. If you
diff --git a/Doc/Tutorial/chapter_searchio.tex b/Doc/Tutorial/chapter_searchio.tex
index 7d1d552..5731971 100644
--- a/Doc/Tutorial/chapter_searchio.tex
+++ b/Doc/Tutorial/chapter_searchio.tex
@@ -35,9 +35,9 @@ BLAST and BLAT. They are used merely for illustrative purposes, and you should
be able to adapt the workflow to any other search tools supported by
\verb|Bio.SearchIO| in a breeze. You're very welcome to follow along with the
search output files we'll be using. The BLAST output file can be downloaded
-\href{http://biopython.org/SRC/biopython/Doc/examples/my_blast.xml}{here},
+\href{https://github.com/biopython/biopython/blob/master/Doc/examples/my_blast.xml}{here},
and the BLAT output file
-\href{http://biopython.org/SRC/biopython/Doc/examples/my_blat.psl}{here}
+\href{https://raw.githubusercontent.com/biopython/biopython/master/Doc/examples/my_blat.psl}{here}
or are included with the Biopython source code under the \verb|Doc/examples/|
folder. Both output files were generated using this sequence:
@@ -124,7 +124,7 @@ beginning with \verb|QueryResult|.
The QueryResult object represents a single search query and contains zero or
more Hit objects. Let's see what it looks like using the BLAST file we have:
-%doctest ../Doc/examples
+%doctest examples
\begin{verbatim}
>>> from Bio import SearchIO
>>> blast_qresult = SearchIO.read('my_blast.xml', 'blast-xml')
@@ -483,7 +483,7 @@ themselves contain \verb|HSP| objects.
Let's see what they look like, beginning with our BLAST search:
-%doctest ../Doc/examples
+%doctest examples
\begin{verbatim}
>>> from Bio import SearchIO
>>> blast_qresult = SearchIO.read('my_blast.xml', 'blast-xml')
@@ -640,7 +640,7 @@ apparent compared to the differences you've seen in \verb|QueryResult| or
Let's see some examples from our BLAST and BLAT searches. We'll look at the
BLAST HSP first:
-%doctest ../Doc/examples
+%doctest examples
\begin{verbatim}
>>> from Bio import SearchIO
>>> blast_qresult = SearchIO.read('my_blast.xml', 'blast-xml')
@@ -926,7 +926,7 @@ coordinates, the sequences themselves, and their IDs and descriptions.
These attributes are readily shown when you invoke \verb|print| on an
\verb|HSPFragment|. Here's an example, taken from our BLAST search:
-%doctest ../Doc/examples
+%doctest examples
\begin{verbatim}
>>> from Bio import SearchIO
>>> blast_qresult = SearchIO.read('my_blast.xml', 'blast-xml')
diff --git a/Doc/Tutorial/chapter_seq_annot.tex b/Doc/Tutorial/chapter_seq_annot.tex
index c38038a..6f867fe 100644
--- a/Doc/Tutorial/chapter_seq_annot.tex
+++ b/Doc/Tutorial/chapter_seq_annot.tex
@@ -118,7 +118,7 @@ in this chapter) respectively.
\subsection{SeqRecord objects from FASTA files}
-This example uses a fairly large FASTA file containing the whole sequence for \textit{Yersinia pestis biovar Microtus} str. 91001 plasmid pPCP1, originally downloaded from the NCBI. This file is included with the Biopython unit tests under the GenBank folder, or online \href{http://biopython.org/SRC/biopython/Tests/GenBank/NC_005816.fna}{\texttt{NC\_005816.fna}} from our website.
+This example uses a fairly large FASTA file containing the whole sequence for \textit{Yersinia pestis biovar Microtus} str. 91001 plasmid pPCP1, originally downloaded from the NCBI. This file is included with the Biopython unit tests under the GenBank folder, or online \href{https://raw.githubusercontent.com/biopython/biopython/master/Tests/GenBank/NC_005816.fna}{\texttt{NC\_005816.fna}} from our website.
The file starts like this - and you can check there is only one record present (i.e. only one line starting with a greater than symbol):
@@ -200,7 +200,7 @@ In this case our example FASTA file was from the NCBI, and they have a fairly we
\subsection{SeqRecord objects from GenBank files}
As in the previous example, we're going to look at the whole sequence for \textit{Yersinia pestis biovar Microtus} str. 91001 plasmid pPCP1, originally downloaded from the NCBI, but this time as a GenBank file.
-Again, this file is included with the Biopython unit tests under the GenBank folder, or online \href{http://biopython.org/SRC/biopython/Tests/GenBank/NC_005816.gb}{\texttt{NC\_005816.gb}} from our website.
+Again, this file is included with the Biopython unit tests under the GenBank folder, or online \href{https://raw.githubusercontent.com/biopython/biopython/master/Tests/GenBank/NC_005816.gb}{\texttt{NC\_005816.gb}} from our website.
This file contains a single record (i.e. only one LOCUS line) and starts:
\begin{verbatim}
@@ -698,8 +698,8 @@ For example, taking the same GenBank file used earlier:
>>> record
SeqRecord(seq=Seq('TGTAACGAACGGTGCAATAGTGATCCACACCCAACGCCTGAAATCAGATCCAGG...CTG',
IUPACAmbiguousDNA()), id='NC_005816.1', name='NC_005816',
-description='Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence.',
-dbxrefs=['Project:10638'])
+description='Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence',
+dbxrefs=['Project:58037'])
\end{verbatim}
%cont-doctest
\begin{verbatim}
@@ -824,7 +824,7 @@ and \texttt{description}, but for practicality these are preserved:
>>> sub_record.name
'NC_005816'
>>> sub_record.description
-'Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence.'
+'Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence'
\end{verbatim}
\noindent This illustrates the problem nicely though, our new sub-record is
@@ -1028,7 +1028,7 @@ Consider this example record:
>>> from Bio import SeqIO
>>> record = SeqIO.read("NC_005816.gb", "genbank")
>>> print("%s %i %i %i %i" % (record.id, len(record), len(record.features), len(record.dbxrefs), len(record.annotations)))
-NC_005816.1 9609 41 1 12
+NC_005816.1 9609 41 1 13
\end{verbatim}
Here we take the reverse complement and specify a new identifier -- but notice
diff --git a/Doc/Tutorial/chapter_seqio.tex b/Doc/Tutorial/chapter_seqio.tex
index e544878..6634911 100644
--- a/Doc/Tutorial/chapter_seqio.tex
+++ b/Doc/Tutorial/chapter_seqio.tex
@@ -11,6 +11,8 @@ See also the \verb|Bio.SeqIO| wiki page (\url{http://biopython.org/wiki/SeqIO}),
\end{verbatim}
The ``catch'' is that you have to work with \verb|SeqRecord| objects (see Chapter~\ref{chapter:SeqRecord}), which contain a \verb|Seq| object (see Chapter~\ref{chapter:Bio.Seq}) plus annotation like an identifier and description.
+Note that when dealing with very large FASTA or FASTQ files, the overhead of working with all these objects can make scripts too slow.
+In this case consider the low-level \verb|SimpleFastaParser| and \verb|FastqGeneralIterator| parsers which return just a tuple of strings for each record (see Section~\ref{sec:low-level-fasta-fastq}).
\section{Parsing or Reading Sequences}
\label{sec:Bio.SeqIO-input}
@@ -46,7 +48,7 @@ The above example is repeated from the introduction in Section~\ref{sec:sequence
from Bio import SeqIO
for seq_record in SeqIO.parse("ls_orchid.gbk", "genbank"):
print(seq_record.id)
- print(seq_record.seq)
+ print(repr(seq_record.seq))
print(len(seq_record))
\end{verbatim}
@@ -321,35 +323,36 @@ Now, suppose we have a gzip compressed file instead? These are very
commonly used on Linux. We can use Python's \verb|gzip| module to open
the compressed file for reading - which gives us a handle object:
-%This doctest fails on Python 3, http://bugs.python.org/issue13989
+%TODO: Can we make the doctest code Python version specific?
+%This doctest fails on Python 2.7 due to http://bugs.python.org/issue30012
\begin{verbatim}
>>> import gzip
>>> from Bio import SeqIO
->>> handle = gzip.open("ls_orchid.gbk.gz", "r")
->>> print(sum(len(r) for r in SeqIO.parse(handle, "gb")))
+>>> with gzip.open("ls_orchid.gbk.gz", "rt") as handle:
+... print(sum(len(r) for r in SeqIO.parse(handle, "gb")))
+...
67518
->>> handle.close()
\end{verbatim}
Similarly if we had a bzip2 compressed file (sadly the function name isn't
-quite as consistent):
+quite as consistent under Python 2):
-%This doctest fails on Python 3
+%TODO: Can we make the doctest code Python version specific?
+%doctest examples
\begin{verbatim}
>>> import bz2
>>> from Bio import SeqIO
->>> handle = bz2.BZ2File("ls_orchid.gbk.bz2", "r")
->>> print(sum(len(r) for r in SeqIO.parse(handle, "gb")))
+>>> if hasattr(bz2, "open"):
+... handle = bz2.open("ls_orchid.gbk.bz2", "rt") # Python 3
+... else:
+... handle = bz2.BZ2File("ls_orchid.gbk.bz2", "r") # Python 2
+...
+>>> with handle:
+... print(sum(len(r) for r in SeqIO.parse(handle, "gb")))
+...
67518
->>> handle.close()
\end{verbatim}
-\noindent
-If you are using Python 2.7 or later, the \verb|with|-version works for
-gzip and bz2 as well. Unfortunately this is broken on older versions of
-Python (\href{http://bugs.python.org/issue3860}{Issue 3860}) and you'd
-get an \verb|AttributeError| about \verb|__exit__| being missing.
-
There is a gzip (GNU Zip) variant called BGZF (Blocked GNU Zip Format),
which can be treated like an ordinary gzip file for reading, but has
advantages for random access later which we'll talk about later in
@@ -382,9 +385,8 @@ only one record, use the \verb|Bio.SeqIO.read()| function:
from Bio import Entrez
from Bio import SeqIO
Entrez.email = "A.N.Other at example.com"
-handle = Entrez.efetch(db="nucleotide", rettype="fasta", retmode="text", id="6273291")
-seq_record = SeqIO.read(handle, "fasta")
-handle.close()
+with Entrez.efetch(db="nucleotide", rettype="fasta", retmode="text", id="6273291") as handle:
+ seq_record = SeqIO.read(handle, "fasta")
print("%s with %i features" % (seq_record.id, len(seq_record.features)))
\end{verbatim}
@@ -407,9 +409,8 @@ alias for ``genbank'' in \verb|Bio.SeqIO|.
from Bio import Entrez
from Bio import SeqIO
Entrez.email = "A.N.Other at example.com"
-handle = Entrez.efetch(db="nucleotide", rettype="gb", retmode="text", id="6273291")
-seq_record = SeqIO.read(handle, "gb") #using "gb" as an alias for "genbank"
-handle.close()
+with Entrez.efetch(db="nucleotide", rettype="gb", retmode="text", id="6273291") as handle
+ seq_record = SeqIO.read(handle, "gb") #using "gb" as an alias for "genbank"
print("%s with %i features" % (seq_record.id, len(seq_record.features)))
\end{verbatim}
@@ -428,13 +429,12 @@ so we must use the \verb|Bio.SeqIO.parse()| function:
from Bio import Entrez
from Bio import SeqIO
Entrez.email = "A.N.Other at example.com"
-handle = Entrez.efetch(db="nucleotide", rettype="gb", retmode="text",
- id="6273291,6273290,6273289")
-for seq_record in SeqIO.parse(handle, "gb"):
- print("%s %s..." % (seq_record.id, seq_record.description[:50]))
- print("Sequence length %i, %i features, from: %s"
- % (len(seq_record), len(seq_record.features), seq_record.annotations["source"]))
-handle.close()
+with Entrez.efetch(db="nucleotide", rettype="gb", retmode="text",
+ id="6273291,6273290,6273289") as handle:
+ for seq_record in SeqIO.parse(handle, "gb"):
+ print("%s %s..." % (seq_record.id, seq_record.description[:50]))
+ print("Sequence length %i, %i features, from: %s"
+ % (len(seq_record), len(seq_record.features), seq_record.annotations["source"]))
\end{verbatim}
\noindent That should give the following output:
@@ -460,9 +460,8 @@ use the \verb|Bio.SeqIO.read()| function:
\begin{verbatim}
from Bio import ExPASy
from Bio import SeqIO
-handle = ExPASy.get_sprot_raw("O23729")
-seq_record = SeqIO.read(handle, "swiss")
-handle.close()
+with ExPASy.get_sprot_raw("O23729") as handle:
+ seq_record = SeqIO.read(handle, "swiss")
print(seq_record.id)
print(seq_record.name)
print(seq_record.description)
@@ -559,7 +558,7 @@ We can access a single \verb|SeqRecord| object via the keys and manipulate the o
\begin{verbatim}
>>> seq_record = orchid_dict["Z78475.1"]
>>> print(seq_record.description)
-P.supardii 5.8S rRNA gene and ITS1 and ITS2 DNA.
+P.supardii 5.8S rRNA gene and ITS1 and ITS2 DNA
>>> print(repr(seq_record.seq))
Seq('CGTAACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTGTTGAGATCACAT...GGT', IUPACAmbiguousDNA())
\end{verbatim}
@@ -652,7 +651,7 @@ Now, recall the \verb|Bio.SeqIO.to_dict()| function's \verb|key_function| argume
>>> print(record.id)
Z78532.1
>>> print(record.description)
-C.californicum 5.8S rRNA gene and ITS1 and ITS2 DNA.
+C.californicum 5.8S rRNA gene and ITS1 and ITS2 DNA
\end{verbatim}
\noindent That should have retrieved the record {\tt Z78532.1}, the second entry in the file.
@@ -691,7 +690,7 @@ As an example, let's use the same GenBank file as before:
\begin{verbatim}
>>> seq_record = orchid_dict["Z78475.1"]
>>> print(seq_record.description)
-P.supardii 5.8S rRNA gene and ITS1 and ITS2 DNA.
+P.supardii 5.8S rRNA gene and ITS1 and ITS2 DNA
>>> seq_record.seq
Seq('CGTAACAAGGTTTCCGTAGGTGAACCTGCGGAAGGATCATTGTTGAGATCACAT...GGT', IUPACAmbiguousDNA())
>>> orchid_dict.close()
@@ -776,10 +775,10 @@ want to extract just a few records from it:
\begin{verbatim}
>>> from Bio import SeqIO
>>> uniprot = SeqIO.index("uniprot_sprot.dat", "swiss")
->>> handle = open("selected.dat", "wb")
->>> for acc in ["P33487", "P19801", "P13689", "Q8JZQ5", "Q9TRC7"]:
-... handle.write(uniprot.get_raw(acc))
->>> handle.close()
+>>> with open("selected.dat", "wb") as out_handle:
+... for acc in ["P33487", "P19801", "P13689", "Q8JZQ5", "Q9TRC7"]:
+... out_handle.write(uniprot.get_raw(acc))
+...
\end{verbatim}
Note with Python 3 onwards, we have to open the file for writing in
@@ -1227,11 +1226,10 @@ This isn't entirely straightforward the first time you see it! On the bright si
Note that although we don't encourage it, you \emph{can} use the \verb|format()| method to write to a file, for example something like this:
\begin{verbatim}
from Bio import SeqIO
-out_handle = open("ls_orchid_long.tab", "w")
-for record in SeqIO.parse("ls_orchid.gbk", "genbank"):
- if len(record) > 100:
- out_handle.write(record.format("tab"))
-out_handle.close()
+with open("ls_orchid_long.tab", "w") as out_handle:
+ for record in SeqIO.parse("ls_orchid.gbk", "genbank"):
+ if len(record) > 100:
+ out_handle.write(record.format("tab"))
\end{verbatim}
\noindent While this style of code will work for a simple sequential file format like FASTA or the simple tab separated format used here, it will \emph{not} work for more complex or interlaced file formats. This is why we still recommend using \verb|Bio.SeqIO.write()|, as in the following example:
\begin{verbatim}
@@ -1242,3 +1240,71 @@ SeqIO.write(records, "ls_orchid.tab", "tab")
\noindent Making a single call to \verb|SeqIO.write(...)| is also much quicker than
multiple calls to the \verb|SeqRecord.format(...)| method.
+\section{Low level FASTA and FASTQ parsers}
+\label{sec:low-level-fasta-fastq}
+
+Working with the low-level \verb|SimpleFastaParser| or
+\verb|FastqGeneralIterator| is often more practical than
+\verb|Bio.SeqIO.parse| when dealing with large high-throughput FASTA
+or FASTQ sequencing files where speed matters.
+As noted in the introduction to this chapter, the file-format neutral
+\verb|Bio.SeqIO| interface has the overhead of creating many objects
+even for simple formats like FASTA.
+
+When parsing FASTA files, internally \verb|Bio.SeqIO.parse()| calls
+the low-level \verb|SimpleFastaParser| with the file handle.
+You can use this directly - it iterates over the file handle returning
+each record as a tuple of two strings, the title line (everything after
+the \verb|>| character) and the sequence (as a plain string):
+
+%doctest examples
+\begin{verbatim}
+>>> from Bio.SeqIO.FastaIO import SimpleFastaParser
+>>> count = 0
+>>> total_len = 0
+>>> with open("ls_orchid.fasta") as in_handle:
+... for title, seq in SimpleFastaParser(in_handle):
+... count += 1
+... total_len += len(seq)
+...
+>>> print("%i records with total sequence length %i" % (count, total_len))
+94 records with total sequence length 67518
+\end{verbatim}
+
+As long as you don't care about line wrapping (and you probably don't
+for short read high-througput data), then outputing FASTA format from
+these strings is also very fast:
+
+\begin{verbatim}
+...
+out_handle.write(">%s\n%s\n" % (title, seq))
+...
+\end{verbatim}
+
+Likewise, when parsing FASTQ files, internally \verb|Bio.SeqIO.parse()|
+calls the low-level \verb|FastqGeneralIterator| with the file handle.
+If you don't need the quality scores turned into integers,
+or can work with them as ASCII strings this is ideal:
+
+%doctest ../Tests/Quality
+\begin{verbatim}
+>>> from Bio.SeqIO.QualityIO import FastqGeneralIterator
+>>> count = 0
+>>> total_len = 0
+>>> with open("example.fastq") as in_handle:
+... for title, seq, qual in FastqGeneralIterator(in_handle):
+... count += 1
+... total_len += len(seq)
+...
+>>> print("%i records with total sequence length %i" % (count, total_len))
+3 records with total sequence length 75
+\end{verbatim}
+
+There are more examples of this in the Cookbook (Chapter~\ref{chapter:cookbook}),
+including how to output FASTQ efficiently from strings using this code snippet:
+
+\begin{verbatim}
+...
+out_handle.write("@%s\n%s\n+\n%s\n" % (title, seq, qual))
+...
+\end{verbatim}
diff --git a/Doc/Tutorial/chapter_uniprot.tex b/Doc/Tutorial/chapter_uniprot.tex
index 72efc57..710b8bc 100644
--- a/Doc/Tutorial/chapter_uniprot.tex
+++ b/Doc/Tutorial/chapter_uniprot.tex
@@ -11,14 +11,17 @@ In Section~\ref{sec:SeqIO_ExPASy_and_SwissProt}, we described how to extract the
To parse a Swiss-Prot record, we first get a handle to a Swiss-Prot record. There are several ways to do so, depending on where and how the Swiss-Prot record is stored:
\begin{itemize}
-\item Open a Swiss-Prot file locally: \newline
-\verb|>>> handle = open("myswissprotfile.dat")|
+\item Open a Swiss-Prot file locally:
+\begin{verbatim}
+\verb|>>> handle = open("myswissprotfile.dat")
+\end{verbatim}
\item Open a gzipped Swiss-Prot file:
\begin{verbatim}
>>> import gzip
->>> handle = gzip.open("myswissprotfile.dat.gz")
+>>> handle = gzip.open("myswissprotfile.dat.gz", "rt")
\end{verbatim}
\item Open a Swiss-Prot file over the internet:
+% TODO: Need to ensure text mode on Python 3 with urlopen
\begin{verbatim}
>>> import urllib
>>> handle = urllib.urlopen("http://www.somelocation.org/data/someswissprotfile.dat")
@@ -66,7 +69,7 @@ As described at the start of this section, you can use the Python library \verb|
\begin{verbatim}
>>> import gzip
->>> handle = gzip.open("uniprot_sprot.dat.gz")
+>>> handle = gzip.open("uniprot_sprot.dat.gz", "rt")
\end{verbatim}
However, uncompressing a large file takes time, and each time you open the file for reading in this way, it has to be decompressed on the fly. So, if you can spare the disk space you'll save time in the long run if you first decompress the file to disk, to get the \verb|uniprot_sprot.dat| file inside. Then you can open the file for reading as usual:
@@ -418,7 +421,7 @@ The same function can be used to retrieve a Prosite documentation record and par
>>> record = Prodoc.read(handle)
\end{verbatim}
-For non-existing accession numbers, \verb|ExPASy.get_prosite_raw| returns a handle to an emptry string. When faced with an empty string, \verb|Prosite.read| and \verb|Prodoc.read| will raise a ValueError. You can catch these exceptions to detect invalid accession numbers.
+For non-existing accession numbers, \verb|ExPASy.get_prosite_raw| returns a handle to an empty string. When faced with an empty string, \verb|Prosite.read| and \verb|Prodoc.read| will raise a ValueError. You can catch these exceptions to detect invalid accession numbers.
The functions \verb|get_prosite_entry()| and \verb|get_prodoc_entry()| are used to download Prosite and Prosite documentation records in HTML format. To create a web page showing one Prosite record, you can use
@@ -426,9 +429,9 @@ The functions \verb|get_prosite_entry()| and \verb|get_prodoc_entry()| are used
>>> from Bio import ExPASy
>>> handle = ExPASy.get_prosite_entry('PS00001')
>>> html = handle.read()
->>> output = open("myprositerecord.html", "w")
->>> output.write(html)
->>> output.close()
+>>> with open("myprositerecord.html", "w") as out_handle:
+... out_handle.write(html)
+...
\end{verbatim}
and similarly for a Prosite documentation record:
@@ -437,9 +440,9 @@ and similarly for a Prosite documentation record:
>>> from Bio import ExPASy
>>> handle = ExPASy.get_prodoc_entry('PDOC00001')
>>> html = handle.read()
->>> output = open("myprodocrecord.html", "w")
->>> output.write(html)
->>> output.close()
+>>> with open("myprodocrecord.html", "w") as out_handle:
+... out_handle.write(html)
+...
\end{verbatim}
For these functions, an invalid accession number returns an error message in HTML format.
diff --git a/Doc/biopdb_faq.tex b/Doc/biopdb_faq.tex
index cbd3c19..154f02a 100644
--- a/Doc/biopdb_faq.tex
+++ b/Doc/biopdb_faq.tex
@@ -71,7 +71,7 @@
{\normalsize Institute of Molecular Biology}\\
{\normalsize University of Copenhagen }\\
{\normalsize Universitetsparken 15, Bygning 10}\\
-{\normalsize DK-2100 K�benhavn �}\\
+{\normalsize DK-2100 K{\o}benhavn {\O}}\\
{\normalsize Denmark }\\
{\normalsize thamelry at binf.ku.dk}\\
\url{http://www.binf.ku.dk/users/thamelry/}}
@@ -1067,7 +1067,7 @@ function), in the form of a Numeric python array with the surface points.
Half Sphere Exposure (HSE) is a new, 2D measure of solvent exposure.
Basically, it counts the number of C$\alpha$ atoms around a residue
in the direction of its side chain, and in the opposite direction
-(within a radius of 13 �). Despite its simplicity, it outperforms
+(within a radius of 13 {\AA}). Despite its simplicity, it outperforms
many other measures of solvent exposure. An article describing this
novel 2D measure has been submitted.
diff --git a/Doc/examples/.flake8 b/Doc/examples/.flake8
new file mode 100644
index 0000000..f608a3a
--- /dev/null
+++ b/Doc/examples/.flake8
@@ -0,0 +1,14 @@
+[flake8]
+doctests = True
+max-line-length = 90
+ignore =
+ # =======================
+ # flake: E###, F###, W###
+ # =======================
+ # pycodestyle v2.3.1 default ignore is E121,E123,E126,E226,E24,E704,W503
+ # flake8 v3.3.0 default ignore is E121,E123,E126,E226,E24,E704,W503,W504
+ E122,E123,E126,E127,E128,E501,E731,F401,F812,F841,
+ # =====================================
+ # pydocstyle: D### - Missing Docstrings
+ # =====================================
+ D100,D101,D102,D103
diff --git a/Doc/examples/Proux_et_al_2002_Figure_6.py b/Doc/examples/Proux_et_al_2002_Figure_6.py
index a4dece1..90508ad 100644
--- a/Doc/examples/Proux_et_al_2002_Figure_6.py
+++ b/Doc/examples/Proux_et_al_2002_Figure_6.py
@@ -3,7 +3,7 @@
# as part of this package.
#
-"""GenomeDiagram script to mimic Proux et al 2002 Figure 6
+"""GenomeDiagram script to mimic Proux et al 2002 Figure 6.
You can use the Entrez module to download the 3 required GenBank files
@@ -113,6 +113,7 @@ def get_feature(features, id, tags=("locus_tag", "gene", "old_locus_tag")):
return f
raise KeyError(id)
+
gd_diagram = GenomeDiagram.Diagram(name)
feature_sets = {}
max_len = 0
diff --git a/Doc/examples/clustal_run.py b/Doc/examples/clustal_run.py
index 4ca087e..0e9b806 100644
--- a/Doc/examples/clustal_run.py
+++ b/Doc/examples/clustal_run.py
@@ -1,8 +1,9 @@
#!/usr/bin/env python
-"""clustal_run.py
+"""Run clustalw and parse the output.
Example code to show how to create a clustalw command line, run clustalw
-and parse the results into an object that can be dealt with easily."""
+and parse the results into an object that can be dealt with easily.
+"""
# standard library
from __future__ import print_function
diff --git a/Doc/examples/ec_5.4.2.2.txt b/Doc/examples/ec_5.4.2.2.txt
new file mode 100644
index 0000000..9b74d00
--- /dev/null
+++ b/Doc/examples/ec_5.4.2.2.txt
@@ -0,0 +1,3636 @@
+ENTRY EC 5.4.2.2 Enzyme
+NAME phosphoglucomutase (alpha-D-glucose-1,6-bisphosphate-dependent);
+ glucose phosphomutase;
+ phosphoglucose mutase
+CLASS Isomerases;
+ Intramolecular transferases;
+ Phosphotransferases (phosphomutases)
+SYSNAME alpha-D-glucose 1,6-phosphomutase
+REACTION alpha-D-glucose 1-phosphate = D-glucose 6-phosphate [RN:R08639]
+ALL_REAC R08639 > R00959;
+ (other) R01057 R03319
+SUBSTRATE alpha-D-glucose 1-phosphate [CPD:C00103]
+PRODUCT D-glucose 6-phosphate [CPD:C00092]
+COMMENT Maximum activity is only obtained in the presence of alpha-D-glucose 1,6-bisphosphate. This bisphosphate is an intermediate in the reaction, being formed by transfer of a phosphate residue from the enzyme to the substrate, but the dissociation of bisphosphate from the enzyme complex is much slower than the overall isomerization. The enzyme also catalyses (more slowly) the interconversion of 1-phosphate and 6-phosphate isomers of many other alpha-D-hexoses, and the interconver [...]
+HISTORY EC 5.4.2.2 created 1961 as EC 2.7.5.1, transferred 1984 to EC 5.4.2.2
+REFERENCE 1 [PMID:14216423]
+ AUTHORS JOSHI JG, HANDLER P.
+ TITLE PHOSPHOGLUCOMUTASE. I. PURIFICATION AND PROPERTIES OF PHOSPHOGLUCOMUTASE FROM ESCHERICHIA COLI.
+ JOURNAL J. Biol. Chem. 239 (1964) 2741-51.
+ SEQUENCE [eco:b0688]
+REFERENCE 2
+ AUTHORS Najjar, V.A.
+ TITLE Phosphoglucomutase.
+ JOURNAL In: Boyer, P.D., Lardy, H. and Myrback, K. (Eds.), The Enzymes, 2nd ed., vol. 6, Academic Press, New York, 1962, p. 161-178.
+REFERENCE 3 [PMID:14165931]
+ AUTHORS RAY WJ Jr, ROSCELLI GA.
+ TITLE A KINETIC STUDY OF THE PHOSPHOGLUCOMUTASE PATHWAY.
+ JOURNAL J. Biol. Chem. 239 (1964) 1228-36.
+REFERENCE 4
+ AUTHORS Ray, W.J., Jr. and Peck, E.J., Jr.
+ TITLE Phosphomutases.
+ JOURNAL In: Boyer, P.D. (Ed.), The Enzymes, 3rd ed., vol. 6, 1972, p. 407-477.
+REFERENCE 5
+ AUTHORS Sutherland, E.W., Cohn, M., Posternak, T. and Cori, C.F.
+ TITLE The mechanism of the phosphoglucomutase reaction.
+ JOURNAL J. Biol. Chem. 180 (1949) 1285-1295.
+PATHWAY ec00010 Glycolysis / Gluconeogenesis
+ ec00030 Pentose phosphate pathway
+ ec00052 Galactose metabolism
+ ec00230 Purine metabolism
+ ec00500 Starch and sucrose metabolism
+ ec00520 Amino sugar and nucleotide sugar metabolism
+ ec00521 Streptomycin biosynthesis
+ ec01100 Metabolic pathways
+ ec01110 Biosynthesis of secondary metabolites
+ ec01120 Microbial metabolism in diverse environments
+ ec01130 Biosynthesis of antibiotics
+ORTHOLOGY K01835 phosphoglucomutase
+ K15778 phosphomannomutase / phosphoglucomutase
+ K15779 phosphoglucomutase / phosphopentomutase
+GENES HSA: 5236(PGM1) 55276(PGM2)
+ PTR: 456908(PGM1) 461162(PGM2)
+ PPS: 100977295(PGM1) 100993927(PGM2)
+ GGO: 101128874(PGM1) 101131551(PGM2)
+ PON: 100190836(PGM2) 100438793(PGM1)
+ NLE: 100596081(PGM1) 100600656(PGM2)
+ MCC: 100424648(PGM2) 699401(PGM1)
+ MCF: 101925921(PGM1) 102130622(PGM2)
+ CSAB: 103224690(PGM1) 103246223(PGM2)
+ RRO: 104664350(PGM2) 104668067(PGM1)
+ CJC: 100394215(PGM2) 100414660(PGM1)
+ SBQ: 101031051(PGM2) 101033945(PGM1)
+ MMU: 66681(Pgm1) 72157(Pgm2)
+ RNO: 24645(Pgm1)
+ CGE: 100753184(Pgm1) 100761029(Pgm2)
+ NGI: 103732479(Pgm1) 103734333(Pgm2)
+ HGL: 101711743(Pgm1) 101712721(Pgm2)
+ OCU: 100009155(PGM1) 100351563(PGM2)
+ TUP: 102467858(PGM1) 102497143(PGM2)
+ CFA: 479116(PGM2) 479545(PGM1)
+ AML: 100470032(PGM2) 100475139(PGM1)
+ UMR: 103663061(PGM1) 103672656(PGM2)
+ FCA: 101083353(PGM1) 101095577(PGM2)
+ PTG: 102948905(PGM2) 102961330(PGM1)
+ BTA: 506980(PGM2) 534402(PGM1)
+ BOM: 102268049 102275907(PGM1) 102280136(PGM2)
+ PHD: 102328094(PGM1) 102343220(PGM2)
+ CHX: 102174732(PGM2) 102183563(PGM1)
+ OAS: 101109225(PGM1) 101111285(PGM2)
+ SSC: 100522261(PGM2) 397566(PGM1)
+ CFR: 102517977(PGM2) 102520829(PGM1)
+ BACU: 103004993(PGM1) 103005357(PGM2)
+ LVE: 103074009(PGM2) 103089811(PGM1)
+ ECB: 100064893(PGM2) 100069980(PGM1)
+ MYB: 102249673(PGM1) 102257982(PGM2)
+ MYD: 102754573(PGM1) 102771622(PGM2)
+ PALE: 102878841(PGM1) 102896212(PGM2)
+ LAV: 100667216(PGM1) 100671091(PGM2)
+ MDO: 100022672(PGM2) 100027227
+ SHR: 100914385(PGM1) 100934907(PGM2)
+ OAA: 100080151 100082463(PGM2) 103166740(PGM1)
+ GGA: 424691(PGM1) 426435(PGM2)
+ MGP: 100538783(PGM2) 100550963(PGM1)
+ CJO: 107313826(PGM2) 107317740(PGM1)
+ APLA: 101790428(PGM1) 101791560(PGM2)
+ TGU: 100221811(PGM2) 100222163(PGM1)
+ GFR: 102037639(PGM2) 102041112(PGM1)
+ FAB: 101805676(PGM1) 101821251(PGM2)
+ PHI: 102100121(PGM1) 102108856(PGM2)
+ CCW: 104690683(PGM2) 104695138(PGM1)
+ FPG: 101915117(PGM2) 101921236(PGM1)
+ FCH: 102048140(PGM1) 102055183(PGM2)
+ CLV: 102098032(PGM1) 102098104(PGM2)
+ AAM: 106487683(PGM1) 106490181(PGM2)
+ ASN: 102369749(PGM2) 102370259(PGM1)
+ AMJ: 102563207(PGM2) 102568676(PGM1)
+ PSS: 102456218(PGM1) 102463751(PGM2)
+ CMY: 102940381(PGM2) 102943564(PGM1)
+ ACS: 100556533(pgm2) 100562877(pgm1)
+ PBI: 103051020(PGM2) 103051862(PGM1)
+ GJA: 107114628(PGM1) 107116364(PGM2)
+ XLA: 379864(pgm1.L) 446420(pgm2l1.L)
+ XTR: 407960(pgm1) 549455(pgm2)
+ DRE: 394000(pgm1) 405822(pgm2)
+ TRU: 101065243(pgm1) 101072662(pgm2) 101076683
+ TNG: GSTEN00010303G001 GSTEN00015017G001 GSTEN00033591G001
+ MZE: 101473461(pgm2) 101478589(pgm1) 101483254
+ OLA: 101164775(pgm2) 101175508 101175638(pgm1)
+ XMA: 102218458(pgm2) 102225281(pgm1) 102226091
+ SASA: 100194572(pgm1) 106560477 106568718 106594108 106594399 106595213(pgm2) 106598733 106599190
+ LCM: 102358793(PGM1) 102366488(PGM2)
+ CMK: 103175848(pgm2) 103188820(pgm1)
+ BFO: BRAFLDRAFT_205366 BRAFLDRAFT_63910
+ CIN: 100178660(pgm1) 100185650(pgm2)
+ SPU: 575075(pgm1) 763027
+ SKO: 100367722 100367965(PGM1)
+ DME: Dmel_CG10202 Dmel_CG5165(Pgm) Dmel_CG8073(Pmm45A)
+ DPO: Dpse_GA18703 Dpse_GA20805
+ DAN: Dana_GF10321 Dana_GF11777 Dana_GF12709
+ DER: Dere_GG10583 Dere_GG13495 Dere_GG22396
+ DPE: Dper_GL10655 Dper_GL16851 Dper_GL18035
+ DSE: Dsec_GM20181 Dsec_GM20631 Dsec_GM24444
+ DSI: Dsimw501_GD10104(Dsim_GD10104) Dsimw501_GD25655(Dsim_GD25655) Dsimw501_GD27676(Dsim_GD27676)
+ DWI: Dwil_GK17336 Dwil_GK22961 Dwil_GK23293
+ DYA: Dyak_GE12285(dyak_GLEANR_12551) Dyak_GE22565(dyak_GLEANR_623) Dyak_GE22586(Dyak_Pgm) Dyak_GE27981
+ DGR: Dgri_GH15036 Dgri_GH19656 Dgri_GH20478 Dgri_GH21282 Dgri_GH22267 Dgri_GH23045 Dgri_GH23475
+ DMO: Dmoj_GI16688 Dmoj_GI19724 Dmoj_GI21021 Dmoj_GI21114 Dmoj_GI21115
+ DVI: Dvir_GJ12940 Dvir_GJ17598 Dvir_GJ20963 Dvir_GJ20964 Dvir_GJ21944
+ MDE: 101887602 101898680
+ AGA: AgaP_AGAP005860 AgaP_AGAP008305
+ AAG: AaeL_AAEL001480 AaeL_AAEL010037
+ CQU: CpipJ_CPIJ005681 CpipJ_CPIJ017045
+ AME: 411897(Pgm1) 412362(Pgm2)
+ BIM: 100744829 100749656
+ BTER: 100648849 100650132
+ SOC: 105199081 105203048
+ AEC: 105146567 105152606
+ HST: 105182219 105184006
+ CFO: 105250371 105251430
+ NVI: 100117450 100124235
+ TCA: 654888 662835
+ BMOR: 101743212 101747131
+ DPL: KGM_05989 KGM_07324 KGM_17882
+ PXY: 105381138 105390077 105395695 105397702
+ API: 100160293 100163975
+ PHU: Phum_PHUM157010 Phum_PHUM401840
+ DPX: DAPPUDRAFT_302108 DAPPUDRAFT_314497 DAPPUDRAFT_48520
+ ISC: IscW_ISCW012586 IscW_ISCW021522
+ CEL: CELE_R05F9.6(R05F9.6) CELE_Y43F4B.5(Y43F4B.5)
+ CBR: CBG02267 CBG03574
+ BMY: Bm1_15740 Bm1_18455
+ LOA: LOAG_02183 LOAG_03474
+ TSP: Tsp_07190 Tsp_09490
+ HRO: HELRODRAFT_104891 HELRODRAFT_186861
+ LGI: LOTGIDRAFT_102562 LOTGIDRAFT_189430
+ CRG: 105319260 105325277 105348082
+ OBI: 106870409 106876411
+ SMM: Smp_085150 Smp_180530.1 Smp_180530.3
+ NVE: NEMVE_v1g163252 NEMVE_v1g235307
+ ADF: 107344366 107347751
+ HMG: 100199039 100209776(pgm2) 100214271
+ TAD: TRIADDRAFT_26086 TRIADDRAFT_29275
+ AQU: 100634538 100639257
+ ATH: AT1G23190 AT1G70730 AT5G51820(PGM)
+ ALY: ARALYDRAFT_472576 ARALYDRAFT_495247 ARALYDRAFT_894891
+ CRB: CARUB_v10008678mg CARUB_v10021333mg CARUB_v10028132mg
+ EUS: EUTSA_v10007178mg EUTSA_v10012968mg EUTSA_v10018328mg
+ BRP: 103832797 103835677 103840790
+ BNA: 106398336 106401373 106415353 106423685(PGM) 106434227 106440984
+ THJ: 104811497 104822195 104822997
+ CIT: 102609059 102609471 102623504
+ CIC: CICLE_v10004539mg CICLE_v10014721mg
+ TCC: TCM_010981 TCM_015041
+ GRA: 105765587 105780227 105785679
+ EGR: 104424364 104433225 104453687
+ GMX: 100778321 100780166 100801499 100802730 100802789 106798415
+ PVU: PHAVU_002G318400g PHAVU_007G064900g
+ VRA: 106766802 106770496 106771896
+ MTR: MTR_1g102010 MTR_1g102035 MTR_8g104540
+ CAM: 101490273 101501824
+ ADU: 107466874 107466984 107491347
+ AIP: 107617523 107618916 107643898
+ LJA: Lj0g3v0187389.1(Lj0g3v0187389.1) Lj0g3v0192499.1(Lj0g3v0192499.1) Lj0g3v0298899.1(Lj0g3v0298899.1) Lj4g3v3099620.1(Lj4g3v3099620.1) Lj5g3v2029660.1(Lj5g3v2029660.1) Lj5g3v2029660.2(Lj5g3v2029660.2)
+ FVE: 101302642 101306763
+ PPER: PRUPE_ppa002825mg PRUPE_ppa003354mg
+ PMUM: 103321420 103333427
+ MDM: 103430692 103439690 103439907 103452245
+ PXB: 103943049 103960494
+ CSV: 101209451 101218883
+ CMO: 103504550 103504651
+ RCU: 8258327 8279627
+ JCU: 105634093 105648538
+ POP: POPTR_0008s13180g(POPTRDRAFT_832763) POPTR_0010s11970g(POPTRDRAFT_822067) POPTR_0012s14030g(POPTRDRAFT_570540) POPTR_0015s14020g(POPTRDRAFT_824892)
+ VVI: 100247590 100266376
+ SLY: 101267287 101267885
+ SPEN: 107014518 107017833
+ SOT: 102579912(PGM) 102583854 102585015(PGM) 102593173
+ SIND: 105156218 105179246
+ BVG: 104896820 104906396
+ NNU: 104596231 104603722 104607342 104608353
+ OSA: 4333895 4348230
+ DOSA: Os03t0712700-01(Os03g0712700) Os10t0189100-01(Os10g0189100)
+ OBR: 102706040 102713531
+ BDI: 100838190 100841901
+ ATS: F775_28447
+ SBI: SORBI_01g010280(SORBIDRAFT_01g010280) SORBI_03g028080(SORBIDRAFT_03g028080)
+ ZMA: 103631243 103631244 103633450 103633453 103651489 542358(GRMZM2G023289) 542721(GRMZM2G109383)
+ SITA: 101755255 101777020
+ PDA: 103695864 103701107 103702794
+ EGU: 105041553 105042097 105048493 105054280
+ MUS: 103976168 103994987 103995810
+ ATR: 18422474 18424241
+ SMO: SELMODRAFT_269569 SELMODRAFT_270074 SELMODRAFT_81154 SELMODRAFT_86058
+ PPP: PHYPADRAFT_107070 PHYPADRAFT_107844 PHYPADRAFT_174121 PHYPADRAFT_191802
+ CRE: CHLREDRAFT_146213(GPM2) CHLREDRAFT_81483(GPM1a)
+ VCN: VOLCADRAFT_78928 VOLCADRAFT_92695
+ OLU: OSTLU_42958
+ OTA: Ot15g02630
+ BPG: Bathy08g00430
+ MIS: MICPUN_112722(PGM)
+ MPP: MICPUCDRAFT_70805(PGM1)
+ CSL: COCSUDRAFT_30193 COCSUDRAFT_34730
+ CVR: CHLNCDRAFT_35765 CHLNCDRAFT_58243
+ APRO: F751_4670
+ CME: CYME_CMJ272C CYME_CMQ067C CYME_CMT285C
+ GSL: Gasu_08170 Gasu_46280
+ CCP: CHC_T00002564001 CHC_T00005896001 CHC_T00008779001
+ SCE: YKL127W(PGM1) YMR105C(PGM2) YMR278W(PRM15)
+ AGO: AGOS_ABL029W AGOS_ABL126W
+ ERC: Ecym_2475 Ecym_4611
+ KLA: KLLA0B12694g KLLA0D01573g
+ LTH: KLTH0C03872g KLTH0D04796g
+ VPO: Kpol_1018p161 Kpol_1033p54 Kpol_1068p8
+ ZRO: ZYRO0G02508g ZYRO0G14190g
+ CGR: CAGL0K03421g CAGL0K07480g CAGL0M02981g
+ NCS: NCAS_0A04350(NCAS0A04350) NCAS_0C00410(NCAS0C00410) NCAS_0F01470(NCAS0F01470)
+ NDI: NDAI_0C02220(NDAI0C02220) NDAI_0E02080(NDAI0E02080) NDAI_0H02350(NDAI0H02350) NDAI_0K00410(NDAI0K00410)
+ TPF: TPHA_0G02470(TPHA0G02470) TPHA_0G02900(TPHA0G02900) TPHA_0I00250(TPHA0I00250)
+ TBL: TBLA_0B03250(TBLA0B03250) TBLA_0B09010(TBLA0B09010) TBLA_0I01380(TBLA0I01380)
+ TDL: TDEL_0A02210(TDEL0A02210) TDEL_0B00570(TDEL0B00570) TDEL_0E00210(TDEL0E00210)
+ KAF: KAFR_0B03920(KAFR0B03920) KAFR_0D03010(KAFR0D03010)
+ PPA: PAS_chr1-4_0264 PAS_chr2-1_0771
+ DHA: DEHA2C05258g DEHA2F03036g
+ PIC: PICST_77218(PGM2) PICST_91072(PGM3)
+ PGU: PGUG_02229 PGUG_05295
+ SPAA: SPAPADRAFT_59795(PGM2) SPAPADRAFT_62449
+ LEL: LELG_00015 LELG_02945
+ CAL: CaO19.10359(PGM2) CaO19.14031 CaO19.6739
+ CTP: CTRG_00819 CTRG_05613
+ COT: CORT_0A00340 CORT_0C01220
+ CDU: CD36_27900 CD36_87400
+ CTEN: CANTEDRAFT_116434 CANTEDRAFT_120860
+ YLI: YALI0E02090g YALI0E02244g
+ CLU: CLUG_00214 CLUG_00423
+ NCR: NCU10058
+ NTE: NEUTE1DRAFT118962(NEUTE1DRAFT_118962)
+ SMP: SMAC_04221
+ PAN: PODANSg2151
+ TTT: THITE_2113222
+ MTM: MYCTH_2296536
+ CTHR: CTHT_0010310
+ MGR: MGG_04495
+ TMN: UCRPA7_2039
+ FGR: FGSG_00387
+ FPU: FPSE_00049
+ NHE: NECHADRAFT_30586
+ TRE: TRIREDRAFT_21836
+ MAW: MAC_03213
+ MAJ: MAA_04308
+ CMT: CCM_02278
+ VAL: VDBG_06171
+ VDA: VDAG_03328
+ ELA: UCREL1_9560
+ SSL: SS1G_06474
+ BFU: BC1G_04759
+ MBE: MBM_08593
+ ANI: AN2867.2 AN4591.2
+ AFM: AFUA_2G02120 AFUA_3G11830
+ AOR: AOR_1_1318154(AO090003000746) AOR_1_824054(AO090011000487)
+ ANG: ANI_1_1068024(An02g07650) ANI_1_1946064(An07g06780)
+ AFV: AFLA_030710 AFLA_043120
+ ACT: ACLA_039720 ACLA_092700
+ NFI: NFIA_034490 NFIA_065490
+ PCS: Pc18g01390 Pc20g04410
+ CIM: CIMG_03640 CIMG_05512
+ CPW: CPC735_006350 CPC735_066490
+ PBL: PAAG_03331 PAAG_11415(PAAG_02011)
+ PBN: PADG_06493 PADG_11132(PADG_00681)
+ URE: UREG_06209 UREG_07404
+ ABE: ARB_02523 ARB_05514
+ TVE: TRV_04519 TRV_05167 TRV_05168
+ AJE: HCAG_08808 HCAG_08824
+ PNO: SNOG_03143 SNOG_08437
+ PTE: PTT_11185 PTT_11268
+ BZE: COCCADRAFT_100282 COCCADRAFT_84367
+ BSC: COCSADRAFT_124799 COCSADRAFT_35048
+ BOR: COCMIDRAFT_31473 COCMIDRAFT_90248
+ ZTR: MYCGRDRAFT_54663(PGM) MYCGRDRAFT_86654
+ PFJ: MYCFIDRAFT_204256 MYCFIDRAFT_58070
+ BCOM: BAUCODRAFT_259397 BAUCODRAFT_34822
+ NPA: UCRNP2_4594 UCRNP2_7037
+ TML: GSTUM_00001433001 GSTUM_00007514001
+ SPO: SPBC32F12.10 SPCC1840.05c
+ CNE: CNN00430
+ CNB: CNBN0410
+ CGI: CGB_N0350C
+ TMS: TREMEDRAFT_45127
+ DSQ: DICSQDRAFT_112999
+ PCO: PHACADRAFT_178364
+ SHS: STEHIDRAFT_168706
+ HIR: HETIRDRAFT_317679 HETIRDRAFT_386831
+ PSQ: PUNSTDRAFT_93572
+ ADL: AURDEDRAFT_105903 AURDEDRAFT_111044
+ FME: FOMMEDRAFT_127398
+ GTR: GLOTRDRAFT_104172 GLOTRDRAFT_105232
+ LBC: LACBIDRAFT_247655 LACBIDRAFT_305339
+ MPR: MPER_15840
+ MRR: Moror_14304
+ CCI: CC1G_00866 CC1G_05188
+ SCM: SCHCODRAFT_65648 SCHCODRAFT_76183
+ ABP: AGABI1DRAFT118802(AGABI1DRAFT_118802)
+ ABV: AGABI2DRAFT222809(AGABI2DRAFT_222809)
+ CPUT: CONPUDRAFT_59135
+ SLA: SERLADRAFT_440916 SERLADRAFT_473267
+ WSE: WALSEDRAFT_33937
+ WIC: J056_001956
+ UMA: UMAG_00486
+ PFP: PFL1_06217
+ MGL: MGL_1163
+ PGR: PGTG_06082 PGTG_13901 PGTG_21923 PGTG_21924
+ MLR: MELLADRAFT_47141
+ ECU: ECU03_0340
+ EIN: Eint_030250
+ EHE: EHEL_030240
+ ERO: EROM_030240
+ MBR: MONBRDRAFT_34982 MONBRDRAFT_36937
+ SRE: PTSG_01381 PTSG_07123
+ DDI: DDB_G0280897(pgmB) DDB_G0288483(pgmA)
+ DPP: DICPUDRAFT_95458
+ DFA: DFA_03821(pgmB) DFA_05075(pgmA)
+ EHI: EHI_110120(5.t00030) EHI_185280(409.t00002)
+ EDI: EDI_174890 EDI_320690
+ EIV: EIN_078960 EIN_410050
+ ACAN: ACA1_038550 ACA1_042250
+ PFA: PF10_0122
+ PFD: PFDG_03764
+ PFH: PFHG_03779
+ PYO: PY_9_p3(PY03478)
+ PCB: PCHAS_121160(PC000039.01.0)
+ PBE: PB001302.00.0 PB300693.00.0
+ PKN: PKH_081200
+ PVX: PVX_094845
+ PCY: PCYB_082230
+ CPV: cgd2_3260 cgd2_3270
+ CHO: Chro.20343
+ TGO: TGME49_085980 TGME49_118580
+ TET: TTHERM_00577080
+ PTM: GSPATT00000627001 GSPATT00032405001
+ SMIN: v1.2.009032.t1(symbB.v1.2.009032.t1) v1.2.026008.t1(symbB.v1.2.026008.t1) v1.2.027230.t2(symbB.v1.2.027230.t2) v1.2.027230.t3(symbB.v1.2.027230.t3)
+ PTI: PHATRDRAFT_50118(PGM_2) PHATRDRAFT_50444(UGP/PGM) PHATRDRAFT_50718(PGM_1)
+ TPS: THAPSDRAFT_268621(PGM2) THAPSDRAFT_270348 THAPS_263111
+ AAF: AURANDRAFT_24439(GPM) AURANDRAFT_25705(GPM2)
+ NGD: NGA_0494201(PGM)
+ PIF: PITG_18414 PITG_19174
+ PSOJ: PHYSODRAFT_518128 PHYSODRAFT_554034
+ SPAR: SPRG_02045 SPRG_07331 SPRG_07332
+ EHX: EMIHUDRAFT_102390 EMIHUDRAFT_427377(PGM_PMM) EMIHUDRAFT_441403
+ GTT: GUITHDRAFT_157816 GUITHDRAFT_159531 GUITHDRAFT_166345
+ TCR: 506405.10 508637.90 511911.130
+ LMA: LMJF_21_0640 LMJF_34_3780
+ LIF: LINJ_21_0700 LINJ_34_3580
+ LDO: LDBPK_210700 LDBPK_343580
+ LMI: LMXM_21_0640 LMXM_33_3780
+ LBZ: LBRM_20_3380 LBRM_21_0700
+ NGR: NAEGRDRAFT_39110 NAEGRDRAFT_82954
+ TVA: TVAG_054830 TVAG_205910 TVAG_405900
+ GLA: GL50803_17254
+ ECO: b0688(pgm)
+ ECJ: JW0675(pgm)
+ ECD: ECDH10B_0753(pgm)
+ EBW: BWG_0549(pgm)
+ ECOK: ECMDS42_0544(pgm)
+ ECE: Z0837(pgm)
+ ECS: ECs0719
+ ECF: ECH74115_0783(pgm)
+ ETW: ECSP_0736(pgm)
+ ELX: CDCO157_0699
+ EOJ: ECO26_0753(pgm)
+ EOI: ECO111_0708(pgm)
+ EOH: ECO103_0685(pgm)
+ ECG: E2348C_0580(pgm)
+ EOK: G2583_0849(pgm)
+ ELR: ECO55CA74_04125
+ ECC: c0775(pgm)
+ ECP: ECP_0709
+ ECI: UTI89_C0693(pgm)
+ ECV: APECO1_1376(pgm)
+ ECX: EcHS_A0735(pgm)
+ ECW: EcE24377A_0716(pgm)
+ ECM: EcSMS35_0710(pgm)
+ ECY: ECSE_0750
+ ECR: ECIAI1_0667(pgm)
+ ECQ: ECED1_0670(pgm)
+ ECK: EC55989_0675(pgm)
+ ECT: ECIAI39_0646(pgm)
+ EOC: CE10_0678(pgm)
+ EUM: ECUMN_0774(pgm)
+ ECZ: ECS88_0725(pgm)
+ ELO: EC042_0716(pgm)
+ ELN: NRG857_03110
+ ELH: ETEC_0705
+ ESE: ECSF_0626
+ ESO: O3O_07100
+ ESM: O3M_18175
+ ESL: O3K_18195
+ ECL: EcolC_2968
+ EBR: ECB_00645(pgm)
+ EBD: ECBD_2973
+ EKO: EKO11_3189
+ EKF: KO11_20280(pgm)
+ EAB: ECABU_c07420(pgm)
+ EDH: EcDH1_2949
+ EDJ: ECDH1ME8569_0646(pgm)
+ EIH: ECOK1_0699(pgm)
+ ENA: ECNA114_0627(pgm)
+ ELU: UM146_14115
+ EUN: UMNK88_725(pgm)
+ ELW: ECW_m0741(pgm)
+ ELL: WFL_03640(pgm)
+ ELC: i14_0744(pgm)
+ ELD: i02_0744(pgm)
+ ELP: P12B_c0660
+ EBL: ECD_00645(pgm)
+ EBE: B21_00636(pgm)
+ ELF: LF82_1632(pgm)
+ ECOA: APECO78_06985
+ ECOL: LY180_03670
+ ECOI: ECOPMV1_00704(pgm)
+ ECOJ: P423_03405
+ ECOO: ECRM13514_0711(pgm)
+ ECOH: ECRM13516_0658(pgm)
+ ECOS: EC958_0806
+ EFE: EFER_2420(pgm)
+ EAL: EAKF1_ch0774c(pgm)
+ STY: STY0736(pgm)
+ STT: t2177(pgm)
+ SEX: STBHUCCB_23060
+ SENT: TY21A_11065
+ STM: STM0698(pgm)
+ SEO: STM14_0815(pgm)
+ SEV: STMMW_07561
+ SEY: SL1344_0680(pgm)
+ SEM: STMDT12_C07540
+ SEJ: STMUK_0703(pgm)
+ SEB: STM474_0719(pgm)
+ SEF: UMN798_0755(pgm)
+ SETU: STU288_10915
+ SETC: CFSAN001921_13540
+ SENR: STMDT2_06821(pgm)
+ SEND: DT104_07211(pgm)
+ SENI: CY43_03780
+ SEEN: SE451236_09515
+ SPT: SPA2043(pgm)
+ SEK: SSPA1904
+ SPQ: SPAB_02840
+ SEI: SPC_0707(pgm)
+ SEC: SCH_0718(pgm)
+ SEH: SeHA_C0819(pgm)
+ SHB: SU5_01382
+ SENH: CFSAN002069_05350
+ SEEH: SEEH1578_12890
+ SEE: SNSL254_A0758(pgm)
+ SENN: SN31241_16980
+ SEW: SeSA_A0855(pgm)
+ SEA: SeAg_B0745(pgm)
+ SENS: Q786_03435
+ SED: SeD_A0806(pgm)
+ SEG: SG0695(pgm)
+ SEL: SPUL_2265(pgm)
+ SEGA: SPUCDC_2251(pgm)
+ SET: SEN0662(pgm)
+ SENA: AU38_03410
+ SENO: AU37_03405
+ SENV: AU39_03410
+ SENQ: AU40_03790
+ SENL: IY59_03460
+ SENJ: CFSAN001992_07905
+ SEEC: CFSAN002050_10105
+ SEEB: SEEB0189_015795
+ SEEP: I137_10295
+ SENB: BN855_6850(pgm)
+ SENE: IA1_03620
+ SENC: SEET0819_10460
+ SES: SARI_02243
+ SBG: SBG_0588(pgm)
+ SBZ: A464_659
+ SBV: N643_02965
+ SFL: SF0605(pgm)
+ SFX: S0616(pgm)
+ SFV: SFV_0643(pgm)
+ SFE: SFxv_0667(pgm)
+ SFN: SFy_0818
+ SFS: SFyv_0859
+ SFT: NCTC1_00644(pgm)
+ SSN: SSON_0642(pgm)
+ SSJ: SSON53_03425
+ SBO: SBO_0550(pgm)
+ SBC: SbBS512_E0562(pgm)
+ SDY: SDY_0628(pgm)
+ SDZ: Asd1617_00790
+ SHQ: A0259_07120
+ ENT: Ent638_1203
+ ENC: ECL_03027
+ ENO: ECENHK_06500
+ ECLO: ENC_20380
+ EEC: EcWSU1_01252(pgm)
+ ENL: A3UG_06405
+ ECLG: EC036_12350
+ ECLE: ECNIH2_07195
+ ECLN: ECNIH4_16170
+ ECLI: ECNIH5_06275
+ ECLX: LI66_06150
+ ECLY: LI62_07050
+ ECLZ: LI64_06635
+ ECLA: ECNIH3_06295
+ ECLC: ECR091_06275
+ ESC: Entcl_3127
+ EAS: Entas_1183
+ EAU: DI57_12425
+ ENR: H650_22230
+ ENX: NI40_005945
+ ENF: AKI40_2159
+ ESA: ESA_02648
+ CSK: ES15_2730
+ CSZ: CSSP291_12525
+ CSI: P262_03981
+ CSJ: CSK29544_03944
+ CCON: AFK62_06015
+ CDM: AFK67_06210
+ CMJ: AFK66_013695
+ CUI: AFK65_05990
+ CMW: AFK63_12665
+ CTU: CTU_13060(pgm)
+ KPN: KPN_00711(pgm)
+ KPU: KP1_1664(pgm)
+ KPM: KPHS_15440
+ KPP: A79E_3527
+ KPK: A593_18045
+ KPH: KPNIH24_21065
+ KPZ: KPNIH27_07215
+ KPV: KPNIH29_07915
+ KPW: KPNIH30_07950
+ KPY: KPNIH31_07820
+ KPG: KPNIH32_08055
+ KPC: KPNIH10_07730
+ KPQ: KPR0928_07640
+ KPT: VK055_1820(pgm)
+ KPE: KPK_3859(pgm)
+ KPO: KPN2242_06390
+ KPR: KPR_3868(pgm)
+ KPJ: N559_3618
+ KPI: D364_03715
+ KPA: KPNJ1_03873
+ KPS: KPNJ2_03859
+ KPX: PMK1_03045(pgm)
+ KPB: FH42_24595
+ KPNE: KU54_018705
+ KPNU: LI86_18530
+ KVA: Kvar_3660
+ KVD: KR75_15505
+ KVQ: SP68_22120
+ KOX: KOX_14430
+ KOE: A225_1711
+ KOY: J415_23105
+ KOK: KONIH1_08405
+ KOM: HR38_13200
+ KMI: VW41_05900
+ KLE: AO703_06670
+ KQU: AVR78_12255
+ EAE: EAE_14060
+ EAR: CCG31158
+ CKO: CKO_02471
+ CRO: ROD_06961(pgm)
+ CFD: CFNIH1_13570
+ CAMA: F384_03050
+ CIF: AL515_08055
+ BFL: Bfl326(pgm)
+ BPN: BPEN_335(pgm)
+ BCHR: BCHRO640_345(pgm)
+ BEN: BOBLI757_331(pgm)
+ BED: BTURN675_318(pgm)
+ SECT: A359_03060
+ SEHC: A35E_00450
+ EBT: EBL_c26860(pgm)
+ ROR: RORB6_11555
+ RON: TE10_09370
+ CNT: JT31_06330
+ CEM: LH23_11590
+ CEN: LH86_11025
+ CED: LH89_05960
+ PGE: LG71_21505
+ KSA: C813_08235
+ KOR: AWR26_17680
+ KIN: AB182_17710
+ LAX: APT61_16215
+ LAZ: A8A57_06395
+ HED: TPER_HE00547(pgm)
+ EBF: D782_3158
+ PSTS: E05_07960
+ YPE: YPO2686(pgm)
+ YPK: y1258(pgm)
+ YPA: YPA_2414
+ YPN: YPN_1171
+ YPM: YP_2488(pgm)
+ YPP: YPDSF_1589
+ YPG: YpAngola_A3574(pgm)
+ YPZ: YPZ3_2368(pgm)
+ YPT: A1122_12645
+ YPD: YPD4_2344(pgm)
+ YPX: YPD8_2347(pgm)
+ YPH: YPC_3172(pgm)
+ YPW: CH59_3566(pgm)
+ YPJ: CH55_1485(pgm)
+ YPV: BZ15_847(pgm)
+ YPL: CH46_2423(pgm)
+ YPS: YPTB2923(pgm)
+ YPO: BZ17_3705(pgm)
+ YPI: YpsIP31758_1099(pgm)
+ YPY: YPK_1152
+ YPB: YPTS_3039
+ YPQ: DJ40_3566(pgm)
+ YPU: BZ21_2228(pgm)
+ YPR: BZ20_3249(pgm)
+ YPC: BZ23_2508(pgm)
+ YPF: BZ19_2294(pgm)
+ YEN: YE2967(pgm)
+ YEP: YE105_C1269
+ YEY: Y11_18871
+ YEL: LC20_01651(pgm)
+ YEW: CH47_2328(pgm)
+ YET: CH48_2854(pgm)
+ YEF: FORC2_2951
+ YEE: YE5303_33971(pgm)
+ YSI: BF17_01040
+ YAL: AT01_3780(pgm)
+ YFR: AW19_491(pgm)
+ YIN: CH53_3119(pgm)
+ YKR: CH54_1171(pgm)
+ YRO: CH64_3760(pgm)
+ YRU: BD65_3008(pgm)
+ YRB: UGYR_15365
+ YAK: ACZ76_15115
+ SPE: Spro_1241
+ SRR: SerAS9_1214
+ SRL: SOD_c11120(pgm)
+ SRY: M621_06245
+ SRS: SerAS12_1214
+ SRA: SerAS13_1214
+ SSZ: SCc_253(pgm)
+ SMAF: D781_1163
+ SMW: SMWW4_v1c12060(pgm)
+ SMAR: SM39_0656(pgm)
+ SMAC: SMDB11_0484(pgm)
+ SLQ: M495_05575
+ SERR: Ser39006_1852
+ SERF: L085_22415
+ SERS: SERRSCBI_05695
+ SFW: WN53_15650
+ SRZ: AXX16_3938
+ SFO: Z042_19805
+ RAH: Rahaq_3173
+ RAQ: Rahaq2_3203
+ RAA: Q7S_16005
+ ECA: ECA1336(pgm)
+ PATR: EV46_06755
+ PATO: GZ59_13690(pgm)
+ PCT: PC1_1212
+ PCC: PCC21_012430
+ PCV: BCS7_06245
+ PWA: Pecwa_3119
+ PPAR: A8F97_03085
+ PEC: W5S_3110
+ SGL: SG0866
+ SOD: Sant_2782(pgm)
+ DDA: Dd703_1123 Dd703_3280
+ DDD: Dda3937_01555(pgm)
+ DZE: Dd1591_2933
+ DDC: Dd586_1168
+ DZC: W909_05920
+ DSO: A4U42_15245
+ ETA: ETA_23210(pgm)
+ EPY: EpC_24560(pgm)
+ EPR: EPYR_02658(pgm)
+ EAM: EAMY_1153(pgm)
+ EAY: EAM_1156(pgm)
+ EBI: EbC_12800(pgm)
+ ERJ: EJP617_22730(pgm)
+ EGE: EM595_1097(pgm)
+ WBR: pgm
+ WGL: WIGMOR_0337(pgm)
+ PAM: PANA_1156(pgm)
+ PLF: PANA5342_3133(pgm)
+ PAJ: PAJ_0476(pgm)
+ PAQ: PAGR_g3003
+ PVA: Pvag_0529(pgm)
+ PAO: Pat9b_1097
+ KLN: LH22_16695
+ PANT: PSNIH1_10260
+ PANP: PSNIH2_12095
+ HHS: HHS_07590(pgm)
+ PCK: BMSBPS_0391
+ PAGG: AL522_09970
+ PLU: plu1407(pgm)
+ PAY: PAU_02994(pgm)
+ PTT: VY86_11415
+ PMR: PMI0548(pgm)
+ PMIB: BB2000_0618(pgm)
+ PVL: AOB99_05120
+ XBO: XBJ1_1074(pgm)
+ XBV: XBW1_3512(pgm)
+ XNE: XNC1_1387(pgm)
+ XNM: XNC2_1349(pgm)
+ XDO: XDD1_1323(pgm)
+ XPO: XPG1_2378(pgm)
+ PSI: S70_17105
+ PSX: DR96_2392(pgm)
+ MMK: MU9_1375
+ ASY: AUT07_00458(pgm)
+ EIC: NT01EI_2893
+ ETR: ETAE_2605
+ ETD: ETAF_2346
+ ETE: ETEE_0703(pgm)
+ ETC: ETAC_12525
+ EDW: QY76_07490
+ EHO: A9798_04270
+ HAV: AT03_06735
+ OPO: DSM2777_11845
+ PFQ: QQ39_07205
+ PSHI: SAMEA2665130_2204(pgm)
+ XFA: XF_0260
+ XFT: PD_0213(xanA)
+ XFM: Xfasm12_0128 Xfasm12_0229
+ XFN: XfasM23_0113 XfasM23_0200
+ XFF: XFLM_05880 XFLM_05885 XFLM_06365
+ XFL: P303_10770 P303_11310
+ XFS: D934_01580 D934_02080
+ XCC: XCC0626(xanA) XCC3857(algC)
+ XCB: XC_3608 XC_3941
+ XCA: xcc-b100_3729(xanA) xcc-b100_4041(manB)
+ XCP: XCR_0432 XCR_0775
+ XCV: XCV3703(xanA) XCV4025(manB)
+ XAC: XAC3579(xanA) XAC3912(algC)
+ XCI: XCAW_00367(cpsG) XCAW_04279(xanA)
+ XCT: J151_03764 J151_04091
+ XCU: J159_03736 J159_04063
+ XCN: J169_03761 J169_04088
+ XCW: J162_03741 J162_04068
+ XCR: J163_03736 J163_04063
+ XCM: J164_03737 J164_04064
+ XCF: J172_03754 J172_04081
+ XCJ: J158_03740 J158_04067
+ XFU: XFF4834R_chr34730(xanA) XFF4834R_chr38000
+ XAX: XACM_3474(xanA) XACM_3806(manB)
+ XAO: XAC29_18220 XAC29_19845
+ XOO: XOO0498(algC) XOO0797(xanA)
+ XOM: XOO0465(XOO0465) XOO0725(XOO0725)
+ XOP: PXO_02922 PXO_03174(xanA)
+ XOY: AZ54_20815 AZ54_22570
+ XOR: XOC_3841(xanA) XOC_4230
+ XOZ: BE73_03040 BE73_04465
+ XAL: XALC_0375 XALC_2692(xanA)
+ XSA: SB85_09625 SB85_14950
+ XTN: FD63_01870 FD63_16520
+ SML: Smlt0403(spgM) Smlt0653(xanA)
+ SMT: Smal_0286 Smal_0509
+ BUJ: BurJV3_0314 BurJV3_0529
+ SMZ: SMD_0323(algC) SMD_0549(spgM)
+ SACZ: AOT14_05640(algC) AOT14_06420(manB)
+ STEK: AXG53_07905 AXG53_14850
+ SRH: BAY15_0499 BAY15_0721
+ PSU: Psesu_0157 Psesu_2445
+ PSUW: WQ53_07065 WQ53_11225
+ PSD: DSC_00055 DSC_02545
+ LAB: LA76x_4631
+ LAQ: GLA29479_4451(algC)
+ LCP: LC55x_0435 LC55x_5555(pgm)
+ LGU: LG3211_0444 LG3211_2489(pgm)
+ LEZ: GLE_0254
+ FAU: Fraau_3262
+ RHD: R2APBS1_0585 R2APBS1_3851 R2APBS1_3910
+ DJI: CH75_01005 CH75_10100 CH75_20820 CH75_24085
+ DJA: HY57_02855 HY57_13875 HY57_20075
+ DTX: ATSB10_00710 ATSB10_30710 ATSB10_36130
+ DKO: I596_3660
+ VCH: VC2095
+ VCF: IR04_15615
+ VCE: Vch1786_I1588
+ VCJ: VCD_002272
+ VCO: VC0395_A1681(pgm)
+ VCR: VC395_2210(pgm)
+ VCM: VCM66_2019(pgm)
+ VCI: O3Y_10120
+ VCL: VCLMA_A1831
+ VCQ: EN18_13570
+ VCS: MS6_1855
+ VCX: VAA049_786(pgm)
+ VCZ: VAB027_2731(pgm)
+ VVU: VV1_0169(pgm)
+ VVY: VV1020
+ VVM: VVMO6_02207
+ VVL: VV93_v1c09430
+ VPA: VP0839
+ VPB: VPBB_0796
+ VPK: M636_17590
+ VPF: M634_06205
+ VPH: VPUCM_2385
+ VHA: VIBHAR_01345
+ VCA: M892_06295
+ VAG: N646_2991
+ VEX: VEA_004120
+ VHR: AL538_13715
+ VSP: VS_2252
+ VEJ: VEJY3_03815
+ VFU: vfu_A01226
+ VNI: VIBNI_A2572(pgm)
+ VAN: VAA_03420
+ LAG: N175_05505
+ VAU: VANGNB10_cI1905c(pgm)
+ VCY: IX92_03180
+ VCT: JV59_35535
+ VTU: IX91_04095
+ VFL: AL536_09990
+ VMI: AL543_19785
+ VFI: VF_0816(pgm)
+ VFM: VFMJ11_0854(pgm)
+ VSA: VSAL_I0839(pgm)
+ AWD: AWOD_I_0783(pgm)
+ PPR: PBPRA1040(S0616)
+ PGB: H744_2c1247
+ GHO: AL542_04495
+ PAE: PA5322(algC)
+ PAEV: N297_5502(algC)
+ PAEI: N296_5502(algC)
+ PAU: PA14_70270(algC)
+ PAP: PSPA7_6098(algC)
+ PAG: PLES_57171(algC)
+ PAF: PAM18_5442(algC)
+ PNC: NCGM2_6087(algC)
+ PAEB: NCGM1900_6165(algC)
+ PDK: PADK2_28345
+ PSG: G655_28010
+ PRP: M062_28035
+ PAEP: PA1S_28765
+ PAER: PA1R_gp3253
+ PAEM: U769_29265
+ PAEL: T223_29225
+ PAES: SCV20265_6048
+ PAEU: BN889_05902(algC)
+ PAEG: AI22_05225
+ PAEC: M802_5500(algC)
+ PAEO: M801_5367(algC)
+ PMY: Pmen_4379
+ PMK: MDS_4709
+ PRE: PCA10_55240(algC)
+ PPSE: BN5_4209(algC)
+ PALC: A0T30_01015
+ PPU: PP_1777(xanA) PP_3578 PP_5288
+ PPF: Pput_2193 Pput_5197
+ PPG: PputGB1_2336 PputGB1_5338
+ PPW: PputW619_0183 PputW619_1384 PputW619_2971
+ PPT: PPS_1418 PPS_3073 PPS_5138
+ PPB: PPUBIRD1_2214 PPUBIRD1_5082
+ PPI: YSA_00178 YSA_02215 YSA_04816
+ PPX: T1E_2283(celB) T1E_3027 T1E_4704
+ PPUH: B479_15285 B479_26180
+ PPUT: L483_06410 L483_18760 L483_31590
+ PPUN: PP4_22480(pgm) PP4_53510(algC)
+ PPUD: DW66_3344 DW66_5708
+ PFV: Psefu_1802 Psefu_4306
+ PMON: X969_05015 X969_14760 X969_25390
+ PMOT: X970_04990 X970_14405 X970_25025
+ PMOS: O165_007450 O165_022595
+ PPJ: RK21_01570 RK21_04922
+ POR: APT59_05295 APT59_21610
+ PST: PSPTO_0083(algC) PSPTO_3035(pgm)
+ PSB: Psyr_0219 Psyr_2908
+ PSYR: N018_00520 N018_11960
+ PSP: PSPPH_0207(algC) PSPPH_2317(pgm)
+ PCI: PCH70_01500 PCH70_28020
+ PFL: PFL_3231(pgm) PFL_6054(algC)
+ PPRC: PFLCHA0_c32610(celB) PFLCHA0_c60130(algC)
+ PPRO: PPC_3256 PPC_6007
+ PFO: Pfl01_2670 Pfl01_5542(pgm)
+ PFS: PFLU_3157 PFLU_5986
+ PFE: PSF113_2773 PSF113_5762(algC)
+ PFC: PflA506_2605(pgm) PflA506_5268(algC)
+ PFN: HZ99_02960 HZ99_16955
+ PFW: PF1751_v1c26070(pgm) PF1751_v1c53990(algC)
+ PFB: VO64_0227 VO64_2875
+ PFF: PFLUOLIPICF709000 PFLUOLIPICF723315
+ PPZ: H045_08000 H045_20235
+ PMAN: OU5_0336 OU5_3610
+ PTV: AA957_00370 AA957_15200
+ PEN: PSEEN2645(pgm) PSEEN5434(algC)
+ PSA: PST_0470 PST_4152(pgm)
+ PSZ: PSTAB_0506 PSTAB_4134
+ PSR: PSTAA_0523 PSTAA_4304(pgm)
+ PSC: A458_00245 A458_19045
+ PSJ: PSJM300_02290 PSJM300_10005
+ PSH: Psest_0039 Psest_3806
+ PSTU: UIB01_00190 UIB01_19260
+ PSTT: CH92_02055 CH92_10435
+ PBM: CL52_00180 CL52_02170
+ PBA: PSEBR_a3020 PSEBR_a5523
+ PBC: CD58_15160 CD58_28890
+ PPUU: PputUW4_02541(pgm) PputUW4_05326(algC)
+ PDR: H681_24190
+ PSV: PVLB_13870 PVLB_25045
+ PSK: U771_17080 U771_30920
+ PKC: PKB_5462(celB) PKB_5658(algC)
+ PCH: EY04_16230 EY04_30355
+ PCZ: PCL1606_01460 PCL1606_28010
+ PCP: JM49_01035 JM49_09350 JM49_14430
+ PFZ: AV641_00490 AV641_12205
+ PALK: PSAKL28_23100 PSAKL28_51510
+ PRH: LT40_09225 LT40_10340 LT40_16795
+ PSW: LK03_05520 LK03_18365 LK03_21295
+ PPV: NJ69_08420 NJ69_18405
+ PSES: PSCI_1587 PSCI_4208
+ PSEM: TO66_16915 TO66_30830
+ PSEC: CCOS191_3001(celB) CCOS191_5182(algC)
+ PPSY: AOC04_09190 AOC04_20665
+ PSOS: POS17_2845 POS17_6011
+ AVN: Avin_02910(algC)
+ AVL: AvCA_02910(algC)
+ AVD: AvCA6_02910(algC)
+ ACX: Achr_38610(algC)
+ PBB: AKN87_07630
+ PCR: Pcryo_0569
+ PRW: PsycPRwf_1827
+ PSO: PSYCG_03185
+ PUR: AOC03_03370
+ PALI: A3K91_0671
+ PSPG: AK823_03420
+ PSYG: AK825_03355
+ ACB: A1S_0887
+ ABM: ABSDF2549(algC)
+ ABY: ABAYE2928(algC)
+ ABC: ACICU_00838
+ ABN: AB57_0935
+ ABB: ABBFA_002727
+ ABX: ABK1_0875
+ ABZ: ABZJ_00878
+ ABR: ABTJ_02925
+ ABD: ABTW07_0867
+ ABH: M3Q_1083
+ ABAD: ABD1_08330(algC)
+ ABJ: BJAB07104_00889
+ ABAB: BJAB0715_00873
+ ABAJ: BJAB0868_00897
+ ABAZ: P795_13330
+ ABK: LX00_04425
+ ABAU: IX87_01720
+ ABAA: IX88_06410
+ ABW: BL01_11755
+ ABAL: ABLAC_29720
+ ACC: BDGL_000151(algC)
+ ANO: RR32_13775
+ ACD: AOLE_15275
+ ACI: ACIAD0902(algC)
+ ATT: AMQ28_11525
+ AEI: AOY20_07025
+ AJO: RZ95_13390
+ ACW: A0J50_13085
+ ACV: AMD27_03620
+ MOS: AXE82_09875
+ SON: SO_2336(pgm)
+ SDN: Sden_1985
+ SFR: Sfri_1915
+ SAZ: Sama_1706
+ SBL: Sbal_2225 Sbal_4511
+ SBM: Shew185_2146
+ SBN: Sbal195_2196
+ SBP: Sbal223_2238
+ SBT: Sbal678_2199
+ SBS: Sbal117_2348
+ SBB: Sbal175_2273
+ SLO: Shew_1922
+ SPC: Sputcn32_1882
+ SHP: Sput200_2109
+ SSE: Ssed_2332
+ SPL: Spea_2056
+ SHE: Shewmr4_2031
+ SHM: Shewmr7_1944
+ SHN: Shewana3_2134
+ SHW: Sputw3181_2126
+ SHL: Shal_2238
+ SWD: Swoo_2275
+ SWP: swp_2609
+ SVO: SVI_2038(pgm)
+ ILO: IL1471(pgm)
+ ILI: K734_07390
+ CPS: CPS_1581(pgm)
+ COM: CMT41_06080
+ COZ: A3Q34_16100
+ PHA: PSHAa1634(pgm)
+ PAT: Patl_2198
+ PSM: PSM_A1607(pgm)
+ PSEO: OM33_10885
+ PIA: PI2015_1553
+ PPHE: PP2015_1735
+ PBW: D172_008410
+ PRR: AT705_02420
+ PTN: PTRA_a2029(pgm)
+ MAQ: Maqu_3561
+ MHC: MARHY3461
+ MAD: HP15_3318(algC)
+ MBS: MRBBS_3555(algC)
+ MSR: AU15_02025
+ MPQ: ABA45_16685
+ MARI: ACP86_07110
+ MLQ: ASQ50_12640
+ AMC: MADE_1007745
+ AMH: I633_07885
+ AMAA: amad1_07830
+ AMAL: I607_07045
+ AMAE: I876_07340
+ AMAO: I634_07460
+ AMAD: I636_07910
+ AMAI: I635_07820
+ AMAG: I533_07360
+ AMAC: MASE_06975
+ AMB: AMBAS45_07305
+ AMG: AMEC673_07030
+ AMK: AMBLS11_06995
+ ALT: ambt_11070
+ AAL: EP13_07760
+ AAUS: EP12_07855
+ ASP: AOR13_2028
+ AAW: AVL56_07760
+ GAG: Glaag_2064
+ GNI: GNIT_1628(pgm)
+ GPS: C427_3209
+ LAL: AT746_10410
+ PIN: Ping_0879
+ PSY: PCNPT3_03065
+ FBL: Fbal_2366
+ MVS: MVIS_2243(pgmA)
+ CJA: CJA_1887(pgm) CJA_3524(algC)
+ SDE: Sde_1254 Sde_3676
+ TTU: TERTU_0186 TERTU_3413(pgm)
+ SAGA: M5M_12800
+ SPOI: IMCC21906_00289
+ ZAL: AZF00_17705
+ MTHD: A3224_15835
+ CBU: CBU_0294
+ CBS: COXBURSA331_A0399(algC)
+ CBD: CBUD_1786(algC)
+ CBG: CbuG_1711(algC)
+ CBC: CbuK_0491(algC)
+ CEY: CleRT_13060
+ LPH: LPV_2811(algC)
+ LPO: LPO_2675(algC)
+ LPU: LPE509_00575
+ LPM: LP6_2516(algC)
+ LPE: lp12_2478
+ LFA: LFA_2600(algC) LFA_3349(algC)
+ LHA: LHA_0493(algC) LHA_1994(algC)
+ LOK: Loa_00702
+ TMC: LMI_0645(algC)
+ MCA: MCA0607(pgm) MCA2782
+ MMT: Metme_0377 Metme_3325
+ MDN: JT25_012065 JT25_013415
+ MDH: AYM39_02995 AYM39_20935
+ MAH: MEALZ_0132 MEALZ_1221(pgm)
+ FTU: FTT_0414(pgm)
+ FTQ: RO31_0465 RO31_0466(pgm)
+ FTF: FTF0414(pgm)
+ FTW: FTW_1659
+ FTR: NE061598_02305
+ FTT: FTV_0384(pgm)
+ FTY: CH70_1551
+ FTG: FTU_0468(pgm)
+ FTL: FTL_0484
+ FTH: FTH_0482(pgm)
+ FTA: FTA_0510
+ FTS: F92_02625
+ FTI: FTS_0486(pgm)
+ FTO: X557_02605
+ FTC: DA46_211
+ FTV: CH67_785
+ FTZ: CH68_519
+ FTM: FTM_0570(pgm)
+ FTN: FTN_0514(pgm)
+ FTX: AW25_1515(pgm)
+ FTD: AS84_172(pgm)
+ FCF: FNFX1_0501
+ FCN: FN3523_0474
+ FPH: Fphi_0327
+ FPT: BZ13_1746
+ FPI: BF30_504(pgm)
+ FPM: LA56_1860(pgm)
+ FPX: KU46_1050(pgm)
+ FPZ: LA55_514(pgm)
+ FPJ: LA02_1939(pgm)
+ FRT: F7308_1821
+ FNA: OOM_1081
+ FNL: M973_03035
+ FRF: LO80_03930 LO80_08185
+ FPER: ACH24_01535
+ FGU: SD28_03220
+ TCX: Tcr_1677 Tcr_2017
+ TCY: Thicy_0054 Thicy_0652
+ TAO: THIAE_00375 THIAE_05945
+ MEJ: Q7A_2032 Q7A_2418
+ MEC: Q7C_2284 Q7C_2666
+ CYQ: Q91_1911
+ CZA: CYCME_0529
+ PSAL: PSLF89_211(algC)
+ TIG: THII_1310 THII_1311
+ BLEP: AL038_09905 AL038_13675
+ NOC: Noc_1719 Noc_2994
+ NHL: Nhal_2091 Nhal_3802
+ NWA: Nwat_1388 Nwat_3050
+ ALV: Alvin_1415
+ TVI: Thivi_0618
+ TMB: Thimo_0741 Thimo_3043
+ MPUR: MARPU_03330
+ TEE: Tel_03850 Tel_04945
+ AEH: Mlg_2845
+ HHA: Hhal_2297
+ HHC: M911_00625 M911_10680
+ TGR: Tgr7_1484
+ TKM: TK90_0742 TK90_1093
+ TNI: TVNIR_0061(xanA_[H]) TVNIR_1448
+ TTI: THITH_00420 THITH_09415
+ TVR: TVD_04975 TVD_05820
+ SSAL: SPISAL_01050
+ SPIU: SPICUR_01160
+ EBS: ECTOBSL9_1149 ECTOBSL9_3170
+ APRS: BI364_00580 BI364_08985 BI364_09320
+ HNA: Hneap_0489 Hneap_1298
+ HAZ: A9404_06405
+ WMA: WM2015_119 WM2015_2251
+ HCH: HCH_01025 HCH_06439
+ CSA: Csal_2983
+ HEL: HELO_3829(algC)
+ HCS: FF32_08710 FF32_18320
+ HAK: KO116_02920 KO116_03812
+ HAM: HALO3182 HALO3188 HALO4085
+ HHU: AR456_02620 AR456_16605
+ HCO: LOKO_03009(algC)
+ HAA: A5892_08490 A5892_13730
+ ABO: ABO_0211(pgm) ABO_0937(algC)
+ ADI: B5T_00187(pgm) B5T_01749(algC)
+ APAC: S7S_00400 S7S_10425
+ ALN: AS19_02180 AS19_09990
+ KKO: Kkor_2220
+ KGE: TQ33_0374
+ KSD: KS2013_386
+ MMW: Mmwyl1_2159
+ MME: Marme_2045
+ MPC: Mar181_1829
+ TOL: TOL_0208 TOL_1752
+ TOR: R615_00930 R615_08860
+ OAI: OLEAN_C38520(manB)
+ GSN: YC6258_01082
+ AHA: AHA_1537(pgm)
+ AHY: AHML_08530
+ AHD: AI20_11485
+ AHR: V428_08760
+ AHP: V429_08765
+ AHJ: V469_14730
+ AHH: RY45_08355
+ AHI: VU14_14875
+ ASA: ASA_2817(pgm)
+ AVR: B565_2659
+ AVO: AMS64_16065
+ AMED: B224_3643
+ ASR: WL1483_1049(pgm)
+ TAU: Tola_0862
+ OCE: GU3_11190
+ GAP: GAPWK_1832
+ FPP: FPB0191_00422
+ SDF: ACG33_04525
+ BCIB: IM45_220
+ RMA: Rmag_0456
+ VOK: COSY_0423
+ GPB: HDN1F_05220(manB)
+ TBN: TBH_C1019
+ SEDS: AAY24_11785
+ TSN: W908_03710
+ THO: SP60_00450
+ PSPI: PS2015_2977
+ GBI: PG2T_08055 PG2T_12720
+ ENM: EBS_0293 EBS_1464
+ NMA: NMA1001
+ NME: NMB0790(pgm)
+ NMP: NMBB_0894
+ NMH: NMBH4476_1394
+ NMC: NMC0743(pgm)
+ NMN: NMCC_0756(pgm)
+ NMT: NMV_1606(pgm)
+ NMI: NMO_0678(pgm)
+ NMD: NMBG2136_0740
+ NMM: NMBM01240149_1299
+ NMS: NMBM01240355_0791
+ NMQ: NMBM04240196_1374(pgm)
+ NMW: NMAA_0620(pgm)
+ NMZ: NMBNZ0533_0840(pgm)
+ NMX: NMA510612_1122(pgm)
+ NGO: NGO_0375
+ NGK: NGK_0533
+ NLA: NLA_14390(pgm)
+ NEL: NELON_05080
+ NWE: SAMEA3174300_0446(algC)
+ SALV: SALWKB2_1231
+ CVI: CV_2172(algC)
+ LHK: LHK_01493(algC)
+ PSE: NH8B_1933
+ RSO: RSc0691
+ RSC: RCFBP_20723(cpsG)
+ RSL: RPSI07_2659(cpsG)
+ RSN: RSPO_c02678(cpsG)
+ RSM: CMR15_30228(cpsG)
+ RSE: F504_707
+ RPI: Rpic_0641
+ RPF: Rpic12D_0600
+ RPJ: N234_16540
+ RMN: TK49_07530
+ RIN: ACS15_0778
+ REU: Reut_A0745
+ REH: H16_A1847(manB1) H16_A2885(manB2)
+ CNC: CNE_1c28230(manB)
+ RME: Rmet_2716(cpsG)
+ CTI: RALTA_A2364(cpsG)
+ CBW: RR42_m3197
+ CGD: CR3_0520(pmm-pgm)
+ BMA: BMA2191
+ BMV: BMASAVP1_A0716
+ BML: BMA10229_A2550
+ BMN: BMA10247_2064
+ BMAL: DM55_2273
+ BMAE: DM78_888
+ BMAQ: DM76_2257
+ BMAI: DM57_970
+ BMAF: DM51_1841
+ BMAZ: BM44_1163
+ BMAB: BM45_729
+ BPS: BPSL2666(pgm)
+ BPM: BURPS1710b_3143
+ BPL: BURPS1106A_3119
+ BPD: BURPS668_3083
+ BPR: GBP346_A3263
+ BPSE: BDL_2780
+ BPSM: BBQ_647
+ BPSU: BBN_775
+ BPSD: BBX_1179
+ BPZ: BP1026B_I0653(pgm)
+ BPQ: BPC006_I3163
+ BPK: BBK_2278
+ BPSH: DR55_1853
+ BPSA: BBU_2898
+ BPSO: X996_1494
+ BUT: X994_3493
+ BTE: BTH_I1489
+ BTQ: BTQ_2433
+ BTJ: BTJ_3232
+ BTZ: BTL_1162
+ BTD: BTI_940
+ BTV: BTHA_1255
+ BTHE: BTN_225
+ BTHM: BTRA_1371
+ BTHA: DR62_392
+ BTHL: BG87_1385
+ BOK: DM82_2328
+ BOC: BG90_2407
+ BVI: Bcep1808_0826 Bcep1808_6499
+ BVE: AK36_3034 AK36_5948
+ BUR: Bcep18194_A3990
+ BCN: Bcen_0414
+ BCH: Bcen2424_0893
+ BCM: Bcenmc03_0863
+ BCJ: BCAL3113(manB)
+ BCEN: DM39_6265 DM39_706
+ BCEW: DM40_1564
+ BCEO: I35_0760(manB)
+ BAM: Bamb_0772
+ BAC: BamMC406_0783
+ BMU: Bmul_2497
+ BMJ: BMULJ_00739(manB)
+ BMK: DM80_783
+ BMUL: NP80_900
+ BCT: GEM_2630
+ BCED: DM42_935
+ BDL: AK34_2275
+ BPYR: ABD05_10095
+ BCON: NL30_11280
+ BGL: bglu_1g07480
+ BGP: BGL_1c07370(manB)
+ BGU: KS03_1679
+ BUG: BC1001_0692
+ BGE: BC1002_0655
+ BGF: BC1003_0802
+ BGD: bgla_1g08080
+ BGO: BM43_2191
+ BYI: BYI23_A020350
+ BUK: MYA_0790 MYA_5902
+ BUO: BRPE64_ACDS21390
+ BUE: BRPE67_ACDS20980
+ BUL: BW21_1033
+ BUB: BW23_833
+ BUQ: AC233_03445
+ BPLA: bpln_1g07270
+ BUD: AQ610_04565
+ BXE: Bxe_A3701 Bxe_B1518 Bxe_C0545
+ BXB: DR64_1393 DR64_6826(pgm) DR64_7902(pgm)
+ BPH: Bphy_2267
+ BRH: RBRH_01444(manB)
+ BPX: BUPH_05523
+ BPY: Bphyt_0920
+ BFN: OI25_795
+ BCAI: K788_0007857
+ PNU: Pnuc_1092
+ PNE: Pnec_0781
+ PDQ: CL55_00007120
+ PPK: U875_02800
+ PPNO: DA70_19870
+ PPNM: LV28_10515
+ PRB: X636_06660
+ PPUL: RO07_04785
+ PSPU: NA29_00525
+ PAPI: SG18_05250
+ PVE: UC34_20870
+ POX: MB84_00765
+ PTX: ABW99_07000 ABW99_13130
+ PFG: AB870_07700
+ PNR: AT302_04425 AT302_27060
+ BPE: BP3141(pgm)
+ BPC: BPTD_1940(pgm) BPTD_3103(pgm)
+ BPER: BN118_0978(pgm) BN118_2806(pgm)
+ BPET: B1917_0681(pgm) B1917_1743(pgm)
+ BPEU: Q425_15260(pgm) Q425_31190(pgm)
+ BPA: BPP0800(pgm)
+ BPAR: BN117_0831(pgm) BN117_1503(pgm)
+ BBR: BB0885(pgm)
+ BBM: BN115_0854(pgm) BN115_1702(pgm)
+ BBH: BN112_1715(pgm) BN112_2557(pgm)
+ BBX: BBS798_0858(pgm) BBS798_1701(pgm)
+ BPT: Bpet4021(pgm)
+ BAV: BAV0520(pgm)
+ BHO: D560_0468 D560_0469
+ BHM: D558_0466
+ BHZ: ACR54_00725(algC)
+ BTRM: SAMEA390648701810(pgm)
+ AXY: AXYL_05607
+ AXO: NH44784_029571 NH44784_060881
+ AXN: AX27061_4333 AX27061_5360
+ AXS: LH59_19940 LH59_24670
+ AXX: ERS451415_04352(algC_1) ERS451415_05389(algC_2)
+ ADT: APT56_19905 APT56_24625
+ TEQ: TEQUI_0943
+ TEA: KUI_0345
+ TEG: KUK_0934
+ TAS: TASI_0329
+ TAT: KUM_1283
+ PUT: PT7_2132
+ AKA: TKWG_20385
+ AMIM: MIM_c32500(pgm)
+ CDN: BN940_16351
+ BPSI: IX83_03345
+ AFA: UZ73_07745
+ RFR: Rfer_1145
+ PNA: Pnap_4496
+ VAP: Vapar_2943
+ VPE: Varpa_3215
+ VPD: VAPA_1c26100
+ VAA: AX767_03755 AX767_03760 AX767_20205
+ CBX: Cenrod_1461(pgm)
+ HAR: HEAR2721
+ MMS: mma_2943(algC)
+ JAG: GJA_1068(pgm) GJA_788
+ JAB: VN23_00900 VN23_11310
+ HSE: Hsero_0472(cpsG) Hsero_2663(pgm)
+ HSZ: ACP92_02355 ACP92_13345
+ HHT: F506_01325
+ HRB: Hrubri_0470(cpsG) Hrubri_2753(pgm)
+ CFU: CFU_0814 CFU_1723(pgm) CFU_2724(pmm)
+ CARE: LT85_0901 LT85_2932 LT85_3003
+ CPRA: CPter91_0953 CPter91_1880 CPter91_2223(pgm)
+ MNR: ACZ75_23170 ACZ75_24285
+ MASW: AM586_23335 AM586_24250
+ LCH: Lcho_1888
+ TIN: Tint_0945 Tint_1095
+ THI: THI_1199(manB) THI_1387(pgm)
+ RGE: RGE_22370(pgm)
+ RBN: RBXJA2T_07458
+ BBAG: E1O_07810 E1O_28340
+ NEU: NE1895
+ NET: Neut_2007 Neut_2184
+ NIT: NAL212_0853
+ NII: Nit79A3_0032 Nit79A3_1888
+ NCO: AAW31_09420
+ NUR: ATY38_00855
+ NMU: Nmul_A0467 Nmul_A1062
+ EBA: ebA996
+ AZO: azo2778(pgm)
+ AZA: AZKH_1027
+ AZI: AzCIB_0901
+ DAR: Daro_1444 Daro_3299
+ TMZ: Tmz1t_1206 Tmz1t_2749
+ THU: AC731_004155 AC731_019195
+ DSU: Dsui_3344
+ SHD: SUTH_00809(pgm) SUTH_02501
+ METR: BSY238_3277
+ RBU: PG1C_13465 PG1C_13865
+ TBD: Tbd_2138
+ SDR: SCD_n00206(pgm) SCD_n01965(manB2)
+ MFA: Mfla_1921 Mfla_1925
+ MMB: Mmol_1563
+ MEH: M301_1072
+ MEI: Msip34_0822 Msip34_0827
+ MEP: MPQ_0865(pgm) MPQ_0867
+ MBAC: BN1209_1130(pgm) BN1209_1132(pgm)
+ MBAT: BN1208_0622(pgm)
+ MEU: ACJ67_10660 ACJ67_10680
+ APP: CAP2UW1_2125 CAP2UW1_2943
+ SLT: Slit_1882 Slit_2101
+ GCA: Galf_0512 Galf_2505
+ KDE: CDSE_0307
+ BPRC: D521_0701
+ BEB: AEM42_07000
+ HPY: HP1275(algC)
+ HEO: C694_06590
+ HPJ: jhp_1196
+ HPA: HPAG1_1219
+ HPS: HPSH_06605
+ HHP: HPSH112_06380
+ HHQ: HPSH169_06345
+ HHR: HPSH417_06265
+ HPG: HPG27_1220
+ HPP: HPP12_1241
+ HPB: HELPY_1252
+ HPL: HPB8_205(algC)
+ HPC: HPPC_06270
+ HCA: HPPC18_06365
+ HPM: HPSJM_06375
+ HPE: HPELS_06625
+ HPO: HMPREF4655_21467
+ HPI: hp908_1275
+ HPQ: hp2017_1233
+ HPW: hp2018_1238
+ HPU: HPCU_06515
+ HEF: HPF16_1210(algC)
+ HPF: HPF30_0122(algC)
+ HEQ: HPF32_1205(algC)
+ HEX: HPF57_1234(algC)
+ HPT: HPSAT_06165
+ HPZ: HPKB_1211
+ HPV: HPV225_1309
+ HPX: HMPREF0462_1291
+ HEN: HPSNT_06405
+ HPH: HPLT_06405
+ HEG: HPGAM_06600
+ HPN: HPIN_06730
+ HEP: HPPN120_06270
+ HEU: HPPN135_06550
+ HES: HPSA_06270
+ HPYS: HPSA20_1378
+ HCN: HPB14_06070
+ HPD: KHP_1171(manB)
+ HEY: MWE_1485
+ HER: C695_06600
+ HEI: C730_06600
+ HPYA: HPAKL117_06055
+ HPYK: HPAKL86_06770
+ HPYO: HPOK113_1230(algC)
+ HPYL: HPOK310_1168(algC)
+ HPYB: HPOKI102_06760
+ HPYC: HPOKI112_06775
+ HPYD: HPOKI128_07540
+ HPYE: HPOKI154_06445
+ HPYF: HPOKI422_06795
+ HPYG: HPOKI673_06415
+ HPYH: HPOKI828_06450
+ HPYJ: HPOKI898_06770
+ HPYR: K747_04635
+ HPYI: K750_02065
+ HPYU: K751_01230
+ HPYM: K749_07400
+ HEM: K748_05820
+ HEB: U063_0331
+ HEZ: U064_0332
+ HHE: HH_0613(glmM_1)
+ HAC: Hac_0209(algC)
+ HMS: HMU13960
+ HFE: HFELIS_08330
+ HBI: HBZC1_03230
+ HCE: HCW_02055
+ HCM: HCD_00480
+ HCP: HCN_0313(glmM_1)
+ HCB: HCBAA847_0326(glmM_1)
+ HHM: BN341_790
+ HTY: BN2458_PEG1623
+ WSU: WS2001
+ TDN: Suden_0623
+ SUA: Saut_0471 Saut_0647
+ SKU: Sulku_2078
+ SULR: B649_09805
+ CJE: Cj1407c
+ CJB: BN148_1407c
+ CJJ: CJJ81176_1406(algC)
+ CJU: C8J_1321(algC)
+ CJN: ICDCCJ07001_1338
+ CJI: CJSA_1338(algC)
+ CJM: CJM1_1364(algC)
+ CJS: CJS3_1502(algC)
+ CJP: A911_06845
+ CJEJ: N564_01404
+ CJEU: N565_01444
+ CJEN: N755_01441
+ CJEI: N135_01496
+ CJER: H730_07990
+ CJV: MTVDSCj20_1383
+ CJY: QZ67_01542(algC)
+ CJQ: UC78_1349(algC)
+ CJL: PJ17_07405
+ CJW: PJ18_07190
+ CJR: CJE1594(algC)
+ CJD: JJD26997_1740(algC)
+ CJZ: M635_02710
+ CJX: BN867_13870
+ CFF: CFF8240_0102
+ CFT: CFF04554_0103
+ CFV: CFVI03293_0103
+ CFX: CFV97608_0103
+ CFZ: CSG_1040
+ CAMP: CFT03427_0108
+ CFP: CR44_00550
+ CCV: CCV52592_0306
+ CHA: CHAB381_0418
+ CCO: CCC13826_0666
+ CLA: Cla_0256
+ CLR: UPTC16701_0264
+ CLM: UPTC16712_0268
+ CLQ: UPTC4110_0263
+ CLN: UPTC3659_0276
+ CLL: CONCH_0259
+ CCOL: BN865_07300
+ CCC: G157_01810
+ CCQ: N149_1368
+ CCF: YSQ_01835
+ CCY: YSS_07580
+ CCOI: YSU_01865
+ CCOF: VC76_07035(algC)
+ CCOO: ATE51_00752(algC)
+ CAJ: CIG1485E_0512
+ CIS: CINS_0255
+ CVO: CVOL_0251
+ CPEL: CPEL_0262
+ CAMR: CAQ16704_0269
+ CSM: CSUB8521_0272
+ CSF: CSUB8523_0266
+ CGRA: CGRAC_1640
+ CURE: CUREO_0708
+ ABU: Abu_0840
+ ABT: ABED_0768 ABED_1601
+ ABL: A7H1H_0824 A7H1H_1701
+ ANT: Arnit_0104 Arnit_0218
+ ARC: ABLL_1070 ABLL_2259
+ SDL: Sdel_1799
+ SBA: Sulba_1885
+ SMUL: SMUL_2488
+ SHAL: SHALO_2236
+ NSA: Nitsa_1006
+ NIS: NIS_0946(pgm) NIS_1428
+ SUN: SUN_1277(pgm) SUN_1934(cpsG)
+ SLH: YH65_02400
+ NAM: NAMH_1240
+ GUR: Gura_2654
+ GLO: Glov_1605
+ PCA: Pcar_1779(manB-2) Pcar_1989(pgm)
+ PPD: Ppro_2017
+ DVU: DVU0685 DVU1428(pgm)
+ DVL: Dvul_1648 Dvul_2278
+ DVM: DvMF_0227 DvMF_2673
+ DVG: Deval_0629 Deval_1859
+ DDE: Dde_1695 Dde_2945
+ DDS: Ddes_1209
+ DDN: DND132_1316
+ DMA: DMR_25390(pgm) DMR_27100
+ DSA: Desal_0173 Desal_1293
+ DAS: Daes_0189 Daes_0973
+ DAF: Desaf_0487 Desaf_2414
+ DHY: DESAM_20561(algC) DESAM_22887(pgm)
+ DPI: BN4_11013(celB) BN4_12456(algC)
+ DGG: DGI_0235(pgm) DGI_3416
+ DFI: AXF13_06185
+ DEJ: AWY79_07460
+ LIP: LI0674
+ LIR: LAW_00698
+ DBA: Dbac_0755 Dbac_2255
+ DOA: AXF15_01430
+ DRT: Dret_0485 Dret_1330
+ BBAT: Bdt_0014(pmm)
+ BBW: BDW_00055
+ BBAC: EP01_12110
+ BEX: A11Q_11
+ BMX: BMS_2512(pgmA)
+ DPR: Despr_0542
+ DOL: Dole_1175
+ DAL: Dalk_1968 Dalk_2389
+ DAT: HRM2_08690(pgm) HRM2_40580(algC)
+ DTO: TOL2_C03070(pgm)
+ ADE: Adeh_0160 Adeh_2029
+ ACP: A2cp1_0178 A2cp1_1934
+ AFW: Anae109_0166 Anae109_1780
+ ANK: AnaeK_0167 AnaeK_1849
+ MXA: MXAN_4888(pgm) MXAN_6499(algC)
+ MFU: LILAB_14025 LILAB_32410
+ MSD: MYSTI_05377 MYSTI_07120
+ MYM: A176_000386 A176_001989
+ CCX: COCOR_02542(pgm) COCOR_07094(algC)
+ SUR: STAUR_2916(pgm) STAUR_7260(algC)
+ AGE: AA314_00268 AA314_09174
+ VIN: AKJ08_2724
+ SCL: sce5498(pgm3) sce8057(algC)
+ SCU: SCE1572_33235 SCE1572_46750
+ CCRO: CMC5_008980(cpsG) CMC5_063140(pgm)
+ SAMY: DB32_003848
+ LLU: AKJ09_03148
+ HOH: Hoch_5049 Hoch_6650
+ SAT: SYN_00938 SYN_01343
+ SFU: Sfum_0481 Sfum_0744
+ DBR: Deba_0121 Deba_2695
+ HMR: Hipma_0824
+ DAV: DESACE_08805
+ DPB: BABL1_gene_722(algC)
+ MLO: mlr7590
+ MCI: Mesci_4926 Mesci_4939
+ MOP: Mesop_2978 Mesop_5436 Mesop_5450
+ MAM: Mesau_04985 Mesau_05000
+ MAMO: A6B35_12225 A6B35_12315
+ MES: Meso_0831
+ HOE: IMCC20628_00342
+ AAK: AA2016_4731 AA2016_4740
+ PLA: Plav_1053
+ SME: SM_b21081(manB) SMc03925(pgm)
+ SMK: Sinme_2901
+ SMQ: SinmeB_2676 SinmeB_3994
+ SMX: SM11_chr3014(pgm)
+ SMI: BN406_02703(pgm)
+ SMEG: C770_GR4Chr2974 C770_GR4pD0912
+ SMEL: SM2011_b21081(manB) SM2011_c03925(pgm)
+ SMER: DU99_15720
+ SMD: Smed_2743
+ RHI: NGR_b13930(manB) NGR_c28980
+ SFH: SFHH103_02905 SFHH103_05652(manB)
+ SFD: USDA257_c11080(algC) USDA257_c53150(pgm)
+ SIX: BSY16_3831(pgm)
+ EAD: OV14_0351
+ EAH: FA04_15415
+ ATU: Atu4074(exoC)
+ ARA: Arad_3873(pgm)
+ ATF: Ach5_38540(exoC)
+ ATA: AWN88_05475
+ AVI: Avi_3763(pgm)
+ AGR: AGROH133_12865
+ AGC: BSY240_3944(pgm)
+ RET: RHE_CH03597(pgm)
+ REC: RHECIAT_CH0003865(pgm)
+ REL: REMIM1_CH03672(pgm)
+ REI: IE4771_CH03914(pgm)
+ REP: IE4803_CH03976(pgm)
+ RLE: RL4118(pgm)
+ RLT: Rleg2_3351
+ RLG: Rleg_3653
+ RLB: RLEG3_29320
+ RLU: RLEG12_28175
+ RTR: RTCIAT899_CH15310(pgm)
+ RIR: BN877_II1204(pgm)
+ RHL: LPU83_3595(pgm)
+ RGA: RGR602_CH03500(pgm)
+ RHN: AMJ98_CH03823(pgm)
+ NGL: RG1141_CH30470
+ NGG: RG540_CH31230
+ LAS: CLIBASIA_05045
+ LAA: WSI_04875
+ LAT: CGUJ_05045
+ LSO: CKC_03620
+ LCC: B488_06740
+ LAR: lam_631(pgm)
+ LAU: G293_05180
+ SHZ: shn_15525
+ BME: BMEI1886
+ BMEL: DK63_1602(pgm)
+ BMI: BMEA_A0059
+ BMZ: BM28_A0060
+ BMG: BM590_A0058
+ BMW: BMNI_I0056
+ BMEE: DK62_1347(pgm)
+ BMF: BAB1_0055(pgm)
+ BMB: BruAb1_0058(pgm)
+ BMC: BAbS19_I00530
+ BAA: BAA13334_I00383
+ BABO: DK55_77(pgm)
+ BABR: DO74_1805(pgm)
+ BABT: DK49_1927(pgm)
+ BABB: DK48_2049(pgm)
+ BABU: DK53_73(pgm)
+ BABS: DK51_1391(pgm)
+ BABC: DO78_2074(pgm)
+ BMS: BR0058(pgm)
+ BSI: BS1330_I0058(pgm)
+ BSF: BSS2_I0057(pgm)
+ BSUI: BSSP1_I0053(pgm)
+ BSUP: BSPT1_I0053(pgm)
+ BSUV: BSPT2_I0053(pgm)
+ BSUC: BSSP2_I0053(pgm)
+ BMT: BSUIS_A0061(pgm)
+ BSZ: DK67_135(pgm)
+ BSV: BSVBI22_A0058(pgm)
+ BSW: IY71_00170
+ BSG: IY72_00160
+ BOV: BOV_0058(pgm)
+ BCS: BCAN_A0059(pgm)
+ BSK: BCA52141_I1607
+ BOL: BCOUA_I0058(pgm)
+ BCAR: DK60_166(pgm)
+ BCAS: DA85_00285
+ BMR: BMI_I61(pgm)
+ BPP: BPI_I59(pgm)
+ BPV: DK65_1303(pgm)
+ BCET: V910_101909
+ BCEE: V568_102149
+ BVL: BF3285c1_0931(pgm)
+ OAN: Oant_0065
+ OAH: DR92_183(pgm)
+ OPS: A8A54_00055
+ BJA: bll8126 blr2389(celB)
+ BJU: BJ6T_11890 BJ6T_74470
+ BJP: RN69_05815 RN69_36115
+ BRA: BRADO0757 BRADO1937(pgm)
+ BBT: BBta_2244(pgm) BBta_7350
+ BRS: S23_56190(celB) S23_66610
+ AOL: S58_56220 S58_68600
+ BRC: BCCGELA001_03690 BCCGELA001_27940
+ BRAD: BF49_2415 BF49_3501
+ BIC: LMTR13_02475 LMTR13_05420 LMTR13_27420
+ RPA: RPA1484(pgm2) RPA3321(algC)
+ RPB: RPB_1523 RPB_4039
+ RPC: RPC_1233 RPC_4239
+ RPD: RPD_1464 RPD_3793
+ RPE: RPE_1281 RPE_3492 RPE_4278
+ RPT: Rpal_1671 Rpal_3744
+ RPX: Rpdx1_2063 Rpdx1_4037 Rpdx1_4328
+ NWI: Nwi_0361
+ NHA: Nham_0458
+ OCA: OCAR_7560
+ OCG: OCA5_c05810(algC)
+ OCO: OCA4_c05800(algC)
+ BOP: AXW83_20310 AXW83_20905
+ BOS: BSY19_497 BSY19_840(pgm)
+ BVV: BHK69_05960 BHK69_27575
+ BHE: BH13570(pgm)
+ BHN: PRJBM_01340(pgm)
+ BHS: BM1374165_01414(pgm)
+ BQU: BQ10790(pgm)
+ BQR: RM11_1000
+ BBK: BARBAKC583_1175
+ BTR: BT_1724(pgm)
+ BTX: BM1374166_01629(pgm)
+ BGR: Bgr_15070(pgm)
+ BCD: BARCL_1146(pgm)
+ BAUS: BAnh1_10480(pgm)
+ BVN: BVwin_12450(pgm)
+ BANC: PU02_0182
+ XAU: Xaut_1929
+ AZC: AZC_0285
+ SNO: Snov_2250
+ MEX: Mext_2887 Mext_4125
+ MEA: Mex_1p3093(pgm) Mex_1p4513
+ MDI: METDI3656(pgm) METDI5119
+ MCH: Mchl_3113 Mchl_4493
+ MRD: Mrad2831_1738
+ MET: M446_4649 M446_5187
+ MPO: Mpop_3010 Mpop_4607
+ MNO: Mnod_1184 Mnod_2089
+ MOR: MOC_2141
+ META: Y590_13955 Y590_20555
+ MAQU: Maq22A_c03935(pgm)
+ BID: Bind_3580
+ MSL: Msil_0212 Msil_2810
+ CHEL: AL346_06080 AL346_10570
+ HDN: Hden_1865
+ HDT: HYPDE_31173
+ HMC: HYPMC_2323
+ HNI: W911_12000
+ RVA: Rvan_1388 Rvan_3528
+ PHL: KKY_2044
+ FIL: BN1229_v1_2577
+ FIY: BN1229_v1_3339
+ DEQ: XM25_11470
+ BVR: BVIR_2756 BVIR_2757
+ RHZ: RHPLAN_67310
+ MSC: BN69_2936 BN69_3458
+ MEY: TM49_01130
+ MAAD: AZF01_05470
+ AUA: M673_06625
+ MCG: GL4_2526
+ CCR: CC_0085 CC_2264
+ CCS: CCNA_00083 CCNA_02347
+ CAK: Caul_1207
+ CSE: Cseg_0080 Cseg_2915
+ CHQ: AQ619_11050 AQ619_16725
+ PZU: PHZ_c2960 PHZ_p0171
+ BSB: Bresu_0273
+ BRD: JL11_04360 JL11_16480
+ BNE: DA69_13090
+ BRG: A4249_00035 A4249_13075
+ AEX: Astex_2310
+ CBOT: ATE48_13455
+ SIL: SPO0946(algC)
+ SIT: TM1040_0652
+ RMB: K529_010115
+ RSP: RSP_2883(pgm)
+ RSH: Rsph17029_1529
+ RSQ: Rsph17025_1137
+ RSK: RSKD131_1199
+ RCP: RCAP_rcc01837(pgm)
+ JAN: Jann_3117
+ RDE: RD1_2870(pgm)
+ RLI: RLO149_c015700(pgm)
+ PDE: Pden_4423
+ PAMI: JCM7686_0139
+ DSH: Dshi_2020(pgm)
+ KVU: EIO_1761(pgm)
+ KVL: KVU_1227(pgm)
+ PSF: PSE_2526(algC)
+ PGA: PGA1_c24340(algC)
+ PGL: PGA2_c22370(algC)
+ PGD: Gal_00958
+ OAT: OAN307_c09550(pgm)
+ OAR: OA238_c34200(pgm)
+ OTM: OSB_13560(pgm)
+ LMD: METH_05200
+ PTP: RCA23_c07320(pgm)
+ CID: P73_3062
+ CMAR: IMCC12053_1747
+ MALG: MALG_01984
+ CON: TQ29_12860
+ RSU: NHU_03227(pgm)
+ PPHR: APZ00_03405
+ HAT: RC74_12555
+ LAP: ACP90_24415
+ DAA: AKL17_4620
+ YAN: AYJ57_00655
+ MMR: Mmar10_2488
+ HNE: HNE_3238
+ HBA: Hbal_2420
+ HBC: AEM38_13160
+ NAR: Saro_1655
+ NPP: PP1Y_AT23706 PP1Y_AT30169
+ NPN: JI59_01490 JI59_04845
+ NRE: BES08_01930
+ SWI: Swit_0539
+ STAX: MC45_03460
+ SSAN: NX02_14005
+ SNJ: A7E77_14615
+ SMY: BJP26_07970
+ SJP: SJA_C1-17850(pgm)
+ SSY: SLG_08620(pgm)
+ SYB: TZ53_19435
+ SBD: ATN00_13575
+ SPMI: K663_08090
+ SPHB: EP837_00090
+ SPHR: BSY17_204(pgm)
+ ERY: CP97_05740
+ AAY: WYH_02546(pgm)
+ ADO: A6F68_02509(pgm)
+ CNA: AB433_14930
+ PNS: A9D12_07160
+ PORL: BG023_11904
+ GOH: B932_1390
+ GOY: GLS_c05630(celB)
+ GDI: GDI3137(pgm)
+ GDJ: Gdia_3234
+ GXY: GLX_05310
+ GXL: H845_1641
+ APT: APA01_15810
+ APW: APA42C_15810
+ APF: APA03_15810
+ APU: APA07_15810
+ APG: APA12_15810
+ APQ: APA22_15810
+ APX: APA26_15810
+ APZ: APA32_15810
+ APK: APA386B_513(pgm)
+ ASZ: ASN_2813(pgm)
+ ASV: WG31_00015
+ ABG: Asbog_00139(pgm)
+ RRU: Rru_A2115
+ RRF: F11_10875
+ RPM: RSPPHO_00816
+ MAG: amb0574
+ MGY: MGMSRv2__3812(pgm)
+ MAGX: XM1_0248(pgm)
+ ABS: AZOBR_30019(pgm)
+ ABQ: ABAZ39_00825
+ MAGQ: MGMAQ_1539(pgm)
+ HJO: AY555_00680
+ PBR: PB2503_01217
+ MGM: Mmc1_0332 Mmc1_3433
+ PGV: SL003B_3676
+ PUB: SAR11_1160(manB)
+ PEL: SAR11G3_01286 SAR11G3_01287
+ APM: HIMB5_00004350
+ AFE: Lferr_1963
+ AFR: AFE_2324
+ ACU: Atc_0564
+ ACZ: Acaty_c0574
+ AFI: Acife_1053
+ BSU: BSU09310(pgcA)
+ BSR: I33_1058
+ BSL: A7A1_3796
+ BSH: BSU6051_09310(pgcA)
+ BSY: I653_04680
+ BSUT: BSUB_01026(pgcA)
+ BSUL: BSUA_01026(pgcA)
+ BSUS: Q433_05290
+ BSS: BSUW23_04700(pgcA)
+ BST: GYO_1219
+ BSO: BSNT_07363(yhxB)
+ BSN: BSn5_16535
+ BSQ: B657_09310(pgcA)
+ BSX: C663_0954(pgcA)
+ BSP: U712_04740
+ BLI: BL02901(pgcA)
+ BLD: BLi00997(pgcA)
+ BLH: BaLi_c11020(pgcA)
+ BAY: RBAM_009570(yhxB)
+ BAQ: BACAU_0917(manB)
+ BYA: BANAU_0862(yhxB)
+ BAMP: B938_04570
+ BAML: BAM5036_0859(yhxB)
+ BAMA: RBAU_0920(pgcA)
+ BAMN: BASU_0896(pgcA)
+ BAMB: BAPNAU_2845(manB)
+ BAMT: AJ82_05355
+ BAMY: V529_08920(yhxB)
+ BMP: NG74_00964(pgcA)
+ BAO: BAMF_1027(pgcA)
+ BAZ: BAMTA208_04345(pgcA)
+ BQL: LL3_01012(pgcA)
+ BXH: BAXH7_00907(yhxB)
+ BQY: MUS_0969(yhxB)
+ BAMI: KSO_015090
+ BAMC: U471_09390
+ BAMF: U722_04825
+ BAE: BATR1942_02255
+ BATR: TD68_01885
+ BHA: BH1106
+ BAN: BA_5153
+ BAR: GBAA_5153
+ BAT: BAS4790
+ BAH: BAMEG_5210
+ BAI: BAA_5189
+ BAX: H9401_4919
+ BANT: A16_51720
+ BANR: A16R_52360
+ BANS: BAPAT_4943
+ BANH: HYU01_25210
+ BANV: DJ46_3834(pgcA)
+ BCE: BC4919
+ BCA: BCE_5058
+ BCZ: BCE33L4651(manB)
+ BCR: BCAH187_A5064
+ BCB: BCB4264_A5051
+ BCU: BCAH820_5030
+ BCG: BCG9842_B0183
+ BCQ: BCQ_4741(manB) BCQ_5094(manB)
+ BCX: BCA_5057
+ BAL: BACI_c49270
+ BNC: BCN_4817
+ BCF: bcf_24665
+ BCER: BCK_10650
+ BCEF: BcrFT9_03928
+ BCY: Bcer98_3530
+ BTK: BT9727_4631(manB)
+ BTL: BALH_4459(manB)
+ BTB: BMB171_C4534
+ BTT: HD73_5217
+ BTHR: YBT1520_25855
+ BTHI: BTK_25730
+ BTC: CT43_CH4922
+ BTF: YBT020_24160
+ BTM: MC28_4188
+ BTG: BTB_c50830(pgcA)
+ BTI: BTG_24275
+ BTN: BTF1_23125
+ BTHT: H175_ch5005
+ BTHU: YBT1518_27095
+ BTW: BF38_679(pgcA)
+ BWE: BcerKBAB4_4741
+ BWW: bwei_4848(pgcA) bwei_5419(pgcA2)
+ BTY: Btoyo_2165
+ BMYC: DJ92_2007(pgcA)
+ BMYO: BG05_1099(pgcA)
+ BCL: ABC1499
+ BPU: BPUM_0885
+ BPUM: BW16_04820
+ BPF: BpOF4_11205(pgcA)
+ BMQ: BMQ_0533(pgcA)
+ BMD: BMD_0536(pgcA) BMD_1106
+ BMH: BMWSH_4109 BMWSH_4698(yhxB)
+ BMEG: BG04_2826(pgcA)
+ BCO: Bcell_3661
+ BCK: BCO26_0507
+ BAG: Bcoa_0672
+ BCOA: BF29_3021
+ BJS: MY9_1027
+ BACI: B1NLA3E_03680
+ BIF: N288_06225
+ BLE: BleG1_1313
+ BMET: BMMGA3_03785(pgcA)
+ GST: HW35_14695
+ BACW: QR42_04615
+ BACP: SB24_05095
+ BACB: OY17_07465
+ BBY: CY96_23770 CY96_25390
+ BACO: OXB_0093
+ BACY: QF06_03595
+ BACL: BS34A_10510(pgcA)
+ BALM: BsLM_0971
+ BEO: BEH_03220
+ BSM: BSM4216_0666
+ BSJ: UP17_04680 UP17_12685 UP17_21585
+ BON: A361_06540
+ OIH: OB3037
+ GKA: GK0363 GK0570 GK3297
+ GTN: GTNG_0338(manB) GTNG_0513
+ GTE: GTCCBUS3UF5_4640 GTCCBUS3UF5_6280
+ GWC: GWCH70_0362 GWCH70_0528
+ GYC: GYMC61_1242 GYMC61_1388
+ GYA: GYMC52_0364 GYMC52_0509
+ GCT: GC56T3_0412 GC56T3_2964
+ GMC: GY4MC1_1992 GY4MC1_3235
+ GGH: GHH_c03840(glmM2) GHH_c05500(pgcA1) GHH_c33940(pgcA2) GHH_c33960(pgcA3)
+ GJF: M493_02120 M493_03115
+ GEA: GARCT_00410(algC) GARCT_00571(pgcA)
+ GEL: IB49_09085 IB49_12195 IB49_13260
+ GSE: GT50_11585 GT50_12505
+ GSR: GS3922_13010 GS3922_13840
+ GEJ: A0V43_00370 A0V43_17625
+ GTH: Geoth_2081 Geoth_3288
+ PTL: AOT13_06360 AOT13_12380
+ AFL: Aflv_2333
+ AGN: AFK25_02620
+ ANM: GFC28_1975(pgcA)
+ AAMY: GFC30_955(pgcA)
+ ANL: GFC29_3459(pgcA)
+ AXL: AXY_19330(pgm)
+ HHD: HBHAL_4494
+ TAP: GZ22_15000
+ VIR: X953_17650
+ LAO: AOX59_15400
+ FPN: ABE65_003125
+ FAR: ABE41_003120
+ SJE: AAV35_003150
+ BSE: Bsel_2540
+ SAU: SA2279
+ SAV: SAV2491
+ SAW: SAHV_2475
+ SAH: SaurJH1_2569
+ SAJ: SaurJH9_2517
+ SAM: MW2411
+ SAS: SAS2378
+ SAR: SAR2576
+ SAC: SACOL2501
+ SAX: USA300HOU_2482
+ SAA: SAUSA300_2433
+ SAO: SAOUHSC_02793
+ SAE: NWMN_2388
+ SAD: SAAV_2558
+ SUU: M013TW_2456
+ SUV: SAVC_11330
+ SUE: SAOV_2537
+ SUJ: SAA6159_02385(manB)
+ SUK: SAA6008_02527(manB)
+ SUC: ECTR2_2347
+ SUT: SAT0131_02687
+ SUQ: HMPREF0772_10700
+ SUZ: MS7_2497(pgcA)
+ SUD: ST398NM01_2547
+ SUX: SAEMRSA15_23900
+ SUW: SATW20_26120
+ SUG: SAPIG2547
+ SUF: SARLGA251_22720
+ SAUA: SAAG_00314
+ SAUE: RSAU_002334
+ SAUN: SAKOR_02479
+ SAUS: SA40_2241
+ SAUU: SA957_2325
+ SAUG: SA268_2398
+ SAUZ: SAZ172_2588
+ SAUT: SAI1T1_2018550
+ SAUJ: SAI2T2_1018560
+ SAUK: SAI3T3_1018550
+ SAUQ: SAI4T8_1018560
+ SAUV: SAI7S6_1018550
+ SAUW: SAI5S5_1018490
+ SAUX: SAI6T6_1018490
+ SAUY: SAI8T7_1018530
+ SAB: SAB2371
+ SUY: SA2981_2427
+ SAUB: C248_2548
+ SAUM: BN843_25290
+ SAUC: CA347_2571(pgcA)
+ SAUR: SABB_01193(pgcA)
+ SAUI: AZ30_13060
+ SAUD: CH52_06535
+ SAUF: X998_2473(pgcA)
+ SUH: SAMSHR1132_23120
+ SEP: SE2042
+ SER: SERP2055
+ SEPP: SEB_02049
+ SEPS: DP17_985(pgcA)
+ SHA: SH0301
+ SHH: ShL2_00219(manB)
+ SSP: SSP1737
+ SCA: SCA_0664
+ SLG: SLGD_00511
+ SLN: SLUG_05090
+ SSD: SPSINT_0751
+ SDT: SPSE_1757(pgcA)
+ SWA: A284_02050
+ SPAS: STP1_0981
+ SXY: BE24_02595
+ SXL: SXYLSMQ121_1738
+ SXO: SXYL_01881(pgcA)
+ SHU: SHYC_09090(pgcA)
+ SCAP: AYP1020_0378(pgcA)
+ SSCH: LH95_08500
+ SSCZ: RN70_08985
+ SAGQ: EP23_01335
+ SEQO: SE1039_08130 SE1039_26290
+ SSIF: AL483_06620
+ MCL: MCCL_0779
+ SHV: AAT16_05530
+ LMO: lmo2475
+ LMF: LMOf2365_2448
+ LMH: LMHCC_0125
+ LMC: Lm4b_02444
+ LMN: LM5578_2670
+ LMY: LM5923_2619
+ LMT: LMRG_01773
+ LMG: LMKG_02563
+ LMS: LMLG_1823
+ LMJ: LMOG_02389
+ LMQ: LMM7_2517(pgm)
+ LML: lmo4a_2477
+ LMP: MUO_12355
+ LMW: LMOSLCC2755_2480
+ LMX: LMOSLCC2372_2537
+ LMZ: LMOSLCC2482_2478
+ LMON: LMOSLCC2376_2367 LMOSLCC2376_2368
+ LMOC: LMOSLCC5850_2478
+ LMOS: LMOSLCC7179_2386
+ LMOO: LMOSLCC2378_2478
+ LMOY: LMOSLCC2479_2536
+ LMOT: LMOSLCC2540_2508
+ LMOA: LMOATCC19117_2484
+ LMOL: LMOL312_2435
+ LMOG: BN389_24380(pgcA_2)
+ LMOE: BN418_2931 BN418_2932
+ LMOB: BN419_2942 BN419_2943
+ LMOJ: LM220_14192
+ LMOZ: LM1816_14687
+ LMOD: LMON_2487
+ LMOW: AX10_06445
+ LMOX: AX24_10300
+ LMOQ: LM6179_1729(pgcA)
+ LMR: LMR479A_2600(pgcA)
+ LMOK: CQ02_12565
+ LMV: Y193_03340
+ LMOM: IJ09_12430
+ LIN: lin2618
+ LWE: lwe2423
+ LSG: lse_2375(manB)
+ LIV: LIV_2382
+ LII: JL52_12570
+ LIW: AX25_12760
+ LIA: JL58_12775
+ LIO: JL53_13265
+ ESI: Exig_0673
+ EAT: EAT1b_2438
+ EAN: Eab7_0647(pgcA)
+ EXM: U719_03590
+ GOT: AXE85_07020
+ BBE: BBR47_17570(pgcA)
+ PJD: Pjdr2_5787
+ GYM: GYMC10_0581 GYMC10_5894
+ PPY: PPE_04441
+ PPM: PPSC2_23185(manB1)
+ PPO: PPM_4603(manB1)
+ PPOL: X809_39715
+ PPQ: PPSQR21_046900
+ PPOY: RE92_14075
+ PMS: KNP414_00081(pgcA)
+ PMQ: PM3016_78
+ PMW: B2K_00385
+ PTA: HPL003_04690
+ PLV: ERIC2_c00790(pgcA)
+ PSAB: PSAB_22425
+ PDU: PDUR_25370
+ PBD: PBOR_33685
+ PGM: PGRAT_30090
+ POD: PODO_28670
+ PAEN: P40081_35020
+ PAEF: R50345_28710
+ PAEQ: R50912_31655
+ PSTE: PSTEL_25140
+ PAEA: R70723_30505
+ PAEE: R70331_29275
+ PAEH: H70357_05470 H70357_32805
+ PAEJ: H70737_28385
+ PBJ: VN24_08110
+ PIH: UB51_20240
+ PRI: PRIO_6302(pgcA)
+ PPEO: ABE82_23335
+ PNP: IJ22_42060 IJ22_48990
+ POW: IJ21_06310 IJ21_24820
+ PBV: AR543_22610
+ TCO: Theco_3831
+ ANX: ACH33_10745 ACH33_13305
+ AAC: Aaci_2578
+ AAD: TC41_2872(manB)
+ BTS: Btus_1356
+ SSIL: SOLI23_03990
+ PLN: Plano_0829
+ PKU: AUO94_12000
+ PRT: AUC31_04870
+ PLL: I858_002850
+ PANA: BBH88_15965
+ PDG: BCM40_11380
+ PHC: BBI08_00655
+ JEO: JMA_12960
+ SPSY: AZE41_09955 AZE41_19045
+ LGR: LCGT_1574
+ LGV: LCGL_1596
+ LPK: LACPI_0565(pgcA)
+ SPY: SPy_1224(pgmA)
+ SPZ: M5005_Spy0938(pgmA)
+ SPYM: M1GAS476_0996(pgmA)
+ SPM: spyM18_1176
+ SPG: SpyM3_0864(pgmA)
+ SPS: SPs1064
+ SPH: MGAS10270_Spy1052(pgmA)
+ SPI: MGAS10750_Spy1087(pgmA)
+ SPJ: MGAS2096_Spy0997(pgmA)
+ SPK: MGAS9429_Spy1041(pgmA)
+ SPF: SpyM50618 SpyM50860(pgmA)
+ SPA: M6_Spy0927
+ SPB: M28_Spy0910(pgmA)
+ STG: MGAS15252_0935(pgm)
+ SOZ: Spy49_0970(pgmA)
+ STZ: SPYALAB49_000929
+ STX: MGAS1882_0930(pgm)
+ SPYA: A20_0974(pgmA)
+ SPYH: L897_04640
+ SPYO: STAB901_05280
+ SPN: SP_1498(pgm)
+ SPD: SPD_1326(pgm)
+ SPR: spr1351(pgm)
+ SPW: SPCG_1481(pgm)
+ SPX: SPG_1421
+ SNE: SPN23F14630(pgmA)
+ SPV: SPH_1610
+ SNM: SP70585_1536
+ SJJ: SPJ_1399
+ SPP: SPP_1518
+ SNT: SPT_1435
+ SNC: HMPREF0837_11732
+ SNB: SP670_0799
+ SNP: SPAP_1521
+ SNI: INV104_12720(pgmA)
+ SNV: SPNINV200_13340(pgmA)
+ SNX: SPNOXC03620(pgm) SPNOXC13110(pgmA)
+ SND: MYY_1427
+ SNU: SPNA45_00722(pgmA) SPNA45_01684
+ SPNG: HMPREF1038_01481
+ SPNE: SPN034156_03990(pgmA) SPN034156_14180(pgm)
+ SPNU: SPN034183_03680(pgm) SPN034183_13100(pgmA)
+ SPNM: SPN994038_03560(pgm) SPN994038_12990(pgmA)
+ SPNO: SPN994039_03570(pgm) SPN994039_13000(pgmA)
+ SPNN: T308_06785
+ SAG: SAG1066(pgm)
+ SAN: gbs1100
+ SAK: SAK_1155
+ SGC: A964_1041(pgm)
+ SAGS: SaSA20_0890(pgcA2)
+ SAGL: GBS222_0892
+ SAGM: BSA_11390
+ SAGI: MSA_11880
+ SAGR: SAIL_11810
+ SAGP: V193_04890
+ SAGC: DN94_04890
+ SAGT: GBSCOH1_0975
+ SAGE: EN72_05955
+ SAGG: EN73_05520
+ SAGN: W903_1154
+ SMU: SMU_1077(pgm)
+ SMC: SmuNN2025_0959(pgm)
+ SMJ: SMULJ23_0958(pgm)
+ SMUT: SMUGS5_04755
+ SMUA: SMUFR_0940(pgm)
+ STC: str0787(pgmA)
+ STL: stu0787(pgmA)
+ STE: STER_0833
+ STN: STND_0778
+ STU: STH8232_0970(pgmA)
+ STW: Y1U_C1071
+ STHE: T303_05140
+ SSA: SSA_1204(pgm)
+ SSB: SSUBM407_1186(pgmA)
+ SSU: SSU05_0686
+ SSV: SSU98_0687
+ SSI: SSU0644(pgmA)
+ SSS: SSUSC84_0611(pgmA)
+ SST: SSUST3_0849
+ SSF: SSUA7_0640
+ SSK: SSUD12_1118
+ SSQ: SSUD9_0860
+ SSW: SSGZ1_0675
+ SUI: SSUJS14_0775
+ SUO: SSU12_0641
+ SRP: SSUST1_1130
+ SUP: YYK_03050
+ SSUS: NJAUSS_0742
+ SSUT: TL13_1096(pgmA)
+ SSUI: T15_1302(pgm)
+ SSUY: YB51_4200 YB51_4205
+ SGO: SGO_1215(manB)
+ SEZ: Sez_0941(pgmA)
+ SEQ: SZO_10200
+ SEZO: SeseC_01237(manB)
+ SEQU: Q426_04460
+ SEU: SEQ_1067
+ SUB: SUB0946(pgmA)
+ SDS: SDEG_1043(pgmA)
+ SDG: SDE12394_05835
+ SDA: GGS_1002(pgmA)
+ SDC: SDSE_1075(manB)
+ SDQ: SDSE167_1148(pgmA)
+ SGA: GALLO_1123
+ SGG: SGGBAA2069_c11110(manB)
+ SGT: SGGB_1113(manB)
+ SMB: smi_1173(pgmA)
+ SOR: SOR_0952(pgmA)
+ STK: STP_0782(pgmA)
+ STB: SGPB_0982(manB)
+ SCP: HMPREF0833_10457(pgcA)
+ SCF: Spaf_0997(manB)
+ SSR: SALIVB_0854(pgm2)
+ STF: Ssal_00935(manB)
+ STJ: SALIVA_1246(pgmA)
+ STRS: SSAL8618_06115
+ STD: SPPN_07340
+ SMN: SMA_1040(pgcA)
+ SIF: Sinf_0963(pgm)
+ SIE: SCIM_1027(pgm)
+ SIB: SIR_0574(pgm)
+ SIU: SII_0554(pgm)
+ SANG: SAIN_1090(pgm)
+ SANC: SANR_1220(pgm)
+ SANS: DK43_04605
+ SCG: SCI_0746(pgm)
+ SCON: SCRE_0726(pgm)
+ SCOS: SCR2_0726(pgm)
+ SOI: I872_04700
+ SIK: K710_0996
+ SIQ: DQ08_04530
+ SIO: DW64_04525
+ SIZ: SI82_04735
+ SLU: KE3_1045
+ SIG: N596_02300
+ SIP: N597_04015
+ STV: V470_04390
+ LPL: lp_0764(pgm)
+ LPJ: JDM1_0633(pgm)
+ LPT: zj316_0825(pgm3)
+ LPS: LPST_C0594(pgm)
+ LPR: LBP_cg0570
+ LPZ: Lp16_0604
+ LPB: SH83_03075
+ LJO: LJ_0862
+ LJF: FI9785_1346(pgm)
+ LJH: LJP_1290c
+ LJN: T285_06490
+ LAC: LBA0687
+ LAI: LAC30SC_03430
+ LAD: LA14_0713
+ LAF: SD55_0709
+ LSA: LCA_0521(pgm)
+ LSL: LSL_1176(glmM)
+ LSI: HN6_00978(glmM)
+ LSJ: LSJ_1170c(glmM)
+ LDB: Ldb1773(pgm)
+ LBU: LBUL_1643
+ LDE: LDBND_1663
+ LDL: LBU_1503
+ LBR: LVIS_1907
+ LBK: LVISKB_1891
+ LCA: LSEI_0949
+ LPI: LBPG_00120
+ LPQ: AF91_09170
+ LCB: LCABL_10630(pgm)
+ LCZ: LCAZH_0892
+ LCS: LCBD_1044
+ LCE: LC2W_1049
+ LCW: BN194_10370(pgcA)
+ LCL: LOCK919_1094
+ LCX: LCA12A_2237
+ LGA: LGAS_1319
+ LRE: Lreu_0380
+ LRF: LAR_0369
+ LRU: HMPREF0538_21591(pgcA)
+ LRT: LRI_1560
+ LRR: N134_01985
+ LHE: lhv_0728
+ LHL: LBHH_1433
+ LHR: R0052_08275
+ LHV: lhe_0694
+ LHH: LBH_0584
+ LHD: HUO_08625
+ LFE: LAF_0350
+ LFR: LC40_0247
+ LFF: LBFF_0374
+ LRH: LGG_00921(pgm)
+ LRG: LRHM_0878
+ LRL: LC705_00969(pgm)
+ LRA: LRHK_948
+ LRO: LOCK900_0880
+ LRC: LOCK908_0986
+ LCR: LCRIS_00689(pgm2)
+ LAM: LA2_03535
+ LAY: LAB52_03385
+ LBH: Lbuc_2078
+ LBN: LBUCD034_2171(pgmA)
+ LKE: WANG_0963(pgm2)
+ LRM: LRC_06250
+ LSN: LSA_12330(pgcA)
+ LAW: LACWKB8_0667
+ LHO: LOOC260_116920(pgm)
+ LMU: LBLM1_09200
+ LAE: LBAT_1151
+ LGN: ABM34_12210
+ LKO: ABN16_08640
+ LHI: JP39_08010
+ LKU: APS55_03985
+ LGL: AO203_06185
+ LPX: ASU28_04485
+ LOR: AYI71_07480
+ PPE: PEPE_0446
+ PPEN: T256_02340
+ PCE: PECL_538
+ PDM: ADU72_1632
+ PACI: A4V11_09015
+ EFA: EF2425
+ EFL: EF62_2643
+ EFI: OG1RF_11856(pgcA)
+ EFD: EFD32_2042
+ EFS: EFS1_1950(pgmA)
+ EFN: DENG_02379(pgm)
+ EFQ: DR75_1171
+ EFC: EFAU004_02002
+ EFAU: EFAU085_01969 EFAU085_02019
+ EFU: HMPREF0351_11939(pgm) HMPREF0351_11988(pgm2)
+ EFM: M7W_1009
+ EFT: M395_04230
+ EHR: EHR_08815
+ ECAS: ECBG_00703
+ EMU: EMQU_1925(pgm2)
+ EDU: LIU_10730
+ EGA: AL523_14950
+ ESS: ATZ33_05410
+ MPS: MPTP_1238
+ MPX: MPD5_0717
+ THL: TEH_17050(pgm)
+ OOE: OEOE_0367
+ LME: LEUM_0606
+ LMM: MI1_02735
+ LMK: LMES_0534
+ LCI: LCK_01246(pgm3)
+ LKI: LKI_08375
+ LEC: LGMK_03760
+ LCN: C270_02470
+ LGS: LEGAS_0668(pgm)
+ LGE: C269_03200
+ LLF: BCR17_06390
+ WKO: WKK_00655
+ WCE: WS08_0862(pgcA)
+ WCT: WS74_0928(pgcA)
+ WCI: WS105_0925(pgcA)
+ WCB: AO080_09980
+ AUR: HMPREF9243_0351
+ AUN: AWM73_07720
+ AUI: APT62_01280
+ ASAN: AWM72_05805
+ ACG: AWM71_02580
+ AVS: AWM76_09300
+ AUH: AWM75_05250
+ CRN: CAR_c03910(pgcA)
+ CML: BN424_2704(pgcA)
+ CAW: Q783_01485 Q783_06905
+ CARC: NY10_2157
+ CAC: CA_C2337
+ CAE: SMB_G2371
+ CAY: CEA_G2351
+ CPE: CPE1873
+ CPF: CPF_2127
+ CPR: CPR_1841
+ CTC: CTC_00454 CTC_00779
+ CTET: BN906_00486 BN906_00818
+ CNO: NT01CX_1230 NT01CX_1776
+ CBO: CBO3114(pgcA) CBO3619
+ CBA: CLB_3145 CLB_3712
+ CBH: CLC_3018 CLC_3618
+ CBY: CLM_3521 CLM_4124
+ CBL: CLK_2509 CLK_3103
+ CBK: CLL_A2461
+ CBB: CLD_0855 CLD_1425
+ CBI: CLJ_B3381 CLJ_B3958
+ CBN: CbC4_0355 CbC4_0988
+ CBT: CLH_2229
+ CBF: CLI_3174 CLI_3864
+ CBM: CBF_3163 CBF_3813
+ CBJ: H04402_03196 H04402_03719
+ CBE: Cbei_0983
+ CBZ: Cbs_0983
+ CKL: CKL_0798(pgm1) CKL_3180(pgm2)
+ CKR: CKR_2818
+ CLJ: CLJU_c34210(pgm)
+ CCB: Clocel_2120 Clocel_2806
+ CLS: CXIVA_11800
+ CLB: Clo1100_1121
+ CSR: Cspa_c10680(pgcA)
+ CPAS: Clopa_0885 Clopa_3053
+ CPAT: CLPA_c16930(pgcA1)
+ CPAE: CPAST_c16930(pgcA1)
+ CSB: CLSA_c12290(pgcA1) CLSA_c42240(pgcA2)
+ CAH: CAETHG_1320
+ CLT: CM240_2048(pgcA)
+ CBV: U729_2882(pgcA)
+ CSQ: CSCA_4777
+ CLD: CLSPO_c32100(pgcA1) CLSPO_c38130(pgcA2)
+ CACE: CACET_c02390(pgcA)
+ CCK: Ccar_17295
+ CBUT: ATN24_06590
+ CTYK: CTK_C08610(pgm)
+ AMT: Amet_0707
+ ASF: SFBM_0925
+ ASM: MOUSESFB_0863
+ ASO: SFBmNL_01000
+ ASB: RATSFB_0782
+ GFE: Gferi_10925 Gferi_25635
+ CTH: Cthe_1265
+ CTX: Clo1313_0993
+ RUK: A4V00_08560
+ CCE: Ccel_1417
+ CCL: Clocl_2234
+ ESR: ES1_08860
+ ESU: EUS_21740
+ CSS: Cst_c14620(pgcA)
+ CSD: Clst_1411
+ CCEL: CCDG5_0020(pgcA) CCDG5_0084 CCDG5_2017
+ EHA: Ethha_0894 Ethha_2738
+ RAL: Rumal_2924
+ RBR: RBR_15000
+ RCH: RUM_00620
+ RUM: CK1_06220 CK1_35510
+ RUS: RBI_II00024
+ FPR: FP2_09940
+ FPA: FPR_17190 FPR_27610 FPR_28530
+ CLO: HMPREF0868_0620
+ BPB: bpr_I0554
+ BFI: CIY_04690 CIY_10220
+ CLE: Clole_4133
+ RHO: RHOM_02325 RHOM_11485
+ RIX: RO1_18010 RO1_37000
+ RIM: ROI_36270
+ COO: CCU_19730 CCU_22890 CCU_22920 CCU_22930
+ CCT: CC1_12580
+ ROB: CK5_21180
+ BYL: A4V09_07535 A4V09_13345
+ RTO: RTO_29940
+ CPY: Cphy_2261
+ LACY: A4V08_21280 A4V08_21515
+ CSH: Closa_0391 Closa_2990
+ CSO: CLS_36150
+ BPRL: CL2_20460
+ HSD: SD1D_0300(pgcA)
+ ERE: EUBREC_2615
+ ERT: EUR_25390
+ ERA: ERE_08670
+ CDF: CD630_15770(pgm) CD630_27800(pgm)
+ PDC: CDIF630_01746(pgm1) CDIF630_03043(pgm2)
+ CDC: CD196_1499(pgm1) CD196_2621(pgm2)
+ CDL: CDR20291_1474(pgm1) CDR20291_2668(pgm2)
+ CDG: CDBI1_07750 CDBI1_13550
+ PDF: CD630DERM_15770(pgm) CD630DERM_27800(pgmA)
+ EAC: EAL2_c03080(pgcA)
+ CST: CLOST_1665
+ FAA: HMPREF0389_00891
+ STH: STH1118 STH2734
+ SWO: Swol_2154
+ SLP: Slip_0765
+ DSY: DSY1669
+ DHD: Dhaf_2815
+ DDH: Desde_2272
+ DDL: Desdi_1936
+ DMT: DESME_07240
+ DRM: Dred_1398 Dred_3126
+ DCA: Desca_2159
+ DGI: Desgi_1560
+ PTH: PTH_0398(ManB)
+ SGY: Sgly_0866 Sgly_2218
+ DOR: Desor_3292
+ DAI: Desaci_2994
+ DMI: Desmer_2553
+ DED: DHBDCA_p1082 DHBDCA_p2783
+ DEC: DCF50_p1146 DCF50_p2789
+ DRS: DEHRE_13735
+ EEL: EUBELI_01623
+ ELM: ELI_4121
+ AWO: Awo_c02270(pgm1)
+ OVA: OBV_18450(pgm)
+ TMR: Tmar_1881
+ SAY: TPY_0767(manB)
+ SAP: Sulac_2873
+ EUU: ADJ67_04305
+ CAD: Curi_c02210(pgcA)
+ BPRM: CL3_00180
+ BPRS: CK3_05150
+ IBU: IB211_02913
+ FPLA: A4U99_13385
+ TTE: TTE0731(CpsG)
+ TEX: Teth514_2238
+ THX: Thet_0696
+ TPD: Teth39_1557
+ TIT: Thit_0714
+ TMT: Tmath_0765
+ TBO: Thebr_1593
+ TWI: Thewi_0859 Thewi_2676
+ TKI: TKV_c07170(algC)
+ TEP: TepRe1_0656
+ TAE: TepiRe1_0713(algC)
+ ADG: Adeg_0496
+ TPZ: Tph_c29090(manB)
+ TOC: Toce_0825
+ TTM: Tthe_1016
+ TTO: Thethe_00968
+ TXY: Thexy_1711
+ TSH: Tsac_1474
+ CPO: COPRO5265_0166
+ MAS: Mahau_1369
+ HOR: Hore_17410
+ HAS: Halsa_0449
+ HPK: Hprae_1925
+ AAR: Acear_2143
+ HHL: Halha_0109
+ PED: ING2D1G_0633(pgm)
+ VPR: Vpar_1545
+ MED: MELS_1912
+ SRI: SELR_25710
+ PUF: UFO1_0072 UFO1_0374
+ PFT: JBW_04249 JBW_04424
+ ERH: ERH_1579
+ ERS: K210_06405
+ ERL: AOC36_10880
+ EUC: EC1_09140 EC1_09150
+ TUR: AT726_08790
+ FRO: AALO17_14070
+ ERB: A4V01_20985
+ LPIL: LIP_1103
+ MMYM: MMS_A0911
+ MMYI: mycmycITA_00869(pgcA)
+ MML: MLC_7500(manB)
+ MCAC: MCCP01_0854(pgcA)
+ MCAP: MCCPF38_00884(pgcA)
+ MCAR: MCCPILRI181_00885(pgcA)
+ MCAI: MCCG_0854
+ MLC: MSB_A0787
+ MLH: MLEA_007460
+ MBV: MBOVPG45_0350
+ MBH: MMB_0500
+ MBI: Mbov_0539(manB)
+ MBQ: K668_02505
+ MPF: MPUT_0122
+ MPUT: MPUT9231_6200(manB)
+ MCR: MCFN_00695(manB)
+ MCM: MCAL160_0859(manB)
+ MYT: MYE_03625(manB)
+ MYG: ASO20_00935
+ ACL: ACL_0849
+ ABRA: BN85308620(pgm)
+ APAL: BN85407640(pgm)
+ AOC: Aocu_09550(pgm)
+ MFW: mflW37_1250
+ SCR: SCHRY_v1c02700(manB)
+ SSYR: SSYRP_v1c02870(manB)
+ SDI: SDIMI_v3c02690(manB)
+ STAI: STAIW_v1c03120(manB)
+ SAPI: SAPIS_v1c03230(manB)
+ SMIR: SMM_0981
+ SMIA: P344_05870
+ SCQ: SCULI_v1c03410(manB)
+ SSAB: SSABA_v1c02730(manB)
+ SATR: SATRI_v1c10460(manB)
+ SERI: SERIO_v1c10250(manB)
+ STUR: STURON_00823(manB)
+ SLL: SLITO_v1c08020(manB)
+ SKN: SKUN_00308(manB)
+ SCJ: SCANT_v1c02770(manB)
+ MBJ: KQ51_00922(pgcA)
+ MTU: Rv3068c(pgmA)
+ MTV: RVBD_3068c
+ MTC: MT3153(pgmA)
+ MRA: MRA_3101(pgmA)
+ MTF: TBFG_13085
+ MTB: TBMG_00899
+ MTK: TBSG_00905
+ MTZ: TBXG_000891
+ MTG: MRGA327_18865
+ MTI: MRGA423_19110
+ MTE: CCDC5079_2824
+ MTUR: CFBS_3236(pgmA)
+ MTL: CCDC5180_2789
+ MTO: MTCTRI2_3132(pgmA)
+ MTD: UDA_3068c(pgmA)
+ MTN: ERDMAN_3359(pgmA)
+ MTJ: J112_16435
+ MTUB: MT7199_3102
+ MTUE: J114_16410
+ MTX: M943_15840
+ MTUH: I917_21540
+ MTUL: TBHG_02998
+ MTUT: HKBT1_3223(pgmA)
+ MTUU: HKBT2_3228(pgmA)
+ MTQ: HKBS1_3234(pgmA)
+ MBO: Mb3095c(pgmA)
+ MBB: BCG_3093c(pgmA)
+ MBT: JTY_3088(pgmA)
+ MBM: BCGMEX_3090c(pgmA)
+ MBK: K60_031840
+ MBX: BCGT_2918
+ MBZ: LH58_16335
+ MAF: MAF_30750(pgmA)
+ MCE: MCAN_30931(pgmA)
+ MCQ: BN44_60581(pgm)
+ MCV: BN43_60057(pgm)
+ MCX: BN42_41082(pgm)
+ MCZ: BN45_60056(pgm)
+ MMIC: RN08_3379
+ MPA: MAP_3146c(pgmA)
+ MAO: MAP4_0644
+ MAVI: RC58_03140
+ MAVU: RE97_03145
+ MAVD: NF84_18150
+ MAVR: LA63_18340
+ MAVA: LA64_18330
+ MIT: OCO_38030
+ MIR: OCQ_39260
+ MIA: OCU_38110
+ MIE: LG41_18075
+ MID: MIP_05759
+ MYO: OEM_38660
+ MSM: MSMEG_2136(pgm)
+ MSG: MSMEI_2087(pgmA)
+ MSB: LJ00_10640
+ MSN: LI99_10640
+ MSH: LI98_10640
+ MSA: Mycsm_01732
+ MUL: MUL_3442(pgmA)
+ MVA: Mvan_1950
+ MGI: Mflv_4406
+ MSP: Mspyr1_38020
+ MAB: MAB_3450c
+ MABB: MASS_3479
+ MMV: MYCMA_1900
+ MAY: LA62_17545
+ MABO: NF82_17285
+ MABL: MMASJCM_3458
+ MAZ: LA61_17445
+ MAK: LH56_06855
+ MYS: NF92_06885
+ MYC: NF90_06885
+ MMC: Mmcs_1728
+ MKM: Mkms_1775
+ MJL: Mjls_1707
+ MMI: MMAR_1591(pgmA)
+ MRH: MycrhN_6147
+ MMM: W7S_19050
+ MCB: Mycch_1646
+ MLI: MULP_01726(pgmA)
+ MKN: MKAN_22765
+ MKS: LG40_22540
+ MKI: LH54_22670
+ MNE: D174_09975
+ MYV: G155_10405
+ MYE: AB431_09150
+ MGO: AFA91_28465
+ MFT: XA26_21280
+ MHAD: B586_16135
+ MPHL: MPHLCCUG_01843(pgm)
+ MVQ: MYVA_1830(pgm)
+ ASD: AS9A_1339(pgmA)
+ CGL: NCgl2453(Cgl2541)
+ CGB: cg2800(pgm)
+ CGU: WA5_2453(Pgm)
+ CGT: cgR_2446
+ CGS: C624_12480
+ CGG: C629_12485
+ CGM: cgp_2800(pgm)
+ CGJ: AR0_12200
+ CGQ: CGLAR1_12060
+ CGX: SB89_11920
+ CEF: CE2433
+ CDI: DIP1882(pgm)
+ CDP: CD241_1790(pgm)
+ CDH: CDB402_1748(pgm)
+ CDT: CDHC01_1793(pgm)
+ CDE: CDHC02_1786(pgm)
+ CDR: CDHC03_1765(pgm)
+ CDA: CDHC04_1770(pgm)
+ CDZ: CD31A_1882(pgm)
+ CDB: CDBH8_1846(pgm)
+ CDS: CDC7B_1842(pgm)
+ CDD: CDCE8392_1755(pgm)
+ CDW: CDPW8_1854(pgm)
+ CDV: CDVA01_1729(pgm)
+ CJK: jk0468(pgm)
+ CAR: cauri_2123(pgm)
+ CKP: ckrop_1426(pgm)
+ CPU: cpfrc_01690(pgm)
+ CPL: Cp3995_1736(pgm1)
+ CPG: Cp316_1741(pgm1)
+ CPP: CpP54B96_1719(pgm1)
+ CPK: Cp1002_1690(pgm1)
+ CPX: CpI19_1698(pgm1)
+ CPZ: CpPAT10_1690(pgm1)
+ COR: Cp267_1758(pgm1)
+ COP: Cp31_1682(pgm1)
+ COD: Cp106_1646(pgm1)
+ COS: Cp4202_1679(pgm1)
+ COI: CpCIP5297_1705(pgm1)
+ COE: Cp258_1704(pgm1)
+ COU: Cp162_1666(pgm1)
+ CPSE: CPTA_00066
+ CPSU: CPTB_01461
+ CPSF: CPTC_00050
+ CRD: CRES_0394(pgm)
+ CUL: CULC22_01862(pgm)
+ CUC: CULC809_01760(pgm)
+ CUE: CULC0102_1907(pgm)
+ CUN: Cul210932_1872(pgm)
+ CUS: CulFRC11_1767(pgm)
+ CUQ: Cul210931_1766(pgm)
+ CUZ: Cul05146_1864(pgm)
+ CUJ: CUL131002_1791c(pgm)
+ CHN: A605_11705
+ CCN: H924_10675
+ CMD: B841_10765
+ CAZ: CARG_08245
+ CFN: CFAL_02825
+ CCG: CCASEI_12010
+ CVT: B843_10660
+ CAX: CATYP_08600
+ CII: CIMIT_09770
+ CUV: CUREI_09275
+ COA: DR71_1637(pgm)
+ CDO: CDOO_11115
+ CHM: B842_10655
+ CSX: CSING_10975(pgm)
+ CMQ: B840_10370(pgm)
+ CKU: UL82_02990(pgm)
+ CCJ: UL81_09485(celB)
+ CMV: CMUST_12690(pgm)
+ CEI: CEPID_10230(pgm)
+ CTED: CTEST_11005(celB)
+ CUT: CUTER_09030(pgm)
+ CLW: CLAC_03005
+ CDX: CDES_11495(celB)
+ CSP: WM42_1894(pgm)
+ NFA: NFA_44530
+ NFR: ERS450000_05479(pgm_1)
+ NCY: NOCYR_4165(pgm)
+ NBR: O3I_033825
+ NNO: NONO_c17370(pgm)
+ RHA: RHA1_ro06413
+ RER: RER_23280(pgm)
+ REY: O5Y_10880
+ REB: XU06_11100
+ ROP: ROP_64700(pgm)
+ ROA: Pd630_LPD03080
+ REQ: REQ_32340(pgm)
+ RPY: Y013_07220
+ RHB: NY08_1576
+ RAV: AAT18_16780
+ RFA: A3L23_04800(pgm)
+ GBR: Gbro_3442
+ GPO: GPOL_c32500(pgm)
+ GOR: KTR9_3478
+ GOQ: ACH46_14775
+ GTA: BCM27_17815
+ TPR: Tpau_3003
+ CBQ: AL705_06815
+ SCO: SCO7443(pgm)
+ SMA: SAV_803(pgmA)
+ SGR: SGR_6728
+ SGB: WQO_01375
+ SCB: SCAB_6461(pgm)
+ SSX: SACTE_0298
+ SFA: Sfla_5973
+ SHY: SHJG_1995
+ SHO: SHJGH_1760
+ SDV: BN159_1225(celB3)
+ SALB: XNR_5582
+ STRP: F750_0596
+ SFI: SFUL_398
+ SCI: B446_03740
+ SLV: SLIV_02095(celB)
+ SCW: TU94_01215
+ SAMB: SAM23877_0763(pgm)
+ SCZ: ABE83_33675
+ SCX: AS200_05520
+ SRW: TUE45_00746(pgm)
+ STRF: ASR50_03785
+ SLE: sle_66460(sle_66460)
+ KSK: KSE_60870(pgm2)
+ LXX: Lxx02380(pgm)
+ LXY: O159_25680
+ CMI: CMM_0513(pgmA)
+ CMS: CMS0426(pgm)
+ CMC: CMN_00468(pgmA)
+ CMH: VO01_02335
+ MTS: MTES_2101(pgm)
+ MIM: AKG07_10145
+ MIO: AOA12_02975
+ MIX: AB663_000350
+ MIP: AXH82_04035
+ MCW: A8L33_01635
+ RLA: Rhola_00000650
+ RTX: TI83_02440
+ RTC: APU90_04035
+ RTN: A6122_0532
+ CUM: NI26_03105
+ MVD: AWU67_13750
+ FRP: AX769_01555
+ AGY: ATC03_01330
+ CART: PA27867_0188
+ ART: Arth_0131
+ ARR: ARUE_c00920(celB)
+ ARM: ART_2592
+ ARI: UM93_14090
+ ARL: AFL94_00275
+ ARE: AL755_00640
+ AAQ: AOC05_16180
+ ARH: AHiyo8_33830 AHiyo8_33840
+ ARY: ATC04_00355
+ ARW: MB46_15610
+ ARZ: AUT26_00365
+ AAU: AAur_0094(pgm)
+ ACH: Achl_0267
+ APN: Asphe3_02630
+ PSUL: AU252_09065
+ AAI: AARI_00640(pgm)
+ GAR: AOZ07_00335
+ KRH: KRH_19520(pgm)
+ KPL: KPaMU14_01405
+ KFV: AS188_05885
+ MLU: Mlut_01060
+ SATK: SA2016_0253
+ BCV: Bcav_0373
+ BFA: Bfae_07370
+ DVA: DAD186_02680
+ JDE: Jden_0258
+ DNI: HX89_04970
+ LMOI: VV02_19270
+ XCE: Xcel_0168
+ IVA: Isova_0234
+ IDO: I598_2191(pgm)
+ SKE: Sked_01520
+ CFL: Cfla_3191
+ CFI: Celf_3610
+ CGA: Celgi_0170
+ ICA: Intca_2403
+ ARS: ADJ73_15575
+ SERJ: SGUI_1226
+ BLY: A2T55_02900
+ PAC: PPA1105
+ PAK: HMPREF0675_4167(pgm)
+ PAV: TIA2EST22_05490
+ PAX: TIA2EST36_05460
+ PAZ: TIA2EST2_05400
+ PAW: PAZ_c11540(pgm)
+ PAD: TIIST44_09115
+ PCN: TIB1ST10_05675
+ PACC: PAC1_05790
+ PACH: PAGK_1048
+ PACN: TIA1EST1_05445
+ PFR: PFREUD_10610(pgm1)
+ PFRE: RM25_1116
+ PRL: BCB70_02135
+ PPC: HMPREF9154_1435(pgm)
+ PBO: PACID_19220(pgm)
+ AACI: ASQ49_12280
+ PRA: PALO_05410
+ MPH: MLP_29820(pgm)
+ NCA: Noca_4438
+ NDK: I601_1018(pgm)
+ KFL: Kfla_4582
+ TCU: Tcur_1724
+ SRO: Sros_5639
+ FRA: Francci3_1231
+ FRE: Franean1_5250
+ FRI: FraEuI1c_1982
+ FAL: FRAAL1935(pgm)
+ FSY: FsymDg_1552
+ NML: Namu_5012
+ GOB: Gobs_5043
+ BSD: BLASA_5007(pgm)
+ MMAR: MODMU_5540(pgm)
+ KRA: Krad_0143
+ PDX: Psed_3647
+ PSEE: FRP1_10650
+ PSEH: XF36_09895
+ PSEQ: AD006_20305
+ PECQ: AD017_28145
+ PHH: AFB00_26655
+ KAL: KALB_6737
+ STP: Strop_1701
+ SAQ: Sare_1699
+ MAU: Micau_2111
+ MIL: ML5_2218
+ VMA: VAB18032_13950
+ AMS: AMIS_48200
+ ASE: ACPL_2870(pgmA)
+ ACTN: L083_3824(pgmA)
+ AFS: AFR_24840
+ AHE: Arch_0131
+ MCU: HMPREF0573_10620(pgm)
+ TPY: CQ11_06810
+ TPYO: X956_00865 X956_00870
+ ASG: FB03_07265
+ AMY: ADJ76_08410
+ ACQ: AM609_13310
+ AOS: AXE84_04355
+ ARD: AXF14_04230
+ BLO: BL1630(pgm)
+ BLJ: BLD_1755(pgm)
+ BLN: Blon_2184
+ BLON: BLIJ_2260
+ BLF: BLIF_1702
+ BLL: BLJ_1703
+ BLB: BBMN68_1663(pgm)
+ BLM: BLLJ_1633
+ BLK: BLNIAS_00353
+ BLG: BIL_03870
+ BLZ: BLGT_08725
+ BLX: GS08_08845
+ BAD: BAD_0365(pgm)
+ BADL: BADO_0371
+ BADO: BBMN23_0395
+ BLA: BLA_0403(pgm)
+ BLC: Balac_0425
+ BLT: Balat_0425
+ BBB: BIF_01321
+ BBC: BLC1_0407
+ BNM: BALAC2494_00706
+ BLV: BalV_0408
+ BLW: W7Y_0427
+ BLS: W91_0441
+ BANI: Bl12_0397
+ BANL: BLAC_02130
+ BNI: BANAN_02210
+ BANM: EN10_02160
+ BDE: BDP_0481(pgm)
+ BDN: BBDE_0459
+ BBI: BBIF_1459(pgm)
+ BBP: BBPR_1512(pgm)
+ BBF: BBB_1494(pgm)
+ BBV: HMPREF9228_1648(pgm)
+ BBRU: Bbr_1595(pgm)
+ BBRE: B12L_1523
+ BBRV: B689b_1624
+ BBRJ: B7017_1791
+ BBRC: B7019_1764
+ BBRN: B2258_1609
+ BBRS: BS27_1577(pgm)
+ BBRD: BBBR_1594
+ BAST: BAST_1304
+ BTP: D805_1385
+ BCOR: BCOR_1123
+ BKA: AH68_02045
+ BKS: BBKW_0393
+ BPSP: AH67_02315
+ BII: BINDI_1048
+ BANG: BBAG_1303
+ BCAT: BBCT_0349
+ BPSC: BBPC_0380
+ BSCA: BBSC_0573
+ BACT: AB656_04605
+ GVA: HMPREF0424_0298(pgm)
+ GVG: HMPREF0421_20388(celB)
+ GVH: HMPREF9231_1168(pgm)
+ SIJ: SCIP_0358
+ PDO: PSDT_1019
+ CCU: Ccur_07360
+ SHI: Shel_23220
+ DDT: AAY81_05685
+ APV: Apar_1013
+ OLS: Olsu_0579
+ OLO: ADJ70_12085
+ CGO: Corgl_0044 Corgl_1196
+ CBAC: JI75_08755
+ SYN: sll0726(pgm)
+ SYZ: MYO_130890(pgm)
+ SYY: SYNGTS_3053(pgm)
+ SYT: SYNGTI_3052(pgm)
+ SYS: SYNPCCN_3051(pgm)
+ SYQ: SYNPCCP_3051(pgm)
+ SYJ: D082_30550
+ SYW: SYNW2154(pgm)
+ SYC: syc1350_d
+ SYF: Synpcc7942_0156
+ SYD: Syncc9605_2297
+ SYE: Syncc9902_0392
+ SYG: sync_2500
+ SYR: SynRCC307_0402(pmg)
+ SYX: SynWH7803_2164(pmg)
+ CYA: CYA_1969
+ CYB: CYB_2304
+ SYNE: Syn6312_2236
+ SYNK: KR100_14205
+ SYNR: KR49_07020
+ SYND: KR52_04685
+ SYU: M744_02280
+ SYH: Syncc8109_2381(pgm)
+ TEL: tlr1976
+ THN: NK55_06580(pgm)
+ CGC: Cyagr_1550
+ DSL: Dacsa_2418
+ CMP: Cha6605_1279
+ LEN: LEP3755_62020
+ LET: O77CONTIG1_04851(pgm)
+ PSEU: Pse7367_2768
+ PMA: Pro_0090(pgm)
+ PMM: PMM0076(pgm)
+ PMT: PMT_1614
+ PMN: PMN2A_1440
+ PMI: PMT9312_0079
+ PMB: A9601_00891(pgm)
+ PMC: P9515_00861(pgm)
+ PMF: P9303_02691(pgm)
+ PMG: P9301_00881(pgm)
+ PMH: P9215_00891(pgm)
+ PMJ: P9211_00861(pgm)
+ PME: NATL1_01411(pgm)
+ PRC: EW14_0096
+ PRM: EW15_0158
+ AMR: AM1_5123
+ MAR: MAE_52320
+ MPK: VL20_1602
+ CAN: Cyan10605_2652
+ CSN: Cyast_2445
+ HAO: PCC7418_2237
+ CYU: UCYN_00830
+ GEN: GM3709_2139
+ GEE: GM3708_1574
+ CYT: cce_0606(pgm)
+ CYP: PCC8801_3290
+ CYC: PCC7424_4132
+ CYN: Cyan7425_0424
+ CYH: Cyan8802_2833
+ CYJ: Cyan7822_2491
+ TER: Tery_1084
+ ARP: NIES39_M02780
+ MPRO: BJP34_08085
+ GVI: gll3983
+ GLJ: GKIL_4070(pgm)
+ CALT: Cal6303_0798
+ CALH: IJ00_23505
+ RIV: Riv7116_4156
+ FIS: FIS3754_30380
+ CTHE: Chro_3562
+ PLP: Ple7327_0180
+ SCS: Sta7437_0621
+ CEO: ETSB_0064(pgm)
+ ABAO: BEQ56_10280
+ CAP: CLDAP_00370(pgm)
+ DRA: DR_0303(pgm)
+ DGE: Dgeo_1875
+ DDR: Deide_07380
+ DMR: Deima_1394
+ DPT: Deipr_1398
+ DGO: DGo_CA2598
+ DPD: Deipe_0732
+ DSW: QR90_07210
+ DCH: SY84_11880
+ DAB: AUC44_03135
+ DPU: SU48_11485
+ TRA: Trad_0749
+ TTH: TT_C1630
+ TTJ: TTHA0353
+ TTS: Ththe16_0024
+ TTL: TtJL18_0027
+ TSC: TSC_c01410(pgm)
+ THC: TCCBUS3UF1_20790
+ TOS: Theos_2164
+ TAQ: TO73_0040
+ TPAR: AV541_00755
+ MRB: Mrub_2052
+ MRE: K649_12280
+ MSV: Mesil_0294
+ OTE: Oter_3746
+ OBT: OPIT5_26040
+ CAA: Caka_1909
+ AMU: Amuc_0155
+ XII: AMD24_00394(pgcA)
+ MIN: Minf_2127(manB)
+ VBA: IMCC26134_03935
+ BGA: BG0004(femD)
+ TPA: TP_0642
+ TPW: TPANIC_0642
+ TPP: TPASS_0642(manB)
+ TPU: TPADAL_0642
+ TPH: TPChic_0642
+ TPO: TPAMA_0642
+ TPAS: TPSea814_000642
+ TPC: TPECDC2_0642
+ TPG: TPEGAU_0642
+ TPM: TPESAMD_0642
+ TPB: TPFB_0642
+ TDE: TDE0864 TDE1998
+ TSU: Tresu_2063
+ TBE: Trebr_1592
+ TAZ: TREAZ_0938
+ TPI: TREPR_1681
+ TPL: TPCCA_0642
+ TPED: TPE_2214
+ SCD: Spica_1029
+ TPK: JO40_12320
+ TRM: JO41_12155
+ SSM: Spirs_2379
+ STA: STHERM_c11950
+ STQ: Spith_1237
+ SFC: Spiaf_0830
+ SBU: SpiBuddy_1993
+ SCC: Spico_1017
+ SGP: SpiGrapes_2961
+ SLR: L21SP2_1264
+ LIE: LIF_A1752(manB)
+ LIS: LIL_11890(manB2)
+ LST: LSS_09549
+ TPX: Turpa_2229 Turpa_3615
+ BRM: Bmur_2071
+ BPO: BP951000_1160(pgm)
+ BPJ: B2904_orf2626
+ BPIP: BPP43_09310
+ BPW: WESB_2585
+ BIP: Bint_2389(manB)
+ ACM: AciX9_2527 AciX9_2688
+ GMA: AciX8_1068
+ TSA: AciPR4_0641
+ TRS: Terro_0712
+ SUS: Acid_2893 Acid_3937 Acid_6473
+ EMI: Emin_1269
+ FNU: FN0559
+ FNC: HMPREF0946_00100
+ FNT: HMPREF0405_01157
+ FUS: HMPREF0409_02310
+ FNE: FSDG_00989
+ FHW: RN87_05820
+ IPO: Ilyop_0255
+ LBA: Lebu_2089
+ LEO: AMK43_01800 AMK43_11065
+ STR: Sterm_3321
+ SNS: VC03_04000 VC03_05330
+ GAU: GAU_1648(manB) GAU_2920(pgm)
+ GBA: J421_3281 J421_4081
+ TAI: Taci_0468
+ ACO: Amico_0419
+ TLI: Tlie_1572
+ SBR: SY1_23220
+ CPOR: BED41_11325 BED41_14090
+ PLM: Plim_1409
+ PBS: Plabr_0528
+ GES: VT84_17375(pgm_1) VT84_18990(pgcA) VT84_25525(pgm_2)
+ SACI: Sinac_5822
+ BTH: BT_1548
+ BFR: BF1478
+ BFS: BF9343_1340
+ BFG: BF638R_1493
+ BFB: VU15_06195
+ BVU: BVU_3804
+ BHL: Bache_1995
+ BSA: Bacsa_0861
+ BXY: BXY_45690
+ BDO: EL88_11995
+ BDH: GV66_19635
+ BOA: Bovatus_01634(pgcA)
+ BCEL: BcellWH2_05137(pgcA)
+ BACC: BRDCF_p1169(pgcA)
+ PGI: PG_2010
+ PGN: PGN_1955
+ PGT: PGTDC60_0283
+ PAH: Poras_1330
+ PDI: BDI_2097
+ PARY: A4V02_08050
+ PPN: Palpr_0854
+ TFO: BFO_2149(pgcA)
+ TOH: BCB71_08710
+ BVS: BARVI_04435
+ PBT: ING2E5B_1191
+ OSP: Odosp_1923
+ APS: CFPG_637
+ PRU: PRU_1071
+ PMZ: HMPREF0659_A6890
+ PDN: HMPREF9137_2410
+ PIT: PIN17_0340
+ PDT: Prede_1717
+ PRO: HMPREF0669_00354
+ PFUS: ADJ77_09895
+ PEO: AS203_07845
+ AFD: Alfi_3304
+ ASH: AL1_27830
+ RBC: BN938_3060
+ DOI: FH5T_16780
+ CPI: Cpin_5884
+ NKO: Niako_2205
+ NSO: NIASO_07675
+ NIA: A8C56_06025
+ FLA: SY85_01615
+ ARB: A9P82_15125
+ HHY: Halhy_1254
+ PHE: Phep_2334
+ PEP: AQ505_17510
+ PCM: AY601_2271
+ PSTY: BFS30_20325
+ PSN: Pedsa_1482
+ SHG: Sph21_2018
+ SHT: KO02_01130
+ MUP: A0256_23870
+ CMR: Cycma_4984
+ CAMU: CA2015_0255 CA2015_4809
+ BBD: Belba_2901
+ EVI: Echvi_2982
+ ALM: AO498_10755
+ CHU: CHU_0998(pgm)
+ DFE: Dfer_4939
+ SLI: Slin_2990
+ SRD: SD10_16870
+ LBY: Lbys_1694
+ RSI: Runsl_0542
+ FLI: Fleli_1637
+ EOL: Emtol_2495
+ FAE: FAES_2581
+ HSW: Hsw_2872
+ HYM: N008_15065
+ HYD: PK28_12195
+ HYG: AUC43_12190
+ HYP: A0257_00905 A0257_21795 A0257_23230
+ PKO: PKOR_21700
+ RUF: TH63_09635
+ RTI: DC20_21110
+ RUD: TH61_16755
+ MTT: Ftrac_0765
+ FLM: MY04_0455
+ FBT: D770_26220
+ CCM: Ccan_07910
+ RAI: RA0C_0919
+ RAR: RIA_1566
+ RAE: G148_0936
+ ZGA: ZOBELLIA_85(pgcA)
+ EAO: BD94_2626
+ EMN: M876_10175
+ ELB: VO54_00087(pgcA)
+ CHZ: CHSO_2743
+ FBA: FIC_01434
+ OHO: Oweho_0634
+ CPB: Cphamn1_1187
+ PAA: Paes_0902
+ PROC: Ptc2401_00993(pgm)
+ FPE: Ferpe_1295
+ FIA: NA23_06460
+ MPZ: Marpi_0079 Marpi_0576
+ DTN: DTL3_0887 DTL3_1435(pgcA)
+ KPF: IX53_08660
+ MPG: Theba_0662 Theba_1445
+ DIN: Selin_2216
+ DDF: DEFDS_0735
+ DAP: Dacet_0873
+ CNI: Calni_1381 Calni_1989
+ FSI: Flexsi_1551
+ DTH: DICTH_1769
+ DTU: Dtur_0067
+ TYE: THEYE_A0095
+ NDE: NIDE2083(pgm) NIDE2983(manB_pgm)
+ NMV: NITMOv2_2060(pgm) NITMOv2_3476(manB_pgm)
+ NIO: NITINOP_2245(pgm) NITINOP_3080(manB_pgm)
+ LFC: LFE_1649 LFE_1817
+ LFI: LFML04_1021 LFML04_1327
+ LFP: Y981_04535 Y981_06445
+ LEG: ABH19_06845 ABH19_08580
+ TID: Thein_2165
+ TOP: TOPB45_0214
+ TCM: HL41_00255
+ CTHI: THC_1526
+ MOX: DAMO_1547
+ WWE: P147_WWE3C01G0144
+ WBA: UR17_C0001G0803
+ PRF: PeribacterA2_0224
+ TMG: US01_C0001G0612
+ BLQ: L21SP5_01231(pgcA)
+ MAC: MA_0241 MA_2665(pmm)
+ MBA: Mbar_A0721 Mbar_A2225
+ MBY: MSBRM_0324 MSBRM_2207
+ MBW: MSBRW_0280 MSBRW_2523
+ MBAR: MSBR2_0205 MSBR2_2057
+ MMA: MM_1521
+ MMAZ: MmTuc01_1580
+ MVC: MSVAZ_0320
+ MEK: MSKOL_0304
+ MLS: MSLAZ_0096
+ METM: MSMTP_3044
+ MEF: MSWH1_0168
+ MEQ: MSWHS_0167
+ MSJ: MSSAC_0227 MSSAC_1780
+ MSZ: MSSIH_0196
+ MSW: MSSIT_0200
+ MTHE: MSTHC_1242
+ MTHR: MSTHT_2044
+ MHOR: MSHOH_2522 MSHOH_3883
+ MBU: Mbur_2115
+ MMET: MCMEM_0312
+ MMH: Mmah_0304
+ MEV: Metev_0128
+ MZH: Mzhil_1815
+ MPY: Mpsy_2076
+ MHZ: Metho_2209
+ MCJ: MCON_0725
+ MHU: Mhun_1197
+ MLA: Mlab_0785
+ MEM: Memar_0755
+ MBG: BN140_1119(manB)
+ MEMA: MMAB1_1434 MMAB1_1435
+ MPI: Mpet_1868
+ MBN: Mboo_0714
+ MFO: Metfor_2496
+ MPL: Mpal_0486
+ MPD: MCP_2422
+ MEZ: Mtc_1252(pgm-1)
+ RCI: RCIX2409(pgm-2)
+ MTH: MTH_1584
+ MMG: MTBMA_c01700
+ METC: MTCT_1443 MTCT_1604
+ MST: Msp_0263
+ MSI: Msm_0648
+ MRU: mru_0449(glmM2)
+ MEB: Abm4_0232(glmM2)
+ MMIL: sm9_0321(glmM2)
+ MEYE: TL18_01375
+ MOL: YLM1_0123
+ MEL: Metbo_2461
+ MEW: MSWAN_0179 MSWAN_1539
+ METH: MBMB1_0168(glmM1)
+ MFC: BRM9_2132(glmM2)
+ MFI: DSM1535_1549(glmM3)
+ MCUB: MCBB_0186 MCBB_1474(glmM_3)
+ MFV: Mfer_0547
+ MKA: MK0920(cpsG_2)
+ AFU: AF_0458
+ AFG: AFULGI_00004640
+ APO: Arcpr_0278
+ AVE: Arcve_1188
+ AST: Asulf_00240
+ FPL: Ferp_0104
+ GAC: GACE_1066
+ GAH: GAH_01903
+ HAL: VNG_2206G(pmu1)
+ HSL: OE_4094F(pmm1)
+ HDL: HALDL1_16105
+ HHB: Hhub_3489(pmm1)
+ HMA: rrnAC2522(manB3)
+ HHI: HAH_2952(manB2)
+ HHN: HISP_15010
+ HAB: SG26_07125
+ NPH: NP_5158A(pmm4)
+ NMO: Nmlp_3281(pmm1)
+ HMU: Hmuk_0852
+ HJE: HacjB3_00255
+ HSU: HLASF_0143(pmu1)
+ HSF: HLASA_0143(pmu1)
+ HWA: HQ_1024A(pmm1)
+ HWC: Hqrw_1027(pmm1)
+ HLA: Hlac_2256
+ HVO: HVO_2989(pmu2)
+ HME: HFX_2983(cpsG)
+ HGI: ABY42_14910
+ HBO: Hbor_02570
+ HTU: Htur_0084
+ NMG: Nmag_1740
+ HXA: Halxa_1213
+ NAT: NJ7G_0552
+ NPE: Natpe_0082
+ NGE: Natgr_1689
+ HRU: Halru_3163
+ NOU: Natoc_3931
+ SALI: L593_08850
+ HLR: HALLA_04830
+ HALH: HTSR_0097(pmu)
+ TAC: Ta0568
+ TVO: TVG0612677(TVG0612677)
+ PTO: PTO1166
+ FAC: FACI_IFERC01G1623
+ TAR: TALC_00241
+ MAX: MMALV_02250
+ MER: MMINT_16490
+ MEAR: Mpt1_c11280(glmM2)
+ MARC: AR505_1608
+ PHO: PH0923(PH0923)
+ PAB: PAB0819(pmm)
+ PFU: PF0588
+ PFI: PFC_02070
+ PYN: PNA2_1458
+ PYA: PYCH_06990
+ PYS: Py04_0858
+ PYC: TQ32_02350
+ TKO: TK1108
+ TON: TON_0244
+ TGA: TGAM_0813(pgm)
+ TSI: TSIB_0248
+ TBA: TERMP_00026
+ THE: GQS_04065
+ THA: TAM4_546
+ THM: CL1_0467
+ TLT: OCC_09676
+ THS: TES1_0134
+ TNU: BD01_0155
+ TEU: TEU_06470
+ TGY: X802_07900
+ THV: ADU37_CDS01870 ADU37_CDS22560
+ PPAC: PAP_01450
+ ABI: Aboo_0187 Aboo_1538
+ ACF: AciM339_0862 AciM339_1571
+ APE: APE_0317.1
+ ACJ: ACAM_0238
+ SMR: Smar_1286
+ SHC: Shell_1165
+ IHO: Igni_0885
+ IIS: EYM_01085
+ DKA: DKAM_0012
+ DMU: Desmu_0154
+ DFD: Desfe_0111
+ TAG: Tagg_0185
+ IAG: Igag_1229
+ THG: TCELL_0030
+ HBU: Hbut_1078
+ PFM: Pyrfu_1421
+ PDL: Pyrde_0972
+ SSO: SSO0207(pmM)
+ SOL: Ssol_1188
+ SSOA: SULA_1224
+ SSOL: SULB_1225
+ SSOF: SULC_1223
+ STO: STK_02420
+ SAI: Saci_0806
+ SACN: SacN8_03910
+ SACR: SacRon12I_03900
+ SACS: SUSAZ_03645
+ SIS: LS215_2090
+ SIA: M1425_1927
+ SIM: M1627_2005
+ SID: M164_1935
+ SIY: YG5714_2049
+ SIN: YN1551_0869
+ SII: LD85_2187
+ SIH: SiH_1872
+ SIR: SiRe_1800
+ SIC: SiL_1781
+ SULA: BFU36_04880
+ MSE: Msed_0223
+ MCN: Mcup_1849
+ AHO: Ahos_0595
+ CMA: Cmaq_1688
+ THF: MA03_05525
+ ASC: ASAC_0747
+ CLG: Calag_0032
+ FFO: FFONT_0402
+ NMR: Nmar_0224
+ NIR: NSED_00945
+ NID: NPIRD3C_0615 NPIRD3C_2107
+ NIN: NADRNF5_2036
+ NKR: NKOR_00960
+ CSY: CENSYa_0292
+ NGA: Ngar_c28320(glmM)
+ NVN: NVIE_015310 NVIE_029320(glmM)
+ NEV: NTE_01223
+ TAA: NMY3_00934(glmM)
+ CSU: CSUB_C0368
+ NBV: T478_1233(glmM)
+ TAH: SU86_007800
+ NAC: AQV86_01490
+ KCR: Kcr_1498
+ LOKI: Lokiarch_24240(glmM_2)
+ BARC: AOA65_1946(glmM_1)
+ BARB: AOA66_1496(manB)
+ HAH: Halar_2854
+ AGW: QT03_C0001G0998
+DBLINKS ExplorEnz - The Enzyme Database: 5.4.2.2
+ IUBMB Enzyme Nomenclature: 5.4.2.2
+ ExPASy - ENZYME nomenclature database: 5.4.2.2
+ BRENDA, the Enzyme Database: 5.4.2.2
+ CAS: 9001-81-4
+///
diff --git a/Doc/examples/fasta_iterator.py b/Doc/examples/fasta_iterator.py
index b059f15..11f9746 100644
--- a/Doc/examples/fasta_iterator.py
+++ b/Doc/examples/fasta_iterator.py
@@ -22,6 +22,7 @@ def extract_organisms(file_to_parse, format):
return all_species
+
if __name__ == "__main__":
print("Using Bio.SeqIO on a FASTA file")
all_species = extract_organisms("ls_orchid.fasta", "fasta")
diff --git a/Doc/examples/getgene.py b/Doc/examples/getgene.py
index 183bee2..bddf4a1 100755
--- a/Doc/examples/getgene.py
+++ b/Doc/examples/getgene.py
@@ -77,7 +77,7 @@ class DB_Index(object):
db[id] = value
db[acc] = value
id, acc, start, stop = None, None, None, None
- except:
+ except Exception:
print("AARRGGGG %d %d %s %s" %
(start, stop, type(start), type(stop)))
print("%s %s" % (id, acc))
@@ -98,7 +98,7 @@ class DB_Index(object):
def Get(self, id):
try:
values = self.db[id]
- except:
+ except Exception:
return None
start, stop = [int(x) for x in values.split()]
self.fid.seek(start)
@@ -275,6 +275,7 @@ def usage(exit=0):
if exit:
sys.exit(0)
+
if __name__ == '__main__':
pyphy_home = os.environ.get('PYPHY')
@@ -305,7 +306,7 @@ if __name__ == '__main__':
try:
db = sys.argv[1]
ids = sys.argv[2:]
- except:
+ except Exception:
usage(exit=1)
dbfile = os.path.join(pyphy_home, db + '.indexed')
diff --git a/Doc/examples/ls_orchid.gbk.bz2 b/Doc/examples/ls_orchid.gbk.bz2
new file mode 100644
index 0000000..28c2c4a
Binary files /dev/null and b/Doc/examples/ls_orchid.gbk.bz2 differ
diff --git a/Doc/examples/ls_orchid.gbk.gz b/Doc/examples/ls_orchid.gbk.gz
new file mode 100644
index 0000000..dcea791
Binary files /dev/null and b/Doc/examples/ls_orchid.gbk.gz differ
diff --git a/Doc/examples/make_subsmat.py b/Doc/examples/make_subsmat.py
index 4b0f274..d130859 100644
--- a/Doc/examples/make_subsmat.py
+++ b/Doc/examples/make_subsmat.py
@@ -1,6 +1,5 @@
#!/usr/bin/env python
-"""Example of generating a substitution matrix from an alignment.
-"""
+"""Example of generating a substitution matrix from an alignment."""
# standard library
from __future__ import print_function
diff --git a/Doc/images/biopython_logo.pdf b/Doc/images/biopython_logo.pdf
new file mode 100644
index 0000000..9dc672f
Binary files /dev/null and b/Doc/images/biopython_logo.pdf differ
diff --git a/Doc/images/biopython_logo.svg b/Doc/images/biopython_logo.svg
new file mode 100644
index 0000000..9abf6d2
--- /dev/null
+++ b/Doc/images/biopython_logo.svg
@@ -0,0 +1,162 @@
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diff --git a/Doc/images/biopython_logo_l.png b/Doc/images/biopython_logo_l.png
new file mode 100644
index 0000000..655fd3a
Binary files /dev/null and b/Doc/images/biopython_logo_l.png differ
diff --git a/Doc/images/biopython_logo_m.png b/Doc/images/biopython_logo_m.png
new file mode 100644
index 0000000..cdd7bf4
Binary files /dev/null and b/Doc/images/biopython_logo_m.png differ
diff --git a/Doc/images/biopython.jpg b/Doc/images/biopython_logo_old.jpg
similarity index 100%
rename from Doc/images/biopython.jpg
rename to Doc/images/biopython_logo_old.jpg
diff --git a/Doc/images/biopython_logo_s.png b/Doc/images/biopython_logo_s.png
new file mode 100644
index 0000000..5cc0f45
Binary files /dev/null and b/Doc/images/biopython_logo_s.png differ
diff --git a/Doc/images/biopython_logo_xs.png b/Doc/images/biopython_logo_xs.png
new file mode 100644
index 0000000..611178c
Binary files /dev/null and b/Doc/images/biopython_logo_xs.png differ
diff --git a/LICENSE b/LICENSE
deleted file mode 100644
index 3595ec5..0000000
--- a/LICENSE
+++ /dev/null
@@ -1,19 +0,0 @@
- Biopython License Agreement
-
-Permission to use, copy, modify, and distribute this software and its
-documentation with or without modifications and for any purpose and
-without fee is hereby granted, provided that any copyright notices
-appear in all copies and that both those copyright notices and this
-permission notice appear in supporting documentation, and that the
-names of the contributors or copyright holders not be used in
-advertising or publicity pertaining to distribution of the software
-without specific prior permission.
-
-THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
-WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
-WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
-CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT
-OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
-OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
-OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE
-OR PERFORMANCE OF THIS SOFTWARE.
diff --git a/LICENSE b/LICENSE
new file mode 120000
index 0000000..bf2a4e0
--- /dev/null
+++ b/LICENSE
@@ -0,0 +1 @@
+LICENSE.rst
\ No newline at end of file
diff --git a/LICENSE.rst b/LICENSE.rst
new file mode 100644
index 0000000..51519bf
--- /dev/null
+++ b/LICENSE.rst
@@ -0,0 +1,68 @@
+Biopython is currently released under the "Biopython License Agreement"
+(given in full below). Unless stated otherwise in individual file headers,
+all Biopython's files are under the "Biopython License Agreement".
+
+Some files are explicitly dual licensed under your choice of the
+"Biopython License Agreement" or the "BSD 3-Clause License" (both given
+in full below). This is with the intention of later offering all of
+Biopython under this dual licensing approach.
+
+
+------------------------------------------------------------------------------
+
+
+Biopython License Agreement
+---------------------------
+
+Permission to use, copy, modify, and distribute this software and its
+documentation with or without modifications and for any purpose and
+without fee is hereby granted, provided that any copyright notices
+appear in all copies and that both those copyright notices and this
+permission notice appear in supporting documentation, and that the
+names of the contributors or copyright holders not be used in
+advertising or publicity pertaining to distribution of the software
+without specific prior permission.
+
+THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
+WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
+CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT
+OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
+OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
+OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE
+OR PERFORMANCE OF THIS SOFTWARE.
+
+
+------------------------------------------------------------------------------
+
+
+BSD 3-Clause License
+--------------------
+
+Copyright (c) 1999-2017, The Biopython Contributors
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice,
+ this list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+ this list of conditions and the following disclaimer in the documentation
+ and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its contributors
+ may be used to endorse or promote products derived from this software
+ without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
diff --git a/MANIFEST.in b/MANIFEST.in
index b526a1d..ba3d38c 100644
--- a/MANIFEST.in
+++ b/MANIFEST.in
@@ -2,11 +2,21 @@
#
# This tells distutils what files to distribute.
+include CONTRIB.rst
+include LICENSE.rst
+include NEWS.rst
+include README.rst
+include DEPRECATED.rst
+include CONTRIBUTING.rst
+
+# These are now symlinks to the above *.rst files
+# (only doing this for the very long used files)
include CONTRIB
include LICENSE
include NEWS
include README
include DEPRECATED
+
include MANIFEST.in
recursive-include Scripts * # Include scripts.
@@ -30,7 +40,11 @@ recursive-include Doc/examples *.psl
recursive-include Doc/examples *.dnd
recursive-include Doc/examples *.csv
recursive-include Doc/images *.png
-recursive-include Doc/images *.jpg # e.g. the logo for the Tutorial
+recursive-include Doc/images *.jpg # e.g. the old logo for the Tutorial
+recursive-include Doc/images *.svg # e.g. the new logo for the Tutorial
+include Doc/examples/ls_orchid.gbk.gz
+include Doc/examples/ls_orchid.gbk.bz2
+include Doc/examples/ec_5.4.2.2.txt
# Include Bio.Cluster, Bio.Affy, Bio.KDTree, Bio.phenotype
# Note setup.py will only install these if Numpy is installed.
@@ -49,4 +63,3 @@ global-exclude *.pyc *.pyo *.py{} *.py-e
include Bio/Entrez/DTDs/*.dtd # Include DTD files for Entrez
include Bio/Entrez/DTDs/*.ent # Include DTD files for Entrez
include Bio/Entrez/DTDs/*.mod # Include DTD files for Entrez
-include Bio/PopGen/SimCoal/data/*.par # Include SimCoal data files
diff --git a/NEWS b/NEWS
deleted file mode 100644
index 9338cbd..0000000
--- a/NEWS
+++ /dev/null
@@ -1,1914 +0,0 @@
-News for the Biopython Project
-==============================
-
-This file contains release notes and general news about the Biopython project.
-See also the DEPRECATED file which tracks the removal of obsolete modules or
-functions, and online http://biopython.org/wiki/News and
-http://news.open-bio.org/news/category/obf-projects/biopython/
-
-The latest news is at the top of this file.
-
-===================================================================
-
-(In progress, not yet released) Biopython 1.68
-
-This release of Biopython supports Python 2.6, 2.7, 3.3, 3.4 and 3.5, but
-this will be our final release to run on Python 2.6. It has also been tested
-on PyPy 5.0, PyPy3 version 2.4, and Jython 2.7.
-
-Bio.PDB has been extended to parse the RSSB's new binary Macromolecular
-Transmission Format (MMTF, see http://mmtf.rcsb.org), in addition to the
-mmCIF and PDB file formats (contributed by Anthony Bradley). This requires
-an optional external dependency on the mmtf-python library.
-
-Module Bio.pairwise2 has been re-written (contributed by Markus Piotrowski).
-It is now faster, addresses some problems with local alignments, and also
-now allows gap insertions after deletions, and vice versa, inspired by the
-http://dx.doi.org/10.1101/031500 preprint from Flouri et al.
-
-The two sample graphical tools SeqGui (Sequence Graphical User Interface)
-and xbbtools were rewritten (SeqGui) or updated (xbbtools) using the tkinter
-library (contributed by Markus Piotrowski). SeqGui allows simple nucleotide
-transcription, back-transcription and translation into amino acids using
-Bio.Seq internally, offering of the NCBI genetic codes supported in Biopython.
-xbbtools is able to open Fasta formatted files, does simple nucleotide
-operations and translations in any reading frame using one of the NCBI genetic
-codes. In addition, it supports standalone Blast installations to do local
-Blast searches.
-
-New NCBI genetic code table 26 (Pachysolen tannophilus Nuclear Code) has been
-added to Bio.Data (and the translation functionality), and table 11 is now
-also available under the alias Archaeal.
-
-In line with NCBI website changes, Biopython now uses HTTPS rather than HTTP
-to connect to the NCBI Entrez and QBLAST API.
-
-Additionally, a number of small bugs have been fixed with further additions
-to the test suite, and there has been further work to follow the Python PEP8
-and best practice standard coding style.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Anthony Bradley (first contribution)
-Carlos Pena
-Connor T. Skennerton
-Iddo Friedberg
-Kai Blin
-Kristian Davidsen (first contribution)
-Markus Piotrowski
-Olivier Morelle (first contribution)
-Peter Cock
-Tiago Antao
-Travis Wrightsman
-Uwe Schmitt (first contribution)
-Xiaoyu Zhuo (first contribution)
-
-===================================================================
-
-8 June 2016: Biopython 1.67
-
-This release of Biopython supports Python 2.6, 2.7, 3.3, 3.4 and 3.5, but
-support for Python 2.6 is considered to be deprecated. It has also been
-tested on PyPy 5.0, PyPy3 version 2.4, and Jython 2.7.
-
-Comparison of SeqRecord objects until now has used the default Python object
-comparison (are they the same instance in memory?). This can be surprising, but
-comparing all of the attributes would be too complex. As of this release
-attempting to compare SeqRecord objects should raise an exception instead. If
-you want the old behaviour, use id(record1) == id(record2) instead.
-
-New experimental module Bio.phenotype is for working with Phenotype Microarray
-plates in JSON and the machine vendor's CSV format (contributed by Marco
-Galardini).
-
-Following the convention used elsewhere in Biopython, there is a new function
-Bio.KEGG.read(...) for parsing KEGG files expected to contain a single record
-only - the existing function Bio.KEGG.parse(...) is intended to be used to
-iterate over multi-record files.
-
-When a gap character is defined, Bio.Seq will now translate gap codons
-(e.g. "---") into a single gap ("-") in the protein sequence. The gap character
-is inferred from the Seq object's alphabet, but it can also be passed as an
-argument to the translate method.
-
-The new NCBI genetic code table 25, covering Candidate Division SR1 and
-Gracilibacteria, has been added to Bio.Data (and the translation
-functionality).
-
-The Bio.Entrez interface will automatically use an HTTP POST rather than
-HTTP GET if the URL would exceed 1000 characters. This is based on NCBI
-guidelines and the fact that very long queries like complex searches can
-otherwise trigger an HTTP Error 414 Request URI too long.
-
-Foreign keys are now used when creating BioSQL databases with SQLite3 (this
-was not possible until SQLite version 3.6.19). The BioSQL taxonomy code now
-updates the taxon table left/right keys when updating the taxonomy.
-
-There have been some fixes to the MMCIF structure parser which now uses
-identifiers which better match results from the PDB structure parse.
-
-The restriction enzyme list in Bio.Restriction has been updated to the
-May 2016 release of REBASE.
-
-The mmCIF parser in Bio.PDB.MMCIFParser has been joined by a second version
-which only looks at the ATOM and HETATM lines and can be much faster.
-
-The Bio.KEGG.REST will now return unicode text-based handles, except for
-images which remain as binary bytes-based handles, making it easier to use
-with the mostly text-based parsers in Biopython.
-
-Note that the BioSQL test configuration information is now in a new file
-Tests/biosql.ini rather than directly in Tests/test_BioSQL_*.py as before.
-You can make a copy of the provided example file Tests/biosql.ini.sample
-as Tests/biosql.ini and edit this if you wish to run the BioSQL tests.
-
-Additionally, a number of small bugs have been fixed with further additions
-to the test suite, and there has been further work to follow the Python PEP8
-standard coding style, and in converting our docstring documentation to use
-the reStructuredText markup style.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Aaron Rosenfeld (first contribution)
-Anders Pitman (first contribution)
-Barbara Mühlemann (first contribution)
-Ben Fulton
-Ben Woodcroft (first contribution)
-Brandon Invergo
-Brian Osborne (first contribution)
-Carlos Pena
-Chaitanya Gupta (first contribution)
-Chris Warth (first contribution)
-Christiam Camacho (first contribution)
-Connor T. Skennerton
-David Koppstein (first contribution)
-Eric Talevich
-Jacek Śmietański (first contribution)
-João D Ferreira (first contribution)
-João Rodrigues
-Joe Cora (first contribution)
-Kai Blin
-Leighton Pritchard
-Lenna Peterson
-Marco Galardini (first contribution)
-Markus Piotrowski
-Matt Ruffalo (first contribution)
-Matteo Sticco (first contribution)
-Nader Morshed (first contribution)
-Owen Solberg (first contribution)
-Peter Cock
-Steve Bond (first contribution)
-Terry Jones (first contribution)
-Vincent Davis
-Zheng Ruan
-
-===================================================================
-
-21 October 2015: Biopython 1.66
-
-This release of Biopython supports Python 2.6, 2.7, 3.3, 3.4 and 3.5, but
-support for Python 2.6 is considered to be deprecated. It has also been
-tested on PyPy 2.4 to 2.6, PyPy3 version 2.4, and Jython 2.7.
-
-Further work on the Bio.KEGG and Bio.Graphics modules now allows drawing KGML
-pathways with transparency.
-
-The Bio.SeqIO "abi" parser now decodes almost all the documented fields used
-by the ABIF instruments - including the individual color channels.
-
-Bio.PDB now has a QCPSuperimposer module using the Quaternion Characteristic
-Polynomial algorithm for superimposing structures. This is a fast alternative
-to the existing SVDSuperimposer code using singular value decomposition.
-
-Bio.Entrez now implements the NCBI Entrez Citation Matching function
-(ECitMatch), which retrieves PubMed IDs (PMIDs) that correspond to a set of
-input citation strings.
-
-Bio.Entrez.parse(...) now supports NCBI XML files using XSD schemas, which
-will be downloaded and cached like NCBI DTD files.
-
-A subtle bug in how multi-part GenBank/EMBL locations on the reverse strand
-were parsed into CompoundLocations was fixed: complement(join(...)) as used
-by NCBI worked, but join(complement(...),complement(...),...) as used by
-EMBL/ENSEMBL gave the CompoundLocation parts in the wrong order. A related
-bug when taking the reverse complement of a SeqRecord containing features
-with CompoundLocations was also fixed.
-
-Additionally, a number of small bugs have been fixed with further additions
-to the test suite, and there has been further work on conforming to the
-Python PEP8 standard coding style.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Alan Medlar (first contribution)
-Anthony Mathelier (first contribution)
-Antony Lee (first contribution)
-Anuj Sharma (first contribution)
-Ben Fulton (first contribution)
-Bertrand Néron (first contribution)
-Brandon Invergo
-Carlos Pena
-Christian Brueffer
-Connor T. Skennerton (first contribution)
-David Arenillas (first contribution)
-David Nicholson (first contribution)
-Emmanuel Noutahi (first contribution)
-Eric Rasche (first contribution)
-Fabio Madeira (first contribution)
-Franco Caramia (first contribution)
-Gert Hulselmans (first contribution)
-Gleb Kuznetsov (first contribution)
-João Rodrigues
-John Bradley (first contribution)
-Kai Blin
-Kian Ho (first contribution)
-Kozo Nishida (first contribution)
-Kuan-Yi Li (first contribution)
-Leighton Pritchard
-Lucas Sinclair
-Michiel de Hoon
-Peter Cock
-Saket Choudhary
-Sunhwan Jo (first contribution)
-Tarcisio Fedrizzi (first contribution)
-Tiago Antao
-Vincent Davis
-
-===================================================================
-
-17 December 2014: Biopython 1.65 released.
-
-The Biopython sequence objects now use string comparison, rather than Python's
-object comparison. This has been planned for a long time with warning messages
-in place (under Python 2, the warnings were sadly missing under Python 3).
-
-The Bio.KEGG and Bio.Graphics modules have been expanded with support for
-the online KEGG REST API, and parsing, representing and drawing KGML pathways.
-
-The Pterobranchia Mitochondrial genetic code has been added to Bio.Data (and
-the translation functionality), which is the new NCBI genetic code table 24.
-
-The Bio.SeqIO parser for the ABI capillary file format now exposes all the raw
-data in the SeqRecord's annotation as a dictionary. This allows further
-in-depth analysis by advanced users.
-
-Bio.SearchIO QueryResult objects now allow Hit retrieval using its alternative
-IDs (any IDs listed after the first one, for example as used with the NCBI
-BLAST NR database).
-
-We have also done some more work applying PEP8 coding styles to Biopython.
-
-Bio.SeqUtils.MeltingTemp has been rewritten with new functionality.
-
-The new experimental module Bio.CodonAlign has been renamed Bio.codonalign
-(and similar lower case PEP8 style module names have been used for the
-sub-modules within this).
-
-Bio.SeqIO.index_db(...) and Bio.SearchIO.index_db(...) now store any relative
-filenames relative to the index file, rather than (as before) relative to the
-current directory at the time the index was built. This makes the indexes
-less fragile, so that they can be used from other working directories. NOTE:
-This change is backward compatible (old index files work as before), however
-relative paths in new indexes will not work on older versions of Biopython!
-
-Biopython also seems to work fine under PyPy3 2.4 which implements Python 3.2
-plus unicode string literals.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Alan Du (first contribution)
-Carlos Pena (first contribution)
-Colin Lappala (first contribution)
-Christian Brueffer
-David Bulger (first contribution)
-Eric Talevich
-Evan Parker (first contribution)
-Hongbo Zhu
-Kai Blin
-Kevin Wu (first contribution)
-Leighton Pritchard
-Leszek Pryszcz (first contribution)
-Markus Piotrowski
-Matt Shirley (first contribution)
-Mike Cariaso (first contribution)
-Peter Cock
-Seth Sims (first contribution)
-Tiago Antao
-Travis Wrightsman (first contribution)
-Tyghe Vallard (first contribution)
-Vincent Davis
-Wibowo 'Bow' Arindrarto
-Zheng Ruan
-
-===================================================================
-
-29 May 2014: Biopython 1.64 released.
-
-This release of Biopython supports Python 2.6 and 2.7, 3.3 and also the
-new 3.4 version. It is also tested on PyPy 2.0 to 2.3, and Jython 2.7b2.
-
-The new experimental module Bio.CodonAlign facilitates building codon
-alignment and further analysis upon it. This work is from the Google
-Summer of Code (GSoC) project by Zheng Ruan.
-
-Bio.Phylo now has tree construction and consensus modules, from the
-GSoC work by Yanbo Ye.
-
-Bio.Entrez will now automatically download and cache new NCBI DTD files for
-XML parsing under the user's home directory (using ``~/.biopython`` on
-Unix like systems, and ``$APPDATA/biopython`` on Windows).
-
-Bio.Sequencing.Applications now includes a wrapper for the samtools command
-line tool.
-
-Bio.PopGen.SimCoal now also supports fastsimcoal.
-
-SearchIO hmmer3-text, hmmer3-tab, and hmmer3-domtab now support output from
-hmmer3.1b1.
-
-The 'accession' of QueryResult and Hit objects created when using the
-'hmmer3-tab' format are now properly named as 'accession' (previously they
-were acc, deviating from the documentation).
-
-The `homology` key in the `aln_annotation` attribute of an HSP object in
-Bio.SearchIO has been renamed to `similarity`.
-
-The Bio.SeqUtils masses and molecular_weight function have been updated.
-
-BioSQL can now use the mysql-connector package (available for Python 2, 3
-and PyPy) as an alternative to MySQLdb (Python 2 only) to connect to a MySQL
-database.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Chunlei Wu (first contribution)
-Edward Liaw (first contribution)
-Eric Talevich
-Leighton Pritchard
-Manlio Calvi (first contribution)
-Markus Piotrowski (first contribution)
-Melissa Gymrek (first contribution)
-Michiel de Hoon
-Nigel Delaney
-Peter Cock
-Saket Choudhary
-Tiago Antao
-Vincent Davis (first contribution)
-Wibowo 'Bow' Arindrarto
-Yanbo Ye (first contribution)
-Zheng Ruan (first contribution)
-
-===================================================================
-
-4 December 2013: Biopython 1.63 released.
-
-This release supports Python 3.3 onwards without conversion via the 2to3
-library. See the Biopython 1.63 beta release notes below for details. Since
-the beta release we have made some minor bug fixes and test improvements.
-
-The restriction enzyme list in Bio.Restriction has been updated to the
-December 2013 release of REBASE.
-
-Additional contributors since the beta:
-
-Gokcen Eraslan (first contribution)
-
-===================================================================
-
-12 November 2013: Biopython 1.63 beta released.
-
-This is a beta release for testing purposes, the main reason for a
-beta version is the large amount of changes imposed by the removal of
-the 2to3 library previously required for the support of Python 3.X.
-This was made possible by dropping Python 2.5 (and Jython 2.5).
-
-This release of Biopython supports Python 2.6 and 2.7, and also Python
-3.3.
-
-The Biopython Tutorial & Cookbook, and the docstring examples in the source
-code, now use the Python 3 style print function in place of the Python 2
-style print statement. This language feature is available under Python 2.6
-and 2.7 via:
-
- from __future__ import print_function
-
-Similarly we now use the Python 3 style built-in next function in place of
-the Python 2 style iterators' .next() method. This language feature is also
-available under Python 2.6 and 2.7.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Chris Mitchell (first contribution)
-Christian Brueffer
-Eric Talevich
-Josha Inglis (first contribution)
-Konstantin Tretyakov (first contribution)
-Lenna Peterson
-Martin Mokrejs
-Nigel Delaney (first contribution)
-Peter Cock
-Sergei Lebedev (first contribution)
-Tiago Antao
-Wayne Decatur (first contribution)
-Wibowo 'Bow' Arindrarto
-
-===================================================================
-
-28 August 2013: Biopython 1.62 released.
-
-This is our first release to officially support Python 3, however it is
-also our final release supporting Python 2.5. Specifically this release
-is supported and tested on standard Python 2.5, 2.6, 2.7 and 3.3.
-It was also tested under Jython 2.5, 2.7 and PyPy 1.9, 2.0.
-
-See the Biopython 1.62 beta release notes below for most changes. Since the
-beta release we have added several minor bug fixes and test improvements.
-Additional contributors since the beta:
-
-Bertrand Néron (first contribution)
-Lenna Peterson
-Martin Mokrejs
-Matsuyuki Shirota (first contribution)
-
-===================================================================
-
-15 July 2013: Biopython 1.62 beta released.
-
-This is a beta release for testing purposes, both for new features added,
-and changes to location parsing, but more importantly Biopython 1.62 will
-be our first release to officially support Python 3.
-
-Specifically we intend Biopython 1.62 to support standard Python 2.5, 2.6, 2.7
-and 3.3, but the release will also be tested under Jython 2.5, 2.7 and PyPy
-1.9, 2.0 as well. It will be our final release supporting Python 2.5.
-
-The translation functions will give a warning on any partial codons (and this
-will probably become an error in a future release). If you know you are dealing
-with partial sequences, either pad with N to extend the sequence length to a
-multiple of three, or explicitly trim the sequence.
-
-The handling of joins and related complex features in Genbank/EMBL files has
-been changed with the introduction of a CompoundLocation object. Previously
-a SeqFeature for something like a multi-exon CDS would have a child SeqFeature
-(under the sub_features attribute) for each exon. The sub_features property
-will still be populated for now, but is deprecated and will in future be
-removed. Please consult the examples in the help (docstrings) and Tutorial.
-
-Thanks to the efforts of Ben Morris, the Phylo module now supports the file
-formats NeXML and CDAO. The Newick parser is also significantly faster, and can
-now optionally extract bootstrap values from the Newick comment field (like
-Molphy and Archaeopteryx do). Nate Sutton added a wrapper for FastTree to
-Bio.Phylo.Applications.
-
-New module Bio.UniProt adds parsers for the GAF, GPA and GPI formats from
-UniProt-GOA.
-
-The BioSQL module is now supported in Jython. MySQL and PostgreSQL databases
-can be used. The relevant JDBC driver should be available in the CLASSPATH.
-
-Feature labels on circular GenomeDiagram figures now support the label_position
-argument (start, middle or end) in addition to the current default placement,
-and in a change to prior releases these labels are outside the features which
-is now consistent with the linear diagrams.
-
-The code for parsing 3D structures in mmCIF files was updated to use the
-Python standard library's shlex module instead of C code using flex.
-
-The Bio.Sequencing.Applications module now includes a BWA command line wrapper.
-
-Bio.motifs supports JASPAR format files with multiple position-frequence
-matrices.
-
-Additionally there have been other minor bug fixes and more unit tests.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Alexander Campbell (first contribution)
-Andrea Rizzi (first contribution)
-Anthony Mathelier (first contribution)
-Ben Morris (first contribution)
-Brad Chapman
-Christian Brueffer
-David Arenillas (first contribution)
-David Martin (first contribution)
-Eric Talevich
-Iddo Friedberg
-Jian-Long Huang (first contribution)
-Joao Rodrigues
-Kai Blin
-Michiel de Hoon
-Nate Sutton (first contribution)
-Peter Cock
-Petra Kubincová (first contribution)
-Phillip Garland
-Saket Choudhary (first contribution)
-Tiago Antao
-Wibowo 'Bow' Arindrarto
-Xabier Bello (first contribution)
-
-===================================================================
-
-5 February 2013: Biopython 1.61 released.
-
-GenomeDiagram has three new sigils (shapes to illustrate features). OCTO shows
-an octagonal shape, like the existing BOX sigil but with the corners cut off.
-JAGGY shows a box with jagged edges at the start and end, intended for things
-like NNNNN regions in draft genomes. Finally BIGARROW is like the existing
-ARROW sigil but is drawn straddling the axis. This is useful for drawing
-vertically compact figures where you do not have overlapping genes.
-
-New module Bio.Graphics.ColorSpiral can generate colors along a spiral path
-through HSV color space. This can be used to make arbitrary 'rainbow' scales,
-for example to color features or cross-links on a GenomeDiagram figure.
-
-The Bio.SeqIO module now supports reading sequences from PDB files in two
-different ways. The "pdb-atom" format determines the sequence as it appears in
-the structure based on the atom coordinate section of the file (via Bio.PDB,
-so NumPy is currently required for this). Alternatively, you can use the
-"pdb-seqres" format to read the complete protein sequence as it is listed in
-the PDB header, if available.
-
-The Bio.SeqUtils module how has a seq1 function to turn a sequence using three
-letter amino acid codes into one using the more common one letter codes. This
-acts as the inverse of the existing seq3 function.
-
-The multiple-sequence-alignment object used by Bio.AlignIO etc now supports
-an annotation dictionary. Additional support for per-column annotation is
-planned, with addition and splicing to work like that for the SeqRecord
-per-letter annotation.
-
-A new warning, Bio.BiopythonExperimentalWarning, has been introduced. This
-marks any experimental code included in the otherwise stable release. Such
-'beta' level code is ready for wider testing, but still likely to change and
-should only be tried by early adopters to give feedback via the biopython-dev
-mailing list. We'd expect such experimental code to reach stable status in
-one or two releases time, at which point our normal policies about trying to
-preserve backwards compatibility would apply. See also the README file.
-
-This release also includes Bow's Google Summer of Code work writing a unified
-parsing framework for NCBI BLAST (assorted formats including tabular and XML),
-HMMER, BLAT, and other sequence searching tools. This is currently available
-with the new BiopythonExperimentalWarning to indicate that this is still
-somewhat experimental. We're bundling it with the main release to get more
-public feedback, but with the big warning that the API is likely to change.
-In fact, even the current name of Bio.SearchIO may change since unless you
-are familiar with BioPerl its purpose isn't immediately clear.
-
-The Bio.Motif module has been updated and reorganized. To allow for a clean
-deprecation of the old code, the new motif code is stored in a new module
-Bio.motifs, and a PendingDeprecationWarning was added to Bio.Motif.
-
-A faster low level string FASTA based parser SimpleFastaParser has been added
-to Bio.SeqIO.FastaIO which like its sister function for FASTQ files does not
-have the overhead of constructing SeqRecord objects.
-
-Additionally there have been other minor bug fixes and more unit tests.
-
-Finally, we are phasing out support for Python 2.5. We will continue support
-for at least one further release (Biopython 1.62). This could be extended
-given feedback from our users (or if the Jython 2.7 release is delayed, since
-the current stable release Jython 2.5 implemented Python 2.5 only). Focusing
-on Python 2.6 and 2.7 only will make writing Python 3 compatible code easier.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Brandon Invergo
-Bryan Lunt (first contribution)
-Christian Brueffer (first contribution)
-David Cain
-Eric Talevich
-Grace Yeo (first contribution)
-Jeffrey Chang
-Jingping Li (first contribution)
-Kai Blin (first contribution)
-Leighton Pritchard
-Lenna Peterson
-Lucas Sinclair (first contribution)
-Michiel de Hoon
-Nick Semenkovich (first contribution)
-Peter Cock
-Robert Ernst (first contribution)
-Tiago Antao
-Wibowo 'Bow' Arindrarto
-
-===================================================================
-
-25 June 2012: Biopython 1.60 released.
-
-New module Bio.bgzf supports reading and writing BGZF files (Blocked GNU
-Zip Format), a variant of GZIP with efficient random access, most commonly
-used as part of the BAM file format. This uses Python's zlib library
-internally, and provides a simple interface like Python's gzip library.
-Using this the Bio.SeqIO indexing functions now support BGZF compressed
-sequence files.
-
-The GenBank/EMBL parser will now give a warning on unrecognised feature
-locations and continue parsing (leaving the feature's location as None).
-Previously it would abort with an exception, which was often unhelpful.
-
-The Bio.PDB.MMCIFParser is now compiled by default (but is still not
-available under Jython, PyPy or Python 3).
-
-The SFF parser in Bio.SeqIO now decodes Roche 454 'universal accession
-number' 14 character read names, which encode the timestamp of the run,
-the region the read came from, and the location of the well.
-
-In the Phylo module, the "draw" function for plotting tree objects has become
-much more flexible, with improved support for matplotlib conventions and new
-parameters for specifying branch and taxon labels. Writing in the PhyloXML
-format has been updated to more closely match the output of other programs. A
-wrapper for the program RAxML has been added under Bio.Phylo.Applications,
-alongside the existing wrapper for PhyML.
-
-Additionally there have been other minor bug fixes and more unit tests.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Brandon Invergo
-Eric Talevich
-Jeff Hussmann (first contribution)
-John Comeau (first contribution)
-Kamil Slowikowski (first contribution)
-Kevin Jacobs
-Lenna Peterson (first contribution)
-Matt Fenwick (first contribution)
-Peter Cock
-Paul T. Bathen
-Wibowo Arindrarto
-
-===================================================================
-
-24 February 2012: Biopython 1.59 released.
-
-Please note that this release will *not* work on Python 2.4 (while the recent
-releases have worked despite us not officially supporting this).
-
-The position objects used in Bio.SeqFeature now act almost like integers,
-making dealing with fuzzy locations in EMBL/GenBank files much easier. Note as
-part of this work, the arguments to create fuzzy positions OneOfPosition and
-WithinPosition have changed in a non-backwards compatible way.
-
-The SeqFeature's strand and any database reference are now properties of the
-FeatureLocation object (a more logical placement), with proxy methods for
-backwards compatibility. As part of this change, if you print a location
-object it will now display any strand and database reference information.
-
-The installation setup.py now supports 'install_requires' when setuptools
-is installed. This avoids the manual dialog when installing Biopython via
-easy_install or pip and numpy is not installed. It also allows user libraries
-that require Biopython to include it in their install_requires and get
-automatical installation of dependencies.
-
-Bio.Graphics.BasicChromosome has been extended to allow simple sub-features to
-be drawn on chromosome segments, suitable to show the position of genes, SNPs
-or other loci. Note Bio.Graphics requires the ReportLab library.
-
-Bio.Graphics.GenomeDiagram has been extended to allow cross-links between
-tracks, and track specific start/end positions for showing regions. This can
-be used to imitate the output from the Artemis Comparison Tool (ACT).
-Also, a new attribute circle_core makes it easier to have an empty space in
-the middle of a circular diagram (see tutorial).
-
-Bio.Align.Applications now includes a wrapper for command line tool Clustal
-Omega for protein multiple sequence alignment.
-
-Bio.AlignIO now supports sequential PHYLIP files (as well as interlaced
-PHYLIP files) as a separate format variant.
-
-New module Bio.TogoWS offers a wrapper for the TogoWS REST API, a web service
-based in Japan offering access to KEGG, DDBJ, PDBj, CBRC plus access to some
-NCBI, EBI resources including PubMed, GenBank and UniProt. This is much easier
-to use than the NCBI Entrez API, but should be especially useful for Biopython
-users based in Asia.
-
-Bio.Entrez function efetch has been updated to handle the NCBI's stricter
-handling of multiple ID arguments in EFetch 2.0, however the NCBI have also
-changed the retmode default argument so you may need to make this explicit.
-e.g. retmode="text"
-
-Additionally there have been other minor bug fixes and more unit tests.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Andreas Wilm (first contribution)
-Alessio Papini (first contribution)
-Brad Chapman
-Brandon Invergo
-Connor McCoy
-Eric Talevich
-João Rodrigues
-Konrad Förstner (first contribution)
-Michiel de Hoon
-Matej Repič (first contribution)
-Leighton Pritchard
-Peter Cock
-
-===================================================================
-
-18 August 2011: Biopython 1.58 released.
-
-A new interface and parsers for the PAML (Phylogenetic Analysis by Maximum
-Likelihood) package of programs, supporting codeml, baseml and yn00 as well
-as a Python re-implementation of chi2 was added as the Bio.Phylo.PAML module.
-
-Bio.SeqIO now includes read and write support for the SeqXML, a simple XML
-format offering basic annotation support. See Schmitt et al (2011) in
-Briefings in Bioinformatics, http://dx.doi.org/10.1093/bib/bbr025
-
-Bio.SeqIO now includes read support for ABI files ("Sanger" capillary
-sequencing trace files, containing called sequence with PHRED qualities).
-
-The Bio.AlignIO "fasta-m10" parser was updated to cope with the >>><<< lines
-as used in Bill Pearson's FASTA version 3.36, without this fix the parser
-would only return alignments for the first query sequence.
-
-The Bio.AlignIO "phylip" parser and writer now treat a dot/period in the
-sequence as an error, in line with the official PHYLIP specification. Older
-versions of our code didn't do anything special with this character. Also,
-support for "phylip-relaxed" has been added which allows longer record names
-as used in RAxML and PHYML.
-
-Of potential interest to anyone subclassing Biopython objects, any remaining
-"old style" Python classes have been switched to "new style" classes. This
-allows things like defining properties.
-
-Bio.HMM's Viterbi algorithm now expects the initial probabilities explicitly.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Aaron Gallagher (first contribution)
-Bartek Wilczynski
-Bogdan T. (first contribution)
-Brandon Invergo (first contribution)
-Connor McCoy (first contribution)
-David Cain (first contribution)
-Eric Talevich
-Fábio Madeira (first contribution)
-Hongbo Zhu
-Joao Rodrigues
-Michiel de Hoon
-Peter Cock
-Thomas Schmitt (first contribution)
-Tiago Antao
-Walter Gillett
-Wibowo Arindrarto (first contribution)
-
-===================================================================
-
-2 April 2011: Biopython 1.57 released.
-
-Bio.SeqIO now includes an index_db() function which extends the existing
-indexing functionality to allow indexing many files, and more importantly
-this keeps the index on disk in a simple SQLite3 database rather than in
-memory in a Python dictionary.
-
-Bio.Blast.Applications now includes a wrapper for the BLAST+ blast_formatter
-tool from NCBI BLAST 2.2.24+ or later. This release of BLAST+ added the
-ability to run the BLAST tools and save the output as ASN.1 format, and then
-convert this to any other supported BLAST output format (plain text, tabular,
-XML, or HTML) with the blast_formatter tool. The wrappers were also updated
-to include new arguments added in BLAST 2.2.25+ such as -db_hard_mask.
-
-The SeqRecord object now has a reverse_complement method (similar to that of
-the Seq object). This is most useful to reversing per-letter-annotation (such
-as quality scores from FASTQ) or features (such as annotation from GenBank).
-
-Bio.SeqIO.write's QUAL output has been sped up, and Bio.SeqIO.convert now
-uses an optimised routine for FASTQ to QUAL making this much faster.
-
-Biopython can now be installed with pip. Thanks to David Koppstein and
-James Casbon for reporting the problem.
-
-Bio.SeqIO.write now uses lower case for the sequence for GenBank, EMBL and
-IMGT output.
-
-The Bio.PDB module received several fixes and improvements, including starting
-to merge João's work from GSoC 2010; consequently Atom objects now know
-their element type and IUPAC mass. (The new features that use these
-attributes won't be included in Biopython until the next release, though, so
-stay tuned.)
-
-The nodetype hierarchy in the Bio.SCOP.Cla.Record class is now a dictionary
-(previously it was a list of key,value tuples) to better match the standard.
-
-Many thanks to the Biopython developers and community for making this release
-possible, especially the following contributors:
-
-Brad Chapman
-Eric Talevich
-Erick Matsen (first contribution)
-Hongbo Zhu
-Jeffrey Finkelstein (first contribution)
-Joanna & Dominik Kasprzak (first contribution)
-Joao Rodrigues
-Kristian Rother
-Leighton Pritchard
-Michiel de Hoon
-Peter Cock
-Peter Thorpe (first contribution)
-Phillip Garland
-Walter Gillett (first contribution)
-
-===================================================================
-
-26 November 2010: Biopython 1.56 released.
-
-This is planned to be our last release to support Python 2.4, however this
-could be delayed given immediate feedback from our users (e.g. if this proves
-to be a problem in combination with other libraries or a popular Linux
-distribution).
-
-Bio.SeqIO can now read and index UniProt XML files (under format name
-"uniprot-xml", which was agreed with EMBOSS and BioPerl for when/if they
-support it too).
-
-Bio.SeqIO can now read, write and index IMGT files. These are a variant of
-the EMBL sequence text file format with longer feature indentation.
-
-Bio.SeqIO now supports protein EMBL files (used in the EMBL patents database
-file epo_prt.dat) - previously we only expected nucleotide EMBL files.
-
-The Bio.Seq translation methods and function will now accept an arbitrary
-CodonTable object (for those of you working on very unusual organisms).
-
-The SeqFeature object now supports len(feature) giving the length consistent
-with the existing extract method. Also, it now supports iteration giving the
-coordinate (with respect to the parent sequence) of each letter within the
-feature (in frame aware order), and "in" which allows you to check if a
-(parent based) coordinate is within the feature location.
-
-Bio.Entrez will now try to download any missing NCBI DTD files and cache them
-in the user's home directory.
-
-The provisional database schema for BioSQL support on SQLite which Biopython
-has been using since Release 1.53 has now been added to BioSQL, and updated
-slightly.
-
-Bio.PopGen.FDist now supports the DFDist command line tool as well as FDist2.
-
-Bio.Motif now has a chapter in the Tutorial.
-
-(At least) 13 people have contributed to this release, including 6 new people:
-
-Andrea Pierleoni (first contribution)
-Bart de Koning (first contribution)
-Bartek Wilczynski
-Bartosz Telenczuk (first contribution)
-Cymon Cox
-Eric Talevich
-Frank Kauff
-Michiel de Hoon
-Peter Cock
-Phillip Garland (first contribution)
-Siong Kong (first contribution)
-Tiago Antao
-Uri Laserson (first contribution)
-
-===================================================================
-
-31 August 2010: Biopython 1.55 released.
-
-See the notes below for the Biopython 1.55 beta release for changes since
-Biopython 1.54 was released. Since the beta release we have marked a few
-modules as obsolete or deprecated, and removed some deprecated code. There
-have also been a few bug fixes, extra unit tests, and documentation
-improvements.
-
-(At least) 12 people have contributed to this release, including 6 new people:
-
-Andres Colubri (first contribution)
-Carlos Rios Vera (first contribution)
-Claude Paroz (first contribution)
-Cymon Cox
-Eric Talevich
-Frank Kauff
-Joao Rodrigues (first contribution)
-Konstantin Okonechnikov (first contribution)
-Michiel de Hoon
-Nathan Edwards (first contribution)
-Peter Cock
-Tiago Antao
-
-===================================================================
-
-18 August 2010: Biopython 1.55 beta released.
-
-This is a beta release for testing purposes, both for new features added,
-and more importantly updates to avoid code deprecated in Python 2.7 or in
-Python 3. This is an important step towards Python 3 support.
-
-We are phasing out support for Python 2.4. We will continue to support it
-for at least one further release (Biopython 1.56). This could be delayed
-given feedback from our users (e.g. if this proves to be a problem in
-combination with other libraries or a popular Linux distribution).
-
-The SeqRecord object now has upper and lower methods (like the Seq object and
-Python strings), which return a new SeqRecord with the sequence in upper or
-lower case and a copy of all the annotation unchanged.
-
-Several small issues with Bio.PDB have been resolved, which includes better
-handling of model numbers, and files missing the element column.
-
-Feature location parsing for GenBank and EMBL files has been rewritten,
-making the parser much faster.
-
-Ace parsing by SeqIO now uses zero rather than None for the quality score of
-any gaps (insertions) in the contig sequence.
-
-The BioSQL classes DBServer and BioSeqDatabase now act more like Python
-dictionaries, making it easier to count, delete, iterate over, or check for
-membership of namespaces and records.
-
-The command line tool application wrapper classes are now executable, so you
-can use them to call the tool (using the subprocess module internally) and
-capture the output and any error messages as strings (stdout and stderr).
-This avoids having to worry about the details of how best to use subprocess.
-
-(At least) 10 people have contributed to this release, including 5 new people:
-
-Andres Colubri (first contribution)
-Carlos Rios Vera (first contribution)
-Claude Paroz (first contribution)
-Eric Talevich
-Frank Kauff
-Joao Rodrigues (first contribution)
-Konstantin Okonechnikov (first contribution)
-Michiel de Hoon
-Peter Cock
-Tiago Antao
-
-===================================================================
-
-May 20, 2010: Biopython 1.54 released.
-
-See the notes below for the Biopython 1.54 beta release for changes since
-Biopython 1.53 was released. Since then there have been some changes to
-the new Bio.Phylo module, more documentation, and a number of smaller
-bug fixes.
-
-===================================================================
-
-April 2, 2010: Biopython 1.54 beta released.
-
-We are phasing out support for Python 2.4. We will continue to support it
-for at least two further releases, and at least one year (whichever takes
-longer), before dropping support for Python 2.4. This could be delayed
-given feedback from our users (e.g. if this proves to be a problem in
-combination with other libraries or a popular Linux distribution).
-
-New module Bio.Phylo includes support for reading, writing and working with
-phylogenetic trees from Newick, Nexus and phyloXML files. This was work by
-Eric Talevich on a Google Summer of Code 2009 project, under The National
-Evolutionary Synthesis Center (NESCent), mentored by Brad Chapman and
-Christian Zmasek.
-
-Bio.Entrez includes some more DTD files, in particular eLink_090910.dtd,
-needed for our NCBI Entrez Utilities XML parser.
-
-The parse, read and write functions in Bio.SeqIO and Bio.AlignIO will now
-accept filenames as well as handles. This follows a general shift from
-other Python libraries, and does make usage a little simpler. Also
-the write functions will now accept a single SeqRecord or alignment.
-
-Bio.SeqIO now supports writing EMBL files (DNA and RNA sequences only).
-
-The dictionary-like objects from Bio.SeqIO.index() now support a get_raw
-method for most file formats, giving you the original unparsed data from the
-file as a string. This is useful for selecting a subset of records from a
-file where Bio.SeqIO.write() does not support the file format (e.g. the
-"swiss" format) or where you need to exactly preserve the original layout.
-
-Based on code from Jose Blanca (author of sff_extract), Bio.SeqIO now
-supports reading, indexing and writing Standard Flowgram Format (SFF)
-files which are used by 454 Life Sciences (Roche) sequencers. This means
-you can use SeqIO to convert from SFF to FASTQ, FASTA and QUAL (as
-trimmed or untrimmed reads).
-
-An improved multiple sequence alignment object has been introduced,
-and is used by Bio.AlignIO for input. This is a little stricter than the
-old class but should otherwise be backwards compatible.
-
-(At least) 11 people contributed to this release, including 5 new people:
-
-Anne Pajon (first contribution)
-Brad Chapman
-Christian Zmasek
-Diana Jaunzeikare (first contribution)
-Eric Talevich
-Jose Blanca (first contribution)
-Kevin Jacobs (first contribution)
-Leighton Pritchard
-Michiel de Hoon
-Peter Cock
-Thomas Holder (first contribution)
-
-===================================================================
-
-December 15, 2009: Biopython 1.53 released.
-
-Biopython is now using git for source code control, currently on github. Our
-old CVS repository will remain on the OBF servers in the short/medium term
-as a backup, but will not be updated in future.
-
-The Bio.Blast.Applications wrappers now covers the new NCBI BLAST C++ tools
-(where blastall is replaced by blastp, blastn, etc, and the command line
-switches have all been renamed). These will be replacing the old wrappers in
-Bio.Blast.NCBIStandalone which are now obsolete, and will be deprecated in
-our next release.
-
-The plain text BLAST parser has been updated, and should cope with recent
-versions of NCBI BLAST, including the new C++ based version. Nevertheless,
-we (and the NCBI) still recommend using the XML output for parsing.
-
-The Seq (and related UnknownSeq) objects gained upper and lower methods,
-like the string methods of the same name but alphabet aware. The Seq object
-also gained a new ungap method for removing gap characters in an alphabet
-aware manner.
-
-The SeqFeature object now has an extract method, used with the parent
-sequence (as a string or Seq object) to get the region of that sequence
-described by the feature's location information (including the strand and
-any sub-features for a join). As an example, this is useful to get the
-nucleotide sequence for features in GenBank or EMBL files.
-
-SeqRecord objects now support addition, giving a new SeqRecord with the
-combined sequence, all the SeqFeatures, and any common annotation.
-
-Bio.Entrez includes the new (Jan 2010) DTD files from the NCBI for parsing
-MedLine/PubMed data.
-
-The NCBI codon tables have been updated from version 3.4 to 3.9, which adds
-a few extra start codons, and a few new tables (Tables 16, 21, 22 and 23).
-Note that Table 14 which used to be called "Flatworm Mitochondrial" is now
-called "Alternative Flatworm Mitochondrial", and "Flatworm Mitochondrial" is
-now an alias for Table 9 ("Echinoderm Mitochondrial").
-
-The restriction enzyme list in Bio.Restriction has been updated to the
-Nov 2009 release of REBASE.
-
-The Bio.PDB parser and output code has been updated to understand the
-element column in ATOM and HETATM lines (based on patches contributed by
-Hongbo Zhu and Frederik Gwinner). Bio.PDB.PDBList has also been updated
-for recent changes to the PDB FTP site (Paul T. Bathen).
-
-SQLite support was added for BioSQL databases (Brad Chapman), allowing access
-to BioSQL through a lightweight embedded SQL engine. Python 2.5+ includes
-support for SQLite built in, but on Python 2.4 the optional sqlite3 library
-must be installed to use this. We currently use a draft BioSQL on SQLite
-schema, which will be merged with the main BioSQL release for use in other
-projects.
-
-Support for running Biopython under Jython (using the Java Virtual Machine)
-has been much improved thanks to input from Kyle Ellrott. Note that Jython
-does not support C code - this means NumPy isn't available, and nor are a
-selection of Biopython modules (including Bio.Cluster, Bio.PDB and BioSQL).
-Also, currently Jython does not parse DTD files, which means the XML parser
-in Bio.Entrez won't work. However, most of the Biopython modules seem fine
-from testing Jython 2.5.0 and 2.5.1.
-
-(At least) 12 people contributed to this release, including 3 first timers:
-
-Bartek Wilczynski
-Brad Chapman
-Chris Lasher
-Cymon Cox
-Frank Kauff
-Frederik Gwinner (first contribution)
-Hongbo Zhu (first contribution)
-Kyle Ellrott
-Leighton Pritchard
-Michiel de Hoon
-Paul Bathen (first contribution)
-Peter Cock
-
-===================================================================
-
-September 22, 2009: Biopython 1.52 released.
-
-The Population Genetics module now allows the calculation of several tests,
-and statistical estimators via a wrapper to GenePop. Supported are tests for
-Hardy-Weinberg equilibrium, linkage disequilibrium and estimates for various
-F statistics (Cockerham and Wier Fst and Fis, Robertson and Hill Fis, etc),
-null allele frequencies and number of migrants among many others. Isolation
-By Distance (IBD) functionality is also supported.
-
-New helper functions Bio.SeqIO.convert() and Bio.AlignIO.convert() allow an
-easier way to use Biopython for simple file format conversions. Additionally,
-these new functions allow Biopython to offer important file format specific
-optimisations (e.g. FASTQ to FASTA, and interconverting FASTQ variants).
-
-New function Bio.SeqIO.index() allows indexing of most sequence file formats
-(but not alignment file formats), allowing dictionary like random access to
-all the entries in the file as SeqRecord objects, keyed on the record id.
-This is especially useful for very large sequencing files, where all the
-records cannot be held in memory at once. This supplements the more flexible
-but memory demanding Bio.SeqIO.to_dict() function.
-
-Bio.SeqIO can now write "phd" format files (used by PHRED, PHRAD and CONSED),
-allowing interconversion with FASTQ files, or FASTA+QUAL files.
-
-Bio.Emboss.Applications now includes wrappers for the "new" PHYLIP EMBASSY
-package (e.g. fneighbor) which replace the "old" PHYLIP EMBASSY package (e.g.
-eneighbor) whose Biopython wrappers are now obsolete.
-
-See also the DEPRECATED file, as several old deprecated modules have finally
-been removed (e.g. Bio.EUtils which had been replaced by Bio.Entrez).
-
-On a technical note, this will be the last release using CVS for source code
-control. Biopython is moving from CVS to git.
-
-===================================================================
-
-August 17, 2009: Biopython 1.51 released.
-
-FASTQ support in Bio.SeqIO has been improved, extended and sped up since
-Biopython 1.50. Support for Illumina 1.3+ style FASTQ files was added in the
-1.51 beta release. Furthermore, we now follow the interpretation agreed on
-the OBF mailing lists with EMBOSS, BioPerl, BioJava and BioRuby for inter-
-conversion and the valid score range for each FASTQ variant. This means
-Solexa FASTQ scores can be from -5 to 62 (format name "fastq-solexa" in
-Bio.SeqIO), Illumina 1.3+ FASTQ files have PHRED scores from 0 to 62 (format
-name "fastq-illumina"), and Sanger FASTQ files have PHRED scores from 0 to
-93 (format name "fastq" or "fastq-sanger").
-
-Bio.Sequencing.Phd has been updated, for example to cope with missing peak
-positions. The "phd" support in Bio.SeqIO has also been updated to record
-the PHRED qualities (and peak positions) in the SeqRecord's per-letter
-annotation. This allows conversion of PHD files into FASTQ or QUAL which may
-be useful for meta-assembly.
-
-See the notes below for the Biopython 1.50 beta release for changes since
-Biopython 1.49 was released. This includes dropping support for Python 2.3,
-removing our deprecated parsing infrastructure (Martel and Bio.Mindy), and
-hence removing any dependence on mxTextTools.
-
-Additionally, since the beta, a number of small bugs have been fixed, and
-there have been further additions to the test suite and documentation.
-
-===================================================================
-
-June 23, 2009: Biopython 1.51 beta released.
-
-Biopython no longer supports Python 2.3. Currently we support Python 2.4,
-2.5 and 2.6.
-
-Our deprecated parsing infrastructure (Martel and Bio.Mindy) has been
-removed. This means Biopython no longer has any dependence on mxTextTools.
-
-A few cosmetic issues in GenomeDiagram with arrow sigils and labels on
-circular diagrams have been fixed.
-
-Bio.SeqIO will now write GenBank files with the feature table (previously
-omitted), and a couple of obscure errors parsing ambiguous locations have
-been fixed.
-
-Bio.SeqIO can now read and write Illumina 1.3+ style FASTQ files (which use
-PHRED quality scores with an ASCII offset of 64) under the format name
-"fastq-illumina". Biopython 1.50 supported just "fastq" (the original Sanger
-style FASTQ files using PHRED scores with an ASCII offset of 33), and
-"fastq-solexa" (the original Solexa/Illumina FASTQ format variant holding
-Solexa scores with an ASCII offset of 64) .
-
-For parsing the "swiss" format, Bio.SeqIO now uses the new Bio.SwissProt
-parser, making it about twice as fast as in Biopython 1.50, where the older
-now deprecated Bio.SwissProt.SProt was used. There should be no functional
-differences as a result of this change.
-
-Our command line wrapper objects have been updated to support accessing
-parameters via python properties, and setting of parameters at initiation
-with keyword arguments. Additionally Cymon Cox has contributed several new
-multiple alignment wrappers under Bio.Align.Applications.
-
-A few more issues with Biopython's BioSQL support have been fixed (mostly by
-Cymon Cox). In particular, the default PostgreSQL schema includes some rules
-intended for BioPerl support only, which were causing problems in Biopython
-(see BioSQL bug 2839).
-
-There have also been additions to the tutorial, such as the new alignment
-wrappers, with a whole chapter for the SeqRecord object. We have also added
-to the unit test coverage.
-
-===================================================================
-
-April 20, 2009: Biopython 1.50 released.
-
-See the notes below for the Biopython 1.50 beta release for more details,
-but the highlights are:
-* The SeqRecord supports slicing and per-letter-annotation
-* Bio.SeqIO can read and write FASTQ and QUAL files
-* Bio.Seq now has an UnknownSeq object
-* GenomeDiagram has been integrated into Biopython
-* New module Bio.Motif will later replace Bio.AlignAce and Bio.MEME
-* This will be the final release to support Python 2.3
-* This will be the final release with Martel and Bio.Mindy
-
-Since the 1.50 beta release:
-* The NCBI's Entrez EFetch no longer supports rettype="genbank"
- and "gb" (or "gp") should be used instead.
-* Bio.SeqIO now supports "gb" as an alias for "genbank".
-* The Seq object now has string-like startswith and endswith methods
-* Bio.Blast.NCBIXML now has a read function for single record files
-* A few more unit tests were added
-* More documentation
-
-===================================================================
-
-April 3, 2009: Biopython 1.50 beta released.
-
-The SeqRecord object has a new dictionary attribute, letter_annotations,
-which is for holding per-letter-annotation information like sequence
-quality scores or secondary structure predictions. As part of this work,
-the SeqRecord object can now be sliced to give a new SeqRecord covering
-just part of the sequence. This will slice the per-letter-annotation to
-match, and will also include any SeqFeature objects as appropriate.
-
-Bio.SeqIO can now read and write FASTQ and QUAL quality files using PHRED
-quality scores (Sanger style, also used for Roche 454 sequencing), and FASTQ
-files using Solexa/Illumina quality scores.
-
-The Bio.Seq module now has an UnknownSeq object, used for when we have a
-sequence of known length, but unknown content. This is used in parsing
-GenBank and EMBL files where the sequence may not be present (e.g. for a
-contig record) and when parsing QUAL files (which don't have the sequence)
-
-GenomeDiagram by Leighton Pritchard has been integrated into Biopython as
-the Bio.Graphics.GenomeDiagram module If you use this code, please cite the
-publication Pritchard et al. (2006), Bioinformatics 22 616-617. Note that
-like Bio.Graphics, this requires the ReportLab python library.
-
-A new module Bio.Motif has been added, which is intended to replace the
-existing Bio.AlignAce and Bio.MEME modules.
-
-The set of NCBI DTD files included with Bio.Entrez has been updated with the
-revised files the NCBI introduced on 1 Jan 2009.
-
-Minor fix to BioSQL for retrieving references and comments.
-
-Bio.SwissProt has a new faster parser which will be replacing the older
-slower code in Bio.SwissProt.SProt (which we expect to deprecate in the next
-release).
-
-We've also made some changes to our test framework, which is now given a
-whole chapter in the tutorial. This intended to help new developers or
-contributors wanting to improve our unit test coverage.
-
-===================================================================
-
-November 21, 2008: Biopython 1.49 released.
-
-See the notes below for the Biopython 1.49 beta release for more details,
-but the highlights are:
-* Biopython has transitioned from Numeric to NumPy
-* Martel and Bio.Mindy are now deprecated
-
-Since the 1.49 beta release:
-* A couple of NumPy issues have been resolved
-* Further small improvements to BioSQL
-* Bio.PopGen.SimCoal should now work on Windows
-* A few more unit tests were added
-
-===================================================================
-
-November 7, 2008: Biopython 1.49 beta released.
-
-Biopython has transitioned from Numeric to NumPy. Please move to NumPy.
-
-A number of small changes have been made to support Python 2.6 (mostly
-avoiding deprecated functionality), and further small changes have been
-made for better compatibility with Python 3 (this work is still ongoing).
-However, we intend to support Python 2.3 for only a couple more releases.
-
-As part of the Numeric to NumPy migration, Bio.KDTree has been rewritten in
-C instead of C++ which therefore simplifies building Biopython from source.
-
-Martel and Bio.Mindy are now considered to be deprecated, meaning mxTextTools
-is no longer required to use Biopython. See the DEPRECATED file for details
-of other deprecations.
-
-The Seq object now supports more string like methods (gaining find, rfind,
-split, rsplit, strip, lstrip and rstrip in addition to previously supported
-methods like count). Also, biological methods transcribe, back_transcribe
-and translate have been added, joining the pre-existing reverse_complement
-and complement methods. Together these changes allow a more object
-orientated programming style using the Seq object.
-
-The behaviour of the Bio.Seq module's translate function has changed so that
-ambiguous codons which could be a stop codon like "TAN" or "NNN" are now
-translated as "X" (consistent with EMBOSS and BioPerl - Biopython previously
-raised an exception), and a bug was fixed so that invalid codons (like "A-T")
-now raise an exception (previously these were translated as stop codons).
-
-BioSQL had a few bugs fixed, and can now optionally fetch the NCBI taxonomy
-on demand when loading sequences (via Bio.Entrez) allowing you to populate
-the taxon/taxon_name tables gradually. This has been tested in combination
-with the BioSQL load_ncbi_taxonomy.pl script used to populate or update the
-taxon/taxon_name tables. BioSQL should also now work with the psycopg2
-driver for PostgreSQL as well as the older psycopg driver.
-
-The PDB and PopGen sections of the Tutorial have been promoted to full
-chapters, and a new chapter has been added on supervised learning methods
-like logistic regression. The "Cookbook" section now has a few graphical
-examples using Biopython to calculate sequence properties, and matplotlib
-(pylab) to plot them.
-
-The input functions in Bio.SeqIO and Bio.AlignIO now accept an optional
-argument to specify the expected sequence alphabet.
-
-The somewhat quirky unit test GUI has been removed, the unit tests are now
-run via the command line by default.
-
-===================================================================
-
-September 8, 2008: Biopython 1.48 released.
-
-The SeqRecord and Alignment objects have a new method to format the object as
-a string in a requested file format (handled via Bio.SeqIO and Bio.AlignIO).
-
-Additional file formats supported in Bio.SeqIO and Bio.AlignIO:
-- reading and writing "tab" format (simple tab separated)
-- writing "nexus" files.
-- reading "pir" files (NBRF/PIR)
-- basic support for writing "genbank" files (GenBank plain text)
-
-Fixed some problems reading Clustal alignments (introduced in Biopython 1.46
-when consolidating Bio.AlignIO and Bio.Clustalw).
-
-Updates to the Bio.Sequencing parsers.
-
-Bio.PubMed and the online code in Bio.GenBank are now considered obsolete,
-and we intend to deprecate them after the next release. For accessing PubMed
-and GenBank, please use Bio.Entrez instead.
-
-Bio.Fasta is now considered to be obsolete, please use Bio.SeqIO instead. We
-do intend to deprecate this module eventually, however, for several years
-this was the primary FASTA parsing module in Biopython and is likely to be in
-use in many existing scripts.
-
-Martel and Bio.Mindy are now considered to be obsolete, and are likely to be
-deprecated and removed in a future release.
-
-In addition a number of other modules have been deprecated, including:
-Bio.MetaTool, Bio.EUtils, Bio.Saf, Bio.NBRF, and Bio.IntelliGenetics
-See the DEPRECATED file for full details.
-
-===================================================================
-
-July 5, 2008: Biopython 1.47 released.
-
-Improved handling of ambiguous nucleotides in Bio.Seq.Translate().
-Better handling of stop codons in the alphabet from a translation.
-Fixed some codon tables (problem introduced in Biopython 1.46).
-
-Updated Nexus file handling.
-
-Fixed a bug in Bio.Cluster potentially causing segfaults in the
-single-linkage hierarchical clustering library.
-
-Added some DTDs to be able to parse EFetch results from the
-nucleotide database.
-
-Added IntelliGenetics/MASE parsing to Bio.SeqIO (as the "ig" format).
-
-===================================================================
-
-June 29, 2008: Biopython 1.46 released.
-
-Bio.Entrez now has several Entrez format XML parsers, and a chapter
-in the tutorial.
-
-Addition of new Bio.AlignIO module for working with sequence alignments
-in the style introduced with Bio.SeqIO in recent releases, with a whole
-chapter in the tutorial.
-
-A problem parsing certain EMBL files was fixed.
-
-Several minor fixes were made to the NCBI BLAST XML parser, including
-support for the online version 2.2.18+ introduced in May 2008.
-
-The NCBIWWW.qblast() function now allows other programs (blastx, tblastn,
-tblastx) in addition to just blastn and blastp.
-
-Bio.EUtils has been updated to explicitly enforce the NCBI's rule of at
-most one query every 3 seconds, rather than assuming the user would obey
-this.
-
-Iterators in Bio.Medline, Bio.SCOP, Bio.Prosite, Bio.Prosite.Prodoc,
-Bio.SwissProt, and others to make them more generally usable.
-
-Phylip export added to Bio.Nexus.
-
-Improved handling of ambiguous nucleotides and stop codons in
-Bio.Seq.Translate (plus introduced a regression fixed in Biopython 1.47).
-
-===================================================================
-
-March 22, 2008: Biopython 1.45 released.
-
-The Seq and MutableSeq objects act more like python strings, in particular
-str(object) now returns the full sequence as a plain string. The existing
-tostring() method is preserved for backwards compatibility.
-
-BioSQL has had some bugs fixed, and has an additional unit test which loads
-records into a database using Bio.SeqIO and then checks the records can be
-retrieved correctly. The DBSeq and DBSeqRecord classes now subclass the
-Seq and SeqRecord classes, which provides more functionality.
-
-The modules under Bio.WWW are being deprecated.
-Functionality in Bio.WWW.NCBI, Bio.WWW.SCOP, Bio.WWW.InterPro and
-Bio.WWW.ExPASy is now available from Bio.Entrez, Bio.SCOP, Bio.InterPro and
-Bio.ExPASy instead. Bio.Entrez was used to fix a nasty bug in Bio.GenBank.
-
-Tiago Antao has included more functionality in the Population Genetics
-module, Bio.PopGen.
-
-The Bio.Cluster module has been updated to be more consistent with other
-Biopython code.
-
-The tutorial has been updated, including devoting a whole chapter to
-Swiss-Prot, Prosite, Prodoc, and ExPASy. There is also a new chapter on
-Bio.Entrez.
-
-Bio.biblio was deprecated.
-
-===================================================================
-
-October 28, 2007: Biopython 1.44 released.
-
-NOTE: This release includes some rather drastic code changes, which were
-necessary to get Biopython to work with the new release of mxTextTools.
-
-The (reverse)complement functions in Bio.Seq support ambiguous nucleotides.
-
-Bio.Kabat, which was previously deprecated, is now removed from Biopython.
-
-Bio.MarkupEditor was deprecated, as it does not appear to have any users.
-
-Bio.Blast.NCBI.qblast() updated with more URL options, thanks to a patch
-from Chang Soon Ong.
-
-Several fixes to the Blast parser.
-
-The deprecated Bio.Blast.NCBIWWW functions blast and blasturl were removed.
-
-The standalone Blast functions blastall, blastpgp now create XML output by
-default.
-
-Bio.SeqIO.FASTA and Bio.SeqIO.generic have been deprecated in favour of
-the new Bio.SeqIO module.
-
-Bio.FormatIO has been removed (a gradual deprecation was not possible).
-Please look at Bio.SeqIO for sequence input/output instead.
-
-Fix for a bug in Bio.Cluster, which caused kcluster() to hang on some platforms.
-
-Bio.expressions has been deprecated.
-
-Bio.SeqUtils.CheckSum created, including new methods from Sebastian Bassi,
-and functions crc32 and crc64 which were moved from Bio/crc.py.
-Bio.crc is now deprecated. Bio.lcc was updated and moved to Bio.SeqUtils.lcc.
-
-Bio.SwissProt parser updated to cope with recent file format updates.
-
-Bio.Fasta, Bio.KEGG and Bio.Geo updated to pure python parsers which
-don't rely on Martel.
-
-Numerous fixes in the Genbank parser.
-
-Several fixes in Bio.Nexus.
-
-Bio.MultiProc and Bio.Medline.NLMMedlineXML were deprecating, as they failed
-on some platforms, and seemed to have no users. Deprecated concurrent
-behavior in Bio.config.DBRegistry and timeouts in Bio.dbdefs.swissprot,
-which relies on Bio.MultiProc.
-
-Tiago Antao has started work on a Population Genetics module, Bio.PopGen
-
-Updates to the tutorial, including giving Bio.Seq and Bio.SeqIO a whole
-chapter each.
-
-===================================================================
-
-March 17, 2007: Biopython 1.43 released.
-
-New Bio.SeqIO module for reading and writing biological sequence files
-in various formats, based on SeqRecord objects. This includes a new fasta
-parser which is much faster than Bio.Fasta, particularly for larger files.
-Easier to use, too.
-
-Various improvements in Bio.SeqRecord.
-
-Running Blast using Bio.Blast.NCBIStandalone now generates output in XML
-format by default.
-The new function Bio.Blast.NCBIXML.parse can parse multiple Blast records
-in XML format.
-
-Bio.Cluster no longer uses ranlib, but uses its own random number generator
-instead. Some modifications to make Bio.Cluster more compatible with the new
-NumPy (we're not quite there yet though).
-
-New Bio.UniGene parser.
-
-Numerous improvements in Bio.PDB.
-
-Bug fixes in Bio.SwissProt, BioSQL, Bio.Nexus, and other modules.
-
-Faster parsing of large GenBank files.
-
-New EMBL parser under Bio.GenBank and also integrated into (new) Bio.SeqIO
-
-Compilation of KDTree (C++ code) is optional (setup.py asks the user if it
-should be compiled). For the Windows installer, C++ code is now included.
-
-Nominating Bio.Kabat for removal.
-
-Believe it or not, even the documentation was updated.
-
-===================================================================
-
-July 16, 2006: Biopython 1.42 released.
-
-Bio.GenBank: New parser by Peter, which doesn't rely on Martel.
-
-Numerous updates in Bio.Nexus and Bio.Geo.
-
-Bio.Cluster became (somewhat) object-oriented.
-
-Lots of bug fixes, and updates to the documentation.
-
-===================================================================
-
-October 28, 2005: Biopython 1.41 released.
-Major changes:
-
-NEW: Bio.MEME -- thanks to Jason Hackney
-
-Added transcribe, translate, and reverse_complement functions to Bio.Seq that
-work both on Seq objects and plain strings.
-
-Major code optimization in cpairwise2module.
-
-CompareACE support added to AlignAce.
-
-Updates to Blast parsers in Bio.Blast, in particular use of the XML parser
-in NCBIXML contributed by Bertrand Frottier, and the BLAT parser by Yair
-Benita.
-
-Pairwise single-linkage hierarchical clustering in Bio.Cluster became much
-faster and memory-efficient, allowing clustering of large data sets.
-
-Bio.Emboss: Added command lines for einverted and palindrome.
-
-Bio.Nexus: Added support for StringIO objects.
-
-Numerous updates in Bio.PDB.
-
-Lots of fixes in the documentation.
-
-March 29, 2005: MEME parser added. Thanks to Jason Hackney
-
-===================================================================
-
-Feb 18, 2005: Biopython 1.40 beta
-Major Changes since v1.30. For a full list of changes please see the CVS
-
-IMPORTANT: Biopython now works with Python version >= 2.3
-
-NEW: Bio.Nexus -- thanks to Frank Kauff
-Bio.Nexus is a Nexus file parser. Nexus is a common format for phylogenetic trees.
-
-NEW: CAPS module -- Thanks to Jonathan Taylor
-
-NEW: Restriction enzyme package contributed by Frederic Sohm. This includes classes for
-manipulating enzymes, updating from Rebase, as well as documentation and Tests.
-CHANGED: Bio.PDB -- thanks to Thomas Hamelryck
-Added atom serial number.
-Epydoc style documentation.
-Added secondary structure support (through DSSP)
-Added Accessible Surface Area support (through DSSP)
-Added Residue Depth support (through MSMS)
-Added Half Sphere Exposure.
-Added Fragment classification of the protein backbone (see Kolodny et al.,
-JMB, 2002)
-Corrected problem on Windows with PDBList (thanks to Matt Dimmic)
-Added StructureAlignment module to superimpose structures based on a FASTA
-sequence alignment.
-Various additions to Polypeptide.
-Various bug corrections in Vector.
-Lots of smaller bug corrections and additional features
-
-CHANGED: MutableSeq -- thanks to Michiel De Hoon
-Added the functions 'complement' and 'reverse_complement' to Bio.Seq's Seq and
-MutableSeq objects. Similar functions previous existed in various locations in
-BioPython:
-- forward_complement, reverse_complement in Bio.GFF.easy
-- complement, antiparallel in Bio.SeqUtils
-These functions have now been deprecated, and will generate a DeprecationWarning
-when used.
-The functions complement and reverse_complement, when applied to a Seq object,
-will return a new Seq object. The same function applied to a MutableSeq object
-will modify the MutableSeq object itself, and don't return anything.
-
-
-===================================================================
-
-May 14, 2004: Biopython 1.30
- Affy package added for dealing with Affymetrix cel files -- thanks to Harry
- Zuzan.
- Added code for parsing Blast XML output -- thanks to Bertrand Frottier.
- Added code for parsing Compass output -- thanks to James Casbon.
- New melting temperature calculation module -- thanks to Sebastian Bassi.
- Added lowess function for non-parameteric regression -- thanks to Michiel.
- Reduced protein alphabet supported added -- thanks to Iddo.
-
- Added documentation for Logistic Regression and Bio.PDB -- thanks to Michiel
- and Thomas.
- Documentation added for converting between file formats.
- Updates to install documentation for non-root users -- thanks to Jakob
- Fredslund.
- epydoc now used for automatic generation of documentation.
-
- Fasta parser updated to use Martel for parsing and indexing, allowing better
- speed and dealing with large data files.
- Updated to Registry code. Now 'from Bio import db' gives you a number of new
- retrieval options, including embl, fasta, genbak, interpro, prodoc and swissprot.
- GenBank parser uses new Martel format. GenBank retrieval now uses EUtils instead
- of the old non-working entrez scripts. GenBank indexing uses standard Mindy
- indexing. Fix for valueless qualifiers in feature keys -- thanks to Leighton
- Pritchard.
- Numerous updated to Bio.PDB modules -- thanks to Thomas. PDB can now parse headers
- -- thanks to Kristian Rother.
- Updates to the Ace parser -- thanks to Frank Kauff and Leighton Pritchard.
-
- Added pgdb (PyGreSQL) support to BioSQL -- thanks to Marc Colosimo.
- Fix problems with using py2exe and Biopython -- thanks to Michael Cariaso.
- PSIBlast parser fixes -- thanks to Jer-Yee John Chuang and James Casbon.
- Fix to NCBIWWW retrieval so that HTML results are returned correctly.
- Fix to Clustalw to handle question marks in title names -- thanks to Ashleigh
- Smythe.
- Fix to NBRF parsing to it accepts files produced by Clustalw -- thanks to
- Ashleigh Smythe.
- Fixes to the Enyzme module -- thanks to Marc Colosimo.
- Fix for bugs in SeqUtils -- thanks to Frank Kauff.
- Fix for optional hsps in ncbiblast Martel format -- thanks to Heiko.
- Fix to Fasta parsing to allow # comment lines -- thanks to Karl Diedrich.
- Updates to the C clustering library -- thanks to Michiel.
- Fixes for breakage in the SCOP module and addition of regression tests to
- framework -- thanks to Gavin.
- Various fixes to Bio.Wise -- thanks to Michael.
- Fix for bug in FastaReader -- thanks to Micheal.
- Fix EUtils bug where efetch would only return 500 sequences.
- Updates for Emboss commandlines, water and tranalign.
- Fixes to the FormatIO system of file conversion.
-
- C++ code (KDTree, Affy) now compiled by default on most platforms -- thanks to
- Michael for some nice distutils hacks and many people for testing.
- Deprecated Bio.sequtils -- use Bio.SeqUtils instead.
- Deprecated Bio.SVM -- use libsvm instead.
- Deprecated Bio.kMeans and Bio.xkMeans -- use Bio.cluster instead.
- Deprecated RecordFile -- doesn't appear to be finished code.
-
-
-Feb 16, 2004: Biopython 1.24
- New parsers for Phred and Ace format files -- thanks to Frank Kauff
- New Code for dealing with NMR data -- thanks to Bob Bussell
- New SeqUtils modules for codon usage, isoelectric points and other
- protein properties -- thanks to Yair Benita
- New code for dealing with Wise contributed by Michael
- EZ-Retrieve sequence retrieval now supported thanks to Jeff
- Bio.Cluster updated along with documentation by Michiel
- BioSQL fixed so it now works with the current SQL schema -- thanks to Yves
- Bastide for patches
- Patches to Bio/__init__ to make it compatible with py2exe -- thanks to
- Leighton Pritchard
- Added __iter__ to all Biopython Iterators to make them Python 2.2 compatible
- Fixes to NCBIWWW for retrieving from NCBI -- thanks to Chris Wroe
- Retrieval of multiple alignment objects from BLAST records -- thanks to
- James Casbon
- Fixes to GenBank format for new tags by Peter
- Parsing fixes in clustalw parsed -- thanks to Greg Singer and Iddo
- Fasta Indexes can have a specified filename -- thanks to Chunlei Wu
- Fix to Prosite parser -- thanks to Mike Liang
- Fix in GenBank parsing -- mRNAs now get strand information
-
-
-Oct 18, 2003: Biopython 1.23
- Fixed distribution of files in Bio/Cluster
- Now distributing Bio/KDTree/_KDTree.swig.C
- minor updates in installation code
- added mmCIF support for PDB files
-
-Oct 9, 2003: Biopython 1.22
- Added Peter Slicker's patches for speeding up modules under Python 2.3
- Fixed Martel installation.
- Does not install Bio.Cluster without Numeric.
- Distribute EUtils DTDs.
- Yves Bastide patched NCBIStandalone.Iterator to be Python 2.0 iterator
- Ashleigh's string coersion fixes in Clustalw.
- Yair Benita added precision to the protein molecular weights.
- Bartek updated AlignAce.Parser and added Motif.sim method
- bug fixes in Michiel De Hoon's clustering library
- Iddo's bug fixes to Bio.Enzyme and new RecordConsumer
- Guido Draheim added patches for fixing import path to xbb scripts
- regression tests updated to be Python 2.3 compatible
- GenBank.NCBIDictionary is smarter about guessing the format
-
-Jul 28, 2003: Biopython 1.21
- Martel added back into the released package
- new AlignACE module by Bartek Wilczynski
- Andreas Kuntzagk fix for GenBank Iterator on empty files
-
-Jul 27, 2003: Biopython 1.20
- added Andrew Dalke's EUtils library
- added Michiel de Hoon's gene expression analysis package
- updates to setup code, now smarter about dependencies
- updates to test suite, now smarter about code that is imported
- Michael Hoffman's fixes to DocSQL
- syntax fixes in triemodule.c to compile on SGI, Python 2.1 compatible
- updates in NCBIStandalone, short query error
- Sebastian Bassi submitted code to calculate LCC complexity
- Greg Kettler's NCBIStandalone fix for long query lengths
- slew of miscellaneous fixes from George Paci
- miscellaneous cleanups and updates from Andreas Kuntzagk
- Peter Bienstman's fixes to Genbank code -- now parses whole database
- Kayte Lindner's LocusLink package
- miscellaneous speedups and code cleanup in ParserSupport by Brad Chapman
- miscellaneous BLAST fixes and updates
- Iddo added new code to parse BLAST table output format
- Karl Diedrich's patch to read T_Coffee files
- Larry Heisler's fix for primer3 output
- Bio.Medline now uses proper iterator objects
- copen now handles SIGTERM correctly
- small bugfixes and updates in Thomas Hamelryck's PDB package
- bugfixes and updates to SeqIO.FASTA reader
- updates to Registry system, conforms to 2003 hackathon OBDA spec
- Yu Huang patch to support tblastn in wublast expression
-
-Dec 17, 2002: Biopython 1.10
- Python requirement bumped up to 2.2
- hierarchy reorg, many things moved upwards into Bio namespace
- pairwise2 replaces fastpairwise and pairwise
- removed deprecated Sequence.py package
- minor bug fix in File.SGMLStripper
- added Scripts/debug/debug_blast_parser.py to diagnose blast parsing errors
- IPI supported by SwissProt/SProt.py parser
- large speedup for kmeans
- new registry framework for generic access to databases and parsers
- small bug fix in stringfns.split
- scripts that access NCBI moved over to new EUtils system
- new crc module
- biblio.py supports the EBI Bibliographic database
- new CDD parser
- new Ndb parser
- new ECell parser
- new Geo parser
- access to GFF databases
- new KDTree data structure
- new LocusLink parser
- new MarkovModel algorithm
- new Saf parser
- miscellaneous sequence handling functions in sequtils
- new SVDSuperimpose algorithm
-
-
-Dec 18, 2001: Biopython1.00a4
- minor bug fix in NCBIStandalone.blastall
- optimization in dynamic programming code
- new modules for logistic regression and maximum entropy
- minor bug fix in ParserSupport
- minor bug fixes in SCOP package
- minor updates in the kMeans cluster selection code
- minor bug fixes in SubsMat code
- support for XML-formatted MEDLINE files
- added MultiProc.run to simplify splitting code across processors
- listfns.items now supports lists with unhashable items
- new data type for pathways
- new support for intelligenetics format
- new support for metatool format
- new support for NBRF format
- new support for generalized launching of applications
- new support for genetic algorithms
- minor bug fixes in GenBank parsing
- new support for Primer in the Emboss package
- new support for chromosome graphics
- new support for HMMs
- new support for NeuralNetwork
- slew of Martel fixes (see Martel docs)
-
-Sept 3, 2001: Biopython1.00a3
- added package to support KEGG
- added sequtils module for computations on sequences
- added pairwise sequence alignment algorithm
- major bug fixes in UndoHandle
- format updates in PubMed
- Tk interface to kMeans clustering
-
-July 5, 2001: Biopython1.00a2
- deprecated old regression testing frameworks
- deprecated Sequence.py
- Swiss-Prot parser bug fixes
- GenBank parser bug fixes
- Can now output GenBank format
- can now download many sequences at a time from GenBank
- kMeans clustering algorithm
- Kabat format now supported
- FSSP format now supported
- more functionality for alignment code
- SubsMat bug fixes and updates
- fixed memory leak in listfns bug fixes
- Martel bundled and part of the install procedure
- Medline.Parser bug fixes
- PubMed.download_many handles broken IDs better
-
-
-Mar 3, 2001: Biopython 1.00a1
- Refactoring of modules. X/X.py moved to X/__init__.py.
- Can search sequences for Prosite patterns at ExPASy
- Can do BLAST searches against stable URL at NCBI
- Prosite Pattern bug fixes
- GenBank parser
- Complete Seq and SeqFeatures framework
- distutils cleanup
- compile warning cleanups
- support for UniGene
- code for working with substitution matrices
- Tools.MultiProc package for rudimentary multiprocessing stuff
-
-
-Nov 10, 2000: Biopython 0.90d04
- Added support for multiple alignments, ClustalW
- BLAST updates, bug fixes, and BlastErrorParser
- Fixes for PSI-BLAST in master-slave mode
- Minor update in stringfns, split separators can be negated
- Added download_many function to PubMed
- xbbtools updates
- Prodoc parser now accepts a copyright at the end of a record
- Swiss-Prot parser now handles taxonomy ID tag
-
-
-Sept 6, 2000: Biopython 0.90d03
- Blast updates:
- - bug fixes in NCBIStandalone, NCBIWWW
- - some __str__ methods in Record.py implemented (incomplete)
- Tests
- - new BLAST regression tests
- - prosite tests fixed
- New parsers for Rebase, Gobase
- pure python implementation of C-based tools
- Thomas Sicheritz-Ponten's xbbtools
- can now generate documentation from docstrings using HappyDoc
-
-
-Aug17-18, 2000: Bioinformatics Open Source Conference 2000
-We had a very good Birds-of-a-Feather meeting:
-http://www.biopython.org/pipermail/biopython/2000-August/000360.html
-
-
-Aug 2, 2000: Biopython 0.90d02 is released.
- Blast updates:
- - now works with v2.0.14
- - HSP.identities and HSP.positives now tuples
- - HSP.gaps added
- SCOP updates:
- - Lin.Iterator now works with release 50
- Starting a tutorial
- New regression tests for Prodoc
-
-July 6, 2000: Biopython 0.90d01 is released.
-
-February 8, 2000: Anonymous CVS made available.
-
-
-August 1999
-Biopython project founded.
-
-Call for Participation sent out to relevant mailing lists, news
-groups.
-
-The Biopython Project (http://www.biopython.org/) is a new open
-collaborative effort to develop freely available Python libraries and
-applications that address the needs of current and future work in
-bioinformatics, including sequence analysis, structural biology,
-pathways, expression data, etc. When available, the source code will
-be released as open source (http://www.biopython.org/License.shtml)
-under terms similar to Python.
-
-This is a Call for Participation for interested people to join the
-project. We are hoping to attract people from a diverse set of
-backgrounds to help with code development, site maintenance,
-scientific discussion, etc. This project is open to everyone. If
-you're interested, please visit the web page, join the biopython
-mailing list, and let us know what you think!
-
-Jeffrey Chang <jchang at smi.stanford.edu>
-Andrew Dalke <dalke at bioreason.com>
diff --git a/NEWS b/NEWS
new file mode 120000
index 0000000..2a06976
--- /dev/null
+++ b/NEWS
@@ -0,0 +1 @@
+NEWS.rst
\ No newline at end of file
diff --git a/NEWS b/NEWS.rst
similarity index 67%
copy from NEWS
copy to NEWS.rst
index 9338cbd..919d589 100644
--- a/NEWS
+++ b/NEWS.rst
@@ -8,9 +8,217 @@ http://news.open-bio.org/news/category/obf-projects/biopython/
The latest news is at the top of this file.
-===================================================================
+10 July 2017: Biopython 1.70
+============================
-(In progress, not yet released) Biopython 1.68
+This release of Biopython supports Python 2.7, 3.4, 3.5 and 3.6 (we have now
+dropped support for Python 3.3). It has also been tested on PyPy v5.7,
+PyPy3.5 v5.8 beta, and Jython 2.7 (although support for Jython is deprecated)..
+
+Biopython now has a new logo, contributed by Patrick Kunzmann. Drawing on our
+original logo and the current Python logo, this shows a yellow and blue snake
+forming a double helix.
+
+For installation Biopython now assumes ``setuptools`` is present, and takes
+advantage of this to declare we require NumPy at install time (except under
+Jython). This should help ensure ``pip install biopython`` works smoothly.
+
+Bio.AlignIO now supports Mauve's eXtended Multi-FastA (XMFA) file format
+under the format name "mauve" (contributed by Eric Rasche).
+
+Bio.ExPASy was updated to fix fetching PROSITE and PRODOC records, and return
+text-mode handles for use under Python 3.
+
+Two new arguments for reading and writing blast-xml files have been added
+to the Bio.SearchIO functions (read/parse and write, respectively). They
+are 'use_raw_hit_ids' and 'use_raw_query_ids'. Check out the relevant
+SearchIO.BlastIO documentation for a complete description of what these
+arguments do.
+
+Bio.motifs was updated to support changes in MEME v4.11.4 output.
+
+The Bio.Seq sequence objects now have a ``.count_overlap()`` method to
+supplement the Python string like non-overlap based ``.count()`` method.
+
+The Bio.SeqFeature location objects can now be compared for equality.
+
+Bio.Phylo.draw_graphviz is now deprecated. We recommend using Bio.Phylo.draw
+instead, or another library or program if more advanced plotting functionality
+is needed.
+
+In Bio.Phylo.TreeConstruction, the DistanceMatrix class (previously
+_DistanceMatrix) has a new method 'format_phylip' to write Phylip-compatible
+distance matrix files (contributed by Jordan Willis).
+
+Additionally, a number of small bugs have been fixed with further additions
+to the test suite, and there has been further work to follow the Python PEP8,
+PEP257 and best practice standard coding style.
+
+Many thanks to the Biopython developers and community for making this release
+possible, especially the following contributors:
+
+- Aaron Kitzmiller (first contribution)
+- Adil Iqbal (first contribution)
+- Allis Tauri
+- Andrew Guy
+- Ariel Aptekmann (first contribution)
+- Bertrand Caron (first contribution)
+- Chris Rands
+- Connor T. Skennerton
+- Eric Rasche
+- Eric Talevich
+- Francesco Gastaldello
+- François Coste (first contribution)
+- Frederic Sapet (first contribution)
+- Jimmy O'Donnell (first contribution)
+- Jared Andrews (first contribution)
+- John Kern (first contribution)
+- Jordan Willis (first contribution)
+- João Rodrigues
+- Kai Blin
+- Markus Piotrowski
+- Mateusz Korycinski (first contribution)
+- Maximilian Greil
+- Michiel de Hoon
+- morrme (first contribution)
+- Noam Kremen (first contribution)
+- Patrick Kunzmann
+- Peter Cock
+- Rasmus Fonseca (first contribution)
+- Rodrigo Dorantes-Gilardi (first contribution)
+- Sacha Laurent (first contribution)
+- Sourav Singh
+- Ted Cybulski (first contribution)
+- Tiago Antao
+- Wibowo 'Bow' Arindrarto
+- Zheng Ruan
+
+
+6 April 2017: Biopython 1.69
+============================
+
+This release of Biopython supports Python 2.7, 3.3, 3.4, 3.5 and 3.6 (we have
+now dropped support for Python 2.6). It has also been tested on PyPy v5.7,
+PyPy3.5 v5.7 beta, and Jython 2.7.
+
+We have started to dual-license Biopython under both our original liberal
+"Biopython License Agreement", and the very similar but more commonly used
+"3-Clause BSD License". In this release a small number of the Python files
+are explicitly available under either license, but most of the code remains
+under the "Biopython License Agreement" only. See the ``LICENSE.rst`` file
+for more details.
+
+We now expect and take advantage of NumPy under PyPy, and compile most of the
+Biopython C code modules as well.
+
+Bio.AlignIO now supports the UCSC Multiple Alignment Format (MAF) under the
+format name "maf", using new module Bio.AlignIO.MafIO which also offers
+indexed access to these potentially large files using SQLite3 (contributed by
+Andrew Sczesnak, with additional refinements from Adam Novak).
+
+Bio.SearchIO.AbiIO has been extended to support parsing FSA files. The
+underlying format (ABIF) remains the same as AB1 files and so the string
+'abif' is the expected format argument in the main SeqIO functions. AbiIO
+determines whether the file is AB1 or FSA based on the presence of specific
+tags.
+
+The Uniprot parser is now able to parse "submittedName" elements in XML files.
+
+The NEXUS parser handling of internal node comments has been improved, which
+should help if working with tools like the BEAST TreeAnnotator. Slashes are
+now also allowed in identifiers.
+
+New parser for ExPASy Cellosaurus, a cell line database, cell line catalogue,
+and cell line ontology (contributed by Steve Marshall).
+
+For consistency the Bio.Seq module now offers a complement function (already
+available as a method on the Seq and MutableSeq objects).
+
+The SeqFeature object's qualifiers is now an explicitly ordered dictionary
+(note that as of Python 3.6 the Python dict is ordered by default anyway).
+This helps reproduce GenBank/EMBL files on input/output.
+
+The Bio.SeqIO UniProt-XML parser was updated to cope with features with
+unknown locations which can be found in mass spec data.
+
+The Bio.SeqIO GenBank, EMBL, and IMGT parsers now record the molecule type
+from the LOCUS/ID line explicitly in the record.annotations dictionary.
+The Bio.SeqIO EMBL parser was updated to cope with more variants seen in
+patent data files, and the related IMGT parser was updated to cope with
+IPD-IMGT/HLA database files after release v3.16.0 when their ID line changed.
+The GenBank output now uses colon space to match current NCBI DBLINK lines.
+
+The Bio.Affy package supports Affymetrix version 4 of the CEL file format,
+in addition to version 3.
+
+The restriction enzyme list in Bio.Restriction has been updated to the
+February 2017 release of REBASE.
+
+Bio.PDB.PDBList now can download PDBx/mmCif (new default), PDB (old default),
+PDBML/XML and mmtf format protein structures. This is inline with the RCSB
+recommendation to use PDBx/mmCif and deprecate the PDB file format. Biopython
+already has support for parsing mmCif files.
+
+Additionally, a number of small bugs have been fixed with further additions
+to the test suite, and there has been further work to follow the Python PEP8,
+PEP257 and best practice standard coding style.
+
+Many thanks to the Biopython developers and community for making this release
+possible, especially the following contributors:
+
+- Aaron Rosenfeld
+- Adam Kurkiewicz (first contribution)
+- Adam Novak (first contribution)
+- Adrian Altenhoff (first contribution)
+- Allis Tauri (first contribution)
+- Andrew Dalke
+- Andrew Guy (first contribution)
+- Andrew Sczesnak (first contribution)
+- Ben Fulton
+- Bernhard Thiel (first contribution)
+- Bertrand Néron
+- Blaise Li (first contribution)
+- Brandon Carter (first contribution)
+- Brandon Invergo
+- Carlos Pena
+- Carlos Ríos
+- Chris Warth
+- Emmanuel Noutahi
+- Foen Peng (first contribution)
+- Francesco Gastaldello (first contribution)
+- Francisco Pina-Martins (first contribution)
+- Hector Martinez (first contribution)
+- Jacek Śmietański
+- Jack Twilley (first contribution)
+- Jeroen Van Goey (first contribution)
+- Joshua Meyers (first contribution)
+- Kurt Graff (first contribution)
+- Lenna Peterson
+- Leonhard Heizinger (first contribution)
+- Marcin Magnus (first contribution)
+- Markus Piotrowski
+- Maximilian Greil (first contribution)
+- Michał J. Gajda (first contribution)
+- Michiel de Hoon
+- Milind Luthra (first contribution)
+- Oscar G. Garcia (first contribution)
+- Owen Solberg
+- Peter Cock
+- Richard Neher (first contribution)
+- Sebastian Bassi
+- Sourav Singh (first contribution)
+- Spencer Bliven (first contribution)
+- Stefans Mezulis
+- Steve Bond
+- Steve Marshall (first contribution)
+- Uri Laserson
+- Veronika Berman (first contribution)
+- Vincent Davis
+- Wibowo 'Bow' Arindrarto
+
+
+25 August 2016: Biopython 1.68
+==============================
This release of Biopython supports Python 2.6, 2.7, 3.3, 3.4 and 3.5, but
this will be our final release to run on Python 2.6. It has also been tested
@@ -50,23 +258,25 @@ and best practice standard coding style.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Anthony Bradley (first contribution)
-Carlos Pena
-Connor T. Skennerton
-Iddo Friedberg
-Kai Blin
-Kristian Davidsen (first contribution)
-Markus Piotrowski
-Olivier Morelle (first contribution)
-Peter Cock
-Tiago Antao
-Travis Wrightsman
-Uwe Schmitt (first contribution)
-Xiaoyu Zhuo (first contribution)
-
-===================================================================
+- Anthony Bradley (first contribution)
+- Ben Fulton
+- Carlos Pena
+- Connor T. Skennerton
+- Iddo Friedberg
+- Kai Blin
+- Kristian Davidsen (first contribution)
+- Markus Piotrowski
+- Olivier Morelle (first contribution)
+- Peter Cock
+- Stefans Mezulis (first contribution)
+- Tiago Antao
+- Travis Wrightsman
+- Uwe Schmitt (first contribution)
+- Xiaoyu Zhuo (first contribution)
+
8 June 2016: Biopython 1.67
+===========================
This release of Biopython supports Python 2.6, 2.7, 3.3, 3.4 and 3.5, but
support for Python 2.6 is considered to be deprecated. It has also been
@@ -131,42 +341,42 @@ the reStructuredText markup style.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Aaron Rosenfeld (first contribution)
-Anders Pitman (first contribution)
-Barbara Mühlemann (first contribution)
-Ben Fulton
-Ben Woodcroft (first contribution)
-Brandon Invergo
-Brian Osborne (first contribution)
-Carlos Pena
-Chaitanya Gupta (first contribution)
-Chris Warth (first contribution)
-Christiam Camacho (first contribution)
-Connor T. Skennerton
-David Koppstein (first contribution)
-Eric Talevich
-Jacek Śmietański (first contribution)
-João D Ferreira (first contribution)
-João Rodrigues
-Joe Cora (first contribution)
-Kai Blin
-Leighton Pritchard
-Lenna Peterson
-Marco Galardini (first contribution)
-Markus Piotrowski
-Matt Ruffalo (first contribution)
-Matteo Sticco (first contribution)
-Nader Morshed (first contribution)
-Owen Solberg (first contribution)
-Peter Cock
-Steve Bond (first contribution)
-Terry Jones (first contribution)
-Vincent Davis
-Zheng Ruan
-
-===================================================================
+- Aaron Rosenfeld (first contribution)
+- Anders Pitman (first contribution)
+- Barbara Mühlemann (first contribution)
+- Ben Fulton
+- Ben Woodcroft (first contribution)
+- Brandon Invergo
+- Brian Osborne (first contribution)
+- Carlos Pena
+- Chaitanya Gupta (first contribution)
+- Chris Warth (first contribution)
+- Christiam Camacho (first contribution)
+- Connor T. Skennerton
+- David Koppstein (first contribution)
+- Eric Talevich
+- Jacek Śmietański (first contribution)
+- João D Ferreira (first contribution)
+- João Rodrigues
+- Joe Cora (first contribution)
+- Kai Blin
+- Leighton Pritchard
+- Lenna Peterson
+- Marco Galardini (first contribution)
+- Markus Piotrowski
+- Matt Ruffalo (first contribution)
+- Matteo Sticco (first contribution)
+- Nader Morshed (first contribution)
+- Owen Solberg (first contribution)
+- Peter Cock
+- Steve Bond (first contribution)
+- Terry Jones (first contribution)
+- Vincent Davis
+- Zheng Ruan
+
21 October 2015: Biopython 1.66
+===============================
This release of Biopython supports Python 2.6, 2.7, 3.3, 3.4 and 3.5, but
support for Python 2.6 is considered to be deprecated. It has also been
@@ -203,43 +413,43 @@ Python PEP8 standard coding style.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Alan Medlar (first contribution)
-Anthony Mathelier (first contribution)
-Antony Lee (first contribution)
-Anuj Sharma (first contribution)
-Ben Fulton (first contribution)
-Bertrand Néron (first contribution)
-Brandon Invergo
-Carlos Pena
-Christian Brueffer
-Connor T. Skennerton (first contribution)
-David Arenillas (first contribution)
-David Nicholson (first contribution)
-Emmanuel Noutahi (first contribution)
-Eric Rasche (first contribution)
-Fabio Madeira (first contribution)
-Franco Caramia (first contribution)
-Gert Hulselmans (first contribution)
-Gleb Kuznetsov (first contribution)
-João Rodrigues
-John Bradley (first contribution)
-Kai Blin
-Kian Ho (first contribution)
-Kozo Nishida (first contribution)
-Kuan-Yi Li (first contribution)
-Leighton Pritchard
-Lucas Sinclair
-Michiel de Hoon
-Peter Cock
-Saket Choudhary
-Sunhwan Jo (first contribution)
-Tarcisio Fedrizzi (first contribution)
-Tiago Antao
-Vincent Davis
-
-===================================================================
+- Alan Medlar (first contribution)
+- Anthony Mathelier (first contribution)
+- Antony Lee (first contribution)
+- Anuj Sharma (first contribution)
+- Ben Fulton (first contribution)
+- Bertrand Néron
+- Brandon Invergo
+- Carlos Pena
+- Christian Brueffer
+- Connor T. Skennerton (first contribution)
+- David Arenillas (first contribution)
+- David Nicholson (first contribution)
+- Emmanuel Noutahi (first contribution)
+- Eric Rasche (first contribution)
+- Fabio Madeira (first contribution)
+- Franco Caramia (first contribution)
+- Gert Hulselmans (first contribution)
+- Gleb Kuznetsov (first contribution)
+- João Rodrigues
+- John Bradley (first contribution)
+- Kai Blin
+- Kian Ho (first contribution)
+- Kozo Nishida (first contribution)
+- Kuan-Yi Li (first contribution)
+- Leighton Pritchard
+- Lucas Sinclair
+- Michiel de Hoon
+- Peter Cock
+- Saket Choudhary
+- Sunhwan Jo (first contribution)
+- Tarcisio Fedrizzi (first contribution)
+- Tiago Antao
+- Vincent Davis
+
17 December 2014: Biopython 1.65 released.
+==========================================
The Biopython sequence objects now use string comparison, rather than Python's
object comparison. This has been planned for a long time with warning messages
@@ -280,33 +490,33 @@ plus unicode string literals.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Alan Du (first contribution)
-Carlos Pena (first contribution)
-Colin Lappala (first contribution)
-Christian Brueffer
-David Bulger (first contribution)
-Eric Talevich
-Evan Parker (first contribution)
-Hongbo Zhu
-Kai Blin
-Kevin Wu (first contribution)
-Leighton Pritchard
-Leszek Pryszcz (first contribution)
-Markus Piotrowski
-Matt Shirley (first contribution)
-Mike Cariaso (first contribution)
-Peter Cock
-Seth Sims (first contribution)
-Tiago Antao
-Travis Wrightsman (first contribution)
-Tyghe Vallard (first contribution)
-Vincent Davis
-Wibowo 'Bow' Arindrarto
-Zheng Ruan
-
-===================================================================
+- Alan Du (first contribution)
+- Carlos Pena (first contribution)
+- Colin Lappala (first contribution)
+- Christian Brueffer
+- David Bulger (first contribution)
+- Eric Talevich
+- Evan Parker (first contribution)
+- Hongbo Zhu
+- Kai Blin
+- Kevin Wu (first contribution)
+- Leighton Pritchard
+- Leszek Pryszcz (first contribution)
+- Markus Piotrowski
+- Matt Shirley (first contribution)
+- Mike Cariaso (first contribution)
+- Peter Cock
+- Seth Sims (first contribution)
+- Tiago Antao
+- Travis Wrightsman (first contribution)
+- Tyghe Vallard (first contribution)
+- Vincent Davis
+- Wibowo 'Bow' Arindrarto
+- Zheng Ruan
+
29 May 2014: Biopython 1.64 released.
+=====================================
This release of Biopython supports Python 2.6 and 2.7, 3.3 and also the
new 3.4 version. It is also tested on PyPy 2.0 to 2.3, and Jython 2.7b2.
@@ -346,26 +556,26 @@ database.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Chunlei Wu (first contribution)
-Edward Liaw (first contribution)
-Eric Talevich
-Leighton Pritchard
-Manlio Calvi (first contribution)
-Markus Piotrowski (first contribution)
-Melissa Gymrek (first contribution)
-Michiel de Hoon
-Nigel Delaney
-Peter Cock
-Saket Choudhary
-Tiago Antao
-Vincent Davis (first contribution)
-Wibowo 'Bow' Arindrarto
-Yanbo Ye (first contribution)
-Zheng Ruan (first contribution)
-
-===================================================================
+- Chunlei Wu (first contribution)
+- Edward Liaw (first contribution)
+- Eric Talevich
+- Leighton Pritchard
+- Manlio Calvi (first contribution)
+- Markus Piotrowski (first contribution)
+- Melissa Gymrek (first contribution)
+- Michiel de Hoon
+- Nigel Delaney
+- Peter Cock
+- Saket Choudhary
+- Tiago Antao
+- Vincent Davis (first contribution)
+- Wibowo 'Bow' Arindrarto
+- Yanbo Ye (first contribution)
+- Zheng Ruan (first contribution)
+
4 December 2013: Biopython 1.63 released.
+=========================================
This release supports Python 3.3 onwards without conversion via the 2to3
library. See the Biopython 1.63 beta release notes below for details. Since
@@ -376,11 +586,11 @@ December 2013 release of REBASE.
Additional contributors since the beta:
-Gokcen Eraslan (first contribution)
+- Gokcen Eraslan (first contribution)
-===================================================================
12 November 2013: Biopython 1.63 beta released.
+===============================================
This is a beta release for testing purposes, the main reason for a
beta version is the large amount of changes imposed by the removal of
@@ -393,7 +603,7 @@ This release of Biopython supports Python 2.6 and 2.7, and also Python
The Biopython Tutorial & Cookbook, and the docstring examples in the source
code, now use the Python 3 style print function in place of the Python 2
style print statement. This language feature is available under Python 2.6
-and 2.7 via:
+and 2.7 via::
from __future__ import print_function
@@ -404,23 +614,23 @@ available under Python 2.6 and 2.7.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Chris Mitchell (first contribution)
-Christian Brueffer
-Eric Talevich
-Josha Inglis (first contribution)
-Konstantin Tretyakov (first contribution)
-Lenna Peterson
-Martin Mokrejs
-Nigel Delaney (first contribution)
-Peter Cock
-Sergei Lebedev (first contribution)
-Tiago Antao
-Wayne Decatur (first contribution)
-Wibowo 'Bow' Arindrarto
-
-===================================================================
+- Chris Mitchell (first contribution)
+- Christian Brueffer
+- Eric Talevich
+- Josha Inglis (first contribution)
+- Konstantin Tretyakov (first contribution)
+- Lenna Peterson
+- Martin Mokrejs
+- Nigel Delaney (first contribution)
+- Peter Cock
+- Sergei Lebedev (first contribution)
+- Tiago Antao
+- Wayne Decatur (first contribution)
+- Wibowo 'Bow' Arindrarto
+
28 August 2013: Biopython 1.62 released.
+========================================
This is our first release to officially support Python 3, however it is
also our final release supporting Python 2.5. Specifically this release
@@ -431,14 +641,14 @@ See the Biopython 1.62 beta release notes below for most changes. Since the
beta release we have added several minor bug fixes and test improvements.
Additional contributors since the beta:
-Bertrand Néron (first contribution)
-Lenna Peterson
-Martin Mokrejs
-Matsuyuki Shirota (first contribution)
+- Bertrand Néron (first contribution)
+- Lenna Peterson
+- Martin Mokrejs
+- Matsuyuki Shirota (first contribution)
-===================================================================
15 July 2013: Biopython 1.62 beta released.
+===========================================
This is a beta release for testing purposes, both for new features added,
and changes to location parsing, but more importantly Biopython 1.62 will
@@ -490,32 +700,32 @@ Additionally there have been other minor bug fixes and more unit tests.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Alexander Campbell (first contribution)
-Andrea Rizzi (first contribution)
-Anthony Mathelier (first contribution)
-Ben Morris (first contribution)
-Brad Chapman
-Christian Brueffer
-David Arenillas (first contribution)
-David Martin (first contribution)
-Eric Talevich
-Iddo Friedberg
-Jian-Long Huang (first contribution)
-Joao Rodrigues
-Kai Blin
-Michiel de Hoon
-Nate Sutton (first contribution)
-Peter Cock
-Petra Kubincová (first contribution)
-Phillip Garland
-Saket Choudhary (first contribution)
-Tiago Antao
-Wibowo 'Bow' Arindrarto
-Xabier Bello (first contribution)
-
-===================================================================
+- Alexander Campbell (first contribution)
+- Andrea Rizzi (first contribution)
+- Anthony Mathelier (first contribution)
+- Ben Morris (first contribution)
+- Brad Chapman
+- Christian Brueffer
+- David Arenillas (first contribution)
+- David Martin (first contribution)
+- Eric Talevich
+- Iddo Friedberg
+- Jian-Long Huang (first contribution)
+- Joao Rodrigues
+- Kai Blin
+- Michiel de Hoon
+- Nate Sutton (first contribution)
+- Peter Cock
+- Petra Kubincová (first contribution)
+- Phillip Garland
+- Saket Choudhary (first contribution)
+- Tiago Antao
+- Wibowo 'Bow' Arindrarto
+- Xabier Bello (first contribution)
+
5 February 2013: Biopython 1.61 released.
+=========================================
GenomeDiagram has three new sigils (shapes to illustrate features). OCTO shows
an octagonal shape, like the existing BOX sigil but with the corners cut off.
@@ -580,28 +790,28 @@ on Python 2.6 and 2.7 only will make writing Python 3 compatible code easier.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Brandon Invergo
-Bryan Lunt (first contribution)
-Christian Brueffer (first contribution)
-David Cain
-Eric Talevich
-Grace Yeo (first contribution)
-Jeffrey Chang
-Jingping Li (first contribution)
-Kai Blin (first contribution)
-Leighton Pritchard
-Lenna Peterson
-Lucas Sinclair (first contribution)
-Michiel de Hoon
-Nick Semenkovich (first contribution)
-Peter Cock
-Robert Ernst (first contribution)
-Tiago Antao
-Wibowo 'Bow' Arindrarto
-
-===================================================================
+- Brandon Invergo
+- Bryan Lunt (first contribution)
+- Christian Brueffer (first contribution)
+- David Cain
+- Eric Talevich
+- Grace Yeo (first contribution)
+- Jeffrey Chang
+- Jingping Li (first contribution)
+- Kai Blin (first contribution)
+- Leighton Pritchard
+- Lenna Peterson
+- Lucas Sinclair (first contribution)
+- Michiel de Hoon
+- Nick Semenkovich (first contribution)
+- Peter Cock
+- Robert Ernst (first contribution)
+- Tiago Antao
+- Wibowo 'Bow' Arindrarto
+
25 June 2012: Biopython 1.60 released.
+======================================
New module Bio.bgzf supports reading and writing BGZF files (Blocked GNU
Zip Format), a variant of GZIP with efficient random access, most commonly
@@ -633,21 +843,21 @@ Additionally there have been other minor bug fixes and more unit tests.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Brandon Invergo
-Eric Talevich
-Jeff Hussmann (first contribution)
-John Comeau (first contribution)
-Kamil Slowikowski (first contribution)
-Kevin Jacobs
-Lenna Peterson (first contribution)
-Matt Fenwick (first contribution)
-Peter Cock
-Paul T. Bathen
-Wibowo Arindrarto
+- Brandon Invergo
+- Eric Talevich
+- Jeff Hussmann (first contribution)
+- John Comeau (first contribution)
+- Kamil Slowikowski (first contribution)
+- Kevin Jacobs
+- Lenna Peterson (first contribution)
+- Matt Fenwick (first contribution)
+- Peter Cock
+- Paul T. Bathen
+- Wibowo Arindrarto
-===================================================================
24 February 2012: Biopython 1.59 released.
+==========================================
Please note that this release will *not* work on Python 2.4 (while the recent
releases have worked despite us not officially supporting this).
@@ -700,22 +910,22 @@ Additionally there have been other minor bug fixes and more unit tests.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Andreas Wilm (first contribution)
-Alessio Papini (first contribution)
-Brad Chapman
-Brandon Invergo
-Connor McCoy
-Eric Talevich
-João Rodrigues
-Konrad Förstner (first contribution)
-Michiel de Hoon
-Matej Repič (first contribution)
-Leighton Pritchard
-Peter Cock
-
-===================================================================
+- Andreas Wilm (first contribution)
+- Alessio Papini (first contribution)
+- Brad Chapman
+- Brandon Invergo
+- Connor McCoy
+- Eric Talevich
+- João Rodrigues
+- Konrad Förstner (first contribution)
+- Michiel de Hoon
+- Matej Repič (first contribution)
+- Leighton Pritchard
+- Peter Cock
+
18 August 2011: Biopython 1.58 released.
+========================================
A new interface and parsers for the PAML (Phylogenetic Analysis by Maximum
Likelihood) package of programs, supporting codeml, baseml and yn00 as well
@@ -747,26 +957,26 @@ Bio.HMM's Viterbi algorithm now expects the initial probabilities explicitly.
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Aaron Gallagher (first contribution)
-Bartek Wilczynski
-Bogdan T. (first contribution)
-Brandon Invergo (first contribution)
-Connor McCoy (first contribution)
-David Cain (first contribution)
-Eric Talevich
-Fábio Madeira (first contribution)
-Hongbo Zhu
-Joao Rodrigues
-Michiel de Hoon
-Peter Cock
-Thomas Schmitt (first contribution)
-Tiago Antao
-Walter Gillett
-Wibowo Arindrarto (first contribution)
-
-===================================================================
+- Aaron Gallagher (first contribution)
+- Bartek Wilczynski
+- Bogdan T. (first contribution)
+- Brandon Invergo (first contribution)
+- Connor McCoy (first contribution)
+- David Cain (first contribution)
+- Eric Talevich
+- Fábio Madeira (first contribution)
+- Hongbo Zhu
+- Joao Rodrigues
+- Michiel de Hoon
+- Peter Cock
+- Thomas Schmitt (first contribution)
+- Tiago Antao
+- Walter Gillett
+- Wibowo Arindrarto (first contribution)
+
2 April 2011: Biopython 1.57 released.
+======================================
Bio.SeqIO now includes an index_db() function which extends the existing
indexing functionality to allow indexing many files, and more importantly
@@ -805,24 +1015,24 @@ The nodetype hierarchy in the Bio.SCOP.Cla.Record class is now a dictionary
Many thanks to the Biopython developers and community for making this release
possible, especially the following contributors:
-Brad Chapman
-Eric Talevich
-Erick Matsen (first contribution)
-Hongbo Zhu
-Jeffrey Finkelstein (first contribution)
-Joanna & Dominik Kasprzak (first contribution)
-Joao Rodrigues
-Kristian Rother
-Leighton Pritchard
-Michiel de Hoon
-Peter Cock
-Peter Thorpe (first contribution)
-Phillip Garland
-Walter Gillett (first contribution)
-
-===================================================================
+- Brad Chapman
+- Eric Talevich
+- Erick Matsen (first contribution)
+- Hongbo Zhu
+- Jeffrey Finkelstein (first contribution)
+- Joanna & Dominik Kasprzak (first contribution)
+- Joao Rodrigues
+- Kristian Rother
+- Leighton Pritchard
+- Michiel de Hoon
+- Peter Cock
+- Peter Thorpe (first contribution)
+- Phillip Garland
+- Walter Gillett (first contribution)
+
26 November 2010: Biopython 1.56 released.
+==========================================
This is planned to be our last release to support Python 2.4, however this
could be delayed given immediate feedback from our users (e.g. if this proves
@@ -861,23 +1071,23 @@ Bio.Motif now has a chapter in the Tutorial.
(At least) 13 people have contributed to this release, including 6 new people:
-Andrea Pierleoni (first contribution)
-Bart de Koning (first contribution)
-Bartek Wilczynski
-Bartosz Telenczuk (first contribution)
-Cymon Cox
-Eric Talevich
-Frank Kauff
-Michiel de Hoon
-Peter Cock
-Phillip Garland (first contribution)
-Siong Kong (first contribution)
-Tiago Antao
-Uri Laserson (first contribution)
-
-===================================================================
+- Andrea Pierleoni (first contribution)
+- Bart de Koning (first contribution)
+- Bartek Wilczynski
+- Bartosz Telenczuk (first contribution)
+- Cymon Cox
+- Eric Talevich
+- Frank Kauff
+- Michiel de Hoon
+- Peter Cock
+- Phillip Garland (first contribution)
+- Siong Kong (first contribution)
+- Tiago Antao
+- Uri Laserson (first contribution)
+
31 August 2010: Biopython 1.55 released.
+========================================
See the notes below for the Biopython 1.55 beta release for changes since
Biopython 1.54 was released. Since the beta release we have marked a few
@@ -887,22 +1097,22 @@ improvements.
(At least) 12 people have contributed to this release, including 6 new people:
-Andres Colubri (first contribution)
-Carlos Rios Vera (first contribution)
-Claude Paroz (first contribution)
-Cymon Cox
-Eric Talevich
-Frank Kauff
-Joao Rodrigues (first contribution)
-Konstantin Okonechnikov (first contribution)
-Michiel de Hoon
-Nathan Edwards (first contribution)
-Peter Cock
-Tiago Antao
-
-===================================================================
+- Andres Colubri (first contribution)
+- Carlos Ríos (first contribution)
+- Claude Paroz (first contribution)
+- Cymon Cox
+- Eric Talevich
+- Frank Kauff
+- Joao Rodrigues (first contribution)
+- Konstantin Okonechnikov (first contribution)
+- Michiel de Hoon
+- Nathan Edwards (first contribution)
+- Peter Cock
+- Tiago Antao
+
18 August 2010: Biopython 1.55 beta released.
+=============================================
This is a beta release for testing purposes, both for new features added,
and more importantly updates to avoid code deprecated in Python 2.7 or in
@@ -937,29 +1147,29 @@ This avoids having to worry about the details of how best to use subprocess.
(At least) 10 people have contributed to this release, including 5 new people:
-Andres Colubri (first contribution)
-Carlos Rios Vera (first contribution)
-Claude Paroz (first contribution)
-Eric Talevich
-Frank Kauff
-Joao Rodrigues (first contribution)
-Konstantin Okonechnikov (first contribution)
-Michiel de Hoon
-Peter Cock
-Tiago Antao
+- Andres Colubri (first contribution)
+- Carlos Ríos (first contribution)
+- Claude Paroz (first contribution)
+- Eric Talevich
+- Frank Kauff
+- Joao Rodrigues (first contribution)
+- Konstantin Okonechnikov (first contribution)
+- Michiel de Hoon
+- Peter Cock
+- Tiago Antao
-===================================================================
May 20, 2010: Biopython 1.54 released.
+======================================
See the notes below for the Biopython 1.54 beta release for changes since
Biopython 1.53 was released. Since then there have been some changes to
the new Bio.Phylo module, more documentation, and a number of smaller
bug fixes.
-===================================================================
April 2, 2010: Biopython 1.54 beta released.
+============================================
We are phasing out support for Python 2.4. We will continue to support it
for at least two further releases, and at least one year (whichever takes
@@ -1001,21 +1211,21 @@ old class but should otherwise be backwards compatible.
(At least) 11 people contributed to this release, including 5 new people:
-Anne Pajon (first contribution)
-Brad Chapman
-Christian Zmasek
-Diana Jaunzeikare (first contribution)
-Eric Talevich
-Jose Blanca (first contribution)
-Kevin Jacobs (first contribution)
-Leighton Pritchard
-Michiel de Hoon
-Peter Cock
-Thomas Holder (first contribution)
+- Anne Pajon (first contribution)
+- Brad Chapman
+- Christian Zmasek
+- Diana Jaunzeikare (first contribution)
+- Eric Talevich
+- Jose Blanca (first contribution)
+- Kevin Jacobs (first contribution)
+- Leighton Pritchard
+- Michiel de Hoon
+- Peter Cock
+- Thomas Holder (first contribution)
-===================================================================
December 15, 2009: Biopython 1.53 released.
+===========================================
Biopython is now using git for source code control, currently on github. Our
old CVS repository will remain on the OBF servers in the short/medium term
@@ -1079,22 +1289,22 @@ from testing Jython 2.5.0 and 2.5.1.
(At least) 12 people contributed to this release, including 3 first timers:
-Bartek Wilczynski
-Brad Chapman
-Chris Lasher
-Cymon Cox
-Frank Kauff
-Frederik Gwinner (first contribution)
-Hongbo Zhu (first contribution)
-Kyle Ellrott
-Leighton Pritchard
-Michiel de Hoon
-Paul Bathen (first contribution)
-Peter Cock
-
-===================================================================
+- Bartek Wilczynski
+- Brad Chapman
+- Chris Lasher
+- Cymon Cox
+- Frank Kauff
+- Frederik Gwinner (first contribution)
+- Hongbo Zhu (first contribution)
+- Kyle Ellrott
+- Leighton Pritchard
+- Michiel de Hoon
+- Paul Bathen (first contribution)
+- Peter Cock
+
September 22, 2009: Biopython 1.52 released.
+============================================
The Population Genetics module now allows the calculation of several tests,
and statistical estimators via a wrapper to GenePop. Supported are tests for
@@ -1128,9 +1338,9 @@ been removed (e.g. Bio.EUtils which had been replaced by Bio.Entrez).
On a technical note, this will be the last release using CVS for source code
control. Biopython is moving from CVS to git.
-===================================================================
August 17, 2009: Biopython 1.51 released.
+=========================================
FASTQ support in Bio.SeqIO has been improved, extended and sped up since
Biopython 1.50. Support for Illumina 1.3+ style FASTQ files was added in the
@@ -1156,9 +1366,9 @@ hence removing any dependence on mxTextTools.
Additionally, since the beta, a number of small bugs have been fixed, and
there have been further additions to the test suite and documentation.
-===================================================================
June 23, 2009: Biopython 1.51 beta released.
+============================================
Biopython no longer supports Python 2.3. Currently we support Python 2.4,
2.5 and 2.6.
@@ -1199,12 +1409,13 @@ There have also been additions to the tutorial, such as the new alignment
wrappers, with a whole chapter for the SeqRecord object. We have also added
to the unit test coverage.
-===================================================================
April 20, 2009: Biopython 1.50 released.
+========================================
See the notes below for the Biopython 1.50 beta release for more details,
but the highlights are:
+
* The SeqRecord supports slicing and per-letter-annotation
* Bio.SeqIO can read and write FASTQ and QUAL files
* Bio.Seq now has an UnknownSeq object
@@ -1214,6 +1425,7 @@ but the highlights are:
* This will be the final release with Martel and Bio.Mindy
Since the 1.50 beta release:
+
* The NCBI's Entrez EFetch no longer supports rettype="genbank"
and "gb" (or "gp") should be used instead.
* Bio.SeqIO now supports "gb" as an alias for "genbank".
@@ -1222,9 +1434,9 @@ Since the 1.50 beta release:
* A few more unit tests were added
* More documentation
-===================================================================
April 3, 2009: Biopython 1.50 beta released.
+============================================
The SeqRecord object has a new dictionary attribute, letter_annotations,
which is for holding per-letter-annotation information like sequence
@@ -1263,24 +1475,26 @@ We've also made some changes to our test framework, which is now given a
whole chapter in the tutorial. This intended to help new developers or
contributors wanting to improve our unit test coverage.
-===================================================================
November 21, 2008: Biopython 1.49 released.
+===========================================
See the notes below for the Biopython 1.49 beta release for more details,
but the highlights are:
+
* Biopython has transitioned from Numeric to NumPy
* Martel and Bio.Mindy are now deprecated
Since the 1.49 beta release:
+
* A couple of NumPy issues have been resolved
* Further small improvements to BioSQL
* Bio.PopGen.SimCoal should now work on Windows
* A few more unit tests were added
-===================================================================
November 7, 2008: Biopython 1.49 beta released.
+===============================================
Biopython has transitioned from Numeric to NumPy. Please move to NumPy.
@@ -1328,14 +1542,15 @@ argument to specify the expected sequence alphabet.
The somewhat quirky unit test GUI has been removed, the unit tests are now
run via the command line by default.
-===================================================================
September 8, 2008: Biopython 1.48 released.
+===========================================
The SeqRecord and Alignment objects have a new method to format the object as
a string in a requested file format (handled via Bio.SeqIO and Bio.AlignIO).
Additional file formats supported in Bio.SeqIO and Bio.AlignIO:
+
- reading and writing "tab" format (simple tab separated)
- writing "nexus" files.
- reading "pir" files (NBRF/PIR)
@@ -1362,9 +1577,9 @@ In addition a number of other modules have been deprecated, including:
Bio.MetaTool, Bio.EUtils, Bio.Saf, Bio.NBRF, and Bio.IntelliGenetics
See the DEPRECATED file for full details.
-===================================================================
July 5, 2008: Biopython 1.47 released.
+======================================
Improved handling of ambiguous nucleotides in Bio.Seq.Translate().
Better handling of stop codons in the alphabet from a translation.
@@ -1380,9 +1595,9 @@ nucleotide database.
Added IntelliGenetics/MASE parsing to Bio.SeqIO (as the "ig" format).
-===================================================================
June 29, 2008: Biopython 1.46 released.
+=======================================
Bio.Entrez now has several Entrez format XML parsers, and a chapter
in the tutorial.
@@ -1411,9 +1626,9 @@ Phylip export added to Bio.Nexus.
Improved handling of ambiguous nucleotides and stop codons in
Bio.Seq.Translate (plus introduced a regression fixed in Biopython 1.47).
-===================================================================
March 22, 2008: Biopython 1.45 released.
+========================================
The Seq and MutableSeq objects act more like python strings, in particular
str(object) now returns the full sequence as a plain string. The existing
@@ -1441,9 +1656,9 @@ Bio.Entrez.
Bio.biblio was deprecated.
-===================================================================
October 28, 2007: Biopython 1.44 released.
+==========================================
NOTE: This release includes some rather drastic code changes, which were
necessary to get Biopython to work with the new release of mxTextTools.
@@ -1497,9 +1712,9 @@ Tiago Antao has started work on a Population Genetics module, Bio.PopGen
Updates to the tutorial, including giving Bio.Seq and Bio.SeqIO a whole
chapter each.
-===================================================================
March 17, 2007: Biopython 1.43 released.
+========================================
New Bio.SeqIO module for reading and writing biological sequence files
in various formats, based on SeqRecord objects. This includes a new fasta
@@ -1534,9 +1749,9 @@ Nominating Bio.Kabat for removal.
Believe it or not, even the documentation was updated.
-===================================================================
July 16, 2006: Biopython 1.42 released.
+=======================================
Bio.GenBank: New parser by Peter, which doesn't rely on Martel.
@@ -1546,9 +1761,10 @@ Bio.Cluster became (somewhat) object-oriented.
Lots of bug fixes, and updates to the documentation.
-===================================================================
October 28, 2005: Biopython 1.41 released.
+==========================================
+
Major changes:
NEW: Bio.MEME -- thanks to Jason Hackney
@@ -1577,9 +1793,9 @@ Lots of fixes in the documentation.
March 29, 2005: MEME parser added. Thanks to Jason Hackney
-===================================================================
Feb 18, 2005: Biopython 1.40 beta
+=================================
Major Changes since v1.30. For a full list of changes please see the CVS
IMPORTANT: Biopython now works with Python version >= 2.3
@@ -1587,32 +1803,36 @@ IMPORTANT: Biopython now works with Python version >= 2.3
NEW: Bio.Nexus -- thanks to Frank Kauff
Bio.Nexus is a Nexus file parser. Nexus is a common format for phylogenetic trees.
-NEW: CAPS module -- Thanks to Jonathan Taylor
+NEW: CAPS module -- Thanks to Jonathan Taylor.
NEW: Restriction enzyme package contributed by Frederic Sohm. This includes classes for
manipulating enzymes, updating from Rebase, as well as documentation and Tests.
-CHANGED: Bio.PDB -- thanks to Thomas Hamelryck
-Added atom serial number.
-Epydoc style documentation.
-Added secondary structure support (through DSSP)
-Added Accessible Surface Area support (through DSSP)
-Added Residue Depth support (through MSMS)
-Added Half Sphere Exposure.
-Added Fragment classification of the protein backbone (see Kolodny et al.,
-JMB, 2002)
-Corrected problem on Windows with PDBList (thanks to Matt Dimmic)
-Added StructureAlignment module to superimpose structures based on a FASTA
-sequence alignment.
-Various additions to Polypeptide.
-Various bug corrections in Vector.
-Lots of smaller bug corrections and additional features
+
+CHANGED: Bio.PDB -- thanks to Thomas Hamelryck.
+
+- Added atom serial number.
+- Epydoc style documentation.
+- Added secondary structure support (through DSSP).
+- Added Accessible Surface Area support (through DSSP).
+- Added Residue Depth support (through MSMS).
+- Added Half Sphere Exposure.
+- Added Fragment classification of the protein backbone (see Kolodny et al.,
+- JMB, 2002).
+- Corrected problem on Windows with PDBList (thanks to Matt Dimmic)
+- Added StructureAlignment module to superimpose structures based on a FASTA
+ sequence alignment.
+- Various additions to Polypeptide.
+- Various bug corrections in Vector.
+- Lots of smaller bug corrections and additional features
CHANGED: MutableSeq -- thanks to Michiel De Hoon
Added the functions 'complement' and 'reverse_complement' to Bio.Seq's Seq and
-MutableSeq objects. Similar functions previous existed in various locations in
-BioPython:
+MutableSeq objects. Similar functions previously existed in various locations
+in BioPython:
+
- forward_complement, reverse_complement in Bio.GFF.easy
- complement, antiparallel in Bio.SeqUtils
+
These functions have now been deprecated, and will generate a DeprecationWarning
when used.
The functions complement and reverse_complement, when applied to a Seq object,
@@ -1620,277 +1840,320 @@ will return a new Seq object. The same function applied to a MutableSeq object
will modify the MutableSeq object itself, and don't return anything.
-===================================================================
May 14, 2004: Biopython 1.30
- Affy package added for dealing with Affymetrix cel files -- thanks to Harry
+============================
+
+- Affy package added for dealing with Affymetrix cel files -- thanks to Harry
Zuzan.
- Added code for parsing Blast XML output -- thanks to Bertrand Frottier.
- Added code for parsing Compass output -- thanks to James Casbon.
- New melting temperature calculation module -- thanks to Sebastian Bassi.
- Added lowess function for non-parameteric regression -- thanks to Michiel.
- Reduced protein alphabet supported added -- thanks to Iddo.
+- Added code for parsing Blast XML output -- thanks to Bertrand Frottier.
+- Added code for parsing Compass output -- thanks to James Casbon.
+- New melting temperature calculation module -- thanks to Sebastian Bassi.
+- Added lowess function for non-parameteric regression -- thanks to Michiel.
+- Reduced protein alphabet supported added -- thanks to Iddo.
- Added documentation for Logistic Regression and Bio.PDB -- thanks to Michiel
+- Added documentation for Logistic Regression and Bio.PDB -- thanks to Michiel
and Thomas.
- Documentation added for converting between file formats.
- Updates to install documentation for non-root users -- thanks to Jakob
+- Documentation added for converting between file formats.
+- Updates to install documentation for non-root users -- thanks to Jakob
Fredslund.
- epydoc now used for automatic generation of documentation.
+- epydoc now used for automatic generation of documentation.
- Fasta parser updated to use Martel for parsing and indexing, allowing better
+- Fasta parser updated to use Martel for parsing and indexing, allowing better
speed and dealing with large data files.
- Updated to Registry code. Now 'from Bio import db' gives you a number of new
+- Updated to Registry code. Now 'from Bio import db' gives you a number of new
retrieval options, including embl, fasta, genbak, interpro, prodoc and swissprot.
- GenBank parser uses new Martel format. GenBank retrieval now uses EUtils instead
+- GenBank parser uses new Martel format. GenBank retrieval now uses EUtils instead
of the old non-working entrez scripts. GenBank indexing uses standard Mindy
indexing. Fix for valueless qualifiers in feature keys -- thanks to Leighton
Pritchard.
- Numerous updated to Bio.PDB modules -- thanks to Thomas. PDB can now parse headers
+- Numerous updated to Bio.PDB modules -- thanks to Thomas. PDB can now parse headers
-- thanks to Kristian Rother.
- Updates to the Ace parser -- thanks to Frank Kauff and Leighton Pritchard.
+- Updates to the Ace parser -- thanks to Frank Kauff and Leighton Pritchard.
- Added pgdb (PyGreSQL) support to BioSQL -- thanks to Marc Colosimo.
- Fix problems with using py2exe and Biopython -- thanks to Michael Cariaso.
- PSIBlast parser fixes -- thanks to Jer-Yee John Chuang and James Casbon.
- Fix to NCBIWWW retrieval so that HTML results are returned correctly.
- Fix to Clustalw to handle question marks in title names -- thanks to Ashleigh
+- Added pgdb (PyGreSQL) support to BioSQL -- thanks to Marc Colosimo.
+- Fix problems with using py2exe and Biopython -- thanks to Michael Cariaso.
+- PSIBlast parser fixes -- thanks to Jer-Yee John Chuang and James Casbon.
+- Fix to NCBIWWW retrieval so that HTML results are returned correctly.
+- Fix to Clustalw to handle question marks in title names -- thanks to Ashleigh
Smythe.
- Fix to NBRF parsing to it accepts files produced by Clustalw -- thanks to
+- Fix to NBRF parsing to it accepts files produced by Clustalw -- thanks to
Ashleigh Smythe.
- Fixes to the Enyzme module -- thanks to Marc Colosimo.
- Fix for bugs in SeqUtils -- thanks to Frank Kauff.
- Fix for optional hsps in ncbiblast Martel format -- thanks to Heiko.
- Fix to Fasta parsing to allow # comment lines -- thanks to Karl Diedrich.
- Updates to the C clustering library -- thanks to Michiel.
- Fixes for breakage in the SCOP module and addition of regression tests to
+- Fixes to the Enyzme module -- thanks to Marc Colosimo.
+- Fix for bugs in SeqUtils -- thanks to Frank Kauff.
+- Fix for optional hsps in ncbiblast Martel format -- thanks to Heiko.
+- Fix to Fasta parsing to allow # comment lines -- thanks to Karl Diedrich.
+- Updates to the C clustering library -- thanks to Michiel.
+- Fixes for breakage in the SCOP module and addition of regression tests to
framework -- thanks to Gavin.
- Various fixes to Bio.Wise -- thanks to Michael.
- Fix for bug in FastaReader -- thanks to Micheal.
- Fix EUtils bug where efetch would only return 500 sequences.
- Updates for Emboss commandlines, water and tranalign.
- Fixes to the FormatIO system of file conversion.
+- Various fixes to Bio.Wise -- thanks to Michael.
+- Fix for bug in FastaReader -- thanks to Micheal.
+- Fix EUtils bug where efetch would only return 500 sequences.
+- Updates for Emboss commandlines, water and tranalign.
+- Fixes to the FormatIO system of file conversion.
- C++ code (KDTree, Affy) now compiled by default on most platforms -- thanks to
+- C++ code (KDTree, Affy) now compiled by default on most platforms -- thanks to
Michael for some nice distutils hacks and many people for testing.
- Deprecated Bio.sequtils -- use Bio.SeqUtils instead.
- Deprecated Bio.SVM -- use libsvm instead.
- Deprecated Bio.kMeans and Bio.xkMeans -- use Bio.cluster instead.
- Deprecated RecordFile -- doesn't appear to be finished code.
+- Deprecated Bio.sequtils -- use Bio.SeqUtils instead.
+- Deprecated Bio.SVM -- use libsvm instead.
+- Deprecated Bio.kMeans and Bio.xkMeans -- use Bio.cluster instead.
+- Deprecated RecordFile -- doesn't appear to be finished code.
Feb 16, 2004: Biopython 1.24
- New parsers for Phred and Ace format files -- thanks to Frank Kauff
- New Code for dealing with NMR data -- thanks to Bob Bussell
- New SeqUtils modules for codon usage, isoelectric points and other
+============================
+
+- New parsers for Phred and Ace format files -- thanks to Frank Kauff
+- New Code for dealing with NMR data -- thanks to Bob Bussell
+- New SeqUtils modules for codon usage, isoelectric points and other
protein properties -- thanks to Yair Benita
- New code for dealing with Wise contributed by Michael
- EZ-Retrieve sequence retrieval now supported thanks to Jeff
- Bio.Cluster updated along with documentation by Michiel
- BioSQL fixed so it now works with the current SQL schema -- thanks to Yves
+- New code for dealing with Wise contributed by Michael
+- EZ-Retrieve sequence retrieval now supported thanks to Jeff
+- Bio.Cluster updated along with documentation by Michiel
+- BioSQL fixed so it now works with the current SQL schema -- thanks to Yves
Bastide for patches
- Patches to Bio/__init__ to make it compatible with py2exe -- thanks to
+- Patches to Bio/__init__ to make it compatible with py2exe -- thanks to
Leighton Pritchard
- Added __iter__ to all Biopython Iterators to make them Python 2.2 compatible
- Fixes to NCBIWWW for retrieving from NCBI -- thanks to Chris Wroe
- Retrieval of multiple alignment objects from BLAST records -- thanks to
+- Added __iter__ to all Biopython Iterators to make them Python 2.2 compatible
+- Fixes to NCBIWWW for retrieving from NCBI -- thanks to Chris Wroe
+- Retrieval of multiple alignment objects from BLAST records -- thanks to
James Casbon
- Fixes to GenBank format for new tags by Peter
- Parsing fixes in clustalw parsed -- thanks to Greg Singer and Iddo
- Fasta Indexes can have a specified filename -- thanks to Chunlei Wu
- Fix to Prosite parser -- thanks to Mike Liang
- Fix in GenBank parsing -- mRNAs now get strand information
+- Fixes to GenBank format for new tags by Peter
+- Parsing fixes in clustalw parsed -- thanks to Greg Singer and Iddo
+- Fasta Indexes can have a specified filename -- thanks to Chunlei Wu
+- Fix to Prosite parser -- thanks to Mike Liang
+- Fix in GenBank parsing -- mRNAs now get strand information
Oct 18, 2003: Biopython 1.23
- Fixed distribution of files in Bio/Cluster
- Now distributing Bio/KDTree/_KDTree.swig.C
- minor updates in installation code
- added mmCIF support for PDB files
+============================
+
+- Fixed distribution of files in Bio/Cluster
+- Now distributing Bio/KDTree/_KDTree.swig.C
+- minor updates in installation code
+- added mmCIF support for PDB files
+
Oct 9, 2003: Biopython 1.22
- Added Peter Slicker's patches for speeding up modules under Python 2.3
- Fixed Martel installation.
- Does not install Bio.Cluster without Numeric.
- Distribute EUtils DTDs.
- Yves Bastide patched NCBIStandalone.Iterator to be Python 2.0 iterator
- Ashleigh's string coersion fixes in Clustalw.
- Yair Benita added precision to the protein molecular weights.
- Bartek updated AlignAce.Parser and added Motif.sim method
- bug fixes in Michiel De Hoon's clustering library
- Iddo's bug fixes to Bio.Enzyme and new RecordConsumer
- Guido Draheim added patches for fixing import path to xbb scripts
- regression tests updated to be Python 2.3 compatible
- GenBank.NCBIDictionary is smarter about guessing the format
+===========================
+
+- Added Peter Slicker's patches for speeding up modules under Python 2.3
+- Fixed Martel installation.
+- Does not install Bio.Cluster without Numeric.
+- Distribute EUtils DTDs.
+- Yves Bastide patched NCBIStandalone.Iterator to be Python 2.0 iterator
+- Ashleigh's string coersion fixes in Clustalw.
+- Yair Benita added precision to the protein molecular weights.
+- Bartek updated AlignAce.Parser and added Motif.sim method
+- bug fixes in Michiel De Hoon's clustering library
+- Iddo's bug fixes to Bio.Enzyme and new RecordConsumer
+- Guido Draheim added patches for fixing import path to xbb scripts
+- regression tests updated to be Python 2.3 compatible
+- GenBank.NCBIDictionary is smarter about guessing the format
+
Jul 28, 2003: Biopython 1.21
- Martel added back into the released package
- new AlignACE module by Bartek Wilczynski
- Andreas Kuntzagk fix for GenBank Iterator on empty files
+============================
+
+- Martel added back into the released package
+- new AlignACE module by Bartek Wilczynski
+- Andreas Kuntzagk fix for GenBank Iterator on empty files
+
Jul 27, 2003: Biopython 1.20
- added Andrew Dalke's EUtils library
- added Michiel de Hoon's gene expression analysis package
- updates to setup code, now smarter about dependencies
- updates to test suite, now smarter about code that is imported
- Michael Hoffman's fixes to DocSQL
- syntax fixes in triemodule.c to compile on SGI, Python 2.1 compatible
- updates in NCBIStandalone, short query error
- Sebastian Bassi submitted code to calculate LCC complexity
- Greg Kettler's NCBIStandalone fix for long query lengths
- slew of miscellaneous fixes from George Paci
- miscellaneous cleanups and updates from Andreas Kuntzagk
- Peter Bienstman's fixes to Genbank code -- now parses whole database
- Kayte Lindner's LocusLink package
- miscellaneous speedups and code cleanup in ParserSupport by Brad Chapman
- miscellaneous BLAST fixes and updates
- Iddo added new code to parse BLAST table output format
- Karl Diedrich's patch to read T_Coffee files
- Larry Heisler's fix for primer3 output
- Bio.Medline now uses proper iterator objects
- copen now handles SIGTERM correctly
- small bugfixes and updates in Thomas Hamelryck's PDB package
- bugfixes and updates to SeqIO.FASTA reader
- updates to Registry system, conforms to 2003 hackathon OBDA spec
- Yu Huang patch to support tblastn in wublast expression
+============================
+
+- added Andrew Dalke's EUtils library
+- added Michiel de Hoon's gene expression analysis package
+- updates to setup code, now smarter about dependencies
+- updates to test suite, now smarter about code that is imported
+- Michael Hoffman's fixes to DocSQL
+- syntax fixes in triemodule.c to compile on SGI, Python 2.1 compatible
+- updates in NCBIStandalone, short query error
+- Sebastian Bassi submitted code to calculate LCC complexity
+- Greg Kettler's NCBIStandalone fix for long query lengths
+- slew of miscellaneous fixes from George Paci
+- miscellaneous cleanups and updates from Andreas Kuntzagk
+- Peter Bienstman's fixes to Genbank code -- now parses whole database
+- Kayte Lindner's LocusLink package
+- miscellaneous speedups and code cleanup in ParserSupport by Brad Chapman
+- miscellaneous BLAST fixes and updates
+- Iddo added new code to parse BLAST table output format
+- Karl Diedrich's patch to read T_Coffee files
+- Larry Heisler's fix for primer3 output
+- Bio.Medline now uses proper iterator objects
+- copen now handles SIGTERM correctly
+- small bugfixes and updates in Thomas Hamelryck's PDB package
+- bugfixes and updates to SeqIO.FASTA reader
+- updates to Registry system, conforms to 2003 hackathon OBDA spec
+- Yu Huang patch to support tblastn in wublast expression
+
Dec 17, 2002: Biopython 1.10
- Python requirement bumped up to 2.2
- hierarchy reorg, many things moved upwards into Bio namespace
- pairwise2 replaces fastpairwise and pairwise
- removed deprecated Sequence.py package
- minor bug fix in File.SGMLStripper
- added Scripts/debug/debug_blast_parser.py to diagnose blast parsing errors
- IPI supported by SwissProt/SProt.py parser
- large speedup for kmeans
- new registry framework for generic access to databases and parsers
- small bug fix in stringfns.split
- scripts that access NCBI moved over to new EUtils system
- new crc module
- biblio.py supports the EBI Bibliographic database
- new CDD parser
- new Ndb parser
- new ECell parser
- new Geo parser
- access to GFF databases
- new KDTree data structure
- new LocusLink parser
- new MarkovModel algorithm
- new Saf parser
- miscellaneous sequence handling functions in sequtils
- new SVDSuperimpose algorithm
+============================
+
+- Python requirement bumped up to 2.2
+- hierarchy reorg, many things moved upwards into Bio namespace
+- pairwise2 replaces fastpairwise and pairwise
+- removed deprecated Sequence.py package
+- minor bug fix in File.SGMLStripper
+- added Scripts/debug/debug_blast_parser.py to diagnose blast parsing errors
+- IPI supported by SwissProt/SProt.py parser
+- large speedup for kmeans
+- new registry framework for generic access to databases and parsers
+- small bug fix in stringfns.split
+- scripts that access NCBI moved over to new EUtils system
+- new crc module
+- biblio.py supports the EBI Bibliographic database
+- new CDD parser
+- new Ndb parser
+- new ECell parser
+- new Geo parser
+- access to GFF databases
+- new KDTree data structure
+- new LocusLink parser
+- new MarkovModel algorithm
+- new Saf parser
+- miscellaneous sequence handling functions in sequtils
+- new SVDSuperimpose algorithm
Dec 18, 2001: Biopython1.00a4
- minor bug fix in NCBIStandalone.blastall
- optimization in dynamic programming code
- new modules for logistic regression and maximum entropy
- minor bug fix in ParserSupport
- minor bug fixes in SCOP package
- minor updates in the kMeans cluster selection code
- minor bug fixes in SubsMat code
- support for XML-formatted MEDLINE files
- added MultiProc.run to simplify splitting code across processors
- listfns.items now supports lists with unhashable items
- new data type for pathways
- new support for intelligenetics format
- new support for metatool format
- new support for NBRF format
- new support for generalized launching of applications
- new support for genetic algorithms
- minor bug fixes in GenBank parsing
- new support for Primer in the Emboss package
- new support for chromosome graphics
- new support for HMMs
- new support for NeuralNetwork
- slew of Martel fixes (see Martel docs)
+=============================
+
+- minor bug fix in NCBIStandalone.blastall
+- optimization in dynamic programming code
+- new modules for logistic regression and maximum entropy
+- minor bug fix in ParserSupport
+- minor bug fixes in SCOP package
+- minor updates in the kMeans cluster selection code
+- minor bug fixes in SubsMat code
+- support for XML-formatted MEDLINE files
+- added MultiProc.run to simplify splitting code across processors
+- listfns.items now supports lists with unhashable items
+- new data type for pathways
+- new support for intelligenetics format
+- new support for metatool format
+- new support for NBRF format
+- new support for generalized launching of applications
+- new support for genetic algorithms
+- minor bug fixes in GenBank parsing
+- new support for Primer in the Emboss package
+- new support for chromosome graphics
+- new support for HMMs
+- new support for NeuralNetwork
+- slew of Martel fixes (see Martel docs)
+
Sept 3, 2001: Biopython1.00a3
- added package to support KEGG
- added sequtils module for computations on sequences
- added pairwise sequence alignment algorithm
- major bug fixes in UndoHandle
- format updates in PubMed
- Tk interface to kMeans clustering
+=============================
+
+- added package to support KEGG
+- added sequtils module for computations on sequences
+- added pairwise sequence alignment algorithm
+- major bug fixes in UndoHandle
+- format updates in PubMed
+- Tk interface to kMeans clustering
+
July 5, 2001: Biopython1.00a2
- deprecated old regression testing frameworks
- deprecated Sequence.py
- Swiss-Prot parser bug fixes
- GenBank parser bug fixes
- Can now output GenBank format
- can now download many sequences at a time from GenBank
- kMeans clustering algorithm
- Kabat format now supported
- FSSP format now supported
- more functionality for alignment code
- SubsMat bug fixes and updates
- fixed memory leak in listfns bug fixes
- Martel bundled and part of the install procedure
- Medline.Parser bug fixes
- PubMed.download_many handles broken IDs better
+=============================
+
+- deprecated old regression testing frameworks
+- deprecated Sequence.py
+- Swiss-Prot parser bug fixes
+- GenBank parser bug fixes
+- Can now output GenBank format
+- can now download many sequences at a time from GenBank
+- kMeans clustering algorithm
+- Kabat format now supported
+- FSSP format now supported
+- more functionality for alignment code
+- SubsMat bug fixes and updates
+- fixed memory leak in listfns bug fixes
+- Martel bundled and part of the install procedure
+- Medline.Parser bug fixes
+- PubMed.download_many handles broken IDs better
Mar 3, 2001: Biopython 1.00a1
- Refactoring of modules. X/X.py moved to X/__init__.py.
- Can search sequences for Prosite patterns at ExPASy
- Can do BLAST searches against stable URL at NCBI
- Prosite Pattern bug fixes
- GenBank parser
- Complete Seq and SeqFeatures framework
- distutils cleanup
- compile warning cleanups
- support for UniGene
- code for working with substitution matrices
- Tools.MultiProc package for rudimentary multiprocessing stuff
+=============================
+
+- Refactoring of modules. X/X.py moved to X/__init__.py.
+- Can search sequences for Prosite patterns at ExPASy
+- Can do BLAST searches against stable URL at NCBI
+- Prosite Pattern bug fixes
+- GenBank parser
+- Complete Seq and SeqFeatures framework
+- distutils cleanup
+- compile warning cleanups
+- support for UniGene
+- code for working with substitution matrices
+- Tools.MultiProc package for rudimentary multiprocessing stuff
Nov 10, 2000: Biopython 0.90d04
- Added support for multiple alignments, ClustalW
- BLAST updates, bug fixes, and BlastErrorParser
- Fixes for PSI-BLAST in master-slave mode
- Minor update in stringfns, split separators can be negated
- Added download_many function to PubMed
- xbbtools updates
- Prodoc parser now accepts a copyright at the end of a record
- Swiss-Prot parser now handles taxonomy ID tag
+===============================
+
+- Added support for multiple alignments, ClustalW
+- BLAST updates, bug fixes, and BlastErrorParser
+- Fixes for PSI-BLAST in master-slave mode
+- Minor update in stringfns, split separators can be negated
+- Added download_many function to PubMed
+- xbbtools updates
+- Prodoc parser now accepts a copyright at the end of a record
+- Swiss-Prot parser now handles taxonomy ID tag
Sept 6, 2000: Biopython 0.90d03
- Blast updates:
- - bug fixes in NCBIStandalone, NCBIWWW
- - some __str__ methods in Record.py implemented (incomplete)
- Tests
- - new BLAST regression tests
- - prosite tests fixed
- New parsers for Rebase, Gobase
- pure python implementation of C-based tools
- Thomas Sicheritz-Ponten's xbbtools
- can now generate documentation from docstrings using HappyDoc
+===============================
+
+- Blast updates:
+
+ - bug fixes in NCBIStandalone, NCBIWWW
+ - some __str__ methods in Record.py implemented (incomplete)
+
+- Tests:
+
+ - new BLAST regression tests
+ - prosite tests fixed
+
+- New parsers for Rebase, Gobase
+- pure python implementation of C-based tools
+- Thomas Sicheritz-Ponten's xbbtools
+- can now generate documentation from docstrings using HappyDoc
Aug17-18, 2000: Bioinformatics Open Source Conference 2000
+==========================================================
+
We had a very good Birds-of-a-Feather meeting:
http://www.biopython.org/pipermail/biopython/2000-August/000360.html
Aug 2, 2000: Biopython 0.90d02 is released.
- Blast updates:
- - now works with v2.0.14
- - HSP.identities and HSP.positives now tuples
- - HSP.gaps added
- SCOP updates:
- - Lin.Iterator now works with release 50
- Starting a tutorial
- New regression tests for Prodoc
+===========================================
+
+- Blast updates:
+ - now works with v2.0.14
+ - HSP.identities and HSP.positives now tuples
+ - HSP.gaps added
+- SCOP updates:
+ - Lin.Iterator now works with release 50
+- Starting a tutorial
+- New regression tests for Prodoc
+
July 6, 2000: Biopython 0.90d01 is released.
+============================================
+
February 8, 2000: Anonymous CVS made available.
+===============================================
-August 1999
-Biopython project founded.
+August 1999: Biopython project founded.
+=======================================
Call for Participation sent out to relevant mailing lists, news
groups.
diff --git a/README b/README
deleted file mode 100644
index 133390d..0000000
--- a/README
+++ /dev/null
@@ -1,260 +0,0 @@
-Biopython README file
-=====================
-
-The Biopython Project is an international association of developers of freely
-available Python tools for computational molecular biology.
-
-Our user-centric documentation is hosted on http://biopython.org including
-the main Biopython Tutorial and Cookbook:
-
-* HTML - http://biopython.org/DIST/docs/tutorial/Tutorial.html
-* PDF - http://biopython.org/DIST/docs/tutorial/Tutorial.pdf
-
-This README file is intended primarily for people interested in working
-with the Biopython source code, either one of the releases from the
-http://biopython.org website, or from our repository on GitHub
-https://github.com/biopython/biopython
-
-This Biopython package is open source software made available under generous
-terms. Please see the LICENSE file for further details.
-
-If you use Biopython in work contributing to a scientific publication, we ask
-that you cite our application note (below) or one of the module specific
-publications (listed on our website):
-
-Cock, P.J.A. et al. Biopython: freely available Python tools for computational
-molecular biology and bioinformatics. Bioinformatics 2009 Jun 1; 25(11) 1422-3
-http://dx.doi.org/10.1093/bioinformatics/btp163 pmid:19304878
-
-
-For the impatient
-=================
-
-Windows users are currently recommended to use the installation packages provided
-on our website, http://biopython.org -- further instructions are given below.
-
-Python 2.7.9 onwards, and Python 3.4 onwards, include the package management
-system "pip" which should allow you to install Biopython with just::
-
- pip install numpy
- pip install biopython
-
-Otherwise you may have to build and install Biopython. Download and unzip the
-source code, go to this directory at the command line, and type::
-
- python setup.py build
- python setup.py test
- sudo python setup.py install
-
-Here you can replace ``python`` with a specific version, e.g. ``python3.5``.
-
-
-Python Requirements
-===================
-
-We currently recommend using Python 3.5 from http://www.python.org
-
-Biopython is currently supported and tested on the following Python
-implementations:
-
-- Python 2.6, 2.7, 3.3, 3.4, 3.5 -- see http://www.python.org
-
- This is the primary development platform for Biopython.
-
-- PyPy 5.0.1 and also PyPy3 2.4 -- see http://www.pypy.org
-
- Aside from modules with C code or dependent on NumPy, everything should
- work. PyPy's NumPy reimplementation NumPyPy is still in progress.
-
-- Jython 2.7 -- see http://www.jython.org
-
- We provide limited support for Jython, but aside from modules with C code,
- or dependent on SQLite3 or NumPy, everything should work. There are some
- known issues with test failures which have not yet been resolved.
-
-Please note that support for Python 3.3 is deprecated as of Biopython 1.67,
-and that support for Python 2.6 is deprecated as of Biopython 1.66.
-Biopython 1.62 was our final release to support Python 2.5 and Jython 2.5.
-
-
-Dependencies
-============
-
-Depending on which parts of Biopython you plan to use, there are a
-number of other optional Python dependencies - which can in general
-be installed after Biopython.
-
-- NumPy, see http://www.numpy.org (optional, but strongly recommended)
- This package is only used in the computationally-oriented modules.
- It is required for Bio.Cluster, Bio.PDB and a few other modules. If you
- think you might need these modules, then please install NumPy first BEFORE
- installing Biopython. The older Numeric library is no longer supported in
- Biopython.
-
-- ReportLab, see http://www.reportlab.com/opensource/ (optional)
- This package is only used in Bio.Graphics, so if you do not need this
- functionality, you will not need to install this package. You can install
- it later if needed.
-
-- matplotlib, see http://matplotlib.org/ (optional)
- Bio.Phylo uses this package to plot phylogenetic trees. As with ReportLab,
- you can install this at any time to enable the plotting functionality.
-
-- networkx, see http://networkx.lanl.gov/ (optional) and
- pygraphviz or pydot, see http://networkx.lanl.gov/pygraphviz/ and
- http://code.google.com/p/pydot/ (optional)
- These packages are used for certain niche functions in Bio.Phylo.
- Again, they are only needed to enable these functions and can be installed
- later if needed.
-
-- rdflib, see https://github.com/RDFLib/rdflib (optional)
- This package is used in the CDAO parser under Bio.Phylo, and can be installed
- as needed.
-
-- psycopg2, see http://initd.org/psycopg/ (optional) or
- PyGreSQL (pgdb), see http://www.pygresql.org/ (optional)
- These packages are used by BioSQL to access a PostgreSQL database.
-
-- MySQL Connector/Python, see http://dev.mysql.com/downloads/connector/python/
- This package is used by BioSQL to access a MySQL database, and is
- supported on Python 2 and 3 and PyPy too.
-
-- MySQLdb, see http://sourceforge.net/projects/mysql-python (optional)
- This is an older alternative package used by BioSQL to access a MySQL
- database, but it is not available for Python 3 or PyPy.
-
-Note that some of these libraries are not available for Jython or PyPy,
-and not all are available for Python 3 yet either.
-
-In addition there are a number of useful third party tools you may wish to
-install such as standalone NCBI BLAST, EMBOSS or ClustalW.
-
-
-Installation
-============
-
-First, **make sure that Python is installed correctly**. Second, we
-recommend you install NumPy (see above). Then install Biopython.
-
-Windows users should use the appropriate provided installation package
-from our website (each is specific to a different Python version).
-
-Installation from source should be as simple as going to the Biopython
-source code directory, and typing::
-
- python setup.py build
- python setup.py test
- sudo python setup.py install
-
-Substitute `python` with your specific version, for example `python3`,
-`jython` or `pypy`.
-
-If you need to do additional configuration, e.g. changing the base
-directory, please type `python setup.py`, or see the documentation here:
-
-* HTML - http://biopython.org/DIST/docs/install/Installation.html
-* PDF - http://biopython.org/DIST/docs/install/Installation.pdf
-
-
-Testing
-=======
-
-Biopython includes a suite of regression tests to check if everything is
-running correctly. To run the tests, go to the biopython source code
-directory and type::
-
- python setup.py test
-
-Do not panic if you see messages warning of skipped tests::
-
- test_DocSQL ... skipping. Install MySQLdb if you want to use Bio.DocSQL.
-
-This most likely means that a package is not installed. You can
-ignore this if it occurs in the tests for a module that you were not
-planning on using. If you did want to use that module, please install
-the required dependency and re-run the tests.
-
-There is more testing information in the Biopython Tutorial & Cookbook.
-
-
-Experimental code
-=================
-
-Biopython 1.61 introduced a new warning, `Bio.BiopythonExperimentalWarning`,
-which is used to mark any experimental code included in the otherwise
-stable Biopython releases. Such 'beta' level code is ready for wider
-testing, but still likely to change, and should only be tried by early
-adopters in order to give feedback via the biopython-dev mailing list.
-
-We'd expect such experimental code to reach stable status within one or two
-releases, at which point our normal policies about trying to preserve
-backwards compatibility would apply.
-
-
-Bugs
-====
-
-While we try to ship a robust package, bugs inevitably pop up. If you are
-having problems that might be caused by a bug in Biopython, it is possible
-that it has already been identified. Update to the latest release if you are
-not using it already, and retry. If the problem persists, please search our
-bug database and our mailing lists to see if it has already been reported
-(and hopefully fixed), and if not please do report the bug. We can't fix
-problems we don't know about ;)
-
-* Old issue tracker: https://redmine.open-bio.org/projects/biopython
-* Current issue tracker: https://github.com/biopython/biopython/issues
-
-If you suspect the problem lies within a parser, it is likely that the data
-format has changed and broken the parsing code. (The text BLAST and GenBank
-formats seem to be particularly fragile.) Thus, the parsing code in
-Biopython is sometimes updated faster than we can build Biopython releases.
-You can get the most recent parser by pulling the relevant files (e.g. the
-ones in `Bio.SeqIO` or `Bio.Blast`) from our git repository. However, be
-careful when doing this, because the code in github is not as well-tested
-as released code, and may contain new dependencies.
-
-Finally, you can send a bug report to the bug database or the mailing list at
-biopython at biopython.org. In the bug report, please let us know:
-
-1. Which operating system and hardware (32 bit or 64 bit) you are using
-2. Python version
-3. Biopython version (or git commit/date)
-4. Traceback that occurs (the full error message)
-
-And also ideally:
-
-5. Example code that breaks
-6. A data file that causes the problem
-
-
-Contributing, Bug Reports
-=========================
-
-Biopython is run by volunteers from all over the world, with many types of
-backgrounds. We are always looking for people interested in helping with code
-development, web-site management, documentation writing, technical
-administration, and whatever else comes up.
-
-If you wish to contribute, please visit the web site http://biopython.org
-and join our mailing list: http://biopython.org/wiki/Mailing_lists
-
-
-Distribution Structure
-======================
-
-- README -- This file.
-- NEWS -- Release notes and news.
-- LICENSE -- What you can do with the code.
-- CONTRIB -- An (incomplete) list of people who helped Biopython in
- one way or another.
-- DEPRECATED -- Contains information about modules in Biopython that are
- removed or no longer recommended for use, and how to update
- code that uses those modules.
-- MANIFEST.in -- Tells distutils what files to distribute.
-- setup.py -- Installation file.
-- Bio/ -- The main code base code.
-- BioSQL/ -- Code for using Biopython with BioSQL databases.
-- Doc/ -- Documentation.
-- Scripts/ -- Miscellaneous, possibly useful, standalone scripts.
-- Tests/ -- Regression testing code including sample data files.
diff --git a/README b/README
new file mode 120000
index 0000000..92cacd2
--- /dev/null
+++ b/README
@@ -0,0 +1 @@
+README.rst
\ No newline at end of file
diff --git a/README.rst b/README.rst
deleted file mode 120000
index 100b938..0000000
--- a/README.rst
+++ /dev/null
@@ -1 +0,0 @@
-README
\ No newline at end of file
diff --git a/README.rst b/README.rst
new file mode 100644
index 0000000..ce31690
--- /dev/null
+++ b/README.rst
@@ -0,0 +1,294 @@
+.. image:: https://img.shields.io/pypi/v/biopython.svg
+ :alt: Biopython on the Python Package Index (PyPI)
+ :target: https://pypi.python.org/pypi/biopython
+.. image:: https://img.shields.io/travis/biopython/biopython/master.svg
+ :alt: Linux testing with TravisCI
+ :target: https://travis-ci.org/biopython/biopython/branches
+.. image:: https://img.shields.io/appveyor/ci/biopython/biopython/master.svg
+ :alt: Windows testing with AppVeyor
+ :target: https://ci.appveyor.com/project/biopython/biopython/history
+.. image:: https://img.shields.io/codecov/c/github/biopython/biopython/master.svg
+ :alt: TravisCI test coverage
+ :target: https://codecov.io/github/biopython/biopython/
+.. image:: https://landscape.io/github/biopython/biopython/master/landscape.svg?style=flat
+ :alt: Landscape Code Metrics
+ :target: https://landscape.io/github/biopython/biopython
+.. image:: http://depsy.org/api/package/pypi/biopython/badge.svg
+ :alt: Research software impact on Depsy
+ :target: http://depsy.org/package/python/biopython
+
+.. image:: https://github.com/biopython/biopython/raw/master/Doc/images/biopython_logo_m.png
+ :alt: The Biopython Project
+ :target: http://biopython.org
+
+Biopython README file
+=====================
+
+The Biopython Project is an international association of developers of freely
+available Python tools for computational molecular biology.
+
+Our user-centric documentation is hosted on http://biopython.org including
+the main Biopython Tutorial and Cookbook:
+
+* HTML - http://biopython.org/DIST/docs/tutorial/Tutorial.html
+* PDF - http://biopython.org/DIST/docs/tutorial/Tutorial.pdf
+
+This README file is intended primarily for people interested in working
+with the Biopython source code, either one of the releases from the
+http://biopython.org website, or from our repository on GitHub
+https://github.com/biopython/biopython
+
+The `NEWS <https://github.com/biopython/biopython/blob/master/NEWS.rst>`_
+file summarises the changes in each release of Biopython.
+
+The Biopython package is open source software made available under generous
+terms. Please see the `LICENSE
+<https://github.com/biopython/biopython/blob/master/LICENSE.rst>`_ file for
+further details.
+
+If you use Biopython in work contributing to a scientific publication, we ask
+that you cite our application note (below) or one of the module specific
+publications (listed on our website):
+
+Cock, P.J.A. et al. Biopython: freely available Python tools for computational
+molecular biology and bioinformatics. Bioinformatics 2009 Jun 1; 25(11) 1422-3
+http://dx.doi.org/10.1093/bioinformatics/btp163 pmid:19304878
+
+
+For the impatient
+=================
+
+Windows users are currently recommended to use the installation packages provided
+on our website, http://biopython.org -- further instructions are given below.
+
+Python 2.7.9 onwards, and Python 3.4 onwards, include the package management
+system "pip" which should allow you to install Biopython with just::
+
+ pip install numpy
+ pip install biopython
+
+Otherwise you may have to build and install Biopython, which is described below.
+
+
+Python Requirements
+===================
+
+We currently recommend using Python 3.6 from http://www.python.org
+
+Biopython is currently supported and tested on the following Python
+implementations:
+
+- Python 2.7, 3.4, 3.5, 3.6 -- see http://www.python.org
+
+ This is the primary development platform for Biopython.
+
+- PyPy v5.7 and also PyPy3.5 v5.8 beta -- see http://www.pypy.org
+
+ Aside from ``Bio.trie`` (which does not compile as ``marshal.h`` is
+ currently missing under PyPy), everything should work. Older versions
+ of PyPy mostly work too.
+
+- Jython 2.7 -- see http://www.jython.org
+
+ We have decided to deprecate support for Jython, but aside from
+ ``Bio.Restriction``, modules with C code, or dependent on SQLite3 or NumPy,
+ everything should work. There are some known issues with test failures
+ which have not yet been resolved.
+
+Biopython 1.68 was our final release to support Python 2.6.
+
+
+Dependencies
+============
+
+The following are required at compile time - unless you are using Jython
+(support for which is deprecated) or IronPython (which we do not officially
+support):
+
+- NumPy, see http://www.numpy.org
+ This package is used in ``Bio.Cluster``, ``Bio.PDB`` and a few other modules.
+ We use the NumPy C API, which means it must be installed *before* compiling
+ Biopython's C code.
+
+
+Optional Dependencies
+=====================
+
+Depending on which parts of Biopython you plan to use, there are a number of
+other optional Python dependencies, which can be installed later if needed:
+
+- ReportLab, see http://www.reportlab.com/opensource/ (optional)
+ This package is only used in ``Bio.Graphics``, so if you do not need this
+ functionality, you will not need to install this package.
+
+- matplotlib, see http://matplotlib.org/ (optional)
+ ``Bio.Phylo`` uses this package to plot phylogenetic trees.
+
+- networkx, see http://networkx.lanl.gov/ (optional) and
+ pygraphviz or pydot, see http://networkx.lanl.gov/pygraphviz/ and
+ http://code.google.com/p/pydot/ (optional)
+ These packages are used for certain niche functions in ``Bio.Phylo``.
+
+- rdflib, see https://github.com/RDFLib/rdflib (optional)
+ This package is used in the CDAO parser under ``Bio.Phylo``.
+
+- psycopg2, see http://initd.org/psycopg/ (optional) or
+ PyGreSQL (pgdb), see http://www.pygresql.org/ (optional)
+ These packages are used by ``BioSQL`` to access a PostgreSQL database.
+
+- MySQL Connector/Python, see http://dev.mysql.com/downloads/connector/python/
+ This package is used by ``BioSQL`` to access a MySQL database, and is
+ supported on Python 2 and 3 and PyPy too.
+
+- MySQLdb, see http://sourceforge.net/projects/mysql-python (optional)
+ This is an older alternative package used by ``BioSQL`` to access a MySQL
+ database, but it is not available for Python 3 or PyPy.
+
+Note that some of these libraries are not available for Jython or PyPy,
+and not all are available for Python 3 yet either.
+
+In addition there are a number of useful third party tools you may wish to
+install such as standalone NCBI BLAST, EMBOSS or ClustalW.
+
+
+Installation
+============
+
+First, **make sure that Python is installed correctly**. Second (except
+for Jython or IronPython), **make sure NumPy is installed**. Then
+install Biopython.
+
+Windows users should use the appropriate provided installation package
+from our website (each is specific to a different Python version).
+
+Python 2.7.9 onwards, and Python 3.4 onwards, include the package management
+system "pip" which should allow you to install Biopython with just::
+
+ pip install numpy
+ pip install biopython
+
+Otherwise you may have to build and install Biopython which should be as
+going to the Biopython source code directory, and typing::
+
+ python setup.py build
+ python setup.py test
+ sudo python setup.py install
+
+Substitute ``python`` with your specific version, for example ``python3``,
+``jython`` or `pypy``.
+
+If you need to do additional configuration, e.g. changing the base
+directory, please type ``python setup.py``, or see the documentation here:
+
+* HTML - http://biopython.org/DIST/docs/install/Installation.html
+* PDF - http://biopython.org/DIST/docs/install/Installation.pdf
+
+
+Testing
+=======
+
+Biopython includes a suite of regression tests to check if everything is
+running correctly. To run the tests, go to the biopython source code
+directory and type::
+
+ python setup.py build
+ python setup.py test
+
+Do not panic if you see messages warning of skipped tests::
+
+ test_DocSQL ... skipping. Install MySQLdb if you want to use Bio.DocSQL.
+
+This most likely means that a package is not installed. You can
+ignore this if it occurs in the tests for a module that you were not
+planning on using. If you did want to use that module, please install
+the required dependency and re-run the tests.
+
+Some of the tests may fail due to network issues, this is often down to
+chance or a service outage. If the problem does not go away on
+re-running the tests, it is possible to run only the offline tests.
+
+There is more testing information in the Biopython Tutorial & Cookbook.
+
+
+Experimental code
+=================
+
+Biopython 1.61 introduced a new warning, ``Bio.BiopythonExperimentalWarning``,
+which is used to mark any experimental code included in the otherwise
+stable Biopython releases. Such 'beta' level code is ready for wider
+testing, but still likely to change, and should only be tried by early
+adopters in order to give feedback via the biopython-dev mailing list.
+
+We'd expect such experimental code to reach stable status within one or two
+releases, at which point our normal policies about trying to preserve
+backwards compatibility would apply.
+
+
+Bugs
+====
+
+While we try to ship a robust package, bugs inevitably pop up. If you are
+having problems that might be caused by a bug in Biopython, it is possible
+that it has already been identified. Update to the latest release if you are
+not using it already, and retry. If the problem persists, please search our
+bug database and our mailing lists to see if it has already been reported
+(and hopefully fixed), and if not please do report the bug. We can't fix
+problems we don't know about ;)
+
+* Old issue tracker: https://redmine.open-bio.org/projects/biopython
+* Current issue tracker: https://github.com/biopython/biopython/issues
+
+If you suspect the problem lies within a parser, it is likely that the data
+format has changed and broken the parsing code. (The text BLAST and GenBank
+formats seem to be particularly fragile.) Thus, the parsing code in
+Biopython is sometimes updated faster than we can build Biopython releases.
+You can get the most recent parser by pulling the relevant files (e.g. the
+ones in ``Bio.SeqIO`` or ``Bio.Blast``) from our git repository. However, be
+careful when doing this, because the code in github is not as well-tested
+as released code, and may contain new dependencies.
+
+Finally, you can send a bug report to the bug database or the mailing list at
+biopython at biopython.org (subscription required). In the bug report, please
+let us know:
+
+1. Which operating system and hardware (32 bit or 64 bit) you are using
+2. Python version
+3. Biopython version (or git commit/date)
+4. Traceback that occurs (the full error message)
+
+And also ideally:
+
+5. Example code that breaks
+6. A data file that causes the problem
+
+
+Contributing, Bug Reports
+=========================
+
+Biopython is run by volunteers from all over the world, with many types of
+backgrounds. We are always looking for people interested in helping with code
+development, web-site management, documentation writing, technical
+administration, and whatever else comes up.
+
+If you wish to contribute, please visit the web site http://biopython.org
+and join our mailing list: http://biopython.org/wiki/Mailing_lists
+
+
+Distribution Structure
+======================
+
+- ``README.rst`` -- This file.
+- ``NEWS.rst`` -- Release notes and news.
+- ``LICENSE.rst`` -- What you can do with the code.
+- ``CONTRIB.rst`` -- An (incomplete) list of people who helped Biopython in
+ one way or another.
+- ``DEPRECATED.rst`` -- Contains information about modules in Biopython that are
+ removed or no longer recommended for use, and how to update code that uses
+ those modules.
+- ``MANIFEST.in`` -- Configures which files to include in releases.
+- ``setup.py`` -- Installation file.
+- ``Bio/`` -- The main code base code.
+- ``BioSQL/`` -- Code for using Biopython with BioSQL databases.
+- ``Doc/`` -- Documentation.
+- ``Scripts/`` -- Miscellaneous, possibly useful, standalone scripts.
+- ``Tests/`` -- Regression testing code including sample data files.
diff --git a/Scripts/.flake8 b/Scripts/.flake8
new file mode 100644
index 0000000..9ed7fcd
--- /dev/null
+++ b/Scripts/.flake8
@@ -0,0 +1,27 @@
+[flake8]
+doctests = True
+max-line-length = 90
+ignore =
+ # =======================
+ # flake: E###, F###, W###
+ # =======================
+ # pycodestyle v2.3.1 default ignore is E121,E123,E126,E226,E24,E704,W503
+ # flake8 v3.3.0 default ignore is E121,E123,E126,E226,E24,E704,W503,W504
+ # E122,E123,E126,E127,E128,E241,E402,E501,E731,F401,F405,F821,F841,
+ # =====================================
+ # pydocstyle: D### - Missing Docstrings
+ # =====================================
+ # D100 Missing docstring in public module
+ # D101 Missing docstring in public class
+ # D102 Missing docstring in public method
+ # D103 Missing docstring in public function
+ # D104 Missing docstring in public package
+ # D105 Missing docstring in magic method
+ # TODO: Fix some of these?
+ D100,D101,D102,D103,D105,
+ # ====================================
+ # pydocstyle: D### - Whitespace Issues
+ # ====================================
+ # D412 No blank lines allowed between a section header and its content
+ # We ignore D412 deliberately:
+ D412
diff --git a/Scripts/GenBank/check_output.py b/Scripts/GenBank/check_output.py
index 0bc9764..4bedd1b 100644
--- a/Scripts/GenBank/check_output.py
+++ b/Scripts/GenBank/check_output.py
@@ -87,6 +87,7 @@ def write_format(file):
cur_handle.close()
compare_handle.close()
+
if __name__ == "__main__":
if len(sys.argv) != 2:
print(__doc__)
diff --git a/Scripts/Performance/biosql_performance_load.py b/Scripts/Performance/biosql_performance_load.py
index f4cb88a..514238b 100644
--- a/Scripts/Performance/biosql_performance_load.py
+++ b/Scripts/Performance/biosql_performance_load.py
@@ -1,6 +1,5 @@
#!/usr/bin/env python
-"""Small script to test timing of loading records into a BioSQL database.
-"""
+"""Test timing of loading records into a BioSQL database."""
from __future__ import print_function
import time
@@ -8,7 +7,6 @@ import time
from Bio import GenBank
from BioSQL import BioSeqDatabase
-__docformat__ = "restructuredtext en"
server = BioSeqDatabase.open_database(host="192.168.0.192", user="root",
passwd="", db="pythonloadtest")
diff --git a/Scripts/Performance/biosql_performance_read.py b/Scripts/Performance/biosql_performance_read.py
index 8484570..b6e4a3d 100644
--- a/Scripts/Performance/biosql_performance_read.py
+++ b/Scripts/Performance/biosql_performance_read.py
@@ -1,13 +1,11 @@
#!/usr/bin/env python
-"""Small script to test timing of getting records from a BioSQL database.
-"""
+"""Test timing of getting records from a BioSQL database."""
from __future__ import print_function
import time
# set up the connection
from BioSQL import BioSeqDatabase
-__docformat__ = "restructuredtext en"
server = BioSeqDatabase.open_database(host="192.168.0.192", user="root",
passwd="", db="test_biosql")
diff --git a/Scripts/Restriction/ranacompiler.py b/Scripts/Restriction/ranacompiler.py
index 82237cd..ad00396 100644
--- a/Scripts/Restriction/ranacompiler.py
+++ b/Scripts/Restriction/ranacompiler.py
@@ -24,12 +24,11 @@
"""Convert a series of Rebase files into a Restriction_Dictionary.py module.
The Rebase files are in the emboss format:
+ - `emboss_e.###` - contains information about the restriction sites.
+ - `emboss_r.###` - contains general information about the enzymes.
+ - `emboss_s.###` - contains information about the suppliers.
- emboss_e.### -> contains information about the restriction sites.
- emboss_r.### -> contains general information about the enzymes.
- emboss_s.### -> contains information about the suppliers.
-
-Here ### is the 3 digit number REBASE release number (e.g. 312). The first
+Here `###` is the 3 digit number REBASE release number (e.g. 312). The first
digit is the last digit of the year (e.g. 3 for 2013) and the two last the
month (e.g. 12 for December).
@@ -37,9 +36,8 @@ There files are available by FTP from ftp://ftp.neb.com/pub/rebase/ which
should allow automated fetching (the the update code and RanaConfig.py).
In addition there are links on this HTML page which requires manual download
and renaming of the files: http://rebase.neb.com/rebase/rebase.f37.html
-
This Python file is intended to be used via the scripts in
-Scripts/Restriction/*.py only.
+`Scripts/Restriction/*.py` only.
"""
from __future__ import print_function
@@ -68,9 +66,6 @@ from Bio.Restriction.Restriction import Commercially_available, Not_available
import Bio.Restriction.RanaConfig as config
from rebase_update import RebaseUpdate
-from Bio.Restriction.Restriction import *
-
-__docformat__ = "restructuredtext en"
enzymedict = {}
@@ -81,15 +76,18 @@ typedict = {}
class OverhangError(ValueError):
"""Exception for dealing with overhang."""
+
pass
def regex(site):
- """regex(site) -> string.
+ """Construct a regular expression (string) from a DNA sequence.
+
+ Example:
+
+ >>> regex('ABCGN')
+ 'A[CGT]CG.'
- Construct a regular expression from a DNA sequence.
- i.e.:
- site = 'ABCGN' -> 'A[CGT]CG.'
"""
reg_ex = str(site)
for base in reg_ex:
@@ -105,20 +103,25 @@ def regex(site):
def is_palindrom(sequence):
- """is_palindrom(sequence) -> bool.
+ """Check whether the sequence is a palindrome or not (DEPRECATED).
- True is the sequence is a palindrom.
- sequence is a Seq object.
+ Deprecated alias for is_palindrome (with e at end).
"""
+ import warnings
+ from Bio import BiopythonDeprecationWarning
+ warnings.warn("is_palindrom is deprecated, please use "
+ "is_palindrome instead.",
+ BiopythonDeprecationWarning)
+ return is_palindrome(sequence)
+
+
+def is_palindrome(sequence):
+ """Check whether the sequence is a palindrome or not."""
return str(sequence) == str(sequence.reverse_complement())
def LocalTime():
- """LocalTime() -> string.
-
- LocalTime calculate the extension for emboss file for the current year and
- month.
- """
+ """Extension for emboss file for the current year and month."""
t = time.gmtime()
year = str(t.tm_year)[-1]
month = str(t.tm_mon)
@@ -129,6 +132,7 @@ def LocalTime():
class newenzyme(object):
"""construct the attributes of the enzyme corresponding to 'name'."""
+
def __init__(cls, name):
cls.opt_temp = 37
cls.inact_temp = 65
@@ -272,17 +276,14 @@ class newenzyme(object):
class TypeCompiler(object):
- """Build the different types possible for Restriction Enzymes"""
+ """Build the different types possible for Restriction Enzymes."""
def __init__(self):
"""TypeCompiler() -> new TypeCompiler instance."""
pass
def buildtype(self):
- """TC.buildtype() -> generator.
-
- build the new types that will be needed for constructing the
- restriction enzymes."""
+ """Build new types that will be needed for constructing the enzymes."""
baT = (AbstractCut, RestrictionType)
cuT = (NoCut, OneCut, TwoCuts)
meT = (Meth_Dep, Meth_Undep)
@@ -290,7 +291,6 @@ class TypeCompiler(object):
ovT = (Unknown, Blunt, Ov5, Ov3)
deT = (NotDefined, Defined, Ambiguous)
coT = (Commercially_available, Not_available)
- All = (baT, cuT, meT, paT, ovT, deT, coT)
#
# Now build the types. Only the most obvious are left out.
# Modified even the most obvious are not so obvious.
@@ -332,6 +332,7 @@ class TypeCompiler(object):
yield klass()
n += 1
+
start = """#!/usr/bin/env python
#
# Restriction Analysis Libraries.
@@ -368,11 +369,7 @@ class DictionaryBuilder(object):
self.proxy = ftp_proxy or config.ftp_proxy
def build_dict(self):
- """DB.build_dict() -> None.
-
- Construct the dictionary and build the files containing the new
- dictionaries.
- """
+ """Construct dictionary and build files containing new dictionaries."""
#
# first parse the emboss files.
#
@@ -439,7 +436,6 @@ class DictionaryBuilder(object):
enzlst.append(name)
typedict[typename] = (bases, enzlst)
for letter in cls.__dict__['suppl']:
- supplier = suppliersdict[letter]
suppliersdict[letter][1].append(name)
if not classdict or not suppliersdict or not typedict:
print('One of the new dictionaries is empty.')
@@ -466,10 +462,11 @@ class DictionaryBuilder(object):
for name in sorted(classdict):
results.write("def _temp():\n")
results.write(" return {\n")
- for key, value in classdict[name].items():
+ for key, value in sorted(classdict[name].items()):
results.write(" %s: %s,\n" %
(repr(key), repr(value)))
results.write(" }\n")
+ results.write("\n\n")
results.write("rest_dict[%s] = _temp()\n" % repr(name))
results.write("\n\n")
print('OK.\n')
@@ -482,6 +479,7 @@ class DictionaryBuilder(object):
for value in suppliersdict[name]:
results.write(" %s,\n" % repr(value))
results.write(" )\n")
+ results.write("\n\n")
results.write("suppliers[%s] = _temp()\n" % repr(name))
results.write("\n\n")
print('OK.\n')
@@ -494,20 +492,18 @@ class DictionaryBuilder(object):
for value in typedict[name]:
results.write(" %s,\n" % repr(value))
results.write(" )\n")
+ results.write("\n\n")
results.write("typedict[%s] = _temp()\n" % repr(name))
results.write("\n\n")
# I had wanted to do "del _temp" at each stage (just for clarity),
# but that pushed the code size just over the Jython JVM limit. We
# include one the final "del _temp" to clean up the namespace.
results.write("del _temp\n")
- results.write("\n")
print('OK.\n')
return
def install_dict(self):
- """DB.install_dict() -> None.
-
- Install the newly created dictionary in the site-packages folder.
+ """Install the newly created dictionary in the site-packages folder.
May need super user privilege on some architectures.
"""
@@ -557,10 +553,7 @@ class DictionaryBuilder(object):
return
def no_install(self):
- """BD.no_install() -> None.
-
- build the new dictionary but do not install the dictionary.
- """
+ """Build the new dictionary but do not install the dictionary."""
print('\n ' + '*' * 78 + '\n')
# update = config.updatefolder
try:
@@ -593,10 +586,7 @@ class DictionaryBuilder(object):
return
def lastrebasefile(self):
- """BD.lastrebasefile() -> None.
-
- Check the emboss files are up to date and download them if not.
- """
+ """Check the emboss files are up to date and download them if not."""
embossnames = ('emboss_e', 'emboss_r', 'emboss_s')
#
# first check if we have the last update:
@@ -933,6 +923,7 @@ class DictionaryBuilder(object):
supplier = self.removestart(file3)
i1, i2 = 0, 0
+ oldblock = None
try:
while True:
block, i1 = self.getblock(methfile, i1)
@@ -1021,6 +1012,7 @@ def standalone():
options, args = parser.parse_args()
return options, args
+
if __name__ == '__main__':
options, args = standalone()
Builder = DictionaryBuilder(options.ftp_proxy)
diff --git a/Scripts/Restriction/rebase_update.py b/Scripts/Restriction/rebase_update.py
index 510315d..00d9171 100644
--- a/Scripts/Restriction/rebase_update.py
+++ b/Scripts/Restriction/rebase_update.py
@@ -8,8 +8,11 @@
# as part of this package.
#
-"""Update the Rebase emboss files used by Restriction to build the
-Restriction_Dictionary.py module."""
+"""Update the Rebase EMBOSS files.
+
+The Rebase EMBOSS files are used by `ranacompiler.py` to build the updated
+`Restriction_Dictionary.py` module for `Bio.Restriction`.
+"""
from __future__ import print_function
@@ -25,7 +28,8 @@ except ImportError:
# Python 3
from urllib.request import FancyURLopener
-from Bio.Restriction.RanaConfig import *
+from Bio.Restriction.RanaConfig import ftp_proxy, ftp_Rebase, Rebase_name
+from Bio.Restriction.RanaConfig import ftp_emb_e, ftp_emb_s, ftp_emb_r
class RebaseUpdate(FancyURLopener):
@@ -49,7 +53,7 @@ class RebaseUpdate(FancyURLopener):
print('\n Please wait, trying to connect to Rebase\n')
try:
self.open(name)
- except:
+ except Exception:
raise ConnectionError('Rebase')
return
diff --git a/Scripts/SeqGui/SeqGui.py b/Scripts/SeqGui/SeqGui.py
index fea8f4b..9b1664a 100644
--- a/Scripts/SeqGui/SeqGui.py
+++ b/Scripts/SeqGui/SeqGui.py
@@ -154,6 +154,7 @@ def set_statusbar(event):
statustext.set('This is the statusbar')
return
+
# Set commands and bind events
menue_single.bind('<<MenuSelect>>', set_statusbar)
apply_button.config(command=apply_operation)
diff --git a/Scripts/debug/debug_blast_parser.py b/Scripts/debug/debug_blast_parser.py
index c2d4a8e..a93ef00 100755
--- a/Scripts/debug/debug_blast_parser.py
+++ b/Scripts/debug/debug_blast_parser.py
@@ -99,11 +99,11 @@ def test_blast_output(outfile):
print("I'm going to run the data through the parser to see what happens...")
parser = parser_class()
try:
- rec = parser.parse_file(outfile)
+ parser.parse_file(outfile)
except (KeyboardInterrupt, SystemExit):
raise
- except Exception as x:
- exception_info = str(x)
+ except Exception as err:
+ exception_info = str(err)
print("Dang, the parsing failed.")
else:
print("Parsing succeeded, no problems detected.")
@@ -149,7 +149,7 @@ def test_blast_output(outfile):
consumer = DebuggingConsumer(consumer)
try:
scanner.feed(open(outfile), consumer)
- except etype as x:
+ except etype:
pass
else:
print("Odd, the exception disappeared! What happened?")
@@ -194,7 +194,7 @@ def test_blast_output(outfile):
try:
parser_class()._scanner.feed(
open(outfile), ParserSupport.TaggingConsumer())
- except etype as x:
+ except etype:
pass
print("*" * 20 + " END SCANNER TRACE " + "*" * 20)
print("")
@@ -218,8 +218,8 @@ VERBOSITY = 0
if __name__ == '__main__':
try:
optlist, args = getopt.getopt(sys.argv[1:], "hpnov")
- except getopt.error as x:
- sys.stderr.write("%s\n" % x)
+ except getopt.error as err:
+ sys.stderr.write("%s\n" % err)
sys.exit(-1)
if len(args) != 1:
sys.stderr.write(USAGE)
diff --git a/Scripts/query_pubmed.py b/Scripts/query_pubmed.py
index 5ad74da..8634112 100755
--- a/Scripts/query_pubmed.py
+++ b/Scripts/query_pubmed.py
@@ -26,6 +26,7 @@ Arguments:
* http://www.ncbi.nlm.nih.gov/Entrez/
""")
+
if __name__ == '__main__':
try:
optlist, args = getopt.getopt(sys.argv[1:], "hcd:")
diff --git a/Scripts/scop_pdb.py b/Scripts/scop_pdb.py
index d7d7ff6..c30ef70 100755
--- a/Scripts/scop_pdb.py
+++ b/Scripts/scop_pdb.py
@@ -57,6 +57,7 @@ Usage: scop_pdb [-h] [-i file] [-o file] [-p pdb_url_prefix]
sid -- A SCOP domain identifier. e.g. d3hbib_
""")
+
default_pdb_url = "http://www.rcsb.org/pdb/cgi/export.cgi/somefile.pdb?" \
"format=PDB&pdbId=%s&compression=None"
# default_pdb_url = "file://usr/local/db/pdb/data/010331/snapshot/all/pdb%s.ent"
diff --git a/Scripts/xbbtools/nextorf.py b/Scripts/xbbtools/nextorf.py
index a6f3e90..419f181 100755
--- a/Scripts/xbbtools/nextorf.py
+++ b/Scripts/xbbtools/nextorf.py
@@ -14,7 +14,6 @@ from __future__ import print_function
import re
import sys
-import os
import getopt
from Bio import SeqIO
@@ -27,6 +26,7 @@ from Bio.Data import IUPACData, CodonTable
class ProteinX(Alphabet.ProteinAlphabet):
letters = IUPACData.extended_protein_letters + "X"
+
proteinX = ProteinX()
@@ -63,7 +63,6 @@ class NextOrf(object):
handle = open(self.file)
for record in SeqIO.parse(handle, "fasta"):
self.header = record.id
- frame_coordinates = ''
dir = self.options['strand']
plus = dir in ['both', 'plus']
minus = dir in ['both', 'minus']
@@ -120,7 +119,7 @@ class NextOrf(object):
try:
n = d['G'][i] + d['C'][i] + d['T'][i] + d['A'][i]
gc[i] = (d['G'][i] + d['C'][i]) * 100.0 / n
- except:
+ except KeyError:
gc[i] = 0
gcall = gcall + d['G'][i] + d['C'][i]
@@ -131,10 +130,7 @@ class NextOrf(object):
return res
def GetOrfCoordinates(self, seq):
- s = seq.data
- letters = []
- table = self.table
- get = self.table.forward_table.get
+ s = str(seq)
n = len(seq)
start_codons = self.table.start_codons
stop_codons = self.table.stop_codons
@@ -197,7 +193,6 @@ class NextOrf(object):
def Output(self, CDS):
out = self.options['output']
- seqs = (self.seq, self.rseq)
n = len(self.seq)
for start, stop, length, subs, strand in CDS:
self.counter += 1
@@ -210,13 +205,13 @@ class NextOrf(object):
n - stop + 1,
n - start + 1)
if self.options['gc']:
- head = '%s:%s' % (head, self.Gc2(subs.data))
+ head = '%s:%s' % (head, self.Gc2(subs))
if out == 'aa':
orf = subs.translate(table=self.genetic_code)
- print(self.ToFasta(head, orf.data))
+ print(self.ToFasta(head, str(orf)))
elif out == 'nt':
- print(self.ToFasta(head, subs.data))
+ print(self.ToFasta(head, str(subs)))
elif out == 'pos':
print(head)
diff --git a/Scripts/xbbtools/xbb_blast.py b/Scripts/xbbtools/xbb_blast.py
index bb78164..0ba48c3 100644
--- a/Scripts/xbbtools/xbb_blast.py
+++ b/Scripts/xbbtools/xbb_blast.py
@@ -174,7 +174,7 @@ class BlastIt(object):
self.ok.config(state='disabled')
def _Run(self):
- """Setup options for Blast commandline (PRIVATE)."""
+ """Initialise options for Blast commandline (PRIVATE)."""
command_options = self.option.get()
options = ''
if len(command_options.strip()):
diff --git a/Scripts/xbbtools/xbb_blastbg.py b/Scripts/xbbtools/xbb_blastbg.py
index cbf8808..e4bfc34 100644
--- a/Scripts/xbbtools/xbb_blastbg.py
+++ b/Scripts/xbbtools/xbb_blastbg.py
@@ -97,7 +97,7 @@ class BlastDisplayer(object):
txt = fid.read()
self.tid.insert('end', txt)
self.tid.update()
- except:
+ except Exception:
# text widget is detroyed, we assume the search
# has been cancelled
pass
@@ -129,6 +129,7 @@ class BlastWorker(threading.Thread):
'BLAST error:\n\n' + str(e))
self.finished = 1
+
if __name__ == '__main__':
os.system('python xbb_blast.py' +
' ATGACAAAGCTAATTATTCACTTGGTTTCAGACTCTTCTGTGCAAACTGC')
diff --git a/Scripts/xbbtools/xbb_translations.py b/Scripts/xbbtools/xbb_translations.py
index 21fdf45..459821d 100644
--- a/Scripts/xbbtools/xbb_translations.py
+++ b/Scripts/xbbtools/xbb_translations.py
@@ -85,7 +85,7 @@ class xbb_translations(object):
return res
def gc(self, seq):
- """Returns a float between 0 and 100."""
+ """Return a float between 0 and 100."""
return GC(seq)
def gcframe(self, seq, translation_table=1, direction='both'):
@@ -124,6 +124,7 @@ class xbb_translations(object):
return res
+
if __name__ == '__main__':
s = 'ATTCCGGTTGATCCTGCCGGACCCGACCGCTATCGGGGTAGGGATAAGCCATGGGAGTCT' \
'TACACTCCCGGGTAAGGGAGTGTGGCGGACGGCTGAGTAACACGTGGCTAACCTACCCTC' \
diff --git a/Scripts/xbbtools/xbb_widget.py b/Scripts/xbbtools/xbb_widget.py
index 334878b..3557708 100644
--- a/Scripts/xbbtools/xbb_widget.py
+++ b/Scripts/xbbtools/xbb_widget.py
@@ -479,6 +479,7 @@ class xbb_widget(object):
self.sequence_id.mark_set('insert', '1.%d' % start)
self.sequence_id.tag_add('sel', '1.%d' % start, '1.%d' % stop)
+
if __name__ == '__main__':
win = tk.Tk()
xbbtools = xbb_widget()
diff --git a/Tests/.coveragerc b/Tests/.coveragerc
new file mode 100644
index 0000000..e0b3e35
--- /dev/null
+++ b/Tests/.coveragerc
@@ -0,0 +1,18 @@
+# This is a configuration file for the Python testing tool
+# "coverage", see https://bitbucket.org/ned/coveragepy
+#
+# Biopython uses this via TravisCI/Tox to report test coverage
+# to https://codecov.io/gh/biopython/biopython
+
+[report]
+# Regexes for lines to exclude from consideration
+exclude_lines =
+ # Have to re-enable the standard pragma
+ pragma: no cover
+
+ # Don't complain about missing debug-only code:
+ if __debug__:
+
+ # Don't complain about any self-tests or the handful
+ # of files with a directly executable bit of code:
+ if __name__ == .__main__.:
diff --git a/Tests/.flake8 b/Tests/.flake8
new file mode 100644
index 0000000..c3404a5
--- /dev/null
+++ b/Tests/.flake8
@@ -0,0 +1,53 @@
+[flake8]
+doctests = True
+ignore =
+ # =======================
+ # flake: E###, F###, W###
+ # =======================
+ # pycodestyle v2.3.1 default ignore is E121,E123,E126,E226,E24,E704,W503
+ # flake8 v3.3.0 default ignore is E121,E123,E126,E226,E24,E704,W503,W504
+ E122,E123,E126,E127,E128,E241,E402,E501,E731,F401,F405,F821,F841,
+ # =====================================
+ # pydocstyle: D1## - Missing Docstrings
+ # =====================================
+ # D100 Missing docstring in public module
+ # D101 Missing docstring in public class
+ # D102 Missing docstring in public method
+ # D103 Missing docstring in public function
+ # D104 Missing docstring in public package
+ # D105 Missing docstring in magic method
+ # TODO: Fix some of these?
+ D100,D101,D102,D103,D105,
+ # ====================================
+ # pydocstyle: D2## - Whitespace Issues
+ # ====================================
+ # D200 One-line docstring should fit on one line with quotes
+ # D202 No blank lines allowed after function docstring
+ # D203 1 blank line required before class docstring
+ # D204 1 blank line required after class docstring
+ # TODO: Fix these:
+ D200,D202,D204,
+ # We ignore D203 deliberately in favour of passing D211,
+ D203,
+ # ================================
+ # pydocstyle: D3## - Quotes Issues
+ # ================================
+ # D300 Use """triple double quotes"""
+ # TODO: Fix this:
+ D300,
+ # ===========================================
+ # pydocstyle: D4## - Docstring Content Issues
+ # ===========================================
+ # D400 First line should end with a period
+ # D401 First line should be in imperative mood
+ # D402 First line should not be the function’s "signature"
+ # D403 First word of the first line should be properly capitalized
+ # D412 No blank lines allowed between a section header and its content
+ D400,D401,D403,
+ # We ignore D412 deliberately:
+ D412,
+ # =========================================
+ # flake8-commas (in case installed locally)
+ # =========================================
+ # C812 missing trailing comma
+ C812
diff --git a/Tests/Abi/test.fsa b/Tests/Abi/test.fsa
new file mode 100644
index 0000000..9034d03
Binary files /dev/null and b/Tests/Abi/test.fsa differ
diff --git a/Tests/Affy/affy_v4_example.CEL b/Tests/Affy/affy_v4_example.CEL
new file mode 100644
index 0000000..9dc05e3
Binary files /dev/null and b/Tests/Affy/affy_v4_example.CEL differ
diff --git a/Tests/BioSQL/cor6_6.db b/Tests/BioSQL/cor6_6.db
index 2311b9d..856e432 100644
Binary files a/Tests/BioSQL/cor6_6.db and b/Tests/BioSQL/cor6_6.db differ
diff --git a/Tests/Blat/README.txt b/Tests/Blat/README.txt
index 94564da..9abc894 100644
--- a/Tests/Blat/README.txt
+++ b/Tests/Blat/README.txt
@@ -19,3 +19,11 @@ pslx_34_002.pslx PSLX format, single query, no hits
pslx_34_003.pslx PSLX format, single query, hits with single HSP
pslx_34_004.pslx PSLX format, single query, hits with multiple HSPs
pslx_34_005.pslx PSLX format, multiple queries, no header
+
+
+BLAT v35
+--------
+psl_35_001.psl PSL format, protein query
+psl_35_002.psl PSL format, protein query with hits on negative strand
+
+psl_35_002.pslx PSLX format, protein query with hits on negative strand
diff --git a/Tests/Blat/psl_35_001.psl b/Tests/Blat/psl_35_001.psl
new file mode 100644
index 0000000..f038f34
--- /dev/null
+++ b/Tests/Blat/psl_35_001.psl
@@ -0,0 +1,13 @@
+psLayout version 3
+
+match mis- rep. N's Q gap Q gap T gap T gap strand Q Q Q Q T T T T block blockSizes qStarts tStarts
+ match match count bases count bases name size start end name size start end count
+---------------------------------------------------------------------------------------------------------------------------------------------------------------
+52 0 0 0 0 0 0 0 ++ CAG33136.1 230 61 113 chr13 114364328 75566694 75566850 1 52, 61, 75566694,
+44 0 0 0 0 0 0 0 ++ CAG33136.1 230 17 61 chr13 114364328 75560749 75560881 1 44, 17, 75560749,
+44 0 0 0 1 98 1 17360 ++ CAG33136.1 230 0 142 chr13 114364328 75549820 75567312 2 15,29, 0,113, 75549820,75567225,
+47 0 0 0 0 0 1 901 ++ CAG33136.1 230 183 230 chr13 114364328 75604767 75605809 2 20,27, 183,203, 75604767,75605728,
+25 0 0 0 0 0 0 0 ++ CAG33136.1 230 158 183 chr13 114364328 75594914 75594989 1 25, 158, 75594914,
+16 0 0 0 0 0 0 0 ++ CAG33136.1 230 142 158 chr13 114364328 75569459 75569507 1 16, 142, 75569459,
+26 8 0 0 0 0 0 0 ++ CAG33136.1 230 76 110 chr4 190214555 41260685 41260787 1 34, 76, 41260685,
+37 26 0 0 1 103 1 5496 ++ CAG33136.1 230 17 183 chr4 190214555 41257605 41263290 2 42,21, 17,162, 41257605,41263227,
diff --git a/Tests/Blat/psl_35_002.psl b/Tests/Blat/psl_35_002.psl
new file mode 100644
index 0000000..848cec0
--- /dev/null
+++ b/Tests/Blat/psl_35_002.psl
@@ -0,0 +1,8 @@
+psLayout version 3
+
+match mis- rep. N's Q gap Q gap T gap T gap strand Q Q Q Q T T T T block blockSizes qStarts tStarts
+ match match count bases count bases name size start end name size start end count
+---------------------------------------------------------------------------------------------------------------------------------------------------------------
+210 3 0 0 0 0 6 31299 ++ CAG33136.1 230 17 230 KI537979 14052872 9712654 9744592 7 44,52,29,16,25,20,27, 17,61,113,142,158,183,203, 9712654,9715941,9716445,9718374,9739264,9743706,9744511,
+207 22 0 0 1 1 1 -1 ++ CAG33136.1 230 0 230 KI538594 7819582 2103463 2104149 2 20,209, 0,21, 2103463,2103522,
+204 6 0 0 1 20 1 1 +- CAG33136.1 230 0 230 KI537194 37111980 20872390 20873021 2 183,27, 0,203, 16238959,16239509,
diff --git a/Tests/Blat/pslx_35_002.pslx b/Tests/Blat/pslx_35_002.pslx
new file mode 100644
index 0000000..17ade28
--- /dev/null
+++ b/Tests/Blat/pslx_35_002.pslx
@@ -0,0 +1,8 @@
+psLayout version 3
+
+match mis- rep. N's Q gap Q gap T gap T gap strand Q Q Q Q T T T T block blockSizes qStarts tStarts
+ match match count bases count bases name size start end name size start end count
+---------------------------------------------------------------------------------------------------------------------------------------------------------------
+210 3 0 0 0 0 6 31299 ++ CAG33136.1 230 17 230 KI537979 14052872 9712654 9744592 7 44,52,29,16,25,20,27, 17,61,113,142,158,183,203, 9712654,9715941,9716445,9718374,9739264,9743706,9744511, QFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEK,YEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHF,ESGSTLKKFLEESVSMSPEERARYLENYD,AIRVTHETSAHEGQTE,APSIDEKVDLHFIALVHVDGHLYEL,DGRKPFPINHGETSDETLLE,DAIEVCKKFMERDPDELRFNAIALSAA, QFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEK,YEIFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTI [...]
+207 22 0 0 1 1 1 -1 ++ CAG33136.1 230 0 230 KI538594 7819582 2103463 2104149 2 20,209, 0,21, 2103463,2103522, MEGQRWLPLEANPEVTNQFL,QLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENYDAIRVTHETSAHEGQTEAPSIDEKVDLHFIALVHVDGHLYELDGRKPFPINHGETSDETLLEDAIEVCKKFMERDPDELRFNAIALSAA, MEGQCWLPLEANPEVTNQLL,QLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEEEKIKSQGQNITSSGYFMRQTISSACGTIGLIHAIANNKDKMHFESGSTLKKFLEESASLSPEERAIYLENYDSIRVTHKT [...]
+204 6 0 0 1 20 1 1 +- CAG33136.1 230 0 230 KI537194 37111980 20872390 20873021 2 183,27, 0,203, 16238959,16239509, MEGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEVFRTEEEEKIKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESVSMSPEERARYLENYDAIRVTHETSAHEGQTEAPSIDEKVDLHFIALVHVDGHLYEL,DAIEVCKKFMERDPDELRFNAIALSAA, MESQRWLPLEANPEVTNQFLKQLGLHPNWQCVDVYGMDPELLSMVPRPVCAVLLLFPITEKYEIFRTEEEEKTKSQGQDVTSSVYFMKQTISNACGTIGLIHAIANNKDKMHFESGSTLKKFLEESASMSPEERARYLENYDAIRVTHETSAHEGQTEAPNIDE [...]
diff --git a/Tests/Cellosaurus/cell_lines_1.txt b/Tests/Cellosaurus/cell_lines_1.txt
new file mode 100644
index 0000000..791948a
--- /dev/null
+++ b/Tests/Cellosaurus/cell_lines_1.txt
@@ -0,0 +1,14 @@
+ID #15310-LN
+AC CVCL_E548
+SY 15310-LN; TER461
+DR dbMHC; 48439
+DR ECACC; 94050311
+DR IHW; IHW9326
+DR IMGT/HLA; 10074
+WW http://bioinformatics.hsanmartino.it/ecbr/cl326.html
+CC Part of: 12th International Histocompatibility Workshop (12IHW) cell line panel.
+CC Transformant: EBV.
+OX NCBI_TaxID=9606; ! Homo sapiens
+SX Female
+CA Transformed cell line
+//
diff --git a/Tests/Cellosaurus/cell_lines_2.txt b/Tests/Cellosaurus/cell_lines_2.txt
new file mode 100644
index 0000000..9975930
--- /dev/null
+++ b/Tests/Cellosaurus/cell_lines_2.txt
@@ -0,0 +1,63 @@
+ID XP3OS
+AC CVCL_3245
+AS CVCL_F511
+SY XP30S; GM04314
+DR CLO; CLO_0019557
+DR Coriell; GM04314
+DR JCRB; JCRB0303
+DR JCRB; KURB1002
+DR JCRB; KURB1003
+DR JCRB; KURB1004
+RX PubMed=1372102;
+ST Source(s): JCRB
+ST Amelogenin: X
+ST CSF1PO: 10,11
+ST D13S317: 9,11
+ST D16S539: 9,12
+ST D5S818: 10,11
+ST D7S820: 11,12
+ST TH01: 7
+ST TPOX: 8,11
+ST vWA: 14,16
+DI NCIt; C3965; Xeroderma pigmentosum, complementation group A
+OX NCBI_TaxID=9606; ! Homo sapiens
+SX Female
+CA Finite cell line
+//
+ID 1-5c-4
+AC CVCL_2260
+SY Clone 1-5c-4; Clone 1-5c-4 WKD of Chang Conjunctiva; Wong-Kilbourne derivative of Chang conjunctiva; ChWK
+DR CLO; CLO_0002500
+DR CLO; CLO_0002501
+DR CLDB; cl793
+DR CLDB; cl794
+DR CLDB; cl795
+DR ATCC; CCL-20.2
+DR BioSample; SAMN03151673
+DR ECACC; 88021103
+DR IZSLER; BS CL 93
+DR KCLB; 10020.2
+RX PubMed=566722;
+RX PubMed=19630270;
+RX PubMed=20143388;
+WW http://iclac.org/wp-content/uploads/Cross-Contaminations-v7_2.pdf
+CC Problematic cell line: Contaminated. Shown to be a HeLa derivative (PubMed 566722, PubMed 20143388).
+CC Omics: Transcriptome analysis.
+ST Source(s): ATCC; KCLB
+ST Amelogenin: X
+ST CSF1PO: 9,10
+ST D13S317: 12,13.3
+ST D16S539: 9,10
+ST D3S1358: 15,18
+ST D5S818: 11,12
+ST D7S820: 8,12
+ST FGA: 18,21
+ST TH01: 7
+ST TPOX: 8,12
+ST vWA: 16,18
+DI NCIt; C4029; Cervical adenocarcinoma
+OX NCBI_TaxID=9606; ! Homo sapiens
+HI CVCL_0030 ! HeLa
+SX Female
+CA Cancer cell line
+//
diff --git a/Tests/Cellosaurus/cell_lines_3.txt b/Tests/Cellosaurus/cell_lines_3.txt
new file mode 100644
index 0000000..4680648
--- /dev/null
+++ b/Tests/Cellosaurus/cell_lines_3.txt
@@ -0,0 +1,9 @@
+ID ZZ-R 127
+AC CVCL_5418
+SY ZZ-R
+DR CCLV; CCLV-RIE 0127
+RX PubMed=19656987;
+RX PubMed=19941903;
+OX NCBI_TaxID=9925; ! Capra hircus
+CA Spontaneously immortalized cell line
+//
diff --git a/Tests/Cluster/README b/Tests/Cluster/README
new file mode 100644
index 0000000..19f261d
--- /dev/null
+++ b/Tests/Cluster/README
@@ -0,0 +1,13 @@
+The file cyano.txt contains the gene expression data, after preprocessing and
+linear spline fitting, of a time-course cDNA microarray experiment of the
+cyanobacterium Synechocystis sp PCC 6803 under high light conditions.
+This experiment is described in
+Yukako Hihara, Ayako Kamei, Minoru Kanehisa, Aaron Kaplan, and Masahiko Ikeuchi:
+"DNA Microarray Analysis of Cyanobacterial Gene Expression during Acclimation to
+High Light", The Plant Cell, Volume 13, pp. 793-806, April 2001.
+The k-means clustering result applied to these data was published in
+M.J.L. de Hoon, S. Imoto, S. Miyano:
+"Statistical analysis of a small set of time-ordered gene expression data using
+linear splines", Bioinformatics, Volume 18, no. 11, pp. 1477-1485,
+November 2002.
+
diff --git a/Tests/Cluster/cyano.txt b/Tests/Cluster/cyano.txt
new file mode 100644
index 0000000..670750d
--- /dev/null
+++ b/Tests/Cluster/cyano.txt
@@ -0,0 +1,91 @@
+gene 0 15min 1hour 6hours 15hours
+sll0617 0.0 -0.141164092921 -0.564656371686 -0.219393769051 -0.582969948517
+slr0452 0.0 -0.124988599702 -0.499954398807 0.195680498436 0.0781478593432
+slr1513 0.0 0.788547158236 0.228594792282 0.255819396258 0.304823683415
+sll1471 0.0 -0.770355431265 -1.10115338201 -1.00607440632 -0.834932250086
+sll1694 0.0 -0.328239937586 -2.16037133914 -1.184544471 -1.36760041273
+sll0430 0.0 2.57611845993 0.920296714116 0.331897478085 0.353984672049
+sll0851 0.0 -0.260488607867 -1.04195443147 -0.870951657169 -0.563146663432
+sll1260 0.0 0.488375211397 1.03336768086 1.05808458732 1.10257501897
+sll1031 0.0 2.22636090218 1.2737708006 1.22441048661 1.13556192142
+sll1097 0.0 0.623623937789 1.50986566464 1.39858048748 1.19826716858
+slr1853 0.0 -0.625110852947 -0.579158937711 -0.272812836139 0.27861014669
+slr1856 0.0 -1.48647925428 -1.15482923751 -0.78849128943 -0.129082982895
+sll1807 0.0 -0.00351865963644 1.6220065 1.2103168781 1.40663921545
+slr1280 0.0 1.68363550419 0.570482993127 0.452252082077 0.239436442188
+sll1578 0.0 -2.08646119875 -4.16618882331 -2.95371220804 -0.771254300567
+sll0927 0.0 1.53540350362 0.994485177541 1.06558243705 1.19355750417
+sll1028 0.0 2.66231034349 1.02053065748 1.07291269701 1.16720036816
+sll0170 0.0 2.49313251019 0.836378625633 -0.181000866758 -0.0686024829202
+sll0020 0.0 0.622961311166 0.107769339289 0.00823295222619 -0.170932544487
+slr1128 0.0 -0.586091367103 -0.97123113608 -0.33489639532 -0.721672688608
+slr1687 0.0 1.53531583449 0.508364720306 0.226540131559 -0.280744128185
+slr1986 0.0 -2.46180941179 -3.32064191349 -1.63229875815 -0.376249913875
+sll1091 0.0 -2.22018219109 -2.1088225644 -1.36642505311 -0.0301095327889
+slr0011 0.0 1.73715425472 0.482870189015 0.589476956697 0.781369138524
+sll1816 0.0 0.142823046786 1.37138583483 1.04715754859 1.22776365079
+slr1655 0.0 -2.29708296628 -2.79999101137 -2.20032491329 -1.12092593675
+slr0839 0.0 0.36757936343 0.316678106928 -0.022663603088 -0.633478681117
+sll0262 0.0 0.792040285896 0.692818192651 0.0313375710134 0.309366941681
+slr1641 0.0 2.89423066687 0.551559514181 -0.150705464209 -0.21442787406
+sll0854 0.0 0.609090206082 0.545338052749 0.120323697197 0.223173714031
+slr0151 0.0 -0.989349574879 -0.964206703429 -0.796587560432 -0.494873103037
+slr0476 0.0 1.51215261659 0.0821117222648 0.0400809926852 -0.035574320558
+sll1614 0.0 0.702656762339 0.0659783997373 0.12124636938 0.220728714738
+slr0374 0.0 -0.735627268934 -1.18538074714 -1.38437562074 -1.74256639322
+slr0737 0.0 -1.95828768621 -3.25510704118 -2.25413896187 -1.64370116412
+slr1718 0.0 0.27148722 0.266555463231 0.233677084773 0.174496003548
+slr1604 0.0 2.1572537861 0.725639316761 0.422501046212 -0.123147840775
+sll1002 0.0 0.508059527897 0.0824733876347 -0.0882211947902 -0.395471443155
+sll0814 0.0 1.8783237838 1.05679078007 0.703832500504 0.0685075972789
+sll0521 0.0 1.24736478909 0.245331279252 -0.260997955485 0.203910618354
+slr2051 0.0 -2.30444924968 -2.88255028204 -2.19877779485 -0.967987317903
+sll1802 0.0 0.654022904601 1.52846049032 1.32249540635 1.58960701188
+sll0519 0.0 0.71144846192 0.130603846991 -0.169447274526 0.227932117511
+sll1799 0.0 0.772806717851 1.2614816942 1.36702488224 1.55700262072
+sll0416 0.0 2.17493062772 1.83773620171 1.00316264737 0.89958779106
+slr1459 0.0 -1.84683738354 -1.76706597763 -1.23525660491 -0.277999734026
+sll0414 0.0 0.509743056433 0.0513699916594 0.0972244284813 0.179762414761
+sll1580 0.0 -2.66568327835 -4.75038508692 -3.05542980829 -1.50909884887
+sll1214 0.0 -1.77089540875 -1.69909446506 -1.22042150714 -0.358810182876
+sll1096 0.0 1.11463877184 1.76808187333 1.6898020583 1.54889839125
+sll1809 0.0 -0.308925470579 1.25214953341 0.755536551289 0.934592129992
+slr1793 0.0 -0.188658422905 -0.75463369162 -0.551734332459 -0.652770294667
+sll0185 0.0 0.475723926868 1.17385783916 0.25580017747 -0.398252652408
+ssl3093 0.0 -1.74156851194 -1.68999525836 -1.34617356779 -0.727294524774
+sll1577 0.0 -2.69307453928 -4.01652450572 -2.10165498881 -0.913595745519
+sll1801 0.0 0.424986483758 1.69994593503 1.17676212936 1.42075516304
+sll1626 0.0 -1.29747066365 -1.42816324407 0.229661068119 0.402910409671
+sll0587 0.0 0.101731075535 0.406924302139 0.293220382758 0.0885533278713
+sll1745 0.0 -0.481145108669 1.54524431132 1.08885362403 1.32807145143
+slr1557 0.0 -0.233123792905 0.38207343775 0.251423195029 0.0162527581309
+sll0144 0.0 0.126487813486 0.505951253942 0.577427967822 0.706086052805
+ssr2554 0.0 0.13615218811 0.544608752441 0.510697496813 0.449657236683
+ssl1533 0.0 -0.976223092984 -1.79120966623 -1.50978457116 -1.00321940003
+sll1029 0.0 2.15885601259 1.43436207323 1.39960209915 1.33703414581
+slr1834 0.0 -1.22814786087 -4.9125914435 -2.29625008403 -1.3861063113
+slr1963 0.0 2.74242625203 2.03564274259 1.1817718736 0.708083394055
+slr0642 0.0 0.515146959875 0.216658153529 0.175698434146 0.101970939255
+slr1469 0.0 0.15989040024 0.639561600959 0.651815247578 0.673871811492
+slr1348 0.0 -0.341259875426 -1.3650395017 -1.48360163296 -0.771117544254
+sll0680 0.0 0.468061810654 0.47893279739 0.551406042302 0.681857883143
+slr1350 0.0 1.40748598766 0.243441801508 0.297824411515 0.395713109526
+slr2067 0.0 -2.32952202122 -3.00737597353 -1.21052938382 -0.165886542092
+sll0901 0.0 -0.58063741361 -0.550767565801 -0.351635247076 0.0068029266283
+sll1327 0.0 -0.244114184609 0.309923760626 0.433468520609 0.655849088579
+slr1237 0.0 0.170112231199 0.680448924797 0.452827162876 0.819425110497
+slr0208 0.0 0.989182216723 0.552781664868 0.494996312133 0.390982677209
+sll0258 0.0 -1.50076873955 -1.79981911592 -0.640454228214 -0.249419331693
+slr2075 0.0 2.42821403418 2.3071326893 1.49992372341 1.47640034609
+sll0819 0.0 -2.37808970042 -3.52413199514 -1.84434038376 -1.09948837995
+sll1306 0.0 -1.42003698886 -1.37616377635 -1.08367569294 -0.557197142809
+sll1712 0.0 -0.86615483627 -0.909858951035 0.101616387622 0.276541138336
+sll1743 0.0 -0.0641585219021 1.74757738748 1.27941498138 1.53167033547
+sll1579 0.0 -3.24384564456 -4.79909291932 -2.53482033158 -1.30738786253
+slr0329 0.0 -1.21518493475 -1.18796085587 -1.00646699667 -0.679778050107
+slr1545 0.0 -1.37596809732 -1.20718375614 -0.0819548149425 -0.311131980425
+sll0322 0.0 1.31871339578 1.31043011048 1.25520820851 1.15580878497
+sll1810 0.0 -1.07577613026 1.36721436079 1.27154453167 1.09933883926
+sll1804 0.0 -0.355404076657 1.82391138426 1.66569445792 1.38090399051
+slr1835 0.0 -0.852039667525 -3.4081586701 -1.87136872275 -1.14231721195
+slr1855 0.0 -2.94512669297 -2.66557104831 -0.801866750577 -0.264637777028
diff --git a/Tests/EMBL/hla_3260_sample.imgt b/Tests/EMBL/hla_3260_sample.imgt
new file mode 100644
index 0000000..3f02c35
--- /dev/null
+++ b/Tests/EMBL/hla_3260_sample.imgt
@@ -0,0 +1,956 @@
+ID HLA00001; SV 1; standard; DNA; HUM; 3503 BP.
+XX
+AC HLA00001;
+XX
+SV HLA00001.1
+XX
+DT 01-AUG-1989 (Rel. 1.0.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:01:01, Human MHC Class I sequence
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:01:01;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+RN [1]
+RP 1-3503
+RX PUBMED; 3375250.
+RA Parham P, Lomen CE, Lawlor DA, Ways JP, Holmes N, Coppin HL, Salter RD,
+RA Wan AM, Ennis PD;
+RT "Nature of polymorphism in HLA-A, -B, and -C molecules";
+RL Proc Natl Acad Sci U S A 85:4005-9(1988).
+XX
+RN [2]
+RP 1-3503
+RX PUBMED; 2251137.
+RA Girdlestone J;
+RT "Nucleotide sequence of an HLA-A1 gene";
+RL Nucleic Acids Res 18:6701-6701(1990).
+XX
+RN [3]
+RP 1-3503
+RX PUBMED; 9349617.
+RA Laforet M, Froelich N, Parissiadis A, Pfeiffer B, Schell A, Faller B,
+RA Woehl-Jaegle ML, Cazenave JP, Tongio MM;
+RT "A nucleotide insertion in exon 4 is responsible for the absence of
+RT expression of an HLA-A*01 allele";
+RL Tissue Antigens 50:347-50(1997).
+XX
+RN [4]
+RP 1-3503
+RX PUBMED; 15140828.
+RA Stewart CA, Horton R, Allcock RJ, Ashurst JL, Atrazhev AM, Coggill P,
+RA Dunham I, Forbes S, Halls K, Howson JM, Humphray SJ, Hunt S, Mungall AJ,
+RA Osoegawa K, Palmer S, Roberts AN, Rogers J, Sims S, Wang Y, Wilming LG,
+RA Elliott JF, de Jong PJ, Sawcer S, Todd JA, Trowsdale J, Beck S;
+RT "Complete MHC haplotype sequencing for common disease gene mapping";
+RL Genome Res 14:1176-87(2004).
+XX
+RN [5]
+RP 1-3503
+RX PUBMED; 18193213.
+RA Horton R, Gibson R, Coggill P, Miretti M, Allcok RJ, Almeida J, Forbes S,
+RA Gilbert JGR, Halls K, Harrow JL, Hart E, Howe K, Jackson DK, Palmer S,
+RA Roberts AN, Sims S, Stewart CA, Traherne JA, Trevanion S, Wilming L, Rogers
+RA J, de Jong PJ, Elliott JF, Sawcer S, Todd JA, Trowsdale J, Beck S;
+RT "Variation analysis and gene annotation of eight MHC haplotypes: The MHC
+RT Haplotype Project";
+RL Immunogenetics 60:1-18(2008).
+XX
+RN [6]
+RP 1-3503
+RX PUBMED; 19735485.
+RA Zhu F, He Y, Zhang W, He J, He J, Xu X, Yan L;
+RT "Analysis of the complete genomic sequence of HLA-A alleles in the Chinese
+RT Han population.";
+RL Int J Immunogenet 36:351-360(2009).
+XX
+RN [7]
+RP 1-3503
+RX PUBMED; 24673518.
+RA Lu L, Xu YP;
+RT "Genomic full-length sequence of two HLA-A alleles, A*01:01:01:01 and
+RT A*01:03, identified by cloning and sequencing.";
+RL Tissue Antigens 83:423-424(2014).
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; AJ278305; AJ278305.1.
+DR EMBL; AL645935; AL645935.0.
+DR EMBL; CR759913; CR759913.0.
+DR EMBL; EU445470; EU445470.0.
+DR EMBL; GU812295; GU812295.0.
+DR EMBL; HG794373; HG794373.0.
+DR EMBL; M24043; M24043.1.
+DR EMBL; X55710; X55710.1.
+DR EMBL; Z93949; Z93949.1.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..3503
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Oriental, Caucasoid"
+FT /cell_line="7550800303"
+FT /cell_line="APD"
+FT /cell_line="B4702"
+FT /cell_line="COX"
+FT /cell_line="LCL721"
+FT /cell_line="MOLT-4"
+FT /cell_line="PP"
+FT CDS join(301..373,504..773,1015..1290,1870..2145,2248..2364,
+FT 2807..2839,2982..3029,3199..3203)
+FT /codon_start=1
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:01:01"
+FT /product="MHC Class I HLA-A*01:01:01:01 sequence"
+FT /translation="MAVMAPRTLLLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPR
+FT FIAVGYVDDTQFVRFDSDAASQKMEPRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGT
+FT LRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMA
+FT AQITKRKWEAVHAAEQRRVYLEGRCVDGLRRYLENGKETLQRTDPPKTHMTHHPISDHE
+FT ATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGEEQRY
+FT TCHVQHEGLPKPLTLRWELSSQPTIPIVGIIAGLVLLGAVITGAVVAAVMWRRKSSDRK
+FT GGSYTQAASSDSAQGSDVSLTACKV"
+FT UTR 1..300
+FT exon 301..373
+FT /number="1"
+FT intron 374..503
+FT /number="1"
+FT exon 504..773
+FT /number="2"
+FT intron 774..1014
+FT /number="2"
+FT exon 1015..1290
+FT /number="3"
+FT intron 1291..1869
+FT /number="3"
+FT exon 1870..2145
+FT /number="4"
+FT intron 2146..2247
+FT /number="4"
+FT exon 2248..2364
+FT /number="5"
+FT intron 2365..2806
+FT /number="5"
+FT exon 2807..2839
+FT /number="6"
+FT intron 2840..2981
+FT /number="6"
+FT exon 2982..3029
+FT /number="7"
+FT intron 3030..3198
+FT /number="7"
+FT exon 3199..3203
+FT /number="8"
+FT UTR 3204..3503
+SQ Sequence 3503 BP; 666 A; 1012 C; 1070 G; 755 T; 0 other;
+ caggagcaga ggggtcaggg cgaagtccca gggccccagg cgtggctctc agggtctcag 60
+ gccccgaagg cggtgtatgg attggggagt cccagccttg gggattcccc aactccgcag 120
+ tttcttttct ccctctccca acctacgtag ggtccttcat cctggatact cacgacgcgg 180
+ acccagttct cactcccatt gggtgtcggg tttccagaga agccaatcag tgtcgtcgcg 240
+ gtcgctgttc taaagtccgc acgcacccac cgggactcag attctcccca gacgccgagg 300
+ atggccgtca tggcgccccg aaccctcctc ctgctactct cgggggccct ggccctgacc 360
+ cagacctggg cgggtgagtg cggggtcggg agggaaaccg cctctgcggg gagaagcaag 420
+ gggccctcct ggcgggggcg caggaccggg ggagccgcgc cgggaggagg gtcgggcagg 480
+ tctcagccac tgctcgcccc caggctccca ctccatgagg tatttcttca catccgtgtc 540
+ ccggcccggc cgcggggagc cccgcttcat cgccgtgggc tacgtggacg acacgcagtt 600
+ cgtgcggttc gacagcgacg ccgcgagcca gaagatggag ccgcgggcgc cgtggataga 660
+ gcaggagggg ccggagtatt gggaccagga gacacggaat atgaaggccc actcacagac 720
+ tgaccgagcg aacctgggga ccctgcgcgg ctactacaac cagagcgagg acggtgagtg 780
+ accccggccc ggggcgcagg tcacgacccc tcatccccca cggacgggcc aggtcgccca 840
+ cagtctccgg gtccgagatc caccccgaag ccgcgggact ccgagaccct tgtcccggga 900
+ gaggcccagg cgcctttacc cggtttcatt ttcagtttag gccaaaaatc cccccgggtt 960
+ ggtcggggcg gggcggggct cgggggactg ggctgaccgc ggggtcgggg ccaggttctc 1020
+ acaccatcca gataatgtat ggctgcgacg tggggccgga cgggcgcttc ctccgcgggt 1080
+ accggcagga cgcctacgac ggcaaggatt acatcgccct gaacgaggac ctgcgctctt 1140
+ ggaccgcggc ggacatggca gctcagatca ccaagcgcaa gtgggaggcg gtccatgcgg 1200
+ cggagcagcg gagagtctac ctggagggcc ggtgcgtgga cgggctccgc agatacctgg 1260
+ agaacgggaa ggagacgctg cagcgcacgg gtaccagggg ccacggggcg cctccctgat 1320
+ cgcctataga tctcccgggc tggcctccca caaggagggg agacaattgg gaccaacact 1380
+ agaatatcac cctccctctg gtcctgaggg agaggaatcc tcctgggttt ccagatcctg 1440
+ taccagagag tgactctgag gttccgccct gctctctgac acaattaagg gataaaatct 1500
+ ctgaaggagt gacgggaaga cgatccctcg aatactgatg agtggttccc tttgacaccg 1560
+ gcagcagcct tgggcccgtg acttttcctc tcaggccttg ttctctgctt cacactcaat 1620
+ gtgtgtgggg gtctgagtcc agcacttctg agtctctcag cctccactca ggtcaggacc 1680
+ agaagtcgct gttcccttct cagggaatag aagattatcc caggtgcctg tgtccaggct 1740
+ ggtgtctggg ttctgtgctc tcttccccat cccgggtgtc ctgtccattc tcaagatggc 1800
+ cacatgcgtg ctggtggagt gtcccatgac agatgcaaaa tgcctgaatt ttctgactct 1860
+ tcccgtcaga cccccccaag acacatatga cccaccaccc catctctgac catgaggcca 1920
+ ccctgaggtg ctgggccctg ggcttctacc ctgcggagat cacactgacc tggcagcggg 1980
+ atggggagga ccagacccag gacacggagc tcgtggagac caggcctgca ggggatggaa 2040
+ ccttccagaa gtgggcggct gtggtggtgc cttctggaga ggagcagaga tacacctgcc 2100
+ atgtgcagca tgagggtctg cccaagcccc tcaccctgag atggggtaag gagggagatg 2160
+ ggggtgtcat gtctcttagg gaaagcagga gcctctctgg agacctttag cagggtcagg 2220
+ gcccctcacc ttcccctctt ttcccagagc tgtcttccca gcccaccatc cccatcgtgg 2280
+ gcatcattgc tggcctggtt ctccttggag ctgtgatcac tggagctgtg gtcgctgccg 2340
+ tgatgtggag gaggaagagc tcaggtggag aaggggtgaa gggtggggtc tgagatttct 2400
+ tgtctcactg agggttccaa gccccagcta gaaatgtgcc ctgtctcatt actgggaagc 2460
+ accttccaca atcatgggcc gacccagcct gggccctgtg tgccagcact tactcttttg 2520
+ taaagcacct gttaaaatga aggacagatt tatcaccttg attacggcgg tgatgggacc 2580
+ tgatcccagc agtcacaagt cacaggggaa ggtccctgag gacagacctc aggagggcta 2640
+ ttggtccagg acccacacct gctttcttca tgtttcctga tcccgccctg ggtctgcagt 2700
+ cacacatttc tggaaacttc tctggggtcc aagactagga ggttcctcta ggaccttaag 2760
+ gccctggctc ctttctggta tctcacagga cattttcttc ccacagatag aaaaggaggg 2820
+ agttacactc aggctgcaag taagtatgaa ggaggctgat gcctgaggtc cttgggatat 2880
+ tgtgtttggg agcccatggg ggagctcacc caccccacaa ttcctcctct agccacatct 2940
+ tctgtgggat ctgaccaggt tctgtttttg ttctacccca ggcagtgaca gtgcccaggg 3000
+ ctctgatgtg tctctcacag cttgtaaagg tgagagcttg gagggcctga tgtgtgttgg 3060
+ gtgttgggtg gaacagtgga cacagctgtg ctatggggtt tctttgcgtt ggatgtattg 3120
+ agcatgcgat gggctgttta aggtgtgacc cctcactgtg atggatatga atttgttcat 3180
+ gaatattttt ttctatagtg tgagacagct gccttgtgtg ggactgagag gcaagagttg 3240
+ ttcctgccct tccctttgtg acttgaagaa ccctgacttt gtttctgcaa aggcacctgc 3300
+ atgtgtctgt gttcgtgtag gcataatgtg aggaggtggg gagagcaccc cacccccatg 3360
+ tccaccatga ccctcttccc acgctgacct gtgctccctc tccaatcatc tttcctgttc 3420
+ cagagaggtg gggctgaggt gtctccatct ctgtctcaac ttcatggtgc actgagctgt 3480
+ aacttcttcc ttccctatta aaa 3503
+//
+ID HLA02169; SV 1; standard; DNA; HUM; 3291 BP.
+XX
+AC HLA02169;
+XX
+SV HLA02169.1
+XX
+DT 29-APR-2005 (Rel. 2.10.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:01:02N, Human MHC Class I sequence
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:01:02N;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; AY973959; AY973959.0.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..3291
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Caucasoid"
+FT /cell_line="CTM7681276"
+FT CDS join(222..294,425..694,932..1207,1787..2062,2165..2281,
+FT 2724..2756,2899..2946,3116..3120)
+FT /codon_start=1
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:01:02N"
+FT /product="MHC Class I HLA-A*01:01:01:02N sequence"
+FT /translation="MAVMAPRTLLLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPR
+FT FIAVGYVDDTQFVRFDSDAASQKMEPRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGT
+FT LRGYYNQSEDGDPGPGRRSRPLIPHGRARSPTVSGSEIHPEAAGLRDPCPGRGPGAFTR
+FT FHFQFRPKIPPGWSGRGGARGTGLTAGSGPGSHTIQX"
+FT UTR 1..221
+FT exon 222..294
+FT /number="1"
+FT intron 295..424
+FT /number="1"
+FT exon 425..694
+FT /number="2"
+FT intron 695..931
+FT /number="2"
+FT exon 932..1207
+FT /number="3"
+FT intron 1208..1786
+FT /number="3"
+FT exon 1787..2062
+FT /number="4"
+FT intron 2063..2164
+FT /number="4"
+FT exon 2165..2281
+FT /number="5"
+FT intron 2282..2723
+FT /number="5"
+FT exon 2724..2756
+FT /number="6"
+FT intron 2757..2898
+FT /number="6"
+FT exon 2899..2946
+FT /number="7"
+FT intron 2947..3115
+FT /number="7"
+FT exon 3116..3120
+FT /number="8"
+FT UTR 3121..3291
+SQ Sequence 3291 BP; 629 A; 949 C; 1011 G; 702 T; 0 other;
+ gattggggag tcccagcctt ggggattccc caactccgca gtttcttttc tccctctccc 60
+ aacctacgta gggtccttca tcctggatac tcacgacgcg gacccagttc tcactcccat 120
+ tgggtgtcgg gtttccagag aagccaatca gtgtcgtcgc ggtcgctgtt ctaaagtccg 180
+ cacgcaccca ccgggactca gattctcccc agacgccgag gatggccgtc atggcgcccc 240
+ gaaccctcct cctgctactc tcgggggccc tggccctgac ccagacctgg gcgggtgagt 300
+ gcggggtcgg gagggaaacc gcctctgcgg ggagaagcaa ggggccctcc tggcgggggc 360
+ gcaggaccgg gggagccgcg ccgggaggag ggtcgggcag gtctcagcca ctgctcgccc 420
+ ccaggctccc actccatgag gtatttcttc acatccgtgt cccggcccgg ccgcggggag 480
+ ccccgcttca tcgccgtggg ctacgtggac gacacgcagt tcgtgcggtt cgacagcgac 540
+ gccgcgagcc agaagatgga gccgcgggcg ccgtggatag agcaggaggg gccggagtat 600
+ tgggaccagg agacacggaa tatgaaggcc cactcacaga ctgaccgagc gaacctgggg 660
+ accctgcgcg gctactacaa ccagagcgag gacggtgacc ccggcccggg gcgcaggtca 720
+ cgacccctca tcccccacgg acgggccagg tcgcccacag tctccgggtc cgagatccac 780
+ cccgaagccg cgggactccg agacccttgt cccgggagag gcccaggcgc ctttacccgg 840
+ tttcattttc agtttaggcc aaaaatcccc ccgggttggt cggggcgggg cggggctcgg 900
+ gggactgggc tgaccgcggg gtcggggcca ggttctcaca ccatccagat aatgtatggc 960
+ tgcgacgtgg ggccggacgg gcgcttcctc cgcgggtacc ggcaggacgc ctacgacggc 1020
+ aaggattaca tcgccctgaa cgaggacctg cgctcttgga ccgcggcgga catggcagct 1080
+ cagatcacca agcgcaagtg ggaggcggtc catgcggcgg agcagcggag agtctacctg 1140
+ gagggccggt gcgtggacgg gctccgcaga tacctggaga acgggaagga gacgctgcag 1200
+ cgcacgggta ccaggggcca cggggcgcct ccctgatcgc ctatagatct cccgggctgg 1260
+ cctcccacaa ggaggggaga caattgggac caacactaga atatcaccct ccctctggtc 1320
+ ctgagggaga ggaatcctcc tgggtttcca gatcctgtac cagagagtga ctctgaggtt 1380
+ ccgccctgct ctctgacaca attaagggat aaaatctctg aaggagtgac gggaagacga 1440
+ tccctcgaat actgatgagt ggttcccttt gacaccggca gcagccttgg gcccgtgact 1500
+ tttcctctca ggccttgttc tctgcttcac actcaatgtg tgtgggggtc tgagtccagc 1560
+ acttctgagt ctctcagcct ccactcaggt caggaccaga agtcgctgtt cccttctcag 1620
+ ggaatagaag attatcccag gtgcctgtgt ccaggctggt gtctgggttc tgtgctctct 1680
+ tccccatccc gggtgtcctg tccattctca agatggccac atgcgtgctg gtggagtgtc 1740
+ ccatgacaga tgcaaaatgc ctgaattttc tgactcttcc cgtcagaccc ccccaagaca 1800
+ catatgaccc accaccccat ctctgaccat gaggccaccc tgaggtgctg ggccctgggc 1860
+ ttctaccctg cggagatcac actgacctgg cagcgggatg gggaggacca gacccaggac 1920
+ acggagctcg tggagaccag gcctgcaggg gatggaacct tccagaagtg ggcggctgtg 1980
+ gtggtgcctt ctggagagga gcagagatac acctgccatg tgcagcatga gggtctgccc 2040
+ aagcccctca ccctgagatg gggtaaggag ggagatgggg gtgtcatgtc tcttagggaa 2100
+ agcaggagcc tctctggaga cctttagcag ggtcagggcc cctcaccttc ccctcttttc 2160
+ ccagagctgt cttcccagcc caccatcccc atcgtgggca tcattgctgg cctggttctc 2220
+ cttggagctg tgatcactgg agctgtggtc gctgccgtga tgtggaggag gaagagctca 2280
+ ggtggagaag gggtgaaggg tggggtctga gatttcttgt ctcactgagg gttccaagcc 2340
+ ccagctagaa atgtgccctg tctcattact gggaagcacc ttccacaatc atgggccgac 2400
+ ccagcctggg ccctgtgtgc cagcacttac tcttttgtaa agcacctgtt aaaatgaagg 2460
+ acagatttat caccttgatt acggcggtga tgggacctga tcccagcagt cacaagtcac 2520
+ aggggaaggt ccctgaggac agacctcagg agggctattg gtccaggacc cacacctgct 2580
+ ttcttcatgt ttcctgatcc cgccctgggt ctgcagtcac acatttctgg aaacttctct 2640
+ ggggtccaag actaggaggt tcctctagga ccttaaggcc ctggctcctt tctggtatct 2700
+ cacaggacat tttcttccca cagatagaaa aggagggagt tacactcagg ctgcaagtaa 2760
+ gtatgaagga ggctgatgcc tgaggtcctt gggatattgt gtttgggagc ccatggggga 2820
+ gctcacccac cccacaattc ctcctctagc cacatcttct gtgggatctg accaggttct 2880
+ gtttttgttc taccccaggc agtgacagtg cccagggctc tgatgtgtct ctcacagctt 2940
+ gtaaaggtga gagcttggag ggcctgatgt gtgttgggtg ttgggtggaa cagtggacac 3000
+ agctgtgcta tggggtttct ttgcgttgga tgtattgagc atgcgatggg ctgtttaagg 3060
+ tgtgacccct cactgtgatg gatatgaatt tgttcatgaa tatttttttc tatagtgtga 3120
+ gacagctgcc ttgtgtggga ctgagaggca agagttgttc ctgcccttcc ctttgtgact 3180
+ tgaagaaccc tgactttgtt tctgcaaagg cacctgcatg tgtctgtgtt cgtgtaggca 3240
+ taatgtgagg aggtggggag agcaccccac ccccatgtcc accatgaccc t 3291
+//
+ID HLA14798; SV 1; standard; DNA; HUM; 2903 BP.
+XX
+AC HLA14798;
+XX
+SV HLA14798.1
+XX
+DT 30-MAR-2016 (Rel. 3.24.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:01:03, Human MHC Class I sequence
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:01:03;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; KU528597; KU528597.0.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..2903
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Unknown"
+FT /cell_line="M-155-12-1039-A"
+FT CDS join(1..73,204..473,715..990,1570..1845,1948..2064,
+FT 2507..2539,2682..2729,2899..2903)
+FT /codon_start=1
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:01:03"
+FT /product="MHC Class I HLA-A*01:01:01:03 sequence"
+FT /translation="MAVMAPRTLLLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPR
+FT FIAVGYVDDTQFVRFDSDAASQKMEPRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGT
+FT LRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMA
+FT AQITKRKWEAVHAAEQRRVYLEGRCVDGLRRYLENGKETLQRTDPPKTHMTHHPISDHE
+FT ATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGEEQRY
+FT TCHVQHEGLPKPLTLRWELSSQPTIPIVGIIAGLVLLGAVITGAVVAAVMWRRKSSDRK
+FT GGSYTQAASSDSAQGSDVSLTACKV"
+FT exon 1..73
+FT /number="1"
+FT intron 74..203
+FT /number="1"
+FT exon 204..473
+FT /number="2"
+FT intron 474..714
+FT /number="2"
+FT exon 715..990
+FT /number="3"
+FT intron 991..1569
+FT /number="3"
+FT exon 1570..1845
+FT /number="4"
+FT intron 1846..1947
+FT /number="4"
+FT exon 1948..2064
+FT /number="5"
+FT intron 2065..2506
+FT /number="5"
+FT exon 2507..2539
+FT /number="6"
+FT intron 2540..2681
+FT /number="6"
+FT exon 2682..2729
+FT /number="7"
+FT intron 2730..2898
+FT /number="7"
+FT exon 2899..2903
+FT /number="8"
+SQ Sequence 2903 BP; 558 A; 827 C; 912 G; 606 T; 0 other;
+ atggccgtca tggcgccccg aaccctcctc ctgctactct cgggggccct ggccctgacc 60
+ cagacctggg cgggtgagtg cggggtcggg agggaaaccg cctctgcggg gagaagcaag 120
+ gggccctcct ggcgggggcg caggaccggg ggagccgcgc ggggaggagg gtcgggcagg 180
+ tctcagccac tgctcgcccc caggctccca ctccatgagg tatttcttca catccgtgtc 240
+ ccggcccggc cgcggggagc cccgcttcat cgccgtgggc tacgtggacg acacgcagtt 300
+ cgtgcggttc gacagcgacg ccgcgagcca gaagatggag ccgcgggcgc cgtggataga 360
+ gcaggagggg ccggagtatt gggaccagga gacacggaat atgaaggccc actcacagac 420
+ tgaccgagcg aacctgggga ccctgcgcgg ctactacaac cagagcgagg acggtgagtg 480
+ accccggccc ggggcgcagg tcacgacccc tcatccccca cggacgggcc aggtcgccca 540
+ cagtctccgg gtccgagatc caccccgaag ccgcgggact ccgagaccct tgtcccggga 600
+ gaggcccagg cgcctttacc cggtttcatt ttcagtttag gccaaaaatc cccccgggtt 660
+ ggtcggggcg gggcggggct cgggggactg ggctgaccgc ggggtcgggg ccaggttctc 720
+ acaccatcca gataatgtat ggctgcgacg tggggccgga cgggcgcttc ctccgcgggt 780
+ accggcagga cgcctacgac ggcaaggatt acatcgccct gaacgaggac ctgcgctctt 840
+ ggaccgcggc ggacatggca gctcagatca ccaagcgcaa gtgggaggcg gtccatgcgg 900
+ cggagcagcg gagagtctac ctggagggcc ggtgcgtgga cgggctccgc agatacctgg 960
+ agaacgggaa ggagacgctg cagcgcacgg gtaccagggg ccacggggcg cctccctgat 1020
+ cgcctataga tctcccgggc tggcctccca caaggagggg agacaattgg gaccaacact 1080
+ agaatatcac cctccctctg gtcctgaggg agaggaatcc tcctgggttt ccagatcctg 1140
+ taccagagag tgactctgag gttccgccct gctctctgac acaattaagg gataaaatct 1200
+ ctgaaggagt gacgggaaga cgatccctcg aatactgatg agtggttccc tttgacaccg 1260
+ gcagcagcct tgggcccgtg acttttcctc tcaggccttg ttctctgctt cacactcaat 1320
+ gtgtgtgggg gtctgagtcc agcacttctg agtctctcag cctccactca ggtcaggacc 1380
+ agaagtcgct gttcccttct cagggaatag aagattatcc caggtgcctg tgtccaggct 1440
+ ggtgtctggg ttctgtgctc tcttccccat cccgggtgtc ctgtccattc tcaagatggc 1500
+ cacatgcgtg ctggtggagt gtcccatgac agatgcaaaa tgcctgaatt ttctgactct 1560
+ tcccgtcaga cccccccaag acacatatga cccaccaccc catctctgac catgaggcca 1620
+ ccctgaggtg ctgggccctg ggcttctacc ctgcggagat cacactgacc tggcagcggg 1680
+ atggggagga ccagacccag gacacggagc tcgtggagac caggcctgca ggggatggaa 1740
+ ccttccagaa gtgggcggct gtggtggtgc cttctggaga ggagcagaga tacacctgcc 1800
+ atgtgcagca tgagggtctg cccaagcccc tcaccctgag atggggtaag gagggagatg 1860
+ ggggtgtcat gtctcttagg gaaagcagga gcctctctgg agacctttag cagggtcagg 1920
+ gcccctcacc ttcccctctt ttcccagagc tgtcttccca gcccaccatc cccatcgtgg 1980
+ gcatcattgc tggcctggtt ctccttggag ctgtgatcac tggagctgtg gtcgctgccg 2040
+ tgatgtggag gaggaagagc tcaggtggag aaggggtgaa gggtggggtc tgagatttct 2100
+ tgtctcactg agggttccaa gccccagcta gaaatgtgcc ctgtctcatt actgggaagc 2160
+ accttccaca atcatgggcc gacccagcct gggccctgtg tgccagcact tactcttttg 2220
+ taaagcacct gttaaaatga aggacagatt tatcaccttg attacggcgg tgatgggacc 2280
+ tgatcccagc agtcacaagt cacaggggaa ggtccctgag gacagacctc aggagggcta 2340
+ ttggtccagg acccacacct gctttcttca tgtttcctga tcccgccctg ggtctgcagt 2400
+ cacacatttc tggaaacttc tctggggtcc aagactagga ggttcctcta ggaccttaag 2460
+ gccctggctc ctttctggta tctcacagga cattttcttc ccacagatag aaaaggaggg 2520
+ agttacactc aggctgcaag taagtatgaa ggaggctgat gcctgaggtc cttgggatat 2580
+ tgtgtttggg agcccatggg ggagctcacc caccccacaa ttcctcctct agccacatct 2640
+ tctgtgggat ctgaccaggt tctgtttttg ttctacccca ggcagtgaca gtgcccaggg 2700
+ ctctgatgtg tctctcacag cttgtaaagg tgagagcttg gagggcctga tgtgtgttgg 2760
+ gtgttgggtg gaacagtgga cacagctgtg ctatggggtt tctttgcgtt ggatgtattg 2820
+ agcatgcgat gggctgttta aggtgtgacc cctcactgtg atggatatga atttgttcat 2880
+ gaatattttt ttctatagtg tga 2903
+//
+ID HLA15760; SV 1; standard; DNA; HUM; 3087 BP.
+XX
+AC HLA15760;
+XX
+SV HLA15760.1
+XX
+DT 30-SEP-2016 (Rel. 3.26.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:01:04, Human MHC Class I sequence
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:01:04;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; KX707637; KX707637.0.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..3087
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Unknown"
+FT /cell_line="RDP-CH2-65"
+FT CDS join(108..180,311..580,822..1097,1677..1952,2055..2171,
+FT 2614..2646,2789..2836,3006..3010)
+FT /codon_start=1
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:01:04"
+FT /product="MHC Class I HLA-A*01:01:01:04 sequence"
+FT /translation="MAVMAPRTLLLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPR
+FT FIAVGYVDDTQFVRFDSDAASQKMEPRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGT
+FT LRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMA
+FT AQITKRKWEAVHAAEQRRVYLEGRCVDGLRRYLENGKETLQRTDPPKTHMTHHPISDHE
+FT ATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGEEQRY
+FT TCHVQHEGLPKPLTLRWELSSQPTIPIVGIIAGLVLLGAVITGAVVAAVMWRRKSSDRK
+FT GGSYTQAASSDSAQGSDVSLTACKV"
+FT UTR 1..107
+FT exon 108..180
+FT /number="1"
+FT intron 181..310
+FT /number="1"
+FT exon 311..580
+FT /number="2"
+FT intron 581..821
+FT /number="2"
+FT exon 822..1097
+FT /number="3"
+FT intron 1098..1676
+FT /number="3"
+FT exon 1677..1952
+FT /number="4"
+FT intron 1953..2054
+FT /number="4"
+FT exon 2055..2171
+FT /number="5"
+FT intron 2172..2613
+FT /number="5"
+FT exon 2614..2646
+FT /number="6"
+FT intron 2647..2788
+FT /number="6"
+FT exon 2789..2836
+FT /number="7"
+FT intron 2837..3005
+FT /number="7"
+FT exon 3006..3010
+FT /number="8"
+FT UTR 3011..3087
+SQ Sequence 3087 BP; 592 A; 883 C; 961 G; 651 T; 0 other;
+ tcccattggg tgtcgggttt ccagagaagc caatcagtgt cgtcgcggtc gctgttctaa 60
+ agtccgcacg cacccaccgg gactcagatt ctccccagac gccgaggatg gccgtcatgg 120
+ cgccccgaac cctcctcctg ctactctcgg gggccctggc cctgacccag acctgggcgg 180
+ gtgagtgcgg ggtcgggagg gaaaccgcct ctgcggggag aagcaagggg ccctcctggc 240
+ gggggcgcag gaccggggga gccgcgccgg gaggagggtc gggcaggtct cagccactgc 300
+ tcgcccccag gctcccactc catgaggtat ttcttcacat ccgtgtcccg gcccggccgc 360
+ ggggagcccc gcttcatcgc cgtgggctac gtggacgaca cgcagttcgt gcggttcgac 420
+ agcgacgccg cgagccagaa gatggagccg cgggcgccgt ggatagagca ggaggggccg 480
+ gagtattggg accaggagac acggaatatg aaggcccact cacagactga ccgagcgaac 540
+ ctggggaccc tgcgcggcta ctacaaccag agcgaggacg gtgagtgacc ccggcccggg 600
+ gcgcaggtca cgacccctca tcccccacgg acgggccagg tcgcccacag tctccgggtc 660
+ cgagatccac cccgaagccg cgggactccg agacccttgt cccgggagag gcccaggcgc 720
+ ctttacccgg tttcattttc agtttaggcc aaaaatcccc ccgggttggt cggggcgggg 780
+ cggggctcgg gggactgggc tgaccgcggg gtcggggcca ggttctcaca ccatccagat 840
+ aatgtatggc tgcgacgtgg ggccggacgg gcgcttcctc cgcgggtacc ggcaggacgc 900
+ ctacgacggc aaggattaca tcgccctgaa cgaggacctg cgctcttgga ccgcggcgga 960
+ catggcagct cagatcacca agcgcaagtg ggaggcggtc catgcggcgg agcagcggag 1020
+ agtctacctg gagggccggt gcgtggacgg gctccgcaga tacctggaga acgggaagga 1080
+ gacgctgcag cgcacgggta ccaggggcca cggggcgcct ccctgatcgc ctatagatct 1140
+ cccgggctgg cctcccacaa ggaggggaga caattgggac caacactaga atatcaccct 1200
+ ccctctggtc ctgagggaga ggaatcctcc tgggtttcca gatcctgtac cagagagtga 1260
+ ctctgaggtt ccgccctgct ctctgacaca attaagggat aaaatctctg aaggagtgac 1320
+ gggaagacga tccctcgaat actgatgagt ggttcccttt gacaccggca gcagccttgg 1380
+ gcccgtgact tttcctctca ggccttgttc tctgcttcac actcaatgtg tgtggcggtc 1440
+ tgagtccagc acttctgagt ctctcagcct ccactcaggt caggaccaga agtcgctgtt 1500
+ cccttctcag ggaatagaag attatcccag gtgcctgtgt ccaggctggt gtctgggttc 1560
+ tgtgctctct tccccatccc gggtgtcctg tccattctca agatggccac atgcgtgctg 1620
+ gtggagtgtc ccatgacaga tgcaaaatgc ctgaattttc tgactcttcc cgtcagaccc 1680
+ ccccaagaca catatgaccc accaccccat ctctgaccat gaggccaccc tgaggtgctg 1740
+ ggccctgggc ttctaccctg cggagatcac actgacctgg cagcgggatg gggaggacca 1800
+ gacccaggac acggagctcg tggagaccag gcctgcaggg gatggaacct tccagaagtg 1860
+ ggcggctgtg gtggtgcctt ctggagagga gcagagatac acctgccatg tgcagcatga 1920
+ gggtctgccc aagcccctca ccctgagatg gggtaaggag ggagatgggg gtgtcatgtc 1980
+ tcttagggaa agcaggagcc tctctggaga cctttagcag ggtcagggcc cctcaccttc 2040
+ ccctcttttc ccagagctgt cttcccagcc caccatcccc atcgtgggca tcattgctgg 2100
+ cctggttctc cttggagctg tgatcactgg agctgtggtc gctgccgtga tgtggaggag 2160
+ gaagagctca ggtggagaag gggtgaaggg tggggtctga gatttcttgt ctcactgagg 2220
+ gttccaagcc ccagctagaa atgtgccctg tctcattact gggaagcacc ttccacaatc 2280
+ atgggccgac ccagcctggg ccctgtgtgc cagcacttac tcttttgtaa agcacctgtt 2340
+ aaaatgaagg acagatttat caccttgatt acggcggtga tgggacctga tcccagcagt 2400
+ cacaagtcac aggggaaggt ccctgaggac agacctcagg agggctattg gtccaggacc 2460
+ cacacctgct ttcttcatgt ttcctgatcc cgccctgggt ctgcagtcac acatttctgg 2520
+ aaacttctct ggggtccaag actaggaggt tcctctagga ccttaaggcc ctggctcctt 2580
+ tctggtatct cacaggacat tttcttccca cagatagaaa aggagggagt tacactcagg 2640
+ ctgcaagtaa gtatgaagga ggctgatgcc tgaggtcctt gggatattgt gtttgggagc 2700
+ ccatggggga gctcacccac cccacaattc ctcctctagc cacatcttct gtgggatctg 2760
+ accaggttct gtttttgttc taccccaggc agtgacagtg cccagggctc tgatgtgtct 2820
+ ctcacagctt gtaaaggtga gagcttggag ggcctgatgt gtgttgggtg ttgggtggaa 2880
+ cagtggacac agctgtgcta tggggtttct ttgcgttgga tgtattgagc atgcgatggg 2940
+ ctgtttaagg tgtgacccct cactgtgatg gatatgaatt tgttcatgaa tatttttttc 3000
+ tatagtgtga gacagctgcc ttgtgtggga ctgagaggca agagttgttc ctgcccttcc 3060
+ ctttgtgact tgaagaaccc tgacttt 3087
+//
+ID HLA01244; SV 1; standard; DNA; HUM; 546 BP.
+XX
+AC HLA01244;
+XX
+SV HLA01244.1
+XX
+DT 18-MAY-2000 (Rel. 1.7.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:02, Human MHC Class I sequence (partial)
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:02;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+RN [1]
+RP 1-546
+RX PUBMED; 12135434.
+RA Bradshaw D, Gans CP, Jones P, Rizzuto G, Steiner N, Mitton W, Ng J,
+RA Koester R, Hartzman RJ, Hurley CK;
+RT "Novel HLA-A locus alleles including A*01012, A*0306, A*0308, A*2616,
+RT A*2617, A*3009, A*3206, A*3403, A*3602 and A*6604";
+RL Tissue Antigens 59:325-7(2002).
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; AF248059; AF248059.1.
+DR EMBL; AF248060; AF248060.1.
+DR EMBL; AH009247; AH009247.1.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..546
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Mixed"
+FT /cell_line="GN00348"
+FT CDS <1..546>
+FT /codon_start=1
+FT /partial
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:02"
+FT /product="MHC Class I HLA-A*01:01:02 sequence"
+FT /translation="SHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQKME
+FT PRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGTLRGYYNQSEDGSHTIQIMYGCDVGP
+FT DGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMAAQITKRKWEAVHAAEQRRVYLEGRC
+FT VDGLRRYLENGKETLQRT"
+FT exon 1..270
+FT /number="2"
+FT exon 271..546
+FT /number="3"
+SQ Sequence 546 BP; 112 A; 163 C; 195 G; 76 T; 0 other;
+ gctcccactc catgaggtat ttcttcacat ccgtgtcccg gcccggccgc ggggagcccc 60
+ gcttcatcgc cgtgggctac gtggacgaca cgcagttcgt gcggttcgac agcgacgccg 120
+ cgagccagaa gatggagccg cgggcgccgt ggatagagca ggaggggccg gagtattggg 180
+ accaggagac acggaatatg aaggcccact cacagactga ccgagcgaac ctggggaccc 240
+ tgcgcggcta ctacaaccag agcgaggacg gttctcacac catccagata atgtatggct 300
+ gcgacgtggg gccggacggg cgcttcctcc gcgggtaccg gcaggacgcc tacgacggca 360
+ aggattacat cgccctgaac gaggacctgc gctcttggac cgcggcggac atggcagctc 420
+ agattaccaa gcgcaagtgg gaggcggtcc atgcggcgga gcagcggaga gtctacctgg 480
+ agggccggtg cgtggacggg ctccgcagat acctggagaa cgggaaggag acgctgcagc 540
+ gcacgg 546
+//
+ID HLA01971; SV 1; standard; DNA; HUM; 895 BP.
+XX
+AC HLA01971;
+XX
+SV HLA01971.1
+XX
+DT 31-JUL-2004 (Rel. 2.7.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:03, Human MHC Class I sequence (partial)
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:03;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+RN [1]
+RP 1-895
+RX PUBMED; 16866888.
+RA Voorter CE, Groeneveld L, Visser D, van den Berg-Loonen EM;
+RT "Characterization of a new HLA-A allele, A*010103";
+RL Tissue Antigens 68:173-4(2006).
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; AJ697951; AJ697951.0.
+DR EMBL; AJ697952; AJ697952.0.
+DR EMBL; AJ697953; AJ697953.0.
+DR EMBL; AJ697954; AJ697954.0.
+DR EMBL; GQ240343; GQ240343.0.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..895
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Unknown"
+FT /cell_line="27720"
+FT /cell_line="27785"
+FT /cell_line="HN-33780-2"
+FT CDS <1..895>
+FT /codon_start=1
+FT /partial
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:03"
+FT /product="MHC Class I HLA-A*01:01:03 sequence"
+FT /translation="MAVMAPRTLLLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPR
+FT FIAVGYVDDTQFVRFDSDAASQKMEPRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGT
+FT LRGYYNQSEDGSHTIQIMYGCDVGPDGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMA
+FT AQITKRKWEAVHAAEQRRVYLEGRCVDGLRRYLENGKETLQRTDPPKTHMTHHPISDHE
+FT ATLRCWALGFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGEEQRY
+FT TCHVQHEGLPKPLTLRW"
+FT exon 1..73
+FT /number="1"
+FT exon 74..343
+FT /number="2"
+FT exon 344..619
+FT /number="3"
+FT exon 620..895
+FT /number="4"
+SQ Sequence 895 BP; 179 A; 282 C; 304 G; 130 T; 0 other;
+ atggccgtca tggcgccccg aaccctcctc ctgctactct cgggggccct ggccctgacc 60
+ cagacctggg cgggctccca ctccatgagg tatttcttca catccgtgtc ccggcccggc 120
+ cgcggggagc cccgcttcat cgccgtgggc tacgtggacg acacgcagtt cgtgcggttc 180
+ gacagcgacg ccgcgagcca gaagatggag ccgcgggcgc cgtggataga gcaggagggg 240
+ ccggagtatt gggaccagga gacacggaat atgaaggccc actcacagac tgaccgagcg 300
+ aacctgggga ccctgcgcgg ctactacaac cagagcgagg acggttctca caccatccag 360
+ ataatgtatg gctgcgacgt ggggccggac gggcgcttcc tccgcgggta ccggcaggac 420
+ gcctacgacg gcaaggatta catcgccctg aacgaggacc tgcgctcttg gaccgcggcg 480
+ gacatggcag ctcagatcac caagcgcaag tgggaggcgg tccatgcggc ggagcagcgg 540
+ agagtctacc tggagggccg gtgcgtggac gggctccgca gatacctgga gaacgggaag 600
+ gagacgctgc agcgcactga cccccccaag acacatatga cccaccaccc catctctgac 660
+ catgaggcca ccctgaggtg ctgggccctg ggcttctacc ctgcggagat cacactgacc 720
+ tggcagcggg atggggagga ccagacccag gacacggagc tcgtggagac caggcctgca 780
+ ggggatggaa ccttccagaa gtgggcggct gtggtggtgc cttctggaga ggagcagaga 840
+ tacacctgcc atgtgcagca tgagggtctg cccaagcccc tcaccctgag atggg 895
+//
+ID HLA02540; SV 1; standard; DNA; HUM; 546 BP.
+XX
+AC HLA02540;
+XX
+SV HLA02540.1
+XX
+DT 30-APR-2006 (Rel. 2.14.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:04, Human MHC Class I sequence (partial)
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:04;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+RN [1]
+RP 1-546
+RX PUBMED; 16948651.
+RA Yu M, Hall JE, Hartman K, Caparelli E, Smyth E, Czech J, O'Gorman M;
+RT "A novel human leukocyte antigen-A*01 allele, A*010104, identified by
+RT polymerase chain reaction-sequence-based typing in a Caucasian
+RT hematopoietic stem cell donor";
+RL Tissue Antigens 68:263-263(2006).
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; DQ485722; DQ485722.0.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..546
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Unknown"
+FT /cell_line="DA894.3"
+FT CDS <1..546>
+FT /codon_start=1
+FT /partial
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:04"
+FT /product="MHC Class I HLA-A*01:01:04 sequence"
+FT /translation="SHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQKME
+FT PRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGTLRGYYNQSEDGSHTIQIMYGCDVGP
+FT DGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMAAQITKRKWEAVHAAEQRRVYLEGRC
+FT VDGLRRYLENGKETLQRT"
+FT exon 1..270
+FT /number="2"
+FT exon 271..546
+FT /number="3"
+SQ Sequence 546 BP; 112 A; 163 C; 195 G; 76 T; 0 other;
+ gctcccactc catgaggtat ttcttcacat ccgtgtcccg gcccggccgc ggggagcccc 60
+ gcttcatcgc cgtgggctac gtggacgaca cgcagttcgt gcggttcgac agcgacgccg 120
+ cgagccagaa gatggagccg cgggcgccgt ggatagagca ggaggggccg gagtattggg 180
+ accaggagac acggaatatg aaggcccact cacagactga ccgagcgaat ctggggaccc 240
+ tgcgcggcta ctacaaccag agcgaggacg gttctcacac catccagata atgtatggct 300
+ gcgacgtggg gccggacggg cgcttcctcc gcgggtaccg gcaggacgcc tacgacggca 360
+ aggattacat cgccctgaac gaggacctgc gctcttggac cgcggcggac atggcagctc 420
+ agatcaccaa gcgcaagtgg gaggcggtcc atgcggcgga gcagcggaga gtctacctgg 480
+ agggccggtg cgtggacggg ctccgcagat acctggagaa cgggaaggag acgctgcagc 540
+ gcacgg 546
+//
+ID HLA03131; SV 1; standard; DNA; HUM; 822 BP.
+XX
+AC HLA03131;
+XX
+SV HLA03131.1
+XX
+DT 25-SEP-2007 (Rel. 2.19.0, Created, Version 1)
+DT 14-OCT-2016 (Rel. 3.26.0, Last Updated, Version 1)
+XX
+DE HLA-A*01:01:05, Human MHC Class I sequence (partial)
+XX
+KW Human MHC; HLA; Class I; HLA-A; Allele; HLA-A*01:01:05;
+XX
+OS Homo Sapiens (human)
+OC Eukaryota; Metazoa; Chordata; Vertebrata; Mammalia; Eutheria; Primates;
+OC Catarrhini; Hominidae; Homo.
+XX
+CC --------------------------------------------------------------------------
+CC IPD-IMGT/HLA Release Version 3.26.0
+CC --------------------------------------------------------------------------
+CC Copyrighted by the IPD-IMGT/HLA Database, Distributed under the Creative
+CC Commons Attribution-NoDerivs License, see;
+CC http://www.ebi.ac.uk/ipd/imgt/hla/licence.html for further details.
+CC --------------------------------------------------------------------------
+XX
+CC --------------------------------------------------------------------------
+CC The sequence below is the official allele sequence as approved by the
+CC WHO Nomenclature Committee for Factors of the HLA System.
+CC Any cross references may differ from the sequence shown below.
+CC --------------------------------------------------------------------------
+XX
+DR EMBL; AM850141; AM850141.0.
+XX
+FH Key Location/Qualifiers
+FH
+FT source 1..822
+FT /organism="Homo sapiens"
+FT /mol_type="genomic DNA"
+FT /db_xref="taxon:9606"
+FT /ethnic="Caucasoid"
+FT /cell_line="99706"
+FT CDS <1..822>
+FT /codon_start=1
+FT /partial
+FT /gene="HLA-A"
+FT /allele="HLA-A*01:01:05"
+FT /product="MHC Class I HLA-A*01:01:05 sequence"
+FT /translation="SHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQKME
+FT PRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGTLRGYYNQSEDGSHTIQIMYGCDVGP
+FT DGRFLRGYRQDAYDGKDYIALNEDLRSWTAADMAAQITKRKWEAVHAAEQRRVYLEGRC
+FT VDGLRRYLENGKETLQRTDPPKTHMTHHPISDHEATLRCWALGFYPAEITLTWQRDGED
+FT QTQDTELVETRPAGDGTFQKWAAVVVPSGEEQRYTCHVQHEGLPKPLTLRW"
+FT exon 1..270
+FT /number="2"
+FT exon 271..546
+FT /number="3"
+FT exon 547..822
+FT /number="4"
+SQ Sequence 822 BP; 171 A; 250 C; 284 G; 117 T; 0 other;
+ gctcccactc catgaggtat ttcttcacat ccgtgtcccg gcccggccgc ggggagcccc 60
+ gcttcatcgc ggtgggctac gtggacgaca cgcagttcgt gcggttcgac agcgacgccg 120
+ cgagccagaa gatggagccg cgggcgccgt ggatagagca ggaggggccg gagtattggg 180
+ accaggagac acggaatatg aaggcccact cacagactga ccgagcgaac ctggggaccc 240
+ tgcgcggcta ctacaaccag agcgaggacg gttctcacac catccagata atgtatggct 300
+ gcgacgtggg gccggacggg cgcttcctcc gcgggtaccg gcaggacgcc tacgacggca 360
+ aggattacat cgccctgaac gaggacctgc gctcttggac cgcggcggac atggcagctc 420
+ agatcaccaa gcgcaagtgg gaggcggtcc atgcggcgga gcagcggaga gtctacctgg 480
+ agggccggtg cgtggacggg ctccgcagat acctggagaa cgggaaggag acgctgcagc 540
+ gcacggaccc ccccaagaca catatgaccc accaccccat ctctgaccat gaggccaccc 600
+ tgaggtgctg ggccctgggc ttctaccctg cggagatcac actgacctgg cagcgggatg 660
+ gggaggacca gacccaggac acggagctcg tggagaccag gcctgcaggg gatggaacct 720
+ tccagaagtg ggcggctgtg gtggtgcctt ctggagagga gcagagatac acctgccatg 780
+ tgcagcatga gggtctgccc aagcccctca ccctgagatg gg 822
+//
diff --git a/Tests/EMBL/kipo_prt_sample.embl b/Tests/EMBL/kipo_prt_sample.embl
new file mode 100644
index 0000000..e2f9efc
--- /dev/null
+++ b/Tests/EMBL/kipo_prt_sample.embl
@@ -0,0 +1,596 @@
+ID DI500001 STANDARD; PRT; 111 AA.
+XX
+AC DI500001;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013665-A/4: INTERNALIZING ANTI-CD-74 ANTIBODIES AND
+DE METHODS OF USE.
+XX
+KW KR 1020047013665-A/4.
+XX
+OS Mus musculus (house mouse)
+OC Mus musculus
+OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
+OC Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia;
+OC Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus.
+XX
+RN []
+RP [-]
+RA Hansen,H., Leung,S., Qu,Z. and Goldenberg,D.M.;
+RT "INTERNALIZING ANTI-CD-74 ANTIBODIES AND METHODS OF USE";
+RL Patent: KR 1020047013665-A/4 01-SEP-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..111
+XX
+SQ SEQUENCE 111 AA; 749F21BE CRC32;
+ DVVMTQTPLS LPVSLGDQAS ISCRSSQSLV HRNGNTYLHW YLQKPGQSPK LLIYTVSNRF 60
+ SGVPDRFSGS GSGTDFTLKI SRVEAEDLGL YFCSQSSHVP PTFGAGTKLE I 111
+//
+ID DI500002 STANDARD; PRT; 27 AA.
+XX
+AC DI500002;
+XX
+DT 30-APR-2009
+XX
+DE KR 1020047013597-A/36: Conjugates of Therapeutic or Cytotoxic
+DE Agents and Biologically Active Peptides.
+XX
+KW KR 1020047013597-A/36.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Fuselier,J.A. and Coy,D.H.;
+RT "Conjugates of Therapeutic or Cytotoxic Agents and Biologically
+RT Active Peptides";
+RL Patent: KR 1020047013597-A/36 31-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..27
+XX
+SQ SEQUENCE 27 AA; 78E70892 CRC32;
+ GSSSSSSSSS SSSSSSSXYS CFWKTCT 27
+//
+ID DI500003 standard; PRT; 7 AA.
+XX
+AC DI500003;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/161: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/161.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/161 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FH Key Location/Qualifiers
+FT source 1..7
+FT /db_xref="taxon:32630"
+FT /organism="synthetic construct"
+XX
+SQ Sequence 7 AA;
+ GSSNRAT 7
+//
+ID DI500004 STANDARD; PRT; 141 AA.
+XX
+AC DI500004;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013224-A/144: METHOD FOR THE RECOMBINATION OF GENETIC
+DE ELEMENTS.
+XX
+KW KR 1020047013224-A/144.
+XX
+OS Klebsiella pneumoniae
+OC Klebsiella pneumoniae
+OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales;
+OC Enterobacteriaceae; Klebsiella.
+XX
+RN []
+RP [-]
+RA Milano,J. and Tang,X.;
+RT "METHOD FOR THE RECOMBINATION OF GENETIC ELEMENTS";
+RL Patent: KR 1020047013224-A/144 25-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..141
+XX
+SQ SEQUENCE 141 AA; B10429EF CRC32;
+ MSEKTMRVQD YPLATRCPEH ILTPTGKPLT DITLEKVLSG EVGPQDVRIS RQTLEYQAQI 60
+ AEQMQRHAVA RNFRRAAELI AIPDERILAI YNALRPFRSS QAELLAIADE LEHTWHATVN 120
+ AAFVRESAEV YQQRHKLRKG S 141
+//
+ID DI500005 STANDARD; PRT; 31 AA.
+XX
+AC DI500005;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047012920-A/1: METHOD FOR ADMINISTERING GLP-1 MOLECULES.
+XX
+KW KR 1020047012920-A/1.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Khan,M.A., Jones,B.E. and Mcgill,J.M.;
+RT "METHOD FOR ADMINISTERING GLP-1 MOLECULES";
+RL Patent: KR 1020047012920-A/1 19-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..31
+XX
+SQ SEQUENCE 31 AA; 91FF0930 CRC32;
+ HAEGTFTSDV SSYLEGQAAK EFIAWLVKGR X 31
+//
+ID DI500006 STANDARD; PRT; 17 AA.
+XX
+AC DI500006;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/181: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/181.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/181 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..17
+XX
+SQ SEQUENCE 17 AA; 2DE10526 CRC32;
+ AINATGYRTY YADSVKG 17
+//
+ID DI500007 STANDARD; PRT; 22 AA.
+XX
+AC DI500007;
+XX
+DT 30-APR-2009
+XX
+DE KR 1020047013597-A/31: Conjugates of Therapeutic or Cytotoxic
+DE Agents and Biologically Active Peptides.
+XX
+KW KR 1020047013597-A/31.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Fuselier,J.A. and Coy,D.H.;
+RT "Conjugates of Therapeutic or Cytotoxic Agents and Biologically
+RT Active Peptides";
+RL Patent: KR 1020047013597-A/31 31-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..22
+XX
+SQ SEQUENCE 22 AA; 509706F3 CRC32;
+ GSSSSSSSSS SSXYSCFWKT CT 22
+//
+ID DI500008 STANDARD; PRT; 3 AA.
+XX
+AC DI500008;
+XX
+DT 30-APR-2009
+XX
+DE KR 1020047013597-A/12: Conjugates of Therapeutic or Cytotoxic
+DE Agents and Biologically Active Peptides.
+XX
+KW KR 1020047013597-A/12.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Fuselier,J.A. and Coy,D.H.;
+RT "Conjugates of Therapeutic or Cytotoxic Agents and Biologically
+RT Active Peptides";
+RL Patent: KR 1020047013597-A/12 31-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..3
+XX
+SQ SEQUENCE 3 AA; 1E900F8 CRC32;
+ KYS 3
+//
+ID DI500009 STANDARD; PRT; 17 AA.
+XX
+AC DI500009;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/379: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/379.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/379 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..17
+XX
+SQ SEQUENCE 17 AA; 2E5C0539 CRC32;
+ GKGNTHKPYG YVRYFDV 17
+//
+ID DI500010 STANDARD; PRT; 8 AA.
+XX
+AC DI500010;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/107: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/107.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/107 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..8
+XX
+SQ SEQUENCE 8 AA; BAF0297 CRC32;
+ QQTYNYPP 8
+//
+ID DI500011 STANDARD; PRT; 716 AA.
+XX
+AC DI500011;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013224-A/14: METHOD FOR THE RECOMBINATION OF GENETIC
+DE ELEMENTS.
+XX
+KW KR 1020047013224-A/14.
+XX
+OS unidentified
+OC unidentified
+OC unclassified sequences.
+XX
+RN []
+RP [-]
+RA Milano,J. and Tang,X.;
+RT "METHOD FOR THE RECOMBINATION OF GENETIC ELEMENTS";
+RL Patent: KR 1020047013224-A/14 25-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..716
+XX
+SQ SEQUENCE 716 AA; 96B3D52B CRC32;
+ MAPSLDSISH SFANGVASAK QAVNGASTNL AVAGSHLPTT QVTQVDIVEK MLAAPTDSTL 60
+ ELDGYSLNLG DVVSAARKGR PVRVKDSDEI RSKIDKSVEF LRSQLSMSVY GVTTGFGGSA 120
+ DTRTEDAISL QKALLEHQLC GVLPSSFDSF RLGRGLENSL PLEVVRGAMT IRVNSLTRGH 180
+ SAVRLVVLEA LTNFLNHGIT PIVPLRGTIS ASGDLSPLSY IAAAISGHPD SKVHVVHEGK 240
+ EKILYAREAM ALFNLEPVVL GPKEGLGLVN GTAVSASMAT LALHDAHMLS LLSQSLTAMT 300
+ VEAMVGHAGS FHPFLHDVTR PHPTQIEVAG NIRKLLEGSR FAVHHEEEVK VKDDEGILRQ 360
+ DRYPLRTSPQ WLGPLVSDLI HAHAVLTIEA GQSTTDNPLI DVENKTSHRG GNFQAAAVAN 420
+ TMEKTRLGLA QIGKLNFTQL TEMLNAGMNR GLPSCLAAED PSLSYHCKGL DIAAAAYTSE 480
+ LGHLANPVTT HVQPAEMANQ AVNSLALISA RRTTESNDVL SLLLATHLYC VLQAIDLRAT 540
+ EFEFKKQFGP AIVSLIDQHF GSAMTGSNLR DELVEKVNKT LAKRLEQTNS YDLVPRWHDA 600
+ FSFAAGTVVE VLSSTSLSLA AVNAWKVAAA ESAISLTRQV RETFWSAAST SSPALSYLSP 660
+ RTQILYAFVR EELGVKARRG DVFLGKQEVT IGSNVSKIYE AIKSGRINNV LLKMLA 716
+//
+ID DI500012 STANDARD; PRT; 8 AA.
+XX
+AC DI500012;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/105: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/105.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/105 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..8
+XX
+SQ SEQUENCE 8 AA; B87028D CRC32;
+ QQTYDYPP 8
+//
+ID DI500013 STANDARD; PRT; 111 AA.
+XX
+AC DI500013;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/229: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/229.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/229 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..111
+XX
+SQ SEQUENCE 111 AA; 72F521FD CRC32;
+ DIVLTQPPSV SGAPGQRVTI SCSGSSSNIG SNYVSWYQQL PGTAPKLLIY DNNQRPSGVP 60
+ DRFSGSKSGT SASLAITGLQ SEDEADYYCQ SXDXXXXXXV FGGGTKLTVL G 111
+//
+ID DI500014 STANDARD; PRT; 141 AA.
+XX
+AC DI500014;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013224-A/90: METHOD FOR THE RECOMBINATION OF GENETIC
+DE ELEMENTS.
+XX
+KW KR 1020047013224-A/90.
+XX
+OS Klebsiella pneumoniae
+OC Klebsiella pneumoniae
+OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales;
+OC Enterobacteriaceae; Klebsiella.
+XX
+RN []
+RP [-]
+RA Milano,J. and Tang,X.;
+RT "METHOD FOR THE RECOMBINATION OF GENETIC ELEMENTS";
+RL Patent: KR 1020047013224-A/90 25-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..141
+XX
+SQ SEQUENCE 141 AA; B10429EF CRC32;
+ MSEKTMRVQD YPLATRCPEH ILTPTGKPLT DITLEKVLSG EVGPQDVRIS RQTLEYQAQI 60
+ AEQMQRHAVA RNFRRAAELI AIPDERILAI YNALRPFRSS QAELLAIADE LEHTWHATVN 120
+ AAFVRESAEV YQQRHKLRKG S 141
+//
+ID DI500015 STANDARD; PRT; 644 AA.
+XX
+AC DI500015;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047015479-A/4: GENES ENCODING ACETOLACTATE SYNTHASE.
+XX
+KW KR 1020047015479-A/4.
+XX
+OS unidentified
+OC unidentified
+OC unclassified sequences.
+XX
+RN []
+RP [-]
+RA Kaku,K., Shimizu,T., Kawai,K., Nagayama,K., Fukuda,A. and Tanaka,Y.;
+RT "GENES ENCODING ACETOLACTATE SYNTHASE";
+RL Patent: KR 1020047015479-A/4 30-SEP-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..644
+XX
+SQ SEQUENCE 644 AA; 973ABF27 CRC32;
+ MATTAAAAAA ALSAAATAKT GRKNHQRHHV LPARGRVGAA AVRCSAVSPV TPPSPAPPAT 60
+ PLRPWGPAEP RKGADILVEA LERCGVSDVF AYPGGASMEI HQALTRSPVI TNHLFRHEQG 120
+ EAFAASGYAR ASGRVGVCVA TSGPGATNLV SALADALLDS VPMVAITGQV HRRMIGTDAF 180
+ QETPIVEVTR SITKHNYLVL DVEDIPRVIQ EAFFLASSGR PGPVLVDIPK DIQQQMAVPV 240
+ WDTSMNLPGY IARLPKPPAT ELLEQVLRLV GESRRPILYV GGGCSASGDE LRWFVELTGI 300
+ PVTTTLMGLG NFPSDDPLSL RMLGMHGTVY ANYAVDKADL LLAFGVRFDD RVTGKIEAFA 360
+ SRAKIVHIDI DPAEIGKNKQ PHVSICADVK LALQGLNALL QQSTTKTSSD FSAWHNELDQ 420
+ QKREFPLGYK TFGEEIPPQY AIQVLDELTK GEAIIATGVG QHQMWAAQYY TYKRPRQWLS 480
+ SAGLGAMGFG LPAAAGASVA NPGVTVVDID GDGSFLMNIQ ELALIRIENL PVKVMVLNNQ 540
+ HLGMVVQLED RFYKANRAHT YLGNPECESE IYPDFVTIAK GFNIPAVRVT KKSEVRAAIK 600
+ KMLETPGPYL LDIIVPHQEH VLPMIPSGGA FKDMILDGDG RTVY 644
+//
+ID DI500016 STANDARD; PRT; 17 AA.
+XX
+AC DI500016;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/116: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/116.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/116 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..17
+XX
+SQ SEQUENCE 17 AA; 2D19050E CRC32;
+ AISETGMHIY YADSVKG 17
+//
+ID DI500017 STANDARD; PRT; 3 AA.
+XX
+AC DI500017;
+XX
+DT 30-APR-2009
+XX
+DE KR 1020047013597-A/13: Conjugates of Therapeutic or Cytotoxic
+DE Agents and Biologically Active Peptides.
+XX
+KW KR 1020047013597-A/13.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Fuselier,J.A. and Coy,D.H.;
+RT "Conjugates of Therapeutic or Cytotoxic Agents and Biologically
+RT Active Peptides";
+RL Patent: KR 1020047013597-A/13 31-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..3
+XX
+SQ SEQUENCE 3 AA; 1F400F7 CRC32;
+ XKS 3
+//
+ID DI500018 STANDARD; PRT; 131 AA.
+XX
+AC DI500018;
+XX
+DT 30-APR-2009
+XX
+DE KR 1020030021065-A/6: Agent for inhibiting angiogenesis, containing
+DE peptides which comprise YH motif as effective component.
+XX
+KW KR 1020030021065-A/6.
+XX
+OS Homo sapiens (human)
+OC Homo sapiens
+OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
+OC Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
+OC Catarrhini; Hominidae; Homo.
+XX
+RN []
+RP [-]
+RA Kim,I. and Nam,J.;
+RT "Agent for inhibiting angiogenesis, containing peptides which
+RT comprise YH motif as effective component";
+RL Patent: KR 1020030021065-A/6 03-APR-2003.
+XX
+FH Key Location/Qualifiers
+FT source 1..131
+XX
+SQ SEQUENCE 131 AA; A372711 CRC32;
+ MGTVMDVLKG DNRFSMLVAA IQSAGLTETL NREGVYTVFA PTNEAFRALP PRERSRLLGD 60
+ AKELANILKY HIGDEILVSG GIGALVRLKS LQGDKLEVSL KNNVVSVNKE PVAEPDIMAT 120
+ NGVVHVITNV L 131
+//
+ID DI500019 STANDARD; PRT; 124 AA.
+XX
+AC DI500019;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013038-A/39: Anti A-beta antibodies and their use.
+XX
+KW KR 1020047013038-A/39.
+XX
+OS synthetic construct
+OC synthetic construct
+OC other sequences; artificial sequences.
+XX
+RN []
+RP [-]
+RA Bardroff,M., Bohrmann,B., Brockhaus,M., Huber,W., Kretzschmar,T.,
+RA Loehning,C., Roetscher,H., Nordstedt,C. and Rothe,C.;
+RT "Anti A-beta antibodies and their use";
+RL Patent: KR 1020047013038-A/39 20-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..124
+XX
+SQ SEQUENCE 124 AA; 1C4E2598 CRC32;
+ QLVESGGGLV QPGGSLRLSC AASGFTFSSY AMSWVRQAPG KGLEWVSAIN ADGNRKYYAD 60
+ SVKGRFTISR DNSKNTLYLQ MNSLRAEDTA VYYCARGKGN THKPYGYVRY FDVWGQGTLV 120
+ TVSS 124
+//
+ID DI500020 STANDARD; PRT; 754 AA.
+XX
+AC DI500020;
+XX
+DT 21-FEB-2008
+XX
+DE KR 1020047013224-A/164: METHOD FOR THE RECOMBINATION OF GENETIC
+DE ELEMENTS.
+XX
+KW KR 1020047013224-A/164.
+XX
+OS Klebsiella pneumoniae
+OC Klebsiella pneumoniae
+OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacteriales;
+OC Enterobacteriaceae; Klebsiella.
+XX
+RN []
+RP [-]
+RA Milano,J. and Tang,X.;
+RT "METHOD FOR THE RECOMBINATION OF GENETIC ELEMENTS";
+RL Patent: KR 1020047013224-A/164 25-AUG-2004.
+XX
+FH Key Location/Qualifiers
+FT source 1..754
+XX
+SQ SEQUENCE 754 AA; 5633DF80 CRC32;
+ MKRSKRFAVL AQRPVNQDGL IGEWPEEGLI AMDSPFDPVS SVKVDNGLIV ELDGKRRDQF 60
+ DMIDRFIADY AINVERTEQA MRLEAVEIAR MLVDIHVSRE EIIAITTAIT PAKAVEVMAQ 120
+ MNVVEMMMAL QKMRARRTPS NQCHVTNLKD NPVQIAADAA EAGIRGFSEQ ETTVGIARYA 180
+ PFNALALLVG SQCGRPGVLT QCSVEEATEL ELGMRGLTSY AETVSVYGTE AVFTDGDDTP 240
+ WSKAFLASAY ASRGLKMRYT SGTGSEALMG YSESKSMLYL ESRCIFITKG AGVQGLQNGA 300
+ VSCIGMTGAV PSGIRAVLAE NLIASMLDLE VASANDQTFS HSDIRRTART LMQMLPGTDF 360
+ IFSGYSAVPN YDNMFAGSNF DAEDFDDYNI LQRDLMVDGG LRPVTEAETI AIRQKAARAI 420
+ QAVFRELGLP PIADEEVEAA TYAHGSNEMP PRNVVEDLSA VEEMMKRNIT GLDIVGALSR 480
+ SGFEDIASNI LNMLRQRVTG DYLQTSAIFD RQFEVVSAVN DINDYQGPGT GYRISAERWA 540
+ EIKNIPGVVQ PDTIEQGGIP VQQTTQIQPS FTLKTREGGV ASADERADEV VIGVGPAFDK 600
+ HQHHTLIDMP HGAILKELIA GVEEEGLHAR VVRILRTSDV SFMAWDAANL SGSGIGIGIQ 660
+ SKGTTVIHQR DLLPLSNLEL FSQAPLLTLE TYRQIGKNAA RYARKESPSP VPVVNDQMVR 720
+ PKFMAKAALF HIKETKHVVQ DAEPVTLHID LVRE 754
+//
diff --git a/Tests/GenBank/EU851978_output.gbk b/Tests/GenBank/EU851978_output.gbk
new file mode 100644
index 0000000..2997404
--- /dev/null
+++ b/Tests/GenBank/EU851978_output.gbk
@@ -0,0 +1,87 @@
+LOCUS EU851978 1698 bp cRNA linear VRL 24-OCT-2008
+DEFINITION Influenza A virus (A/Wisconsin/36/2007(H1N1)) segment 4
+ hemagglutinin (HA) gene, complete cds.
+ACCESSION EU851978
+VERSION EU851978.1 GI:193084886
+KEYWORDS .
+SOURCE Influenza A virus (A/Wisconsin/36/2007(H1N1))
+ ORGANISM Influenza A virus (A/Wisconsin/36/2007(H1N1))
+ Viruses; ssRNA viruses; ssRNA negative-strand viruses;
+ Orthomyxoviridae; Influenzavirus A.
+REFERENCE 1 (bases 1 to 1698)
+ AUTHORS Garten,R., Barnes,J., Myrick,A., Smith,C., Xu,X. and Klimov,A.
+ TITLE Direct Submission
+ JOURNAL Submitted (25-JUN-2008) NCIRD/Influenza Division/VSDB, Centers for
+ Disease Control and Prevention, 1600 Clifton Road, NE, MS-G16,
+ Atlanta, GA 30333, USA
+COMMENT ##FluData-START##
+ LabID :: 2008704957
+ Antigen_Character :: A/Solomon Islands/03/2006-like (H1N1)
+ Passage_Details :: SPFCK3E1
+ Drug Sensitivity :: adamantane-sensitive, oseltamivir-sensitive
+ LANL Accession :: ISDN306605
+ ##FluData-END##
+FEATURES Location/Qualifiers
+ source 1..1698
+ /organism="Influenza A virus (A/Wisconsin/36/2007(H1N1))"
+ /mol_type="viral cRNA"
+ /strain="A/Wisconsin/36/2007"
+ /serotype="H1N1"
+ /isolate="2008704957"
+ /host="Homo sapiens"
+ /db_xref="taxon:535875"
+ /segment="4"
+ /country="USA"
+ /collection_date="30-Dec-2007"
+ gene 1..1698
+ /gene="HA"
+ CDS 1..1698
+ /gene="HA"
+ /codon_start=1
+ /product="hemagglutinin"
+ /protein_id="ACF10333.1"
+ /db_xref="GI:193084887"
+ /translation="MKVKLLVLLCTFTATYADTICIGYHANNSTDTVDTVLEKNVTVTH
+ SVNLLENSHNGKLCLLKGIAPLQLGNCSVAGWILGNPECELLISKESWSYIVEKPNPEN
+ GTCYPGHFADYEELREQLSSVSSFERFEIFPKESSWPNHTVTGVSASCSHNGESSFYRN
+ LLWLTGKNGLYPNLSKSYANNKEKEVLVLWGVHHPPNIGGQKALYHTENAYVSVVSSHY
+ SRKFTPEIAKRPKVRDQEGRINYYWTLLEPGDTIIFEANGNLIAPRYAFALSRGFGSGI
+ INSNAPMDKCDAKCQTPQGAINSSLPFQNVHPVTIGECPKYVRSAKLRMVTGLRNIPSI
+ QSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADQKSTQNAINGITNKVNSVI
+ EKMNTQFTAVGKEFNKLERRMENLNKKVDDGFIDIWTYNAELLVLLENERTLDFHDSNV
+ KNLYEKVKSQLKNNAKEIGNGCFEFYHKCNDECMESVKNGTYDYPKYSEESKLNREKID
+ GVKLESMGVYQILAIYSTVASSLVLLVSLGAISFWMCSNGSLQCRICI"
+ misc_feature 1..1698
+ /gene="HA"
+ /note="ISDN306605"
+ORIGIN
+ 1 atgaaagtaa aactactggt cctgttatgc acattcacag ctacatatgc agacacaata
+ 61 tgtataggct accatgctaa caactcgacc gacactgttg acacagtact tgaaaagaat
+ 121 gtgacagtga cacactctgt caacctgctt gagaacagtc acaatggaaa actatgtcta
+ 181 ttaaaaggaa tagccccact acaattgggt aactgcagcg ttgccgggtg gatcttagga
+ 241 aacccagaat gcgaattact gatttccaag gagtcatggt cctacattgt agaaaaacca
+ 301 aatcctgaga atggaacatg ttacccaggg catttcgctg actatgagga actgagggag
+ 361 caattgagtt cagtatcttc atttgagagg ttcgaaatat tccccaaaga aagctcatgg
+ 421 cccaaccaca ccgtaaccgg agtgtcagca tcatgctccc ataatgggga aagtagtttt
+ 481 tacagaaatt tgctatggct gacggggaag aatggtttgt acccaaacct gagcaagtcc
+ 541 tatgcaaaca acaaagaaaa agaagtcctt gtactatggg gtgttcatca cccgccaaac
+ 601 ataggtggcc aaaaggccct ctatcataca gaaaatgctt atgtttctgt agtgtcttca
+ 661 cattatagca gaaaattcac cccagaaata gccaaaagac ccaaagtaag agatcaagaa
+ 721 ggaagaatca actactactg gactctgctt gaacccgggg atacaataat atttgaggca
+ 781 aatggaaatc taatagcgcc aagatatgct ttcgcactga gtagaggctt tggatcagga
+ 841 atcatcaact caaatgcacc aatggataaa tgtgatgcga agtgccaaac acctcaggga
+ 901 gctataaaca gcagtcttcc tttccagaac gtacacccag tcacaatagg agagtgtcca
+ 961 aagtatgtca ggagtgcaaa attaaggatg gttacaggac taaggaacat cccatccatt
+ 1021 caatccagag gtttgtttgg agccattgcc ggtttcattg aaggggggtg gactggaatg
+ 1081 gtagatggtt ggtatggtta tcatcatcag aatgagcaag gatctggcta tgctgcagat
+ 1141 caaaaaagca cacaaaatgc cattaatgga attacaaaca aggtgaattc tgtaattgag
+ 1201 aaaatgaaca ctcaattcac agccgtgggc aaagaattca acaaattgga aagaaggatg
+ 1261 gaaaacttga ataaaaaagt tgatgatggg tttatagaca tctggacata taatgcagaa
+ 1321 ctgttggttc tactggaaaa tgaaaggact ttggatttcc atgactccaa tgtgaagaat
+ 1381 ctgtatgaga aagtaaaaag ccagttaaag aataatgcta aagaaatagg aaatgggtgt
+ 1441 tttgaattct atcacaagtg taacgatgaa tgcatggaga gtgtaaagaa tggaacttat
+ 1501 gactatccaa aatattccga agaatcaaag ttaaacaggg agaaaattga tggagtgaaa
+ 1561 ttggaatcaa tgggagtcta tcagattctg gcgatctact caacagtcgc cagttctctg
+ 1621 gttcttttgg tctccctggg ggcaatcagc ttctggatgt gttccaatgg gtctttgcag
+ 1681 tgtagaatat gcatctaa
+//
diff --git a/Tests/GenBank/HM138502_output.gbk b/Tests/GenBank/HM138502_output.gbk
new file mode 100644
index 0000000..200fd39
--- /dev/null
+++ b/Tests/GenBank/HM138502_output.gbk
@@ -0,0 +1,78 @@
+LOCUS HM138502 1410 bp cRNA linear VRL 22-APR-2010
+DEFINITION Influenza A virus (A/California/07/2009(H1N1)) segment 6
+ neuraminidase (NA) gene, complete cds.
+ACCESSION HM138502
+VERSION HM138502.1 GI:295002854
+DBLINK BioProject: PRJNA37813
+KEYWORDS .
+SOURCE Influenza A virus (A/California/07/2009(H1N1))
+ ORGANISM Influenza A virus (A/California/07/2009(H1N1))
+ Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
+ Influenzavirus A.
+REFERENCE 1 (bases 1 to 1410)
+ AUTHORS Starick,E.
+ TITLE Direct Submission
+ JOURNAL Submitted (21-APR-2010) Friedrich-Loeffler-Institut, Suedufer 10,
+ Greifswald-Insel Riems 17493, Germany
+COMMENT ##GISAID_EpiFlu(TM)Data-START##
+ Isolate :: A/California/07/09
+ Subtype :: H1N1
+ Lineage :: swl
+ ##GISAID_EpiFlu(TM)Data-END##
+ Swine influenza A (H1N1) virus isolated during human swine flu
+ outbreak of 2009.
+FEATURES Location/Qualifiers
+ source 1..1410
+ /organism="Influenza A virus (A/California/07/2009(H1N1))"
+ /mol_type="viral cRNA"
+ /strain="A/California/07/2009"
+ /serotype="H1N1"
+ /host="Homo sapiens"
+ /db_xref="taxon:641809"
+ /segment="6"
+ /country="USA"
+ /collection_date="09-Apr-2009"
+ /note="lineage: swl"
+ gene 1..1410
+ /gene="NA"
+ CDS 1..1410
+ /gene="NA"
+ /codon_start=1
+ /product="neuraminidase"
+ /protein_id="ADF58339.1"
+ /db_xref="GI:295002855"
+ /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHSIQLGNQNQ
+ IETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPVSGWAIYSKDN
+ SVRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDRSPYRTLMSCPI
+ GEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNN
+ ILRTQESECACVNGSCFTVMTDGPSNGQASYKIFRIEKGKIVKSVEMNAPNYHYEECSC
+ YPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNPRPNDKTGSCGPVSS
+ NGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTDNNFSIKQDIVGINEW
+ SGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSSISFCGVNSDTVGWSWP
+ DGAELPFTIDK"
+ORIGIN
+ 1 atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct
+ 61 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt
+ 121 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact
+ 181 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg
+ 241 gtttccgtga aattagcagg caattcctct ctctgccctg ttagtggatg ggctatatac
+ 301 agtaaagaca acagtgtaag aatcggttcc aagggggatg tgtttgtcat aagggaacca
+ 361 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta
+ 421 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc
+ 481 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca
+ 541 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat
+ 601 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga
+ 661 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact
+ 721 gtaatgaccg atggaccaag taatggacag gcctcataca agatcttcag aatagaaaag
+ 781 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc
+ 841 tgttatcctg attctagtga aatcacatgt gtgtgcaggg ataactggca tggctcgaat
+ 901 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg
+ 961 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct
+ 1021 aatggagcaa atggagtaaa agggttttca ttcaaatacg gcaatggtgt ttggataggg
+ 1081 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg
+ 1141 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca
+ 1201 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct
+ 1261 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg
+ 1321 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt
+ 1381 gctgagttgc catttaccat tgacaagtaa
+//
diff --git a/Tests/GenBank/KF527485_output.gbk b/Tests/GenBank/KF527485_output.gbk
new file mode 100644
index 0000000..4e2183c
--- /dev/null
+++ b/Tests/GenBank/KF527485_output.gbk
@@ -0,0 +1,82 @@
+LOCUS KF527485 1444 bp cRNA linear VRL 02-OCT-2013
+DEFINITION Influenza A virus (A/California/07/2009(H1N1)) segment 5
+ nucleocapsid protein (NP) gene, partial cds.
+ACCESSION KF527485
+VERSION KF527485.1 GI:537446968
+KEYWORDS .
+SOURCE Influenza A virus (A/California/07/2009(H1N1))
+ ORGANISM Influenza A virus (A/California/07/2009(H1N1))
+ Viruses; ssRNA negative-strand viruses; Orthomyxoviridae;
+ Influenzavirus A.
+REFERENCE 1 (bases 1 to 1444)
+ AUTHORS Le,V.L., Courtney,C.L., Steel,J. and Compans,R.W.
+ TITLE Closely Related Influenza Viruses Induce Contrasting Respiratory
+ Tract Immunopathology
+ JOURNAL PLoS ONE 8 (9), E76708 (2013)
+ PUBMED 24086762
+ REMARK Publication Status: Online-Only
+REFERENCE 2 (bases 1 to 1444)
+ AUTHORS Le,V.L., Courtney,C.L., Steel,J. and Compans,R.W.
+ TITLE Direct Submission
+ JOURNAL Submitted (07-AUG-2013) Microbiology and Immunology, Emory
+ University, 1518 Clifton Rd Suite 5000, Atlanta, GA 30322, USA
+COMMENT ##Assembly-Data-START##
+ Assembly Method :: Lasergene v. 10
+ Sequencing Technology :: ABI37XL; Sanger dideoxy sequencing
+ ##Assembly-Data-END##
+FEATURES Location/Qualifiers
+ source 1..1444
+ /organism="Influenza A virus (A/California/07/2009(H1N1))"
+ /mol_type="viral cRNA"
+ /strain="A/California/07/2009"
+ /serotype="H1N1"
+ /host="Homo sapiens"
+ /db_xref="taxon:641809"
+ /segment="5"
+ /country="USA"
+ /collection_date="09-Apr-2009"
+ /note="passage details: MDCK 6"
+ gene <1..>1444
+ /gene="NP"
+ CDS <1..>1444
+ /gene="NP"
+ /codon_start=2
+ /product="nucleocapsid protein"
+ /protein_id="AGU69828.1"
+ /db_xref="GI:537446969"
+ /translation="ASQGTKRSYEQMETGGERQDATEIRASVGRMIGGIGRFYIQMCTE
+ LKLSDYDGRLIQNSITIERMVLSAFDERRNKYLEEHPSAGKDPKKTGGPIYRRVGGKWM
+ RELILYDKEEIRRVWRQANNGEDATAGLTHIMIWHSNLNDATYQRTRALVRTGMDPRMC
+ SLMQGSTLPRRSGAAGAAVKGVGTIAMELIRMIKRGINDRNFWRGENGRRTRVAYERMC
+ NILKGKFQTAAQRAMMDQVRESRNPGNAEIEDLIFLARSALILRGSVAHKSCLPACVYG
+ LAVASGHDFEREGYSLVGIDPFKLLQNSQVVSLMRPNENPAHKSQLVWMACHSAAFEDL
+ RVSSFIRGKKVIPRGKLSTRGVQIASNENVETMDSNTLELRSRYWAIRTRSGGNTNQQK
+ ASAGQISVQPTFSVQRNLPFERATVMAAFSGNNEGRTSDMRTEVIRMMESAKPEDLSFQ
+ GRGVFELSDEKATNPIVPSFDMS"
+ORIGIN
+ 1 ggcgtctcaa ggcaccaaac gatcatatga acaaatggag actggtgggg agcgccagga
+ 61 tgccacagaa atcagagcat ctgtcggaag aatgattggt ggaatcggga gattctacat
+ 121 ccaaatgtgc actgaactca aactcagtga ttatgatgga cgactaatcc agaatagcat
+ 181 aacaatagag aggatggtgc tttctgcttt tgatgagaga agaaataaat acctagaaga
+ 241 gcatcccagt gctgggaagg accctaagaa aacaggagga cccatatata gaagagtagg
+ 301 cggaaagtgg atgagagaac tcatccttta tgacaaagaa gaaataagga gagtttggcg
+ 361 ccaagcaaac aatggcgaag atgcaacagc aggtcttact catatcatga tttggcattc
+ 421 caacctgaat gatgccacat atcagagaac aagagcgctt gttcgcaccg gaatggatcc
+ 481 cagaatgtgc tctctaatgc aaggttcaac acttcccaga aggtctggtg ccgcaggtgc
+ 541 tgcggtgaaa ggagttggaa caatagcaat ggagttaatc agaatgatca aacgtggaat
+ 601 caatgaccga aatttctgga ggggtgaaaa tggacgaagg acaagggttg cttatgaaag
+ 661 aatgtgcaat atcctcaaag gaaaatttca aacagctgcc cagagggcaa tgatggatca
+ 721 agtaagagaa agtcgaaacc caggaaacgc tgagattgaa gacctcattt tcctggcacg
+ 781 gtcagcactc attctgaggg gatcagttgc acataaatcc tgcctgcctg cttgtgtgta
+ 841 tgggcttgca gtagcaagtg ggcatgactt tgaaagggaa gggtactcac tggtcgggat
+ 901 agacccattc aaattactcc aaaacagcca agtggtcagc ctgatgagac caaatgaaaa
+ 961 cccagctcac aagagtcaat tggtgtggat ggcatgccac tctgctgcat ttgaagattt
+ 1021 aagagtatca agtttcataa gaggaaagaa agtgattcca agaggaaagc tttccacaag
+ 1081 aggggtccag attgcttcaa atgagaatgt ggaaaccatg gactccaata ccctggaact
+ 1141 gagaagcaga tactgggcca taaggaccag gagtggagga aataccaatc aacaaaaggc
+ 1201 atccgcaggc cagatcagtg tgcagcctac attctcagtg cagcggaatc tcccttttga
+ 1261 aagagcaacc gttatggcag cattcagcgg gaacaatgaa ggacggacat ccgacatgcg
+ 1321 aacagaagtt ataagaatga tggaaagtgc aaagccagaa gatttgtcct tccaggggcg
+ 1381 gggagtcttc gagctctcgg acgaaaaggc aacgaacccg atcgtgcctt cctttgacat
+ 1441 gagt
+//
diff --git a/Tests/Hmmer/README.txt b/Tests/Hmmer/README.txt
index 4e6d575..399ab31 100644
--- a/Tests/Hmmer/README.txt
+++ b/Tests/Hmmer/README.txt
@@ -18,7 +18,7 @@ text_30_hmmscan_006.out single query, multiple matches, multiple hsps per m
text_30_hmmscan_007.out single query, one match, no alignment
text_30_hmmscan_008.out single query, multiple matches, no alignment width
text_30_hmmscan_009.out single query, alignment block(s) with large gaps (bug 3399 in Redmine)
-text_30_hmmscan_010.out
+text_30_hmmscan_010.out
text_31b1_hmmsearch_001.out multiple queries
text_30_hmmsearch_001.out single query, no match
text_30_hmmsearch_002.out single query, multiple matches, multiple hsps per match
@@ -26,6 +26,8 @@ text_30_hmmsearch_003.out single query, multiple matches, multiple hsps per m
text_30_hmmsearch_004.out single query, multiple matches, multiple hsps per match, no alignment width
text_30_hmmsearch_005.out multiple queries
text_31b2_phmmer_001.out multiple queries, with -A flag (issue #588)
+text_31b2_hmmsearch_001.out single query, comment lines after query section (issue #1126)
+text_31b2_hmmsearch_002.out multiple queries, multiple comment lines after query section (issue #1126)
tab_31b1_hmmscan_001.out multiple queries
tab_30_hmmscan_001.out multiple queries
@@ -39,7 +41,7 @@ domtab_30_hmmscan_001.out multiple queries, hmm as hit
domtab_30_hmmscan_002.out single query, no match, hmm as hit
domtab_30_hmmscan_003.out single query, one match, one hsp per match, hmm as hit
domtab_30_hmmscan_004.out single query, multiple matches, one hsp per match, hmm as hit
-domtab_31b1_hmmsearch_001.out
+domtab_31b1_hmmsearch_001.out
domtab_30_hmmsearch_001.out single query, multiple matches, hmm as query
diff --git a/Tests/Hmmer/text_31b2_hmmsearch_001.out b/Tests/Hmmer/text_31b2_hmmsearch_001.out
new file mode 100644
index 0000000..4674a3e
--- /dev/null
+++ b/Tests/Hmmer/text_31b2_hmmsearch_001.out
@@ -0,0 +1,234 @@
+# hmmsearch :: search profile(s) against a sequence database
+# HMMER 3.1b2 (February 2015); http://hmmer.org/
+# Copyright (C) 2015 Howard Hughes Medical Institute.
+# Freely distributed under the GNU General Public License (GPLv3).
+# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
+# query HMM file: ../params/infile_hmm
+# target sequence database: /r_arc70
+# output directed to file: ../results/outfile
+# MSA of all hits saved to file: ../results/outfile_multi_sto
+# per-seq hits tabular output: ../results/tbl
+# per-dom hits tabular output: ../results/domtbl
+# sequence reporting threshold: E-value <= 1
+# number of worker threads: 12
+# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
+
+Query: infile_sto [M=46]
+Scores for complete sequences (score includes all domains):
+ --- full sequence --- --- best 1 domain --- -#dom-
+ E-value score bias E-value score bias exp N Sequence Description
+ ------- ------ ----- ------- ------ ----- ---- -- -------- -----------
+ ------ inclusion threshold ------
+ 0.017 20.1 0.6 0.03 19.3 0.6 1.3 1 KYH38259.1 alanine acetyltransferase [Candidatus Bathyar
+ 0.13 17.3 0.7 0.27 16.3 0.1 1.7 2 WP_054299021.1 ribosomal-protein-alanine N-acetyltransferase
+ 0.14 17.3 0.1 0.23 16.5 0.1 1.3 1 WP_054584921.1 hypothetical protein [Halolamina pelagica]KP
+ 0.18 16.9 0.7 0.35 15.9 0.7 1.5 1 WP_052883773.1 hypothetical protein [Thermofilum sp. 1807-2]
+ 0.39 15.8 0.0 1.3e+02 7.7 0.0 2.5 2 KYK22897.1 hypothetical protein AYK24_08245 [Thermoplasm
+ 0.41 15.7 0.2 26 9.9 0.0 3.2 3 AIF02201.1 GTPase domain-containing protein [uncultured
+ 0.48 15.5 0.7 1.1e+03 4.8 0.1 3.9 4 WP_062399658.1 hypothetical protein [Methanogenium cariaci]
+ 0.48 15.5 0.0 51 9.0 0.0 2.5 2 KYK32494.1 hypothetical protein AYK19_02995 [Thermoplasm
+ 0.69 15.0 0.1 9.8 11.3 0.0 2.5 2 KUO39566.1 hypothetical protein APZ16_01915 [Hadesarchae
+ 0.9 14.6 0.1 1.7 13.7 0.1 1.4 1 OGD45671.1 hypothetical protein A3K79_06915 [Candidatus
+
+
+Domain annotation for each sequence (and alignments):
+>> KYH38259.1 alanine acetyltransferase [Candidatus Bathyarchaeota archaeon B23]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 19.3 0.6 4.4e-07 0.03 5 27 .. 49 71 .. 47 75 .. 0.91
+
+ Alignments for each domain:
+ == domain 1 score: 19.3 bits; conditional E-value: 4.4e-07
+ infile_sto 5 aDGeivGfvwGtpgganeGkviG 27
+ +DG++vG+v+G+ +ga +G vi
+ KYH38259.1 49 VDGRVVGYVMGEMEGAKVGHVIN 71
+ 7******************9996 PP
+
+>> WP_054299021.1 ribosomal-protein-alanine N-acetyltransferase RimI [Methanosarcina flavescens]KPL45943.1 ribosomal-p
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 16.3 0.1 3.9e-06 0.27 4 25 .. 44 65 .. 43 71 .. 0.87
+ 2 ? -2.3 0.0 2.6 1.8e+05 4 9 .. 132 137 .. 130 139 .. 0.54
+
+ Alignments for each domain:
+ == domain 1 score: 16.3 bits; conditional E-value: 3.9e-06
+ infile_sto 4 eaDGeivGfvwGtpgganeGkv 25
+ e DG++vG+v G+ +neG +
+ WP_054299021.1 44 EQDGKVVGYVVGYRSAENEGHI 65
+ 78******************76 PP
+
+ == domain 2 score: -2.3 bits; conditional E-value: 2.6
+ infile_sto 4 eaDGei 9
+ ++DG +
+ WP_054299021.1 132 GEDGMV 137
+ 555554 PP
+
+>> WP_054584921.1 hypothetical protein [Halolamina pelagica]KPN29154.1 hypothetical protein SY89_03388 [Halolamina pel
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 16.5 0.1 3.3e-06 0.23 14 37 .. 14 38 .. 10 42 .. 0.86
+
+ Alignments for each domain:
+ == domain 1 score: 16.5 bits; conditional E-value: 3.3e-06
+ infile_sto 14 wGtpgganeGkviGfevrlEdGs.e 37
+ +G+ +a+ G ++G +vr+EdG+
+ WP_054584921.1 14 EGKHVLAPDGEMVGEVVRTEDGTaF 38
+ 799999****************944 PP
+
+>> WP_052883773.1 hypothetical protein [Thermofilum sp. 1807-2]AKG38376.1 hypothetical protein MA03_02555 [Thermofilum
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 15.9 0.7 5.2e-06 0.35 15 43 .. 290 321 .. 279 323 .. 0.74
+
+ Alignments for each domain:
+ == domain 1 score: 15.9 bits; conditional E-value: 5.2e-06
+ infile_sto 15 GtpgganeG..kviGf.evrlEdGsevnasGi 43
+ G+ g++e+ + iG+ +vrl dG+ev+++Gi
+ WP_052883773.1 290 GEVVGEFENsfRSIGYlTVRLADGREVTVGGI 321
+ 4444555552245******************9 PP
+
+>> KYK22897.1 hypothetical protein AYK24_08245 [Thermoplasmatales archaeon SG8-52-4]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 5.4 0.0 0.01 7e+02 19 37 .. 94 112 .. 90 114 .. 0.88
+ 2 ? 7.7 0.0 0.002 1.3e+02 5 26 .. 185 206 .. 178 209 .. 0.92
+
+ Alignments for each domain:
+ == domain 1 score: 5.4 bits; conditional E-value: 0.01
+ infile_sto 19 ganeGkviGf.evrlEdGse 37
+ an G viG+ + r+ dG +
+ KYK22897.1 94 HANNG-VIGSkSWRFHDGKT 112
+ 5999*.***********976 PP
+
+ == domain 2 score: 7.7 bits; conditional E-value: 0.002
+ infile_sto 5 aDGeivGfvwGtpgganeGkvi 26
+ DG+i+ + w + + ++ +kvi
+ KYK22897.1 185 PDGKIISYKWSYHDVKTPNKVI 206
+ 6******************998 PP
+
+>> AIF02201.1 GTPase domain-containing protein [uncultured marine group II/III euryarchaeote KM3_155_E06]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 1.9 0.1 0.13 8.7e+03 2 15 .. 71 84 .. 70 89 .. 0.86
+ 2 ? -2.9 0.0 4 2.7e+05 10 18 .. 295 303 .. 294 310 .. 0.82
+ 3 ? 9.9 0.0 0.00038 26 11 39 .. 397 423 .. 397 426 .. 0.88
+
+ Alignments for each domain:
+ == domain 1 score: 1.9 bits; conditional E-value: 0.13
+ infile_sto 2 edeaDGeivGfvwG 15
+ +de+DG i+ + G
+ AIF02201.1 71 DDERDGSICQPNTG 84
+ 89******998888 PP
+
+ == domain 2 score: -2.9 bits; conditional E-value: 4
+ infile_sto 10 vGfvwGtpg 18
+ + +v+G+p+
+ AIF02201.1 295 IAYVPGEPE 303
+ 689999976 PP
+
+ == domain 3 score: 9.9 bits; conditional E-value: 0.00038
+ infile_sto 11 GfvwGtpgganeGkviGfevrlEdGsevn 39
+ Gf ++t +a +++iG e +lEdG +v
+ AIF02201.1 397 GFIRAT--DARTNRIIGAEHELEDGAVVK 423
+ 677788..8999***************97 PP
+
+>> WP_062399658.1 hypothetical protein [Methanogenium cariaci]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? -1.3 0.0 1.3 8.7e+04 31 38 .. 87 94 .. 86 97 .. 0.74
+ 2 ? 2.1 0.0 0.11 7.4e+03 31 43 .. 125 137 .. 124 139 .. 0.85
+ 3 ? 3.7 0.0 0.035 2.4e+03 31 45 .. 165 179 .. 164 180 .. 0.83
+ 4 ? 4.8 0.1 0.016 1.1e+03 31 43 .. 205 217 .. 202 220 .. 0.82
+
+ Alignments for each domain:
+ == domain 1 score: -1.3 bits; conditional E-value: 1.3
+ infile_sto 31 rlEdGsev 38
+ ++EdGs++
+ WP_062399658.1 87 LTEDGSIF 94
+ 57999876 PP
+
+ == domain 2 score: 2.1 bits; conditional E-value: 0.11
+ infile_sto 31 rlEdGsevnasGi 43
+ ++E+Gs+v+ +G
+ WP_062399658.1 125 LTENGSIVAWGGW 137
+ 68******99985 PP
+
+ == domain 3 score: 3.7 bits; conditional E-value: 0.035
+ infile_sto 31 rlEdGsevnasGisk 45
+ ++EdG++v+ +G ++
+ WP_062399658.1 165 LTEDGMIVAWGGWDR 179
+ 68******9999765 PP
+
+ == domain 4 score: 4.8 bits; conditional E-value: 0.016
+ infile_sto 31 rlEdGsevnasGi 43
+ ++EdG++v+ +G
+ WP_062399658.1 205 LTEDGTIVAWGGG 217
+ 6899999999986 PP
+
+>> KYK32494.1 hypothetical protein AYK19_02995 [Thermoplasmatales archaeon DG-70-1]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 3.9 0.0 0.03 2e+03 8 23 .. 24 39 .. 24 41 .. 0.91
+ 2 ? 9.0 0.0 0.00075 51 14 39 .. 228 251 .. 225 255 .. 0.84
+
+ Alignments for each domain:
+ == domain 1 score: 3.9 bits; conditional E-value: 0.03
+ infile_sto 8 eivGfvwGtpgganeG 23
+ +i+++ Gt+g+an +
+ KYK32494.1 24 RIIDVKTGTAGKANQD 39
+ 69************97 PP
+
+ == domain 2 score: 9.0 bits; conditional E-value: 0.00075
+ infile_sto 14 wGtpgganeGkviGf.evrlEdGsevn 39
+ +G+ + +e+ vi + +++ E+G++v+
+ KYK32494.1 228 RGK--DTFEK-VIKSiSLLIENGMKVR 251
+ 688..45999.**************97 PP
+
+>> KUO39566.1 hypothetical protein APZ16_01915 [Hadesarchaea archaeon YNP_45]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 0.6 0.0 0.33 2.2e+04 32 44 .. 36 48 .. 33 50 .. 0.86
+ 2 ? 11.3 0.0 0.00014 9.8 28 44 .. 163 179 .. 155 181 .. 0.88
+
+ Alignments for each domain:
+ == domain 1 score: 0.6 bits; conditional E-value: 0.33
+ infile_sto 32 lEdGsevnasGis 44
+ EdG +++a+ ++
+ KUO39566.1 36 SEDGPVTAAGAFT 48
+ 59********998 PP
+
+ == domain 2 score: 11.3 bits; conditional E-value: 0.00014
+ infile_sto 28 fevrlEdGsevnasGis 44
+ +++lEdG+ vn++Gi
+ KUO39566.1 163 VQIELEDGTPVNIGGIA 179
+ 589************96 PP
+
+>> OGD45671.1 hypothetical protein A3K79_06915 [Candidatus Bathyarchaeota archaeon RBG_13_46_16b]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 13.7 0.1 2.6e-05 1.7 4 16 .. 65 77 .. 64 81 .. 0.89
+
+ Alignments for each domain:
+ == domain 1 score: 13.7 bits; conditional E-value: 2.6e-05
+ infile_sto 4 eaDGeivGfvwGt 16
+ eaDGei+G+v+G+
+ OGD45671.1 65 EADGEIIGYVQGE 77
+ 89**********8 PP
+
+
+
+Internal pipeline statistics summary:
+-------------------------------------
+Query model(s): 1 (46 nodes)
+Target sequences: 679520 (173599232 residues searched)
+Passed MSV filter: 26202 (0.0385596); expected 13590.4 (0.02)
+Passed bias filter: 18222 (0.026816); expected 13590.4 (0.02)
+Passed Vit filter: 1432 (0.00210737); expected 679.5 (0.001)
+Passed Fwd filter: 51 (7.5053e-05); expected 6.8 (1e-05)
+Initial search space (Z): 679520 [actual number of targets]
+Domain search space (domZ): 10 [number of targets reported over threshold]
+# CPU time: 5.29u 0.50s 00:00:05.79 Elapsed: 00:00:05.83
+# Mc/sec: 1369.74
+//
+# No hits satisfy inclusion thresholds; no alignment saved
+[ok]
diff --git a/Tests/Hmmer/text_31b2_hmmsearch_002.out b/Tests/Hmmer/text_31b2_hmmsearch_002.out
new file mode 100644
index 0000000..4e3e859
--- /dev/null
+++ b/Tests/Hmmer/text_31b2_hmmsearch_002.out
@@ -0,0 +1,465 @@
+# hmmsearch :: search profile(s) against a sequence database
+# HMMER 3.1b2 (February 2015); http://hmmer.org/
+# Copyright (C) 2015 Howard Hughes Medical Institute.
+# Freely distributed under the GNU General Public License (GPLv3).
+# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
+# query HMM file: ../params/infile_hmm
+# target sequence database: /r_arc70
+# output directed to file: ../results/outfile
+# MSA of all hits saved to file: ../results/outfile_multi_sto
+# per-seq hits tabular output: ../results/tbl
+# per-dom hits tabular output: ../results/domtbl
+# sequence reporting threshold: E-value <= 1
+# number of worker threads: 12
+# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
+
+Query: infile_sto [M=46]
+Scores for complete sequences (score includes all domains):
+ --- full sequence --- --- best 1 domain --- -#dom-
+ E-value score bias E-value score bias exp N Sequence Description
+ ------- ------ ----- ------- ------ ----- ---- -- -------- -----------
+ ------ inclusion threshold ------
+ 0.017 20.1 0.6 0.03 19.3 0.6 1.3 1 KYH38259.1 alanine acetyltransferase [Candidatus Bathyar
+ 0.13 17.3 0.7 0.27 16.3 0.1 1.7 2 WP_054299021.1 ribosomal-protein-alanine N-acetyltransferase
+ 0.14 17.3 0.1 0.23 16.5 0.1 1.3 1 WP_054584921.1 hypothetical protein [Halolamina pelagica]KP
+ 0.18 16.9 0.7 0.35 15.9 0.7 1.5 1 WP_052883773.1 hypothetical protein [Thermofilum sp. 1807-2]
+ 0.39 15.8 0.0 1.3e+02 7.7 0.0 2.5 2 KYK22897.1 hypothetical protein AYK24_08245 [Thermoplasm
+ 0.41 15.7 0.2 26 9.9 0.0 3.2 3 AIF02201.1 GTPase domain-containing protein [uncultured
+ 0.48 15.5 0.7 1.1e+03 4.8 0.1 3.9 4 WP_062399658.1 hypothetical protein [Methanogenium cariaci]
+ 0.48 15.5 0.0 51 9.0 0.0 2.5 2 KYK32494.1 hypothetical protein AYK19_02995 [Thermoplasm
+ 0.69 15.0 0.1 9.8 11.3 0.0 2.5 2 KUO39566.1 hypothetical protein APZ16_01915 [Hadesarchae
+ 0.9 14.6 0.1 1.7 13.7 0.1 1.4 1 OGD45671.1 hypothetical protein A3K79_06915 [Candidatus
+
+
+Domain annotation for each sequence (and alignments):
+>> KYH38259.1 alanine acetyltransferase [Candidatus Bathyarchaeota archaeon B23]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 19.3 0.6 4.4e-07 0.03 5 27 .. 49 71 .. 47 75 .. 0.91
+
+ Alignments for each domain:
+ == domain 1 score: 19.3 bits; conditional E-value: 4.4e-07
+ infile_sto 5 aDGeivGfvwGtpgganeGkviG 27
+ +DG++vG+v+G+ +ga +G vi
+ KYH38259.1 49 VDGRVVGYVMGEMEGAKVGHVIN 71
+ 7******************9996 PP
+
+>> WP_054299021.1 ribosomal-protein-alanine N-acetyltransferase RimI [Methanosarcina flavescens]KPL45943.1 ribosomal-p
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 16.3 0.1 3.9e-06 0.27 4 25 .. 44 65 .. 43 71 .. 0.87
+ 2 ? -2.3 0.0 2.6 1.8e+05 4 9 .. 132 137 .. 130 139 .. 0.54
+
+ Alignments for each domain:
+ == domain 1 score: 16.3 bits; conditional E-value: 3.9e-06
+ infile_sto 4 eaDGeivGfvwGtpgganeGkv 25
+ e DG++vG+v G+ +neG +
+ WP_054299021.1 44 EQDGKVVGYVVGYRSAENEGHI 65
+ 78******************76 PP
+
+ == domain 2 score: -2.3 bits; conditional E-value: 2.6
+ infile_sto 4 eaDGei 9
+ ++DG +
+ WP_054299021.1 132 GEDGMV 137
+ 555554 PP
+
+>> WP_054584921.1 hypothetical protein [Halolamina pelagica]KPN29154.1 hypothetical protein SY89_03388 [Halolamina pel
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 16.5 0.1 3.3e-06 0.23 14 37 .. 14 38 .. 10 42 .. 0.86
+
+ Alignments for each domain:
+ == domain 1 score: 16.5 bits; conditional E-value: 3.3e-06
+ infile_sto 14 wGtpgganeGkviGfevrlEdGs.e 37
+ +G+ +a+ G ++G +vr+EdG+
+ WP_054584921.1 14 EGKHVLAPDGEMVGEVVRTEDGTaF 38
+ 799999****************944 PP
+
+>> WP_052883773.1 hypothetical protein [Thermofilum sp. 1807-2]AKG38376.1 hypothetical protein MA03_02555 [Thermofilum
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 15.9 0.7 5.2e-06 0.35 15 43 .. 290 321 .. 279 323 .. 0.74
+
+ Alignments for each domain:
+ == domain 1 score: 15.9 bits; conditional E-value: 5.2e-06
+ infile_sto 15 GtpgganeG..kviGf.evrlEdGsevnasGi 43
+ G+ g++e+ + iG+ +vrl dG+ev+++Gi
+ WP_052883773.1 290 GEVVGEFENsfRSIGYlTVRLADGREVTVGGI 321
+ 4444555552245******************9 PP
+
+>> KYK22897.1 hypothetical protein AYK24_08245 [Thermoplasmatales archaeon SG8-52-4]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 5.4 0.0 0.01 7e+02 19 37 .. 94 112 .. 90 114 .. 0.88
+ 2 ? 7.7 0.0 0.002 1.3e+02 5 26 .. 185 206 .. 178 209 .. 0.92
+
+ Alignments for each domain:
+ == domain 1 score: 5.4 bits; conditional E-value: 0.01
+ infile_sto 19 ganeGkviGf.evrlEdGse 37
+ an G viG+ + r+ dG +
+ KYK22897.1 94 HANNG-VIGSkSWRFHDGKT 112
+ 5999*.***********976 PP
+
+ == domain 2 score: 7.7 bits; conditional E-value: 0.002
+ infile_sto 5 aDGeivGfvwGtpgganeGkvi 26
+ DG+i+ + w + + ++ +kvi
+ KYK22897.1 185 PDGKIISYKWSYHDVKTPNKVI 206
+ 6******************998 PP
+
+>> AIF02201.1 GTPase domain-containing protein [uncultured marine group II/III euryarchaeote KM3_155_E06]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 1.9 0.1 0.13 8.7e+03 2 15 .. 71 84 .. 70 89 .. 0.86
+ 2 ? -2.9 0.0 4 2.7e+05 10 18 .. 295 303 .. 294 310 .. 0.82
+ 3 ? 9.9 0.0 0.00038 26 11 39 .. 397 423 .. 397 426 .. 0.88
+
+ Alignments for each domain:
+ == domain 1 score: 1.9 bits; conditional E-value: 0.13
+ infile_sto 2 edeaDGeivGfvwG 15
+ +de+DG i+ + G
+ AIF02201.1 71 DDERDGSICQPNTG 84
+ 89******998888 PP
+
+ == domain 2 score: -2.9 bits; conditional E-value: 4
+ infile_sto 10 vGfvwGtpg 18
+ + +v+G+p+
+ AIF02201.1 295 IAYVPGEPE 303
+ 689999976 PP
+
+ == domain 3 score: 9.9 bits; conditional E-value: 0.00038
+ infile_sto 11 GfvwGtpgganeGkviGfevrlEdGsevn 39
+ Gf ++t +a +++iG e +lEdG +v
+ AIF02201.1 397 GFIRAT--DARTNRIIGAEHELEDGAVVK 423
+ 677788..8999***************97 PP
+
+>> WP_062399658.1 hypothetical protein [Methanogenium cariaci]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? -1.3 0.0 1.3 8.7e+04 31 38 .. 87 94 .. 86 97 .. 0.74
+ 2 ? 2.1 0.0 0.11 7.4e+03 31 43 .. 125 137 .. 124 139 .. 0.85
+ 3 ? 3.7 0.0 0.035 2.4e+03 31 45 .. 165 179 .. 164 180 .. 0.83
+ 4 ? 4.8 0.1 0.016 1.1e+03 31 43 .. 205 217 .. 202 220 .. 0.82
+
+ Alignments for each domain:
+ == domain 1 score: -1.3 bits; conditional E-value: 1.3
+ infile_sto 31 rlEdGsev 38
+ ++EdGs++
+ WP_062399658.1 87 LTEDGSIF 94
+ 57999876 PP
+
+ == domain 2 score: 2.1 bits; conditional E-value: 0.11
+ infile_sto 31 rlEdGsevnasGi 43
+ ++E+Gs+v+ +G
+ WP_062399658.1 125 LTENGSIVAWGGW 137
+ 68******99985 PP
+
+ == domain 3 score: 3.7 bits; conditional E-value: 0.035
+ infile_sto 31 rlEdGsevnasGisk 45
+ ++EdG++v+ +G ++
+ WP_062399658.1 165 LTEDGMIVAWGGWDR 179
+ 68******9999765 PP
+
+ == domain 4 score: 4.8 bits; conditional E-value: 0.016
+ infile_sto 31 rlEdGsevnasGi 43
+ ++EdG++v+ +G
+ WP_062399658.1 205 LTEDGTIVAWGGG 217
+ 6899999999986 PP
+
+>> KYK32494.1 hypothetical protein AYK19_02995 [Thermoplasmatales archaeon DG-70-1]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 3.9 0.0 0.03 2e+03 8 23 .. 24 39 .. 24 41 .. 0.91
+ 2 ? 9.0 0.0 0.00075 51 14 39 .. 228 251 .. 225 255 .. 0.84
+
+ Alignments for each domain:
+ == domain 1 score: 3.9 bits; conditional E-value: 0.03
+ infile_sto 8 eivGfvwGtpgganeG 23
+ +i+++ Gt+g+an +
+ KYK32494.1 24 RIIDVKTGTAGKANQD 39
+ 69************97 PP
+
+ == domain 2 score: 9.0 bits; conditional E-value: 0.00075
+ infile_sto 14 wGtpgganeGkviGf.evrlEdGsevn 39
+ +G+ + +e+ vi + +++ E+G++v+
+ KYK32494.1 228 RGK--DTFEK-VIKSiSLLIENGMKVR 251
+ 688..45999.**************97 PP
+
+>> KUO39566.1 hypothetical protein APZ16_01915 [Hadesarchaea archaeon YNP_45]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 0.6 0.0 0.33 2.2e+04 32 44 .. 36 48 .. 33 50 .. 0.86
+ 2 ? 11.3 0.0 0.00014 9.8 28 44 .. 163 179 .. 155 181 .. 0.88
+
+ Alignments for each domain:
+ == domain 1 score: 0.6 bits; conditional E-value: 0.33
+ infile_sto 32 lEdGsevnasGis 44
+ EdG +++a+ ++
+ KUO39566.1 36 SEDGPVTAAGAFT 48
+ 59********998 PP
+
+ == domain 2 score: 11.3 bits; conditional E-value: 0.00014
+ infile_sto 28 fevrlEdGsevnasGis 44
+ +++lEdG+ vn++Gi
+ KUO39566.1 163 VQIELEDGTPVNIGGIA 179
+ 589************96 PP
+
+>> OGD45671.1 hypothetical protein A3K79_06915 [Candidatus Bathyarchaeota archaeon RBG_13_46_16b]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 13.7 0.1 2.6e-05 1.7 4 16 .. 65 77 .. 64 81 .. 0.89
+
+ Alignments for each domain:
+ == domain 1 score: 13.7 bits; conditional E-value: 2.6e-05
+ infile_sto 4 eaDGeivGfvwGt 16
+ eaDGei+G+v+G+
+ OGD45671.1 65 EADGEIIGYVQGE 77
+ 89**********8 PP
+
+
+
+Internal pipeline statistics summary:
+-------------------------------------
+Query model(s): 1 (46 nodes)
+Target sequences: 679520 (173599232 residues searched)
+Passed MSV filter: 26202 (0.0385596); expected 13590.4 (0.02)
+Passed bias filter: 18222 (0.026816); expected 13590.4 (0.02)
+Passed Vit filter: 1432 (0.00210737); expected 679.5 (0.001)
+Passed Fwd filter: 51 (7.5053e-05); expected 6.8 (1e-05)
+Initial search space (Z): 679520 [actual number of targets]
+Domain search space (domZ): 10 [number of targets reported over threshold]
+# CPU time: 5.29u 0.50s 00:00:05.79 Elapsed: 00:00:05.83
+# Mc/sec: 1369.74
+//
+# hmmsearch :: search profile(s) against a sequence database
+# HMMER 3.1b2 (February 2015); http://hmmer.org/asdasd
+# Copyright (C) 2015 Howard Hughes Medical Institute.
+# Freely distributed under the GNU General Public License (GPLv3).
+# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
+# query HMM file: ../params/infile_hmm
+# target sequence database: /r_arc70
+# output directed to file: ../results/outfile
+# MSA of all hits saved to file: ../results/outfile_multi_sto
+# per-seq hits tabular output: ../results/tbl
+# per-dom hits tabular output: ../results/domtbl
+# sequence reporting threshold: E-value <= 1
+# number of worker threads: 12
+# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
+
+Query: infile_sto2 [M=46]
+Scores for complete sequences (score includes all domains):
+ --- full sequence --- --- best 1 domain --- -#dom-
+ E-value score bias E-value score bias exp N Sequence Description
+ ------- ------ ----- ------- ------ ----- ---- -- -------- -----------
+ ------ inclusion threshold ------
+ 0.017 20.1 0.6 0.03 19.3 0.6 1.3 1 KYH38259.1 alanine acetyltransferase [Candidatus Bathyar
+ 0.13 17.3 0.7 0.27 16.3 0.1 1.7 2 WP_054299021.1 ribosomal-protein-alanine N-acetyltransferase
+ 0.14 17.3 0.1 0.23 16.5 0.1 1.3 1 WP_054584921.1 hypothetical protein [Halolamina pelagica]KP
+ 0.18 16.9 0.7 0.35 15.9 0.7 1.5 1 WP_052883773.1 hypothetical protein [Thermofilum sp. 1807-2]
+ 0.39 15.8 0.0 1.3e+02 7.7 0.0 2.5 2 KYK22897.1 hypothetical protein AYK24_08245 [Thermoplasm
+ 0.41 15.7 0.2 26 9.9 0.0 3.2 3 AIF02201.1 GTPase domain-containing protein [uncultured
+ 0.48 15.5 0.7 1.1e+03 4.8 0.1 3.9 4 WP_062399658.1 hypothetical protein [Methanogenium cariaci]
+ 0.48 15.5 0.0 51 9.0 0.0 2.5 2 KYK32494.1 hypothetical protein AYK19_02995 [Thermoplasm
+ 0.69 15.0 0.1 9.8 11.3 0.0 2.5 2 KUO39566.1 hypothetical protein APZ16_01915 [Hadesarchae
+ 0.9 14.6 0.1 1.7 13.7 0.1 1.4 1 OGD45671.1 hypothetical protein A3K79_06915 [Candidatus
+
+
+Domain annotation for each sequence (and alignments):
+>> KYH38259.1 alanine acetyltransferase [Candidatus Bathyarchaeota archaeon B23]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 19.3 0.6 4.4e-07 0.03 5 27 .. 49 71 .. 47 75 .. 0.91
+
+ Alignments for each domain:
+ == domain 1 score: 19.3 bits; conditional E-value: 4.4e-07
+ infile_sto 5 aDGeivGfvwGtpgganeGkviG 27
+ +DG++vG+v+G+ +ga +G vi
+ KYH38259.1 49 VDGRVVGYVMGEMEGAKVGHVIN 71
+ 7******************9996 PP
+
+>> WP_054299021.1 ribosomal-protein-alanine N-acetyltransferase RimI [Methanosarcina flavescens]KPL45943.1 ribosomal-p
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 16.3 0.1 3.9e-06 0.27 4 25 .. 44 65 .. 43 71 .. 0.87
+ 2 ? -2.3 0.0 2.6 1.8e+05 4 9 .. 132 137 .. 130 139 .. 0.54
+
+ Alignments for each domain:
+ == domain 1 score: 16.3 bits; conditional E-value: 3.9e-06
+ infile_sto 4 eaDGeivGfvwGtpgganeGkv 25
+ e DG++vG+v G+ +neG +
+ WP_054299021.1 44 EQDGKVVGYVVGYRSAENEGHI 65
+ 78******************76 PP
+
+ == domain 2 score: -2.3 bits; conditional E-value: 2.6
+ infile_sto 4 eaDGei 9
+ ++DG +
+ WP_054299021.1 132 GEDGMV 137
+ 555554 PP
+
+>> WP_054584921.1 hypothetical protein [Halolamina pelagica]KPN29154.1 hypothetical protein SY89_03388 [Halolamina pel
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 16.5 0.1 3.3e-06 0.23 14 37 .. 14 38 .. 10 42 .. 0.86
+
+ Alignments for each domain:
+ == domain 1 score: 16.5 bits; conditional E-value: 3.3e-06
+ infile_sto 14 wGtpgganeGkviGfevrlEdGs.e 37
+ +G+ +a+ G ++G +vr+EdG+
+ WP_054584921.1 14 EGKHVLAPDGEMVGEVVRTEDGTaF 38
+ 799999****************944 PP
+
+>> WP_052883773.1 hypothetical protein [Thermofilum sp. 1807-2]AKG38376.1 hypothetical protein MA03_02555 [Thermofilum
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 15.9 0.7 5.2e-06 0.35 15 43 .. 290 321 .. 279 323 .. 0.74
+
+ Alignments for each domain:
+ == domain 1 score: 15.9 bits; conditional E-value: 5.2e-06
+ infile_sto 15 GtpgganeG..kviGf.evrlEdGsevnasGi 43
+ G+ g++e+ + iG+ +vrl dG+ev+++Gi
+ WP_052883773.1 290 GEVVGEFENsfRSIGYlTVRLADGREVTVGGI 321
+ 4444555552245******************9 PP
+
+>> KYK22897.1 hypothetical protein AYK24_08245 [Thermoplasmatales archaeon SG8-52-4]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 5.4 0.0 0.01 7e+02 19 37 .. 94 112 .. 90 114 .. 0.88
+ 2 ? 7.7 0.0 0.002 1.3e+02 5 26 .. 185 206 .. 178 209 .. 0.92
+
+ Alignments for each domain:
+ == domain 1 score: 5.4 bits; conditional E-value: 0.01
+ infile_sto 19 ganeGkviGf.evrlEdGse 37
+ an G viG+ + r+ dG +
+ KYK22897.1 94 HANNG-VIGSkSWRFHDGKT 112
+ 5999*.***********976 PP
+
+ == domain 2 score: 7.7 bits; conditional E-value: 0.002
+ infile_sto 5 aDGeivGfvwGtpgganeGkvi 26
+ DG+i+ + w + + ++ +kvi
+ KYK22897.1 185 PDGKIISYKWSYHDVKTPNKVI 206
+ 6******************998 PP
+
+>> AIF02201.1 GTPase domain-containing protein [uncultured marine group II/III euryarchaeote KM3_155_E06]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 1.9 0.1 0.13 8.7e+03 2 15 .. 71 84 .. 70 89 .. 0.86
+ 2 ? -2.9 0.0 4 2.7e+05 10 18 .. 295 303 .. 294 310 .. 0.82
+ 3 ? 9.9 0.0 0.00038 26 11 39 .. 397 423 .. 397 426 .. 0.88
+
+ Alignments for each domain:
+ == domain 1 score: 1.9 bits; conditional E-value: 0.13
+ infile_sto 2 edeaDGeivGfvwG 15
+ +de+DG i+ + G
+ AIF02201.1 71 DDERDGSICQPNTG 84
+ 89******998888 PP
+
+ == domain 2 score: -2.9 bits; conditional E-value: 4
+ infile_sto 10 vGfvwGtpg 18
+ + +v+G+p+
+ AIF02201.1 295 IAYVPGEPE 303
+ 689999976 PP
+
+ == domain 3 score: 9.9 bits; conditional E-value: 0.00038
+ infile_sto 11 GfvwGtpgganeGkviGfevrlEdGsevn 39
+ Gf ++t +a +++iG e +lEdG +v
+ AIF02201.1 397 GFIRAT--DARTNRIIGAEHELEDGAVVK 423
+ 677788..8999***************97 PP
+
+>> WP_062399658.1 hypothetical protein [Methanogenium cariaci]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? -1.3 0.0 1.3 8.7e+04 31 38 .. 87 94 .. 86 97 .. 0.74
+ 2 ? 2.1 0.0 0.11 7.4e+03 31 43 .. 125 137 .. 124 139 .. 0.85
+ 3 ? 3.7 0.0 0.035 2.4e+03 31 45 .. 165 179 .. 164 180 .. 0.83
+ 4 ? 4.8 0.1 0.016 1.1e+03 31 43 .. 205 217 .. 202 220 .. 0.82
+
+ Alignments for each domain:
+ == domain 1 score: -1.3 bits; conditional E-value: 1.3
+ infile_sto 31 rlEdGsev 38
+ ++EdGs++
+ WP_062399658.1 87 LTEDGSIF 94
+ 57999876 PP
+
+ == domain 2 score: 2.1 bits; conditional E-value: 0.11
+ infile_sto 31 rlEdGsevnasGi 43
+ ++E+Gs+v+ +G
+ WP_062399658.1 125 LTENGSIVAWGGW 137
+ 68******99985 PP
+
+ == domain 3 score: 3.7 bits; conditional E-value: 0.035
+ infile_sto 31 rlEdGsevnasGisk 45
+ ++EdG++v+ +G ++
+ WP_062399658.1 165 LTEDGMIVAWGGWDR 179
+ 68******9999765 PP
+
+ == domain 4 score: 4.8 bits; conditional E-value: 0.016
+ infile_sto 31 rlEdGsevnasGi 43
+ ++EdG++v+ +G
+ WP_062399658.1 205 LTEDGTIVAWGGG 217
+ 6899999999986 PP
+
+>> KYK32494.1 hypothetical protein AYK19_02995 [Thermoplasmatales archaeon DG-70-1]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 3.9 0.0 0.03 2e+03 8 23 .. 24 39 .. 24 41 .. 0.91
+ 2 ? 9.0 0.0 0.00075 51 14 39 .. 228 251 .. 225 255 .. 0.84
+
+ Alignments for each domain:
+ == domain 1 score: 3.9 bits; conditional E-value: 0.03
+ infile_sto 8 eivGfvwGtpgganeG 23
+ +i+++ Gt+g+an +
+ KYK32494.1 24 RIIDVKTGTAGKANQD 39
+ 69************97 PP
+
+ == domain 2 score: 9.0 bits; conditional E-value: 0.00075
+ infile_sto 14 wGtpgganeGkviGf.evrlEdGsevn 39
+ +G+ + +e+ vi + +++ E+G++v+
+ KYK32494.1 228 RGK--DTFEK-VIKSiSLLIENGMKVR 251
+ 688..45999.**************97 PP
+
+>> KUO39566.1 hypothetical protein APZ16_01915 [Hadesarchaea archaeon YNP_45]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 0.6 0.0 0.33 2.2e+04 32 44 .. 36 48 .. 33 50 .. 0.86
+ 2 ? 11.3 0.0 0.00014 9.8 28 44 .. 163 179 .. 155 181 .. 0.88
+
+ Alignments for each domain:
+ == domain 1 score: 0.6 bits; conditional E-value: 0.33
+ infile_sto 32 lEdGsevnasGis 44
+ EdG +++a+ ++
+ KUO39566.1 36 SEDGPVTAAGAFT 48
+ 59********998 PP
+
+ == domain 2 score: 11.3 bits; conditional E-value: 0.00014
+ infile_sto 28 fevrlEdGsevnasGis 44
+ +++lEdG+ vn++Gi
+ KUO39566.1 163 VQIELEDGTPVNIGGIA 179
+ 589************96 PP
+
+>> OGD45671.1 hypothetical protein A3K79_06915 [Candidatus Bathyarchaeota archaeon RBG_13_46_16b]
+ # score bias c-Evalue i-Evalue hmmfrom hmm to alifrom ali to envfrom env to acc
+ --- ------ ----- --------- --------- ------- ------- ------- ------- ------- ------- ----
+ 1 ? 13.7 0.1 2.6e-05 1.7 4 16 .. 65 77 .. 64 81 .. 0.89
+
+ Alignments for each domain:
+ == domain 1 score: 13.7 bits; conditional E-value: 2.6e-05
+ infile_sto 4 eaDGeivGfvwGt 16
+ eaDGei+G+v+G+
+ OGD45671.1 65 EADGEIIGYVQGE 77
+ 89**********8 PP
+
+
+
+Internal pipeline statistics summary:
+-------------------------------------
+Query model(s): 1 (46 nodes)
+Target sequences: 679520 (173599232 residues searched)
+Passed MSV filter: 26202 (0.0385596); expected 13590.4 (0.02)
+Passed bias filter: 18222 (0.026816); expected 13590.4 (0.02)
+Passed Vit filter: 1432 (0.00210737); expected 679.5 (0.001)
+Passed Fwd filter: 51 (7.5053e-05); expected 6.8 (1e-05)
+Initial search space (Z): 679520 [actual number of targets]
+Domain search space (domZ): 10 [number of targets reported over threshold]
+# CPU time: 5.29u 0.50s 00:00:05.79 Elapsed: 00:00:05.83
+# Mc/sec: 1369.74
+//
+[ok]
diff --git a/Tests/KEGG/enzyme.4letter b/Tests/KEGG/enzyme.4letter
new file mode 100644
index 0000000..8af76f0
--- /dev/null
+++ b/Tests/KEGG/enzyme.4letter
@@ -0,0 +1,3832 @@
+ENTRY EC 5.4.2.2 Enzyme
+NAME phosphoglucomutase (alpha-D-glucose-1,6-bisphosphate-dependent);
+ glucose phosphomutase;
+ phosphoglucose mutase
+CLASS Isomerases;
+ Intramolecular transferases;
+ Phosphotransferases (phosphomutases)
+SYSNAME alpha-D-glucose 1,6-phosphomutase
+REACTION alpha-D-glucose 1-phosphate = D-glucose 6-phosphate [RN:R08639]
+ALL_REAC R08639 > R00959;
+ (other) R01057 R03319
+SUBSTRATE alpha-D-glucose 1-phosphate [CPD:C00103]
+PRODUCT D-glucose 6-phosphate [CPD:C00092]
+COMMENT Maximum activity is only obtained in the presence of alpha-D-glucose 1,6-bisphosphate. This bisphosphate is an intermediate in the reaction, being formed by transfer of a phosphate residue from the enzyme to the substrate, but the dissociation of bisphosphate from the enzyme complex is much slower than the overall isomerization. The enzyme also catalyses (more slowly) the interconversion of 1-phosphate and 6-phosphate isomers of many other alpha-D-hexoses, and the interconver [...]
+HISTORY EC 5.4.2.2 created 1961 as EC 2.7.5.1, transferred 1984 to EC 5.4.2.2
+REFERENCE 1 [PMID:14216423]
+ AUTHORS JOSHI JG, HANDLER P.
+ TITLE PHOSPHOGLUCOMUTASE. I. PURIFICATION AND PROPERTIES OF PHOSPHOGLUCOMUTASE FROM ESCHERICHIA COLI.
+ JOURNAL J. Biol. Chem. 239 (1964) 2741-51.
+ SEQUENCE [eco:b0688]
+REFERENCE 2
+ AUTHORS Najjar, V.A.
+ TITLE Phosphoglucomutase.
+ JOURNAL In: Boyer, P.D., Lardy, H. and Myrback, K. (Eds.), The Enzymes, 2nd ed., vol. 6, Academic Press, New York, 1962, p. 161-178.
+REFERENCE 3 [PMID:14165931]
+ AUTHORS RAY WJ Jr, ROSCELLI GA.
+ TITLE A KINETIC STUDY OF THE PHOSPHOGLUCOMUTASE PATHWAY.
+ JOURNAL J. Biol. Chem. 239 (1964) 1228-36.
+REFERENCE 4
+ AUTHORS Ray, W.J., Jr. and Peck, E.J., Jr.
+ TITLE Phosphomutases.
+ JOURNAL In: Boyer, P.D. (Ed.), The Enzymes, 3rd ed., vol. 6, 1972, p. 407-477.
+REFERENCE 5
+ AUTHORS Sutherland, E.W., Cohn, M., Posternak, T. and Cori, C.F.
+ TITLE The mechanism of the phosphoglucomutase reaction.
+ JOURNAL J. Biol. Chem. 180 (1949) 1285-1295.
+PATHWAY ec00010 Glycolysis / Gluconeogenesis
+ ec00030 Pentose phosphate pathway
+ ec00052 Galactose metabolism
+ ec00230 Purine metabolism
+ ec00500 Starch and sucrose metabolism
+ ec00520 Amino sugar and nucleotide sugar metabolism
+ ec00521 Streptomycin biosynthesis
+ ec01100 Metabolic pathways
+ ec01110 Biosynthesis of secondary metabolites
+ ec01120 Microbial metabolism in diverse environments
+ ec01130 Biosynthesis of antibiotics
+ORTHOLOGY K01835 phosphoglucomutase
+ K15778 phosphomannomutase / phosphoglucomutase
+ K15779 phosphoglucomutase / phosphopentomutase
+GENES HSA: 5236(PGM1) 55276(PGM2)
+ PTR: 456908(PGM1) 461162(PGM2)
+ PPS: 100977295(PGM1) 100993927(PGM2)
+ GGO: 101128874(PGM1) 101131551(PGM2)
+ PON: 100190836(PGM2) 100438793(PGM1)
+ NLE: 100596081(PGM1) 100600656(PGM2)
+ MCC: 100424648(PGM2) 699401(PGM1)
+ MCF: 101925921(PGM1) 102130622(PGM2)
+ CSAB: 103224690(PGM1) 103246223(PGM2)
+ RRO: 104664350(PGM2) 104668067(PGM1)
+ CJC: 100394215(PGM2) 100414660(PGM1)
+ SBQ: 101031051(PGM2) 101033945(PGM1)
+ MMU: 66681(Pgm1) 72157(Pgm2)
+ RNO: 24645(Pgm1)
+ CGE: 100753184(Pgm1) 100761029(Pgm2)
+ NGI: 103732479(Pgm1) 103734333(Pgm2)
+ HGL: 101711743(Pgm1) 101712721(Pgm2)
+ OCU: 100009155(PGM1) 100351563(PGM2)
+ TUP: 102467858(PGM1) 102497143(PGM2)
+ CFA: 479116(PGM2) 479545(PGM1)
+ AML: 100470032(PGM2) 100475139(PGM1)
+ UMR: 103663061(PGM1) 103672656(PGM2)
+ FCA: 101083353(PGM1) 101095577(PGM2)
+ PTG: 102948905(PGM2) 102961330(PGM1)
+ AJU: 106979168(PGM2) 106980788(PGM1)
+ BTA: 506980(PGM2) 534402(PGM1)
+ BOM: 102268049 102275907(PGM1) 102280136(PGM2)
+ PHD: 102328094(PGM1) 102343220(PGM2)
+ CHX: 102174732(PGM2) 102183563(PGM1)
+ OAS: 101109225(PGM1) 101111285(PGM2)
+ SSC: 100522261(PGM2) 397566(PGM1)
+ CFR: 102517977(PGM2) 102520829(PGM1)
+ BACU: 103004993(PGM1) 103005357(PGM2)
+ LVE: 103074009(PGM2) 103089811(PGM1)
+ ECB: 100064893(PGM2) 100069980(PGM1)
+ MYB: 102249673(PGM1) 102257982(PGM2)
+ MYD: 102754573(PGM1) 102771622(PGM2)
+ HAI: 109373933(PGM1) 109379447(PGM2)
+ PALE: 102878841(PGM1) 102896212(PGM2)
+ LAV: 100667216(PGM1) 100671091(PGM2)
+ MDO: 100022672(PGM2) 100027227
+ SHR: 100914385(PGM1) 100934907(PGM2)
+ OAA: 100080151 100082463(PGM2) 103166740(PGM1)
+ GGA: 424691(PGM1) 426435(PGM2)
+ MGP: 100538783(PGM2) 100550963(PGM1)
+ CJO: 107313826(PGM2) 107317740(PGM1)
+ APLA: 101790428(PGM1) 101791560(PGM2)
+ TGU: 100221811(PGM2) 100222163(PGM1)
+ GFR: 102037639(PGM2) 102041112(PGM1)
+ FAB: 101805676(PGM1) 101821251(PGM2)
+ PHI: 102100121(PGM1) 102108856(PGM2)
+ CCW: 104690683(PGM2) 104695138(PGM1)
+ FPG: 101915117(PGM2) 101921236(PGM1)
+ FCH: 102048140(PGM1) 102055183(PGM2)
+ CLV: 102098032(PGM1) 102098104(PGM2)
+ AAM: 106487683(PGM1) 106490181(PGM2)
+ ASN: 102369749(PGM2) 102370259(PGM1)
+ AMJ: 102563207(PGM2) 102568676(PGM1)
+ PSS: 102456218(PGM1) 102463751(PGM2)
+ CMY: 102940381(PGM2) 102943564(PGM1)
+ CPIC: 101935506(PGM2) 101947993(PGM1)
+ ACS: 100556533(pgm2) 100562877(pgm1)
+ PBI: 103051020(PGM2) 103051862(PGM1)
+ GJA: 107114628(PGM1) 107116364(PGM2)
+ XLA: 379864(pgm1.L) 414455 446420(pgm2l1.L)
+ XTR: 407960(pgm1) 549455(pgm2)
+ DRE: 394000(pgm1) 405822(pgm2)
+ IPU: 108260708(pgm2) 108267486 108272142(pgm1)
+ TRU: 101065243(pgm1) 101072662(pgm2) 101076683
+ TNG: GSTEN00010303G001 GSTEN00015017G001 GSTEN00033591G001
+ LCO: 104919023(pgm1) 104927428 104927674(pgm2)
+ MZE: 101473461(pgm2) 101478589(pgm1) 101483254
+ OLA: 101164775(pgm2) 101175508 101175638(pgm1)
+ XMA: 102218458(pgm2) 102225281(pgm1) 102226091
+ SASA: 100194572(pgm1) 106560477 106568718 106594108 106594399 106595213(pgm2) 106598733 106599190
+ LCM: 102358793(PGM1) 102366488(PGM2)
+ CMK: 103175848(pgm2) 103188820(pgm1)
+ BFO: BRAFLDRAFT_205366 BRAFLDRAFT_63910
+ CIN: 100178660(pgm1) 100185650(pgm2)
+ SPU: 575075(pgm1) 763027
+ SKO: 100367722 100367965(PGM1)
+ DME: Dmel_CG10202 Dmel_CG5165(Pgm) Dmel_CG8073(Pmm45A)
+ DPO: Dpse_GA18703 Dpse_GA20805
+ DAN: Dana_GF10321 Dana_GF11777 Dana_GF12709
+ DER: Dere_GG10583 Dere_GG13495 Dere_GG22396
+ DPE: Dper_GL10655 Dper_GL16851 Dper_GL18035
+ DSE: Dsec_GM20181 Dsec_GM20631 Dsec_GM24444
+ DSI: Dsimw501_GD10104(Dsim_GD10104) Dsimw501_GD25655(Dsim_GD25655) Dsimw501_GD27676(Dsim_GD27676)
+ DWI: Dwil_GK17336 Dwil_GK22961 Dwil_GK23293
+ DYA: Dyak_GE12285(dyak_GLEANR_12551) Dyak_GE22565(dyak_GLEANR_623) Dyak_GE22586(Dyak_Pgm) Dyak_GE27981
+ DGR: Dgri_GH15036 Dgri_GH19656 Dgri_GH20478 Dgri_GH21282 Dgri_GH22267 Dgri_GH23045 Dgri_GH23475
+ DMO: Dmoj_GI16688 Dmoj_GI19724 Dmoj_GI21021 Dmoj_GI21114 Dmoj_GI21115
+ DVI: Dvir_GJ12940 Dvir_GJ17598 Dvir_GJ20963 Dvir_GJ20964 Dvir_GJ21944
+ MDE: 101887602 101898680
+ AGA: AgaP_AGAP005860 AgaP_AGAP008305
+ AAG: AaeL_AAEL001480 AaeL_AAEL010037
+ CQU: CpipJ_CPIJ005681 CpipJ_CPIJ017045
+ AME: 411897(Pgm1) 412362(Pgm2)
+ BIM: 100744829 100749656
+ BTER: 100648849 100650132
+ SOC: 105199081 105203048
+ AEC: 105146567 105152606
+ HST: 105182219 105184006
+ CFO: 105250371 105251430
+ NVI: 100117450 100124235
+ TCA: 654888 662835
+ BMOR: 101743212 101747131
+ DPL: KGM_05989 KGM_07324 KGM_17882
+ PXY: 105381138 105390077 105395695 105397702
+ API: 100160293 100163975
+ PHU: Phum_PHUM157010 Phum_PHUM401840
+ DPX: DAPPUDRAFT_302108 DAPPUDRAFT_314497 DAPPUDRAFT_48520
+ ISC: IscW_ISCW012586 IscW_ISCW021522
+ CEL: CELE_R05F9.6(R05F9.6) CELE_Y43F4B.5(Y43F4B.5)
+ CBR: CBG02267 CBG03574
+ BMY: Bm1_15740 Bm1_18455
+ LOA: LOAG_02183 LOAG_03474
+ TSP: Tsp_07190 Tsp_09490
+ HRO: HELRODRAFT_104891 HELRODRAFT_186861
+ LGI: LOTGIDRAFT_102562 LOTGIDRAFT_189430
+ CRG: 105319260 105325277 105348082
+ OBI: 106870409 106876411
+ SMM: Smp_085150 Smp_180530.1 Smp_180530.3
+ NVE: NEMVE_v1g163252 NEMVE_v1g235307
+ ADF: 107344366 107347751
+ HMG: 100199039 100209776(pgm2) 100214271
+ TAD: TRIADDRAFT_26086 TRIADDRAFT_29275
+ AQU: 100634538 100639257
+ ATH: AT1G23190(PGM3) AT1G70730(PGM2) AT5G51820(PGM)
+ ALY: ARALYDRAFT_472576 ARALYDRAFT_495247 ARALYDRAFT_894891
+ CRB: CARUB_v10008678mg CARUB_v10021333mg CARUB_v10028132mg
+ EUS: EUTSA_v10007178mg EUTSA_v10012968mg EUTSA_v10018328mg
+ BRP: 103832797 103835677 103840790
+ BNA: 106398336 106401373 106415353 106423685(PGM) 106434227 106440984
+ THJ: 104811497 104822168 104822997
+ CIT: 102609059 102609471 102623504
+ CIC: CICLE_v10004539mg CICLE_v10014721mg
+ TCC: 18605458 18609836
+ GRA: 105765587 105780227 105785679
+ EGR: 104424364 104433225 104453687
+ GMX: 100778321 100780166 100801499 100802730 100802789 106798415
+ PVU: PHAVU_002G318400g PHAVU_007G064900g
+ VRA: 106766802 106770496 106771896
+ VAR: 108323161 108325822
+ MTR: MTR_1g102010 MTR_1g102035 MTR_8g104540
+ CAM: 101490273 101501824
+ ADU: 107466874 107466984 107491347
+ AIP: 107617523 107618916 107643898
+ LJA: Lj0g3v0187389.1(Lj0g3v0187389.1) Lj0g3v0192499.1(Lj0g3v0192499.1) Lj0g3v0298899.1(Lj0g3v0298899.1) Lj4g3v3099620.1(Lj4g3v3099620.1) Lj5g3v2029660.1(Lj5g3v2029660.1) Lj5g3v2029660.2(Lj5g3v2029660.2)
+ LANG: 109331758 109335607 109349751
+ FVE: 101302642 101306763
+ PPER: PRUPE_ppa002825mg PRUPE_ppa003354mg
+ PMUM: 103321420 103333427
+ MDM: 103430692 103439690 103439907 103452245
+ PXB: 103943049 103960494
+ CSV: 101209451 101218883
+ CMO: 103504550 103504651
+ RCU: 8258327 8279627
+ JCU: 105634093 105648538
+ POP: POPTR_0008s13180g(POPTRDRAFT_832763) POPTR_0010s11970g(POPTRDRAFT_822067) POPTR_0012s14030g(POPTRDRAFT_570540) POPTR_0015s14020g(POPTRDRAFT_824892)
+ VVI: 100247590 100266376
+ SLY: 101267287 101267885
+ SPEN: 107014518 107017833
+ SOT: 102579912(PGM) 102583854 102585015(PGM) 102593173
+ INI: 109151380 109156858
+ SIND: 105156218 105179246
+ BVG: 104896820 104906396
+ NNU: 104596231 104603722 104607342 104608353
+ OSA: 4333895 4348230
+ DOSA: Os03t0712700-01(Os03g0712700) Os10t0189100-01(Os10g0189100)
+ OBR: 102706040 102713531
+ BDI: 100838190 100841901
+ ATS: F775_28447
+ SBI: SORBI_01g010280(SORBIDRAFT_01g010280) SORBI_03g028080(SORBIDRAFT_03g028080)
+ ZMA: 103631243 103631244 103633450 103633453 103651489 542358(GRMZM2G023289) 542721(GRMZM2G109383)
+ SITA: 101755255 101777020
+ PDA: 103695864 103701107 103702794
+ EGU: 105041553 105042097 105048493 105054280
+ MUS: 103976168 103994987 103995810
+ ATR: 18422474 18424241
+ SMO: SELMODRAFT_269569 SELMODRAFT_270074 SELMODRAFT_81154 SELMODRAFT_86058
+ PPP: PHYPADRAFT_107070 PHYPADRAFT_107844 PHYPADRAFT_174121 PHYPADRAFT_191802
+ CRE: CHLREDRAFT_146213(GPM2) CHLREDRAFT_81483(GPM1a)
+ VCN: VOLCADRAFT_78928 VOLCADRAFT_92695
+ OLU: OSTLU_42958
+ OTA: Ot15g02630
+ BPG: Bathy08g00430
+ MIS: MICPUN_112722(PGM)
+ MPP: MICPUCDRAFT_70805(PGM1)
+ CSL: COCSUDRAFT_30193 COCSUDRAFT_34730
+ CVR: CHLNCDRAFT_35765 CHLNCDRAFT_58243
+ APRO: F751_4670
+ CME: CYME_CMJ272C CYME_CMQ067C CYME_CMT285C
+ GSL: Gasu_08170 Gasu_46280
+ CCP: CHC_T00002564001 CHC_T00005896001 CHC_T00008779001
+ SCE: YKL127W(PGM1) YMR105C(PGM2) YMR278W(PRM15)
+ AGO: AGOS_ABL029W AGOS_ABL126W
+ ERC: Ecym_2475 Ecym_4611
+ KLA: KLLA0B12694g KLLA0D01573g
+ LTH: KLTH0C03872g KLTH0D04796g
+ VPO: Kpol_1018p161 Kpol_1033p54 Kpol_1068p8
+ ZRO: ZYRO0G02508g ZYRO0G14190g
+ CGR: CAGL0K03421g CAGL0K07480g CAGL0M02981g
+ NCS: NCAS_0A04350(NCAS0A04350) NCAS_0C00410(NCAS0C00410) NCAS_0F01470(NCAS0F01470)
+ NDI: NDAI_0C02220(NDAI0C02220) NDAI_0E02080(NDAI0E02080) NDAI_0H02350(NDAI0H02350) NDAI_0K00410(NDAI0K00410)
+ TPF: TPHA_0G02470(TPHA0G02470) TPHA_0G02900(TPHA0G02900) TPHA_0I00250(TPHA0I00250)
+ TBL: TBLA_0B03250(TBLA0B03250) TBLA_0B09010(TBLA0B09010) TBLA_0I01380(TBLA0I01380)
+ TDL: TDEL_0A02210(TDEL0A02210) TDEL_0B00570(TDEL0B00570) TDEL_0E00210(TDEL0E00210)
+ KAF: KAFR_0B03920(KAFR0B03920) KAFR_0D03010(KAFR0D03010)
+ PPA: PAS_chr1-4_0264 PAS_chr2-1_0771
+ DHA: DEHA2C05258g DEHA2F03036g
+ PIC: PICST_77218(PGM2) PICST_91072(PGM3)
+ PGU: PGUG_02229 PGUG_05295
+ SPAA: SPAPADRAFT_59795(PGM2) SPAPADRAFT_62449
+ LEL: LELG_00015 LELG_02945
+ CAL: CAALFM_C307490WA(CaO19.6739) CAALFM_CR02820WA(PGM2)
+ CTP: CTRG_00819 CTRG_05613
+ COT: CORT_0A00340 CORT_0C01220
+ CDU: CD36_27900 CD36_87400
+ CTEN: CANTEDRAFT_116434 CANTEDRAFT_120860
+ YLI: YALI0E02090g YALI0E02244g
+ CLU: CLUG_00214 CLUG_00423
+ NCR: NCU10058
+ NTE: NEUTE1DRAFT118962(NEUTE1DRAFT_118962)
+ SMP: SMAC_04221
+ PAN: PODANSg2151
+ TTT: THITE_2113222
+ MTM: MYCTH_2296536
+ CTHR: CTHT_0010310
+ MGR: MGG_04495
+ TMN: UCRPA7_2039
+ FGR: FGSG_00387
+ FPU: FPSE_00049
+ NHE: NECHADRAFT_30586
+ TRE: TRIREDRAFT_21836
+ MAW: MAC_03213
+ MAJ: MAA_04308
+ CMT: CCM_02278
+ VAL: VDBG_06171
+ VDA: VDAG_03328
+ ELA: UCREL1_9560
+ SSL: SS1G_06474
+ BFU: BC1G_04759
+ MBE: MBM_08593
+ ANI: AN2867.2 AN4591.2
+ AFM: AFUA_2G02120 AFUA_3G11830
+ AOR: AOR_1_1318154(AO090003000746) AOR_1_824054(AO090011000487)
+ ANG: ANI_1_1068024(An02g07650) ANI_1_1946064(An07g06780)
+ AFV: AFLA_030710 AFLA_043120
+ ACT: ACLA_039720 ACLA_092700
+ NFI: NFIA_034490 NFIA_065490
+ PCS: Pc18g01390 Pc20g04410
+ CIM: CIMG_03640 CIMG_05512
+ CPW: CPC735_006350 CPC735_066490
+ PBL: PAAG_03331 PAAG_11415(PAAG_02011)
+ PBN: PADG_06493 PADG_11132(PADG_00681)
+ URE: UREG_06209 UREG_07404
+ ABE: ARB_02523 ARB_05514
+ TVE: TRV_04519 TRV_05167 TRV_05168
+ AJE: HCAG_08808 HCAG_08824
+ PNO: SNOG_03143 SNOG_08437
+ PTE: PTT_11185 PTT_11268
+ BZE: COCCADRAFT_100282 COCCADRAFT_84367
+ BSC: COCSADRAFT_124799 COCSADRAFT_35048
+ BOR: COCMIDRAFT_31473 COCMIDRAFT_90248
+ ZTR: MYCGRDRAFT_54663(PGM) MYCGRDRAFT_86654
+ PFJ: MYCFIDRAFT_204256 MYCFIDRAFT_58070
+ BCOM: BAUCODRAFT_259397 BAUCODRAFT_34822
+ NPA: UCRNP2_4594 UCRNP2_7037
+ TML: GSTUM_00001433001 GSTUM_00007514001
+ SPO: SPBC32F12.10 SPCC1840.05c
+ CNE: CNN00430
+ CNB: CNBN0410
+ CGI: CGB_N0350C
+ TMS: TREMEDRAFT_45127
+ DSQ: DICSQDRAFT_112999
+ PCO: PHACADRAFT_178364
+ SHS: STEHIDRAFT_168706
+ HIR: HETIRDRAFT_317679 HETIRDRAFT_386831
+ PSQ: PUNSTDRAFT_93572
+ ADL: AURDEDRAFT_105903 AURDEDRAFT_111044
+ FME: FOMMEDRAFT_127398
+ GTR: GLOTRDRAFT_104172 GLOTRDRAFT_105232
+ LBC: LACBIDRAFT_247655 LACBIDRAFT_305339
+ MPR: MPER_15840
+ MRR: Moror_14304
+ CCI: CC1G_00866 CC1G_05188
+ SCM: SCHCODRAFT_65648 SCHCODRAFT_76183
+ ABP: AGABI1DRAFT118802(AGABI1DRAFT_118802)
+ ABV: AGABI2DRAFT222809(AGABI2DRAFT_222809)
+ CPUT: CONPUDRAFT_59135
+ SLA: SERLADRAFT_440916 SERLADRAFT_473267
+ WSE: WALSEDRAFT_33937
+ WIC: J056_001956
+ UMA: UMAG_00486
+ PFP: PFL1_06217
+ MGL: MGL_1163
+ PGR: PGTG_06082 PGTG_13901 PGTG_21923 PGTG_21924
+ MLR: MELLADRAFT_47141
+ ECU: ECU03_0340
+ EIN: Eint_030250
+ EHE: EHEL_030240
+ ERO: EROM_030240
+ MBR: MONBRDRAFT_34982 MONBRDRAFT_36937
+ SRE: PTSG_01381 PTSG_07123
+ DDI: DDB_G0280897(pgmB) DDB_G0288483(pgmA)
+ DPP: DICPUDRAFT_95458
+ DFA: DFA_03821(pgmB) DFA_05075(pgmA)
+ EHI: EHI_110120(5.t00030) EHI_185280(409.t00002)
+ EDI: EDI_174890 EDI_320690
+ EIV: EIN_078960 EIN_410050
+ ACAN: ACA1_038550 ACA1_042250
+ PFA: PF10_0122
+ PFD: PFDG_03764
+ PFH: PFHG_03779
+ PYO: PY_9_p3(PY03478)
+ PCB: PCHAS_121160(PC000039.01.0)
+ PBE: PB001302.00.0 PB300693.00.0
+ PKN: PKH_081200
+ PVX: PVX_094845
+ PCY: PCYB_082230
+ CPV: cgd2_3260 cgd2_3270
+ CHO: Chro.20343
+ TGO: TGME49_285980(GPM1) TGME49_318580(GPM2)
+ TET: TTHERM_00577080
+ PTM: GSPATT00000627001 GSPATT00032405001
+ SMIN: v1.2.009032.t1(symbB.v1.2.009032.t1) v1.2.026008.t1(symbB.v1.2.026008.t1) v1.2.027230.t2(symbB.v1.2.027230.t2) v1.2.027230.t3(symbB.v1.2.027230.t3)
+ PTI: PHATRDRAFT_50118(PGM_2) PHATRDRAFT_50444(UGP/PGM) PHATRDRAFT_50718(PGM_1)
+ TPS: THAPSDRAFT_268621(PGM2) THAPSDRAFT_270348 THAPS_263111
+ AAF: AURANDRAFT_24439(GPM) AURANDRAFT_25705(GPM2)
+ NGD: NGA_0494201(PGM)
+ PIF: PITG_18414 PITG_19174
+ PSOJ: PHYSODRAFT_518128 PHYSODRAFT_554034
+ SPAR: SPRG_02045 SPRG_07331 SPRG_07332
+ EHX: EMIHUDRAFT_102390 EMIHUDRAFT_427377(PGM_PMM) EMIHUDRAFT_441403
+ GTT: GUITHDRAFT_157816 GUITHDRAFT_159531 GUITHDRAFT_166345
+ TCR: 506405.10 508637.90 511911.130
+ LMA: LMJF_21_0640 LMJF_34_3780
+ LIF: LINJ_21_0700 LINJ_34_3580
+ LDO: LDBPK_210700 LDBPK_343580
+ LMI: LMXM_21_0640 LMXM_33_3780
+ LBZ: LBRM_20_3380 LBRM_21_0700
+ NGR: NAEGRDRAFT_39110 NAEGRDRAFT_82954
+ TVA: TVAG_054830 TVAG_205910 TVAG_405900
+ GLA: GL50803_17254
+ ECO: b0688(pgm)
+ ECJ: JW0675(pgm)
+ ECD: ECDH10B_0753(pgm)
+ EBW: BWG_0549(pgm)
+ ECOK: ECMDS42_0544(pgm)
+ ECE: Z0837(pgm)
+ ECS: ECs0719
+ ECF: ECH74115_0783(pgm)
+ ETW: ECSP_0736(pgm)
+ ELX: CDCO157_0699
+ EOJ: ECO26_0753(pgm)
+ EOI: ECO111_0708(pgm)
+ EOH: ECO103_0685(pgm)
+ ECG: E2348C_0580(pgm)
+ EOK: G2583_0849(pgm)
+ ELR: ECO55CA74_04125
+ ECC: c0775(pgm)
+ ECP: ECP_0709
+ ECI: UTI89_C0693(pgm)
+ ECV: APECO1_1376(pgm)
+ ECX: EcHS_A0735(pgm)
+ ECW: EcE24377A_0716(pgm)
+ ECM: EcSMS35_0710(pgm)
+ ECY: ECSE_0750
+ ECR: ECIAI1_0667(pgm)
+ ECQ: ECED1_0670(pgm)
+ ECK: EC55989_0675(pgm)
+ ECT: ECIAI39_0646(pgm)
+ EOC: CE10_0678(pgm)
+ EUM: ECUMN_0774(pgm)
+ ECZ: ECS88_0725(pgm)
+ ELO: EC042_0716(pgm)
+ ELN: NRG857_03110
+ ELH: ETEC_0705
+ ESE: ECSF_0626
+ ESO: O3O_07100
+ ESM: O3M_18175
+ ESL: O3K_18195
+ ECL: EcolC_2968
+ EBR: ECB_00645(pgm)
+ EBD: ECBD_2973
+ EKO: EKO11_3189
+ EKF: KO11_20280(pgm)
+ EAB: ECABU_c07420(pgm)
+ EDH: EcDH1_2949
+ EDJ: ECDH1ME8569_0646(pgm)
+ EIH: ECOK1_0699(pgm)
+ ENA: ECNA114_0627(pgm)
+ ELU: UM146_14115
+ EUN: UMNK88_725(pgm)
+ ELW: ECW_m0741(pgm)
+ ELL: WFL_03640(pgm)
+ ELC: i14_0744(pgm)
+ ELD: i02_0744(pgm)
+ ELP: P12B_c0660
+ EBL: ECD_00645(pgm)
+ EBE: B21_00636(pgm)
+ ELF: LF82_1632(pgm)
+ ECOA: APECO78_06985
+ ECOL: LY180_03670
+ ECOI: ECOPMV1_00704(pgm)
+ ECOJ: P423_03405
+ ECOO: ECRM13514_0711(pgm)
+ ECOH: ECRM13516_0658(pgm)
+ ECOS: EC958_0806
+ EFE: EFER_2420(pgm)
+ EAL: EAKF1_ch0774c(pgm)
+ STY: STY0736(pgm)
+ STT: t2177(pgm)
+ SEX: STBHUCCB_23060
+ SENT: TY21A_11065
+ STM: STM0698(pgm)
+ SEO: STM14_0815(pgm)
+ SEV: STMMW_07561
+ SEY: SL1344_0680(pgm)
+ SEM: STMDT12_C07540
+ SEJ: STMUK_0703(pgm)
+ SEB: STM474_0719(pgm)
+ SEF: UMN798_0755(pgm)
+ SETU: STU288_10915
+ SETC: CFSAN001921_13540
+ SENR: STMDT2_06821(pgm)
+ SEND: DT104_07211(pgm)
+ SENI: CY43_03780
+ SEEN: SE451236_09515
+ SPT: SPA2043(pgm)
+ SEK: SSPA1904
+ SPQ: SPAB_02840
+ SEI: SPC_0707(pgm)
+ SEC: SCH_0718(pgm)
+ SEH: SeHA_C0819(pgm)
+ SHB: SU5_01382
+ SENH: CFSAN002069_05350
+ SEEH: SEEH1578_12890
+ SEE: SNSL254_A0758(pgm)
+ SENN: SN31241_16980
+ SEW: SeSA_A0855(pgm)
+ SEA: SeAg_B0745(pgm)
+ SENS: Q786_03435
+ SED: SeD_A0806(pgm)
+ SEG: SG0695(pgm)
+ SEL: SPUL_2265(pgm)
+ SEGA: SPUCDC_2251(pgm)
+ SET: SEN0662(pgm)
+ SENA: AU38_03410
+ SENO: AU37_03405
+ SENV: AU39_03410
+ SENQ: AU40_03790
+ SENL: IY59_03460
+ SENJ: CFSAN001992_07905
+ SEEC: CFSAN002050_10105
+ SEEB: SEEB0189_015795
+ SEEP: I137_10295
+ SENB: BN855_6850(pgm)
+ SENE: IA1_03620
+ SENC: SEET0819_10460
+ SES: SARI_02243
+ SBG: SBG_0588(pgm)
+ SBZ: A464_659
+ SBV: N643_02965
+ SFL: SF0605(pgm)
+ SFX: S0616(pgm)
+ SFV: SFV_0643(pgm)
+ SFE: SFxv_0667(pgm)
+ SFN: SFy_0818
+ SFS: SFyv_0859
+ SFT: NCTC1_00644(pgm)
+ SSN: SSON_0642(pgm)
+ SBO: SBO_0550(pgm)
+ SBC: SbBS512_E0562(pgm)
+ SDY: SDY_0628(pgm)
+ SDZ: Asd1617_00790
+ SHQ: A0259_07120
+ ENT: Ent638_1203
+ ENC: ECL_03027
+ ENO: ECENHK_06500
+ ECLO: ENC_20380
+ EEC: EcWSU1_01252(pgm)
+ ENL: A3UG_06405
+ ECLG: EC036_12350
+ ECLE: ECNIH2_07195
+ ECLN: ECNIH4_16170
+ ECLI: ECNIH5_06275
+ ECLX: LI66_06150
+ ECLY: LI62_07050
+ ECLZ: LI64_06635
+ ECLA: ECNIH3_06295
+ ECLC: ECR091_06275
+ ESC: Entcl_3127
+ KLE: AO703_06670
+ EAS: Entas_1183
+ EAU: DI57_12425
+ EHM: AB284_18710
+ EKB: BFV64_06170
+ ELG: BH714_02385
+ ENR: H650_22230
+ ENX: NI40_005945
+ ENF: AKI40_2159
+ ESA: ESA_02648
+ CSK: ES15_2730
+ CSZ: CSSP291_12525
+ CSI: P262_03981
+ CSJ: CSK29544_03944
+ CCON: AFK62_06015
+ CDM: AFK67_06210
+ CMJ: AFK66_013695
+ CUI: AFK65_05990
+ CMW: AFK63_12665
+ CTU: CTU_13060(pgm)
+ KPN: KPN_00711(pgm)
+ KPU: KP1_1664(pgm)
+ KPM: KPHS_15440
+ KPP: A79E_3527
+ KPK: A593_18045
+ KPH: KPNIH24_21065
+ KPZ: KPNIH27_07215
+ KPV: KPNIH29_07915
+ KPW: KPNIH30_07950
+ KPY: KPNIH31_07820
+ KPG: KPNIH32_08055
+ KPC: KPNIH10_07730
+ KPQ: KPR0928_07640
+ KPT: VK055_1820(pgm)
+ KPE: KPK_3859(pgm)
+ KPO: KPN2242_06390
+ KPR: KPR_3868(pgm)
+ KPJ: N559_3618
+ KPI: D364_03715
+ KPA: KPNJ1_03873
+ KPS: KPNJ2_03859
+ KPX: PMK1_03045(pgm)
+ KPB: FH42_24595
+ KPNE: KU54_018705
+ KPNU: LI86_18530
+ KVA: Kvar_3660
+ KVD: KR75_15505
+ KVQ: SP68_22120
+ KOX: KOX_14430
+ KOE: A225_1711
+ KOY: J415_23105
+ KMI: VW41_05900
+ KOK: KONIH1_08405
+ KOC: AB185_03430 AB185_27715
+ KOM: HR38_13200
+ KQU: AVR78_12255
+ EAE: EAE_14060
+ EAR: CCG31158
+ CKO: CKO_02471
+ CRO: ROD_06961(pgm)
+ CFD: CFNIH1_13570
+ CAMA: F384_03050
+ CAF: AL524_19235
+ CIF: AL515_08055
+ BFL: Bfl326(pgm)
+ BPN: BPEN_335(pgm)
+ BCHR: BCHRO640_345(pgm)
+ BEN: BOBLI757_331(pgm)
+ BED: BTURN675_318(pgm)
+ SECT: A359_03060
+ SEHC: A35E_00450
+ EBT: EBL_c26860(pgm)
+ ROR: RORB6_11555
+ RON: TE10_09370
+ CNT: JT31_06330
+ CEM: LH23_11590
+ CEN: LH86_11025
+ CED: LH89_05960
+ PGE: LG71_21505
+ KSA: C813_08235
+ KOR: AWR26_17680
+ KRD: A3780_06575
+ KCO: BWI95_12295
+ KIN: AB182_17710
+ LAX: APT61_16215
+ LAZ: A8A57_06395
+ HED: TPER_HE00547(pgm)
+ EBF: D782_3158
+ PSTS: E05_07960
+ YPE: YPO2686(pgm)
+ YPK: y1258(pgm)
+ YPA: YPA_2414
+ YPN: YPN_1171
+ YPM: YP_2488(pgm)
+ YPP: YPDSF_1589
+ YPG: YpAngola_A3574(pgm)
+ YPZ: YPZ3_2368(pgm)
+ YPT: A1122_12645
+ YPD: YPD4_2344(pgm)
+ YPX: YPD8_2347(pgm)
+ YPH: YPC_3172(pgm)
+ YPW: CH59_3566(pgm)
+ YPJ: CH55_1485(pgm)
+ YPV: BZ15_847(pgm)
+ YPL: CH46_2423(pgm)
+ YPS: YPTB2923(pgm)
+ YPO: BZ17_3705(pgm)
+ YPI: YpsIP31758_1099(pgm)
+ YPY: YPK_1152
+ YPB: YPTS_3039
+ YPQ: DJ40_3566(pgm)
+ YPU: BZ21_2228(pgm)
+ YPR: BZ20_3249(pgm)
+ YPC: BZ23_2508(pgm)
+ YPF: BZ19_2294(pgm)
+ YEN: YE2967(pgm)
+ YEP: YE105_C1269
+ YEY: Y11_18871
+ YEL: LC20_01651(pgm)
+ YEW: CH47_2328(pgm)
+ YET: CH48_2854(pgm)
+ YEF: FORC2_2951
+ YEE: YE5303_33971(pgm)
+ YSI: BF17_01040
+ YAL: AT01_3780(pgm)
+ YFR: AW19_491(pgm)
+ YIN: CH53_3119(pgm)
+ YKR: CH54_1171(pgm)
+ YRO: CH64_3760(pgm)
+ YRU: BD65_3008(pgm)
+ YRB: UGYR_15365
+ YAK: ACZ76_15115
+ SPE: Spro_1241
+ SRR: SerAS9_1214
+ SRL: SOD_c11120(pgm)
+ SRY: M621_06245
+ SPLY: Q5A_006230(pgm)
+ SRS: SerAS12_1214
+ SRA: SerAS13_1214
+ SSZ: SCc_253(pgm)
+ SMAF: D781_1163
+ SMW: SMWW4_v1c12060(pgm)
+ SMAR: SM39_0656(pgm)
+ SMAC: SMDB11_0484(pgm)
+ SLQ: M495_05575
+ SERF: L085_22415
+ SERS: SERRSCBI_05695
+ SFW: WN53_15650
+ SFG: AV650_11110
+ SRZ: AXX16_3938
+ SFO: Z042_19805
+ RAH: Rahaq_3173
+ RAQ: Rahaq2_3203
+ RAA: Q7S_16005
+ ECA: ECA1336(pgm)
+ PATR: EV46_06755
+ PATO: GZ59_13690(pgm)
+ PCT: PC1_1212
+ PCC: PCC21_012430
+ PCV: BCS7_06245
+ PWA: Pecwa_3119
+ PPAR: A8F97_03085
+ PEC: W5S_3110
+ PWS: A7983_15150
+ SGL: SG0866
+ SOD: Sant_2782(pgm)
+ DDA: Dd703_1123 Dd703_3280
+ DDD: Dda3937_01555(pgm)
+ DZE: Dd1591_2933
+ DDC: Dd586_1168
+ DZC: W909_05920
+ DSO: A4U42_15245
+ ETA: ETA_23210(pgm)
+ EPY: EpC_24560(pgm)
+ EPR: EPYR_02658(pgm)
+ EAM: EAMY_1153(pgm)
+ EAY: EAM_1156(pgm)
+ EBI: EbC_12800(pgm)
+ ERJ: EJP617_22730(pgm)
+ EGE: EM595_1097(pgm)
+ WBR: pgm
+ WGL: WIGMOR_0337(pgm)
+ PAM: PANA_1156(pgm)
+ PLF: PANA5342_3133(pgm)
+ PAJ: PAJ_0476(pgm)
+ PAQ: PAGR_g3003
+ PVA: Pvag_0529(pgm)
+ PAO: Pat9b_1097
+ KLN: LH22_16695
+ PANT: PSNIH1_10260
+ PANP: PSNIH2_12095
+ HHS: HHS_07590(pgm)
+ PCK: BMSBPS_0391
+ PAGG: AL522_09970
+ PAGC: BEE12_12440
+ PLU: plu1407(pgm)
+ PAY: PAU_02994(pgm)
+ PTT: VY86_11415
+ PMR: PMI0548(pgm)
+ PMIB: BB2000_0618(pgm)
+ PVL: AOB99_05120
+ XBO: XBJ1_1074(pgm)
+ XBV: XBW1_3512(pgm)
+ XNE: XNC1_1387(pgm)
+ XNM: XNC2_1349(pgm)
+ XDO: XDD1_1323(pgm)
+ XPO: XPG1_2378(pgm)
+ XHO: A9255_09675
+ PSI: S70_17105
+ PSX: DR96_2392(pgm)
+ PSTA: BGK56_19445
+ PRG: RB151_013130(pgm)
+ MMK: MU9_1375
+ ASY: AUT07_00458(pgm)
+ EIC: NT01EI_2893
+ ETR: ETAE_2605
+ ETD: ETAF_2346
+ ETE: ETEE_0703(pgm)
+ ETC: ETAC_12525
+ EDW: QY76_07490
+ EHO: A9798_04270
+ HAV: AT03_06735
+ OPO: DSM2777_11845
+ PFQ: QQ39_07205
+ PSHI: SAMEA2665130_2204(pgm)
+ XFA: XF_0260
+ XFT: PD_0120(algC) PD_0213(xanA)
+ XFM: Xfasm12_0128 Xfasm12_0229
+ XFN: XfasM23_0113 XfasM23_0200
+ XFF: XFLM_05880 XFLM_05885 XFLM_06365
+ XFL: P303_10770 P303_11310
+ XFS: D934_01580 D934_02080
+ XCC: XCC0626(xanA) XCC3857(algC)
+ XCB: XC_3608 XC_3941
+ XCA: xcc-b100_3729(xanA) xcc-b100_4041(manB)
+ XCP: XCR_0432 XCR_0775
+ XCV: XCV3703(xanA) XCV4025(manB)
+ XAC: XAC3579(xanA) XAC3912(algC)
+ XCI: XCAW_00367(cpsG) XCAW_04279(xanA)
+ XCT: J151_03764 J151_04091
+ XCU: J159_03736 J159_04063
+ XCN: J169_03761 J169_04088
+ XCW: J162_03741 J162_04068
+ XCR: J163_03736 J163_04063
+ XCM: J164_03737 J164_04064
+ XCF: J172_03754 J172_04081
+ XCJ: J158_03740 J158_04067
+ XFU: XFF4834R_chr34730(xanA) XFF4834R_chr38000
+ XAX: XACM_3474(xanA) XACM_3806(manB)
+ XAO: XAC29_18220 XAC29_19845
+ XOO: XOO0498(algC) XOO0797(xanA)
+ XOM: XOO0465(XOO0465) XOO0725(XOO0725)
+ XOP: PXO_02922 PXO_03174(xanA)
+ XOY: AZ54_20815 AZ54_22570
+ XOR: XOC_3841(xanA) XOC_4230
+ XOZ: BE73_03040 BE73_04465
+ XAL: XALC_0375 XALC_2692(xanA)
+ XSA: SB85_09625 SB85_14950
+ XTN: FD63_01870 FD63_16520
+ XFR: BER92_15585 BER92_18405
+ XGA: BI317_02960 BI317_04180
+ XVE: BJD12_08795 BJD12_10415
+ XPE: BJD13_19400 BJD13_21225
+ SML: Smlt0403(spgM) Smlt0653(xanA)
+ SMT: Smal_0286 Smal_0509
+ BUJ: BurJV3_0314 BurJV3_0529
+ SMZ: SMD_0323(algC) SMD_0549(spgM)
+ SACZ: AOT14_05640(algC) AOT14_06420(manB)
+ STEK: AXG53_07905 AXG53_14850
+ SRH: BAY15_0499 BAY15_0721
+ SLM: BIZ42_10995 BIZ42_11960
+ PSU: Psesu_0157 Psesu_2445
+ PSUW: WQ53_07065 WQ53_11225
+ PSD: DSC_00055 DSC_02545
+ LAB: LA76x_4631
+ LAQ: GLA29479_4451(algC)
+ LCP: LC55x_0435 LC55x_5555(pgm)
+ LGU: LG3211_0444 LG3211_2489(pgm)
+ LEZ: GLE_0254
+ LEM: LEN_4688(manB)
+ SNJ: A7E77_14615
+ FAU: Fraau_3262
+ RHD: R2APBS1_0585 R2APBS1_3851 R2APBS1_3910
+ DJI: CH75_01005 CH75_10100 CH75_20820 CH75_24085
+ DJA: HY57_02855 HY57_13875 HY57_20075
+ DTX: ATSB10_00710 ATSB10_30710 ATSB10_36130
+ DKO: I596_3660
+ LRZ: BJI69_08495 BJI69_11355 BJI69_18620
+ VCH: VC2095
+ VCF: IR04_15615
+ VCE: Vch1786_I1588
+ VCJ: VCD_002272
+ VCO: VC0395_A1681(pgm)
+ VCR: VC395_2210(pgm)
+ VCM: VCM66_2019(pgm)
+ VCI: O3Y_10120
+ VCL: VCLMA_A1831
+ VCQ: EN18_13570
+ VCS: MS6_1855
+ VCX: VAA049_786(pgm)
+ VCZ: VAB027_2731(pgm)
+ VVU: VV1_0169(pgm)
+ VVY: VV1020
+ VVM: VVMO6_02207
+ VVL: VV93_v1c09430
+ VPA: VP0839
+ VPB: VPBB_0796
+ VPK: M636_17590
+ VPF: M634_06205
+ VPH: VPUCM_2385
+ VHA: VIBHAR_01345
+ VCA: M892_06295
+ VAG: N646_2991
+ VEX: VEA_004120
+ VHR: AL538_13715
+ VNA: PN96_09320
+ VSP: VS_2252
+ VEJ: VEJY3_03815
+ VFU: vfu_A01226
+ VNI: VIBNI_A2572(pgm)
+ VAN: VAA_03420
+ LAG: N175_05505
+ VAU: VANGNB10_cI1905c(pgm)
+ VCY: IX92_03180
+ VCT: JV59_35535
+ VTU: IX91_04095
+ VFL: AL536_09990
+ VMI: AL543_19785
+ VBR: A6E01_09285
+ VSC: VSVS12_02374
+ VFI: VF_0816(pgm)
+ VFM: VFMJ11_0854(pgm)
+ VSA: VSAL_I0839(pgm)
+ AWD: AWOD_I_0783(pgm)
+ PPR: PBPRA1040(S0616)
+ PGB: H744_2c1247
+ GHO: AL542_04495
+ PAE: PA5322(algC)
+ PAEV: N297_5502(algC)
+ PAEI: N296_5502(algC)
+ PAU: PA14_70270(algC)
+ PAP: PSPA7_6098(algC)
+ PAG: PLES_57171(algC)
+ PAF: PAM18_5442(algC)
+ PNC: NCGM2_6087(algC)
+ PAEB: NCGM1900_6165(algC)
+ PDK: PADK2_28345
+ PSG: G655_28010
+ PRP: M062_28035
+ PAEP: PA1S_28765
+ PAER: PA1R_gp3253
+ PAEM: U769_29265
+ PAEL: T223_29225
+ PAES: SCV20265_6048
+ PAEU: BN889_05902(algC)
+ PAEG: AI22_05225
+ PAEC: M802_5500(algC)
+ PAEO: M801_5367(algC)
+ PMY: Pmen_4379
+ PMK: MDS_4709
+ PRE: PCA10_55240(algC)
+ PPSE: BN5_4209(algC)
+ PALC: A0T30_01015
+ PCQ: PcP3B5_60560(algC)
+ PPU: PP_1777(cpsG) PP_3578(pgm) PP_5288(algC)
+ PPF: Pput_2193 Pput_5197
+ PPG: PputGB1_2336 PputGB1_5338
+ PPW: PputW619_0183 PputW619_1384 PputW619_2971
+ PPT: PPS_1418 PPS_3073 PPS_5138
+ PPB: PPUBIRD1_2214 PPUBIRD1_5082
+ PPI: YSA_00178 YSA_02215 YSA_04816
+ PPX: T1E_2283(celB) T1E_3027 T1E_4704
+ PPUH: B479_15285 B479_26180
+ PPUT: L483_06410 L483_18760 L483_31590
+ PPUN: PP4_22480(pgm) PP4_53510(algC)
+ PPUD: DW66_3344 DW66_5708
+ PFV: Psefu_1802 Psefu_4306
+ PMON: X969_05015 X969_14760 X969_25390
+ PMOT: X970_04990 X970_14405 X970_25025
+ PMOS: O165_007450 O165_022595
+ PPJ: RK21_01570 RK21_04922
+ POR: APT59_05295 APT59_21610
+ PST: PSPTO_0083(algC) PSPTO_3035(pgm)
+ PSB: Psyr_0219 Psyr_2908
+ PSYR: N018_00520 N018_11960
+ PSP: PSPPH_0207(algC) PSPPH_2317(pgm)
+ PCI: PCH70_01500 PCH70_28020
+ PFL: PFL_3231(pgm) PFL_6054(algC)
+ PPRC: PFLCHA0_c32610(celB) PFLCHA0_c60130(algC)
+ PPRO: PPC_3256 PPC_6007
+ PFO: Pfl01_2670 Pfl01_5542(pgm)
+ PFS: PFLU_3157 PFLU_5986
+ PFE: PSF113_2773 PSF113_5762(algC)
+ PFC: PflA506_2605(pgm) PflA506_5268(algC)
+ PFN: HZ99_02960 HZ99_16955
+ PFW: PF1751_v1c26070(pgm) PF1751_v1c53990(algC)
+ PFB: VO64_0227 VO64_2875
+ PFF: PFLUOLIPICF709000 PFLUOLIPICF723315
+ PFX: A7318_13715 A7318_26620
+ PPZ: H045_08000 H045_20235
+ PMAN: OU5_0336 OU5_3610
+ PTV: AA957_00370 AA957_15200
+ PEN: PSEEN2645(pgm) PSEEN5434(algC)
+ PSA: PST_0470 PST_4152(pgm)
+ PSZ: PSTAB_0506 PSTAB_4134
+ PSR: PSTAA_0523 PSTAA_4304(pgm)
+ PSC: A458_00245 A458_19045
+ PSJ: PSJM300_02290 PSJM300_10005
+ PSH: Psest_0039 Psest_3806
+ PSTU: UIB01_00190 UIB01_19260
+ PSTT: CH92_02055 CH92_10435
+ PBM: CL52_00180 CL52_02170
+ PBA: PSEBR_a3020 PSEBR_a5523
+ PBC: CD58_15160 CD58_28890
+ PPUU: PputUW4_02541(pgm) PputUW4_05326(algC)
+ PDR: H681_24190
+ PSV: PVLB_13870 PVLB_25045
+ PSK: U771_17080 U771_30920
+ PKC: PKB_5462(celB) PKB_5658(algC)
+ PCH: EY04_16230 EY04_30355
+ PCZ: PCL1606_01460 PCL1606_28010
+ PCP: JM49_01035 JM49_09350 JM49_14430
+ PFZ: AV641_00490 AV641_12205
+ PALK: PSAKL28_23100 PSAKL28_51510
+ PRH: LT40_09225 LT40_10340 LT40_16795
+ PSW: LK03_05520 LK03_18365 LK03_21295
+ PPV: NJ69_08420 NJ69_18405
+ PSES: PSCI_1587 PSCI_4208
+ PSEM: TO66_16915 TO66_30830
+ PSEC: CCOS191_3001(celB) CCOS191_5182(algC)
+ PPSY: AOC04_09190 AOC04_20665
+ PSOS: POS17_2845 POS17_6011
+ PKR: AYO71_00895 AYO71_17300
+ AVN: Avin_02910(algC)
+ AVL: AvCA_02910(algC)
+ AVD: AvCA6_02910(algC)
+ ACX: Achr_38610(algC)
+ PBB: AKN87_07630
+ PCR: Pcryo_0569
+ PRW: PsycPRwf_1827
+ PSO: PSYCG_03185
+ PUR: AOC03_03370
+ PALI: A3K91_0671
+ PSPG: AK823_03420
+ PSYG: AK825_03355
+ PSYC: DABAL43B_0673(algC)
+ ACB: A1S_0887
+ ABM: ABSDF2549(algC)
+ ABY: ABAYE2928(algC)
+ ABC: ACICU_00838
+ ABN: AB57_0935
+ ABB: ABBFA_002727
+ ABX: ABK1_0875
+ ABZ: ABZJ_00878
+ ABR: ABTJ_02925
+ ABD: ABTW07_0867
+ ABH: M3Q_1083
+ ABAD: ABD1_08330(algC)
+ ABJ: BJAB07104_00889
+ ABAB: BJAB0715_00873
+ ABAJ: BJAB0868_00897
+ ABAZ: P795_13330
+ ABK: LX00_04425
+ ABAU: IX87_01720
+ ABAA: IX88_06410
+ ABW: BL01_11755
+ ABAL: ABLAC_29720
+ ACC: BDGL_000151(algC)
+ ANO: RR32_13775
+ ACD: AOLE_15275
+ ACI: ACIAD0902(algC)
+ ATT: AMQ28_11525
+ AEI: AOY20_07025
+ AJO: RZ95_13390
+ ACW: A0J50_13085
+ ACV: AMD27_03620
+ AHL: AHTJS_11890
+ AJN: BVL33_06265
+ ASOL: BEN76_09110
+ ALA: BFG52_12515
+ MOS: AXE82_09875
+ SON: SO_2336(pgm)
+ SDN: Sden_1985
+ SFR: Sfri_1915
+ SAZ: Sama_1706
+ SBL: Sbal_2225 Sbal_4511
+ SBM: Shew185_2146
+ SBN: Sbal195_2196
+ SBP: Sbal223_2238
+ SBT: Sbal678_2199
+ SBS: Sbal117_2348
+ SBB: Sbal175_2273
+ SLO: Shew_1922
+ SPC: Sputcn32_1882
+ SHP: Sput200_2109
+ SSE: Ssed_2332
+ SPL: Spea_2056
+ SHE: Shewmr4_2031
+ SHM: Shewmr7_1944
+ SHN: Shewana3_2134
+ SHW: Sputw3181_2126
+ SHL: Shal_2238
+ SWD: Swoo_2275
+ SWP: swp_2609
+ SVO: SVI_2038(pgm)
+ ILO: IL1471(pgm)
+ ILI: K734_07390
+ CPS: CPS_1581(pgm)
+ COM: CMT41_06080
+ COZ: A3Q34_16100
+ PHA: PSHAa1634(pgm)
+ PAT: Patl_2198
+ PSM: PSM_A1607(pgm)
+ PSEO: OM33_10885
+ PIA: PI2015_1553
+ PPHE: PP2015_1735
+ PBW: D172_008410
+ PRR: AT705_02420
+ PTN: PTRA_a2029(pgm)
+ PLZ: S4054249_11790
+ MAQ: Maqu_3561
+ MHC: MARHY3461
+ MAD: HP15_3318(algC)
+ MBS: MRBBS_3555(algC)
+ MSR: AU15_02025
+ MPQ: ABA45_16685
+ MARI: ACP86_07110
+ MLQ: ASQ50_12640
+ MSQ: BKP64_17105
+ AMC: MADE_1007745
+ AMH: I633_07885
+ AMAA: amad1_07830
+ AMAL: I607_07045
+ AMAE: I876_07340
+ AMAO: I634_07460
+ AMAD: I636_07910
+ AMAI: I635_07820
+ AMAG: I533_07360
+ AMAC: MASE_06975
+ AMB: AMBAS45_07305
+ AMG: AMEC673_07030
+ AMK: AMBLS11_06995
+ ALT: ambt_11070
+ AAL: EP13_07760
+ AAUS: EP12_07855
+ ASP: AOR13_2028
+ ASQ: AVL57_08870
+ AAW: AVL56_07760
+ GAG: Glaag_2064
+ GNI: GNIT_1628(pgm)
+ GPS: C427_3209
+ LAL: AT746_10410
+ PIN: Ping_0879
+ PSY: PCNPT3_03065
+ FBL: Fbal_2366
+ MVS: MVIS_2243(pgmA)
+ CJA: CJA_1887(pgm) CJA_3524(algC)
+ CEB: B0D95_05010 B0D95_15375
+ SDE: Sde_1254 Sde_3676
+ TTU: TERTU_0186 TERTU_3413(pgm)
+ SAGA: M5M_12800
+ SPOI: IMCC21906_00289
+ ZAL: AZF00_17705
+ MTHD: A3224_15835
+ MICC: AUP74_00812(algC_1)
+ MAGA: Mag101_17220
+ HJA: BST95_03290
+ CBU: CBU_0294
+ CBS: COXBURSA331_A0399(algC)
+ CBD: CBUD_1786(algC)
+ CBG: CbuG_1711(algC)
+ CBC: CbuK_0491(algC)
+ CEY: CleRT_13060
+ LPH: LPV_2811(algC)
+ LPO: LPO_2675(algC)
+ LPU: LPE509_00575
+ LPM: LP6_2516(algC)
+ LPE: lp12_2478
+ LFA: LFA_2600(algC) LFA_3349(algC)
+ LHA: LHA_0493(algC) LHA_1994(algC)
+ LOK: Loa_00702
+ TMC: LMI_0645(algC)
+ MCA: MCA0607(pgm) MCA2782
+ MMT: Metme_0377 Metme_3325
+ MDN: JT25_012065 JT25_013415
+ MDH: AYM39_02995 AYM39_20935
+ MAH: MEALZ_0132 MEALZ_1221(pgm)
+ FTU: FTT_0414(pgm)
+ FTQ: RO31_0465 RO31_0466(pgm)
+ FTF: FTF0414(pgm)
+ FTW: FTW_1659
+ FTR: NE061598_02305
+ FTT: FTV_0384(pgm)
+ FTY: CH70_1551
+ FTG: FTU_0468(pgm)
+ FTL: FTL_0484
+ FTH: FTH_0482(pgm)
+ FTA: FTA_0510
+ FTS: F92_02625
+ FTI: FTS_0486(pgm)
+ FTO: X557_02605
+ FTC: DA46_211
+ FTV: CH67_785
+ FTZ: CH68_519
+ FTM: FTM_0570(pgm)
+ FTN: FTN_0514(pgm)
+ FTX: AW25_1515(pgm)
+ FTD: AS84_172(pgm)
+ FCF: FNFX1_0501
+ FCN: FN3523_0474
+ FPH: Fphi_0327
+ FPT: BZ13_1746
+ FPI: BF30_504(pgm)
+ FPM: LA56_1860(pgm)
+ FPX: KU46_1050(pgm)
+ FPZ: LA55_514(pgm)
+ FPJ: LA02_1939(pgm)
+ FRT: F7308_1821
+ FNA: OOM_1081
+ FNL: M973_03035
+ FRF: LO80_03930 LO80_08185
+ FPER: ACH24_01535
+ FHI: FSC454_02380
+ FGU: SD28_03220
+ TCX: Tcr_1677 Tcr_2017
+ TCY: Thicy_0054 Thicy_0652
+ TAO: THIAE_00375 THIAE_05945
+ MEJ: Q7A_2032 Q7A_2418
+ MEC: Q7C_2284 Q7C_2666
+ CYQ: Q91_1911
+ CZA: CYCME_0529
+ PSAL: PSLF89_211
+ TIG: THII_1310 THII_1311
+ BLEP: AL038_09905 AL038_13675
+ NOC: Noc_1719 Noc_2994
+ NHL: Nhal_2091 Nhal_3802
+ NWA: Nwat_1388 Nwat_3050
+ ALV: Alvin_1415
+ TVI: Thivi_0618
+ TMB: Thimo_0741 Thimo_3043
+ MPUR: MARPU_03330
+ TEE: Tel_03850 Tel_04945
+ AEH: Mlg_2845
+ HHA: Hhal_2297
+ HHC: M911_00625 M911_10680
+ TGR: Tgr7_1484
+ TKM: TK90_0742 TK90_1093
+ TNI: TVNIR_0061(xanA_[H]) TVNIR_1448
+ TTI: THITH_00420 THITH_09415
+ TVR: TVD_04975 TVD_05820
+ SSAL: SPISAL_01050
+ SPIU: SPICUR_01160
+ EBS: ECTOBSL9_1149 ECTOBSL9_3170
+ APRS: BI364_00580 BI364_08985 BI364_09320
+ HNA: Hneap_0489 Hneap_1298
+ HAZ: A9404_06405
+ WMA: WM2015_119 WM2015_2251
+ HCH: HCH_01025 HCH_06439
+ CSA: Csal_2983
+ HEL: HELO_3829(algC)
+ HCS: FF32_08710 FF32_18320
+ HAK: KO116_02920 KO116_03812
+ HAM: HALO3182 HALO3188 HALO4085
+ HHU: AR456_02620 AR456_16605
+ HCO: LOKO_03009(algC)
+ HALO: BWR19_02090
+ HAA: A5892_08490 A5892_13730
+ ABO: ABO_0211(pgm) ABO_0937(algC)
+ ADI: B5T_00187(pgm) B5T_01749(algC)
+ APAC: S7S_00400 S7S_10425
+ ALN: AS19_02180 AS19_09990
+ AXE: P40_08160 P40_08320
+ KKO: Kkor_2220
+ KGE: TQ33_0374
+ KSD: KS2013_386
+ MMW: Mmwyl1_2159
+ MME: Marme_2045
+ MPC: Mar181_1829
+ TOL: TOL_0208 TOL_1752
+ TOR: R615_00930 R615_08860
+ OAI: OLEAN_C38520(manB)
+ GSN: YC6258_01082
+ AHA: AHA_1537(pgm)
+ AHY: AHML_08530
+ AHD: AI20_11485
+ AHR: V428_08760
+ AHP: V429_08765
+ AHJ: V469_14730
+ AHH: RY45_08355
+ AHI: VU14_14875
+ ASA: ASA_2817(pgm)
+ AVR: B565_2659
+ AVO: AMS64_16065
+ AMED: B224_3643
+ ASR: WL1483_1049(pgm)
+ AAJ: BOQ57_07440
+ TAU: Tola_0862
+ OCE: GU3_11190
+ GAP: GAPWK_1832
+ FPP: FPB0191_00422
+ SDF: ACG33_04525
+ GBI: PG2T_08055 PG2T_12720
+ TBN: TBH_C1019
+ SEDS: AAY24_11785
+ TSN: W908_03710
+ THO: SP60_00450
+ PSPI: PS2015_2977
+ RMA: Rmag_0456
+ VOK: COSY_0423
+ EBH: BSEPE_0826(pmm-)
+ BCIB: IM45_220
+ GPB: HDN1F_05220(manB)
+ ENM: EBS_0293 EBS_1464
+ NMA: NMA1001
+ NME: NMB0790(pgm)
+ NMP: NMBB_0894
+ NMH: NMBH4476_1394
+ NMC: NMC0743(pgm)
+ NMN: NMCC_0756(pgm)
+ NMT: NMV_1606(pgm)
+ NMI: NMO_0678(pgm)
+ NMD: NMBG2136_0740
+ NMM: NMBM01240149_1299
+ NMS: NMBM01240355_0791
+ NMQ: NMBM04240196_1374(pgm)
+ NMW: NMAA_0620(pgm)
+ NMZ: NMBNZ0533_0840(pgm)
+ NMX: NMA510612_1122(pgm)
+ NGO: NGO_0375
+ NGK: NGK_0533
+ NLA: NLA_14390(pgm)
+ NEL: NELON_05080
+ NWE: SAMEA3174300_0446(algC)
+ SALV: SALWKB2_1231
+ CVI: CV_2172(algC)
+ CVC: BKX93_00825
+ LHK: LHK_01493(algC)
+ PSE: NH8B_1933
+ JEU: BJP62_15010 BJP62_16485
+ AQL: BXU06_07990
+ RSO: RSc0691
+ RSC: RCFBP_20723(cpsG)
+ RSL: RPSI07_2659(cpsG)
+ RSN: RSPO_c02678(cpsG)
+ RSM: CMR15_30228(cpsG)
+ RSE: F504_707
+ RPI: Rpic_0641
+ RPF: Rpic12D_0600
+ RPJ: N234_16540
+ RMN: TK49_07530
+ RIN: ACS15_0778
+ REU: Reut_A0745
+ REH: H16_A1847(manB1) H16_A2885(manB2)
+ CNC: CNE_1c28230(manB)
+ RME: Rmet_2716(cpsG)
+ CTI: RALTA_A2364(cpsG)
+ CBW: RR42_m3197
+ CGD: CR3_0520(pmm-pgm)
+ CCUP: BKK81_06250 BKK81_15960
+ BMA: BMA2191
+ BMV: BMASAVP1_A0716
+ BML: BMA10229_A2550
+ BMN: BMA10247_2064
+ BMAL: DM55_2273
+ BMAE: DM78_888
+ BMAQ: DM76_2257
+ BMAI: DM57_970
+ BMAF: DM51_1841
+ BMAZ: BM44_1163
+ BMAB: BM45_729
+ BPS: BPSL2666(pgm)
+ BPM: BURPS1710b_3143
+ BPL: BURPS1106A_3119
+ BPD: BURPS668_3083
+ BPR: GBP346_A3263
+ BPSE: BDL_2780
+ BPSM: BBQ_647
+ BPSU: BBN_775
+ BPSD: BBX_1179
+ BPZ: BP1026B_I0653(pgm)
+ BPQ: BPC006_I3163
+ BPK: BBK_2278
+ BPSH: DR55_1853
+ BPSA: BBU_2898
+ BPSO: X996_1494
+ BUT: X994_3493
+ BTE: BTH_I1489
+ BTQ: BTQ_2433
+ BTJ: BTJ_3232
+ BTZ: BTL_1162
+ BTD: BTI_940
+ BTV: BTHA_1255
+ BTHE: BTN_225
+ BTHM: BTRA_1371
+ BTHA: DR62_392
+ BTHL: BG87_1385
+ BOK: DM82_2328
+ BOC: BG90_2407
+ BVI: Bcep1808_0826 Bcep1808_6499
+ BVE: AK36_3034 AK36_5948
+ BUR: Bcep18194_A3990
+ BCN: Bcen_0414
+ BCH: Bcen2424_0893
+ BCM: Bcenmc03_0863
+ BCJ: BCAL3113(manB)
+ BCEN: DM39_6265 DM39_706
+ BCEW: DM40_1564
+ BCEO: I35_0760(manB)
+ BAM: Bamb_0772
+ BAC: BamMC406_0783
+ BMU: Bmul_2497
+ BMJ: BMULJ_00739(manB)
+ BMK: DM80_783
+ BMUL: NP80_900
+ BCT: GEM_2630
+ BCED: DM42_935
+ BCEP: APZ15_08165
+ BDL: AK34_2275
+ BPYR: ABD05_10095
+ BCON: NL30_11280
+ BDF: WI26_04000
+ BGL: bglu_1g07480
+ BGP: BGL_1c07370(manB)
+ BGU: KS03_1679
+ BUG: BC1001_0692
+ BGE: BC1002_0655
+ BGF: BC1003_0802
+ BGD: bgla_1g08080
+ BGO: BM43_2191
+ BYI: BYI23_A020350
+ BUK: MYA_0790 MYA_5902
+ BUO: BRPE64_ACDS21390
+ BUE: BRPE67_ACDS20980
+ BUL: BW21_1033
+ BUB: BW23_833
+ BUQ: AC233_03445
+ BPLA: bpln_1g07270
+ BUD: AQ610_04565
+ BXE: Bxe_A3701 Bxe_B1518 Bxe_C0545
+ BXB: DR64_1393 DR64_6826(pgm) DR64_7902(pgm)
+ BPH: Bphy_2267
+ BRH: RBRH_01444(manB)
+ BPX: BUPH_05523
+ BPY: Bphyt_0920
+ BFN: OI25_795
+ BCAI: K788_0007857
+ PSPW: BJG93_09565
+ PNU: Pnuc_1092
+ PNE: Pnec_0781
+ PDQ: CL55_00007120
+ PPK: U875_02800
+ PPNO: DA70_19870
+ PPNM: LV28_10515
+ PRB: X636_06660
+ PPUL: RO07_04785
+ PSPU: NA29_00525
+ PAPI: SG18_05250
+ PVE: UC34_20870
+ POX: MB84_00765
+ PTX: ABW99_07000 ABW99_13130
+ PFG: AB870_07700
+ PNR: AT302_04425 AT302_27060
+ BPE: BP3141(pgm)
+ BPC: BPTD_1940(pgm) BPTD_3103(pgm)
+ BPER: BN118_0978(pgm) BN118_2806(pgm)
+ BPET: B1917_0681(pgm) B1917_1743(pgm)
+ BPEU: Q425_15260(pgm) Q425_31190(pgm)
+ BPA: BPP0800(pgm)
+ BPAR: BN117_0831(pgm) BN117_1503(pgm)
+ BBR: BB0885(pgm)
+ BBM: BN115_0854(pgm) BN115_1702(pgm)
+ BBH: BN112_1715(pgm) BN112_2557(pgm)
+ BBX: BBS798_0858(pgm) BBS798_1701(pgm)
+ BPT: Bpet4021(pgm)
+ BAV: BAV0520(pgm)
+ BHO: D560_0468 D560_0469
+ BHM: D558_0466
+ BHZ: ACR54_00725(algC)
+ BTRM: SAMEA390648701810(pgm)
+ BBRO: BAU06_02580 BAU06_07550
+ BFZ: BAU07_02705 BAU07_18555
+ AXY: AXYL_05607
+ AXO: NH44784_029571 NH44784_060881
+ AXN: AX27061_4333 AX27061_5360
+ AXS: LH59_19940 LH59_24670
+ AXX: ERS451415_04352(algC_1) ERS451415_05389(algC_2)
+ ADT: APT56_19905 APT56_24625
+ AIS: BUW96_11605 BUW96_16740
+ TEQ: TEQUI_0943
+ TEA: KUI_0345
+ TEG: KUK_0934
+ TAS: TASI_0329
+ TAT: KUM_1283
+ PUT: PT7_2132
+ AKA: TKWG_20385
+ AMIM: MIM_c32500(pgm)
+ CDN: BN940_16351
+ BPSI: IX83_03345
+ AFA: UZ73_07745
+ RFR: Rfer_1145
+ RAC: RA876_15510
+ RHY: RD110_03095
+ PNA: Pnap_4496
+ VAP: Vapar_2943
+ VPE: Varpa_3215
+ VPD: VAPA_1c26100
+ VAA: AX767_03755 AX767_03760 AX767_20205
+ CBX: Cenrod_1461(pgm)
+ HAR: HEAR2721
+ MMS: mma_2943(algC)
+ JAG: GJA_1068(pgm) GJA_788
+ JAB: VN23_00900 VN23_11310
+ JAZ: YQ44_02695 YQ44_03855
+ JAL: BZG29_23690 BZG29_24940
+ HSE: Hsero_0472(cpsG) Hsero_2663(pgm)
+ HSZ: ACP92_02355 ACP92_13345
+ HHT: F506_01325
+ HRB: Hrubri_0470(cpsG) Hrubri_2753(pgm)
+ CFU: CFU_0814 CFU_1723(pgm) CFU_2724(pmm)
+ CARE: LT85_0901 LT85_2932 LT85_3003
+ CPRA: CPter91_0953 CPter91_1880 CPter91_2223(pgm)
+ MNR: ACZ75_23170 ACZ75_24285
+ MASW: AM586_23335 AM586_24250
+ LCH: Lcho_1888
+ TIN: Tint_0945 Tint_1095
+ THI: THI_1199(manB) THI_1387(pgm)
+ RGE: RGE_22370(pgm)
+ RBN: RBXJA2T_07458
+ BBAG: E1O_07810 E1O_28340
+ BBAY: A4V04_08715
+ NEU: NE1895
+ NET: Neut_2007 Neut_2184
+ NIT: NAL212_0853
+ NII: Nit79A3_0032 Nit79A3_1888
+ NCO: AAW31_09420
+ NUR: ATY38_00855
+ NMU: Nmul_A0467 Nmul_A1062
+ EBA: ebA996
+ AZO: azo2778(pgm)
+ AZA: AZKH_1027
+ AZI: AzCIB_0901
+ DAR: Daro_1444 Daro_3299
+ TMZ: Tmz1t_1206 Tmz1t_2749
+ THU: AC731_004155 AC731_019195
+ TCL: Tchl_3291
+ DSU: Dsui_3344
+ SHD: SUTH_00809(pgm) SUTH_02501
+ METR: BSY238_3277
+ RBU: PG1C_13465 PG1C_13865
+ TBD: Tbd_2138
+ SDR: SCD_n00206(pgm) SCD_n01965(manB2)
+ MFA: Mfla_1921 Mfla_1925
+ MMB: Mmol_1563
+ MEH: M301_1072
+ MEI: Msip34_0822 Msip34_0827
+ MEP: MPQ_0865(pgm) MPQ_0867
+ MBAC: BN1209_1130(pgm) BN1209_1132(pgm)
+ MBAT: BN1208_0622(pgm)
+ MEU: ACJ67_10660 ACJ67_10680
+ APP: CAP2UW1_2125 CAP2UW1_2943
+ SLT: Slit_1882 Slit_2101
+ GCA: Galf_0512 Galf_2505
+ KDE: CDSE_0307
+ BPRC: D521_0701
+ BEB: AEM42_07000
+ BEBA: BWI17_12395
+ HPY: HP1275(algC)
+ HEO: C694_06590
+ HPJ: jhp_1196
+ HPA: HPAG1_1219
+ HPS: HPSH_06605
+ HHP: HPSH112_06380
+ HHQ: HPSH169_06345
+ HHR: HPSH417_06265
+ HPG: HPG27_1220
+ HPP: HPP12_1241
+ HPB: HELPY_1252
+ HPL: HPB8_205(algC)
+ HPC: HPPC_06270
+ HCA: HPPC18_06365
+ HPM: HPSJM_06375
+ HPE: HPELS_06625
+ HPO: HMPREF4655_21467
+ HPI: hp908_1275
+ HPQ: hp2017_1233
+ HPW: hp2018_1238
+ HPU: HPCU_06515
+ HEF: HPF16_1210(algC)
+ HPF: HPF30_0122(algC)
+ HEQ: HPF32_1205(algC)
+ HEX: HPF57_1234(algC)
+ HPT: HPSAT_06165
+ HPZ: HPKB_1211
+ HPV: HPV225_1309
+ HPX: HMPREF0462_1291
+ HEN: HPSNT_06405
+ HPH: HPLT_06405
+ HEG: HPGAM_06600
+ HPN: HPIN_06730
+ HEP: HPPN120_06270
+ HEU: HPPN135_06550
+ HES: HPSA_06270
+ HPYS: HPSA20_1378
+ HCN: HPB14_06070
+ HPD: KHP_1171(manB)
+ HEY: MWE_1485
+ HER: C695_06600
+ HEI: C730_06600
+ HPYA: HPAKL117_06055
+ HPYK: HPAKL86_06770
+ HPYO: HPOK113_1230(algC)
+ HPYL: HPOK310_1168(algC)
+ HPYB: HPOKI102_06760
+ HPYC: HPOKI112_06775
+ HPYD: HPOKI128_07540
+ HPYE: HPOKI154_06445
+ HPYF: HPOKI422_06795
+ HPYG: HPOKI673_06415
+ HPYH: HPOKI828_06450
+ HPYJ: HPOKI898_06770
+ HPYR: K747_04635
+ HPYI: K750_02065
+ HPYU: K751_01230
+ HPYM: K749_07400
+ HEM: K748_05820
+ HEB: U063_0331
+ HEZ: U064_0332
+ HHE: HH_0613(glmM_1)
+ HAC: Hac_0209(algC)
+ HMS: HMU13960
+ HFE: HFELIS_08330
+ HBI: HBZC1_03230
+ HCE: HCW_02055
+ HCM: HCD_00480
+ HCP: HCN_0313(glmM_1)
+ HCB: HCBAA847_0326(glmM_1)
+ HHM: BN341_790
+ HTY: BN2458_PEG1623
+ WSU: WS2001
+ TDN: Suden_0623
+ SUA: Saut_0471 Saut_0647
+ SKU: Sulku_2078
+ SULR: B649_09805
+ CJE: Cj1407c
+ CJB: BN148_1407c
+ CJJ: CJJ81176_1406(algC)
+ CJU: C8J_1321(algC)
+ CJN: ICDCCJ07001_1338
+ CJI: CJSA_1338(algC)
+ CJM: CJM1_1364(algC)
+ CJS: CJS3_1502(algC)
+ CJP: A911_06845
+ CJEJ: N564_01404
+ CJEU: N565_01444
+ CJEN: N755_01441
+ CJEI: N135_01496
+ CJER: H730_07990
+ CJV: MTVDSCj20_1383
+ CJY: QZ67_01542(algC)
+ CJQ: UC78_1349(algC)
+ CJL: PJ17_07405
+ CJW: PJ18_07190
+ CJR: CJE1594(algC)
+ CJD: JJD26997_1740(algC)
+ CJZ: M635_02710
+ CJX: BN867_13870
+ CFF: CFF8240_0102
+ CFT: CFF04554_0103
+ CFV: CFVI03293_0103
+ CFX: CFV97608_0103
+ CFZ: CSG_1040
+ CAMP: CFT03427_0108
+ CFP: CR44_00550
+ CCV: CCV52592_0306
+ CHA: CHAB381_0418
+ CCO: CCC13826_0666
+ CCOC: CCON33237_1181
+ CLA: Cla_0256
+ CLR: UPTC16701_0264
+ CLM: UPTC16712_0268
+ CLQ: UPTC4110_0263
+ CLN: UPTC3659_0276
+ CLL: CONCH_0259
+ CCOL: BN865_07300
+ CCC: G157_01810
+ CCQ: N149_1368
+ CCF: YSQ_01835
+ CCY: YSS_07580
+ CCOI: YSU_01865
+ CCOF: VC76_07035(algC)
+ CCOO: ATE51_00752(algC)
+ CAJ: CIG1485E_0512
+ CIS: CINS_0255
+ CVO: CVOL_0251
+ CPEL: CPEL_0262
+ CAMR: CAQ16704_0269
+ CSM: CSUB8521_0272
+ CSF: CSUB8523_0266
+ CGRA: CGRAC_1640
+ CURE: CUREO_0708
+ CHYO: CHH_0405
+ ABU: Abu_0840
+ ABT: ABED_0768 ABED_1601
+ ABL: A7H1H_0824 A7H1H_1701
+ ANT: Arnit_0104 Arnit_0218
+ ARC: ABLL_1070 ABLL_2259
+ ALP: LPB137_00115 LPB137_09740 LPB137_10340
+ SDL: Sdel_1799
+ SBA: Sulba_1885
+ SMUL: SMUL_2488
+ SHAL: SHALO_2236
+ NSA: Nitsa_1006
+ NIS: NIS_0946(pgm) NIS_1428
+ SUN: SUN_1277(pgm) SUN_1934(cpsG)
+ SLH: YH65_02400
+ NAM: NAMH_1240
+ GUR: Gura_2654
+ GLO: Glov_1605
+ PCA: Pcar_1779(manB-2) Pcar_1989(pgm)
+ PPD: Ppro_2017
+ PACE: A6070_09105
+ PEF: A7E78_11720
+ DVU: DVU0685 DVU1428(pgm)
+ DVL: Dvul_1648 Dvul_2278
+ DVM: DvMF_0227 DvMF_2673
+ DVG: Deval_0629 Deval_1859
+ DDE: Dde_1695 Dde_2945
+ DDS: Ddes_1209
+ DDN: DND132_1316
+ DMA: DMR_25390(pgm) DMR_27100
+ DSA: Desal_0173 Desal_1293
+ DAS: Daes_0189 Daes_0973
+ DAF: Desaf_0487 Desaf_2414
+ DHY: DESAM_20561(algC) DESAM_22887(pgm)
+ DPI: BN4_11013(celB) BN4_12456(algC)
+ DGG: DGI_0235(pgm) DGI_3416
+ DFI: AXF13_06185
+ DEJ: AWY79_07460
+ DPG: DESPIGER_0613
+ LIP: LI0674
+ LIR: LAW_00698
+ DBA: Dbac_0755 Dbac_2255
+ DOA: AXF15_01430
+ DRT: Dret_0485 Dret_1330
+ BBAT: Bdt_0014(pmm)
+ BBW: BDW_00055
+ BBAC: EP01_12110
+ BEX: A11Q_11
+ BMX: BMS_2512(pgmA)
+ DPR: Despr_0542
+ DOL: Dole_1175
+ DML: Dmul_19130(pgm) Dmul_39060(algC)
+ DAL: Dalk_1968 Dalk_2389
+ DAT: HRM2_08690(pgm) HRM2_40580(algC)
+ DTO: TOL2_C03070(pgm)
+ ADE: Adeh_0160 Adeh_2029
+ ACP: A2cp1_0178 A2cp1_1934
+ AFW: Anae109_0166 Anae109_1780
+ ANK: AnaeK_0167 AnaeK_1849
+ MXA: MXAN_4888(pgm) MXAN_6499(algC)
+ MFU: LILAB_14025 LILAB_32410
+ MSD: MYSTI_05377 MYSTI_07120
+ MYM: A176_000386 A176_001989
+ CCX: COCOR_02542(pgm) COCOR_07094(algC)
+ SUR: STAUR_2916(pgm) STAUR_7260(algC)
+ AGE: AA314_00268 AA314_09174
+ VIN: AKJ08_2724
+ SCL: sce5498(pgm3) sce8057(algC)
+ SCU: SCE1572_33235 SCE1572_46750
+ CCRO: CMC5_008980(cpsG) CMC5_063140(pgm)
+ SAMY: DB32_003848
+ LLU: AKJ09_03148
+ MRM: A7982_09162
+ HOH: Hoch_5049 Hoch_6650
+ SAT: SYN_00938 SYN_01343
+ SFU: Sfum_0481 Sfum_0744
+ DBR: Deba_0121 Deba_2695
+ HMR: Hipma_0824
+ DAV: DESACE_08805
+ DPB: BABL1_gene_722(algC)
+ MLO: mlr7590
+ MLN: A9174_28075 A9174_34490
+ MCI: Mesci_4926 Mesci_4939
+ MOP: Mesop_2978 Mesop_5436 Mesop_5450
+ MAM: Mesau_04985 Mesau_05000
+ MAMO: A6B35_12225 A6B35_12315
+ MESO: BSQ44_01135 BSQ44_08505
+ MES: Meso_0831
+ HOE: IMCC20628_00342
+ AAK: AA2016_4731 AA2016_4740
+ PLA: Plav_1053
+ SME: SM_b21081(manB) SMc03925(pgm)
+ SMK: Sinme_2901
+ SMQ: SinmeB_2676 SinmeB_3994
+ SMX: SM11_chr3014(pgm)
+ SMI: BN406_02703(pgm)
+ SMEG: C770_GR4Chr2974 C770_GR4pD0912
+ SMEL: SM2011_b21081(manB) SM2011_c03925(pgm)
+ SMER: DU99_15720
+ SMD: Smed_2743
+ RHI: NGR_b13930(manB) NGR_c28980
+ SFH: SFHH103_02905 SFHH103_05652(manB)
+ SFD: USDA257_c11080(algC) USDA257_c53150(pgm)
+ SIX: BSY16_3831(pgm)
+ SAME: SAMCFNEI73_Ch3272(pgm) SAMCFNEI73_pC0982(algC)
+ EAD: OV14_0351
+ EAH: FA04_15415
+ ATU: Atu4074(exoC)
+ ARA: Arad_3873(pgm)
+ ATF: Ach5_38540(exoC)
+ ATA: AWN88_05475
+ AVI: Avi_3763(pgm)
+ AGR: AGROH133_12865
+ AGC: BSY240_3944(pgm)
+ ARO: B0909_17390
+ RET: RHE_CH03597(pgm)
+ REC: RHECIAT_CH0003865(pgm)
+ REL: REMIM1_CH03672(pgm)
+ REI: IE4771_CH03914(pgm)
+ REP: IE4803_CH03976(pgm)
+ RLE: RL4118(pgm)
+ RLT: Rleg2_3351
+ RLG: Rleg_3653
+ RLB: RLEG3_29320
+ RLU: RLEG12_28175
+ RTR: RTCIAT899_CH15310(pgm)
+ RIR: BN877_II1204(pgm)
+ RHL: LPU83_3595(pgm)
+ RGA: RGR602_CH03500(pgm)
+ RHN: AMJ98_CH03823(pgm)
+ RPHA: AMC79_CH03778(pgm)
+ RHT: NT26_2754(pgm)
+ NGL: RG1141_CH30470
+ NGG: RG540_CH31230
+ LAS: CLIBASIA_05045
+ LAA: WSI_04875
+ LAT: CGUJ_05045
+ LSO: CKC_03620
+ LCC: B488_06740
+ LAR: lam_631(pgm)
+ LAU: G293_05180
+ SHZ: shn_15525
+ BME: BMEI1886
+ BMEL: DK63_1602(pgm)
+ BMI: BMEA_A0059
+ BMZ: BM28_A0060
+ BMG: BM590_A0058
+ BMW: BMNI_I0056
+ BMEE: DK62_1347(pgm)
+ BMF: BAB1_0055(pgm)
+ BMB: BruAb1_0058(pgm)
+ BMC: BAbS19_I00530
+ BAA: BAA13334_I00383
+ BABO: DK55_77(pgm)
+ BABR: DO74_1805(pgm)
+ BABT: DK49_1927(pgm)
+ BABB: DK48_2049(pgm)
+ BABU: DK53_73(pgm)
+ BABS: DK51_1391(pgm)
+ BABC: DO78_2074(pgm)
+ BMS: BR0058(pgm)
+ BSI: BS1330_I0058(pgm)
+ BSF: BSS2_I0057(pgm)
+ BSUI: BSSP1_I0053(pgm)
+ BSUP: BSPT1_I0053(pgm)
+ BSUV: BSPT2_I0053(pgm)
+ BSUC: BSSP2_I0053(pgm)
+ BMT: BSUIS_A0061(pgm)
+ BSZ: DK67_135(pgm)
+ BSV: BSVBI22_A0058(pgm)
+ BSW: IY71_00170
+ BSG: IY72_00160
+ BOV: BOV_0058(pgm)
+ BCS: BCAN_A0059(pgm)
+ BSK: BCA52141_I1607
+ BOL: BCOUA_I0058(pgm)
+ BCAR: DK60_166(pgm)
+ BCAS: DA85_00285
+ BMR: BMI_I61(pgm)
+ BPP: BPI_I59(pgm)
+ BPV: DK65_1303(pgm)
+ BCET: V910_101909
+ BCEE: V568_102149
+ BVL: BF3285c1_0931(pgm)
+ OAN: Oant_0065
+ OAH: DR92_183(pgm)
+ OPS: A8A54_00055
+ BJA: bll8126 blr2389(celB)
+ BJU: BJ6T_11890 BJ6T_74470
+ BJP: RN69_05815 RN69_36115
+ BRA: BRADO0757 BRADO1937(pgm)
+ BBT: BBta_2244(pgm) BBta_7350
+ BRS: S23_56190(celB) S23_66610
+ AOL: S58_56220 S58_68600
+ BRC: BCCGELA001_03690 BCCGELA001_27940
+ BRAD: BF49_2415 BF49_3501
+ BIC: LMTR13_02475 LMTR13_05420 LMTR13_27420
+ RPA: RPA1484(pgm2) RPA3321(algC)
+ RPB: RPB_1523 RPB_4039
+ RPC: RPC_1233 RPC_4239
+ RPD: RPD_1464 RPD_3793
+ RPE: RPE_1281 RPE_3492 RPE_4278
+ RPT: Rpal_1671 Rpal_3744
+ RPX: Rpdx1_2063 Rpdx1_4037 Rpdx1_4328
+ NWI: Nwi_0361
+ NHA: Nham_0458
+ OCA: OCAR_7560
+ OCG: OCA5_c05810(algC)
+ OCO: OCA4_c05800(algC)
+ BOP: AXW83_20310 AXW83_20905
+ BOS: BSY19_497 BSY19_840(pgm)
+ BVV: BHK69_05960 BHK69_27575
+ BHE: BH13570(pgm)
+ BHN: PRJBM_01340(pgm)
+ BHS: BM1374165_01414(pgm)
+ BQU: BQ10790(pgm)
+ BQR: RM11_1000
+ BBK: BARBAKC583_1175
+ BTR: BT_1724(pgm)
+ BTX: BM1374166_01629(pgm)
+ BGR: Bgr_15070(pgm)
+ BCD: BARCL_1146(pgm)
+ BAUS: BAnh1_10480(pgm)
+ BVN: BVwin_12450(pgm)
+ BANC: PU02_0182
+ XAU: Xaut_1929
+ AZC: AZC_0285
+ SNO: Snov_2250
+ MEX: Mext_2887 Mext_4125
+ MEA: Mex_1p3093(pgm) Mex_1p4513
+ MDI: METDI3656(pgm) METDI5119
+ MCH: Mchl_3113 Mchl_4493
+ MRD: Mrad2831_1738
+ MET: M446_4649 M446_5187
+ MPO: Mpop_3010 Mpop_4607
+ MNO: Mnod_1184 Mnod_2089
+ MOR: MOC_2141
+ META: Y590_13955 Y590_20555
+ MAQU: Maq22A_c03935(pgm)
+ BID: Bind_3580
+ MSL: Msil_0212 Msil_2810
+ CHEL: AL346_06080 AL346_10570
+ CDQ: BOQ54_16165
+ HDN: Hden_1865
+ HDT: HYPDE_31173
+ HMC: HYPMC_2323
+ HNI: W911_12000
+ RVA: Rvan_1388 Rvan_3528
+ PHL: KKY_2044
+ FIL: BN1229_v1_2577
+ FIY: BN1229_v1_3339
+ DEQ: XM25_11470
+ BVR: BVIR_2756 BVIR_2757
+ RHZ: RHPLAN_67310
+ MSC: BN69_2936 BN69_3458
+ MEY: TM49_01130
+ MAAD: AZF01_05470
+ MMED: Mame_03845(pgm)
+ AUA: M673_06625
+ MCG: GL4_2526
+ THD: BHV28_16060(pgm)
+ CCR: CC_0085 CC_2264
+ CCS: CCNA_00083 CCNA_02347
+ CAK: Caul_1207
+ CSE: Cseg_0080 Cseg_2915
+ CHQ: AQ619_11050 AQ619_16725
+ PZU: PHZ_c2960 PHZ_p0171
+ BSB: Bresu_0273
+ BRD: JL11_04360 JL11_16480
+ BNE: DA69_13090
+ BRG: A4249_00035 A4249_13075
+ BRL: BZG35_00390
+ AEX: Astex_2310
+ CBOT: ATE48_13455
+ SIL: SPO0946(algC)
+ SIT: TM1040_0652
+ RMB: K529_010115
+ RSP: RSP_2883(pgm)
+ RSH: Rsph17029_1529
+ RSQ: Rsph17025_1137
+ RSK: RSKD131_1199
+ RCP: RCAP_rcc01837(pgm)
+ RHP: LPB142_09310
+ JAN: Jann_3117
+ RDE: RD1_2870(pgm)
+ RLI: RLO149_c015700(pgm)
+ PDE: Pden_4423
+ PAMI: JCM7686_0139
+ PYE: A6J80_10480
+ DSH: Dshi_2020(pgm)
+ KVU: EIO_1761(pgm)
+ KVL: KVU_1227(pgm)
+ PSF: PSE_2526(algC)
+ PGA: PGA1_c24340(algC)
+ PGL: PGA2_c22370(algC)
+ PGD: Gal_00958
+ PHP: PhaeoP97_02305(algC)
+ OAT: OAN307_c09550(pgm)
+ OAR: OA238_c34200(pgm)
+ OTM: OSB_13560(pgm)
+ LMD: METH_05200
+ PTP: RCA23_c07320(pgm)
+ CID: P73_3062
+ CMAR: IMCC12053_1747
+ MALG: MALG_01984
+ CON: TQ29_12860
+ RSU: NHU_03227(pgm)
+ RHM: B5V46_14525
+ PPHR: APZ00_03405
+ HAT: RC74_12555
+ LAP: ACP90_24415
+ LAGG: B0E33_07880
+ DAA: AKL17_4620
+ YAN: AYJ57_00655
+ SUAM: BOO69_03535 BOO69_14510
+ DON: BSK21_03370
+ TPRO: Ga0080559_TMP3991
+ TOM: BWR18_01275 BWR18_18845
+ PABY: Ga0080574_TMP4457
+ THW: BMG03_10855
+ RMM: ROSMUCSMR3_01243(algC)
+ MMR: Mmar10_2488
+ HNE: HNE_3238
+ HBA: Hbal_2420
+ HBC: AEM38_13160
+ NAR: Saro_1655
+ NPP: PP1Y_AT23706 PP1Y_AT30169
+ NPN: JI59_01490 JI59_04845
+ NRE: BES08_01930
+ SWI: Swit_0539
+ STAX: MC45_03460
+ SSAN: NX02_14005
+ SMY: BJP26_07970
+ SPAN: AWL63_08125
+ SJP: SJA_C1-17850(pgm)
+ SSY: SLG_08620(pgm)
+ SYB: TZ53_19435
+ SBD: ATN00_13575
+ SPMI: K663_08090
+ SPHB: EP837_00090
+ SPHR: BSY17_204(pgm)
+ SINB: SIDU_05425
+ ERY: CP97_05740
+ AAY: WYH_02546(pgm)
+ ADO: A6F68_02509(pgm)
+ CNA: AB433_14930
+ PNS: A9D12_07160
+ PORL: BG023_11904
+ GOH: B932_1390
+ GOY: GLS_c05630(celB)
+ GAL: A0U94_09525
+ GDI: GDI3137(pgm)
+ GDJ: Gdia_3234
+ GXY: GLX_05310
+ GXL: H845_1641
+ KNA: B0W47_02175
+ APT: APA01_15810
+ APW: APA42C_15810
+ APF: APA03_15810
+ APU: APA07_15810
+ APG: APA12_15810
+ APQ: APA22_15810
+ APX: APA26_15810
+ APZ: APA32_15810
+ APK: APA386B_513(pgm)
+ ASZ: ASN_2813(pgm)
+ ASV: WG31_00015
+ APER: A0U91_00625
+ ABG: Asbog_00139(pgm)
+ KBA: A0U89_11495
+ NCH: A0U93_07835
+ RRU: Rru_A2115
+ RRF: F11_10875
+ RPM: RSPPHO_00816
+ MAG: amb0574
+ MGY: MGMSRv2__3812(pgm)
+ MAGX: XM1_0248(pgm)
+ ABS: AZOBR_30019(pgm)
+ ABQ: ABAZ39_00825
+ ABF: AMK58_12950
+ MAGQ: MGMAQ_1539(pgm)
+ HJO: AY555_00680
+ PBR: PB2503_01217
+ MGM: Mmc1_0332 Mmc1_3433
+ PGV: SL003B_3676
+ PUB: SAR11_1160(manB)
+ PEL: SAR11G3_01286 SAR11G3_01287
+ APM: HIMB5_00004350
+ AFE: Lferr_1963
+ AFR: AFE_2324
+ ACU: Atc_0564
+ ACZ: Acaty_c0574
+ AFI: Acife_1053
+ BSU: BSU09310(pgcA)
+ BSR: I33_1058
+ BSL: A7A1_3796
+ BSH: BSU6051_09310(pgcA)
+ BSY: I653_04680
+ BSUT: BSUB_01026(pgcA)
+ BSUL: BSUA_01026(pgcA)
+ BSUS: Q433_05290
+ BSS: BSUW23_04700(pgcA)
+ BST: GYO_1219
+ BSO: BSNT_07363(yhxB)
+ BSN: BSn5_16535
+ BSQ: B657_09310(pgcA)
+ BSX: C663_0954(pgcA)
+ BSP: U712_04740
+ BLI: BL02901(pgcA)
+ BLD: BLi00997(pgcA)
+ BLH: BaLi_c11020(pgcA)
+ BAY: RBAM_009570(yhxB)
+ BAQ: BACAU_0917(manB)
+ BYA: BANAU_0862(yhxB)
+ BAMP: B938_04570
+ BAML: BAM5036_0859(yhxB)
+ BAMA: RBAU_0920(pgcA)
+ BAMN: BASU_0896(pgcA)
+ BAMB: BAPNAU_2845(manB)
+ BAMT: AJ82_05355
+ BAMY: V529_08920(yhxB)
+ BMP: NG74_00964(pgcA)
+ BAO: BAMF_1027(pgcA)
+ BAZ: BAMTA208_04345(pgcA)
+ BQL: LL3_01012(pgcA)
+ BXH: BAXH7_00907(yhxB)
+ BQY: MUS_0969(yhxB)
+ BAMI: KSO_015090
+ BAMC: U471_09390
+ BAMF: U722_04825
+ BAE: BATR1942_02255
+ BATR: TD68_01885
+ BHA: BH1106
+ BAN: BA_5153
+ BAR: GBAA_5153
+ BAT: BAS4790
+ BAH: BAMEG_5210
+ BAI: BAA_5189
+ BAX: H9401_4919
+ BANT: A16_51720
+ BANR: A16R_52360
+ BANS: BAPAT_4943
+ BANH: HYU01_25210
+ BANV: DJ46_3834(pgcA)
+ BCE: BC4919
+ BCA: BCE_5058
+ BCZ: BCE33L4651(manB)
+ BCR: BCAH187_A5064
+ BCB: BCB4264_A5051
+ BCU: BCAH820_5030
+ BCG: BCG9842_B0183
+ BCQ: BCQ_4741(manB) BCQ_5094(manB)
+ BCX: BCA_5057
+ BAL: BACI_c49270
+ BNC: BCN_4817
+ BCF: bcf_24665
+ BCER: BCK_10650
+ BCEF: BcrFT9_03928
+ BCY: Bcer98_3530
+ BTK: BT9727_4631(manB)
+ BTL: BALH_4459(manB)
+ BTB: BMB171_C4534
+ BTT: HD73_5217
+ BTHR: YBT1520_25855
+ BTHI: BTK_25730
+ BTC: CT43_CH4922
+ BTF: YBT020_24160
+ BTM: MC28_4188
+ BTG: BTB_c50830(pgcA)
+ BTI: BTG_24275
+ BTN: BTF1_23125
+ BTHT: H175_ch5005
+ BTHU: YBT1518_27095
+ BTW: BF38_679(pgcA)
+ BTHY: AQ980_05185
+ BWE: BcerKBAB4_4741
+ BWW: bwei_4848(pgcA) bwei_5419(pgcA2)
+ BTY: Btoyo_2165
+ BMYC: DJ92_2007(pgcA)
+ BMYO: BG05_1099(pgcA)
+ BCL: ABC1499
+ BPU: BPUM_0885
+ BPUM: BW16_04820
+ BPUS: UP12_04805
+ BPF: BpOF4_11205(pgcA)
+ BMQ: BMQ_0533(pgcA)
+ BMD: BMD_0536(pgcA) BMD_1106
+ BMH: BMWSH_4109 BMWSH_4698(yhxB)
+ BMEG: BG04_2826(pgcA)
+ BCO: Bcell_3661
+ BCK: BCO26_0507
+ BAG: Bcoa_0672
+ BCOA: BF29_3021
+ BJS: MY9_1027
+ BACI: B1NLA3E_03680
+ BIF: N288_06225
+ BLE: BleG1_1313
+ BMET: BMMGA3_03785(pgcA)
+ GST: HW35_14695
+ BACW: QR42_04615
+ BACP: SB24_05095
+ BACB: OY17_07465
+ BBY: CY96_23770 CY96_25390
+ BACO: OXB_0093
+ BACY: QF06_03595
+ BACL: BS34A_10510(pgcA)
+ BALM: BsLM_0971
+ BEO: BEH_03220
+ BSM: BSM4216_0666
+ BSJ: UP17_04680 UP17_12685 UP17_21585
+ BON: A361_06540
+ BGY: BGLY_1024(pgcA)
+ OIH: OB3037
+ GKA: GK0363 GK0570 GK3297
+ GTE: GTCCBUS3UF5_4640 GTCCBUS3UF5_6280
+ GTK: GT3570_01810 GT3570_02625
+ GTN: GTNG_0338(manB) GTNG_0513
+ GWC: GWCH70_0362 GWCH70_0528
+ GYC: GYMC61_1242 GYMC61_1388
+ GYA: GYMC52_0364 GYMC52_0509
+ GCT: GC56T3_0412 GC56T3_2964
+ GMC: GY4MC1_1992 GY4MC1_3235
+ GGH: GHH_c03840(glmM2) GHH_c05500(pgcA1) GHH_c33940(pgcA2) GHH_c33960(pgcA3)
+ GJF: M493_02120 M493_03115
+ GEA: GARCT_00410(algC) GARCT_00571(pgcA)
+ GEL: IB49_09085 IB49_12195 IB49_13260
+ GSE: GT50_11585 GT50_12505
+ GSR: GS3922_13010 GS3922_13840
+ GEJ: A0V43_00370 A0V43_17625
+ GTH: Geoth_2081 Geoth_3288
+ PTL: AOT13_06360 AOT13_12380
+ AFL: Aflv_2333
+ AGN: AFK25_02620
+ ANM: GFC28_1975(pgcA)
+ AAMY: GFC30_955(pgcA)
+ ANL: GFC29_3459(pgcA)
+ AXL: AXY_19330(pgm)
+ HHD: HBHAL_4494
+ TAP: GZ22_15000
+ VIR: X953_17650
+ VHL: BME96_17135
+ VIG: BKP57_08595
+ LAO: AOX59_15400
+ FPN: ABE65_003125
+ FAR: ABE41_003120
+ SJE: AAV35_003150
+ BSE: Bsel_2540
+ SAU: SA2279
+ SAV: SAV2491
+ SAW: SAHV_2475
+ SAH: SaurJH1_2569
+ SAJ: SaurJH9_2517
+ SAM: MW2411
+ SAS: SAS2378
+ SAR: SAR2576
+ SAC: SACOL2501
+ SAX: USA300HOU_2482
+ SAA: SAUSA300_2433
+ SAO: SAOUHSC_02793
+ SAE: NWMN_2388
+ SAD: SAAV_2558
+ SUU: M013TW_2456
+ SUV: SAVC_11330
+ SUE: SAOV_2537
+ SUJ: SAA6159_02385(manB)
+ SUK: SAA6008_02527(manB)
+ SUC: ECTR2_2347
+ SUT: SAT0131_02687
+ SUQ: HMPREF0772_10700
+ SUZ: MS7_2497(pgcA)
+ SUD: ST398NM01_2547
+ SUX: SAEMRSA15_23900
+ SUW: SATW20_26120
+ SUG: SAPIG2547
+ SUF: SARLGA251_22720
+ SAUA: SAAG_00314
+ SAUE: RSAU_002334
+ SAUN: SAKOR_02479
+ SAUS: SA40_2241
+ SAUU: SA957_2325
+ SAUG: SA268_2398
+ SAUZ: SAZ172_2588
+ SAUT: SAI1T1_2018550
+ SAUJ: SAI2T2_1018560
+ SAUK: SAI3T3_1018550
+ SAUQ: SAI4T8_1018560
+ SAUV: SAI7S6_1018550
+ SAUW: SAI5S5_1018490
+ SAUX: SAI6T6_1018490
+ SAUY: SAI8T7_1018530
+ SAB: SAB2371
+ SUY: SA2981_2427
+ SAUB: C248_2548
+ SAUM: BN843_25290
+ SAUC: CA347_2571(pgcA)
+ SAUR: SABB_01193(pgcA)
+ SAUI: AZ30_13060
+ SAUD: CH52_06535
+ SAUF: X998_2473(pgcA)
+ SUH: SAMSHR1132_23120
+ SEP: SE2042
+ SER: SERP2055
+ SEPP: SEB_02049
+ SEPS: DP17_985(pgcA)
+ SHA: SH0301
+ SHH: ShL2_00219(manB)
+ SSP: SSP1737
+ SCA: SCA_0664
+ SLG: SLGD_00511
+ SLN: SLUG_05090
+ SSD: SPSINT_0751
+ SDT: SPSE_1757(pgcA)
+ SWA: A284_02050
+ SPAS: STP1_0981
+ SXY: BE24_02595
+ SXL: SXYLSMQ121_1738
+ SXO: SXYL_01881(pgcA)
+ SHU: SHYC_09090(pgcA)
+ SCAP: AYP1020_0378(pgcA)
+ SSCH: LH95_08500
+ SSCZ: RN70_08985
+ SAGQ: EP23_01335
+ SEQO: SE1039_08130 SE1039_26290
+ SSIF: AL483_06620
+ SCV: A4G25_04615
+ MCL: MCCL_0779
+ SHV: AAT16_05530
+ SBAC: BVH56_06645
+ LMO: lmo2475
+ LMF: LMOf2365_2448
+ LMH: LMHCC_0125
+ LMC: Lm4b_02444
+ LMN: LM5578_2670
+ LMY: LM5923_2619
+ LMT: LMRG_01773
+ LMG: LMKG_02563
+ LMS: LMLG_1823
+ LMJ: LMOG_02389
+ LMQ: LMM7_2517(pgm)
+ LML: lmo4a_2477
+ LMP: MUO_12355
+ LMW: LMOSLCC2755_2480
+ LMX: LMOSLCC2372_2537
+ LMZ: LMOSLCC2482_2478
+ LMON: LMOSLCC2376_2367 LMOSLCC2376_2368
+ LMOC: LMOSLCC5850_2478
+ LMOS: LMOSLCC7179_2386
+ LMOO: LMOSLCC2378_2478
+ LMOY: LMOSLCC2479_2536
+ LMOT: LMOSLCC2540_2508
+ LMOA: LMOATCC19117_2484
+ LMOL: LMOL312_2435
+ LMOG: BN389_24380(pgcA_2)
+ LMOE: BN418_2931 BN418_2932
+ LMOB: BN419_2942 BN419_2943
+ LMOJ: LM220_14192
+ LMOZ: LM1816_14687
+ LMOD: LMON_2487
+ LMOW: AX10_06445
+ LMOX: AX24_10300
+ LMOQ: LM6179_1729(pgcA)
+ LMR: LMR479A_2600(pgcA)
+ LMOK: CQ02_12565
+ LMV: Y193_03340
+ LMOM: IJ09_12430
+ LIN: lin2618
+ LWE: lwe2423
+ LSG: lse_2375(manB)
+ LIV: LIV_2382
+ LII: JL52_12570
+ LIW: AX25_12760
+ LIA: JL58_12775
+ LIO: JL53_13265
+ ESI: Exig_0673
+ EAT: EAT1b_2438
+ EAN: Eab7_0647(pgcA)
+ EXM: U719_03590
+ EXU: ESP131_06015
+ GOT: AXE85_07020
+ BBE: BBR47_17570(pgcA)
+ PJD: Pjdr2_5787
+ GYM: GYMC10_0581 GYMC10_5894
+ PPY: PPE_04441
+ PPM: PPSC2_23185(manB1)
+ PPO: PPM_4603(manB1)
+ PPOL: X809_39715
+ PPQ: PPSQR21_046900
+ PPOY: RE92_14075
+ PMS: KNP414_00081(pgcA)
+ PMQ: PM3016_78
+ PMW: B2K_00385
+ PTA: HPL003_04690
+ PLV: ERIC2_c00790(pgcA)
+ PSAB: PSAB_22425
+ PDU: PDUR_25370
+ PBD: PBOR_33685
+ PGM: PGRAT_30090
+ POD: PODO_28670
+ PAEN: P40081_35020
+ PAEF: R50345_28710
+ PAEQ: R50912_31655
+ PSTE: PSTEL_25140
+ PAEA: R70723_30505
+ PAEE: R70331_29275
+ PAEH: H70357_05470 H70357_32805
+ PAEJ: H70737_28385
+ PBJ: VN24_08110
+ PIH: UB51_20240
+ PRI: PRIO_6302(pgcA)
+ PPEO: ABE82_23335
+ PNP: IJ22_42060 IJ22_48990
+ POW: IJ21_06310 IJ21_24820
+ PBV: AR543_22610
+ PXL: BS614_00140
+ TCO: Theco_3831
+ ANX: ACH33_10745 ACH33_13305
+ AAC: Aaci_2578
+ AAD: TC41_2872(manB)
+ BTS: Btus_1356
+ SSIL: SOLI23_03990
+ PLN: Plano_0829
+ PKU: AUO94_12000
+ PRT: AUC31_04870
+ PLL: I858_002850
+ PANA: BBH88_15965
+ PDG: BCM40_11380
+ PHC: BBI08_00655
+ PMAR: B0X71_13740
+ JEO: JMA_12960
+ SPSY: AZE41_09955 AZE41_19045
+ NTR: B0W44_16640
+ LGR: LCGT_1574
+ LGV: LCGL_1596
+ LPK: LACPI_0565(pgcA)
+ SPY: SPy_1224(pgmA)
+ SPZ: M5005_Spy0938(pgmA)
+ SPYM: M1GAS476_0996(pgmA)
+ SPM: spyM18_1176
+ SPG: SpyM3_0864(pgmA)
+ SPS: SPs1064
+ SPH: MGAS10270_Spy1052(pgmA)
+ SPI: MGAS10750_Spy1087(pgmA)
+ SPJ: MGAS2096_Spy0997(pgmA)
+ SPK: MGAS9429_Spy1041(pgmA)
+ SPF: SpyM50618 SpyM50860(pgmA)
+ SPA: M6_Spy0927
+ SPB: M28_Spy0910(pgmA)
+ STG: MGAS15252_0935(pgm)
+ SOZ: Spy49_0970(pgmA)
+ STZ: SPYALAB49_000929
+ STX: MGAS1882_0930(pgm)
+ SPYA: A20_0974(pgmA)
+ SPYH: L897_04640
+ SPYO: STAB901_05280
+ SPN: SP_1498(pgm)
+ SPD: SPD_1326(pgm)
+ SPR: spr1351(pgm)
+ SPW: SPCG_1481(pgm)
+ SPX: SPG_1421
+ SNE: SPN23F14630(pgmA)
+ SPV: SPH_1610
+ SNM: SP70585_1536
+ SJJ: SPJ_1399
+ SPP: SPP_1518
+ SNT: SPT_1435
+ SNC: HMPREF0837_11732
+ SNB: SP670_0799
+ SNP: SPAP_1521
+ SNI: INV104_12720(pgmA)
+ SNV: SPNINV200_13340(pgmA)
+ SNX: SPNOXC03620(pgm) SPNOXC13110(pgmA)
+ SND: MYY_1427
+ SNU: SPNA45_00722(pgmA) SPNA45_01684
+ SPNG: HMPREF1038_01481
+ SPNE: SPN034156_03990(pgmA) SPN034156_14180(pgm)
+ SPNU: SPN034183_03680(pgm) SPN034183_13100(pgmA)
+ SPNM: SPN994038_03560(pgm) SPN994038_12990(pgmA)
+ SPNO: SPN994039_03570(pgm) SPN994039_13000(pgmA)
+ SPNN: T308_06785
+ SAG: SAG1066(pgm)
+ SAN: gbs1100
+ SAK: SAK_1155
+ SGC: A964_1041(pgm)
+ SAGS: SaSA20_0890(pgcA2)
+ SAGL: GBS222_0892
+ SAGM: BSA_11390
+ SAGI: MSA_11880
+ SAGR: SAIL_11810
+ SAGP: V193_04890
+ SAGC: DN94_04890
+ SAGT: GBSCOH1_0975
+ SAGE: EN72_05955
+ SAGG: EN73_05520
+ SAGN: W903_1154
+ SMU: SMU_1077(pgm)
+ SMC: SmuNN2025_0959(pgm)
+ SMJ: SMULJ23_0958(pgm)
+ SMUT: SMUGS5_04755
+ SMUA: SMUFR_0940(pgm)
+ STC: str0787(pgmA)
+ STL: stu0787(pgmA)
+ STE: STER_0833
+ STN: STND_0778
+ STU: STH8232_0970(pgmA)
+ STW: Y1U_C1071
+ STHE: T303_05140
+ SSA: SSA_1204(pgm)
+ SSB: SSUBM407_1186(pgmA)
+ SSU: SSU05_0686
+ SSV: SSU98_0687
+ SSI: SSU0644(pgmA)
+ SSS: SSUSC84_0611(pgmA)
+ SST: SSUST3_0849
+ SSF: SSUA7_0640
+ SSK: SSUD12_1118
+ SSQ: SSUD9_0860
+ SSW: SSGZ1_0675
+ SUI: SSUJS14_0775
+ SUO: SSU12_0641
+ SRP: SSUST1_1130
+ SUP: YYK_03050
+ SSUS: NJAUSS_0742
+ SSUT: TL13_1096(pgmA)
+ SSUI: T15_1302(pgm)
+ SSUY: YB51_4200 YB51_4205
+ SGO: SGO_1215(manB)
+ SEZ: Sez_0941(pgmA)
+ SEQ: SZO_10200
+ SEZO: SeseC_01237(manB)
+ SEQU: Q426_04460
+ SEU: SEQ_1067
+ SUB: SUB0946(pgmA)
+ SDS: SDEG_1043(pgmA)
+ SDG: SDE12394_05835
+ SDA: GGS_1002(pgmA)
+ SDC: SDSE_1075(manB)
+ SDQ: SDSE167_1148(pgmA)
+ SGA: GALLO_1123
+ SGG: SGGBAA2069_c11110(manB)
+ SGT: SGGB_1113(manB)
+ SMB: smi_1173(pgmA)
+ SOR: SOR_0952(pgmA)
+ STK: STP_0782(pgmA)
+ STB: SGPB_0982(manB)
+ SCP: HMPREF0833_10457(pgcA)
+ SCF: Spaf_0997(manB)
+ SSR: SALIVB_0854(pgm2)
+ STF: Ssal_00935(manB)
+ STJ: SALIVA_1246(pgmA)
+ STRS: SSAL8618_06115
+ SSAH: HSISS4_01102(pgmA)
+ STD: SPPN_07340
+ SMN: SMA_1040(pgcA)
+ SIF: Sinf_0963(pgm)
+ SIE: SCIM_1027(pgm)
+ SIB: SIR_0574(pgm)
+ SIU: SII_0554(pgm)
+ SANG: SAIN_1090(pgm)
+ SANC: SANR_1220(pgm)
+ SANS: DK43_04605
+ SCG: SCI_0746(pgm)
+ SCON: SCRE_0726(pgm)
+ SCOS: SCR2_0726(pgm)
+ SOI: I872_04700
+ SIK: K710_0996
+ SIQ: DQ08_04530
+ SIO: DW64_04525
+ SIZ: SI82_04735
+ SLU: KE3_1045
+ SIG: N596_02300
+ SIP: N597_04015
+ STV: V470_04390
+ LPL: lp_0764(pgm)
+ LPJ: JDM1_0633(pgm)
+ LPT: zj316_0825(pgm3)
+ LPS: LPST_C0594(pgm)
+ LPR: LBP_cg0570
+ LPZ: Lp16_0604
+ LPB: SH83_03075
+ LJO: LJ_0862
+ LJF: FI9785_1346(pgm)
+ LJH: LJP_1290c
+ LJN: T285_06490
+ LAC: LBA0687
+ LAI: LAC30SC_03430
+ LAD: LA14_0713
+ LAF: SD55_0709
+ LSA: LCA_0521(pgm)
+ LSL: LSL_1176(glmM)
+ LSI: HN6_00978(glmM)
+ LSJ: LSJ_1170c(glmM)
+ LDB: Ldb1773(pgm)
+ LBU: LBUL_1643
+ LDE: LDBND_1663
+ LDL: LBU_1503
+ LBR: LVIS_1907
+ LBK: LVISKB_1891
+ LCA: LSEI_0949
+ LPQ: AF91_09170
+ LPI: LBPG_00120
+ LPAP: LBPC_0889
+ LCB: LCABL_10630(pgm)
+ LCZ: LCAZH_0892
+ LCS: LCBD_1044
+ LCE: LC2W_1049
+ LCW: BN194_10370(pgcA)
+ LCL: LOCK919_1094
+ LCX: LCA12A_2237
+ LGA: LGAS_1319
+ LRE: Lreu_0380
+ LRF: LAR_0369
+ LRU: HMPREF0538_21591(pgcA)
+ LRT: LRI_1560
+ LRR: N134_01985
+ LHE: lhv_0728
+ LHL: LBHH_1433
+ LHR: R0052_08275
+ LHV: lhe_0694
+ LHH: LBH_0584
+ LHD: HUO_08625
+ LFE: LAF_0350
+ LFR: LC40_0247
+ LFF: LBFF_0374
+ LRH: LGG_00921(pgm)
+ LRG: LRHM_0878
+ LRL: LC705_00969(pgm)
+ LRA: LRHK_948
+ LRO: LOCK900_0880
+ LRC: LOCK908_0986
+ LCR: LCRIS_00689(pgm2)
+ LAM: LA2_03535
+ LAY: LAB52_03385
+ LBH: Lbuc_2078
+ LBN: LBUCD034_2171(pgmA)
+ LKE: WANG_0963(pgm2)
+ LRM: LRC_06250
+ LSN: LSA_12330(pgcA)
+ LAW: LACWKB8_0667
+ LHO: LOOC260_116920(pgm)
+ LMU: LBLM1_09200
+ LAE: LBAT_1151
+ LGN: ABM34_12210
+ LKO: ABN16_08640
+ LHI: JP39_08010
+ LKU: APS55_03985
+ LGL: AO203_06185
+ LPX: ASU28_04485
+ LOR: AYI71_07480
+ LPAR: FAM21731_01332
+ LLE: AYR59_02850
+ LPD: AYR62_09720
+ LJE: BUE77_03225
+ LCU: PL11_004980
+ LCT: BI355_1528
+ LBT: AYR52_06680
+ PPE: PEPE_0446
+ PPEN: T256_02340
+ PCE: PECL_538
+ PDM: ADU72_1632
+ PACI: A4V11_09015
+ EFA: EF2425
+ EFL: EF62_2643
+ EFI: OG1RF_11856(pgcA)
+ EFD: EFD32_2042
+ EFS: EFS1_1950(pgmA)
+ EFN: DENG_02379(pgm)
+ EFQ: DR75_1171
+ EFC: EFAU004_02002
+ EFAU: EFAU085_01969 EFAU085_02019
+ EFU: HMPREF0351_11939(pgm) HMPREF0351_11988(pgm2)
+ EFM: M7W_1009
+ EFT: M395_04230
+ EHR: EHR_08815
+ ECAS: ECBG_00703
+ EMU: EMQU_1925(pgm2)
+ EDU: LIU_10730
+ EGA: AL523_14950
+ ESS: ATZ33_05410
+ MPS: MPTP_1238
+ MPX: MPD5_0717
+ THL: TEH_17050(pgm)
+ VTE: BHY08_01800 BHY08_06130
+ VPI: BW732_01225
+ OOE: OEOE_0367
+ LME: LEUM_0606
+ LMM: MI1_02735
+ LMK: LMES_0534
+ LCI: LCK_01246(pgm3)
+ LKI: LKI_08375
+ LEC: LGMK_03760
+ LCN: C270_02470
+ LGS: LEGAS_0668(pgm)
+ LGE: C269_03200
+ LLF: BCR17_06390
+ WKO: WKK_00655
+ WCE: WS08_0862(pgcA)
+ WCT: WS74_0928(pgcA)
+ WCI: WS105_0925(pgcA)
+ WCB: AO080_09980
+ WJO: FOL01_0610
+ AUR: HMPREF9243_0351
+ AUN: AWM73_07720
+ AUI: APT62_01280
+ ASAN: AWM72_05805
+ ACG: AWM71_02580
+ AVS: AWM76_09300
+ AUH: AWM75_05250
+ CRN: CAR_c03910(pgcA)
+ CML: BN424_2704(pgcA)
+ CAW: Q783_01485 Q783_06905
+ CARC: NY10_2157
+ MARR: BKP56_05845
+ JEP: BW721_06790
+ JDA: BW727_100032(pgcA)
+ CAC: CA_C2337
+ CAE: SMB_G2371
+ CAY: CEA_G2351
+ CPE: CPE1873
+ CPF: CPF_2127
+ CPR: CPR_1841
+ CTC: CTC_00454 CTC_00779
+ CTET: BN906_00486 BN906_00818
+ CNO: NT01CX_1230 NT01CX_1776
+ CBO: CBO3114(pgcA) CBO3619
+ CBA: CLB_3145 CLB_3712
+ CBH: CLC_3018 CLC_3618
+ CBY: CLM_3521 CLM_4124
+ CBL: CLK_2509 CLK_3103
+ CBK: CLL_A2461
+ CBB: CLD_0855 CLD_1425
+ CBI: CLJ_B3381 CLJ_B3958
+ CBN: CbC4_0355 CbC4_0988
+ CBT: CLH_2229
+ CBF: CLI_3174 CLI_3864
+ CBM: CBF_3163 CBF_3813
+ CBJ: H04402_03196 H04402_03719
+ CBE: Cbei_0983
+ CBZ: Cbs_0983
+ CBEI: LF65_01035
+ CKL: CKL_0798(pgm1) CKL_3180(pgm2)
+ CKR: CKR_2818
+ CLJ: CLJU_c34210(pgm)
+ CCB: Clocel_2120 Clocel_2806
+ CLS: CXIVA_11800
+ CLB: Clo1100_1121
+ CSR: Cspa_c10680(pgcA)
+ CPAS: Clopa_0885 Clopa_3053
+ CPAT: CLPA_c16930(pgcA1)
+ CPAE: CPAST_c16930(pgcA1)
+ CSB: CLSA_c12290(pgcA1) CLSA_c42240(pgcA2)
+ CAH: CAETHG_1320
+ CLT: CM240_2048(pgcA)
+ CBV: U729_2882(pgcA)
+ CSQ: CSCA_4777
+ CLD: CLSPO_c32100(pgcA1) CLSPO_c38130(pgcA2)
+ CACE: CACET_c02390(pgcA)
+ CCK: Ccar_17295
+ CBUT: ATN24_06590
+ CTYK: CTK_C08610(pgm)
+ AMT: Amet_0707
+ ASF: SFBM_0925
+ ASM: MOUSESFB_0863
+ ASO: SFBmNL_01000
+ ASB: RATSFB_0782
+ GFE: Gferi_10925 Gferi_25635
+ CTH: Cthe_1265
+ CTX: Clo1313_0993
+ RUK: A4V00_08560
+ CCE: Ccel_1417
+ CCL: Clocl_2234
+ ESR: ES1_08860
+ ESU: EUS_21740
+ CSS: Cst_c14620(pgcA)
+ CSD: Clst_1411
+ CCEL: CCDG5_0020(pgcA) CCDG5_0084 CCDG5_2017
+ EHA: Ethha_0894 Ethha_2738
+ RAL: Rumal_2924
+ RBR: RBR_15000
+ RCH: RUM_00620
+ RUM: CK1_06220 CK1_35510
+ RUS: RBI_II00024
+ FPR: FP2_09940
+ FPA: FPR_17190 FPR_27610 FPR_28530
+ CLO: HMPREF0868_0620
+ BPB: bpr_I0554
+ BFI: CIY_04690 CIY_10220
+ BHU: bhn_I0539 bhn_I0880
+ CLE: Clole_4133
+ RHO: RHOM_02325 RHOM_11485
+ RIX: RO1_18010 RO1_37000
+ RIM: ROI_36270
+ COO: CCU_19730 CCU_22890 CCU_22920 CCU_22930
+ CCT: CC1_12580
+ ROB: CK5_21180
+ BYL: A4V09_07535 A4V09_13345
+ RTO: RTO_29940
+ CPY: Cphy_2261
+ LACY: A4V08_21280 A4V08_21515
+ CSH: Closa_0391 Closa_2990
+ CSO: CLS_36150
+ BPRL: CL2_20460
+ HSD: SD1D_0300(pgcA)
+ CPRO: CPRO_01990(pgcA)
+ ERE: EUBREC_2615
+ ERT: EUR_25390
+ ERA: ERE_08670
+ CDF: CD630_15770(pgm) CD630_27800(pgm)
+ PDC: CDIF630_01746(pgcA1) CDIF630_03043(pgcA2)
+ CDC: CD196_1499(pgm1) CD196_2621(pgm2)
+ CDL: CDR20291_1474(pgm1) CDR20291_2668(pgm2)
+ PDF: CD630DERM_15770(pgm) CD630DERM_27800(pgmA)
+ EAC: EAL2_c03080(pgcA)
+ CST: CLOST_1665
+ FAA: HMPREF0389_00891
+ STH: STH1118 STH2734
+ SWO: Swol_2154
+ SLP: Slip_0765
+ DSY: DSY1669
+ DHD: Dhaf_2815
+ DDH: Desde_2272
+ DDL: Desdi_1936
+ DMT: DESME_07240
+ DRM: Dred_1398 Dred_3126
+ DCA: Desca_2159
+ DGI: Desgi_1560
+ PTH: PTH_0398(ManB)
+ SGY: Sgly_0866 Sgly_2218
+ DOR: Desor_3292
+ DAI: Desaci_2994
+ DMI: Desmer_2553
+ DED: DHBDCA_p1082 DHBDCA_p2783
+ DEC: DCF50_p1146 DCF50_p2789
+ DRS: DEHRE_13735
+ EEL: EUBELI_01623
+ ELM: ELI_4121
+ AWO: Awo_c02270(pgm1)
+ OVA: OBV_18450(pgm)
+ TMR: Tmar_1881
+ SAY: TPY_0767(manB)
+ SAP: Sulac_2873
+ CAD: Curi_c02210(pgcA)
+ IBU: IB211_02913
+ FPLA: A4U99_13385
+ EUU: ADJ67_04305
+ BPRM: CL3_00180
+ BPRS: CK3_05150
+ TTE: TTE0731(CpsG)
+ TEX: Teth514_2238
+ THX: Thet_0696
+ TPD: Teth39_1557
+ TIT: Thit_0714
+ TMT: Tmath_0765
+ TBO: Thebr_1593
+ TWI: Thewi_0859 Thewi_2676
+ TKI: TKV_c07170(algC)
+ TEP: TepRe1_0656
+ TAE: TepiRe1_0713(algC)
+ ADG: Adeg_0496
+ TPZ: Tph_c29090(manB)
+ TOC: Toce_0825
+ TTM: Tthe_1016
+ TTO: Thethe_00968
+ TXY: Thexy_1711
+ TSH: Tsac_1474
+ CPO: COPRO5265_0166
+ MAS: Mahau_1369
+ HOR: Hore_17410
+ HAS: Halsa_0449
+ HPK: Hprae_1925
+ AAR: Acear_2143
+ HHL: Halha_0109
+ PED: ING2D1G_0633(pgm)
+ VPR: Vpar_1545
+ MED: MELS_1912
+ SRI: SELR_25710
+ PUF: UFO1_0072 UFO1_0374
+ PFT: JBW_04249 JBW_04424
+ ERH: ERH_1579
+ ERS: K210_06405
+ ERL: AOC36_10880
+ EUC: EC1_09140 EC1_09150
+ TUR: AT726_08790
+ FRO: AALO17_14070
+ ERB: A4V01_20985
+ LPIL: LIP_1103
+ MMYM: MMS_A0911
+ MMYI: mycmycITA_00869(pgcA)
+ MML: MLC_7500(manB)
+ MCAC: MCCP01_0854(pgcA)
+ MCAP: MCCPF38_00884(pgcA)
+ MCAR: MCCPILRI181_00885(pgcA)
+ MCAI: MCCG_0854
+ MLC: MSB_A0787
+ MLH: MLEA_007460
+ MBV: MBOVPG45_0350
+ MBH: MMB_0500
+ MBI: Mbov_0539(manB)
+ MBQ: K668_02505
+ MPF: MPUT_0122
+ MPUT: MPUT9231_6200(manB)
+ MCR: MCFN_00695(manB)
+ MCM: MCAL160_0859(manB)
+ MYT: MYE_03625(manB)
+ MYG: ASO20_00935
+ ACL: ACL_0849
+ ABRA: BN85308620(pgm)
+ APAL: BN85407640(pgm)
+ AOC: Aocu_09550(pgm)
+ MFW: mflW37_1250
+ SCR: SCHRY_v1c02700(manB)
+ SSYR: SSYRP_v1c02870(manB)
+ SDI: SDIMI_v3c02690(manB)
+ STAI: STAIW_v1c03120(manB)
+ SAPI: SAPIS_v1c03230(manB)
+ SMIR: SMM_0981
+ SMIA: P344_05870
+ SCQ: SCULI_v1c03410(manB)
+ SSAB: SSABA_v1c02730(manB)
+ SATR: SATRI_v1c10460(manB)
+ SERI: SERIO_v1c10250(manB)
+ STUR: STURON_00823(manB)
+ SLL: SLITO_v1c08020(manB)
+ SKN: SKUN_00308(manB)
+ SCJ: SCANT_v1c02770(manB)
+ SHJ: SHELI_v1c02810(manB)
+ SCK: SCITRI_00404(manB)
+ MBJ: KQ51_00922(pgcA)
+ MTU: Rv3068c(pgmA)
+ MTV: RVBD_3068c
+ MTC: MT3153(pgmA)
+ MRA: MRA_3101(pgmA)
+ MTF: TBFG_13085
+ MTB: TBMG_00899
+ MTK: TBSG_00905
+ MTZ: TBXG_000891
+ MTG: MRGA327_18865
+ MTI: MRGA423_19110
+ MTE: CCDC5079_2824
+ MTUR: CFBS_3236(pgmA)
+ MTL: CCDC5180_2789
+ MTO: MTCTRI2_3132(pgmA)
+ MTD: UDA_3068c(pgmA)
+ MTN: ERDMAN_3359(pgmA)
+ MTJ: J112_16435
+ MTUB: MT7199_3102
+ MTUE: J114_16410
+ MTX: M943_15840
+ MTUH: I917_21540
+ MTUL: TBHG_02998
+ MTUT: HKBT1_3223(pgmA)
+ MTUU: HKBT2_3228(pgmA)
+ MTQ: HKBS1_3234(pgmA)
+ MBO: Mb3095c(pgmA)
+ MBB: BCG_3093c(pgmA)
+ MBT: JTY_3088(pgmA)
+ MBM: BCGMEX_3090c(pgmA)
+ MBK: K60_031840
+ MBX: BCGT_2918
+ MBZ: LH58_16335
+ MAF: MAF_30750(pgmA)
+ MCE: MCAN_30931(pgmA)
+ MCQ: BN44_60581(pgm)
+ MCV: BN43_60057(pgm)
+ MCX: BN42_41082(pgm)
+ MCZ: BN45_60056(pgm)
+ MMIC: RN08_3379
+ MPA: MAP_3146c(pgmA)
+ MAO: MAP4_0644
+ MAVI: RC58_03140
+ MAVU: RE97_03145
+ MAVD: NF84_18150
+ MAVR: LA63_18340
+ MAVA: LA64_18330
+ MIT: OCO_38030
+ MIA: OCU_38110
+ MIE: LG41_18075
+ MIR: OCQ_39260
+ MID: MIP_05759
+ MYO: OEM_38660
+ MSM: MSMEG_2136(pgm)
+ MSG: MSMEI_2087(pgmA)
+ MSB: LJ00_10640
+ MSN: LI99_10640
+ MSH: LI98_10640
+ MSA: Mycsm_01732
+ MUL: MUL_3442(pgmA)
+ MVA: Mvan_1950
+ MGI: Mflv_4406
+ MSP: Mspyr1_38020
+ MAB: MAB_3450c
+ MABB: MASS_3479
+ MMV: MYCMA_1900
+ MAY: LA62_17545
+ MABO: NF82_17285
+ MABL: MMASJCM_3458
+ MAZ: LA61_17445
+ MAK: LH56_06855
+ MYS: NF92_06885
+ MYC: NF90_06885
+ MCHE: BB28_17605
+ MIZ: BAB75_18850
+ MMC: Mmcs_1728
+ MKM: Mkms_1775
+ MJL: Mjls_1707
+ MMI: MMAR_1591(pgmA)
+ MMAE: MMARE11_15040(pgmA)
+ MRH: MycrhN_6147
+ MMM: W7S_19050
+ MCB: Mycch_1646
+ MLI: MULP_01726(pgmA)
+ MKN: MKAN_22765
+ MKS: LG40_22540
+ MKI: LH54_22670
+ MNE: D174_09975
+ MYV: G155_10405
+ MYE: AB431_09150
+ MGO: AFA91_28465
+ MFT: XA26_21280
+ MHAD: B586_16135
+ MPHL: MPHLCCUG_01843(pgm)
+ MVQ: MYVA_1830(pgm)
+ ASD: AS9A_1339(pgmA)
+ CGL: NCgl2453(Cgl2541)
+ CGB: cg2800(pgm)
+ CGU: WA5_2453(Pgm)
+ CGT: cgR_2446
+ CGS: C624_12480
+ CGG: C629_12485
+ CGM: cgp_2800(pgm)
+ CGJ: AR0_12200
+ CGQ: CGLAR1_12060
+ CGX: SB89_11920
+ CEF: CE2433
+ CDI: DIP1882(pgm)
+ CDP: CD241_1790(pgm)
+ CDH: CDB402_1748(pgm)
+ CDT: CDHC01_1793(pgm)
+ CDE: CDHC02_1786(pgm)
+ CDR: CDHC03_1765(pgm)
+ CDA: CDHC04_1770(pgm)
+ CDZ: CD31A_1882(pgm)
+ CDB: CDBH8_1846(pgm)
+ CDS: CDC7B_1842(pgm)
+ CDD: CDCE8392_1755(pgm)
+ CDW: CDPW8_1854(pgm)
+ CDV: CDVA01_1729(pgm)
+ CJK: jk0468(pgm)
+ CAR: cauri_2123(pgm)
+ CKP: ckrop_1426(pgm)
+ CPU: cpfrc_01690(pgm)
+ CPL: Cp3995_1736(pgm1)
+ CPG: Cp316_1741(pgm1)
+ CPP: CpP54B96_1719(pgm1)
+ CPK: Cp1002_1690(pgm1)
+ CPX: CpI19_1698(pgm1)
+ CPZ: CpPAT10_1690(pgm1)
+ COR: Cp267_1758(pgm1)
+ COP: Cp31_1682(pgm1)
+ COD: Cp106_1646(pgm1)
+ COS: Cp4202_1679(pgm1)
+ COI: CpCIP5297_1705(pgm1)
+ COE: Cp258_1704(pgm1)
+ COU: Cp162_1666(pgm1)
+ CPSE: CPTA_00066
+ CPSU: CPTB_01461
+ CPSF: CPTC_00050
+ CRD: CRES_0394(pgm)
+ CUL: CULC22_01862(pgm)
+ CUC: CULC809_01760(pgm)
+ CUE: CULC0102_1907(pgm)
+ CUN: Cul210932_1872(pgm)
+ CUS: CulFRC11_1767(pgm)
+ CUQ: Cul210931_1766(pgm)
+ CUZ: Cul05146_1864(pgm)
+ CUJ: CUL131002_1791c(pgm)
+ CHN: A605_11705
+ CCN: H924_10675
+ CMD: B841_10765
+ CAZ: CARG_08245
+ CFN: CFAL_02825
+ CCG: CCASEI_12010
+ CVT: B843_10660
+ CAX: CATYP_08600
+ CII: CIMIT_09770
+ CUV: CUREI_09275
+ COA: DR71_1637(pgm)
+ CDO: CDOO_11115
+ CHM: B842_10655
+ CSX: CSING_10975(pgm)
+ CMQ: B840_10370(pgm)
+ CKU: UL82_02990(pgm)
+ CCJ: UL81_09485(celB)
+ CMV: CMUST_12690(pgm)
+ CEI: CEPID_10230(pgm)
+ CTED: CTEST_11005(celB)
+ CUT: CUTER_09030(pgm)
+ CLW: CLAC_03005
+ CDX: CDES_11495(celB)
+ CSP: WM42_1894(pgm)
+ CSTA: CSTAT_10895
+ NFA: NFA_44530
+ NFR: ERS450000_05479(pgm_1)
+ NCY: NOCYR_4165(pgm)
+ NBR: O3I_033825
+ NNO: NONO_c17370(pgm)
+ NSL: BOX37_23495
+ NSR: NS506_02588
+ RHA: RHA1_ro06413
+ RER: RER_23280(pgm)
+ REY: O5Y_10880
+ REB: XU06_11100
+ ROP: ROP_64700(pgm)
+ ROA: Pd630_LPD03080
+ REQ: REQ_32340(pgm)
+ RPY: Y013_07220
+ RHB: NY08_1576
+ RAV: AAT18_16780
+ RFA: A3L23_04800(pgm)
+ GBR: Gbro_3442
+ GPO: GPOL_c32500(pgm)
+ GOR: KTR9_3478
+ GOQ: ACH46_14775
+ GTA: BCM27_17815
+ TPR: Tpau_3003
+ CBQ: AL705_06815
+ SCO: SCO7443(pgm)
+ SMA: SAV_803(pgmA)
+ SGR: SGR_6728
+ SGB: WQO_01375
+ SCB: SCAB_6461(pgm)
+ SSX: SACTE_0298
+ SFA: Sfla_5973
+ SHY: SHJG_1995
+ SHO: SHJGH_1760
+ SDV: BN159_1225(celB3)
+ SALB: XNR_5582
+ STRP: F750_0596
+ SFI: SFUL_398
+ SCI: B446_03740
+ SLV: SLIV_02095(celB)
+ SCW: TU94_01215
+ SAMB: SAM23877_0763(pgm)
+ SCZ: ABE83_33675
+ SCX: AS200_05520
+ SRW: TUE45_00746(pgm)
+ STRF: ASR50_03785
+ SLE: sle_66460(sle_66460)
+ SPAV: Spa2297_01540
+ STRT: A8713_01890
+ SGS: AVL59_26605
+ STSI: A4E84_01600
+ KSK: KSE_60870(pgm2)
+ LXX: Lxx02380(pgm)
+ LXY: O159_25680
+ CMI: CMM_0513(pgmA)
+ CMS: CMS0426(pgm)
+ CMC: CMN_00468(pgmA)
+ CMH: VO01_02335
+ MTS: MTES_2101(pgm)
+ MIM: AKG07_10145
+ MIO: AOA12_02975
+ MIX: AB663_000350
+ MIP: AXH82_04035
+ MCW: A8L33_01635
+ MPAL: BO218_07905
+ RLA: Rhola_00000650
+ RPLA: A4Z71_06585
+ RTX: TI83_02440
+ RTC: APU90_04035
+ RTN: A6122_0532
+ CUM: NI26_03105
+ CUB: BJK06_04990
+ MVD: AWU67_13750
+ FRP: AX769_01555
+ AGY: ATC03_01330
+ CART: PA27867_0188
+ ART: Arth_0131
+ ARR: ARUE_c00920(celB)
+ ARM: ART_2592
+ ARI: UM93_14090
+ ARL: AFL94_00275
+ ARE: AL755_00640
+ AAQ: AOC05_16180
+ ARH: AHiyo8_33830 AHiyo8_33840
+ ARY: ATC04_00355
+ ARW: MB46_15610
+ ARZ: AUT26_00365
+ AAU: AAur_0094(pgm)
+ ACH: Achl_0267
+ APN: Asphe3_02630
+ PSUL: AU252_09065
+ AAI: AARI_00640(pgm)
+ GAR: AOZ07_00335
+ KRH: KRH_19520(pgm)
+ KPL: KPaMU14_01405
+ KFV: AS188_05885
+ MLU: Mlut_01060
+ SATK: SA2016_0253
+ NAE: BHE16_07915
+ BCV: Bcav_0373
+ BFA: Bfae_07370
+ BRX: BH708_17510
+ DVA: DAD186_02680
+ JDE: Jden_0258
+ DNI: HX89_04970
+ LMOI: VV02_19270
+ XCE: Xcel_0168
+ IVA: Isova_0234
+ IDO: I598_2191(pgm)
+ SKE: Sked_01520
+ CFL: Cfla_3191
+ CFI: Celf_3610
+ CGA: Celgi_0170
+ ICA: Intca_2403
+ ARS: ADJ73_15575
+ SERJ: SGUI_1226
+ JTE: ASJ30_14250
+ BLY: A2T55_02900
+ BLIN: BLSMQ_0480
+ PAC: PPA1105
+ PAK: HMPREF0675_4167(pgm)
+ PAV: TIA2EST22_05490
+ PAX: TIA2EST36_05460
+ PAZ: TIA2EST2_05400
+ PAW: PAZ_c11540(pgm)
+ PAD: TIIST44_09115
+ PCN: TIB1ST10_05675
+ PACC: PAC1_05790
+ PACH: PAGK_1048
+ PACN: TIA1EST1_05445
+ CACN: RN83_05895
+ PRA: PALO_05410
+ PFR: PFREUD_10610(pgm1)
+ PFRE: RM25_1116
+ PRL: BCB70_02135
+ PPC: HMPREF9154_1435(pgm)
+ PBO: PACID_19220(pgm)
+ AACI: ASQ49_12280
+ MPH: MLP_29820(pgm)
+ TFL: RPIT_06595
+ TFA: BW733_15945
+ TES: BW730_06530
+ TEZ: BKM78_01280
+ NCA: Noca_4438
+ NDK: I601_1018(pgm)
+ KFL: Kfla_4582
+ TCU: Tcur_1724
+ SRO: Sros_5639
+ NOA: BKM31_04570
+ FRA: Francci3_1231
+ FRE: Franean1_5250
+ FRI: FraEuI1c_1982
+ FAL: FRAAL1935(pgm)
+ FSY: FsymDg_1552
+ NML: Namu_5012
+ GOB: Gobs_5043
+ BSD: BLASA_5007(pgm)
+ MMAR: MODMU_5540(pgm)
+ KRA: Krad_0143
+ PDX: Psed_3647
+ PSEE: FRP1_10650
+ PSEH: XF36_09895
+ PSEQ: AD006_20305
+ PECQ: AD017_28145
+ PHH: AFB00_26655
+ KAL: KALB_6737
+ STP: Strop_1701
+ SAQ: Sare_1699
+ MAU: Micau_2111
+ MIL: ML5_2218
+ VMA: VAB18032_13950
+ AMS: AMIS_48200
+ ASE: ACPL_2870(pgmA)
+ ACTN: L083_3824(pgmA)
+ AFS: AFR_24840
+ AHE: Arch_0131
+ MCU: HMPREF0573_10620(pgm)
+ TPY: CQ11_06810
+ TPYO: X956_00865 X956_00870
+ ASG: FB03_07265
+ AMY: ADJ76_08410
+ ACQ: AM609_13310
+ AOS: AXE84_04355
+ ARD: AXF14_04230
+ AVU: BK816_00780
+ BLO: BL1630(pgm)
+ BLJ: BLD_1755(pgm)
+ BLN: Blon_2184
+ BLON: BLIJ_2260
+ BLF: BLIF_1702
+ BLL: BLJ_1703
+ BLB: BBMN68_1663(pgm)
+ BLM: BLLJ_1633
+ BLK: BLNIAS_00353
+ BLG: BIL_03870
+ BLZ: BLGT_08725
+ BLX: GS08_08845
+ BAD: BAD_0365(pgm)
+ BADL: BADO_0371
+ BADO: BBMN23_0395
+ BLA: BLA_0403(pgm)
+ BLC: Balac_0425
+ BLT: Balat_0425
+ BBB: BIF_01321
+ BBC: BLC1_0407
+ BNM: BALAC2494_00706
+ BLV: BalV_0408
+ BLW: W7Y_0427
+ BLS: W91_0441
+ BANI: Bl12_0397
+ BANL: BLAC_02130
+ BNI: BANAN_02210
+ BANM: EN10_02160
+ BDE: BDP_0481(pgm)
+ BDN: BBDE_0459
+ BBI: BBIF_1459(pgm)
+ BBP: BBPR_1512(pgm)
+ BBF: BBB_1494(pgm)
+ BBV: HMPREF9228_1648(pgm)
+ BBRU: Bbr_1595(pgm)
+ BBRE: B12L_1523
+ BBRV: B689b_1624
+ BBRJ: B7017_1791
+ BBRC: B7019_1764
+ BBRN: B2258_1609
+ BBRS: BS27_1577(pgm)
+ BBRD: BBBR_1594
+ BAST: BAST_1304
+ BTP: D805_1385
+ BCOR: BCOR_1123
+ BKA: AH68_02045
+ BKS: BBKW_0393
+ BPSP: AH67_02315
+ BII: BINDI_1048
+ BANG: BBAG_1303
+ BCAT: BBCT_0349
+ BPSC: BBPC_0380
+ BSCA: BBSC_0573
+ BACT: AB656_04605
+ GVA: HMPREF0424_0298(pgm)
+ GVG: HMPREF0421_20388(celB)
+ GVH: HMPREF9231_1168(pgm)
+ SIJ: SCIP_0358
+ PDO: PSDT_1019
+ CCU: Ccur_07360
+ SHI: Shel_23220
+ DDT: AAY81_05685
+ APV: Apar_1013
+ OLS: Olsu_0579
+ OLO: ADJ70_12085
+ CGO: Corgl_0044 Corgl_1196
+ CBAC: JI75_08755
+ SYN: sll0726(pgm)
+ SYZ: MYO_130890(pgm)
+ SYY: SYNGTS_3053(pgm)
+ SYT: SYNGTI_3052(pgm)
+ SYS: SYNPCCN_3051(pgm)
+ SYQ: SYNPCCP_3051(pgm)
+ SYJ: D082_30550
+ SYW: SYNW2154(pgm)
+ SYC: syc1350_d
+ SYF: Synpcc7942_0156
+ SYD: Syncc9605_2297
+ SYE: Syncc9902_0392
+ SYG: sync_2500
+ SYR: SynRCC307_0402(pmg)
+ SYX: SynWH7803_2164(pmg)
+ CYA: CYA_1969
+ CYB: CYB_2304
+ SYNE: Syn6312_2236
+ SYNK: KR100_14205
+ SYNR: KR49_07020
+ SYND: KR52_04685
+ SYU: M744_02280
+ SYH: Syncc8109_2381(pgm)
+ TEL: tlr1976
+ THN: NK55_06580(pgm)
+ CGC: Cyagr_1550
+ DSL: Dacsa_2418
+ CMP: Cha6605_1279
+ LEN: LEP3755_62020
+ LET: O77CONTIG1_04851(pgm)
+ PSEU: Pse7367_2768
+ PMA: Pro_0090(pgm)
+ PMM: PMM0076(pgm)
+ PMT: PMT_1614
+ PMN: PMN2A_1440
+ PMI: PMT9312_0079
+ PMB: A9601_00891(pgm)
+ PMC: P9515_00861(pgm)
+ PMF: P9303_02691(pgm)
+ PMG: P9301_00881(pgm)
+ PMH: P9215_00891(pgm)
+ PMJ: P9211_00861(pgm)
+ PME: NATL1_01411(pgm)
+ PRC: EW14_0096
+ PRM: EW15_0158
+ AMR: AM1_5123
+ MAR: MAE_52320
+ MPK: VL20_1602
+ CAN: Cyan10605_2652
+ CSN: Cyast_2445
+ HAO: PCC7418_2237
+ CYU: UCYN_00830
+ GEN: GM3709_2139
+ GEE: GM3708_1574
+ CYT: cce_0606(pgm)
+ CYP: PCC8801_3290
+ CYC: PCC7424_4132
+ CYN: Cyan7425_0424
+ CYH: Cyan8802_2833
+ CYJ: Cyan7822_2491
+ TER: Tery_1084
+ ARP: NIES39_M02780
+ MPRO: BJP34_08085
+ GVI: gll3983
+ GLJ: GKIL_4070(pgm)
+ CALT: Cal6303_0798
+ CALH: IJ00_23505
+ RIV: Riv7116_4156
+ FIS: FIS3754_30380
+ CTHE: Chro_3562
+ PLP: Ple7327_0180
+ SCS: Sta7437_0621
+ CEO: ETSB_0064(pgm)
+ MBF: BHV42_00170 BHV42_01210
+ ABAO: BEQ56_10280
+ CAP: CLDAP_00370(pgm)
+ DRA: DR_0303(pgm)
+ DGE: Dgeo_1875
+ DDR: Deide_07380
+ DMR: Deima_1394
+ DPT: Deipr_1398
+ DGO: DGo_CA2598
+ DPD: Deipe_0732
+ DSW: QR90_07210
+ DCH: SY84_11880
+ DAB: AUC44_03135
+ DPU: SU48_11485
+ TRA: Trad_0749
+ TTH: TT_C1630
+ TTJ: TTHA0353
+ TTS: Ththe16_0024
+ TTL: TtJL18_0027
+ TSC: TSC_c01410(pgm)
+ THC: TCCBUS3UF1_20790
+ TOS: Theos_2164
+ TAQ: TO73_0040
+ TPAR: AV541_00755
+ MRB: Mrub_2052
+ MRE: K649_12280
+ MSV: Mesil_0294
+ OTE: Oter_3746
+ OBG: Verru16b_02635(pgcA)
+ OBT: OPIT5_26040
+ CAA: Caka_1909
+ AMU: Amuc_0155
+ AGL: PYTT_1408
+ XII: AMD24_00394(pgcA)
+ MIN: Minf_2127(manB)
+ VBA: IMCC26134_03935
+ PLM: Plim_1409
+ PBS: Plabr_0528
+ FMR: Fuma_00607(pgcA)
+ GES: VT84_17375(pgm_1) VT84_18990(pgcA) VT84_25525(pgm_2)
+ SACI: Sinac_5822
+ BGA: BG0004(femD)
+ TPA: TP_0642
+ TPW: TPANIC_0642
+ TPP: TPASS_0642(manB)
+ TPU: TPADAL_0642
+ TPH: TPChic_0642
+ TPO: TPAMA_0642
+ TPAS: TPSea814_000642
+ TPC: TPECDC2_0642
+ TPG: TPEGAU_0642
+ TPM: TPESAMD_0642
+ TPB: TPFB_0642
+ TDE: TDE0864 TDE1998
+ TSU: Tresu_2063
+ TBE: Trebr_1592
+ TAZ: TREAZ_0938
+ TPI: TREPR_1681
+ TPL: TPCCA_0642
+ TPED: TPE_2214
+ SCD: Spica_1029
+ TPK: JO40_12320
+ TRM: JO41_12155
+ SSM: Spirs_2379
+ STA: STHERM_c11950
+ STQ: Spith_1237
+ SFC: Spiaf_0830
+ SBU: SpiBuddy_1993
+ SCC: Spico_1017
+ SGP: SpiGrapes_2961
+ SLR: L21SP2_1264
+ LIE: LIF_A1752(manB)
+ LIS: LIL_11890(manB2)
+ LST: LSS_09549
+ LAJ: A0128_09285
+ TPX: Turpa_2229 Turpa_3615
+ BHD: BHYOB78_04755
+ BRM: Bmur_2071
+ BPO: BP951000_1160(pgm)
+ BPJ: B2904_orf2626
+ BPIP: BPP43_09310
+ BPW: WESB_2585
+ BIP: Bint_2389(manB)
+ ACM: AciX9_2527 AciX9_2688
+ GMA: AciX8_1068
+ TSA: AciPR4_0641
+ TRS: Terro_0712
+ SUS: Acid_2893 Acid_3937 Acid_6473
+ EMI: Emin_1269
+ FNU: FN0559
+ FNC: HMPREF0946_00100
+ FNT: HMPREF0405_01157
+ FUS: HMPREF0409_02310
+ FNE: FSDG_00989
+ FHW: RN87_05820
+ IPO: Ilyop_0255
+ LBA: Lebu_2089
+ LEO: AMK43_01800 AMK43_11065
+ LOT: AXF11_06965
+ STR: Sterm_3321
+ SNS: VC03_04000 VC03_05330
+ TAI: Taci_0468
+ ACO: Amico_0419
+ TLI: Tlie_1572
+ SBR: SY1_23220
+ CPOR: BED41_11325 BED41_14090
+ GAU: GAU_1648(manB) GAU_2920(pgm)
+ GPH: GEMMAAP_08935 GEMMAAP_15240
+ GBA: J421_3281 J421_4081
+ BTH: BT_1548
+ BTHO: Btheta7330_01520(pgcA)
+ BFR: BF1478
+ BFS: BF9343_1340
+ BFG: BF638R_1493
+ BFB: VU15_06195
+ BVU: BVU_3804
+ BHL: Bache_1995
+ BSA: Bacsa_0861
+ BXY: BXY_45690
+ BDO: EL88_11995
+ BDH: GV66_19635
+ BOA: Bovatus_01634(pgcA)
+ BCEL: BcellWH2_05137(pgcA)
+ BACC: BRDCF_p1169(pgcA)
+ PGI: PG_2010
+ PGN: PGN_1955
+ PGT: PGTDC60_0283
+ PAH: Poras_1330
+ PDI: BDI_2097
+ PARY: A4V02_08050
+ PPN: Palpr_0854
+ TFO: BFO_2149(pgcA)
+ TOH: BCB71_08710
+ BVS: BARVI_04435
+ PBT: ING2E5B_1191
+ PMUC: ING2E5A_1222(pgcA)
+ PSAC: PSM36_1535
+ OSP: Odosp_1923
+ APS: CFPG_637
+ PRU: PRU_1071
+ PMZ: HMPREF0659_A6890
+ PDN: HMPREF9137_2410
+ PIT: PIN17_0340
+ PDT: Prede_1717
+ PRO: HMPREF0669_00354
+ PFUS: ADJ77_09895
+ PEO: AS203_07845
+ AFD: Alfi_3304
+ ASH: AL1_27830
+ RBC: BN938_3060
+ DOI: FH5T_16780
+ BLQ: L21SP5_01231(pgcA)
+ RBAR: AWN76_018330
+ CPI: Cpin_5884
+ NKO: Niako_2205
+ NSO: NIASO_07675
+ NIA: A8C56_06025
+ FLA: SY85_01615
+ ARB: A9P82_15125
+ HHY: Halhy_1254
+ PHE: Phep_2334
+ PEP: AQ505_17510
+ PCM: AY601_2271
+ PSTY: BFS30_20325
+ PSN: Pedsa_1482
+ SHG: Sph21_2018
+ SHT: KO02_01130
+ SPHN: BV902_01565 BV902_02275
+ MUP: A0256_23870
+ CMR: Cycma_4984
+ CAMU: CA2015_0255 CA2015_4809
+ BBD: Belba_2901
+ EVI: Echvi_2982
+ ALM: AO498_10755
+ CHU: CHU_0998(pgm)
+ DFE: Dfer_4939
+ SLI: Slin_2990
+ SRD: SD10_16870
+ SMON: AWR27_09595
+ LBY: Lbys_1694
+ RSI: Runsl_0542
+ EOL: Emtol_2495
+ FAE: FAES_2581
+ FLI: Fleli_1637
+ HSW: Hsw_2872
+ HYM: N008_15065
+ HYD: PK28_12195
+ HYG: AUC43_12190
+ HYP: A0257_00905 A0257_21795 A0257_23230
+ PKO: PKOR_21700
+ RUF: TH63_09635
+ RTI: DC20_21110
+ RUD: TH61_16755
+ MTT: Ftrac_0765
+ FLM: MY04_0455
+ FBT: D770_26220
+ CCM: Ccan_07910
+ RAI: RA0C_0919
+ RAR: RIA_1566
+ RAE: G148_0936
+ ZGA: ZOBELLIA_85(pgcA)
+ EAO: BD94_2626
+ EMN: M876_10175
+ ELB: VO54_00087(pgcA)
+ EEN: BBD30_13685
+ EMG: BBD33_09805
+ CHZ: CHSO_2743
+ FBA: FIC_01434
+ FBU: UJ101_02590
+ OHO: Oweho_0634
+ CPB: Cphamn1_1187
+ PAA: Paes_0902
+ PROC: Ptc2401_00993(pgm)
+ CACI: CLOAM0516(cpsG)
+ THP: BG95_04640
+ FPE: Ferpe_1295
+ FIA: NA23_06460
+ MPZ: Marpi_0079 Marpi_0576
+ MARN: LN42_00395 LN42_03320
+ DTN: DTL3_0887 DTL3_1435(pgcA)
+ KPF: IX53_08660
+ MPG: Theba_0662 Theba_1445
+ DIN: Selin_2216
+ DDF: DEFDS_0735
+ DAP: Dacet_0873
+ CNI: Calni_1381 Calni_1989
+ FSI: Flexsi_1551
+ CABY: Cabys_3279
+ DTH: DICTH_1769
+ DTU: Dtur_0067
+ TYE: THEYE_A0095
+ NDE: NIDE2083(pgm) NIDE2983(manB_pgm)
+ NMV: NITMOv2_2060(pgm) NITMOv2_3476(manB_pgm)
+ NIO: NITINOP_2245(pgm) NITINOP_3080(manB_pgm)
+ LFC: LFE_1649 LFE_1817
+ LFI: LFML04_1021 LFML04_1327
+ LFP: Y981_04535 Y981_06445
+ LEG: ABH19_06845 ABH19_08580
+ TID: Thein_2165
+ TOP: TOPB45_0214
+ TCM: HL41_00255
+ CTHI: THC_1526
+ SBAG: UW38_C0001G0250
+ PRF: PeribacterA2_0224
+ MOX: DAMO_1547
+ WWE: P147_WWE3C01G0144
+ WBA: UR17_C0001G0803
+ TMG: US01_C0001G0612
+ MAC: MA_0241 MA_2665(pmm)
+ MBA: Mbar_A0721 Mbar_A2225
+ MBY: MSBRM_0324 MSBRM_2207
+ MBW: MSBRW_0280 MSBRW_2523
+ MBAR: MSBR2_0205 MSBR2_2057
+ MBAK: MSBR3_2120
+ MMA: MM_1521
+ MMAZ: MmTuc01_1580
+ MMJ: MSMAS_3146
+ MMAC: MSMAC_3166
+ MVC: MSVAZ_0320
+ MEK: MSKOL_0304
+ MLS: MSLAZ_0096
+ METM: MSMTP_3044
+ MEF: MSWH1_0168
+ MEQ: MSWHS_0167
+ MSJ: MSSAC_0227 MSSAC_1780
+ MSZ: MSSIH_0196
+ MSW: MSSIT_0200
+ MTHE: MSTHC_1242
+ MTHR: MSTHT_2044
+ MHOR: MSHOH_2522 MSHOH_3883
+ MBU: Mbur_2115
+ MMET: MCMEM_0312
+ MMH: Mmah_0304
+ MHAZ: BHR79_01995
+ MEV: Metev_0128
+ MZH: Mzhil_1815
+ MPY: Mpsy_2076
+ MHZ: Metho_2209
+ MCJ: MCON_0725
+ MHU: Mhun_1197
+ MLA: Mlab_0785
+ MEM: Memar_0755
+ MBG: BN140_1119(manB)
+ MEMA: MMAB1_1434 MMAB1_1435
+ MPI: Mpet_1868
+ MBN: Mboo_0714
+ MFO: Metfor_2496
+ MPL: Mpal_0486
+ MPD: MCP_2422
+ MEZ: Mtc_1252(pgm-1)
+ RCI: RCIX2409(pgm-2)
+ MTH: MTH_1584
+ MMG: MTBMA_c01700
+ METC: MTCT_1443 MTCT_1604
+ MWO: MWSIV6_0128(glmM) MWSIV6_0299(glmM_3)
+ MST: Msp_0263
+ MSI: Msm_0648
+ MRU: mru_0449(glmM2)
+ MEB: Abm4_0232(glmM2)
+ MMIL: sm9_0321(glmM2)
+ MEYE: TL18_01375
+ MOL: YLM1_0123
+ MEL: Metbo_2461
+ MEW: MSWAN_0179 MSWAN_1539
+ METH: MBMB1_0168(glmM1)
+ MFC: BRM9_2132(glmM2)
+ MFI: DSM1535_1549(glmM3)
+ MCUB: MCBB_0186 MCBB_1474(glmM_3)
+ MFV: Mfer_0547
+ MKA: MK0920(cpsG_2)
+ AFU: AF_0458
+ AFG: AFULGI_00004640
+ APO: Arcpr_0278
+ AVE: Arcve_1188
+ AST: Asulf_00240
+ FPL: Ferp_0104
+ GAC: GACE_1066
+ GAH: GAH_01903
+ HAL: VNG_2206G(pmu1)
+ HSL: OE_4094F(pmm1)
+ HDL: HALDL1_16105
+ HHB: Hhub_3489(pmm1)
+ HJE: HacjB3_00255
+ HALH: HTSR_0097(pmu)
+ HHSR: HSR6_0096(pmu)
+ HMA: rrnAC2522(manB3)
+ HHI: HAH_2952(manB2)
+ HHN: HISP_15010
+ HAB: SG26_07125
+ NPH: NP_5158A(pmm4)
+ NMO: Nmlp_3281(pmm1)
+ HMU: Hmuk_0852
+ HALI: BV210_08750
+ HSU: HLASF_0143(pmu1)
+ HSF: HLASA_0143(pmu1)
+ HWA: HQ_1024A(pmm1)
+ HWC: Hqrw_1027(pmm1)
+ HVO: HVO_2989(pmu2)
+ HME: HFX_2983(cpsG)
+ HGI: ABY42_14910
+ HBO: Hbor_02570
+ HLA: Hlac_2256
+ HSI: BOX17_09815
+ HTU: Htur_0084
+ HDA: BB347_14320
+ NMG: Nmag_1740
+ HXA: Halxa_1213
+ NAT: NJ7G_0552
+ NPE: Natpe_0082
+ NGE: Natgr_1689
+ HRU: Halru_3163
+ NOU: Natoc_3931
+ SALI: L593_08850
+ HLR: HALLA_04830
+ HLC: CHINAEXTREME05475
+ TAC: Ta0568
+ TVO: TVG0612677(TVG0612677)
+ PTO: PTO1166
+ FAC: FACI_IFERC01G1623
+ FAI: FAD_0602
+ CDIV: CPM_0370
+ TAR: TALC_00241
+ MAX: MMALV_02250
+ MER: MMINT_16490
+ MEAR: Mpt1_c11280(glmM2)
+ MARC: AR505_1608
+ PHO: PH0923(PH0923)
+ PAB: PAB0819(pmm)
+ PFU: PF0588
+ PFI: PFC_02070
+ PYN: PNA2_1458
+ PYA: PYCH_06990
+ PYS: Py04_0858
+ PYC: TQ32_02350
+ TKO: TK1108
+ TON: TON_0244
+ TGA: TGAM_0813(pgm)
+ TSI: TSIB_0248
+ TBA: TERMP_00026
+ THE: GQS_04065
+ THA: TAM4_546
+ THM: CL1_0467
+ TLT: OCC_09676
+ THS: TES1_0134
+ TNU: BD01_0155
+ TEU: TEU_06470
+ TGY: X802_07900
+ THV: ADU37_CDS01870 ADU37_CDS22560
+ TCH: CHITON_0966
+ TPEP: A0127_09690
+ PPAC: PAP_01450
+ ABI: Aboo_0187 Aboo_1538
+ ACF: AciM339_0862 AciM339_1571
+ APE: APE_0317.1
+ ACJ: ACAM_0238
+ SMR: Smar_1286
+ SHC: Shell_1165
+ IHO: Igni_0885
+ IIS: EYM_01085
+ DKA: DKAM_0012
+ DMU: Desmu_0154
+ DFD: Desfe_0111
+ TAG: Tagg_0185
+ IAG: Igag_1229
+ THG: TCELL_0030
+ HBU: Hbut_1078
+ PFM: Pyrfu_1421
+ PDL: Pyrde_0972
+ SSO: SSO0207(pmM)
+ SOL: Ssol_1188
+ SSOA: SULA_1224
+ SSOL: SULB_1225
+ SSOF: SULC_1223
+ STO: STK_02420
+ SAI: Saci_0806
+ SACN: SacN8_03910
+ SACR: SacRon12I_03900
+ SACS: SUSAZ_03645
+ SIS: LS215_2090
+ SIA: M1425_1927
+ SIM: M1627_2005
+ SID: M164_1935
+ SIY: YG5714_2049
+ SIN: YN1551_0869
+ SII: LD85_2187
+ SIH: SiH_1872
+ SIR: SiRe_1800
+ SIC: SiL_1781
+ SULA: BFU36_04880
+ MSE: Msed_0223
+ MCN: Mcup_1849
+ AHO: Ahos_0595
+ CMA: Cmaq_1688
+ THF: MA03_05525
+ ASC: ASAC_0747
+ CLG: Calag_0032
+ FFO: FFONT_0402
+ NMR: Nmar_0224
+ NIR: NSED_00945
+ NID: NPIRD3C_0615
+ NIN: NADRNF5_2036
+ NKR: NKOR_00960
+ CSY: CENSYa_0292
+ NGA: Ngar_c28320(glmM)
+ NVN: NVIE_015310 NVIE_029320(glmM)
+ NEV: NTE_01223
+ TAA: NMY3_00934(glmM)
+ CSU: CSUB_C0368
+ NBV: T478_1233(glmM)
+ TAH: SU86_007800
+ NAC: AQV86_00510 AQV86_01490
+ KCR: Kcr_1498
+ BARC: AOA65_1946(glmM_1)
+ BARB: AOA66_1496(manB)
+ LOKI: Lokiarch_24240(glmM_2)
+ HAH: Halar_2854
+ AGW: QT03_C0001G0998
+DBLINKS ExplorEnz - The Enzyme Database: 5.4.2.2
+ IUBMB Enzyme Nomenclature: 5.4.2.2
+ ExPASy - ENZYME nomenclature database: 5.4.2.2
+ BRENDA, the Enzyme Database: 5.4.2.2
+ CAS: 9001-81-4
+///
diff --git a/Tests/KEGG/ko00010.xml b/Tests/KEGG/ko00010.xml
new file mode 100644
index 0000000..27c247d
--- /dev/null
+++ b/Tests/KEGG/ko00010.xml
@@ -0,0 +1,1485 @@
+<?xml version="1.0"?>
+<!DOCTYPE pathway SYSTEM "http://www.kegg.jp/kegg/xml/KGML_v0.7.2_.dtd">
+<!-- Creation date: Sep 21, 2016 14:03:10 +0900 (GMT+9) -->
+<pathway name="path:ko00010" org="ko" number="00010"
+ title="Glycolysis / Gluconeogenesis"
+ image="http://www.kegg.jp/kegg/pathway/ko/ko00010.png"
+ link="http://www.kegg.jp/kegg-bin/show_pathway?ko00010">
+ <entry id="13" name="ko:K01623 ko:K01624 ko:K01622 ko:K11645 ko:K16305 ko:K16306" type="ortholog" reaction="rn:R01070"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01623+K01624+K01622+K11645+K16305+K16306">
+ <graphics name="K01623..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="483" y="407" width="46" height="17"/>
+ </entry>
+ <entry id="37" name="ko:K00128 ko:K14085 ko:K00149" type="ortholog" reaction="rn:R00710"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00128+K14085+K00149">
+ <graphics name="K00128..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="284" y="948" width="46" height="17"/>
+ </entry>
+ <entry id="38" name="ko:K01905" type="ortholog" reaction="rn:R00229"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01905">
+ <graphics name="K01905" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="146" y="916" width="46" height="17"/>
+ </entry>
+ <entry id="39" name="ko:K00129" type="ortholog" reaction="rn:R00711"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00129">
+ <graphics name="K00129" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="259" y="969" width="46" height="17"/>
+ </entry>
+ <entry id="40" name="cpd:C00033" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C00033">
+ <graphics name="C00033" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="146" y="958" width="8" height="8"/>
+ </entry>
+ <entry id="41" name="path:ko00030" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?ko00030">
+ <graphics name="Pentose phosphate pathway" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="656" y="339" width="62" height="237"/>
+ </entry>
+ <entry id="42" name="path:ko00500" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?ko00500">
+ <graphics name="Starch and sucrose metabolism" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="484" y="76" width="110" height="34"/>
+ </entry>
+ <entry id="43" name="ko:K01568" type="ortholog" reaction="rn:R00755"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01568">
+ <graphics name="K01568" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="378" y="917" width="46" height="17"/>
+ </entry>
+ <entry id="44" name="ko:K00002" type="ortholog" reaction="rn:R00746"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00002">
+ <graphics name="K00002" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="487" y="948" width="46" height="17"/>
+ </entry>
+ <entry id="45" name="ko:K13951 ko:K13980 ko:K13952 ko:K13953 ko:K13954 ko:K00001 ko:K00121 ko:K04072 ko:K18857" type="ortholog" reaction="rn:R00754"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K13951+K13980+K13952+K13953+K13954+K00001+K00121+K04072+K18857">
+ <graphics name="K13951..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="439" y="941" width="46" height="17"/>
+ </entry>
+ <entry id="46" name="ko:K01568" type="ortholog" reaction="rn:R00014"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01568">
+ <graphics name="K01568" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="431" y="879" width="46" height="17"/>
+ </entry>
+ <entry id="47" name="ko:K00163 ko:K00161 ko:K00162" type="ortholog" reaction="rn:R00014"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00163+K00161+K00162">
+ <graphics name="K00163..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="431" y="858" width="46" height="17"/>
+ </entry>
+ <entry id="48" name="ko:K00163 ko:K00161 ko:K00162" type="ortholog" reaction="rn:R03270"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00163+K00161+K00162">
+ <graphics name="K00163..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="319" y="870" width="46" height="17"/>
+ </entry>
+ <entry id="49" name="ko:K00627" type="ortholog" reaction="rn:R02569"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00627">
+ <graphics name="K00627" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="210" y="870" width="46" height="17"/>
+ </entry>
+ <entry id="50" name="ko:K00016" type="ortholog" reaction="rn:R00703"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00016">
+ <graphics name="K00016" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="558" y="869" width="46" height="17"/>
+ </entry>
+ <entry id="51" name="path:ko00620" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?ko00620">
+ <graphics name="Pyruvate metabolism" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="384" y="763" width="78" height="34"/>
+ </entry>
+ <entry id="52" name="ko:K00873 ko:K12406" type="ortholog" reaction="rn:R00200"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00873+K12406">
+ <graphics name="K00873..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="483" y="771" width="46" height="17"/>
+ </entry>
+ <entry id="53" name="path:ko00020" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?ko00020">
+ <graphics name="Citrate cycle (TCA cycle)" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="64" y="800" width="47" height="154"/>
+ </entry>
+ <entry id="54" name="ko:K01689" type="ortholog" reaction="rn:R00658"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01689">
+ <graphics name="K01689" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="483" y="701" width="46" height="17"/>
+ </entry>
+ <entry id="55" name="ko:K01834 ko:K01837" type="ortholog" reaction="rn:R01518"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01834+K01837">
+ <graphics name="K01834..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="458" y="630" width="46" height="17"/>
+ </entry>
+ <entry id="56" name="ko:K00134 ko:K10705" type="ortholog" reaction="rn:R01061"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00134+K10705">
+ <graphics name="K00134..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="458" y="484" width="46" height="17"/>
+ </entry>
+ <entry id="57" name="ko:K01803" type="ortholog" reaction="rn:R01015"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01803">
+ <graphics name="K01803" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="386" y="449" width="46" height="17"/>
+ </entry>
+ <entry id="58" name="ko:K00850 ko:K16370" type="ortholog" reaction="rn:R04779"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K00850+K16370">
+ <graphics name="K00850..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="458" y="336" width="46" height="17"/>
+ </entry>
+ <entry id="59" name="ko:K03841 ko:K02446 ko:K11532 ko:K01086 ko:K04041 ko:K01622" type="ortholog" reaction="rn:R04780"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K03841+K02446+K11532+K01086+K04041+K01622">
+ <graphics name="K03841..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="408" y="336" width="46" height="17"/>
+ </entry>
+ <entry id="60" name="ko:K02777 ko:K02778 ko:K02779 ko:K02790 ko:K02791 ko:K20116 ko:K20117 ko:K20118" type="ortholog" reaction="rn:R02738"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K02777+K02778+K02779+K02790+K02791+K20116+K20117+K20118">
+ <graphics name="K02777..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="552" y="196" width="46" height="17"/>
+ </entry>
+ <entry id="61" name="ko:K01810 ko:K06859 ko:K13810 ko:K15916" type="ortholog" reaction="rn:R02740"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01810+K06859+K13810+K15916">
+ <graphics name="K01810..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="483" y="265" width="46" height="17"/>
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+ </reaction>
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+</pathway>
diff --git a/Tests/KEGG/ko00253.xml b/Tests/KEGG/ko00253.xml
new file mode 100644
index 0000000..56aaa4d
--- /dev/null
+++ b/Tests/KEGG/ko00253.xml
@@ -0,0 +1,359 @@
+<?xml version="1.0"?>
+<!DOCTYPE pathway SYSTEM "http://www.kegg.jp/kegg/xml/KGML_v0.7.2_.dtd">
+<!-- Creation date: Aug 19, 2014 17:31:21 +0900 (GMT+09:00) -->
+<pathway name="path:ko00253" org="ko" number="00253"
+ title="Tetracycline biosynthesis"
+ image="http://www.kegg.jp/kegg/pathway/ko/ko00253.png"
+ link="http://www.kegg.jp/kegg-bin/show_pathway?ko00253">
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+ link="http://www.kegg.jp/dbget-bin/www_bget?K12420">
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+ </entry>
+ <entry id="11" name="path:map07019" type="map"
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+ type="roundrectangle" x="309" y="305" width="79" height="25"/>
+ </entry>
+ <entry id="12" name="path:ko01056" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?ko01056">
+ <graphics name="Biosynthesis of type II polyketide backbone" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="309" y="116" width="226" height="25"/>
+ </entry>
+ <entry id="13" name="cpd:C06654" type="compound"
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+ link="http://www.kegg.jp/dbget-bin/www_bget?K14254">
+ <graphics name="K14254" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="788" y="351" width="46" height="17"/>
+ </entry>
+ <entry id="29" name="ko:K14257" type="ortholog" reaction="rn:R05456"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14257">
+ <graphics name="K14257" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="845" y="379" width="46" height="17"/>
+ </entry>
+ <entry id="30" name="ko:K01961 ko:K01962 ko:K01963 ko:K02160 ko:K11263 ko:K18472" type="ortholog" reaction="rn:R00742"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K01961+K01962+K01963+K02160+K11263+K18472">
+ <graphics name="K01961..." fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="156" y="216" width="46" height="17"/>
+ </entry>
+ <entry id="31" name="path:ko00253" type="map"
+ link="http://www.kegg.jp/dbget-bin/www_bget?ko00253">
+ <graphics name="TITLE:Tetracycline biosynthesis" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="roundrectangle" x="161" y="58" width="242" height="25"/>
+ </entry>
+ <entry id="38" name="ko:K05551" type="ortholog" reaction="rn:R06641"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K05551">
+ <graphics name="K05551" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="370" y="156" width="46" height="17"/>
+ </entry>
+ <entry id="39" name="ko:K05552" type="ortholog" reaction="rn:R06641"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K05552">
+ <graphics name="K05552" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="416" y="156" width="46" height="17"/>
+ </entry>
+ <entry id="40" name="ko:K05553" type="ortholog" reaction="rn:R06641"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K05553">
+ <graphics name="K05553" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="394" y="173" width="46" height="17"/>
+ </entry>
+ <entry id="41" name="ko:K14249" type="ortholog" reaction="rn:R09187"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14249">
+ <graphics name="K14249" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="607" y="165" width="46" height="17"/>
+ </entry>
+ <entry id="42" name="ko:K14250" type="ortholog" reaction="rn:R09188"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14250">
+ <graphics name="K14250" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="700" y="165" width="46" height="17"/>
+ </entry>
+ <entry id="43" name="ko:K14244" type="ortholog" reaction="rn:R09195"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14244">
+ <graphics name="K14244" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="251" y="165" width="46" height="17"/>
+ </entry>
+ <entry id="44" name="cpd:C12441" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C12441">
+ <graphics name="C12441" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="472" y="164" width="8" height="8"/>
+ </entry>
+ <entry id="45" name="cpd:C12442" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C12442">
+ <graphics name="C12442" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="565" y="164" width="8" height="8"/>
+ </entry>
+ <entry id="46" name="cpd:C18293" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18293">
+ <graphics name="C18293" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="658" y="164" width="8" height="8"/>
+ </entry>
+ <entry id="47" name="cpd:C18295" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18295">
+ <graphics name="C18295" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="844" y="164" width="8" height="8"/>
+ </entry>
+ <entry id="49" name="ko:K14251" type="ortholog" reaction="rn:R09189"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14251">
+ <graphics name="K14251" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="845" y="191" width="46" height="17"/>
+ </entry>
+ <entry id="50" name="ko:K14253" type="ortholog" reaction="rn:R05463"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14253">
+ <graphics name="K14253" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="845" y="255" width="46" height="17"/>
+ </entry>
+ <entry id="51" name="ko:K14252" type="ortholog" reaction="rn:R05462"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14252">
+ <graphics name="K14252" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="845" y="317" width="46" height="17"/>
+ </entry>
+ <entry id="52" name="cpd:C18296" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18296">
+ <graphics name="C18296" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="396" y="350" width="8" height="8"/>
+ </entry>
+ <entry id="55" name="cpd:C18294" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18294">
+ <graphics name="C18294" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="751" y="164" width="8" height="8"/>
+ </entry>
+ <entry id="57" name="cpd:C18299" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18299">
+ <graphics name="C18299" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="732" y="413" width="8" height="8"/>
+ </entry>
+ <entry id="59" name="cpd:C18297" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18297">
+ <graphics name="C18297" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="620" y="413" width="8" height="8"/>
+ </entry>
+ <entry id="60" name="ko:K14255" type="ortholog" reaction="rn:R09200"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14255">
+ <graphics name="K14255" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="677" y="414" width="46" height="17"/>
+ </entry>
+ <entry id="62" name="cpd:C18298" type="compound"
+ link="http://www.kegg.jp/dbget-bin/www_bget?C18298">
+ <graphics name="C18298" fgcolor="#000000" bgcolor="#FFFFFF"
+ type="circle" x="508" y="413" width="8" height="8"/>
+ </entry>
+ <entry id="63" name="ko:K14256" type="ortholog" reaction="rn:R09193"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14256">
+ <graphics name="K14256" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="565" y="414" width="46" height="17"/>
+ </entry>
+ <entry id="64" name="ko:K14252" type="ortholog" reaction="rn:R09190"
+ link="http://www.kegg.jp/dbget-bin/www_bget?K14252">
+ <graphics name="K14252" fgcolor="#000000" bgcolor="#BFBFFF"
+ type="rectangle" x="812" y="287" width="46" height="17"/>
+ </entry>
+ <entry id="65" name="undefined" type="group">
+ <graphics fgcolor="#000000" bgcolor="#FFFFFF"
+ type="rectangle" x="393" y="164" width="92" height="34"/>
+ <component id="38"/>
+ <component id="39"/>
+ <component id="40"/>
+ </entry>
+ <relation entry1="30" entry2="43" type="ECrel">
+ <subtype name="compound" value="24"/>
+ </relation>
+ <relation entry1="43" entry2="12" type="maplink">
+ <subtype name="compound" value="23"/>
+ </relation>
+ <relation entry1="43" entry2="65" type="ECrel">
+ <subtype name="compound" value="23"/>
+ </relation>
+ <relation entry1="12" entry2="65" type="maplink">
+ <subtype name="compound" value="23"/>
+ </relation>
+ <relation entry1="65" entry2="5" type="ECrel">
+ <subtype name="compound" value="44"/>
+ </relation>
+ <relation entry1="5" entry2="41" type="ECrel">
+ <subtype name="compound" value="45"/>
+ </relation>
+ <relation entry1="41" entry2="42" type="ECrel">
+ <subtype name="compound" value="46"/>
+ </relation>
+ <relation entry1="49" entry2="50" type="ECrel">
+ <subtype name="compound" value="22"/>
+ </relation>
+ <relation entry1="49" entry2="64" type="ECrel">
+ <subtype name="compound" value="22"/>
+ </relation>
+ <relation entry1="50" entry2="51" type="ECrel">
+ <subtype name="compound" value="21"/>
+ </relation>
+ <relation entry1="51" entry2="28" type="ECrel">
+ <subtype name="compound" value="20"/>
+ </relation>
+ <relation entry1="51" entry2="29" type="ECrel">
+ <subtype name="compound" value="20"/>
+ </relation>
+ <relation entry1="64" entry2="28" type="ECrel">
+ <subtype name="compound" value="20"/>
+ </relation>
+ <relation entry1="64" entry2="29" type="ECrel">
+ <subtype name="compound" value="20"/>
+ </relation>
+ <relation entry1="28" entry2="29" type="ECrel">
+ <subtype name="compound" value="20"/>
+ </relation>
+ <relation entry1="28" entry2="27" type="ECrel">
+ <subtype name="compound" value="13"/>
+ </relation>
+ <relation entry1="27" entry2="26" type="ECrel">
+ <subtype name="compound" value="14"/>
+ </relation>
+ <relation entry1="60" entry2="63" type="ECrel">
+ <subtype name="compound" value="59"/>
+ </relation>
+ <reaction id="26" name="rn:R04060" type="irreversible">
+ <substrate id="14" name="cpd:C02811"/>
+ <product id="17" name="cpd:C03206"/>
+ </reaction>
+ <reaction id="27" name="rn:R09191" type="irreversible">
+ <substrate id="13" name="cpd:C06654"/>
+ <product id="14" name="cpd:C02811"/>
+ </reaction>
+ <reaction id="28" name="rn:R09197" type="irreversible">
+ <substrate id="20" name="cpd:C06627"/>
+ <product id="13" name="cpd:C06654"/>
+ </reaction>
+ <reaction id="29" name="rn:R05456" type="irreversible">
+ <substrate id="20" name="cpd:C06627"/>
+ <product id="19" name="cpd:C06626"/>
+ </reaction>
+ <reaction id="30" name="rn:R00742" type="irreversible">
+ <substrate id="25" name="cpd:C00024"/>
+ <product id="24" name="cpd:C00083"/>
+ </reaction>
+ <reaction id="38" name="rn:R06641" type="irreversible">
+ <substrate id="24" name="cpd:C00083"/>
+ <substrate id="23" name="cpd:C06625"/>
+ <product id="44" name="cpd:C12441"/>
+ </reaction>
+ <reaction id="39" name="rn:R06641" type="irreversible">
+ <substrate id="24" name="cpd:C00083"/>
+ <substrate id="23" name="cpd:C06625"/>
+ <product id="44" name="cpd:C12441"/>
+ </reaction>
+ <reaction id="40" name="rn:R06641" type="irreversible">
+ <substrate id="24" name="cpd:C00083"/>
+ <substrate id="23" name="cpd:C06625"/>
+ <product id="44" name="cpd:C12441"/>
+ </reaction>
+ <reaction id="5" name="rn:R06642" type="irreversible">
+ <substrate id="44" name="cpd:C12441"/>
+ <product id="45" name="cpd:C12442"/>
+ </reaction>
+ <reaction id="41" name="rn:R09187" type="irreversible">
+ <substrate id="45" name="cpd:C12442"/>
+ <product id="46" name="cpd:C18293"/>
+ </reaction>
+ <reaction id="42" name="rn:R09188" type="irreversible">
+ <substrate id="46" name="cpd:C18293"/>
+ <product id="55" name="cpd:C18294"/>
+ </reaction>
+ <reaction id="43" name="rn:R09195" type="irreversible">
+ <substrate id="24" name="cpd:C00083"/>
+ <product id="23" name="cpd:C06625"/>
+ </reaction>
+ <reaction id="49" name="rn:R09189" type="irreversible">
+ <substrate id="47" name="cpd:C18295"/>
+ <product id="22" name="cpd:C06629"/>
+ </reaction>
+ <reaction id="50" name="rn:R05463" type="irreversible">
+ <substrate id="22" name="cpd:C06629"/>
+ <product id="21" name="cpd:C06628"/>
+ </reaction>
+ <reaction id="51" name="rn:R05462" type="irreversible">
+ <substrate id="21" name="cpd:C06628"/>
+ <product id="20" name="cpd:C06627"/>
+ </reaction>
+ <reaction id="60" name="rn:R09200" type="irreversible">
+ <substrate id="57" name="cpd:C18299"/>
+ <product id="59" name="cpd:C18297"/>
+ </reaction>
+ <reaction id="63" name="rn:R09193" type="irreversible">
+ <substrate id="59" name="cpd:C18297"/>
+ <product id="62" name="cpd:C18298"/>
+ </reaction>
+ <reaction id="64" name="rn:R09190" type="irreversible">
+ <substrate id="22" name="cpd:C06629"/>
+ <product id="20" name="cpd:C06627"/>
+ </reaction>
+</pathway>
diff --git a/Tests/MAF/bug2453.maf b/Tests/MAF/bug2453.maf
new file mode 100644
index 0000000..617fa68
--- /dev/null
+++ b/Tests/MAF/bug2453.maf
@@ -0,0 +1,26 @@
+##maf version=1 scoring=tba.v8
+# tba.v8 (((human chimp) baboon) (mouse rat))
+# multiz.v7
+# maf_project.v5 _tba_right.maf3 mouse _tba_C
+# single_cov2.v4 single_cov2 /dev/stdin
+
+a score=23262.0
+s hg16.chr7 27578828 38 + 158545518 AAA-GGGAATGTTAACCAAATGA---ATTGTCTCTTACGGTG
+s panTro1.chr6 28741140 38 + 161576975 AAA-GGGAATGTTAACCAAATGA---ATTGTCTCTTACGGTG
+s baboon 116834 38 + 4622798 AAA-GGGAATGTTAACCAAATGA---GTTGTCTCTTATGGTG
+s mm4.chr6 53215344 38 + 151104725 -AATGGGAATGTTAAGCAAACGA---ATTGTCTCTCAGTGTG
+s rn3.chr4 81344243 40 + 187371129 -AA-GGGGATGCTAAGCCAATGAGTTGTTGTCTCTCAATGTG
+
+a score=5062.0
+s hg16.chr7 27699739 6 + 158545518 TAAAGA
+s panTro1.chr6 28862317 6 + 161576975 TAAAGA
+s baboon 241163 6 + 4622798 TAAAGA
+s mm4.chr6 53303881 6 + 151104725 TAAAGA
+s rn3.chr4 81444246 6 + 187371129 taagga
+
+a score=6636.0
+s hg16.chr7 27707221 13 + 158545518 gcagctgaaaaca
+s panTro1.chr6 28869787 13 + 161576975 gcagctgaaaaca
+s baboon 249182 13 + 4622798 gcagctgaaaaca
+s mm4.chr6 53310102 13 + 151104725 ACAGCTGAAAATA
+
diff --git a/Tests/MAF/bundle_without_target.maf b/Tests/MAF/bundle_without_target.maf
new file mode 100644
index 0000000..1b28ea5
--- /dev/null
+++ b/Tests/MAF/bundle_without_target.maf
@@ -0,0 +1,6 @@
+##maf version=1 scoring=autoMZ.v1
+a score=6441.000000
+s mm8.chr10 3009319 162 + 129993255 TCATAGGTATTTATTTTTAAATATGGTTTGCTTTATGGCTAGAACACACCGATTACTTAAAATAGGATTAACC--CCCATACACTTTAAAAATGATTAAACAACATTTCTGCTGCTCGCTCACATTCTTCATAGAAGATGACATAATGTATTTTCCTTTTGGTT
+s oryCun1.scaffold_133159 11087 164 + 13221 TCACAGATATTTACTATTAAATATGGTTTGTTATATGGTTACGGTTCATAGGTTACTTGGAATTGGATTAACCTTCTTATTCATTGCAGAATTGGTTACACTGTGTTCTTGACCTTTGCTTGTTTTCTCCATGGAAACTGATGTCAAATACTTTCCCTTTGGTT
+q oryCun1.scaffold_133159 99569899999998999999999999999999999999999999999999999999999999999999999757878999975999999999999999979999999999997899999999999997997999999869999996999988997997999999
+i oryCun1.scaffold_133159 N 0 N 0
diff --git a/Tests/MAF/cnksr3.fa b/Tests/MAF/cnksr3.fa
new file mode 100644
index 0000000..f85b3e7
--- /dev/null
+++ b/Tests/MAF/cnksr3.fa
@@ -0,0 +1,70 @@
+>mm9_knownGene_uc007efb.1 range=chr10:3134304-3227479 5'pad=0 3'pad=0 strand=+ repeatMasking=none
+TATTCCGGCAGCGCCGAGCGGAGCAGAAACTTTGCAACCCGAGCGCGCAC
+GCTCCGCTTTTTTCCTCCGCCCGGGCGGCCCGCGACGGTGGCGCAGGAGG
+TGGGACCCACTGGCGGGAAGGCTCGAGGCGGGGGCGCACGCGGAGTGGGG
+ACCTCGGGGACGGACACCGCTCGCAGGAGCCGCGGAGGGCCAGCCGACCT
+AGAAGTTCCCGGCCAGAAGAGTCCCACGCCAGGGCAGCCCCGGCCTGGGG
+TTTGAGGTTGCAACCTGCTCCCGCTGCTGCGGTGGTTGCGGAGAAGCAGC
+TGTAGCAGAGAGCGGCGTCGGGGGAACTGCATCTGGACAGCGGTAGCTGC
+GGGGAGCAGCCGTACGGGACATAGCTGTCCCGTGCGCAGAGACCCAGGGC
+CGCGCTTCCCTCGCAGAAACCGCAGCGCGATGGCCCGCTGACTGCGGCCA
+TGCAGGCTTGAGCGGACTCCCGGCACACGCAGGGGACAACCACGGGCGCA
+GGCTGCAGGACTCCTGTCGATTGCCTAGCCCAGCGGACAGCGAAGCTGCT
+TACCATGGAGCCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGA
+CTAGAGGGTTGGATGACTGCCTGCAGCCATATGTGCACAAGTTTGAGCGG
+GAGAAGATAGACGGGGAGCAGTTGCTGAAAATCTCCCACCAGGATCTCGA
+GGAACTGGGGGTCACACGGATCGGCCACCAAGAGCTGGTGTTGGAGGCTG
+TGGATCTTCTCTGTGCACTGAATTATGGCCTTGAAACTGATACTATGAAG
+AACTTGGTTCTGAAACTGCGGGCATCTTCCCACAACTTGCAGAATTACAT
+CAGTAGCCGCCGGAAGAGTCCAGCCTACGATGGGAATACGTCCCGTAAGC
+CCCCCAACGAGTTCCTGACTTCTGTGGTGGAACTCATTGGTGCTGCCAAG
+GCCCTGCTGGCTTGGCTGGACCGGGCTCCATTCACAGGGATCACAGATCT
+CTCTGTGACAAAGAACAAAATCATCCAACTGTGCCTGGACCTGACCACAG
+CAGTCCAGAAGGATTGCCTCATAGCAGAAATGGAGGATAAAGTTTTAAAT
+GTGGTCAAGGTTTTAAATGGCATCTGTGACAAAACAATGCGCTCTACTAC
+AGACCCTGTTATGAGCCAGTGTGCCTGCCTGGAGGAAGTTCACTTACCAA
+ATGTTAGACCCGGGGAAGGCCTGGGCATGTACATCAAGTCAACCTACGAC
+GGACTGCATGTGATTACTGGAACCACAGAAAATTCTCCTGCAGACAGATC
+TCAAAAGATTCACGCTGGCGATGAGGTCATTCAAGTCAATCGGCAGACAG
+TGGTTGGGTGGCAGTTGAAAAATCTGGTGAGAAAGTTGAGAGAGAACCCC
+ACGGGCGTGGTGCTGCTGCTGAAGAAGAGGCCCACGGGCTCCTTCAGCTT
+CACTCCGGCCCCACTGAAGAACCTGCGGTGGAAGCCACCGCTCGTGCAGA
+CCTCACCCCCGCCCACCACCACCCAGTCCCCAGAGAGTACCATGGATGCC
+TCCCTGAAGAAGGAGAAGCCAGCCATCCTGGATCTATACATCCCTCCCCC
+ACCTGCTGTCCCCTACTCTCCCCGGGATGAGAATGTGAGTTTCGGCTACA
+GAGGACACAGTAAGAGTAAGCAGCCGTTGCCTGTGCGCAAGGGTTCCGAG
+TCCCCTAACTCCTTCCTGGACCAGGAGAGCCAAAGACGCAGATTTACCAT
+TGCAGATTCCGATCAGCTGCCCGGGTATTCGGTGGAAACCAATGTTCTGC
+CCACAAAAATGAGAGGGAAGACACCATCCTACGGCAAACCCCGGCCTCTG
+TCCATGCCTGCCGATGGGAACTGGATGGGGATCGTGGACCCTTTTGCTAA
+ACCTCGAGGAAATGGGAGGAAAGGGGAAGATGCCCTCTGCCGGTACTTCA
+GCAATGAGCGGATCACACCCATCACTGAAGAAAGTGCCTCTCCTATGTAC
+CGGTTCTCTAGACCCCTGACTGAGCGGCACCTGGTCCGAGGTGCGGACTA
+CATCCGAGGGAGCAGGTGCTACATCAACTCCGACCTACACAGCAGTGCCA
+CCATTCCATTCCAGGAGGAAGGTTCCAAGAAGAAATCAGCCTCCTCATCG
+GCCAAGGCGTCCTCTGGGGAGCCGTCGCTGCTGGTCAGCTGGCTGACTCG
+CCTCAAGCTGTTGACTCACTGAGGTGGCTGCTCCACCAGCTTCCTGCCTG
+TCTCCTGCTAGCAAGTGCCTTCTTCCTCAGTGGACAGCTTCTTTAGACTC
+CTTCCACAGTGCTCCGTGGCAACTTTACTTCATTCCATTTTTTTTAAGGT
+TGTATACTGTTGTTCCTGGAGTGTTCAAGTCAACCAGAGGGCATCAAATC
+CAGTGGATCTTAGGTGCCATCTGTGGAGGCAGAAGGAAGGACAGACATGG
+CACAGCCTGCCTAGTTCTGCCGTCCCACTGTGGGAACATGGAGACATGCT
+CTTTAAAGTGTGGTGTTGGTCAGACAACTTAATGTCAGGAATTGGCAAAA
+TTGTTCACTTTTGTTTTCTTGGACAGCGGGGACTGAAATTGATGGGTTTT
+GTCGCATAGATAAAACCCATAGTCAGTTTGTGGTCCAACTTCTGCATCTG
+AAAAAGCCAAAGGAGAAAAGCCTTTGCTTTGATTTTTAAAGCTATAGAAC
+ATATTTATAAGTATGGCAGCGTCCGCCACAGAATGATGTGTGTGAGGCTC
+TTTGTAGCAGGGCTTTCTTTACCTACAGATCAGCTGTTACCCGCGCCCAG
+CCACCCCCCCACCCCCCTTTCAGTAACAGCCTCCATGTAGGTGAGCCAAT
+ACACAAATTCACGAGCACGCTTTGATGGAACTTAGCATATGCAAAGAAGT
+GTGTGCTTTTTGTGAATGGTGTTGCAGTTGTATATGGGAAAGGAGCTATA
+AGATTTGCTGACAGCCAAAGTGTATTGTTCAGGAAGCAGAAGCAACCAGA
+GTTAGAGTTATGAGGCATTGGTCAGTTTGCAGTGTTGATCTGTTTGATGT
+CTGTGTTCGAGGGGGGGGGGGGGAAACCTACAGTCCTTCCCAGGTGTACA
+CATTTTTGCTAATTAGAAATATCTTGGAAAGCCTCATCGTCACTGATTTT
+CAACTAGGATCAGGTATTTTGAAAATGTGTGTCTGCATATTAACTCTTGT
+TTAAAACTGAATGTACAATATTTTGCTAGAGTGGAAAAAGCCCTATCTTG
+TTAATTTAAGTGTTTTAAATAGAGTTGTATATTTTTCTTACTCTTAGTCA
+CACATAATTGAAATGTTTCTGTTTTGTGTCATATGTGAAACCCAAGGAAA
+AAGAGTATTCAACGTGGTTTCAGATTTACAAGTGACCCACTCCTGGCCGT
+TGGCAGTGTGGGCACTTATATTAAAGACGGAAATAAATTCTTCCAAGC
diff --git a/Tests/MAF/corrupt.idx b/Tests/MAF/corrupt.idx
new file mode 100644
index 0000000..c4f7247
Binary files /dev/null and b/Tests/MAF/corrupt.idx differ
diff --git a/Tests/MAF/humor.maf b/Tests/MAF/humor.maf
new file mode 100644
index 0000000..dca8df4
--- /dev/null
+++ b/Tests/MAF/humor.maf
@@ -0,0 +1,10 @@
+##maf version=1 scoring=zero
+a
+s NM_006987 0 5000 - 5000 gcacagcctttactccctgactgcgtttatattctgcctctcccgtgcctgttggtccttggggacGGCCCTCCGGCAGGTTCTGGCCTCAGGA--------CCCCGCACCAGCCCCGGCC-----GTGCCAGCTGCCCTCCCACTGGCCTGGCCCAGCTCTCCAGAGAGGCTTCATGCAGCCAGTTCCCCAGGGAACACCGTTGCCCACACGTTGCTAATGT-TAAAACATGAATTTATTGCATCTGTAGCATCTTACCTTGAGCACGGCTTCTTTCAATGCTTTTATTTTGCAATTATAG----GTTTATTTTCTTCCTT-----TCCTCTCTCTTGAGCTTTTTAAGGTGTTTTCTGTCACTCAGCTGGAGACTTTAAATTTCCTATTTATATTAATTATCAAATTA------TTTCATATATGA---GTCATTCAGCTCAGCCCTTTTTGGCTCCTTCTTGC [...]
+s mm3 0 3424 + 3424 ..................................................................GACCCCCCTGTACCCACTGGCCTAAGGAGCAACCCCACCCACAGCAGCTCTGGCCCTGTCATGCCAACCACTGTCCCACTGACCCAGACTACCCCTG-AGAAGGACATTGTACAGCTAAGTCACAGAGTAACACTGC----------------ATGTGTAACACAAGCGTGTGTT-----TGTAACAT---GCCTTCACCAAGGTTTCTTCTAATGCTTTTGTTTTGCAGTTCTAGCTGTTTTCATTTCCCTCCTTGGATCTTCTCTCTCTTGAACTTTTTAAAGTGTCATA-GTCTATAAGTTAGCAACTTCA--CTCCTTACGTGTATTAATTGTCAAATTACTTATTTTTTCTATGTGAATTGCTGTTTA------TCATCTTTGCCTCCTTTTTGC [...]
+s rn3 0 1951 + 1951 ..................................................................................................................................................................................................................................................................................................................................................GAGCTTTTTAAAGTGTCAGA-GC----AAGTTATCAACTTCA--TTCCCTATGAGTATTAATTATCAAATTACTTACGTTTCCTATATAAATTGCCATTTA------TCATCTTTGCCTCTTTCTTGC [...]
+
+a
+s NM_018289 0 5000 + 5000 tttgtccatgttggtcaggctggtctcgaactccccacctcaggtgatccacccacctcggcctcccagagtgctgggattacaggcgtgagccaccgtgcccagcctggaagttgttttttttGAGCCCAGCTCATTTGTGAAAATATCACGTGCTCCTTATTTTCATACCCAAATTTCTCATATCCATAAACTTCCACATTTTATTTCTGTCAGAAGTATACAATCTCTTTCTAGATTTCCACCTCCTGTCAAAGGTATTTCCTTCTTTTGTTTGACATAAATGAATCAATCTAGTCTGTTATTACTTA----AAGAAGTT--------TTTTAAAACCCA----------------------------------------------------------------GTGTGT----------------------------------------------------- [...]
+s mm3 0 3181 + 3181 ............................................................................................................................AAGCCCAGTTCATTTGTGAGACTATCACACGCTC---ATTTTCATAGACAAATTATTCTTCTCTATAAACTTCCCCCTTATATTTATCTTTAAAACATAACATCTGTTTTT----------CTCCAGCCAAAGTTATTTCCTG-TTTTGCTTATTATAAA-----CAGCTTGGCCTATTGTTGCTTATCCTAATGCATTAAAAAACTTTTAAAATTAca........................................................................................................................... [...]
+s rn3 0 3320 + 3320 ............................................................................................................................AAGCCCAGTTCATTTGTGAGACTATCACATGCTC---ATTTTCATATACAAATTATTCTTATCTGTAAATATCCACATTATATTTATCTTAAAAACATACCATCTGTTTTT----------CTCCAGCCAAAGGTATTTCCTG-TTTTGCTTATTATGAA-----CAGCTTGGCCTATTGTTACTTATCCTAATGCATT--------TCTAAAATTACATTTATTTATTTACTTATATTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGCTCCCTGAACTGCATATCAAGACCCTATTCAGTGGACTCGCAGGCAGTTAG [...]
diff --git a/Tests/MAF/invalid.idx b/Tests/MAF/invalid.idx
new file mode 100644
index 0000000..5755b01
--- /dev/null
+++ b/Tests/MAF/invalid.idx
@@ -0,0 +1 @@
+This is not even an SQLite file.
diff --git a/Tests/MAF/length_coords_mismatch.maf b/Tests/MAF/length_coords_mismatch.maf
new file mode 100644
index 0000000..e3164ed
--- /dev/null
+++ b/Tests/MAF/length_coords_mismatch.maf
@@ -0,0 +1,15 @@
+##maf version=1 scoring=autoMZ.v1
+a score=6441.000000
+s mm8.chr10 3009319 162 + 129993255 TCATAGGTATTTATTTTTAAATATGGTTTGCTTTATGGCTAGAACACACCGATTACTTAAAATAGGATTAACC--CCCATACACTTTAAAAATGATTAAACAACATTTCTGCTGCTCGCTCACATTCTTCATAGAAGATGACATAATGTATTTTCCTTTTGGTT
+s oryCun1.scaffold_133159 11087 164 + 13221 TCACAGATATTTACTATTAAATATGGTTTGTTATATGGTTACGGTTCATAGGTTACTTGGAATTGGATTAACCTTCTTATTCATTGCAGAATTGGTTACACTGTGTTCTTGACCTTTGCTTGTTTTCTCCATGGAAACTGATGTCAAATACTTTCCCTTTGGTT
+q oryCun1.scaffold_133159 99569899999998999999999999999999999999999999999999999999999999999999999757878999975999999999999999979999999999997899999999999997997999999869999996999988997997999999
+i oryCun1.scaffold_133159 N 0 N 0
+
+a score=0.000000
+s mm9.chr10 3013218 319 + 129993255 agccaggcgtggtggcacacacctttactcccagcatttggggggcagaggcaggtggatctgtgagtttgaggccagcctggtctacagagggagtctcaggacagccagagctacacagaaataacctgcctagaaaaacaaaacaaaacaaaacatcaaaactcaaaacaaaTAAAAAAAATAAAAAACCCAACCTAAACCAAATAACAAAACAAA
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e hg18.chr6 15861557 14 - 170899992 I
+e panTro2.chr6 16380105 14 - 173908612 I
+e ponAbe2.chr6 16161337 2 - 174210431 I
diff --git a/Tests/MAF/ucsc_mm9_chr10.maf b/Tests/MAF/ucsc_mm9_chr10.maf
new file mode 100644
index 0000000..921aabd
--- /dev/null
+++ b/Tests/MAF/ucsc_mm9_chr10.maf
@@ -0,0 +1,981 @@
+##maf version=1 scoring=autoMZ.v1
+a score=6441.000000
+s mm9.chr10 3009319 162 + 129993255 TCATAGGTATTTATTTTTAAATATGGTTTGCTTTATGGCTAGAACACACCGATTACTTAAAATAGGATTAACC--CCCATACACTTTAAAAATGATTAAACAACATTTCTGCTGCTCGCTCACATTCTTCATAGAAGATGACATAATGTATTTTCCTTTTGGTT
+s oryCun1.scaffold_133159 11087 164 + 13221 TCACAGATATTTACTATTAAATATGGTTTGTTATATGGTTACGGTTCATAGGTTACTTGGAATTGGATTAACCTTCTTATTCATTGCAGAATTGGTTACACTGTGTTCTTGACCTTTGCTTGTTTTCTCCATGGAAACTGATGTCAAATACTTTCCCTTTGGTT
+q oryCun1.scaffold_133159 99569899999998999999999999999999999999999999999999999999999999999999999757878999975999999999999999979999999999997899999999999997997999999869999996999988997997999999
+i oryCun1.scaffold_133159 N 0 N 0
+
+a score=103072.000000
+s mm9.chr10 3012076 365 + 129993255 AGTCTTTCCAATGGGACCTGTGAGTCCTAACTATGCCAGC-----ACTCCCAACAGCAAGACACTAAGTT---------CACTCATCCTTGGTGGATGGGATTTTGCTCCTGGAGTGTCAC-----CAAATTAAATAACCAGTGAGCAGAGTTG--TGACGAGCATCAGGCTCTGGATTTAGGTGAGAGACCTTAGTGTATGTCTCCTGTAGGTCGCAGCTCCCTATGGAT--------------------------GAGTCAAGTGAAGGTCCTGAGACAA-------------------CAAGTCCTC----GGCTATGTGGGGGTGAGGG-------------ATGC----AG--------CTGGAACCTCAGGGA-TCTCTGT-AAGCAGTGGCATAAATGCTTGGCGG--GAGAGAGCATGTTAGAGCTCACACGACATAGGAAGCC [...]
+s ponAbe2.chr6 16160203 443 - 174210431 AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTCCAGCCAAATCATCACAGTAAAAAGATGTTAATATTTATCTCCATACTCATCCTTACCAGATAGCCTTGTGCTCTTGGAATGTCGTACTTATGAAGTGAGCAAGCAGTATTTAGAATAGCATGAGATAGACCAGTCACCAA----AGGTTGTTGATTTCTAGGAATGTCTCATGCTGGTTGCATCTGTGTGTGAACTGGGAAGTTGAGATCGCTTTCCACAGAAATTAAGCAAAATCCTGGAGGTAAGTTGTGGA-----------TAGGGCTGCTGTAGACTCCCTGACAGCGTAGGAACT--------AGAACTCTGAAGCAAGCCACTGGTGCCTAACAAATTCTTTCTAAAGTTGTAGAGTGGATCTGTGGGGGCTGACGTGGCCTCCAACGCCTAACGTGGTTGAAAAGGCC [...]
+i ponAbe2.chr6 N 0 C 0
+s panTro2.chr6 16379004 443 - 173908612 AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTCCAGCTAAATCATCACAGTAAAAAGATGTTAATATTTATCTCCATACTCATCCTTACCAGATAGCCTTGTGCTCTTGGAATGTCGTATTTGTGAAGTGAGCAAGCAGTATGTAGAATAGCATGAGATAGACCAGTCACCAA----AGGTTGTTGATTTCTAGGAATGTCTCATGCTGGTTGCATCTGTGTGTGAACTGGGAAGTTGAGATCGCTTTCCACAGAAATTAAGCAAAATCCTGGAGGTAAGTTGTGGA-----------TAGGGATGCTGTAGACTCCCTGACAGCATAGGAACTAGAACTCTGAAGC----AAGCCA----CTGGTGCCTAACAAATTCTTTATAAAGTTGTAGAGTGGATCTGTGGGGGCTGACGTGGCCTCCAACGCCTAACATGGTTGAAAAGGCC [...]
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------9999999999999999999999999999999999999999999999999----999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i panTro2.chr6 N 0 C 0
+s hg18.chr6 15860456 443 - 170899992 AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTCCAGCTAAATCATCACAGTAAAAAGATGTTAATATTTATCTCCATACTCATCCTTACCAGATAGCCTTGTGCTCTTGGAATGTCGTATTTGTGAAGTGAGCAAGCAGTATGTAGAATAGCATGAGATAGACCAGTCACCAA----AGGTTGTTGATTTCTAGGAATGTCTCATGCTGGTTGCATCTGTGTGTGAACTGGGAAGTTGAGATCGCTTTCCACAGAAATTAAGCAAAATCCTGGAGGTAAGTTGTGGATAGGGATGCTGTAGACTCCCT---GACAGCATAGGAAC-TAGAACTCTGAAGC---AAGC----CA--------CTGGTGCCTAACAAATTCTTTATAAAGTTGTAGAGTGGATCCATGGGGGCTGACGTGGCCTCCAACGCCTAACATGGTTGAAAAGGCC [...]
+i hg18.chr6 N 0 C 0
+
+a score=49128.000000
+s mm9.chr10 3012441 125 + 129993255 TGGGTCCCCTTGGCACATCCAGATCTCCCCAGTTAACCTGTCCTGCTTAGACCACTTACCTGAATTG--AATTGGGAGGAGAGAAAGAAGCCAGTTTCCCAGAGAGGGAAAAGGAAAAGCTCGACAC
+s hg18.chr6 15860899 114 - 170899992 TGGGTTCCTCTAGAATAACCAAG--TCCTCACGTAACCTGGTGTGTATTGACCACCTCTCTTGACCGCTGATCTTGGGGAG----------CACCTTGCT-GAGGGCCAATGGAAAATGCTGGAAGC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16379447 114 - 173908612 TGGGTTCCTCTAGAATAACCAAG--TCCTCACGTAACCTGGTGTGTATTGACCACCTCTCTTGACCGCTGATCTTGGGGAG----------CACCTTGCT-GAGGGCCAATGGAAAATGCTGGAAGC
+q panTro2.chr6 99999999999999999999999--99999999999999999999999999999999999999999999999999999999----------999999999-99999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16160646 114 - 174210431 TGGGTTCCTCTAGAATAACCAAG--TCCTCACGTAACCTGGTCTATATTGACCACCTGTCTTGACTGTTGATCTTGGGGAG----------CACCTTGCT-GAGGGCCAATGGAAAATGCTGGAAGC
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 180525 101 - 359464 TGGGCCCCCCTGACCTGGCCAAG--TCCTCACTCACCCGGGTTTACACTGACCACC-------------AAACTTGGGGAG----------CCCTTTGCT-GAGGGGCAACAGCAAACACGGGAAGC
+q otoGar1.scaffold_334.1-359464 99999999999999999999999--9999999999999999999999999999999-------------999999999999----------999999999-99999979999999999999999999
+i otoGar1.scaffold_334.1-359464 N 0 C 0
+
+a score=117109.000000
+s mm9.chr10 3012566 262 + 129993255 --TGTGGGCTCCTCACTTTCCTG-TCTCAGGTGTGTCTGTGAGTTTCGGTGAGTGTCGTACAGGAAAGAGGGTGAAAACTCAGTCTGAGCTGTCATTCTTGCCAGCTATGTTGCTTTCCTGTCCTCTTTAGC-------TTATCTCAGGCAACCTATCTTATTTTGTT-TGCTTTC--AGAAGGCAAG---CGAtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtgtgtgtgcgtgCGCGCGCGCGAGCACATGTGCATGCATGCGCACTCGTG
+s hg18.chr6 15861013 199 - 170899992 CATGAGCCCTCCTTGTATCCCTGATCTTAGATGGGTCTATGGTTTTTGGTGGAAGCCATCCAG-AAACAGCCTCAAAATCCAGTCTGAGTTTTCATTCCTGTCAATCAATCCTCTTATTTTTTTCCTTCACTACC----TTATTTCTAGCAACACATCTTAC-TTATTCTGTTTTCCCAGAAGA-------TGAGTTGTGTATGAGTTTTGG------------------------------------------------------------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16379561 199 - 173908612 CATGAGCCCTCCTTGTATCCCTGATCTTAGATGGGTCTATGGTTTTTGGTGGAAGCCATCCAG-AAACAGCCTCAAAATCCAGTCTGAGTTTTCATTCCTGTCAATCAATCCTCTTATTTTTTTCCTTCACTACC----TTATTTCTAGCAACACATCTTAC-TTATTTTGTTTTCCCAGAAGA-------TGAGTTGTGTATGAGTTTTGG------------------------------------------------------------------
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999----99999999999999999999999-999999999999999999999-------999999999999999999999------------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16160760 199 - 174210431 CATGAGCCCTCCTTGTATCCCTGATCTTAGATGGGTCTATGGTTTTTGGTGGAAGCCATCCAG-AAACAGCCTCAAAATCCAGTCTGAGTTGTCATTCCTGTCAATCAATCCTCTTGTTTTTTTCCTTCATTACC----TTATTTCTAGCAACATATCTTAC-TTATTTTGTTTTCCCAGAAGA-------TGAGTTGTGTATGAGTTTTGG------------------------------------------------------------------
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 180626 204 - 359464 CACATGCACTCATCGTGTCTCTG-TCTTAGGCGTAGCCCTGGTTTCTGGGGAAAGCTGTCCAGAAAACCACCTGAAAACCCAGTCTCTGTGGTCATTGCTGGCAATCAGTCC-CTTATTTTTAGGTTGCCTTG------TTATTTCAGGTGACATAGCTTACTTTGTTTTGTTTTCCCAGAAGACAAGTGGTGACTTGTGTATGAGTTTTGA------------------------------------------------------------------
+q otoGar1.scaffold_334.1-359464 99999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999------9999999999999999999999999999999999999999999999999999999999999999999999999------------------------------------------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s cavPor2.scaffold_290371 310 205 - 39932 --TGCGTATCCCTTGCGATCCTGATCCGAGGTGTGGCTGTGGTTTTTGGTGAAAGCCATCCAGAAAAGAACTTCAAAACCTAGTCTAAATTGTTATTCCCTCCTGCCAATCCTCTTGTTTTTACCCCATAGTGACCTCGTTATTGCAA--AACATatcttattttgttctgttttcctggaagataaa---tgaattttgtgtgaGTTTGAG------------------------------------------------------------------
+q cavPor2.scaffold_290371 --99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999997999999999999999999999999999999999999999--99999999999999999999999999999999999999---999999999999999999999------------------------------------------------------------------
+i cavPor2.scaffold_290371 N 0 C 0
+
+a score=128047.000000
+s mm9.chr10 3012828 168 + 129993255 TTTGCATAGACTCTCTTGGCAACAAAATAACGTTATATTTAAACATCCATTAAAATAATGCACTTAGCACAGCCTGCCCTGAGGGAT----GAACACT--ATTGTTAA-AGAACTATTCCGCTAAGGCAGCAACCTCTGGATCTTCAGCATTCTGGCGCCATCTGCTGGTCATAT
+s cavPor2.scaffold_290371 515 166 - 39932 -----GTGGGATGTCTTGACAGCTAAATAGTcttatatttaagcatttatGAAAATAATGAGGTTATCATGGTTCGCTCTAGTAGCTCTGAGACCTTT--ATTGTCAGCAAAGCTGTTTAGC--AGGAGGCAACTTCAGGTTCCGTGGGATTCTAGTGCCATCTGCTGGTCATAT
+q cavPor2.scaffold_290371 -----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999--999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_290371 C 0 C 0
+s otoGar1.scaffold_334.1-359464 180830 161 - 359464 -----GTGGACATTCGTGACAGGCAAATAGTGTTCTATTTAAACATTTGTTGAAATGATAAACTTAGCTCAGCC--CCTT---AGAAGTG-AGAGGCT--ACTGTCAGGGAAGCGGTTTTGCG-GAGCAGCAGCCTCAGGATCTGTGGGATTTTAGCGCCATCTGCTGGTCACAG
+q otoGar1.scaffold_334.1-359464 -----999999999999999999999999999999999999999999999999999999999999999999999--9999---9999999-9999999--99999999999999999999989-996999999999999999999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s ponAbe2.chr6 16160959 161 - 174210431 -----GTGGACTATCCTGACAACCAAATAGCGTTATATTTAAACATTTATGAAAATAATAAGCTTAGCATAACCTGCCTTGACAGATGTG-GTATGC-------CTAGTGAAGTTGTTTAGCT-AAGGCTCAATCTCAGGATCTGTGGGACTCTAATGCCATCTGCTGGTCACAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16379760 161 - 173908612 -----GCGGACTATCTTGACAACCAAATAGCGTTATATTTAAACGTTTATGAAAATAATAAGCTTAGCATAACCTGCCTTGACAGATGTG-GTATGC-------CTAGTGAAGTTGCTTAGCT-ATGGCTCAATCTCAGGATCTGTGGGACTCTAATGCCATCTGCTGGTCACAC
+q panTro2.chr6 -----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999-------9999999999999999999-999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15861212 161 - 170899992 -----GTGGACTATCTTGACAACCAAATAGCGTTATATTTAAACGTTTGTGAAAATAATAAGCTTAGCATAACCTGCCTTGACAGATGTG-GTATGC-------CTAGTGAAGTTGCTTAGCT-ATGGCTCAATCTCAGGATCTGTGGGACTCTAATGCCATCTGCTGGTCACAC
+i hg18.chr6 C 0 C 0
+s echTel1.scaffold_288249 87492 169 + 100002 TTGGGGTGGATGCTCTTGGCAGTCACACAGTGCTCTATTTTAGGATTTACTAGAACAATGAGTTTGTCATAACT-GCCTCCTCCCAAGTG-GGAAGCTGAAGCACCAA-GTACTGACTCAGC--AGTCCCTGACCTCA-CATCCATGGAAATCTAGTGACATCTGCTGGACACAT
+q echTel1.scaffold_288249 99989999998979665899999999999676899897997899979878899999999999999999999999-999999999999999-99999999999999999-9999999999999--99999999999999-999999999999999999999999999999999999
+i echTel1.scaffold_288249 N 0 I 7564
+
+a score=98097.000000
+s mm9.chr10 3012996 222 + 129993255 AGATGTCTGCTGTGGAGA-------CCTGGCCAACTTTG----CTT--TCTTC-----AAAAAGGCAACAGAAGGTAATCAGTTGAATGCCCACCA-----TTAGGAAGGCGACCTCTAGTGCACAAACCTTGAC-ATTTTCCCTTTTAATGGAA-TTTAACAGAAGTTCAGGATGTTCTTTGGGTAATTTACAATT---A----GGGGGCAAAAATCAAAAGTATTTCGAGCATATCAAAACTGTTAGCTATG
+s cavPor2.scaffold_290371 681 177 - 39932 TGACGTCTGCAGCCACGG-------GCTGGCTAACTCCA--GTCTT--CCGCG-----CTAAAGCCGAC--------------------CACACCACATAGTGGGGAGAGTGACCTCTAGCGGAAAagctttgca-atttttttcttc----gAC-TCTGTCAG--GTTCAGAATTCCATTTAAACAATTTacagct---a----gaaaaggaaaagcagaggCATTT--------------------------
+q cavPor2.scaffold_290371 999999999999999999-------99999999999999--99999--99999-----99999999999--------------------9999999999999999999999999999999999999999999999-999999999999----999-99999999--9999999999999999997999999999995---6----99999999999336991774687--------------------------
+i cavPor2.scaffold_290371 C 0 N 0
+s hg18.chr6 15861373 184 - 170899992 TGATGGCTGCTGCCATCA---CTTTCTTGGCCTACTCTGCTGTCTT--ACTCT-----ATAAGACTAAC--------------------AGGACCCCATAGTTAGGAGAGCGACCTCTAGCGAGCAGGCCTTGGC-ATTTTTCTTTTTAATTGAA-TTCATAAA-GGCTTAGAATGCCATTTAGACAATTTGTAATG---GTGGGGGGAGGTAAGAGTAT----------------------------------
+i hg18.chr6 C 0 I 14
+s panTro2.chr6 16379921 184 - 173908612 TGATGGCTGCTGCCATCA---CTTTCTTGGCCTACTCTGCTGTCTT--ATTCT-----ATAAGACTAAC--------------------AGGACCCCATGGTTAGGAGAGCGACCTCTAGCGAGCAGGCCTTGGA-ATTTTTCTTTTTAATTAAA-TTCATAAA-GGCTTAGAATGCCATTTAGACAATTTGTAATG---GTGGGGGGAGGTAAGAGTAT----------------------------------
+q panTro2.chr6 999999999999999999---9999999999999999999999999--99999-----99999999999--------------------9999999999999999999999999999999999999999999999-9999999999999999999-99999999-99999999999999999999999999999999---99999999999999999999----------------------------------
+i panTro2.chr6 C 0 I 14
+s ponAbe2.chr6 16161120 217 - 174210431 TGATGGCTGCTGCCATCA---CTTTCTTGGCCTACTAGGCCGTCTT--ACTCT-----ATAAGACTAAC--------------------AGGACCCCATAGTTAGGAGAGCGACCTCTAGCGAGCAGGCCTTGGA-ATTTTTCTTTTTAATTGAA-TTCATAAA-GGCTTAGAATGCCATTTAGACAATTTGTAATG---GTGGGGGGAGGTAAGAGTATAAATATTGAATGTAT-TCAAACCTGTCAATGATG
+i ponAbe2.chr6 C 0 I 2
+s otoGar1.scaffold_334.1-359464 180991 226 - 359464 GGACGGCCGCCGCCACCACCGCTTTCCCTGCCAACTCCACCGTCTTAAATTCTGCAACAAAAGAAAAAT--------------------CGGACCCTGCAGTTACTAGAGCGACCTCTGGTGAACAAGCCTTGGATTTTTTTCTTTTTAATTGAATTTTACAAC-GGCTCAAAATGCAAGTTAGACAATTCATAGTGTATGTGTGGGGACCTGAGAGTGCAAATATTGCTGGCAT-TCAGCCTTGTTA------
+q otoGar1.scaffold_334.1-359464 999998999999999999999999999999999999999999999999999999999999999999999--------------------999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999699999999999999999999999999-999999999999------
+i otoGar1.scaffold_334.1-359464 C 0 I 2931
+s tupBel1.scaffold_114895.1-498454 167217 159 - 498454 TGATGGCTACAGCTGTCA---CTTTCTTGGACCACTCAGCTCTCTC--AAC-------GAAAGACAAAC--------------------TGGATCCTCCGG---GAGAGGAGACCTCTAGTGAGCAAACCTTGGA-ATTTTTCTTTAAAACAGAA-TTTATAAA-GGTTCA-AATGCCATTTAGACAACTTATAATT---A-----------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 234233433332122232---1582112220212134443324332--133-------23732111754--------------------365002326236---2411112335242535353245936522224-1376645373578253554-58324573-545454-8444565585455465799967999---9-----------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 N 0 I 4145
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=0.000000
+s mm9.chr10 3013218 219 + 129993255 agccaggcgtggtggcacacacctttactcccagcatttggggggcagaggcaggtggatctgtgagtttgaggccagcctggtctacagagggagtctcaggacagccagagctacacagaaataacctgcctagaaaaacaaaacaaaacaaaacatcaaaactcaaaacaaaTAAAAAAAATAAAAAACCCAACCTAAACCAAATAACAAAACACT
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e hg18.chr6 15861557 14 - 170899992 I
+e panTro2.chr6 16380105 14 - 173908612 I
+e ponAbe2.chr6 16161337 2 - 174210431 I
+
+a score=40604.000000
+s mm9.chr10 3013437 166 + 129993255 TCCAAAATGGTTAGCTATGCCCAACTCCTTTCACTCCAAGAAAATATCCTAACCATGTAAGAGAGCTAGCCTGTTGGTGGCAGCCAAGCCTGATGGTGGCAGACTAGATTGATGGTGCCAGACTACTTTATGGCTGTATCATTTTCCATTCATGTGTTGTGTTATA
+s panTro2.chr6 16380119 130 - 173908612 TTCAAACCTGTCAATGATGTTCAACTCTTTTCACTGTGGATAAAGATCTTCTAGATGCAATAGAATTAGATT------------------------------------TTGGCGATTACATCCTATTTTATGGGTGTATCGTTTTGCATTCATGGGCTGTTTGATA
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999999999------------------------------------9999999999999999999999999999999999999099999999999999999999
+i panTro2.chr6 I 14 I 9106
+s hg18.chr6 15861571 130 - 170899992 TTCAAACCTGTCAATGATGTTCAACTCTTTTCACTGTGGATAAAGATCTTCTAGATGCAATAGAATTAGATT------------------------------------TTGGCGATTACATCCTATTTTATGGGTGTATCGTTTTGCATTCATGGGCTGTTTGATA
+i hg18.chr6 I 14 I 9085
+s ponAbe2.chr6 16161339 109 - 174210431 ---------------------CAACTCTTTTCACTGTGGATAAAGATCTTCTAGATGCAATAGAATTAGATT------------------------------------TTGGCGATTACATCCTATTTTATGGGTGTATCGTTTTGCATTCATGGGCTGTTTGATA
+i ponAbe2.chr6 I 2 I 8044
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+
+a score=0.000000
+s mm9.chr10 3013603 1041 + 129993255 CCTTCTTAAGAACACTAGACTCAggactggggagatggctcagcagttaagaatcggtgctgttaagagtgggagacaagtttggttcccagctcccacattggtcagctcacagccacccgtaactctaagatggtacacacctttaatcccaggagacagaggcaatcagatctgagttcaagattcagcctgagacagagcatgttccaaattcaggcatggtgggtcatacctttaatatgggacataccttctgctggaggcctacctaaggacaacggagaaaggaagtattcgttcttctcctgcttgcacttacttgccagcgcatctactggaacccacttcttcaggattccagcttatacaggagaccagctgaaatatccagcctctcgggactgaacaagtactagagtctcagactt [...]
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e hg18.chr6 15861701 9085 - 170899992 I
+e panTro2.chr6 16380249 9106 - 173908612 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=19159.000000
+s mm9.chr10 3014644 45 + 129993255 CCTGTACC---CTTTGGTGAGAATTTTTGTTTCAGTGTTAAAAGTTTG
+s hg18.chr6 15870786 46 - 170899992 CCTATACCTTTCTTTTATGAGAA-TTTTGTTTTAATCCTAAAC-TTTT
+i hg18.chr6 I 9085 C 0
+s panTro2.chr6 16389355 46 - 173908612 CCTATACCTTTCTTTTATGAGAA-TTTTGTTTTAATCCTAAAC-TTTT
+q panTro2.chr6 99999999999999999999999-9999999999999999999-9999
+i panTro2.chr6 I 9106 C 0
+s calJac1.Contig6394 6182 46 + 133105 CCTATACCTTTCTTTCATGAGAA-TTTTGTTTGAATCCTAAAC-TTTT
+i calJac1.Contig6394 N 0 C 0
+s loxAfr1.scaffold_75566 1167 34 - 10574 ------------TTTGGTTAGAA-TTATGCTTTAATTCAAAAC-TTCC
+q loxAfr1.scaffold_75566 ------------99999699899-9999999999999869998-9997
+i loxAfr1.scaffold_75566 N 0 C 0
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=40840.000000
+s mm9.chr10 3014689 53 + 129993255 GGGAGCATAAAACTCTAAATCTGCTAAATGTCTTGTCCCT-TTGGAAAGAGTTG
+s hg18.chr6 15870832 53 - 170899992 GGGATCATAAACCATTTAATCTGTGAAATATCTAATCTTT-TGGGAAATAGTGG
+i hg18.chr6 C 0 I 401
+s panTro2.chr6 16389401 53 - 173908612 GGGATCATAAACCATTTAATCTGTGAAATATCTAATCTTT-TGGGAAATAGTGG
+q panTro2.chr6 9999999999999999999999999999999999999999-9999999999999
+i panTro2.chr6 C 0 I 400
+s calJac1.Contig6394 6228 53 + 133105 GGGATCATAAGCCATTTAATCTGTGAAATGTGAAATCTTT-TGGGAAACAGTGG
+i calJac1.Contig6394 C 0 I 2
+s otoGar1.scaffold_334.1-359464 184148 52 - 359464 GGAAGCATAAACT-TTTAATCTATGAAATATCAAATCACT-TGGGCAATAGCTG
+q otoGar1.scaffold_334.1-359464 7455455669566-99665699769895555689997599-9984787795599
+i otoGar1.scaffold_334.1-359464 I 2931 I 2
+s loxAfr1.scaffold_75566 1201 54 - 10574 GGGAGTATAAACCATTTAGTCTGCGAAATGCCAAATCTTCAGGGGAAAAAGCTG
+q loxAfr1.scaffold_75566 899989799999979999999999999999797999999999999999999999
+i loxAfr1.scaffold_75566 C 0 I 2
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=411.000000
+s mm9.chr10 3014742 36 + 129993255 AAGTTCCCTCCATAATTCCTTCCTCCCACCCCCACA
+s calJac1.Contig6394 6283 28 + 133105 AAATGTA-----TGATCTCCCCATCCTGCCCTG---
+i calJac1.Contig6394 I 2 I 54
+s otoGar1.scaffold_334.1-359464 184202 31 - 359464 AGATTTC-----TGATGCCCTCACCCCCTCCGTGCA
+q otoGar1.scaffold_334.1-359464 9996999-----965974999999999999999999
+i otoGar1.scaffold_334.1-359464 I 2 I 24
+s loxAfr1.scaffold_75566 1257 27 - 10574 AGGCTTA-----TG----CCACCCCCCACCCCCACA
+q loxAfr1.scaffold_75566 9999999-----99----997999999999999999
+i loxAfr1.scaffold_75566 I 2 I 25
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e hg18.chr6 15870885 401 - 170899992 I
+e panTro2.chr6 16389454 400 - 173908612 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3014778 17 + 129993255 TCCCATGTCCACCCTGA
+e loxAfr1.scaffold_75566 1284 25 - 10574 I
+e calJac1.Contig6394 6311 54 + 133105 I
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 184233 24 - 359464 I
+e hg18.chr6 15870885 401 - 170899992 I
+e panTro2.chr6 16389454 400 - 173908612 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=-12243.000000
+s mm9.chr10 3014795 47 + 129993255 GTTTCAGGGGCAGCTCGCTG----------------TTAGCAG-CTAAGGCATGGTGTCTCTCA
+s otoGar1.scaffold_334.1-359464 184257 60 - 359464 ---TCGGGAACAAGTTGCAGTCATGGATAT-TTGGTTTAGATGGTTTAGGTGGGGTGTATTTCT
+q otoGar1.scaffold_334.1-359464 ---899999999999999999999999999-999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 24 C 0
+s calJac1.Contig6394 6365 39 + 133105 -------------------GCCATGAATAT-----TTTAGAC-ATGCAGGTGTGGCGTGTTTCT
+i calJac1.Contig6394 I 54 C 0
+s hg18.chr6 15871286 20 - 170899992 --------------------------------------------aGCAGGTGTGGCATGTTTCT
+i hg18.chr6 I 401 C 0
+s panTro2.chr6 16389854 20 - 173908612 --------------------------------------------aGCAGGTGTGGCATGTTTCT
+q panTro2.chr6 --------------------------------------------99999999999999999999
+i panTro2.chr6 I 400 C 0
+s ponAbe2.chr6 16169492 20 - 174210431 --------------------------------------------aGCAGGTGTGGCATGTTTCT
+i ponAbe2.chr6 I 8044 C 0
+s tupBel1.scaffold_114895.1-498454 171521 27 - 498454 ------------------------------------TTAGAAA-TGTGGGTGTGGCGCATCGCT
+q tupBel1.scaffold_114895.1-498454 ------------------------------------9999999-99999989998899999699
+i tupBel1.scaffold_114895.1-498454 I 4145 C 0
+s cavPor2.scaffold_216473 7816 26 - 10026 ------------------------------------TTAGAAA-TTTAGGTGTGGCATGGTTC-
+q cavPor2.scaffold_216473 ------------------------------------4255831-1324566557465575854-
+i cavPor2.scaffold_216473 N 0 C 0
+s loxAfr1.scaffold_75566 1309 62 - 10574 GTT-TGAGAGCAAGTTTAGGACATCAATACGTTGTTTCAGAAA-TTGAGGTTTGCTGTATCTCt
+q loxAfr1.scaffold_75566 999-999999999999999999999999999999999999999-99999999999999999999
+i loxAfr1.scaffold_75566 I 25 C 0
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=320596.000000
+s mm9.chr10 3014842 186 + 129993255 C--TTGGGA---------TGCTTTATAGTGGAAATGGAAAGCA----A-TTTATTTAGATCTTAAATCATTTT-GAAGGTTAATAAAATGACCATATTAATATTCCCATGAACAAAGCCTTCATTT----TTAAAATATTGCATCCTATAATACACATAA-ATCTTGT-----TCTCGtttttatttttt----tatt-tat-----------------------ttattttttttt------------cttt
+s loxAfr1.scaffold_75566 1371 245 - 10574 tatttttgatttttttttttttttaaaGCTGAAGTGAAAGTCACACTG-TTTCTTTTGGCCATAAATCCCTTT-GAAGTATAATGAAATTTTCACTTTAATATTCCTGTGAACAATACCCTCATTT-AAAAAAAAAAATTGGGTTTTATACCACACACAGCATCTTTTCAAAATCTCATTCCC-TTTTTAAGCAGGTG-TCT---TAGCAAGTTCACTCTCTCTCTCTTTTTTCATTGACTTTGGCCAAATCT
+q loxAfr1.scaffold_75566 999999999999999999999999999999999999999999999999-999999999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999-99999999999999-999---999999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_75566 C 0 C 0
+s cavPor2.scaffold_216473 7842 198 - 10026 ---TTTGGA---------TA-TTCACAGTTGGAATGAAAGGCACCCTG-TTTCTTTAGGACTTAAATCCTTTT-GAAGTATAATAAAATGATCACATTAATATTCCTACTAACAATGCCCTCATTT----AAAAAAGTTTGGATTTTGTACCACATACAGCATATTTCCAACATCTCATTTCCTTCTTCTGGCAGGTT-TAt-----------------------tagtctctcttt------------ctct
+q cavPor2.scaffold_216473 ---610137---------77-200195531236266876425368858-778987956887868956898956-8988778987788768588885664786777656586678636299978766----89979789936989956687867689995888978886997659897789899998996778899997-989-----------------------998799999777------------9899
+i cavPor2.scaffold_216473 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 171548 215 - 498454 CCTTTTGGA---------TTTTTTACAGCTGAAATAAAAAGCACACTG-TGTCTGTAGGTCTTAAATCCTTTT-GAAGTATAATAAAATGATCACTTTACTATTCCTGTGAACAATGCCCTCATTT---TACAAAATCTGGGATTTTATACCACGTACAGCATATTTCCAAAATCTCATTTCC-TTTTTTGGCAGGTT-TAT---TAGCAAGTTCCCT-------TTTTGTCTATTG------------ACTT
+q tupBel1.scaffold_114895.1-498454 989999999---------899999998999999999999999999999-999999999999999999999999-9999998999999999999999999999999999899999999999999999---998899999999973999999998999999999999999979999999999999-99999997699849-999---9999999999999-------999999999999------------9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s ponAbe2.chr6 16169512 219 - 174210431 CCTTTTGGA---------CTTTTTATAGCTGAAATGGAAGGCACACTG-TTTCTTTAGGTCTTAAATACTTTT-GAAGTATAATAAAACGATCACTTTAATACTCCTGTGAGCAATGTCCTCTTTT---AAAAAAATCCTGGATTTTATACCACATGCAGCATATTTCTGAAATCTCATTTCC-TTTCTTGGCAGGTT-TATTTATAGCAAGTTATCTC------TCTCTCTTATTT------------ACTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16389874 168 - 173908612 CCTTTTGGA---------CTTTTTATAGCTGAAATGGAAGGCACAATA-TTTCTTTAGGTCTTAAATACTTTT-GAAGTATAAAAAAATGATCACTTTAATACTCCTGTGAACAATGCCCTCTTTTT--AAAAAAATCCTGGATTTTATACCACATGCAGCATATTTCTGAAATCCCATTT------------------------------------------------------------------------
+q panTro2.chr6 999999999---------999999999999999999999999999999-999999999999999999999999-99999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999------------------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15871306 169 - 170899992 CCTTTTGGA---------CTTTTTATAGCTGAAATGGAAGGCACAATA-TTTCTTTAGGTCTTAAATACTTTT-GAAGTATAAAAAAATGATCACTTTAATACTCCTGTGAACAATGCCCTCTTTTT-AAAAAAAATCCTGGATTTTATACCACATGCAGCATATTTCTGAAATCTCATTT------------------------------------------------------------------------
+i hg18.chr6 C 0 C 0
+s calJac1.Contig6394 6404 223 + 133105 TCTTTTGTA--------TTTTTTTATAGCTGAAAAGGAAGGCACACTG-TCTCTTTAGGTCTTAAATACGTTT-GAAGCATAATAAAATGATCACTTTCATACTCCTGTGAATAATGCCCTCCTTTTAAAAAGAAATCTTGGATTTTATATCACACGCAGCATATTTCTGAAATCTCATTTCC-TTTCCTGGCAGGTT-TATTAATAGCAAGTTCTCTC------TCTTATTTATTT------------ATTT
+i calJac1.Contig6394 C 0 C 0
+s otoGar1.scaffold_334.1-359464 184317 222 - 359464 TATTTTGGG--------CTTTTTTATGGGTGAAATGAAAGGCACACTG-TTTTTTTAGGACTTAAATCCTTTT-GAAGTATAATAAAACGATTACTTTACTGTTCCTGTGAACAATGCCCTCATTT---AAAAAAATCTTGGATTTTATACCAGATCCAGCATATTTCCAAAATCTCATTT-C-CTTTTTGGCGGGTT-TGT---TAGCAAGTTCTCTCCGGCTTTCTTCTTCTTTT------------TCTC
+q otoGar1.scaffold_334.1-359464 999999999--------9999999999999999999999997999999-999999999999999999999999-9999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999-9-99999999999999-999---99999999999999999999999999999999------------9999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s ornAna1.chr2 14750994 201 - 54797317 --CCTTGGA---------AATGTTACTGCAAAAGTGAAAGGCTCATTGTTTTCTTTCTATCTTAAGCCTTTTTAAAAGTGTATTGTAATTATGATCTTCATTTCCCCGCTAACAAAGCCCTCATTA----AAATATCTTTGTATTTTA-ACGACATACAGCCCATTTCCAAAATCTTAGTTCC-TTTTTGGGTGCATTGTAT---TAAC----------------CGTTCTCTCTTT----------------
+i ornAna1.chr2 N 0 I 5690
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=-36127.000000
+s mm9.chr10 3015028 58 + 129993255 ccatttt----------ttattaggtatttagctcatttacatttccaatgctatac----caaaagtcccc
+s loxAfr1.scaffold_75566 1616 33 - 10574 TCACTTCTA---------------------------------------CCTCCATTCCTTACAAAAGTTCTC
+q loxAfr1.scaffold_75566 999999999---------------------------------------999999999999999999999999
+i loxAfr1.scaffold_75566 C 0 N 0
+s cavPor2.scaffold_216473 8040 8 - 10026 ctgtgtc----------t------------------------------------------------------
+q cavPor2.scaffold_216473 6788989----------9------------------------------------------------------
+i cavPor2.scaffold_216473 C 0 I 1372
+s tupBel1.scaffold_114895.1-498454 171763 1 - 498454 T-----------------------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 9-----------------------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 2374
+s ponAbe2.chr6 16169731 12 - 174210431 TTTTGCCTTTTC------------------------------------------------------------
+i ponAbe2.chr6 C 0 I 75
+s calJac1.Contig6394 6627 22 + 133105 TGCTTTTTCTCAAATCTCCACT--------------------------------------------------
+i calJac1.Contig6394 C 0 I 3479
+s otoGar1.scaffold_334.1-359464 184539 36 - 359464 TTTTTTCTATT------------GACTTTTGCCAAATATTCACTTCCA------------------------
+q otoGar1.scaffold_334.1-359464 99999999999------------9999999999999999999999999------------------------
+i otoGar1.scaffold_334.1-359464 C 0 I 137
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e hg18.chr6 15871475 0 - 170899992 C
+e panTro2.chr6 16390042 0 - 173908612 C
+
+a score=0.000000
+s mm9.chr10 3015086 2572 + 129993255 catacccacccacccccactcccctacccgcccactccccctttttggccctggcgttcccctgttctggggcatataaagtttgtgtgtccaatgggcctctctttccagtgatggccgactaggccatcttttgatacatatgcagctagagtcaagagctccggggtactggttagttcataatgttgatccacctatagggttgcagatccctttagctccttgggtactttctctagctcccccattgggagccctgtgatccatccattagctgactgtgggcatccacttctgtgtttgctaggccccggcatagtctcacaagagacagctacatctgggtcctttcgataagatcttgctagtgtatgcaatggtgtcagcgtttggatgctgattatggggtagatccctggataaggcag [...]
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e hg18.chr6 15871475 0 - 170899992 C
+e panTro2.chr6 16390042 0 - 173908612 C
+e ponAbe2.chr6 16169743 75 - 174210431 I
+
+a score=12170.000000
+s mm9.chr10 3017658 85 + 129993255 TTTTTATTTGCAGGTTTCTTTAC----AGTTCTCTTTCATTCTTCTCCTCTTTTCTTCTGTTGACCTTTATCAGATTTCTGCTTTAACC
+s hg18.chr6 15871475 83 - 170899992 CCTTTCTTGGCAGGGTTATTTATAGCAAGTTATCTCTCTCTCTTA------TTTATTTTTTTGCCTTTTCCCAAATCTCCACTTCCACC
+i hg18.chr6 C 0 I 53
+s panTro2.chr6 16390042 83 - 173908612 CCTTTCTTGGCAGGGTTATTTATAGCAAGTTATCTCTCTCTCTTA------TTTATTTTTTTGCCTTTTCCCAAATCTCCACTTCCACC
+q panTro2.chr6 999999999999999999999999999999999999999999999------99999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 53
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e ponAbe2.chr6 16169743 75 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3017743 418 + 129993255 ACCACAGACCTTCTGTTTAGTCCAAAGGACGCAAATTATGTATCCACTTtagtaggaggctgacccgcagcctacatgaaccaggtatttctggaaggcaggctggggttgaaagagaaattagatggtgagaaaagaataatgaggccaagacaaatttttctcttatcaaggcccaagagagtttactaagagactatgcttaaaagggggaaggcccatcccccccccccctcgcgccagtctatccttggtgctttgtcaccatgccatcagcacttggtcggcaggtagcagaatctcagggcagttgacacttcaaaagaaaccagccaagtcagaaagctgcactgcaggagacctgcactcagtggtgacaaggtctgtaccagcctgcttcaggctgggggaggctaca
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e hg18.chr6 15871558 53 - 170899992 I
+e panTro2.chr6 16390125 53 - 173908612 I
+e ponAbe2.chr6 16169743 75 - 174210431 I
+
+a score=22499.000000
+s mm9.chr10 3018161 69 + 129993255 ATCCACAAAAGAGAC-----AAAGAAGAAAACCAAAAGAAAAGATTGTAGCTTAAAACAATTCCATTTTATTGA
+s panTro2.chr6 16390178 65 - 173908612 ACCTACAAAGG---------AAAACAATTAACCATAAGAAAAGTTTGTACCATAAAACAATTTTATTTTATTGA
+q panTro2.chr6 99999999999---------999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 53 C 0
+s hg18.chr6 15871611 65 - 170899992 ACCTACAAAGG---------AAAACAATTAACCACAAGAAAAGTTTGTACCATAAAACAATTTTATTTTATTGA
+i hg18.chr6 I 53 C 0
+s ponAbe2.chr6 16169818 61 - 174210431 -------------ACAAAGGAAAACAATTAACCATAAGAAAAGTTTGTACCATAAAACAATTTTATTTTATTGA
+i ponAbe2.chr6 I 75 I 97
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+
+a score=4781.000000
+s mm9.chr10 3018230 129 + 129993255 AGGA-CAAAATAATACAGAtttttttttttttttttttttGCAGTACTGGAAATGGAATGAATGTCCCTCACAATCACTATCAAGGTCCCTATCAAGGCAATCACTCTGTCACCGAGCTA-CAGCCCCAGC
+s hg18.chr6 15871676 95 - 170899992 ATAATCCAATCAATATATAT---------------------CAGAACCTGGCTCCCAATG-----TTCTGATAGTCATTATGAA----------AAAGAATTTACACATATATAGATTTATTAGGTATATG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16390243 95 - 173908612 ATAATCCAATCAATATATAT---------------------CAGAACCTGGCTCCCAATG-----TTCTGATAGTCATTGTGAA----------AAAGAatttacacatatatagatttattaggtatatg
+q panTro2.chr6 99999999999999999999---------------------9999999999999999999-----9999999999999999999----------9999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e ponAbe2.chr6 16169879 97 - 174210431 I
+
+a score=61520.000000
+s mm9.chr10 3018359 123 + 129993255 TT-CAAACATGCATACATGCATTCATGTCTCATAA-TAATTATTAACA-TTGTCTTAGGCCAGAGGCTCGACTGCCCCAAAGCAATCCACT-------TAAACTGTCCCTGAGAA-AGTCAttcctctccctaa
+s panTro2.chr6 16390338 131 - 173908612 -tataaatgtacaaatatatgtgtatgtCTCATAAATAATTATTAACAGTCATCTTAGGTCAGTGGCCTGAGTGATACAAACTAAGCCATCCATATTTTATATTCTCTCCGGGAAGGGTCATCCTTTTCTTT--
+q panTro2.chr6 -99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 C 0 I 2400
+s hg18.chr6 15871771 131 - 170899992 -TATAAACGTACAAATATATGTGTATGTCTCATAAATAATTATTAACAGTCATCTTAGGTCAGTGGCCTGAATGATACAAACTAAGCCATCCATATTTTATATTCTCTCCGGGAAGGGTCATCCTTTTCTTT--
+i hg18.chr6 C 0 I 2402
+s otoGar1.scaffold_334.1-359464 184712 127 - 359464 TT-TATACATGTATGTGTAAATGTAGGTCCTGTAAGTAATTATTAACATTTGTCTTAGGTTAGAGGCCCGAGTGACACAAGCTAACCCATCC------TATCCTCCCTGTGTGAAGGGTCATCCTTTCTTCTGA
+q otoGar1.scaffold_334.1-359464 99-99999999999999999999999999999999999999999999999999667736999999999999999999999999999995666------677755798899998999967967999999999589
+i otoGar1.scaffold_334.1-359464 I 137 I 2731
+s ponAbe2.chr6 16169976 129 - 174210431 ---taaatgtacaaatatatgtgtatgtgtcataaataATTATTAACAGTCATCTTAGGTCAGTGGCCTGAGTGATAGAAACTAAGCCATCCATATTTTATATTCTCTCTGGGAAGGGTCATCCTTTTCTTT--
+i ponAbe2.chr6 I 97 I 2523
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+
+a score=0.000000
+s mm9.chr10 3018482 162 + 129993255 tcttcatctcctcttttcctccttttttttttctcatttctctttctctttcttttgtccttttccttTATAGCAAGCAAGGCAAGTAGTCTCTATTTAGAAGGCATggagagaatggggagaggaggaaaggaggagaggggaggagaggaggggagGTAT
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=1520.000000
+s mm9.chr10 3018644 178 + 129993255 AGGGTAGGCCAAGTGCCTTGGGAAGTAGTTGTTGGTAGACTGAAAGTGTGTTC---TGAGTGTCAGTGATGTTCA-TGAGATTATCACCAGCAAGGATG--GCTGACGGGAACTG---CAAGAGGCATAGCCCTGAGTTCTAAAGGAGAGGGAAACGTCACAGAAAGGATG--------------------------CACTGTTTCAGCATCT
+s canFam2.chr1 78070420 204 - 125616256 AGAAAAGGCAAATGCCCCTGGGAGGGA-----TAGCACATTGA--GTTTATTCACATGCGTGTAAGTGATGGATACTGAGATCCTCTCC--TAAGGATGCGGTTGATGGAATCAGAAGCAAATACCACCAGCCAGAACTCTAAAATGAGAGGAAAGATCATGGATAGAATAGAATTGTAATATGAAATATAAAATTTCCCTATTGAAGAATTT
+q canFam2.chr1 999999999999999999999999999-----99999999999--99999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 N 0 I 160
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=1986.000000
+s mm9.chr10 3018822 110 + 129993255 CTGCCTTCCATTACGATTTACTGATCACTTACAACCCTCCCACA----GAAGAGAACCTAACTTG-CTTAGGAGCATATGTACAGTTAATCAAGAC-----AAAAATAAGAATGGAGACt
+s canFam2.chr1 78070784 119 - 125616256 CTTTTTTTCCCTGCCCATTATTACTCACTTAAAATTCTCC-ACATTGTAAAGGGAATTCAAATCGACTTCTAGAGATGCACACAATTTAGCAAGATCAACTAAAAATAAGTATGGAAAAT
+q canFam2.chr1 9999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 160 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3018932 339 + 129993255 gtctgagttagggttttactgctgtgaacagacaccatgaccaaggcatgtcttataaaaaaaatttaattagggctggcttacagattcagaggttcagtgggagcatcaaggtgggggcatggcagcatccaggcaggcatggtgcaggcagagctgagagttctacatcttcatccaaaggcttctagtggaagactgacttccaggcacctagggtgagggtcttaagcccacacccacagtgacacacctattccaaccaggtcacacctattccaacaaggccatacctccaaatggcaccactcctggtccaagaatatacaaaccatgaca
+e canFam2.chr1 78070903 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=228.000000
+s mm9.chr10 3019271 106 + 129993255 GAGACCAAATG------------TGGCGCTCACG-TGAGGCCAGGAGTAAATCGCACACACAGCCCATGCTTTCACCATCTGCTAGGGTGCTCTGGAGCAGGGCAGGCTTCTAACCTGG
+s canFam2.chr1 78070903 106 - 125616256 GAGGC-AAATGGAAAATGCCCCACGATGTCCAGGCTGTGTCCATGTGTGA--CGCACATGCTGTCC----------CACCTGCTTCTATTCACTTGACACACATAGGTCCCAAACCTGG
+q canFam2.chr1 99999-99999999999999999999999999999999999999999999--99999999999999----------9999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=10938.000000
+s mm9.chr10 3019377 88 + 129993255 CCCCAGCATTCTGGCAGACACAGTG-AAAAGAGACAGATGGTCACTAATAAAATCTGT-ATAAATTAG-ATCTCAGAGGATGGATGGACCA
+s felCat3.scaffold_205680 72509 88 - 119354 CCCAAGTGTTCTGATAGCTAATGTGAAAAAGAAGCATGTGCCCACCAGTAAGCTTTGTGGTGAACTAGAATCTCAGAGGATG---GGACTC
+q felCat3.scaffold_205680 9999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999
+i felCat3.scaffold_205680 N 0 C 0
+s canFam2.chr1 78071009 88 - 125616256 CCCAAGTGTTCTGATTGCCTCTGTGAAAAAGAAACATGGGCCCGCTAATAagatttgcaatgacctagaatctcagaggatg---ggactc
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999
+i canFam2.chr1 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=36924.000000
+s mm9.chr10 3019465 47 + 129993255 AAGATAGATATTTAGAAGTAGCTTTTTATGTTTTTCTGATGTGTGTT
+s calJac1.Contig6394 10128 47 + 133105 aacaTCTATATTTTGAAATGGCTTTTCATGTTACTCTGATGTGTGTC
+i calJac1.Contig6394 I 3479 C 0
+s panTro2.chr6 16392869 40 - 173908612 -------atattttgaaatggcttttcatgttattctgatgTGTTTT
+q panTro2.chr6 -------9999999999999999999999999999999999999999
+i panTro2.chr6 I 2400 C 0
+s hg18.chr6 15874304 40 - 170899992 -------atattttgaaatggcttttcatgttattctgatgTGTTTT
+i hg18.chr6 I 2402 C 0
+s canFam2.chr1 78071097 44 - 125616256 ---aggtatatttaaaaatagctcttcatgttgttctaatgtgtgtt
+q canFam2.chr1 ---99999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 72597 43 - 119354 ---ACGTGTTTTTAAAAATAG-TTTTCATGTTGTTCTGATGTGTGTT
+q felCat3.scaffold_205680 ---999999999999999999-9999999999999999999999999
+i felCat3.scaffold_205680 C 0 I 193
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=20303.000000
+s mm9.chr10 3019512 92 + 129993255 TGCATCATTAAGACTAGAGTTCCT---------------TTCTGTCTT---TGCTTTCTTG--------ACAGGGCCATGCTCGGCAGTCATTCTTAGACTGCTTTTTGTTTgtttgg
+s calJac1.Contig6394 10175 86 + 133105 --CCTCATGAAGGCCCAAGTTCCTAAA-----ACATTAATTCTCTTCC---TATTTCCTAGCTGTCTCGCCTAGGCCTTGCCCGCCAGCAATTCCC----------------------
+i calJac1.Contig6394 C 0 C 0
+s panTro2.chr6 16392909 93 - 173908612 --CTTCATTAAGGCCCAAGTTCCTAAA-----ACATTCATTCTCTTCC---TCTTTTCTAG------AAAAGAGGTCTTGCCCGCCAGCAATTCCCACATGGGTATTGG---------
+q panTro2.chr6 --9999999999999999999999999-----9999999999999999---9999999999------999999999999999999999999999999999999999999---------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15874344 93 - 170899992 --CTTCATTAAGGCCCAAGTTCCTAAA-----ACATTCATTCTCTTCC---TCTTTTCTAG------AAAAGAGGTCTTGCCCGCCAGCAATTCCCACATGGGTATTGG---------
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78071141 97 - 125616256 --CCTCATCTAAACCCAGGTTCTTACAGGCTTATATTTTTTCTTTCTTCAACCCTTCCTCA--------TCAGTGTCTTGCCTGCCAGTCATTCCTAC-----------TTTGTTCGG
+q canFam2.chr1 --99999999999999999999999999999999999999999999999999999999999--------99999999999999999999999999999-----------999999999
+i canFam2.chr1 C 0 C 0
+e felCat3.scaffold_205680 72640 193 - 119354 I
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3019604 98 + 129993255 tttggtttggtttggttttttcaagacagggtttctttgtatagtcctagctgtcctggaactcactttgtagaccagactggccttgaactcagaaa
+e felCat3.scaffold_205680 72640 193 - 119354 I
+e canFam2.chr1 78071238 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10261 0 + 133105 C
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15874437 0 - 170899992 C
+e panTro2.chr6 16393002 0 - 173908612 C
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=45.000000
+s mm9.chr10 3019702 42 + 129993255 tctgcctgcctctgcctcccaag--------------------------------tcctgggattaaaggcgtg
+s felCat3.scaffold_205680 72833 74 - 119354 tctgtctctctctctctctcaaaaataaacattaaaaaaaaCCAAACAAACAAACTCAAGTTCTTAAAGGTTTA
+q felCat3.scaffold_205680 99999999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 I 193 C 0
+e canFam2.chr1 78071238 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10261 0 + 133105 C
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15874437 0 - 170899992 C
+e panTro2.chr6 16393002 0 - 173908612 C
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=-16865.000000
+s mm9.chr10 3019744 33 + 129993255 -----------------cgccaccactgccctgcCT------------TAAACTGCTCTTAA
+s ponAbe2.chr6 16172628 27 - 174210431 -----------------CGCCAGCAATTCC------------------CACATGGGTATTGG
+i ponAbe2.chr6 I 2523 C 0
+s tupBel1.scaffold_114895.1-498454 174138 4 - 498454 ----------------------------------------------------------TTGA
+q tupBel1.scaffold_114895.1-498454 ----------------------------------------------------------9999
+i tupBel1.scaffold_114895.1-498454 I 2374 C 0
+s calJac1.Contig6394 10261 13 + 133105 -------------------------------------------------ACATGGCTACTGG
+i calJac1.Contig6394 C 0 C 0
+s otoGar1.scaffold_334.1-359464 187570 11 - 359464 ---------------------------------------------------ATTGGTGTTGA
+q otoGar1.scaffold_334.1-359464 ---------------------------------------------------87784564678
+i otoGar1.scaffold_334.1-359464 I 2731 C 0
+s oryCun1.scaffold_156751 192 41 - 4726 --------------------CACCATTGTCTTGCCTGTC-TCAGGTCCCATAGGGGTGTTGA
+q oryCun1.scaffold_156751 --------------------9999999999999999999-9999999999999999999999
+i oryCun1.scaffold_156751 N 0 C 0
+s felCat3.scaffold_205680 72907 62 - 119354 TGATTTCTCTTTCTCTTACTCATCAGTGTCTTGTCTTTCAGTCATTCCCACATTGGTGTAGA
+q felCat3.scaffold_205680 99999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 C 0 C 0
+e canFam2.chr1 78071238 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e hg18.chr6 15874437 0 - 170899992 C
+e panTro2.chr6 16393002 0 - 173908612 C
+
+a score=367532.000000
+s mm9.chr10 3019777 183 + 129993255 GGCAATGTCA-GGCTATGCGT------TCTAGACAGGGCACAAGAAAAGCTTTTAGCAGCAGAATAAACTTTT-AAAGTAAATTACTTTCCTTGATAGCAACTAGACGACCCAATTGA-TACAGT------GGAAAG-----A----------GGCCTTTGAGAAT---GCATGAGAGAATAT---TTCCTGTA------AGAGTTGAACAATTTAGAATTTACc
+s oryCun1.scaffold_156751 233 193 - 4726 GGCAACATCATGACCTTATGT------TCTAA----GGGACAGGAAAAGCTTTTTCCAGTAGAATAAGCCTTT-AGAGGAAACTGCTTCCCTTGCTAGTAATCAAGTGTTCAAAGTGA-TACAACAAAGAAAAAAAA-----A----------GCCTTTTGGGAAT-CAGGATGGAATAATATTACTTCCCCTATTTCTCAGAGCTAAATAGTTTAGGATT----
+q oryCun1.scaffold_156751 999999999999999999999------99999----9999999999989999999998999999999999999-99999999999999999999999999999999999998989999-999899799999999999-----9----------9997999999998-978998999999999999999978999999979689999999999999999979----
+i oryCun1.scaffold_156751 C 0 I 37
+s hg18.chr6 15874437 190 - 170899992 GGCAACACCATGA-TACATAT------TCAAGATAAAGTACAGGAAAAGCTTTTTGCAGTGGAATAAAATGTT-AAAGGGAATTGCTTTCCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAAA-----A----------TTTTTTTGAGAATGCAGGATAGAATAATATTATTTCCCTTATTTCTAAGAGTTAAACAATTTAGGATT----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393002 191 - 173908612 GGCAACACCATGA-TACATAT------TCAAGATAAAGTACAGGAAAAGCTTTTTGCAGTGGAATAAAATGTT-AAAGGAAATTGCTTTCCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAAA-----A---------TTTTTTTTGAGAATGCAGGATAGAATAATATTATTTCCCTTATTTCTAAGAGTTAAACAATTTAGGATT----
+q panTro2.chr6 9999999999999-9999999------9999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999-99999-------999999-----9---------999999999999999999999999999999999999999999999999999999999999999999999----
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16172655 190 - 174210431 GGCAACACCATGA-TACATAT------TCAAGATAAAGTACAGGAAAAGCTTTTTGCGGTGGAATAAAATGTT-AAAGGAAATTGCTTTCCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAAA-----A---------TTCTTTTTGAGAATGCAGCACAGAATAATATTATTTCCCTTATTTCT-AGAGTTAAACAATTTAGGATT----
+i ponAbe2.chr6 C 0 I 21
+s calJac1.Contig6394 10274 187 + 133105 GGCAACACCGTGA-TACATAT------CCGAGATAAAGTACAGGAAAAGC-TTTTGCAGTGGACGAAAATGTT-GAAGGAAATTGCTTTTCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAA-----------------GTTTTTTGAGAATGTGGGATAGAATAATATTGTTTTCGTTATTTCTAAGAGTTAAACAATTTAGGATT----
+i calJac1.Contig6394 C 0 I 21
+s otoGar1.scaffold_334.1-359464 187581 197 - 359464 GGCAACGCCGTGA-TCCTTGCTGTAGATAAAGACAAAGTGCAGGAAAAGCCCTTTACGGTAGAATAAAAGGTT-AAAGGAAATTGCTTTTCTTGATAGCAATCAGGTGACCAAAGTGATTATAA-------AGAAAA-----A----------ATGTTTTGAGAATGCTGGAAAGAATAATTTTATCCACCCTCCATTTCAGAGTTAAATAATTCAGGATT----
+q otoGar1.scaffold_334.1-359464 5466765345564-89977768969797886996999557766667768677897764536465578775526-67697777697779896767576676677696675376877786786858-------478887-----7----------56858859779666569356677477759968759378767656876769557597655596536566----
+i otoGar1.scaffold_334.1-359464 C 0 I 358
+s tupBel1.scaffold_114895.1-498454 174142 196 - 498454 GGCAATGTCATGA----ATGT------TCTAGATAAAGTACAGGAAAAGCTTTTTGCAGTAGGATAAACTTTT-AAAGGAAATTGCCTTCCTTGACAGCAATCAGGTGACCAAAGTCATACTGA-------AAAAAA-----AAACAAAAACAAACTTTTGTGGATGCAGTATAGAAGCATATTATTTTCCCTATGTCT--AAGTTAAATAACTTGGGCTT----
+q tupBel1.scaffold_114895.1-498454 9999999999999----9999------9999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999-------999999-----999999999999999999999999999999999999999999999999999999999--99999999999999999999----
+i tupBel1.scaffold_114895.1-498454 C 0 I 623
+s felCat3.scaffold_205680 72969 186 - 119354 GACATC---ATAA-AGTACAT------TCTAGATAAAGTGCAGGAAAAGCATTTTG-AGTAGAATAAAATGTT-GTAGGAAATTGCTTTCTTCAAGAGACATTAGGTGATTAAAGTAA-TATAA-------AGGGAA-----T----------TTTTTTTGAGAATACAGGATACAATAATATTATTTCCCCTACATCTAAGAGttaaataatttaaaatt----
+q felCat3.scaffold_205680 999999---9999-9999999------99999999999999999999999999999-9999999999999999-99999999999999999999999999999999999999999999-99999-------999999-----9----------99999999999999999999999999999999999999999999999999999999999999999999----
+i felCat3.scaffold_205680 C 0 I 27
+s canFam2.chr1 78071238 193 - 125616256 ------ATCATGA-TGTAAAT------TCCGGGTAAAGTACAACAAAAGGATTTTG-AACAGGATAAAATGTTAATAGGAAATTACTTTCTTTGAGAGCAATCAGGTGATTGAAGGAA-TATAA-------AGGGAAAAAACA----------AAGTTCAGTGAATCCAAGTTAGAATAATATTGTTTCCCTTACTTCTAAGAGttaaataatttaaaatttaat
+q canFam2.chr1 ------9999999-9999999------99999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999-99999-------999999999999----------999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+
+a score=0.000000
+s mm9.chr10 3019960 757 + 129993255 actagggatgggagaggctcccagaacccagtaatgatgacattaagaaatacacaacagttgggaaatggaacccaaagagaacacctccagtagataagcatgacccccagttgagggatgggcccatgcacccatcttaaaattttggacccagaattattcttctcaaaaggaaatgcagggatgaaaatggagcagagactggaagaaaggccaaccagagactgccctaactcaggatccatcgcatgtgcaggcaccaaccccaacactattgctgatgccatgttgtacttgctgatggaagcctggcatggctgtcctctgagagtctcaaatgaggcacctgacagatgcagatacttacagccaaccaatggactgagccccgggacctcaataaaagaatgaggggatggcaaccccata [...]
+e felCat3.scaffold_205680 73155 27 - 119354 I
+e canFam2.chr1 78071431 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10461 21 + 133105 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+e hg18.chr6 15874627 0 - 170899992 C
+e panTro2.chr6 16393193 0 - 173908612 C
+e ponAbe2.chr6 16172845 21 - 174210431 I
+e oryCun1.scaffold_156751 426 37 - 4726 I
+
+a score=8951.000000
+s mm9.chr10 3020717 44 + 129993255 TGTCAAACATGCATAAAGATATACT-GAGGAGCCCATGAATTTTA
+s canFam2.chr1 78071431 33 - 125616256 tGTT------------TAACATAATAGAGGGGCCCATGAATTTTA
+q canFam2.chr1 9999------------99999999999999999999999999999
+i canFam2.chr1 C 0 I 9
+s panTro2.chr6 16393193 38 - 173908612 ----AAAAAT---TTTAAATATACTAGAGGGGTCCATGAATTTTA
+q panTro2.chr6 ----999999---99999999999999999999999999999999
+i panTro2.chr6 C 0 I 11
+s hg18.chr6 15874627 38 - 170899992 ----AAAAAT---TTTAAATATACTAGAGGGGTCCATGAATTTTA
+i hg18.chr6 C 0 I 11
+e felCat3.scaffold_205680 73155 27 - 119354 I
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10461 21 + 133105 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+e ponAbe2.chr6 16172845 21 - 174210431 I
+e oryCun1.scaffold_156751 426 37 - 4726 I
+
+a score=0.000000
+s mm9.chr10 3020761 157 + 129993255 TATATATGCTATCCGTGTGCTGTGATTTTTGTTTTAAATGTTATTTTATGTATATGcaagattttgcattgtagcagaaggtggcttcaaactcacgatcctcctgcctcagccttccaagtgctgagatcatacctctgcaccatcctgcccACCT
+e felCat3.scaffold_205680 73155 27 - 119354 I
+e canFam2.chr1 78071464 9 - 125616256 I
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10461 21 + 133105 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+e hg18.chr6 15874665 11 - 170899992 I
+e panTro2.chr6 16393231 11 - 173908612 I
+e ponAbe2.chr6 16172845 21 - 174210431 I
+e oryCun1.scaffold_156751 426 37 - 4726 I
+
+a score=85471.000000
+s mm9.chr10 3020918 96 + 129993255 GAGGTTTGTGACTTTTAATA----------CTGATTGTTATCTAACATCACAGAATTCTCAGTTCTTAAGGAAACAATTGTTCTGTGTGTTATTTGTCTAGGAGGA
+s hg18.chr6 15874676 73 - 170899992 ---------------------------------ATGGTTATTTAATACTGCACAATCCTCAGCTTTTAAGGAAAAACATGTTTGACTTATTAATTATTTAGGACAA
+i hg18.chr6 I 11 C 0
+s panTro2.chr6 16393242 73 - 173908612 ---------------------------------ATGGTTATTTAATACTGCACAATCCTCAGCTTTTAAGGAAAAACATGTTTGACTTATTAATTATTTAGGACAA
+q panTro2.chr6 ---------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 11 C 0
+s canFam2.chr1 78071473 75 - 125616256 --------------------------TAATAAAATAATTCTGTACCATTATGAAGTTCTCAGCTCTTAAGGAAAAA-----GTGATTTGTTAATTACTTAGGACAA
+q canFam2.chr1 --------------------------99999999999999999999999999999999999999999999999999-----9999999999999999999999999
+i canFam2.chr1 I 9 C 0
+s felCat3.scaffold_205680 73182 76 - 119354 ---GTCCATGAATTTTAATGGTGAAGTAATGAAATAATTCTTTAATATCAC----------------------AAA-----GTAATTTATTAATTATTTAGGACAA
+q felCat3.scaffold_205680 ---999989999999999999999999999999999999999999999999----------------------999-----9999999999999999999999769
+i felCat3.scaffold_205680 I 27 C 0
+s cavPor2.scaffold_216473 9420 82 - 10026 GAGTTCTGCAAATtttaata----------ggaaaagaagatTAATATTACAAAGTTTTCAGTTCTGATGGAAaaa----------gtgtgatttttttaaa----
+q cavPor2.scaffold_216473 99679966799668566465----------8567828838346568788268865663676558367765776667----------6965686997776684----
+i cavPor2.scaffold_216473 I 1372 I 28
+s oryCun1.scaffold_156751 463 102 - 4726 -AGATCCATGAATTTTAATA---AAGCAATGAGATAATTATTTAATGTTGGAAAATCCTCAAGTCTTAAGGAAAAAAGTGTTTGACTTGTTAATGACTTGGGATGA
+q oryCun1.scaffold_156751 -9999997999999999999---99999999999999999999999999999999998677999969999999999999999999999999999999999999999
+i oryCun1.scaffold_156751 I 37 C 0
+s calJac1.Contig6394 10482 100 + 133105 GGGGTCCATGAATTTTAATA-----GTAACAAAATGGTTATTCAATATTGCAAAATCCTCAGC-TTTAAGGAAAAACATATTTGATTTGTTAATTATTTAGGACAA
+i calJac1.Contig6394 I 21 C 0
+s ponAbe2.chr6 16172866 101 - 174210431 GGGGTCCATGAATTTTAATA-----GTAATAAAATGGTTATTTAATATTGCAAAATCCTCAGCTTTTAAGGAAAAACGTGTTTGACTTATTAATTATTTAGGACAA
+i ponAbe2.chr6 I 21 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+
+a score=105724.000000
+s mm9.chr10 3021014 40 + 129993255 ACCTTGGTGACGCCACTGGATTTTGTATGACTGAATACTG
+s oryCun1.scaffold_156751 565 40 - 4726 ATCTTGATGAAGTCATTCCAACTTGGATGATTTAGGAATT
+q oryCun1.scaffold_156751 9999999999999969999699999999999999999999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188136 40 - 359464 ATCTTGGTGAAGTTATTCCAATTTATGTGATTTAGGAATG
+q otoGar1.scaffold_334.1-359464 9999999999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 358 C 0
+s calJac1.Contig6394 10582 40 + 133105 ATTTTGGTGAAGTTATTCCAACTTGTGTGGCTTAGGAATG
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874749 40 - 170899992 ATTTTGGTGAAGTTATTCCAACTTGCATGGCTTAGGAATG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393315 40 - 173908612 ATTTTGGTGAAGTTATTCCAACTTGCATGGCTTAGGAATG
+q panTro2.chr6 9999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16172967 40 - 174210431 ATTTTGGTGAAGTTATTCCAACTTGCATGGCTTAGGAATG
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78071548 40 - 125616256 ATCTCAGTGAAGTCATTCTGACTCGCATGATTTAGGAATG
+q canFam2.chr1 9999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 73258 40 - 119354 ATCTCAGTGAAGTTATTCTGACTTGCATGATTTAGGTATG
+q felCat3.scaffold_205680 9999989999989988999997999979997996167779
+i felCat3.scaffold_205680 C 0 C 0
+s dasNov1.scaffold_56749 3116 40 - 10470 ACATCAGTGAAATCATTCCGACTCGTATGACTGAGCGATG
+q dasNov1.scaffold_56749 9759855999977756667495765475885678385647
+i dasNov1.scaffold_56749 N 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 9502 28 - 10026 I
+
+a score=115790.000000
+s mm9.chr10 3021054 50 + 129993255 CTCATTTGGGAACTTACAGGTCAGCAAAGGCTTCCAG--------------------GACTTACATGCAG
+s cavPor2.scaffold_216473 9530 38 - 10026 CTCATTTGGGAGTTCAGAGTT--------GCTATAAA--------------------TACTTGTGA----
+q cavPor2.scaffold_216473 788777667898846665666--------98766677--------------------876665669----
+i cavPor2.scaffold_216473 I 28 C 0
+s oryCun1.scaffold_156751 605 69 - 4726 CTAATTTGGGCTCTTACATTTTATAACTGCCTAATGGAGTCTTCTTTTTTCCT-CCTTAATTACACGTAT
+q oryCun1.scaffold_156751 99999999999997999799999999999999999999999799799999997-9979999999495999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188176 69 - 359464 CTAACTTGGGGACACAGG-TTCATAAAGGCTTAATGGAGCCCACTGGTCCCTTCCCCAGACTCTATGTAC
+q otoGar1.scaffold_334.1-359464 999999999999999999-999999999999999999998999999689999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig6394 10622 70 + 133105 CCAGTTTGGGGACTTAGATTTTCTAACTGCCTAATGAAGTCTGCTCTTTCCTTCCCTAGCCTATATGTAT
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874789 70 - 170899992 ACAATTTGGGGATTTACATTTCCTAACTGCCTAATGAAGTCTGCTCCTTCCTTCCCTAGACTATATGTAT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393355 70 - 173908612 CCAATTTGGGGATTTACATTTCCTAACTGCCTAATGAAGTCTGCTCTTTCCTTCCCTAGACTATATGTAT
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16173007 70 - 174210431 CCAATTTGGGGATTTACATTTCCTAACTGCCTAATGAAGTCTGCTCTTTCCTTCCCTAGACTATATGTAT
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78071588 70 - 125616256 CTAATTTGGTGACTCAAATTTCATAATTGCTTAATGAAAGCTGATGTTTTCTTCCCTACACCATATGTAT
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 73298 70 - 119354 CTAATTTGGTGACTTGAATTTCATAATTGCTTAAGGAAGCCTGCTGTTTCCTTCCCAAGACTATATGCAT
+q felCat3.scaffold_205680 9769999999975699868977669777966666596959759669595666758736585676666655
+i felCat3.scaffold_205680 C 0 C 0
+s dasNov1.scaffold_56749 3156 70 - 10470 CTAATTGGGGGACTCACATTTTAAAATTGCTAACCGAAGCCTGCTGTTTTCTTCTCTAGACTATAAGTAT
+q dasNov1.scaffold_56749 5556576999664654656985688667655565647767537567688856666555556565555656
+i dasNov1.scaffold_56749 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=44222.000000
+s mm9.chr10 3021104 32 + 129993255 CTGTTAGTGCTGTTTT---AATGTACCTCGCAGTA
+s cavPor2.scaffold_216473 9568 27 - 10026 -----ATTACTTTCTT---AATGTAAATTTTTATA
+q cavPor2.scaffold_216473 -----55455868746---7957999989884575
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 674 30 - 4726 TTGCTAGTA--TTCTC---AATGTAATATTTTATA
+q oryCun1.scaffold_156751 999979999--96665---6999999999999999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188245 32 - 359464 TTGCTGGTGTTCCCTT---AATATAATGTTTTATA
+q otoGar1.scaffold_334.1-359464 9999999999999999---9999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig6394 10692 30 + 133105 TTACTCGTG--CCCTT---AATATAGCATTTTATA
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874859 30 - 170899992 TTGCTGGTA--CTCTT---AATATCACATTTTATA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393425 30 - 173908612 TTGCTGGTA--CTCTT---AATATCACATTTTATA
+q panTro2.chr6 999999999--99999---9999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16173077 30 - 174210431 TTGCTGGTG--CTCTT---AATATAACATTTTATA
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78071658 25 - 125616256 TTGCTGGTGCTCTCAA---AATGTAGCA-------
+q canFam2.chr1 9999999999999999---999999999-------
+i canFam2.chr1 C 0 I 196
+s felCat3.scaffold_205680 73368 25 - 119354 TTGCTGGTGCTCTCAA---AATATAACA-------
+q felCat3.scaffold_205680 8677668566555658---876555655-------
+i felCat3.scaffold_205680 C 0 I 6
+s dasNov1.scaffold_56749 3226 33 - 10470 TTGCTGGTG--ATCTGATTAATGTAACATTTTATG
+q dasNov1.scaffold_56749 856647736--775356546747663745776545
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95225 21 + 100002 CTGTTAATG--CTCTG------------TTTTATG
+q echTel1.scaffold_288249 999999999--99999------------9999999
+i echTel1.scaffold_288249 I 7564 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+
+a score=43757.000000
+s mm9.chr10 3021136 44 + 129993255 AGGCAAATGAGGTGATAAGA-------TTGTGTT-----TAC----TCCCTCTGTGC----------TTG
+s cavPor2.scaffold_216473 9595 43 - 10026 AG-CAGATGAGATAACAGTG-------ATATATT-----cat----tctctgtgtgt----------atg
+q cavPor2.scaffold_216473 49-96766988786798889-------8679566-----756----66896967579----------888
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 704 42 - 4726 AAGCAAATGAGGTGATGAGG---------GCATC-----TAT----TTCTTATTTGT----------GTG
+q oryCun1.scaffold_156751 99998999999999999999---------99999-----999----99999999999----------999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188277 45 - 359464 AAACAAATGAGATCACA-GG-------ACATATG-----TA--CTTGTCCCCCACGT----------GTG
+q otoGar1.scaffold_334.1-359464 99999999999999999-99-------9999999-----99--99939999999999----------999
+i otoGar1.scaffold_334.1-359464 C 0 I 15
+s calJac1.Contig6394 10722 45 + 133105 AAGCAAATGAGATCACA----------GCACATG-----TATATTTTTTCTCCGTGT----------GTG
+i calJac1.Contig6394 C 0 I 15
+s hg18.chr6 15874889 47 - 170899992 AAACAAATGAGATCACAAGG-------GCATATA-----TGT-TTTTTTCTCTGTGT----------GTG
+i hg18.chr6 C 0 I 15
+s panTro2.chr6 16393455 47 - 173908612 AAACAAATGAGATCACAAGG-------GCATATA-----TGT-TTTTTTCTCTGTGT----------GTG
+q panTro2.chr6 99999999999999999999-------9999999-----999-99999999999999----------999
+i panTro2.chr6 C 0 I 15
+s ponAbe2.chr6 16173107 47 - 174210431 AAACAAATGAGATCACAAGG-------GCATATG-----TAT-TTTTTTCTCTGTGT----------GTG
+i ponAbe2.chr6 C 0 I 15
+s eriEur1.scaffold_266115 358 65 + 4589 taaataataagataagatgaaagCATAGCATGTA-----TTTTCTtgccctctccttctctgtctctgtc
+q eriEur1.scaffold_266115 9999999999999999999999999999999999-----9999999999999999999999999999999
+i eriEur1.scaffold_266115 N 0 I 9
+s canFam2.chr1 78071879 51 - 125616256 tAGAAAATGAGATACC-----------GTGTGTA-----TATGCTTTCTCTCTGTGT---GGGGTCTGTG
+q canFam2.chr1 9999999999999999-----------9999999-----999999999999999999---9999999999
+i canFam2.chr1 I 196 I 9
+s felCat3.scaffold_205680 73399 51 - 119354 AAGCAAATGAGATAAG-----------ACACGTG-----TATTCTTCCTCTCTGTGT---GGTGTCTGTG
+q felCat3.scaffold_205680 9755596656454353-----------5346324-----243451535354422233---3635339999
+i felCat3.scaffold_205680 I 6 I 9
+s dasNov1.scaffold_56749 3259 46 - 10470 AGGAAAGTGAGAGGACCAGG-------GCAAATA-----AATATTCTTTCTCTGTGT----------A--
+q dasNov1.scaffold_56749 55569764556657658568-------6768555-----858686457859535656----------5--
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95246 51 + 100002 AAGAAGGTGAGATGACAAGG-------GTGTATAGATAGGATATTCTTGCTTTGGGT----------G--
+q echTel1.scaffold_288249 99999999999999999999-------999999999999999999999999999999----------9--
+i echTel1.scaffold_288249 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+
+a score=32886.000000
+s mm9.chr10 3021180 24 + 129993255 -------------------TCCC-------AGAGAGTCTGA-TAGGAGGAG
+s cavPor2.scaffold_216473 9638 32 - 10026 -------------------tgcctTTGTATAGTGGCTCTGAGTATAAAGTA
+q cavPor2.scaffold_216473 -------------------67576649966655666885655548785776
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 746 27 - 4726 -------------------TGCCTGTGTATAGCATTTCTGAATATA-----
+q oryCun1.scaffold_156751 -------------------999999999999999999999999999-----
+i oryCun1.scaffold_156751 C 0 C 0
+s ponAbe2.chr6 16173169 25 - 174210431 -----------------------TCTG---AGTGTGTATGAATATGAAGTA
+i ponAbe2.chr6 I 15 C 0
+s panTro2.chr6 16393517 25 - 173908612 -----------------------TCTG---AGTATGTATGAATATGAAGTA
+q panTro2.chr6 -----------------------9999---999999999999999999999
+i panTro2.chr6 I 15 C 0
+s hg18.chr6 15874951 25 - 170899992 -----------------------TCTG---AGTATGTATGAATATGAAGTA
+i hg18.chr6 I 15 C 0
+s calJac1.Contig6394 10782 25 + 133105 -----------------------TCTG---AGTATGTCTGAATATGAAGTG
+i calJac1.Contig6394 I 15 C 0
+s otoGar1.scaffold_334.1-359464 188337 25 - 359464 -----------------------TCTA---AGTGTGTCTGAACATGATGTG
+q otoGar1.scaffold_334.1-359464 -----------------------9999---999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 15 C 0
+s tupBel1.scaffold_114895.1-498454 174961 25 - 498454 -----------------------TCTC---TGAGTGTCTGAACTTGAGGTA
+q tupBel1.scaffold_114895.1-498454 -----------------------9999---999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 623 C 0
+s eriEur1.scaffold_266115 432 19 + 4589 -----------------------TCTC---AGTGTGTCTGACCAG------
+q eriEur1.scaffold_266115 -----------------------9999---999999999999999------
+i eriEur1.scaffold_266115 I 9 C 0
+s canFam2.chr1 78071939 25 - 125616256 -----------------------TCTG---AGTGTGTCTGAATGTGAGGTA
+q canFam2.chr1 -----------------------9999---999999999999999999999
+i canFam2.chr1 I 9 C 0
+s felCat3.scaffold_205680 73459 25 - 119354 -----------------------TCTG---AGTGTTCCTGAATGTGAGGTG
+q felCat3.scaffold_205680 -----------------------9999---999999999999999999999
+i felCat3.scaffold_205680 I 9 C 0
+s dasNov1.scaffold_56749 3305 47 - 10470 T-TGTGTGCCTTTGCGGAGCATTTCTG---AGCGTGTCTGAACTTGAGGTA
+q dasNov1.scaffold_56749 7-3659557766555777595699547---965955937797755656587
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95297 48 + 100002 TGCCCAGGACTGCGCATGGTATTTCTT---GGTGTGTCTGAAGGTGAGATA
+q echTel1.scaffold_288249 999999999999999999999999999---999999999999999999999
+i echTel1.scaffold_288249 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+
+a score=309116.000000
+s mm9.chr10 3021204 71 + 129993255 TGCACTGGTTTTCC-TGCAGTGGTTCTCAGTAATAGGAAGACA-ACAGAATTTGAAGTATCCGGCTTTGGCCA
+s echTel1.scaffold_288249 95345 73 + 100002 GGCATTGGTTTTTAGAGAGAGAACCCACATAAGTAGGAAAACATTTTGAATTTATAGTAAATATTCTTGGCTA
+q echTel1.scaffold_288249 9999999999999999999999999999999999999999999999999999999999999999999999999
+i echTel1.scaffold_288249 C 0 C 0
+s dasNov1.scaffold_56749 3352 70 - 10470 TGCATTGATTTTCAGTGAGGGAAATCACAC---TAAGAGAGCATTTTGAATTTATAATAAATGCTCTTGGCTA
+q dasNov1.scaffold_56749 579663579997957596666783594865---8458696597898258979678997999677999997699
+i dasNov1.scaffold_56749 C 0 C 0
+s felCat3.scaffold_205680 73484 72 - 119354 TGCATTGATTTTCA-TGCATTGATTCACATGAATAGGAATGCATTTTGAAATTATAGCAAATGTTTTTGGCTG
+q felCat3.scaffold_205680 99999999999999-9999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 C 0 C 0
+s canFam2.chr1 78071964 71 - 125616256 TGCATTAATTTTCA-TGCGTTGATTCACATGAATAGGAATACA-TTTGAATTTATAGGAAATGCTTTTGGCTG
+q canFam2.chr1 99999999999999-9999999999999999999999999999-99999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_266115 451 70 + 4589 -GCACTGATTCTCG-AGGGTTGATTCCCAGTAAGAGGAAACTG-CGTGAGTTTACAGTACATGGGCTTGGCTG
+q eriEur1.scaffold_266115 -9999999999999-9999999999999999999999999999-99999999999999999999999999799
+i eriEur1.scaffold_266115 C 0 C 0
+s sorAra1.scaffold_2476 3312 70 - 4997 TGCATTGATTTTTA-AGTATTGATTCACATGAAAAGGAAAGCA-CTTCAATTTATGATAAAT-GATTTGGCCA
+q sorAra1.scaffold_2476 89999999999989-9999999999999999999999999999-999999999799999999-9999999999
+i sorAra1.scaffold_2476 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 174986 71 - 498454 TGCATTGAATTCCA-TGTGTTATGTCACATTAATAGGAAACGA-TTCTAATTGATAGGAAATGCTTCTGACCA
+q tupBel1.scaffold_114895.1-498454 99999899899999-9999999999999999999999999999-99999999999999999999999999997
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188362 67 - 359464 TG----GATTTTTA-CACATTGATTCACCTTAACGGGAAAACA-TGTGAATTTGTAGGAAAGGCATTTGGCCA
+q otoGar1.scaffold_334.1-359464 88----99999999-9899999899943848888999999999-66359999569699999923799351281
+i otoGar1.scaffold_334.1-359464 C 0 I 6280
+s calJac1.Contig6394 10807 71 + 133105 TGCATTGGTTTTTA-TGCCTTGATTCACATGAATAGGAAAACG-TTTGAATTTATAGGAAATGGTTTTGGCCA
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874976 71 - 170899992 TGCTTTGATTTTTA-TGCATTGATTTACATGAATAGGAAAATG-TTTGAATTTATAGTAAATGGTTTTGGCCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393542 71 - 173908612 TGCTTTGATTTTTA-TGCATTGATTTACATGAATAGGAAAACA-TTTGAATTTATAGTAAATGGTTTTGGCCA
+q panTro2.chr6 99999999999999-9999999999999999999999999999-99999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16173194 71 - 174210431 TGCTTTGATTTTTA-TGCATTGATTTACATGGATAGGAAAACG-TTTGAATTTATAGTAAATGGTTTTGGCCA
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_156751 773 65 - 4726 ------TCTTTACA-TACTTTGATTTACATCGACGGGAAAACA-TTTGCATTTATAGCAATGGCTTTTGGTCA
+q oryCun1.scaffold_156751 ------99999994-9999999999999899999999999999-99999999999999899999999999999
+i oryCun1.scaffold_156751 C 0 C 0
+s cavPor2.scaffold_216473 9670 71 - 10026 GGCATTGATTTCCA-TGCATTAATTCACATTAATAGGAAAACA-GTCCAATTTATAGTAAATGGTTTTGGCCA
+q cavPor2.scaffold_216473 77888768786695-3886758796446556688656665478-68687676669688688666687574686
+i cavPor2.scaffold_216473 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+
+a score=891219.000000
+s mm9.chr10 3021275 146 + 129993255 CTTTCTCTGACATTACTGTAACTGAAGTAGCTC-AGAAGCACAAAAGGTCACATCATGCATCCATGCAGAATCCACTGAAGCTGTTTGGAAAGGC-----------------------CACGTGTCTTCCCAGAAGGCCAGTTACACCATCATTTCCTTCCATGTTTCAG
+s cavPor2.scaffold_216473 9741 169 - 10026 CCTTTGCTGATGTTACTGTAAGCGAACTAGCTG-AAAAGCACAAAAGGTCATGTCAGGCATTTATGCAAAATTTACTAGTTCCGTTCATAAAGGCACCTCGCATTTTATTACTTAGTTCATGTGTCTCGCAGGAAATCCAGTCACGCCATCATTTCCTTCCATATTTCAA
+q cavPor2.scaffold_216473 668536545547664539866666666666668-8787886799997788875886655536666688786768476688854689668876558688874778656675665668746666788474786888875667457786687996867886548798845555
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 838 158 - 4726 TCGTCTCTGATGTTACTCTAGCTGAAAGCGCTC-CAAAGCACAAAAGGCCATGGCAGGCATTTATGTCAAATGTACTAGCACTGTTTATAACAGCACCTTGTGTTGTATTACTTTGTTCA-----------GGAAATCCAGTCACGCCGCGATTTCCTTCCACATTTCAA
+q oryCun1.scaffold_156751 999999879999999999999999999997999-99999799999999898999999988999999988999999989996999999999988897996999999999999979999987-----------899998987999799998998999999999777999899
+i oryCun1.scaffold_156751 C 0 C 0
+s ponAbe2.chr6 16173265 169 - 174210431 CCTTCTCTGATGTTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGGAGGCATTCATGTAAAACTTACTAGTGCTGTTTATAAGGGTACCTTGTGTTTTATTACTTTGTTAATGTATCTTTCAGGAAATTCAGTCACGCCATCATTTCCTTCCATATTTCAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16393613 169 - 173908612 CCTTCTCTGATGTTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGGAGGCATTTATGTAAAACTTACTAGTGCTGTTTATAAGGGTACCTTGTGTTTTATTACTTTGTTAATGTACCTTTCAGGAAATCCAGTCATGCCATCATTTCCTTCCATATTTCAT
+q panTro2.chr6 999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15875047 169 - 170899992 CCTTCTCTGATGTTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGGAGGCATTTATGTAAAACTTACTAGTGCTGTTTATAAGGGTATCTTGTGTTTTATTACTTTGTTAATGTACCTTTCAGGAAATCCAGTCATGCCATCATTTCCTTCCATATTTCAT
+i hg18.chr6 C 0 C 0
+s calJac1.Contig6394 10878 169 + 133105 CCTTCTCTGATATTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGCAGGCATTTATGTAAAACTTACTAGTGCTGTTTATAAAGGCACCTTGTGTTTTATTACTTTGTTAATGTACCTTTCAGGAAATCCAGTCATGCCATCATTTCCTTCCATATTTCAT
+i calJac1.Contig6394 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 175057 156 - 498454 TCCTCTCAGATGTTCCTGTAACCAAAGTAGCTC-AGAAGCACAAAAGGTCATGCCAGGCATTGATGTAAA-------------GTTTCTGAAGGCATCTCGTGTTTTATTACTTTGTTCATGTGCCTTACAGGAAATCCAGTCGGGCCATCATTTCCTTCCATATCTCAG
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999-999999999999999999999999999999999999-------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_2476 3382 170 - 4997 CCTTCTCTGATGTTACTGTAACTGAGGTAGCTCAAAAAGCACAAAAGGTCATGTCAGGCATTGATGTAAAATATACCAGTGCTGTTTATAAAGACCCCTTGCATATAATGTTGTTGATCATGAACTTTTCCGGAAATCCTGTAATCTCATCATTTCCTCCCATATTCCAG
+q sorAra1.scaffold_2476 99999999999999997999999999999999999999999999999999999999999999999999999999999979999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i sorAra1.scaffold_2476 C 0 C 0
+s eriEur1.scaffold_266115 521 156 + 4589 CCTTCTCTGATCTGACTGTAACCGAAGTCTCTC-GAAAGCACAAAAGCTCACGGCAGGCCTTTCTGTAAAATACAGCGGCGCTGCTTCCAAAGGCaccttgca------gatgtctctcacgcATTTGGCAGGAGTCCCTGTCACTCGGCCAGTTCC-------TTCCTG
+q eriEur1.scaffold_266115 999999999999999999999999999999999-999999999999999999999999799999999999999999999998987999899999999999999------999999999999999999999999999999999999999999999998-------999989
+i eriEur1.scaffold_266115 C 0 C 0
+s canFam2.chr1 78072035 168 - 125616256 CTGTCTCTGATGTTACTGTAACTGAAGTAGCTC-AAAAGCACAAAAGGTCATGTCAGGC-TTTATGTAAAATTTACTAGAGCTGTTTATAAAGGCACCTCGTGTAATATTGCTTTGTTCATGTACTTTACAGGAAATCCTGTCATCCTGTTACTTCCTTCCATATTTCAA
+q canFam2.chr1 999999999999999999999999999999999-9999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 73556 169 - 119354 CTGTCTCTGATGTTACTGTAACTGAAATAGTTC-AAAAGCACAAAAGGTGATGTCAGGCATTTATGTAAAATTTACTAGTGCTGTTTATAAAGGTACCTTGTGTATTATTGCTTTGTTCATGCACTTTATAGGAAATCCTGTCATCCTGTCATTTCCTTCCATAGTTCAG
+q felCat3.scaffold_205680 999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 C 0 I 34165
+s dasNov1.scaffold_56749 3422 168 - 10470 CCTTCTCTGATGTTACTGTAACTGAAGAGGCTC-AAAAGCACAAAAGGTCATGTCGGGCATTGATGTAAAATTTACTAGTGCTG-TTTATAAAGGACCTTGTGTTCTATTACTTTTTCTATCCCCCTTACAGGAAATCCTGTCATACCATCATTTCCTTCCATAAGTCAC
+q dasNov1.scaffold_56749 989999999999999937699999999999999-79999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95418 169 + 100002 CCATCTCTGATATTACTGTAATGGAATTACTTT-GAAAGCACAAAAGGTCAGGACAAGCGTGTATGTGAAATTTCCTAGAGCTGTTTTCCTGCACACCTTGGATTTTATTGCTTAGTTCATTTGCTTTCCCAGAAATCCCGCCATGCCATCATTTCCTTCCACATCTCAG
+q echTel1.scaffold_288249 999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i echTel1.scaffold_288249 C 0 C 0
+s ornAna1.chr2 14756885 169 - 54797317 CCACCTCTGATATCACTGTAACTCAGCTACCCA-GAAGATAGGAAAGGTCATATCAGCCAATCATGTGCAACTTAATAGCCCTGTTCATAAAGCTGCTTTGTGTTTTATGAGGCTATTCATTCACCTTAGGGGAAATCCTGTCAAGCCATCATTTCCTTCCATATCTTCA
+i ornAna1.chr2 I 5690 C 0
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+
+a score=30254.000000
+s mm9.chr10 3021421 44 + 129993255 -ACGTTGCTCATTGT-----AATTGAAGCATTTATTACCAA--------TG--------------CCTTCCC
+s cavPor2.scaffold_216473 9910 47 - 10026 -CTGTTCCTTGTTACA----AATAAAAGTATGTTTTGCTGA--------CG-------G-----CCCCTCTG
+q cavPor2.scaffold_216473 -476754645667788----868678677444665235455--------76-------4-----36669356
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 996 37 - 4726 -TGGTTCCTCATTATG----GATTAAAGCATTCACTGCTAA--------T----------------------
+q oryCun1.scaffold_156751 -999999999899999----887999999999999999999--------9----------------------
+i oryCun1.scaffold_156751 C 0 I 2345
+s ponAbe2.chr6 16173434 45 - 174210431 -CTGTTGCTCATTATA----AATAAAAGTGTTTATTGCTAA--------T--------------GCTTTCTC
+i ponAbe2.chr6 C 0 I 4
+s panTro2.chr6 16393782 45 - 173908612 -CTGTTCCTCATTATA----AATAAAAGTGTTTATTGCTAA--------C--------------GCTTTCTC
+q panTro2.chr6 -999999999999999----999999999999999999999--------9--------------99999999
+i panTro2.chr6 C 0 I 4
+s hg18.chr6 15875216 45 - 170899992 -CTGTTCCTCATTATA----AATAAAAGTGTTTATTGCTAA--------C--------------GCTTTCTC
+i hg18.chr6 C 0 I 4
+s calJac1.Contig6394 11047 43 + 133105 -CTGTTTCTCATTATA----AAT--AAGTGTTTATTGCTAA--------C--------------GCTTTCTC
+i calJac1.Contig6394 C 0 I 701
+s tupBel1.scaffold_114895.1-498454 175213 35 - 498454 -CTGCTCCTCATGATA----AAT-ATAGCGTTTGTTGCTAA-------------------------------
+q tupBel1.scaffold_114895.1-498454 -999999999999999----999-99999999999999999-------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 10695
+s sorAra1.scaffold_2476 3552 48 - 4997 -CTGTTCCTTCTTAGATTaaaaaaaGAGCGTTTATGACCAG--------CA-------GGTTCC--------
+q sorAra1.scaffold_2476 -9999999999999999999999999999999997669755--------99-------999999--------
+i sorAra1.scaffold_2476 C 0 N 0
+s eriEur1.scaffold_266115 677 35 + 4589 -CTCCTTGTTCTTGAAGC----------CGTTTTTTATTGT--------CA-------GTG-----------
+q eriEur1.scaffold_266115 -98959997997999999----------9999999999999--------89-------999-----------
+i eriEur1.scaffold_266115 C 0 N 0
+s canFam2.chr1 78072203 40 - 125616256 -CTGTTTCTCATTATA----AATAAAAGCATTTATTGCTAA--------TG-------T------------C
+q canFam2.chr1 -999999999999999----999999999999999999999--------99-------9------------9
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_56749 3590 44 - 10470 -CTGTTCCTCTTTAT-----AATAAAAGCATTTACTGCTAA--------CGGCTCCTC--------------
+q dasNov1.scaffold_56749 -99999999999999-----999999999999999999999--------999999999--------------
+i dasNov1.scaffold_56749 C 0 I 904
+s echTel1.scaffold_288249 95587 38 + 100002 -CTGATCCTCATTATA----AATAAAAGTGTTTGTTACTAA--------TG---------------------
+q echTel1.scaffold_288249 -999999999999999----999999999999999999999--------99---------------------
+i echTel1.scaffold_288249 C 0 N 0
+s ornAna1.chr2 14757054 45 - 54797317 ACTG-TCCTCATTGTA----CAGGGACTCTTTTATTACTAAAGATCCCCC----------------------
+i ornAna1.chr2 C 0 C 0
+e felCat3.scaffold_205680 73725 34165 - 119354 I
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+
+a score=-9167.000000
+s mm9.chr10 3021465 29 + 129993255 CCCT--ACACTGTC----AAGTGGGAGGAGACAGT--------------------
+s cavPor2.scaffold_216473 9957 28 - 10026 AGCC--acactgg-----gggtggggtgggatggt--------------------
+q cavPor2.scaffold_216473 7667--6878566-----66544895554554677--------------------
+i cavPor2.scaffold_216473 C 0 N 0
+s ponAbe2.chr6 16173483 24 - 174210431 -------CCCTGTG----GGGGCGATAGGAGCAGC--------------------
+i ponAbe2.chr6 I 4 I 9
+s panTro2.chr6 16393831 24 - 173908612 -------CCATGTG----GGGGCGATAGGGGCAGC--------------------
+q panTro2.chr6 -------9999999----99999999999999999--------------------
+i panTro2.chr6 I 4 I 9
+s hg18.chr6 15875265 24 - 170899992 -------CCATGTG----GGGGCGATAGGGGCAGC--------------------
+i hg18.chr6 I 4 I 9
+s canFam2.chr1 78072243 31 - 125616256 CCCTGAACCACATG----GGGGGTGTGTGTGTGTG--------------------
+q canFam2.chr1 99999999999999----99999999999999999--------------------
+i canFam2.chr1 C 0 I 13
+s ornAna1.chr2 14757099 45 - 54797317 ----------TGTGTCATAGGAGTTTGGATGTAGCCCTCTTTCATCTTTGCTGGC
+i ornAna1.chr2 C 0 C 0
+e dasNov1.scaffold_56749 3634 904 - 10470 I
+e felCat3.scaffold_205680 73725 34165 - 119354 I
+e calJac1.Contig6394 11090 701 + 133105 I
+e tupBel1.scaffold_114895.1-498454 175248 10695 - 498454 I
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+e oryCun1.scaffold_156751 1033 2345 - 4726 I
+
+a score=15763.000000
+s mm9.chr10 3021494 42 + 129993255 TGTTTAGTACC----ATGCTTAGGAATGATAAACTCACTTAGTGtt
+s ponAbe2.chr6 16173516 46 - 174210431 TGTTGCATGTCCTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT
+i ponAbe2.chr6 I 9 I 943
+s panTro2.chr6 16393864 46 - 173908612 TGTTGCATATCCTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT
+q panTro2.chr6 9999999999999999999999999999999999999999999999
+i panTro2.chr6 I 9 I 10
+s hg18.chr6 15875298 46 - 170899992 TGTTGCATGTCGTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT
+i hg18.chr6 I 9 I 931
+s canFam2.chr1 78072287 46 - 125616256 TGTTAAGTCTCACTTGCTGTTCAAAGTGATAGCTTCACTCCATCAT
+q canFam2.chr1 9999999999999999999999999999999999999999999999
+i canFam2.chr1 I 13 I 1
+s ornAna1.chr2 14757144 36 - 54797317 TGTTTAAAATG----ATTGCTAGAACTTCTA--CTCACTGGA----
+i ornAna1.chr2 C 0 C 0
+e dasNov1.scaffold_56749 3634 904 - 10470 I
+e felCat3.scaffold_205680 73725 34165 - 119354 I
+e calJac1.Contig6394 11090 701 + 133105 I
+e tupBel1.scaffold_114895.1-498454 175248 10695 - 498454 I
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+e oryCun1.scaffold_156751 1033 2345 - 4726 I
diff --git a/Tests/MAF/ucsc_mm9_chr10.mafindex b/Tests/MAF/ucsc_mm9_chr10.mafindex
new file mode 100644
index 0000000..debbf24
Binary files /dev/null and b/Tests/MAF/ucsc_mm9_chr10.mafindex differ
diff --git a/Tests/MAF/ucsc_mm9_chr10_bad.maf b/Tests/MAF/ucsc_mm9_chr10_bad.maf
new file mode 100644
index 0000000..73432e3
--- /dev/null
+++ b/Tests/MAF/ucsc_mm9_chr10_bad.maf
@@ -0,0 +1,981 @@
+##maf version=1 scoring=autoMZ.v1
+a score=6441.000000
+s mm8.chr10 3009319 162 + 129993255 TCATAGGTATTTATTTTTAAATATGGTTTGCTTTATGGCTAGAACACACCGATTACTTAAAATAGGATTAACC--CCCATACACTTTAAAAATGATTAAACAACATTTCTGCTGCTCGCTCACATTCTTCATAGAAGATGACATAATGTATTTTCCTTTTGGTT
+s oryCun1.scaffold_133159 11087 164 + 13221 TCACAGATATTTACTATTAAATATGGTTTGTTATATGGTTACGGTTCATAGGTTACTTGGAATTGGATTAACCTTCTTATTCATTGCAGAATTGGTTACACTGTGTTCTTGACCTTTGCTTGTTTTCTCCATGGAAACTGATGTCAAATACTTTCCCTTTGGTT
+q oryCun1.scaffold_133159 99569899999998999999999999999999999999999999999999999999999999999999999757878999975999999999999999979999999999997899999999999997997999999869999996999988997997999999
+i oryCun1.scaffold_133159 N 0 N 0
+
+a score=103072.000000
+s mm9.chr10 3012076 365 + 129993255 AGTCTTTCCAATGGGACCTGTGAGTCCTAACTATGCCAGC-----ACTCCCAACAGCAAGACACTAAGTT---------CACTCATCCTTGGTGGATGGGATTTTGCTCCTGGAGTGTCAC-----CAAATTAAATAACCAGTGAGCAGAGTTG--TGACGAGCATCAGGCTCTGGATTTAGGTGAGAGACCTTAGTGTATGTCTCCTGTAGGTCGCAGCTCCCTATGGAT--------------------------GAGTCAAGTGAAGGTCCTGAGACAA-------------------CAAGTCCTC----GGCTATGTGGGGGTGAGGG-------------ATGC----AG--------CTGGAACCTCAGGGA-TCTCTGT-AAGCAGTGGCATAAATGCTTGGCGG--GAGAGAGCATGTTAGAGCTCACACGACATAGGAAGCC [...]
+s ponAbe2.chr6 16160203 443 - 174210431 AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTCCAGCCAAATCATCACAGTAAAAAGATGTTAATATTTATCTCCATACTCATCCTTACCAGATAGCCTTGTGCTCTTGGAATGTCGTACTTATGAAGTGAGCAAGCAGTATTTAGAATAGCATGAGATAGACCAGTCACCAA----AGGTTGTTGATTTCTAGGAATGTCTCATGCTGGTTGCATCTGTGTGTGAACTGGGAAGTTGAGATCGCTTTCCACAGAAATTAAGCAAAATCCTGGAGGTAAGTTGTGGA-----------TAGGGCTGCTGTAGACTCCCTGACAGCGTAGGAACT--------AGAACTCTGAAGCAAGCCACTGGTGCCTAACAAATTCTTTCTAAAGTTGTAGAGTGGATCTGTGGGGGCTGACGTGGCCTCCAACGCCTAACGTGGTTGAAAAGGCC [...]
+i ponAbe2.chr6 N 0 C 0
+s panTro2.chr6 16379004 443 - 173908612 AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTCCAGCTAAATCATCACAGTAAAAAGATGTTAATATTTATCTCCATACTCATCCTTACCAGATAGCCTTGTGCTCTTGGAATGTCGTATTTGTGAAGTGAGCAAGCAGTATGTAGAATAGCATGAGATAGACCAGTCACCAA----AGGTTGTTGATTTCTAGGAATGTCTCATGCTGGTTGCATCTGTGTGTGAACTGGGAAGTTGAGATCGCTTTCCACAGAAATTAAGCAAAATCCTGGAGGTAAGTTGTGGA-----------TAGGGATGCTGTAGACTCCCTGACAGCATAGGAACTAGAACTCTGAAGC----AAGCCA----CTGGTGCCTAACAAATTCTTTATAAAGTTGTAGAGTGGATCTGTGGGGGCTGACGTGGCCTCCAACGCCTAACATGGTTGAAAAGGCC [...]
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------9999999999999999999999999999999999999999999999999----999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i panTro2.chr6 N 0 C 0
+s hg18.chr6 15860456 443 - 170899992 AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTCCAGCTAAATCATCACAGTAAAAAGATGTTAATATTTATCTCCATACTCATCCTTACCAGATAGCCTTGTGCTCTTGGAATGTCGTATTTGTGAAGTGAGCAAGCAGTATGTAGAATAGCATGAGATAGACCAGTCACCAA----AGGTTGTTGATTTCTAGGAATGTCTCATGCTGGTTGCATCTGTGTGTGAACTGGGAAGTTGAGATCGCTTTCCACAGAAATTAAGCAAAATCCTGGAGGTAAGTTGTGGATAGGGATGCTGTAGACTCCCT---GACAGCATAGGAAC-TAGAACTCTGAAGC---AAGC----CA--------CTGGTGCCTAACAAATTCTTTATAAAGTTGTAGAGTGGATCCATGGGGGCTGACGTGGCCTCCAACGCCTAACATGGTTGAAAAGGCC [...]
+i hg18.chr6 N 0 C 0
+
+a score=49128.000000
+s mm9.chr10 3012441 125 + 129993255 TGGGTCCCCTTGGCACATCCAGATCTCCCCAGTTAACCTGTCCTGCTTAGACCACTTACCTGAATTG--AATTGGGAGGAGAGAAAGAAGCCAGTTTCCCAGAGAGGGAAAAGGAAAAGCTCGACAC
+s hg18.chr6 15860899 114 - 170899992 TGGGTTCCTCTAGAATAACCAAG--TCCTCACGTAACCTGGTGTGTATTGACCACCTCTCTTGACCGCTGATCTTGGGGAG----------CACCTTGCT-GAGGGCCAATGGAAAATGCTGGAAGC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16379447 114 - 173908612 TGGGTTCCTCTAGAATAACCAAG--TCCTCACGTAACCTGGTGTGTATTGACCACCTCTCTTGACCGCTGATCTTGGGGAG----------CACCTTGCT-GAGGGCCAATGGAAAATGCTGGAAGC
+q panTro2.chr6 99999999999999999999999--99999999999999999999999999999999999999999999999999999999----------999999999-99999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16160646 114 - 174210431 TGGGTTCCTCTAGAATAACCAAG--TCCTCACGTAACCTGGTCTATATTGACCACCTGTCTTGACTGTTGATCTTGGGGAG----------CACCTTGCT-GAGGGCCAATGGAAAATGCTGGAAGC
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 180525 101 - 359464 TGGGCCCCCCTGACCTGGCCAAG--TCCTCACTCACCCGGGTTTACACTGACCACC-------------AAACTTGGGGAG----------CCCTTTGCT-GAGGGGCAACAGCAAACACGGGAAGC
+q otoGar1.scaffold_334.1-359464 99999999999999999999999--9999999999999999999999999999999-------------999999999999----------999999999-99999979999999999999999999
+i otoGar1.scaffold_334.1-359464 N 0 C 0
+
+a score=117109.000000
+s mm9.chr10 3012566 262 + 129993255 --TGTGGGCTCCTCACTTTCCTG-TCTCAGGTGTGTCTGTGAGTTTCGGTGAGTGTCGTACAGGAAAGAGGGTGAAAACTCAGTCTGAGCTGTCATTCTTGCCAGCTATGTTGCTTTCCTGTCCTCTTTAGC-------TTATCTCAGGCAACCTATCTTATTTTGTT-TGCTTTC--AGAAGGCAAG---CGAtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtgtgtgtgcgtgCGCGCGCGCGAGCACATGTGCATGCATGCGCACTCGTG
+s hg18.chr6 15861013 199 - 170899992 CATGAGCCCTCCTTGTATCCCTGATCTTAGATGGGTCTATGGTTTTTGGTGGAAGCCATCCAG-AAACAGCCTCAAAATCCAGTCTGAGTTTTCATTCCTGTCAATCAATCCTCTTATTTTTTTCCTTCACTACC----TTATTTCTAGCAACACATCTTAC-TTATTCTGTTTTCCCAGAAGA-------TGAGTTGTGTATGAGTTTTGG------------------------------------------------------------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16379561 199 - 173908612 CATGAGCCCTCCTTGTATCCCTGATCTTAGATGGGTCTATGGTTTTTGGTGGAAGCCATCCAG-AAACAGCCTCAAAATCCAGTCTGAGTTTTCATTCCTGTCAATCAATCCTCTTATTTTTTTCCTTCACTACC----TTATTTCTAGCAACACATCTTAC-TTATTTTGTTTTCCCAGAAGA-------TGAGTTGTGTATGAGTTTTGG------------------------------------------------------------------
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999----99999999999999999999999-999999999999999999999-------999999999999999999999------------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16160760 199 - 174210431 CATGAGCCCTCCTTGTATCCCTGATCTTAGATGGGTCTATGGTTTTTGGTGGAAGCCATCCAG-AAACAGCCTCAAAATCCAGTCTGAGTTGTCATTCCTGTCAATCAATCCTCTTGTTTTTTTCCTTCATTACC----TTATTTCTAGCAACATATCTTAC-TTATTTTGTTTTCCCAGAAGA-------TGAGTTGTGTATGAGTTTTGG------------------------------------------------------------------
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 180626 204 - 359464 CACATGCACTCATCGTGTCTCTG-TCTTAGGCGTAGCCCTGGTTTCTGGGGAAAGCTGTCCAGAAAACCACCTGAAAACCCAGTCTCTGTGGTCATTGCTGGCAATCAGTCC-CTTATTTTTAGGTTGCCTTG------TTATTTCAGGTGACATAGCTTACTTTGTTTTGTTTTCCCAGAAGACAAGTGGTGACTTGTGTATGAGTTTTGA------------------------------------------------------------------
+q otoGar1.scaffold_334.1-359464 99999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999------9999999999999999999999999999999999999999999999999999999999999999999999999------------------------------------------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s cavPor2.scaffold_290371 310 205 - 39932 --TGCGTATCCCTTGCGATCCTGATCCGAGGTGTGGCTGTGGTTTTTGGTGAAAGCCATCCAGAAAAGAACTTCAAAACCTAGTCTAAATTGTTATTCCCTCCTGCCAATCCTCTTGTTTTTACCCCATAGTGACCTCGTTATTGCAA--AACATatcttattttgttctgttttcctggaagataaa---tgaattttgtgtgaGTTTGAG------------------------------------------------------------------
+q cavPor2.scaffold_290371 --99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999997999999999999999999999999999999999999999--99999999999999999999999999999999999999---999999999999999999999------------------------------------------------------------------
+i cavPor2.scaffold_290371 N 0 C 0
+
+a score=128047.000000
+s mm9.chr10 3012828 168 + 129993255 TTTGCATAGACTCTCTTGGCAACAAAATAACGTTATATTTAAACATCCATTAAAATAATGCACTTAGCACAGCCTGCCCTGAGGGAT----GAACACT--ATTGTTAA-AGAACTATTCCGCTAAGGCAGCAACCTCTGGATCTTCAGCATTCTGGCGCCATCTGCTGGTCATAT
+s cavPor2.scaffold_290371 515 166 - 39932 -----GTGGGATGTCTTGACAGCTAAATAGTcttatatttaagcatttatGAAAATAATGAGGTTATCATGGTTCGCTCTAGTAGCTCTGAGACCTTT--ATTGTCAGCAAAGCTGTTTAGC--AGGAGGCAACTTCAGGTTCCGTGGGATTCTAGTGCCATCTGCTGGTCATAT
+q cavPor2.scaffold_290371 -----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999--999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_290371 C 0 C 0
+s otoGar1.scaffold_334.1-359464 180830 161 - 359464 -----GTGGACATTCGTGACAGGCAAATAGTGTTCTATTTAAACATTTGTTGAAATGATAAACTTAGCTCAGCC--CCTT---AGAAGTG-AGAGGCT--ACTGTCAGGGAAGCGGTTTTGCG-GAGCAGCAGCCTCAGGATCTGTGGGATTTTAGCGCCATCTGCTGGTCACAG
+q otoGar1.scaffold_334.1-359464 -----999999999999999999999999999999999999999999999999999999999999999999999--9999---9999999-9999999--99999999999999999999989-996999999999999999999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s ponAbe2.chr6 16160959 161 - 174210431 -----GTGGACTATCCTGACAACCAAATAGCGTTATATTTAAACATTTATGAAAATAATAAGCTTAGCATAACCTGCCTTGACAGATGTG-GTATGC-------CTAGTGAAGTTGTTTAGCT-AAGGCTCAATCTCAGGATCTGTGGGACTCTAATGCCATCTGCTGGTCACAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16379760 161 - 173908612 -----GCGGACTATCTTGACAACCAAATAGCGTTATATTTAAACGTTTATGAAAATAATAAGCTTAGCATAACCTGCCTTGACAGATGTG-GTATGC-------CTAGTGAAGTTGCTTAGCT-ATGGCTCAATCTCAGGATCTGTGGGACTCTAATGCCATCTGCTGGTCACAC
+q panTro2.chr6 -----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999-------9999999999999999999-999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15861212 161 - 170899992 -----GTGGACTATCTTGACAACCAAATAGCGTTATATTTAAACGTTTGTGAAAATAATAAGCTTAGCATAACCTGCCTTGACAGATGTG-GTATGC-------CTAGTGAAGTTGCTTAGCT-ATGGCTCAATCTCAGGATCTGTGGGACTCTAATGCCATCTGCTGGTCACAC
+i hg18.chr6 C 0 C 0
+s echTel1.scaffold_288249 87492 169 + 100002 TTGGGGTGGATGCTCTTGGCAGTCACACAGTGCTCTATTTTAGGATTTACTAGAACAATGAGTTTGTCATAACT-GCCTCCTCCCAAGTG-GGAAGCTGAAGCACCAA-GTACTGACTCAGC--AGTCCCTGACCTCA-CATCCATGGAAATCTAGTGACATCTGCTGGACACAT
+q echTel1.scaffold_288249 99989999998979665899999999999676899897997899979878899999999999999999999999-999999999999999-99999999999999999-9999999999999--99999999999999-999999999999999999999999999999999999
+i echTel1.scaffold_288249 N 0 I 7564
+
+a score=98097.000000
+s mm9.chr10 3012996 222 + 129993255 AGATGTCTGCTGTGGAGA-------CCTGGCCAACTTTG----CTT--TCTTC-----AAAAAGGCAACAGAAGGTAATCAGTTGAATGCCCACCA-----TTAGGAAGGCGACCTCTAGTGCACAAACCTTGAC-ATTTTCCCTTTTAATGGAA-TTTAACAGAAGTTCAGGATGTTCTTTGGGTAATTTACAATT---A----GGGGGCAAAAATCAAAAGTATTTCGAGCATATCAAAACTGTTAGCTATG
+s cavPor2.scaffold_290371 681 177 - 39932 TGACGTCTGCAGCCACGG-------GCTGGCTAACTCCA--GTCTT--CCGCG-----CTAAAGCCGAC--------------------CACACCACATAGTGGGGAGAGTGACCTCTAGCGGAAAagctttgca-atttttttcttc----gAC-TCTGTCAG--GTTCAGAATTCCATTTAAACAATTTacagct---a----gaaaaggaaaagcagaggCATTT--------------------------
+q cavPor2.scaffold_290371 999999999999999999-------99999999999999--99999--99999-----99999999999--------------------9999999999999999999999999999999999999999999999-999999999999----999-99999999--9999999999999999997999999999995---6----99999999999336991774687--------------------------
+i cavPor2.scaffold_290371 C 0 N 0
+s hg18.chr6 15861373 184 - 170899992 TGATGGCTGCTGCCATCA---CTTTCTTGGCCTACTCTGCTGTCTT--ACTCT-----ATAAGACTAAC--------------------AGGACCCCATAGTTAGGAGAGCGACCTCTAGCGAGCAGGCCTTGGC-ATTTTTCTTTTTAATTGAA-TTCATAAA-GGCTTAGAATGCCATTTAGACAATTTGTAATG---GTGGGGGGAGGTAAGAGTAT----------------------------------
+i hg18.chr6 C 0 I 14
+s panTro2.chr6 16379921 184 - 173908612 TGATGGCTGCTGCCATCA---CTTTCTTGGCCTACTCTGCTGTCTT--ATTCT-----ATAAGACTAAC--------------------AGGACCCCATGGTTAGGAGAGCGACCTCTAGCGAGCAGGCCTTGGA-ATTTTTCTTTTTAATTAAA-TTCATAAA-GGCTTAGAATGCCATTTAGACAATTTGTAATG---GTGGGGGGAGGTAAGAGTAT----------------------------------
+q panTro2.chr6 999999999999999999---9999999999999999999999999--99999-----99999999999--------------------9999999999999999999999999999999999999999999999-9999999999999999999-99999999-99999999999999999999999999999999---99999999999999999999----------------------------------
+i panTro2.chr6 C 0 I 14
+s ponAbe2.chr6 16161120 217 - 174210431 TGATGGCTGCTGCCATCA---CTTTCTTGGCCTACTAGGCCGTCTT--ACTCT-----ATAAGACTAAC--------------------AGGACCCCATAGTTAGGAGAGCGACCTCTAGCGAGCAGGCCTTGGA-ATTTTTCTTTTTAATTGAA-TTCATAAA-GGCTTAGAATGCCATTTAGACAATTTGTAATG---GTGGGGGGAGGTAAGAGTATAAATATTGAATGTAT-TCAAACCTGTCAATGATG
+i ponAbe2.chr6 C 0 I 2
+s otoGar1.scaffold_334.1-359464 180991 226 - 359464 GGACGGCCGCCGCCACCACCGCTTTCCCTGCCAACTCCACCGTCTTAAATTCTGCAACAAAAGAAAAAT--------------------CGGACCCTGCAGTTACTAGAGCGACCTCTGGTGAACAAGCCTTGGATTTTTTTCTTTTTAATTGAATTTTACAAC-GGCTCAAAATGCAAGTTAGACAATTCATAGTGTATGTGTGGGGACCTGAGAGTGCAAATATTGCTGGCAT-TCAGCCTTGTTA------
+q otoGar1.scaffold_334.1-359464 999998999999999999999999999999999999999999999999999999999999999999999--------------------999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999699999999999999999999999999-999999999999------
+i otoGar1.scaffold_334.1-359464 C 0 I 2931
+s tupBel1.scaffold_114895.1-498454 167217 159 - 498454 TGATGGCTACAGCTGTCA---CTTTCTTGGACCACTCAGCTCTCTC--AAC-------GAAAGACAAAC--------------------TGGATCCTCCGG---GAGAGGAGACCTCTAGTGAGCAAACCTTGGA-ATTTTTCTTTAAAACAGAA-TTTATAAA-GGTTCA-AATGCCATTTAGACAACTTATAATT---A-----------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 234233433332122232---1582112220212134443324332--133-------23732111754--------------------365002326236---2411112335242535353245936522224-1376645373578253554-58324573-545454-8444565585455465799967999---9-----------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 N 0 I 4145
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=0.000000
+s mm9.chr10 3013218 319 + 129993255 agccaggcgtggtggcacacacctttactcccagcatttggggggcagaggcaggtggatctgtgagtttgaggccagcctggtctacagagggagtctcaggacagccagagctacacagaaataacctgcctagaaaaacaaaacaaaacaaaacatcaaaactcaaaacaaaTAAAAAAAATAAAAAACCCAACCTAAACCAAATAACAAAACAAA
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e hg18.chr6 15861557 14 - 170899992 I
+e panTro2.chr6 16380105 14 - 173908612 I
+e ponAbe2.chr6 16161337 2 - 174210431 I
+
+a score=40604.000000
+s mm9.chr10 3013437 166 + 129993255 TCCAAAATGGTTAGCTATGCCCAACTCCTTTCACTCCAAGAAAATATCCTAACCATGTAAGAGAGCTAGCCTGTTGGTGGCAGCCAAGCCTGATGGTGGCAGACTAGATTGATGGTGCCAGACTACTTTATGGCTGTATCATTTTCCATTCATGTGTTGTGTTATA
+s panTro2.chr6 16380119 130 - 173908612 TTCAAACCTGTCAATGATGTTCAACTCTTTTCACTGTGGATAAAGATCTTCTAGATGCAATAGAATTAGATT------------------------------------TTGGCGATTACATCCTATTTTATGGGTGTATCGTTTTGCATTCATGGGCTGTTTGATA
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999999999------------------------------------9999999999999999999999999999999999999099999999999999999999
+i panTro2.chr6 I 14 I 9106
+s hg18.chr6 15861571 130 - 170899992 TTCAAACCTGTCAATGATGTTCAACTCTTTTCACTGTGGATAAAGATCTTCTAGATGCAATAGAATTAGATT------------------------------------TTGGCGATTACATCCTATTTTATGGGTGTATCGTTTTGCATTCATGGGCTGTTTGATA
+i hg18.chr6 I 14 I 9085
+s ponAbe2.chr6 16161339 109 - 174210431 ---------------------CAACTCTTTTCACTGTGGATAAAGATCTTCTAGATGCAATAGAATTAGATT------------------------------------TTGGCGATTACATCCTATTTTATGGGTGTATCGTTTTGCATTCATGGGCTGTTTGATA
+i ponAbe2.chr6 I 2 I 8044
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+
+a score=0.000000
+s mm9.chr10 3013603 1041 + 129993255 CCTTCTTAAGAACACTAGACTCAggactggggagatggctcagcagttaagaatcggtgctgttaagagtgggagacaagtttggttcccagctcccacattggtcagctcacagccacccgtaactctaagatggtacacacctttaatcccaggagacagaggcaatcagatctgagttcaagattcagcctgagacagagcatgttccaaattcaggcatggtgggtcatacctttaatatgggacataccttctgctggaggcctacctaaggacaacggagaaaggaagtattcgttcttctcctgcttgcacttacttgccagcgcatctactggaacccacttcttcaggattccagcttatacaggagaccagctgaaatatccagcctctcgggactgaacaagtactagagtctcagactt [...]
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e hg18.chr6 15861701 9085 - 170899992 I
+e panTro2.chr6 16380249 9106 - 173908612 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=19159.000000
+s mm9.chr10 3014644 45 + 129993255 CCTGTACC---CTTTGGTGAGAATTTTTGTTTCAGTGTTAAAAGTTTG
+s hg18.chr6 15870786 46 - 170899992 CCTATACCTTTCTTTTATGAGAA-TTTTGTTTTAATCCTAAAC-TTTT
+i hg18.chr6 I 9085 C 0
+s panTro2.chr6 16389355 46 - 173908612 CCTATACCTTTCTTTTATGAGAA-TTTTGTTTTAATCCTAAAC-TTTT
+q panTro2.chr6 99999999999999999999999-9999999999999999999-9999
+i panTro2.chr6 I 9106 C 0
+s calJac1.Contig6394 6182 46 + 133105 CCTATACCTTTCTTTCATGAGAA-TTTTGTTTGAATCCTAAAC-TTTT
+i calJac1.Contig6394 N 0 C 0
+s loxAfr1.scaffold_75566 1167 34 - 10574 ------------TTTGGTTAGAA-TTATGCTTTAATTCAAAAC-TTCC
+q loxAfr1.scaffold_75566 ------------99999699899-9999999999999869998-9997
+i loxAfr1.scaffold_75566 N 0 C 0
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 181217 2931 - 359464 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=40840.000000
+s mm9.chr10 3014689 53 + 129993255 GGGAGCATAAAACTCTAAATCTGCTAAATGTCTTGTCCCT-TTGGAAAGAGTTG
+s hg18.chr6 15870832 53 - 170899992 GGGATCATAAACCATTTAATCTGTGAAATATCTAATCTTT-TGGGAAATAGTGG
+i hg18.chr6 C 0 I 401
+s panTro2.chr6 16389401 53 - 173908612 GGGATCATAAACCATTTAATCTGTGAAATATCTAATCTTT-TGGGAAATAGTGG
+q panTro2.chr6 9999999999999999999999999999999999999999-9999999999999
+i panTro2.chr6 C 0 I 400
+s calJac1.Contig6394 6228 53 + 133105 GGGATCATAAGCCATTTAATCTGTGAAATGTGAAATCTTT-TGGGAAACAGTGG
+i calJac1.Contig6394 C 0 I 2
+s otoGar1.scaffold_334.1-359464 184148 52 - 359464 GGAAGCATAAACT-TTTAATCTATGAAATATCAAATCACT-TGGGCAATAGCTG
+q otoGar1.scaffold_334.1-359464 7455455669566-99665699769895555689997599-9984787795599
+i otoGar1.scaffold_334.1-359464 I 2931 I 2
+s loxAfr1.scaffold_75566 1201 54 - 10574 GGGAGTATAAACCATTTAGTCTGCGAAATGCCAAATCTTCAGGGGAAAAAGCTG
+q loxAfr1.scaffold_75566 899989799999979999999999999999797999999999999999999999
+i loxAfr1.scaffold_75566 C 0 I 2
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=411.000000
+s mm9.chr10 3014742 36 + 129993255 AAGTTCCCTCCATAATTCCTTCCTCCCACCCCCACA
+s calJac1.Contig6394 6283 28 + 133105 AAATGTA-----TGATCTCCCCATCCTGCCCTG---
+i calJac1.Contig6394 I 2 I 54
+s otoGar1.scaffold_334.1-359464 184202 31 - 359464 AGATTTC-----TGATGCCCTCACCCCCTCCGTGCA
+q otoGar1.scaffold_334.1-359464 9996999-----965974999999999999999999
+i otoGar1.scaffold_334.1-359464 I 2 I 24
+s loxAfr1.scaffold_75566 1257 27 - 10574 AGGCTTA-----TG----CCACCCCCCACCCCCACA
+q loxAfr1.scaffold_75566 9999999-----99----997999999999999999
+i loxAfr1.scaffold_75566 I 2 I 25
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e hg18.chr6 15870885 401 - 170899992 I
+e panTro2.chr6 16389454 400 - 173908612 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3014778 17 + 129993255 TCCCATGTCCACCCTGA
+e loxAfr1.scaffold_75566 1284 25 - 10574 I
+e calJac1.Contig6394 6311 54 + 133105 I
+e tupBel1.scaffold_114895.1-498454 167376 4145 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 184233 24 - 359464 I
+e hg18.chr6 15870885 401 - 170899992 I
+e panTro2.chr6 16389454 400 - 173908612 I
+e ponAbe2.chr6 16161448 8044 - 174210431 I
+
+a score=-12243.000000
+s mm9.chr10 3014795 47 + 129993255 GTTTCAGGGGCAGCTCGCTG----------------TTAGCAG-CTAAGGCATGGTGTCTCTCA
+s otoGar1.scaffold_334.1-359464 184257 60 - 359464 ---TCGGGAACAAGTTGCAGTCATGGATAT-TTGGTTTAGATGGTTTAGGTGGGGTGTATTTCT
+q otoGar1.scaffold_334.1-359464 ---899999999999999999999999999-999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 24 C 0
+s calJac1.Contig6394 6365 39 + 133105 -------------------GCCATGAATAT-----TTTAGAC-ATGCAGGTGTGGCGTGTTTCT
+i calJac1.Contig6394 I 54 C 0
+s hg18.chr6 15871286 20 - 170899992 --------------------------------------------aGCAGGTGTGGCATGTTTCT
+i hg18.chr6 I 401 C 0
+s panTro2.chr6 16389854 20 - 173908612 --------------------------------------------aGCAGGTGTGGCATGTTTCT
+q panTro2.chr6 --------------------------------------------99999999999999999999
+i panTro2.chr6 I 400 C 0
+s ponAbe2.chr6 16169492 20 - 174210431 --------------------------------------------aGCAGGTGTGGCATGTTTCT
+i ponAbe2.chr6 I 8044 C 0
+s tupBel1.scaffold_114895.1-498454 171521 27 - 498454 ------------------------------------TTAGAAA-TGTGGGTGTGGCGCATCGCT
+q tupBel1.scaffold_114895.1-498454 ------------------------------------9999999-99999989998899999699
+i tupBel1.scaffold_114895.1-498454 I 4145 C 0
+s cavPor2.scaffold_216473 7816 26 - 10026 ------------------------------------TTAGAAA-TTTAGGTGTGGCATGGTTC-
+q cavPor2.scaffold_216473 ------------------------------------4255831-1324566557465575854-
+i cavPor2.scaffold_216473 N 0 C 0
+s loxAfr1.scaffold_75566 1309 62 - 10574 GTT-TGAGAGCAAGTTTAGGACATCAATACGTTGTTTCAGAAA-TTGAGGTTTGCTGTATCTCt
+q loxAfr1.scaffold_75566 999-999999999999999999999999999999999999999-99999999999999999999
+i loxAfr1.scaffold_75566 I 25 C 0
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=320596.000000
+s mm9.chr10 3014842 186 + 129993255 C--TTGGGA---------TGCTTTATAGTGGAAATGGAAAGCA----A-TTTATTTAGATCTTAAATCATTTT-GAAGGTTAATAAAATGACCATATTAATATTCCCATGAACAAAGCCTTCATTT----TTAAAATATTGCATCCTATAATACACATAA-ATCTTGT-----TCTCGtttttatttttt----tatt-tat-----------------------ttattttttttt------------cttt
+s loxAfr1.scaffold_75566 1371 245 - 10574 tatttttgatttttttttttttttaaaGCTGAAGTGAAAGTCACACTG-TTTCTTTTGGCCATAAATCCCTTT-GAAGTATAATGAAATTTTCACTTTAATATTCCTGTGAACAATACCCTCATTT-AAAAAAAAAAATTGGGTTTTATACCACACACAGCATCTTTTCAAAATCTCATTCCC-TTTTTAAGCAGGTG-TCT---TAGCAAGTTCACTCTCTCTCTCTTTTTTCATTGACTTTGGCCAAATCT
+q loxAfr1.scaffold_75566 999999999999999999999999999999999999999999999999-999999999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999-99999999999999-999---999999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_75566 C 0 C 0
+s cavPor2.scaffold_216473 7842 198 - 10026 ---TTTGGA---------TA-TTCACAGTTGGAATGAAAGGCACCCTG-TTTCTTTAGGACTTAAATCCTTTT-GAAGTATAATAAAATGATCACATTAATATTCCTACTAACAATGCCCTCATTT----AAAAAAGTTTGGATTTTGTACCACATACAGCATATTTCCAACATCTCATTTCCTTCTTCTGGCAGGTT-TAt-----------------------tagtctctcttt------------ctct
+q cavPor2.scaffold_216473 ---610137---------77-200195531236266876425368858-778987956887868956898956-8988778987788768588885664786777656586678636299978766----89979789936989956687867689995888978886997659897789899998996778899997-989-----------------------998799999777------------9899
+i cavPor2.scaffold_216473 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 171548 215 - 498454 CCTTTTGGA---------TTTTTTACAGCTGAAATAAAAAGCACACTG-TGTCTGTAGGTCTTAAATCCTTTT-GAAGTATAATAAAATGATCACTTTACTATTCCTGTGAACAATGCCCTCATTT---TACAAAATCTGGGATTTTATACCACGTACAGCATATTTCCAAAATCTCATTTCC-TTTTTTGGCAGGTT-TAT---TAGCAAGTTCCCT-------TTTTGTCTATTG------------ACTT
+q tupBel1.scaffold_114895.1-498454 989999999---------899999998999999999999999999999-999999999999999999999999-9999998999999999999999999999999999899999999999999999---998899999999973999999998999999999999999979999999999999-99999997699849-999---9999999999999-------999999999999------------9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s ponAbe2.chr6 16169512 219 - 174210431 CCTTTTGGA---------CTTTTTATAGCTGAAATGGAAGGCACACTG-TTTCTTTAGGTCTTAAATACTTTT-GAAGTATAATAAAACGATCACTTTAATACTCCTGTGAGCAATGTCCTCTTTT---AAAAAAATCCTGGATTTTATACCACATGCAGCATATTTCTGAAATCTCATTTCC-TTTCTTGGCAGGTT-TATTTATAGCAAGTTATCTC------TCTCTCTTATTT------------ACTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16389874 168 - 173908612 CCTTTTGGA---------CTTTTTATAGCTGAAATGGAAGGCACAATA-TTTCTTTAGGTCTTAAATACTTTT-GAAGTATAAAAAAATGATCACTTTAATACTCCTGTGAACAATGCCCTCTTTTT--AAAAAAATCCTGGATTTTATACCACATGCAGCATATTTCTGAAATCCCATTT------------------------------------------------------------------------
+q panTro2.chr6 999999999---------999999999999999999999999999999-999999999999999999999999-99999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999------------------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15871306 169 - 170899992 CCTTTTGGA---------CTTTTTATAGCTGAAATGGAAGGCACAATA-TTTCTTTAGGTCTTAAATACTTTT-GAAGTATAAAAAAATGATCACTTTAATACTCCTGTGAACAATGCCCTCTTTTT-AAAAAAAATCCTGGATTTTATACCACATGCAGCATATTTCTGAAATCTCATTT------------------------------------------------------------------------
+i hg18.chr6 C 0 C 0
+s calJac1.Contig6394 6404 223 + 133105 TCTTTTGTA--------TTTTTTTATAGCTGAAAAGGAAGGCACACTG-TCTCTTTAGGTCTTAAATACGTTT-GAAGCATAATAAAATGATCACTTTCATACTCCTGTGAATAATGCCCTCCTTTTAAAAAGAAATCTTGGATTTTATATCACACGCAGCATATTTCTGAAATCTCATTTCC-TTTCCTGGCAGGTT-TATTAATAGCAAGTTCTCTC------TCTTATTTATTT------------ATTT
+i calJac1.Contig6394 C 0 C 0
+s otoGar1.scaffold_334.1-359464 184317 222 - 359464 TATTTTGGG--------CTTTTTTATGGGTGAAATGAAAGGCACACTG-TTTTTTTAGGACTTAAATCCTTTT-GAAGTATAATAAAACGATTACTTTACTGTTCCTGTGAACAATGCCCTCATTT---AAAAAAATCTTGGATTTTATACCAGATCCAGCATATTTCCAAAATCTCATTT-C-CTTTTTGGCGGGTT-TGT---TAGCAAGTTCTCTCCGGCTTTCTTCTTCTTTT------------TCTC
+q otoGar1.scaffold_334.1-359464 999999999--------9999999999999999999999997999999-999999999999999999999999-9999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999-9-99999999999999-999---99999999999999999999999999999999------------9999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s ornAna1.chr2 14750994 201 - 54797317 --CCTTGGA---------AATGTTACTGCAAAAGTGAAAGGCTCATTGTTTTCTTTCTATCTTAAGCCTTTTTAAAAGTGTATTGTAATTATGATCTTCATTTCCCCGCTAACAAAGCCCTCATTA----AAATATCTTTGTATTTTA-ACGACATACAGCCCATTTCCAAAATCTTAGTTCC-TTTTTGGGTGCATTGTAT---TAAC----------------CGTTCTCTCTTT----------------
+i ornAna1.chr2 N 0 I 5690
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=-36127.000000
+s mm9.chr10 3015028 58 + 129993255 ccatttt----------ttattaggtatttagctcatttacatttccaatgctatac----caaaagtcccc
+s loxAfr1.scaffold_75566 1616 33 - 10574 TCACTTCTA---------------------------------------CCTCCATTCCTTACAAAAGTTCTC
+q loxAfr1.scaffold_75566 999999999---------------------------------------999999999999999999999999
+i loxAfr1.scaffold_75566 C 0 N 0
+s cavPor2.scaffold_216473 8040 8 - 10026 ctgtgtc----------t------------------------------------------------------
+q cavPor2.scaffold_216473 6788989----------9------------------------------------------------------
+i cavPor2.scaffold_216473 C 0 I 1372
+s tupBel1.scaffold_114895.1-498454 171763 1 - 498454 T-----------------------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 9-----------------------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 2374
+s ponAbe2.chr6 16169731 12 - 174210431 TTTTGCCTTTTC------------------------------------------------------------
+i ponAbe2.chr6 C 0 I 75
+s calJac1.Contig6394 6627 22 + 133105 TGCTTTTTCTCAAATCTCCACT--------------------------------------------------
+i calJac1.Contig6394 C 0 I 3479
+s otoGar1.scaffold_334.1-359464 184539 36 - 359464 TTTTTTCTATT------------GACTTTTGCCAAATATTCACTTCCA------------------------
+q otoGar1.scaffold_334.1-359464 99999999999------------9999999999999999999999999------------------------
+i otoGar1.scaffold_334.1-359464 C 0 I 137
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e hg18.chr6 15871475 0 - 170899992 C
+e panTro2.chr6 16390042 0 - 173908612 C
+
+a score=0.000000
+s mm9.chr10 3015086 2572 + 129993255 catacccacccacccccactcccctacccgcccactccccctttttggccctggcgttcccctgttctggggcatataaagtttgtgtgtccaatgggcctctctttccagtgatggccgactaggccatcttttgatacatatgcagctagagtcaagagctccggggtactggttagttcataatgttgatccacctatagggttgcagatccctttagctccttgggtactttctctagctcccccattgggagccctgtgatccatccattagctgactgtgggcatccacttctgtgtttgctaggccccggcatagtctcacaagagacagctacatctgggtcctttcgataagatcttgctagtgtatgcaatggtgtcagcgtttggatgctgattatggggtagatccctggataaggcag [...]
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e hg18.chr6 15871475 0 - 170899992 C
+e panTro2.chr6 16390042 0 - 173908612 C
+e ponAbe2.chr6 16169743 75 - 174210431 I
+
+a score=12170.000000
+s mm9.chr10 3017658 85 + 129993255 TTTTTATTTGCAGGTTTCTTTAC----AGTTCTCTTTCATTCTTCTCCTCTTTTCTTCTGTTGACCTTTATCAGATTTCTGCTTTAACC
+s hg18.chr6 15871475 83 - 170899992 CCTTTCTTGGCAGGGTTATTTATAGCAAGTTATCTCTCTCTCTTA------TTTATTTTTTTGCCTTTTCCCAAATCTCCACTTCCACC
+i hg18.chr6 C 0 I 53
+s panTro2.chr6 16390042 83 - 173908612 CCTTTCTTGGCAGGGTTATTTATAGCAAGTTATCTCTCTCTCTTA------TTTATTTTTTTGCCTTTTCCCAAATCTCCACTTCCACC
+q panTro2.chr6 999999999999999999999999999999999999999999999------99999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 53
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e ponAbe2.chr6 16169743 75 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3017743 418 + 129993255 ACCACAGACCTTCTGTTTAGTCCAAAGGACGCAAATTATGTATCCACTTtagtaggaggctgacccgcagcctacatgaaccaggtatttctggaaggcaggctggggttgaaagagaaattagatggtgagaaaagaataatgaggccaagacaaatttttctcttatcaaggcccaagagagtttactaagagactatgcttaaaagggggaaggcccatcccccccccccctcgcgccagtctatccttggtgctttgtcaccatgccatcagcacttggtcggcaggtagcagaatctcagggcagttgacacttcaaaagaaaccagccaagtcagaaagctgcactgcaggagacctgcactcagtggtgacaaggtctgtaccagcctgcttcaggctgggggaggctaca
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e hg18.chr6 15871558 53 - 170899992 I
+e panTro2.chr6 16390125 53 - 173908612 I
+e ponAbe2.chr6 16169743 75 - 174210431 I
+
+a score=22499.000000
+s mm9.chr10 3018161 69 + 129993255 ATCCACAAAAGAGAC-----AAAGAAGAAAACCAAAAGAAAAGATTGTAGCTTAAAACAATTCCATTTTATTGA
+s panTro2.chr6 16390178 65 - 173908612 ACCTACAAAGG---------AAAACAATTAACCATAAGAAAAGTTTGTACCATAAAACAATTTTATTTTATTGA
+q panTro2.chr6 99999999999---------999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 53 C 0
+s hg18.chr6 15871611 65 - 170899992 ACCTACAAAGG---------AAAACAATTAACCACAAGAAAAGTTTGTACCATAAAACAATTTTATTTTATTGA
+i hg18.chr6 I 53 C 0
+s ponAbe2.chr6 16169818 61 - 174210431 -------------ACAAAGGAAAACAATTAACCATAAGAAAAGTTTGTACCATAAAACAATTTTATTTTATTGA
+i ponAbe2.chr6 I 75 I 97
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+
+a score=4781.000000
+s mm9.chr10 3018230 129 + 129993255 AGGA-CAAAATAATACAGAtttttttttttttttttttttGCAGTACTGGAAATGGAATGAATGTCCCTCACAATCACTATCAAGGTCCCTATCAAGGCAATCACTCTGTCACCGAGCTA-CAGCCCCAGC
+s hg18.chr6 15871676 95 - 170899992 ATAATCCAATCAATATATAT---------------------CAGAACCTGGCTCCCAATG-----TTCTGATAGTCATTATGAA----------AAAGAATTTACACATATATAGATTTATTAGGTATATG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16390243 95 - 173908612 ATAATCCAATCAATATATAT---------------------CAGAACCTGGCTCCCAATG-----TTCTGATAGTCATTGTGAA----------AAAGAatttacacatatatagatttattaggtatatg
+q panTro2.chr6 99999999999999999999---------------------9999999999999999999-----9999999999999999999----------9999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184575 137 - 359464 I
+e ponAbe2.chr6 16169879 97 - 174210431 I
+
+a score=61520.000000
+s mm9.chr10 3018359 123 + 129993255 TT-CAAACATGCATACATGCATTCATGTCTCATAA-TAATTATTAACA-TTGTCTTAGGCCAGAGGCTCGACTGCCCCAAAGCAATCCACT-------TAAACTGTCCCTGAGAA-AGTCAttcctctccctaa
+s panTro2.chr6 16390338 131 - 173908612 -tataaatgtacaaatatatgtgtatgtCTCATAAATAATTATTAACAGTCATCTTAGGTCAGTGGCCTGAGTGATACAAACTAAGCCATCCATATTTTATATTCTCTCCGGGAAGGGTCATCCTTTTCTTT--
+q panTro2.chr6 -99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 C 0 I 2400
+s hg18.chr6 15871771 131 - 170899992 -TATAAACGTACAAATATATGTGTATGTCTCATAAATAATTATTAACAGTCATCTTAGGTCAGTGGCCTGAATGATACAAACTAAGCCATCCATATTTTATATTCTCTCCGGGAAGGGTCATCCTTTTCTTT--
+i hg18.chr6 C 0 I 2402
+s otoGar1.scaffold_334.1-359464 184712 127 - 359464 TT-TATACATGTATGTGTAAATGTAGGTCCTGTAAGTAATTATTAACATTTGTCTTAGGTTAGAGGCCCGAGTGACACAAGCTAACCCATCC------TATCCTCCCTGTGTGAAGGGTCATCCTTTCTTCTGA
+q otoGar1.scaffold_334.1-359464 99-99999999999999999999999999999999999999999999999999667736999999999999999999999999999995666------677755798899998999967967999999999589
+i otoGar1.scaffold_334.1-359464 I 137 I 2731
+s ponAbe2.chr6 16169976 129 - 174210431 ---taaatgtacaaatatatgtgtatgtgtcataaataATTATTAACAGTCATCTTAGGTCAGTGGCCTGAGTGATAGAAACTAAGCCATCCATATTTTATATTCTCTCTGGGAAGGGTCATCCTTTTCTTT--
+i ponAbe2.chr6 I 97 I 2523
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+
+a score=0.000000
+s mm9.chr10 3018482 162 + 129993255 tcttcatctcctcttttcctccttttttttttctcatttctctttctctttcttttgtccttttccttTATAGCAAGCAAGGCAAGTAGTCTCTATTTAGAAGGCATggagagaatggggagaggaggaaaggaggagaggggaggagaggaggggagGTAT
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=1520.000000
+s mm9.chr10 3018644 178 + 129993255 AGGGTAGGCCAAGTGCCTTGGGAAGTAGTTGTTGGTAGACTGAAAGTGTGTTC---TGAGTGTCAGTGATGTTCA-TGAGATTATCACCAGCAAGGATG--GCTGACGGGAACTG---CAAGAGGCATAGCCCTGAGTTCTAAAGGAGAGGGAAACGTCACAGAAAGGATG--------------------------CACTGTTTCAGCATCT
+s canFam2.chr1 78070420 204 - 125616256 AGAAAAGGCAAATGCCCCTGGGAGGGA-----TAGCACATTGA--GTTTATTCACATGCGTGTAAGTGATGGATACTGAGATCCTCTCC--TAAGGATGCGGTTGATGGAATCAGAAGCAAATACCACCAGCCAGAACTCTAAAATGAGAGGAAAGATCATGGATAGAATAGAATTGTAATATGAAATATAAAATTTCCCTATTGAAGAATTT
+q canFam2.chr1 999999999999999999999999999-----99999999999--99999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 N 0 I 160
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=1986.000000
+s mm9.chr10 3018822 110 + 129993255 CTGCCTTCCATTACGATTTACTGATCACTTACAACCCTCCCACA----GAAGAGAACCTAACTTG-CTTAGGAGCATATGTACAGTTAATCAAGAC-----AAAAATAAGAATGGAGACt
+s canFam2.chr1 78070784 119 - 125616256 CTTTTTTTCCCTGCCCATTATTACTCACTTAAAATTCTCC-ACATTGTAAAGGGAATTCAAATCGACTTCTAGAGATGCACACAATTTAGCAAGATCAACTAAAAATAAGTATGGAAAAT
+q canFam2.chr1 9999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 160 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3018932 339 + 129993255 gtctgagttagggttttactgctgtgaacagacaccatgaccaaggcatgtcttataaaaaaaatttaattagggctggcttacagattcagaggttcagtgggagcatcaaggtgggggcatggcagcatccaggcaggcatggtgcaggcagagctgagagttctacatcttcatccaaaggcttctagtggaagactgacttccaggcacctagggtgagggtcttaagcccacacccacagtgacacacctattccaaccaggtcacacctattccaacaaggccatacctccaaatggcaccactcctggtccaagaatatacaaaccatgaca
+e canFam2.chr1 78070903 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=228.000000
+s mm9.chr10 3019271 106 + 129993255 GAGACCAAATG------------TGGCGCTCACG-TGAGGCCAGGAGTAAATCGCACACACAGCCCATGCTTTCACCATCTGCTAGGGTGCTCTGGAGCAGGGCAGGCTTCTAACCTGG
+s canFam2.chr1 78070903 106 - 125616256 GAGGC-AAATGGAAAATGCCCCACGATGTCCAGGCTGTGTCCATGTGTGA--CGCACATGCTGTCC----------CACCTGCTTCTATTCACTTGACACACATAGGTCCCAAACCTGG
+q canFam2.chr1 99999-99999999999999999999999999999999999999999999--99999999999999----------9999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=10938.000000
+s mm9.chr10 3019377 88 + 129993255 CCCCAGCATTCTGGCAGACACAGTG-AAAAGAGACAGATGGTCACTAATAAAATCTGT-ATAAATTAG-ATCTCAGAGGATGGATGGACCA
+s felCat3.scaffold_205680 72509 88 - 119354 CCCAAGTGTTCTGATAGCTAATGTGAAAAAGAAGCATGTGCCCACCAGTAAGCTTTGTGGTGAACTAGAATCTCAGAGGATG---GGACTC
+q felCat3.scaffold_205680 9999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999
+i felCat3.scaffold_205680 N 0 C 0
+s canFam2.chr1 78071009 88 - 125616256 CCCAAGTGTTCTGATTGCCTCTGTGAAAAAGAAACATGGGCCCGCTAATAagatttgcaatgacctagaatctcagaggatg---ggactc
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999
+i canFam2.chr1 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 6649 3479 + 133105 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15871902 2402 - 170899992 I
+e panTro2.chr6 16390469 2400 - 173908612 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=36924.000000
+s mm9.chr10 3019465 47 + 129993255 AAGATAGATATTTAGAAGTAGCTTTTTATGTTTTTCTGATGTGTGTT
+s calJac1.Contig6394 10128 47 + 133105 aacaTCTATATTTTGAAATGGCTTTTCATGTTACTCTGATGTGTGTC
+i calJac1.Contig6394 I 3479 C 0
+s panTro2.chr6 16392869 40 - 173908612 -------atattttgaaatggcttttcatgttattctgatgTGTTTT
+q panTro2.chr6 -------9999999999999999999999999999999999999999
+i panTro2.chr6 I 2400 C 0
+s hg18.chr6 15874304 40 - 170899992 -------atattttgaaatggcttttcatgttattctgatgTGTTTT
+i hg18.chr6 I 2402 C 0
+s canFam2.chr1 78071097 44 - 125616256 ---aggtatatttaaaaatagctcttcatgttgttctaatgtgtgtt
+q canFam2.chr1 ---99999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 72597 43 - 119354 ---ACGTGTTTTTAAAAATAG-TTTTCATGTTGTTCTGATGTGTGTT
+q felCat3.scaffold_205680 ---999999999999999999-9999999999999999999999999
+i felCat3.scaffold_205680 C 0 I 193
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=20303.000000
+s mm9.chr10 3019512 92 + 129993255 TGCATCATTAAGACTAGAGTTCCT---------------TTCTGTCTT---TGCTTTCTTG--------ACAGGGCCATGCTCGGCAGTCATTCTTAGACTGCTTTTTGTTTgtttgg
+s calJac1.Contig6394 10175 86 + 133105 --CCTCATGAAGGCCCAAGTTCCTAAA-----ACATTAATTCTCTTCC---TATTTCCTAGCTGTCTCGCCTAGGCCTTGCCCGCCAGCAATTCCC----------------------
+i calJac1.Contig6394 C 0 C 0
+s panTro2.chr6 16392909 93 - 173908612 --CTTCATTAAGGCCCAAGTTCCTAAA-----ACATTCATTCTCTTCC---TCTTTTCTAG------AAAAGAGGTCTTGCCCGCCAGCAATTCCCACATGGGTATTGG---------
+q panTro2.chr6 --9999999999999999999999999-----9999999999999999---9999999999------999999999999999999999999999999999999999999---------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15874344 93 - 170899992 --CTTCATTAAGGCCCAAGTTCCTAAA-----ACATTCATTCTCTTCC---TCTTTTCTAG------AAAAGAGGTCTTGCCCGCCAGCAATTCCCACATGGGTATTGG---------
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78071141 97 - 125616256 --CCTCATCTAAACCCAGGTTCTTACAGGCTTATATTTTTTCTTTCTTCAACCCTTCCTCA--------TCAGTGTCTTGCCTGCCAGTCATTCCTAC-----------TTTGTTCGG
+q canFam2.chr1 --99999999999999999999999999999999999999999999999999999999999--------99999999999999999999999999999-----------999999999
+i canFam2.chr1 C 0 C 0
+e felCat3.scaffold_205680 72640 193 - 119354 I
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3019604 98 + 129993255 tttggtttggtttggttttttcaagacagggtttctttgtatagtcctagctgtcctggaactcactttgtagaccagactggccttgaactcagaaa
+e felCat3.scaffold_205680 72640 193 - 119354 I
+e canFam2.chr1 78071238 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10261 0 + 133105 C
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15874437 0 - 170899992 C
+e panTro2.chr6 16393002 0 - 173908612 C
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=45.000000
+s mm9.chr10 3019702 42 + 129993255 tctgcctgcctctgcctcccaag--------------------------------tcctgggattaaaggcgtg
+s felCat3.scaffold_205680 72833 74 - 119354 tctgtctctctctctctctcaaaaataaacattaaaaaaaaCCAAACAAACAAACTCAAGTTCTTAAAGGTTTA
+q felCat3.scaffold_205680 99999999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 I 193 C 0
+e canFam2.chr1 78071238 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10261 0 + 133105 C
+e tupBel1.scaffold_114895.1-498454 171764 2374 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 184839 2731 - 359464 I
+e hg18.chr6 15874437 0 - 170899992 C
+e panTro2.chr6 16393002 0 - 173908612 C
+e ponAbe2.chr6 16170105 2523 - 174210431 I
+
+a score=-16865.000000
+s mm9.chr10 3019744 33 + 129993255 -----------------cgccaccactgccctgcCT------------TAAACTGCTCTTAA
+s ponAbe2.chr6 16172628 27 - 174210431 -----------------CGCCAGCAATTCC------------------CACATGGGTATTGG
+i ponAbe2.chr6 I 2523 C 0
+s tupBel1.scaffold_114895.1-498454 174138 4 - 498454 ----------------------------------------------------------TTGA
+q tupBel1.scaffold_114895.1-498454 ----------------------------------------------------------9999
+i tupBel1.scaffold_114895.1-498454 I 2374 C 0
+s calJac1.Contig6394 10261 13 + 133105 -------------------------------------------------ACATGGCTACTGG
+i calJac1.Contig6394 C 0 C 0
+s otoGar1.scaffold_334.1-359464 187570 11 - 359464 ---------------------------------------------------ATTGGTGTTGA
+q otoGar1.scaffold_334.1-359464 ---------------------------------------------------87784564678
+i otoGar1.scaffold_334.1-359464 I 2731 C 0
+s oryCun1.scaffold_156751 192 41 - 4726 --------------------CACCATTGTCTTGCCTGTC-TCAGGTCCCATAGGGGTGTTGA
+q oryCun1.scaffold_156751 --------------------9999999999999999999-9999999999999999999999
+i oryCun1.scaffold_156751 N 0 C 0
+s felCat3.scaffold_205680 72907 62 - 119354 TGATTTCTCTTTCTCTTACTCATCAGTGTCTTGTCTTTCAGTCATTCCCACATTGGTGTAGA
+q felCat3.scaffold_205680 99999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 C 0 C 0
+e canFam2.chr1 78071238 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e hg18.chr6 15874437 0 - 170899992 C
+e panTro2.chr6 16393002 0 - 173908612 C
+
+a score=367532.000000
+s mm9.chr10 3019777 183 + 129993255 GGCAATGTCA-GGCTATGCGT------TCTAGACAGGGCACAAGAAAAGCTTTTAGCAGCAGAATAAACTTTT-AAAGTAAATTACTTTCCTTGATAGCAACTAGACGACCCAATTGA-TACAGT------GGAAAG-----A----------GGCCTTTGAGAAT---GCATGAGAGAATAT---TTCCTGTA------AGAGTTGAACAATTTAGAATTTACc
+s oryCun1.scaffold_156751 233 193 - 4726 GGCAACATCATGACCTTATGT------TCTAA----GGGACAGGAAAAGCTTTTTCCAGTAGAATAAGCCTTT-AGAGGAAACTGCTTCCCTTGCTAGTAATCAAGTGTTCAAAGTGA-TACAACAAAGAAAAAAAA-----A----------GCCTTTTGGGAAT-CAGGATGGAATAATATTACTTCCCCTATTTCTCAGAGCTAAATAGTTTAGGATT----
+q oryCun1.scaffold_156751 999999999999999999999------99999----9999999999989999999998999999999999999-99999999999999999999999999999999999998989999-999899799999999999-----9----------9997999999998-978998999999999999999978999999979689999999999999999979----
+i oryCun1.scaffold_156751 C 0 I 37
+s hg18.chr6 15874437 190 - 170899992 GGCAACACCATGA-TACATAT------TCAAGATAAAGTACAGGAAAAGCTTTTTGCAGTGGAATAAAATGTT-AAAGGGAATTGCTTTCCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAAA-----A----------TTTTTTTGAGAATGCAGGATAGAATAATATTATTTCCCTTATTTCTAAGAGTTAAACAATTTAGGATT----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393002 191 - 173908612 GGCAACACCATGA-TACATAT------TCAAGATAAAGTACAGGAAAAGCTTTTTGCAGTGGAATAAAATGTT-AAAGGAAATTGCTTTCCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAAA-----A---------TTTTTTTTGAGAATGCAGGATAGAATAATATTATTTCCCTTATTTCTAAGAGTTAAACAATTTAGGATT----
+q panTro2.chr6 9999999999999-9999999------9999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999-99999-------999999-----9---------999999999999999999999999999999999999999999999999999999999999999999999----
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16172655 190 - 174210431 GGCAACACCATGA-TACATAT------TCAAGATAAAGTACAGGAAAAGCTTTTTGCGGTGGAATAAAATGTT-AAAGGAAATTGCTTTCCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAAA-----A---------TTCTTTTTGAGAATGCAGCACAGAATAATATTATTTCCCTTATTTCT-AGAGTTAAACAATTTAGGATT----
+i ponAbe2.chr6 C 0 I 21
+s calJac1.Contig6394 10274 187 + 133105 GGCAACACCGTGA-TACATAT------CCGAGATAAAGTACAGGAAAAGC-TTTTGCAGTGGACGAAAATGTT-GAAGGAAATTGCTTTTCTTGATAGCAATCAGGTCACCAAAGTGA-GATGA-------AGAAA-----------------GTTTTTTGAGAATGTGGGATAGAATAATATTGTTTTCGTTATTTCTAAGAGTTAAACAATTTAGGATT----
+i calJac1.Contig6394 C 0 I 21
+s otoGar1.scaffold_334.1-359464 187581 197 - 359464 GGCAACGCCGTGA-TCCTTGCTGTAGATAAAGACAAAGTGCAGGAAAAGCCCTTTACGGTAGAATAAAAGGTT-AAAGGAAATTGCTTTTCTTGATAGCAATCAGGTGACCAAAGTGATTATAA-------AGAAAA-----A----------ATGTTTTGAGAATGCTGGAAAGAATAATTTTATCCACCCTCCATTTCAGAGTTAAATAATTCAGGATT----
+q otoGar1.scaffold_334.1-359464 5466765345564-89977768969797886996999557766667768677897764536465578775526-67697777697779896767576676677696675376877786786858-------478887-----7----------56858859779666569356677477759968759378767656876769557597655596536566----
+i otoGar1.scaffold_334.1-359464 C 0 I 358
+s tupBel1.scaffold_114895.1-498454 174142 196 - 498454 GGCAATGTCATGA----ATGT------TCTAGATAAAGTACAGGAAAAGCTTTTTGCAGTAGGATAAACTTTT-AAAGGAAATTGCCTTCCTTGACAGCAATCAGGTGACCAAAGTCATACTGA-------AAAAAA-----AAACAAAAACAAACTTTTGTGGATGCAGTATAGAAGCATATTATTTTCCCTATGTCT--AAGTTAAATAACTTGGGCTT----
+q tupBel1.scaffold_114895.1-498454 9999999999999----9999------9999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999-------999999-----999999999999999999999999999999999999999999999999999999999--99999999999999999999----
+i tupBel1.scaffold_114895.1-498454 C 0 I 623
+s felCat3.scaffold_205680 72969 186 - 119354 GACATC---ATAA-AGTACAT------TCTAGATAAAGTGCAGGAAAAGCATTTTG-AGTAGAATAAAATGTT-GTAGGAAATTGCTTTCTTCAAGAGACATTAGGTGATTAAAGTAA-TATAA-------AGGGAA-----T----------TTTTTTTGAGAATACAGGATACAATAATATTATTTCCCCTACATCTAAGAGttaaataatttaaaatt----
+q felCat3.scaffold_205680 999999---9999-9999999------99999999999999999999999999999-9999999999999999-99999999999999999999999999999999999999999999-99999-------999999-----9----------99999999999999999999999999999999999999999999999999999999999999999999----
+i felCat3.scaffold_205680 C 0 I 27
+s canFam2.chr1 78071238 193 - 125616256 ------ATCATGA-TGTAAAT------TCCGGGTAAAGTACAACAAAAGGATTTTG-AACAGGATAAAATGTTAATAGGAAATTACTTTCTTTGAGAGCAATCAGGTGATTGAAGGAA-TATAA-------AGGGAAAAAACA----------AAGTTCAGTGAATCCAAGTTAGAATAATATTGTTTCCCTTACTTCTAAGAGttaaataatttaaaatttaat
+q canFam2.chr1 ------9999999-9999999------99999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999-99999-------999999999999----------999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+
+a score=0.000000
+s mm9.chr10 3019960 757 + 129993255 actagggatgggagaggctcccagaacccagtaatgatgacattaagaaatacacaacagttgggaaatggaacccaaagagaacacctccagtagataagcatgacccccagttgagggatgggcccatgcacccatcttaaaattttggacccagaattattcttctcaaaaggaaatgcagggatgaaaatggagcagagactggaagaaaggccaaccagagactgccctaactcaggatccatcgcatgtgcaggcaccaaccccaacactattgctgatgccatgttgtacttgctgatggaagcctggcatggctgtcctctgagagtctcaaatgaggcacctgacagatgcagatacttacagccaaccaatggactgagccccgggacctcaataaaagaatgaggggatggcaaccccata [...]
+e felCat3.scaffold_205680 73155 27 - 119354 I
+e canFam2.chr1 78071431 0 - 125616256 C
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10461 21 + 133105 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+e hg18.chr6 15874627 0 - 170899992 C
+e panTro2.chr6 16393193 0 - 173908612 C
+e ponAbe2.chr6 16172845 21 - 174210431 I
+e oryCun1.scaffold_156751 426 37 - 4726 I
+
+a score=8951.000000
+s mm9.chr10 3020717 44 + 129993255 TGTCAAACATGCATAAAGATATACT-GAGGAGCCCATGAATTTTA
+s canFam2.chr1 78071431 33 - 125616256 tGTT------------TAACATAATAGAGGGGCCCATGAATTTTA
+q canFam2.chr1 9999------------99999999999999999999999999999
+i canFam2.chr1 C 0 I 9
+s panTro2.chr6 16393193 38 - 173908612 ----AAAAAT---TTTAAATATACTAGAGGGGTCCATGAATTTTA
+q panTro2.chr6 ----999999---99999999999999999999999999999999
+i panTro2.chr6 C 0 I 11
+s hg18.chr6 15874627 38 - 170899992 ----AAAAAT---TTTAAATATACTAGAGGGGTCCATGAATTTTA
+i hg18.chr6 C 0 I 11
+e felCat3.scaffold_205680 73155 27 - 119354 I
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10461 21 + 133105 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+e ponAbe2.chr6 16172845 21 - 174210431 I
+e oryCun1.scaffold_156751 426 37 - 4726 I
+
+a score=0.000000
+s mm9.chr10 3020761 157 + 129993255 TATATATGCTATCCGTGTGCTGTGATTTTTGTTTTAAATGTTATTTTATGTATATGcaagattttgcattgtagcagaaggtggcttcaaactcacgatcctcctgcctcagccttccaagtgctgagatcatacctctgcaccatcctgcccACCT
+e felCat3.scaffold_205680 73155 27 - 119354 I
+e canFam2.chr1 78071464 9 - 125616256 I
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e calJac1.Contig6394 10461 21 + 133105 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 8048 1372 - 10026 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+e hg18.chr6 15874665 11 - 170899992 I
+e panTro2.chr6 16393231 11 - 173908612 I
+e ponAbe2.chr6 16172845 21 - 174210431 I
+e oryCun1.scaffold_156751 426 37 - 4726 I
+
+a score=85471.000000
+s mm9.chr10 3020918 96 + 129993255 GAGGTTTGTGACTTTTAATA----------CTGATTGTTATCTAACATCACAGAATTCTCAGTTCTTAAGGAAACAATTGTTCTGTGTGTTATTTGTCTAGGAGGA
+s hg18.chr6 15874676 73 - 170899992 ---------------------------------ATGGTTATTTAATACTGCACAATCCTCAGCTTTTAAGGAAAAACATGTTTGACTTATTAATTATTTAGGACAA
+i hg18.chr6 I 11 C 0
+s panTro2.chr6 16393242 73 - 173908612 ---------------------------------ATGGTTATTTAATACTGCACAATCCTCAGCTTTTAAGGAAAAACATGTTTGACTTATTAATTATTTAGGACAA
+q panTro2.chr6 ---------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 11 C 0
+s canFam2.chr1 78071473 75 - 125616256 --------------------------TAATAAAATAATTCTGTACCATTATGAAGTTCTCAGCTCTTAAGGAAAAA-----GTGATTTGTTAATTACTTAGGACAA
+q canFam2.chr1 --------------------------99999999999999999999999999999999999999999999999999-----9999999999999999999999999
+i canFam2.chr1 I 9 C 0
+s felCat3.scaffold_205680 73182 76 - 119354 ---GTCCATGAATTTTAATGGTGAAGTAATGAAATAATTCTTTAATATCAC----------------------AAA-----GTAATTTATTAATTATTTAGGACAA
+q felCat3.scaffold_205680 ---999989999999999999999999999999999999999999999999----------------------999-----9999999999999999999999769
+i felCat3.scaffold_205680 I 27 C 0
+s cavPor2.scaffold_216473 9420 82 - 10026 GAGTTCTGCAAATtttaata----------ggaaaagaagatTAATATTACAAAGTTTTCAGTTCTGATGGAAaaa----------gtgtgatttttttaaa----
+q cavPor2.scaffold_216473 99679966799668566465----------8567828838346568788268865663676558367765776667----------6965686997776684----
+i cavPor2.scaffold_216473 I 1372 I 28
+s oryCun1.scaffold_156751 463 102 - 4726 -AGATCCATGAATTTTAATA---AAGCAATGAGATAATTATTTAATGTTGGAAAATCCTCAAGTCTTAAGGAAAAAAGTGTTTGACTTGTTAATGACTTGGGATGA
+q oryCun1.scaffold_156751 -9999997999999999999---99999999999999999999999999999999998677999969999999999999999999999999999999999999999
+i oryCun1.scaffold_156751 I 37 C 0
+s calJac1.Contig6394 10482 100 + 133105 GGGGTCCATGAATTTTAATA-----GTAACAAAATGGTTATTCAATATTGCAAAATCCTCAGC-TTTAAGGAAAAACATATTTGATTTGTTAATTATTTAGGACAA
+i calJac1.Contig6394 I 21 C 0
+s ponAbe2.chr6 16172866 101 - 174210431 GGGGTCCATGAATTTTAATA-----GTAATAAAATGGTTATTTAATATTGCAAAATCCTCAGCTTTTAAGGAAAAACGTGTTTGACTTATTAATTATTTAGGACAA
+i ponAbe2.chr6 I 21 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e otoGar1.scaffold_334.1-359464 187778 358 - 359464 I
+
+a score=105724.000000
+s mm9.chr10 3021014 40 + 129993255 ACCTTGGTGACGCCACTGGATTTTGTATGACTGAATACTG
+s oryCun1.scaffold_156751 565 40 - 4726 ATCTTGATGAAGTCATTCCAACTTGGATGATTTAGGAATT
+q oryCun1.scaffold_156751 9999999999999969999699999999999999999999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188136 40 - 359464 ATCTTGGTGAAGTTATTCCAATTTATGTGATTTAGGAATG
+q otoGar1.scaffold_334.1-359464 9999999999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 358 C 0
+s calJac1.Contig6394 10582 40 + 133105 ATTTTGGTGAAGTTATTCCAACTTGTGTGGCTTAGGAATG
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874749 40 - 170899992 ATTTTGGTGAAGTTATTCCAACTTGCATGGCTTAGGAATG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393315 40 - 173908612 ATTTTGGTGAAGTTATTCCAACTTGCATGGCTTAGGAATG
+q panTro2.chr6 9999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16172967 40 - 174210431 ATTTTGGTGAAGTTATTCCAACTTGCATGGCTTAGGAATG
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78071548 40 - 125616256 ATCTCAGTGAAGTCATTCTGACTCGCATGATTTAGGAATG
+q canFam2.chr1 9999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 73258 40 - 119354 ATCTCAGTGAAGTTATTCTGACTTGCATGATTTAGGTATG
+q felCat3.scaffold_205680 9999989999989988999997999979997996167779
+i felCat3.scaffold_205680 C 0 C 0
+s dasNov1.scaffold_56749 3116 40 - 10470 ACATCAGTGAAATCATTCCGACTCGTATGACTGAGCGATG
+q dasNov1.scaffold_56749 9759855999977756667495765475885678385647
+i dasNov1.scaffold_56749 N 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+e cavPor2.scaffold_216473 9502 28 - 10026 I
+
+a score=115790.000000
+s mm9.chr10 3021054 50 + 129993255 CTCATTTGGGAACTTACAGGTCAGCAAAGGCTTCCAG--------------------GACTTACATGCAG
+s cavPor2.scaffold_216473 9530 38 - 10026 CTCATTTGGGAGTTCAGAGTT--------GCTATAAA--------------------TACTTGTGA----
+q cavPor2.scaffold_216473 788777667898846665666--------98766677--------------------876665669----
+i cavPor2.scaffold_216473 I 28 C 0
+s oryCun1.scaffold_156751 605 69 - 4726 CTAATTTGGGCTCTTACATTTTATAACTGCCTAATGGAGTCTTCTTTTTTCCT-CCTTAATTACACGTAT
+q oryCun1.scaffold_156751 99999999999997999799999999999999999999999799799999997-9979999999495999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188176 69 - 359464 CTAACTTGGGGACACAGG-TTCATAAAGGCTTAATGGAGCCCACTGGTCCCTTCCCCAGACTCTATGTAC
+q otoGar1.scaffold_334.1-359464 999999999999999999-999999999999999999998999999689999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig6394 10622 70 + 133105 CCAGTTTGGGGACTTAGATTTTCTAACTGCCTAATGAAGTCTGCTCTTTCCTTCCCTAGCCTATATGTAT
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874789 70 - 170899992 ACAATTTGGGGATTTACATTTCCTAACTGCCTAATGAAGTCTGCTCCTTCCTTCCCTAGACTATATGTAT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393355 70 - 173908612 CCAATTTGGGGATTTACATTTCCTAACTGCCTAATGAAGTCTGCTCTTTCCTTCCCTAGACTATATGTAT
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16173007 70 - 174210431 CCAATTTGGGGATTTACATTTCCTAACTGCCTAATGAAGTCTGCTCTTTCCTTCCCTAGACTATATGTAT
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78071588 70 - 125616256 CTAATTTGGTGACTCAAATTTCATAATTGCTTAATGAAAGCTGATGTTTTCTTCCCTACACCATATGTAT
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 73298 70 - 119354 CTAATTTGGTGACTTGAATTTCATAATTGCTTAAGGAAGCCTGCTGTTTCCTTCCCAAGACTATATGCAT
+q felCat3.scaffold_205680 9769999999975699868977669777966666596959759669595666758736585676666655
+i felCat3.scaffold_205680 C 0 C 0
+s dasNov1.scaffold_56749 3156 70 - 10470 CTAATTGGGGGACTCACATTTTAAAATTGCTAACCGAAGCCTGCTGTTTTCTTCTCTAGACTATAAGTAT
+q dasNov1.scaffold_56749 5556576999664654656985688667655565647767537567688856666555556565555656
+i dasNov1.scaffold_56749 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+e echTel1.scaffold_288249 87661 7564 + 100002 I
+
+a score=44222.000000
+s mm9.chr10 3021104 32 + 129993255 CTGTTAGTGCTGTTTT---AATGTACCTCGCAGTA
+s cavPor2.scaffold_216473 9568 27 - 10026 -----ATTACTTTCTT---AATGTAAATTTTTATA
+q cavPor2.scaffold_216473 -----55455868746---7957999989884575
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 674 30 - 4726 TTGCTAGTA--TTCTC---AATGTAATATTTTATA
+q oryCun1.scaffold_156751 999979999--96665---6999999999999999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188245 32 - 359464 TTGCTGGTGTTCCCTT---AATATAATGTTTTATA
+q otoGar1.scaffold_334.1-359464 9999999999999999---9999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig6394 10692 30 + 133105 TTACTCGTG--CCCTT---AATATAGCATTTTATA
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874859 30 - 170899992 TTGCTGGTA--CTCTT---AATATCACATTTTATA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393425 30 - 173908612 TTGCTGGTA--CTCTT---AATATCACATTTTATA
+q panTro2.chr6 999999999--99999---9999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16173077 30 - 174210431 TTGCTGGTG--CTCTT---AATATAACATTTTATA
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78071658 25 - 125616256 TTGCTGGTGCTCTCAA---AATGTAGCA-------
+q canFam2.chr1 9999999999999999---999999999-------
+i canFam2.chr1 C 0 I 196
+s felCat3.scaffold_205680 73368 25 - 119354 TTGCTGGTGCTCTCAA---AATATAACA-------
+q felCat3.scaffold_205680 8677668566555658---876555655-------
+i felCat3.scaffold_205680 C 0 I 6
+s dasNov1.scaffold_56749 3226 33 - 10470 TTGCTGGTG--ATCTGATTAATGTAACATTTTATG
+q dasNov1.scaffold_56749 856647736--775356546747663745776545
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95225 21 + 100002 CTGTTAATG--CTCTG------------TTTTATG
+q echTel1.scaffold_288249 999999999--99999------------9999999
+i echTel1.scaffold_288249 I 7564 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+
+a score=43757.000000
+s mm9.chr10 3021136 44 + 129993255 AGGCAAATGAGGTGATAAGA-------TTGTGTT-----TAC----TCCCTCTGTGC----------TTG
+s cavPor2.scaffold_216473 9595 43 - 10026 AG-CAGATGAGATAACAGTG-------ATATATT-----cat----tctctgtgtgt----------atg
+q cavPor2.scaffold_216473 49-96766988786798889-------8679566-----756----66896967579----------888
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 704 42 - 4726 AAGCAAATGAGGTGATGAGG---------GCATC-----TAT----TTCTTATTTGT----------GTG
+q oryCun1.scaffold_156751 99998999999999999999---------99999-----999----99999999999----------999
+i oryCun1.scaffold_156751 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188277 45 - 359464 AAACAAATGAGATCACA-GG-------ACATATG-----TA--CTTGTCCCCCACGT----------GTG
+q otoGar1.scaffold_334.1-359464 99999999999999999-99-------9999999-----99--99939999999999----------999
+i otoGar1.scaffold_334.1-359464 C 0 I 15
+s calJac1.Contig6394 10722 45 + 133105 AAGCAAATGAGATCACA----------GCACATG-----TATATTTTTTCTCCGTGT----------GTG
+i calJac1.Contig6394 C 0 I 15
+s hg18.chr6 15874889 47 - 170899992 AAACAAATGAGATCACAAGG-------GCATATA-----TGT-TTTTTTCTCTGTGT----------GTG
+i hg18.chr6 C 0 I 15
+s panTro2.chr6 16393455 47 - 173908612 AAACAAATGAGATCACAAGG-------GCATATA-----TGT-TTTTTTCTCTGTGT----------GTG
+q panTro2.chr6 99999999999999999999-------9999999-----999-99999999999999----------999
+i panTro2.chr6 C 0 I 15
+s ponAbe2.chr6 16173107 47 - 174210431 AAACAAATGAGATCACAAGG-------GCATATG-----TAT-TTTTTTCTCTGTGT----------GTG
+i ponAbe2.chr6 C 0 I 15
+s eriEur1.scaffold_266115 358 65 + 4589 taaataataagataagatgaaagCATAGCATGTA-----TTTTCTtgccctctccttctctgtctctgtc
+q eriEur1.scaffold_266115 9999999999999999999999999999999999-----9999999999999999999999999999999
+i eriEur1.scaffold_266115 N 0 I 9
+s canFam2.chr1 78071879 51 - 125616256 tAGAAAATGAGATACC-----------GTGTGTA-----TATGCTTTCTCTCTGTGT---GGGGTCTGTG
+q canFam2.chr1 9999999999999999-----------9999999-----999999999999999999---9999999999
+i canFam2.chr1 I 196 I 9
+s felCat3.scaffold_205680 73399 51 - 119354 AAGCAAATGAGATAAG-----------ACACGTG-----TATTCTTCCTCTCTGTGT---GGTGTCTGTG
+q felCat3.scaffold_205680 9755596656454353-----------5346324-----243451535354422233---3635339999
+i felCat3.scaffold_205680 I 6 I 9
+s dasNov1.scaffold_56749 3259 46 - 10470 AGGAAAGTGAGAGGACCAGG-------GCAAATA-----AATATTCTTTCTCTGTGT----------A--
+q dasNov1.scaffold_56749 55569764556657658568-------6768555-----858686457859535656----------5--
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95246 51 + 100002 AAGAAGGTGAGATGACAAGG-------GTGTATAGATAGGATATTCTTGCTTTGGGT----------G--
+q echTel1.scaffold_288249 99999999999999999999-------999999999999999999999999999999----------9--
+i echTel1.scaffold_288249 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 174338 623 - 498454 I
+
+a score=32886.000000
+s mm9.chr10 3021180 24 + 129993255 -------------------TCCC-------AGAGAGTCTGA-TAGGAGGAG
+s cavPor2.scaffold_216473 9638 32 - 10026 -------------------tgcctTTGTATAGTGGCTCTGAGTATAAAGTA
+q cavPor2.scaffold_216473 -------------------67576649966655666885655548785776
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 746 27 - 4726 -------------------TGCCTGTGTATAGCATTTCTGAATATA-----
+q oryCun1.scaffold_156751 -------------------999999999999999999999999999-----
+i oryCun1.scaffold_156751 C 0 C 0
+s ponAbe2.chr6 16173169 25 - 174210431 -----------------------TCTG---AGTGTGTATGAATATGAAGTA
+i ponAbe2.chr6 I 15 C 0
+s panTro2.chr6 16393517 25 - 173908612 -----------------------TCTG---AGTATGTATGAATATGAAGTA
+q panTro2.chr6 -----------------------9999---999999999999999999999
+i panTro2.chr6 I 15 C 0
+s hg18.chr6 15874951 25 - 170899992 -----------------------TCTG---AGTATGTATGAATATGAAGTA
+i hg18.chr6 I 15 C 0
+s calJac1.Contig6394 10782 25 + 133105 -----------------------TCTG---AGTATGTCTGAATATGAAGTG
+i calJac1.Contig6394 I 15 C 0
+s otoGar1.scaffold_334.1-359464 188337 25 - 359464 -----------------------TCTA---AGTGTGTCTGAACATGATGTG
+q otoGar1.scaffold_334.1-359464 -----------------------9999---999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 15 C 0
+s tupBel1.scaffold_114895.1-498454 174961 25 - 498454 -----------------------TCTC---TGAGTGTCTGAACTTGAGGTA
+q tupBel1.scaffold_114895.1-498454 -----------------------9999---999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 623 C 0
+s eriEur1.scaffold_266115 432 19 + 4589 -----------------------TCTC---AGTGTGTCTGACCAG------
+q eriEur1.scaffold_266115 -----------------------9999---999999999999999------
+i eriEur1.scaffold_266115 I 9 C 0
+s canFam2.chr1 78071939 25 - 125616256 -----------------------TCTG---AGTGTGTCTGAATGTGAGGTA
+q canFam2.chr1 -----------------------9999---999999999999999999999
+i canFam2.chr1 I 9 C 0
+s felCat3.scaffold_205680 73459 25 - 119354 -----------------------TCTG---AGTGTTCCTGAATGTGAGGTG
+q felCat3.scaffold_205680 -----------------------9999---999999999999999999999
+i felCat3.scaffold_205680 I 9 C 0
+s dasNov1.scaffold_56749 3305 47 - 10470 T-TGTGTGCCTTTGCGGAGCATTTCTG---AGCGTGTCTGAACTTGAGGTA
+q dasNov1.scaffold_56749 7-3659557766555777595699547---965955937797755656587
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95297 48 + 100002 TGCCCAGGACTGCGCATGGTATTTCTT---GGTGTGTCTGAAGGTGAGATA
+q echTel1.scaffold_288249 999999999999999999999999999---999999999999999999999
+i echTel1.scaffold_288249 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+
+a score=309116.000000
+s mm9.chr10 3021204 71 + 129993255 TGCACTGGTTTTCC-TGCAGTGGTTCTCAGTAATAGGAAGACA-ACAGAATTTGAAGTATCCGGCTTTGGCCA
+s echTel1.scaffold_288249 95345 73 + 100002 GGCATTGGTTTTTAGAGAGAGAACCCACATAAGTAGGAAAACATTTTGAATTTATAGTAAATATTCTTGGCTA
+q echTel1.scaffold_288249 9999999999999999999999999999999999999999999999999999999999999999999999999
+i echTel1.scaffold_288249 C 0 C 0
+s dasNov1.scaffold_56749 3352 70 - 10470 TGCATTGATTTTCAGTGAGGGAAATCACAC---TAAGAGAGCATTTTGAATTTATAATAAATGCTCTTGGCTA
+q dasNov1.scaffold_56749 579663579997957596666783594865---8458696597898258979678997999677999997699
+i dasNov1.scaffold_56749 C 0 C 0
+s felCat3.scaffold_205680 73484 72 - 119354 TGCATTGATTTTCA-TGCATTGATTCACATGAATAGGAATGCATTTTGAAATTATAGCAAATGTTTTTGGCTG
+q felCat3.scaffold_205680 99999999999999-9999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 C 0 C 0
+s canFam2.chr1 78071964 71 - 125616256 TGCATTAATTTTCA-TGCGTTGATTCACATGAATAGGAATACA-TTTGAATTTATAGGAAATGCTTTTGGCTG
+q canFam2.chr1 99999999999999-9999999999999999999999999999-99999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_266115 451 70 + 4589 -GCACTGATTCTCG-AGGGTTGATTCCCAGTAAGAGGAAACTG-CGTGAGTTTACAGTACATGGGCTTGGCTG
+q eriEur1.scaffold_266115 -9999999999999-9999999999999999999999999999-99999999999999999999999999799
+i eriEur1.scaffold_266115 C 0 C 0
+s sorAra1.scaffold_2476 3312 70 - 4997 TGCATTGATTTTTA-AGTATTGATTCACATGAAAAGGAAAGCA-CTTCAATTTATGATAAAT-GATTTGGCCA
+q sorAra1.scaffold_2476 89999999999989-9999999999999999999999999999-999999999799999999-9999999999
+i sorAra1.scaffold_2476 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 174986 71 - 498454 TGCATTGAATTCCA-TGTGTTATGTCACATTAATAGGAAACGA-TTCTAATTGATAGGAAATGCTTCTGACCA
+q tupBel1.scaffold_114895.1-498454 99999899899999-9999999999999999999999999999-99999999999999999999999999997
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 188362 67 - 359464 TG----GATTTTTA-CACATTGATTCACCTTAACGGGAAAACA-TGTGAATTTGTAGGAAAGGCATTTGGCCA
+q otoGar1.scaffold_334.1-359464 88----99999999-9899999899943848888999999999-66359999569699999923799351281
+i otoGar1.scaffold_334.1-359464 C 0 I 6280
+s calJac1.Contig6394 10807 71 + 133105 TGCATTGGTTTTTA-TGCCTTGATTCACATGAATAGGAAAACG-TTTGAATTTATAGGAAATGGTTTTGGCCA
+i calJac1.Contig6394 C 0 C 0
+s hg18.chr6 15874976 71 - 170899992 TGCTTTGATTTTTA-TGCATTGATTTACATGAATAGGAAAATG-TTTGAATTTATAGTAAATGGTTTTGGCCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16393542 71 - 173908612 TGCTTTGATTTTTA-TGCATTGATTTACATGAATAGGAAAACA-TTTGAATTTATAGTAAATGGTTTTGGCCA
+q panTro2.chr6 99999999999999-9999999999999999999999999999-99999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16173194 71 - 174210431 TGCTTTGATTTTTA-TGCATTGATTTACATGGATAGGAAAACG-TTTGAATTTATAGTAAATGGTTTTGGCCA
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_156751 773 65 - 4726 ------TCTTTACA-TACTTTGATTTACATCGACGGGAAAACA-TTTGCATTTATAGCAATGGCTTTTGGTCA
+q oryCun1.scaffold_156751 ------99999994-9999999999999899999999999999-99999999999999899999999999999
+i oryCun1.scaffold_156751 C 0 C 0
+s cavPor2.scaffold_216473 9670 71 - 10026 GGCATTGATTTCCA-TGCATTAATTCACATTAATAGGAAAACA-GTCCAATTTATAGTAAATGGTTTTGGCCA
+q cavPor2.scaffold_216473 77888768786695-3886758796446556688656665478-68687676669688688666687574686
+i cavPor2.scaffold_216473 C 0 C 0
+e ornAna1.chr2 14751195 5690 - 54797317 I
+
+a score=891219.000000
+s mm9.chr10 3021275 146 + 129993255 CTTTCTCTGACATTACTGTAACTGAAGTAGCTC-AGAAGCACAAAAGGTCACATCATGCATCCATGCAGAATCCACTGAAGCTGTTTGGAAAGGC-----------------------CACGTGTCTTCCCAGAAGGCCAGTTACACCATCATTTCCTTCCATGTTTCAG
+s cavPor2.scaffold_216473 9741 169 - 10026 CCTTTGCTGATGTTACTGTAAGCGAACTAGCTG-AAAAGCACAAAAGGTCATGTCAGGCATTTATGCAAAATTTACTAGTTCCGTTCATAAAGGCACCTCGCATTTTATTACTTAGTTCATGTGTCTCGCAGGAAATCCAGTCACGCCATCATTTCCTTCCATATTTCAA
+q cavPor2.scaffold_216473 668536545547664539866666666666668-8787886799997788875886655536666688786768476688854689668876558688874778656675665668746666788474786888875667457786687996867886548798845555
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 838 158 - 4726 TCGTCTCTGATGTTACTCTAGCTGAAAGCGCTC-CAAAGCACAAAAGGCCATGGCAGGCATTTATGTCAAATGTACTAGCACTGTTTATAACAGCACCTTGTGTTGTATTACTTTGTTCA-----------GGAAATCCAGTCACGCCGCGATTTCCTTCCACATTTCAA
+q oryCun1.scaffold_156751 999999879999999999999999999997999-99999799999999898999999988999999988999999989996999999999988897996999999999999979999987-----------899998987999799998998999999999777999899
+i oryCun1.scaffold_156751 C 0 C 0
+s ponAbe2.chr6 16173265 169 - 174210431 CCTTCTCTGATGTTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGGAGGCATTCATGTAAAACTTACTAGTGCTGTTTATAAGGGTACCTTGTGTTTTATTACTTTGTTAATGTATCTTTCAGGAAATTCAGTCACGCCATCATTTCCTTCCATATTTCAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16393613 169 - 173908612 CCTTCTCTGATGTTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGGAGGCATTTATGTAAAACTTACTAGTGCTGTTTATAAGGGTACCTTGTGTTTTATTACTTTGTTAATGTACCTTTCAGGAAATCCAGTCATGCCATCATTTCCTTCCATATTTCAT
+q panTro2.chr6 999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 15875047 169 - 170899992 CCTTCTCTGATGTTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGGAGGCATTTATGTAAAACTTACTAGTGCTGTTTATAAGGGTATCTTGTGTTTTATTACTTTGTTAATGTACCTTTCAGGAAATCCAGTCATGCCATCATTTCCTTCCATATTTCAT
+i hg18.chr6 C 0 C 0
+s calJac1.Contig6394 10878 169 + 133105 CCTTCTCTGATATTACTGTAACTGAAATAGCTC-AAAAGCACAAAAGGTCATGGCAGGCATTTATGTAAAACTTACTAGTGCTGTTTATAAAGGCACCTTGTGTTTTATTACTTTGTTAATGTACCTTTCAGGAAATCCAGTCATGCCATCATTTCCTTCCATATTTCAT
+i calJac1.Contig6394 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 175057 156 - 498454 TCCTCTCAGATGTTCCTGTAACCAAAGTAGCTC-AGAAGCACAAAAGGTCATGCCAGGCATTGATGTAAA-------------GTTTCTGAAGGCATCTCGTGTTTTATTACTTTGTTCATGTGCCTTACAGGAAATCCAGTCGGGCCATCATTTCCTTCCATATCTCAG
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999-999999999999999999999999999999999999-------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_2476 3382 170 - 4997 CCTTCTCTGATGTTACTGTAACTGAGGTAGCTCAAAAAGCACAAAAGGTCATGTCAGGCATTGATGTAAAATATACCAGTGCTGTTTATAAAGACCCCTTGCATATAATGTTGTTGATCATGAACTTTTCCGGAAATCCTGTAATCTCATCATTTCCTCCCATATTCCAG
+q sorAra1.scaffold_2476 99999999999999997999999999999999999999999999999999999999999999999999999999999979999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i sorAra1.scaffold_2476 C 0 C 0
+s eriEur1.scaffold_266115 521 156 + 4589 CCTTCTCTGATCTGACTGTAACCGAAGTCTCTC-GAAAGCACAAAAGCTCACGGCAGGCCTTTCTGTAAAATACAGCGGCGCTGCTTCCAAAGGCaccttgca------gatgtctctcacgcATTTGGCAGGAGTCCCTGTCACTCGGCCAGTTCC-------TTCCTG
+q eriEur1.scaffold_266115 999999999999999999999999999999999-999999999999999999999999799999999999999999999998987999899999999999999------999999999999999999999999999999999999999999999998-------999989
+i eriEur1.scaffold_266115 C 0 C 0
+s canFam2.chr1 78072035 168 - 125616256 CTGTCTCTGATGTTACTGTAACTGAAGTAGCTC-AAAAGCACAAAAGGTCATGTCAGGC-TTTATGTAAAATTTACTAGAGCTGTTTATAAAGGCACCTCGTGTAATATTGCTTTGTTCATGTACTTTACAGGAAATCCTGTCATCCTGTTACTTCCTTCCATATTTCAA
+q canFam2.chr1 999999999999999999999999999999999-9999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_205680 73556 169 - 119354 CTGTCTCTGATGTTACTGTAACTGAAATAGTTC-AAAAGCACAAAAGGTGATGTCAGGCATTTATGTAAAATTTACTAGTGCTGTTTATAAAGGTACCTTGTGTATTATTGCTTTGTTCATGCACTTTATAGGAAATCCTGTCATCCTGTCATTTCCTTCCATAGTTCAG
+q felCat3.scaffold_205680 999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_205680 C 0 I 34165
+s dasNov1.scaffold_56749 3422 168 - 10470 CCTTCTCTGATGTTACTGTAACTGAAGAGGCTC-AAAAGCACAAAAGGTCATGTCGGGCATTGATGTAAAATTTACTAGTGCTG-TTTATAAAGGACCTTGTGTTCTATTACTTTTTCTATCCCCCTTACAGGAAATCCTGTCATACCATCATTTCCTTCCATAAGTCAC
+q dasNov1.scaffold_56749 989999999999999937699999999999999-79999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i dasNov1.scaffold_56749 C 0 C 0
+s echTel1.scaffold_288249 95418 169 + 100002 CCATCTCTGATATTACTGTAATGGAATTACTTT-GAAAGCACAAAAGGTCAGGACAAGCGTGTATGTGAAATTTCCTAGAGCTGTTTTCCTGCACACCTTGGATTTTATTGCTTAGTTCATTTGCTTTCCCAGAAATCCCGCCATGCCATCATTTCCTTCCACATCTCAG
+q echTel1.scaffold_288249 999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i echTel1.scaffold_288249 C 0 C 0
+s ornAna1.chr2 14756885 169 - 54797317 CCACCTCTGATATCACTGTAACTCAGCTACCCA-GAAGATAGGAAAGGTCATATCAGCCAATCATGTGCAACTTAATAGCCCTGTTCATAAAGCTGCTTTGTGTTTTATGAGGCTATTCATTCACCTTAGGGGAAATCCTGTCAAGCCATCATTTCCTTCCATATCTTCA
+i ornAna1.chr2 I 5690 C 0
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+
+a score=30254.000000
+s mm9.chr10 3021421 44 + 129993255 -ACGTTGCTCATTGT-----AATTGAAGCATTTATTACCAA--------TG--------------CCTTCCC
+s cavPor2.scaffold_216473 9910 47 - 10026 -CTGTTCCTTGTTACA----AATAAAAGTATGTTTTGCTGA--------CG-------G-----CCCCTCTG
+q cavPor2.scaffold_216473 -476754645667788----868678677444665235455--------76-------4-----36669356
+i cavPor2.scaffold_216473 C 0 C 0
+s oryCun1.scaffold_156751 996 37 - 4726 -TGGTTCCTCATTATG----GATTAAAGCATTCACTGCTAA--------T----------------------
+q oryCun1.scaffold_156751 -999999999899999----887999999999999999999--------9----------------------
+i oryCun1.scaffold_156751 C 0 I 2345
+s ponAbe2.chr6 16173434 45 - 174210431 -CTGTTGCTCATTATA----AATAAAAGTGTTTATTGCTAA--------T--------------GCTTTCTC
+i ponAbe2.chr6 C 0 I 4
+s panTro2.chr6 16393782 45 - 173908612 -CTGTTCCTCATTATA----AATAAAAGTGTTTATTGCTAA--------C--------------GCTTTCTC
+q panTro2.chr6 -999999999999999----999999999999999999999--------9--------------99999999
+i panTro2.chr6 C 0 I 4
+s hg18.chr6 15875216 45 - 170899992 -CTGTTCCTCATTATA----AATAAAAGTGTTTATTGCTAA--------C--------------GCTTTCTC
+i hg18.chr6 C 0 I 4
+s calJac1.Contig6394 11047 43 + 133105 -CTGTTTCTCATTATA----AAT--AAGTGTTTATTGCTAA--------C--------------GCTTTCTC
+i calJac1.Contig6394 C 0 I 701
+s tupBel1.scaffold_114895.1-498454 175213 35 - 498454 -CTGCTCCTCATGATA----AAT-ATAGCGTTTGTTGCTAA-------------------------------
+q tupBel1.scaffold_114895.1-498454 -999999999999999----999-99999999999999999-------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 10695
+s sorAra1.scaffold_2476 3552 48 - 4997 -CTGTTCCTTCTTAGATTaaaaaaaGAGCGTTTATGACCAG--------CA-------GGTTCC--------
+q sorAra1.scaffold_2476 -9999999999999999999999999999999997669755--------99-------999999--------
+i sorAra1.scaffold_2476 C 0 N 0
+s eriEur1.scaffold_266115 677 35 + 4589 -CTCCTTGTTCTTGAAGC----------CGTTTTTTATTGT--------CA-------GTG-----------
+q eriEur1.scaffold_266115 -98959997997999999----------9999999999999--------89-------999-----------
+i eriEur1.scaffold_266115 C 0 N 0
+s canFam2.chr1 78072203 40 - 125616256 -CTGTTTCTCATTATA----AATAAAAGCATTTATTGCTAA--------TG-------T------------C
+q canFam2.chr1 -999999999999999----999999999999999999999--------99-------9------------9
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_56749 3590 44 - 10470 -CTGTTCCTCTTTAT-----AATAAAAGCATTTACTGCTAA--------CGGCTCCTC--------------
+q dasNov1.scaffold_56749 -99999999999999-----999999999999999999999--------999999999--------------
+i dasNov1.scaffold_56749 C 0 I 904
+s echTel1.scaffold_288249 95587 38 + 100002 -CTGATCCTCATTATA----AATAAAAGTGTTTGTTACTAA--------TG---------------------
+q echTel1.scaffold_288249 -999999999999999----999999999999999999999--------99---------------------
+i echTel1.scaffold_288249 C 0 N 0
+s ornAna1.chr2 14757054 45 - 54797317 ACTG-TCCTCATTGTA----CAGGGACTCTTTTATTACTAAAGATCCCCC----------------------
+i ornAna1.chr2 C 0 C 0
+e felCat3.scaffold_205680 73725 34165 - 119354 I
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+
+a score=-9167.000000
+s mm9.chr10 3021465 29 + 129993255 CCCT--ACACTGTC----AAGTGGGAGGAGACAGT--------------------
+s cavPor2.scaffold_216473 9957 28 - 10026 AGCC--acactgg-----gggtggggtgggatggt--------------------
+q cavPor2.scaffold_216473 7667--6878566-----66544895554554677--------------------
+i cavPor2.scaffold_216473 C 0 N 0
+s ponAbe2.chr6 16173483 24 - 174210431 -------CCCTGTG----GGGGCGATAGGAGCAGC--------------------
+i ponAbe2.chr6 I 4 I 9
+s panTro2.chr6 16393831 24 - 173908612 -------CCATGTG----GGGGCGATAGGGGCAGC--------------------
+q panTro2.chr6 -------9999999----99999999999999999--------------------
+i panTro2.chr6 I 4 I 9
+s hg18.chr6 15875265 24 - 170899992 -------CCATGTG----GGGGCGATAGGGGCAGC--------------------
+i hg18.chr6 I 4 I 9
+s canFam2.chr1 78072243 31 - 125616256 CCCTGAACCACATG----GGGGGTGTGTGTGTGTG--------------------
+q canFam2.chr1 99999999999999----99999999999999999--------------------
+i canFam2.chr1 C 0 I 13
+s ornAna1.chr2 14757099 45 - 54797317 ----------TGTGTCATAGGAGTTTGGATGTAGCCCTCTTTCATCTTTGCTGGC
+i ornAna1.chr2 C 0 C 0
+e dasNov1.scaffold_56749 3634 904 - 10470 I
+e felCat3.scaffold_205680 73725 34165 - 119354 I
+e calJac1.Contig6394 11090 701 + 133105 I
+e tupBel1.scaffold_114895.1-498454 175248 10695 - 498454 I
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+e oryCun1.scaffold_156751 1033 2345 - 4726 I
+
+a score=15763.000000
+s mm9.chr10 3021494 42 - 129993255 TGTTTAGTACC----ATGCTTAGGAATGATAAACTCACTTAGTGtt
+s ponAbe2.chr6 16173516 46 - 174210431 TGTTGCATGTCCTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT
+i ponAbe2.chr6 I 9 I 943
+s panTro2.chr6 16393864 46 - 173908612 TGTTGCATATCCTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT
+q panTro2.chr6 9999999999999999999999999999999999999999999999
+i panTro2.chr6 I 9 I 10
+s hg18.chr6 15875298 46 - 170899992 TGTTGCATGTCGTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT
+i hg18.chr6 I 9 I 931
+s canFam2.chr1 78072287 46 - 125616256 TGTTAAGTCTCACTTGCTGTTCAAAGTGATAGCTTCACTCCATCAT
+q canFam2.chr1 9999999999999999999999999999999999999999999999
+i canFam2.chr1 I 13 I 1
+s ornAna1.chr2 14757144 36 - 54797317 TGTTTAAAATG----ATTGCTAGAACTTCTA--CTCACTGGA----
+i ornAna1.chr2 C 0 C 0
+e dasNov1.scaffold_56749 3634 904 - 10470 I
+e felCat3.scaffold_205680 73725 34165 - 119354 I
+e calJac1.Contig6394 11090 701 + 133105 I
+e tupBel1.scaffold_114895.1-498454 175248 10695 - 498454 I
+e otoGar1.scaffold_334.1-359464 188429 6280 - 359464 I
+e oryCun1.scaffold_156751 1033 2345 - 4726 I
diff --git a/Tests/MAF/ucsc_mm9_chr10_bad.mafindex b/Tests/MAF/ucsc_mm9_chr10_bad.mafindex
new file mode 100644
index 0000000..8f04919
Binary files /dev/null and b/Tests/MAF/ucsc_mm9_chr10_bad.mafindex differ
diff --git a/Tests/MAF/ucsc_mm9_chr10_big.maf b/Tests/MAF/ucsc_mm9_chr10_big.maf
new file mode 100644
index 0000000..91eaf56
--- /dev/null
+++ b/Tests/MAF/ucsc_mm9_chr10_big.maf
@@ -0,0 +1,42124 @@
+a score=-1786.000000
+s mm9.chr10 3134057 13 + 129993255 ------------------------CATCTCAAACCAA
+s rn4.chr1 229951700 13 - 267910886 ------------------------CATCTCCAACCAA
+q rn4.chr1 ------------------------9999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 34058 12 + 79436 ------------------------CTCGCCCAGCCG-
+q oryCun1.scaffold_197619 ------------------------999999979889-
+i oryCun1.scaffold_197619 I 1 C 0
+s equCab1.chr31 12995988 37 + 24938454 GATCCTACTTTTTTTAGTGTCTTGTTGCTCACACCGA
+q equCab1.chr31 9999999999999999999999999997999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13652064 917 - 95030419 I
+e monDom4.chr2 106158865 2855 - 541556283 I
+e rheMac2.chr4 108433816 0 + 167655696 C
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 7268 1988 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78201562 1105 - 125616256 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e calJac1.Contig23414 3818 0 + 7547 C
+e tupBel1.scaffold_114895.1-498454 325772 0 - 498454 C
+e cavPor2.scaffold_286578 125428 32 - 133272 I
+e otoGar1.scaffold_334.1-359464 297130 0 - 359464 C
+e hg18.chr6 16026196 0 - 170899992 C
+e panTro2.chr6 16549732 0 - 173908612 C
+e ponAbe2.chr6 16331300 0 - 174210431 C
+
+a score=-37389.000000
+s mm9.chr10 3134070 25 + 129993255 ----------CACACAAAGACAAAAA---AACCTGTTT
+s rn4.chr1 229951713 23 - 267910886 ----------GAAACAAAGAAAAAAA---A--CTGTTT
+q rn4.chr1 ----------9999999999999999---9--999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 34070 6 + 79436 --------------------------------CCTTCT
+q oryCun1.scaffold_197619 --------------------------------999999
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16331300 8 - 174210431 -------------------------G---A--TCTTAC
+i ponAbe2.chr6 C 0 I 47
+s hg18.chr6 16026196 8 - 170899992 -------------------------G---A--TCTTAC
+i hg18.chr6 C 0 I 54
+s rheMac2.chr4 108433816 8 + 167655696 -------------------------G---A--TCTTAC
+q rheMac2.chr4 -------------------------9---9--999999
+i rheMac2.chr4 C 0 I 41
+s panTro2.chr6 16549732 8 - 173908612 -------------------------G---A--TCTTAC
+q panTro2.chr6 -------------------------9---9--999989
+i panTro2.chr6 C 0 I 50
+s calJac1.Contig23414 3818 8 + 7547 -------------------------G---A--TCTTTT
+i calJac1.Contig23414 C 0 I 46
+s otoGar1.scaffold_334.1-359464 297130 8 - 359464 -------------------------G---A--CCCTAC
+q otoGar1.scaffold_334.1-359464 -------------------------9---6--999999
+i otoGar1.scaffold_334.1-359464 C 0 I 33
+s tupBel1.scaffold_114895.1-498454 325772 11 - 498454 -------------------------GTCTA--CTTTTT
+q tupBel1.scaffold_114895.1-498454 -------------------------99999--999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 55
+s equCab1.chr31 12996025 11 + 24938454 --------GACG-------------C---A--CTGTT-
+q equCab1.chr31 --------9999-------------9---9--99989-
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78202667 19 - 125616256 CACACGGAGACA-------------G---A--CTGTT-
+q canFam2.chr1 999999999999-------------9---9--99999-
+i canFam2.chr1 I 1105 C 0
+e bosTau3.chr9 13652064 917 - 95030419 I
+e monDom4.chr2 106158865 2855 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 7268 1988 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e cavPor2.scaffold_286578 125428 32 - 133272 I
+
+a score=-33331.000000
+s mm9.chr10 3134095 26 + 129993255 ACAGG--ATTCAG---------------------CTGCC----ACTAAG--CTGG
+s rn4.chr1 229951736 35 - 267910886 ACAGG--ATTCAG-ATGGTTCG-----------GCTGCC----ACTAAA--CTGG
+q rn4.chr1 99999--999999-99999999-----------999999----999999--9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 34076 49 + 79436 GTAGG--GTGTAGGGTCGCTCACCCCGAGCCGCGCCGCC----AGTGGGACCCAG
+q oryCun1.scaffold_197619 99999--99999999999999999999999999999999----899999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16331355 27 - 174210431 ACAG--TGTTCTG---------------------CTACC----CACAGGG-CCAG
+i ponAbe2.chr6 I 47 C 0
+s panTro2.chr6 16549790 27 - 173908612 ACAG--TGTTCTG---------------------CTACC----CACAGGG-CCAG
+q panTro2.chr6 7144--9999775---------------------53336----5545479-9999
+i panTro2.chr6 I 50 C 0
+s rheMac2.chr4 108433865 25 + 167655696 --AG--TGTTCTG---------------------CTACT----CACAGGG-CCAG
+q rheMac2.chr4 --99--9999999---------------------99999----9999999-9999
+i rheMac2.chr4 I 41 C 0
+s hg18.chr6 16026258 24 - 170899992 ---G--TGTTCTG---------------------CTACC----CACAGGG-CCAG
+i hg18.chr6 I 54 C 0
+s otoGar1.scaffold_334.1-359464 297171 29 - 359464 ACAGGCTGTTCCG---------------------CCACC----AGCAAGG-CCAG
+q otoGar1.scaffold_334.1-359464 9999999999999---------------------99999----9999999-9999
+i otoGar1.scaffold_334.1-359464 I 33 C 0
+s tupBel1.scaffold_114895.1-498454 325838 7 - 498454 --------------------------------------------CCAGTG----G
+q tupBel1.scaffold_114895.1-498454 --------------------------------------------999999----9
+i tupBel1.scaffold_114895.1-498454 I 55 C 0
+s calJac1.Contig23414 3872 19 + 7547 ----------CTG---------------------TTACA----AACAGGG-CCAG
+i calJac1.Contig23414 I 46 C 0
+s cavPor2.scaffold_286578 125460 22 - 133272 -------GTTCTG---------------------CTCCC----AACAGGA-CCGG
+q cavPor2.scaffold_286578 -------999999---------------------99999----9999699-9788
+i cavPor2.scaffold_286578 I 32 C 0
+s equCab1.chr31 12996036 16 + 24938454 ----------------------------------CTACC----AATGGGA-CCTG
+q equCab1.chr31 ----------------------------------99999----9999999-7999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78202686 20 - 125616256 ----------------------------------CTGCTACCAAATAGGA-CCTG
+q canFam2.chr1 ----------------------------------9999999999999999-9999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13652064 917 - 95030419 I
+e monDom4.chr2 106158865 2855 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 7268 1988 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+
+a score=190199.000000
+s mm9.chr10 3134121 59 + 129993255 GACCTCTTCGGAG-CCA--AGCGGCTCTCCAGGAC------------------TCAG-GCTGCAGCTCCAGCCCACCCCTT
+s rn4.chr1 229951771 59 - 267910886 GACCTCTTGGGAG-CCA--AGCGGCTCTCCAGGAC------------------TCCA-GCAGCAGCTACAGCTCACTCCTT
+q rn4.chr1 9999999999999-999--9999999999999999------------------9999-99999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 34125 46 + 79436 GCCCTC--------------GCGGCTCAGCGGGAC------------------GCAC-GCCCCCTCCCCAgcccgcccc--
+q oryCun1.scaffold_197619 999999--------------999999999999999------------------9999-999999999999999999999--
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16331382 61 - 174210431 GGCCTCACACAAG-CCAGGGTGTGCTCTCCAGGGT------------------GCGC-GCGCGATCTACAACCCGCCCGTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16549817 59 - 173908612 GGCCTCACACAAA-CCA--GCGGGCTCTCCAGGGT------------------GCGC-GCGCGATCTACAACCCGCCCCTT
+q panTro2.chr6 9999866677877-988--8999998877452547------------------6644-33254867444789989999966
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108433890 59 + 167655696 GGCCTCACACAAG-CCA--GCAGGCTCTCCAGGGT------------------GCGC-GCGCGATCTACAACCCGCCCTTT
+q rheMac2.chr4 9999999999999-999--9999999999999999------------------9999-99999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16026282 59 - 170899992 GGCCTCACACAAA-CCA--GCGGGCTCTCCAGGGT------------------GCGC-GCGCGATCTACAACCCGCCCCTT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 297200 77 - 359464 GGCCTCTcccggg-ccg--cggggctccgcggggctccgcggggcTCTGCCGGGCGCAGCGCGGTCTGCAACCCGCCTC-T
+q otoGar1.scaffold_334.1-359464 9899999999999-999--999997999999999799999999999999999999999999999999999999999997-6
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 325845 57 - 498454 GACCTCACACGAG-CCA----CGGCTCTCCAGGAC------------------GCAC-ACCCGGCCTACAACCCGCCCCTT
+q tupBel1.scaffold_114895.1-498454 9999999999999-999----99999999999999------------------9999-99999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig23414 3891 59 + 7547 GGCCTCACACCAG-CCA--GCGGGCTCTCTAGGGT------------------GCGC-GCGCGATCTACAACCCGCCCCTT
+i calJac1.Contig23414 C 0 C 0
+s cavPor2.scaffold_286578 125482 49 - 133272 GGCCTCCCCCCAG-CCA--ACCGGCTCTCGGGG---------------------------TGCA--CACAGCCCGCCCCCT
+q cavPor2.scaffold_286578 8799999999999-999--99999999998888---------------------------9999--999994222489993
+i cavPor2.scaffold_286578 C 0 C 0
+s bosTau3.chr9 13652981 59 - 95030419 GGCCTCCCCCAAGCCCA--ACGGGCTCTCCAGGAT------------------GCAC-GCGC-ATCTACAATGCGCCCCCT
+q bosTau3.chr9 99999999999999999--9999999999999999------------------9999-9999-999999999999999999
+i bosTau3.chr9 I 917 C 0
+s equCab1.chr31 12996052 59 + 24938454 GGCCTCCCTCAAG-CCA--ACGGGCTCTCCAGGAT------------------GCAC-GCACGACCTACAACCCGACCCTT
+q equCab1.chr31 9989999999999-899--9999999999989997------------------8679-86899989999799979849999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78202706 59 - 125616256 GGCCTCACCCAAG-CCA--AAGGGCTCTCCGGGAT------------------GCAC-GTACGACCTACAACCCGCCCCTT
+q canFam2.chr1 9999999999999-999--9999999999999999------------------9999-99999999999999999999888
+i canFam2.chr1 C 0 C 0
+e monDom4.chr2 106158865 2855 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 7268 1988 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+
+a score=52634.000000
+s mm9.chr10 3134180 41 + 129993255 GAAGAGGAAAAGTAGATCCCTGGCGTC--CGG----------AGCTGGGACGT
+s canFam2.chr1 78202765 49 - 125616256 GAAAAGGAAAGCAGGGCCCGGGACACT--CCGGCTGAGCGC--GCAGGGCTTG
+q canFam2.chr1 888999999999999999999999999--999999988889--9999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 12996111 50 + 24938454 GAAAAGGAAAGTACGGCCC-GGCCACT--CCGGGTGTGTGCTAGGAGGGCTTA
+q equCab1.chr31 9999998899766785499-9538769--988977759666796686966669
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13653040 49 - 95030419 TAAAAGGAAAGT-CGGCAGGGACCTCT--CCGGGTGAGCGAACGCA-GGTTTC
+q bosTau3.chr9 999999999999-99999999999999--99999999999999999-999999
+i bosTau3.chr9 C 0 C 0
+s cavPor2.scaffold_286578 125531 48 - 133272 GAAAAGG-AAAGTGCGGCGGGCGCTCC--CGGAGC--AAGCCAGCCGGGCTGA
+q cavPor2.scaffold_286578 8999999-9998999786576876499--212111--1101477898988239
+i cavPor2.scaffold_286578 C 0 C 0
+s calJac1.Contig23414 3950 51 + 7547 GAAAAGGAAAGCGGGGCCCGGGACGCC--GCGGGCGTGAGCCCGGCCGGTTTA
+i calJac1.Contig23414 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 325902 51 - 498454 GAAAAGGAAAGTGGGGCCCGGGATGCTCGCCGAGCGTGCGC--GAAGGGCTGG
+q tupBel1.scaffold_114895.1-498454 99999999999799999999999999999999999999989--9999989999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 297277 48 - 359464 GCAAAGGAAAGCTGGGCCCGGG-CGCG--CCGGGT-TGCGCCCGCCCGG-GTA
+q otoGar1.scaffold_334.1-359464 5899799999997997899793-9658--999989-7989999999989-578
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s hg18.chr6 16026341 51 - 170899992 GAAAAGGAAAGCGGGGCCCGGGACGCT--GCGGGTGTGAGCCGGACCGGCTTA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108433949 51 + 167655696 GAAAAGGAAAGCAGGGCCCAGGACGCT--GCGGGTGTGAGCCAGACCGGCTTA
+q rheMac2.chr4 999999999999999999999999999--999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16549876 51 - 173908612 GAAAAGGAAAGCGGGGCCCGGGACGCT--GCGGGTGTGAGCCGGACCGGCTTA
+q panTro2.chr6 466999999999999999988558899--999998686667663525444342
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16331443 51 - 174210431 GAAAAGGAAAGCGGGGCCCGGGACGCT--TCGGGTGTGAGCGGGACCCGCTTA
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_197619 34171 32 + 79436 --------ggcggcgccccggagcgcg--cgg----------gACT-GGCTGG
+q oryCun1.scaffold_197619 --------9999999999999999999--999----------9999-999999
+i oryCun1.scaffold_197619 C 0 C 0
+s rn4.chr1 229951830 41 - 267910886 GAAAAGGAAAAGTAGAGCCGGGGAGTC--CCA----------AGCTGGGATGC
+q rn4.chr1 999999999999999999999999999--999----------99999999999
+i rn4.chr1 C 0 C 0
+s ornAna1.Contig11005 55 37 + 18021 -gaaaggaaaaaggagggcgggagTCC--GGGGGCGGGGC-------------
+i ornAna1.Contig11005 N 0 I 31
+e monDom4.chr2 106158865 2855 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 7268 1988 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+
+a score=140000.000000
+s mm9.chr10 3134221 32 + 129993255 AGGAGGGAAAGAAACCGGAG-------------TCTACGTCATCG-------
+s rn4.chr1 229951871 32 - 267910886 AGGAGGGAAAGCAATTGGAG-------------TCCGCGTCATCG-------
+q rn4.chr1 99999999999999999999-------------999999999999-------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 34203 19 + 79436 GCGAGGGGAAGTAACCGGA---------------------------------
+q oryCun1.scaffold_197619 9999999999999999999---------------------------------
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16331494 32 - 174210431 GAGAGGGAAAGTAACCGGAG-------------TCGGCCGCTTCG-------
+i ponAbe2.chr6 C 0 I 2
+s panTro2.chr6 16549927 32 - 173908612 GGGGGGGAAAGTAACCCGAG-------------TCCGCCGCTTCG-------
+q panTro2.chr6 22234558777789999977-------------778997777775-------
+i panTro2.chr6 C 0 I 62
+s rheMac2.chr4 108434000 32 + 167655696 GAGAGGGAAAGTAACCGGAG-------------TCGGCCGCTTCG-------
+q rheMac2.chr4 99999999999999999999-------------999999999999-------
+i rheMac2.chr4 C 0 I 2
+s hg18.chr6 16026392 32 - 170899992 GAGAGGGAAAGTAACCCGAG-------------TCCGCCGCTTCG-------
+i hg18.chr6 C 0 I 2
+s otoGar1.scaffold_334.1-359464 297325 32 - 359464 AAGAGAGAAAGTAACCGGAG-------------TCGCCGGTTTCG-------
+q otoGar1.scaffold_334.1-359464 96999889997874899885-------------878999789899-------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 325953 32 - 498454 AAGAGGGAAAGTAACCGGAG-------------TCGGCTGCTTAG-------
+q tupBel1.scaffold_114895.1-498454 99485739998698889896-------------699899969996-------
+i tupBel1.scaffold_114895.1-498454 C 0 I 2
+s calJac1.Contig23414 4001 32 + 7547 GAGAGGGAAAGTAACTGCAG-------------TCTGCTGCTTCG-------
+i calJac1.Contig23414 C 0 I 2
+s cavPor2.scaffold_286578 125579 28 - 133272 AAGAGGGAAAGTAACCGGAG-------------CCGGCGCC-----------
+q cavPor2.scaffold_286578 99987889996568978872-------------46664238-----------
+i cavPor2.scaffold_286578 C 0 M 101
+s bosTau3.chr9 13653089 32 - 95030419 CAGGGCGAAAGTAACCGGAG-------------TCGGCCGACCGG-------
+q bosTau3.chr9 99999999999999999999-------------999999999999-------
+i bosTau3.chr9 C 0 I 2
+s equCab1.chr31 12996161 32 + 24938454 GAGAGGGAAAGTAACTGGAG-------------GCGGCCGTTTCG-------
+q equCab1.chr31 69797969998997999996-------------677848769666-------
+i equCab1.chr31 C 0 I 2
+s canFam2.chr1 78202814 32 - 125616256 GAGAGGGAAAGTAACCCGAG-------------TCGGCCTTTTCG-------
+q canFam2.chr1 98999999998899999889-------------999999999999-------
+i canFam2.chr1 C 0 I 2
+s monDom4.chr2 106161720 52 - 541556283 AAAAGGGAAAGTAACCAGAGAGCAAGAGTAGGTTGGGATTCTTCCCTCCTCC
+q monDom4.chr2 9999999999999999999999999999999999999999999999999999
+i monDom4.chr2 I 2855 I 5
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 7268 1988 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e ornAna1.Contig11005 92 31 + 18021 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+
+a score=201890.000000
+s mm9.chr10 3134253 65 + 129993255 CGGCCCCG--CCCCT--CTCACGTGT---TGC--------TC----CC---------------------------------GCTCCGCCCCGCCC--CCTCTC--TTATTCCGGCAGCGCC
+s ornAna1.Contig11005 123 73 + 18021 CGGCCCCGC-CACCTGAAACCCGAGCCCGTCC--------ACCCT-GT---------------------------------CCCCCGCCCCGTCCCGCCCCTT--TCCGTCTGCCTGC---
+i ornAna1.Contig11005 I 31 C 0
+s monDom4.chr2 106161777 80 - 541556283 CCGCCCCGCACCCGC--TTCACGGGT---TTCACTCTAACCCTGC-AT---------------------------------CCCCGCCCCCGCTC--TCGCTCCCTTATCCTGTTGGCGAC
+q monDom4.chr2 999999999999999--999999999---9999999999999999-99---------------------------------99999999999999--999999999999999999999999
+i monDom4.chr2 I 5 I 1
+s echTel1.scaffold_178371 326 36 + 3889 -----------------------------gcc--------cccgg-ac---------------------------------gcc--gccccgccc--cTTCTC----AGTAGGTC------
+q echTel1.scaffold_178371 -----------------------------999--------99999-99---------------------------------999--999999999--999999----99999999------
+i echTel1.scaffold_178371 N 0 C 0
+s rn4.chr1 229951903 98 - 267910886 CGGCCCCG--CCCCT--CCCACGTGT---TGC--------TC----CCACTCGGCTCCGCCCCCTCCCACGTGTTGCTCCCGCTCCGCTCCGCCC--CCGCTC--TTATTCCGGGAGCAGC
+q rn4.chr1 99999999--99999--999999999---999--------99----9999999999999999999999999999999999999999999999999--999999--9999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 34222 65 + 79436 ---CTCCT--CCCCT--CCCACGGGC---TCC--------CCGGG-AC---------------------------------TCGCGGCCCCGCCC--CGCCTT--TTATCCGGTGAGCCAC
+q oryCun1.scaffold_197619 ---99999--99999--999999999---999--------99999-99---------------------------------99999999999999--999999--9999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16026426 69 - 170899992 CGGACCCGC-CCCCT--CCCACGAGT---TTC--------CCTAG-AC---------------------------------CCTCGGCCCCGCCC--TCTCTT--TTATTCGGTTTGCAGC
+i hg18.chr6 I 2 C 0
+s ponAbe2.chr6 16331528 70 - 174210431 CGGACCCGC-CCCCT--CCCAAGAGT---TTC--------CCTGGCCC---------------------------------CCTCGGCCCCGCCC--TCTCTT--TTATTCGGTTTGCAGC
+i ponAbe2.chr6 I 2 C 0
+s rheMac2.chr4 108434034 69 + 167655696 CGGACCCGC-CCCCT--CCCACGAGT---TTC--------CCTGG-CC---------------------------------CCTCGGCCCCGCCC--TCTCTT--TTATTCGGTTTGCAGT
+q rheMac2.chr4 999999999-99999--999999999---999--------99999-99---------------------------------99999999999999--999999--9999999999999999
+i rheMac2.chr4 I 2 C 0
+s calJac1.Contig23414 4035 69 + 7547 CGGGCCCGC-CCCCT--CCCACGAGT---TTC--------CCTGG-GC---------------------------------CCTCGGCCCCGCCC--CCTCTT--TTATTGGGTTTGCAGC
+i calJac1.Contig23414 I 2 C 0
+s otoGar1.scaffold_334.1-359464 297357 69 - 359464 -GGACCCGC-CCCCT--CCCACGAGT---TTCA-------CCCAG-GT---------------------------------CCCAGGTCCCGCCC--CCTCTT--TTATTCAGTTAGCGAC
+q otoGar1.scaffold_334.1-359464 -99589955-99949--699899958---9777-------79979-36---------------------------------79999257994399--969899--9977799796624956
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 325987 68 - 498454 CGGACCCG--CCCCT--CCTGAGAGT---TTC--------ACTGG-AG---------------------------------TGCTGGCCCCGCCT--CCCCTT--TAATTCGGTTAGCAAC
+q tupBel1.scaffold_114895.1-498454 49785995--89977--988984966---777--------57796-68---------------------------------47579559995796--999659--5565977565535846
+i tupBel1.scaffold_114895.1-498454 I 2 C 0
+s bosTau3.chr9 13653123 69 - 95030419 CAGCCCCGC-CCCCT--CCCACGAGT---TTC--------GCCGG-GT---------------------------------GTCCGGCCCCGCCC--CCTCTT--TTATTCCGCGCTCACC
+q bosTau3.chr9 999999999-99999--999999999---999--------99999-99---------------------------------99999999999999--999999--9999999999999999
+i bosTau3.chr9 I 2 C 0
+s equCab1.chr31 12996195 69 + 24938454 CGGACCCGC-CCCCT--CCCACGAGT---TTC--------GCTGG-CT---------------------------------CCTCGGCCCCGCCC--CCTCTT--TTATTCCGAGAGCTAC
+q equCab1.chr31 666549673-99886--597665665---976--------65655-46---------------------------------57655578865388--855559--9556535798755775
+i equCab1.chr31 I 2 C 0
+s canFam2.chr1 78202848 68 - 125616256 CGGACCCAC-CCCCT--CCCACGAGT---CTC--------CCCGG-GT---------------------------------CCTCCGCCCCG-CC--CCTCTC--TTATTCCGCGAGCAGC
+q canFam2.chr1 888888999-98888--888768687---889--------99989-77---------------------------------78888889999-99--999997--7999777777777777
+i canFam2.chr1 I 2 C 0
+s eriEur1.scaffold_224153 9256 64 - 12178 -----cctc-ctcct--tccaggAGT---TGC--------CGGGG-CT---------------------------------GTCGGGGCCCGCCC--CCACTT--TTATTCCGGGTGCCGT
+q eriEur1.scaffold_224153 -----4376-25345--115345666---633--------33244-44---------------------------------21335311876221--447272--3898448888971798
+i eriEur1.scaffold_224153 I 1988 C 0
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e cavPor2.scaffold_286578 125607 101 - 133272 M
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=252525.000000
+s mm9.chr10 3134318 87 + 129993255 GAGCG---GAGCAGAAACTTTGCAACCCGAGCGCGCACGCT-CCGCTTTTTTCCTC--CGCCCGG-----------------GCGGCCCGCGAC----------------GGTGGCGCAGGAGGTG---
+s rn4.chr1 229952001 86 - 267910886 GAGCG---GAGCAGAAACTTTGCTACCCGAGCGCGCAGGCT-CTGCGTTTTTCC-C--CTCCCGG-----------------GCGGCCCGCGAC----------------GGTGGCGCAGGAGGTG---
+q rn4.chr1 99999---999999999999999999999999999999999-999999999999-9--9999999-----------------999999999999----------------9999999999999999---
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 125710 69 - 133272 GGCCG---GAGCTGGACTTGGCCAGCCCGAGCGCGCACGCT-CTGCGCTCCTCC-------------------------------------GCC----------------GGTCGCGCAGAAGTTG---
+q cavPor2.scaffold_286578 34526---245245141221122435222462526232112-221331320125-------------------------------------255----------------7361213231323225---
+i cavPor2.scaffold_286578 M 101 C 0
+s oryCun1.scaffold_197619 34287 84 + 79436 GACCT---GCGCCGAAACTTTGTAACCCGAGCGCGCTC-CC-CTGCGCTCCTcc-c--cgccgag-----------------gcggcccg-gag----------------ggcggtgccgggggtg---
+q oryCun1.scaffold_197619 99999---999999999999999999999999999999-99-999999999999-9--9999999-----------------99999999-999----------------9999999999999999---
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16026495 86 - 170899992 AACCG---GAGCTGAAACTTTGCAACCCGAGCGCGCACGCT-CTGCGCTCGGCC-C--TGCCAGG-----------------GCGGCACGGGAG----------------GGCGGCGCAGGAGGTG---
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16331598 86 - 174210431 AACCG---GAGCTGAAACTTTGCAACCCGAGCGCGCACGCT-CTGCGCTGGGCC-C--TGCCAGG-----------------GCGGCACGGGAG----------------GGCGGCGCAGGAGGTG---
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108434103 86 + 167655696 GACCG---GAGCTGAAACTTTGCAACCCCAGCGCGCACGCT-CTGCGCTCTTCC-C--TGCCAGT-----------------GCGGCACGGGAG----------------GGCGGCGCAGGAGGTG---
+q rheMac2.chr4 99999---999999999999999999999999999999999-999999999999-9--9999999-----------------999999999999----------------9999999999999999---
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 4104 73 + 7547 GACCG---GAGCTGAAACTTTGCAACACGGGCGCGCACGCT-CTGCGCTCGGCC-C--TGCCAGG-----------------GCGGCAC-GGAG----------------GGCG---------------
+i calJac1.Contig23414 C 0 I 152
+s otoGar1.scaffold_334.1-359464 297426 85 - 359464 GCCCG---CAGCAGAAACTTTGTAACCCGAGCGCGCACGCT-CTGCGCTCGTTC-C--TGCCAGG-----------------GCGGCCC-GGAG----------------GGCGGCGCAGGAGGTG---
+q otoGar1.scaffold_334.1-359464 73997---997599993799677954969644513422169-998699998799-9--9439999-----------------3696779-2399----------------9159999999999997---
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 326055 85 - 498454 -ACCG---GAGCTGAAACTTTGTAACCCGAGCGCCCTGACT-CCGCGCTCCTCC-C--AGCCTGG-----------------GCCGCCCGGGAG----------------GGCGGTGCAGGGGGTG---
+q tupBel1.scaffold_114895.1-498454 -3896---666786896439765696966856549766345-455544545558-8--6457585-----------------766358557567----------------9765725655777765---
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_224153 9320 120 - 12178 GCGCG---GAGCTGGAACTTTGTAACCCGAGCGCGCAGGCTGCGCCGCTCCTCC-CAGTGCCCcggcgggcgagtgagcgcggcggccggcgggcgtgcggg--cgagcggtcggcgcgggaggtg---
+q eriEur1.scaffold_224153 75969---9995669968997799925336536248772177564779988924-69799699998888739997984863667524657987644879997--9212452135978969898446---
+i eriEur1.scaffold_224153 C 0 C 0
+s canFam2.chr1 78202916 87 - 125616256 GACCC---GAGCTGAAACTTTGTAACCCGAGCGCGCTCGC--CGGCGCTCCTCC-C--TGCCCAAGT---------------CCAGCCCCGGAG----------------GGAGGCGCGGGAGGTG---
+q canFam2.chr1 99775---55777777787777777877775555777777--562226577777-7--766677777---------------554457843344----------------5566655455856667---
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 12996264 86 + 24938454 GACCG---GAGCTGAAACTTTGTAACCCGAGCGCGCACG-------------CT-C--TGCCCTGAT---------------CCTGCCCCAGAG----CGAC--CGAGAAGGAGGCGCAGAAGGTG---
+q equCab1.chr31 89499---9467995868999999999999997463444-------------38-5--547755534---------------256599999999----9999--9999999999546799999999---
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13653192 88 - 95030419 ACCGG---GAGCTGGAACTTTGTAACCCGAGCGCGCTGGCT-CTGCGCTCCTCC-C--CGCCCCGGT---------------GCGGCCCTCCGG----------------GGAGGAGCAGGAGGTG---
+q bosTau3.chr9 99999---999999999999999999999999999999999-999999999999-9--999999999---------------999999999999----------------9999999999999999---
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_178371 362 66 + 3889 --GCG---GAGC-------CTGCTCCCCGAGCGCGCTCGTC-C---------AC-C--CGCCCA------------------GCAGTCC-GGAG----------------CGCAGCGCCCGCGGAG---
+q echTel1.scaffold_178371 --999---9999-------9999999999999999999999-9---------99-9--999999------------------9999999-9999----------------9999999999999999---
+i echTel1.scaffold_178371 C 0 C 0
+s monDom4.chr2 106161858 90 - 541556283 AACTGAAAGAGCAGAAACTGTGTAACCCGAGAAGACACGTT-CTCCCCTCCTCCTC--TTTTCCA-----------------TATGCACACCCG----------------GGAGATTAAGGAGTTG---
+q monDom4.chr2 99999999999999999999999999999999999999999-99999999999999--9999999-----------------999999999999----------------9999999999999999---
+i monDom4.chr2 I 1 C 0
+s ornAna1.Contig11005 196 69 + 18021 --------------------------CCGGGAGGGAG-----CTCCGCAGCTCC-C--AGCCC-------------------GCAGCCCGGGGA----CGACGACGACGAGGAAGAGGAGGAGGAG---
+i ornAna1.Contig11005 C 0 I 5
+s anoCar1.scaffold_688 199641 87 + 564151 ggggg---gagaagaagaggagaagccaAGGCTCCCGCTTC-CCCCGCTCTTAG-C--AGCGC-------------------CCGGCATCCTGG----------------AGCAGAGTCGGAGCCGGCA
+q anoCar1.scaffold_688 99999---999999999999999999999999999999999-999999999999-9--99999-------------------999999999999----------------9999999999999999999
+i anoCar1.scaffold_688 N 0 I 2
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=93042.000000
+s mm9.chr10 3134405 58 + 129993255 GGACCCACTGGCGGGAAGGCTC-----------GAGGCGG------------------------------------G-GGCGCA-CGCGGAGT-G--GGGACCTCGGGGA
+s rn4.chr1 229952087 58 - 267910886 GGACCCGCTGGCGGGAAGGCTC-----------GAGGCAC------------------------------------C-GGCGCA-CGCGGAGT-G--AGGACCTCGGGAG
+q rn4.chr1 9999999999999999999999-----------9999999------------------------------------9-999999-99999999-9--9999999999999
+i rn4.chr1 C 0 I 22
+s cavPor2.scaffold_286578 125779 55 - 133272 GGCGCCGC--GCGGGAAGCATA-----------GGGGTGC------------------------------------A-GCGCCG-CGCGAAGc-g--gggtccccggga-
+q cavPor2.scaffold_286578 76116444--345735225322-----------5795223------------------------------------5-444224-33127534-6--753728855844-
+i cavPor2.scaffold_286578 C 0 I 18
+s oryCun1.scaffold_197619 34371 56 + 79436 ggcccggcgggcgggAAGGCTC-----------GC-ACGC------------------------------------C-GGCGCA-CGCGGAGG-G--CGATCCGACAGA-
+q oryCun1.scaffold_197619 9999999999999999999999-----------99-9999------------------------------------9-999999-99999999-9--999999999999-
+i oryCun1.scaffold_197619 C 0 I 21
+s hg18.chr6 16026581 58 - 170899992 GGACCTGC-GCCGGGAAGGCTCC----------GGGACGC------------------------------------C-AGCGCA-CGCGGAGC-G--GGGACCCCGGAGA
+i hg18.chr6 C 0 I 44
+s ponAbe2.chr6 16331684 58 - 174210431 GGACCTGC-GCCGGGAAGGCTCC----------GGGACGC------------------------------------C-AGCGCA-CGCGGAGC-G--GGGACCCCGGAGA
+i ponAbe2.chr6 C 0 I 44
+s rheMac2.chr4 108434189 58 + 167655696 GGACCTGC-GCCGGGAAGGCTCC----------GAGACGC------------------------------------C-AGCGCA-CGCGGAGC-G--GGGACCCCGGGGA
+q rheMac2.chr4 99999999-99999999999999----------9999999------------------------------------9-999999-99999999-9--9999999999999
+i rheMac2.chr4 C 0 I 44
+s calJac1.Contig23414 4329 21 + 7547 AGACGGGC-GGAGGGA-------------------------------------------------------------------------GAGC-G--G------------
+i calJac1.Contig23414 I 152 I 9
+s otoGar1.scaffold_334.1-359464 297511 59 - 359464 GGACCTGA-GGCGGGAAGGCTCC----------GGGACGC------------------------------------CGGGCGCACCGCGGAGC-G--GGGA-CCGGGAGA
+q otoGar1.scaffold_334.1-359464 99799899-94799999999959----------9997733------------------------------------93411243411599999-9--9999-99999999
+i otoGar1.scaffold_334.1-359464 C 0 I 537
+s tupBel1.scaffold_114895.1-498454 326140 57 - 498454 GGATCTGCGGGCGGGAAGGCTCA----------GGA--GG------------------------------------C-TGTGCA-CCCGGAGC-T--GAGACCCAGGAGA
+q tupBel1.scaffold_114895.1-498454 95466666685678565665766----------555--53------------------------------------5-665553-79666575-6--6575587257675
+i tupBel1.scaffold_114895.1-498454 C 0 I 43
+s eriEur1.scaffold_224153 9440 53 - 12178 ggcccagcgggcgggaaggagcc----------gggc--C------------------------------------C-GGAGC--CTAGGAGC-G--GGGCCCGCAG---
+q eriEur1.scaffold_224153 84468879999999999999799----------9999--9------------------------------------9-99999--99996748-8--8636979995---
+i eriEur1.scaffold_224153 C 0 I 36
+s canFam2.chr1 78203003 59 - 125616256 GGAcccgcggccgggccggctcg----------gggacgc------------------------------------c-ggcgca-cgcggcgc-g--gAGACCCggggga
+q canFam2.chr1 77755333555455766656444----------5555335------------------------------------5-556656-44444555-4--3000443225554
+i canFam2.chr1 C 0 I 1613
+s equCab1.chr31 12996350 59 + 24938454 GGGCGTGCGGGCGGGAAGGCTCG----------GGGACGC------------------------------------C-AGCGCA-CGCGGAGCGG--GGGACCCGGGGG-
+q equCab1.chr31 99959964993699999953999----------9999698------------------------------------9-999999-9945936148--677479969733-
+i equCab1.chr31 C 0 I 85
+s bosTau3.chr9 13653280 58 - 95030419 GGACCTGCGGGCGGGAAGGCTC-----------GGGACGC------------------------------------C-AGCGCA-CGAGGATC-G--GGGACCTCGGAGA
+q bosTau3.chr9 9999999999999999999999-----------9999999------------------------------------9-999999-99999999-9--9999999999999
+i bosTau3.chr9 C 0 I 83
+s echTel1.scaffold_178371 428 47 + 3889 ------GCCGGCTGGGACGCTC-----------GGGACGC------------------------------------G-GGCGCA-CGTGGCGC-C--AGGGCGGC-----
+q echTel1.scaffold_178371 ------9999999999999999-----------9999999------------------------------------9-999999-99999999-9--99999999-----
+i echTel1.scaffold_178371 C 0 I 12
+s monDom4.chr2 106161948 71 - 541556283 GAACCTGCTGGCGGGAAGGCTACGGAGAGGAGAGGAGCGC------------------------------------T-TCCTCT-CACAGAGC-GCCAGGGCAGTAGGGC
+q monDom4.chr2 9999999999999999999999999999999999999999------------------------------------9-999999-99999999-9999999999999999
+i monDom4.chr2 C 0 I 50
+s ornAna1.Contig11005 270 94 + 18021 GGACTCCCGGGAGGGAAGGCGG-----------GGGAAGCGACCCCTACCCGCACGCACAGACAGAGCGGAGCGCgc-agcgca-ggaggagc-g--ggagcaggaggtg
+i ornAna1.Contig11005 I 5 I 39
+s anoCar1.scaffold_688 199730 58 + 564151 GGAGGCACagaggcgcgtgccc-----------ggcggag------------------------------------a-gacaca-cgcggaga-g--agcgccaaagaga
+q anoCar1.scaffold_688 9999999999999999999999-----------9999999------------------------------------9-999999-99999999-9--9999999999999
+i anoCar1.scaffold_688 I 2 C 0
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=0.000000
+s mm9.chr10 3134463 22 + 129993255 CGGACACCGCTCGCAGGAGCCG
+e anoCar1.scaffold_688 199788 0 + 564151 C
+e rn4.chr1 229952145 22 - 267910886 I
+e bosTau3.chr9 13653338 83 - 95030419 I
+e monDom4.chr2 106162019 50 - 541556283 I
+e equCab1.chr31 12996409 85 + 24938454 I
+e rheMac2.chr4 108434247 44 + 167655696 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 9493 36 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e ornAna1.Contig11005 364 39 + 18021 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e calJac1.Contig23414 4350 9 + 7547 I
+e tupBel1.scaffold_114895.1-498454 326197 43 - 498454 I
+e echTel1.scaffold_178371 475 12 + 3889 I
+e cavPor2.scaffold_286578 125834 18 - 133272 I
+e otoGar1.scaffold_334.1-359464 297570 537 - 359464 I
+e hg18.chr6 16026639 44 - 170899992 I
+e panTro2.chr6 16549959 62 - 173908612 I
+e ponAbe2.chr6 16331742 44 - 174210431 I
+e oryCun1.scaffold_197619 34427 21 + 79436 I
+
+a score=-145299.000000
+s mm9.chr10 3134485 53 + 129993255 CGGA---GGGCCAG--CCGA-----CCTAGAAGTTCCCGGC------CAGAAGAGTCCCACG-C----------------CAGGGC
+s rn4.chr1 229952167 53 - 267910886 CGGA---GGGCCAG--CCGA-----CCTAGAAGTTCCCGGC------CAGGAGAGTTCCACG-C----------------CTGAGC
+q rn4.chr1 9999---9999999--9999-----9999999999999999------999999999999999-9----------------999999
+i rn4.chr1 I 22 C 0
+s cavPor2.scaffold_286578 125852 47 - 133272 -agg---gggcccg--gcg---------aggggtcccgggc------tgggagagcgccccg-t----------------ccggg-
+q cavPor2.scaffold_286578 -568---8853853--355---------4546488922554------686655653479972-5----------------25676-
+i cavPor2.scaffold_286578 I 18 C 0
+s oryCun1.scaffold_197619 34448 50 + 79436 CAGAACGGAGCTCG--G-GA-----CTTGG----TCCTTTC------CAGGAGAGGCCCGCG-G----------------CGAGG-
+q oryCun1.scaffold_197619 99999999999999--9-99-----99999----9999999------989999999999999-9----------------99999-
+i oryCun1.scaffold_197619 I 21 C 0
+s calJac1.Contig23414 4359 48 + 7547 GGGG---AGATCCG--AGGA--------AGTGATCCTGGG-------CGGGAGGCGCCCGCG-C----------------CGAGC-
+i calJac1.Contig23414 I 9 C 0
+s rheMac2.chr4 108434291 49 + 167655696 CAGG---AGAACTA--AGAA--------AGTGGTCCCGGGC------CGGGAGGCTCCAGTG-C----------------CGAGC-
+q rheMac2.chr4 9999---9999999--9999--------9999999999999------999999999999999-9----------------99999-
+i rheMac2.chr4 I 44 C 0
+s ponAbe2.chr6 16331786 49 - 174210431 CGGG---AGACCCG--AGGA--------AGTGGTCCCGGGC------CGGGAGGCTCCTGTG-C----------------CGAGC-
+i ponAbe2.chr6 I 44 C 0
+s hg18.chr6 16026683 49 - 170899992 CGAG---AGATCCG--AGGA--------AGTGGTCGCGGGC------CGGGAGGCTCCCGTG-C----------------CGAGC-
+i hg18.chr6 I 44 C 0
+s tupBel1.scaffold_114895.1-498454 326240 48 - 498454 CCGG---AGGACAG--AGGA--------AGTGGTCCCGGGT------C-CGAGCCTCCCGCA-C----------------CTAGA-
+q tupBel1.scaffold_114895.1-498454 4856---7665879--7498--------9678565988967------4-8762498499655-5----------------99478-
+i tupBel1.scaffold_114895.1-498454 I 43 C 0
+s eriEur1.scaffold_224153 9529 21 - 12178 CAAT---GGACC--------------------------------------------CTCGCG-C----------------CCGGT-
+q eriEur1.scaffold_224153 7291---54347--------------------------------------------494724-4----------------56332-
+i eriEur1.scaffold_224153 I 36 C 0
+s equCab1.chr31 12996494 38 + 24938454 CAGA---GTAGC----------------AG-----CCGGGC------CGGGAGGGTTCCGCG-T----------------CGAGG-
+q equCab1.chr31 7645---23466----------------63-----254796------557766936697364-6----------------55532-
+i equCab1.chr31 I 85 C 0
+s bosTau3.chr9 13653421 33 - 95030419 CAGA---GGGGC----------------GG-----------------AGGAAAGGTCCCGCGCT----------------CGGAA-
+q bosTau3.chr9 9999---99999----------------99-----------------99999999999999999----------------99999-
+i bosTau3.chr9 I 83 C 0
+s echTel1.scaffold_178371 487 30 + 3889 ---------------------------CCGAGGTGCCGTGCGGCGGGCGGAAGGGTC-----------------------------
+q echTel1.scaffold_178371 ---------------------------999999999999999999999999999999-----------------------------
+i echTel1.scaffold_178371 I 12 C 0
+s monDom4.chr2 106162069 51 - 541556283 TGGA---GGAAGGA--ATAAACTTCCTTCCACGTTCCGAA-------GAGGAGGCGCTGGAG-T----------------------
+q monDom4.chr2 9999---9999999--999999999999999999999999-------999999999999999-9----------------------
+i monDom4.chr2 I 50 C 0
+s ornAna1.Contig11005 403 66 + 18021 cagc---agcagcagcagGA--------GGAGGAGGCGTTC------TGGAAAAAGGGCGTG-C-AATCCCACTTGGGTGCGAGC-
+i ornAna1.Contig11005 I 39 C 0
+s anoCar1.scaffold_688 199788 34 + 564151 --------------------------------------------gagcgcgagccgcgcgcg-cggatcaccct------cgggc-
+q anoCar1.scaffold_688 --------------------------------------------999999999999999999-99999999999------99999-
+i anoCar1.scaffold_688 C 0 C 0
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e loxAfr1.scaffold_7828 81054 562 - 87447 I
+e otoGar1.scaffold_334.1-359464 297570 537 - 359464 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=178518.000000
+s mm9.chr10 3134538 116 + 129993255 AGCCCCGG-CCTGGG-------GTTTGAGGTTGCAACCT-G--CT--CCCGCTGCTGCGGTGG-------TTGCGGAGAAGCAGCTGTAGCAGAGA--G--------CGGCG-----TCGG------------------------------------GG--------GAACTG--CATCTGGA----CAGCGGTAGCTGCG
+s rn4.chr1 229952220 119 - 267910886 AGCCCCGGGCCTGGG-------GTCTGAGGTTGCAATCTTG--CG--CCCGCTGCTGCGGTGG-------TCACGGAGAAGCAGCTGTATCCCAGA--G--------CTGCG-----TGGG------------------------------------GGA-------GAACTG--CAGCTGGA----CGGCGGTAGCTGCG
+q rn4.chr1 999999999999999-------9999999999999999999--99--9999999999999999-------99999999999999999999999999--9--------99999-----9999------------------------------------999-------999999--99999999----99999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 125899 129 - 133272 ------ggagccggg-------ctctggggTCGCAGCCGCG--CGGACTCGCAGCTGCTTTTG-------CCCGGGAGCCGCAGCTGTGCCGGGGT--C--------CGGCG-----GCGG--------CCC--------------GGGAAGGAGGAGGA------CGAGCTG--CAGCTGGA----CGCTGGCAGCTG-G
+q cavPor2.scaffold_286578 ------824285894-------2912934172545455945--31263615765455299973-------88746664715687364559583426--6--------23546-----2552--------797--------------67695767999986------6777987--88999999----779999899955-6
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 34498 134 + 79436 ---------CCGGGA-------CTTTGGGGTCTTAGCCGCT--CGTGCCCGCAGCTGCCGTCG-------CCCAGGAGCCGCAGCTGTGCCCCGGATCC--------CGGCG-----GCCG--------CAG--------------GGGAAGGAGGAGGAGGAGCAGGAGCCG--CAGCTGCA----CGGTGGCAGCTG-G
+q oryCun1.scaffold_197619 ---------998999-------9999999999999999999--99999999999999999997-------99989998999998999998999899999--------99998-----9999--------987--------------999999999999999999977998999--97799996----979999979999-9
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig23414 4407 128 + 7547 ----CGAGGCCGGGG-------GTCTGGGGTCGCAGCCCAG--CGTGCCTGCAGCTGCCGTCA------CCCCAGGAGCGGCAGCTGTGCCTGGGATCC--------CGGCG-----GCGG--------CGG--------------GGGAA------GGA------GGAGCTG--CTGCTGGA----CGGTGGCAGCTG-G
+i calJac1.Contig23414 C 0 C 0
+s rheMac2.chr4 108434340 127 + 167655696 ----CGAGGCCAGGG-------GTCTGGGGTCGCAGCCCGG--CGTGCCTGCAGCTGCCGTCG-------CCCAGGAGCAGCAGCTGTGCCCAGGATCC--------CGGCG-----GCGG--------CGG--------------GGGAA------GAA------GGAGCTG--CAGCTGGA----CTGTGGCAGCTG-G
+q rheMac2.chr4 ----99999999999-------9999999999999999999--99999999999999999999-------99999999999999999999999999999--------99999-----9999--------999--------------99999------999------9999999--99999999----999999999999-9
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16331835 127 - 174210431 ----TGAGGCCAGGG-------GTCTGGGGTCGCAGCCCGG--CGTGCCTGCAGCTGCCGACG-------CTTGGGAGCAGCAGCTGTGCCCGGGATCC--------CGGCG-----GCGG--------CGG--------------GGGAA------GGA------GGAGCTG--CAGCTGGA----CTGTGGCAGCTG-G
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16026732 127 - 170899992 ----CGAGGCCAGGG-------GTCTGGGGTCGCAGCCCGG--CGTGCCTGCAGCTGCCGTCG-------CTCGGGAGCAGCAGCTGTGCCCGGGATCC--------CGGCG-----GCGG--------CGG--------------GGGAA------GGA------GGAGCTG--CAGCTGGA----CTGTGGCAGCTG-G
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 326288 135 - 498454 ----AGAGGCCTGGG-------GTCTGGGGTCGCAGCCCCG--CGTGCCCGCAGCTGCCGTCG-------CTCAGCGGCAGCAGCTGTGCCCGGTATCCCGGCGGCGCGGCG-----GCGG--------TAG--------------GAGCA------GCA------GGAGCTG--CAGCTGGA----CGGTGGCAGCTG-G
+q tupBel1.scaffold_114895.1-498454 ----98797797999-------3777899576668497777--68675895699767795778-------577657789999899998999999879799997997899999-----9979--------979--------------97796------799------9999999--99999799----999999999999-9
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_224153 9550 127 - 12178 ----CGATCCCCGGGGTgggggggCTAGGCTGGGAGCCCCG--CGTCTCCGCCGCTGCGGGCG--GGCGACTCCGGAACAGCGGCTGAAGCCCGGCTCC--------CG---------------------------------------AGA------GGA------GGCTCCG--CAGCTGGA----CCGCGGCAGCTG-G
+q eriEur1.scaffold_224153 ----2558367776443337561111123344748246655--44524226356576678656--6538948898896999698579994686762469--------99---------------------------------------978------687------9868999--99987983----997799999956-8
+i eriEur1.scaffold_224153 C 0 C 0
+s equCab1.chr31 12996532 121 + 24938454 ----CGAAGCCAGGG--------TCTGGGGT--------CG--CGTCCCCGCAGCTGCCGTCG-------CCCAGGAGCAGCAGCTGTGCCCGGGCTCC--------CGGCG-----GCGG---------------CGCGGG----GAGGA------GGA------GGAGCTG--CAGCTGGA----CGGCGGCAGCTG-G
+q equCab1.chr31 ----47692352385--------64465765--------22--43428762254533293826-------27932663523642345522373665229--------42554-----5547---------------636254----86375------365------6853746--66375255----543633753842-9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13653454 144 - 95030419 ----CTGAGCCCGGG----GGAATCTGGACTCCCTGCCCCG--CGTTCCCGCAGCGGCCGTAG-------CCTAGGAGCGGCAGCTGTGTCTGGAGTcc--------cggcg-----gcgg--------cggcggccgcgggggACGAGGA------GGA------GGAGCTG--CAGCCGGA----CGGTGGCAGCCG-G
+q bosTau3.chr9 ----99999999999----9999999999999999999999--99999999999999999999-------99999999999999999999999999999--------99999-----9999--------9999999999999999999999------999------9999999--99999999----999999999999-9
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_7828 81616 124 - 87447 -------AGCCCAGGCCGGAGGGTCTGGG-----------T--CGCCGCCGCCACCGCCGCCA-----------GGAGCAGCAGCTGTGCCCTGACTCC--------CGGAG-----GCGCCAGAGGAGAAG--------------GAGGA------GGA------GGAGCCC--CGGCTGAA----CGGTGGCAGCTG-G
+q loxAfr1.scaffold_7828 -------6568653543655582645584-----------7--46555565664456655765-----------5575655565555336966661128--------25556-----666866565565534--------------65555------555------5664898--26555565----575556886534-8
+i loxAfr1.scaffold_7828 I 562 C 0
+s echTel1.scaffold_178371 517 93 + 3889 -------------------------TGGG---------------------GTCGCAGCCATCG-----------GGAGCCGCAGCGGTGCCCGGGCTCC--------GGGAG-----GCGC----AGAGCGG--------------GAGGA------GGA-------GCGCCG--CCGCTGGC----CGGTGGCAGCTG-G
+q echTel1.scaffold_178371 -------------------------9999---------------------9999999999999-----------9999999999999999999999999--------99999-----9999----9999999--------------99999------999-------999999--99999999----999899999989-9
+i echTel1.scaffold_178371 C 0 C 0
+s monDom4.chr2 106162120 120 - 541556283 -------TCCAAAGA-------GACAGGAGTGGGTGTCCTGACAACTTCCGAAGCAACCGGTG-------CTGGATAGTGG-GGCTGCGGCTGGAGTGC--------AGTAG-----GGAT--------TCA--------------GCGGA------CAA------GGAGCGGGCCAGCTG---------TAGCAGCG---
+q monDom4.chr2 -------99999999-------99999999999999999999999999999999999999999-------99999999999-99999999999999999--------99999-----9999--------888--------------88899------998------777778998889989---------99998876---
+i monDom4.chr2 C 0 I 160
+s ornAna1.Contig11005 469 116 + 18021 --AGCGGCGGCAGGA-------GCTGGGG-----AGCACCA--TG--------------GGGG-------CCTGGAAGCGGAGTCTGTAGCGGGAAGAG--------AGGagcaggagcag--------cag--------------gagca------gca------gcagcag--cagcaggagcagcagcagcagc----
+i ornAna1.Contig11005 C 0 C 0
+s anoCar1.scaffold_688 199822 119 + 564151 -------aggcgcgc-------gcgcgcgTTCCCAGTGCCA--GGCTTCCCCGGCAGCcggagaagaggagccgggagaggagaggagggcgcgggttt--------tgagg-----aggg--------gac--------------gggga------agg------ggagggg--gaggggga----g-------------
+q anoCar1.scaffold_688 -------99999999-------9999999999999999999--99999999999999999999999999999999999999999999999999999999--------99999-----9999--------999--------------99999------999------9999999--99999999----9-------------
+i anoCar1.scaffold_688 C 0 C 0
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e otoGar1.scaffold_334.1-359464 297570 537 - 359464 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=530604.000000
+s mm9.chr10 3134654 345 + 129993255 GGGAGCAG-CCGTACGGGACATAGCTGTCCCGTGC------GCAGA---GACCCAGGGCCGCGCTTCCCTCGCAGAAACCGC------AGCGCGATGGCCCG--CTGA---CTGCGGCCATGCAGGCTTGAGCGGACTCCCGGCA---CACGC--AGGGGA---CAACCAC-----------------------------GGGCGCAGGCTGCAGG-ACTCC--TGTCGATTGC-CTAGCCCAGCGGACAGCGAAG----CTGCTTACCATGGAGCCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GAGCGAGCCGT-----GGAGGACCCCCGCGCCCTACAG-CCGGGGAGA--TGGGGCGGG--C-CAAGAGTT-------GG-GCACTGGAGT---GCTCTGCCCCT-CCTGC
+s rn4.chr1 229952339 346 - 267910886 GGGAGCAG-CCGTACCGGACACAGCTGTCCCGTAC------GTAGG---GACCCAGGGCCGCACTCCCCTCGCTGAG-CCGC------TGCGCGATGGCTGG--CTGA---CTGCGGCCATGCAGGCTTGAGCGGACGCCCGGGA---CACGC--AAGGGA---CAACTGC-----------------------------GGGCGCAAGTTTCAGG-ACTCCGCCGTCGACTCC-CCAGCCCAGCGGGTAGAGAAG----CATCTTACCATGGAGCCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GAGCGGGCCGT-----GAAGGACCCCGGCGTCCTGCAG-CCGGGGAGC--TGGGGCGGG--C-CAAGAGTT-------GG-GCACTGGGGT---GCTCGGCCCCT-CCTGC
+q rn4.chr1 99999999-99999999999999999999999999------99999---9999999999999999999999999999-9999------99999999999999--9999---9999999999999999999999999999999999---99999--999999---9999999-----------------------------9999999999999999-99999999999999999-999999999999999999999----999999999999999999999999999999999999999999999999999999999999999--99999999999-----9999999999999999999999-999999999--999999999--9-99999999-------99-9999999999---99999999999-99999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126028 276 - 133272 AGGAGCAG-CC-------ACACAGCTGTCCCGTGT------GCGGG--CGACC---GGCC---------------AG----------------GATGACCCG--CTGA---CCGCGGCCATGCAGCCCTGACGGGGTGACCAGCG---CTT----------------------------------------------------------------G-AC-----CGCCACCTCG-CTAGTCCAGCGGGAAACGAAG----CCGTTTACCATGGAACCCGTGACCAAGTGGACCCCTAAACAAGTGGTGGACTGGACTCGAGGT--GAGCGGGCCTT-----CG-GCACCCCGGCGTCCTCCAG-CCCCGGAGC--CGGAGGGAG--C-T-GGGGCT-------GC-GGAAGGGGGT---GTCCAGCCCTC-CCTGC
+q cavPor2.scaffold_286578 66699989-99-------99999999999999999------99999--99999---9999---------------77----------------999999999--9999---9999999999999999999999999999999999---999----------------------------------------------------------------9-99-----9999999999-999999999999999999999----999999999999999999999999999999999999999999999999999999999999999--99999999999-----99-9999999999999999999-999999999--999999999--9-9-999999-------99-9999999999---99999999999-99999
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 34632 314 + 79436 AGGAGGGG-C--------GCACAGCTGTCCCGTGC------GCCGG--CGA--GAGGACCGAGCTCCTTGGGCAGAA-CCGC-------GCGGGATGACCCG--CTGA---GCGCGGCCATGCAGGCTTGACCGGGCG-CTGCGG---CGCGC--AGGGCAC--CGACCGC----------------------------GGGGCGCAGGCGGCAGC-ACTTTACCGCGGACTCT-CCAGC------GGGAGCGAGG----CCGGCCACCATGGAACCTGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACCAGAGGT--GAGCGGGCCTC-----GGGGAGCCTC------------------AAAA--GGGGGCGCT--C-GGGGACCT-------GG-TTAGGAGGGT---GCGCGGCGAGC-GCAGC
+q oryCun1.scaffold_197619 99998999-9--------89797899997889998------79869--869--999998879968677999998999-7979-------7889997999787--8999---999979695997569799999969977-789969---98978--7497788--9797788----------------------------79996886497796687-54899889868997645-57676------6999786969----786956465369797623979756276778855535397427678657373575756358678--59574965555-----2774525211------------------2995--378754221--2-17864224-------57-3534476965---65432633757-95479
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig23414 4535 327 + 7547 GAA----------------------------------------------TA--GAGGGCCGCGCTCCCCTGGCGGAG-CCGC------GCCGGGACGACCCG--CTGA---CCGGGGCCATGCAGCCTTGACGGAGTCGCTCGGG---CGCA----GGGGAC--CAGCCGC-GGGCGCGCCCTGCCGGGAAGGGGCACAGGAGCGCAGGCAGCGGC-TCTTTACCTCCTACTCT-CTAGCCCAGCGAGGGGCGAAG----CCGTTTACCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GCGCGGGCGTT---GCGGGGGGGTCCAGGGTTCTCCAG-CCTCGGGGA--TGGGGCGGG--C-GGGGAGCT-------GG-GGAAGGGGG-------------TT-TCTGC
+i calJac1.Contig23414 C 0 C 0
+s rheMac2.chr4 108434467 339 + 167655696 AGG----------------------------------------------GA--GAGGGCCAGGCTCCCCTGGCGGAG-CTGC------GCTGGGACGACCCG--CTGA---CCGCGGCCATGCAGCCTTGACGAAGTCGCTCGGG---CGCA----AGGGAG--CAGCCGT-GGGCGCGCCCTCCCGGGAAGGGCCACCGGAGCACAGGCAGCAAC-ACTTTATCTCCGACTCT-TCAACCCAGCGAGAGGCGAAG----CCGTTTACCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GCGCGGGCCTTGCGGGGGGAGTGTCCGGAGTCCTCCAG-CCTCGGGGA---TGGTTGGG--C-GGGGAACT-------GG-GGTAGGGGGT---GCTTGGCCCTT-CCTCC
+q rheMac2.chr4 999----------------------------------------------99--999999999999999999999999-9999------99999999999999--9999---9999999999999999999999999999999999---9999----999999--9999999-99999999999999999999999999999999999999999999-99999999999999999-999999999999999999999----999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999-999999999---99999999--9-99999999-------99-9999999999---99999999999-99999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16331962 338 - 174210431 AGG----------------------------------------------GA--GAGGGCCGGGCTCCCCTGGCGGAG-CCGC------GCTGGGACGACCCG--CTGA---CCGCGGCCATGCAGCCTTGACGGAGTCGCTCGGG---CGCA----GGGGAG--CAGCCGC-GGGCGCGCCCTCCCGGGAAGGGGCACCGGAGCGCAGGCAGCAGC-ACTTTATTTCCGACTCT-CCAGCCCAGCGAGAGGCGAAG----CGGTTTACCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GCGCGGGCCTT----GGGGGGGGTCCGGAGTCCTCCAG-TCTCGGGGGATGGGGGCGGA--C-GGAGAGCT-------GG-GGAAGGGGGT---ACTTGGCCCTT-CCTCC
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16026859 335 - 170899992 AGG----------------------------------------------GA--GAGGGCCGGGCTCCCCTGGCGGAG-CCGC------GCTGGGACGACTGG--CTGA---CCGCGGCCATGCAGTCTTGACGGAGTCGCTCGGG---CGCA----GGGGAG--CAGCCGC-GGGCGCGCCCTCCCGGGAAGGGGCACCGGAGCGCAGGCAGCAGC-ACTTTATCTGCGACTCT-CCAGCCCAGCGAGAGGCGAAG----CGGTTTACCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GCGCGGGCCTT-----GGGGGGGTCCGGAGTCCTCCAG-CCTCGGGGA--TGGGGCGGA--C-GAGGAGCT-------GG-GGAAGAGGGT---ACTTGGCCCTT-CCTCC
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 326423 368 - 498454 CGGAGAAG-TC-------GCACAGCTGTCCCGTGT------GCGGG--CGA--GAGGGTCGTGCTACCCTCGCTGAA-TTGT------GCTGAGATGACCCG--CTGA---CCGCGGCCATGCAGCCTTGACGGGGTCGCTCAGG---CGCGC--CGGGGAC--GAGTCACGGGGCTCGCCCTCTCCGGAAGGGGCACTGGGGCTCAGGCAGCGGC-ACGTAACCTCTGCCTCT-CCAGGCCAGCGGGGAGCGAAG----CTATTTGCCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GAGCGAGCCTT-----GGGGAACCCCGAAGCCCTGTCG-CCGTGGGGA--TGGGGCAGG--C-GGAAAGCT-------GG-GGAAGGGGGA---TCTCAGCCCCT-CCTGC
+q tupBel1.scaffold_114895.1-498454 99999997-94-------75999999999999999------99999--999--999999999999999999999999-9999------99999999999999--9999---9999957999999999999999999979899999---99999--9999999--9999999999999999999999999999999999999999999999999999-99999999999979999-999999999999999979999----999999999999999999999999999999999999999999999999999999999999999--99999999999-----9999999999999999999999-999999999--999999999--9-99999999-------99-9999999999---99999999999-99999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_224153 9677 256 - 12178 AGGCGGAG-C--------G------------GTGC------GCCCC--CGA-----------------CTGGCCGCG--------------------------------------GGCCATGCAGCCTTGA--GCGGCGCCCGGGGACCACTC---GGGGAC--------------------TCCCGGAG----------------GG---GCCGG-ACTGCACTGCAACTCT---CAGCCCGGCTGGCA-CCAAG----CTCTTCACCATGGAGCCCGTGACCAAATGGAGCCCCAGACAAGTGGTGGACTGGACCAGAGGT--GAGC--TTGtg-----ggggt-----gg--------ag-gtctggggc--tgggggcgg--ctggggagct-------------gaggggt---gccagggcttttcctgc
+q eriEur1.scaffold_224153 88889999-8--------7------------8898------76689--997-----------------888998788--------------------------------------9789989999999996--56998999998896798999---989999--------------------99979999----------------99---99999-9999999999998989---99999999999999-99999----999999999999999999999999999999999999999999999999999999999999999--9999--99999-----99999-----99--------99-999999999--999999999--9999999999-------------9999999---99999999999999999
+i eriEur1.scaffold_224153 C 0 I 21
+s equCab1.chr31 12996653 361 + 24938454 AGGAGGAG-C--------GCACGGCTGTCCCGTGT------GCCGG--GGA--GAGGGTCGCGCAGCCCTGGCCGAG-TGGC------GCCGGGATGAGCCG--CTGA---CCGCGACCATGCAAGCTTGACGGGGGCGCTCGGG---CGCGC---GGGGAC--AAGGCGCAGGGCGCGCTTTCCCGGGAAGGGGCCGC-GGGCTCAGGCAGCAGG-ACTTGATCGCCGATTTG--TAGCCCAGCGGGGAGCGAAG----CCATTTACCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGATTGGACCAGAGGT--GAGCG-GCCTG-----GGGGG--CCCGGTGT-CTCCAGTCTCCGGAGA--TGGGGCGAA--C-GGGGAGCT-------GG-GGTAGGGGGT---GCTCAGCGGCT-CCTGC
+q equCab1.chr31 53944712-1--------23374977293783733------34947--786--543941111854367855647866-7387------35736757623853--5662---5956212669566829569343677735386756---68796---777636--56113254484533358966745565657725444-4625657435536654-36655455669967856--56668467857996638995----676999475965525586569777799999999999999999999979659679469899999--99999-99999-----99999--99999999-9999999999999999--999999999--9-99999999-------99-9999999999---99999999999-99999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13653598 357 - 95030419 AGGAGGAgcc--------gcgccgctgtcccgtgc------gccgg--gga--gcgggccgcgccgcccgggccgcg-ccgc------gctgggatgccccg--cTGACGGCGGCGGCCATGCAGCCTTGAC-AGGGCGCTcgg-----gcgc---ggggac--cggccgcggggcgcgcccTCCCGGGA----------------GGGCAGCAGG-ACTTCACCGCCGACTC---CAGCTCCGCTGGGTTCCCGG----CCCTCCAAGATGGAACCGGTGACCAAGTGGAGCCCCAAGCAAGTGGTGGACTGGACTAGAGGT--GAGCGAGCCTG-----GGGGTACCCCGGCGT-CTCCAG-CCCGGGGGA--TCGGGCCGG--C-GGGGAGCTGGGATCCGG-GGTGGGGGGTGGCGCTCAGCCCCT--CTGC
+q bosTau3.chr9 9999999999--------99999999999999999------99999--999--999999999999999999999999-9999------99999999999999--9999999999999999999999999999-99999999999-----9999---999999--99999999999999999999999999----------------9999999999-9999999999999999---99999999999999999999----999999999999999999999999999999999999999999999999999999999999999--99999999999-----999999999999999-999999-999999999--999999999--9-99999999999999999-999999999999999999999999--9999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_7828 81740 331 - 87447 AGGAGGAG-CC-------GCACAGCTGTCC--------------------C--GTGTGTC-----------GCCGAG-CCGC------ACTGGGATGACCCA--CTGA---CCGCG-CCATGCAGCCTTGACGGAGG-GCTCCGG---AGCGC---AGGGAC--CAGCCGG-GGGCGCGCCCACCCTAGAAGGGA-CCCGGGGCGCAGGCTCCAGG-ACTTTA-CGCCGACGCT-CTAGCCCAGCTGG-AGCGCAG----CCATTTACCATGGAGCCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGACTGGACTAGAGGT--GAGCGGACCTG-----GGGG---CCCCGATTCCTCCAG-CC--GGGGA--TGGGGAACC--T-GGGG-GCT-------GG-GGAA-GGGGT---GCTCAGCTCCG-CCTGC
+q loxAfr1.scaffold_7828 77868997-95-------799998866869--------------------7--6586686-----------977897-9799------76559476669998--9787---97976-99877886978468696779-7589686---87799---889969--9979699-99969889997999989979988-99798987997999999889-899999-9995999999-9999999999599-9999999----999999999969999999988999999699999999999999999979999899999999999--99999999999-----9999---999999999999999-99--99999--999999999--9-9999-998-------99-9999-99999---99999999999-99999
+i loxAfr1.scaffold_7828 C 0 C 0
+s echTel1.scaffold_178371 610 275 + 3889 AGGAGGGG-CC-------GCGGAGCTGCCCTGT----------------GC--GTGGGTC-----------GCCGAG-CCGC------TCGGGGATGACCCG--CTGA---TCGCG-CCATGCAGCCTTAACGGAGG-GCTCCGC---TGCG----GGGCAC--CGGCCGG-GGACGCGCCCTCCCGGGAAGG---CGCGGGGCGCACGCTTCAGG-ACTTTC-CGCCGACGCT--TAGCCCAGCGGG-GGCGCAG----CCGTGTACCATGGAGCCCGTGACCAAGTGGAGCCCCAAGCAAGTGGTGGACTGGACCCGAGGT--GAGGGGCCCGG-----G----------------------------------AGGGAACG--T-TGGG--------------------------------------------
+q echTel1.scaffold_178371 99999999-99-------999999999999999----------------99--9899999-----------999999-9999------99999986999999--9999---99979-89799757799999999969-9799999---9977----999985--9997999-999899999999999999999---99999997979899999999-999999-9999998999--999999799999-9999999----999999999899999999999999699999999999999999999999999999999989999--99999999999-----9----------------------------------99999999--9-9999--------------------------------------------
+i echTel1.scaffold_178371 C 0 C 0
+s monDom4.chr2 106162400 335 - 541556283 ----------------GAGGGTGGTTGTGCGGTAC------AG------GA--CTGTACC-TGCTGATACTGCTGTC-CCTTCTAGCAACTGAGATGGACGGTCCGGA---GCGAAGTC-TTTAGTCTGGAAAAAA-------GG---AGAAT--CGGGGAGTTCAGCCTC---------GTCTGTTGGAGGAGGGTGTTAGACTCGGGCGCCAGGCGCTTTCCAGCGGACTTT-TTAGTCTAGCCTAAGACTGAGTGGCCGGTTCACCATGGAACCCGTGACCAAGTGGAGCCCCAAACAAGTGGTGGATTGGACTAAAGGTGAGAGCAAGTTTT-----GGGGGCGCTTAACATTGT-----GTCCGAAGT--GGGGGTGGG--T-GGGGAGTG----------------GAGT---GCAACGCC---------
+q monDom4.chr2 ----------------9999999999999999999------99------99--9999999-9999999999999999-999999999999999999999999999999---99999999-9999999999999999-------99---99999--9999999999999999---------999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----999999999999999999-----999999999--999999999--9-99999999----------------9999---99999999---------
+i monDom4.chr2 I 160 I 2181
+s ornAna1.Contig11005 585 268 + 18021 -----------------------------------------agcag--cag--caggagcagtagcagcaggagcag-cagc------agcaggaccagccggaccag---caggagca--gcagc----agcaggaggagcagG---ATCG----GGAGGA--TCCCCGC------------------------------------TGCTCCCGG-A-------GACGTTTCC-CTCGGCGGGTCCGGGCCGGGG----CCGCGCATCATGGAGCCCGTGACCAAGTGGAGCCCCAAGCAAGTGGTGGATTGGACCCGAGGT--GAGAGGAGGTC-----GG---------------------CCGGGGGCG--CGGATCAGGATC-AGaatgtt-------ggtattacggagt---gcccagcac--------
+i ornAna1.Contig11005 C 0 N 0
+s anoCar1.scaffold_688 199941 354 + 564151 -----------gaagcaaGAGCCGCCTTCCTTTGCTCCTCTGTCGGCCCGC--TGAAGCTgaattccccctcccctc-ctcc----ttctcctggtcACGCA--CAAC---CTGCaccctcgctcgctcgctcgctccctCCAGA---CCTTCTCCTGGTCT--CCTTTGG----------TTCTTCGAGAGggacgctgctgctgctgcttc--t-tcccccccTCCGTCCCTCCTAGGGAAGTTTGCCCCCATG----GCGCTCATTATGGAACCCGTGAGCAAATGGACCCCCAGCCAAGTGGTGGACTGGATGAAAGGT--AAGGGAAGAAG-----GGCG-------------------GAGGGACGA--CGAGGAGGG--C-TGGCAGGT-GTTTGGGG-GGAATGGAGA---GGGCTGCGTTC-CCTTC
+q anoCar1.scaffold_688 -----------9999999999999999999999999999999999999999--999999999999999999999999-9999----9999999999999999--9999---9999999999999999999999999999999999---99999999999999--9999999----------99999999999999999999999999999999--9-999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999999999999999999--99999999999-----9999-------------------999999999--999999999--9-99999999-99999999-9999999999---99999999999-99999
+i anoCar1.scaffold_688 C 0 N 0
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e otoGar1.scaffold_334.1-359464 297570 537 - 359464 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=-19813.000000
+s mm9.chr10 3134999 6 + 129993255 C---------------------GGC--------GA-----
+s rn4.chr1 229952685 6 - 267910886 G---------------------GGC--------GA-----
+q rn4.chr1 9---------------------999--------99-----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126304 14 - 133272 G---------------------AGCTGCGCGGGGA-----
+q cavPor2.scaffold_286578 9---------------------9999999999999-----
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 34946 7 + 79436 G--------------------CGGT--------GA-----
+q oryCun1.scaffold_197619 9--------------------9999--------96-----
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig23414 4862 6 + 7547 C---------------------GGC--------TT-----
+i calJac1.Contig23414 C 0 I 26
+s rheMac2.chr4 108434806 6 + 167655696 C---------------------GGC--------GA-----
+q rheMac2.chr4 9---------------------999--------99-----
+i rheMac2.chr4 C 0 I 26
+s ponAbe2.chr6 16332300 6 - 174210431 C---------------------GGC--------GA-----
+i ponAbe2.chr6 C 0 I 26
+s hg18.chr6 16027194 6 - 170899992 C---------------------GGC--------GA-----
+i hg18.chr6 C 0 I 26
+s tupBel1.scaffold_114895.1-498454 326791 6 - 498454 A---------------------GGC--------GA-----
+q tupBel1.scaffold_114895.1-498454 9---------------------999--------99-----
+i tupBel1.scaffold_114895.1-498454 C 0 I 26
+s equCab1.chr31 12997014 6 + 24938454 A---------------------GGC--------GA-----
+q equCab1.chr31 9---------------------999--------99-----
+i equCab1.chr31 C 0 I 28
+s bosTau3.chr9 13653955 6 - 95030419 C---------------------CGC--------GA-----
+q bosTau3.chr9 9---------------------999--------99-----
+i bosTau3.chr9 C 0 I 26
+s loxAfr1.scaffold_7828 82071 32 - 87447 CGTCGGGTCGCTTTGAAAACGCAGC--------GTGTTGA
+q loxAfr1.scaffold_7828 9999999999999899999999999--------9999999
+i loxAfr1.scaffold_7828 C 0 C 0
+s echTel1.scaffold_178371 885 16 + 3889 ----------------AAGCTCGGC--------GAGGGGA
+q echTel1.scaffold_178371 ----------------999999999--------9999999
+i echTel1.scaffold_178371 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 9933 21 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e otoGar1.scaffold_334.1-359464 297570 537 - 359464 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=1105228.000000
+s mm9.chr10 3135005 394 + 129993255 CAAAGCAAACTTCTACTGAGCGG-CTTGTGCGTCTCTTTCTGGTGCGCCTGCTCCGAT----CGGTTTCTTTCGGTGGGGG---------TGCGCGTTGACTG--CAGCC--GACTGGACACCTATATTT-AAGTCAGGGAGC--TATGGGATGGCCTTT--------CC-GTGGA----------AGATTGGCTGGGAATGTGGGGCTTGGGATTTGGC-------------GCCA--------G-GG----CA-----------CTCTCTCTGCCA----G-------TTCGGGTAC----GGTGGAC--------------TT-----GCTGCCTGTAGCCAAGCGCAGAGGCACAAGGCGTCTTTGTGTGGGTGACTGCCCCTGGCCCTGGATCTAGT------------AAA--GG------CTGC [...]
+s rn4.chr1 229952691 383 - 267910886 CAAAGCAAACTTCTGCGGAGCGG-CTTATGCGCCCCTTTCTGATGCGCCTGCTCCGAT----CGTTTTCTTTTCGTGGGGG---------TGCGCGTTGTGTG--CAGTC--GACGGGACACCCATATTT-AAGCCAGGGAGTTATATAGGATG-------------------GGA----------AGATCGCCTGGGAATGTGGGACTAGGGATTTGGC-------------GCCA--------G-GG----TA-----------CTCACTGCTCT-----G-------TTCCGGTAC----GGTGCCC---G-------AGACT-----TCTGCCTGTCGTTAAACGCAGAGGCACAAGGCGTCTTTGTGTGGGTGACTGC------CCCTGGATCTAGT------------AAA--GG------TTGC [...]
+q rn4.chr1 99999999999999999999999-9999999999999999999999999999999999----9999999999999999999---------9999999999999--99999--999999999999999999-99999999999999999999999-------------------999----------9999999999999999999999999999999999-------------9999--------9-99----99-----------99999999999-----9-------999999999----9999999---9-------99999-----9999999999999999999999999999999999999999999999999999------9999999999999------------999--99------9999 [...]
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126318 396 - 133272 CAATGCAAACTTCTGCGA---------GTGTGCCCCTCTGTCCTGTGCCTGCTCCGAG----TTGTTCCTTCCT---GGGG---------TGTGGTTTGTGAC--AAGCT--CAGGGAAGCCCTATCTTT-AAGCCAGGGAGT----GAGGGTGTCCCTT--------TT-GTGGA-----GTTTGAGAGCTggggggggggCGGTGTTCGGGCCTCAGT-------------TTCT--------G-GG----GATAGGGGATGCCCTCCCCGCGCT-----T-------TCTCGGTGC----GGTACCCCGCG-------ACCTG-----GCTGCCAGTTCGCTAGAGCAGAGGCACAAGAAGCCTTTGTGTGGGTGACTCC------CGCTGGACCTCGT------------AAA-----------TGC [...]
+q cavPor2.scaffold_286578 999999999999999999---------9999999999999999999999999999999----999999999999---9999---------9989999999999--99999--999999999999999999-998996999999----9999989999999--------99-99999-----999999999999999999999999789996898999733-------------9999--------9-99----967699998476999999979789-----9-------999999778----99956769659-------99999-----8899977999988999999999994799899998999999999978987999------9999999999999------------999-----------999 [...]
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 34953 403 + 79436 CAATGCAAACTTCTGCCGAGTGG-CCTGCGCTCCCCTGTCT-CTGCGCCTTGTCCAGGCTGACGGATCCTTTTG--GGGGG---------TGCAGGTTGCGAGGCGAGCC--GAGGGGAGCCCCATCGTT-CAGTCAGGG-GC----GGGGCTGGCCTTT--------CC-GTGCA-----GGGTGAG---GACTGGGGATGTCACGCTCGGGGCTCGG--------------GCGG--------G-TG----GA-----------CGCCCTCCGCTGCTCCG-------CCCGGGTGCGGTGGGTGCCCCGGG-------ACCTG-----GCTGCACGTCCCC-ATCGAAGTGGCACAAGGCGCCTTTGTGTGGGCGACTCG------CGCTGGCCCTCGT------------AAA--CG------CCGC [...]
+q oryCun1.scaffold_197619 63799999999999999999999-99999988562699999-99999999999967999999999999999999--99999---------99999999999999999999--999999999999999999-999999999-99----9999999999999--------99-99999-----9999999---9999999999999999999999999999--------------9999--------9-99----99-----------99999999999999999-------999999999999999999999999-------99999-----9999999999999-99999999999999999999999999999999999999------9999999999999------------999--99------9999 [...]
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16027226 396 - 170899992 CAATGCAAACTTCTGCCGAGTGG-CCTGTGCGCTCCTATCTCTCGTACCTGCTCCGAG----CTCTTCCTTTCC---AGGG---------TGCGGATTGTGGC--AAGCC--GAGGGGAGCCCTATCTTT-AAACCAGGGAGT----AGGGGTGGCCTTT--------CT-GTGGC-----GGTTGAG---GGCTGGGGATGCCGATCTCGGGACTCGGCACTCGG-------GCCG--------G-GG----GG-------CGCTCTCCCTGCCTG-----G-------CCCCGGTGC----GGTGCCCGGCG-------ACCCG-----GGGGCCCG------AGTGCAGAGGCACAAGGTGCCTTTGTGTGGGTGACTCC------CGCGGGACCTCGT------------CCA--TG------CCGC [...]
+i hg18.chr6 I 26 C 0
+s ponAbe2.chr6 16332332 365 - 174210431 CAGTGCAAACTTCTGCCGAGTGG-CCTGTGCGCTCCTATCTCTTGTACCTGCCCCGAG----CTCTTCCTTTCC---GGGG---------TGCGGATTGTGGC--AAGCC--GAGGGGAGCCCTATCTTT-AAATCAGGGAGT----AGGGGTGGCCTTT--------TT-GTGGC-----GGTTGAG---GGCTGGGGATGCCGATCTCGGGACTCGGCAGTCGG-------GCCG--------G-GG----GG-------CGCTCTC-----------------------------------------------------CCCG-----GGGTCCCG------AGTGCAGAGGCACAAGGCGCCTTTGTGTGGGTGACTCC------CGCCGGACCTCGT------------CCA--TG------CCGC [...]
+i ponAbe2.chr6 I 26 C 0
+s rheMac2.chr4 108434838 395 + 167655696 CAATGCAAACTTCTGCCGAGTGG-CCTGTGCGCCGGTATCTCTCATACCTGCTCCGAG----CTCTTCCTTTCC---GGGG---------TGCGGATTGTGGC--AAACC--GAGGGGAGCCCCATCCTT-AAACCAGGGAGT----AGGGGTGGCCTTT--------CT-GTGGA-----GGTTGAG---GGCTGGTGATGTGGATCTCCGGACTCGGCACTCGG-------GCCG--------G-GG----GG-------CGCTCTCCCTGCCTG-----G-------CCCGGCTGC----GGTGCCCGGCG-------ACTCG-----GGGACCCG------AGCGCAGAGGCACAAGGCGCCTTTGTGTGGGTGACTCC------CGCCGGACCTCGT------------CCA--TG------CCGC [...]
+q rheMac2.chr4 99999999999999999999999-9999999999999999999999999999999999----999999999999---9999---------9999999999999--99999--999999999999999999-999999999999----9999999999999--------99-99999-----9999999---99999999999999999999999999999999999-------9999--------9-99----99-------999999999999999-----9-------999999999----99999999999-------99999-----99999999------99999999999999999999999999999999999999------9999999999999------------999--99------9999 [...]
+i rheMac2.chr4 I 26 C 0
+s calJac1.Contig23414 4894 396 + 7547 CAATGCAAACTTCTGCCGAGTGG-CCTGTGCGCCCCGATTTCGCGTACCTGCTCCGAG----CTGTTCCTTTCG---GGGG---------TGCGGATTGTGGC--AAGCC--CGGGGGAGCCCCATCTTT-AAACCAGGAAGT----AGGGGTGGCCTTT--------CT-GTGGA-----GGTTGAG---GGCTGGGGATGCCGATCTCGGGATTCAGCACTCGG-------GGCGCCGATCTTG-GGATTCGG-------CGCGCTCTCTGCCCG-----G-------CCCGGGTGC----GGTGCCCGGGG-------ACCCT-----GGGGCCCG------AGCGCAGAGGCACAAGGCGCCTTTGTGTGGGTGACTCC------CGCCGGACGTCGT------------ACA--TG------CCGC [...]
+i calJac1.Contig23414 I 26 C 0
+s otoGar1.scaffold_334.1-359464 298107 385 - 359464 CAATGCAAACTT-TGTCGGGTGGCCCTGTGCGCCCCCATCTTTTG--CCTGCTCCGAG----CTTTTCCTATCG---AGGG---------TGCGGGTGTGCAA--AGACT--TAAGGGAGCCCGATCTTT-AACC---GGGGT----AAGGGTGACCTTT--------TCAGTGAA-----GGGTGAG---GGCTGGGGATGCGGATCTCGGGACCC------TGG-------GCGG--------A-GG----GG-------CGCCCTCCCTGCACT-----G-------CCCGGGTGC----GGTGCCCGGCG-------ACTTG-----GCCACCCC------AGCGCGCCGGCACAAGGCGCCTTTGTGTGGGTGACTCT------CGCCGGACCTCGT------------AAA--TG------CCTC [...]
+q otoGar1.scaffold_334.1-359464 243232421221-12345226364414262421322113326532--22334546542----246643581832---1373---------5425322322112--74133--344553455243686693-4234---35533----2237468144998--------56457544-----1521555---63745336886457246635542238------554-------3446--------1-56----53-------222378355445165-----4-------454663434----78533775655-------23477-----46897936------55372626766699777868999669896767866899------9498796577467------------898--84------8996 [...]
+i otoGar1.scaffold_334.1-359464 I 537 C 0
+s tupBel1.scaffold_114895.1-498454 326823 360 - 498454 TAGTGCAAACTT-TGTCCAGTGG-CCTGTGCCCC-------------CCTGCTCCGAG----CCGTTCCTTCCC---GGGG--------CTGCAGGTTGTCGC--AAGCT--GAGGGGAGCCCCATCTTT-AAACCAGCAAGT----AGGAGTGACTTTT--------CT-GTGGA-----GGGTAAG---GGCTCGGGGC--------------------------------------------G-GG----GG-------CACCCTCCCTCCTTT-----G-------CCCAGACGA----GGTGCCCAGCG-------AACTGGCTGCGGGTCCGG------AGCACAGAGGCACAAGGGGCCTTTGTGTGGGTGAGTCC------CGCCGGACCTCGT------------AAA--TG------CCGC [...]
+q tupBel1.scaffold_114895.1-498454 999999999999-9999999999-9999999999-------------99999999999----999999999999---9999--------99999999999999--99999--999999999999999999-999999999999----9999999999999--------99-99999-----9999999---9999999999--------------------------------------------9-99----99-------999999999999999-----9-------999999999----99999999999-------999999999999999999------99999999999999999999999999999999999999------9999999999999------------999--99------9999 [...]
+i tupBel1.scaffold_114895.1-498454 I 26 C 0
+s eriEur1.scaffold_224153 9954 397 - 12178 CCATGCAAACTTTCTCGGGG-TG-TC-ATT--------GCTCTCCTACTTa-----------------cttttg---gggggagggaggatgcGAGTTGTGAC--AAGCCATGGGGGGAACCTCTTATTC-----CGTCGGCC----GGCCATAGCGTCTAAGAGGGCGA-agagg-----agagggg---ggggaggagagtcAACCTTAGCAGGGGAGGAGGAGTG-----GGGT--------GAGG----GG-------TGCGCTGACTTCTGT-----GCGCCAACCCGGGTTAC----GGTGCGCGGCG-------CCCGG-----GC--------------------GGCACAAGGCGCCTTTGTGTGGGTGCTTCC------CCTCGGACCTCAGACCTCAGACCTCAGA--CGGGCCGCCCTC [...]
+q eriEur1.scaffold_224153 99999999999999999999-99-99-999--------9999999999999-----------------999999---99999999999999999999542399--9999999999999999999999999-----99988367----24301322216979999998999-99919-----9215999---9106299982459919999156699999699999669-----9976--------9999----97-------533244466999999-----99689699999999998----99999999999-------99999-----99--------------------999999999999999999999999999999------9999999999999999999999999999--999999999999 [...]
+i eriEur1.scaffold_224153 I 21 I 202
+s equCab1.chr31 12997048 392 + 24938454 CAATGCAAACTTCTTCGGAGTCG-CCTGTTCACCCCTAGCTCTTGTGCCTG-----------------TTTTCC---GGGG---------TGCGGGTTGTGGC--GAGCC--GAGGGGAGCCCCATGTTT-AACCCGGGGATG----AGGGATGGCCTCT-------CTT-AGGGA-----CCGTGAG---GGTTGGGGGTGTCGATCTCAGGACTGGCTGGGGGGCTCTCCGGGGC--------G-GG----GG-------CGCCCTCCCTGCCGT-----G-------CCTGGGTGC----GGTGCCTGGCG-------CCCCG-----GCTGCCCGTCCCGGAGCGCAGAGGCACAAGGCGCCTTTGTGT-GGTGACTCC------CCTCGGACCTCGT------------AAA--TG------CCGC [...]
+q equCab1.chr31 99979999999999999999996-999999999999999999999999999-----------------999997---9987---------9997889999999--99999--999999999999999999-999999999999----9999989869999-------999-99999-----9999999---9999999999999999999999999979989999999999999989--------9-99----97-------789999999999999-----9-------999997949----99969999899-------89999-----999999999999999999999995749999999999999999-999999999------9999996999999------------999--99------9989 [...]
+i equCab1.chr31 I 28 C 0
+s bosTau3.chr9 13653987 360 - 95030419 GCCTGCAAACTTCTCTG----CG-CCTGTC--------ACTCTGGTGCCCG-----------------CTTTCG---GGGG---------TGAGGGTTGTGGC--CAGCC--GAGGGGAGCCTCATCTTTAAACCCGGGGGGT----ACGGGTGGCCTCT--------GA-ATGGA-----GGATGAG---GGTTGGGGGCGCGGATATC-----------------------GGGC--------C-GG----GG-------CGCCCGCCCTGCCCT-----A-------CCCGGGTGC----GGTGCCCGGAG-------GCCCG-----GGTACCCACCCGGGAGCGCAGAAGCACAAGGCGCCTTTGTGTGGGTGACTCC------CCTCGGACCTCGTA----------AAAA--CG------CCGC [...]
+q bosTau3.chr9 99999999999999999----99-999999--------9999999999999-----------------999999---9999---------9999999999999--99999--9999999999999999999999999999999----9999999999999--------99-99999-----9999999---9999999999999999999-----------------------9999--------9-99----99-------999999999999999-----9-------999999999----99999999999-------99999-----9999999999999999999999999999999999999999999999999999------99999999999999----------9999--99------9999 [...]
+i bosTau3.chr9 I 26 C 0
+s loxAfr1.scaffold_7828 82103 363 - 87447 CGGTACGAACTTCTTCCGCGTGG-CCTGTGCACCCCCCTCTTTTG--CCAGCTTCGAG----CTGTTCATGTT----GGGG---------TACAGGTTGTGGC--ACGGC--GA-GGGAGCCCCACCTTG-AAAGCGAAGAGA----AGGGGTGGTCTTT--------TT-CTGGA-----GGATTAG---GGTTGGGGATGCC-----------------------------GGCG--------G-GT----GG-------CGCCCTCCTTGCCCT-----G-------CCCGGGTGC----AGTGCCCGGCG-------ACCCA-----TCGTCG--------AGCGCAGAGGCACAAGGCGCCTTTGTGTGGGTGCCTCC------TGCAGACG-TCGT------------AAA--TG------CCGG [...]
+q loxAfr1.scaffold_7828 99999999999999999999999-999999999999999999999--99999999999----99999999999----9999---------9999999999999--99999--99-999999999999989-999999999999----9999999999999--------99-98999-----9999999---9999999999999-----------------------------9999--------9-99----99-------999999999999999-----9-------999999999----99999989999-------99999-----999999--------99999999999999999999999999999999999999------99999999-9999------------999--99------9999 [...]
+i loxAfr1.scaffold_7828 C 0 C 0
+s echTel1.scaffold_178371 901 375 + 3889 CCGTGCACACTTCTTCC-CGTGG-CCTGTGAACCCCCA-CTCTCA--CCAGCCGCTC-----CTGTTGCCTAT----GGGG---------TACAGATTGGGGC--AAGGC--GA-GGGAGTCT--CCTTG-AAATCCGGGAGC----GGGGGTGGCCTTT--------CT-CAGGAGAGCGGGGGCGG---GGGTGGGGATGCT-----------------------------GGCC--------A-AG----GC-------GCCCCCCCTTGCCTT-----G-------TCCGGGTGC----GGTGCCCGGCGCGCCGTCCCCCA-----GCTCCT--------GGCCCAGAGGCACAAGGCGCCTTTGTGCGGGTGCCTCC-----GCGCCGGCTCTCGT------------AAATGTG------CCGG [...]
+q echTel1.scaffold_178371 99999998999999999-99999-99999999989779-999979--9999999999-----99999998999----9999---------9999999999999--99999--99-99999999--98999-999986699999----9999999988999--------99-97699998999998989---9999999997999-----------------------------9969--------7-99----99-------688898798995769-----9-------899999997----69497996947512899999876-----797796--------99378548797685999877659953674999766563-----15766497877666------------7997834------3367 [...]
+i echTel1.scaffold_178371 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=161084.000000
+s mm9.chr10 3135399 37 + 129993255 GC--------------------------GAAC--GGGCTTTCGCGCCTGCGAGGACCCTAGCGCC
+s rn4.chr1 229953074 37 - 267910886 GC--------------------------GAAC--TGGCTTTCGCGCCTGTGAGAACCTTAGCGCC
+q rn4.chr1 99--------------------------9999--9999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126714 55 - 133272 GCT-CCACGC--CACGC-----GTGCCGGCACTGTGGCATCTGTGCCGGCGAGAAACCTAGAG--
+q cavPor2.scaffold_286578 779-999999--99999-----97987999799999999999999999999999999999899--
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 35356 59 + 79436 GCG-CAGCGCAGCCCGG-----GCGCCAGCCCTGTGGCACTTGCGCGGGCGAGAAGTGCACCGCC
+q oryCun1.scaffold_197619 999-9999999999999-----9999999999999999999999999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16027622 60 - 170899992 GCGAGAGGGCCGCGCAA-----AAGCCAACACCATAGCATTTGCGCCAGGGAGAAACCTCGAGCC
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16332697 60 - 174210431 GCGAGAGGGCCGCGCAA-----AAGCCAACACCGTGGCATTTGCGCCAGAGAGAAACCTCGAGCC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435233 60 + 167655696 GCGAGAGGGCGGCGCAA-----GAGCCAACACCGTGGCATTTGCGCCGGAGAGAAACCTCCAGCC
+q rheMac2.chr4 99999999999999999-----9999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5290 60 + 7547 GCGAGAGGGCCGCGCAA-----GAGCCAGCCCCGTGTCATTTTCGCCCGAGAGAAACCTCGAGCC
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 298492 65 - 359464 GCAACAGGCCAGCACAACAGCCGAGCCAACACCGGGGCGTTTTTGCCAGCAAGAAGCGTCGGGCC
+q otoGar1.scaffold_334.1-359464 69999996599997679997699999999998999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327183 60 - 498454 GCGACAGGACGGCGCAA-----GAGCCAACACTAGGGCATTCGCGCCAGTTAAGAATCTATAGTC
+q tupBel1.scaffold_114895.1-498454 54998999799999999-----9957999999999978698757999999677999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13654347 60 - 95030419 GAGACAGGGCAGCACCG-----GAGCCAACACTGAGGCGTTCGCGCCGGCGAGAAACCTGGAGCC
+q bosTau3.chr9 99999999999999999-----9999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 12997440 60 + 24938454 GCGAGAGAGCTGCACGA-----GTGCCAATACTGAGGCATTCGCGCCGGCGAGAAACCTTGAGTC
+q equCab1.chr31 99999999999999999-----9999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_7828 82466 60 - 87447 GCGACAGGGTAGCACAA-----GAGCCAACGTTGTGGCGCTTGCGCGGGTGAGAAACCTTGAGCC
+q loxAfr1.scaffold_7828 99999999999999999-----9999999999999999999999999999999999999999999
+i loxAfr1.scaffold_7828 C 0 C 0
+s echTel1.scaffold_178371 1276 60 + 3889 GCGAGAAGGCGGCACGG-----GCGCCAGCGTTGTGGCGCTGGCGCGGGTGGGAAACCTCGAGCC
+q echTel1.scaffold_178371 83794974555755769-----7345333665533967556393284965999797646615435
+i echTel1.scaffold_178371 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 10351 202 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+e panTro2.chr6 16549959 62 - 173908612 I
+
+a score=78419.000000
+s mm9.chr10 3135436 38 + 129993255 AGGACTCCCGCAGAGGCAGGGACTCAG---CTC-TGGAGGCG
+s rn4.chr1 229953111 38 - 267910886 AGGACTCCCGCAGAGGCAGGGACTCAG---CTC-TGAAGGTG
+q rn4.chr1 999999999999999999999999999---999-99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126769 25 - 133272 -----------AGAGCCAGGAGTCCGG-----G-GGTAGTCG
+q cavPor2.scaffold_286578 -----------9998899899988989-----8-99899667
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 35415 40 + 79436 AGACTCCCCG-GGAGTCAGTGGCTTTTGCTCGG-GGAAGGTT
+q oryCun1.scaffold_197619 9999999999-9999999999999999999999-99998999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16027682 40 - 170899992 AGGACTCCCCGGGAGGCAGTGACTTTT-GCTCC-GGGAGGCG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16550021 40 - 173908612 AGGACTCCCCGGGAGGCAGTGACTTTT-GCTCG-GGGAGGCG
+q panTro2.chr6 955599999999999930027999999-99980-89978999
+i panTro2.chr6 I 62 C 0
+s ponAbe2.chr6 16332757 40 - 174210431 AGGAGTTCCCGGGAGGCAGTGACTTTT-GCTCC-GGGAGGCG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435293 40 + 167655696 AGGACTCCCGGGAAGGCAGTGACTTTT-GCTGC-GGGAGGCG
+q rheMac2.chr4 999999999999999999999999999-99999-99999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5350 40 + 7547 AGGACTCCCCGGGAGGCTTTGACTCTT-GCTCC-GGGAGGCG
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 298557 17 - 359464 AGGACTCCT-------------------------GGGAGGCG
+q otoGar1.scaffold_334.1-359464 999999999-------------------------59999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327243 38 - 498454 CGGACTGCC-AGGAGTCGGTGACTTGT-GCTCC--CCAGGCA
+q tupBel1.scaffold_114895.1-498454 999999999-99999999999989999-99999--9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13654407 40 - 95030419 -AGACTCCCCGGGACTCGGTGACTTTT-GCTCCGGGAAGGCG
+q bosTau3.chr9 -99999999999999999999999999-99999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 12997500 40 + 24938454 -AGATTCCCCGGGACTCGGTGACTTTT-GCTCCGGGAAGGCG
+q equCab1.chr31 -99999999999999999999999999-99999999999999
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_7828 82526 41 - 87447 AGGACTCCTCCGGAGCCGGCCACTTTT-GCTTTAGGAAAGTG
+q loxAfr1.scaffold_7828 999999999999999999999999999-99999999999999
+i loxAfr1.scaffold_7828 C 0 C 0
+s echTel1.scaffold_178371 1336 41 + 3889 GGACGCCCCGGGGAGCCGGTAACTTCA-GCTCCGGAGAAGTG
+q echTel1.scaffold_178371 513355652279553346346337543-33635533189134
+i echTel1.scaffold_178371 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e eriEur1.scaffold_224153 10351 202 - 12178 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+
+a score=173098.000000
+s mm9.chr10 3135474 34 + 129993255 CCAGGACCCC-CAA-GGGCGCAGCGTTTTGAGGC--CA
+s rn4.chr1 229953149 33 - 267910886 CCAGGACCCC-CAA-GGGCGCAGCA-TTTGAGGC--CA
+q rn4.chr1 9999999999-999-9999999999-99999999--99
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126794 37 - 133272 CGGGAACCCC-CGGTGGGGGCAGCTTTTTCGGGCCACA
+q cavPor2.scaffold_286578 9977989999-988799999799988999999769999
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 35455 36 + 79436 CCAGCACGCT-CGG-CGGCGCCGCCTTTTCAGGCCACA
+q oryCun1.scaffold_197619 9999999999-999-99999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16027722 36 - 170899992 CCAGTATCCC-CGG-TGGCGCTGCATTTTCAGGCCACA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16550061 36 - 173908612 CCAGTATCCC-CGG-TGGCGCTGCATTTTCAGGCCACA
+q panTro2.chr6 9959999999-979-99999999999999975999885
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16332797 36 - 174210431 CCAGTATCCC-CGG-TGGCGCTGCATTTTCAGGCCGCA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435333 36 + 167655696 CCAGTATCCC-CGG-TGGCGCTGCATTTTCAGGCCACA
+q rheMac2.chr4 9999999999-999-99999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5390 36 + 7547 CCAGTATCCC-CGG-TGGCGCTACATTTTCAGGCCACA
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 298574 36 - 359464 CCAGTACCCC-CGG-TGGCGCTGGGTCTTCAGGCCGCA
+q otoGar1.scaffold_334.1-359464 9999867989-999-99999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327281 36 - 498454 CCAGTAGCCC-CGA-CGGCACTGCCTTTTCAGGCCACA
+q tupBel1.scaffold_114895.1-498454 9999999999-999-99799999979999989999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_224153 10553 35 - 12178 CCAGAGCCC--TGG-GCATGCCTCAGTATCAGGCCTCA
+q eriEur1.scaffold_224153 999999999--999-99999999999999999999999
+i eriEur1.scaffold_224153 I 202 C 0
+s equCab1.chr31 12997540 36 + 24938454 CCAGTACCCC-CGG-TGGCGCTGCATTTTTAGGCCACA
+q equCab1.chr31 9999999999-999-79499999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13654447 37 - 95030419 CCAGTACCCCGCGC-TGGCGCCGCAGTCTTAGGCCACA
+q bosTau3.chr9 99999999999999-99999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_7828 82567 35 - 87447 CCAGTACCCC-TGGCGGGAGCGGCATTTTTAGACCG--
+q loxAfr1.scaffold_7828 9999999999-9999999999999999999999999--
+i loxAfr1.scaffold_7828 C 0 I 2
+s echTel1.scaffold_178371 1377 35 + 3889 CAGGGTCCCT-GGGCAGGAGCGGCCGTCTTAGGCCA--
+q echTel1.scaffold_178371 6259644613-1862513524563332435724431--
+i echTel1.scaffold_178371 C 0 N 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+
+a score=544839.000000
+s mm9.chr10 3135508 310 + 129993255 GTTAAGCACTGAGAGGGAGCCG----AGTGTCTGGACTACA--GTC-TGGTTCTGTACAGTACTC-GGGAAGAGGAAACTCAGTGGGTGCTG-GACGGTGT----------------------------AGCA-G-------GAGTGGAA----GGGTCCC-----TG-------------TTACTTTAT-CTTGTCTCTCCCGTGATTGCTAGGGATAGTTG-CTAGAG-TTACTCAGCTCTCTTTGACC--TCTTTCAATAGTAC---AAAGTTTACCGAA--ATCAACCAGTGGAATCTCAGGGGTC-----CCAC------CTCCTCACTT---C-----------AACATCT----GTTTCAAGTTATCCACCC----------------------C------TGC-------------TCCCAAA [...]
+s rn4.chr1 229953182 317 - 267910886 GTTAAGCACCGAGAGGGAGCTG----AGGGTCTTGCATACA--GTC-CGGTTCTGTACAGTTCTT-GGGAAGAGGAAAC-CAGTGGGTGCTG-GGCGGTGC----------------------------AGCA-G-------GAGTGGAA----GTGTCCC-----TG-------------TTACTTTAT-CTTGTCTCT--CATGATTGCTAGGGACAGTTG-CCAGAG-GTACTCAACTCTCTTTGTCC--TCACCC---------------TTTCGTGAA--ATCAACCACTGGAGTCTCAGGGGTC-----CCAC------TTCCTCACTT---C-----------AACATCT----GTTTCAAGTTATCCAGACCCCCCCCCCCCACCCCGCGGTTC------CCC-------------CCCCACC [...]
+q rn4.chr1 9999999999999999999999----999999999999999--999-999999999999999999-9999999999999-999999999999-99999999----------------------------9999-9-------99999999----9999999-----99-------------999999999-999999999--999999999999999999999-999999-99999999999999999999--999999---------------999999999--9999999999999999999999999-----9999------9999999999---9-----------9999999----99999999999999999999999999999999999999999------999-------------9999999 [...]
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 126831 318 - 133272 TTTAAACACTGGGAAGGAGAAA----TGCGTTTTGAAC-CA--GTCTTGAGTTTGTACAGTACTT-GGGAGGAGGAAAGGCCGTGGGTGATG-GGCGGTGG----------------------------AGCCTG-------GAGAGGAGTTTTGTGCTCC-----TAGCTGT---CTTGCTTGCTTTTTAATTGTCTCC--CAAGATTTCCAGGGAAGGT--------G-CTACT-GGCTACTTTTGTAC--TCTTCCAGGGGATC---AAAATCCACCAAG--AACAACGAATGTATTTTCAGGGGTT-----CCCC------CTCCCCACTT---G-----------AGCATCT----GTTTCAAGTTGct---------------------------a------ttt-------------tttcccc [...]
+q cavPor2.scaffold_286578 9999989999999999997998----666699997889-97--9899999899966997979999-99899799799995999999999999-97898799----------------------------999999-------9999999889998787999-----9999699---999989997999999999999999--9999999999899999999--------9-99999-99999999999999--99999999999999---9999999999999--9999999999999999999999999-----9999------9999999999---9-----------9999999----9999999999999---------------------------9------999-------------9999999 [...]
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 35491 298 + 79436 TTTGGGCACTGGGACGGAGAAAGCTCAGTGTTGTGAGC-CA------TTGTCTTG---AGTATTT-GGGACGGGGAG---CAGCTGAGGGTG-GGCGGTGA----------------------------TGGGCG-------AACCCCAG----GCGCGGC-----CG-------------CTGCTCTGC-TCGGTGCGC--CCGGCGCTCCGGGGGGA----------G-GCATTGAAGCCTGTTCGATC--CCCTTG--GAGAAC---AAAGTACACCAAG--GGCGGCTGGCGCATTTTCACGGGTG-----CCCC------AGTCCCCTGG---G-----------CGCCTCTC--GGCTTCAAGTTACTG--------------------------T------TTT-------------TCCCCCC [...]
+q oryCun1.scaffold_197619 99999999999999999999999999999999999999-99------99999999---9999999-99999999999---999999999999-99999999----------------------------999999-------99999999----9999999-----99-------------999999999-999999999--99999999999999999----------9-99999999999999999999--999999--999999---9999999999999--9999999999999999999999999-----9999------9999999999---9-----------99999999--999999999999999--------------------------9------999-------------9999999 [...]
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16027758 345 - 170899992 TGTAAGCACTGGGAAGGAGAAATATAATTGTTTGGAAC-CACTGTC-TTGATTCATACAATATTT-GGGATGAGGAAGG-CAGTGGGGCTGG-GGCGGTGG-------GGGGGTGGTGGGGGGA--ATGAGCA-G-------AGGTAGAAGCTTGTCCTCC-----TAGCTGG---CTCGCTTACTTTTC-AATGTCTCC--TACGATTTCGAGGGAAAGGTA-CTAGAGTTTACTCAACCCTTT-TCTGT--ACTTTCAAGAGAAC---AAAGTCCACCAAG--AACAATC--TGTATTTTCATGGTTT-----CCCC------CCACCCCCAA---C-----------GACATCTC--TGTTTCAAGTTACT---------------------------A------TTT-------------GTTT--- [...]
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16550097 352 - 173908612 TGTAAGCACTGGGAAGGAGAAATATAATTGTTTGGAAC-CACTGTC-TTGATTCATACAATATTT-GGGATGAGGAAGG-CAGTGGGGCTGG-GGCGGTGGGAGGGGCGGGGGTGGTGGGGGGA--ATGAGCA-G-------AGGTAGAAGCTTGTCCTCC-----TAGCTGG---CTCGCTTACTTTTC-AGTGTCTCC--TACGATTTCGAGGGAAAGGTA-CTAGAGTTTACTCAACCCTTT-TCTGT--ACTTTCAAGAGAAC---AAAGTCCACCGAG--AACAATC--TGTATTTTCATGGTTT-----CCCC------CCACCCCCAA---C-----------GACATCTC--TGTTTCAAGTTACT---------------------------A------TTT-------------GTTT--- [...]
+q panTro2.chr6 99969994124489999999999998999999999999-9899999-999999999679999999-9999599999999-999999999999-9999999999999988999999999999999--9999999-9-------9999999999999999999-----9999999---99999999999999-999999999--999999999999999999999-999999999999999999999-99999--99999999999999---9999999999999--9999999--9999999999999999-----9999------9999999999---9-----------99999999--99999999999999---------------------------9------999-------------9999--- [...]
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16332833 340 - 174210431 TGTAAGCACTGGGAAGAAGAAATCTAATTGTTTGGAAC-CACTGTG-TTGATTCATACAATATTT-GGGATGAGGAAGG-CAGTGGGGCTGG-GGCGGTGG-------G-----GGTGGGGGGA--ATGAGCA-G-------AGGTAGAAGCTTGTCCTCC-----TAGCTGG---CTCGCTTACTTTTC-AGTGTCTCC--CACGATTTCGAGGGAAAGGTA-CTAGAGTTTACTCAACTCTTT-TCTGT--ACTCTCAAGAGAAC---AAAGTCCACCAAG--AACAATC--TGTATTTTCATGGTTT-----CCCC------CCACCCCCAA---C-----------GGCATCTC--TGTTTTAAGTTACT---------------------------A------TTT-------------GTTT--- [...]
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435369 331 + 167655696 AGGAAGCCCTGGGAAGGAGAAATCTAATTGTTTGGAAT-CACTGTC-TTGATTCATACAGTATTT-GGGATGAGGAAGG-CAGTGGGACTGG-GGCGGTGG------------------GGGGA--ATGAGCA-G-------AGGTAGAAGCTTGTCCTCC-----TAGCTGG---CTCGCTTACTTTTC-AGTGTCTCC--CACGATTTCGAGGGAAAGGTA-CTAGAGTTTACTCAACCTTTT-TCTGT--ACTTGCAAGAGAAC---AAAGTCCACCAAG--AACAATC--TGTATTTTCATGGTTT-----TCCC------CCACCCCCAA-----------------CATCTC--TGTTTCGAGGTAGT---------------------------A------TTT-------------GTTT--- [...]
+q rheMac2.chr4 99999999999999999999999999999999999999-9999999-999999999999999999-9999999999999-999999999999-99999999------------------99999--9999999-9-------9999999999999999999-----9999999---99999999999999-999999999--999999999999999999999-999999999999999999999-99999--99999999999999---9999999999999--9999999--9999999999999999-----9999------9999999999-----------------999999--99999999999999---------------------------9------999-------------9999--- [...]
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5426 343 + 7547 TGTAAGCACTGGGAAGGAGAAATCTAATTTTTTGGAAC-CACTGAC-TTGATTTACACAATATTT-GGGATGAG---GT-CAGTGGGGCTGGTGGTGGTGG------------------GAGGA--ATGGGCA-GTGGAGCAGGGGAGAAGCTTGTTCTCC-----TAGCTGG---CTTGCTTACTTTTC-AGTGTCTCC--CAAGATTTCGAGGGAAAGGTA-CTAGAGCCTACTCAACCTTTT-TCTGTACACTTTCAAGAGAAC---AAAGTCCACTGAG--AACAGTCAGTATATTTTCATGGTTT-----CCCC------CCACCCCCAA---T-----------AACATCTC--TGTTTCAAGTTACG---------------------------A------TTT-------------GTTT--- [...]
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 298610 316 - 359464 TTTAAGCGCTGGGAAGGAGAAATCTA----TTTGGAAC-AACTGTT-TTGATTCATACAGTATGT-GGGATGAAGAGAG-CAGCCAGGTGGG---------------------------GAGAA--ATGGGCG-GTTGAGCGGGGTAGC--TTTGTC-----------------------CTGGCTTTTT-ACTGTTTCC--TAAGAGTTAGGGG----------------CTACCCCGTCCTCTATATAG--TCTTCCAAGATGACTCTAGAATCTACT-AG--AACAACCAATGGATTTTCCTGGGTT-----CCCCTAAACTCCACCCCCAC---C---CCCCCCCGAATATCTC--TGTTTCAAGTTACT---------------------------A------TTC-------------TTTT--- [...]
+q otoGar1.scaffold_334.1-359464 99999999999999999999999999----99999999-9999999-999999999999999999-9999999999999-998999999999---------------------------99999--9999999-999999999999999--999999-----------------------9999999999-999999999--9999999999999----------------99999999999999999999--999999999999999999999999999-99--9999999999999999999999999-----99999999999999999999---9---9999999997997999--99899888989999---------------------------9------798-------------9999--- [...]
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327317 344 - 498454 CTTAAGCACTGGGA---AGAACTCGCAGGACTTGGAAC-CACCGTC-TGAATTTGTACAGTACTT-GGGAGGAGTAAAG-TGGAGGGATTGG--------G------------------TGGCA--ATGGGCA-A-------AGGGACAGGGTAGCCAGCCATTGTGTGCCAGCATCTCGCTCAATTTTT-AGTG---CT--CTCAATTTTAAGAG--AGGTG-GTAGAGGCTGCTAGACTCTCTGTGTAC--CCTCCCCATGGCTC---AAAGTCCACCAAG--AATAACCAATGGATTTTCACAAGCT-----TTCC------CTCCACCCAC---CTGTCCCCTTTCAATATCTC--TGTTTCAAGTTACT---------------------------A------TTT----------TTGTTTC--- [...]
+q tupBel1.scaffold_114895.1-498454 99999999999999---999999999999999999999-9999999-999999999999999999-9999999999999-999999999999--------9------------------99999--9999999-9-------999999999999999999999999999999999999999999999999-9999---99--99999999999999--99999-999999999999999999999999999--99999999999999---9999999999999--9999999999999999999999999-----9999------9999999999---99999999999999999999--99999999999999---------------------------9------999----------9999999--- [...]
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_224153 10588 343 - 12178 TTTAATCTCCAGGAAAGAGCCAGTTGACTGTTTTGAAC-CCCTGCC-TTGTGTTCAGCAGCATTT-GGGATGAGGAAAAGCAGTGGA--TGG-AATGGGAc------------------tgga---tagggga-g-------agagagagagagaaacac--------gctGT---CAAGTTTACTTTGG-AGTGCTGCC--CAAGTCTCCCAGGAAAAAGTG-ACAGGGAGACTGCGAACCTGTTTGCAC--TGTTGCAAGAGAGT---GAAACCCACCAAGATAAAAAAC--AGTGCTTTCAAGGGTTCCTCAGCTT------CCTCCCAGCT---A-----------AGT-TCTCAATGTTTCCTGTtact---------------------------gtatacttttt------tttttctttc--- [...]
+q eriEur1.scaffold_224153 99999999999999999989999998989999999999-9989799-899697998699999999-999989989999989998999--999-99999988------------------7899---9989999-9-------999998989899999978--------89999---99889997989889-877998889--999898969989999999998-898799997999799899999899999--99989999999989---9997799799999999999999--9999999999999779999997799------9998999999---9-----------999-99999999999999999999---------------------------99999999999------9999999999--- [...]
+i eriEur1.scaffold_224153 C 0 C 0
+s equCab1.chr31 12997576 329 + 24938454 TTTAAACCCTGGGAAGAAGAAA----TGTGTTTTGAAC-CACTCGC-CTGAGTTATGCTGTATTT-GGGATGAGAGAAAGCAGCGGG--TGT-GGTGGTAA------------------TGGGGG-TCGAGCA-G-------GGGTAGAAGCTTGTCCTCT-----GAGCTGT---CACCCTTAGATTTT-GGTACCTTT--CAAGCTTT-GGAGCAAAAGGGCATAGAGGTTCCTCAAGCCTCTTTGTAC--TGTTCTAAGGGAAC---G-AGTCCATCCAG--AACACAC--AGTGGTTTCATGGGTT-----CCTC------CCTCCCAGCT---C-----------AGCATCTCTCTGTTTCAAGTCACT---------------------------G------TTT--------TTTTCTTTC--- [...]
+q equCab1.chr31 9999999999999999999999----999999999999-9999999-999999999999999999-999999999999999999999--999-99999999------------------999999-9999999-9-------9999999999999999999-----9999999---99999999999999-999999999--99999999-9999999999999999999999999999999999999999--99999999999999---9-99999999999--9999999--9999999999999999-----9999------9999999999---9-----------999999999999999999999999---------------------------9------999--------999999999--- [...]
+i equCab1.chr31 C 0 I 49
+s bosTau3.chr9 13654484 335 - 95030419 TTTAAACCCTGGGAAGAAG-------TCTGCTTGGAAC-CATTATC-CTGAGTTACGCCGTTTTTGGGGACGAGGACAGGCCGTGGG-TTGG-AGAGGCCG------------------CGGGTGCTGGACCA-A-------GGCTGGGGGCTTGGACTCT-----GAGCTGG---CACTCTTACTGTTA-GGTGCCTCC--CACGATTTCGAAGCAAAAGTG-ATAGAGGTTCCTCCAGCCTCTATGAAC--CCTTC-AAGAGAAC---G-GGTCCGCCAAG--AACAACC--CGTGTTTTCGTGGGTTCCACACCCC------CCGCCCAGCT---C-----------AGCATCTCTCTGTGTCAAGTTACT---------------------------A------TTTT------GTTTTCTTTC--- [...]
+q bosTau3.chr9 9999999999999999999-------999999999999-9999999-9999999999999999999999999999999999999999-9999-99999999------------------99999999999999-9-------9999999999999999999-----9999999---99999999999999-999999999--999999999999999999999-999999999999999999999999999--99999-99999999---9-99999999999--9999999--9999999999999999999999999------9999999999---9-----------999999999999999999999999---------------------------9------9999------9999999999--- [...]
+i bosTau3.chr9 C 0 I 49
+s loxAfr1.scaffold_7828 82604 327 - 87447 TTTAAGAATTGGGAAGGAGAACTTCAACTGTTTGAGCCACAGTTTT-TTGAGTTATATAGTATTG-GGGATGAGGAA--------------G-AGCGGTGG------------------TGGTC-----AGCA-G-------GGGTAGAAACTTGTATCCT-----TAGCTGC---CTTGCTTAGTTTTT-AGCGTCTCC--TAAGAATTTGAGGGAAAGGCG-ATAGAT-GCCCTCAAGCCTCTTTGTAC--TCTTCTAAGAGAAC---AAAGTCCACCAAA--GGTAG----TATATTTTCATGGACT-----CCCC------CTGCCCCCCAATTC-----------AACATCTCTGTGTTTCAAGTTACT---------------------------A------TTTTTTTTCCTTTCTTTTTC--- [...]
+q loxAfr1.scaffold_7828 9999999999999999999999999999999999999999999999-999999999999999999-99999999999--------------9-99999999------------------99999-----9999-9-------9999999999999999999-----9999999---99899999999999-999889995--779697587794999996855-767875-76868769677876988766--96687658995876---4985658988697--57677----7977799777668678-----6768------55558788677696-----------699895545546397875687676---------------------------7------99999999997999989999--- [...]
+i loxAfr1.scaffold_7828 I 2 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+e canFam2.chr1 78203062 1613 - 125616256 I
+
+a score=31127.000000
+s mm9.chr10 3135818 24 + 129993255 --------TTGGCTA---------------------------------------------AGCA--CTCTCTCTCCCTT
+s rn4.chr1 229953499 7 - 267910886 --------TAAGTCA----------------------------------------------------------------
+q rn4.chr1 --------9999999----------------------------------------------------------------
+i rn4.chr1 C 0 I 38
+s cavPor2.scaffold_286578 127149 61 - 133272 --------TTTgtcaataattgtaactagaattGTGTAGT-CTTCACAGTTTGC----TAAGCG--CTGTCTGTGT---
+q cavPor2.scaffold_286578 --------99999999999999999999999999999999-9999999999999----999998--9999999999---
+i cavPor2.scaffold_286578 C 0 I 5
+s oryCun1.scaffold_197619 35789 63 + 79436 --------TTTCCCAATAATAATAACTAGAATTGTGTAGCGCTTCACAGTGTGC----CAGGAG--CTCTGTGT--TGT
+q oryCun1.scaffold_197619 --------9999999999999999999999999969999998999999989999----999999--99788799--799
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16028103 62 - 170899992 --------TTTCTCAGTAAT---AACTAGAATTGTGTAGCGCTTTACAGTTtgc----taagag--ctctctctgttat
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16550449 62 - 173908612 --------TTTCTCagtaat---aactagaattgtatagcgctttacagtttgc----taagag--ctctctctgttat
+q panTro2.chr6 --------999999999999---9999999999999999999999999999999----999999--9999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16333173 62 - 174210431 --------TTTCTCagtaat---aactagaattgtatagcgctttacagtttgc----taagag--ctctctctgttat
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435700 62 + 167655696 --------TTTCTCAGTACT---AACTAGAATTTTATAGCGCTTTACAGTTTGC----TAAGAG--CTCTCTCTGTTAC
+q rheMac2.chr4 --------999999999999---9999999999999999999999999999999----999999--9999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5769 64 + 7547 --------TTTCTCAGTATT---AAGTAGAAttgtatagcgctttacagtttgc----taagaactctctctctgttat
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 298926 62 - 359464 --------TTTCTCaataat----actagacttgtatagcg-tttacagtttgc----taagagctctctctctgttac
+q otoGar1.scaffold_334.1-359464 --------999999999999----99999999999999999-999999999999----999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327661 71 - 498454 --------TTTCTCAATAATAATAACTAGAATTGTGTAGCGCTTTACAGTTTGCTTCTTAAGAGCCCTCTCTATGCTAT
+q tupBel1.scaffold_114895.1-498454 --------99999999999999999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_224153 10931 18 - 12178 ----------------------------------------------------------TTGGCG--TCCTTTCCCT-TT
+q eriEur1.scaffold_224153 ----------------------------------------------------------999999--9999999899-99
+i eriEur1.scaffold_224153 C 0 N 0
+s canFam2.chr1 78204675 23 - 125616256 -------------------------------------------------tttgc----taagaa--ctctctctct-gt
+q canFam2.chr1 -------------------------------------------------87777----787655--6777787878-89
+i canFam2.chr1 I 1613 I 3
+s equCab1.chr31 12997954 23 + 24938454 -------------------------------------------------tttgc----tcagag--ctctctctct-gt
+q equCab1.chr31 -------------------------------------------------99999----999999--9999999999-99
+i equCab1.chr31 I 49 I 3
+s bosTau3.chr9 13654868 23 - 95030419 -------------------------------------------------ttggc----taagag--ctctgtctct-gt
+q bosTau3.chr9 -------------------------------------------------99999----999999--9999999999-99
+i bosTau3.chr9 I 49 I 3
+s loxAfr1.scaffold_7828 82931 71 - 87447 TGGTGTCCTCTCTCAGTAATAGTAACTAGAATTGTATAGCGCTTTACAGTTtgc----taagcg--ctctctcttat--
+q loxAfr1.scaffold_7828 866789989798997679997756799559999659697576999999999994----879765--69999999799--
+i loxAfr1.scaffold_7828 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 33104 3609 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e felCat3.scaffold_205674 7171 0 - 7188 I
+
+a score=860118.000000
+s mm9.chr10 3135842 120 + 129993255 TGTTTTTGTTCG-TCT-CAGTAGACGTGAGTAGTCAGTGATGCTGGTGTGTTCAGATTATCTTTCAAGCTGCCC---TACCCG----TCTGTGACAATGGAAACCCCATCCT---------GTCATTTCTCAAGCCAG
+s rn4.chr1 229953544 122 - 267910886 TGTCTTTGTCCA-TCT-CCGCAGATGTGA--AGTAGGTGATGCCGGTGTGTTCAGGTCATCTTTCAGACTGCCC---TACCCATGGCTGTGGCACAGTGGAAACCCCATCCT---------GTCATTTCTCAAGCCAG
+q rn4.chr1 999999999999-999-999999999999--9999999999999999999999999999999999999999999---99999999999999999999999999999999999---------99999999999999999
+i rn4.chr1 I 38 C 0
+s cavPor2.scaffold_286578 127215 123 - 133272 TGCCCTTGGTCA-CCA-CAGTAGGCCTGTGAGGTAGGTAATGCTGGTAAGCGCAGGTCACCTTTCAACCTGTCT---CACCCATGGCTGCAGCATAATGAAAA-CGAATCAT---------CTCATTTCTCATGCCTG
+q cavPor2.scaffold_286578 999999999999-999-999999999999999999999998999998999999999999699999999999999---89876699889986989899997988-87996867---------99668998655985879
+i cavPor2.scaffold_286578 I 5 C 0
+s oryCun1.scaffold_197619 35852 129 + 79436 TGTGCTTGGGCA-CCT-CGGTAGGCCCGTGAGGTAGGTAAAGCTGGTAAGATCAGGTCATC--TCCACCTGTCT---CACCCATGGCCGCAGCACGAGGGAAA-CGGATCATCTC-CACACCTCATTTCTCATGCCTG
+q oryCun1.scaffold_197619 799999899999-999-99999999998799999999999999799999999999999999--99999999999---99999999999999999999999999-99999999999-9999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16028165 131 - 170899992 tgtccttggtca-tca-cagtaagcctgtgaggtaggtaatactGGTAAGACCAGGTCGTCTTTCAAACCGTCC---CACCCATGGCTGCAGCATAATGAAAA-CTGATCACCGC-TACATCTCATTTCTCACGCCTG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16550511 131 - 173908612 tgtccttggtca-tca-cagtaagcctgtgaggtaggtaatactGGTAAGACCAGGTCGTCTTTCAAACCGTCC---CACCCATGGCTGCAGCATAATGAAAA-CTGATCACCGC-TACATCTCATTTCTCACGCCTG
+q panTro2.chr6 999999999999-999-999999999999999999999999999999999999999999999999999999999---99999999999999999999999999-99999999999-9999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16333235 131 - 174210431 tgtcctttgtca-tca-cattaagcctgtgaggtaggtaatactggtaAGACCAGGTCATCTTTCAAACCGTCC---CACCCATGGCTGCAGCGTAATGAAAA-CTGATCACCGC-TACATCTCATTTCTCACGCCTG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435762 131 + 167655696 TGCCCTTGGTCA-TCA-CAGTAAGCCTGCGAGGTAGGTAATACGGGTAAGACCAGGTCAGCTTTCAAACCGTCC---CACCCATAGCTGCAGCATAATGAAAG-CTGATCACCGC-TACATCTCATTTCTCATGCCTG
+q rheMac2.chr4 999999999999-999-999999999999999999999999999999999999999999999999999999999---99999999999999999999999999-99999999999-9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5833 131 + 7547 tgtccttggtca-tca-cagtaagcctttgaggtaggtaatactggtaAGACCAGGTCATCTTTCAAATTGTCC---CATCCATGGCTGCAGCATAATGAAAA-CTGATCACCGC-TACATCTCATTTCTCATGCCTG
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 298988 132 - 359464 tgcccttggtcaccca-cagtaagcctgggaggtaggtaatgctggtaAGATCAGGTCATCTTTCAAACCGTCC---CACCCATGCCTGCAGCATAATGAAAA-CTGATCATCTC-TGCATCTCATTTCTCTTGCCTG
+q otoGar1.scaffold_334.1-359464 9999999989999999-999999999999999999999999999999999999999999999999999999999---99999999999999999999999999-99999999999-9999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327732 121 - 498454 TGCCCTGGGTCA-TCA-CGGTAGGCCTGTGAGGTAGGTAATACTGGTAAGATCAGGTTGTCTTTCAAACTGTCT---CACCCATGG-TGCGGCTTTCCGACAA--TGAT---------CATCCCATTTCTCACGCCTG
+q tupBel1.scaffold_114895.1-498454 999999999999-999-999999999999999999999999999999999999999999999999999999999---999999999-9999999999099999--9999---------99999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 36713 116 - 121936 GGCCCTTGGTCA-TCAACAGTAGACCTGCGAGGTAGGTAACGCGGGTAAGATCAGGCCATCTTCCAACCTGT-----CACCCATGGCTGGGC---------------AGCATGTC-TCCATCTCATCTCTCATGCCGG
+q sorAra1.scaffold_256646 979968556889-94229777787958899899999978999789888795899868889899898899899-----999999889899999---------------99998998-9999989979495999999899
+i sorAra1.scaffold_256646 I 3609 I 555
+s canFam2.chr1 78204701 134 - 125616256 tgcctttggtca-tca-cagtaaacctgtgaggtaggtaatactGGTAAGATCAGGTCATCTTTCCAACTGTCTCCTCACCCGTGGCTGGGGCGTAATGGAAA-CTGATCATCTC-TGCATCTCATTTCTCATGCCTG
+q canFam2.chr1 898987998887-877-78887678998877788777799888878888899998978888899998777889998899999999999999999999999999-99999999999-9999999999999999999999
+i canFam2.chr1 I 3 C 0
+s equCab1.chr31 12997980 130 + 24938454 tgcccttgg-ca-tcc-cagtaagcctgtgaggtaggtaaaactggtaAGACCAGGTCATCTTTCAACCTCTCC---CACCCATGGCTGCGACATAATGAGCA-CCGATCATCTC-TACATCTCATTCCTCATGCCTG
+q equCab1.chr31 999999999-99-999-999999999999999999999999999999999999999999999999999999999---99999999999999999999999999-99999999999-9999999999999999999999
+i equCab1.chr31 I 3 C 0
+s bosTau3.chr9 13654894 125 - 95030419 tgcccttggtca-tcc---gtaagcctgagaggtaggtAATGTGGGTAAGATCAGGTCATCTTT----CTGTCT---CACCCATGGCTGCAGCATCTCCAACC-CCGGTCATCTC-TGCATCTCATCTCTCCCGCCTG
+q bosTau3.chr9 999999999999-999---999999999999999999999999999999999999999999999----999999---99999999999999999999999999-99999999999-9999999999999999999999
+i bosTau3.chr9 I 3 C 0
+s felCat3.scaffold_217398 65598 113 - 219823 -----------------CAGTAAGCCTGTGAGGTAGGTAATACTGGTAAGATCAGGTCGCCTTTCAGACCGTCT-------CATGGCTGGGGCATGAAGGAAA-CTGGTCATCTCTTACATCTCATTTCCCATGCCTG
+q felCat3.scaffold_217398 -----------------999999999999999989999999999999999999999999999998859899999-------9899999999999999999999-9999999999999999999999999998999999
+i felCat3.scaffold_217398 I 15616 C 0
+s loxAfr1.scaffold_7828 83002 129 - 87447 tgcccttggtca-tca-cagtaagcctgtgaggtaggtaatactGGTAAGATCAGGTCATC-TTCAAACTGTCT---CACCCATGGTCATGGCACGGTGACAA-CCCATCATCTC-CACATGTCATTTC-CATGCTGG
+q loxAfr1.scaffold_7828 965949997977-997-97999979996569777995459999986799998999697999-999999986949---96899999659799996885466989-99949999999-9699959997999-97943599
+i loxAfr1.scaffold_7828 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+
+a score=701517.000000
+s mm9.chr10 3135962 232 + 129993255 TGTCTTATAT--AGGTCAC-TGGAAAGGGGCTGT-CCAGGTAGTGAAGAGT---------CTG----------GTGTATGTCTGATTATC--CCTGGCT--TCTGGAG-----GAAAACACAGAATAC-----TGTCTTAGGAAGTAGGTTTTTTCTATCGGCCAGACTTTTCCAGGACTCTC--AAAGTAAAGCC-ATGGGAAAAAGGATGACTACATAGGCCTGAGTGACTC----TGGCTGAGTGAGCAGTA--AA--ACATGGTTAGC----AGCAGTAG
+s rn4.chr1 229953666 233 - 267910886 AGTCATATAT--AGGTCAC-TGG-AAGGGGCTGT-CCCAGCAGTGAAGTGT---------CTG----------GTGTATGTCCCATTATC--CCTGGCTCCTCCGGAG-----GAAAACACAGAATAC-----TGTCTTAGGAAGTAG--TTTTTCCATTGTCCAGAC-TTTCCAGGACTCTCA-AAAGTAAAGTC-ATGGTGAAAAGAGTGAATACATTGGCCCTGGTGACAC----TGGCTGGGTGAGCAGTA--AACCACACGGTTAGC----AGCAGTAG
+q rn4.chr1 9999999999--9999999-999-9999999999-9999999999999999---------999----------99999999999999999--9999999999999999-----999999999999999-----999999999999999--999999999999999999-999999999999999-99999999999-9999999999999999999999999999999999999----99999999999999999--999999999999999----99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 127338 233 - 133272 TGCCTTTCAT--AAACCAC-TGG-AATGGGATGT-CCCAGGCATGTGGGAT---------GTGTGTCAAT---GGGTATGTCTGACCATT--TCCTGTCCTTctgggg-----gaaaggaaagaatag-----aCCCTC-----------CGTGTCCAATAACTAGAA-TTTCGTGAACTCTTACGGACAACAGTG-ATG----AAGCCACAAATACTTGGGCATTGGTGTTTCAGTTTGCCTGGGTTAATAGTA--AATAACATTGCCAGTG---AGCAGTAG
+q cavPor2.scaffold_286578 8789789658--9986789-997-7869667565-6775797779796685---------9687768679---98988666898969669--6655955769889999-----597956699576597-----849865-----------657646685767656574-599676647595485558586476567-657----555975879686568785856558566989546965945789899667668--9999796747396867---96957776
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 35981 202 + 79436 CTACTTTCACGAAAACCAC-TGG------------------GCTGCGGGGC---------GTG--GCAGT---GCGCATGTCTGACCATT--CCCTGCTGCTTCGCGA-----GAAGGGG------------------------------TTTGTGAAGTGGACACAA-TTCCCTGGAC------GCAGACACATC-AAG----AAGAGGGGTACTCTGGGACAGGGGTGACTAGGTTTCGCTGGGTGAAAAGAACCGACGGCGTTGCCAGTGCTTGGCAGCAA
+q oryCun1.scaffold_197619 9999999999999999999-999------------------9999999999---------999--99999---99999999999999999--9999999999999999-----9999999------------------------------999999999999999999-9999999999------99999999999-999----99999999999999999999999999999999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16028296 235 - 170899992 TGACTTACACATAGACCACGTGG-AATAGGATGT-CCGAGGTGTGTGGGGT---------GTG--TCAGT---GGGTATGTCTGACCATT--TCCTGCTCCTCTGGGA-----GAA-----------------CTCCTTGAGAACGGG--TTTGTCAAGTGAGCAGAA-TTTCCTGGACTCC---TATATAAAATG-AAGCTAAAAACAACACATGTTTCTGCCTTGGTGACTAGGTTTCCCTTGGTAAAGAGTA--AGTGGCATTGCCAGTACTTGGTAGGAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16550642 235 - 173908612 TGACTTACACATAGACCACGTGG-AATAGGATGT-CCGAGGTGTGTGGGGT---------GTG--TCAGT---GGGTATGTCTGACCATT--TCCTGCTCCTCTGGGA-----GAA-----------------CTCCTTGAGAACGGG--TTTGTCAAGTGAGCAGAA-TTTCCTGGACTCC---TATATAAAATG-AAGCTAAAAACAACACATGCTTCTGCCTTGGTGACTAGGTTTCCCTTGGTAAAGAGTA--AGTGGCATTGCCAGTACTTGGTAGGAA
+q panTro2.chr6 99999999999999999999999-9999999999-9999999999999999---------999--99999---99999999999999999--9999999999999999-----999-----------------999999999999999--999999999999999999-9999999999999---99999999999-9999999999999999999999999999999999999999999999999999999999--999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16333366 235 - 174210431 TGACTTACACATAGACCACGTGG-AATAGGATGT-CCGAGGTGTGTGGGGT---------GTG--TCAGT---GGGTATGTCTGGCCATT--TCCTGCTCCTCTGGGA-----GAA-----------------CTCCTTGAGAACGGG--TTTGTCAAGTGAGCAGAA-TTTCCTGGACTCC---TATATCAAATG-AAGCTAAAAACAACACATGCTTTTGCATTGGTGACTAGGTTTCCCTGGGTAAAGAGTA--AGTGGCATTGCCAGTACTTGGTAGGAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108435893 230 + 167655696 TGACTTACACGTAGACCACGTGG-AATAGGATGT-CCAAGGTGTGTGGGGT---------GTG--TCAGC---GGGTATGTCTGACCATT--TCCTGCTCCTCTGGGA-----GAA-----------------TTCCTTGAGAACGGG--TTTGTCAAGTGAGCAGAA-TTTCCTGGACTCC---TATGTAAAATG-AAGCTAAAAACAACACATGCTTTTGCATTGGTGACTAGGTTTCCC-----AAAGAGTA--AGTGGCATTGCCAGTACTTGGTAGGAA
+q rheMac2.chr4 99999999999999999999999-9999999999-9999999999999999---------999--99999---99999999999999999--9999999999999999-----999-----------------999999999999999--999999999999999999-9999999999999---99999999999-999999999999999999999999999999999999999999999-----99999999--999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 5964 234 + 7547 TGACTGACACATAGACCACGTGG-AATAGGATGT--CAAGTTGTGTGGGGT---------GTG--TCAGT---GGGTATGTCTGACCATT--TCCTGCTCCTCTGGGA-----GAA-----------------CTCCTTGAGAACAGG--TTTGTCAAGTGAGCAGAA-TTTCTTGGACTCC---TATATAAAATG-AAGCTAAAAACAACACATACTTTTGCATTGGTGATTAGGTTTTCCTGGGTAAAGAGTA--AGTGGCATTGCCAGTACTTGGTAGGAA
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 299120 253 - 359464 TGACTTACTCATGGCCCACGTGG-AATGGGATGT-CCTAGGTGGGTGGG-----------ATG--TCAGT---GGGTATGTTTGACTATT--TCCTGCTGCTGTGGGATCAGGGAAAAG-AGTAATACACT--CTCCTTGAGAAGGGG--GTTGTCAAGTGACCAGAA-ATTCCTGGACTCT---TACATAAAAAGAAAGATGTAAGCCACAAATACTTGTGCATGGTTGACTAGGTTTGCCTGGGTAAAGAGTA--AATAGCATTGCCAGTGCTTGGTAGAAA
+q otoGar1.scaffold_334.1-359464 99999999999999999999999-9999999999-99999999999999-----------999--99999---99999999999999999--999999999999999999999999999-99999999999--999999999999999--999999999999999999-9999999999999---9999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 327853 244 - 498454 TGACTTACATGTAGATCACGTGG-AATGGAATGT-CCCTGGTGGATGGCAT---------TTG--TCAGT--GGGGGATGTCTGGTCATT--TCCCGCTGCTCTGGGA-----GAAGGGAAAGAAAATATC--CTCCTTGAGAGGAGG--TTTGTTGAGGGTC---AA-TTTCCTGGATTCT---CGGGTAAGATG-AAGGTGAAAACACCAAATCCTTGTATGTGGGTGACTA-GTTTGTCTGGGTAAAG---T--AGTAGCATTTCCAGCACTTGGGAGAAA
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999-9999999999-9999999999999999---------999--99999--999999999999999999--9999999999999999-----999999999999999999--999999999999999--9999999999999---99-9999999999999---99999999999-9999999999999999999999999999099999999-9999999999999999---9--999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13655019 238 - 95030419 CCGAGTACACACAGACCATGTGC-AATGGGGTGT-CCCAGACTTGTGGGAGATGTGGG--GTG--TCAGTGGGGGGCATGTCTGACCATTCATTCTG--------GGA-----GAAGGGACAGGATACACT-CTCTCCTGAAAAGAGG--TTTGTCCAGGGACCAAAG-TTTTGGGGGCTCT---TATTTAAAGCG-AAGATGAAAACACCAAATACTTCTATGTGG-----------------AGTAATGTGTA--ACTAACAATGTCCGTGCTTGATATAAA
+q bosTau3.chr9 99999999999999999999999-9999999999-99999999999999999999999--999--99999999999999999999999999999999--------999-----999999999999999999-9999999999999999--999999999999999999-9999999999999---99999999999-999999999999999999999999999999-----------------99999999999--999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 12998110 245 + 24938454 CTTAGTGCACATGGACCACGTGC-AGCGGGATGT-CCTGGGAATACGGGATGTATGGGTTGTG--TCAGT--GGGGTATGTCTGACCATT--TCCTGCTCCTCTGGGA-----TGAGGGAAGGGATCCACTCTTTTTCTGAGAAGAGG--TTTGTCCAGGGACCAAAA-TTTCCTGGGCTCT---TACTTAAAATG-AAGCTGAAAACAACAAATACTTGTACGTTG-----------------GATGAAGAGTA--AATGGCATTGTCAGTGCTTGGCACAAT
+q equCab1.chr31 99999999999999999999999-9999999999-9999999999999999999999999999--99999--999999999999999999--9999999999999999-----99999999999999999999999999999999999--999999999999999999-9999999999999---99999999999-999999999999999999999999999999-----------------99999999999--999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 65711 250 - 219823 CCAAGTACACACAGACCACGTGG-AAATGGGTGTCCCTCCCTGTATGGGACACATGGCGTGCA--TCAGT--GGGGTAT-CCTGA-------TCCCAGT------GGA-----GCAGGAGAGGGATACAGT-GTCTCCAGAGAAGAGG--TTTGTCCAGGGACCAGAA-TTTCCAGGGCTCT---CATTTAAAACG-AGCATGCAAACAACACATACTTGTGCATTGGTGACTGGCTTTGCCTGGGGGAGGAGTA--AAGAGCATTGCCAGGGCTTGGCACAAA
+q felCat3.scaffold_217398 99899999999986999999999-999999999999999999997899999999999989998--79799--9999999-99999-------9999999------999-----999999999999999999-9999999999999999--999999999999999999-9999999999999---99999999999-9999999999999999999999999999999999999999999999999999999999--999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78204835 239 - 125616256 CATAGTACACAGAGACCACGTGG-AATGGGATGT-TCTAGATAGATGGGCCATATGGCATGTG--TCAGT--GGGGAATGCCTAATCATT--TCCTGCT------GTA-----CCGGGAA-----------------CAGAGAAGAGC--TTTGTCCAAGGACCAGAA-TTTCCTGGGCTCT---TACTTAAAATG-AGGATGAACGCAGCACAAGCTTATACACTGGTGACTAGGTTTGCCTAGGTAAAGAGTA--AATAGCATTGCCAGTGCTTGGCACAAA
+q canFam2.chr1 99999999999999999999999-9999999999-9999999999999999999999999999--99999--999999999999999999--9999999------999-----9999999-----------------99999999999--999999999999999999-9999999999999---99999999999-9999999999999999999999999999999999999999999999999999999999--999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s loxAfr1.scaffold_7828 83131 229 - 87447 -----TGCA---GTGTTGCCTGG-GATGGGCTGT-CTTACACGGGTTGCAT---------GTG--CTGTG---GGGCGTGTCTG----TT--TCCTGAGCCCCTGGGA-----GAAGGGAAGGGATGACCTC-CTGGCTGAGAAGAGG--TTTGTC-AGGGATCACA--TTTCATGGGCTCT---TACTTAAAATG-AAGATAAAAA-GACAAACACTTGTAAATTGGTGATTAGGTTTGCCTGGGTAAAGAGTA--AACAGCGTTGATAGT-------AGGAG
+q loxAfr1.scaffold_7828 -----4988---44476497699-9969999639-5679857675563776---------242--24334---99422469452----56--6565474567569956-----7988944699453469465-342124241786897--468445-3464597353--8967957955835---56358899984-1256679994-53556664559445998998445678627753121895657765559--946555563566356-------37245
+i loxAfr1.scaffold_7828 C 0 I 3347
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 36829 555 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+
+a score=373753.000000
+s mm9.chr10 3136194 241 + 129993255 AC-TTAAGT-TATTTTAAGCC---CCTTCCCTTAACTTGAA--GTGTAACTTG-TACTGAAGACGG-------------------TACCAGG-TGCTCCA-GCTAG---CTTGCTGAGAGGAAGCAGAT-GGCTTGCTTGACT------------------ACCATGGAGGGGTCC-----------TCAGAG------CC-TGC-----TG-ag-------------------------------ccagt----ag-------ctaca-------------tttactctcaagtccttgac--atgtggctgattg-------------------------ttattgccaggta--ctaggtatg------caa--tgcacagggtgtctggagactcagtgt--g----aag
+s canFam2.chr1 78205074 308 - 125616256 ACGTTGACT-TAA---AAGCTGTGAGTCCTCAG-------A--CCCTATTTTG-AAATGGGGTATGTTCTCCTGTT-CAAGACAGCACCAGACCCCCCCA-ACTGGTGACTTGCTGAGACTGAGTTGG--------TTTTACCCATGTGTCCATCATAGAAGCAACTTGAGAAACGGCTGATTT---TCAGCA------GG-TTT-----GGACC-TCCAACAGCTGTTCTGAAGcaacagggtagctcct----ag-------ccaca------------tgtgactcttaagccctcaaa--gtg-ggctggtta-------------------------gaattgtagtgtgttttaagtgta------aaa--tacacc---catgtgaagacttagtgcaaa----aaa
+q canFam2.chr1 999999999-999---99999999999999999-------9--9999999999-9999999999999999999999-99999999999999999999999-999999999999999999999999999--------999999999999999999999999999999999999999999999999---999999------99-999-----99999-99999999999999999999999999999999999----99-------99999------------999999999999999999999--999-999999999-------------------------999999999999999999999999------999--999999---999999999999999999999----999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 65961 300 - 219823 ACG-CAACT-TCA---AAGCTGTAAATTCCCAG-------A--CCCTGTTTTG-AAGTAGGGCGTGTTTCCCTGTTCCAGGACACCACCAGA-TTCCCCA-CCTGGTGACCTGCCAGGATGCAGTTGGTTGGTCTCTTTTCCCTTGGTGTCCCTTATAGAAGCAGA-TAAGAAAAGGATGA-TT---TCAGCG------GC-TTC-----TGACC-TCCAG-AGCCATTCTG---------------TCCTGTAGGg-------tcata------------tgtggctcttaagcccttaaa--gtg-ggctggtca-------------------------gaatcgcaatgtgtcgtaagtgta------aaat-tacatg---cgtgtgaagccgaggtgt--a----aaa
+q felCat3.scaffold_217398 999-99999-999---99999999999999999-------9--9999999999-99999999999999999999999999999999999999-9999999-99999999999999999999999999999999999999999999999999999999999999999-99999999999999-99---999999------99-999-----99999-99999-9999999999---------------9999999999-------99999------------999999999999999999999--999-999999999-------------------------999999999999999999999999------9999-999999---999999999999999999--9----999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 12998355 316 + 24938454 ACATTACCT-TAA---AAGCTATAAATACCCAG-------A--CCCAATTTTGAAAATGGGGTGTATTCTCCCATT-CAGGACACTACTGGA-TTCCTCA-ACTAGCAACTTGCTGAGGCTGAATTGGTTGATCTGTTTTACCTGTATGCCCATCATAGAGGCAATTTAAGAAATTGATGG-TT---TCAGCAATTTTTGG------------CC-TCAAG-AGctcctctg-tccgatatggtagccaat----ag-------ccaca------------cgtggctcttcagcccttgaaatgta-agctgttca-------------------------gaattgtgatgtgctgtaagtgta------aaatacacata---catgtgcagacttggtat-ga----aaa
+q equCab1.chr31 999999999-999---99999999999999999-------9--999999999999999999999999999999999-999999999999999-9999999-99999999999999999999999990999999999999999999999999999999999999999999999999999999-99---99999999999999------------99-99999-9999999999-999999999999999999----99-------99999------------99999999999999999999999999-999999999-------------------------999999999999999999999999------99999999999---999999999999999999-99----999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13655257 289 - 95030419 ACA-------TAA---AATCTGTAGAGACCCAG-------A--TGCTATTTTG-AAATGGGATGTGTTCCCCCATC-CAAGATACTACTAGG-TCCCTTG-TCTAGCGACTTGCCTGGTCTGAGTTGGTTGATCTGTTTTACCATTGTGTCCATCAGAGAAGCAACCTAAAAAACTGAAGA-------CATCA------GT-TTT-----TGATC-TGGAG-AGctgctctg-tctaatatggtagccagt----ag-------tcact------------catgggccttgggctcttgac--atatggctggtcc-------------------------ga--tgccctgtgctctaagtgtg------aaa--tacata---c-----------tagggt--g----aaa
+q bosTau3.chr9 999-------999---99999999999999999-------9--9999999999-9999999999999999999999-999999999999999-9999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999------99-999-----99999-99999-9999999999-999999999999999999----99-------99999------------999999999999999999999--9999999999999-------------------------99--99999999999999999999------999--999999---9-----------999999--9----999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 328097 290 - 498454 ACATTAACT-TAC---TAGCTATAAATGCCC---------AATCTTTAGTTTG-AAATGAGCTGTATGCACTCGCC-ACCGTCCCCTTCAAA-TTCT----GCT-ACAACTTCTTGAGACCCAGTTGAG-GATCTATTTCACCTGTATGTCCACCATAAAGGCAATTCAAGACACTGATTA-TT---TCTGCA------GCAAAC-----TG-ATGGCTAA--------------------AGTAGCCAGT----G--------CCACA------------CACAGTCCTG-AGCTTCTGAA--ATGTGGCTAGCCA-------------------------GAACTGTGACGTGCTGTGAATATA------AAA--TACACATGCCATTCGAAGACGTGGTGT--G----AAA
+q tupBel1.scaffold_114895.1-498454 999999999-999---999999999999999---------9999999099999-9999999999999999999999-999999999999999-9999----999-999999999999999999999999-999999999999999999999999999999999999999999999999999-99---999999------999999-----99-99999999--------------------9999999999----9--------99999------------9999999999-9999999999--9999999999999-------------------------999999999999999999999999------999--999999999999999999999999999--9----999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 299373 274 - 359464 ACATCAGCTATAA---ATGCC----------------------------TTTG-AAATGAGGTGTGTTCCCTCATT-CAAAGTCCTAATAAA-TTCCCCAGGCTGACAGCTTGCTGAGAGTGAGTTCAT-GATCTCTTTCACCTGTATGTCCGTGAGAGGGGCTACTTGAGACGCTGATAA-TT---TCAGCA------AC-TCT-----TG-ACCTCTAG---------------------------AGC----C--------TCTCTGTTCAATAAGCGGgtagctcgtgggcctttgca--gtgtggccagt----------------------------------gacctgctgcaagtgtc------aga--tacacatggcatgtgaagacttgatat--a---agaa
+q otoGar1.scaffold_334.1-359464 9999999999999---99999----------------------------9999-9999999999999999999999-999999999999999-999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999-99---999999------99-999-----99-99999999---------------------------999----9--------99999999999999999999999999999989999999--99999999999----------------------------------99999999999999999------999--999999999999999999999999999--9---9999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig23414 6198 311 + 7547 GCATTAGCT-TAA---AAGCCATTCATGCTC---------A--CACTAGTTTG-AAATGAGGTGTGTTCCTCCATT-CAAGATACTATCAAA-TTTTCTAGGCTGGCAACTTGCTGAAACTCAGCTGAT-GATCTATTTCATCTGTTTGCCCCTCATGGAGGCAACTTGAGACACTGCAAA-TT---TCAGTT------AC-TGT-----TG-ACTTCAAG-AGC-GTTGtg-ttcaacttagtaaccagt----a--------ccact------------tgtggctctccagcccttgaa--atgtggctggtta-------------------------gaattgcaatgtgctgtaaatata------aaa--tacacatggcatttgaagacttggtat--g---aaaa
+i calJac1.Contig23414 C 0 C 0
+s rheMac2.chr4 108436123 314 + 167655696 GCATTAGCT-TAA---AAGCCATCCATGCCC---------A--CACTAGTTTG-AAATGACGTGTGTTCCTTCATT-CAAGATGCTACCAAA-TTCCGTAGGCTGGCAACTTGCTGAAACTGAGTTGAT--ATCTATTTTATCTGTATGTCCCTCATAAAGTCAACTTGAGACACTGCAAA-TT---TCACCT------AC-TAT-----TG-ACTTCTAG-AACTGTTCTG-TCCAGCTTAGTAACCAGT----A--------CCACT------------TGTGGCTCTCCAGCCCTTGAA--ATGTGGCTGGTTA-------------------------GAATTGCAATGTGCTGTAAGTCTA------AAA--TACACATGGCATTTGAAGACTTGGTAT--GAAAAAAA
+q rheMac2.chr4 999999999-999---999999999999999---------9--9999999999-9999999999999999999999-999999999999999-999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999-99---999999------99-999-----99-99999999-9999999999-999999999999999999----9--------99999------------999999999999999999999--9999999999999-------------------------999999999999999999999999------999--999888999999999999999999666--66666899
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16333601 311 - 174210431 GCATGAGCT-TAA---AAGCCATCCATGCCC---------A--CGCTAGCTTG-AAATGAGGTGTGTTCCTCCGTT-CAAGATGCTACCAAA-TTCCCTAGGCTGGCAACTTGCTGAAACTGAGCTGAT--ATCTATTTTATCTGTATGTCCCTCATAGAGCCAACTTGAGACACTGCAAA-TT---TCAGCT------AC-TGT-----TG-ACTTCTAG-AGccgctctg-tccaacttagtaaccagt----a--------ccact------------tgtgactctgcagcccttgaa--atgtggctggtta-------------------------gaattgcaatgtgcaataagtcta------aaa--tacacatggcacttgaagacttggtat--g---aaaa
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16550877 313 - 173908612 GCATGAGCT-TAA---AAGCCATCCATGCCC---------A--CGCTAGCTTG-AAATGAGGTGTGTTCCTCCATT-CAAGATGCTACCAAA-TTCCCTAGGCTGGCAACTTCCTGAAACTGAGTTGAT--ATGTATTTTATCTGTATGTCCCTCATAGAGCCAACTTGAGACACTGCAAA-TT---TCAGCT------AC-TGT-----TG-ACTTCTAG-AGccgctctg-tccaacttagtaaccagt----a--------ccact------------tgtggctctgcagcccttgaa--atgtggctggtta-------------------------gaattgcaatgtgctgtaagtcta------aaa--tacacatggcatttgaagacttggtat--g-aaaaaa
+q panTro2.chr6 999999999-999---999999999999999---------9--9999999999-9999999999999999999999-999999999999999-999999998999999999999779989679398696--77899999999999999999999999999999989999999999897497-69---689999------99-999-----99-99999999-9999999999-999999999999999999----9--------99999------------999999999999999999999--9999999999999-------------------------999999999999999999999999------999--999999999999999999999999999--9-999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16028531 312 - 170899992 GCATGAGCT-TAA---AAGCCATCCATGCCC---------A--CGCTAGCTTG-AAATGAGGTGTGTTCCTCCATT-CAAGATGCTGCCAAA-TTCCCTAGGCTGGCAGCTTCCTGAAACTGAGTTGAT--ATGTATTTTATCTGTATGTCCCTCATAGAGCCAACTTGAGACACTGCAAA-TT---TCAGCT------AC-TGT-----TG-ACTTCTAG-AGccgctctg-tccaacttagtaaccagt----a--------ccact------------tgtggctctgcagcccttgaa--atgtggctggtta-------------------------gaattgcaatgtgctgtaagtcta------aaa--tacacatggcatttgaagacttggtat--g--aaaaa
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_197619 36183 338 + 79436 ACCTTAACT-TAA---AAGCCAGACATGCCCAC-------A--CTGTAGTTTA-GAATGAGGGCGAGTCCTCT-TT-CAGGAAACTGCCAGA-TTCCAGC-CCTCGCAGCTTGTGCAGATGGACGCCAT----CTGTTTCACCTGTGTGTCCATCGCAGCACCGACTTGGGAAACTGACAG-CTTTGGCAAAG------GT-TGCCATCTTG-AG---------CTGTTCTG-CCACATACAGTGGCCAGT----TG-------CCACA------------GGTGGCCGTGGGGCTCTATAC--ATGTAGCTGACCAATTTTTAGTATATGTGCTGCCGatgtagctgaccagag--ttaaccatgggctgtaag--tggaaaatacatttgaagagttgatgt--g----aaa
+q oryCun1.scaffold_197619 999999999-999---99999999999999999-------9--9999999999-9999999999999999999-99-999999999999999-9999999-9999999999999999999999999999----999999999999999999999999999999999999999999999999-99999999999------99-9999999999-99---------99999999-999999999999999999----99-------99899------------999999999999999999999--799999999999699999999999999999999999999999999876999--999997899999999999--999999999869999999999999998--9----999
+i oryCun1.scaffold_197619 C 0 C 0
+s cavPor2.scaffold_286578 127571 271 - 133272 CC-ATAAAA-GAT-----ACC---CATATCTGTACCCTGGA--TTAAAAC--------GAAGTC-----------------------------TTCCCTA-ACCAGCAACCTGCTGAGGCTGAGTCGAT----CTGTGTTACCTGTAAGCCCATCAGTGAAGCCACAGAAGAAACCAA--------GTTAGCA------GC-TGT-----TG-AGCTCCAC-AGCTGTTTTG-CT-----CAGT--CCAGT----GGTGGCTACCCACA-------------TTAACTCTTGAGTTTTTGAA--ATGCAACTAGTCA-------------------------GAATTGCAAAATATTCTAAGTATG------AGA--TACATAGGACGTTTGAAAACTTGGtgt--g----a-a
+q cavPor2.scaffold_286578 99-686995-989-----799---98969959969964368--7599986--------997695-----------------------------9999989-7997899596786497995697999979----999799899999999999979999699979999699699999999--------9997998------99-899-----69-99999999-9998999999-99-----9999--99996----99799999999898-------------99999999897999996999--9799999999998-------------------------999959999989999999999999------999--999999999999999999999999797--9----9-9
+i cavPor2.scaffold_286578 C 0 C 0
+s rn4.chr1 229953899 243 - 267910886 AC---AAGT-TATTTTAAGCC---CGTTCCCTTAACTTG-A--GTGTAACTTG-TACTGAAGACAG-------------------TACCAGG-TGCTCTG-GCTAG---CTTGCTGAGATGAAGCAGAT-GGCGTGTGTGACT-GTA---CCACC------ACCATTGAGGGGTCC-----------TCAGAG------CC-TGC-----TG-ag-------------------------------ccagt----ag-------ctaca-------------tttcctctcaagtccttgac--ctgtggctaatca-------------------------taattgccaggta--ctgcgtatg------caa--tgcccagggtgtttgaagaatcggtgt---------g
+q rn4.chr1 99---9999-99999999999---999999999999999-9--9999999999-999999999999-------------------9999999-9999999-99999---99999999999999999999-9999999999999-999---99999------999999999999999-----------999999------99-999-----99-99-------------------------------99999----99-------99999-------------99999999999999999999--9999999999999-------------------------9999999999999--999999999------999--999999999999999999999999999---------9
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106162735 2181 - 541556283 I
+e sorAra1.scaffold_256646 36829 555 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=-11195.000000
+s mm9.chr10 3136435 74 + 129993255 aaggagtagaaaat---a-----tta---------acgattttcct--------acttattacatatcg-----atgagatggtatt--------------ttgaataaaatatacta
+s rn4.chr1 229954142 74 - 267910886 aaggagtagaaaat---a-----tta---------acacttttcat--------acttattgcgtatcg-----acgagatggtatt--------------ttgaataaaaattacta
+q rn4.chr1 99999999999999---9-----999---------99999999999--------999999999999999-----9999999999999--------------99999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 127842 79 - 133272 aaaaaatgtgaaat---a-----gtT---------GTGATTTTTAC--------ATTTGTTACTTGTCAAAATTATGTTTTGGTGTA--------------TTTGTTAAAATAACCTT
+q cavPor2.scaffold_286578 99999999699999---9-----999---------99999999999--------999999999999999999999999999999999--------------99999999999999999
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 36521 91 + 79436 gaagaatgtaaaatctca-----tta---------ataatttttgt--------atttgtcacttgtta-----aaatgatagtattgcggatatattgggttgaattcagtggatta
+q oryCun1.scaffold_197619 799798697999999976-----998---------99788999997--------799999969979886-----99769999899889787998999799889999999766988879
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16028843 83 - 170899992 aaagaacatgaaat---atc---tta---------atactt--------------tttattacatgtgg-----aaatgatagtatt-ttgatacgttaggttaaataaaatatatta
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16551190 83 - 173908612 aaagaacatgaaat---atc---tta---------atactt--------------tttattacatgtgg-----aaatgatagtatt-ttgatatgttaggttaaataaaatatatta
+q panTro2.chr6 99999999999999---999---999---------999999--------------99999999999999-----9999999999999-999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16333912 78 - 174210431 aaagaacatgaaat---atc---tta---------atactt--------------tttattacatgtgg-----aaatgatagtatt-ttga-----taggttaaataaaatatatta
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108436437 78 + 167655696 AAAGAACATGAAAT---ATC---TTA---------ATACTT--------------TTTATTATATGTGG-----AAATGATAGTATT-TTGA-----TAGGTTAAATAAAAGATATTA
+q rheMac2.chr4 99999998888999---999---999---------999999--------------99999999999999-----9999999999999-9999-----999996669999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 6509 89 + 7547 aaagaacatcaaat---atcttatta---------atactttt-----------gtttattacatgtgg-----acatgatagtatt-ttggtatattaggataaatgaaatatacga
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 299647 39 - 359464 aaagag-------------------------------------------------ttt--------tgg-----gcatactagt-----------------ttaaataaaacatacta
+q otoGar1.scaffold_334.1-359464 999999-------------------------------------------------999--------999-----9999999999-----------------99999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 328387 85 - 498454 AAAGATGGCATAAT---AGCTAATTT---------AT-TTT--------------TTCACCCCATGTTG-----AAATCATAGGATT-CAGGATATTTTGGGTTAATTAAATGTATTA
+q tupBel1.scaffold_114895.1-498454 99999999999999---999999999---------99-999--------------99989999999999-----9999999999999-999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13655546 64 - 95030419 acagcatataagct---atc---tcatcactagtttt--tttttat--------agtcattgcatgttg-----a-----tagtgtt--------------ttg--------------
+q bosTau3.chr9 99999999999999---999---99999999999999--9999999--------999999999999999-----9-----9999999--------------999--------------
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 12998671 73 + 24938454 aaagaaactaaact---atc---tca---------at--ttttt-t--------actcgtctcctgtcg-----aaatgagagtatc--------------ttggctgtataaggtta
+q equCab1.chr31 99999999999999---999---999---------99--99999-9--------999999999999999-----9999999999999--------------99999999999999999
+i equCab1.chr31 C 0 I 14
+s felCat3.scaffold_217398 66261 72 - 219823 aaataatttaaatt---atc---tca---------gt--tttttat--------acttaccacatgccg-----aagt--gagtatt--------------ttggatacattgcatta
+q felCat3.scaffold_217398 99999999999999---999---999---------99--9999998--------787988869688585-----8969--8878769--------------99986567488856585
+i felCat3.scaffold_217398 C 0 I 9
+s canFam2.chr1 78205382 71 - 125616256 aaaaaaagtaaatt---a-c---caa---------at--ttttcat--------atttactatgtgtgg-----aagt--gactatt--------------ttgggtatgttgggtta
+q canFam2.chr1 99999999999999---9-9---999---------99--9999999--------999999999999999-----9999--9999999--------------99999999999999999
+i canFam2.chr1 C 0 I 213
+s monDom4.chr2 106164916 83 - 541556283 -aagatgttgaagt---ggt---ttg---------ctatttccttctccagctgattttacagatcagg-----aaactgaggtaaa--------------caggattaagtaacttc
+q monDom4.chr2 -9999999999999---999---999---------9999999999999999999999999999999999-----9999999999999--------------99999999999999999
+i monDom4.chr2 I 2181 C 0
+e sorAra1.scaffold_256646 36829 555 - 121936 I
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=386118.000000
+s mm9.chr10 3136509 146 + 129993255 ctaa----aattaactccaactgtttactt------tttattttct----gaattagggcttct--aCGTTTAGTGGTAACATG----GC--TCAGG-CTTATGGCTCATATTCTATCTTTGTT-TATGGTACTGTTCTAGTC-TCATGAA---------GAGGTGTCAGAGG--ATCACGC
+s bosTau3.chr9 13655610 136 - 95030419 -------------------actgtgt-atg------tttaccctct----gaaaggtggctcctgaaaaatgtgaagttacacaggtggc--tgact-tctgtagctcccattgtatttccg-tggacagtgttgCTCCGGAGTGAA--AG---------AAAGGGTTA-AACTTACCAGTC
+q bosTau3.chr9 -------------------9999999-999------9999999999----9999999999999999999999999999999999999999--99999-999999999999999999999999-999999999999999999999999--99---------999999999-999999999999
+i bosTau3.chr9 C 0 I 2
+s equCab1.chr31 12998758 149 + 24938454 ttaa----agttaacttcacctcttt-att------cttaccttct----taaatatggctcctaaaaactgaaaatt---gcatgaggc--tcaca-tttgtggcttgcattgtatttctattggacagtactACTCCAGAG-TAG--GG---------AAAGGGTTACAATTTATCACTC
+q equCab1.chr31 9999----999999999999999999-999------9999999999----9999999999999999999999999999---999999999--99999-999999999999999999999999999999999999999999999-999--99---------9999999999999999999999
+i equCab1.chr31 I 14 I 2
+s felCat3.scaffold_217398 66342 153 - 219823 ttaa----cattaacttcacccgttt-att------tttatcttct----taattgtggctcctaaaaaatggaaaattacacctgtgac--tcaca-tttgtgacctgcagtatacttctgttggacagtactgCTCATGGGCTAC--AG---------AAAGGGTTACAGTTTATCGCTC
+q felCat3.scaffold_217398 5858----555866557645765585-747------8867664664----7553764575757559897645857864766367675553--55335-5745535224533436444466464446533434646455559876543--38---------5749943787399999999999
+i felCat3.scaffold_217398 I 9 I 2
+s canFam2.chr1 78205666 152 - 125616256 ttaa----aattaacttcacctactt-att------tttatcttct----taattgtggctcctaaaaaatggaaaattagacatgtgcc--tcaca-ttTGTGCCCTGCAGTGTATTTCTGTTGGAGCATACTGCTCCAGAG-TAA--AG---------AAGGGGTTACAGTTTATCAGTC
+q canFam2.chr1 9999----999999999999999999-999------9999999999----9999999999999999999999999999999999999999--99999-999999999999999999999999999999999999999999999-999--99---------9999999999999999999999
+i canFam2.chr1 I 213 I 2
+s sorAra1.scaffold_256646 37384 152 - 121936 CCGA----AGTGAACTGTGCCCGTTT-TCTCTTCGCTTTTCCTTCT----CAAATGCGGCTCCT-ACCCTTCAAAAGTCCCACACCTGGC--CCCCA-TCTGGGCCTGGCATTGTATTTCTGTTGGCCTTGGCCGCTGCCAAG-----------------AAGGGGTTACAGTTTATCATGC
+q sorAra1.scaffold_256646 9999----999999999999999999-9999999999999999999----99999999999999-9999999999999999999999999--99999-999999999999999999999999999999999999999999999-----------------9999999999999999999999
+i sorAra1.scaffold_256646 I 555 I 1
+s tupBel1.scaffold_114895.1-498454 328472 144 - 498454 CTAA----ATTTAACTTTATCTGTTT-ATT------TTTACCTTCT----TAAATACGGCTCCTAGAAAATCT------ATGTAT--GAC--TCCCA-TTCACGGATTCCGCTGTATTGCTGTCGGACAGTATTGCCCTAGAG-TAA--AG---------AAAGGGTTACATCCTACCACTC
+q tupBel1.scaffold_114895.1-498454 9999----999999999999999999-999------9999999999----99999999999999999999999------999999--999--99999-999999999999999999999999999999999999999999999-999--99---------9999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 2
+s otoGar1.scaffold_334.1-359464 299686 136 - 359464 ctaa----aa-----ttcaactgatt-att------tttaccttctgaaataaatatggcttctagaaaatttaaaattacacgt--ggc--tcaca--------------ttatatttctgtCCGTTATTACTGCCCTGGAG-TAG--GA---------AAAGGGTTACAGCTTATCACGG
+q otoGar1.scaffold_334.1-359464 9999----99-----99999999999-999------9999999999999999999999999999999999999999999999999--999--99999--------------99999999999999999999999999999999-999--99---------9999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig23414 6598 139 + 7547 -taa----aacaaacttcacctgtct-att------tttgccttct----taaatatgactcctagaaaatctaaaattacacat--ggc--tcacattttgtggtttccatt-----------ggacagttctgCTGGAGAG-GAA--AG---------AAAGGGTTACATCTTAACACGC
+i calJac1.Contig23414 C 0 C 0
+s rheMac2.chr4 108436515 142 + 167655696 CTAA----AATAAACTTCACCTGTTT-ATT------TTTACCTTCT----TACATATGTTTCCTAGAAAATCTAAACTTACACGT--GGC--TCATA-TTTGTGGCTTCCACTGTATTTCTA--------TTCTGCTGTAGAG-GAA--AG---------AAAGGGTTACATCTTATCACCC
+q rheMac2.chr4 9999----999999999999999999-999------9999999999----99999999999999999999999999999999999--999--99999-999999999999999999999999--------9999999999999-999--99---------9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16333990 146 - 174210431 ctaa----aataaacttcacc----t-att------tttaccttct----tacatatgtcccctagaaaatctaaaattacacag--ggc--tcaca-tttgtggcttccattatatttctattggacagttctgCTGTAGCG-GAA--AG---------AAAGGGTTACATCTTATCACCC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16551273 150 - 173908612 ctaa----aataaacttcacctgttt-att------tttaccttct----tacatatgtctcctagaaaatctaaaataacacag--ggc--tcaca-tttgtggcttccattatatttctattggacagttctgCTGTAGCA-GAA--AG---------AAAGGGTTACATCTTATCACCT
+q panTro2.chr6 9999----999999999999999999-999------9999999999----99999999999999999999999999999999999--999--99999-999999999999999999999999999999999999999999999-999--99---------9999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16028926 150 - 170899992 ctaa----aataagcttcacctgttt-att------tttaccttct----tacatatgtctcctagaaaatctaaaataacacag--ggc--tcaca-tttgtggcttccattatatttctattggacagttctgCTGTAGCA-GAA--AG---------AAAGGGTTACATCTTATCACCC
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_197619 36612 145 + 79436 ctaa----atctgacttcgcctgtgt-att------cttagcttct----tgagtgtgcctgctagggaatttgggggcacacac---gc--tca-c-attgaggcgtagattgtatttctgttgaatagtactgCTTTGGAG-TAA--AG---------GAAAGGTTACAGC---TCATGC
+q oryCun1.scaffold_197619 9999----997699899899959999-999------7999899997----68997989978899879999996799989999999---99--999-9-978787869999996999999978968999999999999959999-999--99---------9999999999999---999999
+i oryCun1.scaffold_197619 C 0 I 2
+s cavPor2.scaffold_286578 127921 147 - 133272 GTAATCCGGATTAACTTCGCctattc-ctt------tttcccttct----aAA-TATGGCCCCTA-AAAGTTTGTAGTTGCATA----GCGGTCA-C-TTTGTAGCTTCTGTTCTAGTTGTGCTGGACAGTACTAT----GTG-TCGTAAG---------GAAAGGTTACTGC--ATCTTCC
+q cavPor2.scaffold_286578 99999999999999999999999999-999------9999999999----999-99999999999-999999999999999999----9999999-9-99999999999999999999999999999999999999----999-9999999---------9999999999999--9999999
+i cavPor2.scaffold_286578 C 0 I 6
+s rn4.chr1 229954216 147 - 267910886 ctaa----aatgaattccagccatttactt------tttattttct----taattatggcctct--acagtttgtggtaacatg----gc--tcagg-cttgtggcccacgttctctttctgttgtatggtactgTTCTAGTC-TCATGAA---------GAGGTGACAGAGG--ATCATGC
+q rn4.chr1 9999----9999999999999999999999------9999999999----99999999999999--999999999999999999----99--99999-999999999999999999999999999999999999999999999-9999999---------9999999999999--9999999
+i rn4.chr1 C 0 C 0
+s monDom4.chr2 106164999 138 - 541556283 atat----agttagtt--aagtgtct-cag------gccagatttg----aaattgggtcttct--tgactccagacccagaactatgcc--acata-gctg-----cccAATAT---TCTGTTTACTAGTAGTAAATTGAAA-CAT--AAATACCAGTTAAAAGATTAAA-----------
+q monDom4.chr2 9999----99999999--99999999-999------9999999999----99999999999999--999999999999999999999999--99999-9999-----99999999---9999999999999999999999999-999--9999999999999999999999-----------
+i monDom4.chr2 C 0 C 0
+e dasNov1.scaffold_15233 40855 2790 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=1420549.000000
+s mm9.chr10 3136655 230 + 129993255 TGGCTTTCCTGTGGCTCTGCCAGA--------CT----TGATAAGGT---AACAGAAAAATGGTTAACAGGCACACAGGAGAGA-----GAGAGA----------------------GGCCCTCTCTCCC--------------CT-------TTG---------------TT----------TTTTCCTTCAT-TT-----CTCTTAGAA-----G-------------------------GGAGAAAAATGTTAATTCTCATCCTATTATTGTCATTG----------ATTT-AAAAGGAAGAAATG-T--TAAAACACATTTTGGG------GTACCTTTGGCTTTAAGGCTTGGTTGAGGATA-CTTTCAT
+s rn4.chr1 229954363 239 - 267910886 TGGCTTTCCTGTGGCTCTGCCAGA--------CT----TGATAAGGT---AATAGAAAAGTGG-TAACAGGCACATAGGAGATA-----GACAGACAGGCAGACCTCAGATAGGCAGACCTCTCTCTTCC--------------TT-------TTG---------------TT----------TTTCCCTTCATCTT-----CTCTTAGAT-----G-------------------------GAAAGAAAATGTTAATTCTCATCCTATTATTATTATTG----------ACTT-AAAAGGAAGAAATG-T--TGTTAAATA-------------------TTGGCCTTATGGCTTGGTTGAGGTTG-CTTTCAT
+q rn4.chr1 999999999999999999999999--------99----999999999---9999999999999-99999999999999999999-----99999999999999999999999999999999999999999--------------99-------999---------------99----------99999999999999-----999999999-----9-------------------------99999999999999999999999999999999999999----------9999-99999999999999-9--999999999-------------------99999999999999999999999999-9999999
+i rn4.chr1 C 0 I 228
+s cavPor2.scaffold_286578 128074 260 - 133272 TGGCTTTTCCAAGGCTCTGCTGGT--------CTG--CTGATAATGTACAACCAGAAAGATGG-TGACAGGCGCATTAGGAAGATTATGGAGTGA----------------------GATCTTCACACCCTCcagat-------tt-------gtg---------------tc----------tttttttgggT-CC-----CTCTTGGGATTGGGA-------------------------GAAGGAAAGTGTAAATTCACATCCTGTTATATTTGTTTAAC-------ATTT-AAAAGAAGAGtaaa-t--taaaacatgtttttagTATCCAGTTTCTTCAATGTTGTGGCTTAGTTGAGATGA-CTTTCAT
+q cavPor2.scaffold_286578 999999999999999999999999--------999--99999999999999999999999999-9999999999999999999999999999999----------------------99999999999999999999-------99-------999---------------99----------99999999999-99-----999999999999999-------------------------99999999999999999999999999999999999999999-------9999-99999999999999-9--999999999999999999999999999999999999999999999999999999-9999999
+i cavPor2.scaffold_286578 I 6 C 0
+s oryCun1.scaffold_197619 36759 269 + 79436 TGGTTCTCCTGTGTCTCTGCCAGC--------CTTACTTGATCATGTACAACCAGGAAACTGG-TATTGGGCAC-TCGGGAAGATTATGGAGTGA----------------------GATCTTCACACTCTCTAAATTGGTGTCTT-------TTT---------------TT----------TTTTTTCCCAT-CC-----CTCTTGGGATTGAGA-------------------------GAGGAGAGGTATAAATTCACATCGTGTTATGTTTGCTTAGT-------ATTT-GAAAGGGAGAGCTGAT--TAAAATGTGCTTTTGGCGTCCACCTGCCTTGACTTTGTGACTTAGCTGAGGTCG-CTTTCAT
+q oryCun1.scaffold_197619 999999999998999999999999--------9999999999999999999999999999799-9998999999-99999999999979999899----------------------99999999999999999999899999999-------999---------------99----------99999999999-99-----999999999999999-------------------------99999989999999999999999999999999999999999-------9999-9999999999999999--999999999999999999999999999999999999999999999999999999-9999999
+i oryCun1.scaffold_197619 I 2 C 0
+s hg18.chr6 16029076 280 - 170899992 TGGCTTTTCTGAGCCTCTGCCAGC--------TT-AGTTGATAATGTACAATCAGAAAAATGG-TAACAGGCGC-ACAGGAAGATTATGGAGTGA----------------------GATCTTCACACCCTCAAGATTTGTGTCTG-------GTTttgttgttgttgttgtt----------gttgtttttgt-CC-----CTCTTGGGATTGGAA-------------------------AAGGAGAAGCGTAAAATCACATCCTGTTATGTTTGTTGAGT-------ATTT-AAAAGGGAAAGTAGAT--TAAAAC--GTTTTTGTTAGCCAGTTGCCTTGACGTTATCAGTTAGTTGAG-TTA-CTTTCAT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16551423 280 - 173908612 TGGCTTTTCTGAGCCTCTGCCAGC--------TT-AGTTGATAATGTACAATCAGAAAAATGG-TAACAGGCGC-ACAGGAAGATTATGGAGTGA----------------------GATCTTCACACCCTCAAGATTTGTGTCtg-------tttttgttgttgttgttgtt----------gttgtttttgt-CC-----CTCTTGGGATTGGAA-------------------------AAGGAGAAGTGTAAAATCACATCCTGTTATGTTTGTTGAGT-------ATTT-AAAAGGGAAAGTAGAT--TAAAAC--GTTTTTGTTATCCAGTTGCCTTGACGTTATCAGTTAGTTGAG-TTA-CTTTCAT
+q panTro2.chr6 999999999999999999999999--------99-9999999999999999999999999999-9999999999-99999999999999999999----------------------99999999999999999999999999999-------99999999999999999999----------99999999999-99-----999999999999999-------------------------99999999999999999999999999999999999999999-------9999-9999999999999999--999999--999999999999999999999999999999999999999999-999-9999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16334136 268 - 174210431 TGGCTTTTCTGAGCCTCTGCCAGC--------TT-AGTTGATAATGTACAATCAGAAAAATGG-TAACAGGCAC-ACAGGAAGATTATGGAGTGA----------------------GATCTTCACACCCTCAAGATTTGTGTCTG-------ttt---------tttttttt----------tttttttttGT-CC-----CTCTTGGGATTGGAA-------------------------A---AGAAGTGTAAAATCACATCCTGTTATGTTTGTTGAGT-------ATTT-AAAAGGGAAAGTAGAT--TAAAACGTGTTTTTGTTATCCAGTTGCCTTCACGTTGTGAGTTAAC--AG-TTA-CTTTCAT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108436657 272 + 167655696 TGGCTTTTCTGAGCCTCTGCCAGC--------TT-AGTTGATAACGTACAACCAGAAAAATGG-TAACAGGCAC-ACAGGAAGATGATGGAGTGA----------------------GATCTTCACACCCTCAAGACTT-TGTCTT-------TTT---------TTTTTTTT----------TTTTTTTTTGT-CC-----CTCTTGGGATTGGAA-------------------------AAGGAGAAGTGTAAAATCACATCCTGTTATGTTTGTTGAGT-------ATTT-AAAAGGGAGAGTAGAT--TAAAGCATGTTTTTG-TATCCAGTTGCCTTGATGTTATGAGTTAGTTGAGATTA-CTTTCAT
+q rheMac2.chr4 999999999999999999999999--------99-9999999999999999999999999999-9999999999-99999999999999999999----------------------9999999999999999999999-676766-------766---------99999999----------99999999999-99-----999999999999999-------------------------99999999999999999999999999999999999999999-------9999-9999999999999999--999999999999999-99999999999999999999999999999999999999-9999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 6737 260 + 7547 TGGCTATTCTGAGCCTCTGCCAGC--------TT-AGTTGATAATGTACAACCAGAAAAATGG-TA---------ACAGGAAGATTCTGGAGTGA----------------------GATCTTCACA--CTTGAGATTTTCATCTT-------TTT---------------TT----------GTTGTTGTTGT-TC-----CTCTTGGGATTGGAA-------------------------GAGGAGAAGTGTAAATTCACATCCTGTTGTATTTGTTGAGT-------ATTT-AAAAAGGAGTGTAGATTATAAAATGTGTTTTTGGTATCCAGTTGCCTGGACGTTATGAGTTAGTTGAGATTA-CTTTCAT
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 299822 271 - 359464 TGGCTTTCCTGCACC-CTGCCTGC--------CT-ACTTGATAATGTACAACCAGAAAAGTGG-TCGCAGGCAC-ACAGAAACATCATGGAGTGA----------------------GATCTTCACACCCTCAAGATTTGtctctc-------tct----------ctctctc----------tctctctttgt-cc-----ctctTGGGACTGGGA-------------------------GAGGAGAAGTGTAAATTCACATCCTGTT-TATTTGTTTAGC-------ATTT-AAAAGGAAGAGCAGAT--GAAAACATGATTTTGGTATCCAGTTGCCTTGATGTTATGACTTAGTTGAGATTG-CTTTTGT
+q otoGar1.scaffold_334.1-359464 999999999999999-99999999--------99-9999999999999999999999999999-9999999999-99999999999999999999----------------------99999999999999999999999999999-------999----------9999999----------99999999999-99-----999999999999999-------------------------9999999999999999999999999999-999999999999-------9999-9999999999999999--999999999999999999999999999999999999979889997399999999-9999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 328618 258 - 498454 TGGCTTTCCCGAGCCTCTGCCAGC--------CT-CCTTGATAATGTATGGCCCGGAAAGTGC-TAACAGGCAC-ACAGGAAGATTACGGAGTGA----------------------GGTCTTCACGCCCCTAAGATTTGTCTTTT-------TTT-------------------------------TTTTGGT-CT-----CTCTTGGGATTGCGA-------------------------G---AGTAGTGCAAATTCACATCTCGTTCTGCTTGTTTAGC--------TTT-AAAAGAAAGAAGAGAT--AAAAATGTGTTTTTGGTATCCAATTTCTATGGTGATCTGACTTAGTTGAGATTA-CTTTCAT
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999--------99-9999999999999999999999999999-9999999909-99999999999999990999----------------------99999999999999999999999999999-------999-------------------------------9999999-99-----999999999999999-------------------------9---9999999999999999999990999999999999999--------999-9999999999999999--999999999999999999999999999999999999999999999999999999-9999999
+i tupBel1.scaffold_114895.1-498454 I 2 C 0
+s sorAra1.scaffold_256646 37537 283 - 121936 -GGCTTTCCTGGGCCTCTGCCAGC--------AC-ACTTGATAACGCACAAGCAGAAAACTGG-TAACAGGCAC-ACAGGAAGATTATGGGGTGT----------------------GATCTTCACACCCTCATGATTTGtgtcttgaaaaaaatt---------------ttgttgttgttgttgtttcaggt-CC-----CTTTTGGGATGAGGA-------------------------GAGGGGAAGTGTAAATTTACAtcctgttctgtttgtttggc-------aTGC-CAAAGGAAGAACAGTT--GAAAAT--GTGGGCGGTGTCCAGGGGCTGTGACGTTCTGACTCGGTTGAGATCGCCTTTCAT
+q sorAra1.scaffold_256646 -99999999999999999999999--------99-9999999999999999999999999999-9999999999-99999999989999999999----------------------999999979999999999979999999799999999979---------------99999989999999999998597-99-----999999999999799-------------------------89899999799999999989799999999898999999999-------8999-9899999989999999--999999--999999999999989999999999999999999999999999999999999999
+i sorAra1.scaffold_256646 I 1 C 0
+s canFam2.chr1 78205820 244 - 125616256 TGGCTTTCCTACGCCCCTGCCAGC--------CT-ACTTGATAATGTACAACTAGAAAAATGG-TAACAGGCAC-ACAGGAAGGTTTTGGAGTGA----------------------GATCTTCACACCCTCAAGATTCATGTCTT-------ATT---------------TT-----------------------------TTTTTTTTTTT------------------------------TGGAGAAGTGTAAATTCACATCCTGTTATGTTTACTTAGT-------ATCT-AAAAGGAAGAGCAGAT--TCAAAG--GTTTTTGGTATCCAATTGCCTTGACGTTATGAC----CTGAGATTT-CTTTCAT
+q canFam2.chr1 999999999999999999999999--------99-9999999999999999999999999999-9999999999-99999999999999999999----------------------99999999999999999999999999999-------999---------------99-----------------------------99999999999------------------------------9999999999999999999999999999999999999999-------9999-9999999999999999--999999--999999999999999999999999999999999----999999999-9999999
+i canFam2.chr1 I 2 C 0
+s felCat3.scaffold_217398 66497 257 - 219823 TGGCTTTCTTCAGCTTCTGCCAGC--------GT-ACTTGATAATGTACAACTAGAAAAATGG-TAACAGGCAC-ACAGGAAGATTATGGAGTGA----------------------GATCTTCACACCCTCAAGATTGGTGTCTT-------TTT---------------TT----------------GCGGG-GGGGGGGCTCTTGGGATT------------------------------GGGAGAAGTGTAAATTCACATCCTGTTATGTTTGTTTAGC-------ATCTAAAAAGGAAGAGCAGAT--TAAAAG--GTTTTTGGTCTCCAGTTGCGTTGACGTTATGAC----TTGAGATTG-CTTTCAT
+q felCat3.scaffold_217398 999999999983999999999699--------99-9999999999999999999999999999-9999999999-99999999999999999999----------------------99999999999999999999999999999-------999---------------99----------------99999-999999999999999999------------------------------9999999999999999999999999999999999999999-------999999999999999999999--999999--999999999999999999999999999999999----999999999-9999999
+i felCat3.scaffold_217398 I 2 C 0
+s equCab1.chr31 12998909 257 + 24938454 TGCTTTTCCTGATCCTCTGCCAGC--------CT-ACTTGATAATGTACAACCAGAAAAATTG-TAACAGGCAC-ACGGGAAGATTATGGAGTGA----------------------GATCTTCACACCTGCAAGATTTGTCTTTT-------TTT---------------TT----------------TTGGT-CC-----CTCTTGGGACT---G-------------------------AGGGAGAAGTGTAAATTTACATCCTGTTATGTTTGTTTAGC-------ATTT-AAAAGGAAAAGCAGAT--TAAAAT--GCTTTTGGTGTCCCATTGCCTTAACGTTCTGACTTCGTTGAGATTG-CTTTTAT
+q equCab1.chr31 999999999999999999999999--------99-9999999999999999999999999999-9999999999-99999999999999999999----------------------99999999999999999999999999999-------999---------------99----------------99999-99-----99999999999---9-------------------------99999999999999999999999999999999999999999-------9999-9999999999999999--999999--9999999999988888888888888888999999999999999999-9999999
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13655748 261 - 95030419 TGGCTTTCCTGAGCAGTTGCCAGC--------CT-ACCTGATAATGTACAACCAGAAAAGCAG-TAACAGGCAC-ACAGGGGGATTTTG----GA----------------------GGTCTTCACACTCTCAAGATTTTTGTCTT-------TTT---------------TT--------TTTTTTTTTTGAT-CC-----CCCTTGGGATT---G-------------------------GGAGAGAAGTGTAAATTCACAATCTGTTATGCTTGTTTAGC-------ATTT-AAAAGGCAGAGCAGAT--TAAACT--GCTTTTGGGATCCTGCTGCCTTGACATTGTGACTTAGTTGAGACTG-CTTTCAC
+q bosTau3.chr9 999999999999999999999999--------99-9999999999999999999999999999-9999999999-99999999999999----99----------------------99999999999999999999999999999-------999---------------99--------9999999999999-99-----99999999999---9-------------------------99999999999999999999999999999999999999999-------9999-9999999999999999--999999--9999999999999999999999999999999999999999999999-9999999
+i bosTau3.chr9 I 2 C 0
+s dasNov1.scaffold_15233 43645 242 + 62638 TGGCTTTCCTGA------GCCCGC--------CT-ACTTGATCGTGTACAACTTGAAAAATGC-AAACAGGCAC-ATAG----ATTATGGAGTGA----------------------GATCTTCACACCCTTAAGATTTGTGCCTC-------CCC---------------CC----------TC----------CT-----CCTTTGGGAATGGGA-------------------------GAGGAGAAGTGTAAATTCACATCCTGTTATGTTTGCTCAGC-------TCTA-AAAAGGAAGAGCACAT--TAAAATGTGTTTTTGGCACCCAGTTGTCTTGATGTTTTG-------TGACTTTG-CTTTCAT
+q dasNov1.scaffold_15233 999999999999------999999--------99-9999999999999999999999999999-9999999999-9999----999999999999----------------------99999999999999999999999999999-------999---------------99----------99----------99-----999999999999999-------------------------99999999999999999999999999999999999999999-------9999-9999999999999999--999999999999999999999999999999999999999-------99999999-9999999
+i dasNov1.scaffold_15233 I 2790 C 0
+s monDom4.chr2 106165137 286 - 541556283 ---TCTTGTGGAGCAGCTATTAACTCCTTTTTCT-GGTTATAAATCCATGACCAG-------G-TAACAGGCATGTAAGTGGGACAATGTAGTGA----------------------GACCTTCTC--CTTCAAGACATGTGTACC-------TGT---------------AT----------GTTTGTTT----TC-----CCTTTGGGACTGGGGTGGTGGATATGGATGTGGGGGTGGTAAAGTGGGGTGTAAATTTACTTCCTGTT-----TGTTCAATGTGATCAGTTG-AAAAGGAAGAGCAGAT--TAAAAT--ATTTTTGGCATCAGGTTGCCTTGACATTATGAC-AAACTAAGATTT-CTCTCTT
+q monDom4.chr2 ---9999999999999999999999999999999-99999999999999999999-------9-9999999999999999999999999999999----------------------999999999--999999999999999999-------999---------------99----------99999999----99-----99999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999-9999999999999999--999999--999999999999999999999999999999999-999999999999-9999999
+i monDom4.chr2 C 0 C 0
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=267570.000000
+s mm9.chr10 3136885 38 + 129993255 CTAGGAAAACTCTTGTGCTGCCCTGAAC-GAGCAGTC-GT
+s rn4.chr1 229954830 38 - 267910886 cTAGAAAAACTTTTGTGCTGCCCTGAAG-GAGAGCAG-CC
+q rn4.chr1 9999999999999999999999999999-99999999-99
+i rn4.chr1 I 228 C 0
+s cavPor2.scaffold_286578 128334 38 - 133272 CTAGGAAAAGTTTTCTGTGGACCTGAAG-AAGCAAGT-AT
+q cavPor2.scaffold_286578 9999999999999999999999999999-99999999-99
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 37028 38 + 79436 CTGGGAGATGTTTTTAGCTGACCTCAAA-GAGCAGCT-CC
+q oryCun1.scaffold_197619 9999999999999999999999999999-99999999-99
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16029356 38 - 170899992 CTAGGAAAAGTTTTCTCCTGACCTGAAA-GAACATCT-AT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16551703 38 - 173908612 CTAGGAAAAGTTTTCTCCTGACCTGAAA-GAACATCT-AT
+q panTro2.chr6 9999999999999999999999999999-99999999-99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16334404 37 - 174210431 CTAGGAAAAGTTTTCTCCTGACCTGAAA-GAA-ATCT-AT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108436929 39 + 167655696 CTAGGAAAAGTTTTCTCCTGACCTGAAACGAGTATCT-AT
+q rheMac2.chr4 9999999999999999999999999999999999999-99
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 6997 38 + 7547 CTAGGAAAAGTTTTCTCCTGACCCGAAA-GAACTACT-AT
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 300093 37 - 359464 CTAGGAAAAGTTTTCCACTGACCTGAAA-AGG-GACT-GT
+q otoGar1.scaffold_334.1-359464 9999999995799899899967978999-978-8438-85
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 328876 38 - 498454 TTAGGAAAAGTTTTCTACCGACCTGAAA-GAGCAACT-AC
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999-99999999-99
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 37820 39 - 121936 CTGGGGAAAATTTCCTACTGACCCGAGA-GAGCAATTAAT
+q sorAra1.scaffold_256646 9999999999999999999999999999-99999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78206064 38 - 125616256 CCAGGGAAAGTTTCCTACTGACGTGAAA-GAGTAGTT-AT
+q canFam2.chr1 9999999999999999999999999999-99999999-99
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 66754 38 - 219823 CTAGAGAAAGTTTCCTACTGACCTGAAA-GGGCAATT-AT
+q felCat3.scaffold_217398 9999999999999999999999999999-99999999-99
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 12999166 38 + 24938454 CTAGGGAAAGTTTCCTACTGACCTGAAA-GAGCAATG-AC
+q equCab1.chr31 9999999999999999999999999999-99999999-99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13656009 38 - 95030419 TGGGGGAAAGTTTCCTATTGGCCTGCAA-GAGCAGTT-AT
+q bosTau3.chr9 9999999999999999999999999999-99999999-99
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_15233 43887 38 + 62638 CTAGGGAAAGTTTCCTACTGACCACACA-GAGCAGTT-GC
+q dasNov1.scaffold_15233 9999999999999999999999999999-99999999-99
+i dasNov1.scaffold_15233 C 0 C 0
+s monDom4.chr2 106165423 37 - 541556283 -TGAAGAAAGTTCCCAGCCAACCTGAAA-GAGCATTT-AT
+q monDom4.chr2 -999999999999999999999999999-99999999-99
+i monDom4.chr2 C 0 I 9847
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=104171.000000
+s mm9.chr10 3136923 53 + 129993255 GGTGGTCGA---G-------CTCAGGACCCCGGATGTTCACTC----------------ATTTTAGGTTACATA-CTGTG
+s rn4.chr1 229954868 57 - 267910886 TGGCCCTGAGTGG-------CTCAGGACCCTGGATGCTCACTC----------------TTTTTAGGTTACATATCTGTG
+q rn4.chr1 9999999999999-------99999999999999999999999----------------999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 128372 21 - 133272 GGTTG-------C-------CTCAGTACCTTTGAT---------------------------------------------
+q cavPor2.scaffold_286578 99999-------9-------999999999999999---------------------------------------------
+i cavPor2.scaffold_286578 C 0 I 102
+s oryCun1.scaffold_197619 37066 44 + 79436 TGGTG-------G-------CTCAGTACCTTTGAT------GC----------------TTCTTGGGTTACATCCCTGTG
+q oryCun1.scaffold_197619 99989-------9-------999999999999999------99----------------999999999999989999999
+i oryCun1.scaffold_197619 C 0 I 64
+s hg18.chr6 16029394 44 - 170899992 GGCTG-------G-------CTCAATACCTACGAT------AC----------------TTACTAGGTTACATACCTGTG
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16551741 44 - 173908612 GGCTG-------G-------CTCAATACCTATGAT------AC----------------TTACTAGGTTACATACCTGTG
+q panTro2.chr6 99999-------9-------999999999999999------99----------------999999999999999999999
+i panTro2.chr6 C 0 I 1
+s ponAbe2.chr6 16334441 44 - 174210431 GGCTG-------G-------CTCAATACCTACGAT------AC----------------TTACTAGGTTACATACCTGTG
+i ponAbe2.chr6 C 0 I 1
+s rheMac2.chr4 108436968 44 + 167655696 GGCTG-------G-------CTCAATACCTACGAT------AC----------------TTATTAGGTTACATACCTGTG
+q rheMac2.chr4 99999-------9-------999999999999999------99----------------999999999999999999999
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig23414 7035 44 + 7547 GGCTG-------A-------CTGGAAACCTTCGAT------AC----------------TTACTAGATTACATACCTGTG
+i calJac1.Contig23414 C 0 I 1
+s otoGar1.scaffold_334.1-359464 300130 38 - 359464 GGCTG-------G-------CTCAGTACCTCGGAT----------------------------TAGCTTACATACCTGTG
+q otoGar1.scaffold_334.1-359464 85475-------6-------468654535757473----------------------------57666655566755657
+i otoGar1.scaffold_334.1-359464 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 328914 46 - 498454 AGCCT-------A-------CCCAATACCTTGGAT------AC-T-------------TTTATTAGGTTACATACCTGTG
+q tupBel1.scaffold_114895.1-498454 99999-------9-------999999999988999------99-9-------------9999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s sorAra1.scaffold_256646 37859 53 - 121936 GGGTG-------G-------CTC-------CGGTG------CCAAGGAGCACTGGAGACCGATTCGATTACATACCTGTG
+q sorAra1.scaffold_256646 99999-------9-------999-------99999------999999999999999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 I 1
+s canFam2.chr1 78206102 59 - 125616256 GAGTG-------G-------TTTGATATCTTGGTA------TC-AGGAGCACTGGACACTGATTAGGTTACATACCTGTG
+q canFam2.chr1 99999-------9-------999999999999999------99-999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 1
+s felCat3.scaffold_217398 66792 59 - 219823 CAGCA-------G-------TTCAATACCTTGGTA------TC-AGGAGCTCTGGCTGCTGATTAAGTTACATACCTGTG
+q felCat3.scaffold_217398 99999-------9-------999999999999999------99-999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 1
+s equCab1.chr31 12999204 59 + 24938454 GGGTG-------C-------TTCGGTATCTTGGTG------TC-TGGAGCATTAGTTACTGACTAGGTTACATACCTGTG
+q equCab1.chr31 99999-------9-------999999999999999------99-999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13656047 66 - 95030419 GGGTG-------GTTCAGTTTTCAGTGTCTTGATG------TC-TGGAGCATTGGGTGCTGATTAGGGTACATACCTGTG
+q bosTau3.chr9 99999-------99999999999999999999999------99-999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 1
+s dasNov1.scaffold_15233 43925 40 + 62638 GGGTA-------G-----------AAAGCACTGAA------CT----------------TGATTAGGTTGCATTCCTGTG
+q dasNov1.scaffold_15233 99999-------9-----------99999999999------99----------------999999999999999999999
+i dasNov1.scaffold_15233 C 0 I 1
+e monDom4.chr2 106165460 9847 - 541556283 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=148652.000000
+s mm9.chr10 3136976 80 + 129993255 ATGGC-------AACATCCAAG-ATTGGCCTGGATGCTTTGCATTAGAAT-CTT--------------------------------------------------------TAAATACATACATACATACAAGAAGTAGGTAAGTT
+s rn4.chr1 229954925 81 - 267910886 GTGGCACTTGGTAGCATCCTAG-GAAGACCTGGATACTTCGTGTTAGAAT-CTT--------------------------------------------------------caa------acaaacaagcaaacaaacaagcaaac
+q rn4.chr1 9999999999999999999999-999999999999999999999999999-999--------------------------------------------------------999------99999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16029439 64 - 170899992 TTGGCACTTGACTACGTTATACAAAATGCCTGTGCCCT-----TTTGGAC-CCT--------------------------------------------------------GAA--------ATACAGCTTAGTA-----------
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16551786 64 - 173908612 TTGGCACTTGACTACATTATACAAAATGCCTGTGCCCT-----TTTGGAC-CCT--------------------------------------------------------GAA--------ATACAGCTTAGTA-----------
+q panTro2.chr6 99999999999999999999999999999999999999-----9999999-999--------------------------------------------------------999--------9999999999999-----------
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16334486 64 - 174210431 TTGGCACTTGGCTATGTTATACAAAATGCCTGTGCCCT-----TTTGGAC-CCT--------------------------------------------------------GAA--------ATACAGCCTAGTA-----------
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108437013 63 + 167655696 TTGGCACTTGGCTACATTACAC-ATTTGCCTGTGCCCT-----TTTGGAC-CCT--------------------------------------------------------GAA--------ATACAGCCTTGTA-----------
+q rheMac2.chr4 9999999999999999999999-999999999999999-----9999999-999--------------------------------------------------------999--------9999999999999-----------
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig23414 7080 119 + 7547 CTGGCATTTGGCTACGATATACAAAATTCTTGTGCCCT-----TTTGGAC-CCTGAAGTACAGCCTAGTAGAAAGTCCTGGATACTTTCAGTGTTCGAATCTAAAAAAGATAA--------AAGCAGCC-AGTG-----------
+i calJac1.Contig23414 I 1 C 0
+s otoGar1.scaffold_334.1-359464 300169 64 - 359464 CTAGCACTGGATAACTTTATTCGAAATGTTCCTGCCCT-----TTTGGAC-CCT--------------------------------------------------------GAA--------GTACAGCCCCATA-----------
+q otoGar1.scaffold_334.1-359464 57565455755475569675454697565551542755-----7774621-766--------------------------------------------------------525--------5235555766366-----------
+i otoGar1.scaffold_334.1-359464 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 328961 63 - 498454 CAAACACTTGGCAACTTTCTACAAAATGCTTGTGCCCT-----TTTGGAT-CCT--------------------------------------------------------GAA--------GTTT-GCCTGGTA-----------
+q tupBel1.scaffold_114895.1-498454 99999999997786999999999999999999999999-----9999999-999--------------------------------------------------------999--------9999-99999999-----------
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s sorAra1.scaffold_256646 37913 65 - 121936 CTGGCACTCAGCAACTTTATACGGAACGCGTGTGCCTC-----TGGGGGGACCC--------------------------------------------------------TAA--------GTACAACCTCATA-----------
+q sorAra1.scaffold_256646 99999999999999999999999999999999999999-----99999999999--------------------------------------------------------999--------9999999999999-----------
+i sorAra1.scaffold_256646 I 1 I 2
+s canFam2.chr1 78206162 63 - 125616256 TTAGCATGTGGCAACTTGATACAGAATGCTTGCACCCT-----TTTGGAC--CT--------------------------------------------------------TAA--------GTACAGCCTCATA-----------
+q canFam2.chr1 99999999999999999999999999999999999999-----9999999--99--------------------------------------------------------999--------9999999999999-----------
+i canFam2.chr1 I 1 I 2
+s felCat3.scaffold_217398 66852 64 - 219823 TTAGCATGTGGCAACTTTATACAGAATGCTTGTGCCCT-----TTTGGAC-ACT--------------------------------------------------------TAA--------GTACAGCCTCATA-----------
+q felCat3.scaffold_217398 99999999999999999999999999999999999999-----9999999-999--------------------------------------------------------999--------9999999999999-----------
+i felCat3.scaffold_217398 I 1 I 2
+s equCab1.chr31 12999264 64 + 24938454 TTATCACGTGGCAACTTTATACGGAATGCTTGTGCCCT-----TTTGGAC-CCT--------------------------------------------------------TAA--------GTACAGCGTCACA-----------
+q equCab1.chr31 99999999999999999999999999999999999999-----9999999-999--------------------------------------------------------999--------9999999999999-----------
+i equCab1.chr31 I 1 I 2
+s bosTau3.chr9 13656114 63 - 95030419 CTACTACGTGGCAACTTTATACAAAATGCTTGTGCCC------TTTAGAC-CCT--------------------------------------------------------TAG--------GTGCAGCCCCATA-----------
+q bosTau3.chr9 9999999999999999999999999999999999999------9999999-999--------------------------------------------------------999--------9999999999999-----------
+i bosTau3.chr9 I 1 I 2
+s dasNov1.scaffold_15233 43966 55 + 62638 CTAGCACTTGACAACTTTATTCAGAATGTTTTTGCCCT-----TTTGGTC-TCT--------------------------------------------------------CAA--------AGAA--------------------
+q dasNov1.scaffold_15233 99999999999999999999999999999999999999-----9999999-999--------------------------------------------------------999--------9999--------------------
+i dasNov1.scaffold_15233 I 1 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e cavPor2.scaffold_286578 128393 102 - 133272 I
+e oryCun1.scaffold_197619 37110 64 + 79436 I
+
+a score=708514.000000
+s mm9.chr10 3137056 193 + 129993255 AAAAG---GTGGAAATTATTT--GTGTTT--C--GATCTCCAAATAAATAAA-----TAAGTGTACTTGCTGAACTCTTG-----AATGG-AAGAGGCCATGTTCTTCCAGCTTTCATGACT-TATTACGTGAAGGT------TTC-TT-GCTATCATGCTGC-ATGGGTACTGACCTTGTA-ATAAGTGGTTGACAG-TTG--------TCTGCTTCGCGGGTTGTTTTTAG
+s rn4.chr1 229955006 137 - 267910886 aaaGG---GTGGGAA------------------------------------------------TACTTGCTGAATTCTTG-----AATGGCAAGAGGCCATGTTCTCCCAGATTGCATGATC-TATTAAGTGAAGGT------TTC-TT-GCTATCATGTTGC-ACAGGTATTGACCTTGTG-A-----------------------------GCTTAGCAGGTTGTTTTTAG
+q rn4.chr1 99999---9999999------------------------------------------------99999999999999999-----9999999999999999999999999999999999999-99999999999999------999-99-9999999999999-999999999999999999-9-----------------------------99999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 37174 175 + 79436 GAAAG---GCTTGGATGCTTT--CTGTGT--C--AGA--------ATCTAAAAGGTGCAAGTGTA--CGGCTAACTCATG-----GATGACAAGAGGCCACATTCTCTGAAATCGGGTGACA-GAGCCCGTGCAGATAGGAACTTC-TG-AATG----------AAAAGTACTGACTTAG---------------------GCAAACTTGTTTGCTTGTAGGACTATTTTTAG
+q oryCun1.scaffold_197619 79976---8994899979999--746589--9--599--------99498875997899976989--9999999999999-----9769999999999999899899799999999998999-99999999999999999997997-69-9999----------9999999999999999---------------------99999999999999999999999999999999
+i oryCun1.scaffold_197619 I 64 C 0
+s cavPor2.scaffold_286578 128495 178 - 133272 -----------------------------------ATctaaaaacagataaaaggagCAAATGTA--TGGCTAACTCTTA-----GATAACAAGAGGCTGTATTCTTCCAGATTGCATAACA-TATTACTTAAAAAT------TTC-TC-ATCGTCATAATGT-ACAGGTATTGACTTT-TA-TTTAACTATTGACTT-ATGCAGGCCCATTAGCTTATAGGGCTATTTTTGG
+q cavPor2.scaffold_286578 -----------------------------------999999999999999999999999999999--9999999999999-----9999999999999999999999999999999999999-99999999999999------999-99-9999999999799-999999999999999-99-999999999999999-9569999999999999999999999879999596
+i cavPor2.scaffold_286578 I 102 C 0
+s hg18.chr6 16029503 183 - 170899992 GAAAG---ACCTGGATACGTT--CTGTGT--TCGAATCTAAAAAAG------------------A--TGGCTA------A-----GATGATAAGAGGCTGCAATCTTCCAAGTTGCGTGACC-CATTACTTGAATAT------TTC-TC-ATAATAATGATGC-TCAAGTATTGACTTTTTA-ATGAACTATCGACTT-ACAAAAGCTCGTCTGCTTATAGGACTATTTTTAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16551850 183 - 173908612 GAAAG---ACCTGGATACCTT--CTGTGT--TCGAATCTAAAAAAG------------------A--TGGCTA------A-----GATGATAAGAGGCTGCAATCTTCCAAGTTGCGTGACC-CATTACTTGAATAT------TTC-TC-ATAATAATGATGC-TCAAGTATTGACTTTTTA-ATGAACTATCGACTT-ACAAAAGCTTGTCTGCTTATAGGACTATTTTTAG
+q panTro2.chr6 99999---9999999999999--999999--999999999999999------------------9--999999------9-----9999999999999999999999999999999999999-99999999999999------999-99-9999999999999-999999999999999999-999999999999999-9999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16334550 183 - 174210431 GAAAG---ACCTGAATACTTT--CTGTGT--TCAAATCTAAAAAAG------------------A--TGGCTA------A-----GATGATAAGAGGCTGCAATCTTCCAAGTTGCATGACC-CATTACTTGAATAT------TTC-TC-ATAATAATGTTGC-TCAAGTATTGACTTTTTA-ATGAACTATCGACTT-ACAAAAGCTTGTTTGCTTATAGGACTATTTTTAG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108437076 183 + 167655696 GAAAG---ATCTGGATACTTT--CTGTGT--TCCAATCTAAAAAAG------------------A--TGGCTA------A-----GATGATAAGAGACTGCAATCTTCCAAGTTGCATGACC-CATTACTTCAATAT------TTC-TC-ACAATAATGATGC-TCAAGTATTGACTTTTTA-ATGAACTGTCGACTT-ACAAAAGCTTGTTTGCTTATAGGACTATTTTTAG
+q rheMac2.chr4 99999---9999999999999--999999--999999999999999------------------9--999999------9-----9999999999999999999999999999999999999-99999999999999------999-99-9999999999999-999999999999999999-999999999999999-9999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 7199 188 + 7547 TATGGCTAACTTGGTTCTTTTACCTTTTT--TAGGAAAACAAAAAG------------------A--TGGCTA------A-----GATGATAAGAGGCCCCATTCTACCAAGTTTCATGACA-TGTTTCTTGACTAT------TTC-TC-CTAATAATGATGC-TCAAGTATTGACTTTTTA-ATGAACTATTGACTT-ACAAAAGCTTGTTTGCTTACAGAACTATTTTTAG
+i calJac1.Contig23414 C 0 C 0
+s otoGar1.scaffold_334.1-359464 300233 201 - 359464 CAAAG---ACCTGTGCATTTT--CTGTGT--TAGAATCTAAAAATG-ATAAAGGAAGCAAGTGTA--TGGCTAACTCTTA-----GAGGCCAACAGGTGACCTTCTCCCAAATTGCAGGACT-TCTTACTTGA-TAT------TTC-TC-CTAGT-ATGATGC-ACAGGCATTGAC-TTTTA-ATAAACAATTGTCTT-ATGCAA-CTTGT-TGCTTATAGGACTATTTTTAG
+q otoGar1.scaffold_334.1-359464 46866---4255534445774--656665--353454655776645-436742334533442222--5654635432153-----1125335224652644242112553742342244335-1225324432-101------621-11-42421-5133332-122241124422-46621-124821142321111-234123-25322-411322122222322466222
+i otoGar1.scaffold_334.1-359464 C 0 I 1659
+s tupBel1.scaffold_114895.1-498454 329024 206 - 498454 GAAAG---ACCTGGGTACTTT--CTGTGT--CAAAATCTTAAAACAAACAAAAAGATCTAGTATA--TGTCTC------ACTCCCAATGACAAGAAGTTACATTTTGCTAAATTGCATGGC---ATTTCTAGAATCT------CTCTTT-TTCATAATGGTGTATTAAGTATTGATTTTTTA-ATAAACTATTGACTT-ATACAGATGTGTTTGCTTATAGGTCTATTTTTAG
+q tupBel1.scaffold_114895.1-498454 99999---9999999999999--999999--9999999999999999999999999999999999--999999------999999999999999999999999999999999999999999---9999999999999------999999-99999999999999999999999999999999-999999999999999-9999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 37980 199 - 121936 --ATG---ACCTGGATATTGC--CTATGTTGTAAAATTTGCAAAAGATTGAGAAGAGCCAGCGTG--TAGCTAACTGGTG--------GATGA-------TCTTTTTCCAAATTGGGTGGCGCCGTGGCTGGAATAT------TTC-TC-CTGCTAATGAAGT-GAAAGTATCTCTTTTTGA-ATGAACTATTGACTTAATGCAAACTTGTTTGCTTGTAGGACTGTTTTTGG
+q sorAra1.scaffold_256646 --999---9999999999999--999999999999999999999999999999999999999999--9999999999999--------99999-------9999999999999999999999999999999999999------999-99-9999999999999-999999999999999999-99999999999999999999999999999999999999999999999999
+i sorAra1.scaffold_256646 I 2 C 0
+s canFam2.chr1 78206227 200 - 125616256 --ATG---ACCTGGATACTTT--CTGTGT--TAGAACCTAGAAAAGA-TAACAAGAGCGA--GTG--TGGCAGACTCTTA--------AACAAGAGGCTGCATTCTTCCAAATTGCACGACA-CATTGCATAAATAT------TTC-TC-ATAGTAATGATGC-GAAAGTATTGACTTTTCA-ATCAACTATTGACTTAATGCAAACTTGTTTGCTTATACAACTATTTTTAG
+q canFam2.chr1 --999---9999999999999--999999--9999999999999999-989999999999--999--8999896889999--------9999999999999999988876699999999999-99999999999999------999-99-8888999999999-999999999999999999-99999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 2 C 0
+s felCat3.scaffold_217398 66918 199 - 219823 --ATG---ACCTGAGTACTTT--CCATGT--TAGAATCTAGGAAAGA-TAAAAAGTGCAA--GTG--TGGCTTACGCTTA--------CACAAGAGGCTACATTCTCCCAAATTGTATGATG-CATTACTTGAATAT------TTC-TC-ATAGTAGTGTTGT-CAAAGTATTGACTTTTCA-ATCAACTGTTGGCTT-CTGCAGACTTGTTTGCTTATGCGTCTATTTTTAG
+q felCat3.scaffold_217398 --999---9999999999999--999999--9999999999999999-999999999999--999--9999999999999--------9999999999999999999999999999999999-99999999999999------999-99-9999999999999-999999999999999999-999999999999999-9999999999999999999999999999999999
+i felCat3.scaffold_217398 I 2 C 0
+s equCab1.chr31 12999330 203 + 24938454 --ATG---ACCTGGATACTTT--CTGTGT--TATAATCTAGAAAAGG-TACAAGGAAAAG-TGTG--TGGCTAACTCTTA-----GATGACAAGAGGCTACATTCTCCCAAATTGCGTGACA-CATGACTTGAAGAT------TTT-TT-ATAGTAGTGATGT-GAACATATTGACTTTTTA-ATTAACTATTGACTT-ATGCAAACTTGTTTGCTTATAGGACTATTTTTAG
+q equCab1.chr31 --999---9999999999999--999999--9999999999999999-999999999999-9999--9999999999999-----9999999999999999999999999999999999999-99999999999999------999-99-9999999999999-999999999999999999-999999999999999-9999999999999999999999999999999999
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13656179 202 - 95030419 --ACT---ACCCGGATACTTT--CCCTGT--TAGAATCTAGAAAAGA-TAAAAAGAGCAAGTGTG--TAGCCAACTCTTA--------GACAAGAGGCTACATTCTCCCAAATTGTGTGACA-CATTACTTGAATAT------TTC-TCAAGAGTCATGATGT-GAAAGTATTGACTTTTTA-ATGAACTGTTGGCTT-ATGCAAACTTGTTTGCTTATAGGACTATTTTTAG
+q bosTau3.chr9 --999---9999999999999--999999--9999999999999999-99999999999999999--9999999999999--------9999999999999999999999999999999999-99999999999999------999-9999999999999999-999999999999999999-999999999999999-9999999999999999999999999999999999
+i bosTau3.chr9 I 2 C 0
+s dasNov1.scaffold_15233 44021 206 + 62638 ---AG---ACCTGGCTACTTT--CTGTGT--TAGAATCTAAAAAAAGATAGAATGAGCAACTGTG--TGACTGACTCTAG-----GATGATCAGAGGCTACATGTCCCCAAATTGCATGACC-CACTTCTTAAATAT-----TTTC-TC-CTGGTACTGCTGT-AAAAGGATCGGCTTTCCAGAAGAACTATTGATGT-ATGCAAACTTGTTTGCTTATAGGACTATTTTTAG
+q dasNov1.scaffold_15233 ---99---9999999999999--999999--9999999999999999999999999999999999--9999999999999-----9999999999999999999999999999999999999-99999999999999-----9999-99-9999999999999-9999999999999999999999999999999999-9999999999999999999999999999999999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+
+a score=351702.000000
+s mm9.chr10 3137249 69 + 129993255 CTG-TCTCTGCTAGTCTCTCAG-------CATGGCTCCCACTTTGTAAACTACATCC----CCAGGAAAAGCAGCTTGTCC
+s rn4.chr1 229955143 65 - 267910886 CTG-TCTC-GCTAGTC---AGG-------CCCTGCTCTCTCTTTATGACTACGTCCC----CCAGGAAAAGCAGCTTGTCA
+q rn4.chr1 999-9999-9999999---999-------9999999999999999999999999999----99999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 37349 67 + 79436 CTG-TCTTTGCTAATCTGTCTA-------CCCAAC-CCCATTTTATAAATAC-ATCC----CACTGATAAGCAGCTCTTCA
+q oryCun1.scaffold_197619 999-999999899999999999-------999999-9999999999999999-9999----99999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s cavPor2.scaffold_286578 128673 66 - 133272 CAG-TCTTTGCTAGGT-TTCTA-------CCCAAC-CCCGTTTTATAAATAC-ATCC----CCATGATAAACAGCTCCTTC
+q cavPor2.scaffold_286578 994-599526923215-71214-------553227-7753265633593345-1456----74142217623124223223
+i cavPor2.scaffold_286578 C 0 I 1449
+s hg18.chr6 16029686 68 - 170899992 -TGCTCTTTGCTAATCTCTTTA-------CCCAACCTTTATTTTATAAATAC-ATGC----TACTGATAAGCAGCTCTTCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16552033 68 - 173908612 -TGCTCTTTGCTAATCTCTTTA-------CCCAACCTTTATTTTATAAATAC-ATGC----TACTGATAAGCAGCTCTTCA
+q panTro2.chr6 -999999999999999999999-------99999999999999999999999-9999----99999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16334733 68 - 174210431 -TGCTCTTTGCTAATCTCTTTA-------CCCAACCTTTATTTTATAAATAC-ATGC----TACTGATAAGCAGCTCTTCA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108437259 68 + 167655696 -TGCTCTTTGCTAATCTCTTTA-------CCCAACCTTTATTTTATAAATAC-ATGC----TACTGATAAGCAGCTCTTCA
+q rheMac2.chr4 -999999999999999999999-------99999999999999999999999-9999----99999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig23414 7387 68 + 7547 -TGCTCTTCGCTAATCTCTTTA-------CCCAACCTTTATTTTATAAATAC-ATGC----TACTGATAAGCAGCTCTTCA
+i calJac1.Contig23414 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 329230 69 - 498454 CTG-TCTTTGCTAATCTTTCAA------CCCCAACTCCCATTTTATAAATAT-ATCC----TACTGATAAGCAGCTCTTCA
+q tupBel1.scaffold_114895.1-498454 999-999999999999999999------999999999999999999999999-8999----98789989689999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 38179 55 - 121936 CTA-TCTTTGCTAACCTTTTCT---------------TCACTTTACAGATAT-ATGC----TACTGATAAGCAGCT-----
+q sorAra1.scaffold_256646 999-999999999999999999---------------999999999999999-9999----999999999999999-----
+i sorAra1.scaffold_256646 C 0 I 3501
+s canFam2.chr1 78206427 68 - 125616256 TTG-TCTTTGCTAACCTCTCTA-------TCCAACACCCACTTTATAAATAC-ATCC----TCCTGATAAGCAGTTCTTCG
+q canFam2.chr1 999-999999999999999999-------99999999999999999999999-9999----99999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 67117 79 - 219823 CTG-TCTTTGCTAACATCTCTACCCACCCCCCACCCCCCACTTTATAAATAC-ATCCTACTTACTGATAAGCAGTTCTTCA
+q felCat3.scaffold_217398 999-999999999999999999999999999999999999999999999999-9999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 12999533 68 + 24938454 CTG-TCTTTGCTAACCTCTCCA-------CCCAACCCCCATTTTATAAATAC-ATCC----TGCTGATAAAAAGCTCTTCA
+q equCab1.chr31 999-999999999999999999-------99999999999999999999999-9999----99999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13656381 68 - 95030419 CTG-TCTTTGTTAACCTTTCTA-------CCCAACCCCCATTTTATAAATAC-ATCC----TACTGATAAGCAGCTCTTCG
+q bosTau3.chr9 999-999999999999999999-------99999999999999999999999-9999----99999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_15233 44227 63 + 62638 CTG-CCTTTGCTAACC-GGCTA-------CCCA-CCCCCATTTTATAAATAC-ATTT---TTTCTGATAAGCAGCTC----
+q dasNov1.scaffold_15233 999-999999999999-99999-------9999-999999999999999999-9999---99999999999999999----
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=246618.000000
+s mm9.chr10 3137318 74 + 129993255 ----TACACA-------TGTCACCCTTGCCGTTCTGTGACTGTCAGTGTGGCAGTGAGGAGCACTGTCAAAAGCAC--------CAGCTAT----AA-----
+s rn4.chr1 229955208 75 - 267910886 ----TGTAGATAGATGTTGCCCCTCTTGCTCTTCTGTGGC------TGTGGCAGTTAGGAGCACTGTCAAAAGCAT--------CAGCTAT----AA-----
+q rn4.chr1 ----999999999999999999999999999999999999------999999999999999999999999999999--------9999999----99-----
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 37416 89 + 79436 ----TGGAGA----CTTTCCTAGTCTGGGTGCTACGCGGATAGCAGTATAGTGATTTTGAGCAGTGTGGAAGGCTCTTGATTGACAGCTCTCCAAAC-----
+q oryCun1.scaffold_197619 ----999999----99999999999999999999999999999999999999999999999999999999999999999999999999999999999-----
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16029754 77 - 170899992 ----TGTAGA----CTTTGCTACTCTTGGTATTGCATGAATCTGGGTAGGGCGATTATGAGAACCATAGAAGGCCT--------TAGATTT----AA-----
+i hg18.chr6 C 0 I 12
+s panTro2.chr6 16552101 77 - 173908612 ----TGTAGA----CTTTGCTACTCTTGGTATTGCATGAATCTGGGTAGGGCGATTATGAGAACCATAGAAGGCCT--------TAGATTT----AA-----
+q panTro2.chr6 ----999999----99999999999999999999999999999999999999999999999999999999999999--------9999999----99-----
+i panTro2.chr6 C 0 I 12
+s ponAbe2.chr6 16334801 77 - 174210431 ----TGTAGA----CTTTGCTACTCTTGGTATTGCATGAATCTGGGTAGGGCGATTATGAGACCCACAGAAGGCCT--------TAGATTT----AA-----
+i ponAbe2.chr6 C 0 I 12
+s rheMac2.chr4 108437327 77 + 167655696 ----TGTAGA----CTTTGTGACTCTTGGTATTGCATGAATCTGGGTAGGGCGATTATGAGAACCATTGAAGGCCT--------TAGATTT----AA-----
+q rheMac2.chr4 ----999999----99999999999999999999999999999999999999999999999999999999999999--------9999999----99-----
+i rheMac2.chr4 C 0 I 12
+s calJac1.Contig23414 7455 77 + 7547 ----TGTAGA----CTTTGCTACTCTTGGTATTGCATGAATCTGGGTAGGGTGATTATGAGAATCATAGAAGGCCT--------TAGATTT----AA-----
+i calJac1.Contig23414 C 0 N 0
+s tupBel1.scaffold_114895.1-498454 329299 74 - 498454 ----CATAGA----CTTTGCCACTCTTGGTATTGCACGGATATGAGCAGA--GATTATGAACTCTGTAGAACG-CT--------CAGGTTT----AA-----
+q tupBel1.scaffold_114895.1-498454 ----999999----999999999999588999599997999859799799--999999998999999995579-99--------9999999----99-----
+i tupBel1.scaffold_114895.1-498454 C 0 I 13
+s canFam2.chr1 78206495 76 - 125616256 ----TGTAGA----CTTTGCCACTCTTGGTGTTGCAGGAGTAT-GGTATGGTAATTGTGAGCATCGTAGAAACCGT--------TGGATTT----AA-----
+q canFam2.chr1 ----999999----99999999999999999999999999999-99999999999999999999999999999999--------9999999----99-----
+i canFam2.chr1 C 0 I 81
+s felCat3.scaffold_217398 67196 76 - 219823 ----TGTAGA----CTTTGCCACTCTTGGTATTGCATGAGTAT-GGTATGGTGGTTGTGAGCCCTGGAGAAAACCT--------TGGATTT----AA-----
+q felCat3.scaffold_217398 ----999999----99999999999999999999999999999-99999999999999999999999999999999--------9999999----99-----
+i felCat3.scaffold_217398 C 0 I 12
+s equCab1.chr31 12999601 77 + 24938454 ----TGTAGA----CTTTGCCACCCTTGATATTGCCTGAGTATAGATATGATGATTATGGGCGCTGCAGAAAGCCT--------TAGCTTT----AA-----
+q equCab1.chr31 ----999999----99999999999999999999999999999999999999999999999999999999999999--------9999999----99-----
+i equCab1.chr31 C 0 I 12
+s bosTau3.chr9 13656449 77 - 95030419 ----TGTAGA----CTTTACCACTCTTGGCATCGTATGAGTGTGGCGGCAGTGATGGTGAGCACTGGAGAAAGCCT--------TAGATTT----AA-----
+q bosTau3.chr9 ----999999----99999999999999999999999999999999999999999999999999999999999999--------9999999----99-----
+i bosTau3.chr9 C 0 I 12
+s dasNov1.scaffold_15233 44290 78 + 62638 CTCAAATGGA----CTTTGCAACTCCTGATAGTACAGGA----------GGCAAGAATGAGCCCTGCAGAGAGCCT--------TAAATTTCC--AACACTC
+q dasNov1.scaffold_15233 9999999999----9999999999999999999999999----------999999999999999999999999999--------999999999--9999999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=-4203.000000
+s mm9.chr10 3137392 50 + 129993255 -----TCAGCCA-CATCTATAGACCGT--GCTTATGTCAATATTAC-AGAG--------------------------------CCAT--G-------TCC
+s rn4.chr1 229955283 53 - 267910886 -----TCAGCTA-CAACAACAGCGTGTGCGCTTGTGTAAATATTACAAGAG--------------------------------TCAT--G-------CTA
+q rn4.chr1 -----9999999-99999999999999999999999999999999999999--------------------------------9999--9-------999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 37505 54 + 79436 -----CTGGCCGTCATTAACAGCTTGC--AGCAGTGGCAGTGCAGCAGGAT--------------------------------TCATACG-------TCA
+q oryCun1.scaffold_197619 -----9999999999999999999999--9999999999999999999999--------------------------------9999999-------999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16029843 58 - 170899992 -----CTGGCCACAGTCGACAGCTGGA--TCTCACCTCCTTGTTATTTGAC--------------------------------AGAT--G-TGTGCCTTA
+i hg18.chr6 I 12 C 0
+s panTro2.chr6 16552190 58 - 173908612 -----CTGGCCACAGTCGACAGCTGGA--TCTCACCTCCTTGTTATTTGAC--------------------------------AGAT--G-TGTGCCTTA
+q panTro2.chr6 -----9999999999999999999999--9999999999999999999999--------------------------------9999--9-999999999
+i panTro2.chr6 I 12 C 0
+s ponAbe2.chr6 16334890 58 - 174210431 -----CTGGCCACAGTCGACAGCTGGA--TCTCACCTCCTTGTTATTTGAC--------------------------------AGAT--G-TGTGCCTTA
+i ponAbe2.chr6 I 12 C 0
+s rheMac2.chr4 108437416 58 + 167655696 -----CTGGCCACAGTCGACAGCTGGA--TCTCATGTCCTTGTTATTTGAC--------------------------------AGAT--G-TGTGCCTTA
+q rheMac2.chr4 -----9999999999999999999999--9999999999999999999999--------------------------------9999--9-999999999
+i rheMac2.chr4 I 12 C 0
+s tupBel1.scaffold_114895.1-498454 329386 57 - 498454 -----CTGGCCAGCATCTTCAGCTCCA--TCTCATGT--TGGTTATTAGAC--------------------------------AGAT--GAAAAGCATTA
+q tupBel1.scaffold_114895.1-498454 -----9996999966745999999998--97999999--999999756999--------------------------------7897--99999899997
+i tupBel1.scaffold_114895.1-498454 I 13 C 0
+s felCat3.scaffold_217398 67284 44 - 219823 -----CCGACCACAGTTGACAGCTTGA--TTTCATGTTGACGCTATTCAGC-------------------------------------------------
+q felCat3.scaffold_217398 -----9999999998999998999999--9999999999999999999999-------------------------------------------------
+i felCat3.scaffold_217398 I 12 I 19
+s equCab1.chr31 12999690 75 + 24938454 -----CTGGCTACAATCGACAGCTTGC--TCT-GTGTTGATGTTATTAGGCAGATGCCTACATTAGGAAAAAGACTCATGTCT-----------------
+q equCab1.chr31 -----9999999999999999999999--999-99999999999999999999999999999999999999999999999999-----------------
+i equCab1.chr31 I 12 I 2
+s bosTau3.chr9 13656538 44 - 95030419 -----CCAACCACAATCTACAGCTTGC--TTTCATGCTGATGTTATTAGGC-------------------------------------------------
+q bosTau3.chr9 -----9999999999999999999999--9999999999999999999999-------------------------------------------------
+i bosTau3.chr9 I 12 I 19
+s dasNov1.scaffold_15233 44368 44 + 62638 TCAGCCTGGCCACAGTCTA-AGCTTGC--TTTCATGACTGTGCTATT-----------------------------------------------------
+q dasNov1.scaffold_15233 9999999999999999999-9999999--999999999999999999-----------------------------------------------------
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e canFam2.chr1 78206571 81 - 125616256 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=266787.000000
+s mm9.chr10 3137442 179 + 129993255 --------------AGAATGCATGCACGG--TGCTGGGTAAACACAACCCATCTGGCTT-----------------TTATTA------------------TTAACTTTTGGCTACA----TCATCGAGGGCTTTACCATGACATGAATAGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCCTAG----------------------------------------------------------TAAATATT-AACAgtct--caggcacagagttgggtattaggtaa [...]
+s rn4.chr1 229955336 177 - 267910886 --------------AGAAAGAATGCACTG--TGCTGGATAAACAC-ACCCATCTGGCTT-----------------TTACTA------------------TTAACTTTTGGCTACA----TCGTCGCCAGCTTTACCATGATATGAATAGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCCTAG----------------------------------------------------------TAAATATT-GACAGTCT--CAGGTGCAGGGCTGGGTATCGGGcaa [...]
+q rn4.chr1 --------------999999999999999--99999999999999-9999999999999-----------------999999------------------9999999999999999----9999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------99999999-99999999--99999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 37559 151 + 79436 --------------GGAAAGAA----------------TAAACGA-ATTCATGTGTC-T-----------------GTATTA------------------TTTGGCTTTGGTTATA----CTGACTCCAGTTTTACCATAACGCTAGCAGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTCAG----------------------------------------------------------taagcatt-agcaatgtg-caggcatagccctaagcatcacacat [...]
+q oryCun1.scaffold_197619 --------------99999999----------------9999999-99999999999-9-----------------999999------------------9999999999999999----9999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------99999999-999999999-99999999999999999999999999 [...]
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16029901 182 - 170899992 --------------GGAAAGAAGTTCTTGTCTACAGAATGAATTA-ACCTGTCTGGCTT-----------------TTATTA------------------TTAATGTTTAGCTACA----CTGTCACCAATTTTACCGTAATGTTAGTGGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTcag----------------------------------------------------------taattattaagcagtgtgtcaggcacatgtctaagcattgtacaa [...]
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16552248 182 - 173908612 --------------GGAAAGAAGTTCTTGTCTACAGAATGAATTA-ACCTGTCTGGCTT-----------------TTATTA------------------TTAATGTTTAGCTACA----CTGTCACCAATTTTACTGTAATGTTAGGGGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTcag----------------------------------------------------------taattattaagcagtgtgtcaggcacatgtctaagcattgtacaa [...]
+q panTro2.chr6 --------------9999999999999999999999999999999-9999999999999-----------------999999------------------9999999999999999----9999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------999999999999999999999999999999999999999999999 [...]
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16334948 177 - 174210431 --------------GGAAAGAAGTTGCTGTCTACAGAATGAATTA-ATTTGTCTGGCTT-----------------TTATTA------------------TTAATGTTTAGCTACA----CTGTCACC-----TACCATAATGTTAGTGGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTcag----------------------------------------------------------taattattaagcagtgtgtcaggcacatgtctaagcattgtacaa [...]
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108437474 182 + 167655696 --------------GGAAATAAGTTGTTGTCTACAGAATGAATTA-ATCTGTCTGGCTT-----------------TTATTA------------------TTAGTGTTTAGCTACA----CTGTCACCAATTTTACCATAATGTTAGTGGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTCAG----------------------------------------------------------TAATTATTAAGCAGTGTGTCAGGCACATGTCTAAGCATTGTACAA [...]
+q rheMac2.chr4 --------------9999999999999999999999999999999-9999999999999-----------------999999------------------9999999999999999----9999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------999999999999999999999999999999999999999999999 [...]
+i rheMac2.chr4 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 329443 174 - 498454 --------------GGAAAGAAGTTGCTATCTCCAGAATGAACTA-ACTCCTCTTGCTT-----------------TTCTTA------------------CCCATCTGCAGCTACA----CCCTCACCAATTTTACCATAAT--------A--------------------------------------------------------------------------------------------------------------------------------------------------------------------------CCCTCAG----------------------------------------------------------TAAATATT-GGTGATGCACCAGGCACAAGTCTCAGCCTTGTACAA [...]
+q tupBel1.scaffold_114895.1-498454 --------------9999999999989959699999976899999-9998799989999-----------------995976------------------6999975989999695----9999969999999979979969--------8--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9979999----------------------------------------------------------89999897-977999695999969899879699979996997999 [...]
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78206652 208 - 125616256 -------------------AGAATTTATGTCTATGGAAGAAACTA-ATTCATGTGGattttattatta--------ttattattataaatttCATTTGTATGAATGTTTAGCTATACTGTCTGTCACCAATTTCATCATAATTTTAGTAGG--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCTTCCA----------------------------------------------------------TAAATCTT-TGCAGCAtatcaggctcagttctttggaatgtacaa [...]
+q canFam2.chr1 -------------------99999999999999999999999999-9999999999999999999999--------999999999999999999999999999999999999999999999999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------99999999-999999999999999999999999999999999999 [...]
+i canFam2.chr1 I 81 C 0
+s felCat3.scaffold_217398 67347 196 - 219823 -------------------AAGGTTTATGCGTATAGAATGTATTA-ATTCATTTGGCtt-----------------ttattattataatttttatttGTATTAGTCTTTAGCTATA----CTGTCACCAATTTTATCATGATATTAGTAGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTCAG----------------------------------------------------------TAAATCCC-AGCGGTAGgtcaggctccggtctccacattgtatga [...]
+q felCat3.scaffold_217398 -------------------99999999999999999999999999-9999999999999-----------------9999999989999999999999999997999999999999----9999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------99999999-999999999999999999999999999999999999 [...]
+i felCat3.scaffold_217398 I 19 C 0
+s equCab1.chr31 12999767 190 + 24938454 ----------------------------------AGAATGAATTA-ATTCATCTGGCTTttactgttattatttttttattattataatttttatttgtattaATCCTTA-CTATA----CTGTGACCAATTTTatcataatattagtaaa--------------------------------------------------------------------------------------------------------------------------------------------------------------------------tcc--------------------------------------------------------------taagtgtt-cacaatgtgtc-ggcacaggtctaagcatt-tgcaa [...]
+q equCab1.chr31 ----------------------------------99999999999-9999999999999999999999999999999999999999999999999999999999999999-99999----9999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------999--------------------------------------------------------------99999999-99999999999-999999999999999999-99999 [...]
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13656601 422 - 95030419 -------------------AAGGTTGATGTCTACAGAATGAAGTA-ATTCATCTGGTTTTTA--------------TTATTGTTACTATTTTTATTTG--TTAATCGCTAGCACTA----CCACCACCAGTGTTGCAATATTAGTAGTGaagtgaaatgaaacgaaagtgttagtcgctcagtcgtgtctgactctttgcacacccatggactgtagtcccccaggctcctctgtccatggaattctccaggcaagaatattgacgtgggttaccattcccttgtccaggggatcttcccaacccagggatcgaacctgagtcttccgcattgcaggcaggttctttaccttctgagccaccagggaaacTGtagcataatattagtagatcct-cagtgagtgtt-agcgcaggtctaagcattgtactt [...]
+q bosTau3.chr9 -------------------99999999999999999999999999-9999999999999999--------------9999999999999999999999--9999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999-999999999999999999999999 [...]
+i bosTau3.chr9 I 19 C 0
+s dasNov1.scaffold_15233 44412 197 + 62638 AAATGCATGCATTTGGAGAGGACTGGATGTCTGTAAAATGACTGA-ATTCCTCTGGTTT-----------------ATATTA------------------TGA--CTGAAGCTGCATTGTCTGTCACCAGTTTTATCAGGATAGAAGTAGA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCCCAG----------------------------------------------------------TAATTGAT-GGCAGtgtgtcaggcacaggtctcagcgggacacaa [...]
+q dasNov1.scaffold_15233 999999999999999999999999999999999999999999999-9999999999999-----------------999999------------------999--9999999999999999999999999999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999999----------------------------------------------------------99999999-999999999999999999999999999999999999 [...]
+i dasNov1.scaffold_15233 C 0 I 2474
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=684433.000000
+s mm9.chr10 3137621 386 + 129993255 gaggcaggaaccgctatctc-attcgccacttgagaaaatcaaggca-----tggagat---------g--------------ctc--------------------agccgcttgGT--GAACAGTGTTTGACCA--AGGTGCTTAGATGCTGTTTTATACATTTTCCCAGGATTTTCTTCCCAGGGCAATGCGCAGAACACAC-CAAGAACCTTTGGCACACTTAGGAGTAGGCCCACAGTGTCCTCATGATGTAATTTATTAATATCCTGTGCTGGTGGAGGA--GCCAT-CAGC-ATACAAGTATGTTATTCTACATGGTC--------TCAGAAAG--AAAACATGAGATGACAGGTATCC-TATTTCATTGTACCTGTCCAGCCAAACAACTTGGCTAAAGTTTTT-------------------- [...]
+s rn4.chr1 229955513 453 - 267910886 gaggcaggagctgccatttc-actcgccacttggggaaaccgaggca-----cagagat---------gataaacttgtgacaccc--------------------agccacttggt--gaacagtatttgaacG--AAGTGCTTAGATGCTGTTTTATACATTTTCCCAGGATTTCCTTCCCAGGGCAATGCAGATAACACAC-CAAGACTCTTCAGCACACTTAGGAGTAGGCACACACTGTTCTCATGATGTAATTTATTAATACCCTGTGTTAGTGAAAGAGCGCCAT-CAGC-CTACAAGTATTTTATGCTACATGGTCTCTCTGTGTCAGAAAG--AATATATGAGATGAATG----CC-TACTTCATGGTACCCGTCCAGCCAAACAACTTGGCTAATGGTGTTTTCTTtcctcgtcctcgtcc [...]
+q rn4.chr1 99999999999999999999-99999999999999999999999999-----9999999---------999999999999999999--------------------99999999999--9999999999999999--9999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999-999999999999999999999999999999999999999999--99999999999999999----99-99999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 37710 381 + 79436 gcggtaggaactgctatttctctttggctgcagaggaaactgagtcagccaggaggGAG---------G---------------------------------------------GGTCAGAGCAGAGTTGGACTGC-AGGTGTTTAGA---TTTTCTGCACTTCTTCGTAGCCGGTTCTTCTCTAGGCCACACCTCGACCACACTCAGAAATCTGCACCATGTTCAGGACTACATCTTCATGATTCCCATGGTACAGGTTCCTAAGATCAGATGTTAGCCGAGGAGACTCATCCAGA-ACACGTGTGCCTCTGTCTACCTGTTCTGTGTGCCTCAGAAGC--TCTGTGTAATCCAATTAGTT-CA-TAGTTCATGGCACCTTGCCAGTCAGATAACTCAGTCAAGGCTTTT-------------------- [...]
+q oryCun1.scaffold_197619 99999999999999999999999999999999999999999999999999999999999---------9---------------------------------------------9999999999999999999999-99999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999--99999999999999999999-99-999999999999999999999999999999999999999999999-------------------- [...]
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16030083 365 - 170899992 gaggtaggaacagttatttccattttgcagttgaggaaaccgagtca-----cacacag---------a-ttgaccgatgtcaccc--------------------agca---------gagca-------------ggtggTTTGGCTTCACTCCACTCCATTTTCTCAGGAGTTTCTTCCCAAGGCCACATCTAGACCACAC-CGACAATCTT---TACATTTATGAATAGAACTTCAGGATTC----GGTCTGA-------ATAGCATATGGTAGCGGAGGAGTCTCATCCAGT-ATATGTCTGTGTTATTCTCTATCTTTAGTTCATGTCAGAAAG-TTATTTGTAAGTCAAATTAATTCC-TAGTTCATGGCGCCTTGCCAGTC----AGTTCAGTAAAGGCCTTT-------------------- [...]
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16552430 365 - 173908612 gaggtaggaacagttatttccattttgcagttgaggaaaccgagtca-----cacatag---------a-ttgaccgatgtcaccc--------------------agca---------gagca-------------ggtggTTTGGCTTCACTCCACTCCATTTTCTCAGGAGTTTCTTCCCAAGGCCACATCTAGACCACAC-CGAGAATCTT---TACATTTATGAATAGAACTTCAGGATTC----GGTCTGA-------ATAGCATATGGTAGCGGAGGAGTCTCATCCAGT-ATATGTCTGTGTTATCCTCTATCTTTAGTTCATGTCAGAAAG-TTATTTGTAAGTCAAATTAATTCC-TAGTTCATGGCGCCTTGCCAGTC----AGTTCAGTAAAGGCCTTT-------------------- [...]
+q panTro2.chr6 99999999999999999999999999999999999999999999999-----9999999---------9-9999999999999999--------------------9999---------99999-------------9999999999999999999999999999999999999999999999999999999999999999999-9999999999---9999999999999999999999999999----9999999-------999999999999999999999999999999999-999999999999999999999999999999999999999999-999999999999999999999999-99999999999999999999999----999999999999999999-------------------- [...]
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16335125 365 - 174210431 gaggtaggaacagttatttccattttgcagttgaggaaactgagtca-----cacagag---------a-ttgaccgatgtcaccc--------------------agca---------gagca-------------ggtggTTTGGCTTCACTCCACTTTATTTTCTCAGGAGTTTCTTCCCAAGGCCACACCTAGACCACAC-TGAGAATCTT---TACATTTGTGAATAGAACTTCAGGATTC----GGTCTGA-------ATAGCATATGGTAGCGGAGGAGACTCATCCAGT-ATATGTCTGTGTTATTCTCTATCTTTAGTTCATATCAGAAAG-TTATTTGTAAGTCAAATTAATTCC-TAGTTCATGGCGCCTTGCCAGTC----AATTCAGTAAAGGCCTTT-------------------- [...]
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108437656 365 + 167655696 GAGGTAGGAACAGTTATTTCCATTTTGCAGTTGAGGAAACTGAGTCA-----CAGAGTG---------A-TTGACAGATGTCACCC--------------------AGCA---------GAGCA-------------GGTGGTTTGGCTTCACTCCACTCCATTTTCTCAGGAGTTTCTTCCCAAGGCCACACCTAGACCACAC-CGAGAATCTT---TACATTTGTGAATAGATCTTCAGGATTC----GGTCTGA-------ATAGCATATGTTAGTAGAGGAGACTCATCCAGT-ATATGTCTGTGTTATTCTCTGTCTTTAGTTCCTGTCGGAAAG-TTATTTGTAAATCAAATTTATTCC-TAGTTCATGGCACCTTGCCAGTC----AATTCAGTAAAAGCCTTT-------------------- [...]
+q rheMac2.chr4 99999999999999999999999999999999999999999999999-----9999999---------9-9999999999999999--------------------9999---------99999-------------9999999999999999999999999999999999999999999999999999999999999999999-9999999999---9999999999999999999999999999----9999999-------999999999999999999999999999999999-999999999999999999999999999999999999999999-999999999999999999999999-99999999999999999999999----999999999999999999-------------------- [...]
+i rheMac2.chr4 C 0 I 494
+s tupBel1.scaffold_114895.1-498454 329617 419 - 498454 GCTGTAGGAACTGTTATTTCCATTTTACAGTTGAGGTAACTGAGGCA-----CACAGAGTTGAAGTGCC-TTAACCCGTGTTGCCC---CCACACCT-CGGGAAGAAGCA---------GAGCAGTGTTTGACCCTTGGAGGTTTGGCTTTACCCCTC-CCACTTTTCCAGG-GTTTCTTCCCAAGGCCATAGCTAGACCACAC-TATGAGTCTTCACTACACATATGTGTGGATCTTCAGGATTCTCTTGATGTGAGTTGTTCACATCGTGTGTTAGTGGAGGGGCATCGCCAAGT-ATGTCAATGTCTTATTGGACATATTGGGTGGGTGTCAGAGGG-CTATTTGTAAATCAGATTAATTCA-CAGTTTATGGCACCTTGCCAGTCAAATAATTCACTGAAGGCTTTT-------------------- [...]
+q tupBel1.scaffold_114895.1-498454 99699799999999999999999999899999999999999999899-----98999999999999999-9999999999999999---99899999-999999999999---------999999999999999998999999999999999999999-9999999999999-9999999999999889999999999999999-99999999999999999999999999998999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999-999999999999999999999999-999999999999999999999999999999999999999999999-------------------- [...]
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78206860 405 - 125616256 gaggtaggaacagatttttccattttgtagtt---ccattctgagca-----cagaaag---------g-tttagtaccttgatctgtgtcacacag-ggggaagtgac-----------agcagcatgtgagcctgggtgctttggctttaCTC----CCATCTTCTCAGGAGGTTCTT---------ACTCTTAGAGGACTC-TCAGAATCTTCACCACATTGAGGAGCAGACCTTCA-GATTCCCACGATGTGAGTTATTAATACCAT--GTTAGTGGAGGAGAGGTACTTGGT-ACATGTGTGTCTTATCCTACCTACTTAGTGTATGTCAGGGAGATTATTTGTAAATCAGATGAGTTCA-CAGGTCATGGCACTCTGCCTTT-AAATAATTC--CAAAGGTTTTT-------------------- [...]
+q canFam2.chr1 99999999999999999999999999999999---999999999999-----9999999---------9-999999999999999999999999999-99999999999-----------99999999999999999999999999999999999----999999999999999999999---------999999999999999-99999999999999999999999999999999999-999999999999999999999999999999--999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999-999999999--99999999999-------------------- [...]
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 67543 399 - 219823 gaggtaggaacgattatttccattttgtagttgaggaaaccgaggca-----cagaaag---------g-ttaggtacct------------------gaggaagtgac-----------agcagcatttgactccgggtgctttggctttaCT-----TCATCTTCTCAGGGGGTTCTTCCCAGGGTCACTCCCAGAGGACTT-TCAGAGTCTTCACCACATTGATGACCAGACCTCCAGGATTCTCACCGTGTGAGTTGTTAAAATCAT--GTTAATGGAGGAGAGTTGTCTGGG-ATATGTGTGTCTTATCCTACCCATTTGGTGTATGTCAGGAGGGTCATTTGTAAATCAAATTAATTCA-CAATTCATGGCACCTCGTCTTTCAAATCAGTC----AAGGCTTTT-------------------- [...]
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999-----9999999---------9-9999999999------------------99999999999-----------9999999999999999999999999999999999-----999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999----999999999-------------------- [...]
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 12999957 431 + 24938454 gaggtaggaaatatgatttccattttgcagttgaggaacctgagaca-----cagaaag---------g-ctaagtgccttgaccactgtcacacagctgggaagtgaca---------gagcagtgtttgacctcaggcaatatggcttcaCTCTATTCCATCTTCTCAGGAGGTTCTTGCCAGGGTCCCTCCTAGAGGACTC-TCACAATCTTCACCACATTGGTGAATAGACCTTTAGCATTCCCGTGATGTGAGATATTAATATCATACGTTAGTGGAGGAGAGGCACCTGGTAATACGTGTGCCTTATCCTACATATTGGGTATATGTCAGGAAAGTTATTTGGAAGTCAAATTAATTCA-TACTTCATGGCACCTTGCCTTTCAAATGACTCAGTCAAGGCTCTT-------------------- [...]
+q equCab1.chr31 99999999999999999999999999999999999999999999999-----9999999---------9-9999999999999999999999999999999999999999---------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999-------------------- [...]
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13657023 405 - 95030419 gaggcaggagctgtcatttccattttgcaattgagaacactgaggca-----caggcaa---------g-ttaagtatcctgacca-------------------tagct---------gagaagtgtttgaccacagacgggttggctTTGTTTCCTTCTATCTTCTCAGGAGGTTCTTCCCAGGGTCACCTGTAGAGGACTG-GCAGCATCTTTACCACGCTGATGAGGAGACCATCAGAAGCCCCATCA--TGAGTTCTCTGTCGTGT--GTTAATGCGGAAGACTCATCTG---CTGTGTGTGTCTTATTTTCCGTATTCTGTATGTGTCAGGAAAGTTATTTGTAAGTCATATCTATTCATCGTTTCATGGCACCATGCCTTCCAGATGATTTGGTAAAGGATTTT-------------------- [...]
+q bosTau3.chr9 99999999999999999999999999999999999999999999999-----9999999---------9-9999999999999999-------------------99999---------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999--99999999999999999--9999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------------- [...]
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=60717.000000
+s mm9.chr10 3138007 59 + 129993255 CAGCCC--CACAACAGA-AAG-CCAGT-------GGGCTAAGCAACTGTGAGTTTTAG-----TTTTCTCTTGTA
+s rn4.chr1 229955966 59 - 267910886 CAGCCC--CACAACAGA-AAA-CCAGT-------GGGTTAGGCAACTGTGAGTTTTAG-----TTTTTTCTTGTA
+q rn4.chr1 999999--999999999-999-99999-------999999999999999999999999-----999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 38091 59 + 79436 CAGCTG--CATTCCCCA-GGG-TCTGT-------GGATTAACCAAATGGGAGTTTGCA-----TTTTCTCTTGGG
+q oryCun1.scaffold_197619 999999--999999999-999-99999-------999999999999999999999999-----999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16030448 67 - 170899992 TAGCCGCACATAACAGA-AAACCCAGT-------GGGTTAACCAAATTGGGGTTCCATGGCGCTGCCATCTTGTT
+i hg18.chr6 C 0 I 16
+s panTro2.chr6 16552795 67 - 173908612 TAGCCGCACATAACAGA-AAACCCAGT-------GGGTTAACCAAATCGGGGTTCCATGGCGCTGCCATCTTGTT
+q panTro2.chr6 99999999999999999-999999999-------99999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 16
+s ponAbe2.chr6 16335490 37 - 174210431 TAGCCGCACATAACAGA-AAACCCAGT-------GGGTTAACCAA------------------------------
+i ponAbe2.chr6 C 0 I 476
+s tupBel1.scaffold_114895.1-498454 330036 61 - 498454 CAGCTG--TTTAACAGAGAAACCCAGT-------GGATTAACCAGAGGGAAGTGCTAT-----TTTCCTCTTGTA
+q tupBel1.scaffold_114895.1-498454 999999--9999999999999999521-------143246899999999999797855-----856899973668
+i tupBel1.scaffold_114895.1-498454 C 0 I 119
+s canFam2.chr1 78207265 69 - 125616256 ctggcgcccataactga-aaatccaatttacaggagtttagccaaatgggagtgttgg-----ttttctcttgta
+q canFam2.chr1 99999999999999999-9999999999999999999999999999999999999999-----999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 67942 68 - 219823 caggtgtgcaccactga-aaacccaacttacaggggtctaaccaaatgggagtgttga-----tttt-tctcgtg
+q felCat3.scaffold_217398 99999999999999999-9999999999999999999999999999999999999999-----9999-9999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13000388 67 + 24938454 cagccgcacataaccaa-agacccagtttacagtggattaacc-aatgggaatgttga-----ttttcccttgt-
+q equCab1.chr31 99999999999999999-9999999999999999999999999-99999999999999-----99999999999-
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13657428 65 - 95030419 caactgtgtgtaacaga-aaacccagtttttggtggactaaccaaat--gagttttgg-----tttt-ccttgt-
+q bosTau3.chr9 99999999999999999-99999999999999999999999999999--999999999-----9999-999999-
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=-13049.000000
+s mm9.chr10 3138066 20 + 129993255 TAAGAGTGAGGT-T------------GGGCAGC
+s rn4.chr1 229956025 20 - 267910886 TAAGAGTGAGGT-T------------GGGCAGC
+q rn4.chr1 999999999999-9------------9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 38150 32 + 79436 AAGAAGCCTGGG-TGCAGGGCTGTGAGGGAAGC
+q oryCun1.scaffold_197619 999999999999-99999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16030531 21 - 170899992 ATGGCGTAGGGTAT------------GGCCTGG
+i hg18.chr6 I 16 C 0
+s panTro2.chr6 16552878 21 - 173908612 ATGGCGTAGGGTAT------------GGGCTGG
+q panTro2.chr6 99999999999999------------9999999
+i panTro2.chr6 I 16 C 0
+s canFam2.chr1 78207334 17 - 125616256 --aaaggaggtc-t------------ggagat-
+q canFam2.chr1 --9999999999-9------------999999-
+i canFam2.chr1 C 0 I 7
+s felCat3.scaffold_217398 68010 18 - 219823 -caaatgaagtc-t------------ggagac-
+q felCat3.scaffold_217398 -99999999999-9------------999999-
+i felCat3.scaffold_217398 C 0 I 216
+s equCab1.chr31 13000455 16 + 24938454 --aaaagaaggc-t------------ggaga--
+q equCab1.chr31 --9999999999-9------------99999--
+i equCab1.chr31 C 0 I 8
+s bosTau3.chr9 13657493 17 - 95030419 --aaaagaagtc-t------------ggggat-
+q bosTau3.chr9 --9999999999-9------------999999-
+i bosTau3.chr9 C 0 I 81
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+
+a score=-33985.000000
+s mm9.chr10 3138086 45 + 129993255 CCAGGAGT------------TTTTGTCATCCTGGCCTCA-------------------------------------------ATGTGATGTATATGTGGT--------------
+s rn4.chr1 229956045 88 - 267910886 CCAGGGGC------------TTCTGCCATCCTGGCCTCAtgcggtatatatgcggtgtatgtgcggtgtatgtgcggtgtatgtgcggtgtatatgcggt--------------
+q rn4.chr1 99999999------------99999999999999999999999999999999999999999999999999999999999999999999999999999999--------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 38182 51 + 79436 CTCGGTGCAGTCAGGGCCCAGGTTCCCATCCTG--CTCA-----------------------------------------------GCTGTTCCCAGCAT--------------
+q oryCun1.scaffold_197619 999999999999999999999999999999999--9999-----------------------------------------------99999999999999--------------
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16030552 27 - 170899992 CACATGGT------------GTTCATTTTCATA--CTTA-----------------------------------------------------------AT--------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16552899 27 - 173908612 CACATGGT------------GTTCATTTTCATG--CTTA-----------------------------------------------------------AT--------------
+q panTro2.chr6 99999999------------9999999999999--9999-----------------------------------------------------------99--------------
+i panTro2.chr6 C 0 C 0
+s canFam2.chr1 78207358 31 - 125616256 ------------------------------------tca-----------------------------------------------gaggtagatgggggctccatgatgtggt
+q canFam2.chr1 ------------------------------------999-----------------------------------------------9999999999999999999999999999
+i canFam2.chr1 I 7 I 152
+s equCab1.chr31 13000479 24 + 24938454 ------------------------------------tca-----------------------------------------------ggactatatggggactctgtg-------
+q equCab1.chr31 ------------------------------------999-----------------------------------------------999999999999909999999-------
+i equCab1.chr31 I 8 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e felCat3.scaffold_217398 68028 216 - 219823 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+
+a score=-8810.000000
+s mm9.chr10 3138131 129 + 129993255 ATAGCATGTGCT-------GTGGTCCTTCAACATGGACGACTGTTCTATCCCAGGTTCTTCCTGCATCAGGCTGGGAAAACAGGCTTAGTATC---------------------AAAccc--------agtgacagctcag------actctttagaaagttccctgtgag
+s rn4.chr1 229956133 135 - 267910886 gtatCATGTGCT-------GTGGTACCTCAGCGTGGATGGCTGTGCTGTCCCAGGCTCTTCCTGTGTCATGCCGGAAGAACAGGCTTAATGTC---------------------AAACCC--------AGTGACAGCCCAGACTCCTACTCTTTAGAGAGTTCCCTGTGAA
+q rn4.chr1 999999999999-------99999999999999999999999999999999999999999999999999999999999999999999999999---------------------999999--------9999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 38233 140 + 79436 GCACCATTCGTTTTTAAAGGTGATGCTTCCA---GGCAAGGTGCCCAGT----GGGTGTTTCTGTGCCAGGCAGGGGAGAAGAACCTGGAGTAAGAGAGCCTGCAGAAGAGAGGAAACCTGTGGAAGAGGCGGCAGCTGTG------TCTTTT------------------
+q oryCun1.scaffold_197619 9999999999999999999999999999999---999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------999999------------------
+i oryCun1.scaffold_197619 C 0 I 464
+s hg18.chr6 16030579 121 - 170899992 GCTTCA-gtgca-----aggtggcggctcct---gcatgattg-------------tcttcctattccaggcagaaggga---gtctcatggaagacag---------------aagaca--------ggtagcagccaag--tcttcccctttaaagagttctttgaaaa
+i hg18.chr6 C 0 I 234
+s panTro2.chr6 16552926 121 - 173908612 GCTTCA-gtgca-----aggtggcggctcct---gcatgattg-------------tcttcctattccaggcagaaggga---gtctcatggaagacag---------------aagaca--------ggtagcagccaag--tcttcccctttaaagagttctttgaaaa
+q panTro2.chr6 999999-99999-----99999999999999---999999999-------------999999999999999999999999---9999999999999999---------------999999--------9999999999999--9999999999999999999999999999
+i panTro2.chr6 C 0 I 244
+s equCab1.chr31 13000503 86 + 24938454 -------gtgct-------gtcaggggccca----------------------agctccttctgt--catcctgttcagccattcttagcatgtggc-----------------ttagcg--------tgtggcactcatg-ttcatact---------------------
+q equCab1.chr31 -------99999-------999999999999----------------------999999999999--999999999999999999999999999999-----------------999999--------9999999999999-99999999---------------------
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e felCat3.scaffold_217398 68028 216 - 219823 I
+e canFam2.chr1 78207389 152 - 125616256 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+
+a score=3719.000000
+s mm9.chr10 3138260 75 + 129993255 gggttggggcgatggctcagtggttaagagcactggctgttcttccagaggactaggggtcagtttccagcaccc
+s rn4.chr1 229956268 71 - 267910886 gggctggagg---ggcttagtggttaagagcactggctgcccttccagaggacccaggttcaatct-cagcaccc
+q rn4.chr1 9999999999---99999999999999999999999999999999999999999999999999999-99999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13000589 53 + 24938454 ----------aatgcctcagtg--caaga----tggttgctccacc------ttcaggatcactttcctattcca
+q equCab1.chr31 ----------999999999999--99999----9999999999999------99999999999999999999999
+i equCab1.chr31 C 0 I 60
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e felCat3.scaffold_217398 68028 216 - 219823 I
+e canFam2.chr1 78207389 152 - 125616256 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e hg18.chr6 16030700 234 - 170899992 I
+e panTro2.chr6 16553047 244 - 173908612 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+e oryCun1.scaffold_197619 38373 464 + 79436 I
+
+a score=2520.000000
+s mm9.chr10 3138335 89 + 129993255 acatggcagctcacaactgtctgtaactct------agggaatccaataccTcacacagacatacatacatacatacagacagacagacatacCT
+s rn4.chr1 229956339 68 - 267910886 acatggcagctcatgattatctgtaactctagttccaggggatctgataccct---------------------------cacacagacatacgt
+q rn4.chr1 99999999999999999999999999999999999999999999999999999---------------------------999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13000642 60 + 24938454 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e felCat3.scaffold_217398 68028 216 - 219823 I
+e canFam2.chr1 78207389 152 - 125616256 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e hg18.chr6 16030700 234 - 170899992 I
+e panTro2.chr6 16553047 244 - 173908612 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+e oryCun1.scaffold_197619 38373 464 + 79436 I
+
+a score=2067.000000
+s mm9.chr10 3138424 31 + 129993255 GCAGGCAAAACACCAATGCACATTAAGAAAA
+s rn4.chr1 229956407 27 - 267910886 gcaggccaaacaataatgcacatt----aaa
+q rn4.chr1 999999999999999999999999----999
+i rn4.chr1 C 0 C 0
+s felCat3.scaffold_217398 68244 24 - 219823 ggaggcaaaagaccgctaggagcc-------
+q felCat3.scaffold_217398 999999999999999999999999-------
+i felCat3.scaffold_217398 I 216 C 0
+s canFam2.chr1 78207541 24 - 125616256 gaaggcaaaagactggtggtcacc-------
+q canFam2.chr1 999999999999999999999999-------
+i canFam2.chr1 I 152 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13000642 60 + 24938454 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e hg18.chr6 16030700 234 - 170899992 I
+e panTro2.chr6 16553047 244 - 173908612 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+e oryCun1.scaffold_197619 38373 464 + 79436 I
+
+a score=-2308.000000
+s mm9.chr10 3138455 177 + 129993255 AAAAAGTTCCCT---GTGAAATCTATTC--------TGGTCTC--TCTTAGTTATCAGAATGGTCCCATGA--CCACTTAGGCTGGAGAGGACGGTGATTGCCTTTTGTGTACATAtgtggtgctgggaattgagcctagggtctcacatatggtaggcaagtgctctcacactgtgccagactttcagcac
+s rn4.chr1 229956434 148 - 267910886 aaataGTTCCCT---GTGAAACCAAGTC--------CAGTCTC--TC-------------------------------TAGGCTGGAGAGGAAGCTGACTGCCTTTTGTGtttatgtgtggtgctgggaattgaacctagggcctcatcagtggtaggcaagtgctctcccactgtgccagactttcagtgc
+q rn4.chr1 999999999999---9999999999999--------9999999--99-------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13000702 109 + 24938454 aaagaggtccct---aagaagctccatcaggtgacttggcttacatctcaggtgccagaactgtcgcgtgg-ccatctcatgctgcaagggaggctggttgc--------------tgtagt-----------------------------------------------------------gtttg------
+q equCab1.chr31 999999999999---99999999999999999999999999999999999999999999999999999999-999999999999999999999999999999--------------999999-----------------------------------------------------------99999------
+i equCab1.chr31 I 60 C 0
+s felCat3.scaffold_217398 68268 85 - 219823 ----aggtcttc------------------------tggcttacgtctcacttgccagaactatcatgcagcccccctcgtgctgcaagggaggccagtcac--------------tgtagt-----------------------------------------------------------tcttt------
+q felCat3.scaffold_217398 ----99999999------------------------999999999999999999999999999999999999999999999999999999999999999999--------------999999-----------------------------------------------------------99999------
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78207565 108 - 125616256 ----aagtctcctcctgggagctccatcaagtgagttggcttacatctcagttgccag-actgtcacgtag----cctcatgctgcaagggaggctagttgc--------------tatagtttt-------------------------------------------------------gttttt------
+q canFam2.chr1 ----999999999999999999999999999999999999999999999999999999-999999999999----999999999999999999999999999--------------999999999-------------------------------------------------------999999------
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108438021 494 + 167655696 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e loxAfr1.scaffold_7828 83360 3347 - 87447 I
+e tupBel1.scaffold_114895.1-498454 330097 119 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e hg18.chr6 16030700 234 - 170899992 I
+e panTro2.chr6 16553047 244 - 173908612 I
+e ponAbe2.chr6 16335527 476 - 174210431 I
+e oryCun1.scaffold_197619 38373 464 + 79436 I
+
+a score=721250.000000
+s mm9.chr10 3138632 315 + 129993255 cCAG-TTGGGAACATTGTAGCAAT---AAAAA-AGTTGGAATCTGGT-GGCTAGG-AAGGAAG------GG---AGTCTA----------GAT---AGGCA-------GTGCCAGTGTCTTATCACATGGTACTGAACATGGGCTATAACCTACAG-TCATAGATGTACTTCAAGTAGGACACGAG--------TCAC--TTTCCTACTT-A--CA-----------GGCCAGCTCTGCTGT-AGAAAT-GGCGTT-ATGTTTTCATTTCTCTTGAGTATCCTCAGGTCAGAACCTTAAAATAGACGAGGCC-TTTGTCCCAAAGCTTGATTTAAATGCTAG------CTTTAGGATGCACT-TTTGCCC-ACAGTTATGTCTT---CTGC
+s canFam2.chr1 78207673 338 - 125616256 ttaa-ctgggtatatgatagccctg--aaaaataattggagtttgttcagtgaga-aagaagagggggtgg---ggaatagatattgggaagc---agcca-------g---cagtgtc-tgacacaCAGTAATTTATATGTATTGATCTTTATAG---------GTTCTCAAAGTAGGATACATG--------TCATAATTTCCCAGTTAA--CATCAAGCCTGAGGTTCAGCCCTGTTTT-AGAA---AAGGCG-CTGCTTTCATTCCTATTAAGCTTTCTCAGGTCAAAACTGTAAGTCATATGAAATC-TTTGTCTGTAAGCTTGTTTTAAATATTAGAAATTGCAATAGAAAATGCA-GCTACC--CAAGTTGTGT-TT---CTGT
+q canFam2.chr1 9999-99999999999999999999--9999999999999999999999999999-999999999999999---9999999999999999999---99999-------9---9999999-999999999999999999999999999999999999---------999999999999999999999--------999999999999999999--9999999999999999999999999999-9999---999999-9999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999-999999--9999999999-99---9999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 68353 340 - 219823 tcgg-ttgggtacattgtggccctg--aaaaa-aattggagtttgttcaataagg-aaggagg------gg---agaatagacgctggtaaacttaagcca-------g---tggtgtc-taacacaCAGTAATTTATATGTACTGATCTTTATAGATTA-----GTTCTCAAAGGAGGATACATG--------TCATAATTTCCTACTT-C--TGTCAAGCTCGTGGGTCAGTCCTGTTTT-AGAAAT-AATGTT-CTATTTTCATTCCTGGTAAACTTTCTCTGGTCAAAACTATAAGTTATATGAAGTCTTTTGTCTCTAAGCTTGATTTAAATGTTAGGAGTTGCATGGTGAAATGCA-GCTACC--CAAGTGGTGT-TT---CTGT
+q felCat3.scaffold_217398 9999-99999999999999999999--99999-9999999999999999999999-9999999------99---999999999999999999999999999-------9---9999999-9999999999999999999999999999999999999999-----999999999999999999999--------9999999999999999-9--9999999999999999999999999999-999999-999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999--9999999999-99---9999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13000811 329 + 24938454 ttga-gt----------tggccctg--aaaaa-aatttgagtttgttcaataagg-acaaagg------gg---agaatagatattggtaggc---agcca-------g---gagtgtc-tgacacaCAGTCATTTACATGTACTGATTTTCATAGATCA-----GTTCTCAAAGTAGGACACATG--------TCACAATTTCCTGCTT-T--CATTCAGTCTGTAGGTCAGCCCTGTTTT-AGAAAT-AGTGTT-ATGTTTTCATTCCTGTTAAGTTTTCTTGGGTCAAAACCTTAACTTGCATGAGGTC-TTTGTCTCCAAGCTTGATTTAAATATTAAAAGTTGCATTGTAAAAAGCA-ACTACC--CAAGCTATGC-TTGGCTTGC
+q equCab1.chr31 9999-99----------99999999--99999-9999999999999999999999-9999999------99---9999999999999999999---99999-------9---9999999-9999999999999999999999999999999999999999-----999999999999999999999--------9999999999999999-9--9999999999999999999999999999-999999-999999-9999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999-999999--9999999999-999999999
+i equCab1.chr31 C 0 C 0
+s rheMac2.chr4 108438515 312 + 167655696 -AAG-TTTGGTACATTGTAACCCTGAAAAAAA-ACTTGGAGTTTGGTCAGAGAGGAAAAAAGG------GG---AGAATAGATATTGGTAGGC---AGGCA-------A------------------CAGGGATTTACATGCACTGATTTTCATAGCTCA-----GTTCTCAGAGTA-GACATGTG--------CCAC-ATTCCCTACTT-A--CA------------TCCAGCCGTGCTTT-AGAAATAAGAGTT-ATATCCTCATTCCTGTTCAATCTTCTTAGGTCAAAATCTGAACTTATATGAGGTC-CTTTTCTCTAAGCTTGATTTAAATATGAGAAATTTCATTGTGGAATGCA-GCTACCA-CAAGTCATGT-TT---CTGC
+q rheMac2.chr4 -776-665666676767666766555666677-666666666666676666666666999999------99---9999999999999999999---99999-------9------------------999999999999999999999999999999999-----999999999999-99999999--------9999-99999999999-9--99------------99999999999999-9999999999999-9999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999-9999999-9999999999-99---9999
+i rheMac2.chr4 I 494 C 0
+s rn4.chr1 229956582 309 - 267910886 cCAGTTTGGGAACATTGTAGCGAT----AAAA-AGTTGGAATGCGGT-GGTTAGG-AAGGAAG------GG---AGTCTAGATCATT---GAT---AGGCA-------GTGTGAGTGGA-TATCACATGGCACTGAACATGGAATATAACCTACGG-CCATAGATGGACTCCAAGTAGGGCATGAG--------TCAG--TTTCCTACTT-A--CA-----------GACCAGCTCTGCT-------------GTT-ATATTTTCATTTCTCTCGAGTATCCTCAGCTCAGAACCTTAAAATAGACGAGGTC-TTTGTCTCAAAGCTTGGTTTAAACACTAG------TTTTGTAATCCGCT-TCTGCCC-ACAGTTGTGT-TT---CTGC
+q rn4.chr1 999999999999999999999999----9999-99999999999999-9999999-9999999------99---9999999999999---999---99999-------99999999999-999999999999999999999999999999999999-99999999999999999999999999999--------9999--9999999999-9--99-----------9999999999999-------------999-9999999999999999999999999999999999999999999999999999999-99999999999999999999999999999------99999999999999-9999999-9999999999-99---9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 38837 329 + 79436 taag-ttaggtaccttgtgtccttg--aaaaa-cattgagttttaatcagtaagg-aggaagg------gg---agaatgggtatttgtagat---ggcaa-------g---aagtggc-agccacaCAGGAACTGACATGTACCAATGTC-ACAG-TCA-------ATTCT---TAGAACACGGGCCGCCGTTCCAG--TTTGCCGCGT-A--CACAGAGCCCATGGCTCAGCTGGGCTGT-AGAAAT-GGTGTA-GCCTTTTTACT-------AAGATTCCTGGGTCATAACCTTAACTTACATGAAGTC-TTTGTCTCTATGCTAGGTTTACGTATTAGAAGTTTTGTTGTGAAATGTG-GCTACCT-TGAGCTATGT-TT---CTGC
+q oryCun1.scaffold_197619 9999-99999999999999999999--99999-9999999999999999999999-9999999------99---9999999999999999999---99999-------9---9999999-9999999999999999999999999999999-9999-999-------99999---99999999999999999999999--9999999899-9--9999999999999999999997999999-999999-999999-99999999999-------9999999999999999999999999999987699999-9999999999999999999999999999999999999999999999999-9999999-9999999999-99---9999
+i oryCun1.scaffold_197619 I 464 C 0
+s loxAfr1.scaffold_7828 86707 339 - 87447 --ag-ctgcatacattgtagctgtg--aacac-aactggagttgggccagtgagt-aaggagg------ggacaagaagagagattggtaggt---ggcca-------g---tagtgtc-tgccgcCCCATAATTTACGTGCACTGATTTTCATAGATTG-----GTCTTCAGAGTAGGACATGTG--------TCACCATTTCCCACTT-A--CATCCAGCACAGGGGTCAGCCTTGTTTT-AGAACT-AGTGTT-ACATCTTCATTCCTGTTACATTTTCTTAGGTCAAAATCCTAACTTATTTGAGATC-TTTGTCTCTATGCTGAATTTAAATATTAGACTTTTAATTGTAAGACGCA-ACTACTGCCAAGTTGTGT-TT---CTGC
+q loxAfr1.scaffold_7828 --99-99999999999999998979--99999-9998999999999999999999-9999999------999999999999999999999999---99999-------9---9999999-9999999999999999999999999999999999999999-----999999999999999999999--------9999999999999999-9--9999999999999999999999999999-999999-999999-9999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999899999999-999999999999999599-99---9979
+i loxAfr1.scaffold_7828 I 3347 C 0
+s ponAbe2.chr6 16336003 309 - 174210431 --AG-TTTGGTACATTGTGGCcctg-aaaaaa-acttggagtttggtcagaaagg-aaaaagg------gg---agaatagaaattggtaggc---aggca-------a------------------cagGGATTTACATGCACTGATGTTCAAAGCTCA-----GTTCTCAGAGTA-AACGTGTG--------CCAC-ATTCCTCACTT-A--TA------------TCCAGCCCTGTTTTAAAAAAT-AGCATT-ATATCTTCATTCCTGTTCGATCTTCTTAGGTCAAAATCTGAACTTATATGAGGTC-CTTTTCTCTAATCTTGATTTAAATATGAGAAATTTCATTGTC-TGTGCATATTACCG-CAGATCGTTT-TT---CTGC
+i ponAbe2.chr6 I 476 C 0
+s panTro2.chr6 16553291 308 - 173908612 --AG-TTTGGTACATTGTGGCcctg-aaaaaa-acttggagtttggtcagaaagg-aaaaagg------gg---agaatagatattggtaggc---aggca-------a------------------cagGGATTTACATGCACTGATTTTCATAGCTCA-----GTTCTCAGAGTA-CACATGTG--------CCAC-ATTCCCTACTT-A--TA------------TCCAGCCCTGTTTT-AGAAAT-AGCATT-ATATCTTCATTCCTGTTCAACCTTCTTAGGTCAAAATCTGAACTTATATGAGGTC-CTTTTCTCTAAGCTTGATTTAAATATGAGAAATTTCATTGTCAAATGCA-GCTACCA-CAAGTCGTTT-TT---CTGC
+q panTro2.chr6 --99-99999999999999999999-999999-9999999999999999999999-9999999------99---9999999999999999999---99999-------9------------------999999999999999999999999999999999-----999999999999-99999999--------9999-99999999999-9--99------------99999999999999-999999-999999-9999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999-9999999-9999999999-99---9999
+i panTro2.chr6 I 244 C 0
+s hg18.chr6 16030934 308 - 170899992 --AG-TTTGGTACATTGTGGCcctg-aaaaaa-acttggagtttggtcagaaagg-aaaaagg------gg---agaatagatattggtaggc---aggca-------a------------------cagGGATTTACATGCACTGATTTTCATAGCTCA-----GTTCTCAGAGTA-CACATGTG--------CCAC-ATTCCCTACTT-A--TA------------TCCAGCCCTGTTTT-AGAAAA-AGCATT-ATATCTTCATTCCTGTCCAACCTTCTTAGGTCAAAATCTGAACTTATATGAGGTC-CTTTTCTCTAAGCTTGATTTAAATATGAGAAATTTCATTGTCAAATGCA-GCTACCA-CAAGTCGTTT-TT---CTGC
+i hg18.chr6 I 234 C 0
+s calJac1.Contig1260 751 319 - 523245 --AG-TTTGGTACACTGTGGCTctg--aaaaa-acttggagttttgtcagaaagg-aaaaaag------gg---agaatagattttggtaggc---aggaa-------a---tagtgtc-tgccCCGCAGGAATTTACGAGCACTGATTTTCATAG-TCA-----GTTCTCAGAACA-GACATGTG--------CCAC-ATTCCCTACTT-A--CA------------TCCAGCCGTGTTTT-AGAAAT-AGTGTT-ATATCTTCA-TCTTGTTAAATCTTCGTGGGTCAAACTCTGAACATATATGAGGCC-CTTCTCTCTAAGCTTTATTTAAATATGGGAAGTTTCATTGCTGAATGCA-GCTACCA-CAAGTTGTGT-TT---CTGC
+i calJac1.Contig1260 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 330216 268 - 498454 -----------------------------AAA-AATTGAAGTT--GACAGTAGGA-AAGATGG------GG---AGATAGGTTGTAGTCATGC---GGGTGTCTACTCA------------------CAGG-ACTTAAATGTGCAGGTTTTTATAGATC------GCTTTGAAAGTAGGACACTCG--------TCACAATTTCCAACTC-GGCCC------------ACCAACTGTTTTTT-ATAAAT-AGTGTTAACATTTTCATGGCTTTCAAGTTTTCTGAAGTCAAAACTTTAAATGAAACGAAGTC-TTTGGCTCTAAGCTTGATTTAAAT---GAAAGTTTC----------------------TAAGTTGTGT-TT---CTGC
+q tupBel1.scaffold_114895.1-498454 -----------------------------347-7413335211--1012102112-6101016------51---0041122001243363421---1511123521021------------------2334-222038422222221588824324342------234632475464552214363--------4315243512133336-33273------------14244544567784-243766-44355442655775563233694555457775366843567756695595345855556455-683624666655556655959944---569766985----------------------6786855565-99---6545
+i tupBel1.scaffold_114895.1-498454 I 119 I 21
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=114898.000000
+s mm9.chr10 3138947 47 + 129993255 TTT-----CACTGTTGAGCAATGTGGTCAAGAAGGAAAACA-----CTGCTTTGCCC-
+s rn4.chr1 229956891 49 - 267910886 TTT---CACACTATTGAGCAATGTGGTCAAGAAGGGAGATG-----CTGCTTTGCCC-
+q rn4.chr1 999---99999999999999999999999999999999999-----99999999999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 39166 53 + 79436 TTT---CAAGCCCCTGGAGAGTGTCTTCAGGGAGGAGGGAG-GGGCCTGCTTGTCCC-
+q oryCun1.scaffold_197619 999---99999999999999999999999999999999999-999999999999999-
+i oryCun1.scaffold_197619 C 0 C 0
+s rheMac2.chr4 108438827 54 + 167655696 TTT---AAGGCCACTGGGGAGTGCCTTCGACGAGGAAGAAGTGGGACTGGTTGTCCC-
+q rheMac2.chr4 999---999999999999999999999999999999999999999999999999999-
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 1070 54 - 523245 TTT---AAGGCCACTGGGGAGTGTCTTCGATAAGGAGGAAGTGGGACTGCTTGTCCC-
+i calJac1.Contig1260 C 0 C 0
+s hg18.chr6 16031242 57 - 170899992 TTTAAAAAGGCCACTGGGGAGTGCCTTCGACGAGGAAGACGTGGGACTGGTTGTCCC-
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16553599 54 - 173908612 TTT---AAGGCCACTGGGGAGTGCCTTTGACGAGGAAGAAGTGGGACTGGTTGTCCC-
+q panTro2.chr6 999---999999999999999999999999999999999999999999999999999-
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16336312 55 - 174210431 TTT--AATTGCCACTGGGGAGTGCCTTCTGGGAGGAATAATGGGGACTGGTTGTCCC-
+i ponAbe2.chr6 C 0 C 0
+s equCab1.chr31 13001140 54 + 24938454 TTT---CAGGCCTTTGGGGAGTATTGTCAACAAGGAGGAAGGGCCATTGGTTTATCC-
+q equCab1.chr31 999---999999999999999999999999999999999999999999999999999-
+i equCab1.chr31 C 0 I 4
+s felCat3.scaffold_217398 68693 54 - 219823 TTT---CAGGCCATTGGGGAATGTCTTTAACAAGGAGGAAGGACCACTGGTTTCTCC-
+q felCat3.scaffold_217398 999---999999999999999999999999999999999999799977979999999-
+i felCat3.scaffold_217398 C 0 I 4
+s canFam2.chr1 78208011 54 - 125616256 TTT---CAGACCACTGGGAAGTGTCTTTGACAAGGAGGAAGGACCACTGATTTGGGC-
+q canFam2.chr1 999---999999999999999999999999999999999999999999999999999-
+i canFam2.chr1 C 0 I 4
+s loxAfr1.scaffold_7828 87046 53 - 87447 TTT---CAGGCTGGTAGG-AGGGCCTTGAACAGACAGGAAG-GGGACTGGTTTGTCCC
+q loxAfr1.scaffold_7828 799---649979898999-9792599999987897599987-9986769999976999
+i loxAfr1.scaffold_7828 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e tupBel1.scaffold_114895.1-498454 330484 21 - 498454 I
+e cavPor2.scaffold_286578 128739 1449 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=16654.000000
+s mm9.chr10 3138994 26 + 129993255 AG-CCTCCCTGTCCTTCCCTTGGCTGT-
+s rn4.chr1 229956940 26 - 267910886 AG-CGTTCCTGTCCTTTCCTTGGCTAT-
+q rn4.chr1 99-999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 130188 18 - 133272 AG-CAGCTCTGTCTTCCCA---------
+q cavPor2.scaffold_286578 34-5866999669999952---------
+i cavPor2.scaffold_286578 I 1449 C 0
+s oryCun1.scaffold_197619 39219 10 + 79436 GG-CAGCCCTG-----------------
+q oryCun1.scaffold_197619 99-99999999-----------------
+i oryCun1.scaffold_197619 C 0 C 0
+s rheMac2.chr4 108438881 26 + 167655696 AG-CAGAACTGTCCTAGCCTTGGCCGT-
+q rheMac2.chr4 99-999999999999999999999999-
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 1124 26 - 523245 AG-CAGAACTGCCCTAGCTTTGGCCGT-
+i calJac1.Contig1260 C 0 I 1
+s hg18.chr6 16031299 26 - 170899992 AG-CAGAACTGTCCTAGCCTTGGCTGT-
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16553653 25 - 173908612 AG-CAGAACTGTCCCAGCA-GAACTGT-
+q panTro2.chr6 99-9999999999999999-9999999-
+i panTro2.chr6 C 0 I 1
+s ponAbe2.chr6 16336367 26 - 174210431 AG-CAGAACTGTCCTAACCTTGGCTGT-
+i ponAbe2.chr6 C 0 I 507
+s equCab1.chr31 13001198 27 + 24938454 AACCTTGTCTGTCTTGCCCTTGGTCGT-
+q equCab1.chr31 999999999999999999999999999-
+i equCab1.chr31 I 4 I 1
+s felCat3.scaffold_217398 68751 15 - 219823 AG------------TGCCATTGGTCAT-
+q felCat3.scaffold_217398 99------------9999995878999-
+i felCat3.scaffold_217398 I 4 I 1
+s canFam2.chr1 78208069 15 - 125616256 AG------------TGCCGTTGGTCCT-
+q canFam2.chr1 99------------9999999999999-
+i canFam2.chr1 I 4 I 1
+s loxAfr1.scaffold_7828 87099 27 - 87447 CG-CAGCCCTGTGCTGCCCTTGGTCCTT
+q loxAfr1.scaffold_7828 75-7576977994756499767977989
+i loxAfr1.scaffold_7828 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e tupBel1.scaffold_114895.1-498454 330484 21 - 498454 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=44092.000000
+s mm9.chr10 3139020 38 + 129993255 GATC-AGCTAGAACTGGCG-GCTTCCAGTCAGTGTGGTAG
+s rn4.chr1 229956966 38 - 267910886 GATC-ATCGAGAACTGGCA-GCTCCTGGTCAGTGTGGTAC
+q rn4.chr1 9999-99999999999999-99999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 130206 39 - 133272 GATCGATCCAGAGTGGGTA-GCACTCAGTTGGTGTGTTGC
+q cavPor2.scaffold_286578 9959866954999899779-86864111148868688984
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 39229 29 + 79436 -----ATTTATACTTGGCA-GTTC-----CAGTGGTTTGT
+q oryCun1.scaffold_197619 -----99999999999999-9999-----98999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig1260 1151 39 - 523245 GATCAGCCTGGAATGGGCAGGCTCTCAGTACATGTGTAG-
+i calJac1.Contig1260 I 1 I 1
+s rheMac2.chr4 108438908 36 + 167655696 GATCAGCCTAGAGTGGGTAGGCTGTCAAC---TGTGTAG-
+q rheMac2.chr4 99999999999999999999999999999---9999999-
+i rheMac2.chr4 I 1 I 332
+s hg18.chr6 16031326 36 - 170899992 GATCAGCCTCGAGTGGGTAGGCTCTCAACAATTGTG----
+i hg18.chr6 I 1 I 334
+s panTro2.chr6 16553679 36 - 173908612 GATCAGCCTCGAGTGGGTAGGCTCTCAACAATTGTG----
+q panTro2.chr6 999999999999999999999999999999999999----
+i panTro2.chr6 I 1 I 329
+s tupBel1.scaffold_114895.1-498454 330505 16 - 498454 -----------------------TTTAAAAATTGTGCTG-
+q tupBel1.scaffold_114895.1-498454 -----------------------8955888566788866-
+i tupBel1.scaffold_114895.1-498454 I 21 I 1
+s equCab1.chr31 13001226 40 + 24938454 GATCAGCCTAGAATGGGCAAGCTCTCAATAAGTGTGTTGT
+q equCab1.chr31 9989999999999999999999999999999999999999
+i equCab1.chr31 I 1 C 0
+s felCat3.scaffold_217398 68767 39 - 219823 GCTTGGCATGGAATGGGCAGGTTCTCAATAAGTGTGTTG-
+q felCat3.scaffold_217398 999899996979979998899999999999999999957-
+i felCat3.scaffold_217398 I 1 C 0
+s canFam2.chr1 78208085 40 - 125616256 GCTGGGCCTGGAATAGGCTGGTTCTCAGTAAGTGTGTTGT
+q canFam2.chr1 8899999988889999998888888888999999999999
+i canFam2.chr1 I 1 C 0
+s loxAfr1.scaffold_7828 87126 40 - 87447 GATCAGCCTGGAGTCGGCAGGCTCTGAATAAGTGTGTTGT
+q loxAfr1.scaffold_7828 9556589869777566576957976679999695566763
+i loxAfr1.scaffold_7828 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+e ponAbe2.chr6 16336393 507 - 174210431 I
+
+a score=100511.000000
+s mm9.chr10 3139058 43 + 129993255 TGAGTGAGCACATCTGGATAGCTTT------CCTGT----------CAGAATCCTCCCA
+s rn4.chr1 229957004 41 - 267910886 TGAGTGAGCACACTGGGACACCTTT------CCTGT----------CAGAA--CTCCTA
+q rn4.chr1 9999999999999999999999999------99999----------99999--999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 130245 22 - 133272 TGAGTAAGCACATCTGTAAAAC-------------------------------------
+q cavPor2.scaffold_286578 9999999888999999999999-------------------------------------
+i cavPor2.scaffold_286578 C 0 I 15
+s oryCun1.scaffold_197619 39258 51 + 79436 TGAGCGAGCGCATTCATACACCCTG------ACTTTGGTCCCGGAACACAAGTCCCC--
+q oryCun1.scaffold_197619 9999999999999999999999999------99999999999999999999999999--
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16031696 51 - 170899992 TGAGTCAGCACATCTCTAAAACCCA------CCTTTGGTCCCAGGACAGAAGTCTCT--
+i hg18.chr6 I 334 C 0
+s panTro2.chr6 16554044 51 - 173908612 TGAGTCAGCACATCTCTAAAACCCA------CCTTTGGTCCCAGGACAGAAGTCTCT--
+q panTro2.chr6 9999999999999999999999999------99999999999999999999999999--
+i panTro2.chr6 I 329 C 0
+s ponAbe2.chr6 16336900 57 - 174210431 TGAGTCAGCACATCTCTAAAACCCAGCACATCTCTAAAACCCAGAAGAGAGGTCTCT--
+i ponAbe2.chr6 I 507 C 0
+s rheMac2.chr4 108439276 51 + 167655696 TGAGTCAGCACGTCTATAACACCCA------GCTTTGGTCCCAGGAGAGAAGTCTCT--
+q rheMac2.chr4 9999999999999999999999999------99999999999999999999999999--
+i rheMac2.chr4 I 332 C 0
+s calJac1.Contig1260 1191 51 - 523245 TCAGCGAGCACATCTATAAAACCCA------GCTTTGGTCCCAGAACAGAAGTCTCT--
+i calJac1.Contig1260 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 330522 51 - 498454 TGAGTGAGCACAGCTGTGAAATCCA------CCTTGCATGGCAGAATAGAAGTCTCC--
+q tupBel1.scaffold_114895.1-498454 5786678446999968769945696------98896796657998998989468899--
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s equCab1.chr31 13001266 50 + 24938454 TGAGTGGGCACATCTATA-AAACCA------GCTTTAGTCCCAGAACAGAAGTCTCT--
+q equCab1.chr31 999999999999999999-999999------99999999999999999999999999--
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 68806 41 - 219823 -AGG-GAGCAC--------GACCCA------GCTTCAGTTGCAGAGCAGAAGTCTCT--
+q felCat3.scaffold_217398 -999-999999--------999999------99999999999999999999999999--
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78208125 49 - 125616256 TGAG-GAACACATCATAA-GACCCA------GCCTTAGTGGCAGAAGAGAAGTCTCT--
+q canFam2.chr1 9999-8899999999999-999999------99999999999999999999999999--
+i canFam2.chr1 C 0 C 0
+s loxAfr1.scaffold_7828 87166 51 - 87447 TGAATGACCATGTCAATAAAACACG------CCTTTAGTTCCAAAACAGAAGTCTCT--
+q loxAfr1.scaffold_7828 7756796699997699999979566------99996666669999654867376758--
+i loxAfr1.scaffold_7828 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=192915.000000
+s mm9.chr10 3139101 85 + 129993255 CTGGCCAGCCAGTGCCCTCGCTAGCTAGCATCGGTCACCG-TCT--------CCATCAGACAGTGAAGGGGG-----CT-CTTCCC-------------------------TTCCGAGGCTCAG-C-
+s rn4.chr1 229957045 90 - 267910886 CCTGCCAGCCAGTGCCCTTGCTAGCTGGCCTCAGCCACTG-TCTCC-C--CACCATCAGACAGTGAAGGGGG-----CT-CTTCCC-------------------------TTCCAAGGCTGAG-A-
+q rn4.chr1 9999999999999999999999999999999999999999-99999-9--9999999999999999999999-----99-999999-------------------------9999999999999-9-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 130282 72 - 133272 CTGGCCAGCTTCTGACCTTCCT----------------CG-TTT-----------TCAACCAAtaataagggttttttt-tttttc-------------------------ttcaaagatggAGCC-
+q cavPor2.scaffold_286578 9999999999999999999999----------------99-999-----------998999899999999999999999-999989-------------------------998899999999999-
+i cavPor2.scaffold_286578 I 15 C 0
+s oryCun1.scaffold_197619 39309 89 + 79436 CTCGCCAGCTTTGGGTGTTGTTAGCAGAGGTTA-----CG-TTTCT-CATCACCATCTGAGAGTAAAGGGGG-----CTGATTTTG-------------------------TTCAGAGTCCAAGCC-
+q oryCun1.scaffold_197619 889999899999999999999999999999999-----99-99999-9799799999999999999999999-----999999999-------------------------999679989889999-
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16031747 87 - 170899992 CTGGCCAGCTTCTGGTGCTGCTAGTGTTGGTAG-----CA-GTCCC-CATCACCAACCAAGAGAAAAGGGGG-----CT-TTCTTG-------------------------CTCAAGGTCTAAG-C-
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16554095 87 - 173908612 CTGGCCAGCTTCTGGTGCTGCTAGTGTTGGTAG-----CA-GTCCC-CATCACCAACCAAGAGAAAAGGGGG-----CT-TTCTTG-------------------------CTCAAGGTCTAAG-C-
+q panTro2.chr6 999999999999999999999999999999999-----99-99999-9999999999999999999999999-----99-999999-------------------------9999999999999-9-
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16336957 87 - 174210431 CTGGCCAGCTTCTGGTGCTGCTAGTGTTGGTAG-----CA-GTCCC-CATCACCAACCAAGAGAAAAGGGGG-----CT-TTCTTG-------------------------CTCAAGGTCTAAG-C-
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108439327 87 + 167655696 CTGGCCAGCTTCTGGTGCTGCTAGTTTTGGTCG-----CA-GTCCC-CATCACCAACCAAGAGAAAAGGGGA-----CT-TGCTTG-------------------------CTGAAGGTCTAAG-C-
+q rheMac2.chr4 999999999999999999999999999999999-----99-99999-9999999999999999999999999-----99-999999-------------------------9999999999999-9-
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 1242 87 - 523245 CTGGCCAGCTTCTGGTGCTGCTAGTGTAGGTAG-----CA-GTCCC-CGTCACCAACCCAGAGAAAAGGGGG-----CT-TTCTTG-------------------------CTCAAGGTCTAAG-C-
+i calJac1.Contig1260 C 0 I 46
+s tupBel1.scaffold_114895.1-498454 330573 86 - 498454 CTGGTCAGCTGTTGGCACTGCTAGAAT--GCAC-----CATGTTCC-TATCACCAACTAGGAGTAGAGGGGA-----CT-TTCTTG-------------------------CTTGTAAGCTGAG-G-
+q tupBel1.scaffold_114895.1-498454 988579988888895589999999999--6855-----98978789-9789599999989999999978997-----99-999999-------------------------9988999999999-9-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13001316 87 + 24938454 CT-GCCAGTTTCTGGCGCTGCTAGCGTGGGTAA-----CA-TTTCCACATCACCAACCAAGAGAAAAGGGGG-----CT-TTCTTG-------------------------CTTGAGGTCTGAG-C-
+q equCab1.chr31 99-999999999999999999999999999999-----99-9999999999999999999999999999999-----99-999999-------------------------9999999999999-9-
+i equCab1.chr31 C 0 I 5
+s felCat3.scaffold_217398 68847 83 - 219823 TTGGCCAGCTTCTGGCTCT----GCATGGGCAC-----CG-TTTCCCCATCACCAGCCAAGAGTAAAGGGGG------T-TTCTTG-------------------------CTTACGGTCTGAG-C-
+q felCat3.scaffold_217398 9899999999999999999----9999999999-----99-9999999999999999999999999999999------9-999999-------------------------9999999999999-9-
+i felCat3.scaffold_217398 C 0 I 5
+s canFam2.chr1 78208174 107 - 125616256 CTGGCTAGCTTCTGGCTCC--TAGCAT-GGTAC-----CA-TTTCTCCATCACCAGGCAGGAGTAGA-AGGG------T-TTCTTGTGGGATTCAGGGCATCTGCCCATTCTCTGCGGTCCGA--C-
+q canFam2.chr1 9999999999999999999--999999-99999-----99-99999999999999999999899999-9999------8-8899999999999999999999999999999989999999999--9-
+i canFam2.chr1 C 0 I 5
+s loxAfr1.scaffold_7828 87217 88 - 87447 CTGGCCAGGTTCTGACACTGCTGGCAGGGGTAG-----TG-TCCCC-TATCACCAACCAAGAAAATAGGGGA-----CC-TTCTTG-------------------------CCTAAGGTCTAGA-CC
+q loxAfr1.scaffold_7828 657699477994345599563545458999455-----43-49999-4567489768945358999599935-----59-786643-------------------------6999796985724-67
+i loxAfr1.scaffold_7828 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=-129288.000000
+s mm9.chr10 3139186 38 + 129993255 GGGTGGGTGCGGAGCATT-------------------------------------------------------------------TGC--------CTG--AGCATGCGGCTTAT----------
+s rn4.chr1 229957135 73 - 267910886 GGGAAGGTGGGTGGCACTGGGGGCATTTGCTTGT------C-----CACCACT--CTTTCCCGGAA-------------------TGC--------CTG--AGCATGCAGCATAT----------
+q rn4.chr1 9999999999999999999999999999999999------9-----9999999--99999999999-------------------999--------999--99999999999999----------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 130354 81 - 133272 TGTTGGATTCAAGGCTTTGAGCCTCCTAACTGGT------CATGGGCACTGCT--CTTTCCTTGTACTTT--------------CAGC--------CAA--GATATGATGC--AT----------
+q cavPor2.scaffold_286578 9999999999999999999999999999999999------9999999998999--999999999999999--------------9899--------979--8999999999--99----------
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 39398 87 + 79436 TCTGGGAATCGGGGCATT---------TGTCTGT------C-----CTCTGTTACCTGTCCATGGGCACTGCTGCACCCCTGTAATGT--------CTGCTAGTATGTGGCAGGT----------
+q oryCun1.scaffold_197619 999999999999999999---------9999997------8-----889999988899989699999999999997999899999999--------9899999999999987696----------
+i oryCun1.scaffold_197619 C 0 C 0
+s rheMac2.chr4 108439414 36 + 167655696 ----------------------------------------CTCGGGCCCTGCT--CTTTCCCTGTC------------------ATGT--------CTA--TTTGT-------------------
+q rheMac2.chr4 ----------------------------------------9999999999999--99999999999------------------9999--------999--99999-------------------
+i rheMac2.chr4 C 0 I 10
+s ponAbe2.chr6 16337044 36 - 174210431 ----------------------------------------CACGGGCCCTGCT--CTTTCCCTGTC------------------ATGT--------CTG--TTTGT-------------------
+i ponAbe2.chr6 C 0 I 10
+s panTro2.chr6 16554182 36 - 173908612 ----------------------------------------CACGGGCCCTGCT--CTTTCCCTGTC------------------GTGT--------CTA--TTTGT-------------------
+q panTro2.chr6 ----------------------------------------9999999999999--99999999999------------------9999--------999--99999-------------------
+i panTro2.chr6 C 0 I 10
+s hg18.chr6 16031834 36 - 170899992 ----------------------------------------CACGGGACTTGCT--CTTTCCCTGTC------------------GTGT--------CTA--TTTGT-------------------
+i hg18.chr6 C 0 I 10
+s tupBel1.scaffold_114895.1-498454 330659 53 - 498454 ------------------------------TTGT-GGGGCCAGGACATTTGCT--CACTCTCTGGT------------------ATCTGGCCACAGCTA--CTGCT-------------------
+q tupBel1.scaffold_114895.1-498454 ------------------------------9999-999679999999999899--98999999999------------------999994699999999--99999-------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 16
+s equCab1.chr31 13001408 39 + 24938454 -----------------------------------GGATTCAGGGCGTTTGTC--CATTCTCCGTA--------------------AT--------CTG--ATCAT-------------------
+q equCab1.chr31 -----------------------------------999899999999999999--99999999999--------------------99--------999--99999-------------------
+i equCab1.chr31 I 5 I 12
+s felCat3.scaffold_217398 68935 34 - 219823 -----------------------------------GGATTCAGAACATTTGCT--CATCCTCTGTA--------------------AT--------CTG--------------------------
+q felCat3.scaffold_217398 -----------------------------------999999999999999999--99999999999--------------------99--------999--------------------------
+i felCat3.scaffold_217398 I 5 I 11
+s canFam2.chr1 78208286 29 - 125616256 -----------------------------------GGA----------CTGCT--CTTCCTGTAAC--------------------GT--------CTG--TTAGT-------------------
+q canFam2.chr1 -----------------------------------999----------99999--99999899999--------------------99--------999--99999-------------------
+i canFam2.chr1 I 5 I 15
+s loxAfr1.scaffold_7828 87305 52 - 87447 -------------------------------TGTGGAATTCAAAGTGTTTGCT---GTTGTCAGTT--------------------AA--------CTG--ACTGT---------GGCCATACTC
+q loxAfr1.scaffold_7828 -------------------------------4447597656976333953353---3642777599--------------------99--------746--77364---------5259796687
+i loxAfr1.scaffold_7828 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e calJac1.Contig1260 1329 46 - 523245 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=35570.000000
+s mm9.chr10 3139224 47 + 129993255 C-GTATCG----GCAA-----CTTAGAGGGCC--CC-------ACTG---------------TGTGCTCGTGGAG----GGGCTG
+s rn4.chr1 229957208 41 - 267910886 G-G----G----CAAC-----CGTAAAGGGTC--TC-------ACTG---------------TGTGCTCATGGAA----GGGC--
+q rn4.chr1 9-9----9----9999-----99999999999--99-------9999---------------9999999999999----9999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 130435 43 - 133272 T-G----G----CAGT-----CCTAACATGCC--TC-------ATTG---------------CGTGCTCTTGGAG----GGGCTG
+q cavPor2.scaffold_286578 9-9----7----9999-----99999999999--99-------9999---------------9999999999999----997999
+i cavPor2.scaffold_286578 C 0 I 940
+s oryCun1.scaffold_197619 39485 43 + 79436 T-G----G----CGGT-----CTTGACCTACC--TC-------ATTA---------------TTTGGTCTCTGTA----GAGATC
+q oryCun1.scaffold_197619 9-9----9----9999-----98999788977--89-------6999---------------9999999977999----999997
+i oryCun1.scaffold_197619 C 0 I 2
+s calJac1.Contig1260 1375 44 - 523245 TCA----G----CAGT-----CTTAAGGTGCT--TC-------ACTC---------------TTTGGTCATGTAA----AGGCTG
+i calJac1.Contig1260 I 46 I 17
+s rheMac2.chr4 108439460 43 + 167655696 T-A----G----CAAT-----CTTAAGGTGCT--TC-------ACTA---------------TTTGGTCATGGAA----AGGCTG
+q rheMac2.chr4 9-9----9----9999-----99999999999--99-------9999---------------9999999999999----999999
+i rheMac2.chr4 I 10 I 17
+s ponAbe2.chr6 16337090 43 - 174210431 T-A----G----CAGT-----CTTAAGGTGCT--TC-------ACTA---------------TTTGGTCGTGGAA----AGGCTG
+i ponAbe2.chr6 I 10 I 17
+s panTro2.chr6 16554228 43 - 173908612 T-A----G----CAGT-----CTTAAGGTGCT--TG-------ACTA---------------TTTGGTCATGGAA----AGTCTG
+q panTro2.chr6 9-9----9----9999-----99999999999--99-------9999---------------9999999999999----999999
+i panTro2.chr6 I 10 I 17
+s hg18.chr6 16031880 43 - 170899992 T-A----G----CAGT-----CTTAAGGTGCT--TG-------ACTA---------------TTTGGCCATGGAA----AGTCTG
+i hg18.chr6 I 10 I 17
+s tupBel1.scaffold_114895.1-498454 330728 51 - 498454 T-A----GGCCACAGC-----TTTGAGGTGCC--TC-------ACTG---------------TTTGGTCTTGGTAGTGGGTGCTG
+q tupBel1.scaffold_114895.1-498454 9-9----956999999-----99999999999--99-------9999---------------99999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 16 I 17
+s equCab1.chr31 13001459 59 + 24938454 -------------TGT--TTCCCTGTGATGTCTGTT-------AGTATGTGGCACTCACCATTTTGGTCATGGAG----GGACTG
+q equCab1.chr31 -------------999--999999999999999999-------99999999999999999999999999999999----997799
+i equCab1.chr31 I 12 I 17
+s felCat3.scaffold_217398 68980 46 - 219823 -------------CGTTCTTCCCTGTAGTGTCTGTC-------CGTG---------------TTTGGTCCTGGAG----GGGCTA
+q felCat3.scaffold_217398 -------------99999999999999999999999-------9999---------------9999999999999----999999
+i felCat3.scaffold_217398 I 11 I 17
+s canFam2.chr1 78208330 39 - 125616256 -------------AGT-----CTTACAGCGCC--TC-------ACTG---------------TTTGGTTCTGGAG----GGGCTA
+q canFam2.chr1 -------------999-----99999998899--99-------9999---------------9999988887778----889998
+i canFam2.chr1 I 15 I 17
+s loxAfr1.scaffold_7828 87357 47 - 87447 -----------------TGTCTCTGTAATGTC--TGTGAGTCAACTG---------------TTTGGTCTTGGAG----GGGCTG
+q loxAfr1.scaffold_7828 -----------------357585559985597--5546857898855---------------8836385716457----765718
+i loxAfr1.scaffold_7828 C 0 N 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=66707.000000
+s mm9.chr10 3139271 91 + 129993255 GTGGG----TTTCACACTG-AGGTCAACTGGCGTGTGATGTCTTACACTATTGGG-CACTGTCATTTCTCCCGACAGCATA------TG--AGGC-CATGGTTTTG---------
+s calJac1.Contig1260 1436 91 - 523245 ATGGAGATCTGATACATCTTAGGTCAACTGCAATGTACCACCTTGCACTGTTAAG-CCCT--------TCCTGCTGCCGTC-TAGAC----AGGC-AGTTCTTTCT---------
+i calJac1.Contig1260 I 17 I 11
+s rheMac2.chr4 108439520 86 + 167655696 ATAGAGATCTGATACATCATAGGTCAACTGCAATACACTACCTTGCACGGTTAGG-CCCT--------TCTTGCCTCTGTC-CAGACAG--AGGC--------TTT---------
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999-9999--------9999999999999-9999999--9999--------999---------
+i rheMac2.chr4 I 17 I 11
+s ponAbe2.chr6 16337150 93 - 174210431 ATAGAGATCTAATACATCACAGGTCAACTGCAATGTACTACCTTGCACTGTTAGG-GCCT--------TCCTGCCACCGTC-CAGACAG--AGGC-AGTTCTTTCT---------
+i ponAbe2.chr6 I 17 I 11
+s panTro2.chr6 16554288 93 - 173908612 ATAGAGATCTGATACATCACAGGTCAACTGCAATGTACTACCTTGCACTGTTAGG-CCCT--------TCCTGCCACCATC-CAGACAG--AGGC-AGTTCTTTCT---------
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999-9999--------9999999999999-9999999--9999-9999999999---------
+i panTro2.chr6 I 17 I 11
+s hg18.chr6 16031940 93 - 170899992 ACAGAGATCTGATACATCACAGGTCAACTGCAATGTACTACCTTGCACTGTTAGG-CCCT--------TCCTGCCACCGTC-CAGACAG--AGGC-AGTTCTTTCT---------
+i hg18.chr6 I 17 I 11
+s tupBel1.scaffold_114895.1-498454 330796 84 - 498454 ATAGGGCTCTGGAGCCTTATAGATCACCT----------ACCCTGCTCTGTTAGA-TTCT--------TCCTGCCACCATC-CATATGG--AGACCAGTTCTTTTT---------
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999----------9999999999999999-9999--------9999999999999-9999999--999999999999999---------
+i tupBel1.scaffold_114895.1-498454 I 17 I 11
+s equCab1.chr31 13001535 90 + 24938454 ATAGGGATCTGGTACATTGTAGGTCACCTGCAGAGTAGCAC---------------CTCG--------CTCTGTTGGCCCGTCACACAG--AGGTCCCTTCTTTTTGTAATCCTG
+q equCab1.chr31 99999989999999999999999999999999999999997---------------9999--------899998993299979999999--995799999869999879999999
+i equCab1.chr31 I 17 I 2
+s felCat3.scaffold_217398 69043 96 - 219823 GTAGAGATCGGGTACATTGTAGGTCAACGCCAGTGTTAGGCCAT-------TAGG-CCCC--------TGCTGCTGCCGTCATAC-TAG--AGGTCAGTTCCTCCCATAACCCTG
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999-------9999-9999--------99999999999999999-999--999999999999999999999999
+i felCat3.scaffold_217398 I 17 I 2
+s canFam2.chr1 78208386 98 - 125616256 ATACAGATCTGGTACATAGTAGGTCAACTCCAGTATTAGGCCCC-------TGGGCCCCC--------TCCTGCTGCCAATCTATACAG--AGGCCAGTTCTTCCCATAATCCTG
+q canFam2.chr1 99999999998899999999777799999977778897999999-------999999999--------999999999999999999999--878899999999999999999999
+i canFam2.chr1 I 17 I 2
+s oryCun1.scaffold_197619 39530 76 + 79436 -----------GTAAATTGTAGGCCAGTTATCATGTGTGACTTCA------------GCTGTCACACCTTCTTCCTGCCTT------TGCCAGTT-TGGAGGTTGG---------
+q oryCun1.scaffold_197619 -----------9799989989999979999999999999979999------------999999996977989999899799------99999999-9999999999---------
+i oryCun1.scaffold_197619 I 2 C 0
+s rn4.chr1 229957249 90 - 267910886 ----------GTCACACTGTAGGTCAACCGGAGTGTGATATCTCACACTGTTGGG-CACTGTCATTTCTCCCAACAGCAGC--ATATGG--GGGC-CAGGGTTTTG---------
+q rn4.chr1 ----------999999999999999999999999999999999999999999999-9999999999999999999999999--999999--9999-9999999999---------
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13657510 81 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e cavPor2.scaffold_286578 130478 940 - 133272 I
+e otoGar1.scaffold_334.1-359464 300434 1659 - 359464 I
+
+a score=502226.000000
+s mm9.chr10 3139362 178 + 129993255 TCCACTTGAGG-GTGCAC----------------CTTTTTTTTTTAACCTCTGAGGTCACTGGAATGGGGAGCTC--------TCAGGAGCTGTAGGCTCATCCTTTTACCATATGTCCAGAAACGT---CTTTCCGAAAGTCAACCCCTCCTCCCCCCATGGTTCTCTTCTGTTTCCCGGGCTCCAGCATTAAAATCTTCTTAAT
+s rn4.chr1 229957339 177 - 267910886 CCCAGTTGAGG-GCCCAGTCCAGTTGAGGGTGTACCTGTTCTTTTAGCCTCTGTGGTCACTAGAATGG------------------GGAGCTGTAGGCTCATCATTTTACCCTACGTCCAGAAACTT---CTTTCTGAATATACATCC-----CCCTCTCTGGTTCTCT--GATTTCCTGGGCTCCAGCATTAAAGTCTTCTTAAT
+q rn4.chr1 99999999999-99999999999999999999999999999999999999999999999999999999------------------99999999999999999999999999999999999999999---999999999999999999-----9999999999999999--99999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 39606 183 + 79436 TTCTCTTTGTA-GTCCTGATCGGGGCTTGGGTTGTATATTCTGTTAACTTCCAGGGTCACTGGAAAAGGGAGATCCTT---TTCTCTTAGCTGCAGGTGCACAGGTTGGCTGTAGCTCCAAAAACTC---TTCTC-----ATTTCACT-----CTCTCCCTGGTTCTTTTCTCTCTCCTATAACTTG------AAGTTTCCTTAAT
+q oryCun1.scaffold_197619 99999999999-999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999---99999-----99999999-----9999999999999999999999999999999999------9999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16032044 174 - 170899992 TCCAGTTTAGG-TTATA-----------------CCTTCTCTTTTAGTCTCTGTGGTCCCTGGGAAAGGGAGGCCTTTTTGTTTTAGCAGCCGTAGGTCTACCATTTGGCCATAGTTCAGAAAAGCT---CTTC------ATTCCACC-----CTCTCCTTGGTTCCATTCACTCTCCTGCACTCCAGTGATAAAATTCTCTTAAT
+i hg18.chr6 I 11 C 0
+s panTro2.chr6 16554392 174 - 173908612 TCCAGTTTAGG-TTATA-----------------CCTTTTCTTTTAGTCTCTGTGGTCCCTGGGAAAGGGAGGCCTTTTTCTTTTAGCAGCCGTAGGTCTACCATTTGGCCATAGTTCAGAAAAGCT---CTTC------ATTCCACC-----CTCTCCTTGGTTCCATTCTCTCTCCTGCACTCCAGTGATAAAATTCTCTTGAT
+q panTro2.chr6 99999999999-99999-----------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999------99999999-----99999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 11 C 0
+s ponAbe2.chr6 16337254 174 - 174210431 TCCAGTTTAGG-TTATA-----------------CCTTTTCTTTTAGCATCTGTGGTCCCTGGGAAAGGGAGGCCTTTTTCTTTTAGCAGCCGTAGGTCTACCATTTGGCCATAGTTCAGAAAAGCT---CTTC------ATTCCCCC-----CTCTCCTTGGTTCCATTCTCTCTCCTGCACTCCAGTGATAAAATTCTCataat
+i ponAbe2.chr6 I 11 C 0
+s rheMac2.chr4 108439617 175 + 167655696 TCCAGTTTAGGTTTATA-----------------CCTTTTCTTTTAGCCTCTGTGGTCCCTGGGAAAGGGAGGCCTTTTTCTTTTAGCAGCTGTAGGTCTACCATTTGGCCATAGTTCAGAAAAGCT---CTTC------ATTCCACC-----CTCTCCTTGGTTCCATTCTCTCTCCTGCACTCCAGTGATAAAATTCTCTTAGT
+q rheMac2.chr4 99999999999999999-----------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999------99999999-----99999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 11 C 0
+s calJac1.Contig1260 1538 174 - 523245 TCCAGTTTAGG-TTATA-----------------ACTTTTCTTTTAGCCTCTGTGGTCCCTCAAAAATTGAGGCCTTTTTCTTTTAGCAGCTGTAGGTCTGTCATCTGGCTGGAGTTCAGAAAAACT---CTTC------ATTCCACC-----CTTGCCTTGGTTTCATTCTCTCTCCTGCACTCCAGTGAAAAAATTCCCTTAAT
+i calJac1.Contig1260 I 11 I 1041
+s otoGar1.scaffold_334.1-359464 302093 170 - 359464 TCTAATTTAGG-TTATA-----------------ACTTTTCTTTTAGCCTCTGTGGTCCCT-GGAAAGGAAGCTCCTTTTCTTTTAGCAGCTGTAGATCTATCATTTGGTCATAGGTCAAAAAA------CTCT------GTTCCCCT-----CTCTCCCTGGTTCAGTTCTCTCTCCTGCCTTCCAGTGATAACATTCCCTTAAT
+q otoGar1.scaffold_334.1-359464 66675498463-65556-----------------669998899957656995656446964-85996576766657999779998767979486887769879879696799975369999997------5997------69679999-----99998997899999879999999999799999999899996869979999999
+i otoGar1.scaffold_334.1-359464 I 1659 C 0
+s tupBel1.scaffold_114895.1-498454 330891 154 - 498454 TCTGGTTTAGG-CTATA-----------------CCTTTTCTTTGCGCTTTTACAATCACCAGAAAAGGGAGATCTTATTATTTCAGCAGCCATAGGTCCAGC-CTTGACCATAGGTTTGAAAA-CT---GTTC------ATTCCACT-----------------------TCTCTCTTGGATTCCAGCGGTAAAGATTTCTTAAT
+q tupBel1.scaffold_114895.1-498454 99999999999-99999-----------------999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999-99---9999------99999999-----------------------99999999999999999099999999999999999
+i tupBel1.scaffold_114895.1-498454 I 11 C 0
+s equCab1.chr31 13001627 171 + 24938454 TCCAGTT-GGG-TTATG-----------------TGTTTTCCTTTAGCCTCTCTGGTCACTGAAGAAGGGAGGTCCTTTTCTTTTGGCAGTTGTGACCATCTGGCT-----GTAGGTCAAGAACTTTCCTCTTT------ATTCTACT-----CTCTTCCCAGTTCTGTTCTATCTCCTGGACTCCAGCCATAGAGTTTTCTTAAT
+q equCab1.chr31 9988989-998-79999-----------------996999999999999999999999999999999999997476999999999999999999999999999999-----99999999999999999999999------99999999-----99999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 2 C 0
+s felCat3.scaffold_217398 69141 165 - 219823 TTCAATT-AGG-TTATG-----------------CTTTTCCCTTTAGCCTCTGTGGTCAGTGAAAAAGGGAGGTC-----CGTTCGAGAGCTGTATGTCTCCCTC------AGAGGTCAGAAACCCTTCACTTT------ATTGCGTA-----CACTTCCTGGTTCTGGTCTATTTCCTGGGCTCCAGCCATAGAGTTATCTTACT
+q felCat3.scaffold_217398 9999999-999-99999-----------------99999999999999999999999999999999999999999-----9999999999999999999999999------99999999999999999999999------99999999-----99999997999997999999999996899999999999999999949779899
+i felCat3.scaffold_217398 I 2 C 0
+s canFam2.chr1 78208486 169 - 125616256 TCCGACT-AGG-ATGTA-----------------TTTTTCCCGTTAGCCT-TGTGGTCAGTGAAAAAAGGAGGTCCTTTTCTTTTGACAGTTGTAGGTCTCCTTC------GTAGGCTGGAAACTCTTCTCTTG------ATTCTACT-----CTCCTCCTGGTTCTAGTCTATTTCCTGGGTTCTAGCCATAGAGTTGTCATAGT
+q canFam2.chr1 9999999-999-99999-----------------9999999999999999-999999999999999999999999999999999999999999999999999999------99999999999999999999999------99999999-----99999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 2 C 0
+s bosTau3.chr9 13657591 156 - 95030419 ----------------------------------CTTCTTCCTTTAGCCTCTAGGGTTGCTGAAAAACGAAGGTCCTTTTCTTTTGGCAGCTGTAGGTCTACCATTTGGCCGTGGGTCAAGAACTCTTTGCTTT------ATTCCAAT-----TTCTTGCCAGT-----TCTATCTCCTGGATTCCAGCCATAGAGTTTTCTTAAT
+q bosTau3.chr9 ----------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------99999999-----99999999999-----9999999999999999999999999999999999999
+i bosTau3.chr9 I 81 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e cavPor2.scaffold_286578 130478 940 - 133272 I
+
+a score=164615.000000
+s mm9.chr10 3139540 78 + 129993255 CACCAT---ATTGGAAAAAGATTAAATGAAagcatttacgat-gt---ggtacatgctg-----------------------------------tttcaagag---cttgcttcagacaccct
+s rn4.chr1 229957516 75 - 267910886 CACCAT---ATTGGAAAAGCATTAAatg-gagcatttattgt-gt---gg--cactctg-----------------------------------ttccaagag---cttgctttagacacctt
+q rn4.chr1 999999---9999999999999999999-9999999999999-99---99--9999999-----------------------------------999999999---99999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 131418 78 - 133272 CATAAT---AACAGGAAAACTTTGAA---AAATTTATGTGCT-GTTAAAGCAGATGCTG-----------------------------------TTCTAAGTG---CTTGTTTTAGCCTCTTT
+q cavPor2.scaffold_286578 999999---99999999999997999---9999999999997-9999999999999999-----------------------------------999999999---99899999999999999
+i cavPor2.scaffold_286578 I 940 C 0
+s oryCun1.scaffold_197619 39789 65 + 79436 CCTAAG---AATAGAG-------------Aagtactgatttt-gt---agcaggtgctg-----------------------------------tcctaagtg---ctttgtttggatttcta
+q oryCun1.scaffold_197619 999999---9999999-------------9999999999999-99---99999999999-----------------------------------999999999---99999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16032218 71 - 170899992 ---------AACAGAAAaacattgattg-atgcacttattatctt---ggcagacgctg-----------------------------------ttctaagtg----tttATTTAGGCTCTCT
+i hg18.chr6 C 0 I 159
+s panTro2.chr6 16554566 71 - 173908612 ---------AACAGAAAaacattgattg-atgcacttattatctt---ggcagacgctg-----------------------------------ttctaagtg----tttATTTAGGCTCTTT
+q panTro2.chr6 ---------9999999999999999999-9999999999999999---99999999999-----------------------------------999999999----9999999999999999
+i panTro2.chr6 C 0 I 159
+s ponAbe2.chr6 16337428 72 - 174210431 ---------aacagaaaaacattgattg-atgcatttattatctt---ggcagacgctg-----------------------------------ttctaagtt---ctttaTTTAGGCTCTCT
+i ponAbe2.chr6 C 0 I 159
+s rheMac2.chr4 108439792 72 + 167655696 ---------AACAGAGAAACATTGATTG-ATGCATTTATTATCTT---GGCAGACGCTG-----------------------------------TTCTAAGTG---CTTTATTTAGGCTCCCT
+q rheMac2.chr4 ---------9999999999999999999-9999999999999999---99999999999-----------------------------------999999999---99999999999999999
+i rheMac2.chr4 C 0 I 164
+s otoGar1.scaffold_334.1-359464 302263 74 - 359464 -TACA-AAAAACAGGAAaacgttgattg-acgcaccgatgat-gt---ggtaggtgctg-----------------------------------tcatgagtg-------atttaggtccccc
+q otoGar1.scaffold_334.1-359464 -9799-9999799999999999999999-9999999999999-99---99999999999-----------------------------------999999999-------9999999799999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 331045 78 - 498454 ---CATCGTAATAAAAGCACTTCGGTTA-AAGCATTTATTAT-GT---GGCTTATGCTA-----------------------------------TTCTAAGTATTTCATTATTGGGACTCT--
+q tupBel1.scaffold_114895.1-498454 ---9999999999999999999999999-9999999999999-99---99899999999-----------------------------------999999999999999999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s bosTau3.chr9 13657747 112 - 95030419 CATAAT---AGTAGAAaaacattcattg-aagcatttattat-gt---atcagacggtgggccaCATACTTcatttattatgtatcagacagtcggccacata---cttcatttaggcttctt
+q bosTau3.chr9 999999---9999999999999999999-9999999999999-99---9999999999999999999999999999999999999999999999999999999---99999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13001798 77 + 24938454 CATAAT---AATGGAAAaacattcattg-aagcatttatttt-gt---gtcagacgctg-----------------------------------tgctaagtg---ctttatctggactccct
+q equCab1.chr31 999999---9999999999999999999-9999999999999-99---99999999999-----------------------------------999999999---99999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 69306 74 - 219823 CATaat---aatagaaaaacacttcttg-aagcacttactat-gt---gtcagacgcta-----------------------------------tgctaagtg---ctttgtttggactc---
+q felCat3.scaffold_217398 769932---1114477532247898999-7585869899599-99---99456989999-----------------------------------999867244---39999999999999---
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78208655 76 - 125616256 CATAGT---AATAGAAAaacgtttacag-aagcatttatgat-gt---gtcagacatgg-----------------------------------tgctaagtg---ctttatcttgactcct-
+q canFam2.chr1 999999---9999999999999999999-9999999999999-99---99999999999-----------------------------------999999999---9999999999999999-
+i canFam2.chr1 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e calJac1.Contig1260 1712 1041 - 523245 I
+
+a score=274199.000000
+s mm9.chr10 3139618 196 + 129993255 tctttgaatcctcagaaaaccca---aa--gcagagaggttggtaccattgttagcccatattaaa------gaaacagaggcaggaaga-----------------------------------------agGGTGTGGTTGGGGTCATGGGTTTACAAGCAG-TGT-GTGCTTTGAAG---CCTTC-----ATCCATCTCTTCACCTCCGTGATGCCT--CTCGCCAGT-CAGAGGAGCTGA-----CACCGACATCAGCTC----------------AG
+s canFam2.chr1 78208731 255 - 125616256 ---ac-aattctcagaaaacccagtgag--gtgtg------caaaccattattaacccatattaaagctgaagaaactgaagtggagaga----gAGGgagagagagggaaagggagagggagagagagaAAGAACATGCTCAGGGTCCCATATTTAAAAGTGG-TGGTGCTCGGAAACA---CCTTCCTGTCCCCCGTGACTCCATCGCAT-CATGGCC--TGCACATGGACAGTGGAGCTCCGTGGT---GAGTGTGGGCCCGGGAATCACA-TTCGGGA
+q canFam2.chr1 ---99-9999999999999999999999--99999------9999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999-999999999999999---99999999999999999999999999999-9999999--999999999999999999999999999---9999999999999999999999-9999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 69380 229 - 219823 ---at-aattctcaggaaacccaatgag--gtata------caaaccattattaacccatggtgaagacgaagaaactaaagcagagaga----gggagacag----------------------------agaacttgctcagggtcccctatttataagtga-cggggcTCAACAGCC---CTCTTGTTTCCTCCACGACTTCGTCATGTCCATGGCC--TGCACCAGGGCAGTGGAGTTCAGTGGT---GAGTGTGGGCTCTGGAATCAAACTTGGGGG
+q felCat3.scaffold_217398 ---49-9999999999999999999999--98662------3589999999999999999999999999999999999999999999999----999999999----------------------------999999999999999999999999999999999-999999999999999---9999999999999999999999999999999999999--999999999999999999999999999---999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13001875 219 + 24938454 ca-tt-aatcctcggaaaacccagtgag--gtgta------ccaaccgttaatagccc---gtaaagacgaggaaactaaagcagagaga--------gacag----------------------------agtatttgctcagggtcCCTTATTTATGGGTCA-T---GCTCTTAAATG---CTCTCCTCTCCTCCATCACATCTTCGCTTCCATGGCT--TGTACCAGG-CACTGGAACTTAGTAGT---GGGTGTGGGTTCTGGCATCCGA-CTCTGGG
+q equCab1.chr31 99-99-9999999999999999999999--99999------99999999999999999---99999999999999999999999999999--------99999----------------------------999999999999999999999999999999999-9---99999999999---9999999999999999999999999999999999999--999999999-99999999999999999---9999999999999999999999-9999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13657859 195 - 95030419 cattt-catcctcagaaaacccagagag--gggta------taaaccattattagcccttagtaaagacaaagaaactaaagcagagaga----ggg----------------------------------agtgttt------ggtccCATGCTGATAGGCGG-TGATGCT-----------------------CCATTATTTCATTACTTCTGTGGCT--TATACCAGg-tattggaac---agaga---gagcaggggctgtggaatcaga-ctctggg
+q bosTau3.chr9 99999-9999999999999999999999--99999------9999999999999999999999999999999999999999999999999----999----------------------------------9999999------99999999999999999999-9999999-----------------------9999999999999999999999999--999999999-999999999---99999---9999999999999999999999-9999999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 331124 197 - 498454 CATTT-AATCCCTAGAAAGCCCAATGCA--GTGGG------CATACTGTTATTGGCTCTTATTAGA------GAATTGGAGGCAGAAAGAACTGG------------------------------------AGTACCTATGCAGGG-----------------G-TAG-G-----TGAGG---CTGTCTTCTGTCCCATCACTCT-TCACTCTAATGCTT--TGTACTGGT-CAGAGGAGCTTAATGGTTGGGAGTGTGGGCTCTGGACACAGG-CTC--AG
+q tupBel1.scaffold_114895.1-498454 99999-9999999999999899999999--99999------9999999999999999999999999------99999999999999999999999------------------------------------999999999999999-----------------9-999-9-----99999---9999999999999999999999-99999999999999--999999999-999999999999999999999999999999999999999999-999--99
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s otoGar1.scaffold_334.1-359464 302337 177 - 359464 cgttt-aattcct-gaaaaccccatga------------------------ctagcccattttaag------gaaactgaggcagagagg----g------------------------------------aggatttgctcagggcctcatatttgtgagtgg-tgg-TCTTTTCAGGG------TCGGG-------------TGTCACCCC-ATGACT--TGCACCTGG-CAGTGGAGCTCAGAGGCTGAGAGCGTGGGC-----AGCCAGA-CTT--GG
+q otoGar1.scaffold_334.1-359464 99999-9999999-9999999999999------------------------999999999999999------999999999999999999----9------------------------------------999999999999996999999999999999999-999-99999999999------99999-------------999999999-999999--999999999-999999999999999999999999999999-----9999999-999--99
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s hg18.chr6 16032448 214 - 170899992 Gattt-catccttagaaaacccagtgag--gtgtt------tgaataatttccagcccatattaaa------gaaactgaagc--agaga----g------------------------------------agaatttgctcagggtcccctaattagtaGTTG-TGG-TCTCCTTGGGG---CTCTCCTGTACTCCATCACTTTGTCACTTTGATTACT--TGTACCAGG-GGGTGGAGCTGaatggttcagagcatgggctctggagccgga-ctc--ag
+i hg18.chr6 I 159 C 0
+s panTro2.chr6 16554796 216 - 173908612 gattt-catccttagaaaacccagtgag--gtgta------tgaataatttccagcccatattaaa------gaaactgaagcagagaga----g------------------------------------agaatttactcagggtcccctaattattagttg-tGG-TCTCCTTGGGG---CTCTCCTGTACTCCATCACTTTGTCACTTTGATTACT--TGTACCAGG-GGGTGGAGCTGagtggttcagagcatgggttctggagccgga-ctc--ag
+q panTro2.chr6 99999-9999999999999999999999--99999------9999999999999999999999999------999999999999999999----9------------------------------------999999999999999999999999999999999-999-99999999999---9999999999999999999999999999999999999--999999999-999999999999999999999999999999999999999999-999--99
+i panTro2.chr6 I 159 C 0
+s ponAbe2.chr6 16337659 216 - 174210431 cattt-catccttagaaaacccagtgag--gtgta------cgaataatttccagcccatattaaa------gaaactgaagcagagaga----g------------------------------------agaatttgctcagggtctcctaattaataTTGG-TGG-TCTCTTTGGGG---CTCTCCTGTACTCCATCACTTTGTCACTTTGATTACT--TGTATCAGG-GGGTGGAGCTGagtggttcagagcatgggctctggagctgga-ctc--ag
+i ponAbe2.chr6 I 159 C 0
+s rheMac2.chr4 108440028 201 + 167655696 CATTT-CATCCTTAGAAAACCCAGTGAG--GTGTA------TGAATCATTTCCAGCCCATATTAAA------GAAACTGAAGCAGAGAGA----G------------------------------------AGAATTTGCTCAGGGTCCCCTAATTATTAGTGG-TGG-TCTCTCTGGGG---CTCTCCCAAACTCCATCACTTTGTCACTTTGATTACT--TGTACCAGG-TGGTGGAGCTGAGTGGTTCAGAGCATGGACTC------------------
+q rheMac2.chr4 99999-9999999999999999999999--99999------9999999999999999999999999------999999999999999999----9------------------------------------999999999999999999999999999999999-999-99999999999---9999999999999999999999999999999999999--999999999-99999999999999988899999999999999------------------
+i rheMac2.chr4 I 164 C 0
+s oryCun1.scaffold_197619 39854 181 + 79436 cattt-tgtcctctgaaaacccagcgag--gcgag------tggatcgtgaggagcccacggaaaa------gaaacggaggcagagagt----a------------------------------------aggatttgctc---------------CCAGCAT-TGG-GGTGCTGCAGG---CTGACC---ACAGCAT------GCCTCTGCTATGCTT--TACTGCAGA-C-GGGGAGCTCCGTGGTTGGGAACGTGGGCTCAGG-------------AG
+q oryCun1.scaffold_197619 99999-9999999999999999999999--99999------9999999999999999999999999------999999999999999999----9------------------------------------99999999999---------------9999999-999-99999999999---999999---9999999------999999999999999--999999999-9-999999999999999999999999999999999-------------99
+i oryCun1.scaffold_197619 C 0 C 0
+s cavPor2.scaffold_286578 131496 217 - 133272 TACTT-AATTCTCAGAAAACCCA---AATGGCATA----TTTGTACTATTGTGAGCCCATATTCAA------AAATCA-AGACGGTGAGA----G------------------------------------GGGATCAGCGCAGGGGCACATATTCATGGGCAGTGGT-GCAACTGGAAGTGCCCTCCT---AGTGCATCatttcatctctgccatgcctGACCTGCTA---CCGAACAGCTTGGTGGTTGGAAGCGCGGGCTTAGGAGTTAGG-GTA--GG
+q cavPor2.scaffold_286578 99999-99999999999999999---999999999----999999999999999999999999999------999999-99999999999----9------------------------------------9999999999999999999999999979999997999-99999699999675988669---8997779989999789998789877897869978999---778767697946757796998898789977986999799799-999--99
+i cavPor2.scaffold_286578 C 0 C 0
+s rn4.chr1 229957591 199 - 267910886 tctttgaatcctcagaaaacccaaccaa--gcatcaaggtaggtaccattgttagctcatattaaa------gaaacggaggcaggaag------------------------------------------acggtttgctcagggtcaTGGGTTTACAAGCAG-GGT-GTGCTTTGAAG---CC---------TCCTTCTCTTCATCTCCGTGATGCCT--CTCGCCAGC-CAGAGGAGCTGAGTGGCGGGGAGCGTGGGCTC----------------GG
+q rn4.chr1 9999999999999999999999999999--999999999999999999999999999999999999------99999999999999999------------------------------------------999999999999999999999999999999999-999-99999999999---99---------99999999999999999999999999--999999999-99999999999999999999999999999999----------------99
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e dasNov1.scaffold_15233 44609 2474 + 62638 I
+e calJac1.Contig1260 1712 1041 - 523245 I
+
+a score=-4281.000000
+s mm9.chr10 3139814 19 + 129993255 TTGGCTTCCTGGTT-TGTCT-
+s rn4.chr1 229957790 19 - 267910886 TTGGCTTCCCGGTT-TGTCT-
+q rn4.chr1 99999999999999-99999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 131713 20 - 133272 TTTGCCTCGCGGTTCTGCCT-
+q cavPor2.scaffold_286578 99545988979999997899-
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40035 9 + 79436 TGGA-----------GGGTT-
+q oryCun1.scaffold_197619 9999-----------99999-
+i oryCun1.scaffold_197619 C 0 C 0
+s rheMac2.chr4 108440229 17 + 167655696 --AGTATCCCAGTTCTGCT--
+q rheMac2.chr4 --95999999999999999--
+i rheMac2.chr4 C 0 I 1
+s ponAbe2.chr6 16337875 19 - 174210431 tttgtatcccagttctgcc--
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16555012 19 - 173908612 tttgtatcccagttctgct--
+q panTro2.chr6 9999999999999999999--
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16032662 19 - 170899992 tttgtatcccagttctgct--
+i hg18.chr6 C 0 I 1
+s otoGar1.scaffold_334.1-359464 302514 13 - 359464 --TGCACACCAGTCC------
+q otoGar1.scaffold_334.1-359464 --9999999999999------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 331321 16 - 498454 TTTGCAGC---GTCAGGCT--
+q tupBel1.scaffold_114895.1-498454 99999999---99999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13658054 19 - 95030419 tttgtatcctggtatctcc--
+q bosTau3.chr9 9999999999999999999--
+i bosTau3.chr9 C 0 I 1
+s equCab1.chr31 13002094 19 + 24938454 TTTGTGTCCCAATTCTGCT--
+q equCab1.chr31 9999999999999999999--
+i equCab1.chr31 C 0 I 1
+s felCat3.scaffold_217398 69609 19 - 219823 GCTGTGTCCCAGTCCTACC--
+q felCat3.scaffold_217398 9999999999999999999--
+i felCat3.scaffold_217398 C 0 I 1
+s canFam2.chr1 78208986 19 - 125616256 GCTCTATCCCAGTTCTATC--
+q canFam2.chr1 9999999999999999999--
+i canFam2.chr1 C 0 I 1
+s dasNov1.scaffold_15233 47083 20 + 62638 tcggttcgctggttccatc-c
+q dasNov1.scaffold_15233 9999999999999999999-9
+i dasNov1.scaffold_15233 I 2474 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e calJac1.Contig1260 1712 1041 - 523245 I
+
+a score=862822.000000
+s mm9.chr10 3139833 142 + 129993255 CTGGCTGTGTGAGCTTA-TGCAAGTGCTCCATAAATTGCGATGCTATGTTTTTTATTGCTTCCTTCCC---TTCATCCTGTAGCTTCAGGTCATGAACTGT--GATGTGAGCAGTGACGTC--TCATAA-GGTGGATTCTCACCGTGCAGG
+s rn4.chr1 229957809 139 - 267910886 CTGACTGTGTGATCTTA-TGCAAGTGTTCCATAAATTGCTATACCATG-TTTTTATTGCTTCCTTCTC---TTCATCCTGTAGCTTCAGGTCACGAACTGT--TTGGTGAGCAGTGAGGTC--TCCTGT-GGTGGATTCTGACCATGCA--
+q rn4.chr1 99999999999999999-999999999999999999999999999999-9999999999999999999---999999999999999999999999999999--999999999999999999--999999-9999999999999999999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 131733 145 - 133272 CTGACTGTGTGATCTGA-TGTAAGCTCTCCATAAATGGCTAC-TCATG-tttttattgcttcctcttc--ttttatCCTATAGCTCCTGGACATGAACTGTTCTTGCTGAGCAGTTAGGTCTGTCATGA-GGTAGCTTCTGACCATCCTGG
+q cavPor2.scaffold_286578 87999999999797999-699999999999899996999999-99989-9999999979999999999--99995999999999999499999999999999999999999999999989999999999-999999999999998999999
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40044 146 + 79436 CCGCCTCTGTGTTCGTG-TGCAAGGTCTCCATAAATGACTCCTCCTTG-TTTTTACTGCTTCCTCCTTTCTCTCATCCTGTAGCTGCGGGACACAGACTCTT-CCTTTGAGTA-TCAGCTCTGCCATCA-GGTGGTTTCTGACCATCCAGG
+q oryCun1.scaffold_197619 99999999999999999-999999999999999999999999999999-99999999999999999999999999999999999999999999999999999-9999999999-999999999999999-999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16032682 148 - 170899992 ttgactgtgtgatctta-tgtaagctCTCCATACATTTCTACTCCTTG-TTTTTATTGCTTTCTCTCTTCCTTTTTCCTATAGCTCCAGGACACAAACTGTTTTCTCTGAGCAGTGAAGTCTTTCATAA-GGTGTATTCTTATCATCCAGG
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16555032 148 - 173908612 ttgactgtgtgatctta-tgtaagctCTCCATACATTTCTACTCCTTG-TTTTTATTGCTTTCTCTCTTCCTTTTTCCTATAGCTCCAGGACACAAACTGTTCTCTCTGAGCAGTGAAGTCTTTCATAA-GGTGTATTCTTATCATCCAGG
+q panTro2.chr6 99999999999999999-999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16337895 148 - 174210431 ttgactgtgtgatctta-tgtaagctCTCCATAAATTTGTACTCCTTG-TTTTTATTGCTTTCTCTTTTCCTTTTTCCTATAGCTCCAGGACACAAACTGTTCTCTCTGAGCAGTCAAGTCTTTCATAA-GGTGTATTCTTATCATCCAGG
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108440247 148 + 167655696 TTGACTGTGTGATCTTA-TGTAAGCTCTCCGTAAATTTCTACTCCTTG-TTTTTATTGCTTCCTCTCTTCCTTTATCCTATAGCTCCAGGACACAAACTGTTCTCTCTGAGCAGTCAGGTCTTTCATAA-GGTGCATTCTTATCATCCAGG
+q rheMac2.chr4 99999999999999999-999999999999999999999999999999-99999999999999999999989999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 2753 148 - 523245 ctGACTGTGTGATCTTA-GCTAAACTCTCCATAAATTTCTACTCTTTG-TTTTTATTGCCTCCTCTCTTCCTGTTTACTGTAGCTCCAGGACACAAAGTGTTCTCTCTGAGCAGTCAAGTCTTTCATAAGGGGGCATTCTTACCATCC-GG
+i calJac1.Contig1260 I 1041 C 0
+s otoGar1.scaffold_334.1-359464 302527 147 - 359464 TGCTCTGTTTGATCTTA-TGTAAACTCTCAATAAATTTTTACTCCTCA-TTTTTATTGCTGCTTCTCTTCCTTTATCCTATAGCTCCAGGACATAAACTCTTCTCTCTGA-CAGTCAGGTCTGTCATAA-CTTGGATTCCTACCATCCAGG
+q otoGar1.scaffold_334.1-359464 99999999999999999-999999999999999999999999999999-9999999999999999999999999799999999999999999999999999999999999-999999999999999999-999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 331337 146 - 498454 CTGACTGTGTCATC-TA-TGGAAGCCCTCAGTCAATTCCTACTCCTTG-TTTTTATTGCTTCCTCCCTTATTTCATCCTATAGCTCAAGGACATGAATTGTTCCTTTTAAACAGGAAAGTCTGTCATG--GGTGGAATCCTGCCATCCAGG
+q tupBel1.scaffold_114895.1-498454 99999999999999-99-999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_373760 1157 143 + 53723 CAG-CTCTGTGATCTTAGTGGGAGCTCTTCTTAAATGACTATTTCTGA-CTTTTATTGCTTCCTC---TCTTTTATCCTATAGCTCCAGGACATGAGT--TCTTCTGTGAGCAGTGGGGTATGTCAGGA-GGTTGATTCCTATCATTTGGG
+q eriEur1.scaffold_373760 999-99999999999999999999999999999999999999999999-9999999999999999---999999999999999999989999999999--99999999999999999999999999999-999999999999999999999
+i eriEur1.scaffold_373760 N 0 I 2303
+s canFam2.chr1 78209006 136 - 125616256 CTGAGTTTGTGGTCTTA-CGTAAGTTCTCAATAAATTACTACTCC-TG-TTTTTATTGCTTCCTT-------TTATTCTGTAGCCCCAGGTCACAGATTTTCCTCTCTGAGCCATCGGGTGTGTCATAA-GGTCAACTTCT----TATCAG
+q canFam2.chr1 99999999999999999-999999999999999999999999999-99-9999999999999999-------999999999999999999999999999999999999999999999999999999999-99999999999----999999
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 69629 142 - 219823 CTGATTGTATGGTCTTA-CGTAAGCTCTCTGTAAATTACCACTC---G-TTTTTATTGCTTCCTC---TCTGTTATTCTATAGCTGCAGGTCATAAATTACTCTCTCTGAGCGGTCAGGTCTGTCAGAG-GGTTAACTCCTACCATTCAGG
+q felCat3.scaffold_217398 99999999999999999-99999999999998999999999999---9-9999999999999999---9999999999999999999999999999999999999999999999999999999999999-999999999999994999999
+i felCat3.scaffold_217398 I 1 C 0
+s equCab1.chr31 13002114 146 + 24938454 CTGACTGTGTGGTCTTG-TGTAAACTCTCAGTAAATTACTACTCCTTA-TTTTTATTGCTTCCTCTCCTCTTTTATCCTATAGCTCCAGGACGTA-ATCATTCTCCCCGAGCAGTCACGTCTGTCATA--GGTTGATTCCTACCATTCAGG
+q equCab1.chr31 99999999999999999-999999999999999999999999999999-9999999999999999999999999999999999999999999999-99999999999999999999999999999999--999999999999999999999
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13658074 145 - 95030419 ctgcctgtatgagctta-tataagctct---tatattactactccttg-tttttattgcttcctctCCTCTTTTATCCTATAGCTCCAGGACATAAATTGTTCTCTCTGAGCTGCCTTGTCTGTCAAAA-CGTTGATTCTTGCCATTCAGG
+q bosTau3.chr9 99999999999999999-9999999999---99999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i bosTau3.chr9 I 1 C 0
+s dasNov1.scaffold_15233 47103 148 + 62638 ctgaccgtgtgatcttaaaaaaagtgctcaaTAAATTACCACCGGTGG-TTTTTATTGCTTCCTCTCCTCTTTCATCCTATGGCTCCAGGACATAAATTACCTGCTTGGAGCCATCAGGCCTTTCATAA-CTTGGGCTCC-ACCGTGGAGG
+q dasNov1.scaffold_15233 999999999999999999999999999999999999999999999799-99999997999999999999999998999995999999999999999999999899939999998998989999999999-9999999999-9999799999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+
+a score=471738.000000
+s mm9.chr10 3139975 103 + 129993255 AGTACTGCTTTCCGCTGGAGAGACTTCT-CCGTCAGTTGCCAACCTGTTAGGGGATTGATTGGAGCAGCACTTA-GAGCCTAT---CAGGAGGGGTCTAAATCGGCCG
+s rn4.chr1 229957948 81 - 267910886 ----------------GGAGAGACTTCT-CTGCCGGTTGCCAACGGGTCAGAG------TTGCGGCAGCTCTTA-TAGCCTAT---CAGGAGGGTTCTAGATTAGATG
+q rn4.chr1 ----------------999999999999-999999999999999999999999------999999999999999-99999999---9999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 131878 88 - 133272 GGCACTAGTCCTTGGAAAAGAGATTTTT-CTTCTGGTTGTCAACCAGTCAGAG----GACTGGACTAGCACTTG-------AT---CTGGAAGGTTCTTGATT-----
+q cavPor2.scaffold_286578 9999999999996999999999999999-999999999999999999999999----99989999999999999-------99---98999999999979999-----
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40190 98 + 79436 GGCGCCTGTCAGTGCCACAGAGGTTTCT-CTGCCATTTGCCAACCAGTCAGTA-----TCCGTGGCAGAACTTG-GAGCTGAT---GGGGAATGTCCTTGATCGGTTG
+q oryCun1.scaffold_197619 9999999999999999999999999999-999999999999999999999999-----9999999999999999-99999999---9999999999999999999999
+i oryCun1.scaffold_197619 C 0 I 1
+s hg18.chr6 16032830 100 - 170899992 GGCACCTGTCAGTGTCAAAGAGATTTCT-CTGCCGTTTACCAGCTGGTCAGAG---GATCCGGGGCAGAACTTG-CAGCTGAT---CAGGAAGGTTCTTGATTAGCGG
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16555180 100 - 173908612 GGCACCTGTCAGTGTCAAAGAGATTTCT-CTGCCGTTTACCAGCTGGTCAGAG---GATCCGGGGCAGAACTTG-CAGCTGAT---CAGGAAGGTTCTTGATTAGCGG
+q panTro2.chr6 9999999999999999999999999999-999999999999999999999999---999999999999999999-99999999---9999999999999999999999
+i panTro2.chr6 C 0 I 1
+s ponAbe2.chr6 16338043 100 - 174210431 GGCACCTGTCAGTGTCAAAGAGATTTCT-CTGCTGTTTACCAGCTGGTCAGAG---GATCCGGGGCAGAACTTG-CAGATGAT---CAGGAAGGTTCTTGATTAGCGG
+i ponAbe2.chr6 C 0 I 1
+s rheMac2.chr4 108440395 103 + 167655696 AGCACCTGTCAGTGTCAAAGAGATTTCT-CCGCCATTTGCCAGCTGGTCAGAG---GATCCGGGGCAGAACTTG-CAGCTGATCTCCAGGAAGGTTCTTGATTATTGG
+q rheMac2.chr4 9999999999999999999999999999-999999999999999999999999---999999999999999999-999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 2901 101 - 523245 GGCACCTGTCAATGCCAAAGAGATTTCTCCCGCCGTTTGCCAACTGGTCAAAG---GATCTGGGGCAGAACTTG-CAGCTGAT---CAGGAAGGTTCTTGATTAGCTG
+i calJac1.Contig1260 C 0 I 1
+s otoGar1.scaffold_334.1-359464 302674 100 - 359464 GGCATCTGTTAATGCCAAAGATATTTCT-CTGCCGTTTGCCAACCGGTCAAAG---AATCCAGGGCAGAAATTG-CAGCTAAT---CGGGAGGGTTCTTGATTAGCTG
+q otoGar1.scaffold_334.1-359464 9999989999999999999999999999-999999999899999999999999---998999998999999999-99999999---9999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 331483 93 - 498454 GGCACCAGCCAGGGTCCAAGAGACTTCT-CTGTCACTTGCCACCCAGTCAGAG---GACCCAGGGTAGACCTT--------AT---TAGGAAGGTTCTTGATTAGCTA
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999-999999999999999999999999---99999999999999999--------99---9999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s canFam2.chr1 78209142 100 - 125616256 GGTACCAGTCAGTCCCGAAGACATTTCC-CTGCTATTTGACAACCACTCAGAG---GATCCAGGGCAGGACTTG-CAGGGGAT---CGGGAAGATTCTTGGCTAGCTG
+q canFam2.chr1 9999999999999999999999999999-999999999999999999999999---999999999999999999-99999999---9999999999999999999999
+i canFam2.chr1 C 0 I 87
+s felCat3.scaffold_217398 69771 101 - 219823 GGCACCAGTCAGTACTGAAGAGATTTCC-CTGCCATTCGTCAACCGCTCCGAG---GAACCAGGGCAGGACTTGCCAGCAGAT---CGGGAAGATTCTCGGTTGGCCC
+q felCat3.scaffold_217398 9999998999999999999999989999-999998999899899999999696---999997599999998999999699988---7688996959989888999799
+i felCat3.scaffold_217398 C 0 I 1
+s equCab1.chr31 13002260 100 + 24938454 AGCACCAGTTGGTGCCAAAGAGGTTGCC-CTGCTGTTTGCCAACTTCCAGGAG---GATCCTGGGCAGGACTTG-CATCTGGC---CAGGAAGGTTCTTCGTTTGCTG
+q equCab1.chr31 9999999999999999999999999999-999999999999999999999999---999999999999999999-99999999---9999999999999999999999
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13658219 83 - 95030419 GACACCAGTCGGTGTCGTGGAGATGTCT-CTGC-------CAGGCACGCAGAG---GACCCGGGGTGGGACTTG-TAGCTGGT---TAAGAAGGTTCT----------
+q bosTau3.chr9 9999999999999999999999999999-9999-------9999999999999---999999999999999999-99999999---999999999999----------
+i bosTau3.chr9 C 0 I 255
+s dasNov1.scaffold_15233 47251 100 + 62638 GGCACCAGTTGACGCTGAGGACGTGCCT-TTGCCGTTTGCCCAGCAGTCTGGG---GGCCCAGGGCAGGCCTTG-CCGCCGAG---CAGGAACGACCTTGGTTAGCTG
+q dasNov1.scaffold_15233 9999999997999998999999999999-999999999999999999999999---999999999999999999-99999999---9999999999998999999999
+i dasNov1.scaffold_15233 C 0 I 295
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+
+a score=82370.000000
+s mm9.chr10 3140078 31 + 129993255 GTGATCCGTGCCTCTTGTGGATATGGCAAGC
+s rn4.chr1 229958029 31 - 267910886 ATGATGCGTGCCCCTTGTGAATATGGCGAAC
+q rn4.chr1 9999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 40289 24 + 79436 GTGAGAAATACCTCTTGCTAATAT-------
+q oryCun1.scaffold_197619 999999999999999999999999-------
+i oryCun1.scaffold_197619 I 1 C 0
+s hg18.chr6 16032931 31 - 170899992 GTGATAAATGCCTCTTGCAAATTTCGTGAGC
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16555281 31 - 173908612 GTGATAAATGCCTCTTGCAAATTTCGTGAGC
+q panTro2.chr6 9999999999999999999999999099999
+i panTro2.chr6 I 1 I 29
+s ponAbe2.chr6 16338144 31 - 174210431 GTGATAAATGCCTCTTGCAAATATCATGAAC
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108440499 31 + 167655696 GTGATAAATACCTCTTGCAAATATCATGAAC
+q rheMac2.chr4 9999999999999999999999999999999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 3003 23 - 523245 GTGATAAACACCTCTTGCAAATA--------
+i calJac1.Contig1260 I 1 I 26
+s otoGar1.scaffold_334.1-359464 302775 22 - 359464 GTGATAAATGCCTCTAACCAGT---------
+q otoGar1.scaffold_334.1-359464 9999999996999999989999---------
+i otoGar1.scaffold_334.1-359464 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 331577 31 - 498454 GAGATAAATGCCTTTTGTCAATATCATAAAC
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 1 I 32
+s felCat3.scaffold_217398 69873 31 - 219823 GCGATAGATGTCTCTTGCCAGTATCATGAAC
+q felCat3.scaffold_217398 4859695979999999994566978799997
+i felCat3.scaffold_217398 I 1 I 177
+s equCab1.chr31 13002361 31 + 24938454 CTGATAGATACCTGTTGCCAATATCATGAAC
+q equCab1.chr31 9999999999999999999999999999999
+i equCab1.chr31 I 1 I 220
+e bosTau3.chr9 13658302 255 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e cavPor2.scaffold_286578 131966 0 - 133272 C
+
+a score=-51513.000000
+s mm9.chr10 3140109 45 + 129993255 AATAGGTCTGC------------------------------------------------------CTTTCTCTTTTCCTCTGTG----------TGTGTATGTGAGTAt
+s rn4.chr1 229958060 45 - 267910886 AATTGGTCTGC------------------------------------------------------CTTCCTCTCTTCCTCTGTG----------tgtgtatgtgagtgt
+q rn4.chr1 99999999999------------------------------------------------------9999999999999999999----------999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 131966 19 - 133272 -ATAAATGTGC------------------------------------------------------TTTGCTC-----------------------------------AT
+q cavPor2.scaffold_286578 -9999999999------------------------------------------------------9999999-----------------------------------99
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40313 1 + 79436 ------------------------------------------------------------------------------------------------------------C
+q oryCun1.scaffold_197619 ------------------------------------------------------------------------------------------------------------9
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16032962 21 - 170899992 -----------------------------------------------------------------TTTCCT-----------------------TGGGTAAATTAGTTT
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16338175 21 - 174210431 -----------------------------------------------------------------TTTCCT-----------------------TGGGTAAATTAGTTT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108440530 21 + 167655696 -----------------------------------------------------------------TCTCCT-----------------------TGGGTAAATTAGTTT
+q rheMac2.chr4 -----------------------------------------------------------------999999-----------------------999999999999999
+i rheMac2.chr4 C 0 C 0
+s otoGar1.scaffold_334.1-359464 302797 43 - 359464 ----AATAAGT---------TCAAACCATA-----------------------------------Tttcctctgcttct---tcttcttcttct---------------
+q otoGar1.scaffold_334.1-359464 ----9999999---------9999899998-----------------------------------99999998859999---999999999994---------------
+i otoGar1.scaffold_334.1-359464 C 0 I 151
+s tupBel1.scaffold_114895.1-498454 331640 105 - 498454 ----AATGAGTCATTAGTAATGCAACCAGACCTACGTGGAAAGATCCTGGATTTGTTCCAAGAATTTCCCTGTATTTATGTGTGTCTGTGGTCCTGGCTGGCTTAGGCT
+q tupBel1.scaffold_114895.1-498454 ----999999999999999999999999999999997999999999999999999999999999899999599999999999999979696799799999999999999
+i tupBel1.scaffold_114895.1-498454 I 32 I 24
+e bosTau3.chr9 13658302 255 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e panTro2.chr6 16555312 29 - 173908612 I
+
+a score=-21387.000000
+s mm9.chr10 3140154 49 + 129993255 gtgcgtgttcatgtgtacatggaatcag-------------------------------------------aagtcaaactcagatgccatt
+s rn4.chr1 229958105 49 - 267910886 gtgcacgttcttgtggacataggatcag-------------------------------------------aagtcaacctctgatgtcatt
+q rn4.chr1 9999999999999999999999999999-------------------------------------------999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 131985 37 - 133272 ATAAACTTTCTTCTG---ATAAATT----------------------------------------------AATGCAACCACAG------tt
+q cavPor2.scaffold_286578 999999999999999---9999999----------------------------------------------9999998999999------99
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40314 37 + 79436 ATGATCCTCCTTTGGGAAATTAATTCA-------------------------------------------------AACCGCAT------TT
+q oryCun1.scaffold_197619 999999999999999999999999998-------------------------------------------------99999999------99
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16338196 10 - 174210431 -----------------------------------------------------------------------GAGCCATATT-----------
+i ponAbe2.chr6 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 331769 78 - 498454 ---GACCCTGTTGGGTGTACCTGTTTATTTCTTTCTATTTCTTATGGAATTAGATCTTATAAAATAAGTTCAAATCATATT-----------
+q tupBel1.scaffold_114895.1-498454 ---999999799999999999999999999999999999999999999999999999999999999999999999999999-----------
+i tupBel1.scaffold_114895.1-498454 I 24 I 301
+e bosTau3.chr9 13658302 255 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e rheMac2.chr4 108440551 0 + 167655696 C
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e hg18.chr6 16032983 0 - 170899992 C
+e panTro2.chr6 16555312 29 - 173908612 I
+
+a score=-686.000000
+s mm9.chr10 3140203 36 + 129993255 cttcaggtgctctctgactcgtgttttgagacaaga-
+s rn4.chr1 229958154 36 - 267910886 cctcaggtgctctctgacttgtgttttgagacaaga-
+q rn4.chr1 999999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132022 36 - 133272 tgtcaaatttttttttaagtgagcaTAGAGTTAAGA-
+q cavPor2.scaffold_286578 999999899999999999989999999999999999-
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40351 17 + 79436 CTTCAACTTTTCTTTGG--------------------
+q oryCun1.scaffold_197619 99997999999999999--------------------
+i oryCun1.scaffold_197619 C 0 I 69
+s ponAbe2.chr6 16338207 16 - 174210431 CCTCA------CTTTTA---------------AAAAA
+i ponAbe2.chr6 I 1 C 0
+e bosTau3.chr9 13658302 255 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e rheMac2.chr4 108440551 0 + 167655696 C
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e tupBel1.scaffold_114895.1-498454 331847 301 - 498454 I
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e hg18.chr6 16032983 0 - 170899992 C
+e panTro2.chr6 16555312 29 - 173908612 I
+
+a score=1239.000000
+s mm9.chr10 3140239 52 + 129993255 tctctctctcaccagtacctggggtttatgtgtcagtcagctagactagctg
+s rn4.chr1 229958190 44 - 267910886 ----tctcttaccagtacctggggctcatgt----atcagctgggctggctg
+q rn4.chr1 ----999999999999999999999999999----99999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16338223 20 - 174210431 ------------CAGTACCTGGGCTTGCAGTG--------------------
+i ponAbe2.chr6 C 0 I 37
+e bosTau3.chr9 13658302 255 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e rheMac2.chr4 108440551 0 + 167655696 C
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e tupBel1.scaffold_114895.1-498454 331847 301 - 498454 I
+e cavPor2.scaffold_286578 132058 0 - 133272 C
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e hg18.chr6 16032983 0 - 170899992 C
+e panTro2.chr6 16555312 29 - 173908612 I
+e oryCun1.scaffold_197619 40368 69 + 79436 I
+
+a score=1446.000000
+s mm9.chr10 3140291 55 + 129993255 gccagcaagc---tccagagaccctccctgctcagccttcctagtttgg-------ttttacat--------c
+s rn4.chr1 229958234 63 - 267910886 agcaactggc---cccagagaccctcccggctcggcctccctagtttgg-------tttcacatgtgcacaac
+q rn4.chr1 9999999999---999999999999999999999999999999999999-------99999999999999999
+i rn4.chr1 C 0 C 0
+s bosTau3.chr9 13658557 58 - 95030419 gccagcaagtatatgaagaga-------tgctcaacatcactaatcaggggaaGATTCTTAGTTG--------
+q bosTau3.chr9 999999999999999999999-------9999999999999999999999999999999999999--------
+i bosTau3.chr9 I 255 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e rheMac2.chr4 108440551 0 + 167655696 C
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e tupBel1.scaffold_114895.1-498454 331847 301 - 498454 I
+e cavPor2.scaffold_286578 132058 0 - 133272 C
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e hg18.chr6 16032983 0 - 170899992 C
+e panTro2.chr6 16555312 29 - 173908612 I
+e ponAbe2.chr6 16338243 37 - 174210431 I
+e oryCun1.scaffold_197619 40368 69 + 79436 I
+
+a score=-6846.000000
+s mm9.chr10 3140346 40 + 129993255 cccgtgcctggcttgtttacctggcttttgaggatccagc
+s rn4.chr1 229958297 40 - 267910886 ccgatgcctgtttttttcacttggcttttggggctcaagg
+q rn4.chr1 9999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16338280 30 - 174210431 CCCCTGTCTGGCAC------Ctggtctgtgaccagc----
+i ponAbe2.chr6 I 37 I 52
+s cavPor2.scaffold_286578 132058 17 - 133272 --------------------ATGGCGCTTGAGATCCA---
+q cavPor2.scaffold_286578 --------------------99999999999979997---
+i cavPor2.scaffold_286578 C 0 C 0
+s bosTau3.chr9 13658615 30 - 95030419 -----GCCGTGTGATAATAGGTGCTTCTCGCCAAC-----
+q bosTau3.chr9 -----999999999999999999999999999999-----
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e rheMac2.chr4 108440551 0 + 167655696 C
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e tupBel1.scaffold_114895.1-498454 331847 301 - 498454 I
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e hg18.chr6 16032983 0 - 170899992 C
+e panTro2.chr6 16555312 29 - 173908612 I
+e oryCun1.scaffold_197619 40368 69 + 79436 I
+
+a score=-3619.000000
+s mm9.chr10 3140386 57 + 129993255 --------------ttgggtcatcctgtttgattggcaagcacatttcactcacttgagccacctccccag
+s rn4.chr1 229958337 55 - 267910886 --------------ttggcttatcatgtttgattggcaagcac-tttcacccagttgagcca-cttaccag
+q rn4.chr1 --------------99999999999999999999999999999-999999999999999999-99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132075 29 - 133272 -----------------------------TCACTGGC---CTC-TTTCAGGCACTGGGTCCA---------
+q cavPor2.scaffold_286578 -----------------------------99999968---998-999999999979999999---------
+i cavPor2.scaffold_286578 C 0 C 0
+s bosTau3.chr9 13658645 50 - 95030419 GTCATGCACTTTCTTTGGGTAAATAAGTTTCAGTTGT-------GTTTTCTCAACTG--------------
+q bosTau3.chr9 9999999999999999999999999999999999999-------9999999999999--------------
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e rheMac2.chr4 108440551 0 + 167655696 C
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e canFam2.chr1 78209242 87 - 125616256 I
+e calJac1.Contig1260 3026 26 - 523245 I
+e tupBel1.scaffold_114895.1-498454 331847 301 - 498454 I
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e hg18.chr6 16032983 0 - 170899992 C
+e panTro2.chr6 16555312 29 - 173908612 I
+e ponAbe2.chr6 16338310 52 - 174210431 I
+e oryCun1.scaffold_197619 40368 69 + 79436 I
+
+a score=-28716.000000
+s mm9.chr10 3140443 36 + 129993255 GCTCCTTGGGCCC----T---CCCTGCTTT-----AATAGTAGCTCAA
+s rn4.chr1 229958392 31 - 267910886 gctccTTGG--------C---CCCTGCTTT-----AATAGCAACTC-A
+q rn4.chr1 999999999--------9---999999999-----99999999999-9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16032983 37 - 170899992 -------GAGCCATATTT---CCTCACTTTTAAAAAATAGTACCTGG-
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108440551 37 + 167655696 -------GAGCCATATTT---CCTCACTTCTAAAAAATTGTACCTGG-
+q rheMac2.chr4 -------99999999999---99999999999999999999999999-
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 3052 37 - 523245 ----TTTGAGCCGTATTT---CCTCACTTTGAAAAA---GTACCTGC-
+i calJac1.Contig1260 I 26 C 0
+s panTro2.chr6 16555341 29 - 173908612 ------------------TTTCCTCACTTTAAAAAAATAGTACCTGG-
+q panTro2.chr6 ------------------99999999999909999999999999999-
+i panTro2.chr6 I 29 C 0
+s cavPor2.scaffold_286578 132104 2 - 133272 -----------------T-----------------------------G
+q cavPor2.scaffold_286578 -----------------9-----------------------------9
+i cavPor2.scaffold_286578 C 0 C 0
+s bosTau3.chr9 13658695 18 - 95030419 ---------------TTT---CCTTG-----------CAGTAACTGG-
+q bosTau3.chr9 ---------------999---99999-----------9999999999-
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78209329 12 - 125616256 -----------------------------------AATAGTAACTGG-
+q canFam2.chr1 -----------------------------------999999999999-
+i canFam2.chr1 I 87 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e tupBel1.scaffold_114895.1-498454 331847 301 - 498454 I
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e ponAbe2.chr6 16338310 52 - 174210431 I
+e oryCun1.scaffold_197619 40368 69 + 79436 I
+
+a score=56168.000000
+s mm9.chr10 3140479 102 + 129993255 ACTTGTAGCTAGGGTAACATTAAAA-TGGCCCT--CTTGCCTCCACCCACACCCAC--------CTGACATCGGGTCC---ATGAACACTGCTGTTGACCTCATCTGGCC-TTTGCA
+s rn4.chr1 229958423 99 - 267910886 ACTTATAGCTAGCATAATATTAAAA-TGGCCCT--CCTGTCTCTACCCACACCCAC--------CTGACATCTGGTCC---ATGAACACTGCCGTTGACC---TCTGGGT-TTTCCA
+q rn4.chr1 9999999999999999999999999-9999999--999999999999999999999--------99999999999999---9999999999999999999---9999999-999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132106 60 - 133272 ACTTGCAGCT----------------TGGGCCT--------------------CAC--------CTGGGGGCTTGTTAGAGATGAGAAACTCAGAAGGTC-------------TGTG
+q cavPor2.scaffold_286578 9997999999----------------9997999--------------------999--------979999999999999999999999999999999999-------------9999
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 40437 53 + 79436 ------------------------------------TCCCTgcttcatgcatcaac--------ctggggcttgggat---atggaaact----cagggc-------------tgct
+q oryCun1.scaffold_197619 ------------------------------------99999999997999899999--------99999999999999---999999999----968999-------------9999
+i oryCun1.scaffold_197619 I 69 C 0
+s calJac1.Contig1260 3089 105 - 523245 GCTTGCAGTGAGCATGGCATTAGGA-TGGTTTTTGCTGTCAACTGTTGACCCTTTT--------CTGGCACCtggcct---gtgaccagcgacttcagcatcacctgtgagcttgtt
+i calJac1.Contig1260 C 0 I 26
+s rheMac2.chr4 108440588 104 + 167655696 GCTTGCAGTGAGGATGGCA-TAGGA-TGGTTTTTGCTGTCAACTGTTGGCCCCTGT--------CTGGCACCTGGTCT---GTGACCAGCAACTTCAGCATCACCTGGGAGCTCGTT
+q rheMac2.chr4 9999999999999999999-99999-999999999999999999999999999999--------99999999999999---999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 25
+s hg18.chr6 16033020 104 - 170899992 GCTTGCAGTGAGCATGGCA-TAGGA-TGGTTTTTGCTGTCAACTGTTGGCCCCTGT--------CTGGTACCtggtct---gtgaccagcaacttcagcatcacctgggagcttgtt
+i hg18.chr6 C 0 I 25
+s panTro2.chr6 16555370 104 - 173908612 GCTTGCAGTGAGCATGGCA-TAGGA-TGGTTTTTGCTGTCAACTGTTGGCCCCTGT--------CTGGTACCtggtct---gtgaccagcaacttcagcatcacctgggagcttgtt
+q panTro2.chr6 9999999999999999999-99999-999999999999999999999999999999--------99999999999999---999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 25
+s tupBel1.scaffold_114895.1-498454 332148 108 - 498454 ACTTCCAGTGAGCATGACCTTAGAA-CAG-CTCTGTTGTTAATTGCTG---CCTGTCAACACACCTAGTTCCT-GTCC---ATTGCCAGAGGCATCAGCATCAACTGGGAACTTGTT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999-999-999999999999999999---9999999999999999999999-9999---999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 301 I 25
+s canFam2.chr1 78209341 104 - 125616256 ACTTCCAGTGGACACAACGTTAGGGCTGGCTCATGCTGTCAAATGTCGACTGCTGT--------CTGGCACCtggtcc---atggccagcag--tccatattacctgggagcttatt
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999--------99999999999999---99999999999--99999999999999999999999
+i canFam2.chr1 C 0 I 17
+s bosTau3.chr9 13658713 106 - 95030419 ACTTCCACTGACCATGGCGTTAGGACTGGCTCTTGCTTTGGACTGTGGACTCCTGT--------CTGGCGCCtagtcc---aagacttgtggcacccgcatcacccgggagcttgtt
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999--------99999999999999---999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 18
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13002392 220 + 24938454 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+e felCat3.scaffold_217398 69904 177 - 219823 I
+e otoGar1.scaffold_334.1-359464 302840 151 - 359464 I
+e ponAbe2.chr6 16338310 52 - 174210431 I
+
+a score=231713.000000
+s mm9.chr10 3140581 75 + 129993255 --------GACCCACCGTAGGAGAACCTGAA-T-TTTAACAAGA-------------TCACATACCCTTTACAGTTAGAGGGGCCCTCTTGTGGCACA
+s felCat3.scaffold_217398 70081 87 - 219823 ggcctgctgaatcggaat--------ctgca-t-tttaacaggat-ctcctggtgactcgcgtgctcattacggttcaaggagcactgCTCGGGCACG
+q felCat3.scaffold_217398 889579968979799978--------68888-9-99979999988-9999899999999999999998899999999999999999999999999999
+i felCat3.scaffold_217398 I 177 C 0
+s canFam2.chr1 78209462 82 - 125616256 ggcctgctgaaccagaat--------ctgca-t-tttctgatgat-cgccgggtgattcgtgtgctcagtacagtttgagga-----gcTCTAGCACA
+q canFam2.chr1 999999999999999999--------99999-9-99999999999-999999999999999999999999999999999999-----99999999999
+i canFam2.chr1 I 17 C 0
+s equCab1.chr31 13002612 47 + 24938454 --------------------------------------------------gggggatctgtgtgcccgttccagtttgagcagcCT-GCTTTAGCACG
+q equCab1.chr31 --------------------------------------------------999999999999999999999999999999999999-99999999999
+i equCab1.chr31 I 220 C 0
+s bosTau3.chr9 13658837 85 - 95030419 agcctgctgactcagaat--------ctgca-t-tttaacaagag-gccctggtgatccctgtgctcaATGCCGCCGGAGAGCTCT-GTTCTAGCA-G
+q bosTau3.chr9 999999999999999999--------99999-9-99999999999-9999999999999999999999999999999999999999-999999999-9
+i bosTau3.chr9 I 18 C 0
+s tupBel1.scaffold_114895.1-498454 332281 72 - 498454 --------AAATCAGAAT--------CTGCA-T-TTTAGCAAAAT-CCCCTGGTGATTCATGTACTCCT--TAGTTTGAGAAGCA-----CTAACACA
+q tupBel1.scaffold_114895.1-498454 --------9999999999--------99999-9-99999999999-99999999999999999999999--99999999999999-----99999999
+i tupBel1.scaffold_114895.1-498454 I 25 C 0
+s otoGar1.scaffold_334.1-359464 302991 67 - 359464 ---------------------------tgcg-t-tttaaccagatccccctggtcattcatgcaccctt--ctgtttgagaagtactgTTCTAGCACA
+q otoGar1.scaffold_334.1-359464 ---------------------------6475-5-77674434553279764716553566446365799--778973796885537686868656696
+i otoGar1.scaffold_334.1-359464 I 151 C 0
+s hg18.chr6 16033149 79 - 170899992 --------gaatcagaat--------ctgca-t-tttaataagat-cccctggcgattcgtgcacccatcacaattagagaagcaCTGTTCTAGCACG
+i hg18.chr6 I 25 C 0
+s panTro2.chr6 16555499 79 - 173908612 --------aaatcagaat--------ctgca-t-tttaataagat-cccctggcgatgcgtgcacccatcacaattagagaagcaCCGTTCTAGCACG
+q panTro2.chr6 --------9999999999--------99999-9-99999999999-9999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 25 C 0
+s ponAbe2.chr6 16338362 79 - 174210431 --------gaatcagaat--------ctgca-t-tttaataagat-cccctggtgattcatgcacccatcacaattagagaagcactgTTCTAGCACA
+i ponAbe2.chr6 I 52 C 0
+s rheMac2.chr4 108440717 79 + 167655696 --------GAATCAGAAT--------CTGCA-T-TTTAATAAGAT-CCCCTGGCGATTCATGCACCCATCACAGTTAGAGAAGCACTGTTCTAGCATG
+q rheMac2.chr4 --------9999999999--------99999-9-99999999999-9999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 25 C 0
+s calJac1.Contig1260 3220 80 - 523245 --------gagtcagaat--------ctgcatt-tttaacaagat-cccctggcgattcatgcacccatcacagttagagaagcactgTTCTAGGACG
+i calJac1.Contig1260 I 26 C 0
+s oryCun1.scaffold_197619 40490 80 + 79436 --------aagtcagaat--------ctgca-tgtttagcaagat-cccctggcgatttgggcattcattacagtgccagaagcaCTGTTGTAGCACA
+q oryCun1.scaffold_197619 --------9999979999--------98998-9999999879999-9999899989999999979996999979999948998979999999999798
+i oryCun1.scaffold_197619 C 0 C 0
+s cavPor2.scaffold_286578 132166 79 - 133272 --------AAATCACCAT--------CTGCC-T-TTTAACAAGAT-CCCCTGGTGATTCATGCACCCATTAGTGTTTGAGAGGCCCTGTTTTAGTACA
+q cavPor2.scaffold_286578 --------9999999999--------99999-9-99999999977-9999999999999999999999999999999999999999899999999999
+i cavPor2.scaffold_286578 C 0 C 0
+s rn4.chr1 229958522 69 - 267910886 --------GGCCTACCAT------GTCAGAA-T-TTTAACCAGA-------------TCACATGCCCTTTACAGTTAGAGGAACCCTCTTGTAGCACA
+q rn4.chr1 --------9999999999------9999999-9-9999999999-------------99999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 47351 295 + 62638 I
+
+a score=135404.000000
+s mm9.chr10 3140656 86 + 129993255 CAGCTGAGACCATGTTTTTAAACTTAGCTGGTAGGCCCTGGCCCTGGC------CTT--GGGT-TGCTGGTCTT-----CACAC--GAGC----TCTGTGCCTGAG
+s rn4.chr1 229958591 86 - 267910886 CTGCTGAGAACATGTTTTTAAGCTTAGCTGGAAGG--CTGCCCCTGTC------CTTGGGGGT-TGCTGGTCTT-----CACAC--AAGC----CCTGTGCCTGAG
+q rn4.chr1 99999999999999999999999999999999999--99999999999------999999999-9999999999-----99999--9999----999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132245 91 - 133272 TAGCTTTAAACATGGTCTCACACTTTGCTGGGAGGTCTTGCTACTGTATAGTGGCCT--GTGT-T-CTGACGTG-----CACTA--AATC----TATTTTACTGAA
+q cavPor2.scaffold_286578 999999999999897999999999979979999999996999996999999989999--9699-9-99999989-----99999--9999----999999996999
+i cavPor2.scaffold_286578 C 0 I 2
+s oryCun1.scaffold_197619 40570 92 + 79436 GAGCTATGAACAGGTTTCCAAACTTTGCTGCTAGCTCCTGCTACTGTA--GTA-CTG--GGAC-ATCTGATAGG------ACAC--GAGTTCAGTCTGTTTCAAGG
+q oryCun1.scaffold_197619 999799999996999998989979999789789989897999999999--999-999--9999-9999999999------9999--99999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig1260 3300 92 - 523245 TAGCTGCAAGCGTGTTTTCAAACTTTGCTGG--AGTCCTGCTACTGTA--GTG-TTG--GGTT-ATCTGATTTGATGTGTACTC--CAGC----TATTTTATGTAC
+i calJac1.Contig1260 C 0 I 2
+s rheMac2.chr4 108440796 92 + 167655696 TAGCTGCAGACGTGTTTTCAAACTTTGCTGG--AGTCCTGCTACTGTA--GTG-TTG--GGCT-ATCTGGTCTGGTATGTACTC--CAGC----TGTTTCATTTAC
+q rheMac2.chr4 9999999999999999999999999999999--999999999999999--999-999--9999-99999999999999999999--9999----999999999999
+i rheMac2.chr4 C 0 I 2
+s ponAbe2.chr6 16338441 92 - 174210431 TAGCTGTAAATGTGTTTTCAAACTTTGCTGG--AGTCCTGCTATTGTA--GTA-TTG--GGCT-ATCTGGTCTGGTATGTACTC--CAGC----TGTTTCATTTAC
+i ponAbe2.chr6 C 0 I 2
+s panTro2.chr6 16555578 91 - 173908612 TAGCTGCAAATGTGTTTTCAAACTTTGCTAG--AGTCCTGCTATTGTA--GTA-TT---GGCT-ATCTGGTCTGGTATGTACTC--CATC----TGTTTTATTTAC
+q panTro2.chr6 9999999999999999999999999999999--999999999999999--999-99---9999-99999999999999999999--9999----999999999999
+i panTro2.chr6 C 0 I 2
+s hg18.chr6 16033228 92 - 170899992 TAGCTGCAAATGTGTTTTCAAACTTTGCTAG--AGTCCTGCTATTGTA--GTA-TTG--GGCT-ATCTGGTCTGGTATGTACTC--CAGC----TGTTTTATTTAC
+i hg18.chr6 C 0 I 2
+s otoGar1.scaffold_334.1-359464 303058 95 - 359464 TGGCTGTAGACACATTTGTGAACTTGGCTGGT-AGGTCTGCCATGGTG--GCA-TCA--GGTT-CTCTGATCTGACATGTACTTAATAAC----TATCTCATTTAC
+q otoGar1.scaffold_334.1-359464 44253869884424975759739885564355-683876557957976--695-998--9899-99889899998796884987887545----421132124449
+i otoGar1.scaffold_334.1-359464 C 0 I 2
+s tupBel1.scaffold_114895.1-498454 332353 92 - 498454 TTGCTGCAAAC--GTTTTCTAACTTTTCCAGTAGGTCTTGCTACTGTG--GGA-CTG--GGCT-ATCTGATATGACCTATGTTC--AGTT----TATTTTGTTTAA
+q tupBel1.scaffold_114895.1-498454 99999999999--99999999999999999999999999999999999--999-999--9999-99999999999999999999--9999----999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 2
+s bosTau3.chr9 13658922 79 - 95030419 CCACTGCAAACGCAATTTCTCCCTTCGCTGG----------------T--AGG-TCC--TGCTGGTCTGATCGGACTTGGGCTC--CATC----TGTTTCATTTAA
+q bosTau3.chr9 9999999999999999999999999999999----------------9--999-999--9999999999999999999999999--9999----999999999999
+i bosTau3.chr9 C 0 I 2
+s equCab1.chr31 13002659 77 + 24938454 CAGCTGCAGACAC-CTTTCACGATCCACTGG----------------T--GGG-TCC--TGCT-ATCTGCTCTGACATGGGCTC--GATC----TATTTTTTTTAA
+q equCab1.chr31 9999999999999-99999999999999999----------------9--999-999--9999-99999888888808888888--9999----999999999999
+i equCab1.chr31 C 0 I 2
+s canFam2.chr1 78209544 78 - 125616256 TGACTGCAAACACATTTTTATACTCTGCTGG----------------T--AGG-TTC--TGCT-ATCTGATCTGACACAGTCTC--AGTC----TGTTTTATTTAA
+q canFam2.chr1 9999999999999999999999999999999----------------9--999-999--9999-99999999999999999999--9999----999999999999
+i canFam2.chr1 C 0 I 2
+s felCat3.scaffold_217398 70168 74 - 219823 TGGCCGCGAGCACATTTTTATACTCTGCTGC----------------T--GGG-TTC--TGCT-CTCCGACCCGACAGGGGCTC--CGTC----GGT----TTTAA
+q felCat3.scaffold_217398 9999999999999999999999999999999----------------9--999-999--9999-99999999999999999999--9999----999----99999
+i felCat3.scaffold_217398 C 0 I 2
+s dasNov1.scaffold_15233 47646 76 + 62638 CAGCTG--GACACGTTCTCAGGCTTCCCAGC----------CACTGCC--CTC-GTG--GGCT-GTCTTACCTGACATGTGCTC--TGTG----CACTTT------
+q dasNov1.scaffold_15233 999979--99999999999999999999999----------9999999--999-999--9999-99999999999999999999--8969----999999------
+i dasNov1.scaffold_15233 I 295 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 38234 3501 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+
+a score=1203702.000000
+s mm9.chr10 3140742 185 + 129993255 --------TCCTGAGTACTCACTCTTCATTTGAGGATGCTTGACTGGGCCACTCATT-AAGAC-AGA--AAAGCACCTTAAG-------GCTTTTATTT---ATAAGCGTC-ACCTAGCAACAGCAACAGGTAGTTCTCAGCAAAGTGCCTGAG------CCCCTGTGATTCCTTATCTCT-CCTTGGGATGCTGAGAATGCTCATAACAACATT
+s rn4.chr1 229958677 179 - 267910886 --------TTATGAGTACTCACTCTTCGTCTGAGGATGCTTGACTTGGCCACGCATT-AAG---GGG--AAAGCACCTTAAG-------GCCTCTATTA---ATAAGCATC-ACCTAGCAACAGC-ACAGGTACCTCTCAGCTAAGTACCGGAG------CCTCTGTGATTCTCTCTC----CTCCGGGACTTTCAGAATGCTCATGACGACCTT
+q rn4.chr1 --------9999999999999999999999999999999999999999999999999-999---999--9999999999999-------9999999999---999999999-9999999999999-9999999999999999999999999999------999999999999999999----999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132338 194 - 133272 --------TCAGGAGTAGTAGCACTTAATTTGAGGATGCTTGACTTGGCCACTcatt-aaaac-aga--aaagcaatCTGAGGGTGTGTGCTTATATTT---ATAAGCACC-ACCTAGCAACAGCATCAGTTAATTCTTAGCAAACCAAATGAAACATTTCCCCTGAGATGTCCTACCTGTCCCTTAGGACATGAAGAGTTCtcataaca-----
+q cavPor2.scaffold_286578 --------9999999999989999999999999999899999999896999999999-99999-999--999999999999999999999999999999---999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----
+i cavPor2.scaffold_286578 I 2 I 36
+s oryCun1.scaffold_197619 40662 198 + 79436 --------TTTGCAGTGATGATACTTGGTTTGAGGATGCGTGGCTTGGCCACTGATT-AAAAC-AAA--GAAGCAGTTTGAGGGTGTGTGC-TGTGTTT---ATCAGCACCTGCCTAGCAACAGCATCAGGTAATTCTTTGCAAATGAAAGGACACATTTCCCCTGAGTTTTGTTACCCATTTCTGGGGACTTGGAGGGTTCTCATAACA-ACCT
+q oryCun1.scaffold_197619 --------9999999999999999999999999999999999999999999999999-99999-999--9999999999999999999999-9999999---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig1260 3394 191 - 523245 --------TCTGGAATGATGACACTTAATTTGAGGATGCCTGACTTGGCCACTAATT-AGAGCAAAA--AAACCAGTCTTACAGTGTATGCTTATATTT---ATAAGCACC-ACCTAGCAACAGCATCAGGCAATTCTTAGC-AACTAAATGAGACATTTCCCTTGAGTTTTCTT-CTTATTC-------CTTGAAGAGTTCTCTTAACAGCCtt
+i calJac1.Contig1260 I 2 I 319
+s rheMac2.chr4 108440890 192 + 167655696 --------TCTGGAATGATGACACTTAATTTGAGGATGCTTGACTTGGCCACTAATT-AAGGC-AAA--AAACCAGTCTTACGGTGTGTGCTTATATTT---ATAAGCACC-ACCTAGCAACAGCATCAGGCAATTCTTAGTAAAATAAATGAGACATTTCCCTTGAGATTTCTTCCTTATTC-------CTTGAAGAGTTCTTATAACAGCCTT
+q rheMac2.chr4 --------9999999999999999999999999999999999999999999999999-99999-999--999999999999999999999999999999---999999999-99999999999999999999999999999999999999999999999999999999999999999999999-------9999999999999999999999999
+i rheMac2.chr4 I 2 I 676
+s ponAbe2.chr6 16338535 192 - 174210431 --------TCTGGAATGATGATACTTAATTTGAGAAGGCTTGACTTTGCCACTAATT-GAAGT-AAA--AAACCAGTCTTACGGTGTGTGCTTATATTT---ATAAGCACC-ACCTAGCAACAGCATCAGGCAATTCTTAGCAAAATAAATGAGACATTTCCCTTGAGATTTCTTCCTTATTC-------CTTGAAGAGTTCTTAAAACAGCCtt
+i ponAbe2.chr6 I 2 I 343
+s panTro2.chr6 16555671 190 - 173908612 --------TCTGGAATGATGACACTTAATTTGAGAAGGCTTGTCTTTGCCACTAATT-AAAGT-AAA--AAACCAGTCTTACGGTGTGTGCTTATATTT---ATAAGCACC-ACCTAGCAACAGCATCAGGCAATTCTTAGCAAAATAAATGAGACATTTCCCTTGAGATTTCTTCCTTATTC-------CTTGAAGAGTTCTTATAACAGCC--
+q panTro2.chr6 --------9999999999999999999999999999999999999999999999999-99999-999--999999999999999999999999999999---999999999-99999999999999999999999999999999999999999999999999999999999999999999999-------99999999999999999999999--
+i panTro2.chr6 I 2 I 362
+s hg18.chr6 16033322 189 - 170899992 --------TCTGGAATGATGACACTTAATTTGAGAAGGCTTGTCTTTGCCACTAATT-AAAGT-AAA--AAACCAGTCTTACGGTGTGTGCTTATATTT---ATAAGCACC-ACCTAGCAACAGCATCAGGCAATTCTTAGCAAAATAAGTGAGACATTTCCCTTGAGATTTCTTCCTTATTC-------CTTGAAGAGTTCTTATAACAGC---
+i hg18.chr6 I 2 I 363
+s otoGar1.scaffold_334.1-359464 303155 197 - 359464 --------TCTGGAGTAATGATATTTAGTTTGAGGTTGCTTGACTTGTCCACTAATT-AAAAA-AAA-CAAAGCAATACTAGGGTGTATCCTTGTGTTT---CTAAGCACC-GCCTAGCAACAGCATCAGGTAA---TTAGCAAACTAAATGAAACATTTCCCCTGAGAGTTCATACCTAATCCTAGGGACTTGAAGCGTTCTCATAGCAGCTTT
+q otoGar1.scaffold_334.1-359464 --------9978899998899989999992113999999999599878999999898-89999-999-9999999998989999999969999999899---999946999-4699956999999999999999---999999999999999999999999999999999999999999966999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 2 I 56
+s tupBel1.scaffold_114895.1-498454 332447 196 - 498454 --------TCTGGAGTGATGTAACTTAATTTGAGGATGCTTGACTTGGCCACTAATT-AAAGC-AAA--AAAGCAGTTTTAGGGTGTGTGCTTGTATTT---ATTAGCACC-ACCTAGCAACAGCATCAGGTAATTCTTAGTAAACGAAATGAGACATCTCCCCTGAGATTTCTTACCTATTTCTTGGGACTCAAAGAGTTATCATAACAAC---
+q tupBel1.scaffold_114895.1-498454 --------9999999999999999999999999999999999999997698789999-99978-999--999999999999999998978779899797---967756476-4676957656457566567576356756467964458657555336644775465352845344133539454348212453843435122435443224---
+i tupBel1.scaffold_114895.1-498454 I 2 I 3177
+s sorAra1.scaffold_256646 41735 198 - 121936 --------TCTGGGGTGACGACTCTTAATTTGAGGATG-TTGACTTGGCCACTAATT-AGAGC-AAAATAAGGCAACGGAGGGG-GTGTGctaatatttataataagaaCC-ACCTAGCAACAGCGTCAGGTAATTGGCAGCGAATGAAATGAGACATTTCCCC-GTGATTTCATGCATATGGTCAGGGTCTAAAAGAATTCTCACAATGAC---
+q sorAra1.scaffold_256646 --------999999999999999999999999999999-999999999999999999-99999-99999999999999999999-99999999999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999---
+i sorAra1.scaffold_256646 I 3501 I 56504
+s felCat3.scaffold_217398 70244 199 - 219823 --------CCTTGAAGGATGGTGCTTCGTCTGAGGATGCTTCACTTGGCCACTTACTGAAAGC-AAA--AAGGTGACGTCAGGG-GTGTGCTTCTGTTC---ATAAGCACC-ACCTGGCAACAGCATCGGGTCCTTGTCTGCAAACTAAGTGAGACACTTCCCCTGGGATTTCTTACCTACGTTTTGGGCCTCGAAGGGTCCTCGTAACAACATT
+q felCat3.scaffold_217398 --------9999999999999999999999999999999999999999999999999999999-999--999999999999999-99999999999999---999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 I 2 C 0
+s canFam2.chr1 78209624 199 - 125616256 --------CCTTAAATGTTGGCACTTCATTTGAGGATGCTTGACTTGGCCACTAATT-AAAGC-AAA--AAGGCAATCTTAGGGTGTGTGCTTGTATTT---ATAAGCACC-ACCTAGCAACAGCATCAGGTAATTCTCTGCAAACTAAATGAGACATTTCCCCTGAGATTTTGTAGGTATGTTTTGGGACTCGAAGAGCTCTCTTGACAACCTT
+q canFam2.chr1 --------9999999999999999999999999999999999999999999999999-99999-999--999999999999999999999999999999---999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 2 C 0
+s equCab1.chr31 13002738 195 + 24938454 --------TCTCCAGTGACGACACTTAATTTCAGGATGCTTGACTTGGCTGCT-----AAAGC-AAA--AAAGCAATCTCAGGGCGTGTGCTTATGTTT---ATAAGCACC-ACCTAGCAACAGCATCAGGTAATTCTCAGCAAGCTAAACGAGACATTTCCCCTGAGATTTCTTGCATATTTCTTGGGACTTGAAGAGTTCTCATTACAACCTT
+q equCab1.chr31 --------999999999999999999999999999999999999999999999-----99999-999--999999999999999999999999999999---999999999-9999999999999999999999999999909999999999999999999999999999999999999999999999999999999999999999999909999
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13659003 198 - 95030419 --------TCCCCAGGGATGACACTTAACTTCAGGGTGCTTGACTTGGCCACTAATT-AAAGC-AGA--AAAGCAATCTTAGGGTGTGTGTTTATGTTT---ATAAGCGCC-ACCTAGCAACAGCATCAGGTGTTTCTCCGCAAACTGAAT-AGACATTTCTCTTGAGCTTTCTTCCATATTTCTTGGGACATGAAGCGTTCTCATAACAACACT
+q bosTau3.chr9 --------9999999999999999999999999999999999999999999999999-99999-999--999999999999999999999999999999---999999999-999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 2 I 11
+s dasNov1.scaffold_15233 47722 189 + 62638 TCTTAAGTTCTACAGTGATGAC----CGGTTGAGGACGCTTGATGT------------ACAGC-AGA--AAAGCGCTTGTAGGGCGTGTGCTTGTATTT---ATAGGTACC-ACCTAGCAACAGC-TCAGGCAATCCTTGGCAATCGGAATGAGACATTTCCCCCGAGACTTCTCACGTATTCCTTGGGACTTGAAGACTTCTCTCAACAAAG--
+q dasNov1.scaffold_15233 9999999999999999998999----99998999999999999999------------99999-999--999999999999999999899999999999---999999999-9999999999999-999999999999999999999999989999999999999999999999999999999999999999999999999999999999999--
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+
+a score=-28618.000000
+s mm9.chr10 3140927 53 + 129993255 GGATA-----gtatgtatgtatgcatgcatgtatgtatgtatgtatgtatgtatgta------------------------------t
+s oryCun1.scaffold_197619 40860 88 + 79436 GcacacacacacacacacacacacgtgcatgcacacatgtgcatacacacatatgcacaccatacatgcacaTCTATTTTAAAGCTTT
+q oryCun1.scaffold_197619 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s rn4.chr1 229958856 37 - 267910886 GGAT---------------------tttgtttgtttgtgtgtttgtttatttATGGG------------------------------T
+q rn4.chr1 9999---------------------99999999999999999999999999999999------------------------------9
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13002933 13 + 24938454 ---------------------------------TTTTTTTTTTTAA------------------------------------------
+q equCab1.chr31 ---------------------------------9999999999999------------------------------------------
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78209823 17 - 125616256 -----------------------------TCTGTTTCTGTTTTTGT------------------------------------------
+q canFam2.chr1 -----------------------------99999999999999999------------------------------------------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 70443 19 - 219823 ---------------------------TGTTTGTTTTTGTTTTTGT------------------------------------------
+q felCat3.scaffold_217398 ---------------------------9999999999999999999------------------------------------------
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_15233 47911 13 + 62638 ----------------------------ATGT-TTTTTGTTT----------------------------------------------
+q dasNov1.scaffold_15233 ----------------------------9999-999987999----------------------------------------------
+i dasNov1.scaffold_15233 C 0 C 0
+e bosTau3.chr9 13659201 11 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108441082 676 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e calJac1.Contig1260 3585 319 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 132532 36 - 133272 I
+e otoGar1.scaffold_334.1-359464 303352 56 - 359464 I
+e hg18.chr6 16033511 363 - 170899992 I
+e panTro2.chr6 16555861 362 - 173908612 I
+e ponAbe2.chr6 16338727 343 - 174210431 I
+
+a score=455721.000000
+s mm9.chr10 3140980 232 + 129993255 gtTCTTT----AATACGA-----------GGTGCTGTG--AGGGTTGGCGTTCAC-CA-TGGCTGAAGATAATTTTCATGTGACTCAGCAGTACTT---AGGGCAAGAGGGGC---CGATGACCAGTC---GCAGCTTCTGTGCTCTGACTA-CGT-GAGCTGACCCCTTTGTAGCCTAC-TTT-GAGATGTGTGTGTGTGTTTCGTGGTTGGAGAGAAGACACTGAAAGTCATCATTTATCTGGAATAAATTACCAGAACAGT
+s oryCun1.scaffold_197619 40948 207 + 79436 ATTCTTT----AAGACAAGTAGGAAGGAGGGAGTTGAGGCGTGGTCAGTGGTCAC-CATTGGTTGAAGCTTGTTCTCAGGATCCTCAGCTGGATTT----GGGGAGGATGAGCTGTTTTTGGCCAGTC---ATA----CTGTCCTGTGAA-------------------CT----------TTG-GAGG-----AAGCTTCTGTTGTTAGTA-GGAAGTGACCCTGAATGTCATTT-----CAGAGATGAGTAACTAGGGCTGT
+q oryCun1.scaffold_197619 9999999----99999999999999999999999999999999999999999999-9999999999999999999999999999999999999999----9999999999999999999999999999---999----999999999999-------------------99----------999-9999-----999999999999999999-99999999999999999999999-----99999999999999999999999
+i oryCun1.scaffold_197619 C 0 C 0
+s rn4.chr1 229958893 223 - 267910886 GTTGTTT----AGGATGA-----------GGTGCTGTG--AGGGGCGGTA-TCAC-TG-TGGCTGAAGATTATTTTCATGCGACTCAGCAGTACTT---AGGACAAAGTGGGC---CTTTGGCCAGTC---GTATCTTCTACACTGTGAC---GTA-GAGCCGACCCC-TTGTAGCTGAC-TTT-GAGATTTGGGTGTTTGTGTCTTGTTGGAGGGAAGAAAGTTGAAAGTCATCG-----CTGGAATAAATAACCAGAACAGT
+q rn4.chr1 9999999----9999999-----------999999999--9999999999-9999-99-9999999999999999999999999999999999999---99999999999999---999999999999---9999999999999999999---999-99999999999-99999999999-999-999999999999999999999999999999999999999999999999999-----99999999999999999999999
+i rn4.chr1 C 0 C 0
+s felCat3.scaffold_217398 70462 215 - 219823 -GT--------TTTTCAA-----AAGAAGGGCGTTGTGAGGTGGTCGGTGGGCGC-TG-TGGCTCAAGTTTG---TCAGTATCGCCAGGGGGACATTGGAAGATG-GGTGGCC---TTGTGGCCGG--------TCCTATAGTCTCTGACCACACAGGGGTTTGTCAG-GATTAGCAGAT-CCC-AGGG-----AAGATTGCATAATTGGTA-GAAAATGACACAGAATGCTATTT-----CGGGAAT----AAGCAGAGCAGT
+q felCat3.scaffold_217398 -99--------9999999-----99999999999999999999999999999999-99-9999999999999---999999999999999999999999999999-9999999---9999999999--------9999999999999999999999999999999999-99999999999-999-9999-----999999999999999999-99999999999999999999999-----9999999----999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78209840 203 - 125616256 -TT--------CTTACAAGTAGTAAGAAGGGAGCTGTGGGATGGCCAGTGGGCAT-CA-TGGTTGGAATTTGTTATCAGGATTGTCAAGTGGACGTTGGAGGATGAGGCGGGC---TT------------------------TTTGTGACCACCCA-GAGTTTACCAC-AATTAGCAGAT-TTT---GT-----GAGCTTTCACAGTTGGT--GAAAATGACACAGAATGTTATTT-----TGGGAAC-----ATCAGAGCAGT
+q canFam2.chr1 -99--------99999999999999999999999999999999999999999999-99-999999999999999999999999999999999999999999999999999999---99------------------------99999999999999-99999999999-99999999999-999---99-----99999999999999999--99999999999999999999999-----9999999-----99999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13002946 230 + 24938454 -G------------ACAAGTGGTAAGAAGGGAGTTATGGGGTGATCAGTGGGCGC-TG-TGGTCCTAATTTCTTCTCAGGATCCTCTGGTGGACTTTGG-GGGTGAGATGAGT---CCTTGGCCAGTCACACTATCCTATGGTCTGGGACTTCTTG-GGGTTCATCAC-CTTTAGCTGGT-TTT-TGGG-----CAGATTTCATTGTTGATG-GAAAAAGACACCGAATGTCTTTT-----CAGGAATAAATAACCAGGGCAAT
+q equCab1.chr31 -9------------99999999999999999999999999999999999999999-99-9999999999999999999999999999999999999999-9999999999999---9999999999999999999999999999999999999999-99999999999-99999999999-999-9999-----999999999999999999-99999999999999999999999-----99999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13659212 215 - 95030419 -TT--------TTTTT-------TTGGGGGGCGTCGTGGGGTGGCC-GTGGGTGTGTA-TGGTTGAAGTGTGCTCTTAAGATCCTCAAGTGGACTCAGGAGGATGAGATGGCC---TTTTAGCCAATCACTGGGCCGTAACGTTTGCTACTGAACC-AGGTTCACCGA-ACTTAGATGAT-TCTGAAGG-----GAGACTTCTTTGTTGCTG-GTAAATGACACTGAATGTCATTT-------------------CAGGGCAGG
+q bosTau3.chr9 -99--------99999-------99999999999999999999999-99999999999-999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999-99999999999-99999999999-99999999-----999999999999999999-99999999999999999999999-------------------999999999
+i bosTau3.chr9 I 11 C 0
+s cavPor2.scaffold_286578 132568 218 - 133272 ----TAT----AAGGAGA-----------AGAGTTGGG--GAGGTCAGTGGTCAC-TA-TGGTTGAAGCTTGTGTTCAGGATGCTCAGCTGCACTTGGGAGGACAGGATGGG----CTTTGGCCAGTC-CATTGTCCTATAGACTGTGACTACATG-GGGTTTATCAG-GTTTAGCTGAG-TTG-GAAA-----GAGATTACATTGCAAATG-GGAAGTGACACTG-AAGTCCTTT-----CAGGAGTAA--TACCCAGGCAAT
+q cavPor2.scaffold_286578 ----678----6899999-----------999999999--999999996789976-96-66666775999899799999996949697988779769879986999997996----899695599695-966568999798999797979789779-99999759999-99967999999-949-9999-----999999999968999999-9999999899999-999799999-----999999999--799999989987
+i cavPor2.scaffold_286578 I 36 C 0
+s panTro2.chr6 16556223 216 - 173908612 -----------------------------GGAGTTGTGGGGTGGTCAGTGGTCAC-TG-TGGTTGAAGTTTGTTCTTAGGATCCTCAGTAGGACCTAGGAGGATGAGATGGGC---TTTTGGCTGGTCACACCATCCTATAGTTGGTGACCACACG-GGGTTTACCAC-ACTTAACTGACTTTT-GGTG-----GAGATTTTATTGTTGATG-GGAAATGACACCAAATGTCATTT-----CAGGAATAAATAACCATGGCAGT
+q panTro2.chr6 -----------------------------99909999999999999999999999-99-999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999-99999999999-999999999999999-9999-----999999999999999999-99999999999999999999999-----99999999999999999999999
+i panTro2.chr6 I 362 C 0
+s hg18.chr6 16033874 216 - 170899992 -----------------------------GGAGTTGTGGGGTGGTCAGTGGTCAC-TG-TGGTTGAAGTTTGTTCTCAGGATCCTCAGTAGGACCTAGGAGGATGAGATGGGC---TTTTGGCTAGTCACACTATCCTATAGTTGGTGACCACACG-GGGTTTACCAC-ACTTAACTGACTTTT-GGTG-----GAGATTTTATTGTTGATG-GGAAATGACACCAAATGTCATTT-----CAGGAATAAATAACCATGGCAGT
+i hg18.chr6 I 363 C 0
+s rheMac2.chr4 108441758 216 + 167655696 -----------------------------GGAGTTGTGGGGTGGTCAGTGGTCAC-TG-TGGTTGAAGTTTGTTCTCAGGATCCTCAGTAGGACCTGGGAGGATGAGATGGGC---TTTTGGCTAGTCACACCGTCCTATAGTTGGTGACCACACG-GCGTTTACTAC-ACTGAGCTGACTTTT-GGTG-----GAGATTTTATTGTTGATG-GGAAATGACACCGAATGTCTTTT-----CAGGAATAAATAACCGTGGCAGG
+q rheMac2.chr4 -----------------------------99999999999999999999999999-99-999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999-99999999999-999999999999999-9999-----999999999999999999-99999999999999999999999-----99999999999999999999999
+i rheMac2.chr4 I 676 C 0
+s ponAbe2.chr6 16339070 239 - 174210431 --TCTTT----AACACAAGTAGTAAGAAGGGAGTTGTGGGGTGGTCAGTGGTCAC-TG-TGGTTGAAGTTTGTTCTCAGGATCCTCAGTAGGACCTAGGAGGATGAGATGGGC---TTTTGGCTAGTCACACCATCCTATAGTTGGTGACCACACG-GGGTTTACCAC-ACTTAACTGACTTTT-GGTG-----GAGATTTTATTGTTGATG-GGAAATGACACCAAATGTCATTT-----CAGGAATAAATAACCATGGCAGT
+i ponAbe2.chr6 I 343 C 0
+s calJac1.Contig1260 3904 238 - 523245 --TCTTT----AACATAAGTAGTAAGGAGGGAACGGTGGGG-GGTCAGTGGTCCC-GG-TGGTTGAAGTTTGTTCTCAGGATCTTCAGTAGAGCCTGGGAGAATGAGATGGGT---TTTTGGCTAGTCACACCATCCTAGGGTTGGTGACCACACG-GGGTTTGCCAC-ACTTAGTTGACTTTT-GGTG-----GAGATTTTATTGTTGATG-GGAAATGACACTGAATGTCCTCT-----CAGGAATAAATAACCATGGCAGT
+i calJac1.Contig1260 I 319 C 0
+s dasNov1.scaffold_15233 47924 225 + 62638 -TTTTTTTAACAAGACAAGGGGTAAGAAGGGTG----GGGGTGCCCCTGGAACCC-TG-TGGGTGAAGTTTGTTCTCAGGAT-CTCATTTGGACGTCGCAGGAAGTGACGGGC---------------ACGCCATCCTGTAGTC--CGATGGGACG-GGGCTCACCGC-ACGTAGCTGATGTGG-GGGG-----AAGAGTTCACTGTTGATG-GGAAATGGCCCTGAATGCGATTT-----CAGGAATAAATAACCAGAGCAGG
+q dasNov1.scaffold_15233 -99999999999999999999999999999999----999999999999999999-99-99999999999999999999999-999999999999999999999999999999---------------9989999999999999--9999999999-99999999999-999999999999999-9999-----999999999999999999-99999999999999999999999-----99999999999999999999999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e otoGar1.scaffold_334.1-359464 303352 56 - 359464 I
+
+a score=-28302.000000
+s mm9.chr10 3141212 131 + 129993255 TCTCAAAATTTA-----GAAGCTTGTGTTGTGCTAA----GCTTAGCTGCCCTGGGTTTCATACCATTGGAGATGGGG--AGGGCACTCCTTCCTGT------GCAGCCTC-----AGCCTTCAGAGCCTCCTCT----------------------------------------------------------TGCCTGCCACATCATGG---C----
+s rn4.chr1 229959116 185 - 267910886 TTTCAAAATTTA-----GAAGTCTGTGTTGTTCTAA----GCTTAGCTGCCCTGAGTTTCTTATGGTTGGAGAGGGGGCAAGGGCACTCCTTCCAGT------GCAGCCTC-----AGTCTTCAGAGACTCACTT----GTTAAGCTCACCTCAGAGGGCTGAACTGTGGGCCTTCCCCAGCATGGCTGTG--CGCCTTCCCCAGCATGG---C----
+q rn4.chr1 999999999999-----9999999999999999999----999999999999999999999999999999999999999999999999999999999------99999999-----9999999999999999999----9999999999999999999999999999999999999999999999999999--99999999999999999---9----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132786 140 - 133272 TCTCAAAAATTG-----GAAGTTTGTGTTGTGCCAA----ACTGGGGTGCCC--AGTCCTGTATCA-TGGCTATGGGG--CGGGGACCTTCTCCTGC-------CGGCCTC-----ATCTGGAAGATGTGATATT----TCTGCATTCACTACATTGAGTT-----------------------------------------CGTCACGC---C----
+q cavPor2.scaffold_286578 999999999959-----9999999999999999999----999999999999--989999999999-89999999999--99999999999999999-------9999999-----9999999999999999999----9999999999999999999999-----------------------------------------99999999---9----
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 41155 168 + 79436 TCTCGAAATCTG-----GAAGTGTGTGCATTGTTGGGGCCGGTGTGGTGC----AGTCCTGTAGCCATGGAGACCGGG--AGGTGACCTCTTCCTGC-----------CTG-----GGCCTCCTGGGTCACCCTTCCTTTCTGGGTCCACCTGATTGCACAGAACTGT------------GAGGGTCCCTC--TGTTTGTCTC--CAGGC---C----
+q oryCun1.scaffold_197619 999999999999-----999999999999999999999999999999999----999999999999999999999999--99999999999999999-----------999-----9999999999999999999999999999999999999999999999999999------------99999999999--9999999999--99999---9----
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16339309 160 - 174210431 TCTAAAAACTTGGCACAAATATATTAGTTGCGCTGAG---ACTGGGGTATCTC-CATCCTTTATCCATGGAGACTGAC--AAGTGACAAC-TCTTGC------TCCGGCTC-------CTTTGTGCATTCCCCTT------------------ATTGTGAGGAACCGA------------GAGGGGCCCTCC-CGTCTGTGTCCCCATGC---C----
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108441974 160 + 167655696 TCTCAAAATTTGGCACAAATCTACGTGTCGCACTGAG---GCTGGGGTGTCTC-CATCCTTTATCCATGGAGACTGGC--GAGTGACAGC-TCCTGC------TTTGGCTC-------CTTTGTGCATTCCCCTT------------------GTTGTGAGGAACTGA------------GAGGGGCCCTCC-CGTCTGTGTCCCCATGC---C----
+q rheMac2.chr4 9999999999999999999999999999999999999---9999999999999-999999999999999999999999--9999999999-999999------99999999-------99999999999999999------------------999999999999999------------999999999999-99999999999999999---9----
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16034090 160 - 170899992 TCTAAAAACTTGGCACAAATATATGAGTTGCGCTGAG---ACTGGGGTAGCTC-CATCCTTTATCCATGGAGATTGGC--AAGTGACAAC-TCCTGC------TCCGGCTC-------CTTCGTGCATTCCCCTT------------------ATTGTGAGGAAGCGA------------GAGGGGCCCTCC-CGTCTGTGTCCCCATGC---C----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16556439 160 - 173908612 TCTAAAAACTTGGCACAAATATATGAGTTGCGCTGAG---ACTGGGGTAGCTC-CATCCTTTATCCGTGGAGATTGGC--AAGTGACAAC-TCCTGC------TCCGGCTC-------CTTTGTGCATTCCCCTT------------------ATTGTGAGGAAGCGA------------GAGGGGCCCTCC-CGTCTGTGTCCCCATGC---C----
+q panTro2.chr6 9999999999999999999999999999999999999---9999999999999-999999999999099999999999--9999999999-999999------99999999-------99999999999999999------------------999999999999999------------999999999999-99999999999999999---9----
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 4142 155 - 523245 TCTCAAAATTTG-----AATACATGTGTTGTGCTGAG---GCTGAGGTGTCTC-CATCCTTTATCCACAGAGATTGAC--TAGTGACAGC-TCCTGC------TCCGGCTC-------CTTTGTGCATTCCCCTT------------------ATTGTGACGAACCGA------------GAGGGGCTGTCT-CGTCTGTGTCACCACAC---C----
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 303408 127 - 359464 TCTCAAAATTTG-----AAAGTAAGTGTTGTGCCAAG---GCTGGAGTGTCT--CATCCTGGAACTGTGGAG--------------TATC-CCCCGT------TTATCGTC-------CT--GAGCCTCACCCTT------------------C-------------A------------GATACTCTTTCTGCCTCAGATGCCTCATGG--------
+q otoGar1.scaffold_334.1-359464 467999999957-----99999899887493548696---696899887521--235996623224524111--------------1000-011000------00111000-------11--6925988279989------------------6-------------4------------121213611110123001010111035244--------
+i otoGar1.scaffold_334.1-359464 I 56 I 12254
+s felCat3.scaffold_217398 70677 124 - 219823 TTTCATAATTTA-----AAAGTGTGTCTTGTGCCAA----GGCCAGGTGTCTC-CG-TCTGTCTCCATTGAGATTGGG--A-GTGACCTCTTCGTGC-------------------------------TCGAGGC------------------TCACAGGTGAGCC---------------------------TTTCTGCGTCCACATCATCGC----
+q felCat3.scaffold_217398 999999999999-----9999999999999999999----9989999999999-99-999999999999999999999--9-999999999999999-------------------------------9999999------------------9999999569799---------------------------999759847898836966999----
+i felCat3.scaffold_217398 C 0 I 278
+s canFam2.chr1 78210043 129 - 125616256 TCTCAAAATTTA-----AAAGTGTGTGCTGTGCCGA----GGTCAGGTGTCTC-CGTTCGGTCTCCATAGAGGTTAGG--A-GTGACCTCTTCATGC-------------------------------TCGAGTC------------------CCACCTGGAAGCTGC----------------------CG-TGTCTGTGTTCAGAGCATTGC----
+q canFam2.chr1 999999999999-----9999999999999999999----9999999999999-999999999999999999999999--9-999999999999999-------------------------------9999999------------------999999999999999----------------------99-999999999999999999999----
+i canFam2.chr1 C 0 I 55
+s equCab1.chr31 13003176 164 + 24938454 TCTCAAAATCTG-----AAAGTATGTGTCATCCCAA----GGCCAGGTGTCTC-AGTTCTGTGCCCATGGAGACTGGG--AGGTGACCTCTCCGTGCACTTGTATGCCTCC-------CTTTCTGCCTTCGCATC------------------ATTTCTTAGAGCTGC------------GAGGGCCTTTCC-TCTCTGTCTTACCACTTTTGC----
+q equCab1.chr31 999999999999-----9999999999999999999----9999999999999-999999999999999999999999--9999999999999999999999999999999-------99999999999999999------------------999999999999999------------999999999999-999999999999999999999----
+i equCab1.chr31 C 0 I 7
+s bosTau3.chr9 13659427 141 - 95030419 TCTCAAAATTTG-----GAAGCTCAT-------CGA----GGGCGGGTGTCTG-AGCTCTGTGACGGTGGAGACTTCG--C-ACAGCACCTGCACGC-----------CGC-------CCTTCTGCAATCACATC------------------ATTGCGGAAAGCTGC-------------GGCGCTCCTCT-TTTCTGTCTCGCTGCTTC-------
+q bosTau3.chr9 999999999999-----999999999-------999----9999999999999-999999999999999999999999--9-999999999999999-----------999-------99999999999999999------------------999999999999999-------------99999999999-999999999999999999-------
+i bosTau3.chr9 C 0 I 18
+s dasNov1.scaffold_15233 48149 166 + 62638 TCTCAAAATTTG---------------------CAAG---GCCAGAGTGTTTC-ATCTCTGTCTCCATGGAAATTAGG--AGGTGATGTCTTCCCGG------TAGGACCTTTTTTTTCCCCTTGAGTTGCTCTC-ATTGCAGAGAACTGTGAGGGCCTCTGGGTTTT---------------GGTCTCTCCGCTTCTGTTTGCCACTGC---CTCCC
+q dasNov1.scaffold_15233 999999999999---------------------9999---9999999999999-999979999999999999999999--99999999999999999------99999999999999999999999999999999-99999999999999999999999999999999---------------999999999999999999999999999---99999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+
+a score=187340.000000
+s mm9.chr10 3141343 133 + 129993255 CGTGCCT---GTGCCTCTTCCTGTGGTCATCGT----------AGC----------TGGGAGCCTTTG-TGGTCTCACC-----------------TCCCTTTTCT-GTCTTGCTTTCTCTCATTT-CTGCTTTCTCTGGGG-TTTTACCTGGTTAAACCTGGGCTAGC------CTGGGCTT-----
+s rn4.chr1 229959301 128 - 267910886 TGTGCCT------CCTCTTCCTGTGCTCATCAC----------AGC----------TGTGAGCCTTTG-TGGTCTCGCC-----------------TCCCTTTTCT-CTCTTTCTCTCTCTCATTT-CTGCTTTCTCTGGAG-GTTTCCC--------CCTGGGCTAGCTGTTTTCTGGGCTT-----
+q rn4.chr1 9999999------99999999999999999999----------999----------999999999999-9999999999-----------------9999999999-9999999999999999999-999999999999999-9999999--------9999999999999999999999999-----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 132926 121 - 133272 TGTATCA----TACCTCTCTCTGTGCCCATCCT----------AGCTGGTTGTGCTTGGGGACATTTG-TATTCTTacc-----------------catttttcct-tt-----ttactgtccTTC-CTGCTCTTTCTGGAG-TTTTTAT--------CAT--------------CTAGGCTT-----
+q cavPor2.scaffold_286578 9999999----9999999999999999999999----------9999999999999999999999999-9999999999-----------------9999999999-99-----999999999999-999999999999999-9999999--------999--------------99999999-----
+i cavPor2.scaffold_286578 C 0 C 0
+s oryCun1.scaffold_197619 41323 132 + 79436 TGTGTCTCCCCCAACCCCGCCCGTGGCCATCCT---------CAGCCTGTCG----TGTG-----TCA-TGTCCTTGCC-----------------TGGTGTCCCC-TT----ATTACACTCGCTT-GTACTCTGCTTGGAG-CTTTGTC--------CCTGCCTGAGTCATTACCTAGGCTT-----
+q oryCun1.scaffold_197619 999999999999999999999999999999999---------9999999999----9999-----999-9999999999-----------------9999999999-99----9999999999999-999999999999999-9999999--------9999999999999999999999999-----
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16339469 138 - 174210431 TGTGTCA---CTGCCTCTCTTTTCACTCAGCGTGTTGTCTTCCAGCT---------CCCAGACCTGAG-CGTTCTTGCC-----------------TTGCTTTCTC-TC----TTTCCTCTCATTT-ATGCTATTTCTGGCA-TGTCATC--------ACTGGCTTACCCATTATGTAGGCTT-----
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108442134 138 + 167655696 TGTGTCA---CTGCCTCTCTTTTCACCCAGCCTGTTGTCTTCTAGCT---------CCCCGACCTGAG-TGTTCTTGCC-----------------TTGCTTTCCC-TC----TGTCCTCTCATTT-ATGTTATTTCTGGCG-TGTCATC--------ACTGGCTTACCCATTATGTAGGCTT-----
+q rheMac2.chr4 9999999---9999999999999999999999999999999999999---------999999999999-9999999999-----------------9999999999-99----9999999999999-999999999999999-9999999--------9999999999999999999999999-----
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16034250 138 - 170899992 TGTGTCA---CTGCCTCTCTTTTCACCCAGCGTGTTGTCTTCTAGCT---------CCCGGACCTGAG-CGTTCTTGCC-----------------TTGCTTTCTC-TC----TTTCCTCTCATTT-ATGCTATTTCTGGCG-TGTCATC--------ACTGGCTTACCCATTATGTAAGCTT-----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16556599 136 - 173908612 TGTGTCA---CTGCCTCTCTTTTCACCCAGCGTGTTGTCTTCTAGCT---------CCCGGACCTGAG-CGTTCTTGCC-----------------TTGCTT--TC-TC----TTTCCTCTCATTT-ATGCTATTTCTGGCG-TGTCATC--------ACTGGCTTACCCATTATGTAAGCTT-----
+q panTro2.chr6 9999999---9999999999999999999999999999999999999---------999999999999-9999999999-----------------999999--99-99----9999999999999-999999999999999-9999999--------9999999999999999999999999-----
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 4297 138 - 523245 TGTGTCA---CCGCCTCTCTTTTGACCCAGCCTGTTGTTCTCTAGCT---------CCCGGACCTGCG-TGTTCTTGCC-----------------TTGCTTCCCC-TC----TTTCCTCTCATTT-ATGCTATTTCTGGTG-TTTCATC--------AATGGATTACCCATTATGTAGGCTT-----
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78210227 129 - 125616256 ---------------TCTGACCGTTCCTAGCCTATTGGGTTCTTGCT---------CTGGGACATTTCGTGTTCTCACC-----------------TTGATTTCCC-AT----TTTACTCTCATTTCGTGGTATTCCTAGAGTTTTCACC--------CCGGGCTTAGCCATCATTTAAGCTT-----
+q canFam2.chr1 ---------------99999999999999999999999999999999---------99999999999999999999999-----------------9999999999-99----9999999999999999999999999999999999999--------9999999999999999999999999-----
+i canFam2.chr1 I 55 I 12
+s equCab1.chr31 13003347 126 + 24938454 ---------------TTTGACCATTCTTCGCCTGTTGTGTTCTAGCT---------CTGGGGTGTTCC-TGTTCTCACC-----------------TGGCTTTCCC-------TTTCCTCTCATTTTGTGCTCTTTCTGGAGTTTTCACC--------ACCGTCTTAGCCGCTAACTAGGCTT-----
+q equCab1.chr31 ---------------99999999999999999999999999999999---------999999999999-9999999999-----------------9999999999-------9999999999999999999999999999999999999--------9999999999999999999999999-----
+i equCab1.chr31 I 7 I 12
+s bosTau3.chr9 13659586 127 - 95030419 ---------------TTTGTCCATTCCTAGCTTGTTGTGTTCCAGCT---------CCGGGACATCCG-TGTTCTCACC-----------------TCTTTTTCCT--C----TTTGCTCTCATTTCATGAGGTTTCTGGGGTTTTCACC--------CCGGGTTTAGCCATTAGCGGGGCTT-----
+q bosTau3.chr9 ---------------99999999999999999999999999999999---------999999999999-9999999999-----------------9999999999--9----9999999999999999999999999999999999999--------9999999999999999999999999-----
+i bosTau3.chr9 I 18 I 4
+s dasNov1.scaffold_15233 48315 143 + 62638 ---------------TTTGACGGTTCCTCCC------TGTCCTGGTT---------CTGGAACATTCC-ACGTCTCACCATGGGAACCAGGGAGCATTGCTTTCCCGTT----CTTTCCCTCATTTCATGCTCTT--GGGAGTTTTCATC--------CCGGGTTTAGCCATTATCTAAACTGTTAAT
+q dasNov1.scaffold_15233 ---------------9999999999999999------9999999999---------999999999999-9999999999999999999999999999999999999999----9999999999999999999999--9999999999999--------999999999999999999999999999999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e felCat3.scaffold_217398 70801 278 - 219823 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=106097.000000
+s mm9.chr10 3141476 146 + 129993255 GC---------AT---GTTTTATTTACA-----TCTGCAGAGCCCT-TCTTGGTT----CCCT---GTCTTTAGC-CATCTTC--ACAGGCCTTT-----------------CA-CATACATCTCTGCGGGTGCTGAGTTGAGG----CTTTGCATG--AGATGAACTGT-CCCAGATCTGGAGG----C-CGAGGCGGAGGCT
+s rn4.chr1 229959429 154 - 267910886 GC-GTGAGGAAGT---GTTTTATTTACATGAGCTCTGCAGAGTCC--TCTTGGTT----CCTT----TCTTTCGC-CATCTTC--ACAGGCCTTT-----------------CA-CACACATCTCTGCGGGTGCTGAGTTGAGG----CTTTGCAAGTTAGATGAGCTGT-CCTAGATCTGGAGG----C------CGGCGTCT
+q rn4.chr1 99-9999999999---99999999999999999999999999999--99999999----9999----99999999-9999999--9999999999-----------------99-99999999999999999999999999999----9999999999999999999999-99999999999999----9------99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_286578 133047 141 - 133272 TAAGTGACTAAGTGGAGTTTTGTCCCCACTGGCTCGGTGGGGCATT-TTGGGGTT----TGCC-------------------------AGCATTT-----------------TA-CTTTCCACTGCACGTGCGCAGAATTGAGG-------TGTTTG--AAATGAGTTGT-CCGAGACCAGAGTT----G-TGGGGCTGGGACT
+q cavPor2.scaffold_286578 9999999999999999999999999999999999999999999999-99999999----9999-------------------------9999999-----------------99-99999999999999999999999999999-------999999--99999999999-99999999999999----9-9999999999999
+i cavPor2.scaffold_286578 C 0 n 0
+s oryCun1.scaffold_197619 41455 146 + 79436 TAAGGGAGGAAGGCAAGTTTTATCTACATGAACTCTGCAGTGTTCTCACTCGGCT----CTTCCAAGCCTCGAGG-TGTCCCCCTGAAGGCCTGT----------------------GTCCACTGCAGATGAGCAGAA-TGAGG----CATTGGGA---AGTTGA---GG-CCCACAGGTGAGCA-------------------
+q oryCun1.scaffold_197619 9999999999999999999999999999999999999999999999999999999----9999999999999999-9999999999999999999----------------------999999999999999999999-99999----99999999---999999---99-99999999999999-------------------
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16339607 184 - 174210431 TAAGTGAAAAAATCAGATGTTATTTTCATGAGCTCTGCAGGGCACT-TCTGCATT----TGTT---CTCATTTGA-C-TCTTC--TGAAGCCTGG-AGATGCACAG-GAAGGCA-GTTTCCACTGCAGATGAGCAGCATGGAGGAGGCTTTTGGAAGTGAAATCAGTTGT-CCAAGATCCAGAGG----TGAGGAGCTGGGACC
+i ponAbe2.chr6 C 0 I 1
+s rheMac2.chr4 108442272 184 + 167655696 TAAGTGAAAAAATCAGATGTTATTTTCATGAGCTCTGCAGGGCACT-TCTGCATT----TGTT---CTCATTGGA-C-TCTTC--CCAAGCCTGG-AGATGCACAG-GAAGGCA-GTTTCCACTGCAGATGAGCAGCATGGAGGAGGCTTTTGGAAGTGAAATGAGTTGT-CCAAGGTCCAGAGG----TGAGGAGCTGGGACC
+q rheMac2.chr4 9999999999999999999999999999999999999999999999-99999999----9999---999999999-9-99999--9999999999-9999999999-9999999-9999999999999999999999999999999999999999999999999999999-99999999999999----999999999999999
+i rheMac2.chr4 C 0 I 1
+s hg18.chr6 16034388 183 - 170899992 TAAGTGAAAAAATCAGATGTTATTTTCATGAGCTCTG-AGGGCACT-TCTGCATT----TGTT---CTCATTTGA-C-TCTTC--TGAAGCCTGG-AGATGCACAG-GAAGGCA-GTTTCCACTGCAGATGAGCAGCATGGAGGAGGCTTTTGGAAGTGAAATGAATTGT-CCAAGGTCCAGAGG----TGAGGAGCTGGGACC
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16556735 183 - 173908612 TAAGTGAAAAAATCAGATGTTATTTTCATGAGCTCTG-AGGGCACT-TCTGCATT----TGTT---CTCATTTGA-C-TCTTC--TGAAGCCTGG-AGATGCACAG-GAAGGCA-GTTTCCACTGCAGATGAGCAGCATGGAGGAGGCTTTTGGAAGTGAAATGAATTGT-CCAAGGTCCAGAGG----TGAGGAGCTGGGACC
+q panTro2.chr6 9999999999999999999999999999999999999-99999999-99999999----9999---999999999-9-99999--9999999999-9999999999-9999999-9999999999999999999999999999999999999999999999999999999-99999999999999----999999999999999
+i panTro2.chr6 C 0 I 1
+s calJac1.Contig1260 4435 163 - 523245 TAAGTGAAAAAGTCAAATGTTATTTTCCTGAGCTCTGCAGGGCACT-TCTGCATG----TGTT---CTCATTTGA-C-TCTTC--TCAAGCCTGG-AGATGCACAG-GAAGGCA-GTTTCTGCTGCAGAGGAGCAGCATGGAG---------------------AGTTGT-CCAAGGTCCAGAGG----TGAGGAGCTGGGACC
+i calJac1.Contig1260 C 0 I 1
+s canFam2.chr1 78210368 180 - 125616256 ------------ACAAGTTTTATTTACATGAGCTCTGCAGAGCTCT-TCCATGTATGTATGTT---CTTTCTTGAGTCTTTTC--ATAAGCCTGAGAAATGTGCAATGAAGCCACATCTCTGttacagatgaggagattttggc----ttctggatgttaaatgagttgt-ccaagggcaaaggccaggc-aggcactgggacc
+q canFam2.chr1 ------------9999999999999999999999999999999999-9999999999999999---99999999999999999--99999999999999999999999999999999999999999999999999999999999----9999999999999999999999-9999999999999999999-9999999999999
+i canFam2.chr1 I 12 I 1
+s felCat3.scaffold_217398 71079 170 - 219823 ------------GCAAGTTTTGTTTATGTAAGCtctacacagctct-tccacgt-----tggt---cttt-ttgcgtcttttc--acaagcccgagagatgttcagtgaaggcatatctctgtagcagatgaggacatcttggc----tt-tagatgttaaatcacttgtcccaaggtcaaaggc----c-aggaattgggacc
+q felCat3.scaffold_217398 ------------6636457667442312223235112524432456-2346354-----2218---3457-623333876856--16753485486656344464436364856666364665737688658664837722323----99-9674294659469369444286875856277434----6-6875735568557
+i felCat3.scaffold_217398 I 278 I 1
+s equCab1.chr31 13003485 144 + 24938454 ------------GCAAGTTTTATTTAATT------------------------------TGTt---ctcatttgattcttttc--acaagcccgagagacgcccagtgaaggc--atctcctttgcagctgaggacattttgac----ttttggatgttaaatgagttgt-ccaaggtcaAAGGC----C-AGG-ATTGGGACC
+q equCab1.chr31 ------------99999999999999999------------------------------9999---99999999999999999--9999999999999999999999999999--99999999999999999999999999999----9999999999999999999999-99999999999999----9-999-999999999
+i equCab1.chr31 I 12 I 1
+s bosTau3.chr9 13659717 146 - 95030419 ------------GCAGGTTTTAtttaccc----------aagcttt-tccatatt----tgtg---ctcatctga-catttgt--acaagccccagaggggcacagtgaaggtatccctctaccacagatgaggagaga--ggc----tt-cggacatgaaatgagttgt-cccaggtcagaagg-----------------cc
+q bosTau3.chr9 ------------99999999999999999----------9999999-99999999----9999---999999999-9999999--999999999999999999999999999999999999999999999999999999--999----99-9999999999999999999-99999999999999-----------------99
+i bosTau3.chr9 I 4 I 1
+s dasNov1.scaffold_15233 48458 155 + 62638 ---------AAATCAAGTTTTATTTACAGGAGCGCTGCAGAGCGCT-TTTCCATT----TGTT---CCCA---------------GCCAGCCTGTGAGATGCACGGGGAGGGCGAATTTCCTTTGCAGATGAGGAAATGGAGGC----TTATGGATC-----AGGGTTGC-CTAGGGTCAAAGGT----T-GGGGACCAGGC--
+q dasNov1.scaffold_15233 ---------9999999999999999999999999999999999999-99999999----9999---9999---------------99999999999999999999999999999999999999999999999999999999999----999999999-----99999999-99999999999999----9-99999999999--
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=38044.000000
+s mm9.chr10 3141622 22 + 129993255 GCCTTGA-C---AGG-----CTTT-GGGTCCT
+s rn4.chr1 229959583 22 - 267910886 GCCTTGA-C---AGG-----CTTT-GGCTCCT
+q rn4.chr1 9999999-9---999-----9999-9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 41601 23 + 79436 GCTGGGAGC---AGA-----CTTC-TAGCCTG
+q oryCun1.scaffold_197619 999999999---999-----9999-9999999
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16339792 22 - 174210431 GGCTTCA-C---AGG-----CTTC-TCTTCTG
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108442457 25 + 167655696 GGCTTCA-CAGAAGG-----CTTC-TGTTCTG
+q rheMac2.chr4 9999999-9999999-----9999-9999999
+i rheMac2.chr4 I 1 C 0
+s hg18.chr6 16034572 22 - 170899992 GGCCTCA-C---AGG-----CTTC-TGTTCTG
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16556919 22 - 173908612 GGCCTCA-C---AGG-----CTTC-TGTTCTG
+q panTro2.chr6 9999999-9---999-----9999-9999999
+i panTro2.chr6 I 1 C 0
+s calJac1.Contig1260 4599 22 - 523245 GGCTTCA-C---AGG-----CTTC-TGTTCTG
+i calJac1.Contig1260 I 1 C 0
+s canFam2.chr1 78210549 22 - 125616256 gactcca-c---aca-----cttc-tgttccc
+q canFam2.chr1 9999999-9---999-----9999-9999999
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 71250 20 - 219823 gactcca-c---agg-----cttc-tattc--
+q felCat3.scaffold_217398 7367494-8---696-----3595-87395--
+i felCat3.scaffold_217398 I 1 C 0
+s equCab1.chr31 13003630 21 + 24938454 GATGCCA-C---AGG-----CTTC-TGTCT-G
+q equCab1.chr31 9999999-9---999-----9999-99999-9
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13659864 23 - 95030419 gACCCCA-C---AGA-----CTTCTTGTTCTC
+q bosTau3.chr9 9999999-9---999-----999999999999
+i bosTau3.chr9 I 1 C 0
+s dasNov1.scaffold_15233 48613 21 + 62638 -----CT-C---AGGCATGACTTG-GGTCCT-
+q dasNov1.scaffold_15233 -----99-9---999999999999-999999-
+i dasNov1.scaffold_15233 C 0 I 2323
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-75524.000000
+s mm9.chr10 3141644 35 + 129993255 TTGGCAGTCCTCTGAGACTGAATGTCC----------------CATTCCTG---------------------------
+s rn4.chr1 229959605 35 - 267910886 CTGCCAGTCCTCTGGGACTGAATGTCC----------------GATTCCTT---------------------------
+q rn4.chr1 999999999999999999999999999----------------99999999---------------------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 41624 33 + 79436 CAATCAA--CATGGTGCCTTGTCTTTC----------------CTGTCTCA---------------------------
+q oryCun1.scaffold_197619 9999999--999999999999999999----------------99999999---------------------------
+i oryCun1.scaffold_197619 C 0 C 0
+s ponAbe2.chr6 16339814 19 - 174210431 TGGTCC----------------TGTCC----------------CGTCCCTG---------------------------
+i ponAbe2.chr6 C 0 I 413
+s rheMac2.chr4 108442482 19 + 167655696 TGGTCC----------------TGTCC----------------CGTCCCTG---------------------------
+q rheMac2.chr4 999999----------------99999----------------99999999---------------------------
+i rheMac2.chr4 C 0 I 385
+s hg18.chr6 16034594 19 - 170899992 TGGTCC----------------TGTCC----------------CGTCCCTG---------------------------
+i hg18.chr6 C 0 I 403
+s panTro2.chr6 16556941 19 - 173908612 TGGTCC----------------TGTCC----------------CGTCCCTG---------------------------
+q panTro2.chr6 999999----------------99999----------------99999999---------------------------
+i panTro2.chr6 C 0 I 375
+s calJac1.Contig1260 4621 10 - 523245 TGGTCC------TGTG--------------------------------------------------------------
+i calJac1.Contig1260 C 0 I 430
+s canFam2.chr1 78210571 62 - 125616256 ttgttc----------------tgtccagtccagacctggttcctcctctgGCCAAGGTGGGTGTTTTTTGTCTTCTC
+q canFam2.chr1 999999----------------99999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 71270 55 - 219823 -tgttg----------------tgccc--tctatacCTGTCTTCTCCTCTGGCCAAGGTGGGTA----CTGTTTTCTC
+q felCat3.scaffold_217398 -56556----------------65666--84797589848899688596741276989889896----4557999899
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13003651 55 + 24938454 TTGTTC----------------CGTCCAGTT----CCTGGT---TCCTCTGGCCAAGGTGGATGCTTCTAGTTCTCTC
+q equCab1.chr31 999999----------------999999999----999999---9999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13659887 56 - 95030419 TTGTTC----------------TGTGCAGCC----CCTATG-CCTCCTCTGGTCAAGATGG-TGCTTTCCATTCTCTC
+q bosTau3.chr9 999999----------------999999999----999999-9999999999999999999-9999999999999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=57670.000000
+s mm9.chr10 3141679 255 + 129993255 CCAGTCTGCAC-TGTGGGAAGGAAGGTGTGACTTCTGGGAGCTGCCTGAGGCCTTTGCTCTG-GCTGCAGCTCCCTTAGAAT--------------------------------------------------------------------------CCTTGATATTAGGAACTCCACTTTCTAGCAGTTGGAACA-TTAACTACCAG-TCTCTA-AGCTAGTGAAGGT--TTGATTTTGCTCTGTTTTGTCAGAAGGTAACTTAGTGATGGAATAAACCATT----CTCCTTGGCTTTCTTATCTGTGTGTGCttattttattttatttt-------------------attttatttt
+s rn4.chr1 229959640 187 - 267910886 CTAGCCAGCAC-TGTGGGAAGAAAGGTGCGACTTTAGGGAGCT--------------------------------TTAGAAT--------------------------------------------------------------------------TCTTGACATTAGGAACTTCACATTCTAGGAGTTGGGAC-----------------------TTAGTGAAGTC--TTGATTTTGCTCTGTTGT----------------GAGATGGAATAAACCATTTC--TCCTCTGGCTTTCTTAACTGTGCGTGTTACTTTTATTTTATTTT-------------------GTCTTAT---
+q rn4.chr1 99999999999-9999999999999999999999999999999--------------------------------9999999--------------------------------------------------------------------------99999999999999999999999999999999999999-----------------------99999999999--999999999999999999----------------99999999999999999999--99999999999999999999999999999999999999999999-------------------9999999---
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 41657 275 + 79436 TCAGCCGA----TGTGGGGAGGG----GCAGATTCCAGGAACT----------TTTGCTTTT-CTGTTCATCTCTTTAGGATTCACAGTCCC--GGGACA---------------CATTCTTT-----TTCA---GTACTCGAGGTAATGCAAGGGCCTGGATGGTTTGACCTTGACCTTCTAGCAGTTGGGATACTTTGCTACCAGTTTTTTA-TTTTCTTAGAGTTTGTTGCTTGTGTTGTGTTGCTTCAGAATGCGGCTCTGCAATGGAATGAGTCTTTGC--ATTTTCAGATTGCTTAAT--------CTAATTTTTGTTTATGTT-----------------------------
+q oryCun1.scaffold_197619 99999999----99999999999----9999999999999999----------999999999-99999999999999999999999999999--999999---------------99999999-----9999---9999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999--------999999999999999999-----------------------------
+i oryCun1.scaffold_197619 C 0 I 3100
+s canFam2.chr1 78210633 316 - 125616256 CTAATTGACACATGTGGGAGGGG----GCAGCTGCAAAGAA------CTGACTTTTGTGTTTCCTGATTATCCATTTAGTATTTATACTCATGGGGCATAGGCCTTTCCTTTCTTTTTTCTTTCTTTTTTCA---ATTACACAGCCTCAGGAGGACCCTACATATTTTGAACCTGACC-TTTAGCATTCGAGACA-CTTACTGCTAGTTACTTA-TTTTATTGTGGTTTGTTCATTGTGTTGCTTTGTTTCAGAATACGCCTCAGGAATGGAATACATCATTTCTTTTTTTTGACACTCCTAATC-----------------TTTATTTTGAGTGTCATGTTGTAGTTT----------
+q canFam2.chr1 99999999999999999999999----99999999999999------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999-9999999999999999-999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------------999999999999999999999999999----------
+i canFam2.chr1 C 0 I 81
+s felCat3.scaffold_217398 71325 289 - 219823 C---TCGACAAGTGTGGGAAGGG----GCAGCTCGAGAGAGCC---TCTAACTTTTGTGTTTCCTGATTCTCCCCTTAGGATTTATACTCCTAGGACACAGGCC-----------TTTTCTTTCTTTTTGAA---ATTACACAGCTTAAGCAGGACACTGCATATTTTGAACCTGACCTTTTAGTATTTGAGACA-TTTA----TGGCTATTTA-TTTTATTGTAGTTTGTTGATTGTGTTGTATTGTTTCAGAATGCAACTCAGTAATAGAATACATCATTTC-TTCTTTTGACACTTCTAATC--------------------------------------TAATTTATTTTGAGT-
+q felCat3.scaffold_217398 9---8566899899877797766----8998975778999795---7577657777977656989975989999889899989899989969899999989899-----------99997778998998999---989999999899998999999999998999999999999989999999999999999999-9999----9998999899-989999999999999999999999989999999999999999999999999999999999999999999-99999999999999999999--------------------------------------999999999999999-
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13003706 300 + 24938454 TGAATTGACGAGTGTGGGAAGGG----GCGGCTTCAAAGACCT---TTGGACTTTGGTGCTT-CTGATTGTGCCCTCAGCATTTACACTCGTGGGGTAC----------------CTTCCTTTCCTTTTTTC---ATTACACAGTTTAAGCGGGACCCTACATA-TTTGAACCTGACCTGTTAGCCTTTGAGAC---TTACTATCAGTTATCTA-TTTTATTGTAGTTTGTTAATTGTGTTGCGTTATTTCAGAATGCAACTCAGGAATGGAATGAATCATTTCTCTTTGTTGACTCTCTTAATCTGAT------------TTTTATTTTGAGTATCATATTGC---------------
+q equCab1.chr31 99999999999999999999999----9999999999999999---9999999999999999-999999999999999999999999999999999999----------------99999999999999999---99999999999999999999999999999-99999999999999999999999999999---99999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------99999999999999999999999---------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13659943 313 - 95030419 TCCATCAACAAGTGATGAGAGGG----GCAACTTCAAAGAACT---TTGGACTTTTGTATTTCCTGAGGATCCCTTCAGGGTTTCCGCTCTTGGGATGCATTCCTTTTCT-----TTCTCTTTCCTTCTTTCTTTATTTCACACCTTGAGCAGAACCCTACATATTTGGGACCTGACCTTTAAGCATTTGAGACA-CTTCTTGCCAGTTACTTATTTTTATTGTAGTTTGCTGACTGTGTTGTAATGTTTCAGAATGCAGCTCTGTAATGGAATGAATCATTTC-ACTTTTTGATTCTCTTAATCTGAT-------TTTTATTTTATTTTGAGT-------------------------
+q bosTau3.chr9 99999999999999999999999----9999999999999999---9999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999-------999999999999999999-------------------------
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108442501 385 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e calJac1.Contig1260 4631 430 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16034613 403 - 170899992 I
+e panTro2.chr6 16556960 375 - 173908612 I
+e ponAbe2.chr6 16339833 413 - 174210431 I
+
+a score=-2107.000000
+s mm9.chr10 3141934 428 + 129993255 attttatttta---------ttttattttTTAGTGGCAGGATCCAGTCCTGAGCCATGGGCATGC-TAGATACTGAGCTACA-TCCCCAAAACAATTTTAT-TTTTATGTTGAATGCCACACT----------------------------------------------------------------------------------------------------------------------------------------------------TCTTGTCTGAGCGATGCAGTCTGCACACGTGGCTGGTAG---TGCACATGAACGTACTTA---------------------------------------------------TGTCTTTAACTTTCTGAAACAATACTTGCAGCTGTGACGGGCCTGTTTG [...]
+s rn4.chr1 229959827 421 - 267910886 -------------------------TTTTTTAATGGTGGGAATCAATCCTG-GCCACAGGCATGCTTAGATACTGAGCTACATTCCCCAAACTAATTTTAT-TTTTATGTTGAAGGCCACCCT----------------------------------------------------------------------------------------------------------------------------------------------------CCTTGTCTGAGTGATATGGTCAGCACATGCGGCTGGTAGCATCGCACACATCTGTACTTA---------------------------------------------------GGTGTTTAACTTTCTTAAACAATGCTCGAGGCTGTTACGGGCTTACTCC [...]
+q rn4.chr1 -------------------------99999999999999999999999999-9999999999999999999999999999999999999999999999999-999999999999999999999----------------------------------------------------------------------------------------------------------------------------------------------------999999999999999999999999999999999999999999999999999999999999---------------------------------------------------9999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+s felCat3.scaffold_217398 71614 324 - 219823 -----GTCCTA---------TTGCATTTTTTTGT--------------CTT----------------------TGTGGTATA--------ATTAACATTTC-TACTTGGTAGAATCATACACA----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GACATGAAT-----CAGacatacacacaca-----------------------------------------------------cacgcacactc--------acac-------------------aTTTC [...]
+q felCat3.scaffold_217398 -----999999---------99999999999999--------------999----------------------999999999--------99999999999-999999999999999999999----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------999999999-----9999999999999999-----------------------------------------------------99999999999--------9999-------------------99999 [...]
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13004006 596 + 24938454 -----------------------AATTTTTTTGT--------------CCA----------------------TGTGATACA--------A-TAACATTTCTTATTTGGTAGAATCATACACACACACACACAAATACTTTAACTTTCTTAAGCAAAACCTGCAATTTTTGTGGCCCTGTTTTCTGCCTGTCTTTGACTCTTCACAGCTTCTTCAtttttttcttttttgaggacgattagccctgagctaacatctactgccaatcctcctcttttttga-tgaggaagac--------tggccctgag-----ctaacatccatgcccatcttcctccactttatatgtgggatgcctgccacagcatggcttgccaagcggtgtgtaggtcc--------gcacctgggatctgaaccagtgaacccc [...]
+q equCab1.chr31 -----------------------99999999999--------------999----------------------999999999--------9-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999--------9999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999--------9999999999999999999999999999 [...]
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13660256 344 - 95030419 -----GTCATATGATAGTTTTTTTTTTTTTTTTT--------------TTG----------------------TCTGCTACA--------ATTAACATTTC-TATTTGATGGAACCACATCCA--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCATCCATCCATA-----------------------------------------------------CATTTAACTTTCTTCAACAGCACCTGTGATTTTTATGGCTTCATTTT [...]
+q bosTau3.chr9 -----99999999999999999999999999999--------------999----------------------999999999--------99999999999-999999999999999999999--------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------99999999999999-----------------------------------------------------99999999999999999999999999999999999999999999999 [...]
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108442501 385 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e calJac1.Contig1260 4631 430 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16034613 403 - 170899992 I
+e panTro2.chr6 16556960 375 - 173908612 I
+e ponAbe2.chr6 16339833 413 - 174210431 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=115731.000000
+s mm9.chr10 3142362 111 + 129993255 tagggttctggttagaatgaaaag-ata----cggtacagggagaacacttggcacagtatgcagtgtatgaatatccacacacttattacttattattAATTCAT-AATGCTTTAC-
+s rn4.chr1 229960248 104 - 267910886 tagggtt----ttagaatgaaaag-ata----cggtccagggagaacacttagcatggCATGAGGTGTATAAATATCCACACACTTACTAC---TTATTAATTCAT-AACGCTTCAC-
+q rn4.chr1 9999999----9999999999999-999----99999999999999999999999999999999999999999999999999999999999---999999999999-9999999999-
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 5061 104 - 523245 TAGGCATATGTATAGAG-TAAAAG-AGG----AAATAGAGGAAAAGCCCTTTGCATAATGTATGGCATATG--TGTTTACCCACTTACTA----TTCATGATCAATAAATAGCTCA--
+i calJac1.Contig1260 I 430 C 0
+s panTro2.chr6 16557335 74 - 173908612 -----------------------------------TATAGGGAAAGCCCTTTGCATAACGTATGGCGTATG--TGTTTACCCACTTATTA----TTCATGATCAAT-AATAACTCA--
+q panTro2.chr6 -----------------------------------990999999999999999999999999999999999--99999999999999999----999999999999-999999999--
+i panTro2.chr6 I 375 C 0
+s hg18.chr6 16035016 92 - 170899992 ------------TGGAATTAAAAG-AGG----AAATACAGGGAAAGCCCCTTGCATAACGTATGGCGTATG--TGTTTACCCACTTATTA----TTCATGATCAAT-AATAACTCA--
+i hg18.chr6 I 403 C 0
+s rheMac2.chr4 108442886 96 + 167655696 ------------TGGAATTAAAAG-AGGAAATAAATACAGGGAATGCCTCTTGCATAACGAATGGCATATG--TGTTCACCCACTTATTA----TTGATAATCAAT-AATAACTCA--
+q rheMac2.chr4 ------------999999999999-9999999999999999999999999999999999999999999999--99999999999999999----999999999999-999999999--
+i rheMac2.chr4 I 385 C 0
+s ponAbe2.chr6 16340246 98 - 174210431 ------TCTGTGTGGAATTAAAAG-CGG----AAATACAGGGAAAGCCCCTTGCATAACATATGGCGTATG--TGTTCACCCACTTATTA----TTCATGATCAGT-AATAACTCA--
+i ponAbe2.chr6 I 413 C 0
+s felCat3.scaffold_217398 71938 97 - 219823 caggattttagttataaataaaag-agg----cagtataGCG--------------AATGCACGGCATATATATGTTCATATGCTTATTATTAATGATTAATCCAT-AATAACTCC-A
+q felCat3.scaffold_217398 999999999999999999999999-999----9999999999--------------99999999999999999999999999999999999999999799999989-999999999-7
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13004602 108 + 24938454 cagggttttagttagaattaaaag-agg----tgatatagggaaagcactttgcttaatgcgcggcatataaatgttcaCACACTTATTAT---TGTTTAATTCGT-AATAAGGCC-A
+q equCab1.chr31 999999999999999999999999-999----99999999999999999999999999999999999999999999999999999999999---999999999999-999999999-9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13660600 102 - 95030419 cagtgtttttgttagagttaaaaacatg----taatgtaaggaaagcattttgcataatctatggcgtatatgtgttcacaaacttgttac---tgattaATTCAT-AAT--------
+q bosTau3.chr9 9999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999---999999999999-999--------
+i bosTau3.chr9 C 0 I 207
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=323730.000000
+s mm9.chr10 3142473 230 + 129993255 AGTGAATGAATGGCATATAATGGGTGATTTTTATTTAGCTATTCAATACCCTTGTGGCTGACTGTCACCTCTCCCATGTTTCATAATTACTTGTGACCTGACAGCCTCCttttttttt-----------ttt----ttttttaattGGTAGAAAGGAGGCAAGTTAAGTGGACTTGTGAGCTGTTTTCTGCCCTC----TG---TGTTCCTCGTCACTTC-CCTTTCCTTTCTTGAGAGGGTTCCT-AATGTCC
+s rn4.chr1 229960352 235 - 267910886 GGCGAATGAATGGCGTATAATGGATGATTTTTATTTAGATATTCAATCCCCCTGTGGCTGACTGTCACCTCCCCCATGTCTCATAATCATTTGTAACAGGACAGCCTGCTTTTTATTT-----------GTTTATCTATTTTTATTGGTGAACAGGAGGCAAGTGAAGTGGACTTGTCAGCTGTTTTTTACCCTC----TG--CTGTTCCCGGTCCCTTC-CCTTTCCTTTCTTGAGAGGATTCCT-TACATCC
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------999999999999999999999999999999999999999999999999999999999999999999----99--99999999999999999-9999999999999999999999999-9999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 5165 200 - 523245 GGTTAACTGCTGGTGTA-ATTGGGGAATTTTTATATAAATATTTAGTATTGTTGGGGCTGATTGTCACCCTTCATGTGCTTTCTAATAATTTATGACAA-----------TTCCATTC-----------ACC------TTTTTGGTGTTATACAGGTGGTAAGTTAGATCTAGT------CCGTCTTCCACCTTCTTGCTG---TTTCCTTGCATGCTTT-CT--GCCTCTTCTAAGGGGG-------------
+i calJac1.Contig1260 C 0 I 5
+s panTro2.chr6 16557409 205 - 173908612 AGTTAACTGGTGGTGTA-ATTGGGATATTTTTATTTAAATGTTTAATATTGTTGTGGCTGATTGTCACCCTTCACGTGCTTATTAATAATTTATGACAA-----------TTCCATTC-----------ACC------CTTTTGTTGTTATACAGGAGGTAAGTTAAATCAAGT------CCGTCTTCGGTCTTCTCATTG---TTTCCTTGGACGCTTT-CC--CCCTGTTCTTAGGGGAATCTT--------
+q panTro2.chr6 99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------99999999-----------999------999999999999999999999999999999999999------999999999999999999999---9999999999999999-99--999999999999999999999--------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16035108 205 - 170899992 AGTTAACTGGTGGTGTA-ATTGGGATATTTTTATTTAAATGTTTAATATTGTTGTGGCTGATTGTCACCCTTCATGTGCTTATTAATAATTTATGACAA-----------TTCCATTC-----------ACC------CTTTTGTTGTTATACAGGAGGTAAGTTAAATCAAGT------CCGTCTTCGGTCTTCTCATTG---TTTCCTTGGACGCTTT-CC--CCCTGTTCTTAGGGGAATCTT--------
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108442982 199 + 167655696 AGTTAACTGGTAGTGTA-ATTGGGGTATTTTTATTTAAATATTTAATATTGTTGTGGCTTAGAGTCACCCTTCACGTGCTTACTAATAATTTATGACAA-----------TTCTATTC-----------ACC------CTTTTGTTGTTATACA-GAGGTAAGTTAAATTAAGT------CCGTCTTCCGTTTTCTCATTG---TTTCCTTGGACGCTTT-CG--CCCTGTTCTTAGGAGG-------------
+q rheMac2.chr4 99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------99999999-----------999------9999999999999999-9999999999999999999------999999999999999999999---9999999999999999-99--9999999999999999-------------
+i rheMac2.chr4 C 0 I 5
+s ponAbe2.chr6 16340344 194 - 174210431 AGTTAACTGGTGGTGTA-ATTGGGGTATTTTTATTTAAATGTTTAATATTGTTGTGGCTGATGGTCACCCTTCATGTGCTTATTAATAATTTATGACAA-----------TTCCATTC-----------ACC------CTTTTGTCGTTATACAGGAGGTAAGTTAAATCAAGT------CCATCTTCCGTCTTCTCATTG---TTTCCTTGGACGCTTT-CG--CCCTGTTCTT-------------------
+i ponAbe2.chr6 C 0 I 11
+s felCat3.scaffold_217398 72035 226 - 219823 AGCTAATATATAGTATA-ATTGGATTATTTTCGTTTGAATATATAATACTGTTGTGGCTGATAGTCACTTTTCACATGCTTACTAATAACTCACAACAA-----------TTCCATAGTACATAGGTGGTCC------CTTTTGTTGGTACACAGGTGGTCTGTTAAATTAACT------ACAATTTCTGTCTTCTCCTCA-TGTTTCCTTGGACAATCT-CC--TTCACCTCTTTTGAGGACCTTGTAGGTCT
+q felCat3.scaffold_217398 99999999999999999-989997699999999999989999998999999999999999959999999999959999999999999999999999999-----------9999999999999999999999------999999999999999999999999999999999999------999999999999999999999-999999999999999999-99--99999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13004710 189 + 24938454 AG--------TAATATA-ATTGGATTATTTTTGCTTAATTATTTAA------------TGGTAGTCACTTTTCAC--GTTTACCAATAATTTATGACAA-----------TTCCA--------------TCC------TCCTCATTGGTATATAGGCAGCGAGTTAAATCAACT------TCATTTTCTGTCTTCTCATCA---TTTCCTTGGATACTTTCCC--CTCACTTCCTCTGAGGACCTTGTAGATCT
+q equCab1.chr31 99--------9999999-9999999999999999999999999999------------99999999999999999--9999999999999999999999-----------99999--------------999------999999999999999999999999999999999999------999999999999999999999---9999999999999999999--99999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13660909 210 - 95030419 agTTAATGTGTACTATA-ATTGGGTTATTATTGCTTAAATATTTTATTCTGTTGTGACTGATCGTCACCTTTCAT--GCTTACTAATAATTTATGACAG-----------TTCCATCC-----------TCC------TCTGTGTTGATAGACAGGTGGTGAGTT-----AACT------TCTTTCTCTGCCTTCTCCTTGTTATTTCCTTGGGCACTTTTCT--CTCACTTCCTTTGGGGACCTTGTGTGTCC
+q bosTau3.chr9 99999999999999999-999999999999999999999999999999999999999999999999999999999--9999999999999999999999-----------99999999-----------999------999999999999999999999999999-----9999------9999999999999999999999999999999999999999999--99999999999999999999999999999
+i bosTau3.chr9 I 207 I 656
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=5033.000000
+s mm9.chr10 3142703 64 + 129993255 ACCAGTCAGAA------TGGGATAGAAAATGGTTGGGTGGCTTCTTGTTTGAAAATGGTTCAATGGTAGC
+s rn4.chr1 229960587 64 - 267910886 TCTGGGAAGAA------TGGGATACGAACAGGTGGGGTGGCTTCTTGTTTGGAAACCGTTCAGTGGTAGC
+q rn4.chr1 99999999999------99999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s felCat3.scaffold_217398 72261 58 - 219823 ------TAGAG------AGTATCATAGAATGGTTTTGTAGTCGCTTTCTTGGGAAGAGCTTAGGAGCAAC
+q felCat3.scaffold_217398 ------99999------99999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 169
+s equCab1.chr31 13004899 64 + 24938454 ------AAGAGGAAGGTGGTTTCCCAGAAAGACTAAGTACTAGCTCTCTTGGAAAGGGCTTACGAAGAAC
+q equCab1.chr31 ------9999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108443181 5 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e calJac1.Contig1260 5365 5 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16035313 0 - 170899992 C
+e panTro2.chr6 16557614 0 - 173908612 C
+e ponAbe2.chr6 16340538 11 - 174210431 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=3684.000000
+s mm9.chr10 3142767 51 + 129993255 TCCTGCGGGGGT------------GTTGTGGTAGAAATATATGCTTCAAATTAATTTAACAAA
+s rn4.chr1 229960651 61 - 267910886 TCTTACCGGGGTGACTG--TCTACGGTGTGGTAAGAAGATGTGCTTCAAATTAACTTAACAAA
+q rn4.chr1 99999999999999999--99999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13004963 60 + 24938454 ACTTAGGCAGATGACAAATTCCACCCTGTGGTAAAAAGAGA-GTttc--attcattcaacaaa
+q equCab1.chr31 99999999999999999999999999999999999999999-99999--99999999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e rheMac2.chr4 108443181 5 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e felCat3.scaffold_217398 72319 169 - 219823 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e calJac1.Contig1260 5365 5 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16035313 0 - 170899992 C
+e panTro2.chr6 16557614 0 - 173908612 C
+e ponAbe2.chr6 16340538 11 - 174210431 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=15146.000000
+s mm9.chr10 3142818 276 + 129993255 TGAGACTCCCCCACCCCCATCtgtctgcacaggcttgattttaggactcgtgcatattaacgtgtctggatgctcattctctcgggtaaaaacgcccagtgtttgcatggcgcctacatgggccctcctcttatgttttcaatggtcattagattatttataatatacaatgtaatggatatgtgagcca--ttgaaactatattgcttaatgatgatgatgatgataataataacaaaaatgtatacatatttgacacagataaaaatcttatttcc
+s rn4.chr1 229960712 262 - 267910886 TGGGACCCCAcc-------tctgtctgcacgggtttggttctaggatgcctggatattaacaggtctggaggctcattctcatgtaaaaacatg----gtgtttgcatggcacctacatgggtcctccccttgtgttttcaacggcccttagactatttataatatacaatgtaatggatatgtgaatcattttgaaactatattgCatgatgatgatgatgatgatgatgatgatgatgatg-----aCATTTGACACAGATAAAGGTTTTCCTCTC
+q rn4.chr1 999999999999-------999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----999999999999999999999999999999
+i rn4.chr1 C 0 I 17
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13005023 0 + 24938454 C
+e rheMac2.chr4 108443181 5 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e felCat3.scaffold_217398 72319 169 - 219823 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e calJac1.Contig1260 5365 5 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16035313 0 - 170899992 C
+e panTro2.chr6 16557614 0 - 173908612 C
+e ponAbe2.chr6 16340538 11 - 174210431 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=0.000000
+s mm9.chr10 3143094 191 + 129993255 TgccaggcagtggtggtatacacctttaatcccagcacttgggaggcagaggcaggcggatttctgagttccaggtcagcctggtctacagagtgagttccaggacagccagggctacacagagaaatactgtctcaaaaaaccaaaaaccaaaaaccaaaaaaaaaaaattttttttttCTTCCCACAAT
+e rn4.chr1 229960974 17 - 267910886 I
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13005023 0 + 24938454 C
+e rheMac2.chr4 108443181 5 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e felCat3.scaffold_217398 72319 169 - 219823 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e calJac1.Contig1260 5365 5 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16035313 0 - 170899992 C
+e panTro2.chr6 16557614 0 - 173908612 C
+e ponAbe2.chr6 16340538 11 - 174210431 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=1861.000000
+s mm9.chr10 3143285 66 + 129993255 GTTGCTTCAATTTGCTGAAGCCAAAGGGGAGGGGAGCCCATGGCTATAGAGGCTGCTGCTGGTGGG
+s rn4.chr1 229960991 46 - 267910886 GTCGCTTCAGTTTGCTGA-----------AGGGGAGCCCATGGCTATGGAGCT---------ATGG
+q rn4.chr1 999999999999999999-----------999999999999999999999999---------9999
+i rn4.chr1 I 17 C 0
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e equCab1.chr31 13005023 0 + 24938454 C
+e rheMac2.chr4 108443181 5 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e felCat3.scaffold_217398 72319 169 - 219823 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e calJac1.Contig1260 5365 5 - 523245 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16035313 0 - 170899992 C
+e panTro2.chr6 16557614 0 - 173908612 C
+e ponAbe2.chr6 16340538 11 - 174210431 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=55387.000000
+s mm9.chr10 3143351 76 + 129993255 TGATTCCTGAGCAAGTACCTAGTTCCAGGTGGTGCTCTGGG----------CCA----------------------------GGCTATCGGCTGCTGTCAGCTGGATAAATGTG
+s rn4.chr1 229961037 76 - 267910886 TGATTCATGAGGAAGTATGGAGTTCCAGGTGGTGCTCTGGG----------TCA----------------------------GGCTTCCGGCTGCTCTTAGCTGGATGAATGTG
+q rn4.chr1 99999999999999999999999999999999999999999----------999----------------------------99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13005023 100 + 24938454 taattattgacgatgtcctgagttccaggtgttgttct-agtgctggaaatccagctgtgttctacgtgcaggggtccagctgggtccttgct----ttaatatg---------
+q equCab1.chr31 99999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999----99999999---------
+i equCab1.chr31 C 0 I 6
+s hg18.chr6 16035313 64 - 170899992 -----------------CTCGGTTTTAGGTATTGTTCTAAGTGCTGGGAATCCA----------------------------TAGTCCCGGCT----TTAGTGTGGTAGATGT-
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16557614 64 - 173908612 -----------------CTCGGTTTTAGGTATTGTTCTAAGTGCTGGGAATCCA----------------------------TAGTCCCGGCT----TTAGTGTGGTAGATGT-
+q panTro2.chr6 -----------------9999999999999999999999999999999999999----------------------------99999999999----9999999999999999-
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16340549 64 - 174210431 -----------------CTCAGTTTTAGGTATTGTTCTAAGTGCTGGGAATCCA----------------------------TAGTCCCTGCT----TTAGTGTGGTAGATGT-
+i ponAbe2.chr6 I 11 C 0
+s rheMac2.chr4 108443186 64 + 167655696 -----------------CTCGGTTTTAGGTATTGTTCTAAGTGCTGGGAATCCA----------------------------TAGTCCCTGCT----TTAGTGTGGTGGATGT-
+q rheMac2.chr4 -----------------9999999999999999999999999999999999999----------------------------99999999999----9999999999999999-
+i rheMac2.chr4 I 5 C 0
+s calJac1.Contig1260 5370 66 - 523245 -----------------ctcggttctaggtattgttctaagtgctgggaatccag--------------------------gtagtccctgct----ttaatgtggtagatgt-
+i calJac1.Contig1260 I 5 C 0
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e felCat3.scaffold_217398 72319 169 - 219823 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=24481.000000
+s mm9.chr10 3143427 18 + 129993255 ATGTGACAG----------------ACAGCCACC
+s rn4.chr1 229961113 18 - 267910886 ACGTGAGAG----------------ACAAGCACC
+q rn4.chr1 999999999----------------999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 5436 16 - 523245 --gtgggtg----------------acaaatgcc
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108443250 16 + 167655696 --GTGGGTG----------------ACAAACGCC
+q rheMac2.chr4 --9999999----------------999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16340613 16 - 174210431 --GTGGGTG----------------ACAAACGCC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16557678 16 - 173908612 --GTGGGTG----------------ACAAACGCC
+q panTro2.chr6 --9999999----------------999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16035377 16 - 170899992 --GTGGGTG----------------ACAAACGCC
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13005129 34 + 24938454 gtggggatgacaaacaactgtagcaacaaccacc
+q equCab1.chr31 9999999999999999999999999999999999
+i equCab1.chr31 I 6 I 6
+s felCat3.scaffold_217398 72488 18 - 219823 atggggctg----------------acagtgacc
+q felCat3.scaffold_217398 999999999----------------999999999
+i felCat3.scaffold_217398 I 169 I 6
+e bosTau3.chr9 13661119 656 - 95030419 I
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=51976.000000
+s mm9.chr10 3143445 31 + 129993255 ACCAC----------ACAGGTGAAGGAGAAGATGTCTATGT----
+s rn4.chr1 229961131 31 - 267910886 ACTAC----------ACAGGTGAAGGAGAAGACATCCATGC----
+q rn4.chr1 99999----------99999999999999999999999999----
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 5452 41 - 523245 accacaaaccacaaaacagatgaataagaaaatttctgctg----
+i calJac1.Contig1260 C 0 I 1
+s rheMac2.chr4 108443266 41 + 167655696 ACCACCAACCACAAAACAGATGAATAAGAAAATTTCTACTG----
+q rheMac2.chr4 99999999999999999999999999999999999999999----
+i rheMac2.chr4 C 0 I 1
+s ponAbe2.chr6 16340629 41 - 174210431 ACCACCAACCACAaaacagatgaataagaaaatttctaatg----
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16557694 40 - 173908612 ACCACCAACCACAAAACAGATG-ATAAGAAAATTTCTACtg----
+q panTro2.chr6 9999999999999999999999-999999999999999999----
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16035393 40 - 170899992 ACCACCAACCACAAAACAGATG-ATAAGAAAATTTCTACtg----
+i hg18.chr6 C 0 I 1
+s felCat3.scaffold_217398 72512 31 - 219823 ----------acaaaatagacgaacgagaaaa----tactactga
+q felCat3.scaffold_217398 ----------9999999999999999999999----999999999
+i felCat3.scaffold_217398 I 6 C 0
+s equCab1.chr31 13005169 35 + 24938454 ----------gcaaaacagatgaacaggaaaatgtctgctattga
+q equCab1.chr31 ----------99999999999999999999999999999999999
+i equCab1.chr31 I 6 C 0
+s bosTau3.chr9 13661775 35 - 95030419 ----------acaaagcagatgaacaagaaaatatccagtcgtga
+q bosTau3.chr9 ----------99999999999999999999999999999999999
+i bosTau3.chr9 I 656 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 332643 3177 - 498454 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=366602.000000
+s mm9.chr10 3143476 155 + 129993255 TAAGTGTGAAGTGAAA-------ACATCAGGTATGGAGGAGAGATGTGCAACTGCTCTCGAGAGGCTCCTTTGGATGCTGTGCTCATGGGAGCCTTTCTGAAGAGATGCCACCCAAGTGTGAATGACAGGAAAGAACTGGCTGTGGACAGAATAGGGAG------------AGG
+s rn4.chr1 229961162 145 - 267910886 TAAGTGTGGAGCAGAG-------CAG--AGGTGTGGAGGAGAC-CGGACAGATG-------AGGGCTCCCTTGGATGCTGTGCTCACAGAAGCCTTTCGGAAAAAGTGTCACACAGGCGTCAATGAGAGGAAGGAACTGGCTGTGGACAGAATAGGGAG------------AGG
+q rn4.chr1 9999999999999999-------999--999999999999999-9999999999-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16035434 149 - 170899992 taagcataaatcagaaaataaagcag--agaggtgaaggagag-ggactgggtg------ggggactcctttggatgacgtcatcaga-aagcctttc---agaggtgacatttaggcatgaatggtaggaaggaaccagccatcagaaaattagggag------------aag
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16557735 150 - 173908612 taagcataaatcagaaaataaagcag--agaggtgaaggagag-ggactgggtg------ggggactcctttggatgacgtcatcagagaagcctttc---agaggtgacatttaggcatgaatggtaggaaggaaccagccatcagaaaattagggag------------aag
+q panTro2.chr6 99999999999999999999999999--999999999999999-9999999999------99999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999------------999
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16340671 150 - 174210431 taagcataaatcagaaaataaagcag--agaggtgaaggagag-ggactgggtg------ggggactcctttggatgaagtcatcagagaagcctttc---agaggtgacatttaggcatgaatggtaggaaggaaccagccatcagaaaattagggag------------aag
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108443308 150 + 167655696 TAAGCATGAATCAGAAAATAAAGCAG--AGAGGTGAGGGAGAG-GGACTGGGTG------GGGGACTCCTTTGGATGAAGTCATCAGGGAAGCCTTTC---AGAGGTGACATGTAGGCATGAAAGGTAGGAAGGAACCGGCGATCAGAAAATTAGGGAG------------AAG
+q rheMac2.chr4 99999999999999999999999999--999999999999999-9999999999------99999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999------------999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 5494 150 - 523245 taagtagaaatcagaaaataaagcag--agaagcaaaggagag-ggactgggtt------ggggactcctttggatgacgtcatcagggaagcctttc---agaggtgacatttaggcatcaatggtaggaaggaaccagccatcagaatattagggag------------aag
+i calJac1.Contig1260 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 335820 146 - 498454 TAAGTGTAAAGAAGAAAACAAA-TGA--AGATGTGAAGGACA--GGACTGGGTG------GAGAGCTCCTTTGGGTGGAGTCATCAGGGAAGACTTTC---TGAGAAGATATTTGGGTGTGAATG--AAGAAGGAACCAGCTCTCAGAAAATTTGGGAG------------AAG
+q tupBel1.scaffold_114895.1-498454 2558842435797699997799-999--98756699998568--9988999999------99999899999999999999999999999999999999---999999999999999999999999--99999999999999999999999999999999------------999
+i tupBel1.scaffold_114895.1-498454 I 3177 C 0
+s felCat3.scaffold_217398 72543 148 - 219823 taagtgcaaagaagaaagtaaagc-------tatgaagggaag-tgattgggtg------ggggacttctttcaatggggtcatcagggcagcctgtctgagaagatgacgtttaggcatgaatgatgagacggaaccaacagttggaaaattagaggg------------ggg
+q felCat3.scaffold_217398 999999999999999999999999-------999999999999-9999999999------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------999
+i felCat3.scaffold_217398 C 0 I 7
+s equCab1.chr31 13005204 165 + 24938454 taagtgccaagaagaaaggaaagcag--agatgtgaaggagag-tgactgagtg------ggggacttctttggttggtgtcatcagggaagcctctctgagaagatgacatttagacatgaatgacaagaaggaaccagccgttggaaaattaggtggaagagtattgtaggc
+q equCab1.chr31 99999999999999999999999999--999999999999999-9999999999------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 7
+s bosTau3.chr9 13661810 143 - 95030419 tcagcgctaagaagagagtgaagcag--agaggtgaaggagca-tgactggttg------gtaggcttctttggatgatgtc----------tccctctgagaacacgatacttgggtatgaaaggcaagaaggaaccagtcactggaaaattaggggg------------agg
+q bosTau3.chr9 99999999999999999999999999--999999999999999-9999999999------9999999999999999999999----------9999999999999999999999999999999999999999999999999999999999999999999------------999
+i bosTau3.chr9 C 0 I 18
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e canFam2.chr1 78210949 81 - 125616256 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=200541.000000
+s mm9.chr10 3143631 91 + 129993255 A------------------CAATTTGTGCCAGGGCCCTGTGGCGTGAATGAGCTTGTTGGGGGGAGGGGAGGGGCCGAGGAAAGGGAG-GGTGGTGGACTTGTGA--AGAGG
+s rn4.chr1 229961307 107 - 267910886 ACCATCATGTGCGAGAG--CAGTTTGTGCCAGGGCCCTGTGGAGCGAGTGAGCTTGCTGGGGGGAGGGGA-GGGTTGAGGAAAGGAAG-GGTGGTGGAAGGATGGT-GGAGG
+q rn4.chr1 99999999999999999--999999999999999999999999999999999999999999999999999-99999999999999999-99999999999999999-99999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16035583 97 - 170899992 ggcattctaggagagggaataactcatgcaaaggccctgaggtgcgaaccggctt------------ggagagtttgagaaaaggaagttgtggtggggtcatgag-agc--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16557885 97 - 173908612 ggcattgtaggagagggaataactcatgcaaaggccctgaggtgcgaaccggctt------------ggagagtttgagaaaaggaagttgtggtggggtcatgag-agc--
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999------------999999999999999999999999999999999999999-999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16340821 97 - 174210431 ggcattgtaggagagggaataactcatgcaaaggccctgaggtgcgaacgggctt------------ggagagtttgagaaaaggaagctgtgctgtggtcttgag-agc--
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108443458 97 + 167655696 GGCATTGTAGGAGAGGGAATAACTCATGCACAGGCCCTGAGGTGGGAATGGGCTT------------GGAGGGTTTGAGAAAAGGAAGTTGTGGTGGGGTCATGAG-AGC--
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999------------999999999999999999999999999999999999999-999--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 5644 97 - 523245 agcattgtgggagagggaatcactcatgcaaagaccctgaagcgcaaatgggctt------------ggagagtttgagaaaaggaagctgtggtggggtcacgag-agc--
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 335966 93 - 498454 AGCATTGTA-AAGAGGTTACCGTGGGTGCAAAGA-CCTGAGGTGT-AATGAACTT-------------GAGTGTTTGAGGCAAGGAA-CTCTGGTGGTGTCATGAATAGC--
+q tupBel1.scaffold_114895.1-498454 999999999-999999999469999999999999-9999999999-999999999-------------9999999999999999999-9999999999999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13661971 73 - 95030419 ------------------acagccagtgcaaaggccctgagg------tgagctt------------ggagcctttgaggagtggaag-cacggtggagtcatgaagagc--
+q bosTau3.chr9 ------------------999999999999999999999999------9999999------------999999999999999999999-999999999999999999999--
+i bosTau3.chr9 I 18 C 0
+s equCab1.chr31 13005376 79 + 24938454 ------------------acagctagtgcaaaggccctgaggtatgaatgagctt------------ggagtgtctgaggaatggaag-tatggtggagtcatgaagagc--
+q equCab1.chr31 ------------------9999999999999999999999999999999999999------------999999999999999999999-999999999999999999999--
+i equCab1.chr31 I 7 C 0
+s felCat3.scaffold_217398 72698 79 - 219823 ------------------acagctgttgcagaggccccgaggtgcaaatgaattt------------ggagtgtttgaggaaaggaag-tgtggtggcctcatgaagaac--
+q felCat3.scaffold_217398 ------------------9999999999999999999999999999999999999------------999999999999999999999-999999999999999999999--
+i felCat3.scaffold_217398 I 7 C 0
+s canFam2.chr1 78211030 79 - 125616256 ------------------acagccagtgctaaggccctgaggtgcaaatgaattt------------ggagtgtttgagcaaaggaag-tgtggtggagtcttgaagagc--
+q canFam2.chr1 ------------------8888888888888889999888898988989999998------------889898987777788787777-678888887766667767777--
+i canFam2.chr1 I 81 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e cavPor2.scaffold_286578 133188 0 - 133272 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=594557.000000
+s mm9.chr10 3143722 309 + 129993255 AAGGCTGAC-----------AGGTTGGCAGGTGGA------GTGGGAGAGGGACCTTGAGAGAGAAAAGAGGTCAGGCCG--------TGGGTACATCTCGGACAGGCACCAGAAAAC-----------TGTCCT------TGGGATGAAAAGCAGGGCCA----TGGCCTTGTATGATGTG-GCTCCTGAAAGATCGCTCTGGCCCCTTGTGCTAGCAGTGAACTTGGGACA--CAACT-GCGTGTGTTGCCGTATTCTGGGGTCCGCA---TT------TTAGACCGTGATGTGGGTCATGCTGGACT--CTGAAGTCAAGTGTAAGACAA------TCCATCCATCACTTTAAATCTCAGTGCTTTGAACATC
+s cavPor2.scaffold_284118 37124 270 - 169015 AAGGATGGT-----------AGGGTGG-AGAAAGA------GTGGAAGAG-------------TCAAAGCAGCCAGATCATGTAGGGTCTTGTGAGTCATGGCCATGCCTTTGCAATT-----------ATTTTT------TCTGATAGCAAGCAGAGAAA----GGATATTATCTGATCTGTGTTTTTGGGAGGTCATTTTGACTC-------------TAGGACTGGAA-------------GGTGTGACAGTGTTCTTGGA-----------------------CAAGATGCTGGTGGTTCCAGCCTTGCTGAGGCTAAGACCTAGGTAA--CTGGTTCATCCATTATTTAAAA--TGAGTTATTTAAA-ATC
+q cavPor2.scaffold_284118 259911543-----------9993498-9856689------459887897-------------8979988659929569999999999999999999999999999999999992899-----------999999------99999999999999999999----999999999999999999999999999999999999999999-------------99999999999-------------99999999999999999999-----------------------9999999999999999999999999999999999999999999999--9999999999999999999999--9999999999999-999
+i cavPor2.scaffold_284118 I 27096 C 0
+s rn4.chr1 229961414 323 - 267910886 AAGAATGAC-----------AGTATGGCAGGTGGA------GTGGGAAAGGGGCCTTGAGAGAGAAAAGAGGTCAGGCCATGTGGTTTTGTGTACATTGTGGACAGGTACCAGAAAACTT---------TGTCCT------TGGGATGAAAAGCAGGGCCATCTGTGGCCTTGTCTGAGGTG-GCTCCTGAAAGATGACTCTGGCTTCTTGCCACAGCAGTGAACTTGGAATA--CAGCT-GCTTATGTTGTCGTATTCTGGGGACAATG---TT------TTAGACTGTGATGTGGGTCATGCTGGACT--CTGAAGTCAAGTTTAAGCCAA------TCCATCCATCTCTTTAAATCTCAGTGCTTTGAACACC
+q rn4.chr1 999999999-----------999999999999999------9999999999999999999999999999999999999999999999999999999999999999999999999999999---------999999------99999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999--99999-99999999999999999999999999999---99------99999999999999999999999999999--999999999999999999999------9999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16035680 339 - 170899992 gagggtg-------------ggggtgatgggtgaagagcaggtgagagag-----------acacacagaggccagatcatgtaggttcttacaagtcgtggtcagggaggtgcaattttttatttttattttttaatagttacggtggaaagcagaga-g----tgacagtatttgatctg-tgtgttgaaagatcagtcagggtt-tttgagcagaaatgaattcaggaaatccagctggaaggcattgcagtattctggaggcgatggtgtc------ttggattcaggtgttggcagtTTCAGCCTTTGTGAAGCCAAGTTCTAGTTACAGTTGGGTCATTGACAGCTTCCAATCTCAGTAATGTAAACATT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16557982 339 - 173908612 gagggtg-------------ggggtgatgggtgaagagcaggtgagagag-----------acacacagaggccagatcatgtagggtcttacaagtcgtggtcagggaggtgcaattttttatttttattttttaatagttacggtggaaagcagaga-g----tgacagtatttgatctg-tgtgttgaaagatcagtcagggtt-tttgagcagaaatgaattcaggaaatccagctggaaggcattgcagtattctggaggcgatggtgtc------ttggattcaggtgttggcagtTTCAGCCTTTGTGAAGCCAAGTTCTAGTTACAGTTGGGTCATTGACAGCTTCCAGTCTCACTAATGTAAACATT
+q panTro2.chr6 9999999-------------999999999999999999999999999999-----------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9----99999999999999999-999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16340918 341 - 174210431 gagggtg-------------ggggtggtgggtgaaaagcgggtgagagag---------acacacacagaggccagatcatgtagggtcttccaagtcgtggtcagggaggtgcaattttttatttttattttttaatagttatggtggaaagcagaga-g----tgacagtatttgatctg-tgtgttgaaagatcagtcagggtt-tttgagcagaaatgaattcaggaaatccagctggaaggcactgcagtattctggaggcgatggtgtc------ttggattcaggtgttggtggtTCCAGCCTTTGTGAAGCCAAGTTCTAGTTACAGTTGGGTCATTGACAGCTTCCAATCTCAGTAATGTAAACATT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108443555 331 + 167655696 GAGGGTG-------------GGGGTGGTGGATGAAAAGCAGATGAGAGAG-------AGACACACACAGGGGCCAGATCATGTAGGGTCTTACAAGTCGTGGTCAGGGAGGTGCAA-----------TATTTTTT-ATAGTTGTGTTGGAAAGCAGAGA-G----TGACAGTATTTGATCTG-TGTGTTGAAAGATCAGTCAGGCTT-TTGGTGCAGAAGTGAATTCAGGAAATCCAGCCGGAAGGCATTGCAGTATTCTGGAGGCGATGGTGTC------TTGGATTCAGGTGTTGGTGGTTCCAGCCTTTGTGAAACGAAGTTCTAGTTGCAGCTGGGTCATTGACAACTTCCAATCTCAGTAATGTAAACGTT
+q rheMac2.chr4 9999999-------------999999999999999999999999999999-------99999999999999999999999999999999999999999999999999999999999-----------99999999-99999999999999999999999-9----99999999999999999-999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 5741 306 - 523245 aggggt--------------ggggtggtggatgaagagcaggtgggagag-----------actcacggaggcc--------------------agttgtggtcaggcatgtgcaat------------ttttttaatagttgtgatggaaagcagaga-g----tggcagtattttatttg-tgtgtttaaagatcagtctggctt-tttgggcagaaatgaattcaggaaatccagctggaaggcattgcagtattctggaggcagtggtgtc------tgggattcaggtgttggtggtTCCAGCCTCTGTAAAGCCAAATTATAGTTACAGTTGGGTCACTGACAGCTTCCAAGCTCAGTAGTTTAAACATT
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 336059 322 - 498454 AAGGTGG-------------TGAGAAGTGGGTGGAGAGAGAATCAGAGAT-----------ACACA---AGGCCAGATAACGTAGGGGCTTGTGAATCAGGGTTGGGTGTTTGCA--------------TTTTTT-CTAGTTGTGATGGAAAGCAGGGAGG----CGACATGATCCGAGCTA-TGCTTTGAAAGATCACTCTGGCTT-TTGGGGAAGAAATGAATTCATACATTCCTGCTGGAAGGCACTGTAATATCCAGGAGACAGTGGTTTC------TTGGACTAAGGTGTTGGTGGTTCCACACGTTGTGAAGCTTAGTCCTAGGTATGAGTGGTTCATTGGTAGCTTCAAATCCCAATAATTTAAAAATT
+q tupBel1.scaffold_114895.1-498454 9999999-------------999999999999999999999999999998-----------99999---9999899999999999999999999999999999999989999999--------------999999-9999999999999999999999998----89999999999999999-999999999999899999999999-9999999999999999999999999999999999999759999999999979999996999998999------99969799998697997698799979999999699998999979989797879999958997999779899999989999999989999999689
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13662044 313 - 95030419 aaggacagt--------ggggctgtgctggatgggattggggtgagagag-----------agacacagcagtcagatcatggagGGTCTTACAGGTCTTAGTC----GTTTGCGA-------------TATTTT-CTAGTTACTATGGAAGGCAGTGGAG----TGACATGATCGTATCTG--------------------GATTC-TCGAGGCAGAA-TGAGTTTAGGGAGGCCCGCTGGAAGGCACTGCGATATTCTGGAGATAACGTTATTACTGTCTTAGGTGAAGGTATTAGTGACTCCAGCATCTGAGAAGCCAAGGTCTAGGTACCGTTGGTTCACTGGTAACATCACATCTGGATAATTTAAAAATT
+q bosTau3.chr9 999999999--------999999999999999999999999999999999-----------9999999999999999999999999999999999999999999----99999999-------------999999-9999999999999999999999999----99999999999999999--------------------99999-99999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13005455 304 + 24938454 aaggatggc--------ggggtggtggtgagtggagctggggtgaaagag-------------ataca----ccagatcatgtaaagtcttatgagtcttggtcaagcgtttgcaa-------------tttttt-ctagttgttatggaaagcagggga-----tgacatgagctgatttG--------------------GATTC-TTGGGGCAGAAGGTAATTTA-GGAGTCCAGCTGGAAGGCACTGCCGTGTTCTGGAGATTCTGGTATC------TTGGACTAAGGTATCGATGGCTCCAGTGTTTGAGAAGCTGAGTTCTAGGTACAGTTGGTTCATTGACAGCTTCACCTCCAGATAATTTTAAAATT
+q equCab1.chr31 999999999--------999999999999999999999999999999999-------------99999----99999999999999999999999999999999999999999999-------------999999-999999999999999999999999-----99999999999999999--------------------99999-99999999999999999999-9999999999999999999999999999999999999999999999------99999999999999099999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 72777 285 - 219823 aaggatggt-----------ggggtggtgggcagagagggggtaagagat-----------a-acacagaggccacatcatggagGGGCTCCTCAATCTTGGTCAGCTGTTTGCAG-------------TTTTTC-CTAGTTGCTGTGGAAAGCAGGAGAG----TAACA-AATCTGATTTG--------------------GATT---TGCAGCAGAAGTAAATTTAGGGAGGCCAGCTGGAAGGCA--------TTCTAGAGCTGATGGTATT------TTGGACTAAGGCTTTGGTGGCTCCAGCGTTGGAGAGGGCAAGTTCTAGGTGGAGTTGGTTCACTGA------------TAGATCATTTTGAAATT
+q felCat3.scaffold_217398 999999999-----------999999999999999999999999999999-----------9-99999999999999999999999999999999999999999999999999999-------------999999-9999999999999999999999999----99999-99999999999--------------------9999---999999999999999999999999999999999999999--------9999999999999999999------999999999999999999999999999999999999999999999999999999999999999999------------99999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78211109 304 - 125616256 aaggatggtgatggtgaggggaaggggtgggtagagatggggtgagagat-------------atacagaggtaaaatcctatggggtcttacagatcttggtctagtgtttgcagt------------tttttt-ctagttgatgtggaaaataggggag----tgaca-aatttgatttg--------------------gattc--tggggcagaagtgaatttagggggtccagctggaatgcattacactgttttggacatgatggcatt------ttggattaa-gctttggtggctccagcatttgagaagccaagttctagataGAGTCAGTTCATTGA------------TAAATCATTTTGAAATT
+q canFam2.chr1 78788887788887887778777767567656665645557666669777-------------666778776667755445667772345469553445555656556666678765------------667664-7667557865557799666999995----55899-97888999998--------------------88777--889999999999999988899999889899999999998888897778999999999999999999------999999999-99999999998999999999999999999999999999999999999999999999------------99999999999999999
+i canFam2.chr1 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 41932 3100 + 79436 I
+
+a score=104125.000000
+s mm9.chr10 3144031 41 + 129993255 GCGTTTGAAATTGGG----GCGCCTGTCTA---------GTTC-----TTTTCCTCCTA
+s canFam2.chr1 78211413 54 - 125616256 ATGTTTGAAATTGTGATATATGTATACTTGTGGTTTTTTTTTT-----TTTTTTCCTTA
+q canFam2.chr1 9999999999999999999999999999999999999999999-----99999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 73062 55 - 219823 ATATTTGAAATCGTG----AGGTATATTAGTGGGTTTTTTTTTTTTCATTTTTTTCCTC
+q felCat3.scaffold_217398 999999999999999----9999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13005759 47 + 24938454 ATGTTTGAAATTGAG----ATGTATATTCAT---TTATTCTTT-----TTCTTTCCCTG
+q equCab1.chr31 999999999999999----999999999999---999999999-----99999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13662357 46 - 95030419 ATCTTTGAAGCTGGG----ATGTAGATTCT----TTTTTTTTC-----TCCTTTCTCTG
+q bosTau3.chr9 999999999999999----99999999999----999999999-----99999999999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 336381 36 - 498454 ATATTTGAAATTGGA----ATGTCTATTTG---------TT----------TCCTCCTA
+q tupBel1.scaffold_114895.1-498454 989999999899968----96789999989---------99----------77999998
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 6047 41 - 523245 AGGTTTGAAATTGGG----ATGTCTATTCA---------CTCT-----TTTCCCTCCTG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108443886 41 + 167655696 AGATTCGAAGTTGGG----ATGTCTGCCCA---------TTCT-----TTCCCCTCCTG
+q rheMac2.chr4 999999999999999----99999999999---------9999-----99999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16341259 41 - 174210431 ATATTTGAAGTTGGG----ATGTCTGCTCA---------TTCT-----TTCCCCTCCTG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16558321 41 - 173908612 ATATTTGAAGTTGGG----ATGTCTGCTCA---------TTCT-----TTCTCCTCCTG
+q panTro2.chr6 999999999999999----99999999999---------9999-----99999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16036019 41 - 170899992 ATATTTGAAGTTGGG----ATGTCTGCTCA---------TTCT-----TTCCCCTCCTG
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_197619 45032 38 + 79436 GTATTTGGAATTGGA----GTGTGTATTCG---------TTTC-----TCGCTTTC---
+q oryCun1.scaffold_197619 999998999988899----99999999996---------9999-----89899998---
+i oryCun1.scaffold_197619 I 3100 C 0
+s cavPor2.scaffold_284118 37394 37 - 169015 CTATTTGAAACTGGG----GTGcctgt-------------ttc-----ttcctttccaa
+q cavPor2.scaffold_284118 999999999999999----99999999-------------999-----99999999989
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229961737 41 - 267910886 ACGTTTGAAATTGGG----GCGCCTGTCAA---------GTTC-----TTTCTCTCCTA
+q rn4.chr1 999999999999999----99999999999---------9999-----99999999999
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=29877.000000
+s mm9.chr10 3144072 38 + 129993255 CCAGGGTTA----GGTGCGTCCTCTG-----GCCTCCGCTTGTC------CCG
+s echTel1.scaffold_175172 3804 21 - 13804 CCAGGGTCA----GAGAGGT----------------------CC------TGG
+q echTel1.scaffold_175172 999999999----9999999----------------------99------999
+i echTel1.scaffold_175172 N 0 C 0
+s canFam2.chr1 78211467 37 - 125616256 CTAGGGTTA----GGAGAGCTC-CCA-----CCCTCCCCTCATC------CTG
+q canFam2.chr1 999999999----999999999-999-----9999999999999------999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 73117 37 - 219823 CTGGGGTTA----GGAGAGCTC-CTA-----CTCTCCCCTCATC------CTG
+q felCat3.scaffold_217398 999999999----999899999-999-----9999999999999------999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13005806 36 + 24938454 CCAGGGTTA----AGAGAACCG-CC------TCCTCCCTTCATG------CAG
+q equCab1.chr31 999999999----999999999-99------9999999999999------999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13662403 37 - 95030419 CCAGGGTTA----AGAGCTCCC-CTC-----CGCTCCCCGCATC------CTG
+q bosTau3.chr9 999999999----999999999-999-----9999999999999------999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 336417 38 - 498454 CCTGGATGA----AGAGAGTTCACTG-----TCCTCCCCTTATC------CTG
+q tupBel1.scaffold_114895.1-498454 897999799----9999989996898-----5998999999879------979
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 6088 38 - 523245 CCAGGGCTA----AGGTAGATGGGTG-----CTCTCCTCTTACC------TTG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108443927 43 + 167655696 CCAGGGCTAAGGTAGGTAGA----TG-----CTCTCCTTT-CCTTTCCGGCTG
+q rheMac2.chr4 99999999999999999999----99-----999999999-999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16341300 33 - 174210431 CCAGGGCTA----AGGTAGA----TG-----CTCTCCTCT-CCC------CCG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16558362 34 - 173908612 CCAGGGCTA----AGGTAGA----TG-----CTCTCCTCTGCCC------CTG
+q panTro2.chr6 999999999----9999999----99-----9999999999999------999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16036060 34 - 170899992 CCAGGGCTA----AGGTAGA----TG-----CTCTCCTCTGCCC------CTG
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_197619 45070 18 + 79436 --AGGGCTA----GG--------CCA---------------GTC------CTG
+q oryCun1.scaffold_197619 --6899999----88--------997---------------999------989
+i oryCun1.scaffold_197619 C 0 C 0
+s cavPor2.scaffold_284118 37431 37 - 169015 CTAGGGTCA----GGAGAGTGC-Ccg-----cccctccctcctc------ctg
+q cavPor2.scaffold_284118 999999999----999999999-999-----9999999999999------999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229961778 43 - 267910886 CCGGGGTTA----GGTGCATCCTCTGCACCCCCCCCCCCCCGTC------CTG
+q rn4.chr1 999999999----9999999999999999999999999999999------999
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106165460 9847 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=122764.000000
+s mm9.chr10 3144110 70 + 129993255 ATTCCTGTCTTGCCACGTGTGCTGGCCATTCA------------CCCTTCGTCTGGTTGCCTTCACATGC-TCTGGTCATGTC
+s rn4.chr1 229961821 70 - 267910886 ATTCCTCTCTCAACACGTGAGCTGGCCATTCT------------AGCTTTGTCTCATTGCCTTCACATGC-TCTGGTCACGTC
+q rn4.chr1 99999999999999999999999999999999------------99999999999999999999999999-999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 37468 80 - 169015 atTACCTCCTGGCCATGTGTGATGATTGTTTAAAATAGAGAG--CACTCTGTCATTTTGCCTTCACATGC-TTCGTTCACGTC
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999999--99999999999999999999999999-999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_197619 45088 70 + 79436 GTCTCTCTCTTGCCATG---------CGTTTAGAATGCAGAGCTCACTCTGTCTC--TGTGTTCAC-CAC-TTGGTTCGCATC
+q oryCun1.scaffold_197619 99989898999999699---------99999999999967999986999899969--799998959-959-999999988798
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16036094 72 - 170899992 GCTCCTCTCTGGCCAAGTATGATGGTCATTTAGAATAGAGAGCGCCCTCTGTCTTTCTGC-----------CTTGTTCACATC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16558396 72 - 173908612 GCTCCTCTCTGGCCAAGTATGATGGTCATTTAGAATAGAGAGCGCCCTCTGTCTTTCTGC-----------CTTGTTCACATC
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999-----------999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16341333 72 - 174210431 GGTCCTCTCTGGCCGTGTATGATGGTCATTTAGAATAGAGAGCGCTCTCTGTCTTTTTGC-----------CTTGTTCACATC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108443970 71 + 167655696 GCTCCTCTCTGGCTGTGTATGATGGTCATTTAGAATAGAGAGCGCCCTCTGTCTTT-TGC-----------CTTGTTCATATC
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999-999-----------999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 6126 72 - 523245 GTTCCCCTCTGTCCATGTATGCTGGTCATTTAGAAGAGAGAGCGCCCCCTGTCTTTCCGT-----------CTTGCTCACATC
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 336455 81 - 498454 ATTACTCTCGTGCCATGTATGATTGTCA-TTAAAATAGAGAACTCACTACGTGTTTCTGCATTCACATGT-TTTATCCACGTC
+q tupBel1.scaffold_114895.1-498454 9996799998969998999899999899-99999999999989684996999999999998999899999-999999979999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13662440 68 - 95030419 ATTACTCTCCTGTCA--------------TTTAAAAGGGAGGTGCAGGGCTACTCTCTGCGTTCACATGC-TTCGTTCACGTC
+q bosTau3.chr9 999999999999999--------------99999999999999999999999999999999999999999-999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13005842 67 + 24938454 GTTACGCTCTTGTCA--------------TTTGAAGGAGAGAGGCGATCTCTCTTTTC-CATTCCCGCGC-TTTGCTCGCATC
+q equCab1.chr31 999999999999999--------------99999999999999999999999999999-99999999999-999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 73154 68 - 219823 ATTACTCTCTTGTCA--------------TTTAAATAGAGGAGGAAATCTGTCTTTTTGCGTTCACGTGC-TTTGTTCCCGGT
+q felCat3.scaffold_217398 999999999999999--------------99999999999999999999999999999999999999999-999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78211504 68 - 125616256 ATTACTCTCTTGTCG--------------TTTAAATAGAGAGTGCAATCTGTCTTTTTGCATTCACATGC-TTTGTTCCCTGT
+q canFam2.chr1 999999999999999--------------99999999999999999999999999999999999999999-999999999999
+i canFam2.chr1 C 0 C 0
+s echTel1.scaffold_175172 3825 78 - 13804 GCCGCCTCCTGGCCACGTGCCCTGGTCACTGGGA--GGTGAACAGCCAGGGTCTTCTGGCTTTCACGTGCGCTCTGAGAC---
+q echTel1.scaffold_175172 9999999999999999999999999999999999--99999999999999999999999999999999999999999999---
+i echTel1.scaffold_175172 C 0 C 0
+s monDom4.chr2 106175307 69 - 541556283 ATCACAGTTTTTAGACCTGTGGTGGGTTTTTTTTTTAAGG-------------TTTTTGTATTCACAGGC-TTTGTTCATGTC
+q monDom4.chr2 9999999999999999999999999999999999999999-------------99999999999999999-999999999999
+i monDom4.chr2 I 9847 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e dasNov1.scaffold_15233 48634 2323 + 62638 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=498027.000000
+s mm9.chr10 3144180 68 + 129993255 ATTGTTCTTTTTTGGCGTGTTCTGCTGGA-GCT--AGTGTTTGAATTTGCTCATTCCTCTTTGAATAGAGT--
+s rn4.chr1 229961891 70 - 267910886 ATTGTTCTTTTCTGGCGCATTCTGCACCA-GCTCCAGTGTCTGAACTTGCGCATTCCTCTTTGAATAGAGT--
+q rn4.chr1 99999999999999999999999999999-99999999999999999999999999999999999999999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 37548 70 - 169015 ATTGTACTTTTCTGGCAGTTTTTGCTGGA-GCTACAGTTTCTGAAGCTGCGCATTCATCTATGAATAGGGT--
+q cavPor2.scaffold_284118 99999999999999999999999999999-99999999999999999999999999999999999999999--
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_197619 45158 70 + 79436 ATTGTTCTTTTCTGGCACATTTTGCTGGA-GCCCCAGTTTCTGAAGCTGCTTATTCATTCCTGAATAGGGT--
+q oryCun1.scaffold_197619 68999985998759965659999999999-99989599996599995799689995399876999999985--
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16036166 68 - 170899992 ATTGTTATTTTCTGGCACTTTTTGCTGCG-GCT--AGTTTCTGAAGCTGTTTATTCATCTATGAATAGAGT--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16558468 68 - 173908612 ATTGTTATTTTCTGGCACTTTTTGCTGCG-GCT--AGTTTCTGAAGCTGTTTATTCATCTGTGAATAGAGT--
+q panTro2.chr6 99999999999999999999999999999-999--999999999999999999999999999999999999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16341405 70 - 174210431 ATTGTTATTTTCTGGCACTTTTTGCTGGG-GCTACAGTTTCTGAAGCTGTTTATTCATCTATGAATAGGGT--
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108444041 67 + 167655696 ATTG---TTTTCTGGCACTTTTTGCTGGG-GCTACAGTTTCTGAAGCTGTTTATTCATCTATGAATAGGGT--
+q rheMac2.chr4 9999---9999999999999999999999-99999999999999999999999999999999999999999--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 6198 67 - 523245 GTTG---TTTTCTGGCACTTTTTGCTGGG-GCTACAGTTTCTGAAGCTGTTTATTCATCGATGAATAGGGT--
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 336536 70 - 498454 ATTGTCCTTTTCTGGCACATTTTGCTGGA-GCTACAGTTTCTGAAGCTGCTTATTCATCTATGAATAGGGT--
+q tupBel1.scaffold_114895.1-498454 99999999999999999899999999999-99999999999999999999999999999999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13662508 71 - 95030419 ATTGTTTTCTTCTGGCACATTTTGCTGGGAGCTACAGTTTCTGAGGCTGTTTATCCATCTATGAATAGGGT--
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999--
+i bosTau3.chr9 C 0 I 2
+s equCab1.chr31 13005909 71 + 24938454 ATTGTTCTTTCCTGGCGCGATTTGCTGGGAGCTGCAGTTTCTGAAGCTGCTTATTCATCGATGAATAGGGT--
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999--
+i equCab1.chr31 C 0 I 3
+s felCat3.scaffold_217398 73222 71 - 219823 ATTGTTCTTTCCTGGCACATTTTGCTGGGAGCTACAGTTTCTGAAGCTGTTTATTCATCTATGAATAGGGG--
+q felCat3.scaffold_217398 88988999999989998989999999999999999999999899989989969899799889896899997--
+i felCat3.scaffold_217398 C 0 I 2
+s canFam2.chr1 78211572 71 - 125616256 ATTGTTCTTTCCTGGCACATTTTGCTGGGAGCTACAGTTTCTAAGGCTGTTTATTCATCTATGAATAGGGG--
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999--
+i canFam2.chr1 C 0 I 2
+s dasNov1.scaffold_15233 50957 69 + 62638 ATAGTTCTTTGCTGCA--CATTTCCTAGGAGCTACAGTTTCTGAAGCTGTTTACGTATCTCTGAATAGGGT--
+q dasNov1.scaffold_15233 1211422263521221--22495231111234434124941003334244654453232511151443234--
+i dasNov1.scaffold_15233 I 2323 I 2
+s echTel1.scaffold_175172 3903 69 - 13804 ATTGTTCTCCCCGGGC--CAGCGGCTGCTAATCACAGGCTCTGAGGCTGCACATTCGTCAGTGAATGGGGT--
+q echTel1.scaffold_175172 9999999999999999--99999999999999999999999999999999999999999999999999999--
+i echTel1.scaffold_175172 C 0 I 2
+s monDom4.chr2 106175376 70 - 541556283 ---ATTCTTTTCTGGAGCATTCTGCTGTGTACTATGCTTTCTGAAGCTGCTCATCTGCCTGTGAATGGGGCTT
+q monDom4.chr2 ---9999999999999999999999999999999999999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 1300 2303 + 53723 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=746507.000000
+s mm9.chr10 3144248 81 + 129993255 TTGT---GAGAGTGCGCTTAGCCTGGTTCATCTTCTTT-GACATCAAATGGCTAATTGAAC--GGTTGC-TAACCTGTGCCCAGGAGG
+s rn4.chr1 229961961 84 - 267910886 TTCTATGAAAAGTGCGCTTAGCCTGGTTCATTTTCTTT-GACATCAAATGGCTAACTGAAC--AGTTTC-TAACCTGTGCCCAGGAGG
+q rn4.chr1 99999999999999999999999999999999999999-9999999999999999999999--999999-999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 37618 83 - 169015 TTTTGT-GAAAGTGAACTTAGCCTGGTTTGTTTTCTTT-GACATCAAATGGCTAATTGAAC--AGTTTT-TAACCTGGGACCAGAAGG
+q cavPor2.scaffold_284118 999999-9999999999999999999999989999999-9999999999999999999999--999999-999999999989799999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_197619 45228 81 + 79436 TTTTGT-GAGAGTGGACTTAGCCTAGTTTGTTTGCTTT-GACATCAGACGTCTAACTGA----TATTTT-TAACCTGGGATCACACAG
+q oryCun1.scaffold_197619 998798-9989899996599656399999959997599-99848747995965995799----787877-788884966556374648
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16036234 83 - 170899992 TTTTGT-GAAATTGGACTTAGCCTACTTTGTTTTCTTT-GACATCAAATGGCTGATTGAAC--ATTTTT-AAACCTGGGATCAGAAGG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16558536 83 - 173908612 TTTTGT-GAAATTGGACTTAGCCTACTTTGTTTTCTTT-GACATCAAATGGCTGATTGAAC--ATTTTT-AAACCTGGGATCAGAAGG
+q panTro2.chr6 999999-9999999999999999999999999999999-9999999999999999999999--999999-999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16341475 83 - 174210431 TTTTGT-GAAATTGGACTTAGCCTACTTTGTTTTCTTT-GACATCAAATGGCTGATTGAAC--ATTTTT-AAACCTGGGATCAGAAGG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108444108 83 + 167655696 TTTTGT-GAAATTGGACTTAGCCTACTTTGTTTTCTTT-GACATCAAATGGCTGATGGAAC--ATTTTT-AAACCTGGGATCAGAAGG
+q rheMac2.chr4 999999-9999999999999999999999999999999-9999999999999999999999--999999-999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 6265 83 - 523245 TTTTGT-GAAACTGGACTTAGCCTACTTTGTTTTCTTT-GACATCAAATGGCCGATTGAAC--ATTTTT-AAACCTGGGATCAGAAGG
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 336606 69 - 498454 TTTTGT-GAAAGTGGACTTAGCTTGGTTTGTTTTCTTT-GACATCAAATGGCTGATTGAACAGATTTTT-GC----------------
+q tupBel1.scaffold_114895.1-498454 999999-9999999999999999999999999999999-999999999999999999999999999999-99----------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 1806
+s eriEur1.scaffold_373760 3603 78 + 53723 --TTGT-GAAAGTGGATTCTGCTCGGTTTGTTTTCTTT-GACATCAGATGGCTGA----AC--CGTTTTCTAACCTGGGACCAGAAGG
+q eriEur1.scaffold_373760 --5121-1685344535714167442364358852552-3575626553532455----48--4448862553583585363352533
+i eriEur1.scaffold_373760 I 2303 I 1
+s canFam2.chr1 78211645 81 - 125616256 --TTGT-GAAAGTGGACATAGCCTAGTTTGTTTTCTTT-GACATCAAATGGCTGATTGAAC--AGTTTT-TAACCTGGGATCAGAAGG
+q canFam2.chr1 --9999-9999999999999999999999999999999-9999999999999999999999--999999-999999999999999999
+i canFam2.chr1 I 2 C 0
+s felCat3.scaffold_217398 73295 81 - 219823 --TTGT-GAAAGTGGACTTAGCCTAGTTTGTTTTCTTT-GACATCAAATGGCTGATTGAAC--AGTTTT-TAACCTGGGATCAGAAGG
+q felCat3.scaffold_217398 --9976-9999469889999899897999769998999-9777976988986978598997--578999-665997999567659659
+i felCat3.scaffold_217398 I 2 C 0
+s equCab1.chr31 13005983 79 + 24938454 --TTGT-GAAAGTGGACTTAGCCTAGTTTGTTTTCTTT-GACATCAAATGGCTGATTG--C--AGTTTT-TAACCTGGGATCAGAAGG
+q equCab1.chr31 --9999-9999999999999999999999999999999-9999999999999999999--9--999999-999999999999999999
+i equCab1.chr31 I 3 C 0
+s bosTau3.chr9 13662581 77 - 95030419 --TTGT-GAAAGTGGACTTAGCCTAGTTTGTTTTCTTT-GACATCAAATGACTGA----AC--AGTTTT-TAACCTGGGATCAGGAGG
+q bosTau3.chr9 --9999-9999999999999999999999999999999-9999999999999999----99--999999-999999999999999999
+i bosTau3.chr9 I 2 C 0
+s dasNov1.scaffold_15233 51028 81 + 62638 --TTGT-GAAAGTGGACTTAACTGAGTTTGTTTTCTTT-GATATCAGATGGCTGATTGAAC--ACTTTT-TAACCCGTGATCAGAAGG
+q dasNov1.scaffold_15233 --6231-3593322454626442343574457796674-4543554451334355424535--555787-462795535555446445
+i dasNov1.scaffold_15233 I 2 C 0
+s echTel1.scaffold_175172 3974 83 - 13804 --TTGT-GAAGGTGGACTTAGCCTAGTTTGTTTTCTTT-GACATCAAATGGCTGATTGAATCGGTCTTT-TAACCTGGGATCAGGAGG
+q echTel1.scaffold_175172 --9999-9999999999999999999999999999999-999999999999999999999999999999-999999999999999999
+i echTel1.scaffold_175172 I 2 C 0
+s monDom4.chr2 106175446 81 - 541556283 --TTGT-GAAAG-GGACAGAACCCAGTCTGTTTTCTTTGGACATCAAGTAACAGATCAAAT--AATTTT-TGCTTTACAATCAGAAGG
+q monDom4.chr2 --9999-99999-999999999999999999999999999999999999999999999999--999999-999999999999999999
+i monDom4.chr2 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=616408.000000
+s mm9.chr10 3144329 168 + 129993255 GCAGATGCAGATGTGTTTACTGGGACAAAG-CAGCCCTTTAAGTCACAGATCAAT-AGGCGG-AGAAA--TT--AGAACATTTTGCCTTTGAAAACTTTGAAAGTATTTGAGT-ACAGGAA-CT----GGCAGA--TCTGACT-GAAAATA-TTTTGCCCGG-CTGATGGACTGTCCTAATTTTTA---
+s rn4.chr1 229962045 167 - 267910886 GCAGATGCAGATGTGTTTACTGGGACAAAG-CAGCCCTTTAAGTTGCAGATCAAT-AGACGG-AGAAA--TT--AGAATGCTTTGCCTTTGAAAACTTTGAAA-TACTTGAGT-ACAGGAA-CT----TGCAGA--CCTGACT-GAAGATA-TTTTGCCCAG-ACGATGGACTGTCCTAATTTTTA---
+q rn4.chr1 999999999999999999999999999999-999999999999999999999999-999999-99999--99--99999999999999999999999999999-999999999-9999999-99----999999--9999999-9999999-9999999999-99999999999999999999999---
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 37701 169 - 169015 GCACATGCAGTTGTGTTTTTGAGGACAAAG-CGGTTCTTTTGATTGCAGATCAAT-AGGTGG-TAAAA--TT--AGGAAGCTTTGTatctgaaaacttttaaaatatttgagtaaccAGAA-CT----GGCAGG--TTTGACT-TAAAATA-TTTGGCTCCA-TGGAAGGACTGTCCtaattttta---
+q cavPor2.scaffold_284118 999999999999999999999999787999-999999999999999879979999-999899-79999--99--99999989999899998999999999899999899999999996899-89----999999--5999887-9799979-9999669693-89579694589669687599989---
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_197619 45309 165 + 79436 GCAAAGGCAGTTGTGTTTGTGGGAGCAAAG-CTGTTCCTCAGGTTGCAGGTCAGT-AAATTA-TAAAA--AT--GAGAGGGCTTGTTATGGGAAATTCCTATGGTATTTGAGT-AAAGGAA-CT----GGTGGA--TCTAGTT-TAAAATA-TT---CTCTG-CTGACACACTGTTTTCATTTTTG---
+q oryCun1.scaffold_197619 952998974899989875689989563896-559788866328678633857468-697588-97999--56--894969754873878799795385448665344995857-4986768-43----874946--3535689-6599656-84---63449-66663232227399463499957---
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig1260 6348 159 - 523245 GCAAACGCGGTTGTGTTTATTAAAGCAAAG-CTGTTCCTTAGAATGTGAATTAGTAAGATGT-AGAAA--TT--AGAATGCTTTCTATGTGATAACTTTTAAAGTATTTGAGT-AAAGAAA-CT----GGTCTA--CCTG------------TTTTGATCTA-CTGACAGACTATCCTAATTTTTG---
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108444191 169 + 167655696 GCAAATGCGGCTGTGTTTATTAAGGCAAAG-CAGCTCCTTAGAATGTGAGTCAATAAGATGG-AGAAA--TT--AGAAAGCTTTCTGTGTGGTAACTTTTAAAGTATTTGAGT-AAAGAAA-CT----GGTATA--TGTGACT-TAAAATA-TTTTGCTCTA-CTGACAGACTATCCTAATTTTTG---
+q rheMac2.chr4 999999999999999999999999999999-9999999999999999999999999999999-99999--99--999999999999999999999999999999999999999-9999999-99----999999--9999999-9999999-9999999999-99999999999999999999999---
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16341558 169 - 174210431 GCAAATGCGGCTGTGTTTATTAAAGCAAAG-AAGTTCCTTAGAATGCGAATCAATAAGATGT-AGAAA--TT--AGAAAGCTTTCTATGTGAAAACTTTTAAAGTATTTGAGT-AAAGAAA-CT----GGTATA--TCTGACT-TAAAATA-TTTTGCTCTA-CTCAAAGACTATCCTAATTTTTG---
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16558619 167 - 173908612 GCAAATATGGT--TGTTTATTAAAGCAAAG-CAGTTCCTTAGAATGCGAATCAATAAGATGT-AGAAA--TT--AGAAAGCTTTCTATGTGAAAACTTTTAAAGTATTTGAGT-AAAGAAA-CT----GGTGTA--TCTGACT-TAAAATA-TTTTGCCCTA-CTGAAAGACTATCCTAATGTTTG---
+q panTro2.chr6 99999999999--99999999999999999-9999999999999999999999999999999-99999--99--999999999999999999999999999999999999999-9999999-99----999999--9999999-9999999-9999999999-99999999999999999999999---
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16036317 167 - 170899992 GCAAATATGGT--TGTTTATTAAAGCAAAG-CAGTTCCTTAGAATGCGAATCAATAAGATGT-AGAAA--TT--AGAAAGCTTTCTATGTGAAAACTTTTAAAGTATTTGAGT-AAAGAAA-CT----GGTGTA--TCTGACT-TAAAATA-TTTTGCCCTA-CTGAAAGACTATCCTAATGTTTG---
+i hg18.chr6 C 0 C 0
+s eriEur1.scaffold_373760 3682 145 + 53723 CCAAGGGTGGTGGTGTTTATTTGAGCACAA-CACTTCCTTCGGCTGCGGATCAGTGAACCTC-AAACG--GG--AGAAAGCTCGCGAT--TATAACTTAAAAAGCATTTGTGTCAAAGGAA-CCTGGAGAAAGA--TGGG---------------------C-CTGAATGGGTGGC--------TC---
+q eriEur1.scaffold_373760 122223655566353368469856464884-7657635592783575895677555668377-49336--66--86488779863899--5776777759995697635785689975755-776778899889--5994---------------------8-6689979987999--------99---
+i eriEur1.scaffold_373760 I 1 C 0
+s canFam2.chr1 78211726 174 - 125616256 GCAAATGCAGTTGTGTTTATTAGAGCAAAA-CAGTTCCTTAGAATGAAGATCAGTAGGTTGT-AAAAG--CT--AGAAAGCTTTCTGTAGGAAAACTTAAGAAATGTTTGAGTCAAAGGAA-CTCATAGATAAA--TCTGATT-TAAAATATTTTTGCTTCA-TTGAGAAACTATCCCACT-TTTG---
+q canFam2.chr1 999999999999999999999999999999-9999999999999999999999999999999-99999--99--99999999999999999999999999999999999999999999999-999999999999--9999999-999999999999999999-999999999999999999-9999---
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 73376 146 - 219823 GCAAATGCAGTTGTGTTTATTAGAGCAAAA-CAGTTCCTTAGAATGCAGATCAGTAGGTTGT-AAAAA--CT--AGAAAGCTCTCTGTAGG-AAACTTAAAAAATGTTTGAGTTAAAGGGA-CTTGTAGATAGA--TCTGATT-TAAAATA-TTTTGC-------------------------------
+q felCat3.scaffold_217398 566986864397665693476549553897-6534446535475666646555566566466-49995--65--65896455666565535-78744546777545496452555763714-215545463344--5444637-4578435-688534-------------------------------
+i felCat3.scaffold_217398 C 0 I 640
+s equCab1.chr31 13006062 173 + 24938454 GTAAACACAGTGGTGTTTATTAGAACAAAA-CGGTTCCTTCGAATGCGGGTCAGGAGGTTGC-AAAAA--TT--AGAAAGCTTTCTATGTGAAAATCTTAAAAATATTTGAGTCAAAAGAA-CTAGTAGGTAGA--TGTGATT-TAAAATA-TTTTGTTCCG-CTGACAGACTATCCTCAT-TTTA---
+q equCab1.chr31 999999999999999999999999999999-9999999999999999999999999999999-99999--99--99999999999999999999999999999999999999999999999-999999999999--9999999-9999999-9999999999-999999999999999999-9999---
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13662658 169 - 95030419 GCAGAGGCAGTTGTGTTTACTAGAGCAAAA-CAGTTCCTTAAAAT-----TCAGTAGGTTGTAAAAAA--TC--AGAAAGCTTTTTGTATGAAAACTTGA-AAATAGTTGAGTCAAAGGAAGCTGATCAATAGA--TCTAATG-GAAAATA-TTTTGCTCCA-CCAAAAGACTATCATAAT-TTTA---
+q bosTau3.chr9 999999999999999999999999999999-99999999999999-----999999999999999999--99--99999999999999999999999999-999999999999999999999999999999999--9999999-9999999-9999999999-999999999999999999-9999---
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_15233 51109 157 + 62638 ACAAATGTAGTCGTGTTTCTGAGAGCAAAG-CAGTACCTTAGAATGCAGATCAGCAGCTGGT-AAAAA--TT------AGC-----------AAACTTTCTAAACATTTCAGTCCAAAAAA-TTGGTAGATAGA--ACTGATT-TAAAATA-TTTTGCCCCA-CTG--ACATTGTCCTATTTTTTA---
+q dasNov1.scaffold_15233 577861655472524597435455555854-8455485654557356555585576661366-79895--55------657-----------79567865889385497854898857998-634565588459--9535879-7799897-9998799998-846--898848999987998977---
+i dasNov1.scaffold_15233 C 0 I 407
+s loxAfr1.scaffold_220099 3 176 - 1126 GCAAATGCAGTAATGTTTGTCATTGTTAAGGCAATACTCTCAAGATCAGATCAGCAGGCTGT-CTAAA--TTAAAAAAAGCTTTTAGTATAAGAAGGTGCTAAATATGTGAGTCAGAGGAA-CGGGCAGAGAGA--TATGAGT-TAAAATA-ATT-GCCTCC-GTGAAAGATTGTCCTCATTTTTG---
+q loxAfr1.scaffold_220099 35343232552111363612321111136312111221123352211232438233113442-22523--432221535231441141212112243351522436325363333213344-334232542212--5111263-3353851-112-324341-11242342213521763544412---
+i loxAfr1.scaffold_220099 N 0 C 0
+s echTel1.scaffold_175172 4057 167 - 13804 GCAGAGGTGGACGTGTTTATTAGCCCAAAGACG-------------CAGAGTAGCCGATGGC-AAGAATTTTTTAAAAAGC-TTTGTTATGAAAACATAGTCCGTATTGGTGTCCAAGGAG-CCGGCAGAGAGAGTTCCGATT-TAAAATA-CTTGGCCCCC-CTGGGAGACTGTCCTCGTTTTTT---
+q echTel1.scaffold_175172 999999999999999999999999999999999-------------9999999999999999-999999999999999999-999999979999999999999999999999999999999-999999999999999999999-9999999-9999999999-99999999969999977999998---
+i echTel1.scaffold_175172 C 0 I 1
+s monDom4.chr2 106175527 161 - 541556283 TCAAATATG-------TTCTTAAAACTAAA-GTTTTCTTTTAAATGTCAGCCAGCCGGTTTT-CAAAA--TT--AGTAAA--TGGAGCCAAAAATCTCCTTCCAAATCCTAAT-GCAAAAA-GT--------GT--TTTGACTGTGTAGGA-TTTGAATCTATCTCATGGAATCACATTGTTTTCATTA
+q monDom4.chr2 999999999-------99999999999999-9999999999999999999999999999999-99999--99--999999--9999999999999999999999999999999-9999999-99--------99--999999999999999-9999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 336675 1806 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=72960.000000
+s mm9.chr10 3144497 35 + 129993255 ---CTTTAGGAAACAGA-GCCA-------TTCTA-GTTGAATAGAT-G
+s rn4.chr1 229962212 36 - 267910886 ---CTCTAGAAAACAGA-ACCA-------TTTTAGGCTGAATAGAT-G
+q rn4.chr1 ---99999999999999-9999-------99999999999999999-9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 37870 35 - 169015 ---ctttagaaaatatA-ACCA-------TTTTG-GTGGAATGGAT-G
+q cavPor2.scaffold_284118 ---68976799996666-9664-------99999-66986869564-6
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_197619 45474 34 + 79436 ---CTTTAGCCACCAT---CCC-------TGTTGGGTTGAACAGAT-A
+q oryCun1.scaffold_197619 ---6395659414326---695-------37226936265752365-5
+i oryCun1.scaffold_197619 C 0 C 0
+s calJac1.Contig1260 6507 40 - 523245 ---CTTTAGAAACTGTA-GCTACCA-TACTTTTG-GTTGAATAGAT--
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108444360 41 + 167655696 ---CTTTAGAAACTGTA-GCTTCCA-TACTGTTG-GTGGAATAGAT-G
+q rheMac2.chr4 ---99999999999999-9999999-99999999-99999999999-9
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16341727 41 - 174210431 ---CTTTAGAAACTATA-GCTCCCA-TACTTTTG-GTGGAATAGAT-G
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16558786 41 - 173908612 ---CTTTAGAAACTATA-GCTCCCA-TACTTTTG-GTGGAATAGAT-G
+q panTro2.chr6 ---99999999999999-9999999-99999999-99999999999-9
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16036484 41 - 170899992 ---CTTTAGAAACTATA-GCTCCCA-TACTTTTG-GTGGAATAGAT-G
+i hg18.chr6 C 0 C 0
+s eriEur1.scaffold_373760 3827 30 + 53723 ---TTTGAGTAGA-------CGCC--TGCCTTCA-CTGCCATA-----
+q eriEur1.scaffold_373760 ---9999988999-------9699--76878878-89899899-----
+i eriEur1.scaffold_373760 C 0 C 0
+s canFam2.chr1 78211900 41 - 125616256 ---CCTTAGAAAAGAGA-GCCACCA-TGCTTTTG-GTTGAATAGAT-G
+q canFam2.chr1 ---99999999999999-9999999-99999999-99999999999-9
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13006235 41 + 24938454 ---CTTTAGAAAATAGA-ATCACCA-TGCTTCTG-GTTGAATAGAT-G
+q equCab1.chr31 ---99999999999999-9999999-99999999-99999999999-9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13662827 41 - 95030419 ---CTTTAGAAAATTGA-GTCACCA-TATTTTTG-ATTAAGCAGAT-G
+q bosTau3.chr9 ---99999999999999-9999999-99999999-99999999999-9
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_15233 51673 41 + 62638 ---CTTTAGTAAATAGA-GCCACCA-TACTTTTG-GTTGAATAGAT-G
+q dasNov1.scaffold_15233 ---99999999999999-9999999-99999999-99999999999-9
+i dasNov1.scaffold_15233 I 407 C 0
+s loxAfr1.scaffold_220099 179 42 - 1126 ----TTGAGAATATAAAAGTCACCATTATTTTTG-ATTAAATAGAT-G
+q loxAfr1.scaffold_220099 ----211122723422112562443133121102-23215645552-3
+i loxAfr1.scaffold_220099 C 0 C 0
+s echTel1.scaffold_175172 4225 43 - 13804 ---CTTTAGAACACAGGCGTTGCCA-CGTTTTCA-GTTGAATAGATGG
+q echTel1.scaffold_175172 ---9997799999999999776997-77798799-4555545635426
+i echTel1.scaffold_175172 I 1 C 0
+s monDom4.chr2 106175688 35 - 541556283 CTGTTTGAGGGAA-----ACCCCTT-TATGTTAC-GC---ATCGG---
+q monDom4.chr2 9999999999999-----9999999-99999999-99---99999---
+i monDom4.chr2 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e tupBel1.scaffold_114895.1-498454 336675 1806 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-136328.000000
+s mm9.chr10 3144532 94 + 129993255 --------GTATTTTGGG--AA----------ATTCTCAG----CAAG-TAAGAGTTGAACAC--TTTCTT--------A-------------------------AA----AAAAGAGATGT----ATTTATTATAAAAGTATATAATAAatttatttattt
+s rn4.chr1 229962248 28 - 267910886 --------GTATTTTGGG--AA----------ATCCTCAG----CAAG-CAAG-------------------------------------------------------------------------------------------------------------
+q rn4.chr1 --------9999999999--99----------99999999----9999-9999-------------------------------------------------------------------------------------------------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 37905 73 - 169015 --------ATATTTTGGG--AA----------ATTCTCAG----CGAG-GAAGGCTGGAGACT--TTTGTT--------A-------------------------AC----ACTTGATGTGTCACCATTCAATGTAG-------------------------
+q cavPor2.scaffold_284118 --------7466999996--79----------65866765----8575-74865467666545--996956--------6-------------------------56----37587546555535656553657354-------------------------
+i cavPor2.scaffold_284118 C 0 I 3312
+s oryCun1.scaffold_197619 45508 57 + 79436 --------GCATTTTGGGGAAA----------GTTTCCAA----C--------ATTTGGATGC--ATTCTT--------A-------------------------AA----CACTGGAATGC----ATCT--------------------------------
+q oryCun1.scaffold_197619 --------66439933995496----------43955835----5--------3693636375--455436--------5-------------------------94----22231147565----3441--------------------------------
+i oryCun1.scaffold_197619 C 0 I 2969
+s hg18.chr6 16036525 40 - 170899992 --------GCATTTTGAG--AA----------ATTTTCAA----CAAG-----AGCTGGGC----AGTTTT----------------------------------------------------------------AA-------------------------
+i hg18.chr6 C 0 I 68
+s panTro2.chr6 16558827 40 - 173908612 --------GCATTTTGAG--AA----------ATTTTCAA----CAAG-----AGCTGGGC----AGTTTT----------------------------------------------------------------AA-------------------------
+q panTro2.chr6 --------9999999999--99----------99999999----9999-----99999999----999999----------------------------------------------------------------99-------------------------
+i panTro2.chr6 C 0 I 100
+s ponAbe2.chr6 16341768 43 - 174210431 --------GTATTTTGAG--AA----------ATTTTCAA----CGAG-----AGCTGGGCAT--AGTTTT--------A-------------------------AA-------------------------------------------------------
+i ponAbe2.chr6 C 0 I 103
+s rheMac2.chr4 108444401 43 + 167655696 --------GTATTTTGAT--AC----------ATTTTCAA----CAGA-----AGCTGGGCAT--AGTTTT--------A-------------------------AA-------------------------------------------------------
+q rheMac2.chr4 --------9999999999--99----------99999999----9999-----9999999999--999999--------9-------------------------99-------------------------------------------------------
+i rheMac2.chr4 C 0 I 92
+s calJac1.Contig1260 6547 41 - 523245 ----------ATTTTGAG--AA----------ATTTTCAA----CAAG-----AGTTGGGGAT--AGTTTT--------A-------------------------AA-------------------------------------------------------
+i calJac1.Contig1260 C 0 I 144
+s tupBel1.scaffold_114895.1-498454 338481 45 - 498454 --------GTATTTTG-T--AA----------GTTTTCAACAAGCAAG-----AGTTGGACATTAAA----------------------------------------AAAA---------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 --------34226635-3--66----------5766336246246334-----52273222114766----------------------------------------6668---------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 I 1806 I 438
+s eriEur1.scaffold_373760 3857 45 + 53723 ----------ACTTGGAG--AA----------ATCCTTAG----TAGA-CAAGAGCTGAGCAC--ATCTTT--------G-------------------------AA-------------------------------------------------------
+q eriEur1.scaffold_373760 ----------99848989--99----------66998999----9999-99999999999999--899997--------9-------------------------96-------------------------------------------------------
+i eriEur1.scaffold_373760 C 0 I 170
+s canFam2.chr1 78211941 47 - 125616256 --------GTGAATTGAG--AA----------ATTTTTAA----CAGG-TTGGAGTTGAACAC--GTTTTT--------A-------------------------AA-------------------------------------------------------
+q canFam2.chr1 --------9999999999--99----------99999999----9999-99999999999999--999999--------9-------------------------99-------------------------------------------------------
+i canFam2.chr1 C 0 I 123
+s equCab1.chr31 13006276 48 + 24938454 --------GCATTTTGAG--AA----------ATTTTCAA----CAGG-TGAGAGTCAAACACA-ATTTTT--------T-------------------------AA-------------------------------------------------------
+q equCab1.chr31 --------9999999999--99----------99999999----9999-999999999999999-999999--------9-------------------------99-------------------------------------------------------
+i equCab1.chr31 C 0 I 18
+s bosTau3.chr9 13662868 47 - 95030419 --------GTATTTTGAG--AA----------ATTTTCAA----CAGG-TGAGAGTTGAACAC--ATTAAA--------A-------------------------AA-------------------------------------------------------
+q bosTau3.chr9 --------9999999999--99----------99999999----9999-99999999999999--999999--------9-------------------------99-------------------------------------------------------
+i bosTau3.chr9 C 0 I 745
+s dasNov1.scaffold_15233 51714 47 + 62638 --------GTATTTTAGA--GA--------ATTTTTTTAA----GAGG-TAAGGTTTGAACAC--ATTTTT--------A----------------------------------------------------------------------------------
+q dasNov1.scaffold_15233 --------9999999999--99--------9999999999----9999-99999999999999--999999--------9----------------------------------------------------------------------------------
+i dasNov1.scaffold_15233 C 0 I 139
+s loxAfr1.scaffold_220099 221 71 - 1126 --------GTATTTTGAG--AA----------CTTTTCAT----CAGGTTGAGTTTTGA--AC--ATTCTT--------A---ACACTTAATGTATCACTTGTAA--------------------------------CAGGA--------------------
+q loxAfr1.scaffold_220099 --------2577722433--22----------37486579----965322321317212--15--366284--------3---5944647757359735559779--------------------------------96997--------------------
+i loxAfr1.scaffold_220099 C 0 I 310
+s echTel1.scaffold_175172 4268 55 - 13804 --------GTATTTTGGG--GG----------CTTTTCAT----CAGG-TGAGACCTGA--AC--CTTTTT--------GAACACAGCAAAT----------------------------------------------------------------------
+q echTel1.scaffold_175172 --------3256886688--85----------56985535----5563-3565654474--57--899995--------5966366667755----------------------------------------------------------------------
+i echTel1.scaffold_175172 C 0 I 286
+s monDom4.chr2 106175723 83 - 541556283 AAAAACGTGCAAATTGTG--GATCTGAATCATACTTTCCT----GAGG---------AAAAAC--CATTTTGTGAAAGGA--------------------------------------------------------------AACATTCCATTTCCTTATTT
+q monDom4.chr2 999999999999999999--99999999999999999999----9999---------999999--999999999999999--------------------------------------------------------------99999999999999999999
+i monDom4.chr2 C 0 I 514
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-943.000000
+s mm9.chr10 3144626 75 + 129993255 atcatgtaagtatactgtagctgtcttcagacacaccagaagagggcatcagatctcattacagatggttgtgag
+s equCab1.chr31 13006342 15 + 24938454 ------------------------------------------------------------ACAGGCGGGCGTGAG
+q equCab1.chr31 ------------------------------------------------------------999999999999999
+i equCab1.chr31 I 18 I 98
+e rn4.chr1 229962276 0 - 267910886 C
+e bosTau3.chr9 13662915 745 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e rheMac2.chr4 108444444 92 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 3902 170 + 53723 I
+e dasNov1.scaffold_15233 51761 139 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78211988 123 - 125616256 I
+e loxAfr1.scaffold_220099 292 310 - 1126 I
+e calJac1.Contig1260 6588 144 - 523245 I
+e tupBel1.scaffold_114895.1-498454 338526 438 - 498454 I
+e echTel1.scaffold_175172 4323 286 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036565 68 - 170899992 I
+e panTro2.chr6 16558867 100 - 173908612 I
+e ponAbe2.chr6 16341811 103 - 174210431 I
+e oryCun1.scaffold_197619 45565 2969 + 79436 I
+
+a score=0.000000
+s mm9.chr10 3144701 80 + 129993255 ccaccatgtggttgctgggatttgaactcaggaccttcggaagaacagtcagtgctcttaaccactgagccatctctcca
+e rn4.chr1 229962276 0 - 267910886 C
+e bosTau3.chr9 13662915 745 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006357 98 + 24938454 I
+e rheMac2.chr4 108444444 92 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 3902 170 + 53723 I
+e dasNov1.scaffold_15233 51761 139 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78211988 123 - 125616256 I
+e loxAfr1.scaffold_220099 292 310 - 1126 I
+e calJac1.Contig1260 6588 144 - 523245 I
+e tupBel1.scaffold_114895.1-498454 338526 438 - 498454 I
+e echTel1.scaffold_175172 4323 286 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036565 68 - 170899992 I
+e panTro2.chr6 16558867 100 - 173908612 I
+e ponAbe2.chr6 16341811 103 - 174210431 I
+e oryCun1.scaffold_197619 45565 2969 + 79436 I
+
+a score=1923.000000
+s mm9.chr10 3144781 49 + 129993255 gccTTGGACACATTTTTATAAACATGTAATGTCTCTCTTAATCA-AGAAG
+s rn4.chr1 229962276 50 - 267910886 GAGTTGAGCACATTTTTATAAACATGTAATATCTCACTTCTCAATAGGCA
+q rn4.chr1 99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13662915 745 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006357 98 + 24938454 I
+e rheMac2.chr4 108444444 92 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 3902 170 + 53723 I
+e dasNov1.scaffold_15233 51761 139 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78211988 123 - 125616256 I
+e loxAfr1.scaffold_220099 292 310 - 1126 I
+e calJac1.Contig1260 6588 144 - 523245 I
+e tupBel1.scaffold_114895.1-498454 338526 438 - 498454 I
+e echTel1.scaffold_175172 4323 286 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036565 68 - 170899992 I
+e panTro2.chr6 16558867 100 - 173908612 I
+e ponAbe2.chr6 16341811 103 - 174210431 I
+e oryCun1.scaffold_197619 45565 2969 + 79436 I
+
+a score=-182.000000
+s mm9.chr10 3144830 30 + 129993255 AGCAAAGCAGAG-TTGAAGGCAAGTTCCCTT
+s rn4.chr1 229962326 31 - 267910886 AGCAGGGAGGGGACTGAAAGCAAGTTCCCTT
+q rn4.chr1 9999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16036633 30 - 170899992 AATAAAATAACC-TGGAAGCCTTAACCCCTT
+i hg18.chr6 I 68 I 2
+s rheMac2.chr4 108444536 6 + 167655696 -------------------------TCCCTT
+q rheMac2.chr4 -------------------------999999
+i rheMac2.chr4 I 92 I 2
+e bosTau3.chr9 13662915 745 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006357 98 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 3902 170 + 53723 I
+e dasNov1.scaffold_15233 51761 139 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78211988 123 - 125616256 I
+e loxAfr1.scaffold_220099 292 310 - 1126 I
+e calJac1.Contig1260 6588 144 - 523245 I
+e tupBel1.scaffold_114895.1-498454 338526 438 - 498454 I
+e echTel1.scaffold_175172 4323 286 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e panTro2.chr6 16558867 100 - 173908612 I
+e ponAbe2.chr6 16341811 103 - 174210431 I
+e oryCun1.scaffold_197619 45565 2969 + 79436 I
+
+a score=8227.000000
+s mm9.chr10 3144860 35 + 129993255 TGAGACCTAGTTTCTGGTCTT---------------C-----TCGAGAAGACCGG
+s rn4.chr1 229962357 40 - 267910886 TTAGACCCAGTTCTTGGTCGC---------------CTTGAGTTGAGAAGACCGG
+q rn4.chr1 999999999999999999999---------------9999999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108444544 36 + 167655696 TCACACCCAGCTGTGAGTCCC---------------CC----GAAAGGAGCCAGT
+q rheMac2.chr4 999999999999999999999---------------99----9999999999999
+i rheMac2.chr4 I 2 C 0
+s hg18.chr6 16036665 36 - 170899992 TCACACCCAGCTGTGAGTCCC---------------CC----AAAAGGAGACAGT
+i hg18.chr6 I 2 C 0
+s panTro2.chr6 16558967 36 - 173908612 TCACACCCAGCTGTGAGTCCC---------------CC----AAAAGGAGACAGT
+q panTro2.chr6 999999999999999999999---------------99----9999999999999
+i panTro2.chr6 I 100 C 0
+s dasNov1.scaffold_15233 51900 14 + 62638 ---------------------------------TCCAC----TGAAGGAGA----
+q dasNov1.scaffold_15233 ---------------------------------99999----999999999----
+i dasNov1.scaffold_15233 I 139 C 0
+s loxAfr1.scaffold_220099 602 37 - 1126 ----ACCCAGCTTCTGTCCCC----------CACCTTT----CTGAGGATAATAT
+q loxAfr1.scaffold_220099 ----99999999999999999----------9999999----9999999999999
+i loxAfr1.scaffold_220099 I 310 C 0
+s echTel1.scaffold_175172 4609 47 - 13804 ----ACTCAGCTTCTACCCCCACCCTGCTGTCAGCTTT----TTAAGGAGAACAT
+q echTel1.scaffold_175172 ----9687683994947999999947999999999999----9999777899869
+i echTel1.scaffold_175172 I 286 C 0
+s ponAbe2.chr6 16341914 32 - 174210431 ----ACCCAGCTGTGAGTCCC---------------CC----AAAAGGAGACAGT
+i ponAbe2.chr6 I 103 C 0
+e bosTau3.chr9 13662915 745 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006357 98 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 3902 170 + 53723 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78211988 123 - 125616256 I
+e calJac1.Contig1260 6588 144 - 523245 I
+e tupBel1.scaffold_114895.1-498454 338526 438 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 45565 2969 + 79436 I
+
+a score=163094.000000
+s mm9.chr10 3144895 56 + 129993255 CAGGCATACTCGCTTGATGGA-AA--ACCCCT-------GTGTTATCTATCCGAAAGGAGGCAA-----TA
+s rn4.chr1 229962397 49 - 267910886 C------ACTCTCCTGATGGA-AA--ACCCCT-------GTGTTATCTAT-CGAAAGGAGGCAA-----TA
+q rn4.chr1 9------99999999999999-99--999999-------99999999999-9999999999999-----99
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108444580 59 + 167655696 CTGTCAG-TTCCATCAGAGGA-AA--ACCCCT-----ACGTGCTTTCTATCAGAAA--AGGCGGCG-ATTA
+q rheMac2.chr4 9999999-9999999999999-99--999999-----9999999999999999999--99999999-9999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16341946 59 - 174210431 CTGTCAG-CTCCATCAGAGGA-AA--ACCCCT-----ACGTGCTTTCTATCAGAAA--AGGCGGCG-ATTA
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16036701 59 - 170899992 CTGTCAG-CTCCATCAGAGGA-AA--ACCCCT-----ACGTGCTTTCTATCAGAAA--AGGCGGCG-ATTA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16559003 59 - 173908612 CTGTCAG-CTCCATCAGAGGA-AA--ACCCCT-----ACGTGCTTTCTATCAGAAA--AGGCGGCG-ATTA
+q panTro2.chr6 9999999-9999999999999-99--999999-----9999999999999999999--99999999-9999
+i panTro2.chr6 C 0 C 0
+s canFam2.chr1 78212111 60 - 125616256 CTGTCAG-CCCTTTTAGAGGAGAA--ACCCCT-----ACGTGTTATCTATCAGAAA--AGGCAGTG-ATTA
+q canFam2.chr1 9999999-9999999999999999--999999-----9999999999999999999--99999988-9999
+i canFam2.chr1 I 123 C 0
+s equCab1.chr31 13006455 52 + 24938454 --------CCCTCTTGGAGGA-AA--CCCCCT-----ACGTGTTATCTGTCAGAAA--AGGCGGCG-ATTA
+q equCab1.chr31 --------9999999999999-99--999999-----9999999999999999999--99999999-9999
+i equCab1.chr31 I 98 C 0
+s bosTau3.chr9 13663660 44 - 95030419 ------------------GGA-AACCCCCCCT-----ATGTGTCATCAGTCAGAAA--AGGCGGTG-AGCA
+q bosTau3.chr9 ------------------999-9999999999-----9999999999999999999--99999999-9999
+i bosTau3.chr9 I 745 C 0
+s oryCun1.scaffold_214769 41533 41 - 139458 -------------------GG-AA--ACCCCT-----ACGTGTTATCTGTCAGAAA--AGGCTGTG-CTTA
+q oryCun1.scaffold_214769 -------------------67-69--889949-----8783699698379856999--36573548-8999
+i oryCun1.scaffold_214769 n 2969 C 0
+s tupBel1.scaffold_114895.1-498454 338964 42 - 498454 ------------------GGA-AA--ACCCCT-----ATGTGCTATCTATCAGAAA--AGGTAGCG-ATTA
+q tupBel1.scaffold_114895.1-498454 ------------------999-99--999999-----9999999999999999999--99999999-9999
+i tupBel1.scaffold_114895.1-498454 I 438 C 0
+s calJac1.Contig1260 6732 52 - 523245 --------CTCCATCACAGGA-AA--ATCCCT-----ATATGCTTTCTATCAGAAA--AGGTGGCG-ATTA
+i calJac1.Contig1260 I 144 C 0
+s echTel1.scaffold_175172 4656 65 - 13804 CTGTCAG-CCCTGTTTGAGGA-CC--CCCCCCCCCTCACGTGTCATCTATCAGAGA--AAGCAAGGCCACA
+q echTel1.scaffold_175172 9969999-9999999776999-99--999999999999999999999999999999--9999999999999
+i echTel1.scaffold_175172 C 0 C 0
+s loxAfr1.scaffold_220099 639 61 - 1126 CTGCCAG-CCCCATTAGAGGA-AA--ACCCCC----TACGTGTTATCTAACAGAAA--AGGCAGGGAATTA
+q loxAfr1.scaffold_220099 9999999-9999999999999-99--999999----99999999999999999999--9999999999999
+i loxAfr1.scaffold_220099 C 0 C 0
+s dasNov1.scaffold_15233 51914 46 + 62638 CTGTCAG-CCCTGGTAGAGGA-AA--CCCTTA------------------TGGAGA--GGGTGGTG-ATCA
+q dasNov1.scaffold_15233 9999999-9999999999999-99--999999------------------999999--99999999-9999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106175806 514 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 3902 170 + 53723 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=696969.000000
+s mm9.chr10 3144951 110 + 129993255 TGGCCACCCGAGTCACGCTGTCCTGAGGAAAGGATTGCAGTGTAAGGAAGCAATCTATTTCC-TGTTTTAAGGAGTTTGCAG-TACAGGGAAAGTTGATGG-TTTC-----------AGGTTGG
+s rn4.chr1 229962446 111 - 267910886 TGGTCACCTGAGTCATGTTTTCCTGAGGAAAGGGTTGCAGTGAAAGGAAGCAATCTATTTCC-TGTTTTAAGGGGTTTGCCG-TACAGGGAAAGTTAATGCTTTTC-----------AGGTTGG
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999-9999999999999999999-99999999999999999999999-----------9999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 6784 109 - 523245 TGATAATCTGAATCATGCTTTCCTGAGGAAAACCTTTTAGTGAAAGGAAGTATTCTATTTCC-TATTTTCAGAGATTTGCAG-AGAGGGGAAATTCAGGGC--TTT-----------GGGTTTG
+i calJac1.Contig1260 C 0 I 8
+s rheMac2.chr4 108444639 91 + 167655696 TGATAATCTGAATCATGCTTTCCCGAGGATAACCTTTTAGTGAAAGGAAGCATTCTATTTCC-TATTTTCAGAGATTTGCAG-AGAGGGGAAA-------------------------------
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999-9999999999999999999-9999999999-------------------------------
+i rheMac2.chr4 C 0 I 27
+s ponAbe2.chr6 16342005 109 - 174210431 TGATAATCTGAATCATGCTTTCCTGAGGATAACCTTTTAGTGAAAGGAAGCATTCTATTTCC-TATTTTCAGAGATTTGCGG-AGAGGGGAAATTCAGTGC--TTT-----------GGGTTTG
+i ponAbe2.chr6 C 0 I 10
+s hg18.chr6 16036760 109 - 170899992 TGATAATCTGAATCATGCTTTCCTGAGGATAACCTTTTAGTGAAAGGAAGCATTCTATTTCC-TATTTTCAGAGATTTGTGG-AAAGGGGAAATTCAGTGC--TTT-----------GGGATTG
+i hg18.chr6 C 0 I 9
+s panTro2.chr6 16559062 109 - 173908612 TGATAATCTGAATCATGCTTTCCTGAGGATAACCTTTTAGTGAAAGGAAGCATTCTATTTCC-TATTTTCAGAGATTTGCGG-AGAGGGGAAATTCAGTGC--TTT-----------GGGACTG
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999-9999999999999999999-999999999999999999--999-----------9999999
+i panTro2.chr6 C 0 I 9
+s tupBel1.scaffold_114895.1-498454 339006 108 - 498454 TGATAATCTGAATCATGCTTTCCTGAGGAAAACCTTTTAGTGAAAAGAAACTTTCTATTTCC-TATTTTCAGAGATTTGCAG-AAA-GGGAAACTCAGTGT--TTT-----------GGGTTTC
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999999999999999997-9999999999999999999-999-99999999999999--999-----------9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s oryCun1.scaffold_214769 41574 108 - 139458 TGGTCCTCTGAATCACGCTCTCCTGAGGAAAACCTTGTAGGGGAAGGAAGCGTTCTATTTCC-TATTTTCAGAGACCTGCAG--AGAGAGAAGTTCTATGC--TTC-----------GGCCTTG
+q oryCun1.scaffold_214769 37699596569789878998995466467996999389797789467668858999999999-9999999895569747988--89787765599999787--998-----------8899959
+i oryCun1.scaffold_214769 C 0 C 0
+s eriEur1.scaffold_373760 4072 110 + 53723 TGATCGTCTGATTCATGTTTTCCTCAGGAAAGCCTTTTAGTGAAAGGAAACGTCCTACTTCC-TATTTTCAGAGATTTGCAACAGAGGGGACATTCAGTGC--TTT-----------TGGgtat
+q eriEur1.scaffold_373760 99999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999--999-----------9999999
+i eriEur1.scaffold_373760 I 170 I 5
+s equCab1.chr31 13006507 96 + 24938454 TGATAATCTGCATCATGCTTTCCTCAGGAAAGCCTTTTAGTGAAAGGAAACATTCTATTTCC-TATTTTCAGAGATTTGTAGCAGAGGGGAAATTCA---------------------------
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999---------------------------
+i equCab1.chr31 C 0 I 3
+s canFam2.chr1 78212171 110 - 125616256 TGATAATCTGAATCATGCTTTCCTGAGGAAAACCTTTTAGTGAAAGGAAACATTCTATTTCC-TATTTTCAGAGATTTGAAGCCAAGGGGAAATTCATTGC--TTT-----------TGGATTT
+q canFam2.chr1 99998999999999999999999888888899999999999999999999999899999999-99999999988888878887888899999999999999--999-----------9999999
+i canFam2.chr1 C 0 I 3
+s bosTau3.chr9 13663704 110 - 95030419 TGACCATATGAATCATGCCTTCCTGAGGAAGACCTTTTAGTGAAAGGAAATATTCTATTTCC-TATTTTCAGAGATTTGCAGCAGAGGGGAAATTCAGAAG--TTT-----------GGGGTTT
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999--999-----------9999999
+i bosTau3.chr9 C 0 I 5
+s echTel1.scaffold_175172 4721 122 - 13804 TGGTAACCTGAGTCATGCTTTCCTGAGGAAAATCTCCGAGTGAAAGGAAACGTTGCATTTCCTTATTTTCAGAGGTTTGCAGCCCAGGGGAAGTTGGGTGG--CTTGCACTGGGTGGTGGTTGG
+q echTel1.scaffold_175172 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999
+i echTel1.scaffold_175172 C 0 C 0
+s loxAfr1.scaffold_220099 700 110 - 1126 TGATAATCTGAATCATGCTTTCCTGAGGAAAACCTTTTGGTGAAAGGAAACATTCCATTTCCGTATTTTCAGAGATTTGCGG-TGAGGGGAAATTCAATGC--TTT-----------TGGTTTG
+q loxAfr1.scaffold_220099 9999999999999999999999999999999999999999799999999999999999999999999999999999999999-999999999999999999--999-----------9999999
+i loxAfr1.scaffold_220099 C 0 C 0
+s dasNov1.scaffold_15233 51960 116 + 62638 CGATCATCTGAATCATGTTTTTCTGAGAAAAACCTTCTACTGAAAGGAAACATCCCATTTCCTTATTTTTAGAGATTTGCAGCAGAGGGGAAATTCAGTGC--TTTTTTTT------TTTTTTT
+q dasNov1.scaffold_15233 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999------9999999
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106175806 514 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-21134.000000
+s mm9.chr10 3145061 13 + 129993255 TGTGTGTGTGTG----------------------------------------T
+s rn4.chr1 229962557 53 - 267910886 CgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtTT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 41682 20 - 139458 GGAGTGGATGTGCGTGTGCT---------------------------------
+q oryCun1.scaffold_214769 89994989697879798899---------------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16342124 16 - 174210431 TGTGTGTGCGTGTCTG-------------------------------------
+i ponAbe2.chr6 I 10 C 0
+s calJac1.Contig1260 6901 16 - 523245 TGTGTGCGTGTATCTG-------------------------------------
+i calJac1.Contig1260 I 8 C 0
+s tupBel1.scaffold_114895.1-498454 339114 16 - 498454 AGAGTGTGTGTGTATA-------------------------------------
+q tupBel1.scaffold_114895.1-498454 9999996999798999-------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_373760 4187 12 + 53723 tgtgtgtgtgtg-----------------------------------------
+q eriEur1.scaffold_373760 999999999999-----------------------------------------
+i eriEur1.scaffold_373760 I 5 I 52
+s canFam2.chr1 78212284 10 - 125616256 ----tgtgtgtgtg---------------------------------------
+q canFam2.chr1 ----9999999999---------------------------------------
+i canFam2.chr1 I 3 I 1
+s bosTau3.chr9 13663819 16 - 95030419 TGGATGTGTGTGTACG-------------------------------------
+q bosTau3.chr9 9999999999999999-------------------------------------
+i bosTau3.chr9 I 5 I 14
+s echTel1.scaffold_175172 4843 13 - 13804 TGGGGATGTGGGG----------------------------------------
+q echTel1.scaffold_175172 9999999999999----------------------------------------
+i echTel1.scaffold_175172 C 0 C 0
+s loxAfr1.scaffold_220099 810 7 - 1126 -GGAGCCG---------------------------------------------
+q loxAfr1.scaffold_220099 -9999999---------------------------------------------
+i loxAfr1.scaffold_220099 C 0 C 0
+s dasNov1.scaffold_15233 52076 13 + 62638 TGGAAACGAATGG----------------------------------------
+q dasNov1.scaffold_15233 9999999999999----------------------------------------
+i dasNov1.scaffold_15233 C 0 C 0
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006603 3 + 24938454 I
+e rheMac2.chr4 108444730 27 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036869 9 - 170899992 I
+e panTro2.chr6 16559171 9 - 173908612 I
+
+a score=-9017.000000
+s mm9.chr10 3145074 62 + 129993255 CCAACTGAGAG----CTTGTGCTTCCAACTTAAA-----TATATAAT-AATTGAACAATCTTGAATTTTCTC
+s rn4.chr1 229962610 66 - 267910886 CCAACTGAGAGAGAATGTGTACTTCCAACTTAAG-----TATGTAAT-AATTGAACAATCTTGCGTTTTCTC
+q rn4.chr1 9999999999999999999999999999999999-----99999999-999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 41702 47 - 139458 ---------------TTGGTGTTTCCAGCTTGAGTCAGATATGTGTC-CGCTGCACAATCGTG---------
+q oryCun1.scaffold_214769 ---------------96896889999999767999999999898999-999899999999999---------
+i oryCun1.scaffold_214769 C 0 I 92
+s ponAbe2.chr6 16342140 54 - 174210431 ---------------TGTGTGTTTCTAATTTTACTTACATATGCATT-AATTGAACAATTTTGCATGTTC--
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 6917 54 - 523245 ---------------TGTGTGTTTCTAATTTACTTTACATATGCATTAAATTGAACAATTCTGCATGTT---
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 339130 56 - 498454 ---------------TCTGTGTTTCTCCCTTTACTAAAATACCCATT-AATTAAACAATCTTGCATGTTCTC
+q tupBel1.scaffold_114895.1-498454 ---------------99999759887577698978999999989798-997969979996699779949999
+i tupBel1.scaffold_114895.1-498454 C 0 I 92
+s equCab1.chr31 13006606 11 + 24938454 CT-------------TTTGGGTTT------------------------------------------------
+q equCab1.chr31 99-------------999999999------------------------------------------------
+i equCab1.chr31 I 3 C 0
+s bosTau3.chr9 13663849 53 - 95030419 TT-------------TATGTGTTTCTAACTTTAA-----CCTATGTT-AATTGAACAGACTTTTGTGTTCTC
+q bosTau3.chr9 99-------------9999999999999999999-----99999999-999999999999999999999999
+i bosTau3.chr9 I 14 I 94
+s echTel1.scaffold_175172 4856 22 - 13804 -----TGTGTG----TGTGTGTCTCCAGCCT-----------------------------------------
+q echTel1.scaffold_175172 -----999999----9999999999999999-----------------------------------------
+i echTel1.scaffold_175172 C 0 I 109
+s loxAfr1.scaffold_220099 817 45 - 1126 ----------------GTGTGTTTCCCGCCTTACTCAAACATGCCTT-AATTGAACAGTCTT----------
+q loxAfr1.scaffold_220099 ----------------9999999999999999999999999999999-99999999999999----------
+i loxAfr1.scaffold_220099 C 0 I 99
+s dasNov1.scaffold_15233 52089 58 + 62638 -----TGTGTT----TCTGTGTTTCCAATCTTACCTAAATATTCACT-ATTTTAAATCTT--TCATGTTC--
+q dasNov1.scaffold_15233 -----999999----99999999999999999978599999999999-999999999999--99999999--
+i dasNov1.scaffold_15233 C 0 I 5572
+e monDom4.chr2 106175806 514 - 541556283 I
+e rheMac2.chr4 108444730 27 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 4199 52 + 53723 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78212294 1 - 125616256 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036869 9 - 170899992 I
+e panTro2.chr6 16559171 9 - 173908612 I
+
+a score=1883.000000
+s mm9.chr10 3145136 68 + 129993255 TTGTGTGTGTGGGAGGAGGGACACGGGTTtgtatgtgtgcatgtgtttgtgcatcagcacttttctga
+s rn4.chr1 229962676 66 - 267910886 CGATGTGTTTGG--GGAGGAGCATGGGTTTGTATGTGTGCATGTGTTTATGCTTTACTGAGTGAGTGA
+q rn4.chr1 999999999999--999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13006617 27 + 24938454 -------------AGGAG-----------TGGAtgtgtgtgtgtgtgtgtg-----------------
+q equCab1.chr31 -------------99999-----------9999999999999999999999-----------------
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13663902 94 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e rheMac2.chr4 108444730 27 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 4199 52 + 53723 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78212294 1 - 125616256 I
+e loxAfr1.scaffold_220099 862 99 - 1126 I
+e calJac1.Contig1260 6971 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 339186 92 - 498454 I
+e echTel1.scaffold_175172 4878 109 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036869 9 - 170899992 I
+e panTro2.chr6 16559171 9 - 173908612 I
+e ponAbe2.chr6 16342194 0 - 174210431 C
+e oryCun1.scaffold_214769 41749 92 - 139458 I
+
+a score=48755.000000
+s mm9.chr10 3145204 39 + 129993255 gtgtgtgtgtgtgagtgtgtgtgtgtgtgtatgtttgtg
+s rn4.chr1 229962742 39 - 267910886 GTGTGAGTGCATGCGTGCAtgtgtgcgtgtgtctgtgtg
+q rn4.chr1 999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16036878 39 - 170899992 gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtTTCTAAT
+i hg18.chr6 I 9 I 43
+s panTro2.chr6 16559180 39 - 173908612 gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtTTCTAAC
+q panTro2.chr6 999999999999999999999999999999999999999
+i panTro2.chr6 I 9 I 43
+s rheMac2.chr4 108444757 39 + 167655696 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTCTAAT
+q rheMac2.chr4 999999999999999999999999999999999999999
+i rheMac2.chr4 I 27 I 44
+s canFam2.chr1 78212295 37 - 125616256 gtgtgtgtttgtgtgtgtgtgtgtgtgtgtATTTCCA--
+q canFam2.chr1 9999999999999999999999999999999999999--
+i canFam2.chr1 I 1 I 131
+s equCab1.chr31 13006644 38 + 24938454 -tgtgtgtgtgtgtgtgtgtgtgtgCATGCATGCATGCG
+q equCab1.chr31 -99999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 165
+e bosTau3.chr9 13663902 94 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 4199 52 + 53723 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e loxAfr1.scaffold_220099 862 99 - 1126 I
+e calJac1.Contig1260 6971 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 339186 92 - 498454 I
+e echTel1.scaffold_175172 4878 109 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342194 0 - 174210431 C
+e oryCun1.scaffold_214769 41749 92 - 139458 I
+
+a score=5254.000000
+s mm9.chr10 3145243 246 + 129993255 taggccagaagataatggcaggtgatgtgcctcacatttatccaccttgctgtttatttatttacttacttacttacttatctacctacctacctacctacctacctacctacctgtctatttgctggtctctcactgagacctggggtttggcagttaggccctgttggctggccagggaacctgtgggcctgcctgtctgctcactgctggaattacaaagggatctcaccatgcctggccgat
+s rn4.chr1 229962781 139 - 267910886 taggtcagatgataatggcaggcactgctcctcacat----------------------------------------ttatctacctacctacc-------------------------------------------------------------------gcccgcctgcccgccaggggatctgtggtcctgcctgtctgcttgctgctgcagctacaaggggatctcaccgtgcctggctgtt
+q rn4.chr1 9999999999999999999999999999999999999----------------------------------------99999999999999999-------------------------------------------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13663902 94 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006682 165 + 24938454 I
+e rheMac2.chr4 108444796 44 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_373760 4199 52 + 53723 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78212332 131 - 125616256 I
+e loxAfr1.scaffold_220099 862 99 - 1126 I
+e calJac1.Contig1260 6971 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 339186 92 - 498454 I
+e echTel1.scaffold_175172 4878 109 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036917 43 - 170899992 I
+e panTro2.chr6 16559219 43 - 173908612 I
+e ponAbe2.chr6 16342194 0 - 174210431 C
+e oryCun1.scaffold_214769 41749 92 - 139458 I
+
+a score=1884.000000
+s mm9.chr10 3145489 57 + 129993255 tctgtttttactgtaggctgcaggtccttctgtct-------------------gact-gagccatttccctggccc
+s rn4.chr1 229962920 76 - 267910886 tgtgtttttactgtaggttgcaggtccttacgcttgtgaggggagcactttacagact-gagccatcacctgagctc
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999-999999999999999999
+i rn4.chr1 C 0 C 0
+s eriEur1.scaffold_373760 4251 46 + 53723 TCTGGTTTCACTGCA-----CAGTCCATGGTGTCT-------------------CACTGGAGTGATTTTC-------
+q eriEur1.scaffold_373760 999999999999999-----999999999999999-------------------9999999999999999-------
+i eriEur1.scaffold_373760 I 52 C 0
+e bosTau3.chr9 13663902 94 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006682 165 + 24938454 I
+e rheMac2.chr4 108444796 44 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78212332 131 - 125616256 I
+e loxAfr1.scaffold_220099 862 99 - 1126 I
+e calJac1.Contig1260 6971 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 339186 92 - 498454 I
+e echTel1.scaffold_175172 4878 109 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16036917 43 - 170899992 I
+e panTro2.chr6 16559219 43 - 173908612 I
+e ponAbe2.chr6 16342194 0 - 174210431 C
+e oryCun1.scaffold_214769 41749 92 - 139458 I
+
+a score=52676.000000
+s mm9.chr10 3145546 57 + 129993255 cTCTAGGTAGTTTCAGATCCCA--GTCAACAGGAGAGTCTAG--AGCATGCCTGTGGGAGC
+s rn4.chr1 229962996 58 - 267910886 cTC-AGGTAATTTCAGATCACAGTGTCAACAGGAGAGTCTGG--AGCACGCCTGTGGGAGC
+q rn4.chr1 999-99999999999999999999999999999999999999--99999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16036960 57 - 170899992 ----CAGTAATTTTATATTACATTGTCTTCAGGAGAATCAAGTCAAAATACTAGTTGGAAT
+i hg18.chr6 I 43 C 0
+s panTro2.chr6 16559262 57 - 173908612 ----CAGTAATTTTATATTACATTGTCTTCAGGAGAATCAAGTCAAAATACTAGTTGGAAT
+q panTro2.chr6 ----999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 43 C 0
+s ponAbe2.chr6 16342194 60 - 174210431 -TCGCAGTAATTTTATATTACATTGTCTTCAGGAGAATCAAGTCAAAGTACTAGTTGGAAT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108444840 56 + 167655696 -----AGTAATTTTACATTACAATGTCTTCAGGAGAATCAAGTCAAAATACTAGTTGGAAT
+q rheMac2.chr4 -----99999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 44 C 0
+s calJac1.Contig1260 6971 61 - 523245 CTCACAGTACTTTTATATTACAGTGTCTTCAGGAGAATCACGTCAAAATACTAGTTGGAAT
+i calJac1.Contig1260 C 0 C 0
+s eriEur1.scaffold_373760 4297 45 + 53723 -------TATCATGACCTAGCA-------CAAGACAGGCTGG--AGTTTGGTCTTTGAAGC
+q eriEur1.scaffold_373760 -------999999999999999-------9999744899599--99996999994559999
+i eriEur1.scaffold_373760 C 0 C 0
+e bosTau3.chr9 13663902 94 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006682 165 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78212332 131 - 125616256 I
+e loxAfr1.scaffold_220099 862 99 - 1126 I
+e tupBel1.scaffold_114895.1-498454 339186 92 - 498454 I
+e echTel1.scaffold_175172 4878 109 - 13804 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_214769 41749 92 - 139458 I
+
+a score=-9956.000000
+s mm9.chr10 3145603 27 + 129993255 GTAGCCT-GTGGT---GAGGGGCTTGAAC---AT
+s eriEur1.scaffold_373760 4342 19 + 53723 ---------------AGAGGGAGGCTGGCTGACT
+q eriEur1.scaffold_373760 ---------------9998999989338835775
+i eriEur1.scaffold_373760 C 0 C 0
+s calJac1.Contig1260 7032 28 - 523245 ATGATCT-TTGAAATAGAGGAAAACTAGC-----
+i calJac1.Contig1260 C 0 I 5
+s rheMac2.chr4 108444896 28 + 167655696 ATGATCT-TTGAAATAGAGGAAAACTAGC-----
+q rheMac2.chr4 9999999-999999999999999999999-----
+i rheMac2.chr4 C 0 I 5
+s ponAbe2.chr6 16342254 28 - 174210431 ATGATCT-TTGAAATAGAGGAAAACTAGC-----
+i ponAbe2.chr6 C 0 I 5
+s panTro2.chr6 16559319 28 - 173908612 ATGATCT-TTGAAATGGAGGAAAACTAGC-----
+q panTro2.chr6 9999999-999999999999999999999-----
+i panTro2.chr6 C 0 I 5
+s hg18.chr6 16037017 28 - 170899992 ATGATCT-TTGAAATAGAGGAAAACTAGC-----
+i hg18.chr6 C 0 I 5
+s oryCun1.scaffold_214769 41841 25 - 139458 GTAGCTCAGTGTG---GAGGG---TGGAC---CT
+q oryCun1.scaffold_214769 9999999999999---99999---99999---99
+i oryCun1.scaffold_214769 I 92 C 0
+s rn4.chr1 229963054 30 - 267910886 ATGATGT-ATGTGGCAGAGGAGTTTGAGC---AG
+q rn4.chr1 9999999-999999999999999999999---99
+i rn4.chr1 C 0 C 0
+s echTel1.scaffold_175172 4987 3 - 13804 -----------------------------CAG--
+q echTel1.scaffold_175172 -----------------------------999--
+i echTel1.scaffold_175172 I 109 C 0
+e bosTau3.chr9 13663902 94 - 95030419 I
+e monDom4.chr2 106175806 514 - 541556283 I
+e equCab1.chr31 13006682 165 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 73522 640 - 219823 I
+e canFam2.chr1 78212332 131 - 125616256 I
+e loxAfr1.scaffold_220099 862 99 - 1126 I
+e tupBel1.scaffold_114895.1-498454 339186 92 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=328830.000000
+s mm9.chr10 3145630 74 + 129993255 GA---GTGGGA-GGGCCTGGCTCCC---CAGCGCATGTTGGAGCTGTCAGCACCATC-TTAACATGGGTTCTGACAGGTGCC
+s loxAfr1.scaffold_220099 961 73 - 1126 -------TGGG-TGGACCAGACTTGGTGTGACGCCTGTTTAAGTTGTCAGCACCGTC-TTAGCATGGGTTCCGACTGGAGCC
+q loxAfr1.scaffold_220099 -------9999-999999999999999999999999999999999999999999999-999999999999999996999999
+i loxAfr1.scaffold_220099 I 99 C 0
+s echTel1.scaffold_175172 4990 74 - 13804 ---GTGTCGGG-TGGCCCAGCCT---TCTTATGCCCTGTTAAATTACCAGCATCGTC-TTAGTGTGGCTTTCGACTGACGTC
+q echTel1.scaffold_175172 ---99999999-99999999999---9999999999999999999999999999999-999999999999999999999999
+i echTel1.scaffold_175172 C 0 C 0
+s canFam2.chr1 78212463 72 - 125616256 ---------GAGTGGACCAGACTTCATATAATACTTTTTGAAGATGTGAGCATCTTC-TTAACATGGGTTCCAGGTGGAGTC
+q canFam2.chr1 ---------999999999999999999999999999999999999999999999999-999999999999999999999999
+i canFam2.chr1 I 131 C 0
+s equCab1.chr31 13006847 53 + 24938454 ----------------------------TAACACCTGCTGGTGTTGTCAGCACTGTC-TTAACAGGGATTCCAACTGGAGTC
+q equCab1.chr31 ----------------------------99999999999999999999999999999-999999999999999999999999
+i equCab1.chr31 I 165 C 0
+s bosTau3.chr9 13663996 72 - 95030419 ---GAGT-----GGGACCAGACGTCACGAAGCGT-CATTGATATCGTCAGCACCATC-TTAGCATGGATTTCAACTGGAGTC
+q bosTau3.chr9 ---9999-----9999999999999999999999-9999999999999999999999-999999999999999999999999
+i bosTau3.chr9 I 94 C 0
+s eriEur1.scaffold_373760 4361 78 + 53723 ---GTGTAGCTAGGCCTCGGACCTTTCCGGACACTTGTTGACGTTGTCAGCACAGTC-TTAGCACGGATAACAACTGGAGCC
+q eriEur1.scaffold_373760 ---465552244252464362332526552222112353411244466451122521-222465455364276373765554
+i eriEur1.scaffold_373760 C 0 N 0
+s tupBel1.scaffold_114895.1-498454 339278 77 - 498454 ---GTGTAGGA-TGGACCAGGCTTCATGTAACACCTGTTAAAGTTGTCAGCACCATC-TTAACACAGATTCCGACAGGAGCC
+q tupBel1.scaffold_114895.1-498454 ---64535565-396547697599769999969999998999534655555325399-999997999999999997963549
+i tupBel1.scaffold_114895.1-498454 I 92 C 0
+s hg18.chr6 16037050 77 - 170899992 ---ATGTAGGG-TGGATCAGACTTCATGTAACACCTGTTAAAGTTGTCAGCACCATC-TTAACAGAGATACCAACTGGAGTC
+i hg18.chr6 I 5 C 0
+s panTro2.chr6 16559352 77 - 173908612 ---ATGTAGGG-TGGATCAGACTTCATGTAACACCTGTTAAAGTTGTCAGCACCATC-TTAACAGAGATTCCAACTGGAGTC
+q panTro2.chr6 ---99999999-999999999999999999999999999999999999999999999-999999999999999999999999
+i panTro2.chr6 I 5 C 0
+s ponAbe2.chr6 16342287 77 - 174210431 ---ATGTAGGG-TGGATCAGACTTCATGTAACACCTGTTAAAGTTGTCAGCACCATC-TTAACAGAGATTCCAACTGGAGTC
+i ponAbe2.chr6 I 5 C 0
+s rheMac2.chr4 108444929 77 + 167655696 ---ATGTAGGG-TGGATCAGACTTCATGTAACACCTGTTAAAGTTGTCAGCACCATC-TTAACAGGGATTCCAACTGGAGTC
+q rheMac2.chr4 ---99999999-999999999999999999999999999999999999999999999-999999999999999999999999
+i rheMac2.chr4 I 5 C 0
+s calJac1.Contig1260 7065 77 - 523245 ---ATGTAGGG-TGGATCAGACTTCATGTAGCACCTGTTAACATTGTCAGCACCATC-TTAACAGGGATTCCAGCTGGAGTC
+i calJac1.Contig1260 I 5 C 0
+s oryCun1.scaffold_214769 41866 61 - 139458 GA---CTTGGA-G---------------TAACACCTGTTAAAGTTGTCAGCACCGTC-TTAGCATGCATTCCGACA-GCGTC
+q oryCun1.scaffold_214769 99---999999-9---------------99999999999999999999999999999-999999999999999999-99999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 229963084 77 - 267910886 GGAGTGTTGGG-AGAACCTGCTCCC---CAGCACTCGCTGGAGCTGTCAGCACCATC-TTGACATGGATTCCGACAGGAGCC
+q rn4.chr1 99999999999-9999999999999---99999999999999999999999999999-999999999999999999999999
+i rn4.chr1 C 0 C 0
+s monDom4.chr2 106176320 53 - 541556283 -----------------------------AACACCTGTTAAAGTTGTCAGCACCATCTTTAACATAGATCCCAACTGGAGTC
+q monDom4.chr2 -----------------------------99999999999999999999999999999999999999999999999999999
+i monDom4.chr2 I 514 C 0
+s felCat3.scaffold_217398 74162 46 - 219823 -----------------------------------TGTTGATGTTGTGAGCACCTCT-TTAACAAGGATTCCAGCTGGAGCC
+q felCat3.scaffold_217398 -----------------------------------9999999999999999999999-999999999999999999999999
+i felCat3.scaffold_217398 I 640 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=234779.000000
+s mm9.chr10 3145704 82 + 129993255 TGTCACTAGCTGTGAACAGATGACGCATA--------TGTGAGCAGCAGTTTTGAAGGT--CTCTGTC--TTCCCTGAA-GCTTAAAACGGTTAA
+s rn4.chr1 229963161 81 - 267910886 TGTCACTAACTGTGAACAGACGAT-CATA--------TGTGAGCAGCATTTCCGAAGAT--CTCTGTCTATACCCTGAA-GCTTAAAACGGTT--
+q rn4.chr1 999999999999999999999999-9999--------9999999999999999999999--999999999999999999-9999999999999--
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 41927 82 - 139458 TTAAACTAACCATGAACAGATGG--CACG--------ACTGAGTTGCTTTTATGCAAATAACTCTGTC--TACTCTAAG-TCTTAAAATTGCTAA
+q oryCun1.scaffold_214769 99999999999999999999999--9999--------9999999999999999999999999999999--999999999-999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 7142 81 - 523245 TTAAAGTAACCATGAGCAGATGACACAAC--------TGTGGGTGGCATTTA-GGAAATGACTCTG----TATACTAAA-GCCTAAAATTGCTAG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108445006 81 + 167655696 TTAAACTAACCATGAGCAGATGACACAAC--------TGTGGGTGGCATTTA-GGAAACAACTCTG----TACACTAAA-GCCTTAAATTGTTAC
+q rheMac2.chr4 99999999999999999999999999999--------999999999999999-9999999999999----999999999-999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16342364 81 - 174210431 TTAAACTAACCATGAGCAGATGACACAAC--------TGTGGGTGGCATTTA-GGAAACGACTCTG----TACACTAAA-GCCTTAAATTGTTAC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16559429 81 - 173908612 TTAAACTAACCATGAGCAGATGACACAAC--------TGTGGGTGGCATTTA-GGAAACGACTCTG----TACACTAAA-GCCTTAAATTGTTAC
+q panTro2.chr6 99999999999999999999999999999--------999999999999999-9999999999999----999999999-999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16037127 81 - 170899992 TTAAACTAACCATGAGCAGATGACACAAC--------TGTGGGTGGCATTTA-GGAAACGACTCTG----TACACTAAA-GCCTTAAATTGTTAC
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 339355 83 - 498454 TTAAACTAACTATGAGCAGATGACACAAC--------TGTGAGTATCGTTTATGAAAATGACTCTGTC--TACACTAAA-GCTTAAAATTG-TAG
+q tupBel1.scaffold_114895.1-498454 99999999559999999999999999999--------9999999999999999999999999999999--999999999-99999999999-999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13664068 81 - 95030419 TTAAACTCGCTGTGAGCAGATGACACAGC--------TGTGAGTAGAGTTTATGAAATGA-CTGTC----TACACCAGA-AGCTAAAATTGTTGG
+q bosTau3.chr9 99999999999999999999999999999--------99999999999999999999999-99999----999999999-999999999999999
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 74208 58 - 219823 CCACACTAACTGTGCACGGATGAGGTGGC--------TGTGAGTAGCGT------------CTGTG----GAAACAACA-GTC------------
+q felCat3.scaffold_217398 99999999999999999999999999999--------999999999999------------99999----999999999-999------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13006900 82 + 24938454 TTAACCTAGCCGTGAGCAGCTGACACGAC--------TGTGAGTAGTGTTTATGAATACGCCTGTC----TACACCAAA-GCCTAAAATTGTTAG
+q equCab1.chr31 99999999999999999999999999999--------99999999999999999999999999999----999999999-999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78212535 77 - 125616256 TTACATGAACCATGCATAGATAACATGGCTTGAGTAGTATGAGTAGTGA------------CTATC----TACGCTAAA-GTC-AAAATTGTTAG
+q canFam2.chr1 9999999999999999999999999999999999999999999999999------------99999----999999999-999-99999999999
+i canFam2.chr1 C 0 C 0
+s echTel1.scaffold_175172 5064 70 - 13804 TCCATCGACCCCTGAGTGGATGACGCC-C--------CGAGAGCAGCATCTGTGAGCACGCCTCCATT--GACCCCAAG-GC-------------
+q echTel1.scaffold_175172 999999999999999999999999999-9--------9999999999999999999999999999999--999999999-99-------------
+i echTel1.scaffold_175172 C 0 N 0
+s loxAfr1.scaffold_220099 1034 83 - 1126 TTAATCTAACCCTGAACAGATAATACA-C--------CAAGAGTAGTGTTTATGAAAATGACTCTTTC--TACACCAAA-GCCTGAAGTTGTTAA
+q loxAfr1.scaffold_220099 999999999999599999999999999-9--------9999999995999995999941348999999--899999999-999359996336859
+i loxAfr1.scaffold_220099 C 0 N 0
+s monDom4.chr2 106176373 69 - 541556283 TTACACTAACCATTAGCAGATGATACCCG--------TATTGGTAATGTTTC------------------TAAAAGAAATGCTTAAAATTGCCAG
+q monDom4.chr2 99999999999999999999999999999--------999999999999999------------------9999999999999999999999999
+i monDom4.chr2 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=56167.000000
+s mm9.chr10 3145786 28 + 129993255 AAATGAGCAT------CAAGAACCTACCTC---TTCT----
+s rn4.chr1 229963242 31 - 267910886 AAATGAGCAT------CAAAAGCATACCTCCTTTTCT----
+q rn4.chr1 9999999999------999999999999999999999----
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 42009 31 - 139458 TAATAAGTATGT-A--AGAAAACATAAATA---CTCC----
+q oryCun1.scaffold_214769 999999999999-9--99999999999999---9999----
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 7223 31 - 523245 TAAAAAGTATTT-A--AAAAAACATAAATA---CTCT----
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108445087 31 + 167655696 TAATAAGTATTT-A--AGAAAACATAAATA---CTCT----
+q rheMac2.chr4 999999999999-9--99999999999999---9999----
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16342445 31 - 174210431 TAATAAGTATTT-A--AAAAAACATAAATA---CTCT----
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16559510 32 - 173908612 TAATAAGTATTTAA--AAAAAACATAAATA---CTCT----
+q panTro2.chr6 99999999999909--99999999999999---9999----
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16037208 31 - 170899992 TAATAAGTATTT-A--AAAAAACATAAATA---CTCT----
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 339438 32 - 498454 TAATAAGTATTTTA--AAAATACATAGACA---CTTC----
+q tupBel1.scaffold_114895.1-498454 99999999999999--99999999999999---9999----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13664149 33 - 95030419 TAATAAGTATTA-AATAAAAAACACAAATA---CTCC----
+q bosTau3.chr9 999999999999-99999999999999999---9999----
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 74266 7 - 219823 ---------------------------ATC---CTCC----
+q felCat3.scaffold_217398 ---------------------------999---9999----
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13006982 31 + 24938454 TAATACACATTT-G--AAAAAACACAAAGA---CTCC----
+q equCab1.chr31 999999999999-9--99999999999999---9999----
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78212612 30 - 125616256 TAATG-ATATTG-A--AAAAACCACAAATA---CTCT----
+q canFam2.chr1 99999-999999-9--99999999999999---9999----
+i canFam2.chr1 C 0 C 0
+s monDom4.chr2 106176442 33 - 541556283 GGATAAGTAT---T--AAAAGATAAAACTC---CCTCTTTT
+q monDom4.chr2 9999999999---9--99999999999999---99999999
+i monDom4.chr2 C 0 I 18814
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=175102.000000
+s mm9.chr10 3145814 57 + 129993255 CCA-TTAGTGAGATGCCTAACCACAGAGGGTATAATGAGGCTCAGACT----GTGCGCACCC
+s rn4.chr1 229963273 61 - 267910886 CCA-CTAGCAAGATGCCTAACGACATAGGGGATAAGGAGGCTTAAACCTCGAGCTAGCACCC
+q rn4.chr1 999-9999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 42040 48 - 139458 TTG-CTAGTAAGACACTGA---------GAGAGACCCATGGTTGGATT----CTAAACACCC
+q oryCun1.scaffold_214769 999-999999999999999---------99999999999999999999----9999999999
+i oryCun1.scaffold_214769 C 0 I 3
+s calJac1.Contig1260 7254 56 - 523245 TTG-CTAGTAAGATGCCTAGAGACATATGGTTTGAAGTGGTTT-GATT----CTAACCACCC
+i calJac1.Contig1260 C 0 I 3
+s rheMac2.chr4 108445118 56 + 167655696 TTG-CTAGTAAGATGCCTAGAGACACATGGTTTGAAGTGGTTT-GATT----CTAAGCACCT
+q rheMac2.chr4 999-999999999999999999999999999999999999999-9999----9999999999
+i rheMac2.chr4 C 0 I 3
+s ponAbe2.chr6 16342476 56 - 174210431 TTG-CTAGTAAGATGCCTGGAGACACACGGTTTGAAGTGGTTT-GATT----CTAAGCACCC
+i ponAbe2.chr6 C 0 I 3
+s panTro2.chr6 16559542 56 - 173908612 TTG-CTATTAAGATGCCTGGAGACACATGGTTTGAAGTGGTTT-GATT----CTAAGCACCC
+q panTro2.chr6 999-999999999999999999999999999999999999999-9999----9999999999
+i panTro2.chr6 C 0 I 3
+s hg18.chr6 16037239 56 - 170899992 TTG-CTATTAAGATGCCTGGAGACACATGGTTTGAAGTGGTTT-GATT----CTAAGCACCC
+i hg18.chr6 C 0 I 2
+s tupBel1.scaffold_114895.1-498454 339470 57 - 498454 TTGTTTTGTAAGATGGCTAGAGACATATGATATAAAGTGGTTT-GGTT----ATAAGCACCC
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999-9999----9999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 3
+s bosTau3.chr9 13664182 56 - 95030419 TTG-CTGGTAAGACATCCAGAGGTAGATGGTATGAAGTGATTT-GGTT----ACAAGCACCC
+q bosTau3.chr9 999-999999999999999999999999999999999999999-9999----9999999999
+i bosTau3.chr9 C 0 I 2325
+s felCat3.scaffold_217398 74273 56 - 219823 TTG-TGAGGAAGATGTCTAGAGACCTATGTTATGAAGCGCTTT-GGTT----ATGAGTACCC
+q felCat3.scaffold_217398 999-999999999999999999999999999999999999999-9999----9999999999
+i felCat3.scaffold_217398 C 0 I 3
+s equCab1.chr31 13007013 56 + 24938454 TTG-CTAGTGAGACGTCTAGAGACATAAGATGTGAAGTGCTTT-GGTT----GGAAGTGCCC
+q equCab1.chr31 999-999999999999999999999999999999999999999-9999----9999909999
+i equCab1.chr31 C 0 I 3
+s canFam2.chr1 78212642 56 - 125616256 CTG-TTAGAAATATGCCTAGAGACATGTAGTATGAAGTGGTTT-GGTT----ATAAATACCC
+q canFam2.chr1 999-999999999999999999999999999999999999999-9999----9999999999
+i canFam2.chr1 C 0 I 3
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=94633.000000
+s mm9.chr10 3145871 82 + 129993255 AACCGGCTTGAAGCACTTTATACAAAGGCAAC-CAGTAAAGACAGAC-CT---CTCTGTGGA--GAAAAAA---TGTTTTTATTCTTGt---ttg
+s rn4.chr1 229963334 80 - 267910886 AACCAGCCTGAAGCACTTTATACAAAGGCAA--CAGTAAAGACAAAC-CT---CTCTGTGGA--GAAAAAA----GTCTTTATTCTTGT---TTG
+q rn4.chr1 9999999999999999999999999999999--99999999999999-99---999999999--9999999----99999999999999---999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 42091 76 - 139458 GGTCAAGCAGAAGGATTTTGTACAACAGTGAG-CTGGAAAGAGAGAT-CA---TTCTTGGAG--GCAGAGA---------AGTTCTTGT---TTG
+q oryCun1.scaffold_214769 99999999999999999999999999999999-99999999999999-99---999999999--9999999---------999999999---999
+i oryCun1.scaffold_214769 I 3 C 0
+s calJac1.Contig1260 7313 83 - 523245 GGCCAATTTGAAGAATTTTATATAAAGCTGAT----TTAAAAAAAAC-ACACGTTCCTGGAGCTGGAGAAA----TTCTTCATTCTTAC---TTG
+i calJac1.Contig1260 I 3 C 0
+s rheMac2.chr4 108445177 64 + 167655696 GGCCAATTTGAAGAATTTTGCATAAAGCTGAT----TAAAGAAAAAC-CC---TTCCTGGACCTGGAGAAA----T-------------------
+q rheMac2.chr4 99999999999999999999999999999999----99999999999-99---999999999999999999----9-------------------
+i rheMac2.chr4 I 3 C 0
+s ponAbe2.chr6 16342535 80 - 174210431 GGCCAACTTGAAGAATTTTACATAAAGCCGAT----TAAAGAAAAAC-CC---TTCCTGGAGCTGGAGAAA----TTTTTCATTCTTAC---TTG
+i ponAbe2.chr6 I 3 C 0
+s panTro2.chr6 16559601 63 - 173908612 GGCCAATTTGAAGAATTTTACATAAAGCTGAT----TAAAGAAAAAC-CC---TTCCTGGAGCTGGAGAAA------------------------
+q panTro2.chr6 99999999999999999999999999999999----99999999999-99---999999999999999999------------------------
+i panTro2.chr6 I 3 C 0
+s hg18.chr6 16037297 64 - 170899992 GGCCAATTTGAAGAATTTTACATAAAGCTGAT----TAAAGAAAAAC-CC---TTCCTGGAGCTGGAG---AAAT--------------------
+i hg18.chr6 I 2 C 0
+s tupBel1.scaffold_114895.1-498454 339530 82 - 498454 CG-CAAGCTGGGTAATTTTATATCAAGCCAATCTTGTATAGGAAGAC-CT---TTCTTGGGGATGGACAAA-----TTCTCCTTCTTAT---TTA
+q tupBel1.scaffold_114895.1-498454 99-99999999999999999999999999999999999999999997-99---999999999969999999-----9999999999999---999
+i tupBel1.scaffold_114895.1-498454 I 3 C 0
+s canFam2.chr1 78212701 80 - 125616256 GGCCAAGTTGGAGAATCTTACATAATGCTGAT-CTGTGAAGAAAGAC-CC---ATTTTGGATGTGAGGAGA----GTCTTCATTCTTAT------
+q canFam2.chr1 99999999999999999999999999999999-99999999999999-99---999999999999999999----99999999999999------
+i canFam2.chr1 I 3 I 81
+s equCab1.chr31 13007072 83 + 24938454 GGCCAAGCTGAGGAACCTTCTAGAATGCTGAT-GTGTAAAGAGAGAC-CC---TTTTTGGAGGTGGAGAAT----CTCTTCATTCTTATTCG---
+q equCab1.chr31 99999999999999999999999999999999-99999999999999-99---999999999999999999----99999999999999999---
+i equCab1.chr31 I 3 I 978
+s felCat3.scaffold_217398 74332 71 - 219823 GGCCAGGTTGGAGAA-CTTCTATAATGCTGAT-CTGTGAAGACCACCTCC---GTTTTGGA---------A----TTCTCCATTCTTGT------
+q felCat3.scaffold_217398 999999999999999-9999999999999999-99999999999999999---99999999---------9----99999999999999------
+i felCat3.scaffold_217398 I 3 I 1338
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-15591.000000
+s mm9.chr10 3145953 42 + 129993255 tatct----------ttttaaaaaaagatttatttatttattatatgtaagt
+s rn4.chr1 229963414 5 - 267910886 TTTCC-----------------------------------------------
+q rn4.chr1 99999-----------------------------------------------
+i rn4.chr1 C 0 I 88
+s oryCun1.scaffold_214769 42167 52 - 139458 GATTGCAGTGTAGATTATCTGAAATAGAGACGCTTCCTCATCACCTGTGAGT
+q oryCun1.scaffold_214769 9999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 I 233
+s calJac1.Contig1260 7396 15 - 523245 GATC----------------CAAACAGAGAT---------------------
+i calJac1.Contig1260 C 0 I 355
+s ponAbe2.chr6 16342615 4 - 174210431 GATC------------------------------------------------
+i ponAbe2.chr6 C 0 I 4815
+s tupBel1.scaffold_114895.1-498454 339612 16 - 498454 GATC----------------AAAACAAAGATT--------------------
+q tupBel1.scaffold_114895.1-498454 9999----------------999999999999--------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 3628
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e rheMac2.chr4 108445241 0 + 167655696 C
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e canFam2.chr1 78212781 81 - 125616256 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16037361 0 - 170899992 C
+e panTro2.chr6 16559664 0 - 173908612 C
+
+a score=0.000000
+s mm9.chr10 3145995 156 + 129993255 acactgtagctgtcttcagacaccccagaagagggcatcaagtctcataatggaaggttgtgagccgtcatgtggttgctgttacccaaactcacggccttcagaagagcagttggctctcttaaccgctgagccatctctccggcccTGTTTGTA
+e rn4.chr1 229963419 88 - 267910886 I
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e rheMac2.chr4 108445241 0 + 167655696 C
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e canFam2.chr1 78212781 81 - 125616256 I
+e calJac1.Contig1260 7411 355 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16037361 0 - 170899992 C
+e panTro2.chr6 16559664 0 - 173908612 C
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42219 233 - 139458 I
+
+a score=2306.000000
+s mm9.chr10 3146151 44 + 129993255 TCTTTATTCTTGTTTATTTGGATTGGGTTCTGAGACAAGAGACC
+s hg18.chr6 16037361 23 - 170899992 TCT----TCATTCTTACTTGGATCAAA-----------------
+i hg18.chr6 C 0 I 196
+s panTro2.chr6 16559664 40 - 173908612 ---TTCTTCCTTCTTACTTGGATCAAA-TCAGAGATGATGGACA
+q panTro2.chr6 ---999999999999999999999999-9999999999999999
+i panTro2.chr6 C 0 I 183
+s rheMac2.chr4 108445241 31 + 167655696 ----TCTTCATTCTTTCTTGGATCAAA-TCAGAGAT--------
+q rheMac2.chr4 ----99999999999999999999999-99999999--------
+i rheMac2.chr4 C 0 I 228
+e rn4.chr1 229963419 88 - 267910886 I
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e canFam2.chr1 78212781 81 - 125616256 I
+e calJac1.Contig1260 7411 355 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42219 233 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3146195 15 + 129993255 ATGCCTGGTGCCTGC
+e rn4.chr1 229963419 88 - 267910886 I
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e rheMac2.chr4 108445272 228 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e canFam2.chr1 78212781 81 - 125616256 I
+e calJac1.Contig1260 7411 355 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16037384 196 - 170899992 I
+e panTro2.chr6 16559704 183 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42219 233 - 139458 I
+
+a score=550.000000
+s mm9.chr10 3146210 80 + 129993255 AGATACTCCTCCTCCCAGTCCCTTCCTCTACCCCCCTCAT------CCACTctccctttccccatctctcctt------ccccctccccctc
+s canFam2.chr1 78212862 65 - 125616256 AGATT---TTCTT--GAGACCCTTTCTCAGCCCCATACATGTGGCACCACACCTCCCCCCCCAACATCTT----------------------
+q canFam2.chr1 99999---99999--9999999999999999999999999999999999999999999999999999999----------------------
+i canFam2.chr1 I 81 C 0
+s rn4.chr1 229963507 74 - 267910886 -----tccttcctcccagtcccct-------ctccctccc------ccagtttcccttcccccacctctccttacctcccccctctcccctc
+q rn4.chr1 -----9999999999898899999-------999999898------9889999999988644476644468899998899999999999999
+i rn4.chr1 I 88 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e rheMac2.chr4 108445272 228 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e calJac1.Contig1260 7411 355 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16037384 196 - 170899992 I
+e panTro2.chr6 16559704 183 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42219 233 - 139458 I
+
+a score=12105.000000
+s mm9.chr10 3146290 97 + 129993255 cccATTGTCTTCTGAGTG---------AACATTTGAAGAAACCGTTTCCTAGCCAGGTACCTGTGCAGCCTCCCAGTTACCTACACTGCCCCCCCCCCCCCAAAGG--
+s rn4.chr1 229963581 95 - 267910886 cccATTGTCTTCTGAGTG---------AGTGGATGAAGAAACCCTTCCCTAGCCAGGCACCTGTGCACCCTCCCAG-TATCTAAACC-CCACTGTCCTGGAAACAG--
+q rn4.chr1 999999999999999999---------9999999999999999999999999999999999999999999999999-9999999999-999999999999999999--
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16037580 92 - 170899992 ------------TGAGTGTTTAAACCAAGCTTTTCAAGAGACCGTTTCCCAGGCACATACATGCGGGGCGTCTCAA-CATCCTGTCA-CCATTGTTCTTGAACTCA--
+i hg18.chr6 I 196 C 0
+s panTro2.chr6 16559887 92 - 173908612 ------------TGAGTGTTTAAACCAAGCTTTTCAAGAGACCGTTTCCCAGGCACATACATGCGGGGCGTCTCAA-CATCCTGTCA-CCATTGTTCTTGAACTCA--
+q panTro2.chr6 ------------9999999999999999999999999999999999999999999999999999999999999999-9999999999-999999999999999999--
+i panTro2.chr6 I 183 C 0
+s rheMac2.chr4 108445500 95 + 167655696 CCTGAAGTGTTT---------AAACCGAGCTTTTGAAGAGACTCTTTCCCAGGCACGTACATGTGGGGCTTCTCAA-CATCCTGTCA-CCATTGTTATTAAACTCA--
+q rheMac2.chr4 999999999999---------9999999999999999999999999999999999999999999999999999999-9999999999-999999999999999999--
+i rheMac2.chr4 I 228 C 0
+s canFam2.chr1 78212927 84 - 125616256 ----------------------ATCATTGTTATTCTTGAACTTACTTTCTcagcgtccacatcagctgggaactta-cacatgtaca-ttcttgggcctcaccgcaga
+q canFam2.chr1 ----------------------999999999999999999999999999999999999999999999999999999-9999999999-99999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e calJac1.Contig1260 7411 355 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42219 233 - 139458 I
+
+a score=85881.000000
+s mm9.chr10 3146387 132 + 129993255 CTTGCTCAGCATCAGCATCACCTGAGGACATGGGTGTGTCATGTC---AGGCC----CCAAACTCAGCA-------------------------------------------------TCTTCAGGTGATTCTGGTGCAGGCTG-TAAGTCCAGAAACATTTTAGTATGTCCCTTTTCAGAGGGACCAA
+s rn4.chr1 229963676 127 - 267910886 CTTGCTTAG-ATCAGCATCACCTGGGG----GTGTGTCGCATGTC---AGGCC----CCCAAA-CTGCA-------------------------------------------------TCTTCAGGTGATTCTGGTGTGGGCTGATAAGTCCAGAAACATTTCAGTCCATCCCTTTTCAGAGGGGCCAA
+q rn4.chr1 999999999-99999999999999999----99999999999999---99999----999999-99999-------------------------------------------------99999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108445595 176 + 167655696 CTTCTTCAACACCAGCCTCACCTGGGAATATAGACATGTAAATTCCT-GGGCCCCACCCCAGACCTGCAGAATCAGAAACT-TGGGGGTGGGATCCAGGAAGC-------TAACAGACTCCTCAGGGAATTCTGGTACAGGCTA-AAATGGGAGAAGCAGT--GGTCTGCACCACTCATGTGGACTCT-
+q rheMac2.chr4 99999999999999999999999999999999999999999999999-999999999999999999999999999999999-999999999999999999999-------9999999999999999999999999999999999-9999999999999999--9999999999999999999999999-
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16559979 177 - 173908612 CTTCTTcaacaccagcctcacctgggaacatagacatgtaaattcct-gggcctcaccccagacctgcagaatcagaaactctgggggtgggatccaggaagc-------taacagactcctcagggaattctggtacaggcta-aaacgggagaatcaGG--GGTCTACACCACTCATGTGGACTCT-
+q panTro2.chr6 99999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999-------9999999999999999999999999999999999-9999999999999999--9999999999999999999999999-
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16037672 177 - 170899992 CTTCTTcaacaccagcctcacctgggaacatagacatgtaaattcct-gggcctcaccccagacctgcagaatcagaaactctgggggtgggatccaggaagc-------taacagactcctcagggaattctggtacaggata-aaatgggagaatcaGG--GGTCTACACCACTCATGTGGACTCT-
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 7766 178 - 523245 CTTCTTcaacatcagcctcacctaggaacacagacatgtaaattcctggggccccaacccagacctgcggaattggaaactctaggggtgggatccgggaagc-------taacagactccttagggaattgttgtgtaggcca-aaattggagaaccagt--gGTCTACACCACTCATGTGGACCAT-
+i calJac1.Contig1260 I 355 C 0
+s canFam2.chr1 78213011 122 - 125616256 --ctcacagagtcagacac-tctggggtt-------------------gggtc-----------------------------------------ccaggaagctgcattgtatcaagttcctcaggggattctggtgttgacta-aaatttgaggaccatt--gATCCATACCACTCATGTAGAACAT-
+q canFam2.chr1 --99999999999999999-999999999-------------------99999-----------------------------------------99999999999999999999999999999999999999999999999999-9999999999999999--9999999999999999999999999-
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42219 233 - 139458 I
+
+a score=190233.000000
+s mm9.chr10 3146519 194 + 129993255 ACAGGAATAAATGACACTAGTCAGGCCCTCT-GCATACTTCCTGCTGAC-AGGTAGCTTTAGGTTGATGCATGATGAGAGCT--AGCGAGGAGAT---TCTAGCAGGGATGG-TTTTGACATGCTTAAGTATGTGGG-TCACC-GGCCCAAGTTCCTAAGTGCTCTTTCTGT-GAGTGTGCAGGGGGCAGTTAAGGCTTTTGTCT
+s rn4.chr1 229963803 199 - 267910886 GCAGGAATGAATGGCACTAGTCAGTCCCTCT-GCATAATTCCTGCTGACAAGGTGTCTTTAGGTTGATGCAGGATGAGTGGTTAAGAAGGAGAAC---TCTAGCAAGGGCGGTTTTTGACATGCCTAAGTATGTGGG-TCACTGGGCCCGAGTTCCTAAGTGCTCTTTCTAT-GGGTGTGCAGGGGGCAGGTAAGGCTTTCGTCT
+q rn4.chr1 9999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999---999999999999999999999999999999999999999-9999999999999999999999999999999999-99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 42452 184 - 139458 ATGGGAGTGAATGATCCAAGTCAGACTGCCC--CATGACGCCTGCTGAC-AGCTGG--------TGATGTCTGATTA-------GGAAGGAGAACTTTTCCAGTGGGGACAG-GTGTGATGTG-TTCAGTGGACAAG-CTGCTGCACCTGAGTTTGTGAATGCGCTTTCCCCAGGGTGGGCAGGGAAGAGTTAAGGCTGGTGTCC
+q oryCun1.scaffold_214769 9999999999999999999999999999999--9999999999999999-999999--------9999999999999-------9999999999999999999999999999-9999999999-9999999999999-9999999999999999999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 I 233 C 0
+s rheMac2.chr4 108445771 197 + 167655696 ATGGAAATAGGTGATATAAACCAGACTCTTCCTCATAATGCCTGTCAAC-AGTT----TTTTGCCAATACGTCATGACTGATTAAGAAAGACAATGTTTCCAGTAAGGACAG-TGGTGACATATTTAAGTGGATGAG-TAATG-CACCTTGGCTTGTAAGTGTCCTTTCTGCAGAATAGACAGGGAAGAGTTAAAGCTGGTATCC
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999-9999----999999999999999999999999999999999999999999999999999999-999999999999999999999999-99999-9999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16560156 197 - 173908612 ATGGAAATAGGTGACATAAGCCAGACTCTTCCTCATAATGCCTGTCCAC-AGTT----TTTTGCTAATACATAATGACTGATGAAGAAAGACAGTGTTTCCAGTAAGGACAG-TGGTGACATATTTAAGTAGATGAG-TAATG-AACCTTGGCTTGTAAGTGTCCTTTCTGCAGTATAGGCAGGGAAGAGTTAAAGCTGGTATCC
+q panTro2.chr6 9999999999999999999999999999999999999999999999999-9999----999999999999999999999999999999999999999999999999999999-999999999999999999999999-99999-9999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16037849 197 - 170899992 ATGGAAATAGGTGACATAAGCCAGACTCTTCCTCATAATGCCTGTCCAC-AGTT----TTTTGCTAATACATAATAACTGATTAAGAAAGACAATGTTTCCAGTAAGGACAG-TGGTGACATATTTAAGTAGATGAG-TAATG-AACCTTGGCTTGTAAGTGTCCTTTCTGCAGAATAGGGAGGGAAGAGTTAAAGCTGGTATCC
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 7944 190 - 523245 ATGGGAATAGGTGATATAAGCCAGACTCTTCCTCATAACATCTGTTGAC-AGTT----TTTTGCTAATACAAAATGACTGATTAAGAAAGACAATGTCCCTAGTAAGGACAA-AGGTGACATATTTAAGTGGATGAG-TAATG-CACCTTGGCTTCTAAGTGTCCTTTCTGCAGAAGAGGCAGGGAAGTGTCCTTTCT-------
+i calJac1.Contig1260 C 0 I 454
+s canFam2.chr1 78213133 189 - 125616256 ATAAAAATAAATGATTTAAG------------GCGTAATTCTTATCTAC-AGTTGGTTTTCCATTAATACATAATGGGCAGTTGGGAAGGAGAGCTTTTCCAGTAGGGATGG-TTGTTACGTATTTCAGTGGATGAGTTAATG-TACCTCTGTCTGTGAGTGTCCTTTC-ACGGAGTGGGCAGGGAAGGGTCACAGCTGTTATCC
+q canFam2.chr1 99999999999999999999------------99999999999999999-99999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999-9999999999999999999999999-99999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=33063.000000
+s mm9.chr10 3146713 56 + 129993255 CAATGGATGCCCAGCTGGCATCTCTGTCCCATGTACAGTGTGCATCCATTGGTtat
+s rn4.chr1 229964002 56 - 267910886 CAGCGGATGCCCGGCTGGCAACTCTGTCCCATGTACAGTCTGCACCCATTGGTTGT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 3
+s oryCun1.scaffold_214769 42636 52 - 139458 CCACGGGCGCCCAGCCAGGGGCTCGGTCC--TGCCCAG--GGCATCCTTTTGTTGT
+q oryCun1.scaffold_214769 99999999999999999999999999999--9999989--9999999999999999
+i oryCun1.scaffold_214769 C 0 I 398
+s rheMac2.chr4 108445968 52 + 167655696 CCTTGGACTCTTAGCCACCTGCTAAACCCCAAGCCCAG--GGCATCCTTCTGTT--
+q rheMac2.chr4 99999999999999999999999999999999999999--99999999999999--
+i rheMac2.chr4 C 0 I 276
+s panTro2.chr6 16560353 52 - 173908612 CCTCGGGCTCTTAGCCACCTGTTAAACCCCAGGCCCAG--GGCATCCTTCCGTT--
+q panTro2.chr6 99999999999999999999999999999999999999--99999999999999--
+i panTro2.chr6 C 0 I 269
+s hg18.chr6 16038046 52 - 170899992 CCTCGGGCTCTTAGCCACCTGTTAAACCCCAGGCCCAG--GGCATCCTTCCGTC--
+i hg18.chr6 C 0 I 269
+s canFam2.chr1 78213322 52 - 125616256 GTGTGGGCTCCTAGCCAGCTGTTCCGCCCCAGACCCAG--GGGATTCTTTTGTT--
+q canFam2.chr1 99999999999999999999999999999999999999--99999999999999--
+i canFam2.chr1 C 0 I 295
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e calJac1.Contig1260 8134 454 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3146769 480 + 129993255 tgatgtatttataaaaagatagacagaaagaatatgttctatgggggtatggtgaggtgtgggggaaggggctgtctcagcaggctcatgctgaggcatttcccccctcccccccaaggaaacagccacatggtatggtatagagtagagcttatttggggcatagggagggaagttaagagggtagtagacacagagaaaggcagagagagagagagagagagaaagagagagagaagcggggatagagggagggagggaggcagggagagggacaggtgagaagtagaggctggccatgactacatggggtggggggaagagaatggggaggtaaggggagcaagagagagcaagagggaggaaagcaagagaggggcgaggggacaagcagccctttttatcgtgggtcaggcctacctggctgttgc [...]
+e rn4.chr1 229964058 3 - 267910886 I
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e rheMac2.chr4 108446020 276 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e canFam2.chr1 78213374 295 - 125616256 I
+e calJac1.Contig1260 8134 454 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16038098 269 - 170899992 I
+e panTro2.chr6 16560405 269 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42688 398 - 139458 I
+
+a score=12807.000000
+s mm9.chr10 3147249 324 + 129993255 TCTGTGTTGCTCCATTGGGGAAACTTAGGATATGGGGGTATTGTATAGGCCTGTTGCTTCCTTCTTCTAGATAGAATTATAGATGTATAATATGACGTTTAAGTCATTTTCTTATTTAGTTTGTTTTGTTTTGTTTTTAAATGGTGCTTAGGATAGAAGCCAGAACCTTGTGCACTGTACACTTAGTAGACTGCCTCTGAGGCACAGCTCCAGCCTCCGCTGgagaaagggctcagtgatatgtataggtcgggctgctgctgagcacttgatctttctgcctctatctctctgagtgctgggattcgtgctaccatgcctggc
+s rn4.chr1 229964061 267 - 267910886 TCTGCGTTGCTCCATGGGGGAACCTAGGACATGGGGGGGATTTTATAGGCCTGCTGCTTCCTTCTCCTAGATAGAAGTACAGATGTGTAACACAACACTTAAGTTATTTATTTATTTAGTtt-----------tttttaagtggtgcttaggatggaagcctggaccttgtgcattct-tgtcaagtaaatggccactgaggcgcagcttcagccccTTCCTGAGAAAGGGCTCACTGTTATGTGTAGGTCAGGCCGAC---------------------------------------------TAGGTGCTGCCATGCTAGAC
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999---------------------------------------------99999999999999999999
+i rn4.chr1 I 3 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e rheMac2.chr4 108446020 276 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e canFam2.chr1 78213374 295 - 125616256 I
+e calJac1.Contig1260 8134 454 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16038098 269 - 170899992 I
+e panTro2.chr6 16560405 269 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42688 398 - 139458 I
+
+a score=28618.000000
+s mm9.chr10 3147573 41 + 129993255 CCAAGAAGCTTTTTTGTCTCAGTATATAGAC----------TCAGATCAGT-----
+s hg18.chr6 16038367 51 - 170899992 GCAAAAAGCTCTTTTGTCTTAGTAGGTGGGCGTTGTGAACGTTGAATCAGT-----
+i hg18.chr6 I 269 I 46
+s panTro2.chr6 16560674 51 - 173908612 GCAAAAAGCTCTTTTGTCTTAGTAGGTGGGCGTTGTGAACGTTGAATCAGT-----
+q panTro2.chr6 999999999999999999999999999999999999999999999999999-----
+i panTro2.chr6 I 269 I 46
+s rheMac2.chr4 108446296 51 + 167655696 GCAAAAAGCTCTTCTGTCTTAGTAGGTAGACGTTGTGAACGTTGCATCAGT-----
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999-----
+i rheMac2.chr4 I 276 I 46
+s rn4.chr1 229964328 39 - 267910886 CCAAGAAGCTCTTTTATCTCAGTTTA--GAC----------CCAGATCAGT-----
+q rn4.chr1 99999999999999999999999999--999----------9999999999-----
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78213669 43 - 125616256 ----GAAGCTCTTTTGTCTCAGTACATGGAC---------ATTGAATCAGCACAGG
+q canFam2.chr1 ----999888899999999999999999999---------9999999999999999
+i canFam2.chr1 I 295 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e calJac1.Contig1260 8134 454 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42688 398 - 139458 I
+
+a score=2664.000000
+s mm9.chr10 3147614 18 + 129993255 --------------------------------------------------------------TAGA----------GTCAAGAGGGCCAC
+s rn4.chr1 229964367 28 - 267910886 --------------------------------------------------------------TAGATGCCGCGGGAGTGAAGAGGGCCAC
+q rn4.chr1 --------------------------------------------------------------9999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16038464 18 - 170899992 --------------------------------------------------------------CAGA----------ATAAAAAAGACACT
+i hg18.chr6 I 46 C 0
+s panTro2.chr6 16560771 18 - 173908612 --------------------------------------------------------------CAGA----------ATAAAAAAGACACT
+q panTro2.chr6 --------------------------------------------------------------9999----------99999999999999
+i panTro2.chr6 I 46 C 0
+s rheMac2.chr4 108446393 18 + 167655696 --------------------------------------------------------------CAGA----------ATAAAAAAGACACT
+q rheMac2.chr4 --------------------------------------------------------------9999----------99999999999999
+i rheMac2.chr4 I 46 C 0
+s calJac1.Contig1260 8588 18 - 523245 --------------------------------------------------------------TAGA----------ATAAAAAAGACACT
+i calJac1.Contig1260 I 454 C 0
+s canFam2.chr1 78213712 80 - 125616256 TGGAGTTTGGCAGCACCCCCCCCCCCCCCCGCCCCTTGTAGTTGTTCAAAGCCAAGACAGTGCAAA----------ATATAAAAGGTATT
+q canFam2.chr1 999999999999999999999999999999998977779999999998999998989999999999----------99999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13007155 978 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42688 398 - 139458 I
+
+a score=46088.000000
+s mm9.chr10 3147632 29 + 129993255 ACAGAAGCGAGCTCTGGAGACT--GGATCGC
+s rn4.chr1 229964395 29 - 267910886 ACCGAAGTGAGCCCCGGAGACT--GGGTCAT
+q rn4.chr1 9999999999999999999999--9999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16038482 31 - 170899992 GCAGAAGTGAACACCAAAGACCAGGAATGGC
+i hg18.chr6 C 0 I 3
+s panTro2.chr6 16560789 31 - 173908612 GCAGAAGTGAACACCAAAGACCAGGAATGGC
+q panTro2.chr6 9999999999999999999999999999999
+i panTro2.chr6 C 0 I 3
+s rheMac2.chr4 108446411 31 + 167655696 ACAGAAGTGAACACCAAAGACCGGGAATGGC
+q rheMac2.chr4 9999999999999999999999999999999
+i rheMac2.chr4 C 0 I 3
+s calJac1.Contig1260 8606 31 - 523245 ACAGAAATGAATACCAAAGACCACGAATGGC
+i calJac1.Contig1260 C 0 I 3
+s equCab1.chr31 13008133 31 + 24938454 ACAGAAGTGAACGCTGAAGACCAAGAATGGC
+q equCab1.chr31 9999999999999999999999999999999
+i equCab1.chr31 I 978 I 3
+s canFam2.chr1 78213792 31 - 125616256 ACAGAAATGAGCACTGAAGACCAGGATTGGC
+q canFam2.chr1 9999999999999999999999999999999
+i canFam2.chr1 C 0 I 3
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 42688 398 - 139458 I
+
+a score=230974.000000
+s mm9.chr10 3147661 224 + 129993255 G----AGCTTTGGGCCAAGTG------------------------TCTCAAACGCAGATACT--GTAGGGTGAGG--TGTGATGTTAAAACTGGAGCTG-------GGGTCTTAAGA--CAGCATGGCATAGTGGAGACTGTAGCAAacacacacacacacacacacacacacacacacacacacacacacacacacacacCCT---TCAGTTTCTGTTAATTATGGACCTGAACTTCCCAAGACTTTGGATTTCTG-TT--TTGTGTTGT
+s rn4.chr1 229964424 191 - 267910886 GCATGAGCTTTGCACCAAGAG------------------------TCTCAAACTCAGATACT--GTAGGGTGAGG--TGCAATGTTAGAAATGGAGCTG-------GGGTCTTA-GA--CAGCATGGCATAGTGGAGATTGTAGCAAACCCAGGCACA-----------------------------------ACACACGTTCT---TCCGTTTCTTCTGATTACGGACCTGAACCTCC-GAGTCTTTGGACTTCTG-TT--TTATGTTGT
+q rn4.chr1 999999999999999999999------------------------99999999999999999--99999999999--9999999999999999999999-------99999999-99--999999999999999999999999999999999999999-----------------------------------99999999999---99999999999999999999999999999999-99999999999999999-99--999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 43086 185 - 139458 ----GAGATTTGCATCAGGAG------------------------CTGCAGACTCAGAGACCTAGAAATGCCAGGCACACAGTGTCAGGAATTGAAGTGTGAGGGTGTGTGTGA-GA--CAATACAGAGTGGTAGAGATTGTGGCAAACCCAGAG--------------------------------------ACACGTGTATT---ATTGTTTCTTCAGACTGTGGACCGAAAATTTCCAGATATTTGGATTTTTA--------------
+q oryCun1.scaffold_214769 ----99887789989978999------------------------999998988899988444315899999799999999999999999999999999999999899999999-99--999999999999999999999999999999997599--------------------------------------99999999999---99999999999999999999999999999999998999999999999998--------------
+i oryCun1.scaffold_214769 I 398 C 0
+s hg18.chr6 16038516 214 - 170899992 ----GAGACTTGTAACAGGAATCACACTGAGACTTGTAAcaggaattgcaaacacggttgcctataggggccagg-aggcaatgtcagaagttgcagtgtgg----gggc--gt-ga--cagtagggagtggtggagactgtggcaaacccaaag--------------------------------------ccatgtgttgt---ctggtttctgctgattgtggatgtgaagtttccagagcttctgatttttg-tca-tttttttgt
+i hg18.chr6 I 3 C 0
+s panTro2.chr6 16560823 215 - 173908612 ----GAGACTTGTAACAGGAATCACACTGAGACTTGTAAcaggagttgcaaacacggttgcctataggggccagg-aggcaatgtcagaagttgcagtgtgg----gggc--gt-ga--cagtagggagtggtggagactgtggcaaacccaaag--------------------------------------ccatgtgttgt---ctggtttctgctgattgtggatgtgaagtttccacagcttctgatttttg-tcattttttttgt
+q panTro2.chr6 ----99999999999999999999999999999999999999990999999999999999999999999999999-99999999999999999999999999----9999--99-99--999999999999999999999999999999999999--------------------------------------99999999999---99999999999999999999999999999999999999999999999999-9999999999999
+i panTro2.chr6 I 3 C 0
+s rheMac2.chr4 108446445 192 + 167655696 ----GAGACTTGTAACAGGAA------------------------TTGCAAACACGGATGCCTACAGGGGCTAGG-AAGCAATGTCAGAAGTTGCAGTCTGG----GGGCATGT-GA--CAGTAGGGAGTGGTGGAGACTGCGGCAAACCCAAAG--------------------------------------CCATGTGTTGT---CTGGTTTCTGCTGATTGTGGATATAAAGTTTCCAGAGCTTCTGATTTTTG-TCA-TTTTTTTGT
+q rheMac2.chr4 ----99999999999999999------------------------999999999999999999999999999999-99999999999999999999999999----99999999-99--999999999999999999999999999999999999--------------------------------------99999999999---99999999999999999999999999999999999999999999999999-999-999999999
+i rheMac2.chr4 I 3 C 0
+s calJac1.Contig1260 8640 192 - 523245 ----GAGACTTGTAAcaagaa------------------------ttgcaaacacggctgcctgcaggggccagg-aggcaatgtcagaagctgcagtgtgg----gggcgtat-ga--cagtagggagtggtggagactgcggcaaacccaaag--------------------------------------acatgtgttgt---ctgattcctgctgattgtagatgtaaagtttccagagcatctgatttttg-taa-tttttttat
+i calJac1.Contig1260 I 3 C 0
+s equCab1.chr31 13008167 198 + 24938454 ----GAGACTTGCAAcaagag------------------------ttgcaaactcagatgccaacaggagacaggtgggcaatgtcagaaatttgaaatttg----ggtcatgt-gagacaatagggagtggtggagactgtagcaaacccaaag--------------------------------------acacatttact-gctcagtttctgctgactctggacctaccgttttcagatcttctactttttGAttt-ttgtttttt
+q equCab1.chr31 ----99999999999999999------------------------999999999999999999999999999999999999999999999999999999999----99999999-9999999999999999999999999999999999999999--------------------------------------99999999999-99999999999999999999999999999999999999999999999999999999-999999999
+i equCab1.chr31 I 3 I 4
+s canFam2.chr1 78213826 196 - 125616256 ----CAGACTTGGAAcaggag------------------------ttgcaaactcagaggcctacagtggccagacaggcagtgtcagaaattgaaatgtag----gactatgt-gagtcagtaggaagtggtaaagagtgtggcaaacccaaag--------------------------------------acatattcattggctcagtttctgctga--caggacctacagtttccagatcttctgatttttg-ttg-ttgtttgct
+q canFam2.chr1 ----99999999999999999------------------------999999999999999999999999999999999999999999999999999999999----99999999-9999999999999999999999999999999999999999--------------------------------------9999999999999999999999999999--9999999999999999999999999999999999-999-999999999
+i canFam2.chr1 I 3 I 9
+e bosTau3.chr9 13664238 2325 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=7182.000000
+s mm9.chr10 3147885 69 + 129993255 TAAAAAAAAACAAAAAAAAAAAAACTGGAAATCT--GTTTATGGT---------------------TGGTATTTCCCAA-TGTTAAGAAAA----CT
+s rn4.chr1 229964615 60 - 267910886 T---------TCAAAAGAAAACAGCTGGAAATCT--GTATGTGGT---------------------TGGTATTTCCCAA-TGTTAAGAAAA----CT
+q rn4.chr1 9---------999999999999999999999999--999999999---------------------9999999999999-99999999999----99
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 43271 47 - 139458 -------------------------TGGAAATCTGGGTTTCTGTG---------------------TGATGTTTCCCAGTTTTTAGGCGCT----CT
+q oryCun1.scaffold_214769 -------------------------99999999999999978989---------------------9999999999997799999899996----44
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16038730 66 - 170899992 t---------cttgtcaaatgaagctgtaaatctgggtttctatg---------------------tgacatttcccag-tgttcacaaaattgtct
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16561038 66 - 173908612 t---------cttgtcaaatgaagctgtaaatctgggtttctatg---------------------tgacatttcccag-tgttcacaaaattgtct
+q panTro2.chr6 9---------99999999999999999999999999999999999---------------------9999999999999-99999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108446637 66 + 167655696 T---------CTTGTCAAATGAAGCTGTAAATCTGGGTTTCTATG---------------------TGACATTTCCCAG-TGTTCACAAAATTGTCT
+q rheMac2.chr4 9---------99999879899999999999999999456666666---------------------6999989999999-99999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 8832 66 - 523245 t---------cttgtcaaatgaagctgtaaatctgggtttctatg---------------------tcctatttcccag-tgttcacaaacttgtct
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78214031 46 - 125616256 -------------------------tagaaatctggttttggaca---------------------tgacattttccag-tttgtagaaaa----ct
+q canFam2.chr1 -------------------------99999999999999999999---------------------9999999999999-99999999999----99
+i canFam2.chr1 I 9 C 0
+s equCab1.chr31 13008369 26 + 24938454 -------------------------taaagat-tggccctgagc----------------------taacat-----------------------ct
+q equCab1.chr31 -------------------------9999999-99999999999----------------------999999-----------------------99
+i equCab1.chr31 I 4 C 0
+s bosTau3.chr9 13666563 49 - 95030419 -------------------------TAAAAAA--------AAACAAAAAAAAAAACCCAAaaaactcaacat-----------tcagaaaa----ct
+q bosTau3.chr9 -------------------------9999999--------99999999999999999999999999999999-----------99999999----99
+i bosTau3.chr9 I 2325 I 2858
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=-20543.000000
+s mm9.chr10 3147954 44 + 129993255 GTAGC------------TTCttt--gtttg------------------------------------tttgtttgt---------ttgtttTGTTTTG---------------------------TTTTTT
+s rn4.chr1 229964675 29 - 267910886 GTTG-----------------------------------------------------------------GTGTTT---------TTGTTTTGGTTTT---------------------------GTTTTT
+q rn4.chr1 9999-----------------------------------------------------------------999999---------9999999999999---------------------------999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 43318 83 - 139458 ATAGT------------TCTTTTAGGCTTGGAGCAAATGA--------------------------TTTATCTGTGGACAGCCGTTGTCAGGTATTG----TCTCATTGCAAAAACACC-----TTTGTG
+q oryCun1.scaffold_214769 29979------------98999989999997975423422--------------------------4142759999978679955997937999524----299659999889879779-----999524
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16038796 123 - 170899992 atagc--ttttt-----tttttttgacgtagaccaaacaaaacatatctatggaccagtttgcaatttcctctgTGGACAGCCATGGTCAGGTGTTAATTGTCCAGTGAGAAGCGCACCTGTAAGATGTG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16561104 125 - 173908612 atagcttttttt-----tttttttgatgtagaccaaacaaaacatatctatggaccagtttgcaatttcctctgTGGACAGCCATGGTCAGGTGTTAATTGTCCAGTGAGAAGCGCACCTGTAAGATGTG
+q panTro2.chr6 999999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108446703 116 + 167655696 ATAGC-----TT-----TTATTTTGACACAGACCAAACAAAACGTATCT----GCCAGTTTGCAGTTTCCTCTGTGGACAGCAGTGGTCAGGTGTTAATTGTCCAGTGAGAAACGTACCTGTAAGATGTG
+q rheMac2.chr4 99999-----99-----99999999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 8898 118 - 523245 atagc------------tttttttgccatagaccaaacaaaacatatctgtggaccagtttGCAATTTCCTCTGTGGACAGCCATAGTCAGGTGTTAGTTGTCCAGTGAGACCTATACCTGTAAGATATG
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78214077 65 - 125616256 ---------gtttacagtttttttggcatgggacaaacaaaatacatctgcaggccagTTTGTAATTCCCTCTG--------------------------------------------------------
+q canFam2.chr1 ---------99999999999999999999999999999999999999999999999999999999999999999--------------------------------------------------------
+i canFam2.chr1 C 0 I 1
+s equCab1.chr31 13008395 24 + 24938454 ---------gttgccagtcttatt-----------------------------------------ttccttctt--------------------------------------------------------
+q equCab1.chr31 ---------999999999999999-----------------------------------------999999999--------------------------------------------------------
+i equCab1.chr31 C 0 I 180
+e bosTau3.chr9 13666612 2858 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=38813.000000
+s mm9.chr10 3147998 80 + 129993255 -GAGTAAACTGGCTTCCTATGTAGTAATT---CTTGAGTTAAGTGCCTCCTTTTC-AGCCTGCAGTT--------CATCA--------------TAGTTTACCTGTT-----
+s rn4.chr1 229964704 81 - 267910886 -GAGTAAACTGGCTTCCTATGCAGTAATT---CTTTGGTTAAGTGCCTCTTTTTTTAACCTGCAGTC--------CGTCC--------------TGGTGTACCCATT-----
+q rn4.chr1 -9999999999999999999999999999---99999999999999999999999999999999999--------99999--------------9999999999999-----
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 43401 82 - 139458 -GATAAAATTGGCTT----TATAGTAATTTGCCATCTATTTAGTAGGTCTTTTAT-AGCCTATAATT-----TCACTTTG--------------CTGTTTACCTAAT-----
+q oryCun1.scaffold_214769 -38999893322289----769999992249998979969755763999999999-99998999999-----68312668--------------5542664866778-----
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16038919 81 - 170899992 -AATAAAATTGGCTG----CATAGTAATTAATCAGCTATTCAGTAAA-CTTTTTT-AATGTATAATT-----TGTTTTTC--------------CTATTTACCTAAT-----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16561229 81 - 173908612 -AATAAAATTGGCTG----CATAGTAATTAATCAGCTATTCAGTAAA-CTTTTTT-AATGTATAATT-----TGTTTTTC--------------CTATTTGCCTAAT-----
+q panTro2.chr6 -99999999999999----9999999999999999999999999999-9999999-99999999999-----99999999--------------9999999999999-----
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108446819 82 + 167655696 -AATAAAATTGGCTA----CGTGGTAATTCATCAGCTATTTAGTAAACCTTTTTT-AATGTGTAATT-----TGTTTTTC--------------CTATTTACCTAAT-----
+q rheMac2.chr4 -99999999999999----959999999999999999999999999999999999-99999999999-----99999999--------------9999999999999-----
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 9016 82 - 523245 -AATAAAATTGGCTA----CATAGTAATTCATCGGCTATTTAGTAAACCTTTTAA-AATGTATAATT-----TGTTTGTC--------------CTCTTTACCTAAT-----
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78214143 103 - 125616256 GGACAGCCATGGTCA----AGTGTTAATG----CCCGAGTGAGAAACATACCTGT-AAGATGTGAATACAGTTGGCTTTCTAGTAATTCATCAGTTATTTAGAAAATCTGTT
+q canFam2.chr1 999999999999999----9999999999----9999999999999999999999-99999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 1 I 30
+e bosTau3.chr9 13666612 2858 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008419 180 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=55245.000000
+s mm9.chr10 3148078 41 + 129993255 -TTCCATTACTTCTAAGATTGCAACACACAGTTGTAATCAGT-
+s rn4.chr1 229964785 36 - 267910886 -TCCC-TTACTTCTAAGAT-GCAACATTTGCATGC---CAGT-
+q rn4.chr1 -9999-9999999999999-999999999999999---9999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 43483 40 - 139458 -TCCA-TTATTTCTAAAGTTGCAACACACAATTGTATTTAGT-
+q oryCun1.scaffold_214769 -9765-897399786577677867846775748623314435-
+i oryCun1.scaffold_214769 C 0 I 4850
+s hg18.chr6 16039000 40 - 170899992 -TCCG-TTATTCCTAAAATTGCAACATGTAATTCCATGCAGG-
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16561310 40 - 173908612 -TCCG-TTATTCCTAAAATTGCAACATGTAATTCCATGCAGG-
+q panTro2.chr6 -9999-999999999999999999999999999999999999-
+i panTro2.chr6 C 0 I 1
+s rheMac2.chr4 108446901 40 + 167655696 -TCCG-TTATTCCTAAAATTGCGACGTGTAATTCCATGCAGG-
+q rheMac2.chr4 -9999-999999999999999999999999999999999999-
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 9098 40 - 523245 -TCCG-TTATTCCTAAAACTGCAACATGTAATTCCATGAAGG-
+i calJac1.Contig1260 C 0 I 1
+s canFam2.chr1 78214276 42 - 125616256 TTCCA-TTATTTCTGATGTTGGAATGCATAGTTCCATGCAGGT
+q canFam2.chr1 98999-9888999999998889999999989899999999999
+i canFam2.chr1 I 30 C 0
+s bosTau3.chr9 13669470 42 - 95030419 TTCTC-TTATTTCTAGTATTGTAATATGTAATTCCCTACAAGT
+q bosTau3.chr9 99999-9999999999999999999999999999999999999
+i bosTau3.chr9 I 2858 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008419 180 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=96133.000000
+s mm9.chr10 3148119 78 + 129993255 ATTGATAAGGT-GGATCACCCTTGCCTGGGTGGACCCAGAAGACCTCTGGGTAGCTATTGCTCAGTGAGAATACAGGCC-
+s rn4.chr1 229964821 78 - 267910886 ATTGATAAGAT-GGCTCACCCTTGCCTGGGTGGACCCAGAGGACCTCTGGGTAGCTGTTACTCAGTGAAGATACGGGCG-
+q rn4.chr1 99999999999-9999999999999999999999999999999999999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16039041 79 - 170899992 ATTATTTAGCCAGAAACACTCATGCCCTGATGTATTCAGCAAACCACTGAATAGTTACTCTTCAGGGTAAAAACAGGAA-
+i hg18.chr6 I 1 I 1
+s panTro2.chr6 16561351 79 - 173908612 ATTATTTAGCCAGAAACACTCATGCCCTGATGTATTCAGCAAACCACTGAATAGTTACTCTTCAGGGTAAAAACAGGAA-
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999999999-
+i panTro2.chr6 I 1 I 1
+s rheMac2.chr4 108446942 79 + 167655696 ATTATTTAGCCAGAAACACTCATGTCCTGATGTACTCAGCAAGCCACTTAATAGTTACTCTTCAGGGTAAAAACAGGAA-
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999-
+i rheMac2.chr4 I 1 I 1
+s calJac1.Contig1260 9139 79 - 523245 ATTATTTAGGCAGAAACACTCATGCACTGATGTACCCAGCAAGCAACCGAATAGTTACTCCTCAGGGTGAAAACAGGGG-
+i calJac1.Contig1260 I 1 I 1
+s canFam2.chr1 78214318 80 - 125616256 ATTGTTAGGTCAAAAAGCCCAATGCTTTAATGGACATAGCAGATCATTAGGTAGTTACCCATCAGTGTGAAAACAGGAAT
+q canFam2.chr1 99999999999999999999999999999999999999999888999999999999899999998999999999999999
+i canFam2.chr1 C 0 I 45
+s bosTau3.chr9 13669512 80 - 95030419 ATTATTAAGCCAGAAATACCAATGCCTTGATGAACCCAGCAGACCATGGAGTAGTTACTCTTTAGTGTGAAAACAGGAAT
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 45
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008419 180 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 74403 1338 - 219823 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_214769 43523 4850 - 139458 I
+
+a score=44977.000000
+s mm9.chr10 3148197 42 + 129993255 TTGGGTTCTCTTGGCTCAGTTCACCT--------------------------------ACAGGAGCTGTTTCTG
+s rn4.chr1 229964899 74 - 267910886 CTGGGCTTTCTTGGTTCAATTTATCTCCAGAGTCCTGGATATGCAGTCGTGGCCCCCAGCAGGAGCTGTTTCTA
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_197619 48534 35 + 79436 TTGTGTGGTGTTGGCCCAG---------------------------------------ACAGAGGCTGTTTCTG
+q oryCun1.scaffold_197619 7343526535424557643---------------------------------------7743345535588555
+i oryCun1.scaffold_197619 I 2969 C 0
+s hg18.chr6 16039121 73 - 170899992 TCGGCTTCTCTTGGTTGAGTTTACCT-CCCCATAGTGGCTATATAATATTGGCCTCTGATGGGAGCTGTTTGTG
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16561431 73 - 173908612 TCGGCTTCTCTTGGTTGAGTTTACCT-CCCCATAGTGGCTATATAATATTGGCCTCTGATGGGAGCTGTTTGTG
+q panTro2.chr6 99999999999999999999999999-99999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1 C 0
+s rheMac2.chr4 108447022 73 + 167655696 TTGGCTTCTCTTGGTTGAGTTTACCT-CCCCATAGTGGCTGTATAATATTGGCCTCTGACAGGAGCTGTTTGTG
+q rheMac2.chr4 99999999999999999999999999-99999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 9219 72 - 523245 TTGGCTTCTC-TGATTGAGTTTACCT-ACACATAGTGGCTGTATAATAGTGGCCTCTGACAGGATCTATTTGTG
+i calJac1.Contig1260 I 1 C 0
+s bosTau3.chr9 13669637 26 - 95030419 ------------------------------------------------TTGGTGCCTGACAGAAAGTGTTTCTG
+q bosTau3.chr9 ------------------------------------------------99999999999999999999999999
+i bosTau3.chr9 I 45 C 0
+s canFam2.chr1 78214443 26 - 125616256 ------------------------------------------------TTGGCCCTTGACAGGAACTGTTTCTG
+q canFam2.chr1 ------------------------------------------------99999999999999999999999999
+i canFam2.chr1 I 45 C 0
+s felCat3.scaffold_217398 75741 26 - 219823 ------------------------------------------------TTGGCTCCTGACAGGAACTGTTTCTG
+q felCat3.scaffold_217398 ------------------------------------------------79999999997999999999999999
+i felCat3.scaffold_217398 I 1338 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008419 180 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=339236.000000
+s mm9.chr10 3148239 290 + 129993255 CCTGTATTGTGAAATTTCAGGTGAC-------------------------------TTAAATTGTATTATGTTTCTAA--GCTTGAGGGCAGCTTGGTGGGGTTGTTATTGGATTATTAAATC--ACCAATTGTCATAAAGTTCCTTTTAATTCTCACAGTGCTCTAAATTGTCAAACAGAACCAG---------------GAAATACTGATCCCAGGACTTTAAAA---AATTGGAGTACCACTCCTCCATGATAAAAAATTAAGAGACTACTCTCGACA--AATTATGGGTCACTTTAACTTTTCAGTTTGATTTGTAAGTGGATATGTG---ATGCACAGACTTA--------
+s rn4.chr1 229964973 277 - 267910886 TCTGTATTTTGAAATTTTAGGTGAC-----------------------------ACTTAAATTGTATTATATTTCTAT--GCTTAGGGGCAACTAAATGGGGTCGTTATTGGATTA---AATC--ACCATTT--------------TTTTCCCCTCACAATGCTCTGAATCGGCAAACAGAACCAG---------------GAAATACCGATCTCAGTATTTAAAAACAAAATTGGAGTACCACTCCTCCATGATAAAAATTTT-GAGACTACTCTCAACA--AATTACGGGTCATTTTAATTTTTCAGTTTGATCTGTAAATGTATAGATA---ATGGACAGGCTGA--------
+q rn4.chr1 9999999999999999999999999-----------------------------999999999999999999999999--999999999999999999999999999999999999---9999--9999999--------------9999999999999999999999999999999999999999---------------999999999999999999999999999999999999999999999999999999999999999-9999999999999999--9999999999999999999999999999999999999999999999999---9999999999999--------
+i rn4.chr1 C 0 I 183
+s oryCun1.scaffold_197619 48569 296 + 79436 TTTGTCCAGAAAAATTACATGTGCA-----------------------------GCTTAAAATGGGTGTGTGTTCCAA--GTTTCTGTGCTGGCTTGTGGGCTCCGGTTTGAATTAGTAAATT--GTGAGTTGAC-TCAAGTCCTTTTTTTTCTTTACAGTTCTCTAAATAGGGAAACAAAACAAGACAAA-----CAAGAAAAGCACTAGCTTCAGTATTTA-------AACTGGGGCATTA----TCTCAGAATACAGTTTA-CAAACCTCT-TCAACGACAACTATGTGATGCTTTAACTTTTCAGTTTGCTTTGTGACTGTGTGCACATGTGTGTACCTACGTA--------
+q oryCun1.scaffold_197619 9734776337888373677344655-----------------------------456557882455453536863772--3598754566455585555766997777735997975999966--5355566699-9995399999999999999999539999999999899999899998998999999-----996899979999976999967999999-------9998999999999----99995799999899999-999999999-9999989999999999999999999999999999999999999999999999999997999999999999999--------
+i oryCun1.scaffold_197619 C 0 C 0
+s hg18.chr6 16039194 287 - 170899992 TTTGCACAGAAAGTTTTCACATATC-----------------------------ACCTAAAATAGGGAGTGTGCCCCC--ATCTCTGTGCTGGTTAGTGGGGTCCTACGTAAATTAGTAAGTT--ATCTGTTGAC-TCAAGGTTCTTTCCATCTTCAAGGTGCTCTGCATCGGGAAATGAAGCAAA----------CAAGAA--ACACCAGCTTCAGTTCTTA-------ATCCAGAATGGCACTCACCCCAAAACACAATTCACAAAACTTCT-TAAACA----CAGGAGAATATTGTAGTCTTTCAGTTTGCGTTGTAAGTATACAGGCt---atagagatacata--------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16561504 289 - 173908612 TTTGCACAGAAAGTTTTCACATATC-----------------------------ACCTAAAATAGGGAGTGTGCCCCC--ATCTCTGTGCTGGTTAGTGGGGTCCTATGTAAATTAGTAAGTT--ATCTGTTGAC-TCAAGGTTCTTTCCATCTTCAAGGTGCTCTGCATCGGGAAATGAAGCAAA----------CAAGAAACACACCAGCTTCAGTTCTTA-------ATCCAGAATGGCACTCACCCCAAAACACAATTTACAAAACTTCT-TAAACG----CAGGAGAATATTGTAGTCTGTCAGTTTGCGTTGTAAGTATACAGGCt---atagagatacata--------
+q panTro2.chr6 9999999999999999999999999-----------------------------999999999999999999999999--9999999999999999999999999999999999999999999--9999999999-99999999999999999999999999999999999999999999999999----------999999999999999999999999999-------99999999999999999999999999999999999999999999-999999----99999999999999999999999999999999999999999999999---9999999999999--------
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108447095 291 + 167655696 TTTGCACAGAAAGTTTTCACATATC-----------------------------ACCTAAAATAGGAAGTGTGCCCCCCGATCTCCATGCTGGTTAGTGGGGTCCTGTGTCAATTAGTAAGTT--ATCTGTTGAC-TCAAGGTTCTTTCCATCTTCAAGGTGCTCTGCATGGGGAAATGAAACAAA----------CAAGAAACATACCAGCTTCAGTTCTTA-------ATCCAGAATAGTACTCACCCCAAAACACAATTTACAAAACTTCT-TAAACA----CTAGAGAATATTGTAGCCTTTCAGTTTGCATTGTAAGTATACAGACT---ATATAGATACATA--------
+q rheMac2.chr4 9999999999999999999999999-----------------------------999999999999999999999999999999999999999999999999999999999999999999999--9999999999-99999999999999999999999999999999999999999999999999----------999999999999999999999999999-------99999999999999999999999999999999999999999999-999999----99999999999999999999999999999999999999999999999---9999999999999--------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 9291 287 - 523245 TTTGCACAGAAAGTTTTCACATATC-----------------------------ACCTAAAATAGGAAGTGTGTCCCC-AATCGCAGTGCTGGTTA--GGGGTCCTGTGTAAATTAGTAAGTC--ATCTGTTGAC-TCAAGGTTCTTTCCGTCTTCATGGTGCTCTGCATCAGGAAATGAAACAAA----------CAAGAAACACACTAGCTTCAGCACTTA-------ATCCAGAATAGTCTTCACCCCAAAGCACTATTTATAAAACTTCT-T-AATG----TTAGAGAATATTGTAGCCTTTCAGTTTGCACTGTAAGTATACAGACT---ATATGAATACATA--------
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78214469 307 - 125616256 TTTGTACAGAAAGATTTCATTCATACATAAATTCATCCCTTTGTACGGAAAGATTTTTAAAGTAGGGTATCTGTTCCG-AATCTTTGTGCTAGTTTGTGGGGTCCTGTTTGATTTAGTAAGTTTAAACAGTTGAT-GTAAGGT-CT------TTTCAGGG-----TGAATTGGAAAACAAAACAAAACAAG------AAGAAAAGCACTAGCATTAGTAC-----------------------ATCACTCCAAAATGCAATCTAC-AAATTTCT-CAACAA-TAATTATGGATTGTTTTAAACTTTTGGTTTGCTGTATAAGTAAAAAGTCc---atgtatatgtataataataca
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999-9999999-99------99999999-----99999999999999999999999999------99999999999999999999999-----------------------9999999999999999999999-99999999-999999-99999999999999999999999999999999999999999999999999---999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 75767 335 - 219823 TTTGTGCAGAAAGAGTTCATTCATACATAAATTCATTCCTTTGTACAGAAGGA-TTTTAAAGTAGGGTGTATGTTCCA-AATTTTTGTGCTAGTTTGTGGGATCCTGTTTGATTTAGTAAGTT--GTCAGTTGAC-TTAAGGT-CTTTCTA-TTTCGTGGTGCTCTGAATTGGGAAACAAAAGAAAACAAAAAAAACAAGAAAAACACTAGTGTTAGTACTTA-------CACCGGGGTAGAACTCACTCCAAAATGCAATCTAC-AAATTTTT-CGGGGA-TAATTATAGAATATTTGAATCTTTTGGTTTGCTTTGTAAGTAAATAGTCC---GTATATGTGTGTATTAACAC-
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999999999-999999999999999999999999-99999999999999999999999999999999999999999999--9999999999-9999999-9999999-99999999999999999999999999999999999999999999999999999999999999999999999-------99999999999999999999999999999999999-99999999-999999-99999999999999999999999999999999999999999999999999---99999999999999999999-
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13008599 289 + 24938454 ccTGTACAGAAAGATTTTATGTATC-----------------------------ACTTGAAATAGGGCAGATTCCCCA-AATTTCTGTGCTGGTTGGTTGGGTCCTGTTTGAAGCAGGAAGGT--GTCAGTTGAC-TCAAGGT-CTTTCCGTCTTCATGGTGCTCTGAACTGGGAAACAAAACA-------------AAGAAAAGCACTAACTTTAGTACCTA-------AACTGGAATAGTACTCAGTCGAAAGTACAATCTAC--GATTTCA-TAAGAA-AAACTATGGAGTATTTTGACCTTTC-ACTTGCTTTGTAAGTGAACAGACC---CCCCCC-----CCCCCACACA
+q equCab1.chr31 9999999999999999999999999-----------------------------999999999999999999999999-99999999999999999999999999999999999999999999--9999999999-9999999-9999909999999999999999999999999999999999-------------99999999999999999999999999-------99999999999999999999999999999999999--9999999-999999-9999999999999999999999999-999999999999999999999999---999999-----9990999999
+i equCab1.chr31 I 180 C 0
+s bosTau3.chr9 13669663 297 - 95030419 TCTGTACAGTAAGATTTTATGTATAAAATAAAACATACA---------------CCCTGAAATAAGGCATTTGCTCCT-AACTTCTCTGTGGGCTTTTGTGGTCGTGTTTGAA-----AATTT--ACCAGTCTAC-TCAAGGT-CTTTCTGTCTTCCCGGTGTGCTGAATTGGGAGACAGAC---------------AGGGAAAGCAGTAG--TCAGTGCTCA-------CGCTGGGGCAGTACTCACCCCAAAATGCAGTCCACAAAACTTCA-CGACAA-AGATTTCAGGGTATTTCAGTGTCCTAGCTTGCTTTGTAAATAAACAGTCC---ATTTGT-----AAATGAACAG
+q bosTau3.chr9 999999999999999999999999999999999999999---------------999999999999999999999999-9999999999999999999999999999999999-----99999--9999999999-9999999-99999999999999999999999999999999999999---------------99999999999999--9999999999-------99999999999999999999999999999999999999999999-999999-99999999999999999999999999999999999999999999999999---999999-----9999999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=-51383.000000
+s mm9.chr10 3148529 63 + 129993255 AGTATAT-GTATGAATAC-A----------GATTGCA--CACATGTTTATCTCTGTGCACACACAC------------------ATAGGAGCAGG
+s rn4.chr1 229965433 65 - 267910886 aGTATAT-GTGTGAACAC-A----------GATTGTATGCACACATTTATCTATATGCACGTATGC------------------ATAGGAGCAGG
+q rn4.chr1 9999999-9999999999-9----------999999999999999999999999999999999999------------------99999999999
+i rn4.chr1 I 183 C 0
+s oryCun1.scaffold_197619 48865 25 + 79436 AGCATGT-ACATGCA------------------------CACCTGTCTAT---------------------------------------------
+q oryCun1.scaffold_197619 9999999-9999999------------------------99997999999---------------------------------------------
+i oryCun1.scaffold_197619 C 0 n 0
+s hg18.chr6 16039481 46 - 170899992 agtgtat-atacacacat-atacagataaacatacca--tacatatTTAT---------------------------------------------
+i hg18.chr6 C 0 I 1590
+s panTro2.chr6 16561793 46 - 173908612 agtgtat-atacacacat-atacagataaacatacca--tacatatTTAT---------------------------------------------
+q panTro2.chr6 9999999-9999999999-999999999999999999--99999999999---------------------------------------------
+i panTro2.chr6 C 0 I 1589
+s rheMac2.chr4 108447386 47 + 167655696 AGTCTAT-ATACACACATAATACAGATAAACATACCA--TACTTATTTAT---------------------------------------------
+q rheMac2.chr4 9999999-99999999999999999999999999999--99999999999---------------------------------------------
+i rheMac2.chr4 C 0 I 1543
+s calJac1.Contig1260 9578 18 - 523245 AGTGtat-atacacatat-a---------------------------------------------------------------------------
+i calJac1.Contig1260 C 0 I 3132
+s canFam2.chr1 78214776 56 - 125616256 --tatataacatgcatat-a----------cagaaca--catacacacac----------------gtatatacatacaaacatata--------
+q canFam2.chr1 --9999999999999999-9----------9999999--99999999999----------------999999999999999999999--------
+i canFam2.chr1 C 0 I 1696
+s felCat3.scaffold_217398 76102 34 - 219823 -----ATAACATAAGTAT-A----------CAGACTA--TACACATGTGT----------------AT---------------------------
+q felCat3.scaffold_217398 -----9999999999999-9----------9999999--99999999999----------------99---------------------------
+i felCat3.scaffold_217398 C 0 I 1505
+s equCab1.chr31 13008888 45 + 24938454 --CACAT-ACACAAGTAT-A----------CAGACTA--TACACATACAT----------------GCATATATGTT------------------
+q equCab1.chr31 --99999-9999999999-9----------9999999--99999999999----------------99999999999------------------
+i equCab1.chr31 C 0 I 2183
+s bosTau3.chr9 13669960 40 - 95030419 --TGTat-gtatgtgtgt-a----------taaac-----acacacacat----------------a--------------------aatgtaag
+q bosTau3.chr9 --99999-9999999999-9----------99999-----9999999999----------------9--------------------99999999
+i bosTau3.chr9 C 0 I 595
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 37978 3312 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+
+a score=6536.000000
+s mm9.chr10 3148592 49 + 129993255 ATTGTAATTGAACTGAAACCCGTCTCCAGGCAGCCTACAC--GCTCCGTGA
+s cavPor2.scaffold_284118 41290 51 - 169015 GGTTAGATTTAATTGGAGCCCGTCTCTAGGAAGCCTGCAATTTCACGGGGA
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 I 3312 C 0
+s rn4.chr1 229965498 51 - 267910886 ACTGTAATTGAACTGAAGCCTGTCTCCAGGCAGCTTACACTTGCTCAGTGA
+q rn4.chr1 999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e rheMac2.chr4 108447433 1543 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 76136 1505 - 219823 I
+e canFam2.chr1 78214832 1696 - 125616256 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16039527 1590 - 170899992 I
+e panTro2.chr6 16561839 1589 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=-4656.000000
+s mm9.chr10 3148641 56 + 129993255 GATAAT----------------G-TTATGGACACTCTCTGTAG------------------------------GTGGAGCACATGGTCCGGTGCATGCTTTTC
+s rn4.chr1 229965549 87 - 267910886 TATGAT----------------GCTTATGGAAGCTCTCTGTAGCATGCCAGTCCTTTGCACCGAGAATTATATGTGGAATACATGGTTAGGTACATGTTTTTC
+q rn4.chr1 999999----------------999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 41341 44 - 169015 GACAAGCAGTTAGCAGCGGACAG-TTATTGAGATTCTCTCTGG------------------------------GT----------------------------
+q cavPor2.scaffold_284118 99999999999999998998999-9999899989999999899------------------------------79----------------------------
+i cavPor2.scaffold_284118 C 0 I 1886
+s rheMac2.chr4 108448976 59 + 167655696 GGTAAC----------------G-TCATG---------TATAG------------------TGAGGGCTGCACGTCTAACAGGTGGCCAGGTAAGTCTTTTGG
+q rheMac2.chr4 999999----------------9-99999---------99999------------------999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1543 C 0
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 76136 1505 - 219823 I
+e canFam2.chr1 78214832 1696 - 125616256 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16039527 1590 - 170899992 I
+e panTro2.chr6 16561839 1589 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=64339.000000
+s mm9.chr10 3148697 192 + 129993255 AGTCTTTTT-----------GAACCA---TTTGTGGTCCACTGCTGCTGATGACATTTGCTCTTAGATCACGGGATAATTAAGTAACAGGAATTAACAGGGAGGTTGGGAAA--GATG---TGGGGACAGGGCTATG-AAAGTGAGTAGGCCTTAGTAGGGG------AGATATG------GGTGGAAGCTGAGAGACCAGTTGTGAAT---AGTAGAGTCCCTTCT
+s rheMac2.chr4 108449035 199 + 167655696 ----------GGTGATCTGTGAATCACACTTTGTGAGACACTGACTGTTAGCGAGTTTGTTCTGAATTCACTAGATAATAGG-------GATATAATACAGAGCTTTGAAAGGTGATGTCTTGATGAC--AGCCGTG-GCAATGGGGAGGGTTGAGGAGGTGGCTGTTGGACCTGTCTCCTGGTGAGAGTTGAAAGGGCC----TGAACTCAAGCAGAGGCCT----
+q rheMac2.chr4 ----------999999999999999999999999999999999999999999999999999999999999999999999999-------999999999999999999999999999999999999999--9999999-99999999999999999999999999999999999999999999999999999999999999----9999999999999999999----
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16563428 211 - 173908612 AGTCTTTTGGGGTGGTCTGTGAATCACAGTTTGGGAGACATTGACTTTTAGGGAGTTTGTTCTGAATTCACTAGATAATAGA-------GATATAATACAGAGCTTTGAAAGCTGGTGTCTTGATGACAGAGCCGTG-GCAATGGGGAGGGTTGAGGAGGTGGCTGTTGGGCCTGTCTCCTGGTGAGAGTTGAAAGGGCC----TGAACTCAAGCAGAGGCCT----
+q panTro2.chr6 9998999999999999999999999999999796999999899999999999999999999989999999999999999999-------999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999989999999999999999----9999999999999999999----
+i panTro2.chr6 I 1589 C 0
+s hg18.chr6 16041117 211 - 170899992 AGTCTTTTGGGGTGGTCTGTGAATCACAGTTTGGGAGACATTGACTTTTAGGGAGTTTGTTCTGAATTCACTAGATAATAGA-------GATATAATACAGAGCTTTGAAAGCTGGTGTCTTGATGACAGAGCCGTG-GCAATGGGGAGGGTTGAGGAGGTGGCTGTTGGGCCTGTCTCCTGGTGAGAGTTGAAAGGGCC----TGAACTCAAGCAGAGGCCT----
+i hg18.chr6 I 1590 C 0
+s rn4.chr1 229965636 184 - 267910886 AGTCTTTTT----------TGAATAA---TTTGTGGTCATCTGCTGTTGACAACATCTGCTCTTAAATCATGAGATAAT----------GAGATAACACAGAGGTCGGGAAA--GATG---TTGGGACAGGGCTATGGAAAGTGAGGAGCCCTTAGTATGAG------AGGCATG------GGTAGAGGCTGAGGGAGCAGTTGTGAAT---AGTAGAGCCCCTTCA
+q rn4.chr1 999999999----------9999999---99999999999999999999999999999999999999999999999999----------99999999999999999999999--9999---99999999999999999999999999999999999999999------9999999------9999999999999999999999999999---999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 76136 1505 - 219823 I
+e canFam2.chr1 78214832 1696 - 125616256 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 41385 1886 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=8730.000000
+s mm9.chr10 3148889 60 + 129993255 AGAGGGCAGAATTGAG-------GAGAGGCCACA----------CCTCAGAGGAACACTCT-AAAACCTCCGTAGGGT
+s rn4.chr1 229965820 34 - 267910886 CTAGGGCAGAACCGAG-------GAGAGGCCATA----------CCCCAGA---------------------------
+q rn4.chr1 9999999999999999-------99999999999----------9999999---------------------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16041328 70 - 170899992 ------CAGAACCGAAAGGTGGTGGAAGGATGCAGCAAGAGGCGCCACACAGGAGTACTC--TGCGCCCTGGCAGGGT
+i hg18.chr6 C 0 I 27
+s panTro2.chr6 16563639 70 - 173908612 ------CGGAACCGAAAGGTGGTGGAAGGATGCAGCAAGAGGCGCCACACCGGAGTACTC--TGCGCCCTGGCAGGGT
+q panTro2.chr6 ------999999999999999999999999999999999999999999999999999999--9999999999999999
+i panTro2.chr6 C 0 I 27
+s rheMac2.chr4 108449234 71 + 167655696 ------CGGAACCGAAAGGTGG-GAAAGGATGCAGAGAGAGGCGCCGCATAGGAGTCCTCTGTGTGCCCTGGCAGGGT
+q rheMac2.chr4 ------9999999999999999-9999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 27
+s felCat3.scaffold_217398 77641 59 - 219823 -------------------AGGGAAAAGAATGGTGAGAGAGGCACCGCCCAAGAGTGACCTGGAAGCCCCAGGAGGGT
+q felCat3.scaffold_217398 -------------------99999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 I 1505 I 20
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e canFam2.chr1 78214832 1696 - 125616256 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 41385 1886 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=31266.000000
+s mm9.chr10 3148949 56 + 129993255 GGGACTTTGAAGTCAAGGTTTT--------GTAACCCAGCATGGTG--ATATCATTAAAAAG-----------------------GTGT
+s rn4.chr1 229965854 72 - 267910886 ------CCGAAGTCAAGGTTT---------GTGACCCAGCATGGTG--GTGTCATTAAAAGGTgttctcaaatgggcagaggccccttt
+q rn4.chr1 ------999999999999999---------9999999999999999--99999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16041425 64 - 170899992 GAGAACTTTAAGTCCAGGTTTTGTGCCTCAGTGACTTAGTGTGGCC--ATATCATTAGAAAT-----------------------GTGT
+i hg18.chr6 I 27 I 354
+s panTro2.chr6 16563736 64 - 173908612 GAGAACTTTAAGTCCAGGTTTTGTGCCTCAGTGACTTAGTGTGGCC--ATATCATTAGAAAT-----------------------GTGT
+q panTro2.chr6 9999999999999999999999999999999999999999999999--99999999999999-----------------------9999
+i panTro2.chr6 I 27 I 352
+s rheMac2.chr4 108449332 66 + 167655696 GAGAACTGTAACTCAAGGTTTTGTACCTCAGTGACGTAGTGTGGCCATATATCATTAGAAAT-----------------------GCGT
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999-----------------------9999
+i rheMac2.chr4 I 27 I 352
+s canFam2.chr1 78216528 57 - 125616256 GGGACTTTCATATCCAGGTTTTGTGGCTCAGTGACTTCTCATGGCA--GCACCAGTAAT------------------------------
+q canFam2.chr1 9999999999999999999999999999999999999999999999--99999999999------------------------------
+i canFam2.chr1 I 1696 I 31
+s felCat3.scaffold_217398 77720 58 - 219823 GGGACTTCAATGTCCAGGTTTTGTGACTCAGTGACTCCACAGGGAA--GCACCAGTAAAA-----------------------------
+q felCat3.scaffold_217398 9999999999999999999999999999999999999999999999--999999999999-----------------------------
+i felCat3.scaffold_217398 I 20 I 34
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 41385 1886 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=25582.000000
+s mm9.chr10 3149005 388 + 129993255 gggtgccaaatgaccctttcacaaggggccgcctaagaccattggaaaacacagatattttcattatgatttacaacagtagcaaagttacag--------------ttatgaagtagcagtgagaataattttatagttgggagtcatcacgatgtatggaattaaattgaagagctgtatcattaggaaggctgagaaccactgTGTTAGGgggactcgtggggattggtcagtcagtaaagtttacctcataaacatgaggacctcagttcagatcctcatctcaaataaaaagctgggcgtggtcaggtatgcttcttgtccaagagctgaggaggcagtgccagacggtcctcaggc--------cagccagtctagcaggattagtgagccctggatcctagct
+s rn4.chr1 229965926 409 - 267910886 gggcgccaaatgaccctttcaca-ggggctgcctaagcccatcgggaaaaacagatatttgcattatgattcacaacagtagtaaaattacaggagcaatgagaatattttgaaggggcaatgagaatagttttatagttgggggtcgacatgatgtatgggattgtattgtagggccccatcattaggaaggctgagaaccaccgTGTGAGAgggaccaggggagaacggtcagtcagtaaagtttgccctgtaatcatgaggacctcagttcagatcctcatctcaaataaaaagctgggcatgatgatgtatgcttattgtcctagaactgaggaggcggggccagacaggtctgaggcttactggacagccagtctagcagaattggtgagcgctgggtccCAGCT
+q rn4.chr1 99999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 41
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e rheMac2.chr4 108449398 352 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 77778 34 - 219823 I
+e canFam2.chr1 78216585 31 - 125616256 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 41385 1886 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16041489 354 - 170899992 I
+e panTro2.chr6 16563800 352 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=0.000000
+s mm9.chr10 3149393 101 + 129993255 aagagaccttatctcaaaatacaaagaaaaatacaaccaagcaaaaaactctgaagagtgacacctgagcatggcctgtaccttacacacccaTTTGTGCT
+e rn4.chr1 229966335 41 - 267910886 I
+e bosTau3.chr9 13670000 595 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e rheMac2.chr4 108449398 352 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e felCat3.scaffold_217398 77778 34 - 219823 I
+e canFam2.chr1 78216585 31 - 125616256 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 41385 1886 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16041489 354 - 170899992 I
+e panTro2.chr6 16563800 352 - 173908612 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=6365.000000
+s mm9.chr10 3149494 57 + 129993255 CACACTCGCCAAAGTTAAGTTCTGGAGGGTGAGC-CCCCCTGTAGGCCCCCACCTCAG
+s rheMac2.chr4 108449750 41 + 167655696 -------TGGGTT--TAAGA--------GTGAGGACAATTTACAGATACCAATCTCAA
+q rheMac2.chr4 -------999999--99999--------999999999999999999999999999999
+i rheMac2.chr4 I 352 I 17
+s hg18.chr6 16041843 37 - 170899992 -------------TTTAAGA--------GTGAGCACAATTTACAGATACCAATCTCAA
+i hg18.chr6 I 354 I 17
+s panTro2.chr6 16564152 37 - 173908612 -------------TTTAAGA--------GTGAGCACAATTTACAGATACCAATCTCAA
+q panTro2.chr6 -------------9999999--------999999999999999999999999999999
+i panTro2.chr6 I 352 I 17
+s rn4.chr1 229966376 20 - 267910886 CACATTCATAAAAGTTAAGT--------------------------------------
+q rn4.chr1 99999999999999999999--------------------------------------
+i rn4.chr1 I 41 C 0
+s bosTau3.chr9 13670595 34 - 95030419 ----------------GGGA--------GTGAGCGCACCTTACAGGGACCACCCTCAA
+q bosTau3.chr9 ----------------9999--------999999999999999999999999999999
+i bosTau3.chr9 I 595 I 22
+s felCat3.scaffold_217398 77812 36 - 219823 --------------TGAAGG--------GTGAGCACACCTTGTAGATACCAGCTTCAA
+q felCat3.scaffold_217398 --------------999999--------999999999999999999999999999999
+i felCat3.scaffold_217398 I 34 I 20
+s canFam2.chr1 78216616 40 - 125616256 --------AGGTTC--AAGG--------ATGAACACACCTTATAGATACCAACCTCTA
+q canFam2.chr1 --------999999--9999--------999999999999999999999999999999
+i canFam2.chr1 I 31 I 20
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13008933 2183 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e calJac1.Contig1260 9596 3132 - 523245 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e cavPor2.scaffold_284118 41385 1886 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16342619 4815 - 174210431 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=56654.000000
+s mm9.chr10 3149551 28 + 129993255 AGGCGGTGCATTCTGTTTG--ATGC-ACAGT
+s cavPor2.scaffold_284118 43271 29 - 169015 AGCTGGTGCATCTTGCGTA--ATGCTAGCAT
+q cavPor2.scaffold_284118 9999999999999999999--9999999999
+i cavPor2.scaffold_284118 I 1886 C 0
+s rn4.chr1 229966396 27 - 267910886 -GATGGTGCAGTTTGTATG--GTGT-ACCAT
+q rn4.chr1 -999999999999999999--9999-99999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 12728 29 - 523245 AGATAATACATCTTCCTTG--ATACCAACAA
+i calJac1.Contig1260 I 3132 I 5
+s rheMac2.chr4 108449808 29 + 167655696 AGATGATACATCTTCCTTG--ATAGCAACAA
+q rheMac2.chr4 9897999999999999999--9999999999
+i rheMac2.chr4 I 17 I 5
+s ponAbe2.chr6 16347434 29 - 174210431 AGATGATACATCTTCCTTG--ATAGCAACAA
+i ponAbe2.chr6 I 4815 I 5
+s panTro2.chr6 16564206 29 - 173908612 AGATGATACATCTTCCTTG--ATACCAACAA
+q panTro2.chr6 9999999999999999999--9999999999
+i panTro2.chr6 I 17 I 5
+s hg18.chr6 16041897 29 - 170899992 AGATGATACATCTTCCTTG--ATACCAACAA
+i hg18.chr6 I 17 I 5
+s bosTau3.chr9 13670651 26 - 95030419 ---AGACATCTTTTGCACG--GGACCAGCAT
+q bosTau3.chr9 ---9999999999999999--9999999999
+i bosTau3.chr9 I 22 C 0
+s equCab1.chr31 13011116 26 + 24938454 ---CGATACATCTTGCATG--GCACCAACAT
+q equCab1.chr31 ---9999999999999999--9999999999
+i equCab1.chr31 I 2183 C 0
+s felCat3.scaffold_217398 77868 28 - 219823 ---AGATGCATCTTGCATGATGTACCAACGT
+q felCat3.scaffold_217398 ---9999999999999999999999999999
+i felCat3.scaffold_217398 I 20 C 0
+s canFam2.chr1 78216676 28 - 125616256 ---AGATACATCTTGCATGGTATACCAACAT
+q canFam2.chr1 ---9999999999999999999999999999
+i canFam2.chr1 I 20 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e tupBel1.scaffold_114895.1-498454 339628 3628 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_197619 48890 0 + 79436 I
+
+a score=197217.000000
+s mm9.chr10 3149579 45 + 129993255 CTTTCTGGATTCTACTCTTTAGGATGACAGAGCTCTTCCTCTCTT
+s bosTau3.chr9 13670677 45 - 95030419 CTCGCATGATTCAAACACTCTGGAAAACAGAGTGCCCTCTCTCAC
+q bosTau3.chr9 999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13011142 45 + 24938454 CTTGGCTGATTCAAACCCTTAAGAAGACACAGAGCTGTCTCTTAT
+q equCab1.chr31 999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 77896 44 - 219823 CTTGCATGATTCAAACCC-TAAGAAAACACAGTGCCCTCTCTTAT
+q felCat3.scaffold_217398 999999999999999999-99999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78216704 45 - 125616256 CTTACATGATTCAAACCCTTAAGAAAACACAGTGCCCTCTCTTAT
+q canFam2.chr1 999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s oryCun1.scaffold_214769 48373 38 - 139458 -------GATTCAAACACTTGAGAAAACACAGTGGCCTCGCTTAC
+q oryCun1.scaffold_214769 -------99999599999999999999999999999988899999
+i oryCun1.scaffold_214769 I 4850 C 0
+s tupBel1.scaffold_114895.1-498454 343256 45 - 498454 CTTGCTTGATCCAAACGTTACAGAAAACACAGTGCCTTCTCTCAA
+q tupBel1.scaffold_114895.1-498454 333353252134694534434365875545543356666765466
+i tupBel1.scaffold_114895.1-498454 I 3628 C 0
+s calJac1.Contig1260 12762 45 - 523245 TGTCTGTGATTCAAACATTTAAGGAGACACAGTGCCCTCTCCTAT
+i calJac1.Contig1260 I 5 C 0
+s rheMac2.chr4 108449842 45 + 167655696 CTTCCATGATTCAAACGTTTAAGAAAATGCAGTGCCCTCTCTTAC
+q rheMac2.chr4 999999999799999999999999999999999999999999999
+i rheMac2.chr4 I 5 C 0
+s ponAbe2.chr6 16347468 45 - 174210431 CTTCCATGATTCAAACATTTAAGAAAATGCAGTGCCCTCTCTTAT
+i ponAbe2.chr6 I 5 C 0
+s panTro2.chr6 16564240 45 - 173908612 CTTCCATGATTCAAACATTTAAGAAAATGCAGTGCCCTCTCTTAT
+q panTro2.chr6 999999999999999999999999999999999999999999999
+i panTro2.chr6 I 5 C 0
+s hg18.chr6 16041931 45 - 170899992 CTTCCATGATTCAAACATTTAAGAAAATGCAGTGCCCTCTCTTAT
+i hg18.chr6 I 5 C 0
+s rn4.chr1 229966423 45 - 267910886 CTTGCTGGGTTCTATCCTTTAAGATGACAAAGTTCCTCCTCTCTT
+q rn4.chr1 999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 43300 45 - 169015 CTTGCTTGATCTCAACAGTTAAGAAAACAAAGCACTCTCTCCTGT
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_15233 52147 5572 + 62638 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=1480713.000000
+s mm9.chr10 3149624 278 + 129993255 TGCAGGGCTCTAATTGTCTCATGTTTTAATGA-ATGCAAATCTCATGCTGTTTGGCACTTGAGATGTGTTAAGGCAGAGG-CTGTTAGCAGGAATTTGGGTCCTACACA-------GGAA------CGAGACACCCCAGATTGTTCCTATAGGT--------------GCATCCTCAGTTGTTGGCCACAGAACAGAAGAACACAGAACCTTCAGATCCTG-GGACAGG----GCTAAACAGGGCACAAATGCGGAGCTCAT-G-----------------------GAAGGA---TCCAGGAGTCTTGTCCATTGGTTAGTGAG-GT-AGCTGTTCTGGC
+s cavPor2.scaffold_284118 43345 325 - 169015 TACAGCTCTCTGATTGTCTCATGTTTTAATGAGGTGCAAATATCATACATTTTGGCACATGCAATGTGCTAAAATAGGGGAGTGTTAGATGAAGTTCAGGTTCTCAAGCTTGAGTGTGAAACGGTGCAATATACATGAATGTGACACTTTGAATCTTTCCTATGCAGCACACCCTAAGTCTTAGAC--CCGCACAAAAAAGTACAGAGGATTACAGTGCTA-TGGAGTG----GTGAGTGAAGATCTAAAAGCATTGCTGGT-CAATGC--AAAATGTATCTT----GGAGCAA-TCCCTAAACTCTTGTCCAGGCTGTAGTGAG-CTAAGCAGTGGTGGC
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999999999999999999999999998999999899999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999799999999999999999999--999999999999999989999969997999999-9999999----98999999999999999999999999999-989999--999999999999----9799989-999999999999999996999999999999-999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229966468 304 - 267910886 TGCAGGGCTCTGATTGTCTCATGTTTTAATGA-ATGCAAATGTCATTCTGCTTGGTACAGGAGCTGTGTTAAGGCAGAGGAGTGTTAGCAGGAATTAGGGTCCTCAGAC-------TGAAGTGATGTGGTACACAGGAGCACGACACCCTGGAT--------------GCATCCTGAGTGGTTGGCCACAGAACAGAAGAACAAAGAACATTCAGGCCCCA-GGACAGG----TCTAAACAGGGCACAAATGGAGTGCTGAT-GGA--C--AAGCTGTTTTCTCTCAGAAGGA---TCAGGGAGTCTCGTCTGTTGCTTAGTGCG-GT-AGCAGCCGTAGC
+q rn4.chr1 99999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999-------99999999999999999999999999999999999999--------------99999999999999999999999999999999999999999999999999999-9999999----99999999999999999999999999999-999--9--9999999999999999999999---99999999999999999999999999999-99-999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16041976 327 - 170899992 TACAGCATTCTAATTGTGTCATGTTGTAATGAGGTGCAAATATCATGCAGCCTGGCACGCGAAATGTGTTAGAATAGGGCAGTGTTAGTTAAAATTCAGGTCCTCAAGCTTGAGTGTGAAATGATGCAATGTACATGAATATGACACCCGGAATTATTTCTGTACAATGCAGCCTAAGTCATCGACTACAAAATAAAA----TCAGAGGATTAGAGACCTA-CAGGACAGCATGTCAATGGAGATCTAAAATCAGTGCTGAT-CAATGC--AAAATGCATCTT----GGCATAA-TCCCTGAAGTCTTGGCCAGTGCTTGGAGAG-ATAAGCAGTTCTGGC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16564285 327 - 173908612 TACAGCATTCTAATTGTGTCATGTTGTAATGAGGTGCAAATATCATGCAGCCTGGCACGCGAAATGTGTTAGAATAGGGCAGTGTTAGTTGAAATTCAGGTCCTCAAGCTTGAGTGTGAAATGATGCAATGTACATGAATATGACACCCAGAATTATTTCTGTACAGTGCAGCCTAAGTCATCGACTACAAAATAAAA----TCAGAGGATTAGAGACCTA-CAGGACAGCACGTCAATGGAGATCTAAAATCAGTGCTGAT-CAATGC--AAAATGCATCTT----GGCATAA-TCCCTGAAGTCTTGGCCAGTGCTTGGAGAG-ATAAGCAGTTCTGGC
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999990999999999999999----9999999999999999999-9999999999999999999999999999999999999999-999999--999999999999----9999999-999999999999999999999999999999-999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16347513 327 - 174210431 TACAGCATTCTAATTGTGTCATGTTGTAATGAGGTGCAAATACCATGCAGCCTGGCACACGAAATGTGTTAGAATAGGGCAGTGTTAGTTGAAATTCAGGTCCTCAAGCTTGAGTGTGAAATGATGCAATGTACATGAATATGACACCCAGAATTATTTCTGTACAGTGCAGCCTAAGTCATCAACTACAAAATAAAA----TCAGAGGATTAGAGACCTA-CAGGACAGCATGTCAATGGAGATCTAAAATCAGTGCTGAT-CAATGC--AAAATGCATCTT----GGCATAA-TCCCTGAAGTCTTGGCCAGTGCTTGGTGAG-ATAAGCAGTTCTGGC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108449887 327 + 167655696 TACAGCATTCTAATTGTGTCATGTTTTAATGAGGTGCAAGTATCATGCAGCCTGGCACATGAAATGTGTTAGAATAGGGCAGTGTTAGTTGAAATTCAAGTCCTCAAGCTTGAGTGTGAAATGATGCAATATACATGAATATGACACCCAGAATTATTTCTGTACAGTGCATCCTAAGTCATAGACTACAAAATAAAA----TCAGAGGATTAGAGACCTA-CAGGACAGCATGTCAATGGAGATCTAAAATCAGTGCTGAT-CAATGC--AAAATGCATCTT----GGCATAA-TCCCTGAAGTCTCGTCCAGTGCTTGGTGAG-ATAAGCAGTTCTGGC
+q rheMac2.chr4 999999999999999944466777766676666666676666667777777777777666666666676766999999999999999999999999999999999999998899999999999999999999999999999999999599999999999999999999999994999999999999999999999999----9999999999999999999-9999999999999999999999999999999999999999-999999--999999999999----9999999-999999999999999999999999999999-999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 12807 327 - 523245 TACAGCCTTCTAATTGTGTCATGTTTTAATGAGGTGCAAATATCATGCAGCCTGGCACATGAAATGTGTTAGAATAGGGTAGTGTTAGTTGAAATTCCGGTCCTCCAGCTTGAGTGTGAAATGATGCAATATACATGAATATGGCACCCAGAATTATTTCTGTACAGTGCATCCTAAGTCATAGACTACAAAATAAAA----CCAGAGGATTAGAGACCTA-CAGGACAGAATGTCAATGGGGATCTAAAATCAGTGCTGAT-CAATGC--ACAGTGCATCTT----TGCATAA-TCCCTGAAGTCTTGTCCAGTGCTTGGTGAG-ATAAGCAGGTTTGGT
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 343301 312 - 498454 TGCAGCACCCTAATCGTCTCATGTTTTAATGAGGTGTAAGTATCATGCAGCTTGGCACATGGAATGTGTGAAAATAGGGTAATGTTAGTTGAAATTCAGGTCCTCAAATGTGAGTGTGAAATGATGAAATATACATGAATATGACACCTAGAACTATTTCTGTACAGCACATCCTAAGTCATAGACTACAGAATAAAA----TTAGATGATTAGAGTCCTG-CAAGATGACATGTCAGTGAAGATTTAAAATCAGTGC--------------AAATGCACCTT----GGAGGAATTCTTTGGAATTGTGTC-----CTCAGTGAG-CTTAGCAGTTCTGGG
+q tupBel1.scaffold_114895.1-498454 435534358676554366666566996955676555576555666556656655575855566656665679967658455666546754698456877449986697686997775799669966995797499698998895667999993698899987858996675799999799898969968899999996----9999999999999679999-999999999999999989999999999979996455--------------99999889996----999999799999999999999999-----999999999-999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s oryCun1.scaffold_214769 48411 312 - 139458 TGCAGCGCTCTGATTGTCTCATGTTTTAATGAAGTGAAAATGTTGTGTGACTTGGCACAGGAAATGTGTTAAAATAGCTA-GTGTTAGTTGAAATCCAGGTCTTCAGCCTTGAGTGTGAAATGATGTAATCTGCATGAAGGTGACACCCAGTTT-TTTTCTGTATAGTGCATCTGAAATCGTCGGCTCCAACATACAA---TACAGAGGATTAGCATCT--------------GTCAGTGCAGAGACAAAAGCAGTGCTGAT-GAGTGC--AGAACGCCTCCC----GGAGCCA-TCCCTGAGACCTTGCCCA-CGCTGGGTGCG-CTCGGCACTTCTGGC
+q oryCun1.scaffold_214769 98999786999999999888879999999999999999999999999999999999899999999999999999999999-9999999999999998899999985799999999999999999899999979989999998999599989999-9999989999998998999999989699799899399799869---999789998698799999--------------99868998599789399987679998997-999998--599996896776----6996783-999979969796999966-97989999997-979797799998999
+i oryCun1.scaffold_214769 C 0 C 0
+s canFam2.chr1 78216749 329 - 125616256 TACAGCACTATGATTGTCTCATGTTTTAATGAGGTGTAAATATCATGCAGCTTGGCACATGAAATGTGTTAAAATAGAATAGTGTTAGCTGAAATGTAGGTCCTCATACTTGAGTGTGAAATGATGCAATATACATGAATATGACACCTAGAATTATTTCTGTATGGTGCATTAGAGGGTATGGGATGCAAAAGAAAA---TGGAGAAGATGACGGTCCTA-GAGGGCAGCATGTAAATGGACATATAAAATCAGTGCTGATAAAATGC--AGAATTCATCTT----GGAGTTG-TCCTTGAAGGTTTGTCCAGTGCTTAGTGAG-ATTAGCAGTTTTGGC
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---99999999999999999999-99999999999999999999999999999999999999999999999--999999999999----9999999-999999999999999999999999999999-999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 77940 328 - 219823 TACAGCACTCTGATTGTCTCATGTTTTAATGAGGTGTAAATATCATGCAGCTTGGCACATGAAACGTGTTAAAATTGGATAGTGTTAGCTGAAATTTAGGTTCTCATACTTGAGTGTGAAATGATGCAATATACATGAATATGACACCCAGAATTATTTCTGTACCACTCATTAGAAGGTATGGAATGCAAAATAAAA-----GAGAAGATTAGAGTCCTACAAGGATAGCATGTAAATGGAGATACAAAATCAGTGCTGAT-AAATGC--AAAATTCATCTT----GGAGTAG-TTCCTCAAGTTTCGTCCAATGCTTAGCGAGTATCAGCAGTCCTGGC
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999996899999999999999999799999779999999999999899967999999999556999986735985366666577666-----98788966566548848997578877766575676458688678868578758965678-899688--577557548653----7967688-9998977686585596997664555546864578679778746696
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13011187 326 + 24938454 TGCAGCACTATAATTGTCTCATGTTTTAATGAGGTGTAAATAGCATGCATCTTGGCACATGAGATGTGTTAAAATAGGAGAGTGTTAGCTAAAATTCAGGTCCTCTAACTTGAGTGCGAAATGATGCAATATACATGAGTATGACACCCAGAATTATTCCTGTACAGTGCATTCTGAGACACAGAACACAAAACGAAC-----TAGAGGGTTAGAGTCCTG-CAGGACAGAGTGTAAATGGAGGTAGGAAATCAGTGCTGAT-AAATGC--AAAGTGCGTCTT----GCAGGAC-TCCCTGAAGTCTCGTCCAGTGCTTTGTGAG-ATGAGCAGTTCTGGC
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----999999999999999999-9999999999999999999999999999999999999999-999999--999999999999----9999999-999999999999999999999999999999-999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13670722 327 - 95030419 GGCGGCACTCTGATCGTCTCATGTTTTAATGAGGTGTAAATATCATGCAGATTGGCACACAGAATGTGTTAAAATAGGAGAGTGTTAGTGGAAATTTAGGTCCTCCACCTTGAGTGTGAAATGATGCAATACACATGAATTTGACACCCTGAATTATTTCAGTACGGCGCAGTCTAAGACATGGCACACGAAGTGAAG---TAGAGAAGATGAGAGTCCTA-CAGGACAGCATGTCGGTGGAGATACACAGTCAGCGCT----CAGTGCAGAAAAGGCATCTT----AGAGTAA-TCCCTTCAGTCTTGTTCAACGCTTAGTGAG-ATCAGCGTTTCTGGC
+q bosTau3.chr9 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---99999999999999999999-9999999999999999999999999999999999999----99999999999999999999----9999999-999999999999999999999999999999-999999999999999
+i bosTau3.chr9 C 0 I 3141
+s dasNov1.scaffold_15233 57719 305 + 62638 TGCAGCGCTATAAATGTCTCATGTTTTAAGGAGGTGCGGATGTCATGCAGCTCGGCACATGCGATGTGTTAAAGGAGGACGGTGTTAG--------------------CCTGAGTGTGAAATGATGCAATATACATGAACACGACACCCGGAATGTTTTCTAGACAGTTCCTCCTAAGCCTTAGAATGTGGAAATAAA----ACACAGGCTT-GAGTCCCA-TGGGATGGCATAAGAATGGAGGTAGAAAATCAGGGCTGCT-GTGTGT--ACGGCACATCTT----GGAGTGA--TCTGGAAGTCCTGTTCAATGAGGCGTGAG-GTAAGCCCTCCTGGC
+q dasNov1.scaffold_15233 1656275556558544847654578855355555454557469766555469575758464478555584685555565556568564--------------------633565654689556854989798898468396687968956688668999796689658885984887496885789564658988788----8989687875-65598999-5879938888996899488888868999789888777686-878799--979899999995----8888878--97588899998789999878999877898-799999999997899
+i dasNov1.scaffold_15233 I 5572 N 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-43493.000000
+s mm9.chr10 3149902 42 + 129993255 AAGCACAG-TGCTTGCACTACAACCCTAAGGAGGTAGAAAGCT
+s cavPor2.scaffold_284118 43670 43 - 169015 TGACATTGCTGGTTGTAGCAGCTGCCTGAGTGGGTGACCAGCT
+q cavPor2.scaffold_284118 9999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 I 226
+s rn4.chr1 229966772 8 - 267910886 CAGCACAG-----------------------------------
+q rn4.chr1 99999999-----------------------------------
+i rn4.chr1 C 0 I 528
+s hg18.chr6 16042303 7 - 170899992 TAACATA------------------------------------
+i hg18.chr6 C 0 I 1404
+s panTro2.chr6 16564612 7 - 173908612 TAACATA------------------------------------
+q panTro2.chr6 9999999------------------------------------
+i panTro2.chr6 C 0 I 2989
+s ponAbe2.chr6 16347840 7 - 174210431 TAACATA------------------------------------
+i ponAbe2.chr6 C 0 I 4512
+s rheMac2.chr4 108450214 7 + 167655696 TAACATA------------------------------------
+q rheMac2.chr4 9999999------------------------------------
+i rheMac2.chr4 C 0 I 1358
+s calJac1.Contig1260 13134 7 - 523245 TAACATA------------------------------------
+i calJac1.Contig1260 C 0 I 3141
+s tupBel1.scaffold_114895.1-498454 343613 2 - 498454 AA-----------------------------------------
+q tupBel1.scaffold_114895.1-498454 99-----------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 5416
+s oryCun1.scaffold_214769 48723 9 - 139458 TAACACAG-T---------------------------------
+q oryCun1.scaffold_214769 99989879-9---------------------------------
+i oryCun1.scaffold_214769 C 0 I 3283
+s canFam2.chr1 78217078 11 - 125616256 TAACAT----GCTTG----------------------------
+q canFam2.chr1 999999----99999----------------------------
+i canFam2.chr1 C 0 I 1079
+s felCat3.scaffold_217398 78268 11 - 219823 TGACAT----GCTTG----------------------------
+q felCat3.scaffold_217398 465799----96734----------------------------
+i felCat3.scaffold_217398 C 0 I 535
+s equCab1.chr31 13011513 5 + 24938454 TAACA--------------------------------------
+q equCab1.chr31 99999--------------------------------------
+i equCab1.chr31 C 0 I 1968
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=0.000000
+s mm9.chr10 3149944 61 + 129993255 CAGAGAACCGGCTCTCCTGTCCACAGAACCTCTGCAGACAGCGGAACTGGCCAATGCTAAC
+e rn4.chr1 229966780 528 - 267910886 I
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108450221 1358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 78279 535 - 219823 I
+e canFam2.chr1 78217089 1079 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 43713 226 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16042310 1404 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=3871.000000
+s mm9.chr10 3150005 115 + 129993255 ACTTAGCCTCAGTTTACACACTATATCCATAATCTCGTGAAAGAAGAGTC--AGACCAAGTGACTCTGGCCACCCTTAgaggagtttgtattttgcatatcctgaaaagtcagtagg-
+s felCat3.scaffold_217398 78814 97 - 219823 ACTAACTCTTAGTCTGTTCACTAGAGT----GTCCCGTTAACGGATATTC--CCACCAAGTGTA------------GCGAGGGTTTCATAGTCACCatgcatt---cattcaacaaat
+q felCat3.scaffold_217398 999999999999999999999999999----9999999999999999999--999999999999------------999999999999999999999999999---999999999999
+i felCat3.scaffold_217398 I 535 C 0
+s rn4.chr1 229967308 107 - 267910886 ----AGCCTCAGTTCCCACCCCATGTCCATAATCTCCCAAGAGAAGACTCTGAGACCAGGTGAC------AGGTCTAAGAGGAGTTTGTATTTTGCATATCCTGAAAAGTCAGTAGG-
+q rn4.chr1 ----999999999999999999999999999999999999999999999999999999999999------99999999999999999999999999999999999999999999999-
+i rn4.chr1 I 528 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108450221 1358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78217089 1079 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 43713 226 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16042310 1404 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=163368.000000
+s mm9.chr10 3150120 500 + 129993255 atttactgaa--ggactatgtgtgggtgtgccggggactgtcttaagagccaaggctacagcagagaac--acaag--gctacaacttctttctttctagagctcatggtctagtcggggcaaac-TGCTGACTGGGATAATTAATTGCAGAGAGATGTAATA----TATCCTGTATGGAAGGACTT-----ATGGGTAT----GAGGAGCAGGAGGGG-----------ATGTAGTTTTAGCCAGGCTGACCAGGGACAGATCTCAGTGAGCGCTGTGACCTATa----------------aatagaagagagagcaagtacc-agtgcccttagac-ggggtgtggcctgcatgttg--------aggccacagcagag------------agagtgagaggagggtgggtggaactg-ggatgg---- [...]
+s rn4.chr1 229967415 509 - 267910886 ATTTACTGGATAGGGCTAGGAGTGGGtgtgccaagagctgtcctaagagctgaggatacggcagagagc--acaag--gctacaacatctttct----ggagctgatggtctagt-ggggtagac-tgctgattggaataattgattgcatagagatttgataggtatatcctgtatggaaggactgta--gatgggtat----gaggaacagcaggggtggggagcggggtatagttttagccaggctgaccagggacatttctcagtgagcactgtgacc--------------------aacaggtgggagagcaagtaccgagcgcccttaggc-ggggtgtggccagcatgttg--------aggccacagcagag------------ggagtgag--gagggtgggaggagctg-ggatgg---- [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999--99999--9999999999999999----99999999999999999-999999999-999999999999999999999999999999999999999999999999999999999999999--999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999--------------------999999999999999999999999999999999999-99999999999999999999--------99999999999999------------99999999--99999999999999999-999999---- [...]
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108451579 488 + 167655696 ATCTATTGAA--TGCCTGC-----TGTGTGCCATGCACTG-TCTGAGAGCTAAGGATGTGGCAATGAATGAAAGAG--ACAGCAGTTCCTATCTTCTCGGAGCTGATATTCTGGT-AGGGTAGAA-GGATGATTGTAA-AATTCATAGCACGTGGATGTGATA----GTTGCCATTGGGAAGGGCCACA--GGTGGATTT---GGAGGAGT----GGGG-----------ATGCAGTTTTAACTAGGGTGACGAGGGAAAGATTTCACAGAGCAATGTGGCTAATGGGGGAAGAATGTTCTTGACAAAGGGAACAGCGAGTGCA-TGTGTCCTGAGAC-AGCCAGTGTTC------TTG--------AGGCATC----------------------GTGAC--CA----GGGGGAAGCCG-AG-------- [...]
+q rheMac2.chr4 9999999999--9999999-----9999999999999999-99999999999999999999999999999999999--9999999999999999999999999999999999999-999999999-999999999999-999999999999999999999999----9999999999999999999999--999999999---99999999----9999-----------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999-99999999999------999--------9999999----------------------99999--99----99999999999-99-------- [...]
+i rheMac2.chr4 I 1358 I 3
+s hg18.chr6 16043714 472 - 170899992 -------------------------gtgtgccatgcactgttctgagagctgaggatgtggcaatgaatgaaagag--acagcagttcctatcttctcggagctgatattctggt-agggtagaa-agatgattgtaa-aattcatagcacgtgaatgtgata----gaggtcattaggaagggccaca--ggtggattt---ggaggagt----gggg-----------atgcaattttaactaggatgaccagggaacgatttcacagagcaatgtggctaatgggggaagaatgttcttgacaaagggaacagcgagtgca-tgtgtcctgagac-ggtcagtgttc------ctg--------aggcatc----------------------gtgac--ca----aggggaagctg-ag-------- [...]
+i hg18.chr6 I 1404 I 37
+s canFam2.chr1 78218168 567 - 125616256 atttattgta--tgcccac-----atcgtgccaggtagtgttccaagagctgaggatacaacagtgaat--aagat--atggtagtttctgtcttcctggagctgctattctagtggaggtagacaaaatataagtaa-tatttgcaacacatagacatggta----tatattgtggggaaggggtgcataggtggaggcaggaagggaat----gggg-----------atgcaattttaactgtggtgactggggaaggatttcggtgagcaatgaggctaacaggtgaagaggtgtttgggaagagggaacagcaggtgc--aatgccctgagacaggagagtgcctgatgtgttggataagcaaggtgcctggtgtg----gctggagcagagtgaatgaa----aggaagagcag-aggaggtgag [...]
+q canFam2.chr1 9999999999--9999999-----999999999999999999999999999999999999997777779--99998--888889999977777797777778888888877565555555555667799988766977-799778889999999878888989----99997777788988888888999998888899999999999999----9999-----------888899999999999999999899999999999999889999999999999999998999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999----99999999999999999999----99999999999-9999999999 [...]
+i canFam2.chr1 I 1079 C 0
+s felCat3.scaffold_217398 78911 567 - 219823 atttattgaa--tgcctgc-----attgtgccaggcactgttctaagaactgcggatacaaccatgagc--agagtagacagtagttcctatattcctggagctgctctgctagtgggggtagacaggatgtaagtaa-aatttgtagcacctagatgtgg-----------aggggcgacgggctgcatcggtggatgcaggaagggaat----gggg-----------atgcagtgttcactgtggtgaccagggaaggatttcagtgagcagtgaggctgacgggtggaggaatgtttgggcagacggaacagcaagtgcg-aatgccccgaggcaggagggtgcttgccgtgttggtgaggcaaggtggctagagtgagccactggagcagagtgagcaaa----gggaagagctgcaggaggtgag [...]
+q felCat3.scaffold_217398 9999999999--9999999-----999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999-----------999999999999999999999999999999999999999----9999-----------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999999 [...]
+i felCat3.scaffold_217398 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 43713 226 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=2301.000000
+s mm9.chr10 3150620 66 + 129993255 ------------CCTCACTTCACACACTGTATCTGTGAAAGAAGACTCTTGGGCCAGGTGGTAGCTCTGGCAACCCAG
+s rn4.chr1 229967924 63 - 267910886 -------------CATACTTTGTCCATGATCAC-GTGAGAGAAGACTCTTAGGCCAGGTG-TAGCTCTCGCCACCCTG
+q rn4.chr1 -------------99999999999999999999-99999999999999999999999999-99999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108452070 34 + 167655696 ------------AGATGCCATGGCAATAGTCAC-ATGAAAGAGA----TTG---------------------------
+q rheMac2.chr4 ------------999999999999999999999-9999999999----999---------------------------
+i rheMac2.chr4 I 3 C 0
+s canFam2.chr1 78218735 77 - 125616256 aattaggtaatagaatgttaggacagcaatcac-atgaaagatgacacttgtacccagtggtagttgtggtgaccatg
+q canFam2.chr1 999999999999999999999999999999999-99999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 79478 76 - 219823 aatcagg-aacaggatgctatgacaccaatcat-gtgaaagatgacactggcaccccatggtggctgtggccaccgtg
+q felCat3.scaffold_217398 9999999-9999999999999999999999999-99999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 43713 226 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044186 37 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=58504.000000
+s mm9.chr10 3150686 146 + 129993255 AGGGGAGCCTGTGCTTTGCATATCCTGAGAAGCCGGTAGGATTTTCTGAGGGGCTAGAGTATGGGTATGAGAAGAGATCCCTAAAATGTTGTGACTGACAAGTTCTCTCTCTGCCAGCC---------------------------ACAG--------AGGAGAGGCAGGCTT----AGGAA------TAT
+s rn4.chr1 229967987 159 - 267910886 AGGGGAGCTTGGGCTTTGCATATCCTGAAAAGGCAGTGGGATTTACTGAAGGGCTAG---GTGGGTATGAGAAGAGATCCCTACAGTGTTCTGACTGGTGAGTAGAGTA---GCCAGCCTTAGAGAGGTAGAA------------GAGAG--------GGGGGAGGTGGGCTCCGGAAGGAA------CAC
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999---999999999999999999999------------99999--------999999999999999999999999------999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16044223 154 - 170899992 agaggtggccaggttccgggtattctgaaaggccagtaggatttactgagagattga-atttgagtgtgagaggatacccttgaagtgtttggtccaaggaattg-----------------gaaggatagagttgtcatctcctgagag------gtgggagaagcaggtta----aggaa---------
+i hg18.chr6 I 37 I 307
+s rheMac2.chr4 108452104 154 + 167655696 AGAGGTGGCCAGGTTCCGGGTATTCTGAAAGGCCAGTAGGATTTACTGGGAGATTGA-ATTT-AGTGTAAGAGGATACCCTTGAAGTGTTTG-----AGGAATTG-----------------GAAGGATAGAGTTGCCATCTCCTGAGAG------GTGGGAGAAGCAGGTTA----AGGAAAGATAT---
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999-9999-99999999999999999999999999999-----99999999-----------------9999999999999999999999999999------99999999999999999----99999999999---
+i rheMac2.chr4 C 0 I 290
+s cavPor2.scaffold_284118 43939 145 - 169015 -----AGCTCATGGTTGGGGTGTTCCGAAAGGCCAGAAGGCTTCACTGAGGGGCTGG-ATGTTTTTAGGAGAACACACTCCTAAAATGTTTGGCTTGAGGAATT------------------AAAGGATAGAA------------GACGGAAGAATGTGGGAGAAGTGGGTTG----AGGGA------AAC
+q cavPor2.scaffold_284118 -----9999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999------------------99999999999------------9999999999999999999999999999----99999------999
+i cavPor2.scaffold_284118 I 226 C 0
+s canFam2.chr1 78218812 130 - 125616256 ggaagtggccatgttccaggtgttttgaaaggccagtagcatttactgggagattgg-atgttggtgtaagaggttacctatcaagtgtttggtctggggggttg----------------------------------------gaagg--------aggaga---tggtta----agggaatag-----
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999----------------------------------------99999--------999999---999999----999999999-----
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 79554 121 - 219823 agaggtggccatgttccaggtgttctgaaaggcca---------attgggagattgg-atatttgtgtaagaagatactcatcgagtacttggcctggggagttg----------------------------------------gaagg--------aggaga---tggtta----agggaatac-----
+q felCat3.scaffold_217398 99999999999999999999999999999999999---------9999999999999-99999999999999999999999999999999999999999999999----------------------------------------99999--------999999---999999----999999999-----
+i felCat3.scaffold_217398 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=19873.000000
+s mm9.chr10 3150832 188 + 129993255 TCAG---GGCTTTGAACTTGTGATGCCTTTTAACCTGTGTGTGAAGCCGGAGGGT-GGATTCACGGGTCTGGATTAGT-GGA-GG-TGTGTGTACTAGAGAGAA-----------------------AGCTGGTA-------CTTAAGACTGGATGACTTCTCCTA-TGAGGTAGTAAGAAACGGAGAAGGATCAGGGGAGGGGTGGGGGAGAAGGGACGAGGAGA--------
+s rn4.chr1 229968146 173 - 267910886 TGTG---GGTTTTAAACTTGTGATGCTTTCTACCTATTGTGTAGAGTGAGAGGGT-GCATACACTTGTCTGGATTAGT-GGA-GG-TGTGTATACTAG--------------------------------------------CTTGAGACTGGGTGACTTCTCCAAGTgagggggcaggagatggggaagggatgggggagaagacacaggggaggggtggggg----------
+q rn4.chr1 9999---999999999999999999999999999999999999999999999999-9999999999999999999999-999-99-999999999999--------------------------------------------9999999999999999999999999999999999999999999999999999999999998899999999999999999999----------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 44084 159 - 169015 T--G---GATTTGAAATTTGCAATAGCGATTAAC-----------------------------CCAGTAAGGATTAGT-GGACGA-TATTGCTACCAAAGAAAGGAAGTGAGTGGTCATCAGAGTATAGATGGTA-------TTTGAGACTGAATAGTACTACCAA---------------ATAAATGAGtgcagggagaga------ggaggagagatgaGA-----------
+q cavPor2.scaffold_284118 9--9---999999999999999999999999999-----------------------------999999999999999-999999-9999999999999999999999999999999999999999999999999-------999999989999999999999999---------------999999999999999999999------999999999769998-----------
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108452548 190 + 167655696 TCTG---GCTTTTAATTTTGCAGTGCCCATTCACCCACCAAGTGAGGGAGACGGTGGGATATATGTGTTGGGATTAACCAGA-AA-GGTTGATACTGGAGACAA--ATTTGCTGGCCATTGGGGTGCAGATGGTATTAAATCTTTCAGACTGGATGACCTCACCAA---------------GTGAGTGAGAGTAGGGAGACA------AGGAAAGGAA----------------
+q rheMac2.chr4 9999---999999999999999999999999999999999999999999999999999999999999999999999999999-99-999999999999999999--999999999999999999999999999999999999999999999999999999999999---------------999999999999999999999------9999999999----------------
+i rheMac2.chr4 I 290 C 0
+s hg18.chr6 16044684 187 - 170899992 ----g--gcttttaattttgcagtgcccatttgcccaccaagtgagggagatggtgggatatatgtgttgggattaatcaga-aa-ggttgatactggagacaa--atttgctggccattggggtgcagatggtattaaatctttgagactggatgacctcaccaa---------------gtgagtgagagtagggagaca------aggaaaggaa----------------
+i hg18.chr6 I 307 C 0
+s canFam2.chr1 78218942 158 - 125616256 ----tcagattttaaaattgcaatggatattagttcatcaaatgaagtaggaggttgtatgtatgtgtctcgattaat-ggg-gcaggtggggactgg--------------------------------------------ttcgagactagatgg-gtcaccaa---------------ataagtgagt----gaagacc------agtgaagagaaaaggaaatgggggga
+q canFam2.chr1 ----99999999999999999999999999999999999999999999999999999999999999999999999999-999-999999999999999--------------------------------------------999999999999999-99999999---------------9999999999----9999999------99999999999999999999999999
+i canFam2.chr1 C 0 I 505
+s felCat3.scaffold_217398 79675 142 - 219823 ----tccgatttgaaatttgcagtgtgt----gttcgtgaagtgaagtaggcagttgga--tatatgtttggattaat-ggg-gt-gatggggactgg--------------------------------------------ttcaagaccagatgg-gtcaccaa---------------atgaatgagcaaaagaagaca------agtgaagagaaaa-------------
+q felCat3.scaffold_217398 ----999999999999999999999999----999999999999999999999999999--99999999999999999-999-99-999999999999--------------------------------------------999999999999999-99999999---------------999999999999999999999------9999999999999-------------
+i felCat3.scaffold_217398 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=-2792.000000
+s mm9.chr10 3151020 50 + 129993255 TGGCACACACTGGTGCAGG-CCTGGGGCCTTTCAGATTTCTCTTACAAGTG
+s rn4.chr1 229968319 50 - 267910886 -agaaggGACCAGTGCAGGCCCTGGGGCCTTTCAGATTTCTCTCAAGCTGG
+q rn4.chr1 -99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 44243 25 - 169015 --------------------TCTGGGGCCTTGCAGAGCTCCTGTA------
+q cavPor2.scaffold_284118 --------------------9999998999999999989999999------
+i cavPor2.scaffold_284118 C 0 I 419
+s rheMac2.chr4 108452738 27 + 167655696 --------------------TCTAGGGCATCGCAG----CCTTTAGAAATG
+q rheMac2.chr4 --------------------999999999999999----999999999999
+i rheMac2.chr4 C 0 I 301
+s hg18.chr6 16044871 19 - 170899992 --------------------tctagggcatcgcagcctt------------
+i hg18.chr6 C 0 I 324
+s felCat3.scaffold_217398 79817 24 - 219823 --------------gaaaa-cctggggtatttcaacctt------------
+q felCat3.scaffold_217398 --------------99999-9999999999999999999------------
+i felCat3.scaffold_217398 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=775.000000
+s mm9.chr10 3151070 42 + 129993255 AAGATGAAAGGCT--GGAGGTAGCTGCACAg------tgagcgtgaagac
+s rn4.chr1 229968369 50 - 267910886 AGAAATAAAGGCCTGGGAGACAGCTGCAAGGACCTGAGGagcctgaggac
+q rn4.chr1 99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s felCat3.scaffold_217398 79841 38 - 219823 -----tgaaagtctggaagatgagcgaccgg-------gaccaggaagat
+q felCat3.scaffold_217398 -----99999999999999999999999999-------999999999999
+i felCat3.scaffold_217398 C 0 I 120
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108452765 301 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044890 324 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=11233.000000
+s mm9.chr10 3151112 165 + 129993255 ccgagtttag-tctcagagtcttatagaagtaggtgtggtgtggtggtgagcagttgcagtcccagtgctggggaggtggaggtgggtgaatcggtgagagatcatgtatcaaaggagattgatggtattcctgaagatgatatgcaaggttgtccactgacctca
+s rn4.chr1 229968419 166 - 267910886 ccgagtttggcccccagaactgtagaggagtaggtctggtgtgctggtgcacacctgcagtcccagtgctggggaggcagaggtgggtgagtcagtgggAGATCCTGTATCAAAGGAGGCTGACGGTATTCCTGAAGATGATACACAAGGTTGTCCTCTGACCTCA
+q rn4.chr1 9999999999999999999999999999999999999999999999988899999999999999999999999999999999999999999988899999999999999999999999789999999999999999999999999999999999999998887221
+i rn4.chr1 C 0 I 506
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108452765 301 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 79879 120 - 219823 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044890 324 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3151277 173 + 129993255 tgcatgtgcacacatgcatgcacCGCTTCCAGCTTGCACACTTGCCTCGAGTGTGTGCGAGTGTGCTAGcatacacacacacacacacacacacacacacacacacacgcacgcacgcacaTGCCTTTGCATCATCCTAAGTCAAGCATAAAGGAGGGGGGTCCCTCGAAAGC
+e rn4.chr1 229968585 506 - 267910886 I
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108452765 301 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 79879 120 - 219823 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044890 324 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=1167.000000
+s mm9.chr10 3151450 40 + 129993255 AGGACTGAAACGCTGCCCAGCACTACGTTTGGGATGGTAA
+s felCat3.scaffold_217398 79999 27 - 219823 aggac-agagaactgaccagcat----tttga--------
+q felCat3.scaffold_217398 99999-99989999999999999----99999--------
+i felCat3.scaffold_217398 I 120 C 0
+s rn4.chr1 229969091 35 - 267910886 -----TGAAGAGCTACCCAGCATTGCCTTGGGGATGGTAA
+q rn4.chr1 -----45558776888999999999999999999999999
+i rn4.chr1 I 506 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108452765 301 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044890 324 - 170899992 I
+e panTro2.chr6 16564619 2989 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=13299.000000
+s mm9.chr10 3151490 107 + 129993255 GAGAGCCGATTAATATATC----TGCCTCTGGGCG---TGATGAACTTGATAGAGTAG--TTGCTGTGCTGGTGGCATCAATTATCTCAT---TATATTTAAATACAAATGCAATTGGA
+s rn4.chr1 229969126 107 - 267910886 GAGAACCGATTAACGCCTC----TGGCTCTGGGCA---TGATGAACTTGATAAAGTAG--TTGGTCGGTTGGTGGCAGCAATTATCTCAT---TACATTTAAACACGGATGGAATTGGA
+q rn4.chr1 9999999999999999999----999999999999---99999999999999999999--999999999999999999999999999999---99999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16567608 118 - 173908612 gagaattgactattgtatctagttagctgtgtgcaggttggtgaacttgacggggtggttttggtgggttggtggga-cacacagctgatgagtaaattcaagaacaaacaggaggaga
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999
+i panTro2.chr6 I 2989 C 0
+s felCat3.scaffold_217398 80026 98 - 219823 gtgagccacgtaggggaca----t--------------gggtggaccggacgggttagtgtcagtgcgttgatggcagcagaagtctgag---tatatccaagaacaaatggaaaagag
+q felCat3.scaffold_217398 9999999999999999999----9--------------9999999999999999999999999999999999999999999999999999---99999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 137
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108452765 301 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044890 324 - 170899992 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=-1145.000000
+s mm9.chr10 3151597 114 + 129993255 CTGAACCAATGTGCActgcatgattctaagtctggc------------tgatccaggaggtccctacgagccagggctgtgtcgagagagaccctgtctaagaaacgaaaAGCAA---------AACAAAGAAAA
+s rn4.chr1 229969233 132 - 267910886 CTGAATggatgtgcgctgcatgcttctaagtctggcattcaagcaggctgatccaggaggtcaccaccagtcagggctgtgtc---agagatcctgtccaagaaacaaaCAACAACATCAACaaaacaaagaaag
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16567726 13 - 173908612 -ggaatcgATGTCC-------------------------------------------------------------------------------------------------------------------------
+q panTro2.chr6 -9999999999999-------------------------------------------------------------------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e rheMac2.chr4 108452765 301 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 80124 137 - 219823 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16044890 324 - 170899992 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=5497.000000
+s mm9.chr10 3151711 65 + 129993255 TAAAAAACAAACCAAACAGAAA------------------------------CAAAAGCACCTTCCGAGATAAGCAGAGCTCTGAAGGAGTCTCA
+s panTro2.chr6 16567739 59 - 173908612 TAAGAAACCACCTGTTCGTGAA-----------------------------------GCACGTCCCTCAATGCACACAGCTCTT-TGTATTCTCA
+q panTro2.chr6 9999999999999999999999-----------------------------------999999999999999999999999999-9999999999
+i panTro2.chr6 C 0 I 27
+s rheMac2.chr4 108453066 59 + 167655696 TAAGAAACCATCTGCTCGTGAAA-----------------------------CAG------CTCCCTGAATGCACATAGCTCTT-TGTATTCTCA
+q rheMac2.chr4 99999999999999999999999-----------------------------999------99999999999999999999999-9999999999
+i rheMac2.chr4 I 301 I 31
+s hg18.chr6 16045214 37 - 170899992 ---------------------------------------------------------GCACCTCCCTCAATGCACACAGCTCTT-TGTATTCTCA
+i hg18.chr6 I 324 I 27
+s rn4.chr1 229969365 95 - 267910886 taaaaaaaaaaaaaaaaagaaaagaaaaaaaCCAACTCAAACAAACAGAAGCCATAAGCATCTTCCCAGATGAACAGCGCTCGGATGGAGTCTCT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13011518 1968 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 80124 137 - 219823 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e calJac1.Contig1260 13141 3141 - 523245 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e cavPor2.scaffold_284118 44268 419 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=88763.000000
+s mm9.chr10 3151776 94 + 129993255 CCT-CTGTAACA-----GGCTA-TTGTTTGGTTATGATATAACTGGTACAGTGGGAGTGGGAGGGTGCCCTCC------CTGAACGGTGC------ACACCACAGACT-------------CTTCT
+s rn4.chr1 229969460 96 - 267910886 CCTTCTGTGACA-----GGTTG-TTGTTTGGTTGTGAGATAGCTGATACAGTGGGAGAGGC---TCACCCTCC------CTGCACGGTGC------ACAGCACAGTGT---------TTAACTTTA
+q rn4.chr1 999999999999-----99999-99999999999999999999999999999999999999---999999999------99999999999------999999999999---------999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 44687 111 - 169015 -CTTTTATAATA-----GATAA-GTCTTCGGTAACTAGATATTTGATAAACTGGGACATGC--TACGCCCTCC------CTGAACTGGGTAACAGGACACTGGAGATTATGCAATCTCTTACTTTA
+q cavPor2.scaffold_284118 -99999999999-----99999-99999999999999999999999999999999999999--9999999999------99999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 I 419 I 8
+s hg18.chr6 16045278 115 - 170899992 CCTT---TAAAATCTGTAATCAGCTGTTTGGTAACTAGATATCTGATAAATGGGGACATGT--TATGCCCTCC------CTGAACTGGGTAACAGGACACTGTAGATTATGCAATCCCTTATTTTA
+i hg18.chr6 I 27 I 8
+s rheMac2.chr4 108453156 115 + 167655696 CCTT---TAAAATCTGTAATCAACTGTTTGGTAACTAGATACCTGATAAATGGGGACCTGT--TATGCCCTCC------CTGAACTGGGTAACAGGACACTGTAGATTATACAATCCCTTATTTTA
+q rheMac2.chr4 9999---999999999999999999999999999999999999999999999999999999--9999999999------99999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 31 I 8
+s panTro2.chr6 16567825 115 - 173908612 CCTT---TAAAATCTGTAATCAGCTGTTTGGTAACTAGATATCTGATAAATGGGGACATGT--TATGCCCTCC------CTGAACTGGGTAACAGGACACTGTAGATTATGCAATCCCTTATTTTA
+q panTro2.chr6 9999---999999999999999999999999999999999999999999999999999999--9999999999------99999999999999999999999999999999999999999999999
+i panTro2.chr6 I 27 I 8
+s calJac1.Contig1260 16282 103 - 523245 --------AAAA-----GATCA-CTGTTTGGTAACTAGATATCTGATAAATGGGGACATGT--TATGCCCTCC------CTGAACTAAGCAGCA-GACACTGTAGATTATGCAACCCCTTATTTTA
+i calJac1.Contig1260 I 3141 I 8
+s equCab1.chr31 13013486 97 + 24938454 -CTTTTGGAATA-----GGTAA-CTGTTTGGTAACTGGATATTTGATAAATCGGGATATGT--CATGCCCTC-------CTGTGCTGGATAAAAGCGCACTGCAGATTATGCA-------------
+q equCab1.chr31 -99999999999-----99999-99999999999999999999999999999999999999--999999999-------9999999999999999999999999999999999-------------
+i equCab1.chr31 I 1968 I 21
+s felCat3.scaffold_217398 80261 75 - 219823 ------------------------------GTGACTAGCTATTTGATCTATTGGGACGTGT--TATGCCAACTGGATAACAGTACAG-------------TGTAGATGATGCAATCTCTT------
+q felCat3.scaffold_217398 ------------------------------9999999999999999999999999999999--999999999999999999999999-------------99999999999999999999------
+i felCat3.scaffold_217398 I 137 I 14
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78219100 505 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=186521.000000
+s mm9.chr10 3151870 147 + 129993255 GAAGCCTTTAATGTATCGAGTGATTTTGGACAAGTGCCTTTTA--GAGGAGACTCACTCAG-AGA--CAATCTTTCTCCA-CTTTGTCCAGCT-TTCTGCCTCCCCACGTTGTTC--TAAATCCGAGGATTTAG-AATGAGAAGAGCTGGTTGTCCA
+s rn4.chr1 229969556 150 - 267910886 GAAGCCATTAATCTAGTGAGTGATTCTGGACAAGTGGCTTTTA--GAAGAGACTCGTTCAG-AGAAATACTCTTTCCCCA-CTTTCTCCAGCTGTTCCACCTCTCCACGTTGTTC--TAGAACCGAGGATTTAG-AATGAGAACAACTGGCCGTGCA
+q rn4.chr1 9999999999999999999999999999999999999999999--9999999999999999-999999999999999999-9999999999999999999999999999999999--99999999999999999-9999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 44806 109 - 169015 AAAGCCATTCATTTAGTGAATGGCTGTGTATTGGTGGCTTCTA---------------CAG-AGAAGAAttctctgtcca-tttttttc---------------tcaCGTTGCTT--TGGA--------------AATGAGGTTGAATAGCTCTCCA
+q cavPor2.scaffold_284118 9999999999999999999999999999999999999999999---------------999-999999999999999999-99999999---------------99999999999--9999--------------9999999999999999999999
+i cavPor2.scaffold_284118 I 8 C 0
+s hg18.chr6 16045401 137 - 170899992 AATGCCATTCATTTAGTGAATGACTATGTACTGGTGGCTTCTACAGAGAAGAGTTATTCAGCAGA--AATTATCTCTTCATTTTTTTTT--------------TTCACATTGTTT--TGGAAATGAAGATCAGGAAAT--GAGTAAATAGCTCTCTC
+i hg18.chr6 I 8 C 0
+s rheMac2.chr4 108453279 136 + 167655696 AATGCCGTTCATTTAGTGAATGACTATGTACTGGTGGCTTCTACAGAGAAGAGTTATTCAGCAGA--AATTATCTCTTCA-TTTTTTTT--------------TTCACATCATTT--TGGAAATGAAGAGCAGGAAAT--GAGTAAATAGCTCTCTC
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999--9999999999999-99999999--------------999999999999--999999999999999999999--99999999999999999
+i rheMac2.chr4 I 8 C 0
+s panTro2.chr6 16567948 135 - 173908612 AATGCCATTCATTTAGTGAATGACTATGTACTGGTGGCTTCTACAGAGAAGAGTTATTCAGCAGA--AATTATCTCTTC--TTTTTTTT--------------TTCACATTGTTT--TGGAAATGAAGATCAGGAAAT--GAGTAAATAGCTCTTTC
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999--999999999999--99999999--------------999999999999--999999999999999999999--99999999999999999
+i panTro2.chr6 I 8 C 0
+s calJac1.Contig1260 16393 126 - 523245 AATGCTATTCATTTAGTGAATGGCCATGTACTGGTGGCTTCTACGGAGAAGAGTTATTCAGCAGA--AATTATCGCTTCA-TCTT--------------------------GTTT--TAGAAATGAAGATCAGGAAATGAGAGTAAATAGCTCTCTC
+i calJac1.Contig1260 I 8 C 0
+s equCab1.chr31 13013604 115 + 24938454 AAAGCCATTCATTTAGAGAATGACTGTGC-CG-GTGGCTTCTATAGTTAAGAGTTACTCAGCAGA--AATTCTGTCTGCA-TTTTTTTT-------------TCCCACATTTATT----------------TGGAA--------GACTAGCTCTCTA
+q equCab1.chr31 99999999999999999999999999999-99-99999999999999999999999999999999--9999999999999-99999999-------------9999999999999----------------99999--------9999999999999
+i equCab1.chr31 I 21 C 0
+s felCat3.scaffold_217398 80350 134 - 219823 AAAGCCATTCACTTAGTGAATGACTGTGTACT-GTGGCTTCCATAGAGAAGAGTTATTCAGCAGA--AATTCTCCCTTCC-CCATTTTT------------CCCCCACATTTTTT---GGAAATGAAAACTTGGAAATGAGAGTAAATAG----CTA
+q felCat3.scaffold_217398 99999999999999999999999999999999-99999999999999999999999999999999--9999999999999-99937775------------46765465567784---65573364786442556854556644595556----353
+i felCat3.scaffold_217398 I 14 C 0
+s canFam2.chr1 78219605 140 - 125616256 AAAGCCATTCATTTAGTGAGTGACTGTGTACT-GTGGCTCCCATAGAGAAGAGTTATTCAGCAGA--AATTCTCTTGACC-CCATTTTT-------------TCCTACATTTTTTTTGGAAAATGAAAATTTGGAAATTTGACTAAATAGCTCTCTA
+q canFam2.chr1 99999999999999999999999999999999-99999999999999999999999999999999--9999999999999-99999999-------------9999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 505 C 0
+e bosTau3.chr9 13671049 3141 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=286039.000000
+s mm9.chr10 3152017 118 + 129993255 CCAAACTTCTGTGTTGTCCTGTTGCTTACCCAGTTAAGCAGGCAGGACTTGTTAATGTCAGATCCAAAACCTTGCAGGGAATCCTCATTGCTGTT--GACTGCCCTTGGTGTC----TC---T-GATT
+s rn4.chr1 229969706 121 - 267910886 CCTAGCTTCCGTGTTACCCTGTTGCTTACCCAGTTAAGCAGGCAAGACTTATTAATGCCAGAGCCAAAACCTTGCAGGGAGTCCAGGTTGCCATT--GATTGTCCTTGGAGTC----TTGTAT-GATT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999----999999-9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 44915 115 - 169015 TCTGGATTCTGTATTATTCCATAGCTTACCTAGTTATGAAAAGATGATGGTTTATGGATGAATCCAAAAACTTGGAAGGA-TTTTCTTTGGTGAT--GATTTCCCACTGTGTC----TT------GTT
+q cavPor2.scaffold_284118 99999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999--9999999999999999----99------999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16045538 120 - 170899992 TCTGAGTTTGGTGTTATTCTATAA-TTACCCATGTAAGTAGAAAAGATTTGTAATGGACAGATCCAAAACCTTGGAAGAATTCCTTGTTATTAAG--TATTTACCTTTATATC----TTTTAA-GATT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108453415 121 + 167655696 TCTGAGTTTGATGTTAGTCTATACCTTACCCATGTAAGTAGAAAAGATTTGTTATGGACAGATCCAAAACCTTGGAAGAATTCCTTGTTACTAAT--GATTTACCTTTATACC----TTTCAA-GATT
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999----999999-9999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16568083 121 - 173908612 TCTGAGTTTGGTGTTATTCTATAACTTACCCACGTAAGTAGAAAAGATTTGTAATGGACAGATCCAAAACCTTGGAAGAATTCCTTGTTATTAAG--GATTTACCTTTATATC----TTTTAA-GATT
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999----999999-9999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 16519 124 - 523245 TCTGAGTTTGGGATTATTCTGTAACTTAACCATATAAGTAGAAAAGATTTGTTATAGACAGATCCAAAACTGTGGAAGAATTCCTTGTTACTAATGAGATTTACGTTTATATC----TTTCAAGGATT
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78219745 121 - 125616256 CCTGAGTTATGTGTTATTGCATAGTTAACCCATTTAGGCAGAAAATACTTGTTGTGGGTGGATCTAAAACCTTGGGAGAATTCCTTGTTGCTGAT--GATTTGCCTCCATATA----TTGTAA-GATT
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999----999999-9999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 80484 121 - 219823 CGTGAGTTCTGTGATATTCCCTAGTTAACCCATTTAGGTAGGAAAGATTTGTTATGGATGGATCCTAAACCTTGGGAGAATTCCCTGTTGCTGAT--CATTTACCTTCATATA----TTGTAA-GATT
+q felCat3.scaffold_217398 30156346555464536535215655537975686564656578566685566656666945740458520145757775786855666756666--9678657358788588----856866-9969
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13013719 121 + 24938454 CCTGAGTTCTGTGTTATTCCATAGATTACTCATTTAGGTAGAAAAGATTTGTTATGGACAGATCCAAAACCTTGGAAGAATTTCTTATTGCTGAT--GATTTGCCTTCATGTA----TGATAA-GACT
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999----999999-9999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13674190 124 - 95030419 CCATAGTTTTGTGTTATTCCATAGTTTACCCACTTAGGTAGAAAATATTTGTTATGGATGGACCCAAGACCTCAGAAGAATCCCTTGTTGGTGAT---ACTCACCTTCATATAAGATTTTTAT-GAAT
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999-9999
+i bosTau3.chr9 I 3141 I 217
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=454604.000000
+s mm9.chr10 3152135 193 + 129993255 TATCTGGTGCATCCAGAACACTATGAGATCATATATAAGTAATGT---TTCCAGCCCATGGGCAG-----AAAG---CTGTAAG-AGGAAAATTGGTGCAACCAGAGA-GAGCCAATCAACTCTAAATATG----GTTCGTGCAGTATTTATTGAGC--------ACCTGTCACTGGGAATGCTCCTGTCCAGGTGCAGT--AGACAACA-AGGGCCCCTA-
+s rn4.chr1 229969827 204 - 267910886 TATCTGGTGCATCCAGAATGCTATGAGATCATATATAAATAATGT---TTCCAGCCCATGGGTGG-----AAA----CTGTTAG-AGGAGAGTTGATGCAACAAGAAA-GAGCCAATCAACTTTGAATATGTATAGTCCATGCAGTATTTATTGACCCCTACAGAACTTGTCATTGGGAATGTTCTTGTCCAAGTGCAAT--GGACAAGA-AGTGCCCCTG-
+q rn4.chr1 999999999999999999999999999999999999999999999---99999999999999999-----999----9999999-99999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999-9999999999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 45030 204 - 169015 TATCTGAAGCATCTAGAATGCCATGAAACTGTACATAAATAATGTCTGTTGTGGCCCATGAGTGTAGGTCAAAT---TTGTTAGCAGGAAAATTGATGTAATTAGAGATAAAATGGTCAACTTTGAAtata----attcatcaaatattt-ttgagC--------ACTTGTCATTGGTAATGTTTTCTGCTAGGTCCAATGAGAGCAGAC-AAACTCCCTG-
+q cavPor2.scaffold_284118 99999999999999999999999999999999999999999999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999----999999999999999-999999--------999999999999999999999999999999999999999999999-9999999999-
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16045658 202 - 170899992 TATCTGAAACATTCAGAATGCCATGAAATCATATGTATGTCATGTCTGGTACAGACCCTAGGTGG-----AAGGCATTTGTTAGCAGGAAAACTGGTGCAACTGGAGAGAAACCAATCAACTTGAAATAGA----attcaccagctgtttattgagt--------acctaccgtttgtcaagttcttttctaggtgcagt--gaataagacaggggctgtc-
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108453536 202 + 167655696 TATCTGAAACATTCAGAATACCATGAAATCATACATATGTCATGTTTGGTACAGACTCTAGGTGG-----AAGGCATTTGTTAGCAGGAAAACTGGTGGGACTGGAGAGAAACCAGTCAACTTGAAATAGA----ATTTACCAACTGTTTATTGAGT--------ACCTACCGTTTGTCAAGTTCTTTTCTAGGTGCAAT--GAATAAGACAGGGGCCCTC-
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999----9999999999999999999999--------99999999999999999999999999999999999--9999999999999999999-
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16568204 202 - 173908612 TATCTGAAACATTCAGAATGCCATGAAATCATATGTATGTCATGTCTGGTACAGACCCTAGGTGG-----AAGGCATTTGTTAGCAGGAAAACTGGTGCAACTGGAGAGAAACCAATCAACTTGAAATAGA----attcaccagctgtttattgagt--------acctaccgtttgtcaagttcttttctaggtgcagt--gagtaagacaggggccgtc-
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999----9999999999999999999999--------99999999999999999999999999999999999--9999999999999999999-
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 16643 190 - 523245 TATCTGAAACATTCAGAATGCCATGAAATCATATATATGTCATGTCTGTTACAGACCTGAGGTGG-----AAGGCATTTGTTAGCAGGAAAACTGAT------------AAATCAATGAACTTGAAATAGA----attcaccaactgtttattgagt--------acctaccatttgtcaagttcttttctaggtgtagt--gaataagacaggggccctg-
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78219866 197 - 125616256 TATCTGAAATATTCAGAGTGCCATAAAATAATATGTAAGTAATGTTGGTTACAGCCTGTACATGG-----AGGCCATTTGTT---AGGAAAATTAGTGCAAATAG--GTAAACCAGTTAACTTTATATATA----AGtcatcaaatatttatcgagt--------acctgtcatatgtaatg-tcccttctaggtgcagt--aaataagacagggtccctgg
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999-----999999999999---99999999999999999999--999999999999999999999999----9999999999999999999999--------99999999999999999-99999999999999999--99999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 80605 200 - 219823 TGTCTGAAATACTCAGAATGCCATAAAATAATATATAAACAATGTCTGTTACAGCCCATAGGTGG-----AAGCCATTTGTTAGCAGGAAAGCTGGTGCCAATAG--ATAAACCAAATAACTTTACATATA----GGTCAGCAAATATTTATTGAAA--------ACCTGTCATTTATAATA-TCTCTTATAGGTgtagt--gaacaagaaaggatccctgg
+q felCat3.scaffold_217398 66936699696697999965995879968799897969899987988889899989999799779-----89999999989978999999999999998999999--998999999999999999999999----9799999999999999999999--------99999999999999999-99999999999999999--99999999999998999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13013840 197 + 24938454 TATCTGAAATATTCAGAATGCCATGAAATCGTATATAAATAATGTCTATTACAGCCCGTACATGG-----AAGCCATTTGTTAGCAGGAAAATTGGTGCAAATAG----AAACTAGCCAACTTTAAATGTA----actcatccaatctttattgagc--------acctctcatttgtagtgttctctgctaggtgcagt--gaacaagacagg--cccctg
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999999----9999999999999999999999----9999999999999999999999--------99999999999999999999999999999999999--999999999999--999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13674531 190 - 95030419 tgtctgagccaccagggaagtcctgAAATCATGTATAAATGACGTTTATTACAGCCTGGAGGTGG-----AAGCCATTTGTTAGCAGGAGAACTGGTGCAAATAGAGATAAACCAGTCAACTTTAAATGTA----AATCATCAAACATTCATCAAGC--------ACCTATCCTTTG------TCTCTAGTAGGTGCAGT--------GATGGGGTCCCT-G
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999----9999999999999999999999--------999999999999------99999999999999999--------999999999999-9
+i bosTau3.chr9 I 217 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 343615 5416 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=298136.000000
+s mm9.chr10 3152328 156 + 129993255 TTTCTTTGAT----ACTTTCAATCAAGCAATGTGG------------AGCCCACAAGTATT-CAGTCTCT----TAGGC---ATCCTGGAGGAGTGG-GGGTGGAGTGGGGTCTAACTCAGGTGTGAGCAGGTGCTtcagggagacctctcctgtaggaaaagacatccaagtcaagaccc
+s rn4.chr1 229970031 166 - 267910886 TTTCTTTAAT----ACCTTCTATCAAGTagtgtggcgc--ataggcaggcccacaggtatt--aataccc----caggc---accctggaggagtggtgggtggggtagtgtctaagtcaggtgtgagcaggtgcttcaaggagagctcccctgttggaaaagacattcaggtcaagaccc
+q rn4.chr1 9999999999----999999999999999999999999--999999999999999999999--9999999----99999---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 45234 145 - 169015 TGTCTTTTATGTAAATGTTTGACCAAGTGGTGTAGAGT--ACGGAAAAGTCAGCA-GCATTGTAGGATCC----CAGAATAGGTCCTGCaagggaag-gtgctg--------------caagggaaggaagg------aaggaag--------gaaggaaggaacatcCAGACTGAGACCT
+q cavPor2.scaffold_284118 99999999999999999999999999999999999999--999999999999999-99999999999999----99999999999999999999999-999999--------------99999999999999------9999999--------9999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 I 1
+s panTro2.chr6 16568406 159 - 173908612 tttgtttggt----gacttcagttaa-----gtggaat--acagacaaatcaacaggcatt-taggctac----agggc---atcatagaagtgcag-ag--ggaggagtatctcacgcagttatgaatgggcgccacaagagaaggcttcctggaggaagagacatttagattgagacct
+q panTro2.chr6 9999999999----999999999999-----9999999--999999999999999999999-99999999----99999---999999999999999-99--9999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 320
+s rheMac2.chr4 108453738 158 + 167655696 TTTGTTTGGT----GCCTTCAGTTAA-----GTGGCAT--ACAGACAAATCAACAGGCATT-TAGGCTAC----AGGGC---ATCATAGAAGTGCAG-A---GGAGGAGAATCTCACGCATATATGAATGGGCGCTGCAAGAGAAGGCTTCCTGGAGGAAGGGACATTTAAATTGAGACCT
+q rheMac2.chr4 9999999999----999999999999-----9999999--999999999999999999999-99999999----99999---999999999999999-9---9999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 315
+s hg18.chr6 16045860 159 - 170899992 tttgtttggt----gacttcagttaa-----gtggaat--acagacaaatcaacaggcatt-tagactac----agggc---atcatagaagtgcag-ag--ggaggagtatctcatgcagttatgaatgggcgccacaagagaaggcttcctggaggaagagacatttaaattgagacct
+i hg18.chr6 C 0 I 321
+s calJac1.Contig1260 16833 158 - 523245 tttgtttggc----accttccgttaa-----gtggaat--atatacaaatcaacaggcatt-taggctgc----agggc---atcatagaagcacag-a---ggaggagtatctcacagggatatgaatgggcgctgcaagagagggcttcctggaggaagagacatttaaattgagacct
+i calJac1.Contig1260 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 349031 155 - 498454 TTTTCTCAGC----ACCTGCAATCGA-----GTAGATT--ACAGACAAGTCCACAGACAGT-TAAGCCAC----AGGGC---ATCCTAGAAGTGCAG-A---GGAGGGATAACAATCAGATTT---AATAGACACCATAAAGAAAGGCTTCCTGGAAGAATAGCCATCCAAATTGAGACAC
+q tupBel1.scaffold_114895.1-498454 4677885256----696664346866-----6346557--774543235888786776587-89989887----67855---688889888999999-9---999998468788899799999---9999999999999989899998999999999799999999999999999999998
+i tupBel1.scaffold_114895.1-498454 I 5416 C 0
+s canFam2.chr1 78220063 163 - 125616256 tgtctttggc----accttctgttga-----gtagaatacacagacaagtccataggcatt-ttagctacagggagggt---gttctacgagtgcag-a---ggaggagtgtttatctcagatttgaatgggtgatacatg-aatggcttcttggaggaagccactttcaaatcaagacct
+q canFam2.chr1 9999999999----999999999999-----999999999999999999999999999999-99999999999999999---999999999999999-9---999999999999999999999999999999999999999-999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 80805 159 - 219823 tgtctttgac----attttctgtcaa-----ggggaacacacagaccagtccatcggcatt-taagctac----agggt---gtcctaggcgtgcag-a---ggaggagtatttaactcaggtttgaatgggtgatgcgtg-aatggtttcttggagaaagccactttcaaatcaagacct
+q felCat3.scaffold_217398 9999999999----899999999999-----999999999999999999999999999999-99999999----99999---999999999999999-9---999999999999999999999999999999999999999-999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13014037 158 + 24938454 tgtctttggc----agcttccatcat-----gtggtgtacacagacaagtccacaggcatt-taag-tac----agggc---atcctagcagcgcac-a---ggaggagtatgtaactccaatttgaagggaagcagcata-gagggcttcttggaggaagcgacgtccaaatcaagacct
+q equCab1.chr31 9999999999----999999999999-----999999999999999999999999999999-9999-999----99999---999999999999999-9---999999999999999999999999999999999999999-999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13674721 152 - 95030419 TGTCTTTGGC----ATCTTCTGTTGA-----GTGGAGTTTACAGGCAAGCCCATAGGCACT-TCAGCTCC----AGGCC---ATCCTAGGAGTGCAG-A---GGAGTAAT------CGAGTATTTGAATGGGCACAGCGTg-gatggc-tcttggaggaaaccacattgaagtccagacct
+q bosTau3.chr9 9999999999----999999999999-----999999999999999999999999999999-99999999----99999---999999999999999-9---99999999------9999999999999999999999999-999999-99999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=487418.000000
+s mm9.chr10 3152484 241 + 129993255 -ttggatgagcaagaggcagcaaggCTTCCT---------------------GGCGGGGAATGCATCTTCTTTGCAGAAAACCAGG-----AGAGACAGTGTGAC---------------------------------ATTGTGCTGGTTCTGTGGTGGGGTGCAGAGTGGAA--AGAGGAGGCTGGAGAG--CCAGGAGAGGAGCGCA--CTAGATCACTAGGGTCCTCTG--TGTGTCACTGACAGGCTGGAGCCAGGCAGT------CTTTGTGCCCTGTGGTGATCTTCTTTTGTGAAGGAAGT---GTACGTG
+s rn4.chr1 229970197 247 - 267910886 -tcggatgagcgagaggcagctaggcttact---------------------ggagggg-atgcatcttcttggcagaaaACCTGGAGTCAAGACACAGTGTGAC---------------------------------ATTGTGCTGGTTCTGTGATGGAGCTCACAGTGGAAAGAGAGGGGACTGGAGAG--CTGGGAGAGGAGTGTA--CTAGATCACTAGGATCCTTTT--TGTGTCTCTGAGAGGCTGGAGCCAGTAAGT------CTTCATGTCCTGTGGTTATCTTCCTTTGTGAAGGAAgt---gtgtgtg
+q rn4.chr1 -999999999999999999999999999999---------------------9999999-999999999999999999999999999999999999999999999---------------------------------99999999999999999999999999999999999999999999999999999--9999999999999999--999999899999988999999--999999999999999999999999999999------99999999999999999999999999999998999988---8888998
+i rn4.chr1 C 0 I 306
+s cavPor2.scaffold_284118 45380 255 - 169015 -TGGGATGCAGAAGAGGTATCCAGGCCTACA---------------------GCAGGGGAAGGAATGTTCTTGGCAGAAATCTGGGAGGCAAGAGGCAGCATGACGT--------TTGCTGGCGAGTGAAAGGACTCAGTTATGCTGGGTCTCTTGTGAGGTGGAGAGTTGTAA-GGAGGACAATGG--------------------------AGATTACCAGGGCCCTTTTAAAATGCTTCTAAGTAGCTGGA---AAGCAGTGAAGGATTTTATGTCTTCCAGTGAACTTCCTTTGTgggtgaagt---gtgtgtg
+q cavPor2.scaffold_284118 -999999999999999999999999999999---------------------9999999999999999999999999999999999999999999999999999999--------99999999999999999999999999999999999999999999997999999899799-999999999999--------------------------99999999999978979999999999699999989988999---999869799999669999888878644999698887759995997679995---9384669
+i cavPor2.scaffold_284118 I 1 I 3366
+s hg18.chr6 16046340 273 - 170899992 -taggatgagcaggaggtagctctgtctagg---------------------gcagg----agaatgttcttggcagaaaactgggaggcaagagacagcatggcattttgaca-ttgtcagccactgaaagaagccgat-gtggtggctctgttgtgaggtg---aatggaaatagatgaggctggagag--tcgggagtgggatgt----tagatcaCCAAGCCCCTCTG--TAAGTCTCCAAGCAGGTGGG---ATCCAAGGAAAGAATGAAGATCTTTTCGTGGCCTTCCTTTGTGGAGGAACT---GTGTGTG
+i hg18.chr6 I 321 I 25
+s panTro2.chr6 16568885 274 - 173908612 -taggatgagcaggaggtagctctgtctagg---------------------gcagg----agaatgttcttggcagaaaactgggaggcaagagacagcatggcattttgacatttgtcagccactgaaagaagccgat-gtggtggatctgttgtgaggtg---aatggaaatagatgaggctggagag--tcgggagtggggtgt----tagatcaCCAAGCTCCTCTG--TAAGTCTCCAAGCAGGTGGG---ATCCAAGGAAAGAATGAAGATCTTTTCGTGGCCTTCCTTTGTGGAGGAACT---GTGTGTG
+q panTro2.chr6 -999999999999999999999999999999---------------------99999----9999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999---9999999999999999999999999--999999999999999----99999999999999999999--99999999999999999999---999999999999999999999999999999999999999999999999999---9999999
+i panTro2.chr6 I 320 I 25
+s rheMac2.chr4 108454211 270 + 167655696 -TGGGATGAGCAGGAGGTAGCTAGGTCTAGG---------------------GCAGG----AGAATGTTCTTGGCAGAAAACTGGGAGGCAAGAAACAGCATGGCATTTTGACATTTGTCAGCCACTGAAAGAAGCCGAT-GTGCTGGATCTGTTGTGAGGTG---AATGGAACTAGATGAGGCTGGAGAG--TCGGGAGTCGTGTGT----TAGATCACCAAGCCCCTCTG--TAAGCCTCCAAGCAGGTGGG---ATGCAAGGAATGAATGAAGATCTTTTCGTGGCCTTCCTTTGTAGAGGAAC-------TGTG
+q rheMac2.chr4 -999999999999999999999999999999---------------------99999----9999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999---9999999999999999999999999--999999999999999----99999999999999999999--99999999999999999999---99999999999999999999999999999999999999999999999999-------9999
+i rheMac2.chr4 I 315 I 25
+s calJac1.Contig1260 16992 277 - 523245 -taggatgagcatgaggtagtttggtctagg---------------------gcagg----agaatgttcttggcagaaaactgggaggcaagagacagcatggcattttggtgtttgccagccattgaaagaagttgatggtgctaaatctattgtgaggtg---aatggaaatagatgagggtggagag--tcgggagtagggtgc----tagatcACCAAGGCCCTCTC--CAAGCCTCCAAGCACGTGGG---ATCCAAGGAAGGAATGAAGATCTTTTAATGGCCTTCCTTTGCGGAAGAACTG-AGTGTGTG
+i calJac1.Contig1260 I 1 I 25
+s tupBel1.scaffold_114895.1-498454 349186 236 - 498454 --AGAAGATGTAGGAGGTGGCCAGGCCTTGA---------------------CTAGGGGAAGGAATATTGTCATCAGAAAACTGGGAGGCAAGGGACAGTGTGGCATTTT--------CTGGCAACTGGAAGAACTCAGTCGTGCTGGTTCTGTGGTGGGGTG---AGTAGAAAGAGATGAAGCTGGAGAG--TCGGGAGTGAGCTAC----TAGAT-------------------GGCCTTTAAGCAGGT------------GGAAACAGTG-----------GTGGCCTGCCTTTGTGGAAGAAATGTATTGTGTG
+q tupBel1.scaffold_114895.1-498454 --88898988999899889769998869997---------------------8899999999998898987989977878889987988699988859999898888848--------989887789997978789999898888996899988986967659---9867999799885897667766899--789789989998998----99998-------------------865789999998986------------9789567999-----------4597699424789978769699978776886658
+i tupBel1.scaffold_114895.1-498454 C 0 I 25
+s canFam2.chr1 78220226 285 - 125616256 gtagtatgagcaagaggtaacttggcttagatta------------------gtaggagaaagaaaatatttggcagagaactgaaaggcaagagagagccaggcatttaa----gtaccagctactgaaagagcttgattgtgctgcatctatcagggggta--gagcgaagagagatgaggctggagagg-tggtggTTGGCAAGCAGGGCAGATCACCAAGGCCTTGTT--TGTGCCTATGAGCGGACGGA---AACCAATCAAGGAATTTATATCTCTGAGTGGCTTTCCTTTTTGGAGGAAGt---atgtgtg
+q canFam2.chr1 9999999999999999999999999999999999------------------99999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999--999999999999999999999999999-999999999999999999999999999999999999999--99999999999999999999---999999999999999999999999999999999999999999999999999---9999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 80964 287 - 219823 gtagtatgggcaagaggtaacccggcctggattag-----------------ggaggggaaagaaaatatttggcagaaaactgaaaggcaagagagagccaggcatttaa----gtactggctactgaaagaacttgattgtgctgtacctatcaggaggtt--gagtggaaggagatgaggttggagaggtTTGTATTTGGGGAGCGGAATAGATCACCGGGGCCCTGTT--TATGCCTCCGAGTAGGTGGA---AACAAATGAAGAAATTATGATCTTTGAGTAGCCTTCTATTCTGGAGGAAGT---CCATGTG
+q felCat3.scaffold_217398 99999999999999999999999999999999999-----------------99999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999--99999999999999996999---999999899999999999999999999999986999999999999999999---9999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13014195 273 + 24938454 gtaggatgagcaggaggtagccaggcctaga---------------------gtaggggaaat--agtattaggcagaagactaggagggaagggagaggt-ggcatt--------tgctaacaacagacagaacttggttgtgttggatctattatgaggta--gagtggaaagaagtgaggttggagagg-tGGTGTGTGGGGAGAGGCCTAGATCACC-GGGCCCTGTT--TATGCCTCTGAGCAGGTGGA---AACCAGTGAAGG-GTTGGTATCTATGAAAGGCTTTCCTTTGTGGAGGAAGt---gtgtgtg
+q equCab1.chr31 9999999999999999999999999999999---------------------99999999999--999999999999999999999999999999999999-999999--------99999999999990999999999999999999999999999999999--999999999999999999099999999-9999999999999909899999999999-9999999999--99999999999999999999---999999999999-99999999999999999999999999999999999999---9999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13674873 292 - 95030419 gtagggtgagcagaaggtagccaggcctagaggagggaggagAGGAAAGAGAGGAGGGGAAAGAGAAGATTTGGGAGAAAACTGGGCGACCAGTGAGGCAT-GGCATT--------TACTTGCAACTGAAAGAACTTGATTGTGTTGGGTCTGTCCAGAGATG--GTGTGGCGAGAGATGAGCCTGGAGGAG-TGGTGTGTGTGACGTGGGCTGCGTCCCCAGCGACCTGTT--TATGCTTCTGAGCAGGTGGA---AGACAATGGAGGACTTTATGTCTTGGAGTGGCCTTCCTTTG-GGAGGAAGT---GT-----
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999--------99999999999999999999999999999999999999999999999--999999999999999999999999999-999999999999999999999999999999999999999--99999999999999999999---99999999999999999999999999999999999999999-999999999---99-----
+i bosTau3.chr9 C 0 I 639
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=-69577.000000
+s mm9.chr10 3152725 117 + 129993255 ------CACAC--------ACTGCACACAT-GATG--CATAT----CTATATT-ATAGACTCACATGCATACATA---------------TACATATTTAT--------TCTTTTATTTGCTAATTTTTCTTATAACTAACAACGCaatattttattttatt
+s hg18.chr6 16046638 98 - 170899992 ------CACAC----atataatagatacat-tata--catattag-atatatt-gtatacgtatatacacacacaatacatggatacatatgcatattata--------tatcatatatac-----------------------------------------
+i hg18.chr6 I 25 I 38
+s panTro2.chr6 16569184 93 - 173908612 ------CACAC----ATATAATAGatacat-tata--catattag-atatatt-gtatacgtatat--acacacaatacacatatacatatgcatatt-------------------------atatatcatata---------------------------
+q panTro2.chr6 ------99999----999999999999999-9999--99999999-9999999-999999999999--999999999999999999999999999999-------------------------999999999999---------------------------
+i panTro2.chr6 I 25 I 41
+s rheMac2.chr4 108454506 60 + 167655696 ------CACAC----ATATAATAGATACAT-TATA--CATAGTAA-ATAGATT-TCACACATATATACACACACA---------------------------------------------------------------------------------------
+q rheMac2.chr4 ------99999----999999999999999-9999--99999999-9999999-999999999999999999999---------------------------------------------------------------------------------------
+i rheMac2.chr4 I 25 I 92
+s calJac1.Contig1260 17294 21 - 523245 ------TACAC-----------------------A--CATAATAG-ATA---------------------------------------------TATT----------------------------------------------------------------
+i calJac1.Contig1260 I 25 I 420
+s tupBel1.scaffold_114895.1-498454 349447 44 - 498454 ------TACACGAGTACATATTGGATATAC-AATA--CATAATTGTATATATT-------------------------------------------------------------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 ------889798998984787894877699-6879--8799659868978999-------------------------------------------------------------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 I 25 C 0
+s canFam2.chr1 78220511 67 - 125616256 cctg--tgtac-------------atacatgaacaaacatag----gtatattcacagccatataactatacata-----------tatatgtatat-----------------------------------------------------------------
+q canFam2.chr1 9999--99999-------------999999999999999999----99999999999999999999999999999-----------99999999999-----------------------------------------------------------------
+i canFam2.chr1 C 0 I 174
+s felCat3.scaffold_217398 81251 127 - 219823 CCTGTATATAC-------------ATACAT-AATATCtgtgt----gtgtgtgtgtgtgtgtgtgtgtgtgtgtg-----------tgtatgCATATACGTGTAACTATCCATATATGTGTTTATATTTTT------TAAGGATCCTATATGTTATTTGATT
+q felCat3.scaffold_217398 99999999999-------------999999-99999999999----99999999999999999999999999999-----------999999999999999999999999999999999999999999999------9999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 301
+s equCab1.chr31 13014468 42 + 24938454 tgtg--tatac-------------atacgt-aata--catat----atatactcacacacgtac--------------------------------------------------------------------------------------------------
+q equCab1.chr31 9999--99999-------------999999-9999--99999----999999999999999999--------------------------------------------------------------------------------------------------
+i equCab1.chr31 C 0 C 0
+e rn4.chr1 229970444 306 - 267910886 I
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3152842 794 + 129993255 ttttactagatattttcttcatttacatttcaaatgctatcccgaaagtcccctataccctccctcccaccctgttccccaactcacccactcctgctgcctggccctggcattcccctgtactggggcatagaaccttcacaggaccaagggtctctcctcccattgatgaccacttaggccattctctgctacatatgcaactagatacatagttctggagggtactggttagttcatattgttgttcctcctatagggttgcagacccctttagctccttgggtactttctctagcttcttcattaggggtcctgtgttccatccaatagatgactgtgagcatccacttttgtatttgccaggcactggcatagcctcataagagacagctatatcagggtcctgtcagcaaaatcttgttggcata [...]
+e rn4.chr1 229970444 306 - 267910886 I
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13014510 0 + 24938454 C
+e rheMac2.chr4 108454566 92 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e canFam2.chr1 78220578 174 - 125616256 I
+e calJac1.Contig1260 17315 420 - 523245 I
+e tupBel1.scaffold_114895.1-498454 349491 0 - 498454 C
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16046736 38 - 170899992 I
+e panTro2.chr6 16569277 41 - 173908612 I
+e ponAbe2.chr6 16347847 4512 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=4493.000000
+s mm9.chr10 3153636 36 + 129993255 tgtaaatgtaccacatt-------atataaatatttataattG------
+s calJac1.Contig1260 17735 42 - 523245 tgtaaatgtat-atacttatatagatatagatatgcatatata------
+i calJac1.Contig1260 I 420 C 0
+s canFam2.chr1 78220752 7 - 125616256 ------------------------------------------gtattta
+q canFam2.chr1 ------------------------------------------9999999
+i canFam2.chr1 I 174 C 0
+s equCab1.chr31 13014510 25 + 24938454 ------------------------atgtaactatacatatatatgtata
+q equCab1.chr31 ------------------------9999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s rheMac2.chr4 108454658 19 + 167655696 ------------------------ATATAAATATGCATATATG------
+q rheMac2.chr4 ------------------------9999988779999999999------
+i rheMac2.chr4 I 92 C 0
+s ponAbe2.chr6 16352359 19 - 174210431 ------------------------atataaatatgcatacatg------
+i ponAbe2.chr6 I 4512 C 0
+s panTro2.chr6 16569318 19 - 173908612 ------------------------atataaatatgcataCATG------
+q panTro2.chr6 ------------------------9999999999999999999------
+i panTro2.chr6 I 41 C 0
+s hg18.chr6 16046774 19 - 170899992 ------------------------atataaatatgcatacatg------
+i hg18.chr6 I 38 C 0
+e rn4.chr1 229970444 306 - 267910886 I
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e tupBel1.scaffold_114895.1-498454 349491 0 - 498454 C
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=95729.000000
+s mm9.chr10 3153672 77 + 129993255 TATTTTCAACCCTTGTAAG---------T------TATTCTTTGATTCATAGTTCCATCAGGCAAGCCTTGGTTT----GTTCTTtatgtagcatg
+s calJac1.Contig1260 17777 53 - 523245 tgtatttatGTTTTAGGGC---------T------TATGACTTGATTCAGAATTCTATCAGGCAGGCA----------------------------
+i calJac1.Contig1260 C 0 I 69
+s rheMac2.chr4 108454677 76 + 167655696 TGTATTTATTTTTTAGGGC---------T------CATTATTTGATTCAGAATTCTATCAGGCAGGCACTGGCCT----CTCTTTAATGTGATGT-
+q rheMac2.chr4 9999999988766999999---------9------9999967999799997525466645367655444475544----3331234342105555-
+i rheMac2.chr4 C 0 I 58
+s ponAbe2.chr6 16352378 77 - 174210431 tatatttatTTTTTAGGGC---------T------CATTATTTGATTCAGAATTCTATCAGGCAGGCACTGTCCT----CTCTTTAATGGGATGTA
+i ponAbe2.chr6 C 0 I 56
+s panTro2.chr6 16569337 77 - 173908612 TGTATTTATTTTTTAGGGC---------T------CATTATTTGATTCAGAATTCTATCAGGCAGGCACTGTCCT----CTCTTTAATGGGATGTA
+q panTro2.chr6 9999999999999999999---------9------9999999999999999999999999999999999999999----99999999999999999
+i panTro2.chr6 C 0 I 56
+s hg18.chr6 16046793 77 - 170899992 tgtatttatTTTTTAGGGC---------T------CATTATTTGATTCAGAATTCTATCAGGCAGGCACTGTCCT----CTCTTTAATGGGATGTA
+i hg18.chr6 C 0 I 56
+s tupBel1.scaffold_114895.1-498454 349491 79 - 498454 ------TATTTTAAAAGGCTTCTCCATGT------TATCGTTTGGTTCAG-ATTCTATCAGGCAGGCACTGGCCT----CTCTTTGATGAAGAGGG
+q tupBel1.scaffold_114895.1-498454 ------99799989999669999964999------999979999639765-839969888999999999999999----99999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 43
+s equCab1.chr31 13014535 75 + 24938454 ------tatgtTTTAAGGC---------TCCTATATGTTGTTTGATTCAGGATTCTATTAGGGAGACACCTGCCC------CTTTTATGGAACATG
+q equCab1.chr31 ------9999999999999---------99999999999999999999999999999999999999999999999------999999999999999
+i equCab1.chr31 C 0 I 59
+s canFam2.chr1 78220759 79 - 125616256 ------tatTTTTTAAGGC---------TACTATATGTTACTTGATTCAGGATTCTGTTAGGGAAGTGCTTACTTGATGGACTCTTATGGAACA--
+q canFam2.chr1 ------9999999999999---------999999999999999999999999999999999999999999999999999999999999999999--
+i canFam2.chr1 C 0 C 0
+e rn4.chr1 229970444 306 - 267910886 I
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3153749 21 + 129993255 tgtgtgtgtatatatatatgt
+e rn4.chr1 229970444 306 - 267910886 I
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13014610 59 + 24938454 I
+e rheMac2.chr4 108454753 58 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e canFam2.chr1 78220838 0 - 125616256 C
+e calJac1.Contig1260 17830 69 - 523245 I
+e tupBel1.scaffold_114895.1-498454 349570 43 - 498454 I
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16046870 56 - 170899992 I
+e panTro2.chr6 16569414 56 - 173908612 I
+e ponAbe2.chr6 16352455 56 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=-422.000000
+s mm9.chr10 3153770 37 + 129993255 atatacacatacacacatttatgtgtgtgtgtgtgta
+s canFam2.chr1 78220838 27 - 125616256 ----------AAGCATGATACTGGGTTTATGACCAGA
+q canFam2.chr1 ----------999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e rn4.chr1 229970444 306 - 267910886 I
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13014610 59 + 24938454 I
+e rheMac2.chr4 108454753 58 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e calJac1.Contig1260 17830 69 - 523245 I
+e tupBel1.scaffold_114895.1-498454 349570 43 - 498454 I
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16046870 56 - 170899992 I
+e panTro2.chr6 16569414 56 - 173908612 I
+e ponAbe2.chr6 16352455 56 - 174210431 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=-14066.000000
+s mm9.chr10 3153807 15 + 129993255 ATAGAACTTGTCAG------------------T
+s equCab1.chr31 13014669 1 + 24938454 --------------------------------C
+q equCab1.chr31 --------------------------------9
+i equCab1.chr31 I 59 C 0
+s hg18.chr6 16046926 1 - 170899992 --------------------------------C
+i hg18.chr6 I 56 C 0
+s panTro2.chr6 16569470 1 - 173908612 --------------------------------C
+q panTro2.chr6 --------------------------------9
+i panTro2.chr6 I 56 C 0
+s ponAbe2.chr6 16352511 1 - 174210431 --------------------------------C
+i ponAbe2.chr6 I 56 C 0
+s rheMac2.chr4 108454811 1 + 167655696 --------------------------------C
+q rheMac2.chr4 --------------------------------4
+i rheMac2.chr4 I 58 C 0
+s canFam2.chr1 78220865 32 - 125616256 -GTGAACTAGTCGCTCTACTGTAGAAGGAGCCC
+q canFam2.chr1 -99999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s calJac1.Contig1260 17899 3 - 523245 ------------AT------------------C
+i calJac1.Contig1260 I 69 C 0
+s rn4.chr1 229970750 15 - 267910886 ACAGAACTTGTCAC------------------T
+q rn4.chr1 99999999999999------------------9
+i rn4.chr1 I 306 C 0
+e bosTau3.chr9 13675165 639 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e tupBel1.scaffold_114895.1-498454 349570 43 - 498454 I
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e oryCun1.scaffold_214769 48732 3283 - 139458 I
+
+a score=568992.000000
+s mm9.chr10 3153822 207 + 129993255 TTGAATCTT--AGGGAACTACCACCCGAGGGCTCAGTG-AGGGAGGAACGTGACC-CTGTGAAGGTTTATTTCCTTTGATTTGTGA--T-GTAAAACTGATTCTGACTTT--AAGTGTAAAGACACACA------CAAAACAGGTCTTTGT--TTG-------AAA-CAAGGACCCA-TGAAAGACTGACT-------------GGAAAGATAGGGG-TGGGGTTGGCAGGGGCT---GGGGCTGAGT------CG
+s rn4.chr1 229970765 194 - 267910886 CTGAATATT--AGGGAAATATCACCTGAGGGCTCTG-G-AGGAAGGAATGTG-------------TTTATTTCCTTTGATTTGTGAAAT-GTAAAACTGATCCTGACTTT--AAGTATAAAGACATAAA------ACAAA--GGTCTTTGT--TTA-------AAA-GAAGGACCCA-AGAAAGACTGCCT-------------GGAAAGACAGGAG-TGGGGTTGGCGGGGGCT---GGGGAGAAGG------GG
+q rn4.chr1 999999999--9999999999999999999999999-9-9999999999999-------------999999999999999999999999-99999999999999999999--99999999999999999------99999--999999999--999-------999-9999999999-9999999999999-------------9999999999999-99999999999999999---9999999999------99
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 17902 224 - 523245 CTGGATCTTCAGGGGAAATGTCACTTAAATGCTCTGTGTAAAAAGGAACTTGACT-TACTGGATATTTATTTCCTTTAATATGTGAAAT-ATAAAACTGAG-CTGACTTT--AAGCATAAGAAAACATT------AAAA---ACTCTTCATTAAAG-------AAA-GAAGGAACTACTAACCCATTGACCTAAGCT----AAAAAAAAGATGGGAGTTTGAGCTGACAGGGAGTGGGAGAGGAAGCG------CC
+i calJac1.Contig1260 C 0 I 10
+s canFam2.chr1 78220897 205 - 125616256 TCAAATCTCAAGAAG---TATCAGTTAAAGGCTCTGTGTGAAAATTTACTTGACT-TCCTGGGTATTTATTTCCTTTGATCTGTGAAAT-GTGAAACTGAT-TAGACTTT--TAGCACAAGGAAACAGA-------AAG---ATTCTTCATTAAAA-------CAA-----GAAATGCTGAAACATTGACTTGAATT----AGAAAAG---TTGAA---------GTCTGGTGGTGGGAGAGAGAAAGA-----AG
+q canFam2.chr1 999999999999999---9999999999999999999999999999999999999-999999999999999999999999999999999-99999999999-99999999--99999999999999999-------999---99999999999999-------999-----99999999999999999999999999----9999999---99999---------999999999999999999999999-----99
+i canFam2.chr1 C 0 I 9
+s tupBel1.scaffold_114895.1-498454 349613 229 - 498454 CTGAATCTCCAGGGGATATATTACTTAAAAGCTCTGTA-AAAAAAGAATTTGACT-TAGTGGGTATTTATTTATTTAGACCTGTGAGAT-GTGAAAGTGAT-CTGAC-TT--AAATGTAAGGAAACATA------AAAT---GC-CTTCATTAATGAAAAAGAAAA-AAAGAAGTTACTAAAATACTGACTTGAGCT--GAAGAAAAGAGGTAGGAATTTGGACTGAT-GGGAATTGGTGAGAAGAGG------GA
+q tupBel1.scaffold_114895.1-498454 99999999993999999999999999999999999999-9999999999999999-999999999999999999999999999999999-99999999999-99999-99--99999999999999999------9999---99-999999999999999999999-999999999999999999999999999999--99999999999999999689999899999-9999889988999999999------99
+i tupBel1.scaffold_114895.1-498454 I 43 I 10
+s rheMac2.chr4 108454812 227 + 167655696 CTGGATCTCCGAAGGAAAAGGCACTTAAAGGCTCTGTGCAAAAAGGAACTTGACTGGACTGGGTGTTTATTTCCTTTGATCTGTGAAAT-GTAAAACTGAG-CTGACTTT--AAGCATAAGAAAACATT------AAAA---ACTCTTCATTAAAG-------AAA-GAAGGAACTACTAACCCATTGACCTAAGCT--GAAAAAAAGGGATGGGAGTTTGAGCTGACAGGGAGTGGGAGAGGAAAGG------GG
+q rheMac2.chr4 34414332544435555340433513444443444444533533544555566650433334304666767555665854455434540-41654455562-66999999--99999389588995899------9999---98477974998999-------999-999999889995555177655411146799--9999999999999999987767799999999999999999999999999------99
+i rheMac2.chr4 C 0 I 10
+s ponAbe2.chr6 16352512 225 - 174210431 CTGGATCTCCAGGGGAAATGTCACTGAAAGGCTCTGTGCAAAAAGGAACTTGACT-TACTGGGTATTTATTTCCTTTGATCCGTGAAAT-GTAAAACTGAG-CTGACTTT--AAGCATAAGAAAACATT------AACA---ACTCTTCATTAAAG-------AAA-GAAGGAACTACTAACACATTGACCTAAGCT---AAAAAAAGAGATGGGAGTTTGGGCTGACAGGGAGTGGGAGAGGAAAGG------GG
+i ponAbe2.chr6 C 0 I 10
+s panTro2.chr6 16569471 225 - 173908612 CTGGATCTCCAGGGGAAATGTCACTGAAAGGCTCTGTGCAAAAAGGAACTTGACT-TACTGGGTATTTATTTCCTTTGATCTGTGAAAT-GTAAAACTGAG-CTGACTTT--AAGCATAAGAAAACATT------AAAA---ACTCTTCATTAAAG-------AAA-GAAGAAACTACTAACACATTGACCTGAGCT---AAAAAAAGAGATGGGAGTTTGGGCTGACAGGGAGTGGGAGAGGAAAGG------GG
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999-99999999999-99999999--99999999999999999------9999---99999999999999-------999-999999999999999999999999999999---999999999999999999999999999999999999999999999999------99
+i panTro2.chr6 C 0 I 10
+s hg18.chr6 16046927 226 - 170899992 CTGGATCTCCAGGGGAAATGTCACTGAAAGGCTCTGTGCAAAAAGGAACTTGACT-TACTGGGTATTTATTTCCTTTGATCTGTGAAAT-GTAAAACTGAG-CTGACTTT--AAGCATAAGAAAACATT------AAAA---ACTCTTCATTAAAG-------AAA-GAAGAAACTACTAACACATTGACCTGAGCT--AAAAAAAAGAGATGGGAGTTTGGGCTGACAGGGAGTGGGAGAGGAAAGG------GG
+i hg18.chr6 C 0 I 10
+s oryCun1.scaffold_214769 52015 207 - 139458 -TGAGTCCC--AGGGAAGTATCTCTCAAAGGCTCTGGG-ACAAAGGAACTTGGCT-CAGTGGGTATTTATTTCCTTTGATCTGTGAAAT-GTAAAACTG--------------AGTGTAAGGAGACATA------GAA----AGTCTTTGTTATAA-------AGA-GAAGGATCCACTAAAACATTGACTTGAGCT----GAGGGGAGACCGGAGG-TGGAGTTGACAAGGGTTGGAGGAGCAAAGG------GA
+q oryCun1.scaffold_214769 -24558587--555262364559585883654852466-6999466875814658-865357789898569798995678955358992-688879835--------------6747893887589995------699----58989635978899-------776-793885699888999699956998568874----6767887889599899-489889569998999939879988999799------87
+i oryCun1.scaffold_214769 I 3283 I 11
+s equCab1.chr31 13014670 235 + 24938454 CTGAATCTCAAGGAGAAATATCAGTTAAAGGCTCTGTGCAAAAATTACCTTGACT-TCCTGGGTATTTAGTTCCTTTGACCTGTGAAAT-GTGAAACTGAT-TGGACTTT--TAGCATAAAGAAACATAAAACATGAAA---ACTCTTCATTATAA-------AAAAGAAGGAACTACTAAAACTTTGACTTGAGTT----GAACAAGAGATAGGAA--TGGGCTGCCAGGCAGTGGGAGAGAAAAGGGAATGTAA
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999-99999999999-99999999--999999999999999999999999999---99999999999999-------9999999999999999999999999999999999----9999999999999999--9999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 9
+s bosTau3.chr9 13675804 220 - 95030419 TTGAATCTCAAGGAGAAATAGCAGTTAAAGCCTTTGTACAAAAATTAACTTGACT-TCCTGGGTATTTATTTCCTTTGATCTGT-AAAT-GTGAAATAGAC-CAGACTTTTATAGCACAAGGGAACATA-------------ACTCTTCATTAAAA-------AAA-AAAGAAGTTATTAAAACATTGACTTGATTG----AAAAAAGAGATAGGAG-TTGGGCAGCAAggcagtgggagaggggagg------ag
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999-9999999999999999999999999999-9999-99999999999-999999999999999999999999999-------------99999999999999-------999-999999999999999999999999999999----9999999999999999-999999999999999999999999999999------99
+i bosTau3.chr9 I 639 I 9
+s dasNov1.scaffold_40472 147 196 - 17534 TTGAATTTT--AGGGA-------------------GTGGGGAAATCAGCTTGATT-TAGTGGCTATTTATTTCCTTTCATCTGTGAAATGGTAAAACTGAT-CTGACTTC--AAACCTAAGGAGCCATA------AAGA---ATCCTTCATTAAGT------TCAA-AAAGGAGCTCCTGGAACCCTGGCTGGAGTCGGGTAAGGATGAGCTGGGCGTTCGGGC-----GGCAGGTGGGGAG--------------
+q dasNov1.scaffold_40472 234336786--37455-------------------42556778567546235468-755245688788568563889866633147882265889953558-71477898--99563781466499989------9359---46939898988538------9799-993865578982878899848982866595878895777656565888689958986-----9997994889876--------------
+i dasNov1.scaffold_40472 N 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e cavPor2.scaffold_284118 45635 3366 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=5036.000000
+s mm9.chr10 3154029 37 + 129993255 AGT----------------------------AGAGGGGAGTAAGCCC----AGCTGGGGCAGGAGGGGA--
+s rn4.chr1 229970959 63 - 267910886 AGCTGGCAGGGTACAGAGGGGAGTAGGGTACAGAGGAGTGTAAGCCC----AGCTGGGGTAGGAGGG----
+q rn4.chr1 99999999999999999999999999999999999999999999999----9999999999999999----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 49001 31 - 169015 AGT----------------------------GAAAGGGAGTGA--------AGCTGGGGGCGGGGGA----
+q cavPor2.scaffold_284118 432----------------------------638567564325--------4663556665555746----
+i cavPor2.scaffold_284118 I 3366 C 0
+s oryCun1.scaffold_214769 52233 25 - 139458 AGT----------------------------GGAGGG--------------GGCTGGGGAAGCCGAG----
+q oryCun1.scaffold_214769 994----------------------------798977--------------7797978899897998----
+i oryCun1.scaffold_214769 I 11 C 0
+s hg18.chr6 16047163 37 - 170899992 AAT----------------------------GGAGAGGAGGGAGACT--GGGGTGGGGGAAGGCGGA----
+i hg18.chr6 I 10 C 0
+s panTro2.chr6 16569706 37 - 173908612 AAT----------------------------GGAGAGGAGGGAGACT--GGGGTGGGGGAAGGCGGA----
+q panTro2.chr6 999----------------------------9999999999999999--999999999999999999----
+i panTro2.chr6 I 10 C 0
+s ponAbe2.chr6 16352747 37 - 174210431 AAT----------------------------GGAGAGGAGGGAGACT--GGGGCGGGGGAAGGCAGA----
+i ponAbe2.chr6 I 10 C 0
+s rheMac2.chr4 108455049 36 + 167655696 AAT----------------------------GGAGAGGAGGGAGACT--GGGGC-GGGGAGGGCGGA----
+q rheMac2.chr4 999----------------------------8599999999999999--99958-999999999999----
+i rheMac2.chr4 I 10 C 0
+s calJac1.Contig1260 18136 36 - 523245 AAT----------------------------GGAGAGGAGGGGAGAT---GGGCAGGGGAAGGCGGA----
+i calJac1.Contig1260 I 10 C 0
+s tupBel1.scaffold_114895.1-498454 349852 36 - 498454 AGT----------------------------GGAGAGGAATGAAAAC--GGGACTGCAGA-GGCTGG----
+q tupBel1.scaffold_114895.1-498454 999----------------------------9999999986999999--99898999999-947999----
+i tupBel1.scaffold_114895.1-498454 I 10 C 0
+s equCab1.chr31 13014914 33 + 24938454 TAG----------------------------CGGGAGGAACAGACCC--TG----GGGGCAGACGGG----
+q equCab1.chr31 999----------------------------9999999999999999--99----999999999999----
+i equCab1.chr31 I 9 I 20
+s canFam2.chr1 78221111 34 - 125616256 AAG----------------------------GGAGAGGATCAGAGCC--TG---TGGGGTGGGTGGG----
+q canFam2.chr1 999----------------------------9999999999999999--99---9999999999999----
+i canFam2.chr1 I 9 I 22
+s bosTau3.chr9 13676033 11 - 95030419 att----------------------------ggagggga--------------------------------
+q bosTau3.chr9 999----------------------------99999999--------------------------------
+i bosTau3.chr9 I 9 I 809
+s dasNov1.scaffold_40472 343 41 - 17534 AGA----------------------------GAAGAGGGAGGAGGGCGAGGGACTGGAATGGGTGGG--GG
+q dasNov1.scaffold_40472 686----------------------------796888886897987486888994999949993977--97
+i dasNov1.scaffold_40472 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=576676.000000
+s mm9.chr10 3154066 212 + 129993255 CCCCCCCACTAACTCCATACTGTGG---------------------------GGT--GCGAGCCCTGGG-----CACACCTGGAGTCCAGCATGCAT-GGACATTGTCATCGATGACCAGCTGTAGGTCTCAGGCTAATGGTT----------TCGAGTTAAG-----AATGTAGGCGTTGTATGTTCTGAGACTG--CACTCCAATGGGATCAGTTAGAGC---------------CTTGGATTTTATATGGCCTAAAAGTGAGCAGGATAATGGG---------AG--
+s rn4.chr1 229971022 203 - 267910886 --------CTAAATCCATACTGTGG-------------------------------------CCCTGGG-----CACATCTGGAGTCCAGGATGCCT-GGACACTATCACCTATGATCAGCCGTAGGTCTCCAGTTAATGGTTAATAATGGTTTGGAGCTCAG-----AATGTAGGCTTTGTATGTTCTGAGACTG--CACTCCAATGGGATCAGCCAGAGC---------------CTCGAATTT-ATATG-CTTTAAAGTGAACAGGAATATGG----------AG--
+q rn4.chr1 --------99999999999999999-------------------------------------9999999-----99999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999--999999999999999999999999---------------999999999-99999-99999999999999999999999----------99--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 49032 250 - 169015 --------GCGGCTCCAGGCCTTGGACTGAGTCAGGTTGG----------AGGGG--GTGTATCCCGGAGGT--CACACCTAGATCTGTGGGCGTTTCGTGTGTTATCACCTGTGATCTGCTGCCCGCTGCTGATTAATGATTAATAATGGTTTCTAGCTCAGTATATAATGTAGTCTTTGTGTGTTCAAAGACTT--CACTGTAGTGGGGTCAGTCAAAGC--AGCATAGCACTTGTTGGAATCTAGTC---TCTAGAAGTGGCCAGAAggattga---------ag--
+q cavPor2.scaffold_284118 --------54441133426755265654465655454354----------65546--554536596763446--66565864545746558566798565556675655665446485557668956665535795754669967968685797977699956999899937957999949493799999677999--999379896888699678999989--77789699999679479997997999---999899995969979979999599---------98--
+i cavPor2.scaffold_284118 C 0 I 489
+s oryCun1.scaffold_214769 52258 229 - 139458 ----------GGGCCCAGGCTCAGG---------GGCTTT----------GAGGG--GTGTGTCTCAGAGGTTGGACGGCTGG--CCGTGGGCGTTTTGTGGGTTATCACCTGGGATCTGCTGCCCGCTGCTGATTAATGATTAATAATCGATTCCAGCTCCGTACGTGATACAGTCTT----TGTTCAGAGACCT--GGCTCT-GTGGGGTCAGCCAGAGC------ATAGGTTTGCTAGCCTTT-ATT---CCCCAGCGTGATCAGACTACCTGA---------GG--
+q oryCun1.scaffold_214769 ----------999999798999998---------999996----------89999--97959989999799949998999699--9797999899998979999989999978899999999999999897689999978999999999799999999899999998688999899999----8999999999995--989998-97888999999999999------999999999999999999-999---999999999999999999999999---------99--
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16047200 247 - 170899992 ---------GGAGCCCAGACGGCGG--------AAGTTTG----------GAGGGGAGTGTTCCCCGGAGGT--CACACCTTGAGGTGTGGGTGTTTTCTGTGTTATCACCTGTGATCTGCTGCCCCTTGCTGATGAACGATTAGGAATTGTTTCTAGCTTAGTATGTAATTTAGTCTTTATATGTTCAGAGACTT--CACTCTGGTGGGATAAGCCAAAGC-----ATAGCATTGGTTGGAATTTTTTC---TCTGGAAGTGGTTAGAAATATCAA--TCATCTGAG--
+i hg18.chr6 C 0 I 9
+s panTro2.chr6 16569743 247 - 173908612 ---------GGAGCCCAGACGGTGG--------AAGTTTG----------GAGGGGAGTGTTCCCCGGAGGT--CACACCTTGAGGTGTGGGTGTTTTCTGTGTTATCACCTGTGATCTGCTGCCCCTTGCTGATGAACGATTAGGAATTGTTTCTAGCTCAGTATGTAATTTAGTCTTTATATGTTCAGAGACTT--CACTCTGGTGGGATAAGCCAAAGC-----ATAGCATTGGTTGGAATTTTTTT---TCTGGAAGTGGTTAGAAATATCAA--TCATCTGAG--
+q panTro2.chr6 ---------9999999999999999--------9999999----------9999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999-----99999999999999999999999---999999999999999999999999--999999999--
+i panTro2.chr6 C 0 I 9
+s ponAbe2.chr6 16352784 247 - 174210431 ---------GGAGCCCAGAGGGCGG--------AAGTTTG----------GAGGGGAGTGTTCCCCAGAGGT--CACACCTTGAGCTGTGGGTGTTTTCTGTGTTATCACCTGTGATCTGCTGTCCATTGCTGATGAACGATTAGGAATTGTTTGTAGCTTAGTATGTAATTTAGTCTTTATATGTTCAGAGACTT--CACTCTAGTGGGATAAGCCAAAGC-----ATAGCATTGGTTGGAATTTTTTC---TCTGGAAGTGGTTAGAAATATCAA--TCATCTGAG--
+i ponAbe2.chr6 C 0 I 9
+s rheMac2.chr4 108455085 240 + 167655696 ---------GGAGCCC-------GG--------AAGTTTG----------GACGGAAGTGCTCCCTGGAGGT--CACACCTTGGGCTGTGGGTGTTTTCTGTGTTATCACCTGTGATCCGCTGCCCATTGCTGATGAACGGTTAGTAATTGTTTCTAGCTCAGGATGTAATTTAATCTTTATATGTTCAGAGACTT--CACTCTAGTGGGAGAAGCCAAAGC-----ATAGCATTGGTTGGTATTTTTTC---TCTGGAAGTGGTCAGAAATAACAA--TCATCTAAG--
+q rheMac2.chr4 ---------9999999-------99--------9999999----------9899999999999999999999--99999999999997389926689999999999999999999999999999999178778999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999-----99999999999999999999999---999999999999999999999999--999999999--
+i rheMac2.chr4 C 0 I 9
+s calJac1.Contig1260 18172 248 - 523245 ---------GGAGCCCAGACTGCGG--------AAGTTTG----------GAGGGGAGTGTTTCCCAGAGGT--CACACCTTGAGCTGTGGGTGTTTTCTGTGTTATCACCTGTGATCTGCTGCCTGTTACTGATGAACGATTAGTAATTGTTTCTAGCTCAGTATATAATTTAGTCTTTATATGTTCAGTGACTTCCCACGCTAGTGGGATCAGCCAAAGC-----ATAGCATTTGTTGGAG-TTTTTC---TCTGGAAGTGGTCAGAAATATCAA--TTATCTAAG--
+i calJac1.Contig1260 C 0 I 9
+s tupBel1.scaffold_114895.1-498454 349888 240 - 498454 ---------GAAGCACAGCCTA-GT--------GAGTTGT----------GAGGGG-GTGTATCCTGGAGGG--CACACCTCGAGCTGTGGGTGTATTGTATACTATCACCTGTGATGTGTTGCCCACTGCTGATTAATGATTAATAATCATTTCCAGCTCAGTGCATAATGTAATCTTTGTGTGCTCAGAAACTT--CACTCCAGTGAGGTCAGCCAGAGT-----ATAGCATCTGTTGG-ATCTGTTT---TCTAAAAGTGGTCAGAAG----GG--TCATCTAAG--
+q tupBel1.scaffold_114895.1-498454 ---------9998899989999-99--------9999998----------999999-657398999989999--68998999999799699668687996979999998889959938476994996999579859965865796699795699685989898887767868379897998368648958787679--656978666684968586656855-----84586425383762-33465189---564699545512635321----28--384696667--
+i tupBel1.scaffold_114895.1-498454 C 0 I 9
+s equCab1.chr31 13014967 246 + 24938454 -----------TGCCCAGAGGACCA--------AAGTGCTGAGGGGAGTGTGGAGGAGTGTGGCTTGGAGGT--CACACCTTGAGCTGTGGGTGTTCTGTGTGTTATCCCCTGTAATCTGCTACCCATGGCTGATTAATGATTAATAATTGTTTCTAG-TCAGCATAGAATATAGTCTTTATATATTCAGAGTCTT--CACTCCAG-GGGGTGAGCCAGAGCATAGCATAGTATTTGTAGGAATTTATTG---TCTAGAAGTGATCAGAAGTAT----------------
+q equCab1.chr31 -----------99999999999999--------999999999999999999999999999999909999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999--99999999-9999999999999999999999999999999999999999999---999999999999999999999----------------
+i equCab1.chr31 I 20 C 0
+s canFam2.chr1 78221167 224 - 125616256 -----------TT--------------------AAGTGCC----------TGGGGGAGTGTGGCCTGCAGGT--CACACCTTGGGCTGTGGGTGTTCTGTGTGTTATCACCTCCAATCTGCTGCCCATGGCTGATTAATGATTAATGATTGTTTCTAGCTCAGCATATAATGTAGTCTTTATATGTTC--AGTCTT--CACTCCAGTGGGGTGAGCCAAAGCATAGCATAGCATTTGAAGGAATTTATTA---TCCAGAAGGGGTCAGAAATAC----------------
+q canFam2.chr1 -----------99--------------------9999999----------9999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999--9999999999999999999999999999999999999999999999999999---999999999999999999999----------------
+i canFam2.chr1 I 22 C 0
+s dasNov1.scaffold_40472 384 242 - 17534 ---------------CGGGCATGGG--------AACAGAC----------CAGGTGGGCGTTTGCTGGAGGT--CACACCTCGAGCTGTGGGTGTTCTGTGGCTTATCACCTGCAATCTGCTGCCTGTTGCTGAGTCATGATT---AATTGTTTCTGGCTGGGTGGCTCATGTCATCTTTATGTGTTCAGAATCGG--CCCTGTAGTGGGTCAGCCAAAAGC-----CAAGTGTTTGCAGGAATGTGTTC---TCTAGAAGTGGCCAGAAATCCCCAAGCCTTAGAAGGG
+q dasNov1.scaffold_40472 ---------------6998995989--------9996699----------9799599979996894887889--999999979999594988569996949999998999969999997967599499496496999939999---99949999939884978497799755899999997555579959999498--996479994699999999999999-----99996999799999998989999---9999999949999999999999999999999999999
+i dasNov1.scaffold_40472 C 0 C 0
+e bosTau3.chr9 13676044 809 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-64660.000000
+s mm9.chr10 3154278 139 + 129993255 ACTGTT--------CTCCCAGCA-----CCCAAGGGCA--AGGTGCAAG----GCCCTGAGATGAGCAGTAAGGTCTAGCACCCCC---------------CA-----CCTTCCTCCCTTT-G---CCCTCCTTG----------TAC---TTTGGTC----CAGTCTTCATGCTTACAAACCTACATACA-TCGGGCGA
+s rn4.chr1 229971225 135 - 267910886 ACCATT--------CTCCCAGCA-----CCCTAGGGCA--AGGTGCAAA----GCCCTGAGATGACCAGTAAGGTCCAGCACCTCC---------------CT-----CCTCCCTCCCTTT-G---CCCTCCATG----------TAC---TTTGACC----CAGTCTTCATGCTCACAAAACCACACACA-----GCAA
+q rn4.chr1 999999--------999999999-----9999999999--999999999----999999999999999999999999999999999---------------99-----9999999999999-9---999999999----------999---9999999----99999999999999999999999999999-----9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 52487 142 - 139458 ---GTTAGGAGGGCCCCCCAAC------CCAAAGGGCACTGGGTG---G----GCCTGGAGATAAGCACTGCTCTCCAAGCCTTCG---------------CAGTGTGCCCTCCCTCCTCC-T---CCCACTTGG----------TGCACATTGGAGG----GAGTCTTCATCTCCCCCCACCCACGTGCC---------
+q oryCun1.scaffold_214769 ---9999999999999999999------99999999999999999---9----999999999999999999999999999999999---------------99999999999999999999-9---999999999----------9999999999999----99999999999999999999999999999---------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16047456 147 - 170899992 -------------TCCCTAACCCCACGCCCCCAAAGAA--GGGTACATG--------TAAGATAAACAATATAATCCAGTATTTCCAACAG--------AACA-----CTCCTCATCCCCC-G---ATTTCAGTG----------TAC---CTAGTATTTATTAGTATTTATACCCATACGCTAATATACAATAGAGTGA
+i hg18.chr6 I 9 I 324
+s panTro2.chr6 16569999 147 - 173908612 -------------TCCCTAACCCCACGCCCCCAAAGAA--GGGTATATG--------TAAGATAAACAATATAATCCAGTATTTCCAACAC--------AACA-----CTCCTCATCCCCC-G---ATTTCAGTG----------TAC---CTAGTATTTATTAGTATTTATACCCGTATGCTAATATACAATAGAGTGA
+q panTro2.chr6 -------------9999999999999999999999999--999999999--------9999999999999999999999999999999999--------9999-----9999999999999-9---999999999----------999---9999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 9 I 316
+s ponAbe2.chr6 16353040 138 - 174210431 -------------TCCCCAACCCCACGCCCCCAAAGAA--GGGTACATG--------TAAGATAAACAATATAATCCAGTATTTCCAACAC--------AACA-----CTCCTCATCCCCC-G---ATTTCACCG----------TAC---CTAGTATTTATTAGTATTTATACCCATATGCTAATATACA---------
+i ponAbe2.chr6 I 9 I 323
+s rheMac2.chr4 108455334 150 + 167655696 -------------TCCCCCATCCCATGCCCCCAAAGAA--GGGTACACT--------TAAGATAAACAACATAGTCCAGTATTTCCAACAC--------AACA-----CTGCCCACCTCCC-TCCCATTTCACTA----------TAC---CTAGTATTTATTAGTATTTATACACATATGCTAATATACAATAGAGTGA
+q rheMac2.chr4 -------------9999999999999999999999999--999999999--------9999999999999999999999999999999999--------9999-----9999999999999-9999999999999----------999---9999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 9 I 307
+s calJac1.Contig1260 18429 137 - 523245 -------------TCTACCACCCCATTCCCCTAAAGAA--GGGTACATG--------TAAGATAAACAATATAGTCCAGTATTTCCAACAC--------AACA-----CTGCCCTCCCTCC-A---ATTTCACTA----------TAC---C----------TAGTATTTATACGCATATGCTGATACACAATAGAGTGA
+i calJac1.Contig1260 I 9 I 314
+s tupBel1.scaffold_114895.1-498454 350137 120 - 498454 -------------CACCCCAACACACAGCCC---AACA--TGGT-----------------------GATGCAGTCTAGTTT-------AC--------AGCA-----CTGCCCACCCCTC-T---TTCTCCTTGGCACACTGTATAC---CTAATCTTCAT--GCTTGTGTACCCATGAGTGACTAGGA----------
+q tupBel1.scaffold_114895.1-498454 -------------221899467566657676---3555--2221-----------------------553633427322398-------53--------3533-----3531835456553-5---8453565457443333525353---33431416312--44122121131422232222145223----------
+i tupBel1.scaffold_114895.1-498454 I 9 I 10
+s equCab1.chr31 13015213 96 + 24938454 ------------------CATCCAGGGGTTT---GGAA--GGCTCC--------------CCCTAGAAGGATGGTCCAGCATGTAAGACAC--------ATTG-----TCCTTCTCCCCCCAT---TTCCACTTT----------TAG---CTTGGTG----CCAT----------------------------------
+q equCab1.chr31 ------------------9999999999999---9999--999999--------------9999999999999999999999999999999--------9999-----999999999999999---999999999----------999---9999999----9999----------------------------------
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78221391 104 - 125616256 ------------------CAGCTAAAGTTTA---GGAA--AGCTCTTTC----TCCCCAACCCCAGAAGGATGTTCAACCAC-TGAGATAC--------ACCA-----TTCTCTTCCGCCC-T---TTCCACTTT----------TAG---CTTGGTG----TAGT----------------------------------
+q canFam2.chr1 ------------------9999999999999---9999--999999999----99999999999999999999999999999-99999999--------9999-----9999999999999-9---999999999----------999---9999999----9999----------------------------------
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_40472 626 110 - 17534 ----------------------CTCTTCCTCCCGGAGA--GGgtgtgtgtgtgtgtgtgtgtAAGATAACATAGTCCAGGAC--CCAGCACTGCCCCTGGCCG-----CCCACCTCCCACA-A---TTCCCCTTT----------CAG---CTGGGTG------------------------------------------
+q dasNov1.scaffold_40472 ----------------------9999999999999999--999666999999999999989998999999999999999999--9999999569999799999-----9999999999999-9---999999999----------999---9547869------------------------------------------
+i dasNov1.scaffold_40472 C 0 C 0
+e bosTau3.chr9 13676044 809 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 81378 301 - 219823 I
+e cavPor2.scaffold_284118 49282 489 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=317446.000000
+s mm9.chr10 3154417 156 + 129993255 GGACTTTA-ACCCAAACCC-GGGGATAGAGAATATCTGC-TGGGACCA-TCTCAGACCCTAGCTCAGATGAGTCACCCACTTGCGATCCC--C--------TAGCCACGTGGGTG-ACCTTTCAGAGTTTCTGGGCTCC-TTAGGA---CAC--AGTTTACACTTCAAACT---ATCAGA
+s rn4.chr1 229971360 155 - 267910886 GGACTTTA-ACCCAAACCCCAGAGATAGAGAGTATCTAC-TGTGACCA-TGTCAGACCCTAGCTCGGATGAGTCACCTACTTGCCATCCC--C---------AGCGGCGTGGGTG-ACCTTTCAGAGTTTCCAAACTCC-TTAGGA---CAC--AGTTTACACTTCAA-CT---GTCAGA
+q rn4.chr1 99999999-999999999999999999999999999999-99999999-99999999999999999999999999999999999999999--9---------9999999999999-99999999999999999999999-999999---999--99999999999999-99---999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 52629 150 - 139458 -GGCTTTG----CATG----------------CATGTCA-TGTGGACATTTTTGGATCTAGGCTCACATGAATCATGCACTTGCTCTACCAGCTCCCGGAGTCGCCACGCGGGCATCCATTTCTGAGTTCCTGAACTCTGTTAAGAATGCAT--TGGTTATACTTAAAAC------ATGA
+q oryCun1.scaffold_214769 -9999999----9999----------------9999999-9999999999999999999999999999999999999989999999999989999999999998997979899889997999989999998899999989999999989989--9999999999999998------6999
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16570462 165 - 173908612 TGACTTTACACCGAAATCTT-------AAAAATACATAC-AGTGAGCA-TCTCAGACACAGGACCAGGGGAATCATATATTTGTTGTTCCAGATCCAGAAGCAGCCATGTGTGTATTTATTTCTGAGTTCCTGAACCCTGTAAGAA---CACACAGGTTATACTTGAAATG---AATGGG
+q panTro2.chr6 99999999999999999999-------999999999999-99999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999---999999
+i panTro2.chr6 I 316 C 0
+s hg18.chr6 16047927 165 - 170899992 TGACTTTACACCGAAATCTT-------GAAAATACATAC-AGTGAGCA-TCTCAGACACAGGCCCAGGGGAATCATATATTTGTTGTACCAGATCCAGAAGCAGCCATGTGGGTATTTATTTCTGAGTTCCTGAACCCTGTAAGAA---CACACAGGTTATACTTGAAATG---AATGGG
+i hg18.chr6 I 324 C 0
+s ponAbe2.chr6 16353501 164 - 174210431 -GACTTTACACTGAAATCTT-------GAAAATACATAC-AATGAGCA-TCTCAGACACAGGCCCAGGGGAATCATATATTTGTTGTACCAGATCCAGAAGCAGCCATGTGGGTATTTATTTCTGAGTTCCTGAACCCTGTAAGAA---CACACAGGTTATACTTGAAACG---AATGGG
+i ponAbe2.chr6 I 323 C 0
+s rheMac2.chr4 108455791 163 + 167655696 TGATTTTACACCGAAATCTT-------GAAAATACTG---AGTGAGCA-TCTCAGACACAAGCCCAGGGGAATCATATATTTGTTGTACCAGATCCAGAAGCAGCCATGTGGGTATTTATTTCTGAGTTCCTGAACCCTGTAAGAA---CACACAGGTTATACTTGAAATG---AATGGG
+q rheMac2.chr4 99999999999999999999-------9999999999---99999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999---999999
+i rheMac2.chr4 I 307 C 0
+s tupBel1.scaffold_114895.1-498454 350267 155 - 498454 TCACTTTGTATCTACAGCCT-------TGGAGTAAAGACTTGTGAGCA-TTT--GGATCAAGCCCAGATAAATCAGTGACTTGCTATGACCTATCCAGGA-CAGCCA-GTGAATTTCTTGGCTAAAGCTCTGGGAGCCTTGAATCA---CA-----GTTAT-CTTAAAATGTTAAA----
+q tupBel1.scaffold_114895.1-498454 14112345122322212232-------413731573221215123112-721--1253821725712325452513122144222225132422241542-522321-20214224416151155512251434332314131111---11-----35421-32427832233223----
+i tupBel1.scaffold_114895.1-498454 I 10 I 382
+s equCab1.chr31 13015309 153 + 24938454 -----TTTTACCTAAATCTT-------GCAAATGCTTAC-TCTGACCA-TTTCACACCCTA-----GTTGACTCA--TGCTTGCTATACCAGATCCAGAAGGAGTCTCGTGGGTATTCATTTCAGAGTTCCTGAACTCTGGGAGAA---CACACAGATTATACTTAAAACT---AATGGG
+q equCab1.chr31 -----999999999999999-------999999999999-99999999-999999999999-----999999999--999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999---999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78221495 158 - 125616256 -----TTATACCTAAATCTT-------GAAAATATATGT-TCTGGACA-TTTCTGACCCAGGCCCAGATGAATCA--CACTTGCTATACCAGATCCAGAAGCCGCCACGTGGGTGTTCATCTCGAAGGTCCTGAACTCTGGAAGAA---CATACGGATTGTACTTAAAACT---AATGGG
+q canFam2.chr1 -----999999999999999-------999999999999-99999999-99999999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999---999999
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_40472 736 162 - 17534 -CGCTCTAAACGTCAATCCG-----G----AAAATACAC-GCTGAACT-TTTCCCACCCAGGCGCGCAGGAATCAAAAACCAGCTCTTCCGGATCCAGAGGCAGCCACGTGGGTTTTCGTTTTTGAGGTTGTGACCTCTGGGAAGA---CAGGCAGGGCACGCTGAAAACG---AATGGG
+q dasNov1.scaffold_40472 -7999999997999999999-----9----999999999-99999999-9999999999899795995779999999999999999999999999999999999999899999999999999999999999999999999999999---9999999999999999999999---999999
+i dasNov1.scaffold_40472 C 0 C 0
+s echTel1.scaffold_320259 34559 138 - 41042 -------------------------TGGGGAATATGTCC-TCTGAACG-TTTTGGACCCAG------ATGAATCATGCACTTGCTCTACCAGCTCCA---GCAGCCACGTGGGTATCCATATTTCCAGCCTTAAACTCTACAAGAA---CACACAGGCTACACTTAAAATG---ATGGGG
+q echTel1.scaffold_320259 -------------------------75877986967856-96598966-999984636634------945886964889899888854464599658---6655788746799666578686982336745459666646579566---4453545659986689999979---969999
+i echTel1.scaffold_320259 N 0 C 0
+s bosTau3.chr9 13676853 134 - 95030419 ------------------------------AGTACATAC-TACGAACA-TTTCAGATGCAAGCCCAGATGAATCA--CACTGGCTCTACCAGA------AGCGGCTGCATGGGTATTCATTTCTGAGGTCCTGAACTCTGGAAGGA---CACGCAGATTATACTTAAAACT---AATGGG
+q bosTau3.chr9 ------------------------------999999999-99999999-99999999999999999999999999--9999999999999999------99999999999999999999999999999999999999999999999---9999999999999999999999---999999
+i bosTau3.chr9 I 809 C 0
+s felCat3.scaffold_217398 81679 111 - 219823 -------------------------------------------------------------GCCCGGATGAATCA--CACTTGCTGTACCAGATCCAGGCGCCGCCACCTGGGCGTTCGTCTCCGAGGTCCTGAACTCTGGAAGGA---CATTGAGATTATACTTAAAACT---AATAGG
+q felCat3.scaffold_217398 -------------------------------------------------------------99999999999999--999997769899897999999999999999999999999899998995999999999999979999999---9999997999999999999999---999999
+i felCat3.scaffold_217398 I 301 C 0
+s cavPor2.scaffold_284118 49771 135 - 169015 ---------------------------gaacacAGCTAC-TATGAGCC-TTTCAGTGTCAGGCTCTGATGAATCACACACTTGCTCTCGAGGC---------AGCCACATGGGTATTCCTTTCTGAGTTCCTGAACTTCATAAGAA---CAC-TAGTTTATGCTTAAAACG---AAGGGG
+q cavPor2.scaffold_284118 ---------------------------999979999999-99599596-79999757899998973773594776669889267998797677---------86997993376859889999836568789469669998993785---899-956999938979999669---957777
+i cavPor2.scaffold_284118 I 489 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 18566 314 - 523245 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=234515.000000
+s mm9.chr10 3154573 119 + 129993255 TCC--TGATTATAGCTGGATATATAAA-----------------------GACA-GCTT---------GGGTGTCACCTC-----TGAGGGGTGTGGCTGCCTG---GCTCTCACTGGCTTGCTTTCCAG------------------------------------CAGGG----TTGATTTTCTCCCAGGGTTAAGCA--CAT
+s rn4.chr1 229971515 117 - 267910886 GCC--TGATCACGGCTGGGTATAGAGA-----------------------GACA-GCTT---------GGGTGTCAGCTC-------AGGGGTGTGACTGCCAG---GCGCTCACTGTCTCCCTTTCCAG------------------------------------CATGG----TTGCTTTCCTCCCAGGGTTAAGCA--TAT
+q rn4.chr1 999--9999999999999999999999-----------------------9999-9999---------999999999999-------99999999999999999---99999999999999999999999------------------------------------99999----999999999999999999999999--999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 49906 149 - 169015 GCT--TGATTATGgcaag--atgaaaa-----------------------gaaa-acac---------aagaaccACCTC-----TAAAGTGTGTGGCtacc------ctctctctttctctctctctggctctgcgTTGTTTTCTAGATTGTT-ACGGTGGCTGACACTG----TCACTTCTTTCCCAGGGTTAAACA--TAT
+q cavPor2.scaffold_284118 989--3689996989967--8269995-----------------------8999-7879---------969968967999-----99989595958989799------9999999999999999999299899796995999999999996999-9899799959999979----999999999999999999999999--999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 52779 141 - 139458 GCT--TGCTTGTGGCAGG--AGGAGAA-----------------------GACC-AAAC-----CGCAGGGCGCCACCTC-----TGAACGGCGTGGCTGCCTG--CCCTCTTGCTTTCCCTTCTTCCAG------------------ATTGCT-CTGGGGGTTGACACTG----TCGCCTCTTTCCCAGGGTAAGGCATGTAT
+q oryCun1.scaffold_214769 899--9999999999899--9999999-----------------------9998-6999-----9889899889949999-----9999989989999999999--999898999899999799699949------------------999997-9899999999995889----88689687998884899999998799999
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16570627 144 - 173908612 AAT--TGATTA-GGCAGA--ATGAAAA-----------------------AAAA-CCCAAAACCCACAAAACCCCACCTC-----TGAAGGGTGTGGCCGCTCG-CCCTCCCCTCTGTGTCGTTTTCCAG------------------ATTGTT-CATGTGGTTGAGGTTG----TCGCATCATTCCCGGGGTTAAACG--TAC
+q panTro2.chr6 999--999999-999999--9999999-----------------------9999-9999999999999999999999999-----9999999999999999999-9999999999999999999999999------------------999999-9999999999999999----999999999999999999999999--999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16048092 144 - 170899992 AAT--TGATTA-GGCAGA--ATGAAAA-----------------------AAAA-CTCAAAACCCACAAAACCCCACCTC-----TGAAGGGTGTGGCCGCTCG-CCCTCCCCTTTGTGTCATTTTCCAG------------------ATTGTT-CATGTGGTTGAGGTTG----TCGCATCATTCCTGGGGTTAAACG--TAC
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16353665 145 - 174210431 AAT--TGATTA-GGCAGA--ATAAAAA-----------------------AAAACCCCAAAACTCACAAAACCCCACCTC-----TGAAGTGTGTGGCCACTCG-CCCTCCCCTTTGTGTCGTTTTCCAG------------------ATTGTT-CATGTGGTTGAGGTTG----TCGCATCATTCCTGGGGTTAAACG--TAC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108455954 144 + 167655696 AAT--TGATTA-GGCAGA--ATGACGA-----------------------AAAA-CCCCAAACCCACAAGACCCCACCTC-----TGAAGGGTGCGGCCGCTCG-CCCTCCCCTTTGTGTCATTTTCCAG------------------ATTGTT-CACGTGGTCGGGGTTG----TCGCATCATTCCCGGGGTTAGACG--CAC
+q rheMac2.chr4 999--999999-999999--9999999-----------------------9999-9999999999999999999999999-----9999999999999999999-9999999999999999999999999------------------999999-9999999999999999----999999999999999999999999--999
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78221653 140 - 125616256 GCT--TGATTATGGTTGG--ATG-AAA-----------------------AAAC-CAAA------GTAAGAACCCACCTC-----TGAAGGGTGTGGCTGCCCTTTCTCTTGCTTTGCATTGTTTCCCAG------------------ATTGTTGTGGGTGGCTGACATTG----CCACATCATTCCCGGGGTTAAACA--TAT
+q canFam2.chr1 999--9999999999999--999-999-----------------------9999-9999------999999999999999-----999999999999999999999999999999999999999999999------------------99999999999999999999999----999999999999999999999999--999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13015462 137 + 24938454 GCT--TGATTATGGTAGG--ATGAAAA-----------------------AAAA-GAAA------ATAAGAACCCACCTC-----TGCAGGGTGTGGCT----TTTCTCTTGCTTTGCGTTGTTTCCCAG------------------CTTGTTGTGGGTGGTTGACATTG----CCACATCGTTCCCAGGGTTCAGCA--CAG
+q equCab1.chr31 999--9999999999999--9999999-----------------------9999-9999------999999999999999-----99999999999999----999999999999999999999999999------------------99999999999999999999999----999999999999999999999999--999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13676987 128 - 95030419 ACT--TGATTATGGTAGG--GTG-AAG-----------------------AACA-ACAA------ATGGGGACCCACCTC-----TGCAGGGTGTGGCTGCCCTTCCTCCTGCTCTGCATTGTTC------------------------------TGGGTGGTGGATGTGG----CCACATCATTCCCAGGGTTAAACA--TAT
+q bosTau3.chr9 999--9999999999999--999-999-----------------------9999-9999------999999999999999-----9999999999999999999999999999999999999999------------------------------9999999999999999----999999999999999999999999--999
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 81790 138 - 219823 GCT--TGATTATGGTTGG--ATG--AG-----------------------AAAC-CAAA------GTAAGAACCCACCTC-----TGAAGGGCGTGGCTGCCCCTTCTCTTGCTTCGCATTGTTTCCCAG------------------ATTGTTGTGGGTGGTTGACGTTG----CCACATCG-TCCCAGGGTTAAACA--TAT
+q felCat3.scaffold_217398 999--9999999999999--999--99-----------------------9999-9999------999999999999999-----999999999999999999999999999999969999999999999------------------99999999999999999998999----99999995-999999999999999--999
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_40472 898 142 - 17534 GCT--TGATTACGGCGGA--TTAAAAC-----------------------CAAA-CCAG---AACCCAGAAGCCCTCTCC-------AAAGGCGAGCCTGCTCCTTCTCCTGCTTTGAGTTGTTTCCCAG------------------CTTGTCCTGGGGGGTTGACACCG----TCCGGTCATTCCCAGGGTTAAACG--TGT
+q dasNov1.scaffold_40472 999--9999999999999--9999999-----------------------9999-9999---999999999999999999-------9999999999999999999999999999999999999999999------------------99999999999999999999999----999999999999999999999999--999
+i dasNov1.scaffold_40472 C 0 C 0
+s echTel1.scaffold_320259 34697 175 - 41042 GCTGCTGATGGCTGGGGA--Gacacacacacacacacacacacacacacacaca-caca---cacacacatacacacCCCACTTTTGAAGGGTGGAGCTGCTGTGTCTCTGGCTTCCCATTGTCCCCTGG-------------------TTGTTGTGGGTGGTGGTTAACTGTGCTCCAATCACTAT--GGGTTAAACA--TCG
+q echTel1.scaffold_320259 749957996996989979--9999999999999933469999999898888999-9997---99999999999999899986899988989969999977979699999999999954799989999598-------------------78799999997999998999999998779996897816--7755699797--976
+i echTel1.scaffold_320259 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 18566 314 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=627150.000000
+s mm9.chr10 3154692 142 + 129993255 ACTCAGCTCTGTGAAAACATCCATTCTCAACAGCCCGGAATTGTAATTCAGTGGAATGTGG-TTTTAAAACAATTTC-------ACAGAGTAGATTTTTAGT-TTTTAGCAATTACTCTGTTTACAAAACAGTCCCCT------------------------------GATTTT-TGCTCC--------T
+s rn4.chr1 229971632 142 - 267910886 ACTCAGCTCTGGGAAAACATCCATTCTCAACAGCCCGAAGTTATAATTCAGTGGAGTGTGG-TTTTGAAACAATTTC-------ACAGAGTAGACTTTTAGT-TTTTAGCAATTATTGTGTTTAGAAAACAGTCCCTG------------------------------GATTTT-TGCTCC--------T
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999-999999999999999-------999999999999999999-99999999999999999999999999999999999------------------------------999999-999999--------9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 50055 148 - 169015 ACTTGATTCTGGGAAAGCTTCCATTTTCAGCAGGCCAACATTATAATTCCATGGAATGtgg-ttttaaagtaattta-------acaCAGCaaac--ttagt-ttttatt-attactgttttaaaaaaatcaacccta------------------------------atttttctgcttcattctccAT
+q cavPor2.scaffold_284118 9994999996499998999999999999999999999999999999999998999979569-999999999999999-------99999999999--99999-9999999-999998999999999999999999999------------------------------9999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 52920 142 - 139458 ACTCAGTGCTGGGAAGGCTTCCATTGTCAACAGTCCAGGGTTGTAATTCACTGGACTGCGG-TTTTAAAATAGCTTA-------ACAAGGTGAATTTTTAGT-TTTTAAGAGCAAGCACTGAAAGAAACCAGCCCCCA------------------------------GGTTTC-TGCCTC--------T
+q oryCun1.scaffold_214769 9856479988999999976888389986386488883799999999998588989659758-699889899896689-------653699699889987889-77878779654786557999989987638676753------------------------------698996-377769--------6
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16570771 137 - 173908612 ACTCAGTTCTGGGAAAGCTTCCATTTTCAACAGTCC--AGTTAGAATTCAGTGGAATGTGA-TTTGAAAGTAATTTA-------ACAAGTTACATTTTAAGT-TTTTAATAGTTACC-TTTTTAAAAA--AGTCCCAA------------------------------TTTTTC-TGCTCC--------T
+q panTro2.chr6 999999999999999999999999999999999999--99999999999999999999999-999999999999999-------999999999999999999-99999999999999-9999999999--99999999------------------------------999999-999999--------9
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16048236 139 - 170899992 ACTCAGTTCTGGGAAAGCTTCCATTTTCAACAGTCCAAAGTTAGAATTCAGTGGAATGTGA-TTTGAAAGTAATTTA-------ACAAGGTACATTTTAAGT-TTTTAATAGTTACC-TTTTTAAAAA--AGTCCCAA------------------------------TTTTTC-TGCTCC--------T
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16353810 141 - 174210431 ACTCAGTTCTGGGAAAGCTTCCATTTTCAACAGTCCAAAGTTAGAATTCAGTGGAATGTGA-TTTGAAAGTAATTTA-------ACAAGGTACATTTTAAGT-TTTTAATAGTTACC-TTTTTAGAAAACAGTCCCAA------------------------------TTTTTC-TGCTCC--------T
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108456098 141 + 167655696 ACTCAGTTCTGGGAAAGCTTCCATTTTCAACAGTCCAAAGTTAGAATTCAGTGGAATGTGA-TTTGAAAGTAATTTC-------ACAAGGTACATTTTAAGT-TTTTAATAGTTATC-TTTTTAAAAAACAGTCCCAA------------------------------TTTTTC-TGCTCC--------T
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999-999999999999999-------999999999999999999-99999999999999-99999999999999999999------------------------------999999-999999--------9
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 18880 141 - 523245 GCTCAGGTCTGGGAAAACTTCCATTTTCAACAATCCAAGGTTAGAATTCAGTGGAATGTGA-TTTGAAAGTAATTTA-------ACAAGGTATATTTTAAGT-TTTTAATAGTTACC-TTTTTAAAAATCAGCCCCAA------------------------------TTTTTC-TGCTCC--------T
+i calJac1.Contig1260 I 314 C 0
+s canFam2.chr1 78221793 170 - 125616256 ACTCAGTTCTGGGAAAGCTTCCATCCTCAACAGTCCACAATTATAATTCAGTAGAATGTGGTTTTAAAAATAATTTA-------ACAAGGTAAAATTTTAGT-TCTTAATAGTTACCATTTA-AAAAACCAGT--CAGTttttgtttttgtttttgttttgttttgttttgttt-tgcttC--------T
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999-------999999999999999999-9999999999999999999-9999999999--999999999999999999999999999999999999999-999999--------9
+i canFam2.chr1 C 0 I 3
+s equCab1.chr31 13015599 140 + 24938454 ACTCAGTTCTGGGAAAGCATCCATCTTCAGCAGTCCATTGTTATAGTTCATCGGAAGGTGGGTTTAAAAAT-ATTTA-------ACAAGGTAAAATTTTAGT-TTCTAATAGTTACCATTTAGAAAAAACAGC--CAA------------------------------TTTTTC-TGCTCC--------T
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999-99999-------999999999999999999-999999999999999999999999999999--999------------------------------999999-999999--------9
+i equCab1.chr31 C 0 I 123
+s bosTau3.chr9 13677115 141 - 95030419 ACCCAGTTCTGGGAAAGCTTCCATCTTCAACAGTCCACAGTGATCATTCAGTGGAATGTGGTTTTAAAAATAATTTA-------ACAAGGTAAAATTTTAGT-TTTTAATAGTTACCACTTAAAAATCCCAGC--CAG------------------------------TTTTTC-TGCTTC--------T
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999999999-------999999999999999999-999999999999999999999999999999--999------------------------------999999-999999--------9
+i bosTau3.chr9 C 0 I 3
+s felCat3.scaffold_217398 81928 144 - 219823 ACTCAGTTCTGGGAAAGCTTCTATCCTTAGCAGTCCACAATTCTAATTCAGTGGAACGTGG-TTTAAAAATAATTTG-------ACAAGGTAAAATTTTAGTGTTTTAATAGTTACCATTTA-AAAAACCAGT----------------------------TTTTTTTTTTTTT-TGCTTC--------T
+q felCat3.scaffold_217398 9999999999999999999999999999979969999999999999998999999999999-999999999999999-------99999999999999998999999999999999996979-9999999999----------------------------9999999999999-799999--------9
+i felCat3.scaffold_217398 C 0 I 3
+s dasNov1.scaffold_40472 1040 138 - 17534 GCTCCGTTCTGGAAAAGCTTCCATTGTCAACATCGCAGAATTAGAATTCGGCAAAAAGTGATTTTAAAGAGAATTTA-------ACAAGGTAAAATTTTAGT-ATTTAATCGTT----TTTAAAAAAAAAATAGCCAA------------------------------TTTTTA-TCCTCC---------
+q dasNov1.scaffold_40472 99999999999999999999999999999999999999999999999999999999999999999999999999999-------999999999999999999-99999999999----99999999999999999999------------------------------999999-999999---------
+i dasNov1.scaffold_40472 C 0 C 0
+s echTel1.scaffold_320259 34872 145 - 41042 ACTCAACCCTGGGAAAGTTTCCCTTTTTGACATTGCAACATTGTAATCCAGTGGAGTGTGGTTTCAGAAATAATTTAGGGACTGAAATGGTTTTTTTTTTCT-CCATAGTTACT----GTTTACGAACACCCGCCCCT------------------------------GGTGGT-TCTTCT---------
+q echTel1.scaffold_320259 649767898665566767959548796579697697989977899899999899967947678644499966756676645436999486677778799856-65987323555----66545478897664453546------------------------------666659-969979---------
+i echTel1.scaffold_320259 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=33586.000000
+s mm9.chr10 3154834 55 + 129993255 -GCCCGTTC-T----------TCCCCCAA------CTTGATTCCTGA-------------CCA-----------CCCTTGGAGAAGGTTCG----TA---GTTG
+s rn4.chr1 229971774 55 - 267910886 -GCCCGTTC-C----------TCCCCCAA------CTTGATTTCCGA-------------CCA-----------CCCTTGGAGGAGGCGCA----TA---GATG
+q rn4.chr1 -99999999-9----------99999999------999999999999-------------999-----------99999999999999999----99---9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 50203 61 - 169015 -GCTCCCTCAT----------TCCCCCAA------CATGATTTCTGA-------------ATATAT-----GATCATTTGGAGGC-ATATA----TT---GTAA
+q cavPor2.scaffold_284118 -9999999999----------99999999------999999999799-------------999999-----99999994999999-99999----99---9999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 53062 66 - 139458 -ATTCCCTC-A----------TCC-----------CATGATTTTTGAATCATGGGATGGTCTA-----------CCCCTGTAGACCATGGG----TAGCTGTTA
+q oryCun1.scaffold_214769 -99976676-3----------999-----------6399749999678964799974997756-----------69769998999679999----999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16570908 65 - 173908612 -GTCACCCC-C----------GACCCCAG-----TCATGATTTCTGA-------------GTATAT-----GATCTCTTGGAGGACATGGA----TAGCTGTTA
+q panTro2.chr6 -99999999-9----------99999999-----9999099999999-------------999999-----99999999999999999999----999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16048375 65 - 170899992 -GTCACCCC-T----------GACCCCAG-----TCATGATTTCTGA-------------GTATAT-----GATCTCTTGGAGGACATGGA----TAGCTGTTA
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16353951 65 - 174210431 -GTCACCCC-C----------GACCCCAG-----TCATGATTTCTGA-------------GTATAT-----GATCTCTTGGAGGACATGGA----TAGCTGTTA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108456239 65 + 167655696 -GTTACCCC-C----------GACCCCAG-----TCTTGATTTCTGA-------------ATATAT-----GATCTCTTGGAGGACATAGA----TAGCTGTTA
+q rheMac2.chr4 -99999999-9----------99999999-----9999999999999-------------999999-----99999999999999999999----999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 19021 62 - 523245 -GTCACCA-------------GCCCCCAG-----TCATGATTTCTGA-------------ATATAT-----GAGCTCTTGGAGGACATGGA----TAGCTG-TA
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78221966 64 - 125616256 -CCCCTCTC-C-----------TCCCCAC------AACGATTTCTGA-------------GTATGTTTCTGGATC-CCTGGAGGACATCCA----TATCTA---
+q canFam2.chr1 -99999999-9-----------9999999------999999999999-------------999999999999999-999999999999999----999999---
+i canFam2.chr1 I 3 C 0
+s felCat3.scaffold_217398 82075 78 - 219823 -CCCACCCC-CACCCCCTACCTCCCCCGC------AATAATTTCTGA-------------GTATGTGATGG-----TTTGTAGCACATCTCCTATTATCTATTA
+q felCat3.scaffold_217398 -99999999-9999999999998999786------639999967999-------------59969999999-----8999999977696843677796969858
+i felCat3.scaffold_217398 I 3 C 0
+s bosTau3.chr9 13677259 65 - 95030419 -CTCCCTGC-C----------TGCTTCCC------TTTGATTTCTGA-------------GTATG----GGGATCTCTTCGAAGATCTTTA----CAGCTTTTA
+q bosTau3.chr9 -99999999-9----------99999999------999999999999-------------99999----9999999999999999999999----999999999
+i bosTau3.chr9 I 3 C 0
+s dasNov1.scaffold_40472 1178 59 - 17534 GATCACCTC-C----------CCCCCC---------ATGATTTCCGA-------------ACATAT-----GATCCCTTCGTGGACATTTA----TAGTTG---
+q dasNov1.scaffold_40472 999999999-9----------999999---------99999999789-------------966999-----99679997749999999999----999999---
+i dasNov1.scaffold_40472 C 0 I 6090
+s echTel1.scaffold_320259 35017 66 - 41042 AGTCCCCCT-C----------CCTCCCCTGCCCCTTGTGATTTCTGT-------------GTTTAT-----GGTCCCTTTGGGGAGA--GA----GGGCTG---
+q echTel1.scaffold_320259 958888658-6----------97754424375755685112996786-------------889985-----5679986985576787--61----477789---
+i echTel1.scaffold_320259 C 0 I 2
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=91976.000000
+s mm9.chr10 3154889 42 + 129993255 CTTTAAATGC----TAGTTTAATACATTTTACC-TGCTTATTTCTGC----------
+s rn4.chr1 229971829 42 - 267910886 CTTTAAATGC----CAGTTTAATACATTTTATC-TCTTTATTTCAGC----------
+q rn4.chr1 9999999999----9999999999999999999-9999999999999----------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 50264 41 - 169015 TTTTAACTGT----AAATTTAACAT-CTGTATC-GGTACATTTTAGC----------
+q cavPor2.scaffold_284118 9999999999----99999999999-9999999-9999999999999----------
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 53128 41 - 139458 CTTTAACTTC----TAATTTAACAA-CCTTACT-TGTATATTTTAGC----------
+q oryCun1.scaffold_214769 9999999999----99999999979-9999999-9999999999999----------
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16570973 41 - 173908612 TTTTAACTTT----GAATTTAGCAT-CCTCATC-TGTATATTTTAGC----------
+q panTro2.chr6 9999999999----99999999999-9999999-9999999999999----------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16048440 41 - 170899992 TTTTAACTTT----GAATTTAGCAT-CCTCATC-TGTATATTTTAGC----------
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16354016 41 - 174210431 CTTTAACTTT----GAATTTAGCAT-CCTCATC-TGTATATTTTAGC----------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108456304 41 + 167655696 TTTTAACTTT----GAATTTAGCAT-CCTCATC-TGTATATTTTAGC----------
+q rheMac2.chr4 9999999999----99999999999-9999999-9999999999999----------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 19083 41 - 523245 TTTTAACTTT----GAATTTAGCTT-CCTCATC-TGTATATTTTAGC----------
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78222030 37 - 125616256 -TTTAATT-------AATTTAAAAT-GCTTTTC-TGTATATTTTAGT----------
+q canFam2.chr1 -9999999-------9999999999-9999999-9999999999999----------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 82153 39 - 219823 CTTTAACC-------AGTTTAACAT-CCTTCTCTTGTGTGCGTTAGC----------
+q felCat3.scaffold_217398 65877765-------6799669979-644759699959787695969----------
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13677324 38 - 95030419 CTGTAATC-------AATTTCACAT-CGTTCAC-TATATGTTTTAGC----------
+q bosTau3.chr9 99999999-------9999999999-9999999-9999999999999----------
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_320259 35085 55 - 41042 CTTTAAGCGCTACATAGTTTAGGGA-TTTGAAA-TGTTGTTTGCAGCTTGCTTCTGC
+q echTel1.scaffold_320259 9999998553999999999997789-9999999-99969999999899997997999
+i echTel1.scaffold_320259 I 2 I 2925
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=59516.000000
+s mm9.chr10 3154931 31 + 129993255 AACAGAGGATTCTGTGCTGTAAGT--ACctttt
+s rn4.chr1 229971871 31 - 267910886 AACTCAGGATTCTGTGCTGTAAGT--GCTTTTT
+q rn4.chr1 999999999999999999999999--9999999
+i rn4.chr1 C 0 I 1
+s cavPor2.scaffold_284118 50305 31 - 169015 AATTTGAAATTtcgttttatgtct--tcttttt
+q cavPor2.scaffold_284118 999999999999999999999999--9999999
+i cavPor2.scaffold_284118 C 0 I 1
+s oryCun1.scaffold_214769 53169 26 - 139458 AATTGAAG-TTTGGTTTTGTA------CCTTTT
+q oryCun1.scaffold_214769 99999999-999999999999------999999
+i oryCun1.scaffold_214769 C 0 I 1
+s panTro2.chr6 16571014 31 - 173908612 AATTTGAAATTGTGTTTTGTAACT--TTTTTTG
+q panTro2.chr6 999999999999999999999999--9999999
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16048481 24 - 170899992 AATTTGAAATTGTGTTTTGTAACT---------
+i hg18.chr6 C 0 I 35
+s ponAbe2.chr6 16354057 32 - 174210431 GATTTGAAATTCTGTTTTGTAACT-TTTTTTTG
+i ponAbe2.chr6 C 0 I 1
+s rheMac2.chr4 108456345 32 + 167655696 AATTTGAAATTCTGTTTTGTAACT-TTTTTTTG
+q rheMac2.chr4 999999999999999999999999-99999999
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 19124 33 - 523245 AATTTGAAATTCTGTTTTGTAACATTTTTTTTG
+i calJac1.Contig1260 C 0 I 1
+s canFam2.chr1 78222067 29 - 125616256 AACCCGGAGTTCTGTTTTGTAACT----TTTTT
+q canFam2.chr1 999999999999999999999999----99999
+i canFam2.chr1 C 0 I 1
+s felCat3.scaffold_217398 82192 31 - 219823 AACCTGGAATTCTGCTTTATAACT--TCTTTTT
+q felCat3.scaffold_217398 989649493778797897768969--9899994
+i felCat3.scaffold_217398 C 0 I 1
+s bosTau3.chr9 13677362 31 - 95030419 AATTGGAAGTTCTGTAATATCAAT--TCTTTTT
+q bosTau3.chr9 999999999999999999999999--9999999
+i bosTau3.chr9 C 0 I 300
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+
+a score=-4824.000000
+s mm9.chr10 3154962 54 + 129993255 tatctgttagttcatgttcgaactgtgggg-ttt-ttatt-ttttattttttatttt
+s rn4.chr1 229971903 54 - 267910886 TATCTGTTAGTTCATGTTCGAATTCATGTT-GTT-Gtttt-tttttttttttttttt
+q rn4.chr1 999999999999999999999999999999-999-99999-9999999999999999
+i rn4.chr1 I 1 C 0
+s cavPor2.scaffold_284118 50337 54 - 169015 tGCCAGTGGGCTTAT-TTCACACTCTGAGG-ttg-cttttgctttctccttcatctt
+q cavPor2.scaffold_284118 999999999999999-99999999999999-999-9999999999999999999999
+i cavPor2.scaffold_284118 I 1 I 80
+s oryCun1.scaffold_214769 53196 41 - 139458 TT--------------TTCACATCCTGAAG-GTG-TTTTTGTTTCTTCCCTCTCatt
+q oryCun1.scaffold_214769 99--------------99999999999999-999-9999999999999999999999
+i oryCun1.scaffold_214769 I 1 C 0
+s panTro2.chr6 16571046 14 - 173908612 TATCAGTTGTCTTG-------------------------------------------
+q panTro2.chr6 99999999999999-------------------------------------------
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16354090 42 - 174210431 TATCACTCGTCTTGTTTTCACATCCTGAGG-GTG-TTCTTATTT-------------
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108456378 42 + 167655696 TATCAGTGGCCTTGTTTTCACATCCTGAGG-GTG-TTCTTGTTT-------------
+q rheMac2.chr4 999999999999999999999999999999-999-999999999-------------
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 19158 54 - 523245 TATCAGTGGTCTTGTTTTCACATCCTGAGG-GTG-TTCTTATTTCTCCTTTTATCT-
+i calJac1.Contig1260 I 1 I 606
+s canFam2.chr1 78222097 45 - 125616256 CATCAGTGCCT-TGT-TTCCCATCCCAAGATTTGTTTTTTGGTTTCT----------
+q canFam2.chr1 99999999999-999-9999999999999999999999999999999----------
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 82224 55 - 219823 CATCAGTGGCTGTGT-CTCATATCCCAAGGCGTG-TTTTGGGTTTCTCCTTCATTTT
+q felCat3.scaffold_217398 667768997778769-798688699796997967-9995995599599696969999
+i felCat3.scaffold_217398 I 1 C 0
+e bosTau3.chr9 13677393 300 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16048505 35 - 170899992 I
+
+a score=-29454.000000
+s mm9.chr10 3155016 38 + 129993255 ----------------ctatttttttatttttta----tttttatttttt----tttatgtt
+s rn4.chr1 229971957 37 - 267910886 ----------------ttttttttttttttttAA----TTTCTTCTTCAT----CTTAAAG-
+q rn4.chr1 ----------------999999999999999999----999999999999----9999999-
+i rn4.chr1 C 0 I 214
+s oryCun1.scaffold_214769 53237 15 - 139458 -----------------tatttatttattttt------------------------------
+q oryCun1.scaffold_214769 -----------------999999999999999------------------------------
+i oryCun1.scaffold_214769 C 0 I 424
+s panTro2.chr6 16571060 12 - 173908612 --------------------------------------TTTTCATATCCT------------
+q panTro2.chr6 --------------------------------------999999999999------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16354132 18 - 174210431 ----------------CTCTTCTTTTATCTTTTA----------------------------
+i ponAbe2.chr6 C 0 I 71
+s rheMac2.chr4 108456420 38 + 167655696 ----------------CTCCTCTTTCATCTTTTAAAAAGATCCATCCCTAGAAT--------
+q rheMac2.chr4 ----------------99999999999999999999999999999999999999--------
+i rheMac2.chr4 C 0 I 51
+s canFam2.chr1 78222142 25 - 125616256 ---------CCTTCATCTTTTTTTTTTTTTTTTA----------------------------
+q canFam2.chr1 ---------9999999999999999999999999----------------------------
+i canFam2.chr1 C 0 I 407
+s felCat3.scaffold_217398 82279 9 - 219823 TTTTTTTTT-----------------------------------------------------
+q felCat3.scaffold_217398 999999997-----------------------------------------------------
+i felCat3.scaffold_217398 C 0 I 5130
+e bosTau3.chr9 13677393 300 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50391 80 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16048505 35 - 170899992 I
+
+a score=0.000000
+s mm9.chr10 3155054 147 + 129993255 tttggtttttcaagacagggtttctctgtgtagccctggctgtcctggaactcactttgtagactaggctggcctcgaactcagaaatccgcctgtctctgcccaccaagtgctgggattaaaggcatgcgccaccactgccaggct
+e rn4.chr1 229971994 214 - 267910886 I
+e bosTau3.chr9 13677393 300 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e rheMac2.chr4 108456458 51 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78222167 407 - 125616256 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50391 80 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16048505 35 - 170899992 I
+e panTro2.chr6 16571072 0 - 173908612 C
+e ponAbe2.chr6 16354150 71 - 174210431 I
+e oryCun1.scaffold_214769 53252 424 - 139458 I
+
+a score=5398.000000
+s mm9.chr10 3155201 45 + 129993255 gag---gtttttatttttatttttttatttctccttcatctaaaaaag
+s hg18.chr6 16048540 33 - 170899992 ------GTTCTTATTTCTTTTCTTTTATCTTTT---------AAAAAG
+i hg18.chr6 I 35 I 67
+s panTro2.chr6 16571072 39 - 173908612 GAGGGTGTTCTTATTTCTTTTCTTTTATCTTTT---------AAAAAG
+q panTro2.chr6 999999999999999999999999999999999---------999999
+i panTro2.chr6 C 0 I 67
+e rn4.chr1 229971994 214 - 267910886 I
+e bosTau3.chr9 13677393 300 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e rheMac2.chr4 108456458 51 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78222167 407 - 125616256 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50391 80 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e ponAbe2.chr6 16354150 71 - 174210431 I
+e oryCun1.scaffold_214769 53252 424 - 139458 I
+
+a score=6999.000000
+s mm9.chr10 3155246 125 + 129993255 tcttgtaattgtctatcaaGTGTAAGGACCTGGGTTGGGTTCCTAACAacacacacacacacacacacacacacacacacacacacacacacacacacacGAGATGGGTTTGGGATTGAGTAGGA
+s rn4.chr1 229972208 105 - 267910886 TTTTGTAATTGTCTTTCAAGTTGAAGGACCTGGGTTAGGCTCCTAACAAAacacacacacacacacacacacacacacacac--------------------GATGGGTTTGGGATGGAGGGGCA
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------------99999999999999999999999
+i rn4.chr1 I 214 C 0
+e bosTau3.chr9 13677393 300 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13015739 123 + 24938454 I
+e rheMac2.chr4 108456458 51 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78222167 407 - 125616256 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350422 382 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50391 80 - 169015 I
+e otoGar1.scaffold_334.1-359464 303535 12254 - 359464 I
+e hg18.chr6 16048573 67 - 170899992 I
+e panTro2.chr6 16571111 67 - 173908612 I
+e ponAbe2.chr6 16354150 71 - 174210431 I
+e oryCun1.scaffold_214769 53252 424 - 139458 I
+
+a score=238325.000000
+s mm9.chr10 3155371 119 + 129993255 TACATATTGGCA--TTTTAAAA----TTAAC-T-------TGGTAA-----------TATTTGGTTC------TGCCCTGA-AAATTCTGTCTCTGAAAATTATGGTCCTG---TGAATCAAAGAAGAGAGGAACATTTTCGCT---AAGCA--TCATT
+s rn4.chr1 229972313 116 - 267910886 AACATATTGGCA--TTTCAAAA----TTAAC-T-------CGATAAC---AGGCG-GTATTTGTTTC------TGCTGTCA-AAATTCTGTCTCTGAAAACTTTGGTCCCG---AGAATCAAAGAAGAGAGGAACATTT---------------TCATT
+q rn4.chr1 999999999999--99999999----99999-9-------9999999---99999-99999999999------99999999-99999999999999999999999999999---9999999999999999999999999---------------99999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108456509 133 + 167655696 --CATATTTTCATATTTTAAAA----TGAACTT-------TTAACT-----TGAT-ATGTAATGTTCCAGTCATGCTGTAG-AAATCCCGTCTCCTAAAATCATGGTCTAA---TGAATTAAGGAGAAAAGGAATATTTCCTAA---GAGTAACTAATA
+q rheMac2.chr4 --99999999999999999999----9999999-------999999-----9999-9999999999999999999999999-99999999999999999999999999999---999999999999999999999999999999---999999999999
+i rheMac2.chr4 I 51 C 0
+s hg18.chr6 16048640 134 - 170899992 ---GTATTTTCAGATTTTAAGA----TGAAC-T-------TTAACT-----TGAT-ATGTAATGTTCCAGTCATGCTGTAG-AAATTCCATCTCCTAAAGTCATGCTCTCA---TGAATTAAGGAGAAAAGGAACATTTCCTAAGAGTAGTAACTAATA
+i hg18.chr6 I 67 C 0
+s panTro2.chr6 16571178 131 - 173908612 ---GTATTTTCAGATTTTAAGA----TGAAC-T-------TTAACT--------T-ATATTATGTTCCAGTCATGCTGTAG-AAATTCCATCTCCTAAAGTCATGCTCTCA---TGAATTAAGGAGAAAAGGAACATTTACTAAGAGTAGTAACTAATA
+q panTro2.chr6 ---9999999999999999999----99999-9-------999999--------9-9999999999999999999999999-99999999999999999999999999999---999999999999999999999999909999999999999999999
+i panTro2.chr6 I 67 C 0
+s ponAbe2.chr6 16354221 132 - 174210431 --CATATTTTCAGATTTTAAAA----TGAAC-T-------TTAACT-----TGAT-ATGTAATGTTCCAGTCATGCTGTAG-AAATTCCATCTCCTAAAGTCATGATCTCA---TGAATTAAGGAGAAAAGGAACATTTCCTAA---CAGTACCTAATA
+i ponAbe2.chr6 I 71 C 0
+s loxAfr1.scaffold_4233 32356 122 + 124190 -------------ATTTTAAAA----TAAAG-T-------TTAACTTGAAATGGC-GTGTAATGCTTCAGTCCTGTCGTAG-GAATTCCATTTTCTAAAGTCACAGTCTGA---TGAATCAAGGAGAAAAGGAACATTTTCTAA---TAATAACT----
+q loxAfr1.scaffold_4233 -------------999999999----99999-9-------999999999999999-9999999999999999999999999-99999999999999999999999999999---999999999999999999999999999999---99999999----
+i loxAfr1.scaffold_4233 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 350804 101 - 498454 ---------------TTTTAAA----TTAA--T-------TTAAAG-----TACT-ATACAATGTTTTGTCCTTGCTGTGA-AAATTTCATCTTTTAAAATCATGATCTAA---TGAATCAAAAGGAAAAG-AGTATTTT-------------------
+q tupBel1.scaffold_114895.1-498454 ---------------9999999----9999--9-------999999-----9999-9999999999999999999999999-99999999999999999999999999999---99999999999999999-99999999-------------------
+i tupBel1.scaffold_114895.1-498454 I 382 I 5484
+s otoGar1.scaffold_334.1-359464 315789 123 - 359464 --------------TTCCAAAA----TTAAC-T-------TTACCT-----TGAG-ATGTCACGTTCCAGTCTTGCTGTAG-AAATTCCATCTCGTAAAATCATAGTCTCATAGTGAACCAAGGAGAAAAGAAACATTTTCTAA---GAATAACTAATA
+q otoGar1.scaffold_334.1-359464 --------------98973999----98888-9-------989999-----9996-8121111328964999999999996-99988999999999999999999999999999999999899998988999879899999999---999999999999
+i otoGar1.scaffold_334.1-359464 I 12254 C 0
+s cavPor2.scaffold_284118 50471 119 - 169015 ---------------tttaact----ttaac-t-------tGAGAT------GCT-ATGTAAAGTTCCAACTGTGCTCTAAGAAATTCCATCTCCTAAAATCATGGTCTTA---TGAATTAAGGAGAAAGGAAGCATTTTCTAA---GAGTAACTAATA
+q cavPor2.scaffold_284118 ---------------9999999----99999-9-------999999------999-9999999999999999999999999999999999999999999999999999999---999999999999999999999999999999---999999999999
+i cavPor2.scaffold_284118 I 80 C 0
+s oryCun1.scaffold_214769 53676 124 - 139458 --------------TTTTAAAA----TTAAC-TTTAACAATGAGACC---AGGTGTGTGTGATATTCCAGCCCTAGTGTAG-AAATTCCATATTCTAGGATCAGGGCTTCA---TGAATCAAGGAAA----TAACGTTTTTCTA---GGAAC--TAATA
+q oryCun1.scaffold_214769 --------------99996996----67785-797596776775647---4565857777577666877758358667468-89756333565755648574214883521---2232523254363----2611212342222---33322--22222
+i oryCun1.scaffold_214769 I 424 C 0
+s equCab1.chr31 13015862 110 + 24938454 -------------ATTTTAAAA----TTAAG-T-------TGAGAT------AGT-ATGTATTGTTCCAGCTCTGCCATAG-AAATTCTGTCTCGTAAAATCATGGTCTCA---TGAATCAAGGAGAAAAGGAACATTTT-------------CTAAGA
+q equCab1.chr31 -------------099999999----99999-9-------999999------999-9999999999999999999999999-99999999999999999999999999999---99999999999999999999999999-------------999999
+i equCab1.chr31 I 123 I 6
+s bosTau3.chr9 13677693 110 - 95030419 --------------TTTTAAAACTAGTTACC-T-------TGAGAT------AGT-ATGTAATGTTCCAGTTCTGCTATAG-AAATTCCAGCTTCTAAAATCATGTTATAA---CGAATCAAGGAGAAAAGGAACATT----------------TATGA
+q bosTau3.chr9 --------------99999999999999999-9-------999999------999-9999999999999999999999999-99999999999999999999999999999---999999999999999999999999----------------99999
+i bosTau3.chr9 I 300 I 15
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78222167 407 - 125616256 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+
+a score=176520.000000
+s mm9.chr10 3155490 54 + 129993255 ----ACAAAGGA-----GG-GAGCC--ATAGACACA-CCCCTAGGCAGCCTTAGAGACTCAGGGGGA
+s rn4.chr1 229972429 55 - 267910886 ----ACAAAGGA-----AG-GAGAC--AAAGACACACCCCCTAGGCAGCCTTATGGAGTTGGGGCGT
+q rn4.chr1 ----99999999-----99-99999--9999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 53800 54 - 139458 ----ACAAAGGA-----AT-AAAAA--GTGTAAGTG-CCTATAAGCAACCTTGGAAATTGAGGGAGA
+q oryCun1.scaffold_214769 ----33622992-----32-62311--428524469-222483235326222262632252342212
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 50590 51 - 169015 ----ACAAAGga-----gt-aaaaa--aattaatta-ccCATAAACATCCTTATGGA---GAAGTGT
+q cavPor2.scaffold_284118 ----99999999-----99-99999--999999999-99999999999999999999---9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16354353 55 - 174210431 ----ACAAAGAA-----ATAAAAAA--GTACAAATG-TCCGTAAGCAACCTTAGGAATTCAGGAAGA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16571309 55 - 173908612 ----ACAAAGAA-----ATAAAAAA--GTACAAATG-TCCATAAGCAACCTTAGGAATTCAGGAAGA
+q panTro2.chr6 ----99999999-----99999999--999999999-999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16048774 55 - 170899992 ----ACAAAGAA-----ATAAAAAA--GTACAAATG-TCCATAAGCAACCTTAGGAATTCAGGAAGA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108456642 55 + 167655696 ----ACAAAGAA-----ATAAAAAA--GTACAAATG-TCCATAAGCAACCTTAGGAATTCAGGAAGA
+q rheMac2.chr4 ----99999999-----99999999--999999999-999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s otoGar1.scaffold_334.1-359464 315912 54 - 359464 ----ACAGAGAA-----GT-AGAAA--GCATAAATG-CCTGTCAGCAACCTTAGGAATTTAAGGAGA
+q otoGar1.scaffold_334.1-359464 ----89899999-----99-98999--998998999-868999989898889989999999999999
+i otoGar1.scaffold_334.1-359464 C 0 I 49
+s canFam2.chr1 78222574 59 - 125616256 ----ACAAAAGGGAGAAAA-AAAAA--GTATAAATG-CTTATAAACAACCTTAGGAATTCAGGGTGA
+q canFam2.chr1 ----999999999999999-99999--999999999-999999999999999999999999999999
+i canFam2.chr1 I 407 C 0
+s equCab1.chr31 13015978 54 + 24938454 ----ACAAAAAG-----AA-AAAAA--GTACAAATG-CCTTTAAGCAACCTTAGGAATTCAGGGAGA
+q equCab1.chr31 ----99999999-----99-99999--999999999-999999999999999999999999999999
+i equCab1.chr31 I 6 C 0
+s bosTau3.chr9 13677818 55 - 95030419 ----ACAAAAGA----AAA-GAAAA--GTACAAATG-CCTAGAAGCAACCATAGAAATTCAGGGAGA
+q bosTau3.chr9 ----99999999----999-99999--999999999-999999999999999999999999999999
+i bosTau3.chr9 I 15 C 0
+s loxAfr1.scaffold_4233 32478 60 + 124190 AGGAACAAGAGA-----AA-AAAAATGATATAAACA-CATATAAGCAACTTTAGGAATTCAGGGAGA
+q loxAfr1.scaffold_4233 999999999999-----99-9999999999999999-999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+
+a score=-40884.000000
+s mm9.chr10 3155544 20 + 129993255 CATGG--------G-------------------AGTGCTGTAACAGG------
+s rn4.chr1 229972484 28 - 267910886 TGGGG--------GGCAC-----------ATGAAGTGCTGTAGCAGA------
+q rn4.chr1 99999--------99999-----------999999999999999999------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 53854 39 - 139458 AATCT--------AAGCATAATCTGCCTTATTAAAAATAATTGTGAA------
+q oryCun1.scaffold_214769 24649--------4632262342223343342535113245722122------
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 50641 31 - 169015 AAGAA--------AAATCT--------TTATTAAGTGCAGTTGTGGC------
+q cavPor2.scaffold_284118 99999--------999999--------99999999999999999999------
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108456697 36 + 167655696 AATCT--------AAGAAGAATCTGCCTTGTTAAATGGAGCTGT---------
+q rheMac2.chr4 99999--------9999999999999999999999999999999---------
+i rheMac2.chr4 C 0 I 4
+s hg18.chr6 16048829 36 - 170899992 AATCT--------AAGAAGAATCTGCCTTGTTAAATGAAACTGT---------
+i hg18.chr6 C 0 I 4
+s panTro2.chr6 16571364 36 - 173908612 AATCT--------AAGAAGAATCTGCCTTGTTAAATGAAACTGT---------
+q panTro2.chr6 99999--------9999999999999999999999999999999---------
+i panTro2.chr6 C 0 I 4
+s ponAbe2.chr6 16354408 36 - 174210431 AATCT--------AAGAGGAATCTGCCTTGTTAATTGGAACTGT---------
+i ponAbe2.chr6 C 0 I 4
+s canFam2.chr1 78222633 47 - 125616256 AATCTAAGG-ATATAAGATAATCTATTTTATTAAATGCAATTGT---G--GTA
+q canFam2.chr1 999999999-9999999999999999999999999999999999---9--999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13016032 42 + 24938454 ATTCC--------TAGAAAAATCTATCTGGCTAAATGCAATCGT---GGTGTA
+q equCab1.chr31 99999--------9999999999999999999999999999999---999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13677873 48 - 95030419 ACGCAAAGGAACTAAGGAAAAGCTCTCTCATTAAAAGTAGCTGT---G--GTA
+q bosTau3.chr9 99999999999999999999999999999999999999999999---9--999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 32538 9 + 124190 -------------------AATCTGAGT-------------------------
+q loxAfr1.scaffold_4233 -------------------999999999-------------------------
+i loxAfr1.scaffold_4233 C 0 I 636
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e calJac1.Contig1260 19212 606 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e otoGar1.scaffold_334.1-359464 315966 49 - 359464 I
+
+a score=195108.000000
+s mm9.chr10 3155564 73 + 129993255 GGGTTTGT-GGA----AGTGGTAG--GAGGCGGGAAGCAGACCTTCCTAATGATCTGATTGCCACTGGAG-CTCCTTAGA--A
+s rn4.chr1 229972512 59 - 267910886 GGATTTGT-GGA----AATGGTAG--GGGGTGGG-ATCAGACCTTCCTAATGATCTGATGGCCACC----------------A
+q rn4.chr1 99999999-999----99999999--99999999-9999999999999999999999999999999----------------9
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 53893 77 - 139458 AGATTTCCAGGA----AGTGATATATGAGGAAGA-ATCAACGTTTTTTAAAGAATTAATCATCAGTAAAA-TATCTCAGAACG
+q oryCun1.scaffold_214769 567835451224----532232421532222322-21233235327322422623278446322432896-239542228963
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 50672 80 - 169015 AGATTTCC-TGCCATTAGTGATAAGTGAGGTGCA-GCCAATCTTTTAAAATGACTTAATTGTCATCAGGA-GATCTCAAAACA
+q cavPor2.scaffold_284118 99999999-9999999999999999999999999-99999999999999999999999999999999999-999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 19818 76 - 523245 GGCTTCCT-GGG----AGCGGTAAATGATGTGGA-ATCAGTCTGTTATAATGACTCAATTGTCATCAAAA-GATCTCACACCA
+i calJac1.Contig1260 I 606 C 0
+s rheMac2.chr4 108456737 76 + 167655696 GATTTCCT-GGG----AGTGGTAAATGATGTGGA-ATCAATCTGTTATAATGACTTAATTGTCCTCAAAA-GATCTCACACCA
+q rheMac2.chr4 99999999-999----999999999999999999-99999999999999999999999999999999999-999999999999
+i rheMac2.chr4 I 4 C 0
+s hg18.chr6 16048869 76 - 170899992 GACTTCCT-GGG----AGTGGTAAATGATGTGAA-ATCAATCTGTTATAATGACTTAATTGTCATCAAAA-GATCTCACACCA
+i hg18.chr6 I 4 C 0
+s panTro2.chr6 16571404 76 - 173908612 GACTTCCT-GGG----AGTGGTAAATGATGTGAA-ATCAATCTGTTATAATGACTTAATTGTCATCAAAA-GATCTCACACCA
+q panTro2.chr6 99999999-999----999999999999999999-99999999999999999999999999999999999-999999999999
+i panTro2.chr6 I 4 C 0
+s ponAbe2.chr6 16354448 76 - 174210431 GACTTCCT-GGG----AGTGGTAAATGATGTGAA-ATCAATCTGTTATAATGACTTAATTGTCATCAGAA-GATCTCACAGCA
+i ponAbe2.chr6 I 4 C 0
+s otoGar1.scaffold_334.1-359464 316015 57 - 359464 ---------AGA----AATGATAA-----GTGAA-ATGAATCAG---TAATGACTC----GTCATCAAAAGGATCTCAAAACA
+q otoGar1.scaffold_334.1-359464 ---------789----99898899-----98999-989985768---998987658----88888856998987888669887
+i otoGar1.scaffold_334.1-359464 I 49 C 0
+s canFam2.chr1 78222680 70 - 125616256 GATTTCCT-GGA----AGTGATCAGTGAGGTGAA-ATTAGTCTTTTATAAAGGC----TTGTCATCAGAA-GATCTGAAAA--
+q canFam2.chr1 99999999-999----999999999999999999-9999999999999999999----999999999999-9999999999--
+i canFam2.chr1 C 0 I 2
+s equCab1.chr31 13016074 74 + 24938454 GACTTCCT-GGA----AGTGATAAATGAGGTGAA-ATCCATCTTTTGTAATGACTTAATTGTCATCAGAA-TATCTGAAAA--
+q equCab1.chr31 99999999-999----999999999999999999-99999999999999999999999999999999999-9999999999--
+i equCab1.chr31 C 0 I 2
+s bosTau3.chr9 13677921 74 - 95030419 GGCTTCCT-GGA----AGTGGTAAATGCAGTGAA-ATCAATCTTTTGTAATGACATAATTGTCATCAGAA-TATCTGAAAA--
+q bosTau3.chr9 99999999-999----999999999999999999-99999999999999999999999999999999999-9999999999--
+i bosTau3.chr9 C 0 I 4185
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 32547 636 + 124190 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+
+a score=144995.000000
+s mm9.chr10 3155637 54 + 129993255 GGTTTGTGGCTC--TGTAGATAATGATCATTCCTGGTGGAAATTG--TGTAGCTACAA
+s rn4.chr1 229972571 23 - 267910886 GTTTTGTGGCTC-----------------------------------ACTAACCACCA
+q rn4.chr1 999999999999-----------------------------------99999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 53970 46 - 139458 ATTTTGCGGGTTAAGGTAGGCAATTATAATCCTCGGTGGGGACCG--T----------
+q oryCun1.scaffold_214769 644222232365233423333234221224533135238232213--3----------
+i oryCun1.scaffold_214769 C 0 I 2232
+s cavPor2.scaffold_284118 50752 56 - 169015 GTTTTGTGGTTTAAGATAGATAATTATCATCCCTGGTGGAAATCA--TGTAAGTATAA
+q cavPor2.scaffold_284118 999966312124699998999989945933999369239995698--15799755469
+i cavPor2.scaffold_284118 C 0 I 200
+s calJac1.Contig1260 19894 56 - 523245 ATTTTGTGGGTTAAGGTTGGTAATTATCACCTTTGGTGGTAATTA--TGTAACTATAA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108456813 56 + 167655696 ATTTTGTGGGTTAAGGTTGGTAATTATAGTCTTTGGTGGTAATTA--TGTAACTATAA
+q rheMac2.chr4 999999999999999999999999999999999999999999999--99999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16048945 56 - 170899992 ATTTTGTGGGTTAAGGTTGGTAATTATCATCTTTGGTGGTAATTA--TGTAACTATAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16571480 56 - 173908612 ATTTTGTGGGTTAAGGTTGGTAATTATCATCTTTGGTGGTAATTA--TGTAACTATAA
+q panTro2.chr6 999999999999999999999999999999999999999999999--99999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16354524 56 - 174210431 ATTTTGTGGGTTAAGGTTGGTAATTATCATCTTTGGTGGTAATTA--TGTAACTATAA
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 316072 56 - 359464 ATTTTGTGAGTTAAGGTAGGTAGTTATCATCTTTCGTGGTAGCTA--TATAAATACAA
+q otoGar1.scaffold_334.1-359464 889998799899999749899999998989899987998785889--99999999869
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78222752 50 - 125616256 ATTTTGTGGGGTAAGGTAGGTAATTATTATCCTTGGTGATCACGA--TATAT------
+q canFam2.chr1 999999999999999999999999999999999999999999999--99999------
+i canFam2.chr1 I 2 C 0
+s equCab1.chr31 13016150 52 + 24938454 ATTTTGTGTGTCAAGGTCAGCAATTATCACTCTTGGTGATAACTAACTATAA------
+q equCab1.chr31 9999999909999999999999999999999999999999999999999999------
+i equCab1.chr31 I 2 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 32547 636 + 124190 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+
+a score=104230.000000
+s mm9.chr10 3155691 62 + 129993255 TGTTTTAGAAGC-CAATAAGCCTCTCTTAATTTTCTTGTAACAACAGATTACCTTATGTGGGC
+s rn4.chr1 229972594 62 - 267910886 TGCTGTAGAAGC-CAATAAGCCTGTCTTAATTTTCTTATAACAACAGATTACCTTGTTTAGGC
+q rn4.chr1 999999999999-99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 19950 52 - 523245 CATTATGAAAACATTATAAGACTACCTTAGTTTTCTTACAAAAGCAGATTAC-----------
+i calJac1.Contig1260 C 0 I 501
+s rheMac2.chr4 108456869 59 + 167655696 CATTCTAAAAACATTTTAAGACTAC----CTTTTCTTATGAAAACAGATTGCATAGTTTAGAT
+q rheMac2.chr4 9999999999999999999999999----9999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 3
+s hg18.chr6 16049001 63 - 170899992 CATTATAAAAACATTATAAGACTACCTTACTTTTCTTATAAAAGCAGATTGCATAGTTTAGAT
+i hg18.chr6 C 0 I 3
+s panTro2.chr6 16571536 63 - 173908612 CATTATAAAAACATTATAAGACTACCTTACTTTTCTTATAAAAGCAGATTGCATAGTTTAGAT
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 3
+s ponAbe2.chr6 16354580 60 - 174210431 CATTATAAAAACATTATAAGACTACCTTACTTTTCTTATAAA---AGATTGCATAGTTGAGAT
+i ponAbe2.chr6 C 0 I 3
+s otoGar1.scaffold_334.1-359464 316128 58 - 359464 TATTATAATGGCATTATCAAATCAC-----TTTTCTTATAAAAGCAGATGGCACCGTGTAGAT
+q otoGar1.scaffold_334.1-359464 8989969999778899966998566-----899986996899967679699665763939797
+i otoGar1.scaffold_334.1-359464 C 0 I 143
+s canFam2.chr1 78222802 58 - 125616256 TATTATAAAAACATTTTAAGACTAT-----CTTTCTTACAAAAGCAGACTGCATACTGTAGAT
+q canFam2.chr1 9999999999999999999999999-----999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13016202 54 + 24938454 TGTTATAAAAACA---TAAGGCTCT-----TTTTC-TGTAAAAGAAGATTACATACTATAGAT
+q equCab1.chr31 9999999999999---999999999-----99999-999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 32547 636 + 124190 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=39382.000000
+s mm9.chr10 3155753 79 + 129993255 CT---CCATTCTATTTC--------------CT-TACAGACTCCCAGAGTTA----GAGAGTGGCTCAGTGTGG--------------------CAGGGGGCGCTCAGCTAGGCACACCCA
+s rn4.chr1 229972656 61 - 267910886 CT---CCGTCCGATTCC--------------CTGGGCAGACTCCCAGAGCTA----TAAAGTG---------------------------------------GCCTGGCAAGGCACGCCCA
+q rn4.chr1 99---999999999999--------------999999999999999999999----9999999---------------------------------------9999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16354643 69 - 174210431 AT---CGTTGTTATTGCTGGTTTTGTTTGCGCTTTACAGA--TCTAAAGTTACAGTGAAAGTGACATACTGTTG-----------------------------------------------
+i ponAbe2.chr6 I 3 I 21
+s panTro2.chr6 16571602 69 - 173908612 AT---CGTTGTTATTGCTAGTTTTGTTTGCGCTTTACAGA--TCTAAAGTTATAGTGAAAGTGACATACTGTTG-----------------------------------------------
+q panTro2.chr6 99---99999999999999999999999999999999999--99999999999999999999999999999999-----------------------------------------------
+i panTro2.chr6 I 3 I 20
+s hg18.chr6 16049067 69 - 170899992 AT---CGTTGTTATTGCTAGTTTTGTTTGCGCTTTACAGA--TCTAAAGTTATAGTGAGAGTGACATACTGTTG-----------------------------------------------
+i hg18.chr6 I 3 I 20
+s rheMac2.chr4 108456931 89 + 167655696 AT---CGTTGTTATTGCTGGTTTTGTTTGCGCTTTACAGA--TCTAAAGTTGTAGTGAAAGTGACATACTGTTGATAAGATGTTTAGATTAGAG---------------------------
+q rheMac2.chr4 99---99999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999---------------------------
+i rheMac2.chr4 I 3 C 0
+s canFam2.chr1 78222860 86 - 125616256 CTTAGTATTGTAATTGTTGGTTTTGTTTGCTTTTTACAGA--TCCAAAGTTATAATGAAAGTGACATACTGTTGCAATGAGCTGTGAG---------------------------------
+q canFam2.chr1 9999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999---------------------------------
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13016256 81 + 24938454 CT---TATTATAATTATTGGTTTTGTTTGCTTTTTACAGA--TACAAAGTTATAGTGAAAGTGACAT--TGTTGCAGTGAGATATAAG---------------------------------
+q equCab1.chr31 99---99999999999999999999999999999999999--9999999999999999999999999--9999999999999999999---------------------------------
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 32547 636 + 124190 I
+e calJac1.Contig1260 20002 501 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 316186 143 - 359464 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=-2853.000000
+s mm9.chr10 3155832 36 + 129993255 ---------TA------TTCTGCTTGATTAACTTGattatttatttattt---c
+s equCab1.chr31 13016337 29 + 24938454 GAATAGAGTTG------TTTTGTTTTGTTTTTTTT-------------------
+q equCab1.chr31 99999999999------999999999999999999-------------------
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78222946 54 - 125616256 GAATAGAGTTGCGCTTTTTTTGCTTTTTtttgttttaatttgctttggtttggt
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s rheMac2.chr4 108457020 35 + 167655696 -------------------TTGTTTGGTTTGTTTTTTGTTTCATGTAGTTAGCA
+q rheMac2.chr4 -------------------99999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16049156 35 - 170899992 -------------------TTGTTTGGTTTGTTTTTTGTTTCATGTAGTTAACA
+i hg18.chr6 I 20 C 0
+s panTro2.chr6 16571691 35 - 173908612 -------------------TTGTTTGGTTTGTTTTCTGTTTCATGTAGTTAACA
+q panTro2.chr6 -------------------99999999999999999999999999999999999
+i panTro2.chr6 I 20 C 0
+s ponAbe2.chr6 16354733 34 - 174210431 ---------TG------TT-----TGGTTTGTTTTTTGTTTCATGTAGTTAACA
+i ponAbe2.chr6 I 21 C 0
+s rn4.chr1 229972717 27 - 267910886 ---------CA------TTCTACTTGATCAGCTTGATTTTTT------------
+q rn4.chr1 ---------99------9999999999999999999999999------------
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 32547 636 + 124190 I
+e calJac1.Contig1260 20002 501 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 316186 143 - 359464 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=1860.000000
+s mm9.chr10 3155868 21 + 129993255 ttatttttttattGTCCAGTT--
+s rn4.chr1 229972744 18 - 267910886 ---TTTTTTAATTGTCCAGTT--
+q rn4.chr1 ---999999999999999999--
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16354767 19 - 174210431 TTCTTTTTTCTCTTTTAAA----
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16571726 19 - 173908612 TTCTTTTTTCTCTTTAAAA----
+q panTro2.chr6 9999999999999990999----
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16049191 19 - 170899992 TTCTTTTTTCTCTTTTAAA----
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108457055 18 + 167655696 TTC-TTTTTCTCTTTTAAA----
+q rheMac2.chr4 999-999999999999999----
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78223000 19 - 125616256 ttggtttAATTCTCTGCAG----
+q canFam2.chr1 9999999999999999999----
+i canFam2.chr1 C 0 I 24
+s equCab1.chr31 13016366 11 + 24938454 --------GTTCCGTACAG----
+q equCab1.chr31 --------99999999999----
+i equCab1.chr31 C 0 I 24
+s loxAfr1.scaffold_4233 33183 21 + 124190 TTATTTTTCTCTTGTAAAA--GT
+q loxAfr1.scaffold_4233 9999999999999999999--99
+i loxAfr1.scaffold_4233 I 636 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e calJac1.Contig1260 20002 501 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 316186 143 - 359464 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=526682.000000
+s mm9.chr10 3155889 281 + 129993255 GAGACTCGCTTTCACCTCC------AATGTCGACAGTCTTGTCTTTGGTTCTTGAGATGGTTCAGGATGGTCTCAGGCGATCAAT----CAACTCAAGGCCTGCC---AGGT----GAAAACCTTTGG--CTTGCTCG-GCTGCTGCCTAAGGTTAGCCCTGGAAG---TCTCAGAGC----AAGAGTGGGGATTG---TGTACAGGTAGAGCTTGTCAC-----TGTTGCTG----GGGTGGAGGAT-ACATCAGAGGACTGTGGTTAATTACC-TGCTATAGAGGCGTAGTTAAGCTATATT------------CCGGAGAGA-AAATACAT-------T-
+s rn4.chr1 229972762 286 - 267910886 GAGA-TCACTTTCACCTGC------AGTGTCGGGCGTATCG-CTTCGGTTCCTGAGGTGGATGAGGATGGTCTCAGATG----AT----CAGGTCAAGGCCTGCC---AGGTGAAAGAAAACCTTTGG--CCTGCTGGTGAGGCAGCATCAGGTCAACCCTGGATG---TCTCAGGGC----AAGAGCAGAAATTG---TCTAAAGGTGGTGCTTGTCACTGGAATGTATCTG----GAGTGTAGGGT-ACAGCAGAGGACTATGGTTAATTACC-TGCTATAGAGGCGTAGTAAAACTATACT------------CTGGGGAGAGAAATACAT-------T-
+q rn4.chr1 9999-99999999999999------9999999999999999-9999999999999999999999999999999999999----99----9999999999999999---99999999999999999999--999999999999999999999999999999999999---999999999----99999999999999---9999999999999999999999999999999999----99999999999-99999999999999999999999999-9999999999999999999999999999------------999999999999999999-------9-
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108457073 311 + 167655696 AATGATTATTTTCATCTCAAAGCCAAATGATAGTAGTGTTAAC-TTTGTCCTTGAGATGGTCAAGGATGGCATC---TGTTTATT----CAAATTAAGGCCCTCC---TAAT----AAATCTCTTTGG--TAAATATTTGATAGGGAAGAAGGTAAACCCCTAAAG---TCTCTTTGTCCAACAAAGTTGGAATCAGCCTATAAAAACCATGGCTCTGGCTTCAGCGCGTCTGTTTTGGGTGAAGGTG-GGAGCCCATGCCTGTAGTTAATTGCC-TGCAATAGAGA-ATAATTGTTTTACTTCTAGGGATTTTGCCTGGAGAGA-AAATGTATT--------
+q rheMac2.chr4 9999999999999999999999999999999999999999999-999999999999999999999999999999---99999999----9999999999999999---9999----999999999999--999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999-99999999999-9999999999999999999999999999999999999-999999999--------
+i rheMac2.chr4 C 0 I 93
+s hg18.chr6 16049210 311 - 170899992 AATAATTATTTTCATCTCAAAGTCAAGTGATAGTAGTGTTAACATTTGTCCTTGAGATGGTCAAGGATGGCATC---TGTTTGTT----CAAATTAGGGCCCTGG---CAAT----AAAGGTCTTTGG--TAAATATTTGACAGGGAAGAAGGTAAAACCCTAAAG---TCTCTTTGTCCAACAAAGTTGGAATCAGCCTATAAAAACCATGGCTCTGGCTTCAGCGCGTCTGTTTTGGGTAAAGGTG-GGAGCACATGCCTGTAGTTAATTGCC-TGCAATAGAGA-ATAATTGTTTTACTTTTAGGGATTTTGCCTGGAGAGA-AAATGTAT---------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16571745 311 - 173908612 AATAATTATTTTCATCTCAAAGTCAAGTGATAGTAGTGTTAACATTTGTCCTTGAGATGGTCAAGGATGGCATC---TGTTTGTT----CAAATTAGGGCCCTGG---CAAT----AAAGGTCTTTGG--TAAATATTTGACAGGGAAGAAGGTAAAACCCTAAAG---TCTCTTTGTCCAACAAAGTTGGAATCAGCCTATAAAAACCATGGCTCTGGCTTCAGCGCGTCTGTTTTGGGTAAAAGTG-GGAGCACATGCCTGTAGTTAATTGCC-TGCAATAGAGA-ATAATTGTTTTACTTTTAGGGATTTTGCCTGGAGAGA-AAATGTAT---------
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999---99999999----9999999999999999---9999----999999999999--999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999-99999999999-9999999999999999999999999999999999999-99999999---------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16354786 311 - 174210431 AATGATTATTTTCATCTCGAAGTCAAGTGATAGTAGTGTTAACATTTGTCCTTGAGATGGTCAAGGATGGCATC---TGTTTGTT----CAAATTAGGGCCCTGG---CAAT----AAAGGTCTTTGG--TAAATATTCGACAGGGAAGAAGGTAAAACCCTAAAG---TCTCTTTGTCCAACAAAGTTGGAATCAGCGTATAAAAACCATGGCTCTGGCTTCAGCGTGTCTGTTTTGGGTAAAGGTG-GGAGCACCTGCCTGTAGTTAATTGCC-TGCAATAGACA-ATAATTGTTTTACTTTTTGGGATTTTGCCTGGAGAGA-AAATGTAT---------
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 316329 287 - 359464 AAGGATCATTTTCACCTCAAAGTCAAATGATAGGGGGATTCTCTTTTGTTCTTGAAAAGATCACAGATGGTATC---TGTTTATCTGCACAAATTGGGG-CCTGG---CCAT----AAAGGTCGTTGGTATAAACACTTCACAGGGAAGAAGGTAAAAACCTGAAAATCTCTGTCCGTCTAACAAAGTTGGAAACGGCTTTTAAATGTCATGGCTGTCACTGGAATGCGTGTGTTTTAGGTGAAGGTG-----------------GCTGGTTGCC-TGCATGGAGGA-AGGGTTGTC---------AGGATTTTGCCTGGAGAGA-A----------------
+q otoGar1.scaffold_334.1-359464 77674223699552334635533513557539212315163246672735449776649376938983973789---9979979999969699999983-73321---1356----769997998999999999999999999999999999969999999999999999999999999999999999999999999999999999999999999999999999999899999999999999999989-----------------8899989888-99989999999-999879999---------9998899988899999999-8----------------
+i otoGar1.scaffold_334.1-359464 I 143 C 0
+s calJac1.Contig1260 20503 285 - 523245 -------------------------AGTGATAGTAGTGTTAACATTCGTCCTTGAGATGGTCAAGGATGGCATC---TGTTTATT----CAAATTGTGGCCCT-A---CAAT----AAAGATCTTTGG--TTAATATTTGATAGGGAAAAAGGTAAAATCCAGAAG---TC----TGTCCAACGAAGTTGGAATCAGTCTATAAAAACCAAGGCTCTGGCTTCAGTGTGTCTGTTTTGGGTGAAGGTG-GAAG--CATGCCTGTAGGTAATTGCC-TGCAATAGAGA-GTAATTGCTTTACTTTTAGGGATTTTGCCTGGAGAGA-AAATGTGT-TCCTGT--
+i calJac1.Contig1260 I 501 C 0
+s canFam2.chr1 78223043 308 - 125616256 AA-GATCATTTTCATCTTAAGGCCAAATGGTAGGA---TTGACTTTTGCATTTGAGATGGTCAGGGATGGTGTC---CATTTATCTTCTCAAGCTAGGG-CCAGA---CAAT----AATTCTCTTTGG--TAAATACTTGATAGGTAGGAAGGTAAAACTTGTTAG---TCTC----TCTAACAAAGTTGGAATTAACTTTTACAAATCCTGGCGCTCCATGGAATGTGTCTGCTTTGAGTCAAGGTA-GGAGCACATGCCTGCCTTTAATTGCCTTGCAATAGAAGAGCAATTGTTCCACTCTTAAAGATTTTGCCTGGAGAGA-AAATGTAT---------
+q canFam2.chr1 99-99999999999999999999999999999999---999999999999999999999999999999999999---9999999999999999999999-99999---9999----999999999999--999999999999999999999999999999999999---9999----99999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999-99999999---------
+i canFam2.chr1 I 24 C 0
+s equCab1.chr31 13016401 300 + 24938454 AATGGTCATTTTGATCCCAAAACCCAGTGATAGGA---TTAACATGTGTACTTGAGAGGGTCAGGGATGGTGTC---TGTTTATCTACTCAAATTAGGG-CCAGG---CAAT----AAAGGTCTTTGG--TAAACCCTTGATAAGGAGGAAGGTGAAACCTAAAAG---T------------CAAAGTTGGAATCAGCTTTTAAAAATCGTGACCCTCGCTGGAATGTGTCTGCTTTGGGGGAAGGTT-GGAGCGCATGCCTGTTGTTAATTGCC-TGCCGTAGAGTACTATTTGTTTCACTCTTAAGGATTTTGCCTGGAGAGA-AGATGCAT---------
+q equCab1.chr31 99999999999999999999999999999999999---999999999999999999999999999999999999---9999999999999999999999-99999---9999----999999999999--999999999999999999999999999999999999---9------------999999999999999999999999999999999999999999999999990999999999999999-99999999999999999999999999-9999999999999999999999999999999999999999999999999-99999999---------
+i equCab1.chr31 I 24 C 0
+s loxAfr1.scaffold_4233 33204 306 + 124190 ------TATTTTTTCCTCA--CCCACAGGAGAGTA---TTACGATTTGTACTTCGGGTGGCCAGGGATGGTGTC---TGTTTATCTATTCATAATAGGCCCCAGGAGTAGGA----AAAGGTCTTTG---TTAACACTTGTTAGGGAGGAAGGTAAAACCTGAATG---TC-CTCTGTCTAACAGAGCTGGAAGCAGC-TTTGGAAATC-TGGCTGTCAGTGGAATGTGTTTGTTCGGGGTGAAGTTAAAGAACACAGGACTGTAGTTAATCACC-TGCAATAGAGCAATAGTTATTTTTCTCTTAAGAATTTTGCCTGGAGAGA-AAATGTAT--------T
+q loxAfr1.scaffold_4233 ------9999999999773--55623399789999---999999999999999999999999999999999999---99999999999999999999999999999999999----99999999999---999999999999999999999999999999999999---99-99999999999999999999999999-9999999999-99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999-99999999--------9
+i loxAfr1.scaffold_4233 C 0 I 6294
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=-18550.000000
+s mm9.chr10 3156170 27 + 129993255 ACCTAATTCACCC---------CGGTCtctctgtct----
+s rn4.chr1 229973048 12 - 267910886 ACCTAATTCATC----------------------------
+q rn4.chr1 999999999999----------------------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16049521 10 - 170899992 ---TCATGTGTCC---------------------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16572056 10 - 173908612 ---TCATGTATCC---------------------------
+q panTro2.chr6 ---9999999999---------------------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16355097 33 - 174210431 ---TCATGTATCCATTCATTCACAGTCTCTTCCTGT----
+i ponAbe2.chr6 C 0 I 293
+s otoGar1.scaffold_334.1-359464 316616 5 - 359464 --------TTTTC---------------------------
+q otoGar1.scaffold_334.1-359464 --------79998---------------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 20788 27 - 523245 -----ATCTATTC----GTTCATAGTCTCTTCCTGT----
+i calJac1.Contig1260 C 0 I 1539
+s canFam2.chr1 78223351 14 - 125616256 ---TCATGTATCC-----------------------ATTC
+q canFam2.chr1 ---9999999999-----------------------9999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13016701 14 + 24938454 ---TCATGCATCC-----------------------ATTC
+q equCab1.chr31 ---9999999999-----------------------9999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e rheMac2.chr4 108457384 93 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=-7505.000000
+s mm9.chr10 3156197 36 + 129993255 gttcgtctccttccctctgctcagtcttcc------tcctgt------
+s hg18.chr6 16049531 23 - 170899992 ------------ATTCATTCACAGTCT-CT------TCCTGT------
+i hg18.chr6 C 0 I 61
+s panTro2.chr6 16572066 23 - 173908612 ------------ATTCATTCACAGTCT-CT------TCCTGT------
+q panTro2.chr6 ------------999999999999999-99------999999------
+i panTro2.chr6 C 0 I 61
+s otoGar1.scaffold_334.1-359464 316621 27 - 359464 ATTCATGCCTTCATTCTTTCATAGTAT---------------------
+q otoGar1.scaffold_334.1-359464 789879998999899979985898798---------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78223365 27 - 125616256 --------------------TTAGtct-cccttccttcctctctctct
+q canFam2.chr1 --------------------9999999-99999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13016715 9 + 24938454 --------------------ATAGTCT-CC------------------
+q equCab1.chr31 --------------------9999999-99------------------
+i equCab1.chr31 C 0 C 0
+e rn4.chr1 229973060 0 - 267910886 C
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e rheMac2.chr4 108457384 93 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e ponAbe2.chr6 16355130 293 - 174210431 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=789.000000
+s mm9.chr10 3156233 48 + 129993255 ttcttaaccccatcccggtctctctgtctgtccgtctccttccctctg
+s otoGar1.scaffold_334.1-359464 316648 32 - 359464 TT----------------TCTCTCTCTCTCTCTTTCTCCGTTAGTGTG
+q otoGar1.scaffold_334.1-359464 99----------------998989999999999999886869999989
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78223392 43 - 125616256 -----ttctctctctccctctctctatttctctctctctctctctctg
+q canFam2.chr1 -----9999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 68
+s equCab1.chr31 13016724 25 + 24938454 -----TTCTCTCTCAGTGTCTCTCTGTTTG------------------
+q equCab1.chr31 -----9999999999999999999999999------------------
+i equCab1.chr31 C 0 C 0
+e rn4.chr1 229973060 0 - 267910886 C
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e rheMac2.chr4 108457384 93 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e hg18.chr6 16049554 61 - 170899992 I
+e panTro2.chr6 16572089 61 - 173908612 I
+e ponAbe2.chr6 16355130 293 - 174210431 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=-2205.000000
+s mm9.chr10 3156281 34 + 129993255 ctcagtcttcctcctgtttcttacccccatcccg
+s otoGar1.scaffold_334.1-359464 316680 2 - 359464 G--------------------------------G
+q otoGar1.scaffold_334.1-359464 9--------------------------------9
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s equCab1.chr31 13016749 1 + 24938454 ---------------------------------G
+q equCab1.chr31 ---------------------------------9
+i equCab1.chr31 C 0 C 0
+e rn4.chr1 229973060 0 - 267910886 C
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e rheMac2.chr4 108457384 93 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78223435 68 - 125616256 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e hg18.chr6 16049554 61 - 170899992 I
+e panTro2.chr6 16572089 61 - 173908612 I
+e ponAbe2.chr6 16355130 293 - 174210431 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=-1417.000000
+s mm9.chr10 3156315 69 + 129993255 -gtctctctgtctgtctgtctccttccctctgctcagtcttcctcctgtttctTACCCCCACCCCGCCTT
+s rn4.chr1 229973060 67 - 267910886 -GTCTCTCTGCCTGCCTGTCTCCTGCTCTCTTCTCCGTCTTCCTTCTGTTTCTTA--CCCACCCCACCTT
+q rn4.chr1 -999999999999999999999999999999999999999999999999999999--9999999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_334.1-359464 316682 46 - 359464 -ATAAATCAGTGTGTTTGTGTGTGGGCCTTTCCTCA-------TTCTGAACATT----------------
+q otoGar1.scaffold_334.1-359464 -85999885899899999988869965499764653-------59889986799----------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s equCab1.chr31 13016750 38 + 24938454 GTTATGTAAATTTGTGTGTCGGGGCGCCATTCCTCA-------TT-------------------------
+q equCab1.chr31 999999999999999999999999999999999999-------99-------------------------
+i equCab1.chr31 C 0 I 5
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e rheMac2.chr4 108457384 93 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78223435 68 - 125616256 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e hg18.chr6 16049554 61 - 170899992 I
+e panTro2.chr6 16572089 61 - 173908612 I
+e ponAbe2.chr6 16355130 293 - 174210431 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=32423.000000
+s mm9.chr10 3156384 54 + 129993255 CTCTGTGGCTGCTGCAGTATTGCACAGTGGTTATGTGCCGGGTGTGCCAATTTG------------
+s rn4.chr1 229973127 54 - 267910886 CTCTGTGGCAGCTGCAGTATTGCACAATGGTTATGTGCCAGGCTTGCCGGTTTG------------
+q rn4.chr1 999999999999999999999999999999999999999999999999999999------------
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78223503 59 - 125616256 ATTGGCGGCTTTTCcagtatggcatagtggttaaga-ccagggctgat------ggcttaagtttg
+q canFam2.chr1 999999999999999999999999999999999999-99999999999------999999999999
+i canFam2.chr1 I 68 I 29
+s equCab1.chr31 13016793 60 + 24938454 CTTGGTGGCTGCTGCAACACTgcatagtgtttaagagccagggctgac------tgctccagtttg
+q equCab1.chr31 999999999999999999999999999999999999999999999999------999999999999
+i equCab1.chr31 I 5 I 185
+s otoGar1.scaffold_334.1-359464 316728 44 - 359464 ---TGTGGCTGCTGGAGTGTCACATGGTGCT-aagagccagggcttcg------------------
+q otoGar1.scaffold_334.1-359464 ---9989979887989999897789986979-9999877599799774------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s rheMac2.chr4 108457477 44 + 167655696 ---TGTGGCTGCTGCA-GGCGACTCAGTACTGGAGAACCAGGGCTCTT------------------
+q rheMac2.chr4 ---9999999999999-9999999999999999999999999999999------------------
+i rheMac2.chr4 I 93 C 0
+s hg18.chr6 16049615 45 - 170899992 ---TGTGGCTGCTgcagggtgacacagtactggagaaccagggctgtt------------------
+i hg18.chr6 I 61 C 0
+s panTro2.chr6 16572150 45 - 173908612 ---TGTGGCTGCTgcagggtgacacagtactggagaaccagggctgtt------------------
+q panTro2.chr6 ---999999999999999999999999999999999999999999999------------------
+i panTro2.chr6 I 61 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e ponAbe2.chr6 16355130 293 - 174210431 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=5775.000000
+s mm9.chr10 3156438 132 + 129993255 GCATAGTAGCTGCAGACATTCTTGTCCTTACTCA--TTGTCCCCATAT------TCTTGTCCTTACTGTCCCCATCTGTATGTGGCACGCCACTCAGGCCGCA--CAGTGCTT-------------------TAAGTTGGACTCATGGGGTCACTGTGGCT
+s rn4.chr1 229973181 102 - 267910886 GTAGAATAGCTGCAGCCGTTCTTGTCCT----------------------------------TTACTGTCCCCGTCCGTATGTGCCATTCCCCACAGGCCAGG--CAGTGCTT-----------------------ATGCCGTCGCTGAACTTTCATGGTT
+q rn4.chr1 9999999999999999999999999999----------------------------------99999999999999999999999999999999999999999--99999999-----------------------9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16572195 122 - 173908612 ---caggagctgcccaagtttggatcct----------------------------------ttact-cctctcatggt-tgcctgacgttggccaatttatgtacattgtttagtcaactcgctcatctttaaacttggaatcatgctgttactaaactt
+q panTro2.chr6 ---9999999999999999999999999----------------------------------99999-99999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 64
+s hg18.chr6 16049660 122 - 170899992 ---caggagctgcccaagtttggatcct----------------------------------ttact-cctctcatggt-tgcctgacgttggccaatttatgtacattgtttagtcaactagctcatctttaaacttggaatcatgctgttactaaactt
+i hg18.chr6 C 0 I 64
+s rheMac2.chr4 108457521 123 + 167655696 ---CAGGAGCTGCCCAAGTTTGGATCCT----------------------------------TTACTGCCTCTCATGGT-TGCCTGATGTTGGCCAATTTATGTACGTTGTTTAGTCAACTAGCTCATCTTTAAGCTTGGAATCATGCTGTTACTAAACTT
+q rheMac2.chr4 ---9999999999999999999999999----------------------------------99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 64
+s otoGar1.scaffold_334.1-359464 316772 124 - 359464 ---aagggactgtgggactctggcttcc----------------------------------tcactgtccctgacgggatgtgtgatgccggccaagttgtgtacgttgtttagtcagctcgcttatctttcaatttgggatggtgcttttactaaactt
+q otoGar1.scaffold_334.1-359464 ---9989779798998879899968764----------------------------------565799677679969996564899846488769699698463687699397986628699669997999963789999763955949997976697499
+i otoGar1.scaffold_334.1-359464 C 0 I 63
+s canFam2.chr1 78223591 151 - 125616256 ---gctaagttatacacatggttgtcatcaactagcttattttcaaatttggggtcatgctgttactaaacatttgggg-tttgtgttgagggttaagtgaga--ccatgc--aggtgaagcccttaccacaataagtgataaaataaacta--tatggca
+q canFam2.chr1 ---9999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999--999999--999999999999999999999999999999999999999--9999999
+i canFam2.chr1 I 29 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13016853 185 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e ponAbe2.chr6 16355130 293 - 174210431 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=108299.000000
+s mm9.chr10 3156570 114 + 129993255 TGTGCTGAGTGTCGAGTGAGGCA---------------------------------CTCAAAGGGCTTCTTAGTATGCTGCAT----CT----C-----TGTCCTGG-----CAGAGCCAGCTCAC-TCTTTCAACCGGACAGCGTCGGTTTCACAGTGAACAAGG
+s rn4.chr1 229973283 147 - 267910886 TGTGCTGAGAGTTGAGCGAGTGAGCTTTGGTCCCAACATCCATATAGCAAATGCTTCTCACAGGGAGCCTCAGGATGCTGTAC----CT----C-----TGTCCTGG-----CAGAGACAGCTCAC-CTTTTCAACCAGACAGTGTCAGTTTCACAGTGAATGAGG
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999----99----9-----99999999-----99999999999999-999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16049846 117 - 170899992 tattttaagtgcttaataaaGC----------------------------------CT-----AGGTGCTACTTTTGTTGCATAGAACT----CAGGCATATCCTGG------AAAAAAAAATCACATCTTCCAACGGGGTAGTTTCAATCTCAAATCAAACAAGG
+i hg18.chr6 I 64 C 0
+s panTro2.chr6 16572381 116 - 173908612 tattttaagtgcttaataaaGC----------------------------------CT-----AGGTGCTACTTTTGTTGCATAGAACT----CAGGCATATCCTAG-------AAAAAAATTCACATCTTCCAACGGGGTAGTTTCAGTCTCAAATCAAACAAGG
+q panTro2.chr6 9999999999999999999999----------------------------------99-----99999999999999999999999999----99999999999999-------9999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 64 C 0
+s ponAbe2.chr6 16355423 118 - 174210431 tattttaagtgcttaataaaGCA---------------------------------CT-----AGGTGCTACTTTTGTTGCATAGAACT----CAGGCATATCCTGG------AAAAAAAATTCACATCTTCCAACAGGGTAGTTTCAATCTCAAATCAAACAAGG
+i ponAbe2.chr6 I 293 C 0
+s rheMac2.chr4 108457708 118 + 167655696 TATTTGAAGTGCTTCATAAAGCA---------------------------------CT-----GGGTGCTACTTTTGTTGCTTAGAACT----CAGGCATATCCTGG------AAAAAAAATTCACGTCTTCCAACAGGGTAGTTTCAATCTCAAATCAAACAAGG
+q rheMac2.chr4 99999999999999999999999---------------------------------99-----99999999999999999999999999----99999999999999------99999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 64 C 0
+s otoGar1.scaffold_334.1-359464 316959 123 - 359464 tattttaagtgcttcataaaaca---------------------------------ct-----agctgctatttttgtTGTACAGACCA----CAGGAATATCCTGGGGGGGGGGGGATAATTCACATC-TCCAACAGGATAGTTTCAGATTCAAATCAGGCAAGG
+q otoGar1.scaffold_334.1-359464 99999999999999999999999---------------------------------99-----99999999999999999999999999----999999999999999999989998634987535766-569675974327748675774763776777967777
+i otoGar1.scaffold_334.1-359464 I 63 C 0
+s equCab1.chr31 13017038 110 + 24938454 TATAGTAAGCACCTGATGAAACC---------------------------------C------AGCTGTTG-TTTTGTTGTGTAGACTA----CAGGGATATCCTGG-----AGAAAAAATTTCACATT-TCCAACAAAATAGTTTCAA------ATTAAACAAAG
+q equCab1.chr31 99999999999999999999999---------------------------------9------99999999-99999999999999999----99999999999999-----99999999999999999-9999999999999999999------99999999999
+i equCab1.chr31 I 185 C 0
+s canFam2.chr1 78223742 113 - 125616256 cagagtaagcgcttagtaaaACT---------------------------------CA-----AGCTGTTG-TTTTGTTGCATAGGCTACTTTCAGGGGTATTCTG-------GGCCAGATCTCACATT-TCCACCAGAATAGTTGCAG------ATTAAACACAG
+q canFam2.chr1 99999999999999999999999---------------------------------99-----99999999-9999999999999999999999999999999999-------9999999999999999-9999999999999999999------99999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13677995 4185 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=50843.000000
+s mm9.chr10 3156684 25 + 129993255 ATACCCTACCCTTCATG----------------GATAGTAA
+s rn4.chr1 229973430 25 - 267910886 ATACCCTACACTTCGTG----------------GATAGTAA
+q rn4.chr1 99999999999999999----------------99999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16049963 25 - 170899992 ATACTCTGCCTTTTATA----------------AATAGTAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16572497 25 - 173908612 ATACTCTGCCTTTTATA----------------AATAGTAA
+q panTro2.chr6 99999999999999999----------------99999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16355541 25 - 174210431 ATACTCTGCCTTTTATA----------------AATAGTAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108457826 18 + 167655696 ATAAATTG-------TA----------------AATAGTAA
+q rheMac2.chr4 99999999-------99----------------99999999
+i rheMac2.chr4 C 0 C 0
+s otoGar1.scaffold_334.1-359464 317082 25 - 359464 ATATTCTACCTCTTACA----------------AACAGTAA
+q otoGar1.scaffold_334.1-359464 65776645565756643----------------99677357
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78223855 25 - 125616256 ACACCCTGCCCTTTACA----------------AATGGTGA
+q canFam2.chr1 99999999999999999----------------99999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13017148 41 + 24938454 ATACCCTGCCTTCTACAACAGCCCAGTGGGAAGAATGGTAA
+q equCab1.chr31 99999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 167
+s bosTau3.chr9 13682180 25 - 95030419 ATACTCTGCTTTTGACA----------------AATGGTAA
+q bosTau3.chr9 99999999999999999----------------99999999
+i bosTau3.chr9 I 4185 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=64886.000000
+s mm9.chr10 3156709 71 + 129993255 GTCA--TATCTCAGAGA---------------GCAATGGGAGAGAGA-ATATCAGGTCATATTGACTTCCTGCTGTGTGCTGAGC----------CACT
+s rn4.chr1 229973455 71 - 267910886 GTTA--CATCTCAGAGA---------------GCTGTGGGAGAGAGA-ATACTGGGTCGTACTGACTTGGTGCTGTGTGCCCAGC----------CACT
+q rn4.chr1 9999--99999999999---------------999999999999999-9999999999999999999999999999999999999----------9999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16049988 67 - 170899992 ACTGCCCATTGGTGAGA---------------GGAATGGTAAAGAGA-AAACTGGATCCCACATCCTTTATGCAGTGTGTTAA----------------
+i hg18.chr6 C 0 I 828
+s panTro2.chr6 16572522 67 - 173908612 ACTGCCCATTGGTGAGA---------------GGAATGGTAAAGAGA-AAACTGGATCCCACATCCTTTATGCAGTGTGTTAA----------------
+q panTro2.chr6 99999999999999999---------------999999999999999-99999999999999999999999999999999999----------------
+i panTro2.chr6 C 0 I 808
+s ponAbe2.chr6 16355566 67 - 174210431 ACTGCCCATTCGTGAGA---------------GGAATGGTAAAGAGA-AAACTGGATCCCACATCCTTTATGCAGTGTGTTAA----------------
+i ponAbe2.chr6 C 0 I 797
+s rheMac2.chr4 108457844 67 + 167655696 ATTGCCCATCGGTGAGA---------------GGAATGGTAAAGAGA-AAACTGGATCCCACATCCTTTATGCAGTGTGTTAA----------------
+q rheMac2.chr4 99999999999999999---------------999999999999999-99999999999999999999999999999999999----------------
+i rheMac2.chr4 C 0 I 822
+s otoGar1.scaffold_334.1-359464 317107 65 - 359464 ATTACACGTCCGTGAGA---------------GAAATGGTAAAGGGA-AGG-TGGATCCCATGTCCTTTGTGGAGTGTGTTG-----------------
+q otoGar1.scaffold_334.1-359464 87775544557667635---------------378858657876678-755-398568977999999999599995736599-----------------
+i otoGar1.scaffold_334.1-359464 C 0 I 368
+s canFam2.chr1 78223880 53 - 125616256 ATTACAACTCAGTGAGA---------------AGGAAGGCAAAAAGA-AGATTGGATCACATTTTCTTT------------------------------
+q canFam2.chr1 99999999999999999---------------999999999999999-999999999999999999999------------------------------
+i canFam2.chr1 C 0 I 258
+s equCab1.chr31 13017356 96 + 24938454 atgttagctcagtaacaatcttcctcaccaagaaaaaaaaaaaaagc-agATTGGATCACGTATCTTTTGGGGCGTATGTTGA--TATAAAACAGCACT
+q equCab1.chr31 99999999999999999999999999999999999999999999999-99999999999999999999999999999999999--99999999999999
+i equCab1.chr31 I 167 I 3
+s bosTau3.chr9 13682205 82 - 95030419 ATTGCAACTCAGTGAGG---------------AGAATGGTGAAGAGAGAAACTGGCCCACACACCCCTTGGGGAGCGTGTTGA--TATCAGGTGGCACT
+q bosTau3.chr9 99999999999999999---------------999999999999999999999999999999999999999999999999999--99999999999999
+i bosTau3.chr9 C 0 I 3
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e tupBel1.scaffold_114895.1-498454 350905 5484 - 498454 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=39285.000000
+s mm9.chr10 3156780 44 + 129993255 GAGAAGGGAGGCCAAGCCTACCTCTT--AGCATCCTCAAGGAG--AAG
+s rn4.chr1 229973526 43 - 267910886 GAGAAGAGAAGCCAAGTCTACCTCTT--GGCTTCCTCAAGGTG--GA-
+q rn4.chr1 99999999999999999999999999--999999999999999--99-
+i rn4.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 356389 44 - 498454 GAGAAGAGAAGCCAGTTATACCTCTT-AAACTTCCTGATGTGGAG---
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999-999999999999979999---
+i tupBel1.scaffold_114895.1-498454 I 5484 C 0
+s ponAbe2.chr6 16356430 43 - 174210431 GAAAAGAGAAGACAGTTGTACCTTTTTAAATGTCATGCTGTGG-----
+i ponAbe2.chr6 I 797 I 1
+s panTro2.chr6 16573397 43 - 173908612 GAAAAGAGAAGACAGTTGTACCTTTTTAAGTGTCATGCTGTGG-----
+q panTro2.chr6 9999999999999999999999999999999999999999999-----
+i panTro2.chr6 I 808 I 1
+s hg18.chr6 16050883 43 - 170899992 GAAAAGAGAAGACAGTTGTACCTTTTTAAATGTCATGCTGTCG-----
+i hg18.chr6 I 828 I 1
+s rheMac2.chr4 108458733 38 + 167655696 -----GAGAGGACAGTTATACCTTTTAAAATGTCGTGCTGTGG-----
+q rheMac2.chr4 -----99999999999999999999999999999999999999-----
+i rheMac2.chr4 I 822 I 1
+s canFam2.chr1 78224191 39 - 125616256 AAGAGGAGATGCCAGTTACACCTCTT-GAACTTTAAGACG--------
+q canFam2.chr1 99999999999999999999999999-9999999999999--------
+i canFam2.chr1 I 258 C 0
+s equCab1.chr31 13017455 39 + 24938454 AAGAGGAATTGCCAATTATACCTCTT-AAACTACAAGATG--------
+q equCab1.chr31 99999999999999999999999999-9999999999999--------
+i equCab1.chr31 I 3 C 0
+s bosTau3.chr9 13682290 39 - 95030419 AATGGGAGATGCCAGTTCTGCCTCTG-AAACTTTAAGATA--------
+q bosTau3.chr9 99999999999999999999999999-9999999999999--------
+i bosTau3.chr9 I 3 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 20815 1539 - 523245 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317172 368 - 359464 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=183446.000000
+s mm9.chr10 3156824 112 + 129993255 GGGGGAACGGTCAGTGACTTCTTAAATGCCTTCTCTCAGTTCTTCCATGAA---TGTCC-----TGAGACTTGACGGCTGCCTCTCTTGGTGGGCAAC--GCACTGAACGCCCTCAACAGCA
+s bosTau3.chr9 13682329 100 - 95030419 -----------GGGCGATTTA-TGAATCTTTCTCCCTAGTTATTCCACCAA---CGT-TTGTTGGGAGGCTTAAGAGCTTCCAATAGCAATCTGTAGGATATGGTCA-----CA-AAAGTCA
+q bosTau3.chr9 -----------9999999999-99999999999999999999999999999---999-9999999999999999999999999999999999999999999999999-----99-9999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13017494 104 + 24938454 ----------TGGATGATTTCTTAAATTTCTCACCCTAGTTATTCCACTAA---CATAGTGTTCTGAGACTTGACAGCTACTAAGGGTCATCTGCGGAATACGATCA-----TTAAAAGTCA
+q equCab1.chr31 ----------99999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999-----9999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78224230 103 - 125616256 ----------TGGGTAATTTCTTAAATCCCTCCCCCTGATTATTCCTGTAA---CCGATTGTTCTGAGACTTGACAGCTGCTAACAGTGGTCTGTAGAGTACAGTTA-----TT-AAAGTCA
+q canFam2.chr1 ----------99999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999-----99-9999999
+i canFam2.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 356433 112 - 498454 -GGGTAGTGGTAAATGATTTCTTCACTGTCTTTCCTTGGTTATTC-ACTAA---CGTAGTGTTCTGAGACTTGACAGCTGCTCACTGTGGTATGTAGCGTGCAGTCC-----TTAAACAACA
+q tupBel1.scaffold_114895.1-498454 -99999999999999999999999999799999999799997789-99999---99897875999999999999999999999999989999999998996996799-----9899599699
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 317540 97 - 359464 ----------------ATTTCTGAAATTTCTTTCTTCAGTTATTCCACTTG---TGTAGTGTCCTGAGACTTGA-AGCTTCTGGTTATGGCATGTGGATGACAGTCA-----TTAAAAGGCA
+q otoGar1.scaffold_334.1-359464 ----------------99999999997999999999979999899999999---89999895999999759997-99798999949989879996996598699797-----6979997959
+i otoGar1.scaffold_334.1-359464 I 368 C 0
+s ponAbe2.chr6 16356474 107 - 174210431 GGGGTGATGGTAAATGAGTTCTTAAATGTCTTTCCTCAGTTCTTCTACTAG---CATAA-----AGAGACCTGAGGGCTGGTGATACTGACGTGTGGA--GTAGGCA-----TTACATGGCC
+i ponAbe2.chr6 I 1 C 0
+s panTro2.chr6 16573441 107 - 173908612 GGGGTGATGGTAAGTGAGTTCTTAAATGTCTTTCCTCAGTTCTTCTACTAG---CATAA-----AGACACCTGAGGGCTGGCGATATTGACGTGTAGA--GTAGGCA-----TTACACGGCC
+q panTro2.chr6 999999999999999999999999999999999999999999999999999---99999-----9999999999999999999999999999999999--9999999-----9999999999
+i panTro2.chr6 I 1 C 0
+s hg18.chr6 16050927 107 - 170899992 GGGGTGATGGTAAGTGAGTTCTTAAATGTCTTTCCTCAGTTCTTCCACTAG---CATAA-----AGAGACCTGAGGGCTGGCGATATTGACGTGTAGA--GTAGGCA-----TTACACGGCC
+i hg18.chr6 I 1 C 0
+s rheMac2.chr4 108458772 107 + 167655696 GGGGTGATGGTAAATGAGTTCTTAAATGTCTTTCCTCAGTTCTTCCACTAG---CATAA-----AGAGACCTGAGGGCTGGTGATATTGACATGTAGA--GTAGGCA-----TTACGTGGCA
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999---99999-----9999999999999999999999999999999999--9999999-----9999999999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 22354 106 - 523245 GGGGTGATGGTAAATGATTTCTTAAATGTCTTTCCTAGGTTCTTCCGCTAG---CATAA-----GGAGACCTGA-GGCTGGTGATAGCAACGTGTACA--GTAGGCA-----TTATATGGCA
+i calJac1.Contig1260 I 1539 C 0
+s rn4.chr1 229973569 111 - 267910886 GGGGAAACAGTGAGTGACTTCTTAAATGCCTCCCCTCAGTTCTCCCACGAACAGTGTCT-----TGAGACTTGACGGTTGCCTCTCCTGGTGGGTAAC--TCGCACAA----TCCAACAGCA
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999--99999999----9999999999
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e echTel1.scaffold_320259 35140 2925 - 41042 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=47354.000000
+s mm9.chr10 3156936 23 + 129993255 GAGGGGAGGTAGGCACTTCAGGT
+s rn4.chr1 229973680 23 - 267910886 GAGGGGAGGAGTCCACTTCAGGC
+q rn4.chr1 99999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 22460 21 - 523245 GAGGGGAGGCAGCCA--AAAGGC
+i calJac1.Contig1260 C 0 I 2
+s rheMac2.chr4 108458879 22 + 167655696 GAGGGGAGGCATCCA-CAAAGGC
+q rheMac2.chr4 999999999999999-9999999
+i rheMac2.chr4 C 0 I 2
+s hg18.chr6 16051034 22 - 170899992 GAGGGGAAGCATCCA-CAAAGGC
+i hg18.chr6 C 0 I 2
+s panTro2.chr6 16573548 22 - 173908612 GGGGGGAAGCATCCA-CAAAGGC
+q panTro2.chr6 999999999999999-9999999
+i panTro2.chr6 C 0 I 2
+s ponAbe2.chr6 16356581 22 - 174210431 GAGGGGAGGCATCCA-CAAAGGC
+i ponAbe2.chr6 C 0 I 2
+s otoGar1.scaffold_334.1-359464 317637 22 - 359464 GAGGGGAGGCGGCCA-CTGAGGC
+q otoGar1.scaffold_334.1-359464 972999767595699-9999642
+i otoGar1.scaffold_334.1-359464 C 0 I 2
+s tupBel1.scaffold_114895.1-498454 356545 23 - 498454 GAGGAATGGCTGCCACCAAATGC
+q tupBel1.scaffold_114895.1-498454 99999989869649779999878
+i tupBel1.scaffold_114895.1-498454 C 0 I 2
+s canFam2.chr1 78224333 23 - 125616256 GAGGGAAGGCTGTCACCAGAGGA
+q canFam2.chr1 99999999999999999999999
+i canFam2.chr1 C 0 I 2
+s equCab1.chr31 13017598 23 + 24938454 GGGAGAACGCTGTCGCCAAAGGG
+q equCab1.chr31 99999999999999999999999
+i equCab1.chr31 C 0 I 2
+s bosTau3.chr9 13682429 23 - 95030419 GAAGAAAGGCTGTCACCGGCGAC
+q bosTau3.chr9 99999999999999999999999
+i bosTau3.chr9 C 0 I 2
+s echTel1.scaffold_320259 38065 23 - 41042 GAAGACAGACAGGTCCTTCCGGT
+q echTel1.scaffold_320259 99999999999999999999999
+i echTel1.scaffold_320259 I 2925 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e oryCun1.scaffold_214769 54016 2232 - 139458 I
+
+a score=888167.000000
+s mm9.chr10 3156959 244 + 129993255 GCCCTGCAAGGCCATATTTTCTGGCTTTATCTGAGT--CAGTACCCAAGACTCAC-CCACTTCCTGCTTCACCAAGGCTCTTGATAACCGGTGCTTGTGACAGCAGCATTTGGGTGCGTCCATTGTGTGACAGTGGCATTTGGGTGTGTCTATTGTGTAGTATGCACAACGCTGAGTAATGGCC------------CTGAAAGAG-CAACCTCACATGGAAGATGTTCACCCTCGACAAA-CTCAAGTAAGGAAGCCAGCC
+s rn4.chr1 229973703 234 - 267910886 GC----CGAGGCCGTA-TTTCTGGTTTTATCAGAGT--TCGTACCCAAGACT-----CACTTCCTTCTTCACGGAGGCTCTTGATAACTGGTGGGTGTGATGGCAGCATTAGGGTGTGTCCATTGTGTGACAGTGGCCTTTGGGTGTGTCCACTGTGCAGTGTGCACATCGCTGAGTAATCGCC------------CTGGCAGAG-CAACCCCACGT-GAAGATGTTCACCCTCGCCAGG-CTCAGGTAAGGAAGCCAGCC
+q rn4.chr1 99----9999999999-9999999999999999999--99999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------999999999-99999999999-9999999999999999999999-99999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 56248 216 - 139458 GCCCTTTGAGGCCATG-TTTCACATTTGATCATACTTGTCGTGCCCATGACTTACTCCCTTTCCTGCTTTGCTGTAGCATTTGGTAACTGGTGG------------------------------GTGTGACAGTCATATATAGGTGTGTCCATGGTGTAGTGTGTACAGCGCTGAGTCATCAGC------------CTGGCAGAA-CAGCTGCACATGGAAGGCACTCCGTCTCGCCAAG-CCCATTTAAGAAAACCAGCC
+q oryCun1.scaffold_214769 9999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999------------------------------999999999999999999999999999999999999999999999999999999999999------------989999999-9999999999999999999999999999999999-99999999999999999999
+i oryCun1.scaffold_214769 I 2232 C 0
+s calJac1.Contig1260 22483 211 - 523245 GCCCTTGAAGGCCAAA-TCTCTTGTTTTATCACAGT--TAATGCCCAAGACTTAATACATTTCCTGCTTTACTGAGGCTTTTGATAACTGGTGG------------------------------GTGTGACAGTAATACATGGGTGTGTCCACGATGTAGTATGTATGCCGCTGAGTTATTGTC------------CTGGCAGAG-CAGCTCCAGATGGAAGGTGTCTTGTCGTGCCAAC-CCCAATTAAGGA---CAGCC
+i calJac1.Contig1260 I 2 I 18
+s rheMac2.chr4 108458903 214 + 167655696 GCCCTTGAAGTCCATA-TCTATTGTTTTATCACAGT--TAATGCCCAACACTTACTACATTTCCTGCTTTACTGCTGCTTTTGATAACTGGTGG------------------------------GTGTGACAGTAATACATGGGTGTGTCCACGATGTAGTGTGTATGCCACTGAGTTATTGTC------------CTGGCAAAA-CAACCCCAGATGGAAGGTGTCCCGTCATGCCAAG-CCCAATTAAGGAAACCAGCC
+q rheMac2.chr4 9999999999999999-9999999999999999999--99999999999999999999999999999999999999999999999999999999------------------------------999999999999999999999999999999999999999999999999999999999999------------999999999-9999999999999999999999999999999999-99999999999999999999
+i rheMac2.chr4 I 2 I 18
+s hg18.chr6 16051058 214 - 170899992 ACCCTTGAAGGCCATA-TCTCTTGTTTTACCATAGT--TAATACCCAACACTTACTACATTTCCTGCTTTACTGCTGCTTTTGATAACTGGTGG------------------------------GTGTGGCAGTAATACATGGGTGTGTCCACGATGTAGTGGGTATGCCAGTGAGTTATTGTC------------CTGGCAGAA-CAGCCCCAGATGGAAGGTGTCCCGTCGCGCCAAG-CCCAATTAAGGAAACCAGCC
+i hg18.chr6 I 2 I 18
+s panTro2.chr6 16573572 210 - 173908612 ACCCTTGAAGGCCATA-TCTCTTGTTTTATCACAGT--TAATGCCCAACACTTACTACATTTCCTGCTTTACTGCTGCTTTTGATAACTGGTGG------------------------------GTGTGGCAGTAATACATGGGTGTGTCCACGATGTAGTGGGTATGCCAGTGAGTTATTGTC------------CTGGCAGAA-CAGCCCCA----GAAGGTGTCCCGTCGCGCCAAG-CCCAATTAAGGAAACCAGCC
+q panTro2.chr6 9999999999999999-9999999999999999999--99999999999999999999999999999999999999999999999999999999------------------------------999999999999999999999999999999999999999999999999999999999999------------999999999-99999999----9999999999999999999999-99999999999999999999
+i panTro2.chr6 I 2 I 18
+s ponAbe2.chr6 16356605 214 - 174210431 ACTCTTCAAGGCCATA-TCTCTTGTTTTATCACAGT--TAATGCCCAACACTTACTACATTTCCTGCTTTACTGCTGCTTTTGATAACTGGTGG------------------------------GTGTGGCAGTAATACATGGGTGTGTCTACTATGTAGTGTGTATGCCAGTGAGTTATTGTC------------CTGGCAGAA-CAGCCCCAGATGGAAGGTGTCCTGTCGCGCCAAG-CCCAATTAAGGAAACCAGCC
+i ponAbe2.chr6 I 2 I 18
+s otoGar1.scaffold_334.1-359464 317661 201 - 359464 ACTC-------------TCTCTCTTTTTATCACATT--TAATGCCTGAGACTTGTGACATTTCCCGATTCACTGTGGCTTCTGATAACTGGTAG------------------------------GTGTGTCAGTAATACATGGGCATGTC-ATCGTGTAGCGTGTGCACCAGTGAGTCATCGTC------------TTAGCAGGA-CAGCTCTGCAGGGAAGGTGCTATGTCTTGCCAAA-CCCAATTAAGGAAACCAGCC
+q otoGar1.scaffold_334.1-359464 9899-------------8998896999686656649--65656365854735763554538538755355355756655565552565556283------------------------------64434465547735445586536735-545435365554532114544355456455535------------535354544-5565455344573122622335554434515475-36523342434355344445
+i otoGar1.scaffold_334.1-359464 I 2 I 2163
+s tupBel1.scaffold_114895.1-498454 356570 210 - 498454 GCT-TTCAAGGCCAGA-TTTCTTGTCTTAACACAGC--TAATGTCAAAGTCTTACTACATTTCCTGC-TCACTGAGACTCTTGATAACTGGCGA------------------------------GTGTGACAGTACTCTATAGGCGTGCCC-TGGTGGAGTATGCACACCACTGAGTAATCATC------------CTGGCAGAA-CAGCTCCACATGGACGGTACTCTGTCTCGCCAAG-CACAATTAACGA-ACCGGCC
+q tupBel1.scaffold_114895.1-498454 889-999999689998-9999999999988999999--99999999999999999989999999999-99999999999999999999999999------------------------------999999999999999999999999999-99999999999999999999999999899999------------999989999-9999999999999999999999999999899999-999999999999-9999999
+i tupBel1.scaffold_114895.1-498454 I 2 I 19
+s canFam2.chr1 78224358 223 - 125616256 GCCCTTTAAGTTTATA-TTTCTTCTGGTATTACAAT--TAATGTTCACAAGTTACTACCTTTCCTGCTTTTATG-GGCTCTTGATAACCGGTGG------------------------------G-GTGACAGCAATTCTAGGGTGTGTCCTCGGCATAGTATATATTCCACTGAGTAATAGTCTTCTGTCATCACCTGGCCCCA-CAGCCCCA-GTGGAAGGTGCTCCGTCTCTCCAAG-CCCAATTAAGAAAACCAGCC
+q canFam2.chr1 9999999999999999-9999999999999999999--999999999999999999999999999999999999-9999999999999999999------------------------------9-9999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999-9999999999999999999999999-99999999999999999999
+i canFam2.chr1 I 2 I 19
+s equCab1.chr31 13017623 223 + 24938454 GCCCTTGAAGTTTATG-TTGCTT---GTATCACAAT--TAATGTCCCCGACTTGTTACATTTCCTGCTTTACTGTGGCTTTTGATAACTGGTGG------------------------------GTGTGACAGTAATCCTTGGGTGTGGCCACGGTGTAGTATGTATTCCACTGAGTAATCGTCTTCTGTCATCATCTGGCTGGG-CAGCCCCACATGGCAGGCACTCCGTCTCGCCAAG-CCCAATTAAGGAAACCGGTT
+q equCab1.chr31 9999999999999999-999999---9999999999--99999999999999999999999999999999999999999999999999999999------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999-99999999999999999999
+i equCab1.chr31 I 2 I 18
+s bosTau3.chr9 13682454 228 - 95030419 GCCCTTTCAGTTCGTA-TTTTCTGTTTTATCACGAT--TGAAGTCCACGACTTACTCCACTGCCTGCTCTGCTGTGGCATTTGATAACCGGTGG------------------------------GTGTGACAGTAATCCCTGGGTGTGTCCCTGCCGTAGTGTGTATTCCACTGACTAATCGTCTTCTGTCATCAACTACCTCCATTAGCCGCACATGGAAGGTGCTCCGTCTCGCCAAGCCCCAATTAAGGAAACCGGCC
+q bosTau3.chr9 9999999999999999-9999999999999999999--99999999999999999999999999999999999999999999999999999999------------------------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 2 I 19
+s echTel1.scaffold_320259 38088 214 - 41042 -----------TCATA-TTTCATGTTATATCAAAAC--CAGTGTCCAAGACCTGTCACCTGTCTGGCTTGGCTGTGGCTTTTGATAACTGGTGG------------------------------GTGTGACCGTAATCCACGGGTGTGTCCCTGGTGTGGTGTGGGCACCGCTGACTCATAGTC-CTTGTCATCACCTGGCCCAG-CAGCTCCACATGGAAGGGACACCATTCAGCCAAG-CCCATCCGAGGGAATCAGCC
+q echTel1.scaffold_320259 -----------99999-9999999999999999999--99999999999999999999999999999999999999999999999999999999------------------------------999999999999999999999999999999999999999999999999999999999999-99999999999999999999-9999999999999999999999999999999999-99999999999999999999
+i echTel1.scaffold_320259 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+
+a score=287698.000000
+s mm9.chr10 3157203 110 + 129993255 ------------------AAC-------------------AAGTCATTTCGTAAGAGCA----GCGCCTATAAGCCCTG-TGGGAATGGCTGCCAGCA-----------------------GAGAATGCCAGTGGCCACTGCACCTCAATTACCAGAGTCACATC-CCTCCCTTCC
+s rn4.chr1 229973937 100 - 267910886 ------------------AAG-------------------AAGTCATTTTGTAAGAGCA----GCGCCTATAAGCCCTG-TGGGAATGGCTGTCAGGG-----------------------GAGAATGGTGGTGGTCACTGCACCTCAGTTACCAGAGTCACATC-----------
+q rn4.chr1 ------------------999-------------------9999999999999999999----9999999999999999-999999999999999999-----------------------99999999999999999999999999999999999999999999-----------
+i rn4.chr1 C 0 I 486
+s oryCun1.scaffold_214769 56464 131 - 139458 ------------------CAGTGTCTTCTTGGGAGCCACAAAGTTATTGCCCCAGATCT----GTTCCTGCCAGCACTG-CGGGGAGAGTTGTCATAG--------------------TGTGTGTGTGGGGGTGACCCGTGTTCTTTAGGCACCAGAGTGGCTTT-CC-CCAGTTC
+q oryCun1.scaffold_214769 ------------------99999999999899999999999999999999999999999----9999999999999999-999999999999999999--------------------99999999999999999999999999999999999999999999999-99-9999999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16356837 133 - 174210431 ------------------AAG-------------------AAGTTATTTGGAAAGATCT----GCTCCTATAAGCACTGTTGGGAGTAACTTATAGGAGCAGATCTTACAGAAGCAACCATCAGAAGGGTGATTACCCCTGTTCCTTAGTCACCAGAGTTGCTTC-CT-CAGTTTC
+i ponAbe2.chr6 I 18 C 0
+s panTro2.chr6 16573800 133 - 173908612 ------------------AAG-------------------AAGTTATTTGGAAAGATCT----GCTCCTATAAGCACTGTTGGGAGTAACTTATAGAAGCAGATCTTACAGAAGCAACCACCAGAAGGGTGATTACCCCTGTTCCTTAGTCACCAGAGTTGCTTC-TT-CAGTTTC
+q panTro2.chr6 ------------------999-------------------9999999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99-9999999
+i panTro2.chr6 I 18 C 0
+s hg18.chr6 16051290 133 - 170899992 ------------------AAG-------------------AAGTTATTTGGAAAGATCT----GCTCCTATAAGCACTGTTGGGAGTAACTTATAGAAGCAGATCTTACAGAAGCAACCACCAGAAGGGTGATTACCCCTGTTCCTTAGTCACCAGAGTTGCTTC-TT-CAGTTTC
+i hg18.chr6 I 18 C 0
+s rheMac2.chr4 108459135 132 + 167655696 ------------------AAG-------------------AGGTTATTTCGAAAGATCT----GCCCCTATCAGCGCTG-TGGGAGTAACTTACAGGAGCAGATCTTACAGAAGCAACCATCAGAAGGGTGATTACCCCTGTTCCTTAGTCACCAGAGTTGCTTC-CT-CCGTTTC
+q rheMac2.chr4 ------------------999-------------------9999999999999999999----9999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99-9999999
+i rheMac2.chr4 I 18 C 0
+s calJac1.Contig1260 22712 133 - 523245 ------------------AGG-------------------AAGTTATTTAGAAAGATCT----GCTCCTGTAAGCACTG-TGGGAGTGACTTATAGGAGCAGATCTTACAGAAGCAACCACTGGGAGGGTGACTACCCCTCTTCCTTAGTCACTAGAGTTGCTTC-CTCCAGTCTC
+i calJac1.Contig1260 I 18 C 0
+s tupBel1.scaffold_114895.1-498454 356799 105 - 498454 ------------------AAG-------------------AAGTGGTTTCGTAAGCTCT----GCTCCTATAAGCACTG-TGGG----------------------------AACAGTGATCAGAATGGTGATCACCTTGGTTCCTGAGTCACCCAGGCTGCTTC-CCTCAGTTTT
+q tupBel1.scaffold_114895.1-498454 ------------------999-------------------9999999999999999999----9999999999999999-9999----------------------------99999999999999999999999999999999999999999999999999999-9999999999
+i tupBel1.scaffold_114895.1-498454 I 19 C 0
+s canFam2.chr1 78224600 104 - 125616256 ------------------AAG-------------------AAGTTATTTCGTAAGATAG----GCTCCTGTAAGCACTG-TGGGAATAGCT----------------------------ATTGGGATGGTGATTTCCT-TGTCCTTTAGTTACCAGAGTGGCTTCCCT-CAGCTTC
+q canFam2.chr1 ------------------999-------------------9999999999999999999----9999999999999999-99999999999----------------------------9999999999999999999-99999999999999999999999999999-9999999
+i canFam2.chr1 I 19 C 0
+s equCab1.chr31 13017864 103 + 24938454 ------------------AAG-------------------AAGTGATTTTGTAAGATCT----GCTCCTGTAAGCTCTG-TGGGAATAGCT----------------------------ATCACAATGGTGATCACTTCTGTCCTT--GTCACCAGAGTTGCTTCCCC-CAGTTTC
+q equCab1.chr31 ------------------999-------------------9999999999999999999----9999999999999999-99999999999----------------------------999999999999999999999999999--99999999999999999999-9999999
+i equCab1.chr31 I 18 C 0
+s bosTau3.chr9 13682701 105 - 95030419 ------------------AAG-------------------GAGTTATTTCGTAAGATGT----GCTCCTGTAAGCACTG-TGGGAATAGCT----------------------------GTCAGCATGGTGATTGCTTGTGTTCTTTAGTCCCCAGGGTTGATTCCCT-CAGTTTG
+q bosTau3.chr9 ------------------999-------------------9999999999999999999----9999999999999999-99999999999----------------------------9999999999999999999999999999999999999999999999999-9999999
+i bosTau3.chr9 I 19 C 0
+s echTel1.scaffold_320259 38302 124 - 41042 CACTTTCTTCCTGGGAGCCAG-------------------AAGTGGTTTCGTAAGCACTGGCCGCCCTTGTTGGCACTG-TGGGAACAGCT------------------------------AAGGAAGCTGACAACAC-TGTTCCCAAGTCACCAGGGTGACAGCCCT-CTGTTTC
+q echTel1.scaffold_320259 999999999999999999999-------------------999999999999999999999999999999999999999-99999999999------------------------------99999999999999999-99999999999999999999999999999-9999999
+i echTel1.scaffold_320259 C 0 N 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+
+a score=97021.000000
+s mm9.chr10 3157313 52 + 129993255 CAAGTCACAGAACCTTGCCAGCTTTTCAAAGGACT----GTTTA----TGCAAAAGGGAG--
+s oryCun1.scaffold_214769 56595 51 - 139458 CAGATCACAGACAGTTAAAGACTTCTCGAAGGACTTTGAGTTTA------CAAAGGG-----
+q oryCun1.scaffold_214769 99999999999999999999999999999999979987999994------5999999-----
+i oryCun1.scaffold_214769 C 0 I 2509
+s ponAbe2.chr6 16356970 60 - 174210431 CAAATCACAGAAAGTCTCAAACTTCTCAAGGGACTTTTAGATTGCCTGTGCAAAGAGGAG--
+i ponAbe2.chr6 C 0 I 79
+s panTro2.chr6 16573933 38 - 173908612 CAAATCACAGAAAGTCTCAAACTTCTCAGGGGACTTTT------------------------
+q panTro2.chr6 99999999999999999999999999999999999999------------------------
+i panTro2.chr6 C 0 I 29
+s hg18.chr6 16051423 60 - 170899992 CAAATCACAGAAAGTCTCAAACTTCTCAAGGGACTTTTAGATTGCCTGTGCAGCGAGGAG--
+i hg18.chr6 C 0 I 125
+s rheMac2.chr4 108459267 60 + 167655696 CAAATCACAGAAGGTCTCACACTTCTCAAGGGACTTTTAGATTGCCTGTGCGACGAGGAG--
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999--
+i rheMac2.chr4 C 0 I 127
+s calJac1.Contig1260 22845 60 - 523245 CAAATCACAGAAAGTCTCAAACTTCTCAAGGGACTTTTAGATTGCCTGTGCAAAAGAGAG--
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 356904 48 - 498454 CAAATCACAGAAAGTCACAAACTT-TCAGGTGGCCTTT-----------GCAAAGGAGAA--
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999-9999999999999-----------99999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78224704 41 - 125616256 AAAAGCATAGAAAGTCACAAACCCCTCAAAGGACCTTGAGG---------------------
+q canFam2.chr1 99999999999999999999999999999999999999999---------------------
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13017967 62 + 24938454 AGAATCGTAGAAAGTCACAAGCTTCTCAAAGGTCTTTTAGGTTACAGACGTGAAAAAGGGAG
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 2051
+s bosTau3.chr9 13682806 41 - 95030419 AGAACCACAGAAAGTTGCAAACTTTTCAAAGGATTTTTAGG---------------------
+q bosTau3.chr9 99999999999999999999999999999999999999999---------------------
+i bosTau3.chr9 C 0 I 1
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+
+a score=-6358.000000
+s mm9.chr10 3157365 37 + 129993255 TTGCCTTGTTCTTACCAGCATCCCTCCTGGTGTCAGA
+s calJac1.Contig1260 22905 23 - 523245 -----------AAAGAATGATGCCCACAGGTGTC---
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 356952 24 - 498454 -----------AAAGAATGATCTCCACATGTGTCA--
+q tupBel1.scaffold_114895.1-498454 -----------999999999999999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78224745 13 - 125616256 -----------------TTACATGTGCAGA-------
+q canFam2.chr1 -----------------9999999999999-------
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13682848 13 - 95030419 -----------------TTACCCGTGCAGA-------
+q bosTau3.chr9 -----------------9999999999999-------
+i bosTau3.chr9 I 1 C 0
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459327 127 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16051483 125 - 170899992 I
+e panTro2.chr6 16573971 29 - 173908612 I
+e ponAbe2.chr6 16357030 79 - 174210431 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=-11062.000000
+s mm9.chr10 3157402 71 + 129993255 ----------------------GGCACCAGCCTCGGGGAAGGGGAGAGTT-TCAGGGCTAGGTGAGTGTAAGAGTGA-GTGAGTACTGAAC--TGAC
+s panTro2.chr6 16574000 67 - 173908612 ----------------------GATGCCCACCGTGTCAAAGAGGCGCCTT-GCAGGGA-----GTAACCTGGAGTGACGTGAATCACGCTG--TTCG
+q panTro2.chr6 ----------------------9999999999999999999999999999-9999999-----9999999999999999999999999999--9999
+i panTro2.chr6 I 29 I 5
+s calJac1.Contig1260 22928 52 - 523245 -------------------------------------GAAGAGGTGCCTT-GCAGGTA-----GTAACCCAGAGTGACGTGAGTCATGCTG--TGAA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 356976 48 - 498454 ------------------------------------------GGCACCTTCACAGGTC-----GGATCCTGGAATGAGGTGGAGCATGCTG--TTAG
+q tupBel1.scaffold_114895.1-498454 ------------------------------------------9779999999999999-----9989997999999999999989999999--9999
+i tupBel1.scaffold_114895.1-498454 C 0 I 24
+s canFam2.chr1 78224758 57 - 125616256 GGGAGAGAGGAGGAT--CCACGGGTCTC-----------------------------A-----GGCACCGGAAGTGATAGGAAACAGGCTG--TC--
+q canFam2.chr1 999999999999999--99999999999-----------------------------9-----9999999999999999999999999999--99--
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13682861 81 - 95030419 GGGAGAAAGAACAGTCCCCATGGATCTC---------AAAGAGGCATCTTTGCAGGTA-----GGTACCTGGAGTGAGGTGGACCATGCTGGAGC--
+q bosTau3.chr9 9999999999999999999999999999---------999999999999999999999-----99999999999999999999999999999999--
+i bosTau3.chr9 C 0 C 0
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459327 127 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16051483 125 - 170899992 I
+e ponAbe2.chr6 16357030 79 - 174210431 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=6088.000000
+s mm9.chr10 3157473 45 + 129993255 AGAAATAACCCAAGCTTGCAAGATACAGTGCCCAGGCTTGGGGTT
+s ponAbe2.chr6 16357109 45 - 174210431 AGAACAGATTTGGGCTTATGGTGAGCAGGACTCATACCTGATGCA
+i ponAbe2.chr6 I 79 C 0
+s panTro2.chr6 16574072 45 - 173908612 AGAACAGATTTGGGCTTATGGTGAGCAGGACTCATACCTGATGCG
+q panTro2.chr6 999999999999999999999999999999999999999999999
+i panTro2.chr6 I 5 C 0
+s calJac1.Contig1260 22980 18 - 523245 AGAGCAG--------------------------ATACCCGATGC-
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 357048 26 - 498454 -------------------GTCAAGCAGGACTCATACCTGATGTT
+q tupBel1.scaffold_114895.1-498454 -------------------88999898998999898998999999
+i tupBel1.scaffold_114895.1-498454 I 24 C 0
+s canFam2.chr1 78224815 33 - 125616256 -----AG---TGGGCTTATGA---GCAGGGCTCATACCTGACCT-
+q canFam2.chr1 -----99---99999999999---99999999999999999999-
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13682942 36 - 95030419 -----AGACCTGGACTTATGG---GCAAGACCCATCCCTGATGT-
+q bosTau3.chr9 -----9999999999999999---99999999999999999999-
+i bosTau3.chr9 C 0 C 0
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459327 127 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16051483 125 - 170899992 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=19023.000000
+s mm9.chr10 3157518 28 + 129993255 TACTCTGGGAAGCTTGAGG--TTCCGTGAA
+s panTro2.chr6 16574117 27 - 173908612 --TTTTGGGAAATGCA-GGTGTTAAATAAA
+q panTro2.chr6 --99999999999999-9999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16357154 28 - 174210431 --TTTTGGGAAATGCAGGGTGTTAAATAAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108459454 28 + 167655696 --TTTTGGGAAATGCAGGGTGTTAAATAAA
+q rheMac2.chr4 --9999999999999999999999999999
+i rheMac2.chr4 I 127 C 0
+s hg18.chr6 16051608 26 - 170899992 ---TTTGGGAAATGCA-GGTGTTAAATAAA
+i hg18.chr6 I 125 C 0
+s calJac1.Contig1260 22998 29 - 523245 -ATTATGGGAAATGCGGGGTGTTAAATAAA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 357074 26 - 498454 TGTTTTGGGTGGCCTGAGG----ACGTAAA
+q tupBel1.scaffold_114895.1-498454 9999979998999989989----9889999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78224848 25 - 125616256 TAGTTTGGGAGGCATGGGGTGTGAA-----
+q canFam2.chr1 9999999999999999999999999-----
+i canFam2.chr1 C 0 I 169
+s bosTau3.chr9 13682978 25 - 95030419 TTCTTAGGAAGGCACAGGGGGCTAA-----
+q bosTau3.chr9 9999999999999999999999999-----
+i bosTau3.chr9 C 0 I 5
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=137417.000000
+s mm9.chr10 3157546 65 + 129993255 GAGCTTAAATGTAGCCCCG-TTTGCCTGTCCACAGCAGACTTAGAT-GTTCTGTAAGGCATCTTTGA
+s panTro2.chr6 16574144 65 - 173908612 AAACTTAAAAGTTGACCTGATTTGCC-TTTTATAGATGAAGGAGAC-TTTTTGTAAGGCATCTTTGA
+q panTro2.chr6 99999999999999999999999999-9999999999999999999-99999999999999999999
+i panTro2.chr6 C 0 I 1745
+s ponAbe2.chr6 16357182 66 - 174210431 AAACTTAAAAGTTGACCTGATTTGCCTTTTTATAGATGAAGGAGAC-TTTTTGTAAGGCATCTTTGA
+i ponAbe2.chr6 C 0 I 1041
+s rheMac2.chr4 108459482 66 + 167655696 AAACTTGAAAGTTGACCTGATTTGCCTTTTTATAGATGAAGGAGAC-TTTTTGTAAGGCATCTTTGA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999-99999999999999999999
+i rheMac2.chr4 C 0 I 2358
+s hg18.chr6 16051634 65 - 170899992 AAACTTAAAAGTTGACCTGATTTGCC-TTTTATAGATGAAGGAGAC-TTTTTGTAAGGCATCTTTGA
+i hg18.chr6 C 0 I 1057
+s calJac1.Contig1260 23027 67 - 523245 AAACTTAAAAGTTGACCTGATTTGCCTTTTTATAGATGAAGGAGACTTTTTTGTAAGGCATCTTTGA
+i calJac1.Contig1260 C 0 I 2599
+s tupBel1.scaffold_114895.1-498454 357100 64 - 498454 AAGCTTAAAAGTTGACTTGATTTGCCTTTTTATAGATGAAGGAGAC-TTTTTGTAATGCATCTTT--
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999988999999999999999899999-999999999999899999--
+i tupBel1.scaffold_114895.1-498454 C 0 N 0
+s canFam2.chr1 78225042 66 - 125616256 aGGCTGAAAAGTTGACCTGATTTGCTTATCAATAGGGAGAATAGAC-TTTTTGTAAGGCATCTTTGA
+q canFam2.chr1 9999999999999999999999999999999999999999999999-99999999999999999999
+i canFam2.chr1 I 169 C 0
+s bosTau3.chr9 13683008 63 - 95030419 AAGCTT-GGAGTTGACCTCACTTGCCTATCTATGGGTAGAGT--AC-TTTCTGTCAGGCATCTTTGA
+q bosTau3.chr9 999999-99999999999999999999999999999999999--99-99999999999999999999
+i bosTau3.chr9 I 5 C 0
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=2278.000000
+s mm9.chr10 3157611 40 + 129993255 TTGAAGTGG-----TG----------------------------GCCTCCAGAGCAGGATTTCAGCTATGATT
+s canFam2.chr1 78225108 73 - 125616256 GGGGAGGAAGAAGATGTTTTTTGTAGCTTAATCCTTGTGTACCTGCTTCTGAAACAGGATTTCAGCAACAATT
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 1874
+s bosTau3.chr9 13683071 66 - 95030419 GTGGAGGGAG----TGCTTTTTGT--TTTAGTCCATTTCTACTTGCTTCCAGAACAGGGTTTCAGCAGTGAT-
+q bosTau3.chr9 9999999999----9999999999--9999999999999999999999999999999999999999999999-
+i bosTau3.chr9 C 0 I 1587
+e rn4.chr1 229974037 486 - 267910886 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459548 2358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 23094 2599 - 523245 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16051699 1057 - 170899992 I
+e panTro2.chr6 16574209 1745 - 173908612 I
+e ponAbe2.chr6 16357248 1041 - 174210431 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3157651 101 + 129993255 TCCCATAGAGTGGGAAACATCTCAACAGCCATCTCCCCACAACCCCCCACTTTTCTCGCTCtgtgtgtgtgtgtgtgatgtatgcatgtatgtgagtgAGA
+e rn4.chr1 229974037 486 - 267910886 I
+e bosTau3.chr9 13683137 1587 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459548 2358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78225181 1874 - 125616256 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 23094 2599 - 523245 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16051699 1057 - 170899992 I
+e panTro2.chr6 16574209 1745 - 173908612 I
+e ponAbe2.chr6 16357248 1041 - 174210431 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=98185.000000
+s mm9.chr10 3157752 245 + 129993255 TCATGAAGGACAAAGAAGGTCCAGTTAGTGGAGGCACATT-GGTATCAGGGAGTGCTAGGATTTAAGTC--TTTTTTAAGTCTCTGAACTGTA----AGCCTACCTGTTAGGAAGACTG-GGTTTTTCTTGACTT---TGGGAAATGT---AAGAAAGGGTACTTTTTCTGTGGCTGGAAGTCCAGCCCTGTCATCTCC------------CCACC----ACTATGATTTTGAGAAGTGATGGATGCC-TAAATCATCCACCCCAAATGCTGTCTT
+s rn4.chr1 229974523 248 - 267910886 ACATGGAGGACAGAGACAGTCTGTTTAGCAGAGGCACATT-AATATCAGGCAATGCTGGGATTTAAGTCTTTTTTTTAACTCTGTGACCTGTAAGTCAGCCTACCTGTTAGGAAAACTG-GGTTTTTC-TAACTT---TGGGAAATGT---AAGAAAGGGTACTTTTTCTGTGGCTGGAAGTTCAGCTCTGTAATCCCCA-----------ACGCC----AGTTTAATTTTGAGAAGCATTGAAAAC---AGATCATCCACCCC-AGTGCTGTCCT
+q rn4.chr1 9999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999-999999---9999999999---9999999999999999999999999999999999999999999999999-----------99999----999999999999999999999999999---99999999999999-99999999999
+i rn4.chr1 I 486 C 0
+s panTro2.chr6 16575954 262 - 173908612 ------------AGGAGTATCCTTATAGTGAACAAATACTGGGTATGAGGCAGTGCTCAGATGCAAATC--CTGTTCACGTTGGTGAACTGGATGACAGCCTGCGTATTAGGTATATTAAGATGTTTCTTGACTTCTGTTGGTTATATAACAAGAGCAGGCATTTTTCCTAGGACTGTGGTTTCAGCACTATGGATTCCATGTTTTTTCTTTCATCGTTAAGTCTAATTTTGAGGGTTGATAATGACCTTCGATCATTCAGTCCAAATATTTTATT
+q panTro2.chr6 ------------999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999799999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1745 I 1034
+s hg18.chr6 16052756 249 - 170899992 -------------------------TAGTGAACAAATACTGGGTATGAGGCAGTGCTCAGATGCAAATC--CTGTTCACGTTGGTGAACTGGATGACAGCCTGCGTATTAGGTATATTAAGATGTTTCTTGACTTCTGTTGGTTATATAACAAGAGCAGGCATTTTTCCTAGGACTGTGGTTTCAGCACTATGGATTCCATGTTTTTTCTTCCATCGTTAAGTCTAATTTTGAGGGTTGATAATGACCTTCGATCATTCAGTCCAAATATTTTATT
+i hg18.chr6 I 1057 I 1042
+s ponAbe2.chr6 16358289 266 - 174210431 --------ggccAGGAGTATCCTTATAGTGAACAAATACTGGGTATGAGGCAGTGCTCAGATGCAAATC--CTGTTCACGTTGGTGAACTGGACGACAGCCTCCGTATTAGGCATATTGAGATGTTTCTTGACTTCTGTTGGTTATGTAACAAGAGCAGGCATTTTTCCTAGGACTGTGGTTTCAGCACTATGGATTCCATGTTTTTTCTTCCATCATTAACTCTAATTTTGAGGGTTGATAATGACCTTCGATCATTCAGTCCAAATATTGTATT
+i ponAbe2.chr6 I 1041 I 1053
+e bosTau3.chr9 13683137 1587 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459548 2358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78225181 1874 - 125616256 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 23094 2599 - 523245 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3157997 162 + 129993255 ATagctgggcagtggtggctaatgcctttaatcccagcacttgggaggcagaggcaggtggatttctgagttcgaggtcagcctggtctacagagtgagttccagaacagccagggctacacagagacaccctgtctcgaaaaacaaaaAACAAACAAAACA
+e rn4.chr1 229974771 0 - 267910886 C
+e bosTau3.chr9 13683137 1587 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459548 2358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78225181 1874 - 125616256 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 23094 2599 - 523245 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16053005 1042 - 170899992 I
+e panTro2.chr6 16576216 1034 - 173908612 I
+e ponAbe2.chr6 16358555 1053 - 174210431 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=10854.000000
+s mm9.chr10 3158159 198 + 129993255 AAAAAGTGAATACATTGTTGCATTTTACAGTACAAAGGGACTGTTACCCTAGGGGTTACATGACCAGATGGAGCGGTGGACCTGAGATTAGGACC-----------ACCCCATGTTCAGGATATTTCTCACTGGGTCA-TTCCCCATTTCCCAACTGTGTTCGTTGCTCTCCCTGTCCCTTGGCCCTAACCCCTGTAAAGTCCTTCCCAC
+s rn4.chr1 229974771 206 - 267910886 TAAGAGTGAACACATTGTTGCCTTTTACAGTACAAAGGAACTGTGACCCTGAGGGTTCCATGGAAAGATGGCTTGGTGGAACT--GATTAGAACTGAATGCTCTAGACTGTGGTTTCAAGATATTTCTCACTGTGCCGTTTCCCCATTCCCCAAC--TGTTAGTTGCTCTCCCTGTCCCTTGGCCCCAACCCCTAGGAAGTCCTTCCCAC
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13683137 1587 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13018029 2051 + 24938454 I
+e rheMac2.chr4 108459548 2358 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 82288 5130 - 219823 I
+e canFam2.chr1 78225181 1874 - 125616256 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+e calJac1.Contig1260 23094 2599 - 523245 I
+e cavPor2.scaffold_284118 50808 200 - 169015 I
+e otoGar1.scaffold_334.1-359464 317862 2163 - 359464 I
+e hg18.chr6 16053005 1042 - 170899992 I
+e panTro2.chr6 16576216 1034 - 173908612 I
+e ponAbe2.chr6 16358555 1053 - 174210431 I
+e oryCun1.scaffold_214769 56646 2509 - 139458 I
+
+a score=111563.000000
+s mm9.chr10 3158357 50 + 129993255 AGAAGCATTTGTGCGGGAGGG-------AGGGACTTCCTGTCCTTCAG-CCAAGATGC
+s tupBel1.scaffold_114895.1-498454 354840 24 - 498454 ---------------------------------CTTCCTGCCCTTCGTCCCAAGATG-
+q tupBel1.scaffold_114895.1-498454 ---------------------------------666665468565424196967555-
+i tupBel1.scaffold_114895.1-498454 N 0 C 0
+s hg18.chr6 16054047 27 - 170899992 -----------------------------GAGACTTCCTGTCCTTCGT-CCAAGATG-
+i hg18.chr6 I 1042 C 0
+s panTro2.chr6 16577250 27 - 173908612 -----------------------------GAGACTTCCCGTCCTTCGT-CCAAGATG-
+q panTro2.chr6 -----------------------------9999999990999999999-99999999-
+i panTro2.chr6 I 1034 C 0
+s ponAbe2.chr6 16359608 27 - 174210431 -----------------------------GAGACTTCCTGTTCTTCGT-CCAGGATG-
+i ponAbe2.chr6 I 1053 C 0
+s rheMac2.chr4 108461906 27 + 167655696 -----------------------------GAGACTTCCTGTCCTTCGT-CCAAGATG-
+q rheMac2.chr4 -----------------------------9999999999999999999-99999999-
+i rheMac2.chr4 I 2358 C 0
+s calJac1.Contig1260 25693 27 - 523245 -----------------------------GAGACTTCCTGTCCTTTGT-CCAAGATG-
+i calJac1.Contig1260 I 2599 C 0
+s otoGar1.scaffold_334.1-359464 320025 27 - 359464 -----------------------------GAGCCTTCCTGCCCGTTGT-CCGAGCTG-
+q otoGar1.scaffold_334.1-359464 -----------------------------9976989898999656696-97897999-
+i otoGar1.scaffold_334.1-359464 I 2163 C 0
+s oryCun1.scaffold_214769 59155 25 - 139458 ------------------------------GAGCTTCCTGTCCT--GT-CGAAGATCC
+q oryCun1.scaffold_214769 ------------------------------27323982556943--47-255876694
+i oryCun1.scaffold_214769 I 2509 C 0
+s bosTau3.chr9 13684724 28 - 95030419 ----------------------------AGAGCCTTCCTGCCCTTCCT-CCAGGAGG-
+q bosTau3.chr9 ----------------------------99999999999999999999-99999999-
+i bosTau3.chr9 I 1587 C 0
+s equCab1.chr31 13020080 27 + 24938454 -----------------------------GAGCCTTCCTGCCCTTCCG-CCAAGATG-
+q equCab1.chr31 -----------------------------9999999999999999999-99999999-
+i equCab1.chr31 I 2051 C 0
+s felCat3.scaffold_217398 87418 28 - 219823 -----------------------------GAGCCTTCCTGCCCTTCCTCCCAAGACG-
+q felCat3.scaffold_217398 -----------------------------9999999999999999999999999999-
+i felCat3.scaffold_217398 I 5130 C 0
+s canFam2.chr1 78227055 27 - 125616256 -----------------------------GAGCCTTCCTGCCCTTCCT-CCAAGATG-
+q canFam2.chr1 -----------------------------9999999999999999999-99999999-
+i canFam2.chr1 I 1874 C 0
+s rn4.chr1 229974977 57 - 267910886 CACAGTATTTGTGCGGGAGGGGAGAGGAAGGGACTTCCTGTCCTTCAG-CCAAGATGC
+q rn4.chr1 999999999999999999999999999999999999999999999999-999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 51008 42 - 169015 AGCAGCCTCTGTGC--------------AGAGCCTTCCTGTCCCTCGT-CCAAGATG-
+q cavPor2.scaffold_284118 87468679999965--------------58785369923312213474-54399999-
+i cavPor2.scaffold_284118 I 200 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e loxAfr1.scaffold_4233 33510 6294 + 124190 I
+
+a score=1897975.000000
+s mm9.chr10 3158407 322 + 129993255 CTGGGCGGTTAAAGGTGTGGATGCAGCCTTGCATACTTAGCTTCTGGGAGCAGAAAGAACCACCTT-GAAATTTCCATGGCCTTGGAGGAAACAG--GATGAAGGATAGGAAACAGCTGCCAGGGGCGCTGAGG-CAGAGGTGCAGCCTCACATAGC-GCTCAGCAAC--CAGGGATGTCAATTGGAAGGCC--TCTGATTAAACGGTCGGTCTGGAGCTGTGGAATGTGATTTGTTTTCAGAT-GTTGGCCCCTCCCTG-CCTTTGTTCTTCAGTT-GCCTGTAGACTTTATTCCTACTTTTTAAATGA---T-CAGAAGTGCTT-TCtttaaaaatt
+s cavPor2.scaffold_284118 51050 298 - 169015 CTGTTAGGGAGAAGGTGTGGATGCAGCTTTGCATGTTCAGCTTCTGGAACCAGACACGACTGCCTT--CAGTTTCCACGGCCTTGgaggaaacag--aatgaatgatAGGAAACAGCTGTTGCCGGCATGGTGGACAGAACTGCAACCGCACGGAGCAGTTTAGTAATCGTCAGAGCAGTGGTGGAAAATCCATTCTGATTCAGGCCTCG----GGGACCGTGGGCTTCGATTTGCTTTTGTACAGTTATCCCTTCCCTG----TTGTCTTT------------------------TACTTGtcaaaatc---a-cagaaataatt-tcttataacatt
+q cavPor2.scaffold_284118 999999999999999699999989899999985999999999999999999999999999999999--999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999----99999999------------------------99999999999999---9-99999999999-999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229975034 317 - 267910886 CTGGGCCGTTAAAGGTGTGGATGCAGCCTTGCATACTTAGCTTCTGGGAGCAGACAGAACCACCTCAGAAATTTCCATGGCCTTGGAGGAAACAG--GATGAAGGGTTGGAAACAGCTGCCAAGGGCGCAGAGG-CAGAAGTGCAACCTCAC--AGA-GTTCAGCAACCGCAGGGATGTCAACGGGAAGGCC--TCTGACTAAACATTCG----GGAGCTGTGGAATGTGATTTGTTTTCAGAC-GTTGGCCCCTCCCTG-CCTTTGTTCTTCAGTT-GCCTGTAGA--TTATTCTTACTTATCAAATGA---T-CAGAAGTGCTT-TCTTTAAAGATT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999-99999999999999999--999-9999999999999999999999999999999999--9999999999999999----999999999999999999999999999999-999999999999999-9999999999999999-999999999--999999999999999999999---9-99999999999-999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78227082 317 - 125616256 CCATTGGGGTGAAGGCGTGGATGCAGGTTTATGTGTTCAGCTTCTGGAACCAGACAGAACTGCCTT-GCAGTTTTCACGGCCTTGGAGGAAGCAGATAACGGATGATAGGAAACAGCTGCTGCTAACGACGCAGGCAGAAATGCAGCCTCATGGAGCAGTTTGGTAAGCACAGGAATATTAATGCAAAGCCCTCTCCGATAAGATATTTG----GATGCTGTGGAATGCGATTTGTTTTCATAC-ATTTACCCCCCACCC-----TGTCTTTCTGTT-GCCTGCAGATTTTATTTTGGTTTGTCCGATAA---TACAGAAATACCT-TCTTGT------
+q canFam2.chr1 999999999999998999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999-999999999999999-----999999999999-99999999999999999999999999999999---9999999999999-999999------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 87446 321 - 219823 CCATTGGGGTGAAGGTGTGGACGCGGTTTTATAAGTTCAGCTTCTGGAACCAGACAGAGCTGCCTT-GCAGTTTTCATGGCCTTGGAGGAAGCAGATAAGGAGTGATAGGAAACAGCTGCTGCTCACGACGCAGGCCGAGATGCAGCCTTGTGGAGCAGCTTGGTAAGCACGAGAATATTAATGCAGAGTCCTTTCCGATAAGATGTTTG----GGAGCCAAGGAATGTGATTTGTTTTCATAC-ATTTCCCCCGCCCCC-CA-TTGTCCTTCTGTT-GCCTACAGATTTGATTTTTGTTTGTCCAGTAATACTACAGAAATACTT-TCTT--------
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999-999999999999999-99-9999999999999-999999999999999999999999999999999999999999999999-9999--------
+i felCat3.scaffold_217398 C 0 I 153
+s equCab1.chr31 13020107 319 + 24938454 CCATTGGGGTGAAGGTGTGGACGCAGGTTTCCACGTTCAGCTTCTGGAACCAGACAGAACTGCCTC-TCGGTTTTCATAGCCTTGGAGGAAGCAGATAACAAACGATAGGAAACAGCTGCATCTCACATGGCAGGTGGAACTGCAGCCTCATGGAGCAACTTGGTAATCAC-AGAGTATCAATGGAAAGTCCTCTCGGATGAGACATTTG----GAAGCTATGGAATGTGGTTTGTTTACACAT-ATTTACCCCAGCCTC-CA-TTGTCCTTCTGTT-GCCTGCAGATATTACTTTTGTTTGTCCAATAA---TACAGAAGTTCTT-TCTTGT------
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999----999999999999999999999999999999-999999999999999-99-9999999999999-99999999999999999999999999999999---9999999999999-999999------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13684752 319 - 95030419 CCGGT-GGGTGAAGGTGTGGATTCAGGTTTACACGTTCAGCTTTTGGAACCAGACACCGTTGCCTT-TCAGTTTTCATGGCTTTGGAGGAAACAGATAATGGGTGATAGGAAACAGCTGCTCCTAACGTGGCAGCCAGAAATGCAGCCTCATGGAGCAGCGTGGTCATCACGAGAATATTCATGCGAAGTCCTTTCTGATTAAACA-CTG----GGAGCTGTGGAATGTGGCTTGTTTTTGTCT-GTTTACCCCCTCCCCCCA-TTGTCTTTCTGTT-GCTTGCAGCTTTTATTTTTATTCATCCAATAA---CACAGAAATGTTT-CCTTGT------
+q bosTau3.chr9 99999-999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999----999999999999999999999999999999-999999999999999999-9999999999999-99999999999999999999999999999999---9999999999999-999999------
+i bosTau3.chr9 C 0 C 0
+s oryCun1.scaffold_214769 59180 317 - 139458 TTCG--AGATGAAGGTGTGGATGCCGCTTTGCATGCTCAGCTTCTGGAACCCGAC-GGGCCGCCTC-TCAGTGTCCGTGGCCTTGGAGGAAGCAGATAATGCGCGATCGGAAACAGCTGCTGCTAACGTGGCAGGCCGAGAGGCAGCCTCACGGAGCCGCGTGGCAAGCCCAGGAGTATTCATGGAAAATCCTTTCTGGCTAAGCATTTG----GGGGCTGTGGAATGTGACTTGTTCTCATAT-GCTACCCCTCCCCCG----TTGGCTTCCTGTT-GCCTGCAGATTTTA----TTTTTGTCAAGTAA---TACAGAAATACTT-TCTGTAAAAATC
+q oryCun1.scaffold_214769 8552--1111288654556312266779988999969999999657799992557-7455449996-99764599597649943979999999999999997999994669999997999999999595979976769999999999999959999987474647965899999999999998999999999999989979999999999----999889999999999999999999999999-999999999999989----9899999999999-99999999999999----99999999999999---9999999999999-999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s otoGar1.scaffold_334.1-359464 320052 320 - 359464 CCGTTGGGGTGACGGCGTGGATGTGGCTTTGCATGTTCAGCTTCTGGAACCAGACACCACTGCCTT-TCAGTTTTCAGGGCCTTGGAGGAAGCAGATAATGAATGAGAGGAAACAGCTGCTTCTAACGTGGCAGGCAGAAACGCATCCTCATGGAGCAGTTTGGTGATCACGAGAATATTAGTGGAAAATCCTTTCTGATTAAACATTCG----GGAGCTGTGGAATGCGATTTGTTTTCATAT-ATTCACCCCTCTTCC-CA-TTGCCTTTCTGCT-CCCCGCAGGTTTTATTTTCATTTGTCAAATAA---TACAGAAATGCTT-TCATGT------
+q otoGar1.scaffold_334.1-359464 999899865485666667996785999999566997877698997968789969866977699899-76855995969775684777679446689999679999999999999999999988996787999999699999999999999999999999999968999999999999999999999999999999999999999999999----999999979999998999999999999999-999979999999999-99-9999999999999-99979999999999999999999999999999---9999999999999-999999------
+i otoGar1.scaffold_334.1-359464 C 0 I 1
+s calJac1.Contig1260 25720 321 - 523245 CTGTTGGGATGAAGGTGTGGATGCAGCTTTGCATGTTCAGCTCCTGGAACCAGACACAACTGCCTT-TCAGTTTTCATGGCCTTGGAGGAAACAGATAATGAATGATAGGAAACAGCTGCTTCTAACGTGGCAGGCAGAAATGCATCCTCATGGGGCAGTTTGGCCATCACTAGATTATTAGTGGAAAATTATCTCTGATTAAACATTTG----GGAACTATGGAGTGTGATTTGTTTTCATAT-ATTCATCCTTCTCCC-CA-TTGTCTTTCCATTGGCCTGTAGATTTTATTTTTATTTGTCAAATAA---TACAGAAATACTC-TCTTGT------
+i calJac1.Contig1260 C 0 I 1
+s rheMac2.chr4 108461933 319 + 167655696 CCATTGGGGTAAAGGTGTGGATGCAGCTTTGCATGTTCAGCTTCTGGAACCAGACAGAACTGCCTT-TCAGTTTTCATGGCCTTGGAGGAAACAGATAATGAATGATAGGAAACAGCTGCTTCTAACGTGGCAGGCAGAAATGCATCCTCATGGAGCAATGTGGTCATCACAGGAATATTAGTGGAAAATCGTCTCTGATTAAACATTCA----GGAGCTATGGAATGTGATTTACTTTCATAT-ATTCATCCTTCCCCC-CA-TTGTCTTTCCGTT-GCCTGTAGATTTTATTTTTATTTGTCAAATAA---TACAGAAATGCT--TCTTGT------
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999-999999999999999-99-9999999999999-99999999999999999999999999999999---999999999999--999999------
+i rheMac2.chr4 C 0 I 1
+s ponAbe2.chr6 16359635 318 - 174210431 CCACTGGGGTAAAGGTGTGGATGCCGCTTTGCATGTTCAGCTTCTGGAACCAGACAGAACTGCCTT-TCAGTTTTCGTGGCCTTGGAGGAAACAGATAATGAATGATAGGAAACAGCTGCTTCTAACGTGGT-GGCAGAAATGCATCCTCATGGAGCAAATTGGTCAT--CAGGAATATTAGTGGAAAATCATCTCTGATTAAACATTCA----GGAGCTATGGAATGTGATTTACTTTCATAT-ATTCACCCTTCCCCC-CA-TTATCTTTCCGTT-GTCTGTAGATTTTATTTTTATTTGTCAAATAA---TACAGAAACACTTCTCTTGT------
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16577277 320 - 173908612 CCACTGGGGTAAAGGTGTGGATGCAGCTTTGCATGTTTAGCTTCTGGAACCAGACAGAACTGCCTT-TCAGTTTTCATGGCCTTGGAGGAAACAGATAATGAATGCTAGGAAACAGCTGCTTCTAACGTGGCAGGCAGAAATGCATCCTCATGGAGCAAATCGGTCATCACAGGAATATTAGTGGAAAATCATCTCTGATTAAACATTCA----AGAGCTATGGAATGTGATTTACTTTCATAT-ATTCACCCTTCCCCC-CA-TTATCTTTCCGTT-GCCTGTAGATTTCATTTTTATTTGTCAAATAA---TACAGAAATACTT-TCTTGT------
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999-999999999999999-99-9999999999999-99999999999999999999999999999999---9999999999999-999999------
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16054074 320 - 170899992 CCACTGGGGTAAAGGTGTGGATGCAGCTTTGCATGTTTAGCTTCTGGAACCAGACAGAACTGCCTT-TCAGTTTTCCTGGCCTTGGAGGAAACAGATAATGAATGCTAGGAAACAGCTGCTTCTAACGTGGCAGGCAGAAATGCATCCTCATGGAGCAAATCGGTCATCACAGGAATATTAGTGGAAAATCATCTCTGATTAAACATTCA----AGAGCTATGGAATGTGATTTACTTTCATAT-ATTCACCCTTCCCCC-CA-TTATCTTTCCGTT-GCCTGTAGATTTCATTTTTATTTGTCAAATAA---TACAGAAATACTT-TCTTGT------
+i hg18.chr6 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 354864 302 - 498454 CCA-TGGGGTGAAGGTGTGGATGCAGCTTTACGTGTTCAGCTTGTGGAAGCTGACACAACTGCCTT-TCAGTTTTCATGACCCTGGAGGAAATAGATAATGAATGATAGGAAACAGCTGCTCCTCACATGGCAGGCAGAAATGCTGCTTCATGGAGCAGTTTAATAATCACAAGAATATTAATGGAAAATCCTCTCTGATTAAACATTTG----GGAGCTATGGAATGTGATTTGTTTCCATGG-ATTTCCTTGTTTCCC-CA-CTGCCTTTCTGTG-GCCTGAAGATTTTAT----ATTTGTC----AA---CACCGAAAAA----------------
+q tupBel1.scaffold_114895.1-498454 665-55885469755685576455966997665567687666676658665786748847946799-99999999999999999999999999999999799989999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999-999999999999999-99-9999999999999-999999999999999----9999999----99---9999999999----------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 9
+s loxAfr1.scaffold_4233 39804 297 + 124190 CTGTTCTGGTGAAGGTGTCCACACAGGTTTACACGTTGGGCTTCTGGTACCAGACAGAACTGCCTT--CAGTCTTCACTGCCACGGAGGAAACAGGTGATGAATGATAGTAAACAGCTGCTTCACGTGTCGTAGGCAGAAAGGCAGCCTCATGGAGCAGCTAGGTAATCACGAGACTATTGATGGAAAGTCCCCTCTGATGAAACATTTG----GGAGC-ATGGAATATGATTTGTTTTTTAAT-ATTTGCCC---CCCC-CA-TTGTCTTTCTGTT-GCCTACAGATTTTACttttatttaaaaaaaat---t-------------------------
+q loxAfr1.scaffold_4233 233352557375556355884438765544585755566555922468699976778647439879--9796278873325853665556778755457575325766767799963866979676779467984633799999738367948899763298697778945988846822473557874899969869738799959988----77979-579999999896423458969779-79978999---9999-97-6997969954356-27445999999999999999786698799999---9-------------------------
+i loxAfr1.scaffold_4233 I 6294 I 38
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+
+a score=-51186.000000
+s mm9.chr10 3158729 25 + 129993255 aaaaa---aaataa-------------------CAATAACATTGTTT
+s rn4.chr1 229975351 24 - 267910886 AAAAA---AAAAAC-------------------CCAC-ACATtgtgt
+q rn4.chr1 99999---999999-------------------9999-999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 51348 18 - 169015 aaaaa---acacac-------------------aaacaac-------
+q cavPor2.scaffold_284118 99999---999999-------------------9999799-------
+i cavPor2.scaffold_284118 C 0 C 0
+s otoGar1.scaffold_334.1-359464 320373 20 - 359464 AAAAATTTAAATACGATAAC---------------------------
+q otoGar1.scaffold_334.1-359464 99999999999999999999---------------------------
+i otoGar1.scaffold_334.1-359464 I 1 I 119
+s calJac1.Contig1260 26042 19 - 523245 AAAAA---AAATTTAAACAA-------CC------------------
+i calJac1.Contig1260 I 1 I 308
+s rheMac2.chr4 108462253 11 + 167655696 AAAAA---AAATTT---------------------------------
+q rheMac2.chr4 99999---999999---------------------------------
+i rheMac2.chr4 I 1 C 0
+s ponAbe2.chr6 16359954 10 - 174210431 AAAAA---AAAAA----------------------------------
+i ponAbe2.chr6 I 1 C 0
+s panTro2.chr6 16577598 11 - 173908612 AAAGA---A----T---------------ATTT--------------
+q panTro2.chr6 99999---9----9---------------9999--------------
+i panTro2.chr6 I 1 C 0
+s hg18.chr6 16054395 11 - 170899992 AAAGA---A----T---------------ATTT--------------
+i hg18.chr6 I 1 C 0
+s bosTau3.chr9 13685071 21 - 95030419 AAAAA---AATTTAAACAAGCTGA-----------------------
+q bosTau3.chr9 99999---9999999999999999-----------------------
+i bosTau3.chr9 C 0 I 225
+s equCab1.chr31 13020426 24 + 24938454 AAGAA---AAATTTAAACAACGTAATT--------------------
+q equCab1.chr31 99999---9999999999999999999--------------------
+i equCab1.chr31 C 0 I 69
+s canFam2.chr1 78227399 17 - 125616256 AAAAA---AAAAAAAATTAA---------------------------
+q canFam2.chr1 99999---999999999999---------------------------
+i canFam2.chr1 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 87767 153 - 219823 I
+e loxAfr1.scaffold_4233 40101 38 + 124190 I
+e tupBel1.scaffold_114895.1-498454 355166 9 - 498454 I
+e oryCun1.scaffold_214769 59497 0 - 139458 C
+
+a score=-1795.000000
+s mm9.chr10 3158754 80 + 129993255 -------------------tgtgtgtgtgtgtgtgtgtgtgtgtgtg----------------------------------------tgtgCACCTTTgcatgcatgtgggagtcacctgacatcttctcaggcctcaa
+s rn4.chr1 229975375 139 - 267910886 gtctgtgtgcatgtaagcatgtgtgtgtgtgtgtgtgtgtgtgtgtgtctgtgtgcatgtatgCATACCCgtgtgtgtctgtgtgtctgtgtacctttgcatacctgtggaggtcacataacagcttttcaggcctccc
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 51366 25 - 169015 ------------------------------------------------------------------------------------------------------------------caCCACCCCCCTCCCCATAACTCCA
+q cavPor2.scaffold_284118 ------------------------------------------------------------------------------------------------------------------9799999999999999999999981
+i cavPor2.scaffold_284118 C 0 C 0
+e bosTau3.chr9 13685092 225 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13020450 69 + 24938454 I
+e rheMac2.chr4 108462264 0 + 167655696 C
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 87767 153 - 219823 I
+e canFam2.chr1 78227416 0 - 125616256 C
+e loxAfr1.scaffold_4233 40101 38 + 124190 I
+e calJac1.Contig1260 26061 308 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355166 9 - 498454 I
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+e hg18.chr6 16054406 0 - 170899992 C
+e panTro2.chr6 16577609 0 - 173908612 C
+e ponAbe2.chr6 16359964 0 - 174210431 C
+e oryCun1.scaffold_214769 59497 0 - 139458 C
+
+a score=4479.000000
+s mm9.chr10 3158834 59 + 129993255 ttgtctgcttccaccatgtggggcccaggaattgagttcaagtccccaggtatagcagc
+s rn4.chr1 229975514 59 - 267910886 ttgtctgcttcccctatgtgggtcctagggattgaattcaagtccccaggtgtggcagc
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13685092 225 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13020450 69 + 24938454 I
+e rheMac2.chr4 108462264 0 + 167655696 C
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 87767 153 - 219823 I
+e canFam2.chr1 78227416 0 - 125616256 C
+e loxAfr1.scaffold_4233 40101 38 + 124190 I
+e calJac1.Contig1260 26061 308 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355166 9 - 498454 I
+e cavPor2.scaffold_284118 51391 0 - 169015 C
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+e hg18.chr6 16054406 0 - 170899992 C
+e panTro2.chr6 16577609 0 - 173908612 C
+e ponAbe2.chr6 16359964 0 - 174210431 C
+e oryCun1.scaffold_214769 59497 0 - 139458 C
+
+a score=-28.000000
+s mm9.chr10 3158893 50 + 129993255 atttgcttttgcctgctaaaccatcttgTATACCCATGGGTTCTTTCTTG
+s rn4.chr1 229975573 50 - 267910886 atgtgcttttgtctgctgagccatcttgTACACCCAGACGTGCTTTCTCA
+q rn4.chr1 99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16359964 4 - 174210431 ATTT----------------------------------------------
+i ponAbe2.chr6 C 0 C 0
+e bosTau3.chr9 13685092 225 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13020450 69 + 24938454 I
+e rheMac2.chr4 108462264 0 + 167655696 C
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 87767 153 - 219823 I
+e canFam2.chr1 78227416 0 - 125616256 C
+e loxAfr1.scaffold_4233 40101 38 + 124190 I
+e calJac1.Contig1260 26061 308 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355166 9 - 498454 I
+e cavPor2.scaffold_284118 51391 0 - 169015 C
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+e hg18.chr6 16054406 0 - 170899992 C
+e panTro2.chr6 16577609 0 - 173908612 C
+e oryCun1.scaffold_214769 59497 0 - 139458 C
+
+a score=83567.000000
+s mm9.chr10 3158943 76 + 129993255 TAA-----AAACAACATAGCTGCAGATAGGCTGGAAAAGACA------GCCCCC------TTCC--------CTCCCTG---------CTAATCCCCATCTGAGAAC--------------AAG
+s oryCun1.scaffold_214769 59497 99 - 139458 TTA-----AACCAGCCTAATTCCAGATAGTCTGGAAAAGATA------GGCTCT------TCCC--------CTCCCCAAACCTTCTCCTTCTCCAGAGCTGGGTGTCGGTGCCTTCTAGAACT
+q oryCun1.scaffold_214769 999-----9999999999999999999999999999999999------999999------9999--------9999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 229975623 94 - 267910886 TAAAAGTTAAACAGTGTTGCTGCAGATAGGCTGGAAAAGACA------GCCCCC-------TCC--------CTCCCTG---------CCAATCCCCATCTCAGAATGGGTGCCAGTCCCAAAG
+q rn4.chr1 999999999999999999999999999999999999999999------999999-------999--------9999999---------999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s loxAfr1.scaffold_4233 40139 79 + 124190 --------AAACAATGCAACTCTAAATAGATTGGAAATGAAA------TTTGCC-----CTCCCTGCCAAACCCTTCTC---------CTT---CAGAGTTGAGTGTGAG--------------
+q loxAfr1.scaffold_4233 --------9978799999999999999979999999999999------999999-----99999999989999999999---------999---8799999999999999--------------
+i loxAfr1.scaffold_4233 I 38 C 0
+s cavPor2.scaffold_284118 51391 78 - 169015 -----------------------AGAGAGATTGGAAAAGGCA------GCCCCT------TTCCTATT--AACTCCTTA---------TTTTTTCTCACTTGGGTGTCAGCTCCTCCTGGAATC
+q cavPor2.scaffold_284118 -----------------------9999998499999999997------999999------99997999--998999699---------999999967799999999988999999997999977
+i cavPor2.scaffold_284118 C 0 C 0
+s canFam2.chr1 78227416 78 - 125616256 ----------ACACTGTAACTCTAGATA-TTTAGAAAAGACA------GTCGCT-----CTCTCTACTGAACCC-CCTC---------CTTTTCCAGAGTTGAATGTGAG--------------
+q canFam2.chr1 ----------999999999999999999-9999999999999------999999-----999999999999999-9999---------9999999999999999999999--------------
+i canFam2.chr1 C 0 I 13
+s bosTau3.chr9 13685317 73 - 95030419 ----------------------CAGATA-ATTAAAAAGTATATCTAACTTCCAC-----CTTTGTGCTAAACCCTTTTC---------CTTTGTCAGAGTTGGGTGTGAG--------------
+q bosTau3.chr9 ----------------------999999-9999999999999999999999999-----99999999999999999999---------9999999999999999999999--------------
+i bosTau3.chr9 I 225 I 14
+s tupBel1.scaffold_114895.1-498454 355175 92 - 498454 --------AAACAATGTAATTCTAAATATATCGGAAGAAACA------GCCCCTCTTCCATCTCTGCTACACCCCTTTC---------CTTTCTGAGAGTTTGGTAATAGTACCT---------
+q tupBel1.scaffold_114895.1-498454 --------9999999999999999999999999999999999------9909999999999999999990999999999---------999990999999999999999999999---------
+i tupBel1.scaffold_114895.1-498454 I 9 I 13
+s hg18.chr6 16054406 86 - 170899992 --------AAACAACAGAACTCTAGATAGGTTGGAAAAGATA------GTCCCC------TTTATGCTATACCCTTCTC---------CTTTCCCAGAGTTGGGGGTCAGCACCT---------
+i hg18.chr6 C 0 I 14
+s panTro2.chr6 16577609 86 - 173908612 --------AAACAACAGAACTCTAGATAGGTTGGAAAAGATA------GTCCCC------TTTATGCTATATCCTTCTC---------CTTTCCCAGAGTTGGGGGTCAGCACCT---------
+q panTro2.chr6 --------9999999999999999999999999999999999------999999------9999999999999999999---------999999999999999999999999999---------
+i panTro2.chr6 C 0 I 14
+s ponAbe2.chr6 16359968 86 - 174210431 --------AAACAACAGAACTCTAGATAGGTTGGAAAAGATA------GTCCCC------TTTATGCTATACCCTTCTT---------CTTTCCCAGAGTTGGGGGTCAGCACCT---------
+i ponAbe2.chr6 C 0 I 14
+s rheMac2.chr4 108462264 86 + 167655696 --------AAACAACAGAACTCTAGATGGGTTGGAAAAGATA------GTCCCC------TTTCTGCTATATCCTTCTC---------CTTTCCCATAGCTGGAGGTCAGCACCT---------
+q rheMac2.chr4 --------9999999999999999999999999999999999------999999------9999999999999999999---------999999999999999999999999999---------
+i rheMac2.chr4 C 0 I 14
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13020450 69 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 87767 153 - 219823 I
+e calJac1.Contig1260 26061 308 - 523245 I
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+
+a score=18559.000000
+s mm9.chr10 3159019 44 + 129993255 --CCGCCCAGA----------CATC-CC---------TGTGCCCACTCCCACTCACCCATGCATCA
+s oryCun1.scaffold_214769 59596 49 - 139458 --TTTCCTAGA----------CACT-GC----ATGTATATGCCTTTATACATTCCACCACATGTTA
+q oryCun1.scaffold_214769 --999999999----------9999-99----9999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 229975717 42 - 267910886 --CTGCTCAGA----------CGTC-CC---------TGTTCCTGGTCACACTCG--TGTGTATCA
+q rn4.chr1 --999999999----------9999-99---------999999999999999999--999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 51469 50 - 169015 --CTTCCTAGA----------CCTT-TCCTAGACATATGTGTTTATACACATTT---CACAcatac
+q cavPor2.scaffold_284118 --779776999----------8999-9786999879999999999998696999---769878997
+i cavPor2.scaffold_284118 C 0 C 0
+s canFam2.chr1 78227507 33 - 125616256 --CTTGCTGGA----------TACT-TG---------CATATACTTTTATATATA-----------
+q canFam2.chr1 --999999999----------9999-99---------999999999999999999-----------
+i canFam2.chr1 I 13 I 1
+s equCab1.chr31 13020519 44 + 24938454 --CTTCCTAGA----------TATT-TG---------CCTAAATGTTTAAACATATTCATGGATAA
+q equCab1.chr31 --999999999----------9999-99---------99999999999999999999999999999
+i equCab1.chr31 I 69 C 0
+s bosTau3.chr9 13685404 44 - 95030419 --CTTCCTAGA----------CGTT-TA---------CATACATGTTTATACAGGTTCATGTATAA
+q bosTau3.chr9 --999999999----------9999-99---------99999999999999999999999999999
+i bosTau3.chr9 I 14 C 0
+s tupBel1.scaffold_114895.1-498454 355280 39 - 498454 -------CAGA----------TATT-TG---------CATACATGTTTATACTTATTCAGACATAA
+q tupBel1.scaffold_114895.1-498454 -------9999----------9999-99---------99999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 13 C 0
+s hg18.chr6 16054506 39 - 170899992 -------TAGA----------CATT-TG---------CATACATGTTTATTCTTATTTGCACATAA
+i hg18.chr6 I 14 C 0
+s panTro2.chr6 16577709 39 - 173908612 -------TAGA----------CATT-TG---------CATACATGTTTATTCTTATTTGCACATAA
+q panTro2.chr6 -------9999----------9999-99---------99999999999999999999999999999
+i panTro2.chr6 I 14 C 0
+s ponAbe2.chr6 16360068 39 - 174210431 -------TAGA----------CATT-TG---------CATACATGTTTATTCTTATTTACACATAA
+i ponAbe2.chr6 I 14 C 0
+s rheMac2.chr4 108462364 39 + 167655696 -------TAGA----------CATT-TT---------CGTACATGTTTATTCTTATTTACACATAA
+q rheMac2.chr4 -------9999----------9999-99---------99999999999999999999999999999
+i rheMac2.chr4 I 14 C 0
+s calJac1.Contig1260 26369 40 - 523245 -------gcgc----------cactgtg---------cccagctaattttttgtaatttttcgtag
+i calJac1.Contig1260 I 308 I 10
+s loxAfr1.scaffold_4233 40218 56 + 124190 CACTTTCCAGAACCTTCCCTGTACT-TT---------TGCACGTGTTTGTGCATATTCATATATGA
+q loxAfr1.scaffold_4233 9999999999999999999999999-99---------99999999999999998999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e felCat3.scaffold_217398 87767 153 - 219823 I
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+
+a score=319315.000000
+s mm9.chr10 3159063 135 + 129993255 CTGTT-----GTCCTTTGTAGAAACAGATT---GATG-------------------------------TGTAGC---------------TTGC----------------ATCTGACCCTGGGCTAC-------------------TT-TTATGCTGCACTCTGTCTTAAAGCTCT--CCCCGTCACCATATTTAGATGAACCTAAATC---------ATTTTAGAGT--------------------ATCTAATTA
+s rn4.chr1 229975759 151 - 267910886 CCGTT-----GTTCTTTGTAGACACAGATT---GGTG-------------------------------CGTAGC---------------TTGA----------------GTCCGACCCTGTGGTAC-------------------TT-TCATGTTACGTTCTGTCTTCGAGCTCT---TCCATCACCAAACGTAGACAAACCTAAATC---------ATATTAGAGT-AATT--TTTATGTCATCAAATCTAATTA
+q rn4.chr1 99999-----99999999999999999999---9999-------------------------------999999---------------9999----------------99999999999999999-------------------99-999999999999999999999999999---999999999999999999999999999999---------9999999999-9999--9999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 59645 152 - 139458 T--TT-----CCTGCTTACAGAAATGGACT---CTCA-------------------------------ATCA-----------------TTGA----------------ATCTGATCCATAGTTTC-------------------TTCTTACTTTTCATGCTGTCTTAAAGATCTTTCTACATCACCATATGTAGCTAAACCTTATCC---------TTTTTAGAAGTAATG--TCTCTACAATCAAGCAGAATTA
+q oryCun1.scaffold_214769 9--99-----99999999999999999999---9999-------------------------------9999-----------------9999----------------99999999999999999-------------------999999999999999999999999999999999999999999999999999999999999999---------999999999999999--9999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 51519 77 - 169015 ttgtt-----ttcttttatgtaaatAG--T---CACA-------------------------------CACAGT---------------TTGA----------------A----------------------------------------------------GATCTAAAACTTT----------------TCAGAAG-----GAATC---------TTTCTATAAT-------------------------GTTA
+q cavPor2.scaffold_284118 79989-----99889999999998999--9---9576-------------------------------767699---------------9999----------------9----------------------------------------------------8966699996699----------------9988989-----98799---------7998699998-------------------------9778
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 26419 209 - 523245 tcacc-----atgttga-ccaggatggtctcgatctgttgacctcgtgatccacccgcctcggcctcccaaagtgctgggattacaggcttgagccaccgcgcccagccATC--------TGTTTCT------------------TTTTTACATTTAATACTGTCTTAATCATTTCTCTGTATC---ATATTTAGATAAACCTCAAAT---------TTTTAGAAGT-AATG--CTTATGCAATTAGACTTAATTA
+i calJac1.Contig1260 I 10 C 0
+s rheMac2.chr4 108462403 146 + 167655696 TCATT-----GTCTTTT-TATAAATGGATT---TCTG-------------------------------CACAGT---------------TGGA----------------ATC--------TGTTTC-------------------TTTTTACATTTAATACTGTCTTAATGATTTATCTGAATCACTATACTTAGATAAACCTCAAAT---------TTTTAGAAGT-AGTG--CTTATGCAGTCAAACTTAATTA
+q rheMac2.chr4 99999-----9999999-999999999999---9999-------------------------------999999---------------9999----------------999--------999999-------------------999999999999999999999999999999999999999999999999999999999999999---------9999999999-9999--9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16360107 146 - 174210431 TCGTT-----GTCTTTT-TGTAAATGGATT---TCTG-------------------------------CACAGT---------------TTGA----------------ATC--------TGTTTC-------------------TTTTTACATTTAATACTGTCTTAACGATTTCTCTGCATCACTATGTTTAGATAAACCTCAAAT---------TTTTAGAAGT-AGTG--CTTATGCAGTCAAACTTAATTA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16577748 146 - 173908612 TCATT-----GTCTTTT-TGTAAATGGATT---TCTG-------------------------------CACAGT---------------TTGA----------------ATC--------TGTTTC-------------------TTTTTACATTGAATACTGTCTTAATGATTTCTCTGCGTCACTATATTTAGATAAACCTCAAAT---------TTTTAGAAGT-AGGG--CTTATGCAATCAAACTTAATTA
+q panTro2.chr6 99999-----9999999-999999999999---9999-------------------------------999999---------------9999----------------999--------999999-------------------999999999999999999999999999999999999999999999999999999999999999---------9999999999-9999--9999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16054545 146 - 170899992 TCATT-----GTCTTTT-TGTAAATGGATT---TCTG-------------------------------CACAGT---------------TTGA----------------ATC--------TGTTCC-------------------TTTTTACATTGAATACTGTCTTAACGATTTCTCTGCATCACTATATTTAGATAAACCTCAAAT---------TTTTAGAAGT-AGGG--CTTATGCAATCAAACTTAATTA
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 355319 155 - 498454 TTTTT-----TTCTTTTATGTGAGTGGATT---CATG-------------------------------TGTGGT---------------TTGA----------------ATCTGATATATTGTTTC-------------------TTTGTATATTTAATATTGTTTTAAAGATCTCTCTATCTCACTGTATTCTGATAAAGCTCAAAT---------TTTTAGAAAC-AATT--TTTATGCAATCAAACTTTATTA
+q tupBel1.scaffold_114895.1-498454 99099-----99099099999999999999---9999-------------------------------999999---------------9999----------------99999999999999999-------------------999999999999999999999999999999999999999999999999999999999999999---------9999999999-9999--9999999999999999988997
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78227541 188 - 125616256 TCATGGACAATTCTTTTCTATAAATGGATT---CATG-------------------------------GGTAGT---------------TTAA----------------ATCTAATTCatatatatatatatatatatatatatttatttatatTTAATACTCTCTTAAAGATCTTTACGTATCACTTTATTTAAATAAGCCCCAAACAGTTTAGAAGTTTAGAAGT-AATT--TTTATACAATCAACCTTAATTC
+q canFam2.chr1 999999999999999999999999999999---9999-------------------------------999999---------------9999----------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999--9999999999999999999999
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 87920 157 - 219823 TTATT-----TTCTTTTATATAAATGGATT---CATG-------------------------------GGTAGT---------------TTGA----------------ATCTGATTCCTATCTTTG------------------CTTTTACATTTAATACTCTTTTACAGATCTTTCCACATCATTTTATTTAAATGAACCTCAAAC--------ATTTTAGAAGT-GATT--TTTATGCAGTTAAACTTAATTC
+q felCat3.scaffold_217398 99999-----99999999999999999999---9999-------------------------------999999---------------9999----------------999999999999999999------------------999999999999999999999999999999999889999999999999999999999999999--------99999999999-9999--9999999799989999999997
+i felCat3.scaffold_217398 I 153 C 0
+s equCab1.chr31 13020563 156 + 24938454 TTATT-----TTCTTTCATATCAACGGATT---CGCG-------------------------------CATAGT---------------TTGA----------------ATCTGATCCATAGTTTC-------------------TTTTTACATGTGATACTGTCTTGAAGATCTTTCCACATCAGCATATATGGATAAATCTCAGAC--------ATTTTGGAAGT-CAGT--TTTATACAATCAGACTTAATGA
+q equCab1.chr31 99999-----99999999999999999999---9999-------------------------------999999---------------9999----------------99999999999999999-------------------999999999999999999999999999999999999999999999999999999999999999--------99999999999-9999--9999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13685448 157 - 95030419 TTATT-----TTCATTTATGTAAATGGATT---TACA-------------------------------TATAGT---------------TTGA----------------ATCTGATCCATGTTTTCTTTTTTTTTTT--------TTTTCACATTTCATACTGTTTTAAAGGTCT------GTCACTCTATTTAGATAATCC--------------ATTTTAGAAGT-AATTTGTTTATACAATCAAACTTAATTA
+q bosTau3.chr9 99999-----99999999999999999999---9999-------------------------------999999---------------9999----------------9999999999999999999999999999--------999999999999999999999999999999------999999999999999999999--------------99999999999-9999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 40274 144 + 124190 TTATT-----TTCTTTTGTATAAATGGATT---TATG-------------------------------TACAGT---------------TT-A----------------CTC--------ATTTGT-------------------AATGTATTCTTAATAACATCTTAAAGATTT-TCCACATCACTATGTTTAGGCAAGCCTCAAAC---------TTTTTGAAGG-TGT---TATCTCCATACAAACTCAGTTA
+q loxAfr1.scaffold_4233 89999-----99899999999999999999---9979-------------------------------999999---------------99-9----------------999--------999999-------------------999999999999999999999999999999-99999999999999999999999999999999---------9999999999-999---9999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 1237 6090 - 17534 I
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+
+a score=85330.000000
+s mm9.chr10 3159198 34 + 129993255 ACTTTATCCATAATTT--GGATGTCTGTGTGGCGAT
+s rn4.chr1 229975910 34 - 267910886 ACTTTATCCATAATTT--GGATGTGTGTGTGGAGAT
+q rn4.chr1 9999999999999999--999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 59797 35 - 139458 ACTTCATTGGT-ATTTAGGAGTGGTTGTGTGGAGAT
+q oryCun1.scaffold_214769 99999999999-999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 51596 35 - 169015 ATTCT-TCTGTAATTTAGGAATGGCTGTGAGAAAGC
+q cavPor2.scaffold_284118 99999-999979999997764697799899999979
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 26628 28 - 523245 ACTTTATCA---AT-----AATTTATGTATGAAAAT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108462549 31 + 167655696 ACTTTATTA---ATCTAAAAATTAATCTA--AAAAT
+q rheMac2.chr4 999999999---99999999999999999--99999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16360253 31 - 174210431 ACTTTatta---atctaaaaattaatcta--aaaat
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16577894 31 - 173908612 ACTTTatta---atctaaaaattaatcta--aaaat
+q panTro2.chr6 999999999---99999999999999999--99999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16054691 31 - 170899992 ACTTTATTA---ATCTAAAAAATAATCTA--AAAAT
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 355474 34 - 498454 AATTTATCAGTGATTTAGGAATGGATTTG--AAAAC
+q tupBel1.scaffold_114895.1-498454 99999999999999999999969999998--99977
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78227729 35 - 125616256 AAATCATTAGTAATTTAGG-ATAGCCGTATGAAAAT
+q canFam2.chr1 9999999999999999999-9999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 88077 36 - 219823 AAATCATCAGTCATTTAGGAATAGCTCTATGAAAAT
+q felCat3.scaffold_217398 999998999999899999999999999999999997
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13020719 36 + 24938454 ACTTTATCAGTAATCTAGGAATGGCTGTATGAATAT
+q equCab1.chr31 999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13685605 36 - 95030419 ACTTTGTCAGGAACTTGGGAATGGAGGTATAGAGAT
+q bosTau3.chr9 999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_40472 7327 36 - 17534 ACCTCATGAGTAATTTAGGAATGGCTGTTTGAAAAT
+q dasNov1.scaffold_40472 369953898895669769973498589779989968
+i dasNov1.scaffold_40472 I 6090 C 0
+s loxAfr1.scaffold_4233 40418 36 + 124190 ACTTTATCAGTAATTTAGGAATGGCTGTAAGAAAAT
+q loxAfr1.scaffold_4233 999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 174
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+
+a score=116963.000000
+s mm9.chr10 3159232 21 + 129993255 CTAGATGCCTCTCT-GAAGCAG
+s rn4.chr1 229975944 18 - 267910886 CTAGA---CTCTTT-GGAGCAG
+q rn4.chr1 99999---999999-9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 59832 21 - 139458 CTGGGCGCCTCGTA-GGAGCAG
+q oryCun1.scaffold_214769 99999999999999-9999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 51631 21 - 169015 CTGGCTCTACCTCC-TTAGGAG
+q cavPor2.scaffold_284118 89999999999999-9999867
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 26656 21 - 523245 CTAAGTGCCTCTTA-GGAATGG
+i calJac1.Contig1260 C 0 I 6
+s rheMac2.chr4 108462580 21 + 167655696 CTGAGTGCCTCTTA-GGAACAG
+q rheMac2.chr4 99999999999999-9999999
+i rheMac2.chr4 C 0 I 6
+s ponAbe2.chr6 16360284 21 - 174210431 CTAAGTGCCTCTTG-GGAACAG
+i ponAbe2.chr6 C 0 I 6
+s panTro2.chr6 16577925 21 - 173908612 CTGAGTGCCTCTTA-GGAACAG
+q panTro2.chr6 99999999999999-9999999
+i panTro2.chr6 C 0 I 6
+s hg18.chr6 16054722 21 - 170899992 CTAAGTGCCTCTTA-GGAACAG
+i hg18.chr6 C 0 I 6
+s tupBel1.scaffold_114895.1-498454 355508 21 - 498454 CTCAGTATTTTTTA-GGAGCAG
+q tupBel1.scaffold_114895.1-498454 68646666999956-5564549
+i tupBel1.scaffold_114895.1-498454 C 0 I 6
+s canFam2.chr1 78227764 21 - 125616256 CTGGGTGCCTCTTA-GGAACAG
+q canFam2.chr1 99999999999999-9999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 88113 21 - 219823 CTGGGTACCTCTTA-GGAACAG
+q felCat3.scaffold_217398 98999666799797-3997769
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13020755 21 + 24938454 CTGGGTGCTTCTTA-GGAATAG
+q equCab1.chr31 99999999999999-9999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13685641 21 - 95030419 CTGGGTGTCTTTTA-GGAACAG
+q bosTau3.chr9 99999999999999-9999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_40472 7363 21 - 17534 CTGGGTGCCTCCTA-TCAACGG
+q dasNov1.scaffold_40472 78999999923211-3011334
+i dasNov1.scaffold_40472 C 0 C 0
+s loxAfr1.scaffold_4233 40628 22 + 124190 CTAGATGCTTCTTAGGAAAAGG
+q loxAfr1.scaffold_4233 9999999999999999999999
+i loxAfr1.scaffold_4233 I 174 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e otoGar1.scaffold_334.1-359464 320393 119 - 359464 I
+
+a score=626129.000000
+s mm9.chr10 3159253 108 + 129993255 GTGGG----------GGCCCAC---------CTCATGCGCACAGGGGACTC--GATGTTTTATGGCAGGCTGGCTGGCACCTGGC-AGAGACTCTT----GGGT-CAGTTTGACAAGGGGGAACAGA---CCTTCT--GC
+s rn4.chr1 229975962 120 - 267910886 GCGGGTCCCTGGGGCCACCCAG---------CTGGTGTGGAAAGGGGACTCTGGATGTTTTGTGGCAGGCTGGCTGGCACCTGGC-AGGGACTCTT----GAGT-CAGTTTGACAAGGGGAAACAGA---TCTTCT--CC
+q rn4.chr1 9999999999999999999999---------999999999999999999999999999999999999999999999999999999-9999999999----9999-9999999999999999999999---999999--99
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 59853 123 - 139458 GAGGG----TTTCATGGCCCAGCCATGG--GCTGAGCTGCAGGTGTG------GGAGATTCATGGCAGGTGGGCTGGCACCTGGA-AGAATATCTTTCTGGGGT-CATTCTGACAAGGGAACACAGA---TCTGCTGACT
+q oryCun1.scaffold_214769 99999----9999999999999999999--99999999999999999------99999999999999999999999999999999-999999999999999999-9999999999999999999999---9999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 51652 128 - 169015 GAGGGGGTGTGCCATGGCCCACTTAT----ACTGGGCTGGATGGTGGATTCAGGGTGCTTTATAGCAGGCCAGCTGGCACCTGGAGAAAGATACTT----GGGT-TGGCCTGACAAGGAG-AACTGATATCCTGCT--CT
+q cavPor2.scaffold_284118 28797987725933983699999999----999999957699999999997289769999988899999797999998999999989987969999----9998-999999999678766-987998999999999--99
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16054749 116 - 170899992 ----------GTCATGGCCCACCCACTT---TGGGACTGGATGGTGGATTTAGGATGTTTTGTGGCAGGCTGGCTTGCACCTGGC-AAAATATCTT----GGGT-CAGTCTAACAAGGGAGAACTGA---TCTCCT--GC
+i hg18.chr6 I 6 I 3
+s panTro2.chr6 16577952 116 - 173908612 ----------GTCATGGCCCACCCACTT---TGGGACTGGATGGTGGATTTAGGATGTTTTGTGGCAGGCTGCCTTGCACCTGGC-AAAATATCTT----GGGT-CAGTCTAACAAGGGAGAACTGA---TCTCCT--GC
+q panTro2.chr6 ----------999999999999999999---999999999999999999999999999999999999999990999999999999-9999999999----9999-9999999999999999999999---999999--99
+i panTro2.chr6 I 6 I 3
+s ponAbe2.chr6 16360311 116 - 174210431 ----------GTCATGGCCCACCCACTT---TGGGACTGGATGGTGGATTTCGGATGTTTTGTGGCAGGCTGGCTTGCACCTGGC-AAAATATCTT----GGGT-CAGTCTAACAAGGGAGAACTGA---TCTCCT--GC
+i ponAbe2.chr6 I 6 I 3
+s rheMac2.chr4 108462607 116 + 167655696 ----------GTCATGGCCCACCCACAT---TGGGACTGGACGGTGGATTTAGGATGGTTTGTGGCAGGCTGGCTTGCACCTGGC-AAAATATCTT----CGGT-CAATCTAACAAGGGAGAACTGA---TCTCCT--GC
+q rheMac2.chr4 ----------999999999999999999---999999999999999999999999999999999999999999999999999999-9999999999----9999-9999999999999999999999---999999--99
+i rheMac2.chr4 I 6 I 3
+s calJac1.Contig1260 26683 115 - 523245 ----------GTCATGGCCCCCCCACAC---TGGGGCTGGACAATGGATTTAGGAT-TTCTGTGGCAGGCTGGCTTGCACCTGGC-AAAATATCTT----GGGT-CAGTCTCACAAGGGAGAGCTAA---TCTCCT--GC
+i calJac1.Contig1260 I 6 I 3
+s otoGar1.scaffold_334.1-359464 320512 118 - 359464 ----------GTTGGGGACCACCTGCGTCAGTAGGGGTGGACGGTGGATTTAGGGT-ATTTGTGGCAGTCTGGCTTGCACCTGGT-TACATATCTT----GGGC-CATTCTGACAAGGGAAAGCTGA---TCTCTT--GC
+q otoGar1.scaffold_334.1-359464 ----------9999999999999999999999999999999999999999999999-9999999999999999999999999999-9999999999----9999-9999999999999999999999---999999--99
+i otoGar1.scaffold_334.1-359464 I 119 I 198
+s tupBel1.scaffold_114895.1-498454 355535 113 - 498454 ----------GTCATGGCCCATCCACAC---TGGGGCTAGACAGCACA-ATAGGGTGTTTTATAGTAGGTAGGCTGGCACCTGGC-AAAAAACCTT-----GGT-CAGCCTGAC-AGAAGGACGTGA---TCTCCT--GC
+q tupBel1.scaffold_114895.1-498454 ----------645453537656585555---55886566555656565-667596585996555547463564553644555452-5999944356-----111-444435541-213442425454---464263--53
+i tupBel1.scaffold_114895.1-498454 I 6 I 10511
+s canFam2.chr1 78227785 121 - 125616256 ----GAGGGTATTGTGGCCCACCCACAT---TGGTCCTGAACATCGGATTCAGGATG-TTTATGGCAGGCTGGCTGGCACCTGGC-AAAATATCTT----GGGT-CAGCCTGACAAGAGAGAACTGA---TCTCTT--GC
+q canFam2.chr1 ----999999999999999999999999---99999999999999999999999999-999999999999999999999999999-9999999999----9999-9999999999999999999999---999999--99
+i canFam2.chr1 C 0 I 3
+s felCat3.scaffold_217398 88134 122 - 219823 ----GAGGGTATCATGGCCCACCCAGGC---TGGTGCTGAAGAGCAGATTCAGGATGTTTTATGGCAGCCTGGCCAGCACCTGGC-AAAATATCTT----GGGT-CAGCCTGATGAGAGAGAATTGA---TCTCTC--AC
+q felCat3.scaffold_217398 ----997997967799959553476797---799477699747466599799798799898999996476796374666575685-7999998679----9995-6777679797996565997673---656765--36
+i felCat3.scaffold_217398 C 0 I 3
+s equCab1.chr31 13020776 122 + 24938454 ----GAGGGTGTCATGGCCCACCCATGT---GGGTGCTGAACATTAGATGCAGGATGTTTTATTCCAGGCTGGCTGGCACCTGGC-AAAACATCTT----GGGT-TAGCCTGGCAAGGGAGAAATGA---TCTCTT--GC
+q equCab1.chr31 ----999999999999999999999999---999999999999999999999999999999999999999999999999999999-9999999999----9999-9999999999999999999999---999999--99
+i equCab1.chr31 C 0 I 3
+s bosTau3.chr9 13685662 117 - 95030419 ----GAGGTTGTGGTGGCTTA--TATGT---TGGTGCCCAACAA-GGATTCAGGATGTTTTATGGCAGACGGGCTGGCACCTGGC-AAAATATCTT----GGGT-CAGCCTGAC--GGGAAAACTGA---TCTCCT--GC
+q bosTau3.chr9 ----99999999999999999--99999---9999999999999-9999999999999999999999999999999999999999-9999999999----9999-999999999--99999999999---999999--99
+i bosTau3.chr9 C 0 I 3
+s dasNov1.scaffold_40472 7384 122 - 17534 -----AGGGTGTGAAGGCCCCCCCACGG---TGGGGCTGGAGAATGGATTCAGGGTGTTTTACGGCAGGTCGGCTGGCACCTGGC-AAAATGCCTT----GGGGTCAGCCTGAAAAGGGAGAACTGA---TCTCTT--GC
+q dasNov1.scaffold_40472 -----34999999889999999999999---999999993212226894699999999999999999999999999999999999-9999999999----999999999999999999999999999---999999--99
+i dasNov1.scaffold_40472 C 0 I 3
+s loxAfr1.scaffold_4233 40650 114 + 124190 -----AGGGTGT------CCGCCTGCAT---TGGGGCTGGACGGTGAATTCCAGGTGTTGTATGGCAGGCTGGCT-GCACCTGAC-AAAATATCGT----GGGG-CAGCCTGACAAGGGAAAACCGA---TCTGCT--GC
+q loxAfr1.scaffold_4233 -----9999999------9999999999---99999999999999999999999999999999999999999999-999999999-9999999999----9999-9999999999999999999999---999999--99
+i loxAfr1.scaffold_4233 C 0 I 3
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+
+a score=311171.000000
+s mm9.chr10 3159361 75 + 129993255 AAGAG-ATTGAGCC--TCATGCCAGTTCTGCCCA----AAATGTCCACTGA-------TTTG--------T---------------ATGCC--AGGTTA----TTATGTGAAAGGTGG
+s rn4.chr1 229976082 75 - 267910886 AAGAG-ATTGTGAC--TCACACCAGTTCTGCTCA----AAACGTCCAGTCA-------TTTG--------T---------------GTGCC--GGGCTC----TTATGTGAGAGGTGG
+q rn4.chr1 99999-99999999--999999999999999999----9999999999999-------9999--------9---------------99999--999999----999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 59976 87 - 139458 GAGAG-TTTATTACTGTGGCACCACTTCTGCTTA----AAACAAACAATGAATCTAT-TTTT--------T---------------ATGCC--AGGATCATATTAAAGTGAGAGATGG
+q oryCun1.scaffold_214769 99999-9999999999999999999999999999----1999999999999999999-9999--------9---------------97799--9899999999969996799999269
+i oryCun1.scaffold_214769 C 0 I 19175
+s cavPor2.scaffold_284118 51780 83 - 169015 GGGAG-TTTATTACCATCACACCAGTTCTGTATAAAACAAACACTTAGTCA-------TTTT--------T---------------ATGCCCAGAATCA----TAAAATGAGAGGTAG
+q cavPor2.scaffold_284118 99999-999999999957899997879999999699697798696552999-------9795--------7---------------9856957993997----959946899999977
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16054868 87 - 170899992 GAAAG-TTTATTACTGTGGCACCAGTTCTGCTTA----AAACAAACATTTAGTCTTC-TTTT--------A---------------AGGCC--AGGCTTATATTAAAGTGCGAGGTGG
+i hg18.chr6 I 3 C 0
+s panTro2.chr6 16578071 87 - 173908612 GAAAG-TTTATTACTGTGGCACCAGTTCTGCTTA----AAACAAACATTTAGTCTTC-TTTT--------A---------------AGGCC--AGGCTTATATTAAAGTGCGAGGTGG
+q panTro2.chr6 99999-9999999999999999999999999999----9999999999999999999-9999--------9---------------99999--9999999999999999999999999
+i panTro2.chr6 I 3 C 0
+s ponAbe2.chr6 16360430 88 - 174210431 GAAAGTTTTATTACTGCGGCACCAGTTCTGCTTA----AAACAAACATTTAGTCTTC-TTTT--------A---------------AGGCC--AGGCTTATATTAAAGTGGGAGGTGG
+i ponAbe2.chr6 I 3 C 0
+s rheMac2.chr4 108462726 88 + 167655696 GAAAG-TTTATTACTGTGGCACCAGTTCTGCTTA----AAACAAACATTTAGTCTTCTTTTT--------A---------------AGGCC--AGGATTATATTAAAGTGGGAGGTGG
+q rheMac2.chr4 99999-9999999999999999999999999999----999999999999999999999999--------9---------------99999--9999999999999999999999999
+i rheMac2.chr4 I 3 C 0
+s calJac1.Contig1260 26801 95 - 523245 GAAAG-TTTATTACTGTAGTACCAGTTCTGCTTA----AAACCAAGATTTCGTCTTT-TTTTTTTTTTTAA---------------ATGCC--AGGATTATATTAAAGTGAGAGGGGT
+i calJac1.Contig1260 I 3 C 0
+s canFam2.chr1 78227909 86 - 125616256 GAGAG-TTTATTACTGTGTCCCCAGTTCTGCTTC----AAACAAACATTTGGTCTTT-TTTT--------TTC-------------ATGTC--AAGA---TATTAAAGGAAAAGGTGG
+q canFam2.chr1 99999-9999999999999999999999999999----9999999999999999999-9999--------999-------------99999--9999---999999999999999999
+i canFam2.chr1 I 3 C 0
+s felCat3.scaffold_217398 88259 96 - 219823 GAGAC-TTTATTACTGTGTCACCTGTTCTGCTTC----AAACAAACATTTGGTCTTT-TTTT--------TTTTTTTTAA------ATGTC--AAGATCGTATTACAGTGGAAGATGG
+q felCat3.scaffold_217398 99564-4653652311231112589768787563----5665235424458844568-8686--------4746765334------56432--2336532624232669636836345
+i felCat3.scaffold_217398 I 3 C 0
+s equCab1.chr31 13020901 84 + 24938454 GAGAG-TTTATTCCCGTGGCACCAGTTCTGCTT--------CAAGCATTTAGTCTTG-TTTT--------TT--------------AAGGC--AGGATCGTGTTACAGTGAGAGGTGA
+q equCab1.chr31 99999-999999999999999999999999999--------9999999999999999-9999--------99--------------99999--9999999999999999999999999
+i equCab1.chr31 I 3 C 0
+s bosTau3.chr9 13685782 84 - 95030419 GAGAG-TTTATTACTGTGACACCAGCTTGGTTTT----AAGCACACAGTTGGTCTTT-TCTT--------------------------GCC--AGAATCATATTAAAGTGAGAGATGG
+q bosTau3.chr9 99999-9999999999999999999999999999----9999999999999999999-9999--------------------------999--9999999999999999999999999
+i bosTau3.chr9 I 3 C 0
+s dasNov1.scaffold_40472 7509 101 - 17534 GAGCG-TTAATAACTGCGGCAACAGTTCTGTTTA----AAACAAA-ATTTAGTCTTT-TTTT--------CCTTCTTTCTTTTTTAACGGC--AGGACCATATTAGAGTGAGGGGTAG
+q dasNov1.scaffold_40472 99999-9999999999999999999999999999----9999999-99999999999-9999--------999999999999999999999--9999999999999999999999999
+i dasNov1.scaffold_40472 I 3 C 0
+s loxAfr1.scaffold_4233 40767 84 + 124190 GAGAG-CTTATTCCTGCGGTGCCAGTTCTGCTTA----AAACAAACATTTAGTCTTT-TT--------------------------ATGTC--AGGATCCTATTAAGGTGGCAGGTGG
+q loxAfr1.scaffold_4233 99999-9999999999999999999999999999----9999999999999999999-99--------------------------99999--9999999999999997969999999
+i loxAfr1.scaffold_4233 I 3 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 320630 198 - 359464 I
+
+a score=164058.000000
+s mm9.chr10 3159436 67 + 129993255 CTTGA---GGGC---CATCCTTGAGATCT----------GCGTGGAGCATTG-GGAATGTAGGGAATTGTTCTCCC------CAAGACTG
+s rn4.chr1 229976157 68 - 267910886 CTTGA---GGGC---CTTCCTTGAGATCT----------GAGCCGAGCAATGAAGAACGCAGGGAATTGTTCTCCC------GAAGCCTG
+q rn4.chr1 99999---9999---99999999999999----------9999999999999999999999999999999999999------99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 51863 76 - 169015 CCTAGTATATAC---AACCCTTTGGATTT----TTGACAACATGGAGGA----AGAATGT--GGAACTTGTCTCTTTC-TTAAAAGCCTG
+q cavPor2.scaffold_284118 999498987679---96592793989999----9999993959868999----8999999--9998996786979799-99999979999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16054955 71 - 170899992 CCTGA--TAAAC---AATCTCTGAGATCC----CTTA-GGCATAGGG------AGAATGT--GGGACTTGTATCTTTC-TCCGAAGTTTG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16578158 71 - 173908612 CCTGA--TAAAC---AATCTCTGAGATCT----CTTA-GGCATAGGG------AGAATGT--GGGACTTGTATCTTTC-TCCGAACTTTG
+q panTro2.chr6 99999--99999---99999999999999----9999-999999999------9999999--9999999999999999-99999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16360518 71 - 174210431 CCTGA--TAAAC---AATCTTTGAGATCT----CTTA-GGCATGGGG------AGAATGT--GAGACTTGTATCTTTC-TCCAAAATTTG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108462814 71 + 167655696 CCTGA--TAAAC---AGTCTGTGAGATCT----CTTA-GGCACAGGG------AGAATGT--GGGACTTGTATCTTTC-TCCAAAGCTTG
+q rheMac2.chr4 99999--99999---99999999999999----9999-999999999------9999999--9999999999999999-99999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 26896 72 - 523245 CCTGA--GAAAC---AATCTTTGAGATCT----TCCATGGCATAGGG------AGAATGT--GGGACTTGTATCTTTC-TCCAAAGCTTG
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78227995 71 - 125616256 CCTGA--TACAC---AATCTTTGAGATCT----CCAA-GACGTAGGG------AGAATGC--AGAACTTGTGTCTTCT-TCCAAAGCTTG
+q canFam2.chr1 99999--99999---99999999999999----9999-999999999------9999999--9999999999999999-99999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 88355 72 - 219823 CTTGA--TATAC---AGTCTTTGAGATCT----CCAA-GGCACAGGG------AGAATGT--GGAACTTGTACCTTTTCTTCATAGCTTG
+q felCat3.scaffold_217398 32335--66446---75646675742216----2436-231222164------5332555--6344339642532222221221125243
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13020985 58 + 24938454 ------------------CTTTGAGATCT----CCTA-GACATAGGG------AGAATAT--GGGACTTGTCTCTTTC-TCCAAAGATTG
+q equCab1.chr31 ------------------99999999999----9999-999999999------9999999--9999999999999999-99999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13685866 69 - 95030419 CT-----GATAC---AGTCTTTAAGATCT----CTGACTTCATCGAG------AGAATGT--GGGACTTGACTCTTTC-CTCAAAGCGTG
+q bosTau3.chr9 99-----99999---99999999999999----99999999999999------9999999--9999999999999999-99999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_40472 7610 71 - 17534 CTTGA--GAGCTTTGAGGCTTTGAGATCT----CCAA-GAC--AGAA------AGACTGT--GGGATTTGTATTTTTC-TCCAAACCCC-
+q dasNov1.scaffold_40472 99999--9999999999999999998999----9999-999--9999------9999999--9999999999999999-9999999999-
+i dasNov1.scaffold_40472 C 0 I 10
+s loxAfr1.scaffold_4233 40851 73 + 124190 TGTGG--AACAC---AGTGTCTGAGATCTCTGGCTAA-GACCTAGGG------AGAATGT--GGG-CCTGGATCTTTC-TCCAAAGCTG-
+q loxAfr1.scaffold_4233 99999--99999---9999979799999996898969-585219496------6568464--996-973986999996-7777365267-
+i loxAfr1.scaffold_4233 C 0 I 44
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 320630 198 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=-32582.000000
+s mm9.chr10 3159503 45 + 129993255 CTTCATAC--------AACTCCTT---AAAGAGAGATTGCTCAAGggggttgggga
+s rn4.chr1 229976225 53 - 267910886 CTTTATACTTTTGCAAATCCTTCT---CAAAGGAGATTGCTCAAgggccttgggga
+q rn4.chr1 999999999999999999999999---99999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 51939 45 - 169015 TTTCATGATTTTTCAAAGTCTACTTAGTAGGAGAGGTTGATCAAG-----------
+q cavPor2.scaffold_284118 999977979999989999999999979979998889999999997-----------
+i cavPor2.scaffold_284118 C 0 I 11
+s hg18.chr6 16055026 7 - 170899992 TTTCATA-------------------------------------------------
+i hg18.chr6 C 0 I 44
+s panTro2.chr6 16578229 7 - 173908612 TTTCATA-------------------------------------------------
+q panTro2.chr6 9999999-------------------------------------------------
+i panTro2.chr6 C 0 I 44
+s ponAbe2.chr6 16360589 7 - 174210431 TTTCATA-------------------------------------------------
+i ponAbe2.chr6 C 0 I 43
+s rheMac2.chr4 108462885 7 + 167655696 TTTCATA-------------------------------------------------
+q rheMac2.chr4 9999999-------------------------------------------------
+i rheMac2.chr4 C 0 I 47
+s calJac1.Contig1260 26968 42 - 523245 TTTTACAACTTTACAAAGCCCATT---TAAGAGAAGTTGGTAAGG-----------
+i calJac1.Contig1260 C 0 I 25
+s canFam2.chr1 78228066 41 - 125616256 CATCATAATTTTGTAAAGCCTATT---TGAGAGAGATTGGTCAA------------
+q canFam2.chr1 999999999999999999999999---99999999999999999------------
+i canFam2.chr1 C 0 I 11
+s felCat3.scaffold_217398 88427 36 - 219823 CTTCTTAATTTGTCAAAGTCT-------------GATTAG----AGGGATTGG---
+q felCat3.scaffold_217398 546622313352113442146-------------845434----469795455---
+i felCat3.scaffold_217398 C 0 I 15
+s equCab1.chr31 13021043 41 + 24938454 CTTCATAATTTTGCCAAGCCTGTT---TAAGAGAGGGTGGTCAA------------
+q equCab1.chr31 999999999999999999999999---99999999999999999------------
+i equCab1.chr31 C 0 I 12
+s bosTau3.chr9 13685935 53 - 95030419 CTTCATAATTTTGCAGAGCTTATT---TAAGAGAAGTTGACCCAAGGGACAAGGGA
+q bosTau3.chr9 999999999999999999999999---99999999999999999999999999999
+i bosTau3.chr9 C 0 I 20
+s dasNov1.scaffold_40472 7691 32 - 17534 --------TTTTGCAAAGCCTCTT---TCAGAGAGATTGGTCA-------------
+q dasNov1.scaffold_40472 --------9999999999999999---9999999998999999-------------
+i dasNov1.scaffold_40472 I 10 I 7
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 40924 44 + 124190 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 320630 198 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=25688.000000
+s mm9.chr10 3159548 566 + 129993255 tggctcggtgatgacgtgcttgtctagcaggatttaagtctgat-ccagcacctacacacaatg---gcatggcagcagattcttgtaaa-acagcactagggagggagagacactggtatccctggggcctggtgtcaagtcagttgagcctgttggttagctccagattcagtgacaga--ctgtctcaaaaac-tcaggtggagaatggaaaggaagacacgtgacatcaaaatttgatctcatgtacacagacatggacatgtgcacacacaGatatacagacatacacacatagacacattcacagacatgcatatatacaggtacattcaattgcatgacatacacagacacacagacacatatacacaaagatacacacaa-acacagatatacaacaaacacatacagacacacatgtataca [...]
+s rn4.chr1 229976278 529 - 267910886 tggctcgatgatgaagtgcttgtctagcaggatttaagtctgatcccagcacccacacacaatgctagcatgtcagcaggttcttgtaaatccagcactagggaaggagagacactg-------------ctcctggcaagtcagtcaagcctgttggttagctccaggttcactgacagacgctgtctcaaaaagaaaaaatggagagtgaagaggaagacacctgacatcaaaatctgatctcatgtatatagacacggacacaTGTGcacacacacatatatacacgcacacacacatacagacacaca-----------aaagacacatt-----------tacacacagacacacatacatgcacacacatacatatatacaatagacacatatac-----acacagacacatatacacagataca [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------99999999999-----------99999999999999999999999999999999999999999999999999999999-----9999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13685988 20 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13021084 12 + 24938454 I
+e rheMac2.chr4 108462892 47 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 7723 7 - 17534 I
+e felCat3.scaffold_217398 88463 15 - 219823 I
+e canFam2.chr1 78228107 11 - 125616256 I
+e loxAfr1.scaffold_4233 40924 44 + 124190 I
+e calJac1.Contig1260 27010 25 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e cavPor2.scaffold_284118 51984 11 - 169015 I
+e otoGar1.scaffold_334.1-359464 320630 198 - 359464 I
+e hg18.chr6 16055033 44 - 170899992 I
+e panTro2.chr6 16578236 44 - 173908612 I
+e ponAbe2.chr6 16360596 43 - 174210431 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=132415.000000
+s mm9.chr10 3160114 35 + 129993255 GAGAGCAAGGTAACTCTTTT----------CTGTTTTGTTGC-----TGA
+s rn4.chr1 229976807 40 - 267910886 GGGAGCAAGGTACCCTTTTT----------CTGTTTCGTTGCTGAGATGA
+q rn4.chr1 99999999999999999999----------99999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78228118 35 - 125616256 ATGGGCAAGGTCACTTCTTT----------GAATTTCAAGGC-----TGA
+q canFam2.chr1 99999999999999999999----------999999999999-----999
+i canFam2.chr1 I 11 C 0
+s equCab1.chr31 13021096 34 + 24938454 -AGGGCAAGGTGACTTCTTT----------GAATTTTGACGC-----TGA
+q equCab1.chr31 -9999999999999999999----------999999999999-----999
+i equCab1.chr31 I 12 C 0
+s felCat3.scaffold_217398 88478 34 - 219823 -AGGGCAAGGTCACTTCTTT----------GAATTTCAATGC-----TGA
+q felCat3.scaffold_217398 -5564535436664652574----------473675572362-----246
+i felCat3.scaffold_217398 I 15 C 0
+s otoGar1.scaffold_334.1-359464 320828 34 - 359464 -AAGGCAAAGTAATTTCTTT----------GAATTTTGGTGC-----TGA
+q otoGar1.scaffold_334.1-359464 -9999999999999999998----------999999899999-----999
+i otoGar1.scaffold_334.1-359464 I 198 C 0
+s calJac1.Contig1260 27035 34 - 523245 -AGGGCAAGGTCACTTCTTT----------TAATTTTAATGC-----TGA
+i calJac1.Contig1260 I 25 C 0
+s rheMac2.chr4 108462939 31 + 167655696 ----GCAAGGTAACTTCTTT----------GGATTTTAGTGC-----CGA
+q rheMac2.chr4 ----9999999999999999----------999999999999-----999
+i rheMac2.chr4 I 47 C 0
+s hg18.chr6 16055077 34 - 170899992 -AGGGCAAGGTAACTTCTTT----------GAATTTTAGTGC-----CGA
+i hg18.chr6 I 44 C 0
+s panTro2.chr6 16578280 34 - 173908612 -AGGGCAAAGTAACTTCTTT----------GAATTTTAGTGC-----TGA
+q panTro2.chr6 -9999999999999999999----------999999999999-----999
+i panTro2.chr6 I 44 C 0
+s ponAbe2.chr6 16360639 34 - 174210431 -AGGGCAAGGTAACTTCTTT----------GAATTTTAGTGC-----CGA
+i ponAbe2.chr6 I 43 C 0
+s cavPor2.scaffold_284118 51995 49 - 169015 -AGGGCAAGGTAGCGCCTTTGCATTTGATACTGTGTTGGACCTACTATTG
+q cavPor2.scaffold_284118 -9899999998999799999999999999999989949999999999999
+i cavPor2.scaffold_284118 I 11 C 0
+s loxAfr1.scaffold_4233 40968 35 + 124190 GAGGGCAAGGTGATTTCTTT----------GACTTTCAGTGC-----TGA
+q loxAfr1.scaffold_4233 67597635753777999999----------875899538997-----999
+i loxAfr1.scaffold_4233 I 44 C 0
+s dasNov1.scaffold_40472 7730 23 - 17534 ------------ATTTGTTT----------GCATTTTATTGC-----TGA
+q dasNov1.scaffold_40472 ------------99999999----------999999999999-----999
+i dasNov1.scaffold_40472 I 7 C 0
+e bosTau3.chr9 13685988 20 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=1619999.000000
+s mm9.chr10 3160149 366 + 129993255 GAAGTGGGACC--AAGGA------------------TGGGAGC-AGGAAACAGGACT-----GAGCGTTATATCA-TCACTGTCG-GGGCTAA-GACATCG-TGGGAAGCATCTGATGAC--------------------AAA-TTGTTAAAACTGC-CT-GTGTACTTGAGTTTGC--CAAGCGCCAGCAGACCT-------GAACTTGACATTTCTGGCTACACCCTGACATGT-----AATGACAATTATCCCTAGAGTAGCAGTTGCTGTTGGAATGCTGTC---ATGACCTTGGTCCTTGTTGCTGAGACAGAG-A-GGCTCCATGCCTTCTCAGCTTTACAGTTTGCAAG-CCACCTGCTGTCG-TTCTTCTCCTTCCATGCTTTGGAGGTACACAGGATCT--GTGGCCTTGTTTCTTTT--CA [...]
+s rn4.chr1 229976847 354 - 267910886 GAAGGGAGACC--CAGGA------------------AAGGAGG-ACGAAACGGGACT-----AAACATTACATCA-TCACTGTCGTGGGCTGA-GACATCG-TGGGAAGCATCTGATGAC--------------------AAA-TCGTTAAAACTGT-CT-CTGTGCTTGAGTTTGC--CAAGCCCCAGCAGACCT-------GGACTTGACATTTCTGGCTACACCCTGGCGTGC-----AATGACAGTTGTCCCTAGAGTAGCAGTTGCTGTTGGAATGCTGTC---ATGACTTTGGTCCTTGTTGCTGAGAAAGAG-A-GATGGCATGCTTTCTTGGCTTTACAGGTTGCAAG-CTAACTGCTGTCG-TTCTTTTCCTTCCAAGGTATAGAGG---ACAGG------------CCGTTTCTTTT--CA [...]
+q rn4.chr1 99999999999--99999------------------9999999-9999999999999-----9999999999999-99999999999999999-9999999-999999999999999999--------------------999-9999999999999-99-9999999999999999--99999999999999999-------999999999999999999999999999999999-----999999999999999999999999999999999999999999999---999999999999999999999999999999-9-9999999999999999999999999999999999-9999999999999-9999999999999999999999999---99999------------99999999999--99 [...]
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52044 371 - 169015 ATAAGGAGACCTTTTGGA------------------AAGGA------AAGCATGGTTCTATAGGTCATTGTTCTA-TAACATTCACTGGCTGATGACATTG-CGGGGAGCAGTCAATGAC--------------------AAA-TTGCTAAAATAGT-CTCGTACATTTGAGCTTGC--CAAGCCCCAGCAGAACT-------CAACTTGACATTTTTGGCTACTCCCTGGGGTAT-----AGCAGCAATTGTCCA-GGAGCAACAATTGCCATTCCAATGCTGTCATTATGACCTC-ATACAAGTTGTTGAGACAAAG-G-GGAAG-ATGCCTTCTTGAGTTGACAGTTTGTGAGCCCACCTGCtgtcactttttcttctttc--tctgtagaTG---ACCAGACCCTAGTGGTTAGGGTGCCttc--aa [...]
+q cavPor2.scaffold_284118 999999999999995899------------------98789------9999999999999999999999999999-9999999999999999999999999-999999999999999999--------------------999-9999999999999-9999999999999999966--99998999999999999-------999999999999999999999999999999999-----999999999999999-9999999999999999999999999999999999999999-999999996999999999999-9-99999-99999999999999999999999999775997994999999669999999979999--9958999759---5996979999753978968783799887--99 [...]
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16360673 393 - 174210431 GAAGTAGGACA--C--AATTAATAAGGGAGAACCCTTTGGAAG-GGGTCATGGGGCA-----GATAATTGTTTTG-TTACAGTCATGGGCTGATGACGTCATTGGAAAGCACTTGATGAC--------------------AGA-TTGGTAGAACTGTACT-GTGCATTAGAGCTTGC--CA--CCCTAGCAAACCCACTGATGGGACTTGGTGTTT-TGGTTACTCCCTTTAGTGC-----CGTGGCAGTTGTCCCGGGAGTAGAAGATGTTCTTGGAATGCTGTCATTATTACCTTGGCTCATGTTATTTAGAAAAAG-A-GGAAG-ATGCCTTCTTGGCCTGATAATGTGACAG-CCACCTGCTGTCA-CTCATTTTCTTCAGTGCTCTGAAGGTG-ACCAGAACCTGGTCATCAGGTCTCCTTT--AA [...]
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16578314 395 - 173908612 GAAGTAGGACA--CAGAATTAATAAGGGGGAACTCTTTGGAAG-GAGTCACGGGGCA-----GATAATTGTTCTG-TTACATTCATGGGCTGATGATGTCATCGGAAAGCACTTGATGAC--------------------AGA-TTGGTAGAACTGTACT-GTGCATTAGAGCTTGC--CA--CCCCAGCAAACCCACTGATGGGACTTGGTGTTT-TGGTTACTCCCTGAAGTGC-----AGTGGCAGTTGTCCCGGGACTAGAAGATGTTCTTGGGATGCTGTCATTATTACCTTGGCTCACGTTATTTAGAAAAAG-A-GGAAG-ATGCCCTCTTGGCCTGATAATGTGACAG-CCACCTGCTGTCA-CTCATTTTTTTCAGTGCTCTGAAGGTG-ACCAGAACCTGGTCATCAGGTCTCCTTT--AA [...]
+q panTro2.chr6 99999999999--999999999999999999999999999999-9999999999999-----9999999999999-99999999999999999999999999999999999999999999--------------------999-9999999999999999-9999999999999999--99--999999999999999999999999999999999-9999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999-9-99999-9999999999999999999999999999-9999999999999-999999999999999999999999999-9999999999999999999999999999--99 [...]
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16055111 395 - 170899992 GAAGTAGGACA--CAGAATTAATAAGGGGGAACTCTTTGGAAG-GGGTCACGGGGCA-----GATAATTGTTCTG-TTACATTCATGGGCTGATGATGTCATTGGAAGGCACTTGATGAC--------------------AGA-TTGGTAGAACTGTACT-GTGCATTAGAGCTTGC--CA--CCCCAGCAAACCCACTGATGGGACTTGGTGTTT-TGGTTACTCCCTGAAGTAC-----AGTGGCAGTTGTCCCGGGAGTAGAAGATGTTCTTGGAATGCTGTCATTATTACCTTGGCTCACGTTATTTAGAAAAAG-A-GGAAG-ATGCCTTCTTGGCCTGATAATGTGACAG-CCACCTGCTGTCA-CTCATTTTTTTCAGTGCTCTGAAGATG-ACCAGAACCTGGTCATCAGGTCTCCTTT--AA [...]
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108462970 395 + 167655696 GAAGGAGGACA--CAGAATTAATAAGGGGGAATCTTTTGGAAG-GGGTCATGGGGCA-----GATCATTGTTCTG-TTACATTCATGGGCTGATGACATCATTGGAAAGTACTTGATGAC--------------------AGA-TTGGTAGAACTGTACT-GTGCATTAGAGCTGGC--CA--CCCCAGCAAACCCACTGACGGGACTTGGTGTTT-CAGTTACTCCCTGAAGTGC-----AGTGGCAGTTGTTCTGGGAGTAGAAGATGCTCTTGGAATGCTGTCATTATTACCTTGGCTCATGTTATTTAGAAAAAG-A-GGAAG-CCGCCTTCTTGGCCTGACAATGTGACAG-CCACCTGCTGTCA-GTCATTTTCTTCAGTGCTCTGAAGGTG-ACCAGAACCTGGTCATCAGGTCTCCTTT--AA [...]
+q rheMac2.chr4 99999999999--999999999999999999999999999999-9999999999999-----9999999999999-99999999999999999999999999999999999999999999--------------------999-9999999999999999-9999999999999999--99--999999999999999999999999999999999-9999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999-9-99999-9999999999999999999999999999-9999999999999-999999999999999999999999999-9999999999999999999999999999--99 [...]
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 27069 392 - 523245 GAAGTAGGACA--CAGAATTGATAAGGGGGAACGCTTTGGAAG-GGGTCATGAGGCA-----GATAATTGTTTTG-TTACATTCACCGGCTGATGACATCACTGGAAAGCACTTGATGAC--------------------TCA-CTGGTAGAACTGTACT-GTGCTTTTCAGCTTGT--CA--CCCCAGCAAAGCCACCGATGGGACTCGCTGTTT-TGGTTACTCCCTGAAGTGC-----GGTGGCTGTTGTCCCAGGAGTAGCAGATGCTCTTGGAATGCGGTCATGATTACCTTGGCACATATGATTTGGAAAAGG-A-GGAAG-ATGCCTTCTTGGCCTGACAGGGTGACAG-CTACCTGCTGTCA-CTCATTTTCTTCAGTGCTCTGAAGGTG-ACCAGAACCTGGTCATCAGGT---CTTT--AA [...]
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 320862 360 - 359464 GACGTGGGACC--CAGAA-----------------------------------GACA-----GATCCTTGTTTTG-TTACAGCCATGGGCTGATGACATCA-TGGGAAGCATTTGATGAC--------------------AAA-TTGCTAAAATTGTATT-GTACATTTGAACTTGCCACA--CCCCAGCAGACCTACTGGCTAGACTTGGCGTTT-TGGTTACTCCCTGAAATGC-----ACTAGCAATTGTCCCAGGAGCAGCAATTGCTGTTGGAATGCTGTCATCATGACCTCAGTGCATGTTGTTTAGACAGGC-AGGGAAG-GTGCCATCTTGGCTTGAGAATGTGCCAG-CCACCTGCTGTCA-TTCA---TCTCCAGCGCTCTGAAGGTG-CCCAGAACCTGGTCTCCAAGTCTTCTTT--AA [...]
+q otoGar1.scaffold_334.1-359464 99999999998--99999-----------------------------------9999-----9889999999999-9989776999999999999899999-999999999999999999--------------------999-9999999999999999-99999999999999999999--999999999999999999999999999999999-9999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999-9999999999999999999999999999-9999999999999-9999---99999999999999999999-9999999999999999999999999999--99 [...]
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78228153 391 - 125616256 GAAGTAGGATC--TAGAGTTGATAAG-GGGAACTCTTTGGAAG-GGGGATTAGGGTA-----GGTTATTGTTTTTGATACATTCATGGGTTGGTGACATCA-TGGGAAGCATTTGATGATA-------------------AAC-TTACCAAAATTGTATT-GTACTTTTGAGCTTGC--CAAACCCCAGCAGACCG-----------GGGGCCTTTGTGGCTGTTCCCCGAAGTAC-----AACAGCAACTGTCCCAGGAGCAGCAGTTGCTGCTGGAATGCTGTCGGTATGACCTCAGTACATGTTGTTTAGACAAAGAGGGGAAG-ATGCATTATTGGCTTGACAATTTGCCAG-CCACCTGCTGTCA-TTCTTTTTCTCTAGTGCTCTGAAAGCG-ACCAGAATCTGGTAGTTAGGTCTCTTTTTAAA [...]
+q canFam2.chr1 99999999999--9999999999999-9999999999999999-9999999999999-----999999999999999999999999999999999999999-9999999999999999999-------------------999-9999999999999999-9999999999999999--99999999999999999-----------99999999999999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999-9999999999999-999999999999999999999999999-99999999999999999999999999999999 [...]
+i canFam2.chr1 C 0 I 210
+s equCab1.chr31 13021130 402 + 24938454 GAAGTGGGACC--CAGAATTGATAAG-GGGAACCCTTTGGAAG-GAGAAATGGGGCA-----GGTCATTATTGTG-ATATGTTCATGGGCTGCTGA---CA-TGAGAAGC-TTTGATGACAACTTGCTAAAATTGATGACAAT-TTGCTAAAATTGCGTT-GTAGATTCGAGCTTGC--CAAACCCCAAGAGACCA-----------TGGGCATTTGTGGCGGTTCCCTGAAGTGCTCCCTGAAAGCAATTGTCCCTGAAGCAGCAAGTGCTGTTGGAATGTTGTCATTGTGACATCATTACATGTTGTGTAGACAAAG-GGGGAAG-ATGC-TTATTGGCTCCACAATTTGCCAG-CCACCTGCTGTCA-TTCTTTTTCTTCAGTGCTCTGAAAGTG-ACCAGAATCTGGTA----GGTCTCTTTT--AA [...]
+q equCab1.chr31 99999999999--9999999999999-9999999999999999-9999999999999-----9999999999999-99999999999999999999---99-99999999-99999999999999999999999999999999-9999999999999999-9999999999999999--99999999990999999-----------9999999999999999999999999999999999999999999999999999999999909999999999999999999999999999999099999999999999999999-9999999-9999-99999999999999999999999-9999999999999-999999999999999999999999999-99999999999999----9999999999--99 [...]
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 88512 380 - 219823 GAAGTAGGACT--CAGAATTGATGAG-GGGAACCCTTTGGAAG-GGAGATAGAGGTA-----GGTCATTGTTTTC-ATGCTGTCATGAGTTGCTGACACCA-TGGGAAGCAATTGATGATA-------------------AAC-TCACTAAAATTGTGCT-GTACATTTGAGCTTGC--TGAACCCCAACAGACCA-----------TGGGCCTTTGTGGCCACTCCCCGAAGTGC-----AATAGCAACTGTCCCGGGAGCAGCAGTCGCTGCTGGAATGCTGTCTTTATGACCTCAGTACATGTTGTTTAGACAAAG-GCGGAAG-ATGCCTTATTGGCTTGACAATTTGCCAG-CCACCTGCTGTCA-TTCTTTTTCTTTAGTGCTCTGAAAATG-ACCAGAACCTGGTAGTCCGGTCTCTT----aa [...]
+q felCat3.scaffold_217398 66654354628--4558261455666-9967568458211325-7665455655466-----7566654659967-6595555954666668556586996-6696966886446868697-------------------985-7896769986777997-9758789499999999--99999999999999999-----------99999999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999-9999999999999999999999999999-9999999999999-999999999999999999999999999-99999999999999999999999999----99 [...]
+i felCat3.scaffold_217398 C 0 I 23
+s bosTau3.chr9 13686008 371 - 95030419 GAACTGGGACC--CAGAAATGATGAGAGGGAAACCTTTGGAAG-GGGAAATGGGACC-----AGTCATTGTTATG-ATACATTCATGGGCTGCTGACATCA-TGGGAAGCAGTTGATGAC--------------------CTC-TTGCTAAAAT-----T-GTTCATTTGAGCTTGC--CAAACCCAAACAGACTG-----------TGGGCATTTGTGGCCGTTCCCCAAAGTAC-----AGCAGCAATTGTCCCAGGA---------GCTGTTGGAATGCTGTCATTATGACCTCTGTGCATGTTGTTTAGACAAAG-GGGGAAG-ATGCCTGCTCGGCTTGACAATTTGCCAG-CCACCTGCTGTCA-TTCTTTTTCTTCAGTGCTTTGAAAGTG-ACCAGAACATGGTCATCAGGCCTCTTGT--AA [...]
+q bosTau3.chr9 99999999999--999999999999999999999999999999-9999999999999-----9999999999999-9999999999999999999999999-999999999999999999--------------------999-9999999999-----9-9999999999999999--99999999999999999-----------99999999999999999999999999999-----9999999999999999999---------99999999999999999999999999999999999999999999999999-9999999-9999999999999999999999999999-9999999999999-999999999999999999999999999-9999999999999999999999999999--99 [...]
+i bosTau3.chr9 I 20 C 0
+s loxAfr1.scaffold_4233 41003 393 + 124190 GAAGTGGGACT--CAGAATTGATGAGAGGGAATCCTTTGGCAGCGGGAAATGGAACG-----GGTCATTGTTGTG-AGACAGTCATCGCCTGGTGACATCA-TGGAAAGCAGCTGATGAC--------------------AAATTTGTTAAAATT------GTACATTTGAGCTTGC--CAAACCCCAGCAGACCAATGAGCCGGACTCGGCATTTGGGGCTGCTCCCCGCAGCTC-----GACAGCTATTGTCCAAGGAGCAGCAGTTGCTGCTGGAATGCTGTCATTATGACCTCAGTGCCTGTGGTTTAGACAAAA-G-GGAAG-ATGCCTTATCCGCTTGAACACATGCCAG-CTACCTGCTGTCG-TTCCTATGCTTCAGTGCTCTGAAGGTG-GCCAGA-CCTGGGCGTCAGGTCGTCTTT--AA [...]
+q loxAfr1.scaffold_4233 77979999691--64477637645699999979999999999999999999976736-----7777873799999-9999999877769999999999999-999999999999999999--------------------999999999999999------9978799999999999--999999999999999999999999999999999999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999-9-99999-9999999999999999999999999999-9999999999999-999999999999999999999999999-999999-999999999999999999999--99 [...]
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_40472 7753 391 - 17534 GAAATGGGACT--CAAAATTAGGAGGGGAGAAACCTTTGGAAG-GGGACATGGGGCA-----GGTCATTGTTTTG-ATACCTTCAGTGGCTGATGACGTCA-TGGAAAGCATTTGATGAC--------------------AAA-TGGCTACATTTGTGTG-GTACCTTTGAGCTTGC--CAAACCCCAGCAGACCATCGGGCTGGCCTGGGCCTGTGTGGCTACTCCCCGCTGAGC-----GGTGGCAATTGTCC-AGGAGCAGCAGTTGCTGCTGGAATGCTGTCCCGGTGACCTCA---CCCGTGCTGT-GTGGAAG-G-GGAAG-GCGCCTTGCTCGCCTGAAAATTTG-CAG-CCACCTGCTGTCA-TTCTTTTCCCTCTGAGC-CCGAAGGTG-ACGGGACCCTGGAAGTCAGGTCTCCTTTG-AA [...]
+q dasNov1.scaffold_40472 99999999999--999999999999999999999999999999-9999999999999-----9999999999999-9999999989999999989999998-999999999999998999--------------------599-9999999799999999-9788899999899999--969999997999799979999999999999999989999999979999999999979-----99999999999998-599999999999999999999999999999999999999999---9999999999-9999999-9-99999-999999999999999999999999-999-9999999999999-99999999999999999-999999999-99999999999999999999999999999-99 [...]
+i dasNov1.scaffold_40472 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=24981.000000
+s mm9.chr10 3160515 41 + 129993255 CAGACATGCATAAAACCATGGTGTAAGG-----------------GTGATGCCATT----------------------------------AT
+s rn4.chr1 229977201 75 - 267910886 CAGACACGCATAGACCCATGGTGTAAGG-----------------ATGATGCCATTACAAATATGATGTCATCACAAATATGACACCATCAC
+q rn4.chr1 9999999999999999999999999999-----------------99999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52415 14 - 169015 caTTTATGCACA------------------------------------------------------------------------------GT
+q cavPor2.scaffold_284118 999999459696------------------------------------------------------------------------------89
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16361066 28 - 174210431 CAGACATGCACAAAATCATACAGCATAA----------------------------------------------------------------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16578709 28 - 173908612 CAGACATGCATAAAATCATACAGCATAA----------------------------------------------------------------
+q panTro2.chr6 9999999999999999999999999999----------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16055506 28 - 170899992 CAGACATGCATAAAATCATACAGCATAA----------------------------------------------------------------
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108463365 28 + 167655696 CAGACATGCATAGAATCATACAGCATAA----------------------------------------------------------------
+q rheMac2.chr4 9999999999999999999999999999----------------------------------------------------------------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 27461 45 - 523245 CAGACATGCATAAAATCATACAGCATAAAAGGATGATGTAATTAT-----------------------------------------------
+i calJac1.Contig1260 C 0 I 346
+s otoGar1.scaffold_334.1-359464 321222 15 - 359464 CAGACGTGCATAAAA-----------------------------------------------------------------------------
+q otoGar1.scaffold_334.1-359464 999999999999999-----------------------------------------------------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 I 39
+s canFam2.chr1 78228754 28 - 125616256 TAAGCATGCATAAAATTGTAAAATCTAA----------------------------------------------------------------
+q canFam2.chr1 9999999999999999999999999999----------------------------------------------------------------
+i canFam2.chr1 I 210 C 0
+s felCat3.scaffold_217398 88915 28 - 219823 TACGAATGCATAAATTCATAAACTCTAA----------------------------------------------------------------
+q felCat3.scaffold_217398 9999999999999999999999999999----------------------------------------------------------------
+i felCat3.scaffold_217398 I 23 C 0
+s equCab1.chr31 13021532 28 + 24938454 CAAGCATGCATAAAATCATAAAATCTGA----------------------------------------------------------------
+q equCab1.chr31 9999999999999999999999999999----------------------------------------------------------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13686379 28 - 95030419 TGGGCATGCGTAAAATCACAAAGTCCAA----------------------------------------------------------------
+q bosTau3.chr9 9999999999999999999999999999----------------------------------------------------------------
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 41396 28 + 124190 CAGACATGCCCCAAACCATATGATACAA----------------------------------------------------------------
+q loxAfr1.scaffold_4233 9999999999999999999999999999----------------------------------------------------------------
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_40472 8144 27 - 17534 CAGACAGG-CACAGGCCATAGAATAGAG----------------------------------------------------------------
+q dasNov1.scaffold_40472 99999999-9999999999999999999----------------------------------------------------------------
+i dasNov1.scaffold_40472 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=59510.000000
+s mm9.chr10 3160556 70 + 129993255 AAAGATGATGTCATTATGAAGATGATGTCATTATG--------------AAGATTTGGTAAC-CATGCCTAGTGTCCTGACTTTC-----
+s rn4.chr1 229977276 84 - 267910886 AAAGATGATGTCATTACAAAGATGATGTCATTGTGAAAATGATACCATAAAGATGTGATAGC-CATGCCCAGTGTCCTGACTCTC-----
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999-9999999999999999999999-----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52429 59 - 169015 AAAG---------------GGATGTTATAGTTATGGAA-----------GAGACTTGGAAATATGTGCCTAAGTTCATAACTCTT-----
+q cavPor2.scaffold_284118 9967---------------9893698996699936994-----------557999279999993748999969999899999964-----
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108463393 52 + 167655696 -----------------AAAGATGATGTCATTCTCAGG-----------GAGACAGGGCAGCATGTCCCTATTTTCCTCA----------
+q rheMac2.chr4 -----------------999999999999999999999-----------9999999999999999999999999999999----------
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16055534 52 - 170899992 -----------------AAGGATGATGTCATTCTCAGG-----------GAGACAGGGCAGCATGTGCCTGTGTTCCTCA----------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16578737 52 - 173908612 -----------------AAGGATGATGTCATTCTCAGG-----------GAGACAGGGCAGCATGTGCCTGTGTTCCTCA----------
+q panTro2.chr6 -----------------999999999999999999999-----------9999999999999999999999999999999----------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16361094 52 - 174210431 -----------------AAGGATGATGTCATTCTCAGG-----------GAGACAGGGCAGCATGTGCCTGTTTTCCTCA----------
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78228782 51 - 125616256 -----------------GATGATGATAGAATTATGAAT-----------GACACAT-GCAATATATTCCTATTTTCCTCA----------
+q canFam2.chr1 -----------------999999999999999999999-----------9999999-99999999999999999999999----------
+i canFam2.chr1 C 0 I 5
+s felCat3.scaffold_217398 88943 52 - 219823 -----------------AAAGATGATGCAATCATAAAG-----------GGCACATGGCAATATGTGCCTATTTTCCTAG----------
+q felCat3.scaffold_217398 -----------------999999999999999999999-----------9999999999999999999999999999999----------
+i felCat3.scaffold_217398 C 0 I 5
+s equCab1.chr31 13021560 52 + 24938454 -----------------AAAGATGATGTAATTCTGAAG-----------GGCATAAGGCAGTACGTGGCGATATTCCTAA----------
+q equCab1.chr31 -----------------999999999999999999999-----------9999999999999999999999999999999----------
+i equCab1.chr31 C 0 I 2
+s bosTau3.chr9 13686407 51 - 95030419 -----------------GACGCTGATGC-ATTACAGAG-----------GACACATGGCAATGGGTGCCTATTTTCCTCA----------
+q bosTau3.chr9 -----------------99999999999-999999999-----------9999999999999999999999999999999----------
+i bosTau3.chr9 C 0 I 2
+s loxAfr1.scaffold_4233 41424 56 + 124190 ------------------AAAATGATGTAACCACGAAG-----------GAGACAGGCCACTATGTGTCTGCTCTCCTGA-----TTGCC
+q loxAfr1.scaffold_4233 ------------------99999999999999999999-----------9999999999999999999999999999999-----99999
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_40472 8171 51 - 17534 ------------------AACTAGACGT-----TTACG-----------GAGACAAGGCCATCCGCCTTTGGATGCCTAA-----CCTAC
+q dasNov1.scaffold_40472 ------------------9999999999-----99999-----------9999999999999999999999999999999-----99999
+i dasNov1.scaffold_40472 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e calJac1.Contig1260 27506 346 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321237 39 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=165010.000000
+s mm9.chr10 3160626 101 + 129993255 T-------CTGCTCTTATAGGCA-CAGGCTTCTCCTATTTCA-CAATG-CAGTTGGTTCCATAAAGAGGGAAATTCCTCAAGGAAGAAA------GA---CTT----GTTTTTCTTCTTCCTTG
+s rn4.chr1 229977360 85 - 267910886 T-------CTGCTCT--------------------TATTTCA-CAATG-CAGTTAATTCCATAGGGAGGGAAATTCCTCAAGGAAGAAA------GACTTCTT----GTTTTTCTTCTTCCTTG
+q rn4.chr1 9-------9999999--------------------9999999-99999-9999999999999999999999999999999999999999------99999999----99999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52488 75 - 169015 GAAGTAAACTGGTCTGTTA----------------CATTTTA-CATTGCCACTTGCTACCACAAACA--GAAATTGTTGAAGAGAGATA------GA---CTT---------------------
+q cavPor2.scaffold_284118 7978999994999959999----------------9999999-999799999959999999999996--99999399399799979997------99---999---------------------
+i cavPor2.scaffold_284118 C 0 I 28
+s ponAbe2.chr6 16361146 86 - 174210431 -------TCTACTCTTGAAGGCATCAGGTCTCTTATATTTCA-CACTGCCAGTTGCTACCTAAAAGAGGGAACTTCTCGAGGAGAGATG------GA---CTT---------------------
+i ponAbe2.chr6 C 0 I 424
+s panTro2.chr6 16578789 86 - 173908612 -------TCTACTCTTGAAGGCATCAGGTCTCTTCTATTTCA-CACGGCCAGTTGCTACCTAAAAGAGGGAACTTCTCGAGGAGAGATG------GA---CTT---------------------
+q panTro2.chr6 -------99999999999999999999999999999999999-9999999999999999999999999999999999999999990999------99---999---------------------
+i panTro2.chr6 C 0 I 361
+s hg18.chr6 16055586 86 - 170899992 -------TCTACTCTTGAAGGCATCAGGTCTCTTCTATTTCA-CACTGCCAGTTGCTACCTAAAAGAGGGAACTTCTCGAGGAGAGATG------GA---CTT---------------------
+i hg18.chr6 C 0 I 625
+s rheMac2.chr4 108463445 97 + 167655696 -------TCTACTCTTGAAGGCATCAGGTCTCTGATATTTCA-CACTGCCAGTTGCTACCTAAAAGAGGGAACTTCTTGAGGAGAGATG------GA---CAT----GATTTCATGCT------
+q rheMac2.chr4 -------99999999999999999999999999999999999-9999999999999999999999999999999999999999999999------99---999----99999999999------
+i rheMac2.chr4 C 0 I 350
+s calJac1.Contig1260 27852 85 - 523245 -------TCTACTCTTGAAGGCATCAGGTCTCTTATCTTTCA-C-TTGCCAGTTGCTACCTAAAAGAGGGAAATTCTTGAGGAGAGATG------GA---CTT---------------------
+i calJac1.Contig1260 I 346 I 807
+s canFam2.chr1 78228838 92 - 125616256 -------TCTATTCTTGAGTGCACTAGGTCTTTTGTATTTTACCATTGTTAGTTGCTGCCTTAAGGAGGGAAATTCTTGAGGAGAGATA------GG---CTT----------------TCTTG
+q canFam2.chr1 -------9999999999999999999999999999999999999999999999999999999999999999999999999999999999------99---999----------------99999
+i canFam2.chr1 I 5 C 0
+s felCat3.scaffold_217398 89000 88 - 219823 -------TCTGTTCTTGAAGGCACCAGGTCTTGTATATTTTACTGTCGT---TTGCTGACTTAAAGAGGGAAATTCTTAAGGAGAGATG------GA---CTTTCTT-----------------
+q felCat3.scaffold_217398 -------999999999999999999999999999999999999999999---9999999999999999999999999999999999999------99---9999999-----------------
+i felCat3.scaffold_217398 I 5 I 1
+s equCab1.chr31 13021614 84 + 24938454 -------TCTACTCTTGAAGGCATCAGCTCGCCTGTATTTCACTCCCAT---TTGCTGCTTCAAAGAGAGAAATTCTAGAGGAGAGATG------GA---CTT---------------------
+q equCab1.chr31 -------999999999999999999999999999999999999999999---9999999999999999999999999999999999999------99---999---------------------
+i equCab1.chr31 I 2 I 9
+s bosTau3.chr9 13686460 84 - 95030419 -------TGTTTTCTTGACGGCATCAG-TCTCTCATATTTCA-TGTGGCCAGTTGCTGCCTTAAAG-GGAACATTCTAGAAGAGAGGTG------GA---CTT---------------------
+q bosTau3.chr9 -------99999999999999999999-99999999999999-99999999999999999999999-9999999999999999999999------99---999---------------------
+i bosTau3.chr9 I 2 I 10
+s loxAfr1.scaffold_4233 41480 73 + 124190 ----------TCCATTGGGTGC--------TCTTCTCTTTGA-TATCCCCAGTTGTTACCCTAAAGAGGG---CCACTGAGGAGAGATGTCTTTT-----------------------------
+q loxAfr1.scaffold_4233 ----------999999999999--------999999999999-999999999999999999999999999---9999999999999999999999-----------------------------
+i loxAfr1.scaffold_4233 C 0 I 3134
+s dasNov1.scaffold_40472 8222 60 - 17534 ----------CCTTTTGAAGGCATCAGGTTTCTTATGTTGGA-CTTTGCCAGTTGCTACCTTAAAAAGGGA-----------------------------------------------------
+q dasNov1.scaffold_40472 ----------99999999999999999999999999999999-9999999999999999999999999999-----------------------------------------------------
+i dasNov1.scaffold_40472 C 0 I 987
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321237 39 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=34562.000000
+s mm9.chr10 3160727 609 + 129993255 AATAGTGTTCCCCCACAGGatatatatcatgtattcccttccctcagctcctcccagatcctccat--ctctccacccacccaatatcctgttctcaaatcaaaagaaaacaaacaaacaaaaacaaaaacaaaat---aaaaaatgatcaaacaaaacaaaaagaaacaaaaagcccacccaaaccaaaccaaaccgaaccaaaccaaaccaaatgggtagcctgtttggtgttggccaactccttgtaggcatg-ggcctgcctggagcgtggttggtaagtcagtgatgctctactgggtttccctttcccagcagataataatttggaatagcttcctggtgaagggtgggagctggtgtccaccttcccctctcagagctgggatttgctctggtttgaactcatacaggtcttgtttgtgctgcc [...]
+s rn4.chr1 229977445 550 - 267910886 AATATTGTTCCCCCACATGATATATATCATGTTTTCCCCTCCCTCAACTCCTTCCAGATCCTCTCTTCCTCTCAACCTACTCAACTTCCTGTTCTCaaaccaaaagaaaacaaaccaacaaaaacaaaaacaaaTTGGCaaaaagtgtccaaaccaaagaaaaggaaacaaa--------------------------aatcaaaccaaacaaaacatggagtctgtttggtgttgcctaactcctcctaggtatgaggcctgcctggagtgtgataag-----cagtgacactccgctaggtttccctttctcagcagataacaatttggaagagcttcctggtgaagggtgggagctggtgtccattttcccttctcagggctgggatttgctctggtttgagctcatgcaggtcttgtttgtgctgcc [...]
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13686544 10 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13021698 9 + 24938454 I
+e rheMac2.chr4 108463542 350 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e felCat3.scaffold_217398 89088 1 - 219823 I
+e canFam2.chr1 78228930 0 - 125616256 C
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e cavPor2.scaffold_284118 52563 28 - 169015 I
+e otoGar1.scaffold_334.1-359464 321237 39 - 359464 I
+e hg18.chr6 16055672 625 - 170899992 I
+e panTro2.chr6 16578875 361 - 173908612 I
+e ponAbe2.chr6 16361232 424 - 174210431 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=8710.000000
+s mm9.chr10 3161336 38 + 129993255 AGACTTGTGATG--TTACCTGGATATTTTACTAG-----ACCTGT
+s rn4.chr1 229977995 39 - 267910886 AGACTTGTGATGCATTGCCTGGATATTTTA-TAG-----ACTTGT
+q rn4.chr1 999999999999999999999999999999-999-----999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52591 33 - 169015 AGAACTATTATA--TCAC----ATATTTAA-TTG-----GAATAT
+q cavPor2.scaffold_284118 699999999999--9999----99999999-949-----999999
+i cavPor2.scaffold_284118 I 28 C 0
+s bosTau3.chr9 13686554 31 - 95030419 -------------GTTACTTAGATCTTTTA-CTGGAATTAGCTAT
+q bosTau3.chr9 -------------99999999999999999-99999999999999
+i bosTau3.chr9 I 10 C 0
+s equCab1.chr31 13021707 31 + 24938454 -------------GTCACTTAGATCTTTTA-TAGGAACTAACTGT
+q equCab1.chr31 -------------99999999999999999-99999999999999
+i equCab1.chr31 I 9 C 0
+s felCat3.scaffold_217398 89089 27 - 219823 -------------GTCACTTGGATCTTTTA-TAGG----AACCGT
+q felCat3.scaffold_217398 -------------99999999999999999-9999----999999
+i felCat3.scaffold_217398 I 1 C 0
+s canFam2.chr1 78228930 27 - 125616256 -------------GTCACTTAGATCTTTTA-TAGA----AACTGT
+q canFam2.chr1 -------------99999999999999999-9999----999999
+i canFam2.chr1 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e rheMac2.chr4 108463542 350 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321237 39 - 359464 I
+e hg18.chr6 16055672 625 - 170899992 I
+e panTro2.chr6 16578875 361 - 173908612 I
+e ponAbe2.chr6 16361232 424 - 174210431 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=-9030.000000
+s mm9.chr10 3161374 48 + 129993255 TGCTGTCAAGTGAGTTCAAGAA-T----------TCTTCAGAGTTCTTGGCTATGT------------GAC
+s rn4.chr1 229978034 48 - 267910886 TGCCATCAAGTGAGTTCAAGAA-T----------TCCTCAGAGCTCTTGCCCATGT------------GAT
+q rn4.chr1 9999999999999999999999-9----------9999999999999999999999------------999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52624 62 - 169015 TGCTATCAAATAATCACTGGAA-G--------CACCTTCAAAGTTCTTCAAGATATGGGATCATTGTGGgt
+q cavPor2.scaffold_284118 6999999999999999959999-9--------999999999999999999999995799999996967999
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108463892 43 + 167655696 TGCTATTAAGTAAAT-------------------TTCTGAAAG---------ATATGGGATCACGCCTGGC
+q rheMac2.chr4 999999999999999-------------------999999999---------9999999999999999999
+i rheMac2.chr4 I 350 C 0
+s ponAbe2.chr6 16361656 43 - 174210431 CACTATCAAATAAAT-------------------TTCTTAAAG---------ATATGGGATCACGCCTGGC
+i ponAbe2.chr6 I 424 C 0
+s panTro2.chr6 16579236 43 - 173908612 TGCTATCAAATAAAT-------------------TTCTTAAAG---------ATATGGGATCATGCCTGGC
+q panTro2.chr6 999999999999999-------------------999999999---------9999999999999999999
+i panTro2.chr6 I 361 C 0
+s hg18.chr6 16056297 43 - 170899992 TGCTATCAAATAAAT-------------------TTCTTAAAG---------ATATGGGATCATGCCTGGC
+i hg18.chr6 I 625 C 0
+s canFam2.chr1 78228957 19 - 125616256 ---TATCAAATAAGTAATAGAA-------------------------------------------------
+q canFam2.chr1 ---9999999999999999999-------------------------------------------------
+i canFam2.chr1 C 0 I 26
+s felCat3.scaffold_217398 89116 31 - 219823 ---TATCAAATAAGCAGTAGAA-G---------------GAAG---------AGGTGAG------------
+q felCat3.scaffold_217398 ---9999999999999999999-9---------------9999---------9999999------------
+i felCat3.scaffold_217398 C 0 I 14
+s equCab1.chr31 13021738 46 + 24938454 ---TATCACATAAGCAGAGAAA-GACCTTCACATTTCTTGAAG---------ATGTGGG------------
+q equCab1.chr31 ---9999999999999999999-99999999999999999999---------9999999------------
+i equCab1.chr31 C 0 I 14
+s bosTau3.chr9 13686585 47 - 95030419 ---TATCAAATAAGCACTGCAGTGACCTTCACATTTCTTGACC---------ATGTGGG------------
+q bosTau3.chr9 ---9999999999999999999999999999999999999999---------9999999------------
+i bosTau3.chr9 C 0 I 14
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321237 39 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=342747.000000
+s mm9.chr10 3161422 211 + 129993255 TTATAAACTGTTTATAGTCACTGACAATGATGGCTCCATACAGAGTTGACTGTTTTC----TGGCCTTCAAGGAAAT---GGG-CTTGTGGGA-AAGAAAGACGTTAGG--AAGATCATGGTGTGT-------GGTGTGTAA---------CTATAGGTCAGTGATGTTAA--CTCTGACAC---------------------------TGGGCAGGGCACGTGATTTCGTCTAAAGATTTCTTCAGT-GA-TTCATCTTAAGGGATGA
+s rn4.chr1 229978082 185 - 267910886 TTATAATCTGGTTCTAATCACTGACAATGGTGGCCCGACACGGAGTTGACTG-TTTC----TGGCCTTCAAGGAAAC---AGG-CTTGTGGGA-GAGAAAGATGTTAGG--AAGAACATGGTGTAT--------GTGTGTTA---------TCATAGCTCAG------GAA--CTCTGACAC---------------------------TGGACAGGGCATGTGCTTCCA--------------CAGT-GA-TTTCCTCTAAAGA----
+q rn4.chr1 9999999999999999999999999999999999999999999999999999-9999----9999999999999999---999-999999999-999999999999999--999999999999999--------99999999---------99999999999------999--999999999---------------------------999999999999999999999--------------9999-99-9999999999999----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52686 220 - 169015 ttaaaagaaattctgcttcaCTAGATGTAGTAGCACG-TACACAGTTAATTA-TTTTAATGTGGCTTTCAAGGAAACCCAGGG-TTTGTGAAA-AATAAGG-----AGG--ATGAGAACAGTGTATCTTCTGTTGCATGTAAATC---TGTTTAAGGTTTAGCAGAATTACTTCTTTGACAT-----------------GCTCAAACTATGGTTAAGAGGGGTTCTTCAG-------------ACACTAGA-TTTACATTCTGCA----
+q cavPor2.scaffold_284118 9999969999999799999999999499999799979-99999999999999-999999999999999999999999999999-999969999-9999999-----999--8799999999799999999999999969999999---8999999999999999999999999999999998-----------------9999999999699999999999999999999-------------99999999-9999999999999----
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108463935 230 + 167655696 TTTAAAAGAAATCGTAATTGCGAGACATGGTGGCACA-TGCTCAGTGAACTG-TTTTAATCTAGGTTTCAAAGAAAC-TGGGC-TTTATGGGATCATAAGG-----AGGTCAGGAACATGGTATATCTTCTGTTGGATGTAAAATTGATGTTTATAGTTCAGTAGTGCCA---CTTTGACAGTGGGCACCCAGGGACATGCTCACACGTTGGTTAACAAAGGCTCTTCAG-------------ACACTAGA-TTTA-------------
+q rheMac2.chr4 9999999999999999999999999999999999999-99999999999999-999999999999999999999999-99999-99999999999999999-----9999999999999999999999999999999999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999-------------99999999-9999-------------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16361699 233 - 174210431 TTTAAAAGAAATCGTAATTGCGAGATATGGTGGCACA-TGCTCGGTGAACTG-TTTTAATCTGGCTTTCAAGGAAAC-TGGGC-TTTATGGGATTATAAGG-----AGGTCAAGAACGTGGTATATCTTCTGTTGGATGTAAAATTGATGTTTATAGTTCAGTAGTGTGACTTCTTTGACAGTGGACAACCAGGGACATGCTCCCATGATGGTTAATAAAGGCTCTTCAG-------------ACACTAGA-TTTA-------------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16579279 233 - 173908612 TTTAAAAGAAATAGTAATTGCGAGATATGGTGGCACA-TGCTCAGTGAACTG-TTTTAATCTGGCTTTCAAGGAAAC-TGGGC-TTTATGGGATTATAAGG-----AGGTCAAGAACGTGGTATATCTTCTGTTGGATGTAAAATTGATGTTTATAGTTCAGTAGTGTCACTTCTTTGATAGTGGGCAACCAGGGACATGCTCACATGATGGTTAATAAAGGCTCTTCAG-------------ACACTAGA-TTTA-------------
+q panTro2.chr6 9999999999999999999999999999999999999-99999999999999-999999999999999999999999-99999-99999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------99999999-9999-------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16056340 233 - 170899992 TTTAAAAGAAATAGTAATTGCGAGATATGGTGGCACA-TGCTCAGTGAACTG-TTTTAATCTGGCTTTCAAGGAAAC-TGGGC-TTTATGGGATTATAAGG-----AGGTCAAGAACGTGGTATATCTTCTGTTGGATGTAAAATTGATGTTTATAGTTCAGTAGTGTCACTTCTTTGATAGTGGGCAACCAGGGACACGCTCACATGATGGTTAATAAAGGCTCTTCAG-------------ACACTAGA-TTTA-------------
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78229002 232 - 125616256 TTAAAAAGAAATCATAATCTCTAGATCCGATGGTATA-TACCCAGTTCATTA-TTTTAATCTGGCTATCAAGGAATC-TGGGATTTTGTGGGC-CATAGTG-----AGGTCAAGAACATGGTTTATCTTCTGTTGGATATTGAATTGCTAATTATGGATCAGTGGTGTCATCTCTTTGACAGTGGACA-ACAGGGACCCTCTCACACAACGGTTAGTATGAATTCTTCAG-------------ACACCAGG-TTTA-------------
+q canFam2.chr1 9999999999999999999999999999999999999-99999999999999-999999999999999999999999-999999999999999-9999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999-------------99999999-9999-------------
+i canFam2.chr1 I 26 C 0
+s felCat3.scaffold_217398 89161 233 - 219823 TTATAAAGAGATCATAATCTCTAGACACAATGGCACA-TACCCAGTTGACTA-TTTTATTCTGGCTTTCCAGGAAAC-TGGGGTTTTGTGGGA-TATAATG-----AGGTTACGAACATGATTTGTCTTCTGTTGGATATGGAATTGCTAGTTACAGCTCAGTAGTGTCACTTCTTTGACAGTGGACA-ACAGGGACATGCTCACATGACAGTTACCGTGGGTTCCTCAG-------------ACACTAGATTTTA-------------
+q felCat3.scaffold_217398 9999999999999999999999999999999999999-99999999999999-999999999999999999999999-999999999999999-9999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999-------------9999999999999-------------
+i felCat3.scaffold_217398 I 14 C 0
+s equCab1.chr31 13021798 224 + 24938454 TGTTAGAGAAATTGTGATCTCTAGATATGACGGCTCA-TACTCAGTTAACTA-TTTTAATCAGGCTTTCAAGGAAAG-TGGGG-TTTGTGGGA-CATAAAG-----A------GAACAGGGTGTATCTTCTGTTGAATGTGAAATTGCTATTTACAATTCAGTAGTGTCACCTCTTTGACAGCAGAT--ACAGGGACATGGTCATGCTGTGGTTAATATGGGTTCTTCAG-------------ACATTAGA-TTTA-------------
+q equCab1.chr31 9999999999999999999999999999999999999-99999999999999-999999999999999999999999-99999-999999999-9999999-----9------99999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999-------------99999999-9999-------------
+i equCab1.chr31 I 14 C 0
+s bosTau3.chr9 13686646 189 - 95030419 TTATAAAGAAATCCTAATTTCTAGCTGTAAGGGAACG-TGCATAGTTAACTA-TTTTACTCTGGTTTTCAAGGAAAT-TGGGG-TTGGTGGGA-GATAAAG-----AGGTTAGGAGTGTGGTATTCCGTCGGCT-----------------TTGCAGCTCTGTGGTGTCATGTC----ACAGTGGATG-AGAGGAACAGGCTCGTGT----GTT-------GTTCTTT------------------------GTCA-------------
+q bosTau3.chr9 9999999999999999999999999999999999999-99999999999999-999999999999999999999999-99999-999999999-9999999-----9999999999999999999999999999-----------------99999999999999999999999----9999999999-999999999999999999----999-------9999999------------------------9999-------------
+i bosTau3.chr9 I 14 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321237 39 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=130625.000000
+s mm9.chr10 3161633 98 + 129993255 AATTCTACATCCATCCCT-----TAAGCATTGGTTAGTTTGATTACACAGAGAACA-AGCTGGAAAGGTAA-------CTCTGTCTCTTCATTATCTG---TCTTCTT------------TCAGCT
+s rn4.chr1 229978267 87 - 267910886 -----TACATCCATCCCT-----TAAGCACT-GTCAGGTTGATCACACAAAGAACA-AGCCAGAAAGATAG---------CTATCTCTTTATTATCTG------TCTT------------TTAGCT
+q rn4.chr1 -----9999999999999-----99999999-999999999999999999999999-99999999999999---------999999999999999999------9999------------999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 52906 103 - 169015 -----TTCATACATTTGT-----TAAGCATAGACCAATTTGATCACGTGGAGAAAAGAGCCAGAAAGGCAGCTTTCAGCTTTGTGTCCCTA-TATCTATCATCCTCTT------------GAGACT
+q cavPor2.scaffold_284118 -----9999999999999-----99999999999999999999999989999999999999999999999999999999999999999999-9999999999999999------------999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16056573 92 - 170899992 AATTCTGCATTCATCCATGTA-GTAAGCATTGACTAATTTAATCGCATGGAGAATG-AGCCAGGGAGACAG-------CTTTGTTTTCCTG-TATCCA------TCCT------------------
+i hg18.chr6 C 0 I 75
+s panTro2.chr6 16579512 92 - 173908612 AATTCTGCATTCAGCCATGTA-GTAAGCATTGACTAATTTAATCGCATGGAGAATG-AGCCAGGGAGACAG-------CTTTGTTTTCCTG-TATCCA------TCCT------------------
+q panTro2.chr6 999999999999999999999-9999999999999999999999999999999999-99999999999999-------9999999999999-999999------9999------------------
+i panTro2.chr6 C 0 I 71
+s ponAbe2.chr6 16361932 92 - 174210431 AATTCTGCATTCATCCATGTA-GTAAGCATTGACTAATTTAATCGCATGGAGAATG-AGTCAGGGAGACAG-------CTTTGTTTTCCTG-TATCCG------TCCT------------------
+i ponAbe2.chr6 C 0 I 69
+s rheMac2.chr4 108464165 95 + 167655696 AATTCTGCATTCATCCATGTA-GTAAGCATTGACTAATTTAATCGCGTGGAGAATG-AGCCAGGGAGCCAG-------CTTTGTTTCCCTG-TCTC---------------CGTCCTGTT------
+q rheMac2.chr4 999999999999999999999-9999999999999999999999999999999999-99999999999999-------9999999999999-9999---------------999999999------
+i rheMac2.chr4 C 0 I 66
+s otoGar1.scaffold_334.1-359464 321276 82 - 359464 AATGCTTCTCCTATCCACTTA-GGAGGCACGGACTAATTTGATCACATAGAGAACA-AG-CAGGGAGACAG-------CTTTGTTTCCCTAT----------------------------------
+q otoGar1.scaffold_334.1-359464 999999999999999999999-9999999999999999999999999999999999-99-99999999999-------99999999999999----------------------------------
+i otoGar1.scaffold_334.1-359464 I 39 I 63
+s canFam2.chr1 78229234 88 - 125616256 TATCCTGCATTCATTCATTTA-TTAAGCATCAGTCAGTTTGATCACATAGAGAACA-AGTCAGGAGGATAA-------CTCTGTTTCC-----------CTTCTTCCA------------------
+q canFam2.chr1 999999999999999999999-9999999999999999999999999999999999-99999999999999-------9999999999-----------999999999------------------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 89394 84 - 219823 CATTCTGCATTCGTTCATTTA-TTAAGCATCAGCCAGTTTGATCGTGTAGAGGACA-A-TCAGGGAAAAAG-------CTCGGTTTCC-----------CTACAT---------------------
+q felCat3.scaffold_217398 999999999999999999999-9999999999999999999999999999999999-9-999999999999-------9999999999-----------999999---------------------
+i felCat3.scaffold_217398 C 0 I 85
+s equCab1.chr31 13022022 88 + 24938454 CATTCTGCATTCATTCGTTTA--TAAACAGCAGTCACTTTGATCACGTAGAGAACA-AGTCAAGGAGACAG-------CTCTGTTTCCCTA-TATCCGT---------------------------
+q equCab1.chr31 999999999999999999999--999999999999999999999999999999999-90999999999999-------9999999999999-9999999---------------------------
+i equCab1.chr31 C 0 I 77
+s bosTau3.chr9 13686835 96 - 95030419 CCCATTGCCTTCCTTTGCTTAATGAAGCATCAGCCAGTTTGATCACATGAAGGACC-AATCAGGGAGACAG-------CTCTGTTTGCCTG-GATCCTT------CCTGCT---------------
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999-99999999999999-------9999999999999-9999999------999999---------------
+i bosTau3.chr9 C 0 I 61
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=-10207.000000
+s mm9.chr10 3161731 251 + 129993255 TCGAGGAGTCCAAGTATAT------CCTGGA-----CACAGTGT--------AGCCATT--------------------CCTGCTGAGT--TACTCAGTTTTCAATAACTATAACAAAATGCTTGGGGTAAATAATGTTAAAAGGGGGAAAGGTTTACTGGGGTTTGAAGTTTTACATGTTCCAGCCCAT---ACTTGGTTGGCCCCGTTGCTTTGGGGCTGTAGTGATAAACTTACCAGGAAGCATCATTATGGTGGTAGTGGGTCAGGTTAACATGGTAGAACCTCTCATGCT
+s cavPor2.scaffold_284118 53009 244 - 169015 CTGCCTCATTTCAATGCATTACTTACCAAGGGAATTCACACTCCAGGACGGGAGCCACTGTCCCGTGTGTGCTGGCCAGCTTTCTGTGTGCTGGCCAGCTTTCTGTCATGATAATAAAATATGCAAGATAATCAGTTT-------gtaagaggtttattttgattcagaaCTTTGGACCTTGTTGtt-------------------------tttgggcctgtggtgagggaCATGTGGGAGAGCAAACTT---------GTTTACCATATGGCCAGGAAGCAAT----------
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999996595656589999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------999999999999999999999999999999999999999999-------------------------999999999999999999999999999999999999999---------9999999999699999999999999----------
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229978354 250 - 267910886 TTGAGGAGTCCAAGTATAT------CCTGGAGTAGCCACACTGTAGCACAGGAGCCATT--------------------CCTACTGagt--tactcagttttctataactgtaacaaaatgcttgaggcagataatgataaaagggggaaaggtttactgggatttgcagttttagatgatccagcccat---actca--------------tttggggctgaagtgataaacttaccaggaagcatcattatggtggcagtgtgttaggttaccatggtggaacctttcatgct
+q rn4.chr1 9999999999999999999------9999999999999999999999999999999999--------------------9999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---99999--------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78229322 56 - 125616256 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TCCTGTTCATGAAGCTTG--------------TCTGG----------------------GGAAGTCACTCTAGGATGGGAGCTTCACCTGCT-----------------------
+q canFam2.chr1 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------999999999999999999--------------99999----------------------999999999999999999999999999999999-----------------------
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13686931 61 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13022110 77 + 24938454 I
+e rheMac2.chr4 108464260 66 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e felCat3.scaffold_217398 89478 85 - 219823 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321358 63 - 359464 I
+e hg18.chr6 16056665 75 - 170899992 I
+e panTro2.chr6 16579604 71 - 173908612 I
+e ponAbe2.chr6 16362024 69 - 174210431 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=9815.000000
+s mm9.chr10 3161982 175 + 129993255 TGAGTGAGGTAGGAGT-----TTGGAGTCTCAGACTCTTTTCcaaggtcttgaccgcaatgacccaaccaactcctgctaggctctacctctt---aaaggatccaccatcttgcagcagtgctaaactggagTATATGATTTTAATAGATGATATTTGGTAGGACGTTCACTATCAAAACTG
+s rn4.chr1 229978604 151 - 267910886 tgagggacat--------------------------------caaggtcatgaccctaatgatccaactaactcccactaggctccaccccttaaaaaaggctccactgacttgcgacagtgccaagctgtagtatgtgcttttaataggtgatactgggtaggacattcactactaaaacTG
+q rn4.chr1 9999999999--------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 53253 172 - 169015 --AGAGAGAAAGGAGCAGGGGCTGAGGCCCCACAGTTCCCTATGAAGGCATGTCCCCAGTGACCAAAAGGGCTCCCGTTAG-----CCCCTTT---AAAGGTTTCACTACTTCCCAGGGGCACCAAGCTGGGAC-CAAGTCTTTAACACCGAGGTCTTTGGGGACCACTTAAGATTCATACTG
+q cavPor2.scaffold_284118 --9999999999999999999999994999999999999999999999999999999999999999999999999999989-----9999999---99998999999999999999999999999999899999-999999999999998999999998999979999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+e bosTau3.chr9 13686931 61 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13022110 77 + 24938454 I
+e rheMac2.chr4 108464260 66 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e felCat3.scaffold_217398 89478 85 - 219823 I
+e canFam2.chr1 78229378 0 - 125616256 C
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 27937 807 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321358 63 - 359464 I
+e hg18.chr6 16056665 75 - 170899992 I
+e panTro2.chr6 16579604 71 - 173908612 I
+e ponAbe2.chr6 16362024 69 - 174210431 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=234186.000000
+s mm9.chr10 3162157 85 + 129993255 TGGCATTTGCTGCAGGGAGAAGGCAGAGCCAGCCCAGGGCACATTGAACAACTCTatctggaatccgccatctagcccttattgg
+s cavPor2.scaffold_284118 53425 71 - 169015 TAGCATCTATTATGGGGAAAGAGC--AGCCAG------------TTAAAAACCCTGTACTGAATCCTCATTCTAGCACTCACTGG
+q cavPor2.scaffold_284118 999999999999998899999999--999999------------99999999999999999979999999999999999999899
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229978755 80 - 267910886 TGCCATCTGCTGCAGGGAGAAGGCAGAGCCAGCCTGAGGCAGA-TGGACAACCCTATCTGGAATTCGCCCTCTAGCCCTTA----
+q rn4.chr1 9999999999999999999999999999999999999999999-9999999999999999999999999999999999999----
+i rn4.chr1 C 0 I 37
+s canFam2.chr1 78229378 82 - 125616256 -GTCACCTGCTGTTGGGGGATGGCGGAGCCAGTCTGGGGCAgagt-gacagccctgtgtggaattctcc-tccagtgcttatggg
+q canFam2.chr1 -99999999999999999999999999999999999999999999-99999999999999999999999-999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13022187 85 + 24938454 TGTCACCTGCTGTAGGGAGAATTCAGAGCCAGCCTGCGGCAGGGTAGAaaacctggcatggagttctcactccagtgcttactgg
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 77 C 0
+s felCat3.scaffold_217398 89563 71 - 219823 -------------AGGGGAGGGGCTGAGCCAGCCTGGGGCAGAGC-AAAAGCCCTACCTGgaattctcagtccagtgcttacagg
+q felCat3.scaffold_217398 -------------99999999999999999999999999999999-999988999999999996999999999999999999999
+i felCat3.scaffold_217398 I 85 C 0
+s bosTau3.chr9 13686992 72 - 95030419 -------------AGGGAGAAGGCTGAGCCAGCGTTGGGCGGAATGGAAAACCCTGTGTGGAGTTATCACTCCGGTGCTTCCTGG
+q bosTau3.chr9 -------------999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 61 I 1076
+s otoGar1.scaffold_334.1-359464 321421 57 - 359464 ------TCACTGTAGGGAGATGGCAGAGCCAGCCTGGCGCAGGGTGGGAAACACCGTGTTGAA----------------------
+q otoGar1.scaffold_334.1-359464 ------999999999999996988999566779799656799999999999699999969989----------------------
+i otoGar1.scaffold_334.1-359464 I 63 C 0
+s hg18.chr6 16056740 82 - 170899992 ---CACCtgctgtagggggaaagcagagccagtctggggcaaagtaaaataacccgtgttgaatcctcactctagcactcaatgg
+i hg18.chr6 I 75 C 0
+s panTro2.chr6 16579675 82 - 173908612 ---CACCTGCTGTAGGGGGAAAGCAGAGCCAGTCTGGGGCAAagtaagataacccgtgttgaatcctcactctagcactcaatgg
+q panTro2.chr6 ---9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 71 C 0
+s ponAbe2.chr6 16362093 82 - 174210431 ---CACCtgctgtagagagaaagcagagccagtctggggcaaagtaaaataacccgtgttgaatcctcactctagcactcaatgg
+i ponAbe2.chr6 I 69 C 0
+s rheMac2.chr4 108464326 82 + 167655696 ---CACCTGCTGTAGGGAGAAAGCAGAGCCAGACTGGGGCAGAGTGAAATAACCGGTGTTGAATCCCCACTCTAGCACTCAGTGA
+q rheMac2.chr4 ---9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 66 C 0
+s calJac1.Contig1260 28744 82 - 523245 ---CACTtgctgtagggagaaggcagagccagtctggggcagagtagaatgcctggtgttgaatcttcactctagcactcagcag
+i calJac1.Contig1260 I 807 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=118143.000000
+s mm9.chr10 3162242 47 + 129993255 tagcttggctgtgagc----------------cttg--ttt-----ccatatttgtgg------------gatacatcat-gg
+s cavPor2.scaffold_284118 53496 69 - 169015 TAGTGTGACCTTGAACATTCA-----------CCTC--TTTAGAGCTCATGCCTGTAACATGGGGATAACAATATACTAT-GG
+q cavPor2.scaffold_284118 999999999999999999999-----------9999--999999999999999999999999999999999999999999-99
+i cavPor2.scaffold_284118 C 0 I 4
+s calJac1.Contig1260 28826 65 - 523245 tagtatgaccttgagcatttagccctttagggcttg--ctt-----tcacatctgcaaaatgggcatcctaa-----------
+i calJac1.Contig1260 C 0 I 127
+s rheMac2.chr4 108464408 65 + 167655696 TAGTACGACCTTGAGCATTTAGCCCTTTGGAGCTTG--CTT-----TCACATCTGTAGGATAGGCATGATAA-----------
+q rheMac2.chr4 999999999999999999999999999999999999--999-----99999999999999999999999999-----------
+i rheMac2.chr4 C 0 I 10
+s ponAbe2.chr6 16362175 65 - 174210431 aagtatgaccttgagcatttagcccttcggagcttg--ctt-----tcacatctgcaaaatgggcataataa-----------
+i ponAbe2.chr6 C 0 I 10
+s panTro2.chr6 16579757 65 - 173908612 tagtatgaccttgagcatttagccctgcggagcttg--ctt-----tcacatctgcaaaatgggcataataa-----------
+q panTro2.chr6 999999999999999999999999999999999999--999-----99999999999999999999999999-----------
+i panTro2.chr6 C 0 I 10
+s hg18.chr6 16056822 65 - 170899992 tagtatgaccttgagcatttagcccttcggagcttg--ctt-----tcacatctgcaaagtgggcataataa-----------
+i hg18.chr6 C 0 I 10
+s otoGar1.scaffold_334.1-359464 321478 64 - 359464 ---tatgacctggaacatttagccctcctgagctttgcttt-----tcacatctgcaaaatgagcctcatgg-----------
+q otoGar1.scaffold_334.1-359464 ---99899799979978999997999999997999973999-----99777999898999899879999999-----------
+i otoGar1.scaffold_334.1-359464 C 0 I 129
+s equCab1.chr31 13022272 73 + 24938454 tgatatgagcttgaggacttagctcttcggagcttg--ctt-----cctcatctgcaaaatggggacaataatatatcat---
+q equCab1.chr31 999999999999999999999999999999999999--999-----9999999999999999999999999999999999---
+i equCab1.chr31 C 0 I 87
+s felCat3.scaffold_217398 89634 74 - 219823 cagtataaccttgagcacttagccatttagatcttg--ctt-----ccccatctgcaa-atggggccgctaatacatcttag-
+q felCat3.scaffold_217398 999999999999999999999799899999989999--999-----999979999979-99999969999799999999996-
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78229460 75 - 125616256 tggtatgaccttgagcacttaggcatttacatcctg--cct-----ccccacctgcaagatggagacactgatacATCTTCT-
+q canFam2.chr1 999999999999999999999999999999999999--999-----999999999999999999999999999999999999-
+i canFam2.chr1 C 0 C 0
+e rn4.chr1 229978835 37 - 267910886 I
+e bosTau3.chr9 13687064 1076 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=8775.000000
+s mm9.chr10 3162289 11 + 129993255 gg----aatgagtgt
+s cavPor2.scaffold_284118 53569 11 - 169015 GT----TATGAGTAT
+q cavPor2.scaffold_284118 99----999999999
+i cavPor2.scaffold_284118 I 4 I 10
+s rn4.chr1 229978872 11 - 267910886 GG----GATGAGTGT
+q rn4.chr1 99----999999999
+i rn4.chr1 I 37 C 0
+s rheMac2.chr4 108464483 15 + 167655696 GGTTGTTATGAGCCT
+q rheMac2.chr4 999999999999999
+i rheMac2.chr4 I 10 I 24
+s ponAbe2.chr6 16362250 15 - 174210431 ggttgttatgagcgt
+i ponAbe2.chr6 I 10 I 103
+s panTro2.chr6 16579832 15 - 173908612 ggctgttatgagcat
+q panTro2.chr6 999999999999999
+i panTro2.chr6 I 10 I 24
+s hg18.chr6 16056897 15 - 170899992 ggctgttatgagcat
+i hg18.chr6 I 10 I 24
+s felCat3.scaffold_217398 89708 15 - 219823 ggttcttatgaggat
+q felCat3.scaffold_217398 986999898796969
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78229535 6 - 125616256 GGT---------GAT
+q canFam2.chr1 999---------999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13687064 1076 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13022345 87 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 28891 127 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321542 129 - 359464 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=-9926.000000
+s mm9.chr10 3162300 108 + 129993255 --------------------------ccagcatccattagc---ctc---------tacttgctctaCTTCAGACTGGCCGTTAGTTTTATTTATTTA-TTTG----------------TTCATTTGTATGttccttccttccttccttccttccttccttcc
+s cavPor2.scaffold_284118 53590 69 - 169015 --------------------------CCAGGAATCAGTACCAAACTCATTTAAAGAAATCCTCAGTACTTAGTACttg---------ttatttaaaag-tttt----------------tt------------------------------------------
+q cavPor2.scaffold_284118 --------------------------9999999999999999999999999999999999999999999999999999---------99999999999-9999----------------99------------------------------------------
+i cavPor2.scaffold_284118 I 10 C 0
+s rn4.chr1 229978883 61 - 267910886 --------------------------CCAGTGTACATTAGC---CTC---------TATTTGCTGTATTTCAGACTAGCC-------CTGTTTGTTTG-TTTA----------------CCca----------------------------------------
+q rn4.chr1 --------------------------999999999999999---999---------999999999999999999999999-------99999999999-9999----------------9999----------------------------------------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16579871 79 - 173908612 --------------------------ccagctcatgttgtggaatac------agaaaggctcaggaaatggtacttg---------ttattTAGACA-TTTAAAAGAAAACATTCCTTTT------------------------------------------
+q panTro2.chr6 --------------------------999999999999999999999------9999999999999999999999999---------99999999999-9999999999999999999999------------------------------------------
+i panTro2.chr6 I 24 C 0
+s hg18.chr6 16056936 79 - 170899992 --------------------------ccagcttatgttgtggaatac------agaagggctcaggaaatggtacttg---------ttattTAGACA-TTTAAAAGAAAACATTCCTTTT------------------------------------------
+i hg18.chr6 I 24 C 0
+s rheMac2.chr4 108464522 80 + 167655696 --------------------------CCAGCTCATGTTGTGGAATAC------AGAAAGGCTCGGGAAATGGTACTTG---------TTGTTTAGACATTTTTAAACAAAACATTCCTTTT------------------------------------------
+q rheMac2.chr4 --------------------------999999999999999999999------9999999999999999999999999---------9999999999999999999999999999999999------------------------------------------
+i rheMac2.chr4 I 24 C 0
+s felCat3.scaffold_217398 89723 83 - 219823 taaccagacactaggagtgcaatgccccaactcgtgttacggaatac------ggaagggctcaggaaatggtaCTTG---------TGGTCTATTTA-----------------------------------------------------------------
+q felCat3.scaffold_217398 97897799999774998999797789948999899967799999998------6987799799969999999999889---------89998999977-----------------------------------------------------------------
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78229541 69 - 125616256 TGAGTAAATG---------------CCCAGCTTGGGTTACGGAATCC------AGAAGGGCCCAGGAAATGGTACTTG---------TGATCTATTTA-T---------------------------------------------------------------
+q canFam2.chr1 9999999999---------------9999999999999999999999------9999999999999999999999999---------99999999999-9---------------------------------------------------------------
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13687064 1076 - 95030419 I
+e monDom4.chr2 106176475 18814 - 541556283 I
+e equCab1.chr31 13022345 87 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 8282 987 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e calJac1.Contig1260 28891 127 - 523245 I
+e tupBel1.scaffold_114895.1-498454 355648 10511 - 498454 I
+e otoGar1.scaffold_334.1-359464 321542 129 - 359464 I
+e ponAbe2.chr6 16362265 103 - 174210431 I
+e oryCun1.scaffold_214769 60063 19175 - 139458 I
+
+a score=163030.000000
+s mm9.chr10 3162408 91 + 129993255 ttccttcct--tcctt----ccttccttcctttcttcctGCATGCCATGGAATGGGGATGA-CCTAGCACCACA-----TA-CCTGGTGCTCAGTTCTCAACTC
+s oryCun1.scaffold_207308 1009 73 + 43077 -----------TCTTT----TACTCCTT--------------TGTCATCAAAT-AAGATGGCCCGAGCAGAGCAGCAACTG-ACTGGTGCCTGGTTCGCAGCCC
+q oryCun1.scaffold_207308 -----------99999----99999999--------------99999997999-999999999999999999999999999-9999999999999999999999
+i oryCun1.scaffold_207308 n 19175 C 0
+s tupBel1.scaffold_114895.1-498454 366159 75 - 498454 ----------------------ATTGTTCTTTTATACTCCTTTGTCATGCAAC-GAGACAGCCCCATCACCAGA-----CA-TCTGGTGCTCCATTTTCGACAC
+q tupBel1.scaffold_114895.1-498454 ----------------------7687689799678699999999899997876-77966778999699999799-----99-9999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 10511 C 0
+s felCat3.scaffold_217398 89806 75 - 219823 -----------------------TTTTCCTTCTGTGTTCTTTTATCATGAAAT-GAGATGGCCCCAGCACCAGA-----TATTCTGGTTCTTGGTTCTCAATGC
+q felCat3.scaffold_217398 -----------------------999995999799999789996997699976-68994999999989999999-----9999779999897668999999479
+i felCat3.scaffold_217398 C 0 I 62
+s canFam2.chr1 78229610 78 - 125616256 --------------------TTCTTTTTCTTCTGTGTTCTTTTCTCATGAAAC-GAGTTGGCCCCAGCACCAGA-----CACTCTGGTTCTTGGTTCTCTCCGC
+q canFam2.chr1 --------------------999999999999999999999999999999999-99999999999999999999-----9999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13688140 78 - 95030419 ----------------TTCTTTCTTTGTCTTTCATACTCCCCTGTCCTTAAAT-GAGATGGCCCCGGCCCTGGA-----CATTCTGGTGCTTGGTTGTCA----
+q bosTau3.chr9 ----------------9999999999999999999999999999999999999-99999999999999999999-----999999999999999999999----
+i bosTau3.chr9 I 1076 C 0
+s equCab1.chr31 13022432 90 + 24938454 --------TGACTTCTTTCTTTGTTTTTCTTTTGTATTCCTGTGTCATGAAAT-GAGATGGCCTCAGCCCCAGA-----CATTCTGGTGCTTGGTTCTTAACAC
+q equCab1.chr31 --------999999999999999999999999999999999999999999999-99999999999999999999-----9999999999999999999999999
+i equCab1.chr31 I 87 C 0
+s rn4.chr1 229978944 82 - 267910886 --------t--tcatt----cattcattcatgcatgcatgcatGCCATGAAAT-GGGATGA-CCTAGCACTGCA-----CA-CCCAGTGCTCAATTTTCAATTC
+q rn4.chr1 --------9--99999----999999999999999999999999999999999-9999999-999999999999-----99-9999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 53659 71 - 169015 --------t--tctttag--tgttcTTT--------------TGTCATGAAAT-GGAATGGTCCTAATACTGGA-----TA-GCTGATGCTTGGTCCTCACTAA
+q cavPor2.scaffold_284118 --------9--9999999--99999999--------------99999999999-99999999999999999999-----99-9999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s dasNov1.scaffold_40472 9269 73 - 17534 -------------------------CTTCTCTGATACTCCCTCGCCATGAAAT-GAGGTGGCCCCAGAGCCAGA-----CTTTGCGTCGCTCCGTCCTCATCGT
+q dasNov1.scaffold_40472 -------------------------8898899996696986785884999985-99686894777479677359-----6687585875586735776549866
+i dasNov1.scaffold_40472 I 987 C 0
+s hg18.chr6 16057015 52 - 170899992 ---------------------------------------------CATGAAAT-GAGACGGCCCCAGCACCAGA-----CA-TCTGGTGCCTGGTTCTCAACAC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16579950 52 - 173908612 ---------------------------------------------CATGAAAT-GAGACGGCCCCAGCACCAGA-----CA-TCTGGTGCCTGGTTCTCAACAC
+q panTro2.chr6 ---------------------------------------------99999999-99999999999999999999-----99-9999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16362368 52 - 174210431 ---------------------------------------------CATGAAAT-GAGACGGCCCCAGCACCAGA-----CA-TCTGGTGCCTGGTTCTCAACAC
+i ponAbe2.chr6 I 103 C 0
+s rheMac2.chr4 108464602 52 + 167655696 ---------------------------------------------CATGAAAT-GAGACGACCCCAGCACCAGA-----CA-TCTGGTGCCTGATTCTCAACAC
+q rheMac2.chr4 ---------------------------------------------99999999-99999999999999999999-----99-9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 29018 52 - 523245 ---------------------------------------------CATGAAAT-GAGAGAGCCCCAGCACCAGA-----CA-TCTGGTGCCTCGTTCTCAGCAT
+i calJac1.Contig1260 I 127 C 0
+s otoGar1.scaffold_334.1-359464 321671 52 - 359464 ---------------------------------------------CATGACAT-GAGACAGCCCCAGCGCCAGA-----CG-TCTGGGGCTGGGCTCTCAACAC
+q otoGar1.scaffold_334.1-359464 ---------------------------------------------97776977-88888766997878569897-----66-7769995768966969995769
+i otoGar1.scaffold_334.1-359464 I 129 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+
+a score=189093.000000
+s mm9.chr10 3162499 70 + 129993255 CATTTCCCATGGATCACTTTTGGTTGTTGATCATCAACAGAGAGGGAAAGTGTGCTCCCCTTTAGTCC-----AG
+s oryCun1.scaffold_207308 1082 65 + 43077 TGCTCCCCATGGATGACTTTC-GTTGCTGAC---------AGAGAGAACGTTTGCTCCTTCCCGCCCCCCATTAC
+q oryCun1.scaffold_207308 999999798999779999999-899999998---------79999999999999999799799799889859989
+i oryCun1.scaffold_207308 C 0 C 0
+s cavPor2.scaffold_284118 53730 69 - 169015 TGTTCACTATGGACAACTTTCAGTTGCTAATagccaacaaaga-gaaaaatctactTCCCCCTGAATT-----AT
+q cavPor2.scaffold_284118 9999999999999999999999999999999999999999999-999999999999999999999999-----99
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229979026 68 - 267910886 TGCTCCCCATGGATCGCCTTTGGTTGCTGATTACCAAC--AGAGGGAAGGTATGCTTCCCTTCAGCCC-----AC
+q rn4.chr1 99999999999999999999999999999999999999--9999999999999999999999999999-----99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16057067 68 - 170899992 TGTACACCATAGATAACTTTCCGTTCCTGACAGCCAAC--AACGAGAAAGTTTACTTCCCCCAAAATT-----GT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16580002 68 - 173908612 TGTACACCATAGATAACTTTCCGTTCCTGACAGCCAAC--AACGAGAAAGTTTACTTCCCCCAAAATT-----GT
+q panTro2.chr6 99999999999999999999999999999999999999--9999999999999999999999999999-----99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16362420 68 - 174210431 TGTACACCATAGATAACTTTCCGTTCCTGACAGCCAAC--AACGAGAAAGTTTACTTCCCCCAAAATT-----GT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108464654 68 + 167655696 TGTACACCATAGATAACTTTCCGTTCCTGACAGCCAAC--AACGAGAAAGTTTACTTCCCCCAAAATT-----AT
+q rheMac2.chr4 99999999999999999999999999999999999999--9999999999999999999999999999-----99
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 29070 67 - 523245 TGTACACGATGGATAACTTTCTGTTCCTGACAACCAAC--AACAAGAAGGTTTACTTCCCCC-AAATT-----AC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 321723 68 - 359464 TGTTTGCTGTGGCTAACTTTCCCTTGCTGACGGCCAGT--TAGGAGTAAGTTTACTTCCCCCCAAATT-----AC
+q otoGar1.scaffold_334.1-359464 77696979869879866999799958689679569978--9779889998899689969999999768-----69
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 366234 68 - 498454 TGTCCACCAGGGACAGTTTGCTGCTGCTGACAGCCAAG--AGAGAGAAAGTCTGCTTGCCCCCAAATT-----AC
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999--9999999999999999999999999999-----99
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78229688 38 - 125616256 CATTCACT-----------------------AGTCAAC--ACAGAGAAAGTTTCCTTCTCCAG------------
+q canFam2.chr1 99999999-----------------------9999999--99999999999999999999999------------
+i canFam2.chr1 C 0 I 41
+s equCab1.chr31 13022522 59 + 24938454 TGTTCACTGGGAATAACTTTTTGTTGCTGACAGTC--T--ACAAAGAAAGTTGGCTTCTCCAA------------
+q equCab1.chr31 99999999999999999999999999999999999--9--99999999999999999999999------------
+i equCab1.chr31 C 0 I 41
+s bosTau3.chr9 13688218 59 - 95030419 --TTCATCAGGGATAACTCTCTGTGATTTACAGTCAAC--AAAACGAAAGTTCATTTCTTTAA------------
+q bosTau3.chr9 --999999999999999999999999999999999999--99999999999999999999999------------
+i bosTau3.chr9 C 0 I 41
+s dasNov1.scaffold_40472 9342 68 - 17534 GGTTTGCCGTGGACAGTCTTTGGTTGCTGACAGTCAAC--AAAGAGAAAGTTTACTTCTCCAAAAACG-----AC
+q dasNov1.scaffold_40472 83597647554212455549665456666653555465--4886857965485664855553788552-----52
+i dasNov1.scaffold_40472 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 89881 62 - 219823 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+
+a score=264737.000000
+s mm9.chr10 3162569 87 + 129993255 GCTTCTG------------TTCC----TTTATGTCCCCATGC-----CCCCAACCAGAACCCCTGC-AGTTTAG-TAAACACAGAATC-------------------------------------TTTCTGTCCAGTCTCAGTATTA
+s oryCun1.scaffold_207308 1147 102 + 43077 CCATCAGGACTTGCAGCAGGTCTGTGATTTATTTGCTTTGATGCCT-CCCCCACCGCGGCGGCTGC-TGCACGG-TGAACCCAGAATC-----------------------------------------TGTGCAGAA-CAGAATGA
+q oryCun1.scaffold_207308 9969852767969877884857998967967599766987656698-6878567966667677687-6966768-6877887358667-----------------------------------------676764486-55495556
+i oryCun1.scaffold_207308 C 0 C 0
+s cavPor2.scaffold_284118 53799 102 - 169015 CCTTTTGAAATTGCAGCA-TTCTGTGATTTATTTCCCTCTATTCCA-CCCCCATCATAACCCCTGT-GGTACAA-TAAACCCAGAATC-----------------------------------------TGTTCAAGGGCAGAATTA
+q cavPor2.scaffold_284118 999999999999999999-999999999999999999999999998-9999999999999999999-9999999-9999999999999-----------------------------------------999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229979094 126 - 267910886 CCTTCTG------------TTTC----TTTCTGTCCCCCCACT--A-CCCCTGCTACAACCCCTGC-AGTTGAG-TAAACCCAGAATCAATTAATCTCTCAGTATTAATTGAGTTAATACTCAGTATTAAACCCAACCTCAGTATTA
+q rn4.chr1 9999999------------9999----9999999999999999--9-9999999999999999999-9999999-999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16057135 104 - 170899992 TCTTCTGGAATTACAGCCATTCTGTGATTTATTTGCCTCTGTTCCT-GCCCCACAAGGGCCACTGC-AGTGCAGTTAAACCCCCAGTC-----------------------------------------TGTTCAGGGGCAGAACTA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16580070 104 - 173908612 TCTTCTGGAATTACAGCCATTCTGTGATTTATTTGCCTCTGTTCCT-GCCCCACAAGGGCCACTGC-AGTGCAGTTAAACCCCCAGTC-----------------------------------------TGTTCAGGGGTAGAACTA
+q panTro2.chr6 9999999999999999999999999999999999999999999999-9999999999999999999-999999999999999999999-----------------------------------------999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16362488 104 - 174210431 TCTTCTGGAATTACAGCCATTCTGTGATTTATTTGCCTCTTTTCCT-GCCCCACAATGGCCACTGC-AGTACAGTTAAACCCCCAGTC-----------------------------------------TGTTCAGGGGCAGAACTA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108464722 104 + 167655696 TCTTCTAGAATTACAGCCGTTCTGTGATTTATTTGCCTCTTTTCCT-CCCTCACAATAACCACTGC-AGTACAGTTAAACCCCCAGTC-----------------------------------------TGTTCAAGGGCAGAACGA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999-9999999999999999999-999999999999999999999-----------------------------------------999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 29137 104 - 523245 TCTTCTGGAATTACAGCCATTCTGTGATTTATTTGCTGCTTTTCCT-CCCCCACAATGACCACTGC-AGAACAGTTAAACCCCCAGTC-----------------------------------------TGTTCAAGGGCAGAACTA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 321791 81 - 359464 CCTTCTGGAATTGCAGGCA----------------------CTCCT-CCCCCACAATGACCGCTGC-AGTACAG-TAAACCCAGGATC-----------------------------------------TGGTCAAGGGCAGAACTG
+q otoGar1.scaffold_334.1-359464 9799969999956799578----------------------99979-7999979997989999999-9998997-9998789999899-----------------------------------------896899999769999899
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 366302 85 - 498454 CCTTCTGCAATTGGAGCCATTCAGTGATTTATTGGCCTCTGTTCCT--CCTCACCAGGACCAGGAT-AGTACAGT-----------------------------------------------------------AAGGGCAGAACTA
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999999--999999999999999999-99999999-----------------------------------------------------------9999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78229767 70 - 125616256 ----------------------------------GCTTCTTTTCCTACCCCCAACACGACCAGTGCTAGTGCAA-TAAACCAAAGATT------------------------------------------GTTTAAGGGAAGAGCTA
+q canFam2.chr1 ----------------------------------9999999999999999999999999999999999999999-9999999999999------------------------------------------99999999999999999
+i canFam2.chr1 I 41 C 0
+s felCat3.scaffold_217398 89943 69 - 219823 ----------------------------------GCTTCTATTCCT-CCCCCACCGTGACCACTGCTAGTGCCA-TAAACCAAAGATC------------------------------------------GTTCAAGGGCACAGCTA
+q felCat3.scaffold_217398 ----------------------------------999999999999-999999999999999767599999999-9999999999999------------------------------------------99999999999999999
+i felCat3.scaffold_217398 I 62 C 0
+s equCab1.chr31 13022622 69 + 24938454 ----------------------------------GCCTCTCTTCCT-CCCCCACCATGACCCCTGC-AGTGCAG-TAAACTCCAGATC-----------------------------------------TGTTCAAGGGCAGAACTA
+q equCab1.chr31 ----------------------------------999999999999-9999999999999999999-9999999-9999999999999-----------------------------------------999999999999999999
+i equCab1.chr31 I 41 C 0
+s bosTau3.chr9 13688318 69 - 95030419 ----------------------------------CCCTCTGTTGCT-CCCCCAGCCTGACCACTGC-AGTGCAG-TAAACCCCAGGTC-----------------------------------------TGTTCAAGGGAAGAACTA
+q bosTau3.chr9 ----------------------------------999999999999-9999999999999999999-9999999-9999999999999-----------------------------------------999999999999999999
+i bosTau3.chr9 I 41 C 0
+s dasNov1.scaffold_40472 9410 104 - 17534 CCTTCTGGAATTGCAGTGTTCCTGCGATTTAGCTTCCTCTCTTCCT-CCCCTGCTGTGCCCCCTGC-AGTCCGGGACCCCCCAGAGTC-----------------------------------------CGTTCAGGGGCAGAACTA
+q dasNov1.scaffold_40472 7656535645556667599997999799965999999999999999-9898763684547666796-999999999899999969999-----------------------------------------999988452125179999
+i dasNov1.scaffold_40472 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+
+a score=836845.000000
+s mm9.chr10 3162656 166 + 129993255 ATCCCTCCCACGGTG---GGGTGT-CT-GGGGAGCGCA-GAGCCAACA---ACGCGGTTACAG-TAAATTGCA-AGTGTG-AAATCTCAAGGT---ACTCTAGCA--------CATGTATTT-AATTGGAAAGTCTCT-TCCAGG---TGCTTCTCTAACAGCAGCGA----AG-----AAAAGTTAAACTTGCAT-GTGAAAG
+s oryCun1.scaffold_207308 1249 166 + 43077 ATCTGAGCTGTGGTG-AGAGGGGT-CT-GGGCTGGGGG-AA--CCAGCAGGATACAGTTACAG-TAAATTACA-AGTGTA-AACACTCATATT---ACTTTGGCA--------CAAAGTTTCGGATTTTGAAGTCTCT-TCCAGG---TGCATCCTCTCGAATA--------AA-----AAAAGTTAAAATTCCAT-GTAAAAG
+q oryCun1.scaffold_207308 655679356777666-76758875-67-7845679995-75--43345457657666769746-659567655-578975-745344542976---765897679--------9389758564794995356576664-557856---3677775465647855--------98-----87765545767441223-7524693
+i oryCun1.scaffold_207308 C 0 I 2040
+s cavPor2.scaffold_284118 53901 174 - 169015 ATCTTTACCACAGTGCAAAGGATT-CC-AGATTGGGGG-GAGTCTAACAATATACAGTTACAT-TAAGTTTTT-AGTATGAAAATCTCAGCTT---ACTTTGGCA--------AAAAT-TTC-AATTTTGAAGCCTCT-TCCAGG---TGCTTCTTTgggaacagcaacaacaa-----caaaattaacac--cac-ataaaag
+q cavPor2.scaffold_284118 999999999999999999999999-99-9999999999-999999999999999999999999-999999999-9999999999999999999---999999999--------99999-999-999999999999999-999999---99999999999999999999999999-----999999999999--999-9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229979220 171 - 267910886 ATCCCTCCCAACGTG---GGGTGTCCC-AGGGAGCACG-AAGCTAAAC---ACACAGTTACAG-TAAACTGCCTACTGTG-AAATCTCAAGGT---ACTCTGGCC--------CAAGCTTTT-AATTAGAAAGTCTCT-TCCAGGTGCTGCTTCTCTAATAGCCGCGG----AG-----GAAAGTTAAAATTGCAT-GTGAAAG
+q rn4.chr1 999999999999999---999999999-9999999999-999999999---999999999999-9999999999999999-999999999999---999999999--------999999999-999999999999999-99999999999999999999999999999----99-----99999999999999999-9999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16057239 177 - 170899992 ATCTTAACCACCGTGTGAGGGAGT-CT-GGGGGCTGGGAGAAACTCACAGTGTACAGTTACAG-TAAGTTGCA-AGAATA-AAATCTCACGTG---ACTCTGGGA--------CAAGTTTTA-AATTTTAAAGTCTCT-TCCAGG---TGCTTTCTCTGGAACAACAACAACAA-----AAAAGTTAAAAGCTCAC-GTAAAAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16580174 177 - 173908612 ATCTTAACCACCGTGTGAGGGAGT-CT-GGGGGCTGGGAGAAACTCACAGTGTACAGTTACAG-TAAGTTGCA-AGATTA-AAATCTCGTGTG---ACTCTGGGA--------CAAGTTTTA-AATTTTGAAGTCTCT-TCCAGG---TGCTTTCTCTGGAACAACAACAACAA-----AAAAGTTAAAAGCTCAC-GTAAAAG
+q panTro2.chr6 999999999999999999999999-99-99999999999999999999999999999999999-999999999-999099-999999999999---999999999--------999999999-999999099999999-999999---99999999999999999999999999-----99999999999999999-9999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16362592 177 - 174210431 ATCTTAACCACCGTGTGAGGGAGT-CT-GGGGGCTGGGAGAAACTCACAGTGTACAGTTACAG-TAAGTTGCA-AGAATA-AAATGTCACATG---ACTTTGGGA--------CAAGTTTTA-AATTTTAAAGTCTCT-TCCAGG---TGCTTTCTCTGGAACAACAACAACAA-----CAAAGTTAAAAGCTCAC-GTAAAAT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108464826 177 + 167655696 ATCTTAACCACCGTGTGAGGGAAT-CT-GGGGGCTGGGAGAAAACACTCATGTACAGTTACAG-TAAGTTGCA-AGAATA-AAATCTCACATG---ACTTTGGGA--------CAAGTTTTA-CATTTTAAAGTCTCT-TCCAGG---TGCTTTCTCTGGAAGAACAACAACGA-----AAAAGTTAAAAGCTCAC-GTAAAAG
+q rheMac2.chr4 999999999999999999999999-99-99999999999999999999999999999999999-999999999-999999-999999999999---999999999--------999999999-999999999999999-999999---99999999999999999999999999-----99999999999999999-9999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 29241 177 - 523245 ATCTTAGCCACAGTATGAAGGAGT-CT-GGGGGCCGGGAGAAACTGACAAGGCACAGTTACAG-TAAGTTGCA-AGAATA-AAATCTCACATG---ACTTTGGCA--------CAAATTTTA-AATTTTAAAGTCTCC-CCCAGG---TGCTTCCTCTGGAGCAACAACAACAA-----AAAAGTTAAAATCTCAC-TTAAGAG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 321872 169 - 359464 ACCTGAACCACAGTATACAGGAGT-CTGGGGGGCTGAGGGAAACCAACAGTGTATGGTTGCAG-TAAGTTTCA-AGTATA-AAATCTCAAATT---ACTTTGGAA--------CAAATTTTA-AATGTTAAGGTCTCTACCCAGG---TGCTTCCTCTTGAACA--------GA-----AAAAGT--AAAATCCAT-GTAAAGG
+q otoGar1.scaffold_334.1-359464 699999679899998979999989-89999999899999999659989998999999989999-999999999-999999-997999999989---999968999--------999999999-9999999998999999999999---8999999999999999--------99-----999999--999999999-9999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 366387 166 - 498454 ATCTTAACCACAGTGCAAAGGAGT-CT-GGGGGTTGGG-GAAGCCAGCAATATACAGTTACAG-TAAGTTGCA-AGCAAA-AAGGCTCAGATT---ACTTTGGTC--------CAGGTTTTA-TAT-TTGCAGTCTCT-TCCAGG---TGCTTCCTCTTGAAGA--------GA-----AAATGTTTAAATCCCAT--TAAAAA
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999-99-9999999999-999999999999999999999999-999999999-999999-999999999999---999999999--------999999999-999-99999999999-999999---9999999999999999--------99-----99999999999999999--999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78229837 172 - 125616256 ATCTTAACCACTGTGTGAAGGGGT-CT-CGGGGCTGAG-AA----GACAGTGTACAGTTACAG-TAAGTTGTA-TGGACA-AAATCTCAAATT---ACTTTGGCA--------CAAGTTTTTACGTTTGAAAGTCTTT-TCCAGG---TGCTTCCTCTTGAAGAAC------AACGACGAAAATTTAGAATCCCAT-GGAAAAG
+q canFam2.chr1 999999999999999999999999-99-9999999999-99----999999999999999999-999999999-999999-999999999999---999999999--------9999999999999999999999999-999999---999999999999999999------999999999999999999999999-9999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 90012 167 - 219823 ATCTCAACCACCGTGTGAAGGAGT-CT-GGGGGCTGGG-GG----AACAATATACAGTTACAGTTAAGTTGTA-AGTACA-GAATCTCTAATT---ACTTTGGCA--------CAAGTTTTC-CATTTGGAAGTCTCT-TCCAGG---TGCTTCCTCTTGAACAAC------AA-----AAAAGTTAGGATCCCAT-GGAAAAG
+q felCat3.scaffold_217398 999999999999999999999999-99-9999999999-99----9999999999999999999999999999-999999-999999999999---999999999--------999999999-999999999999999-999999---999999999999999999------99-----99999999999999997-7999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13022691 168 + 24938454 ATCTTAACCACAGTGGAAAGGAGG-CT-GGGGGCTGGG-AGAGCCAACAATATACACTTACAG-TAAGTTGCA-TGCACA-AAATCTCAAGTT---ACTTTGGCA--------CAAGTTTTA-CACTTGAAAGTCTCT-TCCAGG---TGCTTCCTCTTGAACA--------AA-----AAAAGTTAGAATCCCGT-GGAAAAG
+q equCab1.chr31 999999999999999999999999-99-9999999999-999999999999999999999999-999999999-999999-999999999999---999999999--------999999999-999999999999999-999999---9999999999999999--------99-----99999999999999999-9988888
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13688387 170 - 95030419 ATTTTAACCACAGTGTGAAGGCAT-GT-GGGGG-TGGG-GGAACCTACCATATAGAGTTACAG-TAAGTTGCA-AGCACA-CAACCTCAAATTATGACTTTGGCA--------CAAATTTTA-CATTTGTAAGTCTCT-TCCAGG---TGCTTCCTCCAGACC---------AA-----AGACGATAGAATTCCACAGAAAAAA
+q bosTau3.chr9 999999999999999999999999-99-99999-9999-999999999999999999999999-999999999-999999-999999999999999999999999--------999999999-999999999999999-999999---999999999999999---------99-----9999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_40472 9514 172 - 17534 ATCCCAACCAGAGCGTGCAAGGGG-CT-GGGGGTTGGG-GGCACCCACACTCTACGGTTACAG-TAAGTTGCA-AGTGTA-AAATCTCACATT---ATGCTGGCA--------CATGTTTTT-AATTTGAGTGTCGCT-TCCAGG---TGCTTCCCCTTGAACAAAAA----AA-----AAAAGTCAAAATCCCAT-CTGAAAG
+q dasNov1.scaffold_40472 999999999999999997899999-99-9999999999-999999999999999999999959-999999999-999999-999999789999---999999999--------999999999-999999999999999-999999---99999999999999999999----99-----99999998999999799-7999999
+i dasNov1.scaffold_40472 C 0 C 0
+s echTel1.scaffold_324002 6552 169 + 49972 ATCTCGCACA---CGTGTGGGGAGTCT-GGGGGCTGGG-GA---CCACACTCCACAGCCACAG-AAAGCTGCA-GGTTCA-AGATCAGAGATT---CCTGTGGCATGTGTGTGCACATTTTT-AATTTCCACGTCA-G-TCCAGG---TGCTTCCTCT----CCAAGG----GA-----AAATGTGAAACCCCCAG--TGTCAG
+q echTel1.scaffold_324002 9999999999---99999999999999-9999999999-99---9999999999999999999-999999999-999999-999999999999---99999999999999999999999999-9999999999999-9-999999---9999999999----999999----99-----99999999999999999--999999
+i echTel1.scaffold_324002 N 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+
+a score=358209.000000
+s mm9.chr10 3162822 164 + 129993255 CACAATTTATTATTGATATTTTA-ACAGAATCTG-TCTTGAAGCGGTGCTTTGGAAACAGAAATGCTTCCTGGGTAAGACGTCCATAGTCT------TAGGT---TCTTGTTGCATGCGCGTGTCCTTAACTGTAT---GTAGCAGGGGG--CTC--------A------GCACTAATCATTGTCAGCC--CCGGG
+s echTel1.scaffold_324002 6721 138 + 49972 AGCACTCC-----------------------CTG-ACTGGAACTGT------GGGAACACA----------------CAGACCCTGGGTTCCCCGCACAGGTCCAGTGCACCCCACCCAGGCGCCTCCCT----CC---T---TGGGGTGTCTCCAAGGGCTGGGCTGGAGCGGCCACCCTTGTCGGCC--TGGCC
+q echTel1.scaffold_324002 99999999-----------------------999-99999999999------999999999----------------99999999999999999999999999999999999999999999999999999----99---9---9999999999999999999999999999999999999999999999--99999
+i echTel1.scaffold_324002 C 0 C 0
+s dasNov1.scaffold_40472 9686 151 - 17534 AAGACTTTA---T------TTTT-CACGAAGCCA-TTTGGAAATAA------GTAAACGCAAACATGTCCCAAT---AAGGGCCAGGGTTC------CAGTT---GTGTGTTGCATTCTTGTGACTCATT----TT---TAGCTGGGGGGCCGTC--------TGTTTGTGTGG-TATCCTCATCAGCCCTTTGTT
+q dasNov1.scaffold_40472 999977999---9------9999-9599999995-99999999999------9999999999999999999999---99999999999999------96999---9999999999999999999999799----99---9999999999999999--------99999999999-999999979989999999999
+i dasNov1.scaffold_40472 C 0 C 0
+s bosTau3.chr9 13688557 142 - 95030419 GACACTGGG---T------TATT-TAAAAAGCCA-TTTTGCAACAC------GTGAACACGACCATTTCACAA----AGC------CGTCA------CAGTT---CTGAATTGCACATCTTCCTATTAAT----CT---TTCGCAGGGGG--CTC--------GATTTGTGTGGTGATCACTGTCAGCCC-TGGTT
+q bosTau3.chr9 999999999---9------9999-9999999999-99999999999------999999999999999999999----999------99999------99999---9999999999999999999999999----99---99999999999--999--------999999999999999999999999999-99999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13022859 148 + 24938454 GCCACTTTC---T------TTTT-ACAAAAGCCA-TTTTGAAATAT------ATAAACATAAACATTTCACAGGAGGGACGTC---CATCG------TTGTT---CTCGGTTGCACATTCTTGTATTAAT----TT---TTAGCA-GAGG--CTC--------GATTTGTGCAGTAATCATTGTCAGCCC-TTGTT
+q equCab1.chr31 888888888---9------9999-9999999999-99999999999------9999999999999999999999999999999---99999------99999---9999999999999999999999999----99---999999-9999--999--------999999999999999999999999999-99999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 90179 149 - 219823 GACAGTTCG---T------TTTT-TAAAAAGCCG-TTTTGAA--AC------ATAAACACCAGCATTTCACAGTAGGGGCGTCTGTTGTTG------TAGTT---CTTTGCTGCACATTCTTGTATGAAT----TT---TTAGCA-GGGG--CTC--------CATTTGTGCGCTAATCACTGTCAGCCC-TTGTT
+q felCat3.scaffold_217398 999999999---9------9999-9999999989-9978999--97------999999999999999999999999999999999999999------99999---9999999999999999999999999----99---999999-9999--999--------999999999999999999999999899-99999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78230009 145 - 125616256 GACACTTTAT--T------TTTT-TAAAAGGCCA-TTTGGAAAGAC------GTAAACACCGACATTTCAC------GGCGTCTG-CGCCG------TTGTT---CTGTGCTGCACGTCCTTGTATTAAT----TT---GTAGCA-AGGG--CTC--------CTTTTGTGAAGTGATCATCCTCAGCCC-TTGTT
+q canFam2.chr1 9999999999--9------9999-9999999999-99999999999------9999999999999999999------99999999-99999------99999---9999999999999999999999999----99---999999-9999--999--------999999999999999999999999999-99999
+i canFam2.chr1 C 0 C 0
+s hg18.chr6 16057416 156 - 170899992 GACACTTTATTTT------TTTT-AAAAGAGCCA-TCTTGAAATAT------GTAAGCACAAACATTTCCCAATAGAGACGTCCATAATTT------TCGTT---CTGTGTTGCACATTCTCGTCTTGAA----TT---GTAGTGGGGGG-CCTC--------GATGTGTGCAGTAATTATTGTCAGTCC-TTGGT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16580351 155 - 173908612 GACACTTTATTTT------TTTT-AAAATAGCCA-TCTTGAAATAT------GTAAGCACAAACATTTCCCAATAGAGACGTCCATAATTT------TCATT---CTGTGTTGCACATTCTCGTGTTGAA----TT---GTAGTGGGGGG--CTC--------GATGTGTGCAGTAATTATTGTCAGTCC-TTGGT
+q panTro2.chr6 9999999999999------9999-9999999999-99999999999------999999999999999999999999999999999999999------99999---9999999999999999999999999----99---99999999999--999--------999999999999999999999999999-99999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16362769 156 - 174210431 GACACTTTACTTT------TTTTAAAAAAAGCCA-TCTTCAAATAT------GTAAGCACAAACATTTCCCAATAGAGACATCCATAGTTT------TCGTT---CTGTGTTGCACAGTCTCGTCTTGAA----TT---GTAGTGGGGGG--CTC--------GATGTGTGCAGTAATTATTGTCAGTCC-TTGGT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108465003 155 + 167655696 GACACTTTATTTT------TTTT--ACGAAGCCA-TTTTGAAATAT------GTAAGCACAAACATTTCCCAATAGAGACGTTCATAGTTT------TCGTT---CGGTGTTGCACATTCTCGTCTTGAA----TT---GTGGCGGGGGG-GCTT--------GATGTGTGCAGTAATTATTGTCAGTCC-TTGGT
+q rheMac2.chr4 9999999999999------9999--999999999-99999999999------999999999999999999999999999999999999999------99999---9999999999999999999999999----99---99999999999-9999--------999999999999999999999999999-99999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 29418 152 - 523245 GACGCTTTACTTT------TTTA--AAAAAGCCA-TTTTGTAATAT------GTAAACACAAACATTTCCCTATAGAGTCATCCACAGTTT------TCGTT---CTATGGTGCACATTCTCATCTGGA----------GTAGCAGGGGG-GCTC--------TATGTGTGCAGTAATTATTGTCAGTCC-TCGGT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 322041 153 - 359464 GA---TTTCCATG------TTTT--AAAAAGTCA-TTTTGAAGTAT------GTAAACAGAAACATCTCCCAAGCGGGCCAGCCATCGTTG------G-GTT---CCGTGTGGTACATTCTCGGCGTGAA----TTGTAGTAGTGGGGGG--CTC--------GATTTGGGTGGTGATCATTGTCAGCCC-CTGGT
+q otoGar1.scaffold_334.1-359464 99---99999999------9999--999999999-99999999999------999999999999999999999999999999999999999------9-999---9999999999999999999999999----9999999999999999--999--------999999999999999999999999999-99999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 366553 147 - 498454 GATGCTTTATTTT------TT---AAAAAAGCCATTTTTTAAATAC------ATAAACACAAACATGCCCCAGCAGGGACACCCATAGTTT----------------GAGCTGCACATGCTCATCGTTAA----TT---TTAGCAGGGGG-GTTT--------GATTTGTGTGGTGATCGTCGTCAGGCC--CGGT
+q tupBel1.scaffold_114895.1-498454 9999999999999------99---9999999999999999999999------999999999999999999999999999999999999999----------------99999999999999999999999----99---99999999999-9999--------999999999999999999999999999--9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s cavPor2.scaffold_284118 54075 142 - 169015 -------------------tttt-ttaaaagtca-ttttgaaATAG------GTAAACACAAACATTTCCCAATTGGAACATCCGTAGTGT------GAGTT---CTGTGCTGTAGATGCTCATCATTAG----TT---TTAGCAAGGAG--CTT--------GTTTCGTGTGGTAATCATTGTCAGCCT-TTGGT
+q cavPor2.scaffold_284118 -------------------9999-9999999999-99999999999------999999999999999999999999999999999999999------99999---9999999999999999999999999----99---99999999999--999--------999999999999999999999999999-99999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229979391 160 - 267910886 CACAATTTGTTACTATCATTTTT-AAAGAAGCCA-TTTTGAAACAGTGCATCAGAAACAGAAATGTTTCCTGGGTAGGACGCCCACAGTCT------TGGGT---TCTTGTTGCAGGCTCTCATCCTTAA----GT---GCAGCAGGGGG--CTC--------A------GTACTAATCATTGTCAGCC--CTGGG
+q rn4.chr1 99999999999999999999999-9999999999-99999999999999999999999999999999999999999999999999999999------99999---9999999999999999999999999----99---99999999999--999--------9------9999999999999999999--99999
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106176475 18814 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=1026593.000000
+s mm9.chr10 3162986 154 + 129993255 TGACTCATGCATTCCTGG--CT----------GGTCTGTGTTTATGTGGAATAGGGAAATGGTTG-------CC-------------C--CCTCTTTCTTCCATG-CTA---------------------GGTT--GAGCAGCTGAGCTC--CCC-ACTT--GTTATTTTTAATGGGCCCT-ACTTTTGGGGCTCCAGCTGGGGCTTGAGGAGGGACA
+s rn4.chr1 229979551 155 - 267910886 TGACTCATGCATTCCTGG--CC----------ACTCTGTGTTTATGTGGAATATGGAAACCATTG-------CC-------------C--CCTCTTTCTTCCATGCCTT---------------------GATT--GAGCAGCTGAGGTC--CTC-ACTT--GTTATTTTTAAGGGGCCTT-ACTTTTGGGGCTCCAGCTGGGGCTAGAGGAGGGACA
+q rn4.chr1 999999999999999999--99----------999999999999999999999999999999999-------99-------------9--9999999999999999999---------------------9999--99999999999999--999-9999--9999999999999999999-999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54217 174 - 169015 TGACTCATGCATTCCTGA--GTGTCACAGTAAGATCTGTGTTTATGTGAAATATGGAAACGAttt-------cc-------------cctcttctttcttttgtg-ctTGAGTT-AG-------------GATG--GGGCAGCTGAGCTCT-CTT-CTTT--GTTACCTTTAAGGAGTCTC-CAGTGTTGAGCTCTGGGTAGAGCTTGAGAGGGGACA
+q cavPor2.scaffold_284118 999999999999999999--999999999999999999999999999999999999999999999-------99-------------999999999999999999-99999999-99-------------9999--999999999999999-999-9999--9999999999999999999-999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 366700 177 - 498454 TGACTCACGCATTCCTGA--CGGTCGCAGTAAGATCTGTGTTTACAAGAAATATGGAAACGATTT---CCC-CC-------------C--CCTCTTTCTTCTGTG-CTTGAGTT-GG-------------GATG--CAGCAGCTGAGCTCCTTTT-CTTT--GTTGTTTTTTAGGGGTCTTGGGTTTCAAAACTAGAGTTTGGGCTTGAGGAGGGACA
+q tupBel1.scaffold_114895.1-498454 999999999999999999--999999999999999999999999999999999999999999999---999-99-------------9--909999999999999-99999999-99-------------9999--9999999999999999999-9999--99999999999999999999999999999999999999999999999999999989
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 322194 180 - 359464 TGACTCATGCATTCCTAA--CTGTCGCTGTGAGATCTGTGTTAATGTGAAATATGGAAACGATTT---TTTCCC-------------C--TCCTCTTCTTTTGGG-CTTGAGTT-GG-------------GACGCAGAGCAGCCGAGTTCCTTTT-CTTT--GTTATTTTTAGGGGGTCTTTGGGTTCAGGGCTCTGGTTTAGGCTTGAGCAGGGCCA
+q otoGar1.scaffold_334.1-359464 999999999999999999--999999999999999999999999999999999999999999999---999999-------------9--999999999999999-99999999-99-------------9999999979999999999999999-9999--99999999999999999999997999999999999999999999999999997399
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 29570 155 - 523245 TGACTCATGCATTCCTAA--CTGTCGCAGTGAGATCTGTGTTTATGTGGAATATGGAAACGATTT-------CC-------------C--CCCCTC----------------------------------GATG--GAGTGGCTGAATTCTCTTT-CTTT--GTTATTTTTAGGGGGTCTTCAGTTTTGGAGCTCTAGTTTAGGCTTGAGGAGGGCCA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108465158 177 + 167655696 TGACTCATGCATTCCTAA--CTGTCGCAGTGAGATCTAAGTTTATGTGAAATATGGAAACGATTT---CTC-CC-------------C--CCTCTTCCTTTTGTG-CTCGAGTT-CG-------------GACG--GAGCAGCTGAATTCTCTTT-CTTT--GTTATTTTTAGGGGGTCTTCAGTTTTGGAGCTCTAGTTTAGGCTTGAGGAGGGCCA
+q rheMac2.chr4 999999999999999999--999999999999999999999999999999999999999999999---999-99-------------9--999999999999999-99999999-99-------------9999--9999999999999999999-9999--99999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16362925 177 - 174210431 TGACTCATGCATTCCTAG--CTGTTGCAGTGAGATCTGTGTTTATGTGAAATATGGAAACGATTT---TTC-CC-------------C--CCTCTTTCTTTTGTG-CTTGAGTT-CG-------------GATG--GAGCAGCTGAATTCTCTTT-CTTT--GTTATTTTTAGGGGGTCTTCAGTTTTGGAGCTGTAGTTTAGGCTTGAGGAGGGCCA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16580506 178 - 173908612 TGACTCATGCATTCCTAG--CTGTCGCAGTGAGATCTGTGTTTATGTGAAATATGGAAACGATTT---TTACCC-------------C--CCCCTTTCTTTTGTG-CTTGAGTT-TG-------------GATG--GAGCAGCTGAATGCTCTTT-CTTT--GTTATTTTTAGGGGGTCTTCAGTTTTGGAGCTCTAGTTTAGGCTTGAGGAGGGCCA
+q panTro2.chr6 999999999999999999--999999999999999999999999999999999999999999999---999999-------------9--999999999999999-99999999-99-------------9999--9999999999999999999-9999--99999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16057572 177 - 170899992 TGACTCATGCATTCCTAG--CTGTCGCAGTGAGATCTGTGTTTATGTGAAATATGGAAACGATTT---TTA-CC-------------C--CCGCTTTCTTTTGTG-CTTGAGTT-TG-------------GATG--GAGCAGCTGAATGCTCTTT-CTTT--GTTATTTTTAGGGGGTCTTCAGTTTTGGAGCTCTAGTTTAGGCTTGAGGAGGGCCA
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78230154 188 - 125616256 CCCCTCACACGTTCCCAG--CTGCTGCAGGAAGATCTGTGTTGATGTGAAATATGGAAACGATCT---CCC-CTACCCCCACCACCAC--CTTGTTTCTTTGGTG-CTTGAGCT-GG-------------GATG--TAGCAGCTGAG--GTTTTC-CTGT--GTTATTTTTAAAGGGTCTTCAGTTTCAGAACTGTAGTTTGGGCTCGAGGAGGGACA
+q canFam2.chr1 999999999999999999--999999999999999999999999999999999999999999999---999-9999999999999999--999999999999999-99999999-99-------------9999--99999999999--999999-9999--99999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 90328 176 - 219823 TGACTCACACATTCCTCG--CTGCCGCAGTAAGATCTGTGTTTATGTGAAATATGGAAACGATTT---TTC-CC-------------C--GTTTTTCCTTTGGTG-CTTGAATTGGG-------------GGTG--GAGCAGCTGAG--GTTTTC-TTTG--GCTGTATTTAAAGGGTCTTCAGTTCTGGGACTGTAGTTTGGGCTTGAGGGGGGACA
+q felCat3.scaffold_217398 945355554535534647--445536764455554445565757456558566465584665589---867-73-------------2--027776222767665-57356565798-------------8558--55596955757--468885-8846--75565799468788396989968965999996989999799989799998999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13023007 171 + 24938454 TGACTCATGCATTCCTCA--CAGCCGCAGTAAGATCTGTGTTTATGTGAAATATGGAAACGATTT---TTC-CC-------------C--CCTGTCTTT---GTG-CTTGAGTT-CC-------------GATG--GAGCAGCTGAA--TTTTTC-CTTT--GTTATTTTTGAAGGGTCTTCA-TTTCAAAACTCTAGTTTGGGCTTGCGGAGCGACA
+q equCab1.chr31 999999999999999999--999999999999999999999999999999999999999999999---999-99-------------9--999999999---999-99999999-99-------------9999--99999999999--999999-9999--999999999999999999999-9999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13688699 176 - 95030419 TGACTCATGCATTCCTCG--CGGCCGCAGTAAGATCTGTGTTTATGTGAAATATGGAAACGATTT---CTC-CT-------------C--CCTCTTTCTTCTGTG-CTTGAGTT-GG-------------GATA--CAGCCGCTGAGTTGTTTTC-CATT--GTTATTTTTAAAGGGTCTTCAGTTTCAGAATTCCAGTCTGGGCTTGA-GCGGGACA
+q bosTau3.chr9 999999999999999999--999999999999999999999999999999999999999999999---999-99-------------9--999999999999999-99999999-99-------------9999--9999999999999999999-9999--99999999999999999999999999999999999999999999999-99999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_40472 9837 180 - 17534 TGACTCATGCATTCCTAA--GTGTAGCAGTAAGATCTGTGTTTACATGAAATATGGCAGCCGTTCCCCCAT-CC-------------C--CCTCTTGCTTTTGTG-CCTGAGTG-GG-------------GCCT--GAGCAGCTGAGCTCTTTGC-CTTT--GTTATTTTTAAGGGGTCTTTGGTTTCGGAGCCCTAGTTTGGGCTTGAGTAGGGACA
+q dasNov1.scaffold_40472 999999689979999999--999999989999999999999999979999999999999998999979769-99-------------9--998989999999999-99999999-99-------------9999--9999999999999999999-9999--99999999999999999999999999799999999999999999999999999999
+i dasNov1.scaffold_40472 C 0 C 0
+s echTel1.scaffold_324002 6859 179 + 49972 TGACTCACGCATTCCTAA--GTGGAGCCGTCAGATCTGTGTTTATGTGAAATATGGAAACGATT----TAA-CC-------------C--CCTGTGG------------GAGGG-GGGTACTCCACTTCAGCCA--GTGCAGCAGGGCTGGCTGCTCTTG--GCCATTTTTCAGGGGTCTAGGGCTGCAGAACTCTGCCAGGGGTTGGTGGAGAGTCA
+q echTel1.scaffold_324002 999999999999999999--99999999999999999999999999999999999999999999----999-99-------------9--9999999------------99999-9999999999999999999--999999999999999999999999--99999999999999999999999999999999999999999999999999999999
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106195289 171 - 541556283 TGACTCATACATTCCTAAACTTGCAACAGGAAGATCTATGTTTATATGAAATAGGGGAAGACACT-------CC-------------C--CCCCACCCCTTTGTT-----AACT-AA-------------AGAT--GAACAGCTGAGCCATTTTT-CATTCCCTTGTTTTTAGGGGGCTTCCTAGTCCTAGGC---AGTTCTGGCCTGAAGCAAAGCA
+q monDom4.chr2 99999999999999999999999999999999999999999999999999999999999999999-------99-------------9--999999999999999-----9999-99-------------9999--9999999999999999999-9999999999999999999999999999999999999---9999999999999999999999
+i monDom4.chr2 I 18814 I 8811
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=410443.000000
+s mm9.chr10 3163140 253 + 129993255 GCTGGCAGTATGGCCCAGGC-TGTCT-CATGAGGTCAGGCTAACATTCCAGAAGTT--ATAACCT----------------------CAGGAC-CTCCCACGGAAATG-----TGAGCCCT--CCTTTTCTACG--GTTCACTTGCCCAGCA---CAGAGAAC---ACGGAA--GCTGGGGCAACA--GCAGAACTGCCTGAACTGAGAA-AAAAA---------------TTA-ACTCTTGTCACCTTCACTGGGA--------GCCTTGTGTTTTATGTCCTG--TGGTGT---TT-----------------------TCTCCCTGT----GGTGTTTCCAGTTGCCCAT----CTG
+s rn4.chr1 229979706 249 - 267910886 GCTGGCAGTATGGCC--------------------CAGGCTAACATTCCAGAAGTT--ATAACCTCCTTGGGA----TC--CGAACCCAGGAC-CTCCCACGGAAATG-----TGAACTCT--TCTCGTCTATG--GCTCATTTGTCCACCA---CGGGGAAC---ACGGAA--ACTGGGGTAGCA--GCAGAGCAG-CTGAACTGAGAG-AAAAA----------------GG-ACTCTTGTCACCTTTATTGGGA--------GCCTTGTGTTTTATGTCCTA--TGGTGT---TT-----------------------TCTTTTCTC----CCTCACTCCAGATGCCCAT----CTG
+q rn4.chr1 999999999999999--------------------999999999999999999999--999999999999999----99--999999999999-99999999999999-----99999999--99999999999--9999999999999999---99999999---999999--999999999999--999999999-999999999999-99999----------------99-9999999999999999999999--------99999999999999999999--999999---99-----------------------999999999----9999999999999999999----999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54391 243 - 169015 GCTGGCATTGTGACCCAGAA-GGTCTGCCCGATGTCTGGCTACCAGTTGTGTAGTT--CTGACCT-------------------------------CCCTGGGAAATG-----AGTGCCTT--TCTTTTTTGCC--TAACAGTGGGGAGGAG---TGGAGGGG---AAGGAA--AGTAGAGTAATG--GTGGAATCT-CCAGAGGGAGGA-TTTAC---------------TTG-GAATTTGTCTCCTTTATTGGGA--------GCC--ACGACTTGTGTCCTGGTCactgc---tt-----------------------tcatttctt----ccc--CTTCAGCTGACCTT----CTG
+q cavPor2.scaffold_284118 99999999999999999999-99999999999999999999999999999999999--9999999-------------------------------999999999999-----99999999--99999999999--9999999999999999---99999999---999999--999999999999--999999999-997999999997-69999---------------999-9999999999999999999999--------999--99999999999999999999999---99-----------------------999999999----877--99997999999999----999
+i cavPor2.scaffold_284118 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 366877 235 - 498454 GCTGGCAGTGTGCCTCAG----------------CCTGGCTCACGTTTCTGCACTT--CTAAGCC-----GAG----TC--CGAATCCCGCACCCTCCCACTGATGTG-----AGAGGCTC--TCACTTCTACCACGTGGATTTGCTTTGCA---CTGAAAACAAAATGGCA--ACTAAAATAACG--GGA--GGAGACGGCACTGAAAG-AAGAA----------------------------TTGTTTATCGTTA--------GTCACC--TCTTGTGGGCCAGCCACTGC---CT-----------------------TTTCCCCTA----------TCCACCTG-CCTT----CTG
+q tupBel1.scaffold_114895.1-498454 999999999999999999----------------9999999999999999999999--9999999-----999----99--999999999999999999999999999-----99999999--99999999999999999999999999999---99999999999999999--999999999999--999--99999999999999999-99999----------------------------9999999999999--------999999--99999999999999999999---99-----------------------999999999----------99999999-9999----999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 322374 236 - 359464 GCTGGCGGCGTGGCTCCGGCTGGCCTTGGTGAGGTCTGGCTCACGTTTCTGCAGTG--AGAACCT-----GACTCTGTC--TGAATCCGGCCCGCTTGCTCAGAAACG-----GGAGCCTC--TTTCTTCTCCAACTTTCATTTGCCCCACATTTTTGAAAACAGAATGGAA--ATTCAAATAAAA-------GGAATCTGCGCTGAAAG-AAGAA--------TGTTTTACTG-GGATCTGTCTTCTTTCTGGGGA--------CATACGGGTCTTGG---------------------------------------------------------------------------------
+q otoGar1.scaffold_334.1-359464 99998799999946999965999799999999999999789999999999999999--9999799-----999999999--999999999999979994999999999-----69979999--9999999997899999989999999999999999979999999979499--979989999999-------97478977779999969-89983--------4789989799-9996979598897999899996--------68997996499695---------------------------------------------------------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 29725 283 - 523245 GCTGTCAGCGTGGCTTGGGCTGGTCTTTATGAGATCTGGCTGGTGTTTCTGCAGTT--AGAACCT-----GAT----TT--TGAATCCAACCCCCTTCCACTGACATG-----GGAGGCTC--TCACTTCTACAGCTTTTATTTGCCCCACA---TTGAAAACAGAATGGAA--ATGAAAATAACA--GAAGTGGAATCTCCACTGAAAG-A----------TTTTTTTCCTCT-GAATTCATCTCCTTTATTGGGA--------GCCATATGTCTTGTGTCCTGACCACTGC---GT-----------------------TTTTTTCTTTTTGTTTTCCTGCAACTGACTTT----CTG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108465335 282 + 167655696 GCTGTCAGCATGGCTTGGGCTGGTCTTTCTGAGATCTGGCTGGTGTTTCTGCAGTT--ACAACCT-----GAT----TC--TGAATCCAGCTCCCTTCCACCCACATG-----GGAGGCTC--TCACTTCTACAACTCTTATTTGCCCCACA---TTGAAAACAGAATGGAA--ACTAAAGTAACA--ATAGTGGAATCTGCACTGAAAG-AA-------TTTTTTTTCTCTCT-GAATTCATCTCCTTTATTGGGA--------GCTGTATGTCTTGCGTCCTGGCCACTGC---CT-----------------------TTTTTCCCT----TTTTCCTCCAACTGACTTT----CTC
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999--9999999-----999----99--999999999999999999999999999-----99999999--99999999999999999999999999999---99999999999999999--999999999999--9999999999999999999999-99-------99999999999999-9999999999999999999999--------9999999999999999999999999999---99-----------------------999999999----9999999999999999999----999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16363102 272 - 174210431 GCTGTCAGCGTGGCTTGGGCTGGTCTTTATGAGATCTGGCTGGTGTTTCTGCAGTT--AGAACCT-----GAT----TC--TGAATCCAACTCCCTTCCACCGACATG-----GGAGGCTC--TCACTTCTACAA-TTTTATTTGCCCCACA---TTGAAAACAGAATGGAA--ACTCAAGTAACA--GTAGTGGAATCTGCACTGAAAG-AATAA----TTTTTTTTTTCTCT-GAATCCATCTCCTTTATTGGGA--------GCCATTTGTCTTGAGTCCTGGCCA-------CT-----------------------TTTTTCC------------TCCAACTGACTTT----CTG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16580684 284 - 173908612 GCTGTCAGCGTGGCTCGGGCTGGTCTGTATGAGATCTGGCCTGTGTTTCTGCAGTT--AGAACCT-----GAT----TC--TGAATCCAACTCCCTTCCACCGACATG-----GGAGGCTC--TCACTTCTACAA-TTTTATTTGCCGCACA---TTGAAAACAGAATGCAA--ACTCAAGTAACA--GTAGTGGAATCTGCACTGAAAG-AATAATTTTTTTTTTTTTTCTCT-GAATCCATCTCCTTTATTGGGA--------GCCATTTGTCTTGAGTCCTGGCCA-------CT-----------------------TTTTTCCTT----TTTTCTTCCAAATGACTTT----CTG
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999--9999999-----999----99--999999999999999999999999999-----99999999--999909999999-9999999999999999---99999999999999999--999999999999--9999999999999999999999-99999999999999999999999-9999999999999999999999--------999999999999999999999999-------99-----------------------999999999----9999999999999999999----999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16057749 283 - 170899992 GCTGTCAGCGTGGCTTGGGCTGGTCTTTATGAGATCTGGCCTGTGTTTCTGCAGTT--AGAACCT-----GAT----TC--TGAATCCAACTCCCTTCCACCGACATG-----GGAGGCTC--TCACTTCTACAA-TTTTATTTGCCTCACA---TTGAAAACAGAATGGAA--ACTCAAGTAACA--GTAGTGGAATCTGCACTGAAAG-AAT-ATTTTTTTTTTTTTTCTCT-GAATCCATCTCCTTTATTGGGA--------GCCATTTGTCTTGAGTCCTGGCCA-------CT-----------------------TTTTTCCTT----TTTACTTCCAAATGACTTT----CTG
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78230342 284 - 125616256 GCTGGCAGCGTGGCCCTGCCTGGTCCTCAGGAGGTCCAGCTAGCATT--TGCAGCT--GAAACCC-----CAC----TC--TGCATCCAGCATCCTCACACTGACATG-----GGAAGCTC--TTCCTCCTAAACCT-------------CA---TTGAAAACAAAATACGA--CGTAGAATAATG--GTGGGGGAATCTGCTCCAAAGG-AGGCA-------TTTCTTTCCTT-GAATCTGTCCCCTTTATCGGGA--------GCCGTG--TTTTATGCTCTAATTTCTGC---CCCCCTGACTGCCCCCGGCCCACAATTTTTTC--------CTTCTTCATCTGCCCTT----CTG
+q canFam2.chr1 99999999999999999999999999999999999999999999999--9999999--9999999-----999----99--999999999999999999999999999-----99999999--99999999999999-------------99---99999999999999999--999999999999--9999999999999999999999-99999-------99999999999-9999988999999999999999--------999999--99999999999999999999---99999999999999999999999999999999--------99999999999999999----999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 90504 231 - 219823 GCCGGCTGCGTGCTCCAGGCCGGTCCTCGTGGGATCTGGCTAACGTT--TGTGCCTCGAAAACCC-----GCC----TC--TGAATCCAGCATCCTCACACTGAAACG-----GGAGGCTC--TCCCTTCTAAAACTTTGATTTGCCCAACA---TTGAAAACGAAATGGAAACCATAAAATAATG--GCAGAGGGGTCTGCCCTGACGG-CGGAA-------TTTCTTACCCT-GAATCCATCCCCTTTAGCAAGA--------GCCATA---------------------------------------------------------------------------------------TG
+q felCat3.scaffold_217398 79799789989989999999997999999899999889999999999--9999999999999999-----999----97--999899999989999999989999999-----99999999--99999999999999999999999999999---9899999999999999999999999999999--9999999999999999999999-99999-------99999999999-9999999999999999999999--------999999---------------------------------------------------------------------------------------99
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13023178 285 + 24938454 GCTGGCAGCATGGCCCAGGCTGGTCCTCATGGAATCTGGCTAACATTTCTGTAGCT--AAAACCT-----GAC----CC--TGAATCCAGCATCCTTACGCCGAAACA-----GGAGGCTCTGTGCCTTCTAAACTT-TGACTTGTTCAACA---TTGCAAACAAAATGAAA--ACTAAAATAATG--ACAGAGGAATCTGCACTGAAGGAAAGAA-------TTTTTTACCCT-GACTTTGTCTCCATTTTTGAAA--------GCCATATGTGTTGTGTCTTAGTCCCTGC---TT-----------------------TTTTTTCCC---CGTCTCCTTCAACTGCCCTT----CTG
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999--9999999-----999----99--999999999999999999999999999-----999999999999999999999999-99999999999999---99999999999999999--999999999999--9999999999999999999999999999-------99999999999-9999999999999999999999--------9999999999999999999999999999---99-----------------------999999999---99999999999999999999----999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13688875 264 - 95030419 GCTGGCAGTGTGGCTTAGGCTGGTCTTCGTGCGATCTGGC--------------CT-------------------------TGGATCCGGCATCCTTACCCCAAAACA-----GGAGGCCC--TCCTTTCTAAAACTCTGATGTGTCCAACC---CTGAAAACAAAGTGGAA--GCTAAAATAGTG--GTAGAGAAATCTGCACTGATGG-AAGAA-----GTTTTTTTACCCTAAAATCTGTCTTTTTTATCAAGC--------CCCATATGTCTTGTGTCTTGGTCTCTGC---TG-----------------------TTTTTTTTT---TTTTTTTTTTGCCTTCTCCTTCAACTG
+q bosTau3.chr9 9999999999999999999999999999999999999999--------------99-------------------------999999999999999999999999999-----99999999--99999999999999999999999999999---99999999999999999--999999999999--9999999999999999999999-99999-----999999999999999999999999999999999999--------9999999999999999999999999999---99-----------------------999999999---999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_40472 10017 247 - 17534 GCTGACAGGGTGCTTTACTCCAGCCTTTTCGAGGTCTGGCTAGCATAGCTGCAGTC--ACAGCTT-----GAC----TCATTGAATCCAG--------------CACGAAACCAGAGCCTC--CCACTTCCAAAATGCTTACTTGCCCCATG---TTG-AAGCAAAATGGAA--GCCAAAATAACAGTACTTAGGAATCTGGGCTGCAGA-GAGAC-------TTTCCTACCCT-AGATTAGTCCCCTTTATCAGGAGCCAACCAGCCATATG---------------TCTGG---TT-----------------------ATCCATCCG------------------------------
+q dasNov1.scaffold_40472 99999999999999999999969999999959999999999999999999999999--8989999-----999----9999999999959--------------99999999999999999--99899999999999999999999999999---999-9989999999999--999699999998999999999997999999999999-99999-------79877589897-99999987867879998657998676877777779999---------------84599---99-----------------------999879896------------------------------
+i dasNov1.scaffold_40472 C 0 I 66
+s echTel1.scaffold_324002 7038 229 + 49972 GCTGGCAGGTGGCAC----------------AGGGCTGGCAAACATTTTGTTGGCC--AGACCCT-----CCC----TC--TGAACCCAGTCTCTGTCGTTGGTCAGG------GAGGCTC--TCCTTTCCAGAATACTTTAGTGCCCACCG---TGGAAAACCAAATGG--------AAATAACC---------CATCTCCAC--CAAA-GGAGA-------CGGCATACCCT-AATTCAGGCCCCT----------CTAACCCACCACAGGGTTTGCTTTCTGATCTCTGACCTTT-----------------------GTTCTTCCA------------------------------
+q echTel1.scaffold_324002 999999999999999----------------9999999999999999999999999--9999999-----999----99--999999999999999999999999999------9999999--99999999999999999999999999999---999999999999999--------99999999---------999999999--9999-99999-------99999999999-9999999999999----------9999999999999999999999999999999999999999-----------------------999999999------------------------------
+i echTel1.scaffold_324002 C 0 I 11
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=-27716.000000
+s mm9.chr10 3163393 49 + 129993255 TTTGGAAAGCGCAGGGCCGG-GGAAAGGGTAGC-TGAGTGGTGAGAG----G-------------------------------CTC
+s rn4.chr1 229979955 80 - 267910886 TTTGGGAAGTACAGGGCTGG-GGACAGGGTGGC-TGAGTTGTGAGAG----GCTGCTGAGAAGGGAAGAAGTGTGTCCTTCTCCTC
+q rn4.chr1 99999999999999999999-999999999999-9999999999999----99999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54634 47 - 169015 CTTGGGAATCATAAGGCTGG-GAAAGGTGTAGCTTGGATTGTTAAAG----T----------------------------------
+q cavPor2.scaffold_284118 99999999999999999999-99999989999999999999999999----9----------------------------------
+i cavPor2.scaffold_284118 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 367112 49 - 498454 TGTGGGTGTCATTAGGACAG-AAAAGTGTAGAC-TGAATCATTAAAGACCC-----------------------------------
+q tupBel1.scaffold_114895.1-498454 99999999999999999999-999999999999-99999999999999999-----------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 50
+s otoGar1.scaffold_334.1-359464 322610 1 - 359464 --------------------------------------------------C-----------------------------------
+q otoGar1.scaffold_334.1-359464 --------------------------------------------------6-----------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 30008 24 - 523245 TTTGGGTGTCTTAAGGATGG-GGAA-------------------------------------------------------------
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108465617 45 + 167655696 TTTGGGTGTCTTAAGGATGG-GGAGGTGTAGGC-TGTGTTTTTAAAG---------------------------------------
+q rheMac2.chr4 99999999999999999999-999999999999-9999999999999---------------------------------------
+i rheMac2.chr4 C 0 I 47
+s ponAbe2.chr6 16363374 24 - 174210431 TTTGGGTGTCCTAAGTATGG-GGAG-------------------------------------------------------------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16580968 22 - 173908612 TTTGGGTGTCCTAAGGATGG-GG---------------------------------------------------------------
+q panTro2.chr6 99999999999999999999-99---------------------------------------------------------------
+i panTro2.chr6 C 0 I 65
+s hg18.chr6 16058032 45 - 170899992 TTTGGGTGTTCTAAGGATGG-GGGGGTATAGGC-TGTGTTTTTAAAG---------------------------------------
+i hg18.chr6 C 0 I 47
+s canFam2.chr1 78230626 46 - 125616256 TTTGGGTGCCATAAGAATGG-GGAAGGTAGAAGCTGAGCATTAAAAG---------------------------------------
+q canFam2.chr1 99999999999999999999-99999999999888889988999999---------------------------------------
+i canFam2.chr1 C 0 I 61
+s felCat3.scaffold_217398 90735 45 - 219823 TTTGGGCACTGCGCGGGTGTCGGCGGGTAG--GCTGAGTGTTAAAGG---------------------------------------
+q felCat3.scaffold_217398 999999999999999999999999999999--999999999999999---------------------------------------
+i felCat3.scaffold_217398 C 0 I 4
+s equCab1.chr31 13023463 46 + 24938454 CTTGGGTACCAAGAGGATGG-GGAAAGTGTAGGCTGAGTTGTTAATG---------------------------------------
+q equCab1.chr31 99999999999099999999-99999999999999999999999999---------------------------------------
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13689139 46 - 95030419 CTTGGGTACCATGAGGATGG-GGAAGGTATAGCCTGAGTTGTTACAG---------------------------------------
+q bosTau3.chr9 99999999999999999999-99999999999999999999999999---------------------------------------
+i bosTau3.chr9 C 0 I 35
+s echTel1.scaffold_324002 7278 28 + 49972 CATGGGCATCCTGAGGGTGG-AGGGGCAG---------------------------------------------------------
+q echTel1.scaffold_324002 99999999999999999999-99999999---------------------------------------------------------
+i echTel1.scaffold_324002 I 11 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10264 66 - 17534 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=-39233.000000
+s mm9.chr10 3163442 106 + 129993255 CTCGGCTGCtttatgtatttgcttttgtgggcatgtgtgcattttatgtgcacaccttgca-gaaggtacagaaggcggagggagttccaggcagctctaggctaca
+s rn4.chr1 229980035 107 - 267910886 CACTACTGCtttatgtgtttgtctttatgggtgtgtgcgtgttttactcgcagtgtttacatgtaggtgcagaaggcagaggaagttacaggcatttgtgtgctacc
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_334.1-359464 322611 62 - 359464 CTCTGCTCCTGTTTGGG--GGACCCTCAGGACCTG-----GAGATGTAGGTTGGGGTGTTA-------------------AGAGGCCC-------------------
+q otoGar1.scaffold_334.1-359464 97969977769996899--9995967986776979-----765667376668999347477-------------------66945585-------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 30032 24 - 523245 -------------------------------------------GTGTATGCTGTGTTTTTA---------------------AAGCTC-------------------
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16363398 24 - 174210431 -------------------------------------------GTATAGGCTGTGTTTTTA---------------------AAGCTC-------------------
+i ponAbe2.chr6 C 0 C 0
+s felCat3.scaffold_217398 90784 18 - 219823 ------------------------------------------------GAGTGTAGCTGTA-------------------GGAAA----------------------
+q felCat3.scaffold_217398 ------------------------------------------------9999999999999-------------------99999----------------------
+i felCat3.scaffold_217398 I 4 C 0
+s echTel1.scaffold_324002 7306 31 + 49972 -----------------------------------GTTGAATCCTTTAGGGATAGGGTTCA-------------------GGAGG----------------------
+q echTel1.scaffold_324002 -----------------------------------99999999999999999999999999-------------------99999----------------------
+i echTel1.scaffold_324002 C 0 C 0
+e bosTau3.chr9 13689185 35 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023509 1 + 24938454 I
+e rheMac2.chr4 108465662 47 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10264 66 - 17534 I
+e canFam2.chr1 78230672 61 - 125616256 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e tupBel1.scaffold_114895.1-498454 367161 50 - 498454 I
+e cavPor2.scaffold_284118 54681 0 - 169015 C
+e hg18.chr6 16058077 47 - 170899992 I
+e panTro2.chr6 16580990 65 - 173908612 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=-10815.000000
+s mm9.chr10 3163548 33 + 129993255 tctaggatgtaggtgctggggacccaagcagga
+s rn4.chr1 229980142 32 - 267910886 tg-atgttgtgggtgctggggacccaagctgga
+q rn4.chr1 99-999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54681 1 - 169015 ---A-----------------------------
+q cavPor2.scaffold_284118 ---9-----------------------------
+i cavPor2.scaffold_284118 C 0 C 0
+s otoGar1.scaffold_334.1-359464 322673 26 - 359464 ---AGGGTTTAGCTGCCGGAAAAGCAAAG----
+q otoGar1.scaffold_334.1-359464 ---56975897799879647899466874----
+i otoGar1.scaffold_334.1-359464 C 0 I 17
+s calJac1.Contig1260 30056 26 - 523245 ---AGAGTTTAACTACAGGAAAAGAAAAA----
+i calJac1.Contig1260 C 0 I 15
+s ponAbe2.chr6 16363422 25 - 174210431 ---AGAGTTTAACTACA-GAAAAACAAAA----
+i ponAbe2.chr6 C 0 I 15
+s felCat3.scaffold_217398 90802 3 - 219823 -------------------------AGA-----
+q felCat3.scaffold_217398 -------------------------999-----
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13023510 28 + 24938454 TCCAGAGTTTAGCTGTTGGAAAAGAAAA-----
+q equCab1.chr31 9999999999999999999999999999-----
+i equCab1.chr31 I 1 C 0
+s dasNov1.scaffold_40472 10330 28 - 17534 TCCAGGATTTAGCTGCATAGAAAGAAAA-----
+q dasNov1.scaffold_40472 8676398999988887489999999999-----
+i dasNov1.scaffold_40472 I 66 C 0
+e bosTau3.chr9 13689185 35 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e rheMac2.chr4 108465662 47 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78230672 61 - 125616256 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e tupBel1.scaffold_114895.1-498454 367161 50 - 498454 I
+e echTel1.scaffold_324002 7337 0 + 49972 C
+e hg18.chr6 16058077 47 - 170899992 I
+e panTro2.chr6 16580990 65 - 173908612 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=-85377.000000
+s mm9.chr10 3163581 48 + 129993255 ------------------tccctggaagagcggtaagtgtaactgctgagccacctctcagacctc
+s rn4.chr1 229980174 37 - 267910886 ------------------ttcctgg----------agcttagcggccgagccacctcttaagcc-c
+q rn4.chr1 ------------------9999999----------99999999999999999999999999999-9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54682 29 - 169015 ---------------------CTGG----------AGTTTAGCTACAGAAAAA-----GGAATC-T
+q cavPor2.scaffold_284118 ---------------------9999----------999999999997999999-----999989-9
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16363462 6 - 174210431 ------------------TTCCTC------------------------------------------
+i ponAbe2.chr6 I 15 C 0
+s calJac1.Contig1260 30097 6 - 523245 ------------------TTCCTT------------------------------------------
+i calJac1.Contig1260 I 15 I 1
+s otoGar1.scaffold_334.1-359464 322716 6 - 359464 ------------------TTCCTC------------------------------------------
+q otoGar1.scaffold_334.1-359464 ------------------666575------------------------------------------
+i otoGar1.scaffold_334.1-359464 I 17 C 0
+s tupBel1.scaffold_114895.1-498454 367211 6 - 498454 ------------------TTCTTC------------------------------------------
+q tupBel1.scaffold_114895.1-498454 ------------------999999------------------------------------------
+i tupBel1.scaffold_114895.1-498454 I 50 I 7
+s felCat3.scaffold_217398 90805 33 - 219823 -------------------------GCCAAAAGGGGGTATGCATTCCTCCCCGCCTTT--------
+q felCat3.scaffold_217398 -------------------------999999999999999999999999999999999--------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13023538 21 + 24938454 -------------------------GCCAGAGAAGAGTATGTGTTT--------------------
+q equCab1.chr31 -------------------------999999999999999999999--------------------
+i equCab1.chr31 C 0 I 2
+s dasNov1.scaffold_40472 10358 22 - 17534 GGCAAAACAGTGTGTGCGTTCC--------------------------------------------
+q dasNov1.scaffold_40472 9978899895999998667676--------------------------------------------
+i dasNov1.scaffold_40472 C 0 C 0
+s echTel1.scaffold_324002 7337 7 + 49972 -GCAAAA--------------T--------------------------------------------
+q echTel1.scaffold_324002 -999999--------------9--------------------------------------------
+i echTel1.scaffold_324002 C 0 C 0
+e bosTau3.chr9 13689185 35 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e rheMac2.chr4 108465662 47 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78230672 61 - 125616256 I
+e loxAfr1.scaffold_4233 41553 3134 + 124190 I
+e hg18.chr6 16058077 47 - 170899992 I
+e panTro2.chr6 16580990 65 - 173908612 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=1009520.000000
+s mm9.chr10 3163629 239 + 129993255 --TCTCCTGTTGTAAAAACAG--------TGTGCTCTCTTGAAAAAGAAAGTTTTAACCT----ACAGGATTTAAGAGT---TGAGTTTGG-C----AACTGATCAC-AGGCTGTTGCTGTGAAGGGAAGCTGCTCT----GCGGTGTCCG-TGCGACATTCCTGT-------TCGGCCAGCCTTCC--TGTGTCTTGGCAGATGGAG-TTTCTTCCTCCCGAGCAGAATTGTTTTC-CAACTGCACAG-TTATAGCCGCCT----CATGCACCACGATGCAT
+s rn4.chr1 229980211 245 - 267910886 --GCTCCTGTTGT--AAACAG--------CATGCTCTTTTTGAAAAGAAAGTTTTAACCC----ACAAGATTTAAGGGC---TGAGTTTGG-C----AGATGATCAC-AGACTGTCGAGTTGAAGGGAGGCTGCTCCCCCGGTGGCGTCCG-TGTGACATTCCCAT-------TCCGCCAGCTTTCC--TGTGTCTTGGCAGATGGAG-TTTCTTCCTCCCGAGCAGAATGTTTCTC-CAACTGCACAG-TTAGAGCCGCCCCCTGCATGCACCACGATGCGT
+q rn4.chr1 --99999999999--999999--------9999999999999999999999999999999----999999999999999---999999999-9----9999999999-9999999999999999999999999999999999999999999-99999999999999-------99999999999999--9999999999999999999-9999999999999999999999999999-99999999999-999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54711 244 - 169015 --TCCCATGTTTT--AAACAA--------CTTATCTTcctaaaaaagaaagttttaatcT----GTAGGATTAAAGAGA---TG-TTTGGG-A----AAATGATCAC-AGGCTGTAAAGGTGAGTGGGAGCTGCTTTT---ATGGCATCCACTCTGTTGTTCTCATCTTGTCCTTAGCAATCCTTTT--CGTGTCTTGGCAGATAGAG-TTTCTTCCTTCACAGCATAAT-GTTTTC-CAACTGCGGAG-TTCCAGCTGCTT----CATATGCCATGATATAT
+q cavPor2.scaffold_284118 --99989999999--999999--------9999999999999999999999999999999----999999999999999---99-999999-9----9999999999-999999999999999999999999999999---9999999999999999999999999999999999999999999999--9999999999999999999-999999999999999999999-999999-99999999999-999999999999----99999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16058124 245 - 170899992 --TCCCCCTTTTT--AAACAA--------TTTGTCCTCCTTGGAAAGAAAGTTTTACTAT----GTAGAATTTAGGAAA---TG-TTTGTG-A----AAATGATCAC-AGGCTGTAAAGGAGTGTCCAAGCTGCTTTC---ATTGTGGCCAGCATGGCATTCTCATGATATCTGTAGCAAGCCTTTA--AGTGTCTTGGCAGATAGAG-TTTCTTCCTTCACAGCATAATGTTTTTC-CAACTGCAGTG-TTGTAGCTGCTT----CATGTGCCGTGATACAT
+i hg18.chr6 I 47 C 0
+s panTro2.chr6 16581055 245 - 173908612 --TCCCCCTTTTT--AAACAA--------TTTGTCCTCCTTGGAAAGAAAGTTTTACTAT----GTAGAATTTAGGAAA---TG-TTTGTG-A----AAATGATCAC-AGGCTGTAAAGGAGTGTCCAAGCTGCTTTC---ATTGTGGCCAGCATGACATTCTCATGATATCTGTAGCAAGCCTTTA--GGTGTCTTGGCAGATAGAG-TTTCTTCCGTCACAGCATAATGTTTTTC-CAACTGCAGTG-TTATAGCTGCTT----CACGTGCCGTGATACAT
+q panTro2.chr6 --99999999999--999999--------9999999999999999999999999999999----999999999999999---99-999999-9----9999999999-999999999999999999999999999999---9099999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999-99999999999-999999999999----99999999999999999
+i panTro2.chr6 I 65 C 0
+s ponAbe2.chr6 16363468 243 - 174210431 ----CCCCTTTTT--AAACAA--------TTTGTCCTCCTTGGAAAGAAAGTTTTACTAT----GTAGAATTTAGGAAA---TG-TTTGTG-A----AAATGATCAC-AGGCTATAAAGGGGTGTCCAAGCTGCTTTC---ATTGTGTACAGCATGACATCCTCATGATATCTGTAGCAAGCCTTTT--GGTGTCTTGGCAGATAGAG-TTTCTTCCTTCACAGCATAATGTTTTTC-CAACTGCAGTG-TTATAGTTGCTT----CATGTGCCGTGACACAT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108465709 246 + 167655696 --TCCCCCTTTTT--AAACAA--------TTTGTCCTCCTTGGAAAGAAAGTTTTACTAT----GTAGGATTTAGGAAA---TG-TTTGTG-A----AAATGATCAC-AGGCTATAAAGGAGTGTCCAAGCTGCTTTC---ATTGTGTCCAGCATGACATTCTCATGATATCTGTAGCAAGCCTTTC--GGTGTCTTGGCAGATAGAG-TTTCTTCCTTCACAGCATAATGTTTTTC-CAACTGCGATGTTTATAGCTGCTT----CATGCGCCGTGATACAT
+q rheMac2.chr4 --99999999999--999999--------9999999999999999999999999999999----999999999999999---99-999999-9----9999999999-999999999999999999999999999999---9999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999-999999999999999999999999----99999999999999999
+i rheMac2.chr4 I 47 C 0
+s calJac1.Contig1260 30104 240 - 523245 -----CCCCTTTT--AAACAA--------TTTGTCCTTCTCGGGCAGAAAGTTTTACTAT----GTAGAATTCAGGGAA---TG-TTTGTG-A----AAATGATCAC-AGGCTATAAAGGAGTGTCCAAGCTGCTTTC---ATGGTATCCAACATGACATTCTCATGAAATCTGTAGCAAGCATTTC--GGGGTCTTGGCAGAC--CG-TTTCTTCCTTCACAGCATAATGTTTTTC-CAACTGTACTG-TTCTAGCTGCTT----CATGTGCCATGATGCAT
+i calJac1.Contig1260 I 1 C 0
+s otoGar1.scaffold_334.1-359464 322722 245 - 359464 ---CCTCCCTTTG--AAACAA--------TGTATCCTCC-AAAAAAGAGAGTTTTAATATGGTAGGAGGATACAGGAAGT-TTG-TTTGTGAA----AAACAATCCCTAGCCTATAAAGGAGAGTGTTAGTCGCTTTC---ATTGTGCCCAGCGGGCCATTCCCCT-ACACCTTCAGCCGTCCTCT---GGTGTCTGGGCAGATAGAA--TTCTTCTTTCTCAG---AATGTTTTTC-CAACCGCAGAG-TTATAGCTGCTT----CCCGTGCGGTGATACAT
+q otoGar1.scaffold_334.1-359464 ---8645966999--697545--------5636556986-5788977525758787957452469344545334654896-846-39673557----86344645567532243322849752115125855236453---3474134352424233252523353-1133344323323152220---1111331444322111210--22249999999437---6535299999-52699979999-999999997999----98647969999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 367224 237 - 498454 ---------TTTT--AAATAA--------CTTATTTTCCTAAAAATGAAAATTTTACTAT----GTAGGATTCAGGAAATGCTG-TTTGTG-A----AAATGATCAC-CTGCTATAAAGGAG-ATATAAGTGGCTTCC---ACTGTGTCCAACATGTGGTTCGCATTATCTCCGTAGCAATCGTGTC--AGTATCTTGGCAGATAGAG-TTCCTTCCTTCACAGC---ATGTTTCGC-CAACTGCAGAG-TTATAGCTGCTT----CACGTGCAGCTACACAT
+q tupBel1.scaffold_114895.1-498454 ---------9999--999999--------9999999999999999999999999999999----99999959999999999999-999999-9----9999999999-99999999999999-969899999889999---9999998996999998986999999998999999999799999989--9999899993498959999-8979799889979898---889499974-96999976896-679796787759----76677877788796979
+i tupBel1.scaffold_114895.1-498454 I 7 C 0
+s equCab1.chr31 13023561 219 + 24938454 --TCCTCCCTTTT--AAACAA--------TTTATCATCCTAAAAAAGAAAGTTTTA--------------------------TG--------A----AAATGATCCC-AGGCTATAAAAGACAGGATAAGCAGCTTTC---ATTGTGTCCAACACTACATTCTCATTGTATCACTAGCAATCCTTGT--GGTGTCTTGGCAGATAGGG-TTTTTCCTTTAT-AGCATAATGTTTTTC-CCACTGCAGGG-TTGTAGCTGGTT----CATGTGCCACGACACAT
+q equCab1.chr31 --99999999999--999999--------999999999999999999999999999--------------------------99--------9----9999999999-999999999999999999999999999999---9999999999999999999999999999999999999999999999--9999999999999999999-999999999999-999999999999999-99999999999-999999999999----99999999999999999
+i equCab1.chr31 I 2 C 0
+s canFam2.chr1 78230733 218 - 125616256 --CCCCCCCTTTG--AAACAG--------TTTATCCTCCTAAAAAAGAAAGTTTTG--------------------------TG--------A----AAATGATCCC-AGGCTACAAAAG--AGTATAAGTTGTTTTT---ATTGTGTGCAGCATTACATTTTCATTGTATCTTCGGCGGTCCTCTT--GGTGTCTTGGCAGATAGGG-TTACTTTTCTCACAGCATAATGTTTTTC-CAACTGCCGAG-TTATTGCTGCAT----GGTGTACCATGATACAT
+q canFam2.chr1 --99999999989--999888--------888888998877779999999999999--------------------------99--------9----9999999999-997777779999--8888778889999778---9989999988889988889999999877788999999888879999--9999999999999999999-9999999999999999999999999999-99999999999-999999999999----99999999999999999
+i canFam2.chr1 I 61 C 0
+s bosTau3.chr9 13689220 223 - 95030419 ---------------AAAAAGAGTGTGTTTTGATCCTCCTGAAAAAGAAAGTTTTG--------------------------TG--------ATAAGGAAGGATTCC-AGGCTATGAAAGAAAGGATTAGCTGCTCTC---ATTGGGTCCAACGCCACATTCTCGTCGCGTCGTTAGCAATCCTTGTAAAGTGTCTTGGCACATAGGG-GCGCGTCCTTCACAGCAGACTGTTTTTC-CAACTGCAGAT-TTATAACTGCTT----CATGTGCCATGACGCAT
+q bosTau3.chr9 ---------------99999999999999999999999999999999999999999--------------------------99--------999999999999999-999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999-99999999999-999999999999----99999999999999999
+i bosTau3.chr9 I 35 C 0
+s felCat3.scaffold_217398 90838 201 - 219823 ---------------AAACAG--------TTTATCCT-CTAAGAAAGAAAGTTTCA--------------------------TG--------A----AAATCATCCC-AGGCTACAGAAG--AGTACAGGGTGCTTTC---ATTGCGT---CCGTTACATTTTCATTGTATCTTCAACAAT-GTTTC--GGTGTCCTGGCAGATAGGG-TTTCTCCTTTCG-AGCATAATGTTTTTC-TAACTGTAGAG-TCATTGCTGCTT----CCTGTACCACGGCACGT
+q felCat3.scaffold_217398 ---------------999999--------99999999-999999999999999999--------------------------99--------9----9999999999-999999999999--9999999999999999---9999999---999999999999999999999999999999-99999--9999999999999999999-999999999999-999999999999999-99999999999-999999999999----99999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_40472 10380 248 - 17534 TCTCCCGCCTTTC--AAACAA--------TTTATCCTCCTAACAAAGAAAGTTTTAGTAT----GTAGGATTCGGGAAAGAGGG-TTGGCG-A----GAATGGTCAC-GGGCCGGAAAAGAGAACACGGGCTGCTCTC---TTGGAGTCCAGTGCTCCACTCGCGTTCTAGTTTTAGC-CTTCCCTT--AGTGTCTTGGCAGGTAGAG--TTCTAACTTCACAGCGTGGTGCTTCTT-CAACTGCAGAG-GCAGGCTTGCTG----CAGGGGCCGTGCTACAT
+q dasNov1.scaffold_40472 6664444576455--347567--------8999756765648338869989799686898----86778765636799869796-699674-9----6887964666-576463379997979775668688765566---6768856645769967548897977797659997736-55657745--6648675686775877676--676675476666666766656567667-67776766676-686666658676----96799587666666948
+i dasNov1.scaffold_40472 C 0 I 6108
+s echTel1.scaffold_324002 7344 224 + 49972 CCTCCCATTTCC--------G--------TCTGCCCAGCTGAAGAAGAATGCTGTAAGGT----GTTGGATTCGCCAAGTGCTG-CTTGGG-A----GAACGGCCAC-AGGCCAC----------AGACACTGCCTTC---CCTGCGGCCGACACCACGTTGTTGTTGCATCTTAAGT-------------TGTCTTGGCAGATGGGC-TTGTTTTCTGCATGGCCTAATGTGCTTTCCAACTGTACGG-TGATAGCTGTTT----CACAGGCCGTGAGCCGT
+q echTel1.scaffold_324002 999999999999--------9--------9999999999999999999999999999999----99999999999999999999-999999-9----9999999999-9999999----------9999999999999---9999999999999999999999999999999999999-------------99999999999999999-9999999999999999999999999999999999999999-999999999999----99999999999999999
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 44687 215 + 124190 -------------------AA--------TTTGCCCTCTTACAAAAGAACGTCGTAATAT----GTAGGATCCAGGAAATGTTG-TTTGTG-A----AAGTGATCAC-AGGCTACAAAAGAGCAGAGAAGCTGCTTTC---ATTGTGTCCAACACCACGTTTTTGTTATGGCTTTAACAGTCCGTTT--AGTGTCTTGGCAGATAAGAGTTTCTTCCTTCACAGCATAATGTTTTTTCCAACTGCACAG-TTATAGCTG------------------------
+q loxAfr1.scaffold_4233 -------------------99--------9955998977889999569948938899993----67476768977779956858-995636-8----9744358757-537788999554538545586474498448---9744638888898997549886549773789997789859884997--845597535766499564649897686566887646596643899998799665599855-567565444------------------------
+i loxAfr1.scaffold_4233 I 3134 I 12127
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=481260.000000
+s mm9.chr10 3163868 116 + 129993255 GGCTAGGTGTCAAGATCATT-TATGGGGGAAAAAC---CCCAAATGAC---TTATGACATCCAACTTCTACAAGAACAA--------AGA---GTGAGCTA-TTTTTGTAGAAG----TTTTCTATA-AAAGACTGTTTG
+s rn4.chr1 229980456 116 - 267910886 GGCTAGGTGTCATGATCATT-TATGGGGGGAAGGG---CCCCAAGTGA---TTAAGGCATCCAGCTTCTACAAGAAAAA--------GGA---GTGAGCTA-TTTTTGTAGAAG----TTTTCTATA-AAAGACTGTTTG
+q rn4.chr1 99999999999999999999-99999999999999---9999999999---9999999999999999999999999999--------999---99999999-999999999999----999999999-999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 54955 127 - 169015 GGCTAGCTGTCATGATCATTGTATACGGGAAATAA---CCCAAATGgatatttaaaatgtgaaaatttttggggggtgg--------ggggttgTGAGTTA-TTTTTACAAAAGGaa-ttttaaatagaaaggccatcat
+q cavPor2.scaffold_284118 99999999999999999999999999999999999---99999999999999999999999999999999999999999--------99999999999999-999999999999999-9999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16058369 119 - 170899992 GGCTAGGTGTCAAGATAGTTTTACAGGGGGAAGAA---CCCAAAAGGACTTTTAAAAGATGCAGGTTTCAG---GAAAA--------AAG---GAGAGTGA-TTTTTACAAAGGGAG-TTTTAAATA-AAAAGGCATTT-
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16581300 119 - 173908612 GGCTAGGTGTCAAGATAGTTTTACAGGGGGAAGAA---CCCAAAAGGACTTTTAAAAGATGCAGGTTTCAG---GAAAA--------AAG---GAGAGTGA-TTTTTACAAAGGGAG-TTTTAAATA-AAAAGGCATTT-
+q panTro2.chr6 99999999999999999999999999999999999---999999999999999999999999999999999---99999--------999---99999999-999999999999999-999999999-99999999999-
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16363711 119 - 174210431 GGCTAGGTATCAAGGTAGTTTTACAGGGGGAAGAA---CCCAAAAGGACTTTTAAAACATGCAGGTTTCAG---GAAAA--------AAG---GAGAGTGA-TTTTTATAAAGGGAG-TTTTAAATA-AAAAAGCATTT-
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108465955 118 + 167655696 GGCTAGGTGTCAAGATAGTTTTATAGGGGGAAGAA---CCCAAAA-GACTTTTACAACATGCAGGTTTCAG---GGAAA--------AAG---GAGAGCGA-TTTTTACAAAGGGAG-TTTCAAATA-AAAAGGCATTT-
+q rheMac2.chr4 99999999999999999999999999999999999---9999999-9999999999999999999999999---99999--------999---99999999-999999999999999-999999999-99999999999-
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 30344 122 - 523245 GGCTAGGTGTCAAGATAGTTTTATAGGGGGAAGAA---CCCAAAAGGACTTTTAAAACATGCAGGTTTCAGA--AAAAA--------AAG---GAGAGTGATTTTTTACAAAGGGAG-TTTTCAATA-AAAAGACATTTG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 322967 121 - 359464 GGCTAGGTGTCAAGATAATTTTATA--GGGAAGAC---CCCGAAAGAACTTTTAAAACCTGCAGCTTTCAGAGGGAAAA--------GAA---AAGAGTTA-TTTTTACAAAGGGAG-TTTTAAACA-AAAGAGCATTTA
+q otoGar1.scaffold_334.1-359464 9999999999999999999999999--99999996---99999999999999999999999999999999999999999--------999---99999999-999999999999999-999999999-999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 367461 115 - 498454 GGCTAGGTGTCGAGATCGCTTTATAGGGGGAAGAA---CTCGAAAGGACTTTTAAAACATGCAGCTTTAGGGGTGGGGA--------AGT---GAGAATTG-TTTTTACAAAGGGAC-TTTTAAATA-AAAG--------
+q tupBel1.scaffold_114895.1-498454 99667969967797767666967676999569677---56776996754699679966577666779664997789966--------657---77665566-589966668569643-799679666-9975--------
+i tupBel1.scaffold_114895.1-498454 C 0 I 1285
+s equCab1.chr31 13023780 121 + 24938454 GGCTAGGTGTCAAGATAATTTTATAGAGGGGAAAAAAACCCAAGAAGACTTTTAAAATGTGCAGCGTTCAA---GAA----------AAA---AAGAGTCG-GTTTTACAAACAGAG-TTTTAAATA-AAAAGGCATTCA
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999---999----------999---99999999-999999999999999-999999999-999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78230951 132 - 125616256 GGCAAGGTGTCAAGATAATTTTATAGGGGGAAAAAAATCCCAAGAAGGCCTTTAAATCATGCAGCATTCAG---GAACAACAACAACAAC---AAAAGTCA-GTTTTATAAAAAAGGGCTTTAAATA-AAAGGGCACTCA
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999---99999999-9999999999999999999999999-999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13689443 120 - 95030419 GGCGAGGTGTCAAGATCATTTTATGGGAGGAAAAC---CCCCCAAAGACTGTTAAAGCATGCAGCTTTCAG---GGGAA--------AAA---ATAAGTCA-GTTTTACAAAGACAG-TTTTAAATA-AAAGGGTATTGG
+q bosTau3.chr9 99999999999999999999999999999999999---999999999999898899999999999999999---99999--------999---99999999-999999999999999-999999999-999999999999
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 91039 120 - 219823 GGCTAGGCGTCCAGATAATTTTATAGGGGGAAAAA---CCCAAAAAGACTTTTAAGCCTTGCAGCTTTCAG---GAACA--------AAA---AAAAGTCA-GTTTCACAAAAAGAGTTTTTTAA-A-AAAGGGCATCCA
+q felCat3.scaffold_217398 99999999999999999999999999999999999---999999999999999999999999999999999---99999--------999---99999999-99999999999999999999999-9-999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s echTel1.scaffold_324002 7568 116 + 49972 GACTGGGTGTCAGGATCATGTTA-ATGGGGAAAGA---CCCAACAGGGCTTTGCCAACACACAGCTCTCAA------GA--------AAG---CAGAGTCC-CTTGGACACATGGAG-TTCTCAGTA-AAAGGATGGCTG
+q echTel1.scaffold_324002 99999999999999999999999-99999999999---999999999999999999999999999999999------99--------999---99996899-998868989678796-996897777-999989699878
+i echTel1.scaffold_324002 C 0 I 22472
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=62220.000000
+s mm9.chr10 3163984 46 + 129993255 GAAACTTGGGTTTTGTTTGCAGGCAGA--TTTTCT-----------TTTCTATGTAGGC
+s rn4.chr1 229980572 48 - 267910886 GAAGCTTGGGTTTTGTATGAAGGCAGAATTTTTTT-----------TTCCTATGGAGGC
+q rn4.chr1 99999999999999999999999999999999999-----------9999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 55082 41 - 169015 ggctttgtgctttttttcctGGGTAGA--TCTTTT-----------CATACATG-----
+q cavPor2.scaffold_284118 999999999999999999999999999--999999-----------99999999-----
+i cavPor2.scaffold_284118 C 0 I 2609
+s hg18.chr6 16058488 40 - 170899992 ---GTTTGTGCTTTCTTCATGGGCAGA--CCT--------------TTTCAAAGATGGC
+i hg18.chr6 C 0 I 126
+s panTro2.chr6 16581419 40 - 173908612 ---GTTTGTGCTTTCTTCATGGGCAGA--CCT--------------TTTCAAAGATGGC
+q panTro2.chr6 ---999999999999999999999999--999--------------9999999999999
+i panTro2.chr6 C 0 I 75
+s ponAbe2.chr6 16363830 30 - 174210431 ---GTTTGTGCTTTCTTCATGGGCAGA--CCTTTT------------------------
+i ponAbe2.chr6 C 0 I 2751
+s rheMac2.chr4 108466073 45 + 167655696 ---GTTTGTGCTTTCTCTATGGGCAGA--CCTTTTCTTTTTTTTTTTTTT---------
+q rheMac2.chr4 ---999999999999999999999999--999999999999999999999---------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 30466 33 - 523245 TGAGTTTGTGCTTTCTTCATGGGCAGA--CCTTTT------------------------
+i calJac1.Contig1260 C 0 I 1339
+s otoGar1.scaffold_334.1-359464 323088 33 - 359464 TGAGTTTGTGCTTTCTTCCTGGACAGA--TCTTTT------------------------
+q otoGar1.scaffold_334.1-359464 999999999999999999999999999--999999------------------------
+i otoGar1.scaffold_334.1-359464 C 0 I 866
+s equCab1.chr31 13023901 33 + 24938454 TGGGTTTATGCTTTCTTCGTGAGCAGA--TCTTTT------------------------
+q equCab1.chr31 999999999999999999999999999--999999------------------------
+i equCab1.chr31 C 0 I 821
+s canFam2.chr1 78231083 25 - 125616256 TGGG--------TTCTTGGTGGGTAGA--TCTCCT------------------------
+q canFam2.chr1 9999--------999999999999999--999999------------------------
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13689563 33 - 95030419 TGGATTTATGCTTTGCTCACGGGCAGA--CCTTTT------------------------
+q bosTau3.chr9 999999999999999999999999999--999999------------------------
+i bosTau3.chr9 C 0 I 1892
+s felCat3.scaffold_217398 91159 33 - 219823 TGGGTTTACGCTTTCTTCATGGGCAGA--TCTTTT------------------------
+q felCat3.scaffold_217398 999999999999999999999999999--999999------------------------
+i felCat3.scaffold_217398 C 0 I 920
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=3699.000000
+s mm9.chr10 3164030 102 + 129993255 TTAACTATTtgtgtgtgcatgtttgtgtgcacgagtgcgtgtgcgtgcgcacgtgtgcgtgtgcgtgcgcgtgcgtgtgtgtgtgtCCTTGTTTGTAGTTTT
+s rn4.chr1 229980620 96 - 267910886 TTAAATATTtgtgtgtgtaggtttatgtgcgtgcgtgtgtgtgtgt------gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtCCTTGAttgtagtttt
+q rn4.chr1 9999999999999999999999999999999999999999999999------99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108466118 46 + 167655696 -------TTTGTTTTTTT---TTTTTGT-------------TTTGT---------------------------------TTTGTTTTTATTTTTTTATTTTT
+q rheMac2.chr4 -------99999999999---9999999-------------99999---------------------------------99999999999999999999999
+i rheMac2.chr4 C 0 I 1359
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e canFam2.chr1 78231108 0 - 125616256 C
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e hg18.chr6 16058528 126 - 170899992 I
+e panTro2.chr6 16581459 75 - 173908612 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=534.000000
+s mm9.chr10 3164132 35 + 129993255 GATGATTGAACCTAGGGCCGTGTGCATG-------------------------TCAGCTC
+s rn4.chr1 229980716 60 - 267910886 gatgattgaacctagtgcatgctgggcaagcactcctccactgagctccttcctcagctc
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e canFam2.chr1 78231108 0 - 125616256 C
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e hg18.chr6 16058528 126 - 170899992 I
+e panTro2.chr6 16581459 75 - 173908612 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=5421.000000
+s mm9.chr10 3164167 52 + 129993255 TGGTGCTGGCTTTATAAGAAAAGAAAGCAAGTGTTTCATGCGTTCGTGAGGT
+s rn4.chr1 229980776 50 - 267910886 TGGTGCTGGCTTTATA--TAAAGAAAGTGAATGCTTCACACATTGGTGAGCT
+q rn4.chr1 9999999999999999--9999999999999999999999999988888888
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78231108 50 - 125616256 CAAAGATGGCATTATA--AAAAGAGGACATATATttcattcattcattaact
+q canFam2.chr1 9999999999999999--9999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e hg18.chr6 16058528 126 - 170899992 I
+e panTro2.chr6 16581459 75 - 173908612 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=-1944.000000
+s mm9.chr10 3164219 68 + 129993255 ---------GAGCTGCAACCACCC-----CACCTCGTACCATGGACCC--AGATGTTTGCCATGGTAGTATCCCC--AAAACC-------ACT
+s rn4.chr1 229980826 71 - 267910886 ---------GAGCTGCAGCCGTCT-GAAGCACCTAGTACCATGTACCC--AGACGTGTGCCATAGCA-CAACCCT--GAAGCC-------ATT
+q rn4.chr1 ---------888889988899887-77799866666788888888999--99999999999999999-9999999--999999-------999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16581534 50 - 173908612 ---------GGGCTGCAGCTATGG--------------------------AGATGAGTGTCA------CAGCTCC--GGGACCTTAAGGAACT
+q panTro2.chr6 ---------999999999999999--------------------------999999999999------9999999--9999999999999999
+i panTro2.chr6 I 75 I 1
+s canFam2.chr1 78231158 84 - 125616256 gagcttctaaagttgcagctgtcttgaaggatgaggtcctggggacacagggatcaatatcatgctc-tggcctttgaggacc-------tc-
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999-999999999999999-------99-
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e hg18.chr6 16058528 126 - 170899992 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=54944.000000
+s mm9.chr10 3164287 259 + 129993255 CACTTTATGTGGAGATCAGACAG------ATAAGT--GCACGATGCCA-ATCCAGGATGGCAGAGGGCAGGGCC---------------TGAGGCTGCTGGGGTAGGGTT-GATGTTGGGATGTGA-AGAAGGGGTCTTG----AGAAGAGAAGCCTTGGGAAA---TTATGGGATGAGAGAGTTCTC-AGGTGCACCAGAGCAGACAG------------CTCAGCAGTACAGCAGTGGGGTTTGTTTCAACA----------GCAAGCAGGAAGGTATTCTGGGAGA-----------------AAGCTGGTATGGAGCATGGCAGAGAT
+s rn4.chr1 229980897 271 - 267910886 CACTTTCTGAGG-GATCAGACAGTAAGTAGTAAGT--ACAGGATGCCAGGTCCAGGAGGGCAGAGGGCAGGGGC---------------TGGGGCTGCCGGAGTGGGGGCAGAGGTTGGGATGTGA-AGAGAGGGCCTTGAAGAAGAGGAGGAGCCTCGGGGAA---CTGTGGGATGAGAGAGTCCTCTGGGCGCACAAGAACAGATAG------------CACAGCAGTACAGAGGTGTGCTTCATTTCACTG----------GCGAGCAGGAAGGTATCATGGGAGA-----------------AAGCTGGTCTGTAGGGTGGCAggggt
+q rn4.chr1 999999999999-9999999999999999999999--9999999999999999999999999999999999999---------------9999999999999999999999999999999999999-9999999999999999999999999999999999999---999999999999999999999999999999999999999999------------999999999999999999999999999999999----------9999999999999999999999999-----------------99999999999999999999999999
+i rn4.chr1 C 0 I 144
+s hg18.chr6 16058654 306 - 170899992 CACTTTGCTCAGGCGTCAGACAC------ATGAATAAACACGGTGCA--GTCCAGAGGGGCAGAAGGGAGAAGTGATGAATCTTGCTGGTGAGGAAGCTGGTGCGTGGTT---------GGTGTCC-AGAGAAGGCCTCAAAAAGGAGGAGAAGCTTCTGGGGAGCCTTGGAGGATCAGGAG-------GAGTTGGCCAGACCAGATAGGTGTGTGGGTGATGCTGTAG-GCAGAAGAAGAGCAAATGCAAATGCATGGAGTGTGGAAGCAGCGAGGTGTGTTAGGAGAAGGAATCCCAGCTCCCGAGGCTGGAGTGCAGGTTGCAAGAGGA
+i hg18.chr6 I 126 C 0
+s panTro2.chr6 16581585 306 - 173908612 CACTTTGCTCAGGCGTCAGACAC------ATGAATAAACACGGTGCG--GTCCAGAGGGGCAGAAGGGAGAAGTGATGGATCTTGCTGGTGAGGAAGCTGGTGTGTGGTT---------GGTGTCC-AGAGAAGGCCTCAAAAAGGAGGAGAAGCTTCTGGGGAGCCTTGGAGGATCAGGAG-------GAGTTGGCCAGACCAGATAGGTGTGTGGGTGATGCTGTAG-GCAGAAGAAGAGCAAATGCAAATGCATGGAGTGTGGAAGCAGCGAGGTGTGTTAGGAGAAGGAATCCCAGCTCCCGAGGCTGGAGTGCAGGTTGCAAGAGGA
+q panTro2.chr6 99999999999999999999999------999999999999999999--9999999999999999999999999999999999999999999999999999999999999---------9999999-9999999999999999999999999999999999999999999999999999999-------9999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1 C 0
+s canFam2.chr1 78231242 246 - 125616256 cattttactaaggaattagacac------atgaat-aaaaagacatg--atccag-gtggcagaaacgagggccgatggccttgctcagctgggtggc-ggtgtgtggct---------ggtgtgcaagggaaggcctcataaaggaggagaagcttcgattgaatcttggaggatcaagag-------gagcttgccagatcagagaggagtgtagagg-ccttgaag-gcagaag---ggcaaatgcaaagg----------------------------caggaaa-------------------------atgcgaagtggcaaggt-
+q canFam2.chr1 99999999999999999999999------999999-99999999999--999999-999999999999999999999999999999999999999999-99999999999---------999999999999999999999999999999999999999999999999999999999999999-------9999999999999999999999999999999-99999999-9999999---99999999999999----------------------------9999999-------------------------99999999999999999-
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=-4945.000000
+s mm9.chr10 3164546 99 + 129993255 GTGTGTC---------------------GGGGAGGAGTTTGCTTCT-CG---CCCAAGCCAGCTTTTTGGAGCTCGTGACTTGTTCAGTGCAGTTTCAT--------------CCTGTTATGGGAGG-------------AAACTGAGATT----
+s rn4.chr1 229981312 108 - 267910886 gtgggttggAGGTGCAGGGGTCGGGTGGGGGGAGGAGTTTGGTTCTCCA---CTTGGGCCAGCTTTTTGAAGCCTGTGGCTTCTTCAGTGCAGTTTCAT--------------CCTGTTATTT--------------------------CT----
+q rn4.chr1 9999999999888888888999999988899999999999999999999---99999999999999999999999999999999999999999998777--------------7799889777--------------------------99----
+i rn4.chr1 I 144 C 0
+s hg18.chr6 16058960 128 - 170899992 ------------------GGACGGGCG-GAGGAGGAGCTTGGCCAG-CAGGCCTCGGGCCAGCTTTGGGAGGCCTTTGCTTGTCATATGGTCATGTCATTCAGGCTGTACTCACCTTTCTTGAGAGGACTT---CTTGGATAAGTGCCATT----
+i hg18.chr6 C 0 I 95
+s panTro2.chr6 16581891 107 - 173908612 ------------------GGACGGGCG-GAGGAGGAGCTTGGCCAG-CAGGCCTCGGGCCAGCTTTGGGAGGCCTTTGCTTGCCATATGGTCATGTCATTCAGGCTGTACTCACCTTTCTTGAGAGG----------------------------
+q panTro2.chr6 ------------------999999999-999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999----------------------------
+i panTro2.chr6 C 0 I 116
+s canFam2.chr1 78231488 89 - 125616256 ----------------------gtgttaggagaGGGGGT--------C----------CTAGCTTGGAGAGGC------------TGGAGTGGCCTCCC--------------CATTTCAGGGGAAGAGCTTGGCCAGGAAGCCTGGGGTCAGCT
+q canFam2.chr1 ----------------------99999999999999999--------9----------999999999999999------------99999999999999--------------999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=8891.000000
+s mm9.chr10 3164645 86 + 129993255 ATGGGAGTCCCATGA--AAGCAGAGTTGGTCTCCAGT--TATCTTTTTCAGTGTCTGCTGTTGA---CTGTTAGAGGAATTTGAACCTCATCt
+s rn4.chr1 229981420 86 - 267910886 GTGGGAGTTCCATGAGCGAGCAGGGCTGATCTCCAGT--TGTCCCTCCCAGTGTCTGCCGTT-----TGACTACAGGAATCTGAACCTCATCt
+q rn4.chr1 9999999999999999999999999999999999999--99999999999999999999999-----99999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16059183 88 - 170899992 ACGGAAGCCCCAGCA--GAGCAGGAC-GTTCTTCTGTGATGGCTCCCCTGGTGCCTGGCGGTGAGTGATGTTAGGGGATTTGGA--CTCATCT
+i hg18.chr6 I 95 C 0
+s panTro2.chr6 16582114 88 - 173908612 ATGGAAGCCCCAGCA--GAGCAGGAC-GTTCTTCTGTGATGGCTCCCCTGGTGCCTGGCGGTGAGTGATGTTAGGGGATTTGGA--CTCATCT
+q panTro2.chr6 999999999999999--999999999-999999999999999999999999999999909999999999999999999999999--9999999
+i panTro2.chr6 I 116 C 0
+s canFam2.chr1 78231577 68 - 125616256 GTGGGAGGCCT------GTGCATGTCTATGGTCATAC--CATTTCCTTCAG-GACTGTGTTCTCTTCACTTGAGAGG----------------
+q canFam2.chr1 99999999999------99999999999999999999--999999999999-9999999999999999999999999----------------
+i canFam2.chr1 C 0 I 424
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=29862.000000
+s mm9.chr10 3164731 578 + 129993255 gtagtggtaattttttaacaattttgtactccctatgggtcacatttgtgtgctgcccaggagctgtc-----ttgagaatgaaagacac-----------------------------------tacacacgcacacacacacacacacacacacacacacacacacacaccagttagttttaatatacc-tgactagctcaaaggct----agttctaatcctctactgggctaccatgtaattccttccagtactcctggctcaacaccttttaaatc----tgttttatctttgctgccctcttacattctgggcagcccct-atgtagggctgctttctctttctacctatattttggatgaattttcttctgcagctctaaatctggtctgtctccctccgagacatggtgatctctctctcctt [...]
+s rn4.chr1 229981506 598 - 267910886 gcagcaggaatttgtaagctgctttgtgcacccgacaggttgc--ctgcgcgcatcgcaggagctatctggatttgagaatgaaagacagacagacagacaggcacacacacatacacacacacacacacacacacacacacacacacacacacacacacacacagacaccccagttaattttaatatgccttgactagctccaaggctgggcagttctagtcctctactgggctagcatacattttcctcaagtactcctggctcagcaccttttaaatctatatattttatctttgctgccgtattacattctgggcagtccctcctatagagctgttttccctttctacctacaacttggatgaattttcttctgcatctctaaatctgattcatctccctctgacacatagtgatctgcctct--tt [...]
+q rn4.chr1 9999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99 [...]
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e hg18.chr6 16059271 0 - 170899992 C
+e panTro2.chr6 16582202 0 - 173908612 C
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=2469.000000
+s mm9.chr10 3165309 23 + 129993255 -----TTGTACTACTGAAAAGAAACTGG-------------
+s rn4.chr1 229982104 23 - 267910886 -----TTGAACTATGGAAAGGAAATTGG-------------
+q rn4.chr1 -----99999999999999999999999-------------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16582202 41 - 173908612 TTGTAGTGAATGATGGGAGGATCACTGAAGGTCTAAATCAC
+q panTro2.chr6 99999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16059271 41 - 170899992 TTGTAGTGAATGATGGGAGGATCACTGAAGGTCTAAATCAG
+i hg18.chr6 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13023934 821 + 24938454 I
+e rheMac2.chr4 108466164 1359 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=48869.000000
+s mm9.chr10 3165332 138 + 129993255 GGGATCCACATTGCCATATTGGGGT-CC-TGGGAAGACATGGGAATAC-AGAGAGAACTGGTCTT---TCCTTGGGA-ACGA----GGTCTGTGCATATTGAGGGGAAGGGG-------CCATTTTACCCACAAGTCCTGTGCATTTTGCTG---------GTTG
+s rheMac2.chr4 108467523 147 + 167655696 GGGAGTCACCTGAGTGCATTTGGGTGTT-TGAAGAGCAGTGTGGATGG-CAGGAAAGCTGAAGACAAGTATTTAGGG-AGCA----CCTCCATGCACATTGAGGGGAAGGGA-----GTCCGTT------AGTGGTCACGCTCTTCAGGCTACCTTGGGTGGGCC
+q rheMac2.chr4 9999999999999999999999999999-9999999999999999999-9999999999999999999999999999-9999----99999999999999999999999999-----9999999------99999999999999999999999999999999999
+i rheMac2.chr4 I 1359 C 0
+s panTro2.chr6 16582243 147 - 173908612 GGGAGTCACATGAGTGCATTTGGGTGTT-TGAAGAGCCGTGTGGACGG-CAGGAGAGCTGATGACAAGTATTTTGGG-AGAG----CCTCCATGCACATTGATTGGAAGGGA-----GTCCATT------AGCAGTCCTACTCTTCAGGCTACCTTGGGTGGGCC
+q panTro2.chr6 9999999999999999999999999999-9999999999999999999-9999999999999999999999999999-9999----99999999999999999999999999-----9999999------99999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16059312 143 - 170899992 GGGAGTCACATGAGTGCATTTGGGTGTT-TGAAGAGCAGTGTGGATGG-CAGGAGAGCTGATGACAAGTATTTAGGG-AGAG----CCTCCATGCACATTGATT----GGGA-----GTCCATT------AGCAGTCCTGCTCTTCAGGCTACCTTGGGTGGGCC
+i hg18.chr6 C 0 C 0
+s rn4.chr1 229982127 144 - 267910886 GGGAGCCACACTGGCATATTGGGGT-CC-TGGGAAGATACTGAATT---AGAGAGAGCTGGTCCT---TCCTTGGGACACTA----GGTCTGTGCATATTGAGGGGAAGAGA-------CCATTTAACCTACAAG-CCTGTGCACTGGGCTGCTTATGAT-GTCC
+q rn4.chr1 9999999999999999999999999-99-99999999999999999---9999999999999999---99999999999999----99999999999999999999999999-------9999999999999999-999999999999999999999999-9999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13024755 142 + 24938454 ----------------TATTTGGGTGTCAGGAAGAGCAGTGTGAATGACCCATAGAGCTGATGACAAGTCTTTAGGA-AGAGAGCTCCTTGGTGCGTATGGAGGGCAAGGGAAGGAAGTGTGTT------AGTGATCCTACTCCTTGGGCGGCCTTGGATGAGTT
+q equCab1.chr31 ----------------9999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999------99999999999999999999999999999999999
+i equCab1.chr31 I 821 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 91192 920 - 219823 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=50092.000000
+s mm9.chr10 3165470 57 + 129993255 CAAGCTCCATGACGCTGGTGGCTTGTCAGTAGCTGATATCTCTGTC---CTACCAGTGAA
+s rn4.chr1 229982271 56 - 267910886 CAAGCTCCCTGACATTGGTGAATTGTCAGTA-CTGATCGCTCTGTC---CTACCAGTGAA
+q rn4.chr1 9999999999999999999999999999999-99999999999999---99999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16059455 57 - 170899992 CAAGCTTTGCTGGCCTAGTTAATTACCAATAGCTAGTATCAATGTCATTCCATCAGT---
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16582390 57 - 173908612 CAAGCTTTGCTGGCCTAGTTAATTACCAATAGCTAGTATCAATGTCATTCCATCAGT---
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999---
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108467670 57 + 167655696 CAAGCTTCGCTGGCCTAGTTAATTACCAATAGCTAGTATCAATGTCATTCCATCAGT---
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999---
+i rheMac2.chr4 C 0 C 0
+s felCat3.scaffold_217398 92112 57 - 219823 CAAGCTTTGCTGACCTGGTTAATTATCAATAGCTAGTATCCATCTCATTCTATTAGA---
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999999999999999999---
+i felCat3.scaffold_217398 I 920 C 0
+s equCab1.chr31 13024897 57 + 24938454 CCAGCTTTGCTGACCTGATTAATTATCAATAGTTAGTATCAGTCTCATTCTATTGGA---
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999---
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 323121 866 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=20390.000000
+s mm9.chr10 3165527 25 + 129993255 GATATCTTGTAGCTATACTGGGTAG-----
+s rn4.chr1 229982327 25 - 267910886 GACATTTTGCAGCTGCACTATATAG-----
+q rn4.chr1 9999999999999999999999999-----
+i rn4.chr1 C 0 I 324
+s rheMac2.chr4 108467727 23 + 167655696 GACATTCTGAAAC--TACTAAAAAT-----
+q rheMac2.chr4 9999999999999--9999999999-----
+i rheMac2.chr4 C 0 I 344
+s panTro2.chr6 16582447 23 - 173908612 GACATTTTGAAAC--TACTAGAAAT-----
+q panTro2.chr6 9999999999999--9999999999-----
+i panTro2.chr6 C 0 I 328
+s hg18.chr6 16059512 23 - 170899992 GACATTTTGAAAC--TACTAGAAAT-----
+i hg18.chr6 C 0 I 330
+s otoGar1.scaffold_334.1-359464 323987 25 - 359464 GGTATTTTTAAACTGTACTAAAAAT-----
+q otoGar1.scaffold_334.1-359464 9769799999999999999999999-----
+i otoGar1.scaffold_334.1-359464 I 866 I 5
+s felCat3.scaffold_217398 92169 30 - 219823 GATATTTTGAAACTGTACTAAAAATTACAG
+q felCat3.scaffold_217398 999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13024954 29 + 24938454 GACG-TTTGAAACTGCTCTGAAAATTACAG
+q equCab1.chr31 9999-9999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 30499 1339 - 523245 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=57973.000000
+s mm9.chr10 3165552 57 + 129993255 AGGAATTTGAAA---------TTGTTTTTCTGTGTTTAATGTCAATG---GTGGTGAACCAGGATCCTT
+s otoGar1.scaffold_334.1-359464 324017 58 - 359464 AGAAGCTCGGAG----AATTTTTTTTCCCCACTGTGCAAAACTAATA---GCTT----CCCAGGTATTT
+q otoGar1.scaffold_334.1-359464 999999999999----9879999999999989999999999999999---9999----99999999999
+i otoGar1.scaffold_334.1-359464 I 5 C 0
+s calJac1.Contig1260 31838 65 - 523245 AGAAGTTCTGAGACTTTTTTTTTTTTTTTCACTCTACAAAGCTGATAGCTGCTG----CCCAGGTATTC
+i calJac1.Contig1260 I 1339 C 0
+s rheMac2.chr4 108468094 62 + 167655696 AGAAGCTCAGAATTTTTTTTTTTTTTTTTCACTCTGCAAAGCTGATA---GCTG----CCCAGGGATTC
+q rheMac2.chr4 99999999999999999999999999999999999999999999999---9999----99999999999
+i rheMac2.chr4 I 344 C 0
+s panTro2.chr6 16582798 57 - 173908612 AGAAGCTCAGAA-----TTTTTTTTTTTTCACTCTGCAAAGCTGATA---GCTG----CCCAGGTATTC
+q panTro2.chr6 999999999999-----999999999999999999999999999999---9999----99999999999
+i panTro2.chr6 I 328 C 0
+s hg18.chr6 16059865 56 - 170899992 AGAAGCTCAGAA------TTTTTTTTTTTCACTCTGCAAAGCTGATA---GCTG----CCCAGGTATTC
+i hg18.chr6 I 330 C 0
+s rn4.chr1 229982676 36 - 267910886 ------------------------------TATGTTTAAAGTCAATA---GTGGTGAACCAGGATACTC
+q rn4.chr1 ------------------------------99999999999999999---9999999999999999999
+i rn4.chr1 I 324 C 0
+s felCat3.scaffold_217398 92199 59 - 219823 AGAAGCTCCAAG---AACTTTCCCCCCCCTACTCTACAAAGCCAATA---GCTG----CCCGGGGATTC
+q felCat3.scaffold_217398 999999999999---99999999999999999999999999999999---9999----99999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13024983 59 + 24938454 AGAAGCTCCAAG---AATTTATATTTTTCTACTCTACAATGCCCATA---GCTG----CCCAGGCATTC
+q equCab1.chr31 999999999999---99999999999999999999999999999999---9999----99999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 367576 1285 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=46412.000000
+s mm9.chr10 3165609 37 + 129993255 CAGTAGGAGTCGTGTTGTTCATCC-------------------------AGCCATGCTCACT
+s rn4.chr1 229982712 37 - 267910886 CAGTAGGAATCATGTTGTTAATCA-------------------------AGTTGTACCCACA
+q rn4.chr1 999999999999999999999999-------------------------9999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16059921 36 - 170899992 CAATAAAAGCCATGATGTT-ATAA-------------------------TGTTACAATCATT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16582855 36 - 173908612 CAATAAAAGCCATGATGTT-ATAA-------------------------TGTTACAATCATT
+q panTro2.chr6 9999999999999999999-9999-------------------------9999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108468156 36 + 167655696 CAATAAAAGTCATGATGTT-ATAA-------------------------TGTTACAATCATT
+q rheMac2.chr4 9999999999999999999-9999-------------------------9999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 31903 28 - 523245 TGATAAAAGTCATGGTGTT-AT---------------------------------GATCATT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 324075 27 - 359464 CAA-AGAAGTCTTGATGTT-AT---------------------------------AAACATT
+q otoGar1.scaffold_334.1-359464 999-999999999999999-99---------------------------------9999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 368861 36 - 498454 CAATAGAAGTCATGATATT-ATAA-------------------------TGTAATAATCATT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999-9999-------------------------9999999999999
+i tupBel1.scaffold_114895.1-498454 I 1285 C 0
+s felCat3.scaffold_217398 92258 36 - 219823 CAACAGAAGTCACGATGTC-ATAA-------------------------TATTATAATCATT
+q felCat3.scaffold_217398 9999999999999999999-9999-------------------------9999999999999
+i felCat3.scaffold_217398 C 0 I 15
+s equCab1.chr31 13025042 61 + 24938454 CAGTAGATGTCATACTGTT-ATAGTCATTTACTGTTATTATTGTTATACTGTTATAATCATT
+q equCab1.chr31 9999999999999999999-999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 15
+e bosTau3.chr9 13689596 1892 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78231645 424 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=46033.000000
+s mm9.chr10 3165646 34 + 129993255 TTGATT-----AGTGAT---------GAGAAAGTTTTAAGGGTGGGTG-
+s rn4.chr1 229982749 38 - 267910886 TTGATTGGTT-AGTGAT---------GGAAAGGTTTTAAGGGTGGGTT-
+q rn4.chr1 9999999999-999999---------9999999999999999999999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16059957 39 - 170899992 TTTGATAGTTCAGTGAT---------TGAAAAATCTGAAGGAATTGTC-
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16582891 39 - 173908612 TTTGATAGTTCAGTGAT---------TGAAAAATCTGAAGGAATTGTC-
+q panTro2.chr6 99999999999999999---------9999999999999999999999-
+i panTro2.chr6 C 0 I 1
+s rheMac2.chr4 108468192 39 + 167655696 TTTGATAGTTCAGTGAT---------TGAAAAATCCGAAGGAATTGTC-
+q rheMac2.chr4 99999999999999999---------9999999999999999999999-
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 31931 38 - 523245 TTTGATAGTTCAGTGAT---------TG-AAAATCTGAAGGAATTGTC-
+i calJac1.Contig1260 C 0 I 1
+s otoGar1.scaffold_334.1-359464 324102 39 - 359464 TTTGATAGTTCAGTGAT---------TGAAAAATGTTAAGGAATAGTC-
+q otoGar1.scaffold_334.1-359464 99999999999999999---------9999999999999999999999-
+i otoGar1.scaffold_334.1-359464 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 368897 39 - 498454 TTTGCTAGTTTAATGAT---------GGAAACATCTTAAGAAATTTTC-
+q tupBel1.scaffold_114895.1-498454 99999999999999999---------9999999999999999999999-
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s equCab1.chr31 13025118 44 + 24938454 -----TAGTTCAGTGATAGAAAGATTTGAGAAATCTTAGTGAATGATCT
+q equCab1.chr31 -----99999999999999999999999999999999999999999999
+i equCab1.chr31 I 15 C 0
+s felCat3.scaffold_217398 92309 36 - 219823 -----CAATTCAGTGAT----AGATTCAAGGAATCTT----AATGAATT
+q felCat3.scaffold_217398 -----999999999999----9999999999999999----99999999
+i felCat3.scaffold_217398 I 15 C 0
+s canFam2.chr1 78232069 36 - 125616256 -----TAGTTCAGTGAT----AGATTCAAGAAATCTT----AATTATCT
+q canFam2.chr1 -----999999999999----9999999999999999----99999999
+i canFam2.chr1 I 424 C 0
+s bosTau3.chr9 13691488 23 - 95030419 --------------------------TGAGAAATCTTAATGAATTATCT
+q bosTau3.chr9 --------------------------99999999999999999999999
+i bosTau3.chr9 I 1892 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 1415 2040 + 43077 I
+
+a score=167905.000000
+s mm9.chr10 3165680 80 + 129993255 T-----T-CTTTGAAATACAATGGATGTGTCTAAATAAAGTGGG-GTGTTTCATGTAAAATCGGATTTTCACTTTGC-----TGTTA---AGCTG
+s rn4.chr1 229982787 86 - 267910886 T-----TTCTCTGAAATGCAGTGGATGTTTCCAAATGAAGTGGG-GTGTTTCATGTAAAATTGTGTTTTTTTTTTACATCAGTGTCA---AGATG
+q rn4.chr1 9-----99999999999999999999999999999999999999-999999999999999999999999999999999999999999---99999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 3455 74 + 43077 T-----T-CTTTGAAACTCATTGGCTTCTTT----TAAAGTGTG-TTCTTT-ACGTAAAAGTAGATTTTATGTAT-C-----TGTGA---AATTG
+q oryCun1.scaffold_207308 9-----9-99999999998999999999999----879998979-899899-99999999999697999993121-5-----65969---87999
+i oryCun1.scaffold_207308 I 2040 C 0
+s hg18.chr6 16059997 69 - 170899992 T-----T-TTTTGAAATGC---------TTTGAAATAAAGTTGG-TTCTTT-ATGTAAAAATAGGTTTTTTTAGG-T-----CCTTA---AATTG
+i hg18.chr6 I 1 I 16
+s panTro2.chr6 16582931 69 - 173908612 T-----T-TTTTGAAATGC---------TTTGAAATAAAGTGGG-TTCTTT-ATGTAAAAATAGGTTTTTTTAGG-T-----TCTTA---AATTG
+q panTro2.chr6 9-----9-99999999999---------9999999999999999-999999-99999999999999999999999-9-----99999---99999
+i panTro2.chr6 I 1 I 16
+s rheMac2.chr4 108468232 69 + 167655696 T-----T-TTTTTTAATGC---------TTTGAAATAAAGTTGG-TTCTTT-ATGTAAAAATAGGTTTTATTAGG-T-----TCTTA---AATTG
+q rheMac2.chr4 9-----9-99999999999---------9999999999999999-999999-99999999999999999999999-9-----99999---99999
+i rheMac2.chr4 I 1 I 16
+s calJac1.Contig1260 31970 69 - 523245 T-----T-TTTTGAAATGC---------TTTAAAATCAAGTGGG-TTCTTT-ATGTAAAAATAGGTTTTATTAGG-T-----TCTTA---AATTA
+i calJac1.Contig1260 I 1 I 15
+s otoGar1.scaffold_334.1-359464 324142 78 - 359464 T-----T-CTTTGAAATACATTGAATGGGTTGAAATAAAGTAAG-TTCTTC-AGGTGAAAATGGGTCTTGTGAGG-C-----TTTTA---ATTTG
+q otoGar1.scaffold_334.1-359464 9-----9-999999999999999999999999999999999999-999999-99999999999999999999999-9-----99999---99999
+i otoGar1.scaffold_334.1-359464 I 1 I 15
+s tupBel1.scaffold_114895.1-498454 368937 75 - 498454 TTGAAAT-GTTTTCAATGC---------TTTGAAGTAAAGAGGGATTTTAA-ACGTAAAAATAGATTTTATTAGG-C-----TTTTA---AATTG
+q tupBel1.scaffold_114895.1-498454 9999999-99999969999---------99999999999999999999999-99999999999999999999999-9-----99999---99999
+i tupBel1.scaffold_114895.1-498454 I 1 I 542
+s equCab1.chr31 13025162 81 + 24938454 T-----T-CTTTGAAATGCATTGAATGCTTTGATATAAAATGGG-TTCTTT-ATGCAAAAATAAGTTTTAATGGG-C-----TTCAAGATAGCTG
+q equCab1.chr31 9-----9-999999999999999999999999999999999999-999999-99999999999999999999999-9-----9999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 92345 79 - 219823 A-----T-CTTTGAAATGCACTGAACGCTTTGACAT-AAATGGA-TTCTTT-ATGTAAAAACAGGTTTTACTGGG-T-----GCCAA-ACAGCTG
+q felCat3.scaffold_217398 9-----9-9999999999999999999999999999-9999999-999999-99999999999999999999999-9-----99999-9999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78232105 80 - 125616256 T-----T-CCTTGAAATGCATTGAATGCTTTGATAT-AAATGAATTTCTTT-ATGTAAAAGCTGGTTTTACTAGG-C-----TTCAA-ACAGCTG
+q canFam2.chr1 9-----9-9999999999999999999999999999-99999999999999-99999999999999999999999-9-----99999-9999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13691511 79 - 95030419 T-----T-CTTTGAAATGCCTTGAATGCTTTAATATGAAATGGA-TTCTTT-ATGTAAAGATAGGTTTAGT--AG-T-----TTCAAGACAGCTG
+q bosTau3.chr9 9-----9-999999998999999999999999999999999999-999999-9999999999999999999--99-9-----9999999989999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+
+a score=232348.000000
+s mm9.chr10 3165760 103 + 129993255 ACC-CTCTGG-AGGC-------------------------TTGTGGCTGTGTTG-TTGCATAGGT-ATGG-CAG------------------------------------------------------TTCTCCTGCCAGACTTGGTGGGATGGCATATCCCCTTCAtgtctcatatatgtgaattt
+s rn4.chr1 229982873 154 - 267910886 TGA-CCCTGT-AGCCGGAGG--------------------CTGTGGCTGTGCTG-TTTGACAGTT-ATGA-CAGATAA---ACAGAGACGTTTGTAGTTCTCCTACA--GGACTGTGGGTTATAGCATCTCATTTACCAGACTCAGTGGGCTGGGCTGTCCTCTTTATAT---ATATATGTCCTTTT
+q rn4.chr1 999-999999-999999999--------------------99999999999999-9999999999-9999-9999999---99999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999---99999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 3529 177 + 43077 G----TCTGC-AGGCAGCTGGCTTCCTAGCCGCATGTGTCCTGCATTTGGGTTGTTTGCAAAGTT-GAGA-ACGATAAGATAGTGAGCAGTTTGCAGTTCTCCTGGGACGAGCGGTGTGAGGTGTCA-TCCTGTTTACTGGCTTG--AGGAAGCAATGAGCTTCTCATGTTCCATAGAAATGGGTTT
+q oryCun1.scaffold_207308 9----78999-999999999999533399999999999999965449742479969997699879-9969-97555498414799978867999877999999999521353389799996959796-99999997798966999--6545758667996788697779795979837853999699
+i oryCun1.scaffold_207308 C 0 C 0
+s otoGar1.scaffold_334.1-359464 324235 141 - 359464 --A-CTTCAT-AAGC---TGGACC----------------TTATAATGGTCTTGTTTGCAAAGTT-AAAA-AAGATAA----------AGTGTGTACTTCTTCTGAGAGAATTGATGTGATCTCTCC-TTCTGTCTCCTGG--TC--TGGAAggaattaac------tgttccctatgtgtgaattt
+q otoGar1.scaffold_334.1-359464 --9-999999-9999---999999----------------9999999999999999999999999-9999-9999999----------999999999999999999999998999999999999999-9999999999999--99--99999999999999------99999999999999999999
+i otoGar1.scaffold_334.1-359464 I 15 I 1
+s calJac1.Contig1260 32054 157 - 523245 --A-CCTCAC-AGCCATGTACGTT----------------TTGTAGTTGGGCTGTTCACAAAGTG-AAAGAAAGATAAGAAAGCACACATTCTGCAGTTCTTCTGAGAGAGTTGATATGATGTGTCA-TTCTGTTTGCTCGGCCC--ATGAGGGAATGAAC------TTGTTCATACACAGGAATTT
+i calJac1.Contig1260 I 15 I 1
+s rheMac2.chr4 108468317 157 + 167655696 --A-CCCCAT-AGCCATGTGCACT----------------TCATAGTTGGGCTATTTGCAAAGTT-AAAAAAAGATAAGAAAGTAGGCATTCTGCAGTTCTTCTGAGAGAAATGGTATGAGGTCTCA-TCCTGTTTGCTGGACCC--ATGAGGGAATGAAC------TGTTTCATATATAGGAATTT
+q rheMac2.chr4 --9-999999-9999999999999----------------9999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999-99999999999999999--99999999999999------99999999999999999999
+i rheMac2.chr4 I 16 I 1
+s panTro2.chr6 16583016 156 - 173908612 --A-CCTCAC-AGCCATGTGCATT----------------TCATAGTTGGGCTATTTGCAAAGTT-AAAAGAAGATAAGAAAGTAGACATTCTGCAGTTCTTCTGAGAGAATTGATATGATGTCTCA-TTCTGTTTGCTGGG-CC--ATGAGGGAATGAAC------TGTTTCCTATACAGGGATTT
+q panTro2.chr6 --9-999999-9999999999999----------------9999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999-99999999999999-99--99999999999999------99999999999999999999
+i panTro2.chr6 I 16 I 1
+s hg18.chr6 16060082 157 - 170899992 --A-CCTCAC-AGCCATGTGCATT----------------TCATAGTTGGGCTATTTGCAAAGTT-AAAAGAAGATAAGAAAGTAGACATTCTGCAGTTCTTCTGAGAGAATTGATATGATGTCTCA-TTCTGTTTGCTGGGCCC--ATGAGGGAATGAAC------TGTTTCATATATAGGGATTT
+i hg18.chr6 I 16 I 1
+s equCab1.chr31 13025243 159 + 24938454 --ACCCTCAT-AGCCTTTTGTGTC----------------TTGCAGTTAGGTTGTCTGCAAAGTTGAAAA-AAGATAAGAAAGTGGACATTCTGTACTTACTCTGAGAGAATTGATATGATgtatca-tcccgtttactgggctta-atgaaggagtgaac------tgttccatatccagaaattt
+q equCab1.chr31 --99999999-9999999999999----------------999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999-999999999999999999-99999999999999------99999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 92424 155 - 219823 --A-CCTCATCAGCCATTTGTGTC----------------TTACAGTTAGATTGTTTGTGGAATT-AGAA-AAGATAAGAAAGTGGACATTCTGTAATTCTTTGGAGAGAATTGATACAATATATCG----TGtttaccgggcttg-atgagggaatgagc------tgttccacatatgtaaattt
+q felCat3.scaffold_217398 --9-99999999999999999999----------------9999999999999999999999999-9999-99999999999999999999999999999999999999999999999999999999----999999999999999-99999999999999------99999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78232185 154 - 125616256 --A-CCTCAT-AGCCATTTGTGTC-----------------TGCAGTTAGATTGTTTGCAAAGTT-AGAA-AAGATGAGAAAGTGTTCATTCTGTAATTC--CGGAGAGAATTGATGTGATATATCA-TCCTATTTTCTGGACTTG-ATGAGGGAATGCAA------TATTCCACATATGCAAATTT
+q canFam2.chr1 --9-999999-9999999999999-----------------999999999999999999999999-9999-99999999999999999999999999999--9999999999999999999999999-999999999999999999-99999999999999------99999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13691590 155 - 95030419 --A-CCTCAT-AGCTATTTGTGTC----------------TTGCAGTTAGATTGTCTGGAAAGTT---AA-AAAACAAGAGAGAGGACATTCTGCAGTTCTTCTGAGAGCATTAATATGATGTATCA-TCCTGTTGACTGGACTTG-AGGAAggagtgaac------agttccccatatataacttt
+q bosTau3.chr9 --9-999999-9999999998999----------------9999999999989999999999999---99-99999999899999999899999999999999999989979998899999999999-899999999999999999-78999999999899------99999999685995999896
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 369012 542 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+
+a score=279839.000000
+s mm9.chr10 3165863 169 + 129993255 -tctgatac-cagaccctcataat-----------------------------attaag-----gctagatccattgttatttttccctctgattttaggtggaaatctttctaaGGCATTTCTTT-----TATT-TTTT---GTGCTCCT-------GGCAGGCATTCAGACAACTCATTGGTTAATGATCTCTCTGTTCCCTGCTTAT----GAAAGAATGAA
+s rn4.chr1 229983027 156 - 267910886 -TCATGTATGTGAATCTTCATAAT-----------------------------ATTAAG-------------------TTGTTTTTCCTCTGATTTTGGG-GGGGGTCTTTCTAAGGCATTTCTTT-----CCTTATTTT---GTGCTCCT-------GGCAGGCGTTCAGACTACTCATGGGTTAATGATCTCTCCATTCCTTGCTTAC----GGAAGAATGAA
+q rn4.chr1 -99999999999999999999999-----------------------------999999-------------------9999999999999999999999-9999999999999999999999999-----999999999---99999999-------9999999999999999999999999999999999999999999999999999----99999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 3706 147 + 43077 -TGTGATAA-GTGAGCCTTATCAC-----------------------------TTTGAGA----GCTATTTTTTAAAAAAATTTCCCCTCTGATTCTGGT-TGGAAACTTTCAGGAACAAGTTT------------TCTT---GTGCTCAC-------AGAGTGCCTTC------TACACGAGTTAAT----------TTCTTTAATAAA----GAAAGAAGGAG
+q oryCun1.scaffold_207308 -69577569-79996537577867-----------------------------8977979----687659999879999945998995967677813366-49569977988356699962899------------9696---63668969-------55934895996------9696359568967----------998899877996----59976963766
+i oryCun1.scaffold_207308 C 0 C 0
+s hg18.chr6 16060240 192 - 170899992 -CCTGATAA-CCGAACCTTAAGACCTGGTTTAAGGTCTTTAAACCTGGATATTTTTAAGACCTGGATATTTTT-----AATTTTTCCCTGTAGTTTTGGATGGAAACCTTTCTAAAATAAATTTTT-----AACT-TTTT---GGGCTTAC-------AGAGTACATTC------AACCTGAGTTAATGATTTCTTCATTCCTTGCTTAT----GAAAGAATGAA
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16583173 192 - 173908612 -CCTGATAA-CTGAACCTTAAGACCTGGTTTAAGGTCTTTAAACCTGGATATTTTTAAGACCTGGATATTTTT-----AATTTTTCCCTGTAGTTTTGGATGGAAACCTTTCTAAAATAAATTTTT-----AACT-TTTT---GGGCTTAC-------AGAGTGCATTC------AACATGAGTTAATGATTTCTTCATTCCTTGCTTAT----GAAAGAATGAA
+q panTro2.chr6 -99999999-999999999999999999999999999999999999999999999999999999999999999-----999999999999999999999999999999999999999999999999-----9999-9999---99999999-------99999999999------99999999999999999999999999999999999----99999999999
+i panTro2.chr6 I 1 C 0
+s rheMac2.chr4 108468475 183 + 167655696 -CCTGATAA-CTGATCCTTAAGACCTGGTTTAAGGTCTTTAAACCTGGATATTTTTAAGACCTGGGTATATTT-----AATTTTTCCCTGTAGTTTTGGATGGAAATCTTTCTAAAATAAATTTT---------T-TTTTGGGGGGCTTAC-------AGAATGCATTC------AACGTAAGTTAATG--------ATTCCTTGCTTAT----GAAAGAATGAA
+q rheMac2.chr4 -99999999-999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999999999999999999---------9-999999999999999-------99999999999------99999999999999--------9999999999999----99999999999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 32212 188 - 523245 -CCTGATAA-CTGAACCCTGAGACCTGGATTAAGGTCTTTAAATGTGGATATTTTTAAGACCTGGATATTTTT-----AATTTTTCCCTGTAGTTTTGGATGG-GATCTTTCTAAAATAAAAATCT--------T-TTGT---GTGCTCAC-------AGAGTGCATTC------AACATGAGTTAATGATTTCTTCGTTCCTTGCTTAG----GAAAGAATTTG
+i calJac1.Contig1260 I 1 C 0
+s otoGar1.scaffold_334.1-359464 324377 158 - 359464 -cctgataa-ctgaacctcatcac-----------------------------tttaggacctggataatttt-----tattttcccctttgattttggatagaaattttcctaaaatAAAATTTTG----AACA-TTTT---GTGCTCAC-------ACAGTGCATTT------AACA----------ATTTCTTTTTCCCTTGTTTATGGAAGAAAGAATGAA
+q otoGar1.scaffold_334.1-359464 -99999999-99999999999999-----------------------------99999999999999999999-----9999999999999999999999999999999999999999999999999----9999-9999---99999999-------99999999999------9999----------999999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 369554 159 - 498454 -TCTGAC-C-CTGAACCCCATCAG-----------------------------TTTAAGACCCAGATAGTTTT-----A--TTCTCCTGGTAA---TAGATGGAAATCTTTCTAAAACCCCTTTTTTCCTCCTAT-TTTT---GTACTT----------GAGTGCATTT------AACAAGAGTTAACAATTTCTTCATTCCTCGTGTAT----GAAGGGGTGAA
+q tupBel1.scaffold_114895.1-498454 -999999-9-99999999999999-----------------------------99999999999999999999-----9--999999999999---999999999999999999999999999999999999999-9999---999999----------9999999999------99999999999999999999999999999999999----99999999999
+i tupBel1.scaffold_114895.1-498454 I 542 C 0
+s equCab1.chr31 13025402 149 + 24938454 tcctgataa-ctgaactttattac-----------------------------tttaagaactggatattttt-----tatttttctct-tcagtttggttggaagtctttctaaaagaaataattt----actt-tctc---atgcttac--aaa-cagagtacattc------aaca-------------------tTCCTTGCTTAG----GAAAGAATGAA
+q equCab1.chr31 999999999-99999999999999-----------------------------99999999999999999999-----99999999999-9999999999999999999999999999999999999----9999-9999---99999999--999-999999999999------9999-------------------999999999999----99999999999
+i equCab1.chr31 C 0 I 309
+s felCat3.scaffold_217398 92579 148 - 219823 tcctgataa-ctgaacctcctcat-----------------------------tttaacacctggatatttat-----tatttttccctttgattttggatggaaatctttctaaaacaaatcattt----actt-tc------tgctgat--aaaccagagtgcattc------aata-------------------tTCCTTCCTTAT----GAAGGAACGAA
+q felCat3.scaffold_217398 999999999-99999999999999-----------------------------99999999999999999999-----9999999999999999999999999999999999999999999999999----9999-99------9999999--9999999999999999------9999-------------------999999999999----99999999999
+i felCat3.scaffold_217398 C 0 I 4
+s canFam2.chr1 78232339 151 - 125616256 TCCTAATAA-CTGAACTTC--CAT-----------------------------TTTAACACCTGGATATTTAT-----TATTTTTCCCTGTGATTTTGAAGGGACATATTTCTGAAACAAATTATTG----ACTT-TCTT---GTGCTGCTAAAAACCAGAGTGCACTC------AATA-------------------TTCCTTCCTTAT----GGAAGAATGAA
+q canFam2.chr1 999999999-999999999--999-----------------------------99999999999999999999-----9999999999999999999999999999999999999999999999999----9999-9999---99999999999999999999999999------9999-------------------999999999999----99999999999
+i canFam2.chr1 C 0 I 4
+s bosTau3.chr9 13691745 143 - 95030419 tcttggtaa-cataacttcatcac-----------------------------tttaagatctggatgt---t-----tatttttttcttcaactttggatgaaaattttccta----aaattactt----actt-tctt---gtgttcat--aag-cagagtgtattc------agca-------------------ttcctttcttgG----GAAAGAAGGAA
+q bosTau3.chr9 999988778-99998896989749-----------------------------9788999799999986---9-----999999999996999999999999999989999898----789999999----9999-9999---99999999--999-999999979999------9995-------------------999999999999----99999999999
+i bosTau3.chr9 C 0 I 329
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+
+a score=-5461.000000
+s mm9.chr10 3166032 50 + 129993255 ACCCTGTCAGTGCTG-TGGCAGGCATTCTGCTAGTGGC---GG------GACCTGTCGAG
+s rn4.chr1 229983183 51 - 267910886 ATATTCTCAGTGCTGGTGGCAGGCATTCTGCTAGTGGC---AG------GGCCTGTTAGG
+q rn4.chr1 99999999999999999999999999999999999999---99------99999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 3853 50 + 43077 TGATTCACAAGGAC--TGGGGAGTGTATTGACCATAACTCTAG------GGCCTG--GTG
+q oryCun1.scaffold_207308 56788879956657--533575737879557997988997946------559848--733
+i oryCun1.scaffold_207308 C 0 C 0
+s hg18.chr6 16060432 50 - 170899992 TTATTCAGAATCAC--TGAAGTGTGTGGTTACCATAATGACAG------GGCCTA--CCG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16583365 50 - 173908612 TTATTCAGAATCAC--TGAAGTGTGTGGTTACTATAATGATAG------GGCCTA--CCG
+q panTro2.chr6 99999999999999--999999999999999999999999999------999999--999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108468658 50 + 167655696 TTATTCAGAATCAC--TGAAGTGTGTGGTTACTATAATGATAG------GGCCTA--CCG
+q rheMac2.chr4 99999999999999--999999999999999999999999999------999999--999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 32400 51 - 523245 CTATTCAGAATCAT--GGAACTGTGTGGCTACTGCAGTGACAA-----TGGCCTA--CTG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 324535 32 - 359464 TTACTCGCAATTGC--TGAAGGGTGTGATTCCT--------------------------G
+q otoGar1.scaffold_334.1-359464 99999999999999--99999999999999999--------------------------9
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 369713 49 - 498454 TTATTCCCATGTAT--TGCAGTGTGTGATTGCAGTAGTGATA-------GACCTT--CTG
+q tupBel1.scaffold_114895.1-498454 99999999999999--99999999999999999999999999-------999999--999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78232494 46 - 125616256 ----GCATAGTCAT--CGAAGTGAGCAATTACCATAATGAGAATGTATTGAT--------
+q canFam2.chr1 ----9999999999--999999999999999999999999999999999999--------
+i canFam2.chr1 I 4 C 0
+s felCat3.scaffold_217398 92731 46 - 219823 ----GCATAATTAT--TGAAGCGAGTGATTACCGTAATGATAATGTTTTGAC--------
+q felCat3.scaffold_217398 ----9999999999--999999999999999999999999999999999999--------
+i felCat3.scaffold_217398 I 4 C 0
+e bosTau3.chr9 13691888 329 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13025551 309 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+
+a score=154183.000000
+s mm9.chr10 3166082 95 + 129993255 ACCTGTTCGGGACCTGTGTGCCTGACTTGCTGAGCGACCTC-AG---AATGTCATGATTGTGAAGTCACCATCCTTAAATTTTAAGGTGACTGATGGTC
+s rn4.chr1 229983234 95 - 267910886 ACCTGTGCAGGGCCTGTGTGCTTGTCTTGCTGAGCGACCTC-AG---AATGTCACAATTGTAAAGTCACCATCCTTAAATTTTAAGGTGACTGATATCT
+q rn4.chr1 99999999999999999999999999999999999999999-99---9999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 3903 79 + 43077 ATC---------CTCGTGTGACAGTTTTGCTGAGTGACCTC-AG---AAAGCCATGCTCACT--GTTACTCTTCTT-GATTTTTAGGTGACTGAT----
+q oryCun1.scaffold_207308 458---------89473835697679946656572569799-57---998488958889993--888998479554-668899967737685789----
+i oryCun1.scaffold_207308 C 0 I 4263
+s hg18.chr6 16060482 85 - 170899992 ATA---------CTCGTATGACTACTTTGCCGAGTGACCCC-AG---AATGCCATGTTTTCTAAGTTACTGTCCTT-GGCTTTTAGGTAACCGATGCTC
+i hg18.chr6 C 0 I 18
+s panTro2.chr6 16583415 85 - 173908612 ATA---------CTCGTATGACTATTTTGCTGAGTGACCCC-AG---AATGCCATGTTTTCTAAGTTACTGTCCTT-GGCTTTTAGGTAACCGATGCTC
+q panTro2.chr6 999---------99999999999999999999999999999-99---99999999999999999999999999999-9999999999999999999999
+i panTro2.chr6 C 0 I 18
+s rheMac2.chr4 108468708 85 + 167655696 ATA---------CTTGTATGACTATTTTGGCGAGTGACCCC-AG---CATGCCCTGTTTTCTCGGTTACTGTCCTT-GGCTTTTAGGTAACCAGTGCTC
+q rheMac2.chr4 999---------99999999999999999999999999999-99---99999999999999999999999999999-9999999999999999999999
+i rheMac2.chr4 C 0 I 20
+s calJac1.Contig1260 32451 85 - 523245 ATA---------CTCACGTGACTCTTCTGCCGAGTGACCCC-AG---AATGCCGTGTTTTCTAAGTTACTGTCCTT-GGCTTTTAGGAAGCCGATGCTC
+i calJac1.Contig1260 C 0 I 20
+s otoGar1.scaffold_334.1-359464 324567 82 - 359464 ACA---------CTCGTGTGAC-----TGCTGAGTGACCCC-AGCGTGGTGCCACATTCTCTAAGCTACTCACCTT--GTTTTTAGGTAGCTGACGCTC
+q otoGar1.scaffold_334.1-359464 999---------9999999999-----99999999999999-9999999999999999999999999999999999--999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 I 737
+s tupBel1.scaffold_114895.1-498454 369762 80 - 498454 ATC---------TTTGTGCAGCCACCTTGCTCAGTGA-CCC-AG---AAGGTCTTGTTTTC--AGTTACT-TCCTT--CATTTTATGTAGCTGACACTT
+q tupBel1.scaffold_114895.1-498454 999---------9999999999999999999999999-999-99---99999999999999--9999999-99999--999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 20
+s felCat3.scaffold_217398 92777 75 - 219823 -----------AC---TGTGACTGTCTTACCAAATGGCCCCTGG---AATGCCATGTTTTCAAAGTTACTGCCCTG-GGATGGT-----TCTAGCCTC-
+q felCat3.scaffold_217398 -----------99---9999999999999999999999999999---99999999999999999999999999999-9999999-----999999999-
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78232540 74 - 125616256 -----------AC---TGTGACTATGTTGCCAAATGGCCCC-AG---AATGCCATGTTTTCAAAGTTAATGTGCTT-GGCTCTT-----TTTGATACC-
+q canFam2.chr1 -----------99---9999999999999999999999999-99---99999999999999999999999999999-9999999-----999999999-
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13692217 78 - 95030419 acATATTGGCCACTTG--TGA--GTCCTGACAAATGACTCC-AG---AATGCCAGGTTTTCAGAGTTACCATCCTT-GTTTTTTAGG------------
+q bosTau3.chr9 9999999999999999--999--999999999999999999-99---99999999999999999999999999999-9999999999------------
+i bosTau3.chr9 I 329 I 499
+s equCab1.chr31 13025860 66 + 24938454 ----------------TGTCATTGTCTTGCTGAGTGACCCC-AG---GATGCCATGTTTTCAAAGTTACTTCCCTT-GGTTTTTAGG------------
+q equCab1.chr31 ----------------9999999999999999999999999-99---99999999999999999999999999999-9999999999------------
+i equCab1.chr31 I 309 I 265
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+
+a score=-8867.000000
+s mm9.chr10 3166177 14 + 129993255 GTCTCCA-----TTCTAGT--------
+s rn4.chr1 229983329 19 - 267910886 GTCTTCATTCCTTTCTACT--------
+q rn4.chr1 9999999999999999999--------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16060585 18 - 170899992 -TCCTCTTTTGGATTTACT--------
+i hg18.chr6 I 18 I 9
+s panTro2.chr6 16583518 18 - 173908612 -TCCTCTTTTGGATTTACT--------
+q panTro2.chr6 -999999999999999999--------
+i panTro2.chr6 I 18 I 9
+s rheMac2.chr4 108468813 18 + 167655696 -TACTCTTGTGGATTTACT--------
+q rheMac2.chr4 -999999999999999999--------
+i rheMac2.chr4 I 20 I 9
+s calJac1.Contig1260 32556 18 - 523245 -TCCTCTTTCAGATTTACT--------
+i calJac1.Contig1260 I 20 I 9
+s tupBel1.scaffold_114895.1-498454 369862 18 - 498454 -GTCTCTCTTAAATGTACT--------
+q tupBel1.scaffold_114895.1-498454 -999999999999999999--------
+i tupBel1.scaffold_114895.1-498454 I 20 I 9
+s felCat3.scaffold_217398 92852 17 - 219823 ----------ATACCCATTTCCATAGC
+q felCat3.scaffold_217398 ----------99999999999999999
+i felCat3.scaffold_217398 C 0 I 25
+s canFam2.chr1 78232614 11 - 125616256 ----------GTTCCTACCT------T
+q canFam2.chr1 ----------9999999999------9
+i canFam2.chr1 C 0 I 25
+e bosTau3.chr9 13692295 499 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13025926 265 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=102142.000000
+s mm9.chr10 3166191 67 + 129993255 -TCCTTTTGCTGGCAGAAGATA--------TCTTTGCTTTCTGAAGGAAAAGTCAGGCAGCCTCACAAAGGTTTCT
+s rn4.chr1 229983348 55 - 267910886 -TCCTTTTGCAGGTGGAAGATA--------TTTTTGCTTTCCAAAGGAAAAGTCAGGCAGCC------------CT
+q rn4.chr1 -999999999999999999999--------99999999999999999999999999999999------------99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16060612 75 - 170899992 -TCTCTTGAAGGCTGGGAAACAAAAGAACTTTTCTGCTTTCTAAAATGAGAACAAACAGGCCTTGGGTGAAGGTCT
+i hg18.chr6 I 9 I 304
+s panTro2.chr6 16583545 75 - 173908612 -TCTCTTGAAGGCTGGGAAACAAAAGAACTTTTCTGCTTTCTAAAATGAGAACAAACAGGCCTTGGGTGAAGGTCT
+q panTro2.chr6 -999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 9 I 298
+s rheMac2.chr4 108468840 75 + 167655696 -TCTCTTGAAGGCTGGGAAACAAAAGAACTTTTCTGCTTTCTAAAATGAGAACAAACGGGCCTTGGGTGAAGGTCT
+q rheMac2.chr4 -999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 9 I 4
+s calJac1.Contig1260 32583 70 - 523245 -TCTCTCGAAAGCTGGGAAACAAA-----TTTTCTGCTTTCTAAAATGAGAACAAACAGGCTGTGGGTGAAGGTCT
+i calJac1.Contig1260 I 9 I 4
+s tupBel1.scaffold_114895.1-498454 369889 75 - 498454 -TTGCTTGACGGCTGAGAAACCAAGGCAATTATTTGCTTCTTAAAATAAGAATAAATGGTTTTTGAGTGAGGGTCT
+q tupBel1.scaffold_114895.1-498454 -999999999999999999999999999999999999999999999909999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 9 I 4
+s equCab1.chr31 13026191 75 + 24938454 TCTCTTTGAAggct-gaaaacaaaataacttattttctttctaaaatgagagtaaataggccttgggtgaggctct
+q equCab1.chr31 99999999999999-9999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 265 C 0
+s felCat3.scaffold_217398 92894 71 - 219823 TGTGTTTGGAGGCTGGGAAACAAAATAACTTACTTGC-TCCTGAAATGAGAATAGGTGGGCTTTGGGTTGGC----
+q felCat3.scaffold_217398 9999999999999999999999999999999999999-9999999999999999999999999999999999----
+i felCat3.scaffold_217398 I 25 C 0
+s canFam2.chr1 78232650 76 - 125616256 TGTCTTTGGAAGCTGGGAAAGCAAATAACTGGCTGCCTTCCTCAAATGAGAAGAGCTAGGCTTTGGGTGAGCGTCT
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 25 C 0
+e bosTau3.chr9 13692295 499 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=4014.000000
+s mm9.chr10 3166258 46 + 129993255 GGGAAGGTGTGT--GTGAAGGCCC-----------GTGGATGCTCT--TTACTGCGTGTGC
+s rn4.chr1 229983403 46 - 267910886 GGGAAGGTTTCT--GGGAAGGCCT-----------GTGTCTGTGCT--TTACTGCATGTGC
+q rn4.chr1 999999999999--9999999999-----------99999999999--9999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16583918 56 - 173908612 cCGAAGGTCTGTCTTAGAAGGCCT---TAAGTCAAGCGAATGTACT--TGATGGCATAGGT
+q panTro2.chr6 999999999999999999999999---9999999999999999999--9999999999999
+i panTro2.chr6 I 298 I 24
+s hg18.chr6 16060991 56 - 170899992 cCGAAGGTCTGTCTTAGAAGGCCT---TAAGTCAAGCGAATGTACT--TGATGGCATAGGT
+i hg18.chr6 I 304 I 24
+s rheMac2.chr4 108468919 42 + 167655696 --------------TAGAAGGCCT---TAAGTCAAGCCAGTGTACT--TTACCGCATAGGT
+q rheMac2.chr4 --------------9969999999---9999999999999999999--9999999999999
+i rheMac2.chr4 I 4 I 36
+s calJac1.Contig1260 32657 40 - 523245 --------------TAGAATACCT---CAAGTCAAGCGAACACACTTCTCACTGCAT----
+i calJac1.Contig1260 I 4 C 0
+s tupBel1.scaffold_114895.1-498454 369968 42 - 498454 --------------GAGAAGTCCT---GTGTTAAGTCCTATGTTAT--TTATTGCCGTGTT
+q tupBel1.scaffold_114895.1-498454 --------------9999999999---9999999999999999999--9999999999999
+i tupBel1.scaffold_114895.1-498454 I 4 I 23
+s equCab1.chr31 13026266 42 + 24938454 ----------gt-ggagaagtcctgtgtacgtcaagagaatgtact--ttattgc------
+q equCab1.chr31 ----------99-999999999999999999999999999999999--9999999------
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 92965 40 - 219823 -------------AGAAGTATATTCAGTGAGTCAACTGAATGTACT--TTATTGA------
+q felCat3.scaffold_217398 -------------999999999999999999999999999999999--9999999------
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78232726 43 - 125616256 ----------GTTGGAGGAGTCTTCTGTAAGTTAAGGGAATGTACC--TTATTGT------
+q canFam2.chr1 ----------999999999999999999999999999999999999--9999999------
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13692295 499 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=27073.000000
+s mm9.chr10 3166304 83 + 129993255 -----------------------------AGATGA--AGGGCTCCTTGAAACACTCACACC-----------------ATGCTGTTCAGGATTATGAA--AATGGATTATCCAGATTGGGGGAAAGGGA--------------CTCT
+s rn4.chr1 229983449 82 - 267910886 -----------------------------AGACGA--AATGCTCATTGAAACACTCACACT-----------------ATACGTTTCAGGGTTATGGAACAATGGATTATCCTTATTGGGGAAAAGGGA--------------C---
+q rn4.chr1 -----------------------------999999--999999999999999999999999-----------------999999999999999999999999999999999999999999999999999--------------9---
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16061071 72 - 170899992 -----------------------------AGAAGG--AGGACTCATTT------------------------------TGTTTTTTCAAGTCTTTCTAACGCTGAACCATCCATATCCGAAAAAAAAAA--------------ATGA
+i hg18.chr6 I 24 C 0
+s panTro2.chr6 16583998 71 - 173908612 -----------------------------AGAAGG--AGGACTCATTT------------------------------TGTTTTTTCAAGTCTTTCTAACACTGAACCATCCATATCCG-AAAAAAAAA--------------ATGA
+q panTro2.chr6 -----------------------------999999--99999999999------------------------------99999999999999999999999999999999999999999-999999999--------------9999
+i panTro2.chr6 I 24 C 0
+s calJac1.Contig1260 32697 94 - 523245 -------------------------------------AGGTTTTATCATATCTTCCACATTTCAAAGAAGGAGCACTCATTTTGTTTAATTCTTTCTAACACTGAACCATCCATATCTG--AAAAAAAA--------------ATTA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108468997 57 + 167655696 ---------------------------------------------------------CATT-----------------TTGTTTTTCAAGTCTTTCTAACACTGAACCATCCATATCTG--AAAAAATG--------------ATTA
+q rheMac2.chr4 ---------------------------------------------------------9999-----------------99999999999999999999999999999999999999999--99999999--------------9999
+i rheMac2.chr4 I 36 C 0
+s tupBel1.scaffold_114895.1-498454 370033 85 - 498454 -----------------------------AGAAAG--AGGACTCATTTA-----------------------------ATATTTCTCATGTCTTTCCAGCATTGACTCATTCATATGTG--AGAAATAAACCCCAGAAAGTGTATCA
+q tupBel1.scaffold_114895.1-498454 -----------------------------999999--999999999999-----------------------------99999999999999999999999999999999999999999--99999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 23 C 0
+s equCab1.chr31 13026308 103 + 24938454 ataggctttatcatatc-tTTAACATTTCAAAGAAAGAGGTCTCATTTT-----------------------------ATAATGTTCAAGTCTTTCTAACATTATGCCATCCATGTCTAGAAAAAAAAG--------------ATTA
+q equCab1.chr31 99999999999999999-9999999999999999999999999999999-----------------------------999999999999999999999999999999999999999999999999999--------------9999
+i equCab1.chr31 C 0 I 3
+s felCat3.scaffold_217398 93005 100 - 219823 AGAGGCTTTATCTTATC-TTTAACTTTTCAGAGAA--AGGACTCATATT-----------------------------ATGTTTTCCAGGCCTTCCTAACATGAAACCATTCATATATG-AAAAAAAAA--------------ATTA
+q felCat3.scaffold_217398 99999999999999999-99999999999999999--999999999999-----------------------------99999999999999999999999999999999999999999-999999999--------------9999
+i felCat3.scaffold_217398 C 0 I 3
+s canFam2.chr1 78232769 100 - 125616256 AGAGGCTCTATCTTGTCTTTTAACATTTCAAAGAA--AGGACTCCTTTT-----------------------------CTGTTTTCCAAGCTTTCATAACATGAAACCATTCACATCTG--GAAAACAA--------------ATGA
+q canFam2.chr1 99999999999999999999999999999999999--999999999999-----------------------------99999999999999999999999999999999999999999--99999999--------------9999
+i canFam2.chr1 C 0 I 3
+e bosTau3.chr9 13692295 499 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=66472.000000
+s mm9.chr10 3166387 35 + 129993255 TACCAGTATTGCTTCTAGAAGGGCAATGGGCTTTG
+s hg18.chr6 16061143 35 - 170899992 TATTATTACTTCTGCTGGCATCACTGCTGGGTTTG
+i hg18.chr6 C 0 I 19
+s panTro2.chr6 16584069 35 - 173908612 TATTATTACTTCTGCTGGCATCACTGCTGGGTTTG
+q panTro2.chr6 99999999999999999999999999999999999
+i panTro2.chr6 C 0 I 19
+s calJac1.Contig1260 32791 35 - 523245 TAGTATGACTTCTACTGGCATCACTGTTGGGTTTG
+i calJac1.Contig1260 C 0 I 16
+s rheMac2.chr4 108469054 35 + 167655696 TATTATTACTTTAACTGGCATCACTGCTGGGTTTG
+q rheMac2.chr4 99999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 19
+s tupBel1.scaffold_114895.1-498454 370118 34 - 498454 TATTATTACTTTCACT-GCAGTACTGCTGGGTTTG
+q tupBel1.scaffold_114895.1-498454 9999999999999999-999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 46
+s canFam2.chr1 78232872 35 - 125616256 TATCATTACTTCCCCCGGCAATATAGCTAGGTTTG
+q canFam2.chr1 99999999999999999999999999999999999
+i canFam2.chr1 I 3 C 0
+s felCat3.scaffold_217398 93108 35 - 219823 TATCATTGCTTCTACTGGCAATGCTGCTGGTTTTG
+q felCat3.scaffold_217398 99999999999999999999999999999999999
+i felCat3.scaffold_217398 I 3 C 0
+s equCab1.chr31 13026414 35 + 24938454 TATTATTACTTCTACTGGCAATGCTGCTGGGTTTG
+q equCab1.chr31 99999999999999999999999999999999999
+i equCab1.chr31 I 3 C 0
+s bosTau3.chr9 13692794 17 - 95030419 ------------TATCGACA------CTGGGTTTG
+q bosTau3.chr9 ------------99999999------999999999
+i bosTau3.chr9 I 499 C 0
+e rn4.chr1 229983531 0 - 267910886 C
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e ponAbe2.chr6 16363860 2751 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=101621.000000
+s mm9.chr10 3166422 67 + 129993255 --------------------CTAAGCTCTCTGA---CTGGGAGTCCAGAAGTTTCTTTGCTCACCTTTGGGGTCCAGTGTGGATAGAGT-G
+s rn4.chr1 229983531 45 - 267910886 --------------------------------------------CCGGAAGTGTCCTTGCTCACCTTC-AGGTCCAGTGTGGGTGGGGT-G
+q rn4.chr1 --------------------------------------------999999999999999999999999-99999999999999999999-9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16061197 68 - 170899992 --------------------CCAAGCCTTCTTAC-ACTGTTTGCCTAGAGGTCCCCTGGCTTGCCTTTTGGTTCCAAGTTGTGTGAGGT--
+i hg18.chr6 I 19 C 0
+s panTro2.chr6 16584123 68 - 173908612 --------------------CCAAGCCTTCTTAC-ACTGTTTGCCTAGAGGTCCCCTGGCTTGCCTTTTGGTTCCAAGGTGTGTGAGGT--
+q panTro2.chr6 --------------------99999999999999-999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 I 19 C 0
+s ponAbe2.chr6 16366611 68 - 174210431 --------------------CCAAGCCTTCTTAC-ACTGTTTGCCTAGAGGCCCCCTGGCTTGCCTTTTGGTTCCAAGGTGTGTGAAGT--
+i ponAbe2.chr6 I 2751 C 0
+s rheMac2.chr4 108469108 68 + 167655696 --------------------CCAAGCCTTCTTAC-ACTGTTTGCCTAGAGGCCCCCTGGCTTGCCTTTTGGTTCCAGCGTGTGTGAGGT--
+q rheMac2.chr4 --------------------99999999999999-999999999999499999999999999999999999999999999999999999--
+i rheMac2.chr4 I 19 C 0
+s calJac1.Contig1260 32842 69 - 523245 --------------------CCCAGGCCTCTTAC-ACTGTGTGCCTAGAGGCCTCCTGGCTTACCTTTTGGTTCCAAGGTATGTGAGGTG-
+i calJac1.Contig1260 I 16 I 360
+s tupBel1.scaffold_114895.1-498454 370198 63 - 498454 --------------------CTCAGCCCTCTTAG-CCTGTTT-TGTAGAGGCCTCTTGGCTCTTCT----GTTCCAAGGTGGGTGAGAT--
+q tupBel1.scaffold_114895.1-498454 --------------------99999999999999-9999999-79999999999999999999999----9999999999999999999--
+i tupBel1.scaffold_114895.1-498454 I 46 C 0
+s canFam2.chr1 78232907 86 - 125616256 CAGAGTGAAAGAAAGTAGTCTCTAGGCCTCTTAG-ACTGTATGTCTAGAAGCCTCTTGGCTTACGTTTGGGTTCCAAAGTG--TGAGGT--
+q canFam2.chr1 9999999999999999999999999999999999-9999999999999999999999999999999999999999999999--999999--
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 93143 86 - 219823 CAGAGTAAAAGAAAGTAATCCCCAGGCCTCATAT-ACTGTTTGTCTAGAAGCCTCTGGACTTACCTTTGGGCTCTGAAGTG--TGGGGT--
+q felCat3.scaffold_217398 9979999999799989999999989999998999-9999999999999996899979989997978998999999999576--599765--
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13026449 70 + 24938454 CAGAGTG-AAGAAGAAAATCTCTTGGGCCTCTTATACTATTTGTCT------------------CTTTGGGCTCCCAGGTGCATGAGGT--
+q equCab1.chr31 9999999-99999999999999999999999999999999999999------------------9999999999999999999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13692811 84 - 95030419 CAAAGGGAAAGAAA--AATGCCCAAGCCTCTTAC-AGTGTTTGTCCAGAGAACCCATTGCTT-CCTTTAGGTT-GAAGGTGTGTGAGAT--
+q bosTau3.chr9 99999999999999--999999999999999999-999999999999999999999999999-9999999999-999999999999999--
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=24894.000000
+s mm9.chr10 3166489 47 + 129993255 GAGGGTACTGGAGAA-GTATCTCTGATCACAATT-TATTTTCATTCCTG
+s rn4.chr1 229983576 46 - 267910886 GAGGGTACTGGAGAA-GTATCTCTGATCACAATT-TATTTTT-CTCCCA
+q rn4.chr1 999999999999999-999999999999999999-9999999-999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16061265 29 - 170899992 ------------GAG-GTGTTACTGTACTTAAGG-TTTTTTT------A
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16584191 29 - 173908612 ------------GAG-GTGTTACTGTACTTAAGG-TTTTTTT------A
+q panTro2.chr6 ------------999-999999999999999999-9999999------9
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16366679 30 - 174210431 ------------GAG-GTGTTACTGTACTAAAGG-TTTTTTT-----CA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108469176 31 + 167655696 ------------GAG-GTGTTACTGTACTAAAGG-TTTTTTT----TCA
+q rheMac2.chr4 ------------999-999999999999999999-9999999----999
+i rheMac2.chr4 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 370261 41 - 498454 GAAGTCAGTG--GAG-GTGTTACTGGACAAAATG-TTCTTTT----CCA
+q tupBel1.scaffold_114895.1-498454 9999999999--999-999999999999999999-9999999----999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78232993 38 - 125616256 GAGGTTGCTG--GAG-G--TTACTATA-TAAAGG-TGGTTTT----TCA
+q canFam2.chr1 9999999999--999-9--99999999-999999-9999999----999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 93229 39 - 219823 GGGGTTGCTG--GAG-G--TTACTATA-GAAAGGTTGTTTTT----TTA
+q felCat3.scaffold_217398 9997688999--999-9--99999999-99999999999999----999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13026519 41 + 24938454 GAGGTCTCTG--GAG-GCATCATTATACTAAAGG-TTGTTTT----TCA
+q equCab1.chr31 9999999999--999-999999999999999999-9999999----999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13692895 36 - 95030419 GAGGTCACTG--AAGTG--TTTCTGTACTAAAGG-----TTG----TCA
+q bosTau3.chr9 9999999999--99999--999999999999999-----999----999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 32911 360 - 523245 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 324649 737 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=301094.000000
+s mm9.chr10 3166536 108 + 129993255 TTATCTTTAGTA---GCGATTATTTGTTGGACATCTATCCTGGGT-AAGGCACAGCCAATGGCATGAAG----AAATAGTTTCTTTCC--AAAAAGTAAAGTTG--GCATCCGGAGAAGA
+s rn4.chr1 229983622 108 - 267910886 TTATCTTTAGTGATCGTGGTTATTTGTTGAGCATCCATCTT-GTT-ACGGCACAGCCGCTGGCATGATG-----AATAGTTTCTTTCC--AAAAAGTAAAGCTG--GCAT-CGGCGGAGG
+q rn4.chr1 99999999999999999999999999999999999999999-999-99999999999999999999999-----99999999999999--99999999999999--9999-999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108469207 111 + 167655696 TCAGCTTTGACAATGGTGGTTATTTATTGATCGTCTGCCACGTGT-AAGGCACTACAAACAGCACAGGG----AAGTGACTTCTTTCT--AGAAACTTAAATTC--TAGTTTGGAGGAGG
+q rheMac2.chr4 999499999999999999999999999999999999999999999-99999999999998999999787----999999999999999--94999999999999--99999999999999
+i rheMac2.chr4 C 0 I 6
+s ponAbe2.chr6 16366709 111 - 174210431 TCATCTTTGACAATGGTGCTTATTTATTGGTCGTCTGCCACGTGT-AAGGCACTACAAATAGCACAGGG----AAATGACTTCTTTCT--AGAAACTTAAATTC--TAGTTTGGAGGAGG
+i ponAbe2.chr6 C 0 I 6
+s panTro2.chr6 16584220 111 - 173908612 TCATCTTTGACAATGGTGGTTATTTATTGGTCGTCGACCACGTGT-AAGGCACTACAAACAGCACAGGG----AAATGACTTCTTTCT--AGAAACTTACATTC--TAGTTTGGAGGAGG
+q panTro2.chr6 999999999999999999999999999999999999999999999-99999999999999999999999----999999999999999--99999999999999--99999999999999
+i panTro2.chr6 C 0 I 6
+s hg18.chr6 16061294 111 - 170899992 TCATCTTTGACAATGGTGGTTATTTATTGGTCGTCGACCACGTGT-AAGGCACTACAAACAGCACAGGG----AAATGACTTCTTTCT--AGAAACTTACATTC--TAGTTTGGAGGAGG
+i hg18.chr6 C 0 I 6
+s otoGar1.scaffold_334.1-359464 325386 112 - 359464 TTATCTGTGACAATGATGATGATTTGTTGGTCTTCTACCCCACATAAAAGCACTGTAAACAACATAAGG----AAATGACTTCTTTCT--AGAAAGTTAAATTC--TAGTTTGGAAGAGG
+q otoGar1.scaffold_334.1-359464 999999999999999999999999999999999999999999999999999999999999999999999----999999999999999--99999999999999--88999349999999
+i otoGar1.scaffold_334.1-359464 I 737 I 6
+s calJac1.Contig1260 33271 101 - 523245 ----------TGATGGTGGTTATTTATTGGTTGTCTACCATGTGT-AAGGCACTACAAACAGCACAAGG----AAATGACTTCGTTGT--AGAAACTTCAGTTC--TAGTTTGGAGGAGG
+i calJac1.Contig1260 I 360 I 6
+s tupBel1.scaffold_114895.1-498454 370302 108 - 498454 TCAGCTTTGCCAATAGTGATTATTTGTTGTGCATCTACTATGTGT-TGGGCACTCT---TAACACAAGG----AAATGACTCTTTTCT--AAAACATCACGTTC--TTGACTGGAAGAGA
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999999999999999-9999999999---9999999999----999099999999999--99999999999999--99999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 2224
+s canFam2.chr1 78233031 103 - 125616256 TTATTTTTGACAA-------TATTTATGGAGCATCTGCCACACAT-AAAGGACTGTGAACAACCCTGAA-----GATGACTTTTTTTGGTGGGAATTTAAAATTCTGAACTTGGAA----
+q canFam2.chr1 9999999999999-------9999999999999999999999999-99999999999999999999999-----999999999999999999999999999999999999999999----
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 93268 92 - 219823 TGATCTTTGACAA---TGACTATTTATTGGATATCTACCATATGT-AAGATATTGTGAACAACACTGGA------ATGACTTCTTCAG--AGGAACTTAAATTC----------------
+q felCat3.scaffold_217398 9999999999999---99999999999999999999999999999-99999999999999999999999------9999999999999--99999999999999----------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13026560 110 + 24938454 TCATCTTTGACAAcaataattattgattgggcatctaccatatgt-aaggcactgtGAACAACATGGGG----AAATGACTTCTTCCT--AGAAATTTAAATTC--CAGTTTGGAAGAG-
+q equCab1.chr31 999999999999999999999999999999999999999999999-99999999999999999999999----999999999999999--99999999999999--9999999999999-
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13692931 105 - 95030419 TCATCTCTGATGA---------CTTTCTGGGCATCTACCATACAT-AAGGCACTGCGAACAACACAACACAGGAAGTGCCTTCTTCCT--AGAGATTTAAACCC--TAGTTTGGAAGAG-
+q bosTau3.chr9 9999999999999---------99999999999999999999999-999999999999999999999999999999999999999999--99999999999999--9999999999999-
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=-9157.000000
+s mm9.chr10 3166644 20 + 129993255 -------TTGGGCATGG---------------GGAATGAATA
+s rn4.chr1 229983730 16 - 267910886 -------TTGGGCGTGG---------------GGAATG----
+q rn4.chr1 -------9999999999---------------999999----
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108469324 31 + 167655696 -------TGGAGCAGAGCTAGCCACAGTACTTGGAATT----
+q rheMac2.chr4 -------9999999999999999999999999999999----
+i rheMac2.chr4 I 6 C 0
+s ponAbe2.chr6 16366826 31 - 174210431 -------TGGAGCAGATCTAGCCACAGTACTTGGAATT----
+i ponAbe2.chr6 I 6 C 0
+s panTro2.chr6 16584337 31 - 173908612 -------TGGAGCAGAGCTAGCCACAGTACTTGGAATT----
+q panTro2.chr6 -------9999999999999999999999999999999----
+i panTro2.chr6 I 6 C 0
+s hg18.chr6 16061411 31 - 170899992 -------TGGAGCAGAGCTAGCCACAGTACTTGGAATT----
+i hg18.chr6 I 6 C 0
+s otoGar1.scaffold_334.1-359464 325504 31 - 359464 -------TGGAGGAGAGATTACTGTCGTATCCGGCATG----
+q otoGar1.scaffold_334.1-359464 -------4999999999739999899997999997899----
+i otoGar1.scaffold_334.1-359464 I 6 C 0
+s calJac1.Contig1260 33378 31 - 523245 -------TGGAGCAGAGCTAGCCACAGTACTTGGAATT----
+i calJac1.Contig1260 I 6 C 0
+s canFam2.chr1 78233134 18 - 125616256 GAAGTAGTGGAGGAGAA--A----------------------
+q canFam2.chr1 99999999999999999--9----------------------
+i canFam2.chr1 C 0 I 4
+s felCat3.scaffold_217398 93360 11 - 219823 --AGTCGTTgggg-----------------------------
+q felCat3.scaffold_217398 --99999999999-----------------------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13026670 20 + 24938454 GAAGTACTGGACGAGAAACA----------------------
+q equCab1.chr31 99999999999999999999----------------------
+i equCab1.chr31 C 0 I 4
+s bosTau3.chr9 13693036 20 - 95030419 CAAGTAGTGGAGAATAAACA----------------------
+q bosTau3.chr9 99999999999999999999----------------------
+i bosTau3.chr9 C 0 I 4075
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=28563.000000
+s mm9.chr10 3166664 70 + 129993255 CAG-----------ACTTGGGGG-TGGCGCCCAGTTGCTCAGCCACAGGGACACT--GCCCTGCTGAACGAGTGTCCTT---TGCTT
+s rn4.chr1 229983746 33 - 267910886 ---------------------------------GTTGCTCAGCCGCAGGGACACT--GTCCGG-------------------TCCCT
+q rn4.chr1 ---------------------------------9999999999999999999999--999999-------------------99999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108469355 62 + 167655696 --------------TGTCAGAGA-T----CAGGGTAGCTCAGCCCCAGGAAGGCCTAGGGCTG------GGGAGTCCTCCTCTCCCC
+q rheMac2.chr4 --------------999999999-9----9999999999993999999999999999999999------999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16366857 66 - 174210431 --------------TATCAGAGG-TGCAGCAGGGTAGCTCAGCCCCAGGAAGGCCTAGGGCTG------GGGAGTCCTCCTGTCCCC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16584368 66 - 173908612 --------------TGTCAGAGG-TGCAGCAGGGTGGCTCCGCCCCAGGAAGGCCTAGGGCTG------GGGAGTCCTCCTGTCCCC
+q panTro2.chr6 --------------999999999-999999999999999999999999999999999999999------999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16061442 66 - 170899992 --------------TGTCAGAGG-TGCAGCAGGGTGGCTCCGCCCCAGGAAGGCCTAGGGCTG------GGGAGTCCTCCTGTCCCC
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 325535 62 - 359464 --------------CATCAGGTG--GCGGCAGGGCAGCCCAGCCCAAGGATGTCCACGGGTGA----ACAAGAGTCT-----TCCCC
+q otoGar1.scaffold_334.1-359464 --------------657998911--24988789998899887998799988999889999773----2212798999-----99999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 33409 65 - 523245 --------------CGTCAGAGG-TGCAGCA-GGTAACTCAACCCCAGGAAGACCTAGGTCTG------GGGAGTCCTCCTCTCCCC
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78233156 80 - 125616256 TAGTACGTAGAATTTGTCAGAAGCCACAGCAGAGTGGCTCAGCCCCGGGAATGC-CATGGCCA---AACAAGAGTCCTCTCTCC---
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999-99999999---999999999999999999---
+i canFam2.chr1 I 4 C 0
+s felCat3.scaffold_217398 93371 41 - 219823 --------------------------cgtctgggtggctcagtc--------------ggttg---agcggctgacttcagctc---
+q felCat3.scaffold_217398 --------------------------999999999999999999--------------99999---999999999999999999---
+i felCat3.scaffold_217398 C 0 I 507
+s equCab1.chr31 13026694 81 + 24938454 CAGTACGTGGAATTTGTCAGAGGGTGCGGTAAGGTAGCACGGCCCTAGATAAGCTCATGGCTG---AACaagactcctcatctc---
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999---999999999999999999---
+i equCab1.chr31 I 4 I 2
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=64112.000000
+s mm9.chr10 3166734 36 + 129993255 -TCAAGGCTG--ACATTTGTTAG-AGATGG--GCTTGCAAGG
+s rn4.chr1 229983779 36 - 267910886 -TGAAGGGTG--ACATTTGTTAG-AGATAG--GCTTGTAAGG
+q rn4.chr1 -999999999--99999999999-999999--9999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108469417 38 + 167655696 -AGAAGGCTG--GCATTTGACTG-AGAGTGCAGCTTTCAAGG
+q rheMac2.chr4 -999999999--99999999999-999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16366923 38 - 174210431 -AGAAGACTG--ACATTTGACTG-AGAGTGCAGCTTTCAGGG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16584434 38 - 173908612 -AGAAGACTG--ACATTTGACTG-AGAGTGCAGCTTTCAGGG
+q panTro2.chr6 -999999999--99999999999-999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16061508 38 - 170899992 -AGAAGACTG--ACATTTGACTG-AGAGTGCAGCTTTCAGGG
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 325597 37 - 359464 -AGAAGGCTG--ACGTCTGACTGCAGACTG--ACTTGGatgg
+q otoGar1.scaffold_334.1-359464 -889999999--999999999999999999--9999999999
+i otoGar1.scaffold_334.1-359464 C 0 I 1260
+s calJac1.Contig1260 33474 38 - 523245 -AGAAGGCTG--GCATTTGACTG-AGAGTGCAGCTTCCAAGG
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78233236 37 - 125616256 CAAAGGGT----GCCTCTGACTG-AGGTTGCAGCTTCCAGGA
+q canFam2.chr1 99999999----99999999999-999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13026777 39 + 24938454 tagaaggttgtaacctttgact---ggttacagcttccacga
+q equCab1.chr31 9999999999999999999999---99999999999999999
+i equCab1.chr31 I 2 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 93412 507 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=1458.000000
+s mm9.chr10 3166770 38 + 129993255 TGACATACATGAGGTGTAGA--GAGTG-CGG---ATGCA-GGCCC
+s rn4.chr1 229983815 40 - 267910886 TGAAGTACATGAGGTATAGA--AGGTGTCAG---ATGCAGGGCCC
+q rn4.chr1 99999999999999999999--999999999---99999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16061546 35 - 170899992 GGACTTGGATGGAGCTGAGA--GGGAGCAAG---A-----GGCCC
+i hg18.chr6 C 0 I 151
+s panTro2.chr6 16584472 34 - 173908612 GGACTTGGATGGAGCTGAGA--GGGAGCAAG---A-----GGCC-
+q panTro2.chr6 99999999999999999999--999999999---9-----9999-
+i panTro2.chr6 C 0 I 152
+s ponAbe2.chr6 16366961 20 - 174210431 GGACTTGGATGGAGCTGAGA-------------------------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108469455 34 + 167655696 GGACTT-GATGGAACTGAGA--GGGAGCAAG---A-----GGCCC
+q rheMac2.chr4 999999-9999999996766--667666667---6-----76786
+i rheMac2.chr4 C 0 I 153
+s calJac1.Contig1260 33512 26 - 523245 GGACCTGGATGGAGCTGAGA--GGGAGC-----------------
+i calJac1.Contig1260 C 0 I 163
+s canFam2.chr1 78233273 45 - 125616256 TAACTCAGATGGAACTGGGGAAGGAGGAGGTCCTAGGGAAGGCAC
+q canFam2.chr1 999999999999999999999999999999999999999999998
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13026816 28 + 24938454 tgactcagatggagctgagg--ggaagagg---------------
+q equCab1.chr31 99999999999999999999--99999999---------------
+i equCab1.chr31 C 0 I 321
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 93412 507 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=1034.000000
+s mm9.chr10 3166808 27 + 129993255 --------GGCCTGCTTAGCTCTTTCCTATGGTGG
+s rn4.chr1 229983855 27 - 267910886 --------AGCCTGCTCATCGCTGTCCTTTGGCGG
+q rn4.chr1 --------999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78233318 35 - 125616256 AGCTGTGGAGGCAGCTTTGACCATCAGTAGGGTGG
+q canFam2.chr1 88998999999999999998888898899999999
+i canFam2.chr1 C 0 I 175
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13026844 321 + 24938454 I
+e rheMac2.chr4 108469489 153 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 93412 507 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 33538 163 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16061581 151 - 170899992 I
+e panTro2.chr6 16584506 152 - 173908612 I
+e ponAbe2.chr6 16366981 0 - 174210431 C
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=5747.000000
+s mm9.chr10 3166835 221 + 129993255 GTGCtgtcctag--tttctgttactgtggtgaaaccctgaccaaaataaacttggggagc----aaagggttgctttcaatgtaagtgacagtccatcgctcagggaagccaagtcaggaacctggagactggggcagacaccacaaaggaatgaggcctgctggcttgttctttctgttttgtttaactgcttttcttatgtaaccccagacctacctgcctggga
+s rn4.chr1 229983882 225 - 267910886 GTGCTATCCtagaacatctgttactgtggtgaaaccctgacctaaagaaacttggggagcaaagaaagggttgcgttcatcttaactgacagtctgtcatccagggaagccaagtgaggaacctggaggccggggcagacaccatgagggaatgaggcctactggcttgctccttctgctttgctcagctac-tctcttatataa-cccaggcccacctgcctgggg
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999-999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16366981 57 - 174210431 ------------------------------------------------------GGGAGC----AAGAGGCC---------------------------------------------------------CTGGGAAATGCACAATAGCAGAAT-------------------------------------------------------CAGCCCCATCTGTCAGCGG
+i ponAbe2.chr6 C 0 I 102
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13026844 321 + 24938454 I
+e rheMac2.chr4 108469489 153 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 93412 507 - 219823 I
+e canFam2.chr1 78233353 175 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 33538 163 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16061581 151 - 170899992 I
+e panTro2.chr6 16584506 152 - 173908612 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=9204.000000
+s mm9.chr10 3167056 169 + 129993255 aggctgctgcccactgtgggctagaccctcctgaatcaattagccatcaggaaaatgtcctacagacatgctcagaggccaatcggatggaggtaact-ctaaattgaggttccctcttcccaagtgactagtttgtattgaggtataaaaactacaacaGGTTACCTTC
+s rn4.chr1 229984107 138 - 267910886 aggcgactgcccacagtgggctagaccctcctgaatcaattagccatcaagaaaatgccctgcaaacatgcccaaaggccagtcggatggaggtaactcctcagttgagtttccctcttcccaggtgactag--------------------------------ACCTTC
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------------------------999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13026844 321 + 24938454 I
+e rheMac2.chr4 108469489 153 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 93412 507 - 219823 I
+e canFam2.chr1 78233353 175 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 33538 163 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 55123 2609 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16061581 151 - 170899992 I
+e panTro2.chr6 16584506 152 - 173908612 I
+e ponAbe2.chr6 16367038 102 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=13503.000000
+s mm9.chr10 3167225 79 + 129993255 CCAATTCCATCCCTGATTCTGCTGGTCAGGAGAATT-GGGGAGGAAGCTTGGGAACTTTCCAGATGGCAGAGGC-TATCAA
+s ponAbe2.chr6 16367140 55 - 174210431 CCATTTCCACC--------------------------GGGGAGGGGGCGTGAAAACTTCATGGATGAGGGTGGATTATTGC
+i ponAbe2.chr6 I 102 C 0
+s rn4.chr1 229984245 63 - 267910886 CCAATTCCATCAG-GACTCTGCTGGTCAGGAGGATTGGGGGAGGGAGCTTGGGGACTTTCCAG-----------------A
+q rn4.chr1 9999999999999-9999999999999999999999999999999999999999999999999-----------------9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16061732 47 - 170899992 ---------------------------------ACC-GGGGAGGGGGCGTGAAAACTTCATGGATGAGGGTGGATTATTGC
+i hg18.chr6 I 151 C 0
+s panTro2.chr6 16584658 47 - 173908612 ---------------------------------ACT-GGGGAGGGGGCGTGAAAACTTCATGGATGAGGGTGGATTATTGC
+q panTro2.chr6 ---------------------------------999-99999999999999999999999999999999999999999999
+i panTro2.chr6 I 152 C 0
+s rheMac2.chr4 108469642 46 + 167655696 ----------------------------------CT-GGGGAGGGGGCGTGAAAACTTCATGGATGAGGGTGGATTAATGC
+q rheMac2.chr4 ----------------------------------89-99999999997789999999977797999999999999999999
+i rheMac2.chr4 I 153 C 0
+s calJac1.Contig1260 33701 46 - 523245 ----------------------------------TT-AGGGAGGGGGCGTGAAAACTTCATGGACAAGGGTGGAGTATTGC
+i calJac1.Contig1260 I 163 C 0
+s cavPor2.scaffold_284118 57732 46 - 169015 ----------------------------------TTGGGCAGAGGGGCTCAAAAGCTCGCTGGGTGGAGGAGGA-TGAATG
+q cavPor2.scaffold_284118 ----------------------------------9999999999999999999999999999997999999999-799989
+i cavPor2.scaffold_284118 I 2609 C 0
+s felCat3.scaffold_217398 93919 48 - 219823 ----------------------TGGGGAGGAGG----------GTGGCTT-ATGACTACTGGGAGCTGAGAGGATTACTGT
+q felCat3.scaffold_217398 ----------------------99999999999----------9999999-999999999999999999999999999999
+i felCat3.scaffold_217398 I 507 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13026844 321 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78233353 175 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=879392.000000
+s mm9.chr10 3167304 486 + 129993255 TGGCTATGATCTGCTGAGCACCATTGCTCGGTAAGAGATGGTGTGG-------TCCCCAGTAGAGACT--------------------GTGGTG--AAA-----------------------CCCAGACTCGTTCC------------------CTGCAAGTCA------------------GGCTACTGGCTCTGAGCCTCCCA--gggaagacagt-ggttctgaggttgcgcgaacctggcct-ttcagaccagttctgccactttctgactatgtcattatcagcagttttcttagtccctcttggtt-gaatcagtttccccacgagtg-aagggagacagtgggacccatctGTTGGCTTCT-----AGGAACAATGGCCAGACTTGTGCTTCATTTT--ATTTTATAAGTACAGTGTT-----C [...]
+s rn4.chr1 229984308 492 - 267910886 TGGCTGTGAGCTGCTGAGTGCCATGGCTGGGTAAGAGATGGTGTGG-------GCCCCAGGAGAGAC----------------------TGGGG--AAG-----------------------CTTGGATATATTTC------------------CTGCAAGTCA------------------GGCTACTGGGTCTGAGCCTCCCA--gggaagacagcgggttctggggttgcatgaacctggcct-tctagaccagttctgccactttctggctatgtcattatcaggaggtttcttagctccttttgctt-gctttggtttccccgcaagggaaagggagacagtgggacccatctcTTGGCTTCT-----AGGTATGGTGGCCGGACTTCTG-TTTACCTT--ATTTTATAAGTACAGTGTG-----T [...]
+q rn4.chr1 9999999999999999999999999999999999999999999999-------99999999999999----------------------99999--999-----------------------99999999999999------------------9999999999------------------99999999999999999999999--999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999-----9999999999999999999999-99999999--9999999999999999999-----9 [...]
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16061779 597 - 170899992 TGGGTCCTGCCTAATGAGCACAGT-GCTGGATTGGAGAAGGGGAGGGAAGGGCGCCCAGGGGGAGAGATGGTGGCCAGGAGGGACGAGGTGGAG-AAGG-----------------------GCCAGGCGTGTGTTGTAACTCTGAGGTGCTGGCTTCTTAGCAGAACTTGTTCTACCTCCCGGCTTCTCTGGCTGAGCCTCCcagtgggaagacaatgggttctggagtcggatgggcctggacc-tcaagaccagttctaccactttttagctgtgtcatcttcagcaatgtccccagtccctc-----t-ccatcagcttcctc--gtgtacaagggagat--caggagtgatcttgcagacttttcagaaggaaaaaaca--agacttagatttaaccatgaacaatgtaaacatagtata-----t [...]
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16584705 597 - 173908612 TGGGTCCTGCCTAATGAGCACAGT-GCTGGATTGGAGAAGGGGAGGGAAGGGCGCCCAGGGGGAGAGATGGTGGCCAGGAGGGACGAGGTGGAG-AAGG-----------------------GCCAGGTGTGTGTTGTAACTCTGAGGTGCTGGCTTCTTAGCAGAACTTGTTCTACCTCCCGGCTTCTCTGGCTGAGCCTCCcagtgggaagacaatgggttctggagtcggatgggcctggacc-tcaagaccagttctaccactttttagctgtgtcatcttcagccatgtccccagtccctc-----t-ccatcagcttcctc--atgtacaagggagat--caggagtgatcttgcagacttttcagaaggaaaaaaca--agacttagatttaaccatgaacaatgtaaacatagtata-----t [...]
+q panTro2.chr6 999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999-9999-----------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999-----9-99999999999999--999999999999999--99999999999999999999999999999999999999--999999999999999999999999999999999999999-----9 [...]
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108469688 598 + 167655696 TGGGTCCTGTCTAATGGGCACAGT-GCTGGGTTGGAGAAGGGGAGGGAAGGGCGGCCAAGGGGAGAGATGGTGGCCAAGAGGGGCGAGGTGGAG-AAGG-----------------------ACCGGGTGTGTGTTGTAACTCTGAGGCGCTGGCTTCTCAGCAGAGCTTGTTCTACCTCCTGGCTTCCCTGGCTGAGCCTGGCAGTGGGAAGACAATGGGTTCTGGAATCGGATAGGCCTGGACC-TCAAGACCAGTTCTACCACTTTTTAGCTGTGTCATCCTCAGCAATGTCCCCAGTCCCTC-----T-CCATCAACTTCCTCATGTGTACAAGGGTGAT--CAGGAGTGATCTTGTAGACTCTTCAGAAGGAAAAAACA--AGACTTAGATTTAACCATGAACAATGTAAACATAGTATA-----T [...]
+q rheMac2.chr4 999999899999999999999999-999966666666666556666666663321226677666776665653353366676766666666667-6686-----------------------7676666666666666766676666667667666776667667776664321123766766666666666666666767777666666666766666666766656667666666666666666-66766677666676666676766676666677655556667666786667676666666-----6-6666667666776766666666676667666--67666766999999999999999999999999999999--999999999999999999999999999999999999999-----9 [...]
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16367195 599 - 174210431 TGGGTCTTGTCTAATGAGCACAGT-GCTGGGTTGGCGAAGGGGAGGGAAGGGCGACCAAAGGGAGAGATGGTGGCCAGGAGGGGCGAGGTGGAG-AAGG-----------------------GCCAGGTGTGTGTTGTAACTCTGAGGTGCTGGCTTCTTAGCAGAACTTGTTCTACCTCCTGGCTTCTCTGGCTGAGCCTCCcagtgggaagacaatgggttctggagttggatgggcctggacc-tcaagaccagttctaccactttttagctgtgtcatcttcagcaatgtccccagtccctc-----t-ccatcagcttcctcatgtgtacaagggagat--caggagtgatcttgtagacttttcagaaggaaaaaaca--agacttagatttaaccatgaacaatgtaaacatagtata-----t [...]
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 33747 573 - 523245 TGGGTCCTGTCTAATGATCATAGT-GCTGGGTTGGAGAA-GGCAGGGAAGGGCAGCCAAGAGGAGAGATGGTGGGCAGGAGGGGCGAGGTGGAA-AAGG-----------------------GCCAGGTGTGTGTTGTAA--CTGAGGTGCTGGCTTCTTAGCCGA-----------------GCTTCTCTGGCTGAGCCTCCcagtgggaaaac--tgggttctggagtcagatgggtctggacc-tcaagaccagttcgaccactttttagctgtgtcatcttcagcaatgtccatagtccctc-----t-ccatcagctttctcaggtgtacaagggagat--CAGGAGTGGTCTTGTAGACTCTTCAGAAGGAAAAAACA--AGACTTCAATTTCACCATGAACACTGTAAACCTAGTATA-----T [...]
+i calJac1.Contig1260 C 0 C 0
+s cavPor2.scaffold_284118 57778 563 - 169015 CTGCTGCTTTCTGATGAGGACAGTCCCTGAATGAGGGGTGGTGAGG--AGGGTGGCCCAGCAGAGGGCTGTC---------GAAAGGGATGGTGGAAGG-----------------------GTCAGGTATGTGTCGCAACTCTGATGTA--GACAGCGTGTCAGTG-----TCATTCCCTTGGCTACAGAGTCTGAGCCTCCCA--GGCAAGTCAGTGTGCTCTGGGACTGGGTGAACCTGGTGGAGTGAGACCTGTTCTGCCACTTTCTAGTTGTGTGACT-TCAGCACTTTTCCTAGTCCTTC-----T-ACATTAGTTTCTTCATGAGTAAAAGGAAGATGGTAAGGCTGATCTTGTGGCTGCCCT--GAAGAATAGTGG--AGACTTCTACATAGCCAC--GTCCTGTAGAAACAGTATG-----T [...]
+q cavPor2.scaffold_284118 9999999999999989999999999999999999999999999999--999999999999999999998999---------999999999999999999-----------------------9999999999999999999999999999--999999999999999-----999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999-----9-999999999999999899999999999999999999999999999999999999999--999999999999--999999999999999999--9999999999999999999-----9 [...]
+i cavPor2.scaffold_284118 C 0 C 0
+s felCat3.scaffold_217398 93967 571 - 219823 TGGCTCTTGACTAATGAGCACAACTGCTGATTCAGAGAAGGCAAGGGAGGGCTGGCCCAATGCAAA-ATGATGCCCAGGCTG--CAGGGCAGGA--AGG-----------------------GCCAAGTGTGTGTCGTAAGTCTGATC-----TTCTCTTTGGAGAGCTGGCTCATCCTCCAAGCCTCACTGTCTGAGCCTCTcactggagagacggtagcttgtggagttggatgaacttgagtc-tcaaggctagttctgccactttctagttgtgttgtcttca--atttttcttagctcctt-----taacatgaacttcttcataaaagggaaggaggtgataagattgatcttgtggattcttCA----GAATAATTA--TGACTC-CATTGGGCCATGCATTATGTAAACCTGTTGGGCCAGAC [...]
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999999999999999999999999999-999999999999999--9999999999--999-----------------------99999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999--99999999999999999-----999999999999999999999999999999999999999999999999999889999999----999999999--999999-99999999999999999999999999999999999999 [...]
+i felCat3.scaffold_217398 C 0 I 1721
+s equCab1.chr31 13027165 501 + 24938454 TAACTCTGAT--------------------------------------------------------------------------------------------------------------CTG-------------------CTCATT--------CCTCAGGAGAGCTTGTTCATTCTCCTGGCTAGTCTGCCTGAGCCTCCcagtggaaagacaatgggttctggagttggatgaagctggatc-taaagaccagttctaccactttctggttttgtcatcttcagcaatgt--ttagtccctc-----taacatcaacttcttcgtaaaaggaagggagacgataagattgatcttgtggACCATTCA----GAATAATTG--AACCTTGTGTTTGGTCATGTGCTCTATAAACCTAGTGTA-----T [...]
+q equCab1.chr31 9999999999--------------------------------------------------------------------------------------------------------------999-------------------999999--------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999--9999999999-----999999999999999999999999999999999999999999999999999999999999----999999999--999999999999999999999999999999999999999-----9 [...]
+i equCab1.chr31 I 321 I 13
+s canFam2.chr1 78233528 586 - 125616256 ----------CTACTGAGTACAGTTGCAGAATTAGAGAAGGTGAGGGAGGGCTGGCCGAGTGGAGA-AGGAAACCCAGG------ATGGTGGCA--GGGAGTGGGGGGTGGAGAAGAGGGCTGGTGGGTGTGTATTGTACGTCTGATCT---GTTCTCCTTGGAGAGCTGGCTCATCCTCCCTGCTTCACTGGCTGAGCCTCCCTGTGGGGAGACGGTggcttatggggttggatgaacttgagtc-ccaagactagttctgccacttttgagttgtgttgtcatcagcagtttccttagctcctc-----caacatcgacttcctcataaaa-ggaaagagatgataagactgatctggcggTTTCTTCA----GAATCACTG--CGACTC-CATCTGTCCATGCGCTACAGAAGACTGGTATG-----T [...]
+q canFam2.chr1 ----------99999999999999999999999999999999999999999999999999999999-999999999999------999999999--99999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999-----9999999999999999999999-9999999999999999999999999999999999999----999999999--999999-99999999999999999999999999999999-----9 [...]
+i canFam2.chr1 I 175 I 13
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=119103.000000
+s mm9.chr10 3167790 74 + 129993255 CCTGGTCCGAATTCTCGGTGTCGTA---TTTGATCCGTTTCACCGTT---TGTTGATG-ATCTTGT-CTCCCACC---TTCCCTC----
+s rn4.chr1 229984800 75 - 267910886 CCTGGTCTGAACTTTTGGTATCGTA---TTTGATCCGTCTCACCTTT---TGTTGATG-GTCTTGTCCTCTCACC---TTCCTtc----
+q rn4.chr1 9999999999999999999999999---9999999999999999999---99999999-9999999999999999---9999999----
+i rn4.chr1 C 0 I 508
+s hg18.chr6 16062376 79 - 170899992 CCTGGTCCAAACCCTTGGCACCCTC---TTTGGCTAGTTTTTGCCTTTCATGT-GATG-TCGTAGT-CCATCATCTCATCCTGTC----
+i hg18.chr6 C 0 I 6
+s panTro2.chr6 16585302 79 - 173908612 CCTGGTCCAAACCCTTGGCACCCTC---TTTGGCTAGTTTTTGCCTTTCATGT-GATG-TCGTAGT-CTATCATCTCATCCTGTC----
+q panTro2.chr6 9999999999999999999999999---9999999999999999999999999-9999-9999999-999999999999999999----
+i panTro2.chr6 C 0 I 6
+s rheMac2.chr4 108470286 79 + 167655696 CCTGGTCCAAACCCTTGGCACCCTC---TTTGGCTAGTTTTTGCCTCTCACGT-GATG-TCGCAGT-CCATCATCTCATCCTGTC----
+q rheMac2.chr4 9999999999999999999999999---9999999999999999999999999-9999-9999999-999999999999999999----
+i rheMac2.chr4 C 0 I 6
+s ponAbe2.chr6 16367794 79 - 174210431 CCTGGTCCAAACCCTTGGCACCCTC---TTTGGCTAGTTTTTGCCTTTCATGT-GATG-TTGTAGT-CCATCATCTCATCCTGTC----
+i ponAbe2.chr6 C 0 I 6
+s calJac1.Contig1260 34320 79 - 523245 CCTGGTCCAAACCCTTGGCGCCCTC---TTTGGTTCATTTTTGCCCTTTATGT-GATG-CTGTAGT-CCATCATCTCATCCTGTC----
+i calJac1.Contig1260 C 0 I 6
+s cavPor2.scaffold_284118 58341 82 - 169015 TTTGCTCCAAACCTTTGGCATCATcatttttgattgatttttatgtttCATGTGGTGG-TTCGAGT-CTGTCATTG-gttccttc----
+q cavPor2.scaffold_284118 9999999999999999999999999999999999999999999999999999999999-9999999-999999999-99999999----
+i cavPor2.scaffold_284118 C 0 I 4
+s canFam2.chr1 78234127 83 - 125616256 CCTAATTC-AGCCCTTGGTGTTGTC---TTTGATTAATTCTTGCCTTTCCTGT-GACATTTCTACC-CTATCATCTGATCCTGTCCCTT
+q canFam2.chr1 99999999-9999999999999999---9999999999999999999999999-999999999999-9999999999999999999999
+i canFam2.chr1 I 13 C 0
+s equCab1.chr31 13027679 83 + 24938454 CCTAGCTCAAACCCACGATGTTAGC---TTTGATTAATT-TGGCTTTTCATGT-GGCATTTCTAGT-CCATCATCAGATCCTGTCCATT
+q equCab1.chr31 9999999999999999999999999---99999999999-9999999999999-999999999999-9999999999999999999999
+i equCab1.chr31 I 13 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=69331.000000
+s mm9.chr10 3167864 70 + 129993255 --ACTCTCTTGTGAGATCGCAGTC--TTCACTCAGCT-----CATCTGCCTCCACATACAGGTCACTGAGCAGCT------------CCTG
+s cavPor2.scaffold_284118 58427 47 - 169015 --tctttctc------tcacaGT---GCCACTGTGCA-----CATCTAAATCAATGGACTGGT----------------------------
+q cavPor2.scaffold_284118 --99999999------9999999---99999999999-----999999999999999999999----------------------------
+i cavPor2.scaffold_284118 I 4 I 2415
+s hg18.chr6 16062461 88 - 170899992 --TTTCTCCCATGACACTATAGTCT-ACGGCTGTGCCAGGGGCACACCACCCCACATCCGGATGGCCCAGCTGCCTTCCCAAGGGCATCTC
+i hg18.chr6 I 6 C 0
+s panTro2.chr6 16585387 88 - 173908612 --TTTCTCCCATGACACTATAGTCT-ACGGCTGTGCCAGGGGCACACCACCCCACATCCAGATGGCCCAGCTGCCTTCCCAAGGGCATCTC
+q panTro2.chr6 --99999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 6 C 0
+s calJac1.Contig1260 34405 88 - 523245 --TTCGTCCCGTGACACTGTAGTCT-GCGGCTGTGCCGGGGGCACGTCACTCCACATCCAGATGGCCCAGCTGCCTTCCCGAGGGTGTCTC
+i calJac1.Contig1260 I 6 C 0
+s ponAbe2.chr6 16367879 88 - 174210431 --TTTCTCCCGTGACACTATAGTCT-ACGGCTGTGCCAAGGGCACATCACCCCACATCCAGATGGCCCAGCCGCCTTCCCGAGGGCATCTC
+i ponAbe2.chr6 I 6 C 0
+s rheMac2.chr4 108470371 88 + 167655696 --TTTCTCCTGTGACACTATAGTCT-GTAGCTGTGCTGGGTGCACATCACTCCACATCCGGATGGCCCCACTGCTTTCCCGAGGGCATCTC
+q rheMac2.chr4 --99999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 6 C 0
+s canFam2.chr1 78234210 79 - 125616256 TCTTTGTCTTGCGATGCCACAGCCCTCTGTCTCTGCTGTGCTCACATCACTTCATGAATAGATTGCCTAGAAGTTTTTG------------
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999------------
+i canFam2.chr1 C 0 I 1570
+s equCab1.chr31 13027762 78 + 24938454 TCTTCCTCTTGTGATGCCATAGTCC-CCATCTGCGCTGGGCTCATGTCACTTCGCAAATGGATTGCGCAGAAGCTTTTC------------
+q equCab1.chr31 9999999999999999909999999-99999990999999999999999999999999999999999999999999999------------
+i equCab1.chr31 C 0 C 0
+e rn4.chr1 229984875 508 - 267910886 I
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=107507.000000
+s mm9.chr10 3167934 70 + 129993255 ------------TCAC--------AGTCTACACCC--CTCACAAAGTCTTCAG-CTCTGC-----------------------TCTTCCGTTTTGGACACATCTTTCCTGTTTAac
+s hg18.chr6 16062549 100 - 170899992 ------------TGACTCT-AGCAAGCCCCCGTCTATCTTGCACATTCTTTAGACCCTGCTGAACTCAATC---CTTCCACGGTCCTTTACTTTGGCCATATCTTTCCCATCTAAC
+i hg18.chr6 C 0 I 1631
+s panTro2.chr6 16585475 100 - 173908612 ------------TGACTCT-AGCAAGCCCCCGTCTATCTTGCACATTCTTTAGACCCTGCTGAACTCAATC---CTTCCACGGTCCTTTACTTTGGCCATATCTTTCCCATCTAAC
+q panTro2.chr6 ------------9999999-999999999999999999999999999999999999999999889999999---999998888999999997677767889999987878888777
+i panTro2.chr6 C 0 I 2196
+s calJac1.Contig1260 34493 100 - 523245 ------------TGACTTT-AGCAAGCCCCCATCCAGCTTGCACGTTCTTCAGACCCTGCTGAACTCAGTC---CTTCCATGGTCCTTTGCTTTGGCCATATCGTTCCCAGCTAAC
+i calJac1.Contig1260 C 0 I 1319
+s ponAbe2.chr6 16367967 100 - 174210431 ------------TGACTTT-AGCAAGTCTCCGTCTATCTTGCACATTCTTCAGACCCTGCTGAACTCAATC---CTTCCACGGTCCTTTACTTTGGCCATATCTTTCCCATCTAAC
+i ponAbe2.chr6 C 0 I 1761
+s rheMac2.chr4 108470459 100 + 167655696 ------------TGACTTT-AGCAAGCCCCCGTCCATCTTGCACATTCTTCAGACCCTGCTGAACTCAATC---CTTCCACGGTCCTTTGCTTTGGCCATATTTTTCCCATCTAAC
+q rheMac2.chr4 ------------9999999-999999999999999999999999999999999999999999999999999---999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 1955
+s equCab1.chr31 13027840 114 + 24938454 TGAGGGAATCTCTGATTTTCAGCAG--CCCCGTCTATCTTGCACATTCTTCACGTCCTGCTGAACTCCTTTCTGCTTCCATACTCCTTTGATTTGGCCATCCCTCCTCTATCTAAC
+q equCab1.chr31 9999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e rn4.chr1 229984875 508 - 267910886 I
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 58474 2415 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=2246.000000
+s mm9.chr10 3168004 402 + 129993255 acacacacacacacacacacacacacacacacaaaagcacgcacgcacgcacgcacgcatgcacgcgcaTGCGAGAGCACACCATTAAGCTTCAAGCACAAT----------GCTTTCATGTCTttgttttgtgctaga-atgtgttcag----tcattactgtaagc-catttcatttataataacactgtgagatgaagcagcatcaacatagccgtcgtttggaggaagaaaatgaggcacaaaaatgttcagttactgctcagggttg--cagtctgtcagt-----gacCTGGCACCTCGGAC---ACACTCTGGGCACACGCTCTGCCTTCAGTGTTGTCTTCTCTGCCCTGTAAGGGTC-AGGGGACAGTGGCTGGG--------CTCCACTCAC------GTGGTCTGCGT-----CATCCTG [...]
+s equCab1.chr31 13027954 367 + 24938454 CT-------------------------------------------------------------------------TGTTTTTCATT-AGTTCCGAGCATaataataagtgacatttatttgtgtttgttgtgtgtcaggtatgtgttaagggctttatttatattagctcgttttctttaaaatagccccaagaga-gagatactattattattgccagtttgtagtagaggaaactgaagcacagggaaattaagtaattgctcaaagttgcacagctaatcagtgtttcgacctggctc--cagaccctacactcttaaGATCTGCTCTGTCTTCA---TTGTCTTCCAT-CCATATAAGCTCCTAGAGAGCAAAGGTTATGTCATTCATCTCTGCTCACCACACTGTGTGCTTCATCTTAGCATCCAG [...]
+q equCab1.chr31 99-------------------------------------------------------------------------99999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999---99999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i equCab1.chr31 C 0 I 112
+e rn4.chr1 229984875 508 - 267910886 I
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 34593 1319 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 58474 2415 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16062649 1631 - 170899992 I
+e panTro2.chr6 16585575 2196 - 173908612 I
+e ponAbe2.chr6 16368067 1761 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=0.000000
+s mm9.chr10 3168406 407 + 129993255 CTCTTTCATCTGGACCTGATCCCTCTGATCCCTCTCAGGTTGGAGGTggaaggaagggaaggagggaggaaggaaggaagAGATGATGTGAGCACTTGCACAatcatggtgggaaggcatggtggccggtcgctctgtggtggcaggagcttgggggttgagagccttagcttctcacatctgtgaaacaggaatgaggacaggtgagggaggggaagaggatgcaggggagcaagagctgggctttcatctttaaagctcgttcctagtggcccacttcccctggccaggctctacctcctaaaggttctgaaatatcccagaacacttctaccagggaggcaagtgttcaagcatacaggcctgtgggggacatttcacattcaaaccatgacaAGCTTCAAGCT
+e rn4.chr1 229984875 508 - 267910886 I
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 34593 1319 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 58474 2415 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16062649 1631 - 170899992 I
+e panTro2.chr6 16585575 2196 - 173908612 I
+e ponAbe2.chr6 16368067 1761 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=42693.000000
+s mm9.chr10 3168813 65 + 129993255 CCTCCATCAGTTATTAGGAAGTTCTAGAAGGTTGTAGAATCACACTACTGTACT--TCCTTGCTGTT
+s rn4.chr1 229985383 65 - 267910886 CCCCCATCAGTTATTGGGAAGTTCTAGAAGGTTGTAGAATCACAGTACTGTACT--CCCGTGCTGTT
+q rn4.chr1 999999999999999999999999999999999999999999999999999999--99999999999
+i rn4.chr1 I 508 C 0
+s calJac1.Contig1260 35912 53 - 523245 ------TCATTTAGCAGGGAACTCTCGAAAGTTGTAGAATCATACC-CTATACC--TTTTTG-----
+i calJac1.Contig1260 I 1319 C 0
+s ponAbe2.chr6 16369828 58 - 174210431 ------TCAGTTCACAGGGAACTCCAGAAAGTTGTAGAGTCCTGCC-CTATACA--tttttgttgtt
+i ponAbe2.chr6 I 1761 I 178
+s panTro2.chr6 16587771 60 - 173908612 ------TCAGTTAGCAGGGAACTCTAGAAAGTTGTAGAGTCCTGCC-CTGTACAtttttttgttgtt
+q panTro2.chr6 ------9999999999999999999999999999999999999999-99999999999999999999
+i panTro2.chr6 I 2196 I 167
+s hg18.chr6 16064280 60 - 170899992 ------TCAGTTAGCAGGGAACTCTAGAAAGTTGTAGAGTCCTGCC-CTGTACGtttttttgttgtt
+i hg18.chr6 I 1631 I 166
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 58474 2415 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=4835.000000
+s mm9.chr10 3168878 38 + 129993255 TGGAGGTACCATTTGT---AGTTTCAAACATGACTGAGCTC
+s rn4.chr1 229985448 41 - 267910886 TGGAGGTACTATTTGTTGTAGTTCCAAATGTGACCAGGTTC
+q rn4.chr1 99999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 35965 40 - 523245 -AGATATACTCTTAGTGGTAGTTCTAAACATGGCCAAACCC
+i calJac1.Contig1260 C 0 I 84
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 58474 2415 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16064340 166 - 170899992 I
+e panTro2.chr6 16587831 167 - 173908612 I
+e ponAbe2.chr6 16369886 178 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=17403.000000
+s mm9.chr10 3168916 362 + 129993255 CACACT-GCTGCTGCTTCTTGTCTGTCTTCTGTGTCTTCAGGAGAGTGCTCTACTGTGTGTAATTTATTTACTTTCCT-----------------------------------------------------------------------TAtgtatgtgtgtgtgtg-----------------------cacccatgtgttcttaacagaggctagagaaagaagttaggtgtcct-ggtatgtcagtttccatgatacaggtgtcacagtgaccctggaggggggctggcagtcagtgagtcccaggcaatcctcttgtcttctcccccaacactgttgggctcataggtgtgtgtgtggctttgtgtgg--------------------------cttcttacatgggtactgaggatttaacactca [...]
+s rn4.chr1 229985489 480 - 267910886 CACACTTACTGCCTCGTCTCCTCTGTCGTCTGTGTCTCTAGGAGAG----CTCCAGTGTGTAATTTCTTTTTTCTcacacacacacacacacacatatatatatatatatatatatatatatatatatatatatatatatatatatatatatgtatGTGTGTGTGTGTGGTGCATGAGCACATGTGTGTGCCCCCATGTGCTCTTAACAGTggccagagaaagaagtcaggtgtccttggcctgtcaatttccctgagacaggtgtctcagtgaccctggacgggggctggcagtcagtgagacccagg-ggtcctcttgccatctccccccacactgttgggctcataggtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtcttcttatatgggtgctggggattcacc-ctca [...]
+q rn4.chr1 9999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999 [...]
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 36005 84 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 58474 2415 - 169015 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16064340 166 - 170899992 I
+e panTro2.chr6 16587831 167 - 173908612 I
+e ponAbe2.chr6 16369886 178 - 174210431 I
+e oryCun1.scaffold_207308 3982 4263 + 43077 I
+
+a score=9229.000000
+s mm9.chr10 3169278 98 + 129993255 TGCCTCTGGAGTCTGGAAAGCTACAGTTGGGTGATCATGTCTAGGAAAGTCCTCAACTCTCATCAAAAGGGTGCAGAAAAACAA---GGTCCACTGGGTGT
+s cavPor2.scaffold_295331 115618 78 + 116715 TGGTTCTAGGGGCTGGAAGTCCTGGGTTGAGTGGTTA-----------------------CATCATAACATGGAGAAAAAGCAGAAAGGTAATCAACATTT
+q cavPor2.scaffold_295331 9999999999999999999999999999999999999-----------------------97998999999999999999897699999999998998999
+i cavPor2.scaffold_295331 n 2415 n 2415
+s rn4.chr1 229985969 98 - 267910886 TGGCTCTGGG--CTGGACTGCTACAGTCGGCTGATCATGTCTAGCAAAGTCCTCAACCCGCATCATATGGGGGTGGAAAAACAA-AAGATCCACTGGGTGT
+q rn4.chr1 9999999999--999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 8245 94 + 43077 -----ctggagcctggaaggccaaggtcaggtggttgcatctgtcgagagccCTGAGCTGCATCATAATACCGCGAAAAGCCGA--AGGGCAAGTGGGCAT
+q oryCun1.scaffold_207308 -----9999989989999999999999999999989998999999999997748996999968989999988798999988859--959988899998868
+i oryCun1.scaffold_207308 I 4263 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 36005 84 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16064340 166 - 170899992 I
+e panTro2.chr6 16587831 167 - 173908612 I
+e ponAbe2.chr6 16369886 178 - 174210431 I
+
+a score=13640.000000
+s mm9.chr10 3169376 162 + 129993255 --GTAG-AAGAGAGGAAA---TCAAGGTACCCTCCATGTCTAATGCCATGCTCTCCTGGTAACTAATCCAGTCCCATGAGAACGGCATT-ATCCCTCCTAAAGGCCTAATCCCCTCCTAGA-GCCCTGCCTCCCAGCACTGACTAGGCCGGCAGCCACATTAC-------------------AACCAGC
+s rn4.chr1 229986067 154 - 267910886 --GTAG-AAGACA--ACA---CCAAGGTACGCTCCTTA------GGCATGCTCTCCTGGTAACTAATCCAGTCCCATGAGAACGGCATT-ATCCCTCTTTAAGGCCTAATCCCCTCCTAGAAGCCCCGCCTCCCAGGACTG-TGAGGCCGGCAGCCACATTAC-------------------AATCAGC
+q rn4.chr1 --9999-999999--999---99999999999999999------999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999-999999999999999999999-------------------9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 8339 170 + 43077 GTGTGGAAAGAGA--AAAGACTCGGAGCACCCT-----------GGC-----TTTGTAGTAACTGATTCAGACCCGtgagaactgcgttcctctgtcttcacttcataattgcttcttaaaggtcccacctcccaatattg-ccacattggcagtcaaattttcatgtgcgtttcagaagggaaaaagc
+q oryCun1.scaffold_207308 9999998998989--999798785595854888-----------885-----78895877656599796559677569859566996876786596656677596776767756755669736469847766883776578-58575556774566895599777586666697755761766898567
+i oryCun1.scaffold_207308 C 0 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e felCat3.scaffold_217398 94538 1721 - 219823 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 36005 84 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16064340 166 - 170899992 I
+e panTro2.chr6 16587831 167 - 173908612 I
+e ponAbe2.chr6 16369886 178 - 174210431 I
+
+a score=10395.000000
+s mm9.chr10 3169538 95 + 129993255 TTATTCAAG-TCACAGCACCCACCAAGTCTTACACAATACCCAGCA-AAACCTAAGACA---TTTGAACTCAGGTACTTCACAAACA--------GAGCCTACCCAGT
+s oryCun1.scaffold_207308 8509 106 + 43077 atattcaaaccCGTAACACTAGCCAAGTCTTAGCCGA-GTGAAGCA-AAAATTTTGACATCTTTTGAactcattcattcagcagacaaatcttgagtacctgctctgt
+q oryCun1.scaffold_207308 7656768965815584958655678557595646666-45695679-8886999978759799976796998999899978995799969899967988999999999
+i oryCun1.scaffold_207308 C 0 C 0
+s rn4.chr1 229986221 97 - 267910886 ATATTCAAG-TAACAGCACCCGCCAAGTCTTACACAATACCCAGCACAAACCTAGGACA---TTTGAACTCAGGTACTCCACAAATA-------AGAACCTACCCTAT
+q rn4.chr1 999999999-9999999999999999999999999999999999999999999999999---9999999999999999999999999-------99999999999999
+i rn4.chr1 C 0 C 0
+s felCat3.scaffold_217398 96259 94 - 219823 TCATTCTAA-ACACG------GCCAAGGCTTATA-AATGTGTAATA-AAA-TTTTGACGTCCTTTGAactcattcattccacaaataattctggattgccaagg----
+q felCat3.scaffold_217398 796979789-69569------5795999999699-99999999977-996-79989998999997999499999979999799999999999999989999899----
+i felCat3.scaffold_217398 I 1721 I 4
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e rheMac2.chr4 108470559 1955 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 36005 84 - 523245 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+e hg18.chr6 16064340 166 - 170899992 I
+e panTro2.chr6 16587831 167 - 173908612 I
+e ponAbe2.chr6 16369886 178 - 174210431 I
+
+a score=63828.000000
+s mm9.chr10 3169633 56 + 129993255 TTTTGACTGT---------------TGGGGGAATGGTTGTGAGCTGAACACCTTTGATTCTTGT---TATAAG---C-
+s rn4.chr1 229986318 68 - 267910886 GTTTGACTGTCGTCCT------TGTTGGGGAAATGGTGTCGAGCCAAACACCCTTGGTTCTTGTCCTTATAAA---C-
+q rn4.chr1 9999999999999999------999999999999999999999999999999999999999999999999999---9-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 8615 76 + 43077 gcctccctggacctctgctagctgttgggcaaacgatggtgaacagagc-catctggttcttgtttccacggagctt-
+q oryCun1.scaffold_207308 9999999999999999999797679689999999999999999999999-999999999999999999999999999-
+i oryCun1.scaffold_207308 C 0 C 0
+s hg18.chr6 16064506 59 - 170899992 ---------------ttgtagctgttggcggcatgatgtggaccaaaacagtcgtggtttttgttttcatggg---g-
+i hg18.chr6 I 166 C 0
+s panTro2.chr6 16587998 59 - 173908612 ---------------ttgtagctgttggcggcatgatgtggaccaaaacagtcgtggtttttgttttcatggg---g-
+q panTro2.chr6 ---------------9999999999999999999999999999999999999999999999999999999999---9-
+i panTro2.chr6 I 167 C 0
+s ponAbe2.chr6 16370064 59 - 174210431 ---------------ttgtagctgttggtggcatgatgtggaccaaaacagtcctggtttttgttttcatggg---g-
+i ponAbe2.chr6 I 178 I 1
+s rheMac2.chr4 108472514 59 + 167655696 ---------------TTGTAGCGGTTGGCGGCATGATGGAGACCAAAACAGTCCTGGTTTTTGTTTACATGGG---G-
+q rheMac2.chr4 ---------------9999999999999999999999999999999999999999999999999999999999---9-
+i rheMac2.chr4 I 1955 I 1
+s calJac1.Contig1260 36089 59 - 523245 ---------------ttctagctgttaggggaatgatggggaccaaagcagtcctggtttttgttttctttgg---g-
+i calJac1.Contig1260 I 84 I 1
+s felCat3.scaffold_217398 96357 60 - 219823 ---------------tcttagctgttgggggtatgatgaaggacaaaagcaacctgttccttgtcttcatgga---gc
+q felCat3.scaffold_217398 ---------------9799999799979999999997999999999999999999999979999999999999---99
+i felCat3.scaffold_217398 I 4 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 370410 2224 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+
+a score=59288.000000
+s mm9.chr10 3169689 51 + 129993255 TGTGGTGTTGTGCAGCCAGAGCCCACAGGGGCCACCCAAACATTCGCTTCC-------------
+s rn4.chr1 229986386 51 - 267910886 TGTGGTGTTGTGGAGCCATGGTCCACAGGGGAGACCCGAACATTGGCTTCC-------------
+q rn4.chr1 999999999999999999999999999999999999999999999999999-------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 8691 46 + 43077 tgtggaaatggagaggcagacacca-----gctatgcaaacattcagtcac-------------
+q oryCun1.scaffold_207308 9999999999999999999999999-----999999999999999999999-------------
+i oryCun1.scaffold_207308 C 0 C 0
+s calJac1.Contig1260 36149 45 - 523245 tttgctgta-gggagacagacacca-----gccttacatacagtaaactac-------------
+i calJac1.Contig1260 I 1 C 0
+s rheMac2.chr4 108472574 45 + 167655696 TTTGTTGTT-GGGAGACAGACACCA-----GCCATCCATAGAGTAAACTAC-------------
+q rheMac2.chr4 999999999-999999999999999-----999999999999999999999-------------
+i rheMac2.chr4 I 1 C 0
+s ponAbe2.chr6 16370124 45 - 174210431 tttgttgtt-gggagacagacatca-----gccatccatagagtaaactac-------------
+i ponAbe2.chr6 I 1 C 0
+s panTro2.chr6 16588057 45 - 173908612 tttgttgtt-gggagacagacacca-----gccatccatagagtaaactac-------------
+q panTro2.chr6 999999999-999999999999999-----999999999999999999999-------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16064565 45 - 170899992 tttgttgtt-gggagacagacacca-----gccatccatagagtaaactac-------------
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 372634 46 - 498454 TATGGTATTGGGGAGGCAGACATCA-----ACCAGGCAAATAATAAATTTT-------------
+q tupBel1.scaffold_114895.1-498454 9999999999999999899999999-----999999999999999999999-------------
+i tupBel1.scaffold_114895.1-498454 I 2224 C 0
+s felCat3.scaffold_217398 96417 57 - 219823 --ttgtgtttgggagacagacacca-----attattcagatattaaattgtaaagaaaggtgcc
+q felCat3.scaffold_217398 --99999999999999999999999-----9999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+e otoGar1.scaffold_334.1-359464 325634 1260 - 359464 I
+
+a score=28818.000000
+s mm9.chr10 3169740 34 + 129993255 ---------ATAAT--GGGCTGTTCTGTGAAGAC------------CCACAAGA-----AGG
+s felCat3.scaffold_217398 96474 42 - 219823 atgagatacataattggggttttgtgttgagaggaagggaaa--------------------
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999--------------------
+i felCat3.scaffold_217398 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 372680 50 - 498454 ----------AAGT--GAGATGTGCTATGAGGGGAATTAAAGGGAATTACAAGATACATAGT
+q tupBel1.scaffold_114895.1-498454 ----------9999--9999999999999999999989999999998999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 326894 33 - 359464 ---------ATAGT--GATAAGTGCTGTGAGGGGCAAGGAAAGG------------------
+q otoGar1.scaffold_334.1-359464 ---------99999--9999999999999999999999999999------------------
+i otoGar1.scaffold_334.1-359464 I 1260 C 0
+s calJac1.Contig1260 36194 51 - 523245 ---------atagc--gagatgtgctaggaagggagatgaaaggtgtcccagtatatgaaat
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108472619 51 + 167655696 ---------ATAGC--GAGATGTGCTAGGAAGGGAAATGAAAGGTATCCCGAGATATGAAAT
+q rheMac2.chr4 ---------99999--9999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16370169 51 - 174210431 ---------atagc--gagatgtgctaggaagggaaatgaaaggtatcccaagatacgaaat
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16588102 51 - 173908612 ---------atagc--gagatgtgctaggaagggaagtgaaaggtatcccgagatacgaaat
+q panTro2.chr6 ---------99999--9999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16064610 51 - 170899992 ---------atagc--gagatgtgctaggaagggaaatgataggtatcccgagatacgaaat
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_207308 8737 45 + 43077 ---------agagc---aactgtgaagggaaggc-----aagggagccctgaggtgcctgat
+q oryCun1.scaffold_207308 ---------99999---99999999999999999-----99999999999999999999999
+i oryCun1.scaffold_207308 C 0 C 0
+s rn4.chr1 229986437 30 - 267910886 ---------ACAAT--GAGTTGTTGAATGAAGAC------------CCACA---------GG
+q rn4.chr1 ---------99999--999999999999999999------------99999---------99
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13693056 4075 - 95030419 I
+e monDom4.chr2 106195460 8811 - 541556283 I
+e equCab1.chr31 13028321 112 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_40472 10628 6108 - 17534 I
+e canFam2.chr1 78234289 1570 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+
+a score=222998.000000
+s mm9.chr10 3169774 86 + 129993255 GAGGGG----------TATGCGCTGTGGAA------------------GGGGTTGGGCTGAGGTCTGCAGGCTAACTGGGAAGGCCCAGGC-CCAGA-GGCGG-TGG-GAACTTA-CCA
+s rn4.chr1 229986467 73 - 267910886 AAGGGG----------CATGCGCTGTGGA-------------------GGGATTGAACTGAAGTCTG-------------AAGGCCCAGGC-ACAGA-GGCAG-TGG-GTACTTAACCA
+q rn4.chr1 999999----------9999999999999-------------------9999999999999999999-------------99999999999-99999-99999-999-99999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_207308 8782 114 + 43077 cagggg-actcagcattgtgggctggggaact-tttccagtggacagggtgactgagctgagacctg-agggtgagtaggcgtgcctgggtaaCACA-GGGAA-TGGAATACCTTCTAA
+q oryCun1.scaffold_207308 999999-9999999999999999999999999-9999999999999999999999999999999999-99999999999999999999999999999-99999-999999999999999
+i oryCun1.scaffold_207308 C 0 C 0
+s hg18.chr6 16064661 116 - 170899992 aagggggatttagagttgagggccagggaagtgttcccagtgaaaaggatgtgtgagcagagatctgagggCCCAGGAGGAGTACCCAGGT-ACAGA-GGCAG-TGGAGTACCTTCAGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16588153 116 - 173908612 aagggggatttagagttgagggccagggaagtgttcccagtgaaaaggacgtgtgagcagagatctgagggCCCAGGAGGAGTACCCAGGT-ACAGA-GGCAG-TGGAATACCTTCAGA
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999-99999-999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16370220 116 - 174210431 aagggggatttagagttgagcaccaaggaagtattcccagtgaaaaggacgtgtgagcagagatctgagggcccaggaggagtacccaggt-acaga-ggcag-tggaaTACCTTCAGA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108472670 116 + 167655696 AAGGGGGATTTAGAGTTGAGGGCCAGGGAAGTATTCCCAGTGAAAAGGACGTGTGAGCAGAGATCTGAGGGCCCAGGAGGAGTACCCAGGT-ACAGA-GACAG-TGGAATACCTTCAGA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999-99999-999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 36245 113 - 523245 ca--gggatttaatgttgagggccagggacatattcccagtgaaagggatgtctgagcagagatctgaggactcggga-gagtacccaggt-acaga-ggcag-tggaaTACCTTCAGA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 372730 107 - 498454 AAGGGAGATTTAGTGTTGAGGGCCAGACAAGAATTCCCAGTAGAATGGATGTCCG---------CTAAGGGCTGTGTAAGATTATCCAGGT-TAAGA-TGCAG-AGGAATACTTTCAGG
+q tupBel1.scaffold_114895.1-498454 9999999999999999999998999999999978999999999999999999999---------999999999999999999999999999-99999-99999-999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s dasNov1.scaffold_40472 16736 90 - 17534 --gggag-----------------------attttccccgtgaaaggggtgttggggctgagatgtgaaggctgag-aggagaagccaggt-gaaga-ggcaa-agggTTACCTTCAAA
+q dasNov1.scaffold_40472 --99998-----------------------8679999999999999999999999999999999999999999999-98999999999997-99999-99999-999999999999999
+i dasNov1.scaffold_40472 I 6108 C 0
+s canFam2.chr1 78235859 77 - 125616256 ----------------------------------------tggaaggggtgtttgagctgagatcagagggctgagtaggagtGCCCACAT-AAAGAGGGCAA-TGGGATACCTTCACA
+q canFam2.chr1 ----------------------------------------999999999999999999999999999999999999999999999999999-99999999999-999999999999999
+i canFam2.chr1 I 1570 C 0
+s bosTau3.chr9 13697131 71 - 95030419 ----------------------------------------tggaagagatgtttcaactgagatctgaggggtgaatcggagtacccaa-----aga-ggcag--aggaAACCTTCAGA
+q bosTau3.chr9 ----------------------------------------9999999999999999999999999999999999999999999999999-----999-99999--99999999999999
+i bosTau3.chr9 I 4075 C 0
+s felCat3.scaffold_217398 96516 85 - 219823 -------------------------------tattcccattggaatgaacgtttgagctgagatctgagggctgagtaggggtgcccgagt-aaaga-ggCAA-TGGTATACCTTCAAA
+q felCat3.scaffold_217398 -------------------------------999999999999999999999999999999999999999999999999999999999999-99999-99999-999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13028433 84 + 24938454 ------------------------------gtattcccattggaagggatgtttgagctgagatctgaggactgagtaCTC-TGCCCAAGT-GTACC---CAAGTGCAATACCTTAAAA
+q equCab1.chr31 ------------------------------999999999999999999999999999999999999999999999999999-999999999-99999---9999999999999999999
+i equCab1.chr31 I 112 C 0
+s otoGar1.scaffold_334.1-359464 326927 96 - 359464 ----------------GGAGGGCCAAGGAAATATTTCCAGTGAAAAGGATGTCAGCGTTGAGATCTACAGCT----GAGTAGTACCCAGGT-AAAGA-TGCAG-TAGAATCCCTTCAAA
+q otoGar1.scaffold_334.1-359464 ----------------99999999999999999999999999999999999999999999999999999999----999999999999999-99999-99999-999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+e monDom4.chr2 106195460 8811 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+
+a score=1846944.000000
+s mm9.chr10 3169860 335 + 129993255 TTTAGCAGTCATTCCTTCTCTGTTCACATAGTCTGCTCTTCAGCACT-----------TTATTGA-----GCTTGGCTGGT----GACAGATAATAATTAGCCTTGAAATCTCCATGTAACCAAATGTGCTATTATGGGC---TGTGTTTTTTTAAATCTGA-CT-TATGTGTAAATAATATATGTGTTGGGCTGATGGAGAGTTACTACACTTCACATAAAGTGCAGCC-AGCCAAGGC----TGTGT-----GCTTTGAAAATTGCACTTGGGGCCAGTTCTGTCAGTCAAACCTATC----CAGGCAGTTTGTCACC-TCGAGGATAACGCTGTCTGGGCTTGCCGTCCC-AGGGCAGGTGCTCTTTG---CTGTA
+s otoGar1.scaffold_334.1-359464 327023 311 - 359464 TTTAATAATCACTCTTTCTCTTTTAATGTAATATACTATTTAATATT-----------TTATTAA-----GCTTGGATGGT----GACAGATGATAATTAGTCTTAAAATCTGGAGGCATCCAAATATGCTGTCCCTGGC---TGTTTTT------ATCTAAG-T-CATGTATAAACAGTACGTTTGCCGGACTAGGTGCGGAGG--TGAGTCGTATGT-AAG-----CC-AGTGCATTG----TGTCT-----CC--------TTGCATTCGGGGCCAGTTCTGTCAGTAAAGCCCATA----CAGGCACTTTGTCACA-CTCTGGGTGGT--TGTCTGGGCTTGCCTGTCC-AGGGCAGGTGTTCTTTA---TTTTA
+q otoGar1.scaffold_334.1-359464 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999---9999999------9999999-9-999999999999999999999999999999999999999--999999999999-998-----89-999999999----99996-----35--------999999999999999999999999999999999999----9997669999999999-99999999998--9999999799999999999-99999999999999999---99999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s equCab1.chr31 13028517 292 + 24938454 TTTAATACTC---TTTTTTTTTTTAAGGTGAGATGCTA-TTAGTGTT-----------TTATTAA-----ACTTGGATGAT----GACAGATGATAATTAGTCTTCACATCCG--------------------------C--CTGTTTTT------ATCTAA-CT-TGGGTATAAATAGTATGTGTGTCAGGCTGAGTGAGAGAGGCTGAA-TGTATTT-GAGCACAACC-AG-GTATTG----TGT-------TTTTT----ATTACGCTTGGGGCCAGTGCTGTCAGTCAAGCCCATC----CAGGCACTTTGTCGCG-TTACAGGTCGCATTGTCTGGGCTTGCCTCGCCGAAGGCAGGTGCTCTTTA---TTTTA
+q equCab1.chr31 9999999999---9999999999999999999999999-99999999-----------9999999-----99999999999----9999999999999999999999999909--------------------------9--99999999------999999-99-999999999999999999999999999999999999999999999-9999999-9999999999-99-999999----999-------99999----9999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999999999999999999999---99999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 96601 322 - 219823 TTTCATACTCACTGTTTTTCTGTTAACGTAATGTGCTATTTAGTGTT-----------TTATGAA-----GCTTGGATGAT----GACAGATGATAATTAGTCTTCAAATCTGGAGGTGCCCAAATATGCTGTCACTGAC--TGTTTTTT------ATCTAA-CT-TGTGTATAAATAGTATGTGTGTCAGGCTGGGTGAGGAAGGCTGAA-TGTATTT-GAGCACAAAC-AG-TCATTG----TGT-------TTTTT----ATTACACTCGGGGCCAGTGCTGTCAGTCAAGTCCAT-----CAGGCACTTTGTCACAGTTACGGGTCGCGTTGTCTGGGCTTGCCTACCCAAAGGCAGGTGCTCTGAA---TTTTA
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999--99999999------999999-99-999999999999999999999999999999999999999999999-9999999-9999999999-99-999999----999-------99999----999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999---99999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13697202 320 - 95030419 TGGACTGCTTCTTCGTTTCCTCTTAAAGTAAGATGCAATTTAGTGTT-----------CTGGGAA-----GCTTGGATGAT----GACGGATGATAATTAGTGTTCAAACCTGGAGGTGCCTGGATATGCTGTCATTGAC---TGTTTTT------ATCTCA-CT-TGTGCGTAAATAGTGCATGTGTCGGGCTGGGAGAGGGAGGTTGAG-TGTACCT-GAGTGCAATC-AG-GCG-TG----TG--------TTTTC----ATTGCACTCGGGGCCAGCGCCGTCAGTCAGGCTCTTC----CAGGCACTTTGTCACA-TTACTGGTCGCGCTGTCTGGACTTGTCTGCCCAGGGGCAGATGCTCTTTA--GTTCTA
+q bosTau3.chr9 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999---9999999------999999-99-999999999999999999999999999999999999999999999-9999999-9999999999-99-999-99----99--------99999----9999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999999999999999999999--999999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78235936 323 - 125616256 TTTCATCCTCACTCTTTTTCTGTAAATGTAATATGCTATTTAGTATT-----------TTATTAA-----GCTTGGATGAT----GACAGATGATAATTAGTCTTCAAATGTGGAGGTGCCCAAATATGCTGTCACTGACTTTTTTTTTT------ATCTAA-CT-TGTGTATAAATAGTACGTGTGTCA-GTTGGGTGAGGAAGGCTGAA-TATATTT-GAGCACAAATAAG-GCATTG----TGT-------TTTTT----ATTACACTCGGGGCCAGTGCTGTCTGTCAAGCCCAT-----GAGGCATTTTGTCACA-TTACGGGTCGCATTGTCTGGGCTTGCCTACCCAAAGGCAGGTGCTCTTAC---TTTTA
+q canFam2.chr1 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----99999999999999999999999999999999999999999999999999999999999999999------999999-99-999999999999999999999999-99999999999999999999-9999999-9999999999999-999999----999-------99999----999999999999999999999999999999999999-----9999999999999999-99999999999999999999999999999999999999999999999999---99999
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_40472 16826 323 - 17534 GCCAGCACGTGTGCTTTTCCTTTTACTCTAGAATGCTTTGTAGCATT-----------TTATTAA-----GCTTGGGTAGT----GACAGACAATAAGTAGTCTTAAAATCCGGAGGTGCTCAAATCTGCTGGCCTTTGC---TGTTTTT------ACCCCG-TTGTGTACATAAATTGCCTGCGTGTTGGG-TGGGTGAGGGATGCCAAACTGTATTT-CGGCACAACC-CGAGCGTTG----TGTTA-----TTTTT----ATTACACTCAGGGCCAGTTCTGTCAGGAAGGCCCATC----TAGG-ACCTTGTCCCA-TCACGGATGGAGCTGTCTGGGCTTGCCTACCC-AGGGCAGCTGCCCTTCC---TTTTA
+q dasNov1.scaffold_40472 99999999999999999999999999999657755999999999999-----------9999989-----99939999996----9999748665579999999899998989999977998895787765959985588---4789996------799979-84848787687989564149796893898-38886886887678988895897899-6678799899-779989878----68998-----89999----8998996898886999999968998899898999898----9998-79996888999-89999994999997998899999999999999-99999999999999999---99999
+i dasNov1.scaffold_40472 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 372837 329 - 498454 TTTAATAATCGCTCTTTTTCTTTTAATGCAGTGTACTATTTAGTATT-----------TTAATAA-----GCTTGGATAAT----GACAGATGATAATTAGTCTTACAATCTGGAGGTACCCAAATATGCTGTCACTGGC---TGTTTTG------ATTTCAACT-TGGGTGAGAGTGGTATGTGTGTTGGGCCAGGCGCGGGAGGCTGAATTGTATTT-AAGAACAACC-AGCACATCG----TGTAT-----TTTTT----ATTACACTCGGGGCCAGTTCTGTCAGTAAGGCCCATCCATGCAGGCACTTTGTCACA-TTATGGATAGCGCTGTCTGGGCTTGCCTGCCT-AGGGCAGGTGCTCTTCA---TTGTA
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999979999999999999999999999---9999999------999999999-99999999999999999999999995999999999999999999999999999-9999999999-999999999----99999-----99999----999999999999999999999999999999999999999999999999999999999-99999999999999999999999999988999-99999999999999999---99999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 36358 322 - 523245 TTTAATCATCACTCCTTTTCTTTTAATGTAATATACTATTTAGTATT-----------TTATTAA-----GCTTGGATGAT----GACAGACGATAATTATTCTTAAAATCTGGAGGTACCCAAATATGCTGTCACTGGC---TGCTTTT------ATCTCA-------CTATAAATAGTACGTGTGTTGGGCCGGGTAATGGAGGCTGAATTGTATTT-AA-CACAACC-GGCGCATTG----TGTTT-----GTTTATTTTATTATACTCGGGGCCAGTTCTGTCAGTAAAGCCCATC----CAGGCACTTTGTCACA-TTATGGATAGTGCTGTCTGGGCTTGCCTGCCC-AGGGCAGGTGCTCTTTA---TTTTA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108472786 323 + 167655696 TTTAATCATCACTCCTTTTCTTTTAATGTAATATACTATTTAGTATT-----------TTATTAA-----GCTTGGATGAT----GACAGATGATAATTATTCTTAAAATCTGGAGGCACCCAAATATGCTGTCACTGGC---TGCTTTT------ATCTCA-------CTATAAATAGTACGTGTGTTGGGCTGGGTGAGGGAGGCTGAATTGTATTT-AAGCACAACC-GGTGCATTG----TGTGT-----TTTTTTTTAATTATACTTGGGGCCAGTTCTGTCAGTAAAGCCCATC----CAGGCACTTTGTCACA-TTATGGATAGCACTGCCTGGGCTTGCCTGCCC-AGGGCAGGTGCTCTTTA---TTTTA
+q rheMac2.chr4 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999---9999999------999999-------99999999999999999999999999999999999999999999999999-9999999999-999999999----99999-----9999999999999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999-99999999999999999---99999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16370336 328 - 174210431 TTTAATCATCACTCCTTTTCTTTTAATGCAATATACTATTTAGTATT-----------TTATTAA-----GCTTGGATGAT----GACAGATGATAATTATTCTTAAAATCTGGAGGCATCCAAATATGCTGTCACTGGC---TGCTTTT------ATCTCA-------CTATAAATAGTACGTGTGTTGGGCTGGGTGAGGGAGGCTGAATTGTATTT-AAGCACAACT-GGTGCATTG----TGTGTGTGTGTTTTTTTAAATTATACTTGGGGCCAGTTCTGTCAGTAAAGCCCATC----CAGGCACTTTGTCACA-TTATGGATAGCGCTGTCTGGGCTTGCCTGCCC-AGGGCAGGTGCTCTTTA---TTTTA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16588269 327 - 173908612 TTTAATCATCACTCCTTTTCTTTTAATGTAATATACTATTTAGTATT-----------TTATTAA-----GCTTGGATGAT----GACAGATGATAATTATTCTTAAAATCTGGAGGCATCCAAATATGCTGTCACTGGC---TGCTTTT------ATCTCA-------CTATAAATAGTACGTGTGTTGGGCTGGGTGAGGGAGGCTGAATTGTATTT-AAGCACAACC-AGTGCATTG----TGTGTGTGT-TTTTTTTTAATTATACTTGGGGCCAGTTCTGTCAGTAAAGCCCATC----CAGGCACTTTGTCACA-TTATGGATAGCGCTGTCTGGGCTTGCCTGCCC-AGGGCAGGTGCTCTTTA---TTTTA
+q panTro2.chr6 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999---9999999------999999-------99999999999999999999999999999999999999999999999999-9999999999-999999999----999999999-9999999999999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999-99999999999999999---99999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16064777 327 - 170899992 TTTAATCATCACTCCTTTTCTTTTAATGTAATATACTATTTAGTATT-----------TTATTAA-----GCTTGGATGAT----GACAGATGATAATTATTCTTAAAATCTGGAGGCATCCAAATATGCTGTCACTGGC---TGCTTTT------ATCTCA-------CTATAAATAGTACGTGTGTTGGGCTGGGTGAGGAAGGCTGAATTGTATTT-AAGCACAACC-AGTGCATTG----TGTGTGTGT-TTTTTTTAAATTATACTTGGGGCCAGTTCTGTCAGTAAAGCCCATC----CAGGCACTTTGTCACA-TTATGGATAGCGCTGTCTGGGCTTGCCTGCCC-AGGGCAGGTGCTCTTTA---TTTTA
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_207308 8896 315 + 43077 TTTCATAGGCACTCCTTTTCTTTTAATGTAACATGCTATTTAGCATT-----------TCATGCA-----GCTTCGATGAT----GACAGATGATAATTAGTCCTCAGATCTGGAGGTGCTCAGATGTGCTGTCGCTGGC---TGTTTTC------ATCTCA-CT-TGTGTATAAATAATGCGTGTGTCAGTCTGGGTAAGGGAGGCCGAGTT-------GAGCACAGCC-AGCACACGG----TGT---------TTCTA---TGACACTCGGGGCCAGTTCTGTCAGTGAAGCCCATC----CAGGGACTTCGCTGCC-TTGTGGACAGCATTGTCTGGGCTTGCCTGCCT-GGGGCAGGTGCTCTTTG---TTTTA
+q oryCun1.scaffold_207308 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999---9999999------999999-99-99999999999999999999999999999999999999999999999-------9999999999-999999999----999---------99999---999999999999999999999999999999999999----9999999999999999-99999999899999999999999999999999-99999999999999999---99999
+i oryCun1.scaffold_207308 C 0 C 0
+s rn4.chr1 229986540 338 - 267910886 TTTAGTAGCCATTCCTTTTCTGTTCACAGAGTTTGCTATTCAGTGCT-----------TTATTGA-----GCTTAGCTGGT----GACAGATAATAATTAGCCTTGAAATCTCTGTGTATCCAAATGTGCTATTATGGGC---TGTGTTTTCT-AAATCTAA-CT-TATGTGTGAATAATATGTGTGTTGGGCTGAGCGAGAGTTACTGCATTTCATGTAAAGGGCAGCC-AGCCAAAGCACTATGTGA-----GCTTTTAAATTTGCACTTGGGGCCAGTTCTGTCTGTCAAACCTATC----CAGGCAGTTTGTCACC-TCGAGGATAGCGCTGTCTGGGCTTGCCGTCCC-AGGGCAGGTGCTCTTCA---CTGTA
+q rn4.chr1 99999999999999999999999999999999999999999999999-----------9999999-----99999999999----9999999999999999999999999999999999999999999999999999999---9999999999-99999999-99-9999999999999999999999999999999999999999999999999999999999999999-999999999999999999-----9999999999999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999-99999999999999999---99999
+i rn4.chr1 C 0 C 0
+s ornAna1.chr2 14856374 324 - 54797317 TTTAGTAGT-ACTTTTCCTCTGTTG--CTGTTATCCTCTTAACTACTAAACTGGATCATTATGAAATAATGCTACGAGTCA----GTCAGAGAATGACTAGTCTTATAA-------GTGCCCAAGAAAGCTGTCACTGAC---TTTGCTA------TTATTG-TC----AGGTTAGTAGCACTCTGGATGGGTTGGGTTTG--TTGCTGAATCGTACTA-AAGCAGAAAT-GGGGTCTTG----TGT-------TCTTA------TACATTTGGGGACATTGCTGTCAGAAATGTCCATC----AAAGCGCTTTGCGGAG-TTATGCTTCAAACTGTCTGGGCTTGCCTGCAC-CAAGCAGGTGCTCTTTAATATTTTA
+i ornAna1.chr2 N 0 C 0
+s monDom4.chr2 106204271 292 - 541556283 -------------------------ATGTAGTATGGGGCTTAATATT-----------TTATTAA-----GTTTAGATGATGTAAGCCAGATAATAACTATCTTTAAATTCTAGAAATGCCTAT-TATGCTGTCACTGAC-------TTG------AATCTA-TT----CTGTTAATAATAGAGGTTTTGGATTGGATTGGGGATGCTAAGTTGCATTT-CAGCACAAAT-AGACGATTG----TG--------TTTTT----ACTGCGGTTGGGGCCAGTGCTTTCACTAATGCCCATC----TAGGCACTTTGTCGCA-TTATGAATCGAGCTGTCTGTACTTGCCTGGGC-TGTGCAGGTGCTCGTTC---TTTTA
+q monDom4.chr2 -------------------------9999999999999999999999-----------9999999-----999999999999999999999999999999999999999999999999999999-999999999999999-------999------999999-99----99999999999999999999999999999999999999999999999999-9999999999-999999999----99--------99999----9999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999-99999999999999999---99999
+i monDom4.chr2 I 8811 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_295331 115696 2415 + 116715 I
+
+a score=955963.000000
+s mm9.chr10 3170195 95 + 129993255 ATACATATGATGTG-TATTTGTTC---------------TTGAAGTTGTTTTTGTTGAAACCGGAAGAGC----CAGGTGCTTG---------------CAGATAGGT------GT-----------------ATTGGAAAATTTCTGAGCGA
+s rn4.chr1 229986878 110 - 267910886 ATTCATATGATGTG-TATTTGTTC---------------TTGAAGTTGTTTTTGTTGAAACCTGAAGAGC----CAGGTGCCTGCTGCTGGAGCGCGGACAGATAGGT------GT-----------------ATTGGAAATTTTCTGAGTAA
+q rn4.chr1 99999999999999-999999999---------------9999999999999999999999999999999----9999999999999999999999999999999999------99-----------------99999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 60889 110 - 169015 ATTTATATTACGTG-TATTTGCTG---------------TTAAAGTTGTTTTTGTTGAAACTTGAaaggccaggcaggtgcttgcagCTAGAGTA----TGGTCAGGC------GC-----------------ATTGGAAATTTGCTGAACAA
+q cavPor2.scaffold_284118 45857666686866-386785676---------------45889989839999868944699998999959997599993389957966699989----999998966------69-----------------99999999999999999958
+i cavPor2.scaffold_284118 I 2415 C 0
+s oryCun1.scaffold_207308 9211 106 + 43077 ATTTGTATTACGTG-TATTTACTC---------------TGAAAGTTGTTTCTGCTGAAACTTGAAAAGC----CAGGTGTTTGCAGCTAGAGTA----TGGGCAGAC------TT-----------------CTTGGGGATTTGCTGAACAG
+q oryCun1.scaffold_207308 99999999999899-999999979---------------7999999999997798899996699999997----839999999974888999999----999966996------69-----------------76999997899979999569
+i oryCun1.scaffold_207308 C 0 C 0
+s hg18.chr6 16065104 106 - 170899992 ATTTGTATTACGTA-TATTTGCTC---------------TGAAAGTTGTTTTTGTTGAAACTTGAAAAGC----CAGGTGCTTGCAGCTAGAGAA----TGGGCAGAC------TT-----------------ATTGGAAATTTGCTGAACAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16588596 106 - 173908612 ATTTGTATTACGTA-TATTTGCTC---------------TGAAAGTTGTTTTTGTTGAAACTTGAAAAGC----CAGGTGCTTGCAGCTAGAGAA----TGGGCAGAC------TT-----------------ATTGGAAATTTGCTGAACAA
+q panTro2.chr6 99999999999999-999999999---------------9999999999999999999999999999999----999999999999999999999----999999999------99-----------------99999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16370664 106 - 174210431 ATTTGTATTACGTA-TATTTGCTC---------------TGAAAGTTGTTTTTGTTGAAACTTGAAAAGC----CAGGTGCTTGCAGCTAGAGAA----TGGGCAGAC------TT-----------------ATTGGAAATTTGCTGAACAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108473109 106 + 167655696 ATTTGTATTACGTA-TATTTGCTC---------------TGAAAGTTGTTTTTGTTGAAACTTGAAAAGC----CAGGTGCTTGCAGCTAGAGAA----TGGGCAGAC------TT-----------------ATTGGAAATTTGCTGAACAA
+q rheMac2.chr4 99999999999999-999999999---------------9999999999999999999999999999999----999999999999999999999----999999999------99-----------------99999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 36680 107 - 523245 ATTTGTATTACGTA-TATTTGCTC---------------TGAAAGTTGTTTTTGTTGAAACTTGAAAAGC----CAGGTGCTTGCAGCTAGAGAA----TGGGCAAAC------TT----------------AATTGGAAATTTGCTGAACAA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 327334 100 - 359464 ATTTATATTACGTA-TATTTGCCC---------------TGAAAGTTGTTTTTGTTGAAACTTGAAAATC----CAGGTGCCTGC------AGGA----TGGGCAGAC------TT-----------------ATTGGAAATTTGCTGAACAA
+q otoGar1.scaffold_334.1-359464 99999999999959-999999999---------------9999999999999999999999999999999----89999679999------8998----499787996------99-----------------99994994699989988879
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 373166 107 - 498454 ATTTGCATTACGCA-TGTTTGCCC---------------TGGACGTTGTTTTCATTGAAACTTGAAAAGC---ACAGGTGCTTGCAGCTGGAGTT----TGGGCAGAC------TT-----------------ATTGGAAATGTGCTGAATGA
+q tupBel1.scaffold_114895.1-498454 99998999999999-999999999---------------9999999999999999999999999999999---9999999999999999999999----999999999------99-----------------99689999999998999989
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13028809 103 + 24938454 ATTTGTATTACGTC-CATTTGCTC---------------TGAAAGCTGTTTTTGTTGAAACTTGAAGAGC----CAGGTGCTTGCAGCTAGAGTA----TGGACCGAC------TT-----------------GTTGGAAATT---TGAACGA
+q equCab1.chr31 99999999999999-999999999---------------9999999999999999999999999999999----999999999999999999999----999999999------99-----------------9999999999---9999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 96923 106 - 219823 ATTTGTATTACCTG-TATTTGCTC---------------TGAAAGCTGTTTTTGTTGAAACTTGAAGAGC----CAGATGCTTGCAGCTAGAGTA----TGGACCAAC------TT-----------------ATTGGAAATTTGCTGAACAA
+q felCat3.scaffold_217398 99999999999999-999999999---------------9999999999999999999999999999999----999999999999999999999----999999999------99-----------------99999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13697522 103 - 95030419 ATTCGCATTACGTC-TGTTTGCTC---------------GGAAAGTTGTTTTTGTTGGAACTTGGAGGGC----CAGGTGCTTGCAGCTGGAGTA----TGGGCCAAC------TT-----------------ATTGGAAATT---TGAACGA
+q bosTau3.chr9 99999999999999-999999999---------------9999999999999999999999999999999----999999999999999999999----999999999------99-----------------9999999999---9999999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78236259 106 - 125616256 ATTCGTGTTACATA-TATTTGCTC---------------TGAAAGCTGTTTTTGTTGAAACTTGAAGAGC----CAGATGCTTGCAGCTAGAGTA----TGGACCAAC------TT-----------------ATTGGAAATTTGCTGAAGAA
+q canFam2.chr1 99999999999999-999999999---------------9999999999999999999999999999999----999999999999999999999----999999999------99-----------------99999999999999999999
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_40472 17149 107 - 17534 ATTTGTGTTACGTATTATTTGCTT---------------GGAAGGTTGTTTTTGTTGAAACTTGAAGAGC----CAGGTGCTTGCAGACGGGGTA----TGGGTAGGC------TT-----------------ATTGGAAATTTGCTGACCGT
+q dasNov1.scaffold_40472 997778889999999999978996---------------8899999789997889789999969999989----999989797999999999999----868999998------99-----------------99799999999999999989
+i dasNov1.scaffold_40472 C 0 C 0
+s monDom4.chr2 106204563 138 - 541556283 ATGTACACCACATC-TATTTGCTCAGGGAAATTGGCCTTTGAAAGTATTTTTTGTTGAAACTTGAAGAGC----CAGGTGCCTCCAGCAAAAGTG----GGGACAGGC------TTTGGTTTTTGTAGGCTTTATTAGAAATTTGCTAAACAC
+q monDom4.chr2 99999999999999-9999999999999999999999999999999999999999999999999999999----999999999999999999999----999999999------999999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14856698 127 - 54797317 ATGTGTATTACGTT-TGTTCGTTCGATGAAATTGGCTTTGGAAAGTAGATTTTGCTGAAACTTGAAAAGC----TAAGTGCCTACAGCCAGCGGG----TGGACAAGCTCTGCTTT-----------------ATTGGAAGTTTCCTTAACAA
+i ornAna1.chr2 C 0 I 20993
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+
+a score=-27769.000000
+s mm9.chr10 3170290 34 + 129993255 AGCTGGTTAACACTGA--CAGGGAT-CCCT----TCCcccc
+s rn4.chr1 229986988 29 - 267910886 AGCTGGTTAACACTGA--CAGGGAC-TCCC----AC-----
+q rn4.chr1 9999999999999999--9999999-9999----99-----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 60999 12 - 169015 AGTTGATAAACA-----------------------------
+q cavPor2.scaffold_284118 999999999999-----------------------------
+i cavPor2.scaffold_284118 C 0 I 2203
+s oryCun1.scaffold_207308 9317 10 + 43077 AGTTTGTTAA-------------------------------
+q oryCun1.scaffold_207308 9999999999-------------------------------
+i oryCun1.scaffold_207308 C 0 n 0
+s hg18.chr6 16065210 25 - 170899992 GGTTTGTTACCA-TGAAGTAGGGAC-A--------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16588702 25 - 173908612 GGTTTGTTACCA-TGAAGTAGGGAC-A--------------
+q panTro2.chr6 999999999999-999999999999-9--------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16370770 25 - 174210431 GGTTTGTTACCA-TAAAGTAGGGAC-A--------------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108473215 25 + 167655696 GGTTTGTTACCA-TGAAGTAGTGAC-A--------------
+q rheMac2.chr4 999999999999-999999999999-9--------------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 36787 25 - 523245 GGTTTGTTACTG-TGAAGTAGGGAC-A--------------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 327434 12 - 359464 AGTTTGTTAACA-----------------------------
+q otoGar1.scaffold_334.1-359464 898999999699-----------------------------
+i otoGar1.scaffold_334.1-359464 C 0 I 3326
+s tupBel1.scaffold_114895.1-498454 373273 22 - 498454 A----GTTAACA-CAGAGAAGGGACGG--------------
+q tupBel1.scaffold_114895.1-498454 9----9899999-99999999999999--------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13028912 25 + 24938454 AGTTTGTTGACA-CGAAGAAGAGGC-C--------------
+q equCab1.chr31 999999999999-999999999999-9--------------
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 97029 25 - 219823 AGGTTGTTAACG-CGAAGAGACACC-C--------------
+q felCat3.scaffold_217398 999999999999-999999999999-9--------------
+i felCat3.scaffold_217398 C 0 I 4363
+s bosTau3.chr9 13697625 25 - 95030419 AGTTCGTTAACA-CAGAGAAGGGAC-A--------------
+q bosTau3.chr9 999999999999-999999999999-9--------------
+i bosTau3.chr9 C 0 I 1
+s canFam2.chr1 78236365 16 - 125616256 AGTTTGTTAATG-TGAA------------------------
+q canFam2.chr1 999999999999-9999------------------------
+i canFam2.chr1 C 0 I 341
+s dasNov1.scaffold_40472 17256 35 - 17534 GATTTGTTAGCA-CGCTGAAGGGAC-A---CGTTTCCGCC-
+q dasNov1.scaffold_40472 999989999999-998899989999-9---9999999999-
+i dasNov1.scaffold_40472 C 0 N 0
+s monDom4.chr2 106204701 21 - 541556283 AATTTGTTTACA-TGAAGATGG-------------------
+q monDom4.chr2 999999999999-999999999-------------------
+i monDom4.chr2 C 0 N 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+
+a score=84580.000000
+s mm9.chr10 3170324 110 + 129993255 cacccccacccccccccgcgcccccaGCCGAGCACAGAAGGCTTCCTTAACCC-AGAGCAGCACAGATATCTGTCTGTGTACAC---------ACA--CCAGCACTGGTGGTGGCCACTGTG------------
+s rn4.chr1 229987017 91 - 267910886 --------------------CCTTCAGCTGAGCACAGTAGGCTTCCTCAACCTGAGAGCAGCACGGAGATGTGTCTGTGTACAC---------ACA--CCAGCATTGGTGGTGGCTGCTGTG------------
+q rn4.chr1 --------------------9999999999999999999999999999999999999999999999999999999999999999---------999--999999999999999999999999------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16065235 69 - 170899992 --------------------CCCTCAGCCAAGTGTAATGGGCT-----------------ATGTAGAGAATTGTCCATCAAAAC----------CC--CCAGTA----TGATGGCCACTATG------------
+i hg18.chr6 C 0 I 4
+s panTro2.chr6 16588727 69 - 173908612 --------------------CCCTCAGCCAAGTGTAATGGGCT-----------------GTGTAGAGAATTGTCCATCAAAAC----------CC--CCAGTA----TGATGGCCACTATG------------
+q panTro2.chr6 --------------------99999999999999999999999-----------------999999999999999999999999----------99--999999----99999999999999------------
+i panTro2.chr6 C 0 I 4
+s ponAbe2.chr6 16370795 69 - 174210431 --------------------CCCTCAGCCAAGTGTAATGGGCT-----------------ATGTAGAGAATTGTCCATCAAAAT----------CC--CCAGTA----CGATGGCCACTACG------------
+i ponAbe2.chr6 C 0 I 4
+s rheMac2.chr4 108473240 69 + 167655696 --------------------CCCTCAGCCAAGTGTAATGGGCT-----------------ATGTAGAGAACTGTCCATCAAAAC----------CC--CCAGTA----TGATGACCACTATG------------
+q rheMac2.chr4 --------------------99999999999999999999999-----------------999999999999999999999999----------99--999999----99999999999999------------
+i rheMac2.chr4 C 0 I 4
+s calJac1.Contig1260 36812 69 - 523245 --------------------CCCTCAGCCAAGTGTAATGGGCC-----------------ACGGAGAGAACTGTCCATCAAAAC----------CC--CCAGGG----TCATGACCACTATG------------
+i calJac1.Contig1260 C 0 I 4
+s tupBel1.scaffold_114895.1-498454 373295 84 - 498454 --------------------CTCTTAGCCAAGTTCGAAGGGCTTCC--------AG---AACAT-GAGCGCTGGTGAGCAAGATGTCTGCTGGACC--CCAGTA----TAATGATCACTGTG------------
+q tupBel1.scaffold_114895.1-498454 --------------------99999999999999999999999999--------99---99999-9999999998999999999999999999999--999999----99999999999999------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 75
+s equCab1.chr31 13028937 98 + 24938454 --------------------CCCTCAGCCAAGTGTAATGGGCTTCTAAAGCATGATAGCTGTTTAAGGCATTGTCCTTTAAAAC----------TC--CCAGTA----TAATTATCACTATGGAACTCATTTTC
+q equCab1.chr31 --------------------9999999999999999999999999999999999999999999999999999999999999999----------99--999999----99999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13697651 99 - 95030419 --------------------CCCTCAACCAAGTGTAACAGGCTACCGAAATATGACAGCTG-TTAGGGAGCAGTCTTTTAACAC----------CCCTCCAATC----TAATCATCGTGATGGGACTCATTTCC
+q bosTau3.chr9 --------------------99999999999999999999999999999999999999999-9999999999999999999999----------9999999999----99999999999999999999999999
+i bosTau3.chr9 I 1 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78236381 341 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=66632.000000
+s mm9.chr10 3170434 47 + 129993255 TCAGCTCAT----------TGGTCAAGAGTGG--------GGAG-GCTAAGGCAGGGGTTTCTAAA
+s rn4.chr1 229987108 56 - 267910886 -CAGTGCATCTGCTGGTCCTGCCCAGGAGTGG--------GGAG-GCTAAGGCAGGGATTTCTAAA
+q rn4.chr1 -9999999999999999999999999999999--------9999-999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 36885 56 - 523245 ----------TGGCCTTCTCTTTCAGGACTGGCATTTCCTGAAGTGTTATAGCAGGGTCTCTCAAA
+i calJac1.Contig1260 I 4 I 7
+s rheMac2.chr4 108473313 56 + 167655696 ----------TGGCCTTCTCTTTCAGGACCGGTATTTCCTGAAGCGTTATAGCAGGGTCTCTCAAA
+q rheMac2.chr4 ----------99999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 4 I 7
+s ponAbe2.chr6 16370868 56 - 174210431 ----------TGGACTTCTCTTTCAGGACTGGCATCTCCTGAAGCGTTATGGCAGGGTCTCTCAAA
+i ponAbe2.chr6 I 4 I 7
+s panTro2.chr6 16588800 56 - 173908612 ----------TGGACTTCTATTTCAGGACTGGCATTTCCTGAAGCGTTATGGCAGGGTCTCTCAAA
+q panTro2.chr6 ----------99999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 4 I 7
+s hg18.chr6 16065308 56 - 170899992 ----------TGGACTTCTATTTCAGGACTGGCATTTCCTGAAGCGTTATGGCAGGGTCTCTCAAA
+i hg18.chr6 I 4 I 7
+s equCab1.chr31 13029035 53 + 24938454 -------------TGACCTCTTTCGGGAAAGGTATTTCCTGAAATGTTATAGCGGAGTCTTCCAAA
+q equCab1.chr31 -------------99999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 38
+s bosTau3.chr9 13697750 53 - 95030419 -------------TGACCTCTTTCAGGAGAGGTATTTCCTGAAAAGTTGCAGTAGACTTTTCCAAA
+q bosTau3.chr9 -------------99999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78236381 341 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373379 75 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=51864.000000
+s mm9.chr10 3170481 78 + 129993255 GTATGAGACAGGT-GAGAG------------GAGGCAGGTGAGTGGCTGTATAGGACTGCCTCAGTTGCAGTGTTACAGCTTGCCTGTCTG
+s rn4.chr1 229987164 76 - 267910886 G--TGAGACAGTT-GACAG------------GAAGGGCAGGTGTAGCTGCTCATGGCTGCCTCAGTCACAATGTTACAGCCGGCCTGTCTG
+q rn4.chr1 9--9999999999-99999------------999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16065371 90 - 170899992 GCCTGGGATAGTA-AAGAGATTACGTTATAAGAGACACAAACGTGACAGGGAACTACTGTGTCACTGATGGTTCCAGCACCTTGCTGtcca
+i hg18.chr6 I 7 C 0
+s panTro2.chr6 16588863 90 - 173908612 GCCTGGGATAGTA-AAGAGATTACGTTATAAGAGACACAAACGTGACAGGGAACTACTGTGTCACTGATGGTTCCAGCACCTTGCTGtcca
+q panTro2.chr6 9999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 7 C 0
+s ponAbe2.chr6 16370931 90 - 174210431 GCCTGGGATAGTA-AAGAGATTACGTTGTAAGAGACACAAACGTGACAGGGAACTGCTGTGTCACTGATGGTTCCAGCACCTTGCTGTCCA
+i ponAbe2.chr6 I 7 C 0
+s rheMac2.chr4 108473376 89 + 167655696 ACCTGGGATAGT--AAGAGGTTACATTGTAAGAGACACAAACATGACAGGGAACTACTCTGTCACTGATGGTGCCAGCACCTTGCTGTCCA
+q rheMac2.chr4 999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 7 C 0
+s calJac1.Contig1260 36948 90 - 523245 ACCTGGGATAGTA-GAGAGAAGGTGTTGTAAGAGACACGAATGTAACGGGGAACTACTGCATCACTCATGGTGGCAGCACCTTGCTATCCA
+i calJac1.Contig1260 I 7 C 0
+s bosTau3.chr9 13697803 37 - 95030419 G---------------------------TGAGGAGCTC--------------ATGATAGTCTTAGAGATGATTTTAGA-------------
+q bosTau3.chr9 9---------------------------9999999999--------------99999999999999999999999999-------------
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 373454 78 - 498454 ----------GTATGAGAGATAATGTCAGGAGAGTCATGGAT-TGGCAATGAATCACTGCCTCGCTCACGGGGTTACCAGCTTTCTGT--A
+q tupBel1.scaffold_114895.1-498454 ----------99999999999999999999999999999999-999999999999999999999999999999999999999999999--9
+i tupBel1.scaffold_114895.1-498454 I 75 C 0
+e equCab1.chr31 13029088 38 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78236381 341 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=165228.000000
+s mm9.chr10 3170559 108 + 129993255 GTCTG----ACCA-------GGTCAAAGGAT--GAA---CAGTCAAAATGTTACTTT---------CTTCACTTGTAAGTTTT-------ACACCGGGAAGC------GCTGAGACAGTTACTTCTGCCTGTCTGCTG--CTCTCCAC
+s rn4.chr1 229987240 115 - 267910886 GTCTG----ATCAGGTCAAGGGTCAAAGGAA--GAG---CAGTCAAACTGTTACTTT---------CTTCACTTGTAAGTTTT-------ACACAGGGAAGT------CCTGAGTCAGTTACTTCTGTCTGTCTGGGT--CTTTCCAC
+q rn4.chr1 99999----9999999999999999999999--999---999999999999999999---------99999999999999999-------999999999999------999999999999999999999999999999--99999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16065461 137 - 170899992 gtctgtttgatga-------ggtcaaggaaa--gattctctctgtagctgtcatttttccagcaccttttatttgcaaatttttcttttagcatgaataagcaggccctgggagacagttccatctagctaagtttgc--tttgcttt
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16588953 137 - 173908612 gtctgtttgatga-------ggtcaaggaaa--gattctctctgtagctgtcatttttccagcaccttttatttgcaaatttttcttttagcatgaataagcaggccctgggagacagttccatctagctaagtttgc--tttgcttt
+q panTro2.chr6 9999999999999-------99999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16371021 137 - 174210431 GTCTGTTTGATGA-------GGTCAGGGGAA--GATTCTCTCTGTAGCTGTCATTTTTCCAGCACCTTTTATTTGCAAATTTTTCTTTTAACATGAAGAAGCAGGTCCTGGGAGACAGTTCCATCTAGCtaactttgc--tttgcttt
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108473465 137 + 167655696 GTCTGTCTGATGA-------GGTCAAGGGAA--GATTCTCTCTGTAGCTGTCATTTTTCCAGCACCTTTTATTTGCAAATTTTTCTTTGAACATGAAGAAGCAGGCCCCGGGAGACAGTTCCATCTAGCTAACTTTGC--TTTGCTTT
+q rheMac2.chr4 9999999999999-------99999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 37038 127 - 523245 GTCTGCCTAATGA-------GATCAAGGGAA--GATTCTCTCTGTAGCTGTCATTTTTCCAGCGCCTTTTATTTGCAATTTTTTCTTTTAACATGAAGAAGC----------AGACAGTTACATCTGGCtaactttgc--tttgtttt
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 373532 104 - 498454 GTCTGTCTGACAA-------GGTTGAGGAAA--GAGTGTGTTTGTAGCTGCCATTTCTTCAGCACCTGTCATTTGCAAAATTTTCCTTTTAGA----------------------------CATCTAAAAACCTTTTT--TTT-----
+q tupBel1.scaffold_114895.1-498454 9999999999999-------99969999999--999999677366865776967999999966679689888933489625974955794692----------------------------22554387306999999--999-----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13029126 121 + 24938454 ATCTG----AGTA-------GGTCAGGAGAA--GA----TTCTATAGTT-GCATTTCTTCAACACCTGTCACTTGCAATTTCC-CCTTTAACTT---GAAGCAGGCCCTGGGAGACAATTATATCCAGCtaactttgc--tttgt---
+q equCab1.chr31 99999----9999-------99999999999--99----9999999999-999999999999999999999999999999999-9999999999---99999999999999999999999999999999999999999--99999---
+i equCab1.chr31 I 38 I 15
+s bosTau3.chr9 13697840 126 - 95030419 Gtctg----a-ca-------ggtcaagggaactgt----ctttgtagctagcctttcttcaacacccgttccttgcaagttct-cttttaacatgaagaagcaagccctcggagat--taatagctagctaactttgctttttgt---
+q bosTau3.chr9 99999----9-99-------999999999999999----99999999999999999999999999999999999999999999-99999999999999999999999999999999--999999999999999999999999999---
+i bosTau3.chr9 C 0 I 18
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78236381 341 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-36978.000000
+s mm9.chr10 3170667 11 + 129993255 A---------------ACACTTAAGT
+s rn4.chr1 229987355 11 - 267910886 A---------------ATGTTGATGT
+q rn4.chr1 9---------------9999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16065598 1 - 170899992 c-------------------------
+i hg18.chr6 C 0 I 298
+s panTro2.chr6 16589090 1 - 173908612 c-------------------------
+q panTro2.chr6 9-------------------------
+i panTro2.chr6 C 0 I 298
+s ponAbe2.chr6 16371158 1 - 174210431 c-------------------------
+i ponAbe2.chr6 C 0 I 489
+s rheMac2.chr4 108473602 1 + 167655696 C-------------------------
+q rheMac2.chr4 9-------------------------
+i rheMac2.chr4 C 0 I 302
+s calJac1.Contig1260 37165 1 - 523245 c-------------------------
+i calJac1.Contig1260 C 0 I 309
+s tupBel1.scaffold_114895.1-498454 373636 14 - 498454 -TGTGATA-TTTATGT----------
+q tupBel1.scaffold_114895.1-498454 -8646769-8999977----------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78236722 11 - 125616256 ----gatactttcta-----------
+q canFam2.chr1 ----99999999999-----------
+i canFam2.chr1 I 341 C 0
+s equCab1.chr31 13029262 11 + 24938454 ----gatagtttcta-----------
+q equCab1.chr31 ----99999999999-----------
+i equCab1.chr31 I 15 C 0
+s bosTau3.chr9 13697984 11 - 95030419 ----gatactttctg-----------
+q bosTau3.chr9 ----99999999999-----------
+i bosTau3.chr9 I 18 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=83484.000000
+s mm9.chr10 3170678 78 + 129993255 CTTATGGC-----AAGTTA-TACCGATTTATAGTCATGACTTCAAGTTTAT----AAAACGGCATTAAAA-TGGGTGCAT----------TTCAAAAGA
+s rn4.chr1 229987366 79 - 267910886 TTTACGGC-----AAGTTATTACTGATATATAGCCATGACTTAAAGTTTAT----AAAATAGCATTAAAG-TGTATACAT----------TTCAAAAGA
+q rn4.chr1 99999999-----99999999999999999999999999999999999999----999999999999999-999999999----------999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16065897 63 - 170899992 -ttatggc-----aagcaa-cacatatttatagcagtgacttaaaggttcttataaaaatgaaattaaaa-----------------------------
+i hg18.chr6 I 298 C 0
+s panTro2.chr6 16589389 63 - 173908612 -ttatggc-----aagcga-cacatatttatagcagtgacttaaaggttcttataaaaaagaaattaaaa-----------------------------
+q panTro2.chr6 -9999999-----999999-99999999999999999999999999999999999999999999999999-----------------------------
+i panTro2.chr6 I 298 C 0
+s rheMac2.chr4 108473905 63 + 167655696 -TTATGGC-----ATGTGA-CACATATTTATAGCATTGACTTAAAGATTCTTATAAAAATGAAATTAAAA-----------------------------
+q rheMac2.chr4 -9999999-----999999-99999999999999999999999999999999999999999999999999-----------------------------
+i rheMac2.chr4 I 302 C 0
+s calJac1.Contig1260 37475 64 - 523245 tttatagc-----aagtga-cacacatttatagcagtaacttaaagattcttttaaaaatgacattaaaa-----------------------------
+i calJac1.Contig1260 I 309 C 0
+s tupBel1.scaffold_114895.1-498454 373650 82 - 498454 -TTATGGTGGCAAATGGGA-TACTAATTTTTAGCAGTGATTTAAAGACTCTTTAAAAGCTGGCATTAAAA-TGA----AT----------TATAAAAAA
+q tupBel1.scaffold_114895.1-498454 -977997364699679999-69999999998999999999999999999999999999999999999999-999----99----------999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78236733 81 - 125616256 tttgtggc-----aagtga-tactaattaataacagtgatttaaaggctctt------------ttaaaaatgaattgatttataaaaattaagtacat
+q canFam2.chr1 99999999-----999999-99999999999999999999999999999999------------99999999999999999999999999999999999
+i canFam2.chr1 C 0 I 85
+s equCab1.chr31 13029273 82 + 24938454 tttatggc-----aagtga-cagtaacttatgggagtgatttaaagatttttt-ttaaatgatgttaaaaatgaattgat----------ttttaaaaa
+q equCab1.chr31 99999999-----999999-999999999999999999999999999999999-99999999999999999999999999----------999999999
+i equCab1.chr31 C 0 I 71
+s bosTau3.chr9 13697995 83 - 95030419 cttgtggc-----aagtga-tactagtttatagtagtgatttacagactttttaaaaaatgaagtgaaaagtgaactgac----------ttttaaaaa
+q bosTau3.chr9 99999999-----999999-999999999999999999999999999999999999999999999999999999999999----------999999999
+i bosTau3.chr9 C 0 I 84
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e ponAbe2.chr6 16371159 489 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-15531.000000
+s mm9.chr10 3170756 25 + 129993255 GACTTATTTTTCAttatttttaatt----------------------------------------
+s rn4.chr1 229987445 24 - 267910886 GACTTA-TTTTCtttatttttaatt----------------------------------------
+q rn4.chr1 999999-999999999999999999----------------------------------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16065960 12 - 170899992 -------------atgaattgattt----------------------------------------
+i hg18.chr6 C 0 I 112
+s panTro2.chr6 16589452 12 - 173908612 -------------atgaattgattt----------------------------------------
+q panTro2.chr6 -------------999999999999----------------------------------------
+i panTro2.chr6 C 0 I 114
+s rheMac2.chr4 108473968 12 + 167655696 -------------ATGAATTGATTT----------------------------------------
+q rheMac2.chr4 -------------999999999999----------------------------------------
+i rheMac2.chr4 C 0 I 106
+s calJac1.Contig1260 37539 31 - 523245 -------------atgatatgttaaataagtaaataatattaga---------------------
+i calJac1.Contig1260 C 0 I 96
+s tupBel1.scaffold_114895.1-498454 373732 41 - 498454 ---TTA--TTTCTTTAAATTTATTT-------------------ATTCATTCATTTATTTTAATT
+q tupBel1.scaffold_114895.1-498454 ---999--99999999999999999-------------------999999999999999989999
+i tupBel1.scaffold_114895.1-498454 C 0 I 5825
+e bosTau3.chr9 13698078 84 - 95030419 I
+e equCab1.chr31 13029355 71 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78236814 85 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e ponAbe2.chr6 16371159 489 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=3384.000000
+s mm9.chr10 3170781 70 + 129993255 atgtgtctcttgtgtctgtgtgtggctgtgtgcatctgtgattgcaggtgcctgcagacgccagaagagg
+s rn4.chr1 229987469 69 - 267910886 acctgtctctc-tgtctgtgtgtggctctgtgcctgtgtgagtgcagttgcctgcagacccccggaagcc
+q rn4.chr1 99999999999-9999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 189
+e bosTau3.chr9 13698078 84 - 95030419 I
+e equCab1.chr31 13029355 71 + 24938454 I
+e rheMac2.chr4 108473980 106 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78236814 85 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 37570 96 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16065972 112 - 170899992 I
+e panTro2.chr6 16589464 114 - 173908612 I
+e ponAbe2.chr6 16371159 489 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=891190.000000
+s mm9.chr10 3170851 509 + 129993255 gca-------------------------tcagaAACCTCAC--TGCTTCTCTCTGTAT--TTTCTCTGTCT----TTTAATATTTGGTTCTG---------------TCTGTGTGCTAAAATCTGGTACCATGGTTACTGTACTGCTTC----------CTGTAGTTATAAC--GGAACACGGAATG----CTGAGGTTGGTGAAG-AATTGGAGAATTGGGAGCCTTTATAAATCTCTGACAGAAAAAAAAatacatctctgataggaaagtaaatgaaaacagctcttt--agaaac--tgtggcaatttttaaaaaaattt-aaatgtatcattaccatagttaccacatgtctcaat------------------------------aaaagaattg----tacttttttgcataaaaacctgtata [...]
+s bosTau3.chr9 13698162 534 - 95030419 --gC-----------CTTGGTATCAT-C-----------------------TGGGCTTTTTCCTGCTATCTGGCATTTGTATTCTGTGTTGGAGGACTTATTAATAATTTGGATGTTAAAATCTGATAAcaca-ataaaatattacaccacactgactagtttgactctaa---aacaagatggataatactaagtgttggtgaag-atatggagaaactaaaaccctcataa-----------------------attcagtgtaagaatgaaaaatggtgcaattcctttgggacatattttggcaatttctcaaaaag-ttaaaatat---------agagtcatggtatgactcaataattccactcc------taggtatatactcaagaggtttgaaagcatatgctcaggtagacacctgtgca [...]
+q bosTau3.chr9 --99-----------99999999999-9-----------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999---99999999999999999999999999999999-99999999999999999999999999-----------------------99999999999999999999999999999999999999999999999999999999999999999-999999999---------99999999999999999999999999999999------99999999999999999999999999999999999999999999999999999 [...]
+i bosTau3.chr9 I 84 C 0
+s equCab1.chr31 13029426 537 + 24938454 ----tttaggaaTGCCTTTGTGTAAT-C-----------------------TGGATTTTTTCCTGCTATCTGACATTTGGTTTCTATTTCTGAGGACCAGTTTAAAATTTTGATGCCAAAATCTGGTAAcaca-atgaaatattactttacacccactagtatggctctaat-caaaaagatggataataacaagtattggtgaag-atacggagaaattggaaccctctt-a-----------------------attgccagtaggaatg-aaaatggtgaagtccctttgggaaatggtttggccattcatcagagag-tt-aaacat---------agagttaccgtatgactcaacagttctgctcc------taggtatgtgcccatgaggattgaaaatgtatgttcacataaaaatctgtaca [...]
+q equCab1.chr31 ----9999999999999999999999-9-----------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999-999999999999999999999999999999999-999999999999999999999999-9-----------------------9999999999999999-999999999999999999999999999999999999999999999999-99-999999---------99999999999999999999999999099999------99999999999999999999999999999999999999999999999999999 [...]
+i equCab1.chr31 I 71 C 0
+s canFam2.chr1 78236899 512 - 125616256 --------------------------TC-----------------------CAGTTTTTTTCCC-TTCTGTGGCATTTGGTTT-------TGAGTACTTATTGAAGACTTGGATGTTcaaatctgataacaca-ataaaatattacttcacacccattagtatggctagaat-taaaaagatgtatagtaacaagtgttggtgaagaaaacagagaaattagaaccctcttaa-----------------------attgctggtaggaatgaaaaatggtgcaatccatgtgggaaacagtttggcaaat-gttagaaaa-tg-aaacct---------agagttaccataagactcaaaaaattctttcagaataggagatatatacccaagagaactaaaaacatatgtttacataaaaacctacaca [...]
+q canFam2.chr1 --------------------------99-----------------------9999999999999-999999999999999999-------9999999999999999999999999999999999999999999-99999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999-----------------------9999999999999999999999999999999999999999999999999999999-999999999-99-999999---------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i canFam2.chr1 I 85 I 205
+s calJac1.Contig1260 37666 488 - 523245 ------------------------------------------------C-----------------TGTCTGATGTTTAGTT--TGTTTCTGAGGACCTACTTACAATTTGGATGCTAAAATCTGATAAcaca-ataatatactacttcatacccactattatggctatactaaaaaaagatggatcataactagtgttggtgaag-atgt----------gaaccttcataa-----------------------attgctggcaggaaggtaacatggtgcagctcctctgggaaacattttggcaattcctcaaaatg-ttaaa-------------agagttaccacatgactcaatagttccactcc------taggtatatacccaagagaactgagaacgtatattcacctaaaaacctataca [...]
+i calJac1.Contig1260 I 96 C 0
+s rheMac2.chr4 108474086 514 + 167655696 ---------------------------------------------------TTTTTTTTCTTCCACTGTCTGGTATTTAATTTCTGTTTCTGAGGACCTAC-TAAAAATTGGTTGTTAAAATCTGATAACACA-ATAATATACTACTTCTTACCCACTATTATGGCTGTACT-AAAAACGATGGATGATAACTAGTGTTGGTGAAG-ATGTGAAGAAATTGGAACCTTCATAA-----------------------ATTGCTGGCAGGAATGTAACATGGTGCAGCTCCACTGGGGAACAATTTGGCAGTTCCTCAAAATC-TT-AA-------------AGAGTTACCACGTGACTCAACGGTTCCACTCC------TAGATATAACCCCAGGAGAATTGGGAACATACATTCACCTAAAAACCTATACA [...]
+q rheMac2.chr4 ---------------------------------------------------99999999999999999999999999999999999999999999999999-9999999999999999999999999999999-99999999999999999999999999999999999999-999999999999999999999999999999999-99999999999999999999999999-----------------------99999999999999999999999999999999999999999999999999999999999999999-99-99-------------99999999999999999999999999999999------99999999999999999999999999999999999999999999999999999 [...]
+i rheMac2.chr4 I 106 C 0
+s ponAbe2.chr6 16371648 510 - 174210431 ---------------------------------------------------TATTTTTTCTTCCACTGTCTGGTATTTAGTTTCTGTTTCTGAGGACCTACTTAAAATTTGGATGTTAAAATGTGATAAcata-ataatatactacttcttacccactattatggctatact-aaaaacgatggatgataactagtgttggtgaag-atgtgaaga----ggaaccttcataa-----------------------attgctggcaggaatgtaacatggtgcagcttctctgggaaacagtttggcagttcctcaaaatg-tt-ca-------------agagttaccacatgactcaacagttccactcc------taggtctatcctcaagagaactgagaacgtatgttcacctaaaaacctataca [...]
+i ponAbe2.chr6 I 489 C 0
+s panTro2.chr6 16589578 515 - 173908612 ---------------------------------------------------TTTTTTTTCTTCCACTGTCTGGTATTTAGTTTCTGCTTCTGAGGACCTACTTAAAATTTGGATGTTAAAATCTGGTAAcaca-ataatacactacttcttacccactattatggctatact-aaaaacgatggatgataactagtgttggtgaag-atgtgaagaaattggaatcttcataa-----------------------attgctggcaggaatgtaacatggtgcagctcctctgggaaacagtttgacagttcctcagaatg-tt-ca-------------agagttaccacatgactcaacagttccactcc------taggtatatccccaagagaactgagaacgtacattcacctaaaaacctataca [...]
+q panTro2.chr6 ---------------------------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999-999999999999999999999999999999999-99999999999999999999999999-----------------------99999999999999999999999999999999999999999999999999999999999999999-99-99-------------99999999999999999999999999999999------99999999999999999999999999999999999999999999999999999 [...]
+i panTro2.chr6 I 114 C 0
+s hg18.chr6 16066084 515 - 170899992 ---------------------------------------------------TTTTTTTTCTTCCACTGTCTGGTATTTAGTTTCTGTTTCTGAGGACCTACTTAAAATTTGGATGTTAAAATCTGATAAcaca-ataatacactacttcttacccactattatggctatact-aaaaacgatggatgataactagtgttggtgaag-atgtgaagaaattggaatcttcataa-----------------------attgctggcaggaatgtaacatggtgcagctcctctgggaaacagtttggcagttcctcagaatg-tt-ca-------------agagttaccacatgactcaacagttccactcc------taggtatatccccaagagaactgagaacgtacattcacctaaaaacctataca [...]
+i hg18.chr6 I 112 C 0
+s rn4.chr1 229987727 475 - 267910886 ----------------------------TTGGAAATATCACTTTGGTTCTGTCTGTATTGTCTCTCTGTCC----TTTAACATTTGGTTTTG---------------TTCGTATGCTAATGTCTGGTAACATG------GTACTACTTC----------CTGTGGCTATAAT--GAAACAGTGAGTG----CCCTGGttggtgagg-aattggagaattgagaacctttataa-----------------------acctctgataggaaagtaaattgaaacagctcttc--agaaacagtgtggcagtttctgaaaccg-tt-aaatgtatcattaccatagttac--catgtctcaat------------------------------aagagaatt--------ctttttgcataaaaacctgtaca [...]
+q rn4.chr1 ----------------------------9999999999999999999999999999999999999999999----99999999999999999---------------99999999999999999999999999------9999999999----------9999999999999--9999999999999----999999999999999-99999999999999999999999999-----------------------99999999999999999999999999999999999--9999999999999999999999999999-99-99999999999999999999999--99999999999------------------------------999999999--------99999999999999999999999 [...]
+i rn4.chr1 I 189 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=59189.000000
+s mm9.chr10 3171360 23 + 129993255 gtaaaataagccagctacagaag
+s rn4.chr1 229988202 23 - 267910886 tcgaagtaagctaggcacagaag
+q rn4.chr1 99999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16066599 23 - 170899992 atgaaataagacaaagataaaag
+i hg18.chr6 C 0 I 3185
+s panTro2.chr6 16590093 23 - 173908612 atgaaataagacaaagataaaag
+q panTro2.chr6 99999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16372158 23 - 174210431 gtgaaataagacaaagataaaag
+i ponAbe2.chr6 C 0 I 3149
+s rheMac2.chr4 108474600 23 + 167655696 ATGAAATAAGACAAAGATAAAAG
+q rheMac2.chr4 99999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 38154 23 - 523245 gtgaaataagacaaatataaaag
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78237616 23 - 125616256 gtgaaataagccagacacaaaag
+q canFam2.chr1 99999999999999999999999
+i canFam2.chr1 I 205 C 0
+s equCab1.chr31 13029963 22 + 24938454 atgacataag-cagacacaaaag
+q equCab1.chr31 9999999999-999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13698696 23 - 95030419 gtgaaataagccagacacagaag
+q bosTau3.chr9 99999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-15112.000000
+s mm9.chr10 3171383 32 + 129993255 tatggcttacagtgttgattctgttcattatg
+s rn4.chr1 229988225 32 - 267910886 tatagcttgtggtgcttattctgttcattgtg
+q rn4.chr1 99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16590116 20 - 173908612 -gttgcatattgta-tga--------aatg--
+q panTro2.chr6 -9999999999999-999--------9999--
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108474623 20 + 167655696 -GTTGCATATTGTA-TGA--------AATG--
+q rheMac2.chr4 -9999999999999-999--------9999--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 38177 28 - 523245 -gttacattgtgta-tgattTtgctgaatc--
+i calJac1.Contig1260 C 0 I 8206
+s canFam2.chr1 78237639 11 - 125616256 -gccacatgcta--------------------
+q canFam2.chr1 -99999999999--------------------
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13029985 11 + 24938454 -gccacatgttg--------------------
+q equCab1.chr31 -99999999999--------------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13698719 11 - 95030419 -gctacatcttg--------------------
+q bosTau3.chr9 -99999999999--------------------
+i bosTau3.chr9 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16066622 3185 - 170899992 I
+e ponAbe2.chr6 16372181 3149 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=13175.000000
+s mm9.chr10 3171415 93 + 129993255 tttatttacatttttggtttttgtggtactggggatcatcttacagctccatgtat-atgtga-gttcagaacaggtaaatctctaggagtggaa
+s rn4.chr1 229988257 87 - 267910886 tgtatttaaggttttgtttcttgtcgaactaaggatcatcttacaactccatgtat-atgtaa-gttcagaatgggttaatctctaggg------
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999-999999-9999999999999999999999999------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16590136 43 - 173908612 --------------------------------------------------atttat-atgaaatattcagaacaggcaaatc-atagagatagaa
+q panTro2.chr6 --------------------------------------------------999999-9999999999999999999999999-999999999999
+i panTro2.chr6 C 0 I 282
+s rheMac2.chr4 108474643 43 + 167655696 --------------------------------------------------ATTTAT-ATGAAATGTTCAGAACAGGCAAATC-ATAGAGATAGAA
+q rheMac2.chr4 --------------------------------------------------999999-9999999999999999999999999-999999999999
+i rheMac2.chr4 C 0 I 282
+s canFam2.chr1 78237650 47 - 125616256 -----------------------------------------cctgaatccatttatagaaaaacatccgtaataggcaaatccatagg-------
+q canFam2.chr1 -----------------------------------------99999999999999999999999999999999999999999999999-------
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13029996 53 + 24938454 -----------------------------------------tatgattccatttgt-ggaaaatgtccacgataggcaaatccatagagacagaa
+q equCab1.chr31 -----------------------------------------999999999999999-99999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13698730 53 - 95030419 -----------------------------------------tagggttctatttat-aagaactgtccagaaaaggcacatccatagagtcagag
+q bosTau3.chr9 -----------------------------------------999999999999999-99999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 38205 8206 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16066622 3185 - 170899992 I
+e ponAbe2.chr6 16372181 3149 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=57072.000000
+s mm9.chr10 3171508 101 + 129993255 tgtgggttagtgatgaccgagattcatggtaaaggggg-actgaggagtgacagctgacactgattga--gtttctgtggagaagggtggtggaaacgctctca
+s rn4.chr1 229988344 100 - 267910886 -gttggttagcgatgactgagactcatgaggaaggggg-acagaggagtgacagctaacactgataga--atttctttgggagggggtgatgggcatgttttca
+q rn4.chr1 -9999999999999999999999999999999999999-99999999999999999999999999999--9999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16590461 94 - 173908612 agtaggttcttgattacaggagtt--gggagaatagga-aataaagaatgatggct--cgtgggtagg--gtttcttttt---ggggtgatggaaatgttctca
+q panTro2.chr6 999999999999999999999999--999999999999-99999999999999999--9999999999--9999999999---999999999999999999999
+i panTro2.chr6 I 282 I 2731
+s rheMac2.chr4 108474968 95 + 167655696 -GTAGGTTCTTGATTATAGGGGTT--GGGAGAATAGGA-AATAAAGAATGATGTCT--CATGAGTAGGGTGTTTCTTTTT---GGGGTGATGGAAATGTTCTCA
+q rheMac2.chr4 -99999999999999999999999--999999999999-99999999999999999--9999999999999999999999---999999999999999999999
+i rheMac2.chr4 I 282 I 2856
+s canFam2.chr1 78237697 89 - 125616256 -------tagagggagtagggatt--gaatgtccggga-catggacagtcactgccaatgggtatggg--gtttccttct---gggatgatggaaacgttctca
+q canFam2.chr1 -------99999999999999999--999999999999-99999999999999999999999999999--9999999999---999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13030049 96 + 24938454 gatagattagtgattgcaggggtt--gggtggaagggagaatggaaagtgactgctaatgggtatggg--a-ttcttttg---gggatgatagaaatgctctca
+q equCab1.chr31 999999999999999999999999--999999999999999999999999999999999999999999--9-99999999---999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13698783 96 - 95030419 tatagattagtgactgcaggattt--gggtagagggag-ggtggagagtggttgccagtgtgtgtggg--attttttttt---ggggtgatggaaatgttctca
+q bosTau3.chr9 999999999999999999999999--999999999999-99999999999999999999999999999--9999999999---999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 38205 8206 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16066622 3185 - 170899992 I
+e ponAbe2.chr6 16372181 3149 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=9724.000000
+s mm9.chr10 3171609 69 + 129993255 ccttgaacagtggggttggtagtaccac--tctgaatgtactgacaaccactaagctaaacatatt-----aaaaa
+s rn4.chr1 229988444 68 - 267910886 acttgaacagtggggttggttgtacaac--tctgcctgtactgacaaccacc-agcaaagaacatt-----aaaaa
+q rn4.chr1 9999999999999999999999999999--9999999999999999999999-9999999999999-----99999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78237786 64 - 125616256 aattagatag------tggtcataaaaccttgtgagaatactaaaaacgacctatttggacaccta-----agaa-
+q canFam2.chr1 9999999999------99999999999999999999999999999999999999999999999999-----9999-
+i canFam2.chr1 C 0 I 1
+s equCab1.chr31 13030145 69 + 24938454 aattagataa------cggtcacataactttgtgaatatactatcagtcactgaactgtacacttcaatttaaaa-
+q equCab1.chr31 9999999999------99999999999999999999999099999999999999999999999999999999999-
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13698879 65 - 95030419 aattagatgg------tggtcacacaaccttttgaatagactaaatatcactgaattttacacttt----taaaA-
+q bosTau3.chr9 9999999999------99999999999999999999999999999999999999999999999999----99999-
+i bosTau3.chr9 C 0 I 2266
+e rheMac2.chr4 108475063 2856 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 38205 8206 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16066622 3185 - 170899992 I
+e panTro2.chr6 16590555 2731 - 173908612 I
+e ponAbe2.chr6 16372181 3149 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=10741.000000
+s mm9.chr10 3171678 31 + 129993255 gacagatcttaagatatgtgaattgtatttt
+s rn4.chr1 229988512 31 - 267910886 ggcaaatcttaaggtatgtgaatggtatttt
+q rn4.chr1 9999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78237851 31 - 125616256 ggtgaattttgtggtatgtgaattctacctt
+q canFam2.chr1 9999999999999999999999999999999
+i canFam2.chr1 I 1 I 3036
+s equCab1.chr31 13030215 31 + 24938454 ggtgaattttatggtatgtgagttataCTTT
+q equCab1.chr31 9999999999999999999999999999999
+i equCab1.chr31 I 1 I 1652
+e bosTau3.chr9 13698944 2266 - 95030419 I
+e rheMac2.chr4 108475063 2856 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 38205 8206 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16066622 3185 - 170899992 I
+e panTro2.chr6 16590555 2731 - 173908612 I
+e ponAbe2.chr6 16372181 3149 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=5510.000000
+s mm9.chr10 3171709 85 + 129993255 aatGGTAAGTATCTGGGCACAGATAGCTGGTGGCTGGTCATAGGAAGGAGGCCTTCCCTGAAGCTGCACTTCTGCTGCTGCTGGT
+s rn4.chr1 229988543 81 - 267910886 aatGGTAAGTATCTGGGTACAGAAAGCTGGTGGCTGGTCAC----AGGAGGCTTTCCCTTACGTTGTGCCTCTGCTGCTGATGGT
+q rn4.chr1 99999999999999999999999999999999999999999----9999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13698944 2266 - 95030419 I
+e equCab1.chr31 13030246 1652 + 24938454 I
+e rheMac2.chr4 108475063 2856 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 38205 8206 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e otoGar1.scaffold_334.1-359464 327446 3326 - 359464 I
+e hg18.chr6 16066622 3185 - 170899992 I
+e panTro2.chr6 16590555 2731 - 173908612 I
+e ponAbe2.chr6 16372181 3149 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=19145.000000
+s mm9.chr10 3171794 31 + 129993255 ATCAGTTTGGGCTGACTCAGAGGGAATCTCC
+s panTro2.chr6 16593286 31 - 173908612 ATAAATATAAGTTGGTTTAGATGGAATAAAT
+q panTro2.chr6 9999999999999999999999999999999
+i panTro2.chr6 I 2731 I 4
+s hg18.chr6 16069807 31 - 170899992 ATAAATATAAGTTGGTTTAGATGGAATAAAT
+i hg18.chr6 I 3185 I 4
+s rn4.chr1 229988624 31 - 267910886 ATTAGTCTGAGCTGACTCAGAGGGCATCTCC
+q rn4.chr1 9999999999999999999999999999999
+i rn4.chr1 C 0 I 2
+s equCab1.chr31 13031898 27 + 24938454 ----GTCTAAGTTGGCTTGGATGGAATGAAC
+q equCab1.chr31 ----999999999999999999999999999
+i equCab1.chr31 I 1652 C 0
+s ponAbe2.chr6 16375330 21 - 174210431 ----------GTTGGTTTAGATGGAATAAAT
+i ponAbe2.chr6 I 3149 I 4
+s calJac1.Contig1260 46411 8 - 523245 -----------------------GAATGAAT
+i calJac1.Contig1260 I 8206 I 4
+s otoGar1.scaffold_334.1-359464 330772 21 - 359464 ----------GTTGGCTCAGGGGGAATGAAC
+q otoGar1.scaffold_334.1-359464 ----------999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 3326 C 0
+e bosTau3.chr9 13698944 2266 - 95030419 I
+e rheMac2.chr4 108475063 2856 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=158465.000000
+s mm9.chr10 3171825 74 + 129993255 ---TGTGTGGAGGGAAATGTCTGT-------------CCCTCCCAGAAAGCTTTTGTTCTGTGGGAAGAGTCGTGCCTTTCCTAAACAGG
+s rn4.chr1 229988657 74 - 267910886 ---TGTGTGGAGGGAAATGTCTGT-------------CCCACCCAAAAAGCGTTTGTTCTGTGGGAAGAGCCATGCCTTTCCCAAACAGG
+q rn4.chr1 ---999999999999999999999-------------99999999999999999999999999999999999999999999999999999
+i rn4.chr1 I 2 C 0
+s panTro2.chr6 16593321 85 - 173908612 ---TGTTTTGGGGAAAGTGTCATT--CTTCTGGGACTCCCAAGCAGAAAGCTTTTATATTGTTGGCAGCGCCGTGCCTCTCCAAAACAAG
+q panTro2.chr6 ---999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 4 I 11
+s hg18.chr6 16069842 85 - 170899992 ---TGTTTTGGGGAAAGTGTCATT--CTTTTAGGACGCCCAAGCAGAAAGCTTTTATATTGTTGGCAGTGCCGTGCCTCTCCAAAACAAG
+i hg18.chr6 I 4 I 11
+s ponAbe2.chr6 16375355 85 - 174210431 ---TGTTTTGGGGAAAGTGTCATT--CTTTTAGGACTCCCAAGCAGAAAGCTTTTATGTTGTTGGCAGCGCTGTGCCTCTCCGAAACAAG
+i ponAbe2.chr6 I 4 I 11
+s rheMac2.chr4 108477919 85 + 167655696 ---TGTTTTGGGGAAAATGTCATT--CTTTTAGGACTCCCAAGCAGAAAGCTTTTATATAGTTGGCAGCGCTGTGCCTCTCCAAAACATG
+q rheMac2.chr4 ---222333365587998976555--5887669997766899999999989999999998767878999999999999999999999983
+i rheMac2.chr4 I 2856 I 11
+s calJac1.Contig1260 46423 85 - 523245 ---TGTTTTGGGGAAGATGCCATT--CTTTTAGGGCTTGCAAGCAGAAAGCTTTTGTGTTGTTGGTAGCGCTGTGCCTCTCCAAAACAAG
+i calJac1.Contig1260 I 4 I 11
+s otoGar1.scaffold_334.1-359464 330793 86 - 359464 ---TCTTTAGGGGAAGATGTCATTTCTTTCTAGGACTCTCAAGCAGAAAACTTCTGTACTATTGGTAGGGCCA-GCCTCTTCAAAATAAG
+q otoGar1.scaffold_334.1-359464 ---9999999999999999999999999999999999789999999999999999999999999999998797-5474435369999799
+i otoGar1.scaffold_334.1-359464 C 0 I 11
+s equCab1.chr31 13031925 88 + 24938454 TGTTGGTTCTGGGGTAGTGTCATTCTT--TCAGAACTCCCAAACAGAAGGCTTTTGTTTTGTTGGTAGTGCCATGCCTCTCCAAAACAAG
+q equCab1.chr31 999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13701210 58 - 95030419 -----------------------------tctgagccacca---gggaagcccGTGTTTTGTTGGTAGTACCGTGCTTTTCTAAAATAAG
+q bosTau3.chr9 -----------------------------999999999999---9999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 2266 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 61011 2203 - 169015 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=308799.000000
+s mm9.chr10 3171899 201 + 129993255 -------------AAGAAACGGAGAT-----GATTAAAGTCACAGTATCTGT-GCATTCTCCA-------------------AGCA-----GAGGGAGGAAGGGACAGGAGGTCCT-TGGGGAAGCCTTCAGTAGCTGTTTGTTTTGCCTA--AGGACTGGT---TTGGAGGATGATGCTCAAGGTCTTCTG-GGGCTCTCCCTGGAAAAAGGATAGCC-----------------ATTATCTCGAAATCT---TCCTTTCTTTGCCACCT
+s bosTau3.chr9 13701268 255 - 95030419 AAACAGGCTGATGAAAGGATAGAGGT-----GATTGGAGTCAAAT-A-CTGTGAGCTTCCGAGCAGTGGGTAGTGGTGGTGCGGTGGGATTTGGGGAGGATGAGGTAGGAGGTCCCCTGAAAAGGATTTCAGTAGCCATTG-TTGTCTTTA--AGGTCTGGTATCCATGA---TGAATGTCAAGGCTTTTTGGGGGCTCTCAGTGGAAACAGAGTAGCCATCGAATCTGCAGTTCCTCTTTCTCAAAGCCT---CAGCTCTCTCTTTACTT
+q bosTau3.chr9 99999999999999999999999999-----99999999999999-9-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999--99999999999999999---999999999999999999999999999999999999999999999999999999999999999999999999999999---99999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13032013 240 + 24938454 AAACAGGCAAATGAAAGGGCGGAGGT-----GATTTGAGGCAAAT-ATCTGTGAGTTTTGGGGTGGGGGGTGGTGGT-----GGTAGTGTTTGGGGAGGATGGGTTGGGAGGTTCCATGAAAA-------AGTTGCTGTTG-TTTCACTTA--AGTGCTGGT---CTTGG---TAATTGTCAAGGTTCTCT-GGGGCTCTCATTGGAAACAGAGTAGCCGTCTAATCTGTGTTTCCTCTTCCTTAAAGCTT---CACCTCCCTCCTTGATT
+q equCab1.chr31 99999999999999999999999999-----99999999999999-9999999999999999999999999999999-----99999999999999999999999999999999999999999-------99999999999-999999999--999999999---99999---999999999999999999-99999999999999999999999999999999999999999999999999999999999---99999999999999999
+i equCab1.chr31 C 0 C 0
+s otoGar1.scaffold_334.1-359464 330890 220 - 359464 -------------GAAGGATGGAGGGCTTTAGGCCAAAGT------ATCTGTGAGTTCCGG-G-------------------CGTG---TTTGGGGAGGATGGGGTCGGTGGAGCCTTGGGAAAGGTTTCAGTC-CTGTTG-TTTCACTTAATAAGGACGGT---CTTGGGAATGACTGTCGGGGTTACTTGGGGGCTCTAAATGGAAGCGGAGTAGCCATCTACCCTGTGTTTCCTCTTCCCAAAAGTCC---CCCCTCTGCTGCCGCC-
+q otoGar1.scaffold_334.1-359464 -------------599999449899664968797526345------465546454624538-5-------------------6443---685689564574499854376657475272776963568556445-746662-39244757424565636356---44359565374752654983132757377714545498495784499676754969999999999999999999999999999999---9999999999999529-
+i otoGar1.scaffold_334.1-359464 I 11 C 0
+s calJac1.Contig1260 46519 196 - 523245 -------------GAGGGATGGAGAT-----GATTCAACT------ATCTCTGACTCCCAGTG-------------------GCTA---TCTGGGGAGGAAGCAGTGGGTGGGTCCATGGGAAAGGTCTCAGTAGCTGTTG-TTTCACTTA--AAGACTGCT---CTTGAGAATGGCTGTGGAGGCCATCTG----------CGGGAAACAGAGTAGCCATCTCCTCTGCTTTTCCTCTTCCGCAAAGTTT---GGCCTCC----------
+i calJac1.Contig1260 I 11 C 0
+s rheMac2.chr4 108478015 206 + 167655696 -------------GAGGGATGGAGGT-----GATTTAAGT------ATCCCTGACTCCCGGCG-------------------GGTA---TCTGGGGAGGATGCGGTGGGTGGTTCCATGGGAAAGGTCTCAGTAACTGTTG-TTTCACTTA--AAGACTGCT---CTTGGGAATGGCTGTGGAAGCCATTTGAGGGCTCTAACTGGAAACAGAGTGGCCTTCTAATCTGCTTTTCATCTTCCCCAAAGTTT---GACCTTC----------
+q rheMac2.chr4 -------------9999999999999-----999999999------99999999999999999-------------------9999---9999999999999999999999999999999999999899999999999999-999999999--999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999----------
+i rheMac2.chr4 I 11 C 0
+s ponAbe2.chr6 16375451 204 - 174210431 -------------GAGGGATGGAGGT-----GATTAAAGT------ATCTCT-ACTCCCGGCG-------------------GGTA---TCTGGGGAGGATGCGGTCGGTGGTTCCATGGGAAAGGTTTCAGTAGCTGTTGTTTTTACTTA--AAGACTACT---CTTGGGAATGGCTGTGGAGGCCATTTGATGTCTCTAACTGGAAAC--AGTGGCCATCTAATCTGCTTTTCCTCTTCCCCAAAGTTT---TGCCTCC----------
+i ponAbe2.chr6 I 11 C 0
+s hg18.chr6 16069938 203 - 170899992 -------------GAGGGATGGAGGT-----GATTAAAGT------ATCTCT-ACTCCCGGTG-------------------GGTA---TCTGGGGAGGATGCGGTCGGTGGTTCCATGGGAAAGGTTTCAGTAGCTGTTG-TTTTACTTA--AAGACTGCT---CTTGGGAATGGCTGTGGAGGCCATTTGAGGGCTCTAACTGGAAAC--AGTGGCCATCTAATCTGCTTTTCCTCTTCCCCAAAGTTT---TGCCTCC----------
+i hg18.chr6 I 11 C 0
+s panTro2.chr6 16593417 203 - 173908612 -------------GAGGGATGGAGGT-----GATTAAAGC------ATCTCT-ACTCCCAGTG-------------------GGTA---TCTGGGGAGGATGCGGTCGGTGGTTCCATGGGAAAGGTTTCAGTAGCTGTTG-TTTTACCTA--AAGACTGCT---CTTGGGAATGGCTGTGGAGGCCATTTGAGGGCTCTAACTGGAAAC--AGTGGCCATCTAATCTGCTTTTCCTTTTCCCCAAAGTTT---TGCCTCC----------
+q panTro2.chr6 -------------9999999999999-----999999999------999999-9999999999-------------------9999---9999999999999999999999999999999999999999999999999999-999999999--999999999---999999999999999999999999999999999999999999999--999999999999999999999999999999999999999---9999999----------
+i panTro2.chr6 I 11 C 0
+s cavPor2.scaffold_284118 63214 205 - 169015 -------------AAGGAACGGA-AG-----GGCTGAGGTGATTTCACCTGG-AGTTTCTGTG-------------------GGTT-----TAGGGAGGAGGGAGCAGGAGATTCC-TGAGAATGTTTTCAGGAGCTGTTGTTCCAGACCA--AGGATGGGT---CTTGA---------TTATGGCT-------GTCTCTAAATGGAAATAGGGTTGCCATCTAATCTGTTACTTTGCTTTCCCAAAGTTCCAGCCCCCTCTTTGCTGCCT
+q cavPor2.scaffold_284118 -------------5255653763-22-----331555566323599457155-2669552356-------------------6666-----4666867865888994989968998-9689996889999396788499468999788562--139989999---99597---------98938887-------99798999989996999999988896738999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 I 2203 C 0
+s rn4.chr1 229988731 189 - 267910886 -------------AAGAAACGGAGAT-----GATTAAAGTCCCATTATCTGT-GAATCTTCCA-------------------AGCA-----GAGGGAGGAAGGGACACGAG-------GGGGAAGCCTTCAGTTGCTGTTTGTCTTGCCTA--AGGACTGGT---TTTGAGAA------CCAAGGTCTTCTG-GGGCTCTCCATGGAAACAGGATAGCC-----------------GCTGTCTCCAAATCT---TCCCTTCTTGGCTACCT
+q rn4.chr1 -------------9999999999999-----999999999999999999999-9999999999-------------------9999-----99999999999999999999-------999999999999999999999999999999999--999999999---99999999------9999999999999-99999999999999999999999999-----------------999999999999999---99999999999999999
+i rn4.chr1 C 0 C 0
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-12454.000000
+s mm9.chr10 3172100 18 + 129993255 CCCA------TGTCTTTGCTTCTC
+s rn4.chr1 229988920 18 - 267910886 CTCA------TGTTCCTGATTCTT
+q rn4.chr1 9999------99999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63419 13 - 169015 CCCT------TTTTCCTG-----T
+q cavPor2.scaffold_284118 9999------99799997-----9
+i cavPor2.scaffold_284118 C 0 C 0
+s otoGar1.scaffold_334.1-359464 331110 12 - 359464 CGCA------TGCCTCTG------
+q otoGar1.scaffold_334.1-359464 9979------99799999------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s equCab1.chr31 13032253 3 + 24938454 TCC---------------------
+q equCab1.chr31 999---------------------
+i equCab1.chr31 C 0 I 25
+s bosTau3.chr9 13701523 3 - 95030419 TCC---------------------
+q bosTau3.chr9 999---------------------
+i bosTau3.chr9 C 0 I 3318
+s xenTro2.scaffold_1215 73409 18 + 128862 CCCAGCTCAGTGCCCCAA------
+i xenTro2.scaffold_1215 N 0 C 0
+e rheMac2.chr4 108478221 0 + 167655696 C
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46715 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e hg18.chr6 16070141 0 - 170899992 C
+e panTro2.chr6 16593620 0 - 173908612 C
+e ponAbe2.chr6 16375655 0 - 174210431 C
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-20200.000000
+s mm9.chr10 3172118 36 + 129993255 CCTCCCTGCTCCCTT-----------------------------CACTGTAAGCTCTTTCCCTCC
+s rn4.chr1 229988938 34 - 267910886 CCTCCCCACACTCCT-----------------------------TACCGCAAG--CTTTCTCTCT
+q rn4.chr1 999999999999999-----------------------------999999999--9999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63432 34 - 169015 GCTCTTTGTCCTCTT-----------------------------TGTTT--AGCTCTTTTTCATG
+q cavPor2.scaffold_284118 999999999999999-----------------------------99999--99999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s panTro2.chr6 16593620 14 - 173908612 -CTCTTTGCTGCCTC--------------------------------------------------
+q panTro2.chr6 -99999999999999--------------------------------------------------
+i panTro2.chr6 C 0 I 406
+s hg18.chr6 16070141 14 - 170899992 -CTCTTTGCTGCCTC--------------------------------------------------
+i hg18.chr6 C 0 I 407
+s ponAbe2.chr6 16375655 14 - 174210431 -CTCTTTGCTGCCTC--------------------------------------------------
+i ponAbe2.chr6 C 0 I 753
+s rheMac2.chr4 108478221 62 + 167655696 -CTCTTTGCTGCCTCGTGCCTGCCTGTCCTGTTTGTTTTCTCTTTGCTT--AGCTCTTTCCCTTG
+q rheMac2.chr4 -999999999999999999999999999999999999999999999999--99999999999999
+i rheMac2.chr4 C 0 I 358
+s calJac1.Contig1260 46715 14 - 523245 -CTCTCTACCTTCCC--------------------------------------------------
+i calJac1.Contig1260 C 0 I 750
+s otoGar1.scaffold_334.1-359464 331122 30 - 359464 -CTGTTTGTTTTCTC---------------------------ATTGCTT--AACTCTTTT-----
+q otoGar1.scaffold_334.1-359464 -99999999999999---------------------------9999999--999999999-----
+i otoGar1.scaffold_334.1-359464 C 0 I 69
+s equCab1.chr31 13032281 34 + 24938454 CCTGTTTGTTCTCTT-----------------------------TGGTT--AGCTCTTTTTCGCA
+q equCab1.chr31 999999999999999-----------------------------99999--99999999999999
+i equCab1.chr31 I 25 I 49
+s xenTro2.scaffold_1215 73427 22 + 128862 CTTCCCTGCTGCCAC---------------------------TCAGTCC----------------
+i xenTro2.scaffold_1215 C 0 C 0
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=618.000000
+s mm9.chr10 3172154 106 + 129993255 GGAGAGTAGCTCAGCTCAGCC---------AATCTTCCGCACTATTTCTTGAC-T------TTCCTATCACAGATGCT----CTATAGC-------------TTCCTTGAGCCCCGAACAC----AGCCCCAGACCGTGGT--CC
+s equCab1.chr31 13032364 124 + 24938454 GGAGAATAGCTCAATACATCTTTCTTCCCCACCCTTCCTCTTCCTTCCTCCAC--------------AAAAGTTTTCT----TTCAGGGAGTTCTCAATTCTTTCCCTTAGGGCAAAGCCT---GGGTCCCAGACTGTTGTGGAG
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999--------------99999999999----999999909999999999999999999999999999999---999999999999999999999
+i equCab1.chr31 I 49 C 0
+s otoGar1.scaffold_334.1-359464 331221 114 - 359464 GGAGAATAGCTCTGTAGGTCTTTCTT---GGCTCACCCCATCCTCTTCCAAAT--------------------TTTCT----TTCAGAGGTTGCCCAATTGTGTCCTTCAGGGCCCAGCCT---GGATCCTACACTCTGTGCA-G
+q otoGar1.scaffold_334.1-359464 99999999999999999999999999---999999999999999999998999--------------------99999----999999996999999999999999999999999999999---9999999999999999999-9
+i otoGar1.scaffold_334.1-359464 I 69 C 0
+s rheMac2.chr4 108478641 134 + 167655696 GGACAATAGCTCAAGAGGTC-TTTTT---AACTCATCCTTCCGTTCCCCCCATCCCCCCCATCCCCAACATGTTTTCT----GTAAGGGATCACCTAGCTGTTTCCGTAAGGGCCAAGGCT---GGGTCCTGGACTCTGGGAGTA
+q rheMac2.chr4 76876766499999999999-99999---9999999999999999987732662299999999999999999999999----999999999999999999999999999999999999999---999999999999999999999
+i rheMac2.chr4 I 358 C 0
+s panTro2.chr6 16594040 134 - 173908612 GGACAATAGCTCAAGAGGTCTTTTTT---CACTCATCCTTCCCGTCCCCACAT-CCCCCCATCCCCAACATGTTTTCT----TTAAGGGATCACCTAGTTGTTTCCATAAGGGCCAAGGCT---GGGTCCTGGACTCTGGGAGTG
+q panTro2.chr6 99999999999999999999999999---999999999999999999999999-999999999999999999999999----999999999999999999999999999999999999999---999999999999999999999
+i panTro2.chr6 I 406 C 0
+s hg18.chr6 16070562 134 - 170899992 GGACAATAGCTCAAGAGGTCTTTTTT---CACTCATCCTTCCCCTCCCCACAT-CCCCCCATCCCCAACATGTTTTCT----TTAAGGGATCACCTAGTTGTTTCCATAAGGGCCAAGGCT---GGGTCCTGGACTCTGGGAGTG
+i hg18.chr6 I 407 C 0
+s cavPor2.scaffold_284118 63466 119 - 169015 GGAGAAGAGATAGATTTGTCTGTGTT---Cactcttcctccccctcctcccac-t----------CACCATGTTTGCT----TTCTGGATTG--CCAGCTG-TTCCCTGAGATCCCAACT-----AGTCCTAGGCAATGATAGAC
+q cavPor2.scaffold_284118 99999999999999999999999999---999999999999999999999999-9----------9999999999999----9999999999--9999999-999999999999999999-----99999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229988972 92 - 267910886 GGAGAGTAGTTCAGACTATCT----------TCCTCCCTCATTCTCTCTTGAC-T------TTCCTATCACAGATGGT----CTATAGC-------------TTCTTTGAGCCCCAAACA-----------------TGGT--CC
+q rn4.chr1 999999999999999999999----------9999999999999999999999-9------99999999999999999----9999999-------------999999999999999999-----------------9999--99
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_1215 73449 104 + 128862 TCATAGCACCTCAG---------------CTCCCTCCCCACTATTTGTTCTGC-T---ATGGACCAATCACTTTTGCTCTTATTATGGA-------------CTCTGGAAAGGTCTAGGCATGGGAATGCTCATCT---------
+i xenTro2.scaffold_1215 C 0 C 0
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e ornAna1.chr2 14856825 20993 - 54797317 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46729 750 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=14612.000000
+s mm9.chr10 3172260 34 + 129993255 TGAGGAC----CCAAGGTTATTAGTACTTC---CAGACTCT
+s rn4.chr1 229989064 34 - 267910886 CGAGGAC----CCCCGGTTATTAGTACTTC---CAAACTCT
+q rn4.chr1 9999999----9999999999999999999---99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63585 34 - 169015 CCAGCTT----CCCACCTTCATGGTGTGTC---CAGATTTT
+q cavPor2.scaffold_284118 9999999----9999999999999999999---99999999
+i cavPor2.scaffold_284118 C 0 I 1
+s hg18.chr6 16070696 38 - 170899992 TGAACCCTCAGTCAGGGTTTACAATATTTC---CAAAATGT
+i hg18.chr6 C 0 I 2
+s panTro2.chr6 16594174 38 - 173908612 TGAACCCTCAGTCAGGGTTTACAATATTTC---CAAAATTT
+q panTro2.chr6 999999999999999999999999999999---99999999
+i panTro2.chr6 C 0 I 2
+s rheMac2.chr4 108478775 34 + 167655696 TGAACCC----TCAGGTTTTGCAATATTTC---CAAAATTT
+q rheMac2.chr4 9999999----9999999999999999999---99999999
+i rheMac2.chr4 C 0 I 2
+s otoGar1.scaffold_334.1-359464 331335 34 - 359464 TGAGCCC----TCAAATTTTGCAGTATTTC---CAAAATTT
+q otoGar1.scaffold_334.1-359464 9999999----9999999999999799999---97999999
+i otoGar1.scaffold_334.1-359464 C 0 I 1
+s equCab1.chr31 13032488 34 + 24938454 TGAACCC----TCCACTTTTACCGTATTTC---CCAACTTT
+q equCab1.chr31 9999999----9999999999999999999---99999999
+i equCab1.chr31 C 0 I 1
+s ornAna1.Contig4799 35819 30 - 47987 ttaggac----ccaggtctctctg-actcc---cgggc---
+i ornAna1.Contig4799 n 20993 C 0
+s xenTro2.scaffold_1215 73553 31 + 128862 TAGTGTC----CCTAGGTGGTCTGGACCTCATTCA------
+i xenTro2.scaffold_1215 C 0 N 0
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46729 750 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=41372.000000
+s mm9.chr10 3172294 49 + 129993255 CCAGTA-TAGGGCCCATGCT----GCTGT---TTCTCTGGGCCAGATGCTTC-CTTTG
+s rn4.chr1 229989098 49 - 267910886 CCAGTA-TGGCATTCGTGCT----GCTGT---TTCTCTGGGCCAGGTGCTTC-CTTTG
+q rn4.chr1 999999-9999999999999----99999---99999999999999999999-99999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63620 54 - 169015 CCAGCACTGAAGCTCCTGTTCATGTCTGT---CTCTGGAGGGCAGATgctct-ctttg
+q cavPor2.scaffold_284118 99999999999999999999999999999---99999999999999999999-99999
+i cavPor2.scaffold_284118 I 1 C 0
+s hg18.chr6 16070736 54 - 170899992 CCAGTATTGCTGCTCATGCTTGTGCGTGT---TTCTGTGGGGCAGGCGCTTC-CTTTG
+i hg18.chr6 I 2 C 0
+s panTro2.chr6 16594214 54 - 173908612 CCAGTATTGCTGCTCATGCTTGTGCGTGT---TTCTGTGGGGCAGGCGCTTC-CTTTG
+q panTro2.chr6 99999999999999999999999999999---99999999999999999999-99999
+i panTro2.chr6 I 2 C 0
+s rheMac2.chr4 108478811 54 + 167655696 CCGGTATTGCTGCTCATGCATGTGCGTGT---TTCTGTGGGGCAGGCACTTC-CTTTG
+q rheMac2.chr4 99999999999999999999999999999---99999999999999999999-99999
+i rheMac2.chr4 I 2 C 0
+s otoGar1.scaffold_334.1-359464 331370 52 - 359464 ---GTATTGTTGTTCATGCTCGTGCATGT---TTCTGTGGGGTAGGTGCTGCGCTTTC
+q otoGar1.scaffold_334.1-359464 ---99999999989979999999989999---79999799856999578994349999
+i otoGar1.scaffold_334.1-359464 I 1 C 0
+s equCab1.chr31 13032523 54 + 24938454 ACAGCATCCTTGCGTCTGCTCGCATGCGT---TTCTGTGGGGCACGTGCTTC-TTTTG
+q equCab1.chr31 99999999999999999999999999999---99999999999999999999-99999
+i equCab1.chr31 I 1 I 2914
+s ornAna1.Contig4799 35849 54 - 47987 ccgggctctatccgctagaccagcgctgc---ctctcCTGGGTTCCTTCCAC-CCCAG
+i ornAna1.Contig4799 C 0 C 0
+s xenTro2.scaffold_13738 6597 47 - 7552 CTGGTA--------CATGATCTGAGCTCTGAACTCACAGGGTGGGAGGCTGC-CGG--
+i xenTro2.scaffold_13738 N 0 C 0
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46729 750 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-15461.000000
+s mm9.chr10 3172343 39 + 129993255 -------TGT-----------ACAGTGAGGCACAAGTGAGAATATGAGCTG-GAAAGC
+s rn4.chr1 229989147 29 - 267910886 -------TGT-----------GTAGTGAGGCACAAGTCAGAA-----------AGAGC
+q rn4.chr1 -------999-----------999999999999999999999-----------99999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63674 47 - 169015 -------ttttt---atttacatgcTGAGGCACACGTCACCACCTGAGCCA-GTGAGC
+q cavPor2.scaffold_284118 -------99999---999999999999999999999999999999999999-999999
+i cavPor2.scaffold_284118 C 0 I 74
+s hg18.chr6 16070790 39 - 170899992 -------TTTTT---GTTTTTGTGGTGAAACACAAGTCCGTACATGAGC---------
+i hg18.chr6 C 0 I 82
+s panTro2.chr6 16594268 39 - 173908612 -------TTTTT---GTTTTTGTGGTGAAACACAAGTCCGTACATGAGC---------
+q panTro2.chr6 -------99999---9999999999999999999999999999999999---------
+i panTro2.chr6 C 0 I 82
+s rheMac2.chr4 108478865 48 + 167655696 -------TTTTT---GTTTGCGTGGTGAAACACAAGTCAGTACATGAGCCGAGGGAAC
+q rheMac2.chr4 -------99999---9999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s otoGar1.scaffold_334.1-359464 331422 40 - 359464 -------TTTTT---GTTTACGC-GTGAGACACAAGTCAGAACATGAGCTG-------
+q otoGar1.scaffold_334.1-359464 -------89999---63999899-999989689899999997669986779-------
+i otoGar1.scaffold_334.1-359464 C 0 I 512
+s ornAna1.Contig4799 35903 37 - 47987 ----------CG---ACCCCAGCGAGGGCCGGCTGATGAAGACGGGGGCC--------
+i ornAna1.Contig4799 C 0 C 0
+s xenTro2.scaffold_13738 6644 44 - 7552 GGTCCAATCTTCAAAAAACACATACGGAAAGGCAATCAGACACT--------------
+i xenTro2.scaffold_13738 C 0 C 0
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46729 750 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-4493.000000
+s mm9.chr10 3172382 30 + 129993255 AGGAGCC-------ACTTGATGGCCACACAGTCCAGT
+s xenTro2.scaffold_13738 6688 9 - 7552 ----------------------GGCACCCAA------
+i xenTro2.scaffold_13738 C 0 C 0
+s rn4.chr1 229989176 30 - 267910886 TGGAGCC-------ACTTGAGAGCTGCGCAGTCCAGT
+q rn4.chr1 9999999-------99999999999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108478913 34 + 167655696 --TGGCCTTTCTCTACTTACGAGCCAC-TAGTCAGGT
+q rheMac2.chr4 --9999999999999999999999999-999999999
+i rheMac2.chr4 C 0 C 0
+s ornAna1.Contig4799 35940 29 - 47987 GGGAGCC--------CCAAGGCGCCACCGTCCCGGGT
+i ornAna1.Contig4799 C 0 C 0
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46729 750 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e otoGar1.scaffold_334.1-359464 331462 512 - 359464 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-33588.000000
+s mm9.chr10 3172412 36 + 129993255 GTCTGTCCTCTGCCA-CCTTAGGCTGTGTACACACAT--------------------------
+s ornAna1.Contig4799 35969 5 - 47987 GCCTG----------------------------------------------------------
+i ornAna1.Contig4799 C 0 n 0
+s rheMac2.chr4 108478947 33 + 167655696 ATTTTGTTTCTGGAGCCCTTAGGATATACAGGT------------------------------
+q rheMac2.chr4 999999999999999999999999999999999------------------------------
+i rheMac2.chr4 C 0 I 6
+s rn4.chr1 229989206 36 - 267910886 GTCTGTCCTCTGCCA-CCGTAGGCTGTACACACACAT--------------------------
+q rn4.chr1 999999999999999-999999999999999999999--------------------------
+i rn4.chr1 C 0 I 17
+s danRer5.chr17 48109200 59 - 52310423 GTCTATACATTGC---CTATATACTGAGCGTATACATTGCCTATACATTGAGCCCATGTAT-T
+i danRer5.chr17 N 0 C 0
+s oryLat1.chr5 5118923 18 + 33792114 ------------------------------------------ACACA---AACACGGATATGA
+q oryLat1.chr5 ------------------------------------------78888---9988877899999
+i oryLat1.chr5 N 0 C 0
+s fr2.chrUn 215514594 21 + 400509343 --------------------------------tagatccct----------accgagttccct
+i fr2.chrUn N 0 C 0
+e xenTro2.scaffold_13738 6697 0 - 7552 C
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 46729 750 - 523245 I
+e tupBel1.scaffold_114895.1-498454 373773 5825 - 498454 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e otoGar1.scaffold_334.1-359464 331462 512 - 359464 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-62088.000000
+s mm9.chr10 3172448 86 + 129993255 ACATAGCCCCTGA---TTTGT--ATACACACATAGCCCCTGATCTGT------GTATACACATAGCCCCTGATCTGTGTATACACATAGTCCCTGAT
+s tupBel1.scaffold_68351.1-4652 3765 86 - 4652 ACACAGTTATTGA---CTGGT--ATACAGACACAGTTACTGACTCGT------ATACAGACACGGTTACTGACTCGTGTACAGACACGGTTACTGAC
+q tupBel1.scaffold_68351.1-4652 9999997789999---99999--999999999999997999999599------99999999999998999999999999999999989999999999
+i tupBel1.scaffold_68351.1-4652 n 5825 I 24
+s calJac1.Contig2070 70064 56 - 347402 GCACAGCCGCTTA---TTTGT--ATAGGCCCACAGCCGCTTATTTGT------ATAGGTAGACGGCC------------------------------
+i calJac1.Contig2070 n 750 n 750
+s monDom4.chr2 199796588 69 - 541556283 ----------------TTGGt--aaacacaca----tctgtgtatgt------gtatatatattacacattatacatttatatatgtcaatatcgaa
+q monDom4.chr2 ----------------99999--999999999----99999999999------99999999999999999999999999999999999999999999
+i monDom4.chr2 N 0 I 5
+s ornAna1.Contig17055 7793 88 + 12506 AGAGAGGTCTAGA---TCGATACATAGATACACATCTCCAGAGACCT------AGATCTACACAGACACCTAGCTATCCATCTACAGAGACCTAGAT
+i ornAna1.Contig17055 n 0 C 0
+s anoCar1.scaffold_680 329401 83 - 642864 ACAAAGACCCATATCTTTCAT--TCAGACCCATATCTACACAAATCA------GTACCTACACAGATCTATACCTACATACCTTCATAGAT------
+q anoCar1.scaffold_680 999999999999999999999--999999999999999999999999------99999999999999999999999999999999999999------
+i anoCar1.scaffold_680 N 0 I 7
+s xenTro2.scaffold_13738 6697 71 - 7552 ------------------TGT--GTGCCCATATACCCACTGTACCCT------GTGCCCATATACCCTCTGTACTGTGTGCCCATATACCCTCTGTA
+i xenTro2.scaffold_13738 C 0 C 0
+s danRer5.chr17 48109259 74 - 52310423 ACCTATACGTTTA---GTCTA--TACATTGCCTATATACTGAGCATATACATTGCCTATACATTGAGCCC-ATGTAT-----TAC------------
+i danRer5.chr17 C 0 C 0
+s oryLat1.chr5 5118941 66 + 33792114 ACACACATTTAGA---CACGG--ATCCCAACGTAGACACATATCCCA------ACAAAGACACGGATCCCAATGCAG--------------------
+q oryLat1.chr5 9988888667777---98776--677999999999999988999999------999899999999999999999999--------------------
+i oryLat1.chr5 C 0 C 0
+s fr2.chrUn 215514615 74 + 400509343 atctagatctcta---cttag--atccctacctagttacctatctgg------atctctacttagatccctacctagttctctat------------
+i fr2.chrUn C 0 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e otoGar1.scaffold_334.1-359464 331462 512 - 359464 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-100743.000000
+s mm9.chr10 3172534 83 + 129993255 CTGTATACACACATA---GCCCCTGA-TC-TGTATA-----CAC--------ACATAGCCCCTGATTT------GTATACC------------------------------CACATAGTCCCT-GATCTGT------ATACAGA
+s tupBel1.scaffold_68351.1-4652 3875 85 - 4652 TCGTATACAGACACG---GTTACTGACTCGTGTACA-----GAC--------ACACGGTTACTGACTC------GTATACA------------------------------GACACAGTTACT-GACTGGT------ATACAGA
+q tupBel1.scaffold_68351.1-4652 999999999999999---999999999999999999-----999--------9999999999999999------9999999------------------------------999999999999-9999999------9999999
+i tupBel1.scaffold_68351.1-4652 I 24 I 2
+s otoGar1.scaffold_119492.1-13327 469 77 + 13327 TTATCCACAGAA--------TGTCGCCTC-TGTGGG-----AAT--------GCATCTGTCCTGCACT------GGGTATT------------------------------TGCAAAATGCCC---CCTCT------GTGGGAA
+q otoGar1.scaffold_119492.1-13327 999999999999--------999999999-999999-----999--------9999999999999999------9999999------------------------------999999999999---99999------9999999
+i otoGar1.scaffold_119492.1-13327 n 512 I 2
+s monDom4.chr2 199796662 88 - 541556283 ttgaatatatacccatatgtacctaaata-tccatatttttatc--------atatatcctctg---t------ctataca------------------------------tatctattctctctctctct------atata--
+q monDom4.chr2 99999999999999999999999999999-99999999999999--------999999999999---9------9999999------------------------------99999999999999999999------99999--
+i monDom4.chr2 I 5 C 0
+s ornAna1.Contig17055 7881 91 + 12506 CTATACAGACCCCTA---GCTATCCA-TC-TATAGA-----GACCTAGATCTATACAGACCCCTAGCT------ATCCATC------------------------------TATAGAGACCTA-GATCTAT------ACATAGA
+i ornAna1.Contig17055 C 0 I 10
+s anoCar1.scaffold_680 329491 65 - 642864 TTAAACCTACACAGA---------------TCCATA-----CAT--------ACACAAATCCAGACCT------TTATACC------------------------------TACATA-------AATCCAT------ACATA--
+q anoCar1.scaffold_680 999999999999999---------------999999-----999--------9999999999999999------9999999------------------------------999999-------9999999------99999--
+i anoCar1.scaffold_680 I 7 C 0
+s xenTro2.scaffold_13738 6768 83 - 7552 CTGTGTGCCCATATA---CCCTCTGT-AC-CCTGTG-----CCC--------ATATACCCTGTGTACT------GTGTGCC------------------------------CATATACCCTCT-ATACCGT------GTGCCCA
+i xenTro2.scaffold_13738 C 0 C 0
+s danRer5.chr17 48109333 125 - 52310423 CTATACGTTTAGTCT---ATACATTG-CC-TATATA-----CTG--------AGCGTATACATTGTCTATACATTGAGCCCATGTATTACCTATACGTTTAGTCTATACATTGCCTATATACT-GAGCATATACATTGCCTATA
+i danRer5.chr17 C 0 C 0
+s oryLat1.chr5 5119007 79 + 33792114 ----------ACACA---GATCCCAA-CG-CAGACA-----CGG--------ATATGAACACACATTTAGACACGGATCCC------------------------------AACGTAGACACG-GATCCCA------ACACAGA
+q oryLat1.chr5 ----------99999---99999999-99-999999-----999--------99999999999999999999999999999------------------------------999999999999-9999999------9999999
+i oryLat1.chr5 C 0 C 0
+s fr2.chrUn 215514689 83 + 400509343 ctggatcTCTACTTG---GAGCCCTA-CC-TAGTTC-----CCA--------ATCAGGACCTCTACTT------GGATCCC------------------------------TGCCTAGTTCCC-AGTCAGG------ACCTCTA
+i fr2.chrUn C 0 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_207308 9327 0 + 43077 I
+
+a score=-151840.000000
+s mm9.chr10 3172617 121 + 129993255 CATAGCCCC----------T------GATCTGTGTACACACA-TAGTCTCTGATCTGTGTACACA------------CATAGTCCC--TGATCTGTATACAGACA-TAGCCCCTGAT--CTGTGTA--------------CACA----CATAGTCTCTGATCTGTGTACACAC
+s tupBel1.scaffold_68351.1-4652 3962 121 - 4652 CAGGGTTAC----------T------GACTCGTGTACAGACACGGTTACTGACT-CGTGTACAGA------------CACGGTTAC--TGACTCGTATACAGACACGGTTACTGACT---CGTATA--------------CAGA----CACGGTTACTGACTCGTATACAGAC
+q tupBel1.scaffold_68351.1-4652 999999999----------9------9999999999999999999999999999-9999899999------------999999999--99999999999999999999999999999---999999--------------9999----9999899969989989999999999
+i tupBel1.scaffold_68351.1-4652 I 2 C 0
+s otoGar1.scaffold_119492.1-13327 548 121 + 13327 CATCCGTCC----------T------GCACTGTGTATCCGCA-GAACGCCGCCTCCGTGGGAATG------------CATCCGTCC--TGCACTGTGTATCCGCA-GAACGCCGCCT--CCGTGGG--------------AATG----CATCCGTCCTGCACTGTGTATCCGC
+q otoGar1.scaffold_119492.1-13327 999999999----------9------9999999999999999-9999999999999999999999------------999999999--99999999999999999-79999999999--7779999--------------9999----9999999789999999999999999
+i otoGar1.scaffold_119492.1-13327 I 2 C 0
+s oryCun1.scaffold_60623 514 120 - 1599 CAGAGCACC----------T------CCTCTGTCTAAGCTCT-GAGCCCTGACCCCAGACACACC------------CTGAGTCC---TGTCCCAGACACACCCT-GAGCCCTGGTC--CCGGATA--------------CACA----CTGAGCCCTGGTCCCAGACACACAC
+q oryCun1.scaffold_60623 999999996----------9------9699999999999959-9999999999999999999999------------79999999---99999999999999959-99999999999--9999999--------------9999----9999999999899999999999996
+i oryCun1.scaffold_60623 n 0 C 0
+s monDom4.chr2 199796750 123 - 541556283 tatatCCTCTCTCTCTAGTT------AGCCTATTTATATTCT-CTATATGTATCCTACATATATA------------TTCTCTTTC--T-------ACACATATA-TATCCTCTTCT--TTATTTAG-----------CCTACT----TATAGTCTCT---CTAGATATTCC-
+q monDom4.chr2 99999999999999999999------9999999999999999-9999999999999999999999------------999999999--9-------999999999-99999999999--99999999-----------999999----9999999999---99999999999-
+i monDom4.chr2 C 0 C 0
+s ornAna1.Contig17055 7982 123 + 12506 TAGAAATCC----------A------GACCTATCCAGACACA-----------TCGATATCCATC------------TATAG------GGGTCTAGATCTATCCA-GATCCCTAGGTATCCATCTAGAGAGGTCTAGACCGATA----CATAGATACACATCTATAGACATCT
+i ornAna1.Contig17055 I 10 I 8
+s anoCar1.scaffold_680 329556 129 - 642864 CACAAATCC----------A------GACCTTCATACCTACA-TAAATCCATACCTACATGGATC------------CATACCTTCATAGATCCGGACCTATATA-AATCCATACCT--ACAGAGA------------TCCATAGCTTCATAGATCCGGACCTACATGGATCC
+q anoCar1.scaffold_680 999999999----------9------9999999999999999-9999999999999999999999------------9999999999999999999999999999-99999999999--9999999------------99999999999999999999999999999999999
+i anoCar1.scaffold_680 C 0 C 0
+s xenTro2.scaffold_13738 6851 121 - 7552 TATACCCTC----------T------ATACTGTGTGCCCACA-TACCCTCTGTACCCTGTGCCCA------------TATACCCTC--TGTACCCTGTGCCCATA-TACCCGCTGTA--CCCTGTG--------------CCCA----TATACCCTCTGTACCCTGTGCCCAT
+i xenTro2.scaffold_13738 C 0 C 0
+s danRer5.chr17 48109458 134 - 52310423 CATTGAGCC----------CATGTATTACCTATACGTTTAGT-CTATACATTGCTTATATACTGAGCGTATACATTGTCTATACAT--TGAGCCCATGTATTACC-TATACGTTTAG--TCT-------------------ATA----CATTGCCTATATACTGAGCATATAC
+i danRer5.chr17 C 0 C 0
+s oryLat1.chr5 5119086 121 + 33792114 CACGGATCC----------C------AACGCAGACACGGATA-CGAACACACATTTAGACACGGA------------TTCCAACGT--AGACACGGATCCCTACA-CAGACACAGAT--CCCAATG--------------CAGA----CACAGATCCCAACGCAGACACGGAT
+q oryLat1.chr5 999999999----------9------9999999999999999-9999999999999999999999------------999999999--99999999999999999-99999999999--9999999--------------9999----9999999999999999999999999
+i oryLat1.chr5 C 0 C 0
+s fr2.chrUn 215514772 109 + 400509343 CTTGGATCC----------C------TACCTAGTTCTCTATC-AGGACCTCTACTT------GGA------------TCCCTGCCT--AGTTCCCAATCAGGACC-TCTACTTGGAT--CCC--------------------TG----CCTAGTTCCCAATCAGGACCTCTAC
+i fr2.chrUn C 0 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e echTel1.scaffold_324002 7684 22472 + 49972 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+
+a score=-113675.000000
+s mm9.chr10 3172738 49 + 129993255 A-TAGCCCCTGATCTG--------TGTATACACATAGTCCCTGATCTGTATACACACA------------------
+s oryCun1.scaffold_60623 634 49 - 1599 T-GAGCCCTGATCCTA--------GACACACCCTGAGCCCTGGTCCTGGATACACACT------------------
+q oryCun1.scaffold_60623 9-99999999999999--------9999999959999999999999699999999999------------------
+i oryCun1.scaffold_60623 C 0 n 0
+s otoGar1.scaffold_119492.1-13327 669 49 + 13327 A-GAACGCCGCCTCCG--------TGGGAATGCATCCGTCCTGCACTGCTTATCCGCA------------------
+q otoGar1.scaffold_119492.1-13327 9-99978999999757--------9999999999999978789999997999999769------------------
+i otoGar1.scaffold_119492.1-13327 C 0 C 0
+s tupBel1.scaffold_68351.1-4652 4083 49 - 4652 ACGGTTACTGACT-CG--------TGTACAGACACGGTTACTGACTCGTGTACAGACA------------------
+q tupBel1.scaffold_68351.1-4652 9999999999999-99--------9999999999999999999999999999999999------------------
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s echTel1.scaffold_271365 842 49 - 5697 a-caactcctgttcta--------tgtctacatctaTATCCTGTTCTATGTCTACATC------------------
+q echTel1.scaffold_271365 9-99999999999999--------9999999999999999999999999999999999------------------
+i echTel1.scaffold_271365 n 22472 I 2
+s dasNov1.scaffold_6963 36999 34 + 89888 ------------------------TGTACACAGAAAGCCCCGAACTCACCTGTACACA------------------
+q dasNov1.scaffold_6963 ------------------------9999979989999999969999767999955666------------------
+i dasNov1.scaffold_6963 N 0 I 2
+s monDom4.chr2 199796873 43 - 541556283 ---ATATATTCTTCTC--------TCTACATATATATCTCTT---CTATATTTAGGC-------------------
+q monDom4.chr2 ---9999999999999--------999999999999999999---999999999999-------------------
+i monDom4.chr2 C 0 C 0
+s ornAna1.Contig17055 8113 41 + 12506 -ACAGACCCCTAGCTA--------TCCATCTATAGAGACCTAGATCTACA--------------------------
+i ornAna1.Contig17055 I 8 I 1
+s anoCar1.scaffold_680 329685 57 - 642864 -ATACCTTCATACCTACATGGATCCATACCTACACGGATCGATACCTTCATACCTACA------------------
+q anoCar1.scaffold_680 -999999999999999999999999999999999999999999999999999999999------------------
+i anoCar1.scaffold_680 C 0 C 0
+s xenTro2.scaffold_13738 6972 49 - 7552 -ATACCCTCTATACTG--------TGTGCCCATATACCCTCTATACCGTGTGCCCATA------------------
+i xenTro2.scaffold_13738 C 0 C 0
+s danRer5.chr17 48109592 54 - 52310423 -------------ATT--------G-CCTATACATTGAGCCCATGTATTACCTATACGTTTAGTCTATACATTGCC
+i danRer5.chr17 C 0 C 0
+s oryLat1.chr5 5119207 49 + 33792114 -------------ATG--------AACACACATTTAGACACGGATCCCAACGTAGACACGGATCC------CTACA
+q oryLat1.chr5 -------------999--------99999999999999999999999999999999999999999------99999
+i oryLat1.chr5 C 0 C 0
+s fr2.chrUn 215514881 49 + 400509343 -------------TTG--------GATCCCTACCTAGTTCCCAATCAGGACCTCTACTTGGATCC------CTGCC
+i fr2.chrUn C 0 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+
+a score=-238771.000000
+s mm9.chr10 3172787 139 + 129993255 TAGTCC-----------------CTGA-TC-TGTATACA------------------------CACAT--AGC-CCCTGATTTGTATACACACATAGTCCCTGATCTGTATATACACATAGTCC-----CTGATCTGTGTACACACAT--AGTCTCTGATCT--GTGTACACACATAGTC------CCTGATCTGTATAC
+s otoGar1.scaffold_119492.1-13327 718 139 + 13327 -GAATG-----------------CTGCCTC-TGTGGGAA------------------------TGCAT--CCG-TCCTGCACTGGGTATTTGCAAAATGCCCCCTCTGTGGGAATGCATCCGTC-----CTGCAATGGGTATCCACA---GAATGCCGCCTC-TGTGGGAATGCATCCGT------CCTGCACTGTTTAT
+q otoGar1.scaffold_119492.1-13327 -99977-----------------5797999-99999796------------------------56799--999-99999799997699976559999965988889996994967557899878-----889567799885468498---987687867768-89889596655575874------58673567838668
+i otoGar1.scaffold_119492.1-13327 C 0 C 0
+s tupBel1.scaffold_68351.1-4652 4132 141 - 4652 CGGTTA-----------------CTGACTCGTGTACAGA------------------------CACAC--GGT-TACTGACTCGTATACAGACACGGTTACTGACTCGTATACAGACACGGTTA-----CTGACTCGTGTACAGACAC--GGTTACTGACTC--GTATACAGACACGGTT------ACTGACTCGTATAC
+q tupBel1.scaffold_68351.1-4652 999999-----------------9799999999999999------------------------99999--999-99999999999999999999999999999999999999999999999999-----8999999999899999999--999999999998--9999999999999999------99999799999999
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s echTel1.scaffold_271365 893 140 - 5697 -TATCCGATT-------------CTATGCC-TACATCTA------------------------TATCC--GGT-TCTATGTCTACATCTATATCCGGTTCTGTGTCTACATGTATATCCGGTTCTATGTCTACATCATCTATATCCTG------------TTCTATGTCTACAATGATAT------CCTGTTCTGTGTCT
+q echTel1.scaffold_271365 -999999999-------------9999999-99999999------------------------99999--999-99999999999999999999999999999999999999999999999999999999999999999999999999------------99999999999989999999------99999999999999
+i echTel1.scaffold_271365 I 2 C 0
+s dasNov1.scaffold_6963 37035 145 + 89888 -GAGCC-----------------CCAAACT-CACCTGTA------------------------CACACAGAGT-CCCTAACTCACCTATACACAGAGCCCCTAACTCACCTGCACACAGAGCCC-----CTAACTCACCTGTACACAGAAAGCCCCAAACTCACCTGTACACAGAGAGCC------CCTAACTCACCTAT
+q dasNov1.scaffold_6963 -99999-----------------9656999-96999999------------------------9698989999-99999999958999997599999999999999977999969799999998-----979999979999999777999999999999999667899975979999988------88899997578999
+i dasNov1.scaffold_6963 I 2 C 0
+s monDom4.chr2 199796916 138 - 541556283 -TATTT-----------------TATTCTC-TATATGTA------------------------TCCTC--TATATCTCTCTCTCTATATATATTCTTCTCTATTTCTACATATATATATCCTCT-----CTCTTTAGCCTACTTATAT------TCTCTCTCCTATGTACATATATTCTT------TCCTCTTTCTATAC
+q monDom4.chr2 -99999-----------------9999999-99999999------------------------99999--999999999999999999999999999999999999999999999999999999-----9999999999999999999------99999999999999999999999999------99999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.Contig17055 8155 150 + 12506 AGACCC-----------------CTAGCTA-TCCATCTATAGAGATCTA----------GATCTATCC--AGA-CCCCTAGCTATCCTTCTATAGAGATCTAGATCTATACATAGACACACACC-----TATAGAGATCTAGACCTAT------CCAGACAC--CTAGATATCCATCTAT------AGAGAGCTAGATCT
+i ornAna1.Contig17055 I 1 C 0
+s anoCar1.scaffold_680 329742 123 - 642864 ------------------------TAAATC-CAGACCTA------------------------CATGT--A---TCCATACCTTCATACCTACATAAATCCAGACCTACATGTATCCATACCTA-----C--ATAGATCCAGACCTAC------ACGAATCC----ATACCTACATAGAT------CCAGACCTACACGA
+q anoCar1.scaffold_680 ------------------------999999-99999999------------------------99999--9---99999999999999999999999999999999999999999999999999-----9--9999999999999999------99999999----99999999999999------99999999999999
+i anoCar1.scaffold_680 C 0 C 0
+s xenTro2.scaffold_13738 7021 139 - 7552 -TACCC-----------------TCTGTAC-CCTGTGCC------------------------CATAT--ACC-CTCTATACTGTGTGCCCATATACCCTCTGTACCCTGTGCCCATATACCCT-----CTATACTGTGTGCCCATAT--ACCCTCTATACC--GTGTGCCCATATACCC------TCTATACTGTGTGC
+i xenTro2.scaffold_13738 C 0 C 0
+s danRer5.chr17 48109646 175 - 52310423 ------TATATACTAAGCGTATACATAGCC-TACACATT----GAGCCCATGCATTACCTATATGTTT--AGT-CTATACATTGCCTATATACTGAGCGTATACATTGCCTATACATTGAGCCC-----ATGCATTACCTATACGTTT--AT--TCTATACA--TTGCCTATATACTGAGTGtatacattgcctatacat
+i danRer5.chr17 C 0 I 108
+s oryLat1.chr5 5119256 103 + 33792114 ------CAGACACAGAT------CCCAATG-CAGACACA----GATCCC--------------AACGC--AGA-CACGGATATGAACACACATTTAG----------------ACACGGATCCC-----------AACGTAG------------------------------ACACGGAT------CCCTACACAGACAC
+q oryLat1.chr5 ------99999999999------9999999-99999999----999999--------------99999--999-99999999999999999999999----------------99999999999-----------9999999------------------------------99999999------99999999999999
+i oryLat1.chr5 C 0 I 12
+s fr2.chrUn 215514930 115 + 400509343 ------TAGTTCCCAGT------CAGGACC-TCTACTTG----GATCCC--------------TGCCT--AGT-TCCCAGTCAGGACCTCTACTTA----------------------GATCCC-----------TACCTAGTTCTCT--AT--------CA--GGACCTCTACTTGGAT------CCCTGCCTAGTTCC
+i fr2.chrUn C 0 I 12
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-163237.000000
+s mm9.chr10 3172926 102 + 129993255 AGACATAGCCCC------TGATCT-GTGTACACACATAGTCTCTG--------ATCTG--TGTACAC------------------------ACATAGCCCCTGATCTGTGTACACACATAGCCCCTGTTCTGTGTACACAC------AT
+s otoGar1.scaffold_119492.1-13327 857 102 + 13327 CCACAGAA-TGC------TGCCTCTGTGGGAATGCAT-----CCG----------TCC--TGCACTG---------------GGTATTT--GCAAAATGCCCTCTCTGTGGGAATGCATCCGTCCTATACTGGGTATCCAC------AG
+q otoGar1.scaffold_119492.1-13327 56478795-454------5435557768538853346-----465----------656--4425555---------------7556545--33366556253165555457466543455444565624457743644635------44
+i otoGar1.scaffold_119492.1-13327 C 0 C 0
+s tupBel1.scaffold_68351.1-4652 4273 126 - 4652 AGACAGGGTTAC------TGACTC-GTGTACAGACATGGTTACTG--------ACTCT--TGTACAGACACGGTTACTGACTGGTATACAGACAGGGTTACTGACTCGTGTACAGACACGGTTACTGACTCGTGTACAGAC------AG
+q tupBel1.scaffold_68351.1-4652 999999999999------999999-97999999999999999999--------99999--899999999999999999999999999999999999999999999999999999999999999999999999999999999------99
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s echTel1.scaffold_271365 1033 78 - 5697 A----------------------C-ATCTATATCCGG---TTCTA---------------TGTATAC------------------------ATCTATATCCTGTTCTATGTACACATCTATATCCTGTTCTATGTATTTAT------AT
+q echTel1.scaffold_271365 9----------------------9-999999999999---99999---------------9999999------------------------89999999999999999999999999999999999999999999999999------99
+i echTel1.scaffold_271365 C 0 n 0
+s dasNov1.scaffold_6963 37180 102 + 89888 A--CAGAGCCCC------TAACTC-ACCTGCACACAGAGCCCCTA--------ACTCACCTGTACAC------------------------ACAGAGCCCCTAACTCACCTGTACACAGAGCCCCTAACTCACCTGTACAC------AC
+q dasNov1.scaffold_6963 9--958997889------999797-69889988899999797789--------96977799998989------------------------99899999989997786799999987799999988996789978999999------94
+i dasNov1.scaffold_6963 C 0 I 2
+s monDom4.chr2 199797054 76 - 541556283 ATAAATGTCCTCCTTATTTAGCCT-ATTTATATTC-------------------------TCTACAC------------------------ATCT-----------------CATATATATCATCTCTCTAGtatatatat------at
+q monDom4.chr2 999999999999999999999999-9999999999-------------------------9999999------------------------9999-----------------99999999999999999999999999999------99
+i monDom4.chr2 C 0 C 0
+s ornAna1.Contig17055 8305 92 + 12506 ATGCAGACCCCT--------AGCT-ATCCATCTACAGAGGTCTAG--------ATCTA--TCCAGGC------------------------ACCTAGATATCCATCT--------ATAGAGATCTAGATCTATACATAGAT------AC
+i ornAna1.Contig17055 C 0 I 2
+s anoCar1.scaffold_680 329865 110 - 642864 ATCCATACCTTC------ATACCT-ACATAGATCCAGACCTACAGAGATCCATACCTT--CATACCT------------------------ACATAGATCCATACCTACACGTATCCATACCTTCATACCATCAGATTCAA------AC
+q anoCar1.scaffold_680 999999999999------999999-999999999999999999999999998799999--9999999------------------------99999999999999999999999999999999999999999999999999------99
+i anoCar1.scaffold_680 C 0 I 6
+s xenTro2.scaffold_13738 7160 101 - 7552 CCATATACCCTC------TATACT-GTGTGCCCATATACCCACTA--------TACTG--TGTGCCC------------------------ATATACCCTCTATACTGTGTGCCCATATACCCTCTATACTGTGTGC-CAT------AT
+i xenTro2.scaffold_13738 C 0 C 0
+s fr2.chrUn 215515057 102 + 400509343 CTACTTGGATCC----------CT-GCCTAGTTCCCAATCAGGAC--------CTCTA--CTT------------------GGATCCCT--ACCTAGTTCCCAATCAGGACCTCTACTTGGATCCCTGCCTAGTTCCCAGT------CA
+i fr2.chrUn I 12 C 0
+s oryLat1.chr5 5119371 108 + 33792114 AGACACAGATCC----------CA-ACGCAGACACGGATATGAAC--------ACACA--TTTAGAC------------ACGGATCCCA--ACGTAGACACGGATCCCTACACAGACACAGATCCCAATGCAGACACAGAT------CC
+q oryLat1.chr5 999999999999----------99-99999999999999999999--------99999--9999999------------9999999999--99999999999999999999999999999999999999999999999999------99
+i oryLat1.chr5 I 12 C 0
+s danRer5.chr17 48109929 101 - 52310423 atacat-----------------t-gcctatatactgagcatata--------cattg--cttatac------------aCTGAGCGC---ATATATT-----ACCTATACGTTTAGTCTATACATTGCCTATTTACTGAGCGTATACA
+i danRer5.chr17 I 108 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-52049.000000
+s mm9.chr10 3173028 60 + 129993255 AGCCCCTGATCTGTATACA------CACATAGCCCCTGATCTGTATACACACA-TAGCCCCTGATCT
+s otoGar1.scaffold_119492.1-13327 959 60 + 13327 AATGTCGCCTCTGTGGGAA------TGCATCTGTCCTGCACTGTTTATCCGCA-GAATGCCCCCTCT
+q otoGar1.scaffold_119492.1-13327 7635343224455547734------6432554564456344552544545333-4253323423135
+i otoGar1.scaffold_119492.1-13327 C 0 C 0
+s tupBel1.scaffold_68351.1-4652 4399 61 - 4652 GGTTACTGACTGGTATACA------GACAGGGTTACTGACTCGTGTACAGACACGGTTACTGACTCT
+q tupBel1.scaffold_68351.1-4652 9999999999999999999------999999999999999999999999999999999999999999
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s dasNov1.scaffold_6963 37284 60 + 89888 AGCCCCTAACTCACCTATA------CACAGAGCCCCTAACTCACCTGCACACA-GAGCCCCTAACTC
+q dasNov1.scaffold_6963 9979979996879998998------9733999999899989424369999976-9998887999799
+i dasNov1.scaffold_6963 I 2 C 0
+s monDom4.chr2 199797130 57 - 541556283 atgtatacatatatataca------catatatatTCtg---tgtgtgtgtgtg-tgagtgtgtatgt
+q monDom4.chr2 9999999999999999999------9999999999999---999999999999-9999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.Contig17055 8399 60 + 12506 ACCTATAGAGATCTAGACC------TATCCAGACCCCTAGCTATCCATCTATA-GAGACCTAGATCT
+i ornAna1.Contig17055 I 2 C 0
+s anoCar1.scaffold_680 329981 60 - 642864 GAATCCATACCTTCATACC------TACATAGATCCATACCTACACGTATCCA-TACCTTCAAACCA
+q anoCar1.scaffold_680 9999999999999999999------9999999999999999999999999999-9999999999999
+i anoCar1.scaffold_680 I 6 C 0
+s xenTro2.scaffold_13738 7261 60 - 7552 ACCCTCTATACTGTGTGCC------CATATACCCTCTATACTGTGTGCCCATA-TACCCAATGTACT
+i xenTro2.scaffold_13738 C 0 C 0
+s fr2.chrUn 215515159 60 + 400509343 GGACCTCTACTTGGATCCC------TGCCTAGTTCCCAGTCAGGACCTCTACT-TGGATCCCTGCCT
+i fr2.chrUn C 0 N 0
+s oryLat1.chr5 5119479 59 + 33792114 CAATGCAGACACGGATCCC------AACGCAGACACGGATATGAACACACATT-TAGACACGGATC-
+q oryLat1.chr5 9999987778899999999------9999999998999999999999999989-899999999999-
+i oryLat1.chr5 C 0 I 5
+s danRer5.chr17 48110030 50 - 52310423 TAGCCTACACATTGAGCCCATGCATTACCTATAC---GTTTAGTCTATACATT--------------
+i danRer5.chr17 C 0 I 2
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-38265.000000
+s mm9.chr10 3173088 30 + 129993255 GT--ATACACACATAGCCCTTGGTCTGTATAT----------
+s otoGar1.scaffold_119492.1-13327 1019 2 + 13327 GT----------------------------------------
+q otoGar1.scaffold_119492.1-13327 54----------------------------------------
+i otoGar1.scaffold_119492.1-13327 C 0 n 0
+s tupBel1.scaffold_68351.1-4652 4460 29 - 4652 T---GTACAGACACGGTTACTGACTGGTATAC----------
+q tupBel1.scaffold_68351.1-4652 9---9999999999999999999999999999----------
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s dasNov1.scaffold_6963 37344 32 + 89888 ACCTGTACACACAGAGCCCCTAACTCACCTGT----------
+q dasNov1.scaffold_6963 99989999999999899999999999999999----------
+i dasNov1.scaffold_6963 C 0 C 0
+s monDom4.chr2 199797187 30 - 541556283 gt--gtgtgtgtgtATCCTCTGGGATGCTTAT----------
+q monDom4.chr2 99--9999999999999999999999999999----------
+i monDom4.chr2 C 0 N 0
+s ornAna1.Contig17055 8459 30 + 12506 AT--CCAGACCCCTAGCTATCCCTCTATAGAG----------
+i ornAna1.Contig17055 C 0 C 0
+s anoCar1.scaffold_680 330041 30 - 642864 TC--ATAGATTCAAACCTACATGAATCCATAC----------
+q anoCar1.scaffold_680 99--9999999999999999999999999999----------
+i anoCar1.scaffold_680 C 0 I 8
+s xenTro2.scaffold_13738 7321 30 - 7552 GT--GTGCCCATATACCCAATGTACTGTGTGC----------
+i xenTro2.scaffold_13738 C 0 C 0
+s oryLat1.chr5 5119543 38 + 33792114 ----GTAGACACGGATCCCTACACAGACACAGATCCCAATGC
+q oryLat1.chr5 ----89876668899999998888889998878899999999
+i oryLat1.chr5 I 5 C 0
+s danRer5.chr17 48110082 28 - 52310423 ----CTATATACTGA-----GCGTATACATTG---CCTAT--
+i danRer5.chr17 I 2 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-75055.000000
+s mm9.chr10 3173118 99 + 129993255 --ACACATAGCCCCTAATCTG--TATACACACATAGCCCCAG-ATCTGTATACATACAT-----AGC-----CCTTGGTTTGTACACA---CACATA-----------------------GGCCTG----TATACACACAT--AAC
+s tupBel1.scaffold_68351.1-4652 4489 105 - 4652 --AGACAGGGTTACTGACTCG--TGTACAGACACGGTTACTG-ACTCGTGTACAGACAG-----GGT-----TACTGACTCGTGTACA---GACACGGTT------------ACT-----GACTCG----TATACAGACAC--GGT
+q tupBel1.scaffold_68351.1-4652 --9999999999999999999--8999999999999999999-9999979999999999-----999-----9999999999799999---999999999------------999-----999999----99999999999--999
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s dasNov1.scaffold_6963 37376 106 + 89888 --ACACAGAACCCCTAACTCACCTGTACACACAGAGCCCCTA-ACTCACCTGTACACAG-----AGC-----CCCTAACTCACCTGTA---CACAGAGCC---------CCAACT-----CACCTG----TACACAGAGC------
+q dasNov1.scaffold_6963 --9999999999999999999998999999999999999999-9999999689999999-----999-----9999999999999999---967999999---------999999-----999999----9999999999------
+i dasNov1.scaffold_6963 C 0 C 0
+s ornAna1.Contig17055 8489 105 + 12506 ----------------ACCTA--TATCTATCCAGACCCCTAG---CTATCCATCTATAG-----AGA-----CCTAGATCTACACACA---CCCCTAGCT-------ATCCATCTATAGAGACCTAGATCTATCCAGACCCCTAGC
+i ornAna1.Contig17055 C 0 C 0
+s anoCar1.scaffold_680 330079 105 - 642864 --CTACATAGATCCAGACCTA--CAGAGATCCATACCTTCAA-ACCTACATAAATCCAG-----ACC---TACATGGATCCATACCTT---CATAGAGCC----------AGACC-----TACATG----GATCCATAAC------
+q anoCar1.scaffold_680 --9999999999999999999--9999999999999999999-9999999999999999-----999---999999999999999999---999999999----------99999-----999999----9999999999------
+i anoCar1.scaffold_680 I 8 C 0
+s xenTro2.scaffold_13738 7351 72 - 7552 --CCATATACCCACTATACTG--TGTGT-CATATACCCTCTATACCCTCTCATATAC---------------CCACAATTTACCCATA---TACC---------------------------------------------------
+i xenTro2.scaffold_13738 C 0 C 0
+s oryLat1.chr5 5119581 110 + 33792114 AGACACAGATCCCA------A--CGCAGACACGGATCCCA-------ACGCAGACACGGATCCCAACGCAGACACGGATCCCAATGCA---GACAAGATCCCAACGCAGACGCGG-----ATCCCA-----ACACAGA--------
+q oryLat1.chr5 98988777787888------8--98664446899999998-------89877756566887788899887777788877443447665---666456777777776652211123-----666677-----8899977--------
+i oryLat1.chr5 C 0 C 0
+s danRer5.chr17 48110110 116 - 52310423 --ACATTGAGCCCATGCATTA--CCTATACGTTTAGTCTATA-CATTGCCTATATACTG-----AGCGTATACATTG---CCTATACATTGAACACATGCATTACCTATACGTTT-----AGCCTA----TACATTGC--------
+i danRer5.chr17 C 0 C 0
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78237882 3036 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig2070 70120 750 - 347402 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e otoGar1.scaffold_119492.1-13327 1021 0 + 13327 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-16787.000000
+s mm9.chr10 3173217 24 + 129993255 CCCTGATCTGTATGCACACAGAGC
+s calJac1.Contig1260 47479 21 - 523245 CCCTGA---GGATACACAGGTACA
+i calJac1.Contig1260 I 750 C 0
+s canFam2.chr1 78240918 18 - 125616256 ------TCAGGATACACAGGTAGG
+q canFam2.chr1 ------999999999999999999
+i canFam2.chr1 I 3036 C 0
+s dasNov1.scaffold_6963 37482 24 + 89888 CCCTAACTCACCTGTACACAGAGC
+q dasNov1.scaffold_6963 999999999999999999999999
+i dasNov1.scaffold_6963 C 0 N 0
+s ornAna1.Contig17055 8594 16 + 12506 --------TATCCATCTATAGAGA
+i ornAna1.Contig17055 C 0 C 0
+s anoCar1.scaffold_680 330184 16 - 642864 --------TTCATACCTACATAAA
+q anoCar1.scaffold_680 --------9999999999999999
+i anoCar1.scaffold_680 C 0 I 18
+s xenTro2.scaffold_13738 7423 22 - 7552 --CAGTGCAATGTGTGCGACTGTG
+i xenTro2.scaffold_13738 C 0 C 0
+s oryLat1.chr5 5119691 23 + 33792114 CACGGATCCCAATGCAGACACAG-
+q oryLat1.chr5 66633443568998877766565-
+i oryLat1.chr5 C 0 N 0
+s danRer5.chr17 48110226 13 - 52310423 C-----------TATATACTGAGC
+i danRer5.chr17 C 0 I 736
+e rn4.chr1 229989242 17 - 267910886 I
+e bosTau3.chr9 13701526 3318 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108478980 6 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4594 0 - 4652 C
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 63721 74 - 169015 I
+e otoGar1.scaffold_119492.1-13327 1021 0 + 13327 I
+e hg18.chr6 16070829 82 - 170899992 I
+e panTro2.chr6 16594307 82 - 173908612 I
+e ponAbe2.chr6 16375669 753 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-10452.000000
+s mm9.chr10 3173241 37 + 129993255 CCTTGATCTATGTTGACAGCCGCTTAACA-CTTCCTCT
+s calJac1.Contig1260 47500 36 - 523245 TGTTGACCTGTGC-GACAACTATTTGACA-TTTTCTCT
+i calJac1.Contig1260 C 0 C 0
+s bosTau3.chr9 13704844 35 - 95030419 --TTGCCCTGTACTGACAGCTGCTTCTCA-TTTTCCCC
+q bosTau3.chr9 --999999999999999999999999999-99999999
+i bosTau3.chr9 I 3318 C 0
+s canFam2.chr1 78240936 35 - 125616256 TGTCGACGTGTACTGACAGCTGTGTTTTC-TCTTCC--
+q canFam2.chr1 99999999999999999999999999999-999999--
+i canFam2.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63795 36 - 169015 --TTGACCTGGGCTGACAGCTGCTTGtcatcttctttt
+q cavPor2.scaffold_284118 --998999669996799999889767982677966999
+i cavPor2.scaffold_284118 I 74 C 0
+s hg18.chr6 16070911 34 - 170899992 ---TGACCTGTGCTGACAACTACTTGACA-TTTTCTCT
+i hg18.chr6 I 82 C 0
+s panTro2.chr6 16594389 34 - 173908612 ---TGACCTGTGCTGACAACTACTTGACA-TTTTCTCT
+q panTro2.chr6 ---99999999999999999999999999-99999999
+i panTro2.chr6 I 82 C 0
+s ponAbe2.chr6 16376422 34 - 174210431 ---TGACCTGTGCTGACAACTACTTGACA-TTTTCTCT
+i ponAbe2.chr6 I 753 C 0
+s rheMac2.chr4 108478986 32 + 167655696 ---TGACCTGTGGTGACAACTACTTGACA---TTCTCT
+q rheMac2.chr4 ---99999999999999999999999999---999999
+i rheMac2.chr4 I 6 C 0
+s tupBel1.scaffold_68351.1-4652 4594 28 - 4652 TACTGACTCGTATGCA---------GACA-CGGTTACT
+q tupBel1.scaffold_68351.1-4652 9998999999983348---------4999-99999995
+i tupBel1.scaffold_68351.1-4652 C 0 C 0
+s ornAna1.Contig17055 8610 33 + 12506 CCTAGATCTATCCAGACCCCTAGCTATCC-ATCT----
+i ornAna1.Contig17055 C 0 n 0
+s xenTro2.scaffold_13738 7445 33 - 7552 CCC----CCATACCCACTGTGCCTCCATA-CTCACTGT
+i xenTro2.scaffold_13738 C 0 I 1
+s danRer5.chr17 48110975 37 - 52310423 cactcatttacattcatacactatggaca-atttagcc
+i danRer5.chr17 I 736 C 0
+s anoCar1.scaffold_680 330218 22 - 642864 ------CATACATTCATAGATCCAGACC----------
+q anoCar1.scaffold_680 ------9999999999999999999999----------
+i anoCar1.scaffold_680 I 18 C 0
+s rn4.chr1 229989259 15 - 267910886 ----------------------CTTACCA-CTTCTTCC
+q rn4.chr1 ----------------------9999999-99999999
+i rn4.chr1 I 17 C 0
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e otoGar1.scaffold_119492.1-13327 1021 0 + 13327 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-69782.000000
+s mm9.chr10 3173278 15 + 129993255 TGCTT-------------------ATAG--CCACA------C
+s calJac1.Contig1260 47536 22 - 523245 TTTT--------------------GCAGTGCTGTTTCTCTCT
+i calJac1.Contig1260 C 0 I 4
+s bosTau3.chr9 13704879 36 - 95030419 TTCTCTTTCTTTCTCTTTGTTTTTGTTGTATTTAC------T
+q bosTau3.chr9 99999999999999999999999999999999999------9
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78240971 12 - 125616256 ------------------------GTGGAGTGTTG------T
+q canFam2.chr1 ------------------------99999999999------9
+i canFam2.chr1 C 0 C 0
+s cavPor2.scaffold_284118 63831 22 - 169015 tatttttttg--------------gtagtaTTGTT------G
+q cavPor2.scaffold_284118 9647778625--------------76445532553------5
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229989274 15 - 267910886 CGCTC-------------------GTAG--CCATG------A
+q rn4.chr1 99999-------------------9999--99999------9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16070945 16 - 170899992 TTCT--------------------GTAGTACTGTT------T
+i hg18.chr6 C 0 I 4
+s panTro2.chr6 16594423 16 - 173908612 TTCT--------------------GTAGTACTGTT------T
+q panTro2.chr6 9999--------------------99999999999------9
+i panTro2.chr6 C 0 I 4
+s ponAbe2.chr6 16376456 16 - 174210431 TTCT--------------------GTAGTACTGTT------T
+i ponAbe2.chr6 C 0 I 4
+s rheMac2.chr4 108479018 16 + 167655696 TTCT--------------------CTAGTACTGTT------T
+q rheMac2.chr4 9999--------------------99999999999------9
+i rheMac2.chr4 C 0 I 4
+s tupBel1.scaffold_68351.1-4652 4622 16 - 4652 GACT--------------------CGTGTATAGAC------A
+q tupBel1.scaffold_68351.1-4652 7999--------------------99679989945------6
+i tupBel1.scaffold_68351.1-4652 C 0 n 0
+s anoCar1.scaffold_680 330240 15 - 642864 ---------------------TACACAAATCCATA------C
+q anoCar1.scaffold_680 ---------------------99999999999999------9
+i anoCar1.scaffold_680 C 0 C 0
+s xenTro2.scaffold_13738 7479 18 - 7552 -------------CCCCCATACCCACTGTGC-----------
+i xenTro2.scaffold_13738 I 1 N 0
+s danRer5.chr17 48111012 14 - 52310423 ---------------------tacccaattcacct-------
+i danRer5.chr17 C 0 C 0
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e otoGar1.scaffold_119492.1-13327 1021 0 + 13327 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=99740.000000
+s mm9.chr10 3173293 43 + 129993255 CTCCCTGCCTTTGTTTTGATCTGAGATGGTAAT---GGCATAAGGA
+s cavPor2.scaffold_284118 63853 43 - 169015 TTTTCTGTCATTGTGTTTACCTAGGCTGCTAGG---GACACACAGA
+q cavPor2.scaffold_284118 688753666642746494572545665555558---6656655555
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229989289 43 - 267910886 GTCTCTGCCTTTGTTTTGCTCTGAGATGGTAAT---GGCATACAGA
+q rn4.chr1 999999999999999999999999999999999---9999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16070965 43 - 170899992 CTCCCTGCTTTTGTCTATTTCTGAAATGTGAAT---GGCACACAGA
+i hg18.chr6 I 4 C 0
+s panTro2.chr6 16594443 43 - 173908612 CTCCCTGCTTTTGTCTATTTCTGAAATGTGAAT---GGCACACAGA
+q panTro2.chr6 999999999999999999999999999999999---9999999999
+i panTro2.chr6 I 4 C 0
+s ponAbe2.chr6 16376476 43 - 174210431 CTCCCTGCTTTTGTCTATTTCTGAAATGTGAAT---GGCACACAGA
+i ponAbe2.chr6 I 4 C 0
+s rheMac2.chr4 108479038 43 + 167655696 CTCTCTGCTTTTGTCTATTTCTGAAATGTGAAT---GGCGCCCAGA
+q rheMac2.chr4 999999999999999999999999999999999---9999999999
+i rheMac2.chr4 I 4 C 0
+s calJac1.Contig1260 47562 43 - 523245 CTCTCTGCTTCTGTCTATTTCTGAAATGCTAAT---GGCACACAGA
+i calJac1.Contig1260 I 4 C 0
+s canFam2.chr1 78240983 42 - 125616256 CTCTCTGCCTTTGTTTCTTCTTGGAATGCTAAT----GCCTGCAGA
+q canFam2.chr1 999999999999999999999999999999999----999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13704915 43 - 95030419 CTCTTTGCCTTTGTCTTTTTCTGGGATGCTAAT---GGCATGCAGA
+q bosTau3.chr9 999999999999999999999999999999999---9999999999
+i bosTau3.chr9 C 0 C 0
+s anoCar1.scaffold_680 330255 37 - 642864 ----CTACCTATGGCCCAT--TGGGAAGGGGGC---TCCATGGGGA
+q anoCar1.scaffold_680 ----999999999999999--999999999999---9999999999
+i anoCar1.scaffold_680 C 0 C 0
+s danRer5.chr17 48111026 45 - 52310423 -ctaccgcatgtctttggacttgtgatagaaaccggagcacatgga
+i danRer5.chr17 C 0 N 0
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e otoGar1.scaffold_119492.1-13327 1021 0 + 13327 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=26757.000000
+s mm9.chr10 3173336 43 + 129993255 GACT-ATCAAGTATTCTTCCTGTAA---------TATATTTATTTGATTCCCC
+s cavPor2.scaffold_284118 63896 50 - 169015 AAAT-ATGAAGTTCACAGcctaaaattgcatttttaaatttttttggttcc--
+q cavPor2.scaffold_284118 8855-5557555664755676699553455699955957999883545527--
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229989332 27 - 267910886 GACG-GTCAAGTATACTATCTGA-------------------------TCCCC
+q rn4.chr1 9999-999999999999999999-------------------------99999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16071008 48 - 170899992 AAAC-TTGAAGTACACAGCCTAAAGTACCA----TATTGTTATTTGGTTCCAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16594486 48 - 173908612 AAAC-TTGAAGTACACAGCCTAAAGTACCA----TATTGTTATTTGGTCCCAG
+q panTro2.chr6 9999-9999999999999999999999999----9999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16376519 48 - 174210431 AAAC-TTGAAGTACACAGCCTAAAGTACCA----TATTGTTATTTGGTCCCAG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108479081 48 + 167655696 AAAC-TTGAAGTACACAGCCTAAAGTACCA----TATTTTTATTTGGTCCCGG
+q rheMac2.chr4 9999-9999999999999999999999999----9999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 47605 48 - 523245 AAAC-TTGAAATAAACAGCCTCAAGTACCA----TATTTTTATTGGATCCCAG
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78241025 24 - 125616256 AGAC-CTCAAGGG----GCTGAATGTTCC------------------------
+q canFam2.chr1 9999-99999999----999999999999------------------------
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13704958 48 - 95030419 AAAC-TTGAAGTATACTGCCTGATCTTCCC----TATTTTTATTTGATCTCAG
+q bosTau3.chr9 9999-9999999999999999999999999----9999999999999999999
+i bosTau3.chr9 C 0 C 0
+s anoCar1.scaffold_680 330292 44 - 642864 AGATGGCCAAAGACACCTTCTA---TCACA----GATACATGCTTTCtccc--
+q anoCar1.scaffold_680 9999999999999999999999---99999----99999999999999999--
+i anoCar1.scaffold_680 C 0 N 0
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e otoGar1.scaffold_119492.1-13327 1021 0 + 13327 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=32488.000000
+s mm9.chr10 3173379 72 + 129993255 CAAAGGCTAACCC--TCTTTT-----TTAGG--------------TG----CAGAAGTTTGGGGACAGCTGGGAGA--GAGT-TGAGAATTCTTCCAATA
+s cavPor2.scaffold_284118 63946 66 - 169015 ---aggataACATGGCTTTTT-----CTAAG--------------GGAAAACATAAGTTTGGG---Agctatgtgt--atgt---gtatttcgTCC----
+q cavPor2.scaffold_284118 ---554556466555679998-----68876--------------665775669585684483---8798855699--8568---58799665597----
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229989359 68 - 267910886 AAAAGGGGA------TCCTTT-----TTTGG--------------TG----CAGATGTTTGGGGACAGCTGGGAGA--GAGT-TGAGAATTCTTCCAATA
+q rn4.chr1 999999999------999999-----99999--------------99----9999999999999999999999999--9999-99999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 47653 82 - 523245 AAAGGGATAACTTGCCCTTTT-----CCAGAGCTTTTTC------GG----AATAAATTTGGAACATACAGGTAGA--GGGT-TTGTGAATTCCACAGGT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108479129 81 + 167655696 AAAGCGGTAACTTGCCCTTTT-----CTAAAGTTTTTTC------AA----AATAAA-TTGGAACATATAGGTAGA--GAGT-TTGTGAATTCCACAAGT
+q rheMac2.chr4 999999999999999999999-----9999999999999------99----999999-999999999999999999--9999-99999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16376567 82 - 174210431 CAAGGGATAACTTGCCATTTT-----CTAAAGTTTTTTC------AA----AATAAATTTGGAACATATAGGTAGA--GAGT-TTGTGAATTCCACAAGT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16594534 82 - 173908612 CAAGGGATAACTTGCCATTTT-----CTAAAGTTTTTTC------GA----AATAAATTTGGAACATATAGGTAGA--GAGT-TTGTGAATTCCACAAGT
+q panTro2.chr6 999999999999999999999-----9999999999999------99----9999999999999999999999999--9999-99999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16071056 82 - 170899992 CAAGGGATAACTTGCCATTTT-----CTAAAGTTTTTTC------AA----AATAAATTTGGAACATATAGGTAGA--GAGT-TTGTGAATTCCACAAGT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 331974 72 - 359464 ---------------tcTCCC-----CAGAAGTTTTTTTTTGGAAAA----AATTGACTTGGGAACTATAGGTAGA--GAGT-TTGTGAATTCCATAC-T
+q otoGar1.scaffold_334.1-359464 ---------------999999-----999999999999999999999----9999999999999999999999999--9999-999999999999999-9
+i otoGar1.scaffold_334.1-359464 I 512 C 0
+s canFam2.chr1 78241049 84 - 125616256 GGACAGAAAACTTGCCTTTTTCTATATTAAAGTTTTTGA------AA----AGTAACTTTGGGAAATAGAGG------GAGTCTTGTGACTTCTGCAGAT
+q canFam2.chr1 999999999999999999999999999999999999999------99----999999999999999999999------9999999999999999999999
+i canFam2.chr1 C 0 I 213
+s bosTau3.chr9 13705006 88 - 95030419 AAAGAGATAGCTTGCCTTTCT-TAAGTTCAAGGTTTTGA------AA----AGTTA-TCTGAGAAATATAGGTGTTCTGAGTTTGGTGAATCCTACAGAT
+q bosTau3.chr9 999999999999999999999-99999999999999999------99----99999-9999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 1
+s xenTro2.scaffold_25 3098389 66 - 4509317 --------GCCAGGCCATTAC-CATGTTCATGATTCAGA------CA----TGCAAGTTTGGGAGCA--TGGCAAT--GAGG--------CCCTATA---
+i xenTro2.scaffold_25 N 0 C 0
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=33714.000000
+s mm9.chr10 3173451 38 + 129993255 ATTTTAAACCCTAGAAACAGGCCATTT----TATGTGGGGTG
+s cavPor2.scaffold_284118 64012 24 - 169015 --------------TGGTAGGGTAGTT----Cattttgtgtg
+q cavPor2.scaffold_284118 --------------5678768687666----97799598977
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229989427 38 - 267910886 ATTTTAAACCTTCGAAACAGGTCATTT----TATGTGGGGTG
+q rn4.chr1 999999999999999999999999999----99999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 47735 27 - 523245 GTTTCATCCTTTGGAGGCAGTCAATTA---------------
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108479210 34 + 167655696 GTTTCATCCTTTGGAGACAGTCGATTG----CATATGG----
+q rheMac2.chr4 999999999999999999999999999----9999999----
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16376649 34 - 174210431 GTTTCATCCTTTGGAGGCAGTTAATTG----CATATGG----
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16594616 34 - 173908612 GTTTCATCCTTTGGAGGCAGTCAATTG----CATATGG----
+q panTro2.chr6 999999999999999999999999999----9999999----
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16071138 34 - 170899992 GTTTCATCCTTTGGAGGCAGTCAGTTG----CATATGG----
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 332046 38 - 359464 GTGAAATCCCTTAGAAACTGTCAATGT----CATGTGGTTTG
+q otoGar1.scaffold_334.1-359464 999999999999999999999999999----99999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78241346 37 - 125616256 ATTTGATCTTTTAAAGGTGGTCAGTTT----TAT-TGGTGTA
+q canFam2.chr1 999999999999999999999999999----999-9999999
+i canFam2.chr1 I 213 C 0
+s bosTau3.chr9 13705095 36 - 95030419 -TTTAATTCTTTAAAGGCAGTCATTTT----TAT-TGGTGTA
+q bosTau3.chr9 -99999999999999999999999999----999-9999999
+i bosTau3.chr9 I 1 C 0
+s xenTro2.scaffold_25 3098455 40 - 4509317 ATTATAGACTTGCCAAATAGCCATTTTCTGGCATGAGGTG--
+i xenTro2.scaffold_25 C 0 N 0
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=24071.000000
+s mm9.chr10 3173489 53 + 129993255 TCCCT---CCCT-------TCCCTCCTGGGTATGT----ACT--GCTCTGAAGGGCCTCTTCTTAGAG-----T
+s cavPor2.scaffold_284118 64036 62 - 169015 tctct---ctctaCTTAGGTCTCTGCTGGCTAACA----CCTCAGATTCTAGAGACACCTTCAAAAGG-----G
+q cavPor2.scaffold_284118 79999---999899987877999998589788685----88987979999999979689988999899-----9
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 229989465 54 - 267910886 TTCCTT--CCCT-------TCCCTGTCAGATGTCT----AAT--GCTCTGAAAGGCCTCTTCTTGGAG-----T
+q rn4.chr1 999999--9999-------9999999999999999----999--999999999999999999999999-----9
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 47762 46 - 523245 ---------TGC-------------TTAGCTCACT----ACT--GGCCTAAAGGGCCGGTTTCTAGAGATACAT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108479244 47 + 167655696 --------CCGC-------------TTAGGTCCCT----ACT--GGCCTGGGGGGCCAGTTTCTAGAGATACAT
+q rheMac2.chr4 --------9999-------------9999999999----999--999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16376683 47 - 174210431 --------CTGC-------------TTAGGTCACT----ACT--GGCCTGGAGGGCCAGTTTCTAGAGATACAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16594650 47 - 173908612 --------CTGC-------------TTAGGTCACT----ACC--GGCCTGGAGGACCAGTTTCTAGAGATACAT
+q panTro2.chr6 --------9999-------------9999999999----999--999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16071172 47 - 170899992 --------CTGC-------------TTAGGTCACT----ACC--AGCCTGGAGGGCCAGTTTCTAGAGATACAT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 332084 58 - 359464 TCCCTAC-CCTT-------------TCAGGTCACTCACCCCT--GGCTTGAAGAGCAAGTTTTTGTTGCCACAT
+q otoGar1.scaffold_334.1-359464 9999999-9999-------------99999999999999999--999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78241383 49 - 125616256 TCACTACTCTCT-------------TATGATCACC----ACT--GACTTTAGGGTCT-GTTTCTGGAGC-----
+q canFam2.chr1 999999999999-------------9999999999----999--9999999999999-99999999999-----
+i canFam2.chr1 C 0 I 5
+s bosTau3.chr9 13705131 50 - 95030419 TTGCTACCCTCT-------------TATGGTCATC----ACT--GGCCTAAAAGGCTGGTTTCCAGAGT-----
+q bosTau3.chr9 999999999999-------------9999999999----999--9999999999999999999999999-----
+i bosTau3.chr9 C 0 I 1739
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=603470.000000
+s mm9.chr10 3173542 329 + 129993255 TCACAAGTAAAGGA----CTGAGAAGGAATTCTA--------CTCTGAAACAA----TATTAAGT--CTGTGTCCT-CAATATGGAGCATCCTAGAGAAACTTTGGGCATCTACTTTGTGGC-----------TGACA-------GGTTCTAA----AGAATG-TGTGTTCTCTGACCCATATG-GTAGGAGATCCATTTCTGTGTACATTGTCTGTTAAGCCTCCCAGTGGCTCACAAGGACACTAAGCTGGGTCTGCTTAAATGATGTGTGCCATTTCCTGCTGCATAAAACTGTCTTTTTCATAG--CATTGACA-GGGATGCCTGTAAGCG-TTCTGTATTGGAGGTCAGA-GG--TGACATCTGACCTGGAAGG
+s cavPor2.scaffold_284118 64098 314 - 169015 AAACAATTAGAGAAGAATCTGAGTCAGAGTTC------------CTGGAGAAAAATCTATAAAGTCCCCATCTCCTGCATTTTAGAGTGTGATTAAGAAACTTGGGCTATCCAACTCACTGCAGCCTGGGTTTTGATA-------ATCTTTCAGTTTAGAAt--ttttttGTCTGACCTGTCTGAATGGGAAAAGCATTTCTGTATCCATGG-CCATTAAAATTTCTCATGGAGC-CAGAGATAATAAACTAAGTCAGCTTAAATGATGTGTATAATTTCCTGTT-----CGGCTCTTTTCCTTAGAT--CAGCTACA-GGGATG------------TCTGTATTGGAGGAGACA-GG---------------------
+q cavPor2.scaffold_284118 99799899999999996999998899999999------------9599999999889999999789999689999899999999999999999999999999999999999999999999999999999999999999-------68999999999999999--999999999999999999999999999999999999999998999999-8999999999999999899999-9999999999999999999999999999999999999999999999999-----999999999999999999--99999999-999999------------999999999999999999-99---------------------
+i cavPor2.scaffold_284118 C 0 I 13424
+s rn4.chr1 229989519 312 - 267910886 TCGTAAGTAAAAGAG---CTGAGAAGGAATCCTA--------CCCTGAAACAA----TATTGAGT--CTGTCTCCT-CAATATGGAGCGTCTTAGAGAAACCCTGGGC-------------------------TGACA-------GGTTCTCA----AA-----TGTGTTCTCTGACCCCCATG-GTGGGAGATCCATTGCTTTGTGCATGG-CTGTGAAGACTCCCAGGGGCCCACAAGGACATTAAGCTGGGTCTGCTTAAGTGATGAGTGCCATTTCCTGCTGCATAAAACTGTCTTTTCCATAG--CATTGACA-GGGATGCCTGTAAGTG-TTCTGTATCGGAGGTCAGAGGG--TGACATCTGGCCTGGAACG
+q rn4.chr1 999999999999999---9999999999999999--------99999999999----99999999--999999999-9999999999999999999999999999999-------------------------99999-------99999999----99-----99999999999999999999-999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999-9999999999999999-9999999999999999999999--9999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 47808 362 - 523245 TCAGACATGAAAGAG---CTAGAAAAGAATTCCTTCCAGATTTCCTGGAAA-A-ATATACAGAATCCCTCTCACCTGTATTTCTGAGTGTTATTTAAAAACATAGGCTACCCAACTCATTGCCTACTGGCTTTTGATAAT-----GTGTTTAAGTTAAAAGTGTTTTCACGTCTGACCCATCCAAGTGGGAGAGCCATTTATATTTACAGGG-CCATGAAAATTTCTGATGGCAGTCACAGACAGTAAGCTAAGCTAGCTTAAATGAGGTGTATAATTTCCTGTTACATAAAACTATACTTTCCAGAGATCAGCTAAA-GAGACACTG--GAACGTTTCTGTGTTGGAGGTTGGG-GG--TAGCATCTGGCAGTGAGGA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108479291 365 + 167655696 TCAAATACGAAAGAG---CTAGGAAAGAATTCCATCCAGATTTCCTGGAAAAA-ATCTACAGAATCCCTCTCAGCTGTATTGTTGAGTGTTATTTAGAAACTTGGGCTACCCAACTCATCACATACTGGCTTTTGATAAT-----GTCTTTAAGTTAAAAGTATTTTCTCGTCTGACCCATTCAGGTGGCAGAGCCATTTATATTTACATGG-CCATGAAAATTTCTGATGGCAGTCACAGACAGTAAGCTAAGTTAGCTTAAATGATGTGTATAATTTCCTGTTATATAAAACTGTACTTTCCAGAGATCAGCTAAA-GAGACATCTGTGAACGTTTCTGTGTTGGAGGATGGG-GG--TAGCATCTGGCAGTAAGGA
+q rheMac2.chr4 999999999999999---99999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999-99--9999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16376730 366 - 174210431 TCAAACATGAAAGCA---CTAGAAGAGAATTCCATCCAGATTTCCTGAAAAGA-ATATACAGAATCCCCCTCACCTGTATTTTTGCGTGTTATTTAGAAACTTGGGCTACCCAACTCATCACATACTGGCTTCTGATAAT-----GTCTTTAAGTTAAAAGTATTTTCTCGTCTGACCCATCCAGGTGGGAGAGCCATTTATATCTACATGG-CCATGAACATTTCTGATGGCAGTCACAGACAGTAAGCTAAGTTAGCTTAAATGATGTGTATAATTTCCTGTTATATAAAACTGTACTTTCCAGAGATCAGCTAAAGGAGACATCGGTGAACGTTTCTGTGTTGGAGGATGGG-GG--TAGCATCTGGCACTGAGAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16594697 365 - 173908612 TCAAGCATGAAAGCA---CTAGAAAAGAATTCCATCCAGATTTCCTAGAAAGA-ATATACAGAATCCCCCTCACCTGTATTTTTGAGTGTTATTTAGAAACTTGGGCTACCCAACTCATCACATACTGGCTTCTGATAAT-----GTCTTTAAGTTAAAAGTATTTTCTCGTCTGACCCATCCAGGTGGGAGAGCCATTTATATCTACATGG-CCATGAACATTTCTGATGGCAGTCATAGACAGTAAGCTAAGTTAGCTTAAATGATGTGTATAATTTCCTGTTATATAAAACTGTACTTTCCAGAGATCAGCTAAA-GAGACATCTGTGAACGTTTCTGTGTTGGAGGATGGG-GG--TAGCATCTGGCAGTGAGAA
+q panTro2.chr6 999999999999999---99999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999-99--9999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16071219 365 - 170899992 TCAAACATGAAAGCC---CTAGAAAAGAATTCCATCCAGATTTCCTAGAAAGA-ATATACAGAATCCCCCTCACCTGTATTTTTGAGTGTTATTTAGAAACTTGGGCTACCCAACTCATCACATACTGGCTTCTGATAAT-----GTCTTTAAGTTAAAAGTATTTTCTCGTCTGACCCATCCAGGTGGGAGAGCCATTTATATCTACATGG-CCATGAACATTTCTGATGGCAGTCACAGACAGTAAGCTAAGTTAGCTTAAATGATGTGTATAATTTCCTGTTATATAAAACTGTACTTTCCAGAGATCAGCTAAA-GAGACATCTGTGAACGTTTCTGTGTTGGAGGATGGG-GG--TAGCATCTGGCAGTGAGAA
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 332142 352 - 359464 TCAAGTGTGCAAGAG---CTAGAAAAGAATTCTCTCCAGATTTCCTGGAAA-A-ATGTAGAG---TCCCCTCACCTGTATTTTACAGAGTTCTTTAGAAACTTGGGCTACCTAACTGAT-GCAAGCTGACTTTGGGGAAT-----GTCTCTCCGTAAAAAGTATTTTCTTGTCTGACCCATCTGAGCGGGAAAGCCATCTGTATTTACATAG-CCATTAAAATTTCTGATGGCAGTCAGAGACAGTAAGCTAAGTCAGCTTAAATGATGTGTATAATTTCCTGTTATGTAAAACTGTTCTTTCCTGAGATCAGCTAAA-GGGATGTCTGTGAACA-TTCTGTATTGCAGGG----------GGCATCTGGCGGTAAGCA
+q otoGar1.scaffold_334.1-359464 999999999999998---999999999999999999999999999999999-9-99999999---999999999999999999999999999999999999999999999999999999-99999999999999999999-----9999999999999999999999999999999799999999999999999999999999999988999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999-999999999999999----------998999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s canFam2.chr1 78241437 360 - 125616256 TCAAAATGGAAAGAG---CTAGAAAAGAATTCTGTTTGGATTTCTTAGAAAAC-A-----AAATTCCATCTTACGTGTCTTTTAGAGTGGTACTAGGAAAACGGGG--ACACAGGTTGATAATGTCAGGATACGAACAATGACCAGTCTGTAGGAGCTATGAATTTTCTTATCTGACCCATCTAGGTGGGAGGGCCATTTGTATTTACATTG-CCATGACAATGTCTGGTGGTAACCACAGGCAGTAAACTAA----GCTGAAATGACATGTACACTTTCCTGTTACACAGAACTGTATTTTCCTTAGATCAGCTAAA-GGACTGTGGGTGAATG-TTCTGCACTGGAGCACAGA-GAGGCAATATAGGAGGGTGAAGA
+q canFam2.chr1 999999999999999---99999999999999999999999999999999999-9-----9999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999-9999999999999999-9999999999999999999-99999999999999999999999
+i canFam2.chr1 I 5 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=18102.000000
+s mm9.chr10 3173871 46 + 129993255 CATCAGCCCCCAGC--------CGTGAGCCCTGGCTGTGCAGGTGTGTGTGTGT
+s canFam2.chr1 78241797 48 - 125616256 GCAGAGCCCCTGGCCCCCAGGGTGTGAGCGCTGCCTctgtgtggcctt------
+q canFam2.chr1 999999999999999999999999999999999999999999999999------
+i canFam2.chr1 C 0 I 7
+s otoGar1.scaffold_334.1-359464 332494 34 - 359464 -GTGGGGACCCTGG------------CGCCA-GCCCCTG------AGTGGGCAG
+q otoGar1.scaffold_334.1-359464 -9999998999998------------88999-8999989------999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s hg18.chr6 16071584 45 - 170899992 TGTGAGTCCCCTGG--------TGTGAGCCA-GGCTCGGCGAGGCTGtgagcaa
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16595062 45 - 173908612 TGTGAGTCCCCTGG--------TGTGAGCCA-GGCTCGGCGAGGCTGtgagcaa
+q panTro2.chr6 99999999999999--------999999999-9999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16377096 45 - 174210431 TGTGAGTCCCCTGG--------TGTGAGCCA-GGCTCGGCGAGGCTGtgagcaa
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108479656 45 + 167655696 TGTGAGTCCCCCGG--------TGTGAGCCG-GGCTCGGTGAGGCTGTGAGCAA
+q rheMac2.chr4 99999999999999--------999999999-9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 48170 23 - 523245 TGTGAGTCCCCCAA-------------------------------TGtgagcaa
+i calJac1.Contig1260 C 0 C 0
+s rn4.chr1 229989831 46 - 267910886 AACCAGCCCCCAGC--------CGTGAGCCCTCGCTGTGCAGAGgtgtgtgtgt
+q rn4.chr1 99999999999999--------99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s danRer5.chr14 16756 46 + 56522864 CATAAACACACAAG--------TGCAAATGCAAACTCTACAGGTGTGTGTGTGT
+i danRer5.chr14 N 0 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig17055 8643 0 + 12506 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-10132.000000
+s mm9.chr10 3173917 79 + 129993255 GTGTGTAGTC------------------------------------------------TACTGTGTA-TTTCCTATC-CTCTGGTGC-------------------------------------CTTAGCTC------TTCATCTCTAAAGGGAAGCAATTGTTGTCTGCAG
+s calJac1.Contig1260 48193 60 - 523245 g-------------------------------------------------------------------tcacctccc-tctgggtgc-------------------------------------ctcagttc------ctcagctccaggtgggc-cagttacagtacacat
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108479701 60 + 167655696 G-------------------------------------------------------------------TTACCTCCT-TCTGGGTGC-------------------------------------CTCAGTTC------CTCAGCTCCAGGTGAGA-CAGTTATAGTACACAT
+q rheMac2.chr4 9-------------------------------------------------------------------999999999-999999999-------------------------------------99999999------99999999999999999-9999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16377141 60 - 174210431 g-------------------------------------------------------------------tcacctccc-tctgggtgc-------------------------------------ctcagttc------ctcagctccaggtggta-cagttatagtacgcat
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16595107 60 - 173908612 g-------------------------------------------------------------------tcacctccc-tctgggtgc-------------------------------------ctcagttc------ctcagctccaggtagga-cagttatagtacacat
+q panTro2.chr6 9-------------------------------------------------------------------999999999-999999999-------------------------------------99999999------99999999999999999-9999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16071629 60 - 170899992 g-------------------------------------------------------------------tcacctccc-tctgggtgc-------------------------------------ctcagttc------ctcagctccaggtggga-cagttatagtacacat
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 332528 39 - 359464 G------------------------------------------------------------------------TCCC-TCTGGGAGC-------------------------------------CTCagcgc------ctcatctccaagtggga-----------------
+q otoGar1.scaffold_334.1-359464 8------------------------------------------------------------------------6999-999999969-------------------------------------99999868------99989999999999999-----------------
+i otoGar1.scaffold_334.1-359464 C 0 I 19112
+s canFam2.chr1 78241852 61 - 125616256 g-------------------------------------------------------------------tcgcctcccttctctgggc-------------------------------------ctcaggtc------ttcatctctgaagcga-gaggctatagtacaccc
+q canFam2.chr1 9-------------------------------------------------------------------9999999999999999999-------------------------------------99999999------9999999999999999-99999999999999999
+i canFam2.chr1 I 7 C 0
+s ornAna1.Contig26256 11131 32 - 17492 --ATGTGTTT----------------------------------------------GGTGTTGGGTGTTATTTTTCC-TCT-------------------------------------------------------------------------------------------
+i ornAna1.Contig26256 n 0 I 36
+s danRer5.chr14 16802 168 + 56522864 --GTGTGTAAGCACCAGTATTTCTGATTTCCTTCTAAAAATAGACACAGATATGAAGTCATTTTGAACATTCCTTCT-tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgGTCATTTCTGTCAGCTTGGTTTCCATGGAGA-CAAATGTCCATTTCGT
+i danRer5.chr14 C 0 C 0
+e rn4.chr1 229989877 0 - 267910886 C
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-39231.000000
+s mm9.chr10 3173996 70 + 129993255 ----CCCTGGGGGCTTTAGGA--------------------------TTCAAAG------GT-----------------------------------------Atgtatgtgtatgcgtgtgtgtgtctgtg--tgtgtatgtgtatgc
+s calJac1.Contig1260 48253 51 - 523245 ----ttgtggggatgctaggagg------------------------cttactg------gg-----------------------------------------ttatatatgt---------------------tatatatatgtat--
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108479761 39 + 167655696 ----ATGAGGGGATGCTAGGAGA------------------------CTTAAGG------GG-----------------------------------------TTATATATA--------------TA---------------------
+q rheMac2.chr4 ----9999999999999999999------------------------9999999------99-----------------------------------------999999999--------------99---------------------
+i rheMac2.chr4 C 0 I 1055
+s ponAbe2.chr6 16377201 42 - 174210431 ----atgaggggatgctaagaga------------------------cttaagg------gg-----------------------------------------ttatatatata------------ta------------------t--
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16595167 39 - 173908612 ----atgaggggatgctaggaga------------------------cttaagg------gg-----------------------------------------ttatatatata-----------------------------------
+q panTro2.chr6 ----9999999999999999999------------------------9999999------99-----------------------------------------99999999999-----------------------------------
+i panTro2.chr6 C 0 I 147
+s hg18.chr6 16071689 39 - 170899992 ----atgaggggatgctaggaga------------------------cttaagg------gg-----------------------------------------ttatatatata-----------------------------------
+i hg18.chr6 C 0 I 143
+s canFam2.chr1 78241913 116 - 125616256 ----tcatggggaccggaggaggaggaaagtttttatatatctaagtcttgaaa------aggagcctgccatgtaggaagtgacatttaattgtttgctattTTATGTGTG--TAATTTTGTATATT---------------------
+q canFam2.chr1 ----99999999999999999999999999999999999999999999999999------9999999999999999999999999999999999999999999999999999--99999999999999---------------------
+i canFam2.chr1 C 0 I 62
+s ornAna1.Contig26256 11199 65 - 17492 -------------CACTCAGTG-------------------------TTTACGGTCGATTGA-----------------------------------------CTCTGTGTGTGTGTGTGTCAATGACTCTGT-TGGGTGTTTGA----
+i ornAna1.Contig26256 I 36 I 1
+s danRer5.chr14 16970 70 + 56522864 TTTTTCAAGCTGAAGCT------------------------------TTTAtgt------at-----------------------------------------gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgt--
+i danRer5.chr14 C 0 C 0
+e rn4.chr1 229989877 0 - 267910886 C
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-26803.000000
+s mm9.chr10 3174066 87 + 129993255 gtgtgtgtgtctgtgtgtgtatg-------------------tgtatgta-gtgtc------------tgtcagg----tggaaggtg-----------acattg----gactgttactctgtaaatgt-----gattcttgt
+s calJac1.Contig1260 48304 73 - 523245 -----taagtcttagaaagtgcc---------------------------------------------tgccaTG----CTGAAAGTG-----------ACATTT----ACCTGTT-TTCTGTAATTATATGAATAATTTTAT
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16377243 127 - 174210431 -----taagtcttagaaagtacctgccatgcagaaagtgACATTTACCTG-TTTTCTGTAATTATACGTGTAATT----TTATATGTGCATTTTCCCAAATTTTA----GTAGAGT-CTTT-TGAATATTAGAGGAAATTTGA
+i ponAbe2.chr6 C 0 C 0
+s rn4.chr1 229989877 87 - 267910886 gtgtgtgtgtgtgtgtgtgtgtg-------------------tgtgtgtg-CTGTC------------CGTCAGG----TGGAAGGAG-----------ACATTG----AATTGCTACCCTGTGAATGT-----GGTTCTTGT
+q rn4.chr1 99999999999999999999999-------------------99999999-99999------------9999999----999999999-----------999999----99999999999999999999-----999999999
+i rn4.chr1 C 0 C 0
+s ornAna1.Contig26256 11265 90 - 17492 GGTGATAACCTGCTATCTGGATG-------------------ATTACATA-GTCTCCCAAAT------TATAATGAAAACTGAGTGTG-----------AATTTTTGACAGAAGCTACCTTGTAAAT----------------
+i ornAna1.Contig26256 I 1 n 1
+s danRer5.chr14 17040 65 + 56522864 gtgtgtgtgtgtgtgtgtgtgtg-------------------tgtgtgtgtgtgtg------------tgtgAAT----GTTGAAGTG-----------ATGTCA----TAATAT----------------------------
+i danRer5.chr14 C 0 N 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108479800 1055 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78242029 62 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16071728 143 - 170899992 I
+e panTro2.chr6 16595206 147 - 173908612 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-21382.000000
+s mm9.chr10 3174153 267 + 129993255 ------------atgttgatg-------att--------------------ctgctttatt------------cttctgatttttctttcttctttgctttttcct------------cttccc-----------------------------------cttcctcttctcctt------tttt---------------------------------------------ttttttttttttttctgagacagggtttctctgtgtagtcctggctgt-------------------------------cctggaactcactgtatagatcaggctggcctcaaactcagagatctgcttgcctctgcctccc-aagtgttaggattaaaggtatgtgccactacacctgact-ttcttttgtattttctatcgg [...]
+s rn4.chr1 229989964 271 - 267910886 ------------ATGCTGATGAACCTTAAAT--------------------CTGCTTTATT------------CTTTTGAGttttctttcttctttgcttttttca------------ggt--------------------------------------ttttttttttttttt------tttt---------------------------------------------tttttttttccttttcaagacagggttcctctgtgtagccctggctgt-------------------------------cctagaactcactctgtagatcaggctggcctcaaactcagagatctgcttgcctctgctttcc-aagtgctaggattgaaggtgtgtgccactatacccggct-ttctttGGATTTTTCTACCAG [...]
+q rn4.chr1 ------------9999999999999999999--------------------9999999999------------999999999999999999999999999999999------------967--------------------------------------999999999999999------9999---------------------------------------------999999999999999999999999999999999999999999999999-------------------------------9999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999-999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16377370 321 - 174210431 ------------GTTCTTCTTAACCATAATATTTGGTAAGATAGATCGACCCTATTGTATTTTGCATTAAAGACTTTAGAATTTTATTTAAGCTGTCAATTTTGCA------------GATCTGA-----------------------------AGATGGAAACTCTTGTATTT------ATTCACCAAA----------CACAG---------ACCACtt--------ttttttttttttttttgagacggaatcttgcccagtcacccaggctggaatgcaatggcacgatctcggctcactgcaacctccgcctc---------------ccaggttcaagc-----gattctcctgcctcagcctccctagtagctgggattacaggtgcctgccaccatgctcggctaattttttgtatctt------- [...]
+i ponAbe2.chr6 C 0 I 606
+s calJac1.Contig1260 48377 353 - 523245 ------------ATGTTCATTTCCCCCAATTTTAGttta------------ttcttttattttg---------atacagagtttcgctcctattgcccagcccggagtgcaatggcgcgatctcagctcactgcaacctccacctcccgggttcaggt-gattctcctgcctca------gcctcccaagtagctgggatcacaggcatgtaccaccacgcctggctaattttgtatttttagtagagtcggggtttctccatgttggtcaggctgg-------------------------------tcttaaactc---------------ttgacttcaagt-----gatttacccactttggcctcccgaagtgctgggattacaggcaggagccaccacacccagctATTCTTTTGAA-----TATTAG [...]
+i calJac1.Contig1260 C 0 I 7
+s monDom4.chr2 106207443 216 - 541556283 ATGTTACTTATGCTGTTCTTTAAGACTAACC--------------------ACCCCTTATTATACTC------ATTTACATCTTGGTCTCCATTATTGCTTTTCCA------------TGTGT------------------------------------GTGTCTACTGTAGTACAAGTGTTTC---------------------------------------------CTTTGTTTTTGTTTTTATGCTAAGAT-----------------GCAGG-------------------------------CCAGTACATG---------------ATAGAGTGAA---CAGGGATGTGATGTTCTCTATGAAAC-AAGTAT--------------------ACCACAGACAGATATTTTTGTTT------------ [...]
+q monDom4.chr2 9999999999999999999999999999999--------------------9999999999999999------999999999999999999999999999999999------------99999------------------------------------9999999999999999999999999---------------------------------------------99999999999999999999999999-----------------99999-------------------------------9999999999---------------9999999999---99999999999999999999999999-999999--------------------99999999999999999999999------------ [...]
+i monDom4.chr2 N 0 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108479800 1055 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e canFam2.chr1 78242029 62 - 125616256 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16071728 143 - 170899992 I
+e panTro2.chr6 16595206 147 - 173908612 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=25719.000000
+s mm9.chr10 3174420 49 + 129993255 C-----CACAGTCTTTGGTGAGATGTCTGGGTC-TGTCCTGTTTTGCATCATAGA
+s rn4.chr1 229990235 53 - 267910886 CATTCAACCAGTCTTGGGTGAGATGTCTGGATC--GTTCCATTTTGCATCATAGA
+q rn4.chr1 999999999999999999999999999999999--99999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16071871 50 - 170899992 -----CCATAATATTTGGTAAGATAGATCGACCCTATTGTATTTTGCATTAAAGA
+i hg18.chr6 I 143 C 0
+s panTro2.chr6 16595353 50 - 173908612 -----CCATAATATTTGGTAAGATAGATCGACTCTATTGTATTTTGCATTAAAGA
+q panTro2.chr6 -----99999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 147 C 0
+s calJac1.Contig1260 48737 50 - 523245 -----CTATAGTATTTGATAAGATAGATTGACCCTATTGTGTTTTGTGCTAAAGA
+i calJac1.Contig1260 I 7 C 0
+s canFam2.chr1 78242091 48 - 125616256 -----CCACCGTATTTGATGAGA--GGTCAGTTTTATTGTATTTCGCATTAAAGA
+q canFam2.chr1 -----999999999999999999--999999999999999999999999999999
+i canFam2.chr1 I 62 C 0
+s monDom4.chr2 106207659 46 - 541556283 -----CTGAAGCCCTTGG---GGCGTCTGGGTC-TGTACTGACCTGCATTGAAGA
+q monDom4.chr2 -----9999999999999---999999999999-999999999999999999999
+i monDom4.chr2 C 0 I 13075
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108479800 1055 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e ponAbe2.chr6 16377691 606 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=13579.000000
+s mm9.chr10 3174469 76 + 129993255 TAAAAGGATTGAACTTAGGTAAGCATTTGCTCAGTTGGACCAATGGAGACTAAGGTTGTTGACAAGCTCAGAGCAC
+s rn4.chr1 229990288 67 - 267910886 TAAAG---------TTAGGTAAGCAGTTGCTCACATAGACCAATGGAGACTGAGGTTGTAGACAAGCTCAGAGCAC
+q rn4.chr1 99999---------99999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16071921 55 - 170899992 CTTTAGAATTTTATTTAAGCTGTCAATTTTGCAGATCTGAAGATGGAAACTC---TTG------------------
+i hg18.chr6 C 0 I 815
+s panTro2.chr6 16595403 73 - 173908612 CTTTAGAATTTTATTTAAGCTGTCAATTTTGCAGATCTGAAGATGGAAACTC---TTGTATTCATTCACCAAACAC
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999---999999999999999999999
+i panTro2.chr6 C 0 I 791
+s calJac1.Contig1260 48787 73 - 523245 CTTTAGAATTTTATTTAAGCTGTCAATTTTGCAGATCTGAAGATGGATACAC---TTGTGTTTATTCACGGAACAC
+i calJac1.Contig1260 C 0 I 7
+s canFam2.chr1 78242139 58 - 125616256 CTTCAAAATTTGCTTGAAGCCATTAATTTTGCAGGTCTCAAGAC------------------CAAACACAGACCTC
+q canFam2.chr1 99999999999999999999999999999999999999999999------------------99999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108479800 1055 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e ponAbe2.chr6 16377691 606 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-652.000000
+s mm9.chr10 3174545 117 + 129993255 TCAGAGGCCCACACATATGTACTGGCTCTCA------------------GAGGGCCTCTTCCTGGGTCAGAGGTTTG-------------CTTC--CTTTCTGGTATGGG--------ATGCAGGCTGTGTG---CACACCTGAGGAATATTTTGTGCCCA
+s rn4.chr1 229990355 98 - 267910886 TCCGAGGGCCACACATGCATACTGGCTCCCA------------------CAGGGCCTTTTCCTGGCTCAGGGTTTTG-------------CTTC--CTTTCTGGTATGGG--------ATGCAGGCTGTGGG---CACTTAT-------------------
+q rn4.chr1 9999999999999999999999999999999------------------9999999999999999999999999999-------------9999--99999999999999--------99999999999999---9999999-------------------
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 48867 143 - 523245 TTTGAGGTCTTCCCCTGTTCTCTCCCTCCTGTGCTACGACGTCACTCTTGAGAGCGCACTGATGGCCTGGGCTTTAGGGCTAACTGAGGCCTTTGACTTTCTTGTGTGTGCTTCTTAAATCCACGACGTGTAT--TGCGTGTTAG----------------
+i calJac1.Contig1260 I 7 I 1
+s canFam2.chr1 78242197 142 - 125616256 TTGGAGGTTTTTACCCACATGT--GCTCTCATACTAGGATGTTTCTCTTGAGAGGCTGCTGGAAGTTTAGGCTTCATGGCTCATTCAGGCCTTTGACTTTCTTTAGCATACTTTAAAAATCTAGGATTTGTACGGTGCCTCTGA-----------------
+q canFam2.chr1 9999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------------
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108479800 1055 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16071976 815 - 170899992 I
+e panTro2.chr6 16595476 791 - 173908612 I
+e ponAbe2.chr6 16377691 606 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=117862.000000
+s mm9.chr10 3174662 134 + 129993255 GTGGATGTTTCCATAGGCCAGG---TGCTCTTCCTTTGTGAAACACAAAAAGCCTCTTAGATGTGGTCTCTCTTCCTGTGTCCTACTGTAGCTTTGGGGGAAGGCCAGAAGAGAGA-------TGTgatctctgagactcct--------tc
+s rn4.chr1 229990453 128 - 267910886 ---GATGTTCCCATAGGCCAGG---TGCTCTTCTCCTGTGAAGCTCAAAAAGCCTTTTAGATGTGGTCTCTCTTCCTGTGTC---CTCTAGCTTTGAGGGAAGGCCAGAAGAGAGA-------TGTGGTCTCTCAGGCCCTG--------TC
+q rn4.chr1 ---9999999999999999999---999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999-------9999999999999999999--------99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16072791 128 - 170899992 GTGAATGTTTCCGAGAGTAGAA-TTTTTTTTCCTTTTGAGAACCTCA---------------GTGGCATTGCCTGCT--------CTTGCCCTCTCTGGGAAGGACAGCAGAGGGGACACTGCTGTCCCTGCTGTGACAATGTGCAGTGATC
+i hg18.chr6 I 815 C 0
+s panTro2.chr6 16596267 128 - 173908612 GTGAATGTTTCCGAGAGTAGAA-TTTTTTTTCCTTTTGAGAACCTCA---------------GTGGCATTGCCTGCT--------CTTGGCCTCTGTGGGAAGGACAGCAGAGGGGGCACTGCTGTCCCTGCTGTGACAATGTGCAGTGATC
+q panTro2.chr6 9999999999999999999999-999999999999999999999999---------------999999999999999--------9999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 791 C 0
+s ponAbe2.chr6 16378297 127 - 174210431 GTGAATGTTTCCGAGAGTAGAA--TTTTTTTCCTTTTGAGAACCTCA---------------GTGGCATTGCCTGCT--------CTTGCCCTCTGTGAGAAGGACAGCAGAGGGGGCACTGCTGTCCCTGCTGTGACAATGTGCAGTGATC
+i ponAbe2.chr6 I 606 C 0
+s rheMac2.chr4 108480855 127 + 167655696 GTGAATGTTTCCGAGAGTAGAA--TTTTTTTTCTTTTGAGAACCTCA---------------GTGGCATTGCCTGCT--------CTTGCCGTCTGTGGGAAGGACAGCAGAGGGGGCACTGCTGTCCCTGCTGTGACAACGTGCAGTGATC
+q rheMac2.chr4 9999999999999999999999--99999999999999999999999---------------999999999999999--------9999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1055 C 0
+s calJac1.Contig1260 49011 129 - 523245 GTGAATGTTTCTGAGAGTAGAATTTTTTTTTTCTTTTGAAGACCTCT---------------ATGGCATTGCCTGCC--------CTTGCCCTCTGTGGGAAGGACAGCAGAGGGGGCACTGCTGTCCCTGCTGTGACCATGTGCCATGATC
+i calJac1.Contig1260 I 1 C 0
+s canFam2.chr1 78242339 115 - 125616256 ATGAATGGTTCCACGTAGGAAA-TTTTTTTTTCTTTTGAATAGCTCCGAAAGCTCTTTAG--GT--------CAGCTGT------CTCACCTTCTGTGGGAGGAAGAGTGGAGCAGGCACTGCTGCCTCTGC--------------------
+q canFam2.chr1 9999999999999999999999-9999999999999999999999999999999999999--99--------9999999------99999999999999999999999999999999999999999999999--------------------
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 97054 4363 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=224737.000000
+s mm9.chr10 3174796 216 + 129993255 cctgggaaggtaatggctctgcatctctacaacgaggctt------agctgag-t---aacacacaacctggctgtctgtaaatcaactgcttTATG--CACAG--ATGGTCTTTTACATTGAACTCAGAGCTCAGGAGTA-------------------------TGCTCCC-----AC-TGGGTCTGTATGAGCTTATGTT-------CCTCACA---------------------GGTTCACTGCACAC-AAATGGTGCCACTTCCTTGCCCTGGt-------------gtggtggtttg
+s rn4.chr1 229990581 222 - 267910886 TCTGGGAGGCTAATGGCTCTGCATCTCTACAACCAGCCTTAGTCTCAGCTGAG-C---AACACACAACCTG------------------GCTTTATG--CACAA--ATGGTATTTTAAGTTGAACCCAGAGCCAGGAAATATGTGATATTATGAGTGC-------TTGCTCTC-----AC-TGGGTCTGTGTGAACACACGCT-------CCTCACA---------------------GGTTCACTGTGTAC-AAATGGTGCCTCTTCCTTGCCTTGGt-------------gtgatgatttg
+q rn4.chr1 99999999999999999999999999999999999999999999999999999-9---9999999999999------------------99999999--99999--9999999999999999999999999999999999999999999999999999-------99999999-----99-9999999999999999999999-------9999999---------------------99999999999999-99999999999999999999999999-------------99999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16072919 256 - 170899992 ACAGGGAGGCT-TTCACCCTCCACCCTAACAGTCAGTCCC------AGCTGAGCC---AACCCAGGATCTGGTTTTCTGTATATCAGATGCACGATGCACACAA--CTGTTTTATTAAGCATGAAACAAAACCAAGAAGTA--------TAACAGTGCTTTACAGTTCTTCTCTTAATTC-TGGCCTCGTATGATCTTATCATGTATTAACCTCAGAAACACTACTTTTGCACATGTCAGTTAACTGTACAC-AAATAGTGCCAATT-CCTGCCCTGTT------------------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16596395 256 - 173908612 ACAGGGAGGCT-TTCACCCTCCACCCTAACAGTCAGTCCC------AGCTGAGCC---AACCCAGGATCTGGTTTTCTGTATATCAGATGCACGATGCACACAA--CTGTTTTATTAAGCATGAAACAAAACCAAGAAGTA--------TAACAGTGCTTTACAGTTCTTCTCTTAATTC-TGGCCTCGTATGATCTTATCATGTATTAACCTCAGAAACACTGCTTTTGCACATGTCAGTTAACTGTACAC-AAATAGTGCCAATT-CCTGCCCTGTT------------------------
+q panTro2.chr6 99999999999-9999999999999999999999999999------999999999---9999999999999999999999999999999999999999999999--99999999999999999999999999999999999--------9999999999999999999999999999999-99999999999999999999999999999999999999999909999999999999999999999999999-99999999999999-99999999999------------------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16378424 256 - 174210431 ACAGGGAGGCT-TTCACCCTCTACCCTAACAGTCAGTCCC------AGCTGAGCC---AACCCAGGATCTGGTTTTCTGTATATCAGATGCACGATGCACACAA--CTGTTTTATTAAACATGAAACACAACCAAGAAGTA--------TAACAGTGCTTTACAGTTCTTCTC-TAATTC-TGGCCTTGTATGATCTTATCATGTATTAACCTCAGAAACACTACTTTTGCACATGTCAGTTAACTGTACAC-AAATAGTGCCAATT-CCTGCCCTATTG-----------------------
+i ponAbe2.chr6 C 0 I 414
+s rheMac2.chr4 108480982 257 + 167655696 ACAGGGAGGCT-TTTACCCTCCACCCTAACATTCAGTCCC------AGCTGAGCC---AATCCAGGATCTGGTTTTCTGTGTATCAGATGCACGATGCACACAACTCTGTTTTATTAAGCATGAAACAAAATCAAGAAGTG--------TAACAGTGCTTTACACTTCTTCTC-TAATTC-TGGCCTTGTATGATCTTATAATATATTAACCTCGGAAACACGACTTTTGCACATGTCAGTTAACTGTACAC-AAATAGTGCCAATT-CCTGCCCTGTT------------------------
+q rheMac2.chr4 99999999999-9999999999999999999999999999------999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999--------999999999999999999999999-999999-99999999999999999999999999999999999999999999999999999999999999999999999-99999999999999-99999999999------------------------
+i rheMac2.chr4 C 0 I 24
+s calJac1.Contig1260 49140 266 - 523245 ACAGGGAGGCT-TTCACCCTCCCTTCTAACAGTCAGTCCC------AGCGGAGCC---AACCCAGGAGCTGGTTTTCTGCATATCAGATGCATGATGTGCACAACTCTATTTTATTAGGCGTGAAACAAAACCAAGAAGTA--------TAACAGTGCTTTACAATTCTTCTC-TAA-TC-TGGGCTTGTAAGATCTT---ATGTTTTCAGCTCAGAAACACTACTTTTGCACATGTCAGTTAACTGTACAC-GAATAGTGCCAATTACCTGCCCTGCC-AATGGGAGTTTG-----------
+i calJac1.Contig1260 C 0 I 394
+s canFam2.chr1 78242454 190 - 125616256 TTCATGAAGATGAGGAAG----------------GGTTCC------AGAGGGGACTGTGGCACAGGACACGGTTT-----------------------------------TTTATTAGGCATGATGCA---------------------T-------CTTTCAAATTCTGCTC-CAGTTTCTGGGCTTATATAATCTGATAATATATTAGCCTCAAAAGTACTACTTTTT--CTTGTCAGTA-ACTGTATACAAAACAGTGCCAGTTACAAGTCCTATT------------------------
+q canFam2.chr1 999999999999999999----------------999999------99999999999999999999999999999-----------------------------------999999999999999999---------------------9-------9999999999999999-99999999999999999999999999999999999999999999999999999999--9999999999-999999999999999999999999999999999999------------------------
+i canFam2.chr1 C 0 I 4
+s felCat3.scaffold_217398 101417 206 - 219823 CCGGGGAGGCCCAGGGCGCCACATCT--GCAGTCAGTCCT------AGAGGAGCC---AACACAGGACCTGGTTTTTTTTT-------------------------TTTCTTTGTTAAGCGTAATATA---------------------T-------CTTTAAAATTCTGCCA-TAATTT-TGGGCTTATACGAACTTATAATATAGTATCTTCAAAAGTACTACTTTTT--CATGTCAGTT-ACTATATAC-AAATGGTGCCAATTACATGCCCT---------------------------
+q felCat3.scaffold_217398 99999999999999999999999999--999999999999------999999999---99999999999999999999999-------------------------9999999999999999999999---------------------9-------9999999999999999-999999-9999999999999999999999999999999999999999999999999--9999999999-999999999-99999999999999999999999---------------------------
+i felCat3.scaffold_217398 I 4363 I 578
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=15950.000000
+s mm9.chr10 3175012 282 + 129993255 aatgatgtgtcacccatattcttgcacctgaaaacttggcccctaattggtga-actgtttgggtaggtttaggaagtatgttcttgctggcagaagtatgtaattgggggtgggctttgaggtttgaaaagccatgtgttgtttccagtgat-----------------------------------aggagccctta-----------------------------------gctcttgcccttagtgatgctgatgtcc-ctggaaccataaataaacaaacaaacccttccc-ttgataagttgcttcggtcatggtgttttatctcagcagtagagaaggcactaagaca
+s rn4.chr1 229990803 346 - 267910886 aatgaaatatcactcattttcttgtacccgaatacttggcccctaattggtggtactgattgggtaggtttaggaagtttgtccttgctggcagaagtatgtaattgggggtgggc-------tttgaaaagtcatgtgttgtttccagtgagctctctctgcttcctgtatgtggttccagatatgagccagccctcagctctcaccttcaagtccagttgccatatgctggcgctcttcccctcagtgatgctgatgccctctggaaccataaac--gcaaataaacccttccctttgacaaggtgcttgggtcatggtgtcttatctcagcagtagagaaggaactaagaca
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108481239 24 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e canFam2.chr1 78242644 4 - 125616256 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 49406 394 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16073175 0 - 170899992 C
+e panTro2.chr6 16596651 0 - 173908612 C
+e ponAbe2.chr6 16378680 414 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=119892.000000
+s mm9.chr10 3175294 309 + 129993255 CTTAGTGATGGG-GTTGGCTT-------------CTGGAACTTTCTGTTCACAGG-------GCTCTGGATGAAGGT------------------------GGGAAG--AAGGCAGCAT-GGAAGA-ACATAACATCAGAATTCTGTAAAGACTGAGTGGAGAAGATAGCGT-----------------------------TGGTGAAATGATCATGTCATCT-ACAC-----AGGGTCTTAGGCT------ACTCAGAGCCACAGGCTGGG----TCCTTTTCCATCGAGGGCAAAA----------GTAAGAGAAGAGGGGATGTGAGATTAGCCACACTGAATTGGCTGAGGGCAGTGGGCAACCTGTGTTGGTCCCGGAAGTGTG--CTACAACCAGAATGTCCTGGGGAA
+s hg18.chr6 16073175 380 - 170899992 ------GATGGGAGCTGGCTTTGCTATTAG------AGGACTTTCTGCTATCGGG------GGTTTGGCATGAAGGTGGTGCCTGATTAGTT-TGATGATGGGAAAA--AACACAGCACCTTAAgaagtacagaatcatagcaacgcagggcc--agtgggaaccacagggtcaccttcccagctcctgcattttacactgcagtgaagaagccaagtgatctgattg-----aggtcacttagctcatgagagccagagccagaggcctagaTACTCTTCCCTCAGC-ACAGCAAAAAGGTGACTCTGTAAGATGAGAGGACCCTAGAGATTCATATC----AAGCAGCATAGGATCTGGGAAATGTTGTCTTGGCCCCTAGAGTGTA--GTGAAAACTGGGTTTTCTGGAGAA
+i hg18.chr6 C 0 I 35
+s panTro2.chr6 16596651 382 - 173908612 ------GATGGGAGCTGGCTTTGCTATTAG------AGGACTTTCTGCTATCGGG------GGTTTGGCATGAAGGTGGTGCCTGATTAGTT-TGATGATGGGAAAA--AACACAGCACCTTAAgaagtacagaatcatagcaacgcagggcc--agtgggaaccacagggtcaccttcccagctcctgcattttacactgcagtgaagaagccaagtgatctgattg-----aggtcacttagctcatgagagccagagccagaggcctagaTACTCTTCCCTCAGC-ACAGCAAAAAGGTGACTCTGTAAGATGAGAGGACCCTAGAGATTCATATC----AAGCAGCATAGGATCTGGGGAATGTTGTCTTGGCCCCTAGAGTGTAGTGTGAAAACTGGGTTTTCTGGAGAA
+q panTro2.chr6 ------999999999999999999999999------9999999999999999999------9999999999999999999999999999999-99999999999999--99999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 35
+s rn4.chr1 229991149 312 - 267910886 CCTAGTGATGGG-GTTGACTTTGTAGTAGGCA-GCTGGAACTTTCTGTTCACATGATGAACAGAAGATGGTGAAGGT------------------------GCAAAG--AAGGCAGCATGGGAAGA-GAATAAAGTCAGAATTCAGTACAGCCTGGGTGGAGAAGATGGGGT-----------------------------TGATGAAGTGACCATGTCATCT-ATGCCTGCTGGGCCCCATGGCT------AGTCAGAGCCACAGAATGGG----TCTGTTCCCAGCTAGGGCA-------------------------------TGTAATTAGCAACACTGAAGTAGCAGCAGGCAATGGGC-ATCTGTGTTGGTCCTCACAGTGTG--GTACAACCAGAATATCCTGGAGAA
+q rn4.chr1 999999999999-9999999999999999999-99999999999999999999999999999999999999999999------------------------999999--99999999999999999-999999999999999999999999999999999999999999999-----------------------------9999999999999999999999-9999999999999999999999------99999999999999999999----9999999999999999999-------------------------------99999999999999999999999999999999999999-999999999999999999999999--999999999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78242648 370 - 125616256 ----------GGAGCTGGCTTTGATATTTGAGCCCTTGACTTCTCTGTCAGCAGG------GGGTTGG-ATGATACTGGTTTCTTACTGATTCCAAAGATGGGAAGAGGGAGGTAGTGTCCTAAGA-TCATAGAATCCTAGAAGTACAGTGCT--GGTGGG-ACTGTGGGATCAACCTTTCAGCCCC--------------TGGTGAGCGGATGAAAAGATCTGCTCG-----AGGTCACATAGCTGGTGAGA-TGAGAGCCACAGGCCTCCATTCTCTGCCCTCTGC-ACGATACAAAGGGGACTTTATAAAATAAAGGGGCCTATGAAATTAACATCACTCAAGTATCATAGGACAT-GGACATTCTGTGTTGGCCCCTGGGGTGTA--GTAAAAACTGGATTTTCTGGAGAA
+q canFam2.chr1 ----------999999999999999999999999999999999999999999999------9999999-999999999999999999999999999999999999999999999999999999999-99999999999999999999999999--999999-9999999999999999999999999--------------999999999999999999999999999-----99999999999999999999-9999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999--999999999999999999999999
+i canFam2.chr1 I 4 I 36
+s rheMac2.chr4 108481263 356 + 167655696 ------------------------------------AGAACTTTCTGCTATCAGG------GGTTTGTCATGAAGGTGGTGCCTGATTAGTT-TGAAGATGGGAAAA--AAGATAGCACTTTAAGACATACAGATTCATAGCAACGCAGGGCC--AGTGGGAACCACAGGGTCACCTTTCCAGCCCCTGCATTTTACCCAGTGGTGAAGAGGCCAAGTGATCCGATTG-----AGGTCACTTAGCTCAGGAGAGCCAGAGCTACCGGCCTAGATACTCTTCCTCCAGC-ACGGCAAAAAGGTGACTCTGTAAGATGAGAGGGCCCTAGAGATTCATGTC----ACGCAGCATAGGATCTGGGGAATGTTGTCTTGGCCCCTGGAGTGTA--GTAAAACCTGGGTTTTCTGGAGAA
+q rheMac2.chr4 ------------------------------------9999999999999999999------9999999999999999999999999999999-99999999999999--99999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999--999999999999999999999999
+i rheMac2.chr4 I 24 I 35
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 49406 394 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e ponAbe2.chr6 16378680 414 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=30645.000000
+s mm9.chr10 3175603 540 + 129993255 TTGCCTGTCTGTGTCCAGTTCTCCCCTCGGCGTAGCCAGGCCCTCTGTGCATCAGGCTAGACTGGAGGAAGGGAAGCTTAGCCAGGCTGGTTGTCAGTGAGATGGAGGACAAAGACCACACACCTGGGAGCAGCTTAGGAGAACTAGTTTAGTTTATGTGGggaa---------------------gggcaaaggcta------------cacatcattggctggggccagagtgctggggatacctcatttgcatgaggaggaatcccaggtgctgctggacatgaccttacaagggggaagcatagtttgacccagctaccagctacgtgacctcctctggtgaggcaagggtggaggGTACAGGGT--TATGTGCACTGAGACTTGCAGGCACAGGGCAGCGGGGGAGTGATCCTACTCCTGCAGATCTCA [...]
+s rn4.chr1 229991461 543 - 267910886 TTGCCTGCCCATGTCCAGTTCTCCCCTCGGGGTAGCCAGGCCCACTGTGCACAGGGCTGGACTGGAGGGAGGGAAACTTAGCTAGGTTGGTTGTTGgtgagatc--atacaaagaacatacatctgggagcagcttaggagagctggtttagctttttgggggggctatttaagcctttgttgggtgagtagaggctaccagggtgagtgcacatcattggctggggctagggtgctgaggatgcctcatttgtatgaggaagaattctaggtgtgactggacatgaccttataagggggaaatgaagttaaacctgGCTACCAGCTATATGCCCTCCTGTGGTGAGGAAAGGGTGGAGAGTACAGGGTTGTATGTGCACTGAGACATGCAGGCACAGGGCGGTGGGGGAGCGATCCTACTCCTGCAGATCTCA [...]
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 I 7
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108481619 35 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e canFam2.chr1 78243018 36 - 125616256 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 49406 394 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16073555 35 - 170899992 I
+e panTro2.chr6 16597033 35 - 173908612 I
+e ponAbe2.chr6 16378680 414 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=0.000000
+s mm9.chr10 3176143 481 + 129993255 ctcctttggtaaagtgtctacacttgcatgctccggactggccagcaagaacgacacttgcaacagaatccttctgcacacgtttattgggagagcttgattgcagaggcgaagagaccccgagcccagaactggtgctgcttatataggcctaggaaaggcgtatctcatacccggattggttatgtactaagcctcatttgcatgttcctcatctgattggctactctctctctctctctctctctctctctctctctctctctctctgtacctcacagagcctcattatcatacctcatttgcatgtctcacatctgattggttatactctcaaagcctcattatcatgcccgggccccgcagtgtctttgcaaaaaactttactgtatatgtacacattggttgtttgtccaaacttatgcgtggtggcc [...]
+e rn4.chr1 229992004 7 - 267910886 I
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108481619 35 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e canFam2.chr1 78243018 36 - 125616256 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 49406 394 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16073555 35 - 170899992 I
+e panTro2.chr6 16597033 35 - 173908612 I
+e ponAbe2.chr6 16378680 414 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=13376.000000
+s mm9.chr10 3176624 249 + 129993255 tctaccatgcaagcatgaagactcaggctcatacagtggaggatgagcaaggagaggcctggagtg------acagcaagtctagcccaattggggagtgccaggttcagtaagagacAGTGGGTGGAATGGgtgcgtgcgtgtatgtgagtgtgcgtgtgcatgtgtgtgtTCAAAGATAATACCTGGCATTGATCACTGGTCATTATACACGCACACCCCTTTGTACCCCATTCCCCAGACTCCGTAGTTGTG
+s rn4.chr1 229992011 245 - 267910886 tctaccatgcaagcatgaagacccaggctcatacagtggagggggagcagagacaggcctggagtgtgcccgccagcaagtctagcc-aattggtgagggccaggttcagcctcaaaagataaatggtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgttatcaaagataattcctggcattgatcactggcctcca---------atatacatgtacCCCATTTCCCACACTCCCTGGTTGTG
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------99999999999999999999999999999999999999
+i rn4.chr1 I 7 C 0
+e bosTau3.chr9 13705181 1739 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108481619 35 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e canFam2.chr1 78243018 36 - 125616256 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 49406 394 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16073555 35 - 170899992 I
+e panTro2.chr6 16597033 35 - 173908612 I
+e ponAbe2.chr6 16378680 414 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=117467.000000
+s mm9.chr10 3176873 69 + 129993255 AGAGCTGGCATTTTCC-AAGCCACAGTTAGAGCAAGCATGTGGGAATTTTGTGTCAGAGAGCCAGCAG-AG
+s rn4.chr1 229992256 67 - 267910886 AGAGCTGGCATTCTCC-AAGCCACAGTTAGAGCAAACATGTGGGGATTTTGTGCCAGAGAGCTAGCGG---
+q rn4.chr1 9999999999999999-999999999999999999999999999999999999999999999999999---
+i rn4.chr1 C 0 I 3
+s rheMac2.chr4 108481654 68 + 167655696 AGGGCTGATATCCCATGAAGCCACGAGCATAGCAAACTTGTGGGAATTTTGTATTGAAGAACTTGAAG---
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999999---
+i rheMac2.chr4 I 35 I 122
+s ponAbe2.chr6 16379094 68 - 174210431 AGGGCTGGCATCCCATGAAGCCGCGAGCATAGCAAACTTGTGGGAATTTTGTGTTGAAGAACTCGAAG---
+i ponAbe2.chr6 I 414 I 434
+s panTro2.chr6 16597068 68 - 173908612 AGGGCTGGCATCCCGTGAAGCCGCGAGCATAGCAACCTTGTGGGAATTTTGTGTTGAAGAACTCGAAG---
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999---
+i panTro2.chr6 I 35 I 94
+s hg18.chr6 16073590 68 - 170899992 AGGGCTGGCATCCCGTGAAGCCGCGAGCATAGCAAACTTGTGGGAATTTTGTGTTGAAGAACTCGAAG---
+i hg18.chr6 I 35 I 94
+s calJac1.Contig1260 49800 51 - 523245 -----------------AAGCCATGGGTATGGCAAAGCTGTGGGAATTTTGTGTTGAAGAACTTGAAG---
+i calJac1.Contig1260 I 394 I 94
+s canFam2.chr1 78243054 71 - 125616256 AGAGCTGACATTTTGTTGAGCCATAATTGTGGCAGACTTGTGGGGATTTTGTGTGGAAGAACCCAAAAGAG
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 36 I 275
+s bosTau3.chr9 13706920 71 - 95030419 AGAGTGGACATTTTCTCAAGCCACGATTATGGAAAACTTGTGGGGATTTTGTGTGAAAGAACCCAGAAGAT
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 1739 I 61
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=2399.000000
+s mm9.chr10 3176942 18 + 129993255 GTGTA----------GTACATAGCTGGC-
+s rn4.chr1 229992326 18 - 267910886 GTGCA----------GTGCATAGCTGGC-
+q rn4.chr1 99999----------9999999999999-
+i rn4.chr1 I 3 C 0
+s hg18.chr6 16073752 18 - 170899992 GCATA----------ATAAATATTTGGT-
+i hg18.chr6 I 94 I 301
+s panTro2.chr6 16597230 18 - 173908612 GCATA----------ATAAATATTTAGT-
+q panTro2.chr6 99999----------9999999999999-
+i panTro2.chr6 I 94 I 302
+s calJac1.Contig1260 49945 18 - 523245 GCATA----------ATACATATTTGGT-
+i calJac1.Contig1260 I 94 I 7
+s canFam2.chr1 78243400 20 - 125616256 GAATA---------TCCACAGCTCTTGTC
+q canFam2.chr1 99999---------999999999999999
+i canFam2.chr1 I 275 C 0
+s bosTau3.chr9 13707052 29 - 95030419 GAATATCAGGAATGTCCACAGCTCTGGTC
+q bosTau3.chr9 99999999999999999999999999999
+i bosTau3.chr9 I 61 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108481722 122 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 101623 578 - 219823 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e ponAbe2.chr6 16379162 434 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=85643.000000
+s mm9.chr10 3176960 104 + 129993255 AAATGAGGG-------AAAACTGAGATGAAAACCAGGGAGCCA-GACAAACGCACCTAGAGGGATCTTGAT-GGGTGGGG----------CCTACAGCTTTACCCACCACCTCC-------------TCTCCAACC
+s rn4.chr1 229992344 104 - 267910886 AAATGAGGG-------AAAACTGAAATGAAAACCAAGGAGCCA-GACAAGTGGATCTAGAGGGATCATGAT-GGGTGGGG----------CCTACAGCCTTACCCATCACCACC-------------TCTCCAACC
+q rn4.chr1 999999999-------999999999999999999999999999-999999999999999999999999999-99999999----------999999999999999999999999-------------999999999
+i rn4.chr1 C 0 I 59
+s ponAbe2.chr6 16379596 109 - 174210431 aaaaaaaaa-------aaaaa--aGGTGAGAAGATGAGGGTTA-GACAGGTTCACCCGAAAGAACACTGACAGGGTGGGGA----GAAATTATACAACTTTATTGATTTATGCG-------------TCTCCAAAC
+i ponAbe2.chr6 I 434 I 14
+s rheMac2.chr4 108481844 104 + 167655696 --ATGAAAG-------AAAGGTG-----AGAAGGTGAGGGTCA-GACAGGTTCACCCGAAAGAATACTGACAGGGTGGGGG----GAAATTACACAACTTTATTGATTTACACG-------------TTTCCAAAC
+q rheMac2.chr4 --9999999-------9999999-----999999999999999-9999999999999999999999999999999999999----99999999999999999999999999999-------------999999999
+i rheMac2.chr4 I 122 I 14
+s calJac1.Contig1260 49970 106 - 523245 GTATGAAAG-------AAAGGTG-----AGAAGGTGAGGGTCA-GACAGGTTCAACCAAAAGAATACTGACAGGGTGGGGG----AAAATTATACAAATTTATTGATTTACACG-------------TCTCCAAAC
+i calJac1.Contig1260 I 7 I 14
+s canFam2.chr1 78243420 102 - 125616256 ATAGGGGGTTAA----TGGAGGAATGGGAGAAGCAGAGGGTTG-GACAGGTTCATCAAGAAGA----------------------------ACACAACCTCATTGATTTATACC-CTGAAGCTGTGGTCTTCATTC
+q canFam2.chr1 999999999999----999999999999999999999999999-9999999999999999999----------------------------99999999999999999999999-999999999999999999999
+i canFam2.chr1 C 0 C 0
+s panTro2.chr6 16597550 95 - 173908612 -----------------------AGGTGAGAAGATGAGGGTCA-GACAGGTTCACCGGAAAGAATACTGACAGGGTGGGGG----GAAATTATACAACTTTATTGATTTATGCA-------------TCTCCAAAC
+q panTro2.chr6 -----------------------99999999999999999999-9999999999999999999999999999999999999----99999999999999999999999999999-------------999999999
+i panTro2.chr6 I 302 I 14
+s hg18.chr6 16074071 95 - 170899992 -----------------------AGGTGAGAAGATGAGGGTCA-GACAGGTTCACCGGAAAGAATACTGACAGGGTGGGGG----GAAATTGTACAACTTTATTGATTTATGCA-------------TCTCCAAAC
+i hg18.chr6 I 301 I 14
+s felCat3.scaffold_217398 102201 112 - 219823 ----------------TAAGGAAAAAATGGGAGCGGGGGGATGCGACAGGTTCGCTAAGAAGAGTG-TGGCAGGTTGGG------GGGATTGTGCAGCCTCATCGGTTTACACT-GCTAAACTCTGGTCTTCATCC
+q felCat3.scaffold_217398 ----------------99999999999999999999999999999999999999999999999999-999999999999------99999999999999999999999999999-999999999999999999999
+i felCat3.scaffold_217398 I 578 C 0
+s bosTau3.chr9 13707081 131 - 95030419 ---TGAGGGGGTTCCAGAAAGAAAGATGAGGAGGTGAGAGCCA-GACGGCATCCCTCAGAGGAGGA-TGGCAGATGGAGGGAGGTGGGCTCCTACAGCCTTCACCATTCACCCCTTCGGAGTTGGGGTCTTCAACC
+q bosTau3.chr9 ---9999999999999999999999999999999999999999-9999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=89380.000000
+s mm9.chr10 3177064 93 + 129993255 TCATCTAGGCTTTTCATTGTCTTTG----------------CAAC-------------AGTGTGCTCCCCAGTGCCAGGTAGGTGCACAAGACCTTATGGTGAACA--G----GGAGCGCTAATGGAT
+s bosTau3.chr9 13707212 74 - 95030419 TCAGCCAGGATTTCTT-TTCTGTTT-TCTATTTTATC----CAGC----CAGTATCTGAG---------------------------------------GTGGTCCATC----AACAGAAGCAT-GCA
+q bosTau3.chr9 9999999999999999-99999999-99999999999----9999----99999999999---------------------------------------9999999999----99999999999-999
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 102313 110 - 219823 TCAACCAGAATTTTCC-TCATTTTG-TCTCTTC-GTC----TAGC----CACTATTTGAGTGC-C-TGTTTGGGCCCTGGC-CCCTGCACGCTGCAATGGGGAATAATT----CAGACAGGCGTGGTC
+q felCat3.scaffold_217398 9999999999999999-99999999-9999999-999----9999----99999999999999-9-999999999999999-999999999999999999999999999----999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78243522 117 - 125616256 TTAACCAGGATTTTCCTTCTTTTTG-TCTCTTCTGTCCAAACAGT----CAGTATTGGAGTGC-TGCCTTTGTGCCAGGGA-GTGTGCTTGGTGCCACAGTGAATAATT----AAGACAGGCCTGGTC
+q canFam2.chr1 9999999999999999999999999-9999999999999999999----99999999999999-99999999999999999-999999999999999999999999999----999999999999999
+i canFam2.chr1 C 0 C 0
+s calJac1.Contig1260 50090 117 - 523245 TCAGCTGGACTCTTCCTTCCTTTTATTCACTTTCATT----CAACCAGTCAATCCCTAAGTGC-TTCCTTTTTGCTGGACA-GTGCACAT-GCGAAATGGTAAATAATG----CAGACATACATGGCC
+i calJac1.Contig1260 I 14 C 0
+s rheMac2.chr4 108481962 114 + 167655696 TCAGCTGAACTTTTCCTTCATTTTTTTCTCTTTCATT----CAAC----GAATCCCGAAGTGC-TTCCTTTGTGCTGGGCA-ATGCAGGTGGCGAAATGGTAAATAATG----TGGCCATGCATGGTC
+q rheMac2.chr4 9999999999999999999999999999999999999----9999----99999999999999-99999999999999999-999999999999999999999999999----999999999999999
+i rheMac2.chr4 I 14 C 0
+s ponAbe2.chr6 16379719 114 - 174210431 TCAGCTGGACTTTTCCTTCCTTTTTTTCTTTTTCATT----CAAC----CAATCCCAAAGTGC-CGCCTCTGTGCTGGGCA-ATGCAGGTGGCGAAATGGTAAATAATG----CGGCCATGCATGGTC
+i ponAbe2.chr6 I 14 C 0
+s panTro2.chr6 16597659 118 - 173908612 TCAGCTGGACTTTTCCTTCCTTTTTTTCTCTTTCATT----CAAC----CAATCCCAAAGTGC-TTCCTCTGTGCTGGGCA-GTGCAGATGGCGAAATGGTAAATAATGCGGCCGGCCATGCATGGTC
+q panTro2.chr6 9999999999999999999999999999999999999----9999----99999999999999-99999999999999999-9999999999999999999999999999999999999999999999
+i panTro2.chr6 I 14 C 0
+s hg18.chr6 16074180 114 - 170899992 TCAGCTGGACTTTTCCTTCCTTTTTTTCTCTTTCATT----CAAC----CAATCCCAAAGTGC-TTCCTCTGTGCTGGGCA-GTGCAGGTGGCGAAATGGTAAATAATG----CGGCCATGCATGGTC
+i hg18.chr6 I 14 C 0
+e rn4.chr1 229992448 59 - 267910886 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=322272.000000
+s mm9.chr10 3177157 432 + 129993255 GTGGCTGTGTCTTagggagggagggaggga-gggaggga-------------gggaggcaggTGTAGGCT-GGTGAGTGCACTGTAGCTCAC--------ACAGGTTCCAGGAAGG----------------------------GAGTGTC--AAGCCT---------TATCATGATCAGCTGACCTCTTCTTGCTGGTGTGAAATCAGAA-------TTTAGGCTGGAGGATGGA----------CCTTGTAGGTAGATGAG-TATTGCGG-GAGAGTTGAACTGG----TAGAGAGAGTC--AGGTGGTTGAC--AA--------------------AGTGGTTAGAGCACAAGGGGAGAGGACCGGAT-----GTCAGGGAGGCAGGCAGCAACAGAT-------AGATCACCACAAGTTTTATTAGCTGC [...]
+s hg18.chr6 16074294 440 - 170899992 CTGGCCCTCTGT---------------GGC-GGGAGGCA-------------GGGGGCTCGCTGCAGCAT-AATGAACACATAAACAGTCACAGGTTTGGAAAGGCTTGTGAAGGG-------------CACAGCGAATAACA-GAATGCT--GGGCTCCTTCA--TATACCGTGGCCAGCTGAAGCCTCCCTGCAGATGTGAAG--GGAG-------CTGAGACTGAGC----------------cattctaggtagatgggacctcacag-ggaaa--ggcctcg----agataggagcccgaggtgcttggc--cagca---------tccagcatagtggttaggg-----gagaatgtggccgga------gatggagatgc------cttcagga-------agatcacactggacctttttggctgt [...]
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16597777 416 - 173908612 CTGGCCCTCTGT---------------GGC-GGGAGGCA-------------GGGGGCTCGCTGCAGCAT-AATGAACACATAAACAGTCACAGGTTTGGAAAGCCTTGTGGAGGG-------------CACAGCGAATAACA-GAATGCT--GGGCTCCTTCA--TATACCGTGGCCAGCTGAAGCCTCCCTGCAGATGTGAAG--GGAG-------CTGAGACTGAGC----------------cattctaggtagacgggacctcacag-ggaaa--ggcctcg----agataggagcccgaggtgcttggc--cagca---------tccagcatagtggttaggg-----gagaatgtggccgga------gatggagatgc------cttcagga-------agatcacactggacctttttggctgt [...]
+q panTro2.chr6 999999999999---------------999-99999999-------------999999999999999999-999999999999999999999999999999999099999999999-------------99999999999999-9999999--99999999999--999999999999999999999999999999999999999--9999-------999999999999----------------99999999999999999999999999-99999--9999999----999999999999999999999999--99999---------9999999999999999999-----999999999999999------99999999999------99999999-------99999999999999999999999999 [...]
+i panTro2.chr6 C 0 I 57
+s ponAbe2.chr6 16379833 403 - 174210431 CTGGCCCTCTCT---------------GGC-GGGAGGCA-------------GGGAGCTCACTGCAGCAT-AACGAACACATAAACAGTCACAGGTTTGGAAAGGCTTGTGGAGGG-------------CACGGCGAATAACA-GAATGCT--GGGCTCCTTCA--TATACCGTGGTCAGCTGAAGCCTCCCTGCAGATGTGAAG--GGAG-------CTGAGACTGAGC----------------CATTCTAGGTAGATGGGACCTCACAG-GGAAA--GGCCTCG----CGATAGGAGCCCGAGGTGCTTGGC--CAGCA---------TCCAGCATAGTGGTTAGGG-----GAGAATGTGGC------------GGGAGATGC------CTTCAGGA-------AGATCACACTGGACCTTTTTGGCTGT [...]
+i ponAbe2.chr6 C 0 I 2451
+s rheMac2.chr4 108482076 425 + 167655696 CCGGCCCTCTGT---------------GGC-AGGAGGCA-------------GGGGGCTCGCGGCAGCAT-AACAAACACAGAAATAGTCACAGGTTTGGAAAGGCTTGTGGAGGG-------------CACAGCGAATAATG-GAGTGCT--GGGTTCCTTCA--GATACGGTGGTCATCTGAAGCCTCCCTGCGGATGTGAAG--GGAG-------CTGACCCTGAGCCATAGG-AGGTGAGAACATTCGAGGTAGACAGAACCTCACAG-GGAAA--GGCCTCG----AGATAGGAGCTCGAGGTGCTTGGC--CAGCA---------TCCAGCATAGTGGTTAGGG-----GAGCATGTGGC------------CAGAGATGC------GTCCAGGA-------AGATTACACTGGACTTTTTTGGCTGT [...]
+q rheMac2.chr4 999999999999---------------999-99999999-------------999999999999999999-999999999999999999999999999999999999999999999-------------99999999999999-9999999--99999999999--999999999999999999999999999999999999999--9999-------999999999999999999-99999999999999999999999999999999999-99999--9999999----999999999999999999999999--99999---------9999999999999999999-----99999999999------------999999999------99999999-------99999999999999999999999999 [...]
+i rheMac2.chr4 C 0 I 57
+s calJac1.Contig1260 50207 422 - 523245 CTGGCCCTCTGT---------------GGCAGGGAGGCA-------------GGGGGGTCACTGCAGCAT-AATGAGCACATGAACAGTCACAGGTTTGGAAAGCCTTGTGGAGGG-------------AATAGCGAATAATAGGAGTGCT--GGGCTCCTTCG--TATACCACAGTCAGTGGAAGCTTCCCCATGGAGGTGAAG--GGAG-------CTGAGACTGAGCCCCAAGTTGGTGAGAACATTCTAGGTAGATGGGACCTCACAG-GGAAA--GGCCTGG----AGATAGGAGCCTGAGGTGCTTGGC--CAGCA---------TCCAGCATAGTGGTTAGGG-----GAGAATGTGGC------------CGGAGATGC------CTCCGGGA-------AGATCACACTGGACTTTTTTGGCTGT [...]
+i calJac1.Contig1260 C 0 I 2658
+s canFam2.chr1 78243639 478 - 125616256 CTGGCCTTGTGT---------------TTCAGAGAGGGA-------------GAGAGGCACATGAGGGAT-----AACGAGTCACAACTCACAAATTTGCCAAGTCCCATGAAGGAAGCCAACAGGATTCATAGGGAGGAACA-GGGATCTTTGGGTTATCTTA--TCCACCTGGATCAACTGGGGCCT-CCTGC-GATGTGCTCTTGGAAG------CTGAGGCTGAGGTACCAGGAGGCTAGATCATTCTCGGT-----GAAT------G-GAACA--Tgccttgaggtagacaggagcctgaggtctggaaggtaggtaaaaccagtgtccagcatagtagtcgggg-----gagaatgtggcccgaggtgaagttggagaggc------aggtaggaggctaacagaccaaaacggacttcactggct-t [...]
+q canFam2.chr1 999999999999---------------999999999999-------------999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999--99999999999999999999999-99999-9999999999999999------99999999999999999999999999999999999999-----9999------9-99999--9999999999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999------999999999999999999999999999999999999999-9 [...]
+i canFam2.chr1 C 0 I 12
+s felCat3.scaffold_217398 102423 418 - 219823 CCAGCTCTGTGT---------------TGTAGAGAGGGA-------------CAGAGGCAAATGAGGACT-AATGAACAAGTAAAAAGTCAGAAGTTTGCTAAGTCTTATGAAGGAAGCCACCAGGATCCACAGGGAAGAACA-GGGGTCTTTGGGCTACTTTAGGTCCA---GGATCAGCTGGGGCCTCCCTGC-GA---------AGAAGATCATTCTAGGGCGGAGGAAC-----------AGCATTC----------------------AGGCA--TGCCCGGGAGTAGAAAGAAGCTTGAGGGCTGGAGG--AAGTAAA-------TAAAGCAT-GTAGTTGGCG-----GAGAATTTGGCC--AGATGAAGCCGGAGAGGC------AGGTAGGAGGCCAACAGACCAGACTGGACTTTGCTGGCT-T [...]
+q felCat3.scaffold_217398 999999999999---------------999999999999-------------999999999999999999-999999999999999999999999999999999999998999999999999999999999999999999999-99999999999999999999999999---9999999999999999999999-99---------99999999999999999999999999-----------9999999----------------------99999--99999999999999999999999999999999999--9999999-------99999999-9999999999-----999999999999--999999999999999999------999999999999999999999999999999999999999-9 [...]
+i felCat3.scaffold_217398 C 0 I 3956
+s bosTau3.chr9 13707286 438 - 95030419 CGGGCCTCATGT---------------TTTAGAGAG-----------------AGAGGCAAATGCAGACT-AATGAACAAAGAGGTGCTCACAGGCTCGCTAAGTCCTAGGAAGGAAGCAGACAGGACATTCAGTGATGAACA-A--------TGGTGATGTTCAGTGGA---GACCTTCCTGGGGTctccctgt-aatgtgatatctgag-------ctgaga-tgaggggtgaggaggaatccgcattccaggttcaaggagtatcatgg-ggaca--ggtgttgaggtagaaaggacc----------------aaatatcctccatgtcgagcatggtggtctgag-----gaggataatgcaggacatgaagttggagaggt------gggcaggacccagaCAGACCAGTCTGAACTTTGCTGGTTGC [...]
+q bosTau3.chr9 999999999999---------------999999999-----------------99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999-9--------99999999999999999---9999999999999999999999-999999999999999-------999999-99999999999999999999999999999999999999999999999-99999--999999999999999999999----------------999999999999999999999999999999999-----99999999999999999999999999999999------99999999999999999999999999999999999999999 [...]
+i bosTau3.chr9 C 0 I 2233
+s xenTro2.scaffold_82 503286 403 - 3106341 GTGGGAGTATGT---------------TGG-GGGATGAAGGATCCCGCCAGTGGGAATATGTTGGGGGATGAAGGATCCCGTCAGTGGGAATATGTTGGGGGA------TGAAGGA-------------TCCAGC-AGTGGGA-GTATGTT--GGGAGATCAAG--GATACTT---CCAGTTGGAGAATGTTGG--GGGATGAAG--GATC-------CCGCCAGTGGGAATA-------------TGTTGGGGGATGAAGGATCCCGTCAGTGGGAA--TATGTTG----------GGGGATGAAGGATTCAGT--CAGTG---------------AGAGTATGTTGGG-----GA-------------------ATCAAGGATAC------TTCCAGTT-------GGA-------GAATGTTGGTGGATGA [...]
+i xenTro2.scaffold_82 N 0 C 0
+e rn4.chr1 229992448 59 - 267910886 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-467.000000
+s mm9.chr10 3177589 49 + 129993255 Ttttatttt--tatttttgtgtctgtgtatatgtgcacatcagtgcagtgc
+s xenTro2.scaffold_82 503689 50 - 3106341 TCCAGTTGGAGTATGTTTGTGGATGAGGA-ATCCCTCCATTGGGAATATGC
+i xenTro2.scaffold_82 C 0 C 0
+e rn4.chr1 229992448 59 - 267910886 I
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482501 57 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244117 12 - 125616256 I
+e ornAna1.Contig26256 11355 1 - 17492 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 50629 2658 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16074734 0 - 170899992 C
+e panTro2.chr6 16598193 57 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-8512.000000
+s mm9.chr10 3177638 66 + 129993255 ctgtagaggccagtaaaaggcgtcaaatcccctagagctggaggtacaggt----gagcctcccgatgt--------a
+s ornAna1.Contig4816 8222 78 - 31421 CTGAGAAATCCAGGAGCAGGAATCCGGTCACCGAGGTGTGATTGTTCATCTTCTGGAGCCTTCCAATGTTACCTGCTG
+i ornAna1.Contig4816 n 1 C 0
+s anoCar1.scaffold_1870 5827 49 + 47757 --------aatagaagataaaatttggaaagCCCGGGATGGTG------------GAGCCT-CTGATGTT--------
+q anoCar1.scaffold_1870 --------99999999999999999999999999999999999------------999999-99999999--------
+i anoCar1.scaffold_1870 N 0 I 1
+s xenTro2.scaffold_82 503739 44 - 3106341 --------TGTGAGATGAAGGATCCTGCCAGTGGGAGTATGTTGGGGAT------GAG--------------------
+i xenTro2.scaffold_82 C 0 C 0
+e rn4.chr1 229992448 59 - 267910886 I
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482501 57 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244117 12 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 50629 2658 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16074734 0 - 170899992 C
+e panTro2.chr6 16598193 57 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-2620.000000
+s mm9.chr10 3177704 36 + 129993255 agagctggggagcaaagtttgtc-----ctgtgcaagagca
+s rn4.chr1 229992507 36 - 267910886 AGTGCTAGGGGAACAAATTTGTC-----CTGTGCAAGAGCA
+q rn4.chr1 99999999999999999999999-----9999999999999
+i rn4.chr1 I 59 C 0
+s ornAna1.Contig4816 8300 41 - 31421 AGGGAGGAAGAAGAAAGATAGCCAGGATCTCTTAATTAGTA
+i ornAna1.Contig4816 C 0 I 1
+s anoCar1.scaffold_1870 5877 36 + 47757 TGAGCTTAGCGGTAGAGGATGCT-----CTGAGATGGAGGC
+q anoCar1.scaffold_1870 99999999999999999999999-----9999999999999
+i anoCar1.scaffold_1870 I 1 I 3
+s xenTro2.scaffold_82 503783 35 - 3106341 -GGATCCCGCCAGTGGGAGTATG-----TTGGGGATGAGGG
+i xenTro2.scaffold_82 C 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482501 57 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244117 12 - 125616256 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 50629 2658 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16074734 0 - 170899992 C
+e panTro2.chr6 16598193 57 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-12242.000000
+s mm9.chr10 3177740 34 + 129993255 ATCTCTCTCAGCAGGCC-CCTATTCTG--TGGTCTAG
+s hg18.chr6 16074734 31 - 170899992 ----atcacacaaaaccacatactgta--tgattctg
+i hg18.chr6 C 0 I 2
+s rn4.chr1 229992543 34 - 267910886 ATCTCTCCCTCCAGGCT-CCTATTCTG--TGGTCTTG
+q rn4.chr1 99999999999999999-999999999--99999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78244129 24 - 125616256 -----------aaaaccatatattgta--ggattcta
+q canFam2.chr1 -----------9999999999999999--99999999
+i canFam2.chr1 I 12 I 2
+s ornAna1.Contig4816 8342 34 - 31421 ATTGGTTTTTAGAATAC-CCTATTCAA--AAGTTTGG
+i ornAna1.Contig4816 I 1 I 5
+s anoCar1.scaffold_1870 5916 24 + 47757 -------------GgctagatgttataagctaagCAG
+q anoCar1.scaffold_1870 -------------999999999999999999999999
+i anoCar1.scaffold_1870 I 3 N 0
+s xenTro2.scaffold_82 503818 33 - 3106341 -ATCCTGCCAGTGGGAG-TATGTTTGG--GGATGAGG
+i xenTro2.scaffold_82 C 0 N 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482501 57 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 50629 2658 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e panTro2.chr6 16598193 57 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-25710.000000
+s mm9.chr10 3177774 49 + 129993255 TGTGTAAAGtgtatagaaac-catttatg----tgtgaagtctcta-------------------ggcaag---gt
+s anoCar1.scaffold_444 1112808 34 + 1127981 GGTGCAG---CCTCAGAAAT-GGTGGA--------------------------------------AGCCCAGTGAT
+q anoCar1.scaffold_444 9999997---9999999999-099999--------------------------------------99999999999
+i anoCar1.scaffold_444 N 0 I 30
+s galGal3.chr28 1883227 70 + 4512026 GATGCAGGATGCTTAGAGAC-TGGGGATA----TGGGATGC-TCCAGGATGTGGGGATGCTCCAGGACACAGGGAT
+i galGal3.chr28 N 0 I 60
+s ornAna1.Contig4816 8381 35 - 31421 CTTGCCATTTGCGTAGTAAC-TCT---CA----TGAGAGAAGT---------------------------------
+i ornAna1.Contig4816 I 5 C 0
+s canFam2.chr1 78244155 45 - 125616256 tatgggaaatgtctagaatc-cat---ta----tgtaaaatagcca-------------------ggcagat----
+q canFam2.chr1 99999999999999999999-999---99----9999999999999-------------------9999999----
+i canFam2.chr1 I 2 I 5
+s hg18.chr6 16074767 49 - 170899992 tatgtgaaatgtgcaggatc-cat---ta----tgtgaaacatcca-------------------ggcaaatccat
+i hg18.chr6 I 2 I 2
+s panTro2.chr6 16598250 49 - 173908612 tatgtgaaatgtgcaggatc-cat---ta----tgtgaaacatcca-------------------ggcaaatccat
+q panTro2.chr6 99999999999999999999-999---99----0999999999999-------------------99999999999
+i panTro2.chr6 I 57 I 2
+s rheMac2.chr4 108482558 49 + 167655696 TATGTGAAATGTGCAGAATC-CAT---TA----TGTGAAACATCCA-------------------GGCAAATCCAT
+q rheMac2.chr4 99999999999999999999-999---99----9999999999999-------------------99999999999
+i rheMac2.chr4 I 57 I 2
+s rn4.chr1 229992577 52 - 267910886 TGTGTAAAGTGTGTAGAAAC-CATATACa----tgtgaaacatcta-------------------ggcagatccag
+q rn4.chr1 99999999999999999999-99999999----9999999999999-------------------99999999999
+i rn4.chr1 C 0 C 0
+s oryLat1.chr20 1562248 50 - 24728221 -gtggaggatgtacggagacatgtacgga----ggtggaggatgta-------------------cggaggtgg--
+q oryLat1.chr20 -9999999999999999999999999889----9999999999999-------------------999999999--
+i oryLat1.chr20 N 0 C 0
+s xenTro2.scaffold_942 62326 41 + 286514 --TGTAAATTATGTTGATTT-TGGGAGCAGAGCTTTGGAACCTT--------------------------------
+i xenTro2.scaffold_942 N 0 I 17
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1260 50629 2658 - 523245 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-29154.000000
+s mm9.chr10 3177823 31 + 129993255 agacagaaggtagactagttgt---------ccagaggtg
+s rn4.chr1 229992629 31 - 267910886 acatgaaaggtagaccagttgt---------ccagaggtg
+q rn4.chr1 9999999999999999999999---------999999999
+i rn4.chr1 C 0 I 2360
+s hg18.chr6 16074818 22 - 170899992 agacagaaagtagactagtagt------------------
+i hg18.chr6 I 2 I 2315
+s panTro2.chr6 16598301 22 - 173908612 agacagaaagtagattagtagt------------------
+q panTro2.chr6 9999999999999999999999------------------
+i panTro2.chr6 I 2 I 2312
+s rheMac2.chr4 108482609 34 + 167655696 AGACAGAAAATAGATGAATAGTTGT------TCAGGGCTG
+q rheMac2.chr4 9999999999999999999999999------999999999
+i rheMac2.chr4 I 2 I 2216
+s calJac1.Contig1090 532595 31 - 534459 agaCACAA---AGATATGCAGTTGC------AGAGAGAGG
+i calJac1.Contig1090 n 2658 I 26
+s canFam2.chr1 78244205 34 - 125616256 ggcttagaaatagatcagtggtttc------ccagtggtg
+q canFam2.chr1 9999999999999999999999999------999999999
+i canFam2.chr1 I 5 I 2487
+s ornAna1.Contig4816 8416 11 - 31421 -GGCTGAA---AGAT-------------------------
+i ornAna1.Contig4816 C 0 C 0
+s galGal3.chr28 1883357 37 + 4512026 GGGATGCAGGATGGTTAGAGATTGGGGA---TATGGGTTG
+i galGal3.chr28 I 60 I 22
+s anoCar1.scaffold_444 1112872 40 + 1127981 GAAATGGTGGAAGCCCAGTGATGGTGGAGCCTCAGAGTTG
+q anoCar1.scaffold_444 9999999999999899999999999999969999999999
+i anoCar1.scaffold_444 I 30 C 0
+s xenTro2.scaffold_942 62384 40 + 286514 GGAATGCTGGGATACTGGGAATGCTGGGATACTGGGGATG
+i xenTro2.scaffold_942 I 17 I 45
+s oryLat1.chr20 1562298 28 - 24728221 aggatgtacggagACATGTAC------------AGAGGTG
+q oryLat1.chr20 988999999999999999999------------9999999
+i oryLat1.chr20 C 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-20481.000000
+s mm9.chr10 3177854 24 + 129993255 -----------gcatggagggacaa-----------tgggg---------------------agtga
+s anoCar1.scaffold_444 1112912 32 + 1127981 -----------GTGCAGCCTCACAA-----------ATGGT-------------GGAAGCCCAGTGA
+q anoCar1.scaffold_444 -----------99999999999999-----------99999-------------9999989999999
+i anoCar1.scaffold_444 C 0 C 0
+s xenTro2.scaffold_942 62469 45 + 286514 -----------GAATGATGGGATAC-----------TGGGAATGCTGGGATACTGGGAATGCCGGGA
+i xenTro2.scaffold_942 I 45 C 0
+s fr2.chrUn 86683798 24 - 400509343 GGAGCTAA---AGAGTGTTGGGAGC-----------TA-----------------------------
+i fr2.chrUn N 0 C 0
+s oryLat1.chr20 1562326 38 - 24728221 GAGGATGTATGGAGGTGGAGGATGTACAGAGACATGTA-----------------------------
+q oryLat1.chr20 99999999999999999999999999999999999999-----------------------------
+i oryLat1.chr20 C 0 C 0
+s gasAcu1.chrXI 1456221 16 - 16706052 -----------GGACTACAGGATGC-----------TA-----------------------------
+q gasAcu1.chrXI -----------99999999999999-----------90-----------------------------
+i gasAcu1.chrXI N 0 C 0
+e rn4.chr1 229992660 2360 - 267910886 I
+e galGal3.chr28 1883394 22 + 4512026 I
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e ornAna1.Contig4816 8427 0 - 31421 C
+e loxAfr1.scaffold_4233 44902 12127 + 124190 I
+e calJac1.Contig1090 532626 26 - 534459 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_284118 64412 13424 - 169015 I
+e otoGar1.scaffold_334.1-359464 332567 19112 - 359464 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-71006.000000
+s mm9.chr10 3177878 140 + 129993255 ---cagtgga-gg---------------------atac-tgggAGG---------------TGGTGGA--------------T-G--CCGA---GAGATGGA-------------------GGATG---------------------------CTGGGAGGTGGA-GG---------------------ATG-CTGAGAGATGGAGGATGCTGGGAGGTG---GAGGATGCCGAGAGATGGAGGATGCTGGGA-GGTG-GAAGATGC-TGAGAAA-----------T
+s cavPor2.scaffold_221253 23578 161 + 24081 ---TATTGGA-GGCGAAATCTTTTTAAGTGCGATATGC-TGGGAgg---------------gggggCA--------------T-G--ATGG---AAGTCAGG-------------------GCATG---------------------------TTGGGATGTGGG-GC---------------------ATG-ATGGGAGGTGAGGCATGTTTGGAGATG---GGGTATGATGAGAGGTGGGGCATGTTGGGA-GGTG-GGGCATGG-TGATAGA-----------T
+q cavPor2.scaffold_221253 ---9999999-999999999952349999999899999-9999999---------------9999999--------------9-9--9999---99999999-------------------99999---------------------------999999999999-99---------------------999-999999999999999999999999999---999999999999999999999999999999-9999-99999999-9999999-----------9
+i cavPor2.scaffold_221253 n 13424 n 13424
+s rn4.chr1 229995020 153 - 267910886 ----AATGGA-GG---------------------ATGC-TGGGAGA---------------GGGGGTATTGGAGAATGGGAGT-G--CTGG---GAGATGGA-------------------GGATG---------------------------CTGGGAGGTGGA-GG---------------------ATG-CTGGGAGATAGAGGATGCTGGGAGATA---GAGGATGCTGGGAGATAGAGGATGCTGGGATAATA-GAGGATGC-TG-GAAA-----------T
+q rn4.chr1 ----999999-99---------------------9999-9999999---------------9999999999999999999999-9--9999---99999999-------------------99999---------------------------999999999999-99---------------------999-999999999999999999999999999---99999999999999999999999999999999999-99999999-99-9999-----------9
+i rn4.chr1 I 2360 C 0
+s loxAfr1.scaffold_5540 12791 142 - 125576 ---CAGCGCAGTG---------------------TTCC-CGAGAGC---------------TGGTGGA--------------T-C--CCGA---GAGCTGGT-------------------GGATC---------------------------CCGAGAGCTGGT-GG---------------------ATACCCGAGAGCTGGTGGATCCCGAGAGCTG---GTGGATCCCGAGAGCTGGTGGATCCCGAGA-GCTG-GTGGATCC-CGAGAGC-----------T
+q loxAfr1.scaffold_5540 ---9999999999---------------------9999-9999999---------------5996999--------------9-9--9999---99999998-------------------99999---------------------------999999999994-64---------------------3111236999998893895336333343425---211311352111113244223144632224-3545-42242536-2342323-----------2
+i loxAfr1.scaffold_5540 n 12127 C 0
+s anoCar1.scaffold_444 1112944 181 + 1127981 ---TGGTGG--AG---------------------CCTC-AGAGTTGGTGCAGCCTCACAAATGGTGGA--------------A-G--CCCA---GGGATGGT-------------------GGAGCCTCAGAATTTGTGGAGGCTGGTATCCGCTGAGCGATGGA-GG---------------------AGG-CTCCGAGATGGAGGAGGCTGCTAGATG---GTATCCGCTGAGCGATGGAGGAGTCTCCGA-GATG-GAGGAGGC-AGCTAGA-----------T
+q anoCar1.scaffold_444 ---999999--98---------------------9999-99999999999999999999999999999--------------9-9--9999---99898989-------------------89958998999999654588877899999999999999999999-99---------------------999-999999999909999999009999999---999999999999999999990990990999-9999-99999999-0999999-----------9
+i anoCar1.scaffold_444 C 0 C 0
+s galGal3.chr28 1883416 150 + 4512026 ----------AGG---------------------ACAC-AGGGATG---------------TTTTGGA--------------ATG--CTTA---GGGAGGCA-------------------GGATGCTAAATGATT-----------------CTGAGGGATTAaggg---------------------atg-ctcagggatgctcagggatgcAGGATGTTTGGGAATGCTGTGGGATGTGGGATGCTCAGG-GATGCAAGGATGC-TTTAGGA-----------T
+i galGal3.chr28 I 22 C 0
+s ornAna1.Contig4816 8427 120 - 31421 ---------------------------------------TGAAAAA---------------CTGATGA--------------T-G--AAGG---ATGATGGA-------------------GGAAA---------------------------ATGAAGGTTGGA-CG---------------------ATG-GTGGAAGATGGAGGATAGGGAGTGATG---G---ATGGCAGAGGACAATGGATATTGGAG-GATG-AAGGAGAA-TGAT---------------
+i ornAna1.Contig4816 C 0 C 0
+s otoGar1.scaffold_963.1-44695 7156 134 - 44695 -----------GA---------------------ATAC-TGAGCCA---------------TAGCAAA--------------T-A--CTGA---GAGTTTGA-------------------GAGTAC--------------------------CCAAGAGTTAGA-GA---------------------ATA-CTGAGAGTTAGAGAGTACAAAGTGTTA---GAGAATATCGAGACTTAAAGGATACCAAGA-GTTA-GTGAATAC-TGAGAGT-----------T
+q otoGar1.scaffold_963.1-44695 -----------58---------------------6764-3575483---------------7469975--------------7-3--6338---99786388-------------------993612--------------------------759689776398-99---------------------696-998898666597995849998888988---979979678989686889778593499699-7899-88798979-9999997-----------9
+i otoGar1.scaffold_963.1-44695 n 19112 C 0
+s calJac1.Contig1090 532652 133 - 534459 -----------TG---------------------ACAC-AGTGAGA---------------TGGAGGA--------------C-G--CAGA---GAGAATGA-------------------GGACG---------------------------CAGAGAGAAGGT-GG---------------------ACG-CAGAGAGAAGGTTGACACAGAGAGAAG---GAGGACACAGAGAGATGGAGGACACagaga-gaag-gaggacac-agagaga-----------a
+i calJac1.Contig1090 I 26 C 0
+s xenTro2.scaffold_942 62514 139 + 286514 ----CACGGG-GA---------------------ATGC-CAGGATA---------------CTGGGAA--------------T-G--CCGG---GAGACTGG-------------------GAATG---------------------------CTGGGATACTGG-GA---------------------ATG-CCGGGATACTGGGAATGCCGGGATACT---GGGAATGCCGGGACACTGGGAATGCTGGGA-GACT-GGGAATGC-TGGGATA-----------C
+i xenTro2.scaffold_942 C 0 C 0
+s fr2.chrUn 86683822 186 - 400509343 AAGAGTGGCG-GG---------------------AG---CTGAAACGTAGCGGGAGC----TAAAGAG--------------T-GGCAGGAGCTGAAATGTAGCGGGAGCTAAAACGTAGCGGGAG---------------------------CTGAAACGTAGC-GGCAGCTAAAGA-----------GTG-TTGGGAGCTAAAGAGTGTTGGGAGCTA---AAGAGTGTTGGGAGCTAAAGAGTGGCGGGA-GCTA-AAGAGTGT-TGGGAGC-----------T
+i fr2.chrUn C 0 C 0
+s oryLat1.chr20 1562364 186 - 24728221 CGGAGGTGGA-GG---------------------ATGTACGGAGACatgtacggagg----tggagga--------------t-gtacgga---gacatgta------------------cggagg---------------------------tggaggatgtac-ggaggtggaggatgtacggagacatg-tacggaggtggaggatgtacggaggtg---gaggatgtacggag-----ACATGTACAGA-GGTG-GAGGATGTATGGAGACATGTACGGAGGT
+q oryLat1.chr20 9999999999-99---------------------99999999999999999999999----9999999--------------9-9999999---99999999------------------999999---------------------------999999999999-99999999999999999999999999-999999999999999999999999999---99999999999999-----99999999999-9999-9999999999999999999999999999
+i oryLat1.chr20 C 0 C 0
+s gasAcu1.chrXI 1456237 144 - 16706052 CAGAACTCCA-GG---------------------ATGC-TGAGGAC---------------TAAAGGA--------------T-G--CTGA---GGAATACA-------------------GGATG---------------------------CTGAGGACTAAA-GGATGCTGAGGA-----------ATA-CAGGATGCTGCAGAACTCCAGGATGCT---GAGGACTCCAGG---------ATGCTGAGG-ACTC-CAGGATGC-TGAGGAC-----------T
+q gasAcu1.chrXI 9999999999-99---------------------9999-9999099---------------9909999--------------9-9--9999---90909099-------------------99999---------------------------999999999009-999999999999-----------999-999999999999999999999999999---999999900999---------999990990-9990-99999999-9999999-----------9
+i gasAcu1.chrXI C 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=10684.000000
+s mm9.chr10 3178018 86 + 129993255 GGAGGATG-CTGggaggtggaggatg--ctgggaggtggag-gatgc-----------------tggg--aagtggaggatgccgagaga---------------------tggaggatg-ctgggaggtg
+s rn4.chr1 229995173 76 - 267910886 GGAGGATG-CTGGGAGGTGGAAGATG--CTGGGAGGTGGAG-GATGC-----------------TGGG--AGGTGGAGGATGCTGAGAGG---------------------TGGAAGATG-----------
+q rn4.chr1 99999999-99999999999999999--9999999999999-99999-----------------9999--99999999999999999999---------------------999999999-----------
+i rn4.chr1 C 0 N 0
+s calJac1.Contig1090 532785 86 - 534459 ggtggacg-cagagagaaggaggacg--cagagagaaggag-gacac-----------------agag--agaaggaggacacagagaga---------------------aggaggaca-cagagagaag
+i calJac1.Contig1090 C 0 C 0
+s otoGar1.scaffold_963.1-44695 7290 82 - 44695 AG-AGATA-CCAAGAGTTAGAGAACC--GAGTGTTAGGGA---ATAC-----------------CAAG--TGTTAGGGAATACAGAGAGT---------------------TAG-GGATA-CCAAGAGTTA
+q otoGar1.scaffold_963.1-44695 89-89893-47799999999899899--999899997699---9957-----------------9999--99999999999999999999---------------------999-99893-8999998999
+i otoGar1.scaffold_963.1-44695 C 0 C 0
+s loxAfr1.scaffold_5540 12933 86 - 125576 GGTGGATC-CCGAGAGCTGGTGGATC--CCGAGAGCTGGTG-GATCC-----------------CGAG--AGCTGGTGGATCCCGAGAGC---------------------TGGTGGATC-CCGAGAGCTG
+q loxAfr1.scaffold_5540 43124253-85453435354545245--7444464555554-52468-----------------5455--45557555635585455556---------------------565546355-8566666665
+i loxAfr1.scaffold_5540 C 0 C 0
+s ornAna1.Contig4816 8547 84 - 31421 GGAGGATG-CAAGACAATAATGGG------GAATAAAGGAG-GATGA-----------------CAAGATAGATGGATATTGGAGGATGA---------------------AGGAGAATT-ATGAAGGTTG
+i ornAna1.Contig4816 C 0 I 6
+s galGal3.chr28 1883566 94 + 4512026 GACGTATG-CTTAGAGACTGGGGATA--TGGGATGCTCCAG-GACAC-------TGGGATGCTTTGGG----ATTCAGGATGCTTGGAGA---------------------TTTAGGATG-CTAAAGGATG
+i galGal3.chr28 C 0 I 1
+s anoCar1.scaffold_444 1113125 103 + 1127981 GGTATCCG-CTGAGCGATGGAGGAGG--CGGcgagatggag-gaggcctctagatgGTATCCGCTGAG--CAATGGGGGAGGCTGCGAGA---------------------TGGAGGAGG-CTGCTAGATG
+q anoCar1.scaffold_444 90999909-99909999999999999--9099999999999-99999999999999999999999999--99999999999999999999---------------------999999999-9999999999
+i anoCar1.scaffold_444 C 0 I 1
+s xenTro2.scaffold_942 62653 86 + 286514 TGGGAATG-CTGGGAGACTGGGAATG--CTGGGAGACTGGG-AATGC-----------------CGGG--ATGCTGGGAATGCCGGGAGA---------------------CTGGGAATG-CCAGGACACT
+i xenTro2.scaffold_942 C 0 C 0
+s fr2.chrUn 86684008 86 - 400509343 AAAGAGTG-GCGGGAGCTAAAGAGTG--TTGGGAGCTAAAG-AGTGG-----------------CGGG--AGCTAAAGAGTGTCGGGAGC---------------------TAAAGAGTG-GCGGGAGCTA
+i fr2.chrUn C 0 C 0
+s oryLat1.chr20 1562550 110 - 24728221 GGAGGATG-TACGGAGGTGGAGGATGTACGGAGACATGTACAGAGGT-----------------GGAG--GATGTATGGAGGTGGAGGATGTACAGAGACATGTACGGAGGTGGAGGATG-TACGGAGGTG
+q oryLat1.chr20 99999999-99999999999999999999999999999999999999-----------------9999--99999999999999999999999999999999999999999999999999-9999999999
+i oryLat1.chr20 C 0 C 0
+s gasAcu1.chrXI 1456381 88 - 16706052 AAAGGATGCTACAGAACTCCAGGATG--CTGAGGACTCCAT-GATGC-----------------TGAG--GACTAAAGGATGCTGAGGAC---------------------TACAGGATGCTACAGAACTC
+q gasAcu1.chrXI 90999999998999999999799999--9999999999999-99999-----------------9990--99990099999999999999---------------------99999999999099999999
+i gasAcu1.chrXI C 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=14983.000000
+s mm9.chr10 3178104 32 + 129993255 gaggatgc-----------cg-agagat-ggaggatgctgggagg
+s rn4.chr1 229994989 33 - 267910886 GATGATGC-----------TG-GGAGAGAGGAAGATGTTGAAGAA
+q rn4.chr1 99999999-----------99-99999999999999999999999
+i rn4.chr1 N 0 C 0
+s calJac1.Contig1090 532871 32 - 534459 gcggacac-----------ag-agagaa-ggaggacacagagaga
+i calJac1.Contig1090 C 0 C 0
+s otoGar1.scaffold_963.1-44695 7372 32 - 44695 GGATATAT-----------CC-AGAGTT-AGAGAATACTGAGAGT
+q otoGar1.scaffold_963.1-44695 99999999-----------99-999999-9999999999999999
+i otoGar1.scaffold_963.1-44695 C 0 C 0
+s loxAfr1.scaffold_5540 13019 32 - 125576 GTGGATCC-----------CG-AGAGCT-GGTGGATCCCGAGAGC
+q loxAfr1.scaffold_5540 64653578-----------55-567655-6555646585575765
+i loxAfr1.scaffold_5540 C 0 n 0
+s ornAna1.Contig4816 8637 32 - 31421 GACGATGA-----------AG-AATAAT-GGAGGATGACAGGATG
+i ornAna1.Contig4816 I 6 I 1
+s galGal3.chr28 1883661 32 + 4512026 TGGGATGC-----------TC-TGGGAT-GCAGGATGCTTAGAGA
+i galGal3.chr28 I 1 I 7
+s anoCar1.scaffold_444 1113229 31 + 1127981 TATCA-GC-----------TG-CGCGAT-GGAGGAGGCGGCGAGA
+q anoCar1.scaffold_444 99999-99-----------99-999999-9999999990090999
+i anoCar1.scaffold_444 I 1 I 6
+s xenTro2.scaffold_942 62739 32 + 286514 GGGAATGC-----------CG-GGATAC-TGGGAATGCTGGGATA
+i xenTro2.scaffold_942 C 0 I 34
+s fr2.chrUn 86684094 32 - 400509343 AAGAGTGT-----------TG-GGAGCT-AAAGAGTGGCGGGAGC
+i fr2.chrUn C 0 C 0
+s oryLat1.chr20 1562660 44 - 24728221 GAGGATGTACGGAGACATGTACAGAGGT-GGAGGATGTACGGAGG
+q oryLat1.chr20 9999999999999999989988888888-9999999999889988
+i oryLat1.chr20 C 0 C 0
+s gasAcu1.chrXI 1456469 33 - 16706052 CAGGATGC-----------TGCAGAATT-ACAGGATGCTGAGGAC
+q gasAcu1.chrXI 99999898-----------990099009-9979997988999999
+i gasAcu1.chrXI C 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-30608.000000
+s mm9.chr10 3178136 68 + 129993255 tggaggatg--ctgggaggtgga-------ggatgctgggaggtggaggat------gctgggaggt------gg--------aggatgccgagaga
+s otoGar1.scaffold_963.1-44695 7404 67 - 44695 TAGGGAATG--CCCACAGTAGGC-------AATC-CTGAGCGTTAGAGAAT------ACCAAGAGTT------AG--------TGAATTGAGAGTTA
+q otoGar1.scaffold_963.1-44695 999999999--999999999999-------9999-9999999999999999------9999999999------99--------99999999999999
+i otoGar1.scaffold_963.1-44695 C 0 C 0
+s calJac1.Contig1090 532903 68 - 534459 aggaggaca--cagagagaagga-------ggacgcagagagaaggtggac------acagagagaa------gg--------aggacgcagagaga
+i calJac1.Contig1090 C 0 C 0
+s rn4.chr1 229995022 65 - 267910886 TGGAGGATG--CTGGGAGAGGGG-------GTATT---GGAGAATGGGAGT------GCTGGGAGAT------GG--------AGGATGCTGGGAGG
+q rn4.chr1 999999999--999999999999-------99999---9999999999999------9999999999------99--------99999999999999
+i rn4.chr1 C 0 C 0
+s ornAna1.Contig4816 8670 70 - 31421 TGGAGAATA--AT----GGAGGA-------TGACAGTGGACGATAGAGAAC------AATGGGGGATGACAGAGG--------ACGATGGTGAATAA
+i ornAna1.Contig4816 I 1 I 8
+s galGal3.chr28 1883700 80 + 4512026 TGTgggatg--ctcagggctgct-------cagggctgcagga--atgctcagggatgctcaATGAT------GGAGGGATGCAGGATGCTCAGGGA
+i galGal3.chr28 I 7 C 0
+s anoCar1.scaffold_444 1113266 65 + 1127981 T------CG--CTCAGCGATGGA-------AGAGGCTGCGAGATGATATTC------GCTCAGCGAT------GGATG-----AGGCTGCTAGATGA
+q anoCar1.scaffold_444 0------99--990999999999-------009999999099999009000------9990090999------99909-----99999999999999
+i anoCar1.scaffold_444 I 6 C 0
+s xenTro2.scaffold_942 62805 68 + 286514 CTGGGAATG--CTGGGATACTGG-------GAATGCTGGGATACTGGGAAT------GCAGGGATAC------TG--------GGAATGCCGGGATA
+i xenTro2.scaffold_942 I 34 C 0
+s fr2.chrUn 86684126 75 - 400509343 TAAAGAGTG--GCGCGAGCTAAAGAGTGGCGCGAGCTAAAGAGTGGCGGGA------GCTGAAACGT------AG--------CGGGAGCTGAAGCG
+i fr2.chrUn C 0 I 10
+s oryLat1.chr20 1562704 71 - 24728221 TGGAGGATGTACAGAGACatgta------cggaggtggaggatgtacggag------gtggaggatg------ta--------cggaggtggaggat
+q oryLat1.chr20 88899999999999999999887------7777544667889989988997------7877778899------99--------99999989999999
+i oryLat1.chr20 C 0 I 21
+s gasAcu1.chrXI 1456502 68 - 16706052 TCCAGGATG--CTGAGGACTCCA-------GGATGCTGAGGACTCCAGGAT------GCTGAGGACT------CC--------AGGATGCTGAGGAC
+q gasAcu1.chrXI 999999989--999999999898-------999899999999999999999------9999999999------99--------99999998999999
+i gasAcu1.chrXI C 0 I 125
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_271365 1111 0 - 5697 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-15730.000000
+s mm9.chr10 3178204 66 + 129993255 tggagga--tg-----ctggga-----------------ggt-------ggaggaTGCTGGGAGGTGGAGGA-TGCTGAGAGATGGA-GGATGCTGGGA
+s otoGar1.scaffold_963.1-44695 7471 79 - 44695 GAGGATA--CAAGCGTCAGAGA-----------------AAACCTAATGGTAGTGAACAGCGAGTGTCCAGAGCACCGAGAGTTCGT-GAATACCAGAA
+q otoGar1.scaffold_963.1-44695 9999999--9999999999999-----------------999999999999999999999999999999999999990999999999-99999999999
+i otoGar1.scaffold_963.1-44695 C 0 n 0
+s calJac1.Contig1090 532971 66 - 534459 aggagga--ca-----cagaga-----------------gaa-------ggaggacacagagagaaggtgga-cacagagagaagga-ggacacagaga
+i calJac1.Contig1090 C 0 C 0
+s rn4.chr1 229995087 66 - 267910886 TGGAGGA--TG-----CTGGGA-----------------GAT-------AGAGGATGCTGGGAGATAGAGGA-TGCTGGGAGATAGA-GGATGCTGGGA
+q rn4.chr1 9999999--99-----999999-----------------999-------99999999999999999999999-99999999999999-99999999999
+i rn4.chr1 C 0 I 1
+s galGal3.chr28 1883780 83 + 4512026 CATGGGA--CG-----CTCAGAGGCATGGGATCCTTAAGGAT-------GTGAGATGCTCAGGGACAAAGGA-TGCTCAGGGATGCG-GGATACTCAGA
+i galGal3.chr28 C 0 I 18
+s anoCar1.scaffold_444 1113331 63 + 1127981 TATCAGC--TG-----CGC--------------------GAT-------GAAGGAGGCGGCGAGATAATATT-CGCTCAGCAATGGA-TGAGGCTGCGA
+q anoCar1.scaffold_444 9997599--99-----999--------------------999-------99999999999999999999999-99999999999999-99999999999
+i anoCar1.scaffold_444 C 0 I 10
+s xenTro2.scaffold_942 62873 66 + 286514 CTGGGAA--TG-----CTGGGA-----------------TAC-------TGGGAATGCAGGGATACTGGGAA-TGCTGGGAGACTGG-GAATGCTAGGA
+i xenTro2.scaffold_942 C 0 C 0
+s fr2.chrUn 86684211 66 - 400509343 TGAAACG--TA-----GCGGCA-----------------GCT-------AAAGAGTGTTGGGAGCTAAAACG-TAGCGGCAGCTAAA-GAGTGTTGGGG
+i fr2.chrUn I 10 C 0
+s gasAcu1.chrXI 1456695 66 - 16706052 TCCAGGA--TG-----CTGAGG-----------------ACT-------CCATGATGCTGAGGACTCCATGA-TGCTGAAGACTGTA-GGATGCTGAGG
+q gasAcu1.chrXI 9999899--99-----999998-----------------889-------99989999999999999997799-99999999999899-99999999989
+i gasAcu1.chrXI I 125 C 0
+s oryLat1.chr20 1562796 69 - 24728221 tggaggatgtg-----CGGAGA-----------------CAT-------GTACAGAGGTGGAGGATGTACAG-AGGTGGAGGATGTACGGAGGTGGAGG
+q oryLat1.chr20 99999999999-----999999-----------------999-------99999999999999999999999-99999999999999999999999999
+i oryLat1.chr20 I 21 C 0
+s ornAna1.Contig4816 8748 54 - 31421 -----GA--CA-----GAAGAC-----------------AGT-------GGAGAATAATGGAGGATGACAGA-----GGATAACAGA-CGATGATG---
+i ornAna1.Contig4816 I 8 C 0
+s echTel1.scaffold_23642 1039 61 + 1353 -----GA--CC-----CTGTGA-----------------GAC-------AGGGGACCCTGTGAGACAGGGGA-CCCTGTGAGACAGG-AGACCCTGTGA
+q echTel1.scaffold_23642 -----66--38-----868557-----------------584-------66787928558559494649867-38656556384549-63848656557
+i echTel1.scaffold_23642 n 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=6100.000000
+s mm9.chr10 3178270 72 + 129993255 GGTGAAGGATG----CTGAGAGA-CAGAGGATGC-TGGGAGGTGGAGGATGCTGAGAGACAGAGGATG-CTGAGAGACA
+s calJac1.Contig1090 533037 72 - 534459 gaaggaggaca----cagagaga-aggaggacac-agagagaaggaggacacagagagaaggaggaca-cagagagaag
+i calJac1.Contig1090 C 0 C 0
+s rn4.chr1 229995154 71 - 267910886 AATAGAGGATG----CTG-GAAA-TGGAGGATGC-TGGGAGGTGGAAGATGCTGGGAGGTGGAGGATG-CTGGGAGGTG
+q rn4.chr1 99999999999----999-9999-9999999999-999999999999999999999999999999999-9999999999
+i rn4.chr1 I 1 C 0
+s echTel1.scaffold_23642 1100 72 + 1353 GACAGGCGACC----CTGTGAGA-CAGGGGACCC-TGTGAGACAGGAGACCCTGTGAGACAGGCGACC-CTGTGAGACA
+q echTel1.scaffold_23642 37432434738----75555547-2329756376-555564631225263755553746352544426-4444353635
+i echTel1.scaffold_23642 C 0 n 0
+s ornAna1.Contig4816 8802 51 - 31421 GATGAGGGA----------------GGAGGATGG-AGGATGATGGAAAATAATGGAGGATGAAGGAGA-----------
+i ornAna1.Contig4816 C 0 I 6
+s galGal3.chr28 1883881 73 + 4512026 GATTTGGGGTG----CTCAGTGAGCACAGGATGC-TCTGGGATGCAGGATACTCAGAGACACGGGATG-CTCAGGGATG
+i galGal3.chr28 I 18 C 0
+s anoCar1.scaffold_444 1113404 62 + 1127981 ----------G----CTCAGCGA-TGGAGGAGGC-GGCGAGATGATATTCGCTCAGCGATGGAGGAGG-CGGCGAGATG
+q anoCar1.scaffold_444 ----------9----99999999-9999999999-999999999999999999999999999999999-9999999999
+i anoCar1.scaffold_444 I 10 C 0
+s xenTro2.scaffold_942 62939 72 + 286514 TACTGGGAATG----CAGGGATA-CTGGGAATGC-CGGGAGACTGGGAATGCCGGGAGACTGGGAATG-CCGGGAGACT
+i xenTro2.scaffold_942 C 0 C 0
+s fr2.chrUn 86684277 72 - 400509343 GCTAAAGAGTG----TTGGGAGC-TAAAACGTAG-CGGGAGCTAAAGAGTGGCGGGAGCTAAAGAGTG-TTGGGAGCTA
+i fr2.chrUn C 0 C 0
+s gasAcu1.chrXI 1456761 74 - 16706052 ACTAAAGGATGC---TACAGAAC-TCCAGGATGC-TGAGGACTACAGGATGCTGAGTACTACAGGATGCTGCAGGACTA
+q gasAcu1.chrXI 999999999999---99999999-9999999999-99999999999999999999999999999999999999999999
+i gasAcu1.chrXI C 0 C 0
+s oryLat1.chr20 1562865 71 - 24728221 ATGTACGGAGACGTGTACGGAGG-TGGATGATGTACGGAGAC------ATGTACAgaggtggaggatg-tacggaggtg
+q oryLat1.chr20 99999999999999999999999-999999999999999999------99999999999999999999-9999999999
+i oryLat1.chr20 C 0 C 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13032577 2914 + 24938454 I
+e rheMac2.chr4 108482643 2216 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e canFam2.chr1 78244239 2487 - 125616256 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+e oryCun1.scaffold_60623 683 0 - 1599 I
+
+a score=-47085.000000
+s mm9.chr10 3178342 37 + 129993255 GAGGATGCT---GGGAGGTGG--AAGATGGGT-CCTACTGCAG--------
+s rn4.chr1 229995225 37 - 267910886 GAGGATGCT---GAGAGGTGG--AAGATGGGC-CCTTCTGTAG--------
+q rn4.chr1 999999999---999999999--999999999-9999999999--------
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1090 533109 24 - 534459 gaggacgca---gagagaagg--aggacg----------------------
+i calJac1.Contig1090 C 0 n 0
+s equCab1.chr31 13035491 33 + 24938454 GAGCATCCT--------GGGA--GGGATGGGTCTCTTTCACAG--------
+q equCab1.chr31 999999999--------9999--99999999999999999999--------
+i equCab1.chr31 I 2914 I 10
+s canFam2.chr1 78246726 39 - 125616256 -AGGATGCTTAAGAGA-TGGC--AGGATGGGTCCCTTTCACAG--------
+q canFam2.chr1 -999999999999999-9999--99999999999999999999--------
+i canFam2.chr1 I 2487 I 3
+s oryCun1.scaffold_214769 79238 33 - 139458 ----ATTCT---GGGA-GTGC--AGGATGGGTACCTTCTGCTG--------
+q oryCun1.scaffold_214769 ----99997---9999-9989--99995998889899977878--------
+i oryCun1.scaffold_214769 I 19175 C 0
+s rheMac2.chr4 108484859 39 + 167655696 -AGGGTCCT---GGGAGGGGGCCAGGCTGCGTCCCTTTCACAG--------
+q rheMac2.chr4 -99999999---9999999999999999999999999999999--------
+i rheMac2.chr4 I 2216 I 11
+s ornAna1.Contig4816 8859 25 - 31421 GAGAATGAT---GGCAGTTCT--AACTTGG---------------------
+i ornAna1.Contig4816 I 6 n 6
+s galGal3.chr28 1883954 24 + 4512026 TGGGATGCT---CAGGGCTGC--AGGATG----------------------
+i galGal3.chr28 C 0 C 0
+s anoCar1.scaffold_444 1113466 24 + 1127981 ATATTCGCT---CAGCGATGG--ATGAGG----------------------
+q anoCar1.scaffold_444 999999999---999999999--999999----------------------
+i anoCar1.scaffold_444 C 0 N 0
+s xenTro2.scaffold_942 63011 21 + 286514 GGGAATGCT---GGGAGACTG--CTG-------------------------
+i xenTro2.scaffold_942 C 0 C 0
+s fr2.chrUn 86684349 24 - 400509343 AAGAGTGTA---GGGAGCTAA--AGAGG---G-------------------
+i fr2.chrUn C 0 N 0
+s gasAcu1.chrXI 1456835 38 - 16706052 CAGGATGCT---GAGTACTAC--AGGATGCT--------GCAGGACTACAG
+q gasAcu1.chrXI 999999999---999999999--99999999--------999999999999
+i gasAcu1.chrXI C 0 C 0
+s oryLat1.chr20 1562936 24 - 24728221 gaggatgta---cggaggtgg--aggatg----------------------
+q oryLat1.chr20 999999999---999999999--999999----------------------
+i oryLat1.chr20 C 0 N 0
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16074840 2315 - 170899992 I
+e panTro2.chr6 16598323 2312 - 173908612 I
+e ponAbe2.chr6 16380236 2451 - 174210431 I
+
+a score=-3851.000000
+s mm9.chr10 3178379 9 + 129993255 TGT----------------------------------GCTGAA
+s equCab1.chr31 13035534 9 + 24938454 ----------------------------------TGTGCAGAA
+q equCab1.chr31 ----------------------------------999999999
+i equCab1.chr31 I 10 C 0
+s canFam2.chr1 78246768 9 - 125616256 ----------------------------------GGTGCTGCA
+q canFam2.chr1 ----------------------------------999999999
+i canFam2.chr1 I 3 C 0
+s hg18.chr6 16077155 9 - 170899992 ----------------------------------TGTACAGAA
+i hg18.chr6 I 2315 C 0
+s panTro2.chr6 16600635 9 - 173908612 ----------------------------------TGTACAGAA
+q panTro2.chr6 ----------------------------------999999999
+i panTro2.chr6 I 2312 C 0
+s ponAbe2.chr6 16382687 9 - 174210431 ----------------------------------TGTACAGAA
+i ponAbe2.chr6 I 2451 C 0
+s rheMac2.chr4 108484909 9 + 167655696 ----------------------------------TGTACAGAA
+q rheMac2.chr4 ----------------------------------999999999
+i rheMac2.chr4 I 11 C 0
+s calJac1.Contig1260 53287 9 - 523245 ----------------------------------TGTAGAGAA
+i calJac1.Contig1260 I 2658 C 0
+s oryCun1.scaffold_214769 79271 43 - 139458 TGACTTCCGATGCTTTGGGCTCTGGGCGGGGGGTGGGGCTGGG
+q oryCun1.scaffold_214769 6689997599789999998999889976999978999988899
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 229995262 19 - 267910886 TGT------------------------AGCAGGTTGTGCTGAA
+q rn4.chr1 999------------------------9999999999999999
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_942 63032 9 + 286514 ----------------------------------TGGCCTAAA
+i xenTro2.scaffold_942 C 0 N 0
+s gasAcu1.chrXI 1456873 9 - 16706052 ----------------------------------GATGCTGAG
+q gasAcu1.chrXI ----------------------------------999999999
+i gasAcu1.chrXI C 0 C 0
+e galGal3.chr28 1883978 0 + 4512026 C
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e ornAna1.Contig4816 8884 6 - 31421 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=7964.000000
+s mm9.chr10 3178388 33 + 129993255 TC-------------TGCT-TGGGTGG------CACAGGCTGGGTGTGAGAGG--
+s equCab1.chr31 13035543 31 + 24938454 TC-------------GGTGGGGGTTGG------GGCAGGGGTGGC---CGAGG--
+q equCab1.chr31 99-------------999999999999------999999999999---99999--
+i equCab1.chr31 C 0 I 1
+s canFam2.chr1 78246777 40 - 125616256 TCTGTTGGAG-----GGTGGGAG--GG------GACAGGGTCAGATTGCAAAG--
+q canFam2.chr1 9999999999-----99999999--99------99999999999999999999--
+i canFam2.chr1 C 0 I 1
+s hg18.chr6 16077164 40 - 170899992 TC-------------TGTTGGGGTTGGGGTTGAGGCAGCGTAGGCTTGGGAGC--
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16600644 40 - 173908612 TC-------------TGTTGGGGTTGGGGTTGAGGCAGCGTAGGCTTGGGAGC--
+q panTro2.chr6 99-------------99999999999999999999999999999999999999--
+i panTro2.chr6 C 0 I 1
+s ponAbe2.chr6 16382696 34 - 174210431 TC-------------TGTTGGGGTTGG------GGCAGCGTAGGCTTGGGAGC--
+i ponAbe2.chr6 C 0 I 1
+s rheMac2.chr4 108484918 34 + 167655696 TC-------------TGTTGGGGTTGG------GGCAGCGTAGGCTTGGGAGC--
+q rheMac2.chr4 99-------------999999999999------99999999999999999999--
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 53296 34 - 523245 TC-------------TGGTGGGGTTGG------AGCAGTGTAAGCCTGGGAGC--
+i calJac1.Contig1260 C 0 I 1
+s oryCun1.scaffold_214769 79314 26 - 139458 ---------------------GGCTGG------GGGCTGGTGGGCTTGGGAGG--
+q oryCun1.scaffold_214769 ---------------------869769------88999998999987899999--
+i oryCun1.scaffold_214769 C 0 I 1
+s rn4.chr1 229995281 33 - 267910886 TC-------------TTCT-TGGGTGG------CACATGCTGGGTGTGAGAGG--
+q rn4.chr1 99-------------9999-9999999------99999999999999999999--
+i rn4.chr1 C 0 C 0
+s gasAcu1.chrXI 1456882 47 - 16706052 --TACTACAGGATGCTGCAGGACTCCA------GGATGCTGAGGACTCCGGGATG
+q gasAcu1.chrXI --9999999999999999999999999------9999999999999999999999
+i gasAcu1.chrXI C 0 C 0
+e galGal3.chr28 1883978 0 + 4512026 C
+e bosTau3.chr9 13707724 2233 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e ornAna1.Contig4816 8884 6 - 31421 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=65997.000000
+s mm9.chr10 3178421 67 + 129993255 CTGCACCTTTGCAGTC--AGTTTCTCTATGAAAA-------TGTTCAGCTAGGT--CAGTA-------------TCCAGCAGATCAGAAAC----------
+s rn4.chr1 229995314 67 - 267910886 CTGCACCTTTGCAGCC--AGTTTCTCTGTGAAAA-------TGTTCAGCAAGGT--CAGTG-------------TCTAGCAGATCAGACAC----------
+q rn4.chr1 9999999999999999--9999999999999999-------9999999999999--99999-------------99999999999999999----------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 79341 69 - 139458 CTGCATCCTTGCAGTC--AGTTTCTTGGTTGACA-------GTTTCAGCTGGGGCACATTT-------------TTTCCCACTTCAAAAGC----------
+q oryCun1.scaffold_214769 6699999999999999--9999999598858999-------99999999999999998999-------------99999999999999999----------
+i oryCun1.scaffold_214769 I 1 C 0
+s calJac1.Contig1260 53331 71 - 523245 CTACAACTTGGGAGCCAGAGGTTCCTGGTTACAA-------TTTTCAGCTGGGACACATTA-------------CTTATCCATTCAGAAAT----------
+i calJac1.Contig1260 I 1 C 0
+s rheMac2.chr4 108484953 71 + 167655696 CTGCAACTTGAGAGCCAGAGGTTCCAGGTTAAAG-------TTTTCATTTGGGACACATTA-------------CTTACCCATTCAGAAAC----------
+q rheMac2.chr4 9999999999999999999999999999999999-------99999999999999999999-------------99999999999999999----------
+i rheMac2.chr4 I 1 C 0
+s ponAbe2.chr6 16382731 71 - 174210431 CTACAGCTTGAGAGCCAGAGGTTCCTGGTTAAAG-------TTTTCAGCTGGGACACATTA-------------CTTACCCATTCAGAAAC----------
+i ponAbe2.chr6 I 1 C 0
+s panTro2.chr6 16600685 71 - 173908612 CTACAACTTGAGAGCCAGAGGTTCCTGGTTAAAG-------TTTTCAGCTGGGACACATTA-------------CTTACCCATTCAGAAAC----------
+q panTro2.chr6 9999999999999999999999999999999999-------99999999999999999999-------------99999999999999999----------
+i panTro2.chr6 I 1 C 0
+s hg18.chr6 16077205 71 - 170899992 CTACAACTTGAGAGCCAGAGGTTCCTGGTTAAAG-------TTTTCAGCTGGGACACATTA-------------CTTACCCATTCAGAAAC----------
+i hg18.chr6 I 1 C 0
+s equCab1.chr31 13035575 71 + 24938454 CTACAACTTGGAAGCCAGAGTTTCCTGGTTAAAA-------TTGTCAGCTGGGATGCATTA-------------CTTACCAATTCAGAAAC----------
+q equCab1.chr31 9999999999999999999999999999999999-------99999999999999999999-------------99999999999999999----------
+i equCab1.chr31 I 1 C 0
+s canFam2.chr1 78246818 67 - 125616256 CT---ACTTTGACG-CAGAGTTTCCTGGTGAAAA-------TTGCCAGCTGGAAGGCATTA-------------CTTACCAGTGCAGAAAC----------
+q canFam2.chr1 99---999999999-9999999999999999999-------99999999999999999999-------------99999999999999999----------
+i canFam2.chr1 I 1 C 0
+s bosTau3.chr9 13709957 71 - 95030419 CTGCATCTTGGAAGCCAGAGTTTCCTGGTGAAAG-------TCTTCGGTTGAGTTGCATTC-------------TTTCCTAGTTCATAAAC----------
+q bosTau3.chr9 9999999999999999999999999999999999-------99999999999999999999-------------99999999999999999----------
+i bosTau3.chr9 I 2233 C 0
+s xenTro2.scaffold_82 503688 83 - 3106341 --------TTCCAGTTGGAGTATGTTTGTGGATGAGGAATCCCTCCATTGGGAATATGCTGTGAGATGAAGGATCCTGCCAGTGGGAGTAT----------
+i xenTro2.scaffold_82 N 0 C 0
+s ornAna1.Contig32606 5874 43 + 7782 ----------------AAGCAGTCTGGGGGAAAA-------T----ACCCGAGGGGCAG---------------------AGAGCAGAGAA----------
+i ornAna1.Contig32606 n 6 C 0
+s anoCar1.scaffold_1599 45759 46 + 58634 ----AGCCTCAGAGTTGATGGAGCCTCAGAAA--------------TGCTGGAGGAC---------------------------CAGGATG----------
+q anoCar1.scaffold_1599 ----9999999999999999999999999999--------------99999999999---------------------------9999999----------
+i anoCar1.scaffold_1599 N 0 I 7
+s gasAcu1.chrXI 1456929 59 - 16706052 CGACACCCATCCACCT-------------------------TTTTCCGTTTTGTAACATTT-----------------GCAGCACAACAATGATGTAAGGC
+q gasAcu1.chrXI 9999999999999999-------------------------99999999999999999999-----------------99989999999999933369467
+i gasAcu1.chrXI C 0 C 0
+e galGal3.chr28 1883978 0 + 4512026 C
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=16151.000000
+s mm9.chr10 3178488 68 + 129993255 CTCAGTGCAGGTAGATC------------C-TTGAGTGTC-----TGTGTTGTGGACAAC-AGGG-------TTCC-TGAGCTGAG-GTGTTTGTT
+s rn4.chr1 229995381 68 - 267910886 TTTAGTGCAGGCAGATC------------C-TTGAGTGTT-----TGTGTTGTGGATGAT-GGGA-------GTCC-CGAGCTGAG-GTTTCTGTC
+q rn4.chr1 99999999999999999------------9-999999999-----999999999999999-9999-------9999-999999999-999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 79410 70 - 139458 CTCAGAGGAGAGCAATC------------CATCTCATTCT-----TGTTTTCTGCATAACTTGAA-------TCCC-TGAGCTTAG-GTATTCCTT
+q oryCun1.scaffold_214769 99999999999999999------------99999999999-----79999999999999999999-------9996-578989999-999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 53402 70 - 523245 GTCAAATGAGGGCAGCT------------CGTCTGACTGT-----TGTTTTCTGGTTAACTTGAA-------TCCT-TGAGCTAAG-GTATTCCTT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108485024 70 + 167655696 CTCAAATGAGGGCAGCC------------CATCTGACTGT-----TGTTTTCTGGTTAACTTGAA-------TCCT-TGAGCTAAG-GTAGTCCTT
+q rheMac2.chr4 99999999999999999------------99999999999-----99999999999999999999-------9999-999999999-999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16382802 70 - 174210431 CTCAAATGAGGGCAGCC------------CATCTGACTGT-----TGTTTGCTGGTTAACTTGAA-------TCCT-TGAGCTAAG-GTATTCCTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16600756 68 - 173908612 CTCAAATGAGGGCAGCC------------CGTCTGAC--T-----TGTTTTCTGGTTAACTTGAA-------TCCT-TGAGCTAAG-GTATTCCTT
+q panTro2.chr6 99999999999999999------------99999999--9-----99999999999999999999-------9999-999999999-999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16077276 70 - 170899992 CTCAAATGAGGGCAGCC------------CGTCTGACTGT-----TGTTTTCTGGTTAACTTGAA-------TCCT-TGAGCTAAG-GTATTCCTT
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13035646 70 + 24938454 CTCAGATGAGGACAGTC------------CATCTGATTGT-----TGTTTTCTGGGTAACTGGAA-------TCCT-TGAACTAAG-GTACTCCAT
+q equCab1.chr31 99999999999999999------------99999999999-----99999999999999999999-------9999-999999999-999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78246885 66 - 125616256 CTCAAATGAGGGTAAGC------------CATTTGACCG---------TTTCTGGGTAACTCGAA-------TCTT-TGAGCTAAG-GTAGTCTTT
+q canFam2.chr1 99999999999999999------------9999999999---------99999999999999999-------9999-999999999-999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13710028 59 - 95030419 CTCAAATGAAGGCAGCT------------CATCTGACTGT-----TGTTTTCTGGGTAACTTGAA-------TCCT-TGAACT------------C
+q bosTau3.chr9 99999999999999999------------99999999999-----99999999999999999999-------9999-999999------------9
+i bosTau3.chr9 C 0 C 0
+s ornAna1.Contig32606 5917 65 + 7782 CTCAGAGCCAGAGAGCCAAGAAgtgtgtgcgtgtgtgtgtgtgtgtgtgtCGTGGGAGGACGGGG-------------------------------
+i ornAna1.Contig32606 C 0 n 0
+s galGal3.chr28 1883978 67 + 4512026 CTCAG--------GGAC------------A--CTGACACA-----TGGATGCTCAGGGATGTGGG-CAGCAGCGCC-TCAGCAGAGGACACCCTTC
+i galGal3.chr28 C 0 C 0
+s anoCar1.scaffold_1599 45812 52 + 58634 CTCAG--------AGTT------------G---------A-----TGGAGCCTCAGAAAGGAGGACCAGAGATGTTATGAGCTGAG----------
+q anoCar1.scaffold_1599 99999--------9999------------9---------9-----99999999999999999999999999999999999999999----------
+i anoCar1.scaffold_1599 I 7 N 0
+s xenTro2.scaffold_82 503771 69 - 3106341 GTTGGGGATGAGGGATC------------CCGCCAGTGGG-----AGTATGTTGGGGATGAGGGA-------TCCT-GCCAGTGGGAGTATGTT--
+i xenTro2.scaffold_82 C 0 N 0
+s gasAcu1.chrXI 1456988 47 - 16706052 CTCCAGTGAAGTAGGTG------------CATC------A-----TGTCTCCAGGACAAC-CGAC-------TCTC-TG-----------------
+q gasAcu1.chrXI 99999965999999978------------9679------8-----523789999937966-9992-------1253-23-----------------
+i gasAcu1.chrXI C 0 N 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=93825.000000
+s mm9.chr10 3178556 23 + 129993255 C---TTTAACCTGTGTGA------------TGGATGTG
+s rn4.chr1 229995449 20 - 267910886 C---TTTAACCTGTGTGA---------------ATGGA
+q rn4.chr1 9---99999999999999---------------99999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 79480 38 - 139458 CTATTTTTACTTCCTTCAGTTATCCAGGCATGGATCTG
+q oryCun1.scaffold_214769 99999999999999999999999999999989899999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 53472 38 - 523245 CTATTTTTACTTTCTTAAATTATCCTGGCATGGATGTG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108485094 38 + 167655696 CTATTTTTACTTTCTTAAATTATCCTGGCATGGATGTG
+q rheMac2.chr4 99999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16382872 38 - 174210431 CTATTTTTACTTTCTTAAATTATCCTGGCATGGATGTG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16600824 38 - 173908612 CTATTTTTACTTTCTTAAATTATCCTGGCATGGATGTG
+q panTro2.chr6 99999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16077346 38 - 170899992 CTATTTTTACTTTCTTAAATTATCCTGGCATGGATGTG
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13035716 38 + 24938454 CTATTTTTACTTGCTTAAATTATCCTGGCATGGATACA
+q equCab1.chr31 99999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78246951 38 - 125616256 CTATTTTTACCTCCTTAAGTTATCCTGGCATGGATATA
+q canFam2.chr1 99999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13710087 38 - 95030419 CTATTTTCACTTTCTTAAATTATCCTGGCATGGATATA
+q bosTau3.chr9 99999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s galGal3.chr28 1884045 26 + 4512026 CCAGGCCCATCAGTGTGA------------CGAGTGGG
+i galGal3.chr28 C 0 N 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=73192.000000
+s mm9.chr10 3178579 43 + 129993255 TTTGCCAGCGTCAGGTTTTCTTCAGATA-TATACT---GT---CTTACAT
+s rn4.chr1 229995469 43 - 267910886 TGTGTCAGTGTCAGAGTTTCTTCAACCA-TATATT---GT---CTTACAC
+q rn4.chr1 9999999999999999999999999999-999999---99---9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 79518 42 - 139458 TTTGCTGGTTCCAAGGGTTGTTTA-TTA-TTCTCC---TC---CTCATGC
+q oryCun1.scaffold_214769 996999999999999999999999-999-999999---99---9999999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 53510 47 - 523245 TTTGCTAGTTCCAAGTTTTGTTTAAACAGTATGTC---TTCTACTTACAT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108485132 47 + 167655696 TTTGCTAGCTCCAAATTTTGTTTAAATAATATGTC---TTCTACTTATGT
+q rheMac2.chr4 99999999999999999999999999999999999---999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16382910 47 - 174210431 TTTGCTAGTTCCAAATTTTGTTTAAATAATATGCC---TTCTACTTATGT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16600862 47 - 173908612 TTTGCTAGTTCCAAATTTTGTTTAAATAATATGTC---TTCTACTTATGT
+q panTro2.chr6 99999999999999999999999999999999999---999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16077384 47 - 170899992 TTTGCTAGTTCCAAATTTTGTTTAAATAATATGTC---TTCTACTTATGT
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13035754 44 + 24938454 TTTGCTATTTCCAAGTTTTGTTTCAGTAAAAGATT---GTCTGCTAA---
+q equCab1.chr31 99999999999999999999999999999999999---999999999---
+i equCab1.chr31 C 0 I 24
+s canFam2.chr1 78246989 44 - 125616256 TTTGCTGTTTCCAAGTTTTGTTTCGGTAATGGATC---GTCTGCTTC---
+q canFam2.chr1 99999999999999999999999999999999999---999999999---
+i canFam2.chr1 C 0 I 3
+s bosTau3.chr9 13710125 44 - 95030419 TTTGCTATTTCCAAGTTTTGTTTCAGTCATAAATCCATGTATAT------
+q bosTau3.chr9 99999999999999999999999999999999999999999999------
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 102841 3956 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=353772.000000
+s mm9.chr10 3178622 164 + 129993255 AGTGAATGCAAAAGTG-TGGCTGCCT-CTTGGCTGTTTCTTCTGATGTCTTCAGAGTGACATCAACCTTGGAT-GATGTGAGTTACCAGCATGAAACT-AACTTAGCTTCGGGGA---GAAAGTGCCTTAGTGGTTGCTGTCCCCACATTTAGCCTGGCTCTGCTTC----------TT-TA
+s rn4.chr1 229995512 162 - 267910886 AGCGAATGCCAAAGAG-TGGCTGCCT-CTTGGCTATCTCTTCTGATGTCTTCAGAGAGACATCGGCCTTGGAG-GATGTGAGTTACTAGCATGAAAGT-GACTTAGCTTCGGGGA---GAAAGTACCTTAGTGCTTACTGTCCCCACAC--AGCCTGGCTCTGCTTC----------TT-TA
+q rn4.chr1 9999999999999999-999999999-9999999999999999999999999999999999999999999999-999999999999999999999999-9999999999999999---9999999999999999999999999999999--9999999999999999----------99-99
+i rn4.chr1 C 0 I 237
+s oryCun1.scaffold_214769 79560 164 - 139458 GGAGAA--CCTGAGGG-TGCTTGTTT-CTTGGTTACATCCTCTGAAGGCTTCAGAGGGATCTAAGCCTTAGGG-GACATTGGTTACTAGCATGAAAGTCGAGTTTGCACCGGCAACATGCAGGCTTTTTCGAATGTCCTACTCCCTAGT------------TGCTTCTTGCAAGAAATT-TA
+q oryCun1.scaffold_214769 999999--99999999-999999999-9999999999999998999999999999999999999999999999-999999999999999998799999699999999999999999999999999999999999999999999999999------------999999889995899999-99
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 53557 123 - 523245 CATGAAACTCAAAGTT-TCACTGTTT-CTTGGTCATGTTTTCTGA-----------------------------------------------GAAAGTTGAGTTTGCTCTGGGAACAAGAAAGCGCTTTAGGGTAGACTGTCCTTCCATTCCACTTGTTTTTGCCTT----------TTGTA
+i calJac1.Contig1260 C 0 I 9
+s rheMac2.chr4 108485179 169 + 167655696 CATGAAATTCAAAGTG-TGGTTGTTC-CTTGGTTATGTCTTCTGATGTCTTCAGGGTGACCTAAGTCTCAGAG-GACTTTGGTTACTAGCAAGAAAGTTGAGTTTGCTTTGGGAATAAGAAAGTGCTTTAGCGTCGACTGTCCTTCCATTCCGCCTGTTTTTGCCTT----------TTGTA
+q rheMac2.chr4 9999999999999999-999999999-9999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------99999
+i rheMac2.chr4 C 0 I 9
+s ponAbe2.chr6 16382957 169 - 174210431 CGTGAAACTCAAAGTG-TGGTTGTTC-TTTGGTTATGTCTTCCGATGTCTTCAGGGTGACCTAAGTCTTAGAG-GACATTGGTTACTAACAGGAAACTTGAGTTTGCTTTGGGAACAAGAAAGCGCTTTAGGGTTGACTGTCCTTCCATTCCACCTGTTTTTGCCTT----------TTGTA
+i ponAbe2.chr6 C 0 I 9
+s panTro2.chr6 16600909 169 - 173908612 CGTGAAACTCAAAGTG-TGGTTGTTC-CTTGGTTACGTCTTCCGATGTCTTCAGGGTGACCTAAGTCTTAGAG-AACATTGGTTACTAACAAGAAAGTTGAGTTTGCTTTGGGAACAAGAAAGCGCTTTAGGGTTGACTGTCCTTCCATTCCACCTGTTTTTGCCTT----------TTGTA
+q panTro2.chr6 9999999999999999-999999999-9999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------99999
+i panTro2.chr6 C 0 I 9
+s hg18.chr6 16077431 169 - 170899992 TGTGAAACTCAAAGTG-TGGTTGTTC-GTTGGTTACGTCTTCCGATGTCTTCAGGGTGACCTAAGTCTTAGAG-AACATTGGTTACTAACAAGAAAGTTGAGTTTGCTTTGGGAACAAGAAAGCGCTTTAGGGTTGACTGTCCTTCCATTCCACCTGTTTTTGCCTT----------TTGTA
+i hg18.chr6 C 0 I 9
+s canFam2.chr1 78247036 157 - 125616256 AGTGAAACCCAAAGAG-TGGTTGTTT-CTTGGTTACATTTTTTGATGTCTTTGGAGTGACATAAGTCTTAGAA-GGCATTAGTTATTAGCAAGAAAGCTGAGTTTGCTTTATAAACAA-----------AATACTGACTGC-CGTCTGCTCTCCTTGTTATTGCTTC----------TTGTA
+q canFam2.chr1 9999999999999999-999999999-9999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999-----------999999999999-9999999999999999999999999----------99999
+i canFam2.chr1 I 3 C 0
+s felCat3.scaffold_217398 106797 158 - 219823 AGTGAAACCCGAAGAG-TGGATGTTT-CATGGTTCCATTTTCTGATGTCTTTGGAGTGACATAAGTCCTAGAAGGGCATTAGTTCCCGGCAAGAAAGCTGGGTTTGCTGTAGAAACAA-----------AATACTGACTGC-CCTCTGCTCTCCGTGTTGTTGCTTC----------TTGCA
+q felCat3.scaffold_217398 2213574574553323-226133465-2134444442547853332353573421312455664452333324131532224423835342544975335735856535344881469-----------945553554749-8263343628857588375565453----------31487
+i felCat3.scaffold_217398 I 3956 C 0
+s equCab1.chr31 13035822 138 + 24938454 AGTGAAACCCAAAGGG-GGGTTGTCT-CTTGGTTACA----------TCTTCGGGGTGACCTAAGTCTTAGAG-GACATTGGTTACTAGCAAGAAAGTGCAGTTTGCTTCAGGAACAA-----------AATCCTGACTGCTCTTCTGCTCTCCCTG--------------------TTGTA
+q equCab1.chr31 9999999999999999-999999999-9999999999----------99999999999999999999999999-99999999999999999999999999999999999999999999-----------9999999999999999999999999999--------------------99999
+i equCab1.chr31 I 24 C 0
+s bosTau3.chr9 13710169 132 - 95030419 AGTAAAACCCAAGGAGTTGGCTGGCTATTTGGTTCCATCTTCTGATGTCCTCAGAGTGATGTAAGTCTTAGAA-GAGGTTGGTTACTAGCAAGAAA-CTTGGTTTGCTTTAGAAAC----------------TTTGGTTGC-------TTCTCC-------------------------ATA
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999-9999999999999999999----------------999999999-------999999-------------------------999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=168673.000000
+s mm9.chr10 3178786 66 + 129993255 ---------AGGGGTTGACTGCATGCT-GTGTTTTTAGTAACT-TTATATAATG-------CACAAACCAGTTTTTCCTAAATG
+s rn4.chr1 229995911 59 - 267910886 ---------AGTGGTCGACTGCATGCT-GTGTCTTTAATAACTCTTCTTTAATG-------TACAAACCAGTTTTT--------
+q rn4.chr1 ---------999999999999999999-99999999999999999999999999-------999999999999999--------
+i rn4.chr1 I 237 C 0
+s oryCun1.scaffold_214769 79724 67 - 139458 ---------CGCTGTGGATTTATTACT-ACATATTTGGTAGCTCTTGAGTGATG-------TGTAGACCAGCTTTCCCCATATC
+q oryCun1.scaffold_214769 ---------999999999999999999-99999999999999999999999999-------99999999989999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 53689 68 - 523245 ---------AGCTGTGGGTTCATTACTAACATATTTGGTAGCTCTTCAGCAAGG-------TGTAGGTCAGATTTTCCCAAATG
+i calJac1.Contig1260 I 9 C 0
+s rheMac2.chr4 108485357 66 + 167655696 ---------AGCTGTGGGTTCGTTACT-ACATATTTGGTAGCTCTTCAGCAATG-------TGTAGATCAGCTTTT-TCAAACG
+q rheMac2.chr4 ---------999999999999999999-99999999999999999999999999-------999999999999999-9999999
+i rheMac2.chr4 I 9 C 0
+s ponAbe2.chr6 16383135 67 - 174210431 ---------AGCTGTGGGTTCATTACT-ACCTATTTGGTAGCTCTTCAGCAATG-------TGTAGATCAGCTTTTCCCAAATG
+i ponAbe2.chr6 I 9 C 0
+s panTro2.chr6 16601087 67 - 173908612 ---------AGCTGTGGGCTCATTACT-ACGTATTTGGTAGCTCTTCAGCAATG-------TGTAGATCAGCTTTTCCCAAATG
+q panTro2.chr6 ---------999999999999999999-99999999999999999999999999-------99999999999999999999999
+i panTro2.chr6 I 9 C 0
+s hg18.chr6 16077609 67 - 170899992 ---------AGCTGTGGGCTCATTACT-ACGTATTTGGTAGCTCTTCAGCAATG-------TGTAGATCAGCTTTTCCCAAATG
+i hg18.chr6 I 9 C 0
+s canFam2.chr1 78247193 82 - 125616256 AGAAATTGAAGCC-TGGGTTTATTGCT-CCGTATTTGGTACCCTCTTAGTGATGTGTGATATGTGGACCAGCTTTTCCCAAATG
+q canFam2.chr1 9999999999999-9999999999999-99999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 106955 75 - 219823 AGAAATTGAGGCT-TGGGTTTGTTGCT-ATGTATTTGATGCCTCTTGAGTGATG-------TGTGGACCAGCTTTTCCCACATG
+q felCat3.scaffold_217398 5559641322556-3545643534869-94874383222556965778667968-------36688699888998999989968
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13035960 76 + 24938454 AGAAATGGAAGCTGTGGATTTGTTGCT-CCATATTTGGTAGCTCCTTAGTGCTG-------TGGGGACCAGTTTTTCCCAGATG
+q equCab1.chr31 999999999999999999999999999-99999999999999999999999999-------99999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13710301 63 - 95030419 AGACATCAAAGCT-ACATTCTTTTGC-------------AGCTCTTCCATGATG-------TGTGGACCAGCCTCTCCTAAATG
+q bosTau3.chr9 9999999999999-999999999999-------------999999999999999-------99999999999999999999999
+i bosTau3.chr9 C 0 I 724
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=145928.000000
+s mm9.chr10 3178852 74 + 129993255 GCCGTGACTCCAAACCTTTGTTT-ATCATTAGCATT-CTTTCCCCCACATCCATTTTGAAA------ACAAACATTTGCTCT
+s rn4.chr1 229995970 72 - 267910886 ---------CCAAACTTTTGTTTTATCACTAGTATTACTTTCCCCCATATCCAGTTTGCTATACT-AAAAGTGATTTGCTCT
+q rn4.chr1 ---------99999999999999999999999999999999999999999999999999999999-9999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 79791 76 - 139458 GTTAGGAACCTAGACCTTTATTTTGTCTTCAGCATT-CTTATTCTTTCATCC----TGGCACCTT-AAAAAATGCCAGGGGT
+q oryCun1.scaffold_214769 999999999999999999999999999999599999-999999999997999----999999999-9999999998999999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 53757 77 - 523245 GGTAAGAATCTAAACTTTTATTTTCTCTTCAGCGTT-ACTGTTCCTTCAGCT----TGGTACCCTGAGAAATGGCCAGTGGG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108485423 77 + 167655696 GGTAAGAGTCTAAACTTTTATTCTCTCTTCTACATT-ACTGTTCTTTCAGCT----TGGTACCCCCAAAAATGGCCAGTGGG
+q rheMac2.chr4 999999999999999999999999999999999999-999999999999999----99999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16383202 77 - 174210431 GGTAAGAGTCTAAACTTTTATTTTCTCTTCTGCATT-ACTGTTCTTTGGGCT----TGGTACCCCAAAAAATGGCCAGTGGG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16601154 77 - 173908612 GGTAAGAGTCTAAACTTTTATTTTCTCTTCTGCATT-ACTGTTCTTTCAGCT----TGGTACCCCAAAAAATGGCCAGTGGG
+q panTro2.chr6 999999999999999999999999999999999999-999999999999999----99999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16077676 77 - 170899992 GGTAAGAGTCTAAACTTTTATTTTCTCTTCTGCATT-ACTGTTCTTTCAGCT----TGGTACCCCAAAAAATGGCCAGTGGG
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13036036 72 + 24938454 GTTAAAAGCGCATACT-----TTTGTCTTCAGCGTT-ACTGTTCTTTCAGCT----TCGTGCCCTAAAAAATGGCCGGTAGC
+q equCab1.chr31 9999999999999999-----999999999999999-999999999999999----99999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 107030 77 - 219823 GTTAAGAGCACAAATTTTTATTTTGTCTTCAGCATT-ATTGTGCTTTAAGCT----TGCTACTCTAAAAAATGCCCAGGAGC
+q felCat3.scaffold_217398 776999776689989999699976696899999999-899987655579998----99897798989999955569879994
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78247275 77 - 125616256 GTTAAGAGCACAGACTTATACTTGGTCTTCAGCATT-ACTGTGCTGTCAGCT----TGGTGCTCTAAAAAACGTCCAGTACC
+q canFam2.chr1 999999999999999999999999999999999999-999999999999999----99999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13710364 724 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=202222.000000
+s mm9.chr10 3178926 79 + 129993255 GTGCTCCTCTGGTTCAGAATCAGTTGCTCATTCTGTAG---ACAAAAGAAAAGG-------AGCTTTGGTGGTGTTTCACTTAGCTTCT
+s rn4.chr1 229996042 79 - 267910886 GTGCTCCTCCAGTTCAGAATCAGTTGCTCATTCTGTAG---ACAGAAGAAAAAG-------AGCTTTGGTGGCTCTTCACTGAGCTTCT
+q rn4.chr1 99999999999999999999999999999999999999---9999999999999-------9999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 79867 80 - 139458 ATA-TCCTCCTTTGCAAAGCCAGCCGCTGCTTCT--------CAAATGCAGGAGCTTGATTGGCTCTGGTTGGGCTTCCCTGGGTTCTT
+q oryCun1.scaffold_214769 999-999999979797799996999999999999--------99999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 I 2265
+s calJac1.Contig1260 53834 79 - 523245 GTGTCCCTTGTCCTTAAAATCAGTCATTCCATTCCAGA---AACAAAGTGAAAG-------AACTTCGATGGTTCTTAATTGGACTTCC
+i calJac1.Contig1260 C 0 I 1
+s rheMac2.chr4 108485500 78 + 167655696 GTGTCCCTTGTCCTCAAAATCAGTCATTCCATTTCAGA---AACAAAGTGAAAG-------AACTTTGCTGGTTCTAAATTGGGCTT-C
+q rheMac2.chr4 99999999999999999999999999999999999999---9999999999999-------99999999999999999999999999-9
+i rheMac2.chr4 C 0 I 1
+s ponAbe2.chr6 16383279 79 - 174210431 GTGTCCCTTGTCCTCAAAATCAGTCATTCCATTTCAGA---AACAAAGTGAAAG-------AACTTTGCTGGTTCTAAATTGGGCTTCC
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16601231 79 - 173908612 GTGTCCCTTATCCTCAAAATCAGTCATTCCATTTCAGA---AACAAAGTGAAAG-------AACTTTGCTGGTTGTAAGTTGGGCTTCC
+q panTro2.chr6 99999999999999999999999999999999999999---9999999999999-------9999999999999999999999999999
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16077753 79 - 170899992 GTGTCCCTTATCCTCAAAATCAGTCATTCCATTTCAGA---AACAAAGTGAAAG-------AACTTTGCTGGTTGTAAGTTGGGCTTCC
+i hg18.chr6 C 0 I 1
+s canFam2.chr1 78247352 81 - 125616256 ATGTCCCTCCTCCTCAAAAGCAGTTGCT-CATTCCATAAATAATATAGTGAAAG-------AACTTGGTTGGTTCTTAATTGGGCTTCC
+q canFam2.chr1 9999999999999999999999999999-9999999999999999999999999-------9999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 107107 79 - 219823 GTATCCCTCCCCCTCAAGATCACTTGCTCCATTCCATA---AATACAGTGGAAG-------AGCTCGGTTGGTTCTTAACTGGCCTTCC
+q felCat3.scaffold_217398 57799999999947789999999788999999999998---9999999788999-------9999788888999899999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13036108 79 + 24938454 TTGTCCCTCCTCCTCAAAATCAGTTGCTGCCTTCCATA---AATATAGCGAAAG-------AGCTGTGTTGATTCTTCACGGGGCTTCT
+q equCab1.chr31 99999999999999999999999999999999999999---9999999999999-------9999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13711088 79 - 95030419 GTGTCCCTCCTCCTCAAAATAAGCTGCTCCATCCCATG---AACATAGTGAAGA-------GGCTTTGTTGGTTCGCAGTTGAGCTTCT
+q bosTau3.chr9 99999999999999999999999999999999999999---9999999999999-------9999999999999999999999999999
+i bosTau3.chr9 I 724 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=48476.000000
+s mm9.chr10 3179005 65 + 129993255 AAGGCAACT------CTGGCTAGATCTCCAGCATGTGTCTGGTAGCTGTGCTTG----------GGGGGGGGGGGGGTGCA
+s rn4.chr1 229996121 71 - 267910886 AGGGCACTCGACCTGCTGGCTAGATCTCCAGCTTGTGCCTGGTAGCTGTGCCTA----------GGGAAGGGGCGGGTGCC
+q rn4.chr1 999999999999999999999999999999999999999999999999999999----------99999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 53914 48 - 523245 AGGGTTCTT-----GGTGGCTGGATCTTTATCATGTGTTTGG--ATTTCACATGG--------------------------
+i calJac1.Contig1260 I 1 C 0
+s rheMac2.chr4 108485579 47 + 167655696 AGAGTTCTT-----GGTGGCTGGATCTTTATTATGTGTTTGG--ATTTCATGTG---------------------------
+q rheMac2.chr4 999999999-----9999999999999999999999999999--9999999999---------------------------
+i rheMac2.chr4 I 1 C 0
+s ponAbe2.chr6 16383359 47 - 174210431 AGGGTTCTT-----GGTGGCTGGATCTTTATTATGTGTTTGG--ATTTCACGTG---------------------------
+i ponAbe2.chr6 I 1 C 0
+s panTro2.chr6 16601311 47 - 173908612 AGGGTTCTT-----GGTGGCTGGATCTTTATTATGTGTTTGG--ATTTCACATG---------------------------
+q panTro2.chr6 999999999-----9999999999999999999999999999--9999999999---------------------------
+i panTro2.chr6 I 1 C 0
+s hg18.chr6 16077833 37 - 170899992 AGGGTTCTT-----GGTGGTTGGATCTTTATTATGTGTTTGG---------------------------------------
+i hg18.chr6 I 1 I 10
+s canFam2.chr1 78247433 69 - 125616256 AGGGCTCTT------GTTGCTGGTTCTTT-CCATGTGTTTGA--GTTTCATCCAGCTTGTGCTTTGAAGGCAACAGAA---
+q canFam2.chr1 999999999------99999999999999-999999999999--9999999999999999999999999999999999---
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 107186 69 - 219823 AGGGCTCTC------ATTGCTGGCTCTTC-CCATGTGTTTGG--ATTTCCTGCAGCTTCTGCTTTGAAGGCAGTAGAG---
+q felCat3.scaffold_217398 999999999------99897478999999-999999999999--9999999999999999999999999999999999---
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13036187 69 + 24938454 AGGGCTCTC------GTGGCTGGACCTCT-GGACAAGTTTGG--ATTTCCTGTGGCTCCCGCGTTGAAGGCTGCAGGG---
+q equCab1.chr31 999999999------99999999999999-999999999999--9999999999999999999999999999999999---
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13711167 69 - 95030419 AGTATCCCT------GTGGCTGCATCTTT-GGATGTGTTTGG--ATTTTAAGCAGCTTCTGCTTTCGGGGCGGCGGCA---
+q bosTau3.chr9 999999999------99999999999999-999999999999--9999999999999999999999999999999999---
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_68351.1-4652 4638 0 - 4652 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=102749.000000
+s mm9.chr10 3179070 123 + 129993255 GTCTCTGTTTCAGAGGGGAGGGAGCGAATGGCCA-----------GCCT-CAGCTCAGG-C-------AGGTAGAAA----------ACCTT----G-------ACAGCTAATACTTGCT-TT-----TTCTGAAGGCTGAGCAGGCTCATTCA-TTGGCTAAT-AGTTTA-T
+s rn4.chr1 229996192 129 - 267910886 CTCCCTGCCTCAGAGGGGAGCGTGTGGAGCCCCA-----------GCCTTCAGCTCATG-C--------GGCAGAAA----------GCCTT----C-TCCTCCACAGCTAATACCTG-T-TT-----CTCTGAAGATGGAACAGATTTATTCA-TTTGCTAATTATTTTC-T
+q rn4.chr1 9999999999999999999999999999999999-----------99999999999999-9--------99999999----------99999----9-99999999999999999999-9-99-----99999999999999999999999999-9999999999999999-9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16077880 126 - 170899992 GCCCCTGCTTCCAAGGGAGCAGC----AGTTCCA-----------GCTCACAGCTCTGATC-------AGGGTCAAA----------ACCCG-ACTT-ACATGCATCGTCTTTATATGGT-TT-----TTTTCAAGAC----CAAGTTCATTCA-TTTGCTAGt-ctttct-t
+i hg18.chr6 I 10 I 117
+s panTro2.chr6 16601358 126 - 173908612 GCCCCTGCTTCCAAGGGAGCAGC----AGTCCCA-----------GCTCACAGCTCTGATC-------AGGGTCAAA----------ACCCG-ACTT-TCATGCATCGTCTTTATATGGT-TT-----TTCTCAAGAC----CAAGTTCATTCA-TTTACTAGt-ctttct-t
+q panTro2.chr6 99999999999999999999999----9999999-----------9999999999999999-------999999999----------99999-9999-9999999999999999999999-99-----9999999999----999999999999-999999999-999999-9
+i panTro2.chr6 C 0 I 96
+s ponAbe2.chr6 16383406 126 - 174210431 GTCCCTGCTTCCAAGGGAGCAGC----AGTCCCA-----------GCTCACAGCTCTGATC-------AGGGTCAAA----------ACCCG-ACTT-ACATGCATCATCTTTATATGGT-TT-----TTCTCAAGAC----CAAGTTCATTCA-TTTGCTTGt-ctgtct-t
+i ponAbe2.chr6 C 0 I 82
+s rheMac2.chr4 108485626 123 + 167655696 GCCACTGCTTCCAAGGGAGCAGC----AGTCCCA-----------GCTCACAGCTCTGATC-------AGGGTCAAA----------ACCCTCACTTAAAATGCATCGTTTTTATATGGT-TT-----TTCTCAACAC----CAAGTTCATTCA-TTTGCTAGT-CT------
+q rheMac2.chr4 99999999999999999999999----9999999-----------9999999999999999-------999999999----------999999999999999999999999999999989-99-----9999999999----999999999999-999999999-99------
+i rheMac2.chr4 C 0 I 260
+s calJac1.Contig1260 53962 123 - 523245 -CCCCTGCTTCCAAGGGAGCAGC----AATCCCA-----------GCTCACAGCTCTGATC-------AGGGTCAAA----------ACCCTGACTT-CCATACATCATTTTTATATGGT-TT-----TTCTCAAGAA----CAAGTTCATTCG-TTTGCTAGT-TTTt----
+i calJac1.Contig1260 C 0 I 181
+s tupBel1.scaffold_114895.1-498454 379598 155 - 498454 GTCTCTGCTTCAAAGGGAATAGC----TGTCTCAGAAATGCACGTGCTCCCAGCCCTGATCACCATAGAGAACCAGACAACACACACACCTG-ACTT-AACTAGATAA----TACATAGT-TTTATACTTTTTAAGAC----CAAGTGCAATCA-TTTGCTAAG-ACTTGT-T
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999----99999999999999999999999999999999996999999999999999999999999999999-9999-0999999999----99999999-99999999999999999----999999999999-999999999-999999-9
+i tupBel1.scaffold_114895.1-498454 I 5825 C 0
+s canFam2.chr1 78247502 98 - 125616256 ------GCCAT---AGGGATGAC----TTCATAT-----------GTTCGGA-CTCTAATC-------AGCACAGAA----------AACCGGACTG--------------------GGT-TT-----TCCCCAAGAC----CAACTTCATTCA-CTTGCTCAT-TATTTTC-
+q canFam2.chr1 ------99999---999999999----9999999-----------9999999-99999999-------999999999----------9999999999--------------------999-99-----9999999999----999999999999-999999999-9999999-
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 107255 98 - 219823 ------GCCTC---AGCAATGGC----TTCATAG-----------GCTCAGA-CTCTAATC-------AGGGCAGAA----------AACCTCACAG--------------------CATCTT-----TCCCCAAGAC----CAAGTTCATTCA-CTTGATAAT-TATTTT--
+q felCat3.scaffold_217398 ------99999---999999999----9999999-----------9999999-99999999-------999999999----------9999999999--------------------999999-----9999999999----999999999999-999999999-999999--
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13036256 98 + 24938454 ------GTCTC---AGCAATGGC----TTTGTGT-----------GCTCACAGCTCTAATC-------GGGGCAGAA----------AACCTGACCA--------------------AGG-TT-----TCCTCAAGAC----CAAGTTCATTCA-TTTGCTAAT-TAGTTT--
+q equCab1.chr31 ------99999---999999999----9999999-----------9999999999999999-------999999999----------9999999999--------------------999-99-----9999999999----999999999999-999999999-999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13711236 99 - 95030419 ------GCCTT---GGGCATGAC----TTCGTAT-----------ACTCAGAGTTCTAATG-------AGGGCAGAA----------ACCCTGATGG--------------------AGT-TT-----TTCTCAAGAC----CAGATTCTTTCATTTTGATGAT-TGTCTT--
+q bosTau3.chr9 ------99999---999999999----9999999-----------9999999999999999-------999999999----------9999999999--------------------999-99-----9999999999----9999999999999999999999-999999--
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=526481.000000
+s mm9.chr10 3179193 260 + 129993255 TAGTTCTGAGGATGTTTGGACTTTAGGGCTT-GAGGGGTTTCTTT-TGTTCCC-------------TGTAGAAGTGAAGATAACCT-----GGTAGG-----------------TTTACCTGTC------------------TCTCAGAAGCATT----CATTCTTAGATCTGT---AGGGCTCCTGTCTC-------------------------------------------------------------------------------CTTGGAGTTTCCAACCCAT-------TGTTC-AG-ACCTGATGTCTGGTCCTGGTGCCCTTTCTTCAGAGTAGCTGAAATCAG----------CA--GCCTCTCAGGG-GACGGGATAGAGCAGAGCTATATCTGGAATCC-TGTGAGGATGTT
+s rn4.chr1 229996321 255 - 267910886 CAGCTCTGAGGATGTTTGGACTTTAGGTTTTTGAGAGGTTTCTTTCTTTTCTC-------------CATAGAAGTAAAGGAAATTT-----GTTTCC-----------------TTTTCCTGTC------------------TCTCGGAAGCATT----CATTCTTAGACTTGTTGTAGGACTCCTGGCTC-------------------------------------------------------------------------------CTTGGTGCTTCCAACCCGT-------TGTTT-AG-ACCTGATGTCTGGTCCTGGTGCACTGTCTTCAGAGTAGCTTAAATCCG----------CA--GC-TCTCAGGG-GACAGGTTAGACCAGGGCTACAACTGGCAGTC-TGT---------
+q rn4.chr1 99999999999999999999999999999999999999999999999999999-------------99999999999999999999-----999999-----------------9999999999------------------9999999999999----99999999999999999999999999999999-------------------------------------------------------------------------------9999999999999999999-------99999-99-999999999999999999999999999999999999999999999999----------99--99-99999999-99999999999999999999999999999999-999---------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16078123 269 - 170899992 TAGCTTTGAGGATATTTAGGACTTAAGTTTCTGGGCAGCTTATTTCCTTTTTCATTCTCTGC---TCTTGTAAGTAAAGGTAACTT-CT--GAGTAG-----------------CTCAAACATA------------------TGTTGGAACTATG----GATCTTTAGACCTGA---AAGAAGCACGGCAG-------------------------------------------------------------------------------CT------TTCCAATCCAG-------TTTTC-AG-ACATTATGTTTCATCATGGTCCCCGTTCTTCAAATTAAATTTAACCAC----------AA--ACCTCGAAGGATGACTGATAAAATCAGAGCTGCAATTAGTAGTG-TGCGTGGGTGTC
+i hg18.chr6 I 117 C 0
+s panTro2.chr6 16601580 269 - 173908612 TAGCTTTGAGGATATTTAGGACTTAAGTTTCTGGGCAGCTTATTTCCTTTTTCATTCTCTGC---TCTTGTAAGTAAAGGTAACTT-CT--GAGTAG-----------------CTCAGACATA------------------TGTTGGAACTATG----GATCTTTAGACCTGA---AAGAAGCACGGCAG-------------------------------------------------------------------------------CT------TTCCAATCCAG-------TTTTC-AG-ACATTATGTTTCATCATGGTCCCCGTTCTTCAAATTAAATTTAACCAC----------AA--ACCTCGAAGGATGACTGATAAAATCAGAGCTGCAATTAGTAGTG-TGCGTGGGTGTC
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999---999999999999999999999-99--999999-----------------9999999999------------------9999999999999----999999999999999---99999999999999-------------------------------------------------------------------------------99------99999999999-------99999-99-999999999999999999999999999999999999999999999999----------99--99999999999999999999999999999999999999999999-999999999999
+i panTro2.chr6 I 96 C 0
+s ponAbe2.chr6 16383614 268 - 174210431 TAGCTTTGAGGATATTTAGGTCTTAAGTTTC-GGGCAGCTTATTTCCTTTTTCATACTCTGC---TCTTGTAAGTAAAGGTAACTT-CT--GAGTAG-----------------CTCAGACATA------------------TGTTGGAACTATG----GATCTTTAGACCTGA---AAGAAACACTGCAG-------------------------------------------------------------------------------CT------TTCCAATCCAG-------TTTTC-AG-ACATTATGTTTCATCATGGTCCCCGTTCTTCAAATTAAATTTAACCAC----------AA--ACCTCGAAGGATGACTGATAAAATCAGAGCTGCAATTAGTAGTG-TGCGTGGGTGTC
+i ponAbe2.chr6 I 82 C 0
+s rheMac2.chr4 108486009 269 + 167655696 TAGCTTTGAGGATATTTAGGATTTAAGTTTCTGGGCAGTTTATTTCCTTTTTCATACTCTGC---TCTTATAAGTAAAGATAACTT-CT--GAGTAG-----------------CTCAGACATA------------------TGTTGGAACCATG----GATCTTTAGACCTGT---AAGAAACACTGCAG-------------------------------------------------------------------------------CT------TTCCAATCCAG-------TTTTC-AG-ACATTATGTTTCATCATGGTCCCCATTCTTCAAATTAAATTTAACCAC----------AA--ACCTCGAAGGATGGCTGATAAAATCAGAGCTGCAATTAGTAGTG-TGCGTGGGTGTC
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999---999999999999999999999-99--999999-----------------9999999999------------------9999999999999----999999999999999---99999999999999-------------------------------------------------------------------------------99------99999999999-------99999-99-999999999999999999999999999999999999999999999999----------99--99999999999999999999999999999999999999999999-999999999999
+i rheMac2.chr4 I 260 C 0
+s calJac1.Contig1260 54266 271 - 523245 GAACTTTGAGGATGTTTAGGATTTAATTTTCTGGGCAGCTTATTTCCTTTTTCATGCTCTGC---TCTTGTAAGTAAAGGTAACTT-CTAAAAGTAG-----------------CTCAGACATA-------------------GTCAGAAGCATG----GATTTTTAGACCTGG---AAGAAACGCTGCAG-------------------------------------------------------------------------------CT------TTCCAATCCAG-------TTTTC-AGCACATTGTGTTTCATCACGGTCCCCTTTCTTCAAATTAAATTTAACCAT----------AA--GCCTCGAAGGATGGCTGATAAAATCAGAGCTGCAATTAGTAGTG-TGCATGGGTGTC
+i calJac1.Contig1260 I 181 C 0
+s tupBel1.scaffold_114895.1-498454 379753 278 - 498454 CAGCTCTTCGGATGTTTGGGATTTGAGTTTCTGGGAAGTTTATATTCTTTCTAATATACTAC---TCTTAGAAGTAAAAGTAACTTACA--TAATAG-----------------CTCAGATATC------------------ATATAGAAGTGTA----GATTCTTAGACCTGG---AAGAAACTTGAAAG-------------------------------------------------------------------------------GT-----CTTCTAATCTAA-------CTTTC-TG-ACACTGTGTGTAGTCATGGTACTC---CTTCAAATTAAATTTAACCAAAGGCTTAAAGAA--GCCTTGGAAGAGGACAGATAGAGTCAGAGCTGCGATTGTTGTGG-TGTGTGGGTATT
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999999999999999999---999999999999999999999999--999999-----------------9999999999------------------9999999999999----999999999999999---99999999999999-------------------------------------------------------------------------------99-----999999999999-------99999-99-999999999999999999999999---999999999999999999999999999999999--99999999999999999999999999999999099999999999-999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78247600 267 - 125616256 CGGCTCTGAGGATGTTTGAGATTTAAGTTTCTGGGCAGTCTTTTTCCTTCTGCATTTTTGGC---CATTATAAGTGAAGGTAACTC--A--TGCTAA-----------------CTCAGACATG-----------------TTTATAAGAGCATA----TACTTGTACACCTCA---AAGGAACCAAGAGG-------------------------------------------------------------------------------TC------TTCTAATCCAG-------TTTTCAAG-GCATTGT-----GTGGTGGTCCTCTTTCTTCAAATTACATTTAACCAG----------AGGTGTGTGGCAGGATGACTGAGAAAATCAGAGCCGTGGGTAGTTGTA-TGCATGGGTGTC
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999---999999999999999999999--9--999999-----------------9999999999-----------------99999999999999----999999999999999---99999999999999-------------------------------------------------------------------------------99------99999999999-------99999999-9999999-----999999999999999999999999999999999999----------999999999999999999999999999999999999999999999999-999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 107353 222 - 219823 -AGCTCTGAGGATGTTTGAGATTGAGGTTTCTGGGCAGTTTATTTCCTTCTTCATACTCTGC---TATGGTAAATGAAGGTAATTC--A--TACTAG-----------------TTCAG-----------------------------------A----TACTTGTAGGCCTGG---AAGGAACTGAGAGA-------------------------------------------------------------------------------TC------TTCTGATCCAG-------TTCTC-AG-ACGTTGT-----GTTGTGGTACCCTTTCTTCACATTGCATTGAACCAG----------AA--ACCTGGCAAGGTGACTGAGAAAGTCAGAGCTGT------------------------
+q felCat3.scaffold_217398 -9999999999999999999999999999999999999999999999999999999999999---999999999999999999999--9--999999-----------------99999-----------------------------------9----999999999999999---99999999999999-------------------------------------------------------------------------------99------99999999999-------99999-99-9999999-----999999999999999999999999999999999999----------99--999999999999999999999999999999999------------------------
+i felCat3.scaffold_217398 C 0 I 973
+s equCab1.chr31 13036354 263 + 24938454 TAGCTCTGAGGATATTTGGCATGTAAGTTTCAGGGCAGTTTCTTTCCTTCTTTATACTGTGCTATTATTGTAAGTCAAGGTAATTT--A--TACTGG-----------------CTCAGACATG------------------ATGtagaagcaca----gacttttagacctgg---aaggaactgagagg-------------------------------------------------------------------------------tc------ttccaatccaG-------TTGTC-AG-ACATTGT-----GTT-TAGAAGTCTTTCTTCAAATTAGATTTAACCAG----------AA--GCCTATTAGGATGACTGAAAAAATCAGAGCTGC---CAGTGGTAGTGTGTGGGTGTC
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9--999999-----------------9999999999------------------9999999999999----999999999999999---99999999999999-------------------------------------------------------------------------------99------99999999999-------99999-99-9999999-----999-99999999999999999999999999999999----------99--999999999999999999999999999999999---999999999999999999999
+i equCab1.chr31 C 0 I 4824
+s bosTau3.chr9 13711335 365 - 95030419 TGGCCCTAAGGAGGTTTGGGATTCCAGTTCCTGAGCAGTTTATTTCCTTCTTTATACTCTGC---AACTGTAAGTGCAAGT-ATCA--G--TACTAAGTGGAGAAGTGTAGACTTTTAGATCTGAAAAGTACCGAGAGAGCtttttaaaaatttattattttttttaagtttat---ttttaattggaggataattggtttatgatgctgtattagtttctgctgtacaacagccatgtgtgtacatatatcccctcctacttgaacctctc------tcccaccccTGAGAGTTCTTTTC-AG-ACATTATCTTTAGTTCTGGTCCTCTTTTTTCAAATTATATTTAACCAG----------AA--GCCTGGTAGGATGACTGAGAAAATCAAAG----------------------------
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999---9999999999999999-9999--9--99999999999999999999999999999999999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------99999999999999999999999-99-999999999999999999999999999999999999999999999999----------99--99999999999999999999999999999----------------------------
+i bosTau3.chr9 C 0 I 3675
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=98007.000000
+s mm9.chr10 3179453 108 + 129993255 GG-CAT-ACTGTATGCTTACTGATCTACAGGTGAGGTGCC-GGGAGACAGGAT----------GT------CCCTCACTTAGATAACATGTGGCCTTCA-GCCTAGATGGCAAATCAGGTTCATTC----------------------------------------------TG
+s rn4.chr1 229996576 103 - 267910886 -------ACTGCATGCGTACTGATCTGTAAGTGAGGTACC-AGGAGCCAGGAC----------AC-----ACCCTCCCTTAGGTAACAGGTG-CACTCA-ACCTAGATGACAAATCAGGTTCATTC----------------------------------------------TG
+q rn4.chr1 -------999999999999999999999999999999999-999999999999----------99-----9999999999999999999999-999999-99999999999999999999999999----------------------------------------------99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16078392 123 - 170899992 AGTTCT-AATGGAAGCCTGCTAATCCACTGATGGGAAGCCTGAGAACCAGAACT--AAGTGA-GTTAGCCAGTGTTACTGGGGCAGGACAGGGAGTACA-GCCAGGAGGAGAAATTGGGCTCATTT----------------------------------------------AG
+i hg18.chr6 C 0 I 14
+s panTro2.chr6 16601849 123 - 173908612 AGTTCT-AATGGAAGCCTGCTAATCTACTGATGGGAAGCCTGAGAACCAGAACT--AAGTGA-GTTAGCCAGTGTTACTGGGGCAGGACAGGGAGTACA-GCCAGGAGGAGAAATTGGGCTCATTT----------------------------------------------AG
+q panTro2.chr6 999999-99999999999999999999999999999999999999999999999--999999-999999999999999999999999999999999999-99999999999999999999999999----------------------------------------------99
+i panTro2.chr6 C 0 I 14
+s ponAbe2.chr6 16383882 123 - 174210431 AGTTCT-AATGGAAGCCTGCTAATCCACTGATGGGAAGCCTGAGAACCAGAACT--AAGTGA-GTTAGCCAGTGTTACTGGGGCAGGACAGGGAGTACA-GCCAGGAGGAGAAATTGGGCTCATTT----------------------------------------------AG
+i ponAbe2.chr6 C 0 I 116
+s rheMac2.chr4 108486278 123 + 167655696 AGTTCT-AATGGAAGCCTGCTAATCCACGGATGGGAAGCCTGAGAACCAGAACT--AAGTGG-GTTAGCCAGTGTTACCCAGGCAGGACAGGGAGTACA-GCCAGAAGGAGAAATTGGGCTCATTT----------------------------------------------AG
+q rheMac2.chr4 999999-99999999999999999999999999999999999999999999999--999999-999999999999999999999999999999999999-99999999999999999999999999----------------------------------------------99
+i rheMac2.chr4 C 0 I 20
+s calJac1.Contig1260 54537 170 - 523245 AGTTCTAAATCGAAGCATGCTAATCCACCGACGGGGAGCCTGAGAA-CAGAATG--AAGTGGTTTTAGCCAGAGTGACTCAGGCAGGACAGGGAATACA-GCCAGGAGGAGAAATTGGGCTCATTTTCGGTagaaantcagattggtggctgctggggatggggctgtgtggag
+i calJac1.Contig1260 C 0 I 2
+s tupBel1.scaffold_114895.1-498454 380031 88 - 498454 GGTTCT-AACGGATGA-----AATCCACAGATGAGG-GCCTGAGCG-----------------GATGGCCAGC----------TGGTACACAGAAAACA-GCCAGGATGAGAAA----GCTCTCTC----------------------------------------------T-
+q tupBel1.scaffold_114895.1-498454 999999-999999999-----999999999999999-999999990-----------------9099999999----------9999999999999999-99999999999990----99999999----------------------------------------------9-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78247867 126 - 125616256 AGTTCT-AATCCGAGCCAGCTCATCCGTGTTTGAGGAGCCCAAGAACTGTGAGGAAAAGTGG-TTTAACCAGGGTAACACAGGCAGGCTATGGAGTAAAGGCCAGAATAAGAAATACGGTTCCTTT----------------------------------------------TG
+q canFam2.chr1 999999-9999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999----------------------------------------------99
+i canFam2.chr1 C 0 I 9
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 107575 973 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=-13344.000000
+s mm9.chr10 3179561 37 + 129993255 -AGTTAACCATGGACACAGGAATGCTCTCGttagga----------ag---------------
+s rn4.chr1 229996679 35 - 267910886 -AGTCAACCATGGACA--GGGGCACCTCCattaggg----------ag---------------
+q rn4.chr1 -999999999999999--999999999999999999----------99---------------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16601986 31 - 173908612 -----agtggcagctg--gggacagggctgtaggga----------gg---------------
+q panTro2.chr6 -----99999999999--999999999999999999----------99---------------
+i panTro2.chr6 I 14 I 71
+s hg18.chr6 16078529 31 - 170899992 -----agtggcagctg--gggacggggctgtaggga----------gg---------------
+i hg18.chr6 I 14 I 71
+s rheMac2.chr4 108486421 25 + 167655696 -----------AGCTG--GGAATGGGGCTGTGGGGA----------GG---------------
+q rheMac2.chr4 -----------99999--999999999999999999----------99---------------
+i rheMac2.chr4 I 20 I 71
+s calJac1.Contig1260 54709 38 - 523245 --------agtggaca--gcaaaggggcccgagggagctttccttggg---------------
+i calJac1.Contig1260 I 2 I 35
+s tupBel1.scaffold_114895.1-498454 380119 32 - 498454 ----CCATAGAGAGCA--GGCTTGTGCTTGCTGGGA----------GA---------------
+q tupBel1.scaffold_114895.1-498454 ----999999999999--999999999999999999----------99---------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 41
+s canFam2.chr1 78248002 46 - 125616256 agttcattgactacca--gggata-----gcaggga----------gggaactgaccagcaaa
+q canFam2.chr1 9999999999999999--999999-----9999999----------99999999999999999
+i canFam2.chr1 I 9 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 107575 973 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e ponAbe2.chr6 16384005 116 - 174210431 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=64925.000000
+s mm9.chr10 3179598 100 + 129993255 g---------------------------------------------tggatatgcataggccct-gac-tgtacacagcagtc------------aaaac-tcatcaaactatagatcga-atattgacag-attttatggtgtgcaaattaCCCTGCAGT----A
+s rn4.chr1 229996714 91 - 267910886 g---------------------------------------------tggat---------ccac-gac-cgtacacatcagtc------------aaaac-tcgtcaaaatacatatcgg-atattggcag-attttacagtgtgcaaattatatctcagt----a
+q rn4.chr1 9---------------------------------------------99999---------9999-999-99999999999999------------99999-9999999999999999999-9999999999-99999999999999999999999999999----9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16078631 89 - 170899992 g---------------------------------------------tggtt---------gaat-gac-tg--cctgtttgtc------------caagc-tcactgagttgtaccctgg-aaattggtga-cttttaatgtctataaattatgcctcaag----a
+i hg18.chr6 I 71 C 0
+s panTro2.chr6 16602088 89 - 173908612 g---------------------------------------------tggtt---------gaat-gac-tg--cctatttgtc------------caagc-tcactgagttgtaccctgg-aaattggtga-cttttaatgtctataaattatgcctcaag----a
+q panTro2.chr6 9---------------------------------------------99999---------9999-999-99--9999999999------------99999-9999999999999999999-9999999999-99999999999999999999999999999----9
+i panTro2.chr6 I 71 C 0
+s ponAbe2.chr6 16384121 89 - 174210431 g---------------------------------------------tggtt---------gaat-gac-tg--cctatttgtc------------aaagc-tcactgagttgtaccctgg-aaattggtga-cttttaatgtctgtaaattatgcctcaag----a
+i ponAbe2.chr6 I 116 C 0
+s rheMac2.chr4 108486517 89 + 167655696 G---------------------------------------------TGGTT---------GCAT-GAC-TG--CCTATTTGTC------------AAAGC-TCATAGAGTTGTACACTGG-AAATTGGTGA-CTTTTAATGTCTATGAATAATGCCTCAAG----A
+q rheMac2.chr4 9---------------------------------------------99999---------9999-999-99--9999999999------------99999-9999999999999999999-9999999999-99999999999999999999999999999----9
+i rheMac2.chr4 I 71 C 0
+s calJac1.Contig1260 54782 93 - 523245 g---------------------------------------------tagtt---------gcatggac-tg--catatttttc------------aaagcttcattgagttgtacactggcaaattggtgaccttttaatgtatataaattatgcctcaag----a
+i calJac1.Contig1260 I 35 C 0
+s tupBel1.scaffold_114895.1-498454 380192 125 - 498454 GA---ACTTTTGGGGGTGACAGAA---------------------ATATTT---------ATAT-TAA-GA--TTTTTGTGTCGTTATGTGATGGAAAAC-TCATTGAACTATACACAAA-AAATGGATAA--ATTTATTGTATATAGATTATATCTCAAAAAATA
+q tupBel1.scaffold_114895.1-498454 99---9999999999979989999---------------------999999---------9999-999-99--999999999099999999999999999-9999999999999999999-9999999999--999999999999990999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 41 C 0
+s canFam2.chr1 78248048 114 - 125616256 -gggaacttttgggggtgatagagtgtttatatcgtgattgtgctgtggtt---------acat-catgta--tgtatttgcc------------agaat-tcatctagttgtgcactga-aaattagtga-attttatcat------------------------
+q canFam2.chr1 -99999999999999999999999999999999999999999999999999---------9999-999999--9999999999------------99999-9999999999999999999-9999999999-9999999999------------------------
+i canFam2.chr1 C 0 I 50
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 107575 973 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=267385.000000
+s mm9.chr10 3179698 250 + 129993255 GG--TAACTTCAGGCAGATAACAACCTAA---------------AGGGAGTCTCCTGGAACAT-------------GTTCA--G-----------------------AATTTAA----------AATTTC---ACTCTC----A-----------GGCATATTAAGAGAAGTGA--------------AGATAATTTGGGTCACTTAATTTCAGA-TAGACTGGCCTGGTCTGTTTTTCTGCCTGGTTGGTGT-GTCACCACTGTAAACATGTCGCTGCTGGAAGCTTAAGCAAAGGCCTGTGGA------------------------CTTT-CTCTACCAAGGGCCA---GGC-----------------------------------------------AGCTCCCAGGGTGTTC------------- [...]
+s rn4.chr1 229996805 289 - 267910886 TG--TAACTTCAGGAAGATAA-----------------------AGGGAGTCTCCTGGAACAT-------------GTTCA--G-----------------------AATTTAA----------AATT-C---ACTGTC----A-----------GACATATTAAGAGAAGTGA--------------GGATAATTTGGGTCACTTAATTTCAGA-TAGACTGGCTTGGTCTGTTTTTCTGCCTGGTTGGTGT-GTCACCACTGTGAACATGTCACCTCTGGAAGCTTAAGGAGAGGCCTGCGGA------------------------CTTTTCTCTACAAAGGGCCA---GGC-----TCCCAGGCTCAGTCCGGCCTT-----GGCACAC---CCACTCAGCACTGCTGCTGCTCAGAAGTATGCAAA [...]
+q rn4.chr1 99--99999999999999999-----------------------9999999999999999999-------------99999--9-----------------------9999999----------9999-9---999999----9-----------9999999999999999999--------------999999999999999999999999999-9999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999------------------------99999999999999999999---999-----999999999999999999999-----9999999---99999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16078720 312 - 170899992 gaaCTGACAAAAAGAAAATAATAAAGTGGCTCAAAAGTTGT---AAGGAACCTCCTAAAACAT--TCAGGTCTTTCATTAG--GGGAGGGGGG--AGCATTTTCTATGGTTTTA----------AATT-C---AGTGTA----ACTGTATGAAATGATTCCTTAAAAAATACAA-----CAAAAAAAGAAAAACTCACATTCCCTTAATTCCAGACTAGACTGGTGGAGTCTATTTTTCTGGTCGGCAGAGGTCATCATCACTCTGTACTCATCGCTGCTGTCAGTTATACCAAGGGCctgtaaa------------------------cct-----------gggcca---ggt-------------------------------agtaaat---attttaggctctgtgggaga--------------- [...]
+i hg18.chr6 C 0 I 80
+s panTro2.chr6 16602177 314 - 173908612 gaaCTGACAAAAAGAAAATAATAAAGTGGCTCAAAAGTTGT---AAGGAACCTCCTAAAACAT--TCAGGTCTTTCATTAG--GGGAGGGGGGGTAACATTTTCTATGCTTTTA----------AATT-C---AGTGTA----ACTGTATGAAATGATTCCTTAAAAAATACAA-----CAAAAAAAGAAAAACTCACATTCCCTTAATTCCAGACTAGACTGGTGGAGTCTATTTTTCTGGTCGGCAGAGGTCATCATCACTCTGTACTCATCGCTGCTGTCAGTTATACCAAGGGCctgtaaa------------------------cct-----------gggcca---ggt-------------------------------agtaaat---attttaggctctgtgggaga--------------- [...]
+q panTro2.chr6 99999999999999999999999999999999999999999---9999999999999999999--9999999999999999--9999999999999999999999999999999----------9999-9---999999----9999999999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999978999999776277799999------------------------999-----------999999---999-------------------------------9999999---99999999999999999999--------------- [...]
+i panTro2.chr6 C 0 I 81
+s ponAbe2.chr6 16384210 314 - 174210431 gaactgaCAAAAAGAAAATAATAAAGTGGCTCAAAAGTTGT---AAGAAAACTCCTAAAACAT--TCAGGTCTTTCATTAG--GGGAGGGGAGGTAACATTTTCTATGCTTTTA----------AATT-G---AGTGTA----ACTGTATGAAACGATTCCTTAAAAAATACAA-----CAAAAAAAGAAAAACTCACATTCCCTTAATTCCAGACTAGACTGGTGGAGTCTATTTTTCTGGTCGGCAGAGGTCATCATCACTCTGTACTCATCGCTGCTGTCAGTTATACCAAGGGCctgtaaa------------------------cct-----------gggcca---ggt-------------------------------agtaaat---attttaggctctgtgggaga--------------- [...]
+i ponAbe2.chr6 C 0 I 81
+s rheMac2.chr4 108486606 310 + 167655696 GAACTGACAAAAAGAAAATAATAAAGTGGCTAAAAAGTTGT---AAGGAACCTCCTAAAACAT--TCAGGTCTTTCATTGG--GGGAGGGGAGGTAACATTTTCTATGCTTTTA----------AATT-C---AGTGTA----ACTGTATGAAATGATTCCTTAAAAAATACAA-----CAAAAGAAGAAAAACTCACGTTCCCTTAATTCCAGACTGGACTGGTGGAGTCTGTTTTTCTGGTCGGCAGAGGTCATCATCACTCTGTACTCATCGCTGCTGTCAGTTCTACCAAGGGCCTGTAAA------------------------CCT-----------GGGCCA---GGT-------------------------------AGTAAAT---ATTTTAGGCTCTGTGG------------------- [...]
+q rheMac2.chr4 99999999999999999999999999999999999999999---9999999999999999999--9999999999999999--9999999999999999999999999999999----------9999-9---999999----9999999999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------------------999-----------999999---999-------------------------------9999999---9999999999999999------------------- [...]
+i rheMac2.chr4 C 0 I 81
+s calJac1.Contig1260 54875 307 - 523245 gaactgaCCAAAAGAA---AATAAAGTGGCTAAAAAGTTGT---AAGGAATCTCCTAAAGCAT--TCAGGTCTTTCATTGT--GGGAGGGAAGGTAAC---------ATTTTTCTATGCTTTTAAATT-C---AGTGTA----ACTATATGAAATGATTTTTTAAAAAATACAA----CCCAAAAAAGAAAAACTCACGTTCCCTTAGTTCCAGATGAGACCGGTGGAGTC--TCTTTCTGTTCGGCAGATGTCACCATCACTTTCTACTCATCACTGCTGTCAGTTAGACCAAGGGTCCATACA------------------------CCT-----------gggcca---ggg-------------------------------agtaaat---atttgaggctttgtgg------------------- [...]
+i calJac1.Contig1260 C 0 I 81
+s tupBel1.scaffold_114895.1-498454 380317 304 - 498454 AAACTGCTGGAAAGAAATTAATAAAGTAGATAAAAAGTTGT---AAGAGATCTCCCCAAATACGATCAGGTCTTTTATTGGAAGGGAGAGCGAATAATAC--------CTTCTC----------AGTT-TTTAAGTTTATTGCATGATATAAAATGATTCTTTCAGAAAAAGAA------AAACAAACAAACAAACAAGTTCACCGAGTCCCAAACTGCATT-----AGTTTCTTTTTCTGGTTGGCACAT-TTATCATCACACTGTGTTCGTCGTGGGTCTTCATTAAGTCAAAGGTTTGCAGA------------------------CTTT-TTTGGTAAAGGGCTG---GGT-------------------------------ATAGGAT---ATTC------------------------------- [...]
+q tupBel1.scaffold_114895.1-498454 99999999999999999099999999999999999998999---99999989999998999999999999999999999989999999989999999999--------999999----------9999-999999999999899999999999989979999997999999999------999899999999999999999979999989999998989999-----989998999999999899987799-99999799799979999999999899989999999999999999999899899------------------------9999-999799999999989---999-------------------------------9999989---7999------------------------------- [...]
+i tupBel1.scaffold_114895.1-498454 C 0 I 5099
+s canFam2.chr1 78248212 368 - 125616256 --------------AGTAAAATAAAATAGATAAAAAGTTGTAAGAAGAAGTGTCCTGAAACATGTTTAGGATTTTTGTGGT--G-GAGGGGAGATAGCATTTTCTCTGCCTTTT----------AATT-C---AGTGTA----GTTATATAAAATGATTCTTTGAAAAATATAaaaagaaaagaaaagaaaaaaacagaTTCACTTAAATCC---------CGGTCTCGTCTATTTTTCCACTTGGCAGGTTT-ATCATCACTTTGTACTCGTCACTGCTGTTAGTTACACCAGGGCTTGgtagagggccagatagtaaatatttgaggccttgt--------gggccgcttggtctctgtcacacactcagttctgtcactgtagcgtgaaggcagcctgaggcagtatgtgcga--------------- [...]
+q canFam2.chr1 --------------9999999999999999999999999999999999999999999999999999999999999999999--9-99999999999999999999999999999----------9999-9---999999----999999999999999999999999999999999999999999999999999999999999999999999---------99999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999--------9999999999999999999999999999999999999999999999999999999999999999999999999--------------- [...]
+i canFam2.chr1 I 50 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 107575 973 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=82059.000000
+s mm9.chr10 3179948 83 + 129993255 CATGGCCCTGCTCCATTGACAGATTCCTC-----AGGAGACAGCCCACACTGGAACTGGCCTTAG------TG-TGTATGTATGA-GCTTCGGTCA
+s rn4.chr1 229997094 75 - 267910886 CATACCTGTGCCCCACTGACAG--------------------GCCCACACCGGAACTGACCTCAGCAAAGCTG-AGCATGAGCAAAGCTGTGATTG
+q rn4.chr1 9999999999999999999999--------------------9999999999999999999999999999999-9999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16079112 88 - 170899992 catggccgtgttccattcagactttgtttgcagaaacaggcagctggca--ggatttggcctggg------tgctgtttttgccaacctgtgCGTG
+i hg18.chr6 I 80 C 0
+s panTro2.chr6 16602572 88 - 173908612 catggccgtgttccattcagactttgtttgcagaaacaggcagctggca--ggatttggcctggg------tgctgtttttgccaaccTGTGCGTG
+q panTro2.chr6 9999999999999999999999999999999999999999999999999--99999999999999------9999999999999999999999999
+i panTro2.chr6 I 81 C 0
+s ponAbe2.chr6 16384605 88 - 174210431 catggccgtgttccattcagactttgtttgcagaaacaggcagctggca--ggatttggcctggg------tgctgtttttgccaaccTGTGAGTG
+i ponAbe2.chr6 I 81 C 0
+s rheMac2.chr4 108486997 88 + 167655696 TATGGCCGTGTTCCATTCAGACTTTGTTTGCAGAAACAGGCAGCCAGCG--GGATTTGGCCTGGG------TGCTGTTTTTGCCAATTTGTGAGTG
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999--99999999999999------9999999999999999999999999
+i rheMac2.chr4 I 81 C 0
+s calJac1.Contig1260 55263 82 - 523245 catggccgtgttccattcagac----tttgcagaaacaggcagctggtg--ggatt--gcctggg------tgctgtttttgccaaccTGTGAGTG
+i calJac1.Contig1260 I 81 C 0
+s canFam2.chr1 78248580 88 - 125616256 tgtggctgtgttcctataaaacttgacttacaaaacccggcagtgggcc--gaatttggcccgtg------atctgaattggctaaccTGAGAGTC
+q canFam2.chr1 9999999999999999999999999999999999999999999999999--99999999999999------9999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 107575 973 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e oryCun1.scaffold_214769 79947 2265 - 139458 I
+
+a score=456864.000000
+s mm9.chr10 3180031 282 + 129993255 ACACCTTTGGTGCTTTTCGGGGAAACTCATCAGAAGTGAGC--A-TTCTCTGAG-CCTCACTTAC-AGGTGAGTG--GGTAGAAGGTGGGGTTGCAGAGAAGTTC--------------CCAACAGGGTATGTAGAGCCATGTT-TGC--ATGGC-TTGG--GTGT-GAGAA--GGATGAGTTTGCTCAGAGGGACTTAATTACATAGGGT-CGTGA--------------AGAA---GAAGAGATTAAGCATAATTTCTGTCGTCTTC-TAGATTCCTGTAGAAACCCAGGCAAGGGCCAAGAA--TAGCTGCGACAGTTGAGAAGGCAAGG
+s rn4.chr1 229997169 263 - 267910886 GCACCATTGGTGCTTTTGGGGGAAAGTCATCAGAAATGAGC--A-TTCTCTCAG-CCTCAGTTACTGGGTGAGTG--GGTAGAAGGTGGGATCGTAGAGAAGT------------------------------AGCACCATGTT-TGC--ATGGCCTTGG--CTGT-GAGAA--GGATGGGTTTGCTCAGAGG-----ACTTCCGGAGGGT-TGTGA--------------AGAGAAGGAGGAGACTGAACACAATACCTGTC---TCC-TAGATTCCTGTAGAAACCCAGGCAAGGGCCGAGTG--TAGCTGTGACAGTTCAGAAGGAATGG
+q rn4.chr1 99999999999999999999999999999999999999999--9-999999999-99999999999999999999--99999999999999999999999999------------------------------99999999999-999--9999999999--9999-99999--9999999999999999999-----9999999999999-99999--------------99999999999999999999999999999999---999-99999999999999999999999999999999999--99999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 82212 303 - 139458 ACACGTTTGCTACTTTT-GGAGAGAATCAGC-GAATCAAGC--A-TTTTCTTCGTCCTCACCAGCAGGATGAGTGTTAGTGGGAGCCGGGACCGTGGGGAAGTTCAGAGGAGGACAAG-CCCTTGGGGCATAGAGGGTCACGCTGCGCTAATGGACTTGGAACTGC-AAGGATGGGGTGAGTTTCTTCAGATGG----AATTAAAAAGGGTGAGTGA--------------GGAGGAAGAAGGGACGGAGTGTGGCAGGCAGC---TTC-TAAACGCTGGGGCAGGCCTGGGCACATGATCAGTACCCGGCGGTG-CAGCTGGGAGGGAGGGG
+q oryCun1.scaffold_214769 99999999999990999-9999999999999-999999999--9-9999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999-999999999999999999999999999----9999999999999999999--------------99999999999999999999999999999999---999-999999999999999999999999999999999999999999999-99999999999999999
+i oryCun1.scaffold_214769 I 2265 I 10907
+s hg18.chr6 16079200 289 - 170899992 ACATTTTTGTTACTTTT-GGAGAAACTCAGC-AGAACAGGT--G-CTTACTGTGTCCTCACCAGTAGGGTGAGTT--ACAGGATGATGGGACTGCAGGGAGGTTTGGAAGAGGACGGGTCCCAAAGGACTTGAGATGCTGTGTTGAGCTAATGGACTGGGATCTGTAAAGGACAGGATGGTTTTGCTCAGATGG----AATGATAgaggatgaatta--------------agaggaagaagggagtgagcatggccaccact---ttc-taggttattgcagaaatccgggcaagacataagtt--cagctgtgacagt-------------
+i hg18.chr6 C 0 I 2773
+s panTro2.chr6 16602660 289 - 173908612 ACATTTTTGTTACTTTT-GGAGAAACTCAGC-AGAACAGGT--G-CTTACTGTGTCCTCACCAGTAGGGTGAGTT--ACAGGATGATGGGACTGCAGGGAGGTTTGGAAGAGGACGGGTCCCAAAGGACTTGAGATGCTGTGTTGAGCTAATGGACTGGGATCTGTAAAGGACAGGATGGTTTTGCTCAGATGG----AATGATAGAGGATGAATTA--------------AGAGGAAGAAGGGAGTGAGCGTGGCCGCCACT---TTC-TAGGTTATTGCAGAAATCCGGGCAAGACATAAGTT--CCGCTGTGACAGT-------------
+q panTro2.chr6 99999999999999999-9999999999999-999999999--9-999999999999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999--------------99999999999999999999999999999999---999-99999999999999999999999999999999999--9999999999999-------------
+i panTro2.chr6 C 0 I 2771
+s ponAbe2.chr6 16384693 291 - 174210431 ACATTTTTGTTACTTTT-GGAGAAACTCAGC-AGAACAGGTGCG-CTTACTGTGTCCTCACCAGTAGGGTGAGTT--ACAGCATGATGGGACTGCAGGGAGGTTTGGAAGAGGATGGGTCCTAAAGGGCTTGAGATGCTGTGTTGAGCTAATGGACTGGCATCCATTAAGGACAGGATGGTTTTGCTCAGATGG----AATGATAGAGGATGAATTA--------------AGAGGAAGAAGAGAGTGAGCATGGCTGCCACT---TTC-TAGGTTACTGCAGAAATCCAGGGAAGACATAAGTT--CAGCTGTGACAGT-------------
+i ponAbe2.chr6 C 0 I 3279
+s rheMac2.chr4 108487085 291 + 167655696 ACATTTTTGTTACTTTT-GGAGAAACTCAGT-GGAACAGGTGCA-CTTACTGTGTCCTCACCAGTAGGGTGAGTT--ATAGCATGATGGGACTGCAGGGAAGTTTGGAAGAGGACGGGTCCCAAAGGGCTTGAGATGCTGTGTTGAGCTAATGGACTGGGATCTGTAAAGGACAGGATGGTTTTGCTCAGATGG----AATGATAGAGAATGAATTA--------------AGAGGAAAAAGGGAGTGAGCATGGCCACCACT---TTC-TAGGTTATTGCAGAAATCCGGGAAAGAGATAAGTT--CAGCCGTGACAGT-------------
+q rheMac2.chr4 99999999999999999-9999999999999-999999999999-999999999999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999--------------99999999999999999999999999999999---999-99999999999999999999999999999999999--9999999999999-------------
+i rheMac2.chr4 C 0 I 2797
+s calJac1.Contig1260 55345 280 - 523245 ACATTTTTGTTACTTTC-TGAGAAACTCAGC-ATAACAGGT--G-CTTACTGTGTCCTCGCCAGTAGGATGAGTT--ACAGGACGGTGGGACTGCAGGGAGGTTTGGAAGAGAATGGGCCCCAAGGGGCTTGAGATGCTGTGTTGAGCTAATGGACTGGGATCTGTAAAGGACAGGATGGTTTTGCTTAGATGG----AATGATAGAGGATGAATTA--------------AGAGGAAGAAGGGACCAAG---------CACT---TTC-TAGGTTATTGTAGAAATCCGAGCAAGAGATAAGTT--CAGCTGTGACAGT-------------
+i calJac1.Contig1260 C 0 I 3209
+s canFam2.chr1 78248668 256 - 125616256 ATACTTTTGTTCCTTTT-GGAGAAA--------------GC--A--TTTCTACATTCTCACCAGAAAAATGAATGTCCCAGAAAAGTGGGAGTGCAGGGAAGTTTGGAAGAGGACAGACCCTCCAGGGCTCA-------------------CGGACTTGGATCTGTAAAGGGTAGGATGGTTTTGCTGGGATGG----AATGGTAGAGGATGAATTA--------------AAAGGAAGAGGGGACTGAGCATGGCAGCCAGT---TTCTTAGATGACTGTAGAAACCTAGGCAAGAG---GGTT--TAGCTGTGACAGT-------------
+q canFam2.chr1 99999999999999999-9999999--------------99--9--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------------9999999999999999999999999999999999999999999----9999999999999999999--------------99999999999999999999999999999999---99999999999999999999999999999999---9999--9999999999999-------------
+i canFam2.chr1 C 0 I 2726
+s felCat3.scaffold_217398 108548 296 - 219823 ---CTTTTGTTCCTTTT-GGAGAAACTCCAC-AAAAGGGGC--ATTTTTCTACATTCTCACCAGAAGGACAAATGTCCTAGGAAAGTGGGAGTCTAGGGAAGTTTGGAAGAGGACACACCCTCCAGGGCTTA----GCCATGAGATGCTCCCGGACTTGGATCTGTGAAGGGTAGGGTGGTTTTGCTTACACGG----AATTTTGGAGGGCGAATTAGGAGGAAGAATTGTGGAGGAAGAGAGGACTGAGCATGGCAGCCCGT---TTC-TAGATTACCGTAGAAACCTAGGCGGGAG---AGTT--TAGCTGCGACAGT-------------
+q felCat3.scaffold_217398 ---99999999999999-9999999999999-999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999999---999-9999999999999999999999999999---9999--9999999999999-------------
+i felCat3.scaffold_217398 I 973 I 2465
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+
+a score=983.000000
+s mm9.chr10 3180313 37 + 129993255 CCGGAAGGAGGTTGAGTTGCCTTTCTCTTCTCT-GTGG
+s rn4.chr1 229997432 38 - 267910886 TGGGGGTGAGGTTGagttaccttctgttcctgtagcag
+q rn4.chr1 99999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e rheMac2.chr4 108487376 2797 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 108844 2465 - 219823 I
+e canFam2.chr1 78248924 2726 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_221253 23739 13424 + 24081 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16079489 2773 - 170899992 I
+e panTro2.chr6 16602949 2771 - 173908612 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=12219.000000
+s mm9.chr10 3180350 130 + 129993255 AATACCCGGGATGATCCGCTTTGGAAGAGGAAAGCATTCTG---GCTTCACAGTTTTGGAGTTGTGCTCCTTTGCTGGCTGGTCTGTTTATTTTAGGCCCTTGGTGTGGCAGTTCATCATGATGGGAGCGCAC
+s rn4.chr1 229997470 123 - 267910886 aatacccgagacaatcagcttcacaagaggaaaactttcag-ttggctctcagttttggggtTTTGTTCCTTTGCTGGTTGCT--------TTTAGGCCCTTGGTGTGGCAGCTCATGGTGGTGGGAGCGTA-
+q rn4.chr1 99999999999999999999999999999999999999999-99999999999999999999999999999999999999999--------99999999999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_171553 4439 133 - 8837 AATATCTGAGATAATCTCTGTATAAAGAGAAAATGGTTATTTTTGGAACACATTACAGAGGTTGCAGACCATGGTTGGTTGGTCAGATATTTTTAGGCCTATGGCAGGGCAGCACATCATGATGGGAGTGCAC
+q cavPor2.scaffold_171553 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_171553 n 13424 n 13424
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e rheMac2.chr4 108487376 2797 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 108844 2465 - 219823 I
+e canFam2.chr1 78248924 2726 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16079489 2773 - 170899992 I
+e panTro2.chr6 16602949 2771 - 173908612 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=103295.000000
+s mm9.chr10 3180480 1978 + 129993255 GATtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtTGGGGTTGATGAGGCCATCCATATACACGTTGTGACAGCTGGAAGAAGTCTAATATTTCCTTCTTGGGTGTGTCCTGAGTGACCTACCTTCCTCCTCCTGGGTTGCACTCCTAACGTGTAGGCTAGGGACAAAGACTTTTAGATAGAGAACTTTGAGGAACTCTCTCCC------------------AGGCCGTGTGAATGATGAGGGATGGCTAGCAGGTACAGT---ATGCAGAGATGGGCCCTGGAGAGTGGGGAACTGGGACTGAGAGCAGCAGGGAAGATGGTTTTAAGAATCCAGCCTAGAGTACTTTG-----------GTAATTAACCCAAACAGGAAGATA------------------GAGGCAGCCTGTGTGTGTGTgtgg [...]
+s rn4.chr1 229997593 1980 - 267910886 -------------------------------------TTGGTGTTGATAAGACTGT----GTACACATCTCGACATCTAGAAGGAGCCCAGTATTTCCTTCATGGGTAAGTCCTGAGTGACTTACCTTCCTCCCC--AAGTCACACTCCTAAAGTGTGGG-TAGGGACCGAGACTT------AGAGGCCTTTGGGGAGctctctctctttctctctctctctctAGGGCCGTGTGAATGATGAGGGATGCCTAGCAGGTACAGGTGACTGCAGCGATGGAC---AGAGAGTGGGGACCTGGGATTAAGACCAGCAGGGAAGATGGTTTTAAGAATTGAGCCTAGCGTACTTTGTCAATGTCAAGGTCATTAACCCGAACAGGAAGATAAAGTGGCAGTGGGGGCCAGGGGGAGCTAgtgtgtgtgtgtgt [...]
+q rn4.chr1 -------------------------------------9999999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999-999999999999999------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 I 67
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e rheMac2.chr4 108487376 2797 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 108844 2465 - 219823 I
+e canFam2.chr1 78248924 2726 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16079489 2773 - 170899992 I
+e panTro2.chr6 16602949 2771 - 173908612 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3182458 21 + 129993255 TTTGTTTGTTTGTTTGTTTTT
+e rn4.chr1 229999573 67 - 267910886 I
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e rheMac2.chr4 108487376 2797 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 108844 2465 - 219823 I
+e canFam2.chr1 78248924 2726 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16079489 2773 - 170899992 I
+e panTro2.chr6 16602949 2771 - 173908612 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=9941.000000
+s mm9.chr10 3182479 179 + 129993255 GTGACTAGCTTTAATGCGTGACTTTAGCCAACAGATGGCTGGGGATGGGGCCTAGATGTAGCCTTTTATCTCTTCAGAGGCACCTGCAGTCGCCCCTTCTAAAACAGGCAAGCAGTCCTTCTTCTGTGAGT-CAAGACTTCTCAAGAATAATTAGCCAGTTATTCTTTC----------------------------GACCTCTGGGC
+s rn4.chr1 229999640 208 - 267910886 GTGATTAGCTTTCATGTGTGACTTCAGCCAGCAGAAGGCTGGGGATGGGGCCTAGATGTAGCCTTTCATCTCTTCAAAGACGTCTATAGGCCCCCCTTGAGAAACGAGTGCGCAGCCCACCCTCTGTGAGGACTGGACTTCTCAAGAGTAACTAGCCACTTATTCTTGCTACCTACAAGAGTCCCAAAGTTGAGGACAACCTCTGGGC
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 I 67 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13036617 4824 + 24938454 I
+e rheMac2.chr4 108487376 2797 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e felCat3.scaffold_217398 108844 2465 - 219823 I
+e canFam2.chr1 78248924 2726 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e otoGar1.scaffold_963.1-44695 7550 0 - 44695 I
+e hg18.chr6 16079489 2773 - 170899992 I
+e panTro2.chr6 16602949 2771 - 173908612 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=4600.000000
+s mm9.chr10 3182658 32 + 129993255 ATGTAGGCTGTTAAGATGTTCCTCCC---CACCAG
+s rn4.chr1 229999848 35 - 267910886 ATGCAGGCTGTTAAGCTGTTCCTCCCTGTCCCTGA
+q rn4.chr1 99999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 272 26 - 5280 ACATGGGCTGTTGAGATTTTCTCTCT---------
+q otoGar1.scaffold_85253.1-5280 99999999998999998999999999---------
+i otoGar1.scaffold_85253.1-5280 n 0 C 0
+s felCat3.scaffold_217398 111309 23 - 219823 ATGTGGGCTGTTGAGATCCCATC------------
+q felCat3.scaffold_217398 99999999999999999999999------------
+i felCat3.scaffold_217398 I 2465 C 0
+s equCab1.chr31 13041441 25 + 24938454 ACATGGGTTGTTGAGACTTTGTTTT----------
+q equCab1.chr31 9999999999999999999999999----------
+i equCab1.chr31 I 4824 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e rheMac2.chr4 108487376 2797 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e canFam2.chr1 78248924 2726 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e hg18.chr6 16079489 2773 - 170899992 I
+e panTro2.chr6 16602949 2771 - 173908612 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=87907.000000
+s mm9.chr10 3182690 71 + 129993255 GCCCCCAGTTAACTTTGTCTT--AGAGGGGACCATCT--AAGTGTTTGACAGTGTCTGTGTCTTGGCAACGACTT
+s equCab1.chr31 13041466 71 + 24938454 ATCTCCAATTTACTCTGTTCC--AGAGGGGACTACCT--AAGCATTAGGGAATTTCTGTCTCTCTCTAGCAACTT
+q equCab1.chr31 999999999999999999999--99999999999999--999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 6
+s felCat3.scaffold_217398 111332 69 - 219823 ---TCCAATTTACAGTGTTCCCGAGGGGGTGCTACCT--ACGCCTTTGGG-GTTTCTCTGTCTCTCTGGCAACTT
+q felCat3.scaffold_217398 ---9999999999999999999999999999999999--99999999999-999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 6
+s canFam2.chr1 78251650 74 - 125616256 GTCTCTAGTTTACTGTGTTCCC-AGGAGTGGCTGCCTAAAAGCATTTGGGAGTTTCTGTGTCTCCCTAGCAACTT
+q canFam2.chr1 9999999999999999999999-9999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 2726 I 6
+s rn4.chr1 229999883 68 - 267910886 ACCCCCAATGAACTTTGTCCT--AGAGGGAACCATCT--AAGGGTT-AACAATGTCTGT--CTTGGCAACAACTT
+q rn4.chr1 999999999999999999999--99999999999999--9999999-999999999999--99999999999999
+i rn4.chr1 C 0 C 0
+s dasNov1.scaffold_13068 4361 66 + 27231 ----CCAATTTACTCTGTTCC--AGAGGGA-CCCCCT--AGATGTTTGGGGATTTCTGTGTCTCTCCAGCAACTT
+q dasNov1.scaffold_13068 ----99999999999999999--9999999-999999--999999999999999999999999999999999999
+i dasNov1.scaffold_13068 N 0 C 0
+s rheMac2.chr4 108490173 44 + 167655696 -----------------------------GGCCACCT--AAGCATTTGGGAGTTTCTGTGTCTCTTTAGCAACTT
+q rheMac2.chr4 -----------------------------99999999--999999999999999999999999999999999999
+i rheMac2.chr4 I 2797 I 486
+s hg18.chr6 16082262 42 - 170899992 -------------------------------CCATCT--AAGCATTTGGGAGTTTCTGTGTCTCTTTAGCAACTT
+i hg18.chr6 I 2773 I 475
+s panTro2.chr6 16605720 42 - 173908612 -------------------------------CCACCT--AAGCATTTGGGAGTTTCTGTGTCTCTTTAGCAACTT
+q panTro2.chr6 -------------------------------999999--999999999999999999999999999999999999
+i panTro2.chr6 I 2771 I 475
+s otoGar1.scaffold_85253.1-5280 298 65 - 5280 ------GATTAACTCTGTTCC--AGAGGGGGCCACCT--AAACATTTGGGAGTCTCTGTGACTCTTTAGCAACTT
+q otoGar1.scaffold_85253.1-5280 ------999999999999999--89999998899999--999999999999999999999999999999999999
+i otoGar1.scaffold_85253.1-5280 C 0 I 6
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 55625 3209 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e ponAbe2.chr6 16384984 3279 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=64939.000000
+s mm9.chr10 3182761 29 + 129993255 ------CACACAC------TTAGAAAGTTGAAGACT--CAAAT
+s rn4.chr1 229999951 35 - 267910886 ------CACACACACACACTTAGAAAGTTGAAGACT--CAAAT
+q rn4.chr1 ------999999999999999999999999999999--99999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16606237 26 - 173908612 ---------ACAT------TTAGAAAATTGAGGACC--TGAAT
+q panTro2.chr6 ---------9999------99999999999999999--99999
+i panTro2.chr6 I 475 C 0
+s hg18.chr6 16082779 26 - 170899992 ---------ACAT------TTAGAAAATTGAGGACC--TGAAT
+i hg18.chr6 I 475 C 0
+s rheMac2.chr4 108490703 26 + 167655696 ---------ACAT------TTAGAAAACTGAGGACC--TGAAT
+q rheMac2.chr4 ---------9999------99999999999999999--99999
+i rheMac2.chr4 I 486 C 0
+s ponAbe2.chr6 16388263 29 - 174210431 ------TAAACAT------TTAGAAAATTGAGGACC--TGAAT
+i ponAbe2.chr6 I 3279 C 0
+s calJac1.Contig1260 58834 24 - 523245 -----------AT------TTAGAAAACTGAGGACC--TGAAT
+i calJac1.Contig1260 I 3209 C 0
+s otoGar1.scaffold_85253.1-5280 369 29 - 5280 ------CGAACAC------TTGGAAAGTCGAGGACC--TAAGT
+q otoGar1.scaffold_85253.1-5280 ------9999999------99999999999999649--99999
+i otoGar1.scaffold_85253.1-5280 I 6 I 434
+s canFam2.chr1 78251730 29 - 125616256 ------TGAACAC------TTAGCAAATTGAGGAGC--TGAAT
+q canFam2.chr1 ------9999999------99999999999999999--99999
+i canFam2.chr1 I 6 C 0
+s felCat3.scaffold_217398 111407 29 - 219823 ------TGAACAC------TTAGGAAAGTGAGGACC--TGAAT
+q felCat3.scaffold_217398 ------9999999------99999999999999999--99999
+i felCat3.scaffold_217398 I 6 C 0
+s equCab1.chr31 13041543 15 + 24938454 ------AGAACAT------TTAGGAaa----------------
+q equCab1.chr31 ------9999999------99999999----------------
+i equCab1.chr31 I 6 C 0
+s dasNov1.scaffold_13068 4427 37 + 27231 TTCCTCTTAACAC------TTAGAAAACTGAGGGCTAGTGACT
+q dasNov1.scaffold_13068 9999999999999------999999999999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=245318.000000
+s mm9.chr10 3182790 105 + 129993255 AAATCA----------TTTTTTTCAATTTAACAACA-------TTTAC------AGAGTATCC---------ATTATGTGTTTCAGTACGTGTTAAGCTC-TTTAT-AATACTGGCATCTAGTTTTCGTTATAAT--TATG
+s rn4.chr1 229999986 115 - 267910886 AAATCAAATCATGTGCTGTTTTTTTATTTCATAAAA-------TTTGC------AGAGTATCC---------GTTACGTGTTTTGTTCTGTGTTAAGCTC-TTTAT-ATCACTGACGTCTAGTTTTCATTATAAT--TATT
+q rn4.chr1 999999999999999999999999999999999999-------99999------999999999---------9999999999999999999999999999-99999-9999999999999999999999999999--9999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16606263 108 - 173908612 AAATCA----------CATTTTAAAATTtaactaaa-------tttac------cgagtattt---------actatgtgttccatggtgttttaagttc-tttataaacattaacattaaattttcattacagttctatg
+q panTro2.chr6 999999----------99999999999999999999-------99999------999999999---------9999999999999999999999999999-9999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16082805 108 - 170899992 AAATCA----------CATTTTAAAATTtaactaaa-------tttac------agagtattt---------actgtgtgttccatggtgttttaagttc-tttataaacattaacattaaattttcattacagttctatg
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108490729 108 + 167655696 AAATCA----------CATTTTAAAATTTAACCAAA-------TTTAC------AGAGTATTT---------ACTATGTGTTCTATGGTGTTTTAAGCTC-TTTATAAACATTAACATTAAATTTTCATTACAGTTCTCTG
+q rheMac2.chr4 999999----------99999999999999999999-------99999------999999999---------9999999999999999999999999999-9999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16388292 106 - 174210431 --ATCA----------CATTTTAAAATTtaactaaa-------tttac------agagtattt---------actatgtgttccatggtgttttaagttc-tttataaacattaacattaaattttcattacagttctatg
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 58858 108 - 523245 AAATCA----------CGTTTTAAAATTtaactgaa-------tttac------acagtattt---------actatgtgcttcatggtgttttaagctc-tttataaacattaacattaaattttcattacagttctatg
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78251759 109 - 125616256 AAATCA----------CATTTTTGTATTTAAcagta-------tttgc------agagtattt---------actatgtgcttcattgtattttaagcccattccagataacgaccctttccgtttcattatgaatctgtg
+q canFam2.chr1 999999----------99999999999999999999-------99999------999999999---------999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 111436 109 - 219823 AAATCA----------CATCTTTGTATTTAAcaata-------tttat------agagtattt---------atggtgtgcttcatggtgttctaagcccatttataaatattaacatttcattttcattgcagatccatg
+q felCat3.scaffold_217398 999999----------99999999999999999999-------99999------999999999---------999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13041558 87 + 24938454 ---------------------------ttaacaaaa-------tatat------agagtatt-------------atgggcttcatagtgttctaagccc-tttataaatatcaacagttaattttcattactgatttatg
+q equCab1.chr31 ---------------------------999999999-------99999------99999999-------------0999999999999999999999999-9999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s dasNov1.scaffold_13068 4464 126 + 27231 AAACCA----------CCTTTTTTCATTTAGCAAAAATATATTTTTATTTAACAAAAGTATTTAGCAAAATGactatgtgcttgacactattctgagctc-tttgtaaatactaac--ttgcttttcatttcagtcctg--
+q dasNov1.scaffold_13068 999999----------999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999--999999999799997999999--
+i dasNov1.scaffold_13068 C 0 I 813
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e otoGar1.scaffold_85253.1-5280 398 434 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=58382.000000
+s mm9.chr10 3182895 34 + 129993255 CTCCAAGGAGTG----TCAGT-----------------------GCAGAGCCACTCACCTC
+s rn4.chr1 230000101 34 - 267910886 TTCCGGGGAGTG----TTAGT-----------------------ACTGAGCCTCTTACCTT
+q rn4.chr1 999999999999----99999-----------------------99999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16606371 57 - 173908612 tagtgggtagta----ttagtattctcattttacaaatgagacagctgagtaacttgcccc
+q panTro2.chr6 999999999999----999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16082913 57 - 170899992 tagtgggtagta----ttagtattctcattttacaaatgagacagctgagtaacttgctcc
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108490837 57 + 167655696 TAGTGGGTAGTA----TTAGTATTCTCATTTTACAAATGAGACAGCCGAGTAACTTGCCCC
+q rheMac2.chr4 999999999999----999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16388398 57 - 174210431 tagtggatagta----ttagtattctcgttttacaaatgagacagctgagtaacttgcccc
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 58966 57 - 523245 tagtgggtagta----ttagtattctcattttacgaatgagacagctgagtaacttgcccc
+i calJac1.Contig1260 C 0 I 208
+s canFam2.chr1 78251868 57 - 125616256 cagtaggtagtg----ttgttatccgtggtttccaaatcggagaactaaggaacTTTCTCC
+q canFam2.chr1 999999999999----999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 20
+s felCat3.scaffold_217398 111545 56 - 219823 cagtaggcagtgctttcttttatccctgtttt-----gcgggggactgagTAACTTGCTCC
+q felCat3.scaffold_217398 99999999999999999999999999999999-----999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 19
+s equCab1.chr31 13041645 18 + 24938454 tagtagagaata----ttattg---------------------------------------
+q equCab1.chr31 999999999999----999999---------------------------------------
+i equCab1.chr31 C 0 I 212
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_13068 4590 813 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e otoGar1.scaffold_85253.1-5280 398 434 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-42688.000000
+s mm9.chr10 3182929 41 + 129993255 TCTGGAGA----CAAG------------------------------------------------------------CCAGGATGAG-GGAG-CTG----G-A-----TCCGACCGC-T
+s rn4.chr1 230000135 42 - 267910886 TCTGGAGA----CAAG------------------------------------------------------------TCAGGATGAAAGGAG-CTA----G-A-----TCAGACTGC-T
+q rn4.chr1 99999999----9999------------------------------------------------------------999999999999999-999----9-9-----999999999-9
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16606428 43 - 173908612 -----aggttacccgg------------------------------------------------------------tcagtaagaagggagactg----gta-----ttggaTTGTG-
+q panTro2.chr6 -----99999999999------------------------------------------------------------9999999999999999999----999-----9999999999-
+i panTro2.chr6 C 0 I 110
+s hg18.chr6 16082970 43 - 170899992 -----aggttacccgg------------------------------------------------------------tcagtaagaagggagactg----gta-----ttggattgcg-
+i hg18.chr6 C 0 I 142
+s rheMac2.chr4 108490894 43 + 167655696 -----AGGTTATCCAG------------------------------------------------------------TCAGTGAGAAGGGAGACTG----TTA-----TTGGATTGTG-
+q rheMac2.chr4 -----99999999999------------------------------------------------------------9999999999999999999----999-----9999999999-
+i rheMac2.chr4 C 0 I 126
+s ponAbe2.chr6 16388455 43 - 174210431 -----aggttacccag------------------------------------------------------------tcagtaagaagggagactg----gta-----ttggattgca-
+i ponAbe2.chr6 C 0 I 144
+s equCab1.chr31 13041875 40 + 24938454 TTTAGTGACAGTCGAG-----------------------------------------------------------------------GAAGCCTGGGCTGTC-----TCTTACTGT--
+q equCab1.chr31 9999999999999999-----------------------------------------------------------------------999999999999999-----999999999--
+i equCab1.chr31 I 212 C 0
+s felCat3.scaffold_217398 111620 117 - 219823 CGTATTGGTGCTCAGGCTCTTAACCATGGCCCCGTCTCGGTCTACATCTAGGGCGAGAGGTTTCTTTTTTTCCTTTTCATGTGTGGGATTTCTTTGAACGTTTGAGTGTTTACTGCC-
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-
+i felCat3.scaffold_217398 I 19 C 0
+s canFam2.chr1 78251945 49 - 125616256 AGTACTGATACTCAGG-----------------------------------------------------------CTCATAACT---ACTGCCTT----GTCTCA--TTCTACCACT-
+q canFam2.chr1 9999999999999999-----------------------------------------------------------999999999---99999999----999999--9999999999-
+i canFam2.chr1 I 20 C 0
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_13068 4590 813 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 59023 208 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e cavPor2.scaffold_171553 4572 13424 - 8837 I
+e otoGar1.scaffold_85253.1-5280 398 434 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-33648.000000
+s mm9.chr10 3182970 7 + 129993255 -------------------------------------------------------------------------------------------------GGCCGGC
+s rn4.chr1 230000177 7 - 267910886 -------------------------------------------------------------------------------------------------GGCCTGC
+q rn4.chr1 -------------------------------------------------------------------------------------------------9999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 77836 7 - 169015 -------------------------------------------------------------------------------------------------GGCCTGT
+q cavPor2.scaffold_284118 -------------------------------------------------------------------------------------------------9999999
+i cavPor2.scaffold_284118 I 13424 C 0
+s ponAbe2.chr6 16388642 7 - 174210431 -------------------------------------------------------------------------------------------------GGTCTGG
+i ponAbe2.chr6 I 144 C 0
+s rheMac2.chr4 108491063 7 + 167655696 -------------------------------------------------------------------------------------------------GGCCTGG
+q rheMac2.chr4 -------------------------------------------------------------------------------------------------9999999
+i rheMac2.chr4 I 126 C 0
+s panTro2.chr6 16606581 7 - 173908612 -------------------------------------------------------------------------------------------------GGTCTGG
+q panTro2.chr6 -------------------------------------------------------------------------------------------------9999999
+i panTro2.chr6 I 110 C 0
+s hg18.chr6 16083155 7 - 170899992 -------------------------------------------------------------------------------------------------GGTCTGG
+i hg18.chr6 I 142 C 0
+s otoGar1.scaffold_85253.1-5280 832 7 - 5280 -------------------------------------------------------------------------------------------------GGCATGT
+q otoGar1.scaffold_85253.1-5280 -------------------------------------------------------------------------------------------------9999999
+i otoGar1.scaffold_85253.1-5280 I 434 C 0
+s equCab1.chr31 13041915 3 + 24938454 -------------------------------------------------------------------------------------------------GGC----
+q equCab1.chr31 -------------------------------------------------------------------------------------------------999----
+i equCab1.chr31 C 0 I 18
+s felCat3.scaffold_217398 111737 30 - 219823 AGAC----------------------------------------------------------------------CTGGTGACAGCAGAGGGACGCTGGGC----
+q felCat3.scaffold_217398 9999----------------------------------------------------------------------99999999999999999999999999----
+i felCat3.scaffold_217398 C 0 I 3
+s canFam2.chr1 78251994 100 - 125616256 GGGGTGAGCGGTTTCTTTCTTTCCTTTTCCCATTTGGGATTTCTTTGAAACTTCAAGAGTATTCACTGCCAGATCTGGGGACAGTGGAGGAAGTCTGGGC----
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----
+i canFam2.chr1 C 0 I 33
+e bosTau3.chr9 13711700 3675 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_13068 4590 813 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 59023 208 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-19639.000000
+s mm9.chr10 3182977 20 + 129993255 C--------------------------------TCTGCCCTGTCCCCGCCTC
+s canFam2.chr1 78252127 20 - 125616256 --------------------------------CCCTTTCCTTTTCCTTCCTG
+q canFam2.chr1 --------------------------------99999999999999999999
+i canFam2.chr1 I 33 C 0
+s felCat3.scaffold_217398 111770 14 - 219823 --------------------------------------TCTTCTCCTTCTTG
+q felCat3.scaffold_217398 --------------------------------------99999999999999
+i felCat3.scaffold_217398 I 3 C 0
+s equCab1.chr31 13041936 20 + 24938454 --------------------------------CCTTCTCCTTTTCCTTCATG
+q equCab1.chr31 --------------------------------99999999999999999999
+i equCab1.chr31 I 18 C 0
+s bosTau3.chr9 13715375 20 - 95030419 --------------------------------CCCTATCCTTTTCCTTCGTG
+q bosTau3.chr9 --------------------------------99999999999999999999
+i bosTau3.chr9 I 3675 C 0
+s otoGar1.scaffold_85253.1-5280 839 23 - 5280 G-----------------------------GCGCCCACTCTGTGAGATCCTC
+q otoGar1.scaffold_85253.1-5280 9-----------------------------8899999999999999989999
+i otoGar1.scaffold_85253.1-5280 C 0 I 4
+s hg18.chr6 16083162 16 - 170899992 G------------------------------------CCCTGTGGCTCCCTT
+i hg18.chr6 C 0 I 20
+s panTro2.chr6 16606588 16 - 173908612 G------------------------------------CCCTGTGGCTCCCTT
+q panTro2.chr6 9------------------------------------999999999999999
+i panTro2.chr6 C 0 I 20
+s rheMac2.chr4 108491070 15 + 167655696 G------------------------------------ACCTGTGGCTCCC-T
+q rheMac2.chr4 9------------------------------------9999999999999-9
+i rheMac2.chr4 C 0 I 20
+s ponAbe2.chr6 16388649 16 - 174210431 G------------------------------------CCCTGCAGCCCCCTT
+i ponAbe2.chr6 C 0 I 20
+s cavPor2.scaffold_284118 77843 23 - 169015 G-----------------------------GCCCCCATTCTGTGGGTGCCCC
+q cavPor2.scaffold_284118 9-----------------------------8799999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230000184 52 - 267910886 CCCCACCACGCCCTCGACACACCCTGTCCCGTCTCTGCCCCGCCCCTGCCCC
+q rn4.chr1 9999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e dasNov1.scaffold_13068 4590 813 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e calJac1.Contig1260 59023 208 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=849304.000000
+s mm9.chr10 3182997 201 + 129993255 AC--TTT-CTTCACGTTCCCTTGTG-----TGTTTAATTGGATT-----TGGGCAAATGGCACGTATTTAACTGAATTTTACTTAA-----------TCATACATCTCTTCTAAGTTCCTCAAA-----------GACAGGATTGACAGTAGG---------TACGCTTGTGAGCAGAGCAG------AATGGCTTGCAGCGGGCCTCAAAGCTGTTGGATCGGTTTACTCCTGCCTGAG-----CCCCTGCTACC
+s rn4.chr1 230000236 204 - 267910886 AC--TTT-CTTCAGGTTTCATTGTG-----TGTTTAATTGGATT-----TGGGCAAATGACATACTTTTAACTGAATTTTACTTAA-----------TCATACATCTCTTATAAATTCCTCAAA-----------GACTGGATTGACAGTAGG---------TACACTTGTGAGCAGAGCAGCAG---AATGGCTTGCAGCAGGCCCCAAAGCTGTTAGAGTGGTTTACTCATGTCTGAG-----CCCCCTCTACT
+q rn4.chr1 99--999-99999999999999999-----99999999999999-----9999999999999999999999999999999999999-----------999999999999999999999999999-----------999999999999999999---------99999999999999999999999---9999999999999999999999999999999999999999999999999999-----99999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 77866 203 - 169015 TCCATTC-CTTTGCATTTTATTGtg------------tttaatt-----tatataaatagaatGGGTTTCACTTAATTGTATATTT-----------TCTTAGTCCTGCTAGACTTTCTATAAG-----------AA---GCTGGCAAATAAG---------TACACTTGttaaataagcaaaagaaaaatggtttaCTGCAGATTCTAAAATTGTTGG-TCATTTTACACAAGGCTGGGGATTTCCCCCTCCATT
+q cavPor2.scaffold_284118 9999999-99999999999999999------------9999999-----9999999999999999999999999999999999999-----------999999999999999999999999999-----------99---9999999999999---------999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16083198 227 - 170899992 --TTTTC-CTTCACATTTAATTATG-----TG-----TTTAATT-----TGTATAAATGGAATGTGTTTAATCTAATTTTACTGAATTGTGTGTTTCTCTTGGTCCTGCTAGACTTTCTGTAAATTGCTTGAAGCAAGAAACTGGCAGATAGA---------TCCATCTGACAAATAAGTAAAAGAA-TATGGTTTATTGCAAATTCTAAGACTGTTAGATCAGTTTACTAGAAATTGAGGCTT-TTCCCTCCTTT
+i hg18.chr6 I 20 C 0
+s panTro2.chr6 16606624 227 - 173908612 --TTTTC-CTTCACATTTAATTACG-----TG-----TTTAATT-----TGTATAAATGGAATGTGTTTAATCTAATTTTACTGAATTGTGTGTTTCTCTTGGTCCTGCTAGACTTTCTGTAAATTGCTTGAAGCAAGAAACTGGCAGATAGA---------TCCATCTGACAAATAAGTAAAAGAA-TATGGTTTATTGCAAATTCTAAGACTATTAGATCAGTTTACTAGAAATTGAGGCTT-TTCCCTCCTTT
+q panTro2.chr6 --99999-99999999999999999-----99-----9999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-99999999999999999999999999999999999999999999999999999999-99999999999
+i panTro2.chr6 I 20 C 0
+s rheMac2.chr4 108491105 227 + 167655696 --TTTTC-CTTCACATTTAATTGCG-----TG-----TTTAATT-----TGTATAAATGGAATGTGTTTAATCTAATTTTACTGAATTATGTGTTTCTCTTGGTCCTGCTAGACTTTCTGTAAATTGCTTGAAGCAAGAAACTGGCAGATAGA---------TCCATCTGACAAATAAGTAAAAGAG-TATGGTTTATTGCAAATTCTAAGACTATTAGATCAGTTTACTAGAAATTGAGGCTT-TTCCCTCCTTT
+q rheMac2.chr4 --99999-99999999999999999-----99-----9999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-99999999999999999999999999999999999999999999999999999999-99999999999
+i rheMac2.chr4 I 20 C 0
+s ponAbe2.chr6 16388685 227 - 174210431 --TTTTC-CTTCACATTTAATTACG-----TG-----TTTAATT-----TGTATAAATGGAATGTGTTTAATCTAATGTTACTGAATTATGTGTTTCTCTTGGTCCTGCTAGACTTTCTGTAAATTGCTTGAAGCAAGAAACTGGCAGATAGA---------TCCATCTGACAAATAAGTAAAAGAA-TATGGTTTATTGCAAATTCTAAGACTATTAGATCAGTTTACTAGAAATTGAGGCTT-TTCCCTCCTTT
+i ponAbe2.chr6 I 20 C 0
+s calJac1.Contig1260 59231 227 - 523245 --TTTTC-CTTTGCATTTAATTATG-----TG-----TTTAATT-----TGTGTAAATGGAATGTGTTTAATCTAATTTTACTGAATTATGTGTTTCTCTTGGTCCTGCTAGACTTTCTGTAAATTGCTTGAAGCAAGAAACTGACAGATAGA---------TCCATTTGACAAACAAGTAAAAGAG-TACGGTTTATTGCAAATTCTAAGACTATTAGATCAGTTTACTAGAAATGGAGGCTT-TCCCCTCCTTT
+i calJac1.Contig1260 I 208 C 0
+s otoGar1.scaffold_85253.1-5280 866 225 - 5280 ----TTC-TTTCACATTTCATTATGCATTCTG-----TTTAAGC-----TGTGTAAGTGGAATGTGTT-----TAATTTTACTTAATTATGTGTTTCTCTTGGTCCTGCTAGACAGTCTGTAAATTCCTTGAAGCAAGAAACTGGAAAATAGA---------TACGTTGGACAAATAAGTAATAGAG-TATGGTTTGTTGCAAATTCTAAAGCTATTAGATCTGTTCACTCAGAATGGAGGGTC-CCCCCTCCTCT
+q otoGar1.scaffold_85253.1-5280 ----999-999999999999999999999999-----9999999-----9999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-99999999999999999999999999999999999999999999999999999979-99999999999
+i otoGar1.scaffold_85253.1-5280 I 4 C 0
+s bosTau3.chr9 13715395 225 - 95030419 --GTT-CTTTTCACATTGAATTGTG-----TG-----TTTAATTTAATTTGTATAAATGGAATGTCTTTAATCTAATTTTGTGTAATTATGTCTTTCTCTCAGCTCTGCTAGACTTTCTGTAAGTTCCTTGAAGCAAAGAACTGGTAAATAGA---------TACATTTGACAAATAAGTTAAAGTG-CAAGGTGTATTACAAATTCTAAA--------ACCGGTTCATTTTAAATTGGGGATTTTCCCCTCCTTT
+q bosTau3.chr9 --999-9999999999999999999-----99-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-99999999999999999999999--------9999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13041956 195 + 24938454 --ATT-CTTTTCACATTGAATTATG-----TG-----TTTAATC-----------------------------TAATTTTATTTAATTATGTGTTTTTCTTGGT-CTGCTAGACTTTCTTTAAGTTTCTTGAAGCAAGAAACTAGCAAGTAGG---------TACATTTGACAAATAAGTTAAAGTG-TATGGTTTATTGCAAATTCTGAA--------ACCAGTTTACTTGAAATTGGGGATTTTCTCCTCCTTT
+q equCab1.chr31 --999-9999999999999999999-----99-----9999999-----------------------------9999999999999999999999909999999-999999999999999999999999999999999999999999999999---------9999999999999999999999999-99999999999999999999999--------9999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 111784 221 - 219823 --GTT-C-TTCCACATCGAGTTATG-----TG-----CTTAATT-----TGTGTAACTGGAATGTGTTTGATCTAATTTTATTTAATTACGTGTTTGTTTCGGTGCTGCTAGACATTCTGTAAGTTCCTCGAAGCAAGGAACTGGCAAACAGG---------TACGTGCGACAAATAGATTAAAGTG-GATC-----TTGCAAATTGTAAAACGATTAGACCAGTTTACTTG-AGTTGGGGATTTTCCCCTCCTCT
+q felCat3.scaffold_217398 --999-9-99999999999999999-----99-----9999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-9999-----99999999999999999999999999999999999-99999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78252147 217 - 125616256 --ATT-A-TTGCACATTGCATTATG-----TG-----TTTAATT-----TGTGTAAATGGAATGTGTT-----TAATTTTATTTAATGATGTGTTTCTCTCGGTTCTGCTAGACGTTCTGTAAGTTCCTAGAAGCAAGGATCTGGCAAATAGG---------TACATGTGACAAAGAGGTCAAAGTG-TGTG-----TTTCAAATTCTAAAATGATTAGACCAATTTCCTTGAAATTAGGGATTTTCTCCTCCTTT
+q canFam2.chr1 --999-9-99999999999999999-----99-----9999999-----9999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-9999-----99999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_363624 8475 217 - 23811 -----TC-TTTCACATTGAATTATG-----TG-----TTTAATCTAATTTGTGTAACTGGAATGTGTTTaatctaattttatttaattatgcatttctctcagtcctgctAGACTTTCTGTAAATTCCTTGAGGCAAGGAACTGGCACGTAGC---------TACATTTGACAAATAAGTAAAAGTG-TATGCTTCATTGTAAATTCTAAA--------ACCA-----CTCGATATTGGGAAATTCCCCCTCCATt
+q eriEur1.scaffold_363624 -----99-99999999999999999-----99-----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9999999999999999999999999-99999999999999999999999--------9999-----9999999999999999999999999999
+i eriEur1.scaffold_363624 N 0 C 0
+s dasNov1.scaffold_13068 5403 236 + 27231 --TGTCT-TTTCATGTTTAACTGTG-----TA-----TTTAATTTGATTTGTGCGAATGAAATGCCCATCTTTTAATT-----GAATTATGGGCTTCTCTCAGACCTGCTGGACATTCTTTTAGCTCTTTGCAATAAGGACCTGGCAAGTAGAAAGTGCTGGTGAATTTGACAAATAAGTAAAGGAG-TGTGGCTTACTGGAAATTCTAAAATTTTTAGCCCAATTTGCTGGAAACTGAGGATTTTTCCCTCTTC-
+q dasNov1.scaffold_13068 --99999-99994999999999999-----99-----99999999999999999999999999999999999999999-----99999999999999999998999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999-
+i dasNov1.scaffold_13068 I 813 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_5540 13051 0 - 125576 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_23642 1172 0 + 1353 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=924021.000000
+s mm9.chr10 3183198 137 + 129993255 GTGGGACTGTGAGCTAATTT----AA-TTAGATGTTTGCGAATGCCTAATTGTATTTGAAACAATAGGGTAAATGAACAGTAGGCCGAGGCGAGGCGTGC---TGGGATAATACAGCTCT--GTGGCCATGCTGTTTAAGAGACAG-C
+s rn4.chr1 230000440 133 - 267910886 GTGGGGCTGCGTAATAGTTT----AAATTAGCTGTTTGTGAATGCCTAATTGTATTCTAAACAATAGGATCAATGAACAACAGGCCACAGTG-----CAC---TGGGATAATACAGCTCT--GTGGCAGTGCTGTTTAAGAGACAG-C
+q rn4.chr1 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---99999999999999999--999999999999999999999999-9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 78069 135 - 169015 TTGGAACTGTGTAATAGTTT----AAATTAGCCTCTTAGAAATGCCTAATTGTATTCTAAACAATATGATCACTGAACAATAGGTCATAATG-----TGT---TGGAATAATAAAACTCT-GGGGGCAGTACTATTTAAAACCTAGAA
+q cavPor2.scaffold_284118 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---99999999999999999-999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16083425 136 - 170899992 GTGGGACTGCGTAATAGTTT----AATTTAGCTGTTTATAAATGTTTAATTGTATTCTAAACAATAGGACTGCCGAACAATAGGTCATAATG-----TAT---TGGAATAATAAAACTCTGGGGGGTGACACTATTTAAAACCTAGCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16606851 136 - 173908612 GTGGGACTGCGTAATAGTTT----AATTTAGCTGTTTATAAATGTTTAATTGTATTCTAAACAATAGGACTGCCAAACAATAGGTCATAATG-----TAT---TGGAATAATAAAACTCTGGGGGGCGACACTATTTAAAACCTAGCA
+q panTro2.chr6 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108491332 136 + 167655696 GTGGGACTGCGTAATAGTTT----AATTTAGCTGTTTATAAATGTTTAATTGTATTCTAAACAATAGGACTGCCGAACAATAGGTCATAATG-----TAT---TGGAATAATAAAACTCTGGGAGGCAACACTATTTAAAACCTAGCA
+q rheMac2.chr4 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16388912 136 - 174210431 GTGGGACTGCGTAATAGTTT----AATTTAGCTGTTTATAAATGTTTAATTGTATTCTAAACAATAGGACTGCCGAACAATAGGTCATAATG-----TAT---TGGAATAATAAAACTCTGGGGGGCGACACTATTTAAAACCTAGCA
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 59458 136 - 523245 GTGGGACTGCATAATAGTTT----AATTTAGCTGTTTATAAATGTTTAATTGTATTCTGAACAATAGGAAGGCTGAACAATAGGTCACAATG-----TAT---TGGAATAATAAAACTCTAGGGGGCAACACTATTTAAAACCTAACA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 1091 138 - 5280 GTAGGACTGCGTAATAGTTT----AATTTAGCTGTTTATGAATGTTTAATTGTGTCCTAAACAATAGGACAATTGAACAATAGGTCAGAATG-----CATTGGTGGAGTAATAAAGCCCT-GGGGGCGATACTATTTAAAACCCAGCA
+q otoGar1.scaffold_85253.1-5280 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999-999986999999999999999999999
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s bosTau3.chr9 13715620 132 - 95030419 GTGGGACTGCATAATAGTTT----GATTTGGCTGTTTGTGAATGTTTAATTGTATTCTAAACAATAGGATAACTGAACAATAGGCCATGATG-----TAT---TGGAATAATAAAACT---GGAGACAATACTATTTAAAACATAGC-
+q bosTau3.chr9 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---999999999999999---99999999999999999999999999-
+i bosTau3.chr9 C 0 I 1
+s equCab1.chr31 13042151 132 + 24938454 GTGGGCCCACATAATAGTTT----GATTTAGCTGTTTATGAATGTTTAATTGTATTCTAAACAATAGGCTAGCTGAACAATAGGCCATAACG-----TAT---TGGAATAATAAAACT---GGGGGCAATACTATTTAAAACCTAGC-
+q equCab1.chr31 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---999999999999999---99999999999999999999999999-
+i equCab1.chr31 C 0 I 1
+s felCat3.scaffold_217398 112005 127 - 219823 GTGGGTCTGTGTCGTATTTC-----ATTTAGCTGTTTGCGAATGTT----TGTATTCTGATCAGCGGGATAACTGAAGAATAGGCCATAACA-----TGT---TGGAATAATAAAGCC---GGGGGCAACATTATTTAAAATCTAGC-
+q felCat3.scaffold_217398 99999999999999999999-----999999999999999999999----999999999999999999999999999999999999999999-----999---999999999999999---99999999999999999999999999-
+i felCat3.scaffold_217398 C 0 I 2107
+s canFam2.chr1 78252364 134 - 125616256 GTGGGGCTGTGTAACAGTTTAAATAATTTAGCTGTTTACAAATGTTTGACTGTATTCCGATCAGTGGGATA--TGACTAATAGGCCATAACA-----TTT---TGGGATAATAAAACT---GGGGGCAACATTATTTAAACCCGAAC-
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-----999---999999999999999---99999999999999999999999999-
+i canFam2.chr1 C 0 I 1
+s eriEur1.scaffold_363624 8692 105 - 23811 gtgggatggcctgatagttg----CATTTGGTGGTTTATAAATGTTTAATCGTATACAAAACAATAGAATGACTGAACAATA-GCTATGATG-----TAT---TGGAATAATAAAACT------------------------------
+q eriEur1.scaffold_363624 99999999999999999999----9999999999999999999999999999999999999999999999999999999999-999999999-----999---999999999999999------------------------------
+i eriEur1.scaffold_363624 C 0 I 3266
+s dasNov1.scaffold_13068 5639 134 + 27231 ATGGGACTGGGTGATAGTTT----AATTTAGCCACTTATAAATGTTTAATTGTATTTTAAACAATAAGATAATTGAACAATAGGCCGTTACA-----TTT---TGGAATACTGAAACTCT-GAGGTCAATACTATTTAAAACTTAGC-
+q dasNov1.scaffold_13068 99999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999-----999---99999999999999999-99999999999999999999999999-
+i dasNov1.scaffold_13068 C 0 I 3344
+s loxAfr1.scaffold_4233 57029 133 + 124190 GTGGGGTTGTATAATACTTT----AATCTAGCTGACTGTAAATGTTGAATTGTATTCTAAACAATGGGGTAACTGAACGATAGG-CACAATG-----TAT---CTGAACAATAAAACTCT-GGGGGCCATGCTATTTAAAACCTAGC-
+q loxAfr1.scaffold_4233 62577543545443545664----534435653637354595444467554555565669575536775557455556666597-8576699-----668---98999766999999999-99999985999999999993837699-
+i loxAfr1.scaffold_4233 I 12127 I 503
+s echTel1.scaffold_324002 30156 127 + 49972 -------TGTGTAGTGCTTT----AATCTGGCCATTTATGAATGTTTAATTGTATCCTAAACAATAGGATAACAGAACAATGGGCCACAGCG-----TAT---CTGAATAGTAAAACTCT-GGGGGCCAGGCTATTTAAAACTCAGC-
+q echTel1.scaffold_324002 -------9999999999999----99999999999999999999999999999999989999999999999999799999999999998899-----999---99999899899999999-99999999999999999999799799-
+i echTel1.scaffold_324002 I 22472 I 2471
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=90296.000000
+s mm9.chr10 3183335 31 + 129993255 TATTGGGTGTCCACGCCCCCTTATAGGACAG
+s rn4.chr1 230000573 31 - 267910886 CATTCAGTGTCTATGCTACCTTACAGGAAAG
+q rn4.chr1 9999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 78204 31 - 169015 TATTCAATATTTGTGTATCTCAAGAGGAAAG
+q cavPor2.scaffold_284118 9999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16083561 31 - 170899992 TATTCAATATATGTGTGCCTTGAGGACAAAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16606987 31 - 173908612 TATTCAATATATGTGTGCCTTGAGGACAAAG
+q panTro2.chr6 9999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108491468 31 + 167655696 TATTCAATATATGTGTGCCTTGAGGACAAAG
+q rheMac2.chr4 9999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16389048 31 - 174210431 TATTCAATATATGTGTGCCTTGAGGACAAAG
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 59594 31 - 523245 TACTCAATATATGGGTGCCTTGAGGACAAAG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 1229 31 - 5280 TGTCCAGTGTATGGGCACCTCGGCACGAATG
+q otoGar1.scaffold_85253.1-5280 9999999999999979999999999999999
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s canFam2.chr1 78252499 30 - 125616256 TATTCAACATACTTATCCCTTGGGAGGA-AG
+q canFam2.chr1 9999999999999999999999999999-99
+i canFam2.chr1 I 1 C 0
+s equCab1.chr31 13042284 31 + 24938454 TATTCAATATATGTGTCCCTTGAGGGGACAG
+q equCab1.chr31 9999999999999999999999999999999
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13715753 31 - 95030419 TATTCAATATATGTGTCCCTTGAGGGGAAAG
+q bosTau3.chr9 9999999999999999999999999999999
+i bosTau3.chr9 I 1 I 2201
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57162 503 + 124190 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=258039.000000
+s mm9.chr10 3183366 124 + 129993255 CATGTGAGCCACACTAGGGTCTGCCCTCA-------------GCCATGCTTGCACTCGACCAC---C---CAGCCTCTCC----AAGCTTC-GATGACTTGCGCTCAGACTGCTTATGCTCTCTTGGGAACCTTAAGGCCATGCTCC----------------C
+s equCab1.chr31 13042315 155 + 24938454 TCTTTAAGCCACTATAGCTTCCATTTTTAGGTAGGTAACAATGTGATATTTTCAGTTGATAGTTCCC---CTGTGTCTTG--GGGATCTTTTGATTATTTAAGGGTAGATCATTTATATTCCCTCAGAATCCGCAAGAAGATTCTGGCCTTTTT----AGGGAA
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999999999999999---9999999999--999999999999999999999999999999999999999999999999999999999999999999999999----999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78252529 156 - 125616256 TTTTTATGCCACTATAGATGCTGTTTTTAGGTCAGTAGCAACATGGCATTCCCAATTGATAAT---C---CTATATGTCA--GGGATCTTTTGATTATTTGAGGTTAGGTCATTTATATTCCCCCAGAATCCTTAAGGAGATTTTGGCCTTCCTCTCAGGGAAA
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999---9---9999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 1260 155 - 5280 TCTTTCAGCCGCAATACATTTTGTTCTTACCTAGGTAGCAATTGGATGTTTCTATGTAATAAT---TCTCCTACATCTCG--GGGAACTTCTGATTATTTGAGGATACAGTGCTTCCATCCCCCCG-AATCCTC-AGGAGGTTTGGGTCTGTT--TCAGGGAAA
+q otoGar1.scaffold_85253.1-5280 699999999999999999999998999999999979999999999877899999999899986---99999999999999--99998599999879979999996589898879888799778898-9969889-999996399965799869--997997997
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s calJac1.Contig1260 59625 155 - 523245 TCTTGAAGCCACAATTGATTCTATTCTTATGTGGGCAGTAAAGTGATGTTTCTGCTTGATAAT---T---CTACATCTCA--GGAAACTTGTGATTATTTCAGG-TACAATGCTTATAGTCTCTCAGAATCCTCAAGGCGATTCTGGTCAGTTTCTCAGAGAAA
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16389079 156 - 174210431 TCGTCAGGCTACAATACATTCTATTCTTATATGGGTAGTAACGTGATTTTTCTGCTTGATAAT---T---CTACATCTCA--GGGAACTTGTGATTTTTTGAGGTTACAATGCTTATATTCTTTCATAATCCTCAAGGAGATTCTGGTTAGTTTCTCAGAGAAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108491499 156 + 167655696 TCTTGAGGCTACAATAGATTCTATTCTTATAGGGGTAGTAACGTGATGTTTCTGCTTGATAAT---T---CTACATCTCA--GGGAACTTGTGATTATTTGAGGTTACAGTGCTTATTTTCTCTCATAATCCTCAAGGAGATTCTGATTAGTTTCTCAGAGAAA
+q rheMac2.chr4 999999999999999999999988999999999999999999999999999999999994999---9---9999999999--9999999999999999999999999999999999999999999999999999999999999999999996999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16607018 156 - 173908612 TCTTCAGGCTACAATACATTCTATTCTTATGTGGGCAGTAACGTGATTTTTCTGCTTGATAAT---T---CTACATCTCA--GGGAACTTGTGATTATTTGAGGTTACAATGCTTCTATTCTCTCATAATCCTCAAGGAGATTCTGGTTAGTTTCTCAGAGAAA
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999---9---9999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16083592 156 - 170899992 TCTTCAGGCTACAATACATTCTATTCTTATGTGGGCAGTAACGTGATTTTTCTGCTTGATAAT---T---CTACATCTCA--GGGAACTTGTGATTATTTGAGGTTACAATGCTTCTATTCTCTCATAATCCTCAAGGAGATTCTGGTTAGTTTCTCAGAGAAA
+i hg18.chr6 C 0 C 0
+s cavPor2.scaffold_284118 78235 124 - 169015 TATGTAAACTACAATAAGTTCTGCCTTCACGTAGATAGAAGCATGATGTTTCTACTTGATAAT---T---CCCCTGTTTTGTGGGAACTTTTGATTATTTGGAGTTATACTA-------------------TTCCAGGCAATTCTCAT---------------C
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999999999999999999999999999---9---999999999999999999999999999999999999999999-------------------99999999999999999---------------9
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230000604 123 - 267910886 AGCGTGAACCACACTAGGGTATGTCCTTA--------------CGATGCTTGCACTCGATAAT---C---CAGCTTCTCC----GAGCTTCTGATGACTTGAGCTCAGACTGCTTACGCAC-CTTAGAAACCTCAAGGCCATGCTCA----------------G
+q rn4.chr1 99999999999999999999999999999--------------99999999999999999999---9---9999999999----9999999999999999999999999999999999999-9999999999999999999999999----------------9
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57162 503 + 124190 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=121459.000000
+s mm9.chr10 3183490 66 + 129993255 TCT---TCTGGGATCTTA-AGTTGTCAGTTTCTGA-C--GGTTACGGCC--TGCGC----TCTGGAGTGTTCATTA---AAA
+s rn4.chr1 230000727 66 - 267910886 TGT---TCTGTGATCTTC-GGTTGTCAGTTTCTGA-C--TGTTGTAACC--TGTGC----TCTAGAATGTTCATTA---AAA
+q rn4.chr1 999---999999999999-9999999999999999-9--9999999999--99999----9999999999999999---999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 78359 70 - 169015 TAT---TCTGTTCACCTC-AGTTCCTAATCTCTGATC--ATTTGCAGTCAGTACTC----TCTAGAACCTTCACCAT--ACA
+q cavPor2.scaffold_284118 999---999999999999-999999999999999999--99999999999999999----99999999999999999--999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16083748 71 - 170899992 TGC---TCTGTATTCTTC-AATTCTCAATCTCTAATC--ATTTGTTGCC--TGCATACTGTCTAGAACTCTCACCATTC---
+i hg18.chr6 C 0 I 2
+s panTro2.chr6 16607174 71 - 173908612 TGC---TCTGTATTCTTC-AATTCTCAATCTCTAATC--ATTTGTCGCC--TGCATGCTGTCTAGAACCCTCACCGTTC---
+q panTro2.chr6 999---999999999999-999999999999999999--9999999999--9999999999999999999999999999---
+i panTro2.chr6 C 0 I 2
+s rheMac2.chr4 108491655 71 + 167655696 TGC---TCTGTATTCTTC-AATTCTCAATGTCTAGTC--ATTTGTAGCC--TGCACACTGTCTAGAACCCTCACCATTC---
+q rheMac2.chr4 999---999999999999-999999999999999999--9999999999--9999999999999999999999999999---
+i rheMac2.chr4 C 0 I 2
+s ponAbe2.chr6 16389235 52 - 174210431 TGC---TCTGTATTCTTT-AATTCTCAATCTCTAATC--ATTTGTTGCC--TGCACGCTG----------------------
+i ponAbe2.chr6 C 0 I 23
+s calJac1.Contig1260 59780 71 - 523245 TGC---TCTGTATTCTTC-AGTTCTCAATTTCTAATC--ATTTGTAGCC--TGAACGCTGTCCAGAACCCTCACCATTC---
+i calJac1.Contig1260 C 0 I 2
+s otoGar1.scaffold_85253.1-5280 1415 60 - 5280 TGCTCTTCTGTATTC-TC-AATTCTC-ATCCCCCCTC--ATTTGCTGCC--AGGACCCTGTCTAGAA---------------
+q otoGar1.scaffold_85253.1-5280 565999999967799-87-6969976-7899999988--6498869848--6896588884868889---------------
+i otoGar1.scaffold_85253.1-5280 C 0 I 5
+s canFam2.chr1 78252685 77 - 125616256 TGTTCGTCTGTATTGTTCAAGTTCTCTCTCTCTGATCATATTTACAACC--TTCATCCTATCAAGAACCCTCATCACAC---
+q canFam2.chr1 9999999999999999999999999999999999999999999999999--9999999999999999999999999999---
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13042470 71 + 24938454 TGC---TCTGTATTCTTC-AGTTCTCATTCTCTGATC--ATTTGCAACC--TTTGTCCCCTCTAGAGCCCTCCTCACAC---
+q equCab1.chr31 999---999999999999-999999999999999999--9999999999--9999999999999999999999999999---
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_4233 57665 70 + 124190 TCT---TCTATCTTCTTC-AGTTCTCAATCTCTGATC--ATTTGTATCC--TGGAC-CCATCCAGAACCCTCACCACAC---
+q loxAfr1.scaffold_4233 999---999999999999-999999999999999999--9999999999--99999-9999999999999999999999---
+i loxAfr1.scaffold_4233 I 503 C 0
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=254761.000000
+s mm9.chr10 3183556 118 + 129993255 --CCCATC--------------CAGGCTTCT---CT------------AGGCCCCAAGCGCTTCCCTAGGGTTCTAATTCTGCTTCTG-CACCCCATTTGCTCTGTG----GTTT--GTGGAAATTCAAACAGGA---CTCTGGTCTTCT-CCTCACTTC
+s rn4.chr1 230000793 120 - 267910886 --CCCATT--------------TAGGCTTCT---CT------------AGGCCCCAAGTGCTTCCTTAGGGTCCTAGTTCTGCTTCTGACACCCTGTTCCCTCTGTT----TTTT--GTGGAAATTCAAGCAGGA---CTCTGGTCTTTTTCCTCACTTC
+q rn4.chr1 --999999--------------999999999---99------------99999999999999999999999999999999999999999999999999999999999----9999--999999999999999999---9999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 78429 119 - 169015 --CCCATC--CT----------CTACCTTCTATGCT------------GTGCCCCAAAAATTTCCTAACTGGTCCAGGGCT-TTTCTGAAATCCAGGATCCTTAGTG----TTTT--TTGA----TTAAGGAGAA---CTCTAGCCTTGT-ACTCAGTTC
+q cavPor2.scaffold_284118 --999999--99----------99999999999999------------999999999999999999999999999999999-9999999999999999999999999----9999--9999----9999999999---999999999999-999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16083821 123 - 170899992 --CCCATC---T----------CAGCCTTTT---CA------------GTGCTCCAAACATTTCCTTACTGTTCTAAAGCTACTTCTGAAATCCTACTCCTTCTGTGAA-TTTTT--CGGTTCGTTAAAAGAGAAATGATCTGGCCTCAT-CTTTAT---
+i hg18.chr6 I 2 I 302
+s panTro2.chr6 16607247 126 - 173908612 --CCCATC---T----------CAACCTTTT---CA------------GTGCTCCAAACATTTCCTTACTGTTCTAAAGCTACTTCTGAAACCCTACTCCTTCTGTGAA-TTTTT--CGGTTCATTAAAAGAGAAATGATCTGGCCTCAT-CTTTATTTC
+q panTro2.chr6 --999999---9----------999999999---99------------9999999999999999999999999999999999999999999999999999999999999-99999--999999999999999999999999999999999-999999999
+i panTro2.chr6 I 2 I 297
+s ponAbe2.chr6 16389310 126 - 174210431 --CCCATC---T----------CAACCTTTT---CA------------GTGCTCTAGACATTTCCTAACTGTTGTAAAGCTACTTCTGAAATCCTACTCCTTCTGTGAA-TTTTT--CGGTTCATTCAAAGAGAAATGTTCTGGCCTCAT-CTTTATTTC
+i ponAbe2.chr6 I 23 C 0
+s rheMac2.chr4 108491728 126 + 167655696 --TCCATC---T----------CAACCTTTT---CA------------GTGCTCCAAACATTTCCTTACTATTCTAAAGCTACTTCTGAAATCCCACTTCTTCCGTGAA-TTTTT--CAGTTCATTAACAGAGAAATGATCTGGCCTCAT-CTTTACTTC
+q rheMac2.chr4 --999999---9----------999999999---99------------9999999999999999999999999999999999999999999999999999999999999-99999--999999999999999999999999999999999-999999999
+i rheMac2.chr4 I 2 C 0
+s calJac1.Contig1260 59853 126 - 523245 --TCCATC---T----------AAACCTTTT---CA------------GTGCTCCAAATATTTCCTTACAGTTCTAAAGCTACTTCTGAAATCCAACTTCTTCCATGAA-TTTTT--CAGTTAATTAACAGAGAAATGATCTGGCCTCAT-CTTTATTTC
+i calJac1.Contig1260 I 2 I 757
+s otoGar1.scaffold_85253.1-5280 1480 126 - 5280 --CCCATC---C----------CGACCATTT---CAACCTTTGTTCCCGGGCCCCAAATAGTTCCTTAATGTTCTAACGCTGCTTCTGAAGTCCTGTTACTTTGGCAAA---------------TTAGAAGAGAAATAATCTGGCCTCAT-CTTTGTTTC
+q otoGar1.scaffold_85253.1-5280 --886688---8----------855468587---548677776367877955777688586375656666639955755666657755557475574555597755695---------------55546747689545667475355556-759554955
+i otoGar1.scaffold_85253.1-5280 I 5 I 2523
+s canFam2.chr1 78252762 118 - 125616256 ----------CT----------CCCCCTTCC---CT------------GTGTCCAGAATATTT-CCTCATGCTCTCAAGCTACTTCTGAAATCCTGTTCCCTCAGTGAAACCCTT--CAGTTAATTAAAAGAGGA---ATCTGGCCTCAT-CTTTATTTC
+q canFam2.chr1 ----------99----------999999999---99------------999999999999999-999999999999999999999999999999999999999999999999999--999999999999999999---999999999999-999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13042541 131 + 24938454 ----------CTCCTATCTCAACCTTCTTCT---CT------------GTGTCCAAAATATTTCCCTAATGCTCCAAAGCTACTTCTGAAATCTTGTTTCTTCAGTGAATTTTTTCCCAGTTAGTTAAAAGAGAT---ATCCAGCCTCAT-CTTTATTTC
+q equCab1.chr31 ----------999999999999999999999---99------------999909999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999999999-999999999
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_4233 57735 129 + 124190 CTCCCACATACG----------CCTTCTTCT---CT------------GTGCCCCAAATTTTCCCTTTATGTTCTAAAGCTACTTCTGAAATCTGACATCTTCAGTAAA--ATTT--CTTGTAATTAGAAGAGACAT-CTCTGGCCTCAT-CTTTTCTTC
+q loxAfr1.scaffold_4233 999999999999----------999999999---99------------9999999999999999999999999999999999999999999999999999999799999--9999--99899999999888999999-999999999978-789978999
+i loxAfr1.scaffold_4233 C 0 I 346
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-23432.000000
+s mm9.chr10 3183674 48 + 129993255 C---------------------------------------GTAGCCATGGCATACA--GTTTCTCCATTA-AAAAGGtttttttaagaga
+s rn4.chr1 230000913 74 - 267910886 T---TACTTTACTGG----------G-TGCTGTTTACCCAGTAGCCATGGTATATA--GTTTGTTCATTGTAAAAAAAAAttttaagaga
+q rn4.chr1 9---99999999999----------9-99999999999999999999999999999--99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 78548 71 - 169015 TATTTATCATTCAGG----------GATGAAGATTACTGTATAGCCGTGGTACATG--ATTTCTTCACTG-AAA------TTTTAATGGA
+q cavPor2.scaffold_284118 999999999999999----------9999999999999999999999999999999--999999999999-999------9999999999
+i cavPor2.scaffold_284118 C 0 I 293
+s ponAbe2.chr6 16389436 15 - 174210431 TCCTTAGCATTCAGG---------------------------------------------------------------------------
+i ponAbe2.chr6 C 0 I 282
+s rheMac2.chr4 108491854 25 + 167655696 TCCTTAGCATTCAGGAATGAAGCTT-----------------------------------------------------------------
+q rheMac2.chr4 9999999999999999999999999-----------------------------------------------------------------
+i rheMac2.chr4 C 0 I 590
+s canFam2.chr1 78252880 52 - 125616256 TACTTATTATTCAGG----------GATGAAGTTTAATGAACATCCATGGTGCATGAAGTTT----------------------------
+q canFam2.chr1 999999999999999----------9999999999999999999999999999999999999----------------------------
+i canFam2.chr1 C 0 I 27
+s equCab1.chr31 13042672 71 + 24938454 TACTTATTATTCAGG----------GATGAAGTTTGATGAACATCCATTGTGCACG--GTTTCTTCACTT-TAA------TTTTAATGGG
+q equCab1.chr31 999999999999999----------9999999999999999999999999999999--999999999999-999------9999999999
+i equCab1.chr31 C 0 C 0
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 59979 757 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16083944 302 - 170899992 I
+e panTro2.chr6 16607373 297 - 173908612 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=1513.000000
+s mm9.chr10 3183722 35 + 129993255 ggttttaatgtattccacctggcttcaaacttat-------g
+s rn4.chr1 230000987 42 - 267910886 ggttttaatgtattccacctggcttccaacttactgcatagc
+q rn4.chr1 999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13042743 29 + 24938454 ----CTAATTTATTCTGC---ACTTGAAAACTAATG------
+q equCab1.chr31 ----99999999999999---999999999999999------
+i equCab1.chr31 C 0 I 213
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e rheMac2.chr4 108491879 590 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e canFam2.chr1 78252932 27 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 59979 757 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 78619 293 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16083944 302 - 170899992 I
+e panTro2.chr6 16607373 297 - 173908612 I
+e ponAbe2.chr6 16389451 282 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=9199.000000
+s mm9.chr10 3183757 164 + 129993255 tataactggcactaagcatctaccgtcttgctttaacacctgctgagttggggggttacaggtgtgctttaccatacatggttttaatgtggtgctagggatggaacccacaactgtgtgtgtgttagccaaacacggtagcatccaggccacactcctggtcc
+s rn4.chr1 230001029 160 - 267910886 caagactggcactgaacatctaccttcttgcttatccatcggttgagttggggggt-gcaggtgtgctttaccatgcctggtttta-tgtggtgttagggatggaaccccaacctatgtgtgt--tagccaaacactgtatcacccaggtcacatacccagccc
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999-99999999999999999999999999999-999999999999999999999999999999999999--999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13042772 213 + 24938454 I
+e rheMac2.chr4 108491879 590 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e canFam2.chr1 78252932 27 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 59979 757 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 78619 293 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16083944 302 - 170899992 I
+e panTro2.chr6 16607373 297 - 173908612 I
+e ponAbe2.chr6 16389451 282 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=1642.000000
+s mm9.chr10 3183921 166 + 129993255 TTTGTTGTAAGTTTAACAGGAGAACTGGTTCTGTCCATGCCATTT--CATGCCTC-CTGTCTTAG--TTAGGGTTGTATTGTAAACCAGTCTGTTAGCATTGTGCCTGAATTTTGAG--TAATGATCTCTTTCTGTC---ATCGTGAG---------CATCTGTATCA------------------GCCCCACTGGT--------------------------------CCATGG
+s rn4.chr1 230001189 140 - 267910886 TTTGCTGTAAGTTTAATGGTAGAGCTGATTCTATTGCACAAACT---------------------------------AACGTGAGCCAGTCTGTTAGCACTGTGCCTGAATTTTGAG--TAGTGCTCT-TTCCTGGC---ACCATGAG------TAACATCTGTATGG------------------GTCCCACTGGT--------------------------------CCATGA
+q rn4.chr1 99999999999999999999999999999999999999999999---------------------------------9999999999999999999999999999999999999999--999999999-99999999---99999999------99999999999999------------------99999999999--------------------------------999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78252959 234 - 125616256 TTCAATTTAATTTTAATGGATTGATTTACTCTGCACATGAAAACTGACAGGAATCTCTGTTTTATACTTTACTTTGCACAGTGAGCTTGCTTGGCA-CAGTAAGCATGAACTTTAAGTCTACCGGTCCCTGTTTGTTTTGTTTATGAGAGTTTATGACATGTGTATGAATAATGAACCGAAAGACTGTTACATTtgtgttggtttgctggggctgccatagaaaaagtaccatgg
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 27 I 18
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13042772 213 + 24938454 I
+e rheMac2.chr4 108491879 590 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 59979 757 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 78619 293 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16083944 302 - 170899992 I
+e panTro2.chr6 16607373 297 - 173908612 I
+e ponAbe2.chr6 16389451 282 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-188.000000
+s mm9.chr10 3184087 45 + 129993255 GGGGA-----------------------TGAAC-----------------------------GTCTTCACCCTTCCCAAGGCTGCAAGCCTGGGACT
+s rn4.chr1 230001329 77 - 267910886 GGGGAAAGGTTATACGTGTGGATGAGTGTGAACTAGGACAGCTAGCTAGCTCTGTGTGCTTTGCCTCCAGCTCTCCT--------------------
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999--------------------
+i rn4.chr1 C 0 I 27
+s hg18.chr6 16084246 34 - 170899992 ---------------------------------------------------------------tcatcaccattttggaggctagaagtctgagatc
+i hg18.chr6 I 302 I 28
+s panTro2.chr6 16607670 34 - 173908612 ---------------------------------------------------------------tcatcaccattttggaggctagaagtctgagatc
+q panTro2.chr6 ---------------------------------------------------------------9999999999999999999999999999999999
+i panTro2.chr6 I 297 I 28
+s ponAbe2.chr6 16389733 45 - 174210431 -----------------------------------agaaatttat-----------------ctcatcaccattttggaggctagaagtctgagatc
+i ponAbe2.chr6 I 282 I 28
+s equCab1.chr31 13042985 45 + 24938454 -----------------------------------agaaatttag-----------------tttcttgtagttccggaggccagaagtctgagatc
+q equCab1.chr31 -----------------------------------9999999999-----------------99999999999999999999999999999999999
+i equCab1.chr31 I 213 I 28
+s canFam2.chr1 78253211 45 - 125616256 -----------------------------------agaaatttat-----------------ttcctcctacctctggaagctggaagtctgagatc
+q canFam2.chr1 -----------------------------------9999999999-----------------99999999999999999999999999999999999
+i canFam2.chr1 I 18 I 20
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e rheMac2.chr4 108491879 590 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 59979 757 - 523245 I
+e tupBel1.scaffold_114895.1-498454 380621 5099 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 78619 293 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=25312.000000
+s mm9.chr10 3184132 61 + 129993255 aa-------------------------------------gcctctctccgtggcttgttgatggtcatctt-tttccc-tggctctgtgta-tctgtgtct-----------------
+s rn4.chr1 230001433 84 - 267910886 GACTCAACACATTTACAGCTTCACCCTGGCCACAGCATAgcccctctccttggcttacagatggccacctt-ttcccg-tg---------------ttctc-----------------
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999-999999-99---------------99999-----------------
+i rn4.chr1 I 27 C 0
+s cavPor2.scaffold_284118 78912 62 - 169015 GT-------------------------------------TGGCTTCTCCTTGGCTTATAGATGAGCATCTC-TTTCTGATGTGTTCACATG-GTCCTCTCT-----------------
+q cavPor2.scaffold_284118 99-------------------------------------99999999999999999999999999999999-9999999999999999999-999999999-----------------
+i cavPor2.scaffold_284118 I 293 C 0
+s ponAbe2.chr6 16389806 55 - 174210431 -------------------------------------aggcctctctccttggtttaca-atgaccatct--tttccg-tgtcttcacgta-----tcttc-----------------
+i ponAbe2.chr6 I 28 I 17
+s panTro2.chr6 16607732 59 - 173908612 -------------------------------------aggcctctctccttggtttaca-atgaccgtct--tttccg-tgtcttcacgta-tctttcttc-----------------
+q panTro2.chr6 -------------------------------------9999999999999999999999-9999999999--999999-999999999999-999999999-----------------
+i panTro2.chr6 I 28 I 17
+s hg18.chr6 16084308 59 - 170899992 -------------------------------------aggcctctctccttggtttaca-atgaccgtct--tttccg-tgtcttcacgta-tctttcttc-----------------
+i hg18.chr6 I 28 I 17
+s tupBel1.scaffold_114895.1-498454 385720 59 - 498454 -------------------------------------AGGCCTCCCTCCTTGGCTTCTC-ATGGTC-TGC--TCTCTG-TGTCTTCACATGGTCTTTCTTC-----------------
+q tupBel1.scaffold_114895.1-498454 -------------------------------------9997999999999999999999-999999-999--999999-9999999999999999999999-----------------
+i tupBel1.scaffold_114895.1-498454 I 5099 I 15
+s equCab1.chr31 13043058 80 + 24938454 -------------------------------------aggcctctgtccttggcttgtaggtgaccgtgttctcccca-tgtcttcgcttggtcttccttctgtgcatgtctgtgtcc
+q equCab1.chr31 -------------------------------------99999999999999999999999999999999999999999-999999999999999999999999999999999999999
+i equCab1.chr31 I 28 C 0
+s canFam2.chr1 78253276 62 - 125616256 ----------------------------------------------tccttggtttgtagatagctttctttttcctg-tgtcttcacgcagactcgcccccatgtatg---------
+q canFam2.chr1 ----------------------------------------------99999999999999999999999999999999-999999999999999999999999999999---------
+i canFam2.chr1 I 20 C 0
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e rheMac2.chr4 108491879 590 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 59979 757 - 523245 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=95138.000000
+s mm9.chr10 3184193 69 + 129993255 ttatctttttgccttgcaaggacaccagtcaca-ggggttga-aagcattccagcaacttca-------------------ttggagatt---
+s rn4.chr1 230001517 60 - 267910886 aGCTCTATTTGCCTTGCAAGGACA----------GGGGTTGA-AAGCGTGCCAGCAACTTCA-------------------CTGGAGCCT---
+q rn4.chr1 999999999999999999999999----------99999999-9999999999999999999-------------------999999999---
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 78974 88 - 169015 ATCTGTGACTGTCTTGTCTTGACATAAGTCATG-TGGATTGA-AATCATCCTAATGATgtcattttaacttaattacatctttaaagact---
+q cavPor2.scaffold_284118 999999999999999999999999999999999-99999999-99999999999999997999999999999999999999999999999---
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16084384 88 - 170899992 ttatctcctcttctaataaggacacgagtcata-tggattga-gcccaccttaacgatgtcatttgaacttaattccttctttagggatt---
+i hg18.chr6 I 17 I 4
+s panTro2.chr6 16607808 88 - 173908612 taatctcctcttctaataaggacacgagtcata-tggattga-gcccaccttaacgatgtcatttgaacttaattccttcttttgggatt---
+q panTro2.chr6 999999999999999999999999999999999-99999999-99999999999999999999999999999999999999999999999---
+i panTro2.chr6 I 17 I 4
+s ponAbe2.chr6 16389878 88 - 174210431 taatctcctcttctaataaggacacgagtcata-tggattga-gcctaccttaacgatgtcatttgaacttaattccttctttaaggatt---
+i ponAbe2.chr6 I 17 I 4
+s calJac1.Contig1260 60736 88 - 523245 cagtctcctcttctaataaggacactaatcata-tggattaa-gcccaccttaatgatgttatttaaacttaattccttctttaaagatt---
+i calJac1.Contig1260 I 757 I 4
+s tupBel1.scaffold_114895.1-498454 385794 74 - 498454 TGGTATCCTCTTTTTGTAACTATCAAAGTCATATTGGATTGA-GC---------------TGGTTGAACTTAATTACTTCTTGAAAGATT---
+q tupBel1.scaffold_114895.1-498454 999997999999999979999999999999999999997999-99---------------998699999999999999999999998759---
+i tupBel1.scaffold_114895.1-498454 I 15 I 11
+s equCab1.chr31 13043138 91 + 24938454 taatctcctcctcttatgaggacaccagtcatattggattcaggcccaccaacatgacctcattttaactt-attgtctctttagagatgc-t
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999-9
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78253338 90 - 125616256 ---tctcctcttcttctaaggacaccaatcgtcttggattggggcccaacctgattatctcatttgaacttaatcacatctttaaagctttat
+q canFam2.chr1 ---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e bosTau3.chr9 13715784 2201 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e rheMac2.chr4 108491879 590 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=149675.000000
+s mm9.chr10 3184262 122 + 129993255 ctct--aaat------atattctgaggtcctgggagtt--gccgtc-----agtataggagttttagttggacactgttcagtcTCAAGAAGGTTTAAG--TGTGATGTCA-TTGTCATGAACCTTTATGACTAATGAAA------
+s rn4.chr1 230001577 126 - 267910886 CTCT--AAAT------ATATTCTGCGGTCTTGGGAGTTAGGCTGTCTGTCGGGTATTCCAGTTTTAGTTGGACACCGTTCACTCTCGAG---GTTAAAG--GGTGATGTAA-TTGTCATCAACCTTTATGGCGAATGAAA------
+q rn4.chr1 9999--9999------9999999999999999999999999999999999999999999999999999999999999999999999999---9999999--9999999999-9999999999999999999999999999------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 79062 128 - 169015 ctcttcaaat------attttccaagGTACTGAGGATTAGGACTAG-----AACATAAGAATTTTGAAAGGATGCAATTTATCAGTAACAGGGCTTAAGTATGTGACATAG-CAGTCTGAAGTTTTTATGATAAGTTAAA------
+q cavPor2.scaffold_284118 9999999999------999999999999999999999999999999-----999774969999979999999899999999999999974485633565456949879999-8889946988779766576356987679------
+i cavPor2.scaffold_284118 C 0 I 705
+s ponAbe2.chr6 16389970 112 - 174210431 ctcc--aaat------acattccaggg--------------actgt-----aacatatgaattttgtggggacacagtttagccataacaGGCTTTAAATGTATAACATAG-TTGTCCTAAGCTTGTATGACGAATTAAA------
+i ponAbe2.chr6 I 4 I 7
+s panTro2.chr6 16607900 112 - 173908612 ctcc--aaat------acattccaggg--------------actgt-----aacatacgaattttgtggggacacagtttagccataacaGGCTTGAAATGTATAACATAG-TTGTCCTAAACTTGTATGACGAATTAAA------
+q panTro2.chr6 9999--9999------99999999999--------------99999-----999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999------
+i panTro2.chr6 I 4 I 7
+s hg18.chr6 16084476 112 - 170899992 ctcc--aaat------acattccaggg--------------actgt-----aacatatgaattttgtggggacacagtttagccataacaGGCTTGAAATGTATAACATAG-TTGTCCTAAACTTGTATGATGAATTAAA------
+i hg18.chr6 I 4 I 7
+s calJac1.Contig1260 60828 121 - 523245 ctcc--aaat------gcattccagggtactgagggttagaactgt-----aacatacagattttgtggcaacac-----agccataacaGGCTTTAAATATATAACATAG-TTGTCCCAAACTTGTGTGACAAATTAAA------
+i calJac1.Contig1260 I 4 I 7
+s tupBel1.scaffold_114895.1-498454 385879 120 - 498454 ATTC--AAAT------ACACTCTGAGGTATGGAGAGTTAGGATTTC-----CACATATGAATTTTCACAAGACACAATTCAGCAATAATAGAGATTAAATATAGACCTTGGTTTATTCTAAAATTTTATGAC-------A------
+q tupBel1.scaffold_114895.1-498454 7998--9999------996999999797959799987998966997-----969999899769987697999989986976699899999999789799999997986989799889777999799997868-------9------
+i tupBel1.scaffold_114895.1-498454 I 11 I 3
+s equCab1.chr31 13043229 138 + 24938454 gtcc--aaatacagtcgtgttctgaggtcctgggggttaggacttc-----agcatgtgactcttggggagacacaattcggccACAGCAAGGTTTAAATGTATAATATAG-TTATCCTAAACTTGTAGACAAATTCAAAAAAAAA
+q equCab1.chr31 9999--9999999999999999999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78253428 135 - 125616256 ctcc--aaatacagccactttctga-gtaacagggattaggacttc-----aacatataact-ttggggagaaacagtttggccacaacaAAGTTTAAACGTATTACATGA-TGGTCCTAAACTTTTATGATCATT-AAAACAAAA
+q canFam2.chr1 9999--9999999999999999999-99999999999999999999-----99999999999-999999999999999999999999999999999999999999999999-999999999999999999999999-999999999
+i canFam2.chr1 C 0 C 0
+s rheMac2.chr4 108492469 47 + 167655696 --------------------------------------------------------------------------------------------CTTTAAATATATAACATAG-TTGTCCTAAACTTGTATGACAAACTAAA------
+q rheMac2.chr4 --------------------------------------------------------------------------------------------9999999999999999999-9999999999999999999999999999------
+i rheMac2.chr4 I 590 I 8
+s bosTau3.chr9 13717985 105 - 95030419 ----------------atgttctgaggtactgctgattagaacttc-----aacatatgtatcttgggaagat-tgattcagctgtaacaGGGTTTAAATGTTTAATATAA-TTGTCCTAAACATCTA------------------
+q bosTau3.chr9 ----------------999999999999999999999999999999-----9999999999999999999999-9999999999999999999999999999999999999-9999999999999999------------------
+i bosTau3.chr9 I 2201 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=109693.000000
+s mm9.chr10 3184384 35 + 129993255 CATCCTTTTAAAGTTTAGGAGTAGGCTAGGGAAGG
+s rn4.chr1 230001703 35 - 267910886 CATCCTTTTAAAGTTTAGGATTAGGCTAGGGGAGG
+q rn4.chr1 99999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16390089 35 - 174210431 ATTCTTTTTAAAGCTTAAAAGTAGGCTAGGGAAGA
+i ponAbe2.chr6 I 7 C 0
+s panTro2.chr6 16608019 35 - 173908612 ATTCTTTTTAAAGCTTAAAAGTAGGCTAGCGAAGA
+q panTro2.chr6 99999999999999999999999999999999999
+i panTro2.chr6 I 7 C 0
+s hg18.chr6 16084595 35 - 170899992 ATTCTTTTTAAAGCTTAAAAGTAGGCTAGGGAAGA
+i hg18.chr6 I 7 C 0
+s rheMac2.chr4 108492524 35 + 167655696 ATTCTTTTTAAAGCTTAAAAGTAGGCTAGGGAGGA
+q rheMac2.chr4 99999999999999999999999999999999999
+i rheMac2.chr4 I 8 C 0
+s calJac1.Contig1260 60956 35 - 523245 ATTATTTTTAAACCTTAAAAGTAGGCCAGGGAAGA
+i calJac1.Contig1260 I 7 C 0
+s tupBel1.scaffold_114895.1-498454 386002 30 - 498454 -----TTTTTAAGCTCAGAAGTAGGCTAGGGAGGG
+q tupBel1.scaffold_114895.1-498454 -----799986977796799697977978997899
+i tupBel1.scaffold_114895.1-498454 I 3 I 518
+s canFam2.chr1 78253563 35 - 125616256 ATGCATTTTTAAGCTTAAAACTGGGCAACGGAAGA
+q canFam2.chr1 99999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13043367 35 + 24938454 ATTCATTTTAAAGCTTGAAAGTAGGCAAGGGGAGA
+q equCab1.chr31 99999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13718090 29 - 95030419 ------TTTAAAGCTTAAGTGCAGGCAAGGAAAGA
+q bosTau3.chr9 ------99999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 79190 705 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=88479.000000
+s mm9.chr10 3184419 64 + 129993255 CAGCATCTTGGAGGAGAGGAGAGTACCGGGT-TTGCTCACGGCAAGGCTTAGAGATGACCACATC--
+s rn4.chr1 230001738 64 - 267910886 CCACATCTTGGAGGAGAGGAGAGTGCTGGGT-TTGCTCATGACAAGGCTTAGAGATGTCTACATT--
+q rn4.chr1 9999999999999999999999999999999-999999999999999999999999999999999--
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16390124 54 - 174210431 CAGCGTCCCGAGAGAGAGGAGAAGAT-----------CATGATCAGGCTTAGAACTGGCTAAATG--
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16608054 54 - 173908612 CAGCGTCCCAAGAGAGAAGAGAAAAT-----------CATGATCAGGCTTAGAACTGGCTAAGTG--
+q panTro2.chr6 99999999999999999999999999-----------9999999999999999999999999999--
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16084630 54 - 170899992 CAGCGTCCCAAGAGAGAAGAGAAAAT-----------CATGATCAGGCTTAGAACTGGCTAAGTG--
+i hg18.chr6 C 0 I 1
+s rheMac2.chr4 108492559 54 + 167655696 CAGCGTCCTGAGAGAGAGGAGAAGAT-----------CATGATCAGGCTTAGAACTGGCTAAGTG--
+q rheMac2.chr4 99999999999999999999999999-----------9999999999999999999999999999--
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 60991 51 - 523245 CAGTGTCCTGAGAGA---GAGAAGAT-----------CATGAGCCAGCTTAGAATTGGCTAAGTG--
+i calJac1.Contig1260 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 386550 62 - 498454 CAGTGTCCTGAAAGA--AGAGAACACAGGGT-CTGGACATAGTCTGGCTTAGACCTGGCTAAATC--
+q tupBel1.scaffold_114895.1-498454 999999999999999--99999999999999-999999999999999999999999909999999--
+i tupBel1.scaffold_114895.1-498454 I 518 I 369
+s canFam2.chr1 78253598 67 - 125616256 GGACATCCCAATGGAGAGGCAATTGCAGGATATTGGCTGTGATCTGGCTTAGAACTGGCTAAGTGAT
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13043402 64 + 24938454 GAACATTCTGAAGGTGAG---ATTGTAGGATATTAGTTGTGATGTGGCTTAGAACTGGCAAAGTGAC
+q equCab1.chr31 999999999999999999---9999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13718119 66 - 95030419 GAACATTCTGAAGGAGGGGAGGGTATAAGATATTGAAT-CAATCTGGCTTAAAACTGGCTAAGTAAT
+q bosTau3.chr9 99999999999999999999999999999999999999-9999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 79190 705 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=172970.000000
+s mm9.chr10 3184483 86 + 129993255 TTATGG--------------------T-GGTTTGTCTTTGCTTCCCCCA---TTTT---CGTTCATTGAGATCCAGAGGACCTACGGACTG---CTAAGGGTCTGTGGCTGGATGG
+s rn4.chr1 230001802 86 - 267910886 TTAGGG--------------------C-GGTTTGTCTTCACTTCCTCCA---TTTT---TGATCATTGAGCGCTGAAGGACCTATGGACTG---CTAAGGGTCTGCGGTAGGACAG
+q rn4.chr1 999999--------------------9-999999999999999999999---9999---99999999999999999999999999999999---9999999999999999999999
+i rn4.chr1 C 0 I 13
+s calJac1.Contig1260 61043 115 - 523245 TTCTGGGTAAACTTCACAGTAATTTCT-CTTTCATCTGTACTTTCCCAACTTTTTTTTGTACTCAGTGAGATCTGAAATACCTTCTAAGTTCCTGTAAGATTCTTTAATTCTATTT
+i calJac1.Contig1260 I 1 C 0
+s rheMac2.chr4 108492614 112 + 167655696 TTCTGGGTAAACTTCACAGTAATTTCT-GTTTTGTCTGTGTTTTCTCAG---TTTTTTGTACTCATTGGGATCTGAAGTGCCTTTTAAGTGACTCTAAGATTCTGTAATTCTATTT
+q rheMac2.chr4 999999999999999999999999999-999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1 C 0
+s hg18.chr6 16084685 112 - 170899992 TTCTGGGTAAACTTCACAGTAATTTCT-GTTTTGTCTGTGCTTTCTCAA---TTTTttgtactcagtgagatctgaaatgccttttaagtgtctctaagattctgtaattctatTT
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16608109 112 - 173908612 TTCTGGGTAAACTTCACAGTAATTTCT-GTTTTGTCTGTGCTTTCTCAA---TTTTttgtactcagtgagatctgaaatgccttttaagtgcctctaagattctgtaattctatTT
+q panTro2.chr6 999999999999999999999999999-999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16390179 112 - 174210431 TTCTGGGTAAACTTCACAGTAATTTCT-GTTTTGTCTGTGCTTTCTCGA---TTTTttgtactcagtgagatctgaaatgccttttaagtgcctctaagattctgtaattctatTT
+i ponAbe2.chr6 I 1 C 0
+s canFam2.chr1 78253665 106 - 125616256 -TTAGGGTGAAATTCATAGTAATTAAGACTTTTGCTTATACTTACCCAA---TTgtttggattcaatgac------agtgccttctaagtacctctaaggttttgtgattctctcT
+q canFam2.chr1 -999999999999999999999999999999999999999999999999---999999999999999999------9999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13043466 110 + 24938454 -GTAGGGTAAAATTGACAGTAATTGAT-CTTTTGTCCTTACTTTCCCAA---GT-TtttgattcgctgacatctgaagtaccttctaagtagctcaaagattgtgtgattctatTT
+q equCab1.chr31 -99999999999999999999999999-999999999999999999999---99-9999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13718185 110 - 95030419 -TTAGGGTAAAATTCACAGTGATTAGT-CTTTTGTTCATACTTTCCCAG---TT-TTGGGGGTCAATGAAATGTGAAGTACCTTCTCAGGACCCCTGGGTTTCCATGCTTCTGTTT
+q bosTau3.chr9 -99999999999999999999999999-999999999999999999999---99-9999999999999999999999999999999999999999999999999999799999999
+i bosTau3.chr9 C 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 112132 2107 - 219823 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e tupBel1.scaffold_114895.1-498454 386612 369 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 79190 705 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=176326.000000
+s mm9.chr10 3184569 76 + 129993255 TAATAACGGCTTTGTGATTAG-ACTTTTATACTCATTT-AGAAAGGTGC--GGAAGAAGAGCTTGTATAATCCTGTGTTG
+s cavPor2.scaffold_284118 79895 76 - 169015 taataattgttttgtaACTAGGACTTTCGT--TTACTG-AGCATAGCTCTTGGAAGAGGAATTTA-ATAATCTCATGCTA
+q cavPor2.scaffold_284118 663632254277762453435123134714--853114-33225666961689258899663999-99999997599886
+i cavPor2.scaffold_284118 I 705 C 0
+s calJac1.Contig1260 61158 76 - 523245 TAATAACTGTCTTATAGTTGG-ACCTTACTGCTGATTT-AAGAAGTTGT--TGGAGAATAATTTTTATAACCGTGGGTTA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108492726 76 + 167655696 TAATAACTGTCTTGTGGTTAG-ACTTTACTGCTCATTT-AAGAAGTTGC--TGGAGAAGAATTTTTATAATCCTGGGTTA
+q rheMac2.chr4 999999999999999999999-9999999999999999-9999999999--99999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16084797 76 - 170899992 TAATAACTGTCTTGTTGTTAG-ACCTTACTGTTGATTT-AAGAAGTTGT--TGGAGAAGAATTTTTATAATCCTGGGTTA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16608221 76 - 173908612 TAATAACTGTCTTGTTGTTAG-ACCTTACTGCTGATTT-AAGAAGTTGT--TGGAGAAGAATTTTTATAATCCTGGGTTA
+q panTro2.chr6 999999999999999999999-9999999999999999-9999999999--99999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16390291 76 - 174210431 TAATAACTGTCTTGTAATTAG-ACCTTACTGCTGATTT-AAGAAGTTGT--TGGAGAAGAATTCTTATAATCCTGGGTTA
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78253771 77 - 125616256 TAATAAGTG-TTTGTAATTAG-ACCCTACTGCTTTTTTCAGGAAGATGC-TTGGAGAGAAATTTTTATAATCTTGTGTTT
+q canFam2.chr1 999999999-99999999999-999999999999999999999999999-999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13043576 77 + 24938454 TAATCATTGTTTTGTAATGAG-ACCTTACTGCTTATTT-AGGAAGACGG-TTGGAGAGGAATTTTTATAATTCTCTGTTT
+q equCab1.chr31 999999999999999999999-9999999999999999-9999999999-999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13718295 72 - 95030419 TAATAGCTG-----TGATTAG-ACCTTACTCCTTATTT-AGGGGCAAGC-GTGGAGAGGAATTGTTATAGTCCCATGTTT
+q bosTau3.chr9 999999999-----9999999-9999999999999999-9999999999-999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 114239 59 - 219823 ------------------TAG-ACCCTACTGCTTATTT-AGGAAGATGC-TTGGAGAGGAATTTTTATAACTCCATGTTT
+q felCat3.scaffold_217398 ------------------999-9999999999999999-9999999799-999999999999999999999999999999
+i felCat3.scaffold_217398 I 2107 C 0
+e rn4.chr1 230001888 13 - 267910886 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e tupBel1.scaffold_114895.1-498454 386612 369 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=352897.000000
+s mm9.chr10 3184645 314 + 129993255 CAATGCCTCAAGTACCGGACCGGGCAGAACATGAAA-GAGCAAAACTCATGGCCCGCAGACCCTAGACTAATCCAGGCTTCTGTCTTCGCTCTGCGCTGA-GGAGA-----------------------AGCAAAG--GCAGAAT-CGATTCCCATGG-------------------------------CATCTC-CTTCATGCATGACTGTGGC--AGCTTACGGGCCTACTAGGGGCTTT-AATTTCTTCATCTGGGAAGCCAAGACAGAG-AGCTAGGAGACTCTCCCCCAGTCTTACCCTTTGTCACAGTTTCCTGCTACAGCTAGATCCATTG--------GTAGATGACAGACACTTGGTGGGCCAATGGTGGGATGACC
+s cavPor2.scaffold_284118 79971 318 - 169015 AAATCCTGTGTTTACCAG-----GTAGAATTCAAAA-GAG-GAGGCTTGTGAGCAATAGATCTTG-----ACTTGGATTCGTCTTTTGGTTCTGTATCCA-GGACAGAATTCTATCTTTTGGTCTCTTGAACAAAACAGCAGAACATCCTTCTCTTGG-------------------------------CATCT-------TGCCATACTGTGGCTGAGTT-----GTACATTAGGAGCCTT-AGTTTCT-CATCCATAAAAC-AGGGCAGAGTGGCTGGG----CTCCTTCTAATCTTGTCCTTTGTCACTACTGCCTGCT---GCTAGAGACACTGCC-CTGCCATAGATGATGGACTCTGGGCAG-CTGGTGCTGTGATAGCC
+q cavPor2.scaffold_284118 799996113654479859-----9999999987999-999-999869998999988999999899-----999999999999989999999999999999-999999999999999999999999999999999999999999999999999999999-------------------------------99999-------99999999999999999999-----9999999999999999-9999999-989997999999-99999999999999999----9999999999999999998999999999999999999---999999999999999-999989999999999999999999999-99999989988899997
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16390367 267 - 174210431 TAATCTCGTGTTTACGAG-------AAAATGCAGAA-GAGCGAGGC-TGTGTCCAACAGACCCCT-----GATGATGTG----------------------------------------------------------TGCATCAG-CCCTTCTCTTGG-------------------------------CATcttaccagctgtatgactgtggac-aggttatgtatcctccttgagcctt-aattctttcatc-----------aacaaaatagttaggaggctgTCCTTCAATCTTGTCCCTTGTCATGGTTGCCTGCTACAGATAGAT--ACTGCCTCCCCTGCAGACGATTGACTCTGAGTGTCCTGGTGCTGAGGTTGCA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16608297 267 - 173908612 TAATCTCGTGTTTGTGAG-------AAAATGCAGAA-GAGCGAGGC-TGTGTCCAACAGACCCTT-----GATGATGTG----------------------------------------------------------TGCATCAG-CCCTTCtcttgg-------------------------------catctgaccagctgtatgactgtggac-aggttatgtatcctccgtgagcctt-aattctttcatc-----------aacaaaatagttaggaggctgTCCTTCAATCTTGTCTCTTGTCATGGTTGCCTGCTACAGATAGAT--ACTGCCTCCCCGGCAGACGATTGACTCTGAGTGTCCTGGTGCTGAGGTTGCA
+q panTro2.chr6 999999999999999999-------99999999999-999999999-999999999999999999-----999999999----------------------------------------------------------99999999-999999999999-------------------------------999999999999999999999999999-9999999999999999999999999-999999999999-----------999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16084873 267 - 170899992 TAATCTCGTGTTTGCGAG-------AAAAtgcagaa-gagcgaggc-tgtgtccaacagaccctt-----gatgatggg----------------------------------------------------------tgcatcag-cccttctcttgg-------------------------------catctgaccagctgtatgactgtggac-aggttatgtatcctccgtgagcctt-aattctttcatc-----------aacaaaatagttaggaggctgTCCTTCAATCTTGTCCCTTGTCATGGTTGCCTGCTACAGATAGAT--ACTGCCTCCCCCGCAGACGATTGACTCTGAGTGTCCTGGTGCTGAGGTTGCA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108492802 293 + 167655696 TTATGTCATGTTTGCGAG-------AAAATGCAGAA-GAACGAGGC-TGTGTCCAACAGACCCTA-----ACTTGCATTTGACCTCTTTTCTT-------------------------------------------CTGCATCAG-CCCTTTTCTTGG-------------------------------CATCTGACCAGCTATATGACTGTGGAC-AGGTTATGTATCCTCGGTGAGCCTT-AATTCTTTCATCCACAAGATGGGAACAAAATAGTTAGGAGGCTGTCCTTCAATCTTGTCCCTTGGCATGGTTGCCTGCTACAGATAGAT--ACCGCCCCCCCTGCAGATGATTGATTCTGAGTGTCCTGGTGCTGAGGTTGCA
+q rheMac2.chr4 999999999999999999-------99999999999-999999999-999999999999999999-----99999999999999999999999-------------------------------------------999999999-999999999999-------------------------------999999999999999999999999999-9999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 61234 284 - 523245 TAATCTCGTGTTTGCGAG-------AAAATGCAGAA-GAGCGAGGCTTGTGTCCAACAGACCCTA-----ACTGGAATTTGACCTCTTTTCTT-------------------------------------------CTGCATCAG-TTCTTCTCTAGG-------------------------------CATctgaccagctacatgactgtggac-aggttatgtatcccctgtgagcctt-aattctttcatccgcaaaatgggaacaaaa----taGGAGGCTATCCTTCAGTCTTGTCCCTTGTCACGGTTGCCTGCTACAGATA-------TGCC-CCCGTGCAGATGACTGACTCTCGGTGTCCTGGTGTTTAGGTTGCA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 386981 341 - 498454 CCATCTGCTGGTCCCAGT-------ACAACACAAAA-GAGCGAGGCTTGTGTTTCCCTGACTTTG-----ATTCGAATCCGAGCTCTCTTCTTCTGTAGT-AAGCTGAAG-------------------AAAATGACTATACAAA-CTCTTCTGTTGGCTTCTGTGACCACGGATGGCCAGGTAGCCCCCATCTTACCAGCTGTGGGACTGGGGAT--GGTTATGTGTCCTCTCCAAGCCCT-AATTTCTTCATCTGTTAA-----ATGGAAGCATTTTGGAGGCTCTCCTTCTGTGTCAAGCCTCGTCAATGTTGCCAGCTGCAGGTGGAT--GCTGCC-TCTCTGTCGAGAACTGGCTTTGGGTGGTATGGCACTGATGCAGCC
+q tupBel1.scaffold_114895.1-498454 999999999999999999-------99999999999-9999999999999999999999999999-----999999999999999999999999999999-999999999-------------------9999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999-999999999999999999-----999999999999999909999999999999999999999999999999999999999999999999--999999-999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 369 C 0
+s canFam2.chr1 78253848 275 - 125616256 ------------CCCTGG-----GTAGAATGTGAAA-GATCAGAGCTTGTGCCAAAGAGGTCTTG-----ATTTGCATTTGAAGCCTTTTCTTCCATAGT-GAGCTAAAG-------------------AAGATGGCTATAAAaa-tccttctcttgg-------------------------------catcttaccagctgtgtgcctgtggac-aggttatgtagcccccatgcaccct-aatttagtcatctataaattgtgaagagagctgtcaggaggCTCTCCTTAGCTCTTGGCCCTCGTCACCGTTGCTGATTGTAGATAGAT--GCCACC-CCTCTGCAGATGGC-------------------------------
+q canFam2.chr1 ------------999999-----9999999999999-9999999999999999999999999999-----999999999999999999999999999999-999999999-------------------9999999999999999-999999999999-------------------------------999999999999999999999999999-9999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999-99999999999999-------------------------------
+i canFam2.chr1 C 0 I 36
+s felCat3.scaffold_217398 114298 293 - 219823 -------------CCTGG-----GGGGAATGTTGAA-GAGCAGAGCTTGTGTCAAATGGGCCTTG-----ATTTGAATTCCAGGCCTTTCCTTCTATAGCAAAGCTGAAG-------------------AAAATGACTACAGAAA-TCCTTCTCTTGG-------------------------------CATcttaccagccatgtggctgtggac-gggttttgtagctcccttatgccctaaagttagtcatctataaattgggaataGAGGTGTTAGGAGGCTCTCCTTAGGTCTTGGCGCT-------GTTGTTCACTGCAGATAGAT--ACTGCC-CATCTGCAGATGGC----CCTGGGGGGCAGGGTGCTGGGATG---
+q felCat3.scaffold_217398 -------------99999-----9999999999999-9999999999999999999999999999-----9999999999999899999999999999999999999999-------------------9999999999999999-999999999999-------------------------------999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999999999999999999--999999-99999999999999----999999999999999999999999---
+i felCat3.scaffold_217398 C 0 I 2
+s equCab1.chr31 13043653 271 + 24938454 ------------ACC-----------------------AGCAGG--------CAAACAGACCTTG-----ATTTGAATTCAAGTTCTTTTTTTCTTCATC-AAGCTGAAG-------------------AAAATGTCTATAAAaa-tccttctcttgg-------------------------------catcttcccagctatgtgactgtggat-ggcatgtgcagc-cacacgagccct-aatttagtcatctataaaatgggactaGAGTTGTACGGAGGCTCTCCTGGGCTCTTAGCCCTTGTCACTGTTGCTTGCTACAGTTGGAT--ACTGCC-CCTCTGCAGAT----GGCCCTGGGTATCGGGGTGCTGAGA-----
+q equCab1.chr31 ------------999-----------------------999999--------9999999999999-----999999999999999999999999999999-999999999-------------------9999999999999999-999999999999-------------------------------999999999999999999999999999-999999999999-999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999-99999999999----9999999999999999999999999-----
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13718367 251 - 95030419 -------------GCTGG-----GTAGAATGCAAAAGGATTGGGGCTTGTGTC-AACAAACCTTG-----ATTTGAATTTGAGCTCTTTTCTTCCATATT-GGGCTGAAG-------------------AAAATGGCTAACAAAA-TCGTCCTCTTGG-------------------------------CATGGtaccagctatgtcaccgtggac-aaggtacagaatctccatgagcctt-gatctagtcatccatgaaatgggaatggagttgtaagGAGGCTCTCCTTGTCTC-TAGAACT-GTCACTGTTGTGCCCTGCAGATAGA-------------------------------------------------------
+q bosTau3.chr9 -------------99999-----999999999999999999999999999999-99999999999-----999999999999999999999999999999-999999999-------------------9999999999999999-999999999999-------------------------------999999999999999999999999999-9999999999999999999999999-999999999999999999999999999999999999999999999999999999-9999999-9999999999999999999999999-------------------------------------------------------
+i bosTau3.chr9 C 0 I 39
+e rn4.chr1 230001888 13 - 267910886 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=339990.000000
+s mm9.chr10 3184959 131 + 129993255 -TTTTTG-ACCCCAGGTGGG-ACATCTGTCACATAACCTACGAGTGTTCTTAACGTCCACTGTCTGCCTACCTTATGTGCCACAGACAGCT-------CTCGAGG-------ATGTT-GAAGTGGA-TTGG----ATTTGCACCAGTGTCCCCA
+s rn4.chr1 230001901 130 - 267910886 -TTT--G-ACCCCAGTTGGG-GCATCTGCCTCAACACGTGCTGGTGCTCTTAACTTCTACTGTCTGACTAATTTGTGTGCCACAGACAGCA-------CTCAAGG-------ATGTTGGGAGTGGG-TTGG----GTTTGCACCAGTGTCTGCA
+q rn4.chr1 -999--9-999999999999-9999999999999999999999999999999999999999999999999999999999999999999999-------9999999-------99999999999999-9999----9999999999999999999
+i rn4.chr1 I 13 C 0
+s cavPor2.scaffold_284118 80289 104 - 169015 -TTA--G-TCTCCACCTG-------CTG-------ACCGTCTAGGCCTCTTAG-------------------TCACATGCCACAGGGACCA-------CTTGGGGCGTGAGACTGGT-GGAGTGGA-CTGG----GCTTTTATCAGTGTCTTCA
+q cavPor2.scaffold_284118 -899--9-9999999999-------989-------999999999899999999-------------------9889999999999999999-------9999857976999919976-99998998-9994----2345769998699999993
+i cavPor2.scaffold_284118 C 0 I 952
+s ponAbe2.chr6 16390634 138 - 174210431 -TTT--GCAGCCCAGGTAGG-GTGTCGGTCTCAACACCTGCCGACTTGCTTGGCCTCCACTGCCTGCCTGACTCGCATGCCACGAAGGCCACCTGTAGCTCAAGG-------CTGTC-GGAGCAGAGCTGG----TTTTATATCAATATCCCCA
+i ponAbe2.chr6 C 0 I 5
+s panTro2.chr6 16608564 138 - 173908612 -TTT--GCAGCCCAGGTAGG-GTGTTGGTCTCAACACCTGTCGACTTGCCTGGCCTCCACTGCCTGCCTGACTCGCGTGCCACGAAGGCCACCTGTAGCTCAAGG-------CTGTC-AGAGCGGAGCTGG----GTTTATATCAATATCCCCA
+q panTro2.chr6 -999--99999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999-9999999999999----9999999999999999999
+i panTro2.chr6 C 0 I 5
+s hg18.chr6 16085140 138 - 170899992 -TTT--GCAGCCCAGGTAGG-GTGTTGGTCTCAACACCTGTCGACTTGCCTGGCCTCCACTGCCTGCCTGACTCGCGTGCCACGAAGGCCACCTGTAGCTCAAGG-------CTGTC-AGAGCGGAGCTGG----GTTTATATCAGTATCCCCA
+i hg18.chr6 C 0 I 5
+s rheMac2.chr4 108493095 138 + 167655696 -TTT--GCAGCCCAGGTAGG-GTGTCGGTCTCAACACCTGCTGACTTGCCTGGCCTCCACTGCCTGCCCGACTCACATGCCATGAAGGCCACCTGTAGCTCAAGG-------CTGTC-AGAGCGGAGCTGG----GTTTATATCAATATTCCCA
+q rheMac2.chr4 -999--99999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999-9999999999999----9999999999999999999
+i rheMac2.chr4 C 0 I 5
+s calJac1.Contig1260 61518 136 - 523245 -TGT--GCAGCTCAGGTAGG---GTCAGTCTTAACACCTGCTGACTTACCTGGCCTCCCCTGCCTGCCTGACTCACATGCCATGAAGGCCACCTGTAGCTCAAGG-------CTGTC-AGAGTGGAGCTGG----GTTTACATCAATATCCTCA
+i calJac1.Contig1260 C 0 I 5
+s tupBel1.scaffold_114895.1-498454 387322 133 - 498454 -TCC--GTGACT--GGAGGA-GCATCAGTCTCAATACTTGCTGACCTGCCTAGCCTCTACTGCCTGCTGACCTCACATGCCACAGGGGCCA-CTGT-GCACAGGA-------CCATC-AGAATAGAGCTGG-----TTTATATCATTGTCCCCA
+q tupBel1.scaffold_114895.1-498454 -999--999999--999999-9999999999999999999999999999999999999999999999999999999999999999999999-9999-99999999-------99999-9999999999999-----999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 5
+s equCab1.chr31 13043924 139 + 24938454 CTCT--GCTGCCCAGGCAGA-GCATTCCCCTCAATACCTGCTGACTTCTGGGGCCTTAACTGCCCGCCCAACTCACATGCTATGCAGGCCACTTGCAGCTCAAGG-------CCATC-AAAGCAGAGCTGG----GTTTATATCAGTGTCCCCA
+q equCab1.chr31 9999--99999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999-9999999999999----9999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 114593 143 - 219823 GCCC--GGGGGCAGGGGGGC-ACATCGGTCTCCATACCTGCTGACTTGCGTGGCCTCCGCTGCCTGTCTGACTCACGTGCCACAATGGCCACTTGTGACCCAAGG-------CTGTC-AAAGTGGAGCTGGGTTTGTTTATGTCACTGTCCCTA
+q felCat3.scaffold_217398 9999--99999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999-999999999999999999999999999999999999
+i felCat3.scaffold_217398 I 2 C 0
+s canFam2.chr1 78254159 140 - 125616256 CCCT--GGGGCCAGGGTGGTGGCATCCATCTCCATACCTGCTGACTTGGGTAGCGTCCAGTGCCTGTCTGATTCACACACCCTGATGGCCACTTGTGGCTCATGG-------CCATC-AAAGTGGAGCTGG----ATTCATGTCAGTGTCTCTA
+q canFam2.chr1 9999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------99999-9999999999999----9999999999999999999
+i canFam2.chr1 I 36 C 0
+s bosTau3.chr9 13718657 109 - 95030419 ------------------------TGACCCTCGATACCTGCTGGCTGGTGTGGCCTCCACTACCTGCTCGACTCACATGCAGTGGAGGCC--------CCCGAGG-------CCATC-AAAGTGGAGGTGG----GTTTATAT-AGTTGCCACA
+q bosTau3.chr9 ------------------------999999999999999999999999999999999999999999999999999999999999999999--------9999999-------99999-9999999999999----99999999-9999999999
+i bosTau3.chr9 I 39 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=75273.000000
+s mm9.chr10 3185090 48 + 129993255 -----GCATCCATGCTGTGA-------TCTCTTGT-----------ATAGATGTCTGCTCAGGGAAGGTAG-
+s rn4.chr1 230002031 52 - 267910886 -----GCATCC-TGCTGTGACTAGGCCCCTCTTGT-----------ATAGATATCTGcttagttagggt---
+q rn4.chr1 -----999999-99999999999999999999999-----------99999999999999999999999---
+i rn4.chr1 C 0 I 1151
+s ponAbe2.chr6 16390777 55 - 174210431 -----ACTTGC-TG-TGTAA-------TGTCTAGCCCCTGGGCTAGACAGATGTCATTTCGGGGAGGAT---
+i ponAbe2.chr6 I 5 I 27
+s panTro2.chr6 16608707 55 - 173908612 -----ACTTGC-TG-CGTAA-------TGTCTAGCCCCTGGGCTAGACAGATGTCATTTCAGGGAGGAT---
+q panTro2.chr6 -----999999-99-99999-------999999999999999999999999999999999999999999---
+i panTro2.chr6 I 5 I 1038
+s hg18.chr6 16085283 55 - 170899992 -----ACTTGC-TG-CGTAA-------TGTCTAGCCCCTGGGCTAGACAGATGTCATTTCAGGGAGGAT---
+i hg18.chr6 I 5 I 1038
+s rheMac2.chr4 108493238 55 + 167655696 -----GCTTGC-TG-TGTAA-------TGTCTAGCCCCTGGGCTAGACAGATGTCATTTCAGGGAGGAT---
+q rheMac2.chr4 -----999999-99-99999-------999999999999999999999999999999999999999999---
+i rheMac2.chr4 I 5 I 985
+s calJac1.Contig1260 61659 54 - 523245 -----GCTTCC-TG-TGTAA--------ATGGAGCCCCTGGACTAGACAGATGTCATTTTAGGGAGGGT---
+i calJac1.Contig1260 I 5 I 955
+s tupBel1.scaffold_114895.1-498454 387460 31 - 498454 -----GCTTGT-TG-TGTGG--CAGTCTGTCTAGC---------------------------AGAGG-----
+q tupBel1.scaffold_114895.1-498454 -----999996-99-99898--9999999999999---------------------------97989-----
+i tupBel1.scaffold_114895.1-498454 I 5 I 1213
+s equCab1.chr31 13044063 60 + 24938454 ACCTCGGTTGC-TA-AGTGA---------CAGAGTTCCTCTGCGAGACAGATGTCAGTTCAGGGAGGAT-GG
+q equCab1.chr31 99999999999-99-99999---------9999999999999999999999999999999999999999-99
+i equCab1.chr31 C 0 I 930
+s felCat3.scaffold_217398 114736 60 - 219823 ACCTCGCTTGC-TG-TGTGA---------TGGAGCCCCTTGGCTAGATAGGTGTCACTTGAGGGAAGAC-GG
+q felCat3.scaffold_217398 99999999999-99-99999---------9999999999999999999999999999999999999999-99
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78254299 60 - 125616256 ATTTTGCTTGC-TG-TGTGA---------TGGAGCCTCTTGGCTAGATAGGTGTCACTTGAGGGAAGAT-GA
+q canFam2.chr1 99999999999-99-99999---------9999999999999999999999999999999999999999-99
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13718766 59 - 95030419 ACCTCGC-TGC-TG-TGTGA---------CAGAACCCCTCTGTTAGACAGATGTCTCTTCAGGGAGGGT-GG
+q bosTau3.chr9 9999999-999-99-99999---------9999999999999999999999999999999999999999-99
+i bosTau3.chr9 C 0 I 2861
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 80393 952 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-6334.000000
+s mm9.chr10 3185138 51 + 129993255 -AAGGTTTTGCC-----------AGTTTCCCTTTCTGTATCTCATGCCTTCtgtcttagttag
+s ponAbe2.chr6 16390859 33 - 174210431 -ATTTTTTTATT-----------ACTTCCTCTTCCTATATTTGAT------------------
+i ponAbe2.chr6 I 27 I 975
+s canFam2.chr1 78254359 19 - 125616256 GGGGGTTCC--------------AAATCACCTT------------------------------
+q canFam2.chr1 999999999--------------9999999999------------------------------
+i canFam2.chr1 C 0 I 862
+s felCat3.scaffold_217398 114796 62 - 219823 GTGGGTTCCAGCTGGTTACCAGAAAATAATTTTTTCTTACCTCCT-CTTCCTGTATTTGATAG
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999999-99999999999999999
+i felCat3.scaffold_217398 C 0 I 1094
+e rn4.chr1 230002083 1151 - 267910886 I
+e bosTau3.chr9 13718825 2861 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13044123 930 + 24938454 I
+e rheMac2.chr4 108493293 985 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 61713 955 - 523245 I
+e tupBel1.scaffold_114895.1-498454 387491 1213 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 80393 952 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16085338 1038 - 170899992 I
+e panTro2.chr6 16608762 1038 - 173908612 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3185189 60 + 129993255 ggttgtactgctgtgaatagatatcatgacctaggtaactcttataaggacaacatttaa
+e rn4.chr1 230002083 1151 - 267910886 I
+e bosTau3.chr9 13718825 2861 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e equCab1.chr31 13044123 930 + 24938454 I
+e rheMac2.chr4 108493293 985 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 5773 3344 + 27231 I
+e felCat3.scaffold_217398 114858 1094 - 219823 I
+e canFam2.chr1 78254378 862 - 125616256 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e loxAfr1.scaffold_4233 57864 346 + 124190 I
+e calJac1.Contig1260 61713 955 - 523245 I
+e tupBel1.scaffold_114895.1-498454 387491 1213 - 498454 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e cavPor2.scaffold_284118 80393 952 - 169015 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16085338 1038 - 170899992 I
+e panTro2.chr6 16608762 1038 - 173908612 I
+e ponAbe2.chr6 16390892 975 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-1343.000000
+s mm9.chr10 3185249 29 + 129993255 GGTCCCGTGACCTCTAACTGGGC--------------TCCGTC
+s rn4.chr1 230003234 28 - 267910886 -GTCCTGTGACTTCTGACTGGGT--------------TCTGTC
+q rn4.chr1 -9999999999999999999999--------------999999
+i rn4.chr1 I 1151 C 0
+s tupBel1.scaffold_114895.1-498454 388704 41 - 498454 --TTCTATGATTTCCAATTGGAAAGGAAGGAAGTGCCCTTATC
+q tupBel1.scaffold_114895.1-498454 --99999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 1213 C 0
+s calJac1.Contig1260 62668 39 - 523245 --tcttttgacttctgactggaaaggaagaaagag--cttctc
+i calJac1.Contig1260 I 955 I 3
+s bosTau3.chr9 13721686 36 - 95030419 -------tgacttctaattggaaaagaagagagagactttgtt
+q bosTau3.chr9 -------999999999999999999999999999999999999
+i bosTau3.chr9 I 2861 C 0
+s equCab1.chr31 13045053 40 + 24938454 ---CTTATGACTTCTGATTGGAAAGGAAGAAAGAGCCTGTGTC
+q equCab1.chr31 ---9999999999999999999999999999999999999999
+i equCab1.chr31 I 930 C 0
+s felCat3.scaffold_217398 115952 36 - 219823 ---CTTATGACTTCCAGCTGGAAAGGAAGAA----CTTCTCTC
+q felCat3.scaffold_217398 ---9999999999999999999999999999----99999999
+i felCat3.scaffold_217398 I 1094 C 0
+s canFam2.chr1 78255240 39 - 125616256 gtccttatggcttccaactggaaaggaagaa----cctctatc
+q canFam2.chr1 9999999999999999999999999999999----99999999
+i canFam2.chr1 I 862 C 0
+s loxAfr1.scaffold_4233 58210 7 + 124190 ------------------------------------ctcagtc
+q loxAfr1.scaffold_4233 ------------------------------------9999999
+i loxAfr1.scaffold_4233 I 346 C 0
+s dasNov1.scaffold_13068 9117 7 + 27231 ------------------------------------ctctgtt
+q dasNov1.scaffold_13068 ------------------------------------9999999
+i dasNov1.scaffold_13068 I 3344 C 0
+s cavPor2.scaffold_284118 81345 6 - 169015 -------------------------------------tcTGTC
+q cavPor2.scaffold_284118 -------------------------------------999999
+i cavPor2.scaffold_284118 I 952 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e rheMac2.chr4 108493293 985 + 167655696 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e otoGar1.scaffold_85253.1-5280 1606 2523 - 5280 I
+e hg18.chr6 16085338 1038 - 170899992 I
+e panTro2.chr6 16608762 1038 - 173908612 I
+e ponAbe2.chr6 16390892 975 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=570043.000000
+s mm9.chr10 3185278 125 + 129993255 TTCTCGTATTTGCATATCATATATCAAGGAAGATCATGATTGGCTTTGCCTAAGTCACGTG----ATTGTCTCC--------AACT--CTGGCAC-TGGAGCATTGTTG---CCGGGCTGGCTGTGTATCAGTCACAGTTGC-A
+s rn4.chr1 230003262 113 - 267910886 TTCTCGTATCTGCATATCATGTATCAAGGAAGATCATGATTGGCTCGGCTTAAGTCACTTG----ATTGTT----------------------AC-TGGGGTATTGTTG---CCAGGCAGGCTATGTATCAGTCACAGTTGC-C
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999----999999----------------------99-9999999999999---999999999999999999999999999999-9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 81351 140 - 169015 TTCTTGAATCCACATATCAAATAGCAAGGAagatttttattggttctatccAAGTCACATG----GCTGCCCCCGAAGTCATGACTGGCTGGTATATGGAGTACTGTGGAGTACAGCTTGGCCATGTGTACTTGGCCATGGCAA
+q cavPor2.scaffold_284118 9999999999999999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 62710 136 - 523245 -tcttgtgtccacatatcaaatatcaaggaagattttaattggttctacttgagtcacacg----tccatccctaaacctatgattgGCTGGTGTATAGACCACTGCGG---GAAACCTGGCCACTTGCCAACCACTGTGGCAA
+i calJac1.Contig1260 I 3 C 0
+s rheMac2.chr4 108494278 137 + 167655696 TTCTTGTGGCCATATATCAAATATCAAGGAAGATTTTGATTGGTTCTGCTTGAGTCACACG----TCCATCCCTAAACCTATGACTGGCTGGTGTATAGAGCCCTACAG---GAGACCTGGCCATGTGCCACCCACTGTGGCAA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999---99999999999999999999999999999999
+i rheMac2.chr4 I 985 C 0
+s ponAbe2.chr6 16391867 137 - 174210431 ttcttgtgtccatatatcacatatcaaggaagattttgatttgttctgcttgagtcacatg----tctatccctaaacctatgactgGCTGGTGTATAGAGCACTATGG---GAGACCTGGCCATGTGCCACCCACTGTGGCAA
+i ponAbe2.chr6 I 975 C 0
+s panTro2.chr6 16609800 137 - 173908612 ttcttgtgtccatatatcaaatatcaaggaagattctgattggttctgcttgagtcacatg----tccatccctaaacctatgactgGCTGGTGTATAGAGCACTACGG---GAGACCTGGCCATGTGCCACCCACTGTGGCAA
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999---99999999999999999999999999999999
+i panTro2.chr6 I 1038 C 0
+s hg18.chr6 16086376 137 - 170899992 ttcttgtgtccatatatcaaatatcaaggaagattctgattggttctgcttgagtcacatg----tccatccctaaacctgtgactgGCTGGTGTATAGAGCACTACGG---GAGACCTGGCCATGTGCCACCCACTGTGGCAA
+i hg18.chr6 I 1038 C 0
+s otoGar1.scaffold_85253.1-5280 4129 122 - 5280 ---------------ACCATACATCAAAGAAGATTTTGATTGGTTCTGCTTGAGTCACATG----ATCATAGCTAAACCCATGACTGGCTGTTGTATAGAGCTTTGTGA---GCTGCCTGGTCATGAACCAATCACTGTAGCAA
+q otoGar1.scaffold_85253.1-5280 ---------------9999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999---99999999999999999999999999997899
+i otoGar1.scaffold_85253.1-5280 I 2523 C 0
+s tupBel1.scaffold_114895.1-498454 388745 135 - 498454 TGCCTGTATGCATATATGAGATATCAAGGAAGAGTTTGATTGGTTGTGCTTGACTCACATT----GTCATCACTGAACCCATGACTGGCTGT--CATAGAGTACCCTGG---CCAGAATGGCTATCGGTCAACCACTGTGGCAA
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999990999999999999999----999999999999999999999999999--999999999999999---99999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13721722 121 - 95030419 ttcgtttgttcacatatcaaatctcaggggagattttgattggttctgcttgaatcacatg----ttcatccctgaacctattactgtctggtggatagaatagtgtga-------------------CCAATCACTGTGGCAG
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999-------------------9999999999999999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78255279 97 - 125616256 ttcctgtg---------------tcagggacgattttgattggttctgcttgg-------------tcatccttgaacctataactggccggcgggtcgaatattgtgg-------------------ccagCGACTGTGGCAA
+q canFam2.chr1 99999999---------------999999999999999999999999999999-------------9999999999999999999999999999999999999999999-------------------9999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13045093 121 + 24938454 GTCCTGTGTCCAAATATCAGATATCAGGGAAGATTTTGATTGGTTCTGCCTGAGTCACATG----CTCATTCTTGAACCTATAATTGGCTGGTGGATAGAGTATTGTGG-------------------CCAACCACTGTGGCAA
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999-------------------9999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 115988 112 - 219823 TTCCTGTGTCCATATATCAAGTATCAAGGAAGATTTTGATTGGTTTTGCTTGG-------------TCATCCTTGAACCTGTAACTGGCTGGTGGGTAGAATGTTGTGG-------------------CCAACCGCTGTGGCAA
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999999999-------------9999999999999999999999999999999999999999999-------------------9979999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_13068 9124 114 + 27231 ttcttgtgtacatgtatcagatatcaaggaggattctgattggtcctacctgagtcttcca----gccattcttgaacccatcgctgcctggtggatcgagtgctAAGA-------------------------GCTGTGGCA-
+q dasNov1.scaffold_13068 9999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999-------------------------999999999-
+i dasNov1.scaffold_13068 C 0 I 1
+s loxAfr1.scaffold_4233 58217 118 + 124190 ttcctgtgtctgtgtatcaaataccaaggaaggttttgattgttcatgcttgaatcaatcacatggccatcgctgggcctataagtggctggcggatggagtgccatct-------------------------actgtggca-
+q loxAfr1.scaffold_4233 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------------------999999999-
+i loxAfr1.scaffold_4233 C 0 I 1
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e echTel1.scaffold_324002 30283 2471 + 49972 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=848241.000000
+s mm9.chr10 3185403 212 + 129993255 AGCACCTTGATTGGTAGGCCTACTGGGA-----------------GAGGAGTG---CTGTCCCCAGAGAAGGGTTGCTTAGCAAACAGA---TAGCATGCATTTAATACAGAT-ATCAACG-GTT-CAAATCCTC-GGGGGTTGGTGTTTATCCCTTTAGTTGACAGGAAATGCGAAG-TGTCTGTCAGAAAGCCATGCTGCACTGGA-TCCATTTGAG------AGTTTGCAGTGC------------------CCA-CC--------------------------------GGGAA
+s rn4.chr1 230003375 225 - 267910886 AGCATCTTGACTGGCAGGCCTATTGGGA-----------------GAGGAGT----------------------TGGTTAGAAAACAGA---TAGCTTGTATTTAATACAGAT-ATAAATG-TTT-CAAGTCTGT-GGGGGTTGCTGTTTACCCTTTTTGTTGTCCGGAAATGGGAAG-TGTCTATCCTAAAGCCATGCTGGGCTGGA-TCCACTTGAG------AATTTGCAGTGC------------------CCA-TGTCCAACCTGTTCGAGATAAGATGTCGCAGGGAAGGGA
+q rn4.chr1 9999999999999999999999999999-----------------9999999----------------------999999999999999---999999999999999999999-9999999-999-999999999-999999999999999999999999999999999999999999-99999999999999999999999999999-9999999999------999999999999------------------999-999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 81491 204 - 169015 AGCATCTTGATTTGCAAGCC-ACTGGGA-----------------GAGGGACA---GTGTCCCAAATGAGGACTTGATTAGCAAACAAA---GCACATGTGTCT------GGT-ACTAGCA-TTT-CAAACCAGCTGAGGGTTAGTATTTATTCCTTTAGTTTATAGGGATTGAGAAG-GTACCATCAAATAGTT--------CTGGG-CCCATTTGAATGTAGTATTTTGCACTGA------------------ACA-TT--------------------------------TGAAA
+q cavPor2.scaffold_284118 99999999999999999999-9999999-----------------99999999---999999999999999999999999999999999---999999999999------999-9999999-999-9999999999999999999999999999999999999999999999999999-9999999999999999--------99999-9999999999999999999999999999------------------999-99--------------------------------99999
+i cavPor2.scaffold_284118 C 0 I 76
+s calJac1.Contig1260 62846 214 - 523245 AGCGTCTTGACTGGCAAACTCTCTGGGATTCCATAGGGTGG----GAGGGATG---ATGTCCCAAAAGGATG------TAGCGAACAGA---CAGCATGT--CTGGTCCAGATAATTTGTA-TTT-TAAATTAGCAGGGGTTTGGTGTTTATTCCTTTAGTTATCAGGGAATGAGAAGGTGACTATCATAAAATCATG-----CTGGC-TC-ATTTGAG------AATGTTAAGCTG------------------CAC-TC--------------------------------GAAAA
+i calJac1.Contig1260 C 0 I 23
+s rheMac2.chr4 108494415 220 + 167655696 GGCGTCTTGAGTGGCAAGCTCCCTGGGATTACATGGGATGG----GAGGGATG---ATGTCCCAAAAGAAGGGTTGCTTAGCAAACAGA---CAACATGT--CTGGTCTAGATAATTAGAG-TTT-TAAGTCAGCAGGGGTTTGGCGTTTATTCCTTTAGTTTACAGGGAATGAAAAGGTAACTATCATAAAAGTCTG-----CTGGA-TC-ACTTGAG------AATGTTAAGCTG------------------CAC-TT--------------------------------GAAAA
+q rheMac2.chr4 99999999999999999999999999999999999999999----99999999---999999999999999999999999999999999---99999999--9999999999999999999-999-999999999999999999999999999999999999999999999999999999999999999999999999-----99999-99-9999999------999999999999------------------999-99--------------------------------99999
+i rheMac2.chr4 C 0 I 22
+s ponAbe2.chr6 16392004 220 - 174210431 AGCGTCTTGACTGGCAAGCTCCTTGGGATTACGTGGGATGG----GAGGGATG---ATGTCCCAAAAGAAGGGTTGCTTAGCAAACAGA---CAACATGT--CTGGTCTAGATAATTAGTG-TTT-GAAGTCAACAGGGGTTTGGTGTTTATTCCTTTAGTTTACAGGGAATGAGAAGGTAACTATCATAAAATTCTG-----TTGGA-TC-ACTTGAG------AATGTTAAGCTG------------------CCC-TT--------------------------------GAAAA
+i ponAbe2.chr6 C 0 I 22
+s panTro2.chr6 16609937 220 - 173908612 GGCATCTTGACTGGCAAGCTCCCTGGGATTACGTGGGATGG----GAGGGATG---ATGTCCCAAAAGAAGGGTTGCTTAGCAAACAGA---CAACATGT--CTGGTCTAGATAATTAGCG-TTT-TAAGTCAACAGGGGTTTGGTGTTTATTCCTTTAGTTTACAGGGAATGAGAAGGTAACTATCATAAAATTCTG-----TTGGA-TC-ACTTGAG------AATGTTAAGCTG------------------CCC-TT--------------------------------GAAAA
+q panTro2.chr6 99999999999999999999999999999999999999999----99999999---999999999999999999999999999999999---99999999--9999999999999999999-999-999999999999999999999999999999999999999999999999999999999999999999999999-----99999-99-9999999------999999999999------------------999-99--------------------------------99999
+i panTro2.chr6 C 0 I 22
+s hg18.chr6 16086513 220 - 170899992 GGCGTCTTGACTGGCAAGCTCCCTGGGATTACGTGGGATGG----GAGGGATG---ATGTCCCAAAAGAAGGGTTGCTTAGCAAACAGA---CAGCATGT--CTGGTCTAGATAATTAGCA-TTT-TAAGTCAACAGGGGTTTGGTGTTTATTCCTTTAGTTTACAGGGAATGAGAAGGTAACTATCATAAAATTCTG-----TTGGA-TC-ACTTGAG------AATGTTAAGCTG------------------CCC-TT--------------------------------GAAAA
+i hg18.chr6 C 0 I 22
+s otoGar1.scaffold_85253.1-5280 4251 202 - 5280 AGCAACTTGATTGGCAGGTCCC------GTACCTGGGGTGG----AAGGGGTG---ATTTCCCAAAGAAAGCACTGTTT-----------------GCAT--CTAGTACAGCTAACTAGCATTTT-TCAGCCAGCTGGGGGTTAGTGTTGATTTCCTTAGTTTATGGGGAGTGAG-AGATAACTATCATTGACTTGTG-----CTGGATTC-ATTTGAG------AGTTTTTAGCTG------------------GATGTT--------------------------------TAAAA
+q otoGar1.scaffold_85253.1-5280 9999999999999999999999------9999999999999----99999999---99999999999999999999999-----------------9999--99999999999999999999999-9999999999999999999999999999999999999999999999999-9999999999999999999999-----99999999-9999999------999999999999------------------999999--------------------------------99999
+i otoGar1.scaffold_85253.1-5280 C 0 I 28
+s tupBel1.scaffold_114895.1-498454 388880 211 - 498454 ATCATCTCGATTGGCAAGTTCACTGGAA-----------------GAGGGATG---GTGTCCCAAAGGGTAGGTTGCTTAGCAAACAGA---CAACATATGGCTGGTACAGATAACTACTG-TTT-CAAATCAGCAGGGGTTCAGTGTTTATTCTTTGAGTTTACAGGGAATGGGAAGTTAACTCTCATACAATTGTG-----CTGAA-TCTATTTGAG------AGTTTTGAGCTA------------------TAGATT--------------------------------TTCAG
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999-----------------99999999---999999999999999999999999999999999---99999999999999999999999999999-999-999999999999999999999999999999999999999999999999999999999999999999999999-----99999-9999999999------999999999999------------------999999--------------------------------99999
+i tupBel1.scaffold_114895.1-498454 C 0 I 28
+s bosTau3.chr9 13721843 252 - 95030419 AGCATCTTCATTGGCATGTCCACTGGAATCACATGGGCTGG--GAGAGGGCTG---ATGTTCCAGAGAAAGA-CTGCTTAGCCAACAGACAAATGTATGT--GTAGCACAGATAACTAGCT-TTT-CAAACCACCAGGGG-TTAGTGTTTATTCTTCTAGCTAAAAGGGAATGGAAAGATAACTGTC--AAAATTGTG-------GGA-TCCATCTGGA------AAT-TTAAGCTGTGATTTAAATTTAAAATTTAGATTTAAAACTTGTTTAAG------------------AAGA
+q bosTau3.chr9 99999999999999999999999999999999999999999--9999999999---9999999999999999-999999999999999999999999999--9999999999999999999-999-99999999999999-9999999999999999999999999999999999999999999999--999999999-------999-9999999999------999-99999999999999999999999999999999999999999999999------------------9999
+i bosTau3.chr9 C 0 I 15
+s canFam2.chr1 78255376 242 - 125616256 AGCATCTTGATTGCCAAGTCCACTGGGAGCACATGGGCTGG--GACAGGGATG---ATGTCCCAAAGGAAGA-CTGCTTAGCAAAGAG----ACATATGT--CTAGTATGCATAACTTGCA-TTTCCAAGTCGGCAAGGGTTTAGTGTTTATTATTTTAGTTGAAAGGGAATGGAAAGGTAACCATCATAAAATTGTG-----CTAAA-TCCATTTGAA------AATGTTAAGCTG------------------TACATTGCAGACCTGTTTGAGATGA-------------CAAGA
+q canFam2.chr1 99999999999999999999999999999999999999999--9999999999---9999999999999999-999999999999999----99999999--9999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999-----99999-9999999999------999999999999------------------9999999999999999999999999-------------99999
+i canFam2.chr1 C 0 I 17
+s equCab1.chr31 13045214 243 + 24938454 ATCATCTTGATTGGCAGGCCCACTGGGAGCACATGGGCTGG--AAGAGGGATG---GTGTCCCAAAGGCAGAGTTGCTTAGCAAATAGTC--AAACATGT--CTAGTACAGATAACTAGCA-TTT-CAAGTCAGCAGGGG-TTAGTGTTTATTTTTGTAGTTGAAAGAGAATGGGAAAGTAACTGTCATAAAACTCTG-----CTGGA-TTTATTTGGA------AATTTTAAACTG------------------CCCATTTAAAATCTGTTTGAGGTGA-------------GAAGA
+q equCab1.chr31 99999999999999999999999999999999999999999--9999999999---9999999999999999999999999999999999--99999999--9999999999999999999-999-99999999999999-999999999999999999999999999999999999999999999999999999999-----99999-9999999999------999999999999------------------9999999999999999999999999-------------99999
+i equCab1.chr31 C 0 I 17
+s felCat3.scaffold_217398 116100 235 - 219823 AGCATCTTGATTGGCAAGTTCA-TGGGATCACGTGGGCTGG--GAGACAGATGGACAGTCTCCAAAGGAAGA-CTGCTTAACAA------------ATAT--CTAGTCCACATAACTCGCA-TTTCCAAGTCAGCAAGGGTTTAGTGTTTATTCTTTTAGTTGAGAGGGAATGGGAAGGTAACCGTCGTAAAATTGTG-----CCGAA-TCCATTTGAA------AAT-TTAAGCTG------------------CACGTTGCAAATCTGTTTGAGATGA-------------GAAAA
+q felCat3.scaffold_217398 9998999999999999999999-999999999999999999--99999999999999999999999999999-99999999999------------9999--9999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999-----99999-9999999999------999-99999999------------------9999999999999999999999999-------------99999
+i felCat3.scaffold_217398 C 0 I 17
+s dasNov1.scaffold_13068 9239 237 + 27231 AGCATCTTGATTGGCTAACCCACTGGGACCATGTGGGGTAGGAGACAGGGGTG---GTATCCCAAAGG-AGGGTTGCTTAGCAAACAAG---CAGCGTATGTCTAATAGAGAT----AACA-TTT-CAAATCAGCAGGGGATTGGTATTTATTCCTTTAGTTGAAAGGGAATGGAAAGGTAACTATTATAAAATTGTT-----CTGCA-TCCATCTGAG------AACTTTGAGCTGC-----------------CCA-CTGAAAACCTGTTTGA------------------GATAA
+q dasNov1.scaffold_13068 99999999999999999999999999999999999999999999999999999---999999999999-99999999999999999999---999999999999999999999----9999-999-979999799999999799999999999999999999999999997999999999999999999999999999-----97996-9996997997------9999999999799-----------------999-9999999997999999------------------99999
+i dasNov1.scaffold_13068 I 1 C 0
+s loxAfr1.scaffold_4233 58336 236 + 124190 agcACCTTGACTGACAAA-CTACTGGGATCACATGG-------GAGAGCAATA---ATGTCCCAAAGGAAGGATTGCTTAGCAAACAAA---CAACATATGTCAAGTATCTATAACCAACA-TTT-CAAATCAGCAGGGATTTAGTGTTTATGATGTTAGTTTATAGGGAACTG-AAGATAACTATTATAAAATTATA-----CAGCA-TTCATTTGAG------AATTTTGAGCTGTGCATTGAAAAC------CTG-CTTGAGAT--------------------------GAGAA
+q loxAfr1.scaffold_4233 999999999999999999-99999999999999999-------9999999999---999999999999999999999999999999999---99999999999999999999999999999-999-999999999999999999999999999999999999999999999999-99999999999999999999999-----99999-9999999999------999999999999999999999999------999-99999999--------------------------99999
+i loxAfr1.scaffold_4233 I 1 C 0
+s echTel1.scaffold_324002 32754 207 + 49972 AGCATCTCACTCAATGAATCCACTGGGATCATATGG-------AAGAGGGATA---ATGTCCCAAAGGAAGTGTTGCTTAGCAAACAAA---CAACAAATGTTGACTATTTAT-GCTAGCA-TTT-CATAACAGCAGGGATTTAGTATTTATTACATTATTTTGTAGGGGATGG-AATGTAATAATTATAAAACTGTA-----CTGTA-TTCAT-----------------------------------------CTG-TTTGAGAT--------------------------AAGAA
+q echTel1.scaffold_324002 999999999999999999999999999999999999-------9999999999---999999999999999999999999999999999---999999999999999999999-9999999-999-999999999999999999999999999999999999999999999999-99999999997999999999999-----99999-99999-----------------------------------------999-99999999--------------------------99999
+i echTel1.scaffold_324002 I 2471 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=56024.000000
+s mm9.chr10 3185615 19 + 129993255 --------------GGGGTCCTTCAGGTGGGAC
+s echTel1.scaffold_324002 32961 20 + 49972 ACTGTCACTCCAA-------------GTAGAAT
+q echTel1.scaffold_324002 9889999999999-------------9999999
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 58572 33 + 124190 GCTGTCACTCAGAAGGTGTCCATAGGGTGGAAT
+q loxAfr1.scaffold_4233 999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 9476 20 + 27231 GAAGTCACTTAAAAGGTGTC-------------
+q dasNov1.scaffold_13068 99999999999999997999-------------
+i dasNov1.scaffold_13068 C 0 I 33
+s felCat3.scaffold_217398 116352 19 - 219823 --------------AGTGTCCCTTGGGTGGGGT
+q felCat3.scaffold_217398 --------------9999999999999999999
+i felCat3.scaffold_217398 I 17 C 0
+s equCab1.chr31 13045474 19 + 24938454 --------------GATGTCCCTCAGGTGGGAT
+q equCab1.chr31 --------------9999999999999999999
+i equCab1.chr31 I 17 C 0
+s canFam2.chr1 78255635 19 - 125616256 --------------AGTGTCCATCAGGTGGGAT
+q canFam2.chr1 --------------9999999999999999999
+i canFam2.chr1 I 17 C 0
+s tupBel1.scaffold_114895.1-498454 389119 19 - 498454 --------------GGTGTCCATCAGGGGGAGT
+q tupBel1.scaffold_114895.1-498454 --------------9999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 28 C 0
+s otoGar1.scaffold_85253.1-5280 4481 19 - 5280 --------------GGGGCCCATCAAGTGGAAT
+q otoGar1.scaffold_85253.1-5280 --------------9998899899999989999
+i otoGar1.scaffold_85253.1-5280 I 28 C 0
+s hg18.chr6 16086755 19 - 170899992 --------------AGTGCCCATCAGGTGCAAT
+i hg18.chr6 I 22 C 0
+s panTro2.chr6 16610179 19 - 173908612 --------------AGTGCCCATCAGGTGCAAT
+q panTro2.chr6 --------------9999999999999999999
+i panTro2.chr6 I 22 C 0
+s ponAbe2.chr6 16392246 19 - 174210431 --------------AGTGCCCATCAGGTGCAAT
+i ponAbe2.chr6 I 22 C 0
+s rheMac2.chr4 108494657 19 + 167655696 --------------GGTGCCCATTAGGTGGAGT
+q rheMac2.chr4 --------------9999999999999999999
+i rheMac2.chr4 I 22 C 0
+s calJac1.Contig1260 63083 19 - 523245 --------------GGTGCCCATTGGGTGGAAT
+i calJac1.Contig1260 I 23 C 0
+s rn4.chr1 230003600 19 - 267910886 --------------GGGGCCCGTCGGTCGGAAC
+q rn4.chr1 --------------9999999999999999999
+i rn4.chr1 C 0 C 0
+e bosTau3.chr9 13722095 15 - 95030419 I
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e cavPor2.scaffold_284118 81695 76 - 169015 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-12217.000000
+s mm9.chr10 3185634 7 + 129993255 A------------------------------CGT-GTC
+s rn4.chr1 230003619 7 - 267910886 A------------------------------CAT-GTC
+q rn4.chr1 9------------------------------999-999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 63102 37 - 523245 ATGCCTCACATACATAATCAGATAGTGGCAGCAT-AAT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108494676 37 + 167655696 AGGCCTCACATGGATAATCAGATAGTAGCATCAC-AAT
+q rheMac2.chr4 9999999999999999999999999999999999-999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16392265 37 - 174210431 AGGCTTCACATAGATAACCAGATAGTGGCATCAT-AAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16610198 37 - 173908612 AGGCCTCACATAGTTAACCAGATAGTGGCATCAT-AAT
+q panTro2.chr6 9999999999999999999999999999999999-999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16086774 37 - 170899992 AGGCCTCACATAGATAACCAGATAGTGGCATCAT-AAT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4500 37 - 5280 ATGCATTTTATAGGTAACCAAATAGTGGGAGCAT-GAT
+q otoGar1.scaffold_85253.1-5280 9999999999999999999999999999999999-999
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389138 37 - 498454 ATGCCTTGTCTGGATAATCGTGTAGCGGCAGCGT-AAT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999998986586-999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13722110 31 - 95030419 -----TTGTGTGGACCATCAAATAG-TGGAGCGT-AAC
+q bosTau3.chr9 -----99999999999999999999-99999999-999
+i bosTau3.chr9 I 15 C 0
+s canFam2.chr1 78255654 38 - 125616256 ATACATCGTATAGACAGTCAAATAGTTGGAACATAATT
+q canFam2.chr1 99999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13045493 36 + 24938454 ACACGTTGTATAGACAATCAAGTAG-TGGAGCGT-AGT
+q equCab1.chr31 9999999999999999999999999-99999999-999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 116371 37 - 219823 ATACATTGTGTAGACAGTCAGATAGTTGGGGCAT-ATC
+q felCat3.scaffold_217398 9999999999999999999999999999999999-999
+i felCat3.scaffold_217398 C 0 C 0
+s loxAfr1.scaffold_4233 58605 7 + 124190 ACACATC-------------------------------
+q loxAfr1.scaffold_4233 9999999-------------------------------
+i loxAfr1.scaffold_4233 C 0 I 644
+s echTel1.scaffold_324002 32981 7 + 49972 CCACATC-------------------------------
+q echTel1.scaffold_324002 9999999-------------------------------
+i echTel1.scaffold_324002 C 0 I 29
+s danRer5.chr21 16456315 7 + 46057314 ----------------------aagtggc---------
+i danRer5.chr21 N 0 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e sorAra1.scaffold_256646 41933 56504 - 121936 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e dasNov1.scaffold_13068 9496 33 + 27231 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e cavPor2.scaffold_284118 81695 76 - 169015 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-86678.000000
+s mm9.chr10 3185641 49 + 129993255 CA----ACGATTGCTAAGACTGATTTAG-GTGTGGG---------CAA------------TGCTTGGGGCG--------CT-GT
+s rn4.chr1 230003626 36 - 267910886 CG----ACAGTTGCTAAGGCTGATTTAA-----------------------------------CGTGGGCT--------CT-GG
+q rn4.chr1 99----9999999999999999999999-----------------------------------99999999--------99-99
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 63139 50 - 523245 TG----GTGATTGCTGAGATTGATGTGACTTGTGGG---------CGG------------TGTG--GGGGG------TAAA-GG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108494713 52 + 167655696 TG----GTGATTGCTGAGATTGATGTGACATGCGGG---------CAG------------TTTGGTGGGGG------TAAA-GG
+q rheMac2.chr4 99----999999999999999999999999999999---------999------------99999999999------9999-99
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16392302 52 - 174210431 TG----GTGATTGCTGAGATTGATGTGACATGTGGG---------CAG------------TTTGCGGGGGG------TAAA-GG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16610235 58 - 173908612 TG----TTGGTTGCTGAGATTGATGTGACATGTGGG---------CAG------------TTTGCGGGGGGGCGGCGTAAA-GG
+q panTro2.chr6 99----999999999999999999999999999999---------999------------999999999999999999999-99
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16086811 56 - 170899992 TG----TTGATTGCTGAGATTGATGTGACATGTGGG---------CAG------------TTTGCAGGGGG--TGGGTAAA-GG
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4537 53 - 5280 GGATGAGTGATTGCTGAGATTGATTTCA-GTGTGGG---------CAA------------TTTTCTGGCTG--------AA-GG
+q otoGar1.scaffold_85253.1-5280 9999999999999999999999999999-9999999---------999------------99999999999--------99-99
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389175 49 - 498454 TG----GTGATTGCTGAGATTTGTCT-ACATGTGGG---------CAA------------TCTTCTGGGTG--------AA-GG
+q tupBel1.scaffold_114895.1-498454 99----97989999999996999999-999999999---------999------------99999999799--------99-98
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13722141 49 - 95030419 CG----GTGATTCCTGAGGTTGATTTAA-ATGTGGG---------CAT------------TTT--------TTGGAGTAAG-GG
+q bosTau3.chr9 99----9999999999999999999999-9999999---------999------------999--------9999999999-99
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78255692 50 - 125616256 GG----GAGATTCCTGAAGTTCATGTAA-ATGTGGG---------CAG------------TGT--------TTTGAGTAAAGGA
+q canFam2.chr1 99----9999999999999999999999-9999999---------999------------999--------9999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13045529 49 + 24938454 TG----GTGATTCCTGAGGTTGATTTAA-ATGTGAG---------CAA------------TTT--------TTCGAATAAA-GA
+q equCab1.chr31 99----9999999999999999999999-9999999---------999------------999--------9999999999-99
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 116408 50 - 219823 TG----GCGATTCCTGAAGTTCATTTAA-ACGTGGG---------CAG------------TTT--------TTTGAGTGAAGGA
+q felCat3.scaffold_217398 99----9999999999999999999999-9999999---------999------------999--------9999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_13068 9529 49 + 27231 TT----TGGATTGCCGAGATCGATTTAA-ATGTGGA---------CCA------------GTT--------TTTGAGTAAA-GG
+q dasNov1.scaffold_13068 99----9999989796999998999999-9998989---------995------------999--------9999999999-99
+i dasNov1.scaffold_13068 I 33 C 0
+s echTel1.scaffold_324002 33017 48 + 49972 TT----GATACTGCTGAGATTGATGTAC-ATGTTGG---------CAG------------GGT--------TTTT-GTTGT-TG
+q echTel1.scaffold_324002 99----9999999999999999999999-9999999---------999------------899--------9999-99999-99
+i echTel1.scaffold_324002 I 29 I 726
+s danRer5.chr21 16456322 45 + 46057314 -------caatgagtgAAATCAGTG-AG-TTTTGGT---------CAGATTTTATCATATTCT---------------------
+i danRer5.chr21 C 0 C 0
+s sorAra1.scaffold_256646 98437 12 - 121936 -----------------------------------------------------------------------TTTGAGTGAG-GT
+q sorAra1.scaffold_256646 -----------------------------------------------------------------------9975686748-42
+i sorAra1.scaffold_256646 I 56504 C 0
+s xenTro2.scaffold_2 3898037 22 + 7803671 -----------------------------GTGTGGGTGCGTGTGTCAG------------TAC---------------------
+i xenTro2.scaffold_2 N 0 C 0
+s loxAfr1.scaffold_4233 59256 26 + 124190 --------------------------AA-ATGTGGG---------CAA------------TTT--------TTTG-ATAAG-GG
+q loxAfr1.scaffold_4233 --------------------------99-9999998---------768------------999--------9999-99759-99
+i loxAfr1.scaffold_4233 I 644 C 0
+e monDom4.chr2 106207705 13075 - 541556283 I
+e eriEur1.scaffold_363624 8797 3266 - 23811 I
+e ornAna1.Contig32606 5982 0 + 7782 I
+e cavPor2.scaffold_284118 81695 76 - 169015 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-222289.000000
+s mm9.chr10 3185690 38 + 129993255 GACACCGTGACAGTAA-----TGG-------GCTTTCCACGG--------------------T-TTATTTT--
+s ornAna1.chr2 14877818 36 - 54797317 AACAAAGTGATCCTAA-----TGA-------TTTCTG--TAT--------------------T-CTGTCTT--
+i ornAna1.chr2 I 20993 I 1
+s monDom4.chr2 106220780 31 - 541556283 --------GACTTTAA-----TGATTC----TCTCTT--TTC--------------------T-TTCTTTT--
+q monDom4.chr2 --------99999999-----999999----999999--999--------------------9-9999999--
+i monDom4.chr2 I 13075 C 0
+s rn4.chr1 230003662 38 - 267910886 GCCACCATGGCAATAA-----CGG-------GCTTTTCACGT--------------------T-TTCTTTT--
+q rn4.chr1 9999999999999999-----999-------99999999999--------------------9-9999999--
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 63189 36 - 523245 AACAAAATGACAATAA-----TGG-------GACTTC--TGG--------------------T-TGTTTTT--
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108494765 36 + 167655696 AACAGAATGACAATAA-----TGG-------GACTTC--TGG--------------------T-TGTTTTC--
+q rheMac2.chr4 9999999999999999-----999-------999999--999--------------------9-9999999--
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16392354 36 - 174210431 AACAAAATGACAATAA-----TGG-------GACTTC--TGT--------------------T-TGTTTTT--
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16610293 36 - 173908612 AACAAAATGGCAATAG-----TGG-------GACTTC--TGA--------------------T-TGTTTTT--
+q panTro2.chr6 9999999999999999-----999-------999999--999--------------------9-9999999--
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16086867 36 - 170899992 AACAAAATGGCAATAA-----TGG-------GACTTC--TGA--------------------T-TGTTTTT--
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4590 36 - 5280 AACAAAATGACAATAA-----TGG-------CCTTTC--TGG--------------------T-TGCTTTC--
+q otoGar1.scaffold_85253.1-5280 9999999999999999-----999-------999999--999--------------------9-9999999--
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389224 34 - 498454 AACAAAATGACAGCAG-----AGG-------TCTTTG--TG-----------------------TCTTTTG--
+q tupBel1.scaffold_114895.1-498454 9999999999999999-----999-------899999--99-----------------------9999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 98449 35 - 121936 GACGCAGTGACAATCG-----TGG--------ACCTT--TGT--------------------G-CTTTCTT--
+q sorAra1.scaffold_256646 8423473693679999-----999--------66999--997--------------------5-3899999--
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 12063 39 - 23811 -acagaatgactatag-----tgattt----ttcttt--tgt--------------------gCCTTTTCT--
+q eriEur1.scaffold_363624 -999999999999999-----999999----999999--999--------------------999999999--
+i eriEur1.scaffold_363624 I 3266 C 0
+s felCat3.scaffold_217398 116458 35 - 219823 AACAAAATGGCAATAA-----TGG--------ACTTC--TGC--------------------C-TTCTTTT--
+q felCat3.scaffold_217398 9999999999999999-----999--------99999--999--------------------9-9999999--
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13045578 36 + 24938454 AACAAAATAACAATTA-----TGG--------ACTTT--CTTT-------------------G-CTTTTTT--
+q equCab1.chr31 9999999999999999-----999--------99999--9999-------------------9-9999999--
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78255742 36 - 125616256 AACAAAATGACAATAA-----TAG--------ACTTC--TGCT-------------------T-TTTTTTT--
+q canFam2.chr1 9999999999999999-----999--------99999--9999-------------------9-9999999--
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13722190 35 - 95030419 AACAAAATGACAATAA-----TGG--------ATTGT--TTT--------------------G-CTTTCTC--
+q bosTau3.chr9 9999999999999999-----999--------99999--999--------------------9-9999999--
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 9578 32 + 27231 AACAGAATGATGATAA----------------CTTTT--TAT--------------------T-TTATTTT--
+q dasNov1.scaffold_13068 9996899899799999----------------99999--999--------------------9-9999999--
+i dasNov1.scaffold_13068 C 0 I 2
+s loxAfr1.scaffold_4233 59282 36 + 124190 AACAAAATGCCAATAA-----TGA-------CCTTTT--CCC--------------------C-CTCCTTT--
+q loxAfr1.scaffold_4233 9999999998859999-----998-------799999--999--------------------9-9999999--
+i loxAfr1.scaffold_4233 C 0 C 0
+s xenTro2.scaffold_2 3898059 38 + 7803671 ---AATATGGAAATTCTTTTTTGA-------CCCCCC--CCT--------------------T-TTTTTTT--
+i xenTro2.scaffold_2 C 0 I 12
+s danRer5.chr21 16456367 33 + 46057314 AACTTGATGGATG-------------------TCTTCATTTG--------------------T-CTGTGTCTG
+i danRer5.chr21 C 0 C 0
+s oryLat1.chr22 12874129 17 - 28810691 ---------------------------------tttt--ttc--------------------c-ttgtacCCG
+q oryLat1.chr22 ---------------------------------9999--999--------------------9-999999999
+i oryLat1.chr22 N 0 C 0
+s gasAcu1.chrXV 12511434 9 - 16198764 ----------------------------------------------------------------gtgtgtgtg
+q gasAcu1.chrXV ----------------------------------------------------------------999999999
+i gasAcu1.chrXV N 0 C 0
+s fr2.chrUn 66170762 25 + 400509343 -------------------------TCATTTgccttc--ttt--------------------g-ttttgtgtg
+i fr2.chrUn N 0 C 0
+s tetNig1.chr10 10156555 19 - 12859810 -------------------------------Gccttc--ttt--------------------g-ttttgtgtg
+i tetNig1.chr10 N 0 C 0
+s anoCar1.scaffold_0 8785089 28 + 16654889 ------------------------------------------aGAAATATGATTACAGTGAAT-TTCTTTC--
+q anoCar1.scaffold_0 ------------------------------------------999999999999999999999-9999999--
+i anoCar1.scaffold_0 N 0 I 4
+s galGal3.chr3 61566910 8 - 113657789 --------------------------------------------------------------T-CTCTCTG--
+i galGal3.chr3 N 0 I 9
+e echTel1.scaffold_324002 33065 726 + 49972 I
+e cavPor2.scaffold_284118 81695 76 - 169015 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=1712684.000000
+s mm9.chr10 3185728 70 + 129993255 CCT-------AGGGTTGGATGACTGCCTGCAGCCATATGTGCACAAGTTTGAGCGGGAGAAGATAGACGGGGAGCAG
+s rn4.chr1 230003700 70 - 267910886 CCT-------AGGGTTGGATGACTGCCTGCAGCCGTACGTCCACAAGTTTGAGCGGGAGAAGATAGATGGGGAGCAG
+q rn4.chr1 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 63225 70 - 523245 GGC-------AGGATTGGATGACTGCCTGCAGCAATATGTCCACAAGTTCGAACGGGAGAAGATCAATGGTGAGCAG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108494801 70 + 167655696 GGC-------AGGGTTGGATGACTGCCTGCAACAATATGTCCACAAGTTTGAACGGGAGAAGATCAATGGCGAGCAG
+q rheMac2.chr4 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16392390 70 - 174210431 GGC-------AGGGTTGGATGACTGCCTGCAACAATATGTCCACAAGTTTGAACGAGAGAAGATCAATGGCGAGCAG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16610329 70 - 173908612 GGC-------AGGGTTGGATGACTGCCTGCAACAATATGTCCACAAGTTTGAACGAGAGAAGATCAACGGCGAGCAG
+q panTro2.chr6 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16086903 70 - 170899992 GGC-------AGGGTTGGATGACTGCCTGCAACAATATGTCCACAAGTTTGAACGAGAGAAGATCAACGGCGAGCAG
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4626 70 - 5280 GGT-------AGGGTTAGATGACTGCCTGCAACAGTATGTCCACAAGTTTGAGCGAGAGAAGATCAATGGCGAGCAG
+q otoGar1.scaffold_85253.1-5280 999-------9999999999999999999999999999999999999999997999999999999999967995996
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389258 70 - 498454 GGC-------AGGTTTGGATGACTGCCTGCAGCAGTACGTCTACAAGTTCGAGCGGGAGAAGATCAATGGAGAGCAG
+q tupBel1.scaffold_114895.1-498454 999-------9989999998998999999969999999999999599999999999999999959999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 98484 70 - 121936 GGT-------AGGGTTGGATGATTGCCTGCAGCAGTATGTCCACAAGTTTGAACGCGAGAAGATCAATGGCGAGCAG
+q sorAra1.scaffold_256646 997-------9997799999999999999999999999999999999999999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 12102 70 - 23811 GGT-------AGGCTTGGACGATTGCCTGCAGCAGTATGTCCACAAGTTTGAGCGGGAGAAGATCAATGGGGAGCAG
+q eriEur1.scaffold_363624 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i eriEur1.scaffold_363624 C 0 C 0
+s felCat3.scaffold_217398 116493 70 - 219823 GGT-------AGGGCTAGATGATTGCCTGCAGCAGTATGTTCACAAGTTCGAACGGGAGAAGATAAACGGGGAGCAG
+q felCat3.scaffold_217398 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13045614 70 + 24938454 GGT-------AGGTTTAGATGATTGCCTGCAGCAGTACGTCCACAAGTTTGAACGGGAGAAGATAAATGGAGAGCAG
+q equCab1.chr31 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78255778 70 - 125616256 GGT-------AGGGTTAGATGATTGCCTACAGCAGTATGTCCACAAATTTGAACGAGAGAAGATAAATGGAGAACAG
+q canFam2.chr1 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13722225 70 - 95030419 GGT-------AGGCTTAGATGATTGCCTGCAGCAGTATGTCCACAAGTTTGAACGAGAGAAGATTAACGGAGAGCAG
+q bosTau3.chr9 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 9612 70 + 27231 GGT-------AGGATTAGATGATTGCCTCCAGCAGTACGTCCACAAGTTTGAGCGGGAGAAGATCAATGGAGAACAG
+q dasNov1.scaffold_13068 999-------9987999996989999997979999999899999999999997779975999999999997999979
+i dasNov1.scaffold_13068 I 2 C 0
+s loxAfr1.scaffold_4233 59318 70 + 124190 GGT-------AGGGTTGGATGACTGTCTGCAGCAGTACGTCCACAAGTTCGAGCGGGAGAAGATCAACGGGGAGCAG
+q loxAfr1.scaffold_4233 999-------9999999899997899999999999999999989999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 33791 70 + 49972 CCT-------AGGGTTGGATGACTGCTTGCAGCAGTATGTCCACAAGTTCGAGCGGGAGAAGATCAATGGGGAGCAG
+q echTel1.scaffold_324002 999-------9999999999999999999999864699999999999999999999999999999999999999999
+i echTel1.scaffold_324002 I 726 C 0
+s monDom4.chr2 106220811 70 - 541556283 GAC-------AGGATTGGATGATTGTCTCCAGCAGTATGTCCATAAATTTGAACGGGAGAAAATAAATGGTGAACAA
+q monDom4.chr2 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14877855 70 - 54797317 GTC-------AGGTTTGGATGATTGCCTGCAGCAATATGTCCAGAAATTTGAACGGGAGAAGATAAACGGCGAACAG
+i ornAna1.chr2 I 1 C 0
+s anoCar1.scaffold_0 8785121 69 + 16654889 -TT-------AGGTTTGGATGATTGCCTGCAGCAATATGTCACAAAATTTGAACGAGAGAAGATAAATGGAGCTCAG
+q anoCar1.scaffold_0 -99-------9999999999999999999999999999999999999999999999999999999999999999999
+i anoCar1.scaffold_0 I 4 C 0
+s galGal3.chr3 61566927 70 - 113657789 GTT-------AGGCCTGGATGATTGCCTGCAGCAGTATGTCCACAAATTTGAACGAGAGAAGATAAATGGTGAACAG
+i galGal3.chr3 I 9 C 0
+s xenTro2.scaffold_2 3898109 70 + 7803671 TCT-------AGGACTTGATGATTGCTTGCTGCAGTATGTTACTAATGTAGAGCGAGAGAAGATAAATGGTGAACAG
+i xenTro2.scaffold_2 I 12 C 0
+s tetNig1.chr10 10156574 70 - 12859810 tcc-------aGGGTTAGATGACAGCCTCCAGCAGTACGTGAGCAACTTTGAACGGGAAAAGATCAGCGGAGAACAG
+i tetNig1.chr10 C 0 C 0
+s fr2.chrUn 66170787 70 + 400509343 tcc-------aGGGTTGGACGACAGCCTCCAGCAGTATGTGAGCAACTTTGAACGCGAGAAGATCAGCGGAGAACAG
+i fr2.chrUn C 0 C 0
+s gasAcu1.chrXV 12511443 70 - 16198764 tcc-------aggtttGGACGACAGCCTGCAGCAGTATGTCAGCAACTTTGAGCGGGAGAAGATCAGCGGAGAGCAG
+q gasAcu1.chrXV 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i gasAcu1.chrXV C 0 C 0
+s oryLat1.chr22 12874146 70 - 28810691 TCC-------AGGTTTGGATGACAACCTGCAGCAGTATGTTGGTAACTTCAAGAGGGAGAAGATCAGTGGGGAGCAG
+q oryLat1.chr22 999-------9999999999999999999999999999999999999999999999999999999999999999999
+i oryLat1.chr22 C 0 C 0
+s danRer5.chr21 16456400 77 + 46057314 TCTTTCTTTAAGGCTTGGATGACTGTCTGCAGCAGTACATTAAGAACTTTGAGCAGGAGAAGGTTGGCGGTGAGCAG
+i danRer5.chr21 C 0 C 0
+e cavPor2.scaffold_284118 81695 76 - 169015 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=1061425.000000
+s mm9.chr10 3185798 46 + 129993255 TTGCTGAAAATCTCCCACCAGGATCT---CGAGGAACTGGGGGTCACAC
+s rn4.chr1 230003770 46 - 267910886 TTGCTAAAGATCTCCCACCAGGATCT---CGAGGAACTGGGGGTCACGC
+q rn4.chr1 99999999999999999999999999---99999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 81771 33 - 169015 TTGCTGAAACT----------GATTTAAGCGAGTAATTGGGGG------
+q cavPor2.scaffold_284118 96993599984----------5978569469896692112847------
+i cavPor2.scaffold_284118 I 76 I 148
+s calJac1.Contig1260 63295 46 - 523245 CTGCTGCAGATTTCCCATCAGGATCT---GGAGGAGCTGGGGGTCACGC
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108494871 46 + 167655696 CTGCTGCAGATTTCCCATCAGGATCT---GGAGGAGCTGGGGGTCACGC
+q rheMac2.chr4 99999999999999999999999999---99999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16392460 46 - 174210431 CTGCTGCAGATTTCCCATCAGGATCT---GGAGGAGCTGGGGGTCACAC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16610399 46 - 173908612 CTGCTGCAGATTTCCCATCAGGACCT---GGAGGAGCTGGGGGTCACAC
+q panTro2.chr6 99999999999999999999999999---99999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16086973 46 - 170899992 CTGCTGCAGATTTCCCATCAGGACCT---GGAGGAGCTGGGGGTCACAC
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4696 46 - 5280 CTGCTGCAGATTTCCCATCAGGATCT---GGAGGAGCTGGGGGTCACAC
+q otoGar1.scaffold_85253.1-5280 59999999999999999999999995---99999999799992799999
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389328 46 - 498454 CTGCTGCAGATCTCCCACCAGGACCT---GGAGGAGCTGGGGGTCACTC
+q tupBel1.scaffold_114895.1-498454 99999969999999999999999999---99999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 98554 46 - 121936 CTGCTACAGATTTCCCATCAGGACCT---GGAGGAGCTGGGCGTCACCC
+q sorAra1.scaffold_256646 99999999999999999999999999---99999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 12172 46 - 23811 CTGCTGCAAATCTCTCATCAGGATCT---GGAGGAGCTCGGTGTCACAC
+q eriEur1.scaffold_363624 99999999999999999999999999---99999999999999999999
+i eriEur1.scaffold_363624 C 0 C 0
+s felCat3.scaffold_217398 116563 46 - 219823 CTGCTGCAAATTTCCCATCAGGATCT---TGAAGAGCTGGGGGTCACGC
+q felCat3.scaffold_217398 99999999999999999999999999---49999999999999999944
+i felCat3.scaffold_217398 C 0 I 1550
+s equCab1.chr31 13045684 46 + 24938454 CTGCTGCAGATTTCCCACCAGGATCT---TGAGGAGCTGGGTGTCACTC
+q equCab1.chr31 99999999999999999999999999---99999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78255848 46 - 125616256 CTGCTGAAGATTTCGCATCAGGATCT---TGAGGAGCTGGGGGTCACGC
+q canFam2.chr1 99999999999999999999999999---99999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13722295 46 - 95030419 CTGCTACAGATTTCCCACCAGGATCT---CGAGGAGCTGGGTGTCACAC
+q bosTau3.chr9 99999999999999999999999999---99999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 9682 46 + 27231 CTGCTGCAGATTTCCCATCAGGATCT---CGAAGAGCTGGGCGTCACAC
+q dasNov1.scaffold_13068 87986996999999999996989999---79999999799969999999
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 59388 46 + 124190 CTGCTGCAGATTTCTCACCAGGACCT---CGAGGAGCTGGGTGTCACAC
+q loxAfr1.scaffold_4233 99999999999999999999999999---99999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 33861 46 + 49972 CTGCTGCAGATCTCCCACCAGGACCT---GGAGGAGCTGGGTGTCACCC
+q echTel1.scaffold_324002 99999999898999999999999999---99999999999999999999
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106220881 46 - 541556283 CTCTTGCAGATTTCTCACCAGGATCT---TGAGGAATTGGGTGTCTCCC
+q monDom4.chr2 99999999999999999999999999---99999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14877925 46 - 54797317 TTGTTGCAGATTTCCCATCAGGATCT---CGAAGAACTGGGCATCACAC
+i ornAna1.chr2 C 0 C 0
+s anoCar1.scaffold_0 8785190 46 + 16654889 CTGTTACAGATTTCTCACCAGGATCT---CGAAGAGTTAGGCATCACCC
+q anoCar1.scaffold_0 99999999999999999999999999---99999999999999999999
+i anoCar1.scaffold_0 C 0 C 0
+s galGal3.chr3 61566997 46 - 113657789 CTGTTACAGATTTCTCACCAGGATCT---TGAAGATATGGGTATCACAC
+i galGal3.chr3 C 0 C 0
+s xenTro2.scaffold_2 3898179 46 + 7803671 CTACTTAAATTCACTCATCAGGATCT---TCAGGAACTTGGAATTACGC
+i xenTro2.scaffold_2 C 0 C 0
+s tetNig1.chr10 10156644 46 - 12859810 CTCTTGAAGATCACACATcaagacct---ggaggagctgggcttGGCTC
+i tetNig1.chr10 C 0 C 0
+s fr2.chrUn 66170857 46 + 400509343 CTGCTGAAGATCACGCATCaagacct---ggaggagctgggcaTAGCTC
+i fr2.chrUn C 0 C 0
+s gasAcu1.chrXV 12511513 46 - 16198764 CTCCTGAAGATCACGCATCAAGACCT---GGAGGAGCTCGGCGTGGCCA
+q gasAcu1.chrXV 99999999999999999999999999---99999999999999999999
+i gasAcu1.chrXV C 0 C 0
+s oryLat1.chr22 12874216 46 - 28810691 CTGCTGAAGATATCACATCAAGACCT---GGAGGAGCTTGGTGTGGCGA
+q oryLat1.chr22 99999999999999999999999999---99999999999999999999
+i oryLat1.chr22 C 0 C 0
+s danRer5.chr21 16456477 46 + 46057314 CTGTTGAGAATCACGCATCAGGAGCT---GGAGGACCTGGGCGTTTCTC
+i danRer5.chr21 C 0 C 0
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=1584859.000000
+s mm9.chr10 3185844 69 + 129993255 GGATCGGCCACCAAGAGCTGGTGTTGGAGGCTGTGGATCTTCTCTGTGCACTGGTTAGTCCGGTAGAAG
+s rn4.chr1 230003816 69 - 267910886 GGATCGGACACCAAGAGCTGGTGTTGGAGGCTGTGGACCTTCTCTGCGCACTGGTTAGTCTGGGAGAAG
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 81952 69 - 169015 GAATTGGACATCAGGAGCTGGTGTTGGGAGCTGTCGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q cavPor2.scaffold_284118 433325545255145343353321627112234565262512542224345343432243533258826
+i cavPor2.scaffold_284118 I 148 C 0
+s calJac1.Contig1260 63341 69 - 523245 GGATCGGACACCAGGAGCTTGTGTTGGAGGCTGTGGACCTTCTCTGTGCACTGGTTAGTTCAGGAAACG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108494917 69 + 167655696 GGATCGGACACCAGGAGCTTGTGTTGGAGGCTGTGGACCTTCTCTGTGCACTGGTTAGTTCAGGAGAAG
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16392506 69 - 174210431 GGATCGGACACCAGGAGCTTGTGTTGGAGGCTGTGGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16610445 69 - 173908612 GGATCGGACACCAGGAGCTTGTGTTGGAGGCTGTGGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16087019 69 - 170899992 GGATTGGACACCAGGAGCTTGTGTTGGAGGCTGTGGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4742 69 - 5280 GGATCGGACACCAGGAGCTTGTGTTGGAGGCTGTCGATCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q otoGar1.scaffold_85253.1-5280 997999979599999999969999589899899889688989999987989898999998998999998
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389374 69 - 498454 GAATCGGACACCAGGAACTTGTGTTGGAGGCTGTTGACCTTCTCTGTGCACTGGTTAGTTTAGGAAAAG
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 98600 69 - 121936 GCATCGGACACCAGGAGCTTGTGCTGGAGGCTGTCGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q sorAra1.scaffold_256646 999999999999999999999999999999999999999999999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 12218 63 - 23811 GGATCGGACACCAGGAGCTTGTGTTGGAGGCTGTCGACCTACTCTGTGCACTGGTGAGTTCAG------
+q eriEur1.scaffold_363624 999999999999999999999999999999999999999999999999999999999999999------
+i eriEur1.scaffold_363624 C 0 I 10600
+s canFam2.chr1 78255894 69 - 125616256 GAATTGGACACCAGGAACTTGTGTTGGAGGCTGTCGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13045730 69 + 24938454 GAATTGGACACCAGGAACTTGTGTTGGAGGCTGTCGACCTTCTCTGTGCACTGGTTAGTTCAGAATAAG
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13722341 69 - 95030419 GCATTGGACACCAGGAACTTGTGCTGGAGGCTGTCGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q bosTau3.chr9 999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 9728 69 + 27231 GAATAGGACATCAGGAGCTCGTGTTGGAGGCGGTTGACCTCCTCTGTGCACTGGTTAGTTCAGAAGAAG
+q dasNov1.scaffold_13068 999999999999999999989799689988889979999999999999999599999999999989998
+i dasNov1.scaffold_13068 C 0 I 13
+s loxAfr1.scaffold_4233 59434 69 + 124190 GCATCGGACACCAGGAGCTCGTGCTGGAGGCCGTCGACCTTCTCTGTGCACTGGTTAGTTCAGGAAAAC
+q loxAfr1.scaffold_4233 999999999999999999999999999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 28
+s echTel1.scaffold_324002 33907 69 + 49972 GCATCGGGCACCAGGAGCTCGTGTTGGAGGCAGTCGACCTCCTCTGTGCACTGGTTAGTTCAGGAAAAG
+q echTel1.scaffold_324002 999999998999999999999999999999998999999999999999999999999999963899999
+i echTel1.scaffold_324002 C 0 I 1740
+s monDom4.chr2 106220927 66 - 541556283 GAATTGGACACCAGGAACTTGTATTAGAAGCTGTGGATCTTCTTTGTGCATTGGTTAGTTACATAG---
+q monDom4.chr2 999999999999999999999999999999999999999999999999999999999999999999---
+i monDom4.chr2 C 0 I 1432
+s ornAna1.chr2 14877971 68 - 54797317 GAATTGGACACCAGGAACTAGTGTTGGAGGCTGTAGACCTTCTCTGTGCATTGGTTAGTTTGATGATG-
+i ornAna1.chr2 C 0 C 0
+s anoCar1.scaffold_0 8785236 59 + 16654889 GCATTGGGCACCAGGAACTCGTTTTAGAAGCTGTGGATCTTCTCTGTGCACTGGTCAGT----------
+q anoCar1.scaffold_0 99999999999999999999999999999999999999999999999999999999999----------
+i anoCar1.scaffold_0 C 0 I 2767
+s galGal3.chr3 61567043 59 - 113657789 GGATTGGACACCAGGAACTGGTTTTAGAAGCTGTGGATCTCCTGTGTGCACTGGTTAGT----------
+i galGal3.chr3 C 0 I 13
+s xenTro2.scaffold_2 3898225 60 + 7803671 AAATTCAACATCAAGAGCTTGTTCTTGAGGCAGTTGATCTTCTTTGTGCCTTGGTAAGTC---------
+i xenTro2.scaffold_2 C 0 I 7414
+s tetNig1.chr10 10156690 59 - 12859810 GCATCGGACACCAGGAACTGGTGCTGGAAGCTGTGGATCTCCTCTGCGCACTGGTTGGT----------
+i tetNig1.chr10 C 0 I 3865
+s fr2.chrUn 66170903 59 + 400509343 GGATCGGACACCAGGAACTGGTGTTGGAAGCTGTGGACCTTCTCTGTGCACTGGTTAGT----------
+i fr2.chrUn C 0 I 30
+s gasAcu1.chrXV 12511559 59 - 16198764 GGATCGGACACCAGGAGCTGGTGCTGGAGGCCGTGGATCTGCTCTGcgctctggtcagt----------
+q gasAcu1.chrXV 99999999999999999999999999999999999999999999999999999999999----------
+i gasAcu1.chrXV C 0 I 1479
+s oryLat1.chr22 12874262 59 - 28810691 GGATTGGACACCAAGAGCTTGTCCTGGAAGCAGTTGATTTGCTTTGTGCTTTGGTTAGT----------
+q oryLat1.chr22 99999999999999999999999999999999999999999999999999999999999----------
+i oryLat1.chr22 C 0 I 3946
+s danRer5.chr21 16456523 59 + 46057314 GAATCGGCCACCAGGAGCTCATTCTGGAGGCCGTGGACCTGTTGTGTGCGCTGGTGAGC----------
+i danRer5.chr21 C 0 I 3409
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-386695.000000
+s mm9.chr10 3185913 27 + 129993255 G-------------------------------------TCAGC-CCGTCCT------CACGTTCT---------------TAGGA-G------------------------------
+s rn4.chr1 230003885 65 - 267910886 GGGAGCTGCTCTGTGGTGACTGTCCAGTCCTCTTGGGCTCAGC-CCATCCT------CACATTCT---------------TAAGAAG------------------------------
+q rn4.chr1 9999999999999999999999999999999999999999999-9999999------99999999---------------9999999------------------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 82021 30 - 169015 GTGA----------------------------------TCTGTACTGCCAT------GACATTCT---------------TTAGA--------------------------------
+q cavPor2.scaffold_284118 4443----------------------------------6435454337545------32323337---------------51256--------------------------------
+i cavPor2.scaffold_284118 C 0 I 175
+s calJac1.Contig1260 63410 1 - 523245 G--------------------------------------------------------------------------------------------------------------------
+i calJac1.Contig1260 C 0 I 1461
+s rheMac2.chr4 108494986 31 + 167655696 GTGA----------------------------------TCTGTACCGTGAT------GACATTCT---------------TTAGA-G------------------------------
+q rheMac2.chr4 9999----------------------------------9999999999999------99999999---------------99999-9------------------------------
+i rheMac2.chr4 C 0 I 61
+s ponAbe2.chr6 16392575 31 - 174210431 ACGG----------------------------------TCTGTACCATGAT------GACGTTCT---------------TTAGA-G------------------------------
+i ponAbe2.chr6 C 0 I 737
+s panTro2.chr6 16610514 31 - 173908612 ATGG----------------------------------TCTGTACCGTGAT------GACGTTCT---------------TTAGA-G------------------------------
+q panTro2.chr6 9999----------------------------------9999999999999------99999999---------------99999-9------------------------------
+i panTro2.chr6 C 0 I 175
+s hg18.chr6 16087088 26 - 170899992 ACGG----------------------------------TCTGTACCGTGAT------GACGTTCT---------------T------------------------------------
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 4811 7 - 5280 GTGA----------------------------------TCC----------------------------------------------------------------------------
+q otoGar1.scaffold_85253.1-5280 8997----------------------------------899----------------------------------------------------------------------------
+i otoGar1.scaffold_85253.1-5280 C 0 I 203
+s tupBel1.scaffold_114895.1-498454 389443 2 - 498454 GT-------------------------------------------------------------------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 99-------------------------------------------------------------------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 244
+s sorAra1.scaffold_256646 98669 4 - 121936 GG----------------------CA-------------------------------------------------------------------------------------------
+q sorAra1.scaffold_256646 99----------------------99-------------------------------------------------------------------------------------------
+i sorAra1.scaffold_256646 C 0 I 179
+s canFam2.chr1 78255963 30 - 125616256 ATGA----------------------------------TCTGTGCCATGGT------GATGTTTT---------------TAGAA--------------------------------
+q canFam2.chr1 9999----------------------------------9999999999999------99999999---------------99999--------------------------------
+i canFam2.chr1 C 0 I 177
+s equCab1.chr31 13045799 2 + 24938454 GT-------------------------------------------------------------------------------------------------------------------
+q equCab1.chr31 99-------------------------------------------------------------------------------------------------------------------
+i equCab1.chr31 C 0 I 205
+s bosTau3.chr9 13722410 2 - 95030419 GT-------------------------------------------------------------------------------------------------------------------
+q bosTau3.chr9 99-------------------------------------------------------------------------------------------------------------------
+i bosTau3.chr9 C 0 I 203
+s dasNov1.scaffold_13068 9810 17 + 27231 -----------------------------------------------CCAT------CACCTTCT---------------TTAAA--------------------------------
+q dasNov1.scaffold_13068 -----------------------------------------------9999------99999999---------------99998--------------------------------
+i dasNov1.scaffold_13068 I 13 I 246
+s loxAfr1.scaffold_4233 59531 41 + 124190 --------------------------------------CTTAGCATACCCC------CATTTTCTTAATGATCCATTGACTTGAA--------------------------------
+q loxAfr1.scaffold_4233 --------------------------------------9999999999999------9999999999999999999999999999--------------------------------
+i loxAfr1.scaffold_4233 I 28 I 1
+s ornAna1.chr2 14878039 8 - 54797317 -------------------------------------------ATCATGGT------------------------------------------------------------------
+i ornAna1.chr2 C 0 I 883
+s galGal3.chr3 61567115 22 - 113657789 -------------------------------------------GACAGAATTTCTT-TAAATACT---------------T------------------------------------
+i galGal3.chr3 I 13 I 1696
+s tetNig1.chrUn_random 4070205 29 - 171761319 ---------------------------------------------------TCCACGCGCGtccc----------------------tcc---------------gctcctcttccG
+i tetNig1.chrUn_random n 3865 C 0
+s fr2.chrUn 66170992 41 + 400509343 ------------------------------------------------------ACGTAACTACC----------------------TCTTAAGGGAACAGCAAAGCTTCTGCTCCC
+i fr2.chrUn I 30 C 0
+s gasAcu1.chrIV 17064225 23 - 32632948 ---------------------------------------------------------CACATTGC----------------------CCC---------------GTTTCTCTCGAT
+q gasAcu1.chrIV ---------------------------------------------------------99999999----------------------999---------------999999999999
+i gasAcu1.chrIV n 1479 C 0
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr21 16456582 3409 + 46057314 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-53283.000000
+s mm9.chr10 3185940 65 + 129993255 GATGGAAAGAAGTATCAGCGGACCAT--------CAGAGA----------AG----ACAAGGCAGCTTCTAGAACGGAGGCTGGCAA
+s rn4.chr1 230003950 68 - 267910886 GGTGCAAAGGAGTACCGGCCAAAAAT--------CAGAGG----------AGGAA-ACAAAGCAGCTTCTAGAGGAAAGGCTAGCAA
+q rn4.chr1 99999999999999999999999999--------999999----------99999-9999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16087114 20 - 170899992 -------TAGAGC---------------------------------------------------CTTGCTCTCTTAAG---------
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108495078 76 + 167655696 ATTGAAATAAAACATGAGCCGAAGATACTATAGGAAGGGG----------AAAAA-ATGAATTATTTTCTACATTAAGGGTTGGCAA
+q rheMac2.chr4 9999999999999999999999999999999999999999----------99999-9999999999999999999999999999999
+i rheMac2.chr4 I 61 C 0
+s loxAfr1.scaffold_4233 59573 61 + 124190 ------------GATGAGCCGAAGATAAAATAGTAAGGGA----------AG----AAAAGGCATTTTCCAGATTAGGACCTggcaa
+q loxAfr1.scaffold_4233 ------------9979999999999999999999999999----------99----9999999999999669999999999999999
+i loxAfr1.scaffold_4233 I 1 C 0
+s tetNig1.chrUn_random 4070234 43 - 171761319 -----------------------------------GGTGGTCACAT----GGCCC--ATAAGCAGCTTTATTTTGGACTCCTTC---
+i tetNig1.chrUn_random C 0 C 0
+s fr2.chrUn 66171033 42 + 400509343 -----------------------------------AGTGG----------GGCCTGAATACGTAGCCTGTAGTGGGGCAGCTAGAAA
+i fr2.chrUn C 0 I 2807
+s gasAcu1.chrIV 17064248 33 - 32632948 -----------------------------------GGGTGACACATGGGAGGGTTTGATGTATAGGCT-------------------
+q gasAcu1.chrIV -----------------------------------999999999999999999999999999999999-------------------
+i gasAcu1.chrIV C 0 C 0
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr21 16456582 3409 + 46057314 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e bosTau3.chr9 13722412 203 - 95030419 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e equCab1.chr31 13045801 205 + 24938454 I
+e sorAra1.scaffold_256646 98673 179 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 9827 246 + 27231 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e canFam2.chr1 78255993 177 - 125616256 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e cavPor2.scaffold_284118 82051 175 - 169015 I
+e otoGar1.scaffold_85253.1-5280 4818 203 - 5280 I
+e panTro2.chr6 16610545 175 - 173908612 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-27396.000000
+s mm9.chr10 3186005 31 + 129993255 -------TTCATAAGC-CGTGAGCTTAGTCTGGCACACT
+s rn4.chr1 230004018 31 - 267910886 -------ACGAGGAGC-CGTGAGCTTAGACTGGCACACT
+q rn4.chr1 -------999999999-9999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16087134 4 - 170899992 ---------------C-CGT-------------------
+i hg18.chr6 C 0 I 155
+s rheMac2.chr4 108495154 31 + 167655696 -------ACTATGGCC-TGTGAGTTAAATCTGGCCCGCT
+q rheMac2.chr4 -------999999999-9999999999999999999999
+i rheMac2.chr4 C 0 I 551
+s loxAfr1.scaffold_4233 59634 29 + 124190 -------gctatgccc-catgggccaaacctggccca--
+q loxAfr1.scaffold_4233 -------999999999-89999999899999999997--
+i loxAfr1.scaffold_4233 C 0 I 288
+s tetNig1.chrUn_random 4070277 32 - 171761319 CTCTCAATCCAAGGGCGTAGGGTCGTGCACAG-------
+i tetNig1.chrUn_random C 0 C 0
+s fr2.chrUn 150262756 30 - 400509343 TATTCAGGCTGAAGGC-TGGAGACAca-atag-------
+i fr2.chrUn n 2807 C 0
+s gasAcu1.chrIV 17064281 25 - 32632948 --TTCACGCGCAACTC-CAgctctttg----g-------
+q gasAcu1.chrIV --99999999999999-9999999999----9-------
+i gasAcu1.chrIV C 0 C 0
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr21 16456582 3409 + 46057314 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e bosTau3.chr9 13722412 203 - 95030419 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e equCab1.chr31 13045801 205 + 24938454 I
+e sorAra1.scaffold_256646 98673 179 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 9827 246 + 27231 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e canFam2.chr1 78255993 177 - 125616256 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e cavPor2.scaffold_284118 82051 175 - 169015 I
+e otoGar1.scaffold_85253.1-5280 4818 203 - 5280 I
+e panTro2.chr6 16610545 175 - 173908612 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=-3286.000000
+s mm9.chr10 3186036 85 + 129993255 TGTATGCGTGCATGCGTGCATGCATATGTTTGTGTGAGTGCT--CGTTTACATGTTAAATGCACAtgcatgtgtgtatgtctgtgtg--
+s rn4.chr1 230004049 71 - 267910886 TTTATGCACGTATGCATGC--------GTATGTGTGAGTGCT--TGATTAAGTGTTAAATGCACAtgcgtgtgtatgtgtc--------
+q rn4.chr1 9999999999999999999--------999999999999999--9999999999999999999999999999999999999--------
+i rn4.chr1 C 0 C 0
+s tetNig1.chrUn_random 4070309 85 - 171761319 GATCAGGAAACAGATGTGACCCCTCCCACCTGTCAGAGAC----CCCACCcactcaggacacacacacacgtgtgtgtgtgtgtgtgtg
+i tetNig1.chrUn_random C 0 I 6325
+s fr2.chrUn 150262786 64 - 400509343 agtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtg----tgtgtgtgtgtgcgttctaCATGC---------------------
+i fr2.chrUn C 0 n 0
+s gasAcu1.chrIV 17064306 63 - 32632948 tgtgtgtgtgtgtgtgtgtgtgtgtgtgttattgtgagtCATGTTGTCCAGATGTATACTGCA--------------------------
+q gasAcu1.chrIV 999999999999999999999999999999999999999999999999999999999999999--------------------------
+i gasAcu1.chrIV C 0 I 7189
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr21 16456582 3409 + 46057314 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e bosTau3.chr9 13722412 203 - 95030419 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e equCab1.chr31 13045801 205 + 24938454 I
+e rheMac2.chr4 108495185 551 + 167655696 I
+e sorAra1.scaffold_256646 98673 179 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 9827 246 + 27231 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e canFam2.chr1 78255993 177 - 125616256 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e loxAfr1.scaffold_4233 59663 288 + 124190 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e cavPor2.scaffold_284118 82051 175 - 169015 I
+e otoGar1.scaffold_85253.1-5280 4818 203 - 5280 I
+e hg18.chr6 16087138 155 - 170899992 I
+e panTro2.chr6 16610545 175 - 173908612 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=19216.000000
+s mm9.chr10 3186121 362 + 129993255 gaggatgaaggacaatttagagctttacccatggaaacgctgtccacctttgagatagtctttca---ttggctccagctcaccagtta-gagtagaatatctgactagtaagccccaggggtccttctgttcccacctctccaacccctggagttcaactctgtggccttgagcctagc--ttttatctgtgtgctgggcattgatcttagggctcatgtttacaaggcaagtattttaccaactgtctgagccatcttcccT---TTCTTTTCCATCTGAGTGAATGAAGGAATTTAAAAATTAGCATACAAGGTATTAGATAACATGATGTTTTTAAATAAAGCGTATTTTAGTAGATTCTCCCCTTC
+s rn4.chr1 230004120 367 - 267910886 aaggctgaaggacaattttgagtgttacccatggaaatactgtctacctttgagacggtctttctcattggcctccagctcaccagttaagagtagattatctgaccagtaagccccagggatcctcctggccccacctctcaaatccctggaattcaggtttgtggcattgggcctggcatttttatctgtgtgctgggcgtagggcctcacacttacagt---aaggtgagtatcttaccaactgtttgagcaatcttccccaagcccTTTCTTTTCCCCTTGAATGAATGCACTTAAAAATTAGCACGCAAGGTATTTG-TAACACAATGTTCTTAAACAGAGTGCATTTGAGTAGGTTCTGCTCCCT
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrIV 17064369 7189 - 32632948 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr21 16456582 3409 + 46057314 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e bosTau3.chr9 13722412 203 - 95030419 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e equCab1.chr31 13045801 205 + 24938454 I
+e rheMac2.chr4 108495185 551 + 167655696 I
+e sorAra1.scaffold_256646 98673 179 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 9827 246 + 27231 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e canFam2.chr1 78255993 177 - 125616256 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e loxAfr1.scaffold_4233 59663 288 + 124190 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e cavPor2.scaffold_284118 82051 175 - 169015 I
+e otoGar1.scaffold_85253.1-5280 4818 203 - 5280 I
+e hg18.chr6 16087138 155 - 170899992 I
+e panTro2.chr6 16610545 175 - 173908612 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=8366.000000
+s mm9.chr10 3186483 93 + 129993255 CCTCTCTCCCCCACCCTTGTCTTCCGTTCTCACCCTTCTTCCCTCAGACTCTTTCCCTCCTTGTTGGCACATTTATCTTTTTTGTTTACCCCA
+s rn4.chr1 230004487 91 - 267910886 TCTCTCTCCTTCATCCTTACCTCCCATCCTCTTCAATCCCACCTCAGGCTCTTTTCCTCTTCGTTGGCACATTTATCTCTTTGTTT--ACCCG
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999
+i rn4.chr1 C 0 C 0
+s gasAcu1.chrXV 12513097 93 - 16198764 cccccccccaccacccccttcTCTCATTTTGTTCACTGTAAGGTCAGACTCCTCCTGTTGCTGCAGTCACATTCGTCTTTCGTCTCTTCCCCA
+q gasAcu1.chrXV 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i gasAcu1.chrXV I 1479 I 1761
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr21 16456582 3409 + 46057314 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e bosTau3.chr9 13722412 203 - 95030419 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e equCab1.chr31 13045801 205 + 24938454 I
+e rheMac2.chr4 108495185 551 + 167655696 I
+e sorAra1.scaffold_256646 98673 179 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 9827 246 + 27231 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e canFam2.chr1 78255993 177 - 125616256 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e loxAfr1.scaffold_4233 59663 288 + 124190 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e cavPor2.scaffold_284118 82051 175 - 169015 I
+e otoGar1.scaffold_85253.1-5280 4818 203 - 5280 I
+e hg18.chr6 16087138 155 - 170899992 I
+e panTro2.chr6 16610545 175 - 173908612 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=1807.000000
+s mm9.chr10 3186576 93 + 129993255 CTCTCCCTCTGCACCTTTCTTTACCCTCTCTGGTCATATTTCTA-GCCTCTTAGCCTTTATCCACA---------TTTACACCCACTCACATAAA-------CACCACAC
+s rn4.chr1 230004578 70 - 267910886 CGCTTCCCTAGCATCTGTCTTTATCCT------------------------TAGCCTTTATCCACG---------TTTACACCCGCTCACATAAA-------CATCACAC
+q rn4.chr1 999999999999999999999999999------------------------999999999999999---------99999999999999999999-------99999999
+i rn4.chr1 C 0 C 0
+s danRer5.chr24 24013082 104 + 40293347 CTCTCCCTCTACA--TTGCTTTATCTC--TCTGTCATGCTGGTGTGTGTTATCTGCTGTATTCACGCAGAGAGCTTCTAAACAAATTAGCATAGAGGATTCTCAGCAT--
+i danRer5.chr24 n 3409 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e bosTau3.chr9 13722412 203 - 95030419 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e equCab1.chr31 13045801 205 + 24938454 I
+e rheMac2.chr4 108495185 551 + 167655696 I
+e sorAra1.scaffold_256646 98673 179 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 9827 246 + 27231 I
+e felCat3.scaffold_217398 116609 1550 - 219823 I
+e canFam2.chr1 78255993 177 - 125616256 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e loxAfr1.scaffold_4233 59663 288 + 124190 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e cavPor2.scaffold_284118 82051 175 - 169015 I
+e otoGar1.scaffold_85253.1-5280 4818 203 - 5280 I
+e hg18.chr6 16087138 155 - 170899992 I
+e panTro2.chr6 16610545 175 - 173908612 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=19711.000000
+s mm9.chr10 3186669 39 + 129993255 ----------CCCCAtttgctaataaagttttattaga-ctc-ag------------tgtgca
+s felCat3.scaffold_217398 118159 37 - 219823 ----------ccatgtttgtaaataaagttttattggcacac-ag-----cca----------
+q felCat3.scaffold_217398 ----------68656696766976896699946656699769-66-----997----------
+i felCat3.scaffold_217398 I 1550 C 0
+s canFam2.chr1 78256170 34 - 125616256 -------------cttttgtcagtaaagttttattggcacac-ag-----cca----------
+q canFam2.chr1 -------------99999999999999999999999999999-99-----999----------
+i canFam2.chr1 I 177 C 0
+s rn4.chr1 230004648 40 - 267910886 ----------CCCCgtcagttaataaagttttattagaactc-ag------------tgtgcg
+q rn4.chr1 ----------99999999999999999999999999999999-99------------999999
+i rn4.chr1 C 0 C 0
+s dasNov1.scaffold_13068 10073 36 + 27231 ---------------tttataaataaagttttatcggaacac-aggtatgcc-----------
+q dasNov1.scaffold_13068 ---------------996689998998569989987899768-798993322-----------
+i dasNov1.scaffold_13068 I 246 C 0
+s cavPor2.scaffold_284118 82226 42 - 169015 ---------------tttgtaaataaagttttattgcagCAC-AG-----CCTTATTTATTCA
+q cavPor2.scaffold_284118 ---------------999999999999999999999999999-99-----9999999999999
+i cavPor2.scaffold_284118 I 175 C 0
+s otoGar1.scaffold_85253.1-5280 5021 26 - 5280 ---------------tttgtaaataaagttttattggcaca----------------------
+q otoGar1.scaffold_85253.1-5280 ---------------99999999999999999999988999----------------------
+i otoGar1.scaffold_85253.1-5280 I 203 I 9
+s panTro2.chr6 16610720 26 - 173908612 ---------------tttgtaaataaagttttataggaaca----------------------
+q panTro2.chr6 ---------------99999999999999999999999999----------------------
+i panTro2.chr6 I 175 I 10
+s hg18.chr6 16087293 26 - 170899992 ---------------tttgtaaataaagttttataggaaca----------------------
+i hg18.chr6 I 155 I 10
+s equCab1.chr31 13046006 32 + 24938454 ---------------tttgtaaataaagttttattgagacac-ag-----cca----------
+q equCab1.chr31 ---------------999999999999999999999999999-99-----999----------
+i equCab1.chr31 I 205 C 0
+s bosTau3.chr9 13722615 32 - 95030419 ---------------tttgtaaataaagttttattgggacac-ag-----cca----------
+q bosTau3.chr9 ---------------999999999999999999999999999-99-----999----------
+i bosTau3.chr9 I 203 C 0
+s sorAra1.scaffold_256646 98852 33 - 121936 ---------------tttgtaaataaagttttattggcgcGTGGG-----CCG----------
+q sorAra1.scaffold_256646 ---------------999999999999999999999999999996-----999----------
+i sorAra1.scaffold_256646 I 179 C 0
+s danRer5.chr24 24013186 39 + 40293347 CTACCTACACACATACTGGCTGATCAgtgtgtgtgtgtg------------------------
+i danRer5.chr24 C 0 n 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e rheMac2.chr4 108495185 551 + 167655696 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e loxAfr1.scaffold_4233 59663 288 + 124190 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389445 244 - 498454 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=202322.000000
+s mm9.chr10 3186708 182 + 129993255 cagttgtggat--gtatt-tactatccgaggctgcctttgtgctgcgaggacagaatggag--tctctaacagagaccacatgc-ccctccaaaacccagagtgttt---------------------attgtctcat---gtacagaaaagtgttgtc-TGT---------TACCAAAAAACCCCCACGT-G-TCTGT------------------G-TTAGGCTTA----------------TTTTC-CATCTTTT--AT
+s cavPor2.scaffold_284118 82268 149 - 169015 ACGACATGGTT--G-------------GTGACTGCTTTTGTGTTGCAGTG--AGAGTTGAGTCATTGTAGCAGGGACCATATGA-TCCTGAAAAGCCTGAAATATTC---------------------AC-----------------AAAAAACTTACC-ATT---------TACCGAAA---------AT-G-GCTAT------------------GATTAgtctta----------------ttttcttatctttt--at
+q cavPor2.scaffold_284118 99999999999--9-------------99999999999999999999999--99999999999999999999999999999999-9999999999999999999999---------------------99-----------------999999999999-999---------99999999---------99-9-99999------------------99999999999----------------99999999999999--99
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230004688 179 - 267910886 tagtcatggat--gcatg-tattatccaaggctgcctttgtgctgcaggaacagaacagagcctctctatcacagaccacgtgt-ccctccaaaacccaaagtgttt---------------------actgtctcat---gtacagagaaGTGTGGTC-TGT---------TACCAAAAAACC-----GT-G-TCTGT------------------G-TTAGGCTTA----------------TTTTC-GGTCTTTT--AT
+q rn4.chr1 99999999999--99999-99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999---------------------9999999999---999999999999999999-999---------999999999999-----99-9-99999------------------9-999999999----------------99999-99999999--99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16087329 167 - 170899992 ----cattcac--ttacg-tgtt---tgtgactgctttcttgcgacagtgacagaattgagtggttgtaac-gggaccacatggttcccccaaagcctaaaatattt---------------------attaacttgtcctttacagaaagagtttgtc-TTT---------TTCAGAAA---------AT-C-TCTGT------------------A-TTAGTCTAA----------------TTTT-----CTTTT--AT
+i hg18.chr6 I 10 C 0
+s panTro2.chr6 16610756 167 - 173908612 ----cattcac--ttacg-tgtt---tgtgactgctttcttgcgacagtgacagaattgagtggttgtaac-gggaccacatggttcccccaaagcctaaaatattt---------------------attaacttgtcctttacagaaagagtttgtc-TTT---------TTTAGAAA---------AT-C-TCTGT------------------A-TTAGTCTAA----------------TTTT-----CTTTT--AT
+q panTro2.chr6 ----9999999--99999-9999---999999999999999999999999999999999999999999999-99999999999999999999999999999999999---------------------9999999999999999999999999999999-999---------99999999---------99-9-99999------------------9-999999999----------------9999-----99999--99
+i panTro2.chr6 I 10 C 0
+s otoGar1.scaffold_85253.1-5280 5056 137 - 5280 ----cattcat--ttgta-tgttatctgtggctgctttcatgctatactgacagagttgagtagtcgtgacagaggccaggtgg-tcccccaaagccta----------------------------------------------agaAAG----------CC---------TATAGAAA---------AT-CATCTGT------------------A-TTAGTCTTA----------------ATAT-----TTGTT--AT
+q otoGar1.scaffold_85253.1-5280 ----9999999--99999-99999999999999999999999999999999999999999999999999999999999999996-99999999999999----------------------------------------------999999----------99---------99999999---------99-9999999------------------9-999999999----------------9999-----99999--99
+i otoGar1.scaffold_85253.1-5280 I 9 C 0
+s tupBel1.scaffold_114895.1-498454 389689 174 - 498454 ----CATTTATGGGCATG-TGTTGTCTGTGACTGCTTTTGTGCTACAATGACAGAGTGGAATACTTGTAACAGAGACCATGTGG-TCCTCCAAA-CCTAAAATATTT---------------------ATCATCTTGTCCATTACAGAAAA--TTTGCA-TTT---------TTCAGAAA---------AT-G-GCCAT------------------A-TTAGTTTTA----------------CTTTCTTAACTTTT--AA
+q tupBel1.scaffold_114895.1-498454 ----99999999999999-99999999999999999999999999999999999999999999999999999999999999999-999999999-999999999999---------------------99999999999999999999999--999999-999---------99999999---------99-9-99999------------------9-999999999----------------99999999999999--99
+i tupBel1.scaffold_114895.1-498454 I 244 C 0
+s canFam2.chr1 78256204 178 - 125616256 tacctgtttat--ttatg-ttttgtctgcggctgctgtcatgctacagtggtagagtggagtagttgtgacagggaccgtgttg-ccctccaaagtccagtgtattt---------------------actatcttgcctttta-agaagaagtttgcc-TTT---------TACAGAAA---------AA-G-TCTGT------------------G-TTAGTTTCA----------------TTTTCTTATCTTCT--GT
+q canFam2.chr1 99999999999--99999-99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999---------------------9999999999999999-99999999999999-999---------99999999---------99-9-99999------------------9-999999999----------------99999999999999--99
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 118196 171 - 219823 tgaccgttcgt--ttatt-tgtggtccgtggctgctttcatgct-----------------------ttcaggggaccgtgtgg-cccccgcaagtccaatatattt---------------------attgtcttgcccttta-agaagaaatctgcc-TGT---------CACAGAAA---------CT-G-ACTTT------------------G-CCTTTTACAGAAAAAAGTCTGTTAGTTTTCTTATCTTCT--GT
+q felCat3.scaffold_217398 68695559586--97779-4666359796665697596977979-----------------------99979999797999679-9999999999969999999999---------------------9977999999999999-99989998999999-979---------99999999---------99-9-99999------------------9-999999999999999999999999999999996999999--99
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13046038 158 + 24938454 tgctcattcat--ttatg-tgttgtcagtgtctgctgttgtgctacaatggtagaattgagtagttgtaacagggagagtgtgg-tcccc-aaagcctaaaatattt---------------------actgtgttgcccttt------------------------------acagaag---------aa-g-tctCT------------------A-TTAGTCTTA----------------TTTTCTTATCTTCT--GT
+q equCab1.chr31 99999999999--99999-99999999999999999999999999999999999999999999999999999999999999999-99999-9999999999999999---------------------999999999999999------------------------------9999999---------99-9-99999------------------9-999999999----------------99999999999999--99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13722647 180 - 95030419 tgcccattcat--ttaag-tgttatctgtgactacttttgtgttactgtggtagagttgggtagttgtttcaggaacagtgtat-ccacttaaagctgaaaatattt---------------------gctctcttggcctttacagaaaaagttttcc-TTT---------TATGGAAA---------AA-ATTCTGT------------------A-TTCATTTTA----------------TTTTCCTATCTTTT--AT
+q bosTau3.chr9 99999999999--99999-99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999---------------------9999999999999999999999999999999-999---------99999999---------99-9999999------------------9-999999999----------------99999999999999--99
+i bosTau3.chr9 C 0 C 0
+s sorAra1.scaffold_256646 98885 217 - 121936 TGCATGCTTGT--TCTTGTTAGCCTCTGAGGCTGCCCTTAGGCTATAGCGATGGAGCTGAAAACTTGTGTCA-----ATTGGAA-TCCTCAAAAGAGCCG-ATATTTACTATCTTACTGTTTACACAGCTTGCCTTTCCt-----agaaggaatatata-tatatatatatgtatataat---------at-a-tatatatatacacacacacacaca-tatatatta----------------ttttctttcttact--at
+q sorAra1.scaffold_256646 99999999999--99999999999999999999999999999999999999999999999999999999999-----9999998-999999999999999-999999999999999999999999999999999999999-----99999999999999-99999999999999999999---------99-9-999999999999999999999999-999999999----------------99999999999999--99
+i sorAra1.scaffold_256646 C 0 C 0
+s dasNov1.scaffold_13068 10109 173 + 27231 ----ctgtcaa--ctatg-tgttacgtatggctgcatttgtgctacaacagccagggcgagtagttgccgtggaaaccgtgtgt-tctcctaaaacattggctgtc--------------------------tcttgccctctacagaataagtttgccTTTT---------TACAGGAA---------AA-G-GTTGT------------------A-TTGGTCCTG----------------TTTTCTAATCTTTTTCAT
+q dasNov1.scaffold_13068 ----3889759--99999-99999999999988997999999899999989999999999999999999999999999999999-999999999999999999999--------------------------9989999999999999999999879999988---------69978999---------99-9-97779------------------8-788799689----------------998999999999999979
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 59951 154 + 124190 -----------------------------ggctgccttcgtgattcaggggccgagctgagtagttgtgactaagaccacatgg-ttccccaaagcctaaaatattt---------------------acgatcttgctctttacagaagaaaattgcc-ATT---------TACAGAAA---------AACA-ACTGC------------------G-TTAGGCTTA----------------TTTTCTTATCGTTT--AT
+q loxAfr1.scaffold_4233 -----------------------------9999999999999999999999999999999999999999999999999999999-9999999999999999999999---------------------9999999999999999999999999999999-999---------99999999---------9999-99999------------------9-999999999----------------99999999999999--99
+i loxAfr1.scaffold_4233 I 288 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e rheMac2.chr4 108495185 551 + 167655696 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=91219.000000
+s mm9.chr10 3186890 29 + 129993255 AAAGC---ACAGAATGATGGAGACAGCTGTTA
+s cavPor2.scaffold_284118 82417 32 - 169015 aaGGAGTGAAAGGGTGGGGGAGACAATCCTGA
+q cavPor2.scaffold_284118 99999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230004867 29 - 267910886 AAAGC---ACAGAATGATGGGGACAGCTGTTA
+q rn4.chr1 99999---999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16610923 28 - 173908612 -AAGG---AAAAAATGATGGAAATACTCCTGA
+q panTro2.chr6 -9999---999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16087496 28 - 170899992 -AAGG---AAAAAATGATGGAAATACTCCTGA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108495736 8 + 167655696 -AAAG---AAAA--------------------
+q rheMac2.chr4 -9999---9999--------------------
+i rheMac2.chr4 I 551 C 0
+s otoGar1.scaffold_85253.1-5280 5193 29 - 5280 AAAGA---ACAAAAAGATGGAAATACTCCTGA
+q otoGar1.scaffold_85253.1-5280 88999---999999999899998999999589
+i otoGar1.scaffold_85253.1-5280 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 389863 29 - 498454 AAAGA---ATAAAGAGATGGAGATTGTCCTGA
+q tupBel1.scaffold_114895.1-498454 99999---999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78256382 29 - 125616256 GGAGA---ATAAAAAGATGGAGATGGTCCTGA
+q canFam2.chr1 99999---999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 118367 29 - 219823 GGAGA---ATAAAACACTGGAGATAATCCTGA
+q felCat3.scaffold_217398 99999---999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13046196 28 + 24938454 AAAGA---ATAAAAAGATGGAGATAGTCCT-A
+q equCab1.chr31 99999---9999999999999999999099-9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13722827 29 - 95030419 AAAGA---ATAAAAAGATGAAGATGGTCCTGA
+q bosTau3.chr9 99999---999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s sorAra1.scaffold_256646 99102 23 - 121936 GAAGA---ATGAAA------AGACAGTTGTGA
+q sorAra1.scaffold_256646 99999---999999------999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s dasNov1.scaffold_13068 10282 29 + 27231 AAGGA---ACCAGGAGGTGGGGATAGCCCTGA
+q dasNov1.scaffold_13068 99999---999999999999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60105 29 + 124190 AAAGA---ATAAAAAGATGGGGAGAGTCCTGA
+q loxAfr1.scaffold_4233 99999---999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e echTel1.scaffold_324002 33976 1740 + 49972 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=65898.000000
+s mm9.chr10 3186919 18 + 129993255 ATGGGG-----ATGCCATT-TTCA
+s cavPor2.scaffold_284118 82449 23 - 169015 ATGGAAATGTCATGTCATC-TTCT
+q cavPor2.scaffold_284118 9999999999999999999-9999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230004896 18 - 267910886 ATGAGG-----ATGCCATT-TTCA
+q rn4.chr1 999999-----99999999-9999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16610951 18 - 173908612 ATGAAA-----ATGTCACC-TTCT
+q panTro2.chr6 999999-----99999999-9999
+i panTro2.chr6 C 0 I 311
+s hg18.chr6 16087524 6 - 170899992 ATGAAA------------------
+i hg18.chr6 C 0 I 323
+s rheMac2.chr4 108495744 16 + 167655696 --GAAA-----ATGTCATC-TTCT
+q rheMac2.chr4 --9999-----99999999-9999
+i rheMac2.chr4 C 0 C 0
+s otoGar1.scaffold_85253.1-5280 5222 19 - 5280 ATGAAA-----ATGTCATCGGTCT
+q otoGar1.scaffold_85253.1-5280 978999-----9975234112668
+i otoGar1.scaffold_85253.1-5280 C 0 n 0
+s tupBel1.scaffold_114895.1-498454 389892 17 - 498454 ATGAGG-----ACATCATC-ATC-
+q tupBel1.scaffold_114895.1-498454 999999-----99999999-999-
+i tupBel1.scaffold_114895.1-498454 C 0 I 255
+s canFam2.chr1 78256411 18 - 125616256 ACGAAA-----ATGCCCTC-TTCT
+q canFam2.chr1 999999-----99999999-9999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 118396 18 - 219823 ATGAAA-----ATGTCATA-TTCT
+q felCat3.scaffold_217398 999999-----99999999-9999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13046224 18 + 24938454 ATGAAA-----ATGTCATC-TTCT
+q equCab1.chr31 999999-----99999999-9999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13722856 18 - 95030419 ATGAAC-----ATGTCATC-TTCT
+q bosTau3.chr9 999999-----99999999-9999
+i bosTau3.chr9 C 0 C 0
+s sorAra1.scaffold_256646 99125 18 - 121936 AAGAAA-----ATGCCGTC-TTCG
+q sorAra1.scaffold_256646 999999-----99999999-9999
+i sorAra1.scaffold_256646 C 0 C 0
+s dasNov1.scaffold_13068 10311 17 + 27231 ATGAAA-----GT-TATTT-TTCT
+q dasNov1.scaffold_13068 999999-----99-99999-9999
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60134 18 + 124190 ATGAAA-----ATGCCATT-TGTT
+q loxAfr1.scaffold_4233 999999-----99999999-9999
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 35716 18 + 49972 ATGAAA-----ATGTCATT-TTCT
+q echTel1.scaffold_324002 999999-----99999999-9999
+i echTel1.scaffold_324002 I 1740 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e ponAbe2.chr6 16392606 737 - 174210431 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=106892.000000
+s mm9.chr10 3186937 29 + 129993255 AAGTCGAA--ATGAAAAATGC---TATATGTC-CA
+s cavPor2.scaffold_284118 82472 30 - 169015 AAATTGAA--ATGAAAACTGTG--CCAgtttt-ca
+q cavPor2.scaffold_284118 99999999--999999999999--99999999-99
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230004914 29 - 267910886 AAGTTGAA--ATGAGAAATGC---TAAATGTT-CA
+q rn4.chr1 99999999--99999999999---99999999-99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16087853 32 - 170899992 AAATTGAA--GTGAGAAATAGGTTCTGATTTT-CA
+i hg18.chr6 I 323 C 0
+s panTro2.chr6 16611280 32 - 173908612 AAATTGAA--GTGAGAAATAGGTTCTGATTTT-CA
+q panTro2.chr6 99999999--9999999999999999999999-99
+i panTro2.chr6 I 311 C 0
+s ponAbe2.chr6 16393343 32 - 174210431 AAATTGAG--GTGAGAAATAGATTCTGATTTT-CA
+i ponAbe2.chr6 I 737 C 0
+s rheMac2.chr4 108495760 32 + 167655696 AAATTGAA--GTGAGAAATAGGTTCTGATTTT-CA
+q rheMac2.chr4 99999999--9999999999999999999999-99
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78256429 28 - 125616256 AAACCAAA--ATGAGAAATCGAT--TGATTTT---
+q canFam2.chr1 99999999--9999999999999--9999999---
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 118414 31 - 219823 AAGCTGAA--GTGAGATACAGGTTCTGATTTC--G
+q felCat3.scaffold_217398 99999999--9999999999999999999999--9
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13046242 32 + 24938454 AAACGGAA--ATGAGAAATGGGTTCCAATTTT-CA
+q equCab1.chr31 99999999--9999999999999999099999-99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13722874 33 - 95030419 CCATTGAA--ATGACAAATGGGGTTTGATTTTTTT
+q bosTau3.chr9 99999999--9999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s sorAra1.scaffold_256646 99143 34 - 121936 AAACGGACATATGAGAAGTGGGTTCTGACTTA-CG
+q sorAra1.scaffold_256646 99999999999999999999999999999999-99
+i sorAra1.scaffold_256646 C 0 C 0
+s dasNov1.scaffold_13068 10328 32 + 27231 AAATAGAA--ATGAGAAATGGGTTCTGACCGT-CA
+q dasNov1.scaffold_13068 99999999--9999999999999999999999-97
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60152 32 + 124190 AAATTAAA--ATGAGACATGAGTTCTGATTTT-CA
+q loxAfr1.scaffold_4233 99999999--9999999999999999999999-99
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 35734 32 + 49972 AAATTAGA--CTGAAAAGCAGGGTCTGCTTTT-CA
+q echTel1.scaffold_324002 99999999--9999999999999999999999-99
+i echTel1.scaffold_324002 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e calJac1.Contig1260 63411 1461 - 523245 I
+e tupBel1.scaffold_114895.1-498454 389909 255 - 498454 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=498680.000000
+s mm9.chr10 3186966 135 + 129993255 CGTCTG-TTTCTGTG-ACTATAAAAA-GCACT-GTGAGTTTCACAGATACT----CTGTTTAAACAACTGGTGTTTGTGCTCGACATGATCAACCAAAGAAATGGCAGCTAGATGGG----CAGGAATGTGAACT-TTGCT--------------C--CAGAGT
+s echTel1.scaffold_324002 35766 139 + 49972 TGTCTG--TTTAGTT-ACTATATAAGTGCATT--TGAGTTAACAAGATCCTTGTGATATTTAAATAGCTGA------TGCTTAAAAT----AACCGATTGGCAG--AGCGAGGTGGG----GAAACGCGTGAG-T-TAGTGGCATTTTGCAGAGCG--TGCGTG
+q echTel1.scaffold_324002 999999--9999999-9999999999999999--9999999999999999999999999999999999999------9999999999----9999999999999--99999999999----999999999999-9-99999999999999999999--999999
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 60184 147 + 124190 CGTCTG-TTTTTGTT-ACTGTATAAA-GCATT--CGAGTTTAACACATACTTGTGGTATTGAAATCACTGATGTTCGTGCTTAAAGT----CACCTACGGAAAGGTAGCTAGATGGG----GGAACATGCGAA-T-TAGTTACAGTTTTCAGATTC--TGAGAT
+q loxAfr1.scaffold_4233 999999-99999999-9999999999-99999--99999999999999999999999999999999999999999999999999999----99999999999999999999999999----999999999999-9-99999999999999999999--999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 10360 115 + 27231 CGTCTG-TTTTTGTT-GCTGTAGGAA-GCATT--GGCGTTGAACAGATGTTTGTGATATTTCAAT-ACTGAAACTTAGGCTTGAGGT----CATCTATGAATGG---------TGGC----G---------------AGTTACATTTTGCAGG-----------
+q dasNov1.scaffold_13068 999999-99999999-9999999999-99899--9999999999999999999999999998799-999999999999999999999----9699999999999---------9999----9---------------9999996999999699-----------
+i dasNov1.scaffold_13068 C 0 C 0
+s sorAra1.scaffold_256646 99177 144 - 121936 AATCTG-CTCTTGTTAACTATTAGCA-GAGCATTTGGGCTTCACAG-------TGAAATGGGAATAACTGATGTTCACGCT-GACATAGTCCAGCTGTGAAACGTGAGCT----GGG----AAAGAATGTGAGCT-TAGATCCTTCTTGCAGGTGA-TCGAGCT
+q sorAra1.scaffold_256646 999999-9999999999999999999-9999999999999999999-------9999999999999999999999999999-9999999999999999999999999999----999----99999999999999-99999999999999999999-9999999
+i sorAra1.scaffold_256646 C 0 C 0
+s bosTau3.chr9 13722907 158 - 95030419 GGTCTG-TTTTTGTT-AC-GTAAAAA-TCATTTTTATATTTTACAGATATTTTTGATAGTTTAATAACTGATGCTGGTGCTTGAAATATTCAGCCTATGAAATGGCAGCTGGATGGGGAAAAAGAAATGTGAACT-TAGTTACATTTCGCAGTTGA-CTGAGTT
+q bosTau3.chr9 999999-99999999-99-9999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999-9999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13046274 155 + 24938454 CATCTG-TTTTTGTT-GCTATAAAAA-TCGCTTTTATGTTTCATAGATAGTTGTAGTATTTAAATAACTGATGTTTGTGCTTGAAATAGTCAACCTATGAAATGGTAGCTAGGTGGG----AAAAAATGTAAACT-TAGTTACATTTCGTAGATGC-CTGAGCT
+q equCab1.chr31 999999-99999999-9999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999-99999999999999999999-9999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 118445 155 - 219823 TGTGTG-TTTTTGGT-ACTATCAACA-GCTTTTTTATGTTTCACAGGTATTTGTGATCTTTAAATAACCGATGTGTTTGCTCATGGGAGTCAGCCTGCGGAGTGGTAGCTAGAAGGG----AAAAAATGTGAACT-TTGGTACCCTTTGCAGATGA-TTGAGCT
+q felCat3.scaffold_217398 999999-99999999-9999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999-99999999999999999999-9999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78256457 155 - 125616256 CATGTA-TTTTTGTT-ACTATAAAAA-CCTTTTTTATGTTTCCCAGGTATCTGTGATATATAAATAACCGCTGCTTGTGCTTGCAGTAATCACCTTATGAAATGGTAGCTAGGTGGG----AAAGAATGTGAACG-TAGTTACACTTTGCAAGAGG-ATTAGCT
+q canFam2.chr1 999999-99999999-9999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999-99999999999999999999-9999999
+i canFam2.chr1 C 0 C 0
+s calJac1.Contig1260 64872 123 - 523245 ---------------------aaaaa-GCGGT--TGAGTTTCGCAGATGTTGGTGA-ATTTAAATAACTAATAATAGCACTTGACAT----GACCTATGAAATGGCAGCTAGATAGG----AAAAAAGGTGGCCT-T-----CGTTTTGTAGAGGA--CGGGTT
+i calJac1.Contig1260 I 1461 C 0
+s tupBel1.scaffold_114895.1-498454 390164 141 - 498454 CATGTG-GTTTTGTT-ACTGTAGAAA-GCAGT--TGAATTT--CAGATATTTGTGATATTTAAATAACTGATGTTTGTGTTTGAAATAATCAACCAATGGAATG-----------GG----AAAAAGTGTGAATG-TTACTAAATTTTGCAGATGATTTGAGCT
+q tupBel1.scaffold_114895.1-498454 999979-99997999-9979999999-99999--7999999--9999999999999999999999999999999999999999999997999899999999999-----------99----99999999999999-9999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 255 C 0
+s hg18.chr6 16087885 138 - 170899992 TGTCTG-ATTTTGTT-ACTATAAAAA-GCGGT--TGAGTTTCACAGATATTTGTGATATTTAAATAACTGATATTTGCACTTGACAT----GACCTATAAAATGG----------GA----AAAAAATGTGGCCT-TCATTACATTTTGTAGATGA--TGGGTT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16611312 138 - 173908612 TGTCTG-GTTTTGTT-ACTATAAAAA-GCGGT--TGAGTTTCACAGATATTTGTGATATTTAAATAACTGATATTTGCCCTTGACAT----GACCTATAAAATGG----------GA----AAAAAATGTGGCCT-TCATTACATTTTGTAGATGA--TGGGTT
+q panTro2.chr6 999999-99999999-9999999999-99999--99999999999999999999999999999999999999999999999999999----99999999999999----------99----99999999999999-99999999999999999999--999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16393375 138 - 174210431 TGTCTG-GTTTTGTT-ACTATAAAAA-GCGGT--TGAGTTTCACAGATATTTGTGATATTTAAATAACTGATATTTGCACTTGACAT----GACCTATAAAATGG----------GG----AAAAAATGTGGCCT-TCATTACATTTTGTAGATGA--TGGGTT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108495792 139 + 167655696 TGTCTG-GTTTTGTT-ACTATAAAAA-GCGGT--TGAGTTTCACAGATATTTATGATATTTAAATAACTGATATTTGCACTTGACAT----GACCTATGAAATGG----------GA----AAAAAACGTGGCCTATCATTACATTTTGTAGGTGA--TGGATT
+q rheMac2.chr4 999999-99999999-9999999999-99999--99999999999999999999999999999999999999999994997999999----99999999999999----------93----99999989775555066889799999999899999--999999
+i rheMac2.chr4 C 0 C 0
+s rn4.chr1 230004943 135 - 267910886 CGTCTG-TTTCTGTT-ACTATAAAAG-GCACC-GTGAGTTTCACAGATACT----CTGTTTAAATAACCGGTGTTTGTGCTCGACACGACCAACCAAAGAAATGGCAGCTAGATGGG----CAGGAATGTGAACT-TTGCT--------------C--CAGAGC
+q rn4.chr1 999999-99999999-9999999999-99999-999999999999999999----99999999999999999999999999999999999999999999999999999999999999----99999999999999-99999--------------9--999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 82502 150 - 169015 tgtctgttttttgtt-actaaaaaaa-gaatt-ttgaatttcACAGATATTCATGCTGTTTAAGTAACTGATGTTTATGCTTGAAAT----AACGTAAGAAATGGCAGCTAGATGGG----GAAAAATGtgacct-ttattatattttgCAGATGC--TTGGGT
+q cavPor2.scaffold_284118 999999999999999-9999999999-99999-999999999999999999999999999999999999999999999999999999----99999999999999999999999999----99999999999999-99999999999999999999--999999
+i cavPor2.scaffold_284118 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e monDom4.chr2 106220993 1432 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=56249.000000
+s mm9.chr10 3187101 57 + 129993255 TTCGCTGTAGAGGG-CAGG------------TGTGT-GAACTCTGCCC----------AAGT----CCTGTATGGCTA---C-ACCTG-T
+s cavPor2.scaffold_284118 82652 59 - 169015 TTTGCTATA---AG-TGAG------------TGAATAGAATCCTGCCT----------GGTC----CTGGTGCTTCAATATC-ACCTGAA
+q cavPor2.scaffold_284118 999999999---99-9999------------99999999999999999----------9999----9999999999999999-9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230005078 57 - 267910886 TTCGGTATACAGGG-TGGG------------TGTGT-GAACCCTGCCC----------AAGT----CCTGTGTGGCTG---T-ACCTG-T
+q rn4.chr1 99999999999999-9999------------99999-99999999999----------9999----999999999999---9-99999-9
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108495931 45 + 167655696 TTGGCTTTA--ACA-CGAA------------TGAGT-AAATCCTG-CT----------GGGT-----CTG-------A---C-ACTA--A
+q rheMac2.chr4 999999999--999-8999------------99999-66666666-66----------6655-----553-------4---4-3332--3
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16393513 48 - 174210431 TTGGCTTTA--ACA-TGAA------------TGAGTAAAATCCTG-CT----------GGGT----CCTG-------A---C-ACTAG-A
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16611450 48 - 173908612 TTGGCTTTA--ACA-TGAA------------TGAGTAAAATCCTG-CT----------GGGT----CCTG-------A---C-ACTAG-A
+q panTro2.chr6 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-99999-9
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16088023 48 - 170899992 TTGGCTTTA--ACA-TGAA------------TGAGTAAAATCCTG-CT----------GGGT----CCTG-------A---C-ACTAG-A
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 390305 48 - 498454 ATCACTGGA--ACA-TGAG------------CAAATTAAATCCTG-CC----------AGGT----CCTG-------A---T-GCTTA-T
+q tupBel1.scaffold_114895.1-498454 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-99999-9
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 64995 48 - 523245 TTGGTTTTA--ACA-TGAA------------TGAGTAAAATCCTG-CT----------GGGT----CCTG-------A---C-TCTGG-A
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78256612 48 - 125616256 TTGGCTTGA--ACA-TAAA------------TGAGTTAAATCCTG-CC----------AGGT----TGTG-------A---C-TCTTG-C
+q canFam2.chr1 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-99999-9
+i canFam2.chr1 C 0 I 11
+s felCat3.scaffold_217398 118600 49 - 219823 TTGGCTTGC--ACGTTGAG------------TGAGTTAAATCCTG-CC----------AGGT----TTTG-------A---C-TCTTG-C
+q felCat3.scaffold_217398 999999999--99999999------------99999999999999-99----------9999----9999-------9---9-99999-9
+i felCat3.scaffold_217398 C 0 I 11
+s equCab1.chr31 13046429 48 + 24938454 TTGGCTTGA--ATG-TGAA------------TGAGTTAAATTTTT-CC----------AGGT----TCTG-------A---T-GCTTA-C
+q equCab1.chr31 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-99999-9
+i equCab1.chr31 C 0 I 11
+s bosTau3.chr9 13723065 47 - 95030419 TTGGCTTGA--ACA-TGAG------------TGAGTTAAATCTGG-CC----------AGGT----TCTG-------A---C-TCTT--C
+q bosTau3.chr9 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-9999--9
+i bosTau3.chr9 C 0 I 11
+s sorAra1.scaffold_256646 99321 55 - 121936 TTGGCTTGC--ATG-----------------GGAGTTAAATCCTG-CCTCTTGCCCAGCGCG----TGTG-------A---TGGCATG-G
+q sorAra1.scaffold_256646 999999999--999-----------------99999999999999-9999999999999999----9999-------9---9999999-9
+i sorAra1.scaffold_256646 C 0 I 42
+s dasNov1.scaffold_13068 10475 45 + 27231 -TAGCTTTA--ACC-TGAG------------CCAGTTAAATCCTG-AC----------GC------TGTG-------A---T-GCCTG-C
+q dasNov1.scaffold_13068 -99999999--999-9999------------99799999999979-99----------99------9999-------9---9-99989-9
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60331 48 + 124190 TTGGCTTTA--ACA-TGAA------------TGAGTTGACCCCTG-CC----------GTGG----TCTG-------A---C-CCTTG-G
+q loxAfr1.scaffold_4233 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-99999-9
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 35905 45 + 49972 CGGGCTTTG--GTG-TGAG------------TATATTAGACCCTG-CC----------GTGT----TCTG-------G---C-CCT----
+q echTel1.scaffold_324002 999999999--999-9999------------99999999999999-99----------9999----9999-------9---9-999----
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106222425 57 - 541556283 -----TTTG--ATG-CGCACTGCAGGTCTGCTGCTTCTGCTTTTG-CT----------CAGTGTCCCCTT-------G---T-ATAT---
+q monDom4.chr2 -----9999--999-999999999999999999999999999999-99----------999999999999-------9---9-9999---
+i monDom4.chr2 I 1432 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=26341.000000
+s mm9.chr10 3187158 46 + 129993255 GCTT------------------------CCTAAG------GAATTCATTCAGATGTGGCATAA----AAA-----CACC--------------CATAAA
+s cavPor2.scaffold_284118 82711 45 - 169015 GCTA------------------------CCTGGG------TAGTTCCTTTACATGTGG-ACTA----AAA-----CATC--------------TGTAAG
+q cavPor2.scaffold_284118 9999------------------------999999------999999999999999999-9999----999-----9999--------------999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230005135 46 - 267910886 GGTT------------------------CCTAGG------CAATCCATTCAGCTGTGGCGTAA----AAA-----CACC--------------CATAAA
+q rn4.chr1 9999------------------------999999------99999999999999999999999----999-----9999--------------999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108495976 46 + 167655696 ATCA------------------------CATGGG------TAGCTTTGTTAGGTGTGGGCCAA----AAA-----CACC--------------TGTAAG
+q rheMac2.chr4 3245------------------------532443------44453333224555555545554----499-----9929--------------997167
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16393561 46 - 174210431 ATTA------------------------CATGGG------TAGCTTTGTTAGGTGTGGGCCAA----GAA-----CACC--------------TGTAAG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16611498 46 - 173908612 ATCA------------------------CATGGG------TAGCTGCGTTAGGTGTGGGCCAA----AAA-----CACC--------------TGTAAG
+q panTro2.chr6 9999------------------------999999------99999999999999999999999----999-----9999--------------999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16088071 46 - 170899992 ATCA------------------------CATGGG------TAGCTTCGTTAGGTGTGGGCCAA----AAA-----CACC--------------TGTAAG
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 390353 58 - 498454 GTTTCACCTGAGGC------------TGCATGGG------TAGCTCCTCCAGGTGTGGCCCAA----AAC-----CACC--------------TGTCAG
+q tupBel1.scaffold_114895.1-498454 99999999999999------------99999999------99999999999999999999999----999-----9999--------------999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 65043 63 - 523245 ATCACACCTGTGGC------------TGCATGGG------TAGCTTCTTTAGGCGTGGACCAG----AAACACCTCACC--------------TGTAAG
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13046488 47 + 24938454 -----------GGC------------TGCAGAGG------GAGCTGTTTTAGGAGTGGGCTAA----TAA-----CACC--------------TGTAAG
+q equCab1.chr31 -----------999------------99999999------99999999999999999999999----999-----9999--------------999999
+i equCab1.chr31 I 11 C 0
+s bosTau3.chr9 13723123 53 - 95030419 -----------GAT------------GTGGCGAGTATTTATAGCTCTTTTAGGCGTGGGCTAA----AAC-----CACC--------------TCCAAG
+q bosTau3.chr9 -----------999------------9999999999999999999999999999999999999----999-----9999--------------999999
+i bosTau3.chr9 I 11 C 0
+s canFam2.chr1 78256671 47 - 125616256 -----------GGC------------TGCGTGAG------TAACTTTTTTAGGCGTGGGCTAA----AAA-----CACC--------------TGTGAG
+q canFam2.chr1 -----------999------------99999999------99999999999999999999999----999-----9999--------------999999
+i canFam2.chr1 I 11 C 0
+s felCat3.scaffold_217398 118660 47 - 219823 -----------GGC------------CGCCCGAG------CAGCTGTTTTAGGTGTGGGAGGA----CAA-----CACC--------------TGTGAG
+q felCat3.scaffold_217398 -----------999------------99999999------99999999999999999999999----999-----9999--------------999999
+i felCat3.scaffold_217398 I 11 C 0
+s dasNov1.scaffold_13068 10520 45 + 27231 ------------AT------------CACAC-CT------TGGATCCCTCAGGTGCAAGCTGA----GAA-----CACG--------------GGGAAG
+q dasNov1.scaffold_13068 ------------79------------99989-99------99999999998999999999799----999-----9899--------------999989
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60379 49 + 124190 ------------ATTCCACCTGAGACTCCATGGG------TAGCTCTCTACGGTGTGGGCTAG----AGA-----C-----------------------
+q loxAfr1.scaffold_4233 ------------9999999999999999999999------99999999999999999999999----999-----9-----------------------
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 35950 40 + 49972 --------------------------TCCAT-GG------TCGCCCCTCAGAATGTGGGCTGACCCCAGA-----C---------------------TG
+q echTel1.scaffold_324002 --------------------------99999-99------999999999999999999999999999999-----9---------------------99
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106222482 47 - 541556283 -------------------------------------------ATTCCCAATTTGTGGCACAA----ATA-----TTCCATTTCCTTAGTATATGTAGG
+q monDom4.chr2 -------------------------------------------99999999999999999999----999-----999999999999999999999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e sorAra1.scaffold_256646 99376 42 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=162621.000000
+s mm9.chr10 3187204 44 + 129993255 GGTA-CTTGTTTACAAACTGGCTGGCAT-GGGT-GGGACTCAGGTC---T-
+s cavPor2.scaffold_284118 82756 45 - 169015 AACATTTTGTTTACAAATCAGTTGGCAT-GAGT-GAGATTCACGTT---T-
+q cavPor2.scaffold_284118 9999999999999949999999999999-9999-999999999999---9-
+i cavPor2.scaffold_284118 C 0 I 1
+s rn4.chr1 230005181 44 - 267910886 GGCA-TTTGTTTACAAACCGGCTGGCAT-GGGT-GAGGCTCGGGTC---T-
+q rn4.chr1 9999-99999999999999999999999-9999-999999999999---9-
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108496022 44 + 167655696 GACA-TTTGTTTATACATGGGTTAGTGT-GGGT-GGGATCAAAGTC---T-
+q rheMac2.chr4 8899-89992799877551878996899-9999-987764176699---9-
+i rheMac2.chr4 C 0 I 1
+s ponAbe2.chr6 16393607 45 - 174210431 GACATTTTGTTTATAAATTGGTTAGTGT-GGGT-GGGATTCAAGTC---T-
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16611544 45 - 173908612 GACATTTTGTTTATAAATTGGTTAGTGT-GGGT-GGGATTCAAGTC---T-
+q panTro2.chr6 9999999999999999999999999999-9999-999999999999---9-
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16088117 45 - 170899992 GACATTTTGTTTATAAATTGGTTAGTGT-GGGT-GGGATTCAAGTC---T-
+i hg18.chr6 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 390411 45 - 498454 GGCATTTTGTTTACAAAGTGGTTGGCAT-GGGT-AGGATTCCAGGC---T-
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999-9999-999999909999---9-
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s calJac1.Contig1260 65106 45 - 523245 GACATTTTGTTTATAAATTGGTTAGTGT-GGGT-GGGATTCAAATC---T-
+i calJac1.Contig1260 C 0 I 1
+s sorAra1.scaffold_256646 99418 44 - 121936 GGCACT-TGACAAACTACTGGTGGGCAGAGGGt-gggtgccaggt----c-
+q sorAra1.scaffold_256646 999999-99999999999999999999999999-99989999999----9-
+i sorAra1.scaffold_256646 I 42 I 1
+s felCat3.scaffold_217398 118707 47 - 219823 GACATTGTGTTTCCACACCGGTTGCCACACGGTGGGGATCCACGTG---T-
+q felCat3.scaffold_217398 9999999999999999999999999999999999999999999999---9-
+i felCat3.scaffold_217398 C 0 I 1
+s canFam2.chr1 78256718 46 - 125616256 GGCATGGTGTTTCCAAACTGGTTGCCGTCCGGT-GGGATCCACGTC---T-
+q canFam2.chr1 999999999999999999999999999999999-999999999999---9-
+i canFam2.chr1 C 0 I 1
+s bosTau3.chr9 13723176 44 - 95030419 GGCATCGTGCTTATAAACTGGCTGGCATAGGGT-GGGATCCACGT------
+q bosTau3.chr9 999999999999999999999999999999999-99999999999------
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13046535 46 + 24938454 TGCATTGTGTTTATAGACAGGTTAGCACGGGGT-GGGATCCACATC---T-
+q equCab1.chr31 999999999999999999999999999999999-999999999999---9-
+i equCab1.chr31 C 0 I 1
+s dasNov1.scaffold_13068 10565 48 + 27231 GGCATTTTGCTTGTAAGCCGCTTGGCATAAGAT-GGGATTCCAGGCCTG--
+q dasNov1.scaffold_13068 999999999999999989999999999999996-999999999999999--
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60428 29 + 124190 ----------------ACCTGTTGGCGCAAGAG-GGAATTCAAGTC-----
+q loxAfr1.scaffold_4233 ----------------99999999999999999-999999999999-----
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 35990 45 + 49972 GGCATTTTGTTTCCAGACCGGCTGGTGTAGGAT-GGGCTCCAGGGC-----
+q echTel1.scaffold_324002 999999999999999999999999999999999-999999999999-----
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106222529 46 - 541556283 AGTATTTTACTTATAAATGGTTCTGTTG-AGTG-GGGAATCAGAGT---TG
+q monDom4.chr2 9999999999999999999999999999-9999-999999999999---99
+i monDom4.chr2 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+e oryCun1.scaffold_214769 82515 10907 - 139458 I
+
+a score=303103.000000
+s mm9.chr10 3187248 68 + 129993255 CTTGTCATGGTGCCACGCTTAGGAAACTGTTCACTTAACTGTC-GGGGTTGGCACCCCTCCCCCTCCCC
+s monDom4.chr2 106222575 62 - 541556283 CCTTTGACAGTGTCATGTTATGGCTATGATTGCTTTAAAAGTCTGGGTTTTGCACAAACTTG-------
+q monDom4.chr2 99999999999999999999999999999999999999999999999999999999999999-------
+i monDom4.chr2 C 0 C 0
+s echTel1.scaffold_324002 36035 60 + 49972 CCTGTCCTGATGTC-CTGTAAGGATGTGGTTTCTTGAAGCGTC-AGGCTGTGGACAAACTAG-------
+q echTel1.scaffold_324002 99999999999999-9999999999999999999999999999-999999999999999999-------
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 60457 51 + 124190 ----TCCTG------CCGCAAGGATGCAGCTTACTTAAATGTC-AGGATTGGGACAAACTGG-------
+q loxAfr1.scaffold_4233 ----99999------9999999999999999999999999999-999999999999999999-------
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 10613 61 + 27231 CTCGCCCTGGTGTCGTGGCAAGGACGCCGTTGACCGAAACGTC-GGGATTGGGGCCAGCCCA-------
+q dasNov1.scaffold_13068 9999999799899999999999999999999999999999999-999997999799999999-------
+i dasNov1.scaffold_13068 C 0 C 0
+s equCab1.chr31 13046582 61 + 24938454 TCTGTTCTGGTGCCATGCTAAGGATGCAGTTTCCCTAACTGTC-AGGATTTGGACAAACTTG-------
+q equCab1.chr31 9999999999999999999999999999999999999999999-999999999999999999-------
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13723220 60 - 95030419 -CAATTGTGGTGCCATGCAAAGGATGCCATTTCCTTAACTGTC-TTGCTTTGGACAAAGTCG-------
+q bosTau3.chr9 -999999999999999999999999999999999999999999-999999999999999999-------
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78256765 61 - 125616256 GTCTGTGTGGTGCCACGTTCAGGATGCAGTTTCCCCAACTGTC-AGGATTTGGACTCATTCC-------
+q canFam2.chr1 9999999999999999999999999999999999999999999-999999999999999999-------
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 118755 61 - 219823 TCCGTTAGGATGCCGTGTGAAGGATGCAGCGCCCCGAACTGTC-AGGATTTGGACCCGGGCC-------
+q felCat3.scaffold_217398 9999999999999999999999999999999999999999999-999999999999999999-------
+i felCat3.scaffold_217398 I 1 C 0
+s sorAra1.scaffold_256646 99463 60 - 121936 ttcatcccAGTGCTATGCAGAGGATGCA-TGCAGTTAACTGTC-AGGGTTTGGATCAACTCC-------
+q sorAra1.scaffold_256646 9999999999999999999999996999-99999999999999-999999999999999999-------
+i sorAra1.scaffold_256646 I 1 C 0
+s calJac1.Contig1260 65152 51 - 523245 CC-GTCCCAGTACCAG---------GCAGTTTACTTAACTGTC-AGGATTTGGACAAACTCG-------
+i calJac1.Contig1260 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 390457 61 - 498454 CCTGTGATGGTGCCATGCCTAGGATGTAGTGTACTTAACTGTC-AGGATTCCGACCAACTCT-------
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999-999999999999999999-------
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s hg18.chr6 16088163 61 - 170899992 CCTGTCCCGGTGCCAGGCTAAAGATGCAGTTTACTTAACTGTC-AGGATTTGGACAAACTCG-------
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16611590 61 - 173908612 CCTGTCCCGGTGCCAGGCTAAAGATGCAGTTTACTTAACTGTC-AGGATTTGGACAAACTCG-------
+q panTro2.chr6 9999999999999999999999999999999999999999999-999999999999999999-------
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16393653 61 - 174210431 CCTGTCCCGGTGCCAGGCTAAAGATGCAGTTTACTTAACTGTC-AGGATTTGGACAAACTCG-------
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108496067 61 + 167655696 CCTGCCCCGGTGCCAGGCTAAAGATGCAGTTTACTTAACTGTC-AGGATTGGACAAAACTCG-------
+q rheMac2.chr4 9899299998862989555776762999899998887789899-999788978917755357-------
+i rheMac2.chr4 I 1 C 0
+s oryCun1.scaffold_214769 93422 60 - 139458 CCTGTCATGGTGTCCTG-TTACTGTGCAGTTTCCTTAAGCGTC-AGGGTTTGGACAAAGTCA-------
+q oryCun1.scaffold_214769 68586238998998869-8676899888889888823111231-348899999976979977-------
+i oryCun1.scaffold_214769 I 10907 C 0
+s cavPor2.scaffold_284118 82802 57 - 169015 CCCATCGTGGTGCCACGCTAAGGATGCAGT----TGGACTGTC-AGCATTTGGACACATTTG-------
+q cavPor2.scaffold_284118 999899999999999999999999799999----999999999-999999999999999999-------
+i cavPor2.scaffold_284118 I 1 C 0
+s rn4.chr1 230005225 66 - 267910886 CTTGTCATGGTGCCATGCTTAGGAAACTGTTCACTTAACTGTC-GGGCTTGGGTGCCCTCCCCCTCC--
+q rn4.chr1 9999999999999999999999999999999999999999999-99999999999999999999999--
+i rn4.chr1 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8785295 2767 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14878047 883 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=2728860.000000
+s mm9.chr10 3187316 251 + 129993255 CTTTCCAGCATTCAGGCTGGTTT-AGTAATGCTCTGAAGC-------TGAGCCAA-G-GGGATATACAATTACATCACCCAGAATGGTGGGA----ATGAGTGT---GTGGG-GATGCTGCCACTGCTGGTCTGCATTCCATCGATTATATAATACTTGCTGCGTTGCGAGTATTCTTTTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGACGCGCAGCTCTTGTTTAGGAGAGTAATGGGGAAAT-TATTTGTGGTTGATAAA
+s ornAna1.chr2 14878930 202 - 54797317 CTTTGCTGCATTCAATATGTGTT-AGTAATGTTGTGAAAC-------AGAGCCAC-G-GGTGTATACAGTTACATCACTGACAGTGGTGGCAAAGAATGCTCTT---CT-----------------------------------ATTCTTTTACCATTGTGGCATTGTATGCATTTTT-GT--CTTAAAATGG---GAAACT----------CTCTGAAATCTGTATTTTTTGTTTAGAAAAGTAATGAGGAAAT-------TTGTTGATAAA
+i ornAna1.chr2 I 883 C 0
+s monDom4.chr2 106222637 241 - 541556283 ----AGAGCATTCAATCATGTTT--GTATTGCTAGGAAGT-------AGTGCCAG-G-AGTGTATACTATTACATCACAGAGAATGGTGGGAAAGAATTGCCTC-----AAT-TATTTTGCCATTGCTGGTCTGAGTTCCATTGACTATATAACACTTACTGCATTGTCTGTA------TT--CTTAAAATGGACAGAGCCT-TGTCTTCCTTTCTGAAATGTACTGCCCTTATTTGGG-GGGAAATGGGGAATT-TATTTGTAGTCGATAAA
+q monDom4.chr2 ----9999999999999999999--999999999999999-------99999999-9-9999999999999999999999999999999999999999999999-----999-999999999999999999999999999999999999999999999999999999999999------99--9999999999999999999-999999999999999999999999999999999999-999999999999999-99999999999999999
+i monDom4.chr2 C 0 C 0
+s echTel1.scaffold_324002 36095 254 + 49972 ----GCAACATTCAAGTTGTGTC-TGTAATGTAAGGAGCCAGGCCAGCTGACCAG-C-TGCATATCCGATTACAACACTGAGAAGGGTGGGAAAGAATGTGCT----GGGAG-CACTTGGCCGAGGTTGGTCTG-GGCCGATCGATTACATAACACTTGCTGCATTGTGTG---CTTCCTC--CTGAAAATGGACAGAGCCT-TGTCTCCTGCTCCGAGATGCAGCCTTCTTTTCTAGGAAAGCTGTGGGGAAATGTATTTGAGGCTGATGAA
+q echTel1.scaffold_324002 ----9999999999999999999-9999999999999999999999999999999-9-999999999999999989996699999997999999999879795----99999-999968999999999899979-989999989999999998999799769999698989---7899769--9499999798999997999-9999999787999999757866889989999998999999899587889996899965679997997999
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 60508 251 + 124190 ----GCAGCATTCAAGCTGGGTT-AGTAATGCTAGGAACC-------CGAGCCAG-G-GGCATATACAATGACGTCACTGAGAATGGTGGGAAAGAATGTGCTC---CTGAG-GACTTTGCCATGGCTGGTCTGCGTTCCGTTGATTATATAACACTTGCTGCATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCCAAGATGCACTGCTCTTGTTTGGGAAAGTAATGGGGAAAT-TATTTGTAGTTGATAAA
+q loxAfr1.scaffold_4233 ----9999999999999999999-9999999999999999-------99999999-9-9999999999999999999999999999999999999999999999---99999-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 10674 243 + 27231 ----GTGGCTTTCGAGCTGGCTT-AGCCGAGCTGTGAGC--------CGAGCCAA-G-GATATCTACGGTTACGTCACTGAGCACGGTGGGAAAGAATGCGCAC---CCGGT-GAAGCTGCCCTGCCGGCT----GTCCCCCCGATTATCTAACGCTTGCTGCATTGTGTG---TATTCTT--CTTAAAATGGACAGAGCCT-TATCTCCGGCTCTGGGGTGCACCGTTCCTGTTTAGGAAAGTAACGGGGAATT-TATTTGTAGTAAATGAA
+q dasNov1.scaffold_13068 ----9899999999999999999-999999999989999--------99999999-9-9998999999999999999989999999999999999999999999---99998-999999999999999999----999999999999999999999999999999999999---9999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+s equCab1.chr31 13046643 251 + 24938454 ----GCAGCATTCAGGCTGGCTT-AGTAATGCTATGAACC-------TGAGCCAG-G-GGTATATACAATTACATCAGTGAGAATGGTGGGAAAGAATGTGCTC---CCAAT-TATTTTGCCATTGCTGGTCTGCGTTCCGTTGATTATATAACACTTACTGCATTGTGCGTATTCTTCTT--CTTAAAATGGACAGAGGCT-TGTCTTCTGCTCTGAGATGTGCTGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTGGTTGATAAA
+q equCab1.chr31 ----9999999999999999999-9999999999999999-------99999999-9-9999999999999999999999999999999999999999999999---99999-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13723280 238 - 95030419 ----GCAGCATTCAGACTGCTCT-------GCTGTGAACC-------TGAGCCAA-G-GGCATATACAATTACATCACTGAGAATGGTGGGAAAAAATGTGCTG---CCGAT-TGCT-TGCCATTGGCAGTCCGCGTCCCGTTGATTACATAACACTTGCTGCATTCTGCGTG---TTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGATGCCCTACACTTGTTTAGGAAAGTAACGGGGGA----AATTGTGGTTGATGAA
+q bosTau3.chr9 ----9999999999999999999-------9999999999-------99999999-9-9999999999999999999999999999999999999999999999---99999-9999-9999999999999999999999999999999999999999999999999999999---99999--9999999999999999999-99999999999999999999999999999999999999999999999999----9999999999999999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78256826 252 - 125616256 ----GCAGCATTCAGGCTGGGTTAAGTAACGCCGTGAACC-------TGAGCCAG-G-GGCATATACAATTACATCACTGAGAATGGTGGGAAAGAATGTGTTC---CCGAT-TATTTTGCCATTGCTGGTCTGCGTTCCGTTGATTATATAACACTTGCTGCATTGTGCATATTCTTCTT--CTTAAAATGGACAGAGCTT-TGTCTCCTGCTCTGAGATGCGCTGCTCTTGTTTACAAAAGTAATGGGGAAAT-TATTTGTGGTTGATAAA
+q canFam2.chr1 ----999999999999999999999999999999999999-------99999999-9-9999999999999999999999999999999999999999999999---99999-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 118816 250 - 219823 ----GCAGCATTCAGTCTGGGTTAAGTAATGCTGTGAACC-------TGAGCCAG-G-GGTATATACAATGACATCACTGAGAACGGTGGGGAAGAA--TGTTC---CCGAT-GATTCTGCCATTGCTGGTCTGCGTTCCGTTGATTATATAACTCTTACGGCGCTCTGCATGTTCTTCTT--CTTAAAATGGACAGAGCTT-TGTCTCCTGCTCTGAGATGCGCTGCTCTTGTTTACGAAACTAACGGGGAAAT-TATTTGTGGTTGATAAA
+q felCat3.scaffold_217398 ----999999999999999999999999999999999999-------99999999-9-999999999999999999999999999999999999999--99999---99999-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s sorAra1.scaffold_256646 99523 245 - 121936 ----CCAGCATTCACGCTGGGTT-AGTAATGCTGGGAAGC-------CGGGCCAGAG-GGTATATACAGTTACAGCAGGGAGAATGGTGGGAAAGAATGTGTTC---CTGCT-CATTTTGCCATTACGGGGCGGCCTTTGGTTGATTATATAACACTTGCCGCATTGTGCGTA------TC--CTTAAAACGGACAGAGCC--TGTCTTCCGCTCGGAGAGGTGCTGCTCTTGTTTGGGCAAGTGACAGTGAACT-TCCTGGTGGTTGATGAA
+q sorAra1.scaffold_256646 ----9999999999999999999-9999999999999999-------9999997999-9999999999999998999999999999999999999999999999---99999-999999999999999999999999999999999999999999999999999999999999------99--999999999999999999--9999999999999999999999999999999999999999999999999999-99999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s calJac1.Contig1260 65203 251 - 523245 ----ATGGCATTCAGGCTGGGTT-AGTAACTCCCTGAGCC-------CGAGCCAG-G-GGTATATACAATTACATCACTGAGAATGGTGGGAAAGAATGCGCTG---CTGAT-GATTTTGCCATCACTGGTCTGCGTACTGTTGATTATATAACACTTGCTGCATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCACTGAGATGTGCCGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTGGTTGACAAA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 390518 238 - 498454 -----CAGCATTCACGTTGGGTT-AGTCATGCTCTGAACC-------TGAGCCAG-G-GGTATATACAATTACATCACTGAGAATGGTGGGAAAGAATGTGCTC---CCCAG-GATTTTGCCATGGCTGCGCTATGCTCCGTTGATTATATAACACTTGCTACATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGATGCACTGCTCTTGTTTA------------GGAAAT-TATTTGTGGTTGATAAA
+q tupBel1.scaffold_114895.1-498454 -----999999999999999999-9999999999999999-------99999999-9-9999999999999999999999999999999999999999999999---99999-99999999999979999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999------------999999-99999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16088224 251 - 170899992 ----ACAGCATTCAGGCTGGGTT-AGTAATGCCCTGAACC-------CCAGCCAG-G-GGTATATACAATTACATCACTGAGAATGGTGGGAAAGAATGTGCTG---CTGAT-GATTTTGCCGTCGCTGGTCTGCGTACTGTTGATTATATAACACTTGCTGCATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGATGTGCTGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTAGTTGATAAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16611651 251 - 173908612 ----ACAGCATTCAGGCTGGGTT-AGTAATGCCCTGAACC-------CCAGCCAG-G-GGTATATACAATTACATCACTGAGAATGGTGGGAAAGAATGTGCTG---CTGAT-GATTTTGCCGTCGCTGGTCTGCGTACTGTTGATTATATAACACTTGCTGCATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGATGTGCTGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTAGTTGATAAA
+q panTro2.chr6 ----9999999999999999999-9999999999999999-------99999999-9-9999999999999999999999999999999999999999999999---99999-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16393714 251 - 174210431 ----ACAGCATTCAGGCTGGGTT-AGTAATGCCCTGAACC-------CCAGCCAG-G-GGTATATACAATTACATCACTGAGAATGGTGGGAAAGAATGTGCTG---CTGAT-GATTTTGCCGTCGCTGGTCTGCGTACTGTTGATTATATAACACTTGCTGCATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGATGTGCTGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTAGTTGATAAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108496128 251 + 167655696 ----ACAGCATTCAGGCTGGGTT-AGTAATGCCCTGAACC-------CCAGCCAG-G-GGTATATACAATTACATCACTGAGAATGGTGGGAAAGAATGTGCTG---CTGAT-GATTTTGCCATCGCTGGTCTGCGTACTGTTGATTATATAACACTTGCTGCATTGTGTGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTCTGCTCTGAGATGCACTGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTAGTTGATAAA
+q rheMac2.chr4 ----7388989999899999999-8999959999994987-------76749949-9-9999995589998998995999959999966777777766666677---77777-76677767666667666565999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i rheMac2.chr4 C 0 C 0
+s oryCun1.scaffold_214769 93482 251 - 139458 ----GCAGCATTCAAGCTGGGTT-AGTAATGCTGTGAACC-------CGAGCCAG-G-GGTCTATACAATTACATCACTGAGAATGGTGGGAAAGAATGCGCTC---CCCAT-TAGGTTGCCATGGCTGGGCTGCGTTCCGTTGATTATATAACACTCGCTGCACTGTGCGTGTTCTTCTT--CTTAAAATGGACAGAGCCT-TGTGTTCTGTGCTGAGATGCGCCACTCTTGTTTAGGAAAGTAATAGGGAAAT-TATTTGTGGCTGATAAA
+q oryCun1.scaffold_214769 ----9899999997999999999-9999999999999999-------99999979-9-9999999999999999999999999999999999999999999999---99999-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 82859 251 - 169015 ----CCAGCATTCAAGTTGGATT-AGTAATGTTCTGAACT-------CGAGCCAG-G-GATATATACAATTACATCACCGAGAATGGTGGGAAAAGATGGGCTT---GCAAT-GATTTTGCCATTGCTGGTCTGCATTCCGTCCATTATATAACACTTGCCACATTGTGCGTATTCTTCTT--CTTAAAATGGACAGAGCCT-TGTCTTGTGTGCTGAGACGCACTGCTCTTGTTTAGGAAAGTAATGGGGAAAT-TATTTGTGGTTGATAAA
+q cavPor2.scaffold_284118 ----9999999999999999999-9999999999899999-------99999999-9-9999999999999999999999999989979999999999999999---99899-99999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230005291 253 - 267910886 ----CCAGCATTCAGGCCGGGTT-AGTAATACTCTGAAGC-------TGAGCCAA-GTGGGATATACAATTACATCACCCAGCACGGTGGGA----ATGGAGGTGGCGTGGT-GATGTCGCCCCTGCTGGTCTGCGTTCCACCGATTCTATGATACTCCCTGCATTGTGAGTGTCCTTTTTTCCTTAAAATGGATAGAGCCC-TATCTTCTGCTCTGAGATGCTCCGCTCTTGTTTAGGAGAGTAATGGGGAAAT-TATTTGTGGTTGATAAA
+q rn4.chr1 ----9999999999999999999-9999999999999999-------99999999-999999999999999999999999999999999999----9999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999-99999999999999999
+i rn4.chr1 C 0 C 0
+s anoCar1.scaffold_0 8788062 243 + 16654889 ----------TTCTGGCCAGTTGCTCCATTTCTCTAAACT-------GGTGCCAA-A-AGTGTATACAGTTTCATCAGTGAGAATGGTGGGAAAGAATTTGTTG---TCACTCTGTTATGCCCTGACTCGGCTACATTCCGTTCATTTGGTAACTCTTCCTgcatt-tgaatg-tgttttt--cttaAAATGGTCAGAGCCTCTGAGGGCTGATATAAAATG---TGCCCTTGTTCCAGGGGATGGAACAGAAAT-AATCTGTGCTTAATAAA
+q anoCar1.scaffold_0 ----------999999999999999999999999999999-------99999999-9-9999999999999999999999999999999999999999999998---99999999999989999999999999899999999999999999999999999999999-999999-9999999--999999999999999999999999999999990999999---999999999999999999999999999999-99999999999999999
+i anoCar1.scaffold_0 I 2767 I 4960
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=952642.000000
+s mm9.chr10 3187567 132 + 129993255 TGAG--CTGTCACAAGGGAGACACAGTGGACAAGAGG--TCTGCGTGCTGGC-CGGGAAGGCAGGA-TTTTTGTATCCTAATCTTGGCT-CTGCTCCAGGCTACTCCTTCTGCGACTCCTGGGGGAAT-ATGGTGTCTGT
+s rn4.chr1 230005544 132 - 267910886 TGAG--CTGTCACAagggagacacagtggccaagtgg--tctgcatgctggc-ctgggagacagga-tttttggatcctaatcttggct-ccgcTCCAGGCTACTCCTCCTGTGATCCCCGGGGGAAT-GTGGTGTCTGT
+q rn4.chr1 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-99999999999999999999999999999999999999-99999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83110 133 - 169015 TGAG--CTGCCACAAGGGAGACACTATGGCCAAGTGG--TCTGAGTGTTGGC-CTGGGAGGCAGGA-TTTTTACATTTGAATCCTGGCT-CTGCTCCACGCTACTGCCTCTGTGACCTCCCAGGAAACAGTAGTATCTGT
+q cavPor2.scaffold_284118 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-99999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 93733 119 - 139458 TGAG--CTGCCACAAGGGAGACGCTGTGGCCAAGTGG--TCTGAACATTAGC-CTGGGAGGCAGGG-ATTTTGCATTCTGACCCTGCCT-C--ACGCGTGCTGTTCCTGGCGTGACCTCTGGGGAAGT------------
+q oryCun1.scaffold_214769 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-9--99999999999999999999999999999999999------------
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108496379 132 + 167655696 TGAG--CCGCCGCCTGGGAGACGCTACAGCCAAGTAG--TCTGAGCACGGGT-CTGGGAAGCAGGA--ATTTGCATTCTAATCCCGGCT-CTGCTACATCCTTCTCCCTCTGTGACCTCCGGGGAAATGGTGGTGTCTGT
+q rheMac2.chr4 9999--9999999999999999999999999999999--9999999999999-9999999999999--999999999999999999999-99999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16393965 131 - 174210431 TGAG--CTGCCGCCTGGGAGATGCTCtggccaagtag--tctgagcacgagt-ctgggaagcagga--atttgcattctaatcctggct-ctgctacatgctactccctctgtgtcctc-ggggaaatGGTGGTGTCTGT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16611902 132 - 173908612 TGAG--CTGCCGCCTGGgagacgctatggccaagtag--tctgagcacgggt-ctgggaagcagga--atttgcattctaatcctggct-ctgctacatgctactccctctgtgacctccggggaaatGGTGGTGTCTGT
+q panTro2.chr6 9999--9999999999999999999999999999999--9999999999999-9999999999999--999999999999999999999-99999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16088475 132 - 170899992 TGAG--CTGCCGCCTGGgagacgctatggccaagtag--tctgagcacgggt-ctgggaagcagga--atttgcattctaatcctggct-ctgctacatgctactccctctgtgacctctggggaaatGGTGATGTCTGT
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 390756 133 - 498454 TGAG--CTGCCACAGGGGAGACACTGCAGCCAAGTGG--TCTGAACATTGGT-CTGGGAGGCAGGA-TTTTTGCATTCAAATTCTGGCT-CTGCTACAGGCTACTCTCTCAGTGACCTCCAGGGAAACGGCGATGTCTGT
+q tupBel1.scaffold_114895.1-498454 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999989999-99999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 65454 133 - 523245 TGAG--CTGCCGCCTGGGAGACTCTCCggccaagtgg--tctgagcactggt-ctgggaagcagga--atttgtattctaatcctggctcctgctacatgctactccttctgtgacctctggggaaatGGTGGTGTCTGC
+i calJac1.Contig1260 C 0 C 0
+s sorAra1.scaffold_256646 99768 94 - 121936 TGAG--CTGCCATCCGGGAGACGCTGGGG------------------------CTGAGAGGCGGGC-TCTCGGTGTTTGGGTGCAGGCA-GGAATGTCCAGGCCTCTCTC-----------------CTGCAGGGTCTG-
+q sorAra1.scaffold_256646 9999--99999999999999999999999------------------------9999999999999-9999999999999999999999-99999999999999999999-----------------999999999999-
+i sorAra1.scaffold_256646 C 0 C 0
+s felCat3.scaffold_217398 119066 133 - 219823 TGAG--CTGCCACCGGGGAGACGCTGTGGCCAAGTGG--TGTGAGTGTTGGC-CTGGAAGGCAGGC-GTTTTGCATTCTGATCCTGCCT-CTGCGACACACTCCTCGCTCTGCGACCTCCAGGGAAACGGTGGTGTCTGT
+q felCat3.scaffold_217398 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-99999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78257078 134 - 125616256 TGAG--CTGCCACGGGGgagacgctgtggccaagtgg--tgtgagtgttggc-ctgggaggccggcttttttgcattctaatcctggct-ctgctacacactccttgctctgtgacctctggggaaacgacggtgtctgt
+q canFam2.chr1 9999--9999999999999999999999999999999--9999999999999-999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13723518 132 - 95030419 TGAG--CTGCCACcagggacacgctgtggccaagtgg--tgtgagcgctggc-ctgggaggcagg--gttttgcattttaatccaggct-ctgctgcacactcttggctctgtgacctCCAGGGAGACCGCAGTGTCTGT
+q bosTau3.chr9 9999--9999999999999999999999999999999--9999999999999-999999999999--9999999999999999999999-99999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13046894 132 + 24938454 TGAG--CTGCCAcaaggcagacgctgtggccaagtgg--tgtgagtgttggc-ctgggaggcagga-tttttgcattctaatcctggct-ctgctgcacgctcctcactctgtgacctCCAGGGAAACGG-GCTGTCTGT
+q equCab1.chr31 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-9999999999999999999999999999999999999999-999999999
+i equCab1.chr31 C 0 C 0
+s dasNov1.scaffold_13068 10917 134 + 27231 TGAGCTCTGCCCCGTGGGAGCCGCTCCGGCCAAGTGG--CCCCAGCCTTCTC-CTGGGAGGCAGGG-TTTTTGAATTCTAATCCTGCCT-CTGCTATGTTCTGCTCACTCTGTGAC-CCCAGGGAAACGGGGGCGCCTGT
+q dasNov1.scaffold_13068 9999999999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-99999999999999999999999999-99999999999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60759 133 + 124190 TGAG--CTGCCACCAGGGAGACGCCATGGCCAAATGG--TCTGAGCGTTGCC-CTGGGAGGTTTGG-TTTTTGACTTCTAATCCTGGCT-CTGCTGCCTACAACTCACTCTGTGACTTCCGGGGAAGCGGTGGTGTCTGC
+q loxAfr1.scaffold_4233 9999--9999999999999999999999999999999--9999999999999-9999999999999-9999999999999999999999-99999999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 36349 100 + 49972 TGAG--GTGCCG-CAGGGAGACTCCGTGGCCAAGTGG--TTTGAGCATTGTTGCTGTGGAGGCTTG-CTTGTAAATGCTAATCC---------------------------------TCTGGGCACGTGAT-GTGTCAGC
+q echTel1.scaffold_324002 9999--677899-999998999999979899999789--998899999899999997899999989-99599999999996799---------------------------------99999999999999-99999999
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106222878 128 - 541556283 TGAG--CTGCCACAagggagatactgcagccaagtgg--tctgaacatccgc-ctgggagtcaaaa--ttttgaattttaatcctaact-----gcccagtgattcactttgcaaccttcaggaacattccagggtctgg
+q monDom4.chr2 9999--9999999999999999999999999999999--9999999999999-9999999999999--999999999999999999999-----9999999999999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14879132 128 - 54797317 TGAG--CCACTACCACGGGGATCCTGTAGCCAAAATGTCTCTGAGGATTTGC-TTCCAAGTCAG---TCATTGAACTGTACACTTGACT-CTACTCCATGCCTGTCTTACAGT----TTAGGGGAAATGTTGTTTTCAT-
+i ornAna1.chr2 C 0 I 760
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=175942.000000
+s mm9.chr10 3187699 44 + 129993255 TCCCCTCATCTGTACACTAA----CTGTCACCGTAG-----------ATGTGGC-----CACGC----
+s rn4.chr1 230005676 42 - 267910886 TCCCCTCATCTGTACGCTAA----CTGTCACTGTCG-----------GTGCGGC-----CGT------
+q rn4.chr1 99999999999999999999----999999999999-----------9999999-----999------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83243 44 - 169015 TTTCCCTATCTGTACAGTGA----CACTCACCTTTG-----------ATGTAGC-----TGTGT----
+q cavPor2.scaffold_284118 99999999999999999999----999999999999-----------9999999-----99999----
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 93852 36 - 139458 ------AGTCTGTCCAATAA----CACTCAC--TCA-----------GTGTGGC-----CGGGC----
+q oryCun1.scaffold_214769 ------99999999989999----9999999--999-----------9999999-----99999----
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108496511 44 + 167655696 TTTTCCCATCTGTACAGTAA----CGCTCACCTTAG-----------ATGTGGC-----TGTGC----
+q rheMac2.chr4 99999999999999999999----999999999999-----------9999999-----99999----
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16394096 44 - 174210431 TTTTCCCATCTGTACAGTAA----CGCTCACCTTAG-----------ATGTGGC-----TGTGT----
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16612034 44 - 173908612 TTTTCCCATCTGTACAGTAA----CGCTCACCTTAG-----------ATGTGGC-----TGTGT----
+q panTro2.chr6 99999999999999999999----999999999999-----------9999999-----99999----
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16088607 44 - 170899992 TTTTCCCATCTGTACAGTAA----CGCTCACCTTAG-----------ATGTGGC-----TGTGT----
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 390889 41 - 498454 TTTCTCCATTTGTACAGTAA----CATTCACCTTAG-----------ATGTAGC-----TG-------
+q tupBel1.scaffold_114895.1-498454 99999999999999999998----999999999999-----------9999999-----99-------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 65587 44 - 523245 TTTTCCCATCTGTACAGTAA----CGCTCACCTTAG-----------ATGTGGC-----TGTGT----
+i calJac1.Contig1260 C 0 C 0
+s sorAra1.scaffold_256646 99862 29 - 121936 -------------GCGGCGA----CACTTCC--CTG-----------ATGTGCC-----CAtgt----
+q sorAra1.scaffold_256646 -------------9999999----9999999--999-----------9999999-----99999----
+i sorAra1.scaffold_256646 C 0 I 8
+s felCat3.scaffold_217398 119199 42 - 219823 TTTCCCCATCTGTACAGTAA----CACTCCC--TAG-----------ATGCGGC-----TGCAC----
+q felCat3.scaffold_217398 99999999999999999999----9999999--999-----------9999999-----99999----
+i felCat3.scaffold_217398 C 0 I 4
+s canFam2.chr1 78257212 42 - 125616256 tttccccatctgtaCAGTAA----CACTCCC--TGG-----------ACGTGGC-----GGTAC----
+q canFam2.chr1 99999999999999999999----9999999--999-----------9999999-----99999----
+i canFam2.chr1 C 0 I 4
+s bosTau3.chr9 13723650 36 - 95030419 TTTCCCCATTTGTGCAGTGA----CACTCCC-TTAG-----------ATGTG----------------
+q bosTau3.chr9 99999999999999999999----9999999-9999-----------99999----------------
+i bosTau3.chr9 C 0 I 570
+s equCab1.chr31 13047026 32 + 24938454 TTTCCCCATCATT--------------TCCC--TAC-----------ATGTGGC-----CGTGT----
+q equCab1.chr31 9999999999999--------------9999--999-----------9999999-----99999----
+i equCab1.chr31 C 0 I 4
+s dasNov1.scaffold_13068 11051 56 + 27231 TTCCTCCATCTGCCCAGTAACCATCGCTCATCCCAGACA--------GTGCAGCAGTCATGGGC----
+q dasNov1.scaffold_13068 999999999999999999999999999999999999999--------99999999999999999----
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 60892 55 + 124190 GTTCTTCATCAGTGCAGTAA----CACTCACCTCAGGCATGGTATGTAAGAAGG-----TGCAC----
+q loxAfr1.scaffold_4233 99999999999999999999----999999999999999999999999999999-----99999----
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 36449 44 + 49972 TTTCTCCCTCGGTGAGCTCA----CATGCCCCTCTG-----------ATGGAGC-----TGACC----
+q echTel1.scaffold_324002 99999999999999999999----999999999999-----------9999999-----99999----
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106223006 47 - 541556283 tttttccatctatCTTGTAA----CACTCACCTCAG-----------ATGTTG------TATGTTTGA
+q monDom4.chr2 99999999999999999999----999999999999-----------999999------999999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14879260 760 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=428745.000000
+s mm9.chr10 3187743 207 + 129993255 ACTCGTG----GG--TGTTCTGCATGGCT-------GGGATATGCCCCGGCATCCTGTTTA-TTAT-T--------A----AACTGTCTG---------------CTCTTCAGA--GCCAAACA---------TGCTTGAGTTTACTTCTGTC---------------------------ACACTTTCCGGGAAACACAGCCTTGTAGT---C-TT---TTCTGC-----TGGAATGCCCTGTGCTGTTGCGTCTGT-C-TTT---TTG-G--TTGTGGT-ATACTTT-GAGGACTAGAAAA-CTGCTTT
+s monDom4.chr2 106223053 241 - 541556283 ----ATGTTTAAA--TGCTTTGCACTCCTTTGAGAATGGGGAGCTGCAGGAGTTCTGCCTG-CCAC-CATAGATTCA----AATTGGATG------------TTATTATTTGCAAAAAAAAAAA---------GGCAT---TTTACTTTTAACTGGGGTGTGGGGGGAAGGATTAAAACAATACATACTGGA-AAAATTACCTTATGATGTGT-TG---TTCTGC-----TAAAATAGTCTTAAA----------TT-T-TCA---TTA-ATATTGT-----TAATTG-AAGGGCAGATAAA-TTAGCTT
+q monDom4.chr2 ----999999999--9999999999999999999999999999999999999999999999-9999-9999999999----999999999------------9999999999999999999999---------99999---999999999999999999999999999999999999999999999999999-99999999999999999999-99---999999-----999999999999999----------99-9-999---999-9999999-----999999-9999999999999-9999999
+i monDom4.chr2 C 0 C 0
+s echTel1.scaffold_324002 36493 187 + 49972 ------------A------CTGCCCTAC--------------TTCCCAAGCACTCTGTCAACCTGCGTA-------GGAT-GACTGTGGTGTGA-----------GGTTTTACACAGTTAAATG---------ATTTGGGG-------TTATT---------------------------CTCATTCTTAGG-GA----ACCTCTCTAT---T-CT---GTGAGG-----CCC-ACATTCTGCAG-GCTCGAACTGT-C-TGTCTGACT-GCTAT-----AATCCTCG-GAGGACAGGTAAA-GTCATTT
+q echTel1.scaffold_324002 ------------9------999999999--------------999999999999999999999999999-------9999-9999999999999-----------9999999999999999999---------99999999-------99999---------------------------999999999999-99----9999999999---9-99---999999-----999-99999999999-99999999999-9-999999999-99999-----99999999-9999999999999-9999999
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 60947 205 + 124190 ------------G--GGTTTTGCACTGCCG------AGAAGATGTCTGAGCGTCCTGTTTA-TTGC-TA-------TTAC-AACTGTATT----------------TTTTTATATAATAAAACA---------TTTTTGAATTGACTCTTATT---------------------------ATACTTCCTGGG-GACGTTGCTTTTCTGT---C-TT---TTCTGC-----TGG-ATGTTCTGCAA-ATTTTAACTGT-C-TCT---ACT-GCTTTGCAGCAATCCTTT-GAGGACAGGTGAA-CTACTTG
+q loxAfr1.scaffold_4233 ------------9--999999998999999------9999999999999899999999999-9999-99-------9999-999999999----------------999999999999999999---------99999999999999999999---------------------------999999888999-9998999999999999---9-99---999999-----999-99999999999-99999999999-9-999---999-999999988979988899-9979997999999-9999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 11107 212 + 27231 ------------GGGGGTCTCTCCGTGCCG------GGAGGGTCGCTAAACGTCCTGGTTA-TTAT-TA-------AGACTGAATGT-------------------TTCTGGGACAGTAAAACATTTTTTTTTTTTTTGAATTGACTTTTATG---------------------------GCACTCTTTGGG-AACAAGGCTTTTCAGT---C-TT---TTCTGC-----TAG-ATCTTCTGCCA-GTTTGCCTGGT-C-TGT-----C-ATTTTGCAGACATGCTCT-GAGGACAGGGAAA-TTCCGTT
+q dasNov1.scaffold_13068 ------------999999999999999999------9999999999999999999999999-9999-99-------99999999999-------------------99999999999999999999999999999999999999999999999---------------------------999999999999-9999999999999999---9-99---999999-----999-99999999999-99999999999-9-999-----9-999999999999999999-9999999999999-9999999
+i dasNov1.scaffold_13068 C 0 C 0
+s bosTau3.chr9 13724256 197 - 95030419 ----ACACGTAGG--TGTTTTGCGCTGCCC------AGAAGATGTCCT--AGTCCTGTTTA-TGAT-TA-------A----AACT-TAC---------------GTGTTTCATCCAGTAAGACA---------TGTTTGAGTTTACTCATGTT---------------------------GCGCTTTCTGGG-AATATTGCTTTTTGGT---CTTT---TTCTGC-----TGT-------TTCAG-------ATCAT-C-TCT---TTG-GCTTTGCGGTAGGGCTTG-GAGGGCAGGTAAA-TTACTTT
+q bosTau3.chr9 ----999999999--999999999999999------999999999999--99999999999-9999-99-------9----9999-999---------------99999999999999999999---------99999999999999999999---------------------------999999999999-9999999999999999---9999---999999-----999-------99999-------99999-9-999---999-999999999999999999-9999999999999-9999999
+i bosTau3.chr9 I 570 C 0
+s equCab1.chr31 13047062 199 + 24938454 ----ATGTGTAAG--TGTTTTGCGCTGTCC------AGAAGATGTCTGAGAGTCCTGTTTA-TTAT-TA-------A----AACTGTAT---------------GTTTTTTGTACGGTAAAACA---------GATTTGAGTTTACTCTTAGT---------------------------ATGTTTTCTGGA-TAGATCACTTTTTGGT---C-TT---TTCTGC-----TAT-------TTTGA-------ATTGT-C-TCT---TTC-ACTTTGTTGTAGGACTTT-GAGGACAGGTAAA-TTCCTTT
+q equCab1.chr31 ----999999999--999999999999999------9999999999999999999999999-9999-99-------9----99999999---------------99999999999999999999---------99999999999999999999---------------------------999999999999-9999999999999999---9-99---999999-----999-------99999-------99999-9-999---999-999999999999999999-9999999999999-9999999
+i equCab1.chr31 I 4 C 0
+s felCat3.scaffold_217398 119245 203 - 219823 ----ACGT----G--TGTTTTGCACGGCCC------AGAAGATGTCTTAGAGTCTTGTTTG-TTCT-TA-------A----AGCTGCAT--------TTTTTTTTTTTTTTATACAGGGCAGCT---------TGTTTGAGTTTACTTTTCTT---------------------------ACGCTTTCTGGG-AAGATCACTTTTCCAT---C-TT---TTCTGC-----TAA-------ATGGA-------TTTGT-C-TCT---TTCAACTTGAAGGAAGGGGTTT-GAGGACAGGCAAA-TTACTTT
+q felCat3.scaffold_217398 ----9999----9--999999999999999------9999999999999999999999999-9999-99-------9----99999999--------999999999999999999999999999---------99999999999999999999---------------------------999999999999-9999999999999999---9-99---999999-----999-------99999-------99999-9-999---9999999999999999999999-9999999999999-9999999
+i felCat3.scaffold_217398 I 4 C 0
+s canFam2.chr1 78257258 211 - 125616256 ----ATGT----G--TGTGTTGCATTGCCC------AGAAGATGTCTTAGAGTCCTGTTTA-TTAT-TA-------A----AGCTGTATGGTGGTGGTTTTTTTTTTTTTCCTTCAGTGAAACA---------TATTTGAGTTTACTTTTATT---------------------------ATACTTTCTGGG-AAGATCACTTTTCCAT---C-TT---TTCTGC-----TCA-------TTTGA-------TTTGA-C-TCT---TTCAACTTCGAGGAAGGGCTTT-GAGGACAAGTAAA-TTACTTT
+q canFam2.chr1 ----9999----9--999999999999999------9999999999999999999999999-9999-99-------9----9999999999999999999999999999999999999999999---------99999999999999999999---------------------------999999999999-9999999999999999---9-99---999999-----999-------99999-------99999-9-999---9999999999999999999999-9999999999999-9999999
+i canFam2.chr1 I 4 C 0
+s sorAra1.scaffold_256646 99899 153 - 121936 ---------------------------------------acacacatt--ggtTCTGTCCC-GGAT-T--------------GCCCCGT----------------------------------G---------TGTTGGAGTTTGCTCTGATT---------------------------CTGCTTTCTGAG-ACCCCCTCTGCTTAGT---T-TTGGATTTTCC-----TGT-------TTCTG-------TTTGA-CATGC---CTC-ACTTTTCTGTGCTCCTTCGGAGGTCAGGTAAA-CTGTTTA
+q sorAra1.scaffold_256646 ---------------------------------------999999999--99999999999-9997-9--------------9999999----------------------------------9---------99999599999999999989---------------------------979999999999-9999999999999999---9-99979799999-----999-------99999-------99999-98999---999-98999997968899979979959779897999-9896999
+i sorAra1.scaffold_256646 I 8 C 0
+s calJac1.Contig1260 65631 200 - 523245 ACTATTGTGTAAG--TGTTTTGCTCTGCC---------CAGAAGTCTAAGCGTCCTGTTTA-TTAC-TG-------A----AACTA------------------TTTTTTTGTA----CAGATA---------TGTTTGGGTTTACTTTTATT---------------------------ATGCTTTCTGGG-AACATGGCTTTTCTGT---C-TT---TTCTGC-----TGG-ATGTTTTGCAA-------ACTGT-C-TCT---TTT-ATTTTGCAGTACTACTTT-GAGGACAGGTTAATTTACTTG
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 390930 187 - 498454 ----TTGTGCAAG--TGTTTTGCACTGCC---------GAGAAGT-TGTCCATCCTGTTTA-TTTG-TA-------A----AACTGTATG---------------TTTTTCGTA----CAAACA---------TGTTTGCGTTTACTTTTATT---------------------------GTACTTTCTGGG-AGCATAGTTTTTTGGT---C-TT---TTCTGC-----------------AAA-------TCTGTGT-TGT---CTC-AGTTTGTGGTAATAATTG-GGAGACAGGTAAA-TTACTTC
+q tupBel1.scaffold_114895.1-498454 ----989999999--88999958899999---------9999999-979996899999999-9999-99-------9----999999999---------------999984889----999999---------99999999999999999999---------------------------996889997799-9779899999994969---9-99---999699-----------------997-------9997689-589---999-999979679999999957-9999999989998-4957966
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16088651 212 - 170899992 ACTATTGT----G--TGTTTTGCACTGCC---------CAGACATCTAAGCATCCTGTTTA-TTAC-CG-------A----AACTGTATTTTCTT--TTTTTTTTTTTTTTGTA----CAAACG---------TGTTTGAGTTTACTTTTATT---------------------------ATACTTTCTGGG-AACATGGCTTTTCCGT---C-TT---TTCTGC-----TTG-ATGTTTTGCAA-------ATTGT-C-TCT---TTC-ACTTTGCAGTAATACTTT-GAGGACAGGTAAATTTACTTG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16612078 212 - 173908612 ACTATTGT----G--TGTTTTGCACTGCC---------CAGACATCTAAGCATCCTGTTTA-TTAC-CG-------A----AACTGTATTTTCTT--TTTTTTTTTTTTTTGTA----CAAACG---------TGTTTGAGTTTACTTTTATT---------------------------ATACTTTCTGGG-AACATGGCTTTTCCGT---C-TT---TTCTGC-----TTG-ATGTTTTGCAA-------ATTGT-C-TCT---TTC-ACTTTGCAGGAATACTTT-GAGGACAGGTAAATTTACTTG
+q panTro2.chr6 99999999----9--99999999999999---------99999999999999999999999-9999-99-------9----99999999999999--99999999999999999----999999---------99999999999999999999---------------------------999999999999-9999999999999999---9-99---999999-----999-99999999999-------99999-9-999---999-999999999999999999-999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16394140 214 - 174210431 ACTATTGTGTAAG--TGTTTTGCACTGCC---------CAGACATTTAAGCATCCTGTTTA-TTAC-CG-------A----AACTGTATTTTC----TTTTTTTTTTTTTTGTA----CAAACG---------TATTTGAGTTTACTTTTATT---------------------------ATACTTTCTGGG-AACATGGCTTTTCCGT---C-TT---TTCTGC-----TTG-ATGTTTTGCAA-------ATTGT-C-TCT---TTC-ACTTTGCAGTAATACTTT-GAGGACAGGTAAATTTACTTG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108496555 211 + 167655696 ACTATTGTGTAAG--TGCTTTGCACTGCC---------CAGACGTCTAAGCATCCTGTTTA-TTAC-TG-------A----AACTGTATT-------TTTTTTTTTTTTTTGTA----CAAACA---------TGTTTGAGTTTACTTTTATT---------------------------ATACTTTCTGGG-AACATGGCTTTTCCGT---C-TT---TTCTGC-----TTG-ATGTTTTGCAA-------ATTGT-C-TCT---TTC-ACTTTGCAGTAATACTTG-GAGGACAGGTAAATTTACTTG
+q rheMac2.chr4 9999999999999--99999999999999---------99999999999999999999999-9999-99-------9----999999999-------99999999999999999----999999---------99999999999999999999---------------------------999999999999-9999999999999999---9-99---999999-----999-99999999999-------99999-9-999---999-999999999999999999-999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s oryCun1.scaffold_214769 93888 194 - 139458 ACTAATGCGTCAG--TGCTTTGCATTGCT-------GGATAATGTCTAGGCATCCAGTTTA-TTAT-TA-------A----AAGTGTCTG---------------TTTTTC--A--GGCAAACA---------TGTTTGAGTTTACTTTTAT-------------------------------------GGG-TTCACGGCTTTCTGGT---T-TT---TTTTCCCCCTGTGAAACGTCCTGCAG-ACCTGAATTGT-T-TCT---TTC-ACTTTGCAGTGACTCTTG-GAGGACAA-------------
+q oryCun1.scaffold_214769 9999999999999--99999999999999-------9999999999999999999899999-9999-99-------9----999999999---------------999999--9--99999999---------9999999999999999999-------------------------------------999-9999999999999999---9-99---99999999999999999999999999-99999999999-9-999---999-899999999999999999-99999999-------------
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 83287 197 - 169015 TCTCATG----CA--TGTTTTTTGCTGCT--------------AACGAACCATTctgtttt-ttat-ta-------a----ta----ctt---------------aTTTTTGTA--GTCAGACA---------TATTTGGGTTTACTTATATT---------------------------ATACTTTCCGGG-AACATGGCTTTTCAAT---C-TT---TTCC-T-----TGAGGTACTTTTTGC-ATTGGAATTGT-C-ACT---TTC-ACTTTGCAGCAATACTTT-GAGGACAAGGAAA-TTAGTTT
+q cavPor2.scaffold_284118 9999999----99--99999999999999--------------999999999999999999-9999-99-------9----99----999---------------999999999--99999999---------99999999999999999999---------------------------999999999999-9999999999999999---9-99---9999-8-----999998999999999-99998997999-9-999---999-999999979999999999-9989899999999-9998999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230005718 201 - 267910886 -----------GG--TGTTCTGCATTGCTG------GGGATATGTCCAAGCATCCTGTTTA-TTAT-TA-------A----AACTGTCTG---------------CTCTTCAGA--GCCAAACA---------TGCTTGGGTTTACTTCTGTT---------------------------ACGCTTTCTGGGAAACACAGCTTTGCAGT---C-TT---TGCTGC-----TAGAATGTTCTGTGC-ATTGTGTCTGT-C-TTT---TTG-G--TTGCGGT-ATACTTT-AAGGACAAGAAAA-CTGCTTT
+q rn4.chr1 -----------99--999999999999999------9999999999999999999999999-9999-99-------9----999999999---------------999999999--99999999---------99999999999999999999---------------------------99999999999999999999999999999---9-99---999999-----999999999999999-99999999999-9-999---999-9--9999999-9999999-9999999999999-9999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14879260 760 - 54797317 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=-128228.000000
+s mm9.chr10 3187950 56 + 129993255 GAAATTT----------GTAGCATGA-AGACGA----GGAGAA--------------CAGGTCAGCTTCCAGCAGTTATGTGTCT
+s rn4.chr1 230005919 16 - 267910886 G--------------------------------------------------------------TGCGTCTGGGGGTTA-------
+q rn4.chr1 9--------------------------------------------------------------999999999999999-------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83484 64 - 169015 GAAATCC----------ACAGTCTGAGAGGCGA----GAAGAAAGGGAGCACTGAGGCAGATGTATACATGGTGGTGG-------
+q cavPor2.scaffold_284118 9998899----------9989999999999899----99989998999999999999999949999999999799899-------
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 94082 32 - 139458 ----CCC----------ACGGTACG--------------------------------CGGGGAGGCACATTCTGGTCA-------
+q oryCun1.scaffold_214769 ----999----------99999999--------------------------------989999999998999899998-------
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108496766 59 + 167655696 GAAATCC----------AAAGTAAGAGAGGCGGGGCAGAAGGGTCAGC---------TAGAGATGCATCATGTACATC-------
+q rheMac2.chr4 9999999----------9999999999999999999999999999999---------999999999999999999999-------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16394354 55 - 174210431 GAAATCC----------AAAGTAAGAGAGGCAG----GAAGGGTCAGC---------TAGAGACGCATCACGTGCATC-------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16612290 55 - 173908612 GAAATCC----------AAAGTAGGAGAGGCAG----GAAGAGTCAGC---------TAGAGACGCATCACGTGCGTC-------
+q panTro2.chr6 9999999----------9999999999999999----99999999999---------999999999999999999999-------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16088863 55 - 170899992 GAAATCC----------AAAGTAAGAGAGGCAG----GAAGGGTCAGC---------TAGAGACGCATCACATGCATC-------
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 391117 6 - 498454 AAAAT------------------------------------------------------------------------C-------
+q tupBel1.scaffold_114895.1-498454 99936------------------------------------------------------------------------9-------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 65831 59 - 523245 GAAATCT----------AAAGTAAGAGAGGTGGGATGGAAGGATCAGC---------TAGAGACACATCGTGTGCACC-------
+i calJac1.Contig1260 C 0 C 0
+s sorAra1.scaffold_256646 100052 39 - 121936 GAAATCA----------GCAGTCTGAGTGAGGGATGGGGAGGAGAGGT---------C---------------------------
+q sorAra1.scaffold_256646 6997786----------6677896997979797739997967969576---------6---------------------------
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78257469 59 - 125616256 GCAATGC----------ACAGTATGAGAGGTGAGGAGGAAGGGTAGGT---------TAGAGGCATGTAGTTTATAGC-------
+q canFam2.chr1 9999999----------9999999999999999999999999999999---------999999999999999999999-------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 119448 59 - 219823 GCAGTCC----------ACAATAGGAGAGGTAAGGAGGAAGGGTCTGT---------TAGAGGCACACGGTGCACAGC-------
+q felCat3.scaffold_217398 9999999----------9999999999999999999999999999999---------999999999999999999999-------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13047261 57 + 24938454 GAAATTC----------ACAATATGAGAGGCGAGGAGGAAGGAGGGGC---------CAGA-GCACAT-GTGCACATC-------
+q equCab1.chr31 9999999----------9999999999999999999999999999999---------9999-999999-999999999-------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13724453 59 - 95030419 GAAATCC----------ACAAGATGGAAGGAGAGGAGGCAGGATGGAC---------TACAGGCACATTGTGGACATC-------
+q bosTau3.chr9 9999999----------9999999999999999999999999999999---------999999999999999999999-------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 11319 56 + 27231 GGCATCC----------ATGGTGGCAGAGGGGAGGTG---GGGGCTGC---------GGGAGGCAGGCCGAGTGCATT-------
+q dasNov1.scaffold_13068 9999999----------99999999999999999999---99999999---------999999999999999999999-------
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 61152 56 + 124190 GGAATCC----------ACAGGAGGAGCGAGGAGGTGGCAGGGTTGAC---------TAGAAGCA---CTAGTGTCTA-------
+q loxAfr1.scaffold_4233 9999999----------7979999997999799597989667799997---------99999699---9999997999-------
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 36680 42 + 49972 GGAATCC----------ACGCTAGGCTTAAGGAGGTG----------------------GATGCA---C-AGTGTCTA-------
+q echTel1.scaffold_324002 9999999----------99999999999999999999----------------------999999---9-99999999-------
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106223294 74 - 541556283 GAAATCTTATTTGTCTGATGTACCAAGAAATGAAAGGGTGGGGTGGGCATCA-----CATGAGCACACCATATGGATA------T
+q monDom4.chr2 9999999999999999999999999999999999999999999999999999-----999999999999999999999------9
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14880020 61 - 54797317 -GAATCTGGT-------AGAATGTAGGTTGGGAGAGGGTGGTAGAAGG---------GAGATATTCTTTAGATACATT-------
+i ornAna1.chr2 I 760 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr24 24013225 0 + 40293347 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=21714.000000
+s mm9.chr10 3188006 60 + 129993255 --CAGGAGGAG-GAGGAGAAA----------T---AGCAGAGGCCCCGTGGACAGTCTCTCTAAGCTT-TTCTTTTT--
+s ornAna1.chr2 14880081 57 - 54797317 ---AAGTGAAA-TAATCGTTC----------T---GACAGTCACCTC-AGGGAATA-TGTTCATTTTC-TCCCCTCC--
+i ornAna1.chr2 C 0 C 0
+s monDom4.chr2 106223368 58 - 541556283 --TAAGTGAAA-TAATGGACA----------T---GACAGCCACCCC-AGGGCATT-CCTTTTTCTTC-TCCTTTTC--
+q monDom4.chr2 --999999999-999999999----------9---999999999999-99999999-99999999999-99999999--
+i monDom4.chr2 C 0 C 0
+s echTel1.scaffold_324002 36722 55 + 49972 ---CAG-GGGC-TAATGGACA----------T---GGCAGATGCCCC-TGACCTT--TCTCGGTGACA-CCTCCCCC--
+q echTel1.scaffold_324002 ---999-9999-999999999----------9---999999999999-9999999--99999999999-99999999--
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 61208 53 + 124190 ---T---GGGA-TAATGGACC----------T---GACAGATGCCCC-TGGCCAT--TCTCTATGCTT-TTCCCCCT--
+q loxAfr1.scaffold_4233 ---9---9899-999799796----------6---789999999899-6989999--99999989999-99999999--
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 11375 60 + 27231 ---TGG-GGGCATGGTGGAAG----------TGTGGGCCGCTGCCCC-CAGCGTTC-TCTTCGCTCTG-TCCCCTTC--
+q dasNov1.scaffold_13068 ---999-99999999999999----------9999999999999999-99999999-99999999999-99999999--
+i dasNov1.scaffold_13068 C 0 C 0
+s bosTau3.chr9 13724512 48 - 95030419 ---AAGCAGGA-TAATTAACA----------T---AACAGCTGC--C----------TCTCTGCTTCCCCTCCCTTC--
+q bosTau3.chr9 ---99999999-999999999----------9---999999999--9----------99999999999999999999--
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13047318 42 + 24938454 ---A------A-TAATGCACA----------T---AACAGCTGCCTC----------CTTGTGCTTTT--CCCCTTC--
+q equCab1.chr31 ---9------9-999999999----------9---999999999999----------99999999999--9999999--
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 119507 49 - 219823 ---AAGCCAGA-TAATAAACC----------T---AACAGCTGCCTC----------TCTTTGCTTTT-GCCCCTTC--
+q felCat3.scaffold_217398 ---99999999-999999999----------9---999999999999----------99999999999-99999999--
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78257528 47 - 125616256 ---AAGCCAGA-TAATAAACA----------C---AGCAACTGC--C----------TCTTTGCTTTT-ACCCCTTC--
+q canFam2.chr1 ---99999999-999999999----------9---999999999--9----------99999999999-99999999--
+i canFam2.chr1 C 0 C 0
+s sorAra1.scaffold_256646 100091 23 - 121936 -------------------------------------CAGCTGCCTC----------TCTTTGC-----ACCCC--C--
+q sorAra1.scaffold_256646 -------------------------------------9677996989----------7779966-----66989--9--
+i sorAra1.scaffold_256646 C 0 C 0
+s calJac1.Contig1260 65890 58 - 523245 ---AAGTGGGA-TGATCAACA----------T---ACCAGCTGCCTT-TGAGAATTCTCTTTGCTTTT-TCCTCTTC--
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 391123 55 - 498454 ---AAGTGGGC-TGATCAACA----------T---AACGGCTGTCTC-TGGGCATCCTCTGTGCTTTT-TCCTT-----
+q tupBel1.scaffold_114895.1-498454 ---99989987-795799597----------9---998988677799-79877699899988679999-79999-----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16088918 58 - 170899992 ---AAGTGGGA-TGATAAACG----------T---AACAGCTGCCTC-TGGGCATTCTCTTTGCTTTT-TCCTCTTC--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16612345 58 - 173908612 ---AAGCGGGA-TGATAAACG----------T---AACAGCTGCCTC-TGGGCATTCTCTTTGCCTTT-TCCTCTTC--
+q panTro2.chr6 ---99999999-999999999----------9---999999999999-99999999999999999999-99999999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16394409 58 - 174210431 ---AGGTGGGA-TGATAACCA----------T---AACAGCCGCCTC-TGGGCATTCTCTTTACTTTT-TCCTCTTC--
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108496825 58 + 167655696 ---GGGTGGGA-TGACAAATA----------T---AACAGGTGCCCC-TGGGCATTCTCTCTGCTTTT-TCCTCTTG--
+q rheMac2.chr4 ---99999999-999999999----------9---999999999999-99999999999999999999-99999999--
+i rheMac2.chr4 C 0 C 0
+s oryCun1.scaffold_214769 94114 58 - 139458 ---CCATGTGG-GAGTATGAA----------G---AGTGGCTGCCTTG-GGGCTTTCTCTTCTCCTTG-TTCCTCTT--
+q oryCun1.scaffold_214769 ---99899999-999999999----------9---9999998998899-9999999999999999999-99989989--
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 83548 57 - 169015 ---CGGCGGGG-GACACGACA----------T---AGCAGCTGCCC--TGGGCAATCTTTTGGCTTGT-TCCTCTTT--
+q cavPor2.scaffold_284118 ---79989999-999999999----------9---99999989999--79999999999999999699-99999999--
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230005935 54 - 267910886 --------GGG-GAGGAGAAA----------T---AGCAGCGGCCCCGTGGACAGTCTTTCTGCGCTT-TCCTTTTT--
+q rn4.chr1 --------999-999999999----------9---999999999999999999999999999999999-99999999--
+i rn4.chr1 C 0 C 0
+s danRer5.chr21 16459991 60 + 46057314 CAGAAGAAGGA-GGGTGAATAGGAGTGTGTTT---GCAAACTGGCCC----------GCCGTGTT-----CCTCTTTTT
+i danRer5.chr21 I 3409 I 4777
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e galGal3.chr3 61567137 1696 - 113657789 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=209194.000000
+s mm9.chr10 3188066 23 + 129993255 GCTT----CCTCTTAAAGCGTTGCACT
+s rn4.chr1 230005989 23 - 267910886 GCTG----CCTCTGAAAGCGTTGCACC
+q rn4.chr1 9999----9999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83605 23 - 169015 CCTG----CCTCTTAAAATATTAGACT
+q cavPor2.scaffold_284118 9979----9999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 94172 23 - 139458 CCTA----GTCCTTAGAATGTTAGGCG
+q oryCun1.scaffold_214769 9889----9999999999999999989
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108496883 23 + 167655696 TCTA----CCTCTTAGAGCATTAGACT
+q rheMac2.chr4 9999----9999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16394467 23 - 174210431 TCTA----CCTCTTAGAGCATTAGGCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16612403 23 - 173908612 TCTA----CCTCTTAGAGCATTAGGCT
+q panTro2.chr6 9999----9999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16088976 23 - 170899992 TCTA----CCTCTTAGAGCATTAGGCT
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 391178 22 - 498454 TCTA----CCTCTTAAAATATTAGAC-
+q tupBel1.scaffold_114895.1-498454 9994----999999999899999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 65948 23 - 523245 TCTA----CCTCTTAGAGCATTAGACT
+i calJac1.Contig1260 C 0 C 0
+s sorAra1.scaffold_256646 100114 23 - 121936 CGTC----CCTCCTGCAGTACTTGACT
+q sorAra1.scaffold_256646 8776----9786747657666686667
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78257575 23 - 125616256 CCTA----CCTCTTAAAATACTGGACC
+q canFam2.chr1 9999----9999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 119556 22 - 219823 CCTA----CCTCTTAAAATATTGGA-T
+q felCat3.scaffold_217398 9999----99999999999999999-9
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13047360 23 + 24938454 CCTA----CCTCTTAGAATATTAGACC
+q equCab1.chr31 9999----9999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13724560 23 - 95030419 TCTA----CCTCTTAAAATATTAGACT
+q bosTau3.chr9 9999----9999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 11435 23 + 27231 CCCA----CCTCTTAAAATATTAGCCT
+q dasNov1.scaffold_13068 9999----9999999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 61261 18 + 124190 TCCA----CCTCTTAAAATATT-----
+q loxAfr1.scaffold_4233 9999----99999999999999-----
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 36777 23 + 49972 CTCA----CCTCTTAAAACATTCGATG
+q echTel1.scaffold_324002 9999----9999999999999999999
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106223426 23 - 541556283 CCTA----CCTCTTAAAATATTAGAAT
+q monDom4.chr2 9999----9999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14880138 27 - 54797317 CTCAATCCCCTTTTAAAATATTAGGGA
+i ornAna1.chr2 C 0 I 2
+s galGal3.chr3 61568833 23 - 113657789 CTTT----CTTCTTAAAATATTAGAAT
+i galGal3.chr3 I 1696 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e otoGar1.scaffold_85253.1-5280 5241 0 - 5280 I
+
+a score=1653045.000000
+s mm9.chr10 3188089 103 + 129993255 AAAATGAACAAAGCTGGACCCATGCCAGAACCTAAAGCTGTGTTGTATCTCCTACAATTTCCTACTAATTTCCTCTATAGAC-CATGCTGTGACCTCAGTCTCA
+s rn4.chr1 230006012 103 - 267910886 AAAGTGAACAAAGCTGGACCCATGCCAGAACCTAAAGCCGTGTTTCATCCCCTACAATTTCCTACTAATTTCCTCTGTAGAC-CAGGCTCTGACCTCAGTCTCA
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83628 103 - 169015 AAAATGAACAAAGCTGGACAAATGCCAGAACCTGAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTCTGCAGAC-CAGGCTTTGACCTCAGACTCA
+q cavPor2.scaffold_284118 9999599999999967899999999969999969999979899998799999999999999999999999999996999999-999999989999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 94195 99 - 139458 AAAGTG----AAGCTGGGCAAGTGCCGGAGCCAAGGGCTGGGTTTTATCTTGCACAGTCCCCTTCCACTCTCCTCTGAAGAC-CATGCTTTGACCTCAGACTCA
+q oryCun1.scaffold_214769 999999----998989989999999899979999999989999999999999999799999799899998999977999999-999999999995998999997
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16088999 103 - 170899992 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGAC-CAAGCTTTGACCTCAGACTCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16612426 103 - 173908612 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGAC-CAAGCTTTGACCTCAGACTCA
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16394490 103 - 174210431 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGCAGAC-CAAGCTTTGACCTCAGACTCA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108496906 103 + 167655696 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGCAGAC-CAAGCTTTGACCTCAGACTCA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 65971 92 - 523245 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTAC-----------AATTTCCTTTGCAGAC-CAAGTTTTGACCTCAGACTCA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_335.1-444 2 103 - 444 AAAATGAATAAAACTGGACAATTAAAAGAACCCAAAGCTGTGTGTTACCTCCTACAATTTCCTTCTAATTTCCTTTGCAGAC-CCCTCTGTGACCTCAGACTCA
+q otoGar1.scaffold_335.1-444 9997689787998954117113101111547975997999999999999999999796112227315438899999998999-999999999999999999999
+i otoGar1.scaffold_335.1-444 n 0 C 0
+s tupBel1.scaffold_114895.1-498454 391200 103 - 498454 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAGAGCTGTGTTTTATCTCCTACAATTTCCTTCCAATTTCCTTTGTAGAC-CAGGCTTTGACCTTGGACTCA
+q tupBel1.scaffold_114895.1-498454 9999999999999999959998969999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 100137 102 - 121936 GCAGTGAACAAAGCTGGACCACTGCCAGAACCCACGGCTGGGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTGGAAGAC-AGA-TTCTGACCCCAGACTCC
+q sorAra1.scaffold_256646 7747787866984577885666773545765875666569966996646776354466964564645569766657636574-768-66959999994999999
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78257598 103 - 125616256 GAAGCGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGCATTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGGC-AAAGGTTTGACCTCAAACTCA
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 119578 102 - 219823 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGCATTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGAC-AAA-GTTTGACCTCAGACTCA
+q felCat3.scaffold_217398 9999999999999999999999999999999999999999999999999999999999999999999999999999999899-999-99999999999899999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13047383 103 + 24938454 AAAATGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGAC-AAAGTTTTGACCTCAGACTCA
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13724583 103 - 95030419 AAAGTGAACAAAGCTGGAGAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGAC-AAAGTTTTGACCTCAGACTCT
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 11458 96 + 27231 AAAATGAACAAAGCTGGACAAATGCCAAAACCTGAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGGC-AAAATTTTGACCTC-------
+q dasNov1.scaffold_13068 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999-------
+i dasNov1.scaffold_13068 C 0 I 70
+s loxAfr1.scaffold_4233 61279 103 + 124190 AAAGTGAACAAAGCTGGACAAATGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTTGTAGAC-AGAGTTTTGACCTCAGACTCA
+q loxAfr1.scaffold_4233 9999999999999999899999989999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 36800 102 + 49972 AAAATGAACAAAGCTGGATAGATGCCAGAGTTAAAAGCTGGATTTTATCTCTGACAATTTCCTTCTAATTTCCTTGGTAGAC-AAAG-TTTGACCTCAGACTCA
+q echTel1.scaffold_324002 9999999999999999999999999989999999999999999999999999999899999989999999999899999999-7999-9999999999999997
+i echTel1.scaffold_324002 C 0 C 0
+s monDom4.chr2 106223449 103 - 541556283 AGAGTGAACAAAGCTGGAGAAATGCCAGATCCCAAAGCTATGCTTTATCTCCTACAATTTCCTCCTTATTTCCTTAGTAGAC-AAAGTTTTGACCTCAGACCCA
+q monDom4.chr2 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14880167 104 - 54797317 AAAATGAACAAAGCTGGAGAAATGCCAGAACCTAAAGCTCTGTTTTATCTCCAACAATTTCCATCTACTTTCTTTTATAGACACAAGTTTTGTCCTCGGGCCCA
+i ornAna1.chr2 I 2 I 9402
+s galGal3.chr3 61568856 104 - 113657789 AAAATGAACAAAGCTGGATGACTGCCAGAACCTAAAGCTGTGTTTTATCTCCTACAATTTCCTTCTAATTTCCTTAGTAGACAAAAGTTTTGACCTCAGTCTCA
+i galGal3.chr3 C 0 I 3
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+
+a score=-34145.000000
+s mm9.chr10 3188192 34 + 129993255 C-CAGGGACCTACCCTGAACAG--------C-------------AG-TGCACCTTGA
+s rn4.chr1 230006115 32 - 267910886 T---GGGGGCTACTCTGAACAG--------C-------------AG-TGTACCTTGT
+q rn4.chr1 9---999999999999999999--------9-------------99-9999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83731 35 - 169015 C-TCTGAACCTGCTGTGTATGG--------C-------------AGAGGGGCCCAGG
+q cavPor2.scaffold_284118 9-99599999999797999899--------9-------------9998899999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 94294 31 - 139458 T-CCTGGATTAGCTCAGTGCCC--------T-------------GG-AGTGCCC---
+q oryCun1.scaffold_214769 9-99499999999999999998--------5-------------99-9999999---
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16089102 25 - 170899992 T-TCTGGACCTGCTCTGTGC----------C-------------AG-T-------GA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16612529 25 - 173908612 T-TCTGGACCTGCTCTGTGC----------C-------------AG-T-------GA
+q panTro2.chr6 9-999999999999999999----------9-------------99-9-------99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16394593 25 - 174210431 T-TCTGGACCTGCTCTGTGC----------C-------------AG-C-------GA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108497009 25 + 167655696 T-TCTGGACCTGCTCTGTAC----------C-------------AG-T-------GA
+q rheMac2.chr4 9-999999999999999999----------9-------------99-9-------99
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 66063 25 - 523245 T-TCTGGACCTGCTCTGTGC----------C-------------AG-T-------GA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_335.1-444 105 23 - 444 C-TCTGGACCTGCTTTGTGT----------A-------------G----------GA
+q otoGar1.scaffold_335.1-444 9-999999999999999999----------9-------------9----------99
+i otoGar1.scaffold_335.1-444 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 391303 30 - 498454 --TCTGG-CCTGCTTTGTGCAG--------C-------------AG-C--ACCCGGA
+q tupBel1.scaffold_114895.1-498454 --99999-99999999999999--------9-------------99-9--9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 100239 48 - 121936 T-TTTGCATTTGCTCTGTGCTGGTGAATGCTCTTTCCAGGGTCATG-T-------GA
+q sorAra1.scaffold_256646 4-99998899996999999999989977969998999799999999-9-------99
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78257701 35 - 125616256 T-TCTGGACATGCTTTGTGCAGTACAGTGCC-------------AG-T-------GA
+q canFam2.chr1 9-99999999999999999999999999999-------------99-9-------99
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 119680 35 - 219823 T-TCTGGACATGCCTTCTGCAGTAGAGTGCT-------------GG-T-------GA
+q felCat3.scaffold_217398 9-99999999999899999996898999999-------------99-9-------99
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13047486 35 + 24938454 T-TCTGGACGTGTTTTGTGCGGTAGAGTGCT-------------GG-T-------GA
+q equCab1.chr31 9-99999999999999999999999999999-------------99-9-------99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13724686 35 - 95030419 T-TCTGGGCATGTTTCGTGTAGCAGAGTGCC-------------AG-T-------GA
+q bosTau3.chr9 9-99999999999999999999999999999-------------99-9-------99
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 61382 35 + 124190 T-TCTGCACATGCTTTATGCAGTGGAGTGCC---------------------TGGGG
+q loxAfr1.scaffold_4233 9-99999999999999999999999999999---------------------99999
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 36902 30 + 49972 T-TTTGCACATGTTCTGTGCCGTGGAGTGCC--------------------------
+q echTel1.scaffold_324002 9-99999999999999999999999999979--------------------------
+i echTel1.scaffold_324002 C 0 I 7085
+s monDom4.chr2 106223552 31 - 541556283 TTTCTGGAAATGCTTTGTGCAACAGAGCTCC--------------------------
+q monDom4.chr2 9999999999999999999999999999999--------------------------
+i monDom4.chr2 C 0 I 15041
+s galGal3.chr3 61568963 34 - 113657789 ---CTGGAAATCCTTTGTGAAATGCAGTTCA-------------AG-------TTAA
+i galGal3.chr3 I 3 I 6480
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 11554 70 + 27231 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+
+a score=38569.000000
+s mm9.chr10 3188226 57 + 129993255 CTGCCTTGCTGGGGGA----------------------TG--------------------AGGGGTCGCACCCCTCCTCCAGAGTC-T-G-----------------------CAAGTGAATGT-------------------------
+s rn4.chr1 230006147 57 - 267910886 CTGCATTGCCGGGGGA----------------------AG--------------------AGGGGTGGTACCCCTCCTCCAGAGGC-T-G-----------------------CAAGTGAATGG-------------------------
+q rn4.chr1 9999999999999999----------------------99--------------------99999999999999999999999999-9-9-----------------------99999999999-------------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83766 42 - 169015 CTGCTTTGC----ACA----------------------GG--------------------AGGG----------TCCCTTGAGGGT-T-G-----------------------CACACCATTG--------------------------
+q cavPor2.scaffold_284118 999999999----999----------------------99--------------------9999----------999999999999-7-9-----------------------9999999969--------------------------
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 94325 47 - 139458 CTGACTTCACTGGGCA----------------------GG--------------------AGGG----------GCCCAGAGGGCT-T-G-----------------------CAAACAAGTGT-------------------------
+q oryCun1.scaffold_214769 9799999999699998----------------------89--------------------8478----------799999988799-6-9-----------------------99999999799-------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16089127 45 - 170899992 CTACATTGG----ACAG---------------------GG--------------------GGGG----------TCACTTAGGGGT-TCA-----------------------CAAAAGAGTGT-------------------------
+i hg18.chr6 C 0 I 3
+s panTro2.chr6 16612554 43 - 173908612 CTACATTGG----AC-----------------------GG--------------------GGGG----------TCACTTAGGGGT-TCA-----------------------CAAAAGAGTGT-------------------------
+q panTro2.chr6 999999999----99-----------------------99--------------------9999----------999999999999-999-----------------------99999999999-------------------------
+i panTro2.chr6 C 0 I 3
+s ponAbe2.chr6 16394618 44 - 174210431 CTGCATTGG----ACA----------------------GT--------------------GGGG----------TCACTTAGGGGT-TCA-----------------------CAAAAGAGTGT-------------------------
+i ponAbe2.chr6 C 0 I 3
+s rheMac2.chr4 108497034 44 + 167655696 CTGCATTGG----ACA----------------------GG--------------------GGGG----------TCACGTAGGGGT-TCA-----------------------CAAAAGTGTGT-------------------------
+q rheMac2.chr4 999999999----999----------------------99--------------------9999----------999999999999-999-----------------------99999999999-------------------------
+i rheMac2.chr4 C 0 I 3
+s calJac1.Contig1260 66088 50 - 523245 CTGCATTGG----ATGGG----------------GGGAGA--------------------GGGG----------TCACTCAGGGGT-TCA-----------------------CAAATGAGTGT-------------------------
+i calJac1.Contig1260 C 0 I 3
+s otoGar1.scaffold_335.1-444 128 43 - 444 CTGTGCTGG----GC-----------------------AG--------------------GGGA----------TCACTCGGGGGC-TCC-----------------------CAAATGCATGT-------------------------
+q otoGar1.scaffold_335.1-444 999999999----99-----------------------99--------------------9999----------999999999999-999-----------------------99999999999-------------------------
+i otoGar1.scaffold_335.1-444 C 0 I 3
+s tupBel1.scaffold_114895.1-498454 391333 67 - 498454 ATGCAGTGG----ATGGGCCCTTGGGGGTGGTGTGGGGGT--------------------GGGG----------TCGCGTGAGGCTCTGG-----------------------CAAGTGAATGT-------------------------
+q tupBel1.scaffold_114895.1-498454 999999999----999999999999999999999999999--------------------9999----------9999999999999999-----------------------99999999999-------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 3
+s sorAra1.scaffold_256646 100287 87 - 121936 ATGCACTAT----CCA----------------------GGGTCATGTGAATGCACTTTCCAGGG----------TCATGTGAATGC-ACTTTCCGGGGTCACGGGTTGCCTAGCAGACGCAGGT-------------------------
+q sorAra1.scaffold_256646 789989999----965----------------------87899999988899988999846999----------999999998999-8999999999999889998996999988655798599-------------------------
+i sorAra1.scaffold_256646 C 0 I 3
+s canFam2.chr1 78257736 44 - 125616256 AGGCATTTG----ACA----------------------GG--------------------AGGG----------TCACAGGAGGGT-TCT-----------------------CAAATGAGTGT-------------------------
+q canFam2.chr1 999999999----999----------------------99--------------------9999----------999999999999-999-----------------------99999999999-------------------------
+i canFam2.chr1 C 0 I 3
+s felCat3.scaffold_217398 119715 44 - 219823 ATGCATTTG----ACA----------------------GG--------------------AGGG----------TGATAGGAGAGT-TCT-----------------------CAAATGAGGGT-------------------------
+q felCat3.scaffold_217398 999999999----999----------------------99--------------------9999----------999999999999-999-----------------------99999998997-------------------------
+i felCat3.scaffold_217398 C 0 I 3
+s equCab1.chr31 13047521 44 + 24938454 ATGCATTTG----ACA----------------------GG--------------------AGGG----------TCACTGGAGAGT-TCT-----------------------CAAATGAATGT-------------------------
+q equCab1.chr31 999999999----999----------------------99--------------------9999----------999999999999-999-----------------------99999999999-------------------------
+i equCab1.chr31 C 0 I 3
+s bosTau3.chr9 13724721 43 - 95030419 ATGCATTTG----ACA----------------------GG--------------------AGGG----------TCATGGAAGGG--TCT-----------------------TAAATGAATGT-------------------------
+q bosTau3.chr9 999999999----999----------------------99--------------------9999----------99999999999--999-----------------------99999999999-------------------------
+i bosTau3.chr9 C 0 I 3
+s loxAfr1.scaffold_4233 61417 69 + 124190 ATGCATTTG----CCA----------------------GA--------------------AGGT----------TCTTCAGAGGGT-GCA-----------------------CAAATGAAAGGGCCCTTTTCTGGGCTTGGAAGGGCT
+q loxAfr1.scaffold_4233 999999999----999----------------------99--------------------9999----------999999999999-999-----------------------999999999997999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 11554 70 + 27231 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+
+a score=1081503.000000
+s mm9.chr10 3188283 247 + 129993255 TT---TTCT--------GAGAGAGTCTAACA---C-TTTATT-AAATA-TCTTCAGTCTTCATATAATCTTCAGTAAAA-----TA-CTGTTGT-AA--CACAGCATCAT-TTTAGTGTT----TATTTAATCTGCTGC-----C-ATGCA-GATCATGGGGTGTTTA--CCTGA----------G--A-------G-----------------TGTTTTACATTGAATAATTCATTTGCAGGTCAGTTACTGTGCAGCTGTAGTTGG--CCCTGGTGC--T-TTAAAGAGGTTTC----------TAGGTAAACTA---GTTTTAGTGGCTGTTGAtttt-
+s rn4.chr1 230006204 230 - 267910886 TT---GTCTGGGT--GGGAGAGAGTCTAATATGGT-TTTATT-AAGTA-ACTTTAGTCTTCATATAATCT---GTAAAA----------------------------------TGGTGTT----ACTTTCATCCGCTGC-----C-CTGTG-CACATTTGGATGGTTA--CGTGGG--------TG--A-------G-----------------TGTCTTGCATTGAATAATTTGCTTGCTGGTCAGTTAAAGTGGAGCTGTAGTTTG--GCCCTGATT--C-TTACAGAGGTTTC----------TAGGTAAACTA---GTTTTAGTGGCTGttt-tttt-
+q rn4.chr1 99---99999999--99999999999999999999-999999-99999-999999999999999999999---999999----------------------------------9999999----999999999999999-----9-99999-9999999999999999--999999--------99--9-------9-----------------999999999999999999999999999999999999999999999999999999--999999999--9-9999999999999----------99999999999---9999999999999999-9999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 83808 239 - 169015 -----------------GAGGG------------T-TTTACTGAAATA-TCTCTGGTCTTTACATAACCTTCTTTTCCA-CTACTC-TTATTTT-AATCTACGTGTTAAT-TACCTTATC----TATTCAATCCAGTTC-----C-ACATA-GATCTTTGCATTTATA--AATTAG--------TGATA-------A-----------------CTTTCTACTATGACTAGTTCATCTCCTGGGCTGTTAATGTGTAACTGTGGTCAG--CCCTGGTGT--TATAAAAGGAGTTTC----------TATGTAAGCTG---AGTTTAATGCATGTTG------
+q cavPor2.scaffold_284118 -----------------99999------------9-999996999999-999999999999999999999999999999-999999-9999999-999999999999999-999999999----999999989997999-----9-99997-7999994999999999--999999--------79999-------9-----------------999999999979999999997999997999978999969599999796999999--999599779--999999578979999----------99699999969---9999999799979979------
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 94372 270 - 139458 CCCCAGTCTGGGCTGGGGAAAAGTTTTAGTAGGGG-TTTACTAGAGAA-TCTTTAGTCTTGATAGAATCTCCTTTTAAAAATATCC-TTATTGT-AATGCATGTGCTAAC-CATAGCATC----TGTTTAATTCACCTC-----TGGCATG-GATTTGTGGATATATA--AACTGT--------TGGTA-------A-----------------CTTTTTGCTTTGAACGGTTCATCTCCTGGGCAGTTAATGTGTAATTGCAGCTGG--CCTTGGTGT--CATATAAGAGGTTTT----------TATGTAAACTT---AGTTTAATGGATGTTG------
+q oryCun1.scaffold_214769 99999999779885877799999999999994679-999999999999-9999999997799999989999999999999999999-9999799-998999999999999-999999999----899999999999999-----7999958-9999795999999999--999999--------99999-------9-----------------999999999999999999999999999999999999999999999999999999--999999999--999999999999999----------99999999999---9999999999999999------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16089175 242 - 170899992 TT--------------------ATTTTAGTG-AGT-TTTACTAAAATG-TCTTTAGTCTGGATATAATCTCCTTTTTGA-ATATTC-TTATTAT-AATTCATATACTAAT-TATACTGTC----TTTTTAATCCATTTATAG--C-ATATA-GATCTTTGGATATATA--AATTGG--------TGA--------------------------------TGCTTTGAACAGAACATCTCCAGGGCAGTTAATGTGTAAATGCAGTTGG--CCTTGGTGT--TATAAAAGAGGTTTC----------TATGTAAACTT---AGTTTAGTGGATGTTG------
+i hg18.chr6 I 3 I 1
+s panTro2.chr6 16612600 242 - 173908612 TT--------------------ATTTTAGTG-AGT-TTTACTAAAATG-TCTTTAGTCTTGATATAATCTCCTTTTTGA-ATATTC-TTATTAT-AATTCATATACTAAT-TATACTGTC----TTTTTAATCCATTTATAG--C-ATATA-GATCTTTGGATATATA--AATTGG--------TGA--------------------------------TGCTTTGAACAGACCATCTCCAGGGCAGTTAATGTGTAAATGCAGTTGG--CCTTGGTGT--TATAAAAGAGGTTTC----------TGTGTAAACTT---AGTTTAGTGGATGTTG------
+q panTro2.chr6 99--------------------999999999-999-999999999999-999999999999999999999999999999-999999-9999999-999999999999999-999999999----999999999999999999--9-99999-9999999999999999--999999--------999--------------------------------9999999999999999999999999999999999999999999999999--999999999--999999999999999----------99999999999---9999999999999999------
+i panTro2.chr6 I 3 I 1
+s ponAbe2.chr6 16394665 241 - 174210431 TT--------------------ATTTTAGTG-AGT-TTTACTAAAATA-TCTTTAGTCTTGATATAATCTCCTTTTTGA-ATATTC-TTATTAT-AATTCATATACTAAT-TATACTGTC----TTTTAAATCCATTTATAG--C-ATATA-GATCTTTGGATATATA--GATTGG--------TGA--------------------------------TGCTTTGAACAGACTATCTCCA-GGCAGTTAATGTGTAAATGCAGTTGG--CCTTGGTGT--TATAAAAGAGGTTTC----------TATGTAAACTT---AGTTTAGTGGATGTTG------
+i ponAbe2.chr6 I 3 I 1
+s rheMac2.chr4 108497081 239 + 167655696 TT--------------------GTTTTAGTG-AGT-TTTACTAAAATG-TCTTTAGTCTTGATATAATCTCCTTTTTGA-ATATTC----TTAT-AATTCATATACTAAT-TATACTATC----TTTTTAATCCATTTGTAG--C-ATATA-GATCTTTGGATGTATA--AATTGG--------TGC--------------------------------TGCTTTGAACAGACCATCTCCAGGGCAGTCGATGTATAAATGCAGTTGG--CCTTGGTGT--TATAAAAGAGGTTTC----------TATGTAAACTT---AGTTTAGTGGATGTTG------
+q rheMac2.chr4 99--------------------999999999-999-999999999999-999999999999999999999999999999-999999----9999-999999999999999-999999999----999999999999999999--9-99999-9999999999999999--999999--------999--------------------------------9999999999999999999999999999999999999999999999999--999999999--999999999999999----------99999999999---9999999999999999------
+i rheMac2.chr4 I 3 I 1
+s calJac1.Contig1260 66141 240 - 523245 TT--------------------ATTTTAGTG-AGT-TTTACTAAAATA-TCTTTCGTCTTGATATTATCTACTTTTAAA-GTATTC-TTATTGT-AATTCATATACTAAT-TACACTATC----TTTTTAATCCATTTATAG--C-ATATA-GATCTTTGGATATATA--AATTGG--------TGA--------------------------------TACTTTGAACAGACCATCTCCAAGGCAATTAGTGTGTAAATGCAGTTGG--CCTTGGTGT--TATAAA--AGGTTTC----------TATGTAAACTG---AGTTTAATGGATGTTG------
+i calJac1.Contig1260 I 3 I 1
+s otoGar1.scaffold_335.1-444 174 259 - 444 TT---TTCTGGGCTGG-GGAGGGTTTTAGTGAAGT-TTTGCTGAAGCA-TCTTTAGTCTTGATGTAGTCTCCTTTTTAG-GTATTC-TTGCTGT-AATTCATGTACTAAT-TATACTGT-----------ATCTATTTATATACC-ATATT-TATCTGTGGATATATA--AACTGG--------TGAT--------A-----------------CCTTTTGCTTTGACTGGGCCACCCCCTGGGCAGTTCGTGTGTGAGTGCAGTTGG--CCCTGGGGT--GGTCAAAGAGGCTTT------------TGTAAACTT---AATTTAGTGCATGTTG------
+q otoGar1.scaffold_335.1-444 99---99999999999-999999999999999999-999999999699-999999999999999999999999999999-999999-9999999-999996999999999-99999999-----------999999999999999-99999-9999999999699999--999999--------8974--------9-----------------999999999999999999997998999867895999779799986794469777--987266346--932544986253797------------896553555---5174121131335667------
+i otoGar1.scaffold_335.1-444 I 3 n 3
+s tupBel1.scaffold_114895.1-498454 391403 269 - 498454 TT---TTCAGGGCTCA-GGAAGGTTTTGTAG-AGT-TTTACTAAAATA-CCTTTAGTCTTGATATAATCTCCTCTTCAACATATTCCTTTTTGC-AAAGCATGTACTAATAAATACTACT----TGTTTAGTGTATTTACAC--C-ACGTA-GATCTTTGGATGTGTG--CATTGG--------TGATA-------A-----------------CTTTTTGCTTTGAACAGTCTGTTCTCCGGACAGTTAATGTGTAATTGCAGTTGG--CCCTGGTGT--TATAAAAGAGGTTTT----------TATGTAAATCT---AGTTTAGTGGATGTTG------
+q tupBel1.scaffold_114895.1-498454 99---99999999999-99999999999999-999-999999999999-999999999999999999999999999999999999999999999-9999999999999999999999999----999999999999999999--9-99999-9999999999999999--999999--------99999-------9-----------------999999999999999999999999999999999999999999999999999999--999999999--999999999999999----------99999999999---9999999999999999------
+i tupBel1.scaffold_114895.1-498454 I 3 I 1
+s sorAra1.scaffold_256646 100377 257 - 121936 AT---TTCTGGGCTGG-GAAGGGCATTCAAG-ACT-TTTA-TAAAGTA-TCTTTAGTTTTGGTGGAATTTCCCTTTTAA-ATAGTC----TTGC-CACACCTTTATTAAT-GACATAATC----TATT-----CATTGATAC--C-AGTGA-GATCtttttttGTTTATCAATAGG--------CAACA-------G-----------------ATTTTTGCCTTGAATGACCCA-----AGGGCAGTTAAAAGCTATTTGCATTTGG--CCTTGGTGT--TATAAAAGACCTTTT----------AATGTAAACTTCAGGTTTTGTTGGACGTTT------
+q sorAra1.scaffold_256646 99---89999997898-88869856599679-968-9999-9889989-699999989888559887488888888954-589999----5985-669899897899998-999888889----7998-----639999899--9-59999-774979999997397656577877--------53765-------7-----------------559998537579645965974-----6796764485999654539945449664--675967652--753677765856868----------555746636664553377654675565575------
+i sorAra1.scaffold_256646 I 3 I 1
+s canFam2.chr1 78257783 262 - 125616256 TT---TCCTGGGTTGG-GGAGGGTTTT--AG-AAT-TTGATTAAAGTATCTTTTCATCTTGATATAATCTCCCTTTAAA-ATGTTC-CTATTATAAATGTATATGTTAAT-TATACTATT----TGTTTAATCCATTTACAT--T-ATATATAATCTTTGTATATATA-------G--------TGATA-------A-----------------TTTTTCCCCTTGAACAACCCACCCCTTCGGCAGTTAATATATATTTGCTGTTGG--CCCTGGGGT--TATAAAAGAGGTTGT----------AATGTAAACTT---GGTTTGGTGGCTGCTG------
+q canFam2.chr1 99---99999999999-9999999999--99-999-9999999999999999999999999999999999999999999-999999-99999999999999999999999-999999999----999999999999999999--9-9999999999999999999999-------9--------99999-------9-----------------999999999999999999999999999999999999999999999999999999--999999999--999999999999999----------99999999999---9999999999999999------
+i canFam2.chr1 I 3 I 1
+s felCat3.scaffold_217398 119762 269 - 219823 TT---TTCCGGTTTGG-GGAGGGTTTTAGAG-AGC-TTTATTAAAATAGCTTTTCATCTTGCTGTAATTTCCCCTTTAA-ATGTTC-TTATTGT-AATGCATATATTAAT-TATACTATC----TATTTAATCCATTTATAC--T-GTATA-GATCTTTGTATATATA--AATTGG--------TCATA-------A-----------------TTTTTTGCCTTGAACAACTCCTCCCTTGGGCAGTTAATGTATATTTGCAGTTGG--CCCTGAGGTTGTATAAAAGAGGTTGT----------CATGTAAACTG---AGTTTAGTGGATGTTG------
+q felCat3.scaffold_217398 99---99999999999-99999999999999-999-9999999999999999999999999999999999999999999-999999-9999999-999999999999999-999999999----999999999999999999--9-99999-9999999999999999--999999--------99999-------9-----------------999999999999999999999999999999999999999999999999999999--99999999999999999999999999----------99999999999---9999999999999999------
+i felCat3.scaffold_217398 I 3 I 1
+s equCab1.chr31 13047568 264 + 24938454 TT---TTCTGGGTTGG-GGAGGGTTTT--AG-AGT-TTTACTAAAGTA-CCTTTAGTCTTGCTGTAATCTCCTTTTAAA-ATATTC-TTATTGC-AACGCATATATTAAT-TATACTATC----TATTTAATCCATTTGTAC--C-ATATA-GATCTTCGTGTATATA--AATTGA--------TGATA-------A-----------------TTTTTTGCCTTGAACAGCCCATTCCCTGGACAGTTAATGTGTATTTGCAGTTGT--CCCTGGTGT--TATAAAAGACGGTTT----------GATGTAAACTT---AGTTTCGTGGATGTTC------
+q equCab1.chr31 99---99999999999-9999999999--99-999-999999999999-999999999999999999999999999999-999999-9999999-999889999999999-999999999----999999999999999999--9-99999-9999999999999999--999999--------99999-------9-----------------999999999999999999999999999999999999999999999999999999--999999999--999999999999999----------99899999999---9999999999999999------
+i equCab1.chr31 I 3 I 1
+s bosTau3.chr9 13724767 292 - 95030419 TA---TTTTGAGTCAG-GGAGGGTTTT--CG-AGCATTCAGTAAAATA-TCTTTAGCCTGGCTATAATCTCCTTTTAAA-ATATTC-TTATTAT-AATACATCTGTTTAT-TATATCAATACCATGTTTAATCCATTTACAC--C-ATATA-GATCTTTGTATATTTA--AACAAGAGTATATTTAATA-------AGCGTATATTTAAATAACTTCTTTGCCTTAACTAGTCCATCCCTGGGACAGTTAATATGTATTTGCAATTGT--CCCTGGTAT--TATGAGAGACATTTC----------TATGTAAAC-----AGTTTAGTGGATGTTG------
+q bosTau3.chr9 99---99999999999-9999999999--99-9999999999999999-999999999999999999999999999999-999999-9999999-999999999999999-9999999999999999999999999999999--9-99999-9999999999999999--9999999999999999999-------999999999999999999999999999999999999999999999999999999999999999999999999--999999999--999999999999999----------999999999-----9999999999999999------
+i bosTau3.chr9 I 3 I 1
+s dasNov1.scaffold_13068 11624 239 + 27231 ---------------------TGTTTTAGTAGAGT-TTTACTAAAATC-TCTTCAGTCGCCACATAATCTCCTTTTCTAAGT-TTC-T------------------------------------TACTGAATTAATTTCTGC--C-AGATA-GCTCTTTTGATACATA--AATTGG--------TGATATTTTTTTT-----------------TTTTTTGCCTCAAACAGTACATCCCCTGAGCAGTTAATGTGTATTTGCAGTTGGTCCCCTGGTGT--TATAAAAGAGATTTTATGGGACATTTATGTAGACTT---GGTTTAGTGGAT-TTG-----A
+q dasNov1.scaffold_13068 ---------------------99999999999999-999999999999-999999999999999999999999999999999-999-9------------------------------------999999999999999999--9-99999-9999999999999999--999999--------9999999999999-----------------99999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999999999999999---999999999999-999-----9
+i dasNov1.scaffold_13068 I 70 C 0
+s loxAfr1.scaffold_4233 61486 252 + 124190 ---------------------TTTTTTAGGAGAAT-GTTACTAAAATA-TCTTTAGTCTGGATTTAATCTCCTTTTTAAAATATTC-TTATTTG-GATGCATATATTAAT-TATATCATC----TATTGAATCCATTTACAC--T-GTAAA-ACCCTGC--GTATACA--AATTGG--------TGATA-------A-----------------CTTTTTGCCTTGAACAAT-------TTGGAAAGTTAATGTGGATGTGTAGTTGG--CCCCGGTGC--TATAGAAGAGGCTTTATGTGACGTTTATGTA-ACTT---AGTTTAGTGGATGTTG-----A
+q loxAfr1.scaffold_4233 ---------------------99999999999999-999999999999-9999999999999999999999999999099999999-9999999-999999999999999-999999999----999999999999999999--9-99999-9999999--9999999--999999--------99999-------9-----------------999999999999999999-------99999999999999999999999999999--999999999--9999999999999999999999999999999-9999---9999999999999999-----9
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+
+a score=525229.000000
+s mm9.chr10 3188530 141 + 129993255 tttttttttttttttttttGATGGACAGGAAGTAAGCAGAAGTTGGATTAAGAAAAGATGT-AGGGGTAA------GAAATCATTGGAAAGTTTTAGAGCAATGATAA-AAGTGGATAGAATAGAGAA--TAACCTAAACCAGAG----------------------AGA---------------------------------------------------AG--------------------------------G
+s rn4.chr1 230006434 140 - 267910886 tttttttttttttttttttGATGGGCAGGAAGTGAACAGAATTTGGATTAAGAAAGGATGT-AGGGGTAA------GAAATCACTGGAGAGTTTTGGAACAATGATAA-GGACAGATAGAATGGAGAA--GGACCTAAA-CAGAG----------------------AGA---------------------------------------------------GG--------------------------------G
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999-99999999------99999999999999999999999999999999-9999999999999999999--999999999-99999----------------------999---------------------------------------------------99--------------------------------9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 84047 119 - 169015 ------------ATTTTCTGGTGGACAGGAAGTGAATAGAA---GGAAGAAGAGTGAACAC-A-----AC------AAATTGACTGGAAAGTTTTGGAGCAA-AAGAA-GGGCAGATGGAATGGACAG--TGACCTAAAATAGGG----------------------AAC---------------------------------------------------AG---------------------------------
+q cavPor2.scaffold_284118 ------------99999999969999799999599997999---99979999997999999-9-----99------99997999599999999969999999-99999-9999999779998999999--999999999999999----------------------999---------------------------------------------------99---------------------------------
+i cavPor2.scaffold_284118 C 0 I 130
+s oryCun1.scaffold_214769 94642 117 - 139458 ------------ATTTAGGGATAGACAGGAAATGAACAGAGCTAGAAGGAAGGAAGGAAGG-AGGAAAAATC----AAAACCACTGGAAAGTTTCAGAGTGACGAGAA-GGGCCGATAGAACGG--------ACCTAAAATAA-----------------------------------------------------------------------------------------------------------------
+q oryCun1.scaffold_214769 ------------9999999999999999999999999979999999999999999999999-9799999999----99999999799999999999799688879669-999999969999999--------99965997765-----------------------------------------------------------------------------------------------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16089418 161 - 170899992 -------------TTTTATGATAGACAGGAAATGAATATAATTAAAAGTAAGGAAGGGGGA-GGGGAGAAAC----AAAACCACTGGAAAGTATCAATGTAAGGAGAG-GGGCAGATAG-ATGGGCAG--GAACCTAAAATAGGA----------------------AAC---------------------------------------------------AGCTATTAATGAAGATTCCAAAACTGGTGAGCAGT
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16612843 161 - 173908612 -------------TTTTATGATAGACAGGAAATGAATATAATTAAAAGTAAGGAAGGGGGA-GGGGAGAAAC----AAAACCACTGGAGAGTATCAGTGTAAAGAGAG-GGGCAGATAG-ATGGACAG--GAACCTAAAATAGGA----------------------AAC---------------------------------------------------AGCTATTAATGAAGATTCCAAAACTGGTGAGCAGT
+q panTro2.chr6 -------------999999999999999999999999999999999999999999999999-9999999999----99999999999999999999999999999999-9999999999-99999999--999999999999999----------------------999---------------------------------------------------99999999999999999999999999999999999
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16394907 162 - 174210431 -------------TTTTATGATAGACAGGAAATGAATATAATTAAAAGTAAGGAAGGGGGACGGGAAGAAAC----AAAACCACTGGAAAGTATCAATGCAAAGAGAG-GGGCAGACAG-ATGGACAG--GAACCTAAAATAGGA----------------------AAC---------------------------------------------------AACTATTAATGAAGATTCCAAAACTGGTGAGCAGT
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108497321 212 + 167655696 -------------TTTTATGATAGACAGGAAATGAATAGAATTAAAGGTAAGGAAGGGGGA-GGGGAGAAAC----AAAACCACTGGAAAGTATCAATGCAAAGAGAG-GGGCAGATAG-ATGGACAG--GAACCTAAAATAGGA----------------------AACATTATTATATAATAATAATAAATAGGAAACAATCTTATAAACATTAATATAAAATATTAATGAAGATTCCAAAACTGGTGAGCAGT
+q rheMac2.chr4 -------------999999999999999999999999999999999999999999999999-9999999999----99999999999999999999999999999999-9999999999-99999999--999999999999999----------------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1 C 0
+s calJac1.Contig1260 66382 161 - 523245 -------------TTTTATGACAGACAGGAAATGAATAGAATTAAAAGTTAGGAACAGGGA-GGGGAGAAAC----AAAACCACTGGACAGTGTCAATGCAAAGAGAG-GGATGGATAG-ATGGACAG--GAATCTAAAATAGGA----------------------AAC---------------------------------------------------AGCTCTGAATGAAGATTCCAAAACTGGTGAGCAGT
+i calJac1.Contig1260 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 391673 156 - 498454 -------------TTTTATGATGGACAGGAAATGAGTAGAA------GTGAGGAAGGGGGG-AGGAGAAAAC----AAAACCACTGGAAAGTTTGGGAGCAGAATGAA-GGGCACAGAGAATGGATAG--GGATCAGAAGTAGGG----------------------AAC---------------------------------------------------GGCTATTGATTAAGACTCCGAAACTGAGGAGCAAG
+q tupBel1.scaffold_114895.1-498454 -------------9999999999999999999699997999------99999999999999-9999999969----99959749657999999779998899997799-9989799999997799987--796898999797996----------------------759---------------------------------------------------97997745879769889999999999999978969
+i tupBel1.scaffold_114895.1-498454 I 1 I 166
+s sorAra1.scaffold_256646 100635 124 - 121936 -------------TTTTATGGTCAGCAGGAAGAGTACAGAATTTGaaggcag----gagga-ggaagagaag----aaaaccaTGAATAAGTTTCTC---AAAGAACATGGGCAAGTAGAATGGATAG--GAACCGAAAATTGGG----------------------AAA---------------------------------------------------AGT--------------------------------
+q sorAra1.scaffold_256646 -------------497363536685455556655634356639565565424----65756-9875797767----799879499779978999999---8999999999998957867789999999--999999999999999----------------------999---------------------------------------------------999--------------------------------
+i sorAra1.scaffold_256646 I 1 I 6633
+s canFam2.chr1 78258046 121 - 125616256 -------------TTTTGTGATGCACAGGAAGTGAGTAGAATTTAGATTAAA------GAG-AGGAAAAAAC----AAAACCATTGGAAAGTTCTGG---AAAGAACA-GGGCAGATACAATGGATAA--AAACCTAAAAAAGGG----------------------ACT---------------------------------------------------AGC--------------------------------
+q canFam2.chr1 -------------999999999999999999999999999999999999999------999-9999999999----999999999999999999999---99999999-9999999999999999999--999999999999999----------------------999---------------------------------------------------999--------------------------------
+i canFam2.chr1 I 1 I 33
+s felCat3.scaffold_217398 120032 117 - 219823 -------------TTTTGTGATAGACAGGAAATGAATAGAATTTAGAAGAAA----GGGGG-AGGAAAAAAC----AAAACCACTGGAAAATTCTGG---AAGGAACA-GGGCAGATAGAATGGATAA--AAACCTAAA----------------------------ACT---------------------------------------------------AGC--------------------------------
+q felCat3.scaffold_217398 -------------999999999999999999999999999999999999999----99999-9999999999----999999998888898988999---99999999-8988877798988899999--999999999----------------------------997---------------------------------------------------777--------------------------------
+i felCat3.scaffold_217398 I 1 I 12222
+s equCab1.chr31 13047833 149 + 24938454 -------------TTTTATGACGGACAGGAAATGAATAGAATTAGAAGTAAGGAAAGGGAG-AGGAAAAAAC----AAAACCACTGGAAAGTTTTGG---AAAGAAAA-GGGCAGATAGAATGGATAG--GAACCTAAAATCGGGAAGAGCTATTGAAGATTCGAAAACC---------------------------------------------------AGT--------------------------------
+q equCab1.chr31 -------------999999999999999999999999999999999999999999999999-9999999999----999999999999999999999---99999999-9999999999999999999--9999999999999999999999999999999999999999---------------------------------------------------999--------------------------------
+i equCab1.chr31 I 1 I 8
+s bosTau3.chr9 13725060 123 - 95030419 -------------TTTTATGATGGACAGGAAATGAGTAGAATTAGAAGCAAG---AGAGGG-AGGAAAAAAC----AAAAACACTGGAAAGTTTTGG---AAAGAAAA-GGGCAGATAGAATCTAT-T--GAACCTAAAGTAAGG----------------------AAC---------------------------------------------------TGC--------------------------------
+q bosTau3.chr9 -------------999999999999999999999999999999999999999---999999-9999999999----999999999999999999999---99999999-99999999999999999-9--999999999999999----------------------999---------------------------------------------------999--------------------------------
+i bosTau3.chr9 I 1 I 18
+s dasNov1.scaffold_13068 11863 133 + 27231 -------------TTTTATGATGGACAGGAAATGAATAGAATTAGAAGTAAGGAAGGGGGG-AAGGAGAAAACAATAAAA-CGCCGGCAAGTTTTGGAGGAACGAGAA-GAGCAGATGGAATGGATAA--GGACATAAATTAGGG----------------------AAC---------------------------------------------------AGC--------------------------------
+q dasNov1.scaffold_13068 -------------999999999999999999999999999999999999999999999999-999999999999999999-999999999999999999999999999-9999899999999999999--999999999999999----------------------999---------------------------------------------------999--------------------------------
+i dasNov1.scaffold_13068 C 0 I 9
+s loxAfr1.scaffold_4233 61738 130 + 124190 -------------TTTTATGATGGACAGGAAATGAA------TAGGAGTAACGAAGGGAGA-AGGAAGAAACAAATAGAACCACTGGAAAGCTTTGGAGCCAAGAGAA-GGGCAGACACTATGGATAAAGGAACATAAAATAGGG----------------------AAC---------------------------------------------------AGG--------------------------------
+q loxAfr1.scaffold_4233 -------------99999999999999999999999------9999999989999999999-9999999999999999989999999999999999999999999999-999999999999999999999999999999999999----------------------999---------------------------------------------------999--------------------------------
+i loxAfr1.scaffold_4233 C 0 I 425
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=6182.000000
+s mm9.chr10 3188671 49 + 129993255 AGTCTCCA------------------------------AACTCA----------TCAATTATAGCT-----AGAGGGTAAGAAGGGATACCATC----------------------------------------------------------------------------------------------
+s rn4.chr1 230006574 50 - 267910886 AGTCTATA---------------------------AATAACTGG----------TGAATTATAGTT-----AGACAATAGTTA--GATACCATC----------------------------------------------------------------------------------------------
+q rn4.chr1 99999999---------------------------999999999----------999999999999-----999999999999--999999999----------------------------------------------------------------------------------------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 94759 24 - 139458 ----TCCA------------------------------AA----------------AGTGACAGGC-----AGC-----------GGTGC--------------------------------------------------------------------------------------------------
+q oryCun1.scaffold_214769 ----5799------------------------------99----------------9767963375-----334-----------46684--------------------------------------------------------------------------------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16089579 49 - 170899992 GGCTCACA------------------------------AATTAG----------CTGGTCATGGTT-----AGAGAGCAATGAGAGAAACCATC----------------------------------------------------------------------------------------------
+i hg18.chr6 C 0 I 79
+s panTro2.chr6 16613004 49 - 173908612 GGCTCACA------------------------------AATTAG----------CTGGTCATGGTT-----AGAGAGCAATGAGAGAAACCATC----------------------------------------------------------------------------------------------
+q panTro2.chr6 99999999------------------------------999999----------999999999999-----99999999999999999999999----------------------------------------------------------------------------------------------
+i panTro2.chr6 C 0 I 79
+s ponAbe2.chr6 16395069 49 - 174210431 GGCTCACA------------------------------AATTAG----------CTGGTCGTGGTT-----AGAGAGCAGTGAGAGAAACCATC----------------------------------------------------------------------------------------------
+i ponAbe2.chr6 C 0 I 6986
+s rheMac2.chr4 108497533 49 + 167655696 GGCTCACA------------------------------AATTAG----------CTGGTCATGGAT-----AGAGAGCAATGAGAGAAACCGCC----------------------------------------------------------------------------------------------
+q rheMac2.chr4 99999999------------------------------999999----------999999999999-----99999999999999999999999----------------------------------------------------------------------------------------------
+i rheMac2.chr4 C 0 I 66
+s calJac1.Contig1260 66543 49 - 523245 GGCTCACA------------------------------AATTAG----------CTGGTTGTGGTT-----AGGGAGCAATGAGAGAAACCGCC----------------------------------------------------------------------------------------------
+i calJac1.Contig1260 C 0 I 80
+s canFam2.chr1 78258200 46 - 125616256 GGTCCACA------------------------------GA-TAT----------CTAGTCACAGATAGAGAAGAGAGCCAAGAGAGA-----------------------------------------------------------------------------------------------------
+q canFam2.chr1 99999999------------------------------99-999----------999999999999999999999999999999999-----------------------------------------------------------------------------------------------------
+i canFam2.chr1 I 33 I 88
+s equCab1.chr31 13047990 41 + 24938454 AGCTCACA------------------------------AA-TAG----------CTGGCCATGGTT-----AGAGAGCAAGGAGAGG-----------------------------------------------------------------------------------------------------
+q equCab1.chr31 99999999------------------------------99-999----------999999999999-----9999999999999999-----------------------------------------------------------------------------------------------------
+i equCab1.chr31 I 8 I 79
+s bosTau3.chr9 13725201 51 - 95030419 AGCAAACA------------------------------GA-TGGGCCACTGGTTCTGGTTCTGGAT-----ACAGAACAAGGAGAAC-----------------------------------------------------------------------------------------------------
+q bosTau3.chr9 99999999------------------------------99-9999999999999999999999999-----9999999999999999-----------------------------------------------------------------------------------------------------
+i bosTau3.chr9 I 18 I 83
+s dasNov1.scaffold_13068 12005 173 + 27231 AGATTCCAATATGGGTGAGTTGAAAGATCTTTACAATTAATTAG----------CTGGTCATGGGG-----AGAGAGCAAAGACAGAAGGTGCCTTTTGAGAACCAAAGGCGACTCTGGGGGCGCAGGCGGGTGCCTGTCTTGTAAGGCAGAACCAGTGGCCTCTGCTTCTGGATCGAATTCAGAATC
+q dasNov1.scaffold_13068 99999999999999999999999999999999999999999999----------999999999999-----999999999999999999999999999999999999999999999999999999999999999999999999999999999999699999999999999899959899898589989
+i dasNov1.scaffold_13068 I 9 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 61868 425 + 124190 I
+e tupBel1.scaffold_114895.1-498454 391829 166 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 84166 130 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=-11485.000000
+s mm9.chr10 3188720 20 + 129993255 CCAAGTTCAA-------------GTG--------------------CCCCCCT
+s rn4.chr1 230006624 24 - 267910886 CCAAGTTCAA-------------GCC-G---------------CCTCCCCCTT
+q rn4.chr1 9999999999-------------999-9---------------9999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 94783 7 - 139458 ----------------------------------------------CCCCCCG
+q oryCun1.scaffold_214769 ----------------------------------------------4554463
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 66672 38 - 523245 -CAGGATTGA-------------ATT-AGAATCTGTGCCCAGTTTTTCTTCCT
+i calJac1.Contig1260 I 80 C 0
+s rheMac2.chr4 108497648 52 + 167655696 CCAGGACCACCTTCCAGGATTGAATT-AGAATCTGTATCCAGTTTTTCTTCCT
+q rheMac2.chr4 99999999999999999999999999-99999999999999999999999999
+i rheMac2.chr4 I 66 C 0
+s ponAbe2.chr6 16402104 39 - 174210431 CCAAGATTGA-------------ATT-AGAATCTGTACCCAATTTTTCTTCCT
+i ponAbe2.chr6 I 6986 C 0
+s panTro2.chr6 16613132 39 - 173908612 CCAAGATTGA-------------ATT-AGAATCTGTACCCAATTTTTCTTCCT
+q panTro2.chr6 9999999999-------------999-99999999999999999999999999
+i panTro2.chr6 I 79 C 0
+s hg18.chr6 16089707 39 - 170899992 CCCAGATTGA-------------ATT-AGAATCTGTACCCAATTTTTCTTCCT
+i hg18.chr6 I 79 C 0
+s canFam2.chr1 78258334 31 - 125616256 CCAAGATTGA-------------ATTCAGAGTCTGAGCCCAACT---------
+q canFam2.chr1 9999999999-------------999999999999999999999---------
+i canFam2.chr1 I 88 I 5
+s bosTau3.chr9 13725335 25 - 95030419 TCAGGACTGA-------------GTTCAGAAT------CCAGCT---------
+q bosTau3.chr9 9999999999-------------999999999------999999---------
+i bosTau3.chr9 I 83 I 7
+s dasNov1.scaffold_13068 12178 20 + 27231 --------------------------------CGATTCTCATTTTACCCTCT-
+q dasNov1.scaffold_13068 --------------------------------99999967699999999898-
+i dasNov1.scaffold_13068 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13048031 79 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 61868 425 + 124190 I
+e tupBel1.scaffold_114895.1-498454 391829 166 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 84166 130 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=98302.000000
+s mm9.chr10 3188740 71 + 129993255 CCACCACT--CA-----G-GGGCAGAGGG----------------------------TGACTGA--CATA-CACCATAGCTGCCCTG-TTCTCTTGAGAAGGCTTTTGCCT-
+s rn4.chr1 230006648 73 - 267910886 CCCCCACTTGCA-----G-GGGCAGAGGG----------------------------TGACTGA--CACA-CACCGTAGctgccctg-ttctcatgagggagcttttgcca-
+q rn4.chr1 999999999999-----9-9999999999----------------------------9999999--9999-9999999999999999-99999999999999999999999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 94790 70 - 139458 CCTTCTCT---------G-GGGCAGGGGG----------------------------TAACTGGGCTGTT-CCCTAGAGCTGCTCTT-TCCGGTACAGTAAATATTAGCC--
+q oryCun1.scaffold_214769 67787453---------5-4343335335----------------------------5983359956655-5444525334674455-6762558954345569645156--
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 66710 67 - 523245 CTCTC------------T-GGGTACAGGG----------------------------TACCTGAGACAGA-TGATAGAActgctctt-ttgagtaggatagctattagcc--
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108497700 67 + 167655696 CTCTC------------T-GGGTAGAGGG----------------------------TACCTGAGACCGA-TTATAGAGCTGCTCTT-TTCAGTAGGATAGCTGTTATCC--
+q rheMac2.chr4 99999------------9-9999999999----------------------------9999999999999-9999999999999999-9999999999999999999999--
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16402143 67 - 174210431 CTCTC------------T-GGGTAGAGGG----------------------------TACCTGAGACCGA-TTATAGAGctgctctt-ttcagtaggatagctgttaccc--
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16613171 67 - 173908612 CTCTC------------T-GGGTAGAGGG----------------------------TACCTGAGACCGA-TTATAGAGctgctctt-ttcagtaggatagctgttaccc--
+q panTro2.chr6 99999------------9-9999999999----------------------------9999999999999-9999999999999999-9999999999999999999999--
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16089746 67 - 170899992 CTCTC------------T-GGGTAGAGGG----------------------------TACCTGAGACCGA-TTATAGAGctgctctt-ttcagtaggatagctgttaccc--
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78258370 56 - 125616256 CCACC----------------------------------------------------TCTCTGGGGCAGA-CTCTAGGGctgctctt-tccagtaggacaactatttgcc--
+q canFam2.chr1 99999----------------------------------------------------9999999999999-9999999999999999-9999999999999999999999--
+i canFam2.chr1 I 5 I 1
+s equCab1.chr31 13048110 99 + 24938454 CCACC-------TCTCAG-GATTGAATTCAGAGTCTGAGCCCAATTTTTTTTCCCTTTCTCTGGGGCAGA-CTCTAGAGctgttctt-tctagtagtatagct-ttagcc--
+q equCab1.chr31 99999-------999999-999999999999999999999999999999999999999999999999999-9999999999999999-999999999999999-999999--
+i equCab1.chr31 I 79 I 1
+s bosTau3.chr9 13725367 64 - 95030419 CCTCT-------TATCTG-GGGCAGGGGG----------------------------TGACTGGGACAGG-CTGTAGAACTGCTTTtgtccagtag-----ct----gct--
+q bosTau3.chr9 99999-------999999-9999999999----------------------------9999999999999-9999999999999999999999999-----99----999--
+i bosTau3.chr9 I 7 I 1
+s tupBel1.scaffold_114895.1-498454 391995 61 - 498454 -----------------G-GGGCAGA-GG----------------------------TGTCTGGGACAGA-TTCTAGAGATGTGCTT-CCTGGTAGGATTGCTATTAGCC--
+q tupBel1.scaffold_114895.1-498454 -----------------9-9999999-99----------------------------9999999999999-9999999999999999-9999999999999999999999--
+i tupBel1.scaffold_114895.1-498454 I 166 C 0
+s dasNov1.scaffold_13068 12198 69 + 27231 CTGTC------------TGGGGCAGAGAG----------------------------TAACCGGGCCAGA-TCCTAGAGCGGTCTTT-CCCTGtaggatagctacgaacc-a
+q dasNov1.scaffold_13068 99999------------999998889799----------------------------9989999999699-7996999999979799-8899998898588989949888-4
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 62293 63 + 124190 -------------------GGGCAGAAGG----------------------------TAACTGGGACAGAGGCAAAGAGctgttctt-ttcagtaggagaacaacaagcc-a
+q loxAfr1.scaffold_4233 -------------------8979789676----------------------------666957986969875799699996597589-9699887998996995999699-9
+i loxAfr1.scaffold_4233 I 425 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 84166 130 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=546539.000000
+s mm9.chr10 3188811 170 + 129993255 C-ATCTGGCTGCTTATGTG-A-GGACTAACT--AAT-TAAA---TAAAAGTTGG----CTCTCC-GTTACGCT-AGCTTTATCACAAGTATTCAGTAGCTGTGGGT-GCCAGTGGCCACCATA-TTGGAACAC----AAGA---------------------CCGCAGACAGTTCTGTTGGACAGCATTGGTGGGA-AACATTCA-CGGGCAGT---
+s rn4.chr1 230006721 173 - 267910886 c-atctggctgctcatggg-a-ggactaactacaat-taaa---tagaagtcag----cttttc-gttgtatt-agctttatcacaagtactaagtagctgtgggt-gtcagtggccgccata-ttgtagcac----agga---------------------ctgccaacagttctattggacagcattgACCAGA-AACATTCAGTGGGCAAT---
+q rn4.chr1 9-99999999999999999-9-99999999999999-9999---9999999999----999999-99999999-99999999999999999999999999999999-9999999999999999-999999999----9999---------------------9999999999999999999999999999999999-99999999999999999---
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 84296 191 - 169015 T-GTGTGGCTGTTTAAATA-A-CAATTACTTACAAT-GAAA---TAAAGATGAG----TTCCTCAGTTGCACC-AGCTACAATGCAAGTGCTCAGTAGTCATATGTGGCTTGTGCCTATTGCA-CTGGACCGCTGATAGGAG---------CTTTGCCATCCCTACAGATAGCTCTGTTGGACAGCACTGgttgag-agtgtgtggtggataGC---
+q cavPor2.scaffold_284118 9-99999998999999999-9-99999999999999-9999---9999999999----999999999989999-9999999999999999999999999999999999999999999999999-999979999999999999---------699989989999999999999999999999999999999999999-99999999999999999---
+i cavPor2.scaffold_284118 I 130 C 0
+s oryCun1.scaffold_214769 94860 179 - 139458 ---CCTGACTAtaaatgaa--------------aat-gagc---taaacttcag----ttctttggttgcact-ggtgacattccaagtgctcagtagctacacggggctagtggctaccata-ctggacagc----acagac--aaataccattttcatcagtgcagaaggttctgttggccagcactgGCTGAG-AGGGTGCA-TTGAGAGC---
+q oryCun1.scaffold_214769 ---5567563332565463--------------543-3734---3464565521----264334433794243-5445685776434466454222426345553643343679954453344-356464266----544363--246565434799545432466147515445453374245444455445553-63435683-55553743---
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16089813 195 - 170899992 a-atgtgactgtctaaatg-a-aaatcaactaaaataaaaa---aaaaattcag----ttcctcggttgtact-agcaacacttcaagtactcagaagctccatgtggctagtggctacgata-ttggacagc----acagat--aaagaacattttcatctgtgcatagagttctgttggccagtactgGTCGAG-AGGGTGTGATTGAGAAT---
+i hg18.chr6 C 0 I 356
+s panTro2.chr6 16613238 194 - 173908612 a-atgtgactgtctaaatg-a-aaatcaactaaaat-aaaa---taaaattcag----ttcctcggttgtact-agcaacacttcaagtgctcagaagctccatgtggctagtggctacgata-ttggacagc----acagat--aaagaacattttcatctgtgcatagagttctgttggccagtactgGTCGAG-AGGGTGTGATTGAGAAT---
+q panTro2.chr6 9-99999999999999999-9-99999999999999-9999---9999999999----999999999999999-9999999999999999999999999999999999999999999999999-999999999----999999--999999999999999999999999999999999999999999999999999-99999999999999999---
+i panTro2.chr6 C 0 I 356
+s ponAbe2.chr6 16402210 179 - 174210431 a-atgtgactgtctaaatg-a-aaatcaactaaaat-aaaa---taaaattcag----ttcctcggttgtact-agcaacacttcaagtgctcagaagctccatgtggctagtggctacaatg-ttggacagc----acagat--aaagaacattttcatctttgcatagagttctgttggccagtactgGTCGAG-AA------------------
+i ponAbe2.chr6 C 0 I 396
+s rheMac2.chr4 108497767 194 + 167655696 A-ATGTGACTGTCTAAATG-A-AAATCAACTAAAGT-AAAA---TAAAATTCAG----TTCCTCGGTTGTACT-AGCAACACTCCAAGTGCTCAGAAGCTCCATGTGGCTAGTGGCTACGATA-TTGGACAGC----ACAGAA--AAAGAACATTTTCATCTTTGCATAGAGTTCTGTTGGCCAGTACTGGTTGAG-AGGATGTGATTGAGAAT---
+q rheMac2.chr4 9-99999999999999999-9-99999999999999-9999---9999999999----999999999999999-9999999999999999999999999999999999999999999999999-999999999----999999--999999999999999999999999999999999999999999999999999-99999999999999999---
+i rheMac2.chr4 C 0 I 345
+s calJac1.Contig1260 66777 195 - 523245 a-acgtgactgtttaaatgaa-aaatcaactaaaat-aaaa---taaaattcag----ttcctcggttgtact-aggaagacttcaagtgctcagaagctccatgtggctggtggctaccatg-ttgaacagc----acagat--gaacaacattttcatcgttgcagagagttttgtcagacagcactgGTTGAG-AGGGTATGATTGAGAAT---
+i calJac1.Contig1260 C 0 I 17
+s tupBel1.scaffold_114895.1-498454 392056 169 - 498454 GTATGTAAC----TAAATA-A-AAGT---------T-AAAA---GAAAATTTGGTTCCTTCCTTGGTTGCACT-AGCTACATTTCAAGGGTTCAGAAGCTGCATGTAGCTGGTAGCAGTAATA-ATCCACAAT----ACTA-------------------TACTGTAGAAAGTTCTGTTGGACAGCTCTGGTTGAA-AGGATGTGGTTGAGGGT---
+q tupBel1.scaffold_114895.1-498454 999999999----999999-9-9999---------9-9999---99999999999999999999999999999-9999999999999999999999999999999999999999999999999-999999999----9999-------------------999999999999999999999999999999999999-99999999999999999---
+i tupBel1.scaffold_114895.1-498454 C 0 I 3
+s canFam2.chr1 78258427 190 - 125616256 -tgtgcaactattt------a-aaacaaattaaaat-gaaa---taaaattcag----ttcctcagtttcactaagctgcatttcaagtgctc-atagctactggtggctagtgtctatcagatttggatagt----gcagat--agagagcattttcttaattgcaacaggttctattgACCTACACTAGTCTGG-AGGGTGTGATTGAGAGT---
+q canFam2.chr1 -9999999999999------9-99999999999999-9999---9999999999----99999999999999999999999999999999999-999999999999999999999999999999999999999----999999--999999999999999999999989888989999999988999999999988-87779999886899999---
+i canFam2.chr1 I 1 C 0
+s equCab1.chr31 13048210 184 + 24938454 -catgtaacta---------a-atggacattagaat-gaaa---taaaattcag----ttcctcagttgcacttagctacatttcaagtctca-atggctacatgtggctagtggctactgtatttggataat----gcagat--agaggacattttcatcattgcggaaagttctatagaatagcgttgGTCTAG-AGGGTG---TTGAGAGT---
+q equCab1.chr31 -9999999999---------9-99999999999999-9999---9999999999----99999999999999999999999999999999999-999999999999999999999999999999999999999----999999--999909999999999999999999999999999999999999999999999-999999---99999999---
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13725432 197 - 95030419 -catgtgaccgtttaaatg-a-aaatgaattaaaac-gaaagagtaacattcag----ttgctcagtcgcac--agctacattccaagtgctcggtaggtacttgtggccagtggctaccatatttggacagt----gcagcc--agagaacattttcatcattgcagaaggttctgttggacagcattCATCTCT-AGGGTGGGATGAAGAAT---
+q bosTau3.chr9 -999999999999999999-9-99999999999999-99999999999999999----99999999999999--99999999999999999999999999999999999999999999999999999999999----999999--999999999999999999999999999999999999999999999999999-99999999999999999---
+i bosTau3.chr9 I 1 C 0
+s dasNov1.scaffold_13068 12267 184 + 27231 -catgtggctacttaaatt-tccaattaattagaat-caaa---tacaatttag----ttcctt----------ggccacatttcaagagctcagtagccatgc-tggctagtggcgaccata-tggaatagc----ac------agaggacatt-tcatctttgcagaaagttctGCTTTTCAACACTGGTCTAGAAGGGAATAACTGAGAGTAAC
+q dasNov1.scaffold_13068 -769989978785989979-9783888777976886-8598---8875879776----786869----------985959699955989666755796995699-799577779666577586-559565758----77------5585768659-7646669656338865565456687665585558576555737996968889998968989
+i dasNov1.scaffold_13068 C 0 I 3402
+s loxAfr1.scaffold_4233 62356 175 + 124190 -catgcagctgtttaaatt-t-aaactaatcgaaag-taaa---taaaattcag----ttcctt----------ggtcacac-------------tagctgcat-tggttagtgactaccata-ttgtatagc----acacacagagagaacatt-tcttcactgcagaaagttctgttgggcagcATGGGTCTAG-AGGGTGTGATTAAGAACAAC
+q loxAfr1.scaffold_4233 -997899998799999999-6-79799979899999-9997---9999999998----999996----------96899999-------------999999999-699999999999699999-999999999----999999999999999999-9999999999999999999999999999999999999999-99999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=154391.000000
+s mm9.chr10 3188981 61 + 129993255 GA---GAAA------TGTCATGGA--CACCCAGGCTCTTTACCAAGTGGGTGAAGCTCTGGTTTTCTGAAGA
+s rn4.chr1 230006894 61 - 267910886 GA---GAAA------CATCATGGA--GACCCATGTTCTTTGCAAAGCGGGTGGAGCTCTGGTTTCTTGAAGA
+q rn4.chr1 99---9999------999999999--9999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 84487 62 - 169015 AAC--AAAA------CATAATAGT--GACCTGGATTCTTTGCTTGGTGAGTCAAGCCCTAAAGCCCTGAAGA
+q cavPor2.scaffold_284118 999--9999------999999999--9999999999999999999999976999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 95039 49 - 139458 AA---AA--------------------ATCTGTGTTCTTTGCCAAATCAGTGAGGCCCTGGGTTCCCAAAGA
+q oryCun1.scaffold_214769 26---65--------------------465234433538945615762112562545648563444535528
+i oryCun1.scaffold_214769 C 0 I 2622
+s panTro2.chr6 16613788 61 - 173908612 GA---TAAG------TATGACTGT--AACCTGTGTTCTTTGCCAAGTCAGTGAGGCCCTAGTTTACTGAACA
+q panTro2.chr6 99---9999------999999999--9999999999999999999999999999999999999999999999
+i panTro2.chr6 I 356 C 0
+s hg18.chr6 16090364 61 - 170899992 GA---TAAG------TATGACTGT--AACCTGTGTTCTTTGCCAAGTCAGTGAGGCCCTAGTTTACTGAACA
+i hg18.chr6 I 356 C 0
+s calJac1.Contig1260 66989 61 - 523245 AG---TAAG------TGTGACTGT--AACCTGTGTTCTTTGCCAAGTCAATGAGGCCCTAGTTTACTGGACA
+i calJac1.Contig1260 I 17 C 0
+s tupBel1.scaffold_114895.1-498454 392228 59 - 498454 -----AAAG------TATAAATGT--AACCTTTGTTCTTTGCCAAATTTATAAGGCTCTAGTTTCCTGAAGA
+q tupBel1.scaffold_114895.1-498454 -----9999------999999999--9999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 3 C 0
+s canFam2.chr1 78258617 60 - 125616256 --AAGAAAG------TATAATTGT--AACCCATTTTTGTTGCCCAATCAATCAAACCCTAGTTACC--AAGG
+q canFam2.chr1 --9889999------999898989--9989888999998888888888889888899889886676--6897
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13048394 62 + 24938454 --AATAAAG------TATAATCGT--AACCCATTTTCTTTGCCAAATCAAGCAGGTATTAGTTTCCTGAAGA
+q equCab1.chr31 --9999909------999999999--9999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13725629 69 - 95030419 --AAGAAGGTACTAATATAACTGTAAAACCCATTTCCTTT-CCAGATCAACCAGACCCTAGTTTCCTGAAGA
+q bosTau3.chr9 --99999999999999999999999999999999999999-9999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 62531 59 + 124190 -----GAAG------TATGGCTGT--GACCTGCGTTCTTTGCCGAATCAGTGAGGCCTTGGTTTCCTGAACA
+q loxAfr1.scaffold_4233 -----9999------999999999--9999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s ponAbe2.chr6 16402785 45 - 174210431 ---------------------------ACCTGTGTTCTTTGCCAAGTCAGTGAGGCCCGAGTTTACTGAACA
+i ponAbe2.chr6 I 396 C 0
+s rheMac2.chr4 108498306 45 + 167655696 --------------------------AACCTGTGTTCTTTGCCAAGTCAGTGAGGCCC-AGTTTACTGAACA
+q rheMac2.chr4 --------------------------99999999999999999999999999999999-9999999999999
+i rheMac2.chr4 I 345 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=25382.000000
+s mm9.chr10 3189042 25 + 129993255 TAAAA---------------------AGGTGGAAGACAGAGGTGTT
+s rn4.chr1 230006955 43 - 267910886 TGGAGGT---GGAAGATCGGTGTCTCAGGTTCATGGAGGATGAGGT
+q rn4.chr1 9999999---999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 84549 44 - 169015 CCAAGGTA-GGGATAGTGTGCTTTTAAAGTTGAAATAGTCTGAAA-
+q cavPor2.scaffold_284118 99999999-999999999999999999999799999999969999-
+i cavPor2.scaffold_284118 C 0 C 0
+s panTro2.chr6 16613849 46 - 173908612 CCAAGGCATGGGCAGCTGTGTTTTGAAGGTTGAAGGAGGTTGAGAA
+q panTro2.chr6 9999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16090425 46 - 170899992 CCAAGGCATGGGCAGCTGTGTTTTGAAGGTTGAAGGAGGTTGAGAA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108498351 46 + 167655696 CCAAGGCATGGGCAGCTGTGTTTTGAAGATTGAAGGAGGTTGAGAA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16402830 46 - 174210431 CCAAGGCATGGGCAGCTGTGTTTTGAAGGTTGAAGGAGGTTGGGAA
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 67050 46 - 523245 CCAAGGCATGGGCAGCTGTGTTTTGAAGGCTGAAGGAGGTTGAGAA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 392287 46 - 498454 CCAAGGCAAGGACAGCTGTGTTTTTAAGGTTGAAGCAGGCTGAGAA
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78258677 20 - 125616256 T--AGACACatatatgtatata------------------------
+q canFam2.chr1 8--9999999999999999999------------------------
+i canFam2.chr1 C 0 I 287
+s equCab1.chr31 13048456 22 + 24938454 CTGAGGCAGGGATATGTATGTT------------------------
+q equCab1.chr31 9999999999999999999999------------------------
+i equCab1.chr31 C 0 I 25
+s bosTau3.chr9 13725698 22 - 95030419 CCAAGAGAGGGACAGATATATT------------------------
+q bosTau3.chr9 9999999999999999999999------------------------
+i bosTau3.chr9 C 0 I 26
+s loxAfr1.scaffold_4233 62590 27 + 124190 --------------TCCAGGTGTTTAAGATTGAAGTAGGTT-----
+q loxAfr1.scaffold_4233 --------------999999999999999999999999999-----
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=350835.000000
+s mm9.chr10 3189067 154 + 129993255 ------GTGAAC-AGG-----GTTG-TGCCAG----TGTTGAAT-GATGCCA-TCCTAGATTTGTAACAGGGGAATGGCT-GTGTGGACCACCAT-----------------------AGCATA---TCTGCA--TTGTGCTCCCCCTCAGGCCGCTCA------TTGATCATCATTTACCTAT----AACACATCA--TTCAAA-ACAGTC-TCT--
+s rn4.chr1 230006998 157 - 267910886 ------GTGAAC-AGGTTGGAGTTG-TACCAG----TGTTGAGT-GATGCCACTCCAAGCTGTAGTTCAGGGAAATGGCT-GTATGGACCAGCAT-----------------------AGTATG---TCTGCA--TTGTA-TCCCTCTCAGGCCGTTCA------TTGTTCATCATTTACCTGT----GACACGTCA--TTCAAA-AAAA---TCT--
+q rn4.chr1 ------999999-999999999999-999999----99999999-99999999999999999999999999999999999-99999999999999-----------------------999999---999999--99999-999999999999999999------9999999999999999999----999999999--999999-9999---999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 84593 163 - 169015 ------GTGAATGAAGTTGGAATTGCTACATG----TGTTAAATGGATGCCA--CCTAGTTT------------ATGGCT-AAATGAAATAACCTG-----------------TAGCGAACCTA---TCTGCAGCTTGTACACCTTGCCATGCCCTTGAACGATGTTGTTCATCATTCACTCAT----GGCAAATca--ttgaag-tttttt-ttt--
+q cavPor2.scaffold_284118 ------96999699999599999999999999----8999999999885996--99979999------------969999-999799969999979-----------------99999999999---997998999799898897857987779996999999999998997998798999999----978975799--969999-999999-779--
+i cavPor2.scaffold_284118 C 0 C 0
+s panTro2.chr6 16613895 172 - 173908612 ------ATGAACAGAGTTGGAATTGATACATG----TGTTAAAT-GATGCTA--CCTAGACTT-----------GGGGTT-AAATGAAGTACCTGT-CATGAATCTATGGGCCTAGAGTGCTTA---TGCGCA--CTGGTATACCTCTGAGATTATTTG------TTGTTTATTATTCACCCAA----GGCAAATCA--TTTAAA-CATGTTATCT--
+q panTro2.chr6 ------99999999999999999999999999----99999999-9999999--999999999-----------999999-999999999999999-999999999999999999999999999---999999--999999999999999999999999------9999999999999999999----999999999--999999-9999999999--
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16090471 172 - 170899992 ------ATGAACAGAGTTGGAATTGATGCATG----TGTTAAAT-GATGCTA--CCTAGACTT-----------GGGGTT-AAATGAAGTACCTGT-CATGAATCTATGGGCCTAGAGTGCTTA---TGCGCA--CTGGTATACCTCTGAGATTATTTG------TTGTTTATTATTCACCCAA----GGCAAATCA--TTTAAA-CATGTTATCT--
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108498397 170 + 167655696 ------GTGAAC--AGTTGGAATTGATACATG----TGTTAAAT-GATGCTA--CCTAGACTT-----------GGGGTT-AAATGAAGTGCCTGT-AATGAATCTATGGGCCTAGAGTGCATA---TGCACA--CTGGCATACCTCTGAGATTATTCG------TTGCTTATTGTTTACCCAT----GGCAAATCA--TTTAAA-CGTGTTATCT--
+q rheMac2.chr4 ------999999--999999999999999999----99999999-9999999--999999999-----------999999-999999999999999-999999999999999999999999999---999999--999999999999999999999999------9999999999999999999----999999999--999999-9999999999--
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16402876 172 - 174210431 ------GTGAACAGAGTTGGAATTGATACATG----TGTGAAAT-GATGCTA--CCTAGATTT-----------GGGGTT-AAATGAAGTACCTGT-CATGAATCTATGGGCCTAGAGTGCTTA---TGTGCA--CTGGTATACCTCTGAGATTATTTG------TTGTTTATTATTTACCCAC----AGCAAATCA--TTTAAA-CATGTTATCT--
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 67096 179 - 523245 ------GTGAACAGAGTTGGAAATGATACATGCGTTTGTTAAGT-GATGCCA--CCTAGACTT-----------GTGGTT-AAATGAAGTACCTGT-GATTAATCTCTGGGCCTAGAGTGCTTGTGCTGCACA--CTGGTATACCCCTGCGATTATTCG------TTGTTTATTATTTATCCAC----GGCAAATCC--TTTAAA-AATGTTACAT--
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 392333 171 - 498454 ------ATAAACAAAGCTGGAATCCATACATG----TATTAATT-GATGCTA--CCTAAACCT-----------GTGGTT-AAATGAAATACCTTT-AGGGAATCTGCTTGCCCAGTGTGCTTA---TGTACT--CTGGTATTCCCCTGCGATCACTCG------TTCTTCATTGTGCTTCCTT----GGCACATCA---TTAAA-AATGTTGTCT--
+q tupBel1.scaffold_114895.1-498454 ------99999999999999999999999999----99999999-9999999--999999999-----------999999-999999999999999-999999999999999999999999999---999999--999999999999999999999000------9909999999990999999----999999999---99999-9999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78258984 171 - 125616256 ------GTGAACAAAGTC-AAATCAGTACACA----TGTTAAGT-GATGCCA--CCTAAATGT-----------GTGCTT-AAATGAAATACCTAT-AATATATTTACCTGCACAGGACACTTC---TCTGCA--CTTGTATATCCCTGACATTATTCA--------GTTCATCATTTACCCATCTATGGCAAATCA--TTAAAATAGTGTTC-----
+q canFam2.chr1 ------999999999999-9999999999999----99999999-9999999--999999999-----------999999-999999999999999-999999999999999999999999999---999999--999999999999999999999999--------999999999999999999999999999999--99999999999999-----
+i canFam2.chr1 I 287 I 3
+s equCab1.chr31 13048503 163 + 24938454 ------GTGAACAAGGTTGGAATCAAT-CATG----TGTGGAGT-GATGCCA--CCTAAATGT-----------GTCCTT-AAATGAAATACCTGT-GATGTGTCTACCTGCCCAGAGTACTTC-------------TGTGTACCCCCAAGATGATTCA------T-TTTCATCATTTACCCATCCATAGCAAATCA--TTAAAA-AATGTTA-----
+q equCab1.chr31 ------999999999999999999999-9999----99999999-9999999--999999999-----------999999-999999999999999-999999999999999999999999999-------------9999999999999999999999------9-999999999999999999999999999999--999999-9999999-----
+i equCab1.chr31 I 25 I 4
+s bosTau3.chr9 13725746 174 - 95030419 ------GTGAACAGAGTTGGAAGTCATACACA----TATCAAGT-GATGCCA--TCTACATAT-----------GTGCTTAAAACGGAATACCTGT-GATGTGTCTACCTGCCCAGGGTGCTTC---TGTGCA--CTTGTGTACCCCAGAGATGACCCA------TCATTCATCATTTACCATTC---AGCAAAACAGTTTAAAACAATGTTT-----
+q bosTau3.chr9 ------99999999999999999999999999----99999999-9999999--999999999-----------9999999999999999999999-999999999999999999999999999---999999--999999999999999999999999------99999999999999999999---9999999999999999999999999-----
+i bosTau3.chr9 I 26 I 1372
+s loxAfr1.scaffold_4233 62617 174 + 124190 GGAAAAGTAAACGAAGTTGGAATCAGTGCATG----TGTTAAGT-GATGCTG--CCCCAATCT-----------GTGGTT-AAGTGGAATTTCTGTAAACGGGTCTACCTGTCCAGAGTGCTCA---TGTGTA--CTCATATACCCCTGAGA-------------TTGTTCATCATTTACCCAG----AGCAAATCA--TTAATA-AACGTTACGTTT
+q loxAfr1.scaffold_4233 99999999999999999999999999999999----99999999-9999999--999999999-----------999999-9999889999999999999999999999999999999999999---999999--99999999999999999-------------9999999999999999999----999999999--999999-999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=4151.000000
+s mm9.chr10 3189221 20 + 129993255 CTCTC-T-------GATGGAGAGATG--GT--
+s rn4.chr1 230007155 20 - 267910886 CTCTG-T-------GGTGGAGAGATG--TT--
+q rn4.chr1 99999-9-------999999999999--99--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 84756 27 - 169015 ctttt-tctttgtcagtgGGGAAGTA--TC--
+q cavPor2.scaffold_284118 99977-99999999999999999996--99--
+i cavPor2.scaffold_284118 C 0 C 0
+s panTro2.chr6 16614067 18 - 173908612 TTTTT-A-------TGAGAAGAAATG------
+q panTro2.chr6 99999-9-------999999999999------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16090643 18 - 170899992 TTTTT-A-------TGAGAAGAAATG------
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108498567 18 + 167655696 TTTTT-A-------TGAGAAGAAATG------
+q rheMac2.chr4 99999-9-------999999999999------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16403048 18 - 174210431 TTTTT-A-------AGAGAAGAAATG------
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 67275 19 - 523245 TTTTTAA-------TGAGAAGAAATA------
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 392504 20 - 498454 TTCTG-G-------GGCCAGCAGATAGT----
+q tupBel1.scaffold_114895.1-498454 99999-9-------99999999999999----
+i tupBel1.scaffold_114895.1-498454 C 0 I 3826
+s canFam2.chr1 78259158 18 - 125616256 TCATT-A-------TGGGGAGAAATC------
+q canFam2.chr1 99999-9-------999999999999------
+i canFam2.chr1 I 3 C 0
+s equCab1.chr31 13048670 18 + 24938454 TCTTT-A-------TGGGGAGAAATC------
+q equCab1.chr31 99999-9-------999999999999------
+i equCab1.chr31 I 4 C 0
+s loxAfr1.scaffold_4233 62791 20 + 124190 TTTTC-T-------GGGGGAGGGGAG----AG
+q loxAfr1.scaffold_4233 99999-9-------999999999999----99
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13725920 1372 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=234446.000000
+s mm9.chr10 3189241 107 + 129993255 -----------------------AGGCAGCA--GGGGAGTTTTGCTGCTCA-TTTTATTCGACTTGATCTTGCT--CAAGTTGAT---AATATAC-----AGAAAAC-GATAAATGACATAGTTCTTGGGTTGCCATTTAGTAG
+s rn4.chr1 230007175 108 - 267910886 -----------------------AGGCAGTG--GGGAGTCTTTGCTGGTCATTTTTATTTGACTTGATCTTGCT--GCGACTGAT---AATGTAC-----AGAAAAC-TGTAAGTGACATATTTCTTGGGTTGCCATGCAGTAG
+q rn4.chr1 -----------------------99999999--99999999999999999999999999999999999999999--999999999---9999999-----9999999-999999999999999999999999999999999999
+i rn4.chr1 C 0 I 436
+s cavPor2.scaffold_284118 84783 112 - 169015 -----------------------ATGCAAAA-CAAGAATCTTTGCCAAGAATTTGTATTTAATTTGGTTTTGCTTGAGAGCTTAT---CATGTGCCTCTAAGAAAAC---TGAAT--TATATTTCTTAGGTTGTCACTTAATTG
+q cavPor2.scaffold_284118 -----------------------99999999-99999699999999999999999999999999999999999999999999999---9999999999999999999---99999--999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s panTro2.chr6 16614085 114 - 173908612 --------------------------CAGGAACAGGAATTTTTGCTGGCAAGTTGTATTTAACTTGATCTTGCTTATGAGCTTATTTAAAAATGC-CTTAGGAAAAC-TGTGAAC--TATATTTCTTAGGTTGTCTCTTAATTG
+q panTro2.chr6 --------------------------999999999999999999999999999999999999999999999999999999999999999999999-99999999999-9999999--999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16090661 114 - 170899992 --------------------------CAGGAACAGGAATTTTTGCTGGCAAGTTGTATTTAACTTGATCTTGCTTATGAGCTTATTTAAAAATGC-CTTAGGAAAAT-TGTGAAC--TATATTTCTTAGGTTGTCTCTTAATTG
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108498585 114 + 167655696 --------------------------CAGGAACAGGAATTTTTGCTGGCAAATTATATTTAACTTGATCTTGCTTATGAGCTTATTTAAAAATGC-CTTAGGAAGAC-TGTGAAC--TATATTTCTTAGGCTGTCTCTTAATTG
+q rheMac2.chr4 --------------------------999999999999999999999999999999999999999999999999999999999999999999999-99999999999-9999999--999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16403066 110 - 174210431 --------------------------CAGGAACAGGAATTTTTGCTGGCAAATTGTATTTAACTTGATCTTAC----GAGCTTATTTAAAAATGC-CTTAGGAAAAC-TGTGAAC--TATATTTCTTAGGTTGTCTCTTAATTG
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 67294 113 - 523245 --------------------------CAGGAACAGGAATTTTTGCTGGCAAATTGTATTTAACTTGATCTTGCTTATGAGCTTATTT-AAAATGC-CTTAGGAAAAC-TGTGAAC--CATATTTCTTAGATTGTCTCCTAATTG
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78259176 115 - 125616256 -----------------------ATGCAGGCAGAGTAATCTTTGCTGACAGTTTGTATTTAACTT-ATCTTGCTTATGAGTATAT---TAAATGCCTTTGGGAAAAACTGTGGAA--TATAGTACTTAGGTTGTGACTTCATTG
+q canFam2.chr1 -----------------------999999999999999999999999999999999999999999-9999999999999999999---999999999999999999999999999--999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13048688 115 + 24938454 -----------------------ATACAGGAAGAGGAATCTTTGCTAGCAATTTGTTTTTAACTTGATTTTGCTTCTGAGCTTAT---TAAATACTTTTAAGAAAAA-TGTGAAG--TATATTTCTTAGGCTGTAACTCAATTG
+q equCab1.chr31 -----------------------99999999999999999999999999999999999999999999999999999999999999---9999999999999999999-9999999--999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_4233 62811 131 + 124190 GGGAAGACTGCGAAGACTGTTCCTTACAGGAGTAG-----TTTGTTAGCAGTTTATA-TCAACTTGATTCTGCCC-TGACCTTCC---TAAGTACCTTTAGGAAAAC-TGCGAAG--TCTATTTCTTAGGTTGTAACTTAATTG
+q loxAfr1.scaffold_4233 99999999999999999999999999999999999-----99999999999999999-99999999999999999-999999999---9999999999999999999-9999999--999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13725920 1372 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=184466.000000
+s mm9.chr10 3189348 103 + 129993255 ATGTAGG-CAGT-GAGTTTACTTTGATTCCGTGT---------TACCTGGTCACATGTATTAAAATATGACCAGAGCCTGAAGCACTGG----AGAGAA--GAAGAGGCAAAGCTATG--TA
+s cavPor2.scaffold_284118 84895 89 - 169015 ACCTAAGTCAAT-AAAATGGCTTTGCTTGTGTGTCTCTGACACCTCTTTATCGTGTATGTTAGATTATGAACAGAGCCAGAAGAACTGA----A----------------------------
+q cavPor2.scaffold_284118 999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999----9----------------------------
+i cavPor2.scaffold_284118 C 0 I 703
+s panTro2.chr6 16614199 111 - 173908612 ACCCAAGTCAAT-AAGATGGCTTTGATTTTGTGTCTCTGGCATACCTTAATCACAC--GTTAGATCACGAACAGAGCTAGTAGGAATGG----AGAAGATGGTAGAGAAGACGTTGTG----
+q panTro2.chr6 999999999999-9999999999999999999999999999999999999999999--9999999999999999999999999999999----9999999999999999999999999----
+i panTro2.chr6 C 0 I 707
+s hg18.chr6 16090775 111 - 170899992 ACCCAAGTCAAT-AAGATGGCTTTGATTTTGTGTCTCTGGCACACCTTAATCACAC--GTTAGATCACGAACAGAGCTAGTAGGAATGG----AGAAGATGGTAGAGAAGAAGTTGTG----
+i hg18.chr6 C 0 I 711
+s rheMac2.chr4 108498699 107 + 167655696 ACCCAAGTCAAT-AAGATGACTTTGATTTTGTGTCTCTGGCACACCTTAATCACACATGTTAGATCACAAACAGAGCTAGTAGGAATGG----ATAAGATGGTAGAGAA---GTT-------
+q rheMac2.chr4 999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999----9999999999999999---999-------
+i rheMac2.chr4 C 0 I 1024
+s ponAbe2.chr6 16403176 108 - 174210431 ACCCAAGTCAAT-AAGATGGCTTTGATTTTTTGTCTCTGGCACACCTTAATCACAT--GTTAGATCACGAACAGAGCTAGTAGGAATGG----AGAAGATGGTAGAGAA---GTTGTG----
+i ponAbe2.chr6 C 0 I 713
+s calJac1.Contig1260 67407 113 - 523245 ACCCAAGTCAATAAAAATGGCTTTGATTTTGTGTCTCTGGCACCCCTTAATCACACATGTTAGATCATGAACAAAGCCAGCAGGAATGG----AGAAGATGGCAGAGAA---GTTGCGTA--
+i calJac1.Contig1260 C 0 I 11
+s canFam2.chr1 78259291 108 - 125616256 ATCCAAGCCAGT-GAGATGGTTTAGACTGTGTGTCTCTGCCATACCTTCATCACACATGTTAGATCATGGACAGGGTCGGGAGGAATGGGAAAAGAAGGTAGAAGAGAA-------------
+q canFam2.chr1 999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------
+i canFam2.chr1 C 0 I 12
+s equCab1.chr31 13048803 104 + 24938454 ACCCAAGTCAAT-AGGAAGGTTTTGACTATGTATCTGTGACGCTCCTT----AAGTTTGTTAGGTCATGAATAGAGCTAGTAGGAATGGGAAAAGAAAGGAGAGGAGAA-------------
+q equCab1.chr31 999999999999-99999999999999999990999999999999999----999999999999999999999999999999999999999999999999999999999-------------
+i equCab1.chr31 C 0 I 759
+s loxAfr1.scaffold_4233 62942 101 + 124190 GCCCAAGCCAGT-AAGATGGTTTTGATT--GTTTCTCTGACACCCCTTAGTCACTTGTGTTAGATCACAGAAAGAACTAGTTGGAACGGG---AAAAGAGGGCAGAG---------------
+q loxAfr1.scaffold_4233 999999999999-999999999999999--999999999999999999999999999999999999999999999999999999999999---99999999999999---------------
+i loxAfr1.scaffold_4233 C 0 I 733
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e rn4.chr1 230007283 436 - 267910886 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13725920 1372 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=-29008.000000
+s mm9.chr10 3189451 23 + 129993255 TGGTACCTT----------TAAAGTTTAATTGC-
+s canFam2.chr1 78259411 15 - 125616256 T-----CTTTA---GCTAAAATG-----------
+q canFam2.chr1 9-----99999---999999999-----------
+i canFam2.chr1 I 12 I 623
+s equCab1.chr31 13049666 29 + 24938454 TGGTGACATTG---ACTATAGAAAGCTGACTT--
+q equCab1.chr31 99999999999---999999999999999999--
+i equCab1.chr31 I 759 C 0
+s cavPor2.scaffold_284118 85687 14 - 169015 -------------------TGAAATCCCATCTT-
+q cavPor2.scaffold_284118 -------------------46376146321179-
+i cavPor2.scaffold_284118 I 703 C 0
+s hg18.chr6 16091597 29 - 170899992 TGGTGACATTG---ATTATTGAAAGCTGACT-T-
+i hg18.chr6 I 711 C 0
+s panTro2.chr6 16615017 29 - 173908612 TGGTGACATTG---ATTATTGAAAGCTGACT-T-
+q panTro2.chr6 99999999999---99999999999999999-9-
+i panTro2.chr6 I 707 C 0
+s ponAbe2.chr6 16403997 29 - 174210431 TGGTGACATTG---ATTATTGAAAGCTGACT-T-
+i ponAbe2.chr6 I 713 C 0
+s rheMac2.chr4 108499830 29 + 167655696 TGGTGACATTG---GTTATTGAAAGCTGAGT-T-
+q rheMac2.chr4 99999999999---99999999999999999-9-
+i rheMac2.chr4 I 1024 C 0
+s calJac1.Contig1260 67531 32 - 523245 TAGCTACATGATGTATAATTTTAAGACTATT-T-
+i calJac1.Contig1260 I 11 C 0
+s loxAfr1.scaffold_4233 63776 12 + 124190 ---------------------AAACTTGACT-TC
+q loxAfr1.scaffold_4233 ---------------------9999999999-99
+i loxAfr1.scaffold_4233 I 733 C 0
+s rn4.chr1 230007719 1 - 267910886 --------------------------------C-
+q rn4.chr1 --------------------------------9-
+i rn4.chr1 I 436 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13725920 1372 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=55119.000000
+s mm9.chr10 3189474 38 + 129993255 TCCTTTTTTTAG-TGAATACTCTCGATAGA---CATCGGC--AC-
+s calJac1.Contig1260 67563 41 - 523245 T--TGCTTTCCTTTTCTTCCATTTAGTGTATAGTTTCTCTAGA--
+i calJac1.Contig1260 C 0 I 689
+s rheMac2.chr4 108499859 40 + 167655696 TCCTGCTTTTAGTTCGAAACACTTCATGTA---AGTTGGCAGG--
+q rheMac2.chr4 999999999999999999999999999999---9999999999--
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16404026 39 - 174210431 TCCTGCTTTTGGTTCAAAACTCTTCATGTA---AGTTGGCA-G--
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16615046 40 - 173908612 TCCTGCTTTTAGTTCAAAACTCTTCATGTA---AGTTGGCAGG--
+q panTro2.chr6 999999999999999999999999999999---9999999999--
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16091626 40 - 170899992 TCCTGCTTTTAGTTCAAAACTCTTCATGTA---AGTTGGCAGG--
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230007720 38 - 267910886 CCCTGCTTTTAG-TGAATGTTCTCCATAGA---TGTCGGC--GC-
+q rn4.chr1 999999999999-99999999999999999---9999999--99-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 85701 39 - 169015 TCCTGCTTTTTG--GAACCCCCTTGCTTTA---AGTGGGCAGGC-
+q cavPor2.scaffold_284118 525336888833--3335347253215256---44623564322-
+i cavPor2.scaffold_284118 C 0 C 0
+s equCab1.chr31 13049695 40 + 24938454 TCCTGCTTTTAGTTCAAAACACTTGATGTA---AGTTGGCAGG--
+q equCab1.chr31 999999999999999999999999999999---9999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13727292 40 - 95030419 TCCTGCTCTTAGTTCAGAACTCCTGCCATA---AGTTGGCAGG--
+q bosTau3.chr9 999999999999999999999999999999---9999999999--
+i bosTau3.chr9 I 1372 C 0
+s canFam2.chr1 78260049 39 - 125616256 -CCTGTGTTTAGTTCAGAACTCTTGATGGA---AGTTGGCAGC--
+q canFam2.chr1 -99999999999999999999999999999---9999999999--
+i canFam2.chr1 I 623 C 0
+s loxAfr1.scaffold_4233 63788 39 + 124190 --TTGTGTTTATCTGTAAACTCTTGGTAAA---AGTTGGCGGC-C
+q loxAfr1.scaffold_4233 --9999999999999999999999999999---9999999999-9
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 12451 3402 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=830447.000000
+s mm9.chr10 3189512 273 + 129993255 CTGGGTAG-GTGACAGAGTGAGGGAGCAGTCCCTGGCATGCTGGGCATAGTCCT--TCCCTTCCAAACA-TGTGTGTCCTGTAGATTCCTTAGCCATTCAGTTGTGAGGTTTTGACATT----------------AAAAGCAATGATGGGAACCTATCC---TTATTTCTTCT-TCTCCATTGAATAAAGA---TATTCTATTTTAAACTTTAGGG---AAAAAGCCAGTGACGGGGGAAAAA-------GTGAATA----TAAGATTTAGATAGAATATTGATGTTACTACAGGAA--------ATATTTTGAAATTTATA
+s cavPor2.scaffold_284118 85740 286 - 169015 CTGAGTAATTTGACTAAACGAGGGGACATTTTT-----CTCTAATCACAGTCGTGAGTCCTTCAAAACAAGCTGTGTCTTGTGGGCTCTTTATCTATTCACTTGTAAGtctttgattctttgaatt-------taaGAAGCCATGATGAAAATCCATCT---TTTTGGTGTAT-TCTCTTTTGAAGGAACA---TATTATATTTTCATCTGTAG-----AAAATAACagtga---aggaaaaa-------atgaatacaTGTGAGATTTAGATGGAACACTGCTGTTAATACAGAACA--CATTTATACTTTGAAATTTACA
+q cavPor2.scaffold_284118 324455452436556584364488745469996-----7677657566446463565778657698786676487687646358567579755555779765496696969965665569479979-------67559666754493599936985979---99967647865-99969991594699697---99999997997789946959-----9999974975499---57889999-------935897799745777779949948897999789689999968899989--9999989999956999999899
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230007758 274 - 267910886 CTGGGTAA-TTGGCAGAGTGAGGGAACGTTCCCTGGCATCCTGGGCACAGGCTT--TCCCTTCCAAACACTCTGTGTCCAGTAGATGCCTTACCCATCA---CGTGAGGTTTTGATATT----------------AAAAGTGATGGTGGGAACATATCC---TTATTTCTTCT-TCTCTGCTGAATGAAGA---TAGTCTATTTTAGACTTCAGGGGAAAAAAAGTCAGTGGCAGGGAAAAAA-------GTGAATA----TAAGATTTAGATCGAATATTGATGTTACTACAGGAA--------ATAATTTTAAGTTTATA
+q rn4.chr1 99999999-999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999---99999999999999999----------------999999999999999999999999---99999999999-99999999999999999---9999999999999999999999999999999999999999999999999-------9999999----999999999999999999999999999999999999--------99999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16091666 273 - 170899992 CTGAG-----TGACCGAATGAGGGGACCTTTCC-----CTTTAATCATAGTTACAAGTCCTTCAAAACAAGCTCTGTCTTGTGGCCTCTTTATCCATTCAATTGTGAGTCTTTGATTCTTTGAATT-------TAAAAAGCTGTGATGCAAATCCATC----TTATTTTTGTC-TCTCTATTGAAGGACAATATTATTATATTTTAGTCTCTAG-----AAAATAAC-----------AAAAA-------ATGAATA----TCACATTTAGATAGAAAAATACTGCTAATATAGAATATTCATTTATATTTTGAAATTCAGT
+i hg18.chr6 C 0 I 7
+s panTro2.chr6 16615086 271 - 173908612 CTGAG-----TGACTGAATGAGGGGACCTTTCC-----CATTAATCATAGTTACAAGTCCTTCAAAACAAGCTCTGTCTTGTGGCCTCTTTATCCATTCAATTGTGAGTCTTTGATTCTTTGAATT-------TAAAAAGCTATGATGCAAATCCATC----TTATTTTTATC-TCTCCATTGAAGGACAATATTATTATATTTTAGTCTCTAG-----AAAATAAC-----------AGAAA-------ATGAATA----TCACATTTAGATAGAAAAATACTGCTAATATAGAATATTCATTTATATTTTGAAATTCA--
+q panTro2.chr6 99999-----99999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------9999999999999999999999999----99999999999-9999999999999999999999999999999999999999-----99999999-----------99999-------9999999----99999999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 C 0 I 69
+s ponAbe2.chr6 16404065 260 - 174210431 CTGAGTAA-CTGACTGAATGAGGGGACCTTTCC-----CTTTAATCATAGTTACAAGTCCTTCAAAACAAGCTCTGTCTTGTGGCCTCTCTAGCCATTCAATTGTGAGTCTTTGATTCTTTGAATT-------TAAAAAGCTATGATGCAAATCCATC----TTATTTTTGTC-TCTCTATTGAAGGACAA---TATTATATTTTAGTCTCTAG-----AAAATAACAT---------AAAAA-------ATGAATA----TCACATTTAGATAGAAAAATACTGCTAATATAGAATGTTCATTTA----------------
+i ponAbe2.chr6 C 0 I 70
+s rheMac2.chr4 108499899 276 + 167655696 CTGAGAAA-CTGACTGAATGAGGGGGTCCTTCC-----CTTTCATCATAGTTACAAGTCCTTCAAAACAAGCTCTGTCTTGTGGCCTCTTTATCCATTGAATTGTGAGTCTTTGATTCTTTGAATT-------TAAAAAGCTATGATGGAGATCCATC----TTATTTTTGTC-TCTCTATTGGAGGACAA---GATTATATTTTAGTCTCTAG-----AAAATAACAT---------AAAAA-------ATGAATA----TCACATTTAGATAGAAAAATACTGCCAATATAGAATATTCATTTATATTTTGAAATTCAGT
+q rheMac2.chr4 99999999-999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------9999999999999999999999999----99999999999-99999999999999999---99999999999999999999-----9999999999---------99999-------9999999----9999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 9
+s calJac1.Contig1260 68293 275 - 523245 CTGAGTAA-CTGACTAAATGAGGGGACGTTTCT-----CTTTAATCATAGTCACAGGTCCTTCAGAACAAGCTCTGTCTTGTGGCCTCTTCATCCATTCAATTGTGAGTCTTTGAGTCTCTGAATT-------TAAAATGCCATGATGTCAATCCATC----TTATTTTTGTC-TCTCTA-TGAAGGACAA---TATTATATTTTAGTCTCTAG-----AAAATAACAT---------AAAAA-------ATGAATA----TAACATTTAGATAGAAAAGTACTGCTAACATAGAATATTCATTTATATTTTGAAATTCAGT
+i calJac1.Contig1260 I 689 I 7
+s equCab1.chr31 13049735 282 + 24938454 CTGAGTAA-TTGACTGAATAAGGGGACATTTCT-----CTTTAATCAT-------AGTCCTTCTAAACAAGCTGTGTCATGTGG-CGCTTTATCCATTCTTTTGTGAGTCTTTGATTCTTTGACTT-------TAAAAAGCCATGATGAAGATCCATCTTT-CCATTTTTGTCTTCTCTGTTGAAGGACGA---TATCATGTGTTAGTCTCTAG-----AAAATAACAGTGAGA----AAATA-AGTG-AATGAATA----TAAGGTTTAAATAAAACATTACTGTTAATACAGAACACTCATTTTTATTATGAAATTTAGT
+q equCab1.chr31 99999999-999999999999999999999999-----9999999999-------99999999999999999999999999999-99999999999999999999999999999999999999999-------9999999999999999999999999999-99999999999999999999999999999---99999999999999999999-----999999999999999----99999-9999-99999999----9999999999999099999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 87
+s bosTau3.chr9 13727332 287 - 95030419 CTGAGTAA-TTAACTGAATAAGGGGACAGTTCC-----TTTTAATCATAGTCACAGGTCCTTC-AAACAGGCTGCGTCAGGTGG-CTATTTATCCATTCAGTTGTGAGTCTTTGATTCTCTGAATT-------TCAAAAGCCACGGTGAAAATCCATGTTT-TTATTTCCGTCTTCTCTATTAAAGGACGA---TGACATGTTTTGGTTTCCAG-----AAAATGACAGTGAAA----AAAAAGAATG-GATGAATG----TAAGGTTTAGATGGAACATTCCTGTTGATGCAGAAGACTCATTTCTGTTGCGAAATTT--A
+q bosTau3.chr9 99999999-999999999999999999999999-----9999999999999999999999999-99999999999999999999-99999999999999999999999999999999999999999-------9999999999999999999999999999-99999999999999999999999999999---99999999999999999999-----999999999999999----9999999999-99999999----9999999999999999999999999999999999999999999999999999999999--9
+i bosTau3.chr9 C 0 I 31
+s canFam2.chr1 78260088 275 - 125616256 CTAAGTAA-TTGACTGAATGAGGGGACAGTTCC-----CTTTAATTAG--TTACAAGTCCTTCAAAACAAGCT-TGTTATGTGG-CTCTTTATCCATTCACTTGTGAGTCTTTGATTCTCTGAATT-------TAAAAAG-CATGATGAAAATCCATCTTTGTTACTTTTGTCTTCTCTGTTGAGGGACAA---TGTCATATTTTAGTCTGTAG-----AAAATGACA--GGAA----AAATA---TG-AAGGAATA----TGAGATTTGGATAGAACATTACTGTTAAGACCAAA----CATTTTTATTAGGAAATTT---
+q canFam2.chr1 99999999-999999999999999999999999-----9999999999--99999999999999999999999-9999999999-99999999999999999999999999999999999999999-------9999999-99999999999999999999999999999999999999999999999999---99999999999999999999-----999999999--9999----99999---99-99999999----99999999999999999999999999999999999----9999999999999999999---
+i canFam2.chr1 C 0 I 1665
+s dasNov1.scaffold_13068 15853 265 + 27231 CCGAGTAT-TTGGCTAAAAGAGGGGACATTTCC-----CTTTAATCATAGACACAAGTCCTCAGAAACAAGTTGAGTCATGTGGGCTCTTTAGTCATTGAATTGTGAGTCTTTGATTCTCTGAATT-------GAAAAAGCCATGATGAGAATCCATCTTT-TTATTTTTGTCTTCTCTGCTCAAGAACAA---TATCATATTTTAATCTTCAG-----AAAATGACTGTAAGA----AAGAA-AGTGAAACGGATA----TAAGATTTGGATAGAAAATTACTCTTAATACAGAA--------------------------
+q dasNov1.scaffold_13068 99999999-999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------9999999999999999999999999999-99999999999999999999999999999---99999999999999999999-----999999999999999----99999-9999999999999----99999999999999999999999999999998999--------------------------
+i dasNov1.scaffold_13068 I 3402 I 121
+s loxAfr1.scaffold_4233 63827 279 + 124190 CCGAGTAA-TTGACTGAGTGAGGGGACA-TTCC-----CTTTCCTCATAT-CACAAGTCC---------AGCTGTGTCACGTGGGTTCTTTATTCACTGATGTATGAGTCTTTGATTCTCTGAATTAAAAAAAAAAAAAATGATGATAGAAATCTGTCTTT-TTATTTTTGGCTTCTCTATGGAAGAACAA---T---ATATTTTAGTCTCTAG-----AATATGACAGGAAGG----AAGAC-AATG-AATGACTA----TAATATCCAGATAGAAAATTACTGTTAATACAGAATATTCATTGACATTATGATATC----
+q loxAfr1.scaffold_4233 99999999-9999999999999999999-9999-----999999999999-999999999---------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999---9---9999999999999999-----999999999999999----99999-9999-99999999----999999999999999999999999999999999999999999999999999999999----
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=-55668.000000
+s mm9.chr10 3189785 92 + 129993255 ------CAAACTTTCAAAGCTG--------------CTGAGCC-----AGCT-----CTTCTGCCC-------CTCTAAC-------------TTTTTAAAATTAATGCTTTAAAAC-ttatttccattctatgtgtttggat
+s cavPor2.scaffold_284118 86026 92 - 169015 ------GTTCCCTTAAAGCTTGTGAAAGACTGTT--TTCAGTT-----AGCTTGT-ACTTATACCC-------TTTCAACATTTCTATCTGAGCTTTTAAAActgatgtttta------------------------------
+q cavPor2.scaffold_284118 ------9999999999999979999999999999--9999999-----9999699-9999996999-------9999999999999999999999999999999999999999------------------------------
+i cavPor2.scaffold_284118 C 0 I 2059
+s rn4.chr1 230008032 73 - 267910886 ------CAGACTTTAAAAGCTG--------------CTGAGCT-----AGCT-----CTTCT----------------------------------------TTAACGTTTTAAAACGttattttcaatctgtatgtttgggt
+q rn4.chr1 ------9999999999999999--------------9999999-----9999-----99999----------------------------------------99999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16091946 59 - 170899992 -------------AAAAGTTTGGAAGAGAACATT--TTCAGCT-----AATT-----TTTGCTTCT-------TTCaaaa-------------tttctaatttt---------------------------------------
+i hg18.chr6 I 7 I 1
+s rheMac2.chr4 108500184 58 + 167655696 --------------AAAGCTTGGAAGAGAAACTT--TTCAGCT-----AATT-----TTTGCTTCT-------TTCAAAA-------------TTTCTAATCTT---------------------------------------
+q rheMac2.chr4 --------------99999999999999999999--9999999-----9999-----999999999-------9999999-------------99999999999---------------------------------------
+i rheMac2.chr4 I 9 I 1
+s calJac1.Contig1260 68575 54 - 523245 --------------AAAGCTTATGAAAGACAATT--TTCAGCT-----AATT-----TTTGTTCCT-------TTCaaaa-------------tttctaa-------------------------------------------
+i calJac1.Contig1260 I 7 C 0
+s bosTau3.chr9 13727650 70 - 95030419 -------------------------------GTTAATGCAGCTG-AAGAGTT-----TTTGTCTTTATATTTGTTCTTAA-------------TTTTTT------------------TCTATCTAAATTCt-----tttattt
+q bosTau3.chr9 -------------------------------9999999999999-9999999-----99999999999999999999999-------------999999------------------99999999999999-----9999999
+i bosTau3.chr9 I 31 C 0
+s loxAfr1.scaffold_4233 64106 105 + 124190 CGCAGTTTTGTTTTAAAGCTTGTAAAAGCCCCTT--TTCAGTTATTGGAGCTGGGAAGTTCTTTGC-------TTGAATG-------------TATTC---------------ATAC-TTAACTCCTTTCGGTGTTTTTACAT
+q loxAfr1.scaffold_4233 9999999999999999999999999999999999--999999999999999999999999999999-------9999999-------------99999---------------9999-9999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 1440
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050017 87 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16118 121 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e panTro2.chr6 16615357 69 - 173908612 I
+e ponAbe2.chr6 16404325 70 - 174210431 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=2701.000000
+s mm9.chr10 3189877 145 + 129993255 gttttgtctgca-tatgtgccc-agtgcctgcagagg-cagaagagggccttggttttc---ctgggaactggagtcatgatgactgtgaccagccatttgggtgcggagaacagaacatgggtctactgaagagcagccgctgaccataa
+s rn4.chr1 230008105 120 - 267910886 gttttgtctgca-tatgtgcccaagtgtctgcaggggatagaagagggccttggattgc---ctgggaag-gaagtcgtgatggctgtga--------------gcagagaatagaatatgggtccgctgaacagcagc------------
+q rn4.chr1 999999999999-9999999999999999999999999999999999999999999999---99999999-9999999999999999999--------------99999999999999999999999999999999999------------
+i rn4.chr1 C 0 C 0
+s bosTau3.chr9 13727720 98 - 95030419 tttttggctgcgctgtgtggca-------tg-------cagaatcttatcttagttccctgaccagggactgagcccatgctccctatag--------------tgggagcatggagt-----tctaatta--------------------
+q bosTau3.chr9 9999999999999999999999-------99-------9999999999999999999999999999999999999999999999999999--------------99999999999999-----99999999--------------------
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050017 87 + 24938454 I
+e rheMac2.chr4 108500242 1 + 167655696 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16118 121 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68629 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e hg18.chr6 16092005 1 - 170899992 I
+e panTro2.chr6 16615357 69 - 173908612 I
+e ponAbe2.chr6 16404325 70 - 174210431 I
+e oryCun1.scaffold_214769 95088 2622 - 139458 I
+
+a score=-15020.000000
+s mm9.chr10 3190022 27 + 129993255 cctaactaccaagtca-------tttct-----ccagct
+s equCab1.chr31 13050104 12 + 24938454 ---------------------TCTATCC------aaatt
+q equCab1.chr31 ---------------------9999999------99999
+i equCab1.chr31 I 87 C 0
+s calJac1.Contig1260 68629 1 - 523245 --------------------------------------t
+i calJac1.Contig1260 C 0 C 0
+s bosTau3.chr9 13727818 39 - 95030419 ctggaccaccagggaattccCTCTATCtaaattaaaatt
+q bosTau3.chr9 999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s ponAbe2.chr6 16404395 12 - 174210431 ---------------A-------TTTCT-----AATTTT
+i ponAbe2.chr6 I 70 C 0
+s rn4.chr1 230008225 27 - 267910886 cttaaccaccaagtga-------tttct-----ccagtt
+q rn4.chr1 9999999999999999-------99999-----999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 97710 25 - 139458 CCTATCTA--AATTCC-------TATCt-----aaattt
+q oryCun1.scaffold_214769 99999999--999999-------99999-----999999
+i oryCun1.scaffold_214769 I 2622 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e rheMac2.chr4 108500242 1 + 167655696 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16118 121 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e hg18.chr6 16092005 1 - 170899992 I
+e panTro2.chr6 16615357 69 - 173908612 I
+
+a score=167973.000000
+s mm9.chr10 3190049 71 + 129993255 ----------ccTAAAAGTTTTTTTTTTTTTA-----------AACTAGAAGCATTATAAATTTAAACCTCCCATAAAGTCTTTTTAAAGTT
+s oryCun1.scaffold_214769 97735 69 - 139458 ----------tctaaaattatttttatttt-------------attaGGAAGCAGCATAAATATAAACTTCAAGTAAAGTCTATTTAAACTT
+q oryCun1.scaffold_214769 ----------99999999999999999999-------------9999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 I 6
+s rn4.chr1 230008252 82 - 267910886 ----------ccGAAAAGtttttttttttttaattttttttttaaCTAGAAGCATTATACATTTAAACCTCCCATGAAGTCTGTTTAAAGTT
+q rn4.chr1 ----------9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 6
+s ponAbe2.chr6 16404407 70 - 174210431 ----------TTAGATATTATTTTTTGTTTT------------ACTAGGAGGTAACATAAATTTAAACTTCAAGTAAAATCTATTTAAAATT
+i ponAbe2.chr6 C 0 I 5
+s bosTau3.chr9 13727857 70 - 95030419 ----------ttttaaaaaattttaCTAAGA------------AGTAAGATGCCACATAAATTTAAACTTCACATAAAATCTAATTAGAGTT
+q bosTau3.chr9 ----------999999999999999999999------------9999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 6
+s rheMac2.chr4 108500243 69 + 167655696 -----------TAAATATTATTTTTTATTTT------------ACTAGGAGGTAACATAAATTTAAACTTCAAGTAAAATCTATTTAAAATT
+q rheMac2.chr4 -----------99999999999999999999------------9999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1 I 5
+s hg18.chr6 16092006 69 - 170899992 -----------taaatattattttttGTTTC------------ACTAGGAGGTAACATAAATTTAAACTTCAAGTAAAATCTATTTAAAATT
+i hg18.chr6 I 1 I 5
+s panTro2.chr6 16615426 69 - 173908612 -----------taaatattattttttGTTTC------------ACTAGGAGGTAACATAAATTTAAACTTCAAGTAAAATCTATTTAAAATT
+q panTro2.chr6 -----------99999999999999999999------------9999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 69 I 5
+s calJac1.Contig1260 68630 70 - 523245 ----------ttttaaaatattttttatttt------------CCTAGGAGGAAGCATACATTTAAACTTCAAGTAAAATCTATTTAAAGTT
+i calJac1.Contig1260 C 0 I 2167
+s equCab1.chr31 13050116 70 + 24938454 ----------ttttaaaatattttttatttG------------ACTAGGAAGCAACATAAATTTAAACTTCAAATAAAATCTAGTTAAAGTT
+q equCab1.chr31 ----------999999999999999999999------------9999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 6
+s dasNov1.scaffold_13068 16239 80 + 27231 CCTAAATCTTTTTGAAATGAGTTTTTATTTC------------ACTCGGAAGCAATATAAATGTAAAACGTGAACAAAACCTATTCGAAGTT
+q dasNov1.scaffold_13068 9999999999999999999999999999999------------9999999999999999999999999998999999999999999999999
+i dasNov1.scaffold_13068 I 121 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=40420.000000
+s mm9.chr10 3190120 53 + 129993255 ------CTTTTCACTAAAGCCAAAGCTGT-----ATGTTGTTA---TTAAC---CAGTCATTTCTTAGTG--
+s rn4.chr1 230008340 53 - 267910886 ------ATCTTCACTAAAACCAGAGCCGT-----GTGTTGTTA---CTAAC---CTATCATTTCTTAGTG--
+q rn4.chr1 ------99999999999999999999999-----999999999---99999---9999999999999999--
+i rn4.chr1 I 6 C 0
+s oryCun1.scaffold_214769 97810 56 - 139458 ------GTTTTCATTAAAGTCAAAGCCTT-----TCATTGTTA---CTGATTTACTGTTGTTCATTTTTC--
+q oryCun1.scaffold_214769 ------99999999999999999999999-----999999999---999999999999999999999999--
+i oryCun1.scaffold_214769 I 6 C 0
+s ponAbe2.chr6 16404482 59 - 174210431 ------TGTTTTGTTAAAGTCAAAGCCTT-----TTGTTGTTGTTTTTAACTTCCCATTGTTCATCTTGC--
+i ponAbe2.chr6 I 5 C 0
+s rheMac2.chr4 108500317 59 + 167655696 ------TGTTTTGTTAAAGTCAATGCCTT-----TTGTTGTGGTTTTTAACTTACCATTGTTCATCTTGC--
+q rheMac2.chr4 ------99999999999999999999999-----999999999999999999999999999999999999--
+i rheMac2.chr4 I 5 I 1
+s hg18.chr6 16092080 59 - 170899992 ------TGTTTTGTTAAAGTTAAAGCCTT-----TTGTTGTTGTTTTTAACTTACCATTGTTCATCTTGC--
+i hg18.chr6 I 5 C 0
+s panTro2.chr6 16615500 59 - 173908612 ------TGTTTTGTTAAAGTCAAAGCCTT-----TTGTTGTTGTTTTTAACTTACCATTGTTCATCTTGC--
+q panTro2.chr6 ------99999999999999999999999-----999999999999999999999999999999999999--
+i panTro2.chr6 I 5 C 0
+s equCab1.chr31 13050192 37 + 24938454 ------GTTTTCATTAAAAGAAGAGTCATTAAGATTGTTATTA-----------------------------
+q equCab1.chr31 ------9999999999999999999999999999999999999-----------------------------
+i equCab1.chr31 I 6 I 120
+s bosTau3.chr9 13727933 60 - 95030419 ------GTTTTCATTCAGGGTATTGTCTT-----TTGTTACTGTTACT-ATTTGCTATTGCTCATTTTGCCA
+q bosTau3.chr9 ------99999999999999999999999-----99999999999999-99999999999999999999999
+i bosTau3.chr9 I 6 C 0
+s dasNov1.scaffold_13068 16319 40 + 27231 AGAAATGTTTTCATTAAGA---------------TTTTGGTTATTTTCAACTAGT-----------------
+q dasNov1.scaffold_13068 9999999999999999999---------------999999999999999999999-----------------
+i dasNov1.scaffold_13068 C 0 I 1620
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=77029.000000
+s mm9.chr10 3190173 54 + 129993255 -AAAGAGAAA-----GTT-CTGCAAACTCCTGAGTATGTGTATACTATAGATGTATAGATT
+s rn4.chr1 230008393 49 - 267910886 -AAAGAGAAA-----GTTATTGCAAACTCTTGAATGTGTGTATACTGTAGATGTA------
+q rn4.chr1 -999999999-----9999999999999999999999999999999999999999------
+i rn4.chr1 C 0 I 371
+s oryCun1.scaffold_214769 97866 54 - 139458 -CAAAAGCTG-----TTC-TCCTGAACCTGCAGGTATATTTATGCCTGAGGGGTCTGGACT
+q oryCun1.scaffold_214769 -999999999-----999-999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 I 3
+s ponAbe2.chr6 16404541 59 - 174210431 -AAAAAAAAAAAAGTTTC-TTACCTACTTCCAAGTATATTTATGCTTTATGTATCTTGATT
+i ponAbe2.chr6 C 0 I 2661
+s rheMac2.chr4 108500377 59 + 167655696 -AAAAAAAAAAAAGTTTC-TTACATACTTCCGAGTATATTTATGCTTTATGTATCTTGATT
+q rheMac2.chr4 -99999999999999999-999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1 I 3
+s hg18.chr6 16092139 59 - 170899992 -AAAAAAAAAAAAGTTTC-TTACCTACTTCCGAGTATATTTATGCTTTATGTATCTTGATT
+i hg18.chr6 C 0 I 3
+s panTro2.chr6 16615559 59 - 173908612 -AAAAAAAAAAAAGTTTC-TTACCTACTTCCGAGTATATTTATGCTTTATGTATCTTGATT
+q panTro2.chr6 -99999999999999999-999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 3
+s equCab1.chr31 13050349 55 + 24938454 AAAAAAAAAG-----TTC-TCGCAAACTGCGTGGTATATTTATGCTTTACATATCTTGATT
+q equCab1.chr31 9999999999-----999-999999999999999999999999999999999999999999
+i equCab1.chr31 I 120 C 0
+s bosTau3.chr9 13727993 55 - 95030419 AAAGAAAAAG-----TTC-TCACAGACTCCCTGGTATATTTATACTTTATGTATCTTGACT
+q bosTau3.chr9 9999999999-----999-999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 2362
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+
+a score=0.000000
+s mm9.chr10 3190227 3 + 129993255 GTG
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e rn4.chr1 230008442 371 - 267910886 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050404 0 + 24938454 C
+e rheMac2.chr4 108500436 3 + 167655696 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e hg18.chr6 16092198 3 - 170899992 I
+e panTro2.chr6 16615618 3 - 173908612 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97920 3 - 139458 I
+
+a score=-4447.000000
+s mm9.chr10 3190230 31 + 129993255 CATGTATGCTATAGATGTATAGATTGTGCTT----
+s rn4.chr1 230008813 31 - 267910886 CATGTTTGCTGTAGATGTGTAGACTGTGCAT----
+q rn4.chr1 9999999999999999999999999999999----
+i rn4.chr1 I 371 C 0
+s oryCun1.scaffold_214769 97923 13 - 139458 AA--------------ACATGGCTTGT--------
+q oryCun1.scaffold_214769 99--------------99999999999--------
+i oryCun1.scaffold_214769 I 3 C 0
+s hg18.chr6 16092201 13 - 170899992 --------------ACACGTGACTTGC--------
+i hg18.chr6 I 3 C 0
+s panTro2.chr6 16615621 13 - 173908612 --------------ACACGTGACTTGC--------
+q panTro2.chr6 --------------9999999999999--------
+i panTro2.chr6 I 3 C 0
+s rheMac2.chr4 108500439 13 + 167655696 --------------ACACATGACTTGC--------
+q rheMac2.chr4 --------------9999999999999--------
+i rheMac2.chr4 I 3 C 0
+s equCab1.chr31 13050404 20 + 24938454 -----------TAGAGACATAGCTTAT----CCTT
+q equCab1.chr31 -----------9999999999999999----9999
+i equCab1.chr31 C 0 I 1249
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=12006.000000
+s mm9.chr10 3190261 70 + 129993255 AATTGTTCCCTCTTTGTCCCCGACA-TCGAGGTGGCTGAGGGTAGCTCAGACGTGTCCTGATGTTCCAGAG
+s rn4.chr1 230008844 66 - 267910886 GTTTGC-CCCTCTCTGTCCCTGACA---GAGGTGGCTG-GGGTAGTTCAGACATGTCCTGATGCTCCAGAA
+q rn4.chr1 999999-999999999999999999---9999999999-99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 97936 62 - 139458 -------CTCTCTCTGGTGCAGATGGCCCAGATGGCTGAAGCTAACTGAAAGGAG--CCAACTCTCCAGAG
+q oryCun1.scaffold_214769 -------999999999999999999999999999999999999999999999999--99999999999999
+i oryCun1.scaffold_214769 C 0 I 1830
+s hg18.chr6 16092214 39 - 170899992 -------CTCTCTCTGGCCCACATA---------GCCAAAGCCAGCTGAAAGAAG----------------
+i hg18.chr6 C 0 I 956
+s panTro2.chr6 16615634 40 - 173908612 -------CTCTCTCTGGCCCACATG---------GCCAAAGCCAGCTGAAAGAAGT---------------
+q panTro2.chr6 -------999999999999999999---------9999999999999999999999---------------
+i panTro2.chr6 C 0 I 952
+s rheMac2.chr4 108500452 40 + 167655696 -------CTCTTTCTGGCCCACATG---------GCTAAAGCCAGCTGAAAGAAGT---------------
+q rheMac2.chr4 -------999999999999999999---------9999999999999999999999---------------
+i rheMac2.chr4 C 0 I 386
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=11406.000000
+s mm9.chr10 3190331 192 + 129993255 CAGCTAGGTCTCAGGAATACATACTGCCCATGAATC---TTTGGTTAGTTTGTACTAGGTCTGCCAGTTCTTCCTCATTCttttgtttctttggtttttgagacacagcatacagccctgcttggcttcaaactgtctatgctcctgcatcagcttcctagttgctgggtggagtgtgttcacccacatacctgg
+s rn4.chr1 230008910 194 - 267910886 GAGCTAGGTC-CGTGACTAGAGAACATCCATGAATTAAGCTTCTTCGGTTTGCACTGGGTTTGCCAGCTCATCCCCATTCTTCTGTTTCTTTGGtttttgagatgcagcatgtagtcctacttcacttcaaactatccatgctcctgcctcagcttcctagttgctgggtgaagtgtgtgtacccacacacctgg
+q rn4.chr1 9999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e rheMac2.chr4 108500492 386 + 167655696 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e hg18.chr6 16092253 956 - 170899992 I
+e panTro2.chr6 16615674 952 - 173908612 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=18235.000000
+s mm9.chr10 3190523 204 + 129993255 TCTGTTTGTCTTACTCTTGTCTGCTGTCCCTC----CTGT-GTCCATCTTGTGTCTCGGCTTTCCCTTGGACTGGGTATTGGGAAGTGGAAGTACTTGGTA---------------------TGCT---Gaggcaga-------ggttggaatcccagccttgtctttggtcacctgtgtag--tctggtgacac----accattctcgggccagagtttcttcagcagttaagtagtaataCAGG
+s rn4.chr1 230009104 204 - 267910886 TCAGTTTGTCTTACTCTTGTCTGCTGTCCATCTATCCTAT-GTTCATCTCGTGTCTTGGCTTTCCCTTGGGTTGGGTGTTGGGAAGTGGATGTACTCGGCA---------------------TGCT---GAGCCAGA-------GGTTG-AATCCCAGCCT-GTCTTTGGTCACCCATGTAG--TCAGGTGTCAC------CATTCTCAGGCCTGAGTCTCTTCAGCAGTTAAAGCGTAATGCAGG
+q rn4.chr1 9999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999---------------------9999---99999999-------99999-99999999999-99999999999999999999--99999999999------999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108500878 242 + 167655696 ACAGTTTTCCTTATCCTTGTCTAATGTCCATC----TTGTCATCTGTCTTATCATGTGGCCCTTTTTTGGGCAGGTTGTGTGGAAGGGGACATACACAGCAGAGAGAGTAATCAAAAGCTTGTGCCCTAGATGCAGATTGCCTTGGTCAGAAGCCCAGCACTACCGCTGATTAGCTTTGTAACTTCAGAGAATTTATTTACTGTTTTCATGCCTCAGTTTCCTTAGTGGTAAATTAGAGATAAAAA
+q rheMac2.chr4 99999999999999999999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 386 I 587
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e hg18.chr6 16092253 956 - 170899992 I
+e panTro2.chr6 16615674 952 - 173908612 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=29993.000000
+s mm9.chr10 3190727 571 + 129993255 TGAAACGTCCTTTGTCTGATGATAGGAGATCTGTGAAACATTTGAAATGTCAGCACGAGATGGGAAGTGAGGATTGTTCAACTCATCTTCTCTAAGGTCACAGTCAAGGCCCAGACACTCTAGCAACACAATACATGATTGCCTCCGTGTATAGAAATAAAAATGAATTAATTTTACGCTCATAATTGAGTCCCATCCACAAGATGTGGCACATGCATACAGGTTTTTCAAACTGCGAAACCATGCAGAATCTAAATG--TAAGATAAGGGACACTCAGAgtgctggttagctttgtgtcagtgtgataccagctagagtcatttggaaacagggagcctccattgagaacatatcccttccagattgacctgtgggcaaagcctctggtgcatttccctggctgatgactcatctggacggctcagcctc [...]
+s rn4.chr1 230009308 518 - 267910886 TGGAGCCTCTGTCTTCTGAGGACGGGAGACCTGTGAAACATTTGGAATGTCGGTGCGAGATG--------------CTCATCTCATCTTCTTTAAGGTCACGGTCAAGGCACAGACACTCTAGCAATACAATACGTGATTGCCTCCCTGTATAGAAATCAAAGATGAATAATTTTACGTTTATAATTGAGTACCATCCACAAGATATGTTATGTGCATGCAGATATTCCAAAATCTGAAACCATCCCGAATCTAAAACATTCGGATAAGGGACACTCAGtgtactggctagctttgtgtcagtttgatactagctagagtcctttgg------gaaaccgatattgagaaaatatccctttcagattgacctgtgggcaaagcctgtggtacagttccttggttgatgattca-ctggagggcgcagccca [...]
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999--------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------99999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e rheMac2.chr4 108501120 587 + 167655696 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e hg18.chr6 16092253 956 - 170899992 I
+e panTro2.chr6 16615674 952 - 173908612 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=13764.000000
+s mm9.chr10 3191298 57 + 129993255 GAAATTGATGGCTCTAAAGCAGGCACTTATGTAAACTGAACATAGGTCAGAGAGCAG
+s rn4.chr1 230009826 57 - 267910886 gAAATTGATGTTTCTAAAGCAGGCCTGCTTGTAAGCGGAACATGGCTCAAAGAACAC
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16616626 50 - 173908612 GAAATTGATTTTTTTGAGGCA----CCCACATAAGCTGAACATTGTTCAAAAAG---
+q panTro2.chr6 999999999999999999999----99999999999999999999999999999---
+i panTro2.chr6 I 952 I 230
+s hg18.chr6 16093209 50 - 170899992 GAAATTGATTTTTTTGAAGCA----CCCACATAAGCTGAACATTGTTCAAAAAG---
+i hg18.chr6 I 956 I 211
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e rheMac2.chr4 108501120 587 + 167655696 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=34495.000000
+s mm9.chr10 3191355 115 + 129993255 AG--TAAGTTGTGGGTGAGCTGACAGTGTTGCTGTT----TCTC-----------AGTCCTTTCTGTTGGAA-TCTAT-CTCTTCATCAC--------------CTGTAGT-------CTGTG-TGACGGCCACACAGAGAGCCCTGGCCT------------------------------GGCCT--------
+s rn4.chr1 230009883 120 - 267910886 AGATTAAATTGTGGGTGAACAAATAGTGTTGCCGTT----TCTC-----------CATCCCTTCTGTTGGAAATCCAT-CTCTTCATCAC--------------CTGCGGTG------CTGTGGTGAGCGCCACACAGACAACCCTGGCTT------------------------------GGCCT--------
+q rn4.chr1 999999999999999999999999999999999999----9999-----------99999999999999999999999-99999999999--------------99999999------999999999999999999999999999999999------------------------------99999--------
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108501707 188 + 167655696 AG--TGAATT---GGTGTTTAGTTAGTGCTGCTGTGTTTTTTTCTTTTTTGTGAGTATCTTGCCTGGTGGAAATCCACGCACTCCATGACTATATGATTGTCCGCTGTGCTGGAAATACCATAGTGGGCA-TACTCACAGAGCCCTGCTTCTGTAGTCCTCACATTCCAGTGGAGGAAGAAGGCCGCAAACACG
+q rheMac2.chr4 99--999999---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 587 C 0
+s panTro2.chr6 16616906 165 - 173908612 ------------------------AGTGCTGCTGTG----TTTTTTTTGTGTGAGTGTCTCGCCTGATGGAAATCCATGCATTCCATGACTATATGATTGTCCACTgtgctggaaataccgtagtgggca-tactcacagagccctgcttctgcagccctcacatcccagtggaggaagaaggccgcaaacaCG
+q panTro2.chr6 ------------------------999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 230 C 0
+s hg18.chr6 16093470 185 - 170899992 AG--TGAATT---GGTGTTTAGTTAGTGCTGCTGTG---TTTTTTTTTGTGTGAGTGTCTCGCCTGGTGGAAATCCATGCATTCCATGACTCTATGATTGTCCACTgtgctggaaatacggtagtgggca-tactcacagagccctgcttctgcagccctcacgtcccagtggaggaagaaggccacaaacacg
+i hg18.chr6 I 211 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e calJac1.Contig1260 68700 2167 - 523245 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=98917.000000
+s mm9.chr10 3191470 161 + 129993255 GCGGTCCATATGGGACACAG-TAGGTGACAAGCTGGAGAGTAACCATAAGGCACTATACTAATctcagggaacacatgcaatgacatattcagaagacattgttagttgtcacgtctggggagtgag--cttctgatatctgataggtgcttgtgtgtgcacaa
+s rn4.chr1 230010003 162 - 267910886 GTGGTCCAGATGGGGCACAAATAGGTGACAGGCTGGAGAGTAACCAGAAGGCACTATACTTATctcagggaacacatgcaatggtatgttcaggagacattgttagttgtcagatctggggagtgag--cttctgatgtctgatatgtgtgtgcgcatgtgtgt
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 70867 144 - 523245 GTGGTTGAGATGGGGCAGAAGTGGGTGATGGGCTAGAGAGCcaactgaaggggcgattatgcctccagggggcacagg--gtgaga---gtgggagacattttcggttgtcacaccaggggaggaggtgctactgctatctgatgggtg---------------
+i calJac1.Contig1260 I 2167 C 0
+s rheMac2.chr4 108501895 144 + 167655696 GTGCTTCAGATGGGGCAGAAGTGGGTGATGGGCTAGAGAGTGAATCGAAGGGGCGATTCTGCCACCAGGGGACACAGG--GCGATA---TTGGGAGACATTTTTTATTGTTACACCGGGGGAGGAGGTGCTACTGCCATCTGATGGGTA---------------
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999999999999999999999--999999---999999999999999999999999999999999999999999999999999999999999---------------
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16617071 132 - 173908612 GTGCTTCAGATGGGGCAGAAGTGGGTGATGGGCTAGAGAGTGAATCGAAggggcgattctgccaccaggggacacagg--gcg---------------atttttggttgtcacactgggggagggggtactactgccatctgatgggta---------------
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999999999999999--999---------------999999999999999999999999999999999999999999999999999---------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16093655 132 - 170899992 gtgcttcagatggggcagaagtgggtgatgggctagagAGTGAATCGAAggggcgattctgccaccaggggacacagg--gcg---------------atttttggttgtcacaccgggggaggaggtactactgccatctgatgggta---------------
+i hg18.chr6 C 0 C 0
+e tetNig1.chrUn_random 4070394 6325 - 171761319 I
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e oryLat1.chr22 12874321 3946 - 28810691 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=-29324.000000
+s mm9.chr10 3191631 109 + 129993255 gcgtgcgtgcatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgc--------------------------agttgctagcatcttgctgtacatgagagc-----tttc--------------------------------------------------ctcagaagagtgaccctgccacatatc------------agtt
+s hg18.chr6 16093787 91 - 170899992 ------------------------------gagagcagggatgc----------------------------tgataaacatcctgtaagacacagggac-----cccc-ac-----------------------------------------------cccacaagcgttatctggccccaaatgtcagtagggctgaggt
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16617203 91 - 173908612 ------------------------------gagagcagggatgc----------------------------tgataaacatcctgtaagacacagggac-----cccc-ac-----------------------------------------------cccacaagcgttatctggccccaaatgtcagtagggctgaggt
+q panTro2.chr6 ------------------------------99999999999999----------------------------9999999999999999999999999999-----9999-99-----------------------------------------------9999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108502039 92 + 167655696 ------------------------------GAGAGCAGGGATGC----------------------------TGATAAACATCCTGTAATACACGGAGAC-----CCCCAAC-----------------------------------------------CCCACAAGCATTATCTGGCCCCAAATGTCAGTAGGACTGAGAT
+q rheMac2.chr4 ------------------------------99999999999999----------------------------9999999999999999999999999999-----9999999-----------------------------------------------9999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 71011 91 - 523245 ------------------------------gagggcagtgatgc----------------------------tgataaacatcctataaaacatggggatgtatatccc-ac-----------------------------------aagcgttatgtggccccaaatgttggtagagctg-----------------aggt
+i calJac1.Contig1260 C 0 C 0
+s rn4.chr1 230010165 135 - 267910886 gtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgcgcatgtgtgtgtgtgtgtgtgtgtgcgcacacatgtacttgctagcatcctgctgctcaggagagc-----tttc--------------------------------------------------ctcacaaagGTAACCCTACCACCTATC------------AGTT
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999--------------------------------------------------999999999999999999999999999------------9999
+i rn4.chr1 C 0 C 0
+s tetNig1.chrUn_random 4076719 128 - 171761319 gtgtgtgt------gtgtgtgtgtgtgtgtgtgtgtgtgtgtgc---------------------------------agcacgcAG--GGCTTTGACTGC-----Ccct-gcagcatcatcatcaaGTAGTTGTAGAGCATAAACCACAGCCTTCGTGGTCCTCAGACCAAAGGA---------------------------
+i tetNig1.chrUn_random I 6325 C 0
+s oryLat1.chrUn 11010477 68 - 119265241 --------gcagacgtttgtgtgtgtgtgtctgtgtgtgtgtgt----------------------------------------------ctgtacatgc-----cccc-ac-----------------------------------------------cccccagagATAAGTG---------------------------
+i oryLat1.chrUn n 3946 C 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e sorAra1.scaffold_256646 100759 6633 - 121936 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=-22831.000000
+s mm9.chr10 3191740 22 + 129993255 -------------atccaa---agtCTGCTCTGGA--------------------GTC
+s rn4.chr1 230010300 36 - 267910886 -------------AGACAA---AGTTTGCTCTGGAC----TGAGTGGTCAGG--AGTC
+q rn4.chr1 -------------999999---99999999999999----999999999999--9999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 71102 42 - 523245 -------------tgagaa---accttgTTCTAGATGAAGTAAGTggtcagggaaggc
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108502131 42 + 167655696 -------------TGAGAA---ACCTTGTTCTAGATTAAGTAAGTGATCAGGGAAGCC
+q rheMac2.chr4 -------------999999---999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16617294 38 - 173908612 -------------tgagaa---accttgttctagat----taagtggtcagggaagcc
+q panTro2.chr6 -------------999999---99999999999999----999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16093878 38 - 170899992 -------------tgagaa---accttgttctagat----taagtggtcagggaagcc
+i hg18.chr6 C 0 C 0
+s sorAra1.scaffold_256646 107392 25 - 121936 ----------------------------ACCCACAG----TTGACAGTTCTGGAAGC-
+q sorAra1.scaffold_256646 ----------------------------99999999----99999999999999999-
+i sorAra1.scaffold_256646 I 6633 C 0
+s tetNig1.chrUn_random 4076847 25 - 171761319 GACGAAGGTTTCCTGAAGGAACAGT---------------------------------
+i tetNig1.chrUn_random C 0 C 0
+s oryLat1.chrUn 11010545 13 - 119265241 A---------TCATGAAGA---ATT---------------------------------
+i oryLat1.chrUn C 0 C 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e tupBel1.scaffold_114895.1-498454 392524 3826 - 498454 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e otoGar1.scaffold_335.1-444 433 3 - 444 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+e oryCun1.scaffold_214769 97998 1830 - 139458 I
+
+a score=1750.000000
+s mm9.chr10 3191762 48 + 129993255 CTGGCCCAGCGGGGTCATAT----GCCCAGGCCTGAG----AGATAGGGATGGACT
+s sorAra1.scaffold_256646 107417 52 - 121936 TTCCAAGGGGAGGGAGACATGGAGGCCGGGAAGTGAG----GAATCAGAACGAGCT
+q sorAra1.scaffold_256646 9999999999999999999999999999999999999----999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396350 28 - 498454 ------------------------GCCAGGACCTGAG----AGACAAGGATGAGCT
+q tupBel1.scaffold_114895.1-498454 ------------------------9999999999999----999999999999999
+i tupBel1.scaffold_114895.1-498454 I 3826 C 0
+s oryCun1.scaffold_214769 99828 28 - 139458 ------------------------gccaggaccccag----tgatgagaaggagct
+q oryCun1.scaffold_214769 ------------------------9794998999959----999999999999789
+i oryCun1.scaffold_214769 I 1830 C 0
+s hg18.chr6 16093916 50 - 170899992 ttgcaggggaggggacatttg--ggccagcacctgag----tgataagaatgagcc
+i hg18.chr6 C 0 I 330
+s panTro2.chr6 16617332 50 - 173908612 ttgcaggggaggggacatttg--ggccagcacctgag----tgataagaatgagcc
+q panTro2.chr6 999999999999999999999--99999999999999----999999999999999
+i panTro2.chr6 C 0 I 325
+s rheMac2.chr4 108502173 41 + 167655696 TTGCAGGGGAAGGGACATTTG--GGTCAGCACCTGAG----TGATAG---------
+q rheMac2.chr4 999999999999999999999--99999999999999----999999---------
+i rheMac2.chr4 C 0 I 662
+s calJac1.Contig1260 71144 49 - 523245 ttgcaggggagggaacattt---ggccagcccctgag----tgataagaatgagcc
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351679 49 - 359464 ttgcagagcagggg-catctg--agccaggacttgaa----gaatgagaatgagcc
+q otoGar1.scaffold_334.1-359464 99759996698993-579999--97989996799999----999799997889899
+i otoGar1.scaffold_334.1-359464 I 19112 C 0
+s rn4.chr1 230010336 48 - 267910886 CTGGCCCAACGAGGTCATCT----GCCCAGGCCTGAG----GGATAGGGATGGACT
+q rn4.chr1 99999999999999999999----9999999999999----999999999999999
+i rn4.chr1 C 0 C 0
+s tetNig1.chrUn_random 4076872 41 - 171761319 --TCAG-AGAAAAGCCCACTA--AGCCTAAATGGGAGCCAGAGATC----------
+i tetNig1.chrUn_random C 0 C 0
+s oryLat1.chrUn 11010558 35 - 119265241 --TTAGCAGAAAGGTTCTT------CCTTTACGGGATC---AAATC----------
+i oryLat1.chrUn C 0 C 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e bosTau3.chr9 13728048 2362 - 95030419 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e equCab1.chr31 13050424 1249 + 24938454 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e dasNov1.scaffold_13068 16359 1620 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78260363 1665 - 125616256 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e cavPor2.scaffold_284118 86118 2059 - 169015 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-26938.000000
+s mm9.chr10 3191810 110 + 129993255 -----------------------------------------------TGCCTTG-----------------------CCTTGGTCTATCT-GAAGAGCAGTTCATGATAAGGGACTAGGGACAATACAGCCCCTTGAGA--CAGGACA-G--GGCTGAGGGA--------GTA----------GAGC-----GTACAGGCCAGCATG-----------TG-
+s rn4.chr1 230010384 110 - 267910886 -----------------------------------------------CTCTTTG-----------------------CTTTGATCTACTT-GAAGAGCATTTTACAATAAGGGGCTGGGGAGAACACAGCCCCCTGAGA--CAGGAGG-A--GGCTAAGGGA--------GAG----------CAGA-----GTACAGGCCAGCGTG-----------TG-
+q rn4.chr1 -----------------------------------------------9999999-----------------------9999999999999-999999999999999999999999999999999999999999999999--9999999-9--9999999999--------999----------9999-----999999999999999-----------99-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 99856 109 - 139458 -----------------------------------------------gtccttg-----------------------ctgggatctgggg-ggagagtatttcaggaagaggctgcagcgggaacagagccc---gtgg--caggagc-CCTGAGCGAGGAG--------GGA----------GAGG-----GCGGTGGCAGAGGTG-----------GG-
+q oryCun1.scaffold_214769 -----------------------------------------------9999789-----------------------9799986989999-99989998899669999997999996787999996898887---7998--6789877-8799969898986--------999----------9999-----998999898996899-----------99-
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16094296 111 - 170899992 -----------------------------------------------gtctacg-----------------------acaatatttgtag-gaggcgcatttggggaagaggaactatcaagaacaaagtcc-ctgagg--cccgggt----ggctgtggaag-------gag----------caga-----gagaaggctgatatggg---------tg-
+i hg18.chr6 I 330 C 0
+s panTro2.chr6 16617707 111 - 173908612 -----------------------------------------------gtctacg-----------------------acaatatttgtag-gaggcgcatttggggaagaggaactatcaagaacaaagtcc-ctgagg--cctgggt----ggctgtggaag-------gag----------caga-----gagaaggctgatatggg---------tg-
+q panTro2.chr6 -----------------------------------------------9999999-----------------------9999999999999-99999999999999999999999999999999999999999-999999--9999999----99999999999-------999----------9999-----99999999999999999---------99-
+i panTro2.chr6 I 325 C 0
+s rheMac2.chr4 108502876 111 + 167655696 -----------------------------------------------GTCCACG-----------------------ACAAGATTTGTAG-GAGGAGCATTTGGGGCAGAAGAACTATGAAGAACAAAGTCC-CTGAGG--CCGGAGT----GGCTGTGGAAG-------GAG----------CAGA-----GAGAAGGCTGGTATGGC---------TG-
+q rheMac2.chr4 -----------------------------------------------9999999-----------------------9999999999999-99999999999999999999999999999999999999999-999999--9999999----99999999999-------999----------9999-----99999999999999999---------99-
+i rheMac2.chr4 I 662 C 0
+s calJac1.Contig1260 71193 111 - 523245 -----------------------------------------------gtctacg-----------------------acaagatttgtaa-gaggagcattttgggaagagggactatgcagaacaaagtcc-ctgaag--cccgggt----ggctatggaag-------gag----------caga-----gagaaggctggcctggc---------tg-
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351728 101 - 359464 -----------------------------------------------atccatg-----------------------ccaagcctcgagg-gaagagcattttgggaagaggaactagcagg-------------gagg--ctcagagca--ggctgtgtggt-------gag----------caga-----gagagggccaatgtggt---------ca-
+q otoGar1.scaffold_334.1-359464 -----------------------------------------------9999999-----------------------9889979889999-9999988999999999999999999999999-------------9999--899999999--99999999999-------999----------9999-----99999979999999999---------99-
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396378 111 - 498454 -----------------------------------------------GCTCCTG-----------------------CCAAGATCTGTGG-GAATAGCATTTCAGGAAGAGGGACTTGGAAGAACAAAATTT-CTGAGA--TAGAAGC-A--GACTGAGATAG-------GAG----------CAGA-----GGGAAGGCCAACCCAGG----------A-
+q tupBel1.scaffold_114895.1-498454 -----------------------------------------------9999999-----------------------9999999999999-99999999999999999999999999990999999999999-999999--9999999-9--99999999999-------999----------9999-----99999999999999999----------9-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s cavPor2.scaffold_284118 88177 118 - 169015 ----------------------------------------------------TG-----------------------CCAAGATCTATGC-AAAGAGGATTTTGGGAAGAGGAGCCAGCAAGAACA-AATTCCCTGAGAGCCAGGAGC-C--AGCTGTGGAAG-------GAG----------CAGA-----GAGAAAACCAGGATGGTGGTGGTGACTG-
+q cavPor2.scaffold_284118 ----------------------------------------------------99-----------------------5999889999999-99999998999575899999989998799999999-999999999999999889999-9--97789999999-------999----------9999-----9999999999999899999999899999-
+i cavPor2.scaffold_284118 I 2059 C 0
+s sorAra1.scaffold_256646 107469 95 - 121936 -----------------------------------------------GTCCCTG-----------------------CCCAGA-CTGTGGGGAGAAATGtttcagaaagagaaac-----agagta-------cTCGGC--CAGGAGC-A--GGCTGCGGGAG-------CGG----------CCGA-----GAGAGCGTTGGCA----------------
+q sorAra1.scaffold_256646 -----------------------------------------------9999999-----------------------999999-9999999999999999999999999999999-----999999-------999999--9999999-9--99999999999-------999----------9999-----9999999999999----------------
+i sorAra1.scaffold_256646 C 0 I 10
+s canFam2.chr1 78262028 104 - 125616256 -----------------------------------------------gtccatg-----------------------catagatttgtgg-caggagcattttgaaaagaggagctagcaagaacaaaatcc-ccaaga--ctggagt-a--agctggatgca-------gaa----------c--a-----gaagaagctggag----------------
+q canFam2.chr1 -----------------------------------------------9999999-----------------------9999999999999-99999999999999999999999999999999999999999-999999--9999999-9--99999999999-------999----------9--9-----9999999999999----------------
+i canFam2.chr1 I 1665 I 7
+s bosTau3.chr9 13730410 106 - 95030419 -----------------------------------------------GTCTTTG-----------------------ACAAAATTTGTGG-GAGAAGCATTTTGGGAAGAGAAACTATCGAGAATAAAGTTC-CTAAGG--CAAGAGT-A--GGCTATGGAAG-------TAA----------CGGA-----GGGAAGGCTGGTG----------------
+q bosTau3.chr9 -----------------------------------------------9999999-----------------------9999999999999-99999999999999999999999999999999999999999-999999--9999999-9--99999999999-------999----------9999-----9999999999999----------------
+i bosTau3.chr9 I 2362 I 16
+s equCab1.chr31 13051673 86 + 24938454 -------------------------------------------------------------------------------------------gaggaacatttcaggaagaggaatgagcgggagccaagtcc-ctgagg--taagagt-a--ggctgtgggag-------gaa----------caga-----gaaaaggctggtg----------------
+q equCab1.chr31 -------------------------------------------------------------------------------------------99999999999999999999999999999999999999999-999999--9999999-9--99999999999-------999----------9999-----9999999999999----------------
+i equCab1.chr31 I 1249 I 16
+s dasNov1.scaffold_13068 17979 77 + 27231 -----------------------------------------------TCCCATG-----------------------CCAAGCTTTGTGG-GAAGAGAAGTTTGGGAAGAAGA--------------CGTCC-TCGAGG--CAGGAGC-A--GGCTAGGGGAG-------GAA----------TG------------------------------------
+q dasNov1.scaffold_13068 -----------------------------------------------9999999-----------------------9999999999999-9999999999999999999999--------------99999-999999--9999999-9--99999999999-------999----------99------------------------------------
+i dasNov1.scaffold_13068 I 1620 I 14
+s tetNig1.chrUn_random 4076913 191 - 171761319 AGCGTCTCGGTCCCCAccggcagcagagaggctgtcGGAGCggcactgatgatgatgatgatgctgctgcttcctctctgctcatcatGG-GATGTTTGCTCTGGGTACCAGAGCAaacag------------gccagg--ccaggcc-a--ggccaggccagctCACGCGCACGTCCTCACCCAGCCCGCTGGGATGGTCAGTG------------AGGG
+i tetNig1.chrUn_random C 0 C 0
+s oryLat1.chrUn 11010593 103 - 119265241 TGC----------------------------CTGTTGAA----CTCCAACAGTG-----------------------TTGCTTGTGATGG------------TGGGAGGCAG-TCTTACCT------------GTGGGG--TCAGGTC-A--GGTAAGGGGAG-------GGGCTTCCTCA--CAGC------------TCAGTC------------AGGT
+i oryLat1.chrUn C 0 I 8
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e fr2.chrUn 150262850 0 - 400509343 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e eriEur1.scaffold_363624 12281 10600 - 23811 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e echTel1.scaffold_324002 36932 7085 + 49972 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-117307.000000
+s mm9.chr10 3191920 18 + 129993255 GGCAGT-----------------------------T---TGGGTGGGGTG
+s rn4.chr1 230010494 17 - 267910886 GGAAGG-----------------------------T---TGG-TGGGGTG
+q rn4.chr1 999999-----------------------------9---999-9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 99965 20 - 139458 CCAGGG-----------------------------TACATGG-TGGCGTC
+q oryCun1.scaffold_214769 996999-----------------------------9996999-9999789
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16094407 30 - 170899992 gggtgagtgaagtgggc-----tg-----------g---gga-tagatca
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16617818 30 - 173908612 ggatgagtgaagtgggc-----tg-----------g---gga-tagaTCA
+q panTro2.chr6 99999999999999999-----99-----------9---999-9999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108502987 30 + 167655696 GGATGAGTGAAGTGTGC-----TG-----------G---GGA-TAGATCA
+q rheMac2.chr4 99999999999999999-----99-----------9---999-9999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 71304 30 - 523245 ggatgagtgaAGTGGGC-----TG-----------T---GGA-TAAATCA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351829 29 - 359464 gagagggcacagtg-gc-----tg-----------c---ggg-caggtga
+q otoGar1.scaffold_334.1-359464 99999999999999-99-----99-----------9---998-9999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396489 29 - 498454 GAGTGGGTAAGGGG-GC-----TG-----------T---GGG-TAGATCA
+q tupBel1.scaffold_114895.1-498454 99999999999999-99-----99-----------9---999-9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s cavPor2.scaffold_284118 88295 26 - 169015 GGAGGG----AGTAAGC-----TC-----------T---CGG-TGGATCA
+q cavPor2.scaffold_284118 999889----9999999-----99-----------9---999-9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s sorAra1.scaffold_256646 107574 21 - 121936 ---------GTGAACAC-----TG-----------T---GGG-TAAATCA
+q sorAra1.scaffold_256646 ---------99999999-----99-----------9---999-9999999
+i sorAra1.scaffold_256646 I 10 C 0
+s eriEur1.scaffold_363624 22881 13 - 23811 ----------------------TG-----------T---GGG-TAGATCA
+q eriEur1.scaffold_363624 ----------------------99-----------9---999-9999899
+i eriEur1.scaffold_363624 I 10600 C 0
+s canFam2.chr1 78262139 22 - 125616256 --------GATCGGCAC-----CA-----------T---GGG-TAAATCA
+q canFam2.chr1 --------999999999-----99-----------9---999-9999999
+i canFam2.chr1 I 7 C 0
+s equCab1.chr31 13051775 22 + 24938454 --------AACCAGCAC-----TG-----------C---TAG-TAAATTA
+q equCab1.chr31 --------999999999-----99-----------9---999-9999999
+i equCab1.chr31 I 16 C 0
+s bosTau3.chr9 13730532 22 - 95030419 --------GATCAATAC-----TG-----------C---GGG-TAAATCA
+q bosTau3.chr9 --------999999999-----99-----------9---999-9999999
+i bosTau3.chr9 I 16 C 0
+s dasNov1.scaffold_13068 18070 15 + 27231 ----------------------TGGC---------C---GGG-TGGGGTG
+q dasNov1.scaffold_13068 ----------------------9999---------9---999-9999999
+i dasNov1.scaffold_13068 I 14 I 14
+s echTel1.scaffold_324002 44017 24 + 49972 ----------------------TGGTGGGCCAGCGC---AGG-TGAGGCT
+q echTel1.scaffold_324002 ----------------------99999999999999---999-9999999
+i echTel1.scaffold_324002 I 7085 C 0
+s tetNig1.chrUn_random 4077104 13 - 171761319 --------------AAC-----CG-----------C---TGG-TGCA---
+i tetNig1.chrUn_random C 0 C 0
+s fr2.chrUn 207924301 18 - 400509343 --------------GACATTCTTG-----------G---CGG-CTAA---
+i fr2.chrUn n 0 C 0
+s oryLat1.chrUn 11010704 13 - 119265241 --------------GAC-----TG-----------T---TGG-CTAG---
+i oryLat1.chrUn I 8 C 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e loxAfr1.scaffold_4233 64211 1440 + 124190 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-26023.000000
+s mm9.chr10 3191938 33 + 129993255 G-GCA--------------GGA-TTTTGTGG--------GAG-T----TGGGTGA-CTCACTG
+s echTel1.scaffold_324002 44041 24 + 49972 -------------------------TGATGG--------CCA-T----TGTAGGA-GTTGACT
+q echTel1.scaffold_324002 -------------------------999999--------999-9----9999999-9999999
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 65651 33 + 124190 G-GTA--------------GGG-TTTTGTGG--------CCG-T----TGTAGAA-GTTATTT
+q loxAfr1.scaffold_4233 8-897--------------787-99859688--------978-8----5686898-8998999
+i loxAfr1.scaffold_4233 I 1440 C 0
+s dasNov1.scaffold_13068 18099 47 + 27231 G-GTGAGTCCACCCATGGTGGA-TGTTGCCG--------CCA-T----CTTGGGA-GTTATTC
+q dasNov1.scaffold_13068 9-99999999999999999999-99999999--------999-9----9999999-9999999
+i dasNov1.scaffold_13068 I 14 C 0
+s bosTau3.chr9 13730554 33 - 95030419 T-GTA--------------GGG-TTTTGTGG--------CTG-A----CATAGGA-GTTGTTC
+q bosTau3.chr9 9-999--------------999-99999999--------999-9----9999999-9999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13051797 33 + 24938454 C-GTA--------------GGG-TTTTGTGG--------CTG-T----TGTAGGA-GTTATTC
+q equCab1.chr31 9-999--------------999-99999999--------999-9----9999999-9999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78262161 32 - 125616256 T-GGA--------------GGG-TTTTATGG---------TG-T----TGTTAGA-GTTACTC
+q canFam2.chr1 9-999--------------999-99999999---------99-9----9999999-9999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_363624 22894 37 - 23811 T-AGA--------------GGG-TCTTGCGG--------CTA-TTGTAGGGAGTT-AATAATC
+q eriEur1.scaffold_363624 9-999--------------999-79999999--------999-999799999999-9979998
+i eriEur1.scaffold_363624 C 0 C 0
+s sorAra1.scaffold_256646 107595 33 - 121936 T-GGA--------------GGG-CTTTGTGG--------CTG-C----AAGAGGC-GTCCTTC
+q sorAra1.scaffold_256646 9-999--------------999-99999999--------999-9----9999999-9999999
+i sorAra1.scaffold_256646 C 0 C 0
+s cavPor2.scaffold_284118 88321 33 - 169015 G-GCA--------------GGA-tttttttG--------TGG-C----TCATAAA-GTTATTC
+q cavPor2.scaffold_284118 9-999--------------999-99999999--------999-7----9999999-9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396518 35 - 498454 G-GCA--------------GGGTTTTTACAG--------TTGCT----TGAATAA-GTCATTC
+q tupBel1.scaffold_114895.1-498454 9-999--------------999999999999--------99999----9999999-9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351858 33 - 359464 g-gca--------------gga-tgttgggg--------tGG-T----TGTAGGA-GTTACCC
+q otoGar1.scaffold_334.1-359464 9-999--------------999-99999999--------999-9----9999999-9999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 71334 33 - 523245 C-ACA--------------GGG-TTTTGTGG--------TTG-T----TGTAAGA-GTTTTTC
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108503017 33 + 167655696 C-ACA--------------GGG-TTTTGTGG--------TTG-T----TGTAAGA-GTTTTTC
+q rheMac2.chr4 9-999--------------999-99999999--------999-9----9999999-9999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16617848 33 - 173908612 C-ATA--------------GGG-TTTTGTGG--------TTG-T----TGTAAGG-TTTTTTC
+q panTro2.chr6 9-999--------------999-99999999--------999-9----9999999-9999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16094437 34 - 170899992 c-ata--------------ggg-ttttgtgg--------ttg-t----tgtaaggtttttTTC
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_214769 99985 33 - 139458 C-ACC--------------AGG-TTTTGCAC--------AGG-T----TGTAGGA-GTCATTT
+q oryCun1.scaffold_214769 8-699--------------789-89999979--------699-8----9979899-6997799
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230010511 33 - 267910886 G-GCA--------------GAA-TTTTGTGG--------GGG-T----TGGGTGG-TTTACTC
+q rn4.chr1 9-999--------------999-99999999--------999-9----9999999-9999999
+i rn4.chr1 C 0 C 0
+s tetNig1.chrUn_random 4077117 21 - 171761319 C-GCC--------------GGT-GATACTGG--------TCT-C----TA-------------
+i tetNig1.chrUn_random C 0 C 0
+s fr2.chrUn 207924319 29 - 400509343 C-TCA--------------GGT-TGTGTTAGGACCAGAATCA-C----TG-------------
+i fr2.chrUn C 0 C 0
+s oryLat1.chrUn 11010717 30 - 119265241 CTGCA--------------GAT-GTTTCTGAGAATGACAACG-C----TT-------------
+i oryLat1.chrUn C 0 C 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14880271 9402 - 54797317 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-33470.000000
+s mm9.chr10 3191971 13 + 129993255 -----CAGCCTCTCAG---TC
+s rn4.chr1 230010544 15 - 267910886 -----CAGCTACTCAG-GGTC
+q rn4.chr1 -----99999999999-9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100018 16 - 139458 -----ATGTTACTCAGTGGGC
+q oryCun1.scaffold_214769 -----9898998874999999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16094471 16 - 170899992 -----AAGTGACTAACTGGGC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16617881 16 - 173908612 -----AAGTGACTAACTGGGC
+q panTro2.chr6 -----9999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108503050 16 + 167655696 -----AAGTGACTAACTGGGC
+q rheMac2.chr4 -----9999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 71367 16 - 523245 -----AAGTGACTAACTGGGC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351891 16 - 359464 -----AGGTTACTCAGTGGGC
+q otoGar1.scaffold_334.1-359464 -----9999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396553 16 - 498454 -----GAGTTACTTATTGCAC
+q tupBel1.scaffold_114895.1-498454 -----9999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s cavPor2.scaffold_284118 88354 16 - 169015 -----CAGTTACCCAGTGAGC
+q cavPor2.scaffold_284118 -----9989999999999996
+i cavPor2.scaffold_284118 C 0 C 0
+s sorAra1.scaffold_256646 107628 16 - 121936 -----AGGTCACTCTGTGAGC
+q sorAra1.scaffold_256646 -----9999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 22931 16 - 23811 -----AAGTCACTCCCTGGGC
+q eriEur1.scaffold_363624 -----9999979999999999
+i eriEur1.scaffold_363624 C 0 C 0
+s canFam2.chr1 78262193 16 - 125616256 -----AAGTTGCTCGATGGGC
+q canFam2.chr1 -----9999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13051830 16 + 24938454 -----AAGTTGTTTAGTGAGC
+q equCab1.chr31 -----9999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13730587 15 - 95030419 -----AAGTGACTCAGTGGG-
+q bosTau3.chr9 -----999999999999999-
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 18146 16 + 27231 -----AGGGAACCAGTGGGAT
+q dasNov1.scaffold_13068 -----9999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 65684 16 + 124190 -----AAGTTACCAGCGGTCT
+q loxAfr1.scaffold_4233 -----8899979999888899
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 44065 12 + 49972 -----GAGTCTTTGAGG----
+q echTel1.scaffold_324002 -----999999999999----
+i echTel1.scaffold_324002 C 0 I 5
+s ornAna1.chr2 14889673 16 - 54797317 -----CAGCCCCTAAGTAGTT
+i ornAna1.chr2 I 9402 C 0
+s tetNig1.chrUn_random 4077138 11 - 171761319 T--GGCAACGGCA--------
+i tetNig1.chrUn_random C 0 I 3
+s fr2.chrUn 207924348 11 - 400509343 C--CGCTGTGGTT--------
+i fr2.chrUn C 0 I 8
+s oryLat1.chrUn 11010747 13 - 119265241 CCAGGATTTGACC--------
+i oryLat1.chrUn C 0 n 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-92894.000000
+s mm9.chr10 3191984 14 + 129993255 TCCTAAGTCA-----TTCT----------
+s rn4.chr1 230010559 14 - 267910886 TCCCAGGTCA-----TTTT----------
+q rn4.chr1 9999999999-----9999----------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100034 14 - 139458 TTTTGCGTTA-----CTGT----------
+q oryCun1.scaffold_214769 9999997999-----9999----------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16094487 13 - 170899992 TTTTGAGTTA-----TCA-----------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16617897 13 - 173908612 TTTTGAGTTA-----TCA-----------
+q panTro2.chr6 9999999999-----999-----------
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108503066 13 + 167655696 TTTTGTGTTA-----TCA-----------
+q rheMac2.chr4 9999999999-----999-----------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 71383 13 - 523245 TTTTGAGTCA-----TCA-----------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351907 14 - 359464 TTTTGAGTTA-----TTAT----------
+q otoGar1.scaffold_334.1-359464 9999999999-----9999----------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396569 13 - 498454 ATTTG-GTTA-----TTAG----------
+q tupBel1.scaffold_114895.1-498454 99999-9999-----9999----------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s cavPor2.scaffold_284118 88370 14 - 169015 TCATGAGTTA-----CTGG----------
+q cavPor2.scaffold_284118 9999999999-----9988----------
+i cavPor2.scaffold_284118 C 0 C 0
+s sorAra1.scaffold_256646 107644 19 - 121936 GTTTCAGTCACAGGCCGGT----------
+q sorAra1.scaffold_256646 9999999999999999999----------
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 22947 14 - 23811 TTTTGTGTTA-----TTCT----------
+q eriEur1.scaffold_363624 9999979799-----7999----------
+i eriEur1.scaffold_363624 C 0 C 0
+s canFam2.chr1 78262209 14 - 125616256 TTTTGAGTGA-----TTAT----------
+q canFam2.chr1 9999999999-----9999----------
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13051846 14 + 24938454 TGTTGAGTTA-----TTAT----------
+q equCab1.chr31 9999999999-----9999----------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13730602 14 - 95030419 TTTTGAGTTA-----TTAT----------
+q bosTau3.chr9 9999999999-----9999----------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 18162 3 + 27231 GTG--------------------------
+q dasNov1.scaffold_13068 999--------------------------
+i dasNov1.scaffold_13068 C 0 I 1
+s loxAfr1.scaffold_4233 65700 3 + 124190 CTG--------------------------
+q loxAfr1.scaffold_4233 867--------------------------
+i loxAfr1.scaffold_4233 C 0 I 6
+s ornAna1.chr2 14889689 5 - 54797317 ACAGG------------------------
+i ornAna1.chr2 C 0 C 0
+s oryLat1.chr22 12878267 14 - 28810691 ---------------TCCTAAATTTTTCT
+q oryLat1.chr22 ---------------99999999999999
+i oryLat1.chr22 I 3946 C 0
+s fr2.chrUn 207924367 4 - 400509343 -------------------------TCCT
+i fr2.chrUn I 8 C 0
+s tetNig1.chrUn_random 4077152 2 - 171761319 ---------------------------CT
+i tetNig1.chrUn_random I 3 C 0
+e gasAcu1.chrXV 12513190 1761 - 16198764 I
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e danRer5.chr21 16460051 4777 + 46057314 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e echTel1.scaffold_324002 44077 5 + 49972 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-158335.000000
+s mm9.chr10 3191998 17 + 129993255 GAG---TTTA--------GGCAGTGGTG-------
+s rn4.chr1 230010573 9 - 267910886 GAG-------------------ACGTTG-------
+q rn4.chr1 999-------------------999999-------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100048 17 - 139458 GAC---TTTG--------GCCATTGTTG-------
+q oryCun1.scaffold_214769 999---7999--------9786999799-------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16094500 19 - 170899992 GAGAG-TTTG--------AATATTGGTG-------
+i hg18.chr6 C 0 I 318
+s panTro2.chr6 16617910 19 - 173908612 GAGAG-TTTG--------AATATTGGTG-------
+q panTro2.chr6 89999-9999--------9999999999-------
+i panTro2.chr6 C 0 I 318
+s rheMac2.chr4 108503079 27 + 167655696 GAGAG-TTTGAATATTGTTTTTTGTTTG-------
+q rheMac2.chr4 99999-9999999999999999999999-------
+i rheMac2.chr4 C 0 I 290
+s calJac1.Contig1260 71396 19 - 523245 GAGAG-TTTG--------GATATTGTTA-------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351921 19 - 359464 GAGAA-TTTG--------GACATTGTGG-------
+q otoGar1.scaffold_334.1-359464 99999-9999--------9999999999-------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396582 19 - 498454 GAAAG-TTTA--------GATATCATTG-------
+q tupBel1.scaffold_114895.1-498454 99999-9999--------9999999999-------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s cavPor2.scaffold_284118 88384 19 - 169015 GAGAG-TTCA--------GAACTTGTTG-------
+q cavPor2.scaffold_284118 99999-9999--------9999999999-------
+i cavPor2.scaffold_284118 C 0 C 0
+s sorAra1.scaffold_256646 107663 16 - 121936 AAGGG-CT-----------GTATTGGTG-------
+q sorAra1.scaffold_256646 99999-99-----------999999999-------
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_363624 22961 19 - 23811 GAGAG-TTTA--------GATGCTGCTG-------
+q eriEur1.scaffold_363624 99998-8999--------8999979799-------
+i eriEur1.scaffold_363624 C 0 C 0
+s canFam2.chr1 78262223 19 - 125616256 AAGAG-TTTG--------GACATTGTTG-------
+q canFam2.chr1 99999-9999--------9999999999-------
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13051860 19 + 24938454 GAGAG-TCTG--------AACATTGTTG-------
+q equCab1.chr31 99999-9999--------9999999999-------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13730616 19 - 95030419 GAGAG-TTTG--------GACATTGTTG-------
+q bosTau3.chr9 99999-9999--------9999999999-------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 18166 17 + 27231 --GAG-ATGG--------GACGTTGTGG-------
+q dasNov1.scaffold_13068 --999-9999--------9999999999-------
+i dasNov1.scaffold_13068 I 1 C 0
+s loxAfr1.scaffold_4233 65709 18 + 124190 --GAGTTTTG--------GATATTGCCG-------
+q loxAfr1.scaffold_4233 --89999858--------8899989978-------
+i loxAfr1.scaffold_4233 I 6 C 0
+s echTel1.scaffold_324002 44082 18 + 49972 --GAGTTTGG--------GATATTGCCA-------
+q echTel1.scaffold_324002 --99999999--------9999999999-------
+i echTel1.scaffold_324002 I 5 C 0
+s ornAna1.chr2 14889694 11 - 54797317 --GAG-ATTA--------GCTT-------------
+i ornAna1.chr2 C 0 C 0
+s oryLat1.chr22 12878281 11 - 28810691 -----------------------GATCT-ATAATT
+q oryLat1.chr22 -----------------------99999-999999
+i oryLat1.chr22 C 0 C 0
+s fr2.chrUn 207924371 12 - 400509343 -----------------------CACTGATTGGCT
+i fr2.chrUn C 0 C 0
+s danRer5.chr21 16464828 2 + 46057314 ---------------------------------CT
+i danRer5.chr21 I 4777 C 0
+s gasAcu1.chrXV 12514951 7 - 16198764 ----------------------------AACGGCT
+q gasAcu1.chrXV ----------------------------9999999
+i gasAcu1.chrXV I 1761 C 0
+s tetNig1.chrUn_random 4077154 12 - 171761319 -----------------------GAGCGACCGGCC
+i tetNig1.chrUn_random C 0 C 0
+e xenTro2.scaffold_2 3898285 7414 + 7803671 I
+e anoCar1.scaffold_0 8788305 4960 + 16654889 I
+e galGal3.chr3 61568997 6480 - 113657789 I
+e monDom4.chr2 106223583 15041 - 541556283 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ponAbe2.chr6 16404600 2661 - 174210431 I
+
+a score=-268007.000000
+s mm9.chr10 3192015 23 + 129993255 ---------------GTAGTTTTGC-A--CTTTTCTC--TCTG
+s echTel1.scaffold_324002 44100 20 + 49972 ---------------ATTGTCCCAA-A--ATGTCCTT---T--
+q echTel1.scaffold_324002 ---------------9999999999-9--99999999---9--
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 65727 22 + 124190 ---------------ATTGCTTTGA-G--TTTTTCTC---TTT
+q loxAfr1.scaffold_4233 ---------------9999999999-9--99999999---999
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 18183 22 + 27231 ---------------ATGGTTTGGG-A--TGTGTCCT---TTT
+q dasNov1.scaffold_13068 ---------------9999999999-9--99999999---999
+i dasNov1.scaffold_13068 C 0 C 0
+s bosTau3.chr9 13730635 22 - 95030419 ---------------ATTGTTTTGA-A--TTTTTCCC---TTT
+q bosTau3.chr9 ---------------9999999999-9--99999999---999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13051879 22 + 24938454 ---------------TCAGTTTTGA-G--TTTTTCCC---TTT
+q equCab1.chr31 ---------------9999999999-9--99999999---999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78262242 23 - 125616256 ---------------ATTGTTTTGATT--TTTTTCCC---TTT
+q canFam2.chr1 ---------------999999999999--99999999---999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_363624 22980 23 - 23811 ---------------ATGGTTTTGAAT--TCCTCCCT---GTT
+q eriEur1.scaffold_363624 ---------------989969999988--99979997---968
+i eriEur1.scaffold_363624 C 0 C 0
+s sorAra1.scaffold_256646 107679 21 - 121936 ---------------A--GCTTTGACT--TTTGACCC---TTT
+q sorAra1.scaffold_256646 ---------------9--999999999--99999999---999
+i sorAra1.scaffold_256646 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396601 22 - 498454 ---------------ATTATTTAAA-A--TTTTTCCC---TTC
+q tupBel1.scaffold_114895.1-498454 ---------------9999999999-9--99999999---999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 351940 22 - 359464 ---------------ATGGTTTTGA-A--TTTTTCCC---TTT
+q otoGar1.scaffold_334.1-359464 ---------------9999999999-9--99999999---999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 71415 22 - 523245 ---------------ATTGTTTTGA-A--TTTTTCCC---TTT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108503396 23 + 167655696 ---------------ATTGTTTTGA-AT-TTTTTCCC---TTT
+q rheMac2.chr4 ---------------9999999999-99-99999999---999
+i rheMac2.chr4 I 290 C 0
+s ponAbe2.chr6 16407261 19 - 174210431 ------------------GTTTTGA-A--TTTTTCTC---TTT
+i ponAbe2.chr6 I 2661 C 0
+s hg18.chr6 16094837 22 - 170899992 ---------------ATTGTTTTGA-A--TTTTTCTC---TTT
+i hg18.chr6 I 318 C 0
+s panTro2.chr6 16618247 22 - 173908612 ---------------ATTGTTTTGA-A--TTTTTCTC---TTT
+q panTro2.chr6 ---------------9999999999-9--99999999---999
+i panTro2.chr6 I 318 C 0
+s oryCun1.scaffold_214769 100065 22 - 139458 ---------------ATTATTCTTA-A---TTTTCCC--TCTT
+q oryCun1.scaffold_214769 ---------------9589996699-9---8998787--9978
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 88403 19 - 169015 ---------------ATTGTTTTGA-A--TTCTTCCC------
+q cavPor2.scaffold_284118 ---------------9999999999-9--99999999------
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230010582 23 - 267910886 ---------------ATAGTTTCGA-A--TTTTTCTC--TCTT
+q rn4.chr1 ---------------9999999999-9--99999999--9999
+i rn4.chr1 C 0 C 0
+s monDom4.chr2 106238624 20 - 541556283 --------------------TTTGC-C--TTTTTTTTGGTTTT
+q monDom4.chr2 --------------------99999-9--99999999999999
+i monDom4.chr2 I 15041 C 0
+s ornAna1.chr2 14889705 16 - 54797317 ---------------------GTGA-A--TTTGTCCA---TTA
+i ornAna1.chr2 C 0 C 0
+s xenTro2.scaffold_2 3905699 13 + 7803671 ---------------------------ACTTTTTAAT---TTC
+i xenTro2.scaffold_2 I 7414 C 0
+s anoCar1.scaffold_0 8793265 1 + 16654889 ------------------------------------------T
+q anoCar1.scaffold_0 ------------------------------------------9
+i anoCar1.scaffold_0 I 4960 C 0
+s oryLat1.chr22 12878292 13 - 28810691 AT----------Tttcatgtctt--------------------
+q oryLat1.chr22 99----------99999999999--------------------
+i oryLat1.chr22 C 0 I 3
+s fr2.chrUn 207924383 6 - 400509343 GC-----------------TCTG--------------------
+i fr2.chrUn C 0 n 0
+s danRer5.chr21 16464830 23 + 46057314 GTGCTTACACAATGTTCTTTCTT--------------------
+i danRer5.chr21 C 0 I 17
+s gasAcu1.chrXV 12514958 13 - 16198764 GT----------AATTTTGCCTT--------------------
+q gasAcu1.chrXV 99----------99999999999--------------------
+i gasAcu1.chrXV C 0 I 3
+s tetNig1.chrUn_random 4077166 23 - 171761319 GCAGGAGAGCAGGGTCAGGTCTT--------------------
+i tetNig1.chrUn_random C 0 n 0
+e galGal3.chr3 61568997 6480 - 113657789 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+
+a score=4572222.000000
+s mm9.chr10 3192038 232 + 129993255 GAA---TT-------TA-TT-TC---------C-------TGCAGAATTATGGCCTTGAAACTGATACTATGAAGAACTTGGTTCTGAAACTGCGGGCATCTTCCCACAACTTGCAGAATTACATCAGTAGCCGCCGGAAGAGTCCAGCCTACGATGGGAATACGTCCCGTAAGCCCCCCAACGAGTTCCTGACTTCTGTGGTGGAACTCATTGGTGCTGCCAAGGCCCTGCTGGCTTGGCTGGACCGGTAA---------G------------------CTG-TG--G--G
+s echTel1.scaffold_324002 44120 231 + 49972 -CT---TT-------TA-TT-TT---------C-------TGCAGAATTATGGCCTTGAGACAGATAATATGAAGAACTTGGTTCTGAAACTGCAAGCGTCTTCCCGAAACCTACAGAATTACATAAGTAGCCGGCGGAAAAGCCCCACTTACAATGGGAACACCTCGAGCAAGCCTGCCAATGAGTTCCTGACCTCCGTGGTGGAGCTCATCGGTGCTGCAAAGGCCTTGCTAGCGTGGCTGGACCGGTGA---------G------------------TCA-GGAG----
+q echTel1.scaffold_324002 -99---99-------99-99-99---------9-------99999999999999999999999999999979999999999999979999999999998999999999999999999999999999999999999999999999999999998699999999999999999999999999999979989999999999999999999999999999999999999999999999999999999999999999---------9------------------999-9999----
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 65749 232 + 124190 GTT---TT-------TA-TT-TT---------C-------TGCAGAATTATGGTCTTGAGACAGATAATATGAAGAACTTGGTTCTGAAACTTCGAGCTGCTTCTCACAATTTACAGAATTACGTAAGTAGCCGTCGGAAAAGTCCAGCTTATGATGGGAACACCTCATGCAAGCCTCCCAATGAGTTTCTGACCTCTGTGGTGGAGCTGATCGGCGCTGCAAAGGCCTTGCTAGCTTGGCTGGATCGGTGA---------G------------------TTA-AGGG----
+q loxAfr1.scaffold_4233 999---99-------99-99-99---------9-------99989999999999998999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-9999----
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 18205 230 + 27231 GCT---TT-------GC-TT-TT---------C-------CACAGAACTACGGCCTCGAAACAGATAACATGAAGAACTTGGTTATGAAGCTGCGTGCTTCTTCCCACAACTTGCAGAACTACATAAGCAGCCGACGGAAGAGTCCAGCGTATGATGGGAGCACGTCACACAAGCCCCCCAATGAGTTCCTGACGTCTGTGGTGGAGCTCATCGGGGCTGCGAAGTCCTTGTTGGCTTGGCTGGACAGGTAA---------G------------------TCG-CG------
+q dasNov1.scaffold_13068 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99------
+i dasNov1.scaffold_13068 C 0 I 91
+s bosTau3.chr9 13730657 229 - 95030419 GAT---TT-------TG-TT-TT---------C---------CAGAATTATGGCCTTGAAACTGACAATATGAAGAACTTGGTTTTGAAACTGCGAGCGTCCTCCCACAATTTACAGAATTACATAAGCAGCAGGAGGAAAAGTCCAGCTTATGATGGGAACACCTCCCACAAGCCCCCCAATGAGTTCCTGACTTCTGTGGTGGAGCTCATAGGTGCTGCCAAGGCCTTGTTAGCTTGGCTAGACAGGTAA---------G------------------TGA-TG----G-
+q bosTau3.chr9 999---99-------99-99-99---------9---------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99----9-
+i bosTau3.chr9 C 0 I 8
+s equCab1.chr31 13051901 232 + 24938454 GAT---TT-------TA-TT-TT---------C-------CACAGAATTATGGCCTTGAAACTGATAACATGAAGAACTTGGTTCTGAAGCTGCGTGCGTCTTGCCACAACTTACAGAATTACATAAGTAGTCGGCGGAAGAGTCCAGCTTATGATGGGAACACCTCCCACAAGCCCCCCAATGAGTTCCTGACTTCTGTGGTGGAGCTCATAGGCGCTGCCAAGGCCTTGTTAGCTTGGCTGGACCGGTGA---------G------------------TCA-TG---GG-
+q equCab1.chr31 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99---99-
+i equCab1.chr31 C 0 I 8
+s canFam2.chr1 78262265 233 - 125616256 GAT---CT-------TATTT-TT---------C-------CACAGAATTATGGCCTGGAAACCGATAATATGAAGAACTTAGTTCTGAAACTGCGGGCATCTTCCCACAACTTACAAAATTACATTAGTAGCCGGCGGAAAAGTCCGGCTTATGATGGAAACACTTCCCATAAGCCCCCCAATGAGTTCCTGACTTCCGTGGTGGAGCTAATAGGTGCGGCCAAGGCCTTATTAGCTTGGCTGGACAGGTAA---------G------------------TGA-CG---CC-
+q canFam2.chr1 999---99-------99999-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99---99-
+i canFam2.chr1 C 0 I 8
+s eriEur1.scaffold_363624 23003 232 - 23811 GGT---TT-------TA-TT-TC---------C-------CACAGAACTATGGCCTTGAGACCGATAACATGAAGAACTTGGTTCTGAAGCTCCGAGCCTCTTCCCACAACTTGCAGAATTACACAAGCAGCCGGCGGAAGAGCCCAGCTTACGACGGGAACACATCCCGCAAGCCCCCCAATGAGTTCCTGACTTCCGTGGTGGAGCTCATCGGCGCTGCCAAGGCCTTGCTGGCGTGGCTGGACCGGTAA---------G------------------TGA-TG---GG-
+q eriEur1.scaffold_363624 996---99-------98-99-97---------9-------95988997989994869998979897999699897996999779969888898969889886868979686899766967979587889766957459898959986876565696497669795879768697699997867665656866656656656965677689686666365569695645756557657666666966855764---------2------------------466-57---76-
+i eriEur1.scaffold_363624 C 0 I 3
+s sorAra1.scaffold_256646 107700 233 - 121936 GAT---AT-------TG-TTCCC---------C-------CACAGAACTATGGCCTTGAGACTGATAATATGAAGAACTTGGTCCTCAAGCTTCGAGCCTCTTCCCACAACTTGCAGAATTACATAAGTAGCCGGCGCAAAAGCCCCGCGTACGATGGGGGCACCTCCCACAAGCCCCCCAACGAGTTCCTCACTTCCGTGGTCGAGCTCATTGGCGCGGCCAAGGCCTTGCTGGCGTGGCTGGACCGGTAA---------G------------------TTC-TG---GG-
+q sorAra1.scaffold_256646 999---99-------99-99999---------9-------99999999999999999999999999999999999999999999999999999999999999989999999999999999999999999999999999999999999999999999999999999999999999999999799999999999899999999999699999699999897999599999899999999999999999999999---------9------------------999-99---99-
+i sorAra1.scaffold_256646 C 0 I 801
+s tupBel1.scaffold_114895.1-498454 396623 229 - 498454 GAT---GT-------TA-TG-TT---------C-------CACAGAATTATGGTCTTGAAACGGATAACATGAAGAACTTGGTTCTGAAATTGCGAGCGTCTTCCCACAATTTACAGAACTACATCGGTAGCCGGCGGAAAAGTCCAGCGTATGATGGGAGCACCTCCCGCAAGCCTCACAATGAGTTCCTGACTTCTGTGGTGGAGCTCATTGGTGCTGCCAAGGCCTTGCTGGCTTGGCTGGACCGGTAA---------G------------------TTG-T-------
+q tupBel1.scaffold_114895.1-498454 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999979999999999999999999999999999999999999999999999999999899999999999999799998997978899999997998999999999999999999979999999979988999899967799987989869998699557795859753988899---------7------------------788-9-------
+i tupBel1.scaffold_114895.1-498454 C 0 I 11
+s otoGar1.scaffold_334.1-359464 351962 231 - 359464 GAT---TT-------TA-TT-TT---------G-------CATAGAATTATGGCCTTGAAACTGATAATATGAAGAACTTGGTTCTGAAGCTGCGAGCTTCTTCCCACAATTTACAGAATTATATAAGTAGCCGGCGGAAAAATCCAGCTTACGATGGGAACACTTCCCATAAGCCCCCCAACGAGTTCCTGACATCCGTAGTGGAGCTCATCGGTGCTGCTAAGGCTTTGCTGGCGTGGCTGGACCGGTGA---------G------------------TTGTGG------
+q otoGar1.scaffold_334.1-359464 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999999------
+i otoGar1.scaffold_334.1-359464 C 0 I 536
+s calJac1.Contig1260 71437 228 - 523245 GAT---TT-------TA-TT-TT---------C-------CACAGAATTATGGCCTTGAAACTGATAATATGAAGAACTTGGTTCTGAAACTGAGAGCATCTTCTCACAATTTACACAATTATATAAGTAGCCGGCGGAAATGTCCTGCTTATGATGGAAACACCTCCCGCAAGCCCCCCAATGAGTTCCTGACATCGGTGGTGGAGCTCATTGGCGCCGCCAAGGCCCTGCTAGCGTGGTTGGACCGGTAA---------G------------------GTG---------
+i calJac1.Contig1260 C 0 I 97
+s rheMac2.chr4 108503419 230 + 167655696 GAT---TT-------TA-TT-TT---------C-------CACAGAATTATGGCCTTGAAACTGATAACATGAAGAACTTGGTTCTGAAACTGAGAGCATCCTCCCACAATTTACAGAATTACATAAGTAGCCGGCGGAAAAGTCCCGCTTACGATGGAAACACCTCCCGCAAGGCCCCCAATGAGTTCCTGACCTCTGTGGTGGAGCTCATCGGCGCCGCCAAGGCCCTGCTGGCCTGGCTGGACCGGTAA---------G------------------TTG-GA------
+q rheMac2.chr4 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99------
+i rheMac2.chr4 C 0 I 10
+s ponAbe2.chr6 16407280 230 - 174210431 GAT---TT-------TA-TT-TT---------C-------CACAGAATTATGGCCTCGAAACCGATAATATGAAGAACTTGGTTCTGAAACTGAGAGCATCTTCCCACAATTTACAGAATTACATAAGTAGCCGGCGGAAAAGTCCTGCTTACGATGGCAACACCTCCCGCAAGGCCCCCAATGAGTTCCTGACCTCCGTGGTGGAGCTCATCGGCGCTGCCAAGGCCCTGCTGGCGTGGCTGGACCGGTAA---------G------------------TTG-GA------
+i ponAbe2.chr6 C 0 I 10
+s hg18.chr6 16094859 230 - 170899992 GAT---TT-------TA-TT-TT---------C-------CACAGAATTATGGCCTCGAAACTGATAACATGAAGAACTTGGTTCTGAAACTGAGAGCATCTTCCCACAATTTACAGAATTACATAAGTAGCCGACGGAAAAGTCCCGCTTACGATGGCAACACCTCCCGCAAGGCCCCCAATGAGTTCCTGACCTCGGTGGTGGAGCTCATCGGCGCCGCCAAGGCCCTGCTGGCGTGGCTGGACCGGTAA---------G------------------TTG-GA------
+i hg18.chr6 C 0 I 10
+s panTro2.chr6 16618269 230 - 173908612 GAT---TT-------TA-TT-TT---------C-------CACAGAATTATGGCCTCGAAACTGATAATATGAAGAACTTGGTTCTGAAACTGAGAGCATCTTCCCACAATTTACAGAATTACATAAGTAGCCGACGGAAAAGTCCCGCTTACGATGGCAACACCTCCCGCAAGGCCCCCAATGAGTTCCTGACCTCTGTGGTGGAGCTCATCGGCGCCGCCAAGGCCCTGCTGGCGTGGCTGGACCGGTAA---------G------------------TTG-GA------
+q panTro2.chr6 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99------
+i panTro2.chr6 C 0 I 10
+s oryCun1.scaffold_214769 100087 247 - 139458 GCT---TC-------TA-TT-TT---------C-------TGCAGAATTATGGCCTTGAAACTGATAATATGAAGAACCTGGTTTTGAAGCTGCGAGCGTCGTCCCACAACTTACAGAACTACATAAGTAGCCGGCGGAAAAGCTCTGTGTACGATGGGAACACATCGCGCAAGCCCCCCAATGAGTTCCTGACCTCAGTGGTGGAGCTCATCGGGGCTGCGAAGGCCCTGCTGGCTTGGCTGGACCGGTGA---------GTGGCAGGGGCACCTCTTCCTG-T-------
+q oryCun1.scaffold_214769 976---98-------79-99-97---------7-------66757975786993969999956976897665947968758869997896666757775764779969586876966866768676766659777565899765995976756894886999896979879696999999898997989777896999978857699799896777898989898789689967999799758699989689---------9778998578989899999989-9-------
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 88422 218 - 169015 ------------------TT-TC---------C-------TACAGAATTATGGCCTTGAAACTGATAATATGAAGAATTTGGTTTTGAAGCTACGGGCATCTTCCAACAATTTACAGAATCACATAAGCAGCCGGCGGAAGAGTCCAGCTTATGATGGGAACACATCCCACAAGCCACCCAATGAGCTGCTAACGTCGGTGGTGGAGCTCATAGGCGCTGCCAAGGCTTTGCTGGCTTGGCTGGACCGGTAA---------G------------------------------
+q cavPor2.scaffold_284118 ------------------99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999996999999999999999999999999999999999999999977356645649999999---------9------------------------------
+i cavPor2.scaffold_284118 C 0 M 21828
+s rn4.chr1 230010605 232 - 267910886 GAA---TC-------TA-TT-TC---------C-------CGCAGAATTATGGCCTTGAAACTGATAACATGAAGAACTTGGTTCTGAAGCTGCGGGCATCCTCCCATAATCTGCAGAATTACATAAGTAGCCGGCGGAAGAGCCCAGCCTACGATGGGAACACGTCCCGCAAGCCCCCCAATGAGTTCCTGACTTCTGTGGTAGAGCTCATTGGTGCTGCCAAGGCCCTGCTGGCTTGGCTGGATCGGTAA---------G------------------CTG-TG--C--T
+q rn4.chr1 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------999-99--9--9
+i rn4.chr1 C 0 C 0
+s monDom4.chr2 106238644 227 - 541556283 GTT---TT-------GT-TT-TC---------T-------CACAGAATTATGGCCTTGAAACAGATAATATGAAGAATTTGGTTCTGAAACTACGGGCCTCTTCCAATAACTTACAGAATTATATCAGCAGTAGGCGGAAAAGTGCATCTTACGATGGAAATTCTTCACGTAAACCTCCCAATGAATTCCTGACCTCTGTGGTGGAGCTCATTGGTGCTGCTAAAGCTTTGTTAGCCTGGCTTGATAGGTAA---------G------------------TT----------
+q monDom4.chr2 999---99-------99-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9------------------99----------
+i monDom4.chr2 C 0 I 553
+s ornAna1.chr2 14889721 235 - 54797317 ATT---TT-------CA-CA-TT---------CCTTCCCTCCCAGAACTATGGTCTTGAGACGGACAATATGAAGAACTTAGTTCTGAAACTGAGGGCCTGTTCCAACAACTTACAGAACTACATCAGCAGCCGAAGAAAAAGTTCTGTTTACGATGGCAACTCATCTCGTAAGCCTCCCAACGAGTTTCTGACATCTGTCGTGGAGCTCATTGGGGCTGCTAAGGCATTGCTTGCCTGGCTGGACAGGTAG---------G------------------TTG---------
+i ornAna1.chr2 C 0 I 3
+s xenTro2.scaffold_2 3905712 227 + 7803671 ATT---AT-------TA-CT-TT---------C-----ATTTCAGAATTATGGTCTGGAAATGGACAGCATGAAAAATACTGTGCTAAAACTGAGATCATCATCTAACAATCTTCAGAATTATATTGGCAATCAGAAGAAAAGTGCATCTTATGATAGCAATACATCTCACAAGCCCCACAATGATTTTCTCACCTCTGCTGTAGAACTCATTGGCTCTGCAAAAGCTTTATTAACATGTCTTGAAAGGTAA---------G------------------------------
+i xenTro2.scaffold_2 C 0 I 914
+s anoCar1.scaffold_0 8793266 237 + 16654889 CAC---TTAAACAGTTT-TT-CT---------C-------TACAGAATTATGGCCTTGAAACAGACAACATGAAGAATTTGGTTCTGAAGTTACGAGCGTCTTCCAACAATCTGCAAAACTACATTGGTAGCCGGAGAAAAAGTTCAAATTACGATGGAAATACCTCACGCAAACCACCGAATGAATTTCTTACCTCAGTAGTAGAACTCATTGGTGCTGCCAAAACTTTACTGACATGGCTGGACAGGTAT---------G--------------ACAAT-----------
+q anoCar1.scaffold_0 999---99999999999-99-99---------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------9--------------99999-----------
+i anoCar1.scaffold_0 C 0 I 4
+s galGal3.chr3 61575477 220 - 113657789 ---------------TA-TT-TT---------T-------TGCAGAACTATGGTCTTGAAACAGACAATATGAAGAACTTGGTTCTCAAGCTGCGCGCGTCATCCAACAACCTGCAAAATTACATCTGTACCCGTAGGAAAAGCTCTAATTATGATGGGAATACTTCACGCAAGCCCCCCAATGAATTCCTTACTTCTGTGGTAGAGCTTATTGGTGCTGCTAAGGCCCTGCTTGCATGGTTGGACAGGTAA---------G------------------------------
+i galGal3.chr3 I 6480 I 1294
+s fr2.chrUn 66173882 224 + 400509343 GAA---TC-------TG-AT-CA---------T-------TTCAGAACTACGGGGTGGAGACGGACAACTTGAAAAGTCTCGTTGTCAGAATGAGAGCGGCCACCAACAATCTCCAAAAGGCCATCTCGGAGCGCAGGAGCAGCCCGACGTACGACGGCAGCACCTCGCGCAAGCCACCCAATGACTTCCTTACCTCAGTGGTGGATCTGATCGGCGCTGCGAAGAGCCTGCTGGCGTGGCTAGACAGGTAA----------------------------------------
+i fr2.chrUn I 2807 I 612
+s tetNig1.chr10 10160614 221 - 12859810 -AA---TC-------TG-AT-CA---------T-------TTCAGAACTATGGGGTGGAGACGGACAACTTGAAAGGGCTGGTGGTCAGGATGAGGGCAGCCACCAGTAATCTGCAGAAGGCCATCTCTGAGCGCAGGGCGAGCCCCACGTACGACGGCGGCACCTCGCGCAA-CCGCCCAACGACTTCCTCACCTCCGTGGTGGAGCTCATCGGCGCTGCGAAGAGCCTGCTGGCGTGGCTGGACAGGTA-----------------------------------------
+i tetNig1.chr10 I 3865 I 319
+s oryLat1.chr22 12878308 234 - 28810691 aaaaactt-------ta-tt------------t-------ttcagaacTATGGGTTGGAAACCGACAACTTGAGGAGTCTGGTTGCAAGGATGAGGGCTGCGACCAACAGTCTGTACACGGCTACAGCAGATCGCAGGAAAAGTCCAGAGTATGATGGAACCATTTCTCGAAAGCCACCCAATGACTTCCTTACCATGGTGGTGGAGCTGATCGGCGTAGCAAAAAGCCTCCTGGCATGGCTCGACAGGTAATGACGCTGG-------------------------------
+q oryLat1.chr22 99999999-------99-99------------9-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------------------------
+i oryLat1.chr22 I 3 I 13
+s gasAcu1.chrXV 12514974 237 - 16198764 TCA---TG-------TA-TT-CACTTCCCCGCT-------TTCAGAACCATGGGGTCGAGACGGACAACTTGAAGAGTCTGGTGGTGAGGATGAGAGCCGCCGGCAACAGTCTCCACGCGGCCACGTCGGACCGCAGGAAAAGCCCCGTGTACGACGGCAGCATCTCGCGCAAGCCGCCCAACGACTTCCTCACCTCCGTGGTCGAGCTGATCGGCGCCGCCAAGAGCCTCCTGGCGTGGCTTGACAGGTGATTTG------------------------------------
+q gasAcu1.chrXV 999---99-------99-99-999999999999-------999999999999899999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------------------------------
+i gasAcu1.chrXV I 3 I 451
+s danRer5.chr21 16464870 232 + 46057314 AAA---TG-------TG-CC-TCTCTT-----C-------TTCAGAACTATGGATTAGAGACGGAAAACCTGAAGACTTTGACCCATAAGCTGAACGCCTCAGCCAAGAACCTACAGAACTTCATAACAGGCCGGCGGAGGGGTGGACACTATGATGGCAGAGCCACCCGAAAACTTCCTAATGACTTCCTGACTTCTGTCGTGGACCTCATCGCTGCCGCCAAGAGCCTGCTGGCATGGCTGGATAGGTTAGTCT------------------------------------
+i danRer5.chr21 I 17 I 7652
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+
+a score=-146023.000000
+s mm9.chr10 3192270 22 + 129993255 ACAATGCAGCC----------------------T------------------GGGGCACAT------G
+s rn4.chr1 230010837 28 - 267910886 TTAATGCAGCC----------------------T------------------GGGGCAGGGCACACGG
+q rn4.chr1 99999999999----------------------9------------------9999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16618509 22 - 173908612 TTGCTGC--CC----------------------T------------------GCAAGAGTAGA----T
+q panTro2.chr6 9999999--99----------------------9------------------99999999999----9
+i panTro2.chr6 I 10 C 0
+s hg18.chr6 16095099 22 - 170899992 TTACTGC--CC----------------------T------------------GCAAGAGTAGA----T
+i hg18.chr6 I 10 C 0
+s ponAbe2.chr6 16407520 22 - 174210431 TTACTGC--CC----------------------T------------------ACAAGAGTAGA----T
+i ponAbe2.chr6 I 10 C 0
+s rheMac2.chr4 108503659 18 + 167655696 TCACTGC--CC----------------------T------------------GCAAGAG--------T
+q rheMac2.chr4 9999999--99----------------------9------------------9999999--------9
+i rheMac2.chr4 I 10 C 0
+s tupBel1.scaffold_114895.1-498454 396863 17 - 498454 TTA-TGT--GA----------------------T------------------ACATGAG--------T
+q tupBel1.scaffold_114895.1-498454 989-898--98----------------------8------------------6998997--------9
+i tupBel1.scaffold_114895.1-498454 I 11 C 0
+s eriEur1.scaffold_363624 23238 16 - 23811 --GCTTT--CC----------------------T------------------GCCGGTG--------A
+q eriEur1.scaffold_363624 --54486--56----------------------3------------------5457667--------8
+i eriEur1.scaffold_363624 I 3 C 0
+s canFam2.chr1 78262506 16 - 125616256 --ACTGT--CC----------------------A------------------ATCAGTG--------G
+q canFam2.chr1 --99999--99----------------------9------------------9999999--------9
+i canFam2.chr1 I 8 C 0
+s equCab1.chr31 13052141 16 + 24938454 --ACTGT--GC----------------------T------------------GTAAAAG--------G
+q equCab1.chr31 --99999--99----------------------9------------------9999999--------9
+i equCab1.chr31 I 8 C 0
+s bosTau3.chr9 13730894 16 - 95030419 --ACTGT--CC----------------------T------------------GTGAAAG--------G
+q bosTau3.chr9 --99999--99----------------------9------------------9999999--------9
+i bosTau3.chr9 I 8 C 0
+s ornAna1.chr2 14889959 34 - 54797317 TGGCCGC--CC----------------------TTGATTTGTTTATTAAATAGAGATA----------
+i ornAna1.chr2 I 3 C 0
+s anoCar1.scaffold_0 8793507 18 + 16654889 TTCatgc--aa----------------------t------------------aaaacaga--------
+q anoCar1.scaffold_0 9999999--99----------------------9------------------99999999--------
+i anoCar1.scaffold_0 I 4 C 0
+s oryLat1.chr22 12878555 14 - 28810691 --------------------------------------------GTTTAAGAATCAGA----------
+q oryLat1.chr22 --------------------------------------------99999999999999----------
+i oryLat1.chr22 I 13 C 0
+s echTel1.scaffold_324002 44351 24 + 49972 ---------CCAGCCTCCCTTGGCTCTCCAAGT-----------------------------------
+q echTel1.scaffold_324002 ---------999999999999888999988999-----------------------------------
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 65981 2 + 124190 ---------CC---------------------------------------------------------
+q loxAfr1.scaffold_4233 ---------99---------------------------------------------------------
+i loxAfr1.scaffold_4233 C 0 I 22
+s oryCun1.scaffold_214769 100334 11 - 139458 ---------CC----------------------T------------------GCAGCAG--------G
+q oryCun1.scaffold_214769 ---------96----------------------8------------------8999978--------8
+i oryCun1.scaffold_214769 C 0 C 0
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18435 91 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e calJac1.Contig1260 71665 97 - 523245 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352193 536 - 359464 I
+
+a score=-26195.000000
+s mm9.chr10 3192292 40 + 129993255 AG-GGCCTAGAATGCTCAGCA--GCCTT--AAGTTTGCCTCAGGA
+s rn4.chr1 230010865 40 - 267910886 AG-GGCCTGGGTCGCTCAGCA--GCCTC--AACCTTGCCTCAGGA
+q rn4.chr1 99-999999999999999999--99999--999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100345 39 - 139458 AG-GCACTGGGATGCAGGGAA--GTCT---GTTCTGTTCTTAGGA
+q oryCun1.scaffold_214769 79-899988789799987899--9999---999989999997889
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16618531 39 - 173908612 AG-AGTCCAAACTGCATGGAA--GC-TG--TACTTTGTCTTAGGA
+q panTro2.chr6 99-999999999999999999--99-99--999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16095121 39 - 170899992 AG-AGTCCAAGCTGCATGGAA--GC-TG--TACTTTGTCTTAGGA
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16407542 39 - 174210431 AG-AGTCCAAGCTGCACGGAA--GC-TG--TACTTTGTCTTAGGA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108503677 39 + 167655696 AG-CGTCCAGGCTGCATGGTA--GC-TG--TGCTTTGTGTTAGGG
+q rheMac2.chr4 99-999999999999999999--99-99--999999999999999
+i rheMac2.chr4 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396880 38 - 498454 AG-GACCTGAGATGTA--GCA--GCTTG--GACTCCGTCTTGGGG
+q tupBel1.scaffold_114895.1-498454 99-9699999995999--989--99989--823899699959999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_363624 23254 43 - 23811 GGAGAGCAGAGATGTGAAGAA--GCCTGCACACGCTGCTTCAGAG
+q eriEur1.scaffold_363624 694776696997454697676--5793366747734453666645
+i eriEur1.scaffold_363624 C 0 C 0
+s canFam2.chr1 78262522 23 - 125616256 AG-GGCCCG--------------AGCTG--CACTTAGGCC-----
+q canFam2.chr1 99-999999--------------99999--9999999999-----
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13052157 42 + 24938454 AG-GGTCTGAGATGCATACAATAGCCTG--TACTTTGTCCCAAGA
+q equCab1.chr31 99-9999999999999999999999999--999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13730910 39 - 95030419 A--GGTCTGAGGCACGTAGAA--GTCTG--TCCTTTGCCTCAGGA
+q bosTau3.chr9 9--999999999999999999--99999--999999999999999
+i bosTau3.chr9 C 0 I 4
+s loxAfr1.scaffold_4233 66005 38 + 124190 AG-GGTCTGAGATG-ACAGAA--GGCTG--TGTTTTGTTTTAGG-
+q loxAfr1.scaffold_4233 99-99999999999-999999--99999--99999999999999-
+i loxAfr1.scaffold_4233 I 22 I 1
+s echTel1.scaffold_324002 44375 36 + 49972 GG-GTTCTGAGATG-ATCGCA--GGCTG--TG--CTGTTTCAGG-
+q echTel1.scaffold_324002 99-99999999998-879899--97899--99--9999999878-
+i echTel1.scaffold_324002 C 0 I 1
+s ornAna1.chr2 14889993 35 - 54797317 AG-CACCTAG-----ACGGTG--GCTTT--TTTTTTTTCCAGGGA
+i ornAna1.chr2 C 0 C 0
+s anoCar1.scaffold_0 8793525 29 + 16654889 ----------aaaaagtagAA--TC-TG--TTCCTGGCTTAGTG-
+q anoCar1.scaffold_0 ----------99999999999--99-99--99999999999999-
+i anoCar1.scaffold_0 C 0 C 0
+s oryLat1.chr22 12878569 32 - 28810691 AG-GGGCTG---TACATGACA--TTCTA--AGCACACTTA-----
+q oryLat1.chr22 99-999999---999999999--99999--9999999999-----
+i oryLat1.chr22 C 0 I 79
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18435 91 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e calJac1.Contig1260 71665 97 - 523245 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352193 536 - 359464 I
+
+a score=-172920.000000
+s mm9.chr10 3192332 68 + 129993255 AGAAAA-----------GCCCATTGTCCCT-GGGTCTCCCTCTCC-TGGA---ATTCAG-----GGGCCAGGGGTCAGAGGTAGACGtt
+s rn4.chr1 230010905 68 - 267910886 AGAGAA-----------GCC-ATTGTCCCC-GGGTCTCCCTCTCCCTGGA---ATTCAA-----GGGTCATGGGTCAGAGGTAGATATT
+q rn4.chr1 999999-----------999-999999999-9999999999999999999---999999-----9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100384 46 - 139458 AAGCCA-----------ATC-GTTGTCCCT-G----TCACGCAC--TGGA---ACCTA---------CCTGGAGTCC------------
+q oryCun1.scaffold_214769 999999-----------999-999999999-9----99999999--9999---99999---------9968999999------------
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16618570 18 - 173908612 AAAGGA-----------ACC-ATTGTTCTT-----------------------------------------------------------
+q panTro2.chr6 999999-----------999-999999999-----------------------------------------------------------
+i panTro2.chr6 C 0 I 39
+s hg18.chr6 16095160 18 - 170899992 AAAGGA-----------ACC-ATTGTTCTT-----------------------------------------------------------
+i hg18.chr6 C 0 I 39
+s ponAbe2.chr6 16407581 39 - 174210431 AAAGGA-----------ACC-ATTGTTCTT--------------TTC--A---TATCAT-----TTTTACCGGCT--------------
+i ponAbe2.chr6 C 0 I 17
+s rheMac2.chr4 108503716 41 + 167655696 AAAGGA-----------ACC-ATTGTTGTTTCCGTATCATTTTTGCCGGC---TCT---------------------------------
+q rheMac2.chr4 999999-----------999-99999999999999999999999999999---999---------------------------------
+i rheMac2.chr4 C 0 I 333
+s tupBel1.scaffold_114895.1-498454 396918 55 - 498454 AAATGC-----------ACC-ATTGTCCTGTCTGTGTCATTTTTATTAGA---AGTCTG-----GGAGCCTGGAT--------------
+q tupBel1.scaffold_114895.1-498454 997669-----------459-99999999999999999679999999999---979999-----99979969999--------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_363624 23297 41 - 23811 AGAGGAGT--------CGCT-GTTCCTCCTTCTCTGCCCTGGCATCTGGG---------------------------------------
+q eriEur1.scaffold_363624 77565667--------4734-55433448994749499843345965596---------------------------------------
+i eriEur1.scaffold_363624 C 0 N 0
+s canFam2.chr1 78262545 19 - 125616256 -----------------------TGTCCCTCTCCTGTCACTT-----------------------------------------------
+q canFam2.chr1 -----------------------9999999999999999999-----------------------------------------------
+i canFam2.chr1 C 0 I 258
+s equCab1.chr31 13052199 66 + 24938454 AAATGG-----------ACC-ATTGCTCCCTTCATGTCTTTCCATCGGATCT-CTCCAG-----GAGTTCTGGATCAGTAGTAG-----
+q equCab1.chr31 999999-----------999-9999999999999999999999999999999-999999-----99999999999999999999-----
+i equCab1.chr31 C 0 I 4
+s loxAfr1.scaffold_4233 66044 68 + 124190 AAAGGA-----------GCC-ATTGTCCCTTTTATGTCCTTTTCGCCGGAATTCCCTAG-----GAGTTCCGGATTAGCGGTAG----T
+q loxAfr1.scaffold_4233 999999-----------999-99999999999999999999999999999999999999-----99999999999999999999----9
+i loxAfr1.scaffold_4233 I 1 C 0
+s echTel1.scaffold_324002 44412 68 + 49972 GAAGGA-----------CCC-AGTGCCCCTTTCATGGCCTTTTCGCCG-----TCCTGGCGCTTGAGTTCCAGATCAGTGGTAGA----
+q echTel1.scaffold_324002 999988-----------799-899999899998799979999997798-----89999999899998999969997789999999----
+i echTel1.scaffold_324002 I 1 I 1468
+s ornAna1.chr2 14890028 46 - 54797317 AAATGA-----------ACT-CTTGGTTTT----CAACCTCTGCCTGGGA---AATTAA-----GGGTCC-------------------
+i ornAna1.chr2 C 0 I 953
+s anoCar1.scaffold_0 8793554 75 + 16654889 AAATGATTTCATTTCCCACA-CCTGCTCCC--CAAATCATTTGGCTAAAGCATATTTTGGAGGATGTTGATAGATAAA-----------
+q anoCar1.scaffold_0 99999999999999999999-999999999--9999999999999999999999999998999979799999999999-----------
+i anoCar1.scaffold_0 C 0 C 0
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13730949 4 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18435 91 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e calJac1.Contig1260 71665 97 - 523245 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352193 536 - 359464 I
+
+a score=124.000000
+s mm9.chr10 3192400 46 + 129993255 tttttttttttttttttttttttaagatatttattttatgcatatg
+s loxAfr1.scaffold_4233 66112 46 + 124190 TTTAGCCCCTTTTGGAATTTACTAAGGTACCTGGGTGATGCAAGTG
+q loxAfr1.scaffold_4233 9999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 425
+s anoCar1.scaffold_0 8793629 38 + 16654889 TGTTTCTGTTAGTTTGGCTTTTTGAGACTCTTACTTTA--------
+q anoCar1.scaffold_0 99999999999999998899999999999999999999--------
+i anoCar1.scaffold_0 C 0 I 5449
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e rn4.chr1 230010973 0 - 267910886 C
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13730949 4 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052265 4 + 24938454 I
+e rheMac2.chr4 108503757 333 + 167655696 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18435 91 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e calJac1.Contig1260 71665 97 - 523245 I
+e tupBel1.scaffold_114895.1-498454 396973 0 - 498454 C
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352193 536 - 359464 I
+e hg18.chr6 16095178 39 - 170899992 I
+e panTro2.chr6 16618588 39 - 173908612 I
+e ponAbe2.chr6 16407620 17 - 174210431 I
+e oryCun1.scaffold_214769 100430 0 - 139458 C
+
+a score=0.000000
+s mm9.chr10 3192446 138 + 129993255 agtacactgtcgtcttcagacaccagaagagggcatcagctcccattacagatggatgaagggcaccatgtggttgctgggaattgaacttagtacctcttggaagagcagtcagtgctcttgaccgctgagccgtct
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e rn4.chr1 230010973 0 - 267910886 C
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13730949 4 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052265 4 + 24938454 I
+e rheMac2.chr4 108503757 333 + 167655696 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18435 91 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66158 425 + 124190 I
+e calJac1.Contig1260 71665 97 - 523245 I
+e tupBel1.scaffold_114895.1-498454 396973 0 - 498454 C
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352193 536 - 359464 I
+e hg18.chr6 16095178 39 - 170899992 I
+e panTro2.chr6 16618588 39 - 173908612 I
+e ponAbe2.chr6 16407620 17 - 174210431 I
+e oryCun1.scaffold_214769 100430 0 - 139458 C
+
+a score=60608.000000
+s mm9.chr10 3192584 32 + 129993255 ctccagccccAGAGGTAGATCTTAGAATGCCT
+s otoGar1.scaffold_334.1-359464 352729 32 - 359464 CTCCTGGATCAGGGGTAGATTTTTGGATTCTT
+q otoGar1.scaffold_334.1-359464 99999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 I 536 C 0
+s dasNov1.scaffold_13068 18526 31 + 27231 -TCTGGACCCAGTGGTGGATTTTCAGGTCCCT
+q dasNov1.scaffold_13068 -9999999999999999999999999999999
+i dasNov1.scaffold_13068 I 91 C 0
+s oryCun1.scaffold_214769 100430 21 - 139458 -----------ATGGTAGATTTTAGAATTCCT
+q oryCun1.scaffold_214769 -----------999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s bosTau3.chr9 13730953 21 - 95030419 -----------GGGGTCCATTTTAGGGTCCCT
+q bosTau3.chr9 -----------999999999999999999999
+i bosTau3.chr9 I 4 C 0
+s equCab1.chr31 13052269 10 + 24938454 ----------------------TAGGGTCCCT
+q equCab1.chr31 ----------------------9999999999
+i equCab1.chr31 I 4 C 0
+s calJac1.Contig1260 71762 23 - 523245 ---------CAGTGGGAAATTTTAGGATTCCT
+i calJac1.Contig1260 I 97 C 0
+s panTro2.chr6 16618627 22 - 173908612 ----------AGTGGTAGATTTTAGGATTCCT
+q panTro2.chr6 ----------9999999999999999999999
+i panTro2.chr6 I 39 C 0
+s hg18.chr6 16095217 22 - 170899992 ----------AGTGGTAGATTTTAGGATTCCT
+i hg18.chr6 I 39 C 0
+s rheMac2.chr4 108504090 22 + 167655696 ----------GGTGGTAGATTTTAGGATTCCT
+q rheMac2.chr4 ----------9999999999999999999999
+i rheMac2.chr4 I 333 C 0
+s ponAbe2.chr6 16407637 23 - 174210431 ---------CAGTGGTAGATTTTAGGATTCCT
+i ponAbe2.chr6 I 17 C 0
+s tupBel1.scaffold_114895.1-498454 396973 23 - 498454 ---------CAGTGGTAGATTTTAGGGTTCCT
+q tupBel1.scaffold_114895.1-498454 ---------99999999999999999799999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e rn4.chr1 230010973 0 - 267910886 C
+e galGal3.chr3 61575697 1294 - 113657789 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66158 425 + 124190 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+
+a score=239388.000000
+s mm9.chr10 3192616 53 + 129993255 TTGAATGTT-ACTTTGAAGGTCAGCAACAGGAACAAATAACCCCGAGGTTAGAG
+s otoGar1.scaffold_334.1-359464 352761 53 - 359464 TTTCAAGTT-GCTGAAGGAGTTAATGTCAGGAACGAGTTAACCTCAGCTTAGAG
+q otoGar1.scaffold_334.1-359464 999999999-99999999999999999999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 396996 53 - 498454 TTTGAAGTT-GCTTGAAAAGTCAGTAGCAAGAACAGATTACCTTCAGTTTAGAA
+q tupBel1.scaffold_114895.1-498454 999999999-99979999999999999999999999899599999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s ponAbe2.chr6 16407660 53 - 174210431 TTGCCAGTT-ACTTAAAAGGTTAATAGCAGGAACAAATTAACCTCAGCTTAGAG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108504112 53 + 167655696 TTGCCAGTT-ACTTAAACGGTTAATAGCAGGAACAAATTAACTTCAGCTTAGAG
+q rheMac2.chr4 999999999-99999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16095239 54 - 170899992 TTGCCAGTTAACTTAAAAGGTTAATAGCAGGAACAAATTAACCTCAGCTTAGAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16618649 54 - 173908612 TTGCCAGTTAACTTAAAAGGTTAATAGCAGGAACAAATTAACCTCAGCTTAGAG
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 71785 53 - 523245 TTGCCAGTT-ACTTAAAAGGTTAATGACAGGAACAAATTAACCTCAGCTTAGAG
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13052279 53 + 24938454 CTGGAAGTT-CCTGAAAAGGTAAATAGCAGGAACAAAATAACTTCCGCTTAGAA
+q equCab1.chr31 999999999-99999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13730974 52 - 95030419 TTGGAAGTT-TTGGAGAAGGTGAGTAGCAGGAAC-GATTAACCTCAGCTTAGAG
+q bosTau3.chr9 999999999-999999999999999999999999-9999999999999999999
+i bosTau3.chr9 C 0 I 227
+s oryCun1.scaffold_214769 100451 53 - 139458 TAGGAAGTG-ACTTAAAAGGTTGATAGCAGGAACAAATTATCCTCAGCTTCAAG
+q oryCun1.scaffold_214769 999999999-99999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230010973 50 - 267910886 ---AGGGTG-CCTTGGAAGGTCAGCAACAGGAACAAATGAGCGCTAGGTCAGAG
+q rn4.chr1 ---999999-99999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s dasNov1.scaffold_13068 18557 53 + 27231 TTGGACATG-CCTTGGAAGGTTAACAGCAGGAACAAATTTACCTCATCTTAGAG
+q dasNov1.scaffold_13068 999999999-99999999999999999999999999999999999999999998
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 66583 48 + 124190 TTGGAAGTT-ACTTAAAAGGTTAATAGCAAGAACAAATTAACCTC-----AGAG
+q loxAfr1.scaffold_4233 799788786-77685999973969997977997739999999996-----5999
+i loxAfr1.scaffold_4233 I 425 C 0
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+
+a score=144286.000000
+s mm9.chr10 3192669 43 + 129993255 GC-AGTGACACCATGCTAAAGGT--TGTTGTGCTGACATGAAGCAT
+s calJac1.Contig1260 71838 44 - 523245 AAGAGTGAAATGGTACTAGAGGTCGTATTTTACTGAGATTAAAC--
+i calJac1.Contig1260 C 0 I 340
+s panTro2.chr6 16618703 46 - 173908612 AAGAGTGAAACTGTGCTAAAGGTTGTGTTTTACTGAGATTAAACAT
+q panTro2.chr6 9999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16095293 46 - 170899992 AAGAGTGAAACTGTGCTAAAGGTTGTGTTTTACTGAGATTAAACAT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108504165 46 + 167655696 AAGAGTGAAATTGTGCTAAAGGTTGTGTTTTACTGAGATTAAATAT
+q rheMac2.chr4 9999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16407713 46 - 174210431 AAGAGTGAAACTGTGCAAAAGGTTGTGTTTTACTGAGATTAAACAT
+i ponAbe2.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 397049 46 - 498454 AAGAGGGAACTTATGATAAAGGTTGTGTTTTACAGAGATGGCACAT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_334.1-359464 352814 36 - 359464 AAAAGCGAA----------AGGTCGTGTTTAACTGAGATTAAACAT
+q otoGar1.scaffold_334.1-359464 999999999----------999999999999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 I 111
+s rn4.chr1 230011023 43 - 267910886 GC-AGTGGAACTGAGCTAAAGGT--TACTTTACTGAGATAAAGGAT
+q rn4.chr1 99-99999999999999999999--999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100504 43 - 139458 ---AGTAGAGCTCTGCTCCAGGTTGTGTTTTGCTGAGATTAAATAT
+q oryCun1.scaffold_214769 ---9999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s equCab1.chr31 13052333 44 + 24938454 -AGAGTGGAACTGTGCTAAA-GTTGTGTTTTGCTGAGGTTAAACAT
+q equCab1.chr31 -9999999999999999999-9999999999999999999999999
+i equCab1.chr31 I 1 I 356
+s dasNov1.scaffold_13068 18610 26 + 27231 AAGAGTGAAACTGTTTTGAAGGCTGT--------------------
+q dasNov1.scaffold_13068 99899999999999999999799999--------------------
+i dasNov1.scaffold_13068 C 0 I 130
+s loxAfr1.scaffold_4233 66631 46 + 124190 AAGAGTGAAACTGTGCTAAAGGTTGTGTGTTACTGAGATTAAACAT
+q loxAfr1.scaffold_4233 9999999999899487659999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 151
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+
+a score=-6109.000000
+s mm9.chr10 3192712 42 + 129993255 GCGCACTGGA--CTCTGAATGGCACGG-A-GGAAGCAGCTGGCGGG
+s panTro2.chr6 16618749 41 - 173908612 TAATGGTTGAGGATTTGATTGGTAT----G-AAAGCTGTTAGTTGA
+q panTro2.chr6 9999999999999999999999999----9-999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16095339 28 - 170899992 TAATGGTTGAGGATTTGATTGGTATGA-A-----------------
+i hg18.chr6 C 0 I 327
+s rheMac2.chr4 108504211 41 + 167655696 TAATGGCTGAGGATTTGATTGGTATGA-A----AGCTGTTAGTTGA
+q rheMac2.chr4 999999999999999999999999999-9----9999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16407759 41 - 174210431 TAATGGTTGAGGATTTGATTGGTATGA-A----AGCTGTTAGTTGA
+i ponAbe2.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 397095 36 - 498454 TACTGATT----ATTTGATTGGTACGC-G-----GGTGACTTCTGA
+q tupBel1.scaffold_114895.1-498454 99999999----999999999999999-9-----999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 417
+s rn4.chr1 230011066 40 - 267910886 TAGCCCTGGA--GTGTG---GGCATGGCA-TGGAGCAGTTAGCAGA
+q rn4.chr1 9999999999--99999---999999999-9999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 100547 25 - 139458 GAATGATTA----TTTGGTTGGCGTGG-A-G---------------
+q oryCun1.scaffold_214769 999999999----99999999999999-9-9---------------
+i oryCun1.scaffold_214769 C 0 C 0
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052377 356 + 24938454 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18636 130 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66677 151 + 124190 I
+e calJac1.Contig1260 71882 340 - 523245 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352850 111 - 359464 I
+
+a score=16386.000000
+s mm9.chr10 3192754 64 + 129993255 -----------------CCTGGCCT-----------GGCTCGTTCCAGGTCTGGGTCTTGTCTTCTTCCGTTCACCCTCCTGGTTTGTTTGT
+s rn4.chr1 230011106 62 - 267910886 -----------------CCCGGCTT-----------GACTCACTTCAGTTCAGCGTCTTGTCTT--TCCATTCTGATTCTTGGTTTGTTTGt
+q rn4.chr1 -----------------99999999-----------9999999999999999999999999999--99999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16618790 92 - 173908612 CTTCAGAAGGGATGTTAACTGTCAATTTTTGTTTTTGTTTTTTTTTTAATCTATTCCTTCTCTCTTTCTATTCAGATTCCTATTTTATGTGT
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 3
+s ponAbe2.chr6 16407800 80 - 174210431 CTTCAGAAGGGATGTTAACTGTCA------------TTTTTTTTTTAAATCTATTCCTTCTCTCTTTCTATTCAGATTCCTATTTTATGTGT
+i ponAbe2.chr6 C 0 I 221
+s rheMac2.chr4 108504252 84 + 167655696 CTTCAGAAGGGATGTTAACTGTCATTTTTGA-----TTTGTTTTTTTTATCTAGTC---CTCTCTTGCTATTCAGATTCCTATTTTATGTGT
+q rheMac2.chr4 9999999999999999999999999999999-----99999999999999999999---999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 3
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052377 356 + 24938454 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18636 130 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66677 151 + 124190 I
+e calJac1.Contig1260 71882 340 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397131 417 - 498454 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352850 111 - 359464 I
+e hg18.chr6 16095367 327 - 170899992 I
+e oryCun1.scaffold_214769 100572 0 - 139458 C
+
+a score=-6026.000000
+s mm9.chr10 3192818 65 + 129993255 TTGTTTT---AATACAGTGCTTTTATTAATTCTTTGAGTCTTTCATACAAA------------------------------------------------------------AGA-CTTGTTCATATCCA
+s rn4.chr1 230011168 69 - 267910886 ttgtttttaaagtagaatgtttttattaattttttgagactttcatacaat------------------------------------------------------------gtttcttattcctattca
+q rn4.chr1 999999999999999999999999999999999999999999999999999------------------------------------------------------------999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16618885 41 - 173908612 ------TTGAGAGAAAACAGTTAAATAAAAACT-----AATTTaatacaaa------------------------------------------------------------a-----------------
+q panTro2.chr6 ------999999999999999999999999999-----9999999999999------------------------------------------------------------9-----------------
+i panTro2.chr6 I 3 I 156
+s rheMac2.chr4 108504339 117 + 167655696 ------TTGAGAGAAACCAGTTAAATAAAAAGC-----AATTTAATACAAAACTTAGCCAGGCGTGGTGGCGCATGCCTGTAATCTCAGTTACTCGGAAGGTTGAGGCAGGAGA-GTTGCTTGAACCCA
+q rheMac2.chr4 ------999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999
+i rheMac2.chr4 I 3 I 66
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052377 356 + 24938454 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18636 130 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66677 151 + 124190 I
+e calJac1.Contig1260 71882 340 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397131 417 - 498454 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352850 111 - 359464 I
+e hg18.chr6 16095367 327 - 170899992 I
+e ponAbe2.chr6 16407880 221 - 174210431 I
+e oryCun1.scaffold_214769 100572 0 - 139458 C
+
+a score=25148.000000
+s mm9.chr10 3192883 456 + 129993255 CTCCCACTCCTCCCCACAGCTCCTCCTGGATCCACCTTCCCCTCCATACCACCTCACCTTGTGTcctcttccacagttttccctgaaccttggcaggctgagggtattgcgttgtaaatgtttttttttgggggggggcaggtaccccaaggcaagttgttctctgtag----------ttgttttttcctgtaatctcagtctactgtaaaggaaacatatttgatgagggcctgagagagacacgtatctgtgactttaaggacacaagatttagaacgcagttagacattacactggctttggaaattgcagatatgggttctcctctggattctgtggcctcaccagccacaggaagttggctaaatttacaggtgccaaatcattcctcttgagcaggctttaagtgcagttagacagctgtcagt [...]
+s rn4.chr1 230011237 436 - 267910886 acccccctcctcctcacaactcctcctggatccactctcc-------------tccccttgtgccctcttccccagttttccctgagccttggc----tgtaggtgttgtgttgtaaatgtttcacct-----gggggcaggtaccccatgacaagttgatctctgcgtgttgaccagtttgttttctgtaatgatctcagtctactgttaaagaaacttatttgatgagggg-tgagagatacatgtatctgtgagtttaagggca--ggattaagaatacagttagacattatactggtttaggaaactgcagtcgggggctctcct--ggattccgtggcctcaccagtcacaggaagttggctaaatttacaggcgtgaaatca---ctattgagcaggccttaagtgcaattagacagctgctagt [...]
+q rn4.chr1 9999999999999999999999999999999999999999-------------99999999999999999999999999999999999999999----999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999--999999999999999999999999999999999999999999999999999999999999--999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10160835 319 - 12859810 I
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052377 356 + 24938454 I
+e rheMac2.chr4 108504456 66 + 167655696 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18636 130 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66677 151 + 124190 I
+e calJac1.Contig1260 71882 340 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397131 417 - 498454 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352850 111 - 359464 I
+e hg18.chr6 16095367 327 - 170899992 I
+e panTro2.chr6 16618926 156 - 173908612 I
+e ponAbe2.chr6 16407880 221 - 174210431 I
+e oryCun1.scaffold_214769 100572 0 - 139458 C
+
+a score=3591.000000
+s mm9.chr10 3193339 96 + 129993255 gttattgttgtggttc----gtaggtgacacaactggatattactattggtggtt------cttggcaatttgcatggccccttgggatgctgtacga---gctggtcc-----
+s rn4.chr1 230011673 104 - 267910886 gttcttgctgtggttc----ataggtaatacaactggacagt-ttatcggttgcttttccccttggcaatttgcacggcccctttggatgctgtaagaagagcaggtcc-----
+q rn4.chr1 9999999999999999----9999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999-----
+i rn4.chr1 C 0 C 0
+s tetNig1.chr10 10161154 105 - 12859810 gctgtttttctgtttccactGTGGGTGCCGCAGCACGTGTCT-GCTCTGGAGact-----cctcag--acacacacagcctttttGGAACCTGCAGGACT-GTTGATTCAGTCT
+i tetNig1.chr10 I 319 C 0
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e equCab1.chr31 13052377 356 + 24938454 I
+e rheMac2.chr4 108504456 66 + 167655696 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e dasNov1.scaffold_13068 18636 130 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78262564 258 - 125616256 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66677 151 + 124190 I
+e calJac1.Contig1260 71882 340 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397131 417 - 498454 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e otoGar1.scaffold_334.1-359464 352850 111 - 359464 I
+e hg18.chr6 16095367 327 - 170899992 I
+e panTro2.chr6 16618926 156 - 173908612 I
+e ponAbe2.chr6 16407880 221 - 174210431 I
+e oryCun1.scaffold_214769 100572 0 - 139458 C
+
+a score=-54428.000000
+s mm9.chr10 3193435 51 + 129993255 tcggggTCAGAT----TTCTG----------GTGTTTAGAGGAAGTAGCATGATGGGAGATAACC-
+s rn4.chr1 230011777 56 - 267910886 ttggg-TCAGAT----TTCTGTATTA----CGTGTTCAGAAGAAGATGCATGATGCAAGAAAATC-
+q rn4.chr1 99999-999999----9999999999----99999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 397548 55 - 498454 TCAGGT----------TCCCATTTTGTGTGTTACCTGAGAGGAAACAGTTCTATAAGTAATAAGA-
+q tupBel1.scaffold_114895.1-498454 987997----------8888899999797869977899796989978989989999979878989-
+i tupBel1.scaffold_114895.1-498454 I 417 C 0
+s dasNov1.scaffold_13068 18766 55 + 27231 ------TCAGAT----TTCTATTTCATGGGTTACTTGAGAGGAAACATTTATGTGACAGATCATT-
+q dasNov1.scaffold_13068 ------986496----7987999966899998888998787779997999999799966767679-
+i dasNov1.scaffold_13068 I 130 C 0
+s panTro2.chr6 16619082 19 - 173908612 ----------------------------------------------aacaaaacaaaaaGGAATT-
+q panTro2.chr6 ----------------------------------------------9999999999999999999-
+i panTro2.chr6 I 156 C 0
+s ponAbe2.chr6 16408101 4 - 174210431 -------------------------------------------------------------AATT-
+i ponAbe2.chr6 I 221 C 0
+s rheMac2.chr4 108504522 26 + 167655696 ---------------------------------------AAAACAAAACAAAACAGAAAAGAATT-
+q rheMac2.chr4 ---------------------------------------99999999999999999999999999-
+i rheMac2.chr4 I 66 C 0
+s otoGar1.scaffold_334.1-359464 352961 55 - 359464 ------TCAGAT----TTGTGTTGTATGTGTTAATTGAGAAGAAACAATTATATAACAGATAATT-
+q otoGar1.scaffold_334.1-359464 ------999999----9999999999999999999999999999999999999999999999999-
+i otoGar1.scaffold_334.1-359464 I 111 C 0
+s equCab1.chr31 13052733 24 + 24938454 -----------------------------------------GAAACAGTTACACAATGGATAATT-
+q equCab1.chr31 -----------------------------------------999999999999999999999999-
+i equCab1.chr31 I 356 C 0
+s canFam2.chr1 78262822 45 - 125616256 ------TCACAT----TCCTGTTTTG----------GGGAGGAAACAGTTGCATGACAAGTCTTC-
+q canFam2.chr1 ------999999----9999999999----------99999999999999999999999999999-
+i canFam2.chr1 I 258 C 0
+s tetNig1.chr10 10161259 60 - 12859810 ------GTAAATGCAGACATGTTAGAAGAGTAATTAGGTCAGAAAATGGTGTAAGAGGAGCTATTC
+i tetNig1.chr10 C 0 C 0
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e anoCar1.scaffold_0 8793667 5449 + 16654889 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e galGal3.chr3 61575697 1294 - 113657789 I
+e bosTau3.chr9 13731026 227 - 95030419 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14890074 953 - 54797317 I
+e loxAfr1.scaffold_4233 66677 151 + 124190 I
+e calJac1.Contig1260 71882 340 - 523245 I
+e echTel1.scaffold_324002 44480 1468 + 49972 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+e hg18.chr6 16095367 327 - 170899992 I
+e oryCun1.scaffold_214769 100572 0 - 139458 C
+
+a score=-105720.000000
+s mm9.chr10 3193486 67 + 129993255 TAAGGCAGCCTGC-AGTGTAGCCATGC-ATGC-CAGTGTTGG------GGTGG-GAC-TCT-----CAGGG-------GTTCTCA----CCTCC-----------
+s tupBel1.scaffold_114895.1-498454 397603 66 - 498454 TCAGCTAGCCTAT-GGTATAGCTGTGC-TTGT-CCACAGAAG------TGTGA-GAT-CCC-----AGTAG-------ATTC-CT----GTACC-----------
+q tupBel1.scaffold_114895.1-498454 7766789869797-9559696789866-7893-356768896------87669-564-866-----68597-------6384-65----84435-----------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s rn4.chr1 230011833 68 - 267910886 TAAG----CCTGC-AGTGTAGCCATGC-ATTA-CAGTGTTGG------GGTGG-GAC-TCTGGGGGCGGGG-------TGTCTCC----TCTCC-----------
+q rn4.chr1 9999----99999-9999999999999-9999-999999999------99999-999-9999999999999-------9999999----99999-----------
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78262867 68 - 125616256 TGAGCCAGCCTGT-GGTGTGGCCATGC-GTTT-CAGCATATAT---GGTGCAG-GAT-CCT-----GGT---------GCCCACA----ACCCC-----------
+q canFam2.chr1 9999999999999-9999999999999-9999-9999999999---9999999-999-999-----999---------9999999----99999-----------
+i canFam2.chr1 C 0 I 237
+s equCab1.chr31 13052757 68 + 24938454 TAAGCCAGCCTGT-TGTGTAGGCATGC-TTGT-CAGCACACA-----GTGTGG-GAT-CCC-----AGTGG-------GTTCCCT----CCCCC-----------
+q equCab1.chr31 9999999999999-9999999999999-9999-999999999-----999999-999-999-----99999-------9999999----99999-----------
+i equCab1.chr31 C 0 I 13
+s otoGar1.scaffold_334.1-359464 353016 73 - 359464 TAAACTAGCCCAC-GGGGTAGCTCTGC-TTGT-CAGTGAACAGAGCCTTGTGG-GAT-CCC-----AGTGG-------GTCCTCT----CTACC-----------
+q otoGar1.scaffold_334.1-359464 9999999999999-9999999999999-9999-99999999999999999999-999-999-----99999-------9699999----99999-----------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 72222 66 - 523245 TAAAGTAGCCCAT-GGGGTAGCAATGC-TTAC-CAAGATACA-------GTGG-GAT-CCC-----AATAG-------ATTCTTC----CTACC-----------
+i calJac1.Contig1260 I 340 C 0
+s rheMac2.chr4 108504548 66 + 167655696 TAGAGTAGCCCAT-GGGGTAGCTATAC-TTAC-CAACATGCA-------GTGG-GAT-CCC-----AGTGG-------ATTCTCC----CTATG-----------
+q rheMac2.chr4 9999999999999-9999999999999-9999-999999999-------9999-999-999-----99999-------9999999----99999-----------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16408105 67 - 174210431 TAGAGTAGCCCATGGGGGTAGCTATGC-TTAT-CAACATGCA-------GTGG-GAT-CCC-----AGTGG-------ATTCTCC----CTACC-----------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16619101 66 - 173908612 TAGAGTAGCCCAT-GGGGTAGCTATGC-TTAC-CAACATCCA-------GTAG-GAT-CCC-----AGTGG-------ATTCTCC----CTACC-----------
+q panTro2.chr6 9999999999999-9999999999999-9999-999999999-------9999-999-999-----99999-------9999999----99999-----------
+i panTro2.chr6 C 0 C 0
+s dasNov1.scaffold_13068 18821 72 + 27231 TAAATTGGCCTGT-TGTATCGCCACGC-TTGT-CAACCCACA-----GTGTGG-GAT-CCC-----AGTGG-------ATTCCCTTTTGTCTTC-----------
+q dasNov1.scaffold_13068 9799999969795-9979898694989-9997-667799686-----799989-865-699-----68767-------4565796997776676-----------
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 66828 68 + 124190 TAAATTAGCCCCT-TGTGTAGCTATGC-TTGT-CAACATACT-----GGGCGG-GAT-GCC-----AGTGG-------ATTCCTT----CTTTT-----------
+q loxAfr1.scaffold_4233 9999999999999-9999999999999-9999-999999999-----999999-999-999-----99999-------9999799----99999-----------
+i loxAfr1.scaffold_4233 I 151 C 0
+s galGal3.chr3 61576991 39 - 113657789 ---------------------------------CAGTGCTGT------GGTAG-AAT-AGG-----AGAAGTCT----GGTCTCT----GCAA------------
+i galGal3.chr3 I 1294 C 0
+s anoCar1.scaffold_0 8799116 68 + 16654889 --agatagacaga-cctGTGGTTATCC-ATGC-TAAGCTTAA------GGTAATGAC-TAC-----TGTTGTGT----GGTTTAT----TTTT------------
+q anoCar1.scaffold_0 --99999990999-9999999999999-9999-999999999------999999999-999-----99999999----9999999----9999------------
+i anoCar1.scaffold_0 I 5449 C 0
+s bosTau3.chr9 13731253 37 - 95030419 ----------------------------------------------GGTGTGG-GAT-CCT-----GGTGGCTTCAGTGTTTTCA----CTTTT-----------
+q bosTau3.chr9 ----------------------------------------------9999999-999-999-----9999999999999999999----99999-----------
+i bosTau3.chr9 I 227 C 0
+s eriEur1.scaffold_330084 59 27 + 5186 ------------------------------------------------GGCAG-GCTACAC-----AGT---------GTCCTCC----CTCCC-----------
+q eriEur1.scaffold_330084 ------------------------------------------------94122-3399999-----999---------9999999----99879-----------
+i eriEur1.scaffold_330084 N 0 I 7
+s oryCun1.scaffold_214769 100572 44 - 139458 -------------------------GC-TTGT-CAGCCACAG------AAGAG-GAT-TCT----GGGAGA-------TTTCTGC----CATCC-----------
+q oryCun1.scaffold_214769 -------------------------99-9999-999999999------99999-999-999----999999-------9999999----99999-----------
+i oryCun1.scaffold_214769 C 0 C 0
+s ornAna1.chr2 14891027 59 - 54797317 --------------AGTATAAACTTTC-ATACACAGTGTCTG--CAATGCTAG-GAG-CCC-----AATTG-------GTTCTTT----GCCCT-----------
+i ornAna1.chr2 I 953 C 0
+s hg18.chr6 16095694 62 - 170899992 ----GTAGCCCAT-GGGGTAGCTATGC-TTAC-CAACATCCA-------GTGG-GAT-CCC-----CGTGG-------ATTCTCC----CTACC-----------
+i hg18.chr6 I 327 C 0
+s echTel1.scaffold_324002 45948 61 + 49972 -------GCCTCC-TGGGTGGCTGTGC-GTGT-CCGCGTTGA-----GGGCAG-GAT-CCC-----AGTGG-------ACTCCTT----CCTTC-----------
+q echTel1.scaffold_324002 -------694796-4999699698797-9799-999999999-----997989-979-999-----99999-------8699999----97999-----------
+i echTel1.scaffold_324002 I 1468 C 0
+s tetNig1.chr10 10161319 59 - 12859810 ---------------------TGACGCACCGT-CACCATCCA------TTCGG-TTT-CTT-----TGTGG-------TGCTTTT----GGACATTGAGAACATG
+i tetNig1.chr10 C 0 I 10
+e gasAcu1.chrXV 12515211 451 - 16198764 I
+e fr2.chrUn 66174106 612 + 400509343 I
+e oryLat1.chr22 12878601 79 - 28810691 I
+e xenTro2.scaffold_2 3905939 914 + 7803671 I
+e danRer5.chr21 16465102 7652 + 46057314 I
+e monDom4.chr2 106238871 553 - 541556283 I
+e sorAra1.scaffold_256646 107933 801 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e cavPor2.scaffold_284118 88640 21828 - 169015 M
+
+a score=-413990.000000
+s mm9.chr10 3193553 28 + 129993255 ------ATCCA--CTCATTAAAGAG-AGTTTTTGTTC----------------------------------
+s tupBel1.scaffold_114895.1-498454 397669 23 - 498454 ------TTTTTCTC-----TAAGAG-AA--GTTTTTA----------------------------------
+q tupBel1.scaffold_114895.1-498454 ------48886668-----658383-58--5498846----------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s rn4.chr1 230011901 28 - 267910886 ------GTCCC--CTCATTAAAGAG-AGTTCTCGTTC----------------------------------
+q rn4.chr1 ------99999--999999999999-99999999999----------------------------------
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_334.1-359464 353089 24 - 359464 ------TTGTT--T-----AAAATGAGATTATTGTTA----------------------------------
+q otoGar1.scaffold_334.1-359464 ------99999--9-----999999999999999999----------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s calJac1.Contig1260 72288 23 - 523245 ------CCTTT--T-----AAAGAG-GATTGTTGTTA----------------------------------
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108504614 22 + 167655696 ------CCTTT--------TAAGAG-GATTGTTGTTA----------------------------------
+q rheMac2.chr4 ------99999--------999999-99999999999----------------------------------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16408172 23 - 174210431 ------CCTTT--G-----TAAGAG-GATTGTTGTTA----------------------------------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16619167 23 - 173908612 ------CCTTT--T-----TAAGAG-GACTGTTGTTA----------------------------------
+q panTro2.chr6 ------99999--9-----999999-99999999999----------------------------------
+i panTro2.chr6 C 0 C 0
+s oryCun1.scaffold_214769 100616 28 - 139458 ------TGGTT--TTCTGTAAAGAG-AATTTTTATTC----------------------------------
+q oryCun1.scaffold_214769 ------99999--999999999999-99999999999----------------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s ornAna1.chr2 14891086 15 - 54797317 ------A---------------AGG-AATTTTTCTTT----------------------------------
+i ornAna1.chr2 C 0 C 0
+s hg18.chr6 16095756 23 - 170899992 ------CCTTT--T-----TAAGAG-GATTGTTGCTA----------------------------------
+i hg18.chr6 C 0 C 0
+s tetNig1.chr10 10161388 45 - 12859810 ATTGTT-------------------------GCATTT-ATAAAGGTTTTCTGTGGACATTTTTCATGgtct
+i tetNig1.chr10 I 10 I 18
+s oryLat1.chr22 12878680 27 - 28810691 ATCctc-------------------------tcattt---------------ttgtcattttt----gtct
+q oryLat1.chr22 999999-------------------------999999---------------99999999999----9999
+i oryLat1.chr22 I 79 C 0
+s danRer5.chr21 16472754 28 + 46057314 ---------------------------------ATCTAATGGTTAATGGCAGATGTTACTT----------
+i danRer5.chr21 I 7652 I 1
+s gasAcu1.chrXV 12515662 7 - 16198764 ------------------------------------------------------------TTT----GTCT
+q gasAcu1.chrXV ------------------------------------------------------------999----9999
+i gasAcu1.chrXV I 451 C 0
+s xenTro2.scaffold_2 3906853 8 + 7803671 -----------------------------TGTTGTTT----------------------------------
+i xenTro2.scaffold_2 I 914 C 0
+s echTel1.scaffold_324002 46009 19 + 49972 -----------------TTAAACAG-AGTCTTTGTTT----------------------------------
+q echTel1.scaffold_324002 -----------------99999999-99999999999----------------------------------
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 66896 19 + 124190 -----------------TTAAAAGA-TATTTTTATTA----------------------------------
+q loxAfr1.scaffold_4233 -----------------99999999-99999999999----------------------------------
+i loxAfr1.scaffold_4233 C 0 C 0
+s dasNov1.scaffold_13068 18893 19 + 27231 -----------------TTTAAGAG-AATTGTCATTA----------------------------------
+q dasNov1.scaffold_13068 -----------------69769596-97587564586----------------------------------
+i dasNov1.scaffold_13068 C 0 C 0
+s bosTau3.chr9 13731290 22 - 95030419 --------------TTTTTAAAGAG-AATTTTTATTG----------------------------------
+q bosTau3.chr9 --------------99999999999-99999999999----------------------------------
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13052838 22 + 24938454 --------------TCTTTTTTAAG-AATTGTTGTTG----------------------------------
+q equCab1.chr31 --------------99999999999-99099999999----------------------------------
+i equCab1.chr31 I 13 C 0
+s canFam2.chr1 78263172 22 - 125616256 --------------TTTTTTTAAAG-AACATTTGTTG----------------------------------
+q canFam2.chr1 --------------99999999999-99999999999----------------------------------
+i canFam2.chr1 I 237 C 0
+s eriEur1.scaffold_330084 93 22 + 5186 --------------TTATTTTAAGG-GAGTTTTGTTG----------------------------------
+q eriEur1.scaffold_330084 --------------99999999999-99999999999----------------------------------
+i eriEur1.scaffold_330084 I 7 C 0
+s monDom4.chr2 106239424 16 - 541556283 --------------------AAGGA-AAGCTTTCTTT----------------------------------
+q monDom4.chr2 --------------------99999-99999999999----------------------------------
+i monDom4.chr2 I 553 C 0
+s cavPor2.scaffold_265563 3169 16 + 10554 -------------------AAAGAG-A-TTTTTGTTC----------------------------------
+q cavPor2.scaffold_265563 -------------------664121-4-264512342----------------------------------
+i cavPor2.scaffold_265563 n 0 C 0
+s sorAra1.scaffold_256646 108734 15 - 121936 ---------------------AAAG-CATTTTTGTCT----------------------------------
+q sorAra1.scaffold_256646 ---------------------9999-99799977999----------------------------------
+i sorAra1.scaffold_256646 I 801 C 0
+s anoCar1.scaffold_0 8799184 22 + 16654889 --------------ACTTAAAAGTG-CATTCTTGTCT----------------------------------
+q anoCar1.scaffold_0 --------------99999999999-99999999999----------------------------------
+i anoCar1.scaffold_0 C 0 C 0
+s galGal3.chr3 61577030 19 - 113657789 --------------TCT---AAGAG-GAATTTTCTCT----------------------------------
+i galGal3.chr3 C 0 C 0
+e fr2.chrUn 66174106 612 + 400509343 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+
+a score=2357619.000000
+s mm9.chr10 3193581 103 + 129993255 C-------------TTCCCAGGGCTCCATTCACAGGGATCACAGATCTCTCTGTGACAAAGAACAAAATCATCCAACTGTGCCTGGACCTGACCACAGCAGTCCAGAAGGTCGG--------TA
+s galGal3.chr3 61577049 101 - 113657789 T-------------GTTACAGGACCCCATTTACAGGTATTGCTGACTTTTCATCAATGAAAAACAGAATCATTCAGCTCTGCTTGGATCTTACTACTACTGTTCAGAAGGTCAG----------
+i galGal3.chr3 C 0 I 2570
+s anoCar1.scaffold_0 8799206 102 + 16654889 T-------------ACCATAGGACTCCATTTACTGGGATAGCTGACTTTTCTATGACAAAGAACAAAATCATTCAGCTGTGCTTGGATTTGACCACCACTGTTCAGAAGGTCAG--------T-
+q anoCar1.scaffold_0 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------9-
+i anoCar1.scaffold_0 C 0 I 9607
+s ornAna1.chr2 14891101 103 - 54797317 C-------------TTTCTAGGACTCCGTTCACGGGGATCACTGACTTCTCTGTTACAAAGAACAAAATCATACAACTCTGCTTGGACTTGACAACTACGGTTCAGAAGGTCAG--------TT
+i ornAna1.chr2 C 0 I 4
+s sorAra1.scaffold_256646 108749 103 - 121936 T-------------TCCCTAGGACTCCCTTCACCGGGGTCACTGATTTCTCCGTGACGAAGAACAAGATCATCCAGCTGTGCCTGGACCTGACCACCACGGTCCAGAAGGTGGG--------TA
+q sorAra1.scaffold_256646 9-------------9997998999999999999799999997999999799998998999999999999999999999999999999999999999999999999999999999--------99
+i sorAra1.scaffold_256646 C 0 I 1074
+s otoGar1.scaffold_334.1-359464 353113 103 - 359464 C-------------TTCCTAGGGCTCCATTTACAGGGATCACTGATTTCTCAGTAACGAAGAACAAAATCATTCAGCTGTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+q otoGar1.scaffold_334.1-359464 9-------------9999999999999999999999988999997999999999999999999999999999999899999998997999999999999999999999999999--------99
+i otoGar1.scaffold_334.1-359464 C 0 I 14
+s hg18.chr6 16095779 103 - 170899992 C-------------CTTCTAGGGCTCCGTTTACAGGGATCACTGATTTCTCAGTCACGAAGAACAAAATTATCCAGCTTTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+i hg18.chr6 C 0 I 4
+s calJac1.Contig1260 72311 103 - 523245 C-------------CTTCTAGGGCTCCGTTTACAGGGATCACTGATTTCTCAGTCACGAAGAACAAAATCATTCAGCTTTGCTTAGACCTGACCACCACAGTCCAGAAGGTCAG--------TA
+i calJac1.Contig1260 C 0 I 4
+s rheMac2.chr4 108504636 103 + 167655696 C-------------CTTCCAGGGCTCCCTTTACAGGGATCACTGATTTCTCAGTCACGAAGAACAAAATTATCCAGCTTTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+q rheMac2.chr4 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i rheMac2.chr4 C 0 I 4
+s ponAbe2.chr6 16408195 103 - 174210431 C-------------CTTCTAGGGCTCCGTTTACAGGGATCACTGATTTCTCAGTCACGAAGAACAAAATTATCCAGCTTTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+i ponAbe2.chr6 C 0 I 4
+s panTro2.chr6 16619190 103 - 173908612 C-------------CTTCTAGGGCTCCGTTTACAGGGATCACTGATTTCTCAGTCACGAAGAACAAAATTATCCAGCTTTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+q panTro2.chr6 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i panTro2.chr6 C 0 I 4
+s tupBel1.scaffold_114895.1-498454 397692 103 - 498454 C-------------TTTCCAGAGCTCCATTTACTGACATCACTGATTTCTCAGTGATAAAGAATAAAATCATTCAGCTTTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+q tupBel1.scaffold_114895.1-498454 6-------------6954533746554467543520154536665485543455554797655358854654643546855234643654546325563352554356352533--------35
+i tupBel1.scaffold_114895.1-498454 C 0 I 4
+s cavPor2.scaffold_265563 3185 99 + 10554 ---------------TTCCAGGGCTCCATTTCCAGGGATCACTGA-CTCTCAGTAACAAAGAAC-AAATCATTCAGCTTTGCTTAGACCTGACCACTACAGTCCAGAAGGTCAG--------TA
+q cavPor2.scaffold_265563 ---------------111124223342347112345432234332-262452325145734355-4553233344235855455352464523634426342453433234745--------41
+i cavPor2.scaffold_265563 C 0 I 4
+s monDom4.chr2 106239440 116 - 541556283 CATTCTCTTTTCGTTTTCCAGGACCCCATTTACAGGGATCACTGACTTCTCAGTGACCAAGAACAAAATCATTCAGCTTTGCTTGGATCTGACCACCTCAGTTCAGAAGGTCAG--------TT
+q monDom4.chr2 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i monDom4.chr2 C 0 I 6
+s rn4.chr1 230011929 103 - 267910886 C-------------TTCCCAGGGCTCCATTCACAGGGATCACGGATCTGTCGGTAACAAAGAACAAAATCATCCAACTGTGCCTGGACCTGACCACAGCAGTCCAGAAGGTTGG--------TA
+q rn4.chr1 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i rn4.chr1 C 0 I 4
+s oryCun1.scaffold_214769 100644 103 - 139458 C-------------TTTTTAGGGCTCCGTTTACAGGCATCACTGATTTCTCAGTTACGAAGAACAAGATCATCCAGCTTTGCCTGGACCTGACCACCACAGTCCAGAAGGTCAG--------TG
+q oryCun1.scaffold_214769 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i oryCun1.scaffold_214769 C 0 I 4
+s eriEur1.scaffold_330084 115 102 + 5186 T-------------TTTCTAGGGCTCCATTCACTGGGATCTCAGATTTCTCAGCAACGAAGAACAAAATCATCCAGCTTTGCCTGGACCTGACCACCACGGTCCAGAAGGTGAG--------T-
+q eriEur1.scaffold_330084 9-------------9999999999999999999999999999999999999999999999999999999999999999998689999999999999999999999999999999--------9-
+i eriEur1.scaffold_330084 C 0 I 4
+s canFam2.chr1 78263194 103 - 125616256 C-------------TTTCCAGGGCTCCATTTACGGGGATCACTGATTTCTCAGTAACGAAGAACAAAATCATCCAGCTTTGCCTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TG
+q canFam2.chr1 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i canFam2.chr1 C 0 I 1
+s equCab1.chr31 13052860 103 + 24938454 C-------------TTTCTAGGGCTCCATTTACAGGGATCGCTGACTTCTCAGTAACGAAGAACAAAGTCATTCAGCTTTGTTTGGATCTGACCACTGCAGTCCAGAAGGTCAG--------TA
+q equCab1.chr31 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13731312 103 - 95030419 C-------------TTTCTAGGGCTCCATTTACAGGGATCACTGATTTCTCAGTGACGAAGAATAAAATTATTCAGCTTTGCTTGGACCTGACCACTACAGTCCAGAAGGTCAG--------TG
+q bosTau3.chr9 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------99
+i bosTau3.chr9 C 0 I 1
+s dasNov1.scaffold_13068 18912 102 + 27231 C-------------CTTCTAGGACTCCATTTACAGGGATCACGGATTTCTCAGTAACAAAGAACAAAATCATTCAGCTCTGCTTGGATTTGACCACTACAGTCCAGAAGGTCAG--------T-
+q dasNov1.scaffold_13068 7-------------5775666765766569657569555665587699576556658797667879957666756559455587356596676856769557976668446967--------5-
+i dasNov1.scaffold_13068 C 0 I 2
+s loxAfr1.scaffold_4233 66915 102 + 124190 C-------------TTTCTAGGGCTCCATTTACAGGCATCACTGATTTCTCTGTAACGAAGAATAAAATCATTCAGCTTTGCTTGGATCTGACTACCACAGTCCAGAAGGTCAG--------T-
+q loxAfr1.scaffold_4233 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------9-
+i loxAfr1.scaffold_4233 C 0 I 2
+s echTel1.scaffold_324002 46028 102 + 49972 C-------------TTTCCAGGGCTCCGTTTGCTGGGATCACAGATTTCTCCGTCACCAAGAACAAAATCATCCAACTGTGCCTGGATCTGACCACGACCGTGCAAAAGGTCAG--------T-
+q echTel1.scaffold_324002 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------9-
+i echTel1.scaffold_324002 C 0 I 3373
+s xenTro2.scaffold_2 3906861 103 + 7803671 G-------------GTTACAGAGCTCCATTTACAGAGATCACTGACTTATCTTCAACAAAGAATAAAATTATTCAGCTCTGTCTGGATTTAACAACAACAGTTCAGCAGGTCAG--------TC
+i xenTro2.scaffold_2 C 0 I 879
+s tetNig1.chr10 10161451 103 - 12859810 G-------------CTTGCAGGACACCTCTGACAGGAATCAGTGACTTTACAACCACCAAGAACAAGATCATCCATCTGTGTCTGGAGCTCACCACCACCGTTCAGCAGGTGTG------TA--
+i tetNig1.chr10 I 18 I 3398
+s fr2.chrUn 66174718 103 + 400509343 C-------------TTTGCAGGACACCGCTGACAGGGATCAGTGACTTCACCGCTACCAAGAACAAGATCATCCAGCTGTGTCTGGAGCTCACCACCACCGTCCAACAGGTCTG------TA--
+i fr2.chrUn I 612 I 2973
+s oryLat1.chr22 12878707 107 - 28810691 c-------------tCACCAGGACTCCCCTTACAGGGATTAGTGACTTCACAGCCACTAAAAACACCATCATCCAGCTGTGCCTGGAGCTCACCACCACAGTTCAGCAGGTCTGCCTTTG----
+q oryLat1.chr22 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----
+i oryLat1.chr22 C 0 C 0
+s gasAcu1.chrXV 12515669 101 - 16198764 G-------------CTCGCAGGACGCCTCTCATCGGGATCAGTGACTTCACGGATACCAAGAACAAGATCATTCAACTTTGCCTGGAGCTCACCACCACGGTTCAACAGGTCTG----------
+q gasAcu1.chrXV 9-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i gasAcu1.chrXV C 0 I 3845
+s danRer5.chr21 16472783 98 + 46057314 T-------------TCATCAGGTCTCCGTTCGCTGCCGTAGCCGACTACTCCATGACCAGGAATAATGTGATTCAGCTGTGCCTGGAGCTCACCACAATAGTTCAGCAGGT-------------
+i danRer5.chr21 I 1 C 0
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+
+a score=0.000000
+s mm9.chr10 3193684 4 + 129993255 ATGC
+e tetNig1.chr10 10161554 3398 - 12859810 I
+e gasAcu1.chrXV 12515770 3845 - 16198764 I
+e fr2.chrUn 66174821 2973 + 400509343 I
+e oryLat1.chr22 12878814 0 - 28810691 C
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16472881 0 + 46057314 C
+e rn4.chr1 230012032 4 - 267910886 I
+e galGal3.chr3 61577150 2570 - 113657789 I
+e bosTau3.chr9 13731415 1 - 95030419 I
+e monDom4.chr2 106239556 6 - 541556283 I
+e equCab1.chr31 13052963 1 + 24938454 I
+e rheMac2.chr4 108504739 4 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 217 4 + 5186 I
+e dasNov1.scaffold_13068 19014 2 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263297 1 - 125616256 I
+e ornAna1.chr2 14891204 4 - 54797317 I
+e loxAfr1.scaffold_4233 67017 2 + 124190 I
+e calJac1.Contig1260 72414 4 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397795 4 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 3284 4 + 10554 I
+e otoGar1.scaffold_334.1-359464 353216 14 - 359464 I
+e hg18.chr6 16095882 4 - 170899992 I
+e panTro2.chr6 16619293 4 - 173908612 I
+e ponAbe2.chr6 16408298 4 - 174210431 I
+e oryCun1.scaffold_214769 100747 4 - 139458 I
+
+a score=-260852.000000
+s mm9.chr10 3193688 25 + 129993255 -----------GTCATCATTGGCTTC------------CAG-A-AATTTT
+s rn4.chr1 230012036 25 - 267910886 -----------GTCATCACTGGCTTC------------TAG-A-ACATTC
+q rn4.chr1 -----------999999999999999------------999-9-999999
+i rn4.chr1 I 4 C 0
+s cavPor2.scaffold_265563 3288 20 + 10554 -----------ATCATTATGGGTTTC------------TAA-A-A-----
+q cavPor2.scaffold_265563 -----------246466435543855------------555-5-5-----
+i cavPor2.scaffold_265563 I 4 C 0
+s oryCun1.scaffold_214769 100751 23 - 139458 -------------TGGTACGGCGTTC------------TGC-C-TTTTTT
+q oryCun1.scaffold_214769 -------------9999999999999------------999-9-999999
+i oryCun1.scaffold_214769 I 4 C 0
+s tupBel1.scaffold_114895.1-498454 397799 25 - 498454 -----------ACAATCGTTGCTTTC------------TAA-A-ATTTGT
+q tupBel1.scaffold_114895.1-498454 -----------111525434434545------------357-7-557542
+i tupBel1.scaffold_114895.1-498454 I 4 C 0
+s panTro2.chr6 16619297 37 - 173908612 -----------GTCATTTTCACtttcttttttttttttttt-t-tttttt
+q panTro2.chr6 -----------999999999999999999999999999990-9-999999
+i panTro2.chr6 I 4 C 0
+s ponAbe2.chr6 16408302 30 - 174210431 -----------GTCATTTTCACTTTC-------TATTCTTT-T-TTTTTT
+i ponAbe2.chr6 I 4 C 0
+s rheMac2.chr4 108504743 29 + 167655696 -----------GTCATTTTCGCTTTC--------TAATTTT-T-TTTTTT
+q rheMac2.chr4 -----------999999999999999--------9999999-9-999999
+i rheMac2.chr4 I 4 C 0
+s calJac1.Contig1260 72418 24 - 523245 -----------GTCATTTTTGCTTTC-------------TA-A-TTTTAT
+i calJac1.Contig1260 I 4 C 0
+s hg18.chr6 16095886 34 - 170899992 -----------GTCATTTTCACtttc---tttttttttttt-t-tttttt
+i hg18.chr6 I 4 C 0
+s otoGar1.scaffold_334.1-359464 353230 24 - 359464 -----------ATTGTTATCACTTTC-------------TA-A-AATTCT
+q otoGar1.scaffold_334.1-359464 -----------999999999799999-------------99-9-999999
+i otoGar1.scaffold_334.1-359464 I 14 C 0
+s eriEur1.scaffold_330084 221 19 + 5186 -----------------GTCACTTCC------------TCA-A-CTGATT
+q eriEur1.scaffold_330084 -----------------999999999------------999-9-999999
+i eriEur1.scaffold_330084 I 4 C 0
+s canFam2.chr1 78263298 26 - 125616256 -----------ATCATTGTTGCTTTT------------CAACA-CTGTTT
+q canFam2.chr1 -----------999999999999999------------99999-999999
+i canFam2.chr1 I 1 C 0
+s equCab1.chr31 13052964 25 + 24938454 -----------ATCGTTGTCGCTTTC------------TCA-A-CTTCTT
+q equCab1.chr31 -----------999999999999999------------999-9-999999
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13731416 26 - 95030419 -----------ATCACTGTTGTTTTC------------TAAAA-GTTTTT
+q bosTau3.chr9 -----------999999999999999------------99999-999999
+i bosTau3.chr9 I 1 C 0
+s dasNov1.scaffold_13068 19016 26 + 27231 -----------ATCCTTGTTGCTTTC------------TAA-ATTTTTTT
+q dasNov1.scaffold_13068 -----------569772665779996------------889-58999999
+i dasNov1.scaffold_13068 I 2 C 0
+s loxAfr1.scaffold_4233 67019 25 + 124190 -----------AGCATTGCTGCTTTC------------TAA-A-TTTTTG
+q loxAfr1.scaffold_4233 -----------999999999999999------------999-9-999999
+i loxAfr1.scaffold_4233 I 2 C 0
+s monDom4.chr2 106239562 20 - 541556283 ----------------TTCTCCTTTT------------GCC-T-CTCCCT
+q monDom4.chr2 ----------------9999999999------------999-9-999999
+i monDom4.chr2 I 6 C 0
+s ornAna1.chr2 14891208 24 - 54797317 -----------TTTTTCATTTTTTTT------------CAT-A-GGTTT-
+i ornAna1.chr2 I 4 I 3970
+s galGal3.chr4 85339959 22 - 94230402 --------------TCCAGTATTTTC------------AAG-T-ACTTCT
+i galGal3.chr4 n 2570 I 1039
+s tetNig1.chr1 12771474 16 - 16827091 ---AGCACTCACAAACACA-------------------------------
+i tetNig1.chr1 n 3398 C 0
+s oryLat1.chr22 12878814 12 - 28810691 --TTGC-----GCCACAGT-------------------------------
+q oryLat1.chr22 --9999-----99999999-------------------------------
+i oryLat1.chr22 C 0 C 0
+s gasAcu1.chrXXI 11317450 8 + 11717487 -----------gtaattgt-------------------------------
+q gasAcu1.chrXXI -----------99999999-------------------------------
+i gasAcu1.chrXXI n 3845 C 0
+s danRer5.chr21 16472881 19 + 46057314 ATTAGCCTTTTAAAACTTT-------------------------------
+i danRer5.chr21 C 0 C 0
+e fr2.chrUn 66174821 2973 + 400509343 I
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+
+a score=-220518.000000
+s mm9.chr10 3193713 41 + 129993255 TCC---------TC--------ATG--------------------TT--TC---T------CTT----TTTTCCA---------------------------------------AGGGGTTCCCATATGGGT
+s rn4.chr1 230012061 41 - 267910886 TCC---------TC--------TTG--------------------TT--TC---T------TCT----TTCTCCA---------------------------------------AGGGGTTCCCATATGGGT
+q rn4.chr1 999---------99--------999--------------------99--99---9------999----9999999---------------------------------------999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 3308 41 + 10554 TTG---------TC--------TTG--------------------TC--CC---T------Att----tttttCA---------------------------------------AAGTGTTTCCATGAAGGT
+q cavPor2.scaffold_265563 432---------35--------321--------------------55--65---4------331----4345256---------------------------------------622354455553664325
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 100774 44 - 139458 TCT---------TC--------CCG--------------------TT--TCCTGT------GTC----TTCTTCA---------------------------------------AAGGGTTTCCATGCAGGT
+q oryCun1.scaffold_214769 999---------99--------999--------------------99--999999------999----9999999---------------------------------------999999999999999999
+i oryCun1.scaffold_214769 C 0 I 2621
+s tupBel1.scaffold_114895.1-498454 397824 20 - 498454 TTC---------TC--------CCT--------------------TTACCC---T------TTT----CT--------------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 653---------23--------643--------------------654463---6------884----21--------------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 2422
+s panTro2.chr6 16619334 39 - 173908612 ttt---------tG--------CTT--------------------TT--CC---T------CTT----CT--TGA---------------------------------------AAGGATTTTCATGCAGGT
+q panTro2.chr6 999---------99--------999--------------------99--99---9------999----99--999---------------------------------------999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16408332 39 - 174210431 TTT---------TG--------CTT--------------------TT--CC---T------CTT----CT--TGA---------------------------------------AAGGATTTTCATGCAGGT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108504772 39 + 167655696 TCC---------TG--------CTC--------------------TT--CC---T------CTT----CT--TGA---------------------------------------AAGGATTTTCATGCAGGT
+q rheMac2.chr4 999---------99--------999--------------------99--99---7------678----98--999---------------------------------------999995999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 72442 39 - 523245 TTT---------TC--------CTT--------------------TT--CC---T------TTT----CT--TGA---------------------------------------AAGGATTTTCATGCAGGT
+i calJac1.Contig1260 C 0 C 0
+s hg18.chr6 16095920 39 - 170899992 ttt---------tG--------CTT--------------------TT--CC---T------CTT----CT--TGA---------------------------------------AAGGATTTTCATGCAGGT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 353254 34 - 359464 TCT---------TG--------CTT--------------------T----------------TT----CT--TCA---------------------------------------AAGGATTTTCATGCAGGT
+q otoGar1.scaffold_334.1-359464 999---------99--------999--------------------9----------------99----99--999---------------------------------------999999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s eriEur1.scaffold_330084 240 50 + 5186 CCCTTGCCTTTTTC--------CAT--------------------TT--CC---C------CTC----TTTCTCA---------------------------------------GAGGGTTGATGCACAAGT
+q eriEur1.scaffold_330084 99999999999999--------989--------------------99--99---9------999----9999999---------------------------------------999998999989899999
+i eriEur1.scaffold_330084 C 0 C 0
+s canFam2.chr1 78263324 39 - 125616256 CCC---------TC--------CTT--------------------TG--CC---C------TATCCTATTCTTCA---------------------------------------GAGGGCTCACGT------
+q canFam2.chr1 999---------99--------999--------------------99--99---9------99999999999999---------------------------------------999999999999------
+i canFam2.chr1 C 0 I 686
+s equCab1.chr31 13052989 41 + 24938454 TCC---------TC--------CCT--------------------TT--TC---C------CAC----TTCATCA---------------------------------------AAGGGTTTACAGGCAGGC
+q equCab1.chr31 999---------99--------999--------------------99--99---9------999----9999999---------------------------------------999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13731442 37 - 95030419 TCC---------------------T--------------------TT--TC---C------CTT----TTCTTCA---------------------------------------AAGGATTTACATTCAGGT
+q bosTau3.chr9 999---------------------9--------------------99--99---9------999----9999999---------------------------------------999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 19042 34 + 27231 TCT---------TT--------CTT--------------------TT--TC---CTTTTTCCTC----TTCTTCA---------------------------------------AAGGA-------------
+q dasNov1.scaffold_13068 879---------99--------799--------------------65--89---9999999796----9979999---------------------------------------95688-------------
+i dasNov1.scaffold_13068 C 0 C 0
+s loxAfr1.scaffold_4233 67044 45 + 124190 TCT---------TC--------CTT--------------------TT--CC---C--TTTCTTC----TTCTTCA---------------------------------------GAGAGTTCACATGCAGAT
+q loxAfr1.scaffold_4233 999---------99--------999--------------------99--99---9--9999999----9999999---------------------------------------999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+s monDom4.chr2 106239582 30 - 541556283 TTC---------TC--------AGC--------------------TC--CC---T------CTT----CTATCAA---------------------------------------ATGAACT-----------
+q monDom4.chr2 999---------99--------999--------------------99--99---9------999----9999999---------------------------------------9999999-----------
+i monDom4.chr2 C 0 I 8625
+s tetNig1.chr1 12771490 64 - 16827091 -----TTGGACATT--------TGTCTCACCAGTCCATCTTAACCTT--GT---T------CGT----TTTTTCA--------------------------------------CGTGATCACATTATCGA--
+i tetNig1.chr1 C 0 C 0
+s oryLat1.chr22 12878826 51 - 28810691 -----TAGCATGTAGCACGatctaa--------------------ta--at---g------ttt----ttttcca---------------------------------------ctgagCACATTCCGGC--
+q oryLat1.chr22 -----99999999999999999999--------------------99--99---9------999----9999999---------------------------------------9999999999999999--
+i oryLat1.chr22 C 0 C 0
+s gasAcu1.chrXXI 11317458 43 + 11717487 -----ttgcgtgtg--------tgt--------------------gt--gt---g------tct----gttttga---------------------------------------aGGCTGTCATAccccc--
+q gasAcu1.chrXXI -----999999999--------999--------------------99--99---9------999----9999999---------------------------------------9999999999999999--
+i gasAcu1.chrXXI C 0 C 0
+s fr2.chrUn 150265558 41 - 400509343 ------------tg--------tgt--------------------gt--gt---g------tgt----gttttgaaggc----------------------------------CGATAGCTCATATTCTG--
+i fr2.chrUn n 2973 C 0
+s danRer5.chr21 16472900 82 + 46057314 -----TACATATTA--------CAT--------------------TT--AT---C------CTC----TTTTTTCCTACCCAGGAGTAGTTTAACCCAGAAGAAACATTTTGGCAATCATTCATTTCCAC--
+i danRer5.chr21 C 0 C 0
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+
+a score=-217805.000000
+s mm9.chr10 3193754 36 + 129993255 ------------------------ACAAAGTA------TTCAATC----------CTC-----------------CCCTTCCATCAAAATTTG
+s rn4.chr1 230012102 36 - 267910886 ------------------------ACAAAGTG------TTCAATC----------CTC-----------------CCTTCCCATCAGAGTTTG
+q rn4.chr1 ------------------------99999999------9999999----------999-----------------999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 3349 37 + 10554 ------------------------ATGAAATA------CCCCCAC----------CCC------------AGCTTTTTTCCCATCAGAA----
+q cavPor2.scaffold_265563 ------------------------54387221------1457966----------755------------4465665752933675682----
+i cavPor2.scaffold_265563 C 0 I 29
+s otoGar1.scaffold_334.1-359464 353288 29 - 359464 ------------------------ACGACGTACCATTCTCTCTTC----------CCC--------------TTTTT----------------
+q otoGar1.scaffold_334.1-359464 ------------------------999999999999999999999----------999--------------99999----------------
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s hg18.chr6 16095959 52 - 170899992 ------------------------ATGAAGTACTACTCTCCTCTC----------CCCACC-------TCAGTTTTTTTTCCATCAGAGCTGG
+i hg18.chr6 C 0 I 31
+s calJac1.Contig1260 72481 52 - 523245 ------------------------GTGAAGTACTGCTCTCCTCTC----------ACCACC-------TCAGTTTTTCTCCCATTGGAATTGG
+i calJac1.Contig1260 C 0 I 169
+s rheMac2.chr4 108504811 52 + 167655696 ------------------------GCGAAGTACAACTCTCCTCTC----------CCCACC-------TCAGTTTTTTTCCCATCAGAATTGG
+q rheMac2.chr4 ------------------------999999999999999999999----------999999-------9999999999999999999999999
+i rheMac2.chr4 C 0 I 32
+s ponAbe2.chr6 16408371 52 - 174210431 ------------------------ATCAAGTACCACTCTCCTCTC----------CCCACA-------TCAGTTTTTTTCCCATCAGAACTGG
+i ponAbe2.chr6 C 0 I 32
+s panTro2.chr6 16619373 52 - 173908612 ------------------------ATGAAGTACTACTCTCCTCTC----------CCCACC-------TCAGTTTTTTTCCCATCAGAACTGG
+q panTro2.chr6 ------------------------999999999999999999999----------999999-------9999999999999999999999999
+i panTro2.chr6 C 0 I 31
+s eriEur1.scaffold_330084 290 49 + 5186 ------------------------GTGAAGGACTGTTCTCTCTTTTtcaacccccccctcc----------------cccctatcAGAA----
+q eriEur1.scaffold_330084 ------------------------9899999989999999999999999976667762128----------------877333734478----
+i eriEur1.scaffold_330084 C 0 I 4154
+s equCab1.chr31 13053030 55 + 24938454 ------------------------ATGAAGTACCATTC----TTT----------CTCTCCCTGTTTTTTTTTTTTTTTCTCATCAGAATTGG
+q equCab1.chr31 ------------------------99999999999999----999----------99999099999999999999999999999999999999
+i equCab1.chr31 C 0 I 25
+s bosTau3.chr9 13731479 27 - 95030419 ------------------------ATGAAGTACCAGTCTGTATTT----------CTCTCC--------------------------------
+q bosTau3.chr9 ------------------------999999999999999999999----------999999--------------------------------
+i bosTau3.chr9 C 0 I 1384
+s dasNov1.scaffold_13068 19076 36 + 27231 ------------------------ATGGACTTCCATTCTGTTTTA----------TTC-----------------------CACCAGACTTGG
+q dasNov1.scaffold_13068 ------------------------934898998978986899998----------899-----------------------989989999564
+i dasNov1.scaffold_13068 C 0 I 37
+s loxAfr1.scaffold_4233 67089 36 + 124190 ------------------------ATGGAGTACCATTCTCTTTAT----------GTC-----------------------CATCCAAATCAA
+q loxAfr1.scaffold_4233 ------------------------999999999999999999999----------999-----------------------999999999999
+i loxAfr1.scaffold_4233 C 0 I 33
+s tetNig1.chr1 12771554 31 - 16827091 TTAAAACTGAAA-TGGCAGCACTTTTTGATTT-------------------------------------------------------------
+i tetNig1.chr1 C 0 C 0
+s oryLat1.chr22 12878877 23 - 28810691 CCAG---------GGGGCACAGACGTGCAGTT-------------------------------------------------------------
+q oryLat1.chr22 9999---------9999999999999999999-------------------------------------------------------------
+i oryLat1.chr22 C 0 C 0
+s gasAcu1.chrXXI 11317501 11 + 11717487 cc---------------------ccTTCACGA-------------------------------------------------------------
+q gasAcu1.chrXXI 99---------------------999999999-------------------------------------------------------------
+i gasAcu1.chrXXI C 0 C 0
+s fr2.chrUn 150265599 28 - 400509343 CCATAGCTG----TCACCTCCCTCCACgagta-------------------------------------------------------------
+i fr2.chrUn C 0 C 0
+s danRer5.chr21 16472982 32 + 46057314 TTGGTTTTAAAGCAGATTTTCCCCTCTTGTTC-------------------------------------------------------------
+i danRer5.chr21 C 0 C 0
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-35513.000000
+s mm9.chr10 3193790 39 + 129993255 GTG--------------CTTCTGCGAGG---AGC-------GATCA------GCAGCCTCAGGCTCAGA
+s rn4.chr1 230012138 39 - 267910886 ATG--------------CTTCTGTGAGA---AAT-------GACCA------GCAGCCTCAGGCTCACA
+q rn4.chr1 999--------------99999999999---999-------99999------99999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 3415 50 + 10554 ATGCATTATACAGTTAACTTCTGTGAAG---AAT-------GACCT------GTGGCctttatctt---
+q cavPor2.scaffold_265563 6568485963365553356666839769---793-------75999------86894999899999---
+i cavPor2.scaffold_265563 I 29 C 0
+s panTro2.chr6 16619456 46 - 173908612 -------GTAAAGATGGTTTCTCTGAAA---ACT-------GACCA------GTGGCCTTTGAATTAAA
+q panTro2.chr6 -------999999999999999999999---999-------99999------99999999999999999
+i panTro2.chr6 I 31 I 1
+s ponAbe2.chr6 16408455 46 - 174210431 -------GTAAAGATGGTTTCTCTGAAA---ACT-------GACCA------GTGGCCTTCGAATTAAA
+i ponAbe2.chr6 I 32 I 1
+s hg18.chr6 16096042 46 - 170899992 -------GTAAAGATGGTTTCTCTGAAA---ACT-------GACCA------GTGGCCTTTGAATTAAA
+i hg18.chr6 I 31 I 1
+s rheMac2.chr4 108504895 46 + 167655696 -------GTAAAGATGGTTTCTGTGAAG---ACT-------GACCA------GTGGCCTTTGAATTAAA
+q rheMac2.chr4 -------999999999999999999999---999-------99999------99999999999999999
+i rheMac2.chr4 I 32 I 1
+s otoGar1.scaffold_334.1-359464 353317 44 - 359464 ----------------GTTCTCCTCAGA---GTTGGAGAGAGATGA------AAGGCTTTAAAGTTAGA
+q otoGar1.scaffold_334.1-359464 ----------------999999999999---999999999999999------99999999999999999
+i otoGar1.scaffold_334.1-359464 C 0 I 1076
+s equCab1.chr31 13053110 51 + 24938454 ATGTATTGTGTAGATGGTTTC--TGAAA---AAT-------GACCA------GTGGCCTTTCCATCAAA
+q equCab1.chr31 999999999999999999999--99999---999-------99999------99999999999999999
+i equCab1.chr31 I 25 I 1
+s dasNov1.scaffold_13068 19149 40 + 27231 -------------GTGGTTTCTGTGAAA---AAT-------AACCA------GAGACCTTGGAATCAAA
+q dasNov1.scaffold_13068 -------------959999998958999---999-------99999------99999992899989999
+i dasNov1.scaffold_13068 I 37 I 1
+s loxAfr1.scaffold_4233 67158 40 + 124190 -------------ATGCTCTCAATGAAA---AAC-------GACCA------GTGGCCTTTCGATCAAA
+q loxAfr1.scaffold_4233 -------------999999999999999---999-------99999------99999999999999999
+i loxAfr1.scaffold_4233 I 33 I 1
+s tetNig1.chr1 12771585 27 - 16827091 --------------GATTGACAGTAGGG---AC-----------CA------GCTCCAT--------CT
+i tetNig1.chr1 C 0 n 0
+s oryLat1.chr22 12878900 42 - 28810691 --------------CAGATTTTGCGAGTAAAGTG-------TTGTG------GGAGATTTAATCTGGCA
+q oryLat1.chr22 --------------99999999999999999999-------99999------99999999999999999
+i oryLat1.chr22 C 0 I 25
+s gasAcu1.chrXXI 11317512 31 + 11717487 --------------CGGCGTGTGTGGGC---GCG-------ATGCG------GCAGCCT--------CA
+q gasAcu1.chrXXI --------------99999999999999---999-------99999------9999999--------99
+i gasAcu1.chrXXI C 0 n 0
+s fr2.chrUn 150265627 31 - 400509343 --------------gagtgtgtgtggga---gtc-------aCGCA------GCAGCCT--------CA
+i fr2.chrUn C 0 n 0
+s danRer5.chr21 16473014 45 + 46057314 --------------TTGTGTCTAAATAC---ACA-------AAACGAGCTGAACAACCTCCGGGTTGCA
+i danRer5.chr21 C 0 I 11
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e calJac1.Contig1260 72533 169 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-21673.000000
+s mm9.chr10 3193829 71 + 129993255 AACGACTT--------GATCTTATAAT---------------CACTAGTGCTTC---------------CGTATCTCTTTGAGCAGA--------------------------AACGGGGATTGTGGACTTGCAT
+s rn4.chr1 230012177 62 - 267910886 AATGACT----------GTCTTATACT---------------CACTGATGCTTC---------------TGTATCTCTTTGAAAAGA--------------------------AACTGGAATTGTGGA-------
+q rn4.chr1 9999999----------9999999999---------------999999999999---------------999999999999999999--------------------------999999999999999-------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16619503 102 - 173908612 ATTACCTTTTTTTGTGTGTTTTAAAATA----------GTCGAACTAATAGTTC--------------CTGTACTTCCCCTAAAATGTTAGAGCACTTAATTTTTTTTTT--TAATGAAAATTCTGGA-------
+q panTro2.chr6 9999999999999999999999999999----------9999999999999999--------------999999999999999999999999999999999999999999--9999999999999999-------
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16408502 114 - 174210431 ATTACCTCTTTTTGTGTGTTTTAAaata----------gttgaactaatagttcaactattagttgaactGTACTTCCCCTAAAATGTTAGAGCACTTAA--TTTTTTTT--TAATGAAAATTCTGGA-------
+i ponAbe2.chr6 I 1 C 0
+s hg18.chr6 16096089 102 - 170899992 ATTACCTTTTTGTGTGTGTTTTAAAATA----------GGCGAACTAATAGTTC--------------CTGTACTTCCCCTAAAATGTTAGAGCACTTAATTTTTTTTTT--TAATGAAAATTCTGGA-------
+i hg18.chr6 I 1 C 0
+s rheMac2.chr4 108504942 97 + 167655696 ATTACCTTTT--TGTGTGTTTTAAAATA----------GTCAAACTAATAATTC--------------CTGTATTTCCCCTAAAATGTTAGAACACTTAA---TTTTTTT--TAATGAAATTTCTGGA-------
+q rheMac2.chr4 9999999999--9999999999999999----------9999999999999999--------------99999999999999999999999999999999---9999999--9999999999999999-------
+i rheMac2.chr4 I 1 C 0
+s equCab1.chr31 13053162 92 + 24938454 ATGGCCTCTTT-----TGTTTTAAAATA----------GTTGAGCTAGGAGTCC---------------TGTACTTCCTCTAAAATGTTAGAATACTTAA----TTTTTT--AAATAGAAATGCTAGA-------
+q equCab1.chr31 99999999999-----999999999999----------9999999999999999---------------9999999999999999999999999999999----999999--9999999999999999-------
+i equCab1.chr31 I 1 C 0
+s dasNov1.scaffold_13068 19190 95 + 27231 ATGGTCTTCTTT----TACTTTAAAATA----------GTTGACCAAATAGTCT---------------TGTACTTCCTCTAAAATGTTAGCTTACTTAA----TTTTTTTAAACTAGAAATTCTGGA-------
+q dasNov1.scaffold_13068 989899999999----999999999999----------9978999999999999---------------8999999999999999999999999999999----999999999999999999996999-------
+i dasNov1.scaffold_13068 I 1 C 0
+s loxAfr1.scaffold_4233 67199 93 + 124190 ATTACCCTTTTT----TGTTTTAAAACA----------GTTGAGCAAATAGTTC---------------TGCATGTCCCCTAAAATGTTAGAGCACTTAA----TTTTTT--AAATAGAAAATCTGGA-------
+q loxAfr1.scaffold_4233 999999999999----999999999999----------9999999999999999---------------9999999999999999999999999999999----999999--9999999999999999-------
+i loxAfr1.scaffold_4233 I 1 C 0
+s danRer5.chr21 16473070 60 + 46057314 ----------------GGGTTGACCAAAACCAGTGCTTTATTTGTAAATGAATA-------------------ATTCCTGAAGCAAAACCGGGAA----------------------------------------
+i danRer5.chr21 I 11 I 6086
+s oryLat1.chr22 12878967 43 - 28810691 ----------------AGTCTGAGCACA----------TAATTGCAAAAGCGTA---------------TGtttttttGGGAAC---------------------------------------------------
+q oryLat1.chr22 ----------------999999999999----------9999999999999999---------------999999999999999---------------------------------------------------
+i oryLat1.chr22 I 25 I 3727
+s cavPor2.scaffold_265563 3465 61 + 10554 ----cttt--------tgttttaaaat---------------agttggGCTGTC--------------TTGTGCTTCCTCTCAAATA--------------------------TTCAAGCTTAATTTA-------
+q cavPor2.scaffold_265563 ----9999--------99799989999---------------869999999999--------------9999999999999999999--------------------------999999999999999-------
+i cavPor2.scaffold_265563 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e calJac1.Contig1260 72533 169 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=429418.000000
+s mm9.chr10 3193900 225 + 129993255 ATAGCCAAGTCTCACTGCCTTC-TTGTTCTGAGTGCTTTGCTGTGCTTTG----CTGATTCTGA--CTTTATT-TGACCTT-TGTTGTCGGGGT-CAAAGGTCAGGATGGGACAGTGTATGAGGCTGTAACAAATA---------CCCCCAGACCTTAGCAGTT------------------------TGTAAATGG----ATCCCACTGGGAAATGAGCTTTGGTTCTTCTCACAGCA---------------------------ATCAGTCAGCATCCTGGGTA-GCCTGTCCC-TCTG
+s rn4.chr1 230012239 235 - 267910886 ATAACCAAGTCCCACCATTTTC-GTGTTCTTAGTGCTTTGCTGTGCTTTG----CTGATTCTGA--CTTCATT-TGACCTC-AGTTGTTGGGGT-TAGAGGTCAGGATGGGACAGCTCATGAGGCTGTAGCAAATA---------ACCCCAAACCGTAGCAGTTT-----------ATTT-----ACATGTAAATGGAT--ATGCCCCTGGGAGATGAACTCTGGTTCTTCTTACCTCC---------------------------AACAATCAGCATCCTGCTTA-GACTGTCCC-TCTG
+q rn4.chr1 9999999999999999999999-999999999999999999999999999----9999999999--9999999-9999999-999999999999-99999999999999999999999999999999999999999---------99999999999999999999-----------9999-----99999999999999--99999999999999999999999999999999999999---------------------------99999999999999999999-999999999-9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 3526 247 + 10554 AATAGAAAGGCTCGCTATAATCTTTGTTCTTGGTACTTTATTA-AATGTG----TTGATTCTGATCTTTCACTGTGACCTCTAGTTGTTAGATT-TACCAAACACAGTAGGCTAAGTTACAAGGTCGTAACAACT------------TCTAAATGCCAGCAGTTTACACC----TCATTT-----ATATCCTAATGG------TCAACTAGAAGACATGCTGTGATTCTCCTTATTTCT-----------GGACAT--------AGAATAACTAGTATCTAATGTT-GTGTGTCCt-catg
+q cavPor2.scaffold_265563 9999999999999999999999999999999999999999999-999999----9999999999999999999999999999999999999999-9999999999999999999999999999999999999999------------99999999999999999999999----999999-----999999999999------999999999999999999999999999999999999-----------999999--------9999999999999999999999-999999999-9999
+i cavPor2.scaffold_265563 C 0 C 0
+s rheMac2.chr4 108505039 288 + 167655696 GTAACTAAGTTGCATGATAGTCTTTGTTCTGAGTACTTTACTG-TATCTGCTTCTTAATTTTCT--TTTCATTTTGGCCTCTCGTTTTTGGATT-TACCAGTCAGGATGGGCTAGGTTGTGGTGCAGTAGCAAACACCCCCCCAAACCTCAAACCTCGGCAGTTTATTCCTTGATTATTT-----ACATCCAAATGGGTCAGGGGCAGGGGACAGTCAGCTCTGACTTTCCTCATTTCAAAATGTAT--AGGACATAGATTGACAGAATCACTGTTATATCATGTT-GCTTGTTCC-CAAG
+q rheMac2.chr4 9999999999999999999999999999999999999979999-85888999999999999999--9999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999-999999999-9999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16096191 287 - 170899992 GTAACTAAGTTGCATGATAGTCTTTGTTCTGAGTACTTTACTA-TATCTGCTTCTTAATTTTCT--TTTCATTTTGGCCTCTTGTTGTTGGATT-taccagtcaggatgggctaggttgtggtacaggaacaaaca-acccccaaacctcaaaccttagcagtttattccttgattattt-----acatccaaatgggtcagggctagagggcaatcacctccgac--tcctcatttcaagatgtatacaggacataggttgacagaatcactagtatgtcatgtt-gcctttccc-caag
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16408616 289 - 174210431 GTAACTAAGTTGCGTGATAGTCTTTGTTCTGAGTACTTTACTA-TATCTGCTTCTTAATTTTCT--TTTCATTTTGGCCTCTTGTTGTTGGATT-TGCcagtcaggatgggctaggttgtggtacagtaacaaaca-gcccccaaacctcaaaccttagcagtttattccttgattattt-----acatccaaatgggtcaggggtagggggcaatcacctccgactttcctcgtttcaagatgtatataggacataggttgacagaatcaccaatatgtcgtgtt-gcctgtccc-caag
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16619605 287 - 173908612 GTAACTAATTTGCATGATAGTCTTTGTTCTGAGTACTTTACTA-TATCTGCTTCTTAATTTTCT--TTTCATTTTGGCCTCTTGTTGTTGGATT-taccagtcaggatgggctaggttgtggtacagtaacaaaca-acccccaaacctcaaaccttagcagtttattccttgattattt-----acatccaaatgggtcaggggtagagggcaatcacctccaac--tcctcatttcaagatgtatacaggacataggttgacagaatcactagtatgtcatgtt-gcctttccc-caag
+q panTro2.chr6 9999999999999999999999999999999999999999999-99999999999999999999--9999999999999999999999999999-99999999999999999999999999999999999999999-9999999999999999999999999999999999999999999-----99999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999-999999999-9999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 72702 276 - 523245 GTAACTAAGTTGTATGATAATCTTCGTTCTGAGTACTTTACTG-TATCTG---CTTAATTTTTT--TTTCATTTTGGCCACTTG---TTGGATT-taccagtcagaatgggctaggttgtggtaaagtaacaaaca-acccccaaaccttaaacctc--cagtttattccttgtttattt-----acatccaaatgggtcaggggcagggagcaagcagctctgactttcc---ttgcaagatgtgt--aggacataggttgacagaatcaccggtatgtcatgtt-gcttgtccc-caag
+i calJac1.Contig1260 I 169 C 0
+s equCab1.chr31 13053254 265 + 24938454 GTAACTAAATTTCACTATCCTCTTTATTTTAAATACCTTACTG-TGTCTGCTTCTTAGTTTTCT--TTTCATTTCGACCTC-TGTGGTTGGCTT-taccagtcaggatgtgctaagttatgatgtagtaacaaata--------acccacaaacctcagcactttattgcttggttatct-----gtatcccaatgggtcagttt-----agggatctgctttaattctccccacttca-----------ggatgcagactggcagaacaagcagtatctcatgtt-gcttgagcc-tgtg
+q equCab1.chr31 9999999999999999999999999999999999999999999-99999999999999999999--999999999999999-999999999999-99999999999999999999999999999999999999999--------999999999999999999999999999999999999-----99999999999999999999-----99999999999999999999999999999-----------999999999999999999999999999999999999-999999999-9999
+i equCab1.chr31 C 0 C 0
+s dasNov1.scaffold_13068 19285 249 + 27231 GCAATTAAATGTCATTATAATCTTTGTTCTGATTACCTTACTG-CATATGCTTCTTGATTTTCT--TTTCATTTTGAGCTCTGGTTATTGGGCA-tatcagtcaggacgggctaggttatgatgcagtaacaaaca--------attccaaaacctctgcagtttatttctggatcatct-----acatccaggcagttcag-----ctgggggatttgctccatttctcctgacttca-----------ggac-----------------ctagTATCTCATGTT-TCCTGTCTC-CATG
+q dasNov1.scaffold_13068 9999999999999999999879998999989999999999999-99999999999999999999--9999999999999999999999999999-99999999999999999999999999999999999999999--------999999999999999999999999999999999999-----99999999999999999-----99999999999999999999999999999999-----------9999-----------------999999999999999-999999999-9999
+i dasNov1.scaffold_13068 C 0 I 4136
+s loxAfr1.scaffold_4233 67292 252 + 124190 ATAGTTTAATTTTACTACAGTCTTTGCCCTATGTATCTTACTG-TATCTTCTTTGTAATTGCCT--TTCCATTTCAACCCCTGGTCAATGGGCATtatcagtcaggatgggctaggttatgatgcagtaacaaaca--------actccccaatctcagt-gtttactctttcatcatgttatgggtgttcaaacagattgg-----ctagggaatatgctacagttttc----ctcca-----------ggac-----------------ctaggatgacatatcagcctgtatctcatg
+q loxAfr1.scaffold_4233 9999999999999999999999999999999999999999999-99999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999--------9999999999999999-99999999999999999999999999999999999999999-----99999999999999999999999----99999-----------9999-----------------999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 7
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=228839.000000
+s mm9.chr10 3194125 148 + 129993255 TCCCACTGCAGAGTG------------------------TGTCTTAGTGGTTCTTGCACTCTGG-GTTGAACTGACGTCTCAGATCCCCTCATGCCTTCCAGT-TAGACATGGATCTGTA-----------------------------AACC-------------TGTAACGTTTTATGTT----AGCCTATGGTTTGTTTAGCTTCTATGATATTAA-C
+s rn4.chr1 230012474 152 - 267910886 TCCCCCAGCAGAGAGACA--------------------CCGCCTTGGTGGTTCTTATGCTCTGGTATTGAACTGACGTGTCAG-TCCCCTCATGCCTTTCAGT-GAGACATGGATGTTTT-----------------------------CACC-------------TGTAAAGTTTTGTGTT----ACTTTGTAATTTGTCTAGCGTCTATGGTATTAA-C
+q rn4.chr1 999999999999999999--------------------999999999999999999999999999999999999999999999-9999999999999999999-9999999999999999-----------------------------9999-------------9999999999999999----999999999999999999999999999999999-9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 3773 167 + 10554 ---------agagagagaaaaagaactttGAAG-GTTGCCACATCGATGTATCTTCTGGTCTGGAAGTGAC---ACATGTCAATTTCACTCAGGGCTCATTGTCTGGTTCTAGGTATTTTAGCAAG-----------------------AGCC-------------CAAGAAATTTTATATC----TGTCTTTGACTTACCTAGCTTCTGTGATACTAA-C
+q cavPor2.scaffold_265563 ---------999999999999999999999999-9999899999999999999999999999999999999---9999999999999999999999999999999999999999999999999999-----------------------9999-------------9999999999999999----999999999999999999999999999999999-9
+i cavPor2.scaffold_265563 C 0 C 0
+s rheMac2.chr4 108505327 171 + 167655696 -------GCAGAGAAGTA---AAAATCGTGAAG-GTCCACACACTGACTGATGTTCTGAATTGCAAGTGAC---ACATGTCAGTTTCACTCATGGCTCATTGCCCAGACCTAGGTATCTTAGTAAA-----------------------GGCT-------------CAGGAAGTTTTATATTAGCCAGTCTGTAACTGATTGAGCTTCTGTGATCTTAACT
+q rheMac2.chr4 -------99999999999---999999999999-9999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999-----------------------9999-------------9999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16096478 170 - 170899992 -------gcagaaaggta---aaaaccatgaag-gtcctcacactgactgatgttctggactgcaagtgac---acatgtcaatttcactcatggctcattgcccagaCCTAGGTATCTTAGTAAA-----------------------GGCT-------------CAGGAAGTTTTATATTAGCCAGTCTGTAACTGATTGAGCTTCTGTGATCTTAA-T
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16408905 170 - 174210431 -------gcagaggggta---aaaaccatgaag-gtcctcacactgactgatgttctggactgcaagtgac---acctgtcaatttcactcatggctcgttgcccagaCCTAGGTATCTTAGTAAA-----------------------GGCT-------------CAGGAAGTTTTACATTAGCCAGTCTGTAACTGATTGAGCTTCTGTGATCTTAA-T
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16619892 170 - 173908612 -------gcagaaaggta---aaaaccatgaag-gtcctcacactgactgatgttctggactgcaagtgac---acatgtcaatttcactcatggctcattgcccagaCCTAGGTATCTTAGTAAA-----------------------GGCT-------------CAGGAAGTTTTATATTAGCCAGTCTGTAACTGATTGAGCTTCTGTGATCTTAA-T
+q panTro2.chr6 -------99999999999---999999999999-9999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999-----------------------9999-------------99999999999999999999999999999999999999999999999999999-9
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 72978 152 - 523245 -------gtagagaggta---aaaatcatgaag-ggcctcacactgacggatgttctggattggaagtgac---a--tgtcagtttcactcatgcctcattgcccagaCCTAGGTATCTTAGTAAA-----------------------AGCT-------------CAGAAAGTTTTATATTAGCCAGTCTATAACTGACTGCG-----------------
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13053519 192 + 24938454 -------gcagagg-----------------ag-gttctcacactgacaaatgtcctggtttggaagtgac---tcatgtccatttcactcccagctcattggccagacctaagtATCTTAGCAAGTATCTTACCAGATCTAAGTATCTGGCTAATCTTCCTTAGCCAGGAAGATTTGTATCAGTCGGTCTGTAACTCACCTGGCTTCTGTAACCTGAA-C
+q equCab1.chr31 -------9999999-----------------99-9999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_4233 67551 179 + 124190 tcccatggcagagggaca--aagagccgtggagagttttcatactgacagacgttcttggtgggaagtgat---ccttatcaattccactcacagctctttggccagaCCCGGATATATTAATGAG-----------------------GGCC-------------CAAGAAGTTTTACCTCAGTCTACTTATGACTTAACTAGCTTCCGTGACCTTAC-C
+q loxAfr1.scaffold_4233 999999999999999999--999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999-----------------------9999-------------99999999999999999999999999999999999999999999999999999-9
+i loxAfr1.scaffold_4233 I 7 I 44
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=12853.000000
+s mm9.chr10 3194273 21 + 129993255 TAAAA-----------AGATAGATAATGAGTG
+s rn4.chr1 230012626 21 - 267910886 TAAAA-----------AATAGGATTATGAGTA
+q rn4.chr1 99999-----------9999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 3940 22 + 10554 AAAAA----------TTGTCAGTCTGTCGGCA
+q cavPor2.scaffold_265563 99999----------99999999999999999
+i cavPor2.scaffold_265563 C 0 C 0
+s rheMac2.chr4 108505498 32 + 167655696 TTAAAAAAAAAATTCTTCTTCTACCATCAGCT
+q rheMac2.chr4 99999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16096648 32 - 170899992 TTAAAAAAAAATTTCTTCTTGGACCATCAGCT
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16409075 32 - 174210431 TTAAAAAAAAATTTCTTCTTGGACCGTCAGCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16620062 32 - 173908612 TTAAAAAAAAATTTCTTCTTGGACCATCAGCT
+q panTro2.chr6 99999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 73130 10 - 523245 ----------------------ACCATCGGCT
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13053711 32 + 24938454 TTTTAAAAATATTTCTTATTAGACCATCAGCT
+q equCab1.chr31 99999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_2 3906964 879 + 7803671 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 67730 44 + 124190 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=53732.000000
+s mm9.chr10 3194294 48 + 129993255 ----CT-AAGACCAGCTGCTGC---CCTGTTACTTGGCATAT--AGCAGATT---CTT-TTT
+s equCab1.chr31 13053743 46 + 24938454 ----CTTAAGGTCACTTGCTGT---CATATTACCTGGCACAT--AGCAAAGA---CTT----
+q equCab1.chr31 ----999999999999999999---99999999999999999--99999999---999----
+i equCab1.chr31 C 0 I 202
+s calJac1.Contig1260 73140 38 - 523245 ----CTTAGGACTACCTTCTGT---CTTG----TTGGCATGC--AGCAGAT-----------
+i calJac1.Contig1260 C 0 I 860
+s panTro2.chr6 16620094 48 - 173908612 ----CTTAGGACTACCTTCTGT---CCTGTTACTTGGCGTGC--AGCAGATG---CTTGT--
+q panTro2.chr6 ----999999999999999999---99999999999999999--99999999---99999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16409107 46 - 174210431 ----CTTAGGACTACCTTCTGT---CCTGTTACTTGGCATGC--AGCAGATG---CTT----
+i ponAbe2.chr6 C 0 I 98
+s hg18.chr6 16096680 48 - 170899992 ----CTTAGGACTACCTTCTGT---CCTGTTACTTGGCATGC--AGCAGATG---CTTGT--
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108505530 45 + 167655696 ----CTTAGGACTACCTTCTGT---CCTGTTACTTGGCATGC--AGCAGATG---CT-----
+q rheMac2.chr4 ----999999999999999999---99999999999999999--99999999---99-----
+i rheMac2.chr4 C 0 I 99
+s cavPor2.scaffold_265563 3962 50 + 10554 ----CTGAAGACCACCTCCTGC---CATATTACTTGGCATATCCAAcacata---ttt-tt-
+q cavPor2.scaffold_265563 ----999999999999999999---999999999999999999999999999---999-99-
+i cavPor2.scaffold_265563 C 0 I 83
+s rn4.chr1 230012647 37 - 267910886 ----CT-AGGACCAATTGCAGT---CCTGTTACTTGGCATAT--AAC---------------
+q rn4.chr1 ----99-999999999999999---99999999999999999--999---------------
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_287 593495 48 + 1474830 CCAATT--------CCTTTTGTGTCCTTGTTACTTAGCATTA--TTCAGATTTGCTTT----
+i xenTro2.scaffold_287 n 879 C 0
+s loxAfr1.scaffold_4233 67774 42 + 124190 -----------TCATCTCCTGT---CTTAGTACGTGGCATGT--AGCAAACA---CTTGT-T
+q loxAfr1.scaffold_4233 -----------99999999999---99999999999999999--99999999---99999-9
+i loxAfr1.scaffold_4233 I 44 I 205
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-12058.000000
+s mm9.chr10 3194342 100 + 129993255 TTTTTTTGTAATCATATGATTTTAATTACACCAACCTTCATTTTCTGATCTGGC--TGTTTA------------TTG-CCATATCCATACAATTAATTATCAAACTGTTTTTAAA
+s panTro2.chr6 16620142 14 - 173908612 -----------------------------------------------------------------------------------------------------AAAATATTTTTGAA
+q panTro2.chr6 -----------------------------------------------------------------------------------------------------99999999999999
+i panTro2.chr6 C 0 I 103
+s hg18.chr6 16096728 14 - 170899992 -----------------------------------------------------------------------------------------------------AAAATATTTTTGAA
+i hg18.chr6 C 0 I 103
+s xenTro2.scaffold_287 593543 107 + 1474830 TTACTTTGCTTTTGCACATTGTACATTCTGTCTATTTTCATTTCCTTCTCTCCCTTTGTTTACAATGTGGCTATTTGTCTATGTCTACTGCATCAATACCCACACTG--------
+i xenTro2.scaffold_287 C 0 n 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e rn4.chr1 230012684 0 - 267910886 C
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e equCab1.chr31 13053789 202 + 24938454 I
+e rheMac2.chr4 108505575 99 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 67816 205 + 124190 I
+e calJac1.Contig1260 73178 860 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4012 83 + 10554 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e ponAbe2.chr6 16409153 98 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3194442 1086 + 129993255 TGACAAACATATTCATTTGTATCTTttttttttccttttttatttaattaggtattttcttcatttacatttcaaatgctatcccagaagtctcccagacccctccattcccatttcttggccctggcattcccctatactgaggcatataaagtttgcaagaccaaggggcctctcttcccactgatggccgactaggccatcttctgctacatttgcagctagagacacgagctccggggggtactggttagttcatattgttgttccacctatagggttgcagacccctttagctccttgggtactttctctagctcttccattgggggccctgtgttccatccagtagttgactgtgagcatccacttctgtgtttgccaggcaccagcatagcctcacaagagatagttatatcaggctcctttc [...]
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 n
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e rn4.chr1 230012684 0 - 267910886 C
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e equCab1.chr31 13053789 202 + 24938454 I
+e rheMac2.chr4 108505575 99 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 67816 205 + 124190 I
+e calJac1.Contig1260 73178 860 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4012 83 + 10554 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e hg18.chr6 16096742 103 - 170899992 I
+e panTro2.chr6 16620156 103 - 173908612 I
+e ponAbe2.chr6 16409153 98 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=16708.000000
+s mm9.chr10 3195528 360 + 129993255 AGATTCTTAAAAAATTGTTTTTGAACTGAATTTCTTATGAATATAAGGAGTGGA---TTTTCTCCTTTCTATCTATTTGGTTTTAGAGATTTTATTTTTTTTATTTTACTAAGAGGGGTGTGTGTCCCCTGTGTATGTGTATACCTCTATGAATGTCTGTGtgtgtgtgtgtgtctgtgcacatgagtgcacatgtct-gagtctagaaagcagcggatcccttgaagctggcgatacaggtgcttctgcagctcccattttgaacctggggatggaacttgggtcctctgtgatattagctcctcactactgagccac-cctcagtctctccaTGCGGCTTTAAACGTGGAGATGTGCTGGTGG
+s rn4.chr1 230012684 342 - 267910886 AGATTCTTAAAAA-TCATTTTTGGATTGAATTTCTTATGAATATGTAAGGAGGAGATTTTTCTCTTTTCTATCTATT-GGTTTTAAAGATTATCTTTTTTCTTTTTCTCC-------------GTCCCCTGTGTGTATGTATATCTCTGTGGATGTttgtgtatgtacatgt--cagtgcacatgagtatggatgtccagagtctaga--gcaacagatccttcacagcaggagttaaaggtgcttctgaagctcccatttggatactgggaatcggacttgggtc-tctgtgatattagctcctaactactgagccatatcccagtctcTCCTTGTGATTTTAAACTCTGTGATGTG---ATGA
+q rn4.chr1 9999999999999-999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999-------------9999999999999999999999999999999999999999999999999--9999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999---9999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e equCab1.chr31 13053789 202 + 24938454 I
+e rheMac2.chr4 108505575 99 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 67816 205 + 124190 I
+e calJac1.Contig1260 73178 860 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4012 83 + 10554 I
+e otoGar1.scaffold_334.1-359464 353361 1076 - 359464 I
+e hg18.chr6 16096742 103 - 170899992 I
+e panTro2.chr6 16620156 103 - 173908612 I
+e ponAbe2.chr6 16409153 98 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=67562.000000
+s mm9.chr10 3195888 92 + 129993255 TTGTTTTTAGGCATGGTCTGATTAAAA-AAAAAG----TCCTTCCCCCTTATTCCTGACTGTGCAGTAACCGAGGCAGGGGTGTGTGTATGTGTATG
+s rn4.chr1 230013026 89 - 267910886 TTGTTTCTATGGTTGATCTGATAAAAACAAAAAG----TCCTTCCC--TTATTCCTGACTG--CAGCAACAGAGGCAGgtgtgtgtgtgtgtgtgtg
+q rn4.chr1 9999999999999999999999999999999999----99999999--9999999999999--9999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 4095 88 + 10554 TTGTTTCCACAGCTCATTTggcaaaaa-ataaagaacatctTTTCC--TCAGTCCTGACTGTGGTGTAACAGAG------ATGCAATTGTGAAAAGC
+q cavPor2.scaffold_265563 999999999999999999999999999-999999999999999999--99999999999999999999999999------99999999999999999
+i cavPor2.scaffold_265563 I 83 C 0
+s ponAbe2.chr6 16409251 88 - 174210431 TTGTTTCTACTGCTGATTTGGCAAAAC-ATAAAGAGCATCCTCCCT--TCTGTCCTGACCATGCCATAACAGAG------ATGCAACTCTGAAAAGC
+i ponAbe2.chr6 I 98 C 0
+s rheMac2.chr4 108505674 86 + 167655696 TTGTTTCTACTGCTGATTTGGCAAAGC---AAAGAACATCCTCCCT--TCTGTCCTGACCGTGCCATTACAGAG------ATGCAGTTCTGAAAAGC
+q rheMac2.chr4 999999999999999999999999999---9999999999999999--99999999999999999999999999------99999999999999999
+i rheMac2.chr4 I 99 C 0
+s otoGar1.scaffold_334.1-359464 354437 61 - 359464 --------------------------T-AAAAAGAACATCCTTCCC--TTGATCCTGACCATGCCG-GACAGAG------GTACAGTTCTGAAAAGC
+q otoGar1.scaffold_334.1-359464 --------------------------9-999999999699999999--999999999999999999-9999999------99999999999999999
+i otoGar1.scaffold_334.1-359464 I 1076 C 0
+s panTro2.chr6 16620259 65 - 173908612 -----------------------AAAC-ATAAAGAACATCCTCCCT--TCTGTCCTGACCATGCCATAACAGAG------ATGCAATTCTGAAAAGC
+q panTro2.chr6 -----------------------9999-999999999999999999--99999999999999999999999999------99999999999999999
+i panTro2.chr6 I 103 C 0
+s hg18.chr6 16096845 65 - 170899992 -----------------------AAAC-ATAAAGAACATCCTCCCT--TCTGTCCTGACCATGCCATAACAGAG------ATGCAATTCTGAAAAGC
+i hg18.chr6 I 103 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13731506 1384 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e equCab1.chr31 13053789 202 + 24938454 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 67816 205 + 124190 I
+e calJac1.Contig1260 73178 860 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=425245.000000
+s mm9.chr10 3195980 244 + 129993255 TATGTGG--------------------------------------CCCTCTGTAACAC--AGAATAAAGTGTGGCTGTGTTTGTGCCAGTTATTTGAGATCTAGTCCTGAGCAGCCACTGTGTTTGAAGC-------------------ACATC--------TGCTCTGCTAGAAGTGCCCAGAGGCACTGAAGGGATCT----GGTTTTGCTCATT-TTTATGACGTATGAGGTAATTTTGAT-GGAAAGAATCTGACATCAGCTGTGATACATGAGGGCCATGGAGTCTAAGTCCAGGCGTTGATGGCGGAAAGT
+s hg18.chr6 16096910 272 - 170899992 CGTGCTT-----------------------------TTTCTGGTTGTTTCTGGAATGTGAATTGTGAACTTTGTCTCTGCACGTGGCAGTTGTTT--GCTCTAGTCCTGAGCAGCCATTGTTCTCAAGGCA-------------CATGGAGTTTTGAGGTCATGATCTTAGAAAGGTGCTCAGAGCAAGTAAAGTAGCTTCTGAGTTTTTGCTCTTT-TTTATGGTGCATAAAGTAATTTTGACAAAAAAGAGTCTGATACCAGTTGTGATGCATTAGTCATACAGCCATGAAGGCATGGCATTTGTGGTTGAAGGC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16620324 272 - 173908612 CGTGCGT-----------------------------TTTCTGGTTGTTTCTGGAATGTGAATTGTGAACTTTGTCTCTGCACGTGGCAGTTGTTT--GCTCTAGTCCTGAGCAGCCATTGTTCTCAAGGCA-------------CGTGGATTTTTGAGGTCATGATCTTAGAAAGGTGCTCAGAGCAAGTAAAGTAGCTTCTGAGTTTTTGCTCTTT-TTTATGGTGCATAAAGTAATTTTGACAAAAAAGAGTCTGATACCAGTTGTGATGCATTAGTCATACAGCCATGAAGGCATGGCGTTTGTGGTTGAAGGC
+q panTro2.chr6 9999999-----------------------------99999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999-------------9999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s otoGar1.scaffold_334.1-359464 354498 246 - 359464 CGAGTGT-----------------------------TTTCTGTCTGTTTTTGGAACATGAATTGTGAACGTTAGCTTTACACATGACAGTCGTTTGAGATCTAGTCCTGAGCAGCCACTG-------GGC-----------------------TTGAGGCTACGATCTTGGAG----GCTCAGAGCAGCTAGTGTGGGTCCGTGG--TTTGCTCTGTACTTGGGGCATGTAAAGTAA--CTGAC-ATATGGAGTCTGAT-TCAGTGGTGCTGCGTTAGTCATGTAGCCCTGGAGGCCTGGCGTGTTAGG--GAAGGG
+q otoGar1.scaffold_334.1-359464 9999999-----------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------999-----------------------99999999999999999999----9999999999999999999999999999--999999999999963778697999999999--96799-99947993993976-7998678466568786653545731229732732256476775557445--765656
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s rheMac2.chr4 108505760 272 + 167655696 CGTGCGT-----------------------------TTTCTGGTTGTTTCTGGAATGTGAATTGTGAACTTTGTCTCTGCACGTGGCAGTTGTTT--GCTCTCGTCCTGAGCAGCCATTGTTCTCAAGGCA-------------CATGGATTTTTGAGGTCGTGATCTTAGAAAGGTGCTCAGAGCAACTAAAGTAGCTTCTGAGTTTTTGCTCTTT-TTTATGATGCGTAAAGTAATTTTGACAAAAAAGAGTCTGATACCAGTTGTGATGCGTTAGTCATACAGCTATGAAGGCATGGCATTTGTGGTTGAAGGC
+q rheMac2.chr4 9999999-----------------------------99999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999-------------9999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16409339 272 - 174210431 CATGCAT-----------------------------TTTCTGGTTGTTTCTGGAATGTGAATTGTGAACTTTGTCTCTGCACGTGGCAGTTGTTT--GCTGTAGTCCTGAGCAGGCATTGTTCTCAAGGCA-------------CATGGATTTTTGGGGTCATGATCTTAGAAAGGTGCTCAGAGCAAGTAAAGTAGCTTCGGAGTTTTTGCTCCTT-TTTATGATACATAAAGTAATTTTGACAAAAAAGAGTCTGATACCAGTTGTGATGCTTTAGTCATACAGCCATGAAGGCATGGCATTTGTGGTTGAAGGC
+i ponAbe2.chr6 C 0 C 0
+s cavPor2.scaffold_265563 4183 245 + 10554 TATGTGG---------------------------------------TCTCTGTAAAATGAGGAATTAAGTTTGGCTCTGCCCATGGAAAGTGTTTGAGATCCAGTTCTGAGCAGCCGTTGAATTTTAGGC--------------CATGTACTTTTGAGACTATGATCTGAGAAAGGTGCCCAGAGCTATTAAATGG-----------TTTGCTAA-G-TTTATGGTGCACAAGGTAACTTTGGC-CG-----TCTTGACAGTAACCTTTACCCGTGAATCGTACAGTCTCGGAGGTCTTATGCTGGTGGTGGAAGGC
+q cavPor2.scaffold_265563 9999999---------------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------9999999999999999999999999999999999999999999999999999-----------99999999-9-99999999999999999999999999-99-----99999999999999999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230013115 266 - 267910886 tgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtCCATCCATCCCTCTGTAAAAC--AGAATAAAGTGTGGCTTCGTTTGTGCCAGTTCTTTGAGAtccagtcctgagcagccaccgagtttgaagc-------------------acatt--------tgatctgccagaggtgcccagaggCACTGAAGGGATCT----GGTTTTGCTCATT-TTTATGACGTATGAGGTCATCTTGAT-GGAAAGAGTCTGACATCAGCTGTGATACATGAGTG--------TCTGAGACCA--------CAGTGGAAGGT
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999-------------------99999--------99999999999999999999999999999999999999----9999999999999-99999999999999999999999999-99999999999999999999999999999999999--------9999999999--------99999999999
+i rn4.chr1 C 0 C 0
+s loxAfr1.scaffold_4233 68021 256 + 124190 TG--------------------------------------TGTTGGTTTCTGGAACGTGAAGAGTGGAGTTTGGCCTTGCACGTAGCCGTTGTTTGAGATTTAGTCCTGAGCAGCTGTGGAACTCCAGGCTTACTTGATTTCATCCTGTGTCTCTGAGGCCAGGTTCTTAGAAAGGCGCTCTGAG---------------------TTCTGTTCTTTTTTTGTGAAGTGTAAAGTTATTTTGAC--AAAAGAATGAGATACCAATTGTGCCGCATTAATCATATAGCCACTGAGCCCTGACATTTGTGGGGGGACGC
+q loxAfr1.scaffold_4233 99--------------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------------------99999999999999999999999999999999998999--99999999999999997999999899999999999999987999889999989989999999999999869
+i loxAfr1.scaffold_4233 I 205 C 0
+s bosTau3.chr9 13732890 251 - 95030419 -------------------------------------------------CTGGAACATGAAGAGTGAAGTT------------TGGCTGTTGTTTCGGGTCCAGTCCTGAGCGGCCCTTGAACTTGAGGCATGTGTGACTTCATCATATGCTTTTGAGGCCATGTTTTTAGAAAAGTGCCCAGAGCA-ATAGAGAGATGC-TGAGTTTCAGCTCTTTCTTTATGGTGTATAAAGTAATTTTGAC-AAAA--AATCGGATACCAGTCATGCTGTATTCATTATGTAGCCATCATGTCCTGGCATTTCTGGTGGAGGGT
+q bosTau3.chr9 -------------------------------------------------9999999999999999999999------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999-9999999999999999999999999999999999999999999-9999--999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 1384 I 495
+s equCab1.chr31 13053991 273 + 24938454 ----------------------------------------TGTGTCTTCCTGGAACTTGAAGAGTGAAGTT-GGCTTTGCACGTGGCAGCTGTATGTGGTCCAGTCCTGAGCCGCCATTGAACTTAAGGCATGTGTGGCTTCATTATATGCTTTTGAGGCCATGTTCTTAGAAAGGAGCATGGAGCATCTCATGGGACTC-TGCGTTTCTGCTCTTT-TTTATGATGTGTAAAATAATTTTGAC-AAAAAGAGTCTGGTACCAATTGTGGTACATTAATCATACAGCCACGGAGTCCTGGCATTGGTGGTAGAAGGC
+q equCab1.chr31 ----------------------------------------9999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999909999999999999999999-9999999999999999-99999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 202 I 4
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e calJac1.Contig1260 73178 860 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=101070.000000
+s mm9.chr10 3196224 91 + 129993255 ATTTCCC-AACGCTTGCTACCATGAGGGCACTCTTCCCTGTTCTATTCCCTTACTGTTCTTCCCTTACTAT-TCTGATTGCTTGTTTTGATTT
+s rn4.chr1 230013381 75 - 267910886 ATTTCCC-AATGCT-----ACCTGAGGGTGCTCTCCCTT-----------CCAGTTCCCTCCCCTTACTGT-CCTGGTTGCTTGTTTGGGTTT
+q rn4.chr1 9999999-999999-----99999999999999999999-----------999999999999999999999-999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 4428 80 + 10554 ATTTCCCTGATActtt---cctttagtgctctttttctt----------cctgcttccctcttcccatcatattttgcttcttcttttgatGG
+q cavPor2.scaffold_265563 9999999999999999---99999999999999999999----------99999999999999999999999999999999999999999999
+i cavPor2.scaffold_265563 C 0 C 0
+s ponAbe2.chr6 16409611 79 - 174210431 ATTTCCCTGATACCTA---CCTTGAGTGTCCTTTTTCTC---------CCTTGCTTCCCTCTTCCCATAAT-ATTTTCCTCATGTTTTGAtt-
+i ponAbe2.chr6 C 0 I 308
+s rheMac2.chr4 108506032 80 + 167655696 ATATCCCTGATACCTA---CCTTGAGTGTCCTTTTTTTC---------CCTTGCTTCCCTCTTCCCATAAT-ATTTTGCTCATATTTTGATTT
+q rheMac2.chr4 9999999999999999---99999999999999999999---------99999999999999999999999-999999999999999999999
+i rheMac2.chr4 C 0 I 309
+s otoGar1.scaffold_334.1-359464 354744 80 - 359464 ATTCCCCTGATATGCG---CCTTGACCGCTGGTTTTCTT---------CCCACCTCCCTTATTCTTAACAT-TCCGCCTTCTTTTtttttttt
+q otoGar1.scaffold_334.1-359464 5599897999987784---69676699693366769777---------69636896999638958544656-888568798788999988989
+i otoGar1.scaffold_334.1-359464 C 0 I 4247
+s panTro2.chr6 16620596 80 - 173908612 ATTTCCCTGATACCTA---CCTTGAGTGTCCATTTTCTC---------CCTTGCTTCCCTCTTCCCGTAAT-ATTTTCCTCATATTTTGAttt
+q panTro2.chr6 9999999999999999---99999999999999999999---------99999999999999999999999-999999999999999999999
+i panTro2.chr6 C 0 I 306
+s hg18.chr6 16097182 80 - 170899992 ATTTCCCTGATACCTA---CCTTGAGTGTCCATTTTCTC---------CCTTGCTTCCCTCTTCCCGTAAT-ATTTTCCTCATATTTTGAttt
+i hg18.chr6 C 0 I 308
+s equCab1.chr31 13054268 80 + 24938454 ATTTCTCTGATA-------CCTTGAGCTTTCTTTTTTTT------TTTTCCTGCTTCTCTCTTCCCACAATATCCTGCCTCCTATTTTGATTT
+q equCab1.chr31 999999999999-------99999999999999999999------999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 4 C 0
+s loxAfr1.scaffold_4233 68277 75 + 124190 ATTAGCCTGATA-------CCTTGGGTTTTCTTCCTTTT-----------CTGGTTTCCTTTCTCCACAATATTCTGCCTTCTATTTTGGTTT
+q loxAfr1.scaffold_4233 699947888688-------78899999889867777998-----------5568686777678777484999988655859869988895689
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e calJac1.Contig1260 73178 860 - 523245 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=244342.000000
+s mm9.chr10 3196315 148 + 129993255 ATAACTGAGTTTATCTGTAGTCCACTACATCCAA------------------------GTGTAAGAGGCAAACAGTGAAATTAGCAAATGGG--------CCTCA-------ATTTGTG-TGTCCTGGGATGGGTCCGAGATGGTGAGCCTGATGTGGAC---CTTAGCTGTGGAGCATGGGgaacagagg
+s rn4.chr1 230013456 153 - 267910886 ATAACTGAGTTTATTCGCAGTCCATTACATCCAA------------------------GTGTAAGAGGTGAACAGTGAAATTAGCAAATGGG--------CCTCAGTGGTG-ACTTGTG-TGCCCTGTGATGGGTCCTAGTTGTTGAGCCTGACTTGGAC---ACCGGAGGGAAGGTGTCAGg-gcagagg
+q rn4.chr1 9999999999999999999999999999999999------------------------9999999999999999999999999999999998--------98899999999-9999999-9999999999999999999999999999999999999999---99999999999999999999-9999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 4508 161 + 10554 TTAGCCAATTTTACATGCCATCAGCTAAATTAAA------------------------GTGTTAGA-GTGAACCTAGTAATTAGCAAGTCGGTACATTTTTCCCATAGGTATGCCCGTGCTTTCTTGTGAAGGGTCCTAGGTCATGAGTCTGACTCAGGC-----TGTCTGTGCTGTGGGGTAAGCAGAGG
+q cavPor2.scaffold_265563 9999999999999999999999999999999999------------------------99999999-999999999999999999999999999999999999999999999999999999999999999999579878977931146897899999999-----88996777966469966982399886
+i cavPor2.scaffold_265563 C 0 I 2396
+s ponAbe2.chr6 16409998 161 - 174210431 TTAACAGAGTTTACTAGCCATCAATT------AA------------------------ATGAAAGAGTTAAATATTGTGATTAGCAAATGGGAAAGTTTTGCTTGTTGGTACATTTGTGTTTTATTGTGAAGGGTCCTCAACTGTGTGGCTGATTCAGGCTGTCCCCACTGCAATGTAGGGAGAGGAGAGA
+i ponAbe2.chr6 I 308 C 0
+s panTro2.chr6 16620982 160 - 173908612 -TAACAGAGTTTACTAGCGATCAATT------AA------------------------ATGAAAGAGTTAAATATTGTGATTAGCAAATGGGAAAGTTTTGCTTGTTGGTACATTTGTGTTTTATTGTGAAGGGTCCTCAACTGTGTGGCTGATTCAGGCTGTCCCCACTGCAATGTAGGGAGAGGAGAGA
+q panTro2.chr6 -9999999999999999999999999------99------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 306 C 0
+s hg18.chr6 16097570 160 - 170899992 -TAACAGAGTTTACTAGCGATCAATT------AA------------------------ATGAAAGAGTTAAATATTGTGATTAGCAAATGGGAAAGTTTTGCTTGTTGGTACATTTGTGTTTTATTGTGAAGGGTCCTCAACTGTGTGGCTGATTCAGGCTGTCCCCACTGCAATGTAGGGAGAGGAGAGA
+i hg18.chr6 I 308 C 0
+s rheMac2.chr4 108506421 158 + 167655696 ---ACCGAGTTTACTAGCAATCAATT------AA------------------------ATGAAAGAGGTAAATATTGTGATTAGCAAATGGGAAAGTTTTGCTTGTTGGTACACTTGTGTTTTATTGTGAAGGGTCCTTGACTGTGTGGCTGATTGAGGCTGTCCCCACTGCAGTGTAGGGAGAGGAGAGA
+q rheMac2.chr4 ---99999999999999999999999------99------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 309 C 0
+s calJac1.Contig1260 74038 161 - 523245 TTAACAGAGTTTACTAGCAATCAATT------AA------------------------ATGGAAAAGTTAAATATTGTGATTAGCAAATGGGAAAGTTTTGCTCATTGGTACATTTGTGTTTTATTGTGAAGACTCCTCGACTATGTGGCTGATTCAGGCTGTCCCCACTGCAGTGGAGGGAGAGGAGAGA
+i calJac1.Contig1260 I 860 C 0
+s equCab1.chr31 13054348 165 + 24938454 TTAACAGAATTTACTTGCGATCGATTAAATGACA------------------------GTGTAAGAGTTAAACATCATAGTTAGCAAATGGGGAAGTTTTGCTCTTGGGTGCATCTGTGTTTTATT-TAACGGGTCCTAGACTGAGTGATTCATCGAGGCGGCCCCTGCTGTAGTGCGGGG-GAGAGGAGG
+q equCab1.chr31 9999999999999999999999999999999999------------------------99999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999-999999999
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_4233 68352 143 + 124190 TTGACTGAGTTGACGTACAATCAATTAAATGGAATCAGCTCGACGGCACTGGGTTTTTTTGTAAGAGGTAAGCATTCTAATTAGTAAATTGGCAAGTTTTGCTTCTGGGGG-ATCTGTGTTTTATTACGAAGGGTTCTGGAC--------------AG---------------------------------
+q loxAfr1.scaffold_4233 999866988999887988597637989989988857468786784985889887999999768649885896755965566665679758864478899885886466765-535467748866345526518837555565--------------36---------------------------------
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e otoGar1.scaffold_334.1-359464 354824 4247 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=142624.000000
+s mm9.chr10 3196463 222 + 129993255 gaagctgtgagggcagggcagatgcagatgcagatgcagatgcagatgcagatgcagatgcaggtgaggaggcagatgcagag---------------gaggcagatgcagagcagGTGGGGAGGCTGGCGC------------------------AGATGCATTGCTCTTTGTTTTTACAGGA--GAGTA---GCTTTGCCTGAGCACGTTAATCTTGGCTTTGTAGGCATTTGGACAGTCCCttcaataaacatttacttgcc---------a
+s rn4.chr1 230013609 260 - 267910886 cagaggcagaggcagaggcagaggcagaggcagaggcagaggcagaggcagaggcagaggcagaggcagaggcagaggcagagacagagacagagacagagacagatgcagggcagGTGAGGAGGCAGATGT-GGGGGTGGGGTGGGGTGGGTGGGAGATACATTGCTGTTTGTTTTTATAGAA--GAGTA---GCTTTGTCTGAGCAGGTTAATCTTGGCTTCATAGTCATTCAGACAGTTCCTTCAATAAACATTTACTTGAC---------T
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999--99999---99999999999999999999999999999999999999999999999999999999999999999999999---------9
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16410159 131 - 174210431 ------------------------------------------------------------AAGGGATGAAAGCGAAGGCAGAG---------------GGAGTCA--------------------------------------------------------------TATTTG-TTTCACAGG---GTGAA---CTTCTGCCTGAGCAAGTTGATGTTGGCTTCTGAGGTATTTGGACACttctttcaatacatttttatttagcacttacttac
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16621142 127 - 173908612 ------------------------------------------------------------AAGGGATGAAAGTGAAGGCAGAG---------------GGGGTCA--------------------------------------------------------------TGTTTG-TTTCACGGG---GTGAA---CTTCTGCCTGAGCAAGTTGATGTTGGCTTCCGAGGTATTTGGACACttctttcaatacatttttatttagc----acttat
+q panTro2.chr6 ------------------------------------------------------------99999999999999999999999---------------9999999--------------------------------------------------------------999999-999999999---99999---99999999999999999999999999999999999999999999999999999999999999999999999----999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16097730 127 - 170899992 ------------------------------------------------------------AAGGGATGAAAGTGAAGGCAGGG---------------GGGGTCA--------------------------------------------------------------TGTTTG-TTTCACGGG---GTGAA---CTTCTGCCTGAGCAAGTTGATGTTGGCTTCCGAGGTATTTGGACACttctttcaatacatttttatttagc----acttat
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108506579 127 + 167655696 ------------------------------------------------------------AAGGGATGAAAGTAAAGGCAGAG---------------GGGGTCG--------------------------------------------------------------TGTTTG-TTTCATGGG---GTGAA---CTTCTGTCTAAGCAAGTTGATGTTGGCTTTCTAGGTATTTGGACACTTCTTTCAATACATTTTTGTTTAGC----ACTTAC
+q rheMac2.chr4 ------------------------------------------------------------99999999999999999999999---------------9999999--------------------------------------------------------------999999-999999999---99999---99999999999999999999999999999999999999999999999999999999999999999999999----999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 74199 127 - 523245 ------------------------------------------------------------AAGGGATGAAAGCGAAGGCAGAG---------------GGGGTTG--------------------------------------------------------------TGTTTG-TTTCACAGG---GTGAA---CTTCTGCCTGAGCAAGTTGATGTTGGCTTTCTAGGTATTTGGACACttctttcaatacatttttatttagc----acttac
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13054513 134 + 24938454 ---------------------------------------------------------AGAAAGGGATGCAGTTGAAAACAGAG---------------GTGGTAG--------------------------------------------------------------CAGTTGTTTTCACAAGATGCTGCT---GCTTTGCCTAAGCAGGTTGATGTTGGCTTCGTAGGTGTTTGGACTGCtccttcaataaatatttaccgagc----acttgc
+q equCab1.chr31 ---------------------------------------------------------99999999999999999999999999---------------9999999--------------------------------------------------------------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999----999999
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_4233 68495 165 + 124190 ------------------------------------------------------------TGTGACTGATAGAGGCTGTAGAG---------------TAGGGAGAAAAAGAACCAGTGGTGAGACTGAAGGTGGAGGTGGTAA-----------------------GGTTCCTTTTTACAAG---ATGAATCTGCTTTGCCTATGCAGGTTAATATTGACTTAGTAGGTATTTGGACTATTGCTCCAATAAATATTTATTTAGC----A-----
+q loxAfr1.scaffold_4233 ------------------------------------------------------------77567346636362525646375---------------5738775678772654535676665354663022266655576245-----------------------3637153898546132---5465544353375433454541443455454154445534222122773553252444143223662252843274534----4-----
+i loxAfr1.scaffold_4233 C 0 I 3646
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_334.1-359464 354824 4247 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=55095.000000
+s mm9.chr10 3196685 52 + 129993255 tctgt--gcttgccactcttctaggcacc-----------agggtgccagggtgaacaaacagat
+s rn4.chr1 230013869 45 - 267910886 TCTGT--GCTTGTTACTGTCCTA-GCACC-----------AGGGTGCCAGAGCAAAT------AT
+q rn4.chr1 99999--9999999999999999-99999-----------99999999999999999------99
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16410290 42 - 174210431 tctgt--gtctgct----------gccct-----------gggataccagagtgaataaacagat
+i ponAbe2.chr6 C 0 I 5
+s panTro2.chr6 16621269 41 - 173908612 tctgt--gtctgct----------gccct-----------gggataccagagtg-ataaacagat
+q panTro2.chr6 99999--9999999----------99999-----------99999999999999-9999456431
+i panTro2.chr6 C 0 I 837
+s hg18.chr6 16097857 42 - 170899992 tctgt--gtctgct----------gccct-----------gggataccagagtgaataaacagat
+i hg18.chr6 C 0 I 128
+s rheMac2.chr4 108506706 42 + 167655696 TCTGT--GTCTGCT----------GCCCT-----------GGGATACCAGAGTGAATAAACAGAT
+q rheMac2.chr4 99999--9999999----------99999-----------9999999999999999999999999
+i rheMac2.chr4 C 0 I 5
+s calJac1.Contig1260 74326 41 - 523245 tctgt--atctgct----------gccct-----------gaggtaccagagtgaataaacaga-
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13054647 55 + 24938454 tatgtgggtctact----------gctcttctagacaatgggaataccagagtaaataaatggat
+q equCab1.chr31 99999999999999----------99999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 68660 3646 + 124190 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_334.1-359464 354824 4247 - 359464 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=405.000000
+s mm9.chr10 3196737 85 + 129993255 ---gtctgtacctcagtgaactt----agcgtggggccta---agaaacaagaaagg----aagtcaataagcaaa-GCGCCAATGTGCGAGGCTCCACA
+s equCab1.chr31 13054702 67 + 24938454 gaaaagaatccctcgtggaactt---------acagtctctgggggaatgagaaaattaaaagataaatacgcaaa------------------------
+q equCab1.chr31 99999999999999999999999---------99999999999999999999999999999999999999999999------------------------
+i equCab1.chr31 C 0 I 1707
+s calJac1.Contig1260 74367 65 - 523245 -----caaaacgtccctgaccttctggagcacacagtctct--gggagacag-aaat----ggatagataaggaaag-----------------------
+i calJac1.Contig1260 C 0 I 66
+s rheMac2.chr4 108506753 59 + 167655696 -----------GTCCCTGACCTTCTGGATCTTACAGTCTCT--GGGAGAGAGAAAAT----GGATTGATAAGCAAA------------------------
+q rheMac2.chr4 -----------999999999999999999999999999999--99999999999999----999999999999999------------------------
+i rheMac2.chr4 I 5 I 14
+s ponAbe2.chr6 16410337 57 - 174210431 -----------gtccctgaccttctggagc--atagtctct--gggagagagaaaat----ggatagataagcaaa------------------------
+i ponAbe2.chr6 I 5 I 67
+s rn4.chr1 230013914 85 - 267910886 ---ATCTGTATCTCAGTGGACTT----AGTGTGTAGGGTC---AGAAGCAAGAAGCG----AGGCCAGTAAGCAGA-GTACCTGTGTATGAAGTTACATA
+q rn4.chr1 ---99999999999999999999----9999999999999---99999999999999----999999999999999-99999999999999999999999
+i rn4.chr1 C 0 I 27
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_287 593650 0 + 1474830 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.chr21 16473130 6086 + 46057314 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr2 106239612 8625 - 541556283 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e loxAfr1.scaffold_4233 68660 3646 + 124190 I
+e tupBel1.scaffold_114895.1-498454 397844 2422 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_334.1-359464 354824 4247 - 359464 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-2671.000000
+s mm9.chr10 3196822 86 + 129993255 CAGTAC-ACACAGTACACAC---AAT--GTATGAGGC-----------------TACACACACTACACACAATGTATGAGG-CACACACAGTA---CACACAATGTATGAGGT
+s otoGar1.scaffold_112035.1-90481 72655 103 - 90481 CAGCAC-AGATAGTGCACAC---AAC--CTGGAAAGTGCACACAGCAGGGAAAGTGCACACAGCACAGATAGTGCACACAA-CCTGGAAAGTG---CACACAACCTGGAAAGT
+q otoGar1.scaffold_112035.1-90481 999966-6889699999989---978--99999999999999999997899999998999999997797959999999997-99999999999---99999999999999999
+i otoGar1.scaffold_112035.1-90481 n 4247 C 0
+s xenTro2.scaffold_1158 46177 85 - 161123 ----AC-ACACAGTACGGCA---CCT--GTATAGAGT-----------------CACACACAGTACGGCACCTGTATAGAGTCACACACAgtatggcacac-ctgtatagagt
+i xenTro2.scaffold_1158 n 0 I 1
+s tupBel1.scaffold_69721.1-9315 6673 86 + 9315 ---------ACAGTTTACAC---GTT--GTATATAGT-TGTACAGTA-------TACACATTGTATATACATTGTATATAG--TTGTACAGTA---TACACGTTGTATATAGT
+q tupBel1.scaffold_69721.1-9315 ---------99999745876---995--797999999-855379879-------769999989999999998899999999--9999999989---99999999999999999
+i tupBel1.scaffold_69721.1-9315 n 2422 C 0
+s loxAfr1.scaffold_28305 23623 83 + 42240 ----------TAGTATACGC---AGT--ACACAAACTACTCAC-----------TACACACAGTGAACACAGTACGTATGG-GACACACAGTA---CATACAATACACACAGT
+q loxAfr1.scaffold_28305 ----------7598789998---696--886844111112111-----------555384858999998879999989999-99999787899---99999899999999999
+i loxAfr1.scaffold_28305 n 3646 C 0
+s monDom4.chr5 227686619 85 - 308900514 ----------cactacacac---ggtaggtacacagtaCCCAG-----------TAGACATACTGTACACAGTAGGCACAT-AGTATATAGTA---GACACGTTGCACACAGT
+q monDom4.chr5 ----------9999999999---99999999999999999999-----------999999999999999999999999999-99999999999---99999999999999999
+i monDom4.chr5 n 8625 C 0
+s danRer5.Zv7_NA1493 6927 92 + 30000 CTGCACTTCACACTACACACTGAAAA--CTAGACGATGCGAAC-----------TGCACAC----TAGAGAATTTGCACTG-CACACACTACT---ACTACACTGCATACTGG
+i danRer5.Zv7_NA1493 n 6086 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.chr2 14891232 3970 - 54797317 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-21222.000000
+s mm9.chr10 3196908 99 + 129993255 -------ACACACAGTACACACAATGTGTGAGGTTACACACAGTACACACAATGTGTGAGGTTACACACAGTACACACAATGTGTGAGGT--TGCACACAGTA---CACAC
+s tupBel1.scaffold_69721.1-9315 6759 91 + 9315 --------TGTACAGTATACACATTGTATATAGT--TGTACAGTTTACACGTTGTATATAGT--TGTACAGTATACACGTTGTATATAGT----TGTACAGTA---TAC-C
+q tupBel1.scaffold_69721.1-9315 --------99999999999999999999999999--99999999999999999999999999--99999999999999999999999999----999999999---999-9
+i tupBel1.scaffold_69721.1-9315 C 0 C 0
+s otoGar1.scaffold_112035.1-90481 72758 96 - 90481 -------GCACACAGCACGGAAGGTGTACACAATC-TGGAAAGTGCACACAGCACAGATAGT-GCACACAACCTGGAAAGTGCACATAGC---ACGGCAAGTG---CACAC
+q otoGar1.scaffold_112035.1-90481 -------9999999999999999999999999998-99999999999999999999999999-999999999999999999999999999---9997899999---89999
+i otoGar1.scaffold_112035.1-90481 C 0 C 0
+s loxAfr1.scaffold_28305 23706 84 + 42240 -------ACGCACAGGATACACAATACACACAG---TATacaatatacacagcactaagagc------------acagactgtgccagtc--tgggtctagga---cccac
+q loxAfr1.scaffold_28305 -------99999999999999999999999999---99999999999999999999999999------------9999999999999999--99999999999---99889
+i loxAfr1.scaffold_28305 C 0 n 0
+s monDom4.chr5 227686704 94 - 308900514 -------AGGCACACTACACCTGGTAAACATAC---AACACAGTAGGTACACTGTATGCATT-GCACACAGTAGGTACACTATACATAGT---AGATACACTG---TACAT
+q monDom4.chr5 -------99999999999999999999999999---99999999999999999999999999-999999999999999999999999999---9999999999---99999
+i monDom4.chr5 C 0 I 2
+s ornAna1.Ultra358 4310706 86 - 4471575 -------ACACACACCAGTCACAATGTGTCCCT---CACACCCCAGTCCCAGGGT-----GT----CCCTGTCACCCCATGGTGTCGTTC---GTACACATCA---GTCAC
+i ornAna1.Ultra358 n 3970 C 0
+s xenTro2.scaffold_1158 46263 104 - 161123 -------acacacagtacggcacctgtatagagtcacacacagtatggcacctgtatagagtcacacacagtatggcacctgtatagagtcacacacacagtacggcacac
+i xenTro2.scaffold_1158 I 1 I 2
+s danRer5.Zv7_NA1493 7019 96 + 30000 ACATTATGCTTGCACCCTAGACATTATGCATTG---CACACACTACACATTACACACGACAT-------CCTAGACAAAGCATACTGAAC--AACGCACACTA---GACAT
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-23800.000000
+s mm9.chr10 3197007 98 + 129993255 AAAGTGTGAGGT--------------------------------TACACACAGTACACAC-AATGTATGAGGT---ACACACAGTACACACAATGTGTGAGGT-------TACACACAGT---ACACACA-------------ATGTATGAGGCTAC
+s tupBel1.scaffold_69721.1-9315 6850 91 + 9315 GTTGTATATAGT----------------------------------TGTACAGTATACAC-GTTGTATATAGT----TGTACAGTATACACGTTGTATATAGT---------TGTACAGT---TTACACG-------------TTGTATATAG--TT
+q tupBel1.scaffold_69721.1-9315 999999999999----------------------------------99999999999999-999999999999----99999999999999999999999999---------99900999---9999999-------------9999999999--99
+i tupBel1.scaffold_69721.1-9315 C 0 C 0
+s otoGar1.scaffold_112035.1-90481 72854 95 - 90481 AGCACAGATAGT---------------------------------GCACACAACCTGGAA-AGTGCACATAGC---ACGGAAAGTGCACACAGCAGGGAAGGT--------GCACACAGC---ACAGACA-------------GTGCACACAAC-CT
+q otoGar1.scaffold_112035.1-90481 999999999999---------------------------------999999999989999-999999999999---999999999989999999999999998--------999999999---9999999-------------99998999999-88
+i otoGar1.scaffold_112035.1-90481 C 0 C 0
+s monDom4.chr5 227686800 94 - 308900514 --------TAGTCA---------------------------TATTGTACACATTAGATAT-ATTGAACCTAGT---AGACACACTGCACACAACAGGCACACT--------ACACACAGT---GGACACA-------------TTGCATACAGGTAC
+q monDom4.chr5 --------999999---------------------------9999999999999999999-999999999999---999999999999999999999999999--------999999999---9999999-------------99999999999999
+i monDom4.chr5 I 2 I 130
+s ornAna1.Ultra358 4310792 112 - 4471575 ------------CAC-----------------------GTCTCTGACACGCATCACAGCC-ACAGAGTGTGTC---ATACA---TACACACACCAGACACGGTGTCTGTCCACGTACACC---GCAGCCAGAGTTTTTCTCTCTCGCAGGCAGAAAC
+i ornAna1.Ultra358 C 0 C 0
+s xenTro2.scaffold_1158 46369 132 - 161123 ---gtatagagtcacacacagtatggcacacctgtatagagtcacacacacagtacggca-cctgtatAGAGTCACACACACAGTACGGCACCTGTATAGAGT-------CACACACAGTATGGCACAc--------------ctgtatagagtcac
+i xenTro2.scaffold_1158 I 2 C 0
+s danRer5.Zv7_NA1493 7115 97 + 30000 ----------------------------------CATACACTGCAGTACACAACGCATACTGGTAAATGCATA---CTAGACACTGCACACTACACCCAAGAC-------AATACACAGT---ACACACT-------------GCGTATGAGATAAT
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-16029.000000
+s mm9.chr10 3197105 28 + 129993255 -------ACACACTACACACAATGTATGAG---GCA----------------CA
+s ornAna1.Ultra358 4310904 43 - 4471575 --------ACAAACACACACAGCCAGTGTG---tcattcgtttggtcgtattta
+i ornAna1.Ultra358 C 0 C 0
+s monDom4.chr5 227687024 28 - 308900514 -------ACCCAGTAGACACATTGTATGCA---GTA----------------GA
+q monDom4.chr5 -------99998888898888899999987---797----------------77
+i monDom4.chr5 I 130 C 0
+s otoGar1.scaffold_112035.1-90481 72949 28 - 90481 -------GGAAAGTGCACACAACACAGAAG---GTG----------------CA
+q otoGar1.scaffold_112035.1-90481 -------99999999979999999999999---999----------------98
+i otoGar1.scaffold_112035.1-90481 C 0 C 0
+s tupBel1.scaffold_69721.1-9315 6941 27 + 9315 -------GTACAGTTTACACATTGTATATA---GT-----------------TG
+q tupBel1.scaffold_69721.1-9315 -------99999990999999999999999---99-----------------99
+i tupBel1.scaffold_69721.1-9315 C 0 C 0
+s xenTro2.scaffold_1158 46501 24 - 161123 --------------acacacagtatgggcacctgta----------------ta
+i xenTro2.scaffold_1158 C 0 I 8
+s danRer5.Zv7_NA1493 7212 28 + 30000 GCATACAAGACACTACACAC-TCGTACTA-------------------------
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e galGal3.chr4 85339981 1039 - 94230402 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-64947.000000
+s mm9.chr10 3197133 187 + 129993255 CACAGTAC-ACACA-ATGTATGAG---GTACACACAGTAC-ACACAATGTG---TGAGGT---------TACACACAGTA---CACACAATGTGTGAGG----TTGCACACAGTAC---------ACACA-ATG----------TGTGAGGCC-----CACACAGTACACACAAAGTGTGAGG-----------------------TTACACAGT---ACACACAATGTGTGAGGT--TACACAGTACACACAATGTGTGAGGTT
+s tupBel1.scaffold_69721.1-9315 6968 175 + 9315 TACAGTAT-ACACA-TTGTATATA-------GTACAGTAT-ACACATTGTA---TATAGT-----------TGTACAGTT---TACACGTTGTATATAG----TTG--TACAGTTT---------CCACG-TTG----------TATATAGT------TGTACAGTATACACATTGTATATAG-----------------------TTGTACAGT---TTACACGTTGTATATAGT-----ACAGTATACACATTGTATATAGTT
+q tupBel1.scaffold_69721.1-9315 99999999-99999-099999999-------999999999-9999999999---999999-----------999999999---9999999999999999----999--99999999---------99999-999----------99999999------9999999999999999999999999-----------------------999999999---999999999999999999-----998999999999999999998899
+i tupBel1.scaffold_69721.1-9315 C 0 C 0
+s otoGar1.scaffold_112035.1-90481 72977 187 - 90481 CACAGCAC-AGATA-GTGCACACA---ACCTGGAAAGTGC-ACACAGCAGG---GAAAGT----------GCACACAGCA---CAGACAGTGCACACAAC---CTG--GAAAGTGC---------ACACA-ACA----------CAGAAGGTG-----CACACAGCACAGACAGTGCACACAA----------------------CCTGGAAAGT---GCACACAGCACGGAAGGT-GCACACAGCACGGAAAGTGCATACAGCA
+q otoGar1.scaffold_112035.1-90481 99999999-99999-999789999---9999999999999-8999999979---999999----------9899999999---89998999998999999---989--99999989---------89999-999----------999999999-----9999999999999999999999999----------------------9999999999---999999999999999999-9999999999999999999999999999
+i otoGar1.scaffold_112035.1-90481 C 0 C 0
+s monDom4.chr5 227687052 178 - 308900514 CACAGTGT-ACCCA-GTAGACACA---TTGTATGCAGTAG-ACACAGTGTA---CCCAGT----------AGACACATTG---TATGCAGTAGACACAGT---GTA--CCCAGTAG---------ACACA-TTG----------TATGCAGTA-----AACACAGCACACATAGTAGACACAC----------------------TGTACCCAGT---AGACACATTG----------TACACAGTAGGCACAATGCACATAGTA
+q monDom4.chr5 78888988-66656-788999988---8999999888989-9888878887---544458----------8998886467---78999999999999889---999--99999999---------99997-667----------888989999-----9988788999988888889988888----------------------8888888878---7787776445----------788897777897778899888966788
+i monDom4.chr5 C 0 I 11
+s ornAna1.Ultra358 4310947 188 - 4471575 ttgagtgc-ttaca-acgtgcagg-------gccctgtactagccctctgg---gaaagt----------ata-acaata---ca-acaataaacagtg----aca--tcccctgc---------ccaca-acgagcctcgggtctcggggTCTGTGTCACACACCTCAGGCAGTGCGT---------------------------CTCTCCA------CACACCTAGTGTGTGCC-TCACACACCACAGCCGTTGTGTGTCTCT
+i ornAna1.Ultra358 C 0 I 3
+s galGal3.chr24 1921276 186 - 6400109 CACAGCTG-ACATA-GGGCAGGCG--TGGAGGCACAGCGG-GCACAG-GGA---TACGGCATGCGGGAGGACACAGCGCA---CACACAGCGTGCACAG----GGA--TGCAGCG-----------------TG----------CATGGAGA------CACAGCGCACGCGCAGCGTGCATGG-----------------------GGGCACAGC---GCGTGTAGTGTGCACGGG--GACACAGCACGCACGGTGTGCACAGAG
+i galGal3.chr24 n 1039 C 0
+s xenTro2.scaffold_1158 46533 205 - 161123 cacagtatggcacacctgtatagagtcacacacacagtac-ggcacctgta---tagagt-------cacacacacagta---cggcacctgtatagag----tcacacacagtat--------ggcacacctg----------tatagagtca----cacacagtatggcacctgtatagagt------------------ca-cacacacagtacggcacac-ctgtatagagtcacacacagtacggcacctgtatagagtc
+i xenTro2.scaffold_1158 I 8 C 0
+s danRer5.Zv7_NA1493 7240 212 + 30000 GAAACTGT-ACACT-GCATACTAG-------ATAATGCAT-AGACACTGCACTTCACACT----------ACACACTGAAAACTAGACAATGTGTACTGCACTCCA--CACACTACTACTACATTGCATA-CTG----------GACGATATG-----CATGCACCCTAGACATTATGCATAGCACACTACACTACTCGCTACATACTAAACAAT---GCACACACTACACAT-----TACACACTACATCCTAGACA-------
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e sorAra1.scaffold_256646 108852 1074 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-106280.000000
+s mm9.chr10 3197320 238 + 129993255 A----------------CACAGTACACACAATGTA---TGAG---GT-------------------------------ACACATAGTACAC-----------------ACAATGTGTGAGGT---------TACACACAGTACACACAATGTATGAGG-CA--------CACACAGTACACACA---ATGTATGAGGT--AC------ACACAATACTCAC-----AATG-TATGAGG-CACA--------------------------CACAGTACACAC----------AATGTATGAGGT-ACACAC-----AATACTCACAATGTATGAGG-CACACACAGTACACACAATGTATGAGGT------------------ACACACAATACTCACAGTGTAT-----------G---------------
+s otoGar1.scaffold_112035.1-90481 73164 255 - 90481 GGGAAGGTGC------ACACAACCTGGAAAGTGCA---TACA---GC-------------------------------ACAGAAGGTGCAC-----------------ACAGCACAGATAGT----------GCACACAACCTGGAAAGTGCACATAG-CA--------CGGAAAGTGCACACA---ACACAGAAGGT--GC------ACACAGCACAGAT-----AGTG-CACACAA-CCTG--------------------------GAAAGTGCACAC----------AGCACAGAAGGT-GCACAC-----AGCACAGACAGTGCACACAA-CCTGGAAAGTGCACACAGCACGGAAGGT------------------GCACACAGCACAGATAGTGCACA---CAATCTGG---------------
+q otoGar1.scaffold_112035.1-90481 9999999999------9999999999999999999---9999---99-------------------------------9999999899999-----------------99999999999999----------99999999999999999999999999-99--------999999999999999---99999999999--99------9999999999999-----9999-9999999-9999--------------------------999999999999----------999999999999-999999-----99999999999999999999-9999999999899999999999999999------------------75799999899999999997999---99999799---------------
+i otoGar1.scaffold_112035.1-90481 C 0 C 0
+s tupBel1.scaffold_69721.1-9315 7143 237 + 9315 G----------------TACAGTTTACACGTTGTA---TATA---GT--------------------------------TGTACAGTATAC-----------------ACATTGTATATAGT-----------TGTACAGTTTACACGTTGTATATAG-T---------TGTACAGTATACACA---TTGTATATAGT---T------GTACAGTTTACAC-----ATTG-TATATAG--TTG--------------------------TACAGTATACAC----------ATTGTATATAGT--TGTAC-----AGTATACACATTGTATATAG--TTGTACAGTTTACACGTTGTATATAGT-------------------TGTACAGTATACACATTGTATA---TAGTGTAT---------------
+q tupBel1.scaffold_69721.1-9315 8----------------999999999999899999---9998---89--------------------------------999999999999-----------------99999999999989-----------9999999999999978999999999-8---------989999999999999---99999999889---9------9999999999999-----6999-9999999--999--------------------------989999979999----------999989999999--99999-----69898998969998989999--899669898889989889969699888-------------------9756968887889999995969---98887397---------------
+i tupBel1.scaffold_69721.1-9315 C 0 C 0
+s sorAra1.scaffold_230647 47545 232 - 51595 ----------------------------------A---TACA---GC-------------------------------ACATACAATGCAG-----------------GCAATGCATGCAGCAC-----AATGCGTACAACACACGTGATGCATATGA-CA--------CATACAATGTATATG---ACACATTCAAT--AC------ATCTAACACATGC-----AATG-AATGAGA-CACA--------------------------TGCAATGCACAT----------GTCACATGCGAT-GCATAT-----GACACAGGCAATGCATAAGa-cacatgcaatgcatatgacaaatgcaat------------------gcataagacacacataatgcatc---caacacat---------------
+q sorAra1.scaffold_230647 ----------------------------------9---9999---99-------------------------------9999999999999-----------------9999999999999999-----99999999999999999999999999999-99--------999999999999999---99999999999--99------9999999999999-----9999-9999999-9999--------------------------999999999999----------999999999999-999999-----99999999999999999999-9999999999999999999999999999------------------99999999999999999999999---99999999---------------
+i sorAra1.scaffold_230647 n 1074 n 1074
+s monDom4.chr5 227687241 233 - 308900514 ----------------ACCCAGTAGACACATTGTA---TGCA---GT-------------------------------AGACACAGTGTAC-----------------CCAGTAGACACATT----------GTATGCAGTAGACACAGTGTACCCAG-TA--------GACACATTGTATGCA---GTAGACACAGT--GT------ACCCAGTAGACAC-----ATTG-TATGCAG-TAGA--------------------------CACAGTGTACCC----------AGTAGACACATT-GTATGC-----AGTAAACACAGCACACATAG-TAGACACACTGTACCCAGTAGACACATT------------------GTACACAGTAGGCACAATG------------------------------
+q monDom4.chr5 ----------------9988889999999999898---8896---69-------------------------------9999999998899-----------------99999999999999----------99999999999999999999999999-99--------999999999999999---99999999999--99------9999999999999-----9999-9999999-9999--------------------------999999999999----------999999999999-999999-----99999999999999999999-9999999999999999999999999999------------------9999999999999999999------------------------------
+i monDom4.chr5 I 11 I 12
+s ornAna1.Ultra358 4311138 242 - 4471575 ----------------ACTCACCACAGCCGTTGTG---TGTC---TCT----------------------------CTCTCCACACCACAG-----------------CCGTTGTGTGTCTC----------TCACACACCACAGCCGTTGTGTGTCT-CT--------CACACACCACAGCCG---TTGTGTGTCTCTCTC------ACACACCACAGCC-----GTTG-TGTGTCT-CTCT--------------------------CACACACCACAG----------CCGTTGTGTGTC-ACACAC-----CACAGCCACAGTGTGTCTCT-CTCACACACCACAGCCACAGTGTGTCTC------------------TCACACCACAACCCCAGTGTGTG--------------------------
+i ornAna1.Ultra358 I 3 I 3
+s galGal3.chr24 1921462 255 - 6400109 ----------------ATACAGCCCGTACACAGCT---TGCACAGGG-------------------------------ACACAGCACACGT-----------------GCAGCGTGCACAGG-----------GGTAGAGAATGCACGGGG-ACACAG-CA--------CACACACGGCATGCACGGGGATACAGGGT--GCCCTGAGGCACAGCATGCAC-----TGGGATTCAGCA-CCCA--------------------------TGTAGTGTGCAT----------AGGG-----------ACAC-----AGCGCTCACAGTGTGCACAA--AGACACAGCACACACACAGCTTGCACTGGGGTGCAGCGTAGACAGGGGTACAGTACACAGAGGATGTG--------------------------
+i galGal3.chr24 C 0 I 9
+s xenTro2.scaffold_1158 46738 281 - 161123 ------acac------acacagtacggcacctgta---taga---gtcacacacagtatggcacacctgtatagagtcacacacagtacgg-----------------cacctgtatAGAGT-------CACACACACAGTATGGCACCTGTATAGAGTCA--------CACACAGTACGGCAC---CTGTATAGAGT-CAC------ACACAGTACGGCA-----CCTG-TATAGAGTCACA--------------------------CACAGTACGGCA----------CCTGTATAGAGTCACACAC-----AGTACGGCACCTGTATAGAGTCACACACAGTACGGCACCTGTATAGAGT-----------------CACACACAGTACGGCACCTGTATA--------------------------
+i xenTro2.scaffold_1158 C 0 C 0
+s danRer5.Zv7_NA1493 7452 358 + 30000 --AAGCATACTGAACAACGCACACTAGACATCATACACTGCA---GT-------------------------------ACACAACGCATACTGGTAAATGCATACTAGACATTGCACACTACACCCAAGACAATACACAGTACACACTGCGTACGAGA-TAATGCATACTAGACACTACACAC----TCGTGCACACT----------ACACAACACGTACTAGAAACTG-TACACTG-CATACTAGATAATGCATAGACACTGCACTTCACACTACACACTGAAAACTAGACGATGCGAACT-GCACACTAGAGAATTTGCACCGCACACACTA-CTACTACATTGCATACTTGACATCAGAC------------------ATGCACACTAGACATTATGCATTGCACACTACACTACTCGCTGCATACT
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-43201.000000
+s mm9.chr10 3197558 131 + 129993255 --AGGCTAT-----ACACAGTACACACAATGTGTG-------AGGTTACAC------ACAGTATA--CA--------CA-ATATGTGAGGTTAC-ACAC-----------AGTACACACAATGTGTG--------AGGCTACACACAGTACAC---------ACAATGTATGAGG------CACACACAGTACACAC
+s otoGar1.scaffold_112035.1-90481 73419 155 - 90481 --AAAGTGC-----ACACAGCACAGATAGTGCAC--------ACAACCTGG------ATAGTGCA--CA--------CA-ACACGGAAAGT----GCACACAGCACAGATAGTGCACACAACCTGGATAATGCACACAATACAGAAAGTACACACAATCTGGAAAGTGCACACAG------CACAGATAGTGCACAC
+q otoGar1.scaffold_112035.1-90481 --9999767-----79899978989999979799--------899976799------99898999--99--------99-78899999999----99999999998899999999997999989999999999999999999999999999998999999999999999999999------9999999999999999
+i otoGar1.scaffold_112035.1-90481 C 0 I 23
+s tupBel1.scaffold_69721.1-9315 7380 129 + 9315 --AGTATAC-----ACACTGTATATAT--------------------TTGT------ATAGTTTA--CA--------CA-TTGTATATAGT----GTAC-----------AGTATACACATGGTAAATAGTGTATAGTATACACGTTGTACAT---AGTTGTACAGTTTACACAT------TGTACATAGTATATGC
+q tupBel1.scaffold_69721.1-9315 --9869799-----9969796889689--------------------9953------88754978--85--------95-99849797545----5366-----------3857576675998699979557486876956767456736556---7459755756596665856------5556655765766455
+i tupBel1.scaffold_69721.1-9315 C 0 I 5
+s monDom4.chr5 227687486 116 - 308900514 --ACACTGT-----ACCCAGTAGACACATTGTAC-----------------------GCAGTAGA--CA--------CA-TTGCATTCAG-----GCAC-----------ACTGTATGCA---------GCGGACACATTGCACAAAGTAGTT---------ACATTGTACATAG------CAGACACATTGCACAC
+q monDom4.chr5 --9999999-----99999999999999999999-----------------------99999999--99--------99-9999999999-----9999-----------9999999999---------999999999999999999999999---------9999999999999------9999999999999999
+i monDom4.chr5 I 12 C 0
+s ornAna1.Ultra358 4311383 142 - 4471575 --GTCTCTC-----ACACACCACAGCTAGTGTTTG------TGTCTCTCAC------ACACCACAGCCA--------CA-GTGTGTGTGTATCTGACAC-----------ACCACAGCCATATTATGT-GTGTCTCTCTAACGCACCACAACC---------ACAGTGTGTGTGT------CTCTCACACCACAGCA
+i ornAna1.Ultra358 I 3 I 2
+s galGal3.chr24 1921726 161 - 6400109 --AGTGTGCATGGGACACAGCACACACAGCATGCACAGGGGCACAGCATGCATGGGGACAGCATG--CACTGAGATGCA-GTGCACCCAGGA---GCAC-----------AGCACGCACAG--------GGACACAGCAAGGACACAGTGCAT---------GCTCTGTGCACAGGGATGCCACACACGCAGAACCA
+i galGal3.chr24 I 9 I 21
+s xenTro2.scaffold_1158 47019 134 - 161123 --GAGTCAC-----ACACAGTACGGCACCTGTATA-------GAGTCACAC------ACAGTACGG-CA--------CACCtgtatagagtc---acac-----------acagtacggcacctgtatagagt------cacacacagtacgg---------cacctgtatagag-----tcacacacagtacggca
+i xenTro2.scaffold_1158 C 0 I 2
+s danRer5.Zv7_NA1493 7810 119 + 30000 AGACGATGG-----ACACAATACACATTACACACA-------GCATCCTAT------ACAATGTA--TA--------CC-AAACAAC--------GCAC-----------ACTAGATACAAACTCATGTATAGACATAATGCATACTGCACAC---------------TACACAG------TACACAC---------
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108506812 14 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-30751.000000
+s mm9.chr10 3197689 27 + 129993255 AATGTGTG------------AGGTTACACACAGTACACA-----
+s rheMac2.chr4 108506826 30 + 167655696 TATATGTGGT---------TATATAAAGGTAAAGCAATG-----
+q rheMac2.chr4 9999999999---------99999999999999999999-----
+i rheMac2.chr4 I 14 I 2
+s otoGar1.scaffold_112035.1-90481 73597 28 - 90481 AAAAAGTG-----------CACACAGCGGGGAAAGTGCA-----
+q otoGar1.scaffold_112035.1-90481 99999999-----------99999999999999999999-----
+i otoGar1.scaffold_112035.1-90481 I 23 I 2
+s tupBel1.scaffold_69721.1-9315 7514 27 + 9315 AATATGCG------------ATATCAAATGTAGCTCACA-----
+q tupBel1.scaffold_69721.1-9315 65666675------------6656549845577466795-----
+i tupBel1.scaffold_69721.1-9315 I 5 n 5
+s monDom4.chr5 227687602 19 - 308900514 AATAGGTA--------------------CACTGTTTATA-----
+q monDom4.chr5 99999999--------------------99999999999-----
+i monDom4.chr5 C 0 C 0
+s ornAna1.Ultra358 4311527 26 - 4471575 AGTGTGTG-------------TGTCACTCACACACCACA-----
+i ornAna1.Ultra358 I 2 I 4
+s galGal3.chr24 1921908 36 - 6400109 GCTCTGTGGTGAGCACAGGGATGTGGCATACACGCA--------
+i galGal3.chr24 I 21 C 0
+s xenTro2.scaffold_1158 47155 27 - 161123 cctgtata------------gagtcacacacagtatggc-----
+i xenTro2.scaffold_1158 I 2 C 0
+s danRer5.Zv7_NA1493 7929 30 + 30000 --TATACA------------TTGCATACTGCACTGCACACTAGA
+i danRer5.Zv7_NA1493 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-29355.000000
+s mm9.chr10 3197716 33 + 129993255 CAATGTGTGAGGCT---ACACACAG----TTAGCCAGCTG
+s rheMac2.chr4 108506858 18 + 167655696 AGGGAGG-GAAGGT---GCACA------------------
+q rheMac2.chr4 9999999-999999---99999------------------
+i rheMac2.chr4 I 2 I 3
+s otoGar1.scaffold_112035.1-90481 73627 21 - 90481 CAGCACG-GAGAGT---GCACACAG---------------
+q otoGar1.scaffold_112035.1-90481 9999999-999999---99999999---------------
+i otoGar1.scaffold_112035.1-90481 I 2 n 2
+s monDom4.chr5 227687621 28 - 308900514 --------GTAGGT---GCTAAGAATGC-TTATCTAATTG
+q monDom4.chr5 --------999999---99999999999-99999999999
+i monDom4.chr5 C 0 n 0
+s ornAna1.Ultra358 4311557 23 - 4471575 CAGTGTGTGTGTCTCTCACACAC-----------------
+i ornAna1.Ultra358 I 4 n 4
+s galGal3.chr24 1921944 33 - 6400109 CAGAGCTAGAGCAC---ACACCCAGCTT-GCACACGG---
+i galGal3.chr24 C 0 I 14
+s xenTro2.scaffold_1158 47182 33 - 161123 acctgtatagagtc---acacacagtacggcacctg----
+i xenTro2.scaffold_1158 C 0 n 0
+s danRer5.Zv7_NA1493 7959 17 + 30000 CACTATG---CACT---GCACAC-----------------
+i danRer5.Zv7_NA1493 C 0 n 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e rn4.chr1 230013999 27 - 267910886 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74432 66 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16097899 128 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e ponAbe2.chr6 16410394 67 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=66893.000000
+s mm9.chr10 3197749 131 + 129993255 AGGAGGGAGGGAGAAGATGGATG-GCATGTGTG-GCTGCAGGAAGCTTCCT------GAGAAGATGGCAC------TGGCATGGCTGATCTGTGAAG---CTGTACTCCCCTGGCAGGGTGGGACTGTC----GCAGGACCTCAGTTTGGAG
+s rn4.chr1 230014026 132 - 267910886 AGGAGGGAGGGACCAGAGGGTTG-ACATCTGTG-GCTGCAGGAAGCCTCCTC-----AAGAAGACAGCAT------TGGAATAGCTGATCTGTGAAG---TTGTGCTCACCTGGCAGAATGGGCCTGTT----GCAGGACCTCAGTTTGGAG
+q rn4.chr1 99999999999999999999999-999999999-999999999999999999-----9999999999999------999999999999999999999---99999999999999999999999999999----9999999999999999999
+i rn4.chr1 I 27 C 0
+s hg18.chr6 16098027 132 - 170899992 aggagtgaggggagtacagtttg-agatacgtg-cctagagccgcctcctt------gagaaggtgacac------ttgagTAATTCAGCCAGGAGAAGTCTGTGCTTGTCTGATGGGATGGGCTTAT-----GCATCATCTCAA-GTGCTA
+i hg18.chr6 I 128 C 0
+s ponAbe2.chr6 16410461 131 - 174210431 aggagtgaggggagtacagtttg-agatatgtg-cctagagtcgcctcctt------gagaaggtgacac------ttgagtaaTTCAGCCAGGAGAAGTCTATGCTTGTC-GATGGGATGGGCTTAT-----GCATCATCTCAA-GTGCTA
+i ponAbe2.chr6 I 67 C 0
+s rheMac2.chr4 108506879 129 + 167655696 AGGAGTGAGG---ATACAGTTTG-AGATACGTG-CCTGGAGTCACCTCCTT------GAGAAGGTGACAC------TTGAGTAATTCAGCCAGGAGAAGTCTATGCTTGTCTGATGGGATGGGCTTAT-----GCATCATCTCAA-GTGCTA
+q rheMac2.chr4 9999999999---9999999999-999999999-99999999999999999------9999999999999------9999999999999999999999999999999999999999999999999999-----999999999999-999999
+i rheMac2.chr4 I 3 C 0
+s calJac1.Contig1260 74498 130 - 523245 aagagtgaggggaatacagtttg-agatatgta-cctagagtcgtctcctt------gagaaggtgaca--------tGAATAATTCAGCCAGGAGAAGTCTGTGCTTGTCTGATAGGATGGGATTAT-----GCGTCATCTCAA-GTGCTA
+i calJac1.Contig1260 I 66 C 0
+s galGal3.chr24 1921991 147 - 6400109 AGGATGTGGGCTCATTCTGTGTGCACATTTGAGCCCTTCAGGAGCTTTCCTCAGGTGCAGCAGGAGGCATGGATCATTGTGCACTTTGCACAGGTATTG-GTGTGGCAGTGGGAAGGTGTGGGTCTGTAAAAGGTCCTATTTCAG-GAG---
+i galGal3.chr24 I 14 n 14
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=91417.000000
+s mm9.chr10 3197880 175 + 129993255 CATTTCCTTGTA---GTAGAGAGTTATTGATCACTATCCACCGATGATC--------GGAAA--TGTAGCCAGCCCCCTTTCACCTGGGAGGCCCAGGCCC------------------AGTGTGGCTGTG-TCTTCTGCAGAG----TGCCCTCCTTACCGGGGCCTGGTGGCACATGGTGCATGATGAAGAGTGACTTATAAAGTGCAT
+s rn4.chr1 230014158 171 - 267910886 CATTTTTT-------GTAGAGAGTGTTTGAACACTG--CACTGATGATC--------GGGAGACTGTAGCCAGCCCCCTTCCACTTGGGAGGCCCAGGCCC------------------AGTGTGGTTGTG-TCTTCTGCAGAG----TGTCCTTCCTACTGTTGTCTCATGGCACATGGCGCATGATGGACGGTGATTTCCAAAGAGCGT
+q rn4.chr1 99999999-------999999999999999999999--99999999999--------99999999999999999999999999999999999999999999------------------999999999999-999999999999----999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16098159 183 - 170899992 CTTTTCCTGGTAATTGTAGAGAGGGGTCGATCGTTATGAACTGATGATT--------AAATAAAAAAATC---------TTCCCATAGGAGGTACATGTC-----CTGGTCACATCAGAAAGGTACCTGTGAGCGTCTTCATTGCGCCTGCCCAGCTTATTGGGGCCTAAGAATGCCTGGGACATGATGAATGGTGCTTTTTAAA------
+i hg18.chr6 C 0 I 197
+s ponAbe2.chr6 16410592 194 - 174210431 CTTTTCCTGGTAATTGTAGAGAGGGGTCGATCATTATGAACTGATTATT--------AAAAAAAAAAATC---------TTCCCATAGGAGGTACACGTCCTGATCTGGTCACATCAGAAAGGTACCTGTGGGCGTCTTCATTGCGCCTGCCTGGCTTATTGGGACCTAAGAATGCCTGGGATATGATGAATGGTGATTTCTTAAATGTGT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108507008 202 + 167655696 CTTTTCCTGGTAATTGGAGAGAGGGGTCGATCGTTAGGAACTGATGATGACAAAAAAAAAAAAAAAAATC---------TCCCCGTAGGAAATACACGTCCTGATCTGGTCACATCACAAGGGTACCTGTGAGCATCCTCATTGCGCCTGCCCAGCTTATTGAGGCTTAAGAATGCCTGGGACATGATGAATGGTGATTTTTAAAATGTGT
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999---------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 211
+s calJac1.Contig1260 74628 182 - 523245 CTTTTCCTGGTGCTTGTAGAGAGGTGTTGATCATCGTAAACTGGTGATT---------TAAAAAAGAATC---------TCCCCATAGGAGGTACACATCCTGATCTGGTCACATCAGAAGGATACCTGTGAGCATCTTCACCACTCCTGCCTGACTTACTGGGGCCTAACAATGCCTGGGACATAGTGAATGATGATTT-----------
+i calJac1.Contig1260 C 0 I 2501
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=3144.000000
+s mm9.chr10 3198055 23 + 129993255 ------------------TTCAGTGGGGAGATAGGCAGCTG
+s rn4.chr1 230014329 23 - 267910886 ------------------TTCAGTGGGGAGATAGGcagctg
+q rn4.chr1 ------------------99999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16410786 41 - 174210431 GTTATATGAATGAAATAATGCTTTGGACAGATAGGCTGCTG
+i ponAbe2.chr6 C 0 I 2215
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507210 211 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78263363 686 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16098342 197 - 170899992 I
+e panTro2.chr6 16621310 837 - 173908612 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=94359.000000
+s mm9.chr10 3198078 188 + 129993255 TC------------------ACCACAGGTCAGCCCC-GggccctggagatgtcttttaagagtcacgggccttcactttcttatctgtgaaatgagaacactagctttcaccttatcagatggctgggtagaattTCTAGAGTTCCCCTCCCCAAT-CCCACTTT----TGAGTAAGAAGAAAGGCAGTATA-AAAACAAGCCATGAAATGGc
+s hg18.chr6 16098539 198 - 170899992 taggttcaaatcctacctctaccattaattagccctggggccttggacgagtcacttataatttttgaacctcaattttctcatttacagaatgggaatacaaatatttaccttaccagataatttggtgggatttcta-------------caag-ttaatgTTGAGTTAAAAAAGAAAAAAGGCAAAAAA-AAAGTGTGGTATGAAGATAA
+i hg18.chr6 I 197 I 1
+s rn4.chr1 230014352 190 - 267910886 tc------------------accacaggtcagccccggggccctggacatctcatttaacagtcatgagccttcactttcttatctgtaagatgagaacaccagcgttcaccttatcagatggctgggtagaattTCTAAGGTTCCCCTCCTCAAC-CCCACCTT----TGAGTAAGAAGAAAGGCAGTGTAGAAAACGTGacgtgagatggc
+q rn4.chr1 99------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999----99999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78264049 172 - 125616256 --------------------accactggttagccctgggaccttggaaaagttgcttaaaacttaggagcctcatttttttggtctgtaaaatgagaatactaatacttaccataccagattatttggcaggattTTTA-------------TAACAATAATTGT----TGAATAAGAATAAA---AGGGGA-AAAAAGTGTAATATAATGAC
+q canFam2.chr1 --------------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------9999999999999----99999999999999---999999-99999999999999999999
+i canFam2.chr1 I 686 I 17
+s rheMac2.chr4 108507421 155 + 167655696 ----------------------------TTAGCCCTGGGGCCTTGGACAAGTCACTTACAAGTTTTGAACCTCAATTTTCTCATTTGCAAAATGGGAATACAGATATTTACCTTATCAGATAATTTGGTGGGATTTCTA-------------CAAG-TTAATGTTGAG-TAAAAAAAAAAAAAGGCAAAAAA-GTAAGT--------------
+q rheMac2.chr4 ----------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------9999-99999999999-99999999999999999999999-999999--------------
+i rheMac2.chr4 I 211 I 1030
+s panTro2.chr6 16622147 165 - 173908612 --------------------accattaattagccctggggccttggacgagtcacttataatttttgaacctcaattttctcatttacagaatgggaatacaaatatttaccttaccagataatttggtgggatttcta-------------caag-ttaatgTTGAGTTAAAAAAGAAAAAAGGCAAAAAA-AAAAAAG-------------
+q panTro2.chr6 --------------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------9999-99999999999999999999999999999299999-9999999-------------
+i panTro2.chr6 I 837 I 483
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=8715.000000
+s mm9.chr10 3198266 145 + 129993255 aggtgtggtgatgtagcctttaaccccagtatgtggaaggcagaggcaggcagagttttgtgaattaaggtcagcttaatctacattgtatgtgtcaaggcagccaaggctacataggaggc-----------tttttttaagatgtgaagaaaaa
+s rn4.chr1 230014542 155 - 267910886 aggtgc-gtgatgcagtctttaatcccagtacgtaagaggcagaggcaggcagagtttgtgaattagaggtcaacttaacctacattgtgcatttcaggacagccagggctacataggaggcccCCCCCCCCACCTTTTTAAGATGTGAAGAAAAA
+q rn4.chr1 999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264221 17 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16098737 1 - 170899992 I
+e panTro2.chr6 16622312 483 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=3600.000000
+s mm9.chr10 3198411 39 + 129993255 TGGCAATTAAAAATTTCAAATGATCTTATATACCTGTGT
+s hg18.chr6 16098738 39 - 170899992 TGGTTACCATAAATACCTAAAATGCAtgtgtgtgtgtgt
+i hg18.chr6 I 1 C 0
+s rn4.chr1 230014697 39 - 267910886 TGACGGTTAAAAATGTTAAATGGTCCTATGTACCTGTGT
+q rn4.chr1 999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264221 17 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16622312 483 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-3535.000000
+s mm9.chr10 3198450 70 + 129993255 ACATATGTATGTacacacacacacactcacacacacacaagcacacacacacacacacatccacgcacgc
+s rn4.chr1 230014736 60 - 267910886 A----------TGTacatacatacatgcatacatacatatgcgcatgcgcacgcgcgcgcgcgcacacac
+q rn4.chr1 9----------99999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16098777 29 - 170899992 gtttgtgtgtgtATATATAAA-ACACGCAT----------------------------------------
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78264238 31 - 125616256 ATATGAAAATGTATGCATAGAAGTATTTATA---------------------------------------
+q canFam2.chr1 9999999999999999999999999999999---------------------------------------
+i canFam2.chr1 I 17 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13733141 495 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16622312 483 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=34116.000000
+s mm9.chr10 3198520 113 + 129993255 acacacacacacacacacacacacacacTAAGATGTCCATAAACCTATCTGTAAAGGAAGAAGT-------------------------AAATCATATTTATCTTGGCAGGGAAAGAAATAGACACAGAATGGGGGAG
+s rn4.chr1 230014796 130 - 267910886 acacacacacacacacacacacacacacTA--------ATAGACCTGTATGTAAAGGAAGATGTAAATATAGCTGGTAATTTGAGAGAAAAATTGTGTTTATCCTggcagggaaagaggtagacacagaatggaggag
+q rn4.chr1 999999999999999999999999999999--------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16098806 108 - 170899992 -----------------------CATCCTA-------TACAAACTTGTATACGAAGTAATATGTAAATACAGTGGATAATTTAGAAAAAAAGTTGTGTTTACTCTGGCAGGGGGAGAGAGAGGGAGGGAATGTAGGAG
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78264269 103 - 125616256 ----------------ATACACACACC---------------GCCTGTGTACAAAGGAG----GAAGTACAGTAGGTAATTTGGAAGAAAAGTTGGGTTTACTTTGGCAGGGAGAGAAGTAGGGATGGAGCATAGGAG
+q canFam2.chr1 ----------------99999999999---------------99999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 1151
+s bosTau3.chr9 13733636 114 - 95030419 --------------ACACATATACATCTGA----------AAACCTATATACAAAGAAATATCTAAATACAGTGGGAAATTTGGAAGAAAAGTTGGGTTTACTTTGGCAGGGAGAAAAGTGGAGAGAGAATGATGTAT
+q bosTau3.chr9 --------------9999999999999999----------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 495 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16622312 483 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-12271.000000
+s mm9.chr10 3198633 381 + 129993255 GGGGCTAAGCAAAAgagagagaaagg-gtaggaaggaggacaggaggggagggggaaagcaaggagggagggaggcagggCTGTGGGAGGAAGGCTTT---ATTTAC--AAAGTCATACATATAAC-CACACTTACACGTGTAAAAATTAGATATAATATGAACGGCCGTGGTTTCTTT----TGTGTTTGTGTGTGGTGCTGAGACTAGAAAGTAGGGCTTCTTTGTGCACACAAGGCGTGTGCTTACCTACATGGTAAGTTTACTGAGCCACACTCAAGCAAAATACGAGGAGTTTTAAAACTTTGAGGAGTGTCTACCTC-AAAGACTGCTTTGAAGAT--GATGTGTTATAGCAT------------------------------------------------------------------------- [...]
+s rn4.chr1 230014926 377 - 267910886 ggggtggggtaggggtggggctaaggcaaaagaaagagaggggaagcaaggagggcaagatgggagggagggagggagaggggagaaagagaggTTTA---ATTTAC--AAAGTCATACATGTAAGATACACTTACACGTGTCAAAATTAGGTATAATATGAACAGATGTGATTTCTTTTTTGTATGTTTGTGTGTGGTGCTGAGACTAGAG---AGGGCTTCTTCGTGCACAGGAGGCAAGTGCTTACCTACATAGCAAGTGCACTGAGCTACAC-CAAGCAAAGTACAGGGAGTTTTAAAAACC------GTATCTGCCTC-AGAGACTGCTCTGCAGGT-GGGCGTGATACAGCAC------------------------------------------------------------------------- [...]
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999------99999999999-999999999999999999-9999999999999999------------------------------------------------------------------------- [...]
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16098914 285 - 170899992 --------------------CCAAGG-CAAAAAAAGAGAACa-----------------------------------------------aaaaatttt---atttat-aaaaatCATGTATATGAC-CACATTTATGT-----AAAATTAGATACAG-ATAAATAA-----------------TAT------------------------------------------------------------------------------------------------AAAATAC-------TTAAAAaata------atacctactccaaaagattgttatgaagattaaatgagatataacatgtGggccaggtgcggtggctcatgcctgtaataccagaactttgggaggccgaggcgggtggatcacgaggtc [...]
+i hg18.chr6 C 0 I 6
+s bosTau3.chr9 13733750 204 - 95030419 ------------------GAGTCAAG-CTAAAAACAAGA--------------------------------------------------AAACATTTTGTCATTTACAAAAAAGCATGTATGTGAT-CATGTTTATGT-------ATTCATGTAAGA-ATG----------------------GAT---------------CTAGAAGAGAA---------------------------------------ATATAAAATATTT------------------AAAACATAGT--------------------AAATCTACCTC-AAAAA-GATTATGCAGATTAAAGAAGATAT---AT------------------------------------------------------------------------- [...]
+q bosTau3.chr9 ------------------99999999-999999999999--------------------------------------------------9999999999999999999999999999999999999-99999999999-------999999999999-999----------------------999---------------99999999999---------------------------------------9999999999999------------------9999999999--------------------99999999999-99999-999999999999999999999999---99------------------------------------------------------------------------- [...]
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264372 1151 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16622312 483 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=37860.000000
+s mm9.chr10 3199014 367 + 129993255 GGAATCTAAATATCTTGCTTTTTAGATATTTT-GGGAAATATTGTTTTCCAGAGTCAGACTAGATGAATGAAAGAAAAATAAGGAAATTAAAGAAATATATATGCTAGCCTCATTTTCT-GAACTTAATTCT-------AATTTTAACAGATTTTTATAACTTTGAGTTTGACATTTGACAGTTCatatatatgtatatatgtgtgt-gtatatatatatatatatatatacacacatatatatGAGTGAATATGCATGTGCATTTATATACATTTTTAAGGGTGATGACTGAATATGTGTAAATATACTT--------GGGGAATGATACTTTCTGCACT----TTAGAAAAG-ATCTATCATCG------GCTCTTGATCAGAATTTGTTTTCT
+s rn4.chr1 230015303 294 - 267910886 GGGA--TAGAGATCTTGGGTTTTGGATATTTTGGGGAAATAGTGTTTTCCTGAGTCAGACTAGATGAGTTAAAGAGAAATAAAGAAATTAAAGAAATATATATGCTGGCCTTACTTTCTGGAACTTAGTTCT-------AATTTGAACAGATTTTCATAACTTTGAGTT--------------------------------------------CATACATCTACATATATACACACA----------------------------CATATACCTTTTTAAGATTGATGACTTAAGACATGTAAATATACTT--------GGGGAATGTCACTTTCTGGACT----TTGGAAAAG-ATATGTC-TTG------GCTCTTGTCCAGAATCTATtttc-
+q rn4.chr1 9999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------999999999999999999999999988877--------------------------------------------777798999999999999999999----------------------------9999999999999999999999999999999999999999999999--------9999999999999999999999----999999999-9999999-999------99999999999999999999999-
+i rn4.chr1 C 0 I 301
+s hg18.chr6 16099205 226 - 170899992 GAAATACAAAAATCTTGCCTTGTA----------------CTTGTTTTCTGGAATCAAATTTGATAGTTTAAAGAGAA------GAACTGGACAAATATA----CTGCCCTTATTCTCTGGTATTTTTTTGT---TTTAAATTTGAACAG---------------------------------------------------------------------------------------------------------------------------TTTTGAAGGAGTAAGACT---GATATGTAAATATATAT--------CAGG-ATATCATTTTCTGAACTTAGATTGAAAAAT-ATGTTTC-TTGACAAGTGCTCTTGACAAGCGCATGTT----
+i hg18.chr6 I 6 I 328
+s panTro2.chr6 16622795 226 - 173908612 GAAATACAAAAATCTTGCCTTGTA----------------CTTGTTTTCTGGAATCAAATTTGATAGTTTAAAGAGAA------GAACTGGACAAATATA----CTGCCCTTATTCTCTGGTATTTTTTTGT---TTTAAATTTGAACGG---------------------------------------------------------------------------------------------------------------------------TTTTGAAGGAGTAAGACT---GATATGTAAATATATAT--------CAGG-ATATCATTTTCTGAACTTAGATTGAAAAGT-ATGTTTC-TTGACAAGTGCTCTTGACAAGCACATATT----
+q panTro2.chr6 999999999999999999999999----------------99999999999999999999999999999999999999------9999999999999999----9999999999999999999999999999---999999999999999---------------------------------------------------------------------------------------------------------------------------999999999999999999---99999999999999999--------9999-999999999999999999999999999999-9999999-99999999999999999999999999999----
+i panTro2.chr6 I 483 I 348
+s bosTau3.chr9 13733954 293 - 95030419 GAAATATAAAAGTCTTTTCTGGTA----------------CCAGTTTTCTGGAACCAAACTTGTTGGCTTAAGAAGGA-------GACCAAGTTACCACATATGTTAGTATT----TCTGGTATTTTCTAGCTTATTGAAATTTGAACAA-TTGTTACAGATTAAGACT----------------------------GGAAATGTATAAAatatatacatttatatatatataaatgtatata----------------------tatacacatatata---------------tatgtataaatatatacatCATAAAATGGAATGCCATTTTATGAACTTGGGTTGAAAAAACATGTTTA----------GCTCCTGAGGAACATGTGTTTTCT
+q bosTau3.chr9 999999999999999999999999----------------99999999999999999999999999999999999999-------999999999999999999999999999----9999999999999999999999999999999999-999999999999999999----------------------------9999999999999999999999999999999999999999999999----------------------99999999999999---------------99999999999999999999999999999999999999999999999999999999999999999999----------999999999999999999999999
+i bosTau3.chr9 C 0 I 1359
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264372 1151 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=15976.000000
+s mm9.chr10 3199381 226 + 129993255 TCttttttttttatttaaagagttatttatttattttatgtatgtgagtacactgtcactctcttcagacacaccagaagagggcatccgatcccattacagatggttgtgagccaccatgttgttgctgggatttgaactcaggacctctgaaagaacagtcagtgctgttaaccactgagccatctcaccagcccTAGAATTTGTTTTCTATAGTAATTGAAAT
+s rn4.chr1 230015898 223 - 267910886 tctttctttctttcttaaagatttatttatttattccatgtatatgagtacactgtagctgtcttcagacacaccagaagagggcattggatcccattacagatggttatgagccaccatgtggttgctgggaattgaactcaggacctctggaagagcagtcggggctcttaaccactgagccatctctccagccccCAGA---ATTTTTTATAGTAATTGAAAC
+q rn4.chr1 8996899889988669999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999999999999999999
+i rn4.chr1 I 301 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e rheMac2.chr4 108507576 1030 + 167655696 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264372 1151 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16099431 328 - 170899992 I
+e panTro2.chr6 16623021 348 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-2491.000000
+s mm9.chr10 3199607 30 + 129993255 CACTATTTCTTTGCTGAGTGTCCGTGTA-----CA
+s rn4.chr1 230016121 30 - 267910886 CATCGTTTCTCTGCTGAATGTCAGTGTG-----CA
+q rn4.chr1 9999999999999999999999999999-----99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16099759 28 - 170899992 CATAGGTGCTTTGCCAAATGGTGATATT-------
+i hg18.chr6 I 328 C 0
+s rheMac2.chr4 108508606 17 + 167655696 ----------------ATAGGTGCTTTGGCAAA--
+q rheMac2.chr4 ----------------99999999999999999--
+i rheMac2.chr4 I 1030 I 10
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264372 1151 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e panTro2.chr6 16623021 348 - 173908612 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=5643.000000
+s mm9.chr10 3199637 58 + 129993255 TGGGCATGTGTGCAAGcatacacacacacacacacacacacacgcaTGCATGCACCAG
+s rheMac2.chr4 108508633 33 + 167655696 TGCGCCCATGTGCGCTCAGATAC--ACGAAT-----------------------TAGA
+q rheMac2.chr4 99999999999999999999999--999999-----------------------9999
+i rheMac2.chr4 I 10 C 0
+s hg18.chr6 16099787 35 - 170899992 TGTGCATCTGTGCGCTCAGATACATACAAAT-----------------------TAGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16623369 35 - 173908612 TGTGCATCTGTGCGCTCAGATACACACAAAT-----------------------TAGA
+q panTro2.chr6 9999999999999999999999999999999-----------------------9999
+i panTro2.chr6 I 348 C 0
+s rn4.chr1 230016151 35 - 267910886 TGGGTGGGCACGCGTGCAAACACATACCTCC-----------------------CCAG
+q rn4.chr1 9999999999999999999999999999999-----------------------9999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13054769 1707 + 24938454 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264372 1151 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=60309.000000
+s mm9.chr10 3199695 104 + 129993255 AGCAACCAGCTTGGTGAATGCGTTCAGTGTCATTTCCC----GTGCCGTGTGATGGCCACTACAAGATGAACTGTCTC-AGAAACTGCACCCTTTCTTATATTT--------------------------------------GATCT
+s rn4.chr1 230016186 104 - 267910886 AGCAACCAGCTTGGTGAATGAGTTCAGTGTCCTTTCCA----GTGCAGTGTGGTGGCTGCTACAAGAGGGGCTGTTTC-GGAAACTGCACTCTTTCTCTTATTT--------------------------------------GACCT
+q rn4.chr1 99999999999999999999999999999999999999----999999999999999999999999999999999999-9999999999999999999999999--------------------------------------99999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16623404 141 - 173908612 AGTTACAAACTTGATGAATGAGTTGAGTGTGGCTTACCCCATGTGTGTTGTGATGGTAGCAATGAGATTGAACGTGCCAGGGGACTTCACATTCTTTTGCAGCTGCTTGACAGAAGAT----CTGTTGACTCTTTGG--GAAGACAT
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999--99999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16099822 141 - 170899992 AATTACAAACTTGATAAATGAGTTGAGTGTGGCTTACCCCATGTGCGTTGTGATGGTAGCAATGAGATTGAACGTGCCAGGGGACTTCACATTCTCTTGCAGCTGCTTGACAGAAGAT----CTGTTGACTCTTTGG--GAAGACAT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108508666 137 + 167655696 AATCACAAACTCGATGAATGATTTGAGTGTGGCTTACCCCAGGTGCATTGTGGTGGTAGCAATGAGACTGAACGTGCCAGGGAAGTTCACATTCTCTTGCAGCTGCTTGACAGAAGAT----CTGTTGAC----TGG--GAAGACAT
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999----999--99999999
+i rheMac2.chr4 C 0 C 0
+s equCab1.chr31 13056476 146 + 24938454 AATAACAAACTTGATGAATGAGTTGAATGTCGTTTTTC-AATGTGCCGAGTAATGGCAGCAATAAGACTGAATGAGCCAGGAGATTTCACACTCTCTTACAACTATGTGAAGTACTGTTTTCCTCTAAATTTCTTGGCAGAAGATCT
+q equCab1.chr31 99999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 1707 I 34
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_230647 47777 1074 - 51595 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e canFam2.chr1 78264372 1151 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=24370.000000
+s mm9.chr10 3199799 26 + 129993255 TTGTCCTTTC----------------CTGGGGACATGAAGGA
+s rn4.chr1 230016290 26 - 267910886 CTGACCTTTC----------------CTGGGGACAATAAGGA
+q rn4.chr1 9999999999----------------9999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16623545 42 - 173908612 CTGTCTTTGCCATTCATTCCTTTTAACTGGGGAATTGGAGGA
+q panTro2.chr6 999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16099963 42 - 170899992 CTGTCTTTGCCATTTATTCCTTTTAACTGGGGAATTGGAGGA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108508803 42 + 167655696 CTGTCTTTGCCATTTACTCCTTTTAACTGGGGAATTGGAGAA
+q rheMac2.chr4 999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78265523 29 - 125616256 -------------TTATCCCTTTATTCTGGGAAATTTAAGGA
+q canFam2.chr1 -------------99999999999999999999999999999
+i canFam2.chr1 I 1151 C 0
+s equCab1.chr31 13056656 29 + 24938454 -------------TTATTCCTTTTAACTGGGGAATGAAAAGA
+q equCab1.chr31 -------------99999999999999999999999999999
+i equCab1.chr31 I 34 C 0
+s sorAra1.scaffold_256646 109926 16 - 121936 --------------------------CTGGGGAATTGAAGCA
+q sorAra1.scaffold_256646 --------------------------6999999998666379
+i sorAra1.scaffold_256646 I 1074 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_1158 47215 0 - 161123 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=11995.000000
+s mm9.chr10 3199825 75 + 129993255 --CTGGGAGT--CATCTTCCTCTTCAGTGAC-AGGCGCCTGTTTC-----ACCAGAG----CCTTCCTCTCAGGCCCCTG--CTT--CCGAG---A
+s sorAra1.scaffold_256646 109942 63 - 121936 --GTAaaatttctgtctttctctccag------------cGTTTT-----TGCTGAG------------ACTCTGGCCTT--CACGACTGTAAGGG
+q sorAra1.scaffold_256646 --4799995959699759996967735------------998999-----8978994------------99797999776--77959999559999
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13056685 81 + 24938454 --ATGAAAGTTGTATCTTTCTTGCCAGTGAGAAGGAACATGTTCT-----CCTTGAG----TCTTGATTTCTTGTGTCTC--TGT--CTGTGAAGA
+q equCab1.chr31 --9999999999999999999999999999999999999999999-----9999999----9999999999999999999--999--999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78265552 85 - 125616256 --ATGAAAATTGTGCCCTTCTTTGCGGTGACAAGGATCATGTTCT-----CCTGGGGTCCTTCCTTATTACTTTCGTCTC--CAT--CTGTGAGGG
+q canFam2.chr1 --9999999999999999999999999999999999999999999-----999999999999999999999999999999--999--999999999
+i canFam2.chr1 C 0 C 0
+s rheMac2.chr4 108508845 71 + 167655696 --ATAAAAGT--TGTATTTCTTTCCA--GACAAAGAACATGTTCT-----GCCTGAG----CCTTTATTCTTGGTGTCC--------CTGTGA--A
+q rheMac2.chr4 --99999999--99999999999999--99999999999999999-----9999999----999999999999999999--------999999--9
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16100005 77 - 170899992 --ATAAAAGT--TGTATCTCTTTCCAGTGACAAAGAACATGTTCT-----GTCTGAG----CCTTTATTCTTGGTGTCCT--TGT--CTGTGA--A
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16623587 77 - 173908612 --ATAAAAGT--TGTATCTCTTTCCAGTGACAAAGAACGTGTTCT-----GCCTGAG----CCTTTATTCTTGGTGTCCC--TGT--CTGTGA--A
+q panTro2.chr6 --99999999--999999999999999999999999999999999-----9999999----9999999999999999999--999--999999--9
+i panTro2.chr6 C 0 C 0
+s rn4.chr1 230016316 72 - 267910886 --ACGGGAAT--CATCTTCCTTCTCAGTT-C-AGGAGCCTGCTTC-----ACTAGAG----CCTTCATCTCAGACCTCTG----T--CCATG---A
+q rn4.chr1 --99999999--99999999999999999-9-9999999999999-----9999999----9999999999999999999----9--99999---9
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_560 361479 81 + 756420 CCGGGAAAGT--TCTCACCTTGCCGAGTA---CGGGACATATTCCCGAGAATAAGAG----TTCTCCTACTCAGCGCCCTGCTAC--CCAAT----
+i xenTro2.scaffold_560 n 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr24 1922138 14 - 6400109 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-47508.000000
+s mm9.chr10 3199900 125 + 129993255 GACACATCTGCTTTTCCC--CTCCTCT-------------TTC---------CATCTGCGTGTCAGCCTCACCT---------TTGTG-------CT--TTTTCTTAGCATGTGCC-----------CTGCATCCCTTCCTGCAGTAGTGA------------------AGA-GGGGTGCCCTCT-GCTGC-----GTTTCTC
+s rn4.chr1 230016388 99 - 267910886 GAGACATCTGCTTTCCCC--TTCCTCT-------------TTA---------CGTCCGCATGCC-----------------------G-------CC--TTCCCTCAGCATGTGA----------------------------AGTAGTGA------------------AGA-GGGATGCCAGCC-TCTGCTTGTCCTTTCTC
+q rn4.chr1 999999999999999999--9999999-------------999---------999999999999-----------------------9-------99--9999999999999999----------------------------99999999------------------999-999999999999-99999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16623664 155 - 173908612 GAGACATTTGCTTGTCCCATCTCTCTT-------------CTA---------CATCT---TGCCGTCCTCCCTTCTTCTT--CTTGTGGTGACATCC--TTCCTTC--CATCCATC----------TCTGCATCCTTCCTTCCATTAATAATTTATGAGTCCTCTAATTTGA-AGGATACATATT-GCTGC-----TTCTTTT
+q panTro2.chr6 999999999999999999999999999-------------999---------99999---99999999999999999999--999999999999999--9999999--99999999----------9999999999999999999999999999999999999999999999-999999999999-99999-----9999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16100082 155 - 170899992 GAGACATTTGCTTGTCCCATCTCTCTT-------------CTA---------CATCT---TGCCGTCCCCCCTTCTTCTT--CTTGTGGTGACATCC--TTCCTTC--CATCCATC----------TCTGCATCCTTCCTTCCAATAATAATTTATGAGTCCTCTAATTTGA-AGGATACATATT-GCTGC-----TTCTTTT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108508916 156 + 167655696 GAGACATCTGCTTGTCCCGTCTCTCTT-------------CTA---------CATCT---TGCCGTCCCCCCTTCTTCTT---TTGTGGTGACATCCTTTTCCTTC--CATCCATC----------TCTGCATCCTTTCTTCCAATAATAATTTATGAGTCCTCTAATTTGA-AGGATACATATT-GCTGC-----TGCTTTT
+q rheMac2.chr4 999999999999999999999999999-------------999---------99999---99999999999999999999---99999999999999999999999--99999999----------9999999999999999999999999999999999999999999999-999999999999-99999-----9999999
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78265637 138 - 125616256 GAGACATTTGCTCATCCTTTTGCTCCT----TTCTCTCCTCCA---------CATGT---TGCTGTCT-GCCCTCCT------------------CT--TTCTCGT--CACTT---------------TGTGTCCTTCTGTTTGGGGCTAAGGTGTCAGTCTCGTGATCTGA-AGGGTACGTGGTGGCTGC----------TC
+q canFam2.chr1 999999999999999999999999999----999999999999---------99999---99999999-99999999------------------99--9999999--99999---------------99999999999999999999999999999999999999999999-999999999999999999----------99
+i canFam2.chr1 C 0 I 2
+s equCab1.chr31 13056766 137 + 24938454 CAGATGTATGCTTGTCCTTTTTCTCCT----TTC------CCA---------CCTAT---TGCCATTTCCCCCTCCT------------------CT--TTCTTGT--CACTTTCT-----------CTGCATCCTTCCTTCTAAGGATAATGTATCAGGCTCCTGATTTGA-AGGATAAATGGTTGCTGC----------TT
+q equCab1.chr31 999999999999999999999999999----999------999---------99999---99999999999999999------------------99--9999999--99999999-----------999999999999999999999999999999999999999999999-999999999999999999----------99
+i equCab1.chr31 C 0 I 6
+s sorAra1.scaffold_256646 110005 108 - 121936 GGGCC-TCTGCCTgccctatttctccc----tct------cca---------cATGG---GTCCGTTC----TCCCT------------------CT--TCCTTGG--CACTTGGT-----------CTGCATCCTTCCCTATAAGGGTAACGTGTGA-----------TGA--------------GTTTC----------CC
+q sorAra1.scaffold_256646 99999-796778699993979876797----898------797---------76798---77685579----98443------------------77--9798998--67799997-----------9997699999999799999999999978699-----------899--------------99999----------99
+i sorAra1.scaffold_256646 C 0 I 3633
+s galGal3.chr4 85341020 124 - 94230402 --GGCACATCTTTGTCTT--TTATGCTGATATCC------TTA---------ATTTC---TAATACTCACCTTTTTT------------------CC--TTCTGAG--AATTTTTT---------ACCTTTATGCACTATTGCAGTAGAAA------------------ACA-AACAATCCTTTT-TCTCT-----TTTCTT-
+i galGal3.chr4 I 1039 I 1354
+s xenTro2.scaffold_560 361560 146 + 756420 --------AACCCCTCCCTTCTCTCTT-------------CTAATCGACCCTCACCC---CCACATAACCCCTTCTCCTGACCCTTTA-------CC--CTCTCTC--CTCCCTTCCCCCACAAGCCTTACACACTCCCCCACACT--TGAATTAGGCGCCTTTGTGTTGAATAGCATACCGG--------------------
+i xenTro2.scaffold_560 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e ponAbe2.chr6 16410827 2215 - 174210431 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=-8324.000000
+s mm9.chr10 3200025 63 + 129993255 CCCCTGCAATGGTTCTGTGTGTTCCT------------GTGCACTTCCAAGGCTGCTT----CTGTAGTCAACACCAAG
+s rn4.chr1 230016487 49 - 267910886 CCCTTGCAATGATTCTGTG----------------------CACTTCCAAGCATGTTT----CCGTTGTAGTCA----A
+q rn4.chr1 9999999999999999999----------------------99999999999999999----999999999999----9
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108509072 73 + 167655696 CTCCTGCAAGGAAATCGCACATTTCTTTTAAGAAGTTTCTTCATTTCTTAACATTTGTTTAGCTGTCATCCTA------
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16413042 57 - 174210431 CCTCTGCCTGG---------GTCTGTGCCAG-------CTCTGACTCAAGGTGCATCTTCAGCTGTAGTCCTA------
+i ponAbe2.chr6 I 2215 C 0
+s panTro2.chr6 16623819 73 - 173908612 CTCCTGCAAGGAAACTGCACATTTCTTTTAAGAAATTTCTTCATTTCTTAACATTTTTTCAGCTGTAGTCCTA------
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16100237 73 - 170899992 CTCCTGCAAGGAAACTGCACATTTCTTTTAAGAAATTTCTTCATTTCTTAACATTTTTTCAGCTGTAGTCCTA------
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13056909 51 + 24938454 CCCCTGTAAGGAAAGCACACACTTCT-------------------TTTGAGCATGGTT-CAGCTA--GTCGCA------
+q equCab1.chr31 99999999999999999999999999-------------------9999999999999-999999--999999------
+i equCab1.chr31 I 6 C 0
+s canFam2.chr1 78265777 54 - 125616256 CCCCTGTAAGGACCCTGCACCTGTCT------------------AGGTAAGCATGCCT-CAGCTGCTGCCCCA------
+q canFam2.chr1 99999999999999999999999999------------------99999999999999-99999999999999------
+i canFam2.chr1 I 2 C 0
+s xenTro2.scaffold_560 361706 54 + 756420 CCCCCTCCAGGCTCCTGAT-------------------TGGCAGCTCAGAGCCCCCCTTCGTCCCCACCATCA------
+i xenTro2.scaffold_560 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85341144 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 74810 2501 - 523245 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=49474.000000
+s mm9.chr10 3200088 34 + 129993255 CACTGAGTGCAAGGGTCAGTCTTCAGGTCCAGTC
+s rn4.chr1 230016536 34 - 267910886 CATCGAGCGCAGGGGTTGGTCTGCCAGTCCAGTC
+q rn4.chr1 9999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 77311 34 - 523245 CACCAAGTACATGGATAGATCTTCTGGTTCAGTG
+i calJac1.Contig1260 I 2501 C 0
+s rheMac2.chr4 108509145 34 + 167655696 TACCAAGTATAAGGATAGAGCTTCCCATTCAGTG
+q rheMac2.chr4 9999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16413099 34 - 174210431 TACCAAGTACAAGGATAGATCTTCCCGTTCAGTG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16623892 34 - 173908612 CACCAAGTACAAGGATAGATCTTCCCGTTCAGTG
+q panTro2.chr6 9999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16100310 34 - 170899992 CACCAAGTACAAGGATAGATCTTCCCGTTCAGTG
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13056960 33 + 24938454 CACCAGGTCCACGGATGGGTGTTCC-ATTGAGTT
+q equCab1.chr31 9999999999999999999999999-99999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78265831 33 - 125616256 CACCAAGTTCACGGATAGACCTCCC-GTCCAGTT
+q canFam2.chr1 9999999999999999999999999-99999999
+i canFam2.chr1 C 0 C 0
+s xenTro2.scaffold_560 361760 22 + 756420 --------TTGATGGCAAGTCCCCGCCCAC----
+i xenTro2.scaffold_560 C 0 I 92
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85341144 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e tupBel1.scaffold_69721.1-9315 7541 5 + 9315 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e oryCun1.scaffold_214769 100818 2621 - 139458 I
+
+a score=150567.000000
+s mm9.chr10 3200122 63 + 129993255 TTGAGGGTTTAAGATGAGAAGAAGGAAACAAAGGCAGGAAGGGGTTGTGACCTACATTTCCCA
+s canFam2.chr1 78265864 41 - 125616256 TGCAGGCTCTGCTGTCAGACGAAGGAAACT---------------------CTGTAT-GTTGC
+q canFam2.chr1 999999999999999999999999999999---------------------999999-99999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13056993 63 + 24938454 TTCAGACTAGAATTTCAGGTGAAGGAAACTGAGGTGGGAGGGGATTGTGAGCTGTATCGTCAA
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s oryCun1.scaffold_214769 103439 54 - 139458 ---------TAATTTCAGATGAAGGAAATCAAGGTAGGGAGGGATCGCGAAGTATATTTCCAA
+q oryCun1.scaffold_214769 ---------999999999979998989899979999989999889898999999999999999
+i oryCun1.scaffold_214769 I 2621 C 0
+s tupBel1.scaffold_114895.1-498454 400266 63 - 498454 TTGAGGTTATCCTTTCAGATGAAGGAAGCCAGAGTGGGAAGGAATTGTGACGTATGTTTCTAG
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 2422 C 0
+s calJac1.Contig1260 77345 63 - 523245 TTGAGGCTGTAATTTAAGATGAAGGACACCAAGGTGGGAAGGGATTGAGATCTGTATTTCCAA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108509179 63 + 167655696 TTGAGGCTGTAATTTGAGATGAAGGACCCCAAGGTGGGAAGGGATTGAGATCTGCATTTCCAT
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16413133 63 - 174210431 TTGAGGCTGTAATTTGAGATGAAGGACCCCAAGGTGGGAAGGGATCGAGATCTGTATTTCCAG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16623926 63 - 173908612 TTGAGGCTGTAATTTGAGATGAAGGACCCCAAGGTGGGAAGGGATTGAGATCTGTATTTCCAG
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16100344 63 - 170899992 TTGAGGCTGTAATTTGAGATGAAGGACCCCAAGGTGGGAAGGGATTGAGATCTGTATTTCCAG
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230016570 63 - 267910886 TTGAGGGCTTAAGGTGAGAAGAAGGAAACAAAGGCAGGACGGGGTTGTGACCTACGTTTCCAG
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s galGal3.chr4 85342498 47 - 94230402 ----------------AAAAAAAAGAAAAAACATCAGAAGAATGTTATGACCTACATATCTTA
+i galGal3.chr4 I 1354 n 1354
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361782 92 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+
+a score=50360.000000
+s mm9.chr10 3200185 43 + 129993255 TTGGATTCAC---CTCTATAATGGCATGATGACTTCAAGTGTAATG
+s canFam2.chr1 78265905 46 - 125616256 TCTGTCCTCGTAAAGTTGTGATGACAGGAAACCTGCAATCACAGTG
+q canFam2.chr1 9999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13057056 46 + 24938454 TGTATCCTCCTAATGTTGTGATGACGTGAAATCTGGAATCTCGATG
+q equCab1.chr31 9999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s oryCun1.scaffold_214769 103493 35 - 139458 TCTGTTTTCC---TGTTGTGGTGACGTGGAAAC--------CAAAG
+q oryCun1.scaffold_214769 9899999999---99999699999997999999--------99989
+i oryCun1.scaffold_214769 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 400329 46 - 498454 TCGATTTACTTCTTACTGTGTTGGCATGAAAACTGAAACAGTGATG
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 77408 43 - 523245 TCTAGTCTCC---TGTTGTGGGGCCATGAAAACTGAAATAGGGATG
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108509242 46 + 167655696 TGTAGTCTCCTCATGTCGTGATGCCATGAAAACTGAAATAGGGACA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16413196 45 - 174210431 TG-AGTCTCCTCATGTCGTGATGCCATGAAAACTGAAATAGAGACG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16623989 46 - 173908612 TGTAGTCTCCTCATGTCATGATGCCGTGAAAACTGAAATAGAGACG
+q panTro2.chr6 9999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16100407 45 - 170899992 TGTAGTCTCCTCATGTCG-GATGCCATGAAAACTGAAATAGAGACG
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230016633 43 - 267910886 CTGGACTCAC---CTCTGTCATCGCATGATGACTTCAGGTGTAGTG
+q rn4.chr1 9999999999---999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361782 92 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+
+a score=84938.000000
+s mm9.chr10 3200228 57 + 129993255 GTACAAGA--------ACAAAGAGGC------------ACTGACAGG-GCCGAGTTCCTGTCTGAGAGGA---------------------------------------AATAG--AAA
+s rn4.chr1 230016676 58 - 267910886 GTGCAAGA--------ATGAGGAGGC------------AGCGGCAGG-GCGGAGTTTCTGTCCAGCAGGA---------------------------------------AATAG-TAAA
+q rn4.chr1 99999999--------9999999999------------999999999-9999999999999999999999---------------------------------------99999-9999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16100452 59 - 170899992 GCAAGAGAG-------ACACAATGGC------------CCTGGCAGGTGCTGAGTTTCAGTCTGGAAAGA---------------------------------------AATAG--GAA
+i hg18.chr6 C 0 I 830
+s panTro2.chr6 16624035 59 - 173908612 GCAAGAGAG-------ACACAATGGC------------ACTGGCAGGTGCTGAGTTTCAGTCTGGAAAGA---------------------------------------AATAG--GAA
+q panTro2.chr6 999999999-------9999999999------------99999999999999999999999999999999---------------------------------------99999--999
+i panTro2.chr6 C 0 I 1019
+s ponAbe2.chr6 16413241 59 - 174210431 GCAAGAGAG-------ACACAATGGC------------ACTGGCAGGTGCTGAGTTTCAGTCTGGAAAGA---------------------------------------AATAG--GAA
+i ponAbe2.chr6 C 0 I 984
+s rheMac2.chr4 108509288 57 + 167655696 GCAAGAGAG-------ACACAATGGC------------ACTGGCAGGTGCTGAGTTTCAGTCTGGAAAGA---------------------------------------AATAG--A--
+q rheMac2.chr4 999999999-------9999999999------------99999999999999999999999999999999---------------------------------------99999--9--
+i rheMac2.chr4 C 0 I 150
+s calJac1.Contig1260 77451 59 - 523245 GTAAGAGAG-------ACACAATGGC------------CCTGGCGGGTGCTGAGTTTCAGTCTGGAAAGA---------------------------------------AATAA--GAA
+i calJac1.Contig1260 C 0 I 664
+s tupBel1.scaffold_114895.1-498454 400375 59 - 498454 ATAAGAGAG-------ATGAAATGAC------------AGTGGTAGGTGCTGGATTCCAGTCTGGGAAGA---------------------------------------AATGG--GAA
+q tupBel1.scaffold_114895.1-498454 999999999-------9999999999------------99999999999999999999999999999999---------------------------------------99999--999
+i tupBel1.scaffold_114895.1-498454 C 0 I 2
+s oryCun1.scaffold_214769 103528 60 - 139458 TAGCCATA--------ACGAAGTGGC------------AGTGGCAGGCACCGAGTTGCAGCCTGGGAAGA---------------------------------------AATAGGGGAA
+q oryCun1.scaffold_214769 99997655--------1113332257------------99889999999999999999999986679667---------------------------------------9999998999
+i oryCun1.scaffold_214769 C 0 C 0
+s equCab1.chr31 13057102 96 + 24938454 GGGAGAG---------ATGAAATGAC------------AGTGGCGGGTGCTGAGTTCCCTTGTGGAAAAAAATGGGGGGACATGAGCAATGTAAAGCCTATGAAAACTGAACAG--AAA
+q equCab1.chr31 9999999---------9999999999------------9999999999999999999999999999999999999999999999999999999999999999999999999999--999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78265951 74 - 125616256 GTGGGAG---------ATGAAATGAC------------AGGGGTAGGTGCCAGAGTCCACTGCGGAGAAA----GTGGCCCAGGAG------------------GACTGAACAG--AAA
+q canFam2.chr1 9999999---------9999999999------------99999999999999999999999999999999----999999999999------------------9999999999--999
+i canFam2.chr1 C 0 C 0
+s xenTro2.scaffold_560 361874 71 + 756420 GTACGGGGGCCAATGAGCGCAGTGTCCGGGCCGGGCTGACTGGCAGCGGCTCATTAGTATGCGGGCGGGA---------------------------------------G---------
+i xenTro2.scaffold_560 I 92 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+
+a score=-7847.000000
+s mm9.chr10 3200285 28 + 129993255 GGGGCAGTATTTGAG-----------GGAGAAGGGGAAC
+s rn4.chr1 230016734 28 - 267910886 GGAGCAATATTTGAA-----------GGAGAGGGGGAAC
+q rn4.chr1 999999999999999-----------9999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 103588 39 - 139458 TGAGCCATGTGTGAGCCCCAGACGACCGAGTGGAGCGAT
+q oryCun1.scaffold_214769 999999999999999999977557699999899999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108509495 37 + 167655696 TGAGCAATATTTGTCCCTGAGAAAACTGAATGGAAAG--
+q rheMac2.chr4 9999999999999999999999999999999999999--
+i rheMac2.chr4 I 150 I 301
+s tupBel1.scaffold_114895.1-498454 400436 35 - 498454 TGAGCAGTAAAGG--CCTAAGAGAACTGAAAGGAGAG--
+q tupBel1.scaffold_114895.1-498454 9999999999999--9999999999979999999999--
+i tupBel1.scaffold_114895.1-498454 I 2 I 6
+s equCab1.chr31 13057198 29 + 24938454 ---GAAAGATA----GCCATGAAGGCCGAGGAGGAG---
+q equCab1.chr31 ---99999999----999999999999999999999---
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78266025 29 - 125616256 ---GCAAGGTG----GCCATGAAAGCAGAGGAGAAA---
+q canFam2.chr1 ---99999999----999999999999999999999---
+i canFam2.chr1 C 0 C 0
+s xenTro2.scaffold_560 361945 28 + 756420 GGGGCAGTGTGTGTG-----------GGAGAGGGGGGGC
+i xenTro2.scaffold_560 C 0 n 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 77510 664 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16100511 830 - 170899992 I
+e panTro2.chr6 16624094 1019 - 173908612 I
+e ponAbe2.chr6 16413300 984 - 174210431 I
+
+a score=1063.000000
+s mm9.chr10 3200313 61 + 129993255 AGC--GGGATGGAGCCAAGGGA--GACACCATCA-CTAACTGGGAATTGCATGTCAGG------TGTTGAGC--
+s rn4.chr1 230016762 56 - 267910886 AGC--GGGACAGAGCAGAGGGA--GACACCATCA-CTGACTGGGAATTGCATGTCAGG------TGT-------
+q rn4.chr1 999--99999999999999999--9999999999-99999999999999999999999------999-------
+i rn4.chr1 C 0 I 34
+s oryCun1.scaffold_214769 103627 58 - 139458 GCCCAGGGAAGCAGAAGTGGAA--AAGACCGATC-CTGAGTGTGGATTGTGTCCCAGA------TGT-------
+q oryCun1.scaffold_214769 9999999999999999999999--9999999999-99999999999999999999999------999-------
+i oryCun1.scaffold_214769 C 0 I 1338
+s rheMac2.chr4 108509833 60 + 167655696 AGCCATGGAAGCAGAAGAGGAA--AAGACCACTG-CTGAGTGCTGACTGCGTCTCAGG------TGT---AT--
+q rheMac2.chr4 9999999999999999999999--9999999999-99999999999999999999999------999---99--
+i rheMac2.chr4 I 301 I 169
+s tupBel1.scaffold_114895.1-498454 400477 69 - 498454 AGCCACAGAAGCAGAGAAGGCGGTGAGGTCAGTGACTGGGCGCAAATTATGTCTCTGGGTGCACTGT---GC--
+q tupBel1.scaffold_114895.1-498454 9899999999999999999789999999999979998999999999999999999999979999999---78--
+i tupBel1.scaffold_114895.1-498454 I 6 I 26
+s equCab1.chr31 13057227 49 + 24938454 ----------AAAGCCATGAGa------ccatttattgagtgtgggctgtgtctcagg------tat---gtgc
+q equCab1.chr31 ----------999999999999------999999999999999999999999999999------999---9999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78266054 36 - 125616256 ----------GAAGCCACgaga-------------------gctggttgtgtctcagt------cat---gtgc
+q canFam2.chr1 ----------999999999999-------------------99999999999999999------999---9999
+i canFam2.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 77510 664 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16100511 830 - 170899992 I
+e panTro2.chr6 16624094 1019 - 173908612 I
+e ponAbe2.chr6 16413300 984 - 174210431 I
+
+a score=-3805.000000
+s mm9.chr10 3200374 37 + 129993255 TCCCAACGGTTTCTAGGATGCTGA-CTGTGCCATCTTA-
+s canFam2.chr1 78266090 23 - 125616256 --------------cacatgcttg-acatgtgatcatg-
+q canFam2.chr1 --------------9999999999-9999999999999-
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13057276 24 + 24938454 --------------tgcatgctgacacgtgttatcaca-
+q equCab1.chr31 --------------999999999999999999999999-
+i equCab1.chr31 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 400572 20 - 498454 TCCTAACAGTCTGAGGTAGG-------------------
+q tupBel1.scaffold_114895.1-498454 99998999999999999999-------------------
+i tupBel1.scaffold_114895.1-498454 I 26 C 0
+s rn4.chr1 230016852 38 - 267910886 TCCCTACAGTTTCTAGGATGCTGA-ACTTGCCTTCTTAT
+q rn4.chr1 999999999999999999999999-99999999999999
+i rn4.chr1 I 34 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e rheMac2.chr4 108509893 169 + 167655696 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_28305 23790 0 + 42240 I
+e calJac1.Contig1260 77510 664 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16100511 830 - 170899992 I
+e panTro2.chr6 16624094 1019 - 173908612 I
+e ponAbe2.chr6 16413300 984 - 174210431 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-20076.000000
+s mm9.chr10 3200411 46 + 129993255 TTTACT-----------------GGCAGGAA-------------------AGAGA---------------GGCAGAG-GGTTGAGCAGG---------------CAGGCTATA
+s rn4.chr1 230016890 46 - 267910886 TTTGCT-----------------GGCAGGAA-------------------AGAGA---------------GGCAGAG-GGGTTAGCAGG---------------CAGGCTGTA
+q rn4.chr1 999999-----------------99999999-------------------99999---------------9999999-99999999999---------------999999999
+i rn4.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 400592 46 - 498454 CCTATA-----------------AGTGGAAAC------------------AGAAC---------------AACGAAA-GGTTAGACACA---------------TTGTCCAT-
+q tupBel1.scaffold_114895.1-498454 699999-----------------996899988------------------99969---------------9999999-99999999999---------------99999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13057300 109 + 24938454 tttggttctcagcagttctctgaggtaggttttcagcctcccctctttacagagtaggaaacggag----catggagaggttaaacgggtcacccaagtcttctcagtgggta
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999----9999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 2
+s canFam2.chr1 78266113 85 - 125616256 tttacttctc-------------agcagatctctgagct-----------agggttgatcgtgttggctttatggag-gaagaaatagg---ctcaAGTCACCTCAGCTGCTA
+q canFam2.chr1 9999999999-------------9999999999999999-----------999999999999999999999999999-99999999999---999999999999999999999
+i canFam2.chr1 C 0 I 2
+s loxAfr1.scaffold_4233 72306 48 + 124190 tttacag----------------agtaggaaac-----------------aaagg---------------cacagagaggttaaataac---------------ttgccca--
+q loxAfr1.scaffold_4233 9999999----------------9999999999-----------------99999---------------9999999999999999999---------------9999999--
+i loxAfr1.scaffold_4233 I 3646 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e rheMac2.chr4 108509893 169 + 167655696 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e calJac1.Contig1260 77510 664 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e hg18.chr6 16100511 830 - 170899992 I
+e panTro2.chr6 16624094 1019 - 173908612 I
+e ponAbe2.chr6 16413300 984 - 174210431 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=89381.000000
+s mm9.chr10 3200457 94 + 129993255 AAGGCTGCACCATTCCTGAGGTGGCAGGCTG---AGGATAGG--GCAGTGGAGACCTGCCTGGGGCAAG---------------------CTGCTAGTTGCCTT-GGTGG-------------CCCTGACT-----------------------GCT-------
+s rn4.chr1 230016936 97 - 267910886 CAGGGCGCACCATTCGTGAGGTGGTAGACTG---CGGACAGGGAGTAACAGAGACCCACCTGAGGCAAG---------------------GTGCTAGTTGCCCTGGGTGG-------------CCCTGACT-----------------------GCT-------
+q rn4.chr1 9999999999999999999999999999999---99999999999999999999999999999999999---------------------99999999999999999999-------------99999999-----------------------999-------
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 78174 79 - 523245 -AAGCTGCTCAGTTCCCAAGAAGGCAGACTA-GGAGGAGAGG-----------------CCTGGGGGTG---------------------CTGAGAGCCACCCAGGCTGG-------------GCCT--CT-----------------------GCT-------
+i calJac1.Contig1260 I 664 C 0
+s hg18.chr6 16101341 80 - 170899992 aagactgctcagttcctgagaaggcagaata-ggaggagagg-----------------caggggggtg---------------------ctgagtgccacccaggctgg-------------gcct--ct-----------------------gct-------
+i hg18.chr6 I 830 C 0
+s panTro2.chr6 16625113 80 - 173908612 aaggctgctcagttcctgagaaggcagaata-ggaGGAGAGG-----------------CAGGGGGGTG---------------------CTGAGTGCCACCCAGGCTGG-------------GCCT--CT-----------------------GCT-------
+q panTro2.chr6 9999999999999999999999999999999-9999999999-----------------9999999999---------------------99999999999999999999-------------9999--99-----------------------999-------
+i panTro2.chr6 I 1019 C 0
+s ponAbe2.chr6 16414284 80 - 174210431 aagactgctcagttcctgagaaggcagaata-ggaGGAGAGG-----------------CAGGGGGGTG---------------------CTGAGTGCCACCCAGGCTGG-------------GCCT--CT-----------------------GCT-------
+i ponAbe2.chr6 I 984 C 0
+s rheMac2.chr4 108510062 80 + 167655696 AAGGCTGCTCAGTTCCTGAGAAGGCAGAATA-GGAGGAGAGG-----------------CTGGGAGGTG---------------------CTGAGAGCCACCCAGGCTGG-------------GCCT--CT-----------------------GCT-------
+q rheMac2.chr4 9999999999999999999999999999999-9999999999-----------------9999999999---------------------99999999999999999999-------------9999--99-----------------------999-------
+i rheMac2.chr4 I 169 C 0
+s tupBel1.scaffold_114895.1-498454 400638 84 - 498454 --GGCTCCTTGGCTTGTAAGAAGGTAGAATA---AGGAGAGG-----------------CT-----GTG---------------------CTGATGGCTACCTGGGTTGGTCTCCGCCAGCCAGTCT--GT-----------------------GCT-------
+q tupBel1.scaffold_114895.1-498454 --99999999999968999999999999999---99999999-----------------99-----999---------------------9999999999999999999678999899999999999--99-----------------------999-------
+i tupBel1.scaffold_114895.1-498454 C 0 I 9
+s equCab1.chr31 13057411 88 + 24938454 --------------------aaggtagaata---aggaACAG-----------------CCAGGGAAGGAAGGGGCAC------------CTGATAGCTGCCTTGGCTGG-------------GTCT--CTGCCAGGTAGGCTGGCCT--GTCTGCC-------
+q equCab1.chr31 --------------------99999999999---99999999-----------------9999999999999999999------------99999999999999999999-------------9999--9999999999999999999--9999999-------
+i equCab1.chr31 I 2 C 0
+s canFam2.chr1 78266200 90 - 125616256 --------------------GAGTTAGAATA---AGGAAGTG-----------------CAGAGGAGGGAAGGGGCAC------------CTGATATCAGCCCTGGCTGG-------------GTCC--CTGCCAGGTAGGCTGGCCTGAGTCCGCT-------
+q canFam2.chr1 --------------------99999999999---99999999-----------------9999999999999999999------------99999999999999999999-------------9999--9999999999999999999999999999-------
+i canFam2.chr1 I 2 C 0
+s loxAfr1.scaffold_4233 72354 122 + 124190 -aggtggctcagttaataagaaggcagaATAAGAAGGAGAAG-----------------CAGGGGGAAGGGGAGCTATCCGAGTAGCCTACGGAGAGCTACCCAGGCTGG-------------GTCT--CTGCCACTTGGGTTGG---------GCTGTATTCC
+q loxAfr1.scaffold_4233 -99999999999999999999999999999999999999999-----------------999999999999999999999999999999999999999999999999999-------------9999--9999999999999999---------9999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13734247 1359 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e otoGar1.scaffold_112035.1-90481 73648 2 - 90481 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=101487.000000
+s mm9.chr10 3200551 37 + 129993255 GATCCAGGTGACCCAGGGCTGACATGAAGCTCTGTTT-
+s rn4.chr1 230017033 37 - 267910886 GATCCAGGTGGCCCAGGACTGTCATGAAGCTCTGCTT-
+q rn4.chr1 9999999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108510142 33 + 167655696 --GCCAGGTGACCCAGGGCTGTGA-GAAGCTCAG-CT-
+q rheMac2.chr4 --9999999999999999999999-999999999-99-
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16414364 33 - 174210431 --GTCAGGTGACCCAGGGCTGTGA-GAAGCTCAG-CT-
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16625193 33 - 173908612 --GCCAGGTGACCCAGGGCTGTGA-GAAGCTCAG-CT-
+q panTro2.chr6 --9999999999999999999999-999999999-99-
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16101421 33 - 170899992 --gccaggtgacCCAGGGCTGTGA-GAAGCTCAG-CT-
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 78253 34 - 523245 --GCCAGGTGACCCAGGGCTGTGAGGAAGCTCAG-CT-
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 359071 30 - 359464 GGCTCAGGTGACCGAGGGC------AAAGCCCAG-CT-
+q otoGar1.scaffold_334.1-359464 9999999999999999999------999999999-99-
+i otoGar1.scaffold_334.1-359464 I 4247 C 0
+s tupBel1.scaffold_114895.1-498454 400731 30 - 498454 GGGCCAG------CAGGACTGTCC-AGAGCTCGGCCT-
+q tupBel1.scaffold_114895.1-498454 9999999------99999999999-999999999999-
+i tupBel1.scaffold_114895.1-498454 I 9 C 0
+s bosTau3.chr9 13735606 36 - 95030419 CATCCACTTGACCAAGGGATGTGACAGACCTCAG-CC-
+q bosTau3.chr9 9999999999999999999999999999999999-99-
+i bosTau3.chr9 I 1359 I 1
+s equCab1.chr31 13057499 36 + 24938454 AATCCAGGTGACCAGGGAATGTGGCAAGGCCCAG-CC-
+q equCab1.chr31 9999999999999999999999999999999999-99-
+i equCab1.chr31 C 0 I 1
+s canFam2.chr1 78266290 36 - 125616256 GATCCAGGTGACCAAGGAATGTGACAAAGCTCAG-CC-
+q canFam2.chr1 9999999999999999999999999999999999-99-
+i canFam2.chr1 C 0 I 1
+s loxAfr1.scaffold_4233 72476 37 + 124190 AATCCAGGTGACCAAGGAATGTCACGAATCTCAG-CCT
+q loxAfr1.scaffold_4233 9999999999999999999999999999999999-999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_330084 339 4154 + 5186 I
+e dasNov1.scaffold_13068 19534 4136 + 27231 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=604140.000000
+s mm9.chr10 3200588 171 + 129993255 CAGTGTGTGATTCATGAG----GGGGTGG--CGACTTG-TTCAGGAAAGT--TTTCTTCCTTTCCGTCATTACCACACC---ACATAATGTGAGGTCATGCCTGCAGCTGTTTCCTTTCGGGGTGGGGAG----GAATGGGTGTGGGAAGCCATCTTGCTCTTG------GTAGAAAGTTGTGAGT-GAGTCCT
+s rn4.chr1 230017070 171 - 267910886 CAGTGTGTGACTCATGAG----G----GG--TGACTTG-TTCAGGAAAGT--TTTCTTCCTTTCTGTTGCCACCACACC---AGATAATGTGAGGTCATACCTGCAGCTGTTTCCTTTCAGGGTGGGGAGGAATGAATGGGCGTGGGAAGTCATCTTGCCCTTG------ATAGAAGGTAGTGAGC-GAGTCCT
+q rn4.chr1 999999999999999999----9----99--9999999-99999999999--999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999999------9999999999999999-9999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108510175 164 + 167655696 CACTGTCCAGTCTCTGAG----GG---GG--TGACTTGGTTTCAGCACTC--ATTTTTCCATTCCATTGCCTTCATGCCAGAAAACAATGTGAAGTCATGCCTGCAGCTGCTTCCTCTCGG------CAG----GAATGGGTGTGAGAA-CCACGATCTCGGTG------GCGGGAGGT-GAGAGG-GAGCCCT
+q rheMac2.chr4 999999999999999999----99---99--9999999999999999999--999999999999999999999999999999999999999999999999999999999999999999999------999----999999999999999-99999999999999------999999999-999999-9999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16414397 166 - 174210431 CACTGTCCAGCCTGTGAG----GGTC-GG--TGACTTGGTTTCAGCGCTC--ATTTTTCCATTCCATTGCCTTCATGCCAAAAAACAATGGGAAGTCATGACTGCAGCTGCTTCCTCTCGG------CAG----GAATGGGTGTGGGAA-CCACGTTCACAGTG------GCGGGAGGT-GAGAGG-GAGTCCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16625226 165 - 173908612 CACTGTCCAGCCTGGGAG----GGTC-GG--TGACTTGGTTTT-GCACTC--ATTTTTCCATTCCATTGCCTTCATGCCAAAAAACAATGTGAAGTCATGCCTGCAGCTGCTTCCTCTCGG------CAG----GAATGGGTGTGGGAA-CCACGTTCACAGTG------GCGGGAGGT-GAGAGG-GAGTCCT
+q panTro2.chr6 999999999999999999----9999-99--999999999999-999999--999999999999999999999999999999999999999999999999999999999999999999999------999----999999999999999-99999999999999------999999999-999999-9999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16101454 165 - 170899992 CACTGTCCAGCCTGGGAG----GGTC-GG--TGACTTGGTTTT-GCACTC--ATTTTTCCATTCCATTGCCTTCATGCCAAAAAACAATGTGAAGTCATGCCTGCAGCTGCTTCCTCTCGG------CAG----GAATGGGTGTGGGAA-CCACGTTCACAGTG------GCGGGAGGT-GAGAGG-GAGTCCT
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 78287 164 - 523245 GACTGTCCAGCCTGTGAG----GG---GG--TGACTTGGTTTCAGCACTC--ATTTTTCCATTCTGTTGCCTTCATGCCAAAAAACAATGTGAAGTCATGCCTGCAGCTGCTTCCTCTCGG------CAG----GAACGGGTGTGGGAA-CCACGTTCATAGTG------GCGGGAGGT-GAAAGG-GAGGCCT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 359101 158 - 359464 CGTTCTCTGACTCGTGAC----GG---GG--TGA-TTGGTCTCAGCCCTG--ATTTTTCCAGCTCAGTGCC-TCGTGCC---AAACACCGTGAGGCTGTGGCTGCAGCTGCCTCCGCTCGG-------GG----CCGTGGGGGTGGGAGCCCGCGCTTACCG-G------GCGGCAGGT-ACAAAC-GCGGCCC
+q otoGar1.scaffold_334.1-359464 999999999999999999----99---99--999-999999999999999--9999999999999999999-9999999---999999999999999999999999999999999999999-------99----9999999999999999999999999999-9------999999999-999999-9999999
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 400761 158 - 498454 CACTGTCTGAGTCATGGG---------GG--TGA-TTGACTCCAGCACCT--CGTTTTCCTTTCCATTGCCTTCATGCCAGAAA----TGTGAAGTCACGCCTGCAGCTGCTTCCTCTCAG------GAG----GAATGGGTGTGGGGACCCGCATTCAT-GTG------GCGGAGGGC-AGAACCTGAGCCCT
+q tupBel1.scaffold_114895.1-498454 999999899999998999---------99--999-999999999899999--99999999999999999999999999999999----999999999999999999999999999999999------999----99989999977899999999999999-999------999999978-99999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_210818 1358 152 - 5484 CAGCATGTGACTCAAGGGAGGGG----GG--TGACCTGGTCCTCG---TCC-TTTGTTCCATTCGGTTGCCTTC-TGCC---AAATGCTATGAAGTCACACCTGCAGCTGCTTCCT-CTGG------CAG----CAGTGGGTGTGGGAACCCACAGTGATGTTATGCAAGGTAAAAA-----------------
+q eriEur1.scaffold_210818 89899999999999999899999----99--99979999999999---999-9999999789999999999999-9999---9989989999999899999999989998879999-9998------987----9999999997987989899989996799999988999899999-----------------
+i eriEur1.scaffold_210818 n 4154 I 3044
+s canFam2.chr1 78266327 164 - 125616256 CACTGTCTGGCTCCTGAC----G----GG--TGACTCGGTTCCAGGACTTCTTTTTTTCCAGTCCATTGCCTTTATGCC---AAACACCATGAAGTCATGTGTGCAGCTGCTTCCTCCCAG------TAG----CAATGGGTGTGGGAGCCTGTATTCATGGCA------GCAAAAGGTAAAAAGT-GAGCTCT
+q canFam2.chr1 999999999999999999----9----99--999999999999999999999999999999999999999999999999---999999999999999999999999999999999999999------999----999999999999999999999999999999------9999999999999999-9999999
+i canFam2.chr1 I 1 C 0
+s equCab1.chr31 13057536 166 + 24938454 CACTGTCTGGCTCATGAT-GGGG----GG--TGACTTGGTTCCTCCACTTC-TTTTTTCCATTCCGTTGCCTTCATGCC---AGATATCATGAAGTCATGCCTGCAGCTGCTTCCTCCCAG------TAG----GAATGGGTGTGGGAACCCACGTTCACAGTG------GCGGAAGGTGAAAAGT-GAGCCCT
+q equCab1.chr31 999999999999999999-9999----99--99999999999999999999-999999999999999999999999999---999999999999999999999999999999999999999------999----999999999999999999999999999999------9999999999999999-9999999
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13735643 164 - 95030419 TGCTGTCGGAGCCCCGA-----G----GGCCTGACTTGGTTCCAGCGCTTC-TCTTTTCCATTCCGTTGCCTTCATGCC---AAACAGCATGAAGTCAGGCCTGCAGCTGCTTCCTCCCGG------TAG----GAATGGGTGTGGGAACCCACGTCCCCGAGG------GCGGAAGGTAAAAAGC-GCGCCCT
+q bosTau3.chr9 99999999999999999-----9----999999999999999999999999-999999999999999999999999999---999999999999999999999999999999999999999------999----999999999999999999999999999999------9999999999999999-9999999
+i bosTau3.chr9 I 1 C 0
+s loxAfr1.scaffold_4233 72513 164 + 124190 TTCTGTCTGACTCATGAG----GG---GG--TGACTTTGTTCCAGTACCTC-TTTTTCCTATTCTGTTGACTTCATGCC---AGACAATATGAGGTCACGCCTGCAGCTGCTTCCTCTCTT------TAG----GAATGTGTATGGGAACCCACGTTCATGGTC------ATGGAAGATAAAAAGT-GAGCCCT
+q loxAfr1.scaffold_4233 999999999999999999----99---98--99999999999989999999-999999999999999999999999999---999999999999999999999999999999999999999------999----998998999999998999899999799999------9999999979999997-9999999
+i loxAfr1.scaffold_4233 C 0 I 1090
+s dasNov1.scaffold_13068 23670 153 + 27231 -------TGACTCATGAG----GG---GG--TGGCTTT-TTCCAGTGCCTC-TTTTTTCCATTCCACCAACTTCACGCC---AAGCCATATGAAGCCAGACCTGCAGCTGCTTCCTCTGGG------CAG----GAATGGGTGTGGGGACTCAGGCT-AGGGTG------GAGGGAGGT--AGAGT-GAGCCGC
+q dasNov1.scaffold_13068 -------99999979999----99---99--9999999-999949999999-899999993999849739999859998---499975999999999399999996999997987798999------759----99989999999999886736987-989989------997999998--99999-9999777
+i dasNov1.scaffold_13068 I 4136 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e felCat3.scaffold_217398 120149 12222 - 219823 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=251805.000000
+s mm9.chr10 3200759 143 + 129993255 CGTA--CACTCTGGCCT-GACAGTTT-GCGG-TTCTCA-------CTTGAGCCTGT-----------------TGGTCTTCATGTCAGGCAGC-----------CCAGTTGGACTGATGAATTC--CAAAGAATCAAGTTGTCAGAACCAA---TAGGTCATACC---------------TCAGC---------CTTGA---------CTCCAGTG-----------------------GCC-TG
+s rn4.chr1 230017241 133 - 267910886 CACA--GACACTGGTC--AACAGTTT-GTGA-TTCTCA-------CTTGTGCCTGT-----------------CGGTCTCCATG--------------------ACAGTTGGATCGATGAGTTC--TAAA-AATCAAGTTGTCAGGACCAA---TGGGTCACGCC---------------TCAGC---------CTTGA---------CTCCAGTG-----------------------GCCTTC
+q rn4.chr1 9999--9999999999--99999999-9999-999999-------99999999999-----------------99999999999--------------------99999999999999999999--9999-99999999999999999999---99999999999---------------99999---------99999---------99999999-----------------------999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108510339 194 + 167655696 TTCA--CACGCCAGCTGGAACAGTTT-GGGA-GGCGGA-AAGCGCCTCGTG-CTGCTGGCTCCATCACCACTGCAGTCACCACCGCAGGGAGCCGAA----ATTCTTGGTGACCTCTTGGATCCCTCAAGGAATCAAGTTGTAGGAACCAT---GCGGTCACAAG---------------TCTAC---------CTTGT--TCTTGAGCTCTGGTG------------TATTGAGAATTGCTCTC
+q rheMac2.chr4 9999--99999999999999999999-9999-999999-999999999999-999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999---99999999999---------------99999---------99999--999999999999999------------99999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16414563 194 - 174210431 TTCA--CACGCCAACTGGAACAATTT-GGGA-GGCGGG-AAGCTCCTTGTG-CTGCTGGCTCCATCACCACCGCAGTCACCACTGCAGGGAACCGAT----ATTCTTGGTGGCCTCTTGGATCCCTCAAGGAATCAAGTTGTAGGAACCTT---GCGGTCAGAAG---------------TCTAC---------CTTGT--TCTTGGGCTCTGGTG------------TATTGAGAGTTGCTCTC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16625391 194 - 173908612 TTCA--CACGCCAACTGGAACAATTT-GGGA-GGCGGG-AACCTCCTTGTG-CTGCTGTCTCCGTCACCACCGCAGTCACCACTGCAGGGAACCGAT----ATTCTTGGTGGCCTCTTGGATCCCTCAAGGAATCAAGTTGTAGGAACCTT---GAGGTCACAAG---------------TCTAC---------CTTGT--TCTTGGGCTCTGGTG------------TATTGAGAGTTGGTCTC
+q panTro2.chr6 9999--99999999999999999999-9999-999999-999999999999-999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999---99999999999---------------99999---------99999--999999999999999------------99999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16101619 194 - 170899992 TTCA--CACGCCAACTGGAACAATTT-GGGA-GGCGGG-AAGCTCCTTGTG-TTGCTGTCTCCATCACCACCGCAGTCACCACTGCAGGGAACCGAT----ATTCTTGGTGGCCTCTTGGATCCCTCAAGGAATCAAGTTGTAGGAACCTT---GCAGTCACAAG---------------TCTAC---------CTTGT--TCTTGGGCTCTGGTG------------TATTGAGAGTTGGTCTC
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 78451 195 - 523245 TTCA--CACGCTGACTGGAACAATTC-AGGA-GGCGGGCGAGCTCTTTGTG-CTGCTGGCTCAGTCACTGCCGCAGTCACCACCACAGGGAACCCAT----TTTCTTGGTGGCCTCTTGGATCCCTCAAGGACTCAAGTTGTAGGAACTGT---GCAGTCACAGC---------------TCCGT---------CTTGA--TCTTGGGCTCTGGTG------------TATTGAGAATTGCTCTC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_334.1-359464 359259 184 - 359464 TTCAGCCACACACGACTGAACGGTTC-AGGA-GGCAGGAGAGCTCCTCAGGCCCGTGGGCT------------CACTCACCAGGACAGGGAACCCGT----TTTCTTGGTGGCCTTCTCGATTGGCTCAAGAACCAGGTGCTGGCAACCACCAGGAGGTCACACC---------------TCTCT---------CCTGA--CTC---AATCGGGGA------------TACTGAGAAGAGCTC--
+q otoGar1.scaffold_334.1-359464 99999999999999999999999999-9999-99999999999999999999999999999------------999999999999999999999999----9999999999996699999999999999999999321122399999999999999999999999---------------99999---------96111--311---121113599------------799479999999999--
+i otoGar1.scaffold_334.1-359464 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 400919 188 - 498454 TTCA--CATGCCTACTTCCACTGTTT-GGGA-GGCGGGAGACCACCTCGTGCCCATTGGCC------------CAGTCACCACAAGAAGAACCC---------------TTGTTTTTTGGATC-CTCAAAGAATCAAGTTTGGGGATCCAT---GAAGTCAGATGGTTCCTAGCCCAGGTTCTTC---------TTTGA-GTCTTGGGCTCTGCTG------------TGTTGAGAGGAGCCCTC
+q tupBel1.scaffold_114895.1-498454 9995--99999999999999999999-9999-99699999979999999999999999999------------999999999999999999999---------------99999999999999-999999999999999999999989999---9999999999999999999999999999999---------99999-9999999999995499------------99999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78266491 163 - 125616256 CTTG--CATGCAGACTTGAACAAATTTGGGG-GGCAGGAGAGCTCCTCTAATGACTTGGCT------------CCCACCCCAC---AGGGAGCCCAT----TTTCTTGGTGGCTTCTTAGATCTGTCAAGGAATCAAGTGTCAGGATCCCC---GAGGTCACACA---------------GCCAC---------CTTGA-GTCATGGGTTCTG--------------------------------
+q canFam2.chr1 9999--9999999999999999999999999-99999999999999999999999999999------------9999999999---99999999999----99999999999999999999999999999999999999999999999999---99999999999---------------99999---------99999-9999999999999--------------------------------
+i canFam2.chr1 C 0 I 22
+s felCat3.scaffold_217398 132371 164 - 219823 TTCA--CACGTTGGCTTGAACAGTTTTGGGGAGGCAGGAGAGCACCTCTCACCCATTGGTT------------CCAATGCCAC---AGGGAGCCCAT----TTTCTAGGTGGCTTCTTGGACCTGTCAAGGAATCAAGTGTCAGGAACCAC---GAGGTCACACA---------------TCCAC---------CTTGA-ATCATGGGCTGTG--------------------------------
+q felCat3.scaffold_217398 9999--9999999999999999999999999999999999999999999999999999999------------9999999999---99999999999----99999999999999999999999999999999999999999999999999---99999999999---------------99999---------99999-9999999999999--------------------------------
+i felCat3.scaffold_217398 I 12222 I 22
+s equCab1.chr31 13057702 163 + 24938454 TTCA--CACACTGACTTGAACAATTCAAGGA-GGAAGGAGAGCTCCCCTCGCACATTGGCT------------CCTTCACCAT---CAGGAGCCCAT----TTTCTTGGTGGCTTCTTGGATCTGTCAAGGACTCAAGTATCAGAAACCAT---GAGGTCAAACA---------------TCCAT---------CTTGA-ATCTTGGGCCCTG--------------------------------
+q equCab1.chr31 9999--9999999999999999999999999-99999999999999999999999999999------------9999999999---99999999999----99999999999999999999999999999999999999999999999999---99999999999---------------99999---------99999-9999999999999--------------------------------
+i equCab1.chr31 C 0 I 22
+s bosTau3.chr9 13735807 166 - 95030419 TTCA--CACACTGCCTTGGATGGTTCGGGGA-TGCAGGAGCACCCCTCACCCAACTTGGCT------------CCATCACCAC----GGGAGCCCGTTTTCTTTCTTGGTGGCTCTTTGGATCCGTCAAAGAATCAAATGTGAGGAACCAC---GAGGTCACACA---------------TGCAC---------CTTGA-TGTCTGGGCCCCG--------------------------------
+q bosTau3.chr9 9999--9999999999999999999999999-99999999999999999999999999999------------9999999999----9999999999999999999999999999999999999999999999999999999999999999---99999999999---------------99999---------99999-9999999999999--------------------------------
+i bosTau3.chr9 C 0 I 293
+s dasNov1.scaffold_13068 23823 203 + 27231 TTCA--CACGCCGGCGTGACCCAGCG-AGCA-GGCAGAGGGGCAGCTCTCGCCCATGGGTCC-----------TGCTCGGCACAACAGGCAACACTT-----TCCTGGGGATCCTCTTGGATCCATTAACAAATCTTGCATCAGGAACCAT---GTGGTCCAATG---------------GCCTCCTACCACAGCTTGCCATCTTGGGCCCTGGTGCCATGTTCTGCCCATTTGGGGCATC----
+q dasNov1.scaffold_13068 6996--85968589959999967596-9986-799599699896867696679979999897-----------496777859697965969979699-----9365799676779677956989987699998998788699486967995---96999999969---------------9999869699999889579969933888699497989998899969799998678999499----
+i dasNov1.scaffold_13068 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 72677 1090 + 124190 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-53554.000000
+s mm9.chr10 3200902 46 + 129993255 TGA--------------CTGGGTGATAGTCTCCAGGAA-------------------AGCCTGGACAGCGTTGTTCATC---------------------
+s rn4.chr1 230017374 39 - 267910886 TAA--------------CTGGGTGAC--TCTCCAGGGA-------------------AGC-----CACCATTGTTCATC---------------------
+q rn4.chr1 999--------------999999999--9999999999-------------------999-----99999999999999---------------------
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108510533 27 + 167655696 TGC------------CTCTAGGTGATGGTCTCCCCGGA-G------------------------------------------------------------
+q rheMac2.chr4 999------------99999999999999999999999-9------------------------------------------------------------
+i rheMac2.chr4 C 0 I 357
+s ponAbe2.chr6 16414757 26 - 174210431 TGC------------CTCTAGGTGATGGTCTCCCTGAA--------------------------------------------------------------
+i ponAbe2.chr6 C 0 I 450
+s panTro2.chr6 16625585 37 - 173908612 TGC------------CTCTAGGTGATGGTCTCCCTGAAG-TGACAGTGCT--------------------------------------------------
+q panTro2.chr6 999------------999999999999999999999999-9999999999--------------------------------------------------
+i panTro2.chr6 C 0 I 324
+s hg18.chr6 16101813 26 - 170899992 TGC------------CTCTAGGTGATGGTCTCCCTGAA--------------------------------------------------------------
+i hg18.chr6 C 0 I 344
+s calJac1.Contig1260 78646 26 - 523245 TGC------------CTCTAAGTGATGGTCTCCCGAAA--------------------------------------------------------------
+i calJac1.Contig1260 C 0 I 911
+s otoGar1.scaffold_334.1-359464 359443 16 - 359464 -----------------CTGGGTAGTGGTCCCC-------------------------------------------------------------------
+q otoGar1.scaffold_334.1-359464 -----------------9469978857649999-------------------------------------------------------------------
+i otoGar1.scaffold_334.1-359464 C 0 N 0
+s tupBel1.scaffold_114895.1-498454 401107 45 - 498454 GGCATTGGCGTGTTGCTCTAAAGGATGACTGCGCTTAC------------GTCGTCT-------------------------------------------
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999------------9999999-------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 12
+s equCab1.chr31 13057887 24 + 24938454 --------------CCTGTGGGTGATTTTCTCCCGAGG--------------------------------------------------------------
+q equCab1.chr31 --------------999999999999999999999999--------------------------------------------------------------
+i equCab1.chr31 I 22 I 21
+s felCat3.scaffold_217398 132557 13 - 219823 --------------CCAGTGGGTGATT-------------------------------------------------------------------------
+q felCat3.scaffold_217398 --------------9999999999999-------------------------------------------------------------------------
+i felCat3.scaffold_217398 I 22 I 7
+s canFam2.chr1 78266676 24 - 125616256 --------------TCTGTGGGTGATTATCTCATGAGA--------------------------------------------------------------
+q canFam2.chr1 --------------999999999999999999999999--------------------------------------------------------------
+i canFam2.chr1 I 22 I 24
+s dasNov1.scaffold_13068 24026 45 + 27231 --------------TCACGGGGGGGTAGCAACACTTAA-----------------------------------------GTAATTTTGGGGCTTTGTTGT
+q dasNov1.scaffold_13068 --------------997788988898999999999999-----------------------------------------999998868997999589699
+i dasNov1.scaffold_13068 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13735973 293 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 72677 1090 + 124190 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=73914.000000
+s mm9.chr10 3200948 107 + 129993255 TGTAATTTAT-------AAAGACCATAGACATAGGTTGTTGGCTCTACTTGCCATCGTATGGCCTTG-TGAAAGTATGG--TTTC--AGAGTTGCTGCGTATGAACCGGCTCTCTGGCG---------
+s rn4.chr1 230017413 103 - 267910886 TGTGACTTAT-------CTG---CATAGACATA-GTTGTTAGTTAC-CTTGCTGTCATGGGGCCTTG-TGAATGGATGG--TTTCT-GGAGTTGCTGTTTATGTAACAGCTCTGTGGTA---------
+q rn4.chr1 9999999999-------999---9999999999-999999999999-99999999999999999999-99999999999--99999-99999999999999999999999999999999---------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16625946 106 - 173908612 GAAAGATTAT-------AGA---CACAAAGATAAAGTATTAGTTTT-ATTTCTAGCACACGATCACA-TATGTATACTGTGTTTCT-AAGATTGAAATGTGTTTAACAAGTCTGCCAGA---------
+q panTro2.chr6 9999999999-------999---99999999999999999999999-99999999999999999999-999999999999999999-99999999999999999999999999999999---------
+i panTro2.chr6 I 324 I 8
+s hg18.chr6 16102183 105 - 170899992 -AAAGATTAT-------AGA---CACAAAGATAAAGTATTAGTTTT-ATTTCTAGCACACGATCACA-TATGTATACTGTGTTTCT-AAGGTTGAAATGTGTTTAACAAGTCTGCCAGA---------
+i hg18.chr6 I 344 I 8
+s tupBel1.scaffold_114895.1-498454 401164 96 - 498454 GAGGGATCTT-------AGA---C------CTAGACTGTTAGTTAC-AGTTCTGGCACACACCAGCA-GA-GCGTACTGTTTTTCC-AAATGT---ATTTACTTAATAATGCTGTCAGA---------
+q tupBel1.scaffold_114895.1-498454 9999999999-------999---9------9999999999999999-99999999999999999999-99-999999999999999-899999---99999999999999999999999---------
+i tupBel1.scaffold_114895.1-498454 I 12 I 14
+s equCab1.chr31 13057932 111 + 24938454 TGGGGTTTGTAATGAAAAAT---CGCGAACACAAATTATTAGTTTT-ATTTCTAGCACGAGACCATG-TAAG--TTCTGTTTTGCT-AAAGTTGACATTGATTTCATAATTCCCTCCTT---------
+q equCab1.chr31 99999999999999999999---99999999999999999999999-99999999999999999999-9999--999999999999-99999999999999999999999999999999---------
+i equCab1.chr31 I 21 I 12
+s felCat3.scaffold_217398 132577 110 - 219823 TGGGATCTGTAATGAAAAAC---CATAAATACACATTATTCCTTTT-ATTCCTAGCACAAGACTGCG-TAAGTGTTCTG-TTCACTAAAAATTGATACCTAGT---ACATTCTGTGTTT---------
+q felCat3.scaffold_217398 99999999999999999999---99999999999999999999999-99999999999999999999-99999999999-99999999999999999999999---9999999999999---------
+i felCat3.scaffold_217398 I 7 I 12
+s canFam2.chr1 78266724 113 - 125616256 TGGGATTTGTAATGAAAAAT---CATAAACACATATTATTAGCTTT-ATTTCTAGCACAAGACTGCATTAAGTATTCTG-TTTGCT-AAAATTGATATTTATTTAATAATTCTCTCTTT---------
+q canFam2.chr1 99999999999999999999---99999999999999999999999-99999999999999999999999999999999-999999-99999999999999999999999999999999---------
+i canFam2.chr1 I 24 I 12
+s rheMac2.chr4 108510917 93 + 167655696 -----------------------CACAAAGACAAAGTATTAGTTTT-ATTTCTAGCACACAATCACA-TATGTATACTGTGTTTCC-AAGGTTGAAATTTATTTAACAAATCCGTCAGA---------
+q rheMac2.chr4 -----------------------99999999999999999999999-99999999999999999999-999999999999999999-99999999999999999999999999999999---------
+i rheMac2.chr4 I 357 I 8
+s bosTau3.chr9 13736266 99 - 95030419 --------------AAAAAT---CATAGACACAAACCATTAGTTTT-ATTTCCGGAACAAGACCTTG-TAAATATTCTGTTTTGCT-CAAGTTGACATTTACTTAATATTTCTGTCCTT---------
+q bosTau3.chr9 --------------999999---99999999999999999999999-99999999999999999999-999999999999999999-99999999999999999999999999999999---------
+i bosTau3.chr9 I 293 I 12
+s dasNov1.scaffold_13068 24071 109 + 27231 -------------GAAAGAC---TGTTCACACGCATCATTGGTTTT-ATTTCGGGCACAAAACTTCA-TGAGTGTATGGTTTTCGT-AGAGTTGATATTTATTTAATCAATCTGTCCGTCAGAAGGTA
+q dasNov1.scaffold_13068 -------------9999999---79999999999999995999999-99996677999999999999-789959997999999999-99999999999999999999999999999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 72677 1090 + 124190 I
+e calJac1.Contig1260 78672 911 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e ponAbe2.chr6 16414783 450 - 174210431 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=245040.000000
+s mm9.chr10 3201055 139 + 129993255 A-TAGCGGAT---GACCTGT------------TGTGGAAATGGATGCTTTGCTTCC-TGTGCATGAAAGCCCAGGTAGAAG--CACACCACCAAGATGCAGGTGCTC-A-TGGTGACA-AC---GCTGCTCATGGA--CCTTGGGTTTCC-CTCAGAGTCACCCTTG--
+s rn4.chr1 230017516 145 - 267910886 A-TAGCGGATGACGACCTGT------------TGTGGAAGTGGATGGTTTAGTTCC-TGAGCATGAAAGCGCAGGTAGGAGAACACTCTGTCAAGTTGCACTTACTC-GTTGTTTACA-AA---GTGTCTCATGTA--GCTTGGGTCTCT-ATCAGAGTCACACTTG--
+q rn4.chr1 9-999999999999999999------------999999999999999999999999-99999999999999999999999999999999999999999999999999-9999999999-99---999999999999--999999999999-9999999999999999--
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16626060 137 - 173908612 A-TAGGGGAT---GAGCCAT------------AATGGTAGTTGACAGTTTAGTTTTATCTACAAGATAG---AATTGGAAAAGCACATTT-GGAGCTATAATTATTC-C-TGTTTACAGAA---GCTGCTCCTGTA--GTTTAAGATAAT-ATCAAATTCACACA----
+q panTro2.chr6 9-99999999---9999999------------9999999999999999999999999999999999999---999999999999999999-9999999999999999-9-99999999999---999999999999--999999999999-99999999999999----
+i panTro2.chr6 I 8 C 0
+s hg18.chr6 16102296 137 - 170899992 A-TAGGGGAT---GAGCCAT------------AATGGTAGTTGACAGTTTAGTTTTATCTACAAGATAG---AATTGGAAAAGCACATTT-GGAGCTATAATTATTC-C-TGTTTACAGAA---GCCGCTCCTGTA--GTTTAAGATAAT-ATCAAATTCACACA----
+i hg18.chr6 I 8 C 0
+s ponAbe2.chr6 16415233 137 - 174210431 A-TAGGGGAT---GAGCCAT------------AATGGTAGTTGACAGTTTAGTTTTATCTACAAGATAG---AATTGGAAAGGCACATTT-GGAGCTATAATTATTC-C-TATTTACAGAA---GCGGCTTCTGTA--GTTTAAGATAAT-ATCAAATTCACACA----
+i ponAbe2.chr6 I 450 C 0
+s rheMac2.chr4 108511018 136 + 167655696 A-TGGGGGAT---GAGCCAT------------AACGGTAGTTGATAGTTTAGTTTTATCTATAAGATAG---AATTGGAAAAGCACATTT--TAGCTATAATTATTC-C-TATTTACAGAG---GTTGCTCCTGTA--GTTTAAGTTAAT-ATCAACTTCACACA----
+q rheMac2.chr4 9-99999999---9999999------------9999999999999999999999999999999999999---999999999999999999--999999999999999-9-99999999999---999999999999--999999999999-99999999999999----
+i rheMac2.chr4 I 8 C 0
+s tupBel1.scaffold_114895.1-498454 401274 131 - 498454 --------AT---GAGCC-C------------AGTGGTAGTTGATGATTTAGTTACATCCATAAGAGAC---AGGTGGAAAAGCACATTTTTGAGCTGTTATTTTTC-C-TGTTTTAAAAA---GTTGCTCCTGTA--GTTTGAGTTTTTAATCACATTCACATG----
+q tupBel1.scaffold_114895.1-498454 --------99---99999-9------------9999999999999999999999999999999999999---99999999999999999999999999999999999-9-99699999999---969999999999--999999999999999979999989999----
+i tupBel1.scaffold_114895.1-498454 I 14 C 0
+s canFam2.chr1 78266849 130 - 125616256 A-TATGAGTT---GAGCCGT-------------------CGTGGTAGTCAAGC-CTCTACACAAGAGGG---AGGAGGAAAATCATACTTTTGAGTTATAATTATTC-T-ATTTTACAGAA---GTTGCTCCTGTA--GGTTGAGATTAT-ATCAGATTCATGCA----
+q canFam2.chr1 9-99999999---9999999-------------------99999999999999-999999999999999---99999999999999999999999999999999999-9-99999999999---999999999999--999999999999-99999999999999----
+i canFam2.chr1 I 12 C 0
+s felCat3.scaffold_217398 132699 155 - 219823 A-CACGGGAT---GAGCCATCCACATCCCATCCATGGTACTTGGTGGTTTAGCTCTGTGCACAAGATGG---AAGATGCAAGGCACATGTTCGAGCTGGAATGATTC-T-GTTTTACAGAAGTTGTTGCTCCTGTAGTGTTTGAGTTCAT-ATCAGCTTCACGCA----
+q felCat3.scaffold_217398 9-99999999---99999999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999-9-9999999999999999999999999999999999999999-99999999999999----
+i felCat3.scaffold_217398 I 12 C 0
+s equCab1.chr31 13058055 129 + 24938454 A-GAGGGGCT---GAGCCAT------------TATGGTAGTTGATGATTTAGTTCCTTGCACAAGATGG---AGGAAGAAAAGCACATTTTTGAGCTGTAATTATTCAT-ATTTT-------------CTCCTGTA--GTTTGAATTTAT-ATCAGATTCACGCA----
+q equCab1.chr31 9-99999999---9999999------------9999999999999999999999999999999999999---9999999999999999999999999999999999999-99999-------------99999999--999999999999-99999999999999----
+i equCab1.chr31 I 12 C 0
+s bosTau3.chr9 13736377 140 - 95030419 ATTAGGGGAG---GGGTCGT------------CATGGTATTTGATGGTTTGGTTTCGTGCACAAGATGG---AGGATGAAAAGCACATTTTTGGGCTGTCATCACTCAT-ATTTTACAGAA---GTTGCTCCTGGA--GTTTGAATTTAC-ATCAGACTCACATG----
+q bosTau3.chr9 9999999999---9999999------------9999999999999999999999999999999999999---9999999999999999999999999999999999999-99999999999---999999999999--999999999999-99999999999999----
+i bosTau3.chr9 I 12 C 0
+s dasNov1.scaffold_13068 24180 132 + 27231 -GTAATGGAT---GGGCCAT------------CCTGGTCACAGATG--------CTGTGCCCAAGAGGG---AGGTGGGAAAGCACCTTT-TGAGCTGGAATTACCCAT-ATTTTCTGGCG---GTTGCACCTGTA--GCTTGAATTTAC-ATCAAATTCAGATT--TG
+q dasNov1.scaffold_13068 -999988999---9999999------------99899999999999--------969999999999999---999978999999999999-999998899999999999-99999999999---999999999999--999999999999-99999999999999--89
+i dasNov1.scaffold_13068 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 72677 1090 + 124190 I
+e calJac1.Contig1260 78672 911 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=69105.000000
+s mm9.chr10 3201194 20 + 129993255 TGTGGA--------GATTTATTTCTAAA
+s rn4.chr1 230017661 20 - 267910886 TGTGAA--------AATGTGTTTCCGAA
+q rn4.chr1 999999--------99999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108511154 20 + 167655696 TGTAAA--------AATACATCTCTAAA
+q rheMac2.chr4 999999--------99999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16415370 20 - 174210431 TGTAAA--------AATACATTTCTAAA
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16102433 20 - 170899992 TGTAAA--------AATACATTTCTAAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16626197 20 - 173908612 TGTAAA--------AATACATTTCTAAA
+q panTro2.chr6 999999--------99999999999999
+i panTro2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 33 20 - 136255 TGTAAA--------AATATAGTTCTCAA
+q otoGar1.scaffold_85251.1-136255 989975--------35999989999889
+i otoGar1.scaffold_85251.1-136255 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 401405 20 - 498454 TGTGAA--------AATACAGTTTAATA
+q tupBel1.scaffold_114895.1-498454 999999--------99999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78266979 20 - 125616256 TGtaaa--------aatatatttctaaa
+q canFam2.chr1 999999--------99999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 132854 20 - 219823 TATAAA--------AATCTATCTCTAAG
+q felCat3.scaffold_217398 999999--------99999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13058184 28 + 24938454 TTTTAGCATTACATAGtatatttttata
+q equCab1.chr31 9999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13736517 20 - 95030419 TGCAAA--------AACATACTCCTGAA
+q bosTau3.chr9 999999--------99999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_13068 24312 18 + 27231 --TAAA--------AAAATATTTCCCAA
+q dasNov1.scaffold_13068 --9999--------99999999999999
+i dasNov1.scaffold_13068 C 0 I 2104
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 72677 1090 + 124190 I
+e calJac1.Contig1260 78672 911 - 523245 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=159145.000000
+s mm9.chr10 3201214 54 + 129993255 ----------------------------GTTCT------------TAAAAATTTTTTTTTCTCCCTAGACTGCT---------------------CTTTTCTTGAGAGCAAGCAT
+s bosTau3.chr9 13736537 54 - 95030419 ---TTTA---------------------TTTTT------------TTA----AGTATTTTCTCTCCAGGCTGCT---------------------CTTTGCCTGAGAGTCAGTGT
+q bosTau3.chr9 ---9999---------------------99999------------999----9999999999999999999999---------------------99999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13058212 87 + 24938454 ---tttatgtaaattatatatattttgtattttaGTACACATGCGTTT----AGTGTTTTGTCACTTGGCTTCT---------------------GTTTTGCTGAGAGTCAGTGT
+q equCab1.chr31 ---999999999999999999999999999999999999999999999----9999999999999999999999---------------------99999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 132874 54 - 219823 ---TTTC---------------------TTTTT------------TTA----AGTGTTTTCTTACTTGGATGCT---------------------CTTTTCCTGAGGATAAGTGT
+q felCat3.scaffold_217398 ---9999---------------------99999------------999----9999999999999999999999---------------------99999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78266999 65 - 125616256 ---tttcttt----------ttttttttttttt------------ttG----AGTGTTTTCTTACTTGGCTGCT---------------------CTTTTCCTGAGAATCAGTGT
+q canFam2.chr1 ---9999999----------9999999999999------------999----9999999999999999999999---------------------99999999999999999999
+i canFam2.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 401425 74 - 498454 ---TTT----------------------TTTTA------------AAA----GGTGTTTTCTTTTTAGACTGCTTCCCCACCCCCTGCCCCCCCACCCCTCCAGAGAGTCAGAAT
+q tupBel1.scaffold_114895.1-498454 ---899----------------------99999------------999----985759999699998996996997999999888987999998399996985995965779977
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 79583 50 - 523245 ----------------------------ttttt------------aaa----aGTCTTTTCTCCCTTGGCTGCT---------------------CTTTTCCTGAGAGTCAGTAT
+i calJac1.Contig1260 I 911 C 0
+s otoGar1.scaffold_85251.1-136255 53 53 - 136255 ---TTTA----------------------TTTT------------TAA----AGTTTTCTCTCCCTAGGCTGCT---------------------CTTTTCCTGAGAGTCAGTAT
+q otoGar1.scaffold_85251.1-136255 ---9989----------------------9999------------899----8989999999999899999989---------------------99999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s panTro2.chr6 16626217 55 - 173908612 ---TTTA--------------------TTTTTT------------TTA----AGTCTTTTCTCTCTAGGCTGCT---------------------CTTTTCCTGAGAGTCAGTAT
+q panTro2.chr6 ---9999--------------------999999------------999----9999999999999999999999---------------------99999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16102453 55 - 170899992 ---TTTA--------------------TTTTTT------------TTA----AGTCTTTTCTCTCTAGGCTGCT---------------------CTTTTCCTGAGAGTCAGTAT
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16415390 55 - 174210431 ---TTTA--------------------TTTTTT------------TAA----AGTCTTTTCTCTCTAGGCTGCT---------------------CTTTTCCTGAGAGTCAGTAT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108511174 58 + 167655696 TTTTTTT--------------------TTTTTT------------TTG----AGTCTTTTCTCCCTGGGCTGCT---------------------CTTTTCCTGAGAGTCAGTAT
+q rheMac2.chr4 9999999--------------------999999------------999----9999999999999999999999---------------------99999999999999999999
+i rheMac2.chr4 C 0 C 0
+s rn4.chr1 230017681 50 - 267910886 ----------------------------TTTCT------------TAA----TTTTTTTTCTCCCTAGACTGCT---------------------CTTCTTATGATAGCAATCAT
+q rn4.chr1 ----------------------------99999------------999----9999999999999999999999---------------------99999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 72677 1090 + 124190 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=321842.000000
+s mm9.chr10 3201268 106 + 129993255 CAGT---------------AGAATAGCTGTTATTGTATCTTCTACTTTTATCTGGTAAAAGGAAAACTAA--AATTTTAAGGAGACAAGGAAATTGTGATTCTGAAATCATATAGGATTAAA--A--
+s rn4.chr1 230017731 119 - 267910886 CAGTTTTTGGGAGCGGCAGTAAAAAGCTGTTACTGTGTCTTCTACTTTTATCTGGTAAAAGAAAAATTAA--AATTTTAAGGAGACAAAGAAATCCTGATTCCGAAATCATGTGGGAT--AA--A--
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999--99--9--
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108511232 113 + 167655696 AAAT-TTTAAGAGCAG-------TCCTTATTATCGTTTCCTACATTTTTATCTAGTAGAAAAAAGTTTAAACAAATTTAAGAAGACAATAAAAGTCTGATTATTAAATCATATAGAGT--AG--A--
+q rheMac2.chr4 9999-99999999999-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99--9--
+i rheMac2.chr4 C 0 I 1
+s ponAbe2.chr6 16415445 112 - 174210431 AAAT-TTTAGGAGCAG-------TCATTATTATTGTTGCCTACATTTTTATCTAGTAGAAAAAA-TTTAAACAAATGTAAGAAGACAATAAACGTCTGATTATTAAATCATATAGAGT--AG--A--
+i ponAbe2.chr6 C 0 I 1
+s hg18.chr6 16102508 113 - 170899992 AAAT-TTTAGGAGCAG-------TCATTATTATTGTTTCCTACATTTTTATTTAGTAGAAAAAATTTTAAACAAATGTAAGAAGACAATAAAAGTCTGATTATTAAATCATATAGAGT--AG--A--
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16626272 113 - 173908612 AAAT-TTTAGGAGCAG-------TCATTATTATTGTTTCCTACATTTTTATCTAGTAGAAAAAATTTTAAACAAATGTAAGAAGACAATAAAAGTCTGATTATTAAATCATATAGAGT--AG--A--
+q panTro2.chr6 9999-99999999999-------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99--9--
+i panTro2.chr6 C 0 I 1
+s otoGar1.scaffold_85251.1-136255 106 114 - 136255 AAAT-TTTGGGAGCAGT--AGAATAACTATCATTATTTCCTGCATTTTTATCTGGTAGAGAAAA-TTTAAAAAATTTGAAGATGGTAATGAAAGTCTGATGGTT---TCATGTAGGGT--CG--A--
+q otoGar1.scaffold_85251.1-136255 9999-999999999999--999999999999999999999999999999999999999999999-999999999999999999989999999999999999999---99999999999--99--9--
+i otoGar1.scaffold_85251.1-136255 C 0 I 1
+s calJac1.Contig1260 79633 113 - 523245 AAAT-TTTAGGAGCAG-------TCATTATTATTGTTTCCTACATTTTTATCTAGTAGAAAAAATTTTAAACAAATTTAAGAAGATAATAGAAGTCTGATTATTGAACCATATAGAGT--AA--A--
+i calJac1.Contig1260 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 401499 116 - 498454 AAAT-TTTGGAAGCCAT--AGGGTAATAATT-TTGTTTCCCACATTTTTATCTAGTAGAGAAAA-TAAAAAGATGCTTAAGGAGACAATGGAAGTGTGATTATTAAATCACATAGGCT--AG--A--
+q tupBel1.scaffold_114895.1-498454 8979-999959955759--989769687779-99669958667579998889799698997995-67999997475697578595555595665774655776759556354785556--65--6--
+i tupBel1.scaffold_114895.1-498454 C 0 I 258
+s canFam2.chr1 78267064 108 - 125616256 AAAT-TTTGGGAGCAGTGGAG------TATTATTGTTTCTCACATTTTT---TAATTGAGTA---GAGAATTTTTTTTAAGAAGACATTGAAAATCTGATTACAAAATCGTATAGGGT--AG--A--
+q canFam2.chr1 9999-9999999999999999------9999999999999999999999---9999999999---99999999999999999999999999999999999999999999999999999--99--9--
+i canFam2.chr1 C 0 I 2
+s felCat3.scaffold_217398 132928 92 - 219823 AAAC-TTTGGGAGCAGTAGAG--TCACTATTAATGTTTAACACATTTTT---AA---------------------TTTAAGAAGATACCAAAAATCTGATTACAAAATC--ATAGGGT--AG--A--
+q felCat3.scaffold_217398 9999-9999999999999999--99999999999999999999999999---99---------------------9999999999999999999999999999999999--9999999--99--9--
+i felCat3.scaffold_217398 C 0 I 2
+s equCab1.chr31 13058299 117 + 24938454 CAAT-TTTGGGAACAGGAGAG--TAATTGTTATTGTTTCCCACATTTTTACCTAATAGAGAAAATGAAAAATTTTTTT---AAGCCTCTGATAATCTGACTATAAACTCACATAGCAT--AGCAA--
+q equCab1.chr31 9999-9999999999999999--9999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999--99999--
+i equCab1.chr31 C 0 I 2
+s bosTau3.chr9 13736591 112 - 95030419 AAAT-TTTAAGAGCAGTAAAG--TGACTATGA---TCTCCCACATTTTTATCTAGTAGAGAAAATTAAACAAAATTTTCAGAAAGCACT-AAAATCTGATTATAAAATC--ATAGGGT--AG--A--
+q bosTau3.chr9 9999-9999999999999999--999999999---999999999999999999999999999999999999999999999999999999-9999999999999999999--9999999--99--9--
+i bosTau3.chr9 C 0 I 2
+s loxAfr1.scaffold_4233 73767 103 + 124190 -------------CAGTAGAG--TAGCTATCATTGTTTCCCAAGTTTTTATCTAGTAGGGAAAGT----AACAAATTTAAGAAGACAAC-AAAATCTGATTATAAAATCAAATAGGGT--AG--GAG
+q loxAfr1.scaffold_4233 -------------86957997--599999562211125122224678956999999899999999----89999999999999999999-9999999999999999999999998999--99--999
+i loxAfr1.scaffold_4233 I 1090 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=42848.000000
+s mm9.chr10 3201374 47 + 129993255 ACCAGTTAGCTGC-------------CCTTGATATT------TATA-GTTGGG-GAAA-ACGACCT------AAA------
+s rn4.chr1 230017850 43 - 267910886 AACTGGTAGCTGT-------------CCTTG----C------TATA-GTCGGG-AAAA-ATGACCT------AAA------
+q rn4.chr1 9999999999999-------------99999----9------9999-999999-9999-9999999------999------
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108511346 47 + 167655696 -ACTGGTAGTCAT-------------CTTCCTCCTT------CAGAAGTAGTA-AAAC-ATAACCT------AAA------
+q rheMac2.chr4 -999999999999-------------9999999999------99999999999-9999-9999999------999------
+i rheMac2.chr4 I 1 C 0
+s ponAbe2.chr6 16415558 47 - 174210431 -ACTGGTAGGCAT-------------CTTCCTCCTT------CAGAAGTAGTA-AAAA-ATGACCT------AAA------
+i ponAbe2.chr6 I 1 C 0
+s hg18.chr6 16102622 47 - 170899992 -ACTGACAGGCAT-------------CTTCCTCCTT------CAGAAGTAGTA-AAAA-ATGACCT------AAA------
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16626386 47 - 173908612 -ACTGGTAGGCAT-------------CTTCCTCCTT------CAGAAGTAGTA-AAAA-ATGACCT------AAA------
+q panTro2.chr6 -999999999999-------------9999999999------99999999999-9999-9999999------999------
+i panTro2.chr6 I 1 C 0
+s otoGar1.scaffold_85251.1-136255 221 42 - 136255 -ATTGGTTGCTAT-------------TTCCCGCCTT-----------GTGGTA-AAAA-GTGACCC------AGA------
+q otoGar1.scaffold_85251.1-136255 -999999989999-------------9998898999-----------999999-9999-9799899------999------
+i otoGar1.scaffold_85251.1-136255 I 1 C 0
+s calJac1.Contig1260 79747 48 - 523245 -ATTGGTAACCAT-------------CTTCCTCCTT------CAGAAGTAGTA-AAAACATGATCT------AAA------
+i calJac1.Contig1260 I 1 C 0
+s canFam2.chr1 78267174 57 - 125616256 ----ATCATGCATTTCTAG-TCCAGGCCCCCTCTCC------CTGTAGTAGTAAAAAA-ATGACAT------CAA------
+q canFam2.chr1 ----999999999999999-9999999999999999------9999999999999999-9999999------999------
+i canFam2.chr1 I 2 C 0
+s felCat3.scaffold_217398 133022 64 - 219823 ----ATCATACATTTCTAACTCCCGCCCCCCTCCCCACTCCTCAGTGGTAGCAGAAAA-GTGACCT------TAA------
+q felCat3.scaffold_217398 ----999999999999999999999999999999999999999999999999999999-9999999------999------
+i felCat3.scaffold_217398 I 2 C 0
+s equCab1.chr31 13058418 50 + 24938454 ----GGTAGCCATTTCCAC-------CCCTCCCTCC------CAGTGGTAGTA-AAAA-ATAACCT------AAA------
+q equCab1.chr31 ----999999999999999-------9999999999------99999999999-9999-9999999------999------
+i equCab1.chr31 I 2 I 397
+s bosTau3.chr9 13736705 49 - 95030419 ----GCTGTACATTT-TAA-------CCCCTATTCC------CAGTGGCAGAA-AAAA-ATGACCT------AAA------
+q bosTau3.chr9 ----99999999999-999-------9999999999------99999999999-9999-9999999------999------
+i bosTau3.chr9 I 2 C 0
+s loxAfr1.scaffold_4233 73870 54 + 124190 --CTGGCAGCCAG-------------CTCCC----T------CAGTAGTCGTA-AAAA-ATGACGTTTCGTAAAATCTTTA
+q loxAfr1.scaffold_4233 --99999979999-------------99999----9------99899599999-9999-9999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e tupBel1.scaffold_114895.1-498454 401615 258 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=256830.000000
+s mm9.chr10 3201421 134 + 129993255 CCTGACATTTCTACCTAAATG--AAAAACATCATCTGATGAATTCAGGAC---T-------GATTTGTATTTTTTCATACACCTGGA-------------ATTCTCAAGATTGACTCAGTTCGGTGTTAT--ACTCAGTGGTGCAGA-TAAGCCCTAAGGAA
+s rn4.chr1 230017893 133 - 267910886 TATGACGTTTCAACTCAAATGAAAAAAACATCATCTGATGAATTCAGAAC---T-------GATTTGTATGTTTTTATACACCTTGAAA------GCCTTATTCTCAAGATTGGCTCAATTTGGCATTGT--ACTCAGTGGCACA-----------AAATAA
+q rn4.chr1 99999999999999999999999999999999999999999999999999---9-------9999999999999999999999999999------99999999999999999999999999999999999--9999999999999-----------999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108511393 151 + 167655696 AATGACTTTTTGATTGAAGTG-AAAAATCTTCGCCTGACAATTCCAACACAGTT-------GATTAACATTTTTTCATGTACATAAAAG-AATTAGCATTATCTTTAAGATTGTCCTAGCTTGGGATTAC--AGTTAATAGTGCTGAATAAACTCTATAGAA
+q rheMac2.chr4 999999999999999999999-99999999999999999999999999999999-------9999999999999999999999999999-9999999999999999999999999999999999999999--999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16415605 151 - 174210431 AATGACTTTTTGATTGATGTG-AAAAATCTTCACCTGACAATTCCAACACAGTT-------GATTAACATTTTGTCATGTACATAAAAG-AATTAGCATTATCGTTAAGATTGTCCTAACTTGGGATTAT--AGTTAATAGTGCTGAATAAACTCTATAGAA
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16102669 152 - 170899992 AATGACTTTTTGATTGACGTG-AAAAATCTTCACCTGACAATTCCAACACAGTT-------GATTAACATTTTGTCATGTACATAAAAGAAATTAGCATTATCTTTAAGATTGTCCTAACTTGGGATTAT--AGTTAATAGGGCTGAATAAACTCTATAGAA
+i hg18.chr6 C 0 I 23
+s panTro2.chr6 16626433 151 - 173908612 AATGACTTTTTGATTGACGTG-AAAAATCTTCACCTGACAATTCCAACACAGTT-------GATTAACATTTTGTCATGTACATAAAAG-AATTAGCATTATCTTTAAGATTGTCCTAACTTGGGATTAT--AGTTAATAGGGCTGAATAAACTCTATAGAA
+q panTro2.chr6 999999999999999999999-99999999999999999999999999999999-------9999999999999999999999999999-9999999999999999999999999999999999999999--999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 263 145 - 136255 AATGACTTTTCTTTTTAAATG--AGAATCTTTGACCAACAGTTCCAACAGAGTT-------GAGGACTATCCT-TCACGTGCATAAAAT-AATTACCATTACCTTTAAGATTGTTCCAGTTTGGGGTTATTCAGTTCGTTGTGCTGAATAAACCCT------
+q otoGar1.scaffold_85251.1-136255 999999999999999999999--9998999999989999999999999999999-------999999999999-999999999999999-999999799999999999997999999999999999999999999999999997999999999999------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 79795 145 - 523245 AATTACTTTTTGATCAAAGTG-AAAAATCTTCGCCTGATAATTCCAACAGAG-----------TTAACATTTT-TTATATACATAAAAG-AATTAGCATTATC-TTAGGATTGTCCTAGCTTGGGATTAT--GGTTAATAGCTCTGATTAAACTCTATAGAA
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78267231 128 - 125616256 -ATGAC-TTTTGATTGAAGTG--AAAATCTT----TGACAGTTCCA--AGAGTT-------GATTAACATCTT-TCACGTACATGAAAT-A------------ATTAGGA-TGTCCTAGTTTGGGATTAT--ACTTAATGGTGCAAAATAAACTCTTAAAGG
+q canFam2.chr1 -99999-99999999999999--99999999----99999999999--999999-------999999999999-999999999999999-9------------9999999-9999999999999999999--999999999999999999999999999999
+i canFam2.chr1 C 0 I 8
+s felCat3.scaffold_217398 133086 129 - 219823 -GTGAC-TTTTGATTGAAGTG--AAAATCTT----TTACAATTCCAACAGAGTT-------GATTAATATCTT-TCGTGTACATGAAAT-A------------ATTAGGA-TGTTCCAGTTTGGGATTAT--ACTTAAAGGTGCAAAATAAACTCTGAAGA-
+q felCat3.scaffold_217398 -99999-99999999999999--99999999----9999999999999999999-------999999999999-999999999999999-9------------9999999-9999999999999999999--99999999999999999999999999999-
+i felCat3.scaffold_217398 C 0 I 245
+s bosTau3.chr9 13736754 121 - 95030419 -AGGACATTTTGACTGAAGCA--AAAATCTT----TGATCATTCCAACAGAGTT-------GATGAGTGTCCT-TCCCGTACATGAAAT-ACTTTGAATTTTCCTTAGGG-TGCCGCAGTTTGGGATTAT--ATTTAGtg----------------------
+q bosTau3.chr9 -99999999999999999999--99999999----9999999999999999999-------999999999999-999999999999999-99999999999999999999-9999999999999999999--99999999----------------------
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 73924 109 + 124190 ---------------------------------CCTGGCAATTCTAACAGAGTTAGAATGAAGTTAGTATCCT-ACACGCACATACAAT-AATGTGCGTTTTCCCTAGGA-TGTCCCAGTTTGGTATTAT--ACTTACTGGTGCTGA---------------
+q loxAfr1.scaffold_4233 ---------------------------------9999999999989997987875597799778979999998-998997999999999-99999999999999999799-9999999999999999999--999999999999989---------------
+i loxAfr1.scaffold_4233 C 0 I 32
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13058468 397 + 24938454 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e tupBel1.scaffold_114895.1-498454 401615 258 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-23289.000000
+s mm9.chr10 3201555 96 + 129993255 AGCCGTTCTCT-TCCAGagagactgtttagctgttaagggcacc-----tgtgtgattcctagcatcatcttggctcacaggcatccacgactctagttcca
+s rn4.chr1 230018026 97 - 267910886 ACCAGTTCTCTgggcagagagacagcttagcagttaagagcacc-----tgcaggattcccagcttcttcttggttcccaagcacccaggactccagctcta
+q rn4.chr1 99999999999999999999999999999999999999999999-----99999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16415756 7 - 174210431 --------------------------------------------------------------------------------------------TCTAGTT---
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 79940 10 - 523245 --------------------------------------------------------------------------------------------CCTAGTTGTA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 408 16 - 136255 --------------------------------------------------------------------------------------CCAGAATCTAGTTGTT
+q otoGar1.scaffold_85251.1-136255 --------------------------------------------------------------------------------------9999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s bosTau3.chr9 13736875 81 - 95030419 ---------------------catgctgggtgctgaactgcttcagtcgtgtctgactctttgcaactccatggactgtaacctgccaggctcctctgtcca
+q bosTau3.chr9 ---------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13058468 397 + 24938454 I
+e rheMac2.chr4 108511544 0 + 167655696 C
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e felCat3.scaffold_217398 133215 245 - 219823 I
+e canFam2.chr1 78267359 8 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 74033 32 + 124190 I
+e tupBel1.scaffold_114895.1-498454 401615 258 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16102821 23 - 170899992 I
+e panTro2.chr6 16626584 0 - 173908612 C
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-2076.000000
+s mm9.chr10 3201651 33 + 129993255 ------------agggatttagcgtccccttctgctctctaaggg
+s rn4.chr1 230018123 33 - 267910886 ------------agggatttatcacccgcttctggtctccaaggg
+q rn4.chr1 ------------999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 424 15 - 136255 -------------TCGATTT-------TCTTCTGC----------
+q otoGar1.scaffold_85251.1-136255 -------------9999999-------99999999----------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s bosTau3.chr9 13736956 45 - 95030419 tggggcaagaatactggagtgggttcccatttccttctccagggg
+q bosTau3.chr9 999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 97
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13058468 397 + 24938454 I
+e rheMac2.chr4 108511544 0 + 167655696 C
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e felCat3.scaffold_217398 133215 245 - 219823 I
+e canFam2.chr1 78267359 8 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 74033 32 + 124190 I
+e calJac1.Contig1260 79950 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 401615 258 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16102821 23 - 170899992 I
+e panTro2.chr6 16626584 0 - 173908612 C
+e ponAbe2.chr6 16415763 0 - 174210431 C
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-5514.000000
+s mm9.chr10 3201684 70 + 129993255 caccagg-gcacctgggggacacaggcatctgtacatgcaatgcactcatgtgtataataaaaCGAGTAAA
+s rn4.chr1 230018156 71 - 267910886 caccaggcacacacggggtgcacagacctctgtgcatgcaacacactcacgtgtgtaataaaaTGAGCAAA
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16415763 4 - 174210431 ----------------------------------------------------GTAT---------------
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 439 13 - 136255 --------ACACC---------------------------------------CTATGGTG-----------
+q otoGar1.scaffold_85251.1-136255 --------99999---------------------------------------99999999-----------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_560 361973 0 + 756420 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13737001 97 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13058468 397 + 24938454 I
+e rheMac2.chr4 108511544 0 + 167655696 C
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e felCat3.scaffold_217398 133215 245 - 219823 I
+e canFam2.chr1 78267359 8 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 74033 32 + 124190 I
+e calJac1.Contig1260 79950 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 401615 258 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16102821 23 - 170899992 I
+e panTro2.chr6 16626584 0 - 173908612 C
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-8003.000000
+s mm9.chr10 3201754 43 + 129993255 TCTGATTTTAAAAATTAACCAAAAAAAAAAAAAAGTAACCAAG
+s rheMac2.chr4 108511544 6 + 167655696 TCTAGT-------------------------------------
+q rheMac2.chr4 999999-------------------------------------
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16626584 6 - 173908612 TCTAGT-------------------------------------
+q panTro2.chr6 999999-------------------------------------
+i panTro2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 452 12 - 136255 -GTAGCCTGAAAA------------------------------
+q otoGar1.scaffold_85251.1-136255 -999999999999------------------------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s rn4.chr1 230018227 19 - 267910886 TCTGATTTTAAAAATTAAC------------------------
+q rn4.chr1 9999999999999999999------------------------
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_184 369328 41 + 2020054 --TAATTTGAACGATTATGCAAAAAAAAAAAAATGTCACTCCA
+i xenTro2.scaffold_184 n 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13737001 97 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e equCab1.chr31 13058468 397 + 24938454 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e felCat3.scaffold_217398 133215 245 - 219823 I
+e canFam2.chr1 78267359 8 - 125616256 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 74033 32 + 124190 I
+e calJac1.Contig1260 79950 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 401615 258 - 498454 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e cavPor2.scaffold_265563 4669 2396 + 10554 I
+e hg18.chr6 16102821 23 - 170899992 I
+e ponAbe2.chr6 16415767 0 - 174210431 C
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-76332.000000
+s mm9.chr10 3201797 20 + 129993255 AAG---------AAACTGGCTTCTCAGAT
+s ponAbe2.chr6 16415767 11 - 174210431 ----------------TGATTTTTTT--T
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 79950 12 - 523245 ---------------CTGACTTTTTT--T
+i calJac1.Contig1260 C 0 C 0
+s cavPor2.scaffold_265563 7065 17 + 10554 ------------AATCTGGCTTACTTTAC
+q cavPor2.scaffold_265563 ------------99999999999999999
+i cavPor2.scaffold_265563 I 2396 C 0
+s felCat3.scaffold_217398 133460 18 - 219823 -------gctccccAGTCCCCCTTT----
+q felCat3.scaffold_217398 -------999999999999999999----
+i felCat3.scaffold_217398 I 245 I 7
+s canFam2.chr1 78267367 7 - 125616256 ------------------CATTTTT----
+q canFam2.chr1 ------------------9999999----
+i canFam2.chr1 I 8 I 7
+s equCab1.chr31 13058865 16 + 24938454 -CAGTTG--------GTGTCCCTTT----
+q equCab1.chr31 -999999--------9999999999----
+i equCab1.chr31 I 397 I 7
+s rn4.chr1 230018246 20 - 267910886 AAG---------ACACTAGCTTATCAGAT
+q rn4.chr1 999---------99999999999999999
+i rn4.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 401873 24 - 498454 AAGAATCCAGTTTCTCTGTCTTT-----C
+q tupBel1.scaffold_114895.1-498454 11124483599999999999999-----9
+i tupBel1.scaffold_114895.1-498454 I 258 I 7
+s otoGar1.scaffold_85251.1-136255 464 17 - 136255 -------CA--TCTGCTGTCTCCAAT---
+q otoGar1.scaffold_85251.1-136255 -------99--999999999999999---
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s panTro2.chr6 16626590 16 - 173908612 -----------TGTATTGATTTTTTT--T
+q panTro2.chr6 -----------999999999999999--9
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108511550 16 + 167655696 -----------TGTATTGACTTTTTT--T
+q rheMac2.chr4 -----------999999999999999--9
+i rheMac2.chr4 C 0 C 0
+s xenTro2.scaffold_184 369369 9 + 2020054 ------------ATGTTGTGT--------
+i xenTro2.scaffold_184 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e bosTau3.chr9 13737001 97 - 95030419 I
+e monDom4.chr5 227687649 0 - 308900514 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_13068 24330 2104 + 27231 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e loxAfr1.scaffold_4233 74033 32 + 124190 I
+e echTel1.scaffold_324002 46130 3373 + 49972 I
+e hg18.chr6 16102821 23 - 170899992 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=-9448.000000
+s mm9.chr10 3201817 52 + 129993255 CT-CCTTT---CGTGCACCCTGCGGTTCGTGTTGAGAGACTCCA-GTGCAGA-T-GGTT
+s tupBel1.scaffold_114895.1-498454 401904 44 - 498454 -----------CAAGTACCCTGTGGCGAAGGTTGAAATCCTGGG-CTGTAGA---AGTT
+q tupBel1.scaffold_114895.1-498454 -----------639999899999999989876999999999998-9999999---9999
+i tupBel1.scaffold_114895.1-498454 I 7 C 0
+s bosTau3.chr9 13737098 47 - 95030419 -----------CATGCACAGTGCTGCGTAGCTTGAGCTCTTCTG-CTGTAGATCCTGTT
+q bosTau3.chr9 -----------999999999999999999999999999999999-99999999999999
+i bosTau3.chr9 I 97 C 0
+s felCat3.scaffold_217398 133485 45 - 219823 -----------CATGTCCTCTGCCTTGTAG-AGGGAAACCTTTG-CTGTAGG-CCAGTT
+q felCat3.scaffold_217398 -----------9999999999999999999-9999999999999-9999999-999999
+i felCat3.scaffold_217398 I 7 C 0
+s canFam2.chr1 78267381 44 - 125616256 -----------CATA--CTCTGCTATGGAGTTGGGAAACCTTTG-CTGTAGA-CCAGTT
+q canFam2.chr1 -----------9999--999999999999999999999999999-9999999-999999
+i canFam2.chr1 I 7 C 0
+s equCab1.chr31 13058888 45 + 24938454 -----------CATGCCCTCTGCTGTGTGGATTGAAATCCTCAG-CTGTAGA--CAGTT
+q equCab1.chr31 -----------999999999999999999999999999999999-9999999--99999
+i equCab1.chr31 I 7 C 0
+s echTel1.scaffold_324002 49503 45 + 49972 -------------TGCTCCCTGCAGCACTGGTTGGAAGCCTCTATTCTCAGA-GAAGTT
+q echTel1.scaffold_324002 -------------999999999999999999999999999999999999999-999999
+i echTel1.scaffold_324002 I 3373 C 0
+s dasNov1.scaffold_16647 35078 45 - 51472 -----------CATGCACCCTACAGGGTAGGATGAAATCCCCTG-CTGTCGA-AAAG-T
+q dasNov1.scaffold_16647 -----------999999999999999999999999999999999-9999999-9999-9
+i dasNov1.scaffold_16647 n 2104 C 0
+s loxAfr1.scaffold_4233 74065 47 + 124190 -----CTCCTGTCTGCACCCTGTG-----GGTTGAAATCCTCTG-TCTTAGA-AAAGCC
+q loxAfr1.scaffold_4233 -----8999999999999999989-----999899999999989-9999959-999999
+i loxAfr1.scaffold_4233 I 32 C 0
+s hg18.chr6 16102844 50 - 170899992 -T---CTG---CATGCATTCTGCAGTATAGGTTGAAATCCTTTG-CTACAGA-TGAGTT
+i hg18.chr6 I 23 C 0
+s ponAbe2.chr6 16415778 51 - 174210431 TT---CTG---CATGCATTCTGCAGTATAGGTTGAAATCCTTTG-CTACAGA-TGAGTT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 79962 50 - 523245 -T---CTG---CATGCTTTCTGCAGTGTAGGTTGAAATCCTTTG-CTGCAGA-TGAGTT
+i calJac1.Contig1260 C 0 C 0
+s cavPor2.scaffold_265563 7082 50 + 10554 TT---CTG---CACACTCCCTGCAGTGTGGGTTGAAATCTACAG-CTATGGA-T-GGTC
+q cavPor2.scaffold_265563 99---999---999999999999999999999999999999999-9999999-9-9999
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230018266 53 - 267910886 TTCCCTTT---CACGTACCCCATGGTCCGAGTTGAGAACCCCCA-GTGCAGC-T-AGTT
+q rn4.chr1 99999999---999999999999999999999999999999999-9999999-9-9999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16626606 51 - 173908612 TT---CTG---CATGCATTCTGCAGTATAGGTTGAAATCCTTTG-CTACAGA-TGAGTT
+q panTro2.chr6 99---999---999999999999999999999999999999999-9999999-999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108511566 51 + 167655696 TT---CTG---CATGCATTCTGCAGTACAGGTTGAAATCCTTTG-CTACGGA-TGAGTT
+q rheMac2.chr4 99---999---999999999999999999999999999999999-9999999-999999
+i rheMac2.chr4 C 0 C 0
+s monDom4.chr2 106248237 31 - 541556283 -------------------------TTTCTGTGAAAAACCTTAA-ATTCAAA-TGGCA-
+q monDom4.chr2 -------------------------9999999999999999999-9999999-99999-
+i monDom4.chr2 I 8625 C 0
+s otoGar1.scaffold_85251.1-136255 481 1 - 136255 ----------------------------------------------------------T
+q otoGar1.scaffold_85251.1-136255 ----------------------------------------------------------9
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s xenTro2.scaffold_184 369378 44 + 2020054 ----------TTGTGT-TTTTGCACTTTTGGTAAAAGAATTTTG-CATCAAT---ATCT
+i xenTro2.scaffold_184 C 0 I 2
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e sorAra1.scaffold_256646 110113 3633 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.Ultra358 4311580 4 - 4471575 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=467932.000000
+s mm9.chr10 3201869 134 + 129993255 C----TAGAAGGCTACCTGTGGAAGTTTCC------TGTTGGCAGTTT-CGTCTTGATGCCTTCT-GG---AGTGGACAGTGG----TGACTCCTATAATCAACTAACCCTGCTGGCACGGGGCTCATAATCAACTAACCCTGC----TGGCAC----------GGG---
+s monDom4.chr2 106248268 93 - 541556283 --------AAAGTAGAACATG--TGTTTAAG-----CATT-----TTT-CAGTTTGGCTACTTTT-AA---AGAGGACAATAG----TGATTTTTGTAATT-------------------------------TGACAGCTGGGT----TCATTC----------AGT---
+q monDom4.chr2 --------9999990999999--99999999-----9999-----999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999----999999----------999---
+i monDom4.chr2 C 0 C 0
+s dasNov1.scaffold_16647 35123 104 - 51472 C----TAGAAAGTTACCTGTGAGAGTTTCA------CCTCGACAGGTT-CACTTTGGCTGCTTTT-AT---GGAGGAGAGCGGTAGCTGATTCCTGTAACC-------------------------------AGCCCCCCTGAT----TCATGC----------------
+q dasNov1.scaffold_16647 9----9999999999999999999999999------999989999999-9999999999999999-99---999999999999999999999999999999-------------------------------999999999999----999999----------------
+i dasNov1.scaffold_16647 C 0 C 0
+s echTel1.scaffold_324002 49548 96 + 49972 T----CAGAAGGTTCGCTGTGAAAGCTTCA------CCCTGGTGGTTTCCACTCTGGGCAGTT-----------GAACAGCAA----GGATCCCATG-ATA-------------------------------GGCCCACAGGGT----TCCTGC----------AGG---
+q echTel1.scaffold_324002 9----9999999999999999999999999------999999999999999999999999999-----------999999999----9999999999-999-------------------------------999999999999----999999----------999---
+i echTel1.scaffold_324002 C 0 C 0
+s loxAfr1.scaffold_4233 74112 112 + 124190 C----TAGAAGGCTAGCAGTGAAAGCTTTA------CATTAGCAGCTT-TACTTTGGCTGCTTTT-AT---AGAGAACAGTGG----TGATTCCTGT-ACT-------------------------------GGCTCACTGGGT----TCCTGCCTTGTTTCAGAGT---
+q loxAfr1.scaffold_4233 9----9999989999999999999999999------779965969999-9999999657999999-99---979999999999----9999999779-999-------------------------------846699999968----9979999699254555687---
+i loxAfr1.scaffold_4233 C 0 C 0
+s bosTau3.chr9 13737145 99 - 95030419 C----TAGAAGGTTAAC--GGAGAGTTTCA------CGTTGTCAGTTT-CACTTTGGCTGCTTTC-AG---TCAGGACAATGG----TGATTCCTATAATC-------------------------------AGCTAACTGGGT----TCATAG----------G-----
+q bosTau3.chr9 9----999999999999--99999999999------999999999999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999----999999----------9-----
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 133530 104 - 219823 AACTGTGGAGG-TTAACAGTGAGAGTTTCA------CATTGGTGGTTT-CACTGTGACCACTTTT-AG---ACAGGACAATGG----TGACTCCTATAATC-------------------------------AGCCAGCTGGGT----TCATAC----------A-----
+q felCat3.scaffold_217398 99999999999-999999999999999999------999999999999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999----999999----------9-----
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78267425 95 - 125616256 C----TAGAAG---AAC--TGAGAGTTTCA------CA-TGGCAGCTT-CATTGTGACCACTTTT-AG---ACAGGACAATGG----AGACCTCTATAATC-------------------------------AGCCAACTGGGT----TCATAC----------A-----
+q canFam2.chr1 9----999999---999--99999999999------99-999999999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999----999999----------9-----
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13058933 100 + 24938454 C----TGGAAGGTTAGCTGTGAGAGTTTCA------CAATGGCGGTTT-CAGTTTGGCTGCTTTT-AG---ACGGGACAATGC----TGATTCCTATAATC-------------------------------AGCTAACC-GGT----TCATAC----------A-----
+q equCab1.chr31 9----9999999999999999999999999------999999999999-9999999999999999-99---999999999999----99999999999999-------------------------------99999999-999----999999----------9-----
+i equCab1.chr31 C 0 C 0
+s sorAra1.scaffold_256646 113746 95 - 121936 C----TGGAAGGTGGGTGGTGAGAGCTTCA------TGTTGGCGCTTT-CACTCTGGCAACGGTG-GG---AC-GAACAATGG----TGAGTCTTA----C-------------------------------AGTCCACCCGGC----TCAGAT----------------
+q sorAra1.scaffold_256646 9----9999999999999999999999999------999999999999-9999999999999999-99---99-999999999----999999999----9-------------------------------999999999999----999999----------------
+i sorAra1.scaffold_256646 I 3633 C 0
+s cavPor2.scaffold_265563 7132 100 + 10554 C----TTGAAGGTTAACTATGAATCTTTCA------CATTGGCAGTCT-CACTTTGGTTCCTTCT-GG---ACGGGACAGTGG----TGTTTTCTAACTCT---------------------GTTCGTA-------------GT----GTGTAC----------TGT---
+q cavPor2.scaffold_265563 9----9999999999999999999999999------999999999999-9999999999999999-99---999999999999----99999999999999---------------------9999999-------------99----999999----------999---
+i cavPor2.scaffold_265563 C 0 C 0
+s rheMac2.chr4 108511617 103 + 167655696 C----TAGAAGGTTAACTGTGAAAGTTTCA------CATTGGCAATTT-CACTTTGGCAGCTTTG-AG---ACAGGACAATGG----TGGTTCCTATAATC-------------------------------AGCTAACCCAGT----TCATAC----------AGT---
+q rheMac2.chr4 9----9999999999999999999999999------999999999999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999----999999----------999---
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16626657 103 - 173908612 C----TAGAAGGTTAACTGTGAAAGTTTCA------CATTGGCAATTT-CACTTTGGCAGCTTTT-AG---ACAGGACAATGG----TGATTCCTATAATC-------------------------------AGCTAACCCAGT----TCATAC----------AGT---
+q panTro2.chr6 9----9999999999999999999999999------999999999999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999----999999----------999---
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80012 103 - 523245 C----TAGAACGTTGACTGTAGAAGTTTCA------CGTTGGCAATTT-CACTTTGGCAGCTTTT-AG---ACAGGACAATGG----TGATTCCTATAATC-------------------------------AGCTAACCCAGT----TCATAC----------AGT---
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16415829 103 - 174210431 C----TAGAAGGTTAACTGTGAAAGTTTCA------CATTGGCAATTT-CACTTTGGCAGCTTTT-AG---ACAGGACAATGG----TGATTCCTATAATC-------------------------------AGCTAACCCAGT----TCATAC----------AGT---
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 482 101 - 136255 C----TAGAAGGTTGACTGAGAACGTTTCA------CACTGGCAGTTT-CACTCTGGCAGCTTCC-AG---GCAGGACAATGG----TGATTCCTATAATC-------------------------------AGCTAACCTGGT------GTAC----------AGT---
+q otoGar1.scaffold_85251.1-136255 9----9999999999999999999999999------999999999999-9999999999999999-99---999999999999----99999999999999-------------------------------999999999999------9999----------999---
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s hg18.chr6 16102894 103 - 170899992 C----TAGAAGGTTAACTGTGAAAGTTTCA------CATTGGCAATTT-CACTTTGGCAGCTTTT-AG---ACAAGACAATGG----TGATTCCTATAATC-------------------------------AGCTAACCCAGT----TCATAC----------AGT---
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 401948 102 - 498454 C----TAGAAGGTTAA-TGTGAAAGTTTCA------CGTTGGCAGTTT-TACTTTGGTGACTTTT-CC---ACAGGGCAATGG----TGATTCCTATAATC-------------------------------AGTCAACTGGGT----TCATAC----------AGT---
+q tupBel1.scaffold_114895.1-498454 9----98999975999-9989999899998------999998999999-8999999899999999-95---599999999998----99989999999999-------------------------------899969999988----998999----------899---
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s rn4.chr1 230018319 89 - 267910886 C----TAGAAGGCTACCTGTGGAAGTTT-------------------------------CATTCC-AG---AGCGGACAGTGG----TGCTGCCTATAATC---------------------GCCTATAATCGGCTAACCCTGC----TGGCAC----------GGT---
+q rn4.chr1 9----99999999999999999999999-------------------------------999999-99---999999999999----99999999999999---------------------9999999999999999999999----999999----------999---
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_184 369424 108 + 2020054 C----AAAGAGGC----------AATTCC-TTTCAGCATTGTCCATTG-TTATGTGTTGATGTAA-AGCCTACTGCATCATAC----CTGCTGCCATGTGT-------------------------------AGATAAGAGTGTGTTATGTTGC----------AGTGAG
+i xenTro2.scaffold_184 I 2 C 0
+s ornAna1.chr2 14895202 78 - 54797317 ------------------------------------TGCAAGCATTTT-CAGTTAGGCCTCTTCTGAA---AGAGAACAATGG----TAACTTCTGTAACC-------------------------------TGCCAGCTGGGT----TCATTC----------AGT---
+i ornAna1.chr2 I 3970 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr4 85342545 1354 - 94230402 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=163957.000000
+s mm9.chr10 3202003 22 + 129993255 GCTCCGAGTCTTTTGTTCTTTA
+s rn4.chr1 230018408 22 - 267910886 GCTGTGAGCCTTTTCTTCTTCC
+q rn4.chr1 9999999999999999999999
+i rn4.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402050 22 - 498454 GTTCTCAGCCTTTTGTTCTGAA
+q tupBel1.scaffold_114895.1-498454 9699999999999996998999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16102997 22 - 170899992 GTTCCAAGCCTTTTGTTCTTAA
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 583 22 - 136255 GTTCCGAGCCTTTTGTTCTGGA
+q otoGar1.scaffold_85251.1-136255 9999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s ponAbe2.chr6 16415932 22 - 174210431 GTTCCAAGCCTTTTGTTCTTAA
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 80115 22 - 523245 GTTGCGAGCCTTTTGTTCTTAA
+i calJac1.Contig1260 C 0 C 0
+s panTro2.chr6 16626760 22 - 173908612 GTTCCAAGCCTTTTGTTCTTAA
+q panTro2.chr6 9999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108511720 22 + 167655696 GTTCCAAGCCTTTTGTTCTTAA
+q rheMac2.chr4 9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s cavPor2.scaffold_265563 7232 22 + 10554 GTCTTGGGTCTTTTGTTCTTAA
+q cavPor2.scaffold_265563 9999999999999999999999
+i cavPor2.scaffold_265563 C 0 C 0
+s sorAra1.scaffold_256646 113841 22 - 121936 GTTCCGAATGTTTTGTTCTGAA
+q sorAra1.scaffold_256646 9999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13059033 22 + 24938454 GTTCCAAGTCTTTTGTTCTTAA
+q equCab1.chr31 9999999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78267520 22 - 125616256 GTTCCGAGGCTTTTGTTCTTAA
+q canFam2.chr1 9999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 133634 22 - 219823 GTTCCGAGTCTTTTGTTCTTAC
+q felCat3.scaffold_217398 9999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13737244 22 - 95030419 GTTCTGAGTCTTTTGTTCTTAA
+q bosTau3.chr9 9999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 74224 13 + 124190 CTTTTTGTTCCTT---------
+q loxAfr1.scaffold_4233 9486616452558---------
+i loxAfr1.scaffold_4233 C 0 I 2
+s echTel1.scaffold_324002 49644 22 + 49972 CTTCTGGCTCCTTCGTTCTGAA
+q echTel1.scaffold_324002 9999999999999999999999
+i echTel1.scaffold_324002 C 0 I 2
+s dasNov1.scaffold_16647 35227 11 - 51472 --TTTAGCTCTTG---------
+q dasNov1.scaffold_16647 --99999999999---------
+i dasNov1.scaffold_16647 C 0 C 0
+s monDom4.chr2 106248361 22 - 541556283 GTTCAAAATCTTTCGTACCTAA
+q monDom4.chr2 9999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14895280 18 - 54797317 GTTCAAAGTCTTTTGTGC----
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61579720 22 - 113657789 GTTCAAAGACTTTTGTACCTAG
+i galGal3.chr3 I 2570 C 0
+s xenTro2.scaffold_184 369532 18 + 2020054 -TACCCGTTTTATTGTCTG---
+i xenTro2.scaffold_184 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e oryCun1.scaffold_214769 103685 1338 - 139458 I
+
+a score=1431011.000000
+s mm9.chr10 3202025 108 + 129993255 GCTGAGAAAACAATGCTTCAC---------------------AT-TCCAT----CCCT---TTAT-TT-AATGTCATCA--ATAGCATAT-CT-CAAGACCA----------------CTTTTTTGGCAGCGTCTTAATGAATG-TTTTGTTAAAC--------TTTT
+s rn4.chr1 230018430 129 - 267910886 GCTGAGAGAATAATGCCTTCCGCTGAGAGAATAATGCTTTGAAT-TCCAT----CCCT---TTAT-TC-ATTGTCATCA--ATACCATAC-CC-CAAGACCA----------------CTTTTTTGGCAGTGTGTTAATGAGTG-TTTTGTTAAAC--------TTTT
+q rn4.chr1 99999999999999999999999999999999999999999999-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-99999999999--------9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 7254 101 + 10554 GCTGAGTAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT----------ATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGAGTCTTAATGAATG-TTTTGTTAAACT-------TTTT
+q cavPor2.scaffold_265563 999999999999765479999---------------------99-99999----9999---9999----------9999--999999999-99-99999999----------------99999999999999999999899999-997435799799-------9999
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 105023 108 - 139458 GCTGAGTAAATAATGC-TTGC---------------------AT-TCCAG----TTTT---TTTTTTT-AATGTCATCA--ATAGCATAC-CT-CAGGACCA----------------CTTTTTGGCCAGTGTGTTAATGAATG-TTTTGTTAAGC--------TTTT
+q oryCun1.scaffold_214769 2222222484435323-6325---------------------22-35622----3877---8887765-5512333234--333221225-24-64542633----------------34898343234322123636234523-39633361324--------6798
+i oryCun1.scaffold_214769 I 1338 C 0
+s rheMac2.chr4 108511742 109 + 167655696 GCTGAATAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-CGTGTCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACT-------CTTT
+q rheMac2.chr4 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-999999999999-------9999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16626782 108 - 173908612 GCTGAATAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-CATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGTGTGTTAATGAAT--CTTTGTTGAACC-------CTTT
+q panTro2.chr6 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------9999999999999999999999999--999999999999-------9999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80137 109 - 523245 GCTGAATAAATAATGCCTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-AATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGTGTGTCAATGAACG-TTTTGTTGAATC-------CTTT
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16415954 109 - 174210431 GCTGAATAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-CATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACC-------CTTT
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 605 109 - 136255 GCTGAGTAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTGC-TC-CATGCCATCA--GTAGCATAC-CT-CGAGACCG----------------CTTTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACC-------CTTT
+q otoGar1.scaffold_85251.1-136255 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-999999999999-------9999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402072 108 - 498454 GCTGAGTAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-AATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------C-TTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACC-------TTTT
+q tupBel1.scaffold_114895.1-498454 999999999899989899963---------------------59-97668----8889---9898-99-8976696996--999997999-88-86699586----------------8-799988768859687866797756-498864885656-------4988
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16103019 109 - 170899992 GCTGAATAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-CATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGTCAGTGTGTTAATGAATG-TTTTGTTGAACC-------CTTT
+i hg18.chr6 C 0 C 0
+s sorAra1.scaffold_256646 113863 117 - 121936 GCTGAGGAAACAATGCGCTGA---------------------AT-TCCAG----CCCT---TTGT-TCAAATGCCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGCATGTTAATGAATG-TTTTgtggaaccttttttttttt
+q sorAra1.scaffold_256646 999999999999999999999---------------------99-99999----9999---9999-9999999999999--999999999-99-99999999----------------99999999999999999999999999-99999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13059055 109 + 24938454 GCTGAGTAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-AATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------TTTTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACC-------TTTT
+q equCab1.chr31 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-999999999999-------9999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78267542 109 - 125616256 GCTGAGTAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTAT-TT-GATGTCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACG-------CTTT
+q canFam2.chr1 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-999999999999-------9999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 133656 109 - 219823 GCTGAGTAAATAATGCTTTGC---------------------AC-TCCAG----CCCT---TTAT-TT-AACATCATCA--ATAGCATAC-CT-CAAGACCA----------------CTTTTTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACC-------TTTT
+q felCat3.scaffold_217398 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-999999999999-------9999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13737266 109 - 95030419 GCTGAGTAAACAATGCTTTGC---------------------AT-TCCGG----CCCA---TTAT-TT-AATGTCATCA--ATAGCATAC-TT-CAAGACCA----------------CTTTTTTGGCAGCGTGTTAATGAATG-TTTTGTTGAGCC-------TCTT
+q bosTau3.chr9 999999999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-99999999----------------99999999999999999999999999-999999999999-------9999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 74239 130 + 124190 GCTGAATAAATAGTGCTTCAC---------------------AT-TCCAG----CCCTTTATTAT-TC-AATGTCATCAATATAGCATAC-CT-CGAGACCACCTTTTTTTTTTTTTGTTTTTTTGGCAGTGTGTTAATGAATG-TTTTATTGAACC-------TTTT
+q loxAfr1.scaffold_4233 449997597565599555867---------------------99-32852----47858795966-74-673766576766579334566-66-75787663342635567653445137465667697666696798669686-899787589697-------7999
+i loxAfr1.scaffold_4233 I 2 C 0
+s echTel1.scaffold_324002 49668 118 + 49972 GACTAAGTAGTAATGCCCTGC---------------------AT-TCCAG----CCCT---TTAT-TC-CGTGTCATTG----GGAGCAC-CT-CAAGACCAAGGGTTTCCCC-----TCTCCTTGGCAGTGTGTTAATGAATG-TTTTGTTGAACC-------CTTT
+q echTel1.scaffold_324002 999999999999999999999---------------------99-99999----9999---9999-99-9999999989----9999999-99-9999999999999999999-----99999978999989889999889999-999999999999-------9999
+i echTel1.scaffold_324002 I 2 C 0
+s dasNov1.scaffold_16647 35238 107 - 51472 ----AGTAAATAATGCTTTGC---------------------AT-TCCAG----CCCT---TTTT-TC-CATGTCATCA--ATAGCATAC-CT-CATGACCGC---------------TTTTTTTGGCAGCGTGTTAATGAACGTTTTTGTTGAGCC-------CTTT
+q dasNov1.scaffold_16647 ----99999999999999999---------------------99-99999----9999---9999-99-9999999999--999999999-99-999999999---------------999999999999999999999999999999999999999-------9999
+i dasNov1.scaffold_16647 C 0 C 0
+s monDom4.chr2 106248383 116 - 541556283 GCTAGGTAAATAATGCTTTGC---------------------AT-TCCAAGTCTTCTT---TTAT-TT-ATTGTCCTCA--ATAACATGCTCT-CAAGAGGAAT--------------TTTTTTTGGCACCATGTTAACGAATG-TTTTGTTAAAAC-------ATTT
+q monDom4.chr2 999999999999999999999---------------------99-9999999999999---9999-99-9999999999--999999999999-9999999999--------------99999999999999999999999999-999999999999-------9999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14895298 105 - 54797317 -CTAGGTAAATAATGCTTTGC---------------------AT-TCCAT----TCCT---TTCC-TT----GTCATTA--GTAGCATTC-TT-TAAGAGTA----------------GTTTTTTGGCAGTGTCTTAATGAATG-TTCTGTTGAGGT-------CCTT
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61579742 99 - 113657789 GCTTTGTAAATAATGCTTTGT----------------------T-TGCAG----TCCT-----GA-TG-TATGTCATCA--GTAGTGTAT-TTATAAAAATAGT--------------TTTTCTTGAC----TTTTAA-----A-ATCTACTTAAC--------TATT
+i galGal3.chr3 C 0 C 0
+s xenTro2.scaffold_184 369550 92 + 2020054 ------------GTGTTTTAC---------------------CTATCCGG----TTGT---TCAT-TC-A--GTCATAA--ATAGTAAAC-TT-C---ATTA----------------ATTACCCTACACAAGAGTCATTAATA-TATTGTTAAACA-------TTT-
+i xenTro2.scaffold_184 C 0 n 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+
+a score=561528.000000
+s mm9.chr10 3202133 44 + 129993255 TCGTCTTTTAAGGGCT-GAAGTATGTGA-TTTAAT-CTCACTAGTGC
+s rn4.chr1 230018559 45 - 267910886 TCATCTTGTAAGGACT-AAAGTATGTGATTTTAAT-CTCACTGGTGC
+q rn4.chr1 9999999999999999-999999999999999999-99999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 7355 44 + 10554 TCATCTACCACAGACT-GAAATATCTGA-TTTAAT-CTTAGTGTtgc
+q cavPor2.scaffold_265563 9969999896699993-59957596569-683724-55632443232
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 105131 44 - 139458 TCATCTATCAAGGACT-AAAATATCTGA-TTTAAT-CTCAGTGGTGC
+q oryCun1.scaffold_214769 6546555555365555-68933365465-596646-66565364365
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108511851 44 + 167655696 TCATCTATCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+q rheMac2.chr4 9999999999999999-99999999999-999999-99999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16626890 44 - 173908612 TCTTCTATCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+q panTro2.chr6 9999999999999999-99999999999-999999-99999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80246 44 - 523245 TCATCTATCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16416063 44 - 174210431 TCATCTATCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 714 44 - 136255 TCATCTCTCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+q otoGar1.scaffold_85251.1-136255 9999999999999999-99999999999-999999-99999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402180 44 - 498454 TCATCTATCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTAC
+q tupBel1.scaffold_114895.1-498454 6547856864485665-75985558475-385466-75555477456
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16103128 44 - 170899992 TCATCTATCAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+i hg18.chr6 C 0 C 0
+s sorAra1.scaffold_256646 113980 44 - 121936 tcatctcttaaGGATT-GGAATATCTGA-TTTAAT-CGCGGTGGTGC
+q sorAra1.scaffold_256646 9999999999999999-99999999999-999999-99999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13059164 44 + 24938454 TCCTCTATTAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+q equCab1.chr31 9999999999999999-99999999999-999999-99999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78267651 44 - 125616256 TCATTTATTAAGGACT-GAGATATCTGA-TTTAAT-CTCAGTGGTGC
+q canFam2.chr1 9999999999999999-99999999999-999999-99999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 133765 44 - 219823 TCATTTATTAAGGACT-AAAATATCTGA-TTTAAT-CTCAGTGTTGC
+q felCat3.scaffold_217398 9999999999999999-99999999999-999999-99999999999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13737375 44 - 95030419 TCATCCGTTAAGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGTGC
+q bosTau3.chr9 9999999999999999-99999999999-999999-99999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 74369 44 + 124190 TCATCTATTATGGACT-GAAATATCTGA-TTTAAT-CTCAGTGGCAC
+q loxAfr1.scaffold_4233 8979896999599794-79999697679-997979-59998693699
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 49786 40 + 49972 TCAATCA----GGACC-AAAAGATTTGA-TTTAAT-CTTGGCCTTGC
+q echTel1.scaffold_324002 9999999----99999-99999999999-999999-99999999999
+i echTel1.scaffold_324002 C 0 C 0
+s dasNov1.scaffold_16647 35345 44 - 51472 TCATCTCTTAAGGGCT-GCAATATCCGA-TTTAAT-CTCAGGGGTGC
+q dasNov1.scaffold_16647 9999999999999999-99999999999-999999-99999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s monDom4.chr2 106248499 40 - 541556283 TCCACTTCCACGGTAT-----TATTGAC-TTTAAT-CTAGACATTGC
+q monDom4.chr2 9999999999999999-----9999999-999999-99999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14895403 45 - 54797317 TCACATATGAAGTATTTGCAATATCTGA-CTTGAT-CTGGATGGTGC
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61579841 45 - 113657789 TGTTGTCGAAAGCAGA-GAAATAGCTGA-ATCAGCATTCAGCAGTGC
+i galGal3.chr3 C 0 I 282
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+
+a score=743027.000000
+s mm9.chr10 3202177 56 + 129993255 TTAAAATAAAC-TTTTGTAGCTGAGTTTACCCAAGGCC-TTATTTG-AAAGCTATTCTT
+s rn4.chr1 230018604 56 - 267910886 TTAAAATAAAC-TTTTGTGGCTGAGTTTGCCCAAGGTC-TTATTTG-AAAGTTGTTCTT
+q rn4.chr1 99999999999-99999999999999999999999999-9999999-999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 7399 39 + 10554 ttaaaataaactttttgtgACTAAGTTTACTCAAGCCC-T-------------------
+q cavPor2.scaffold_265563 45566325833255643224233335743334234242-2-------------------
+i cavPor2.scaffold_265563 C 0 M 1945
+s oryCun1.scaffold_214769 105175 56 - 139458 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAGGCCC-TTATTTG-AAAGCTGTTCTC
+q oryCun1.scaffold_214769 63799676965-69966367746667966567564996-9778956-896763677697
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108511895 56 + 167655696 TTAAAATAAAC-GTTTGTGGCTGAGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+q rheMac2.chr4 99999999999-99999999999999999999999999-9999999-999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16626934 56 - 173908612 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+q panTro2.chr6 99999999999-99999999999999999999999999-9999999-999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80290 56 - 523245 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16416107 56 - 174210431 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 758 56 - 136255 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAAGCTC-TTATTTG-AAAGCTATTCTT
+q otoGar1.scaffold_85251.1-136255 99977999999-99999699999999999999799999-9999999-999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402224 56 - 498454 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+q tupBel1.scaffold_114895.1-498454 47589756864-47757377565646855555255355-3255865-495442334515
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16103172 56 - 170899992 TTAAAATAAAC-TTTTGTGGCTGAGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+i hg18.chr6 C 0 C 0
+s sorAra1.scaffold_256646 114024 57 - 121936 CTAAAATAAAC-GTTGGTGGTGGAGTTTACTCAAGCCC-TTATTTGAAAAACTATTCTT
+q sorAra1.scaffold_256646 99999999999-99999999999999999999999999-99999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13059208 56 + 24938454 TTAAAATAAAC-TTTTGTGGCTAAGTTTACTCAAGCTC-TTATTTG-AAAGCTGTTCTT
+q equCab1.chr31 99999999999-99999999999999999999999999-9999999-999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78267695 56 - 125616256 TTAAAATAAAC-TTTTGTGGCTACGTTTACTCAAGCCC-TTATTTG-AAAGCTATTCTT
+q canFam2.chr1 99999999999-99999999999999999999999999-9999999-999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 133809 56 - 219823 TTAAAATAAAC-TTCTGTGGCTACATTTACTCAAGCCT-TTATTTG-AAAGCTATTCTT
+q felCat3.scaffold_217398 99999999999-99999999999999999999997999-9999999-999999999973
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13737419 55 - 95030419 TTAAAATAAAC-TT-TGTGGCTAAGTTTACTCAAACCC-TTATTTG-AAAGCTATTCTT
+q bosTau3.chr9 99999999999-99-99999999999999999999999-9999999-999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 74413 56 + 124190 TTAAAATAAAC-TTTTGTGGCTAAGTTTACCCACGCTT-TTATGTG-AAAGCTATTCTT
+q loxAfr1.scaffold_4233 98999799967-99979799999998966999999999-9996969-999899889996
+i loxAfr1.scaffold_4233 C 0 C 0
+s echTel1.scaffold_324002 49826 56 + 49972 TTCAAAGACAC-TTTGGTGGCTAAGTTTACCCCAGCCC-TTATTGG-AAAGCTATTCTT
+q echTel1.scaffold_324002 99999999999-99999999999999999999999999-9998699-999899999999
+i echTel1.scaffold_324002 C 0 N 0
+s dasNov1.scaffold_16647 35389 56 - 51472 TTAAAATAAAC-TTTTGTGGCTCAGTTGACCCACGGCC-TTGTTTG-AAAGCTATTCTT
+q dasNov1.scaffold_16647 99999999999-99999999999999999999999999-9999999-999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s monDom4.chr2 106248539 57 - 541556283 TTAAAATTACC-TGGTATGGCTTAGTTTTCCAATGTCCATTATTTG-GAAGATATTCTT
+q monDom4.chr2 99999999999-9999999999999999999999999999999999-999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14895448 56 - 54797317 TTAAAATAAAC-TTCTGTGGTTCACCCTCCGGAGTTCA-TTATTTC-AAAGAGACAAAT
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+
+a score=263296.000000
+s mm9.chr10 3202233 49 + 129993255 AT--AGACAGGCCTTGAGC-TAAAGGACTCC---CGGCTTGTTGGCCCACAGC---------------T-G
+s rn4.chr1 230018660 46 - 267910886 AT--AGACAGGACTTGAGC-T-AAGGACTGC---TGGCTTGCTGGCCCAAAGC------------------
+q rn4.chr1 99--999999999999999-9-999999999---9999999999999999999------------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105231 45 - 139458 AT--GGGCAGGCCCAGAGC-T----AGCGCT---TTGCTGGTTGGCTCACTGC---------------T-G
+q oryCun1.scaffold_214769 75--996767699979787-6----677779---9579588947679999779---------------4-7
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108511951 48 + 167655696 GT--AGGCAGGTCCAGAGC-T-AAAGACTGC---CAGCTTGTCGGCCCACTGC---------------T-A
+q rheMac2.chr4 99--999999999999999-9-999999999---9999999999999999999---------------9-9
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16626990 48 - 173908612 AT--AGGCAGGCCCAGAGC-T-AAAGACTGC---CAGCTTGTTGGCCCACTGC---------------T-G
+q panTro2.chr6 99--999999999999999-9-999999999---9999999999999999999---------------9-9
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80346 48 - 523245 CT--AGGCAGGCCCAGAGC-T-AAAGACTGC---CAGCTTGTCGGTTCACTGC---------------T-A
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16416163 48 - 174210431 AT--AGGCAGGCCCAGAGC-T-AAAGACTGC---CAGCTTGTTGGCCCACTGC---------------T-G
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 814 48 - 136255 CT--AGGCAGACCCAGAGC-T-AAGGGCTGC---TGGCTTGTTGGCCCACTGC---------------T-A
+q otoGar1.scaffold_85251.1-136255 99--999999999999999-9-999999999---9999999999999999999---------------9-9
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402280 48 - 498454 AT--AGGCAGG-CCAACGC-T-GAAGATGAC---TGGCATGCTGGCCCACTGC---------------TAG
+q tupBel1.scaffold_114895.1-498454 43--4454365-1523546-5-544354665---5454556474367534565---------------564
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16103228 48 - 170899992 AT--AGGCAGGCCCAGAGC-T-AAAGACTGC---CAGCTTGTTGGCCCACTGC---------------T-G
+i hg18.chr6 C 0 C 0
+s sorAra1.scaffold_256646 114081 58 - 121936 CC--AGG-AGGCCCAGAGC-T-AAGGAGTCT---TGGCttactgg----gggctggggtggaggcgggt-g
+q sorAra1.scaffold_256646 99--999-99999999999-9-999999999---99999999999----99999999999999999999-9
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13059264 48 + 24938454 AT--AGGCAGCCCCAGAGC-A-AAAGACTCC---TGTCTTGTTGGCACCATGC---------------T-A
+q equCab1.chr31 99--999999999999999-9-999999999---9999999999999999999---------------9-9
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78267751 49 - 125616256 AC--AAGCAGGCCCAGAGCTA-AAAGATTCC---TGGCTTGTTGGCCAAGTGC---------------T-A
+q canFam2.chr1 99--99999999999999999-999999999---9999999999999999999---------------9-9
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 133865 51 - 219823 ATAGAAACAGGCCCAGAGCTA-AAAGATTCC---TGACTTGTTGGCCAAGTGC---------------T-G
+q felCat3.scaffold_217398 439799997698998795966-978499988---9998535498969513294---------------8-9
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13737474 48 - 95030419 AT--GGGCAGGCCCAGAAC-T-AAAGGCTCC---CGGCTTGTTGGCTCAGTGC---------------T-A
+q bosTau3.chr9 99--999999999999999-9-999999999---9999999999999999999---------------9-9
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 35445 48 - 51472 AC--AGGCGGGCACGAAGC-T-CAAGGCTCC---TGGCATCTTGGCCCGCCGC---------------T-G
+q dasNov1.scaffold_16647 99--999999999999999-9-999999999---9999999999999999999---------------9-9
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_4233 74469 48 + 124190 AT--AAGCAAGCCCACACC-T-AAAGACCTA---TGGCTTGTTGGCCCGCGGC---------------T-G
+q loxAfr1.scaffold_4233 99--997999979999999-9-999999999---7999999999999999999---------------9-9
+i loxAfr1.scaffold_4233 C 0 C 0
+s monDom4.chr2 106248596 51 - 541556283 AG--AGGCAAGCACAGAGC-T-TGAAACTTCTTGTGGCTTGTTAATACCCTGA---------------C-T
+q monDom4.chr2 99--999999999999999-9-9999999999999999999999999999999---------------9-9
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14895504 44 - 54797317 AT--CAGAAAGTTCAGAAC-T-GAAAGCTTC---TGG-TTGCCAGGCAGCTG-------------------
+i ornAna1.chr2 C 0 I 2204
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+
+a score=109479.000000
+s mm9.chr10 3202282 48 + 129993255 --------GCTG-----AGCCTG----GGGTCACGT-T-G-----------GGAACCAGAGACAGGATTTTTGTATTT
+s rn4.chr1 230018706 43 - 267910886 -----------------AGACTG----GGATCACA--C-G-----------GGAGCCATAGGCAGGATTCTTGTATTT
+q rn4.chr1 -----------------999999----99999999--9-9-----------999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105276 48 - 139458 --------GCTG-----AGCCTA----GGGTCACAT-T-G-----------GGAGCCATTGTCAGGTTTCTTGGACTT
+q oryCun1.scaffold_214769 --------7848-----769967----996997999-6-9-----------999899997999698999996999993
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108511999 48 + 167655696 --------TCTG-----TTCCTG----GGGGCACAC-T-G-----------GGAGCCATCGTCAGGTTTCTTGACTTG
+q rheMac2.chr4 --------9999-----999999----999999999-9-9-----------999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16627038 48 - 173908612 --------TCTG-----TTCCTG----GGGGCACAT-T-G-----------GGAGCCGTCATCAGGTTTCTTGACTTG
+q panTro2.chr6 --------9999-----999999----999999999-9-9-----------999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80394 48 - 523245 --------TCTG-----TTCCTG----GGGGCACAC-T-G-----------GGAGCCATTGCCAGTTTTCTTGACTTA
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16416211 48 - 174210431 --------TCTG-----TTCCTG----GGGGCACAT-T-G-----------GGAGCCATCGTCAGGTTTCTTGACTTG
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 862 47 - 136255 --------GTTG-----AGCCTG----GGGTCCCCA-T-------------GGAGCCCTTGTCAGGCTTCttttcttt
+q otoGar1.scaffold_85251.1-136255 --------9999-----999999----999999999-9-------------999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 I 2161
+s tupBel1.scaffold_114895.1-498454 402328 48 - 498454 --------CCTG-----AGCGTG----GGGTCACGC-T-G-----------GGAGCTGTTGTTAGGACTTTTGACTTG
+q tupBel1.scaffold_114895.1-498454 --------4156-----523124----874352432-2-5-----------724654423436353344741323215
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16103276 48 - 170899992 --------TCTG-----TTCCTG----GGGGCACAT-T-G-----------GGAGCCGTCGTCAGGTTTCTTGACTTG
+i hg18.chr6 C 0 C 0
+s sorAra1.scaffold_256646 114139 50 - 121936 --------gctg-----tgctgg----gggtcacCTTTGG-----------GGAACGATAGGCAGGTGGCTGGCATTG
+q sorAra1.scaffold_256646 --------9999-----999999----9999999999999-----------999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s equCab1.chr31 13059312 44 + 24938454 --------GCCA-----TGCAC---------CACGTTT-G-----------GCAGCCATTGTCAGGTTTCTTGGACTT
+q equCab1.chr31 --------9990-----09900---------9999999-9-----------999999999999999999999999999
+i equCab1.chr31 C 0 I 1
+s canFam2.chr1 78267800 49 - 125616256 --------GTTG-----AGCACG----GGGTCACATTT-G-----------GGAGCCATTGTCCAGTTTCTTGGACTT
+q canFam2.chr1 --------9999-----999999----99999999999-9-----------999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 133916 33 - 219823 --------GCTG-----AGCACG----GGGTCAC---T-G-----------GTCACATTTGCACA-------------
+q felCat3.scaffold_217398 --------8999-----725459----9999969---9-9-----------99999999999999-------------
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13737522 49 - 95030419 --------ACTC-----AGCCTG----GGGTCAGGTTT-G-----------AGAACCATCATCAACTTTCCTGGACTC
+q bosTau3.chr9 --------9999-----999999----99999999999-9-----------999999999999999999999999999
+i bosTau3.chr9 C 0 I 1
+s dasNov1.scaffold_16647 35493 49 - 51472 --------GCTG-----GGCGGG----GGCTCCCCTGG-G-----------GGGGCCATTGTCCCGTTTCTCGTCCTT
+q dasNov1.scaffold_16647 --------9999-----999999----99999999999-9-----------999999999999999999999999999
+i dasNov1.scaffold_16647 C 0 I 1
+s loxAfr1.scaffold_4233 74517 61 + 124190 CTGCTGCTGCTG----CGGCTGATTCTGGGTCACGTTT-G-----------GGAGCCACCGTCAGGTTTCTGGATCT-
+q loxAfr1.scaffold_4233 999999799999----9999998999999999999998-9-----------99999999999999999997996999-
+i loxAfr1.scaffold_4233 C 0 I 19856
+s monDom4.chr2 106248647 59 - 541556283 --------ACAAAAAGAAACTTT----GGGTCACCCAT-GACTTTTTGACCAGAGATGCTATGTTGATTCTT------
+q monDom4.chr2 --------999999999999999----99999999999-999999999999999999999999999999999------
+i monDom4.chr2 C 0 I 849
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+
+a score=23207.000000
+s mm9.chr10 3202330 15 + 129993255 GCC-------ATTTTTCACTCT-
+s rn4.chr1 230018749 15 - 267910886 GCC-------ATTTTTTACTCT-
+q rn4.chr1 999-------999999999999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105324 21 - 139458 GGCC-TTCTGATTTACTGATCT-
+q oryCun1.scaffold_214769 9599-99879899999997989-
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108512047 20 + 167655696 GAT--TTCTGACTTACTACTCT-
+q rheMac2.chr4 999--99999999999999999-
+i rheMac2.chr4 C 0 I 4
+s panTro2.chr6 16627086 20 - 173908612 GAC--TTCTGACTTACTACTCT-
+q panTro2.chr6 999--99999999999999999-
+i panTro2.chr6 C 0 I 4
+s calJac1.Contig1260 80442 16 - 523245 GAC--TTCT----TACTACTCT-
+i calJac1.Contig1260 C 0 I 262
+s ponAbe2.chr6 16416259 20 - 174210431 GAC--TTCTGACCTACTACTCT-
+i ponAbe2.chr6 C 0 I 4
+s tupBel1.scaffold_114895.1-498454 402376 15 - 498454 GAC--TTCTGATTAACT------
+q tupBel1.scaffold_114895.1-498454 324--633351463234------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16103324 20 - 170899992 GAC--TTCTGACTTACTACTCT-
+i hg18.chr6 C 0 I 4
+s sorAra1.scaffold_256646 114189 14 - 121936 --------TGGTCAGCTGCCCT-
+q sorAra1.scaffold_256646 --------99999999999999-
+i sorAra1.scaffold_256646 C 0 I 4
+s equCab1.chr31 13059357 20 + 24938454 GAC--TTCTGACTTACTATTCT-
+q equCab1.chr31 999--99999999999999999-
+i equCab1.chr31 I 1 I 4
+s canFam2.chr1 78267849 20 - 125616256 GAT--TTCTGGCTTACTACTCT-
+q canFam2.chr1 999--99999999999999999-
+i canFam2.chr1 C 0 I 4
+s felCat3.scaffold_217398 133949 2 - 219823 --------------------CT-
+q felCat3.scaffold_217398 --------------------99-
+i felCat3.scaffold_217398 C 0 I 4
+s bosTau3.chr9 13737572 20 - 95030419 GAC--TTCTGGCTTCCTACTCT-
+q bosTau3.chr9 999--99999999999999999-
+i bosTau3.chr9 I 1 I 4
+s dasNov1.scaffold_16647 35543 20 - 51472 ---GACTCTGACTTTCTCCCTCT
+q dasNov1.scaffold_16647 ---99999999999999999999
+i dasNov1.scaffold_16647 I 1 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=100348.000000
+s mm9.chr10 3202345 45 + 129993255 ----ACAGAC----TGGCCAGTAGGTAGATTTCAAGTCTCTGGttttgtgtgg
+s rn4.chr1 230018764 45 - 267910886 ----ACAGAC----TGGCCAATAGGTAGATTTCAAGTCTGTGGTTTTGTTTGG
+q rn4.chr1 ----999999----999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105345 44 - 139458 ----CTGGACCTTGTGGACAGTGGGTGGACTTCAATTCTTGAACTTTA-----
+q oryCun1.scaffold_214769 ----97987999696999999699979999999999999899999999-----
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16103348 30 - 170899992 ----ACAGTC----TGGAGAGTAGGTGGATTTCAGTTC---------------
+i hg18.chr6 I 4 I 10
+s panTro2.chr6 16627110 30 - 173908612 ----ACAGTC----TGGAGAGTAGGTGGATTTCAGTTC---------------
+q panTro2.chr6 ----999999----999999999999999999999999---------------
+i panTro2.chr6 I 4 I 10
+s ponAbe2.chr6 16416283 40 - 174210431 ----ACAGTC----TGGAGAGTAGGTGGATTTCAGTTCAATTATTTTT-----
+i ponAbe2.chr6 I 4 C 0
+s rheMac2.chr4 108512071 26 + 167655696 ----ACAGTC----TGGAGAGTAGGTGGATTTCA-------------------
+q rheMac2.chr4 ----999999----99999999999999999999-------------------
+i rheMac2.chr4 I 4 C 0
+s tupBel1.scaffold_114895.1-498454 402391 40 - 498454 ----ACTTTC----TGGACAGAAGGTAGATTTCAGTTCAATGATATTG-----
+q tupBel1.scaffold_114895.1-498454 ----255854----3462535383353436935434654556454653-----
+i tupBel1.scaffold_114895.1-498454 C 0 I 229
+s sorAra1.scaffold_256646 114207 39 - 121936 ----ACAGTC----AGGATTGTGGGTAGATTTCAGTTCACGGATTTC------
+q sorAra1.scaffold_256646 ----999999----999999999999999999999999999999999------
+i sorAra1.scaffold_256646 I 4 I 169
+s equCab1.chr31 13059381 39 + 24938454 ----ACAGTC----TGGACAGTAGGTATATTTCAGTTCAATGATTTT------
+q equCab1.chr31 ----999999----999999999999999999999999999999999------
+i equCab1.chr31 I 4 I 1
+s canFam2.chr1 78267873 26 - 125616256 ----CCAGTC----TAGATGGTTGGTGGATTCCA-------------------
+q canFam2.chr1 ----999999----99999999999999999999-------------------
+i canFam2.chr1 I 4 C 0
+s felCat3.scaffold_217398 133955 39 - 219823 ----ACGGTA----TAGATGGTGGGTGGATTTCAGTTCAATGATTTT------
+q felCat3.scaffold_217398 ----899999----998999999999999999999999999999999------
+i felCat3.scaffold_217398 I 4 I 2
+s bosTau3.chr9 13737596 30 - 95030419 ----ACAGTC----TGGACAGTGGGTAGAGTTTAGTTC---------------
+q bosTau3.chr9 ----999999----999999999999999999999999---------------
+i bosTau3.chr9 I 4 I 12
+s dasNov1.scaffold_16647 35563 43 - 51472 CTGGATGGTT----TGCACAGAAGGTGGATTGCAGTTCCGTGATTTT------
+q dasNov1.scaffold_16647 9999999999----999999999899999899999999999998999------
+i dasNov1.scaffold_16647 C 0 I 2
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=-17523.000000
+s mm9.chr10 3202390 101 + 129993255 tgacaagactagaccccgggcctcgccttgtgcacaccaggcaagcacttcacccctgaggtgcatgttcctagAGTCAGTGTGTAGTGTTTGGTGTATAA
+s rn4.chr1 230018809 76 - 267910886 TGACAGGACTAGA----------------------ACCAGGCCAGGACTTCA--CCTGAGGTGTATGTTCCTAGAGTCGGTTTGTAG-ATTTTGTTTATAA
+q rn4.chr1 9999999999999----------------------99999999999999999--999999999999999999999999999999999-9999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105389 16 - 139458 -------------------------------------CAGGC-----TTTCA------------------------------------AAT-------TAA
+q oryCun1.scaffold_214769 -------------------------------------99999-----99999------------------------------------999-------999
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108512097 14 + 167655696 --------------------------------------GTGCAATGATTTTT-------------------------------------------------
+q rheMac2.chr4 --------------------------------------99999999999999-------------------------------------------------
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78267899 14 - 125616256 --------------------------------------GTTCAGTTCTTTTC-------------------------------------------------
+q canFam2.chr1 --------------------------------------99999999999999-------------------------------------------------
+i canFam2.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737626 12 - 95030419 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e equCab1.chr31 13059420 1 + 24938454 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_16647 35606 2 - 51472 I
+e felCat3.scaffold_217398 133994 2 - 219823 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16103378 10 - 170899992 I
+e panTro2.chr6 16627140 10 - 173908612 I
+e ponAbe2.chr6 16416323 0 - 174210431 C
+
+a score=230798.000000
+s mm9.chr10 3202491 104 + 129993255 GTAGGTGTTCACATTAGAGAATCAGTTCGATGGATCC-TGG--GGTGAG---CTCCATCAGTTAGAAGACACCAGAGCCTTAGGAGAAGAGAAATGTCGGCTCCACTTTC
+s canFam2.chr1 78267913 98 - 125616256 ATAGGTTTTCTGATTAAGTAATCGGTCAAATGCATTCCCTG--GATGATAAGCTCCTTCAGTCAGGAGAGAGTAGGACCTTAGGAGGAGGTGGATGTC----------CC
+q canFam2.chr1 99999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999----------99
+i canFam2.chr1 C 0 I 2
+s equCab1.chr31 13059421 106 + 24938454 GTAGGTTTTCTGATTAAATAATCAGTCAAATGGGTTCTTTG--GGTGATAACCTCCTTGGGCGAGGATTGAACAGAGCCTTAGAAGTCACTGAATGTCAGCCCC--ATTC
+q equCab1.chr31 99999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999--9999
+i equCab1.chr31 I 1 I 2
+s rheMac2.chr4 108512111 107 + 167655696 GTAAGTTTTCAAATTAAGTAATTGGCCAAATGGGTTCCTTG--GATGAGAA-CTCCTTGGGTCAGGGGAGAGCGGGACCTTCGGAAGGTGAGAATGTCAGCTCTGTTCTC
+q rheMac2.chr4 99999999999999999999999999999999999999999--99999999-9999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16416323 107 - 174210431 GTAAGTTTTCAAATTAAGTAATTGGCCAAATGGGTTCCTTG--GATGAGAA-CTCCTTAGGTCAGAGGAGAGCGGGACCTTCGGAAGGTGCAAACGTCAGCTCTGTTCCC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16627150 107 - 173908612 GTAAGTTTTCAAATTAAGTAATTGGCCAAGTGGGTTCCTTG--GATGAGAA-CTCCTTAGGTCAGGGGAGAGCAGGACCTTCGGAAGGTGCAAATGTCAGCTCTGTTCCC
+q panTro2.chr6 99999999999999999999999999999999999999999--99999999-9999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 10 C 0
+s hg18.chr6 16103388 107 - 170899992 GTAAGTTTTCAAATTAAGTAATTGGCCAAGTGGGTTCCTTG--GATGAGAA-CTCCTTAGGTCAGGGGAGAGCAGGACCTTCGGAAGGTGCAAACGTCAGCTCTGTTCCC
+i hg18.chr6 I 10 C 0
+s oryCun1.scaffold_214769 105405 94 - 139458 ATAATTGGTCAAATTTATGGAT------------TCCTTGGATGATAAG---CTTCTTGGGTCAGCAGAGAGCGGGGCCTTAGGACAAGATAAATGTCAGC-CCATCCTC
+q oryCun1.scaffold_214769 9999999999999999999999------------999999999999999---9999999999999999999999999999999999999999999999999-99999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230018885 99 - 267910886 GTGGGTGTTCACAATCGAGAATCCGTACCACAGATCCTTGG--GATAAG---CTCCATTGGT-----GACACCAGAGCCTCA-GAGAAGAGAAATGTCAGCTCCACATTT
+q rn4.chr1 99999999999999999999999999999999999999999--999999---9999999999-----999999999999999-999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s dasNov1.scaffold_16647 35608 95 - 51472 -TGGGTTTGCAAGCTAAATAATCTGTCCAAGGGGTTCCTTG--GAGAATAAGCTCCTTGGGTCAGGGGAGAGCAGAGCCTTAGGAGGGGACAGATATC------------
+q dasNov1.scaffold_16647 -9999999999999999999999999997999999999999--9989979999999999999997999989998997998999998998967998899------------
+i dasNov1.scaffold_16647 I 2 C 0
+s felCat3.scaffold_217398 133996 101 - 219823 -TAGGTTTTCTGATGAAATAATCGGTCAGATGGGTTCCTTG--GATGATAAGCTTCTTTGGTCAGGAGAGAGCAGAGCCTGAGAAGGTGTTGGGTGCCTGCTCC------
+q felCat3.scaffold_217398 -9999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999------
+i felCat3.scaffold_217398 I 2 I 77
+s bosTau3.chr9 13737638 107 - 95030419 -TAGGCTTTCTGATTAAATAATTGGTCAGATGGGTTCCTTG--GATGATTAGCATCCTGGATCTGGAGACAGTAGAGTCTTAGGAGGAATCTAATGTCTGCCCTCTTTTC
+q bosTau3.chr9 -9999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 12 I 127
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=4644.000000
+s mm9.chr10 3202595 68 + 129993255 ------------ACTCTGAGCCCACGTCTATAT------------CCACGCCTGCCAGGACTGCTCAGGCTCAGTACTTGGT-GTGGCAAGAG--------
+s rn4.chr1 230018984 69 - 267910886 ------------ACTCAGAGCTCACTTCTATAT------------CCATGTCTACCAGGACTGCTCAGGGTCAGCGCTTGGTGGTGGCAAGAT--------
+q rn4.chr1 ------------999999999999999999999------------999999999999999999999999999999999999999999999999--------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105499 27 - 139458 ------------TCTCTG------------------------------------------CTGCCCAGGCT------------GAGGAGATGG--------
+q oryCun1.scaffold_214769 ------------999999------------------------------------------99999999999------------9999999999--------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16103495 54 - 170899992 ------------ACTCTGCCCTCTCATTCCCAT------------CCCAGTCCTGCAGGACTGTGCAGGCT------------GACG---GGT--------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16627257 54 - 173908612 ------------ACTCTGCCCTCTCATTCCCAT------------CCCAGTCCTGCAGGACTGTGCAGGCT------------GACG---GGT--------
+q panTro2.chr6 ------------999999999999999999999------------99999999999999999999999999------------9999---999--------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16416430 54 - 174210431 ------------ACTCTGCCCTCTCATTCCCAT------------CCCAGTCCCACAGGACTGTGCAGGCT------------GAGG---GAT--------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512218 54 + 167655696 ------------ACTGTGCCCTCCCTTTCCCAT------------CCCAGTCCCGCAGGACTGTGCAGGCT------------AAGG---GCT--------
+q rheMac2.chr4 ------------999999999999999999999------------99999999999999999999999999------------9999---999--------
+i rheMac2.chr4 C 0 C 0
+s canFam2.chr1 78268013 52 - 125616256 ------------TCTGTGCCATCTGCACCCAGT---------------------GCTGGACTCCTTGAGCT----GCAGGGT-GAGG---GAC--------
+q canFam2.chr1 ------------999999999999999999999---------------------99999999999999999----9999999-9999---999--------
+i canFam2.chr1 I 2 C 0
+s equCab1.chr31 13059529 73 + 24938454 ------------GCTCTTCCCTCTCTCTCCAGTCGAGTCTCTCCTCCCGACCACGCATGCCTGCTCAGGCT----ACAGGGT-AGGG---TGC--------
+q equCab1.chr31 ------------99999999999999999999999999999999999999999999999999999999999----9999999-9999---999--------
+i equCab1.chr31 I 2 C 0
+s dasNov1.scaffold_16647 35703 63 - 51472 AGCAGGTGTCTACTTCTGTCCCC----TCCCAT------------C--------------CTGCTCATGCT----GCAGGGT-GGGG---AGTGGGAAAAG
+q dasNov1.scaffold_16647 87979999997999997989999----999869------------9--------------97999669977----9665999-9999---99999899997
+i dasNov1.scaffold_16647 C 0 I 2382
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737745 127 - 95030419 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e felCat3.scaffold_217398 134097 77 - 219823 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=859.000000
+s mm9.chr10 3202663 47 + 129993255 ATGTCAGGAACC-TTGTGAT---TTCTAGAA---------AGATCGGACCCAATTTTT-CT
+s rn4.chr1 230019053 37 - 267910886 ATGTCGGGAGCC-TTTAG----------GAA---------AGATTGAACCCAA---TT-CT
+q rn4.chr1 999999999999-99999----------999---------9999999999999---99-99
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105526 27 - 139458 GAGTCAGAGGCC-TTGTGGG---CTCCAGGA------------------------------
+q oryCun1.scaffold_214769 999999999999-9999999---99999999------------------------------
+i oryCun1.scaffold_214769 C 0 I 63
+s hg18.chr6 16103549 57 - 170899992 GTGTCAGGGACCGTCTTGAG---CTGCAGAAAATGTCTAGAAAGCTAGGCCAACAGTT-CT
+i hg18.chr6 C 0 I 1
+s panTro2.chr6 16627311 57 - 173908612 GTGTCAGGGACCATCTTGAG---CTGCAGAAAATATCTAGAAAGCTAGGCCAACAGTT-CT
+q panTro2.chr6 99999999999999999999---99999999999999999999999999999999999-99
+i panTro2.chr6 C 0 I 1
+s ponAbe2.chr6 16416484 40 - 174210431 GTGTCAGGGACCGTCTTGAG---CTGCAGAAGATGTCTAGAAA------------------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512272 57 + 167655696 GTGTCAGGGACCACCTTGAG---CTGCAGAAAATATCTAGAAAGCTAAGCCAACAGTT-CT
+q rheMac2.chr4 99999999999999999999---99999999999999999999999999999999999-99
+i rheMac2.chr4 C 0 I 1
+s canFam2.chr1 78268065 47 - 125616256 ACACCCGGGA-TGTCTTGGGTACCTCTAGAGC-------------TAAGTAACCAGTTTTT
+q canFam2.chr1 9999999999-999999999999999999999-------------9999999999999999
+i canFam2.chr1 C 0 I 7
+s equCab1.chr31 13059602 29 + 24938454 GTGTCAGGCACCATCTTGGG---CTCCAGGAA-----------------------------
+q equCab1.chr31 99999999999999999999---999999999-----------------------------
+i equCab1.chr31 C 0 I 11
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737745 127 - 95030419 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_16647 35766 2382 - 51472 I
+e felCat3.scaffold_217398 134097 77 - 219823 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=7861.000000
+s mm9.chr10 3202710 139 + 129993255 TCTTTCTCAAAAGATTTTATTTTTGTTTCTTAGCATTTTATACTCTGCTACTATATTTACATCATTTTATCCTCCCATCTGCCCAATACAAGCCTGCCCATATCTCCCCTACTATGCCTCAAATTAATGATCTTTCCTT
+s rn4.chr1 230019090 122 - 267910886 TCTTTCCTAAAAGATTTTA--TTTATTTCTTAGAATTTTATGCTCTACTACTATATTTACAACATTTTATCCCTCCAT---------------CTGCCCATGTCTCCCTTACTCTGTCTCAAATTAATGACCTCTTCTT
+q rn4.chr1 9999999999999999999--999999999999999999999999999999999999999999999999999999999---------------9999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 375
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737745 127 - 95030419 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e equCab1.chr31 13059631 11 + 24938454 I
+e rheMac2.chr4 108512329 1 + 167655696 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_16647 35766 2382 - 51472 I
+e felCat3.scaffold_217398 134097 77 - 219823 I
+e canFam2.chr1 78268112 7 - 125616256 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16103606 1 - 170899992 I
+e panTro2.chr6 16627368 1 - 173908612 I
+e ponAbe2.chr6 16416524 0 - 174210431 C
+e oryCun1.scaffold_214769 105553 63 - 139458 I
+
+a score=16800.000000
+s mm9.chr10 3202849 427 + 129993255 cacacacacacacacacacccatctatatatatatataca----------cacacatacacacacacccatctatctatacacaaatacac------acacattcatttgtacacacatccatctacatacatacacacacatataaacatatacacttatacacacccacacacacCCCACTGAACCCCTCTAGTCTGGCATGTAAGTATCTGCTTTCATGACTGACCTTCCCTGGAAGAAACAGGTCTtctctctctctctctctctctctctctctctctctctctctctctctctctctctctctccctcAGCAGCCACTGAttgcctgtagctcttctccttggggagttggggagggtgacgtttgtcctgtctgtgttgacttgtcagttagtgtgccgttatgtaggtcttgttcagacaacc [...]
+s rn4.chr1 230019587 368 - 267910886 cacacatatatatccacatctatctatacatacatacacaACCTTCTGTacatacacacacacatacccatctattcatacatatacatacccatctatacatgcacatacacacccatctatacacacacacacacacacacacacacacacacacacacacacacacacacacacTCTACTGAACCTTTTTAGTACTGCAGGTAATTACGTGCTTTCACTGCAGGCTTTCCGTGGAAGAAACAGGTATTCTctctc--------------------------------------------------------agcagccactgattgc---------------tgtagaagctggggagggtgaaatttctcctgtctgggttgtcttgtcaca----gtgccatcatataggtcttattcagacaacc [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------------------------------------------------9999999999999999---------------999999999999999999999999999999999999999999999999999----9999999999999999999999999999999 [...]
+i rn4.chr1 I 375 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e oryLat1.chr22 12879010 3727 - 28810691 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737745 127 - 95030419 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e equCab1.chr31 13059631 11 + 24938454 I
+e rheMac2.chr4 108512329 1 + 167655696 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_16647 35766 2382 - 51472 I
+e felCat3.scaffold_217398 134097 77 - 219823 I
+e canFam2.chr1 78268112 7 - 125616256 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16103606 1 - 170899992 I
+e panTro2.chr6 16627368 1 - 173908612 I
+e ponAbe2.chr6 16416524 0 - 174210431 C
+e oryCun1.scaffold_214769 105553 63 - 139458 I
+
+a score=4487.000000
+s mm9.chr10 3203276 163 + 129993255 ttcctgggggctgattccctgtc----atgtctagaaaacattatttaacagcagggatcctggtcc-----------------ctctttcctttctggatttttcccc-tgagcctaaggtgtgtaggttggtgttgtagatacatcagtagaggccaggcacctccctgtc------------gtgaccggttgt
+s rn4.chr1 230019955 189 - 267910886 ttcctgggggctgcttccctgtc----atgtctagaagacattatttagcatcaggaatcctggtccagtggctcttaacctctttctgtcacctcttggttttcccc---aagtctaaggtgtgtaggttg-tgtggtagatacaccagttgagactgggcacttccctttctctcttctgcatgtgaccagttgt
+q rn4.chr1 99999999999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryLat1.chr10 8615378 153 - 27595823 TTCCTGAAAACAGATTAGCCATCAGCTATGGTTAAACAACACTGCATCATATAGTGAACGATGATGC-----------------ATCTACAACTTCAGGATGATCTTCTACGATGCAAAGCGGCTCAGATCTTTGCTT----TGTATTTGCAGGCATTGGTCCTCATTCATTCT-----------------------
+q oryLat1.chr10 9999999999999999999999999999999999999999999999999999999999999999999-----------------999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999-----------------------
+i oryLat1.chr10 n 3727 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737745 127 - 95030419 I
+e monDom4.chr2 106248706 849 - 541556283 I
+e equCab1.chr31 13059631 11 + 24938454 I
+e rheMac2.chr4 108512329 1 + 167655696 I
+e sorAra1.scaffold_256646 114246 169 - 121936 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e dasNov1.scaffold_16647 35766 2382 - 51472 I
+e felCat3.scaffold_217398 134097 77 - 219823 I
+e canFam2.chr1 78268112 7 - 125616256 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e tupBel1.scaffold_114895.1-498454 402431 229 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16103606 1 - 170899992 I
+e panTro2.chr6 16627368 1 - 173908612 I
+e ponAbe2.chr6 16416524 0 - 174210431 C
+e oryCun1.scaffold_214769 105553 63 - 139458 I
+
+a score=5214.000000
+s mm9.chr10 3203439 61 + 129993255 gCTAAACCTAT--TTCTAAAAAGCTTTTTATTCTTACACTTATC---TTTCTTTT-TTTATTATGTA
+s rheMac2.chr4 108512330 34 + 167655696 -------------------AAGGTTTTTAACTCTTGTACTCAGT---GTTCATTT-T----------
+q rheMac2.chr4 -------------------9999999999999999999999999---99999999-9----------
+i rheMac2.chr4 I 1 C 0
+s hg18.chr6 16103607 34 - 170899992 -------------------AACGTTTTTAACTCTTGTACTTAGT---ATTCATTT-T----------
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16627369 34 - 173908612 -------------------AACGTTTTTAACTCTTGTACTTAGT---ATTCATTT-T----------
+q panTro2.chr6 -------------------9999999999999999999999999---99999999-9----------
+i panTro2.chr6 I 1 C 0
+s sorAra1.scaffold_256646 114415 33 - 121936 ---------------------AGGTGTTTGCTcttacatttcat---tttcatttgc----------
+q sorAra1.scaffold_256646 ---------------------99999999999999999999999---9999999999----------
+i sorAra1.scaffold_256646 I 169 I 11
+s monDom4.chr2 106249555 27 - 541556283 -----------------AAAAAGGTTTTATTTCTTATATTTAAC-----------------------
+q monDom4.chr2 -----------------999999999999999999999999999-----------------------
+i monDom4.chr2 I 849 I 15
+s rn4.chr1 230020144 61 - 267910886 gCTAAACCAAT--TCTGAAAAAGCTTTTCATTCTTATACTTACT---TTTCTTTC-TTTATTATCTA
+q rn4.chr1 99999999999--9999999999999999999999999999999---99999999-99999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16416524 52 - 174210431 GCTAAGCCAACAGTTCTGA-ATGTTTTTGACTCTTGTACTTAGT---GTTCATTT-T----------
+i ponAbe2.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402660 38 - 498454 -------------TTTTGGAAAGTTTTTAGCTTTTATACTTAAT---TTTTATT-------------
+q tupBel1.scaffold_114895.1-498454 -------------9999999999999999999999999999999---9999999-------------
+i tupBel1.scaffold_114895.1-498454 I 229 C 0
+s equCab1.chr31 13059642 49 + 24938454 GCTAAGCCGACAGTTTTTGAAAGTTCTTAGCTCTTACA----GT---TGTCATTT-T----------
+q equCab1.chr31 99999999999999999999999999999999999999----99---99999999-9----------
+i equCab1.chr31 I 11 I 6
+s dasNov1.scaffold_13068 26434 53 + 27231 GCCAAGCCAACTGCTTTTGAAAGATTTTAGCTCTCATACTTAGT---TTTTATTT-T----------
+q dasNov1.scaffold_13068 99969999699999999999999999999998999799999999---99999999-9----------
+i dasNov1.scaffold_13068 I 2104 I 2
+s oryLat1.chr10 8615531 43 - 27595823 -----------GTTTACTGCCTGTTTCTGAATGCCTTATGGAGCCAAGTTTGTG-------------
+q oryLat1.chr10 -----------9999999999999999999999999999999999999999999-------------
+i oryLat1.chr10 C 0 I 95
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrXXI 11317543 0 + 11717487 I
+e fr2.chrUn 150265658 0 - 400509343 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8799308 9607 + 16654889 I
+e danRer5.Zv7_NA1493 7976 0 + 30000 I
+e galGal3.chr3 61579886 282 - 113657789 I
+e bosTau3.chr9 13737745 127 - 95030419 I
+e eriEur1.scaffold_210818 1510 3044 - 5484 I
+e felCat3.scaffold_217398 134097 77 - 219823 I
+e canFam2.chr1 78268112 7 - 125616256 I
+e ornAna1.chr2 14895548 2204 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 80458 262 - 523245 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e oryCun1.scaffold_214769 105553 63 - 139458 I
+
+a score=642455.000000
+s mm9.chr10 3203500 94 + 129993255 TTTAGCCCCATAAATTA---TTG----TTTCTTCTTC------TTCTTT---AGGATTGCCTCATAGCAGAAATGGAGGATAAAGTTTTAAATGTGGTAAGTCT-TTTT----TC
+s ornAna1.chr2 14897752 101 - 54797317 TTTGACTCAATTCATTGTTTTCTACACTTCTCTCATT------TTCTTT---AGGATTGTACTGTGGCTGAAATGGAAGATAAAGTCATAAATGTAGTAAGTGT-GCTT----TT
+i ornAna1.chr2 I 2204 C 0
+s monDom4.chr2 106249597 90 - 541556283 -------CTATAATTTCTTTGAT----TTTTTTTTCT------TTTTTT---AGGATTGTCCTGTGGTTGAAATGGAGGATAAAGTTGTAAATGTTGTAAGTAT-ATAT----CC
+q monDom4.chr2 -------9999999999999999----9999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i monDom4.chr2 I 15 I 3272
+s bosTau3.chr9 13737872 89 - 95030419 -------CTTATAG-CTTAATTT----TCTTCTTTCT------TCCTTT---AGGATTGCCTTGTAGCAGAAATGGAGGATAAAGTTTTGGCTGTAGTAAGTAT-ACCT----TC
+q bosTau3.chr9 -------9999999-99999999----9999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i bosTau3.chr9 I 127 C 0
+s canFam2.chr1 78268119 95 - 125616256 TCTAGCTCTTACAGTTTTCTTTT----TCTTCTTTCC------TTCTTT---AGGATTGCCTTGTAGCAGAAATGGAAGATAAAGTTTTAGCTGTAGTAAGTAT-ACCT------
+q canFam2.chr1 99999999999999999999999----9999999999------999999---9999999999999999999999999999999999999999999999999999-9999------
+i canFam2.chr1 I 7 C 0
+s sorAra1.scaffold_256646 114459 82 - 121936 tttttcccc------cctctttt----ttg---------------cttt---AGGATTGCCCTGTAGCAGAGATGGAGGATAAAGTTTTAACTGTGGTAAGTAT-CCAT----TT
+q sorAra1.scaffold_256646 999999999------99999999----999---------------9999---9999999999999999999999999999999999999999999999999999-9999----99
+i sorAra1.scaffold_256646 I 11 C 0
+s rn4.chr1 230020205 94 - 267910886 TGTAACCCCATAAATTA---TTA----TTTCTTCTTC------TTCTTT---AGGATTGCCTCGTAGCAGAAATGGAGGATAAAGTTTTAAATGTGGTAAGTCT-ATTT----TC
+q rn4.chr1 99999999999999999---999----9999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i rn4.chr1 C 0 C 0
+s anoCar1.scaffold_0 8808915 84 + 16654889 -------ACAAAATACTgacttt----cctctttttc------ttttttaaaaggactgtCCTGTAGCTGAAATGGAAGATAAAGTTCTCAGTGTGGTAAG--------------
+q anoCar1.scaffold_0 -------9999999999999999----9999999999------9999999999999999999999999990999999999999999999999999999999--------------
+i anoCar1.scaffold_0 I 9607 I 1091
+s galGal3.chr3 61580168 83 - 113657789 ------CATAGTGTATTG-----------TTGTTTTC------TTTTT----AGGACTGCACTGTGGCTGACATGGAAGATAAAGTTCAGACTGTAGTAAGTAC-TAAT----TT
+i galGal3.chr3 I 282 I 4
+s fr2.chrUn 66177794 71 + 400509343 -----------------------------tctttttc------tttgat---agGACTGCAGCGTTTACGAAATGGAAGAGAAGATCCTGGATGTCGTAAGTTTTCTTT------
+i fr2.chrUn I 2973 I 647
+s danRer5.chr21 16479216 71 + 46057314 ----------------------T----TTTCTTTTCTTGCC--TTT--C---AGGACGGCACAGTGTATGAGACCGAGAATAAGATACTGCATGTGGTAAGACT-----------
+i danRer5.chr21 I 6086 I 6490
+s gasAcu1.chrIV 17071558 87 - 32632948 --------------TTgttcttc----cttctttctctgcCCATTTTAC---AGGATTGCACTGTGTATGAGACAGAGAATAAGATTCTTCATGTGGTAAGTAT-CTGC------
+q gasAcu1.chrIV --------------999999999----9999999999999999999999---9999999999999999999999999999999999999999999999999999-9999------
+i gasAcu1.chrIV I 7189 n 0
+s felCat3.scaffold_217398 134174 82 - 219823 ---------------TTCTTTTT----TCTTCTTTCC------TTCTTT---AGGATTGCCTTGTAGCAGAAATGGAGGATAAAGTTTTAGCCGTAGTAAGTAT-ACCT----TT
+q felCat3.scaffold_217398 ---------------99997999----9999999999------999998---8999999999999999999999999999999999999999999999999999-9999----99
+i felCat3.scaffold_217398 I 77 C 0
+s eriEur1.scaffold_330084 4493 83 + 5186 --------------attttcttt----ttgtcttcta------cTTTTT---AGGATTGCCTGGTTGCTGAGATGGAGGATAAAGTTTTAACTGTAGTAAGTAT-CTAC----TC
+q eriEur1.scaffold_330084 --------------999999999----9699999899------999999---9999979999999999999999999999999999999999999999999999-9989----99
+i eriEur1.scaffold_330084 I 4154 C 0
+s equCab1.chr31 13059697 71 + 24938454 ----------------------------------TCC------TTCCTT---AGGATTGCCTTGTAGCAGAAATGGAGGATAAAGTTTTAACTGTAGTAAGTAT-ATATACATTC
+q equCab1.chr31 ----------------------------------999------999999---9999999999999999999999999999999999999999999999999999-9999999999
+i equCab1.chr31 I 6 C 0
+s tupBel1.scaffold_114895.1-498454 402698 73 - 498454 ----------------------------TTCTTTTCC------TTTTTT---AGGATTGCCTTGTAGCAGAAATGGAGGATAAAGTGTTAACTGTAGTAAGTAC-ATGT----TC
+q tupBel1.scaffold_114895.1-498454 ----------------------------999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 80720 77 - 523245 --------------------TTT----CTCCTTCTCC------TTCTTT---AGGATTGCTTTGTAGCGGAAATGGAGGATAAAGTTTTAACTGTGGTAAGTAT-GCAT----TC
+i calJac1.Contig1260 I 262 C 0
+s panTro2.chr6 16627403 74 - 173908612 ---------------------------CTCCATCCCC------TTCTTT---AGGATTGCTTTGTAGCGGAAATGGAGGATAAAGTTTTAACTGTGGTAAGTAT-ACAT----TC
+q panTro2.chr6 ---------------------------9999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16103641 74 - 170899992 ---------------------------CTCCATCCCC------TTCTTT---AGGATTGCTTTGTAGCGGAAATGGAGGATAAAGTTTTAACTGTGGTAAGTAT-ACAT----TC
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108512364 74 + 167655696 ---------------------------CTCCATCCCC------TTCTTT---AGGATTGCTTTGTAGCAGAAATGGAGGATAAAGTTTTGACTGTGGTAAGTAT-GCGT----TC
+q rheMac2.chr4 ---------------------------9999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16416576 74 - 174210431 ---------------------------CTCCATCCCC------TTCTTT---AGGACTGCTTTGTAGCGGAAATGGAGGATAAAGTTTTAACTGTGGTAAGTAT-ACAT----TC
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_214769 105616 77 - 139458 --------------------TTT----CTTCTTCCCC------TTCTTT---AGGATTGCCTTGTAGCTGAAATGGAGGACAAAGTTTTAACTGTGGTAAGGAT-TTGT----TC
+q oryCun1.scaffold_214769 --------------------999----9999999999------999999---9999999999999999999999999999999999999999999999999999-9999----99
+i oryCun1.scaffold_214769 I 63 C 0
+s dasNov1.scaffold_13068 26489 72 + 27231 -----------------------------TCTTCCCC------TTCTTT---AGGATTGCCTTGTAGCAGAAATGGAGGATAAAGTTTTAACCGTAGTAAGTAC-ACAT----TC
+q dasNov1.scaffold_13068 -----------------------------79777995------899799---9999999997999989679999999999799999999998469999999999-5969----99
+i dasNov1.scaffold_13068 I 2 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e oryLat1.chr10 8615574 95 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=-27051.000000
+s mm9.chr10 3203594 33 + 129993255 ---TAAA-----AGTTACT-ATACAACTCATTT-------------CCAGAG--G-CA----
+s rn4.chr1 230020299 34 - 267910886 ---TTAA-----GGTTACA-ATACAACTCATTT-T-----------CCAAAG--G-CC----
+q rn4.chr1 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i rn4.chr1 C 0 C 0
+s sorAra1.scaffold_256646 114541 31 - 121936 ---TGAA-----AG----T-TGTTCAGTGCTTT-T-----------CCAAGA--GGCC----
+q sorAra1.scaffold_256646 ---7799-----79----9-9999999999999-9-----------999999--9999----
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78268214 31 - 125616256 ------A-----AGTTACT-GTAAAATTCCTTT-T-----------CCCAAA--C-CA----
+q canFam2.chr1 ------9-----9999999-9999999999999-9-----------999999--9-99----
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13737961 34 - 95030419 ---TAAA-----AGTTACT-GTAAAATTCCTTT-T-----------CCCAAA--A-CA----
+q bosTau3.chr9 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 134256 34 - 219823 ---TAGA-----AGTGACT-GTAAAATTCCTTT-T-----------CCCAAA--C-GA----
+q felCat3.scaffold_217398 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i felCat3.scaffold_217398 C 0 C 0
+s eriEur1.scaffold_330084 4576 32 + 5186 ---TAAA-----AGCCACT-GGTATGTTTCTTC-T-----------CCAAAG--A-------
+q eriEur1.scaffold_330084 ---9999-----9999999-9999999999999-9-----------999999--9-------
+i eriEur1.scaffold_330084 C 0 C 0
+s equCab1.chr31 13059768 34 + 24938454 ---TAAA-----AGTTATT-GTAAAATTCCTTT-G-----------CCCAAA--A-CA----
+q equCab1.chr31 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i equCab1.chr31 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402771 34 - 498454 ---TGAA-----AACTATT-GACACATTCCTTT-T-----------GTGAAA--G-CA----
+q tupBel1.scaffold_114895.1-498454 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 80797 34 - 523245 ---TAAA-----AGTTACT-GTAAAGTTCCTTT-T-----------CCAAAG--G-CA----
+i calJac1.Contig1260 C 0 C 0
+s panTro2.chr6 16627477 34 - 173908612 ---TAAA-----AGTTATT-GTAAAATTCATTT-T-----------CCAAAG--G-CA----
+q panTro2.chr6 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16103715 34 - 170899992 ---TAAA-----AGTTATT-GTAAAATTCATTT-T-----------CCAAAG--G-CA----
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108512438 34 + 167655696 ---TAAA-----AGTTATT-GTAAAATTCCTTT-T-----------CCAAAG--G-CA----
+q rheMac2.chr4 ---9999-----9999999-9999999999999-9-----------999999--9-99----
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16416650 34 - 174210431 ---TAAA-----AGTTATT-GTAAAGTTCCTTT-T-----------CCAAAG--G-CA----
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_214769 105693 35 - 139458 ---TAGA-----AGTTACT-ATAAAATCCCTTTTT-----------TGGAAG--G-TA----
+q oryCun1.scaffold_214769 ---9999-----9999999-999999999999999-----------999999--9-99----
+i oryCun1.scaffold_214769 C 0 C 0
+s dasNov1.scaffold_13068 26561 36 + 27231 ---TGAA-----AGTTATTCAGAAAATTCCTTTTT-----------CCAAAG--G-CA----
+q dasNov1.scaffold_13068 ---6999-----99999999579999999669999-----------896999--9-97----
+i dasNov1.scaffold_13068 C 0 C 0
+s ornAna1.chr2 14897853 30 - 54797317 ---CAAG-----AGTTCCA-ATCAAATACGTTT-T-----------GGGGG-----------
+i ornAna1.chr2 C 0 I 906
+s galGal3.chr3 61580255 52 - 113657789 ---TGAAAACTCAGCTGCT-TTCACATTTATTT-TGGTGGCTTCTGCTCCAGTTG-TA----
+i galGal3.chr3 I 4 C 0
+s fr2.chrUn 207925244 32 - 400509343 TGTTTGG-----AGTTA-T-GGAACACACCTTT-C-----------Ctg--------tc---
+i fr2.chrUn n 647 C 0
+s oryLat1.chr10 8615669 24 - 27595823 -------------GCTA-T-GTGGAATGTTTAT-A-----------CAG--------TC---
+q oryLat1.chr10 -------------9999-9-9999999999999-9-----------999--------99---
+i oryLat1.chr10 I 95 C 0
+s danRer5.chr20 55966228 32 + 56528676 ---CGTC-----AGCCA-T-TTTGCACACATTC-A-----------CAT--------ATTCA
+i danRer5.chr20 n 6490 I 3504
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8808999 1091 + 16654889 I
+e monDom4.chr2 106249687 3272 - 541556283 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=238980.000000
+s mm9.chr10 3203627 109 + 129993255 AT----AAGAAT----------------CCTATT-----CATT-ACATGCAC--TGT-GGCTAAGTATGTCGA------------GATGAACCTTGAAACACTGGCT--TCTGGGAT--TTGAC-TC----------------TTAATT----------TAGATGGAAGA------GTAAAGGTTGT
+s rn4.chr1 230020333 105 - 267910886 TT----AGGGAT----------------CATACT-----AATT-ACACGCAC--TG---GCTAATTATATCAA------------GATGAACTTTGAGACACTGGCT---CTGGGAT--TTGCA-TC----------------TTCATT-----------AGATGGAAGG------GTGAAGGTTGC
+q rn4.chr1 99----999999----------------999999-----9999-99999999--99---99999999999999------------9999999999999999999999---9999999--99999-99----------------999999-----------9999999999------99999999999
+i rn4.chr1 C 0 C 0
+s sorAra1.scaffold_256646 114572 118 - 121936 CC----GGGCAT----------------CCGATGAGCCACGGT-CATTGCACAGTGG-GACCAATTTCTTCGG------------GAGATATTTTGAAATGTTGATG--TCTGGGAT--CCGAG-TC-T-------------CTTCAGT----------GAGATGGAAAGAGAAGAATTAT------
+q sorAra1.scaffold_256646 99----996948----------------999879978988978-9876798999788-988997999599889------------9997789998999979979977--98799999--99998-97-9-------------7999996----------8999597999999979999999------
+i sorAra1.scaffold_256646 C 0 I 115
+s canFam2.chr1 78268245 123 - 125616256 AT----GGGACT----------------CACATTAATTCAAGTAAAAAATTC--TGT-GGCTAATTCCTTTAG------------GATATACTTTGAAATATTGGCT--TTTGGGAG--TTGAA-TC-T-------------ATTAATT----------TAGGTAGCGAGGTAAGATTAAAAGTTAT
+q canFam2.chr1 99----999999----------------999999999999999999999999--999-999999999999999------------9999999999999999999999--99999999--99999-99-9-------------9999999----------9999999999999999999999999999
+i canFam2.chr1 C 0 I 3
+s bosTau3.chr9 13737995 122 - 95030419 GT----GGGAAT----------------CACATTAATTAAAGT-AAATGTAT--TGT-GGTTAGGTATTTCGG------------GATATGCTTTGAAATACTGACT--TTTGGGAT--ATGAA-TC-T-------------CTTAATT----------TAGGTAGAAAGGCAAGAATACAAGTTAT
+q bosTau3.chr9 99----999999----------------999999999999999-99999999--999-999999999999999------------9999999999999999999999--99999999--99999-99-9-------------9999999----------9999999999999999999999999999
+i bosTau3.chr9 C 0 I 3
+s felCat3.scaffold_217398 134290 123 - 219823 AT----GGGACT----------------CACATTAATTCAAGT-AAATATTC--TGT-GGCTAATGACTTTAG------------GATATACTTTGAAATATTGGCTC-TTTGGGAT--TTGAG-TC-T-------------ATTAATT----------TAGGTAGAAAGAGAAGAGTAAAAGTAAT
+q felCat3.scaffold_217398 99----999999----------------999999999999999-99999999--999-999999999999999------------99799999999999999999999-99999999--99999-99-9-------------9999999----------9999999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 3
+s eriEur1.scaffold_330084 4608 106 + 5186 -----------------------------TAGTGAGTTGAAGC-AGATGCAC--TGT-GTTTAGTTATGCTGA------------GATATATTTCCAAACATTGGCA--TTGGGAAT--GTGGA-TC-T-------------ATTAATT----------AAGGTGGGAAGA-AAGTAAGAT------
+q eriEur1.scaffold_330084 -----------------------------99999999999999-99999999--999-999999999999999------------9999999999999999979999--99999999--98999-99-9-------------9999999----------999999999999-999999999------
+i eriEur1.scaffold_330084 C 0 I 2
+s equCab1.chr31 13059802 121 + 24938454 GT----GGGAAT----------------CACATTAATTAAAGT-AAATGCAC--TGT-GGCTCATTATTTTAG------------GATATACTTTGAAATATTGGCG--TTTGGGAT--AGGAG-TC-T-------------ATTAATT----------TAGACGGAAAGGGAAAAAT-AAAGTTGT
+q equCab1.chr31 99----999999----------------999999999999999-99999999--999-999999999999999------------9999999999999999999999--99999999--99999-99-9-------------9999999----------9999999999999999999-99999999
+i equCab1.chr31 C 0 I 3
+s tupBel1.scaffold_114895.1-498454 402805 111 - 498454 GT----GGGAGT----------------CACATTAATTAAAAT-AAAGGCAC--TGT-GGCTGATTATTTCAG------------AATATACTCTAAAATATTGGCT--TTTGGAAT---CGAG-TC-T-------------ATTAATT----------TAGATGA----------ACAAAAGCTAT
+q tupBel1.scaffold_114895.1-498454 99----999999----------------999999999999999-99999999--999-999999999999999------------9999999999999999999999--99999999---9999-99-9-------------9999999----------9999999----------99999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 80831 118 - 523245 AA----GGGAAT----------------CACGTT-----AAGT-AAATGCAC--TTT-TGCTAATGACTTCAG------------GAGATACTTAGAAATACTGGCT--TTTGGGAT--ATGAGTTT-T-------------TTAAATT----------TAGGTAGAAGGGGAAGGATAAAAGTTAT
+i calJac1.Contig1260 C 0 C 0
+s panTro2.chr6 16627511 117 - 173908612 GT----GGGAAT----------------CACATT-----AAGT-AAATGCCC--TGT-GGCTAATTACTTCAG------------GAGATACTTTGAAATATTGGCT--TTTGGGAC--ATGAG-TT-T-------------TTAAATT----------TAGGTGGAAGGGAAAGCATAAAAGTTAT
+q panTro2.chr6 99----999999----------------999999-----9999-99999999--999-999999999999999------------9999999999999999999999--99999999--99999-99-9-------------9999999----------9999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16103749 117 - 170899992 GT----GGGAAT----------------CACATT-----AAGT-AAATGCCC--TGT-GGCTAATTACTTCAG------------GAGATACTTTGAAATATTGGCT--TTTGGGAC--ATGAG-TT-T-------------TTAAATT----------TAGGTGGAAGAGAAAGCATAAAAGTTAT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108512472 117 + 167655696 GT----GGGAAT----------------CACATT-----AAGT-AAATGCAC--CGT-GGCTAATTACTTCAG------------GAGATACTCTGAAATATTGGCT--TTTGGGAC--ATGAG-TT-T-------------TTAAATT----------TAGGTGGAAGGGAAAGCACAAAAGTTAC
+q rheMac2.chr4 99----999999----------------999999-----9999-99999999--999-999999999999999------------9999999999999999999999--99999999--99999-99-9-------------9999999----------9999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16416684 117 - 174210431 GT----GGGAAT----------------CACATT-----AAGT-AAATGCAC--TGT-GGCTAATTACTTCAG------------GAGATACTTTGAAATATTGGCT--TTTGGGAC--ATGAG-TG-T-------------TTAAATT----------TAGGTGGAAGGGAAAGCATAAAAGTTGT
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_214769 105728 123 - 139458 ATGAGAAAGAAT----------------CACATT-----AATT-GAAGTAAA--TGCAGACTAATTCCTTTGG------------GATAGACCTTGAAAGACTGGCT--TTTGGGAT--CTTGG-TCTT-------------TTTAATT----------CAGGGAGAAGGAGAGGAGGAAGAGTTAT
+q oryCun1.scaffold_214769 999999999999----------------999999-----9999-99999999--9999999999999999999------------9999999999999999999999--99999999--99999-9999-------------9999999----------9999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s dasNov1.scaffold_13068 26597 111 + 27231 GT----GGGAGT----------------CTCATTAATTTAAGT-ACAGGCGC--TGT-GGCTAATTACTTCGG------------GATATACTTGGAAATATTGGCT--TTTGGGAT--ATGGT-TC-T-------------ATTAATT----------TAGGTGGAAAGGGAAGA-----------
+q dasNov1.scaffold_13068 99----999999----------------999799999999999-99599979--899-999999999999879------------9999999999999999999999--99999999--99999-99-9-------------9999999----------99998999999999999-----------
+i dasNov1.scaffold_13068 C 0 C 0
+s galGal3.chr3 61580307 139 - 113657789 CT----GACAACAGCCTTCCAATCCCAGCACATT-----GTGC-AATTAAAA--TGT-TATGAGCCATTTTAG------------TA-ATGCTCTTTACTGTAGAGT------AAATCAATGAG-AT-T-------------TTTGACTAGACTGATAGTGTGTGTAATGGTGCGAAGTCAAGTCT-
+i galGal3.chr3 C 0 I 12
+s fr2.chrUn 207925276 108 - 400509343 ------------------------------taccatttcctgt-ca-tgtac--tgt-gtgtgtgtgtgtgtg------------tgtgtgttttaactttCAGGTTTGTTT---AT--TCAGC-TC-AGGACTGTGTACTTCCTGTCT----------TAGATAA--------------CACTTC-
+i fr2.chrUn C 0 C 0
+s oryLat1.chr10 8615693 97 - 27595823 -----------------------------ATATTAACCCTTAT-AA---TAC--CGG-GGATGT-CGCCAGTGACATCTAAACAACACACATCATAACTCTTGGCCT--TTT---AT--GCAAC-CA-A-------------CATGAAT----------CAGTGAA---------------------
+q oryLat1.chr10 -----------------------------99999999999999-99---999--999-999999-999999999999999999999999999999999999999999--999---99--99999-99-9-------------9999999----------9999999---------------------
+i oryLat1.chr10 C 0 I 15096
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8808999 1091 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e monDom4.chr2 106249687 3272 - 541556283 I
+e ornAna1.chr2 14897883 906 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=62570.000000
+s mm9.chr10 3203736 39 + 129993255 -----------------------TTAATGATACTTC--TACTTATAAAAATTTCTGTGCTT--ATT
+s rn4.chr1 230020438 39 - 267910886 -----------------------TTAATGATATCCC--TGTTTATGAAAATTCCTGTGCTT--ATT
+q rn4.chr1 -----------------------9999999999999--99999999999999999999999--999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105851 41 - 139458 -----------------------TTAATAAGATCAG--CCAACGTGAGAATTCCTTTGCTTAAATT
+q oryCun1.scaffold_214769 -----------------------9999999999999--9999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16416801 41 - 174210431 -----------------------TTAACAAGACCAA--CTACTGTGAAAATTCCTGTGCTTAAATT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512589 41 + 167655696 -----------------------TTAACAAGACCAA--CTACTGTGAAAATTCCTGTGCTTAAATT
+q rheMac2.chr4 -----------------------9999999999999--9999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16103866 41 - 170899992 -----------------------TTAACAAGACCAA--CTACTGTGAAAATTCCTGTGCTTAAATT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16627628 41 - 173908612 -----------------------TTAACAAGACCAA--CTACTGTGAAAATTCCTGTGCTTAAATT
+q panTro2.chr6 -----------------------9999999999999--9999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80949 41 - 523245 -----------------------TTAGCAAGACCAA--CTACTGTGAAAATTCTTGTGCTTAAATT
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402916 41 - 498454 -----------------------TTAGCAAGGCCAA--CTACTGAGAAAATTCCTGTGCTTAAATT
+q tupBel1.scaffold_114895.1-498454 -----------------------9999999999999--9999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_330084 4716 39 + 5186 -----------------------TTAGCAAGCCCCA--CTACTGAGAGAGTTGCTGTATTTACT--
+q eriEur1.scaffold_330084 -----------------------9999999999999--99999999999999999999999999--
+i eriEur1.scaffold_330084 I 2 n 2
+s canFam2.chr1 78268371 38 - 125616256 -----------------------ACAACAAGAAGAT---TACTGTGAAAATTCCTGTGCTTAAC--
+q canFam2.chr1 -----------------------9999999999999---9999999999999999999999999--
+i canFam2.chr1 I 3 I 2
+s bosTau3.chr9 13738120 18 - 95030419 -----------------------ACAACAAGACCAA-----------------------CTAAA--
+q bosTau3.chr9 -----------------------9999999999999-----------------------99999--
+i bosTau3.chr9 I 3 I 2
+s equCab1.chr31 13059926 39 + 24938454 -----------------------ACGATAAGACCAA--CTGTTATGAAAATTCCTGTGCTTAAA--
+q equCab1.chr31 -----------------------9999999999999--99999999999999999999999999--
+i equCab1.chr31 I 3 I 2
+s felCat3.scaffold_217398 134416 41 - 219823 -----------------------GCAACAAGAAAATTACTACTGTGAAAATTCCTGTGCTTAAC--
+q felCat3.scaffold_217398 -----------------------99999999999999999999999999999999999999999--
+i felCat3.scaffold_217398 I 3 I 2
+s dasNov1.scaffold_13068 26708 21 + 27231 -----------------------------ATAAAAA--TTATTTAACAAACT--------------
+q dasNov1.scaffold_13068 -----------------------------9999999--99999999999996--------------
+i dasNov1.scaffold_13068 C 0 I 4
+s galGal3.chr3 61580458 29 - 113657789 -----------------------ATTGCACAAACAT--TCTTCAAGAGAATTTA------------
+i galGal3.chr3 I 12 C 0
+s fr2.chrUn 207925384 38 - 400509343 CTGTTggttgtcctcctcctctctgtatCAGACCAG--CT--------------------------
+i fr2.chrUn C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8808999 1091 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e monDom4.chr2 106249687 3272 - 541556283 I
+e sorAra1.scaffold_256646 114690 115 - 121936 I
+e ornAna1.chr2 14897883 906 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=-138099.000000
+s mm9.chr10 3203775 85 + 129993255 -------------GGCCATGTCT------------GATTTTAC----------------TATTGTT-------------G----------TTT-TCtt---------atttttttattattattattttt------gtattttttCCCTTCT----GGAAAATTCATCA
+s rn4.chr1 230020477 88 - 267910886 -------------GGCTGCA-CT------------GAGCTCTC----------------TGTTTCT-------------G----------TTT-CATT---------TTTACCGTTGTTTTATTTTATTTTATC--ATTTTTCTCCCCTTCT----GGAAAATTCATCG
+q rn4.chr1 -------------9999999-99------------99999999----------------9999999-------------9----------999-9999---------999999999999999999999999999--9999999999999999----9999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 105892 53 - 139458 -------------TGCTATA-TT------------GGGGTCTC----------------TGTT-TT-------------G----------CTT-TCTT---------TTT------------------------------------CCTTCT----GAACATTTAGTCA
+q oryCun1.scaffold_214769 -------------9999999-99------------99999999----------------9999-99-------------9----------999-9999---------999------------------------------------998999----9999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16416842 51 - 174210431 -------------AACTACA-TT------------AAGTCT-----------------------CT-------------G----------TTT-TATT-----ATTATTT------------------------------------TTTTCT----GAACATTTTATTA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512630 50 + 167655696 -------------AGCTACA-TT------------GAGTCT-----------------------CT-------------G----------TTT-TATT-----ATT-ACT------------------------------------TTTTCT----GAACATTATATCA
+q rheMac2.chr4 -------------9999999-99------------999999-----------------------99-------------9----------999-9999-----999-999------------------------------------999999----9999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16103907 47 - 170899992 -------------AACTACA-TC------------GAGTCT-----------------------CT-------------G----------TTT-TATT---------TTT------------------------------------TTTTCT----GAACATTTTATCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16627669 47 - 173908612 -------------AACTACA-TT------------GAGTCT-----------------------CT-------------G----------TTT-TATT---------TTT------------------------------------TTTTCT----GAACATTTTATCA
+q panTro2.chr6 -------------9999999-99------------999999-----------------------99-------------9----------999-9999---------999------------------------------------999999----9999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 80990 46 - 523245 -------------AGCTACA-TT------------GAAGCT-----------------------CT-------------G----------TTT-TAT----------TCT------------------------------------TTTTCT----GAACATTTTAGCA
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 402957 58 - 498454 -------------AGCTTTA-TT----------GGGGGTCT-----------------------CT-------------G----------TTT-TGTTTATTTATTTATT------------------------------------TTTTCT----GTGCATTGTATGA
+q tupBel1.scaffold_114895.1-498454 -------------9999999-99----------99999999-----------------------99-------------9----------999-9999999999999999------------------------------------999999----9999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s felCat3.scaffold_217398 134459 40 - 219823 -------------GGGTATA-TG-----------GGGGTCT-----------------------CT-------------G----------------------------TT------------------------------------TCCTCC----GAACATTTCATTA
+q felCat3.scaffold_217398 -------------9999999-99-----------9999999-----------------------99-------------9----------------------------99------------------------------------999999----9999999999999
+i felCat3.scaffold_217398 I 2 C 0
+s equCab1.chr31 13059967 58 + 24938454 -------------GGATATA-TT-----------GGGGTCT-----------------------CT-------------GTTTTGCTGGGGTT-TTTT---------TTT------------------------------------TCCTCT----GAACATTTCCTCA
+q equCab1.chr31 -------------9999999-99-----------9999999-----------------------99-------------99999999999999-9999---------999------------------------------------999999----9999999999999
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13738140 44 - 95030419 -------------GGGTATA-TT-----------AGGGTCT-----------------------CT-------------G---------------CTT---------TGC------------------------------------TCCCCC----CAACACTTCTTCA
+q bosTau3.chr9 -------------9999999-99-----------9999999-----------------------99-------------9---------------999---------999------------------------------------999999----9999999999999
+i bosTau3.chr9 I 2 C 0
+s canFam2.chr1 78268411 27 - 125616256 -------------GCATAGA-TG-----------GGAGTCT-----------------------CT-------------G---------------------------------------------------------------------------------TTTCATTA
+q canFam2.chr1 -------------9999999-99-----------9999999-----------------------99-------------9---------------------------------------------------------------------------------99999999
+i canFam2.chr1 I 2 C 0
+s dasNov1.scaffold_13068 26733 69 + 27231 -------------AACTACT-AT------------GAGATTTCCCATATTTATATAAAGTATATTT-------------G----------TCTATTCT---------ATT------------------------------------TTTTCTTCTAAAACATT------
+q dasNov1.scaffold_13068 -------------9999999-99------------9999999999999999999999999999999-------------9----------99999999---------999------------------------------------99999999999999999------
+i dasNov1.scaffold_13068 I 4 I 6
+s galGal3.chr3 61580487 92 - 113657789 -------------GACCTCA-TCTTTTAAAGGAAGGGGTAGTA---------------------CT-------------G----------TAG-AATT---------ATTATAGGTTAAATAAACCAATTATGCCTGTAATAGGCATCATAT----GATATTTT-----
+i galGal3.chr3 C 0 I 6
+s fr2.chrUn 207925422 96 - 400509343 GATCATGGCCtttaattatt-tt------------gagttt-----------------------ttctcccagcaagaag----------ttt-ttca---------acttccttttatttattttactttttc------------cttttt----aattatc-CTTCA
+i fr2.chrUn C 0 I 1772
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8808999 1091 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e monDom4.chr2 106249687 3272 - 541556283 I
+e sorAra1.scaffold_256646 114690 115 - 121936 I
+e eriEur1.scaffold_330084 4755 2 + 5186 I
+e ornAna1.chr2 14897883 906 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=238173.000000
+s mm9.chr10 3203860 66 + 129993255 GGGTGCAACTATGC----------------TGCTT---AGTCTG--CAAATCAGGGTGAGAATGATGTGC---------------GCGCTTCA----CTGCAGAAG-
+s dasNov1.scaffold_13068 26808 76 + 27231 GCATTCAGTTATACTTAAGTTTGC------TGACT---GGCTTG--TTAATCAGAATTAACCTGATCTGC---------------CAGTTTCA----CTTTGGGAC-
+q dasNov1.scaffold_13068 999999999999999999999899------79997---999989--999999999999999999999999---------------99999999----999999999-
+i dasNov1.scaffold_13068 I 6 C 0
+s felCat3.scaffold_217398 134499 74 - 219823 -GGTACAATTATACTTAAA-TTAC------TAGCC---AGCCTG--TTAATCAGGGTTACCCTGATCTGT---------------AAATTTCA----CTTTAGGAA-
+q felCat3.scaffold_217398 -999999999999999999-9999------99999---999999--999999999999999999999999---------------99999999----999996999-
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13060025 75 + 24938454 GGGTACAGTTGTACTTAAA-TTGC------TAGCT---AGCCTG--TTAATCAGGGTTAAACTGATCTGC---------------AAATTTCA----TTTTAGGCC-
+q equCab1.chr31 9999999999999999999-9999------99999---999999--999999999999999999999999---------------99999999----999999999-
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13738184 68 - 95030419 AGGTATAATTATATTTAGA-TAGC------TAACTCTCAGCTC-------TCAGGGTTAAACTGATGTGC---------------AAATTTCA----Cttt------
+q bosTau3.chr9 9999999999999999999-9999------9999999999999-------99999999999999999999---------------99999999----9999------
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78268438 74 - 125616256 -GGTACAATTATACTTAAA-TTAC------CAGCT---AGCCTG--TTAATCAGGGATATACTGATCTGC---------------ATATTTCA----CTTTAGGAA-
+q canFam2.chr1 -999999999999999999-9999------99999---999999--999999999999999999999999---------------99999999----999999999-
+i canFam2.chr1 C 0 C 0
+s sorAra1.scaffold_256646 114805 67 - 121936 ---CACCGGGGTACTTGAA-TCAC--------------AGTTTC--TTTGTCAGGGTTAAACTGATCTGC---------------AAGTTTCA----CGTTAGGAT-
+q sorAra1.scaffold_256646 ---9999999999999999-9999--------------999999--999999999999999999999999---------------99999999----999999999-
+i sorAra1.scaffold_256646 I 115 C 0
+s tupBel1.scaffold_114895.1-498454 403015 74 - 498454 GGGTACAGTTATGCATAAA-TTGC------TAGCT---TGCCTG--CTAATTAGGGTTAAACCGACGTGC---------------AGATTTCA----C-TTGGGAT-
+q tupBel1.scaffold_114895.1-498454 9999999999999999999-9999------99999---999999--999999999999999999999999---------------99999999----9-9999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 81036 75 - 523245 GGATACAGTTGTATGTACA-CTGC------TAGCT---AGCCTG--CTAATCAGGATTGAACTGATGTGC---------------AAATATCA----CTTTAGGAC-
+i calJac1.Contig1260 C 0 C 0
+s panTro2.chr6 16627716 75 - 173908612 GGATATAGTTATATGTATA-TTGC------TAGCT---AGCGTG--CTAGTCAGGATTGAACTGATGTGC---------------AAATTTCA----CTTTAGGAC-
+q panTro2.chr6 9999999999999999999-9999------99999---999999--999999999999999999999999---------------99999999----999999999-
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16103954 75 - 170899992 GGATACAGTTATATGTATA-TTGC------TAGCT---AGCCTG--CTAGTCAGGATTGAACTGATGTGC---------------AAATTTCA----CTTTAGGAC-
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108512680 75 + 167655696 GGATACAGTTATACGTACA-TTGC------TAGCT---AGCCTG--CTAATCATGATTGAACTGATGTGC---------------AAATTTCA----CTTTAGGAC-
+q rheMac2.chr4 9999999999999999999-9999------99999---999999--999999999999999999999999---------------99999999----999999999-
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16416893 75 - 174210431 GGATACAGTTATATATACG-TTTC------TAGCT---AGCCTG--CTAGTCAGGATTGAACTGATATGC---------------AAATTTCA----CTTTACGAC-
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_214769 105945 81 - 139458 GTATACCCTTCTACATTAG-TTGC------TGCCC---AGCCAGATAAAATTTGGATACAATTGATGTGG---------------ACATTTCATGTTCCGCCCAAC-
+q oryCun1.scaffold_214769 9999999999999999999-9999------99999---99999999999999999999999999999999---------------999999999999999999999-
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230020565 72 - 267910886 GGGTGCAATTATGCACCA----GC------TGCTT---AGTATG--CAAATCAGGGCAAGAATGATGTGT---------------GCACTTCA----TTGCAGAAC-
+q rn4.chr1 999999999999999999----99------99999---999999--999999999999999999999999---------------99999999----999999999-
+i rn4.chr1 C 0 C 0
+s galGal3.chr3 61580585 91 - 113657789 --------TAATAAGTAGA-TACCATGCCTTATTA---AGCTTCTCCTTGTAAAAAACAAAAACACCTGCCCTGATGCAGAACTGAAGTTTTG----TGTCAGAGCG
+i galGal3.chr3 I 6 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8808999 1091 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e monDom4.chr2 106249687 3272 - 541556283 I
+e eriEur1.scaffold_330084 4755 2 + 5186 I
+e ornAna1.chr2 14897883 906 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=59828.000000
+s mm9.chr10 3203926 30 + 129993255 TAGTTCAA--GT-AAA---------AAG--AAA--AACCT---------T---GGCAA
+s monDom4.chr2 106252959 33 - 541556283 TAGTTTAAGTTTTTGG---------GAA--AAA--TATGT---------T---GGTAG
+q monDom4.chr2 9999999999999999---------999--999--99999---------9---99999
+i monDom4.chr2 I 3272 C 0
+s dasNov1.scaffold_13068 26884 33 + 27231 TATTTTGG--TTTAAA---------AAA--AAAGTAATCT---------T---GGCAA
+q dasNov1.scaffold_13068 99999999--999999---------999--9999999999---------9---99999
+i dasNov1.scaffold_13068 C 0 C 0
+s felCat3.scaffold_217398 134573 37 - 219823 CATTATGa--ttaaaa---aaaaataaa--aaa--atCCT---------T---GGCAA
+q felCat3.scaffold_217398 99999999--999999---999999999--999--99999---------9---99978
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13060100 29 + 24938454 CATTTTGA--TTAA-----------AAA--AAA--ATTCT---------T---GGCAA
+q equCab1.chr31 99999999--9999-----------999--999--99999---------9---99999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13738252 29 - 95030419 --tttttt--ttaatt---------aaa--aaa--aatCT---------T---GGCAA
+q bosTau3.chr9 --999999--999999---------999--999--99999---------9---99999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78268512 30 - 125616256 CATTTTGA--TTAAA----------AAA--AAA--ATCCT---------T---GGCAA
+q canFam2.chr1 99999999--99999----------999--999--99999---------9---99999
+i canFam2.chr1 C 0 C 0
+s sorAra1.scaffold_256646 114872 29 - 121936 CATTTTGA--TT-------------TGA--AAA--CTTCT---------TTTGAGCA-
+q sorAra1.scaffold_256646 99999999--99-------------999--999--99999---------99999999-
+i sorAra1.scaffold_256646 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 403089 40 - 498454 CATCTTGA--TTAAAAAAAAAACAAAAA--AAA--CCTCT---------T---GGCAG
+q tupBel1.scaffold_114895.1-498454 99999999--999999999999999999--999--99999---------9---99999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 81111 32 - 523245 CATTTTGA--TTTAAG--------AAAA--AAA--AATCT---------T---GGCAA
+i calJac1.Contig1260 C 0 C 0
+s panTro2.chr6 16627791 31 - 173908612 CATTTTGA--TTTAAG---------AAA--AAA--ATTCT---------T---GGCAA
+q panTro2.chr6 99999999--999999---------999--999--99999---------9---99999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16104029 31 - 170899992 CATTTTGA--TTTAAG---------AAA--AAA--ATTCT---------T---GGCAA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108512755 31 + 167655696 TGTTTTGA--TTTAAG---------AAA--AAA--ATTAT---------T---GGCAA
+q rheMac2.chr4 99999999--999999---------999--999--99999---------9---99999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16416968 31 - 174210431 CATTTTGA--TTTAAG---------AAA--AAA--ATTCT---------T---GGCAA
+i ponAbe2.chr6 C 0 C 0
+s oryCun1.scaffold_214769 106026 28 - 139458 TGGCTAAA-----AAA---------AAA--AAA--AATCT---------T---GGCAG
+q oryCun1.scaffold_214769 99999999-----999---------999--999--99999---------9---99999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230020637 30 - 267910886 TCTTTCCA--TT-AAA---------AAG--GAA--AACCT---------T---GGCAA
+q rn4.chr1 99999999--99-999---------999--999--99999---------9---99999
+i rn4.chr1 C 0 C 0
+s galGal3.chr3 61580676 42 - 113657789 TACTTGAG--CTTGAA---------AGATCAGA--GTTTTCAAAATGAAT---TGAAG
+i galGal3.chr3 C 0 C 0
+s ornAna1.chr2 14898789 14 - 54797317 ------------------------------AAC--GAACT---------T---GGCAA
+i ornAna1.chr2 I 906 C 0
+s anoCar1.scaffold_0 8810090 14 + 16654889 ------------------------------aaa--tattt---------t---tgcag
+q anoCar1.scaffold_0 ------------------------------999--99999---------9---99999
+i anoCar1.scaffold_0 I 1091 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e eriEur1.scaffold_330084 4755 2 + 5186 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=884665.000000
+s mm9.chr10 3203956 103 + 129993255 GAACTTTGAGAT-GGGGAGGGGCATGTC-----------------CTATGA------CTATGTAAAGAACATTCT-GGAAGGATTCATCATC-ACTTCCTCCTTTTGACACAAG-CGGCCTGTGCCCTTT
+s rn4.chr1 230020667 104 - 267910886 GAACTTTAAGATAGGGGAGAGGCATGTC-----------------CTATGA------CTATGTAAAGAACATTCT-GGAAGGATTCATCATC-ACTTCCTCCTTTTGACACAAG-CGGCCTGTGCCCTTT
+q rn4.chr1 9999999999999999999999999999-----------------999999------999999999999999999-9999999999999999-999999999999999999999-999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 106054 102 - 139458 AAGCCATTAGAT---AGAGGGGGATGTC-----------------CCATGA------CTGTTGAAAGGGCAGTTT-GCTGCTATTCATCATC-ACTTCCTGCTTTTGACACAAGCCAGTCTGTGCTCTTT
+q oryCun1.scaffold_214769 999999999999---9999999999999-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16416999 103 - 174210431 AAACCTTATGAT-GGAGGGGGG-TTGTG-----------------CTGTAA------CTGTTTAAGGAGCATTTT-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATACACCAGCCTGTGCTCTTT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512786 103 + 167655696 CAACCTTATGAT-GGAGGGGGG-ATGTG-----------------CTGTAA------CTGTTTAAGGAGAATTTT-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATAAGCCAGCCTGTGCTCTTT
+q rheMac2.chr4 999999999999-999999999-99999-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16104060 103 - 170899992 AAACCTTATGAT-GGAGGGGGG-ATGTG-----------------CTGTAA------CTGTTTAAGGAGCATTTT-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATACGCCAGCCTGTGCTCTTT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16627822 103 - 173908612 AAACCTTATGAT-GGAGGGGGG-ATGTG-----------------CTGTAA------CTGTTTAAGGAGCATTTT-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATACGCCAGCCTGTGCTCTTT
+q panTro2.chr6 999999999999-999999999-99999-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 81143 120 - 523245 AAACCTTCTGTT-GGAGGAGGG-ATGTGTTGTAACTGTTTAAGGATTGTAA------CTGTTTAAGGAGCATTTT-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATAAGCCAGCCTGTGCTCTTT
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 403129 105 - 498454 AAATGTTGTGAT-AGAGGGGGGTATGTA-----------------CAGCAA------CTGTTTCAAGAGCATTTT-GTGACTATTCATCATCGACTTCCTCCTTTTGACATTAGCCAGCCTGTGCTCTTT
+q tupBel1.scaffold_114895.1-498454 999999999999-999999999997999-----------------998999------989999999999999998-989996212111131111147999899995847898745995694437695633
+i tupBel1.scaffold_114895.1-498454 C 0 I 918
+s sorAra1.scaffold_256646 114901 102 - 121936 GAACCCCGatga-gggggaggg-agg-g-----------------ctgggg------CTGTTTAAAGAGCGTTTT-GTCACTATTTGTTATC-ACTTCCTCCTTTTGACACAAGCCAGTCTGAGCTCTTT
+q sorAra1.scaffold_256646 999999999999-999999999-999-9-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_210818 4554 94 - 5484 GGA---CGTGGT-GGTGGAGAG-ATG-A-----------------TTGTGA------CTGTATGAGG-----TTT-GTCACTATGCATCACG-ACTTCCTCCTTTTGACAGAAACTAGCCTGCGCTCTTT
+q eriEur1.scaffold_210818 999---999999-999999999-999-9-----------------999999------9999999999-----999-9999999999999999-9999999999999999999999999999999999999
+i eriEur1.scaffold_210818 I 3044 C 0
+s canFam2.chr1 78268542 103 - 125616256 AAACTTTATGAT-GGAGGGGGG-ATGTG-----------------CTGTGA------TTGTTTAAAGAGCATTTT-GTTACTATTCATCATC-ACTTCCTTCCTTTGACATAAGCCTGCCTGTGCCCTTT
+q canFam2.chr1 999999999999-999999999-99999-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13738281 103 - 95030419 AAATCTTATGAT-GGAAGGGGG-ATGTA-----------------CTGTGA------CTGTTTAAAGAGCATTTT-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATAAGCCAGCCTGTGCTCTTT
+q bosTau3.chr9 999999999999-999999999-99999-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13060129 103 + 24938454 AAATCTTATGAT-GGCGGGGGG--TGTG-----------------CTGTGA------CTGTTTCAAGAGCGTTTTGGTAACTATTCATCATC-GCTTCCTCCTTTTGACATAAGCCAGCCTGTGCTCTTT
+q equCab1.chr31 999999999999-999999999--9999-----------------999999------99999999999999999999999999999999999-9999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 134610 103 - 219823 AACCCTTCTGAT-GGCAGGGGG-ATGTG-----------------CCGTGA------TTGTTTAAAGAGCATTTT-GTAACCATTCATCATC-ACTTCCTCCCTTTGACATAAGCCAGCCTGGGCCCTTT
+q felCat3.scaffold_217398 999999999999-999949999-99999-----------------999999------799999789997979999-9999999999599979-7999999999998897799999998999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_13068 26917 104 + 27231 AAACCTTAGGAT-GGAGGTGGGATTATA-----------------CTGTGG------CTGTTTAAAGAGCATTTT-GTAACTATTCATCACC-ACTTCCTCCTTTTGATATAAACCAGGCTGAGCTCTTT
+q dasNov1.scaffold_13068 999999999999-999999999999999-----------------999999------999999999999999999-9999999999999999-9999999999999999999999999999999999999
+i dasNov1.scaffold_13068 C 0 C 0
+s monDom4.chr2 106252992 104 - 541556283 AAATCTTGTGAC-CCAGGGAAA---GTA-----------------CCATAAA--TTTTTTTTTTTTGCGCATTTA-GTAACTATTCATCATC-ACTTCCTCCTTTTGACATAAACCAGGCTAGGCTCCT-
+q monDom4.chr2 999999999999-999999999---999-----------------9999999--999999999999999999999-9999999999999999-999999999999999999999999999999999999-
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14898803 107 - 54797317 TCATTTTGGGAT-CAAGGGGGA-ATGTA-----------------CTGTGaaatattttttttttttaatatttt-GTAACTATTCATCATC-ACTTCCTCCTTTTGACA-AAACCAGGCTGTATTCTT-
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61580718 100 - 113657789 CAGCCTTATGAC-CAAATGAGGAGCTCA-----------------ATGGAA------TGCTTTTTA---TATTTT-GTAACAGTTAATCATC-GCTTCCTGCTTTTGACATGAACCAGGCTGTGCTCTT-
+i galGal3.chr3 C 0 C 0
+s anoCar1.scaffold_0 8810104 100 + 16654889 CAGTCTTGTGAC-TGGAGTTGGGATGCA-----------------GTGACa------tgcttttaa---tatttt-gtaaTGGTTAATCATC-ACTTCCTGCTTTTGACACAAATCAGGCTGTGTTCTT-
+q anoCar1.scaffold_0 999999999999-999999999999999-----------------999999------999999999---999999-9999990999999999-999999999999999999999999999999999999-
+i anoCar1.scaffold_0 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=806982.000000
+s mm9.chr10 3204059 88 + 129993255 TGATAAAA-CCCTCCTCCTGTTTG-----GTTAAGGAATTTGGCAATGAAACGGCTATAAATA-TA--TTTTCCATAA-ATAGGGAAGC----TAAGCAGAA
+s rn4.chr1 230020771 89 - 267910886 TGATAAAAATCCTCCTCCCATTTG-----GTTGAGGAATTTGGCAATGAAACTGCTATAAATA-CG--TTTTCCATAA-ATAGGGAAGC----TAAACAGAG
+q rn4.chr1 999999999999999999999999-----9999999999999999999999999999999999-99--9999999999-9999999999----999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 106156 88 - 139458 TGATAAGG-CCTTCCTCCTCCTAA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGGAAGGC----TAAACA-AA
+q oryCun1.scaffold_214769 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16417102 88 - 174210431 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGGGAGGC----CAAACA-AA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512889 88 + 167655696 TGATAAGA-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGGGAGGC----CAAACA-AA
+q rheMac2.chr4 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16104163 88 - 170899992 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGGGAGGC----CAAACA-AA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16627925 88 - 173908612 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGGGAGGC----CAAACA-AA
+q panTro2.chr6 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 81263 88 - 523245 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAAGGAGGC----TAAGCA-AC
+i calJac1.Contig1260 C 0 C 0
+s sorAra1.scaffold_256646 115003 87 - 121936 TGATAAGG-CCTTCCtcctcctca----tgtt---gagttcggTGATGAAACaactataaata-tgtatgtgCCATAA-ATAGGGAGGC----TAAACA-AA
+q sorAra1.scaffold_256646 99999999-999999999999999----9999---9999999999999999999999999999-99999999999999-9999999999----999999-99
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_210818 4648 88 - 5484 TGATAAGG-CTTCCCTCCGCCTGA----TGCTAAGGAATTCAGAAATGAAGCTGCTATAAATA-TG--TTTTCCATAA-ATAGGGAGGT----TCAGTC-AT
+q eriEur1.scaffold_210818 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i eriEur1.scaffold_210818 C 0 C 0
+s canFam2.chr1 78268645 88 - 125616256 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGGAAGGC----TAAACA-AA
+q canFam2.chr1 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13738384 88 - 95030419 TGATAAGG-CCTTCTTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACCGCTATAAATA-TA--TTTTCCATAA-ATAGGGAGGT----TAAACA-CA
+q bosTau3.chr9 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13060232 88 + 24938454 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAATGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGAGAGGT----TAAACA-AA
+q equCab1.chr31 99999999-999999999999999----99999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 134713 87 - 219823 TGATAAGG-CCTTCCTCCTACTGA----TGTTGAGGAATTTAGCAGTGAAACTGCTATAAATA-TA--TTTTCCATAA-ATAGG-AGGC----TAAACA-AA
+q felCat3.scaffold_217398 99999999-999999999999999----99999999999999999999996899999999999-99--9999999999-99999-9999----999999-99
+i felCat3.scaffold_217398 C 0 C 0
+s dasNov1.scaffold_13068 27021 82 + 27231 TGATAAGA-CCTTCCTGCT----------GATGAGGAATTTAGCAATGAAATTGCTATAAATA-TA--TTTTCCATAA-ATAGGGAGGT----TAAACA-AA
+q dasNov1.scaffold_13068 99999999-9999999999----------9999999999999999999999999999999999-99--9999999999-9999999999----999999-99
+i dasNov1.scaffold_13068 C 0 C 0
+s monDom4.chr2 106253096 86 - 541556283 TGATAAGG-CTTTCCTTCTGCTGA-------TGAGGAATTTAGCAACACAGTTACTATAAATA-TA--TTTTCCATAA-ATAGGGAAGCT---TAAACA-AA
+q monDom4.chr2 99999999-999999999999999-------99999999999999999999999999999999-99--9999999999-99999999999---999999-99
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14898910 88 - 54797317 TGATAAGG-ACTTCCTCCTACTGA----TGTTTAGGAATTTTGCAGTGCAATTGCTATAAATATTG--TTTTCCATAA-ATAGGGAGGC----TAAATA-A-
+i ornAna1.chr2 C 0 I 1705
+s galGal3.chr3 61580818 94 - 113657789 TGATAAGG-CCTTCCGCTAGCTCATAGGTGCTTAAGGATTTAGTAGCAAAATAACTAAAAATA-AT--TTTTTCTGTAAATAATGAGACCACGTAAA----A
+i galGal3.chr3 C 0 I 1178
+s anoCar1.scaffold_0 8810204 67 + 16654889 TGATAAGG--CTTCTGCCTGCTGATAAATGTTTAGAAAT------GCACAATGACTAAAAATA-CA--TGCACCTCAA------------------------
+q anoCar1.scaffold_0 99999999--99999999999999999999999999999------999999999999999999-99--9999999999------------------------
+i anoCar1.scaffold_0 C 0 I 1944
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=603521.000000
+s mm9.chr10 3204147 122 + 129993255 CTGGAGGA---CTG-AGAGAAGGTGCACGCTGTGGC-TATTCCCCCTTGG--------------------AAAGCAGAGTCAC--GTCAGAATTTCCGGATGCCC-GTGGTCATTTGATTTTTGGAAGGGTAGATGC---T-CT--GATTGTAAGA
+s rn4.chr1 230020860 118 - 267910886 CTAGAGGA---GTG-TGAGAAGGTGCGTGTTATGGA-T---CCCCCCTGG--------------------AGAGCAAAGTCGCT-GTTGGAATTTCCGGATGCCT-GTGGTCATTTGATTTT-GGAAGGGTAGATGC---T--T--GGTTTCGAGA
+q rn4.chr1 99999999---999-999999999999999999999-9---999999999--------------------99999999999999-99999999999999999999-9999999999999999-99999999999999---9--9--9999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 106244 124 - 139458 TTTGAGGA---GTG-TAGAAAGTGTCACTTCTAAGA-TTCTCCCCCTTGG--------------------AATGAAAAAGCGCTCTTTGGAATTTCCTGATTCCT-TTGGTTGTTTAATTTG-GAAAGTTTAGATGT---ACCT--GACTGGGGAA
+q oryCun1.scaffold_214769 99999999---999-999999999999999999999-9999999999999--------------------99999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16417190 124 - 174210431 TTGGAGGA---ATG-TAAAAAGTATCACTTCTTGGA-TTCTCCCCCTTGG--------------------AAAGAAAAATCACTCTTTGGAATTTCCTGATTTCT-TTGGTTGTTTAATTTT-GAAAGGTTAGATGA---GTCT--GATTGGGGAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108512977 124 + 167655696 TTGGAGGA---ATG-TAAAAAGTATCACTTCTTGGA-TTCTCCCCCTTGG--------------------AAAGAAAAATCACTCTTTGGAATTTCCTGATTTCT-TTGGTGGTTTAATTTT-GAAAGGTTAGATGA---GTCT--GATTGGGGAA
+q rheMac2.chr4 99999999---999-999999999999999999999-9999999999999--------------------99999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16104251 124 - 170899992 TTGGAGGA---ATG-TAAAAAGTATCACTTCTTGGA-TTCTCCCCCTTGG--------------------AAAGAAAAATCACTCTTTGGAATTTCCTGATTTCT-TTGGTTGTTTAATTTT-GAAAGGTTAGATGA---GTCT--GATTGGGGAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16628013 124 - 173908612 TTGGAGGA---ATG-TAAAAAGTATCACTTCTTGGA-TTCTCCCCCTTGG--------------------AAAGAAAAATCACTCTTTGGAATTTCCTGATTTCT-TTGGTTGTTTAATTTT-GAAAGGTTAGATGA---GTCT--GATTGGGGAA
+q panTro2.chr6 99999999---999-999999999999999999999-9999999999999--------------------99999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 81351 124 - 523245 TTGAAGGC---ATG-TAAAAAGTATCACTTCTTGGA-TTCTCCCCCTTGG--------------------AAAGAAAAATCAATCTTTGGAATTTCCTGATTTCT-TTGGTTGTTTAATTTT-GAAAGGTTAGATGA---ATCT--GATTGGGGAA
+i calJac1.Contig1260 C 0 C 0
+s sorAra1.scaffold_256646 115090 106 - 121936 TCGGAGGC---ATG-TAAAAAGTGTCAGAACTTGGA-TTCTCCCCCTTGG----------------------AAAACAATATCACTCTGGAATTTCCTGATTTTG-TTGGTGGTTTAATTTG-GGA-----AGGTCGATG----------------
+q sorAra1.scaffold_256646 99999999---999-999999999999999999999-9999999999999----------------------999999999999999999999999999999999-9999999999999999-999-----999899999----------------
+i sorAra1.scaffold_256646 C 0 I 2299
+s eriEur1.scaffold_210818 4736 141 - 5484 TGGGGGGAGAGATG-TACAATGTGTCACTTCTTGGA-TTCtcttcttgggggaaaaaaaaaag------aaaagaaaaattcctctTTGGGATGTCCCGATTTCG-TTGGttgtttaatttt-gaaaagttAGGTCG---ATCT--GATTGGAAGA
+q eriEur1.scaffold_210818 99999999999999-999999999999999999999-99999999999999999999999999------999999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i eriEur1.scaffold_210818 C 0 N 0
+s canFam2.chr1 78268733 125 - 125616256 TTGGGGGA---ATG-TAAGAAGTGTCACTTCTTGGA-TTCTCCCCCTT-G------------G------AAAAAAAAAATCACTCTTTGGAATTTCCTGATTTCT-TTGGTGGCTTAATTTT-GAAAGATTAGGTGA---ATCT--GACTGAAGGA
+q canFam2.chr1 99999999---999-999999999999999999999-99999999999-9------------9------999999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i canFam2.chr1 C 0 I 1731
+s bosTau3.chr9 13738472 128 - 95030419 TTGGAGGC---ATG-CAAAGAGTGTCACTTCTTAGA-TTCTTCCCCCTTA------------G------AAGAAAAACATCACTCTTTATAAAATCCTGATTTCT-TTGGTTGTTTAATTTT-GAAAGGTTAGATGA---ATCTGGGATTGGGAGA
+q bosTau3.chr9 99999999---999-999999999999999999999-9999999999999------------9------999999999999999999999999999999999999-9999999999999999-99999999999999---9999999999999999
+i bosTau3.chr9 C 0 I 9
+s equCab1.chr31 13060320 126 + 24938454 TTAGAGGA---ATG-TAAAAAGTGTCGCTTCTTGGA-TTGTCCCCCCTTG------------G------AAAAAGAAAATCACTCTTTGGAATTTCCTGGTTTCT-TTAGTTGTTTAATTTT-GAAAGGTTAGATGA---ATCT--GATTGGGAGA
+q equCab1.chr31 99999999---999-999999999999999999999-9999999999999------------9------999999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i equCab1.chr31 C 0 I 9
+s felCat3.scaffold_217398 134800 126 - 219823 TTGAGGGA---AGG-TAAGAAGTGTCACTTCTTGGA-TTCTCCCCCTTGG------------G------GGAAAAAAAATCACTCTTTGGAATTTCCCGATTTCC-TTGGTGGTTTGATTTT-GAAAGGTTAGATGA---ATCT--GGGGGAAACA
+q felCat3.scaffold_217398 99999999---999-999999999999999999999-9999999999999------------9------999999999999999999999999999999999999-9999999999999999-99999999999999---9999--9999999999
+i felCat3.scaffold_217398 C 0 I 5
+s dasNov1.scaffold_13068 27103 111 + 27231 TTGGAGAA---ACATTATAAAGTGTCACTTCTTGGA-TTCTCCCCCTTGG--------------------ATAGAAAAATCACTCATTGGAATTTCCTGATGGGTGGCGGTTGGTTAATTTT-GAAAGGTTAGGTG--------------------
+q dasNov1.scaffold_13068 97999999---9999999999999999999999999-9999625559499--------------------9999999999999999959999999876441111111229948995899984-6999999769947--------------------
+i dasNov1.scaffold_13068 C 0 n 0
+s monDom4.chr2 106253182 111 - 541556283 TAAGAGGA---ATT-TTTAAAGCATGACTTCTTGGACTTCTCCCCCTTCT------------GCTTCTTAAAAGAAAAATTAATCTTTGGAATTCCTTCAT-TCA-TCAGCACTTAAATTCT-GCAAGTG--------------------------
+q monDom4.chr2 99999999---999-99999999999999999999999999999999999------------999999999999999999999999999999999999999-999-9999999999999999-9999999--------------------------
+i monDom4.chr2 C 0 I 777
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=64549.000000
+s mm9.chr10 3204269 68 + 129993255 AT-------CCGGGCACTCTTCCGGTGGTCTTTGTAGGACAACC----------CCTTCCTGTGGGTACTCTCCT-GTCTCTGCAG---
+s rn4.chr1 230020978 66 - 267910886 AT-------ACGTGCACACTTCTGGTGGCCTCTGTAGGAAGACC----------CCTCCCTGTGGGTATCCTCCT-GTCCTTGT-----
+q rn4.chr1 99-------99999999999999999999999999999999999----------999999999999999999999-99999999-----
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 106368 70 - 139458 ATTCTGCACACAGCAACCCCACCTGTGACTTCTGTATGGAGACCGCTCGGGGCTCCTCACAGTGG-----CTCCT--------------
+q oryCun1.scaffold_214769 99999999999999999999999999999999999999999999999999999999999999999-----99999--------------
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16417314 64 - 174210431 ATACCACACGTAGCCACT------GTGACTTCTACAAGGAGACC----------ACTTAATAGGGATCCTCTCATTGTCT---------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108513101 66 + 167655696 ATAGCACACGTAACCACT------GTGACTTCTACAAGGAGTCT----------ACTTAATAGGGATCCTCTCATTGTCTCT-------
+q rheMac2.chr4 999999999999999999------99999999999999999999----------9999999999999999999999999999-------
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16104375 66 - 170899992 ATACCACACGTAGCCACT------GTGACTTCTATAAGGAGACC----------ACTTAATAGGGATCCTCTCATTGTCTCT-------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16628137 66 - 173908612 ATACCACACGTAGCCACT------GTGACTTCTATAAGGAGACC----------ACTTAATAGGGATCCTCTCATTGTCTCT-------
+q panTro2.chr6 999999999999999999------99999999999999999999----------9999999999999999999999999999-------
+i panTro2.chr6 C 0 I 1765
+s calJac1.Contig1260 81475 66 - 523245 ATACCACACGTAACCACT------GTGACTTCTATGAGGAGACC----------ACATAATAGGGATCTTCACATTGTCTCT-------
+i calJac1.Contig1260 C 0 C 0
+s felCat3.scaffold_217398 134931 37 - 219823 -------ACGTAACCA--------------------------CC----------ACTTCATGGGGATC--TTCAT-GTCTCA---A---
+q felCat3.scaffold_217398 -------999999999--------------------------99----------99999999999999--99999-999999---9---
+i felCat3.scaffold_217398 I 5 C 0
+s equCab1.chr31 13060455 57 + 24938454 -------ACGTAACCACT------GTGATTTCTACATGGAGCCC----------ACTTAACAGGGATC--CTCAT-GTCTCA---A---
+q equCab1.chr31 -------99999999999------99999999999999999999----------99999999999999--99999-999999---9---
+i equCab1.chr31 I 9 C 0
+s bosTau3.chr9 13738609 60 - 95030419 -------ACGTAGCCACT------AGGATTTCTACATGGAGACC----------ACTTAATAGGGATC--CTCAT-GTCTCT---ACAG
+q bosTau3.chr9 -------99999999999------99999999999999999999----------99999999999999--99999-999999---9999
+i bosTau3.chr9 I 9 I 2566
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+
+a score=117035.000000
+s mm9.chr10 3204337 142 + 129993255 AGCT-TCAGA-TTCACTCCAT-----------AGCATGACATCCAGG----------GGTCATT---GAGCTCA-TGGAGCCAAAAATGAATAAAAGGAAAAG-----AAAACATC----AAACTATGGAGG-GA---AATCTCTG-TGATCTTGAGTTCA--GAGGACTCTT-AGATAGAAAACC-
+s rn4.chr1 230021044 142 - 267910886 ---T-TCGGT-GTTACTTCAT-----------AGTGTGACGTCGAGG----------GGTCATT---GAGGCCA-TAGAACCAAAGCGATAGAAAGGTCAAAC-----AGTGCAACT--GAGACGTcatagg-ga---aatctagg-tgatctgggcttca--gaggagttttgagatagaaagcc-
+q rn4.chr1 ---9-99999-9999999999-----------999999999999999----------9999999---9999999-9999999999999999999999999999-----999999999--9999999999999-99---99999999-99999999999999--99999999999999999999999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 106438 155 - 139458 ---T-AGAGT-TTTGCTCTGTCAGTTGGAGAAGGTGAGTCATCACCA----------GGACATt--------ca-taaacctaaatgtac---aatgcaaaactctcaagctcatgg--aagataacatggg-aaaagaatccagg-tgcctttgggtttggtgatgagtgtttagatagcacacc-
+q oryCun1.scaffold_214769 ---9-99999-999999999999999999999999999999999999----------9999999--------99-999999999999999---999999999999999999999999--9999999999999-9999999999999-999999999999999999999999999999999999999-
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16104441 161 - 170899992 -----TTAGT-TTTACCTTGTCAG--------TGTTTGGCATTCAAAGAATGTGAGTGATCactaaaaagatga-tagacctaaatgtaa---aatgcaaaactat--aaaccatctaaaagataacatagg-ggaa-aatttggg-tgactgt--gttttgcaatgagttttcagatagaacacc-
+i hg18.chr6 C 0 I 1
+s ponAbe2.chr6 16417378 165 - 174210431 ---CTTTAGT-TTTACCTTGTCAG--------TGTTTGGCATTCAAAGAATGTGAGTGATCactaaaaagacga-tagacctaaatgtaa---aatgcaaaactat--aaaccatctaaaagataacatagg-ggaa-aatttggg-tgactgtcagttttgcaatgagttttcagatagaacacc-
+i ponAbe2.chr6 C 0 I 1
+s rheMac2.chr4 108513167 163 + 167655696 -----TTAGT-TTTACCTCGTCGG--------TGTTTGGCATTCAAAGAATGTGAGTGATCACTAAAAAGATGA-TAGACCTAAATGTAA---AATGCAAAACTAT--AAACCATCTAAAAGATAACATAGG-AGAA-AATGTAGG-TGACTGTCAGTTTTGCAATGAGTTTTCAGATAGAATACC-
+q rheMac2.chr4 -----99999-9999999999999--------999999999999999999999999999999999999999999-999999999999999---9999999999999--999999999999999999999999-9999-99999999-999999999999999999999999999999999999999-
+i rheMac2.chr4 C 0 I 210
+s calJac1.Contig1260 81541 163 - 523245 -----TCAGT-TTTACCTTGTCAA--------TGTTTGGCATTCAAAGAATGTGAGTGATCACTaaagagatga-tagacctgaatgtaa---aatgcaaaactat--aaaccatctacaagataccatagg-agaa-aatttagg-ggaccgtcagttttgcagtgagttttcagctagaacgcc-
+i calJac1.Contig1260 C 0 I 1
+s felCat3.scaffold_217398 134968 163 - 219823 -------AACGTTTACATTGTCAG--------TGTTTGG-GGTCAGAGAATGTGAACCATCACTAAAAAGATGGTTACCcctaaatgtaa---aatacaaatctgt--gcatctcctggatgataac--aggagaaa-aatctaggctgaccttgtgtttgctggtgagtttttagatccaatacca
+q felCat3.scaffold_217398 -------99999999999999999--------9999999-99999999999999999999999999999999999999999999999999---9999999999999--9999999999999999999--99999999-9999999999999999999999999999999999999999989999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13060512 159 + 24938454 -------GAT-TTTACCTTGTCAC--------TGTTCGGTGTTCAGAGAGTATGAGCCATTGCCAGAAAGACTG-Tagacgtaaaggtaa---aatgcaaa-ctat--agaactcctagaagataac--agg-ggaa-aatctagg-tgaccttggctttggcgatgagttgttaagtacaacgaca
+q equCab1.chr31 -------999-9999999999999--------999999999999999999999999999999999999999999-999999999999999---99999999-9999--9999999999999999999--999-9999-99999999-9999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=9542.000000
+s mm9.chr10 3204479 67 + 129993255 GGG-GCAGAGTCTGTCAACAGAAAAGGAATAGTGGA--CTCCAT----------CGAAGCCCAAGCTCTCCTCTGTGAGG
+s rn4.chr1 230021186 42 - 267910886 aaatgaagagtctatcaacaagaaagaaatagtgga--ctccgt------------------------------------
+q rn4.chr1 999999999999999999999999999999999999--999999------------------------------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 106593 43 - 139458 caaagcatgatccatgatggaaaaactgataatgtag-cttcat------------------------------------
+q oryCun1.scaffold_214769 9999999999999999999999999999999999999-999999------------------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16104603 67 - 170899992 -aaagcataattcatgaaagaaaaattgataaggtagacttcat-----------taaaattaaaaactgctatgtgaa-
+i hg18.chr6 I 1 I 125
+s ponAbe2.chr6 16417544 55 - 174210431 -aaagcataattcatgaaagaaaaattgataaggtagacttcat-----------taaaattaaaaa-------------
+i ponAbe2.chr6 I 1 I 117
+s calJac1.Contig1260 81705 68 - 523245 -aaagcataattcacgaaagaaaaattggtaatgtagacttcat-----------taaaattaaacgctgctatgtgaaa
+i calJac1.Contig1260 I 1 I 148
+s felCat3.scaffold_217398 135131 34 - 219823 -aaggcacaatctgtgaaagaaaaaccgataggac---------------------------------------------
+q felCat3.scaffold_217398 -9999999999999999999999999999999999---------------------------------------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13060671 78 + 24938454 -aaagcacgaaccatgaaagaaaagttgaggggccgg-ccccgtggccaagcgattaagttcacacgctcctcttcggcg
+q equCab1.chr31 -999999999999999999999999999999999999-999999989999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e rheMac2.chr4 108513330 210 + 167655696 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=-3751.000000
+s mm9.chr10 3204546 48 + 129993255 CTCGTGGACTCCATCGAAGCCCCAAGCTCTCCTCTGTGAGGCTCGTGG
+s oryCun1.scaffold_214769 106636 34 - 139458 --------------tacaattaaaacctctgctctgtgaaatgcactg
+q oryCun1.scaffold_214769 --------------9999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 I 83
+s felCat3.scaffold_217398 135165 35 - 219823 -----agatctcattgaaatggaaaactctgctccatgaa--------
+q felCat3.scaffold_217398 -----99999999999999999999999999999999999--------
+i felCat3.scaffold_217398 C 0 I 94
+s equCab1.chr31 13060749 16 + 24938454 cctcagggttttgctg--------------------------------
+q equCab1.chr31 9999999999999999--------------------------------
+i equCab1.chr31 C 0 I 222
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e rn4.chr1 230021228 0 - 267910886 C
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e rheMac2.chr4 108513330 210 + 167655696 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 81773 148 - 523245 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16104670 125 - 170899992 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+e ponAbe2.chr6 16417599 117 - 174210431 I
+
+a score=2041.000000
+s mm9.chr10 3204594 31 + 129993255 ACTCCATCGAAGCCCAAGCTCTCCTCTGTGA
+s rn4.chr1 230021228 25 - 267910886 ------tccaatcacaagctgtcttctgcgg
+q rn4.chr1 ------9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_104729 4441 31 + 13607 ACTCCGTGGGAGCCCACGCTAGCCCGTGTTG
+q oryCun1.scaffold_104729 9999999999999999999999999999999
+i oryCun1.scaffold_104729 n 83 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e equCab1.chr31 13060765 222 + 24938454 I
+e rheMac2.chr4 108513330 210 + 167655696 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e felCat3.scaffold_217398 135200 94 - 219823 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 81773 148 - 523245 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16104670 125 - 170899992 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+e ponAbe2.chr6 16417599 117 - 174210431 I
+
+a score=1497.000000
+s mm9.chr10 3204625 99 + 129993255 GGCTCGTGGACTCCATCGAAGCCCCAAGCTCTCCTCTGTGAGGCTCGTGGACTCCATCAAAGCCCCAAGCTCTCCTCTGTGAGGCTCGTGGACTCCATT
+s oryCun1.scaffold_104729 4472 97 + 13607 ATGGCGTGAACTCCGTGGGAG-CCCACGCTAGCCCGTGTTGATGGCGTGAACTCCGTGGGAG-CCCACGTCGGCCCGTGTTGATGGCGTGAACTCCGTG
+q oryCun1.scaffold_104729 999999999999999999999-9999979999999999999999999999999999999999-999899999999999999999999999999999999
+i oryCun1.scaffold_104729 C 0 n 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e rn4.chr1 230021253 0 - 267910886 C
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e equCab1.chr31 13060765 222 + 24938454 I
+e rheMac2.chr4 108513330 210 + 167655696 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e felCat3.scaffold_217398 135200 94 - 219823 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 81773 148 - 523245 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16104670 125 - 170899992 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+e ponAbe2.chr6 16417599 117 - 174210431 I
+
+a score=-8810.000000
+s mm9.chr10 3204724 37 + 129993255 GAAACCCAAAGCTCTCCTCTGTGAGACTCTCCTTGAA-
+s oryCun1.scaffold_214769 106753 33 - 139458 aatacacaaagaactct----taaaactcagtagtaa-
+q oryCun1.scaffold_214769 99999999999999999----9999999999999999-
+i oryCun1.scaffold_214769 I 83 C 0
+s equCab1.chr31 13060987 37 + 24938454 aaaattagaaactctgctcc-ttgaaatccactgttaa
+q equCab1.chr31 99999999999999999999-99999999999999999
+i equCab1.chr31 I 222 C 0
+s felCat3.scaffold_217398 135294 13 - 219823 --------------------gttaaactcaac-----a
+q felCat3.scaffold_217398 --------------------979998999469-----6
+i felCat3.scaffold_217398 I 94 C 0
+s rn4.chr1 230021253 11 - 267910886 --------------------------ctcaccttgaa-
+q rn4.chr1 --------------------------99999999999-
+i rn4.chr1 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e rheMac2.chr4 108513330 210 + 167655696 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 81773 148 - 523245 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e hg18.chr6 16104670 125 - 170899992 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+e ponAbe2.chr6 16417599 117 - 174210431 I
+
+a score=-12360.000000
+s mm9.chr10 3204761 49 + 129993255 GACAGTGAGGTGTCAAGCCA-------CAGATGGAAGGAGAA--GACTTTAAAACCAC-
+s oryCun1.scaffold_214769 106786 45 - 139458 gaaagcaaa----caacccaa-----ttaaatgtagacaaaa--gatct--gaactgc-
+q oryCun1.scaffold_214769 999999999----99999999-----9999999999999999--99999--9999999-
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230021264 49 - 267910886 gacagtgaggtgttaggtca-------caggtggaagTAGAG--GAGTTTGAAAACAC-
+q rn4.chr1 99999999999999999999-------999999999999999--99999999999999-
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108513540 25 + 167655696 -----------------------------AAAGGAGGCAAAA--GATCT--GAACAGG-
+q rheMac2.chr4 -----------------------------9999999999999--99999--9999999-
+i rheMac2.chr4 I 210 I 4
+s calJac1.Contig1260 81921 13 - 523245 -----------------------------------------a--gatcg--gagcagg-
+i calJac1.Contig1260 I 148 I 7
+s ponAbe2.chr6 16417716 54 - 174210431 aagaataagaagacaaacaacccaattaaaaaggaggcaaaa--gatct--gaacagg-
+i ponAbe2.chr6 I 117 I 7
+s hg18.chr6 16104795 54 - 170899992 aagaataagaagacaaacaacccaattaaaaaggagacaaaa--gatct--gaacagg-
+i hg18.chr6 I 125 I 7
+s felCat3.scaffold_217398 135307 47 - 219823 gcgaggaaacaacccagtta--------aaaagtgggcaaaa--gatgt--gaacagac
+q felCat3.scaffold_217398 58565999975577787984--------99984699974988--36477--76676765
+i felCat3.scaffold_217398 C 0 I 7
+s equCab1.chr31 13061024 49 + 24938454 gagaatgaaaagacaagcca--------cagactgggagaaactgtttt--caaaacac
+q equCab1.chr31 99999999999999999999--------999999999999999999999--99999999
+i equCab1.chr31 C 0 I 111
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e tupBel1.scaffold_114895.1-498454 403234 918 - 498454 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e otoGar1.scaffold_85251.1-136255 909 2161 - 136255 I
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=754778.000000
+s mm9.chr10 3204810 416 + 129993255 cc--------agaggacacacagagagggcaagtaagcacacgaaatg-tgt------gcatttgtgattagggag--tcccagactgaagc----caggagatgctactacgtgg--------------------ctacgattcag--cactgacagccgcaagtgttggcaatgatatggagcacggacacttgttt------cttagaggg-atgaagaattgga---gcaattcagaggacaatttgtc-agttagttacaaaactacgcatattctaactgtgtgatctacca-t------tgctctgttgggcgcttacccaaaggagtcgtaaacttaatatcaacaaaaatctgccctgaatgccat--aatgtttatagcagctttatt-cctaattgccccata--gtggaggcacacaag [...]
+s oryCun1.scaffold_214769 106831 481 - 139458 cctacacctaagaaggtatacagat--gccaaataagcatatgaaaagatgttctacagcatttgtaattagggag--ttgcaaaagaaaacaacaaaggagatatcacttaatag---------------agtggctggaatccagaatactggtagcactaagtgccgccagaggcttggagcaaagggaacttttatatctccctagagggaatgcaagatagtgcttgcagcttccaggacactttggc-aggtccttacaacactaaatgcattcttactattccaccccatagt------tgcactctgaggcatttacccaaaagagctgaaaaatt-atgtccacgcaaatctgcatagaat-----------tttatagcggctttgtt-tataattgccccaaa--ttggaagca-accaa [...]
+q oryCun1.scaffold_214769 9999999999999999999999999--9999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999---------------99999999999999999999999999999999999899999999988899999999999999999999999999999999999998999999999999999989999999999999999999-9996999999999999999999999999999999999999999999------97999999999989899998949999999999999999-9979998999999899898999999-----------99878999967899759-777676965896499--799589556-65639 [...]
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230021313 417 - 267910886 CC--------AGAGGAGACCCAGag------------catatgaagtg-tgt------tcatttgtgatcagggaa--ttacagactgaagc----caggagacagcactacatggtcagta--------gactggctacacttcag--cactgacaacggcagatgctgacagtcatgtggactattgggacttgatg------ctcggaggg-atgaagaattgga---gcagttcagaggacagtttgtc-agttagttgcaaaactaagcgtattctaactgtatgatctaccagt------tgctctgttgggcgtttacccaagggagctgtaaatttaatgtcaacaaaaatctgccctgagttgcatgtaatgtttatagcagcattatt-tctaattgccccaga--gtggaggcagacaag [...]
+q rn4.chr1 99--------999999999999999------------99999999999-999------999999999999999999--99999999999999----99999999999999999999999999--------99999999999999999--99999999999999999999999999999999999999999999999999------999999999-9999999999999---9999999999999999999999-9999999999999999999999999999999999999999999999------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999--999999999999999 [...]
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 3070 439 - 136255 ------ccaaaggagacataccaat--ggtaaataagcttatgaaaagatgctctatgtcatctgttattaaagag--ctgtcaattaaaacaac----aagaaaccactgcacatctctta--------gattggctgaaatctaaaacactgacactaccaaatggtggcaaggatgtggggcagcaggaactctcgttcatagctggtagaaatgcaaaggagtacagccagttccaaggacaatttggaccgttttctacaaagctaaacatattctcactatcgactccaacagt------tatgcttctgggtattcatccagaggagatgaaaactg-acttc--taaaaatctccaacgaat----------gtttatagcagctttactccacaattgccaaaaa--ttggaagcaacc--a [...]
+q otoGar1.scaffold_85251.1-136255 ------8889999998699999999--9879999999998989999997688999999799999967979999996--88978888999998799----69989876789977989999969--------77399569989668669986779878767853299678765678863366999548565859457986656555556667366696664285567444555465525464754252557733023539966455585654396435645645234555543545345554------34465445459325335354524536433255885346-44625--357880212242134331----------2122112222102532211112123213256663--213243321122--2 [...]
+i otoGar1.scaffold_85251.1-136255 I 2161 C 0
+s rheMac2.chr4 108513569 432 + 167655696 --------------TACATACACAT--GGCAAATAAGCCTATGAAAAGATGTTTAATGTCATCTGTAATTAGGGAA--TTACAAATTAAAACAAC----GAGATACCACTATACACCTATTA--------TATAGGCTAAAATATAAAACACTGACAACACCAAACGCTGCTGAGGATGTGAAGCAACAGGAATGCTCATTAATTGCTGGTAGAAATGCAAAATGGTGCAGGCAGTTTGGAGGACAATTTGGA-AGTTTCTTACAAAATGAAACATATTCTTACCATATGATCCAACAGT------TGTGCTCCTAAATATTTACCCAAAGGAGTTGAAAATTT-ACATC--AAAAAATGTGCACAGGAT----------GTTTATAGCAGGTTTACT-CAAAATTGCCAAAAATATTGGAAGCAACCTTA [...]
+q rheMac2.chr4 --------------99999999999--9999999999999999999999999999999999999999999999999--99999999999999999----99999999999999999999999--------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999------99999999999999999999999999999999999999-99999--999999999999999999----------999999999999999999-99999999999999999999999999999999 [...]
+i rheMac2.chr4 I 4 C 0
+s calJac1.Contig1260 81941 445 - 523245 ------ccagagaatacatacaact--ggcaaataagcctatgtaaaggtgttcagtgtcaattgtaattagagaa--ctgcaaattaaaacaac-aatgagatactggtatacacctgtta--------taagggttaaaatataaaacactgacaccaccaaacgctggtgaggatgtggagcaacaggaatgctcattgattgctggtagaaatgcaaaatggtgcagccagtttggaagacaacttgga-aatttcttacaaaactaaacgtattcttaccctatgatccaacagt------tgtgatcctagatatttacccaaaggagttgaaaatct-acatcagaaaaaatctgcacaggtt----------gtttatagcagctttact-caaaattatcaaactaatcggaagcaaccgaa [...]
+i calJac1.Contig1260 I 7 C 0
+s ponAbe2.chr6 16417777 444 - 174210431 ------tcaaagaatatatacaaat--ggcaaataagcctatgaaaagatgttcaatgtcatttgtaattagggaa--ttgtaaattaaaacaac-aatgagataccactatatacctatta--------tataggctaaaatacgaaacactgacaacaccaaatgctgctgaggatgtggagcaacaggaatgctcattaattgctggtggaaatgcaaaatggtgcaggcagtttggtggacagtttgga-agtttcttacaaaactaaatatattcttaccatgtgatccaacagt------tgtgctcctacatatttacccaaaggagttgaaaattt-acatca-aaaaaatgtgcacaggat----------gtttatagcagctttact-caaaattgccaaaaaagttggaagcaacctta [...]
+i ponAbe2.chr6 I 7 C 0
+s hg18.chr6 16104856 442 - 170899992 ------ccaaagaatacatacaaat--ggcaaataagcctatgaagagatgttcaatgtcatttgt-attagggaa--ttgtaaattaaaacaac-aatgagataccgccatatacctatta--------tataggctaaaatatgaaacactgacaacaccaaacgctgctgaggttgtggagcaacaggaacgctcgttaattgctggtggaaatgcaaaatggtgcaggcagtttggaggacaatttgga-agtttcttacaaaactaaacatattcttaccatatgatccaacagt------tgtgctcctacatatttacccaaaggagttgaaaattt-acatc--aaaaaatgtgcacaggat----------gtttatagcagatttact-caaaattgccaaaaaagttggaagcaacctta [...]
+i hg18.chr6 I 7 C 0
+s tupBel1.scaffold_114895.1-498454 404152 442 - 498454 -------CAAAAAAGACATACAAGT--GGCAGAAAAGCATATGAAAAGATGTTCAATGTCATTTATAATTTGGGCA--TTGCAAATTAAAACAAC-AGTGAAACACCACTACACATCTATTG--------GAGTAGCTAAAATCCCCAA-ATTGACAACAGCAAGTGTTGATAAGATTGTAGGGCAACAGAAA--CTCATTCATTGCTGGTGGGAATGCCAAATGGTATAACCAGTTTGGAGGACAATTTGGT-AGTTTCTTACGAAACTGAACATATTCTTACCATATAGTCCAACCATACAACCTGTACTCCTAGTAATTTA--CAAAGGGTTTGAAGACTC-ATGTCCATAAAAATCTGCACAGAAT----------ATTTGTAGCAGATTTATT-CATAATTGTCAAAAG--TTGGAAGCAGGGAAG [...]
+q tupBel1.scaffold_114895.1-498454 -------999999999999999999--9999999999999999999999999999999999999999999999999--99999999999999999-99999999999999999999999999--------9999999999999999999-9999999999999999999999999999999999999999999--9997898799999999999999899999999999999989999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999-9999999999999999998999999----------999999999999999999-999999998999999--999999989998999 [...]
+i tupBel1.scaffold_114895.1-498454 I 918 I 177
+s felCat3.scaffold_217398 135361 410 - 219823 ---------caaaaagtacgcagct--gacaaatcagtata-ggaaagatgttcagcatcgtgtttcattaggggaatttgccaattaaaacacc-agtgagatacta-tacacacctgtta---------gataactgaaatccaaaaca-tgacaacactaaatgctggcaaggatgtggagcagttggcactcttggtcattgctggtgggaacacaacgtggtacggtcaccttggaaggcactgtggc-catttcttacaaaaccaagcagatgctcaccccacgatctagcagt------tgta---------------cccaatgaattaaaaactt-acatccgcaaaaacctgtacagaat----------g-ttacaacagcttcatt-ccttaaggctgcaac--ttggaagcagtcaag [...]
+q felCat3.scaffold_217398 ---------6288811165386486--66138255626551-20885441542345655535559563351279567282336452748955266-423563522244-5441321624356---------33577779899985399988-99888887999999988999999999999999999999999999999999799999999999999999999999999999999999999999999999999-9899999999599999899997999999699997999999959999------9999---------------9997999999999999999-9999999999998999999999999----------9-9999999999999999-999999999999999--999999999999999 [...]
+i felCat3.scaffold_217398 I 7 C 0
+s equCab1.chr31 13061184 388 + 24938454 ------ccaaaaaagatacacagct--ggcaagtaagcatgtggaaagatgttcaacataacgtttcattagggaa--ttgcaaattaaaa---c-aatgagataccactacacacctaatacaataacatgataac-aaaatccaaaaca-tgacaccaccaaatgctggtgaggatgtggagcaataggaactc----tcgctgctggtggaaatgtagaatggtacagccactttggaaggc-----------------acaaaactaaacg------tactctacgatccagcaaa------c------------------ccaaataaattaaaaac---atagccaaaaaaacctgcacagaat----------g-ttatagcagctttctt-tataagtgccaaaac--ttggaagca------ [...]
+q equCab1.chr31 ------9999999999999999999--9999999999999999999999999999999999999999999999999--9999999999999---9-99999999999999999999999999999999999999999-9999999999999-99999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999-----------------9999999999999------9999999999999999999------9------------------99999999999999999---9999999999999999999999999----------9-9999999999999999-999999999999999--999999999------ [...]
+i equCab1.chr31 I 111 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=665006.000000
+s mm9.chr10 3205226 372 + 129993255 gagtattacttgacaa-t-----------------------------------------------------------------------------aaaaag-acatgagctat-ggaatcgtgcaaagatacagagaaaacttggatgtatcctgctagttgaaataaaccaataaggaaa-agctgcatgctatataattccagctggttgatagtctagagaaagc-agagccataaagacagtggaaagacaaatgctgacctgaagtccagggcaaggaagaata------aaatggattgttatgttgagcatgggaggacactg---atggca-atggaagtgtacaactgaatgctttaataaag--gatgtaaaacattagatgtttgtcaaaacatttagaac-atgcaccacaga-----c [...]
+s oryCun1.scaffold_214769 107312 352 - 139458 gattattattctgcag-t-----------------------------------------------------------------------------acagat-aaatgagttat-caagttgtgaaaaaatgtggaaaaaact-----------------------taatccagactggaaa-ggtgatatgctgtatcattccaagtgtttgacattgtggaaaaaac-taaaccatgcagac--tgaaaataccagtggctgctgagggttcatggtggggtaggg-g------agat-gataatgaggtcaagtgcagggc-atatgc---agggca-gtgaaactattctgtatgacactgtaatgatg--ggtgcctgacattgggcatatggcaaaacctgtgg--t-gttcaccactaagggtgc [...]
+q oryCun1.scaffold_214769 8696579699979969-9-----------------------------------------------------------------------------987798-99766685899-6699999997999999999999999987-----------------------8999975999999999-9979999999999999999965999999999999999979999999-96999669996799--999999999976999998899969989976878999988489-9------9864-66688588744768898744486-887684---348968-46868978636875486686688666869659--97664868745465965555575357754647556--3-535534645537495454 [...]
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230021730 367 - 267910886 gaatattactcaacat-t-----------------------------------------------------------------------------aagaa----atgagctatcaaaattgtgaaaagagacagagaaaacttgaatgtatctcgttaattgaaataaaccaaaaaggaaa-agctgcacgctgcataattccagctggttgatattctagagaaagc-gaagccatggagacagtgggaagatgagtgctagccaggagtttagggcaaggaagagtg------aaatggattattaggttgagcacgggag-acgctg---atggca-atgaaattacccaaccgaatgctttaataaag--gata-aaaacattaaatgtttgtcagaacctttaaaac-aagcaccacaaa-----c [...]
+q rn4.chr1 9999999999999999-9-----------------------------------------------------------------------------99999----99999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999------9999999999999999999999999999-999999---999999-99999999999999999999999999999999--9999-999999999999999999999999999999999-999999999999-----9 [...]
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16105298 390 - 170899992 gaatattattcagcaa-t-----------------------------------------------------------------------------aaaaaagaaataagctat-caagtcatgaaaagatatggaggaaacttacaagtatgttgttaattgaaataaggcagtctgaaaa-gactacatgctgcataattctgactatttgactttctagaa-aatc-aaaaccacagagacagtaaaaagatctatgtttgccaggggttcatggtgagggatgggg------tggtggataattaggttgcatacagggg-atattt---aggaca-ctgaaactatcctatatgatactgtaatgaag--gatacgtgacattaggcatttgtcagaactcatagaat-gtacaccacaaa----aa [...]
+i hg18.chr6 C 0 I 325
+s ponAbe2.chr6 16418221 377 - 174210431 gaatattattcagcaa-t-----------------------------------------------------------------------------aaaaaagaaataagctat-caagtcatgaaaag--atggaggaaacttacaagcatgttgttaattgaaataaggcagtctgaaaa-ggctacatgctgcataattctgactatttgattttctagaa-aatc-aaaaccacagggacagtaaaaagatctatgtttgccaggggttcatggtgagggatgggg------tgctggataattaggttgcatacagggg-atattt---aggaca-ttgaaactatcctatatgatactgtaatgatg--gatacgtgacattaggcatttgtcagaactcatagaat-gtacaccacaaa----aa [...]
+i ponAbe2.chr6 C 0 I 334
+s calJac1.Contig1260 82386 386 - 523245 gaatgttattcagcaatt-----------------------------------------------------------------------------aaaaaaaaaaaaagctat-caagtcatgaaaaaatatggaggaaacttac----atgatattaattgaaataaggta-tctgtaaa-ggctacatgctgcataattccaactatttggcattatagaa-aatt-aaaactgcagggacaatgaaaagatctatgtttgccagggatttatggtgagggatgggg------tggtgaatagttaagttgtgtacagggg-atattt---aggaca-ttgaaactattctgtatgatactgtaatgatggagatacatgacgttaggcatttgtcaaaacccatagaat-gtacaccacaaa----aa [...]
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108514001 384 + 167655696 GAATATTATTCAGCAA-T-----------------------------------------------------------------------------AAAAAAGAAATAAGCTAT-TAAGTCCTGAAAATATATGGAGGAAACTTACAAGCATATTGTTAATTGAAATAAGGCAGTCTGAAAA-GGCTACATGCTGCAAAATTCTGACTATTTGGCATTCTAGAA-AATC-AAAACCACAGAGATAGTAAAAAGATCTATGTTTGCCAGGGGTTCATGGTGAGGGATGGGG------TGGTGGATAATTAGGTTGCGCACAGGGG-ATATTT---AGGACA-TTGAAACTATCCTGTATGAGACCGTAATGATG--GATACATGACATTAGGCATTTGTCAGAACTCGTAGAAT-GTACACCACAAA----AA [...]
+q rheMac2.chr4 9999999999999999-9-----------------------------------------------------------------------------999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999-9999-999999999999999999999999999999999999999999999999999999999999------9999999999999999999999999999-999999---999999-99999999999999999999999999999999--99999999999999999999999999999999999999-999999999999----99 [...]
+i rheMac2.chr4 C 0 I 338
+s otoGar1.scaffold_85251.1-136255 3509 369 - 136255 gaatgctattcagaaa-t-----------------------------------------------------------------------------ac-----aaatgagctat-cgagtcatggacagatatgggagaaacttaaatgcgtatgttcaattgaaataagctgatctgaaag-ggctgtgtgctctgtaattccaactatttgacattctggaagaagc-aaatccgtagtgatagggaaaagatgactgtttggcaggagttcacagggaggga-gagg------tgatggataattaggttgag--caggag-atatttttagggatatttgaaactattttgtatgatactgtaatgatg--gatgcatgagattaggcgtttgtcaaaacccattgaat-gt--------aa----ag [...]
+q otoGar1.scaffold_85251.1-136255 2423202135422274-3-----------------------------------------------------------------------------25-----68545454424-4454433354354656445895668455568556766546566669975867666698677966855-8366869576686776366566779999795997996967789899-9997997667697979744996976749679979477698878759798597579-9999------99969979759989877997--999799-897899988879998998899689899997999999798999999989--99989999999998998999979999977999989998-99--------99----99 [...]
+i otoGar1.scaffold_85251.1-136255 C 0 I 6
+s tupBel1.scaffold_114895.1-498454 404771 455 - 498454 GACTGTGACTTGGTCA-TCCACCTGGTGGGGGGTAATTTCTCACCCCCCCCCATTCTCTTGTCTCTCTCCAGTGTGTGGCCTATAGCAAACATTAAAAAAAGAAATGAGGTAT-CAAGTTATAAAAATATATGGAGGAAATTTAAATCCATATTGTTAATTGAAGTAAGCCAGTCTGAAAAGGGCTACATGCTGTATAATTACAACTATTTGACATTCTGGAAAAAGC-AAAATTATAGACATACTACAAAGACCAGTGGTTTCCAGAGGTTCACA-TGAGGGAGGGCA------GGATGTGTGATGAGGGTGAG----------TTTTT---TGGGCA----GCACAGTTCTGTCTGACACTGTAAGCATG--GATACATGTCATGTGGCATTTGCCGAAACCTGTAGAAC-ATAAGCCACAAA----GA [...]
+q tupBel1.scaffold_114895.1-498454 9999999999896797-899899699899999999799999969999999999999999989999999999999999999999999999799999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999-999999999999------99999999999999999999----------99999---999999----99999999999999999999999999999--99999999999999999999999999999999999999-999999999999----99 [...]
+i tupBel1.scaffold_114895.1-498454 I 177 C 0
+s felCat3.scaffold_217398 135771 384 - 219823 gactgttactgagcaa-t-----------------------------------------------------------------------------aaaaag-aaatgatcga--aaagccatgaaaagatacggaagaaccttaaattcatatcaccaagtgaaagaagcccgtctgaaaa-ggctacatattgtatgattctaattatttgacattctggaagaggcaaaaaccacaaagtcagtaaaaagaccagtgatggccaagggttcatagtgggggagggcg------ggagagatgaatag--atagaacggggg----ttt---caggta-gtgaaagtgttc--tgtgataccgtagaggtg--gatacatgacggtgtgcatttgttgaaacccacagaactatataccgcaaa----ga [...]
+q felCat3.scaffold_217398 9999999999999999-9-----------------------------------------------------------------------------999999-9999999999--9999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------99999999999999--999999999999----999---999999-999999999999--999999999999999999--999999999999999999999999999999999999999999999999999----99 [...]
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13061572 370 + 24938454 gaatcttattcagcac-t-----------------------------------------------------------------------------aaaaag-aaatgaac-----------tgtcaagccatggagaaaccttaaaagcatattactaagtggaagaagccagtctgaaaa-ggctatgtactgtataattctaattatttgaccttctggcaaaggc-aaaaccataa---------------cagtgattgccaggggttcatagtgggggagaggggagggtggagagatgaataggtgtagcacggtgg-at-ttt---taggtg-gtgaaactattcggtatgatactgtaatggtg--gatacatgacattaggcacttgtcaaaacccttagaacaatagaccacaga----ga [...]
+q equCab1.chr31 9999999999999999-9-----------------------------------------------------------------------------999999-99999999-----------999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999-9999999999---------------999999999999999999999999999999999999999999999999999999999999999999999-99-999---999999-99999999999999999999999999999999--999999999999999999999999999999999999999999999999999----99 [...]
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=65484.000000
+s mm9.chr10 3205598 40 + 129993255 tagctataa-aaatatgcaaca-cc-atata-g---------ata----ttagtgat
+s oryCun1.scaffold_214769 107664 42 - 139458 gtgttgtaacaaatgtaccctg-ccaatgca-g---------atg----ttaattct
+q oryCun1.scaffold_214769 5252452335574353347536-23122435-1---------324----24335533
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230022097 44 - 267910886 cagctgtaa-aaatatacacca-cc-acgta-g---------atagacgttaatgat
+q rn4.chr1 999999999-999999999999-99-99999-9---------999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16106013 44 - 170899992 catttataacaaatgcaccacacctagtacaag---------atg----ttaataat
+i hg18.chr6 I 325 C 0
+s ponAbe2.chr6 16418932 43 - 174210431 catttgtaacaaatgcaccaca-ctagtacaag---------atg----ttaataat
+i ponAbe2.chr6 I 334 C 0
+s rheMac2.chr4 108514723 35 + 167655696 --------ACAAATGCATTGCA-CTAGGACAAG---------ATG----TTAATAAT
+q rheMac2.chr4 --------99999999999999-9999999999---------999----99999999
+i rheMac2.chr4 I 338 C 0
+s calJac1.Contig1260 82772 43 - 523245 catttgtaacaaatgcagcaca-gtagtacaag---------atg----ttaataat
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 3884 43 - 136255 taattataacaaacgccccata-ctaatacaag---------ata----ttactaat
+q otoGar1.scaffold_85251.1-136255 9999999999996999999999-9999999999---------999----99899999
+i otoGar1.scaffold_85251.1-136255 I 6 C 0
+s tupBel1.scaffold_114895.1-498454 405226 43 - 498454 CAATTTTAACACACGTCTCATA-CTAGGACAGG---------ATG----CTAATAAG
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999-9999999999---------999----99999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s felCat3.scaffold_217398 136155 52 - 219823 cggttgtaacaaatgtaccaca-ctaaggccaatgtttttatatc----ttattatt
+q felCat3.scaffold_217398 9999999999999999999999-9999999999999999999999----99999999
+i felCat3.scaffold_217398 C 0 I 20
+s equCab1.chr31 13061942 43 + 24938454 cagttgtaacaaatgtaccaca-ctaatgcaag---------atg----ttaataat
+q equCab1.chr31 9999999999999999999999-9999999999---------999----99999999
+i equCab1.chr31 C 0 I 145
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=-2826.000000
+s mm9.chr10 3205638 77 + 129993255 gggagaa---------gcgggcatgg------------agagag---------gaagtctggaaa--caatgtgtttgttgct----------tga----tttc----cttcccaagctctgaaaac
+s oryCun1.scaffold_214769 107706 49 - 139458 aggggaa---------atggctatt------------------------------------------caatgaactttttgct----------ctt----tttt----tt---------ctttaaac
+q oryCun1.scaffold_214769 3577545---------543745444------------------------------------------5232534456665242----------216----7676----75---------42752633
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230022141 77 - 267910886 gggggaa---------gcCAGCTTGG------------AGAGAA---------AGAACCTGGAAA--CAATGTGTTTGATGCT----------TGT----TTTC----CTTCCCAAACCCCGCAAAC
+q rn4.chr1 9999999---------9999999999------------999999---------999999999999--9999999999999999----------999----9999----9999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16106057 86 - 170899992 agaggaa---------actgggaatggaggctggtggtggaggg---------gatatatgggaactcaatgtactttttgtt----------caatttttttt----tt---------ttataaac
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16418975 84 - 174210431 agaggaa---------gctgggaatggagggtggtggtggaggg---------gacttatgggaactcaatggactttttgct----------caa--tttttt----tt---------atataaac
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108514758 82 + 167655696 AGAGGAA---------GCTGGGAATGGAGGGTGGTGGTGGAGGG---------GATATATGGGAACTCAATGGACTTTTTGCT----------CAA----TTTT----TT---------AAATAAAC
+q rheMac2.chr4 9999999---------9999999999999999999999999999---------999999999999999999999999999999----------999----9999----99---------99999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 82815 85 - 523245 agaagaa---------gctgggaagggtgggtagtggtggaggg---------agtatatgggaactgaatggaccttttgct----------caa-tttttat----tt---------ttataaac
+i calJac1.Contig1260 C 0 I 364
+s otoGar1.scaffold_85251.1-136255 3927 79 - 136255 aaaggaa---------acaggggctg--gggtggtggtgagcag---------agtacatgggaactcaataaactttttgct----------cac-----ttt----tg---------ggataaac
+q otoGar1.scaffold_85251.1-136255 9999999---------9999999999--9999999999999999---------999999999999999999999999999999----------999-----999----99---------99999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405269 81 - 498454 AGGGGAA---------CCTGAGGGTAGAGGCTGG-GGAGCGAGC---------AGTGTATGGGAACTCAGAGTATGCCCCCCC----------TAT----TTTT----TT---------TTGTAAAC
+q tupBel1.scaffold_114895.1-498454 9999999---------999999999999999999-999999999---------897999998999999999999999999999----------999----9999----99---------99999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 18
+s felCat3.scaffold_217398 136227 69 - 219823 --ggaaattgtgttggggtgggaagga--------------------------agcacatagaaactc--tgcactttatgct----------cag----tttt--------------tctggaaac
+q felCat3.scaffold_217398 --9999999999999999999999999--------------------------999999999999999--9999999999999----------999----9999--------------999999999
+i felCat3.scaffold_217398 I 20 C 0
+s equCab1.chr31 13062130 92 + 24938454 -gagaaa---------ggtgggcacgaatgttagctcagggccagtcttcctcagcaaaaagaggatt--ggcagcagatgttagctcagggctaa----tcttcctc-------------------
+q equCab1.chr31 -999999---------9999999999999999999999999999999999999999999999999999--99999990999999999999999999----99999999-------------------
+i equCab1.chr31 I 145 I 123
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=2612.000000
+s mm9.chr10 3205715 26 + 129993255 ctgaag-cttattGCAAACGATACAA-------C
+s oryCun1.scaffold_214769 107755 29 - 139458 ctaaaa-cttctcataaa----gcaaatctatta
+q oryCun1.scaffold_214769 435665-46333514374----234652333131
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230022218 23 - 267910886 CTGGAG-TTTATTACAAAC---ACAA-------C
+q rn4.chr1 999999-999999999999---9999-------9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16106143 30 - 170899992 gtgaaa-cagcttaaaaaa---gtaaagtccatt
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16419059 30 - 174210431 ctgaaa-cagcttaaaaaa---gtaaagtccatt
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108514840 30 + 167655696 CTAAAA-CAGCTTTAAAAA---GTAAAGTCCATT
+q rheMac2.chr4 999999-999999999999---999999999999
+i rheMac2.chr4 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4006 29 - 136255 gtaaaa-caaatttaaaaa---gtaaagtAT-TT
+q otoGar1.scaffold_85251.1-136255 999999-999999999999---999999999-99
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405368 31 - 498454 GTAAAATCTGTTTAAAAAA---ATTAACCAAACC
+q tupBel1.scaffold_114895.1-498454 9999999999999999999---999999999999
+i tupBel1.scaffold_114895.1-498454 I 18 C 0
+s felCat3.scaffold_217398 136296 24 - 219823 ctaaaa-ctgcttttaaa----ataaaac-----
+q felCat3.scaffold_217398 999999-99999999999----9999999-----
+i felCat3.scaffold_217398 C 0 I 7
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e bosTau3.chr9 13738669 2566 - 95030419 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e equCab1.chr31 13062222 123 + 24938454 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 82900 364 - 523245 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=-49389.000000
+s mm9.chr10 3205741 38 + 129993255 ---------------------------------AACAAAAACTGATTTAGAGTATGTAGAATAC--TTATCCC-
+s oryCun1.scaffold_214769 107784 13 - 139458 ---------------------------------aAAAAAAACTGAT----------------------------
+q oryCun1.scaffold_214769 ---------------------------------5677866522343----------------------------
+i oryCun1.scaffold_214769 C 0 I 772
+s rn4.chr1 230022241 33 - 267910886 ---------------------------------AACAAAAACTGATTTAGAGTA----GAATAT--TT-CCCG-
+q rn4.chr1 ---------------------------------999999999999999999999----999999--99-9999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16106173 33 - 170899992 ---------------------------------gaAAAAA--TGGCTTAGTCTC---AAAACAA--TTTTTTT-
+i hg18.chr6 C 0 I 9
+s ponAbe2.chr6 16419089 33 - 174210431 ---------------------------------aaAAAAA--TGGTTTAGGCTC---AAAACAA--TTTTTTT-
+i ponAbe2.chr6 C 0 I 5
+s rheMac2.chr4 108514870 33 + 167655696 ---------------------------------AAAAAAA--TGGTTTAGGCCC---AAAACAG--TTTTTTT-
+q rheMac2.chr4 ---------------------------------9999999--999999999999---9999999--9999999-
+i rheMac2.chr4 C 0 I 13
+s otoGar1.scaffold_85251.1-136255 4035 31 - 136255 ---------------------------------AAAAAAA--TGGTTCAGTTCC---TCAAAAT--TTATC---
+q otoGar1.scaffold_85251.1-136255 ---------------------------------9999999--999999999999---9999999--99999---
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405399 21 - 498454 ---------------------------------AAACCAA-----------------AAAAAAA--TTAACTT-
+q tupBel1.scaffold_114895.1-498454 ---------------------------------7789999-----------------9899999--9999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13062345 67 + 24938454 aactaaaactgctttgaaaaataaaatatattttaaaaaA--TGGTGCAGGCAA---AAAATAT--TTTTTTTA
+q equCab1.chr31 9999999999999999999999999999999999999999--999999999999---9999999--99999999
+i equCab1.chr31 I 123 C 0
+s felCat3.scaffold_217398 136327 46 - 219823 AAAAAAAGCAGGTACAGGCaaaaaaaaa------aaaaaa------------aa---aaaaaG-------TTAA
+q felCat3.scaffold_217398 9999999999999999999999999999------999999------------99---999999-------9999
+i felCat3.scaffold_217398 I 7 C 0
+s bosTau3.chr9 13741235 34 - 95030419 -----------------------------------AAAAA--AGGTGCAGGACA---AGATGATTATTTTTTTA
+q bosTau3.chr9 -----------------------------------99999--999999999999---99999999999999999
+i bosTau3.chr9 I 2566 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e monDom4.chr2 106253293 777 - 541556283 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e calJac1.Contig1260 82900 364 - 523245 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e panTro2.chr6 16628203 1765 - 173908612 I
+
+a score=85002.000000
+s mm9.chr10 3205779 57 + 129993255 CCTTGTCAGTATTTAGTATCTAAGAAAGCATGGGTGA-----------CCCCTACATGAATAAGCTGT
+s bosTau3.chr9 13741269 51 - 95030419 TGTTGTCAGTAGTTGGTATGCAGAGAA-TGTGAGCCA-----------TTCTTA----AAAAAACGC-
+q bosTau3.chr9 999999999999999999999999999-999999999-----------999999----999999999-
+i bosTau3.chr9 C 0 I 15
+s felCat3.scaffold_217398 136373 51 - 219823 CCTTGTGAATATTTGATATGTATAGAA-TGTGAGCGA-----------TCAGGA----AAAAACCAT-
+q felCat3.scaffold_217398 999999999999999999999999999-999999999-----------999999----999999999-
+i felCat3.scaffold_217398 C 0 I 14
+s equCab1.chr31 13062412 51 + 24938454 CCTTGTCAATATTTGGTATGCAGAGAA-TGTGAGTGA-----------TCGCTA----AAAAAGCAT-
+q equCab1.chr31 999999999999999999999999999-999999999-----------999999----999999999-
+i equCab1.chr31 C 0 I 15
+s tupBel1.scaffold_114895.1-498454 405420 34 - 498454 ----GTCATTA--------------AG-TGTAAGCTA-----------TCAATA----AACAGACATG
+q tupBel1.scaffold_114895.1-498454 ----9999999--------------88-999999999-----------999999----9899999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4066 50 - 136255 --TTATCAATATTTGGTATACAGAGAA-GGTGAATGG-----------TCACTA----AGAAGTTACT
+q otoGar1.scaffold_85251.1-136255 --9999999999999999999999999-999999999-----------999999----9999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 83264 51 - 523245 -CTTGTCAATATTTGGTGTTCAGAGAC-TGTGAGCAG-----------TTATTG----AAAAGTCAGG
+i calJac1.Contig1260 I 364 C 0
+s hg18.chr6 16106215 52 - 170899992 CCTTGTCAATATTTGGTATTCAGAGAC-TGTGAGCAA-----------TCATTG----AAAAGTCAGG
+i hg18.chr6 I 9 C 0
+s panTro2.chr6 16629968 52 - 173908612 CCTTGTCAATATTTGGTATTCAGAGAC-TGTGAGCAA-----------TCATTG----AAAAGTCACG
+q panTro2.chr6 999999999999999999999999999-999999999-----------999999----9999999999
+i panTro2.chr6 I 1765 C 0
+s ponAbe2.chr6 16419127 52 - 174210431 TCTTGTCAATATTTGGTGTTCAGAGAC-TGTGAGCAA-----------TCATTG----AAAAGTCAGG
+i ponAbe2.chr6 I 5 C 0
+s rheMac2.chr4 108514916 52 + 167655696 CCTTGTCAATATTTGGTGTTCAGAGAC-TGTGAGCAA-----------TCATTG----AAAAGTCAGG
+q rheMac2.chr4 999999999999999999999999999-999999999-----------999999----9999999999
+i rheMac2.chr4 I 13 C 0
+s rn4.chr1 230022274 38 - 267910886 CCTTGTCAG-------------------CATGAGGGA-----------GCCCTACATTAATAACCTGT
+q rn4.chr1 999999999-------------------999999999-----------99999999999999999999
+i rn4.chr1 C 0 C 0
+s monDom4.chr2 106254070 54 - 541556283 -------ATTCTTTAGTA-GCAGCAAA-TATGGGTTAATAAAGAGACTTCATTT----ATAAACTTA-
+q monDom4.chr2 -------99999999999-99999999-99999999999999999999999999----999999999-
+i monDom4.chr2 I 777 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e canFam2.chr1 78268858 1731 - 125616256 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=137205.000000
+s mm9.chr10 3205836 55 + 129993255 TAGGTGGCTGGTGA---------CTTCTTTGCTGCCAGTGGGG--TTCCTTCCTGGCTT-GTGCTTT
+s rn4.chr1 230022312 55 - 267910886 CAGGTGGCCAGTGG---------CTTCTTCATTGCCAGAGGGG--TTTCTTCCTGGCCT-GTGCTTT
+q rn4.chr1 99999999999999---------99999999999999999999--99999999999999-9999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108514968 66 + 167655696 TAGGTGGCCTTGGAGAGATGATTCCACTTCATTGCTGAAAGGGGATTTCTGCCTGGCCT-GTGCTCT
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999-9999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419179 65 - 174210431 TAGGTGGCTGGGGAGAGATGATT-GACTTCATTGCTGAAAGGGGATTTCTGCCTGGCCT-GTGCTCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630020 66 - 173908612 TAGGTGGCCTGGGAGAGATGATTCCACTTCATTGCTGAAAGGGGATTTCTGCCTGGCCT-GTGCTCT
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999-9999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106267 66 - 170899992 TAGGTGGTTGGGGAGAGATGATTCCACTTCATTGCTGAAAGGGGATTTCTGCCTGGCCT-GTGCTCT
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83315 66 - 523245 TAGGTGGCCAGGGAGAGATGATTCCACTTCATTGCTGAAAGAGGATTTCTGCCTGGCGT-GTGCTTG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4116 65 - 136255 CAGGTGGCTGGGGATGGGGGATTCTCCTTAACTGCTGGAAGGGG-TTTCTGTCTGGCCT-GTGATGT
+q otoGar1.scaffold_85251.1-136255 99999999999999999999999999999999999779999999-99999999999999-9999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405454 66 - 498454 AGCGTGACTAGGAATAGAAGATTCTCCCTAAGGGAGGAAGGGTGATTTCTGCCTGGCTT-GCACTCT
+q tupBel1.scaffold_114895.1-498454 99999998999999999999969999999999999999999679869898989999589-9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13741335 52 - 95030419 --------------TACATGGTTCTCTTTAGCTGCTGAAAGGGGGTTTCCGCCCAGCCT-GTGCACT
+q bosTau3.chr9 --------------999999999999999999999999999999999999999999999-9999999
+i bosTau3.chr9 I 15 C 0
+s equCab1.chr31 13062478 51 + 24938454 --------------TGGATCATTCTCCTTAACTGCCAAGAGGGGG-TTCTGCCCAGCCT-GGGCTCT
+q equCab1.chr31 --------------9999999999999999999999999999999-9999999999999-9999999
+i equCab1.chr31 I 15 C 0
+s felCat3.scaffold_217398 136438 45 - 219823 --------------TAGATGATTGTCCTTAACTGCCAAACGGGGGTTTCTGTACAGTCT--------
+q felCat3.scaffold_217398 --------------999999999999999999999999999999999999999999999--------
+i felCat3.scaffold_217398 I 14 C 0
+s canFam2.chr1 78270589 53 - 125616256 --------------TAGGTGATTCTCCCTCACTGCCAGATGGGGGTTTCTGTACAGTCCGTGGCTCT
+q canFam2.chr1 --------------99999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 1731 C 0
+s monDom4.chr2 106254124 45 - 541556283 --------------TAAATTATTCCTCACCCCCTTTAA-------TCCCCAGGCACATT-GTGCCAT
+q monDom4.chr2 --------------999999999999999999999999-------99999999999999-9999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e sorAra1.scaffold_256646 115196 2299 - 121936 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=241361.000000
+s mm9.chr10 3205891 58 + 129993255 ACAGTGGTCATA-----------------AAAAGCCGTGCT-TTTTA---GG--AAGTTGAAACTGTAGTGACATTCCTGC
+s rn4.chr1 230022367 58 - 267910886 ACAGTGGTTGTA-----------------AAAAGCCATGCT-TTTTA---GA--AAGCTGAAACTGTATCGACATTCCCAA
+q rn4.chr1 999999999999-----------------999999999999-99999---99--999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515034 73 + 167655696 TCGGTGGTCATGGAGGAGTGAATAT----AAAAACTGCCCT-TTGTA---AACAAAGCTGAAATAGTGGCACTATTCCCAC
+q rheMac2.chr4 9999999999999999999999999----999999999999-99999---9999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419244 73 - 174210431 TCAGTGGTCATAAAGGAGCTAATAT----AAAAGCTGCCTT-TTCTA---AACAAAGCTGAAATAGTGGCACTATTCCCAC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630086 73 - 173908612 TCAGTGGTCATAAAGGAGCTAATAT----AAAAGCTGCCTT-TTCTA---AACAAAGCTGAAATAGTGGCGCTATTCCCAC
+q panTro2.chr6 9999999999999999999999999----999999999999-99999---9999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106333 73 - 170899992 TCAGTGGCCATAAAGGAGCTAATAT----AAAAGCTGCCTT-TTCTA---AACAAAGCTGAAATAGTGGCACTATTCCCAC
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83381 73 - 523245 CCAGTGATCATAAGGGAGTTAATAT----AAAAGCTGTCCT-TCCTA---AACAAAGCTGAAATAGTGGCACTGTTCCCAC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4181 73 - 136255 CCAGTGGTTGCAAAGGAGTTAAGGT----AAAGGCTGTACT-CTTTA---AGCAAAGCTGAAATAGCGGCACCATTTTCAC
+q otoGar1.scaffold_85251.1-136255 9999999979999999999999999----999999997699-99999---7668999857999993585536967995956
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405520 73 - 498454 GCAGTGATCCAAAAGGAGTTAATAT----AAAATCTGCCTT-TTCTG---AACAAAGCTGAAAGAGTGGCACCATTCCCAC
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999----999999999999-99999---9999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 117495 62 - 121936 ------------ACAGAGTTAATAG----AAAAGCTGCCCTGCTTCA---AGCAGCGCTGAAATAGGAGCCCCGTTCCCAC
+q sorAra1.scaffold_256646 ------------9999999999999----999999999999999999---9999999999999999999999999999999
+i sorAra1.scaffold_256646 I 2299 C 0
+s canFam2.chr1 78270642 68 - 125616256 TCAGTGGCCTTAA-----TTCACAT----AAGAGCTGCACT-CTTTA---AACAAAGCCAAAGTAGTGGCACTATTTCCTC
+q canFam2.chr1 9999999999999-----9999999----999999999999-99999---9999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 136483 62 - 219823 ---GTGCTCCTAA-----TTCATAT----AAGAGCTGCGCT-CTGTA---AACAAAGCTGA---AGTGGCACCGTTGCCAC
+q felCat3.scaffold_217398 ---9999999999-----9999999----999999999999-99999---99999999999---99999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13062529 72 + 24938454 TCAGGGGTTGTAAAGAAGTTAATAT----GAAAGCGGCA-T-TTTTA---AACAAAGCTGAAATACTGGCACCGTTTTCAC
+q equCab1.chr31 9999999969999999999999999----9999999999-9-99999---9999999999999999999999989999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13741387 72 - 95030419 TCAGTGGCTGTAAATAAGTTAATCT----AAAAGCTGCACT-TTTAA---AGCAAAGCTGGACTCATGGCACTATT-CTAC
+q bosTau3.chr9 9999999999999999999999999----999999999999-99999---99999999999999999999999999-9999
+i bosTau3.chr9 C 0 C 0
+s monDom4.chr2 106254169 54 - 541556283 -----------------ATTGATATATGAAGATACTTCCTT-TTTTAGGGAGTAAAGT----ATAGTAAGATAACT-----
+q monDom4.chr2 -----------------999999999999999999999999-9999999999999999----99999999999999-----
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e gasAcu1.chrIV 17071645 0 - 32632948 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e oryLat1.chr10 8615790 15096 - 27595823 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e ornAna1.chr2 14898998 1705 - 54797317 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e cavPor2.scaffold_265563 7438 1945 + 10554 M
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=192503.000000
+s mm9.chr10 3205949 55 + 129993255 AGACCTTGGACACAGAGGCCC-CGTGCCAGGTGTTCCTTGAGCAGGATTGTCACAG
+s ornAna1.chr2 14900703 29 - 54797317 ---------------------------CAAGCATTTGTCAAACACTATTACCAATT
+i ornAna1.chr2 I 1705 I 2
+s bosTau3.chr9 13741459 53 - 95030419 ACGTTGCAAATATGGAAGCCA-CGTGCCACG--TGGACTGGGTGGTTTTATCACAG
+q bosTau3.chr9 999999999999999999999-999999999--99999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13062601 55 + 24938454 AGATTGCAAATACGGAGTCCA-AATGCCATGCATTCACTGAGCAGTATTATCAAAA
+q equCab1.chr31 999989999999999999999-9998799999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 136545 55 - 219823 GGATCGCAGATACGAAGTCCC-AATGCCATGCCTTCGTCAATTAACATTATTAAAA
+q felCat3.scaffold_217398 999999999999999999999-9999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78270710 55 - 125616256 CGATTGCAAATACAAAGTCCA-AATGCCAAAGCTTCATTGGGTAGCATTATTAAAA
+q canFam2.chr1 999999999999999999999-9999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s sorAra1.scaffold_256646 117557 55 - 121936 AGAGGGTAAACACGGGGTCCA-GATGCCCCGCGTTCATTGAGCAATATTATCAGAG
+q sorAra1.scaffold_256646 999999999999999999999-9999999999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405593 55 - 498454 AGATTGCAAATACAGAGTCCA-AAGGCCACGTGTTCATTGAGCAGAATTACCGGAA
+q tupBel1.scaffold_114895.1-498454 999999999999999999999-9999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4254 55 - 136255 AGAATGCACATACGTAGTCCA-AATACCATGTATTCCTGGAGCAGAGTTATCAAAA
+q otoGar1.scaffold_85251.1-136255 996255425669351352666-9451646555228333635565430224465775
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 83454 55 - 523245 AGAGGGCAAACATGGAGTCTA-AATGTCATGCATTCATTGAGCAGAATTATCAGAA
+i calJac1.Contig1260 C 0 C 0
+s hg18.chr6 16106406 55 - 170899992 AGATGGTAAACATGGAGTCTA-AATGCCATGCATTCACTGAGCAGAATTATCAAAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16630159 55 - 173908612 AGATGGTAAACATGGAGTCTA-AATGCCATGCATTCACTGAGCAGAATTATCAAAA
+q panTro2.chr6 999999999999999999999-9999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16419317 55 - 174210431 AGATGGTAAACATGGAGTCTA-AATGCCATGCATTCATTGAGCAGAATTATCAAAA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108515107 55 + 167655696 GGATGGTAAATATGGAGTCTA-AATGCCATGCATTCATTGAGCAGAATTATCAGAA
+q rheMac2.chr4 999999999999999999999-9999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s rn4.chr1 230022425 54 - 267910886 AGACCGTG-ACATAGAGTCCC-AGTGCCAGGCGTTCCTTGAGCAGGATTATCCCAG
+q rn4.chr1 99999999-999999999999-9999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 9384 56 + 10554 aGATTGCAAATAGGGAGGCCCAAGTGCTTTGTATTCACTGAACAGAATTACCAAAA
+q cavPor2.scaffold_265563 32433723337655556545532486556864556515686654365587754665
+i cavPor2.scaffold_265563 M 1945 C 0
+s monDom4.chr2 106254223 21 - 541556283 ------------------------TGCCAGGCAT-----------AATTGCTGAAA
+q monDom4.chr2 ------------------------9999999999-----------99999999999
+i monDom4.chr2 C 0 C 0
+s oryLat1.chr22 12882737 28 - 28810691 ----------------------------AGACGCATCGTTAGAGGATTTGGCATGC
+q oryLat1.chr22 ----------------------------9999999999999999999999999999
+i oryLat1.chr22 I 3727 C 0
+s gasAcu1.chrXV 12519615 18 - 16198764 --------------------------------------TGAGAATATTTAGCGCAG
+q gasAcu1.chrXV --------------------------------------999999999999999999
+i gasAcu1.chrXV I 3845 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e dasNov1.scaffold_13068 27214 0 + 27231 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=218935.000000
+s mm9.chr10 3206004 43 + 129993255 CAAG-TGCTG---GCCAGAGCCAGAGATTAC--A---CGTGAGGTGCCTTGC
+s cavPor2.scaffold_265563 9440 44 + 10554 ACGGTTGCTG---ACCAGTGCTAAAGGTTGT--A---AGTGAAGTGCATTTC
+q cavPor2.scaffold_265563 5557888768---745458976585887896--5---888987788457888
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230022479 43 - 267910886 CCAG-TGCTG---GGCAGAGCCAAAGATGAC--A---CGTGGGGTGCAATGC
+q rn4.chr1 9999-99999---999999999999999999--9---999999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515162 43 + 167655696 TGAT-TGCCG---ACCAGACCTAAAGATTAT--A---GGTGAAATGCGTTTC
+q rheMac2.chr4 9999-99999---999999999999999999--9---999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419372 43 - 174210431 TGAT-TGCCA---ACCAGAACTAACGATTAT--A---GGTGAAATGCATTTC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630214 43 - 173908612 TGAT-TGCCA---ACCAGAACTAACGATTAT--A---GGTGAAATGCATTTC
+q panTro2.chr6 9999-99999---999999999999999999--9---999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106461 43 - 170899992 TGAT-TGCCA---ACCAGAACTAACAATTAT--A---GGTGAAATGCATTTC
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83509 43 - 523245 TGAT-TGCCA---ACCAGAACTAAAGATTAT--A---GATGAAATGCATTTC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4309 46 - 136255 TGTT-TGCTG---ACCAGAACTAAAGATTAT--AGGTGGTGAAGTGCATTTC
+q otoGar1.scaffold_85251.1-136255 4458-55556---466220215495545547--4435344555543656956
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405648 43 - 498454 TGAT-TGCCA---ACCAGAGCTAAAGATTAT--A---GGTGAAATGTATTTC
+q tupBel1.scaffold_114895.1-498454 9999-99999---999999999999999999--9---999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 117612 43 - 121936 TAAT-GGCGG---CACCGAGCTAAAGATGAG--A---GGTGAAGTGCATTTC
+q sorAra1.scaffold_256646 9999-99999---999999999999999999--9---999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78270765 43 - 125616256 TGAT-TACTG---ACTGCAGCTATAGATTGT--A---GATGAAGTGCATTTC
+q canFam2.chr1 9999-99999---999999999999999999--9---999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 136600 43 - 219823 TGAT-CACCG---ACCAGAGCTGAAGATTGT--A---GGTGAAGTGCATTTC
+q felCat3.scaffold_217398 9999-99999---999999999999999999--9---999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13062656 43 + 24938454 CGAT-TGCCA---ACCAGAGCTAAAGATCAT--A---GGTGAAGTGCGTTTC
+q equCab1.chr31 9999-99999---999999999999999999--9---999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13741512 41 - 95030419 TGTT---ACG---GCCAGAGCTAAGGATGAT--C---AGTGAAGTGCATTTT
+q bosTau3.chr9 9999---999---999999999999999999--9---999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 38148 43 - 51472 CAAT-TGCCA---ACCCCAAACAGAGATGAC--C---AGTGACATGTGTCTC
+q dasNov1.scaffold_16647 9999-77999---899999999999996789--9---996799979899999
+i dasNov1.scaffold_16647 I 2382 C 0
+s eriEur1.scaffold_243928 2381 34 - 5547 -------CTG---GCCTGAGC---AGAGGAG--A---CAGGAAGGACACCTC
+q eriEur1.scaffold_243928 -------313---64999999---8999999--8---589999998898999
+i eriEur1.scaffold_243928 N 0 C 0
+s monDom4.chr2 106254244 43 - 541556283 TGAA-TGAAA---GCTAGAACTGTAGATTAT--A---ATTGAATCGTGTGTT
+q monDom4.chr2 9999-99999---999999999999999999--9---999999999999999
+i monDom4.chr2 C 0 I 2
+s ornAna1.chr2 14900734 35 - 54797317 --------CA---AGTGCAGCCAGAGATTAT------TGCGTTCTGTATTTG
+i ornAna1.chr2 I 2 I 2
+s gasAcu1.chrXV 12519633 39 - 16198764 -----CACTC---CTCCCAGTGAGGAGTTAA--A---AGTATTGTGCTTCTC
+q gasAcu1.chrXV -----99999---999999999999999999--9---999999999999999
+i gasAcu1.chrXV C 0 C 0
+s oryLat1.chr22 12882765 44 - 28810691 -----CACTTATGATCACAGTAAGAAGTCAGTCA---GGTCGTGTGCTTCTT
+q oryLat1.chr22 -----99999999999999999999999999999---999999999999999
+i oryLat1.chr22 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e galGal3.chr3 61580912 1178 - 113657789 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=166363.000000
+s mm9.chr10 3206047 41 + 129993255 TCTAC-----AAATGAGCTTTCG-ATAAACCTGGTTAATGATTGAA-----------------C
+s galGal3.chr3 61582090 19 - 113657789 ------------------------------CTGGTTGTTGTATG---TTTTC------------
+i galGal3.chr3 I 1178 C 0
+s cavPor2.scaffold_265563 9484 57 + 10554 TTTAA-----AACCCAGCTTGAG-ATAAAGCTGGTTAGCAGTTGCACTCTCC-TGACTATTTGC
+q cavPor2.scaffold_265563 78677-----6767347777877-9987778787677667758886889898-79776676778
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230022522 41 - 267910886 TCTAC-----AAACGAGCTTGAG-ATAAACCTGGCTAATGATTGAA-----------------C
+q rn4.chr1 99999-----9999999999999-9999999999999999999999-----------------9
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515205 57 + 167655696 TCTAA-----AAATCAGCTTGAG-ATAAACTTGGTTAATGATTGAACTTTCC-TGACTATTTGC
+q rheMac2.chr4 99999-----9999999999999-9999999999999999999999999999-99999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419415 53 - 174210431 TCTAA-----AAATCAGCTTGAG-ATAAAATTGGTTAATGATTGAACTTTC-----CTATTTGC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630257 53 - 173908612 CCTAA-----AAATCAGCTTGAG-ATAAACTTGGTTAATGATTGAACTTTC-----CTATTTGC
+q panTro2.chr6 99999-----9999999999999-999999999999999999999999999-----99999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106504 57 - 170899992 TCTAA-----AAATCAGCTTGAG-ATAAACTTGGTTAATGATTGAACTTTCC-TGACTATTTGC
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83552 53 - 523245 TCTAA-----AAATCAGCTTGAG-ATAAACTTGGTTAATGACTGAATTTTC-----CCATTTGC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4355 57 - 136255 TTTAA-----AAATGGGTTTGAG-ATAAACCTGGTTAATGATTGAACTTTCC-TGACTATTTAC
+q otoGar1.scaffold_85251.1-136255 69559-----9955673795796-6779676543777759799789999999-99979999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405691 57 - 498454 TTTAA-----AAATCAGCCTGAG-GCAAACTTTGTTAATGAACAAACTTTCC-TGAGTCTTTGC
+q tupBel1.scaffold_114895.1-498454 99999-----9999999999999-9999999999999999999999999999-99999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 117655 54 - 121936 TTTGA-----AAGTCAGCTTGAG-GTCAGCGTGGTTAATGATTGAACCATTC----CTGCCTCT
+q sorAra1.scaffold_256646 99999-----9999999999999-9999999999999999999999999999----99999999
+i sorAra1.scaffold_256646 C 0 C 0
+s eriEur1.scaffold_243928 2415 54 - 5547 TATAG-----CGTTCAACTTGAG-ATGAACCTGGTTAATGATCAAGCCTCTC----CCAACTGC
+q eriEur1.scaffold_243928 98999-----9899899999999-9899999999999999999999999999----99999999
+i eriEur1.scaffold_243928 C 0 C 0
+s canFam2.chr1 78270808 54 - 125616256 TTTAA-----AATTCAGCTTGAG-ATAAACTTGGTTAATGATTGAACCTTTC----CTATTTGC
+q canFam2.chr1 99999-----9999999999999-9999999999999999999999999999----99999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 136643 53 - 219823 TTTAA-----ACTGCA-CCTGAG-ATAAACTTGGTTAATGATTGAACCTTTC----CTATGTGC
+q felCat3.scaffold_217398 99999-----999999-999999-9999999999999999999999999999----99999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13062699 58 + 24938454 TTTAA-----AATTCAGCTTGAG-ATAAACTTGGTTAATGATTGACCCTTTCCTGACTATTTGC
+q equCab1.chr31 99999-----9999999999999-9999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13741553 52 - 95030419 AAAAAAG---AATTCAGCCGGAG-ATAAACTTGGTTAATGATTGACCT--------CTATTTGC
+q bosTau3.chr9 9999999---9999999999999-999999999999999999999999--------99999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 38191 54 - 51472 TTTAA-----AAGTCAGCTTTAG-ATAAACCTGGTTAATGATTGCACCTTT----GCTATTTTC
+q dasNov1.scaffold_16647 99999-----9999999999999-999999979999998999899899999----999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s echTel1.scaffold_276671 1277 58 - 58026 TACAA-----AACCTAGCTTTAG-ACGAACTCAGTGAACGGCTGAACCTCCCCCGACTCTTTCC
+q echTel1.scaffold_276671 66969-----9879695679776-7568967986865969769775556577754645548558
+i echTel1.scaffold_276671 N 0 C 0
+s monDom4.chr2 106254289 55 - 541556283 TTTGT-----AAGTAACCTTTAGCAATAATTTGATTATTAACTCAGCCATTT----TTATTTCT
+q monDom4.chr2 99999-----999999999999999999999999999999999999999999----99999999
+i monDom4.chr2 I 2 C 0
+s ornAna1.chr2 14900771 40 - 54797317 -----AAGGCAGTTCAGCCTTTA-A--------------GAGCTAACTCCCC----CCCCCCCC
+i ornAna1.chr2 I 2 C 0
+s gasAcu1.chrXV 12519672 29 - 16198764 ----------ATCTCATCCCCCG-ATGACCTTT-CTTTT----------GC-------------
+q gasAcu1.chrXV ----------9999999999999-999999999-99999----------99-------------
+i gasAcu1.chrXV C 0 C 0
+s oryLat1.chr22 12882809 30 - 28810691 ----------TCTTTAATCACAG-AGCCCCTTTGATTGT----------TC-------------
+q oryLat1.chr22 ----------9999999999999-999999999999999----------99-------------
+i oryLat1.chr22 C 0 C 0
+e tetNig1.chr1 12771612 0 - 16827091 I
+e fr2.chrUn 207925518 1772 - 400509343 I
+e xenTro2.scaffold_184 369642 0 + 2020054 I
+e anoCar1.scaffold_0 8810271 1944 + 16654889 I
+e danRer5.chr20 55966260 3504 + 56528676 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=2757113.000000
+s mm9.chr10 3206088 144 + 129993255 TTCCTCAATTCCAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATGCGCTCTACTACAGACCCTGTTATGAGCCAGTGTGCCTGCCTGGAGGAAGTTCACTTACCAAATGTTAGACCCGGGGAAGGCCTGGTAAGCA-----TTC
+s ornAna1.chr2 14900811 139 - 54797317 CCTTTCAATTTTAGTC-CAAGGTGTTAAATAGTATCTGTGACAAGACCATCAGATCAACAACAGATCCACTGATGAGCCAGTGTGCGTGTCTGGAAGAAGTCCGGCTGCCAAATGTTAAACCCGGGGAAGGCTTGGTAAG----------
+i ornAna1.chr2 C 0 I 19
+s monDom4.chr2 106254344 140 - 541556283 TTCCCCTATAATAAGTCCAAGGTCCTAAATAGCATTTGTGATAAGACCATCAGATCAGCTACAGATCCAGTCATGAGCCAGTGTGCCTGCTTGGAGGAAGTTCATTTACCCAATGTTAAACCTGGAGAAGGCTTGGTAAG----------
+q monDom4.chr2 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i monDom4.chr2 C 0 I 8
+s echTel1.scaffold_276671 1335 137 - 58026 CTCCCCAACTCCAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACCATCCGGTCCACCACCGACCCTCTCATGAGCCAGTGCGCGTGTCTGCAGGATGTCCATCTGCCGAACGTGAAGCCCGGGGAAGGCCTGGTA------------
+q echTel1.scaffold_276671 7548755447571224-4463648855857553545474463577665466565255436455463745664545645533453255343454425210124334555351353333453565578453122334530------------
+i echTel1.scaffold_276671 C 0 I 835
+s dasNov1.scaffold_16647 38245 139 - 51472 CTCCTTGATTCTAGGT-CAAGGTTTTAAATGGAATCTGTGACAAAACAATCAGAACGACGACAGATCCGCTCATGAGCCAGTGCGCCTGTCTGGAGGAGGTTCACCTGCCCAGCATTAAGCCTGGGGAAGGCCTGGTAAG----------
+q dasNov1.scaffold_16647 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i dasNov1.scaffold_16647 C 0 I 14
+s bosTau3.chr9 13741605 139 - 95030419 CTCTCCAACTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAGACCATCCGATCTACCACGGATCCTGTAATGAGCCAGTGTGCGTGTCTGGAAGAAGTTCACCTACCAAACATTAAACCTGGGGAAGGTTTGGTAAG----------
+q bosTau3.chr9 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i bosTau3.chr9 C 0 I 17
+s equCab1.chr31 13062757 139 + 24938454 CTCTCCAACTCTAGGT-CAAGGTTTTGAATGGCATCTGTGACAAAACAATCCGATCTACCACGGATCCTGTTATGAGCCAGTGTGCGTGTCTGGAAGAAGTTCACTTACCCAACATTAAACCTGGGGAGGGCCTGGTAAG----------
+q equCab1.chr31 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i equCab1.chr31 C 0 I 17
+s felCat3.scaffold_217398 136696 139 - 219823 CTCTCCAACTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATACGATCTGCTACAGATCCTGTTATGAGCCAGTGTGCGTGTCTGGAGGAAGTTCACCTGCCAAACGTTAAGCCTGGGGAAGGCCTGGTGAG----------
+q felCat3.scaffold_217398 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i felCat3.scaffold_217398 C 0 I 16
+s canFam2.chr1 78270862 139 - 125616256 CTGTCCAACTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATACGCTCTACTACGGACCCTGTTATGAGCCAGTGTGCGTGTCTGGAGGAAGTTCACTTGCCAAATGTTAAACCGGGAGAAGGCCTGGTGAG----------
+q canFam2.chr1 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i canFam2.chr1 C 0 I 17
+s eriEur1.scaffold_243928 2469 137 - 5547 CTTTTC--CTCTAGGT-CAAGGTCTTAAATGGCATCTGTGACAAAACTGTCCGCTCCACGGCGGACCCAGTGATGAGCCAGTGTGCGTGCCTGGAGGAAGTCCACTTACCCAACATCAAGCCTGGGGAGGGCCTGGTAAG----------
+q eriEur1.scaffold_243928 999999--99999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i eriEur1.scaffold_243928 C 0 N 0
+s sorAra1.scaffold_256646 117709 137 - 121936 TTGTCC--CTCCAGGT-CAAGGTTTTAAATAGCATTTGTGACAAAACAATCCGTTCAACCACCGATCCTGTTATGAGCCAGTGCGCGTGTCTGCAGGAGGTGCATCTACCCAACATTAAGCCCGGGGAGGGCCTGGTAAG----------
+q sorAra1.scaffold_256646 999999--99999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i sorAra1.scaffold_256646 C 0 I 17
+s tupBel1.scaffold_114895.1-498454 405748 144 - 498454 CTCTCCAATTCTAGGT-CAAGGTTTTGAATGGCATCTGTGACAAAACAATCCGATCGACCTCGGATCCTGTTATGAGCCAGTGCGCGTGCCTGGAGGAAGTTCACTTACCCAATGTTAAACCTGGGGAAGGTCTGGTAAGAA-----TTC
+q tupBel1.scaffold_114895.1-498454 9999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999997-----999
+i tupBel1.scaffold_114895.1-498454 C 0 I 12
+s otoGar1.scaffold_85251.1-136255 4412 142 - 136255 CTTTCTAATTCTAGGT-CAAAGTTTTAAATGGCATCTGTGACAAAACAATCCGATCTACCACGGACCCTGTTATGAGCCAGTGTGCATGCCTGGAAGAGGTTCACTTACCAAACATTAAACCTGGGGAAGGCTTGGTAAG-------TTC
+q otoGar1.scaffold_85251.1-136255 9799978979999977-999958995896778979999999999999999999979999999999999999999999999999769998999999999998999999999998989999999999999999998999999-------999
+i otoGar1.scaffold_85251.1-136255 C 0 I 12
+s calJac1.Contig1260 83605 142 - 523245 TTCTCCAATTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATCCGATCTACCACAGATCCTGTGATGAGCCAGTGTGCGTGCCTGGAAGAAGTTCACTTACCAAACATTAAACCTGGAGAAGGCCTGGTAAG-------TTC
+i calJac1.Contig1260 C 0 I 12
+s hg18.chr6 16106561 142 - 170899992 TTCTCCAATTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATCCGATCTACCACAGATCCTGTGATGAGCCAGTGTGCATGTCTGGAGGAAGTTCACTTACCAAACATTAAACCTGGGGAAGGCCTGGTAAG-------TTC
+i hg18.chr6 C 0 I 12
+s panTro2.chr6 16630310 142 - 173908612 TTCTCCAATTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATCCGATCTACCACAGATCCTGTGATGAGCCAGTGTGCATGTCTGGAGGAAGTTCACTTACCAAACATTAAACCTGGGGAAGGCCTGGTAAG-------TTC
+q panTro2.chr6 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------999
+i panTro2.chr6 C 0 I 12
+s ponAbe2.chr6 16419468 142 - 174210431 TTCTCCAATTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATCCGATCTACCACAGATCCTGTGATGAGCCAGTGTGCATGTCTGGAGGAAGTTCACTTACCAAACATTAAACCTGGGGAAGGCCTGGTAAG-------TTC
+i ponAbe2.chr6 C 0 I 12
+s rheMac2.chr4 108515262 142 + 167655696 TTCTCCAATTCTAGGT-CAAGGTTTTAAATGGCATCTGTGACAAAACAATCCGATCTACCACAGATCCTGTGATGAGCCAATGTGCATGTCTGGAGGAAGTTCACTTACCAAACATTAAACCTGGGGAAGGCCTGGTAAG-------TTC
+q rheMac2.chr4 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------999
+i rheMac2.chr4 C 0 I 12
+s rn4.chr1 230022563 144 - 267910886 TTCCTCAATTCCAGGT-CAAGGTCTTGAATGGCATCTGTGACAAAATGATGCACTCTACTACGGACCCTGTGATGAGCCAGTGCGCATGCCTGGAGGAAGTTCACTTACCGAATGTTAGACCCGGGGAAGGCCTGGTAAGCA-----TCT
+q rn4.chr1 9999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 9541 144 + 10554 TTCTCCAATTTTAGGT-CAAAGTTTTATATGGCATCTGTGACAAAACAATTCGATCTGCCACCGACCCTGTTATGAGCCAGTGCGCATGCCTAGAGGAGGTTCACTTACCCAATGTTAAGCCTGGTGAAGGCTTGGTAAGAA-----TTC
+q cavPor2.scaffold_265563 8998763678888899-84488888522233222999999999999999999999999866988998899999999996899999998998999999997899758788446857899884448988999868999899999-----589
+i cavPor2.scaffold_265563 C 0 I 9
+s anoCar1.scaffold_0 8812215 131 + 16654889 --------TTTCAGTC-CAAGGTTTTAAATGGAATTTGTGATAAAACAATCAGGTCAACAACAGATCCATTGATGAGCCAAGGAGCATGTCTTGAGGAGGTTCATTTAACCAACATCAAACCCGGAGAAGGCCTGGTAAG----------
+q anoCar1.scaffold_0 --------99999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------
+i anoCar1.scaffold_0 I 1944 I 12
+s galGal3.chr3 61582109 132 - 113657789 -------ATTACAGTC-CAAGGCTTTAAATGGAATTTGTGATAAAGCCATCCGATCAACTACAGATCCATTGATGAGCCAGTGTGCATGTCTGGAGGAGGTTCATTTAACCAACATTAGACCTGGGGAAGGCCTGGTAAG----------
+i galGal3.chr3 C 0 I 1748
+s xenTro2.scaffold_2 3907843 139 + 7803671 TGCTTCTCTCTTAGTC-CAAAGAACTAAATGATATATGTGACAAGACAATCAGATTGGCTTCAGACCCACTTGCAAGTCATTGTGCCTGTTTGGAGGAAGTGCATATGACAAATATTAAACCTGGTGAAGGCCTGGTATG----------
+i xenTro2.scaffold_2 I 879 I 28
+s gasAcu1.chrXV 12519701 144 - 16198764 CCTTTCCTCTGCAGTC-TAAGATTTTGAACAGCATCTGCGATCAGACCGTGAGAACCACCTCTGACCCCCTGATGAGCCAGTCGGCCTGCTTGGAGGAGGTCCAGCTGACCGATATCAATCCGGGAGAGGGTCTGGTAAG--caatc---
+q gasAcu1.chrXV 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999---
+i gasAcu1.chrXV C 0 I 2
+s oryLat1.chr22 12882839 144 - 28810691 TCTTTTCCCTGCAGTC-TAAAACTTTGAACAGTATTTGTGATCAGACCGTGAGAACCACATCCGACCCCCTGATGAGCCAGTCAACCTGCTTGGAGGAGGTCCAGCTATCCAACATCAAGCCAGACGAGGGGCTGGTGAG--GAGTT---
+q oryLat1.chr22 9999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999---
+i oryLat1.chr22 C 0 I 6
+s fr2.chrUn 66178512 138 + 400509343 -TCTTTTGGTGCAGTC-GAAGATTCTGAACAGCATCTGTGATCAGACGGTCAggacgacctctgaccccctgatGAGCCAGTCGGCCTGCCTGGAAGAAGTCCGGCTGACCAATATCAAACCAGGAGAGGGTCTGGTGAG----------
+i fr2.chrUn I 647 I 112
+s danRer5.chr20 55969764 135 + 56528676 -------ATTTCAGTC-ACAGGTTTTGACAGGCATTTGTGATTCCACCATGAGAATGACTTCTGACCCCTTGAAGACCCAAGTGACCTGTTTGGAGGAGGTACCCATCAGCAATATCAAACCTGGCGAGGGACTGGTGCG--TGT-----
+i danRer5.chr20 I 3504 n 3504
+s tetNig1.chr10 10164952 132 - 12859810 -----------CAGTC-GAAGATTCTGAGCAGCATCTGTGACCAGACGGTCAGGACTACCTCTGACCCCCTGATGAGCCAGTCGGCCTGCCTGCAAGAAGTCCAGCTGGCCAATATCAAACCGGGAGAGGGTCTGGTGAG--GGTT----
+i tetNig1.chr10 I 3398 I 106
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=-125469.000000
+s mm9.chr10 3206232 26 + 129993255 ----TCT----TG-GTTTTCAG-----------------TACAGTAT--------------------ACTGG
+s cavPor2.scaffold_265563 9694 43 + 10554 ----ttt----tg-tttttcagataatcatttttcaaataataacAT--------------------ACCTG
+q cavPor2.scaffold_265563 ----999----98-499999349999895899997439999999848--------------------99889
+i cavPor2.scaffold_265563 I 9 C 0
+s rn4.chr1 230022707 26 - 267910886 ----CCT----TG-GTTTCTGG-----------------TACAAGAA--------------------ACAGG
+q rn4.chr1 ----999----99-99999999-----------------99999999--------------------99999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515416 26 + 167655696 ----TTT----TA-TTTTCAGA-----------------TAACATAT--------------------ATCAT
+q rheMac2.chr4 ----999----99-99999999-----------------99999999--------------------99999
+i rheMac2.chr4 I 12 C 0
+s ponAbe2.chr6 16419622 26 - 174210431 ----TTT----TA-TTTTCAGA-----------------TAACGTAC--------------------ATCAT
+i ponAbe2.chr6 I 12 C 0
+s panTro2.chr6 16630464 26 - 173908612 ----TTT----TA-TTTTCAGA-----------------TAACATAC--------------------ATCAT
+q panTro2.chr6 ----999----99-99999999-----------------99999999--------------------99999
+i panTro2.chr6 I 12 C 0
+s hg18.chr6 16106715 26 - 170899992 ----TTT----TA-TTTTCAGA-----------------TAACATAC--------------------ATCAT
+i hg18.chr6 I 12 C 0
+s calJac1.Contig1260 83759 26 - 523245 ----CTT----TA-TTTTCAGG-----------------TAATGTAT--------------------ATCAT
+i calJac1.Contig1260 I 12 C 0
+s otoGar1.scaffold_85251.1-136255 4566 46 - 136255 ----CTT----TA-TTTTCAGA-----------------TAACACACACTAAATGTTTTTACTACAAATTAT
+q otoGar1.scaffold_85251.1-136255 ----999----99-99999999-----------------999999999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 I 12 C 0
+s tupBel1.scaffold_114895.1-498454 405904 26 - 498454 ----TTT----TATTTTTCCAA-----------------TAGCACAC--------------------AG-GT
+q tupBel1.scaffold_114895.1-498454 ----999----99899999999-----------------99999999--------------------99-99
+i tupBel1.scaffold_114895.1-498454 I 12 C 0
+s sorAra1.scaffold_256646 117863 27 - 121936 ----CTC----CA-TTCAAGAG----------------TTATAAGCT--------------------GCCGT
+q sorAra1.scaffold_256646 ----999----99-99999999----------------999999999--------------------99999
+i sorAra1.scaffold_256646 I 17 C 0
+s canFam2.chr1 78271018 24 - 125616256 ----TTT----TC-TTTTAA-------------------AAAATAAC--------------------AGTAT
+q canFam2.chr1 ----999----99-999999-------------------99999999--------------------99999
+i canFam2.chr1 I 17 C 0
+s felCat3.scaffold_217398 136851 27 - 219823 ----TTT----TC-TTCCCAAA----------------TAAGAACAC--------------------ATCGC
+q felCat3.scaffold_217398 ----999----99-99999999----------------999999999--------------------99999
+i felCat3.scaffold_217398 I 16 C 0
+s equCab1.chr31 13062913 27 + 24938454 ----TTT----TA-TTTTCAAA----------------TAACAACAC--------------------ATTGT
+q equCab1.chr31 ----999----99-99999999----------------999999999--------------------99999
+i equCab1.chr31 I 17 C 0
+s bosTau3.chr9 13741761 24 - 95030419 ----TTT----AT-TTTTGG-------------------ATAGCATC--------------------ATTGT
+q bosTau3.chr9 ----999----99-999999-------------------99999999--------------------99999
+i bosTau3.chr9 I 17 C 0
+s dasNov1.scaffold_16647 38398 30 - 51472 ----TTT----TC-TCTTGCAGATGA-------------TAACACGC--------------------ACTGT
+q dasNov1.scaffold_16647 ----999----99-999999999999-------------99999999--------------------99999
+i dasNov1.scaffold_16647 I 14 C 0
+s monDom4.chr2 106254492 21 - 541556283 ----TAT----TG-TTTCTAAG-----------------TAAAATGT-------------------------
+q monDom4.chr2 ----999----99-99999999-----------------99999999-------------------------
+i monDom4.chr2 I 8 I 3002
+s ornAna1.chr2 14900969 13 - 54797317 ----TAG----GA-AGTACAAG--------------------------------------------------
+i ornAna1.chr2 I 19 I 10
+s anoCar1.scaffold_0 8812358 19 + 16654889 ----CTG----TG-TTTCTCAA-----------------CACAGT---------------------------
+q anoCar1.scaffold_0 ----999----99-99999999-----------------999999---------------------------
+i anoCar1.scaffold_0 I 12 I 1197
+s xenTro2.scaffold_2 3908010 13 + 7803671 ----ACCAAAGTA-CTTT------------------------------------------------------
+i xenTro2.scaffold_2 I 28 C 0
+s oryLat1.chr22 12882989 28 - 28810691 ctttttt----cc-tttgtaTT-----------------AAAAATGC--------------------ATA--
+q oryLat1.chr22 9999999----99-99999999-----------------99999999--------------------999--
+i oryLat1.chr22 I 6 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e loxAfr1.scaffold_4233 74578 19856 + 124190 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=-129645.000000
+s mm9.chr10 3206258 37 + 129993255 CAT------TTACTAAA--G------------------------------------------------------CATTA------AACTG-TGT-CTTCCTGTTCTT---
+s cavPor2.scaffold_265563 9737 39 + 10554 CAT------TTACtgaa--g-------------------------------------------------ttt--tcttt------aaata-t-t-tttgttgctttt---
+q cavPor2.scaffold_265563 747------99887999--9-------------------------------------------------999--99698------98999-8-9-999679978999---
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230022733 37 - 267910886 CAT------TCACCAAA--G------------------------------------------------------CACTA------AGCTG-TGT-CTTACTGTTGTC---
+q rn4.chr1 999------99999999--9------------------------------------------------------99999------99999-999-999999999999---
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515442 40 + 167655696 CAT------TTACTAAATTT---------------------------------------------------T--TTTTA------AAAAA-TTC-CTTATTGCTTTC---
+q rheMac2.chr4 999------99999999999---------------------------------------------------9--99999------99999-999-999999999999---
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419648 38 - 174210431 CAT------TTACTGAA--T---------------------------------------------------T--TTTAA------AAAAA-TTC-CTTATTGCTTTC---
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630490 38 - 173908612 CAT------TTACTAAA--T---------------------------------------------------T--TTTAA------AAAAA-TTC-CTTATCGCTTTC---
+q panTro2.chr6 999------99999999--9---------------------------------------------------9--99999------99999-999-999999999999---
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106741 38 - 170899992 CAT------TTACTAAA--T---------------------------------------------------T--TTTAA------AAAAA-TTC-CTTATTGCTTTC---
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83785 39 - 523245 CAT------TTACTAAA--T---------------------------------------------------T--TAAAA------AAAAATTTT-CTGATTGCTGTT---
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4612 35 - 136255 CAT------TTACTAAT--T---------------------------------------------------T--TTTTC------CA----CTC-CTTATTGCTTTC---
+q otoGar1.scaffold_85251.1-136255 999------99999999--9---------------------------------------------------9--99999------99----999-999999999999---
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405930 33 - 498454 CAT------TTACTAAT----------------------------------------------------------TAAA------AAAAA-TTC-CT--TTGCTTTC---
+q tupBel1.scaffold_114895.1-498454 999------99999999----------------------------------------------------------9999------99999-999-99--99999999---
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 117890 45 - 121936 CCC------TCCTTCCA--G--------------------------------------------CGTTCATT--CATAA------AATCA-GTT-CCTGTGTCTTTC---
+q sorAra1.scaffold_256646 999------99999999--9--------------------------------------------99999999--99999------99999-999-999999999999---
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78271042 37 - 125616256 CAT------TTATTAAA------------------------------------------------------T--TTTTT------TCTGA-TTC-CTTATTGCTTTT---
+q canFam2.chr1 999------99999999------------------------------------------------------9--99999------99999-999-999999999999---
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 136878 53 - 219823 CAT------TTATTAAA--G---------------------TTTGGGTT---------------TTTTTTTT--TTTTT------AATGA-TTC-TTTATTGCTCTC---
+q felCat3.scaffold_217398 999------99999999--9---------------------99999999---------------99999999--99999------99999-999-999999999999---
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13062940 89 + 24938454 CAT------TTTTTGGG--AGGGACATGgggggagattagccctgagttaacatctgctgccaatcctcctc--ttttt------gctga-gga-agcctggccccg---
+q equCab1.chr31 999------99999999--99999999999999999999999999999999999999999999999999999--99999------99999-999-999999999999---
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13741785 51 - 95030419 --T------TTATTAAA-----------------------------GTT---------------GCTGTGTT--TTTTTAAAAACAATAA-TTC-CATATTGCTTTC---
+q bosTau3.chr9 --9------99999999-----------------------------999---------------99999999--9999999999999999-999-999999999999---
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 38428 44 - 51472 CGT------TTATTGAA--G---------------------------------------------TTGTCTT--TTTAA------AATAA-TTC-TGCGTCGTTTTC---
+q dasNov1.scaffold_16647 999------99999999--9---------------------------------------------9999999--99999------99999-999-999999999999---
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 14 46 + 41726 CAT------TTATTAAA--G---------------------------------------------CTTTTTTCCTTTCT------TATAA-TTG-TATACTCCTTTC---
+q loxAfr1.scaffold_33178 449------96887986--7---------------------------------------------89999999999999------56543-246-954589999999---
+i loxAfr1.scaffold_33178 n 19856 C 0
+s ornAna1.chr2 14900992 41 - 54797317 TTT------TCAGTAAA--G-------------------------------------------------ACG--TATCA------TATTG-TACACTCACTGGTAAC---
+i ornAna1.chr2 I 10 C 0
+s xenTro2.scaffold_2 3908023 10 + 7803671 ------------------------------------------------------------------------TATATAA------AAA----------------------
+i xenTro2.scaffold_2 C 0 I 936
+s oryLat1.chr22 12883017 43 - 28810691 CATCTCACATTACTACA--C---------------------------------------------------a--tccaa------aa-----ta-tatatttcttttttt
+q oryLat1.chr22 99999999999999999--9---------------------------------------------------9--99999------99-----99-999999999999999
+i oryLat1.chr22 C 0 I 1
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=-40361.000000
+s mm9.chr10 3206295 44 + 129993255 ACTG-TAG-CTCTGAATAATGGCGT------G---------ATATGATAT------------------GTATGATG----------------------GTG------
+s cavPor2.scaffold_265563 9776 36 + 10554 actg-tAA-TTCTGAATAGTGAAAT------T---------AAATTAGAT------------------------------------------------TAC------
+q cavPor2.scaffold_265563 8878-759-9987984478998997------9---------997998977------------------------------------------------998------
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230022770 67 - 267910886 ACTG-TAG-CTCTGAATAGTGGAGt------g---------atatgatat-----------------ggtatgatatgatatgatatcatattacattata------
+q rn4.chr1 9999-999-9999999999999999------9---------999999999-----------------9999999999999999999999999999999999------
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515482 40 + 167655696 ACTA-TAA-TTCTGAAAAGTAGAAT------T---------AAGTTAGAC-----------------CACCTTC---------------------------------
+q rheMac2.chr4 9999-999-9999999999999999------9---------999999999-----------------9999999---------------------------------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419686 40 - 174210431 ACTA-TAA-TTCTGAAAAGTAAAAT------T---------AATTTAGAC-----------------CGCCTTC---------------------------------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630528 40 - 173908612 ACTA-TAA-TTCTGAAAAGTAGAAT------T---------AATTTAGAC-----------------TGCCTTC---------------------------------
+q panTro2.chr6 9999-999-9999999999999999------9---------999999999-----------------9999999---------------------------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106779 40 - 170899992 ACTA-TAA-TTCTGAAAAGCAGAAT------T---------AATTTAGAC-----------------TGCCTTC---------------------------------
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83824 41 - 523245 ACTA-TCATTTCTGAAAAGTAGAAT------T---------CAGTTAGAC-----------------CATCTTC---------------------------------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4647 35 - 136255 ACTA-TAA-TTCTGAAAAGTGGAA--------------------TTAGCC-----------------TCCTTCC---------------------------------
+q otoGar1.scaffold_85251.1-136255 9999-999-999699999999999--------------------999999-----------------9999999---------------------------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 405963 40 - 498454 ACAG-TAA-TTCTGAATAGAAGAAT------C---------AACTTAGAC-----------------TGCCTTC---------------------------------
+q tupBel1.scaffold_114895.1-498454 9999-999-9998999999999999------9---------999999999-----------------9999999---------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 117935 37 - 121936 CTGA-GAC-TCCCGCTTAGGATGGC------C---------CACTCAGAC-----------------CATC------------------------------------
+q sorAra1.scaffold_256646 9999-999-9999999999999999------9---------999999999-----------------9999------------------------------------
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78271079 35 - 125616256 GGTA-CAA-TTCTGAATAGAGTT------------------AAATTAGAT-----------------TGTCT-----------------------------------
+q canFam2.chr1 9999-999-99999999999999------------------999999999-----------------99999-----------------------------------
+i canFam2.chr1 C 0 I 2
+s felCat3.scaffold_217398 136931 35 - 219823 ACTG-TAA-TTCTGAATAGAATT------------------CAACTAGAT-----------------TGTCT-----------------------------------
+q felCat3.scaffold_217398 9999-999-99999999999999------------------999999999-----------------99999-----------------------------------
+i felCat3.scaffold_217398 C 0 I 2
+s equCab1.chr31 13063029 47 + 24938454 agct-aac-atctgtgcccatcttc------ctctgcttcatatgtgggg-----------------tgcct-----------------------------------
+q equCab1.chr31 9999-999-9999999999999999------9999999999999999999-----------------99999-----------------------------------
+i equCab1.chr31 C 0 I 193
+s bosTau3.chr9 13741836 33 - 95030419 ACTA-GAA-TTCTGAATAGTA--------------------GAATTAGAC-----------------TGATT-----------------------------------
+q bosTau3.chr9 9999-999-999999999999--------------------999999999-----------------99999-----------------------------------
+i bosTau3.chr9 C 0 I 9
+s dasNov1.scaffold_16647 38472 41 - 51472 ACTGTGAT-TTTTGAATCGTTGAAT------T---------AAATCAGAC-----------------TGTCTTC---------------------------------
+q dasNov1.scaffold_16647 99999999-9999999999999999------9---------999999999-----------------9999999---------------------------------
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 60 40 + 41726 CCTA-GAA-TTCCGAGTAGTAGAAT------T---------AAAGTAGAA-----------------TGTCTTC---------------------------------
+q loxAfr1.scaffold_33178 9988-999-9999999889999999------9---------996699999-----------------9999999---------------------------------
+i loxAfr1.scaffold_33178 C 0 C 0
+s ornAna1.chr2 14901033 69 - 54797317 ATTA-CAG-TGGTTAAAAATAAAACAAGGTGC---------AAATCAGATAGATAAAAAGCAGCACTCATTTTC---------------------------ATTACT
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e oryCun1.scaffold_214769 107797 772 - 139458 I
+
+a score=720559.000000
+s mm9.chr10 3206339 128 + 129993255 TGTCATATAGTTAGGGATTTGC----CACC-TTAGACTT--TGTTAAGATG------GTT--------ATCT-TTCAAGtataaaaataaatata----------attttaaaaGTGTACCCTCTCATCT--------------TAACAGATTCATTTTT-AGGCCTTAGG-----------AATG
+s rn4.chr1 230022837 131 - 267910886 tTTCATATCATTAGGGATTTGC----TACC-TTAAACTTAATATTAAGATG------GTT--------ATCT-TTCAAGTGTAAAAGTAAATATA----------ATTTTAAAATTGTACCCTCTGGTCT--------------TAACAGATTTGTTTTTAAGGCCTTAGC-----------AATG
+q rn4.chr1 9999999999999999999999----9999-99999999999999999999------999--------9999-9999999999999999999999----------9999999999999999999999999--------------999999999999999999999999999-----------9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 9812 126 + 10554 TGTTGTACAGTTAGGAATTTGC----GATC-TTAAACta--tgttgatttg------ttt--------ttgtcttcctatataaaaataaatata----------atttaaaagctGTGTACT---Atct--------------taatggttttattttt-aggaCTTAGC-----------AATG
+q cavPor2.scaffold_265563 8969947758977998779767----9979-68597989--8879968997------599--------986697995689989999579978989----------899969999999699788---7999--------------6777769996799999-6999896656-----------7777
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 108569 135 - 139458 TGTTATGTATTTAAGAATTTGC----TACC-TTGAACTC--TGTTGGTATATATTTTTTT--------ATCT-TCAAAGTATAAAAATAAATACATTGTACTTATATTCCAAAG----ACAAT---GATT--------------TAACAGCTTTATTT---AAGACTTAGT-----------GATG
+q oryCun1.scaffold_214769 9995111001122345458788----7599-98999689--9999999999999211698--------6778-98389989999999999999989999999999999988999----99999---9999--------------99999999999999---9999999999-----------9999
+i oryCun1.scaffold_214769 I 772 C 0
+s rheMac2.chr4 108515522 136 + 167655696 CGTGATGTAGTTAGGAATGTGC----TATC-TTGAATCC--TGTTGATATG---TTTTCT--------ACCT-TCAAAGTATAAAAATAAATACA----------ATTTTAAAACTGTATACTCATATTTTGAAGA--------TAACAC-TTTATTTTT-AGGACTTAGC-----------AATG
+q rheMac2.chr4 9999999999999999999999----9999-99999999--9999999999---999999--------9999-9999999999999999999999----------9999999999999999999999999999999--------999999-999999999-9999999999-----------9999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419726 136 - 174210431 CATTATGTAGTTAGGAATGTGC----TATC-TTGAATCC--TGTTGATGTG---TTTTCT--------ATCT-TCAAAGTATAAAAATAAATACA----------ATTTAAAAACTGTATACTCATATTTTGAAGA--------TAACAC-TTTATTTTT-GGGACTTAGC-----------AATG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630568 136 - 173908612 CATTATGTAATTAGGAATGTGC----TATC-TTGAATCC--TGTTGATATG---TTTTCT--------ATCC-ACAAAGTATAAAAATAAATACA----------GTTTAAAAACTGTATACTCGTATTTTGAAGA--------TAACAC-TTTATTTTT-AGGACTTCGC-----------AATG
+q panTro2.chr6 9999999999999999999999----9999-99999999--9999999999---999999--------9999-9999999999999999999999----------9999999999999999999999999999999--------999999-999999999-9999999999-----------9999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106819 136 - 170899992 CATTATGTAATTAGGAATGTGC----TATC-TTGAATCC--TGTTGATATG---TTTTCT--------ATCC-ACAAAGTATAAAAATAAATACA----------GTTTAAAAACTGTATACTCGTATTTTGAAGA--------TAACAC-TTTATTTTT-AGGACTTAGC-----------AATG
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 83865 137 - 523245 CATTACAAAGTTAAGAATGTGC----TATC-TTGAATCC--TATTGATCTG---TTTTCT--------ATCT-TCAAAGTATAAGAATAAATACA----------GTTGAAAAACTGTATAGCCATATTTTGAAGG--------TGACACTTTTATCTTT-AGGACTTAGC-----------AATT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4682 157 - 136255 CATCATGTACTCCGGAATTTGC----TATCTTTGAACTC--TTTTGATATG---TTTTCT--------ATCT-TCAAAGCGTAAACATAAAGACA----------ATTTTAAAACTGTATGCTCATATCTTGAAGGAGTGGTTTTTACAGTTTTATTTTT-AGGACTTAGCAAAGAGATATAAATT
+q otoGar1.scaffold_85251.1-136255 9999999999999999999999----9999999999999--9999999999---999999--------9999-9999998999999999999999----------9999999999999999999999999999999999999999999999999999999-9999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 406003 144 - 498454 CATTGTGTGGTTAAGAATTTGC----CGTC-TTGAAGGC--TATTGATATG---TTTTAT--------ACCT-TCCAAGTATAAAAAGAAACATA----------CCTTCTGAGCTGTGTACTCATATCTTGAAGG-ATTGTCTCAACAGTTTTATTTTT-AGGCCTTAGC-----------AGTG
+q tupBel1.scaffold_114895.1-498454 9999999899999999999999----9999-99999999--9999999999---999999--------8999-9999999999999999999999----------9999999999999999999999999999999-98999999999999999999999-9999999999-----------9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 117972 121 - 121936 TTCTAGAAAGTTAGGCATTTAT----CCT---------C--CGTGGATATG---CTTCAT--------GTCT-TCAGACTGTGGAAACAAAC-------------------------TACTTCTATAGCTCAAAGGACTTGTCCTTG-AGTGTGATTTTT-CGGCCTTAGC-----------AAGG
+q sorAra1.scaffold_256646 9999999999999999999999----999---------9--9999999999---999999--------9999-9999999999999999999-------------------------999999999999999999999999999999-999999999999-9999999999-----------9999
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78271116 143 - 125616256 CATTATGTAGTTAGGAATTGGC----CATC-TTGAA--C--TGTTGACAGG---TTTTAT--------GTCT-TCAAAATATAAAAATAAATACA----------GGTTTTAAACTGTACTCTCATATCTTGAAGGGATTGTCTTAACAGTTTTATTTTT-AGGCCTTACC-----------CATG
+q canFam2.chr1 9999999999999999999999----9999-99999--9--9999999999---999999--------9999-9999999999999999999999----------9999999999999999999999999999999999999999999999999999999-9999999999-----------9999
+i canFam2.chr1 I 2 C 0
+s felCat3.scaffold_217398 136968 140 - 219823 CATTATGTAGTTAGGAATTTGC----CATC-TCGAA--C--TGTTGATAGG---TTTTAT--------GTCT-TCAAAGTATACAAATAAATACA----------GTTTTTAAACTGTATTCTCGTATCTTGAAGGGATTGTTTTAACAGTTTTATTTTT-AGGACTTA--------------GTG
+q felCat3.scaffold_217398 9999999999999999999999----9999-99999--9--9999999999---999999--------9999-9999999999999999999999----------9999999999999999999999999999999999999999999999999999999-99999999--------------999
+i felCat3.scaffold_217398 I 2 C 0
+s equCab1.chr31 13063269 138 + 24938454 CATTATGTAGTTAGGAATTTGC----CGTC-TTGAA--C--TGTTGATATG---TTCTAT--------GTTT-TCAAAGTATAAAAATAA--ACA----------ATTTTAAAACTGTATACTCATATCCTGAAGGAATTGTCTT---AGTTTTATTTTT-AGGGCTTAGC-----------AGTG
+q equCab1.chr31 9999999999999999999999----9999-99999--9--9999999999---999999--------9999-99999999999999999--999----------9999999999999999999999999999999999999999---999999999999-9999999999-----------9999
+i equCab1.chr31 I 193 C 0
+s bosTau3.chr9 13741878 143 - 95030419 -------CGGTTAAGAATTTGC----CGTC-TTGAA--C--TGTTGATATG---TTTTATATCAAAGCGTCT-TCAAAGTATAAAAATAAATACA----------GTTTTAAAACTGTAAACTCGTGTCTTG-AGGAATTGTCTTAACAGTTTTATTTTT-AGGTCTTAGC-----------AATA
+q bosTau3.chr9 -------999999999999999----9999-99999--9--9999999999---999999999999999999-9999999999999999999999----------999999999999999999999999999-999999999999999999999999999-9999999999-----------9999
+i bosTau3.chr9 I 9 C 0
+s dasNov1.scaffold_16647 38513 137 - 51472 CATTATGGAGTTAGGAATTGGC----TGTC-TTGAACTC--TGTTGATGTG---TTT-----------------CAAAGCATAAAAATAAATACA----------GGTTTTAAACCGTGCACTCACACGGAGAAGGAATTATTTCAACACTTTTATTTTT-AGGACTTAGC-----------AGTA
+q dasNov1.scaffold_16647 9999999999999999999999----9999-99999999--9999999999---999-----------------999999999999999999999----------9999999999999999999999999999999999999999999999999999999-9999999999-----------9999
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 100 145 + 41726 CATTATGTAGTTAAGAACTTGC----CACC-TTGAACTC--TGTTGATTTG---TTTTTT--------ATCT-CCCAAGGATAAAAATGAATGCA----------ATTTTAAAACTGTGCACTCAAGTCTAGAAGGAATTATTTTAACAGCTTTATCTTT-AGGATGTAGT-----------GATG
+q loxAfr1.scaffold_33178 9999999999999999999999----9999-99999999--9999999999---999999--------9999-9999999999999999999999----------9999999999999999999999999999999998999999999899999999999-9999899999-----------9999
+i loxAfr1.scaffold_33178 C 0 C 0
+s ornAna1.chr2 14901102 112 - 54797317 TTTTGCACATGTGTGTGTTCGTGCAACACC-TTAAAC-C--TATCCTGAGG---TTGAAC--------TTTT-AAGAAGAATTAATATTAAGAAA----------ACT------------------------------------TATCAAATCTAGTTTT-ACAGGTTATG-----------AATG
+i ornAna1.chr2 C 0 I 2405
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+
+a score=829611.000000
+s mm9.chr10 3206467 98 + 129993255 GAAGGGAA--------TATAAAACGTTACCACAGAGGAGAGAGAGTCTGTGGGAACAA----AACGTCTATTCTGGAAGTCTCTGTCAGCACTTAAGATGGGTGTGAGGA
+s rn4.chr1 230022968 98 - 267910886 CAAGGAAA--------TATAAAACATTTCCACAAAGGATAGACGGTCCGTGGGAACAA----AACATCTATTCTGGAAGTCTCTGTCAGCACTTAGGATGTGTGTGAGGA
+q rn4.chr1 99999999--------999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 9938 102 + 10554 CAAGGAAA--------TATGAAACATTTACACAAAGAAGAGATGGTCTCTGGGTACAAAAACAACATCTGTTCTGAAAGTGTCTATTAGCACTTATGATGAAAGTGAGAA
+q cavPor2.scaffold_265563 79678999--------9766986768977959694999999979869995789645999969999689777997999997999989999999999999899999799999
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 108704 93 - 139458 CAAGAAAA--------GAAAGAACATTTACACAAAGCAGAGATGAAATCTGGGTT-------CACATCTACTCTGAAAG--TCTATTGGTGTTAAGGATGTGTGTGAGAA
+q oryCun1.scaffold_214769 99999999--------999999999999999989999999999999999899999-------64789989978899999--99899999999999998899999999999
+i oryCun1.scaffold_214769 C 0 I 130
+s rheMac2.chr4 108515658 100 + 167655696 CAAGGAAA--------TATAAAACATTTACACAAAGGAAATATGGTTTCTGGCTACAAAAACAACATCTG-TCTGAAAGTCTCTATTAGCACTTAGAA-GAATGTCGGAA
+q rheMac2.chr4 99999999--------999999999999999999999999999999999999999999999999999999-999999999999999999999999999-99999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419862 98 - 174210431 CAAGGAAA--------TATAAAACATTTACACAAAGGAAAGATGGTCTCTGGGTACAAAAACAACATCTGCTCTGAAAG----TATTAGCATTTAGGATGACTGTGAGAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630704 98 - 173908612 CAAGGAAA--------TATAAAACACTTACACAAAGGAAAGATGGTCTCTGGGTACAAAAATAACATCTGCTCTGAAAG----TATTAGCTCTTAGGATGAATGTGAGAA
+q panTro2.chr6 99999999--------999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16106955 98 - 170899992 CAAGGAAA--------TATAAAACACTTACACAAAGGAAAGATGGTCTCTGGGTACAAAAATAACATCTGCTCTGAAAG----TATTAGCACTTAGGATGAATGTGAGAA
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 84002 102 - 523245 CAAGGAGA--------TATAAAACATTTACACAAAGTAAAGATTGTCTCTGGGTACAGAAACAACGTCTGCTCTGAAAGTCTCTATTAGCACTTAGGATGAATGTTAGAA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 4839 102 - 136255 CAAGGAGA--------TATAAAACATTTACCCAAAAGAAAGATGGTCTCTGGGCACAAAAGCAGTGTCTGCTCTGAAAGTCTTTATTGGTACTTAGGACGAATGTGAGAG
+q otoGar1.scaffold_85251.1-136255 99999999--------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999689999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 406147 102 - 498454 CAAGGAGA--------TATAAAACATTTACACAAAGGAAAAATGGTCTTGGGGTACAAAAACAACATCTGCTCTGAGAGTCTTCATTAGCACTTAGGATGAATGTGAGGA
+q tupBel1.scaffold_114895.1-498454 99999999--------9999999999999999999999999999999999999999999999999999999999999999999999999999999999699999699999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 118093 109 - 121936 CAAGGAGAAAGCAGGTCATAGAGCTTTTGCTCAAAGCAAGGACGATCCCTCGGTACAG-TAGAACATCTGTTCTGGAAGTCTCCATTGGCCCCTGGGAGCAGCGTGAGAG
+q sorAra1.scaffold_256646 9999999999999999999999999999999999999999999989999999999999-999999999999999999999999999999999999999999999999999
+i sorAra1.scaffold_256646 C 0 C 0
+s canFam2.chr1 78271259 98 - 125616256 CAAGGAGA--------TATAAAACATTTACACAAAGGAAAGATGGTCTCTGGGTACAA----AACATCTGTTCTGAAAGTCTGTATTAGCACTTAGGGTGAATGTGAGAA
+q canFam2.chr1 99999999--------999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 137108 100 - 219823 CGAGGAGG--------TATAAAACATTTACACAAAGGAAAGATGGTCTCGGGGTACAA-AACAACATCTGCTCTGAAAGTGTCTATTAGCACTTA-GATGAACGTGAGAA
+q felCat3.scaffold_217398 99999999--------999999999999999999999999999999999999999999-999999999999999999999999999999999999-99999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13063407 98 + 24938454 TAAGGAGA--------TATAACACATTTGGACAAAGGAAGGATAGTCCCTGGGTAGGA----AACATTGTCTCTGCTAGTCTCTATTGGCACTTAGGACGAATGTGAGAA
+q equCab1.chr31 99999999--------999999999999999999999999999999999999999999----999999999999999999999999999999999999999999899999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13742021 100 - 95030419 CAAGGAGA--------TAGAGCACATTTCCACAAAGTAAAGATGGTCTCTGGGTAGGA-AACAACGTCTGCTATGAC-GTCTCTATTAGCACTTAGGCTTTATGTGAGAA
+q bosTau3.chr9 99999999--------999999999999999999999999999999999999999999-999999999999999999-99999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 38650 102 - 51472 CAAGGAGA--------TGGAAGACATTTACACAAAGGAAAGATGATGTCTGGGTAAAAAAACAAAATCTGCTCTGAAAGTCTCTGTTAGCACTTAGGATGAATGTGAGAG
+q dasNov1.scaffold_16647 99999999--------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 245 102 + 41726 TAAGAAGA--------TGTAAAACATTTACACAAATGAAAGATGGTTTCTGGGTAAAAAACCAAAATCTGTTCAGAAAGTCTCTATTAGCACATAGGATGAAGGTGAGAA
+q loxAfr1.scaffold_33178 99999998--------7899999999999989899999999879999999999999999999999999999999999999999999999999999999699999999999
+i loxAfr1.scaffold_33178 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+
+a score=67660.000000
+s mm9.chr10 3206565 33 + 129993255 GAGGCTGGTGG-AAGGAAATGACTC--C-TAGGAAAA
+s cavPor2.scaffold_265563 10040 26 + 10554 GAGACTGG-GG-AAGGAAATGATTC--C-C------A
+q cavPor2.scaffold_265563 99999788-99-9999999999799--9-9------9
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230023066 33 - 267910886 GAGGCTGGTGG-AAGGAAGTGACTC--C-TAGGAAAA
+q rn4.chr1 99999999999-9999999999999--9-99999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515758 33 + 167655696 GAGACTGGCTG-AAGGCAGTGATTC--T-TAAGAAGG
+q rheMac2.chr4 99999999999-9999999999999--9-99999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419960 33 - 174210431 GAGACTGGCTG-AAGGCGGTGATTC--T-TAAGAAGG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630802 33 - 173908612 GGGACTGGCTG-AAGGCAGTGATTC--T-TAAGAAGG
+q panTro2.chr6 99999999999-9999999999999--9-99999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16107053 33 - 170899992 GGGACTGGCTG-AAGGCAGTGATTC--T-TAAGAAGG
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 84104 11 - 523245 GAGACTGGTgg--------------------------
+i calJac1.Contig1260 C 0 I 361
+s otoGar1.scaffold_85251.1-136255 4941 26 - 136255 GAGGCAGGCTG-AAGGAAGTGAttt--t-t-------
+q otoGar1.scaffold_85251.1-136255 99996467424-7445599899999--9-9-------
+i otoGar1.scaffold_85251.1-136255 C 0 I 1224
+s tupBel1.scaffold_114895.1-498454 406249 33 - 498454 AAGGCTGGTTG-AAGGAAAGGCTTT--T-TAAAACAC
+q tupBel1.scaffold_114895.1-498454 99999789739-9999999999599--9-65999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_256646 118202 34 - 121936 GGCGCTAGGGGCCAGGCAACAGTTCCTC-CCACAA--
+q sorAra1.scaffold_256646 9999999999999999999999999999-999999--
+i sorAra1.scaffold_256646 C 0 I 1
+s canFam2.chr1 78271357 32 - 125616256 GAGA-TGGTTG-AAAGAAATGATTTCTT-TAAAAA--
+q canFam2.chr1 9999-999999-9999999999999999-999999--
+i canFam2.chr1 C 0 I 48
+s felCat3.scaffold_217398 137208 31 - 219823 GAGG-TGGTTG-AAAGAAATGATTTC-T-TAAAAA--
+q felCat3.scaffold_217398 9999-999999-99999999999999-9-999999--
+i felCat3.scaffold_217398 C 0 I 922
+s equCab1.chr31 13063505 31 + 24938454 GAGGCTGGTTG-AAAGATATGGTCC--T-TGAAAA--
+q equCab1.chr31 99999999999-9999999999999--9-999999--
+i equCab1.chr31 C 0 I 252
+s bosTau3.chr9 13742121 33 - 95030419 GAGACAGGTTG-AAAGAAATGATGGTTT-TAAAAA--
+q bosTau3.chr9 99999999999-9999999999999999-999999--
+i bosTau3.chr9 C 0 I 134
+s dasNov1.scaffold_16647 38752 32 - 51472 GAACCTGGTGG-AAGGAAATGATCC--T-TAGAAAA-
+q dasNov1.scaffold_16647 99999999999-9999999999999--9-9999999-
+i dasNov1.scaffold_16647 C 0 I 1063
+s loxAfr1.scaffold_33178 347 34 + 41726 GGGGCTGGCTG-GAGGAAACGATTC--TGTAACAGAA
+q loxAfr1.scaffold_33178 99999999999-9999999899999--9999999999
+i loxAfr1.scaffold_33178 C 0 I 3074
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e oryCun1.scaffold_214769 108797 130 - 139458 I
+
+a score=-16989.000000
+s mm9.chr10 3206598 32 + 129993255 TTTCAAACTTTTTCCTC--------TGTCCTCGAGTAGGG----------
+s cavPor2.scaffold_265563 10066 30 + 10554 TTTAAAGTATCTTAT----------AAGCCATGTGTAAGA----------
+q cavPor2.scaffold_265563 999999999999989----------899999999999999----------
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230023099 40 - 267910886 TTTCAAAAATTTtcctcctcctcctcctcctcTCGTAGGG----------
+q rn4.chr1 9999999999999999999999999999999999999999----------
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108515791 32 + 167655696 GTTTAGAAACGTTTCAT--------AAGTAATATACGAGC----------
+q rheMac2.chr4 99999999999999999--------999999999999999----------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16419993 32 - 174210431 GTTTAGAAATATTTCAT--------AAGTAATATATGAGC----------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16630835 32 - 173908612 GTTTAGAAATGTTTCAT--------AAGTAATATATGAGC----------
+q panTro2.chr6 99999999999999999--------999999999999999----------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16107086 32 - 170899992 GTTTAGAAATGTTTCAT--------AAGTAATATATGAGC----------
+i hg18.chr6 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 406282 15 - 498454 GTTCAGAAATGTTCC-----------------------------------
+q tupBel1.scaffold_114895.1-498454 999999999737999-----------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 753
+s sorAra1.scaffold_256646 118237 21 - 121936 -TTTAGAACCGTTTCAT--------GAGTC--------------------
+q sorAra1.scaffold_256646 -9999999999999999--------99999--------------------
+i sorAra1.scaffold_256646 I 1 I 2988
+s equCab1.chr31 13063788 41 + 24938454 -TTCAGAAATATTTCAT--------CAGTAATATATGAGCTCTATAGTAG
+q equCab1.chr31 -9999999999999999--------9999999999999999999999999
+i equCab1.chr31 I 252 C 0
+s canFam2.chr1 78271437 19 - 125616256 -CCCTG-----------------------AACATACAA-----ATAG--G
+q canFam2.chr1 -99999-----------------------999999999-----9999--9
+i canFam2.chr1 I 48 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13742154 134 - 95030419 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e dasNov1.scaffold_16647 38784 1063 - 51472 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e calJac1.Contig1260 84115 361 - 523245 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e otoGar1.scaffold_85251.1-136255 4967 1224 - 136255 I
+e oryCun1.scaffold_214769 108797 130 - 139458 I
+
+a score=88370.000000
+s mm9.chr10 3206630 84 + 129993255 -------------TATAGA-------ATAGCCAGCTCTCCGGATGCCTGC--AGGC-----ACCTTCTCACAAGGCAGCCGGAATCCCAGGTGGTTCATTTGCAGAGCTAC
+s cavPor2.scaffold_265563 10096 68 + 10554 -------------TAT-----------------GACTCTGAGATATGTG-------------ATTTCTCAGTTTGCAGTATATATCCCATAGGATTAATCTGCTGGAATTT
+q cavPor2.scaffold_265563 -------------999-----------------9999999999999999-------------9999999999999999999998999999999999969999999999999
+i cavPor2.scaffold_265563 C 0 C 0
+s rn4.chr1 230023139 82 - 267910886 -------------TATAGA-------ATAGCAAGCCCTGGGGATGCATGC--AGGT------CCTTCTCAT-AGGCAACAGGAATCCCGGGCGGTTCATTTGCAGAGCTAC
+q rn4.chr1 -------------999999-------999999999999999999999999--9999------999999999-999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 84476 84 - 523245 -------------TATATA-------ATAGCAGGCTGTGGGACTACATAC--AGGT-----GATCTCCTAGTACCTAGTGTGCCTCCTATGGGATTAATTTTCTGAAATTT
+i calJac1.Contig1260 I 361 I 5
+s rheMac2.chr4 108515823 84 + 167655696 -------------TATATC-------ATAACAGGCTGTGGGACTACATAC--AGGT-----AGTCTCCTAGTACCTAGTGTGCATCCTGTGGGATTAATTTGCTGAAATTT
+q rheMac2.chr4 -------------999999-------999999999999999999999999--9999-----99999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 5
+s ponAbe2.chr6 16420025 84 - 174210431 -------------TATATC-------ATAACAGGCTGTGGGACTACATAC--AAGT-----GATCTCCTAGTACCTAGCATGCATCTTATGAGATTAATTTGCTGAAATTT
+i ponAbe2.chr6 C 0 I 5
+s panTro2.chr6 16630867 84 - 173908612 -------------TATATC-------ATAACAGGCTGTGGGACTACATAC--AAGT-----GATCTCCTAGTACCTAGCGTGCATCTTATGGGATTAATTTGCTGAAATTT
+q panTro2.chr6 -------------999999-------999999999999999999999999--9999-----99999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 5
+s hg18.chr6 16107118 84 - 170899992 -------------TATATC-------ATAACAGGCTGTGGGACTACATAC--AAGT-----GATCTCCTAGTACCTAGCGTGCATCTTATGGGATTAATTTGCTGAAATTT
+i hg18.chr6 C 0 I 5
+s equCab1.chr31 13063829 111 + 24938454 CAGAGTCTGAGAATACATACAGGTAGATACCTGGCTACCTAGATCAGTACGTAGATACCCAGCTCTCCCAGGACCTAGCCTGCATCCGATGTCATTAGTTTGCTGAAATTT
+q equCab1.chr31 999999999999909999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78271456 79 - 125616256 TGGAG---------------------ATACCTGGCTACCTGGATCTGTGCCTTGATACCTAGATCTTCCA-----------GCATCAGGCATGATTAATTTGCTGAGATTT
+q canFam2.chr1 99999---------------------99999999999999999999999999999999999999999999-----------999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13742154 134 - 95030419 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 38784 1063 - 51472 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e otoGar1.scaffold_85251.1-136255 4967 1224 - 136255 I
+e oryCun1.scaffold_214769 108797 130 - 139458 I
+
+a score=127976.000000
+s mm9.chr10 3206714 73 + 129993255 ------AGAAAGCCATGAGGCTCATGG-ACCAGC--TTAGAGCCTTGGAGTC--AGAGAGCT-----------------------------------TACA---GTAGGCTTTCTCATAGGT----
+s rn4.chr1 230023221 68 - 267910886 ------AGAAAGCCACGAGG-TCACTG-ACCAGC--TTAGAGCCTCGG------AGAGAGCT-----------------------------------TCCA---GTGGGCTTTCTCATAGAC----
+q rn4.chr1 ------99999999999999-999999-999999--999999999999------99999999-----------------------------------9999---999999999999999999----
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 10164 74 + 10554 ------AAACAACAGTAGGG-CCACTGAATTAGC--TTAGAGCTTTTGAGTCAGAGAGAGCT-----------------------------------TACACATGTCAGTTTCTTCCT--------
+q cavPor2.scaffold_265563 ------99999999999999-9999999999999--99999999999999999999999999-----------------------------------999999999999999999999--------
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 108927 54 - 139458 ------AAGAAGCTGTGAGGCCCATTG-ATGAGC--CCAGGGGCTTTG----------------------------------------------------A---GTCAGTTTCCTGCT--------
+q oryCun1.scaffold_214769 ------999999999999999999999-999999--977999999999----------------------------------------------------9---99979999977999--------
+i oryCun1.scaffold_214769 I 130 C 0
+s calJac1.Contig1260 84565 107 - 523245 ------AAGAAGCTGGGAAGCTGATTA-ATTAGC--TTAGAGGTTTTGAGTCA--GAGAGCTGGATTTAAATCCCAGCTCTTGAGGGATTTAACCTCTTTACATGTCAGTTTcctcat--------
+i calJac1.Contig1260 I 5 C 0
+s rheMac2.chr4 108515912 109 + 167655696 ------AAGAAGCTGTGAAGCCCATTA-GTTAGC--TTAGAGGCTTTGAGTCAGAGAGAGCTGGGTTTAAGTCCCAGCTCTTTAGGGACTTAACCTCTTTACGTGTCAGTTTCCTCAT--------
+q rheMac2.chr4 ------999999999999999999999-999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999--------
+i rheMac2.chr4 I 5 C 0
+s ponAbe2.chr6 16420114 109 - 174210431 ------Aagaagctgtgaagcccatta-attagc--ttagaggctttgagtcagcgagagctgggtttaaatcacggctcttgagggacttaacctctttacatgtcagtttcctcat--------
+i ponAbe2.chr6 I 5 C 0
+s panTro2.chr6 16630956 109 - 173908612 ------AAGAAGCTGTGAAGCACATTA-ATTAGC--TTGGAggctttgagtcagagagagctggatttaaatcccggctcttgagggacttaacctctttacatgtcagtttcctcaG--------
+q panTro2.chr6 ------999999999999999999999-999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999--------
+i panTro2.chr6 I 5 C 0
+s hg18.chr6 16107207 109 - 170899992 ------Aagaagctgtgaagcccatta-attagc--ttagaggctttgagtcagagagagctgggtttaaatcccggctcttgagggacttaacctctttacatgtcagtttcctcag--------
+i hg18.chr6 I 5 C 0
+s equCab1.chr31 13063940 115 + 24938454 AAGt-gaaggaacggtgaggctgatgg-atgagc--ttagagactttgagtc--agagacctgggtttagatc-cggctaacaagtgacttaacctctttgcgtgtcagtttcctcat----ctgt
+q equCab1.chr31 9999-9999999999999999999999-999999--9999999999999999--9999999999999999999-99999999999999999999999999999999999999999999----9999
+i equCab1.chr31 C 0 I 31
+s canFam2.chr1 78271535 77 - 125616256 AAGTGGAAGAAACTGTGAGGCTCCCTC-ATGAGCTTTTCAGGGCTGTGATTTTGAGAGAGCTGG--------------------------------------------GTTTCCTCAT----CTGT
+q canFam2.chr1 999999999999999999999999999-999999999999999999999999999999999999--------------------------------------------9999999999----9999
+i canFam2.chr1 C 0 I 284
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13742154 134 - 95030419 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 38784 1063 - 51472 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e otoGar1.scaffold_85251.1-136255 4967 1224 - 136255 I
+
+a score=146661.000000
+s mm9.chr10 3206787 79 + 129993255 AGGCCTGCTGAGTGAATGACTCTGGACTTT-GATGCCAGGTGGCT--------GAGTGTAGAGCTTGTGT---GAGGGGCGACTGTAGCTA
+s rn4.chr1 230023289 87 - 267910886 AGGCCTGCTGAATGGATGACCGCAGATGCT-GATGCCCAGTGCCCAGTGCTGAGAGCATGGGGCTTGCAC---AAGGAGTGGTTGTAgctg
+q rn4.chr1 999999999999999999999999999999-999999999999999999999999999999999999999---999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 10238 91 + 10554 AAGGCTGTTGAAAACATTGAATTAGATGGTAAATGACAGATGTCCAATGCTGAAAGCATAGAGAATGTCCATTAATTAGTGGCTGTAACTT
+q cavPor2.scaffold_265563 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_265563 C 0 C 0
+s oryCun1.scaffold_214769 108981 91 - 139458 AGGGCTGTGGGAAGTGTTCAGTTGCTTGGTGGATGCCCAGTGCCCTATGTGGAGCGTACCAGATGTGGGCATTGATTGGTGGCTGGAGCTG
+q oryCun1.scaffold_214769 9996899999999979799699998899979796799969996989999999999977998997979979999997999799779989979
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 84672 90 - 523245 agggttgttgaaagtattgtattagattatgaacgccaactgccaggcaccaagtgcatagtacgtgtgcattaat-ggtggctGCAGCTA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108516021 89 + 167655696 AGGGTTGTTGAAAGTATTGTATTAGATTGTGAGTGCCAAGTGCCAGGCCCCAAGCACATAGTACGTGTGCATTAAT--GTGGCTGCAGCTA
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16420223 89 - 174210431 agggttgttgaaagtattgtattagattatgaatgccaagtgccaggcaccaagcacatagtTCATGTGCATTAAT--GTGGCTGCAGCTA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16631065 89 - 173908612 AGGGTTGTTGAAAGTATTGTATTAGATTGTGAATGCCAAGTACCAGGCACCAAGCATATAGTACGTGTGCATTAAT--GTGGCTGCAGCTA
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16107316 89 - 170899992 agggttgttgaaagtattgtattagatTGTGAATGCCAAGTACCAGGCACCAAGCATATAGTACGTGTGCATTAAT--GTGGCTGCAGCTA
+i hg18.chr6 C 0 C 0
+s equCab1.chr31 13064086 91 + 24938454 agggttgctgaaagtgttaaattagatgacgaacgttgagcacCGGGTGCTGGGTGGATAGGACCTATGCAGAAATTGGTGGCTGCAGCTG
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 31 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13742154 134 - 95030419 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 38784 1063 - 51472 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e canFam2.chr1 78271612 284 - 125616256 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e otoGar1.scaffold_85251.1-136255 4967 1224 - 136255 I
+
+a score=39541.000000
+s mm9.chr10 3206866 47 + 129993255 CTGTTGCCATTGCTGCTGC------TAG------TGATGGGCATAA-----------AGCTGGAAGCAGA
+s rn4.chr1 230023376 53 - 267910886 ctgctgctgctgctgctgctgctgTTAG------TGATGGATATGA-----------AGGGGGAGGCAGA
+q rn4.chr1 9999999999999999999999999999------999999999999-----------9999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_265563 10329 52 + 10554 GAGTTACTTATATTGCTGG------TGA------TGGTGCAAATgat------gaagagaaggaaggaga
+q cavPor2.scaffold_265563 9999999999999999999------999------9999999999999------99999999999999999
+i cavPor2.scaffold_265563 C 0 n 0
+s oryCun1.scaffold_214769 109072 53 - 139458 CTGTTGCTGGTATTGGTGG------GTG------GGGGAGGGATGAga-----ggagaggaggaggagga
+q oryCun1.scaffold_214769 9899989799899999999------998------99999999999999-----99999999999999999
+i oryCun1.scaffold_214769 C 0 I 2
+s hg18.chr6 16107405 58 - 170899992 CAGTTGCTGGTATTGATGA------TGT------Tgaggagaaggaggaggaggagacgggggaggggga
+i hg18.chr6 C 0 I 2
+s panTro2.chr6 16631154 58 - 173908612 CAGTTGCTGGTATTGATGA------TGT------Tgaggagaaggaggagaaggagaagggggaggggga
+q panTro2.chr6 9999999999999999999------999------999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 2
+s ponAbe2.chr6 16420312 58 - 174210431 CTGTTGCTGGTATTGATGA------TGT------Tgaggaggaggaggaggaggagaaggtggaggggga
+i ponAbe2.chr6 C 0 I 3
+s rheMac2.chr4 108516110 58 + 167655696 CTGTTGCTGGTATTGATGA------TAA------GGAGGTGAAAAAGGAGGAGGAGAAGGTGGAGGGGGA
+q rheMac2.chr4 9999999999999999999------999------999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 3
+s calJac1.Contig1260 84762 63 - 523245 CCGTTGCTGGTATTGATGA------TGACAATCGTGATGAG-AGAAAGAGGAGAAGAAGGGGAAGGGGAG
+i calJac1.Contig1260 C 0 I 2
+s otoGar1.scaffold_85251.1-136255 6191 32 - 136255 CAATGGCTGCTGGTGATGG------TGG------T-------AGAAGGAGG-------------------
+q otoGar1.scaffold_85251.1-136255 9996999989689879678------777------9-------789777777-------------------
+i otoGar1.scaffold_85251.1-136255 I 1224 C 0
+s equCab1.chr31 13064177 46 + 24938454 CTGTTGC---------TGG------TGT------AGATGATGATGAGGACGAGGAGGAGGGGGACAG---
+q equCab1.chr31 9999999---------999------999------999999999999999999999999999999999---
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78271896 43 - 125616256 ----------CATTGGTGG----CTTGC------AGATACTGATAAGGAGGAGGACGAGGAAG-------
+q canFam2.chr1 ----------999999999----99999------99999999999999999999999999999-------
+i canFam2.chr1 I 284 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13742154 134 - 95030419 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 38784 1063 - 51472 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+
+a score=206172.000000
+s mm9.chr10 3206913 120 + 129993255 GTGACCGATGTATACATTGT-------AGCAGGGAATT-TTAAGGCAGT-----CTCTTAAACAG--GAAAGAAGAAAAGAAGTCCCTGTTAACAAGCCTAAATTTTCAGTGGTT---------------AGTACACT---GTGTAACT--TGGC
+s canFam2.chr1 78271939 127 - 125616256 --GCCTAGTGTGTAGATAGC-------TGTGGGGAGGCACCAAGGCAGTCTCTGCTCTC----AG--GAAAACAAAAATCAGCCAAATATCGACAAGCTCATGTTCTTAGTAAGG----------AGTAATTCACATG---TTGAGACTTCTTGG
+q canFam2.chr1 --999999999999999999-------99999999999999999999999999999999----99--999999999999999999999999999999999999999999999999----------9999999999999---99999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13064223 146 + 24938454 GTGCCTAGTGTGTAGGTGGC-------AATGGGGAGATGTCAAGGCTGTCACTTCTCTCAGATAG--GAAAGCAAAAATCGGCCAAATATCGACAAACCCACATTCTTAGTTAAGTGGGTTTCTAAGTAAGAAATATGACAGTAAGACTGCTCGG
+q equCab1.chr31 99999999999999999999-------99999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 6223 119 - 136255 -------------AGGTGGT-------TGTGGGGAGATGGTAAGGCATTCTCTCCTTTTACATAG---AAAACAAAAATCACCCAAATGGCAACAAGCCCACATTCCTAGTGAAC----------AGAAATATGTCTA---CTGATACTGCTCGG
+q otoGar1.scaffold_85251.1-136255 -------------6797969-------97769968996779976276885969999999697858---79969899735697999996799959999499887996799767778----------9999999889999---99959599879999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 84827 122 - 523245 GTGTCTAATGCATAGGTAGC-------TATCAGGAGAT--------AGTCTCTGATCT----TAG-AAAAAACAAAAATCAACCAATTATCGACAGGCCCATATTCTTAGTGACC----------AGAAATTTGTATA---TTGGTACTACTTGG
+i calJac1.Contig1260 I 2 C 0
+s rheMac2.chr4 108516171 134 + 167655696 GTATCTAATGTATAGGTAGC-------TGTTGGGAGCTATTAAGGTAGTCTCTGCTCTTAGATAGAAAAAAACAAAAATCAACCTACTGTTT-TAGGCCCACATTCTTAGTGAGC----------AGAAATTTGCATA---TTGGTACTGCTTGA
+q rheMac2.chr4 99999999999999999999-------99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999----------9999999999999---99999999999999
+i rheMac2.chr4 I 3 C 0
+s ponAbe2.chr6 16420373 130 - 174210431 gTATCTAATGTATAGGTAGC-------TGTCGGGAGCTATTAAGGCAGTCTCTGCTCTTAGATAG-AAAAAACAAAAATCAACCAGTTGTTAACAGGCCCACATTCTT----AGC----------AGAAATTTGCATA---TTGGTACTGCTTGG
+i ponAbe2.chr6 I 3 C 0
+s panTro2.chr6 16631214 134 - 173908612 GGATCTAATGTATAGGTAGC-------TGTCAGGAGCTGTTAAGGCAGTCTCTGCTCTTAGATAG-AAAAAACAAAAATCAACCAATTGTTGACAGGCCCACATTCTTAGTGAGC----------AGAAAAATGCATA---TTGGTACTGCGTGG
+q panTro2.chr6 99999999999999999999-------99999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999----------9999999999999---99999999999999
+i panTro2.chr6 I 2 C 0
+s hg18.chr6 16107465 130 - 170899992 GTATCTAATGTATAGGTAGC-------TGTCAGGAGCTGTTAAGGCAGTCTCTGCTCT----TAG-AAAAAACAAAAATCAACCAATTGTTGACAGGCCCACATTCTTAGTGAGC----------AGAAAAATGCATA---TTGGTACTGCTTGG
+i hg18.chr6 I 2 C 0
+s oryCun1.scaffold_214769 109127 135 - 139458 aggaCAGGGGTGTAGAGTGTGGGTAGCTGTGGGGAGGA-TTAAGGCAGCCTCTGCTCTTAGATGG--GCAAACAAAAATCAAGTGAATGTCCACAAACCTTCATTCTTAGTAGAA--------------ATGTGCCTA---CTGATACTGCTTGC
+q oryCun1.scaffold_214769 99999999999999999999999999999999999999-99999899999999999999999899--999999999999999999999899999998999999999999999999--------------999999999---99999999999999
+i oryCun1.scaffold_214769 I 2 C 0
+s rn4.chr1 230023429 120 - 267910886 GTCATGGATGTATACATTGT-------TGCAGGGAATT-TTAAGGCAGT-----CTCTTAAATAG--GA---ACGGAAAAACATCCCTTTCAACAAGCCTACATTGTTAGTGGGT----------AG--AAGTGCACC---ATGTTACT--TGGC
+q rn4.chr1 99999999999999999999-------99999999999-9999999999-----99999999999--99---9999999999999999999999999999999999999999999----------99--999999999---99999999--9999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13742154 134 - 95030419 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 38784 1063 - 51472 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=501967.000000
+s mm9.chr10 3207033 229 + 129993255 T-TTCAAAGTAAAGGATGGATTTGTATAGTTTAAGTCTAAACCAGGAGG--AATACC--TGGATGT---------GCCAAGGATTGAATCAGATCCGTG-CATGAGGGGGAGGAGACGGAATTCTCCTTTCTTACCATAGAGCTACCCCAGCAGT-GACTGGGGG-TGGG----------ATGTGCAGT--------------------TCTGTGGGCAGAAG---CACTCTTAA------GTACAGA---TCGAAGGCCTTGGGAAGAATGGTGGG-GACA-TTGAGGG
+s rn4.chr1 230023549 237 - 267910886 T-TTCATAGTAAAGGACGGGTTAGCATAGTTTAAGTCTAAACCAGGAGC--AATTCC--TGGATGTGAGTTTGTAGCCAAGGATTGAatcagatccctgccctgagtgggatcagacagaattgtcctttcctacTATAGATCCATCTCAGCGAT-GGCTGGGGG-AGGG----------ATGTGTAGT--------------------TCTTAGGGCGGAAG---CACAC-TGA------GTGCAGA---TTGAAGG-CTTGGCGGGAATGGTGGG-AACA-TTGAGGG
+q rn4.chr1 9-99999999999999999999999999999999999999999999999--999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999-9999----------999999999--------------------99999999999999---99999-999------9999999---9999999-999999999999999999-9999-9999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109262 263 - 139458 C-TCCAAAGTAAATGATACGTTGTAACAGTT------TAAACAGAGAGG--ACTTCC--TGGA-----GTCTGTAGTCCAGTGTGGGAGCAGGTGTAGGCTCTGAGTGGGCAGCAATGGAGTTGCCGTTTCAGATGGTAGAGTTAGACAGGTAGA-GTCCTGGGA-GGGG----AGGGCTATGTGTACTAGAGAAGCTGATA----GACTCAGTGAATGAAAGTCACAGCCCTGAGGGGCTGTGGAGAACCTTGGGGGCCTTAGTAGTTGAGATGGTCAGTA-TGGAGTG
+q oryCun1.scaffold_214769 9-99999999999999999999999999999------999999999999--999999--9999-----999999999999999999999999999999999999999999999999989999999999999999999999999999999999999-999999999-9999----9999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999-9999999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16107595 245 - 170899992 C-TTCAAAGCAAATGATGGATTATATCAGATTAAGTTTAAACAGGGAGG--ACTTCC--TGGAGGTAGGTTTATAGTCACATATTTAAGCAGATAAATGTCCTGAGTAGGCAGAAATGGAGTTGTCATTTCAGATGGTAAAGTTATACCAGCAAT-GCCCTGGGA-GGGGG---AGTACCATGTGTAGAGGAGAAGCTGATA----TAATCTGCGAGTGAAAG---------TAA---------CAGG---ATAGGAG-------AGGAATCAGGAG-AACC-TGAAGG-
+i hg18.chr6 C 0 I 34
+s panTro2.chr6 16631348 245 - 173908612 C-TGCAAAGCAAATGATGGATTATATCAGATTAAGTTTAAACAGGGAGG--ACTTCC--TGGAGGTAGGTTTATAGTCACATATTTAAGCAGATAAATGCCCTGAGTAGGCAGAAATGGAGTTGTCATTTCAGATGGTAAAGTTATACAAGCAGT-GCCCTGGGA-GGGGG---AGTACCATGTGTAGAGGAGAAGCTGATA----TGATCTGCGAGTGAAAG---------TAA---------CAGG---AGAGGAG-------AGGAATCAGGAG-AACC-CGAAGG-
+q panTro2.chr6 9-99999999999999999999999999999999999999999999999--999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999-99999---9999999999999999999999999999----99999999999999999---------999---------9999---9999999-------999999999999-9999-999999-
+i panTro2.chr6 C 0 I 34
+s ponAbe2.chr6 16420503 247 - 174210431 C-TTCAAAGCAAATGATGGATTATATCAGATTAAATTTAAACAGGGAGG--ACTTCCTGTGGAGGTAGGTTTATAGTCAAATATTTAAGCAGATAAATGCCCTGAGTAGGCAGAAATGGAGTTGTCATTTCAGATGGTAAAGTTATACAAGCAGT-GCCCTGGGA-GGGGG---AGTACCATGTGTAGAGGAGAAGCTGATA----TAATCTGCGAGTGAAAG---------TAA---------CAGG---ATAGGAG-------AGGAATCAGGAG-AACC-TGAAGG-
+i ponAbe2.chr6 C 0 I 34
+s rheMac2.chr4 108516305 245 + 167655696 C-TTCAAGGCAAATGATGGATTATAACAGATTAAGTTTAAACAGGGAGG--ACTTCC--TGGAGGTAGGTTTATAGTCAAATATTTAAGCAGATAAATGCCCTGAGCAGGCAGAAATGGAGTTGTCATTTCAGATGGTAGAGTTATACAAGCAGT-GCCCTGGGA-GGGGG---AGTACCATGTGTAGGGGAGAAGCTGATA----TAATCTGTGAGTGAAAG---------TAA---------CAGG---ATAGGAG-------AGGAATGGGGAG-AACC-TGAAGG-
+q rheMac2.chr4 9-99999999999999999999999999999999999999999999999--999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999-99999---9999999999999999999999999999----99999999999999999---------999---------9999---9999999-------999999999999-9999-999999-
+i rheMac2.chr4 C 0 I 34
+s calJac1.Contig1260 84949 243 - 523245 C-TTCTAAGCAAATGATGGATTATATCAGGTTAAGTTTAAACAGGGTGG--ACTTCC--TGGAGGCAGGTGTATGGTCAAATATTTAAGCAGATAAATGCCCTGAGTAGGCGGAAATGGAGTTGTCATTTCAGATGGTAAAGT--TACAAGCCAG-GCCCTGGGACAGGTG---AGTACCATGTGTAGGGGAGAAGCTGATA----TAATCTGTGAATGAAAG---------TAA---------CAGG---ATCGGAG-------AGGAGT-GGGAG-AACC-TGAAGG-
+i calJac1.Contig1260 C 0 I 34
+s otoGar1.scaffold_85251.1-136255 6342 232 - 136255 C-TTCAAAGTAAAGGGTAGAGTATAACAGATTAAATGTAAACAGGGAAGGCACTTCC--TGGAGATGGGTTTATAGTCAAATATAGAAGCAGATAAATGCCTTGAATAGGCAGAAATAGAGTTGTGATTTCAGATGGTCAAGTTATGGAGGCAGT-GCCCTGGGA-GAGGG---A----------------ACAGGTTGATG----TGCTCTGTGAATGAAAG---------TTG---------CAGG---ATGGGAG-------AGGAGTGGGGAG-AGCCTTGCAGG-
+q otoGar1.scaffold_85251.1-136255 9-9999999999999999999999979999998998898969987899958999999--679999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999988-999999999-99999---9----------------99999999999----99999999999999999---------999---------9999---9999999-------999999999999-97999999999-
+i otoGar1.scaffold_85251.1-136255 C 0 I 862
+s equCab1.chr31 13064369 240 + 24938454 GTGTCAGAGTAAATGATGGGTTGTAATAGAT------TCGACA-GGAAG--ACTTCC--CGGAGGTGAGTTTACAGTCAAGTATTGACGTGGAGAAATGCTCCAAGTGGGCAGAAATGGAGTTGTCCTTTCAGATGGTAAAGTTGTACAAGCTGATGCTCTGGGA-AGAGGATTAGTACTGTGTG--TAGGAGAAGCTGCT-----TTCTCTGCGAATGAAAG---------TAA---------CAGG---AGAGGAG-------AGGAATGTGGAG-AACC-TGGAAG-
+q equCab1.chr31 9999999999999999999999999999999------999999-99999--999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999--99999999999999-----99999999999999999---------999---------9999---9999999-------999999999999-9999-999999-
+i equCab1.chr31 C 0 I 35
+s canFam2.chr1 78272066 229 - 125616256 CT-TCAAGGTGAATGATGGATTAAAGTAGTT------TAAGCAGGGAAG--ACTTCC--TGGAGGTGAGTTTATAGTTATGTCTCAAAGCAGAGAAATGCCCCCAGT-GGCAGAAGTGG--------CCTCAGATGGTAAAGTTACATAAGTAAATGCTTTGCAA-GGAGG---AGTCCCATAGGT-TGGGAGAAGTGGAT-----TCTTCGGTGAATGAAAG---------AAA---------CGGG---AAAGGGG-------AGGAATGGAGAG-AAGC-TTGAAG-
+q canFam2.chr1 99-9999999999999999999999999999------999999999999--999999--999999999999999999999999999999999999999999999999-99999999999--------99999999999999999999999999999999999999-99999---999999999999-99999999999999-----99999999999999999---------999---------9999---9999999-------999999999999-9999-999999-
+i canFam2.chr1 C 0 I 35
+s dasNov1.scaffold_16647 39847 209 - 51472 T-CTCAGAGTCAGTGATGGACTGTAATAGCTTAGTTTTAAAC-----------------AGGAGGTGGGTTTGGGGTCCATTTCTGAAGAAG------GCCTC---CGGGCAGAAATGGGGCTGCCATTTCCGATGGGAAGGTTCCACAGCCAGT-GCCCGGGAA-GGCG----AGACCCATGT---CAGGAGAGCCTGCTGTACTTGCTCTGCAAA-GAGCC---------TCG---------AAGG---ATAGGGC-------AAGTTCAGG----------------
+q dasNov1.scaffold_16647 9-6995676996667956878499999788956799967759-----------------467765358797536967997899747958947------79499---4285768999356797679978998599243475558999998899887-799677896-9769----6999999689---978769999878859999878998589996-99999---------959---------9799---9988889-------989999788----------------
+i dasNov1.scaffold_16647 I 1063 C 0
+s bosTau3.chr9 13742288 228 - 95030419 --TTCAAAGTAAATGATTGGTTATACTGAAG------TAAACATGGAAG--GCTTCC--TGGAGGTGGGCTTAT--CCACATATTGAAGTGGAGAAGTGC-CCGAGTGGGCAGAAGTGGAGTTGCCGTTCCAAATGGTGAAGTTACCCAAGCAAA-GCTCTGTGA-AGAGG---AATACCATGCAG-AGGGAGAGGCTGAT-----TACTCTGATAGTGAA-----------TAG---------CAGG---AACAGAG-------A-GCCTGGGCAG-AAAC---GAAG-
+q bosTau3.chr9 --99999999999999999999999999999------999999999999--999999--999999999999999--999999999999999999999999-999999999999999999999999999999999999999999999999999999-999999999-99999---999999999999-99999999999999-----999999999999999-----------999---------9999---9999999-------9-9999999999-9999---9999-
+i bosTau3.chr9 I 134 I 36
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=54466.000000
+s mm9.chr10 3207262 83 + 129993255 GTG-TAGGTTACAGAGC-------A-------G-----ATTCAGCATAGATGTCGAGTAAAACTA--------CTGTTT-------T----------------------CCCTGTGTGCTCCCCTCCACCCCCGTCTCGG
+s rn4.chr1 230023786 80 - 267910886 GTG-TAGGTTACAGAGC-------A-------GTACACATTCAGAATAGATGTTGGGTAAAACTC--------CTGTTT-------TA---------------------CCCTGCCTGCTCCCCT---------TCTCTG
+q rn4.chr1 999-9999999999999-------9-------999999999999999999999999999999999--------999999-------99---------------------9999999999999999---------999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109525 108 - 139458 GTGTTAGGTGGCTGAGCCCGGCCAA-------GTTCAGGGTCAAAATGATTCCTGAG-GAGGCTC--------CTCATT-------AATAACTACATAACAGCATGAGCACCTGCTTTCTGCTCT---------GTTAGG
+q oryCun1.scaffold_214769 9999999999999999999999999-------9999999999999999999999999-9999999--------999999-------999999999999999999999999999999999998998---------999999
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 85226 112 - 523245 GCA-TAGGTTGCTGAGC-------A-------GGCTGCGTGCAGCATAGTTTCTGAG-GAGGGGC--------CACATTAT----TCCTGCAGAGATACCAGGATGAGCAAGTGCTTTTTGCCTGGTCTACTTGTTGCTC
+i calJac1.Contig1260 I 34 C 0
+s rheMac2.chr4 108516584 112 + 167655696 GTG-TAGGTTAATGAGC-------A-------GGCTGGGTGCAGCATAATGTCTGAG-GAGGGTC--------CACATTATTACAGCATAG----ATACCAGGGTGAGCAACTACGTTTTGCCCGTTCTACTTTTTGCTC
+q rheMac2.chr4 999-9999999999999-------9-------9999999999999999999999999-9999999--------999999999999999999----999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 34 C 0
+s ponAbe2.chr6 16420784 112 - 174210431 GCG-TAGGTTGATGAGC-------A-------GGCTGGGTGCAACATAATTTCTGAG-GAGGGTA--------CACATTATTACAGCATAG----ATACCAGCGTGAGCAACTACTTTTTGCCCGGTCTACTTTTTGCTC
+i ponAbe2.chr6 I 34 C 0
+s panTro2.chr6 16631627 112 - 173908612 GCG-TAGGTTGATGAGC-------A-------GGCTGGGTGCAGCATAATTTCTGAG-GAGGGTC--------CACATTATTACAGCATAG----ATACCAGGATGAGCAACTACTTTTTGCCTGGTCTACTTTTTGCTC
+q panTro2.chr6 999-9999999999999-------9-------9999999999999999999999999-9999999--------999999999999999999----999999999999999999999999999999999999999999999
+i panTro2.chr6 I 34 C 0
+s hg18.chr6 16107874 112 - 170899992 GCG-TAGGTTGATGAGC-------A-------GGCTGGGTGCAGCATAATTTCTGAG-GAGGGTC--------CACATTATTACAGCATAG----ATACCAGGATGAGCAACTACTTTTTACCTGGTCTACTTTTTGCTC
+i hg18.chr6 I 34 C 0
+s canFam2.chr1 78272330 118 - 125616256 GGG-TGGGTTGCTGAGG-------AAGACAA-GTCCAAGGTCAAAATGATTTCTGAG-GATGATCTACATTATTGCAAATTCA------------ATACCAGAGTGAGCAACAAATCTTTTCCCCATCGACTGTTTGCCC
+q canFam2.chr1 999-9999999999999-------9999999-9999999999999999999999999-9999999999999999999999999------------999999999999999999999999999999999999999999999
+i canFam2.chr1 I 35 I 9
+s equCab1.chr31 13064644 119 + 24938454 GGA-TAGGTTGCTGAGC-------AGAGCAAGGTCCGAGTCAAAAGTGATTTCTGAG-GAGGAGCTGTGTTATTGCAATACAG------------ATACCAGGGTGAGCAACTCCTCCTTGGCCAATCTACTTTTTCCGC
+q equCab1.chr31 999-9999999999989-------999999999999999999999999999999999-9999999999999999999999999------------999999999999999999999999999999999999999999999
+i equCab1.chr31 I 35 C 0
+s bosTau3.chr9 13742552 116 - 95030419 TTG-TAGATTGCTGAGC-------AGGGCAA-GTTCACTGTCAAAATGACTCCTGAG-GAGGTTCTGTGTTATTACAGCATTG------------GTACCAGGGTGAGCAACCACTCTTTGCTCTCTCTACCTTTTGC--
+q bosTau3.chr9 999-9999999999999-------9999999-9999999999999999999999999-9999999999999999999999999------------9999999999999999999999999999999999999999999--
+i bosTau3.chr9 I 36 C 0
+s dasNov1.scaffold_16647 40056 69 - 51472 ---------------------------------GTCAGATCCAAATTAT------------------------TACAATATAG------------CTAACAGGGCAAATGACTAGTTTTCACCGTGTCCACTTCTGCC--
+q dasNov1.scaffold_16647 ---------------------------------8998999999999999------------------------9999999999------------9999989998689599998978999997979899997998999--
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e felCat3.scaffold_217398 137239 922 - 219823 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 6574 862 - 136255 I
+
+a score=222043.000000
+s mm9.chr10 3207345 100 + 129993255 T----CTCCCTTCATCTCGTAATAGTTTAAT---AGGAACA-TTTATATTTGGGCTG-------TCGGACCATAGAGAGAATTGTC------CAC---------------------GGTATTGTCC---AAGTTTGCCTAAAGGT-
+s rn4.chr1 230023866 105 - 267910886 T----CTCCCCTCATCTTGTAATAGTTCAAT---TGGGACA-TTTATATTTGGGCCG-------TCGAACCGT-GAAGTATTTGTCTGATAACAC---------------------GGTATTATCT---GAGTTTGCTTAAAGGT-
+q rn4.chr1 9----99999999999999999999999999---9999999-999999999999999-------999999999-999999999999999999999---------------------9999999999---9999999999999999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109633 113 - 139458 TTGCACTCTCTGCCCGTTATAACAGTTTAAC---ACACAGATTTTGTATATGATCTG-------TCTCCCTGCAGAAATACTTCCTCAACAAGAC---------------------AGCATTCTCCTCTGAGCTTGCCCACTGG--
+q oryCun1.scaffold_214769 9999999999999999999999999999999---99999999997999999999998-------9999997999999999999999999999999---------------------9998998999999999999999999899--
+i oryCun1.scaffold_214769 C 0 C 0
+s calJac1.Contig1260 85338 129 - 523245 T----CTTTCCCCATCTTTTAACAGTTTAATTA-ACAAAAA-TTTACACATGATGAG-------TCCAACTGCAGAAATAATTCCTCAGTGATACATTCAGTGTATCACTCAGTGAGGTATTCACTTCTGAGTTTGCCTCTC----
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108516696 129 + 167655696 T----CTTTTCCCATCTTGTAGCAGTTTAATTA-AACAACA-T-TAAATGTGGTGAG-------TCCAACTGCAGAAATAATTCCTCAATGATATATTCGGTGTATCACTCAGTGAGGCA-TGGCCTCTGAGTTTGCCTCTCAG--
+q rheMac2.chr4 9----9999999999999999999999999999-9999999-9-9999999999999-------99999999999999999999999999999999999999999999999999999999-99999999999999999999999--
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16420896 131 - 174210431 T----CTTTCCCCATCTTGTAACAGTTTAATTA-AAAAAAA-TGTACACCTGGTAAA-------TCTAACTGCAGAAATAATTCCTCAATTATACATTCGGTGTATCACTCAGTGAGGCACTGGCATCTGAGTTTGCCTCTCAG--
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16631739 131 - 173908612 T----CTTTCCCCATCTTGTAACAGTTTAATTT-AAAAAAA-TATACATGTGGTGAG-------TCCAACTGCAGAAATAATTCCTCAGTGATACATTCGGTGTATCACTCAGTGAGGCATTGGCCTCTGAGTTTGCCTCTCAG--
+q panTro2.chr6 9----9999999999999999999999999999-9999999-999999999999999-------99999999999999999999999999999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16107986 132 - 170899992 T----CTTTCCCCATCTTGTAACAGTTTAATTTAAAAAAAA-TGTACACGTGGTGAG-------TCCAACTGCAGAAATAGTTCCTCAATGATACATTCGGTGTATCACTCAGTGAGGCATTGGCCTCTGAGTTTACCTCTCAG--
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78272457 106 - 125616256 -------CACACCATCTTATAAAAGTTTAAT---AAACATTTTTTATATGTGATACA-------GTAGACGGTGGCAGTGTTTCCTCTCTGGTAT---------------------GGTATTCGCCTCTGAGTTGGCTTACCAG--
+q canFam2.chr1 -------999999999999999999999999---99999999999999999999999-------9999999999999999999999999999999---------------------9999999999999999999999999999--
+i canFam2.chr1 I 9 C 0
+s felCat3.scaffold_217398 138161 109 - 219823 T----TTCCCCTCATCTTATAAAAGTTTCCT---AAAAATGTTTTGTACGTAATCTA-------TCCAACGGCGGAAATCTTTCCTCCATGATAT---------------------GGCATTCACCCCTGAGTTTGCCTGTCAG--
+q felCat3.scaffold_217398 9----99999999999999999999999999---99999999999999999999999-------9999999999999999999999999999999---------------------9999999999999999999999999999--
+i felCat3.scaffold_217398 I 922 C 0
+s equCab1.chr31 13064763 109 + 24938454 T----CTTCCTCCATCTAATAAAAGTTTAAT---AGAAATTTTTTATGCTTGATGTG-------TCAAACTGCAGAAATGTTTCCTCGACGATAC---------------------GGCATTTACCGCTGAGTTTACCTATCAG--
+q equCab1.chr31 9----99999999999999999999999999---99999999999999999999999-------9999999999999999999999999999999---------------------9999999999999999999999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13742668 115 - 95030419 T----CTTTCCCCGTCttataaaagtttaat---aaacattttttaaaaataataCAAAGTGCCTCAAACTGCAGAGATATTTCTTCCAGGCTCT----------------------GCGTTCACCTCTGAGTTTGCCCACTGG--
+q bosTau3.chr9 9----99999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999----------------------999999999999999999999999999--
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 40125 104 - 51472 -----CTCCCTTCATCTTCTAGCAGTT-------TAAAGTT-TCTGCACCTCGCCTG-------TCAAACTGCAGGAGTCTTTCCCAGACCATGC---------------------GGCATTCCCCTCCAAGCTTTCCTGCCAG-A
+q dasNov1.scaffold_16647 -----9999999988999999999999-------9988899-998999999999979-------9999997999999999989989999999996---------------------9999999999999999999999999888-9
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 6574 862 - 136255 I
+
+a score=76874.000000
+s mm9.chr10 3207445 45 + 129993255 GTCTCTTAGGA-AAAGCGTATTCTTCCACCCTCTGGCTTTCCCTAG
+s rn4.chr1 230023971 44 - 267910886 GTCTCTCAGG--AAAGCATATTCTCCCATCCTCCGGCTTTCCCTAG
+q rn4.chr1 9999999999--9999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109746 42 - 139458 GCCTGCTGGGAGGGAGCCTGTT----CACCTCTCTGCTTTCCTTAA
+q oryCun1.scaffold_214769 9999999999999999999999----99999999999999999999
+i oryCun1.scaffold_214769 C 0 I 136
+s otoGar1.scaffold_85251.1-136255 7436 40 - 136255 GCCTCTT-GGAGGGAGAATATTCTT----CTTTATGCTTCCTTTA-
+q otoGar1.scaffold_85251.1-136255 7339899-99889999988989999----9998999999999989-
+i otoGar1.scaffold_85251.1-136255 I 862 C 0
+s calJac1.Contig1260 85467 37 - 523245 -------AGGAGAGAGAATATTCATTTACCTTTACATTTCCCTT--
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108516825 45 + 167655696 GCCTCTTAGGAGAGAGAATATTCATTCATCTTTATATTTCCCTTA-
+q rheMac2.chr4 999999999999999999999999999999999999999999999-
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16421027 45 - 174210431 GCCTCTTAGGAGAGAGAATATTCATTCATCTTTACATTTCCCTTA-
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16631870 45 - 173908612 GCCTCTGAGGAGAGAGAATATTCATTCATCTTTACATTTCCCTTA-
+q panTro2.chr6 999999999999999999999999999999999999999999999-
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16108118 45 - 170899992 GCCTCTGAGGAGAGAGAATATTCATTCATCTTTACATTTCCCTTA-
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78272563 39 - 125616256 GCCTGTC--GGGGGAGCGTCTT----TGTCTTTATGCTTCCCTTA-
+q canFam2.chr1 9999999--9999999999999----9999999999999999999-
+i canFam2.chr1 C 0 I 1
+s felCat3.scaffold_217398 138270 40 - 219823 GCCTGTCA-GGAAGAGTGTATC----TGTCTTTATGCTTCCCTTA-
+q felCat3.scaffold_217398 99999999-9999999999999----9999999999999999999-
+i felCat3.scaffold_217398 C 0 I 1
+s equCab1.chr31 13064872 41 + 24938454 GGTTTTTAGGAAGGAGCGTATT----TATTTTTATGCTTCCCTTA-
+q equCab1.chr31 9999999999999999999999----9999999999999999999-
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13742783 41 - 95030419 GCATTTAAGGATGGAGTGTATT----AATATTTATGCCTCCCTTA-
+q bosTau3.chr9 9999999999999999999999----9999999999999999999-
+i bosTau3.chr9 C 0 I 1
+s dasNov1.scaffold_16647 40229 12 - 51472 -GCTCTTAAGAAG---------------------------------
+q dasNov1.scaffold_16647 -999999799999---------------------------------
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=67353.000000
+s mm9.chr10 3207490 38 + 129993255 CACAGAGCAGTTCCACTTA-CTGATCCGATCTCCCAGTC
+s rn4.chr1 230024015 33 - 267910886 CACAGAGCAATGCCAGT------GGCCGATTGCTGTGTT
+q rn4.chr1 99999999999999999------9999999999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7476 38 - 136255 CGGTGGAGGCTGCCTGTTA-CTAATCTCCTGCCTCTGTT
+q otoGar1.scaffold_85251.1-136255 8999999966998999979-9999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 85504 39 - 523245 AAAGGAGGGGTGCCTGTGATTTAATTTGCTTCCTGTGCT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108516870 38 + 167655696 AAAGGAAGGATGTCTGTTA-CTAATTTGCTACCTATGCT
+q rheMac2.chr4 9999999999999999999-9999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16421072 38 - 174210431 AAAGGAGGGATGTCTGTTA-CTCATTTGCTACCTATGCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16631915 38 - 173908612 AAAGGAGGGGTGTCTGTTA-CTAATTTGCTACCTATGCT
+q panTro2.chr6 9999999999999999999-9999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16108163 38 - 170899992 AAAGGAGGGGTGTCTGTTA-CTAATTTGCTACCTATGCT
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78272603 37 - 125616256 AATGGAAGAGTGCCT-TTC-CTAATAGACTCCCTATGTT
+q canFam2.chr1 999999999999999-999-9999999999999999999
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 138311 38 - 219823 AATGGAGGCGTGCCTGTTT-CTGGTTTACTCCCTAAGTG
+q felCat3.scaffold_217398 9999999999999999999-9999999999999999999
+i felCat3.scaffold_217398 I 1 C 0
+s equCab1.chr31 13064914 38 + 24938454 AATTAAGGGATGTGTGTTT-CTAATTGACTTCCGATGTT
+q equCab1.chr31 9999999999999999999-9999999999999999999
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13742825 38 - 95030419 AATGCAGGAATGCCTGTTT-CTAATTTATTTCTTATATT
+q bosTau3.chr9 9999999999999999999-9999999999999999999
+i bosTau3.chr9 I 1 C 0
+s dasNov1.scaffold_16647 40241 34 - 51472 ----GCGCATATTCATTTT-CTAATGTGCCACCCAGGTC
+q dasNov1.scaffold_16647 ----989999999999999-9999999999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e tupBel1.scaffold_114895.1-498454 406297 753 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 109788 136 - 139458 I
+
+a score=296372.000000
+s mm9.chr10 3207528 113 + 129993255 GTCCTGG-TTCACACGCTT---------------CACCTGCAAGCCCCT-TCTGCTTTACAATAGGCTCTCCTAAGTTGTC-CCATGAGTACCACTGATTCCAGATGGGACCAACTGCATTGTTTCTCTGG-
+s rn4.chr1 230024048 112 - 267910886 ATCCTGG-TTCACACGCTT---------------CATCTGCAAGCCCAT-TCTACATTACAATAGGCTCTAATAAATCGTC-CCAAGAGTA-CACTGATACCCGATGGAACCAACTGCATTGTTTCTCTGG-
+q rn4.chr1 9999999-99999999999---------------999999999999999-9999999999999999999999999999999-999999999-999999999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16108201 112 - 170899992 TTGTTAT-TTAACAATCTT---------------TGTTCATATATCTTTGTCTGGATTATTAGTAGCTTTAAT-AGTCACT-CTGAGGTTATTTCTGTTACCAAATTTAAATGAATATATTGTGTCCCTA--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16631953 112 - 173908612 TTGTTAT-TTAACAATCTT---------------TGTTCATATATCTTTGTCTGGATTATTAGTAGCTTTAAT-AGTCACT-CTGAGGTTATTTCTGTTACCAAATTTAAATGAATATATTGTGTCCCTA--
+q panTro2.chr6 9999999-99999999999---------------999999999999999999999999999999999999999-9999999-999999999999999999999999999999999999999999999999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16421110 111 - 174210431 TTGTTAT-TTAACAATCTT---------------TGTTCATATATCTTTGTCTGGATTATTAGTAGCTTTAAT-AGTCCCT-C-GAGGTTATTTCTGTTACCAAATTTAAATGAATATATTGTGTCCCTA--
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108516908 111 + 167655696 TTGTTAT-TTAATAATCTT---------------TGTTCATGTATCTTTGTCT-GATTATTAGTAGCTTTAAT-AGTCACT-CTGAGGTTATTTCGGTTACCAAATTTAAATGAATATATTGTGTCCCTA--
+q rheMac2.chr4 9999999-99999999999---------------9999999999999999999-9999999999999999999-9999999-999999999999999999999999999999999999999999999999--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 85543 112 - 523245 TTGTTAT-TTAACAATCTT---------------TGTTCACACATCCTTGTCTGGATTATCAGTAGCTGTAAT-AGTCACT-CTGCAGTTATTGCTGATACCAAATTTAAATGAATGTATCATGTCCCTA--
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7514 113 - 136255 ATATTAT-TTAACAATCTT---------------CATGTCTACATCCTGGTCTGGGTCCTTAATGGCTTGTGTAAGTCACC-CTGCAGTTACTACTGCTACTGTATTCAAATGAATATATTGAATCCCCA--
+q otoGar1.scaffold_85251.1-136255 9999999-99998899999---------------88999999979999999999997999999554899995439999989-999989999989999999999999995999999999888999799899--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407050 109 - 498454 GTGTTGT-TTAACACTC-T---------------CACTCGCACATCCTGGTCTGGATCATTAGTGGTCTTAAAAAGTTACC-CTACA-TTATTACTGATACCAAAGGTAACCGAATATA--ATGTCCCTA--
+q tupBel1.scaffold_114895.1-498454 8799995-989999999-9---------------99999998789999998999999999999999999999999999999-99999-9999999999999999999999999999999--999999999--
+i tupBel1.scaffold_114895.1-498454 I 753 C 0
+s canFam2.chr1 78272640 109 - 125616256 GTGTTGCTTTAATAATCTT---------------TGTGCATATATCCTGGTCT------TCAGTGGCTTAAACAAGTCACCTCCATGATGACTGCTGCTCCCACGTTTATCTGAATATAGTGTGTCACCG--
+q canFam2.chr1 9999999999999999999---------------9999999999999999999------99999999999999999999999999999999999999999999999999999999999999999999999--
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138349 113 - 219823 GTGTTTC-TTAATAGTCTT---------------TGTTCATATATCCTGGTCTGGGTTGTTGGTGGCTTCAGTGAGTCACC-CCACAATGAGTGCCGATAGCAAATTTATCCGAATACATTGTGTCACCA--
+q felCat3.scaffold_217398 9999999-99999999999---------------99999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999--
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13064952 113 + 24938454 GTGTTAC-TTTGCAGTCTT---------------CGCTCACTTGTCCTGGTCTGGGTCGTTAGCGGCTTGCCTAAGTCACC-CTGCAATGATTGTTAATACCAAATTTAACTGGATACATTGTGTCACTA--
+q equCab1.chr31 9999999-99999999999---------------99999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13742863 111 - 95030419 GTGTTCC-TGAGCAGTCTC---------------TGCTCTTACATCCTGGTTT-GGTTGTTCGTGGCTTGAATAAGTCACC-GTGCAGTGACTGCTGAGACCAAA-TTAAGTGAATATATTGTGTCACTA--
+q bosTau3.chr9 9999999-99999999999---------------9999999999999999999-999999999999999999999999999-99999999999999999999999-999999999999999999999999--
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 40275 109 - 51472 ATGTTAT-CTAACAGTCTTCTCCCCAAAACGTGCCGCTCACACATCATGGACTA--------------------AGTTACC-CTGCGATTACTGTTGATGGCAGATTTAACTGAATGCGTTATGCCCCTG-G
+q dasNov1.scaffold_16647 9899999-9999997999999999999999999999999999999999889999--------------------9999999-899577621112229968999999978996899889998946764210-0
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 109788 136 - 139458 I
+
+a score=106099.000000
+s mm9.chr10 3207641 22 + 129993255 -GAAAAAGCAACAGTCACAGAAG
+s rn4.chr1 230024160 22 - 267910886 -GAAAAAGCGACGGTCAGAGAAG
+q rn4.chr1 -9999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109924 15 - 139458 -GAAAGAG-------CAGGAAAG
+q oryCun1.scaffold_214769 -9999999-------99999999
+i oryCun1.scaffold_214769 I 136 C 0
+s hg18.chr6 16108313 22 - 170899992 -GACAGAGAAATGGTCAAGAAAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16632065 14 - 173908612 -GACAGAGAAATGGT--------
+q panTro2.chr6 -99999999999999--------
+i panTro2.chr6 C 0 I 320
+s ponAbe2.chr6 16421221 22 - 174210431 -GACAAAGAAATGGTCAAGAAAG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108517019 22 + 167655696 -GACCAAGAAATGGTCAAGAAAG
+q rheMac2.chr4 -9999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 85655 22 - 523245 -GACAAAGAGATGGTCAAGAAAG
+i calJac1.Contig1260 C 0 I 621
+s otoGar1.scaffold_85251.1-136255 7627 22 - 136255 -GACAAAGAGATAGTCAAGAAGG
+q otoGar1.scaffold_85251.1-136255 -8865899998888688999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407159 22 - 498454 -GACAAAGAGATGATCAGGAAAA
+q tupBel1.scaffold_114895.1-498454 -9999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78272749 22 - 125616256 -GACAAAGAGATGGTCAGGAGAG
+q canFam2.chr1 -9999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138462 22 - 219823 -GACAAAGAAGTGGTCAGGAGAG
+q felCat3.scaffold_217398 -9999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065065 22 + 24938454 -GACAAAGAGACGGTCAGGAGCG
+q equCab1.chr31 -9999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13742974 22 - 95030419 -CACAGAGAGATGGTCGGGAGAG
+q bosTau3.chr9 -9999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 40384 23 - 51472 TCACAGAGAGATGGGCAGGACAG
+q dasNov1.scaffold_16647 00211119779459998578887
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=74680.000000
+s mm9.chr10 3207663 21 + 129993255 AATAGCCCT-----TGTTTGTAATGC
+s rn4.chr1 230024182 21 - 267910886 AATAGCCCT-----TGTTCCTAATGC
+q rn4.chr1 999999999-----999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109939 21 - 139458 AGCGGCCTT-----TGTCTGAAATTC
+q oryCun1.scaffold_214769 999999999-----999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16108335 26 - 170899992 AACTGTTCTTTggctgggtgtggtgg
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16632399 21 - 173908612 AACAGTT-----GTTGTTTGAAGTGC
+q panTro2.chr6 9999999-----99999999999999
+i panTro2.chr6 I 320 C 0
+s ponAbe2.chr6 16421243 26 - 174210431 AACTGTTCTTTggctgggtgtggtgg
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108517041 26 + 167655696 AACCGTTCTTTGGCTGGGTGTGGTGG
+q rheMac2.chr4 99999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 86298 21 - 523245 AATGGTTCT-----TGTTTGAAGTGC
+i calJac1.Contig1260 I 621 C 0
+s otoGar1.scaffold_85251.1-136255 7649 21 - 136255 AACAGTTCT-----TGTTTGAAGTGC
+q otoGar1.scaffold_85251.1-136255 979899999-----996999999678
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407181 21 - 498454 AATAGTTTT-----TGTTTGAAATGC
+q tupBel1.scaffold_114895.1-498454 999999999-----999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78272771 21 - 125616256 AACGGTCCT-----TGTTTGAAATGC
+q canFam2.chr1 999999999-----999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138484 21 - 219823 AACAGTCCC-----TGTTTGAAATGC
+q felCat3.scaffold_217398 999999999-----999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065087 21 + 24938454 AACAGTCCT-----TGTTTGAAATGC
+q equCab1.chr31 999999999-----999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13742996 21 - 95030419 GACCGGCCT-----TGTTTGAACTGC
+q bosTau3.chr9 999999999-----999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 40407 21 - 51472 AGCAGTCCT-----GGTGTGAAATGC
+q dasNov1.scaffold_16647 899965993-----593533899459
+i dasNov1.scaffold_16647 C 0 I 2132
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=63739.000000
+s mm9.chr10 3207684 65 + 129993255 CTGGCTC--------------CCTGAGCAGGTC----TGAGAAAATTCCTCC---AT-CCTAGAA--CTGTGGCAGAATCCTGTGT-------------GCC---
+s rn4.chr1 230024203 65 - 267910886 CTGGCTC--------------CCTGAGCAGGTC----TGAGAAAATGTCTCC---AT-CCTAGAG--CTGTGGCAGAATTCTGTGT-------------GCC---
+q rn4.chr1 9999999--------------999999999999----999999999999999---99-9999999--9999999999999999999-------------999---
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 109960 66 - 139458 TTCACTC--------------ATGTAGCAGGTT----TGAGAAAACTCCCTC---ATCCCCAGAA--TTGTGGCAAAATTCTACAC-------------GCC---
+q oryCun1.scaffold_214769 9999999--------------999999999999----999999999999999---9999999999--9999999999999999999-------------999---
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16108361 80 - 170899992 cttacacctataatcccagcactttgggaggccgagatgggaggatcacttg---agcccaggag--tt-tgaaaccagcccgggt-------------------
+i hg18.chr6 C 0 I 224
+s panTro2.chr6 16632420 74 - 173908612 CTCACTCATTCACTC------ATCCTGTAGGTC----TAAGAACACTCCCAC---ATCCTCGGAG--TTGTGGCATAATTCTGTGT-GCC---------------
+q panTro2.chr6 999999999999999------999999999999----999999999999999---9999999999--9999999999999999999-999---------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16421269 80 - 174210431 cttacacctataatcccagcactttgggaggccgaggtgggaggatcacttg---agcccaggag--tt-tgaaaccagcctgggt-------------------
+i ponAbe2.chr6 C 0 I 384
+s rheMac2.chr4 108517067 83 + 167655696 CTTACTCCTATAATCCCAGCACTTTGGGAGGCCGAGGTGGGAGGATCACTTG---AGCCCAGGAG--TT-TGAAACCAGCCCGGGTAAC----------------
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999---9999999999--99-9999999999999999999----------------
+i rheMac2.chr4 C 0 I 221
+s calJac1.Contig1260 86319 74 - 523245 CTCACTCATTCACTC------ATTCTGCAGGTC----TAAGAAAACTCCCCC---ATCCTCAGAG--TTGTGGCATAATTCTGTGT----GCC------------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7670 70 - 136255 CTCGCTCA---GCTC------ATTCAGCAGGTC----TGAGAAAACT-CTAC---AGCCCCCTAG--CTGTGGCGGAGTTCTGTGG-------GCA---------
+q otoGar1.scaffold_85251.1-136255 99952998---8899------879969997537----9999999999-9999---6999999999--9999997997899999999-------999---------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407202 66 - 498454 ATTACTT--------------ATTCAGCAGGTC----TGAGAAAACGCCTAC---ATCCTTGGAG--TTGTGGCAAAGCTTCATGT----------GCT------
+q tupBel1.scaffold_114895.1-498454 9999999--------------999999999999----999999999999999---9999999999--9999999999799999999----------999------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78272792 71 - 125616256 CTCATTC--------------ATCCGGCAGGTC----TGAGAAGGTGCCTTCTGAGTCCCCAGAGTTTTATAACAAAATTCTCTGT----------------GCC
+q canFam2.chr1 9999999--------------999999999999----9999999999999999999999999999999999999999999999999----------------999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138505 69 - 219823 CTCATTC--------------ATCCTGCACGTC----TGAGAAGATGCCTTCTGAGTCCCCAGAG--TTATGGCAAAATTCTGTGG----------------GCC
+q felCat3.scaffold_217398 9999999--------------999999999999----9999999999999999999999999999--9999999999999999999----------------999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065108 69 + 24938454 CTCATTC--------------ATTCAGCAGGTC----TGAGAAGATGCCTTCTGAGTCCCTGGAG--TGATGGCAAAATTCTGTGC----------------GCC
+q equCab1.chr31 9999999--------------999999999999----9999999999999999999999999999--9999999999999999999----------------999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743017 69 - 95030419 CTCATTC--------------ATGCAGCAGATC----TGAGAACATTCCTTCTGAGTCCTCAGAC--ATAGAGCAAAATTCTGTGT----------------GCC
+q bosTau3.chr9 9999999--------------999999999999----9999999999999999999999999999--9999999999999999999----------------999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=63469.000000
+s mm9.chr10 3207749 41 + 129993255 CAGTACATAAGTTTGTTATAACATCAAAGAGTCACTTATCT-
+s rn4.chr1 230024268 37 - 267910886 CAGCACACA----CATTATAACATCAAAGAGTCACCTATCT-
+q rn4.chr1 999999999----9999999999999999999999999999-
+i rn4.chr1 C 0 I 349
+s oryCun1.scaffold_214769 110026 27 - 139458 TGGTACACA----AATTAGAATATCAAAGAG-----------
+q oryCun1.scaffold_214769 999999999----999999999999999999-----------
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16632494 30 - 173908612 TGGTACACA----GATTATAGTATCAAAGAG------ATC--
+q panTro2.chr6 999999999----999999999999999999------999--
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 86393 30 - 523245 TGGTACACA----GATTACAGAATCAAAGAG------ATC--
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7740 30 - 136255 CGGTACACA----GATTATAACATCAAAGAG------ATC--
+q otoGar1.scaffold_85251.1-136255 999999999----999999999999999999------999--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407268 30 - 498454 TGATACACA----AATAAAAATATCAAAAGG------ATA--
+q tupBel1.scaffold_114895.1-498454 999999999----999999999998999999------979--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78272863 31 - 125616256 CAGAACACA----AGTTACAATACCAGAGAG------ATC-C
+q canFam2.chr1 999999999----999999999999999999------999-9
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138574 31 - 219823 CAGTACACA----AGTTCTCATACCAAAGAG------ATC-T
+q felCat3.scaffold_217398 999999999----999999999999999999------999-9
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065177 31 + 24938454 TGATACACA----AATTATAATATCAAAGAG------ATC-C
+q equCab1.chr31 999999999----999999999999999999------999-9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743086 31 - 95030419 TGGTACACA----AATTATAATATCAAAGAG------ATC-T
+q bosTau3.chr9 999999999----999999999999999999------999-9
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e rheMac2.chr4 108517150 221 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e hg18.chr6 16108441 224 - 170899992 I
+e ponAbe2.chr6 16421349 384 - 174210431 I
+
+a score=-2437.000000
+s mm9.chr10 3207790 39 + 129993255 ACCTGTCTGATCTCATCTACATTCAGTTGCTTAGTGTtc-
+s oryCun1.scaffold_214769 110053 29 - 139458 ---------ATCTCATGTGGGATCCATTCACTAGTATT--
+q oryCun1.scaffold_214769 ---------99999999999999999999999999999--
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16632524 27 - 173908612 ACATGTTTTATTTC-----------TTTCACCAGTATT--
+q panTro2.chr6 99999999999999-----------9999999999999--
+i panTro2.chr6 C 0 I 41
+s calJac1.Contig1260 86423 23 - 523245 ACATGGTTTA---------------TTTCAGCAGCATT--
+i calJac1.Contig1260 C 0 I 88
+s otoGar1.scaffold_85251.1-136255 7770 27 - 136255 TCATGTTTGATTTC-----------CTTCACTAGTGCT--
+q otoGar1.scaffold_85251.1-136255 99999999998999-----------9999999999999--
+i otoGar1.scaffold_85251.1-136255 C 0 I 26
+s tupBel1.scaffold_114895.1-498454 407298 10 - 498454 CTATGTCTGA------------------------------
+q tupBel1.scaffold_114895.1-498454 9999999999------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78272894 27 - 125616256 -AGCCCCTGATTTC-----------TTTCATGAGCAGT-T
+q canFam2.chr1 -9999999999999-----------9999999999999-9
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138605 27 - 219823 -GGCTTCTGATTTC-----------TTCCACTAGTGTT-T
+q felCat3.scaffold_217398 -9999999999999-----------9999999999999-9
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065208 27 + 24938454 -CCTTTCTGATTTC-----------TTTCACTAGTATT-T
+q equCab1.chr31 -9999999999999-----------9999999999999-9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743117 26 - 95030419 -CGTTTCTGATCTC-----------CTTCACTAGTATT--
+q bosTau3.chr9 -9999999999999-----------9999999999999--
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e rn4.chr1 230024305 349 - 267910886 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e rheMac2.chr4 108517150 221 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e hg18.chr6 16108441 224 - 170899992 I
+e ponAbe2.chr6 16421349 384 - 174210431 I
+
+a score=-10618.000000
+s mm9.chr10 3207829 40 + 129993255 tctctctccctctctccccctccatccctctctccctgtc
+s canFam2.chr1 78272921 18 - 125616256 --CCCTTTGTTTGCTCTCCT--------------------
+q canFam2.chr1 --999999999999999999--------------------
+i canFam2.chr1 C 0 I 65
+s felCat3.scaffold_217398 138632 15 - 219823 --CCATTTGTTAGCTCC-----------------------
+q felCat3.scaffold_217398 --999999999999999-----------------------
+i felCat3.scaffold_217398 C 0 I 75
+s equCab1.chr31 13065235 11 + 24938454 --CGACTTTA---------------------------GTT
+q equCab1.chr31 --99999999---------------------------999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743143 20 - 95030419 ------TGGTTAGTTCC------------CCTTCACTG--
+q bosTau3.chr9 ------99999999999------------999999999--
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e rn4.chr1 230024305 349 - 267910886 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e rheMac2.chr4 108517150 221 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e calJac1.Contig1260 86446 88 - 523245 I
+e tupBel1.scaffold_114895.1-498454 407308 0 - 498454 C
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 7797 26 - 136255 I
+e hg18.chr6 16108441 224 - 170899992 I
+e panTro2.chr6 16632551 41 - 173908612 I
+e ponAbe2.chr6 16421349 384 - 174210431 I
+e oryCun1.scaffold_214769 110082 0 - 139458 C
+
+a score=-27033.000000
+s mm9.chr10 3207869 68 + 129993255 tccctccttctctctctctctctAGacacacaaacacacagacgcacacacacatat--------aTtctttcttc
+s oryCun1.scaffold_214769 110082 13 - 139458 ------------TCAGTTTGTTTAG---------------------------------------------------
+q oryCun1.scaffold_214769 ------------9999999999999---------------------------------------------------
+i oryCun1.scaffold_214769 C 0 I 13
+s panTro2.chr6 16632592 11 - 173908612 ----------------------------------------------TTCTCGATGTT-------------------
+q panTro2.chr6 ----------------------------------------------99999999999-------------------
+i panTro2.chr6 I 41 C 0
+s hg18.chr6 16108665 76 - 170899992 TGCCTCACTCATTCACTCATCCTGTAGGTCTAAGAACACTCCCACATCCTCGGAGTTGTGGCATAATTCTGTGTGC
+i hg18.chr6 I 224 I 84
+s rheMac2.chr4 108517371 76 + 167655696 TGCCTCCCTCATTCACTCATTCTGTAGGTCTAAGAAAAAGCCCACATCCTCGGAGTTGTGGCATAATTCTGTGTGC
+q rheMac2.chr4 9999999999999999999999999959999999999999999999999999999999999899999999999999
+i rheMac2.chr4 I 221 I 84
+s tupBel1.scaffold_114895.1-498454 407308 20 - 498454 --CTTTTTTTTTTCACTAGCAC------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 --99999999999979999689------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 27
+s equCab1.chr31 13065246 44 + 24938454 TCCCTTCACCGCTCTTTGGATCTTGTTTCACAATC-----------TTTTAGGAG---------------------
+q equCab1.chr31 99999999999999999999999999999999999-----------999999999---------------------
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e rn4.chr1 230024305 349 - 267910886 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13743163 0 - 95030419 C
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e felCat3.scaffold_217398 138647 75 - 219823 I
+e canFam2.chr1 78272939 65 - 125616256 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e calJac1.Contig1260 86446 88 - 523245 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 7797 26 - 136255 I
+e ponAbe2.chr6 16421349 384 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3207937 43 + 129993255 ctctctccctctttccctctctcttctttccctctctctctct
+e tetNig1.chr10 10165084 106 - 12859810 I
+e gasAcu1.chrXV 12519845 2 - 16198764 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e rn4.chr1 230024305 349 - 267910886 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e bosTau3.chr9 13743163 0 - 95030419 C
+e monDom4.chr2 106254513 3002 - 541556283 I
+e equCab1.chr31 13065290 0 + 24938454 C
+e rheMac2.chr4 108517447 84 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e felCat3.scaffold_217398 138647 75 - 219823 I
+e canFam2.chr1 78272939 65 - 125616256 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e calJac1.Contig1260 86446 88 - 523245 I
+e tupBel1.scaffold_114895.1-498454 407328 27 - 498454 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 7797 26 - 136255 I
+e hg18.chr6 16108741 84 - 170899992 I
+e panTro2.chr6 16632603 0 - 173908612 C
+e ponAbe2.chr6 16421349 384 - 174210431 I
+e oryCun1.scaffold_214769 110095 13 - 139458 I
+
+a score=11320.000000
+s mm9.chr10 3207980 65 + 129993255 ctccctcccttcc-ctctTTGGATTGAGTTTCCTGCTGTTA------CGGAAGCCTACACAGG-----------CGCACAATG
+s gasAcu1.chrXV 12519847 59 - 16198764 cccccccccttgcTTCCTCTCAATTTTTGTCTTCTGCGTTTGTAGGCCAGGAGTGCATG------------------------
+q gasAcu1.chrXV 99999999999999999999999999999999999999999999999999999999999------------------------
+i gasAcu1.chrXV I 2 C 0
+s panTro2.chr6 16632603 37 - 173908612 ----------------------------------------T------CAGGAGGCTGAAAAATGAGTATTGTTCTGAAGGGAC
+q panTro2.chr6 ----------------------------------------9------999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 86534 1 - 523245 ----------------------------------------------------------------------------------C
+i calJac1.Contig1260 I 88 C 0
+s equCab1.chr31 13065290 20 + 24938454 -----------------------------------------------------GCTTAAAAATGAGTATTGTT----------
+q equCab1.chr31 -----------------------------------------------------99999999999999999999----------
+i equCab1.chr31 C 0 I 14
+s bosTau3.chr9 13743163 53 - 95030419 --------------CTCTTTGGATCTCGTTTTACAGTGTTT------CAGAAGGCTGAAGAATGAGGGGTGTT----------
+q bosTau3.chr9 --------------999999999999999999999999999------99999999999999999999999999----------
+i bosTau3.chr9 C 0 I 14
+s tupBel1.scaffold_114895.1-498454 407355 63 - 498454 --------------CCCTTTGAATCTTGCTTCATGATATTT------CAGGAGGTTTAAAAATGAGTACTGTTCTGAAGGAAC
+q tupBel1.scaffold_114895.1-498454 --------------969999999999999999899989999------999999639999998999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 27 C 0
+s otoGar1.scaffold_85251.1-136255 7823 62 - 136255 --------------CCCTTTGGATCTTGTTTCATGATGTTT------CAAGAGGCTT-AAAATGAGTATTGTTCTGCAAGGAC
+q otoGar1.scaffold_85251.1-136255 --------------999999968999999999999999999------9999999899-9999999997998999999999978
+i otoGar1.scaffold_85251.1-136255 I 26 C 0
+s hg18.chr6 16108825 63 - 170899992 --------------CCCTTTGGATCTTGTTTCTCGATGTTT------CAGGAGGCTGAAAAATGAGTATTGTTCTGAAGGGAC
+i hg18.chr6 I 84 C 0
+s ponAbe2.chr6 16421733 63 - 174210431 --------------CCCTTTGGATCTTGTTTCTCGATGTTT------CAGGAGGCTGAAAAATGAGTATTGTTCTGAAGGGAC
+i ponAbe2.chr6 I 384 C 0
+s rheMac2.chr4 108517531 63 + 167655696 --------------CCCTTTGGATCTTGTTTCTCGATGTTT------CGGGAGGCTGAAAAACGAGTATTGTTCTGAAGGGAC
+q rheMac2.chr4 --------------999899999999999999999999999------999999999999999999999999999999999999
+i rheMac2.chr4 I 84 C 0
+s oryCun1.scaffold_214769 110108 62 - 139458 --------------CCCTTTGGATCTTGTTTCACAGTGTCT------CAGGAGCCTCTTGGTG-AGTGTTGATTTGCAGGGAC
+q oryCun1.scaffold_214769 --------------999999999999999999999999999------9999999999999999-9999999999999999999
+i oryCun1.scaffold_214769 I 13 C 0
+s rn4.chr1 230024654 52 - 267910886 --------------CGCTTTGGATGGAGTTTCCTGGTGTTC------TGCAAGCCTACACAAG-----------TACATAGTG
+q rn4.chr1 --------------999999999999999999999999999------9999999999999999-----------999999999
+i rn4.chr1 I 349 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e felCat3.scaffold_217398 138647 75 - 219823 I
+e canFam2.chr1 78272939 65 - 125616256 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=115271.000000
+s mm9.chr10 3208045 39 + 129993255 T----TAAGTGT-TTT-A-AAGTTCATGTCTCACGG-CAGCTC---GCCG----
+s canFam2.chr1 78273004 44 - 125616256 ----TTTAATGT-TTTAT-AAGATGAAGTCTCCCCGGCGGCTGTGTTTTC----
+q canFam2.chr1 ----99999999-99999-9999999999999999999999999999999----
+i canFam2.chr1 I 65 C 0
+s felCat3.scaffold_217398 138722 42 - 219823 -----TTAATGT-TTTAT-AAGATGAAGTCTCCCTGGCGGCCATG-TTTC----
+q felCat3.scaffold_217398 -----9999999-99999-99999999999999999999999999-9999----
+i felCat3.scaffold_217398 I 75 C 0
+s equCab1.chr31 13065324 43 + 24938454 ----TTTAATGT-TTTAT-AAGTTTAAGTCTCACTTGCAGCTATA-TTTC----
+q equCab1.chr31 ----99999999-99999-99999999999999999999999999-9999----
+i equCab1.chr31 I 14 C 0
+s bosTau3.chr9 13743230 44 - 95030419 ----TTTAATGT-TTTGTCAAGTCTAAGTCTCACTTGTGGCTCTG-TTTC----
+q bosTau3.chr9 ----99999999-99999999999999999999999999999999-9999----
+i bosTau3.chr9 I 14 C 0
+s tupBel1.scaffold_114895.1-498454 407418 47 - 498454 TGTCTTTAATGT-TTTAT-AAGCTTAAGTCTCACTTGCGGCTATG-CTTC----
+q tupBel1.scaffold_114895.1-498454 996798999953-89799-99989999999966799999979765-5999----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7885 45 - 136255 TCCTGTTAATGT-TTTAT-AAGTTT--GTCTCACTTGCGGCCACA-CTGG----
+q otoGar1.scaffold_85251.1-136255 999998999979-99799-999999--999998999999999999-9999----
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 86535 47 - 523245 TGTTGTTAATGT-TTTAT-AAGTTTTAGTCTCACTTGGGGCTATA-TCTC----
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108517594 47 + 167655696 TGTTGTTAATGT-TTTAT-AAGTTTAAGTCTTGCTTGGGGTGATG-TCTG----
+q rheMac2.chr4 999999999999-99999-99999999999999999999999999-6666----
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16421796 47 - 174210431 TGTTGTTAATGT-TTTAT-AAGTTTAAGTCTCACTTGGGGCTATG-TCTC----
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16632640 47 - 173908612 TGTTGTTAATGT-TTTAT-AAGTTTAAGTCTCACTCGGGGCTATG-TCTC----
+q panTro2.chr6 999999999999-99999-99999999999999999999999999-9999----
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16108888 47 - 170899992 TGTTGTTAATGT-TTTAT-AAGTTTAAGTCTCACTCGGGGCTATG-TCTC----
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_214769 110170 42 - 139458 T----GTAATGT-TTT-A-CAGTTCAAGTCCCAGTGACAGTTCCC-CCTC----
+q oryCun1.scaffold_214769 9----9999999-999-9-99999999999999999999999999-9999----
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230024706 39 - 267910886 C----TCAGTGC-TTTGA-AAGTTCACGTCTCAGTG-CAGCTC----CCG----
+q rn4.chr1 9----9999999-99999-99999999999999999-999999----999----
+i rn4.chr1 C 0 C 0
+s gasAcu1.chrXV 12519906 46 - 16198764 ------CGATGTGTGTCT-AATTGTCATTCTCGCCGTCATGCATG-TCTCACCC
+q gasAcu1.chrXV ------999999999999-99999999999999999999999999-99999999
+i gasAcu1.chrXV C 0 C 0
+e tetNig1.chr10 10165084 106 - 12859810 I
+e fr2.chrUn 66178650 112 + 400509343 I
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 40428 2132 - 51472 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 1472 835 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=47120.000000
+s mm9.chr10 3208084 32 + 129993255 -------------TGAAAGCTGGAGTA--GAGT---TCCCA-TGTCGGTGC
+s rn4.chr1 230024745 33 - 267910886 -------------TGAACGTTGGAGTAAAGAGT---TCCTA-TGTTC-TGC
+q rn4.chr1 -------------99999999999999999999---99999-99999-999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 110212 31 - 139458 -------------TCAAAGTTGAAAT---GACT---TAATA-TATTTGTGT
+q oryCun1.scaffold_214769 -------------9999999999999---9999---99999-999999999
+i oryCun1.scaffold_214769 C 0 I 4
+s hg18.chr6 16108935 34 - 170899992 -------------TAAACGTTGGAGTAATGAGT---TAATC-TATTTGTGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16632687 34 - 173908612 -------------TAAACGTTGGAGTAATGAGT---TAATC-TATTTGTGA
+q panTro2.chr6 -------------99999999999999999999---99999-999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16421843 34 - 174210431 -------------TAAACGTTGGAGTAATGAGT---TAATC-TATTTGTGA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108517641 34 + 167655696 -------------TAAATGTTGGAGTAATGAGT---TAATC-TGTTTGTGA
+q rheMac2.chr4 -------------66766699999999999999---99999-999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 86582 34 - 523245 -------------TAAACGTTGGAGTAATGAGT---TCATA-TATTTGTGG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7930 33 - 136255 -------------TAAGTGTTAGAGTAAC-AGT---CAGTG-TGTTTGTGG
+q otoGar1.scaffold_85251.1-136255 -------------9999999999999999-999---99999-998999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407465 34 - 498454 -------------TAAATGTTGGATTAATGAGT---TAATA-TCTTTGTGA
+q tupBel1.scaffold_114895.1-498454 -------------79999999949479537775---87979-896997879
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13743274 34 - 95030419 -------------TAAACGTTGGAGTAATGAGT---TAATA-TGTTTGTGA
+q bosTau3.chr9 -------------99999999999999999999---99999-999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13065367 37 + 24938454 -------------TAAATGTTGGAGTAATGAGTTAATAATA-GGTTTGTGA
+q equCab1.chr31 -------------9999999999999999999999999999-999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 138764 34 - 219823 -------------TAAATGTTGGAGTAATGAGT---GAATA-TATTTGCGA
+q felCat3.scaffold_217398 -------------99999999999999999999---99999-999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78273048 34 - 125616256 -------------TAAACTTTGGAGTAATGAGT---TAATG-TATTTGTGA
+q canFam2.chr1 -------------99999999999999999999---99999-999999999
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_16647 42560 35 - 51472 -------------TAAAGGTTGGAGCACTGAGT---TAATATTTTTTGTGA
+q dasNov1.scaffold_16647 -------------99999999999999999999---999999999999999
+i dasNov1.scaffold_16647 I 2132 C 0
+s echTel1.scaffold_276671 2307 34 - 58026 -------------TGAAGGTCGGAGCGATGAGT---TAATG-CGTGTGTCC
+q echTel1.scaffold_276671 -------------99999969999799999989---99999-999999999
+i echTel1.scaffold_276671 I 835 C 0
+s eriEur1.scaffold_149276 1360 9 + 1750 ------------------------------------------TATTTGTGC
+q eriEur1.scaffold_149276 ------------------------------------------999999999
+i eriEur1.scaffold_149276 N 0 C 0
+s gasAcu1.chrXV 12519952 22 - 16198764 ---TACGGGAATAtaatatttg--------------------------tac
+q gasAcu1.chrXV ---9999999999999999999--------------------------999
+i gasAcu1.chrXV C 0 I 3
+s tetNig1.chr10 10165190 5 - 12859810 --------------------TG--------------------------TCA
+i tetNig1.chr10 I 106 I 4
+s fr2.chrUn 66178762 23 + 400509343 TGAGACTAGAA-GTAGC-TTTG--------------------------TCC
+i fr2.chrUn I 112 I 4
+e oryLat1.chr22 12883060 1 - 28810691 I
+e xenTro2.scaffold_2 3908033 936 + 7803671 I
+e anoCar1.scaffold_0 8812377 1197 + 16654889 I
+e danRer5.chr20 55969899 3504 + 56528676 I
+e galGal3.chr3 61582241 1748 - 113657789 I
+e monDom4.chr2 106254513 3002 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14901214 2405 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=1696888.000000
+s mm9.chr10 3208116 91 + 129993255 TTCTCCCTAGGGCATGTACATCAAGTCAACCTACGACGGACTGCATGTGATTACTGGAACCACAGAAAATGTAAGTG--TGCATCCGTGAAGC----
+s galGal3.chr3 61583989 77 - 113657789 TTTCATTTAGGGTATGTACATCAAATCAACTTATGATGGATTACATGTAATTACAGGCACCACAGAAAATGTAAGTG--------------------
+i galGal3.chr3 I 1748 I 4685
+s rn4.chr1 230024778 90 - 267910886 TTCTCCCTAGGGCATGTACATCAAGTCAACCTATGATGGACTGCATGTGATTACTGGAACCACAGAAAATGTAAGTG--TGCGTCCGTG-AGT----
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999-999----
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 110247 91 - 139458 CTCACTCTAGGGCATGTACATAAAGTCGACCTATGATGGGCTGCATGTGATTACTGGAACCACAGAAAATGTAAGTG--TATGTCCGTTAAAT----
+q oryCun1.scaffold_214769 99999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999----
+i oryCun1.scaffold_214769 I 4 C 0
+s hg18.chr6 16108969 91 - 170899992 TTCACTCCAGGGCATGTACATCAAATCAACCTATGATGGGTTACACGTGATTACTGGAACCACAGAAAATGTAAGTG--TATATTCATTAAGT----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16632721 91 - 173908612 TTCACTCCAGGGCATGTACATCAAATCAACCTATGATGGGTTACACGTGATTACTGGAACCACAGAAAATGTAAGTG--TATATTCATTAAGT----
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999896993999999999999--99999999999999----
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16421877 91 - 174210431 TTCACTCCAGGGCATGTACATCAAATCAACCTATGATGGGTTACACGTGATTACTGGAACCACAGAAAATGTAAGTG--TATATTCATTAAGT----
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108517675 91 + 167655696 CTCACTCCAGGGCATGTACATCAAATCAACCTATGATGGGTTACATGTGATTACTGGAACCACAGAAAATGTAAGTG--TATATTCATTAAGT----
+q rheMac2.chr4 99999999999999999999999999999777667666699667776676699999999999999999999999999--99999999999999----
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 86616 91 - 523245 CTCCCTCCAGGGCATGTACATCAAATCAACCTATGATGGGTTGCACGTGATTACTGGAACCACAGAAAATGTAAGTG--TATATTCGTTAAGT----
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 7963 91 - 136255 CTCACTCTAGGGCATGTACATCAAATCAACCTACGATGGACTGCACGTGATTACCGGAACCACAGAAAATGTAAGTG--TACAGCCGTTAGAG----
+q otoGar1.scaffold_85251.1-136255 99999999999999999998999999989999999989999999999998998999999998999999979999979--88999999999999----
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407499 91 - 498454 CTCACTCTAGGGCATGTACATCAAATCAACCTATGATGGATTGCACGTGATTACTGGAACCACAGAAAATGTAAGTG--TGTGTCCGTTAAAT----
+q tupBel1.scaffold_114895.1-498454 59976999989466894794999999629999999879975985999998799978796655796999999999999--99999999999999----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13743308 91 - 95030419 CTCACTCTAGGGTATGTACATCAAATCGACCTATGATGGATTGCACGTGATTACTGGAACCACAGAAAATGTAAGTG--CATATCCATTTAAT----
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999----
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13065404 86 + 24938454 CTCCCTCTAGGGCATGTACATCAAATCGACCTACGATGGATTGCACGTGATTACGGGAACCACAGAAAACGTAAGTG--CATGTCTGT---------
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999999999--999999999---------
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 138798 91 - 219823 CTCCCTCTAGGGCATGTACATCAAATCAACCTATGATGGATTGCACGTGATTACTGGAACCACCGAGAATGTAAGTG--CATATCTGTTAAAT----
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999----
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78273082 93 - 125616256 CTCCCTCTAGGGCATGTACATCAAATCAACCTATGATGGATTGCACGTGATTACTGGAACCACGGAAAACGTAAGTGGACGTATCCGTTGAAT----
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_16647 42595 91 - 51472 CTCCCTCCAGGGCATGTACATCAAATCAACCTACGATGGATTGCACGTGATTACCGGAACCACAGAAAACGTAAGTG--TGTATCCATTAAAG----
+q dasNov1.scaffold_16647 99999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999----
+i dasNov1.scaffold_16647 C 0 C 0
+s echTel1.scaffold_276671 2341 77 - 58026 CTCCCTCCAGGGCATGTACATCAAGTCGACCTACGACGGATTGCATGTGATCACGGGAACCACGGAGAATGTAAGTG--------------------
+q echTel1.scaffold_276671 99999999579989999997999999999899999999997999899999886999999986999979999669999--------------------
+i echTel1.scaffold_276671 C 0 I 143
+s eriEur1.scaffold_149276 1369 85 + 1750 CTCACTCCAGGGCATGTACATCAAATCCACCTACGACGGGCTCCATGTGATCACCGGGACCACAGAAAATGTAAGTG--TATGTCTG----------
+q eriEur1.scaffold_149276 99999999999999999999999999999999999999999999999999999999999999999999999999999--99999999----------
+i eriEur1.scaffold_149276 C 0 N 0
+s xenTro2.scaffold_2 3908969 76 + 7803671 CTCACCTTAGGGAATGTATATCAAATCCACATACAATGGGTTACATGTCATTACAGGAACTACTGAGAATGTAAGT---------------------
+i xenTro2.scaffold_2 I 936 I 3160
+s anoCar1.scaffold_0 8813574 69 + 16654889 -------TAGGGAATGTATATAAAATCTACTTATGATGGATTGCATGTTGTTACTGGAACAACAGAAAACGTGAGT---------------------
+q anoCar1.scaffold_0 -------999999999999999999999999999999999999999999999999999999999999999999999---------------------
+i anoCar1.scaffold_0 I 1197 I 3623
+s ornAna1.chr2 14903619 71 - 54797317 -----CCTAGGGCATGTACATCAAATCAACATATGATGGACTGCACGTTATTACAGGAACAACAGAAAATGTAAGT---------------------
+i ornAna1.chr2 I 2405 I 3307
+s monDom4.chr2 106257515 88 - 541556283 TTCACTCTAGGGCATGTACATCAAATCTACCTATGATGGACTGCATGTGATTACTGGAACAACAGAAAATGTAAGTG--CATCTTCATTA-------
+q monDom4.chr2 99999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999-------
+i monDom4.chr2 I 3002 I 3531
+s fr2.chrUn 66178789 90 + 400509343 TCCCTCATAGGGAATGTATATTAAGTCCACCTATGACGGGCTACATGTCATCACCGGAACCACAGAGCACGTAAGTA--CA-----ATCAAAGAAGC
+i fr2.chrUn I 4 I 458
+s tetNig1.chr10 10165199 80 - 12859810 TCTCCCGTAGGGGATGTACATTAAGTCTACCTATGATGGACTACATGTCATCACCGGAACCACAGAGCACGTAAGTA--CAC---------------
+i tetNig1.chr10 I 4 I 470
+s gasAcu1.chrXV 12519977 79 - 16198764 tttgcCACAGGGGATGTACATCAAGTCTACCTACGATGGGTTACATGTCATCACAGGAACGACAGAACATGTGAGTA--TG----------------
+q gasAcu1.chrXV 99999999999999999999999999999999999999999999999999999999999999999999999999999--99----------------
+i gasAcu1.chrXV I 3 I 621
+s oryLat1.chr22 12883061 92 - 28810691 tttatc-cagggCATGTACATAAAGTCCACCTATGATGGATTACACGTCATCACTGGGACCACTGAACACGTAAGTG--CAACAATATCCATGAA--
+q oryLat1.chr22 999999-9999999999999999997767576779868888886655678887777878878889888999999988--8888778888889999--
+i oryLat1.chr22 I 1 I 370
+s danRer5.chr21 16485777 89 + 46057314 CTTGCTTTAGGGCATGTACATCAAATCAACCTACGATGGCCTACATGTCATCACAGGCACTACGGAGGGTGTAAGTG--GTCATTTTTTAA------
+i danRer5.chr21 I 6490 I 145
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=201824.000000
+s mm9.chr10 3208207 71 + 129993255 GTACAAGC-----CCTGTGTGCTTAGACACCTTTGA--CAGAG-CTCTGAGCTTTGGGGTTAAGTGT-GTGCACGATGTT
+s rn4.chr1 230024868 64 - 267910886 GTAAAAGC-----CCTGTGTGCTGAGACACACTTGA--CACAG-CTCTGAACTCTGAGGTTAAACCT-GTGTA-------
+q rn4.chr1 99999999-----99999999999999999999999--99999-99999999999999999999999-99999-------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 110338 59 - 139458 GTAAAAGCTGTTACATGTGTGAACAGA------------ATTG-CTGTGTGTTTTCA-TTTCAGTGT-GTGCA------T
+q oryCun1.scaffold_214769 999999999999999999999999999------------9999-9999999999999-999999999-99999------9
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16109060 75 - 170899992 GTAAAATCT----GTTGTGTGTTTAAACAGATTTGATCCACAGTCTCTATACTTTGAATTTAAACGT-GTGCATGCTGTT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16632812 75 - 173908612 GTAAAATCT----GTTGTGTGTTTAAACAGATTTGATCCACAGTCTCTATACTTTGAATTTAAACGT-GTGCATGCTGTT
+q panTro2.chr6 999999999----999999999999976336398776686760796867278797677494596668-856657686769
+i panTro2.chr6 C 0 I 299
+s ponAbe2.chr6 16421968 74 - 174210431 GTAAAG-CT----GTTGTGTGTTTAAACAAATTTGAGCCACAGTCTCTATACTTTGAATTTAAACGT-GTGCATGCTGTT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108517766 75 + 167655696 GTAAAAGCT----GTTGTGTGTTTAAACAAATTTGATCCACAGTCTCTATACTTTGAATTTAAATGT-GTGCATGCTATT
+q rheMac2.chr4 999999999----999999999999999999999999999999999999999999999999999999-999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 86707 58 - 523245 GCAAAAGCT----GTTGTGTGTTTAAACAAAT-----------------TACTTTGAATTTAAATGT-GTGCATGCTGTT
+i calJac1.Contig1260 C 0 I 2
+s otoGar1.scaffold_85251.1-136255 8054 75 - 136255 GTCACGTCT----GCTGTGTGTTTAAACAAATTCGACACATGCTCTCC-TGCTTTTCACGTAAATGTCATGCATGTTGTT
+q otoGar1.scaffold_85251.1-136255 989999999----99999999899999999999999999999999999-9999999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407590 65 - 498454 GCAAGAGCT----GCTGTGTGTTTAAACCAATTTGACGCAGGGTTTC----------ATTTCAGTGT-GCGGGAGCTGCT
+q tupBel1.scaffold_114895.1-498454 999999579----8499999999999999999999999999999999----------9999999999-999959455699
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78273175 75 - 125616256 GTAAAAGCC----ATTATGTGTTTAAGCACACGTGACACAGAATCCCTCTACTTGGGGCTGCAGCGT-GTGCATCCTATT
+q canFam2.chr1 999999999----999999999999999999999999999999999999999999999999999999-999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138889 75 - 219823 GTAAAAGCC----ATTGTGTGTTTAAACAAATTTGACACATAGTCCCTATACTTTTCATTTCAACGT-GTGCCTCCTGTT
+q felCat3.scaffold_217398 999999999----999999999999999999999999999999999999999999999999999999-999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065490 74 + 24938454 -TAAAAGCT----GTTGTATGTTTCAACCAGTTCCACACAGAATCTCTCTAGTTTTCATTTAAATAT-GTGCGTGCTGTT
+q equCab1.chr31 -99999999----999999999999999999999999999999999999999999999999999999-999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743399 73 - 95030419 GCAAAAGCT----ATTGTACCTTCAAGCAGATTTG--ACAGCGTCCCTATTCCTTTCATTTAACTAT-GTGTATGTTGTT
+q bosTau3.chr9 999999999----9999999999999999999999--999999999999999999999999999999-999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 42686 66 - 51472 TGAAAAGCT----GTTCTGCATTTAAACA---------TGCGTTCTCTGCCCTTTTCATTTAAGGGT-GTGCCTGCTGTT
+q dasNov1.scaffold_16647 999999999----9999999999999999---------99999999999999999999999999999-999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 2418 143 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=137048.000000
+s mm9.chr10 3208278 94 + 129993255 AGCGTGATGCTAT-C---TGGTGTGAGAGCTGA-CAATGGCCGGTTGTATTTATCCCGTCAGCCGATTGG-CTCTGAGCCTAGCCTTTAACGGCCCGGCT
+s rn4.chr1 230024932 84 - 267910886 ----TGATGTTAT-C---TGGTGCGAGAGCTGA-TGGTGGCCGGTTGTGTTTATCCCATCAGCCGATTGG-CTGCT------GCTTCAAACCAGCTGATG
+q rn4.chr1 ----999999999-9---999999999999999-999999999999999999999999999999999999-99999------999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 110397 83 - 139458 ACTGTTTTGTTAT-C---TGCAGTCAGAGC--A-CCGGGGCCTGTTTTGTTTA---CTTCTGTGGATAAA-GTACT------GCTTGTTACCAGCTATTG
+q oryCun1.scaffold_214769 9999999999999-9---999999989999--8-9979999989999997999---99999999879999-99999------989899989999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16109135 66 - 170899992 ----------TGA-T---TATTGTGAGAGC--G-TGGGTACCTGCTTTGTTTA---TTTCTGTTGATAGA-GTACT------GCTTGTCACCA-------
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16422042 66 - 174210431 ----------TGA-T---TATTGTGAGAGC--A-TGGGTACCTGCTTTGTTTA---TTTCTGTTGATAGA-GTACT------GTTTGTCACCA-------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108517841 66 + 167655696 ----------TGA-T---TATTATGAGAGC--A-TGGGTGCCTGCTTTGTTTA---TTTCTGTTGACAGA-GTACT------GCTTGTCACCA-------
+q rheMac2.chr4 ----------999-9---999999999999--9-9999999999999999999---99999999999999-99999------99999999999-------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 86767 63 - 523245 ------------A-T---TATGATGACAGC--A-TGGGTGCCTGCTTTGTTTA---TTT-TGTTGATAGA-ATATG------GCCTGTCACCA-------
+i calJac1.Contig1260 I 2 C 0
+s otoGar1.scaffold_85251.1-136255 8129 70 - 136255 -------TTGTGACC---TGGAGTGAGAGC--C-TGGCTGCCTGCTTTGTTTA---GTTCAGTTGATAGG-ACGCT------GTTCATCACAA-------
+q otoGar1.scaffold_85251.1-136255 -------99989789---999999999989--9-9989999999999999999---99999999999999-99999------99999999999-------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 407655 72 - 498454 -------TTATCA-TCTGTAGTGCGTGTGG--G-TGGGTACCTGTCTTGTTTA---TTTCTGTTGACAGA-GTACT------GCTTATCACCA-------
+q tupBel1.scaffold_114895.1-498454 -------999999-9999999999999999--9-9999989999999999999---99999999999999-99999------99999999999-------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78273250 67 - 125616256 ------TTATTAT-C---TGTAGT--CACT--G-TGGGGGCC-GTTGTGTTCA---TTTCTGTTGCTAGG-ACGCT------GCTTATCACCA-------
+q canFam2.chr1 ------9999999-9---999999--9999--9-99999999-9999999999---99999999999999-99999------99999999999-------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 138964 70 - 219823 ------TTATTAT-C---TATAGTGAGAGT--A-TGGGTGCT-GTTTTGTTTA---TTCCTGTTGCTAGGCACACT------GCTTATCACCA-------
+q felCat3.scaffold_217398 ------9999999-9---999999999999--9-99999999-9999999999---99999999999999999999------99999999999-------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065564 70 + 24938454 ------TTATTAT-C---TGTAATGAGAGC--A-TGGGTGCCTGTTTTGTTTA---TTTCTTTTGCTAGC-ACACA------GCTTATCACCA-------
+q equCab1.chr31 ------9999999-9---999999999999--9-9999999999999999999---99999999999999-99999------99999999999-------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743472 69 - 95030419 ------CTATTAT-C---TGTAAGG-GAGT--G-TGGGCGCCGGTTTTGTTTA---TTTCTGTTGCTAGT-GTGCT------GCTCATCACCA-------
+q bosTau3.chr9 ------9999999-9---9999999-9999--9-9999999999999999999---99999999999999-99999------99999999999-------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 42752 72 - 51472 ------TTATTAT-C---TGTAGTGAAAGC--ATTGGGTGCCTGCTCTGTTTA---TTTCTGTTGATCGA-GTGCT-TACTGGCTTGTC-----------
+q dasNov1.scaffold_16647 ------9999999-9---999999999999--999999999999999999999---99999999999999-99999-999999999999-----------
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 381 3074 + 41726 I
+e echTel1.scaffold_276671 2418 143 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e panTro2.chr6 16632887 299 - 173908612 I
+
+a score=426058.000000
+s mm9.chr10 3208372 82 + 129993255 ------------CCTGCTTCTTAACAGGCTGTTGTCAATTTATTATTTAAATTGCCCTTTATTGCTC----TGGT----TCTAGTGCCATGTCAAGTTTTTG
+s rn4.chr1 230025016 66 - 267910886 ------------TCAGtttatta----------------ttattatttaaattGCCCTTTATTGTTC----TGGT----TCACTTGCCAGGTCAAGTTTCTT
+q rn4.chr1 ------------99999999999----------------9999999999999999999999999999----9999----99999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 110480 64 - 139458 ------------TCAGT----------------------TTACTATTTAAATTGTTCTTTCTTACTCTTTATTGT----TCACACATCTTGCCCACTTTTAC
+q oryCun1.scaffold_214769 ------------99998----------------------999999899899799799999999989979799684----77698989899999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s dasNov1.scaffold_16647 42824 66 - 51472 -----------ACCA------------GCTGTTGTCAATTTATTATTTATATTGTACCCTGTTGCTC----TTGT----TCACAGACGCTGCCCAGT-----
+q dasNov1.scaffold_16647 -----------9999------------9999999999999999999999999999999999999999----9999----999999999999999999-----
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 3455 81 + 41726 C-CGGCTTATCACCA------------GCTGTTGTCAATTTAGTATTTAAATTGTGCTCTATTGCTC----TTGT----TCACAGACCCTGCCTGGTTTTTA
+q loxAfr1.scaffold_33178 9-9999999998995------------1234489999999999999999999999999999999999----9999----99999999999999999999999
+i loxAfr1.scaffold_33178 I 3074 C 0
+s echTel1.scaffold_276671 2561 81 - 58026 -CTGGCTTGTCACCT------------GCGGTTGGCAATTCAGGATGTAAATTGCCCTGCTCCGTGC----CTGT----TCACAGACCCCGCCCAGCTTTTG
+q echTel1.scaffold_276671 -99999999999999------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i echTel1.scaffold_276671 I 143 I 3268
+s bosTau3.chr9 13743541 67 - 95030419 ---------------------------GCTGTCATCAATGTATTATTTAAATTGTCCTTTATTGCTC----TCAT----TCACACACTTTGCCCAGCTTTTG
+q bosTau3.chr9 ---------------------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13065634 67 + 24938454 ---------------------------GCTGTTGTCAATTTCTTATTTAAATTGTCCTTTATTGCTC----TCGT----TCACACACCTTGACCAGTTTTAA
+q equCab1.chr31 ---------------------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 139034 67 - 219823 ---------------------------GCTGTTGTAAATTTATTATTTAAATTGTCTTTTATTGCTG----TTGT----TCACATACCTTGCCCGGTTTTTG
+q felCat3.scaffold_217398 ---------------------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78273317 67 - 125616256 ---------------------------GCTGTCATGAATTTATTATTTAAGTTGCCTTTTATTGCTG----TCAT----TCACATACCTTGCCCAGTTATTA
+q canFam2.chr1 ---------------------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i canFam2.chr1 C 0 I 5
+s tupBel1.scaffold_114895.1-498454 407727 71 - 498454 ---------------------------ACTGTTGTCAATTCATTATTTAAATCGTCCTTTATTCCTC----TTGTTCACTCACACACCTTGCCCGGTTTTTG
+q tupBel1.scaffold_114895.1-498454 ---------------------------9999999899999999999999999999999999999999----9999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 8199 67 - 136255 ---------------------------GCTGGTGTCCATTTATTATTTAAATCATTCTTTATTGCCC----TTGT----TCATACACCTTGCCTACCTCTCC
+q otoGar1.scaffold_85251.1-136255 ---------------------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 86830 67 - 523245 ---------------------------GCTGTTGTTAATTTATTATTTAAATTGCCCTTTATTGCGC----TTGT----TCATATACCTTGCCTGGTTTTTA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108517907 67 + 167655696 ---------------------------ACTGTTGTCAATTTATTATTTAAATCGTCCTTTATTGCTC----TTGT----TCATACACCTTGCCCAGTTTTTA
+q rheMac2.chr4 ---------------------------9999999999999999999999999999999999999999----9999----99999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16422108 67 - 174210431 ---------------------------GCTGTTGTCAATTTATTATTTAAATTGTCCTTTATTGCTC----TTGT----TCATATACTTTGCCCAGTTTTTA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16633186 67 - 173908612 ---------------------------GCTGTTGTCAATTTATTATTTAAATTGTCCTTTATTGCTC----TTGT----TCATATACCTTGCCCAGTTTTTA
+q panTro2.chr6 ---------------------------7798999999999999999999999999999999999999----9999----99999999999999999999999
+i panTro2.chr6 I 299 C 0
+s hg18.chr6 16109201 67 - 170899992 ---------------------------GCTGTTGTCAATCTATTATTTAAATTGTCCTTTATTGCTC----TTGT----TCATATACCTTGCCCAGTTTTTA
+i hg18.chr6 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=664199.000000
+s mm9.chr10 3208454 160 + 129993255 -----TGTCTTTGTTTTCTTTCCTTATTATTTATTTATTTTGCCTTCACTCTTGTGCTAATTATTCCTCTTGCAC-CATAGAGGTGCGAATCCAAAAGTATAAAAATAATGTTCTCTCTGTTGTTGTGAGTCACTCACA-GAAG----AACTGGGGTTAGTGGGAATATGT
+s rn4.chr1 230025082 139 - 267910886 -----T-----------------------TCTGTTTTTTTTCCCTCCATTCTTGTGCTAATTATTCCTTTGGCAC-CATAGAGGTGGGAACCTGAAAGTATAAAAATAATG--ATCTTTGTTTTCATGAGTCACTCACA-GAAGAACTAACTGGGTTTGGTGGCCGCATGT
+q rn4.chr1 -----9-----------------------9999999999999999999999999999999999999999999999-99999999999999999999999999999999999--99999999999999999999999999-9999999999999999999999999999999
+i rn4.chr1 C 0 I 2
+s oryCun1.scaffold_214769 110544 122 - 139458 -----C----------------------------------TCCCACCATAC---AGTTAACTATTCCTTTT-TAC-CCTAGAAGGGTTAAGACATAAATAGAAAAACCAAGATCTCTTTGCTGTTA-GACTCACTCTTACAAAG----AACTGGGGTTGGTGTCCATATGT
+q oryCun1.scaffold_214769 -----9----------------------------------99997999999---99999988999999999-989-99979999999979999999989999999999999999999989899978-99999999999999999----98999999979979999999999
+i oryCun1.scaffold_214769 C 0 I 297
+s hg18.chr6 16109268 123 - 170899992 -----C-------------------------------------CCCTACCCTTGTGTTAATTATTCCTTTTGCAC-ACTGGAAGTGTTAAGCCATAAATACAAAAGCAATGATCTTTTTGTTTTTGAGAGTCACTCTTA-TAAG----AACTGGGATTGGTGGCCATGTGt
+i hg18.chr6 C 0 I 228
+s panTro2.chr6 16633253 123 - 173908612 -----C-------------------------------------CCCTACCCTTGTGTTAATTATTCCTTTTGCAC-ACTGAAAGTGTTAAGCCATAAATACAAAAGCAATGATCTTTTTGTTTTTGAGAGTCACTCTTA-CAAG----AACTGGGATTGGTGGCCATGTGt
+q panTro2.chr6 -----9-------------------------------------99999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999-9999----99999999999999999999999
+i panTro2.chr6 C 0 I 228
+s ponAbe2.chr6 16422175 123 - 174210431 -----C-------------------------------------CCCTACTTTTGTGTTAATTATTCCTTTTGCAC-CCTGGAAGTGTAAAGCCATAAATACAAAAGCAATGATCTTTTTGTTTTTGAGAGTCACTCTTA-TAAG----AACTGGGATTGGTGGCCATGTGT
+i ponAbe2.chr6 C 0 I 231
+s rheMac2.chr4 108517974 122 + 167655696 -------------------------------------------TGCTACCCTTGTGTTAATTACTGCTTTTGCAC-CCTGGAAGTGTGAAGCCATAAATAGAAAAGCAATGATCTTTTTGTTTTTGAGAATCACTCTTA-TAAG----AACTGGGATTGGTAGCCATGTGT
+q rheMac2.chr4 -------------------------------------------99999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999-9999----99999999999999999999999
+i rheMac2.chr4 C 0 I 231
+s calJac1.Contig1260 86897 123 - 523245 -----C-------------------------------------CCCTACCCTTGTCTTAATCATTCATTTTGCAC-CCTGAAAATGTTAAGCCATAAATACAAAAGCAATGATCTTTTTGTTTTTGAGAATCTCTCTTA-TAAG----AATTGGGATTGGTGGCCATATGT
+i calJac1.Contig1260 C 0 I 232
+s otoGar1.scaffold_85251.1-136255 8266 120 - 136255 -----C-------------------------------------CCCGACCCTTGTATTCATTACTCCTTCCACAC-CCTGGAAGTGTTTAGCCATAGTTACAAAAACAATGATC---TCGTTATTGAGAATTGCTCTTA-CAGG----AACTGGAATTGGTGGCCCTGTGT
+q otoGar1.scaffold_85251.1-136255 -----9-------------------------------------99999999999999999999999999999999-99999999999999999999999999999999999999---9999999999999999999999-9999----99999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 I 198
+s tupBel1.scaffold_114895.1-498454 407798 116 - 498454 -----C-------------------------------------TCC-ACCCTTGTGTTAATTATCCCTTTTGCAC-CCTGGAAGTGTTAAGCTATAAATACAAAAACAATGAGCTCTTTGTTGTGGAGACTCACTCT-----------AACAGGGATTGGTGGCCATAAGT
+q tupBel1.scaffold_114895.1-498454 -----9-------------------------------------899-9999999999997999999999999989-9999999999999999999999999999999999999999999999969999769999999-----------99899998599979699689997
+i tupBel1.scaffold_114895.1-498454 C 0 I 229
+s canFam2.chr1 78273389 121 - 125616256 -----C-------------------------------------CCCCCACCCC-TGTTAATTATTCCCTTTGCTC-CTTGGAAGTGTTAACCCGTAAGTATAAAAACAGTGATCTC-TTGTTGTTGAAAACCATTCTGA-CAAG----AACTGGGATTGGTAGCCATATGT
+q canFam2.chr1 -----9-------------------------------------9999999999-999999999999999999999-9999999999999999999999999999999999999999-9999999999999999999999-9999----99999999999999999999999
+i canFam2.chr1 I 5 I 1015
+s felCat3.scaffold_217398 139101 122 - 219823 -----C-------------------------------------CCCCCACCCT-TGTTAATTATTCCTGTTGCAC-CCTGGAAATGTTAACCCATAAATATAAAAACAGTGATATCTTTGTTGTTGAAAATCACTCTTA-CAGG----AACTGGAATTGGTAGCTATATGT
+q felCat3.scaffold_217398 -----9-------------------------------------9999999999-999999999999999999999-999999999999999999999999999999999999999999999999999999999999999-9899----99989999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13065701 123 + 24938454 -----C-------------------------------------CCCCGCCCCTGTGTTAATTATTCCTTTCACAT-CCTGGGAGTGTTAACCCATAAATACAAAAATAGCGATCTCTTTGTAGTTGAGAATCATTCTTA-GAAG----AACTGGAATTGGTAGCCATATGT
+q equCab1.chr31 -----9-------------------------------------99999999999999999999999999999999-999999999999999999999999999999990999999999999099999999999999999-9999----99999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743608 116 - 95030419 -----C-------------------------------------CATCC------TGT--GTTATTTTTTTTGCGCTCTTGGAAGTGTTAACCCATAAATACAAAAGCAGTGATCTCTTTGTTGTTGAGAATCACTCTTA-TAAG----AGCTGGAATTGGTGACCATATGT
+q bosTau3.chr9 -----9-------------------------------------99999------999--99999999999999999999999999999999999999999999999999999999999999999999999999999999-9999----99999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 42890 125 - 51472 TCTTAC-------------------------------------CTCCACCCTTGTGTTAATTATTCCTTTTGAAC-CCTGGAAGTACTAAACCATAAGTACAACAG---TGGTTGCTTTGTTGTTGGGAATCACTCTTG-TAAA----AATTGGGACTGGTGACCATATGT
+q dasNov1.scaffold_16647 999999-------------------------------------99999999999999999999999999999999-999999999999999999999999999999---999999999999999999999999999999-9999----99999999999999999999999
+i dasNov1.scaffold_16647 C 0 I 243
+s loxAfr1.scaffold_33178 3536 108 + 41726 -----C-------------------------------------CTCCACCCCTGTGTTAGTTGTTCCCTTTGCAC-CCTGAAAGTGTGAAATCATCAGTACAAAA------AACGGTTTGTTGTTGAGAATCGCTCTTC-GAAG----AGCTGGGATGGATG---------
+q loxAfr1.scaffold_33178 -----9-------------------------------------99999999999999999999999999999999-99999999999999999999999999999------9999999999999999999999999999-9999----99999999999999---------
+i loxAfr1.scaffold_33178 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=0.000000
+s mm9.chr10 3208614 2 + 129993255 AG
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e rn4.chr1 230025221 2 - 267910886 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13743724 0 - 95030419 C
+e monDom4.chr2 106257603 3531 - 541556283 I
+e equCab1.chr31 13065824 0 + 24938454 C
+e rheMac2.chr4 108518096 231 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 43015 243 - 51472 I
+e felCat3.scaffold_217398 139223 0 - 219823 C
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 3644 0 + 41726 C
+e calJac1.Contig1260 87020 232 - 523245 I
+e tupBel1.scaffold_114895.1-498454 407914 229 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 8386 198 - 136255 I
+e hg18.chr6 16109391 228 - 170899992 I
+e panTro2.chr6 16633376 228 - 173908612 I
+e ponAbe2.chr6 16422298 231 - 174210431 I
+e oryCun1.scaffold_214769 110666 297 - 139458 I
+
+a score=-14981.000000
+s mm9.chr10 3208616 46 + 129993255 ------TGCGTGCAGTGCG-TGTCAGGTATGTTTCTGTACATGCTTGTGTGTG
+s rn4.chr1 230025223 46 - 267910886 ------AGTGTGCAGTGTG-TGTAGTGCATGTTTCTGTATGTGTTTGCATGTG
+q rn4.chr1 ------9999999999999-999999999999999999999999999999999
+i rn4.chr1 I 2 C 0
+s felCat3.scaffold_217398 139223 28 - 219823 ---------GTAAAATACA-GT---------TTTTTGTTGTTGCTTA------
+q felCat3.scaffold_217398 ---------9999999999-99---------9999999999999999------
+i felCat3.scaffold_217398 C 0 I 201
+s equCab1.chr31 13065824 18 + 24938454 ---------GTAAAACACA-GTTTTTTT-------------------------
+q equCab1.chr31 ---------9999999999-99999999-------------------------
+i equCab1.chr31 C 0 I 221
+s bosTau3.chr9 13743724 14 - 95030419 ---------GTTAAATATAGTGT------------------------------
+q bosTau3.chr9 ---------99999999999999------------------------------
+i bosTau3.chr9 C 0 I 229
+s loxAfr1.scaffold_33178 3644 41 + 41726 ACCTCCTGTGTAAAATATA-ATTTTTTTCTTGTTTT-----------TGTTTA
+q loxAfr1.scaffold_33178 9999999999999999999-9999999999999999-----------999999
+i loxAfr1.scaffold_33178 C 0 I 215
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e rheMac2.chr4 108518096 231 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 43015 243 - 51472 I
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e calJac1.Contig1260 87020 232 - 523245 I
+e tupBel1.scaffold_114895.1-498454 407914 229 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 8386 198 - 136255 I
+e hg18.chr6 16109391 228 - 170899992 I
+e panTro2.chr6 16633376 228 - 173908612 I
+e ponAbe2.chr6 16422298 231 - 174210431 I
+e oryCun1.scaffold_214769 110666 297 - 139458 I
+
+a score=15797.000000
+s mm9.chr10 3208662 280 + 129993255 CACTCTCAtgtgtatgggtatg-atttgtgtggaggagagacacccacacc--gagtgttttcctcaggtgctcaccagcaccttatgccttgagagcagatgtttccttgagcctggagagcactgatt---------ggctggccagcaaggcccaggatttctcctctttctgcctccatagctctagggttataggagcatgccactgtgcctagctttttaacctgggtgctggagatctgaagttaggtctcaggtgtgcatagcaagcactttgcccaccgaacc
+s rn4.chr1 230025269 286 - 267910886 TG--CTCATGtgtatgggagtgcatttgtgtggaggagagacatcaactgcaggagtgttctcctcagttgctctc---aaccttatctcttgagatcggatgtttccttgaacctggagctcactgattggcttgacgggctggcctgcaacacccaggagttctcctgtttctgcctcgatcactctagggttaaaggagtgagccaccgtgcctagctttgt-acctgggtgctggagatctgaagttaggtcccggctctgcacagcaggcactttacccactgtgcc
+q rn4.chr1 99--999999999999999999999999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13743738 229 - 95030419 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e equCab1.chr31 13065842 221 + 24938454 I
+e rheMac2.chr4 108518096 231 + 167655696 I
+e sorAra1.scaffold_256646 118258 2988 - 121936 I
+e dasNov1.scaffold_16647 43015 243 - 51472 I
+e felCat3.scaffold_217398 139251 201 - 219823 I
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 3685 215 + 41726 I
+e calJac1.Contig1260 87020 232 - 523245 I
+e tupBel1.scaffold_114895.1-498454 407914 229 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 8386 198 - 136255 I
+e hg18.chr6 16109391 228 - 170899992 I
+e panTro2.chr6 16633376 228 - 173908612 I
+e ponAbe2.chr6 16422298 231 - 174210431 I
+e oryCun1.scaffold_214769 110666 297 - 139458 I
+
+a score=111272.000000
+s mm9.chr10 3208942 52 + 129993255 atctccccaacccGG-GGCTTCCTCATTATCCTCTCAAA-CAGTGTGAGTTTGA
+s tupBel1.scaffold_114895.1-498454 408143 37 - 498454 ----------------GGATTGTTCTTTAACCCCTCAAA-CATTTTGAACTTGT
+q tupBel1.scaffold_114895.1-498454 ----------------99999999999996999999999-99999799999998
+i tupBel1.scaffold_114895.1-498454 I 229 C 0
+s equCab1.chr31 13066063 38 + 24938454 ----------------AGGTTTTTCTTTAGCCCCTCAAAGTGTTTTGAATTTGT
+q equCab1.chr31 ----------------99999999999999999999999999999999999999
+i equCab1.chr31 I 221 C 0
+s felCat3.scaffold_217398 139452 52 - 219823 -ATGCTACTACATGAAAGGTTTTTCTTGAGCCCCTCAAA-CATTTTGAATTTGT
+q felCat3.scaffold_217398 -99999999999999999999999999999999999999-99999999999999
+i felCat3.scaffold_217398 I 201 C 0
+s rn4.chr1 230025555 52 - 267910886 atctccccaacccTG-GGCTCCCTCGTTACCCTCTCAAA-CAGTGTGAATGTGA
+q rn4.chr1 999999999999999-99999999999999999999999-99999999999999
+i rn4.chr1 C 0 C 0
+s loxAfr1.scaffold_33178 3900 34 + 41726 -------------------TTTTTCTTTAGCCCCTCAAG-CATTTTGAATTTGT
+q loxAfr1.scaffold_33178 -------------------99999999998999999799-97999999999999
+i loxAfr1.scaffold_33178 I 215 C 0
+s dasNov1.scaffold_16647 43258 34 - 51472 -------------------TTTTTCTTCAGTCCCTCAAA-CATTTTCAATTTGT
+q dasNov1.scaffold_16647 -------------------99999999969999999699-98999995999999
+i dasNov1.scaffold_16647 I 243 C 0
+s rheMac2.chr4 108518327 29 + 167655696 -----------------------TCTTTAGCCCCTC-AA-CATTTTGAATTTGT
+q rheMac2.chr4 -----------------------9999999999999-99-99999999999999
+i rheMac2.chr4 I 231 C 0
+s hg18.chr6 16109619 30 - 170899992 -----------------------TCTTTAGCCCCTCAAA-CATTTTGAATTTGT
+i hg18.chr6 I 228 C 0
+s panTro2.chr6 16633604 30 - 173908612 -----------------------TCTTTAGCCCCTCAAA-CATTTTGAATTTGT
+q panTro2.chr6 -----------------------9999999999999999-99999999999999
+i panTro2.chr6 I 228 C 0
+s calJac1.Contig1260 87252 27 - 523245 --------------------------TTAGCCCCTCAAA-CATTTTGCATTTGT
+i calJac1.Contig1260 I 232 C 0
+s ponAbe2.chr6 16422529 27 - 174210431 --------------------------TCAGCCCCTCAAA-CATTTTGAATTTGT
+i ponAbe2.chr6 I 231 C 0
+s bosTau3.chr9 13743967 27 - 95030419 --------------------------TTAGTTCCTCAAA-CATTTTGAATTTGT
+q bosTau3.chr9 --------------------------9999999999999-99999999999999
+i bosTau3.chr9 I 229 C 0
+s sorAra1.scaffold_256646 121246 34 - 121936 -------------------TTCTTCCTTAAGCCCTTAGA-TGTTTCAGATTTGT
+q sorAra1.scaffold_256646 -------------------66567766576749675667-56697666657566
+i sorAra1.scaffold_256646 I 2988 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 8386 198 - 136255 I
+e oryCun1.scaffold_214769 110666 297 - 139458 I
+
+a score=360575.000000
+s mm9.chr10 3208994 72 + 129993255 A--AAAAGC----AGAGCTAGGTGA--CG---ATTT-TTCTTGCAACCTGAACTATGGGTAGCTTTTGCATGACATTGGCATGA
+s rn4.chr1 230025607 68 - 267910886 AACACAGGC----AGAGCTAGGTAAATGT---ATTT-GTCTTGCAGCCTGAACTGTGGGTTGG--------GACATAGGCATGA
+q rn4.chr1 999999999----9999999999999999---9999-99999999999999999999999999--------9999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 110963 62 - 139458 --AAAAAGT----ACAGCTGATTGAATGC---TTTC-TTCTTGTAGCCT------------ACGTTTCAATGACATTGATATGA
+q oryCun1.scaffold_214769 --9999999----9999999999999999---9999-999999999999------------99999999999999999999999
+i oryCun1.scaffold_214769 I 297 C 0
+s tupBel1.scaffold_114895.1-498454 408180 68 - 498454 --GAA-------------AAGTTGAATACTTTTTTT-TTCTTGCAAACTACGATATGGTTAGCTTTTGAATGACATTGATATTG
+q tupBel1.scaffold_114895.1-498454 --999-------------999999999999999999-99999899999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s rheMac2.chr4 108518356 74 + 167655696 --GAGAAGT----AGAGCTAGTTGAATGC---TTTC-TTCTTGCAGCCTACAATATGGCGTGCTTTTGAAAGACATTGATATGA
+q rheMac2.chr4 --9999999----9999999999999999---9999-99999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16109649 74 - 170899992 --GAGAAGT----AGAGCTGGTTGAATGC---TTTC-TTCTTGCAGCCTACAATGTGGCTTGCTTTTGAAAGACATTGATATGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16633634 74 - 173908612 --GAGAAGT----AGAGCTGGTTGAATGC---TTTC-TTCTTGCAGCCTACAATGTGGCTTGCTTTTGAAAGACATTGATATGA
+q panTro2.chr6 --9999999----9999999999999999---9999-99999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 87279 74 - 523245 --GAGAAGT----AGAGCTAGCTGAATGC---ATTC-TACTTGCAATCTACAATGTGTCTTGCTTTTGGAAGACATTGATATGA
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16422556 74 - 174210431 --GAGAAGT----AGAGCTAGTTGAATGC---TTTC-TTCTTGCAGCCTACAATATGGCTTGCTTTTGAAAGACATTGATATGA
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 8584 69 - 136255 -----AGGT----AGAGCTA-CTGAGGGC----TTC-CTCGTGGAACCTACACTATGGCTGGCTCTGGAATGGCTTTAGTATGA
+q otoGar1.scaffold_85251.1-136255 -----7987----9998787-89986966----977-88797996828898798989879986679996959458998756687
+i otoGar1.scaffold_85251.1-136255 I 198 I 557
+s felCat3.scaffold_217398 139504 74 - 219823 --AAAAAGT----AGAGCTAATTGAATGC---TTTCTTTTTTGCAACTTACAATATGGCTAGTTTTTG-GTGACGTTGACATGA
+q felCat3.scaffold_217398 --9999999----9999999999999999---999999999999999999999999999999999999-999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13066101 74 + 24938454 --AAAAAGT----AGCGCCAATTGGATGC---TTTC-TTTTTGCAACCTACGATATGGCTAGCTTTTGAATGACATTGATATGA
+q equCab1.chr31 --9999999----9999999999999999---9999-99999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13743994 74 - 95030419 --GAAAAGT----AGAGCTAATTGAATGC---TTTC-TTTATGCCACCTACAATACAGCTAGCTTTTGAATGACATTGATACAG
+q bosTau3.chr9 --9999999----9999999999999999---9999-99999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s sorAra1.scaffold_256646 121280 78 - 121936 --AAAAAATGTAGAACGTTGGTTGAACCT---TTTC-TTCTTGCAACCCACGGTATAGCTAGTTTTTGATCGGCACTGATACGA
+q sorAra1.scaffold_256646 --688897577766556646654755769---9967-69665577559969877776989778999785876969677695999
+i sorAra1.scaffold_256646 C 0 C 0
+s dasNov1.scaffold_16647 43292 71 - 51472 --G---AGT----AGAGCTGTTTGAACAT---TTTC-ATCTTGCAACCTACAATATGGCCAACTTTTGAATGACATTGATATGA
+q dasNov1.scaffold_16647 --9---999----9999999999999999---9999-79999999999999999999999999999999999999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 3934 74 + 41726 --GAAAAGT----AGAAATATTCGGATGG---TTTC-TTCTTGCAACCTACAATATGGCCAACTTTTGGTTGACGCTGATGTGA
+q loxAfr1.scaffold_33178 --9999999----9999999999999999---9999-99999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_33178 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=182907.000000
+s mm9.chr10 3209066 56 + 129993255 CGCAAGGAGCATCTCACCAACTTTCCTGTGCTTGCAGA-AAAGAAGCTTGTATCTGA
+s loxAfr1.scaffold_33178 4008 56 + 41726 AGCTAAGCATGTTTGCATAGTTTCCTTGGATCTACGTTCAAAGAAGCACATATCTG-
+q loxAfr1.scaffold_33178 99999999999999999999999999999999999999999999999999999999-
+i loxAfr1.scaffold_33178 C 0 I 730
+s dasNov1.scaffold_16647 43363 56 - 51472 AGCCAAGAATGATTGAATAGCTTCTCTGGGTTTGTGTACAAAGAAGCATATATCTG-
+q dasNov1.scaffold_16647 99999999999999999999999999999999999999999999999999999999-
+i dasNov1.scaffold_16647 C 0 I 561
+s sorAra1.scaffold_256646 121358 55 - 121936 GGCTAAAAGCATTTGACTAGCTTCCCAGGATCTATGTA-AAAGAAACCGGCATCTG-
+q sorAra1.scaffold_256646 99797999787997989978769799699679996768-99898989999979989-
+i sorAra1.scaffold_256646 C 0 N 0
+s bosTau3.chr9 13744068 54 - 95030419 AGCTTGAAATGTCAGAAAAACTTCTCTGCATCTGTGTA-AAAATAGCATGTGTCT--
+q bosTau3.chr9 99999999999999999999999999999999999999-9999999999999999--
+i bosTau3.chr9 C 0 I 1073
+s equCab1.chr31 13066175 54 + 24938454 AGCTAAAAATGTTCAAACAGCTTC-TTGGATCTGTGTA-AAAGAAGCACGCGTATG-
+q equCab1.chr31 999999999999999999999999-9999999999999-99999999999999999-
+i equCab1.chr31 C 0 I 581
+s felCat3.scaffold_217398 139578 54 - 219823 AGCTAAAAATGTTTGAATAGCTTC-CTGGATCTGTATG-AAAGAAGTATGTGTCTG-
+q felCat3.scaffold_217398 999999999999999999999999-9999999999999-99999999999999999-
+i felCat3.scaffold_217398 C 0 I 600
+s tupBel1.scaffold_114895.1-498454 408249 43 - 498454 AGCTAAAAATATTTTA-------------GTCTGTGTG-AAAGAAGCATGTGTCTGA
+q tupBel1.scaffold_114895.1-498454 9999999999999999-------------999999989-999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 1 I 606
+s ponAbe2.chr6 16422630 55 - 174210431 AACTAAAAATGTTTGAGTAGCTTCCCTGGGTCTGTGTA-AAAGAAGCATGTATTTG-
+i ponAbe2.chr6 C 0 I 560
+s calJac1.Contig1260 87353 55 - 523245 AACTAAAAATGTTTGGATAGCTTCCCTGGGTCTGTGTA-AAAGAAGCATATATTTG-
+i calJac1.Contig1260 C 0 I 561
+s panTro2.chr6 16633708 55 - 173908612 AACTAAAAATGTTTGAATAGCTTCCCTGGGTCTGTGCA-AAAGAAGCATGTATTTG-
+q panTro2.chr6 99999999999999999999999999999999999999-99999999999999999-
+i panTro2.chr6 C 0 I 560
+s hg18.chr6 16109723 55 - 170899992 AACTAAAAATGTTTGAATAGCTTCCCTGGGTCTGTGCA-AAAGAAGCATGTATTTG-
+i hg18.chr6 C 0 I 560
+s rheMac2.chr4 108518430 55 + 167655696 AACTAAAAATGTTTGAATAGCTTCCCTGGGTCTATGTA-AAAGAACCATGGATTTG-
+q rheMac2.chr4 99999999999999999999999999999999999999-99999999999999999-
+i rheMac2.chr4 C 0 I 7509
+s oryCun1.scaffold_214769 111025 35 - 139458 AGCTACAAACATTTGAACGGTTTCTCTGTGTCTGC----------------------
+q oryCun1.scaffold_214769 99999999999999999999999999999999999----------------------
+i oryCun1.scaffold_214769 C 0 I 2150
+s rn4.chr1 230025675 33 - 267910886 AGC-AGGAGCATCTCCGTAGCTCTCCTGTGCTCG-----------------------
+q rn4.chr1 999-999999999999999999999999999999-----------------------
+i rn4.chr1 C 0 I 1269
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106257603 3531 - 541556283 I
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 8653 557 - 136255 I
+
+a score=300.000000
+s mm9.chr10 3209122 37 + 129993255 TCAAGGAGAAATTTGTCAGTAAACCCCCCCCCCCCAT
+s monDom4.chr2 106261134 30 - 541556283 TTGAGAAGAAA-------GAGGATTCCCATTTTCTAT
+q monDom4.chr2 99999999999-------9999999999999999999
+i monDom4.chr2 I 3531 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e rn4.chr1 230025708 1269 - 267910886 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13744122 1073 - 95030419 I
+e equCab1.chr31 13066229 581 + 24938454 I
+e rheMac2.chr4 108518485 7509 + 167655696 I
+e dasNov1.scaffold_16647 43419 561 - 51472 I
+e felCat3.scaffold_217398 139632 600 - 219823 I
+e canFam2.chr1 78273510 1015 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 4064 730 + 41726 I
+e calJac1.Contig1260 87408 561 - 523245 I
+e tupBel1.scaffold_114895.1-498454 408292 606 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 8653 557 - 136255 I
+e hg18.chr6 16109778 560 - 170899992 I
+e panTro2.chr6 16633763 560 - 173908612 I
+e ponAbe2.chr6 16422685 560 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=106175.000000
+s mm9.chr10 3209159 82 + 129993255 CTGCTCAGA---GTGG-----TGAAAGTCTTGTAATTTGG----TGGTTATGTTG-TCCAGCTTGA-CCA-----GACCTTGG-CAGTTCCAGA-CTCTCCCA
+s loxAfr1.scaffold_33178 4794 90 + 41726 CTGCTTTGAAAGAGTTAAAGTTTTGCATCTAGCATGTTGG----TGATCACATTG-TTTGACCTAG-CCA-----GATCTGTG-CAGTTCCAGA-CTCTATCT
+q loxAfr1.scaffold_33178 9999999999999999999999999999999999999999----99999999999-9999999999-999-----99999999-9999999999-99999999
+i loxAfr1.scaffold_33178 I 730 C 0
+s dasNov1.scaffold_16647 43980 79 - 51472 ------------GGAGGAAGTCTTGCACCTAGCAATTTGG----TGATTGCATTGTTTTGCCTTAA-ACA-----GACCCACG-CAACTCCAGG-CTCTTATC
+q dasNov1.scaffold_16647 ------------9989999699869899997999969799----7897799999779996999999-999-----99999999-9999999999-99999899
+i dasNov1.scaffold_16647 I 561 C 0
+s calJac1.Contig1260 87969 62 - 523245 ---------------------------TCTAGCAATTTGA----TGATTATGTTG-TCTGAC-TAA-CTG-----GACCAGTG-TGTTTTTCGA-CTCTGTTG
+i calJac1.Contig1260 I 561 C 0
+s equCab1.chr31 13066810 57 + 24938454 ---------------------------TCTAGCGCTTTGG----TGATGGCGTTG-TTTAAC--AG-CCA-----AACCTCTG-TGGTTCCAGA-CT----TT
+q equCab1.chr31 ---------------------------9999999999999----99999999999-999999--99-999-----99999999-9999999999-99----99
+i equCab1.chr31 I 581 C 0
+s canFam2.chr1 78274525 53 - 125616256 --------------------------------------------TGATTGCATTG-TTTAAC--AG-CCAGATCTGATCTGTG-TGGCTGCAGA-CTCTCACT
+q canFam2.chr1 --------------------------------------------99999999999-999999--99-9999999999999999-9999999999-99999999
+i canFam2.chr1 I 1015 C 0
+s felCat3.scaffold_217398 140232 50 - 219823 -------------------------------------TAG----TGACTGCATTA-TTTAAC--AG-CCA-----GACCCGTG-TGGTTCCAGA-CT-TTACC
+q felCat3.scaffold_217398 -------------------------------------999----99999999999-999999--99-999-----99999999-9999999999-99-99999
+i felCat3.scaffold_217398 I 600 C 0
+s bosTau3.chr9 13745195 58 - 95030419 ---------------------------TCTAGTAATTTGG----TGATTGCA-----TTAAC--AACCCA-----GACCTGTG-CAGTTCCAGA-CTCAATCA
+q bosTau3.chr9 ---------------------------9999999999999----99999999-----99999--999999-----99999999-9999999999-99999999
+i bosTau3.chr9 I 1073 C 0
+s otoGar1.scaffold_85251.1-136255 9210 79 - 136255 ----TCAGA---GTTGAAGTTTCATAGTCTGGCAATTTGG----CGATGACACTG-ATTGACTTAG-CCA-----GACCTGTG-TGGTTCCAGA-TTCT----
+q otoGar1.scaffold_85251.1-136255 ----98699---8399798699869999989458889995----68969669999-6499979887-885-----99799969-7952756596-3885----
+i otoGar1.scaffold_85251.1-136255 I 557 C 0
+s hg18.chr6 16110338 65 - 170899992 -------------------------AATCTAGCAATTTGA----TGATTACGTTG-TCTGTCTTAA-CCA-----GACCAGTG-TGTTTTCCAA-CTCTATTG
+i hg18.chr6 I 560 C 0
+s panTro2.chr6 16634323 65 - 173908612 -------------------------AATCTAGCAATTTGA----TGATTACATTG-TCTGTCTTAA-CCA-----GACCAGTG-TGTTTTCCAA-CTCTATTG
+q panTro2.chr6 -------------------------999999999999999----99999999999-9999999999-999-----99999999-9999999999-99999999
+i panTro2.chr6 I 560 C 0
+s ponAbe2.chr6 16423245 65 - 174210431 -------------------------AGTCTAGCAATTTGA----TGATTACATTG-TCTGTCTTAA-CCA-----GACCAGTG-TGTTTTCCAA-CTTTATTG
+i ponAbe2.chr6 I 560 C 0
+s rheMac2.chr4 108525994 65 + 167655696 -------------------------AGTCTAGCAATTTGA----TGATTGCATTG-TCTCTCTTAA-CCA-----GACCAGTG-TGTTTTCCAA-CTCTATTG
+q rheMac2.chr4 -------------------------999999999999999----99999999999-9999999999-999-----99999999-9999999999-99999999
+i rheMac2.chr4 I 7509 C 0
+s rn4.chr1 230026977 68 - 267910886 -----------------------AAGATCTTGTACTTTGG----TGACTATGTTG-GTCGGCTTAA-CCA-----GACTTTGGGCAGTTCTAGA-CTCTCTCA
+q rn4.chr1 -----------------------99999999999999999----99999999999-9999999999-999-----9999999999999999999-99999999
+i rn4.chr1 I 1269 C 0
+s monDom4.chr2 106261164 92 - 541556283 ---TTTTCACAGAGTTGGAATTTTTCACCTATCAGTATAGTAACTGATTATATTG-GATTACTTGA-ACA-----GACTTGTT-TAGTCCAAGATCTCTATCA
+q monDom4.chr2 ---9999999999999999999999999999999999999999999999999999-9999999999-999-----99999999-9999999999999999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 408292 606 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=143263.000000
+s mm9.chr10 3209241 29 + 129993255 GGTCTTCTTGA-AGCCATA-TGACTCTTTGA
+s rn4.chr1 230027045 30 - 267910886 GGTCTTCTTGA-AGCCACATTTACTCTTTGA
+q rn4.chr1 99999999999-9999999999999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 9289 28 - 136255 -GTCTTCTTGA-AGCAGTC-CCACTATGTGA
+q otoGar1.scaffold_85251.1-136255 -6586995986-8766766-98657969797
+i otoGar1.scaffold_85251.1-136255 C 0 I 1089
+s calJac1.Contig1260 88031 29 - 523245 AGCCATCTTGA-AGCAATT-TCCATCTTGGA
+i calJac1.Contig1260 C 0 C 0
+s hg18.chr6 16110403 29 - 170899992 GGTCTTCTTGA-AGCAATT-TCCCTCTTGGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16634388 29 - 173908612 GGTCTTCTTGA-AGCAATT-TCCCTCTTGGA
+q panTro2.chr6 99999999999-7999999-99999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16423310 29 - 174210431 GGTCTTCTTGA-AGCAATT-TCCATCTTGGA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108526059 26 + 167655696 AG---TCTTGA-AGCAATT-GCTATCTTGGA
+q rheMac2.chr4 99---999999-9999999-99999999999
+i rheMac2.chr4 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 408898 29 - 498454 GGTCTTCTGGA-AGCACTT-TCAGTCTTGGA
+q tupBel1.scaffold_114895.1-498454 99999999999-9997999-99999999999
+i tupBel1.scaffold_114895.1-498454 I 606 C 0
+s equCab1.chr31 13066867 19 + 24938454 GGTCTTCTCCA------------ATCTTGGA
+q equCab1.chr31 99999999999------------99999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78274578 29 - 125616256 GGTCTTCCTAA-AGCAGTT-TTCATCTTGGA
+q canFam2.chr1 99999999999-9999999-99999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 140282 29 - 219823 GGTCTTCTTAA-AGCAGTT-TTCATCTTGGA
+q felCat3.scaffold_217398 99999999999-9999999-99999999999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13745253 27 - 95030419 GGTCTT--TGA-ACCAATT-TCAATCTTGGA
+q bosTau3.chr9 999999--999-9999999-99999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_33178 4884 29 + 41726 GGTCGTCTTGA-ACCAATT-TCCATCCTGGA
+q loxAfr1.scaffold_33178 99999999999-9999999-99999999999
+i loxAfr1.scaffold_33178 C 0 C 0
+s dasNov1.scaffold_16647 44059 29 - 51472 AGTCTTCTTGA-AGCAATT-TCAATTTTGGA
+q dasNov1.scaffold_16647 99999999999-9999999-99999996999
+i dasNov1.scaffold_16647 C 0 C 0
+s monDom4.chr2 106261256 30 - 541556283 AGTCTACTTGGCAGCAACT-TCAAACTTTGA
+q monDom4.chr2 9999999999999999999-99999999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=-14293.000000
+s mm9.chr10 3209270 72 + 129993255 TAAATG-------TG----------TAGTGTGCTGGCGTGATGCTGCC------GGAAGGCCTGGG-TTG-CTCTCG--------------TCTTCTGTCCTTTT-----------TGTTTG-
+s rn4.chr1 230027075 58 - 267910886 CAAATG-------TG----------TAGTATGCT---------------------GAAGGCAGGGT-TTGTCTCCCT--------------CCTTGTCCCGTTTC-----------TGTTTA-
+q rn4.chr1 999999-------99----------999999999---------------------99999999999-9999999999--------------99999999999999-----------999999-
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108526085 66 + 167655696 -------------TC----------TGGAGCACTACAGAATTACTACT------GGAAGGCATAGT--TTTCCTTCC--------------TCTTGTACCACCCC-----------CCTTTT-
+q rheMac2.chr4 -------------99----------99999999999999999999999------999999999999--999999999--------------99999999999999-----------999999-
+i rheMac2.chr4 C 0 I 322
+s ponAbe2.chr6 16423339 67 - 174210431 -------------TC----------TGGAGCACTACAGAATTACTACC------GGAAGGCATAGT-ACTTCCTTCC--------------TCTTGCACCAGCCC-----------CCTTTT-
+i ponAbe2.chr6 C 0 I 7
+s panTro2.chr6 16634417 53 - 173908612 -------------TC----------TGGAGCACTACAGAATTACTACT------GGAAGGCATAGT-ACTTCCTTCC--------------TCTTGC--------------------------
+q panTro2.chr6 -------------99----------99999999999999999999999------999999999999-9999999999--------------999999--------------------------
+i panTro2.chr6 C 0 I 334
+s hg18.chr6 16110432 53 - 170899992 -------------TC----------TGGAGCACTACAGAATTACTACT------GGAAGGCATAGT-ACTTCCTTCC--------------TCTTGC--------------------------
+i hg18.chr6 C 0 I 334
+s calJac1.Contig1260 88060 76 - 523245 -------------TCCACA----CGTGGAGCACTACAAAATTACCATCAGAAGGAGAAGGCATAGT-GTTTCCT-----------------TCTTACACTATCCC-----------CCTTTT-
+i calJac1.Contig1260 C 0 I 5
+s tupBel1.scaffold_114895.1-498454 408927 74 - 498454 ---------------TAAATGTGTGTGGAGCACTGCAGTATCACTACC------AGAAG--ATAATAACATTATTCT--------------TCCTGGGTCCCCAC-----------TCTTTT-
+q tupBel1.scaffold_114895.1-498454 ---------------999999999999973799999999999999999------99999--9999999999999999--------------99999999999999-----------999999-
+i tupBel1.scaffold_114895.1-498454 C 0 I 12
+s equCab1.chr31 13066886 72 + 24938454 TAAACG-------TG----------TAGAACACTATAATATTACTACC------AGAAGGCACACA-GATTTCTCTT--------------CTTC--ACCACCCCC----------CCTTTT-
+q equCab1.chr31 999999-------99----------99999999999999999999999------999999999999-9999999999--------------9999--999999999----------999999-
+i equCab1.chr31 C 0 I 12
+s canFam2.chr1 78274607 84 - 125616256 TAAATG-------TG----------TAGCTCACTGTCATATTACTACC------AGAAGGCACACA-GATTTCTCCT--------------CTTCAAACCACCCCCCTGCCTCCTGTCCTTT-
+q canFam2.chr1 999999-------99----------99999999999999999999999------999999999999-9999999999--------------9999999999999999999999999999999-
+i canFam2.chr1 C 0 I 12
+s felCat3.scaffold_217398 140311 74 - 219823 TCAGCG-------TA----------TAGCTCGCTATCATATTACTACC------AGAAGGCACAC---ATTTCTCCT--------------CTTCAAACCACCCCCCT--------TCCTTT-
+q felCat3.scaffold_217398 999999-------99----------99999999999999999999999------99999999999---999999999--------------99999999999999999--------999999-
+i felCat3.scaffold_217398 C 0 I 12
+s bosTau3.chr9 13745280 63 - 95030419 TAAACA-------TA----------TAGAACACTATAATGTTACTTCC---------------------TTTCACTG--------------TCT---ACCTCATCCCTAGCC----TGCTTT-
+q bosTau3.chr9 999999-------99----------99999999999999999999999---------------------99999999--------------999---999999999999999----999999-
+i bosTau3.chr9 C 0 I 13
+s loxAfr1.scaffold_33178 4913 69 + 41726 TAAACG-------TG----------TGGAACACTGTAATATTATTACC------AGAAGGCACACG-GATTCACTCCAGGACAGCTCCTGGCT------------------------------
+q loxAfr1.scaffold_33178 999999-------99----------99999999999999999999999------999999999999-99999899998999999999999999------------------------------
+i loxAfr1.scaffold_33178 C 0 I 170
+s dasNov1.scaffold_16647 44088 79 - 51472 TAAGCA-------TG----------TGGAATGCCATAATATTATTACC------AGAAGGCATGCA-GATTTCTTCC--------------CT-----CCTGCCTTTAAAAAAAGATGTTTT-
+q dasNov1.scaffold_16647 999999-------99----------89999899999999999989999------999999999999-9999999999--------------99-----999999999999999999999999-
+i dasNov1.scaffold_16647 C 0 I 3
+s monDom4.chr2 106261286 89 - 541556283 TAAACACACTACTAG----------TGGAACACTAGAACCTTACTACT------GAGAGGCACAGA----TTCATCT--------------TTTTTTGGTAGTCTGTGTATGTATGTGTTTTA
+q monDom4.chr2 999999999999999----------99999999999999999999999------999999999999----9999999--------------99999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=80808.000000
+s mm9.chr10 3209342 52 + 129993255 A-----AGAGTTGGA--------------------------------------TGGGA-----GACTAA-ACAGTGCTGCCTTTGAAT-AAGATTGCATGTC
+s rn4.chr1 230027133 57 - 267910886 AAGACGAGAGTTCGA--------------------------------------TAGGA-----GACTAA-ACAGTGCTGCCTCTGAAT-CAAATGAAATGTC
+q rn4.chr1 999999999999999--------------------------------------99999-----999999-999999999999999999-9999999999999
+i rn4.chr1 C 0 I 18
+s ponAbe2.chr6 16423413 59 - 174210431 -----AAGAATTCGggccgggcgtggtggctcatgcctgtaatcccagcactttggga-----ggctga---------------------------------
+i ponAbe2.chr6 I 7 I 344
+s panTro2.chr6 16634804 52 - 173908612 -----aAGAGTTCAA--------------------------------------TGACA-----GACTAA-ACAAAGCTGCTTTTGAAT-TAAATGAAATGTC
+q panTro2.chr6 -----9999999999--------------------------------------99999-----999999-999999999999999999-9999999999999
+i panTro2.chr6 I 334 C 0
+s hg18.chr6 16110819 52 - 170899992 -----aAGAGTTCAA--------------------------------------TGACA-----GACTAA-ACAAAGCTGCTTTTGAAT-TAAATGAAATGTC
+i hg18.chr6 I 334 C 0
+s rheMac2.chr4 108526473 50 + 167655696 -------GAGTTCAA--------------------------------------TGACA-----GACTAA-ACAAAGCTGCTCTTGAAT-TAAATGAAATGTC
+q rheMac2.chr4 -------99999999--------------------------------------99999-----999999-999999999999999999-9999999999999
+i rheMac2.chr4 I 322 C 0
+s calJac1.Contig1260 88141 52 - 523245 -----AAGAGTTCAG--------------------------------------TGACA-----GACTAA-ACAAAGCTGCTTTTGAAT-TAAATGAAATAAC
+i calJac1.Contig1260 I 5 C 0
+s tupBel1.scaffold_114895.1-498454 409013 52 - 498454 -----GAGTGTTGAA--------------------------------------TGAGA-----GAGTAA-ACAAAGTTGCTTTTGAAG-TGAATGAAATGAA
+q tupBel1.scaffold_114895.1-498454 -----9999999999--------------------------------------99999-----999999-999999999999999999-9999999999999
+i tupBel1.scaffold_114895.1-498454 I 12 I 17
+s equCab1.chr31 13066970 49 + 24938454 -------GTGTTGAG--------------------------------------TGAGA-----GACTCA-GCAA-GCTGTTTTGGAAT-CAAATGAAATATC
+q equCab1.chr31 -------99999999--------------------------------------99999-----999999-9999-9999999999999-9999999999999
+i equCab1.chr31 I 12 C 0
+s canFam2.chr1 78274703 51 - 125616256 -----GAGAGTTGAA--------------------------------------ACAGA-----GACTAA-ACAG-GCTGCTTTTGAAT-GAAGTGAAATGTC
+q canFam2.chr1 -----9999999999--------------------------------------99999-----999999-9999-9999999999999-9999999999999
+i canFam2.chr1 I 12 C 0
+s felCat3.scaffold_217398 140397 58 - 219823 -----GAGAGTTGAA------------------------------------TGACAGACTGTCAACTTA-ACAA-GCTGCTTTTGAAT-GACGTGAAAGGTC
+q felCat3.scaffold_217398 -----9999999999------------------------------------999999999999999999-9999-9999999999999-9999999999999
+i felCat3.scaffold_217398 I 12 C 0
+s bosTau3.chr9 13745356 40 - 95030419 -----GTAAGCTAAA-----------------------------------------GA-----AAACCA-GC---------TTTGAAT-CAAATCAAATGTC
+q bosTau3.chr9 -----9999999999-----------------------------------------99-----999999-99---------9999999-9999999999999
+i bosTau3.chr9 I 13 C 0
+s dasNov1.scaffold_16647 44170 45 - 51472 AGGATGAGAGTTGAG--------------------------------------TGAGA-----GGCTAAAACAAAGCTACGTTTGAAT--------------
+q dasNov1.scaffold_16647 999999999999999--------------------------------------99999-----9999999999999999999999999--------------
+i dasNov1.scaffold_16647 I 3 I 35
+s monDom4.chr2 106261375 52 - 541556283 -----AAGGATGAAA--------------------------------------TGTGA-----AACTCA-TCAAAACTTCTTTTGAATCTGAATGAATTTT-
+q monDom4.chr2 -----9999999999--------------------------------------99999-----999999-9999999999999999999999999999999-
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 4982 170 + 41726 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=-8483.000000
+s mm9.chr10 3209394 36 + 129993255 CATAAACAAGGACTCCTAGGCCATCTCTTATAAAAT
+s equCab1.chr31 13067019 6 + 24938454 ------------------------------TAATAT
+q equCab1.chr31 ------------------------------999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78274754 6 - 125616256 ------------------------------TAATGT
+q canFam2.chr1 ------------------------------999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 140455 6 - 219823 ------------------------------AAATGT
+q felCat3.scaffold_217398 ------------------------------999999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13745396 4 - 95030419 ------------------------------TACT--
+q bosTau3.chr9 ------------------------------9999--
+i bosTau3.chr9 C 0 C 0
+s monDom4.chr2 106261427 30 - 541556283 ------CAAGTGGAAAAATCCCACTTCTTTAAAAAT
+q monDom4.chr2 ------999999999999999999999999999999
+i monDom4.chr2 C 0 I 396
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e rn4.chr1 230027190 18 - 267910886 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e rheMac2.chr4 108526523 0 + 167655696 C
+e dasNov1.scaffold_16647 44215 35 - 51472 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 4982 170 + 41726 I
+e calJac1.Contig1260 88193 0 - 523245 C
+e tupBel1.scaffold_114895.1-498454 409065 17 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e hg18.chr6 16110871 0 - 170899992 C
+e panTro2.chr6 16634856 0 - 173908612 C
+e ponAbe2.chr6 16423472 344 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=-15208.000000
+s mm9.chr10 3209430 30 + 129993255 GATGCCCCAAATGAACCCTCAGTTCATCAA
+s panTro2.chr6 16634856 12 - 173908612 --------ATATG----------CCATTAA
+q panTro2.chr6 --------99999----------9999999
+i panTro2.chr6 C 0 I 5
+s hg18.chr6 16110871 12 - 170899992 --------ATATG----------CCATTAA
+i hg18.chr6 C 0 I 5
+s rheMac2.chr4 108526523 12 + 167655696 --------ATATG----------TCATTAA
+q rheMac2.chr4 --------99999----------9999999
+i rheMac2.chr4 C 0 I 4
+s calJac1.Contig1260 88193 12 - 523245 --------ATATA----------TCATTAA
+i calJac1.Contig1260 C 0 I 4
+s equCab1.chr31 13067025 8 + 24938454 AATG----ATAC------------------
+q equCab1.chr31 9999----9999------------------
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78274760 8 - 125616256 AAGG----ATAC------------------
+q canFam2.chr1 9999----9999------------------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 140461 8 - 219823 AAGG----ATCC------------------
+q felCat3.scaffold_217398 9999----9999------------------
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13745400 5 - 95030419 ---G----ATAC------------------
+q bosTau3.chr9 ---9----9999------------------
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e rn4.chr1 230027190 18 - 267910886 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e dasNov1.scaffold_16647 44215 35 - 51472 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 4982 170 + 41726 I
+e tupBel1.scaffold_114895.1-498454 409065 17 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e ponAbe2.chr6 16423472 344 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3209460 34 + 129993255 GGTTAAGATGATGGTGCTGATGAGTTAGATGTAT
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e rn4.chr1 230027190 18 - 267910886 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745405 0 - 95030419 C
+e monDom4.chr2 106261457 396 - 541556283 I
+e equCab1.chr31 13067033 0 + 24938454 C
+e rheMac2.chr4 108526535 4 + 167655696 I
+e dasNov1.scaffold_16647 44215 35 - 51472 I
+e felCat3.scaffold_217398 140469 0 - 219823 C
+e canFam2.chr1 78274768 0 - 125616256 C
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 4982 170 + 41726 I
+e calJac1.Contig1260 88205 4 - 523245 I
+e tupBel1.scaffold_114895.1-498454 409065 17 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e hg18.chr6 16110883 5 - 170899992 I
+e panTro2.chr6 16634868 5 - 173908612 I
+e ponAbe2.chr6 16423472 344 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=237457.000000
+s mm9.chr10 3209494 138 + 129993255 TTATTT-CCTCT----------GCAGATTACT-----ACCAGAAC--C---ATAAACCTGGGTGGCAGACCT--ATGGTTTCTTTGCATATAGGCTGCTCTGGTGTTCTCATCCAGAACTGAAAAGAAACCACCTTAGAA-CAGAAGTGGCCATAATCAAGT
+s tupBel1.scaffold_114895.1-498454 409082 136 - 498454 ATGGTCTCCT--------------GAATTCCT-----ATCAGAATCAT---ACACCACTGAATAATAAACTC--AGAGTTTACCTGGCTAGGTTTTATATTAGAGCTCCCATGTAGAACTGTGTGGACATCATCTCAGAG--AGAGGGGATTACCATCACGT
+q tupBel1.scaffold_114895.1-498454 9999999999--------------99999999-----99999999999---999999999999999999999--999999998999999999899999999999999999999999999999999999999999999999--99999999799999999999
+i tupBel1.scaffold_114895.1-498454 I 17 C 0
+s calJac1.Contig1260 88209 118 - 523245 ATATTC-CCT--------------GAATTTCT-----ACCAGAAT--T---CTAACACTGGCTGACAGACTC--AGGTTCTGTC---------------CTGGTGCTCCCATACAGGACGGTATGGAAGCCATCTCAGGG--AGTGGTGGCTACCATCTTGT
+i calJac1.Contig1260 I 4 C 0
+s rheMac2.chr4 108526539 118 + 167655696 ATATTC-CCT--------------GAATTCCT-----ACCAGAAT--T---GTAACACTGGCTGACAGACTC--AGGGTCGGCC---------------CTGGTGTTCCCATGTAAGACTGTATGGAAGTCATTTCAGGG--AGTGGTGGCTACCATCTTGT
+q rheMac2.chr4 999999-999--------------99999999-----99999999--9---999999999999999999999--9999999999---------------99999999999999999999999999999999999999999--99999999999999999999
+i rheMac2.chr4 I 4 C 0
+s ponAbe2.chr6 16423816 118 - 174210431 ATATTC-CCT--------------GAATTCCT-----ACGAGAAT--T---GTAACACTGGCTGACAGACTC--AGGGTCTGTC---------------CTGGTATTCCCATGTAGGACTGTATGGAAGTCATCTCAGGG--AGTGGTGGCTACCATCTTGT
+i ponAbe2.chr6 I 344 C 0
+s rn4.chr1 230027208 125 - 267910886 TTATTT-CCTCC----------CCAAATTCCT-----ACCAGAAT--C---ATAAACTT---------------ATGGCTTATCTGTATATAGGCTTTTCCGGTGTTCCCACCCAGAACTAAATGGAAACCACCTTAGCA-CAGAAGTAGCTACCATCAAGT
+q rn4.chr1 999999-99999----------9999999999-----99999999--9---99999999---------------999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999
+i rn4.chr1 I 18 C 0
+s dasNov1.scaffold_16647 44250 101 - 51472 --------------------------ATTCCT-----ACCAGAAA--C---ATAAGGGCGGATAAGAAATTC--AGGGTCCGCCTGGCTGTAGGTTCTCCCAGTACCTCCATACAGGACTGTGCCAAAGCCATCCTGGA-----------------------
+q dasNov1.scaffold_16647 --------------------------999999-----99999999--9---999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999-----------------------
+i dasNov1.scaffold_16647 I 35 I 924
+s loxAfr1.scaffold_33178 5152 143 + 41726 -----------TACTTACTTTGGAGGTTTCCTGAGAGGCCAGGAT--CCTTCTAACGTCAGAGTAACAATACCTGGTGTTTCTCTATCTGCCGTCTTTTCTTATGTTGCT---CAAGACCTTGACAGG---AACCTTGACACAACCCCAACCATACTCCTGT
+q loxAfr1.scaffold_33178 -----------9999999999999999999999999999989999--999999999999999999999999999999999999999999999999999999999999999---999999999999899---9999999998999999999999999999998
+i loxAfr1.scaffold_33178 I 170 I 492
+s bosTau3.chr9 13745405 132 - 95030419 --ATTC-CGT-------------AGAATTCCT-----ACCAGACT--C---TTAGGACTGGGTGAGAGATTC--AGGATTTACCTGGATGTGGCTGCTCCTAGTGCCTCCACGTAGGATGGTACCTAAGTCATCCTAGAG--AGAAATGGTTTCCTTCTTGT
+q bosTau3.chr9 --9999-999-------------999999999-----99999999--9---999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999
+i bosTau3.chr9 C 0 C 0
+s felCat3.scaffold_217398 140469 123 - 219823 --ATTT-CCT-------------AGAATTCCT-----ACCAGCCT--C---ATAAGACTGGGTGAGAGATTC--AGGGTTGACCTGGATATAGTCGA---------TCCCATACAGGATCAAACAGAAGTCATCCTGGAG--ACAGGTGGTTTCCATCTTGT
+q felCat3.scaffold_217398 --9999-999-------------999999999-----99999999--9---999999999999999999999--99999999999999999999999---------9999999999999999999999999999999999--99999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78274768 123 - 125616256 --ATTT-CCT-------------AGAATTCCA-----ACCAGACT--CA--ATAAGACTGGGTGAGAGATTT--AAGATTTACCTGGATGTGGTTGA---------TCTCATACAGGACTATACAGAAGCCA-CCTAGAG--ACAGGTGGTTTCCATCTTGT
+q canFam2.chr1 --9999-999-------------999999999-----99999999--99--999999999999999999999--99999999999999999999999---------99999999999999999999999999-9999999--99999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13067033 132 + 24938454 --ATTT-CCT-------------AGAATTTCT-----GCCAGAAG--C---ATAAGAAAAGGTCAGGGATTC--AAGGTTTACCTGGATATAGTCAATCTCAGTGCTCCCATACAGGACCATACAGAAGTCATCCCAGAG--AGAGTTGGTTTCCATTTTGT
+q equCab1.chr31 --9999-999-------------999999999-----99999999--9---999999999999999999999--999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999
+i equCab1.chr31 C 0 C 0
+s panTro2.chr6 16634873 117 - 173908612 -TATTC-CCT--------------GAATTCCT-----ACCAGAAT--T---GTAACACTGGCTAACAGACTC--AGGGTCTGTC---------------CTGGTATTCCCATGTAGGACTGTATGGAAGTCGTCTCAGGG--AGTGGTGGCTACCATCTTGT
+q panTro2.chr6 -99999-999--------------99999999-----99999999--9---999999999999999999999--9999999999---------------99999999999999999999999999999999999999999--99999999999999999999
+i panTro2.chr6 I 5 C 0
+s hg18.chr6 16110888 117 - 170899992 -TATTC-CCT--------------GAATTCCT-----ACCAGAAT--T---GTAACACTGGCTAACAGACTC--AGGGGCTGTC---------------CTGGTATTCCCATGTAGGACTGTATGGAAGTCGTCTCAGGG--AGTGGTGGCTACCATCTTGT
+i hg18.chr6 I 5 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=359654.000000
+s mm9.chr10 3209632 143 + 129993255 TAAAGAT-TAA--GAAAAGTAGGAAAA--AAATGCTCATTTAATTCAATTTGGCAGCCCATTT--AGACATTACCTATTC-CTTTAGTTTT-CACCACGCAGTTACTGAGGACCTGGAAC-TACTAGACCCCGGGCTGAGT----------CATGTAGCTGAG
+s rn4.chr1 230027333 139 - 267910886 TAAAGAT-TAA--GAAAAATG----AA--AAAAGCTCATTTAATTCCATC-AGCAGCCCATTC--AAATATTATCCATCG-Ctttagtttttcaacatgcatttgctgagggcctggaatatgctagaccccgggctaag-----------aatgtagctgag
+q rn4.chr1 9999999-999--99999999----99--999999999999999999999-999999999999--999999999999999-99999999999999999999999999999999999999999999999999999999999-----------999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16111005 147 - 170899992 TAGAGAT-CAA--AA----------AA--GAAAACTTGTCTTCTTCCATCTGGTAATCCACTTGAAAATGTCACTCATTC-CtttagtcattcaattcgcatttattgaggacctggaatgtgctagacactaggctaagTAAGTCTAAGTCTTCTAGACAAG
+i hg18.chr6 C 0 I 7
+s panTro2.chr6 16634990 147 - 173908612 TAGAGAT-CAA--AA----------AA--GAAAACTTGTCTTCTTCCATCTGGTAATCCACTTGAAAATGTCACTCATTC-CtttagtcattcaattcgcatttattgaggacctggaatgtgctagacactaggctaagTAAGTCTAAGTCTTCTAGACAAG
+q panTro2.chr6 9999999-999--99----------99--999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 I 7
+s ponAbe2.chr6 16423934 147 - 174210431 TAGAGAT-CAA--AA----------AA--GAAAACTTGTCTTCTTCCATCTGGTAATCCACTTGAAAATGTCACTCATTC-CtttagtcattcaatttgcatttattgaggacctggaatgtgctagacactaggCTAAGTAAGTCTAAGTCTTCTAGACAAG
+i ponAbe2.chr6 C 0 I 7
+s rheMac2.chr4 108526657 147 + 167655696 TAGAGAT-CAA--AA----------AA--GAAAACTTGTCTTCTTCCATCTGGTAATCCACTTGAAAATGTCACTCATTC-CTTTAGTCATTCAGTTTGCATTTATTGAGGACCTGGAATGTGCTAGACACTAGGCTAAGTAAGTCTAAGTCTTCTAGACAAG
+q rheMac2.chr4 9999999-999--99----------99--999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 406
+s calJac1.Contig1260 88327 125 - 523245 TAGAGAT-CAA--AA----------AA--GAAAACATGTCTTCTTCCATCTGGTAATCCACTTGAAAATGTCACTCATTC-CTTTAGTCATTCAATTTACATTTATTGAGTACTTGGAATGTGCTAGACTCTAGACCAAGT----------------------
+i calJac1.Contig1260 C 0 I 1130
+s tupBel1.scaffold_114895.1-498454 409218 128 - 498454 TAAAGAA-GAAACAA----------AA--GAACACTTGTTTTATTCCATGTGGCACGCCACTTGAAAATGT-----------TTCAGGCATTCACTCC-TATTTACTAAGCACCTGGAATGTACTAGACATTGGACTAAGC----------CTTCTAGGTGAG
+q tupBel1.scaffold_114895.1-498454 9999999-9999999----------99--999999999999999999999999999999999999999999-----------9999999999999999-999999999999999999999999999999999999999999----------999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 7
+s equCab1.chr31 13067165 137 + 24938454 TAACAAT-CAA--AA----------AAG-GAAAACTTGTCTTATTCCATCTGGTAATCCATTTGAAAATGTCATTCATTC-TTTCAGTCATTCAGCTTGTGTTCACTGAGTACCTGGAATATGCTAAACACTT-GCTAAGT----------CTTGTACATGAG
+q equCab1.chr31 9999999-999--99----------999-999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999-9999999----------999999999999
+i equCab1.chr31 C 0 I 7
+s canFam2.chr1 78274891 140 - 125616256 TAAAGATCAAA--AA----------AAGCGAAAACTTGTCTTATTCCAGTTGGCAATCCATTTGAAAATATCACTCATTCTTTTCAGTCATTGAGCTTGTGTTCACTGAGTACCTGGAATGTGCTGAACACTC-GCTAAAT----------CTCACAGATGTG
+q canFam2.chr1 99999999999--99----------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999----------999999999999
+i canFam2.chr1 C 0 I 7
+s felCat3.scaffold_217398 140592 128 - 219823 TAAAGAT-GAA--AA----------AAGGGAAAACTTGACGTATCCCATCTGGCAGTCCATTCGAAAATGTCACTCATTGTTTTCAGTCACTCAGCTTGTGTTCCCAGAGTACCTGGAATGT------------GCTAAAT----------CTTGCAGATGAG
+q felCat3.scaffold_217398 9999999-999--99----------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------9999999----------999999999999
+i felCat3.scaffold_217398 C 0 I 7
+s bosTau3.chr9 13745537 130 - 95030419 TCAAAAT-CAG--AG----------AAGGGGAAACTGGTCTTTTTCCGTCTGGTAATCTGCTGGAAAATGTCCCTCATTC-TTGCAGTCAC----CTTATGTTCATTG----TCTGGAATATGCTACATACTC-TGTAATT----------CTTGTCGATGAC
+q bosTau3.chr9 9999999-999--99----------9999999999999999999999999999999999999999999999999999999-9999999999----9999999999999----999999999999999999999-9999999----------999999999999
+i bosTau3.chr9 C 0 I 7
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=60281.000000
+s mm9.chr10 3209775 60 + 129993255 AAACAGTTACAATCTTATTTCTCAAGGGTGCGCTCAGGGTGCTCTACAGTGATCCATGGG----------------------------
+s rn4.chr1 230027472 47 - 267910886 aaatagttatgaTCTTACTTCTCAAGGGTACGCTCAGG-------------ATCCGTGGG----------------------------
+q rn4.chr1 99999999999999999999999999999999999999-------------999999999----------------------------
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16424088 60 - 174210431 AGTTAGGTGAGAGCCCACTTCTCCCAGGCTCAATCTGGATATTTTATTCTTAATGTTGGG----------------------------
+i ponAbe2.chr6 I 7 I 32
+s panTro2.chr6 16635144 60 - 173908612 AGTTAGGTGAGAGCCCACTTCTCCCAGGCTCAATCTGGATATTTTATTCTTAATGCTGGG----------------------------
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999----------------------------
+i panTro2.chr6 I 7 I 32
+s hg18.chr6 16111159 60 - 170899992 AGTTAGGTGAGAGCCCACTTCTCCCAGGCTCAATCTGGATATTTTATTCTTAATGTTGGG----------------------------
+i hg18.chr6 I 7 I 32
+s tupBel1.scaffold_114895.1-498454 409353 48 - 498454 AGGTAGGAAAGAAGCTGCTTCCCAAGGGCCTGGTCTGGGTGTTTTCCA----------------------------------------
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999999999999999999----------------------------------------
+i tupBel1.scaffold_114895.1-498454 I 7 I 969
+s equCab1.chr31 13067309 60 + 24938454 AGTTGGGTAAGAGCCCACTTCTCAGAGGCTTAAC---------------------CTGGATATTTGACACTTAAATGG-------CAG
+q equCab1.chr31 9999999999999999999999999999999999---------------------99999999999999999999999-------999
+i equCab1.chr31 I 7 C 0
+s canFam2.chr1 78275038 81 - 125616256 GGTTAGATAAGAGCCTACTTCTCAAGGGCTTAATCTGGGTATTTTACTCTAAATGCTGGGTATATTACACTTAAATGG-------CAG
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999-------999
+i canFam2.chr1 I 7 C 0
+s felCat3.scaffold_217398 140727 78 - 219823 AGTTAGGTAAGAGCCCACTTCTCCAGGGCT---TCTGAGTATCTCACCCTAAATGCTGGATATTTTACACATAAATGG-------CAG
+q felCat3.scaffold_217398 999999999999999999999999999999---999999999999999999999999999999999999999999999-------999
+i felCat3.scaffold_217398 I 7 C 0
+s bosTau3.chr9 13745674 88 - 95030419 AGTTAGGTAAGAGCCCACTTCTCAAGGACTTGATCTGAATATTTTATACTTAGTGCTGGATATTTTACACTTAAATGTTAAATGCCAG
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 7 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e rheMac2.chr4 108526804 406 + 167655696 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e calJac1.Contig1260 88452 1130 - 523245 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=49828.000000
+s mm9.chr10 3209835 29 + 129993255 ----------TAGCTCCA-------GGCCAGCTCTTCAAGTGTCAG
+s rn4.chr1 230027519 29 - 267910886 ----------CAGCCCCA-------GGCCAGCCCTTCAAGTGTCAG
+q rn4.chr1 ----------99999999-------999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16111251 28 - 170899992 ----------CAGCTCCA-------GGTCAGCT-TTTGGCTATCAC
+i hg18.chr6 I 32 C 0
+s panTro2.chr6 16635236 28 - 173908612 ----------CAGCTCCA-------GGTCAGCT-TTTGGCTGTCAC
+q panTro2.chr6 ----------99999999-------99999999-999999999999
+i panTro2.chr6 I 32 C 0
+s ponAbe2.chr6 16424180 28 - 174210431 ----------CAGCTCCA-------GGTCAGTT-TTTGGCTATCAC
+i ponAbe2.chr6 I 32 C 0
+s rheMac2.chr4 108527210 28 + 167655696 ----------CAGCTCCA-------AGTCAGCT-TTTGGCTGTCAC
+q rheMac2.chr4 ----------33222258-------28778999-999999999999
+i rheMac2.chr4 I 406 C 0
+s equCab1.chr31 13067369 39 + 24938454 TAGAAAGTGCCAGATCCA-------GGACAGCTTTCCAGCTATCAC
+q equCab1.chr31 999999999999999999-------999999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78275119 46 - 125616256 TAGAAAATGCCAGTTTCCAGCTCTGGAACAGCTTTCCAGCTAGCAG
+q canFam2.chr1 9999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 247
+s felCat3.scaffold_217398 140805 39 - 219823 TAGAAAGTGAGAGCTCCC-------GGATGGCTTTCCAGCTAGCAC
+q felCat3.scaffold_217398 999999999999999999-------999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s bosTau3.chr9 13745762 39 - 95030419 TAGAAAATGCCAGTTCCA-------GGACAGCTTTCTGTCTATCAC
+q bosTau3.chr9 999999999999999999-------999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e calJac1.Contig1260 88452 1130 - 523245 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=51225.000000
+s mm9.chr10 3209864 39 + 129993255 TGGAGTTAATTCTGACTTCCC--TTAGAGGCTTTGGATA-------------AA
+s rn4.chr1 230027548 39 - 267910886 GGGAGGTAGTTGTAATTTCCC--TTAGAGTCTCTGGATG-------------AA
+q rn4.chr1 999999999999999999999--9999999999999999-------------99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16111279 54 - 170899992 TTAAGGTTGCTATGACTTCACTGTCAGAATGTTTTAATGGAAGAAGCCTAGTAT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16635264 51 - 173908612 TTAAGGTTGCTGTGACTTCACTGTCAGAATGTTTTAATG---GAAGCCTAGTAT
+q panTro2.chr6 999999999999999999999999999999999999999---999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16424208 51 - 174210431 TTAAGGTTGCTATGACTTCACTGTCAGAATGTTTAAATG---GAAGCCTAGTAT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108527238 51 + 167655696 TTAAGGTTGCTATGACTTCACTGTCAGAATGTTTTAATA---GAAGCCTAGTAT
+q rheMac2.chr4 999999999999999999999999999999999999999---999999999999
+i rheMac2.chr4 C 0 C 0
+s felCat3.scaffold_217398 140844 41 - 219823 TTAAGGTTGTTGTGACTTCAGAATCAGAATGTTTTAGTG---GA----------
+q felCat3.scaffold_217398 999999999999999999999999999999999999999---99----------
+i felCat3.scaffold_217398 C 0 I 10
+s equCab1.chr31 13067408 41 + 24938454 TTAAGGTCATTATGACTTCAGAGTCACAAAGTTTTAATG---GA----------
+q equCab1.chr31 999999999999999999999999999999999999999---99----------
+i equCab1.chr31 C 0 I 10
+s bosTau3.chr9 13745801 41 - 95030419 TGAAGGTTGCTATGATTTTAGAGTCAGAATGTTTTTATA---AA----------
+q bosTau3.chr9 999999999999999999999999999999999999999---99----------
+i bosTau3.chr9 C 0 I 11
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e canFam2.chr1 78275165 247 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e calJac1.Contig1260 88452 1130 - 523245 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=112604.000000
+s mm9.chr10 3209903 121 + 129993255 GGTGAGCAGTGGTGGTCAGAGATCACCCACTGCTTCTCTACTTAAGCT---------TGCTCCCAGCCTGCA--CTCCAG-GTTGACAGAAAGCCAGC---AGGTTCTTCTTAGCAGAGCCCTGCATTTTCTTAGA
+s rn4.chr1 230027587 106 - 267910886 GGTGAGCAGTGCTAGTCTGAGATCACCCA-----------------CT---------TGCTCCCATCCTGCACTCTCCAG-GCTGACAGAAAGCCAGC---AGGCCCTTCTTAGCAGAGCCCTGCATGTTCTTAGA
+q rn4.chr1 99999999999999999999999999999-----------------99---------99999999999999999999999-99999999999999999---99999999999999999999999999999999999
+i rn4.chr1 C 0 I 487
+s hg18.chr6 16111333 99 - 170899992 GGTGGGTAGCAGTGGATGAAAATCACCCATTGTTTTCACAAGTGAATTATGTCCATATTCTTCAATCTTGGA--CTTGAG-GCTGAAGCAA-----GC--AAGGCCTTC---------------------------
+i hg18.chr6 C 0 I 1033
+s panTro2.chr6 16635315 95 - 173908612 GGTGGGTAGCAGTGGATGAAAATCACCCATTGTTTTCACAAGTGAATTATGTCCATATTCTTCAATCTTGGA--CTTGAG-GCTGAAGCAATGCTTGC--------------------------------------
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999999999999999999--999999-99999999999999999--------------------------------------
+i panTro2.chr6 C 0 I 1128
+s ponAbe2.chr6 16424259 120 - 174210431 GGTGGGTAGCAGTGGATGAAAATCACCCATCATTTTCACAAGTGAATTATGTCCATATTCTTCAATCTTGGA--CTTGAG-GCTGAAGCAATGCTTGCTTGAGGCTGAAGCAAGCAAAGCCTT-------------
+i ponAbe2.chr6 C 0 I 1251
+s rheMac2.chr4 108527289 95 + 167655696 GGTAGGTAGCAGTGGATGAAAATCACCCATTGTTTTCACAAGTGAATTATGTTCATATTCTTCAATCTTGGA--CTTGAG-GCTGAAGCAATGCTTGC--------------------------------------
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999999999999999--999999-99999999999999999--------------------------------------
+i rheMac2.chr4 C 0 I 1076
+s canFam2.chr1 78275412 93 - 125616256 GGTGGGTGGTAGTGGATGGAAATCACCCACTGCATTCCCT--------------ATATTTCTTTATCTTGGA--CTCCAG-GCTGAAACAATGATAGC---AGGCCATCTTAG-----------------------
+q canFam2.chr1 9999999999999999999999999999999999999999--------------999999999999999999--999999-99999999999999999---999999999999-----------------------
+i canFam2.chr1 I 247 I 594
+s felCat3.scaffold_217398 140895 109 - 219823 GGTGGGTGGTAGTCGACAGAAATCACCCACAGCATTCCTT---------------TATTTCTCCATCTTGGA--CTGCAGAGGTGCAGCAATGACAGC---AGACCATCTTAGGCCTA-CGGTGCATTTT------
+q felCat3.scaffold_217398 9999999999999199992334744624311334343112---------------11213132325121333--121324183122345521323676---63764562214556152-32213653733------
+i felCat3.scaffold_217398 I 10 I 832
+s equCab1.chr31 13067459 97 + 24938454 GGAGGGTGGTAGTAGATGGAAATCACCCATGGCGTTCTCAAGGGAATTGTCTCCATATGCCTCTATCTTGCA--CTCCAG-GCTGAAACAATGCCAGT---AG---------------------------------
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999999999--999999-99999999999999999---99---------------------------------
+i equCab1.chr31 I 10 I 625
+s bosTau3.chr9 13745853 95 - 95030419 GGAGGGTTAGAGTGGACAGAATTCACCAACTTCTTTCTCATGTGAATTGTCTCCACACTCCTCTATCTTGGA--CTCCA--GTTGACGCAATGCCAGC---A----------------------------------
+q bosTau3.chr9 999999999999999999999999999999999999999999999999999999999999999999999999--99999--99999999999999999---9----------------------------------
+i bosTau3.chr9 I 11 I 1032
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e calJac1.Contig1260 88452 1130 - 523245 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3210024 8 + 129993255 TGCATGAT
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e rn4.chr1 230027693 487 - 267910886 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745948 1032 - 95030419 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e equCab1.chr31 13067556 625 + 24938454 I
+e rheMac2.chr4 108527384 1076 + 167655696 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e felCat3.scaffold_217398 141004 832 - 219823 I
+e canFam2.chr1 78275505 594 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e calJac1.Contig1260 88452 1130 - 523245 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e hg18.chr6 16111432 1033 - 170899992 I
+e panTro2.chr6 16635410 1128 - 173908612 I
+e ponAbe2.chr6 16424379 1251 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=2498.000000
+s mm9.chr10 3210032 50 + 129993255 GATGGTGCTGATGAGCATGTCCGCGGGGTCAGGCCTAACTTCAGGAGTCC
+s rn4.chr1 230028180 47 - 267910886 GGTGGTGCTGATGAGG--GTCAGCAGGGTCAGACCTA-CCTCAGTAGTCC
+q rn4.chr1 9999999999999999--9999999999999999999-999999999999
+i rn4.chr1 I 487 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745948 1032 - 95030419 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e equCab1.chr31 13067556 625 + 24938454 I
+e rheMac2.chr4 108527384 1076 + 167655696 I
+e dasNov1.scaffold_16647 44351 924 - 51472 I
+e felCat3.scaffold_217398 141004 832 - 219823 I
+e canFam2.chr1 78275505 594 - 125616256 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e loxAfr1.scaffold_33178 5295 492 + 41726 I
+e calJac1.Contig1260 88452 1130 - 523245 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 9317 1089 - 136255 I
+e hg18.chr6 16111432 1033 - 170899992 I
+e panTro2.chr6 16635410 1128 - 173908612 I
+e ponAbe2.chr6 16424379 1251 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=1469.000000
+s mm9.chr10 3210082 49 + 129993255 ACACACAGGT---GCAGGAAGGAACACTCA------------T-TGTTTTAA---------------AAGCAACTGAAGA
+s dasNov1.scaffold_16647 45275 31 - 51472 ---------------------------------ATTCA---CTGTCTTTCAAGTGCCCC--CGGAGAAA-----------
+q dasNov1.scaffold_16647 ---------------------------------43432---222423212333323565--01211172-----------
+i dasNov1.scaffold_16647 I 924 I 15
+s loxAfr1.scaffold_33178 5787 63 + 41726 ACACACAAGGTTTGAAAAAAGGAGCCTAGATAAACTCA---TT-TTTTTAAATTGCCTT--AAGAGAAA-----------
+q loxAfr1.scaffold_33178 99999999999747999998898999999999999999---99-999999999999999--99999999-----------
+i loxAfr1.scaffold_33178 I 492 I 14
+s canFam2.chr1 78276099 74 - 125616256 --ACACATGG---GCAAAAAGGAGCCTAGGTGCATTTGCTGTT-TTCTTTTAGTGCCTCAAAAGAGAAAGAGATTTGAGG
+q canFam2.chr1 --99999999---999999999999999999999999999999-999999999999999999999999999999999999
+i canFam2.chr1 I 594 C 0
+s felCat3.scaffold_217398 141836 74 - 219823 ACACGCAGGA---GCAAAAAGGAGCCTACACTCACTCACTTTT-TTCTTTAAGTGTCTC--AAGAGAAAGAGACTTGAAA
+q felCat3.scaffold_217398 9999999999---999999999999999999999999999999-999999999999999--9999999999999999999
+i felCat3.scaffold_217398 I 832 C 0
+s equCab1.chr31 13068181 58 + 24938454 -------------GCAAAGAGAAGCATTGATACAT------TT-TTTTTTAAGTGCCTC--GAGAGGAAGAGATTTGAGG
+q equCab1.chr31 -------------9999999999999999999999------99-999999999999999--9999999999999999999
+i equCab1.chr31 I 625 C 0
+s otoGar1.scaffold_85251.1-136255 10406 64 - 136255 ACACACAGAG---GCAAAAGGGAAGTTAGATGCACTGA---TT-TTTTTTAAGTGACTT--------AGG-GACTCAAGA
+q otoGar1.scaffold_85251.1-136255 9979996797---7999999999699959999979896---59-898995879899699--------999-697999579
+i otoGar1.scaffold_85251.1-136255 I 1089 C 0
+s calJac1.Contig1260 89582 64 - 523245 ACACACAGGG---ACAAAAAGGAACATAGATAAATTCA----T-TTTTTTAAGTGATGC--------AGGAAACTTGAGA
+i calJac1.Contig1260 I 1130 C 0
+s rn4.chr1 230028227 45 - 267910886 ACACACTGGT---GCAGAAAGGAGCTGAAG------------T-T----TAA---------------AAGCAGCTGAAGA
+q rn4.chr1 9999999999---99999999999999999------------9-9----999---------------9999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745948 1032 - 95030419 I
+e monDom4.chr2 106261457 396 - 541556283 I
+e rheMac2.chr4 108527384 1076 + 167655696 I
+e ornAna1.chr2 14903690 3307 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e echTel1.scaffold_276671 2642 3268 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e hg18.chr6 16111432 1033 - 170899992 I
+e panTro2.chr6 16635410 1128 - 173908612 I
+e ponAbe2.chr6 16424379 1251 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=-23227.000000
+s mm9.chr10 3210131 76 + 129993255 -GGAAGAGGCTCTGGGTTGGTGTC------------GTCCTCCCTGTGTTGAGCTGGATGCTATTCTT-GGGGGAGGCTTTGCCTGTTCT
+s loxAfr1.scaffold_33178 5864 56 + 41726 -----CCATCTCC---CTATGGTT------------------CGCACATG--GCTGGTC-----TCTC-AGGTGAGGCGCTTCTGGTTGT
+q loxAfr1.scaffold_33178 -----89999999---99989999------------------89999989--9979999-----9999-998889999999998999899
+i loxAfr1.scaffold_33178 I 14 C 0
+s echTel1.scaffold_276671 5910 55 - 58026 -----TCATCTCC---CTGTGGGG------------------AGCACA-G--TCCTGTC-----TCTC-AGGTGAGGTGCTTCTGGTTGT
+q echTel1.scaffold_276671 -----99999999---99999999------------------999999-9--9999999-----9999-999999999999999999999
+i echTel1.scaffold_276671 I 3268 C 0
+s monDom4.chr2 106261853 78 - 541556283 GTAG-GAGGTTCA---TTGTTGGCTGGCATCACTGGTCCCTGCATGTATT--ACTAGTC-----TTTC-AGGTGAGCCATGGCTGGTTGT
+q monDom4.chr2 9999-99999999---9999999999999999999999999999999999--9999999-----9999-999999999999999999999
+i monDom4.chr2 I 396 C 0
+s canFam2.chr1 78276173 60 - 125616256 -TAGGCCATCTTC---CCGAGGTG------------------CCCATGGT--GTGGTTC-----TCTC-AGGCAAGGCCCTGCTCATTGT
+q canFam2.chr1 -999999999999---99999999------------------99999999--9999999-----9999-999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 141910 60 - 219823 -TAGACCATCTCC---CAGAGGTA------------------CCCCCTGT--GCTGGTC-----TCTC-AGGTGAGGCACGGCTGGTTGT
+q felCat3.scaffold_217398 -999999999999---99999999------------------99999999--9999999-----9999-999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13068239 60 + 24938454 -TAGGCCATCTCC---CTGTGGTA------------------CCCAGGAT--GCTAGTC-----TCTG-AGGTGAGGCGCTGCTGGTTGT
+q equCab1.chr31 -999999999999---99999999------------------99999999--9999999-----9999-999999999999999999999
+i equCab1.chr31 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10470 44 - 136255 -TGGGCTGTCTCC---CTGGGGGC-------------------CCATGTT--GCTGGTC-----TCTC-AGGTAT---------------
+q otoGar1.scaffold_85251.1-136255 -687879987779---67988856-------------------9996899--7879677-----9799-799988---------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 89646 38 - 523245 -TGAA-------C---ATGG--------------------------------GCTGGTC-----TCTC-AGGTGA-GCACTGCCGGTT--
+i calJac1.Contig1260 C 0 C 0
+s rn4.chr1 230028272 74 - 267910886 -GGAAGAGGCTCTGG-TTGGTGTC-------------CCCTCCCTGTGTTGAGCTGGCTGCTAGTCCT-GGGTGAGGCTCAGCTTGTTCC
+q rn4.chr1 -99999999999999-99999999-------------9999999999999999999999999999999-999999999999999999999
+i rn4.chr1 C 0 C 0
+s ornAna1.chr2 14906997 65 - 54797317 ----------TCTGGACTGATATC-------ACTTCATACTGCACATTTT--GCTAGAC-----TTTC-AGGTGAGCAATAAGCGGTTGT
+i ornAna1.chr2 I 3307 C 0
+s dasNov1.scaffold_16647 45321 51 - 51472 -----------CC---CTGTGGCA------------------TGTATGAT--GTCACTC-----TGTCAAGGTGAGGCCCTGCTCGTTGT
+q dasNov1.scaffold_16647 -----------27---43232242------------------12444332--3452151-----22431251112011742335225142
+i dasNov1.scaffold_16647 I 15 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745948 1032 - 95030419 I
+e rheMac2.chr4 108527384 1076 + 167655696 I
+e tupBel1.scaffold_114895.1-498454 409401 969 - 498454 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e hg18.chr6 16111432 1033 - 170899992 I
+e panTro2.chr6 16635410 1128 - 173908612 I
+e ponAbe2.chr6 16424379 1251 - 174210431 I
+e oryCun1.scaffold_214769 111060 2150 - 139458 I
+
+a score=192412.000000
+s mm9.chr10 3210207 65 + 129993255 TATGGCAACATACGAGATGCTTTTTAAAAAATACCCAGCATAGTTTTCT-------GAGCTTT-CACCTGATG
+s rn4.chr1 230028346 63 - 267910886 TATGGTAACAAATGAGCTGTTTTT--GAGAATACCCAGCACAGTTACCT-------GAGCTTT-CAGCTGATG
+q rn4.chr1 999999999999999999999999--99999999999999999999999-------9999999-999999999
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10514 59 - 136255 TATGGCAGCAGGTTAAGTGATTTC--AAAAGGAACTGTCATAGTTGCCT-------GTGCCTT-GCATT----
+q otoGar1.scaffold_85251.1-136255 996989769799698999999989--99999999999999998997799-------9759997-89997----
+i otoGar1.scaffold_85251.1-136255 C 0 I 11
+s calJac1.Contig1260 89684 58 - 523245 -ATGGGAGCAGGTTAAATGTTTTC--ACAAATAACTGTCACAGTTACCC-------GAGCCTT-GTGTG----
+i calJac1.Contig1260 C 0 I 12
+s hg18.chr6 16112465 57 - 170899992 TACGGTAGCAGGTTAAATGTTTTC--ACAAATAACTCAC--AGTTACCA-------GGGCCTT-GTATG----
+i hg18.chr6 I 1033 I 12
+s ponAbe2.chr6 16425630 58 - 174210431 TATGGTAGCAGGTTAAATGTTTTC--ACAAATAACTGTCA-AGTTACCA-------GGGCCTT-GTATG----
+i ponAbe2.chr6 I 1251 I 12
+s rheMac2.chr4 108528460 40 + 167655696 -------------------TTTTC--ACAAATAACTGTCACAGTTACCA-------GGGCCTT-GTATG----
+q rheMac2.chr4 -------------------99999--99999999999999999999999-------9999999-99999----
+i rheMac2.chr4 I 1076 I 11
+s tupBel1.scaffold_114895.1-498454 410370 40 - 498454 -------------------TTTTC--GAAAATAATTGTCACAGTTACCT-------GTGCACT-GCATT----
+q tupBel1.scaffold_114895.1-498454 -------------------99999--99999999998999999999999-------9968999-99999----
+i tupBel1.scaffold_114895.1-498454 I 969 I 11
+s oryCun1.scaffold_214769 113210 43 - 139458 ----------------ATGCTTCTT-AAAATTAACCCTCACAGTCACCT-------GTGCCTT-ACGC-----
+q oryCun1.scaffold_214769 ----------------423242243-47763443473631424422342-------3314535-4353-----
+i oryCun1.scaffold_214769 I 2150 C 0
+s equCab1.chr31 13068299 59 + 24938454 TAGGGTGACAGGCTAAATGTTTTT--TAAAATAACTGTCACAGTCACCT-------ATGCCTT-GCGTT----
+q equCab1.chr31 999990999999999999999999--99999999999999999999999-------9999999-99999----
+i equCab1.chr31 C 0 I 11
+s felCat3.scaffold_217398 141970 50 - 219823 TACGGTTGCAGGTTAAATGTTTTG--AAAAATAACTGTCACAGTTACAT-------G----------TT----
+q felCat3.scaffold_217398 999999999999999999999999--99999999999999999999999-------9----------99----
+i felCat3.scaffold_217398 C 0 I 11
+s canFam2.chr1 78276233 59 - 125616256 TATGGTGGCAGGTGAAATGTTTTG--AAACACAACTGTCATAGTTACCT-------GTGCCTT-GCATT----
+q canFam2.chr1 999999999999999999999999--99999999999999999999999-------9999999-99999----
+i canFam2.chr1 C 0 I 11
+s dasNov1.scaffold_16647 45372 59 - 51472 TACAGCAGTAGTTTAAATGCTTCT--AAAAATAGCTGTTGCAGTCACCT-------GTGCCTT-GCGTT----
+q dasNov1.scaffold_16647 635425223434944842313211--27684434443135645521121-------4526443-33421----
+i dasNov1.scaffold_16647 C 0 I 11
+s loxAfr1.scaffold_33178 5920 59 + 41726 TATGGCAACAGGTTAGATGTTTTT--AAAAATAGCTGTCACAGTTCTCT-------GTGCCTT-GCGTT----
+q loxAfr1.scaffold_33178 998999999999999998999999--99999999999999999999999-------9999999-99996----
+i loxAfr1.scaffold_33178 C 0 I 11
+s echTel1.scaffold_276671 5965 59 - 58026 TATGGCAACAGCCCAGCTGTTTTT--AAGAGTAACTGCAGCCGCTCTCA-------GGGCTTT-GCGTT----
+q echTel1.scaffold_276671 999999999999999999999999--99999999999999999999999-------9999999-99999----
+i echTel1.scaffold_276671 C 0 I 12
+s monDom4.chr2 106261931 60 - 541556283 TATGGCATCAAGATGAATGTTTTC--AAAAATAGCTGTCACAGTCATGC-------ACACCTTAACGTT----
+q monDom4.chr2 999999999999999999999999--99999999999999999999999-------9999999999999----
+i monDom4.chr2 C 0 I 2
+s ornAna1.chr2 14907062 63 - 54797317 TATAGTTGCAAGTGAG-TGTTTTT--AAAAATATCCCTCACTGTAATCTTTCAACAAAGCTAG-ATA------
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745948 1032 - 95030419 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e panTro2.chr6 16635410 1128 - 173908612 I
+
+a score=142350.000000
+s mm9.chr10 3210272 33 + 129993255 AGCCAAA---------GAC-AGCATTTCTGCAGTTTAACACCG
+s rn4.chr1 230028409 33 - 267910886 GACCAGA---------GGT-AGCGTTTCTGCACGTTAACACCG
+q rn4.chr1 9999999---------999-99999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 113253 29 - 139458 --ACAAA---------GCC---TGTTGCTACAGCTTAGAGCTG
+q oryCun1.scaffold_214769 --34786---------446---155353545553544454344
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16112534 33 - 170899992 AATCAAA---------GGG-AATATTTCTACAGTTTAGGGCTG
+i hg18.chr6 I 12 C 0
+s panTro2.chr6 16636538 33 - 173908612 AATCAAA---------GGG-AATATTTCTCCAGTTTAGGGCTG
+q panTro2.chr6 9999999---------999-99999999999999999999999
+i panTro2.chr6 I 1128 C 0
+s ponAbe2.chr6 16425700 33 - 174210431 AATCAAA---------GGG-AGTATTTCTACAGTTTAGGGCTG
+i ponAbe2.chr6 I 12 C 0
+s rheMac2.chr4 108528511 33 + 167655696 AATCAAA---------GGG-AATATTTCTACAGTTTAGGGCTG
+q rheMac2.chr4 9999999---------999-99999999999999999999999
+i rheMac2.chr4 I 11 C 0
+s calJac1.Contig1260 89754 33 - 523245 AATCAAA---------GGG-AATATCTCTACAGTGTAGGGCTG
+i calJac1.Contig1260 I 12 C 0
+s otoGar1.scaffold_85251.1-136255 10584 33 - 136255 GATCAAA---------GGA-GATATTTCTGCAGTTCAGTGGGG
+q otoGar1.scaffold_85251.1-136255 9999998---------999-99999999999999999999999
+i otoGar1.scaffold_85251.1-136255 I 11 C 0
+s tupBel1.scaffold_114895.1-498454 410421 33 - 498454 AATCAAG---------TGG-AATGTACCAACCGTGTAATGCTG
+q tupBel1.scaffold_114895.1-498454 9899999---------999-99999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 11 C 0
+s equCab1.chr31 13068369 33 + 24938454 AACCAAA---------TGG-AATGTTTCTGCAGTTTAATGCCG
+q equCab1.chr31 9999999---------999-99999999999999999999999
+i equCab1.chr31 I 11 C 0
+s felCat3.scaffold_217398 142031 33 - 219823 AATCAAA---------GAG-ATTGTTTCTAGAGTTTAATGCTG
+q felCat3.scaffold_217398 9999999---------999-99999999999999999999999
+i felCat3.scaffold_217398 I 11 C 0
+s canFam2.chr1 78276303 33 - 125616256 AATCGAA---------GGG-AATGTTTCTACAGTTGAATGTTG
+q canFam2.chr1 9999999---------999-99999999999999999999999
+i canFam2.chr1 I 11 C 0
+s dasNov1.scaffold_16647 45442 33 - 51472 -AGTGGA---------GGGAAATGTTTGTACAATTCCGTGATG
+q dasNov1.scaffold_16647 -322345---------565475234644345113554424435
+i dasNov1.scaffold_16647 I 11 C 0
+s loxAfr1.scaffold_33178 5990 32 + 41726 -ACCAGA---------GGG-AATGTTTCTATAGTTGAGTGCTG
+q loxAfr1.scaffold_33178 -999998---------899-99699999999998899889879
+i loxAfr1.scaffold_33178 I 11 C 0
+s echTel1.scaffold_276671 6036 30 - 58026 -ACCCGG---------CGG---TGCGTCTGCTGCTGGGAACTG
+q echTel1.scaffold_276671 -999999---------999---999999999999999999999
+i echTel1.scaffold_276671 I 12 I 3
+s monDom4.chr2 106261993 41 - 541556283 -ACCAAATTACATCCTGTG-AATATTTCCACTCTTTAATATCT
+q monDom4.chr2 -999999999999999999-99999999999999999999999
+i monDom4.chr2 I 2 C 0
+s ornAna1.chr2 14907125 33 - 54797317 AGTCAGT---------GAT-GATTTCCATGCTTTTCTATGCCG
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13745948 1032 - 95030419 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=283041.000000
+s mm9.chr10 3210305 61 + 129993255 CCTGC----TAATTTC-TTGTTGAGCCTGTCGCAGC--AGCCAAGTGAGAAAA----ATCCAGC--AAGTGTGT
+s rn4.chr1 230028442 65 - 267910886 CCTGCCTGCTAATTCC-TTGTTGAGCCTGTCGCAGC--AGCCGGGTGAGAACA----ATCCAGC--AAGTGTGT
+q rn4.chr1 9999999999999999-9999999999999999999--999999999999999----9999999--99999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 113282 60 - 139458 CTGCC----CAGTTCC-TTGTTGAGCCTGCTACAAC--AACGGAGTGAGAAAA----GT-CAGT--AAGCATGT
+q oryCun1.scaffold_214769 44557----6446611-1355355236173635566--433656667677995----77-8666--66686479
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16112567 58 - 170899992 CTTGT----TAATTTC-CCGTTGAGCCTGTCACAAC--AATTTA--GAGAAAC----TT-CAGC--CAGTGTGT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16636571 58 - 173908612 CTTGT----TAATTTC-CCGTTGAGCCTGTCACAAC--AATTTA--GAGAAAC----TT-CAGC--CAGTGTGT
+q panTro2.chr6 99999----9999999-9999999999999999999--999999--9999999----99-9999--99999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16425733 58 - 174210431 CTTGT----TAATTTC-CCATTGAGCCTGTCACAAC--AATTTA--GAGAAAC----TT-CAGC--CAGTGTGT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108528544 58 + 167655696 CTTGT----TAATTTC-CCGTTGAGCCTGTCACAAC--AATTTA--GAGAAAC----TT-CAGC--CAGTGTGT
+q rheMac2.chr4 99999----9999999-9999999999999999999--999999--9999999----99-9999--99999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 89787 58 - 523245 CATGT----TAATTTC-TGGTTGAGCCTGTCACAGC--AGTTTA--GAGAAAC----TT-CAGC--CAGTGTGT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10617 60 - 136255 CTTGG----TAATTTG-TTGTTGAGTC--TCTCAAC--AGCGTT--GAGTGACGTAATT-CAGG--GAAGGTGT
+q otoGar1.scaffold_85251.1-136255 99799----9999989-9999999799--9999999--999999--9999999999999-9999--99999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 410454 57 - 498454 CTTGC----TCATTTC-TTGTGGAGCCTATGATAAC--AGTTAGGTGAGAACA----TT-CAT-----GTGTAT
+q tupBel1.scaffold_114895.1-498454 99999----9999999-9999999999999999999--999999999999999----99-999-----999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78276336 60 - 125616256 CTTGC----TCGTTTC-CTGCTGAGCCTATCCCAAC--AGTTGAGCAAGAACA----TT-TAGT--GAGAATGT
+q canFam2.chr1 99999----9999999-9999999999999999999--999999999999999----99-9999--99999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 142064 60 - 219823 CTCGC----TCATTTC-TTGCTGAGCCCATCAGAAC--AGTTGAGTGAGAAGA----TC-CAGC--AAGGATGT
+q felCat3.scaffold_217398 99999----9999999-9999999999999999999--999999999999999----99-9999--99999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13068402 59 + 24938454 CTC-C----TCATTTC-TTGTTGAACCTCTCACAAG--AGCTGAGGGAGAAAA----TT-CAGC--AGGTGTGT
+q equCab1.chr31 999-9----9999999-9999999999999999999--999999999999999----99-9999--99999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13746980 63 - 95030419 CCTGC----TCATTTCAATGTTGAGCCTATCACAAC--AGCTGAGTGAGAAAG----TT-CAGCTAAAGGGTGT
+q bosTau3.chr9 99999----999999999999999999999999999--999999999999999----99-99999999999999
+i bosTau3.chr9 I 1032 C 0
+s dasNov1.scaffold_16647 45475 60 - 51472 CTTGC----TCACTTC-GTGTTGAGACTGTCACAGC--AGCTGAGTGAGAGAA----TG-TAGC--AAAGATGT
+q dasNov1.scaffold_16647 44364----3552153-5345453534345437456--445455334454656----36-5556--48466335
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 6022 59 + 41726 -TTGC----TTCTCTC-TTGTTGAGCCTATCACAGC--AGTCGAGTGAGAAAA----CT-CAGC--AAGTGTGT
+q loxAfr1.scaffold_33178 -9999----9999999-9998699999999999999--999799858999999----99-9758--78779989
+i loxAfr1.scaffold_33178 C 0 C 0
+s echTel1.scaffold_276671 6069 62 - 58026 CTGGC----TCCTTTC-TCGTGGCTTCAGTTTCAGCCACGGGGAGCCAGAACC----CT-CCGC--CAATGCGT
+q echTel1.scaffold_276671 99999----9999999-999999999999999999999999999999999999----99-9999--99999999
+i echTel1.scaffold_276671 I 3 C 0
+s monDom4.chr2 106262034 52 - 541556283 CTTGC----TTAATTC-TTGTTGCG--TGCCACATC--TGTTGGGTGAGAGAG-------------AAGTGTGT
+q monDom4.chr2 99999----9999999-99999999--999999999--999999999999999-------------99999999
+i monDom4.chr2 C 0 I 5312
+s ornAna1.chr2 14907158 50 - 54797317 CTTGC----TCATTTT-GTGCAGAATCTGTCATGGC------TGGTAAGAACA----TT-CATT--GT------
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=51676.000000
+s mm9.chr10 3210366 47 + 129993255 TT-GAGTCTGGTTG-----CCTGGCCTCATGTTCAAAGG-----TGCTA-TTTTG----CCCT------
+s rn4.chr1 230028507 48 - 267910886 TTTGAGTCAGGTTG-----CCTGCCCCCACGTTCAGAGG-----TGCTA-TTTTG----CCCT------
+q rn4.chr1 99999999999999-----99999999999999999999-----99999-99999----9999------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 113342 45 - 139458 CTTAAGTGTTACCC-----CTCCTCCCCATGTTCAAAGG-----TGCAG-TTT-------CTT------
+q oryCun1.scaffold_214769 69696669876899-----68868899986678789677-----58966-999-------798------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16112625 49 - 170899992 CTTGGGTCTCATTGCTGTCCCTCTCCCTGTGTTCAAAGG-----TGCTA-TTTTT--------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16636629 49 - 173908612 CTTGGGTCTCATTGCTGTCCCTCTCCCTGTGTTCAAAGG-----TGCTA-TTTTT--------------
+q panTro2.chr6 999999999999999999999999999999999999999-----99999-99999--------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16425791 49 - 174210431 CTTGGGTCTCATTGCTGTCCCTCTCCCCATGTTCAAAGG-----TGCTA-TTTTT--------------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108528602 46 + 167655696 CTTGGGTC---TTGCTATCCCTCTCCCCGTGTTCAAAAG-----TGCTA-TTTTT--------------
+q rheMac2.chr4 99999999---9999999999999999999999999999-----99999-99999--------------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 89845 49 - 523245 CTTGGGTCTCATTGCTGTCCCTTTCCCTGTGTTCGAAGT-----TGCTA-TTTTT--------------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10677 50 - 136255 CTTGGGTATAGCTGGTGTTCTTCTCCCCATGTTCAAACG-----TACTGTTTTTT--------------
+q otoGar1.scaffold_85251.1-136255 999879999999999999999999999999999999989-----99999999999--------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 410511 53 - 498454 TTTGAGGTTAGTTGTTGCACCTCCTTGGATATACAAAGA-----GGCAA-CTTTCTTCT----------
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999989999999999999-----99999-999999999----------
+i tupBel1.scaffold_114895.1-498454 C 0 I 963
+s canFam2.chr1 78276396 47 - 125616256 CTTGAGTTTGGTTGCTGCCCTCCTGACCATGTTCAGAGG-----TGCTA-TTT----------------
+q canFam2.chr1 999999999999999999999999999999999999999-----99999-999----------------
+i canFam2.chr1 C 0 I 5
+s felCat3.scaffold_217398 142124 47 - 219823 CTTGGGTTTAGTTGCTGCCCTCCTGACTTCATTCAAAAG-----TGCTA-TCT----------------
+q felCat3.scaffold_217398 999999999999999999999999999999999999999-----99999-999----------------
+i felCat3.scaffold_217398 C 0 I 526
+s equCab1.chr31 13068461 47 + 24938454 CTTGGGTTTTATGGCTG-CCTCCTTACCGTGTTCAAAGG-----TGCTA-TTT---------T------
+q equCab1.chr31 99999999999999999-999999999999999999999-----99999-999---------9------
+i equCab1.chr31 C 0 I 5
+s bosTau3.chr9 13747043 47 - 95030419 CTTGAGTTTAGTTGCTACCCCCATCACTGTGTTCAAAGG-----TGCTA-TTT----------------
+q bosTau3.chr9 999999999999999999999999999999999999999-----99999-999----------------
+i bosTau3.chr9 C 0 I 4
+s dasNov1.scaffold_16647 45535 51 - 51472 CCTGAATCTTACTTGTTACCCCCTCCCTGTGTTCCAAGGTGCTGTATTA-TT-----------------
+q dasNov1.scaffold_16647 1216526245451465545787555964424122323624654555565-69-----------------
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 6081 36 + 41726 CCTGAGTTTTACTTGCTGCCCCTCCCCT-TGTGTTCA--------------------------------
+q loxAfr1.scaffold_33178 9756989999995668765998777865-25233476--------------------------------
+i loxAfr1.scaffold_33178 C 0 I 444
+s echTel1.scaffold_276671 6131 38 - 58026 CCCAAGTGGGACTGGCCGCCACTTCTCA-TGCTCCGAGG------------------------------
+q echTel1.scaffold_276671 9999999999999999999999999999-9999999999------------------------------
+i echTel1.scaffold_276671 C 0 I 1189
+s ornAna1.chr2 14907208 43 - 54797317 --------TAATGTCTAGGCTTGTTCTTA----CAAGGC-----TAATT-TTTTG--------AAACCT
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=310137.000000
+s mm9.chr10 3210413 88 + 129993255 CAGGT--AACTG--T-AAACT----GAAGTTTCACCCACTCATATACGTTACAAAATTAATTATAGTGACCTAGA---TAATGTTT------AATTAGAAACCAGA----
+s rn4.chr1 230028555 89 - 267910886 CAGAT--AACTG--T-AAATT---TGAAGTTTCGCCCACTCACATATGTTACAAAATTAATTATTGTGACCTAGA---AAATGTCT------AATTAGAAACCAAA----
+q rn4.chr1 99999--99999--9-99999---999999999999999999999999999999999999999999999999999---99999999------99999999999999----
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 113387 100 - 139458 AAAGTGCAGTGG--T-AAATTATTTGAAAATTCAACCGATTACTTAAGTTACAAAATTAAATACTCCGGCCTAGG---TAATATTTGGTTAGAATTTGAAACAAAA----
+q oryCun1.scaffold_214769 799668977688--7-99989999467998899969697999999979997999989899799499899989799---9999999699997999994999999998----
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16112674 98 - 170899992 TGGAT--ATTTG--G-AAATTGTTTGAAGATTTAGCCAGTAATGTAAGTTAGAAAATTAAATCCTCTATTCTAGA---TAATGTTTGATTAGAATTTGAAATCCAA----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16636678 98 - 173908612 TGGAT--ATTTG--G-AAATTGTTTGAAGATTTAGCCAGTAATGTAAGTTAGAAAATTAAATCCTCTATTCTAGA---TAATGTTTGATTAGAATTTGAAATCCAA----
+q panTro2.chr6 99999--99999--9-99999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999----
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16425840 98 - 174210431 TGGAT--ATTTG--G-AAATTGTTTGAAGATTCAGTCAGTAATGTAAGTTAGAAAATTAAATCCTCTATTCTAGA---TAATGTTTGATTAGAATTTGAAATCCAA----
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108528648 98 + 167655696 TGGAT--AGTTG--G-AAATTGTTTGAAGATTCAGCCAGTGATGTAAGTTAGAAAATTAAATACTCTGTTCTAGA---TAAGGTTTGATTAGAATTTGAAATCCAA----
+q rheMac2.chr4 99999--99999--9-99999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999----
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 89894 86 - 523245 TGGAT--AGTTG--G-AAATTGTTTGAAGATTCAGCCTGTTATGTAAGTTAGAAAATTACATACTCT---------------GTTTGACTAGAATTTGAAATCCAA----
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10727 97 - 136255 TAGAT--AGTTG--T-GAATTGTTTAAAGATTCAACTAGTTACATGGGTTA-CAAATTAAATACTCTGGCCTAGA---TAATGTTTGATTAGAATTTGAAATGAAA----
+q otoGar1.scaffold_85251.1-136255 99999--99999--9-99999999999999999999999999999999999-99999999999999999999999---9999999999999999999999999999----
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s canFam2.chr1 78276448 99 - 125616256 AAGAT--AATTG--TAAATATGTCTGAAGATTCAGTCAGTTACATAAGTCACCAAGTAAAATACTCTGGCCTAGA---TAACATTTGATGGTAATTTGAAATCAAG----
+q canFam2.chr1 99999--99999--9999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999----
+i canFam2.chr1 I 5 C 0
+s equCab1.chr31 13068513 98 + 24938454 AGGAT--AGTTG--T-AATCTGTTTCAAGATTCAGCCAGTTACATAAGTTATCAAATAAAACACTCTGGCCTAGG---TAACGTTTGATTATAATTTGAAATCAAA----
+q equCab1.chr31 99999--99999--9-99999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999----
+i equCab1.chr31 I 5 C 0
+s bosTau3.chr9 13747094 94 - 95030419 AGGAT--GGTTG--T-AAATTGCTTGAAGATT----CAGTTATATAAGTCACAAAATAAAACATTCTGGCTTCAA---TAACAGTTGATTAGAATTTGAAATCAAA----
+q bosTau3.chr9 99999--99999--9-9999999999999999----999999999999999999999999999998833321133---2887999999999999999999999999----
+i bosTau3.chr9 I 4 C 0
+s dasNov1.scaffold_16647 45586 87 - 51472 TGGAT--AGTTG--T-AAATTGCTTGAAGGTTCAGGCAGTTACATATGTAACAAAATAAAATACTCTG--------------GTTTGACTATAATTTTAGATCAAA----
+q dasNov1.scaffold_16647 35556--65635--5-5965455545534253555575456585553665585875849967438424--------------659455566555588556355585----
+i dasNov1.scaffold_16647 C 0 I 974
+s ornAna1.chr2 14907251 101 - 54797317 TAAAT--ATCAGACT-AAATCATCCCACAAGTT------TCACCTAAACTGCTCAGTCAGATACTTCGATCCAGAATTTGATGGCTCCTGAAAACAATATATAAAATATA
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=67737.000000
+s mm9.chr10 3210501 36 + 129993255 GA-TTTATCTTTTCTGCTT--CACTGTGTGAAATG---------TATT
+s rn4.chr1 230028644 36 - 267910886 GT-TTCATCCTTTCTCCTT--CATCTTGTGATGCG---------TCTT
+q rn4.chr1 99-9999999999999999--99999999999999---------9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 113487 40 - 139458 GG-TTTATCCTATCTTCTT--TTCTTGGTCATATGAGA-----TATTT
+q oryCun1.scaffold_214769 99-9996999979999999--99995999999989999-----99999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16112772 45 - 170899992 GG-TTTATCTTTTCTTCTT--CTCTTAGTCATATATGAGATACCTTCA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16636776 45 - 173908612 GG-TTTATCTTTTCTTCTT--CTCTTAGTCATATATGAGATACCTTCA
+q panTro2.chr6 99-9999999999999999--999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16425938 45 - 174210431 GG-TTTATCTTTTCTTCTT--CTCTTAGTCATATATGAGATACCTTCA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108528746 45 + 167655696 GG-TTTGTCCTTTCTTCTT--CTCTTAGTCATATGTGAGATACCTTCA
+q rheMac2.chr4 99-9999999999999999--999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 89980 45 - 523245 GG-CTTATCCTTTCTTCTT--TTCTCAGTCATACATGAGATTCCCTCA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10824 37 - 136255 GC-CCTATTCTTTCTGCTT--TTTTTGTTCATATATGAGA--------
+q otoGar1.scaffold_85251.1-136255 99-9999999999999999--9999999999999999999--------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s canFam2.chr1 78276547 42 - 125616256 GGTTTTATCCTTTTCTTTG--CTTTTGCTCGTAGG--AGATACCTT--
+q canFam2.chr1 9999999999999999999--99999999999999--999999999--
+i canFam2.chr1 C 0 I 2
+s equCab1.chr31 13068611 41 + 24938454 GG-TTTATTCTTTCCTTCT--CTTTTGCTCCTTTG--AAATGTCTT--
+q equCab1.chr31 99-9999999999999999--99999999999999--999999999--
+i equCab1.chr31 C 0 I 2
+s bosTau3.chr9 13747188 41 - 95030419 GT-TTCATCCTTTCCTTCT--CTTTTGATCATATG--AAGTATCTT--
+q bosTau3.chr9 99-9999999999999999--99999999999999--999999999--
+i bosTau3.chr9 C 0 I 780
+s ornAna1.chr2 14907352 34 - 54797317 GC-AATATCTTTTCCCTTTAGCTCTTTGACTTGTG-------------
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=31110.000000
+s mm9.chr10 3210537 34 + 129993255 AAACAGAAAGTT-----TTCATTCACTCA-GTGAACAAGA
+s rn4.chr1 230028680 33 - 267910886 AAA-ACAGAGTT-----TTCATTCACTTA-ATGAACAAGA
+q rn4.chr1 999-99999999-----999999999999-9999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 113527 34 - 139458 AAACAAAGATTT-----TTTAATTCATTA-ATATACGAGA
+q oryCun1.scaffold_214769 999999999999-----999999999999-9999999999
+i oryCun1.scaffold_214769 C 0 I 555
+s hg18.chr6 16112817 40 - 170899992 ACATAAAGAGTTCTAGGCTAGGTGGCTGATATGAACAAGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16636821 40 - 173908612 ACATAAAGAGTTCTAGGCTAGGTGGCTGATATGAACAAGA
+q panTro2.chr6 9999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16425983 32 - 174210431 ACAT---GAGTT-----CTAGGTGGCTTATATGAACAAGA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108528791 34 + 167655696 ACAT-AGGAGTT-----CTAGATGGCTTATATGAACAAGA
+q rheMac2.chr4 9999-9999999-----99999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 90025 35 - 523245 ACACAAAGAGTT-----CTAGGTTGCTTATATGAACAAGA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 10861 26 - 136255 --ACAAAACGTT------------GCCTATATGAACAAGA
+q otoGar1.scaffold_85251.1-136255 --9999999999------------9999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s canFam2.chr1 78276591 34 - 125616256 ACGTAGAGAGTG-----CTAGTTTCATTCGTTGAAC-AGA
+q canFam2.chr1 999999999999-----9999999999999999999-999
+i canFam2.chr1 I 2 C 0
+s equCab1.chr31 13068654 35 + 24938454 ACTTTAAGAGTT-----CTAGTTTGATTAAATCAACAAGA
+q equCab1.chr31 999999999999-----99999999999999999999999
+i equCab1.chr31 I 2 C 0
+s ornAna1.chr2 14907386 30 - 54797317 -----GGTAAGT-----Gtatatatattatatatatttgt
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13747229 780 - 95030419 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=44149.000000
+s mm9.chr10 3210571 55 + 129993255 ATGTTCTTGGCACCATGTT-------TGGCTTACATCCTTTTAT-GGACTTTTTGTTGT---TTTT
+s rn4.chr1 230028713 62 - 267910886 ATGCTCCTTGCACCACGTCTGACAAGTGGCCTGTGTCCTTTTAC-GGTCTTTTTGTTGT---TGTA
+q rn4.chr1 99999999999999999999999999999999999999999999-99999999999999---9999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16112857 44 - 170899992 ACACCATGAGCAAAATATTTGACAAATGGATTATATCCCTTTAT----------------------
+i hg18.chr6 C 0 I 481
+s panTro2.chr6 16636861 44 - 173908612 ACACCATGAGCAAAATATTTGACAAATGGATTATATCCCTTTAT----------------------
+q panTro2.chr6 99999999999999999999999999999999999999999999----------------------
+i panTro2.chr6 C 0 I 878
+s ponAbe2.chr6 16426015 58 - 174210431 ACACCA----CAAAATATTTGACAAATGGATTATATCCCTTTATATATAttttttctttttt----
+i ponAbe2.chr6 C 0 I 466
+s rheMac2.chr4 108528825 59 + 167655696 ACACCGTGAGCAAAATATTTGACAAATGGATTATATCCCTTTATATATATTTTTGTTGC-------
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999-------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 90060 59 - 523245 ACATCGTGAGCAAAATATTTGACAAATGGATTATATCCCTTTATATATATATTTGTTGT-------
+i calJac1.Contig1260 C 0 I 936
+s otoGar1.scaffold_85251.1-136255 10887 57 - 136255 ATCCTGTGAGCAAAGTATTTGACAACTAGATTATATTTTAGTGTACATATTTTTGTT---------
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999999999999999999999999999999999---------
+i otoGar1.scaffold_85251.1-136255 C 0 I 431
+s canFam2.chr1 78276625 48 - 125616256 ATATTATGGGCAAAATAGCTAATGAATAGATTATATCT--------AGGTATTTAT----------
+q canFam2.chr1 99999999999999999999999999999999999999--------9999999999----------
+i canFam2.chr1 C 0 I 2
+s equCab1.chr31 13068689 52 + 24938454 ATACTATGGGCAAAATATTTGACAAATAAATTACATCTATATATTGatatat--------------
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999--------------
+i equCab1.chr31 C 0 I 440
+s ornAna1.chr2 14907416 34 - 54797317 --------------atattca----------tatatgtgtatatatacatTATGATTA--------
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13747229 780 - 95030419 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=-2498.000000
+s mm9.chr10 3210626 41 + 129993255 AAGCAATAGCTTTCAGAA---AGTACTAGACATACTTTTAAAA----------------a-----
+s rn4.chr1 230028775 57 - 267910886 AAGCAATGGCTTTCAGAA---GGAACAAAGCATGCTTTGAAAAAAAAAAGATTTATTCTA-----
+q rn4.chr1 999999999999999999---999999999999999999999999999999999999999-----
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108528884 38 + 167655696 -AGCAATGG--TAAATTA---ATAACCAGGCATTATTTGAAGG----------------A-----
+q rheMac2.chr4 -99999999--9999999---9999999999999999999999----------------9-----
+i rheMac2.chr4 C 0 I 101
+s canFam2.chr1 78276675 41 - 125616256 GCACAAATATGTGCAGAG---AGAGCTATATATGCATGTATAT----------------A-----
+q canFam2.chr1 999999999999999999---9999999999999999999999----------------9-----
+i canFam2.chr1 I 2 I 118
+s ornAna1.chr2 14907450 47 - 54797317 --AAGATAGTATGCAGGAGATATAGCCATGCATGCTtatatat----------------gtcata
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13747229 780 - 95030419 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e equCab1.chr31 13068741 440 + 24938454 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 10944 431 - 136255 I
+e hg18.chr6 16112901 481 - 170899992 I
+e panTro2.chr6 16636905 878 - 173908612 I
+e ponAbe2.chr6 16426073 466 - 174210431 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=2090.000000
+s mm9.chr10 3210667 35 + 129993255 tgtgcatgtgtct---------tgcctgcatgtatgtctgtgtg
+s rn4.chr1 230028832 32 - 267910886 tgtgcatcgg------------tgtatgcctgcctgtgtgcgcg
+q rn4.chr1 9999999999------------9999999999999999999999
+i rn4.chr1 C 0 C 0
+s ornAna1.chr2 14907497 44 - 54797317 tgtgtgtgtgtatacatatatatgtctatatacatatttgtgtg
+i ornAna1.chr2 C 0 I 957
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13747229 780 - 95030419 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e equCab1.chr31 13068741 440 + 24938454 I
+e rheMac2.chr4 108528922 101 + 167655696 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e canFam2.chr1 78276716 118 - 125616256 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 10944 431 - 136255 I
+e hg18.chr6 16112901 481 - 170899992 I
+e panTro2.chr6 16636905 878 - 173908612 I
+e ponAbe2.chr6 16426073 466 - 174210431 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=11642.000000
+s mm9.chr10 3210702 211 + 129993255 aaggcgccagtttctttggaactagagttgcagacagttgtgggataccatgtgggacttgaacctaggtcctctggaagagcacccagtgttcctaactgcagaaacatctctccagccccAC----------------------------------------ATATGATGCATATtgtgtgtgtgtat-------------aggatgtgtatgttcatgtgcatatttaccagtgtgattgtggatgtatgtgtgtatattc
+s rn4.chr1 230028864 264 - 267910886 aaggtgcctgattctccagaactggagtcataggcagttgtgggacaccatgtgggacttgaacctaggtcctcaggaagagcagccagtgctcctggctacaggaacatgtctccagcccTACAGTCCTCTCTTTTTAAAAATCGTTCTGCATCAAGGTGTGTATGCGATGCATTTTGTGTGTGTGTATAATGTTGTGTGTCAGTGTGCTTTCATTTGTGTATATGATCACCAGTGTGATTGTGGATGCATGTGTGTATATTG
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13747229 780 - 95030419 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e equCab1.chr31 13068741 440 + 24938454 I
+e rheMac2.chr4 108528922 101 + 167655696 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e canFam2.chr1 78276716 118 - 125616256 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 10944 431 - 136255 I
+e hg18.chr6 16112901 481 - 170899992 I
+e panTro2.chr6 16636905 878 - 173908612 I
+e ponAbe2.chr6 16426073 466 - 174210431 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=2541.000000
+s mm9.chr10 3210913 47 + 129993255 ctgtaggtgtgcatatgccaccgtgtgtgtgtgtgtgtgtgtgtgtg
+s rn4.chr1 230029128 47 - 267910886 CCATGGGTGTGCGTATGCCACtgtgtgtgtgcgagtacgtgtgtgtg
+q rn4.chr1 99999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 374
+s canFam2.chr1 78276834 24 - 125616256 CTATAGAAGTCCATTTTCTATTGT-----------------------
+q canFam2.chr1 999999999999999999999999-----------------------
+i canFam2.chr1 I 118 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e bosTau3.chr9 13747229 780 - 95030419 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e equCab1.chr31 13068741 440 + 24938454 I
+e rheMac2.chr4 108528922 101 + 167655696 I
+e dasNov1.scaffold_16647 45673 974 - 51472 I
+e felCat3.scaffold_217398 142171 526 - 219823 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e loxAfr1.scaffold_33178 6117 444 + 41726 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 10944 431 - 136255 I
+e hg18.chr6 16112901 481 - 170899992 I
+e panTro2.chr6 16636905 878 - 173908612 I
+e ponAbe2.chr6 16426073 466 - 174210431 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=106767.000000
+s mm9.chr10 3210960 77 + 129993255 tTGGTCTGTTAACTTCTTATTTGAGTAGCATCATAGTGATATGTAAAACAAGATAGAA-----ATAAGATTT----------GTGTTTGTA----------------------------A
+s rn4.chr1 230029549 71 - 267910886 ----TCTGTTAGCTTCTTATTTTAATAGGATCATGGTGATATGTAAAACAAGATAGAA-----AAATGATTT----------GT--TTGTA----------------------------G
+q rn4.chr1 ----999999999999999999999999999999999999999999999999999999-----999999999----------99--99999----------------------------9
+i rn4.chr1 I 374 C 0
+s rheMac2.chr4 108529023 90 + 167655696 ----CCCACCAACTTTCTATTTTAGCAGCATTGCAATAATACGGAAAAG----TAGAATAAGAACGACATTT----------AG--TTTTAAT----------AAGGAAACGAGATGACA
+q rheMac2.chr4 ----999999999999999999999999999999999999959999999----9999999999999999999----------99--9999999----------99999999999999999
+i rheMac2.chr4 I 101 C 0
+s hg18.chr6 16113382 93 - 170899992 -----CCACCAACTTTCTATTTTAACAGCATTGCAATAATATGTAAAAGAAGATAGAATGAGAACAACATTT----------AG--TTTTAAT----------AAGGAAACGAGATGACA
+i hg18.chr6 I 481 C 0
+s otoGar1.scaffold_85251.1-136255 11375 83 - 136255 ---------CAACTTTCTATTTTAATAGCCTTGTGATGA-----AAAACAAGATTGAATGAAAATAAGATTT----------CA---TTTAAT----------AAGCGAATGGGATGGTA
+q otoGar1.scaffold_85251.1-136255 ---------999999999999999999999999999999-----9999999999999999999999999999----------99---999999----------99999999999999999
+i otoGar1.scaffold_85251.1-136255 I 431 C 0
+s panTro2.chr6 16637783 88 - 173908612 ----------AACTTTCTATTTTAACAGCATCGCAATAATATGTAAAAGAAGATGGAATGAGAACAACATTT----------AG--TTTTAAT----------AAGGAAACGAGATGACA
+q panTro2.chr6 ----------99999999999999999999999999999999999999999999999999999999999999----------99--9999999----------99999999999999999
+i panTro2.chr6 I 878 C 0
+s ponAbe2.chr6 16426539 88 - 174210431 ----------AACTTTCTATTTTAACAGCATTGCAATAATATGTAAAAGAAGATGGAATGAGTACAACATTT----------AG--TTTTAAT----------AAGGAAATGAGATGACA
+i ponAbe2.chr6 I 466 C 0
+s felCat3.scaffold_217398 142697 98 - 219823 --------TCATCTTTCTATTTTAATAGCATTGTGATAATGTGTAAAATAAGGTTGAGT--AAATAAGGTTT----------AA--TTTGAATAATTGCTTAAAAGGAGATGggatgaca
+q felCat3.scaffold_217398 --------674666964665764586679736867886313486898236848446796--99795999674----------75--5857999985577789999979986999967999
+i felCat3.scaffold_217398 I 526 C 0
+s canFam2.chr1 78276858 100 - 125616256 ------CACCATTTTTCTATGTGAATAGCATTGTGATAATGAGTAAAGCAAGGTTGAGT--AAACAAGGTTT----------AG--TTTTAATAATTGCTTAAAAGGAGATGGGATGACA
+q canFam2.chr1 ------99999999999999999999999999999999999999999999999999999--99999999999----------99--9999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13748009 99 - 95030419 ---------TATCTTTCTATTTTAGCAATGTGATGATAACATGTAAAACAAGTTTGAGTAAAATAAAGAGTT----------AG--TTTTAATAATCACATAAAAAGCAATTATGTGACA
+q bosTau3.chr9 ---------999998899999999999999999999999999999999999999999999999999999999----------99--9999999999999999999999999999999999
+i bosTau3.chr9 I 780 C 0
+s equCab1.chr31 13069181 108 + 24938454 ccagcccACCATCTTTCTATTTTAATAGCATTGTGATAACATATAAAACGAAGTTGAGTAAAAATAAGATTT----------AG--TTTTAATAATTACTTAAAAGGAAATGgggtgata
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999999999----------99--9999999999999999999999999999999909
+i equCab1.chr31 I 440 C 0
+s dasNov1.scaffold_16647 46647 28 - 51472 ----------------------------------------ATTTGAAAGA----TAAGAAAATAGGATGTCA------------------------------------------------
+q dasNov1.scaffold_16647 ----------------------------------------9999999999----999999999999999999------------------------------------------------
+i dasNov1.scaffold_16647 I 974 C 0
+s loxAfr1.scaffold_33178 6561 65 + 41726 -----------------TATTTTAGTAGCATTGTGATAGCAAATAAAACAAGATTGAGTAAATATAAGATTAGTTTTATTAA--------------------------------------
+q loxAfr1.scaffold_33178 -----------------65799999999999999999996999999999779999999999999999999999999999999--------------------------------------
+i loxAfr1.scaffold_33178 I 444 I 174
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=167018.000000
+s mm9.chr10 3211037 56 + 129993255 GAATTACAGTGAT--C-CTTACAAGTT-TAACAGTTTACCTACTTTTGCAAGGTGAATGC
+s equCab1.chr31 13069289 59 + 24938454 gagttgccatgatgatctttacatgtt-aaacagtgggtcaactttgacaagattagttt
+q equCab1.chr31 999999999999999999999999999-99999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13748108 59 - 95030419 GAGTTACAGTGACCATCTTTACATGTT-AAGCAGTTGGTCAGCTTTTACAAGATTAATTT
+q bosTau3.chr9 999999999999999999999999999-99999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78276958 59 - 125616256 GGGTTACAGTGATGATCTTTACATTTT-CAGCACTTTGTCAGCTTTTACAAGATATATAT
+q canFam2.chr1 999999999999999999999999999-99999999999999999999999999999999
+i canFam2.chr1 C 0 I 197
+s felCat3.scaffold_217398 142795 59 - 219823 gagttacagtgatgatctttacatggt-aagcagttggtcagcttttgtaaaattaattt
+q felCat3.scaffold_217398 899997989999998999999979977-99999999799999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s ponAbe2.chr6 16426627 58 - 174210431 GAGTTACAAAGATGAT-TTTCCATGTT-GAACAGTTGGTCAGCTTTTATGAGATTAATTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16637871 58 - 173908612 GACTTACAAAGATGAT-TTTCCACGTT-GAACAGTTGGTCAGCTTTTATGAGATTAATTT
+q panTro2.chr6 9999999999999999-9999999999-99999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11458 59 - 136255 GAGTTATAAAGATGATCTTTGCAAGTT-AAGCAGTTGGTCAGCTTTTATAAGGTTAATTT
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999-99999999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s hg18.chr6 16113475 58 - 170899992 GACTTACAAAGATGAT-TTTCCACGTT-GAACAGTTGGTCAGCTTTTATGAGATTAATTT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108529113 58 + 167655696 GAGTTACAAGGATGAT-TTTCCGTGTT-GAACAGTTGGTCAGCTTTTATGGGATTAATTT
+q rheMac2.chr4 9999999999999999-9999999999-99999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s rn4.chr1 230029620 56 - 267910886 GAATTACAGTGCT--C-TTCACAAGCT-AAATGGTTTGCCTAGTCCTGCCGGGTGAATGC
+q rn4.chr1 9999999999999--9-9999999999-99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s dasNov1.scaffold_16647 46675 60 - 51472 CAGTTACAAAGGCGATCTTTTCACATTCAAACACATGATTCGCTTTTATGAGATTACTTT
+q dasNov1.scaffold_16647 999999999999999999999999999999999999999999999999999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e loxAfr1.scaffold_33178 6626 174 + 41726 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=16780.000000
+s mm9.chr10 3211093 42 + 129993255 TGACGGGGAGAT----GTATAAGGTTT--------------------CCCGGCTGTTTATTTATTA
+s rn4.chr1 230029676 41 - 267910886 TGAAGGGGAGAT----GTGTAAGGTTT--------------------CCCAGCTATT-ATTTACTG
+q rn4.chr1 999999999999----99999999999--------------------9999999999-99999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108529171 24 + 167655696 TGATAAGAATAT----GTGTAAGAA-T--------------------TT-----------------
+q rheMac2.chr4 999999999999----999999999-9--------------------99-----------------
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16113533 25 - 170899992 TGATAAGGATAT----GTGTAAGAATT--------------------TT-----------------
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11517 29 - 136255 TGATAGAGATATGTAGGTGTAATATAT--------------------TT-----------------
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999--------------------99-----------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s panTro2.chr6 16637929 25 - 173908612 TGATAAGGATAT----GTGTAAGAATT--------------------TT-----------------
+q panTro2.chr6 999999999999----99999999999--------------------99-----------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16426685 24 - 174210431 TGATAAGGATAT----GTGTAAGAA-T--------------------TT-----------------
+i ponAbe2.chr6 C 0 C 0
+s canFam2.chr1 78277214 23 - 125616256 TGATACGGATCT----GTGTAAGGTAC---------------------------------------
+q canFam2.chr1 999999999999----99999999999---------------------------------------
+i canFam2.chr1 I 197 C 0
+s felCat3.scaffold_217398 142854 43 - 219823 tgatagggatat----atgtaaggtAttttttaaagtttatttattt-------------------
+q felCat3.scaffold_217398 979999999999----9799999999899997799999999999999-------------------
+i felCat3.scaffold_217398 C 0 I 183
+s equCab1.chr31 13069348 23 + 24938454 tgatagggatat----ctgtaaggtat---------------------------------------
+q equCab1.chr31 999999999999----99999999999---------------------------------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13748167 23 - 95030419 TGACAGGAATAT----AGGGAAGGTAC---------------------------------------
+q bosTau3.chr9 999999949999----99999999999---------------------------------------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 46735 23 - 51472 TAATAGTGATGT----AAGTAAAGTAG---------------------------------------
+q dasNov1.scaffold_16647 999899999999----99999999999---------------------------------------
+i dasNov1.scaffold_16647 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e loxAfr1.scaffold_33178 6626 174 + 41726 I
+e calJac1.Contig1260 90119 936 - 523245 I
+e tupBel1.scaffold_114895.1-498454 410564 963 - 498454 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=176422.000000
+s mm9.chr10 3211135 52 + 129993255 TTTATAGGTGAACTCATGCCTTTTATCAGCTAACTACTT-CAACAGTGTACCC
+s rn4.chr1 230029717 35 - 267910886 TTTATAGGTGGACGCGTGCCTTTTT------------------CAGTATGCCC
+q rn4.chr1 9999999999999999999999999------------------9999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78277237 34 - 125616256 TTTTTAGATGAACCAAAGG------------------GT-TGACTGTGTGTTG
+q canFam2.chr1 9999999999999999999------------------99-9999999999999
+i canFam2.chr1 C 0 I 11
+s felCat3.scaffold_217398 143080 52 - 219823 TTTTTAGGTGAACCAGCAGCTCTTATCAGTTTGTTGTGT-CGACAGTGTGTCC
+q felCat3.scaffold_217398 999999999999999999999999999999999999999-9999999999999
+i felCat3.scaffold_217398 I 183 I 161
+s equCab1.chr31 13069371 52 + 24938454 tTTTTAGGTGAACCAGTGGCTTTCATCAGCTCATCATGT-CGACAATGTGTCC
+q equCab1.chr31 999999999999999999999999999999999999999-9999999999999
+i equCab1.chr31 C 0 I 4
+s bosTau3.chr9 13748190 52 - 95030419 TTTTTAGATGAACCAGTGGCTTTGATCAGCCTGTTAGGT-GGACAGTGCGTCC
+q bosTau3.chr9 999999999999999999999999999999999899999-9999999999999
+i bosTau3.chr9 C 0 I 4
+s tupBel1.scaffold_114895.1-498454 411527 33 - 498454 -------------------CTTTTATCAGCTAATGATTT-CAGTAGTGTACCC
+q tupBel1.scaffold_114895.1-498454 -------------------99999999999999999999-9999999999999
+i tupBel1.scaffold_114895.1-498454 I 963 C 0
+s rheMac2.chr4 108529195 49 + 167655696 --TTTAG-TGAGCCAATAGCTTCTATCAGCCAATCATTT-TGACAATATGTCC
+q rheMac2.chr4 --99999-9999999999999999999999999999999-9999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16637954 50 - 173908612 --TTTAGATGAACCAATAGCTTTTATCAGCCAATCATTT-TGACAGTATGTCC
+q panTro2.chr6 --9999999999999999999999999999999999999-9999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16426709 50 - 174210431 --TTTAGATGGACGAATAGCTTTTATCAGCCAATCATTT-TGACAATATGTCC
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16113558 50 - 170899992 --TTTAGATGAACCAATAGCTTTTATCAGCCAATCATTT-TGACAGTATGTCC
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 91055 50 - 523245 --TGTAGATGAACCAATAGCTTTTATCAGCCAATCATTT-TGACAATATGTCC
+i calJac1.Contig1260 I 936 C 0
+s otoGar1.scaffold_85251.1-136255 11546 48 - 136255 ---TATGATGAA-AACTAGCTTTACTCAGCTAATCACTT-TGACAGTGTATCC
+q otoGar1.scaffold_85251.1-136255 ---999999999-99999999999999899999797999-9999997998999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s dasNov1.scaffold_16647 46758 53 - 51472 TTTTTAGATGAACCAGTGGCTTTTATCAGCTTATCATTCTCGGCAGTATGTTT
+q dasNov1.scaffold_16647 99999999799999997999999837579997999999999999998959999
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 6800 53 + 41726 TTTTTAGGTGCACCAGAGACCTTTATTAACTAGCCATTTACAGTAGTGTGTCT
+q loxAfr1.scaffold_33178 99999999999899699999999999999999998499999799999999999
+i loxAfr1.scaffold_33178 I 174 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=-48982.000000
+s mm9.chr10 3211187 9 + 129993255 A--------------TACATGTT--
+s rn4.chr1 230029752 9 - 267910886 A--------------CGTACTTC--
+q rn4.chr1 9--------------99999999--
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11594 9 - 136255 A-GACTCGGT---------------
+q otoGar1.scaffold_85251.1-136255 9-99999998---------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 91105 1 - 523245 A------------------------
+i calJac1.Contig1260 C 0 I 313
+s hg18.chr6 16113608 1 - 170899992 A------------------------
+i hg18.chr6 C 0 I 319
+s ponAbe2.chr6 16426759 1 - 174210431 A------------------------
+i ponAbe2.chr6 C 0 I 321
+s panTro2.chr6 16638004 1 - 173908612 A------------------------
+q panTro2.chr6 9------------------------
+i panTro2.chr6 C 0 I 319
+s rheMac2.chr4 108529244 2 + 167655696 AG-----------------------
+q rheMac2.chr4 99-----------------------
+i rheMac2.chr4 C 0 I 318
+s tupBel1.scaffold_114895.1-498454 411560 6 - 498454 A---------GACTC----------
+q tupBel1.scaffold_114895.1-498454 9---------99999----------
+i tupBel1.scaffold_114895.1-498454 C 0 I 6
+s bosTau3.chr9 13748246 1 - 95030419 ----------------------C--
+q bosTau3.chr9 ----------------------9--
+i bosTau3.chr9 I 4 I 6
+s equCab1.chr31 13069427 1 + 24938454 ----------------------C--
+q equCab1.chr31 ----------------------9--
+i equCab1.chr31 I 4 I 6
+s dasNov1.scaffold_16647 46811 9 - 51472 ----------------AGACTCCCC
+q dasNov1.scaffold_16647 ----------------999799999
+i dasNov1.scaffold_16647 C 0 I 1
+s loxAfr1.scaffold_33178 6853 9 + 41726 ----------------AGATTCCCA
+q loxAfr1.scaffold_33178 ----------------999998767
+i loxAfr1.scaffold_33178 C 0 I 3
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e felCat3.scaffold_217398 143132 161 - 219823 I
+e canFam2.chr1 78277271 11 - 125616256 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=72428.000000
+s mm9.chr10 3211196 30 + 129993255 ATATTTTAGACAAAGT-TGGGTGTT--AATGGA
+s rn4.chr1 230029761 29 - 267910886 ATATTT-AGATGAATT-CAGATGTT--AGTGGA
+q rn4.chr1 999999-999999999-99999999--999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16113928 32 - 170899992 ATAGATTAGCTGAACC-TGGCTGTTCTAACAGA
+i hg18.chr6 I 319 C 0
+s panTro2.chr6 16638324 32 - 173908612 ATAGATTAGCTGAACC-TGGCTGTTCTAACAGA
+q panTro2.chr6 9999999999999999-9999999999999999
+i panTro2.chr6 I 319 C 0
+s ponAbe2.chr6 16427081 32 - 174210431 ATAGATTAGATGAACC-TGGCTGTTCTAACAGA
+i ponAbe2.chr6 I 321 C 0
+s rheMac2.chr4 108529564 32 + 167655696 ATAGATTAGATGAACC-TGGCTATTCTAACAGA
+q rheMac2.chr4 9999999999999999-9999999999999999
+i rheMac2.chr4 I 318 C 0
+s calJac1.Contig1260 91419 32 - 523245 ATAAATTAGCTGAACC-TGGCTGTTCTAACTGA
+i calJac1.Contig1260 I 313 C 0
+s otoGar1.scaffold_85251.1-136255 11603 30 - 136255 -GGGACTAGCTGAACC-TGGCCGTT-TAACTGA
+q otoGar1.scaffold_85251.1-136255 -999599999999469-99999999-8688998
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411572 31 - 498454 AAAGGTTAGATGAACC-TGTCCATTCCAAC-GG
+q tupBel1.scaffold_114895.1-498454 9999999999999999-9999999999999-99
+i tupBel1.scaffold_114895.1-498454 I 6 C 0
+s bosTau3.chr9 13748253 33 - 95030419 GTAGGTTAGATGAACCTTGGCTGTTCCTACTGA
+q bosTau3.chr9 999999999999999999999999999999999
+i bosTau3.chr9 I 6 C 0
+s equCab1.chr31 13069434 28 + 24938454 ATAGGTTAGGTGAACC-CAGCTGTT----CTGA
+q equCab1.chr31 9999999999999999-99999999----9999
+i equCab1.chr31 I 6 C 0
+s canFam2.chr1 78277282 32 - 125616256 ATGGGGTAGAGGAACC-TGGCTGTTATAACTGA
+q canFam2.chr1 9999999999999999-9999999999999999
+i canFam2.chr1 I 11 C 0
+s eriEur1.scaffold_220537 5913 8 - 7736 -------------------------ACATTTTG
+q eriEur1.scaffold_220537 -------------------------99999999
+i eriEur1.scaffold_220537 N 0 C 0
+s dasNov1.scaffold_16647 46821 32 - 51472 CTAGGTTAGATGCACC-CCACTGTTCTCACCGA
+q dasNov1.scaffold_16647 9989999999999999-9999999999979999
+i dasNov1.scaffold_16647 I 1 C 0
+s loxAfr1.scaffold_33178 6865 28 + 41726 CTAGGCTAAATGAGCC-TGACTTTTCT----GA
+q loxAfr1.scaffold_33178 9999999999999999-9999999999----99
+i loxAfr1.scaffold_33178 I 3 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e felCat3.scaffold_217398 143132 161 - 219823 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e oryCun1.scaffold_214769 113561 555 - 139458 I
+
+a score=70647.000000
+s mm9.chr10 3211226 69 + 129993255 GAGGCTATCC--ACTGTAGCCAA-C---------ATCATAATAG------A-TTAT---AC-A-AGATTCA----TACT-CTAAGGCCCATGGACT-----------------------AC
+s loxAfr1.scaffold_33178 6893 77 + 41726 TAGGTTATCA--GTGATAATG---CAGT--------------AG------G-TAAT---AT-G-GTATTCC----TGTG-CCAGGTTCCATAGACTGCGTAATGGCAG----GG----GAC
+q loxAfr1.scaffold_33178 9999999999--999999999---9899--------------99------9-9999---99-9-9999987----8999-9998999987999999999999999979----99----998
+i loxAfr1.scaffold_33178 C 0 C 0
+s dasNov1.scaffold_16647 46853 80 - 51472 CAGATTATCA--ATTATAGCTGACCACT--------------AG------T-CAGT---GCAA-GGATTCC----AATG-CCAAGTTCTGTAGACCGTGTAGTCTT-G----GG----TTC
+q dasNov1.scaffold_16647 9999998999--9999999999999999--------------99------9-9998---9999-9999999----9999-99999999699999999699999999-9----99----999
+i dasNov1.scaffold_16647 C 0 C 0
+s eriEur1.scaffold_220537 5921 77 - 7736 CACAGTGTTT--AGTGTTGGTGA-----------------GGGT------T-GAAC---CC-AGGGGCGT-----CAGG-TCAGATTCTGCCCGTCCTGCAGTCTCAG----GG----AAC
+q eriEur1.scaffold_220537 9999999999--99999999999-----------------9999------9-9999---99-79999999-----9999-9999999999999748999777999999----99----999
+i eriEur1.scaffold_220537 C 0 C 0
+s canFam2.chr1 78277314 97 - 125616256 CAGGTGGTCT--GGACCAGCCGACCACT------TATCTAGTGG------G-GAAC---AT-GAGTGCCCACCTGTATA-CCAGGCTCTACAGACCATGTAATCTTGG----GATCATCTC
+q canFam2.chr1 9999999999--9999999999999999------9999999999------9-9999---99-99999999999999999-9999999999999999999999999999----999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13069462 86 + 24938454 CAGATTATCT--ATCATAACAGACCACT------AATAAAATAG------A-TAAC---GC-AAGTATTCA----TGTG-CCACGTTCTAAAGAC--TGTATCTCAGG----GA-----AC
+q equCab1.chr31 9999999999--9999999999999999------9999999999------9-9999---99-999999999----9999-999999999999999--99999999999----99-----99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13748286 83 - 95030419 CAGATTATCT--GTTGTAACAAACCACT------------GGAG------A-TAAC---AC-GTGTATTCA----CATG-CCAAGTTCTACAGGCTGTGTAGTTTTAG----GA----ATC
+q bosTau3.chr9 9999999999--9999999999999999------------9999------9-9999---99-999999999----9999-9999999999999999999999999999----99----999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411603 87 - 498454 CTGTTCCTCATGGTCATAGCAGA-CCCT------TAGAAAACAG------A-TGAC---AT-A-GTATTC-----TATG-TCAGGGCTCATGGAC-GAGTAGTCTCAG----GA----GAC
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999-9999------9999999999------9-9999---99-9-999999-----9999-999999999999999-999999999999----99----999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11633 86 - 136255 GCGATTACAG--GTTATAACAGA-CACT------AATTAAACAG------A-TGAC---CC-A-GTATTCA----CACG-CCAGGTCCC-CACACACTGTCATCTCAA----AG----TAC
+q otoGar1.scaffold_85251.1-136255 8997997849--87998979899-6558------7669895556------6-3555---99-5-6563655----6556-755773587-755665569554965659----66----466
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 91451 91 - 523245 CAGCTTATCA--GTTATAACTGA-CACT------AATGAAATGG------A-TAAC---AC-A-GTATTCG----TGTG-TAAGGTCCTGTAGACTGTGTAGTTTCAGTACAGG----AAA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108529596 87 + 167655696 CAAATTATCA--GTTATAACAGA-CACT------AATAAAATGG------A-TAAC---AC-A-GGATTCA----TGGG-GAAGGTCCTATAGACTGTGTAGTCTCGG----GG----AAA
+q rheMac2.chr4 9999999999--99999999999-9999------9999999999------9-9999---99-9-9999999----9999-9999999999999999999999999999----99----999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16427113 88 - 174210431 CAAATTATCA--GTTATAACAGA-CACT------AATAAAATGG------ATTAAC---AC-A-GGATTCA----TGTG-TAAGGTCCTATAGACTGTGTAGTCTCAG----GG----GAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16638356 88 - 173908612 CAAATTATCA--GTTATAACAGA-CACT------AATAAAATGG------A-TAAC---AC-A-GGATTCA----TGTGTTAAGGTCCTATAGACTGTGTAGTCTCAG----GG----GAA
+q panTro2.chr6 9999999999--99999999999-9999------9999999999------9-9999---99-9-9999999----999999999999999999999999999999999----99----999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16113960 88 - 170899992 CAAATTATCA--GTTATAACAGA-CACT------AATAAGATAG------A-TAAC---AC-A-GGATTCA----TGTGTTAAGGTCCTATAGACTGTGTAGTCTCAG----GG----GAA
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_214769 114116 102 - 139458 GAAGCTGACT--ATTGTGGCTGA-CAGATTGGGGATTATAACAGAAACTAA-TTAGATAAC-A-GCATCTC----TATG-TCAGGATCCGTAGACTGTGTAGTCCCAG----GG----GAC
+q oryCun1.scaffold_214769 9999999999--99999999999-999999999989999999999999999-999999999-9-9999999----9999-9979999999999999999999999999----99----999
+i oryCun1.scaffold_214769 I 555 C 0
+s rn4.chr1 230029790 68 - 267910886 GAGGTTATGC--GCGG-AACCAA-C---------ATCATAATAG------A-TTAG---AC-A-AGAGTCA----CATG-CCAAGGCCCATGGGCT-----------------------AC
+q rn4.chr1 9999999999--9999-999999-9---------9999999999------9-9999---99-9-9999999----9999-9999999999999999-----------------------99
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e oryLat1.chr22 12883153 370 - 28810691 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e felCat3.scaffold_217398 143132 161 - 219823 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=62658.000000
+s mm9.chr10 3211295 23 + 129993255 --TTTAAAACATAGTTTTTAT--TTTA------
+s rn4.chr1 230029858 23 - 267910886 --TTTAATACGTTGCTTTTGC--TTTT------
+q rn4.chr1 --9999999999999999999--9999------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 114218 21 - 139458 --CAAAATGCATCGTTTT--A--TTTT------
+q oryCun1.scaffold_214769 --9999999999999999--9--9999------
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16114048 21 - 170899992 --TAAAGTGCATTGTTTT--A--TTTT------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16638444 21 - 173908612 --TAAAGTGCATTGTTTT--A--TTTT------
+q panTro2.chr6 --9999999999999999--9--9999------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16427201 21 - 174210431 --TAAAGTGCATTGTTTT--A--TTTT------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108529683 20 + 167655696 --TAAAGTGCATTG-TTT--A--TTTT------
+q rheMac2.chr4 --999999999999-999--9--9999------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 91542 21 - 523245 --TAAAGTACATTGTTTT--A--TTTT------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11719 21 - 136255 --TCCAGTACCTGGCTTC--A--TTTT------
+q otoGar1.scaffold_85251.1-136255 --6456655675664875--4--7999------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411690 23 - 498454 --TAAAGTACGTTGTTTT--ATTTTTT------
+q tupBel1.scaffold_114895.1-498454 --9999999999999999--9999999------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13748369 21 - 95030419 --TCCAGCACACTGTATA--A--CTGT------
+q bosTau3.chr9 --9999999999999999--9--9999------
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13069548 21 + 24938454 --TCAAGTGTACTGTGTG--G--TATT------
+q equCab1.chr31 --9999990999999999--9--9999------
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78277411 21 - 125616256 --TTAAGTGCGCTGTGTA--A--TAGT------
+q canFam2.chr1 --9999999999999999--9--9999------
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_220537 5998 21 - 7736 --TTAAGTACACTGTGTA--A--CATT------
+q eriEur1.scaffold_220537 --9999997949998969--9--8799------
+i eriEur1.scaffold_220537 C 0 C 0
+s dasNov1.scaffold_16647 46933 21 - 51472 --TCAAGTGCACTGTTTC--A--TTTT------
+q dasNov1.scaffold_16647 --9999999999999999--9--9999------
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 6970 21 + 41726 --AAAAGTATACCGTTTT--A--TTTT------
+q loxAfr1.scaffold_33178 --7999999999998999--9--9999------
+i loxAfr1.scaffold_33178 C 0 C 0
+s oryLat1.chr22 12883523 29 - 28810691 TCTGAAAAATAGGTCttc--t--ttttcattaa
+q oryLat1.chr22 999999999999999999--9--9999999999
+i oryLat1.chr22 I 370 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e felCat3.scaffold_217398 143132 161 - 219823 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=237659.000000
+s mm9.chr10 3211318 50 + 129993255 -TCTTGAGGAAGCTTTATTT-CCGTTGCTGGTTCTTATACAGAAGAAAGAG----------C
+s loxAfr1.scaffold_33178 6991 51 + 41726 -CCTGCAGAAAATTTCGTTT--CGTTGCTAGGTGTC-TGCAGAAGAAAGAAGGAA-------
+q loxAfr1.scaffold_33178 -9999969999999999999--99899899999999-999999999999999999-------
+i loxAfr1.scaffold_33178 C 0 C 0
+s dasNov1.scaffold_16647 46954 60 - 51472 -TCCTGAGAAAATTTTATTTTCCGTTACTGGTTGTC-TGCAAAAGAATAAAGGAAGAGGAAG
+q dasNov1.scaffold_16647 -99999999999999999999999999999999999-9999999999999999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s bosTau3.chr9 13748390 59 - 95030419 -TCTTGAGAAAATTGTATTC-CCATTGCTTGTTTTG-TGTAGAAGAAAGAAGGGAGACGAAA
+q bosTau3.chr9 -9999999999999999999-999999999999999-9999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13069569 59 + 24938454 -TCTTGAGAAAATTGTATTT-CCATTACTCGCTGTC-TACAGAAGAAAGAAGGAAGAAGAAA
+q equCab1.chr31 -9999999999999999999-999999999909999-9999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 143293 59 - 219823 -TCTTGAGAAAATCGTGTTC-CTGTTGCTCTTTGTC-TGCAGAAGAAAGAAGGAAGAAGAAA
+q felCat3.scaffold_217398 -9999999999999999999-999999999999999-9999999999999999999999999
+i felCat3.scaffold_217398 I 161 C 0
+s canFam2.chr1 78277432 52 - 125616256 -TCTTGAGAAAATTCTATTT-CCATTGCTC---ATC-TGCAGAAGAAA----GAAGAAGAAA
+q canFam2.chr1 -9999999999999999999-999999999---999-99999999999----9999999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_220537 6019 44 - 7736 -TCTTGAGAACATTTTATTT-CCATTGCTTAT-ACT-CACAGCAGATa--------------
+q eriEur1.scaffold_220537 -9999999997999999999-99699966679-997-74777797978--------------
+i eriEur1.scaffold_220537 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411713 56 - 498454 -TTCTGGAAACATCTTATTG-TGGTTGTTAATCATC-TACAGAAGAAAGAAAGAA---GAAA
+q tupBel1.scaffold_114895.1-498454 -9999999999999999999-999999999999999-999999999999999999---9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11740 54 - 136255 -TCCTGAGAAAATCTTATCT-CAGTTGCTAGTCGCC-TATAGAAGAAAGAAAG-----AAGA
+q otoGar1.scaffold_85251.1-136255 -6564654588545445665-445343645435253-4365655569566964-----4555
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 91563 46 - 523245 -TCCTGAGAAAATGCTATTT-CAGTTGCTAATTTTC-TACAGAAGAAAG-------------
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108529703 52 + 167655696 -TCCTGAGAAAATGTTATTT-CAGTTGCTAATTGTC-TACAGAAGAAAGAA-------TAAA
+q rheMac2.chr4 -9999999999999999999-999999999999999-99999999999999-------9999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16427222 52 - 174210431 -TCCTGAGAAAATATTATTT-CAGTTGCTAATTGTC-TACAGAAGAAAGAA-------GAAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16638465 52 - 173908612 -TCCTGAGAAAATGTTATTT-CAGTTGCTAATTGTC-TACAGAAGAAAGAA-------GAAA
+q panTro2.chr6 -9999999999999999999-999999999999999-99999999999999-------9999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114069 52 - 170899992 -TCCTGAGAAAATGTTATTT-CAGTTGCTAATTGTC-TACAGAAGAAAGAA-------GAAA
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_214769 114239 44 - 139458 -TACAGAGAAGACTTTATTT-CTGTTGCTAGTTGCC-TACAGAAGAG---------------
+q oryCun1.scaffold_214769 -9999999999999999999-999999999999999-9999999999---------------
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230029881 50 - 267910886 -TCTTGAGGAAGCTTTATTT-CTGTTGCTAGTTCTTGTACAGAAGAAAGAA----------A
+q rn4.chr1 -9999999999999999999-999999999999999999999999999999----------9
+i rn4.chr1 C 0 C 0
+s oryLat1.chr22 12883552 41 - 28810691 atttaaaGAA-------TCT-CAAATGTGGACGGTT-CAAAGGGAACAGA------------
+q oryLat1.chr22 9999999999-------999-999999999999999-9999999999999------------
+i oryLat1.chr22 C 0 C 0
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e xenTro2.scaffold_2 3909045 3160 + 7803671 I
+e anoCar1.scaffold_0 8813643 3623 + 16654889 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e galGal3.chr3 61584066 4685 - 113657789 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=50153.000000
+s mm9.chr10 3211368 41 + 129993255 -TAAAGGCTGAAAG----AGAGGGC-TAAA--CACCTAAGCCAGG-TCTC
+s anoCar1.scaffold_0 8817266 20 + 16654889 ---------------------------AAA--CATGCATTTCTGT-TCTT
+q anoCar1.scaffold_0 ---------------------------999--9999999999999-9999
+i anoCar1.scaffold_0 I 3623 C 0
+s galGal3.chr3 61588751 42 - 113657789 -TGAGAGACAAGAG----AGCCTGCTGAAG--CACATAACTCCTG-TTTT
+i galGal3.chr3 I 4685 C 0
+s loxAfr1.scaffold_33178 7042 46 + 41726 -TAGAAGAAGAAAGAAAGAGCGGGCTTAAA--AAATTAAGACAAG-TCTC
+q loxAfr1.scaffold_33178 -99999999999999999999899999999--9999999999999-9999
+i loxAfr1.scaffold_33178 C 0 I 4
+s dasNov1.scaffold_16647 47014 47 - 51472 -CAGAAACAAAAAGAAATAGAAAGCTTAAA-TAAATTAAGGTAGG-TGTC
+q dasNov1.scaffold_16647 -99999999999999999999999999999-99999999999999-9999
+i dasNov1.scaffold_16647 C 0 C 0
+s bosTau3.chr9 13748449 45 - 95030419 -TAGAAGCAGAAAGAAAAAGGAGGCTTAAA---AAATAAGACAGG-TCTC
+q bosTau3.chr9 -99999999999999999999999999999---999999999999-9999
+i bosTau3.chr9 C 0 I 6
+s equCab1.chr31 13069628 45 + 24938454 -TAGAAGCAGCAAGAAGTGGAAGGTTTAAA---AATTAAAGCAGA-TCTC
+q equCab1.chr31 -99999999999999999099999999999---999999999999-9999
+i equCab1.chr31 C 0 I 2
+s felCat3.scaffold_217398 143352 45 - 219823 -TAGAAGCAGAAAGAAATAGAGGGTTGAAA---AACTAAGACAGG-TCTC
+q felCat3.scaffold_217398 -99999999999999999999999999999---999999999999-9999
+i felCat3.scaffold_217398 C 0 I 4
+s canFam2.chr1 78277484 43 - 125616256 -TAAAAGCAGAAAAAAATGGAAGATTTAAA---AAATA--ATAAG-TCTC
+q canFam2.chr1 -99999999999999999999999999999---99999--99999-9999
+i canFam2.chr1 C 0 I 4
+s eriEur1.scaffold_220537 6063 24 - 7736 ----------------------ggttatcc---cccccccccagc-tttc
+q eriEur1.scaffold_220537 ----------------------89599969---999999996246-6989
+i eriEur1.scaffold_220537 C 0 I 16
+s tupBel1.scaffold_114895.1-498454 411769 46 - 498454 -TAAAAGCAGAAAGAAATAGAAGGGTTTAA--AAATTAAGACAGG-CTTC
+q tupBel1.scaffold_114895.1-498454 -99999999999999999999999999999--9999999999999-9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11794 42 - 136255 -TAGAAGCAGAAAGAACTAGAAGGTTTAAA-------AAGGCATGCCCGT
+q otoGar1.scaffold_85251.1-136255 -35545455769553445569933372577-------7712141359543
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 91609 37 - 523245 -----------AAGAAATAGAAGGTTTAAA-GGAGTTAAGTCAGG-TTGT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108529755 47 + 167655696 -TAAAAACAGAAAGAAATAGAAGGTTTAAA-AAAATTAAGGCAGG-TTAT
+q rheMac2.chr4 -99999999999999999999999999999-99999999999999-9999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16427274 47 - 174210431 -TAAAAGCAGAAAGAAATAGAAGGTTTAAA-AGAATTAAGGCAGG-TTAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16638517 47 - 173908612 -TAAAAGCAGAAAGAAATAGAAGGTTTAAA-AGAATTAAGGCAGG-TTAT
+q panTro2.chr6 -99999999999999999999999999999-99999999999999-9999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114121 47 - 170899992 -TAAAAGCAGAAAGAAATAGAAGGTTTAAA-AGAATTAAGGCAGG-TTAT
+i hg18.chr6 C 0 C 0
+s oryCun1.scaffold_214769 114283 41 - 139458 -TGAAAGAAGCAAT----AGAAGGTGTAGG--AAATTAAGAC-GG-TTTC
+q oryCun1.scaffold_214769 -9999999999999----999999999999--9999999999-99-9999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230029931 41 - 267910886 -TAAAGGCAGAAAG----AGAGGAC-TAAA--CACCTAAGCCAGG-TCTC
+q rn4.chr1 -9999999999999----9999999-9999--9999999999999-9999
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_2 3912205 17 + 7803671 --------------------------------CGTTTAAATTATG-TCCT
+i xenTro2.scaffold_2 I 3160 C 0
+s oryLat1.chr22 12883593 39 - 28810691 TTAAgatttaaaagcaacattttgtgaacacaaaagtaa-----------
+q oryLat1.chr22 999999999999999999999999999999999999999-----------
+i oryLat1.chr22 C 0 I 11
+e tetNig1.chr10 10165279 470 - 12859810 I
+e gasAcu1.chrXV 12520056 621 - 16198764 I
+e fr2.chrUn 66178879 458 + 400509343 I
+e danRer5.chr21 16485866 145 + 46057314 I
+e monDom4.chr2 106262086 5312 - 541556283 I
+e ornAna1.chr2 14907541 957 - 54797317 I
+e echTel1.scaffold_276671 6169 1189 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=733555.000000
+s mm9.chr10 3211409 50 + 129993255 ----------------TTTGTTTCTA--------TGCAGTC-TCCTGCAGACAGA-TCTCAAAAGATTCACGCT-GG
+s rn4.chr1 230029972 50 - 267910886 ----------------TTTGTTTCTG--------TGCAGTC-TCCTGCAGACAGA-TCTCAAAAGATTCATGCT-GG
+q rn4.chr1 ----------------9999999999--------9999999-9999999999999-999999999999999999-99
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 114324 48 - 139458 ----------------TTTGTTTCCA--------T--AGTC-TCCTGCAGACAGG-TCTCAGAAGATTCATGCT-GG
+q oryCun1.scaffold_214769 ----------------9999999999--------9--9999-9999999999999-999999999999999999-99
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16114168 50 - 170899992 ----------------TTTGTTTCTG--------TACAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16638564 50 - 173908612 ----------------TTTGTTTCTG--------TACAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+q panTro2.chr6 ----------------9999999999--------9999999-9999999999999-999999999999999999-99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16427321 50 - 174210431 ----------------TTTGTTTCTG--------TACAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108529802 50 + 167655696 ----------------TTTGTTTCTG--------TACAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+q rheMac2.chr4 ----------------9999999999--------9999999-9999999999999-999999999999999999-99
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 91646 50 - 523245 ----------------TTTGATTCTC--------TACAGTC-TCCTGCAGACAGA-TCGCAGAAGATTCATGCT-GG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 11836 43 - 136255 ----------------TTTGCCTTTATGTGCGTCTATATCT-CCTTGCGGACAGA-TCTCA----------------
+q otoGar1.scaffold_85251.1-136255 ----------------7411112111111112221212113-1111123222222-29323----------------
+i otoGar1.scaffold_85251.1-136255 C 0 I 162
+s tupBel1.scaffold_114895.1-498454 411815 50 - 498454 ----------------TCTGTTTCTG--------TGTAGTC-TCCTGCAGACAAA-TCTCAGAAGATTCATGCT-GG
+q tupBel1.scaffold_114895.1-498454 ----------------9999999999--------9999999-9999999999999-999999999999999999-99
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 6103 52 - 7736 ----------------tttgtttcta---------acaGTCGCCCCGCAGATAAAGTCTCAGAAGATCCACGCTGGG
+q eriEur1.scaffold_220537 ----------------7886488658---------998768567755964647964668986866836836344785
+i eriEur1.scaffold_220537 I 16 C 0
+s canFam2.chr1 78277531 49 - 125616256 ----------------TTTGTTCCTA---------ATAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+q canFam2.chr1 ----------------9999999999---------999999-9999999999999-999999999999999999-99
+i canFam2.chr1 I 4 C 0
+s felCat3.scaffold_217398 143401 49 - 219823 ----------------TTTGTTCTTA---------ATAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+q felCat3.scaffold_217398 ----------------9999999999---------999999-9999999999999-999999999999999999-99
+i felCat3.scaffold_217398 I 4 C 0
+s equCab1.chr31 13069675 49 + 24938454 ----------------TTTATTTCTA---------ATAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCACGCT-GG
+q equCab1.chr31 ----------------9999999999---------999999-9999999999999-999999999999999999-99
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13748500 49 - 95030419 ----------------TTTGTCTCTA---------ACAGTC-TCCTGCAGACAGA-TCTCAGAAGATTCATGCT-GG
+q bosTau3.chr9 ----------------9999999999---------999999-9999999999999-999999999999999999-99
+i bosTau3.chr9 I 6 C 0
+s dasNov1.scaffold_16647 47061 58 - 51472 ----------------TTTGTTTATGTCTCCAAATATAGTC-TCCTGCAGACAAA-TCTCAGAAGATTCATGCT-GG
+q dasNov1.scaffold_16647 ----------------9999999999999999909999999-9999999999999-999999999999999999-99
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 7092 50 + 41726 ----------------TTTGTTTCTA--------TATAGTC-TCCTGCAGACAGG-TCGCAGAAGATTCATGCT-GG
+q loxAfr1.scaffold_33178 ----------------9999999999--------9999999-9999999999999-999999999999999999-99
+i loxAfr1.scaffold_33178 I 4 C 0
+s echTel1.scaffold_276671 7358 50 - 58026 ----------------TTTCTTTCTG--------TTTAGTC-CCCGGCCGACAGA-TCACAGCGGATCCACGCT-GG
+q echTel1.scaffold_276671 ----------------9999999999--------9999999-9999999999999-999999999999999999-99
+i echTel1.scaffold_276671 I 1189 C 0
+s monDom4.chr2 106267398 49 - 541556283 ----------------TTTGTTCTTT---------CCAGTC-TCCTGCTGATAGA-TCTCAGAGGATTCATGCT-GG
+q monDom4.chr2 ----------------9999999999---------999999-9999999999999-999999999999999999-99
+i monDom4.chr2 I 5312 C 0
+s ornAna1.chr2 14908498 50 - 54797317 ----------------TTTATTTGCC--------TTTAGTC-TCCTGCTGATAAG-TCTCAGAAGATTCATGCA-GG
+i ornAna1.chr2 I 957 C 0
+s galGal3.chr3 61588793 46 - 113657789 --------------------CTCCTT--------TGTAGTC-CCCTGCTGATAGA-TCTCAGAAGATTCATGCT-GG
+i galGal3.chr3 C 0 C 0
+s anoCar1.scaffold_0 8817286 46 + 16654889 --------------------GTCCTT--------TCTAGTC-TCCTGCTGATAAG-TCTCAGAAAATCCATGCT-GG
+q anoCar1.scaffold_0 --------------------999999--------9999999-9999999999999-999999999999999999-99
+i anoCar1.scaffold_0 C 0 C 0
+s xenTro2.scaffold_2 3912222 48 + 7803671 ------------------TCCATCTC--------ATTAGTC-TGCAGCAGATCGT-TCTGGAAAGGTTCATGCT-GG
+i xenTro2.scaffold_2 C 0 C 0
+s fr2.chrUn 66179337 54 + 400509343 tgt------------tggtttttccc--------tCCAGTC-GCCAGCGGACCTG-ACCAGGAAGATCCATGCC-GG
+i fr2.chrUn I 458 C 0
+s gasAcu1.chrXV 12520677 51 - 16198764 T--------------TTACTCTTTCT--------T-TAGTC-CCCTGCAGACATG-ACCAGAAAGATCCATGCA-GG
+q gasAcu1.chrXV 9--------------99999999999--------9-99999-9999999999999-999999999999999999-99
+i gasAcu1.chrXV I 621 C 0
+s oryLat1.chr22 12883643 65 - 28810691 TGCGCCTCATGGTCGTCATGTGTTCC--------T-TAGTC-TCCTGCAGATTTA-TCTAGAAGGATCCATGCT-GG
+q oryLat1.chr22 99999999999999999999999999--------9-99999-9999999999999-999999999999999999-99
+i oryLat1.chr22 I 11 I 3
+s danRer5.chr21 16486011 51 + 46057314 t--------------ctctctctctG--------T-CAGTC-ACTCGCTGACCGC-TGTAAGAAAATCCATGCT-GG
+i danRer5.chr21 I 145 C 0
+s tetNig1.chr10 10165749 38 - 12859810 ------------------------------------CAGTC-GCCGGCAGACCTG-ACCCGAAGGATCCACGCT-GG
+i tetNig1.chr10 I 470 C 0
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=757060.000000
+s mm9.chr10 3211459 52 + 129993255 CGATGAGGTCATTCAAGTCAATC-GGCAGACAGTGGTGAGT--------T-CATTTATTGGG
+s rn4.chr1 230030022 52 - 267910886 TGACGAGGTCATTCAAGTCAATC-GGCAAACAGTGGTGAGT--------T-CGTTTACTGGG
+q rn4.chr1 99999999999999999999999-99999999999999999--------9-99999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 114372 51 - 139458 TGACGAAGTCATTCAAGTTAATC-GACAAACCGTGGTGAGT--------TGAGTTTATTG--
+q oryCun1.scaffold_214769 99999999999999999999999-99999999999999999--------99999999999--
+i oryCun1.scaffold_214769 C 0 I 135
+s hg18.chr6 16114218 52 - 170899992 TGACGAAGTCATTCAAGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTTATTGAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16638614 52 - 173908612 TGACGAAGTCATTCAAGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTTATTGAG
+q panTro2.chr6 99999999999999999999999-99999999999999999--------9-99999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16427371 52 - 174210431 TGACGAAGTCATTCAAGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTTATTGGG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108529852 52 + 167655696 TGATGAAGTCATTCAAGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTTATTGAG
+q rheMac2.chr4 99999999999999999999999-99999999999999999--------9-99999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 91696 52 - 523245 TGATGAAGTCATTCAAGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTTGTTGAG
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411865 52 - 498454 GGATGAAGTCATTCAAGTTAATC-GGCAAACGGTGGTGAGT--------T-TGAGTTTGGAA
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999-99999999999989999--------9-99999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 6155 53 - 7736 TGATGAAGTTATTCAAGTCAATCGGGCAAACTGTGGTGAGT--------G-TCTTCATTAAG
+q eriEur1.scaffold_220537 75789695695887688566894774349768749649865--------5-54666836878
+i eriEur1.scaffold_220537 C 0 I 1020
+s canFam2.chr1 78277580 52 - 125616256 TGATGAAGTCATTCAGGTTAATC-AGCAGACTGTGGTGAGT--------T-TATTCATTGAG
+q canFam2.chr1 99999999999999999999999-99999999999999999--------9-99999999999
+i canFam2.chr1 C 0 I 7
+s felCat3.scaffold_217398 143450 52 - 219823 TGATGAAGTCATTCAGGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTCATCGAG
+q felCat3.scaffold_217398 99999999999999999999999-99999999999999999--------9-99999999999
+i felCat3.scaffold_217398 C 0 I 6
+s equCab1.chr31 13069724 52 + 24938454 GGATGAAGTCATTCAGGTCAATC-AGCAAACTGTGGTGAGT--------T-TGTTCGTTGAG
+q equCab1.chr31 99999999999999999999999-99999999999999999--------9-99999999999
+i equCab1.chr31 C 0 I 7
+s bosTau3.chr9 13748549 52 - 95030419 TGATGAAGTCATTCAGGTTAATC-AGCAAACTGTGGTGAGT--------T-TGTTCGTTGAA
+q bosTau3.chr9 99999999999999999999999-99999999999999999--------9-99999999999
+i bosTau3.chr9 C 0 I 7
+s dasNov1.scaffold_16647 47119 52 - 51472 CGATGAAGTTATTCAAGTTAATC-GGCAAACCGTGGTGAGT--------T-GGTTTCTTGAG
+q dasNov1.scaffold_16647 99999999999999999999999-99999999999999999--------9-99999999999
+i dasNov1.scaffold_16647 C 0 I 12
+s loxAfr1.scaffold_33178 7142 52 + 41726 TGACGAAGTCATTCAGGTTAATC-AGCAAACTGTGGTGAGC--------T-GGTTTATTGAG
+q loxAfr1.scaffold_33178 99999999999999999999999-99999999999999999--------9-99999999999
+i loxAfr1.scaffold_33178 C 0 I 7
+s echTel1.scaffold_276671 7408 40 - 58026 TGACGAGGTCATCCAAGTCAACC-GGCAGACGGTGGTAAGT---------------------
+q echTel1.scaffold_276671 99999999999999999999999-99999999999999999---------------------
+i echTel1.scaffold_276671 C 0 I 73
+s monDom4.chr2 106267447 40 - 541556283 TGATGAGGTGATTCAAGTTAATA-AGCAGACTGTGGTAAGT---------------------
+q monDom4.chr2 99999999999999999999999-99999999999999999---------------------
+i monDom4.chr2 C 0 I 565
+s ornAna1.chr2 14908548 42 - 54797317 CGATGAAGTGATTCAAGTTAATC-AGCAGACTGTGGTAAGC--------T-C----------
+i ornAna1.chr2 C 0 I 766
+s galGal3.chr3 61588839 40 - 113657789 TGATGAGGTGATCCAGGTTAACC-AACAAACTGTGGTAAGT---------------------
+i galGal3.chr3 C 0 I 31
+s anoCar1.scaffold_0 8817332 57 + 16654889 TGATGAAGTGATCCAGGTGAATC-GCCAGACTGTGGTGAGTGAAAGTCAT-TTTGTGTT---
+q anoCar1.scaffold_0 99999999999999999999999-99999999999999999999999999-99999999---
+i anoCar1.scaffold_0 C 0 I 15
+s xenTro2.scaffold_2 3912270 46 + 7803671 TGATGAAGTGATTCAAGTTAATT-ATCATACAGTGGTAAGT--------A-TCTGG------
+i xenTro2.scaffold_2 C 0 C 0
+s fr2.chrUn 66179391 39 + 400509343 CGATGAGGTCATCCAGGTCAATC-AACAAACAGTAGTAAG----------------------
+i fr2.chrUn C 0 I 69
+s tetNig1.chr10 10165787 45 - 12859810 CGACGAGGTGATCCAGGTCAACC-TCCAGACGGTGGTGAGA--------A-CC-------AC
+i tetNig1.chr10 C 0 C 0
+s gasAcu1.chrXV 12520728 52 - 16198764 TGACGAGGTGATCCAGGTCAACC-AGCAGACAGTGGTAGGA--------a-cctgttttgtt
+q gasAcu1.chrXV 99999999999999999999999-99999999999999999--------9-99999999999
+i gasAcu1.chrXV C 0 C 0
+s danRer5.chr21 16486062 50 + 46057314 TGATGAGGTCATACAGGTCAATC-ATCAGACAGTGGTGAGC--------A-CATCTACTG--
+i danRer5.chr21 C 0 I 2144
+e oryLat1.chr22 12883708 3 - 28810691 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+
+a score=-53194.000000
+s mm9.chr10 3211511 11 + 129993255 G------TATGATTGAA
+s rn4.chr1 230030074 7 - 267910886 A------tatgat----
+q rn4.chr1 9------999999----
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16114270 7 - 170899992 G------CTCAAT----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16638666 7 - 173908612 G------CTCAAT----
+q panTro2.chr6 9------999999----
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16427423 7 - 174210431 A------CTCAGT----
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108529904 7 + 167655696 A------CTCAAT----
+q rheMac2.chr4 9------999999----
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 91748 7 - 523245 A------CTTCAT----
+i calJac1.Contig1260 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411917 7 - 498454 A------TTTCAT----
+q tupBel1.scaffold_114895.1-498454 9------999999----
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78277639 9 - 125616256 AC----TTTTAGT----
+q canFam2.chr1 99----9999999----
+i canFam2.chr1 I 7 C 0
+s felCat3.scaffold_217398 143508 9 - 219823 AC----TTTTAAT----
+q felCat3.scaffold_217398 98----9999999----
+i felCat3.scaffold_217398 I 6 C 0
+s equCab1.chr31 13069783 7 + 24938454 A------GTGACT----
+q equCab1.chr31 9------999999----
+i equCab1.chr31 I 7 C 0
+s bosTau3.chr9 13748608 7 - 95030419 A------CTTCAT----
+q bosTau3.chr9 9------999999----
+i bosTau3.chr9 I 7 C 0
+s dasNov1.scaffold_16647 47183 7 - 51472 C------TCTAGT----
+q dasNov1.scaffold_16647 9------999999----
+i dasNov1.scaffold_16647 I 12 C 0
+s loxAfr1.scaffold_33178 7201 7 + 41726 A------TTTAAT----
+q loxAfr1.scaffold_33178 9------999999----
+i loxAfr1.scaffold_33178 I 7 C 0
+s anoCar1.scaffold_0 8817404 7 + 16654889 A------TTTAGC----
+q anoCar1.scaffold_0 9------999999----
+i anoCar1.scaffold_0 I 15 I 4
+s xenTro2.scaffold_2 3912316 8 + 7803671 -A----TTTGAAT----
+i xenTro2.scaffold_2 C 0 I 2347
+s tetNig1.chr10 10165832 11 - 12859810 -AGATACCTGAA-----
+i tetNig1.chr10 C 0 I 2
+s gasAcu1.chrXV 12520780 11 - 16198764 -gtttctttgaa-----
+q gasAcu1.chrXV -99999999999-----
+i gasAcu1.chrXV C 0 I 93
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e danRer5.chr21 16486112 2144 + 46057314 I
+e galGal3.chr3 61588879 31 - 113657789 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e oryCun1.scaffold_214769 114423 135 - 139458 I
+
+a score=-48635.000000
+s mm9.chr10 3211522 29 + 129993255 AGTTGA-ATGATTTCCCTT---CAGAA---------AATTTA------------
+s gasAcu1.chrXVIII 3642450 32 - 16282716 ------ACCTG-CTCA------TTGGC---------TTTTAGCCAGATGAGAAG
+q gasAcu1.chrXVIII ------99999-9999------99999---------999999999999999999
+i gasAcu1.chrXVIII n 93 C 0
+s tetNig1.chr10 10165845 33 - 12859810 ------ACTTGAATAA------TCCGC---------AGTTCCGCAGACACCACG
+i tetNig1.chr10 I 2 C 0
+s anoCar1.scaffold_0 8817415 22 + 16654889 -----------TGTATTTCAGAATATC---------AGTGGC------------
+q anoCar1.scaffold_0 -----------9999999999999999---------999999------------
+i anoCar1.scaffold_0 I 4 C 0
+s galGal3.chr3 61588910 19 - 113657789 -----------TTTTTCTC---CTATA---------ACTGTC------------
+i galGal3.chr3 I 31 C 0
+s loxAfr1.scaffold_33178 7208 17 + 41726 -----------ACCCCTCT---TTAGA---------ACTT--------------
+q loxAfr1.scaffold_33178 -----------99999999---99999---------9999--------------
+i loxAfr1.scaffold_33178 C 0 C 0
+s dasNov1.scaffold_16647 47190 26 - 51472 -----------CGTTTTAC---TTAAATCCAAAGCCATTT--------------
+q dasNov1.scaffold_16647 -----------99999999---999999999999999999--------------
+i dasNov1.scaffold_16647 C 0 C 0
+s equCab1.chr31 13069790 19 + 24938454 -----------ATTTCCCT---CTAGA---------ACTTTT------------
+q equCab1.chr31 -----------99999999---99999---------999999------------
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 143517 19 - 219823 -----------ATTCCCCT---CTAGA---------ACTTTC------------
+q felCat3.scaffold_217398 -----------98999999---99999---------989999------------
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78277648 19 - 125616256 -----------ATTCTCTT---CTAGG---------ACTTTT------------
+q canFam2.chr1 -----------99999999---99999---------999999------------
+i canFam2.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 411924 19 - 498454 -----------CCTCCCCT---TTAAA---------GCTTTC------------
+q tupBel1.scaffold_114895.1-498454 -----------99999999---99999---------999999------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s calJac1.Contig1260 91755 19 - 523245 -----------TTCCCTCC---TTAGA---------ACTTTT------------
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108529911 19 + 167655696 -----------TTTCCTCT---TTAGA---------ACTTTT------------
+q rheMac2.chr4 -----------99999999---99999---------999999------------
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16427430 19 - 174210431 -----------TTTCCTCC---TTAGA---------ACTTTT------------
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16638673 19 - 173908612 -----------TTTCCTCC---TTAAA---------ACTTTT------------
+q panTro2.chr6 -----------99999999---99999---------999999------------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114277 19 - 170899992 -----------TTTCCTCC---TTAAA---------ACTTTT------------
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230030081 19 - 267910886 -----------tttcctct---cagga---------aatgtg------------
+q rn4.chr1 -----------99999999---99999---------999999------------
+i rn4.chr1 C 0 C 0
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e danRer5.chr21 16486112 2144 + 46057314 I
+e bosTau3.chr9 13748615 0 - 95030419 C
+e monDom4.chr2 106267487 565 - 541556283 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e oryCun1.scaffold_214769 114423 135 - 139458 I
+
+a score=-330947.000000
+s mm9.chr10 3211551 37 + 129993255 ----------------------------AT-----------------TACCTTA-----ACATTTAAAA-----TTTtgtgtatgtgtgtgt
+s rn4.chr1 230030100 2 - 267910886 ---------------------------------------------------------------------------tg---------------
+q rn4.chr1 ---------------------------------------------------------------------------99---------------
+i rn4.chr1 C 0 I 41
+s hg18.chr6 16114296 20 - 170899992 --------------------------------------------------AATT-----AAATCTAAAAC--CATTT---------------
+i hg18.chr6 C 0 I 10
+s panTro2.chr6 16638692 20 - 173908612 --------------------------------------------------AATT-----AAATCTAAAAC--CATTT---------------
+q panTro2.chr6 --------------------------------------------------9999-----99999999999--99999---------------
+i panTro2.chr6 C 0 I 10
+s ponAbe2.chr6 16427449 20 - 174210431 --------------------------------------------------AATT-----AAGTCTAAAAC--CATTT---------------
+i ponAbe2.chr6 C 0 I 10
+s rheMac2.chr4 108529930 14 + 167655696 --------------------------------------------------AATT-----AAATCTAAAA-----------------------
+q rheMac2.chr4 --------------------------------------------------9999-----9999999999-----------------------
+i rheMac2.chr4 C 0 I 16
+s calJac1.Contig1260 91774 20 - 523245 --------------------------------------------------AATT-----ACATCTAAAAC--CATTT---------------
+i calJac1.Contig1260 C 0 I 10
+s tupBel1.scaffold_114895.1-498454 411943 19 - 498454 --------------------------------------------------AGTG-----AAATC-AGAGC--CATTT---------------
+q tupBel1.scaffold_114895.1-498454 --------------------------------------------------9999-----99999-99999--99999---------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 3
+s canFam2.chr1 78277667 15 - 125616256 --------------------------------------------------AACT-----AAATCCAAAGC----------------------
+q canFam2.chr1 --------------------------------------------------9999-----99999999999----------------------
+i canFam2.chr1 C 0 I 13
+s felCat3.scaffold_217398 143536 4 - 219823 --------------------------------------------------AACT--------------------------------------
+q felCat3.scaffold_217398 --------------------------------------------------6999--------------------------------------
+i felCat3.scaffold_217398 C 0 I 35
+s equCab1.chr31 13069809 4 + 24938454 --------------------------------------------------AACT--------------------------------------
+q equCab1.chr31 --------------------------------------------------9099--------------------------------------
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13748615 18 - 95030419 ------------------------------------------------------CTTCCCCTTCTAAAACTT--------------------
+q bosTau3.chr9 ------------------------------------------------------999999999999999999--------------------
+i bosTau3.chr9 C 0 I 19
+s dasNov1.scaffold_16647 47216 6 - 51472 -----------------------------------------------------------------------------TGTTTG---------
+q dasNov1.scaffold_16647 -----------------------------------------------------------------------------999999---------
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 7225 1 + 41726 -----------------------------------------------------------------------------T--------------
+q loxAfr1.scaffold_33178 -----------------------------------------------------------------------------9--------------
+i loxAfr1.scaffold_33178 C 0 C 0
+s galGal3.chr3 61588929 42 - 113657789 ----------------------------CTATAAAAAAAAAATAGTTTGCAATT-----TTTTTCTT-----------------CATTTTGG
+i galGal3.chr3 C 0 C 0
+s anoCar1.scaffold_0 8817437 31 + 16654889 ----------------------------CTATAAAGCAG-----------ATTT-----TTGTTCTG-----------------GTTTATGG
+q anoCar1.scaffold_0 ----------------------------99999999999-----------9999-----99999999-----------------99999999
+i anoCar1.scaffold_0 C 0 C 0
+s tetNig1.chr10 10165878 29 - 12859810 --------AGTGTTTAAAAtgc-ccggtgt------------------------------------------------------gtgtgtgt
+i tetNig1.chr10 C 0 I 11
+s gasAcu1.chrXVIII 3642482 27 - 16282716 --------ATCG---ATACCGCTCTTTTGT------------------------------------------------------CTCCGCgc
+q gasAcu1.chrXVIII --------9999---999999999999999------------------------------------------------------99999999
+i gasAcu1.chrXVIII C 0 I 3
+s danRer5.chr21 16488256 37 + 46057314 ATTACCTGACCAGCTAAATTAC-ATTTATC------------------------------------------------------TTCCGTGT
+i danRer5.chr21 I 2144 C 0
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e oryCun1.scaffold_214769 114423 135 - 139458 I
+
+a score=-8746.000000
+s mm9.chr10 3211588 26 + 129993255 gtgtgtgtgtACATATGTGCTGGAAC-----
+s anoCar1.scaffold_0 8817468 22 + 16654889 GTG-GTGGGTGCATACATTCTTG--------
+q anoCar1.scaffold_0 999-9999999999999999999--------
+i anoCar1.scaffold_0 C 0 I 2678
+s galGal3.chr3 61588971 3 - 113657789 -------------------CTT---------
+i galGal3.chr3 C 0 C 0
+s gasAcu1.chrXVIII 3642512 27 - 16282716 ----atatgaagctacagtcAGGAGAcaagc
+q gasAcu1.chrXVIII ----999999999999999999999999999
+i gasAcu1.chrXVIII I 3 C 0
+s danRer5.chr21 16488293 26 + 46057314 GCATTTGTCCCTCTGTGTTCTGG-----TGC
+i danRer5.chr21 C 0 C 0
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e rn4.chr1 230030102 41 - 267910886 I
+e bosTau3.chr9 13748633 19 - 95030419 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e equCab1.chr31 13069813 1 + 24938454 I
+e rheMac2.chr4 108529944 16 + 167655696 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e dasNov1.scaffold_16647 47222 0 - 51472 C
+e felCat3.scaffold_217398 143540 35 - 219823 I
+e canFam2.chr1 78277682 13 - 125616256 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e loxAfr1.scaffold_33178 7226 0 + 41726 C
+e calJac1.Contig1260 91794 10 - 523245 I
+e tupBel1.scaffold_114895.1-498454 411962 3 - 498454 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e hg18.chr6 16114316 10 - 170899992 I
+e panTro2.chr6 16638712 10 - 173908612 I
+e ponAbe2.chr6 16427469 10 - 174210431 I
+e oryCun1.scaffold_214769 114423 135 - 139458 I
+
+a score=-24193.000000
+s mm9.chr10 3211614 15 + 129993255 AGGGT----------------ATCATATCCT-------
+s rn4.chr1 230030143 15 - 267910886 atggc----------------atcatgtcct-------
+q rn4.chr1 99999----------------9999999999-------
+i rn4.chr1 I 41 C 0
+s oryCun1.scaffold_214769 114558 31 - 139458 aaggtgaagccaggagcctggatctcagcct-------
+q oryCun1.scaffold_214769 7999899999969997999999799877899-------
+i oryCun1.scaffold_214769 I 135 C 0
+s tupBel1.scaffold_114895.1-498454 411965 9 - 498454 ----------------------TCATTTTTA-------
+q tupBel1.scaffold_114895.1-498454 ----------------------998999999-------
+i tupBel1.scaffold_114895.1-498454 I 3 C 0
+s equCab1.chr31 13069814 5 + 24938454 --------------------------AATCC-------
+q equCab1.chr31 --------------------------99999-------
+i equCab1.chr31 I 1 C 0
+s loxAfr1.scaffold_33178 7226 11 + 41726 --------------------TATTAAATCCA-------
+q loxAfr1.scaffold_33178 --------------------99999999998-------
+i loxAfr1.scaffold_33178 C 0 C 0
+s galGal3.chr3 61588974 11 - 113657789 --------------------TTTCATATCTT-------
+i galGal3.chr3 C 0 C 0
+s gasAcu1.chrXVIII 3642539 13 - 16282716 -------------------------ttagcttagcaca
+q gasAcu1.chrXVIII -------------------------9999999999999
+i gasAcu1.chrXVIII C 0 C 0
+s danRer5.chr21 16488319 6 + 46057314 -------------------------TTGGTT-------
+i danRer5.chr21 C 0 C 0
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e bosTau3.chr9 13748633 19 - 95030419 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e rheMac2.chr4 108529944 16 + 167655696 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e dasNov1.scaffold_16647 47222 0 - 51472 C
+e felCat3.scaffold_217398 143540 35 - 219823 I
+e canFam2.chr1 78277682 13 - 125616256 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e calJac1.Contig1260 91794 10 - 523245 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e hg18.chr6 16114316 10 - 170899992 I
+e panTro2.chr6 16638712 10 - 173908612 I
+e ponAbe2.chr6 16427469 10 - 174210431 I
+
+a score=-104852.000000
+s mm9.chr10 3211629 64 + 129993255 Agacctgtcatgatagg---------------------------caactgtgaatc------actcaata-----------------------------------------------------tgcaaga---------------------gcaggtaatgctcttaatgg
+s rn4.chr1 230030158 87 - 267910886 agagctgtagccacagg---------------------------cagtcgtgaatc------gcccaaca---------------tggggcttaggaatcaagctcc--------caaccctttgcaaga---------------------gcagctaatgctc-------
+q rn4.chr1 99999999999999999---------------------------999999999999------99999999---------------9999999999999999999999--------999999999999999---------------------9999999999999-------
+i rn4.chr1 C 0 I 7
+s oryCun1.scaffold_214769 114589 152 - 139458 gagtcccccac-ataggttccagggacccaagtacctgagctgccatctgtgcatctgggttgcacattaacagaaaactggattggaagcagaggagctgggataCAGACCAGACACTCCGATGCAGGA-----------TGCTGGCATCTCAAGTGGCGATT-------
+q oryCun1.scaffold_214769 98689999969-6999988665999668869988888985989884998979979999964996797987998797997999558958969669589498999766756965569769986596985596-----------37667765966675957856759-------
+i oryCun1.scaffold_214769 C 0 I 51
+s tupBel1.scaffold_114895.1-498454 411974 20 - 498454 AA----------ACGTG---------------------------TAATTGT---TT------GCTC---------------------------------------------------------------------------------------------------------
+q tupBel1.scaffold_114895.1-498454 99----------99969---------------------------6999995---99------9899---------------------------------------------------------------------------------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 8
+s equCab1.chr31 13069819 26 + 24938454 AAAGCCATTTT-GCTTG---------------------------AATTTTTTAA---------------------------------------------------------------------------------------------------------------------
+q equCab1.chr31 99999999999-99999---------------------------9999999999---------------------------------------------------------------------------------------------------------------------
+i equCab1.chr31 C 0 C 0
+s loxAfr1.scaffold_33178 7237 15 + 41726 AAACCATT------------------------------------------------------------------------------------------------------------------------------------------------------------TTGTTGG
+q loxAfr1.scaffold_33178 99999999------------------------------------------------------------------------------------------------------------------------------------------------------------9999999
+i loxAfr1.scaffold_33178 C 0 C 0
+s gasAcu1.chrXVIII 3642552 70 - 16282716 ---------------------------------------------aacactgGAAACAGCTAGCAT-------------------------------------------------GACTCCTGTCTAAAAGGTCATATAT-TGTAGAAATGACAAGTAGGGATTT------
+q gasAcu1.chrXVIII ---------------------------------------------999999999999999999999-------------------------------------------------9999999999999999999999999-999999999999999999999999------
+i gasAcu1.chrXVIII C 0 C 0
+s danRer5.chr21 16488325 71 + 46057314 ----------------------------------------------GTTCTGTCATAGGTTAGTGT----------------------------------------------------TTCTAtgtattgtattgtatatgtattattattgtatgtagtgttttttct--
+i danRer5.chr21 C 0 C 0
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e galGal3.chr3 61588985 0 - 113657789 C
+e bosTau3.chr9 13748633 19 - 95030419 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e rheMac2.chr4 108529944 16 + 167655696 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e dasNov1.scaffold_16647 47222 0 - 51472 C
+e felCat3.scaffold_217398 143540 35 - 219823 I
+e canFam2.chr1 78277682 13 - 125616256 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e calJac1.Contig1260 91794 10 - 523245 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e hg18.chr6 16114316 10 - 170899992 I
+e panTro2.chr6 16638712 10 - 173908612 I
+e ponAbe2.chr6 16427469 10 - 174210431 I
+
+a score=-17890.000000
+s mm9.chr10 3211693 23 + 129993255 ctgatccatctctacaacct----------------cTA
+s rn4.chr1 230030252 23 - 267910886 ctgagccatctctacgacct----------------cCA
+q rn4.chr1 99999999999999999999----------------999
+i rn4.chr1 I 7 C 0
+s loxAfr1.scaffold_33178 7252 2 + 41726 ---A------------A----------------------
+q loxAfr1.scaffold_33178 ---9------------9----------------------
+i loxAfr1.scaffold_33178 C 0 C 0
+s dasNov1.scaffold_16647 47222 12 - 51472 ------CATCTTTAAAAT---------------------
+q dasNov1.scaffold_16647 ------999999999999---------------------
+i dasNov1.scaffold_16647 C 0 C 0
+s oryCun1.scaffold_214769 114792 33 - 139458 ------CTCCTTTACAACTTTCAGTGAAATCTAAAGCCA
+q oryCun1.scaffold_214769 ------567679667665797756667956657966997
+i oryCun1.scaffold_214769 I 51 C 0
+s gasAcu1.chrXVIII 3642622 16 - 16282716 --AATGCGACATTAAAGC---------------------
+q gasAcu1.chrXVIII --9999999999999999---------------------
+i gasAcu1.chrXVIII C 0 C 0
+s danRer5.chr21 16488396 18 + 46057314 tctatattttgttgtaGT---------------------
+i danRer5.chr21 C 0 C 0
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e galGal3.chr3 61588985 0 - 113657789 C
+e bosTau3.chr9 13748633 19 - 95030419 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e equCab1.chr31 13069845 0 + 24938454 C
+e rheMac2.chr4 108529944 16 + 167655696 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e felCat3.scaffold_217398 143540 35 - 219823 I
+e canFam2.chr1 78277682 13 - 125616256 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e calJac1.Contig1260 91794 10 - 523245 I
+e tupBel1.scaffold_114895.1-498454 411994 8 - 498454 I
+e echTel1.scaffold_276671 7448 73 - 58026 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+e hg18.chr6 16114316 10 - 170899992 I
+e panTro2.chr6 16638712 10 - 173908612 I
+e ponAbe2.chr6 16427469 10 - 174210431 I
+
+a score=-20532.000000
+s mm9.chr10 3211716 23 + 129993255 TATTA---------AGAA------A--TTACAATGTGTAC
+s echTel1.scaffold_276671 7521 23 - 58026 ---------TGTTAAACA------T--GTGCAGTCTGTAT
+q echTel1.scaffold_276671 ---------999999999------9--9999999999999
+i echTel1.scaffold_276671 I 73 C 0
+s loxAfr1.scaffold_33178 7254 23 + 41726 ---------TTTTTAAGA------T--TTGCAATCTATAC
+q loxAfr1.scaffold_33178 ---------999999999------7--9999999999999
+i loxAfr1.scaffold_33178 C 0 C 0
+s dasNov1.scaffold_16647 47234 13 - 51472 ---------------------------TTGCAATTTATAT
+q dasNov1.scaffold_16647 ---------------------------9999999999999
+i dasNov1.scaffold_16647 C 0 C 0
+s calJac1.Contig1260 91804 21 - 523245 -----------TTCAAAA------T--TTGCTGTTTATAT
+i calJac1.Contig1260 I 10 C 0
+s rheMac2.chr4 108529960 21 + 167655696 -----------TTTAAAA------T--TTTCTGCTTACAT
+q rheMac2.chr4 -----------9999999------9--9999999999999
+i rheMac2.chr4 I 16 C 0
+s hg18.chr6 16114326 21 - 170899992 -----------TTTAAAA------T--TTGCCGCTTATAT
+i hg18.chr6 I 10 C 0
+s panTro2.chr6 16638722 21 - 173908612 -----------TTTAAAA------T--TTGCCGCTTATAT
+q panTro2.chr6 -----------9999999------9--9999999999999
+i panTro2.chr6 I 10 C 0
+s ponAbe2.chr6 16427479 21 - 174210431 -----------TTTAAAA------T--TTGCCACTTATAT
+i ponAbe2.chr6 I 10 C 0
+s tupBel1.scaffold_114895.1-498454 412002 21 - 498454 -------------TAAGA------TGGCAATAATGAATAT
+q tupBel1.scaffold_114895.1-498454 -------------99999------8997999999999999
+i tupBel1.scaffold_114895.1-498454 I 8 C 0
+s equCab1.chr31 13069845 15 + 24938454 -----------------A------T--TTGCagtttatat
+q equCab1.chr31 -----------------9------9--9999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 143575 13 - 219823 ---------------------------TTGCAATttatat
+q felCat3.scaffold_217398 ---------------------------9987899998978
+i felCat3.scaffold_217398 I 35 C 0
+s canFam2.chr1 78277695 23 - 125616256 TT---------TTAAAAT------T--TTGCAATTTCTGT
+q canFam2.chr1 99---------9999999------9--9999999999999
+i canFam2.chr1 I 13 C 0
+s bosTau3.chr9 13748652 23 - 95030419 TT---------TAAAAAA------T--TTGCAGTTTATAT
+q bosTau3.chr9 99---------9999999------9--9999999999999
+i bosTau3.chr9 I 19 C 0
+s oryCun1.scaffold_214769 114825 32 - 139458 TATTGTTTTTTTTTTTAA------T--TTGAAATTCATAT
+q oryCun1.scaffold_214769 867176789999998565------8--8658968777756
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230030275 29 - 267910886 TATTA---------AAAAGAAAACA--ATACAATTTTCCC
+q rn4.chr1 99999---------99999999999--9999999999999
+i rn4.chr1 C 0 C 0
+s gasAcu1.chrXVIII 3642638 20 - 16282716 -----------TCTGAAA------A--TGACAGTCTGTT-
+q gasAcu1.chrXVIII -----------9999999------9--999999999999-
+i gasAcu1.chrXVIII C 0 C 0
+s danRer5.chr21 16488414 18 + 46057314 -----------TTTATAA------A--ATGCAAAATG---
+i danRer5.chr21 C 0 C 0
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e galGal3.chr3 61588985 0 - 113657789 C
+e monDom4.chr2 106267487 565 - 541556283 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+
+a score=-29537.000000
+s mm9.chr10 3211739 17 + 129993255 ---------CCT---GTATTTCCACTGTT
+s rn4.chr1 230030304 17 - 267910886 ---------AAC---CCGTTGTCACTGTT
+q rn4.chr1 ---------999---99999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 114857 17 - 139458 ---------CCA---GTTTTGCCACTAGA
+q oryCun1.scaffold_214769 ---------875---65994669895567
+i oryCun1.scaffold_214769 C 0 C 0
+s bosTau3.chr9 13748675 16 - 95030419 ---------CCA---GCTTT-CCATAATT
+q bosTau3.chr9 ---------999---99999-99999999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78277718 15 - 125616256 ---------CCA---ATTTT-TCATAA-T
+q canFam2.chr1 ---------999---99999-999999-9
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 143588 16 - 219823 ---------cca---atttt-ccgtaatt
+q felCat3.scaffold_217398 ---------965---98988-89887798
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13069860 16 + 24938454 ---------cca---gtttt-ccataatt
+q equCab1.chr31 ---------999---99999-99999999
+i equCab1.chr31 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412023 16 - 498454 ---------CCT---ATCTT-CTACTAGT
+q tupBel1.scaffold_114895.1-498454 ---------999---99999-99999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s ponAbe2.chr6 16427500 16 - 174210431 ---------CCT---ATTTT-TCATTATT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16638743 16 - 173908612 ---------CCT---ATTTT-TCATTATT
+q panTro2.chr6 ---------999---99999-99999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114347 16 - 170899992 ---------CCT---ATTTT-TCATTATT
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108529981 16 + 167655696 ---------CCC---ATTTT-TCATTATT
+q rheMac2.chr4 ---------999---99999-99999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 91825 16 - 523245 ---------CCT---ATTTT-TCATTCTT
+i calJac1.Contig1260 C 0 C 0
+s dasNov1.scaffold_16647 47247 16 - 51472 ---------CCA---GCTTT-CCACTATC
+q dasNov1.scaffold_16647 ---------999---99999-99999999
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 7277 16 + 41726 ---------CCA---GCTTT-CTATTCTC
+q loxAfr1.scaffold_33178 ---------998---99999-99999999
+i loxAfr1.scaffold_33178 C 0 C 0
+s echTel1.scaffold_276671 7544 14 - 58026 ---------CCA---GGGTC-CCA--CTC
+q echTel1.scaffold_276671 ---------999---99999-999--999
+i echTel1.scaffold_276671 C 0 C 0
+s galGal3.chr3 61588985 3 - 113657789 --------------------------TTT
+i galGal3.chr3 C 0 C 0
+s gasAcu1.chrXVIII 3642658 17 - 16282716 TCTTCACATCAA---ATGTT---------
+q gasAcu1.chrXVIII 999999999999---99999---------
+i gasAcu1.chrXVIII C 0 C 0
+s danRer5.chr21 16488432 16 + 46057314 ----CACATAAATACACATT---------
+i danRer5.chr21 C 0 I 3
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e oryLat1.chr22 12883708 3 - 28810691 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+
+a score=50651.000000
+s mm9.chr10 3211756 42 + 129993255 TGAAGC------------AGTCAGCGCTAAACTGAA----CACACTTGCATTTACCCA--------
+s rn4.chr1 230030321 24 - 267910886 CGAAGC------------AGT----GCTTAGCTGCA----CA--------------TA--------
+q rn4.chr1 999999------------999----99999999999----99--------------99--------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 114874 38 - 139458 GTAAGT------------AGT----GCTAAGAGGAA----CACGTTTGCATCTGCATA--------
+q oryCun1.scaffold_214769 599579------------655----54967979689----996999578766579899--------
+i oryCun1.scaffold_214769 C 0 C 0
+s bosTau3.chr9 13748691 38 - 95030419 TTAAGC------------AGT----GCTAGAATGAA----CAGATTTGTATCTGCCTA--------
+q bosTau3.chr9 999999------------999----99999999999----999999999999999999--------
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78277733 37 - 125616256 TTAAGT------------AGT----ACT-GGATGAA----TATATTGGTGTCTGCTTA--------
+q canFam2.chr1 999999------------999----999-9999999----999999999999999999--------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 143604 34 - 219823 ttaagt------------agt----gctaagatgaa----catcttggtgtc----ta--------
+q felCat3.scaffold_217398 665855------------869----85558564886----559996968969----69--------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13069876 38 + 24938454 ttaagt------------agt----gctaagatgaa----catatttgtatctgccta--------
+q equCab1.chr31 999999------------999----99999999999----999999999999999999--------
+i equCab1.chr31 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412039 38 - 498454 TTAAGT------------AGT----GCTAAGATGAA----CATATGTGCATCTGCCTA--------
+q tupBel1.scaffold_114895.1-498454 999998------------999----98999997999----999999999999987999--------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s ponAbe2.chr6 16427516 38 - 174210431 TTAGGT------------TGT----GCTAACATGAG----CATACTTATGCCTGCCTA--------
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16638759 38 - 173908612 TTAGGT------------TGT----GCTAACATGAG----CATACTTACGCCTGCCTA--------
+q panTro2.chr6 999999------------999----99999999999----999999999999999999--------
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16114363 38 - 170899992 TTAGGT------------TGT----GCTAACATGAG----CATACTTACGCCTGCCTA--------
+i hg18.chr6 C 0 I 1
+s rheMac2.chr4 108529997 38 + 167655696 TTAGGT------------TGT----GCTAACATGAA----CATACTTGTGCCTGCCTA--------
+q rheMac2.chr4 999999------------999----99999999999----999999999999999999--------
+i rheMac2.chr4 C 0 I 1
+s calJac1.Contig1260 91841 38 - 523245 TTATGT------------CAT----GAGAACATGAA----CATATTTGTGCCTGTCTA--------
+i calJac1.Contig1260 C 0 I 1
+s dasNov1.scaffold_16647 47263 36 - 51472 TTGAGT------------AGT----GCTCCAGTGAA----CCGA--TTTATCCACCTG--------
+q dasNov1.scaffold_16647 999999------------999----99999999999----9999--999999999999--------
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 7293 38 + 41726 TTAACT------------AGT----GCTAAAGTGAA----CATATTTGTATCTACCTA--------
+q loxAfr1.scaffold_33178 999999------------999----99999999999----999999999999999999--------
+i loxAfr1.scaffold_33178 C 0 C 0
+s echTel1.scaffold_276671 7558 38 - 58026 TCAGTT------------TGT----GCCATAGCAAG----CAGACGCTCCTCTGCCCA--------
+q echTel1.scaffold_276671 999999------------999----99999999999----999999999999999999--------
+i echTel1.scaffold_276671 C 0 C 0
+s galGal3.chr3 61588988 47 - 113657789 TTAGGTTCACTGAAAATCAGT----GTTTGACTTAA----CAAG---GGGATTGCTTA--------
+i galGal3.chr3 C 0 C 0
+s gasAcu1.chrXVIII 3642675 47 - 16282716 ---Gga------------att----gttcatttaaaatTTCCAGTGGCTGTTGGACAACAACTTCA
+q gasAcu1.chrXVIII ---999------------999----99999999999999999999999999999999999999999
+i gasAcu1.chrXVIII C 0 C 0
+s oryLat1.chr22 12883711 42 - 28810691 --TGAA------------GTT----ATCCAAGTCAA----CCAGCAGACAGTGG--TACAAATACA
+q oryLat1.chr22 --9999------------999----99999999999----99999999999999--9999999999
+i oryLat1.chr22 I 3 C 0
+s danRer5.chr21 16488451 39 + 46057314 --AAAA------------AGc----acacacacaca----cacacacacaA-----AAAAAATGCC
+i danRer5.chr21 I 3 C 0
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e monDom4.chr2 106267487 565 - 541556283 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e ornAna1.chr2 14908590 766 - 54797317 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+
+a score=-246359.000000
+s mm9.chr10 3211798 47 + 129993255 TTTG--------------CTCATA-------------ACT-TGAGTTTCCTCAAC-------ATAA-----------GTT----C---------------------------AC------------------TGGCTCATGA
+s echTel1.scaffold_276671 7596 61 - 58026 CTTGC-----------------CA-------------GTC-CGTGCCTTCTGGCG-------ATCG-----------ATTCTAAC---------------------------TAAGGTTTGATGTTTTCCC-TCATTC----
+q echTel1.scaffold_276671 99999-----------------99-------------999-99999999999999-------9999-----------99999999---------------------------9999999999999999999-999999----
+i echTel1.scaffold_276671 C 0 I 4
+s loxAfr1.scaffold_33178 7331 54 + 41726 TTT----------------------------------GTC-CATAACTTCTTGGG-------ATAA-----------ATT----C---------------------------ATAGGTTTGATTTTTTTTCATTATTC----
+q loxAfr1.scaffold_33178 999----------------------------------999-97999999999999-------9799-----------999----9---------------------------99999899999999999995999999----
+i loxAfr1.scaffold_33178 C 0 I 4
+s dasNov1.scaffold_16647 47299 60 - 51472 ATCGT--------------TTACA-------------GCC-CTGATTTCCTTGAA-------GTAA-----------ATT----C---------------------------ATAGACTTCTGATTTTTAA-TTATTC----
+q dasNov1.scaffold_16647 99999--------------99999-------------999-99999999999999-------9999-----------999----9---------------------------9999999999999999999-999999----
+i dasNov1.scaffold_16647 C 0 I 4
+s calJac1.Contig1260 91880 75 - 523245 TTTGTCTCTGTGTATTTGCTCATA-------------GCT-CTGATTGCC-TAAG-------ATAA-----------ATT----C---------------------------ATAGGTTCGG--TTTTTCG-TTATTCATGA
+i calJac1.Contig1260 I 1 I 1
+s rheMac2.chr4 108530036 76 + 167655696 TTTGTTTCTATGTATTTGCTCACA-------------ACT-CAGATTGCCTCGAG-------ATAA-----------ATT----C---------------------------ATAGGTTCAG--TTTTTCA-TTATTCATGA
+q rheMac2.chr4 999999999999999999999999-------------999-99999999999999-------9999-----------999----9---------------------------9999999999--9999999-9999999999
+i rheMac2.chr4 I 1 I 8
+s hg18.chr6 16114402 78 - 170899992 TTTGTTTCTATGTATCTGCTCACA-------------ACC-CTGACTGCCCTGAG-------ATAA-----------ATT----C---------------------------ATAGGTTCGGTTTTTTTCG-TTATTCATGA
+i hg18.chr6 I 1 I 1
+s panTro2.chr6 16638798 78 - 173908612 TTTGTTTCTATGTATCTGCTCACA-------------ACC-CTGACTGCCCTGAG-------ATAA-----------ATT----C---------------------------ATAGGTTCGGTTTTTTTCG-TTATTCATGA
+q panTro2.chr6 999999999999999999999999-------------999-99999999999999-------9999-----------999----9---------------------------9999999999999999999-9999999999
+i panTro2.chr6 I 1 I 1
+s ponAbe2.chr6 16427555 77 - 174210431 TTTGTTTCTGTGTATCTGCTCACA-------------ACC-CTGACTGCCTTGAG-------ATAA-----------ATT----C---------------------------ATAGGTTCGG-TTTTTTCG-TTATTCATGA
+i ponAbe2.chr6 I 1 I 1
+s tupBel1.scaffold_114895.1-498454 412077 76 - 498454 CCTGTATCCACCTAAGCGCTTACA-------------ATT-CTGCTTTCCTTGAG-------ATTA-----------ATT----C---------------------------ATAGGTTTGG--GTTTTCA-TTATTCATGA
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999-------------999-99999999999999-------9999-----------999----9---------------------------9999999999--9999999-9999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s equCab1.chr31 13069914 74 + 24938454 tttgtacctacctttgtgctcaca-------------gct---gatttccttgag-------agaa-----------att----c---------------------------atagGTCCCA--TTTTTCT-TCATTCATGA
+q equCab1.chr31 999999999999999999999999-------------999---999999999999-------9999-----------999----9---------------------------9999999999--9999999-9999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 143638 60 - 219823 tt--------------tgctcgct-------------cct---gatttccttgaa-------ataa-----------atG----C---------------------------ATAACTTTGA--TTTTTCA-TTATTCCTGA
+q felCat3.scaffold_217398 69--------------99798777-------------676---964966666968-------6668-----------667----5---------------------------4767558666--4999544-5565545576
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78277770 60 - 125616256 TT--------------TGCTCACA-------------ACT---GATTTCCTTGAA-------ATAA-----------ATT----C---------------------------ATAGATTTGA--TTTTTCA-TAATTCATGA
+q canFam2.chr1 99--------------99999999-------------999---999999999999-------9999-----------999----9---------------------------9999999999--9999999-9999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13748729 87 - 95030419 TT--------------TGCTCATA-------------GCT---GATTTCCTTGAG-------ATGA-----------ATT----CAAGGAAATTTGAATTCCTTGAACTCAAATAGGCTTGA--GTTTTCA-TTATTCATGA
+q bosTau3.chr9 99--------------99999999-------------999---999999999999-------9999-----------999----99999999999999999999999999999999999999--9999999-9999999999
+i bosTau3.chr9 C 0 C 0
+s oryCun1.scaffold_214769 114912 59 - 139458 TTTGTATCTCC-------CTCTTT-------------ACT---AATTGCGATGTC-------CTAG-----------GTT----T---------------------------GA----------TCATCTC-AGTCTCATGA
+q oryCun1.scaffold_214769 99397577999-------579989-------------999---994763986798-------7968-----------999----4---------------------------66----------7987479-6795898567
+i oryCun1.scaffold_214769 C 0 I 1
+s rn4.chr1 230030345 61 - 267910886 TTTG--------------CTCATG-------------ACT-TGAATTTCCTTAAG-------ATAA-----------GTT----C---------------------------ACTGGTTAG---ACTTTCA-TGGCTTGTGA
+q rn4.chr1 9999--------------999999-------------999-99999999999999-------9999-----------999----9---------------------------999999999---9999999-9999999999
+i rn4.chr1 C 0 C 0
+s ornAna1.chr2 14909356 49 - 54797317 TT--------------TACTTCTG-------------ACTGATGCTCTTCCTGAA-------AG--------------------C---------------------------ATAAATTT----GTTTCCC-TCA-------
+i ornAna1.chr2 I 766 C 0
+s monDom4.chr2 106268052 39 - 541556283 ---------------------------------------------------TGAT-------CAAT-----------ACT----T---------------------------CAAATTCTGA--ATTTTGA-TTACCTATGG
+q monDom4.chr2 ---------------------------------------------------9999-------9999-----------999----9---------------------------9999999999--9999999-9999999999
+i monDom4.chr2 I 565 C 0
+s galGal3.chr3 61589035 31 - 113657789 --------------TTTATTCACT-------------TTC-----------TGAA-------AAGT-----------AGT----A---------------------------TCAAAT------------------------
+i galGal3.chr3 C 0 C 0
+s gasAcu1.chrXVIII 3642722 62 - 16282716 ----------------------TTAACTAGTTAAGAAATC-TTAATTCCTGCCAGCGCCCTCTGagtgtctgctgctgct----c---------------------------aaga--------------------------
+q gasAcu1.chrXVIII ----------------------999999999999999999-999999999999999999999999999999999999999----9---------------------------9999--------------------------
+i gasAcu1.chrXVIII C 0 n 0
+s oryLat1.chr22 12883753 38 - 28810691 ----------------------TT-------------CCT-TTTGTTTCGATCAACATAATTTTAA-----------ACT----C---------------------------ACaa--------------------------
+q oryLat1.chr22 ----------------------99-------------999-9999999999999999999999999-----------999----9---------------------------9999--------------------------
+i oryLat1.chr22 C 0 I 32
+s danRer5.chr21 16488490 32 + 46057314 ----------------------TT-------------GTG-CTTTTTTCTCCCAA-----TCTAAA-----------GC-----A---------------------------ATGA--------------------------
+i danRer5.chr21 C 0 I 15
+e tetNig1.chr10 10165907 11 - 12859810 I
+e fr2.chrUn 66179430 69 + 400509343 I
+e xenTro2.scaffold_2 3912324 2347 + 7803671 I
+e anoCar1.scaffold_0 8817490 2678 + 16654889 I
+e eriEur1.scaffold_220537 6208 1020 - 7736 I
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+e otoGar1.scaffold_85251.1-136255 11879 162 - 136255 I
+
+a score=1243897.000000
+s mm9.chr10 3211845 83 + 129993255 CCACGCCTCTCTCCTCCTTTTCC--------------CA-----AGGTTGGGTGGCAGTTGAAAAATCTGGTGAGAAAGTTGAGAGAGAACCCCACGGGCGT
+s galGal3.chr3 61589066 81 - 113657789 TAAAGATGCCATTATTCTT------------TT----AA-----AGGTTGGGTGGCAACTAAAAAATCTTGTGGCAAAATTGCGAGAGAATCCTGCTGGAGT
+i galGal3.chr3 C 0 C 0
+s monDom4.chr2 106268091 83 - 541556283 --AAATAACCTTTTCCC-----CTCC---CTCT----GA-----AGGTGGGATGGCAATTAAAAAATCTGGTGCGGAAGTTGCGAGAGAATCCTACAGGAGT
+q monDom4.chr2 --999999999999999-----9999---9999----99-----9999999999999999999999999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s echTel1.scaffold_276671 7661 91 - 58026 GTGAG-CCCCTTGCCTGTTTCTTTGCTT-TTTT----GA-----AGGTGGGGTGGCAGCTCAAAAACCTGGTGAAGAAGCTGAGAGAGAACCCCACAGGGGT
+q echTel1.scaffold_276671 99999-9999999999999999999999-9999----99-----9999999999999999999999999999999999999999999999999999999999
+i echTel1.scaffold_276671 I 4 C 0
+s loxAfr1.scaffold_33178 7389 88 + 41726 GTGAGATCCCTTGCCTCTTTTTTTG-----TTT----GA-----AGGTGGGATGGCAGCTAAAAAATCTGGTGAGAAAATTGAGAGAGAATCCCACGGAAGT
+q loxAfr1.scaffold_33178 9999976977999889999999999-----699----78-----9985999769778999799998997996999999789999999765769889999878
+i loxAfr1.scaffold_33178 I 4 C 0
+s dasNov1.scaffold_16647 47363 93 - 51472 GTACGTCGTCCTGCCTCATTTTATTTTTCCTTT----AA-----AGGTGGGATGGCAGTTAAAAAATCTGGTGAGAAAATTGAGAGAGAATCCCATGGGAGT
+q dasNov1.scaffold_16647 999999999999999999999999999999999----99-----9999999999999999999999999999999999999999999999999999999999
+i dasNov1.scaffold_16647 I 4 C 0
+s otoGar1.scaffold_85251.1-136255 12041 83 - 136255 -------CCCCTTCTCACTTTTTTTC---TTTT----GA-----AGGTGGGGTGGCAGCTAAAAAATCTGGTGAAGAAACTGAGAGAAAATCCCTCAGGAGT
+q otoGar1.scaffold_85251.1-136255 -------4775555564558889966---7784----55-----6555777556355545576672555543535538566565655882548558575765
+i otoGar1.scaffold_85251.1-136255 I 162 C 0
+s canFam2.chr1 78277830 90 - 125616256 GTGAGTCCCTTCTCCTCATTTTCTTT---CTTT----GA-----AGGTGGGATGGCAGCTAAAAAATCTGGTGAGAAAATTGAGAGAGAACCCCACAGGAGT
+q canFam2.chr1 99999999999999999999999999---9999----99-----9999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 143698 89 - 219823 GTGAGTCCGTTTTCCTCATTTTCCTT---CTTT----GA-----A-GTGGGATGGCAGCTGAAAAATCTGGTGAGGAAGTTGAGGGAGAATCCTACTGGCGT
+q felCat3.scaffold_217398 35554545547754534368754625---5365----54-----1-21375225344353235664365542553644325342763143322222246223
+i felCat3.scaffold_217398 C 0 I 114
+s equCab1.chr31 13069988 90 + 24938454 GCGACTCTCCTCTCCTCTTTTTCTTT---CTTT----GA-----AGGTGGGATGGCAGCTGAAAAATCTGGTGAGAAAATTGAGAGAGAATCCTTCAGGAGT
+q equCab1.chr31 99999999999999999999999999---9999----99-----9999999999999999099999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13748816 90 - 95030419 GTAAGTCCCCTCTCCTCACTATCTTT---CTTT----GA-----AGGTGGGATGGCAGCTAAAAAATCTGGTGAGAAAGTTGAGAGAGAATCCTACTGGAGT
+q bosTau3.chr9 99999999999999999999999999---9999----99-----9999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412154 89 - 498454 -CAAGTCCTCCCCCCTCATTTGCTTT---CTTT----GA-----AGGTGGGGTGGCAGCTGAAAAATCTGGTGAGAAAATTGAGAGAGAATCCCACAGGAGT
+q tupBel1.scaffold_114895.1-498454 -9999999999999999999999999---9999----99-----9999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s calJac1.Contig1260 91956 85 - 523245 -CAAGTCTCCCCTCCCCAT----TTT---CTTT----GA-----AGGTGGGATGGCAGCTGAAAAATCTGGTGAAGAAATTGAGAGAGAATCCCACAGGAGT
+i calJac1.Contig1260 I 1 C 0
+s rheMac2.chr4 108530120 89 + 167655696 -CAAGTCCTCCCTCTCCATTTTCTTT---ATTT----GA-----AGGTGGGATGGCAGCTGAAAAATCTGGTGAAGAAATTGAGAGAGAATCCCACAGGAGT
+q rheMac2.chr4 -9999999999999999999999999---9999----99-----9999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 8 C 0
+s hg18.chr6 16114481 89 - 170899992 -CAAGTCTTCCCTCCCCATTTGCTTT---CTTT----GA-----AGGTGGGATGGCAGCTGAAAAATCTGGTGAAGAAATTGAGAGAGAATCCCACCGGAGT
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16638877 89 - 173908612 -CAAGTCTTCCCTCCCCATTTGCTTT---CTTT----GA-----AGGTGGGATGGCAGCTGAAAAATTTGGTGAAGAAATTGAGAGAGAATCCCACCGGAGT
+q panTro2.chr6 -9999999999999999999999999---9999----99-----9999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16427633 89 - 174210431 -CAAGTCCTCCCTCCCCATTTGCTTT---CTTT----GA-----AGGTGGGATGGCAGCTGAAAAATCTGGTGAAGAAATTGAGAGAGAATCCCACAGGAGT
+i ponAbe2.chr6 I 1 C 0
+s oryCun1.scaffold_214769 114972 90 - 139458 CTAAGTCTTCCTTCCTCATTTGCTTG---CTCT----GA-----AGGTGGGTTGGCAACTGAAAAACCTGGTCAGGAAGCTGAGGGAGAATCCCACTGGAGT
+q oryCun1.scaffold_214769 69967978896999689999789966---5684----69-----9995899949999984799999985769979998876889997996899996149999
+i oryCun1.scaffold_214769 I 1 C 0
+s rn4.chr1 230030406 94 - 267910886 CCATGCCTCCCTCCTCCGTTTCCTTT---CCCTCTTTCC-----AGGTCGGGTGGCAGTTGAAGAATCTGGTGAAGAAGTTGAGAGAGAATCCCACAGGCGT
+q rn4.chr1 99999999999999999999999999---9999999999-----9999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s danRer5.chr21 16488537 69 + 46057314 ---------------------TTGTT---TTGT----GC-----AGGTGGGCTGGCAGCTGAAGAACCTGGTTAACTCTTTACGGAGCAACCCTGCGGGTGT
+i danRer5.chr21 I 15 C 0
+s fr2.chrUn 66179499 69 + 400509343 ------------------------TC---CTGT----GCACC--AGGTGGGATGGCAGCTGAAAAACCTTGTCGTCAAACTGCGAGAGGACCCCAAAGGTGT
+i fr2.chrUn I 69 C 0
+s tetNig1.chr10 10165918 58 - 12859810 --------------------------------------------AGGTGGGATGGCAACTGAAAAACCTCGTCGTTAAACTGCGAGAGGACCCCAAAGGTGT
+i tetNig1.chr10 I 11 C 0
+s gasAcu1.chrXV 12520884 73 - 16198764 --------------------CTGATC---CTGC----TAACC--AGGTGGGCTGGCAGCTGAAAAACCTGGTCTTCAAACTGAGGGAGGACCCCAAAGGTGT
+q gasAcu1.chrXV --------------------999999---9999----99999--9999999999999999999999999999999999999999999999999999999999
+i gasAcu1.chrXV I 93 C 0
+s oryLat1.chr22 12883823 75 - 28810691 --------------------ATTATC---CTGT----TTTCCTTAGGTGGGCTGGCAGCTTAAAAACCTGGTGTTGAAACTGAGAGAGGACCCCAAAGGTGT
+q oryLat1.chr22 --------------------999999---9999----99999999999999999999999999999999999999999999999999999999999999999
+i oryLat1.chr22 I 32 C 0
+s eriEur1.scaffold_220537 7228 77 - 7736 -------------cctctcttttctt---ctct----ac-----agGTGGGGTGGCAGCTGAAAAACCTGGTGAGAAAGTTGAGAGAGAATCCTACAGGAGT
+q eriEur1.scaffold_220537 -------------9999999999999---9999----99-----9999999999999999999999999999999999999999999996999999999999
+i eriEur1.scaffold_220537 I 1020 C 0
+s ornAna1.chr2 14909405 79 - 54797317 -------------CTGGAGTTCCTTTCT-CTTT----GA-----AGGTTGGGTGGCAGTTAAAAAACCTTGTGAAAAAGTTGCGAGAGAATCCTACAGGAGT
+i ornAna1.chr2 C 0 C 0
+s anoCar1.scaffold_0 8820168 64 + 16654889 -----------------------------TTTT----GA-----AGGTGGGATGGCAGCTGAAAAATCTTGTGAGGAAGCTccgagagaatccttctggagt
+q anoCar1.scaffold_0 -----------------------------9999----99-----9999999999999999999999999999999999999999999999999999999999
+i anoCar1.scaffold_0 I 2678 C 0
+s xenTro2.scaffold_2 3914671 72 + 7803671 ------------------TTTTTATT---TTTT----TA-----AGGTTGGCTGGCAATTAAAGAATCTTGTAGCCAGGCTGAGGGATAATTCAGGTGCAGT
+i xenTro2.scaffold_2 I 2347 C 0
+e cavPor2.scaffold_265563 10381 0 + 10554 I
+
+a score=1769275.000000
+s mm9.chr10 3211928 99 + 129993255 GGTGCTGCTGCTGAAGAAGAGGCCCACGGGCTC---CTTCAGCTTCACTCCGGCCCCACTGAAGAACCTGCGGTGGAAGCCACCGCTCGTGCAGGTAACTGT--
+s rn4.chr1 230030500 99 - 267910886 GGTGCTGCTGCTGAAGAAGAGGCCCACGGGCTC---ATTCAGCTTCACTCCAGCCCCGCTGAAGAACCTGAGGTGGAAGCCACCCCTCGTGCAGGTATCTGT--
+q rn4.chr1 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 22 99 + 3980 TGTGTTACTGCTGAAGAAGAGGCCTACGGGTTC---GTTCAAGTTCACCCCTGCCCCTTTGAAGAACCTGCGGTGGAAGCCACCTCTCGTGCAGGTACCTGT--
+q cavPor2.scaffold_221190 975768869621111175799419999899998---889968999968999999744899999999899999999999889999999999999998989999--
+i cavPor2.scaffold_221190 n 0 C 0
+s oryCun1.scaffold_214769 115062 102 - 139458 CGTGTTACTGCTCAAGAGGCGGCCCTCCGGTCCTTTCTTCAACTTCACGCCGGCTCCCCTGAAGAACCTGCGGTGGAAGCCGCCTCTCGTGCAGGTACCGCT--
+q oryCun1.scaffold_214769 897999998888999989959999689988999999799999999999998998899986997999989989969999999998889999999999998998--
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427722 99 - 174210431 TGTGTTACTGCTTAAGAAGCGCCCCACCGGGTC---TTTCAACTTTACTCCTGCTCCCCTGAAAAACCTACGGTGGAAGCCACCTCTTGTACAGGTATCTGG--
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16638966 99 - 173908612 TGTGTTACTGCTTAAGAAGCGCCCCACCGGGTC---TTTCAACTTTACTCCTGCTCCCCTGAAAAACCTACGGTGGAAGCCACCTCTTGTACAGGTATCTGG--
+q panTro2.chr6 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114570 99 - 170899992 TGTGTTACTGCTTAAGAAGCGCCCCACCGGGTC---TTTCAACTTTACTCCTGCTCCCCTGAAAAACCTACGGTGGAAGCCACCTCTTGTACAGGTATCTGG--
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108530209 99 + 167655696 TGTGTTACTGCTTAAGAAGCGCCCCACTGGGTC---TTTCAACTTTACTCCTGCTCCCTTGAAAAACCTACGTTGGAAGCCACCTCTTGTACAGGTATCTGG--
+q rheMac2.chr4 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 92041 99 - 523245 TGTGTTACTGCTGAAGAAGCGCCCCACCGGGTC---TTTCAACTTCACTCCTGCCCCACTGAAAAACCTGCGGTGGAAGCCGCCTCTCGTACAGGTATCTGG--
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 12124 99 - 136255 TGTTCTGCTGCTGAAGAAGCGTCCCCCCGGGTC---TTTCAACTTCACCCCTGCCCCCCTGAAGAACCTGCGATGGAAGCCGCCCCTGGTCCAGGTACCCAT--
+q otoGar1.scaffold_85251.1-136255 555765555556543557533488998668268---999784666966999754999967796866987567965879568889976886998587869999--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412243 99 - 498454 TGTGCTACTGCTGAAGAAACGCCCCACGGGTTC---TTTCAACTTTACTCCTGCTCCCCTGAAAAACCTACGGTGGAAGCCGCCTCTTGTGCAGGTACCTGC--
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 7305 96 - 7736 CGTGCTGCTGCTTAAGAAGCGCCCCACAGGCTC---CTTCAACTTCACTCCTGCGCCCCTAAAAAACCTGCGCTGGAAGCCGCCTCTCGTGCAGGTACA-----
+q eriEur1.scaffold_220537 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999-----
+i eriEur1.scaffold_220537 C 0 I 27
+s canFam2.chr1 78277920 97 - 125616256 CGTATTGCTGCTTAAGAAGCGCCCCACGGGTTC---TTTTAACTTTACTCCTGCTCCCCTGAAAAATCTACGGTGGAGACCACCTCTGGTACAGGTA--TCT--
+q canFam2.chr1 999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999--999--
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13070078 97 + 24938454 TGTGTTACTGCTGAAGAAGCGCCCCACGGGTAC---TTTCAACTTTACTCCTGCTCCCCTGAAAAACCTGCGGTGGAAGCCGCCTCTTGTCCAGGTA--TCT--
+q equCab1.chr31 999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999--999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13748906 98 - 95030419 TGTGTTACTGCTTAAGAAGCGCCCCACGAGTTC---CTTCAACTTCACTCCTGCCCCCCTGAAAAACCTACGGTGGAAGCCGCCTCTGGTGCAGGTAC-TGT--
+q bosTau3.chr9 999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999-999--
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 47456 97 - 51472 TGTGCTGCTGCTGAAGAAGCGCCCCACGGGCTC---TTTCAACTTTACTCCTGCTCCTCTGAAAAACCTCCGGTGGAAGCCGCCACTTGTGCAGGTA--TCT--
+q dasNov1.scaffold_16647 999999999999999999999999989999999---9999999999999999999999999999999999999999999999999999999999999--999--
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 7477 98 + 41726 TGTATTACTGCTTAAGAAGCGCCCCACGGGTTC---CTTCCACTTCACTCCTGCTCCCCTGAAAAACCTACGGTGGAAGCCGCCTCTGGTGCAGGTA-CATT--
+q loxAfr1.scaffold_33178 986697989979869799965799657997766---8875856997969965958699668699968699789898697999999999999979997-9999--
+i loxAfr1.scaffold_33178 C 0 C 0
+s echTel1.scaffold_276671 7752 99 - 58026 CGTGCTACTGCTGAAGAAACGTCCCACGGGTTC---CTTCAACTTCACCCCCGCACCCCTGAAGAACCTGCGCTGGAAGCCGCCTCCCGTGCAGGTAGCTCT--
+q echTel1.scaffold_276671 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999--
+i echTel1.scaffold_276671 C 0 C 0
+s monDom4.chr2 106268174 96 - 541556283 CGTGCTTCTCCTCAAGAAACGCCCCACGGGTTC---TTTCAACTTTACCCCTGCTCCATTGAAAAATCTACGATGGAAGCCACCTCTTGTTCAGGTACC-----
+q monDom4.chr2 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999-----
+i monDom4.chr2 C 0 I 4804
+s ornAna1.chr2 14909484 96 - 54797317 TGTACTACTGCTTAAGAAACGTCCCACGGGTTC---ATTCAACTTTACACCTGCTCCGCTGAAAAATCTAAGATGGAAGCCTCCTCTTGTGCAGGTATC-----
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61589147 95 - 113657789 GAGGCTGCTTCTCAAGAAACGTCCAACTGGCTC---TTTTCACTTCACCCCTGCTCCACTGAAGAACCTGCGCTGGAAGCCACCCTTGGTGCAGGTAA------
+i galGal3.chr3 C 0 I 1493
+s anoCar1.scaffold_0 8820232 95 + 16654889 AAATTTGCTAGTGAAGAAACGCCATACAGGCTC---TTTCAACTTTACTCCTGCCCCACTAAAAAACTTAAGGTGGAAGCCACCACTAGTTCAGGTAA------
+q anoCar1.scaffold_0 999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999------
+i anoCar1.scaffold_0 C 0 I 5
+s xenTro2.scaffold_2 3914743 95 + 7803671 CACACTACTTCTGAAAAAGAGACCTACCAGCAG---CTTGAATTTTACTCCAGCGCCTTTAAAAAACCTGAGATGGAGGCCTCAGCTTGTACAGGTAA------
+i xenTro2.scaffold_2 C 0 I 1215
+s oryLat1.chr22 12883898 97 - 28810691 GGTGCTAGTGCTTAAGAAGAGGCCCTCAGGAAC---ACCTGGTTTCACCCCCGCCCCGCTCAAAAACATGCGCTGGAAGCCTCCTGTACCTCAGGTGCA--A--
+q oryLat1.chr22 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999--9--
+i oryLat1.chr22 C 0 I 4
+s gasAcu1.chrXV 12520957 97 - 16198764 GGTTCTCCTCCTTAAGAAGAGGCCCACGGGCAT---AACCGGTttcacccccgcccccctcaagAACATGCGCTGGAAGCCCCCGGTACAGCAGGTACA--T--
+q gasAcu1.chrXV 999999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999--9--
+i gasAcu1.chrXV C 0 I 1156
+s tetNig1.chr10 10165976 97 - 12859810 GATCCTGCTTCTTAAGAAGAGGCCGACAAGCAC---AACAGGGTTCACTCCTGCCCCGCTTAAAAACATGCGCTGGAAGCCCCCAGTGCAACAGGTCgg--t--
+i tetNig1.chr10 C 0 I 18
+s fr2.chrUn 66179568 99 + 400509343 GCTTCTACTTCTTAAGAAGAGGCCCACAGGCAC---AACAGGTTTCACTCCTGCCCCGCTTAAAAACATGCGCTGGAAGCCCCCGGTACCACAGGTAgg--tgt
+i fr2.chrUn C 0 I 1070
+s danRer5.chr21 16488606 94 + 46057314 GACCCTGACGCTGAAGAAGCGGCCCCAGAGCAC---ATTGACGTCGGCCCCAGCCTTACTCAAGAACATGAGGTGGAAGCCCCTCGCTCTGCAGGTA-------
+i danRer5.chr21 C 0 I 1304
+e felCat3.scaffold_217398 143787 114 - 219823 I
+
+a score=-190706.000000
+s mm9.chr10 3212027 19 + 129993255 G-----A------CATCAGAGACCT--TCCT----C
+s rn4.chr1 230030599 20 - 267910886 G-----A-----CCATCGTAGACCT--TCAC----C
+q rn4.chr1 9-----9-----9999999999999--9999----9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 121 24 + 3980 C-----A-----TTTTTGTAGGATG--TTTTAGCAT
+q cavPor2.scaffold_221190 9-----9-----9999999999989--899998999
+i cavPor2.scaffold_221190 C 0 C 0
+s oryCun1.scaffold_214769 115164 20 - 139458 G-----G-----TCCCTGCGGGCCT--TTGT----C
+q oryCun1.scaffold_214769 9-----9-----8898999999999--9899----8
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427821 21 - 174210431 G-----AT----TAACTGTAAACCT--CCAT----C
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16639065 21 - 173908612 G-----AT----TAACTGTAAACCT--CCAT----C
+q panTro2.chr6 9-----99----9999999999999--9999----9
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114669 21 - 170899992 G-----AT----TAACTGTAAACCT--CCAT----C
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108530308 21 + 167655696 G-----AT----TGACTGTAAGCCT--CCGT----C
+q rheMac2.chr4 9-----99----9999999999999--9999----9
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 92140 20 - 523245 G-----AT----TAACTGTAAA-CT--CCAT----T
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 12223 20 - 136255 T-----GG----TCATTGTGACCCT---CGT----C
+q otoGar1.scaffold_85251.1-136255 6-----76----6999967989999---859----9
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412342 21 - 498454 T-----AA----TCCTTGCTCGCCT--TCAT----C
+q tupBel1.scaffold_114895.1-498454 9-----99----9999999999999--9999----9
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 7428 19 - 7736 G-----CT----TG--TGAGGGGCT--CCAT----C
+q eriEur1.scaffold_220537 9-----99----99--999999999--9999----9
+i eriEur1.scaffold_220537 I 27 C 0
+s canFam2.chr1 78278017 22 - 125616256 G-----TT---ATGGTTGTAAACCT--TTAT----C
+q canFam2.chr1 9-----99---99999999999999--9999----9
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13070175 21 + 24938454 T-----AT----CAGTTGCAAACTT--TCAT----C
+q equCab1.chr31 9-----99----9999999999999--9999----9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13749004 21 - 95030419 T-----AT----TGGTTGAAAGCCT--TTCT----T
+q bosTau3.chr9 9-----99----9999999999999--9999----9
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 47553 27 - 51472 GTTCTTAGTGCTCAGCTTT---CCT--CCAG----C
+q dasNov1.scaffold_16647 9999999999999999999---999--9989----9
+i dasNov1.scaffold_16647 C 0 C 0
+s loxAfr1.scaffold_33178 7575 20 + 41726 G-----TT-----AGCTGTAGGCCT--TTAC----C
+q loxAfr1.scaffold_33178 9-----97-----999999899999--9979----7
+i loxAfr1.scaffold_33178 C 0 C 0
+s echTel1.scaffold_276671 7851 1 - 58026 G-----------------------------------
+q echTel1.scaffold_276671 9-----------------------------------
+i echTel1.scaffold_276671 C 0 I 4974
+s ornAna1.chr2 14909580 10 - 54797317 ---------------TTTCACAACC-----------
+i ornAna1.chr2 C 0 I 24
+s anoCar1.scaffold_0 8820332 3 + 16654889 a-----at----------------------------
+q anoCar1.scaffold_0 9-----99----------------------------
+i anoCar1.scaffold_0 I 5 I 3445
+s tetNig1.chr10 10166091 19 - 12859810 -------------cgCCGCACATACTCCTGC----C
+i tetNig1.chr10 I 18 I 2
+s oryLat1.chr22 12883999 19 - 28810691 -------------ATCTTCAGATGCCCCTTT----C
+q oryLat1.chr22 -------------999999999999999999----9
+i oryLat1.chr22 I 4 I 1531
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+
+a score=-147726.000000
+s mm9.chr10 3212046 8 + 129993255 TA----GAGTA------------G---
+s rn4.chr1 230030619 8 - 267910886 TA----GAGTG------------G---
+q rn4.chr1 99----99999------------9---
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 145 20 + 3980 CA----GGGTGTAAACAGGGTCAG---
+q cavPor2.scaffold_221190 98----999989998989999999---
+i cavPor2.scaffold_221190 C 0 C 0
+s oryCun1.scaffold_214769 115184 8 - 139458 TC----GCTTC------------A---
+q oryCun1.scaffold_214769 99----98888------------9---
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427842 2 - 174210431 C----------------------A---
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16639086 2 - 173908612 C----------------------A---
+q panTro2.chr6 9----------------------9---
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114690 2 - 170899992 C----------------------A---
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108530329 16 + 167655696 TA----GCATCAGCACCTG----A---
+q rheMac2.chr4 99----9999999999999----9---
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 92160 16 - 523245 TA----GCATCAGCACCTG----A---
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 12243 16 - 136255 TG----TCACCCTCACGTG----A---
+q otoGar1.scaffold_85251.1-136255 96----6952998999689----9---
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412363 16 - 498454 TA----ACATCAGCCCGTG----A---
+q tupBel1.scaffold_114895.1-498454 99----9999999999999----9---
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 7447 7 - 7736 CT----TTATC----------------
+q eriEur1.scaffold_220537 99----99999----------------
+i eriEur1.scaffold_220537 C 0 C 0
+s canFam2.chr1 78278039 16 - 125616256 TG----CTATCAGCACATG----A---
+q canFam2.chr1 99----9999999999999----9---
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13070196 18 + 24938454 TG--GCCTCTCAGCTCCTG----A---
+q equCab1.chr31 99--999999999999999----9---
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13749025 16 - 95030419 TG----ACATTGGTGCAGG----A---
+q bosTau3.chr9 99----9999999999999----9---
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 47580 4 - 51472 ATAG-----------------------
+q dasNov1.scaffold_16647 9999-----------------------
+i dasNov1.scaffold_16647 C 0 I 463
+s loxAfr1.scaffold_33178 7595 2 + 41726 TG-------------------------
+q loxAfr1.scaffold_33178 99-------------------------
+i loxAfr1.scaffold_33178 C 0 I 14
+s tetNig1.chr10 10166112 8 - 12859810 ---------------TAGG----GGAG
+i tetNig1.chr10 I 2 C 0
+s oryLat1.chr10 8630886 4 - 27595823 -----------------------ACTA
+q oryLat1.chr10 -----------------------9999
+i oryLat1.chr10 I 15096 C 0
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+
+a score=-42225.000000
+s mm9.chr10 3212054 18 + 129993255 ACTGTG--GCACAGCTCTT------------T
+s rn4.chr1 230030627 18 - 267910886 GTTGTG--GCAGAGGTCTT------------C
+q rn4.chr1 999999--99999999999------------9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 165 18 + 3980 GACTTG--GCTTGTCtcat------------a
+q cavPor2.scaffold_221190 999999--99999999999------------9
+i cavPor2.scaffold_221190 C 0 C 0
+s oryCun1.scaffold_214769 115192 18 - 139458 GCAGTG--ACCAGCATCTC------------T
+q oryCun1.scaffold_214769 999989--99999988899------------8
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427844 30 - 174210431 ACAATG--TCGAGTATCTCATTAGTCTCCAAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16639088 30 - 173908612 ACAATG--TTGAGTATCTCATTAGTCTCCAAA
+q panTro2.chr6 999999--999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114692 30 - 170899992 ACAATG--TTGAGTATCTCATTAGTCTCCAAA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108530345 30 + 167655696 ACAATG--TCGAGTATCTCATTAGTCTCCAAA
+q rheMac2.chr4 999999--999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 92176 30 - 523245 ACAATG--CTGAGTATCTGATTTGTCTCCAAC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 12259 30 - 136255 ACAACG--TCCAGTGTCTGATCTGTCTCCCCT
+q otoGar1.scaffold_85251.1-136255 689686--799998799997899589999988
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412379 22 - 498454 ATAGTA--T--------TCACAAAGGAAAAAA
+q tupBel1.scaffold_114895.1-498454 999999--9--------999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 7454 22 - 7736 -CAGTG--TCAGTTT-------TGCCTCCAAA
+q eriEur1.scaffold_220537 -99999--9999999-------9999999999
+i eriEur1.scaffold_220537 C 0 C 0
+s canFam2.chr1 78278055 23 - 125616256 ACAGTA--TCAGATT-------TGTCTCCAGA
+q canFam2.chr1 999999--9999999-------9999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13070214 30 + 24938454 ACAATG--TCGAATTTCTGATATGTCTCCAAA
+q equCab1.chr31 999999--999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13749041 30 - 95030419 ACAATG--TATAATACCTGAGTTGTCTAAAAA
+q bosTau3.chr9 999999--999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_33178 7611 28 + 41726 GCAATG--TTGAATGTTTGATTTGTCTCTG--
+q loxAfr1.scaffold_33178 999999--9999999999999999999799--
+i loxAfr1.scaffold_33178 I 14 C 0
+s tetNig1.chr10 10166120 22 - 12859810 ATCGTCGACAACGCATCTTGTC----------
+i tetNig1.chr10 C 0 C 0
+s oryLat1.chr10 8630890 20 - 27595823 ATGGTT--CAGTTCAGCTCATT----------
+q oryLat1.chr10 999999--99999999999999----------
+i oryLat1.chr10 C 0 C 0
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e dasNov1.scaffold_16647 47584 463 - 51472 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+
+a score=-59698.000000
+s mm9.chr10 3212072 14 + 129993255 AAAAGAG-----------------------GGA--TTCA
+s rn4.chr1 230030645 14 - 267910886 AAAAAAG-----------------------GGA--TTGA
+q rn4.chr1 9999999-----------------------999--9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 183 33 + 3980 aaagaagagaaagcaaaataaaactc----aga--TTAA
+q cavPor2.scaffold_221190 99999999999999999999999999----899--9999
+i cavPor2.scaffold_221190 C 0 C 0
+s oryCun1.scaffold_214769 115210 21 - 139458 GGGTGGG------------TTTGTCA----CGA--TGAA
+q oryCun1.scaffold_214769 9998999------------9989999----999--8899
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427874 14 - 174210431 CAAAAAG-----------------------AAA--TTAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16639118 14 - 173908612 CAAAAAG-----------------------AGA--TTAA
+q panTro2.chr6 9999999-----------------------999--9999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114722 14 - 170899992 CAAAAAG-----------------------AGA--TTAA
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108530375 14 + 167655696 CAAAAAG-----------------------AGA--TAGA
+q rheMac2.chr4 9999999-----------------------999--9999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 92206 13 - 523245 CAAAAA------------------------AGA--CGAA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 12289 25 - 136255 CCAAAAG------------AATCCCCAAATAGA--CTAA
+q otoGar1.scaffold_85251.1-136255 7999999------------95799999999999--9999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412401 14 - 498454 AAAAGAG-----------------------AGA--TTAA
+q tupBel1.scaffold_114895.1-498454 9999999-----------------------999--8999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 7476 11 - 7736 AATAAAA-----------------------GGC--T---
+q eriEur1.scaffold_220537 9999999-----------------------999--9---
+i eriEur1.scaffold_220537 C 0 I 2
+s canFam2.chr1 78278078 11 - 125616256 AAGAAAA-----------------------ATT--A---
+q canFam2.chr1 9999999-----------------------999--9---
+i canFam2.chr1 C 0 I 198
+s equCab1.chr31 13070244 11 + 24938454 AAGCAAG-----------------------ATT--A---
+q equCab1.chr31 9999999-----------------------999--9---
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13749071 9 - 95030419 AAAAAAA-----------------------AA-------
+q bosTau3.chr9 9999999-----------------------99-------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_16647 48047 14 - 51472 AAGTGAA-----------------------AGA--TTGA
+q dasNov1.scaffold_16647 9999999-----------------------999--9999
+i dasNov1.scaffold_16647 I 463 C 0
+s loxAfr1.scaffold_33178 7639 14 + 41726 AAAAGGA-----------------------AGA--TTAA
+q loxAfr1.scaffold_33178 9999999-----------------------999--9999
+i loxAfr1.scaffold_33178 C 0 C 0
+s tetNig1.chr10 10166142 11 - 12859810 -ATCGGC-----------------------AGACA----
+i tetNig1.chr10 C 0 C 0
+s oryLat1.chr10 8630910 9 - 27595823 -AATtgt-----------------------aga------
+q oryLat1.chr10 -999999-----------------------999------
+i oryLat1.chr10 C 0 C 0
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+
+a score=137635.000000
+s mm9.chr10 3212086 26 + 129993255 AGTTTGAAGGTGA----TTGGTTTCAGGAG-
+s rn4.chr1 230030659 25 - 267910886 AA-CTGAAGGTAA----CTGGTTTTAGGAG-
+q rn4.chr1 99-9999999999----9999999999999-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 216 26 + 3980 AATATGAAGGAGG----TTGGTTTCAGGAA-
+q cavPor2.scaffold_221190 9999999999998----5999999999999-
+i cavPor2.scaffold_221190 C 0 C 0
+s oryCun1.scaffold_214769 115231 26 - 139458 AAGTTGCAGGTGG----TGGGTTTCAGGAG-
+q oryCun1.scaffold_214769 9999999999999----9999999999999-
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427888 30 - 174210431 AATTTGAAGGTGATTGATTGGTTTCAGGAG-
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16639132 30 - 173908612 AATTTGAAGGTGATTGATTGGTTTCAGGAG-
+q panTro2.chr6 999999999999999999999999999999-
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16114736 30 - 170899992 AATTTGAAGGTGATTGATTGGTTTCAGGAG-
+i hg18.chr6 C 0 C 0
+s rheMac2.chr4 108530389 30 + 167655696 AATTTGAAGGTGATTGATTGGTTTCGGGAG-
+q rheMac2.chr4 999999999999999999999999999999-
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 92219 30 - 523245 AATTTGAAAGTGATTGGTTGGTTTCAGGAG-
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 12314 26 - 136255 AATTTGAAGGTGA----TTGGTTTCAGAAG-
+q otoGar1.scaffold_85251.1-136255 9999999999999----9899999999999-
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 412415 26 - 498454 AACTTAAAGGTGA----TAGTTTTCAAGGG-
+q tupBel1.scaffold_114895.1-498454 9999999999799----9999999999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_220537 7489 26 - 7736 CATTGGACAGTGA----TTAGTTTCAAGAC-
+q eriEur1.scaffold_220537 9785999998999----9999999999999-
+i eriEur1.scaffold_220537 I 2 I 4
+s canFam2.chr1 78278287 25 - 125616256 AATTTGAAGGTGA----ATTGTTTCAGGA--
+q canFam2.chr1 9999999999999----999999999999--
+i canFam2.chr1 I 198 I 1
+s equCab1.chr31 13070256 26 + 24938454 AATTTGAAGGTGA----TTGATTTCAGGAG-
+q equCab1.chr31 9999999999999----9999999999999-
+i equCab1.chr31 I 1 I 4
+s bosTau3.chr9 13749080 26 - 95030419 GGTTACAGTTTGA----TTGGTTTCGGGAG-
+q bosTau3.chr9 9999999999999----9999999999999-
+i bosTau3.chr9 C 0 I 1680
+s dasNov1.scaffold_16647 48061 26 - 51472 AATTTGAAGGTGA----TTCGTATCAGGCG-
+q dasNov1.scaffold_16647 9999999999799----9999999999999-
+i dasNov1.scaffold_16647 C 0 I 7
+s loxAfr1.scaffold_33178 7653 26 + 41726 AATTGGAAGGGGA----TTGGTTTCAGGAA-
+q loxAfr1.scaffold_33178 9999999999999----9999999999999-
+i loxAfr1.scaffold_33178 C 0 I 7
+s tetNig1.chr10 10166153 21 - 12859810 ------ATTATCA----GCTTTATTAGGGAG
+i tetNig1.chr10 C 0 I 1171
+s oryLat1.chr10 8630919 12 - 27595823 -------------------gtttttaaaaaa
+q oryLat1.chr10 -------------------999999999999
+i oryLat1.chr10 C 0 I 15
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+
+a score=178386.000000
+s mm9.chr10 3212112 137 + 129993255 CTGGTTTGCCAG----TCATTACTGTTCCAA-----------------TCCTGCTTGCATGAAAACGTAAACTCCAGGT-CTTTGC--TGAACTG----TGTAGTAGCCACTTGGCATATGTGAC----TCTTTAAG--T--------AATTAAAA-------GGTCAGTTCAGTTCCCCCATCTC
+s rn4.chr1 230030684 135 - 267910886 CTGGTTTGCCAG----CCATCACT-CCCCAG-----------------TCCTGCTTGCACGAAAACCTAAACTCCGGGT-ctttgc--tgaacag----tgtggcagccactcaccgtatgtgac----tctttaaa--t--------aatt-aaa-------gttcagttcagttcctccatttc
+q rn4.chr1 999999999999----99999999-999999-----------------9999999999999999999999999999999-999999--9999999----99999999999999999999999999----99999999--9--------9999-999-------99999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_221190 242 135 + 3980 TTGGTTTGTGTA----TGCTTATT-CCATAA-----------------TCCTGCTTGTATGAAAAGATAA--CCAAGGT-CTGAACAGTGAACTG----TATGATAGCTGTTAG--GTAGATAAC----TGTTTGAA--A--------CAGTAAAAT---AATGCAAAGTTCAAGTCCTCCAT---
+q cavPor2.scaffold_221190 999979999999----99999999-999999-----------------9999999999999999999799--9989999-999999799999999----999999999999999--999999999----99999999--9--------999999999---99999799999999988899999---
+i cavPor2.scaffold_221190 C 0 n 0
+s oryCun1.scaffold_214769 115257 146 - 139458 TTGGTGTGTGATGACCTGATCATC-CTAAAAGAGTTGATGCTTTAGTTTTCTTATGTTATGAGACTACACATTGTAGAT-CTGTAG--TG-ACAG----TGTGGTAGCTTCTAGCCATGTACGAC------------------------AGTAAAT-------GGAATGAGAAGTTCTCCAGTCTC
+q oryCun1.scaffold_214769 999999999999999999999999-999999999999999999999999999999999999999999999999999999-899999--89-9999----99999899999999999999999999------------------------9873221-------39999999999989999988999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16427918 104 - 174210431 TTTGTATG--------TAATTATC-CTATAA-----------------TCCTGCCTATGTGAAAATATAAATTCTAGAT-CTACAT--GGAAcag----tatagtagccagtaaccatatatgac----tatttaaa--g--------aat-----------------------------------
+i ponAbe2.chr6 C 0 I 3065
+s panTro2.chr6 16639162 110 - 173908612 TTTGTATG--------TAATTATC-CTATAC-----------------TCCTGCCTATGTGAAAATATGAATTCTAGAT-CTACAT--GGAACAGTATatatagtagccagtaaccatatatgac----tatttaaa--g--------aatga---------------------------------
+q panTro2.chr6 99999999--------99999999-999999-----------------9999999999999999999999999999999-999999--9999999999999999999999999999999999999----99999999--9--------99999---------------------------------
+i panTro2.chr6 C 0 I 4473
+s hg18.chr6 16114766 110 - 170899992 TTTGTATG--------TAATTATC-CTATAC-----------------TCCTGCCTATGTGAAAATATGAATTCTAGAT-CTACAT--GGAACAGTATatatagtagccagtaaccatatatgac----tatttaaa--g--------aatga---------------------------------
+i hg18.chr6 C 0 I 3748
+s rheMac2.chr4 108530419 104 + 167655696 TTTGTATG--------TAATTATC-CTATAA-----------------TCCTGCCTATGTGAAAATATAAATTCTAGAT-CTACAT--GGAACAG----TATAGTAGCCAGTAACCATATATGAC----TATTTAAA--G--------AAT-----------------------------------
+q rheMac2.chr4 99999999--------99999999-999999-----------------9999999999999999999999999999999-999999--9999999----99999999999999999999999999----99999999--9--------999-----------------------------------
+i rheMac2.chr4 C 0 I 491
+s calJac1.Contig1260 92249 106 - 523245 TTTGTATG--------TAATTATC-CTATAA-----------------TCCCGCCTATGTGAAAGTATAAATTCTAGAT-GTACAT--GGAGcag----tgtggtagccagtagccataggtgac----tatttaca--g--------aatga---------------------------------
+i calJac1.Contig1260 C 0 I 2888
+s otoGar1.scaffold_85251.1-136255 12340 110 - 136255 TTTGTGTG--------TAATTATC-CTATTG-----------------TCCTGCTTATGTGTAAATACAAATTTTAGAA-ATACAC--TGGACGG----TGTAgtagccactagctctatatgactgaataattact--g--------aatta---------------------------------
+q otoGar1.scaffold_85251.1-136255 99999999--------99899889-999998-----------------8999999999999999999999999999999-999999--9999999----99999998999999999999999999999999999999--9--------99999---------------------------------
+i otoGar1.scaffold_85251.1-136255 C 0 I 31
+s tupBel1.scaffold_114895.1-498454 412441 106 - 498454 TTTGAGTA--------TAGTTACT-CTGTAA-----------------TCTTGCTTATACGAAAATAGACATCGCAAAT-CTGCAT--TGAATAA----TATGGTAGCTACTAGCCCTGCATGAC----TATTTAAA--T--------AACTA---------------------------------
+q tupBel1.scaffold_114895.1-498454 99999999--------99999999-999999-----------------9999999999999999999999999999999-999999--9999999----99999999999989999999889999----99999999--9--------99999---------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 2661
+s eriEur1.scaffold_220537 7519 104 - 7736 TTCATATACACC----TGATTATC-TTA------------------------ACTTGTGTGGACATAGAAAGTCTAGAT-TTGCAG--TAAACAG----TATGGCCCCCTTATGGTAC-TGTGCA----GTTTAAAAAGt--------agtta---------------------------------
+q eriEur1.scaffold_220537 999999799999----88554585-978------------------------999797979999988999769999998-778988--8899976----7789579995577776757-877997----77787889799--------78875---------------------------------
+i eriEur1.scaffold_220537 I 4 N 0
+s canFam2.chr1 78278313 138 - 125616256 TTTATGTATGTA----GAATTATT-CTCTAG-----------------TCCTACTTCAatgaaaatatgcattctagatcttgtac--caaacag----tgtggcagccactagccacatgtgac----tacttaaa--t--------aaata------aaatgaaaagaccagttcctggacctc
+q canFam2.chr1 999999999999----99999999-999999-----------------99999999999999999999999999999999999999--9999999----99999999999999999999999999----99999999--9--------99999------999999999999999999999999999
+i canFam2.chr1 I 1 C 0
+s equCab1.chr31 13070286 137 + 24938454 TTTGTGTATGCC----TAATTATC-CCAGAA-----------------TCCTACTTATatgaaaatatacattctagat-ttgcac--tgaacag----tatgggagccactagccacttgtgaa----tatttaaa--t--------agttg------aaatgaagagttcagttccccggtctc
+q equCab1.chr31 999999999999----99999999-999999-----------------9999999999999999999999999999999-999999--9999999----99999999999999999999999999----99999999--9--------99999------999999999999999999999999999
+i equCab1.chr31 I 4 C 0
+s dasNov1.scaffold_16647 48094 144 - 51472 TTTATGTGGGTA----TAAGTATC-CTATAA-----------------CCCTGTGTATACAGAAATATAAATTCTTGGT-ctatac--tgaacaa----cgtggtagccactagacacatgtgac----tatttaaa--tttaaattaaatta-------aatgaaaaattcagtaccccagtccc
+q dasNov1.scaffold_16647 999999999999----99999999-999999-----------------9957999999998899999999999999999-999999--7999999----99899999999999999999998999----99999999--99999999999999-------99799999999988999999979999
+i dasNov1.scaffold_16647 I 7 N 0
+s loxAfr1.scaffold_33178 7686 115 + 41726 TTTTCGTGTTTA----AA---ATG-TGAAGA-----------------TCCTGCTTATATGAAAATATAAATTCTAGAG-CTGCAC--CTGGCAG----CCTggtggccaccagccacatgtgac----tgtgtaaa--tgtaaat--aatta-------aa------------------------
+q loxAfr1.scaffold_33178 999999999999----99---999-999999-----------------9999999999999999999999999999999-999999--9999999----99999999999999999999999999----99999999--9999999--99999-------99------------------------
+i loxAfr1.scaffold_33178 I 7 I 7143
+s oryLat1.chr10 8630946 92 - 27595823 ----------------------TA-CTACTA-----------------CTTTACTGTTGCATTAATCCTACCACTAAGT-GTTCAG--TAAAGTT----GGTAATCTTCCCCCAACATATcttaa----agttttta--------------------taaaat-----------------------
+q oryLat1.chr10 ----------------------99-999999-----------------9999999999999999999999999999999-999999--9999999----99999999999999999999999999----99999999--------------------999999-----------------------
+i oryLat1.chr10 I 15 n 15
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+
+a score=-20714.000000
+s mm9.chr10 3212249 32 + 129993255 ACC----------------------------ATGGCACAGGTGGAA-GGCTCGCCTTCTGT
+s rn4.chr1 230030819 61 - 267910886 accagctatgttccaggtgctgccacaGCGAACGGCACAGGCAGAAGGGCTCGCCTTATGT
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 115403 4 - 139458 ACC----------------------------A-----------------------------
+q oryCun1.scaffold_214769 999----------------------------9-----------------------------
+i oryCun1.scaffold_214769 C 0 M 10394
+s otoGar1.scaffold_85251.1-136255 12481 2 - 136255 ac-----------------------------------------------------------
+q otoGar1.scaffold_85251.1-136255 99-----------------------------------------------------------
+i otoGar1.scaffold_85251.1-136255 I 31 I 3025
+s canFam2.chr1 78278451 35 - 125616256 atta------------------------gccacgtttcagg-ggct-gggtggccttgtgt
+q canFam2.chr1 9999------------------------9999999999999-9999-99999999999999
+i canFam2.chr1 C 0 I 1605
+s equCab1.chr31 13070423 4 + 24938454 acta---------------------------------------------------------
+q equCab1.chr31 9999---------------------------------------------------------
+i equCab1.chr31 C 0 I 1479
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e rheMac2.chr4 108530523 491 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+
+a score=23594.000000
+s mm9.chr10 3212281 442 + 129993255 CTTGTCACTTATTTAAAGCAAAGTTCTGTGCcttttcctgggg-----------agtgttcgtttgtcccaggtagggcatccgtggccaaccatccaagtctagctgacagtcagtttattggggctacttatgggagcatggtgactcagaggctgctctgtcaccgaaaagcccaccccagcacgagtgacaactcaccaaagctgagtccttagcatcccggtcatgactggcaagcag----tttcatccgtcctggcagtgtctcttcTCCCCAGCAAGCGTTACTACCTGTGTAATGTCAGGGGAACCTTTACTACCTGTGTAATGTCGGGGGAAGTCCTTGTAACTTTCAAGAGCATCCCCACCTTTGTGTGTTTTGTTTTCTTCCTGACTCTTAGAAGCCCCCCTTC--------------- [...]
+s rn4.chr1 230030880 430 - 267910886 CTTGTCACTTGTTTTCAGCAAAgttctgtgacttttcctggggagacatgaacaagtgtccatttgtccccggtagggcatccgtggctcaccaacgaaatc-------------gtttatcagggctccttacaggagcatggtggctcagaggctgccccatcactggaaagcccaccccagcatgagtgacagctcaccaaagctgCATCCTTAGCATTCCTGGTGTGACTCGCTAGCGGGTTCGTTCGTCCGTCCTGCGAGTGTGTCTTCTCCCCAGCAACTG-----------------------------TTACTTCCTGTGTAGTGTCGGGGCAAATTCTTACAACTCTCAAGAGTATCCCAACCTTTGTGTGTTTTGTTTGCTTTCTGACTCTTAGGAGCCCCCGTTCTTGTAGGAGGAATGT [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108530523 491 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_85251.1-136255 12483 3025 - 136255 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=2104.000000
+s mm9.chr10 3212723 67 + 129993255 ACACAGCTTGAAC-CTGATGGTAGTGCACCCATGGTGCTTAGCATGCTTAGCAGCACTTGGCCAAGG----G
+s rn4.chr1 230031310 42 - 267910886 ACACAGCCTGGAC-CTGGTGGTAGAGCTCCCATGCTGCTTGGC-----------------------------
+q rn4.chr1 9999999999999-99999999999999999999999999999-----------------------------
+i rn4.chr1 C 0 I 31
+s rheMac2.chr4 108531014 72 + 167655696 ATACAGTTTGAACACTAATGCTGGAGAGACCACGTGGGGTTGAGTCTTCAGCAGCGCTTTACCAAGGCAGGG
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 491 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_85251.1-136255 12483 3025 - 136255 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=7409.000000
+s mm9.chr10 3212790 88 + 129993255 TCAGGGGG--------------------TGGGCAGTGGCTGCACACTGTTGCTTAGGCACAACTCAAAATCGCCAGCCCATGGTGGTGTGTACAAGGCAAACCAACTG
+s rn4.chr1 230031383 85 - 267910886 TTTGGTGC--------------------TGGGAACTGGCTGCACACTG--GCTTA-GCACAgttcagaatctccagcccatggtggtatataaaaggcagaccaacag
+q rn4.chr1 99999999--------------------99999999999999999999--99999-9999999999999999999999999999999999999999999999999999
+i rn4.chr1 I 31 C 0
+s rheMac2.chr4 108531086 107 + 167655696 TTGGGGGCGGTGAGTGCAGCCCACCCCATGGGGAGCCGTATCACACCGTTATTTAGGCATTATGTAGTATTGCCAGTCTGTGCTGATA-ATAGAAGACAAACTGACTG
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999
+i rheMac2.chr4 C 0 I 3216
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_85251.1-136255 12483 3025 - 136255 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=17264.000000
+s mm9.chr10 3212878 380 + 129993255 TCCTGTATGAGTTTCAATACTT--AGCCTCTGTAAGCATCAC--CTGCCTTTACTGTCTCAG--------------CCGAGGCTCAGGGGCCCAC------------------AAGTTCATGCCAACCCTCAGCAAACCCATT--AGCCA--ATTTTTTCTTTTTAATAACACTTTAAACCTTTGGTTTTGTTTTTAGAAAAGGTCCGTAagccaaatgtggtgatgcctgcccttaacatcttagcaggtgtatccctgtgaattcatggccagcttggtctacaaagtgagttccaggctagccagggctacaaagtgagacctcgtctttaaaaGGTCCTTAAATCTTAGACCACAGTTCATTTATAGAGCTGCCTGTGATTTTTATTTTGCATCTTCAGGTGAAAGCTGTGTGTCT
+s rn4.chr1 230031468 411 - 267910886 ctg---gtgagttttcttacttaaagcccctgtaaatattacagaggtctttgttgtctTGGTCCAGAGGTACCTCCCGACCCTCAGCAAACCCCTTTCAGCCACTGTTTCTTCTGCTTAGCCCGACCCTCAGCAAACCCCTTTCAGCCACTGTTTCTTCTGCTTAGCAACACTGTAAACTTTTGGTTTTGTTTTTAGAAAAGGTCCTCAAGCCAAACATGGTGATGTATGCCCTTGACACCTTAgcaggtgtatccctgtgagttcatggtcaacttggttcacaaagtgagttacaggtta-ccaggactacaa----agaccttgtctctaaaaGGTCC-TAAAACCTAGAGTGCACTTCGTTTGTAGAGCTGTCTGTGACTTTTATTTTGCACCTTCATGTAGGGGGTGCAGGACT
+q rn4.chr1 999---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999----9999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 I 61
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108531193 3216 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_85251.1-136255 12483 3025 - 136255 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=0.000000
+s mm9.chr10 3213258 12 + 129993255 GAGCGCTTTGTA
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230031879 61 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108531193 3216 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_85251.1-136255 12483 3025 - 136255 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=4866.000000
+s mm9.chr10 3213270 93 + 129993255 ACAGCTGAATCCACAGGTGTAGAGGCAGCTGTATCCACAGGTGTAGAGGCAGCTGTATTCACAGGTGTAGAGGCAGCTGTATCCACAGGTGTA
+s otoGar1.scaffold_106294.1-197305 45302 93 - 197305 acaggtgcattcacaGGTGCATTGACAGGTGCATTCACAGGTGCATTGACAGGTGCATTCACAGGTGCATTGACAGGTGCATTCACAGGTGCA
+q otoGar1.scaffold_106294.1-197305 999999999999999999999999999999999999999999999999999999999999999999999990999999999999999989996
+i otoGar1.scaffold_106294.1-197305 n 3025 n 3025
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230031879 61 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108531193 3216 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=24626.000000
+s mm9.chr10 3213363 415 + 129993255 GATACCAGAGTGGAACTCAGCAGCACCAAGGAGAGACTGGAGCATGTGGGGCACGTGACTAAGTCAGTTAG-GTTTTAAAATGAAAgagaggcagcccagcagttaagagcactggctgctcttccggaggactcaggctccattcccagctcccacacagaagctctcgccttctgtaattccagttcaggagatccgacacttttttctggcctccacagtcactgcacacacatggtgagctgacacacatgcagaaaaacagttatatgcataaaatcaaaCGTGAAAAGAATGAGTTGACATGTAAACTATGTATATAATGCAGCATTTTAAGATCTGCATGTATTGTTGTTAACACATG----------CACACCTATGTTTGTGGTGAAAATATTTTAGTCTTCTCTCTTAGCAGTTTT
+s rn4.chr1 230031940 409 - 267910886 GAT-CCTGAGTGGATCTCAGCAACGCCAAGTAGAGGCCAGAGTGTGTGGGCCCCATGACTAAGTCACCTAACGTTTTAAGATGAGAgagaggtggctcagcaattcagagcactggctgctctttcagaggactcaggctccattcccagcacccccacagcagctcacaccttctgtaactccact----------------ttttttctggcctccacagtcactgcatgcatatggtgcaaaaacatgcctgcagaagaacagacatgtacatgaaatcaaaTGTGAAAAGAATGAATTGGTGCATAAACTACATCTACAGTGCAGCATTTTAAGATCTGCGTGTATTGTCattgacacatgcatgaccccacatgcctgggttcgtggtgaaaatattttagtctcctctctcagcagtttt
+q rn4.chr1 999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 I 61 I 22
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108531193 3216 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=0.000000
+s mm9.chr10 3213778 512 + 129993255 ATTTTTTCTGTATTTTAATTTTTTTGttttatttatttacattccaaatgtcaacccccttcccggtcccccccaccaagaattcttcaccccactgcccctcccctttgcctctgaggggatgctcgcccacctgccttacccacactcctctcacctcacctccctgcatccccctttcctggggcatcaagtctctacagaatgaggcacatcctctcctactgaggccagacaaggcagttctcggctgtatatgtgccagggaccatagaccagcccatggatgctatttagttggtagtttagtctctaggagttcccaggggtctagtggatattgttgttcttcctgtggggttgccatccccttcagttccttcaatccttcccctaactcttccataggggtccctgacctccatccgatg [...]
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230032349 22 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108531193 3216 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 92355 2888 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e hg18.chr6 16114876 3748 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=8215.000000
+s mm9.chr10 3214290 123 + 129993255 TGTCATCCTGAGACCAGACACTAGAGAGCTGAGAGAGAG-------TAGGGACTGTGTAGGTGAGGTCCTTCTTGTTGATGGAGTCTGG---------TGGCACCTTCAGCTGGGAGGTGGGTAACATCTGT--------AGATGAG
+s rn4.chr1 230032371 127 - 267910886 TGCCATCCTGAGACCAGACACTAGAGAACCATGAGAGAGAGCATGTCAGGGACGGCAGAGATGAGGCCCTTCATGCTGACGGGGACAGG------------CACCTTCAGCTGGGATGTAAGTGGCATCTAC--------AGATGAG
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------9999999999999999999999999999999--------9999999
+i rn4.chr1 I 22 I 28
+s calJac1.Contig1260 95243 101 - 523245 ------------------------------GAAAGAGAGG------TATGGACTGTG-AGGTGAGAGCACTT-------TGGAGCCTGGAAGGGAGGGTGGGATTTTCA-TTGGCAGATGGG-AGCCTGTATCATAGAGGAGATGAA
+i calJac1.Contig1260 I 2888 I 22
+s hg18.chr6 16118624 91 - 170899992 ------------------------------GAGAGAGAGG------TATGGACTGTG-AGGTG-----------------GGAGCCTGGGAGGGTAGGTGGGATTTGCA-TTGGCGGATGGG-AGCATGTATGGTAGAGGAGATGAA
+i hg18.chr6 I 3748 I 22
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e rheMac2.chr4 108531193 3216 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=12595.000000
+s mm9.chr10 3214413 31 + 129993255 CCCCCACAGCACAGATGTATGGCCTGCAGGT
+s calJac1.Contig1260 95366 31 - 523245 CCCACAAAAGGTAGATAGACCACCATCAGGG
+i calJac1.Contig1260 I 22 C 0
+s rheMac2.chr4 108534409 31 + 167655696 CCCACAAAACATAGATAGACCACCATCGGAG
+q rheMac2.chr4 6555555666666655565566666666666
+i rheMac2.chr4 I 3216 C 0
+s hg18.chr6 16118737 31 - 170899992 CCCACAAAACATAGATAGACCACCATCGGGG
+i hg18.chr6 I 22 C 0
+s rn4.chr1 230032526 31 - 267910886 CCCCCACAGCAGGGGTGCATGGCCTGCAGGC
+q rn4.chr1 9999999999999999999999999999999
+i rn4.chr1 I 28 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13070427 1479 + 24938454 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=18920.000000
+s mm9.chr10 3214444 48 + 129993255 GGA--AGT--TGTCTTTGGTCAGTTCT-------CAGAGGCAGAGTTGTGATTTCTTCC--
+s rn4.chr1 230032557 48 - 267910886 AGA--AGT--TGTTTTAGGTCAGTTCT-------CAGAGGCAGAGTTGTGATTTCTTCC--
+q rn4.chr1 999--999--99999999999999999-------9999999999999999999999999--
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16118768 57 - 170899992 AAG--GGCGGtgtcttagataaggtttcctagagcagagtcttaggtgtacatccttgt--
+i hg18.chr6 C 0 I 44
+s rheMac2.chr4 108534440 57 + 167655696 AAG--GGCAGTGTCTTAGATAAGGTTTCCTAGAGCAGAGTCTGAGATGCACAACCTTGT--
+q rheMac2.chr4 667--666566565666666666666666666669999999999999999999999999--
+i rheMac2.chr4 C 0 I 43
+s calJac1.Contig1260 95397 57 - 523245 AAGGAGGCTGtgtcttagatcaggtttcctggagcagagtctgagatgtacattctc----
+i calJac1.Contig1260 C 0 I 39
+s equCab1.chr31 13071906 56 + 24938454 --G--GGTGGtgtcttagacaaggtttcctaag-cagaatctgtgacagagatttttgtga
+q equCab1.chr31 --9--9999989999999999999999999999-999999999999999999699999999
+i equCab1.chr31 I 1479 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16428022 3065 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=36167.000000
+s mm9.chr10 3214492 96 + 129993255 ---------------------------------------AAGTGAGCTATAA--AGGCAGATGCTACAAGGGAAGGGAGAAAGCGCATGAAGAAAGTACAGGCCTACCTGTGGCCGCT-CTACAGGACAGAGGGTCCT
+s rn4.chr1 230032605 65 - 267910886 ---------------------------------------AAGTGAGCTTTAA--AGGTAGATACTACAAGGGGAGGAGGAAGGCACGTGAAGAAAGGACAGG--------------------------------TCCT
+q rn4.chr1 ---------------------------------------9999999999999--999999999999999999999999999999999999999999999999--------------------------------9999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16118869 92 - 170899992 ---------------------------------------gagagag----aa--aggcagaatgatgacggggaggcagcaaggatgcctctcaggtgcagcgtagccttgacctACT-ATGCAGGACGAAGCATCCT
+i hg18.chr6 I 44 I 1
+s ponAbe2.chr6 16431087 92 - 174210431 ---------------------------------------gagagag----aa--aggcagaatgatgacggggaagcagcaaggatgcctctcaggtgcagcgtagccttgacctACT-ATGCAGGACGAAGCATCCT
+i ponAbe2.chr6 I 3065 I 1
+s rheMac2.chr4 108534540 94 + 167655696 ---------------------------------------GGGAGAG----AGGAAGGCAGAATGATGACGGGGAAGCAGCAAGGATGCCTCTCAGGGGCAGCGTAGCCTTGACCTACT-ATGCAGGATGAAGCATCCT
+q rheMac2.chr4 ---------------------------------------9999999----99999999999999848999899999999999999999999999999999999999999999999999-9999999999999999999
+i rheMac2.chr4 I 43 I 1
+s calJac1.Contig1260 95493 93 - 523245 ---------------------------------------tggtaag----gg--agggagaatgatgacggggaagcagcaaggatgcctctcaggtgcagcatagccttgacctggtAATGCAGGACCAAGCATCCT
+i calJac1.Contig1260 I 39 I 1
+s equCab1.chr31 13071962 121 + 24938454 aagtgatttttgagggcacgtgcttcaggtaaaacttgtaagggagggaggg--aagcagaataaggaagggaagccagcaaggtgctgtcttaggta-agtgtaggcttggcatgTT-ATACAG-------------
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999--99979999999999999999999999999999999999999999-9999999999999699999-999999-------------
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13749106 1680 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=88430.000000
+s mm9.chr10 3214588 100 + 129993255 GTGGAATCAGGCAGCTGCAGG--CTGGCTGCCCCACTTAGGAGATGTAGCCATGTTTGCTTAGGGCTGTTCTCTACAGAAGG-GAT------GGCCCTGGGCTTTTTGT
+s rn4.chr1 230032670 100 - 267910886 GTGGAGTCAGGCAGCTGTAGG--TCGGATGGCCCTCTTGGAAGACATGGCCTTGTCTGCTGGAGACCATGCTCTGTGGAAGG-GAT------GCCTCTTGGGTTTTGGC
+q rn4.chr1 999999999999999999999--99999999999999999999999999999999999999999999999999999999999-999------99999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16118962 102 - 170899992 GTGGAGCCACACAGCTCCGGGTTCTGGTGGCCCTGctcgggcgaggcagctccgtcagctgagggccattcttctgagaagg-ggc------agctgtgtgctttagca
+i hg18.chr6 I 1 I 16
+s ponAbe2.chr6 16431180 98 - 174210431 GTGGAGCCACACAGCTCTGGGTTCTGATGGCCCTGctcgggtgaggcagctctgtcagctgagggccgttcttccgagaagg-ggc------agctatgcgcttt----
+i ponAbe2.chr6 I 1 I 20
+s rheMac2.chr4 108534635 101 + 167655696 GTGGAGCCACACAGCTCCGGGCTCTGGTGGCCCTTCTCGGGCGAGGCAGCTCTGTCAGCTGAGGGCCATTCTTCCAAGAAGG-CTCACGCTAAGCCGTGAGC-------
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999-------
+i rheMac2.chr4 I 1 I 23
+s calJac1.Contig1260 95587 102 - 523245 GTGGAGCCACACCACTCCAGGCTCTggtggcctggctcgggtgaggcagctctgtcagctgagggtcattattccaagaagg-ggc------agctatgcactttagca
+i calJac1.Contig1260 I 1 I 34
+s equCab1.chr31 13072083 98 + 24938454 GTGTGACCACACAGTGATGGGCTCCAGTAGCTGTCctcgggagaggcagc--tgtcagctgagggc---tgaacggagaaggaggc------agctgtgagctttcagt
+q equCab1.chr31 99999999999999999999999999999999999999999998599999--99999999999999---99999999999999999------99999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13750786 100 - 95030419 GTGTAACCACACAAC-ACAGGCTCTGGCAGCTATACGCAggggtgtctgc--tgtcggctgagagcaattctacggagcagggggt------gactgtgagcttttagc
+q bosTau3.chr9 999999999999999-9999999999999999999999999999999999--9999999999999999999999999999999999------99999999999999999
+i bosTau3.chr9 I 1680 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=201575.000000
+s mm9.chr10 3214688 247 + 129993255 -GCCAAAGATTGAGATCTC-AG--------------TATGGGGGTCCCAAGTTACCTTCATGGTCAC-------------------CTCAAGCTCTCTGGAGCCAAAGATGGTAGGTAAAGTTGAGCT------------ATGTAATAGCAGAGATAGGGTACCAGGCTAGAGGCCATGGACTT---CACCCTCAGGT------GGCAGGTCAACACCTAG-TTTTATATTCCTATCTGTGtta------ctagggttgccataacaaag--------------------------------------------aactataggttgagt-ggttggggttcaaggtcaaggaatc
+s rn4.chr1 230032770 245 - 267910886 -TCGGAAGATTGAGATCTC-AG--------------TATGGGGACCCCGAGTTGCCTTCACAGTCCC-------------------CTCAAACTCTCTGGAGCGGAAGGTGGTGGGTGCAGTTGAGCT-----------AATGCAGTAGCAGAGATAGGGCGTCAGGC-AGAGGGCATGGACTT---CACCCTCAGGT------GGCAGGCTGACACCTAG-TTTTATACTGTTATCtgtgttacgttg-ctagggttgccataacaaat--------------------------------------------atc-------tgagt-ggttgaggttcaaggtcaaggtatc
+q rn4.chr1 -999999999999999999-99--------------9999999999999999999999999999999-------------------999999999999999999999999999999999999999999-----------99999999999999999999999999999-999999999999999---99999999999------99999999999999999-999999999999999999999999999-99999999999999999999--------------------------------------------999-------99999-9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16119080 269 - 170899992 -gcgggggGTGGTAGTGGC-GG--------------TAGTGAGACTCTAGATGGGCTCCAGAGCTTCTACCAGAAGAAATGAGTAGCTCAGACTCTGTGGAGCTGAGGGTGGGAGATAAAGTTGGACTGGTTGCCTGAGACTATATTGGCAGGTATGGAGTGCCAGGCTGGGGAGCATGGGCTTT--CTTCCACAGGT------GACAAGTTGACAGCTGC-TTTTACATTAATACCTCTATTACTCAG-CTAGGCCTGCCATA----------------------------------------------------C-------GGGGT-GGtagaagttcaaagtcaaggagtc
+i hg18.chr6 I 16 C 0
+s ponAbe2.chr6 16431298 269 - 174210431 -gccgggggtggtagtggc-gg--------------tagtgagactctaggtgggctccagagcttctaccaGAAGAAATGAGTAGCTCAGACTCTGTGGAGCTGAGGGTGGGAGATAAAGTTGGACTGGTTGCATGAGACTATAGTGGCAGCTATGGAGTGCCAGGCTGGGGAGTATGGGCTTT--CTCCCACAGGT------GACAGGTTGACAGCTGC-TTTCACATTAATACTTCTATTACTCTG-CTGGGGCTGCCGTA----------------------------------------------------C-------GGGGT-GGtagaagttcaaagtcatggtgtc
+i ponAbe2.chr6 I 20 C 0
+s rheMac2.chr4 108534759 267 + 167655696 -GCGGGGGGTGGTAGCGGT-GG--------------CAGTGAGACTCTGGGTGGGCTCCAGAGCTTCTACCAGAAGGAATGAGTGGCTCAGACTC--TGGAGCCGGGGCTGGGAGATAAAGTTGGACTGGTTGCCTGAGACTATCATGGCAGGTATGGAGTGTCAGGCTGAGGAGCATGGGCTTT--CTCCCACAGGT------GACAGGTTGACAGCTGC-TTTGACATTAATACCTCTATTACTCTG-CTAGGGCTGCCGTA----------------------------------------------------C-------AAGGT-GGTAGAAGGTCAAAGTCAAGGTGTC
+q rheMac2.chr4 -999999999999999999-99--------------99999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999------99999999999999999-999999999999999999999999999-99999999999999----------------------------------------------------9-------99999-9999999999999999999999999
+i rheMac2.chr4 I 23 C 0
+s calJac1.Contig1260 95723 255 - 523245 --------------------gg--------------tagagagactctaggggggtcccaaagcttctaccacaAGGAATGAGCAGCTCAGACTGTCTGGAGCTCAGGGAGGGAGATAAAGTTGAACTGGTTGCCTGAGGCTGTAGTGG-AGGTATGGAATGCTAGGCTGGGGAACATGGGCTTTTCTTTCCACAGGT------GACAGGTTGACAGCTGCTTTTTATATTAATAACTCTATTACTTTGCCTAGGGCTGCCCTA----------------------------------------------------C-------ATGATGGGTAGAAGTACAAAGCCAAGGTGTC
+i calJac1.Contig1260 I 34 I 589
+s equCab1.chr31 13072181 321 + 24938454 aagtgacgctcgtggtagc-gggttcgctggcggg-cagaggggccctgagtaggcaccGTAGCCCA--CT-GTAGGAGTGAGTAGATCTCTCCC--TGGGGCAGAGGGCAGGACAGAAAGCTGGGCTTCTGGGCTGAG-AT---------GGCACAGAGTGCCCGGCTAAGGAGCATGGCCTTC--GTCCTACAGGT------GCCATGTTGGTGGTGGTTTTTTACATTAATATCtgcattactttg-ctagggctgccataacaaagtcccacaggctgggggcctaaaacaaaagtttattttctcacagttc-------tggag-gctcgaagtctaagatcaagatatc
+q equCab1.chr31 9999999999999999999-999999699999999-9999999668799999998999999999999--99-99999999999999999999999--999999999999999998999999999959999999899999-99---------9779999999789799797999999899679999--99998998979------996989999668769889999999689997998976999969978-8999978978979989999689998999999999999999999999999999889999999999999-------99999-9999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13750886 328 - 95030419 aatagatactcgcagcagctgggttcactgactaaccagaggggctctgggtgaacatcacagcTCT--CCGGCACGAATAAGTAGACCAGACTC--TCAGGCAGGGGGTGGGAGAGAAAGCTGGACCAGTGGGCTGGG-CTGGACAGGTGGGTATAGAGTTCTAGGCTAGGGAGCATGGACCTC--ATCCCGCAGGTAATGTCAACAGGTTGACAGTTGTTTTTTACACTAATGTCTGGGTAGgtttg-ctagggccgccataacaaagtaccagcgaccgggtcactgaaatgaaagtgtattccttcagaagtc-------tgggg-gctggcgatctgag-----------
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999--999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999-------99999-99999999999999-----------
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=81651.000000
+s mm9.chr10 3214935 84 + 129993255 tgtagggttgggccc-tgctgaggcctgactctctggctaggaaatagctgccttttctctctgtcttcccatggccctccctca
+s rn4.chr1 230033015 84 - 267910886 tatagggttgggccc-tgctgaggcctgactctctgacttggaaatagccaccttttctctccgtcttcccgtggtcctccctca
+q rn4.chr1 999999999999999-999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16119349 85 - 170899992 agtggagatggcttcattctgaggaccctctccttggtgtgcaaatggtggtcttcttcctctgttctcgtgtggtcttccctcc
+i hg18.chr6 C 0 I 12
+s ponAbe2.chr6 16431567 85 - 174210431 agtggagttggcttctttctgaggaccctctccttggtgtgcaaatggtagtctttttcctctgtcctcgtgtggtcttccctcc
+i ponAbe2.chr6 C 0 I 12
+s rheMac2.chr4 108535026 85 + 167655696 AGTGGAGTTGGCTTCATTCTGAGGACCCTCTCCTTGGCATGCAAATGGTGGTCTTCTTCCTCTGTCCTCATGTGGTCTTCCCTCC
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 I 309
+s equCab1.chr31 13072502 83 + 24938454 agcaggattggcttc-ttctgaggcctctctccttggctcgtagaccgccaccttttccctctgtccg-acatggtccttcccct
+q equCab1.chr31 999999999989999-9999999369999999999999999999999999799999999999999999-9999957999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13751214 84 - 95030419 agcaaggttggcttc-ttgtaacgtctctttccttggcttgcagatggccatcttctccttgtgtcttcatgtggtctttgctct
+q bosTau3.chr9 999999999999999-999999999999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-4322.000000
+s mm9.chr10 3215019 20 + 129993255 gtCT-----TTACGTTACACAGACG-
+s rn4.chr1 230033099 20 - 267910886 gtct-----ttgcgttacacagatg-
+q rn4.chr1 9999-----9999999999999999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16119446 25 - 170899992 gtcttaatcttatgggacaccagtc-
+i hg18.chr6 I 12 C 0
+s ponAbe2.chr6 16431664 25 - 174210431 gtcttaatcttatgggacaccagtc-
+i ponAbe2.chr6 I 12 C 0
+s rheMac2.chr4 108535420 25 + 167655696 GTCTTAATCTTATGGGACAGCATTC-
+q rheMac2.chr4 9999999998999999999999999-
+i rheMac2.chr4 I 309 C 0
+s equCab1.chr31 13072585 20 + 24938454 ------gtgtatctgtgtcctaatcg
+q equCab1.chr31 ------99999999999999999998
+i equCab1.chr31 C 0 I 34
+s bosTau3.chr9 13751298 19 - 95030419 ------gtatgtTGTTAttc-agtcg
+q bosTau3.chr9 ------99999999999999-99999
+i bosTau3.chr9 C 0 I 1105
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=91268.000000
+s mm9.chr10 3215039 159 + 129993255 AGGTTGG---------CTCCTAATGTCCT-CATTTCGACTTTATCATGGC--------------------ACACAG-----------GTTCACAGGTTCCAGGGCAGGGGTCACTGGACCCCAACATAGGAATTTTGAAGGGG-CAGCG-TCCAGCTCGTGACTATATGTAGACCTAAGAGACACCATGTAGGAGGTAGCTG
+s equCab1.chr31 13072639 162 + 24938454 ---------agggccacccctaatgacct-catttcagcttaactcagtc--------------aaccaaatacagtcac-------gtcccgaggtcctgg-----aggtta--ggacttcaacatgggagttttgagggggtcacag-ttcagcccatgacaCTGTCTAAACACAAGACATACCAGGTGGGA-GCTGCTG
+q equCab1.chr31 ---------99969999999999999999-99999999999999888888--------------8888888889999999-------999999999999999-----999999--9999999999999999999999999999999999-99999999999999999999999999999999999999999999-9999999
+i equCab1.chr31 I 34 C 0
+s rheMac2.chr4 108535445 185 + 167655696 ATGTCAGATTGAGCCCACCCTGATGACCTCCATTTTAACTTAACCACCTCTTTAAAGACCCTATCTCCAAATACTGTCAC-------TTTC-TGGGTACTGG-----GGGTGA--GAATTTGAACACAGGAATTTT-AGGGAA-CACAGTTTCAGCACATAACAACATCTAAACATAAGAACCACCAGAAGGGAGGCTACTG
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999999999999999999-------9999-9999999999-----999999--999999999999999999999-999999-9999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16431689 184 - 174210431 atgtcagattgagcccaccttaatgacctccattttaacttaaccgcctctttaaagaccctgtctccaaatacagtcac-------attc-tgggtactag-----gggtga--gaatttgaacataggaatttt-agggga-cacag-ttcagcccataataACATCTAAACATAAGAACCACCAGAAGGGAGGCTGCTG
+i ponAbe2.chr6 C 0 C 0
+s hg18.chr6 16119471 184 - 170899992 atgtcagattgagcccaccctaatgacttccattttaacttaaccacctctttagagaccctatctcctaatacagtcac-------attc-tgggtactgg-----gggtga--gaatttgaacacaggaatttt-agggga-cacag-ttcagcccataataACATCTAAACATAAGAACCACCAAAAGGGAGGCTGCTG
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230033119 178 - 267910886 aggttggattgagtgcatcctaatgtcct-catttcaactccatcatggc--------------------atgcagatacagttggcgttcagaggtactggggca-aggtcacaggacgccaacataggagttttgaggggg-cagag-tccagctcgtGCTTACATGTAGGCCCAACAAGCACCATGTAGGGGGCAGCCG
+q rn4.chr1 99999999999999999999999999999-99999999999999999999--------------------999999999999999999999999999999999999-999999999999999999999999999999999999-99999-9999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909590 24 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=3388.000000
+s mm9.chr10 3215198 75 + 129993255 TGCATGTGTAGATGTGAGGCGATGACCTGGTGATGAG-------GTGCTTCAGAT--GAGCGAC----------GGATGATT-----TGC--AAGGCCTTG
+s rn4.chr1 230033297 61 - 267910886 TGAATGTGCAGATGTGAGGCAATGACTTCGT---------------------GAT--GACCAAT----------GAATGATT-----TGC--AAGGCCTTG
+q rn4.chr1 9999999999999999999999999999999---------------------999--9999999----------99999999-----999--999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16119655 90 - 170899992 TATAAGGGTAGCTACAGGGCGATG---TGGTCCTGGG-----CAAGGCTGGTGAT--GGGTGATT-CAGTGAAAGAAAGACTAAGAATGCTGGAGGCCACT
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16431873 90 - 174210431 TATAAGGGTAGATACAGGGCGATG---TGGTCCTGAG-----CAAGGCTGGTGAC--GGGTGATT-CAGTGAAAGAAAGACTAAGAATGCTGGAGGCCACT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108535630 81 + 167655696 TATAAGGGTAGATA-----CGATG---TGGTCCTGGG-----CAAGGCTGGTGAT--GGGTGATT-TAGT----GAAAGACTAAGAATGCCAGAGGCCACT
+q rheMac2.chr4 99999999999999-----99999---9999999999-----9999999999997--99999999-9999----999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s equCab1.chr31 13072801 87 + 24938454 CAC--GTCTAGATGATGGGTGATGAGGTTCTTTTGGG-----TGAGGCTGGTGACAGGGGCGATTCCAGT----GAAATATT---AATGCAAGAGGCCATT
+q equCab1.chr31 999--99999999999999999999999999999999-----9999999999999999999999999999----99999999---9999999999999999
+i equCab1.chr31 C 0 C 0
+s ornAna1.chr2 14909614 75 - 54797317 TGTAGGTTAAGATGTGAACTTTTGTCTTTGTGCTCAGGCAGTTGGGATTGGTTAC--ATAGGATC-TA------AGAAGTCT-----TG------------
+i ornAna1.chr2 I 24 I 3361
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=49584.000000
+s mm9.chr10 3215273 118 + 129993255 GAGATGGAA-CTCCTGCTTGAGTCCACAAGCAGCACCC--------------------------------ACCTCATGGGCTCACATGCCAGCCCTGCTGTGTGTCCTTGTCTGT-----TAGCTTTGG-------GTGAAATGTTTCCTAAGCCTTGCTTTC
+s rn4.chr1 230033358 108 - 267910886 GAGAT-GAG-GTCCTGCATGAGTCCACAAGCAGCactg------------------------------------cctgggttcacatgccagctctgccatgtg---ttgtctgt-----gAGTTTC---------GTGAAATGTCTCCCAAGCCTCGCTTTC
+q rn4.chr1 99999-999-9999999999999999999999999999------------------------------------999999999999999999999999999999---99999999-----9999999---------999999999999999999999999999
+i rn4.chr1 C 0 I 299
+s hg18.chr6 16119745 157 - 170899992 GGGAA-GCA-CATCAGAAGGCCTCAGGAAGcagcacagcctagtggttatgaatgtggcctctgagttgaaccacttcagttcagatcccagctctgccactta---ctagctgttgtgggacccttagtcaaggtatgtaatctttcc-aagccATGCTCTT
+i hg18.chr6 C 0 C 0
+s ponAbe2.chr6 16431963 151 - 174210431 GGGAA-GCA-CATCAGAAGGGCTCAGGAAGcagcacagcctagtggttatggatgtgacctctgagttgaaccacttgagttcagatcccagctcccccactta---ctagctgttgtgggacccttagtcaaggtatgcaatctttcc-aagccAT------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108535711 157 + 167655696 GGGAA-GCA-CATCAGAAGGGCTCAGGAAGCAGCACAGCCTGGTGGTTATAAATGTGGCCTCTGAGTTGAACCACTTGAGTTCAGGTCCCAGCTCTACCACTTA---CTAGCTGTTGTGGGACCCTTAGTCAAGGTATGTAATCTTTCT-AAGCCATGCTCTG
+q rheMac2.chr4 99999-999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999999999999999999999999999999999999999-9999999999999
+i rheMac2.chr4 C 0 C 0
+s equCab1.chr31 13072888 144 + 24938454 TGGAA-GAAGCATCAAAAAGACTCACAAAacagcacat---agtggttaggagggggcatctggagttgaacccctggagttccaatcccagctctgccattta---ttaggagatg--------ttagacatggtatttaattcttct-aaacctcCCT---
+q equCab1.chr31 99999-99999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999---9999999999--------999999999999999999999999-9999999999---
+i equCab1.chr31 C 0 I 81
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-3737.000000
+s mm9.chr10 3215391 32 + 129993255 TTTttcttttcttttttaaagatttatctatt
+s hg18.chr6 16119902 4 - 170899992 CTCT----------------------------
+i hg18.chr6 C 0 I 255
+s ponAbe2.chr6 16432114 28 - 174210431 ----GCTCTTCTCTTTAATAGCGTTGACTATT
+i ponAbe2.chr6 C 0 I 232
+s rheMac2.chr4 108535868 4 + 167655696 CTCT----------------------------
+q rheMac2.chr4 9999----------------------------
+i rheMac2.chr4 C 0 I 258
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230033466 299 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13073032 81 + 24938454 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=0.000000
+s mm9.chr10 3215423 66 + 129993255 gtttgtatgcgagtacattgtccttttttcagacacaccagaagagggcatcagatcccattacag
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230033466 299 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13073032 81 + 24938454 I
+e rheMac2.chr4 108535872 258 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e hg18.chr6 16119906 255 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16432142 232 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=1023.000000
+s mm9.chr10 3215489 55 + 129993255 gtggttgtgagccaccatgt-ggttgctgggatttgaac-tcagga------cctctggtaga
+s equCab1.chr31 13073113 63 + 24938454 GTGAACATGAGTCATGATATCGGTGACAGAAATTAGAACATCAGGAAAGAGCCGCCTGGAAGA
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 81 I 108
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230033466 299 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e rheMac2.chr4 108535872 258 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e hg18.chr6 16119906 255 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16432142 232 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=0.000000
+s mm9.chr10 3215544 44 + 129993255 gcagtcagtggtgctcttaactgctgagccatctctccagcccc
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230033466 299 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13751317 1105 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13073176 108 + 24938454 I
+e rheMac2.chr4 108535872 258 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78278486 1605 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 95978 589 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_221190 377 0 + 3980 I
+e otoGar1.scaffold_106294.1-197305 45395 3025 - 197305 I
+e hg18.chr6 16119906 255 - 170899992 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e ponAbe2.chr6 16432142 232 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=244632.000000
+s mm9.chr10 3215588 148 + 129993255 CTCATCCCTTGACTTTTGGAAATAGACTTTGGAAGGAGCACACTTCCATTTTCT----------CTCTCTTCACGGCAA------------------------CAAGGAGCTG---GAGAGACATGGAAACACATTTAATTTTGTTTCCGACCCTGGG----AAGTACCACGTGAAGATGCAGACACTG
+s ponAbe2.chr6 16432374 180 - 174210431 TTGGTCCCTTGACTTCTGGAAGTTCACTTAAGAAGGGGCA--CTGCGATGTTCTCTGGTTTTGCCTACTTTCCTGCCAAGTCCCACTAAC--TGCAGTTT-GGGGAAGAGGTGCTGGTGAGAGACAGAGACTC--CTAATTTTGCTTGTGATGCAGGGACATAATTACCA--TCAAAATGCAGACACCA
+i ponAbe2.chr6 I 232 C 0
+s calJac1.Contig1260 96567 174 - 523245 ----TCCCTTTGCTTCTGGAAATTCACTTGAGAAGGGACACTCTGCGATGTTCTCTGGTTTTGCCTACTTTTCTGCCAAGTTCCACTAAC--TGCAGTTT-GGGGAAGAGGTGGTGATGAG----ACAAACAC--CTAATTTTGTTTGTGACCCAGGGGAGTAATTACCA--TGAAAATGCAGATGTCA
+i calJac1.Contig1260 I 589 C 0
+s rheMac2.chr4 108536130 159 + 167655696 -------------------------ACTTAAGAAGGGACACTCTGCGATGTTCTCTGGTTTTGCCTACTTTCCTGCCAAGTCCCACTAATTGTGCAGTTT-GGGGAAGAGGTGGTGGTAAGAGATAGAGACAC--CTAATTTTCCCTGTGACCCAGGGAGATAATGACCA--TCAAAATGCAGACACCA
+q rheMac2.chr4 -------------------------999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999--99999999999999999999999999999999999--99999999999999999
+i rheMac2.chr4 I 258 C 0
+s hg18.chr6 16120161 174 - 170899992 -----CCCTTGACTTCTGGAAATTCACTTAAGAAGAGACA--CTGCGATGTTCTCTGG-TTTGCCTACTTTCCTGCCAAGTCCCTCTAGC--TGCAGTTT-GGGGAAGAGGTGCTGGTGAGAGACAGAGACTC--CTAATTTTGCTTGTGACACAGGGAGATAATTACCA--TCAAAATGCAGACACCA
+i hg18.chr6 I 255 C 0
+s otoGar1.scaffold_85251.1-136255 15508 176 - 136255 ----TTTCTTGATGTGTGGAAATTCACCTAAGAAGAGCGGCTCTTCCAGGTTCT-TGGTTTTGCCTA-TCTCTGGACAAGTTCCACTCACTGTACAGTTT-GGGAGGGAGGTGGTGGTGAGAGACGGAGGCAC--CTGCTTTG--CTGTGGCGGGGGGAGGTAATCACCA--CCAAGATGCAGAGGCTG
+q otoGar1.scaffold_85251.1-136255 ----99999999999999999999999999999999999999999999999999-999999999999-99999999999699999999999999999999-99999999999999999999999999995499--99349999--9999999999999999999999999--99999999999999989
+i otoGar1.scaffold_85251.1-136255 I 3025 C 0
+s cavPor2.scaffold_284118 111201 172 - 169015 -TTATCTCTTGACCTCTGGAAGCTCACTTTGGAAGGGacacatttccattttttctgcttttgcctACCTTCCTGCCAAATTTCACTAAT--TGCAATTC--GTCAAGAGCTGATAGGGAGACACAGGGATAC--CTCATTCTGAATCTGACCTAGGGTGATAACTACCA----------CAGAGGTCA
+q cavPor2.scaffold_284118 -99987565998777569899655545799958949999585999953999999559559998963886397659652997984346774--97425596--4773679553763859686852435996466--54425732665554563336197665364235121----------323735443
+i cavPor2.scaffold_284118 M 21828 C 0
+s equCab1.chr31 13073284 177 + 24938454 TTAGTCCCTTGACCTCTGGAAACTCA----GGAAGGGACACAAGTTCGTCTTTTCCAGTTTTGTCTGCCTTCCTGCCGAGTTCCACTAACTG---AAGTTTGGGCAAGAGGTGATGGTGAGAGA-TGAGACAC--CGAACTTTGCTTCTGACCCAGGGAGAGAACCACCA--TCAAAATGCAGAGGTCG
+q equCab1.chr31 99999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999---99999999999999999999999999999-99999999--99999999999999999999999999999999999--99999999999999999
+i equCab1.chr31 I 108 C 0
+s bosTau3.chr9 13752422 175 - 95030419 ----TTCCTTGACCTCTGGAAATTCACTTAAAAAGGGACATGCTTCCTTTTTCC-----TTTGTCTACCTTCCTGCCAGGTTCCACTCACTGTGCAGTTTGGGGGAAGAGATGAAGGTGAGGAA-TGAAACAT--GTAGCTTCACTTCCAACCCAGCTAGAGCACAGCCA--TCAAAATGCAGATGCTG
+q bosTau3.chr9 ----99999999999999999999999989999968998999689999999999-----99999999999999999999999999999999996999999999999999999999999999999-99999999--99999999999999999999999999999999999--99999999999999999
+i bosTau3.chr9 I 1105 I 2947
+s canFam2.chr1 78280091 170 - 125616256 ----TCCCTTTACTTCTGGAAATTCACTT-AGGAAGGGCATGCTTCCCTCCTCTCTGGATTTGCCCAC---CCTGCTAAGACCCACCAACTGTGCAGTTTTGGGGAGGAGATGATGATGAGGGA-GGAGACAC--CTTGTTTTGCTTCTGACCCAGGGAGAGAGCCAT--------AGTTCAGAGGCCA
+q canFam2.chr1 ----9999999999999999999999999-99999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999-99999999--999999999999999999999999999999999--------9999999999999
+i canFam2.chr1 I 1605 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230033466 299 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=106309.000000
+s mm9.chr10 3215736 99 + 129993255 CCATGCGCCTCGACTACCAAGTGCTCTTACTGTGCGCCCAGGCTGTTTGCAGAACATAAACACTGGCAGACAGGAAC--TAGGCTC----------------------CCTCAGCTCCTGACC-----
+s ponAbe2.chr6 16432554 99 - 174210431 TTTTATAGCTTAGCTACCAAGTGTTCTTGTGATGTGCCCAGGATATTTTCAGAATATAAACTCTGGTAAACAAGTAC--TCTGTAG----------------------ACTCAGCCCCCAGCC-----
+i ponAbe2.chr6 C 0 I 17
+s calJac1.Contig1260 96741 121 - 523245 TTTTATAGCTTTGCTTCCAAGTGTTCTTGTGATGTGCTCAGGATATTTTCAGAATATAAACTCTGGTAGACAAATAC--TCCATAGGTATTTGTCTACCAGAGTTTATATTCTGAAAACAGCC-----
+i calJac1.Contig1260 C 0 I 17
+s rheMac2.chr4 108536289 94 + 167655696 TTTTATAGCTTAGCTACCAAGTGTTCT-----TGTGCCCAGGATATTTTCAGAATATAAGCTCTGGTAGACAAATAC--TCTGTAG----------------------AGTTAGCCCCCAGCC-----
+q rheMac2.chr4 999999999999999999999999999-----999999999999999999999999999999999999999999999--9999999----------------------999999999999999-----
+i rheMac2.chr4 C 0 I 17
+s hg18.chr6 16120335 99 - 170899992 TTTTATAGCTTAGTTACCAGGTGTTCTTGCGATGTGCCCAGGATATTTTCAGAATATAAACTCTGGTAGACAAATAC--TCTGCAG----------------------ACTTAGTCCCCAGCC-----
+i hg18.chr6 C 0 I 17
+s otoGar1.scaffold_85251.1-136255 15684 86 - 136255 GTTTTTAGTTTAATGGTCA-TTGTTCTCATGATGCATCCTGGATGGTTTCA-CACACAAATTCTGGCAGACGGCTAC--TCGGAGG----------------------ACTT----------------
+q otoGar1.scaffold_85251.1-136255 9999999999999999999-9999999999999898999799999259998-9997999979999669988969999--9999999----------------------7998----------------
+i otoGar1.scaffold_85251.1-136255 C 0 I 14
+s cavPor2.scaffold_284118 111373 98 - 169015 CTGTACAGCTCAGCTGTGAA-TGTTCTCAATGT--GTCCAGgatattttctaaatatgaaCACTATTAGGCAAAGACTATAGACTA----------------------GTTCAGCCCCCAACC-----
+q cavPor2.scaffold_284118 49996649996469799995-777999979999--999949986689999999999999999999999999999997999999999----------------------999999999999999-----
+i cavPor2.scaffold_284118 C 0 I 17
+s equCab1.chr31 13073461 107 + 24938454 TTTTACAGTTTAGCTACCAACTGTTCTCGCGATGCGT-CGGGATATTTTCAGAATATAAACTCTGGTCGACCAGTAC--TCCGCAGACGT------------------TCTCAGCTCCCCACCTGGGC
+q equCab1.chr31 9999999999999999999999999999999999999-999999999999999999999999999999999999999--99999999999------------------99999999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78280261 86 - 125616256 TTTGATAGCTTAGCTACTCAGTGTTCTCACGATGCATCCAGGATATTTTCAGAATATAAACTCTGAAAGACCAACAC--TC----------------------------------------CCTGGGC
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999--99----------------------------------------9999999
+i canFam2.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230033466 299 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=56959.000000
+s mm9.chr10 3215835 76 + 129993255 -------------CCCGAGTCTTCAGTATTCATTATGCCTGGGTGCTCAACA--GTCCATGGAGGGGTGCCATCTCCTCCTCCTCC--TCAAC
+s rn4.chr1 230033765 75 - 267910886 -------------CCTCAGTCTTTAGTGTTCATTATGCCTCGGTGCTGAACA--GTCCGGGGAGGG-TGTCATTTCCTCCTCCTTC--TTAGT
+q rn4.chr1 -------------999999999999999999999999999999999999999--999999999999-9999999999999999999--99999
+i rn4.chr1 I 299 C 0
+s cavPor2.scaffold_284118 111488 63 - 169015 -------------tgtcatttttctgtgttctttatgTCCAAGTG-----TG--AGCCATAGAgctatttcatt--------cttt--tcaat
+q cavPor2.scaffold_284118 -------------99999999999999999999999999999999-----99--99999999999999999999--------9999--99999
+i cavPor2.scaffold_284118 I 17 C 0
+s ponAbe2.chr6 16432670 69 - 174210431 -------------TTCCATTCTTCATTATTCTTTGTGCCTGGGCACCCACCC--TTCCCAGAAGAGAGCTC-TAAG------TTGT--TCAAC
+i ponAbe2.chr6 I 17 C 0
+s otoGar1.scaffold_85251.1-136255 15784 72 - 136255 -------------TTTTATTCGTCAGTGTTCCTTCTGCCTGGAAGCCCACCA--TTCCCAGAAGGGAGTTCTTTAG------TTCTTCTCAAC
+q otoGar1.scaffold_85251.1-136255 -------------999988997999997899999996699999987996798--9989999998899889999996------99999999988
+i otoGar1.scaffold_85251.1-136255 I 14 I 3201
+s hg18.chr6 16120451 69 - 170899992 -------------TTCCATTCTTCATTATTCTTTGTACCTGGGCACCCACCC--TTCTCAGAAGAGAGCTC-TAAG------TTGT--TCAAC
+i hg18.chr6 I 17 C 0
+s rheMac2.chr4 108536400 70 + 167655696 -------------TTCCATTCTTCATTATTCTTTGTGCCTGGACACCCACCC--TTCCCAGAAGACAGCTCTTAAG------TTTT--TCAAC
+q rheMac2.chr4 -------------999999999999999999999999999999999999999--9999999999999999999999------9999--99999
+i rheMac2.chr4 I 17 C 0
+s calJac1.Contig1260 96879 72 - 523245 -------------CTCTATTCTTCATTATTCTTTGTGCCTGGGCACCCACCA--TTCCCAGAAGAGAGCTC-TCAGTCT---TTTT--TCAGC
+i calJac1.Contig1260 I 17 C 0
+s equCab1.chr31 13073568 70 + 24938454 GTTGCTC--TGTGTCTCATTCTTCAGGGTCCTTTGTGCCTGGGTGCCCACCT----------------CTCCTTTAATT---CTTG--TCAAC
+q equCab1.chr31 9999999--9999999999999999999999999999999999999999999----------------99999999999---9999--99999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78280347 88 - 125616256 ATTGCTAAGTGTGTGTCATTATACAGGCTTCTTCATGCCTGGGCACCCACCTCTTGTGGGGGAGGGAGCTTCTTTCCTT---CTTG--TTAAC
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999999999---9999--99999
+i canFam2.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=137435.000000
+s mm9.chr10 3215911 140 + 129993255 ACATTTACCG-TGTCCTTGCCCCTGAGAGGTGGCC----ACCATTCTGATTT-TAGGCTGCA-TCCTGACAGATGAGGGTTTTCCTAAACAAAAGTCATTCTTGATG----ACTTGGAGGGTGGCAGGGATGTCTTATGGGAGTGACC-----------------------CCA----------------
+s rn4.chr1 230033840 144 - 267910886 ACCCTTAGTG-TGTCCTTTCCCGTGAGAGATGTCC----ACCATTCTGTTTTCTAGGCTGCA-TCCTGACAGATGAGGGTTTTCCTAAACAGAAGTCATTCTTGATGTTGGAGTTTGGGGATGGCAGG-ATGTCTTACGGGAGTGCTC-----------------------CTG----------------
+q rn4.chr1 9999999999-999999999999999999999999----99999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999-9999999999999999999-----------------------999----------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 111551 171 - 169015 atTCTTAGTATTGTCCTGTCACCGAAAGGACATTCAgtgatcattctgtttttaacACCACAGTACTATTAAATGAATG-CTGCTGAAATGGAAGTTGTCATCTTTGTTGGAGTTTTTAGGGAATAA--CTGTTCTGTAGGAATGCTCCAATTCATTTTGCTTCCAAGGTTCTG----------------
+q cavPor2.scaffold_284118 9999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999--999999999999999999999999999999999999499999999----------------
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16432739 143 - 174210431 ATCATTACTGTTGTCCTGTCATAGAAAAGGCATTC----ACCACTCTGTTTT-GATGCCACACTCCTGGTAAATGAGAG-TTACTGATACAGAAGTAATTATCAATGTGTGTGTTTTCAGGGAGCAT--CAATTTTGTGGAAATGTTC-----------------------TAG----------------
+i ponAbe2.chr6 C 0 I 24
+s calJac1.Contig1260 96951 139 - 523245 ATCATGTTTGTTGTCCTGTCATAGAAAAGGCACTC----ATCAC----TGTT-GATGCCACACTCCTGGTAAATGAGCA-TTACTGATATAGAAGGAATTATCGATGTGTGTGTTTTCAGGGAGTAT--CCATTTTGTAGAAATGCTC-----------------------TAG----------------
+i calJac1.Contig1260 C 0 I 24
+s rheMac2.chr4 108536470 143 + 167655696 ATCATTTCTGTTGACCTGTCATAGAAAAGGCATTC----ACCATTCTGTTTT-GATGCCACACTCCTGGTAAATGAGAG-TTACTGATATAGAAGTAATGATCCATATATGTATTTTCAGTGAGTAT--CAATTTTGTGGAAATGTTC-----------------------TAG----------------
+q rheMac2.chr4 99999999999999999999999999999999999----9999999999999-99999999999999999999999999-99999999999999999999999999999999999999999999999--9999999999999999999-----------------------999----------------
+i rheMac2.chr4 C 0 I 24
+s hg18.chr6 16120520 143 - 170899992 ATCATTACTGTTGTCCTATCATAGAAAAGGCATTC----ACCACTCTGTTTT-GATGCCACACTCCTGGGAAATGAGAG-TTACTGATATAGAAGTAATTATCAATATGTGTGTTTTCAGGGAGCAT--CAATTTTGTGGAAATGTTC-----------------------TAG----------------
+i hg18.chr6 C 0 I 24
+s equCab1.chr31 13073638 155 + 24938454 ATCATTAGAGTTGTCCTGTCACAAAAAGG-TGTTC----CATGTTCTGTTTT-TAGGCCACAGTCCTGGTAAATGAGCA-TTATTGGTGCAGAAGTAGTCATCAGTGTT---GCTTTTGGAGAGTTC--CTGTTCTGTGTAAATGTTT-----------------------CAATTCACTTTGGCTTCTA
+q equCab1.chr31 99999999999999999999999999999-99999----9999999999999-99999999999999999999999999-99999999999999999999999999999---999999999999999--9999999999999999999-----------------------9999999999999999999
+i equCab1.chr31 C 0 I 7
+s canFam2.chr1 78280435 156 - 125616256 ATCATTAATGCAG-CCTGTCCCTGGAGAG-ATGTC----ATCATTCTGTTTT-TAGGCCACAGTCCTGGTAAATGAGAG-TTATT-TTACAGACATCATCATCAATGTTAGAGTGTTTGGAGAGTGT--CTATTCTGTGCCAATGCCG-----------------------TAGTTTAGCTCTGCTTCCA
+q canFam2.chr1 9999999999999-999999999999999-99999----9999999999999-99999999999999999999999999-99999-99999999999999999999999999999999999999999--9999999999999999999-----------------------9999999999999999999
+i canFam2.chr1 C 0 I 6
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e panTro2.chr6 16639272 4473 - 173908612 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=81928.000000
+s mm9.chr10 3216051 33 + 129993255 AGGATCTGGATTTTGACCCTGTGCTTTCAGATA
+s rn4.chr1 230033984 33 - 267910886 AGGTTCTGGATTTTGGCCCTCTGTTTTCACATA
+q rn4.chr1 999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 111722 33 - 169015 AGGGGCTGAATCCTGGCCCTGAGCCTTTAGGTA
+q cavPor2.scaffold_284118 999999999999889989999999999999999
+i cavPor2.scaffold_284118 C 0 I 1764
+s hg18.chr6 16120687 33 - 170899992 AGAATCTGGATCCTGGCCTCATGTTTTCAGATA
+i hg18.chr6 I 24 I 10
+s panTro2.chr6 16643745 33 - 173908612 AGAATCTGGATCCTGGCCTCATGTTTTCAGATA
+q panTro2.chr6 999999999999999999999999999999999
+i panTro2.chr6 I 4473 I 10
+s ponAbe2.chr6 16432906 33 - 174210431 AGAATCTGTATCCTGGCCTCATGTTTTCAGATA
+i ponAbe2.chr6 I 24 I 10
+s rheMac2.chr4 108536637 33 + 167655696 AGAATCTGGATCCTGGCCTCATGTTTTCAGATA
+q rheMac2.chr4 999999999999999999999999999999999
+i rheMac2.chr4 I 24 I 10
+s calJac1.Contig1260 97114 33 - 523245 AGAATCTGGATCCTGGCCTCATATTTTCAGATA
+i calJac1.Contig1260 I 24 I 10
+s equCab1.chr31 13073800 32 + 24938454 AGGGCCTGGATCCTGGCCCCGTGC-TTCAGACA
+q equCab1.chr31 999999999999999999999999-99999999
+i equCab1.chr31 I 7 C 0
+s canFam2.chr1 78280597 32 - 125616256 AGGGTCTGCATCCTGTCCCTGTGT-ATTTGAGA
+q canFam2.chr1 999999999999999999999999-99999999
+i canFam2.chr1 I 6 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=159671.000000
+s mm9.chr10 3216084 116 + 129993255 -----------CTGATATATTG-GATATCAGTGAAGTCCATACTGAACTGAATTAA---------------GGGCTCAGGTT---------GGGAGATTAT--TCTAGAAGATAGACAG---AGCCCA---TGCCTCTGTGCCTTTGTATCCCTTCT-GAA-
+s rn4.chr1 230034017 113 - 267910886 -----------CTGATTTATTG-GATATCAATGAATTCCATACTGAACTGAGTTA-----------------GGCTAGGGTT---------CGGAGATTAT--CTTAGAAGATAGACAG---AGCCCA---TGGCTCTGTGCCTTTGTATCCCT-CT-GAG-
+q rn4.chr1 -----------99999999999-99999999999999999999999999999999-----------------9999999999---------9999999999--9999999999999999---999999---99999999999999999999999-99-999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16120730 144 - 170899992 -----------TTGACATGTTGAGATGTCAATCAATTACAAATTGAGTAGAATTGATAGATTATGCATTAATGGCCACGGTTTAAAATATGGGGGTTCTAC--TCTGGAAGACTGAAAGCTCAGTCCC---TGCCCCTGTGACTTGGTATCTCTCCT-GAA-
+i hg18.chr6 I 10 I 2
+s panTro2.chr6 16643788 144 - 173908612 -----------TTGACATGTTGAGATGTCAATCAATTACAAATTGAGTAGAATTGATAGATTATGCATTAATGGCCACAGTTTAAAATATGGGGGTTCTAC--TCTGGAAGACTGAAAGCTCAGTCCC---TGCCCCTGTGACTTGGTATCTCTCCT-GAA-
+q panTro2.chr6 -----------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999---99999999999999999999999999-999-
+i panTro2.chr6 I 10 I 2
+s ponAbe2.chr6 16432949 144 - 174210431 -----------TTGACATGTTGAGATGTCAATCAATTACAAATTGAGTAGAATTGATAGATTATGTATTAATGGCCACGGTTTAACATATGGGGGTTCTAC--TCTGGAAGACTGAAAGCTCAGTCCC---TGCCCCTGTGACTTGGTATCTCTCCT-GAA-
+i ponAbe2.chr6 I 10 I 2
+s rheMac2.chr4 108536680 139 + 167655696 -----------TTGACATGTTGAGATT----TCAATTATAAATTGAATAGAATTGATAGATTATGCATTAATGACCAACGTTTAAAATAT-GGGGTTCTAC--TCTGGAAGACTGAAAGCTCAGTCCT---TGCCCCTGTGACTTGCTATCTCTCCT-GAA-
+q rheMac2.chr4 -----------9999999999999999----99999999999999999999999999999999999999999999999999999999999-9999999999--9999999999999999999999999---99999999999999999999999999-999-
+i rheMac2.chr4 I 10 I 2
+s calJac1.Contig1260 97157 144 - 523245 -----------TTGACATGTTGATATGTCAATCAATTACACATTGACTAGAATTGACAGATTATGCATTAGTGGCCAAGGTTTAAAATATGGGAGTTCTAC--TTTGGAAGACTGTAAGTTCAGTCCC---TGCCCCTGTGACTTGGTAACTCTCCT-GAA-
+i calJac1.Contig1260 I 10 I 1649
+s equCab1.chr31 13073832 128 + 24938454 C-CGTCTAAGATTGGCAGATTGAGATGTTCATCAATTACGTATTGA-TAGAGTTGATAGATTGTACGATAGTGGCCAACATCCAGGATATGGGGATTATGT------------------------------TTCTC-TGTGCCTTGGGGTCTCCCCC-AAAA
+q equCab1.chr31 9-99999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999------------------------------99999-99999999999999999999-9999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78280629 156 - 125616256 CATGCTCAAGATTGATGGACTGAGGTGGTCATCAATTGCATATTGAGTAACGTTGAC------TGTGTCAATGGCCAACATCTGGGTTGTAGGGATTATGTCACGGGGGAGACTAAAGACTAAGCCCCCACTTCTCTTGAGCCTGGGTGTCTCCCCCTAAAA
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=25151.000000
+s mm9.chr10 3216200 42 + 129993255 -TGTTGCTGTCA-CTTTGAT---TCTCTTGGTGACCA----CAGTTCTGTC
+s rn4.chr1 230034130 45 - 267910886 -TATAGCTGTCA-CTTTGACGACTCTCTTGGTGACCA----TAGTTCTGTC
+q rn4.chr1 -99999999999-999999999999999999999999----9999999999
+i rn4.chr1 C 0 I 63
+s hg18.chr6 16120876 46 - 170899992 -TG-AGCTGTCCTCTGTGAA---TCTCCTGGTGGCCATGTCTAGCTCCGTC
+i hg18.chr6 I 2 I 411
+s panTro2.chr6 16643934 46 - 173908612 -TG-AGCTGTCCTCTGTGAA---TCTCCTGGTGGCCATGTCTATCTCCGTC
+q panTro2.chr6 -99-9999999999999999---9999999999999999999999999999
+i panTro2.chr6 I 2 I 276
+s ponAbe2.chr6 16433095 46 - 174210431 -TG-AGCTGTCCTCTGTGAA---TCTCCTGACGGCCGTGTCTAGCTCCGTC
+i ponAbe2.chr6 I 2 I 279
+s rheMac2.chr4 108536821 46 + 167655696 -TG-AGCTGTCCTCTGTGAA---CCTCCTGGTGGCCATGTCTAGCTCCGTC
+q rheMac2.chr4 -99-9999999999999999---9999999999999999999999999999
+i rheMac2.chr4 I 2 I 88
+s equCab1.chr31 13073960 21 + 24938454 CGG-GGCTGTCA-CTGTGAA---CAC-------------------------
+q equCab1.chr31 999-99999999-9999999---999-------------------------
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78280785 40 - 125616256 CAG-AGCTGTCA-GTGTGAG---CAC-----TGGCTAT-CCCAGTCCTTCC
+q canFam2.chr1 999-99999999-9999999---999-----9999999-999999999999
+i canFam2.chr1 C 0 I 252
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=0.000000
+s mm9.chr10 3216242 65 + 129993255 TACATTAACTTCCCTTGCTTCCTTCACAACCTGAGGTCAAAGGGGAGCACCTTCTTCCCACCCAG
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e rn4.chr1 230034175 63 - 267910886 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e equCab1.chr31 13073981 0 + 24938454 C
+e rheMac2.chr4 108536867 88 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78280825 252 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16120922 411 - 170899992 I
+e panTro2.chr6 16643980 276 - 173908612 I
+e ponAbe2.chr6 16433141 279 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-3098.000000
+s mm9.chr10 3216307 60 + 129993255 TGTCTAGCATGGACTT----------------GCTGGCCTT-CAGCCGTGGTTCCCATAC--TAATTGTGAGGACCC--GA--
+s rn4.chr1 230034238 61 - 267910886 TGTCTAGCATGGACTT----------------GCTGGCCTTTCACGGGTGGTTCCCATAC--TAACTGTGAGGACCC--GG--
+q rn4.chr1 9999999999999999----------------9999999999999999999999999999--999999999999999--99--
+i rn4.chr1 I 63 C 0
+s panTro2.chr6 16644256 60 - 173908612 GGCTTGGCACAGTCTC----------------ACTGGCCTT-CACCAAATATTTCCCTGCCTTGACTCCAAGATTTC------
+q panTro2.chr6 9999999999999999----------------999999999-99999999999999999999999999999999999------
+i panTro2.chr6 I 276 I 1
+s ponAbe2.chr6 16433420 60 - 174210431 GGCTTGGCACAGTCTC----------------ACTGGCCTT-CACCAAATATTTCCCTGCCTTGACTCCAAGATTTC------
+i ponAbe2.chr6 I 279 I 1
+s rheMac2.chr4 108536955 75 + 167655696 AGCTTTTTTTTTTTTTTTTTTTTTTAGTAGAAACAGGGCTT-CATTA---TTTTCTCCAGGCTGATCTTGAACTCTCGA----
+q rheMac2.chr4 99999999999999999999999999999999999999999-99999---99999999999999999999999999999----
+i rheMac2.chr4 I 88 I 221
+s equCab1.chr31 13073981 60 + 24938454 TGGCTATCCCAGTCCT----------------TCTAGTCCT-TAGATCTCGTTCACAGTC--TTACTTCGGGGAGCC----TT
+q equCab1.chr31 9999999999999999----------------999999999-999999999999999999--999999999999999----99
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78280825 252 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16120922 411 - 170899992 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=7080.000000
+s mm9.chr10 3216367 85 + 129993255 CTG--GACCTTTCCTAGCTGGAGCTGGTT----GGTCAGTGTCATTGTTA--------------TATCGTAG-AAGG------------TCTCATAGGGGATTTTAGA---TAAGTCCTTT
+s rn4.chr1 230034299 102 - 267910886 CTG--GTCCTCTCCTAGCTAGAGCTGGCT----GGTCAGCGTCACTGTTAATTGTAGAGGAAACCATTGTAG-AAGG------------GCTCATTGGGGATTTTAGAGTGTGAGTCCTTT
+q rn4.chr1 999--999999999999999999999999----999999999999999999999999999999999999999-9999------------99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16644317 100 - 173908612 TTGCTGTTCTTTACCAACCAGAA--AAAT----CATTGTTGTCATTGTTA--------------GATTGTAG-AAGGTAAGATTGAAGTTCTCACATGAGATATTAAAAACCATGTCCTTT
+q panTro2.chr6 99999999999999999999999--9999----99999999999999999--------------99999999-999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1 I 1438
+s ponAbe2.chr6 16433481 101 - 174210431 TTGCCATTCTTTACCAACCAGAA--AAAT----CATTGTTGTCATTGTTA--------------GATTGTAGAAAGGTAAGATTGAATTTCTCACATGAGATATTAAAAACCATGTCCTTT
+i ponAbe2.chr6 I 1 I 2037
+s equCab1.chr31 13074041 48 + 24938454 ---------------------AA--GGGTCTTGCATCACCATCTGGGCTA--------------GAT------AGGG-----------------TTTGAGGTA-------------CCTTT
+q equCab1.chr31 ---------------------99--9999999999999999999999999--------------999------9999-----------------999999999-------------99999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e rheMac2.chr4 108537030 221 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78280825 252 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16120922 411 - 170899992 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=8512.000000
+s mm9.chr10 3216452 303 + 129993255 Ctgcatgtgcaagacttacgcaagccagccaaaatcccagcacggatcacacaactcacgaagcctcaccactctggggagcagcaggcaaccgatggctt-ctggaagaggggggagtctgttttcttcagggatgtggaccttggcaggctaccc---ctgctgcaggctgccctgcctccagtcacattcaggcaatactgactggCCATAAAGTTAGAGGCCTGCTGATGGGGACGGGGAGGGAACAAGAGAACAAGAATTTGAGAGGAAAAGAGGGA--ATGGGTGTGGATTGGATCCAAACAT
+s rn4.chr1 230034401 306 - 267910886 Atgcatgtgcaagacttacacaagccagacaaaatcacagcaaggaccacccaactcatgaagtcttacccctctgaggagcccctggcaactaacggatgactgctgggagagggactccgttttcctcagggatgtgggccctgacaggctacccaagctgcagcagatggtcctgcacccattca--ttcttacagtactaagtggCCATAA-GTTAGAGGCCTGATGATGGGGAGGGGGAGAGAACGAGAGAACAAGAATTTGAGAGGAAAAGAAGGAGGATGGTTATGGATTGGACCCAAACAT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13074089 150 + 24938454 --TTATGTCCA------------------------TCCAGGCCTGAGCACAGTTCTCATGTGGTGCCTCCATTTCACCGAGCATCT------TCATGCCTT--------------GACTCCGATTTCCTT--------------------GCTGTTC---CTGT----------------CCCAACCA------GAAAACACTGACCG-----------------TTGCTG--------------------------------TTAGACTATAAAAGAGAGA----------AGATTGAA---------
+q equCab1.chr31 --999999999------------------------999999999999999999999999999999999999999999999999999------999999999--------------999999999999999--------------------9999999---9999----------------99999999------99999999999999-----------------999999--------------------------------9999999999999999999----------99999999---------
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e rheMac2.chr4 108537030 221 + 167655696 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e canFam2.chr1 78280825 252 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16120922 411 - 170899992 I
+e panTro2.chr6 16644417 1438 - 173908612 I
+e ponAbe2.chr6 16433582 2037 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=40903.000000
+s mm9.chr10 3216755 138 + 129993255 GGTCATGTATGAGtattaaatatttaataaaaatGTAAGTCCCTTGAGGTCAGTAATGTAATTAAAGT--------AAGGATTTAATTTTT--AAAGTTAAT-TTATACACGAGTGTTTGTACTGTGGGTCCCCACTGCTGAATTTAAC
+s rn4.chr1 230034707 144 - 267910886 GGTCACatataaatattaaatatttaataaaaatGTAATTTCCTTGAGGTCAGTAATGTAATTAAAGTTAAA--GTAAGGATTTAATTTTT--AAAGTTAAT-TTATACATGAGTGTTTGTACTATGGGCACCCACTACTAAATTCAAC
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999--999999999-9999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16121333 125 - 170899992 --------------ATGAGATATT-----AAAAACCATGTCCTTTGAGACCAGTATCATAGTTCAAACTCAGCCATGTGGATTTGAAGTTA--AGATTAACTCGTATATATGAATGCATATA---TGTATAAATAGTACTAAAATAAAC
+i hg18.chr6 I 411 I 5
+s rheMac2.chr4 108537251 132 + 167655696 GGTCTCATGTGA------AACATT-----AAAAACCATGCCCTTTGAGACCAGTATCATAGTTCAAATTCAGCCGTGTGGATTTGAAATTA--AGATTATAT-ACATATATGAATGCATATA---TGTATATATAGTACTAAAACAAAC
+q rheMac2.chr4 999999999999------999999-----99999999999999999999999999999999999999999999999999999999999999--999999999-9999999999999999999---999999999999999999999999
+i rheMac2.chr4 I 221 I 5
+s equCab1.chr31 13074239 122 + 24938454 GTTCTTACACAAG------ATTTT-----AAAAAACAGGTCCTTGGAGACCAATGATATAATTAAAGTGAAGCTGTGTGGATTTAAAATTT----AACTCGT-ATGTCTGTGTGTATGTCTA-----------TCATACTAAATTAAAC
+q equCab1.chr31 9999999999999------99999-----99999999999999999999999999999999999999999999999999999999999999----9999999-9999999999999999999-----------9999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78281077 113 - 125616256 -------------------ATATT-----TAAAAATAGGTTCTTTGAGACCAATAACATAATTAAAATTAAGCTGTATGGGTCTTACATTTTTAAAATTAAC-TTGTGTGGATGTGTCTTTA-----------CGATACTGAATTAAAT
+q canFam2.chr1 -------------------99999-----9999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999-----------9999999999999999
+i canFam2.chr1 I 252 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e tupBel1.scaffold_114895.1-498454 412547 2661 - 498454 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e panTro2.chr6 16644417 1438 - 173908612 I
+e ponAbe2.chr6 16433582 2037 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=60397.000000
+s mm9.chr10 3216893 165 + 129993255 -----AG-AGTTGTATATTTTCCGTGCAGCAAGCA-TGTCACATGCCCTTCATATGTGTGAC----CACAGTTACCACAGCTGCCCAGC-TGGAAGAGGATCTTCCACCCATTGATTTCTGTCACACAGATGAGGCACAGAATTTGAGCGAG-CTGCCTCAGCA--GTGCGGCTAATCAG
+s rn4.chr1 230034851 142 - 267910886 -----AG-AGTTGTGTGTTTGCTGTGTGGCAAGCA-TGTCACATGCCCTTCATGTGTGTTAT----TGCGGTTACCACAGCTGCCCAGC-TGGATGATGATCTTGTCCACATCGATCCCCGTCATACCGATGACGGCAATA--------------------------CGCAGCTAATCTG
+q rn4.chr1 -----99-999999999999999999999999999-99999999999999999999999999----99999999999999999999999-999999999999999999999999999999999999999999999999999--------------------------9999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108537388 169 + 167655696 -----AA-GGTTGTGTATTTACTATGGGA-AAGCAGTGTCCTAAGTTGTTTACATGTGTGAT----CTTAATTCTCACAGGCACCCGATGTTGGTACTATTCTTGTCCCTATTTATTCTCATTTTATAGATGGGGCACAGAGATATTGTGTGACTTGCTCAACAATAAACAGCTAATAAG
+q rheMac2.chr4 -----99-999999999999999999999-99999999999999999999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 5 I 318
+s hg18.chr6 16121463 173 - 170899992 -----AA-GGttgtgtattttctatggga-aagcagtgtcctaagttgtttacatgtgttaccttacttaattctcacagccaccctatgttggtgctatccttgtccctatttattctcattttatagatggggcacagagacattgtgtgacttgctcaacaataaacagctaataag
+i hg18.chr6 I 5 I 318
+s tupBel1.scaffold_114895.1-498454 415208 169 - 498454 -----AA-GGCTGTGCACTTGCTATGTGACAAGCAGTGCCTTAAGCCTGTTACCTGTGTCTC---ACCTGTTTGTCACAGCTACCCCTTGTTAGAACTATTCTTGTTCCCATTCATTTCCCTTCTGTTAATGAAGCATGGAGAAG--GCGAGATTTGCTCAGTGAGACACAGCTGATAAG
+q tupBel1.scaffold_114895.1-498454 -----99-999999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 2661 C 0
+s canFam2.chr1 78281190 171 - 125616256 AGCATAA-GGttgtacacttactatgtgacaagcagtgtgctaagcctgttacatgtaccatatcacttaattcgccctg--------tgttggtactgttcttgtcctcatttattcccatcctatagatgagacacagagaagttgggtggtttgcccaaagatacacagctaatgag
+q canFam2.chr1 9999999-999999999999999999999999999999999999999999999999999999999999999999999999--------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13074361 84 + 24938454 AGCACAAGGGttgcacacttactgtgtgacaagcaatctgctaagccagttacatgtattatgtcacttaatcctcactg-----------------------------------------------------------------------------------------caac-------
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999999999999-----------------------------------------------------------------------------------------9999-------
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e panTro2.chr6 16644417 1438 - 173908612 I
+e ponAbe2.chr6 16433582 2037 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=2041.000000
+s mm9.chr10 3217058 55 + 129993255 AAGGCCAGCCAGGCTCTCAC-------CCACAGCCACAAGGCCACACT--------------------------------------------------------------CCTAACCAGCGGGA
+s rn4.chr1 230034993 55 - 267910886 AAGGCTAGCCAGGATCACAC-------CCACAGCCCCAAGGCCACACT--------------------------------------------------------------CCTAACCAGCAGGA
+q rn4.chr1 99999999999999999999-------999999999999999999999--------------------------------------------------------------99999999999999
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108537875 54 + 167655696 AAGTCTAGCCAGGGTCACAT-------CCAGAGTTCCAAG-CAATACT--------------------------------------------------------------TCTAGTCAATAGTA
+q rheMac2.chr4 99999999999999999999-------9999999999999-9999999--------------------------------------------------------------99999999999999
+i rheMac2.chr4 I 318 I 400
+s hg18.chr6 16121954 50 - 170899992 ----ctagccaggatcacat-------ccagagttccaag-caatact--------------------------------------------------------------cCTAGTCAATAGTA
+i hg18.chr6 I 318 I 1
+s tupBel1.scaffold_114895.1-498454 415377 56 - 498454 ---TAGAGCCAGG-TCACACCAGATAGCCAGAGTCCCAAGTCCACACT--------------------------------------------------------------CCTGGTCAATAG--
+q tupBel1.scaffold_114895.1-498454 ---9999999999-9999999999999999999999999999999999--------------------------------------------------------------999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78281361 120 - 125616256 agctatagccaggatagcac---ctggatggagtcccaagcccatgctctAGTCCGTGATGGCCTTGGTACTGAtttgtataaactagctcattcaatctgcactgcagccctacgcaagagg-
+q canFam2.chr1 99999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13074445 13 + 24938454 --------------------------------------------------------------------------------------------------------------cctatgcaagagg-
+q equCab1.chr31 --------------------------------------------------------------------------------------------------------------9999999999999-
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e panTro2.chr6 16644417 1438 - 173908612 I
+e ponAbe2.chr6 16433582 2037 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-11619.000000
+s mm9.chr10 3217113 19 + 129993255 CACTGCTGCA--------------------------------------TGCTtttcc
+s rn4.chr1 230035048 19 - 267910886 CACGGCTGAA--------------------------------------TGCTTTTCT
+q rn4.chr1 9999999999--------------------------------------999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16122005 22 - 170899992 CACTGCTACT-----------------------------------GATTGCtttttc
+i hg18.chr6 I 1 I 410
+s rheMac2.chr4 108538329 43 + 167655696 CACTGCAGCT----CTATGCAAGAGATA----------TTATCAGTATCACTCCTTT
+q rheMac2.chr4 9999999399----99999999999999----------9999999999999999999
+i rheMac2.chr4 I 400 I 1
+s tupBel1.scaffold_114895.1-498454 415433 57 - 498454 CAGTGCTGCTAGTGATTTTCATGAACTAACTCACTTAGTCCTCACTGCCACTCTGTG
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 13
+s canFam2.chr1 78281481 21 - 125616256 ------------------------------------tactgtcagtataactgtttt
+q canFam2.chr1 ------------------------------------999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13074458 21 + 24938454 ------------------------------------tagtgtcagtgtggctgtttt
+q equCab1.chr31 ------------------------------------999999999999999999999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e felCat3.scaffold_217398 143787 114 - 219823 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e panTro2.chr6 16644417 1438 - 173908612 I
+e ponAbe2.chr6 16433582 2037 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=140564.000000
+s mm9.chr10 3217132 78 + 129993255 -cag-----------------------aggaggaaactgtgg-cacaaggaaggagttttaagtggttttcctaaggctagagttaaaag---------tgacTTCTAGGTC
+s rn4.chr1 230035067 98 - 267910886 -CAGCCTGTACGATGTCGGttttacagaggaggaaactgagg-ca------gggggttttaagtggttttcctaaagCGAGAGTTAAAAGCT------GTGGCTTCTGAGTC
+q rn4.chr1 -99999999999999999999999999999999999999999-99------99999999999999999999999999999999999999999------99999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16122437 82 - 170899992 -cag-----------------------aagaggaaagggaggcca------cagatgtttaagtgatttgctcagagctagagtcataaccctggcacctggctcctaagcc
+i hg18.chr6 I 410 I 19
+s panTro2.chr6 16645855 82 - 173908612 -cag-----------------------aggaggaaagggaggcca------cagatgtttaagtgatttgctcagagctagagtcataaccctggcacctggctcctaagcc
+q panTro2.chr6 -999-----------------------999999999999999999------9999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 1438 I 19
+s ponAbe2.chr6 16435619 82 - 174210431 -cag-----------------------aggaggaaagggaagcca------cagatgtttaagtgatttgctcagagctagagtcataaccctggcacctggctcctaagcc
+i ponAbe2.chr6 I 2037 I 52
+s rheMac2.chr4 108538373 82 + 167655696 -CAG-----------------------AGGAGGAAAGGGAGGCCA------CAGATGTTTAAGTGATTTCCTCAGAGCTAGAATCATAACCCTGGCACCTGGCTCCTAAGCC
+q rheMac2.chr4 -999-----------------------999999999999999999------9999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1 I 19
+s tupBel1.scaffold_114895.1-498454 415503 79 - 498454 -CAG-----------------------AGGAGGAAACTGAGA-CA------CAGATGACTCAGTGCTTTGTTCAGAGCTAGAATTATAA-CCTGGCA-TTGGCTCCCGAGCC
+q tupBel1.scaffold_114895.1-498454 -999-----------------------999999999999999-99------99999999999999999999999999999999999999-9999999-99999999999999
+i tupBel1.scaffold_114895.1-498454 I 13 I 16
+s canFam2.chr1 78281502 73 - 125616256 ttga-----------------------g-aaagaaactgagg-ca------tgggtatttaagtgatttgcccagagctagaattctaac--------ttgactctggaact
+q canFam2.chr1 9999-----------------------9-9999999999999-99------999999999999999999999999999999999999999--------99999999999999
+i canFam2.chr1 C 0 I 557
+s equCab1.chr31 13074479 82 + 24938454 tcag-----------------------aggaggaaactgagg-ca------caggtgtttaagtgattctcttagagctagaattctaacccgggcagctggctcccgagcc
+q equCab1.chr31 9999-----------------------999999999999999-99------9999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 16
+s felCat3.scaffold_217398 143901 67 - 219823 -----------------------------gaggaaactgagg-ca------t-ggtgtttaagtgatttgctcagagCTTGATCTCTGAC--------TTGGCTCCCAAGCC
+q felCat3.scaffold_217398 -----------------------------3334439896826-32------3-6436332232645685545422225222311333375--------46334321223363
+i felCat3.scaffold_217398 I 114 I 16
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-6194.000000
+s mm9.chr10 3217210 16 + 129993255 CCCTAT------------TGAGCCAATT-------
+s rn4.chr1 230035165 15 - 267910886 CTCTGT-------------GAGCCGAGT-------
+q rn4.chr1 999999-------------999999999-------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16645956 28 - 173908612 cATTGTCATTCAAATCCCTCAGCTCATT-------
+q panTro2.chr6 9999999999999999999999999999-------
+i panTro2.chr6 I 19 I 5
+s hg18.chr6 16122538 28 - 170899992 cATCGTCATTCAAATCCCTCAGCTCATT-------
+i hg18.chr6 I 19 I 5
+s rheMac2.chr4 108538474 28 + 167655696 CATCGTCTTTCAAATCCCTCAGCTAATT-------
+q rheMac2.chr4 9999999999999999999999999999-------
+i rheMac2.chr4 I 19 I 6
+s tupBel1.scaffold_114895.1-498454 415598 28 - 498454 CCTTGTCCTTCAAAAACTTCAGCTAATT-------
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999-------
+i tupBel1.scaffold_114895.1-498454 I 16 I 6
+s equCab1.chr31 13074577 16 + 24938454 -------------------cATCTAGTCTTTCAAA
+q equCab1.chr31 -------------------9999999999999999
+i equCab1.chr31 I 16 C 0
+s felCat3.scaffold_217398 143984 15 - 219823 -------------------CTTCCAGTCTTT-GCT
+q felCat3.scaffold_217398 -------------------555532249673-322
+i felCat3.scaffold_217398 I 16 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e canFam2.chr1 78281575 557 - 125616256 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16435701 52 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=94802.000000
+s mm9.chr10 3217226 87 + 129993255 GCTTCACGGGAACACGGAC---------------------ACTGAGCACTGTTAGTATTCGTGTGAGCGTGGGTGAACTCAGCATCTGCTTGTAC-----TCTGCCTTGTTCT
+s canFam2.chr1 78282132 58 - 125616256 ----------------------------------------ATTGAGTGTTGCTAATAGTAGTAAACACACGAATGACCTCACCCC---------------TCCATGTTGGTTT
+q canFam2.chr1 ----------------------------------------999999999999999999999999999999999999999999999---------------9999999999999
+i canFam2.chr1 I 557 C 0
+s equCab1.chr31 13074593 111 + 24938454 -ACTCCCAGGGAATTCTGAGTGTCTCAAAGAAGAATGCA-GTTGAATGTGGCTCGTAGCTGTAAACACGTGAATGACCTCGTTCCCTGTTTCCACAGGGGCCGGTGTTGGTTT
+q equCab1.chr31 -99999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 143999 94 - 219823 -TCTCCCAGTTAATTTTGACTGTCTCA---AAGAATACAAATGGAGTGTTGCTAATGGCTGTGAACACATGAATGACCTCATTCC---------------CTGGTGTTGCTTT
+q felCat3.scaffold_217398 -13434322322333222366943322---1418343422523553765543324466465724699997283456477522453---------------8343367545555
+i felCat3.scaffold_217398 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 415632 87 - 498454 GTTTCAAAGAAACATCGAA---------------------GTTGAATATTGCTAATTGCTGTAAACACATGGACAGCCTTGGTCTCTTCTCACAC-----ACAGGGCTGGAGT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999---------------------9999999999999999999999999999999999999999999999999999999-----9999999999999
+i tupBel1.scaffold_114895.1-498454 I 6 I 4
+s hg18.chr6 16122571 87 - 170899992 GTTTCAAAGAAGAATGTAA---------------------GTTAAATATTGCCAATATCTGTAAACACATGAATGACCTCAGTCCCTGTTCAGAC-----ACGGGGTTGGTGT
+i hg18.chr6 I 5 I 2
+s panTro2.chr6 16645989 87 - 173908612 GTTTCAAAGAAGAATATAA---------------------GTTAAATATTGCGAATATCTGTAAACACATGAATGACCTCAGTCCCTGTTCAGAC-----ACGGGGTTGGTGT
+q panTro2.chr6 9999999999999999999---------------------9999999999999999999999999999999999999999999999999999999-----9999999999999
+i panTro2.chr6 I 5 I 2
+s ponAbe2.chr6 16435753 87 - 174210431 GTTTCAAAGAAGAATGTAA---------------------GTTAAATATTGCGAATATCTGTAAACACATGAATGACCTCAGCCCCTGTTCAGAC-----ACGGGGTTGGTGT
+i ponAbe2.chr6 I 52 I 2
+s rheMac2.chr4 108538508 87 + 167655696 GTTTCAAAGAAGAATGTAA---------------------GTTAAATATTGCAAATATCTGTAAACACATGAATGACCTCAGTCCCTGTTCAGAC-----ACGGGGTTGGTGT
+q rheMac2.chr4 9999999999999999999---------------------9999999999999999999999999999999999999999999999999999999-----9999999999999
+i rheMac2.chr4 I 6 I 2
+s rn4.chr1 230035180 74 - 267910886 GCTTCATGGGAACACGGGC---------------------GCTGAGCACTGTTAGTATTCTT-------------AGCACAACATCTGCTTGTAC-----TCTGCCCTGCCCT
+q rn4.chr1 9999999999999999999---------------------9999999999999999999999-------------99999999999999999999-----9999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e fr2.chrUn 66179667 1070 + 400509343 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e bosTau3.chr9 13752597 2947 - 95030419 I
+e monDom4.chr2 106268270 4804 - 541556283 I
+e ornAna1.chr2 14909689 3361 - 54797317 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=12992.000000
+s mm9.chr10 3217313 27 + 129993255 GTGTGGGG-----AACAGGTACACCAAGAAGG--------------
+s canFam2.chr1 78282190 26 - 125616256 ---TGGGGAAGAAGA---GTTACCCAAAAATA--------------
+q canFam2.chr1 ---999999999999---99999999999999--------------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 144093 26 - 219823 ---TGGGGAAGGAGA---GTTAACCAAGAATA--------------
+q felCat3.scaffold_217398 ---545557528639---32213221223122--------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13074704 29 + 24938454 ---TGGGGAGGAGGAAGTGTGTACCAAGAATA--------------
+q equCab1.chr31 ---99999999999999999999999999999--------------
+i equCab1.chr31 C 0 C 0
+s monDom4.chr2 106273074 23 - 541556283 -TTTGGGGAGAAGGAAGT--------AGAGAG--------------
+q monDom4.chr2 -99999999999999999--------999999--------------
+i monDom4.chr2 I 4804 I 1
+s eriEur1.scaffold_241672 3519 21 - 11555 GTTTGGGGAACACGG-----------AGAAAG--------------
+q eriEur1.scaffold_241672 999999999999999-----------999999--------------
+i eriEur1.scaffold_241672 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 415723 32 - 498454 GTGTGTGTGTGAGGAAAGGCATGCCGGGAACT--------------
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999--------------
+i tupBel1.scaffold_114895.1-498454 I 4 C 0
+s hg18.chr6 16122660 32 - 170899992 GTTTGGGGGAGGGGAAATAAACACCAAGAATC--------------
+i hg18.chr6 I 2 C 0
+s panTro2.chr6 16646078 32 - 173908612 GTTTGGGGGAGGGGAAATGAACACCAAGAATC--------------
+q panTro2.chr6 99999999999999999999999999999999--------------
+i panTro2.chr6 I 2 C 0
+s ponAbe2.chr6 16435842 32 - 174210431 GTTTGGGGGAGGGGAAATGAACACCAAGAATC--------------
+i ponAbe2.chr6 I 2 C 0
+s rheMac2.chr4 108538597 32 + 167655696 GTTTGGGGAAGGGGAAATGAACACCAAGAATC--------------
+q rheMac2.chr4 99999999999999999999999999999999--------------
+i rheMac2.chr4 I 2 C 0
+s rn4.chr1 230035254 32 - 267910886 GTGTGGGGTGGGGGACAGTTACATCAGGAATA--------------
+q rn4.chr1 99999999999999999999999999999999--------------
+i rn4.chr1 C 0 C 0
+s ornAna1.chr2 14913050 14 - 54797317 ------------------GTATACCGAGAAAG--------------
+i ornAna1.chr2 I 3361 I 5
+s bosTau3.chr9 13755544 6 - 95030419 --------------------------AGAACG--------------
+q bosTau3.chr9 --------------------------999999--------------
+i bosTau3.chr9 I 2947 C 0
+s fr2.chrUn 207927290 30 - 400509343 ----------------GTGTGTATCAAACATGAACACAACTATGTG
+i fr2.chrUn I 1772 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e danRer5.chr21 16488700 1304 + 46057314 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e loxAfr1.scaffold_33178 7801 7143 + 41726 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-47832.000000
+s mm9.chr10 3217340 41 + 129993255 ATCTC-CATGCTGACC--T-------------------CTGCTTTT-T-CACTCT----GTGTGTGGCT
+s ornAna1.chr2 14913069 47 - 54797317 ATTGC-TAAGGTAACCAGA-------------------TTCTTCTT-A-AGATTGTTCACGTTGTTGCT
+i ornAna1.chr2 I 5 I 5
+s monDom4.chr2 106273098 44 - 541556283 ATTGT-TAAGGAAACC--A-------------------ATACTCTC-T-TTACTTGAT-CTGCATCATT
+q monDom4.chr2 99999-9999999999--9-------------------99999999-9-999999999-9999999999
+i monDom4.chr2 I 1 I 8
+s loxAfr1.scaffold_33178 14944 41 + 41726 ATTCC-TGCATTGACC--T-------------------CTGCCCCT-C-TTACAC----CGTTTGTCCT
+q loxAfr1.scaffold_33178 99999-9999999999--9-------------------99999999-9-899999----9997897999
+i loxAfr1.scaffold_33178 I 7143 I 10
+s bosTau3.chr9 13755550 35 - 95030419 ATCTC-TGAGTTAACC--T-------------------CCAAGCTT-TTACGCTT-----------GCT
+q bosTau3.chr9 99999-9999999999--9-------------------99999999-99999999-----------999
+i bosTau3.chr9 C 0 C 0
+s canFam2.chr1 78282216 34 - 125616256 GTCTC-TAAGTTCCCT--T-------------------CCACCCTT-T-GCACTG-----------GCT
+q canFam2.chr1 99999-9999999999--9-------------------99999999-9-999999-----------999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 144119 35 - 219823 ATCTCTTAATTTCACT--T-------------------CCACCCTT-A-GCACTG-----------GCT
+q felCat3.scaffold_217398 2332322422444635--5-------------------63243442-2-288555-----------555
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13074733 27 + 24938454 ATCTT-CAATTCAACC--T-------------------TCACCCTT-T-------------------TG
+q equCab1.chr31 99999-9999999999--9-------------------99999999-9-------------------99
+i equCab1.chr31 C 0 C 0
+s eriEur1.scaffold_241672 3540 27 - 11555 ACCTC-CAAGCTAACC--T-------------------GTGTGCTT-G-------------------CT
+q eriEur1.scaffold_241672 99999-9999999999--9-------------------99999999-9-------------------99
+i eriEur1.scaffold_241672 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 415755 41 - 498454 ATCTC-C-AGTTGACT--T-------------------CCGCTCTTGT-GCACTG----CTCTGCTGCT
+q tupBel1.scaffold_114895.1-498454 99999-9-99999999--9-------------------9999999999-999999----9999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s hg18.chr6 16122692 41 - 170899992 ATCTC-TGAATTGATC--T-------------------CCACTCTT-T-GCATTG----CTGTGTTACT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16646110 41 - 173908612 ATCTC-TGAATTGATC--T-------------------CCACTCTT-T-GCATTG----CTATGTTACT
+q panTro2.chr6 99999-9999999999--9-------------------99999999-9-999999----9999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16435874 41 - 174210431 ATCCG-TGAATTGATC--T-------------------GCACTCTT-T-GCATTG----CTGTGTTACT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108538629 41 + 167655696 ATCTC-TGAATTGATC--T-------------------CCACTCTT-T-GCATTG----CTGTGTTACT
+q rheMac2.chr4 99999-9999999999--9-------------------99999999-9-999999----9999999999
+i rheMac2.chr4 C 0 C 0
+s rn4.chr1 230035286 41 - 267910886 ATCTC-CAGGTTGACC--T-------------------TTGCCTTT-C-CACTCT----GTGTGTGGCT
+q rn4.chr1 99999-9999999999--9-------------------99999999-9-999999----9999999999
+i rn4.chr1 C 0 C 0
+s fr2.chrUn 207927320 17 - 400509343 ATTTC-T-------------------------------CTGTCTTC-A-GC------------------
+i fr2.chrUn C 0 I 19
+s danRer5.chr21 16490004 31 + 46057314 ------------------TGCTAACACCAACTGTACCACTGTTTTT-A-GC------------------
+i danRer5.chr21 I 1304 I 2
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12521054 1156 - 16198764 I
+e oryLat1.chr10 8631038 15 - 27595823 I
+e xenTro2.scaffold_2 3914838 1215 + 7803671 I
+e anoCar1.scaffold_0 8820335 3445 + 16654889 I
+e galGal3.chr3 61589242 1493 - 113657789 I
+e calJac1.Contig1260 97301 1649 - 523245 I
+e echTel1.scaffold_276671 7852 4974 - 58026 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=1497562.000000
+s mm9.chr10 3217381 164 + 129993255 CTCTCG-----TTGCAGACCTCACCCCCGCCCACCACCAC----------CCAGTCCCCAGAGAGTACCATGGA---TGCCTCCCTGAAGAAGGAGAAGCCAGCCATCCTGGATCTATACATCCCTCCCCCACCTGCTGTCCCCTACTCTCCCCGGTATGTCAGCCGCC----ATT-T------CATAGAGTG
+s anoCar1.scaffold_0 8823780 146 + 16654889 CTC--A-----CAGCAGACCAGTCCGCCTCCAACTACTAC----------TCAGTCCCCAGAAAGCACCATGGAGACTACTTCACTGAAAAAAGAGAAGCCTGCCATTCTGGACCTATACATACCTCCTCCACCAGCTATTCCATATGCTCCTCGGTATGCCA------------------------------
+q anoCar1.scaffold_0 999--9-----99999999999999999999999999999----------99999999999999999999999999999999999999999999999999999999999999909999999999999999999999999999999999999999999999999------------------------------
+i anoCar1.scaffold_0 I 3445 I 2038
+s galGal3.chr3 61590735 143 - 113657789 AAT--G-----TTTCAGACCAGTCCTCCACCAACTTCAAC----------CCAGTCTCCAGAAAGCACAATGGA---CACTTCAGTGAAAAAGGAGAAGCCAGCCATTTTGGATCTGTACATACCACCTCCACCAGCTGTTCCATATTCTCCTCGGTATGTAA------------------------------
+i galGal3.chr3 I 1493 I 2499
+s ornAna1.chr2 14913121 146 - 54797317 GTT--G-----TTTCAGACCTCTTCTCCACCCACCATTAC----------GCAGTCCCCCGAAGGCACCATGGA---TGCCTCACTGAAGAAAGAGAAACCAGCCATTCTGGACCTCTATATCCCTCCCCCCCCTGACGTTCCCTACTCTCCTCGGTAGGCAGCTG---------------------------
+i ornAna1.chr2 I 5 I 2413
+s monDom4.chr2 106273150 157 - 541556283 TTT--G-----TTTCAGACCTCTCCTCCACCTACTACCAC----------CCAGTCCCCAGAAAGTACCATGGA---CACTTCACTGAAGAAAGAGAAATCTGCCATTTTGGACCTTTATATCCCTCCTCCACCAGCTGTCCCCTACTCTCCTCGGTATGCAA----------ATATT------CATGTTTTG
+q monDom4.chr2 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------99999------999999999
+i monDom4.chr2 I 8 I 9
+s echTel1.scaffold_276671 12826 143 - 58026 CTC--A-----TTTCAGACCTCTCCTCCACCCACGACGAC----------CCAGTCCCCCGAGAGCACCATGGA---CACTTCTCTGAGGAAGGAGAAGCCGGCCATCCTGGACCTCCACATCCCGCCCCCGCCAGCCGTGCCCTACTCCCCCCGGTACGTCA------------------------------
+q echTel1.scaffold_276671 999--9-----99999999997999999999996998999----------999999999999999999998999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------------------------
+i echTel1.scaffold_276671 I 4974 N 0
+s loxAfr1.scaffold_33178 14995 163 + 41726 TTC--C-----TTTCAGACCTCTCCTCCGCCCACAACAAG----------CCAGTCCCCTGAAAGCATGACGGA---TGCCTCACTGAAGAAGGAGAAGCCGGCCATCCTAGACCTTTATATCCCTCCGCCGCCAGCCGTACCCTATTCCCCGCGGTACGTGAGTGTCC----GACCT------TGTGGTGGG
+q loxAfr1.scaffold_33178 999--9-----99979599998889999799757877699----------975379997799996989998489---88895732555759628999938889898999998999999899999999988888999895389888898896844776982377877799----89998------663557856
+i loxAfr1.scaffold_33178 I 10 I 63
+s bosTau3.chr9 13755585 157 - 95030419 CCC--------TTTCAGACCTCACCTCCCACCACGACCAC----------CCAGTCCCCGGACAGCACGATGGA---TGCCTCGCTGAAGAAGGAGAAGCCAGCCATCCTGGATCTTTATATTCCTCCTCCACCAAGTGTTCCCTACTCGCCCCGGTAAGTCCGTGCCC----ATT-T------T----CGTG
+q bosTau3.chr9 999--------99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999-9------9----9999
+i bosTau3.chr9 C 0 I 671
+s canFam2.chr1 78282250 143 - 125616256 TCC--A-----TTTCAGACCTCACCTCCGCCCACGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCGCTGAAGAAGGAGAAGCCAGCTATCCTGCATCTTTATATCCCTCCTCCACCAGCTGTTCCCTACTCTCCCCGGTACGTCA------------------------------
+q canFam2.chr1 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------------------------
+i canFam2.chr1 C 0 I 800
+s felCat3.scaffold_217398 144154 142 - 219823 TCC--G-----TTTCAAACCTCACCTCCACCCACGACAAC----------CCAGTCCCCTGAAAG-GCAATGGA---TACCTCGCTGAAGAAGGAGAAGCCCGCCATCTTGGATCTTTATATCCCTCCTCCACCAGCCGTTCCCTACTCGCCCCGGTAGGTCA------------------------------
+q felCat3.scaffold_217398 541--2-----55444263334355532122223343345----------353166344445321-12323545---43334324336316415414211122344676443576333321332334449622111232333423433316632332235444------------------------------
+i felCat3.scaffold_217398 C 0 I 1981
+s equCab1.chr31 13074760 157 + 24938454 CCT--A-----TTTCAGACCTCACCTCCACCCATGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCGCTGAAGAAGGAGAAGCCAGCCATCCTGGATCTTTATATTCCTCCTCCACCGGCCGTTCCCTACTCTCCCCGGTATGTCCTTGTCC-----TT-T------C----CGTG
+q equCab1.chr31 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99-9------9----9999
+i equCab1.chr31 C 0 I 835
+s eriEur1.scaffold_241672 3567 162 - 11555 TCT--G-----TGTCAGACCTCACCTCCTCCCACCACAAC----------CCAGTCCCCTGAGAGCACCATGGA---CGCCTCGTTGAAGAAGGAGAAGCCCGCCATCCTGGACCTGTACATCCCCCCTCCACCTGCTGTCCCCTACTCTCCCCGGTATGTCAGTGCCTGTCCACT-T------CATGG----
+q eriEur1.scaffold_241672 999--9-----99999999999999999999999999999----------999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999899-9------99999----
+i eriEur1.scaffold_241672 C 0 I 1165
+s tupBel1.scaffold_114895.1-498454 415796 158 - 498454 CTC--G-----TTTCAGACCTCACCTCCTCCCACGACCAC----------TCAGTCTCCTGAAAGCACCATGGA---TACCTCGCTGAAGAAGGAGAAGCCAGCCATCCTGGACCTATACATTCCTCCTCCGCCGGCTGTTCCCTACTCTCCCCGGTATGTTAACATCC----ATC-T------CCTGG----
+q tupBel1.scaffold_114895.1-498454 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999-9------99999----
+i tupBel1.scaffold_114895.1-498454 C 0 I 475
+s hg18.chr6 16122733 163 - 170899992 CCT--G-----TTTCAGACCTCACCTCCACCCGCGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCACTGAAGAAGGAGAAGTCAGCCATCCTGGATCTTTATATTCCTCCTCCGCCTGCTGTTCCCTACTCTCCCCGGTATGTTGCTGTCC----ATTGT------CATGGTATG
+i hg18.chr6 C 0 I 19
+s panTro2.chr6 16646151 163 - 173908612 CCT--G-----TTTCAGACCTCACCTCCACCCATGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCACTGAAGAGGGAGAAGTCAGCCATCCTGGATCTTTATATTCCTCCTCCGCCAGCTGTTCCCTACTCTCCCCGGTATGTTGCTGTCC----ATTGT------CATGGTATG
+q panTro2.chr6 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999------999999999
+i panTro2.chr6 C 0 I 19
+s ponAbe2.chr6 16435915 163 - 174210431 CCT--G-----TTTCAGACCTCACCTCCACCCACGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCACTGAAGAAGGAGAAGTCAGCCATCCTGGATCTTTATATTCCTCCTCCGCCAGCTGTTCCCTACTCTCCCCGGTATGTTGCTGTCC----ATTGT------CATGGTATG
+i ponAbe2.chr6 C 0 I 2257
+s rheMac2.chr4 108538670 163 + 167655696 CAT--G-----TTTCAGACCTCACCTCCACCTACGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCGCTGAAGAAGGAGAAGTCAGCCATCCTGGATCTTTATATTCCTCCTCCACCAGCTGTTCCCTACTCTCCCCGGTATGTTGCTATCC----ATTGT------CATGGTATG
+q rheMac2.chr4 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999------999999999
+i rheMac2.chr4 C 0 I 19
+s rn4.chr1 230035327 162 - 267910886 CTC--A-----TTGCAGACCTCACCCCCGCCCACCACAAC----------CCAGTCCCCAGAGAGCACCATGGA---TGCCTCCCTGAAGAAGGAGAAGCCAGCCATCCTGGACCTATACATTCCTCCCCCACCTGCTGTTCCCTACTCTCCCCGGTATGTTAGCTGCC----TTT-T------CATAGAGTG
+q rn4.chr1 999--9-----99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999-9------999999999
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_2 3916053 142 + 7803671 ---TCT-----TTTTAGACAAGTCACTCACCAACAGCTAT----------GCAGTCTCCAGAAAGCACTTCAAA---TTCTTCTCTAAAAAAAGAAAAGCCGGCAATTCTTGATCTTTACATACCACCACCACCAAGTGTTCCGTATTTTCCACGGTATGtaa------------------------------
+i xenTro2.scaffold_2 I 1215 I 803
+s calJac1.Contig1260 98950 142 - 523245 -----------------ACCTCACCTCCACCCATGACAAC----------CCAGTCCCCTGAAAGCACTATGGA---TACCTCGCTGAAGAAGGAGAAGTCAGCCATCCTGGATCTTTATATTCTTCCTCCGCCAGCTGTTCCCTACTCTCCCCGGTATGTTGCTGTCC----ATT-----------------
+i calJac1.Contig1260 I 1649 I 601
+s fr2.chrUn 207927356 119 - 400509343 -----------------------TCCCTGCAGACCTCAGC----------CTGAAGCGCCAGAAGCTCTG-----------------AAGAGAGGGAAGACGTTCATAGTGGATCTGGATGTCCCGCCTCCCCCCACAGTCCCGTacacacagctgtcagtca--------------ca-cacC---------
+i fr2.chrUn I 19 n 19
+s oryLat1.chr22 12885549 155 - 28810691 -----ttgtttttccagaataATTCCTCACTGATCAGAGC----------CCAGTCTCCCTGTAGCTCAGCTAA---TGGGTCGACCAAAAGGGAGAAGCCAGCAATCCTGGATTTTTacattcctcctcctcctcaagtGCCGTACACTCCACGGTGAGACA--------------Tc-cctttttt-----
+q oryLat1.chr22 -----99999999999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------99-99999999-----
+i oryLat1.chr22 I 1531 I 230
+s gasAcu1.chrXV 12522210 141 - 16198764 -----------TTTCAGAACAACTCCTCCCCGATCACAAT----------CCAGTCCCCCTGCGGCTCGGCTAA---CGGATCGACCAAAAAGGAGAGGTCGGCCATCCTGAACTTGtacatcccccctcctcctccgatgCCCTACACCCCACGGTGAGCCG--------------CC--------------
+q gasAcu1.chrXV -----------99999999999999999999999999999----------999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------99--------------
+i gasAcu1.chrXV I 1156 I 432
+s danRer5.chr21 16490037 155 + 46057314 ------------------ATCA-TCCCCCCAAGCCCCAGCAGCAGTGTGGCCACACCGTCCAGCACCCTG--AG---CACCCCATCCAGACGGGACAGCTGCGCTCTACAGGACCTCTACATCCCCCCTCCACCAGATGAACCATACACACCCAGGTACAGCG--------------TTACATTCAAAGACAG
+i danRer5.chr21 I 2 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-20675.000000
+s mm9.chr10 3217545 57 + 129993255 GACTGCTAGCGGCTGCATG-------------------GGTGGGTGTCGAAG-------------CAGGGATGGGTCTCAA-------------------------TCACTTCA
+s rn4.chr1 230035489 54 - 267910886 GACTGCTAGCCACTGCATG-------------------GGGAGATGTTGAAC-------------CAGGGTGGGGGTC----------------------------TCACTTCC
+q rn4.chr1 9999999999999999999-------------------99999999999999-------------9999999999999----------------------------99999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16122915 111 - 170899992 ATTTGTAAATGGTGGTGTGAAAAGAGGATCTTGAGAGAGGAAGTTGCTGAGCCACA---GTGTGACAGGGCTGAATCTTGAACTGCCGTTAAAAGTATGATCAGCCTTATTTTA
+i hg18.chr6 I 19 C 0
+s panTro2.chr6 16646333 111 - 173908612 GTTTGTAAATGGTGGTGTGAAAAGAGGATCTTGAGAGAGGAAGTTGCTGAGCCACA---GTGTGACAGGGCTGAATCTGGAACTGCCGTTAAAAGTATGATCAGCCTTATTTTA
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 19 C 0
+s rheMac2.chr4 108538852 111 + 167655696 GTTTGTAAATGGTGGTGTGAAAAGAGGATCTTGAGAGAGGAAGTTGCTGAGCCACA---GTATGACAGGGCTGAATCTTGAACTACCATTAAAAGTATGATCAGCCTTACTTTA
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 19 C 0
+s loxAfr1.scaffold_33178 15221 67 + 41726 AGCTGGTGACCGCAGTGTG-----------------GCGG-----GCCGAGCCTTACACCCATGTTAAAGACTGGTCAGAC-------------------------TTGCTTTA
+q loxAfr1.scaffold_33178 9998995979968656869-----------------8666-----869695998998679977997795799582776899-------------------------96569979
+i loxAfr1.scaffold_33178 I 63 C 0
+s monDom4.chr2 106273316 44 - 541556283 ------------------------AGCTTCTTTTTACTGTGGATTTTTTAA--------TGGTGATAAAGTT--------------------------------------TTCA
+q monDom4.chr2 ------------------------999999999999999999999999999--------9999999999999--------------------------------------9999
+i monDom4.chr2 I 9 C 0
+s danRer5.chr21 16490192 63 + 46057314 ------AAATGAGAGCACACACTGGTGCACTT-------AAAGATCCTGAGCCACA---TC----TAGAAATCAA-------------------------------CCACTTAA
+i danRer5.chr21 C 0 I 103
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e bosTau3.chr9 13755742 671 - 95030419 I
+e equCab1.chr31 13074917 835 + 24938454 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e calJac1.Contig1260 99092 601 - 523245 I
+e tupBel1.scaffold_114895.1-498454 415954 475 - 498454 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=23660.000000
+s mm9.chr10 3217602 60 + 129993255 ------------------------------TGGGTCTTAAAAGTTACACA-TTTGATC----------CTGAGATGCCCTTT-AAGAAAAGAATGCCAACAT
+s rn4.chr1 230035543 59 - 267910886 ------------------------------tggggcttgaaagttgtaca-tttggtg----------gtgaggtgcccttt-aa-aaaagagtgccaacat
+q rn4.chr1 ------------------------------99999999999999999999-9999999----------99999999999999-99-9999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16123026 89 - 170899992 -TAGGAGTGTagggacatatctgggttctgtggggcttg-aagctatacagtttggtg----------gggagg-gcccttctgagaaaagaatatggcagt
+i hg18.chr6 C 0 I 313
+s panTro2.chr6 16646444 89 - 173908612 -TAGGAGTGTagggacatatctgggttctgtggggcttg-aagctatacagtttggtg----------gggagg-gcccttttgagaaaagaatatggcagt
+q panTro2.chr6 -99999999999999999999999999999999999999-999999999999999999----------999999-999999999999999999999999999
+i panTro2.chr6 C 0 I 317
+s rheMac2.chr4 108538963 89 + 167655696 -TAGGAGTGTAGGGACAGATCTAGGTTCTGTGGGGCTTG-AAGCTATACAGTTTAGTG----------GGGAGG-GCCCTTTTGAGAAAAGAATATGGCAAT
+q rheMac2.chr4 -99999999999999999999999999999999999999-999999999999990999----------999999-999999999999999999999999999
+i rheMac2.chr4 C 0 I 314
+s loxAfr1.scaffold_33178 15288 98 + 41726 GGGGGAGTGCAGGGACAGGTCCAGGTGTTGTAGGACTTA---GCTGTATAATTTGGTGTGTGTGTAGAGGGGGGTACTCAGT-AAGAAAAGAATAttaacat
+q loxAfr1.scaffold_33178 799889766757967977999959968947688966959---9957889999999989899958779899999687999878-9779997999999999998
+i loxAfr1.scaffold_33178 C 0 C 0
+s monDom4.chr2 106273360 69 - 541556283 -ATGGCACATATTAACA-------------TACGTTTTG------GTAGG-TTTGATT----------TTGGAA-GTATTAT-CAGCAAAAATAGTGGAAAT
+q monDom4.chr2 -9999999999999999-------------999999999------99999-9999999----------999999-9999999-9999999999999999999
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e bosTau3.chr9 13755742 671 - 95030419 I
+e equCab1.chr31 13074917 835 + 24938454 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e calJac1.Contig1260 99092 601 - 523245 I
+e tupBel1.scaffold_114895.1-498454 415954 475 - 498454 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=157597.000000
+s mm9.chr10 3217662 168 + 129993255 ATCTCACTT---GTGAAAAATCCACACAAGT--TTAT-GC------TTTTGGGG---------------CCTTGGATGGCACTGCCTAGGGGGCT-------------AGTTTTCTCAGTTCCATGATAAGTTCACTTGTAGAGAGGA-CACTACAAGT----ATTTGTGTGAGAGTCATTAAAATTGTATCCTGA-T-TTTACCAAGAAAGATA
+s rn4.chr1 230035602 178 - 267910886 atctcactt---gtgaaaagtttacagaagt--ctgt-gc------ttttgggc---------------ccttggatggggctgcctagggatccc---tgtagcttaagtttcctaggctccatgataaactcatttGTAGAGAAGA-CACTAAGAGT----GTTTGTGTGAGAGTCATTAAAATTATATCCTGA-T-TTTACCAAGAAAGATA
+q rn4.chr1 999999999---9999999999999999999--9999-99------99999999---------------999999999999999999999999999---9999999999999999999999999999999999999999999999999-9999999999----999999999999999999999999999999999-9-9999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16123428 175 - 170899992 accttactt---ttgaaaaacgaatgaaaac--gtgc-tc------tcctgggg---------------ccttggaagggtctatt--gggggccc---tgcaggttaagtttcattaactccatggtaaattcatctTGAGGGGGTA-GATAATAAGT----ATTTCTGTGAGATTAATGAGAGTTGCAGCTTGA-T-TTTGCTGAGAAAGAT-
+i hg18.chr6 I 313 C 0
+s panTro2.chr6 16646850 175 - 173908612 accttactt---ttgaaaaatgaatgaaaac--gtgc-tc------tcctgggg---------------ccttggaagggtctgtt--gggggccc---tgcaggttaagtttcattaactccatggtaaattcatctTGAGGGGGTA-GATAATAAGT----ATTTCTGTGAGATTAATGAGAGTTGCAGCTTGA-T-TTTGCTGAGAAAGAT-
+q panTro2.chr6 999999999---9999999999999999999--9999-99------99999999---------------99999999999999999--99999999---9999999999999999999999999999999999999999999999999-9999999999----999999999999999999999999999999999-9-999999993999999-
+i panTro2.chr6 I 317 C 0
+s rheMac2.chr4 108539366 175 + 167655696 ACCTTACTT---TTGAAAAATGAATGAAAAT--GTGC-TC------TCCTGGGA---------------CCTTGGAAGGGTCTGTT--GGAGGCCT---TGCAGGTTAAGTTTCATTAACTCCATGGTAAATTCATCTTGAGGGGGTA-GATAATAAGT----ATTTCTGTGAGATTAATGAGAGGTGCAGCTTGA-T-TTTGCTGAGAGAGAT-
+q rheMac2.chr4 999999999---9999999999999999999--9999-99------99999999---------------99999999999999999--99999999---9999999999999999999999999999999999999999999999999-9999999999----999999999999999999999999999999999-9-999999999999999-
+i rheMac2.chr4 I 314 C 0
+s calJac1.Contig1260 99693 179 - 523245 ACCTTACTT---TTGAAAAGTGAATGAAAACATGTGT-TT------tcctgggg---------------ctttggaagagtctgttgaggggaccc---tgagggttaaatttcattaaatccatggtaaattcatctTGTGGGGGTA-GATAATGAGT----ATTTCTGTGAGATTAATGAGAGTCACAGCTTGA-T-TTTGCTGAGAAAGAT-
+i calJac1.Contig1260 I 601 I 2640
+s tupBel1.scaffold_114895.1-498454 416429 159 - 498454 ATCTGACTT---TTGGAAAGTGTACAAAAGCCTATGCTTC------TTCTGGGT---------------CCTTGGAAGGGGCTGTTTAGAGGGTCT---TTGCAGTTAGAGTCC-TTAACTTCGTGGTAAATTCATCTTTGGGGAGGA-AATAA--------------------ATCA-----AGTTACAGCTTGATT-TTTGCTGAAATAGAT-
+q tupBel1.scaffold_114895.1-498454 999999999---9999999999999999999999999999------99999999---------------999999999999999999999999999---999999999999999-999999999999999999999999999999999-99999--------------------9999-----999999999999999-999999999999999-
+i tupBel1.scaffold_114895.1-498454 I 475 C 0
+s loxAfr1.scaffold_33178 15386 189 + 41726 ----atctt---ttgaaaaatttataacaac--atat-gc------ccttggatacacgttgtgaagactcttcctggggactgttt-gagggacc---tgaagtttaagttgcattaactgtatggtaaaattatttctgCAGAGGAGGATAGTGACT----ACTTCTGTGAGGTAAATTAAAGTTCCCGCTATA-T-TTTGCCGAGAGAGACA
+q loxAfr1.scaffold_33178 ----79999---9889999799999959999--9999-99------99939899897789567897887999899899999989999-99999999---999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999999-9-9999999999999999
+i loxAfr1.scaffold_33178 C 0 I 2938
+s monDom4.chr2 106273429 171 - 541556283 -TCTTAGTTGGAGGGGAAAATGGTAATCATC--CTAT-TCATAAGTTTCT-------------------CCTTCCCATGGCCAATGGAGAAAACTCCAGTTTAGTCTGGGTTTGACCAAA-------------CGTGTTTGAGGATAT-GATACTAGGTTTGAATTTGGGCATAATCAGATATATTCACTTCTTTA-TCTTTGATGATA------
+q monDom4.chr2 -999999999999999999999999999999--9999-999999999999-------------------999999999999999999999999999999999999999999999999999-------------999999999999999-99999999999999999999999999999999999999999999999-999999999999------
+i monDom4.chr2 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e bosTau3.chr9 13755742 671 - 95030419 I
+e equCab1.chr31 13074917 835 + 24938454 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=3916.000000
+s mm9.chr10 3217830 35 + 129993255 Aacacatgtgcac--------acacaaacacaaacatatgt--ag
+s rn4.chr1 230035780 34 - 267910886 TACATATGTGCAC--------ATTCGA-CACAAACATATAG--AG
+q rn4.chr1 9999999999999--------999999-9999999999999--99
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16123603 34 - 170899992 -------GTGTTCTTCATAGAACTTGAAAAAAAACCTATGT----
+i hg18.chr6 C 0 I 362
+s panTro2.chr6 16647025 36 - 173908612 -------GTGTTCTTCATAGAACTTGAAAAAAAACCTATGT--gg
+q panTro2.chr6 -------9999999999997999999999999999999999--99
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108539541 36 + 167655696 -------GTGTTCTTCATAGAACTTGAAAAAAAACCTATGT--GG
+q rheMac2.chr4 -------9999999999999999999999999999999999--99
+i rheMac2.chr4 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 416588 36 - 498454 -------GTGTTCTTCATAGGACTT--AAATAAACCCATGCAAGA
+q tupBel1.scaffold_114895.1-498454 -------999999999999999999--999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s monDom4.chr2 106273600 35 - 541556283 ---AAATTAGTTTTAAGCAATAC-----CACAGAGAAATGT--GG
+q monDom4.chr2 ---99999999999999999999-----9999999999999--99
+i monDom4.chr2 C 0 I 2775
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e bosTau3.chr9 13755742 671 - 95030419 I
+e equCab1.chr31 13074917 835 + 24938454 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-11115.000000
+s mm9.chr10 3217865 49 + 129993255 acaaataaacacaggcacacatgtatatgcacacacacatctacagatg-----------
+s rn4.chr1 230035814 49 - 267910886 ACATATAAACACAGGCATACATGCATATGTacacacacatacacagatg-----------
+q rn4.chr1 9999999999999999999999999999999999999999999999999-----------
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16647061 7 - 173908612 ccaggta-----------------------------------------------------
+q panTro2.chr6 9999999-----------------------------------------------------
+i panTro2.chr6 C 0 I 271
+s rheMac2.chr4 108539577 34 + 167655696 CCAGGTGTG-GTGGC-TCACACCGATATTTCCACAC------------------------
+q rheMac2.chr4 999999999-99999-99999999999999999999------------------------
+i rheMac2.chr4 C 0 I 239
+s tupBel1.scaffold_114895.1-498454 416624 58 - 498454 GTAGGTATA-GCCTCTTCATATTTGTGTGTGTGTGTGTGCGCAT-TATACATTACAGATA
+q tupBel1.scaffold_114895.1-498454 999999999-9999999999999999999999999999999999-999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 156
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e bosTau3.chr9 13755742 671 - 95030419 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e equCab1.chr31 13074917 835 + 24938454 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16123637 362 - 170899992 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=5272.000000
+s mm9.chr10 3217914 122 + 129993255 cacagacacacat-catccataaatatacacaGAGGcatacatacatacatctacacatatacatgcagacacacaaaacacacacctgcacaaacttacatacttacatatatacaaa--------caaa
+s rn4.chr1 230035863 131 - 267910886 cacagacacacatacatatacacagagacacacatacatatacacacatacacccacctacacatacagatatgcaaaacacatacatgcacaaatgtatatacttacatatacacataaacatctacacg
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e bosTau3.chr9 13755742 671 - 95030419 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e equCab1.chr31 13074917 835 + 24938454 I
+e rheMac2.chr4 108539611 239 + 167655696 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e tupBel1.scaffold_114895.1-498454 416682 156 - 498454 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16123637 362 - 170899992 I
+e panTro2.chr6 16647068 271 - 173908612 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-9145.000000
+s mm9.chr10 3218036 50 + 129993255 tatacacaaacacacatacacatatatacacagatgcacacaca---cCATGG
+s panTro2.chr6 16647339 46 - 173908612 tagtctcaaaaacaaaaaaaca---aaaaacagaaaaaCCCAGA---C-CTTG
+q panTro2.chr6 9999999999999999999999---9999999999999999999---9-9999
+i panTro2.chr6 I 271 C 0
+s rn4.chr1 230035994 49 - 267910886 tacacacagacccacatacacaTATATACCAAGATGCACACACA---C-ATGG
+q rn4.chr1 99999999999999999999999999999999999999999999---9-9999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13075752 5 + 24938454 -----------------------------------------------C-ACAG
+q equCab1.chr31 -----------------------------------------------9-9999
+i equCab1.chr31 I 835 C 0
+s bosTau3.chr9 13756413 23 - 95030419 -----------------------------AGAGAGACACGTGTTCTTC-ATAG
+q bosTau3.chr9 -----------------------------9999999999999999999-9999
+i bosTau3.chr9 I 671 C 0
+s tupBel1.scaffold_114895.1-498454 416838 21 - 498454 ----------------------------CATACACACATGTGCA---C-CTGG
+q tupBel1.scaffold_114895.1-498454 ----------------------------9999999999999999---9-9999
+i tupBel1.scaffold_114895.1-498454 I 156 I 3
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e rheMac2.chr4 108539611 239 + 167655696 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16123637 362 - 170899992 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-15294.000000
+s mm9.chr10 3218086 34 + 129993255 CACTCTGAAAAATTG-----------------TGAGGTGATATGAATTGAA--
+s rn4.chr1 230036043 34 - 267910886 CACTCTGAAAAGTTG-----------------TGAAGTGATAGGAAATGAA--
+q rn4.chr1 999999999999999-----------------9999999999999999999--
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16647385 16 - 173908612 --------------------------------TGAG--TGTAGG-TATGAA--
+q panTro2.chr6 --------------------------------9999--999999-999999--
+i panTro2.chr6 C 0 I 20
+s rheMac2.chr4 108539850 48 + 167655696 TACTCTCAAAAACAAGAAAACGCAAACCCATGTGAC--TGTAGG-TATGAA--
+q rheMac2.chr4 999999999999999999999999999999999999--999999-999999--
+i rheMac2.chr4 I 239 I 10
+s tupBel1.scaffold_114895.1-498454 416862 32 - 498454 CACTTTTTAAGTTGC-----------------CAGG--TCCAGGACTTGAA--
+q tupBel1.scaffold_114895.1-498454 999999999999999-----------------9999--9999999999999--
+i tupBel1.scaffold_114895.1-498454 I 3 C 0
+s bosTau3.chr9 13756436 31 - 95030419 -GAGTTAAAAAACG------------------TGAA--AACAGG-TGTGAATG
+q bosTau3.chr9 -9999999999999------------------9999--999999-99999999
+i bosTau3.chr9 C 0 I 4
+s equCab1.chr31 13075757 21 + 24938454 -AACTTAAAAAA-----------------------------ATA-TGTGAAT-
+q equCab1.chr31 -99999999999-----------------------------999-9999999-
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e canFam2.chr1 78282393 800 - 125616256 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e hg18.chr6 16123637 362 - 170899992 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=25167.000000
+s mm9.chr10 3218120 38 + 129993255 GTGTGTGTG--------TGAGCAAGGTGCATGTGTGCTTGTGTTAT
+s rn4.chr1 230036077 36 - 267910886 ATGTGTGTG----------AGCAAGGCACGTGTGTGCTTGTGTTAT
+q rn4.chr1 999999999----------999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16123999 33 - 170899992 gtgtgtgtg----------tgt---gtgtgtgtgtgtgtgtACCAT
+i hg18.chr6 I 362 I 15
+s panTro2.chr6 16647421 33 - 173908612 gtgtgtgtg----------tgt---gtgtgtgtgtgtgtgtACCAT
+q panTro2.chr6 999999999----------999---999999999999999999999
+i panTro2.chr6 I 20 I 15
+s rheMac2.chr4 108539908 33 + 167655696 TTGTGTGTG----------TGT---GTGTGTGTGTGTGTGTACCAT
+q rheMac2.chr4 999999999----------999---999999999999999999999
+i rheMac2.chr4 I 10 I 8
+s tupBel1.scaffold_114895.1-498454 416894 32 - 498454 CTGTGGTCA----------GCC---ATGTGGGAGTCCA-GTGCCGT
+q tupBel1.scaffold_114895.1-498454 999999999----------999---9999999999999-9999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 27
+s canFam2.chr1 78283193 33 - 125616256 gtgtgtgtg----------tgt---gtgtgtgtgtgtgCCTATTAT
+q canFam2.chr1 999999999----------999---999999999999999999999
+i canFam2.chr1 I 800 C 0
+s equCab1.chr31 13075778 42 + 24938454 GTGGGTGTGGACAC-TATATTC---ACATGTGTGTGTGTCTATTGT
+q equCab1.chr31 99999999999999-9999999---999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13756471 43 - 95030419 GTATTTGTGCATCCATATGTGT---TTACGTGTATTTATCTATTAT
+q bosTau3.chr9 9999999999999999999999---999999999999999999999
+i bosTau3.chr9 I 4 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e cavPor2.scaffold_284118 111755 1764 - 169015 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-14463.000000
+s mm9.chr10 3218158 17 + 129993255 ----------TAATTCTTGGTTTGTGT
+s rn4.chr1 230036113 17 - 267910886 ----------CAATTATTGGTTTGTGT
+q rn4.chr1 ----------99999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 113519 17 - 169015 ----------TAATTCTTTCCTTTTgg
+q cavPor2.scaffold_284118 ----------99999999999999999
+i cavPor2.scaffold_284118 I 1764 C 0
+s hg18.chr6 16124047 14 - 170899992 ----------TAGTTGCTTTCTTC---
+i hg18.chr6 I 15 I 8
+s panTro2.chr6 16647469 14 - 173908612 ----------TAGTTGCTTCCTTC---
+q panTro2.chr6 ----------99999999999999---
+i panTro2.chr6 I 15 I 8
+s rheMac2.chr4 108539949 7 + 167655696 -----------------TTTATTT---
+q rheMac2.chr4 -----------------9999999---
+i rheMac2.chr4 I 8 I 269
+s tupBel1.scaffold_114895.1-498454 416953 14 - 498454 ----------TAGTTACTTTCTTA---
+q tupBel1.scaffold_114895.1-498454 ----------99999999999999---
+i tupBel1.scaffold_114895.1-498454 I 27 I 8
+s canFam2.chr1 78283226 22 - 125616256 AAATTC-TAAAGGTTGTTCCTCT----
+q canFam2.chr1 999999-9999999999999999----
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13075820 23 + 24938454 AAAGTCTTAAAGATCATTGCTTT----
+q equCab1.chr31 99999999999999999999999----
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13756514 23 - 95030419 GAATTCTTAAAGATCATTGCTTT----
+q bosTau3.chr9 99999999999999999999999----
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e otoGar1.scaffold_85251.1-136255 15856 3201 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=101910.000000
+s mm9.chr10 3218175 112 + 129993255 CTTA-------CCTGTGATGTGATGTAGT------GGAGTGG------TCACA------------AGGAG------GACAGTAGTGATTGAGGTGTGTG--CTCCAGGCTAACTCATG--GGCTCACATATGGACATATGCTGGTGACACTAG
+s rn4.chr1 230036130 98 - 267910886 CTTA-------CCTGTGATGTGATGTAGC------AGAGCGG------TCACA------------GGGAG------A----CAGTAATTGAGGTGTGTG--CTCTAGGCTAGCTCAT------------ATGGACACGTGCTAGGGATAGTAG
+q rn4.chr1 9999-------999999999999999999------9999999------99999------------99999------9----999999999999999999--9999999999999999------------999999999999999999999999
+i rn4.chr1 C 0 I 44
+s cavPor2.scaffold_284118 113536 125 - 169015 c-ta-------tcttaaatgt-atattgCACATTGAGAGTGG------TCATACTGTTGGTACAGCGGAG------ATAGGTGATGACTTA--TGCACA--CTCTAGGCTTATTTATGTCAACTCACATATCTTAACATGATAAGACCAG---
+q cavPor2.scaffold_284118 9-99-------9999999999-99999999999999999999------9999986899999997999997------999999999999999--999999--9999999999999999999999999999999999999999999999999---
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108540225 113 + 167655696 ------------CTTAAATACTATATGGTATAATGAGGGTGG------T-ATA------------TAGAGT-----GTACAGGATGATTTA--GGTGTG--ATCTAGGCTTATTTTAATCAACTCACATATTTATATATGTTGATAAAACTAG
+q rheMac2.chr4 ------------999999999999999999999999999999------9-999------------999999-----999999999999999--999999--9999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 269 C 0
+s panTro2.chr6 16647491 113 - 173908612 ------------CTTAAATACTGTATGGTATAATGAGGGTGG------T-ATA------------TAGAGT-----GTACAGGATGATTTA--GGTGTG--ATCTAGGCTTATTTTTATCAACTCACATATTTATATATGTTGATAAAACTAG
+q panTro2.chr6 ------------999999999999999999999999999999------9-999------------999999-----999999999999999--999999--9999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 8 C 0
+s hg18.chr6 16124069 113 - 170899992 ------------CTTGAATACTGTATGGTATAATGAGGGTGG------T-ATA------------TAGAGT-----GTACAGGATGATTTA--GGTGTG--ATCTAGGCTTATTTTTATCAACTCACATATTTATATATGTTGATAAAACTAG
+i hg18.chr6 I 8 C 0
+s otoGar1.scaffold_85251.1-136255 19057 104 - 136255 -----------------CTGCTGTATGGTATAATGAGGATGG------T-ATA------------TAAAG------GTCGGAGATGATGGA--G--GTG--ATCTAGGCTTATGCTT-TCAGTTTGCATATTTATATATGTGGATAAAACTAG
+q otoGar1.scaffold_85251.1-136255 -----------------9677698788878677786988697------5-668------------89989------879979996786999--9--899--9599996899996999-98899997799999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 I 3201 C 0
+s tupBel1.scaffold_114895.1-498454 416975 119 - 498454 ------------TTTAAATGTCATATGGTGTAGTGAGGGTGGTCATACT-GGA------------TGATGT-----ATAGGGGATGATTTA--GGTGTG--GTCTAGGCTTATTTAAATCAATTCACATATTTACATATGCTGATAAAACTAG
+q tupBel1.scaffold_114895.1-498454 ------------9999999999999999999999999999999999999-999------------999999-----999999999999999--999999--9999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 8 C 0
+s canFam2.chr1 78283248 101 - 125616256 CTTAAT------------TGATAAATGGTATAACAAGAAGAG------TCATA------------TTAACTGTTACATAGGGGATTATTTA--GGTATGAAATACAGGC----TTATACCAATTTACCTATTAAC----------------AG
+q canFam2.chr1 999999------------999999999999999999999999------99999------------99999999999999999999999999--9999999999999999----9999999999999999999999----------------99
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13075843 132 + 24938454 CTTAATGGCTTGCTTAAACGTTATATGGTGCAATGAGATG-G------ACATA------------TTAGATGTTCTGTAGGGGATAATTTA--GGTCTGAAATAAAGGCTTATTTATATCAACTTACATATTTACATATGCTGGTAAAACTAG
+q equCab1.chr31 9999999999999999999999999999999999999999-9------99999------------99999999999999999999999999--999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13756537 132 - 95030419 CTTAATGGCTATTTTAAATGTT-TATGGTGAAGTGAGGATGG------TCATG------------CCAGATGTTATATAGGGGGTGATTGA--GGTATGAAATACAGGCTTATTTATACCATCTGACATATTTACATATGCTAGTAAAACTAG
+q bosTau3.chr9 9999999999999999999999-9999999999999999999------99999------------99999999999999999999999999--999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=346715.000000
+s mm9.chr10 3218287 266 + 129993255 AAGATGTTGCT--------------TCTATTCAGAATACACTT---GAGTGAGGGGCCGAATT-ACCCCTTGGCACA-AACAGACTTGGT--TGTTTCTGCCTCTGATACTGCCAAGGTCTCAGTCACCTGGTCAAACACAAACCAAGAAGGACGCCTT---------GTATGTCAGAAGGCA-GAGGTGGAGCAGCAGTTGTC-GTAGTGA-ATGTGCCTGCTCATTTG---------TTCCTGCTCA-----------------TCAGAAGTTTTGCTATCTTGTG---TTCTT---GCCTGGGGACAGAGCAGCTGC-CCGTGGTTTC------------C-----------------
+s cavPor2.scaffold_284118 113661 290 - 169015 ACAGTCTGGATCA------------TTTCCTCAGCATACACTTAATGATAGAGGAGTCTAGGTGACCACCAACCACAGAACACACCTG---------CGCCCCACAAACCTGCCAGTGTGTCATCCAGCTGTTTAAGAAGAAATTGAGGAATACGTGCT---------ATATTTCATAAGACA--AGTTCAGGCTGCAtttttttGTAGTGGCATTTTTCTCCACACTGGA----A--TTTTCCATTGA-CTTGT-----------TTTGagctatttgtttcttttgcgCTTCTT---GCCTGGAGTCAGGGAAGATTC-ACATGGTTTTATGTGGAATGAAT-----------------
+q cavPor2.scaffold_284118 9999999999999------------999999999999999999999999999999999999999999999999999999999999999---------99999999999999999999999999999999999999999999999999999999999999---------999999999999999--9999999999999999999999999999999999999999999999----9--99999999999-99999-----------999999999999999999999999999999---999999999999999999999-99999999999999999999999-----------------
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108540338 297 + 167655696 AAAGTCTGGCTCA------------TTTATTCAGCATATCTTTCCTGAGTATTGGGTCTGGGTTACCATCTGACACAAAACAGACTCAGT--CCTT-GACCCTGCAGAACTACCAGGGTCTTATTCAGCAATTCAAGCATATATTGAGAAATATATGTTTAGGCTATAATATTTCATAAAACA-AAGTTCGGGCTGGATTTTATTACAGTGACATTTTACTGTATATCAGA----A--TTTGTTGTTTA-CTGGTTTTCATTTGAAGCTGAGGTATTTGCTT-CATTGTATTTCTTCTGTTTTGGGTGCAGAGA-----------TGTTTT------------T-----------------
+q rheMac2.chr4 9999999999999------------99999999999999999999999999999999999999999999999999999999999999999--9999-99999979999999999999999999999999999999999999999999999999999959999999999999999999999999-99999999999999999999999999999999999999999999999----9--99999999999-99999999999999999999999999999999-9999999999999999999999999999999-----------999999------------9-----------------
+i rheMac2.chr4 C 0 I 1
+s panTro2.chr6 16647604 304 - 173908612 ACAATCTGGCTCA------------TTTATTCAGCATATCTTTCCTGAGTATTGGGTCTGGGTTACCCTCTGACACAAAACAGACTCGGT--CTTT-GACCCTACAGAACTGCCAGGGTCTTA-TCAATAATTCAAGCATATATTGAGAAATATATGATTAGGCTATAATATTTCATAAAACA-AAGTTCAGGCTGGATTTTATTACAGTGACATTTTACTTTCTATCAGA----A--TTTTTTGTTTG-TTAGTTTTCATTTGAAGCTGAGGTATTTGCTT-CATTGTATTTCTTCTGCATTGGGTGCAGAGA---TTCAACATTGTTTT------------C-----------------
+q panTro2.chr6 9999999999999------------99999999999999999999999999999999999999999999999999999999999999999--9999-99999999999999999999999999-99999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999----9--99999999999-99999999999999999999999999999999-9999999999999999999999999999999---99999999999999------------9-----------------
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16124182 305 - 170899992 ACAATCTGGCTCA------------TTTATTCAGCATATCTTTCCTGAGTATTGGGTCTGGGTTACCCTCTGACACAAAACAGACTCGGT--CTTT-GACCCTACAGAACTGCCAGGGTCTTATTCAACAATTCAAGCATATATTGAGAAATATATGATTAGGTTATAATATTTCATAAAACA-AAGTTCAGGCTGGATTTTATTACAGTGACATTTTACTTTCTATCAGA----A--TTTTTTGTTTG-TTGGTTTTCATTTGAAGCTGAGGTATTTGCTT-CATTGTATTTCTTCTGCATTGGGTGCAGAGA---TTCAACATTGTTTT------------C-----------------
+i hg18.chr6 C 0 I 1
+s otoGar1.scaffold_85251.1-136255 19161 294 - 136255 AGAACCCAATGTACATGTATTTCTGTATATTCTGTGTACATTTCCTGAGT-----------GTTACCACCTGACACAAAACAGACCCACT--GCTT-ACTCGTAGACAACTTCCAGAGACTTGATTCACCTATGAAGAAGAATTTGAGAAATACACAATTATACTGTAATATTTCAAAGGGCC-CAGTTCAGACTGCA-CTGATGACAGTGACGTTTTGCGCCC---------------------CCTG-GAGTTCTTCCTTTGTAGCTGAGCCATTTGCTTCCGTTGTGTTTCTTTGGTGTCAGGGACAGAGAGGATTCAACGTTGTTTC------------C-----------------
+q otoGar1.scaffold_85251.1-136255 99999999999999999999999999999999999999999999999999-----------99999999999999999999999999999--9999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999779-99999999999999-9999999999999999999999999---------------------9999-999999999999999999999999999999999999998999999999999999999869999999659999999999999------------9-----------------
+i otoGar1.scaffold_85251.1-136255 C 0 I 66
+s tupBel1.scaffold_114895.1-498454 417094 309 - 498454 CAAATCTGACCTA------------TTTGTCTTGCATACGTTTACTGAGTGTTGGGCCTAGGTCACTGTATGACCCTGGGCAGGCCCTGT--CCTT-GCCCTGAGAGGACTACCAGTGTCTTATTCAACTCTTCAGGAATATATTGAGAGATACATAACTACGGTATCATATTTCAGAAGGTA-GAGTTCAGGCTGAA-TTGGTTGTGGTGACATTTTACTTTATATTAGA----GTTTTTTTTGTTCATTTGTTTTTTATTTGAGGCTGAGTTATTTGTTTCAATTGTATTTTTCC--CCCTGCGTGCCAAGAAGGTTTAATAGTGTTTC------------C-----------------
+q tupBel1.scaffold_114895.1-498454 9999999999999------------99999999999999999999999999999999999999999999999999999999999999999--9999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999-99999999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999------------9-----------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78283349 322 - 125616256 AGAATTTAGCTCA------------TTTATTCAACATACCTTTAGTGTGTGTAGTGCCTGAATCACCGTCTTACCCAAAACAGATGCAGTTCTCTT-GCCCCCAGAGAACTGCCAATGTCTTAGTCAACTGTTCAAGAATAAACTGAGAAAAACATAATTATGCTATAATATTTCATAAGACA-AAGTTCGGGCTGAACTTA---ACAGTGATATTTTACTTCATGTTGGGTTTTT--TTTTTTATTGG-TTTGTTTTTGTTTTAAGCTGAG-TATTTGATTCTATCATGTTTCTT---CCCT-GGCATAAGGAAGAATTAATATCATTTT------------CTTCTCCCT--GGTTTTG
+q canFam2.chr1 9999999999999------------99999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999---9999999999999999999999999999999--99999999999-9999999999999999999999-99999999999999999999999---9999-999999999999999999999999999------------999999999--9999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13075975 312 + 24938454 AGAATCTCACTCA------------TTTATTCAACATAC--TTACTGAGCATCGGGCCTGAGTTACCACCTTACATAAAACAGACGTGGT--TCTT-GCCCCCAGAGAATGGCCAATGTCTTGGTCAGCCGTTCAGGAATAAACTGAGAAATACGTAATTATGTTATAATATTTCATAAGACA-AAGTCTGAGCTGAACTT----ACTGTGACGTTTTACT-----TTGGA----G--TTTTTTATTTG-TTTGCTTTTGTGCTAAGCTGAGCTGTTTGCTTCTGTTGTGTTTCTT---CCCTGGGCACAAGGAAGAATTAAAGTCATTTT------------CCTCTCCCTTGAGTCTTG
+q equCab1.chr31 9999999999999------------99999999999999--9999999999999999999999999999999999999999999999999--9999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999----9999999999999999-----99999----9--99999999999-9999999999999999999999999999999999999999999999---99999999999999999999999999999999------------999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13756669 316 - 95030419 AGAATCTGGCTCA------------TTTATTCAACATATATTTCCTGAGAGTTGGGCCTGATTTACCATCTTATGCAAAACAGATGTAGT--TCTT-GCCCCTAGAGAACTGCCAGTGTCTTAGTCAACTGTTCAAGAATAAATTGAGAAATACGTAATCATGCTGTAATATTTCATAAGATAGAAGTCTGGACTGAACCT----GTAGTGATGTTTCACTTTATATTGGA----G--TTTTTCA-----TTTGTTTTTGTTTTAAGCTGAACTCTTTGCATCCACTGTGTTTCTT---TCCTGGGCACAAAAAAGAAGTAACATGATTAT------------CCTCCTCCTTGAGTCTTG
+q bosTau3.chr9 9999999999999------------99999999999999999999999999999999999999999999999999999999999999999--9999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999----9--9999999-----9999999999999999999999999999999999999999999999---99999999999999999999999999999999------------999999999999999999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e rn4.chr1 230036228 44 - 267910886 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-41510.000000
+s mm9.chr10 3218553 28 + 129993255 GTC--CA--------CGTAGAGATTTACCTCTTGTGCA--------------------
+s cavPor2.scaffold_284118 113951 26 - 169015 GACAGCA--------TGTGGAGGATTTCCCCT----AA--------------------
+q cavPor2.scaffold_284118 9999999--------99999999999999999----99--------------------
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108540636 26 + 167655696 ------GTTTCCTTGAGTCTTGGTTTACTCAG--------------------------
+q rheMac2.chr4 ------99999999999999999999999999--------------------------
+i rheMac2.chr4 I 1 C 0
+s panTro2.chr6 16647909 26 - 173908612 ------ATTTCCTTGAGTCTTGGCTTACTCAG--------------------------
+q panTro2.chr6 ------99999999999999999999999999--------------------------
+i panTro2.chr6 I 1 C 0
+s hg18.chr6 16124488 26 - 170899992 ------ATTTCCTTGAGTCTTGGCTTACTCAG--------------------------
+i hg18.chr6 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 417403 25 - 498454 -----CTCTTCCTTGAGTCTTGGCATACCC----------------------------
+q tupBel1.scaffold_114895.1-498454 -----9999999999999999999999999----------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s rn4.chr1 230036272 23 - 267910886 ---------------TGTAGGGATTTACCTCTTGTGCG--------------------
+q rn4.chr1 ---------------99999999999999999999999--------------------
+i rn4.chr1 I 44 C 0
+s canFam2.chr1 78283671 30 - 125616256 ----------------------GGTTGCCCAG------AACTTAGTACAGCATATAGA
+q canFam2.chr1 ----------------------9999999999------99999999999999999999
+i canFam2.chr1 C 0 I 13
+s equCab1.chr31 13076287 30 + 24938454 ----------------------GTTTGCCCAG------AACTGATTGTGGCAGGTAGA
+q equCab1.chr31 ----------------------9999999999------99999999999999999999
+i equCab1.chr31 C 0 I 17
+s bosTau3.chr9 13756985 30 - 95030419 ----------------------GTTTGCCCAG------AACTTATTACAGCAGGTGGA
+q bosTau3.chr9 ----------------------9999999999------99999999999999999999
+i bosTau3.chr9 C 0 I 12
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e felCat3.scaffold_217398 144296 1981 - 219823 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e otoGar1.scaffold_85251.1-136255 19455 66 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-51466.000000
+s mm9.chr10 3218581 48 + 129993255 GTGATCAGTGGCA-TCTG--CTAACAAGTGTGCCTCGTTC--CTGA---TCC-A---CAG---------
+s cavPor2.scaffold_284118 113977 55 - 169015 GTGACCAGGGGCATTCTG--CCTGTAGACAGCCCTCTGCC--ATGAAGTTAC-AAGCCAG---------
+q cavPor2.scaffold_284118 999999999999999999--99999999999999999999--9999999999-9999999---------
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108540662 39 + 167655696 --AACTTATTACA-GCAT--GTA-CGAATGTACCTCAG----GTGA---TCG-----------------
+q rheMac2.chr4 --99999999999-9999--999-99999999999998----9999---999-----------------
+i rheMac2.chr4 C 0 I 1
+s panTro2.chr6 16647935 40 - 173908612 --AACTTATTATA-GCGT--GTAGAGAATGTACCTCAG----GTGA---TCG-----------------
+q panTro2.chr6 --99999999999-9999--999999999999999999----9999---999-----------------
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16124514 40 - 170899992 --AACTTATTATA-GCGT--GTAGAGAATGTACCTCAG----GTGA---TCG-----------------
+i hg18.chr6 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 417428 41 - 498454 --AACTTAGGACA-GCTT--GTAAAAAATGTACCTTAA----GTGA---TCAG----------------
+q tupBel1.scaffold_114895.1-498454 --99999999999-9999--999999999999999999----9999---9999----------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s rn4.chr1 230036295 47 - 267910886 GTGATCAGAGGCA-TCT---TTAACAAGTGGGCCTTGTCC--CTGA---TTC-A---CGG---------
+q rn4.chr1 9999999999999-999---99999999999999999999--9999---999-9---999---------
+i rn4.chr1 C 0 C 0
+s bosTau3.chr9 13757027 55 - 95030419 GTGATCAG-GGCA-TTCCGGTTGGTAGATAAGACTCTTCCCCGTAT---TCA-----CAGACA----AG
+q bosTau3.chr9 99999999-9999-99999999999999999999999999999999---999-----999999----99
+i bosTau3.chr9 I 12 C 0
+s equCab1.chr31 13076334 52 + 24938454 ----TCAGAGGCC-TTCTGGTTGGCGGACAAGACTCTTCCTTGTAT---TCC-----CAGACC----AG
+q equCab1.chr31 ----999999999-99999999999999999999999999999999---999-----999999----99
+i equCab1.chr31 I 17 C 0
+s felCat3.scaffold_217398 146277 60 - 219823 GCGATCAGAGGCA-TTCTGGTTAATAGACGGAACTCTTCCCTGCAT---TCA-----CAGACCAGAGAG
+q felCat3.scaffold_217398 5996999997898-49149949679999521293959999259966---999-----977699966799
+i felCat3.scaffold_217398 I 1981 C 0
+s canFam2.chr1 78283714 56 - 125616256 CTGATCAGAGGCA-TTGGAGTTGGTAGATGGGACTCTTCCCTATCT---TCA-----CAGACC----AG
+q canFam2.chr1 9999999999999-99999999999999999999999999999999---999-----999999----99
+i canFam2.chr1 I 13 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e otoGar1.scaffold_85251.1-136255 19455 66 - 136255 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-5895.000000
+s mm9.chr10 3218629 251 + 129993255 GG-GCCTGTGG--CGCAGATTCAGA--GTGGGTTAAAGCTGCAGGG--GATGGTGTCTCTTTATGTGGGGACCCTAGAACCGTACAG---ACCAAGGTGGGGGTCATTGTGTCAGGAACTGCTG------------TAGGGCT-----GGAG------CGTCC------AGC------------------TCTCTGGA-------------TTTC-----------AATGAGAGTGCCATTGAATATGTACTGATGAGAAAGGTGCTATGTC------CACAGGAAGGAA----------------------GGGAGC---------TGGGAC-CTTAAAATCCCTT-TG--GGGGA-GACAAG--------TGGTTGTA--------------------------------------------------- [...]
+s canFam2.chr1 78283770 296 - 125616256 AG-TCATGCGG-TCATGGGATCGTAAGTGTGTTTAAAGTGACA----AGTAGTTGCCTTTGCACATGGGGAACAC--AGTTTCA-TGATGACCACTGTGTAGGTGGTTCTATCAGAAACT---A------------------------GGAGG-----CCACTCCCAA-ACTCCCAACTCCGAAAGTCCTTGTCTGGG-------------TCTC-----------AGT--GAGGGTCACAGAAGCAGTGGCAGGATAAGGGG---TGCATATATATGTATAGTAAAGGG------------------GAAAAAGAGC---------TGGAGCTTTTC---ATCTGC-TC--GGGGGAGAC--A--------CACATGCACACATATACATGTGCACAC-----------GTGCA---------------- [...]
+q canFam2.chr1 99-99999999-9999999999999999999999999999999----9999999999999999999999999999--9999999-99999999999999999999999999999999999---9------------------------99999-----9999999999-99999999999999999999999999999-------------9999-----------999--99999999999999999999999999999999---999999999999999999999999------------------9999999999---------99999999999---999999-99--999999999--9--------999999999999999999999999999-----------99999---------------- [...]
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 146337 301 - 219823 AG-CCATGTGG-TCGCAGGATGTTAAGTGTATTTAAAGTGACA----AGTACTTGCCTTTGCACACAGAGAATAC--AGTTTCACTCATGACCAGGGCATAGTTTGTTTCAGCAGAAACT---G------------------------GGAGG-----TCCTCCCCAA-ACCCCCAACTCTGAATGTTCCCATCTGGG-------------TCTC-----------AGCA-AAGGGTCACAGAAGCAGTGGTAGGAAAAAGGT---CACGTA------CATAGTAAAGGG------------------GAAAGGGAAC---------TGGAGCTTCTT---ATCTGC-TT--GGGGG-Gac--a--------cacacgcacactcacacgagcgcacat-----------gtaca---------------- [...]
+q felCat3.scaffold_217398 99-99999999-9859769979976676999855999979999----9999895999999999999999999969--9999999999999999999999999999999999999999979---9------------------------99999-----9999999999-99999999997999999999999999999-------------9999-----------9999-99999999999999999999999999999999---999999------999999999999------------------9999999999---------99999999999---999999-99--99999-999--9--------999999999999999999999999999-----------99999---------------- [...]
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13076386 495 + 24938454 AG-TCCTGTGG-CCACGGGGTCCTAAGTTTGTCTAAAGCTACAGGG-AGTTGTTGCCCCTACACATGAACAATAC-GAGTTTCACTGATGACCAGTGTCTGGATTATTCTATCAGACATTGTAG------------------------GGAGG-----ACCCTCCCAA-CTCCTGAACCCTGAATATTCTTGTGTGGG-------------TCTC-----------AGTG-AGGGGTCACAGGAGCAGTGGTAAGAAAAAGGA---TATGTA------CACAGTGAGGGA------------------GTAGGGGACC---------TGAGGCTTTTA---ATCTTC-TT--AGGGGAGAC--A--------CATGCGCACACACACGTACACACCCATCATTAATGACGGTACACACCCATCATTTTTTG [...]
+q equCab1.chr31 99-99999999-9999999999999999999999999999999999-9999999999999999999999999999-999999999999999999999999999999999999999999999999------------------------99999-----9999999999-99999999999999999999999999999-------------9999-----------9999-99999999999999999999999999999999---999999------999999999999------------------9999999999---------99999999999---999999-99--999999999--9--------99999999999999999999999999999999999999999999999999999999999 [...]
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13757082 270 - 95030419 GGTTCCTGTGG-TTGTTGGATCTTAAGTGTGTTTAAAACTATA----AGGAGCTGTT--------------------TGTTGCTTTGATGACCAGCATGTGAACTGTTCTATCAGAAACTGTAG------------------------GGAGG-----ATCACCCCAACACCCCTAATCCTGAATATTCTTGCCTGAG-------------TCTC-----------AGCGAGGGGGTCACAAGAGCCATGGCAAGAAAAAGAG---TATGCA------CATAGTAAGGGC------------------AAGAGGGAAC---------TGGGGCTCTTA---ATGTAT-TT--GGAGAAGAC--A--------TGTGGGGACACATACAT---------------------ATTGA---------------- [...]
+q bosTau3.chr9 99999999999-9999999999999999999999999999999----9999999999--------------------99999999999999999999999999999999999999999999999------------------------99999-----9999999999999999999999999999999999999999-------------9999-----------9999999999999999999999999999999999999---999999------999999999999------------------9999999999---------99999999999---999999-99--999999999--9--------99999999999999999---------------------99999---------------- [...]
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 417470 277 - 498454 GG-CATTA-GGTTCACCAGGTCTTAAACGTGTCGAAAGCCACAGGG-AGTCTTTTCCTGTGTTCATGGGGGACTTGGAGTTTCATTGATGACCAATACAT-GATTACCCTGTCAGAATCTGTAG------------------------GGAGA-----TCCTC------TGTCACAATCCGAA----TCTTGCCTGGG-------------CCTCAGAGACGGGAGAGGAATGGGGACA--------------AGATAAAGACT------TG------TACAGTGAAGGA------------------GAAAGGGAAC---------GGGGCT-CCTC---ATCTAC-TTTAGGGAA-GAT--GTGTGTACACTTGTGCAC-----------------------------ATACA---------------- [...]
+q tupBel1.scaffold_114895.1-498454 99-99999-9999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999-99999999999999999999999------------------------99999-----99999------99999999999999----99999999999-------------9999999999999999999999999999--------------99999999999------99------999999999999------------------9999999999---------999999-9999---999999-999999999-999--999999999999999999-----------------------------99999---------------- [...]
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s otoGar1.scaffold_85251.1-136255 19521 280 - 136255 GG-CCCTCTGGTTCTCGGGAT-TAGGGTGCATTTAGAGGTGCAGAT-CACCGTTGCCTCTGTACCTCTAGGGCACGGAGTTTTACTGACAACCAGTGTGTGGGTTGTTCTGTCAG-AACCACAG------------------------GGAGA-----GGCCC------TCCCCTGACCCCAAATATTCTTGTCTGGGCCTCAGGAAGAAATCCC-----------AGGACTAGTGGCA--------------AGAAAAAAGG-GTTACATC------GATGGGGAGAGA----------------------GGGAAC---------TAGG----TTA---AGCTACTTT--GGGGA-GAT--G--------CTCTGGAGATCACATTCTG-------------------GTGCG---------------- [...]
+q otoGar1.scaffold_85251.1-136255 97-689999997989898966-998855666888899965558986-98786598888899868798869986649754189685997667856978485993496468697876-94466869------------------------99787-----63287------6557758537675885655556865689456566638665955575-----------5554455557454--------------5757888668-55553355------545477555555----------------------395634---------4555----554---554554587--58835-432--4--------4454452322434355422-------------------32332---------------- [...]
+i otoGar1.scaffold_85251.1-136255 I 66 C 0
+s rheMac2.chr4 108540702 276 + 167655696 GG-CATTCTGGTTCACGAGATCTTAAGTGTGTTTAAAGTTACAGGT-AGTATTTGCCTCTGCATATAGAGAGCACAGCATTCCAC-GATGACTAATGTGTGGATTGTTTTATCAGAAACTGGAG------------------------GAGGA-----TGCCC------TCCCTTGATCCAGAATGTTCTTGTCTGGG-------------TTGC-----------GGGA------GCA--------------AGAAAAGGAGTGGTGTGTA------CATAGTGAGAGATAAAGGAACCTGGGGCTAGAAAGAGAAC---------TGGA----TTA---AACTGC-TT--GGGAG-GAC--G--------CTTTTGAGA-----------------------------GTGCA---------------- [...]
+q rheMac2.chr4 88-9999999999999999999999999999999999999999999-99999999999999999999999999999999999999-99999999999999999999999999999999999999------------------------99999-----99999------99999999999999999999489999999-------------9999-----------9999------999--------------9999999996666667766------7766667666666667776666676767666676676666---------6666----666---667666-56--66677-766--6--------666666666-----------------------------67777---------------- [...]
+i rheMac2.chr4 I 1 C 0
+s panTro2.chr6 16647976 277 - 173908612 GG-CATTCTGGTTTGCAGGATCTTAAGTGTGTTTAAAGTTACAGGT-AGTCTTTCCCTCTGCATATAGAGAGCATGACATTCCAC----TACTAATGTGTGGATTGTTCTATCAGAAACTGGAG------------------------GAAGG-----CGCCC------TCCCTTGATCCAGAATATTCTTGTCTGGG-------------TTCC-----------TGGAGTAGTGGCA--------------AGAAAAGGGGTGCTGTGTA------CATAGTGAGAAATAAAGGAACCTGGGGCTAGAAGGAGAGC---------TGGA----TTA---AACTGC-TT--GGGAA-GAC--G--------CTTTTGAGA-----------------------------GTGCA---------------- [...]
+q panTro2.chr6 99-9999999999999999999999999999999999999999999-99999999999999999999999999999999999999----99999999999999999999999999999999999------------------------99999-----99999------99999999999999999999999999999-------------9999-----------9999999999999--------------9999999999999999999------9999999999999099999999999999999999999999---------9999----999---999999-99--99999-999--9--------999999999-----------------------------99999---------------- [...]
+i panTro2.chr6 I 1 C 0
+s hg18.chr6 16124555 277 - 170899992 GG-CATTCTGGTTTGCAGGATCTTAAGTGTGTTTAAAGTTACAGGT-AGTCTTTCCCTCTGCATATAGAGAGCATGACATTCCAC----TACTAATGTGTGGATTGTTCTATCAGAAACTGGAG------------------------GAAGG-----CACCC------TCCCTTGATCCAGAATATTCTTGTCTGGG-------------TTCC-----------TGGAGTAGTGGCA--------------AGAAAAGGGGTGCTGTGTA------CATAGTGAGAGATAAAGGAACCTGGGGCTAGGAGGAGAGC---------TGGA----TTA---AACTGC-TC--GGGAA-GAC--G--------CTTTTGAGA-----------------------------GTGCA---------------- [...]
+i hg18.chr6 I 1 C 0
+s cavPor2.scaffold_284118 114032 289 - 169015 AG-TCATGTGG-CCACAGCACCTGAAGGAAGTTTAAGGCTGCAAGGTAGACCCTGGCTGTGTACATAG------CACAGTTTCACTGACAGCCAAGGTGTGGAGTGTTGTATCAGAAACTGTAGGGTGTgccaggatgtggctcagtgggagAACACTTGCCC------AGC-------------------GCTTGGG-------------AGAC-----------TCTGAGA----CCCTGAATATTTTTCTCTGGGCCTTTTGGTAGGTC-----ACAGAGTAAGGAA----------------------AAGGGACAAGGTGAGTGGGGC-TTTT---GACCAT-CT--GGGGA-GAC-TG--------TACTTGTGT-----------------------------ATTCA---------------- [...]
+q cavPor2.scaffold_284118 99-99999999-79798999999999999999999999999999997999999999999899796999------78899999759999968886999797999997687679974996667685966965275385566995866586876676547595776------455-------------------5566585-------------5464-----------5556956----38655765557776665465242588827551346-----4544744675559----------------------975965556574565679953-5996---446536-65--59855-556-57--------766546655-----------------------------45435---------------- [...]
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230036342 257 - 267910886 GG-TCCTATGG--CACAGGTTCAGA--CCAGGTTAAAGCTGCAGGG--GATGTTGTCGATTTGCATGGGGACCCTAGGACCTTACAG---GCCAAGG-----GTCATTGTGTCAGGAACTGA---------------GGGGCT-----GGAG------CGCCC------AACCCC---------TAGTGTTCCCTGGG-------------TTTC-----------AGTGAGAGTGTCATTGAGTGTGTATTGATAAGAAGGGTGCTATGTG------CGTGGGAAGGAA----------------------GAGAGC---------TGGGAC--------TCCCTT-TG--GGGGA-GACATA--------TGGTTGTAC-----------------------------ATGCA---------------- [...]
+q rn4.chr1 99-99999999--999999999999--9999999999999999999--999999999999999999999999999999999999999---9999999-----99999999999999999999---------------999999-----9999------99999------999999---------99999999999999-------------9999-----------9999999999999999999999999999999999999999999999------999999999999----------------------999999---------999999--------999999-99--99999-999999--------999999999-----------------------------99999---------------- [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=595710.000000
+s mm9.chr10 3218880 406 + 129993255 C-CACCAGT--------GA-ACA---CCTTCACTGAGGTA-TGAGAAATGCCAAGGAATTAAGA--TCAGCAGGT-CA-GAAGTCACAGAAGCTTGCGAGTTG--A--AGCTTGTAGGGTGAGTTTGA-----CTGTAGAAGACAGATCCTG--AGAAGCTGAGGG--CATGTGG-----G-TAGCAGGCTGTCCTGGGGATGGCCTTCACAGACGTC---------------------------------------------------------------------------ATTGCCCTCCTTATTCTGCGGTTTGCCTACTTG---GCTTGTACTGA----------------------------------------TTGCCTC-------ACAAGA--------------CATTCCAG---TGCAGA [...]
+s rn4.chr1 230036599 462 - 267910886 C-CACCAGT--------GA-ACA---CCTTCTCTGAGGTA-TGAGAAATGCCAAGGGATTAAGA------------CA-GGAGTCACAGAAGCTTTCGAGTTG--AGAAGGTTATAGGGTAAGTTCAAA----CTATAGGAGACAGAGTCTG--AGAAGCTGAGGG--CACGAGGATAGGG-CAGCAGGCTCTCCGGGGGATGCTCTT-ACAGGCTTCGCTGCCC-------------AGCTTCTTATATTTTTGGTTGTGAGCCTAGCCTTTAACGGCTGAGCCATCTCTCCACTGCCCAGCTTCTTCTGTATCTTGCCTACTTG---GCTTCTACCGA----------------------------------------TTGCCTC-------ACAAAG--------------CCTACCAA--ATGCAAA [...]
+q rn4.chr1 9-9999999--------99-999---99999999999999-99999999999999999999999------------99-999999999999999999999999--999999999999999999999999----9999999999999999999--999999999999--9999999999999-99999999999999999999999999-9999999999999999-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---99999999999----------------------------------------9999999-------999999--------------99999999--9999999 [...]
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 114321 450 - 169015 CACATTAAT--------GAGGGA---TATTTTCTga-gta-ataaaaatgcaaatggatTGGAG--AGAAATGAG-TA-G-AGTCATGAAAGCTTTATGAGTG--GGGAAGTTAGATGCCAGGTTAGAAAGTGGAGCATGAGATCGATTCTT--GGATGAGAGGAA--TAAGAAG-----A-CACTGGGC--ACCTGGGATTG--CTACACAGGCAGAGCTCATC-------------AG------------------------------------------GAGATCGCTTTGGGACTCACTTCATTCTGGGTTTGGTCCAGCAGT--GTTTGTGGTGA----------------------------------------CTACCTA-------ATGGAA--------------TTTTCTAA--aggcaaa [...]
+q cavPor2.scaffold_284118 556547343--------453866---5368965345-684-57589953577982365648455--567863557-45-7-6556666885686965476556--56475484575559958585568896555769666867669559752--868558886595--8858859-----7-98957748--89957789978--99799967987998799699-------------99------------------------------------------899797997569979999999997999799999898999999999--99999999899----------------------------------------9999999-------999998--------------99999999--9999999 [...]
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16124832 432 - 170899992 C-CACTCAT--------GA-AGG----ATTTTCTGAGGAA-TGAAAAATGGGAATGGATTACTG--AGAAACAAGTCA-TGAGTCATGAAAGCTTTGTGAATG--G-GGAGTTATATGCCCGGTTTAAAGGTATGGAAGGAGATATATTTGT--GGGTGGGAGGGG--TAGGTGG-----A-TGCCATCCC-ACCTGGGAATACCACACACAGACATGGCTGATT-------------AG------------------------------------------TAGATTGCTTTGGGACTCAGTTGATTCTGTATTTTGTCTAGCAGT--TTTTGTCCTGA---------------------------------------TTTGCCTA-------ATGGAA--------------TTTACCAA--GTGCA-- [...]
+i hg18.chr6 C 0 I 19
+s panTro2.chr6 16648253 432 - 173908612 C-CACTCCT--------GA-AGG----ATTTTCTGAGGAA-TGAAAAATGGGAATGGATTACTG--AGAAACAAGTCA-TGAGTCATGAAAGCTTTGTGAATG--G-GGAGTTATATGCCCGGTTTAAAGGTATGGAAGGAGATATATATGC--GGGTGGGAGGGG--TAGGTGG-----A-TGCCATCCC-ACCTGGGAATACCACACACAGACATGGCTGATT-------------AG------------------------------------------TAGATTGCTTTGGGACTCAGTTGATTCTGTATTTTGTCTAGCAGT--TTTTGTCCTGA---------------------------------------TTTGCCTA-------ATGGAA--------------TTTACCAA--GTGCA-- [...]
+q panTro2.chr6 9-9999999--------99-999----9999999999999-99999999999999999999999--999999999999-999999999999999999999999--9-999999999999999999999999999999999999999999999--999999999999--9999999-----9-999999999-999999999999999999999999999999999-------------99------------------------------------------999999999999999999999999999999999999999999999--99999999999---------------------------------------99999999-------999999--------------99999999--99999-- [...]
+i panTro2.chr6 C 0 I 19
+s rheMac2.chr4 108540978 432 + 167655696 C-CACTCAT--------GA-AGG----ATTTTCCGAGGAA-TGAAAAACGTGAATGGATTACCG--AGAAACCAGTCA-TGAGTCATGGAAACTTTGTGAATG--G-GGAGTTATATGCCAGGTTTAAAGGTATGGAAAGAGATATATTTGT--GGGTGGGAGGGG--TAGGTGG-----G-TGCCATCCC-ACCTGGGAATACCACACACAGGCATGGCTGATT-------------AG------------------------------------------TAGATGGCTTTGGGACTCAGCTGATTCTGTATTTTGTCTAGCAGT--TTTTGTCCTGA---------------------------------------TTTGCCTA-------ATGGAA--------------TTTACCAA--GTGCA-- [...]
+q rheMac2.chr4 6-7767666--------66-666----7666767666676-66666666667666666676667--677666667666-766676666767677666766666--7-666676677667665666776666676766766776667667666--666677776777--7667666-----7-666666666-666777666666657454557676666667767-------------66------------------------------------------666666677666666666666666767667676677666777766--66666776767---------------------------------------76667676-------676666--------------66667676--66666-- [...]
+i rheMac2.chr4 C 0 I 413
+s otoGar1.scaffold_85251.1-136255 19801 418 - 136255 C-CACTAAT--------TA-AGG--ATATTTTCTGAGGAT-AAAAAAATGGAAATGAGTTAGAGGAAAAAATGAGTTG-AGAGTCATGAAAGCTTTGTGGATG--GCGGACTTACATGCTAGGTTTCAAGGTGTGGAAGGAGA-AGATTCCT--AGGTGGGAGGGG--CGGGCAG-----AGTGCCGAGCT-CCCCTGGCATACCACACACAGGCAGGCCTGGCTG-----------CGT------------------------------------------TAGGTGGCTCTGGAACT----TGGATCTCTATTTTG--GAGTAGT--TTTTGTC-----------------------------------------------------------TAGGA--------------TTTACTAA--ATGCA-- [...]
+q otoGar1.scaffold_85251.1-136255 6-3445234--------53-654--213588554533455-3767765555554456443645322878423434556-145536446376664655252525--53324215769663544434442363444422433572-45543633--435222235723--3676625-----44122235522-7332462384476832322232225554332124-----------222------------------------------------------23211322546464436----353346544434445--3332531--2233626-----------------------------------------------------------52214--------------13356496--34432-- [...]
+i otoGar1.scaffold_85251.1-136255 C 0 I 19
+s tupBel1.scaffold_114895.1-498454 417747 508 - 498454 C-CCCTTAC--------TG-ATGTATTTTTTTCTGATGAATTAAAAAACGTAAATGG-TTACAG--TGAAGCAATAGA-AAGGCCATGAAGGCTTTGTGTGGGAAG-GGAGTTACATACCAGTTTTAAAGGTATGCAGAGAGATGGCTTCCG--AGGCAGGAGAGT--TTGAGGG-----C-AGCAGCATC-ACCTGAGGACACTGCA----------GCTCATA-------------AG------------------------------------------T------CTTTGGGACTTGGCTGGTTCTGCTTTCGGTCTATCAGT--TTTTGTGCCGAGAGCCTAATATTGGGTTGTCAGAAAAGTTATGACACATTTTTGCATAGAAAAACACAGAACAATATGTCATGACTTTTCCAATGACTCA-- [...]
+q tupBel1.scaffold_114895.1-498454 9-9999999--------99-9999999999999999999999999999999999999-999999--999999999999-999999999999999999999999999-999999999999999999999999999999999999999999999--999999999999--9999997-----9-999999999-9999999999999999----------9999999-------------99------------------------------------------9------99999999999999999999999999999999999998--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-- [...]
+i tupBel1.scaffold_114895.1-498454 C 0 I 19
+s bosTau3.chr9 13757352 439 - 95030419 C-CATTAAT--------AA-AGC--ATATTTTATTAGGAA-TGAAACATGCAAATGG-TCACAG--AGGA-CAAGCGG-TGAGTGTGGAAAGCGTTGCAAATG--GGGAAGCTGTATTCCAGGTTTAAAAGTATAGAAGGAGACAGATTCATGGTGGCAGTCAGGGTGGGTACAA-----G-TAGCAGACT-CACTGGGAAT---ACCAGTAGGCCAGGCTGATC-------------TT------------------------------------------TAGACTG--TTTGGACTTAGTAGACTCTGTATTTAT----ATAGTTGTTTTGCAATGA----------------------------------------TCCCCTA-------ATGGAA--------------TTTACTAA--ATGCA-- [...]
+q bosTau3.chr9 9-9999999--------99-999--999999999999999-9999999999999999-999999--9999-9999999-999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999-----9-999999999-9999999999---99999999999999999999-------------99------------------------------------------9999999--999999999999999999999999999----999999999999999999----------------------------------------9999999-------999999--------------99999999--99999-- [...]
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13076881 418 + 24938454 C-CACCAGTCTCATCTCTA-TGA--ATATTTTCTGAGGAA-CAAAAC-TGCAAATGG-TTACAG--AGAA-AAAGTTG-GGAGTCATGAAAACTTTGTGAACT--GGGAAGTTATATGccagacttaaaat----gtaggagacagattcat--ggggccaagggg--tgtgcaG-----A-CAGCAGGCT-TACTGGGAAT---ACCAGTAGACAAGGGTGA----------------T------------------------------------------TAGATTATTTTTGGACTCAGTTGATTCT------------GTAGT--TTTTGCAGTGA----------------------------------------TTACCTA-------ATGGAA--------------TTTACTAA--ATGCA-- [...]
+q equCab1.chr31 9-99999999999999999-999--999999999999999-999999-999999999-999999--9999-9999999-999999999999999999999999--99999999999999999999999999----99999999999999999--999999999999--9999999-----9-999999999-9999999999---999999999999999999----------------9------------------------------------------9999999999999999999999999999------------99999--99999999999----------------------------------------9999999-------999999--------------99999999--99999-- [...]
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 146638 436 - 219823 c-CATCAAT--------GA-AGG--AGACTTTCTGAGGAA-TGAACCCTGCAAATGG-TTATGG--AGAG-TGAGTGGCTGAGTCTTGAAAGTTTTGTGGATG--GGGAAGTTAGATTCCAGGTTTGAAAGTATAGAAGGCGATGGGCTCATAGGAGGGAAAGGGGTACACACAG-----G-TGGGAGGTT-CATTGGAAATA--GCAAGCAGGCAAAGCTGATC-------------TT------------------------------------------GAGATCGGTTTTGGACTCAGTTGCTGTTGTATTTTGTCTAGTAGT--TTTTGCAA-GA----------------------------------------TCACCTA-------ATAGAA--------------TTTTCTAA--ATGCA-- [...]
+q felCat3.scaffold_217398 9-9999999--------99-999--999999999999999-9999999999999999-999999--9999-99999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999-----9-889769339-96799999999--99999999999999999999-------------99------------------------------------------997999999999999999999999999999999999999999999--99999999-99----------------------------------------9979999-------899999--------------99999999--99999-- [...]
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78284066 434 - 125616256 C-CATTAAT--------GA-AGG--ATATTTTCTGAGGAA-TGAAACAGGCAAATGG-TTATGG--AGAA-TGAGTGG-TGAGTCTTGAAAGCTTTGTGGATG--GGGA---TATATGCCAGGTTTAAAAGTATAGAAGGAGATGGATTCATAAAGGGAGGAGGGGC-TACGCAA-----G-CAGGGGGTT-CACTGGGAAT---TCAAGCAGGCAAAGCTGATC-------------TT------------------------------------------TAGATTATTTTTGGACTCGGTGGATGTTGTATTTTGTCGAGTAGT--TTTTGCAACGA----------------------------------------TCACCTA-------ATAGAA--------------TTTTCTAA--GT-TG-- [...]
+q canFam2.chr1 9-9999999--------99-999--999999999999999-9999999999999999-999999--9999-9999999-999999999999999999999999--9999---9999999999999999999999999999999999999999999999999999999-9999999-----9-999999999-9999999999---99999999999999999999-------------99------------------------------------------999999999999999999999999999999999999999999999--99999999999----------------------------------------9999999-------999999--------------99999999--99-99-- [...]
+i canFam2.chr1 C 0 C 0
+s dasNov1.scaffold_145011 267 453 + 8690 c-CACTAAG--------GA-AGC---TATTTTCTGAGGAA-GAAGAAGTGCAAGTGGGTTACAG--AGAAATAAGTGG-TGAGTCATGGAAGCTTCCAGAATG--GGGAAGTTCTACACCAGGTTTAAAGATGGAGAAGGAGATAGGCCT----TGAGTGGGGGAC--TGAGCGT-----G-CAGTAGGCT-ACCCGTGGAAGCCACACAGAGGCAAGGCTGATTTCTAAAAGAAACCTC------------------------------------------TAGATTTCTTTTGCCTCGGCTCTTTTCACTGTTTTGCCTGGTAGT--GTTTGCAGTGA----------------------------------------TCACCGA-------ATGGAA--------------TTGTCTAA--ACTCA-- [...]
+q dasNov1.scaffold_145011 9-9999899--------99-777---97735966767776-69779577999999999999969--999999998578-469999999999789999999999--999999999999999999999999999999999999999999999----699999999999--9999999-----9-999999999-999999999999999999999999999999999999999999999999------------------------------------------999999999999999999999999999999999999999999999--99999999999----------------------------------------9999999-------999999--------------99999999--99999-- [...]
+i dasNov1.scaffold_145011 N 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=394192.000000
+s mm9.chr10 3219286 185 + 129993255 CACGTTTTATAG-TGTT-GACAG--TTTGCAAGTCTG-----------------------------------GATTCAGGCAGCGATCCTCCTCTT-GCTTGAGAAAGATGGTGCTATAACTCACAGCTGAGCCGCAGACTCTTGTCATGACGA-GAGA-----TTCACCTGGAG-----CGCAG-------------------GAGTCATGGTT-TCAGGGTATATTTG-----TTCTG---CG----CATACATGAAG---GGAAGGCC
+s rn4.chr1 230037061 235 - 267910886 CACCCTTTACAG-CGTT-GAAAGAATTCCCAAGTCTAACAGCTTTCATACATGTCAAGAGCCTCC---GCCAGATTCAGGCGGCGAGCCTACGCTT-GCTTGAGGAGAATGGCACTGCAGCTCACTCCTCAGCTGCGGACTCTTGTCATG-----GAGA-----TTCACCTGCAG-----TGCAGAGTGTG---GGGAAAGCAAGAGCCATGTTT-CCAGGGTGTATTTG-----TTCTG---TGTAGACGTATGTGACC---AGAAGGCC
+q rn4.chr1 999999999999-9999-99999999999999999999999999999999999999999999999---9999999999999999999999999999-99999999999999999999999999999999999999999999999999999-----9999-----99999999999-----99999999999---999999999999999999999-99999999999999-----99999---99999999999999999---99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 114771 237 - 169015 AGCCCTTTGTAT-AGTT-GGCATAATTTTCAAATCCA---ACTTCATTATGCATCAAAAGTCTTCTTTACTGGATCTTGGCAAAAGTGCTGCTTTG-GCTTgagaaaaacatttcaataaCTCACACCTTAGTGTCTGATTCCTGTTGTAAATATGAGA-----TTCAATTACA---------AGATTAAGCAAAGGAAAGCTAGAGCTGTGTTTGCCGAGGCATATATT-----TACTA---TTGAGACGTATGTG------GAAAGTCT
+q cavPor2.scaffold_284118 999999999999-9999-9999999999999999999---99999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999-----9999999999---------99999999999999999999999999999999999999999999999-----99999---99999999999999------99999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16125283 215 - 170899992 --------------------CATGGTTTTCAAATCTAACAACTTCATAATATATCA--AGTCTTTTTTGCTGGATTTTGGCAGAGATCCGACTCTTGGCATGAGCAACGTGGTTCGCTAGAGCATACCTTAATGTGTGATTGCTGTAGTAAATAGGATA-----TTCAGCTACAC------ACAG---AAGCACAGGAAAACTAGAGCTGTCTTTTCAAAGCTATATTTG-----TTTGG------------ATATTAAA---AAAAACCC
+i hg18.chr6 I 19 I 311
+s panTro2.chr6 16648704 215 - 173908612 --------------------CATGGTTTTCAAATCTAACAACTTCATAATATATCA--AGTCTTTTTTGCTGGATTTTGGCAAAGATCCGACTCTTGGCATGAGAAACGTGGTTCGCTAGAGCATACCTTAATGTGTGATTGCTGTAGTAAATAGGATA-----TTCAGCTGCAC------ACAG---AAGCACAGGAAAACTAGAGCTGTCTTTTCAAAGGTATATTTG-----TTTGG------------ATATTAAA---AAAAAGCC
+q panTro2.chr6 --------------------999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999------9999---999999999999999999999999999999999999999999-----99999------------99999999---99999999
+i panTro2.chr6 I 19 I 307
+s rheMac2.chr4 108541823 202 + 167655696 --------------------CATGGTTTTC-AATATAATAACTTCATTATATATCAAGAGTCTTTTTTGCTGGATTTTGGCAAAGATACAGCTCTTGGCGTGAGCAACATGGTTTGCTAGAGCACACCTTAACATGTGATTGCTGTAGTAAATAGGATA-----TTCAGCTACAC------ACAG---AAGCACAGGAAAACTAGAGCTGTCTTTTCAAAGGTATATTTG-----TTTAG---AG--------------------------
+q rheMac2.chr4 --------------------2233366333-32346666666333233446433333466666666556554345446334455555556666666666766666676665666666656566656666666656657666566999999999988899-----99999999999------9999---999999999999999999999999999999999999999999-----99999---99--------------------------
+i rheMac2.chr4 I 413 I 325
+s otoGar1.scaffold_85251.1-136255 20238 208 - 136255 --------------------CATAA-TTTCAAATTGAACAACTTCATTATACATCAAGAGTCTTTTTTGCTGAATCTTGGCACAGATGCTATTCTTGGCATGAGAAAAATGGCTCGATAGATCATACCTTA------------CACAGTCAATAGGAGA-----TTC----GCACTATGGGACAG---AAACACAAGAAAAGAAGAGCTGTTTTTTCAAAGCCACTTTTG-----TTTAA---AC-------ATGTATAG---ACAAAGTT
+q otoGar1.scaffold_85251.1-136255 --------------------77999-999759999864436899999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------------9999999999999999-----999----99999999999999---999999999999999999999999999999999999999999-----99999---99-------99999999---99999999
+i otoGar1.scaffold_85251.1-136255 I 19 I 8
+s tupBel1.scaffold_114895.1-498454 418274 228 - 498454 --------------------CCTAATTTTCAAATCTAACAATTTTATTACACATTAAGAGTCTTCTTTGTTGGATCTTGGCAAAGATATTGCTCTTGGCATACGAAAAATGGTTCAATAGATCATACCTTAACTTGTGATTCCTGGGGTACATAGGAGA-----TTCAGCTACAG-----GATAG---AAGCACAGAAAACATAAAGCTATCTTTTTAAAGGTATATTTGTACCATTTAA---AC-------ACATATGGATCAAAAAACC
+q tupBel1.scaffold_114895.1-498454 --------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999-----99999---9999999999999999999999999999999999999999999999999999---99-------9999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 19 I 273
+s bosTau3.chr9 13757791 245 - 95030419 GCCCCTTTGTAGTTTTT-GACATCATTTTCAAATCTAACAACTGC--CATACTTCAAGTGTCTTCTTTGCTTGATCTTGGCAAAGATACTAATCTTGGCATGAGAAAAAAGGTTTGG----TTATATCTTCACTTGTGGTGTCTGTAGTAAACAGGAGATCCAGTTCTACTATAG-----GATAG---GTGTACAGGGAAACCAGAGCTAGCTTTTCAAAGGTATATTTGTATCCTTTAAACTAC-------ATATACGA---AAAAGTC-
+q bosTau3.chr9 99999999999999999-999999999999999999999999999--9999999999999999999999999999989999589999399999999989999999998999989999----999399999999999945552221625745884544145455355252458583-----62266---662832465433499555567977611116463385565466255683596347866-------55594563---6493557-
+i bosTau3.chr9 C 0 I 6
+s equCab1.chr31 13077299 244 + 24938454 GCCCCTTTGTATTTTTT-GATGTAACTTTCAAATCTAACAACTCCATTACACGTCAGGTGTCTTCTTGGCTGGATCTTTGCAATGACATTACTCTTGGCATGAGAAAAATGGTTCGAGGGAACATACCTTACCTTGTAATTCCTGTAGTAAATAGGAGA-----TTCAATTATGG-----GACAG---AGGTACAGGGAAAATAGAGCTATCTTTTCAAAGGTATATTTGTACCATTTAG---AC-------CTCTATAA---AAAAAATT
+q equCab1.chr31 99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999-----99999---9999999999999999999999999999999999999999999999999999---99-------99999999---99999999
+i equCab1.chr31 C 0 I 6
+s felCat3.scaffold_217398 147074 240 - 219823 GCGCCTTTGTGTTTTTT-GACATAATTTTCAAATCTAACAATTCCATTACACATCAAGTGTCTTCTTTGCTGGATCTTGGCAAAGATACTACTTTAGGCATCAGAAAAATTGCTCTA-----TATAACCTAACTAGTGATTTCTGTAAGAAATAGGAGAT----TTCAGTTATAG-----GATAG---AAGTACAGGGAAACCAGAGCTGTCTTTTCAAAGGTGTATTTCTGCTGCTTAA---AC-------ATCTATGA---AAAAAAAA
+q felCat3.scaffold_217398 99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999999999----99999999999-----99999---9999999999999999999999999999999999999999999999999999---99-------99999999---99999999
+i felCat3.scaffold_217398 C 0 I 8
+s canFam2.chr1 78284500 238 - 125616256 GCTCCTTTGTATTTTTT-GACATAATTTTCAAATCTAACAACTCCATTATATGTCAGGTGTCGTCTTTGCTGAATCTTGGCAAAGATACTACTTTGGGCATCAGAAAAACGGCTCCA---ATCGTACCTTACCTTGTGATTTCCATAAGAAATAGA--------TTCAGGTATAG-----GATAG---AAGTGGAAGGAAAGCAGAGCTGTCTTTTCAAAGGTATATTTATACTAGTTAG---AC-------ATATATGA---AAAAACTA
+q canFam2.chr1 99999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999999999999999999999999999999999--------99999999999-----99999---9999999999999999999999999999999999999999999999999999---99-------99999999---99999999
+i canFam2.chr1 C 0 I 6
+s dasNov1.scaffold_145011 720 223 + 8690 TCTGCCTTATATTTTTTGGACGTAATTTTCAAATTGAATGACTCTCTTACACATCAGAAGTCGTCTTCGCTGTATCTCGGGAAAGATCCTTCTTTTGGCCTGAGGAAAATGGCTCGATAGATCATGCCATAACTTGTGATTCTTTTAGTAAATAGGAGA-----TTCAATCCTAG-----GACT----AAGCCCAGGGAAGTTAGCAACACCTTTTCAAAAGTATGTTTTTCCACTT----------------------------------
+q dasNov1.scaffold_145011 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999-----9999----9999999999999999999999999999999999999999999999999----------------------------------
+i dasNov1.scaffold_145011 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=57317.000000
+s mm9.chr10 3219471 75 + 129993255 ATGTTT------GCTTAACAGGTTCGTGGCAGG----TTTGTTCTTCA---CCAGGGGCgtgtgtgt-------gtgtgtgtgtgtgtgtgtgtg-------
+s rn4.chr1 230037296 61 - 267910886 ATGTTTTACCAGACTTAACGGGTTCATGGCA------CTTGTTCTTCA---GCAGGGGCGTCTGTGT-------GTA-------------------------
+q rn4.chr1 9999999999999999999999999999999------99999999999---9999999999999999-------999-------------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115008 61 - 169015 GCGTTTCCTTTGATTTAATAGAGTGATGGTG------TTTGCTCTTTG---TTAACAGGGTCTGTAT-------ATA-------------------------
+q cavPor2.scaffold_284118 9999999999999999999999999999999------99999999999---9999999999999999-------999-------------------------
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108542350 61 + 167655696 TTTATT------CTTATATTTCATCACATCATGGTATTTGGCTCTTGT---GTAATAGGATCTGTAT-------GTA-------------------------
+q rheMac2.chr4 999999------999999999999999999999999999999999999---9999999999999999-------999-------------------------
+i rheMac2.chr4 I 325 I 13
+s panTro2.chr6 16649226 54 - 173908612 ATTCTT------ATTTCATCACGTCATGGTATT----TTG---CTTAT---TTAATAGGATCTGTAT-------GTA-------------------------
+q panTro2.chr6 999999------999999999999999999999----999---99999---9999999999999999-------999-------------------------
+i panTro2.chr6 I 307 I 13
+s hg18.chr6 16125809 54 - 170899992 ATTCTT------ATTTCATCACGTCATGGTATT----TTG---CTTAT---TTAATAGGATCTGTAT-------GTA-------------------------
+i hg18.chr6 I 311 I 13
+s otoGar1.scaffold_85251.1-136255 20454 55 - 136255 TCTTTT------TTTTAATAGGATCATGGTA------TTGGCTCTTAT---TCAGGAAGATCTGTAT-------GTA-------------------------
+q otoGar1.scaffold_85251.1-136255 999999------9999999999999999999------99999999999---9999999999999999-------999-------------------------
+i otoGar1.scaffold_85251.1-136255 I 8 I 13
+s bosTau3.chr9 13758042 55 - 95030419 CCCCTT------ATTTAGTAGGATCATGATA------TTTACTTTTAT---TTAATAGGATCTTTAT-------GTA-------------------------
+q bosTau3.chr9 547766------9884533366822134924------76774478867---8583436649894487-------978-------------------------
+i bosTau3.chr9 I 6 I 7
+s equCab1.chr31 13077549 55 + 24938454 TCTCTT------ATTTGATAGGATCATGGCA------TCTATTCTCAT---TTAACAGGATCTCTAT-------GTA-------------------------
+q equCab1.chr31 999999------9999999999999999999------99999999999---9999999999999999-------999-------------------------
+i equCab1.chr31 I 6 I 7
+s felCat3.scaffold_217398 147322 62 - 219823 TCCTTT------ATTTAGTAGGATCATGCTA------TTTACTCTTAT---TTAATAGGATATCTGTTAAGGGGGTG-------------------------
+q felCat3.scaffold_217398 999999------9999999999999999999------99999999999---99999999999999999999999999-------------------------
+i felCat3.scaffold_217398 I 8 I 11
+s canFam2.chr1 78284744 55 - 125616256 TCATTT------ATT---TAGGATATTGCTA------TTTTCTCTTATTTATTAATAAGATTTCTGT-------GTA-------------------------
+q canFam2.chr1 999999------999---9999999999999------999999999999999999999999999999-------999-------------------------
+i canFam2.chr1 I 6 I 7
+s dasNov1.scaffold_145011 943 62 + 8690 ACTATT------ATTCAATGGGATCTTGACA------TGGACTCCTAT---TTACTGTGATCTGTAT-------GCA------------------TTGGAGG
+q dasNov1.scaffold_145011 999999------9999999999999999999------99999999999---9999999999999999-------999------------------9999999
+i dasNov1.scaffold_145011 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 99872 2640 - 523245 I
+e tupBel1.scaffold_114895.1-498454 418502 273 - 498454 I
+e ponAbe2.chr6 16436078 2257 - 174210431 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=165972.000000
+s mm9.chr10 3219546 106 + 129993255 tgtgtatgtgCTTGA---------------------AGGGTCGACATACAAAGTAGTGCTT--CT-----TCTCCAGTGGGAAGGAG-------------------ACG-----TGCGCCCGTGGTAGCTGGGCTCCTGTTGTTCACTCTTCAGCAAG
+s rn4.chr1 230037357 91 - 267910886 ----------CTTGA---------------------AGGGGCTACTTACAAAGTAGAGCTT--CT-----CCCCCAGTGGGAAGGAG-------------------ACG-----TGTGCCCATGGTAGCCGAGCTCCTATT---CGCTCTTCAG--AA
+q rn4.chr1 ----------99999---------------------9999999999999999999999999--99-----99999999999999999-------------------999-----999999999999999999999999999---9999999999--99
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115069 112 - 169015 ----------ATTTAGTAGTAAT------------TAGGGTTGaatt--aaaataatgctt--tt-----cCTTCATTGGAAAAGGA--GAAAGTAAATG---TT-ACA-----TGTGTTACAAGGAGCACGGGTCCTAG----AATTGTTCAGTAGG
+q cavPor2.scaffold_284118 ----------9999999999999------------999999999999--999999999999--99-----99999999999999999--99999999999---99-999-----99999999999999999999999999----99999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16125876 101 - 170899992 -----------------------------------TGGGGTTGACA---AAAGGAATGCTT--TT-----CCTCCAGTGGAAAAGGA--GAATTTAAATTATCTT-CTG-----TGTGCTGGAGGTAGCAGCACTGCTGG----AATTCTTCAGTATG
+i hg18.chr6 I 13 C 0
+s panTro2.chr6 16649293 101 - 173908612 -----------------------------------TGGGGTTGACA---AAAGGAATGCTT--TT-----CCTCCAGTGGAAAAGGA--GAATTTAAATTATCTT-CTG-----TGTGCCGGAGGTGGCAGCACTGCTGG----AATTCTTCAGTATG
+q panTro2.chr6 -----------------------------------99999999999---999999999999--99-----99999999999999999--9999999999999999-999-----99999999999999999999999999----99999999999999
+i panTro2.chr6 I 13 C 0
+s rheMac2.chr4 108542424 97 + 167655696 -----------------------------------TGGGGTTGACA---AAAGGAACGCTT----------CTCCAGTGGAAAAGGA--GAATTTAAGTTACCTT-CTG-----TGTGC-GGAGGTAGCAGGACTGCTGG----AATTCTTCAGTATG
+q rheMac2.chr4 -----------------------------------99999999999---999999999999----------9999999999999999--9999999999999999-999-----99999-99999999999999999999----99999999999999
+i rheMac2.chr4 I 13 C 0
+s calJac1.Contig1260 102512 101 - 523245 -----------------------------------TGGGGTTGAAA---AACGGAACGCTT--TT-----CCTCCAGTGGGAAAAGA--GAATTTAAATTATCTT-CTG-----TGTGCTGGAGGTAGCACGACTGCTGG----AATTCTTCAGTATG
+i calJac1.Contig1260 I 2640 C 0
+s ponAbe2.chr6 16438335 101 - 174210431 -----------------------------------TGGGGTTGACA---AAAGGAACGCTT--TT-----CCTCCAGTGGAAAAGGA--GAATTTAAATTATCTT-CTG-----TGTGCCGGAGGTAGCAGCACTGCTGG----AATTCTTCAGTATG
+i ponAbe2.chr6 I 2257 C 0
+s otoGar1.scaffold_85251.1-136255 20522 103 - 136255 -----------------------------------TGGGGTTAAAA---AGAGGACTGCTT-TTT-----CCTCCAGTGGCAAAGGA--GAATTTAGATTTTCTTAATG-----TATGCTGGATGTAGCGTGATTCCTGT----AATTCTGCAGTGTG
+q otoGar1.scaffold_85251.1-136255 -----------------------------------99999999999---999999999999-999-----99999999999999999--99999999999999999999-----99999999999999999999999999----99999999999999
+i otoGar1.scaffold_85251.1-136255 I 13 C 0
+s tupBel1.scaffold_114895.1-498454 418775 120 - 498454 ------------TGTGTATATATTTGAGGAGCAAGTGAAGTTGAAA---AAGTAATTGCAT--TT-----TCTTC--CGGTTTAGGA--GAATTTGTGTT--TCT-CTG-----TGTGCTGGAGGTAACATGATTCTAAT----AATTCTTCTGTACA
+q tupBel1.scaffold_114895.1-498454 ------------5756989997798999979998779999878999---999999998999--99-----99999--9697999999--99999899999--999-999-----99999799996999999999999999----98899999999999
+i tupBel1.scaffold_114895.1-498454 I 273 C 0
+s bosTau3.chr9 13758104 105 - 95030419 -----------------------------AGCAGCTGTGCTTGAA----AAAGTATTGCTC-TTT-----CCTCCAGAGGAAAAGGA--GAATTTAAGTTGTCTT-CTG-----TGTGCTGGCAATAGTATG--CCTCAT----AATTCTTTTGTTTG
+q bosTau3.chr9 -----------------------------9345556656435696----898545432622-688-----68579887779964236--5866554569999989-997-----765693488999999536--698675----55599997999999
+i bosTau3.chr9 I 7 C 0
+s equCab1.chr31 13077611 103 + 24938454 -----------------------------GGCAACTGGGATTGAA----AAAGTCATGCTT-TTT-----CCTCCCGTGAAAGAGGA--GGATTTAAATTTTTTC-ATG-----TGTGCAGGAGGCAGTAGG--T-CTCT----GCTTCTTCAG-ATG
+q equCab1.chr31 -----------------------------9999999999999999----999999999999-999-----99999999999999999--9999999999999999-999-----999999999999999999--9-9999----9999999999-999
+i equCab1.chr31 I 7 C 0
+s felCat3.scaffold_217398 147395 113 - 219823 -----------------------------GGTTACTGAGATTGAA----AAAGTAATGCTT-TTTTTTTCCTTCCAGTGGAA-AGGA--AGATTTGAATTGTCTT-ATG-TATATGTACTGGAGGAAGTATC--TCCTGT----AATTCATCTGTATG
+q felCat3.scaffold_217398 -----------------------------9999999999999999----999999999999-99999999999999999999-9999--9999999999999999-999-9999999999999999999999--999999----99999999999999
+i felCat3.scaffold_217398 I 11 C 0
+s canFam2.chr1 78284806 109 - 125616256 -----------------------------GGTAGCAGAGATTGAA----AAAGGAATGCTT-TTT-----CCTCCAGTGGAA-AGGA--GAATTAAAGTTTTCTT-ATGTTTTGTGTGCTCAAGGAAGTATG--TCCTAT----AATTCTTCTGTATG
+q canFam2.chr1 -----------------------------9999999999999999----999999999999-999-----999999999999-9999--9999999999999999-99999999999999999999999999--999999----99999999999999
+i canFam2.chr1 I 7 C 0
+s dasNov1.scaffold_145011 1005 84 + 8690 -----------------------------GGCAACTGGGGTTGAA----AAAGTCATGCTCCTCT-----CCTCCAGTGGAAAAAGGTTGAAACTACATGCCCCT-GGT-----TATACTTGT--TACCA----------------------------
+q dasNov1.scaffold_145011 -----------------------------9999999999999999----9999999999999999-----99999699999999999599999999979999999-999-----999999999--99996----------------------------
+i dasNov1.scaffold_145011 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e galGal3.chr3 61590878 2499 - 113657789 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e eriEur1.scaffold_241672 3729 1165 - 11555 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=127101.000000
+s mm9.chr10 3219652 37 + 129993255 AGAGCTGCTCTGTAAACTCCCTGATCACCA--CACACTG
+s bosTau3.chr9 13758209 37 - 95030419 AGAGGATCTTTGTAAGCAACTTAATTATTG--CCTTCCA
+q bosTau3.chr9 446487788589999998998999999887--6566423
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13077714 37 + 24938454 ACAGGATCTTTGAGAACAACTTAATTATCG--CCCATCA
+q equCab1.chr31 999999999999999999999999999999--9999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 147508 37 - 219823 AGAAGATCTCTGTAAGCAACTTAATTATTG--CCCACTG
+q felCat3.scaffold_217398 999999999999999999999999999999--9999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78284915 36 - 125616256 AG-AGGTCTTTGTAAGCAACTTAATTATTG--CCCACTG
+q canFam2.chr1 99-999999999999999999999999999--9999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_241672 4894 29 - 11555 --------TCTGTAAACAAAGTCATGACTA--CCCCTTC
+q eriEur1.scaffold_241672 --------9838599877999999698992--6785797
+i eriEur1.scaffold_241672 I 1165 C 0
+s sorAra1.scaffold_173811 6125 36 + 14059 AGAGCATCTCCGCCAGCCAC-TCACTCTTC--CGCGTCA
+q sorAra1.scaffold_173811 65946669787368458645-566568585--5266664
+i sorAra1.scaffold_173811 N 0 C 0
+s tupBel1.scaffold_114895.1-498454 418895 34 - 498454 A----ATCCTTGTAAGCAACTTACTTATCGTACAT-TTA
+q tupBel1.scaffold_114895.1-498454 9----989999999999999999999999999999-997
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20625 37 - 136255 AGAGAATCTTTGTAAGCAACTTAATTATTG--CACGTTA
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999999--9999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s ponAbe2.chr6 16438436 39 - 174210431 AGAACATCTTTGTAAACAACTTAATTATTGTCCATATTA
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 102613 39 - 523245 AGAACATCTTTGTAAACAACTTAATTATTGCCCATATTA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108542521 39 + 167655696 AGAACATCTTTGTAAACAACTTAAGTATTGCGCATATTA
+q rheMac2.chr4 999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16649394 39 - 173908612 AGAACATCTTTGTAAACAACTTAATTATTGTCCATATTA
+q panTro2.chr6 999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16125977 39 - 170899992 AGAACATCTTTGTAAACAACTTAATTATTGTCCATATTA
+i hg18.chr6 C 0 C 0
+s cavPor2.scaffold_284118 115181 37 - 169015 AGAGAATGCTTATGAGCTGTGTATTTACTG--CACATTG
+q cavPor2.scaffold_284118 999999999999999999999999999999--9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230037448 37 - 267910886 AGAGCCACTCTGTGAACACCCTGATCACCA--CACGCTG
+q rn4.chr1 999999999999999999999999999999--9999999
+i rn4.chr1 C 0 C 0
+s galGal3.chr3 61593377 28 - 113657789 ---------CTTTTAAGCTGCTAATTGAAG--CAAACTG
+i galGal3.chr3 I 2499 I 1
+s dasNov1.scaffold_145011 1089 18 + 8690 -------------------CTTAATTATTG--CACCTTA
+q dasNov1.scaffold_145011 -------------------99999999999--9799899
+i dasNov1.scaffold_145011 C 0 C 0
+e tetNig1.chr10 10166174 1171 - 12859810 I
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e xenTro2.scaffold_2 3916195 803 + 7803671 I
+e anoCar1.scaffold_0 8823926 2038 + 16654889 I
+e danRer5.chr21 16490255 103 + 46057314 I
+e monDom4.chr2 106273635 2775 - 541556283 I
+e ornAna1.chr2 14913267 2413 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=869370.000000
+s mm9.chr10 3219689 72 + 129993255 TCTTCCAGGGATGAGAATGTGAGTTTCGGCTAC-----AGAGGA-CACAGTAAGAGTAAGCAGCCGTTGCCTGTGCGC
+s echTel1.scaffold_21342 100 72 - 5330 TCTTCCAGGGAGGAGAAGGGGAGCTTGGTTTAT-----GGAGGG-TTCAGTAAGTGCAAACAGCCTTTGCCTGCTCCC
+q echTel1.scaffold_21342 144689549877983776998999979758679-----898899-888655454899779999999999999999999
+i echTel1.scaffold_21342 N 0 C 0
+s dasNov1.scaffold_145011 1107 72 + 8690 TCTTCCAGGGATGAGAATGGGAGTTTTGTTTAT-----GGAGGA-TTCAGTAAAAATAAACAGCCGCTGCCTGGCCCG
+q dasNov1.scaffold_145011 997999479966998997999969999769897-----999997-496688799958998746987689876785878
+i dasNov1.scaffold_145011 C 0 C 0
+s bosTau3.chr9 13758246 69 - 95030419 TCCTGCAGGGAAGAGAATGGGGGTTCTGTTTAC--------GGA-TTCAGTAAATGTAAACAGCCACAGCCTGGTCCT
+q bosTau3.chr9 833339789496986488889578794446965--------567-459324555865989897888666622239999
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13077751 72 + 24938454 TCTTCCAGGGATGAGAACGGAAGTTTTCTTTAT-----GGAGGA-TTCAGTAAGTGTAAACAGCCGTTGCCGGGTCCT
+q equCab1.chr31 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 147545 72 - 219823 TCTTCCAGGGATGAGAACGGGAGTTTTCTTTAT-----GGAGGA-TTCAGTAAGTGTAAACAGCCCTTGCCTGGACCT
+q felCat3.scaffold_217398 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78284951 72 - 125616256 TCTTCCAGGGATGAGAATGAGAGTTTTCTTTAT-----GGAGGA-TTCAGTAAGTGTAAACAACCCGTGCCTGGTCCT
+q canFam2.chr1 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_241672 4923 66 - 11555 TCTTGCAGGGATGACCATGGAAGTTTTGTCTCC-----GGGGGC-TTCAGTAAATGCAAACA------GCCTGTCCGG
+q eriEur1.scaffold_241672 979589999987969997879999997788976-----978898-99999999986899999------9988799999
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 6161 71 + 14059 TCTTCCA-GGACGAGAACGGGAGTTTTGTTTAT-----GGAGGA-GTCAGTAAGTCAAAACAGCTGTTGCCTGGCCGG
+q sorAra1.scaffold_173811 6856551-2233392666595856996649653-----667537-466556565555996344566565565542525
+i sorAra1.scaffold_173811 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 418929 72 - 498454 TCTTCCAGGGATGAGAATGGGAGTTTTGTTTAT-----GGAGGA-TTCAGTAAGTGTAAACAACCACTGCCTGGTGCT
+q tupBel1.scaffold_114895.1-498454 999999999999999999799999999999999-----999999-999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20662 72 - 136255 TCTTCCAGGGATGAGAATGGGAGTTTTGTTTAT-----GGAGGA-ATCAGTAAGTGTAAGCAACCATTGCCTGGTCCT
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s ponAbe2.chr6 16438475 72 - 174210431 TCTTCCAGGGATGAGAACGGCAGTTTTGTTTAT-----GGAGGG-TCCAGTAAGTGCAAACAACCATTGCCTGGTCCT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 102652 72 - 523245 TCTTCCAGGGATGAGAATGGGAGTTTTGTTTAT-----GGAGGG-TCCAGTAAGTCCAAACAACCATTGCCTGGTCCT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108542560 72 + 167655696 TCTTCCAGGGATGAGAATGGCAGTTTTGTGTAT-----GGAGGG-TCCAATAAGTGCAAACAACCACTGCCTGGTTCT
+q rheMac2.chr4 999999999999999999999999999999999-----999999-989999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16649433 72 - 173908612 TCTTCCAGGGATGAGAATGGCAGTTTTGTTTAT-----GGAGGG-TCCAGTAAGTGCAAACAACCATTGCCTGGTCCT
+q panTro2.chr6 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16126016 72 - 170899992 TCTTCCAGGGATGAGAATGGCAGTTTTGTTTAT-----GGAGGG-TCCAGTAAGTGCAAACAACCATTGCCTGGTCCT
+i hg18.chr6 C 0 C 0
+s cavPor2.scaffold_284118 115218 72 - 169015 TTTTCCAGGGACGAGAATGGGAGTTTTGTTTAT-----GGAGGA-TTCAGTAAGTGTAAACAACCACTGCCTAGACCT
+q cavPor2.scaffold_284118 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230037485 72 - 267910886 TCTTCCAGGGATGAGAACGTGAGTTTCAGCTAT-----AGAGGA-CACACTAAGAGTAAACAGCCACTGCCTGGGCGC
+q rn4.chr1 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s monDom4.chr2 106276410 70 - 541556283 --TTTCAGGGATGAGAAGGGAAGTTTTGTTTAC-----GGAGGC-CTCAGTAAATGTAAGCAGCCGCTGCCAAGTTCG
+q monDom4.chr2 --9999999999999999999999999999999-----999999-999999999999999999999999999999999
+i monDom4.chr2 I 2775 C 0
+s ornAna1.chr2 14915680 72 - 54797317 TCTTTCAGGGATGAGAAGGGCAGTTTTGTCTGT-----GGAGGA-TTCCCTAAATATAAACATCCTCTGCCTGGCTCG
+i ornAna1.chr2 I 2413 C 0
+s galGal3.chr3 61593406 72 - 113657789 TCTTTCAGAGATGAAAAGGGGAGTTTTCTGTAT-----GGAGGA-GGCAGCAAACCCAGTCATCCATTACTTGGATCC
+i galGal3.chr3 I 1 C 0
+s anoCar1.scaffold_0 8825964 72 + 16654889 ttttttAGGGATGAAAAGGGCAGCTTCCTTTAT-----GGAGGA-GGAAATAAACCGAAGCAGCCCTTACCTGGTTCC
+q anoCar1.scaffold_0 999999999999999999999999999999999-----999999-999999999999999999999999999999999
+i anoCar1.scaffold_0 I 2038 C 0
+s danRer5.chr21 16490358 39 + 46057314 --------------------------------------AGATGA-CGTAGGGAATCTGACTAGCAATTGTCAGCAGGC
+i danRer5.chr21 I 103 I 4
+s tetNig1.chr10 10167345 61 - 12859810 -----------------tgtgtgtttctgtccacAGAGAGGTGAGAATGGACACTGTGTCCAGCATTAGCCAGCGGCC
+i tetNig1.chr10 I 1171 I 1
+s xenTro2.scaffold_2 3916998 47 + 7803671 -------------------------TTGGCAGC-----AGTGGA-AGTAACAGATGTGTATATCCTATTCCTGGGTCA
+i xenTro2.scaffold_2 I 803 C 0
+e gasAcu1.chrXV 12522351 432 - 16198764 I
+e fr2.chrUn 207927475 19 - 400509343 I
+e oryLat1.chr22 12885704 230 - 28810691 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=1270644.000000
+s mm9.chr10 3219761 50 + 129993255 AAGGGTTCCGAGTCCCCTAACTCCTTCCTGGACCAGGAGAGCCAAAGACG
+s anoCar1.scaffold_0 8826036 50 + 16654889 AAAGGAGCAGAATCCCCCAATTCTTTCCTGGATCAGGAGTTTAGGAGGCG
+q anoCar1.scaffold_0 99999999999999999999999999999999999999999999999999
+i anoCar1.scaffold_0 C 0 C 0
+s galGal3.chr3 61593478 50 - 113657789 AAGGGTGCCGAATCTCCCAATTCTTTTCTGGATCAGGAAAGTCGAAGGAG
+i galGal3.chr3 C 0 C 0
+s ornAna1.chr2 14915752 50 - 54797317 AAGGGCTCAGAATCCCCCAATTCCTTCTTGGACCAGGAAAGTCGAAGACG
+i ornAna1.chr2 C 0 C 0
+s monDom4.chr2 106276480 50 - 541556283 AAGGGTTCCGAGTCCCCCAATTCCTTCTTAGACCAGGAAAGTCAAAGGCG
+q monDom4.chr2 99999999999999999999999999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s rn4.chr1 230037557 50 - 267910886 AAGGGTTCCGAGTCCCCTAACTCCTTCCTGGACCAGGAGAGCCAGAGACG
+q rn4.chr1 99999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115290 50 - 169015 AAGGGTTCAGAGTCCCCAAATTCCTTCTTGGATCAGGAGAGCCGAAGACG
+q cavPor2.scaffold_284118 99999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16126088 50 - 170899992 AAGGGTTCAGAGTCCCCGAATTCCTTCTTGGACCAGGAAAGCCGGAGACG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649505 50 - 173908612 AAGGGTTCAGAGTCCCCGAATTCCTTCTTGGACCAGGAAAGCCGGAGACG
+q panTro2.chr6 99999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542632 50 + 167655696 AAGGGTTCAGAGTCCCCGAATTCCTTCTTGGACCAGGAAAGCCGGAGACG
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 102724 50 - 523245 AAGGGTTCAGAGTCCCCGAATTCCTTCTTGGACCAGGAAAGCCAGAGACG
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438547 50 - 174210431 AAGGGTTCAGAGTCCCCGAATTCCTTCTTGGACCAGGAAAGCCGGAGACG
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20734 50 - 136255 AAGGGTTCCGAGTCCCCAAATTCCTTCTTGGACCACGAGAGCCGAAGACG
+q otoGar1.scaffold_85251.1-136255 99999999999999999999999999999999999999999999999899
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419001 50 - 498454 AAGGGTTCAGAGTCCCCAAACTCCTTCCTGGACCAGGAGAGCCGAAGGCG
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 6232 49 + 14059 AAGGGGTCCGAGTCCCCGAATTCCTTCCTGGACCAAGAAAG-CAGAGACG
+q sorAra1.scaffold_173811 43268555627246776365453455453554353526752-20151425
+i sorAra1.scaffold_173811 C 0 C 0
+s eriEur1.scaffold_241672 4989 50 - 11555 AAGGGTTCCGAGTCCCCCAATTCCTTCTTGGACCAGGAAAGCCAGAGAAG
+q eriEur1.scaffold_241672 99997799999789999998999999995699999999998999999999
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78285023 50 - 125616256 AAGGGCTCCGAGTCCCCAAATTCCTTCTTGGACCAGGAAAGCCGAAGACG
+q canFam2.chr1 99999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 147617 50 - 219823 AAGGGCTCAGAGTCCCCAAATTCCTTCTTGGACCAGGAGAGCCGAAGACG
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13077823 50 + 24938454 AAGGGTTCAGAGTCCCCCAATTCCTTCTTGGACCAGGAAAGCCGAAGACG
+q equCab1.chr31 99999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13758315 50 - 95030419 AAGGGTTCCGAGTCCCCCAATTCCTTCCTGGACCAGGAAAGCCGGAGACG
+q bosTau3.chr9 98899345994898759958744759999999998899576633699955
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 1179 50 + 8690 AAGGGATCGGAGTCCCCGAATTCCTTCTTGGACCACGAGAGCCGAAGGCG
+q dasNov1.scaffold_145011 98599558888376774479694658646776351097674663656543
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 172 50 - 5330 AAGGGCTCAGAGTCCCCAAATTCCTTCCTGGACCATGAGAGCCGAAGGCG
+q echTel1.scaffold_21342 46699999989999999899988899988999999986699999977977
+i echTel1.scaffold_21342 C 0 C 0
+s xenTro2.scaffold_2 3917045 50 + 7803671 GAAGGTTCTGAGTCCCCAAACTCTTTTTTGGACCATGAAAGCCGCAGAAG
+i xenTro2.scaffold_2 C 0 C 0
+s tetNig1.chr10 10167407 49 - 12859810 AAGGGCTCCGAGTCGCCAAACTCCTTCCTGGACCTGGAGAACAGGAGAC-
+i tetNig1.chr10 I 1 C 0
+s fr2.chrUn 66180737 49 + 400509343 AAGGGCTCCGAGTCACCAAACTCCTTCCTGGACCTGGAGAACAGGAGAC-
+i fr2.chrUn I 1070 C 0
+s gasAcu1.chrXV 12522783 50 - 16198764 AAGGGCTCCGAGTCACCCAACTCCTATCTGGACCAGGAGAGCCGACGGCG
+q gasAcu1.chrXV 99999999999999999999999999999999999999999999999999
+i gasAcu1.chrXV I 432 C 0
+s oryLat1.chr22 12885934 50 - 28810691 aagGGCTCAGAGTCGCCCAACTCCTTCCTGGACCAGGAGGGCAGAAGACA
+q oryLat1.chr22 99999999999999999999999999999999999999999999999999
+i oryLat1.chr22 I 230 C 0
+s danRer5.chr21 16490401 50 + 46057314 AAAGGATCGGATTCGCCCAACTCATTTCTGGACCAGGAGTGCCGGAGGCG
+i danRer5.chr21 I 4 I 3061
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=1581738.000000
+s mm9.chr10 3219811 100 + 129993255 CAGATTTACCATTGCAGATTCCGATCAGCTG---CCCGGGTATTCGGTGGAAACCAATGTTCTGCCCACAAAAATGAGAGGGAAGACACCATCCTACGGTAAG
+s anoCar1.scaffold_0 8826086 100 + 16654889 AAGGTTTACTCTTACTGATACTGATCCACAG---CCTGGCCATCCAATAGGAGCACATGTTCTACCAGcaaaaatgagagaaaaaacaCAATCATATGGTAGG
+q anoCar1.scaffold_0 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i anoCar1.scaffold_0 C 0 I 1766
+s galGal3.chr3 61593528 100 - 113657789 AAGGTTTACTATTGCTGATTCTGATCAGCTG---CCTGGATATCATATGGAAGCAAATATACTGCCAGCCAAGATGAGAGAAAAAACACAGTCATATGGTGAG
+i galGal3.chr3 C 0 C 0
+s ornAna1.chr2 14915802 100 - 54797317 AAGATTCACCATCGCGGATTCTGATCAGCTG---CCTGGATATTCAACCCAAGCAAATATTTTGCCCACAAAAATGAGGGAAAAAACCCAGTTTTCCGGTGAG
+i ornAna1.chr2 C 0 I 1
+s monDom4.chr2 106276530 100 - 541556283 AAGATTTACTATCGCCGACTCTGATCAGTTG---CCTGGCTATTCTGTGGAAGCAAATGTTCTGCCCCCCAAAATGAGGGAAAAAACACAGTCTTATGGTGAG
+q monDom4.chr2 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i monDom4.chr2 C 0 I 1
+s rn4.chr1 230037607 100 - 267910886 CAGATTCACCATCACAGACTCCGATCAGCTA---CCCGGGTACTCGGTGGGGACCAATATTCTGCCCATAAAAATGAGAGGGAAGACGCCGTCCTATGGTACG
+q rn4.chr1 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115340 100 - 169015 AAGGTTCACCATTGCTGATTCTGATCAGTTG---CCTGGGTATTCAGTGGAAACCAATGTCCTACCcacaaaaatgagagagaaaacacCATCATACGGTAAG
+q cavPor2.scaffold_284118 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16126138 100 - 170899992 AAGATTCACCATTGCAGACTCGGATCAGTTG---CCTGGGTACTCGGTGGAAACCAACATTCTGCCCACAAAAATGAGAGAGAAAACACCATCTTATGGTAAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649555 100 - 173908612 AAGATTCACCATTGCAGACTCGGATCAGTTG---CCTGGGTACTCGGTGGAAACCAACATTCTGCCCACAAAAATGAGAGAGAAAACACCATCTTATGGTAAG
+q panTro2.chr6 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542682 100 + 167655696 AAGATTTACCATTGCCGACTCGGATCAGTTG---CCTGGGTATTCGGTGGAAACCAACATTCTGCCCACAAAAATGAGAGAGAAAACACCATCTTATGGTAAG
+q rheMac2.chr4 9999999999999999999999999999999---999999999999999999985556689999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 102774 100 - 523245 GAGATTTACCATTGCCGACTCAGATCGGTTG---CCTGGGTATTTGGTGGAAACCAACGTTCTGCCCACAAAAATGAGAGAGAAAACACCATCTTATGGTAAG
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438597 100 - 174210431 AAGATTTACCATTGCCGACTCGGATCAGTTG---CCTGGGTACTCGGTGGAAACCAACATTCTGCCCACAAAAATGAGAGAGAAAACACCATCTTATGGTAAG
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20784 100 - 136255 AAGATTCACCATTGCCGACTCTGATCAGTTG---CCTGGGTATTCTGTAGAAACCAATGTTCTGCCCACAAAAATGAGAGAGAAAACTCCATGTTATGGTAAA
+q otoGar1.scaffold_85251.1-136255 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 I 1
+s tupBel1.scaffold_114895.1-498454 419051 100 - 498454 AAGATCTACCATGGTTGATTCTTATCAATTG---CCTGGGTATTCGGTGGAAACCAGTGTTCTGCCCACAAAAATGAGAGAGAAAACACCATCGTATGGTGAG
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999---999999999999989999999999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s sorAra1.scaffold_173811 6281 69 + 14059 GAGATTCACCATCGGCGACTTCTGACAGCTG----CTGGGTATTCGGTGGAGACCAATATTCCGCCCGCAAAA------------------------------
+q sorAra1.scaffold_173811 2413144236354115141213334512342----52495311543334531223412213222562234765------------------------------
+i sorAra1.scaffold_173811 C 0 I 471
+s eriEur1.scaffold_241672 5039 100 - 11555 GAGGTTCACCATTGCTGATTCTGATCAGCTG---CCTGGCTATTCAGTAGAGACCAATGTCCTGCCcacaaaaatgagagagaaaacatcATCTTATGGTGAG
+q eriEur1.scaffold_241672 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i eriEur1.scaffold_241672 C 0 I 1
+s canFam2.chr1 78285073 100 - 125616256 GAGATTCACCATTGCTGATTCTGATCAGTTG---CCTGGGTATTCGGTGGAAACCAATATTCTGGCCACAAAAATGAGAGAGAAAACACCATCTTATGGTACA
+q canFam2.chr1 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 1
+s felCat3.scaffold_217398 147667 100 - 219823 GAGATTTACCATCGCTGATTCTGATCAGTTG---CCCGGGTATTCGGTGGAAACCAATATTCTGCCCACAAAAATGAGAGAGAAAACACCGTCTCATGGTACA
+q felCat3.scaffold_217398 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 1
+s equCab1.chr31 13077873 100 + 24938454 CAGATTTACCATCGCTGACTCGGATCAGTTG---CCTGGGTATTCAGTGGAAAGCAATGTTCTGCCCACAAAAATGAGAGAGAAAACACCATCTTATGGTACG
+q equCab1.chr31 9999999999999999999999999999999---999999999999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13758365 100 - 95030419 GAGATTCACCATCGCGGATTCTGATCAGCTG---CCTGGCTATTCCGTGGAAACCAACATTCTGCCGGCAAAGATGAGAGAGAAAACGCCATCTTACGGTACG
+q bosTau3.chr9 6999999999967799797292743799979---989676274654695533989999694298697423996899999896333998999999999999999
+i bosTau3.chr9 C 0 I 1
+s dasNov1.scaffold_145011 1229 84 + 8690 AAGATTCACCATCACCGACTCGGATCAGTTA---CCCGGGTACTCGGTGGAAACCAATGTCCTGCCTGCAAAAATGAGGGAGAAAAC----------------
+q dasNov1.scaffold_145011 7856576365465576564563564554656---55439655555365666954436574555734464467956644956379956----------------
+i dasNov1.scaffold_145011 C 0 I 5491
+s echTel1.scaffold_21342 222 100 - 5330 GAGGTTCACCATCGCTGACTCGGACCAGCTG---CCCGGCTATTCCGCAGAAACGAGTATTCTGCCCACAAAACTCAGAGAGAAAACGCCATCCTATGGTGAG
+q echTel1.scaffold_21342 9989999899899789899998999997999---999999999999999599996999999999997685999999969899999998999999999996999
+i echTel1.scaffold_21342 C 0 I 1
+s xenTro2.scaffold_2 3917095 100 + 7803671 ATGGTTTACTATTGCCAACTCTGACCAGCTT---TTCTCTTCTCCATTAGAAGTGAAGGTGCAGCCTGCAAAACTCAGAGACAAAACACCTTCATATGGTGCG
+i xenTro2.scaffold_2 C 0 I 7485
+s tetNig1.chr10 10167456 98 - 12859810 -----GCACCGTCACCGATTACGACAAGCTGAACTTTGGCTGCCCCATCGAGGCCAACGTGATCCAGCCCAAAATGAGAGAGCCCAAGCCCTCACGAGGTCGG
+i tetNig1.chr10 C 0 C 0
+s fr2.chrUn 66180786 98 + 400509343 -----GCACCGTCGCAGATTACGACAGGCTGAACTACGGCTGCCCCATCGAGGCCAACGTGATCCAGCCCAAAATGAGGGAGCACAAGCCCTCGCGGGGTCGG
+i fr2.chrUn C 0 C 0
+s gasAcu1.chrXV 12522833 100 - 16198764 ---CTGCACCATTGCAGATTACGACAAGCCGAGCGTCGGCTGTCCCATCGAGGCCAACGTGATCCTGCCCAGGCTGCGGGAGCAGAAGTCCTCGCGTGGTCAG
+q gasAcu1.chrXV ---9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i gasAcu1.chrXV C 0 C 0
+s oryLat1.chr22 12885984 100 - 28810691 ---CGGCTCCATCACAGATTACGACAAGTTAAATCCGGGCCGTCCCACTGATGCCGGCATGATGCAGCCCAGGATGAGGGAGCACAAGCCTTCACGTGGTCAG
+q oryLat1.chr22 ---9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i oryLat1.chr22 C 0 C 0
+e danRer5.chr21 16490451 3061 + 46057314 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-53939.000000
+s mm9.chr10 3219911 8 + 129993255 -----TCCTCCAG
+s rn4.chr1 230037707 7 - 267910886 -----TTCTCC-G
+q rn4.chr1 -----999999-9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115440 7 - 169015 -----TTCCCT-G
+q cavPor2.scaffold_284118 -----999998-9
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16126238 7 - 170899992 -----TTTCAA-G
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649655 7 - 173908612 -----TTTCGA-G
+q panTro2.chr6 -----999999-9
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542782 7 + 167655696 -----TTTCGA-G
+q rheMac2.chr4 -----999999-9
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 102874 7 - 523245 -----TTTCGA-G
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438697 7 - 174210431 -----TTTCGA-G
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20885 7 - 136255 -----TTCCAA-G
+q otoGar1.scaffold_85251.1-136255 -----999999-9
+i otoGar1.scaffold_85251.1-136255 I 1 C 0
+s tupBel1.scaffold_114895.1-498454 419152 7 - 498454 -----TTCCAA-G
+q tupBel1.scaffold_114895.1-498454 -----999999-9
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s eriEur1.scaffold_241672 5140 7 - 11555 -----TTGCCT-G
+q eriEur1.scaffold_241672 -----999999-9
+i eriEur1.scaffold_241672 I 1 C 0
+s canFam2.chr1 78285174 7 - 125616256 -----TTCTGA-G
+q canFam2.chr1 -----999999-9
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 147768 7 - 219823 -----TTCTGG-G
+q felCat3.scaffold_217398 -----999999-9
+i felCat3.scaffold_217398 I 1 C 0
+s equCab1.chr31 13077974 7 + 24938454 -----TTCCGA-G
+q equCab1.chr31 -----999999-9
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13758466 7 - 95030419 -----TGCGGG-G
+q bosTau3.chr9 -----999999-9
+i bosTau3.chr9 I 1 C 0
+s echTel1.scaffold_21342 323 7 - 5330 -----TCCCGA-G
+q echTel1.scaffold_21342 -----999999-9
+i echTel1.scaffold_21342 I 1 C 0
+s monDom4.chr2 106276631 7 - 541556283 -----TTATGG-A
+q monDom4.chr2 -----999999-9
+i monDom4.chr2 I 1 C 0
+s ornAna1.chr2 14915903 7 - 54797317 -----TGCTGC-C
+i ornAna1.chr2 I 1 C 0
+s tetNig1.chr10 10167554 9 - 12859810 TG--CCACCAG--
+i tetNig1.chr10 C 0 I 63
+s fr2.chrUn 66180884 9 + 400509343 TG--CCACCAG--
+i fr2.chrUn C 0 I 77
+s gasAcu1.chrXV 12522933 1 - 16198764 T------------
+q gasAcu1.chrXV 9------------
+i gasAcu1.chrXV C 0 I 99
+s oryLat1.chr22 12886084 11 - 28810691 TGCCACACTAC--
+q oryLat1.chr22 99999999999--
+i oryLat1.chr22 C 0 I 1
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e galGal3.chr3 61593628 0 - 113657789 C
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=166018.000000
+s mm9.chr10 3219919 51 + 129993255 TGAGC---------------G-TCATGCTCT------GCTAGCTCTTTTTACTTGTTTCCC------------------ACCCCTTCTTTA
+s rn4.chr1 230037714 52 - 267910886 TGCAC---------------A-TCACACCCT------GCTGGCCCTTCTTACTCCTTTCCCC-----------------ACCCCTTCTTTA
+q rn4.chr1 99999---------------9-999999999------9999999999999999999999999-----------------999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115447 54 - 169015 TGTTT---------------G-TCTTGTTCT------GTCGCTACCTTTTACTTCTCTTCCCC---------------ACCCCCTTCCTTG
+q cavPor2.scaffold_284118 89999---------------9-999999999------99999989999999999999999999---------------7899999999898
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16126245 54 - 170899992 TGTTT---------------G-TTTTGTTCT------GCCGTTGGCCTTGACTTCTCCTCCCC---------------GCCCCCTGCCTTA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649662 54 - 173908612 TGCTT---------------G-TTTTGTTCT------GCCGTCGGCCTTGACTTCTCCTCCCC---------------GCCCCCTGCCTTA
+q panTro2.chr6 99099---------------9-999999999------99999999999999999999999999---------------9999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542789 54 + 167655696 TGTTT---------------G-TTTTGTTCT------GCCGTCGGCCTTGACTTCTCCTCCCC---------------GCCCCCTGCCTTA
+q rheMac2.chr4 99999---------------9-999959999------99999999999999967676766766---------------6777766677666
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 102881 54 - 523245 AGTTT---------------G-TTTTGTTCT------GCCTTGGGCCTTGACTTCTCTTCCCC---------------GCCCCCTGCCTTA
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438704 54 - 174210431 TGTTT---------------G-TTTTGTTCT------GCTGTCAGCCTTGACTTCTCCTCCCC---------------GCCCCCTGCCTTA
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20892 54 - 136255 TGTTT---------------G-TTTTGTTCC------GCAGTTGGCTTTTACTTCTCGCCCCC---------------ACCCCCGTCCTTA
+q otoGar1.scaffold_85251.1-136255 99999---------------9-999999999------99999999999999999999999999---------------9999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419159 54 - 498454 AGTTT---------------G-TTTTGTTCT------GCTGTTTGTTTTGACTTCTCCTGCCC---------------TCCCCCTTCCTTA
+q tupBel1.scaffold_114895.1-498454 99999---------------9-999999999------99999999999999999999999999---------------9999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 5147 52 - 11555 TGTTT---------------G-TTGTGTTCC------TTCCTTGGCTTCt--cactcttcccc---------------acccccttcctta
+q eriEur1.scaffold_241672 99999---------------9-999999999------9999999999999--99999999999---------------9999999999999
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78285181 54 - 125616256 TGTTT---------------G-TTTTGTTCT------GCTATTTGTTTTTTCTTCCCTCCCCC---------------ACCCCCTTCCTTA
+q canFam2.chr1 99999---------------9-999999999------99999999999999999999999999---------------9999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 147775 53 - 219823 TGTTT---------------G-TTTTGTTCT------GCCATTTGTTTTCACTTCCCT-CCCC---------------GCCCCCTTCCTTA
+q felCat3.scaffold_217398 99999---------------9-999999999------999999999999999999999-9999---------------9999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13077981 54 + 24938454 TGTTT---------------G-TTTTGTTCT------GCCGTTGGCTTTTTCTTCTCTTCCCC---------------ACCCCCTTCCTTT
+q equCab1.chr31 99999---------------9-999999999------99999999999999999999999999---------------9999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13758473 30 - 95030419 TGTTT---------------G-------------------------------TCCTCTTCCCC---------------TCCCCCTTCCTTA
+q bosTau3.chr9 99999---------------9-------------------------------99999999999---------------9999999999999
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_21342 330 52 - 5330 CGCTT---------------G-TGCTGTTCT------GCCGGCTGTGT--GCTTCGCTTGCTG---------------CTCCCTTTCCTGT
+q echTel1.scaffold_21342 99999---------------9-999999999------99999999999--9999787899999---------------9778579999999
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106276638 54 - 541556283 TGTTT---------------GCTTTTGTTTG------GTCTTTTTCTTATTCCTCTCC-CCCC---------------TCCCCTTTCCCTA
+q monDom4.chr2 99999---------------99999999999------999999999999999999999-9999---------------9999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14915910 71 - 54797317 TGTTTTGGGGAGCTATGTTGG-GTTTGTTTTAAGACAACAGTTGGGTTTGCCTCTTCAACC-------------------CTCCAACCTTT
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61593628 44 - 113657789 -----------------------------------------------TTCATTACTCTTTCACTATTGATATTCTGATAAACACTTCAGTA
+i galGal3.chr3 C 0 C 0
+s oryLat1.chr22 12886096 51 - 28810691 ------------------GGA-ATCTCATTA------AAATCCAGCAATGGCTGCTTAAACCC---------------CATTTTTGCTTCA
+q oryLat1.chr22 ------------------999-999999999------99999999999999999999999999---------------9999999999999
+i oryLat1.chr22 I 1 I 2
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=289676.000000
+s mm9.chr10 3219970 30 + 129993255 TTTGGAGCTCTGGCATGAACTTGGCAG---TCT--
+s rn4.chr1 230037766 33 - 267910886 TTTGGGGCTCTGGCATGAACTTGGCAGAGTTCT--
+q rn4.chr1 999999999999999999999999999999999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 115501 30 - 169015 CTTGGAACTGATGGGTGAATTTGGCAG---ACT--
+q cavPor2.scaffold_284118 432476986793699559999466799---996--
+i cavPor2.scaffold_284118 C 0 I 2411
+s hg18.chr6 16126299 30 - 170899992 GTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649716 30 - 173908612 GTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+q panTro2.chr6 999999999999999999999999999---999--
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542843 30 + 167655696 GTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+q rheMac2.chr4 666666666666766667666666666---666--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 102935 30 - 523245 GTTAGAACTGTTGGATGAATTTGGCAG---ACT--
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438758 30 - 174210431 GTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20946 30 - 136255 TTTGGAACTGCTGGATGGATTTGGCAG---GCT--
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999---999--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419213 30 - 498454 TTTGGAGCTGTTGGATGGATTTGGCAA---ACT--
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999---999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 5199 29 - 11555 -tTGGGGCTGGTGGCTGGATTTGGCAG---GCA--
+q eriEur1.scaffold_241672 -99999999999999999999999999---999--
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78285235 30 - 125616256 TTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+q canFam2.chr1 999999999999999999999999999---999--
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 147828 30 - 219823 TTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+q felCat3.scaffold_217398 999799999999999999999999999---999--
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13078035 30 + 24938454 TTTGGAACTGTTGGATGAATTTGGCAG---ACT--
+q equCab1.chr31 999999999999999999999999999---999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13758503 30 - 95030419 TTTGGGACTGTTGGATGAATTTGGCAG---ACT--
+q bosTau3.chr9 999999999999999999999999999---999--
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_21342 382 30 - 5330 TTGGGAAGTGCTGGGCGAGTCTGGCAG---ACT--
+q echTel1.scaffold_21342 999999999998999979999999979---999--
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106276692 30 - 541556283 TTTGGAAATGCTGGTTGAATTTGGCAC---ACT--
+q monDom4.chr2 999999999999999999999999999---999--
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14915981 30 - 54797317 TTTGGAACTGCTAGCTGAATTTGGCAG---ACT--
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61593672 30 - 113657789 GCTGGA--TGTTAAGGGCAGTCAGCAC---AAAGT
+i galGal3.chr3 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr22 12886147 2 - 28810691 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=336632.000000
+s mm9.chr10 3220000 41 + 129993255 CTGAAGGTGAT----TTGAG---GCAAGTATAAACCTCAAAGAAATTC
+s rn4.chr1 230037799 40 - 267910886 CTGAAGGTGAT----TTGAG---GAAAGCATGAACCTCAAAGAAAT-C
+q rn4.chr1 99999999999----99999---99999999999999999999999-9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16126329 41 - 170899992 TCAAGAGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649746 41 - 173908612 TTAAGAGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+q panTro2.chr6 99999999999----99990---9999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542873 41 + 167655696 TTAAGAGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+q rheMac2.chr4 66766667676----76666---6667676676676766667666666
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 102965 41 - 523245 TTAAGAGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438788 41 - 174210431 TTAAGAGTAAT----CTGAG---GCAAACATAAACCTCAATGAAATTC
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 20976 41 - 136255 TTAAGGGTAAT----CCGAG---GAAAACATAAACCTCAATGAAATTC
+q otoGar1.scaffold_85251.1-136255 99999999999----99999---9999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419243 38 - 498454 TTCCACGCAA-------GAG---GAAAACATACACTTCAATGAAATTC
+q tupBel1.scaffold_114895.1-498454 9999999999-------999---9999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 5228 41 - 11555 GGCAGGGTAAT----CTGAG---GAAAGCAGAAACCTCAATGAAATGC
+q eriEur1.scaffold_241672 99999999999----99999---9999999999999999999999999
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78285265 41 - 125616256 TTAAGGGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+q canFam2.chr1 99999999999----99999---9999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 147858 41 - 219823 TGAAGGGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+q felCat3.scaffold_217398 99999999999----99999---9999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13078065 41 + 24938454 TTACGGGTAAT----CCGAG---GAAAACATAAACCTCAATGAAATTC
+q equCab1.chr31 99999999999----99999---9999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13758533 41 - 95030419 TGCAGGGTAAT----CTGAG---GAAAACATAAACCTCAATGAAATTC
+q bosTau3.chr9 99999999999----99999---9999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_21342 412 42 - 5330 ---GGGGTGGTAATCCCGAG---GAAACCATAAATCTACGTGCAGGGC
+q echTel1.scaffold_21342 ---98999997999796896---9999999995679986659998999
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106276722 41 - 541556283 CTGTGGGTAAT----CTGAG---GAAACCATAAACTTCAATGAAAATC
+q monDom4.chr2 99999999999----99999---9999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14916011 41 - 54797317 TTAAGGGTAAT----CTGAG---GAAAACATAAACTTCAGTGAAATTC
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61593702 37 - 113657789 ------GTGA-----ATGAGATTGAAATTCTACATCTAGAATAATTTC
+i galGal3.chr3 C 0 I 76
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr22 12886147 2 - 28810691 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=571669.000000
+s mm9.chr10 3220041 83 + 129993255 CGAGTATGAGCCC-CTT---ATTCTTCTGGCTAAAGCAAAGTCTTGTTGAGCCGTTG--CTCTTCCT-GGCATCGG-AGCCCAGCTGGGTG
+s rn4.chr1 230037839 83 - 267910886 TAAGTGTGGGCCA-CTT---CTTCAAGTGGCTAAAGCAAAGCCTTGTTGAGCTGTCG--CTCTGCCT-GGCATCAA-GGCCCAGCTGGGTG
+q rn4.chr1 9999999999999-999---9999999999999999999999999999999999999--99999999-99999999-99999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16126370 83 - 170899992 TAAGTATGAGACC-TTT---ATTCATCTCTGTCAAGCGGATCCTTGTTGAGTCATTA--CTCTGCCT-GGCATGAA-AGCCCAACTGGGTG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16649787 83 - 173908612 TAAGTATGAGACC-TTT---ATTCATGTCTCTCAAGCGGATCCTTGTTGAGTCATTA--CTCTGCCT-GGCATCAA-AGCCCAACTGGGTG
+q panTro2.chr6 9999999999999-999---9999999999999999999999999999999999999--99999999-99999999-99999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108542914 83 + 167655696 TAAGTATGAGACC-TTT---ATTCATCTCTCTCAAGCGGATCCTTGTTGAGTCATTA--CTCTGCCT-GGCATCAA-AGCCCAACTGGGTG
+q rheMac2.chr4 7676676766667-666---7666666766666666666666666666668666666--67767666-77777666-77766667689999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 103006 83 - 523245 TAAGTATGAGACC-TTT---ATTCATCTCTCTTAAGTGGATCCTTGTTGAGTCATTA--CTCTGCCT-GGCATCAA-AGCCCGACTGGGTG
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16438829 83 - 174210431 TAAGTATGAGACC-TTT---ATTCATCTCTCTCAAGCGGATCCTTGTTGAGTCATTA--CTCTGCCT-GGCATCAA-AGCCCAACTGGGTG
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 21017 82 - 136255 TAAGTATGAGACC-TTT---ATTCATCTCTCTAAAGC-AAGCCTTGTTGAGTCATTC--CTCTGCCT-GGCATCAA-AGCTCAGCTGAGTG
+q otoGar1.scaffold_85251.1-136255 9999999999989-999---99999999999999999-9999999999999899999--99999999-99799999-99999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419281 83 - 498454 TAAGTATGAGACC-TTT---ATTCCTCTCTTTAAAGTGAAGCCTTGTTGCGTCATCA--CTCTGCTT-GGCATCGA-AGCCCAGCTGGGCG
+q tupBel1.scaffold_114895.1-498454 9999999999999-999---9999999999999999999999999999999999999--99999999-99999999-99999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 5269 84 - 11555 TAAGTATGAGACC-TTT---ATTCACTGCTCTCAAACACGGCCTTGTTGAGTCACTA--CTCTGCTT-GGCATCCGCAGCCCATTGGGGTG
+q eriEur1.scaffold_241672 9999999999999-999---9999999999999999999999999999999999999--99999999-99999999999999999999999
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78285306 85 - 125616256 TAAGTATGAGACC-TTT---ATTCATCTCTCTAAAGCAAAGTCTTGTTGAATCATTACTCTCTGCCT-GGCATCAA-AGCCCAGTGGAGTG
+q canFam2.chr1 9999999999999-999---99999999999999999999999999999999999999999999999-99999999-99999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 147899 85 - 219823 TAAGTATGAGACC-TTT---ATTCATCTCTCTCAAGTGAAGCCTTGTTGAATCATTACTCTCTGCCT-GGCATCAA-AGCCCAGCGGAGTG
+q felCat3.scaffold_217398 9999999999999-999---99999999999999999999999999999999999999999999999-99999999-99999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13078106 81 + 24938454 TAAGTATGAGACC-TTT---CT--GTGTCTCTGAAATACAGCCTTGTTGAGTCATCA--CTCTGCCT-GGCATCAA-AGCCCAGCGGGGTG
+q equCab1.chr31 9999999999999-999---99--999999999999999999999999999999999--99999999-99999999-99999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13758574 83 - 95030419 CAAGTATGAGACC-TTT---ATTCATCTCTCCAAAGCCAAGGCTGGTTGAGTCATCA--CACCGCCT-GGCATCCA-GGCCCAGTGGGGTG
+q bosTau3.chr9 9999999999999-999---9999999999999999999999999999999999999--99999999-99999999-99999999999999
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_21342 454 85 - 5330 GAGGATTGAGCCC-TTTCTCATTCAGAGCCCTGCAGTGGAGCCTTGTGCAGCCCCAG--CTCCATCC--ACATCCC-AGCTCCACTGTCGG
+q echTel1.scaffold_21342 9999899997699-9999985997799899899998499969797969998999999--89997999--9949699-99999999799789
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106276763 85 - 541556283 CAAGTATGAAACCACGT---ATTCATCTCTCTAAAGTGAAACCTTGTTCTGTCCTTG--CTCCCAATGGGTATCAA-AGCCCAGCTGGATG
+q monDom4.chr2 99999999999999999---9999999999999999999999999999999999999--99999999999999999-99999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14916052 79 - 54797317 AAAGTATGAAACCAGTT---ATTCATCGCACT---GCAACTCCT--TTGAGTCATTA--CCCTGACT-TGAATCAA-ACCCCAGCTGCATG
+i ornAna1.chr2 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr22 12886147 2 - 28810691 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e galGal3.chr3 61593739 76 - 113657789 I
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=308397.000000
+s mm9.chr10 3220124 109 + 129993255 AG--CTCACGTTA-CAAT-TTTAACTTT---------------GGC----ATTGG------AG---------------------ACTCA-GAG-ACTC----AA--CTTCAGCATGCCTCT-ATC---------CTGA----------TTACTTCCAGTGTCAACG--TGGGG-----------------CTTTAAAATTTGTCAC
+s ornAna1.chr2 14916131 121 - 54797317 AG------------C----TTTAACTTTTTGTGTTTG-GTTTTAAC----TTTTT------GGTCTCTCT-----ACCTCCCCCCCACA-CCC-TCCC----AATCATTTATAATGCTATG-CAT---------CTAA----------TGACCTGTTTTGTAATT-----GTC-----------------CCTTAAAATGT-----
+i ornAna1.chr2 C 0 I 18
+s monDom4.chr2 106276848 136 - 541556283 AG--ATCAGACTA-CGCT-TTTAGCTTTTGGTGCATGCCTTTTAAC---ATTTTG------GGTCACTAT-----GTTCTGTAGACATG-TAG-CCCG----CC--GTTCTTTATGCCCCT-TGT---------CTAA----------TTGCTTGCCTTATAAACA--GAATG-----------------CTTTGGAATAC-----
+q monDom4.chr2 99--999999999-9999-999999999999999999999999999---999999------999999999-----99999999999999-999-9999----99--999999999999999-999---------9999----------999999999999999999--99999-----------------99999999999-----
+i monDom4.chr2 C 0 I 18
+s echTel1.scaffold_21342 539 138 - 5330 AGTTACAATGTCA-CCATGGTTAACTTT---------------GAC----CCCAC------AGTTGCCTT-----GCTGTGCAGGCATG-CAG-TCTC---------TGTGTCCTGCCTCTGACC---------TTCG----------TGGCTTGTTTTGGAAAAA--ACGTGTGCAAAGTCTTGCTTTTCCTGAAAAGAT-----
+q echTel1.scaffold_21342 9999799969999-99999899999997---------------989----99999------999999999-----99898999999969-989-9999---------999999999999999999---------9999----------999999999999999999--999999999999999999999999999999999-----
+i echTel1.scaffold_21342 C 0 I 5
+s bosTau3.chr9 13758657 134 - 95030419 AG--ATCATGTTA-CGGT-TTTAACTTTCAGTGCCTGCATTTCAAC-----TTGC------AGTTGTTTT-----GCTCCGGGGACCCA-CAG-ACTC----AA--GTTCAGCACGCCTCT-GTC---------CTCA----------TGGCGTGCTGAGGAAACC--CACCG-----------------CTTTAAAACAC-----
+q bosTau3.chr9 99--999999999-9999-999999999999999999999999999-----9999------999999999-----99999999999999-999-9999----99--999999999999999-999---------9999----------999999999999999999--99999-----------------99999999999-----
+i bosTau3.chr9 C 0 I 15
+s equCab1.chr31 13078187 134 + 24938454 AG--ATCATGTTA-CAGT-TTTAACTTTCAGTGCCTGGGTTCTAAC-----TTGG------AGTTGCTCT-----GCTCTGTATACCCG-CAG-ACAC----AA--GTTCAGAACGCCCCT-GCC---------CTCA----------TTGCTTGCTTTGGAAAGA--CGATG-----------------CCTTAAAATAC-----
+q equCab1.chr31 99--999999999-9999-999999999999999999999999999-----9999------999999999-----99999999999999-999-9999----99--999999999999999-999---------9999----------999999999999999999--99999-----------------99999999999-----
+i equCab1.chr31 C 0 I 18
+s felCat3.scaffold_217398 147984 135 - 219823 AG--ATCATGTTA-CCGT-TTTAACTTTCAGTGCCTGCGTTTTAAC-----TTGG------AGCTGCTTT-----GCTCTGTAGACACA-CAACACTT----AA--GTGCAGCCCGCCTCT-GTC---------CTAA----------TCGCTTGCTGTGGAAATA--TGATG-----------------CTTTAAAATAC-----
+q felCat3.scaffold_217398 99--999999999-9999-999999999999999999999999999-----9999------999999999-----99999999999999-99999999----99--999999999999999-999---------9999----------999999999999999999--99999-----------------99999999999-----
+i felCat3.scaffold_217398 C 0 I 19
+s canFam2.chr1 78285391 131 - 125616256 AG--ATCATGTTA-CAGT-TTTAACTTTCAGCGCCTG-GTTTTAGC-----TCGG------AGCTGCTTT-----GCTGTGTAGACACA-CAG-ACTG----AA--GTTCAGCCGCCCTC---TC---------CTAA----------TTGCTCGCCACGGAAATC--CGATG-----------------CTTTAAAATAC-----
+q canFam2.chr1 99--999999999-9999-999999999999999999-99999999-----9999------999999999-----99999999999999-999-9999----99--99999999999999---99---------9999----------999999999999999999--99999-----------------99999999999-----
+i canFam2.chr1 C 0 I 19
+s eriEur1.scaffold_241672 5353 145 - 11555 AG--ATCACGTTACCCTT-TTTAACTTATAGTGCCTG-GGTTGAAC-----tcgatttatttattatttttattggctcCTGAGACCCA-CAC-ACTC----AA--ATTCAACCTGCCTCT-ATC---------CTAA----------CTGCTCGCTATGGAAATC--TGATG-----------------CTGTAAAATGC-----
+q eriEur1.scaffold_241672 99--99999999999999-999999999999999999-99999999-----99999999999999999999999999999999999999-999-9999----99--999879999999999-999---------9999----------999999999999999999--99979-----------------99989999897-----
+i eriEur1.scaffold_241672 C 0 I 21
+s tupBel1.scaffold_114895.1-498454 419364 119 - 498454 AG--CTCATGTTA-CAGG-TTTAACTTTCAGAACCTGGATTTCAAC----TTGGA------AATTGCTTT------------------------GCTCTGAAAA--GTCATCGGTTCCACA-GAG---------T-------------TTGTTTGCTATGGAAATA--CGGTA-----------------CTTTAATATAC-----
+q tupBel1.scaffold_114895.1-498454 99--999999999-9999-999999999999999999999999999----99999------999999999------------------------9999999999--999999999999999-999---------9-------------999999999999999999--99999-----------------99999999999-----
+i tupBel1.scaffold_114895.1-498454 C 0 I 19
+s otoGar1.scaffold_85251.1-136255 21099 133 - 136255 AG--ATCATGTTA-CAAT-TTTAACTTTTAGTGTCTGGGTTTTGAC----TTGGG------AGTTGCTTT-----GCTCCACAGACTC---AG-TCTC----AA--GTTTAGCGTGAACCT-GTC---------CTAA----------CTGCTTGCTATGGAAATG--CAGTG-----------------CTTTAAAGTAC-----
+q otoGar1.scaffold_85251.1-136255 99--999999999-9999-999999999999999999999999999----99999------999999999-----6269999999999---99-9999----99--999999999999999-999---------9999----------999999999999999999--99998-----------------69999999999-----
+i otoGar1.scaffold_85251.1-136255 C 0 I 203
+s ponAbe2.chr6 16438912 135 - 174210431 AG--ATCATGTTA-CAGT-TTTAACTTTCAGTGCCTGGGTTTTAGC----TTTGG------AGTTTCTTT-----GCTCTGTAGACTCA-TAG-GCTC----AA--ATTTAATGTGCCTCT-ATC---------TTGG----------TTGCCTGCTATGGAAATA--CAGTG-----------------CTTTAAAATAC-----
+i ponAbe2.chr6 C 0 I 15
+s calJac1.Contig1260 103089 135 - 523245 AG--ATCATGTTA-CAAT-TTCAGCTTTCCGTGCCCGGGCTTTAGC----TTTGG------AGTGGCTTT-----GCTCTGTAGACCCA-CAG-GCTC----AA--GTTTAACGTGCCTCT-ATC---------TTAA----------TTGCCTGCTGTGGAAATA--CAGTG-----------------CTTTAAAATAC-----
+i calJac1.Contig1260 C 0 I 18
+s rheMac2.chr4 108542997 135 + 167655696 AG--ATCATGTTA-CAGT-TTCAACTTTCAGTGCCTGGGTTTTAGC----TTTGG------AGTTGCTTT-----GCTCTGTAGACTCA-CAG-GCTC----AA--GTTTAATGTGCCTCT-ATC---------TTAA----------TTGCCTGCTATGGAAATA--CAGTG-----------------CTTTAAAATAC-----
+q rheMac2.chr4 99--999999999-9999-999999999999999999999999999----99999------999999999-----99999999999999-999-9999----99--999999999999999-999---------9999----------999999999999999999--99999-----------------99999999999-----
+i rheMac2.chr4 C 0 I 18
+s panTro2.chr6 16649870 145 - 173908612 AG--ATCATGTTA-CAGT-TTTAACTTTCAGTGCCTGGGTTTTAGC----TTTGG------AGTTGCTTT-----GCTCTGTAGACTCA-CAG-GCTC----AA--GTTTAATGTGCCTCT-ATC---------TTAGTAGCACTCTATTTCCTGCTATGGAAATA--CAGTG-----------------CTTTAAAATAC-----
+q panTro2.chr6 99--999999999-9999-999999999999999999999999999----99999------999999999-----99999999999999-999-9999----99--999999999999999-999---------99999999999999999999999999999999--99999-----------------99999999999-----
+i panTro2.chr6 C 0 I 15
+s hg18.chr6 16126453 145 - 170899992 AG--ATCATGTTA-CAGT-TTTAACTTTCAGTGCCTGGGTTTTAGC----TTTGG------AGTTGCTTT-----GCTCTGTAGACTCA-CAG-GCTC----AA--GTTTAATGTGCCTCT-ATC---------TTAGTAGCACTCTATTTCCTGCTATGGAAATA--CAGTG-----------------CTTTAAAATAC-----
+i hg18.chr6 C 0 I 15
+s rn4.chr1 230037922 96 - 267910886 AG--CTCACGTTA-CA---------------------------GGC----ATTGG------AG---------------------ACTCA-GA---CTC----AA--GCCCAGCATGCCTCT-AAC---------CTGA----------TTGCTTTCAGTGTCAATG--TGGGG-----------------CTTTAAAATGTGTCAC
+q rn4.chr1 99--999999999-99---------------------------999----99999------99---------------------99999-99---999----99--999999999999999-999---------9999----------999999999999999999--99999-----------------9999999999999999
+i rn4.chr1 C 0 C 0
+s oryLat1.chr24 23278780 123 + 24165179 AG--CTTGTTCTG-CATT-TTAGACTTTT---------GCTTTTGCAAAAATTCA------AATTGATTG--------------------CAA---------gt--attgaaaatatttcc-atCAGTTTGGGACTGA----------GCTTCTATTATTAAAGTGGCAGCTT-----------------CTTCTAATCAC-----
+q oryLat1.chr24 99--999999999-9999-9999999999---------99999999999999999------999999999--------------------999---------99--999999999999999-9999999999999999----------9999999999999999999999999-----------------99999999999-----
+i oryLat1.chr24 n 2 C 0
+s galGal3.chr3 61593815 118 - 113657789 ----------TCA-TTAT-GTTGATTGCCA----CTGTAAATAAAC----AAGAG------TGTAGCTA------GCTGTTTAATCTCAGCAG-AATG----CT--TCCTCGTATTCCACT-GAT---------TGAA----------GTATCCT-----GAAATA--TTTAT-----------------TTCTACAATTT-----
+i galGal3.chr3 I 76 I 4
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=-72968.000000
+s mm9.chr10 3220233 90 + 129993255 ---TGCTT--TCACTTCTATTTAAGTGGCTATGGCT------------------------GTAT-----------------ATAAGTATTT----TTT----------------------------------------------------AATATATA-----AGTGAAGGGAGGTACTGTCTAAAGTTGA-TATTGT
+s rn4.chr1 230038018 114 - 267910886 ---TGCTTG-CCACTTCTATTTAAGTGGGTATGACTCgtgtgtgtgtgtgtgtgtgtg-tgtgt-----------------gtgtgtgtgt----gtg----------------------------------------------------tgtgtatg-----tgtgtgtgtgtgtACTGTCTAAAGTTGA-TAATGT
+q rn4.chr1 ---999999-999999999999999999999999999999999999999999999999-99999-----------------9999999999----999----------------------------------------------------99999999-----9999999999999999999999999999-999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16126613 84 - 170899992 ---TGTTA--TTGCTTCTGTCTAAGTGGGTGTG---------------------------GTAT--------------------TGTGAGG----TCT----------------------------------------------------AAGTTATA-----CATAAAGGGAACGGTTCACTAAAGTTCC-AGAACT
+i hg18.chr6 I 15 C 0
+s panTro2.chr6 16650030 84 - 173908612 ---TGTTA--TTGCTTGTGTCTAAGTGGGTGTG---------------------------ATAT--------------------TGTGAGG----TCT----------------------------------------------------AAGTTATA-----CATAAAGGGAAGGGTTCACTGAAGTTCC-AGAACT
+q panTro2.chr6 ---99999--99999999999999999999999---------------------------9999--------------------9999999----999----------------------------------------------------99999999-----9999999999999999999999999999-999999
+i panTro2.chr6 I 15 C 0
+s rheMac2.chr4 108543150 84 + 167655696 ---TGTTA--TTGCTTCTGTCTAAGTGGGTGCG---------------------------ATAT--------------------TGTGGGG----TCT----------------------------------------------------ACGTTATA-----AATAAAGGCAGGATTTCACTAAAGTTCC-AGAACT
+q rheMac2.chr4 ---99999--99999999999999999999999---------------------------9999--------------------9999999----999----------------------------------------------------99999999-----9999999999999999999999999999-999999
+i rheMac2.chr4 I 18 C 0
+s calJac1.Contig1260 103242 72 - 523245 ---TGTTA--TTGCTTCTGTCCAATTGGGTGTG---------------------------ATAT--------------------TGTGGGG----TCT----------------------------------------------------AAGTT----------------GAAGGACTCACTAAAGTT-C-AGCACT
+i calJac1.Contig1260 I 18 C 0
+s ponAbe2.chr6 16439062 84 - 174210431 ---TGTTA--TAGCTGCTGTCCAAGTGGGTGCG---------------------------ATAT--------------------TGTGAGG----TCT----------------------------------------------------AAGTTATA-----AATAAAGGGAAGGATTCACTAAAGTTCC-AGAACT
+i ponAbe2.chr6 I 15 C 0
+s otoGar1.scaffold_85251.1-136255 21435 84 - 136255 ---TGTTG--TCACTTTTATTTAAGTGGGAATG---------------------------ATAT--------------------TGTGGGG----TCC----------------------------------------------------AAGTTATA-----AATGAAGGGAAGGATTCTCAGAAGTCCC-CAAACT
+q otoGar1.scaffold_85251.1-136255 ---69799--69798998968989979926969---------------------------9977--------------------7648776----399----------------------------------------------------59969669-----9996699969998759899968996687-777977
+i otoGar1.scaffold_85251.1-136255 I 203 C 0
+s tupBel1.scaffold_114895.1-498454 419502 84 - 498454 ---GGTAA--TTGCTTCTGCTGAAGTGGCTGTG---------------------------ATAC--------------------TGCAGGG----TCT----------------------------------------------------AACTTAAA-----AATGAAGGCAGTGATTCTCTCAAGTCAC-CAAGCT
+q tupBel1.scaffold_114895.1-498454 ---99999--99999999999999999999999---------------------------9999--------------------9999999----999----------------------------------------------------99999999-----9999999999999999999999999999-999999
+i tupBel1.scaffold_114895.1-498454 I 19 C 0
+s eriEur1.scaffold_241672 5519 80 - 11555 ---TGTTC--TTA---------AAGTGAATGCT---------------------------AAGT------------TGGGGGGATGGGTGT----TTC-----------------------------------------------------AACTATA-----AACAAGGACAAGAAGCCCCACA---TCACATCAGC
+q eriEur1.scaffold_241672 ---99699--799---------99979986987---------------------------9999------------989999963996685----999-----------------------------------------------------7999999-----9965999786999998999698---9766896599
+i eriEur1.scaffold_241672 I 21 I 4
+s canFam2.chr1 78285541 82 - 125616256 ---TGTTA--TTACTTACGG----TTGAGTGTG---------------------------ATAT--------------------GGGGGAG----TCT---------T------------------------------------------CAGTTATA-----AATAAAAGGAAAGATCCTCTAATGGTCACAGACTC
+q canFam2.chr1 ---99999--9999999999----999999999---------------------------9999--------------------9999999----999---------9------------------------------------------99999999-----99999999999999999999999999999999999
+i canFam2.chr1 I 19 I 5
+s felCat3.scaffold_217398 148138 86 - 219823 ---TGTTC--TTGCTTATGGGTACGTGAGTGTG---------------------------ATAT--------------------GGGGGAG----TCT---------T------------------------------------------AAGTTATA-----AATAAAAGGAAAGATTCTCTGAAGTCCCCCAAAGT
+q felCat3.scaffold_217398 ---99999--99999999999999999999999---------------------------9999--------------------9999999----999---------9------------------------------------------99999999-----99999999999999999999999999999999999
+i felCat3.scaffold_217398 I 19 I 5
+s equCab1.chr31 13078339 109 + 24938454 ---TGTTC--TTGCTTATGCTTAAGGGATTGTC---------------------------ATATTGGTGGTggcgggggggggggggggggcgTTTCC---------T------------------------------------------AAGTTATA-----ACTAAAGGGGAGGATTTGCTAATGTCCA-AAAACC
+q equCab1.chr31 ---99999--99999999989999999869979---------------------------99999887866976976999999999899969999999---------9------------------------------------------98799999-----9999999999999999999999999999-999899
+i equCab1.chr31 I 18 I 5
+s bosTau3.chr9 13758806 85 - 95030419 ----GGTT--TTGCTTACGTTGCAGTGAGTGTG---------------------------GTGT------------TGGGGTGCGGGACGG----TCT-----------------------------------------------------AGTTCTA-----AATAAAGGG-----TTCTCTGGAGTCCA-GAAACT
+q bosTau3.chr9 ----9999--99999999999999999999999---------------------------9999------------999999999999999----999-----------------------------------------------------9999999-----999999999-----99999999999999-999999
+i bosTau3.chr9 I 15 I 3
+s echTel1.scaffold_21342 682 87 - 5330 ---TGCTT--CTGCATATGG--AGCTGCTTGTG---------------------------ACAC--------------------TGCCGGG----ACA----------------------------------------------------AAGTTGTACAGGGAGCAGGGGTCAGAGTTCTCTGAAGCCCA-GACATT
+q echTel1.scaffold_21342 ---99999--9999999999--99999999999---------------------------9999--------------------9999999----999----------------------------------------------------99999999999999999999999999999999999999999-999999
+i echTel1.scaffold_21342 I 5 C 0
+s monDom4.chr2 106277002 83 - 541556283 ---TGTTA--TTGCCACTGCTTAAATACTTGTG---------------------------GTGT---------TATGAGTGGAATGAGTGC----TTG----------------------------------------------------GTGTTCCA-------------GAAAATTTCTGTTAAGTATA-AA----
+q monDom4.chr2 ---99999--99999999999999999999999---------------------------9999---------999999999999999999----999----------------------------------------------------99999999-------------99999999999999999999-99----
+i monDom4.chr2 I 18 I 2
+s ornAna1.chr2 14916270 134 - 54797317 ---TGTTA--TAGCTGACATTTAAATACTTGCA---------------------------GCAT-----------TAAGGTGGAAGTGTAT----CCT---------TAATGTGAACTGGATTTTTGAAATGCATCCTTAACATGAACTGGATTTTTA-----ATGCAAAGGAACAGTTTTCTGAAGTC---TAAACT
+i ornAna1.chr2 I 18 I 2
+s galGal3.chr3 61593937 83 - 113657789 ---TGCTTATTTTCCTGTATCTTGCTCCCTTTG---------------------------CTTA--------------------ACTGTGA-----------------------------------------------------------AAAGTATA-----AATTTAAACATGGGTTCTCCAAACTTAA-TGTAAC
+i galGal3.chr3 I 4 C 0
+s oryLat1.chr24 23278903 109 + 24165179 TGCAGCTT--TTGCCATCAGTTATCCTCTTGTAGATCAAAAGTTTCTTTGagactttgaaatgt--------------------tttgcag----tTTGTTCTTCAGT------------------------------------------AAATGATC-----TGTCAAGAAATGCAGTTTC----------------
+q oryLat1.chr24 99999999--999999999999999999999999999999999999999999999999999999--------------------9999999----9999999999999------------------------------------------99999999-----9999999999999999999----------------
+i oryLat1.chr24 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e sorAra1.scaffold_173811 6350 471 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=5919.000000
+s mm9.chr10 3220323 26 + 129993255 CACTCACATTG----------CT---TCACCGTCTGCTC-
+s rn4.chr1 230038132 26 - 267910886 TACTCACCTTG----------CT---TCACTGTCTGGTC-
+q rn4.chr1 99999999999----------99---9999999999999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16126697 30 - 170899992 CATCAAACTTGTCA------CCT---TCTTTCTCGTCCC-
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16650114 30 - 173908612 CATCAAACTTGTCA------CCT---TCTTTCTCGTCCC-
+q panTro2.chr6 99999999999999------999---9999999999999-
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108543234 30 + 167655696 CGTCAAACTTGTCA------CCT---TCTCTCTCGTCCC-
+q rheMac2.chr4 99999999999999------999---9999999999999-
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 103314 30 - 523245 CATCAGACTTGTCA------CCA---TCCTTCTCTTCCC-
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16439146 30 - 174210431 CATCAAACTTGTCA------CCT---TCTTTCTCGTCCC-
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 21519 30 - 136255 CGTCAACTTTGTCA------TCT---TCCTTTTTGTCCT-
+q otoGar1.scaffold_85251.1-136255 89686889999575------695---9564889892376-
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419586 30 - 498454 TGTCAGCCTTGTCA------CCA---TCCTTTTATTTTC-
+q tupBel1.scaffold_114895.1-498454 99999999999999------999---9999999999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 6821 31 + 14059 -----CACTCACAAGGCtgtccc---tcctttcctcccc-
+q sorAra1.scaffold_173811 -----213222413341300182---2112852254664-
+i sorAra1.scaffold_173811 I 471 C 0
+s eriEur1.scaffold_241672 5603 16 - 11555 --------------------CAC---TCTTTTCCCCCCT-
+q eriEur1.scaffold_241672 --------------------758---9999996999978-
+i eriEur1.scaffold_241672 I 4 C 0
+s canFam2.chr1 78285628 25 - 125616256 -----AACGTGTCA------TGT---TCCTTTCCCTCCC-
+q canFam2.chr1 -----999999999------999---9999999999999-
+i canFam2.chr1 I 5 C 0
+s felCat3.scaffold_217398 148229 25 - 219823 -----AACTTACAA------CGT---TCCTTCCCCTTCC-
+q felCat3.scaffold_217398 -----999999999------999---9999999999999-
+i felCat3.scaffold_217398 I 5 C 0
+s equCab1.chr31 13078453 25 + 24938454 -----GACTTGTCG------CTT---TCCTTCCCCTCTC-
+q equCab1.chr31 -----999999999------999---9999999999999-
+i equCab1.chr31 I 5 C 0
+s bosTau3.chr9 13758894 25 - 95030419 -----AACTTCTCC------TTT---TTCTTCCCCTTCC-
+q bosTau3.chr9 -----999999999------999---9999999999999-
+i bosTau3.chr9 I 3 C 0
+s echTel1.scaffold_21342 769 33 - 5330 CGCCAACCGTGTCC------TCTTTCTCCCTGCCTTCCC-
+q echTel1.scaffold_21342 99999999999999------9999999999999999999-
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106277087 30 - 541556283 TGCATGTCTGGTCA------CCT---TCCTTCTCATGCC-
+q monDom4.chr2 99999999999999------999---9999999999999-
+i monDom4.chr2 I 2 C 0
+s ornAna1.chr2 14916406 20 - 54797317 ---------------CAAATACT---TCTTCCCCCTTC--
+i ornAna1.chr2 I 2 C 0
+s galGal3.chr3 61594020 23 - 113657789 -----TCCTTACAA------CTT---TCAC--TCTGCCT-
+i galGal3.chr3 C 0 C 0
+s oryLat1.chr24 23279012 26 + 24165179 ----TGCTTTGGAA------GCT---TCTCTG-CTGATTG
+q oryLat1.chr24 ----9999999999------999---999999-9999999
+i oryLat1.chr24 C 0 I 102
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12522934 99 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3917195 7485 + 7803671 I
+e anoCar1.scaffold_0 8826186 1766 + 16654889 I
+e danRer5.chr21 16490451 3061 + 46057314 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e oryCun1.scaffold_214769 115407 10394 - 139458 M
+
+a score=1443616.000000
+s mm9.chr10 3220349 105 + 129993255 TCTGAAGGCAAACCCCGGCCTCTGTCCATGCCTGCCGATGGGAACTGGATGGGGATCGTGGACCCTTT------TGCT-AAACCTCGAGGAAATGGGAGGAAAGGTATG---TTT
+s oryCun1.scaffold_214769 126000 101 - 139458 ----AAGGCAAGCCCCGGCCCTTGTCCATGCCTGCAGATGGGAACTGGATGGGGATCGTGGACCCTTT------CGCC-AGACCTCGAGGTCACGGGAGGAAAGGTACG---TTT
+q oryCun1.scaffold_214769 ----9999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---999
+i oryCun1.scaffold_214769 M 10394 C 0
+s anoCar1.scaffold_0 8827952 96 + 16654889 T---TAGGAAAGCCTCGTCCATTGTCAATGCCAGCAGATGGGAACTGGGTAGGAGCTGCAGAGTCTTT------CTCG-AAGCCCAGAGGAATGGGGAGAAAAGGT---------
+q anoCar1.scaffold_0 9---9999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999---------
+i anoCar1.scaffold_0 I 1766 I 635
+s galGal3.chr3 61594043 102 - 113657789 T---CAGGAAAACCTCGTCCCTTATCAATGCCTGCTGATGGGAGTTGGATAGGAGCTGCGGAACCCTT------CTCA-AGGCCACGAGCACCAGGAAGAAAAGGCAAG---ATT
+i galGal3.chr3 C 0 C 0
+s ornAna1.chr2 14916426 101 - 54797317 ----CAGGAAAGCCTAGACCGTTGTCTATGCCTGCGGACGGAAGCTGGATGGGCATCGTGGATCCTTT------TGCC-AAACCACGGGGACAAGGGCGAAGAGGTGAG---TGC
+i ornAna1.chr2 C 0 C 0
+s monDom4.chr2 106277117 105 - 541556283 TATATAGGGAAGCCCCGGCCCTTGTCAATGCCTGCAGATGGGAGCTGGATGGGAATTGTGGACCCCTA------TGCC-AGACCCCGAGGACCTGGAAGAAAAGGCAAG---TTG
+q monDom4.chr2 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---999
+i monDom4.chr2 C 0 C 0
+s echTel1.scaffold_21342 802 103 - 5330 TGAGCAGGCAAGCCTCGGCCCTTGTCCATGCCTGCTGACGGGAGCTGGATGGGCATTGTTGACCCTTT------TGCG-AGACCTCGAGGCCACGGGAGGAAAGGTGAG---T--
+q echTel1.scaffold_21342 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---9--
+i echTel1.scaffold_21342 C 0 C 0
+s bosTau3.chr9 13758919 103 - 95030419 TCTGAAGGCAAGCCCCGGCCTCTGTCAATGCCTGCGGACGCGAGCTGGATGGGCATCGTGGACCCTTT------TGCT-AGACCTCGAGGTCATGGGAGGAAAAGTAAG---T--
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---9--
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13078478 103 + 24938454 TCTGAAGGCAAGCCCCGGCCTCTGTCCATGCCTGCGGATGGGAGCTGGATGGGGATTGTGGACCCTTT------TGCA-AGACCTCGAGGTCATGGGAGGAAAGGTGAG---A--
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---9--
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 148254 103 - 219823 TCCAAAGGCAAGCCCCGGCCTTTGTCCATGCCTGCAGACGGGAGCTGGATGGGGATCGTGGACCCTTT------TGCC-AGACCTCGAGGTCATGGGAGGAAGGGTAAG---T--
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---9--
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78285653 103 - 125616256 TTTGAAGGCAAGCCCCGGCCTTTGTCCATGCCTGCGGATGGGAGCTGGATGGGGATCGTGGACCCTTT------CGCC-AGACCGCGAGGTCATGGGAGGAAGGGTAAG---T--
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---9--
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_241672 5619 103 - 11555 T--GAAGGCAAGCCCCGACCTTTGTCCATGCCTGCTGATGGGAGCTGGATGGGGATTGTGGATCCTTT------TGCC-AGACCTAGAGGCCACGGAAGGAAAGGTAGG---CTT
+q eriEur1.scaffold_241672 9--77989569679976669599957949666567798689875657555989857875988797999------9969-799899899999979999999999997899---999
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 6852 98 + 14059 ----aaGGCAAACCCCGGCCTCTGT-CATGCCAGCCGATGGCAGCTGGATGGGGATCGTTGACCCTTT------TGCC-AAACCACGAGGCCACGGGAGGAAAGGTAAG---T--
+q sorAra1.scaffold_173811 ----455355644875325364311-223355534445254565325464566535455322473577------4253-584552144255553455543585445654---2--
+i sorAra1.scaffold_173811 C 0 I 802
+s tupBel1.scaffold_114895.1-498454 419616 105 - 498454 TCTGAAGGCAAACCCAGGCCTTTGTCCATGCCTGCTGATGGGAACTGGATGGGGATCGTGGACCCTTT------TGCC-AGACCTCGAGGTCATGGGAGGAAAGGTATG---TAT
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 21549 105 - 136255 TAAAAAGGGAAGCCCCGGCCTCTGTCCATGCCTGCGGATGGTAACTGGATGGGGAATGTGGACCCTTT------TGCCAAAACCTCGAGGTCATGGCAGGAAAGG-ATG---TTT
+q otoGar1.scaffold_85251.1-136255 66999556467477974567767835524665666446579187697575997952953663677699------9635158423545664363475546767663-426---499
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s ponAbe2.chr6 16439176 105 - 174210431 TCTGAAGGCAAGCCGCGGCCTTTGTCCATGCCTGCTGATGGGAACTGGATGGGGATTGTGGACCCTTT------TGCC-AGACCTCGAGGTCATGGCAGGAAAGGTACG---TTT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 103344 105 - 523245 TCTGAAGGCAAGCCTAGGCCTTTGTCCATGCCGGCTGATGGGAACTGGATGGGGATCGTGGACCCTTT------CGCC-AGACCTCGAGGTCATGGCAGGAAAGGTACG---TTT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108543264 105 + 167655696 TCTGAAGGCAAGCCGCGGCCTTTGTCCATGCCTGCTGATGGGAACTGGATGGGGATTGTGGACCCTTT------TGCC-AGACCTCGAGGTCATGGCAGGAAAGGTACG---TTT
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---999
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16650144 105 - 173908612 TCTGAAGGCAAGCCGCGGCCTTTGTCCATGCCTGCTGATGGGAACTGGATGGGGATTGTGGACCCTTT------TGCC-AGACCTCGAGGTCATGGCAGGAAAGGTACG---TTT
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16126727 105 - 170899992 TCTGAAGGCAAGCCACGGCCTTTGTCCATGCCTGCTGATGGGAACTGGATGGGGATTGTGGACCCTTT------TGCC-AGACCTCGAGGTCATGGCAGGAAAGGTACG---TTT
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230038158 105 - 267910886 TCTGAAGGCAAACCCCGGCCTCTGTCCATGCCTGCAGATGGGAACTGGATGGGGATTGTGGACCCTTT------TGCT-AAACCTCGAGGTCATGGGAGGAAAGGTATG---TTT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999------9999-999999999999999999999999999999---999
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_2 3924680 95 + 7803671 -----AGGTAAACCACGTCCCTTGTCAATGCCTGCTGAACCGAGCTGGATGGTACCACCTGAAACATA------CTCC-AGACACAGACTGGCAGGAAAGAAAGGTA--------
+i xenTro2.scaffold_2 I 7485 I 1171
+s gasAcu1.chrXV 12523033 98 - 16198764 -CTCCaggtaagccccgccccctctccatGCCTGTGGACAC---CTGCCTCGGAGTGGTGGATCCCTA------CGCT-AAGCCCTGGAACCAGGGGAGGAAAGGTAGG------
+q gasAcu1.chrXV -9999999999999999999999999999999999999999---999999999999999999999999------9999-999999999999999999999999999999------
+i gasAcu1.chrXV I 99 I 453
+s oryLat1.chr22 12886149 99 - 28810691 TCTTCAGGTAAACCTCGGCCGCTGTCGATGCCTGTGGATGC---ATGTGTCACCGTGGCTGATTCCTA------CGTC-AAGCCCTGGGCACAGGCAAGGAAAGGTATG------
+q oryLat1.chr22 99999999999999999999999999999999999999999---999999999999999999999999------9999-999999999999999999999999999999------
+i oryLat1.chr22 I 2 I 715
+s danRer5.chr21 16493512 89 + 46057314 ----------------GGCCCATATCCATGCCTGTGGA------ATATAACTGGGTAGGAGACTATGAAGATCCAGCC-AAGCTGAAAAAAGAGATCAGAAGAGGTGTGTGT---
+i danRer5.chr21 I 3061 N 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=-67845.000000
+s mm9.chr10 3220454 21 + 129993255 TATCT------AAGCAAACGCA--AACGG--------
+s oryCun1.scaffold_214769 126101 4 - 139458 CATC---------------------------------
+q oryCun1.scaffold_214769 9999---------------------------------
+i oryCun1.scaffold_214769 C 0 C 0
+s galGal3.chr3 61594145 1 - 113657789 T------------------------------------
+i galGal3.chr3 C 0 I 1412
+s ornAna1.chr2 14916527 21 - 54797317 CATTCA-----AACCCAATGAAAGGG-----------
+i ornAna1.chr2 C 0 I 1553
+s monDom4.chr2 106277222 5 - 541556283 TGTTT--------------------------------
+q monDom4.chr2 99999--------------------------------
+i monDom4.chr2 C 0 I 2135
+s echTel1.scaffold_21342 905 21 - 5330 --TTC------ATGGAAGCCAGCACACAG--------
+q echTel1.scaffold_21342 --999------999999999999999999--------
+i echTel1.scaffold_21342 C 0 C 0
+s bosTau3.chr9 13759022 20 - 95030419 ---TT------AAGCAAACGGAAAAGCAC--------
+q bosTau3.chr9 ---99------999999999999999999--------
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13078581 20 + 24938454 ---TT------AACTTAAGCAAATAGCTT--------
+q equCab1.chr31 ---99------999999999999999999--------
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 148357 20 - 219823 ---TT------AAGCAAACCAAAAAACAC--------
+q felCat3.scaffold_217398 ---99------999999999999999999--------
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78285756 20 - 125616256 ---TT------CAGCAagccaaaaataca--------
+q canFam2.chr1 ---99------999999999999999999--------
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_241672 5722 17 - 11555 TGTTT------AAGCAAATAAGA--------------
+q eriEur1.scaffold_241672 99999------999999999999--------------
+i eriEur1.scaffold_241672 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 419721 23 - 498454 AACCT------AAACAAACCAAAAGCCAC--------
+q tupBel1.scaffold_114895.1-498454 99999------999999999999999999--------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 21654 22 - 136255 AATGT------AAGCAAACCAGAAGACC---------
+q otoGar1.scaffold_85251.1-136255 56453------65557975665655659---------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s ponAbe2.chr6 16439281 23 - 174210431 AATCC------AAGCAAACCAAGgaacag--------
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 103449 23 - 523245 AATCC------AAGCAAACCAAGgaacag--------
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108543369 23 + 167655696 AAGCC------AAGCGAACCAAGGAGCAG--------
+q rheMac2.chr4 99999------999999999999999999--------
+i rheMac2.chr4 C 0 C 0
+s panTro2.chr6 16650249 23 - 173908612 AATCC------AAGCAAACCAAGgaacag--------
+q panTro2.chr6 99999------999999999999999999--------
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16126832 23 - 170899992 CATCC------AAGCAAACCAAGgaacag--------
+i hg18.chr6 C 0 C 0
+s rn4.chr1 230038263 21 - 267910886 CATGT------ATGCAAACCCA--AAGTG--------
+q rn4.chr1 99999------99999999999--99999--------
+i rn4.chr1 C 0 C 0
+s oryLat1.chr24 23279140 32 + 24165179 -----TGCAGCAGGCTGCACAAACATCATACGGGGGG
+q oryLat1.chr24 -----99999999999999999999999999999999
+i oryLat1.chr24 I 102 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=-57528.000000
+s mm9.chr10 3220475 60 + 129993255 C---TGA-----------------------------------------------------ATGGTGTTA-------------------------GT-AGA--------------CCCAGGCTACCCCATG----C--TTT---ATTCCCG-AAG------GTGATATTCCTG-
+s rn4.chr1 230038284 60 - 267910886 C---TGA-----------------------------------------------------GTGGTGTTA-------------------------GT-AGA--------------CCCAGACCACCC-ATG----C--TTT---ATTCCCGGAAG------TTGACATTTCTG-
+q rn4.chr1 9---999-----------------------------------------------------999999999-------------------------99-999--------------999999999999-999----9--999---99999999999------999999999999-
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 126105 47 - 139458 ----------------------------------------------------------------------------------------------AG-AGA--------------TCCAGG--GCTC-ATGTCAAC--TTC---AATTGTA-AAT------GTGTTA-CAATA-
+q oryCun1.scaffold_214769 ----------------------------------------------------------------------------------------------99-999--------------999999--9999-99999999--999---9999999-999------999999-99999-
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16126855 62 - 170899992 c---aaat----------------------------------------------------ggggagtga-------------------------ac-agc--------------cccagg--gcctggtttcacc--tct---gtttcta-aat------gtgtta-taata-
+i hg18.chr6 C 0 I 5
+s panTro2.chr6 16650272 62 - 173908612 c---aaat----------------------------------------------------ggggagtga-------------------------ac-aga--------------cccagg--gcctggtttcacc--tct---atttcta-aat------gtgtta-taata-
+q panTro2.chr6 9---9999----------------------------------------------------999999999-------------------------99-999--------------999999--9999999999999--999---9999999-999------999999-99999-
+i panTro2.chr6 C 0 I 5
+s rheMac2.chr4 108543392 62 + 167655696 C---AAAT----------------------------------------------------GGGGAGTGA-------------------------AC-AGA--------------CCCAGG--CCCTGGTTTCACT--TCT---ATTTGTA-AAT------GTGTTA-TAATA-
+q rheMac2.chr4 9---9999----------------------------------------------------999999999-------------------------99-999--------------999999--9999999999999--999---9999999-999------999999-99999-
+i rheMac2.chr4 C 0 I 5
+s calJac1.Contig1260 103472 62 - 523245 c---aaat----------------------------------------------------ggggagtga-------------------------ac-aga--------------cccagg--gcctggttttagc--tct---gtttcta-aac------gtgtta-caata-
+i calJac1.Contig1260 C 0 I 5
+s ponAbe2.chr6 16439304 62 - 174210431 c---aaat----------------------------------------------------ggggagtga-------------------------ac-aga--------------cccagg--ccctggtttcacc--tct---atttcta-aat------gtgtta-tagta-
+i ponAbe2.chr6 C 0 I 5
+s otoGar1.scaffold_85251.1-136255 21676 61 - 136255 C---AAGT----------------------------------------------------Ggggagtca-------------------------ga-aga--------------cccagg--cctcagtttcaat--tct---attccta-aat------gtg-ta-aaata-
+q otoGar1.scaffold_85251.1-136255 8---2474----------------------------------------------------677645375-------------------------56-645--------------594245--7555556875336--455---5533555-863------525-75-87637-
+i otoGar1.scaffold_85251.1-136255 C 0 I 4
+s tupBel1.scaffold_114895.1-498454 419744 59 - 498454 C---AAA--------------------------------------------------------GAGTGT-------------------------CCAAGA--------------CCTAGG--TCCCAGCTTTAGC--TGT---GTGCCTG-AAT------GAGTTA-TAATT-
+q tupBel1.scaffold_114895.1-498454 9---999--------------------------------------------------------999999-------------------------999999--------------999999--9999999999999--999---9999999-999------999999-99999-
+i tupBel1.scaffold_114895.1-498454 C 0 I 218
+s eriEur1.scaffold_241672 5739 58 - 11555 ------------------------------------------------------------GGGCACCCA-------------------------GT-AGA-------------GTCCAGA--CCTTGGTTCCCGC--TCT---CCTTCCC-AAC------GTGCTG-TGGTA-
+q eriEur1.scaffold_241672 ------------------------------------------------------------999999999-------------------------99-999-------------9999999--9999999999999--999---9999999-999------999999-99999-
+i eriEur1.scaffold_241672 C 0 I 5
+s canFam2.chr1 78285776 62 - 125616256 c---tga-----------------------------------------------------agggactca-------------------------ga-aga-------------acccagg--ccctcatttcagc--cct---attccta-att------gtgctg-ccata-
+q canFam2.chr1 9---999-----------------------------------------------------999999999-------------------------99-999-------------9999999--9999999999999--999---9999999-999------999999-99999-
+i canFam2.chr1 C 0 I 5
+s felCat3.scaffold_217398 148377 62 - 219823 C---CAA-----------------------------------------------------CAGGAGTCA-------------------------AA-AGA-------------GCCAGGG--CCTTTGTTGCAAC--CCT---CTTCCTC-GCT------GTCCTG-TAATA-
+q felCat3.scaffold_217398 9---999-----------------------------------------------------999999999-------------------------99-999-------------9999999--9999999999999--999---9999999-999------999999-99999-
+i felCat3.scaffold_217398 C 0 I 5
+s equCab1.chr31 13078601 62 + 24938454 C---AAAT----------------------------------------------------Agggagtca-------------------------aa-aga--------------cccagg--ccttactttcagc--cct---attccta-aat------gtattg-caata-
+q equCab1.chr31 9---9999----------------------------------------------------999999999-------------------------99-999--------------999999--9999999999999--999---9999999-999------999999-99999-
+i equCab1.chr31 C 0 I 5
+s bosTau3.chr9 13759042 154 - 95030419 C---AAACGTAAAGCCCAGGCCTTCATCTCGGGCCTCTTCCTAAGTGTGGTCAGTGACCACAGAAGTCATCTTCTCATCTACATCAGGGCTGCTGA-AGGCCTCTAAGTTTCTACCTATG--TCTTTgtt-cagctgccc---agtcatg-tct------gactct-gtgca-
+q bosTau3.chr9 9---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999--99999999-999999999---9999999-999------999999-99999-
+i bosTau3.chr9 C 0 I 5
+s echTel1.scaffold_21342 926 55 - 5330 TGTAAAAT----------------------------------------------------GGGCACTCA-------------------------AA-CGA-------------CTCCAGC--CCTACCTTTCAGC--TCTTTGGCCTTTG-----------------------
+q echTel1.scaffold_21342 99999999----------------------------------------------------999999999-------------------------99-999-------------9999999--9999999999999--9999999999999-----------------------
+i echTel1.scaffold_21342 C 0 I 22
+s oryLat1.chr24 23279172 65 + 24165179 ---------------------------------------------------------CAGAAggattca-------------------------gt-cag--------------cc--ac--caatagtgcaagt--tct---cccactg-aACAATCAGACGATG-GGATTT
+q oryLat1.chr24 ---------------------------------------------------------999999999999-------------------------99-999--------------99--99--9999999999999--999---9999999-999999999999999-999999
+i oryLat1.chr24 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=-13143.000000
+s mm9.chr10 3220535 35 + 129993255 ACTGGAG------ACCC-ACTTAGCTCTTCAGACTT--TAGCTT
+s rn4.chr1 230038344 37 - 267910886 ACTGGAG------ACCCCACTTAGTTCTTCAGAGGCG-CAGCTT
+q rn4.chr1 9999999------999999999999999999999999-999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 126152 37 - 139458 ACTGGAG------AAGGTGCTTAGCCTTTCAGAGTCC-TATTTT
+q oryCun1.scaffold_214769 9999999------999999999999999999999999-999999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16126922 32 - 170899992 actgagt-----------acttggcctttctgagtcc-cgtttt
+i hg18.chr6 I 5 C 0
+s panTro2.chr6 16650339 32 - 173908612 actgagt-----------acttggcctttctgagtcc-cgtttt
+q panTro2.chr6 9999999-----------9999999999999999999-999999
+i panTro2.chr6 I 5 C 0
+s rheMac2.chr4 108543459 32 + 167655696 ACTGAAT-----------ATTTGGCCTCTCTGAGCCT-CATTTT
+q rheMac2.chr4 9999999-----------9999999999999999999-999999
+i rheMac2.chr4 I 5 C 0
+s calJac1.Contig1260 103539 32 - 523245 attgagt-----------acttggcctttccgagtcc-tgcttt
+i calJac1.Contig1260 I 5 C 0
+s ponAbe2.chr6 16439371 32 - 174210431 actgagt-----------acttggcctttctgagtcc-tgtttt
+i ponAbe2.chr6 I 5 C 0
+s otoGar1.scaffold_85251.1-136255 21741 27 - 136255 ac-gagc-----------acataac---tctgagtcc-ca-ttt
+q otoGar1.scaffold_85251.1-136255 31-4133-----------3343224---321333257-44-795
+i otoGar1.scaffold_85251.1-136255 I 4 C 0
+s eriEur1.scaffold_241672 5802 33 - 11555 TTAGAGT-----------CCTTCATCCTTCACAGTTCTTGTCTT
+q eriEur1.scaffold_241672 9999999-----------99999999999999999999999999
+i eriEur1.scaffold_241672 I 5 C 0
+s canFam2.chr1 78285843 28 - 125616256 atagagg-----------accca----gccctagtcc-tgtctt
+q canFam2.chr1 9999999-----------99999----9999999999-999999
+i canFam2.chr1 I 5 C 0
+s felCat3.scaffold_217398 148444 27 - 219823 GTAGAGG-----------ACCTG----GCCTGAGTCC--GTCTT
+q felCat3.scaffold_217398 9999999-----------99999----9999999999--99999
+i felCat3.scaffold_217398 I 5 C 0
+s equCab1.chr31 13078668 32 + 24938454 atagagg-----------ccttagtctgtctgagtcc-catctt
+q equCab1.chr31 9999999-----------9999999999999999999-999999
+i equCab1.chr31 I 5 C 0
+s bosTau3.chr9 13759201 27 - 95030419 atggatg-----------gcagc----acaccaggct--tccct
+q bosTau3.chr9 9999999-----------99999----9999999999--99999
+i bosTau3.chr9 I 5 C 0
+s echTel1.scaffold_21342 1003 25 - 5330 AGTGAGT-----------TTCTTGCTTTTT--------TTCCTT
+q echTel1.scaffold_21342 9999999-----------999999999999--------999999
+i echTel1.scaffold_21342 I 22 C 0
+s oryLat1.chr24 23279237 42 + 24165179 CCTGGATCATTTTGTCTCACTTTGTCTCTCATacttg-aggtt-
+q oryLat1.chr24 9999999999999999999999999999999999999-99999-
+i oryLat1.chr24 C 0 n 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e tupBel1.scaffold_114895.1-498454 419803 218 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=46434.000000
+s mm9.chr10 3220570 28 + 129993255 GTCAT-C-AGTAACTCG---GGC---CTGCTGA--AGG
+s rn4.chr1 230038381 28 - 267910886 GTCAA-C-AGAAACTCA---TGC---CCACAGA--AGG
+q rn4.chr1 99999-9-999999999---999---9999999--999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 126189 29 - 139458 CTCATCC-ATGAAGTCA---AGA---CTGCTGA--CAG
+q oryCun1.scaffold_214769 9999999-999999999---999---9999999--999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16126954 29 - 170899992 ctcatct-gtaaaatta---gga---ctgctga--aga
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16650371 29 - 173908612 ctcatct-gtaaaatta---gga---ctgctga--aga
+q panTro2.chr6 9999999-999999999---999---9999999--999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108543491 29 + 167655696 CTCGTCT-ATAAAATCA---GGA---CTGCAGA--AGA
+q rheMac2.chr4 9999999-999999999---999---9999999--999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 103571 29 - 523245 ctcatct-ataaaatca---ggg---CTGCTGA--AGG
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16439403 29 - 174210431 ctcatct-ataaaatta---gga---ctgctga--aga
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 21768 30 - 136255 ctcttctaataaaatca---gTA---CTGCTGA--AGG
+q otoGar1.scaffold_85251.1-136255 42346422112573432---314---2252433--453
+i otoGar1.scaffold_85251.1-136255 C 0 I 644
+s eriEur1.scaffold_241672 5835 29 - 11555 CCCTCCT-ATGAAGCCG---GAA---GTGCTTAAGA--
+q eriEur1.scaffold_241672 9999999-999999999---999---9999999999--
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78285871 27 - 125616256 ctcctct-gtagggttg---ggg---ttgctga--a--
+q canFam2.chr1 9999999-999999999---999---9999999--9--
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 148471 26 - 219823 CTCATCT-CTGAAGTCG---GGG----TGCTGA--A--
+q felCat3.scaffold_217398 9999999-999999999---999----999999--9--
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13078700 29 + 24938454 ctcattt-ataaagtcg---gga---atgctgaaga--
+q equCab1.chr31 9999999-999999999---999---9999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13759228 30 - 95030419 gtccttc-acggtctcc---gggagtttgctca--a--
+q bosTau3.chr9 9999999-999999999---9999999999999--9--
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_21342 1028 29 - 5330 CTCACCT-GCAAAATCAGATGGG---TCGATGA-----
+q echTel1.scaffold_21342 9999999-999999999999999---9999999-----
+i echTel1.scaffold_21342 C 0 I 1
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e tupBel1.scaffold_114895.1-498454 419803 218 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=25282.000000
+s mm9.chr10 3220598 38 + 129993255 GT-CTGGCAATACTGCTTGT-TTCTAGAATGGGAAAG-----TGC---------------------------
+s rn4.chr1 230038409 38 - 267910886 GT-CCCGCAATACAGCTTGT-TTCTAGAGTGGAAAAG-----TAC---------------------------
+q rn4.chr1 99-99999999999999999-9999999999999999-----999---------------------------
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 126218 36 - 139458 TC-TCTAAGATCCTGCGTAT-TTCTGGAATCGAAGAA-----T-----------------------------
+q oryCun1.scaffold_214769 99-99999999999999999-9999999999999899-----9-----------------------------
+i oryCun1.scaffold_214769 C 0 I 1610
+s hg18.chr6 16126983 36 - 170899992 tc-tttaagatccTACTTAT-TTCTAGAATGGCAAAAT----------------------------------
+i hg18.chr6 C 0 I 573
+s panTro2.chr6 16650400 34 - 173908612 tc-tttaagatccTACTTAT-TTCTAGAATGGCAAA------------------------------------
+q panTro2.chr6 99-99999999999999999-999999999999999------------------------------------
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108543520 35 + 167655696 TC-TTTAAGATCCTACTTAT-TTCTAGAATAGCAAAA-----------------------------------
+q rheMac2.chr4 99-99999999999999999-9999999999999999-----------------------------------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 103600 37 - 523245 TCTTTTAAGAGCCTACTTAT-TTCTAGAAT-GCAAAA---TT------------------------------
+i calJac1.Contig1260 C 0 I 889
+s ponAbe2.chr6 16439432 35 - 174210431 tc-tttaagatccTACTTAT-TTCTAGAATGGCAAAA-----------------------------------
+i ponAbe2.chr6 C 0 C 0
+s eriEur1.scaffold_241672 5864 36 - 11555 TC-TCCCAG--CCCACTTAG-TTCTAGAACGGAAGGATTC--------------------------------
+q eriEur1.scaffold_241672 99-999999--999999999-9999999999999999999--------------------------------
+i eriEur1.scaffold_241672 C 0 I 17
+s canFam2.chr1 78285898 35 - 125616256 tg-tctaaggccctacctgt-ttctggaatgacagaa-----------------------------------
+q canFam2.chr1 99-99999999999999999-9999999999999999-----------------------------------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 148497 36 - 219823 TC-TCTAAGGCCCTGCCTGT-TTCTGGAATGGCAGAAT----------------------------------
+q felCat3.scaffold_217398 99-99999999999999999-99999999999999999----------------------------------
+i felCat3.scaffold_217398 C 0 I 5666
+s equCab1.chr31 13078729 35 + 24938454 tc-tctaaggtcccccctat-ttctAGAATAGCAGAA-----------------------------------
+q equCab1.chr31 99-99999999999999999-9999999999999999-----------------------------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13759258 27 - 95030419 ac-tc--aggtcc----------attgaatcagtgaATCC--------------------------------
+q bosTau3.chr9 99-99--999999----------99999999999999999--------------------------------
+i bosTau3.chr9 C 0 I 10
+s echTel1.scaffold_21342 1058 59 - 5330 -----GGCTGTCAGTCTTGTATTCAAAAATGGCAGAA--------TTAAGTAATCCAGGTGGTTCTAAGTAT
+q echTel1.scaffold_21342 -----99999999999999999999999999999999--------999999999999999999999999999
+i echTel1.scaffold_21342 I 1 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e tupBel1.scaffold_114895.1-498454 419803 218 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+
+a score=8015.000000
+s mm9.chr10 3220636 17 + 129993255 CTTCCTT------------------------CATCCTGGCT--
+s rn4.chr1 230038447 41 - 267910886 CTTCCTTTGTAGCAGTTGTGAATCAAGTCAGCATCCTGGCT--
+q rn4.chr1 99999999999999999999999999999999999999999--
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16650434 17 - 173908612 CTTATAT------------------------AATCCTAGTT--
+q panTro2.chr6 9999999------------------------9999999999--
+i panTro2.chr6 C 0 I 4
+s ponAbe2.chr6 16439467 16 - 174210431 -TTACAT------------------------AATCCTAGTT--
+i ponAbe2.chr6 C 0 I 4
+s rheMac2.chr4 108543555 16 + 167655696 -TTATGT------------------------CATCCTAGTT--
+q rheMac2.chr4 -999999------------------------9999999999--
+i rheMac2.chr4 C 0 I 4
+s eriEur1.scaffold_241672 5917 17 - 11555 CTTGATT------------------------AGTCCTGGGT--
+q eriEur1.scaffold_241672 9999999------------------------9999999999--
+i eriEur1.scaffold_241672 I 17 I 1
+s canFam2.chr1 78285933 16 - 125616256 -ttttat------------------------tatccTAGTT--
+q canFam2.chr1 -999999------------------------9999999999--
+i canFam2.chr1 C 0 I 302
+s equCab1.chr31 13078764 16 + 24938454 -TTATAT------------------------AGTCCTAGTT--
+q equCab1.chr31 -999999------------------------9999999999--
+i equCab1.chr31 C 0 I 34
+s bosTau3.chr9 13759295 17 - 95030419 TTGTAAA------------------------TCTCCTAATT--
+q bosTau3.chr9 9999999------------------------9999999999--
+i bosTau3.chr9 I 10 I 12
+s echTel1.scaffold_21342 1117 19 - 5330 CCTCATT------------------------AGTCTTGTGTCT
+q echTel1.scaffold_21342 9999999------------------------999999999999
+i echTel1.scaffold_21342 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 103637 889 - 523245 I
+e tupBel1.scaffold_114895.1-498454 419803 218 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+e hg18.chr6 16127019 573 - 170899992 I
+e oryCun1.scaffold_214769 126254 1610 - 139458 I
+
+a score=2411.000000
+s mm9.chr10 3220653 32 + 129993255 TTTTAAAAGGTTCTAGTTACAAAGGATCCACT
+s rn4.chr1 230038488 32 - 267910886 TTTTCAAAGGCTCTGGACACAAAGGATACACT
+q rn4.chr1 99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16650455 19 - 173908612 ATTGTAAATATCCTAATTA-------------
+q panTro2.chr6 9999999999999999999-------------
+i panTro2.chr6 I 4 I 533
+s ponAbe2.chr6 16439487 19 - 174210431 ATTGTAAATATCCTAATTA-------------
+i ponAbe2.chr6 I 4 I 539
+s rheMac2.chr4 108543575 19 + 167655696 ATTGTAAATATCCTAATTA-------------
+q rheMac2.chr4 9999999999999999999-------------
+i rheMac2.chr4 I 4 I 534
+s eriEur1.scaffold_241672 5935 32 - 11555 CTTGAACAAGCTCTAAAAGAGAATGGTCCACa
+q eriEur1.scaffold_241672 99999999999999999999999999999999
+i eriEur1.scaffold_241672 I 1 I 1
+s equCab1.chr31 13078814 32 + 24938454 TTTTAAAAGGCTGTAGACACTGATAGTCCAAT
+q equCab1.chr31 99999999999999999999999999999999
+i equCab1.chr31 I 34 C 0
+s bosTau3.chr9 13759324 32 - 95030419 TTTACACCGGCTGTAGACATCGATGGTCCAAT
+q bosTau3.chr9 99999999999999999999999999999999
+i bosTau3.chr9 I 12 C 0
+s echTel1.scaffold_21342 1136 32 - 5330 TTTTAAGAGGTTGGGGGCATTAATGACCTTGT
+q echTel1.scaffold_21342 99999999999999999999999999999999
+i echTel1.scaffold_21342 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78285949 302 - 125616256 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e calJac1.Contig1260 103637 889 - 523245 I
+e tupBel1.scaffold_114895.1-498454 419803 218 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+e hg18.chr6 16127019 573 - 170899992 I
+e oryCun1.scaffold_214769 126254 1610 - 139458 I
+
+a score=67811.000000
+s mm9.chr10 3220685 54 + 129993255 TTTTAGACAA----------AACATTCATTAAGTA------TCCTTAATTACGTGAC-TTTTTTTT----AAC----TT
+s rn4.chr1 230038520 57 - 267910886 TTTTAAGCAA----------AACATCTATTAAACA-------CCTTAATTACGTGAC-TTTTTTTTTTTAAAC----TT
+q rn4.chr1 9999999999----------999999999999999-------999999999999999-999999999999999----99
+i rn4.chr1 C 0 C 0
+s eriEur1.scaffold_241672 5968 48 - 11555 ttttaagc-------------ttatt--tttgccaattttat------ttatttatt-ttttattat-----c----tt
+q eriEur1.scaffold_241672 99999999-------------99999--99999999999999------999999999-999999999-----9----99
+i eriEur1.scaffold_241672 I 1 I 3891
+s canFam2.chr1 78286251 75 - 125616256 TTCTAGATAAGTAGAAACATATTATTCATTAGGCAATCACACCCTGAATTTTATGACTTATTATTACTGGAGT----CT
+q canFam2.chr1 9999999999999999999999999999999999999999999999999999999999999999999999999----99
+i canFam2.chr1 I 302 C 0
+s equCab1.chr31 13078846 74 + 24938454 TTCTAAACAAGTAAAGATACATTATTCATTAAATAATCTCCTCCTAAATTTTCTGAC-TATTATTATTGGAGT----CT
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999-999999999999999----99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13759356 74 - 95030419 TTCTAAACAAGTAGAAATACCTTATTCATTAAACAATCCCATCCTCAATTTTTAGCT-TTTCATTATTGGAGT----CT
+q bosTau3.chr9 999999999999999999999999999999999999999999999999999999999-999999999999999----99
+i bosTau3.chr9 C 0 C 0
+s rheMac2.chr4 108544128 54 + 167655696 --------------------AGCTTTCATTAAACAATCTTATTCTAAATTTTGTTAC-TTTTATTTTTTGAGT----CT
+q rheMac2.chr4 --------------------9999999999999999999999999999999999999-999999999999999----99
+i rheMac2.chr4 I 534 I 4
+s ponAbe2.chr6 16440045 54 - 174210431 --------------------agcTTTCATTAAACAATCTTATTCTAAATTTTGTTAC-TTTTATTTTTGGAGT----CT
+i ponAbe2.chr6 I 539 I 4
+s panTro2.chr6 16651007 54 - 173908612 --------------------agcTTTCATTAAACAATCTCATTCTAAATTTTGTTGC-TTTTATTTTTGGAGT----CT
+q panTro2.chr6 --------------------9999999999999999999999999999999999999-999999999999999----99
+i panTro2.chr6 I 533 I 4
+s hg18.chr6 16127592 54 - 170899992 --------------------agcTTTCATTAAACAATCTTATTCTAAATTTTGTTGC-TTTTATTTTTGGAGT----CT
+i hg18.chr6 I 573 I 4
+s calJac1.Contig1260 104526 35 - 523245 ---------------------------------------TATTCTCAATTTTGTGAC-TTTTATTTTTGGAGT----CT
+i calJac1.Contig1260 I 889 I 4
+s echTel1.scaffold_21342 1168 74 - 5330 -GTTCAGACGGCAGAAGTACATTGTTCATTCAGTAATTTCATCCTCAGTTTTATGAT-GATTATTA---AAATCAGTTT
+q echTel1.scaffold_21342 -99999999999999999999999999999999999999999999999999999999-99999999---9999999999
+i echTel1.scaffold_21342 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e loxAfr1.scaffold_33178 15575 2938 + 41726 I
+e tupBel1.scaffold_114895.1-498454 419803 218 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+e oryCun1.scaffold_214769 126254 1610 - 139458 I
+
+a score=171606.000000
+s mm9.chr10 3220739 69 + 129993255 T----ATTTTTAATGAACAAA---------------------------------CAAATCCTCTTTAAATTATTAAGGCA--TAACATCTGAAAA-----TTGTTTTTAATTC-----
+s rn4.chr1 230038577 69 - 267910886 G----ATTTTTAATGAACAAA---------------------------------CAAATCCTCTTTAAATTATTAAGGCA--TAATGTCTGAAAA-----CTGTTTTTAATTC-----
+q rn4.chr1 9----9999999999999999---------------------------------99999999999999999999999999--9999999999999-----9999999999999-----
+i rn4.chr1 C 0 C 0
+s rheMac2.chr4 108544186 93 + 167655696 G----ATTTCTGATTAACAAA----------CATGGA-----TTTGTTTTCTTCCAAGTCCTTCTTGTGTTA-GAAGGTAATTACTACTTGAAAAGAAATTTGTGTTTAATTC-----
+q rheMac2.chr4 9----9999999999999999----------999999-----999999999999999999999999999999-9999999999999999999999999999999999999999-----
+i rheMac2.chr4 I 4 C 0
+s ponAbe2.chr6 16440103 93 - 174210431 G----ATTTCTGATGAACAAA----------CATGGA-----TTTTTTTTCTTCCAAGTCCTTCTTATGTTA-GAAGGCAATTACTATTTGAAAAGAAATTTGTGTTTAATTC-----
+i ponAbe2.chr6 I 4 C 0
+s panTro2.chr6 16651065 96 - 173908612 G----ATTTCTGATGAACAAA----------CATGGA--TTTTTTTTTTTCTTCCAAGTCCTTCTTATGTTA-GAAGGCAGTTACTATTTGAAAAGAAATTTGTGTTTAATTC-----
+q panTro2.chr6 9----9999999999999999----------999999--999999999999999999999999999999999-9999999999999999999999999999999999999999-----
+i panTro2.chr6 I 4 C 0
+s hg18.chr6 16127650 94 - 170899992 G----ATTTCTGATGAACAAA----------CATGGA----TTTTTTTTTCTTCCAAGTCCTTCTTATGTTA-GAAGGCAGTTACTATTTGAAAAGAAATTTGTGTTTAATTC-----
+i hg18.chr6 I 4 C 0
+s calJac1.Contig1260 104565 98 - 523245 A----ATTTCTGGTGAACAAA----------CATAGGGTTGTTTTTTTTTTCCCCAAGTCCTTCTTGTGTTA-GAAGGTAATTACAATTTGAAAAGAAATTTGTGTTTAATTC-----
+i calJac1.Contig1260 I 4 C 0
+s tupBel1.scaffold_114895.1-498454 420021 80 - 498454 T----ATCTTCAACAGATAAT----------ACCACA---CCTCTTTGTGCCATTAATGCTTTGCTTCCTT----------TTCCCCTCTAAGA------TTCTATTTATTTC-----
+q tupBel1.scaffold_114895.1-498454 9----9799997699997999----------999799---9999999997987999999969963898969----------9899999979999------8999999999999-----
+i tupBel1.scaffold_114895.1-498454 I 218 I 298
+s canFam2.chr1 78286326 91 - 125616256 G----ATTTTTGATGAATAGG----------CATGGA-----TTTTTTTTCTCCTCCCTAAATCTTGTGTGA-GAGAGTGATTACAATTGAAAAAGACA-TTGTG-TTAATTC-----
+q canFam2.chr1 9----9999999999999999----------999999-----999999999999999999999999999999-99999999999999999999999999-99999-9999999-----
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13078920 93 + 24938454 G----ATTTTTGATGAACAGA----------CATGGA-----TTGTTTTGGTCCCATATCCTTCTTGTGTTA-GAGAGTAATTGCTATGGGAAAAGAAATTTGTATTTAATTC-----
+q equCab1.chr31 9----9999999999999999----------999999-----999999999999999999999999999999-9999999999999999999999999999999999999999-----
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13759430 93 - 95030419 GTCTTATTTTTGATGGACAGG----------CGTAGC-----TTTTTTTCTTCCC----CGTCCTTATATTA-GAGAATAATTACTATTGGAAAAGAAACTTGTGTTTAATTT-----
+q bosTau3.chr9 999999999999999999999----------999999-----9999999999999----9999999999999-9999999999999999999999999999999999999999-----
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_33178 18513 95 + 41726 G----ATTTGTGATGAACAAA----------CCTTTC--TTTTTCTTTCCTTCCCAAATCCTTCTAGTGTTA-AAGAGTAATTACTATTTGAAGAGAAA------TTTCACTTAATTT
+q loxAfr1.scaffold_33178 7----8987879857799997----------999999--999999999999999999689999999978999-99999889999999986887979998------9999999999999
+i loxAfr1.scaffold_33178 I 2938 C 0
+s echTel1.scaffold_21342 1242 102 - 5330 G----ATTTCTGATGAACAAACTGGCTTGTGCTTTAA--TTTTTTTCTCCTTTCCAA----TCCTGGAGGCA-AAGATTAATTGCTGGGTGAAAAGAAAAGCATGTTCCATTT-----
+q echTel1.scaffold_21342 9----99999999999999999999999999999999--999999999999999999----99999999999-9999999999999999999999999999999999989999-----
+i echTel1.scaffold_21342 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+e oryCun1.scaffold_214769 126254 1610 - 139458 I
+
+a score=173868.000000
+s mm9.chr10 3220808 66 + 129993255 ACCCTATAATC--AGCTACTTGTTATGACACTAGTCTTGAAGGAAACATTTATAAAT--ATTTTTATCTg
+s rn4.chr1 230038646 61 - 267910886 GCCCTGTAATC--AGCTACTTATTAT---ACTACTCTTGAAGGAAACATTTTAAAAT--GTTTTTATC--
+q rn4.chr1 99999999999--9999999999999---9999999999999999999999999999--999999999--
+i rn4.chr1 C 0 I 2
+s rheMac2.chr4 108544279 66 + 167655696 ACCCTGTAATCAAAGTCACTGGTTATTATACTAGTCTTGAGTGAAATGTTTTAAAAC--ATTCTCATC--
+q rheMac2.chr4 999999999999999999999999999999999999999999999999999999999--999999999--
+i rheMac2.chr4 C 0 I 3
+s ponAbe2.chr6 16440196 66 - 174210431 ACCCTGTAATCAAAGTCACTGGTTATTATACTGGTCTTGAGTGAAATGTTTTAAAAC--ATTCTCATT--
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16651161 66 - 173908612 ACCCTGTAATCAAAGTCCCTGGTTATTATGCTGGTCTTGAGTGAAATGTTTTAAAAC--ATTCTCATT--
+q panTro2.chr6 999999999999999999999999999999999999999999999999999999999--999999999--
+i panTro2.chr6 C 0 I 3
+s hg18.chr6 16127744 66 - 170899992 ACCCTGTAATCAAAGTCCCTGGTTATTATGCTGGTCTTGAGTGAAATGTTTTAAAAC--ATTCTCATT--
+i hg18.chr6 C 0 I 3
+s calJac1.Contig1260 104663 66 - 523245 ACCCTGTAATCAAAGTCACTGGTTACTATACTAGTCCTGAGTGAAATGTTTTGAAAC--ATTCTCATT--
+i calJac1.Contig1260 C 0 I 1
+s canFam2.chr1 78286417 68 - 125616256 ATCCCATGATCAAAGTGACTGGTTATTACACTAGTGTCAACAGAAATGTTTTTAAATAAATCCTTATT--
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999999--
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13079013 66 + 24938454 ACTTTGCTATTAAAGTTAGTAGTTATTACCCTCGTCTTGAGGGAAATGTTTATAAAT--ATTCTTATT--
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999--999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13759523 52 - 95030419 ACACTCTATTCCAAGTTACTGATGATGATGCTTCTCTTAAGGGAAATGTTGA------------------
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999------------------
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_33178 18608 65 + 41726 TACCTGTAATCAGAGTTACTGGT-ATTACACTAGTCTTGAGGGAAATGTTTAAAGAT--ATTCTTATT--
+q loxAfr1.scaffold_33178 98998999999999999999999-999999999999979999999987899999999--999999999--
+i loxAfr1.scaffold_33178 C 0 C 0
+s echTel1.scaffold_21342 1344 61 - 5330 --CCTGTGATCAAAGTTTTGGGTGATTACACGAGTCTTGGTGAAAGTGTTTACACAG--TTTCTT-----
+q echTel1.scaffold_21342 --9999999999999999999999999999999999999999999999999999979--999999-----
+i echTel1.scaffold_21342 C 0 I 2417
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e tupBel1.scaffold_114895.1-498454 420101 298 - 498454 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+e oryCun1.scaffold_214769 126254 1610 - 139458 I
+
+a score=-6241.000000
+s mm9.chr10 3220874 129 + 129993255 ctgggcacagttgtatgtgcctttaatcccagggca------ggcagatctctgagtttgaggccagtctggcttacatagtaagttctaggctggacaggtttacattgcgagaccttgtct---caaaagcaaaaa
+s rn4.chr1 230038709 135 - 267910886 CTGggcacagttgcgtgtcccagcactttcgggacaaggactggcagatctctgagtctgaggccagtctggcttacgcagtgagtttgaggctatccaggtgtacatagcaagaccctgtct---caaaaatgaaaa
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---999999999999
+i rn4.chr1 I 2 C 0
+s bosTau3.chr9 13759575 55 - 95030419 ---------------------------CCCAGATTA------------CGTTTGATTGTCAAGACAGCCTAAC------ATTGATTT----------------TGCAGTGCTAGAA----------------------
+q bosTau3.chr9 ---------------------------999999999------------9999999999999999999999999------99999999----------------9999999999999----------------------
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_33178 18673 67 + 41726 ------------------------TTTGCCAGATTA------------CCCTGGATTATCA----ACACTGGC------AGCACATT------------------------AGGACACTGTTTTGGCAGGGCCGAAA-
+q loxAfr1.scaffold_33178 ------------------------999999999999------------9998999999999----99997999------99999999------------------------99999999999979999999999999-
+i loxAfr1.scaffold_33178 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13079079 0 + 24938454 C
+e rheMac2.chr4 108544345 3 + 167655696 I
+e sorAra1.scaffold_173811 6950 802 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78286485 0 - 125616256 C
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e calJac1.Contig1260 104729 1 - 523245 I
+e tupBel1.scaffold_114895.1-498454 420101 298 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+e hg18.chr6 16127810 3 - 170899992 I
+e panTro2.chr6 16651227 3 - 173908612 I
+e ponAbe2.chr6 16440262 1 - 174210431 I
+e oryCun1.scaffold_214769 126254 1610 - 139458 I
+
+a score=308034.000000
+s mm9.chr10 3221003 206 + 129993255 caaaaA--------CTTTTACCCATTTTGCCAGACA---GGGTCTGATTCCCGACACTGGGTGGGTGGAAATGTCCACACTGCTTTAGTAA-TGTTGAAACAAGAC---GGGTGAGGGGCAGAGGAAGATGCTCTTTCAGCTCTGAGGAA------GCAG---ATT-AA----ACTGTGGAGGCCAAGCCTTCCGA-GG----GG-GCATCTCCT-----------GGGCAGCC--------CTG-TCAGCCGGGTACTTG
+s loxAfr1.scaffold_33178 18740 121 + 41726 ---------------------------------------------------CACAG----CCGGCGAAGAGTTAAAGTACAGTCCGCCTTG-GGTAGTAACAAGG----------------------------------------------------------AGA-GA----ATTCTAGAGGCCC-----------------TA-TCAACT-CTGACATCTGTA-GGGGGCTTCGTAAAGTTTG-TCACCTAAATCCCTA
+q loxAfr1.scaffold_33178 ---------------------------------------------------99999----9999999999999999999999999999998-9999999999999----------------------------------------------------------999-99----9999999999999-----------------99-999999-999999999997-9999999999999999999-999999999999999
+i loxAfr1.scaffold_33178 C 0 C 0
+s calJac1.Contig1260 104730 214 - 523245 ------------------------TTTTGCCTGACT---GCACTTCATTATCATCA----TTGGCAGAACGTTATAACATTGTTTTTGCAGTTGTTGAAACAAAGAGCTGGTGAAAAGTTAAAGTACAGTAGGCTTTAGCT----AGCAAA-GGAAGAAG---AAA-AA----ATTATGGAGGCCTAACCTTCCAAAGGGATTGA-TTGACCCCTGACCCTTTCT-AGACACTTGGTTAAGTTTG-TCACCTGAGTACCCA
+i calJac1.Contig1260 I 1 C 0
+s panTro2.chr6 16651230 213 - 173908612 --------------------------TTGCCAGATT---GCATTTGATTGTCATCA----TTGGCAGAACATTATAACATTGTTTTTGCAGTTGTTGAAACAAAGGGCAGTTGAAAAGTTAAAGTACAATAGGCTTTAGAT----AGTAAAAGGAAGAAG---AAA-AA----ATTCTGGAGGCCTAACCTTCCAAAGGGATTGA-TTGACCCCTGACCCTTTCT-AGGGACTTGGTAAAGTTTG-TCACCTAAGTACCCA
+q panTro2.chr6 --------------------------9999999999---99999999999999999----999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999---999-99----99999999999999999999999999999999-9999999999999999999-9999999999999999999-999999999999999
+i panTro2.chr6 I 3 C 0
+s hg18.chr6 16127813 213 - 170899992 --------------------------TTGCCAGATT---GCATTTGATTGTCATCA----TTGGCAGAACATTATAACATTGTTTTTGCAGTTGTTGAAACAAAGGGCAGTTGAAAAGTTAAAGTACAATAGGCTTTAGAT----AGTAAAAGGAAGAAG---AAA-AA----ATTCTGGAAGCCTAACCTTCCAAAGGGATTGA-TTGACCCCTGACCCTTTCT-AGGGACTTGGTAAAGTTTG-TCACCTAAGTACCCA
+i hg18.chr6 I 3 C 0
+s rheMac2.chr4 108544348 212 + 167655696 --------------------------TTGCCAGATT---GCATTTGATCATCATCA----TTGGCAGAACACTATAACATTGTTTTTGCAGTTGTTGAAACAAAGGGCAGTTGAAAAGTT-AAGTACAATAGGCTTTAGAT----AGTAAAGGGAAGAAG---AAA-AA----ATTCTGGAGGCCTAACCTTCCAAAGGGATTGA-TTGACCCCTGACCCTTTCT-AGGGACTTGGTAAAGTTTG-TCACCTAAGTACGCA
+q rheMac2.chr4 --------------------------9999999999---99999999999999999----999999999999999999999999999999999999999999999999999999999999-99999999999999999999----999999999999999---999-99----99999999999999999999999999999999-9999999999999999999-9999999999999999999-999999999999999
+i rheMac2.chr4 I 3 C 0
+s ponAbe2.chr6 16440263 215 - 174210431 ------------------------TATTGCCAGATT---GCATTTGATTGTCATCA----TTGGCAGAACATTATAACATTGTTTTTGCAGTTGTTGAAACAAAGGGCAGTTGAAAAGTTAAAGTACAATAGGCTTTAGAT----AGTAAAAGGAAGAAG---AAA-AA----ATTCTGGAGGCCTAACCTTCCAAAGGGATTGA-TTGACCCCTGACCCTTTCT-AGGGACTTGGTAAAGTTTG-TCACCTAAGTACCCA
+i ponAbe2.chr6 I 1 C 0
+s oryCun1.scaffold_214769 127864 210 - 139458 ------------------------TTTTGCCCGATT---CCATTTGATTATCAGTG----TTGGCAGAGCATCATCACATTGCTCTTGCAG-TGTTGGAACAGTGCA--GGGGAGGAATTAAAGTACAGTAGACTTCAGGC----AGAAGAAGG--GAAA---AAG-AACACTGTTCTGGAGGCCTCAGTTTCCAACGT----GT-TTGGTCCCTAATATCTACT-AGGGACTCGGTAATGTTTG-TCACCTGGGGACCTG
+q oryCun1.scaffold_214769 ------------------------888875443636---65277657356544557----4574543744355455244665555465325-453674664256642--47755262545585345424452544541213----344415226--8579---955-97569999968999996997599999539932----67-9668775999899999999-9999999999999999999-521239999999989
+i oryCun1.scaffold_214769 I 1610 C 0
+s equCab1.chr31 13079079 202 + 24938454 ------------------------TTTTGCCAGATC---ATATTTGATTATCGATG----CTGGCAGGACAATATAACATTGCTTTTGCAG-TGCTAAAACAGAG---------AAAGTTAGAGTACAGGAGACCTTAGGT----AGTAAAAGGAAGAAG---AAATAA----ATTTTTGGAGGCCCAACTTCCAAAGC----AA-TCAACCTCTGCCATCTTCC-CGGGACTGGGTCGAGTTTG-TCATCCAAACACCCC
+q equCab1.chr31 ------------------------999999999999---99999999999999999----9999999999999999999999999999999-9999999999999---------999999999999999999999999999----999999999999999---999999----99999999999899999999999999----99-9999999999999999999-9999989999999999999-999999999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78286485 208 - 125616256 ------------------------TTTTGCCAGAT-----GATTTGGTCGTCAGCA----CTGGCAAGACATTTTACCACTGTTTGTGCAG-TGCTGAAACACAGAGCAGGTGAAAAGTTAAAGTACAGTAGACTTTAGGT----TATAAAAGGAAGAAG---AAA-AA----AGTTCTGGAGCCTCAGCTTCCAAAAT----GA-TCAACCCCTCATGTCTCCC-TGGGACTTGATAAAGTTCC-TCACTTAGGCACCTA
+q canFam2.chr1 ------------------------99999999999-----9999999999999999----9999999999999999999999999999999-9999999999999999999999999999999999999999999999999----999999999999999---999-99----99999999999999999999999999----99-9999999999999999999-9999999999999999999-999999999999999
+i canFam2.chr1 C 0 C 0
+s sorAra1.scaffold_173811 7752 197 + 14059 --------------------------------GACAGGGGGCTTTGATTCTTCATG----CTGACAGGGTGCTGGAACGTAGCTCTTGTCA-TGCAGAAATTaaaaacaggtgaaaagttcaagtgcctagggtctgaaat----aggaaaaggaaaaca---aaacaa----aatcggGGAGGCGCAGCTCCCTAGGT----GACTGGGCCTCCCA----TTCC-TGGGACTTGGCAAAGCTGC-TCACC------CTCG
+q sorAra1.scaffold_173811 --------------------------------999999999999999999999999----9999999999999999999999999999999-9999999999999999999999999999999999999999999999999----999999999999999---999999----99999999999999999999999999----99999999999999----9999-9999999999999999999-99999------9999
+i sorAra1.scaffold_173811 I 802 C 0
+s bosTau3.chr9 13759630 143 - 95030419 CAAA-------------------------------------------------GAG----CTGTTGAAAAGATAGACAGCAGGTT-----G-GCCTGAGATAGGA--------------------------------------------AAAGGAAGAAG---AAA-TA----AATTCTGGTGCCTCAACTGCCAAAGT----GC-TCAACCCCTGACATTTCCC-TGGGACTTGGTAAAGTTTG-TCACCTAAGTAGCTG
+q bosTau3.chr9 9999-------------------------------------------------999----9999999999999999999999999-----9-9999999999999--------------------------------------------99999999999---999-99----99999999999999999999999999----99-9999999999999999999-9999999999999999999-999999999999999
+i bosTau3.chr9 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 420399 204 - 498454 TAAAAATTCTTATT----------TTCTGCCAGATT---ACATTTGACTGTCAACA----CTGGCAGGATATTATAACA-TGCTTGTGCAA-TGCTGAAACAAAGAACTGCTGAAGAGTTACAGTATAATAGGCTTTAAAC----AGCAAAAGGAAGACAGTTAAA-GA----CTTCAGGTAGTT----------AAGG----TG-TCAACTCTTGACC--------------TAGTCAAGTTTGTTCATCCAAGTACCAG
+q tupBel1.scaffold_114895.1-498454 99999999999999----------999999999999---99999999999999999----9999999999999999999-99999999999-9999999999999999999999999999999999999999999999999----999999999999999999999-99----999999999999----------9999----98-9997899999999--------------9989999999999998899999979999
+i tupBel1.scaffold_114895.1-498454 I 298 C 0
+s rn4.chr1 230038844 218 - 267910886 caaaa---------CTTTTACCCATTTTTCGAGACA---GGCTTGGATTCTCAACA----GTGGGTGGAAACG-CTGCATTGCTTTTGTAA-TGTTGGAACAGAACAAGGGGGGGGGGGCAGAGGAAGATAGGCTTCAGGCTGAGAGAGAAAGA--GCAG---AGC-AA----GCTGCAGAGGCCTAACCTTCCGA-GT----GA-GTGGCTCCTAAGGTCTCCTGGGGGGCTC--------TTG-TCAGCTGTGCACTTG
+q rn4.chr1 99999---------9999999999999999999999---99999999999999999----9999999999999-99999999999999999-99999999999999999999999999999999999999999999999999999999999999--9999---999-99----99999999999999999999999-99----99-9999999999999999999999999999--------999-999999999999999
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14916548 1553 - 54797317 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+
+a score=139564.000000
+s mm9.chr10 3221209 91 + 129993255 GAGCATCTGGAATTTACCAACATGA-CGAAGGGACA-----AGACGCCAGTC----TCTGGATT-CTGAAGCTCTCAGC---TACGGAGAAAAAGTCTATGCAGT
+s rn4.chr1 230039062 93 - 267910886 GACCATCTGGATTGTACCAACATGA-CCAAGG-ACA-----AGATGCCAGTC----TGTGGTTT-CTGAAGCTCTTGGTGTATAGAGAAAAGTCTTCTTTGCAGT
+q rn4.chr1 9999999999999999999999999-999999-999-----99999999999----99999999-9999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 420603 70 - 498454 GATCACCTGGTTTAGGCTAAAATGA-AAAAGG-ACA-----AGGCATC--------TGCTGTTC-CA-------------------ATGTGAAAGTCCGTGGAGC
+q tupBel1.scaffold_114895.1-498454 9899899899999999999999799-999999-999-----9967999--------99999999-99-------------------9999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13759773 90 - 95030419 AATTACCTGGATGATACTAAATTGGAAAAAGGAAGA-----AGATGCC-ATC----TGAGGTCC-AAGACACCCTTAGC---TGACATG-GAAAATCTGTGGAGC
+q bosTau3.chr9 999999999999999999999999999999999999-----9999999-999----99999999-99999999999999---9999999-999999999999999
+i bosTau3.chr9 C 0 C 0
+s sorAra1.scaffold_173811 7949 76 + 14059 CTTCGCCTG-----------------AACAGGTGGG-----CGACCCCCGTC----GAAGGTCCGGAGGGTCCTTTGGT---GGCCGTGCGGCAGTCTGAGGAGC
+q sorAra1.scaffold_173811 999999999-----------------9999999999-----99999999999----99999999999999999999999---99999999999999999999999
+i sorAra1.scaffold_173811 C 0 C 0
+s canFam2.chr1 78286693 91 - 125616256 AATCACCTGAATTATAATAAAGTGG-AAAAGGGAGC-----TGATGTCTGTG----TAAGGTCC-AGGATACCTTTAAT---TGGCATGTGAAAATCTGTGGAGC
+q canFam2.chr1 9999999999999999999999999-9999999999-----99999999999----99999999-99999999999999---99999999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13079281 91 + 24938454 TACCACCTGGATTATGCCAATGAGG-AAAAGGAAGA-----GGACACCTGGC----TAAGGTCC-AAGATACCCTTAGT---TGACATGTGAAAATTTCAGGAGC
+q equCab1.chr31 9999999999999999999999999-9999999999-----99899999999----99999999-99999999999999---99999999999999999999999
+i equCab1.chr31 C 0 C 0
+s oryCun1.scaffold_214769 128074 94 - 139458 CGTCATTTGGATTCTGCTAACGTGA-CAAAGGGACAAGAAGAGATGCCAGCC----CATAGTTC-AAGATACTCTTATG---TAACGTGAAGA--TCTGTGGAGC
+q oryCun1.scaffold_214769 9999999999999989999999999-99999999999999999999999999----99999999-99999999999999---99999999999--9689999999
+i oryCun1.scaffold_214769 C 0 C 0
+s ponAbe2.chr6 16440478 94 - 174210431 TATCACCTGTATTATGCTAAAGTGA-AAAAGG-GAA-----AGATGCCTAGGTACCTACCATTC-AGGATCCCCTTAGT---TAATGCGTGAGTATCCATGGAGC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108544560 90 + 167655696 GATCGCCTGTATTATGCTAAAGTGA-AAAAGG-GAG-----AGATGCCTGGG----TACCATTC-AAGATCCCCTTAGT---TAACGTGTGAGTATCTGTGGAGC
+q rheMac2.chr4 9999999999999999999999999-999999-999-----99999999999----99999999-99999999999999---99999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16128026 94 - 170899992 TATCACCTGTATTATGCTAAAGTGA-AAAAGG-GAA-----AGATGCCTGGGTACCTACCATTC-AGGATCCCCTTAGT---TAACGTGTGAGTATCCATGGAGC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16651443 94 - 173908612 TCTCACCTGTATTATGCTAAAGTGA-AGAAGG-GAA-----AGATGCCTGGGTACCTACCATTC-AGGATCCCCTTAGT---TAACGTGTGAGTATCCATGGAGC
+q panTro2.chr6 9999999999999999999999999-999999-999-----99999999990999999999999-99999999999999---99999999999999999999999
+i panTro2.chr6 C 0 C 0
+s calJac1.Contig1260 104944 89 - 523245 TATTGCCTGGATTATGCTAAAGTGA-AAAAGG-GAA-----TGATGCCTGGG----TACCATTC-CAGATACCCTTAGT---TAACATGTGAGTATC-GTGTAGC
+i calJac1.Contig1260 C 0 C 0
+s loxAfr1.scaffold_33178 18861 86 + 41726 ATTTACCTGGATTATGCAAAAGTAC-GAACAG-GGA-----AGGTGCCTGTC----TGTGGTTT---GACATCTGCAGT---TGGC-CGTGAAAGTCTG-GGAGC
+q loxAfr1.scaffold_33178 9999999899999999999999999-999999-999-----99789999999----79489995---999999679995---1599-996999999712-99999
+i loxAfr1.scaffold_33178 C 0 C 0
+s ornAna1.chr2 14918101 77 - 54797317 GAGTTTCCGCAAT-TGCTAAACCGA-GACAAGGATG-----TGATGCCATCG----TAAGTTTT-G----------------AAATGAGGAGAATCCTCCAAAAC
+i ornAna1.chr2 I 1553 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 21798 644 - 136255 I
+
+a score=424206.000000
+s mm9.chr10 3221300 131 + 129993255 AGTCAGCAGGTGGCAGGGCTGGCC-TTGTTTAGATTTAAG-ATGCTAATGTGTTCCTTGCCATTC----------CGTGG-GTGTGG-CTCTAGACTGTTCTTTTGC------TATGGAGAGATGGAGTGC-AGGGA--TTGGGGCTCATGAGA
+s rn4.chr1 230039155 129 - 267910886 AGTCAGCAGGTGGCAGGGCTGGCC-TTGTTTAGATTTAAG-ATGCT-----TTTTCTTGCCACTC----------CCTGC-GTGTGG-ATCTAGACTGTTCTCTTTCC---TATAGGGAGAGGTGGAGTGC-AGGGA--TTGGGGCTTATAGAA
+q rn4.chr1 999999999999999999999999-999999999999999-99999-----99999999999999----------99999-999999-99999999999999999999---99999999999999999999-99999--999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 128168 137 - 139458 AGTCAGCAGGTGGCAGGACTGTCCTTTGTTTAGAATCAGGAATGCTCACATCTTCATTGCCATTC----------TTAGGAGCCTAG-ATTTAGCCTTTTATTTCTTT-A-TATATTGAGACATGCAA-AT-GGGGA--TTAGAGAATATGAAA
+q oryCun1.scaffold_214769 98997899999999999988999999999989999878699999999898888999999998999----------999989999999-99989999997599889999-9-99999999999899999-99-99999--799999989999999
+i oryCun1.scaffold_214769 C 0 I 47
+s ponAbe2.chr6 16440572 139 - 174210431 AGTCAGCAGGTGGCAGGGCTGTCCTTTGTTTAGATTTAGACACGTTAACATCTTCCTTGCCGTTC----------TTCTGAGCCTGG-GTTGAGCCTTTTATTTATTTTA-TACACGGAGAGATGAAGTGT-CAAGG--TTATGGGATGTGAAA
+i ponAbe2.chr6 C 0 I 50
+s rheMac2.chr4 108544650 139 + 167655696 AGTCAGCAGGTGGCAGGGCTATCCTTTGTTTAGATTTAGACACGTTAACATCTTCCTTACCGTTC----------TTCTGAGCCCGG-GTTGAGCCTTTAATTTATTTTA-TACATGGAGAGATGAAGTGT-CGGGG--TTAGAGGGTGTGAAA
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999----------999999999999-9999999999999999999999-99999999999999999999-99999--999999999999999
+i rheMac2.chr4 C 0 I 50
+s hg18.chr6 16128120 139 - 170899992 AGTCAGCAGGTGGCAGGGCTGTCCGTTGTTTAGATTTAGACACGTTAACATCTTCCTTGCCGTTC----------ATCTGAGCCAGG-GTTGAGCCTTTTATTTATTTTA-TACATGGAGAGATGAAGTGT-CAGGG--TTATGGGGTGTGAAA
+i hg18.chr6 C 0 I 50
+s panTro2.chr6 16651537 134 - 173908612 AGTCAGCAGGTGGCAGGGCTGTCCTTTGTTTAGATTTAGACACGTTAACATCTTCCTTGCCGTTC----------TTCTGAGCCAGG-GTTGAGCC-----TTTATTTTA-TACATGGAGAGATGAAGTGT-CAGGG--TTATGGGGTGTGAAA
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999----------999999999999-99999999-----999999999-99999999999999999999-99999--999999999999999
+i panTro2.chr6 C 0 I 50
+s calJac1.Contig1260 105033 139 - 523245 AGTCAGCAGGTGGCAGGGCTGTCCTTGGTTTAGATTTAGACACGGTAACATCTTCCTTGCCCTTC----------TTCTGAGCCCGG-ATTGAGCCTTTTATTTCTTTTT-TACTTGGAGAGATGAAATGT-AGTGA--TTGGGCTGTGTGAAA
+i calJac1.Contig1260 C 0 I 5254
+s otoGar1.scaffold_85251.1-136255 22442 139 - 136255 AGTCAGCAGGTGGCAGGGCTGTCCTTTGTTTAGATTTACAATTGTTAACATCTTCAATGCCATTC----------CTAGGAACCTGG-ATTTAGCCTTTTGTTTCTTTCA-TATATTGAGAAGAGAAAGGA-GAGGG--TTGAGGAGTGTGAAA
+q otoGar1.scaffold_85251.1-136255 47764867995931988329988999999935996721110111223224899987999978999----------999999999999-9999534899999999999999-99999999999999999999-99999--999999999999999
+i otoGar1.scaffold_85251.1-136255 I 644 I 48
+s tupBel1.scaffold_114895.1-498454 420673 140 - 498454 AGTCAGCAGGTGGCAGGTTTGGCTTTTGTTTAGATTTAGAAACGGGAACATCTTTATTGCCATGC----------TTAGGAGGCTGG-ATTTAGTTTTTCATTTTTCTTAGTCTATAGAGAGATGGAATAG-GGATA--TCGGGGAGTGTGAAA
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999799999999997799999----------999999989999-9999999999999999999999999999999999999999999-99999--999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 52
+s equCab1.chr31 13079372 145 + 24938454 AGTCAGCAGGTGGCAGGGCTGTCCTTTGTTTAGATTTAGAAATGTCAGTGTCTTCATTGCCATTC--TTTTAGCCTTTTGAGCGTCC-ATGTAGCCTTTTATTGCCTTCA-TATGTTAAGAGTTGGGA-GT-GGGGG--TAAG-GAATGTGAAA
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999898999--99999999999999999999-9999999999999999999999-99999999999999999-99-99999--9999-9999999999
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78286784 146 - 125616256 AGTCAGCAGGTGGCAGGGCTGTCCTTTGTTTAGATTTACAAATGTCAACGTCTTCATTGCTATTC--TCTTAGGTTTTTAATTCCCA-ACTTAGCCTTTTATTTCCTTT--TAGTATGAGAATTGGGA-GT-GGGAGATTGGG-GGGCGTTAAG
+q canFam2.chr1 99999999999999999999999999999999999999999999999999999999999999999--99999999999999999999-999999999999999999999--99999999999999999-99-99999999999-9999999999
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13759863 129 - 95030419 AGACAGCAGGGGGCAGGGCAGTCCTTTGTTTAGATCT-GAGATGTCCACAGCCTTGTTGCCAGTCTTTTTTAGGCTTTGACGCCCCAGATGTAGTCTTTTAA---------TATTTGAGATACGGGGT-GT-AGGGG--TGGG-----------
+q bosTau3.chr9 9999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999---------99999999999999999-99-99999--9999-----------
+i bosTau3.chr9 C 0 I 2157
+s sorAra1.scaffold_173811 8025 119 + 14059 AGTCAGCAGGTGGCAGGCCTGTGCCTTGTTTGTCTTTCCAGGTGTCTCCACACGCATGGCCGTCC------------TTGAGCCCTC-GTGGgggcttttcttttcctc------tcgAGAGAAGGGG-GTAAGGAG--TG-------------
+q sorAra1.scaffold_173811 99999999999999999999999999999999999999999999999999999999999999999------------9999999999-999999999999999999999------9999999999999-99999999--99-------------
+i sorAra1.scaffold_173811 C 0 I 1800
+s loxAfr1.scaffold_33178 18947 125 + 41726 CGTCAGCAGGTGGCAGGGCTGTCTTTGGTTTAGATTTAGAAATGTTAACATCCTCATGGCCGTAC----------TTTGCATCCCGG-ATTTAGTCCTCTCCTTCCCTTT-ACTACTGAGAGATAGAGTCT-GGGAG--T--------------
+q loxAfr1.scaffold_33178 99699998992677556747997121327422499962478954479999795977593721212----------434772126235-6868688434234273487842-21789768887999998937-88984--1--------------
+i loxAfr1.scaffold_33178 C 0 n 0
+s ornAna1.chr2 14918178 116 - 54797317 AATCAGCAGGTGGCAGGACTGCTCTTTGTTTAGCTTT-GAGATACTAAACTTGCTCTTATTGCAC-------------------TAG-TTTGTCACTTGCCTTTGCAGTC-TCTGTAGCTTAgtacagtat-aagca--ct-------------
+i ornAna1.chr2 C 0 I 2151
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=286252.000000
+s mm9.chr10 3221431 239 + 129993255 --------------------------------------------------ACTCTCTGACAGCTTTAGAAGCGATGATGTCACTCTGCACATGGC---AACTTAGGAAATAAAAT--AGTGTGACATTGCTGGGATGGAAC-------------------CCATGCCCTGTGGAT--ATATAAA---CTCTG-G-ttttaacctatt--cagaattgtacattagtcaccccagtcgaatcacagaacatt-ccat-accctataa-----------ag-cattctgtacctcttggtccttatggctaattctgcct--ttc-tcagtccct--gagagt
+s rn4.chr1 230039284 224 - 267910886 --------------------------------------------------ACTGGCTGACAGCTTTAGA-GCAATGATGCCTCTCTGCATGCGGC---TGCTTAGGAAGTAAAAT--AGTA--AAGTTGCTGGGATGGAGC-------------------CCTCACACTCTGGAG--ATATAAATCTCGGTG-G-TTTTAACCT--T--CAGAATTCTACGTTAGCCACCATAGCCTAATCACAGGACTTT-CCAT-ACCCTATAA-----------AA--ATTCTGTACCT------------GGCTAATTCTGCCT--TTC-TCAGTCCCT--GAGAGT
+q rn4.chr1 --------------------------------------------------9999999999999999999-9999999999999999999999999---99999999999999999--9999--999999999999999999-------------------999999999999999--999999999999999-9-999999999--9--999999999999999999999999999999999999999999-9999-999999999-----------99--99999999999------------99999999999999--999-999999999--999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 128352 245 - 139458 --------------------------------------------------CTTGTGTGATTGTTTTAGAATACAAGACATTA-TATATACATGAC---CACCt------taaaat--caca--gccttattgggatgtaactcatccagcat--aaa---cttcaccctttaaag--a-atacaattcagtg-gtttttagtatattcacagcattgtgcatcagttacttctctctgactccaggacact-gcatcaccccaaaa-----------ga-aatcccatacctgttag-------cagtcactctgtttcactc-tcagctccc--gacagt
+q oryCun1.scaffold_214769 --------------------------------------------------99999999999999999999999799999999-999999959999---96878------999999--9696--99969999999999999999899999999--999---999999999999999--9-7698699999999-9799999999999996979889999999999899999999999999999957998799-97798799999999-----------79-95889679989699988-------8879977996989768897-975779987--699499
+i oryCun1.scaffold_214769 I 47 I 942
+s ponAbe2.chr6 16440761 250 - 174210431 --------------------------------------------------CTTGCATGATTGTTTTGGA-ATAAAGTTATCCATCTACACACAGC---CACTT---AAAAaaaat--aaca--gttttattgagatataactc--attgcat--gaa---attcagctttttaaa--atatacaatcaggtg-ggttttagtatattcacagagttgtacaccagttgctact-----attccagaacatttttgtcactccaaaa-----------agaaagcttgtgccttttagcagtcactcccaagtccgtcc--ttcctcagcccct--gacagg
+i ponAbe2.chr6 I 50 I 1
+s rheMac2.chr4 108544839 248 + 167655696 --------------------------------------------------CTTGCATGATTGTTTTGGA-ATAAAGGTATCTATCTATACACAGC---CACTT-----TAAAAAT--AACA--GCTTTATTGGGATATAACTC--ATTGCAT--AAG---GTTCAGCCTTTTAAA--ATATACAATCAGGTG-GGTTTTAGTATATTCACAGACTTGTGCACCACTTGCCACT-----ATTCCAGAACATTTTTGTCGCCCCAAAA-----------AGAAACCTTGTGCCTTTTAGCAGTCACTCCCAATTCCATCC--TCCTTCAGCCCCT--GACAGG
+q rheMac2.chr4 --------------------------------------------------9999999999999999999-9999999999999999999999999---99999-----9999999--9999--99999999999999999999--9999999--999---999999999999999--999999999999999-9999999999999999999999999999999999999999-----9999999999999999999999999999-----------99999999999999999999999999999999999999999--9999999999999--999999
+i rheMac2.chr4 I 50 I 1
+s hg18.chr6 16128309 249 - 170899992 --------------------------------------------------CTTGCATGATTGTTTTGGA-ATAAAGGTATCTATCTATACACAGC---CACTT----AAAaaaat--aaca--gttttattgagatataactc--tttgcat--gaa---attcagctttttaaa--atatacagtcaggtg-ggttttagtatattcacggagttgtaccccagttgccact-----attccagaacatttttgtcactccaaaa-----------agaaaccttgtgccttttagcagtcactcccaattccgtcc--ttcttcagcccct--gacagg
+i hg18.chr6 I 50 I 1
+s panTro2.chr6 16651721 249 - 173908612 --------------------------------------------------CTTGCATGATTGTTTTGGA-ATAAAGGTATCTATCTATACACAGC---CACTT----AAAaaaat--agca--gttttattgagatataactc--attgcat--gaa---attcagctttttaaa--atatacagtcaggtg-ggttttagtatattcacagagttgtaccccagttgccact-----attccagaacgtttttgtcactccaaaa-----------agaaaccttgtgccttttagcagtcactcccaattccgtcc--ttcttcagcccct--gacagg
+q panTro2.chr6 --------------------------------------------------9999999999999999999-9999999999999999999999999---99999----99999999--9999--99999999999999999999--9999999--999---999999999999999--999999999999999-9999999999999999999999999999999999999999-----9999999999999999999999999999-----------99999999999999999999999999999999999999999--9999999999999--999999
+i panTro2.chr6 I 50 I 1
+s otoGar1.scaffold_85251.1-136255 22629 269 - 136255 --------------------------------------------------CCTGCACGATTATTTTAGG-ATAAAAG---ATACCTGCCCGTGGC---CACTT---AAAAACaat--aaca--gattgattgggatataactt--acagcataagaa---gttcactcttttaaagtatatgcaattaggca-ttttttagtatattcacagagtcgtgcgccagttaccactctctaattccagaacattatcacaaccctaaaacagaactaaggagaaatcccatagctgtctgcagtcactcccaggtccatcc--ttccccagtacgttggatggt
+q otoGar1.scaffold_85251.1-136255 --------------------------------------------------9999999999999999999-9999999---999999999999999---99999---999999999--9999--99999999999979999999--999999999999---99999999999999999999999999999999-99999999999999999999999999999999999999999999999999899999999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999
+i otoGar1.scaffold_85251.1-136255 I 48 I 1
+s tupBel1.scaffold_114895.1-498454 420865 238 - 498454 --------------------------------------------------CTTGAATGATTGTTTCAGA-ATGAAAGGATCT-------CACTTT---TATTT-----TTAACAT--AACA--GCTTCATGGACACGTAACTTAGATAGCAC--AGA---ACTTACCCTCTTAAG--GCATAAGATGAAATG-GGATTACTTACATTCACAGAACTGTGCATCTGTCA----------GTTCCACAACACTTCTGTCACCTCAAAA-----------AGAAACCCTATACCTGTCCACAGCCACTCCCAATTTCATCC--TTCCCCAGACCTG--GACAGT
+q tupBel1.scaffold_114895.1-498454 --------------------------------------------------9989999999999999999-999999899999-------999999---99999-----9999999--9999--99999999999999999999999999999--999---999999999999999--999999999999999-99999999999999999999999999999999999----------3899999999999999979999999999-----------99999999999999999999997799999999999999999--9999999999999--999999
+i tupBel1.scaffold_114895.1-498454 I 52 I 1
+s canFam2.chr1 78286930 302 - 125616256 TCTGAAAGTGGAG-TCATACTTGACCTCTTCTCTCACCTTCCATATTTCTGTCATATGATCATTTTAGA-ATGAAAAGGTGTCTGTCTACACAGAGGGCACTT---AAAAaaaaa--agca--gctttattgagacagaactcatgtgccat--cgatctgcttaccttgttaaa--gtgtacaattcagagaggttttaatacagtcatagagttgtgtgtccaccagcactgactaaatccagaatatt-ctatcactcccaaa-----------agaaacccc---------tgcaatgattccttgtt-cctcc--ccatgcagctcct--ggcaac
+q canFam2.chr1 9999999999999-9999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999---999999999--9999--99999999999999999999999999999--999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999-----------999999999---------99999999999999999-99999--9999999999999--999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13079517 306 + 24938454 TCGAGATATGAAGAAAATACTGGATGCCCTATCTCACCTTCCACATTTTTCTTCTGTGGTCATTTTAGA-ATGAAAGGTTTCCT-----CACAATGGGCACTT---AAAAAAaaaacaaca--gctttattgaggtataactcacataccat--aaa--tgctcatcct-ttaaa--gtgtacagtttagtg-gtttctggtacattcatagagttgtgcatccatcgccactatctaattccagaacatt-ttatcacatcaaaa-----------agcaaccccagacccattagctgtcagtccacattccctcc--tccttcggtccct--ggcagc
+q equCab1.chr31 999999999999999999999999999999999999999999999999999999999999999999999-99999999999999-----99999999999999---999999999999999--99999999999999999999999999999--999--9999999999-99999--999999999999999-9999999999999999999999999999999999999999999999999999999999-99999999999999-----------99999999999999999999999999999999999999999--9798999999999--999999
+i equCab1.chr31 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13759992 2157 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+
+a score=74129.000000
+s mm9.chr10 3221670 96 + 129993255 -gagtccctggtc--ca------tggatttgc-------cagttttg-----------taagtagatgaa--tacagtatatgactttttTTTTGACAGTGTAACAGGGTATTTCTCAGACTTGA
+s rn4.chr1 230039508 74 - 267910886 -----CCCTAGTC--CA------TGAATTTGC-------CAATTTTG-----------TAAGTAGACATA--TGCAGTATATGA------------------AACAGGATATTTCTCAGACGTGA
+q rn4.chr1 -----99999999--99------999999999-------99999999-----------999999999999--999999999999------------------99999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16441012 97 - 174210431 -actcatctactt--tg------tggatttgc-------ctgttccggacatttcatataaatagactta--tacaacatgtggct----ttttgACAAT------GGGCACTTTTTCGATGTGA
+i ponAbe2.chr6 I 1 I 1737
+s rheMac2.chr4 108545088 72 + 167655696 -ATTCATCTACTT--TG------TGGATTTGC-------CTGTTCTGGACATTTCATATAAATAGACTTA--CACAACATGTGGCTTTTT-----------------------------------
+q rheMac2.chr4 -999999999999--99------999999999-------9999999999999999999999999999999--999999999999999999-----------------------------------
+i rheMac2.chr4 I 1 I 1994
+s hg18.chr6 16128559 79 - 170899992 -actcatctactc--tg------tggatttgc-------ctgttctggacatttcatataaatagactta--tgcaacatgtggct----ttttgACAATG------------------------
+i hg18.chr6 I 1 I 1860
+s panTro2.chr6 16651971 97 - 173908612 -actcatctactt--tg------tggatttgc-------ctgttctggacatttcatataaatagactta--tgcaacatgtggct----ttttgACAAT------GGGCACTTTTTCGATGTGA
+q panTro2.chr6 -999999990999--99------999999999-------9999999999999999999999999999999--99999999999999----9999999999------9999999999999999999
+i panTro2.chr6 I 1 I 3065
+s otoGar1.scaffold_85251.1-136255 22899 83 - 136255 -tctcatctactt--tgagtccatggatttgcctagttgctattctggacatttcatataaatagatgtatctacaatttgtggct---------------------------------------
+q otoGar1.scaffold_85251.1-136255 -999999999999--99999999999999999999999999999999999999999999999999999999999999999999999---------------------------------------
+i otoGar1.scaffold_85251.1-136255 I 1 I 847
+s tupBel1.scaffold_114895.1-498454 421104 73 - 498454 -ATTAACCT-CTT--CGTGTTTATGGGTTTGC-------CTGTTCTGGACACCTCACATAAATAGGTTTG--TACGATGTATATCT---------------------------------------
+q tupBel1.scaffold_114895.1-498454 -99999931-159--99999999999999999-------9999999999999999999999999999999--99999999999999---------------------------------------
+i tupBel1.scaffold_114895.1-498454 I 1 I 912
+s canFam2.chr1 78287232 97 - 125616256 cactaatctgctt--tgtctc--tggactttt-------gtactctcaacgtttcatttaaatagactcc--tacaatatgtggtt----ctttgacaat------gggtacttcttAAA-----
+q canFam2.chr1 9999999999999--999999--999999999-------9999999999999999999999999999999--99999999999999----9999999999------99999999999999-----
+i canFam2.chr1 C 0 I 739
+s equCab1.chr31 13079823 86 + 24938454 cactaatctactttctgtctctgtggatttgc-------ctattctggacgtttca--tatacagacttg--tacgatatgtcgct----ttttgACAATG------------------------
+q equCab1.chr31 99999999999999999999999999999999-------99999999999999999--999999999999--99999999999999----99999999999------------------------
+i equCab1.chr31 C 0 I 750
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13759992 2157 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=35372.000000
+s mm9.chr10 3221766 916 + 129993255 GCAAGGGATACACAGGCAGGGAGATAAATCAAGGTGAAAAGCTTTTGGTCAGAAATGCTGGGAGACAGGAGGCTTTCATTAAGGATTCCCCACGGTTTTAATGACAATGTTTGCTGACTCAGGGACACATCTGAACATTTTTTTGTGAAGCTGTGTTTTCTTCCCAGTCTGAAGCACTTGACTTTAAAGCATCTTT-ACTTCTAGAAAAGACACTCTGATAATTGGAACCATTGTGTATTGGCTTTTATCTTTAAATAGAGTGCTTTAAAAATtatatgtatatgtatctatgtatgaatgtgtgtgtatgtatatCAGttattattttaaattttaaatttaaattatattttGACCAAACCCTTTCCCTCCCCCATATCCTTCCAGATCTTCTCCTGCCTCCTACCCACCCAGGTTTAAATTCTTTCTC [...]
+s rn4.chr1 230039582 763 - 267910886 GCAAGGGACACACTGGCAGAGAGATACATGAGGGTGAAAAGAGTTTGTTCAGCAGTGCTGGGAGACAGGAGTCTTTCCTTAAGAACTCCCCTCGGTTTTAATGACAGTGTTTGTTGGCTCAGGCACACCTCTGAGCATTCTTTCATGAGGCCGTGTTTTCTTCTTAGTCTGAAGCACTTGACTTTAAAGCATTTTTTACTTCTAGAACAGAC--TCTGATCATTAGAATCATTATATATTGGCTTTTCCCCTTAAATGAAGGGTTTTTAAAATtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtATA----------ATTTTAAACAGTTTTTCAATTTAAATATATTTTGACCACACCCTTCCCCTCACCCATGTCCTTCCAGATCCTCTCTTGCTTCCCACCTACCCAG------ATTGTTTCTC [...]
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------9999999999 [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13759992 2157 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13079909 750 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78287329 739 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3222682 108 + 129993255 cctgcttcctggccctggcatttccctgtactggggcatatgatcttcacaagaccaagggcctctcttcccattgatggctgactaggtcatcctcagctacatatt
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e rn4.chr1 230040345 0 - 267910886 C
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13759992 2157 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13079909 750 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78287329 739 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=40474.000000
+s mm9.chr10 3222790 795 + 129993255 tattttatgtatgagtgttttatctgtatgtacacgtgcatgccagaagagggcatcagattccagaatagatggttctgagccaccatgtggttgctgggtattgaactcaggacctctggaagagcagatagtggtcttaatagctgaaccatctctccaatcccccttccttccttccttccttccttccttccttccttccttccttccttcatttcttccttcatttcttccttccttccttctttccttccttccttccttccttccttccttccttccttccttccttccttccttccATTTGAAaaaattaaatgtaagattgaaaaaaaattaccacattgaagttggataagacaaaccaacagaaggaaaagagcccaagagaaggcacgaggatcagagagccactcttttgcacactc [...]
+s rn4.chr1 230040345 732 - 267910886 tattttatgtaggagtgctctatctatatgtacacctgcatgccagaagagggtatcagttcctagaatagatggttgtgagccaccatgtggttgctgggaattgaactc------tctggaagagcagacagtgctcttaaccactgaaccatctctccaacccta---------------------------------------------------------------------ttccttccttcttccctctctccttccctccctttctccctcccattcatt-------------taaaagataaaaaaattaagtgtaagattaataaaaaatgatctcattgaagtcagacaagacaaaccaacagaagttaaagagccca-gagaaggca-gaggatcagagacccactcatttgcacactc [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999------999999999999999999999999999999999999999999999999999---------------------------------------------------------------------999999999999999999999999999999999999999999999999999-------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999-9999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13759992 2157 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13079909 750 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78287329 739 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=6754.000000
+s mm9.chr10 3223585 42 + 129993255 AAGCAATGATAGAAACACATTTTTTTCCATCTTTGGTTTATT
+s rn4.chr1 230041077 41 - 267910886 AGGGATAGAAAGAAACACATTTTTTTTC-TATTTGCTTTATT
+q rn4.chr1 9999999999999999999999999999-9999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13080659 42 + 24938454 AAGGAGTGATAGAATTATGTGGCTTTCTCTCTTTGTCTTTTG
+q equCab1.chr31 999999999999999999999999999999999999999999
+i equCab1.chr31 I 750 C 0
+s bosTau3.chr9 13762149 38 - 95030419 AAGGAGTGATAGCATTACAAGATTT----TCTTTGTTTTTTG
+q bosTau3.chr9 9999999999999999999999999----9999999999999
+i bosTau3.chr9 I 2157 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78287329 739 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=11577.000000
+s mm9.chr10 3223627 61 + 129993255 ATTTTAAGTAGAGTTATGCAAAT-----ATAAAGGTAAAG--CATTCCGGC--TCTCCTATTCTGCTGGG
+s rn4.chr1 230041118 52 - 267910886 ATTTTAA---------TGGAAAT-----ATAAAGGCAAAC--AGTTCTGGG--TCTCCAGTTCTGCTGGA
+q rn4.chr1 9999999---------9999999-----999999999999--999999999--99999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78288068 68 - 125616256 ATTTCAAGTGAAATTATGAAAATATCTTGCACTGGTAAAAATAGTGCAGGC--TCTCTGATTTTGCTCTG
+q canFam2.chr1 999999999999999999999999999999999999999999999999999--99999999999999999
+i canFam2.chr1 I 739 C 0
+s equCab1.chr31 13080701 68 + 24938454 ATTTCAAGTGAAATTATGAAAAT-TCTGACACTGCTAAGGA-AGCGCCAGCATGCTGTGAATCTGTTCTG
+q equCab1.chr31 99999999999999999999999-99999999999999999-9999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13762187 65 - 95030419 ATCTCAAGTGAAATTATGAAAA--TCCTATACTGATTAAAA-AGGGCAGGC--TCACTGATTCTTCTCTG
+q bosTau3.chr9 9999999999999999999999--99999999999999999-999999999--99999999999999999
+i bosTau3.chr9 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 105172 5254 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=25013.000000
+s mm9.chr10 3223688 37 + 129993255 CCATTGTGTTACCTCTTGGTCGTTGAAGGAACCTGAA
+s rn4.chr1 230041170 37 - 267910886 CCATCGTGTTACCTCTTGGTTGCTAATGGAGCCTGAG
+q rn4.chr1 9999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 110426 37 - 523245 CCCTTGTGTTACGTCTCAGGCGCTAAAGCAGCCTGAA
+i calJac1.Contig1260 I 5254 I 468
+s canFam2.chr1 78288136 35 - 125616256 CCCTTTTGTTGCCTCTCAGGTGTAAAAGCAGCCTG--
+q canFam2.chr1 99999999999999999999999999999999999--
+i canFam2.chr1 C 0 I 195
+s equCab1.chr31 13080769 36 + 24938454 CCC-TTCGTTACCTCTTAGGTGTGAAAGCAACCTGAA
+q equCab1.chr31 999-999999999999999999999999999999999
+i equCab1.chr31 C 0 I 195
+s bosTau3.chr9 13762252 37 - 95030419 CCCCCGTGTTACCTCTCAGATAGAAAAGCAGCCTGAA
+q bosTau3.chr9 9999999999999999999999999999999999999
+i bosTau3.chr9 C 0 I 176
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=110033.000000
+s mm9.chr10 3223725 2064 + 129993255 tatattagccacttcatgtcatattactgaaaactcttacagaaacaactttagaga--aatgtttatttggatcacagtttcaggt-gtcatgtgaggaaagtgtggcagaaaggctctgacctgaggcaggaggaggctgaggtggaagcatgcttacctggtgatagaccaggaagcagagagcagctggaaccaggagctggactgtacccttccaaagcttaccccaaatgacct-cttgtcagctgggtcccgcctcttaaagctcccacagttcctcaaagcagcagcagaagctggggcactattactaagaacacaaacccctggggaacattgcgcagtcttaccacaacattccatccctgttttcctaaggctcgcttccaccttataatacacaaggcatccacgccagcccatcat [...]
+s rn4.chr1 230041207 2159 - 267910886 tacattggccacttcatgtcacgtgaccaacaaacctgacagaaacaactttagagaggaaagtttatttgggtcagagtttcagttcatcatgtgggaaaagcgtggcagggaggctctgac-tgtggcatgaggagcctgaggtgggagt-tgtttacatgcagatagaccagaaagcag----ctgctggaaccaggagctggactgtattcctcaaaaccttacgcctcatgacccgcctgccagccgggtcccacctcctaaagcttccacagttcctcagagcaggagcagaagccagggcacgagtactaagaacataagcccctggggaacactgcaaaatcttaccacagcattccatccctgtcttcctcaggctcgcttccaccttataatacacaaggcatctgtgccagcccatcac [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999-99999999999999999999999999999----9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 C 0 C 0
+e tetNig1.chr10 10167563 63 - 12859810 I
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e fr2.chrUn 66180893 77 + 400509343 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13762289 176 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13080805 195 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78288171 195 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 110463 468 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=2088.000000
+s mm9.chr10 3225789 43 + 129993255 CGAACCATCATAACGCTGATGGCAAACCCCTGTGGTTCTCTTT
+s rn4.chr1 230043366 40 - 267910886 GAAACCGT---AACGCCGATGGTGAACCTCTGTGGTTGTCTTG
+q rn4.chr1 99999999---99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s fr2.chrUn 66180970 34 + 400509343 CGGCCCATCTCCATGCCAGCGG-ACACCTGTCTGG--------
+i fr2.chrUn I 77 C 0
+s tetNig1.chr10 10167626 34 - 12859810 CGGCCCATCTCCATGCCCGCAG-ACACCTGTCTGA--------
+i tetNig1.chr10 I 63 C 0
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13762289 176 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13080805 195 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78288171 195 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 110463 468 - 523245 I
+e tupBel1.scaffold_114895.1-498454 421177 912 - 498454 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e cavPor2.scaffold_284118 115531 2411 - 169015 I
+e otoGar1.scaffold_85251.1-136255 22982 847 - 136255 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+e oryCun1.scaffold_214769 128597 942 - 139458 I
+
+a score=-14137.000000
+s mm9.chr10 3225832 49 + 129993255 GGAGGGCCAAGCCCTTCAT---------AGGTCTTTG----CAGGGC-AGAGAGCTGGGTATG
+s oryCun1.scaffold_214769 129539 29 - 139458 ----------------------------AAGCCCATC----CAGGG--AGAGAGCAGGGTGTG
+q oryCun1.scaffold_214769 ----------------------------996797686----93999--989998764997979
+i oryCun1.scaffold_214769 I 942 C 0
+s cavPor2.scaffold_284118 117942 12 - 169015 ---------------------------------------------------GAGCTGGGTGCC
+q cavPor2.scaffold_284118 ---------------------------------------------------786748976339
+i cavPor2.scaffold_284118 I 2411 C 0
+s tupBel1.scaffold_114895.1-498454 422089 22 - 498454 -----------------------------------TG----CAGGGA-GGAAAGCAGGGCGT-
+q tupBel1.scaffold_114895.1-498454 -----------------------------------99----999999-99999999999999-
+i tupBel1.scaffold_114895.1-498454 I 912 C 0
+s otoGar1.scaffold_85251.1-136255 23829 59 - 136255 GGTGGGCTGGATCATGTGTGAGGTTTTGTAGCCCATC----CAGGCAGGGAGAGCAGGGGATG
+q otoGar1.scaffold_85251.1-136255 9999999999899999999999999999999999899----9999999999998999999999
+i otoGar1.scaffold_85251.1-136255 I 847 C 0
+s rn4.chr1 230043406 49 - 267910886 TGGGCCAAGGGTCTTTTAT---------AGGTCTTTG----CAGGGC-AGAGAGCTGGGTGTG
+q rn4.chr1 9999999999999999999---------999999999----999999-999999999999999
+i rn4.chr1 C 0 C 0
+s fr2.chrUn 66181004 50 + 400509343 GGGTGACGGACCCCTACGC---------TAAACCCTGGGCACAGGGC-AGGAA---AGGTATT
+i fr2.chrUn C 0 C 0
+s tetNig1.chr10 10167660 50 - 12859810 GGGTGACAGACCCCTACGC---------TAGGCCCTGGGCCCAGGGA-AGGAA---AGGTCTG
+i tetNig1.chr10 C 0 C 0
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13762289 176 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13080805 195 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78288171 195 - 125616256 I
+e ornAna1.chr2 14918294 2151 - 54797317 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 110463 468 - 523245 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+
+a score=-54454.000000
+s mm9.chr10 3225881 33 + 129993255 CATGTGTTTGGT---GGCAG-TGTGGTGTTAGAT--------------------CT-G
+s rn4.chr1 230043455 29 - 267910886 ----TGGTCACT---TGCAG-CACGGTGTTAGGT--------------------CT-G
+q rn4.chr1 ----99999999---99999-9999999999999--------------------99-9
+i rn4.chr1 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 23888 30 - 136255 ---GTGCCCACT---GTCAG-AGTGGTGGCTGAA--------------------GT-C
+q otoGar1.scaffold_85251.1-136255 ---998999999---99999-9999999999999--------------------99-9
+i otoGar1.scaffold_85251.1-136255 C 0 I 17
+s tupBel1.scaffold_114895.1-498454 422111 29 - 498454 ---GTG-CGACT---CTCAC-AGTGGCGTCAGGA--------------------GT-G
+q tupBel1.scaffold_114895.1-498454 ---999-99999---99999-9999999999999--------------------99-9
+i tupBel1.scaffold_114895.1-498454 C 0 I 9
+s cavPor2.scaffold_284118 117954 53 - 169015 -ACATGCATGCC---TGTGGCCTTGGTGTCTGTTTTTTCCCACATGATGACTTGCT-G
+q cavPor2.scaffold_284118 -66956664449---77554373958557567699998599676686565625565-6
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 129568 28 - 139458 ---GTGGCTGC-----GCTA-GTTGGCACAGGTG--------------------CC-C
+q oryCun1.scaffold_214769 ---96998877-----6969-7989867866996--------------------88-7
+i oryCun1.scaffold_214769 C 0 C 0
+s ornAna1.chr2 14920445 26 - 54797317 CATGTGCTTGA-----GATG-CATGATACCTT--------------------------
+i ornAna1.chr2 I 2151 I 3
+s fr2.chrUn 66181054 27 + 400509343 --CCCGTCTCAT------AG-TTTTCCATCAG----------------------CTgc
+i fr2.chrUn C 0 I 23
+s tetNig1.chr10 10167710 32 - 12859810 --CCTGTGTGCTGTCACCAA-CACGCCAACAT----------------------CT-T
+i tetNig1.chr10 C 0 I 19
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e oryLat1.chr24 23279279 0 + 24165179 I
+e xenTro2.scaffold_2 3924775 1171 + 7803671 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13762289 176 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13080805 195 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78288171 195 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 110463 468 - 523245 I
+e echTel1.scaffold_21342 1405 2417 - 5330 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+
+a score=-78095.000000
+s mm9.chr10 3225914 24 + 129993255 GGGGTTCTTGTCCTGATAG----------TTTGT
+s ornAna1.chr2 14920474 21 - 54797317 GAAGTTCTCCCGGCAATATAT-------------
+i ornAna1.chr2 I 3 C 0
+s echTel1.scaffold_21342 3822 23 - 5330 -----GGTTGCTGTAATGGTGGT------GTTGG
+q echTel1.scaffold_21342 -----999999999999999999------99999
+i echTel1.scaffold_21342 I 2417 C 0
+s tupBel1.scaffold_114895.1-498454 422149 28 - 498454 CAGTGGGTTATCTTAACCGACTT------ACGGA
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999------99999
+i tupBel1.scaffold_114895.1-498454 I 9 C 0
+s otoGar1.scaffold_85251.1-136255 23935 28 - 136255 TGGATGGTTATTTTAATAGAATT------GTGGG
+q otoGar1.scaffold_85251.1-136255 99999999999999999999999------99999
+i otoGar1.scaffold_85251.1-136255 I 17 C 0
+s calJac1.Contig1260 110931 22 - 523245 GGGATTGTGATTTTAATGGATT------------
+i calJac1.Contig1260 I 468 C 0
+s cavPor2.scaffold_284118 118007 28 - 169015 TGGATAGCTGTTTTAACGGACTC------GTGGG
+q cavPor2.scaffold_284118 23686665675999543875473------54485
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 129596 27 - 139458 TGGGTTGTTCTTTTAATACACT-------GTGGG
+q oryCun1.scaffold_214769 6999899776499786666569-------96999
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230043484 34 - 267910886 GGAGTTCTTGTTCTGATAGACTATTCTTTCTGGT
+q rn4.chr1 9999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s xenTro2.scaffold_2 3925946 9 + 7803671 ------------ATTATTTTT-------------
+i xenTro2.scaffold_2 I 1171 C 0
+s oryLat1.chr22 12886963 13 - 28810691 AGGGTTGAT----GTGT-----------------
+q oryLat1.chr22 999999999----9999-----------------
+i oryLat1.chr22 I 715 C 0
+s fr2.chrUn 66181104 17 + 400509343 AAGGTTGCTCACGGCGT-----------------
+i fr2.chrUn I 23 C 0
+s tetNig1.chr10 10167761 15 - 12859810 --GGTTGTTGATGGCGT-----------------
+i tetNig1.chr10 I 19 C 0
+s danRer5.chr20 555233 9 - 56528676 --------ATAAGTTGT-----------------
+i danRer5.chr20 N 0 C 0
+e gasAcu1.chrXV 12523131 453 - 16198764 I
+e anoCar1.scaffold_0 8828048 635 + 16654889 I
+e galGal3.chr3 61594146 1412 - 113657789 I
+e bosTau3.chr9 13762289 176 - 95030419 I
+e monDom4.chr2 106277227 2135 - 541556283 I
+e equCab1.chr31 13080805 195 + 24938454 I
+e rheMac2.chr4 108545160 1994 + 167655696 I
+e sorAra1.scaffold_173811 8144 1800 + 14059 I
+e eriEur1.scaffold_241672 6016 3891 - 11555 I
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e felCat3.scaffold_217398 148533 5666 - 219823 I
+e canFam2.chr1 78288171 195 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e hg18.chr6 16128638 1860 - 170899992 I
+e panTro2.chr6 16652068 3065 - 173908612 I
+e ponAbe2.chr6 16441109 1737 - 174210431 I
+
+a score=958964.000000
+s mm9.chr10 3225938 57 + 129993255 CT---TTGCTT----------GAAAACAGGGGAAGATGCCCTCTGCCGGTACTTCAGCAATGAGCGGATC
+s ornAna1.chr2 14920495 60 - 54797317 CTCAACTGTCT----------CCCTACAGGTGATGATGTCCTCTGCAGGTATTTCAGTAATGAGAGGATA
+i ornAna1.chr2 C 0 C 0
+s calJac1.Contig1260 110953 55 - 523245 -----TTGTCT----------GGAAACAGGGGAAGACGCCCTTTGCCGGTATTTCAGTAATGAGCGGATT
+i calJac1.Contig1260 C 0 C 0
+s monDom4.chr2 106279362 55 - 541556283 -----ttattt----------taaaaCAGGCGAAGATGCCCTATGCAGGTATTTCAGTAATGAGAGGATA
+q monDom4.chr2 -----999999----------9999999999999999999999999999999999999999999999999
+i monDom4.chr2 I 2135 C 0
+s rn4.chr1 230043518 57 - 267910886 CT---TCGTTT----------GACAACAGGGGAAGACGCCCTGTGCCGGTACTTCAGCAATGAGCGCATT
+q rn4.chr1 99---999999----------9999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 129623 57 - 139458 CT---CTGTCT----------GAAAACAGGGGAAGAAGCTCTTTGCCGGTATTTCAGTAACGAGCGGATT
+q oryCun1.scaffold_214769 66---679968----------8799793699987786568679996976768967656669686686977
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118035 57 - 169015 CT---TTGTCT----------GGACACAGGGGAAGATGCCCTTTGCCGGTACTTCAGTAACGAGCGGATC
+q cavPor2.scaffold_284118 65---986694----------6667676576749653559659663868545497756476666669254
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108547154 57 + 167655696 CT---TTGTCC----------GTCAACAGGGGAGGACGCCCTTTGCCGGTATTTCAGTAACGAGCGGATT
+q rheMac2.chr4 99---999999----------9999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 1994 C 0
+s ponAbe2.chr6 16442846 57 - 174210431 CT---TTGTCT----------GGAAACAGGGGAGGATGCCCTTTGCCGGTATTTCAGTAATGAGCGGATT
+i ponAbe2.chr6 I 1737 C 0
+s panTro2.chr6 16655133 57 - 173908612 CT---TTGTCT----------GGAAACAGGGGAGGATGCCCTTTGCCGGTATTTCAGTAACGAGCGGATT
+q panTro2.chr6 99---999999----------9999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 3065 C 0
+s hg18.chr6 16130498 57 - 170899992 CT---TTGTCT----------GGAAACAGGGGAGGATGCCCTTTGCCGGTATTTCAGTAACGAGCGGATT
+i hg18.chr6 I 1860 C 0
+s otoGar1.scaffold_85251.1-136255 23963 57 - 136255 CT---TTGTCT----------GAAAACAGGAGAAGACGCCCTTTGCCGGTATTTCAGTAACGAGCGGATA
+q otoGar1.scaffold_85251.1-136255 99---999999----------9999999999999999889999999999999999999999999999998
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422177 57 - 498454 CT---TTGTCT----------GAAAACAGGGGAAGACGCCCTTTGCCGGTATTTCAGTAATGAACGGATC
+q tupBel1.scaffold_114895.1-498454 99---999999----------9999999999999999999999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13762465 57 - 95030419 CT---TTATCC----------GATAACAGGTGAGGATGCCCTCTGCCGGTATTTCAGTAACGAGCGTATC
+q bosTau3.chr9 99---999999----------9999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 176 C 0
+s equCab1.chr31 13081000 57 + 24938454 CT---TTGTCT----------GCAAACAGGTGAGGACGCCGTTTGCCGGTATTTCAGCAATGAGCGGATC
+q equCab1.chr31 99---999999----------9990999999999999999099999999999999999999999999999
+i equCab1.chr31 I 195 C 0
+s felCat3.scaffold_217398 154199 57 - 219823 CC---TTGTCT----------GAAAACAGGTGAGGACGCCCTCTGCCGGTATTTCAGCAATGAGAGGATC
+q felCat3.scaffold_217398 99---999996----------8999999999698999499999999989999999949659995989999
+i felCat3.scaffold_217398 I 5666 N 0
+s canFam2.chr1 78288366 57 - 125616256 CT---TTGTCT----------GGAAACAGGTGAGGACGCCCTCTGCCGGTATTTCAGTAATGAGCGGATC
+q canFam2.chr1 99---999999----------9999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 195 C 0
+s eriEur1.scaffold_241672 9907 56 - 11555 -T---TTGTCT----------GTCCACAGGTGAGGATGCTCTCTGCAGGTACTTCAGCAACGAGCGCATC
+q eriEur1.scaffold_241672 -9---999999----------9999999999999999999999999999999999999999999999999
+i eriEur1.scaffold_241672 I 3891 C 0
+s echTel1.scaffold_21342 3845 54 - 5330 CT---TTGTCT----------G---ACAGGTGAGGACGCCCTTTGTCGGTACTTCAGCAATGAGCGGATC
+q echTel1.scaffold_21342 99---999999----------9---999999999999999999999999999999999999999999999
+i echTel1.scaffold_21342 C 0 C 0
+s galGal3.chr3 61595558 45 - 113657789 -------------------------ACAGGTGAAGATGTCCTCTGCAGGTACTTCAGTAATGAAAGGATA
+i galGal3.chr3 I 1412 C 0
+s sorAra1.scaffold_173811 9944 45 + 14059 -------------------------ACAGGGGAGGACGCCCTCTGCCGGTACTTCAGCAACGAGCGGATc
+q sorAra1.scaffold_173811 -------------------------999999999999999999999999999999999999999999999
+i sorAra1.scaffold_173811 I 1800 C 0
+s xenTro2.scaffold_2 3925955 54 + 7803671 -----TTTTCT----------TTTAA-AGGTGAAGGGGTTCTTTCCAGGTATTTCAGTAATGAACAAATA
+i xenTro2.scaffold_2 C 0 C 0
+s tetNig1.chr10 10167776 52 - 12859810 CT---CTGTTT---------------CAGGCGAGGACCTGCTCTACAGATACCTGAGCAACGAGAGGATC
+i tetNig1.chr10 C 0 C 0
+s fr2.chrUn 66181121 52 + 400509343 CT---CCGTTT---------------TAGGCGAGGACCTTCTCTACAGATACCTGAGCAACGAGAGGATC
+i fr2.chrUn C 0 C 0
+s oryLat1.chr22 12886976 56 - 28810691 CT---TTTTGTGCTT-----------TAGGTGAAGACCCCCTGTACCGATACATGAGTAACGAGCGAATC
+q oryLat1.chr22 99---9999999999-----------99999999999999999999999999999999999999999999
+i oryLat1.chr22 C 0 C 0
+s danRer5.chr20 555242 58 - 56528676 CT---CTTGTC----TACCTT-----CAGGTGATGAGCTGTTGCACAGGTATCTGAGCAACGAGCAGATC
+i danRer5.chr20 C 0 C 0
+s gasAcu1.chrXV 12523584 44 - 16198764 --------------------------CAGGTGAGGACCTCCTGTACAGATACCTGAGCAACGAGAGGATC
+q gasAcu1.chrXV --------------------------99999999999999999999999999999999999999999999
+i gasAcu1.chrXV I 453 C 0
+s anoCar1.scaffold_0 8828683 44 + 16654889 --------------------------CAGGTGAAAACGTTCTCTGCCGCTACTTCAGCAATGAGAGAATT
+q anoCar1.scaffold_0 --------------------------99999999999999999999999999999999999999999999
+i anoCar1.scaffold_0 I 635 C 0
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=3159196.000000
+s mm9.chr10 3225995 218 + 129993255 ACACCCATCACTGAAGAAAGTGCCTCTCCTATGTACCGGTTCTCTAGACCCCTGACTGAGCGGCACCTGGTCCGAGGTGCGGACTACATCCGAGGGAGCAGGTGCTACATCAACTCCGACCTACACAGCAGTGCCACCATTCCATTCCAGGAGGAAGGTTCCAAGAAGAAATCAGC----CTCCTCA--------TCGGCCAAG---------------GCGTCCTCTGGGGAGCCGTCGCTGCT
+s rn4.chr1 230043575 218 - 267910886 ACACCCATCATTGAAGAAAGTGCCTCTCCCGTGTACCGGTTCTCCAGACCCCTGACTGAGCGGCATCTGGTTCGAGGTGCGGACTACATCCGAGGGAGCAGGTGCTATATCAACTCTGATCTACACAGCAGCGCCACCATTCCATTCCAGGAGGAAGGGCCCAAGAAGAAGTCGGC----CTCCTCA--------TCGGCCAAG---------------GCGTCTTCTGGGGAGCCGTCGCTGTT
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 129680 215 - 139458 CCTCCCATCATTGAAGAAAGCGCCTCTCCCTCCTACCGCTTCTCCAGGCCCGCCACGGAGCGGCATCTGGTGCGGGGTGCAGACTACATCCGCGGGAGCAGGTGCTACATCAACTCCGATCTGCACAGCAGCGCCACCATCCCATTCCAGGAGGAGGGGACCAAAAAGAAATCCGG----CAGCTCA--------GCAGCCAAG---------------TCCTCCAC---GGAGCGGTCCGTGCT
+q oryCun1.scaffold_214769 78779936876976969996556795639679997698499798999999964987999677884967998898559769799998978997699989999999795649999599999977998999999999978949999799899997999999969999989999489998----8998999--------999899995---------------89898979---999999889999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118092 197 - 169015 CCACCCATCATCGAAGAGAGCGCTTCTGCAGGATGCAGGTTCTCCAGGCCTGCAGCTGAGAGGCAGCTGGTGCGCGGTGCTGACTACATCCGTGGGAGCAGGTGCTACATCAATGCTGACCCGCACAGCAGCGCCACCATCCCGTTCCCGGAGGAAGGGACCAAGAAGAAGGCCGC----CTCCGC--------------------------------------------GGAGCCGTCCCTGCT
+q cavPor2.scaffold_284118 99559965666465976585453693326648635666439655976438275655649673664635355574459668484845745496449765667956576969969988994492878974375339948969999989999997897569953969999999952965----999965--------------------------------------------999669559966896
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 111008 212 - 523245 CCTCCGATCATCGAAGAGAGCTCTTCTCCCCATTACCGGTTCTCCAGACCCACGACCGAGCGGCATTTGGTCCGAGGTGCGGACTACATCCGAGGAAGCAGGTGCTACATCAATTCAGATCTCCACAGCAGCGCCACAATCCCATTCCAGGAGGAAGGGACCAAAAAGAAATCTGG----CTCCTCA--------ACCACAAAG---------------------TCCACAGAGCCGTCCCTCCT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108547211 218 + 167655696 CCCCCGATCGTCGAAGAGAGCTCCTCTCACCCATACCGGTTCTCCAGACCCACGACCGAGCGGCATCTGGTCCGGGGTGCGGACTACATCCGAGGAAGCAGGTGCTACGTCAACTCAGATCTCCACAGCAGCGCCACGATTCCGTTCCAGGAGGAAGGGACCAAAAAGAAATCGGG----CTCCTCA--------GCTACGAAG---------------TCCTCGTCCACAGAACCGTCCCTCCT
+q rheMac2.chr4 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16442903 218 - 174210431 CCTCCGATCATCGAAGAGAGCTCCTCTCCCCCATACCGGTTCTCCAGACCCACGACCGAGCGGCATCTGGTCCGGGGTGCGGACTACATCCGAGGAAGCAGGTGCTACATCAACTCAGATCTCCACAGCAGCGCCACGATTCCATTCCAGGAAGAAGGGACCAAAAAGAAATCTGG----CTCCTCA--------GCTGCGAAG---------------TCCTCATCCACAGAACCGTCCCTCCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16655190 218 - 173908612 CCTCCGATCATTGAAGAGAGCTCCTCTCCCCCATACCGGTTCTCCAGACCCACGACCGAGCGGCATCTGGTCCGGGGTGCGGACTACATCCGAGGAAGCAGGTGCTACATCAACTCAGATCTCCACAGCAGCGCCACGATTCCATTCCAGGAGGAAGGGACCAAAAAGAAATCTGG----CTCCTCA--------GCTACGAAG---------------TCCTCGTCCGCAGAACCGTCCCTCCT
+q panTro2.chr6 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16130555 218 - 170899992 CCTCCGATCATTGAAGAGAGCTCCTCTCCCCCATACCGGTTCTCCAGACCCACGACCGAGCGGCATCTGGTCCGGGGTGCGGACTACATCCGAGGAAGCAGGTGCTACATCAACTCAGATCTCCACAGCAGCGCCACGATTCCATTCCAGGAGGAAGGGACCAAAAAGAAATCTGG----CTCCTCA--------GCTACGAAG---------------TCCTCGTCCACAGAACCGTCCCTCCT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24020 233 - 136255 CCCCCCATCGTCGAAGAGAGCTCCTCTGTCCCGCACCGGTTCTCCAGACCCACGACGGAGCGGCAGCTGGTCCGTGGTGCAGACTACATCCGAGGAAGCAGGTGCTACATCAACTCAGATCTCCACAGCAGCGCCACGATTCCATTCCAGGAGGAAGGGACCAAAAAGAAATCTGT----CTCCTCA--------GCCTCGAAGTCCTCGGCCTCAAAGTCCTCGTCCACGGAACCGTCCCTGCT
+q otoGar1.scaffold_85251.1-136255 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999899999999999999999999989----9999999--------99999999899999999999999889999999999999999569999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422234 218 - 498454 CCTCCCATCATTGAAGAGAGCCCCTCTCCCCAGTACCGGTTCTCCAGACCCACCACTGAGCGGCACTTGGTCCGAGGTGCAGACTACATCCGGGGGAGCAGGTGCTACATCAACTCGGATCTCCACAGCAGTGCCACGATTCCATTCCAGGAGGAAGGGACCAAAAAGAAATCTGT----CTCGTCA--------ACCACGAAG---------------GCCTCCTCCACAGAGCCCTCCCTCCT
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999699999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 9963 209 - 11555 CCGCCCATTGTGGAGGAGAG---CTGTCCTCAGTACCGCTTCTCCAGGGCCCCAGTGGAGAGGCAGCTGGTGAGGGGTGCCGACTACATCCGGGGCAGCAGGTGCTACCTCAATTCGGATCTCCACAGCAGCGCCACCATCCCGTTCCAGGAGGAAGGGACCAAAAAGAAAGCCGT----GTCCACG--------GGGGCCAAG---------------------TCCACTGAACCCTCCTTGTT
+q eriEur1.scaffold_241672 99999999999999999999---999999999999999799999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999946868998999999999999999999999999999959932----3698579--------999499997---------------------79997689499979865694
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 9989 218 + 14059 ccccccATCATCGAGGAGAGCGTCTCTCCGCATTACCGCTTCTCCAGGCCGGCGGGCGAGCGGCAGCTGGTGCGCGGCGCAGACTACATCCGCGGCAGCCGGTGCTACATCAACTCGGATCTGCACAGCAGCGCCACTATGCCCTTCCAGGAGGAGGGCACCAAAAAGAAGCCCGG----CGCCCCG--------GGGGCCAAG---------------GCCTCCTCCACAGAACCGTCCCTGCT
+q sorAra1.scaffold_173811 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999998999999999999999999999999999----9999999--------999999999---------------99999999978999999999999999
+i sorAra1.scaffold_173811 C 0 C 0
+s canFam2.chr1 78288423 218 - 125616256 CCCCCCATCATCGAAGAAAGCTCCTCAGCCCCATACCGGTTCTCAAGGCCCCCAGCGGAGAGGCAGCTGGTCCGGGGCGCAGACTTTGTCCGGGGCAGCAGGTGCTACATCAGTTCGGATCTCCACAGCAGCGCCACCATCCCGTTCCAGGAGGAGGGGACCAGAAAG-AAGCCGGCCTCCTCCTCA--------GCGGCCAAG---------------GCC---TCTACAGAACCGTCCCTGCT
+q canFam2.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999--------999999999---------------999---99999999999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13081057 218 + 24938454 CCTCCGATCATCGAAGAAAGCGCCTCTCCTCCCTACCGTTTCTCAAGACCCACGCCGGAGAGGCAGCTGGTCCGAGGCGCAGACTACATCCGAGGGAGCAGGTGCTACATCAGTTCAGATCTCCATAGCAGCGCCACGATTCCATTCCAGGAGGAAGGGACCAAAAAGAAAGCCGG----CTCCTCC--------GCAGCCAAG---------------TCCTCTTCTACAGAGCCGTCCCTGCT
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13762522 218 - 95030419 CCTCCCATCCTCGAAGAAAGCTCCTCGCCCACGTACCGCTTCTCAAGGCCCGGGACCGAGAGGCAGCTGGTCCGAGGCGCAGACTACATCCGAGGCAGCAGGTGCTACATCACTTCGGATCTCCACAGCAGCGCCACGATTCCGTTCCCGGAAGAAGGGACCAAAAAGAAAGCCGG----CTCCTCG--------GCCGCCAAG---------------TCCTCGTCTCCAGAACCATCCCTGCT
+q bosTau3.chr9 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s echTel1.scaffold_21342 3899 215 - 5330 CCTCCCATTGTGGAAGAACGCGCCTCCCCGGCCTACCGCTTCCCCAGACCTGCA---GAACGGCACCTGGTGCGGGGCGCAGACTACATCCGAGGGAGCCGCTGCTTCCTCAGCGCAGACCTCCACAACAGCGCCACCATTCCATTCCAGGAGGAAGGGACCAAAAAGAAGTCTTC----CCCCTCG--------TCCGCAAAG---------------TCGTCCTCCACAGAGCCCTCGCTCCT
+q echTel1.scaffold_21342 999999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999---------------99999999999999999999999999
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106279417 215 - 541556283 CCCCCAATCATTGAAGAAAGCTCCTCCTCGCGGCACCGTTTTTCCCGACAGATGACTGATCGACATCTAGTTCGGGGTGCAGACTACATACGAGGCAGCAGGTGCTACCTTAATTCAGATCTTCACAACAGTGCCACCATTCCCTTTCAGGAGGAAGGGAGCAAAAAGAACTCTGT----TTCATCG--------TCCAAAAAA------------------TCTTCCACAGAACCATCACTATT
+q monDom4.chr2 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999--------999999999------------------99999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14920555 218 - 54797317 CCGCCCATCATTGAAGAAAGCTTTTCCTCCCAGCATCGTTTTTCCAGGCCCATGGCTGAGCGGCAGCTTGTGCGAGGCACAGATTACATTCGAGGAAGCAGGTGCTACATTAATTCTGATCTCCACAGCAGCGCCACCATCCCGTTTCAGGAGGAAGGGACCAAAAAGAACTCTGT----CAGATCC--------TCCCCGAAG---------------TCATCCTCCGCAGAGCCTTCACTTTT
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61595603 218 - 113657789 CCCCCAATCATTGAAGAAAGTCCCTCCACACAACACCCGTTTTCAAGGCCCATGTCTGAGAAGCAGTTAGTAAGGGGAATGGATTATATTCGAGGCAGCAGGTGTTTTATGAATACAGACCTCCACAACAGTGCAACAATTCCTTTTCAAGAGGAAGGTGCTAAAAAGTCCTCTGT----TACATCA--------TCCACAAAA---------------TCTTCCTCTGCAGAGCCCTCGCTACT
+i galGal3.chr3 C 0 C 0
+s anoCar1.scaffold_0 8828727 221 + 16654889 CCGCCTATAATTGAAGAAAGTTCCCCGTTGCAGCACCAGTTTTCCAGACCTATGATGGAAAGGCAGTTAGTCAGGGGCGCAGACTACATCAGAGGAAGTCGGTATTTTGTTAATATGGATCTTCACAACAGTGCCACCATCCCTTTCCAGGAGGATGGTGCCAAAAAGCCGCCTGT-GCCCCCCTCC--------TCTACAAAG---------------TCCTCCTCAACTGAACCCTCCCTGCT
+q anoCar1.scaffold_0 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999999--------999999999---------------99999999999999999999999999
+i anoCar1.scaffold_0 C 0 C 0
+s xenTro2.scaffold_2 3926009 215 + 7803671 ACACCTATCACTGAAGAAAATATTTATTCTTGCAGTAACTTAACAAAGCCGGCCAGCAGAAGGC---TGGTAAGAGGAGCAGACTATGTACGAGCTAGTCCAAGTCTTTTAAACATGGACCTGCACAATAGTTCCACAATGCCTTACCAGGAAGATGTTGAAAAAAAGCACAATGC----CTCTTCA--------TCTTCAAAG---------------AATTCTTCCACAGAGCCATCATTTCT
+i xenTro2.scaffold_2 C 0 C 0
+s tetNig1.chr10 10167828 209 - 12859810 ---CCCACCATCGCCGAGGAGCTCCCCTCGGTGTCTCCCCCCTACAGGCCCGCAGGGGAGCGTCATCTCATCAGG---GTGGACCACATCAGGGGCAACCGCTACTTTTCCAACTCGGACCTtcacaacagcgccaccattCCGTATCAAGAGGACG---CGAGGAAGGCCCCCGT----AGCCCCG--------GTCACCAAG---------------CGCACATCCGCAGAACGCTCACTACT
+i tetNig1.chr10 C 0 C 0
+s fr2.chrUn 66181173 209 + 400509343 ---CCCACCATCGCCGAGGAGGTTCCCTCCGTGTcccccccTTACAGAGCAGCGGGGGAGCGCCATCTCATCCGA---GTGGACCGCGTCGGGGGCAATCGCTACTTCTCGAACTCGGACCTTCACAACAGCGCCACCATTCCGTACCAAGAGGACG---CGAAGAAGGCTCCCGT----AGCCCCG--------GTCACCAAG---------------CGCACGTCCGCAGAACGCTCACTACT
+i fr2.chrUn C 0 C 0
+s gasAcu1.chrXV 12523628 209 - 16198764 ---CCCACCATCGCAGAGGAGGTGCCCTCGGTGTCGCCGCCCTACAGGCCGGCGGGGGAACGTCACCTGGTCCGA---GTGGACCGCATCAGGGGCAGCCGCTACTACTCCAACTCCGACCTCCACAACAGCGCCACCATCCCCTACCAGGAGGACA---TCAAAAAGGCCCCCGT----CGGCCCC--------ACCCCCAAG---------------CGCGCAACGGCAGATCGCTCACTACT
+q gasAcu1.chrXV ---999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999----9999999--------999999999---------------99999999999999999999999999
+i gasAcu1.chrXV C 0 C 0
+s oryLat1.chr22 12887032 209 - 28810691 ---CCCACCATTGCTGAGGAGGTCCTTTCAGGATCTCCCTCCTTCAGGCCTGCgggggggCGTCACCTGGTCCGC---GTGGATCACATCCGAGGAAACCGCTTCTACTCCAACACGGACCTCCACAACAGCTCCACCATTCCCTACCAAGAAGACA---TAAAAAAGGCCCCCGT----GGCCCCC--------TTCTCCAGG---------------CGCAAGTCAGCAAAGCGCTCCCTACT
+q oryLat1.chr22 ---999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999999999999997788999999999998888788999998866667---8766788867799999----9999999--------999888878---------------88877788846349999999999999
+i oryLat1.chr22 C 0 C 0
+s danRer5.chr20 555300 212 - 56528676 ---CCCACCATCTCGGAGGAGTCCCCCTGTTACCCCCTCCCCTATCGGCCAGCAGGAGAGCGGCAGCTGGTGCGAGGGGTGGACCACATCCGAGGCAGCCAGTGCTTCATCAATGCTGACCTGCACAACAGCGCCACCATCCCCTACCAGGAGG-----------CAGTCGCTCGC----AAACCTGCCTCCAAATCCTCTAAG---------------AGACCCCCGTCTGAACCTTCGGTCTT
+i danRer5.chr20 C 0 C 0
+e dasNov1.scaffold_145011 1313 5491 + 8690 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=514284.000000
+s mm9.chr10 3226213 73 + 129993255 GGTCAGCTGGCTGACTCGCCTCAAGCTGTTGACTCACTGA---GGT----GGC---TG------CTC------C-ACC--A--GC-TTCCTGCCTGTCTCC
+s rn4.chr1 230043793 73 - 267910886 GGTCAGCTGGCTGACTCGCCTCAAGCTGTTGACTCACTGA---GGT----TGC---TG------CTG------C-GCC--A--GC-TTCCTGCCTGTCTCC
+q rn4.chr1 9999999999999999999999999999999999999999---999----999---99------999------9-999--9--99-999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 129895 69 - 139458 GGTCAGCTGGCTCACGCGCCTGAAACTGTTGACACACTGA---GAG----CAC---TT------------------CC--G--GCACGCCTACCTGTCTCC
+q oryCun1.scaffold_214769 9888899889789999979989999999989997999999---898----879---99------------------99--9--799859996998385999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118289 65 - 169015 GGTCAGCTGGCTCACGCGCCTGAAGCTGTTGACTCACTGA---GGC----TGC-----------------------CC--G--AG-GGCCTG-CGGTCGCC
+q cavPor2.scaffold_284118 9679879896688799748999999999957687796798---999----779-----------------------89--9--99-998511-49779379
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 111220 73 - 523245 GGTCAGCTGGTTTACACGCCTGAAACTGTTGACTCACTGA---GAG----GGA---CC------CTG------C-TCA--G--GC-CACCCGCCTGGCTCC
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108547429 73 + 167655696 GGTCAGCTGGTTTACGCGCCTGAAACTGTTGACTCACTGA---GAG----GGA---CC------CTG------C-TCA--G--GC-CACCTGCCTGGCTCC
+q rheMac2.chr4 9999999999999999999999999999999999999999---999----999---99------999------9-999--9--99-999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16443121 73 - 174210431 GGTCAGCTGGTTTACGCGCCTCAAACTGTTGACTCACTGA---GAG----GGA---CC------CTG------C-TCA--G--GC-CACCTGCCTGGCTCC
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16655408 73 - 173908612 GGTCAGCTGGTTTACGCGCCTCAAACTGTTGACTCACTGA---GAG----GGA---CC------CTG------C-TCA--G--GC-CACCTGCCTGGCTCC
+q panTro2.chr6 9999999999999999999999999999999999999999---999----999---99------999------9-999--9--99-999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16130773 73 - 170899992 GGTCAGCTGGTTTACGCGCCTCAAACTGTTGACTCACTGA---GAG----GGA---CC------CTG------C-TCA--G--GC-CACCTGCCTGGCTCC
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24253 71 - 136255 GGTCAGCTGGTTTACTCGCCTGAAACTATTGACTCACTGA---GAG----CTG---CC------CTG------C-TCC--G--GG-T-CCTGCCC-GCTGC
+q otoGar1.scaffold_85251.1-136255 9999999899999999979979999999999799989999---999----998---69------999------9-999--9--99-9-9999699-77999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422452 67 - 498454 GGTCAGCTGGTTTACCCGCCTGAAACTTTTGACTCACTGA---GAG----CGC---CT------CCA------T-CC-----------CCTGCCCGCTCCT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999---999----999---99------999------9-99-----------9999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10172 74 - 11555 GGTCAGCTGGCTCACTCGCCTCAAATTTTTGACTCACTGA---GCCCTTTCTT---TT------CCC------C-CCA--G--tt-g-ctttttt--ttcc
+q eriEur1.scaffold_241672 5479762477486557246577995162456649962256---7886999434---26------999------9-767--6--26-5-3538398--2773
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 10207 59 + 14059 GGTCAGCTGGTTGACCCGCCTGAAACTCTTGACTCACTGA---A------CGG---CG------CCC------C-TCT--G--GC-G------------CC
+q sorAra1.scaffold_173811 9999999999999999999999999999999999988999---9------999---99------999------9-999--9--98-9------------99
+i sorAra1.scaffold_173811 C 0 C 0
+s canFam2.chr1 78288641 72 - 125616256 GGTCAGCTGGTTGACTCGCCTCAAACTGTTGACTCACTGA---GCC----CCG---CC------CTG------C-CCA--G--AC-T-CTTCCCTGTCTCC
+q canFam2.chr1 9999999999999999999999999999999999999999---999----999---99------999------9-999--9--99-9-9999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13081275 72 + 24938454 GGTCAGCTGGTTTACTCGCCTGAAACTGTTGACTCACTGA---GCC----CGG---CC------CTT------C-CTG--G--AC-T-CCTCAGTGGCTCC
+q equCab1.chr31 9999999999999999999999999999999999999999---999----999---99------999------9-999--9--99-9-9999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13762740 71 - 95030419 GGTCAGCTGGTTGACTCGCCTGAAATTGTTGACTCACTGA---GCC----CCA---CG------CTC------C-CTG--G--G--G-CCTCCTGGACTCC
+q bosTau3.chr9 9999999999999999999999999999999999999999---999----999---99------999------9-999--9--9--9-9999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 6804 72 + 8690 GGTCAGCTGGCTCACGCGGCTCAAACTGTTGACGCACTGA---AGG----CGC---CC------ACG------G-CCT--G--CT-C-TCCCCCTGACCCC
+q dasNov1.scaffold_145011 3253323335356522344564555435254425422226---544----365---45------445------3-211--3--47-3-6565512355575
+i dasNov1.scaffold_145011 I 5491 C 0
+s echTel1.scaffold_21342 4114 66 - 5330 GGTCAGCTGGTTTACTCGGCTCAAACTGTTGACTCACTGA---GAG-------------------CG------A-GCG--G--CT-G-CCTCCCTGCCCCT
+q echTel1.scaffold_21342 9999999999999999999999999999999999999999---999-------------------99------9-999--9--99-9-9999999999999
+i echTel1.scaffold_21342 C 0 I 1
+s monDom4.chr2 106279632 75 - 541556283 GGTCAGCTGGATCACTAGGCTTAAATTGTTGACTCACTGA---GAT----TTG---CC------TTT------C-TCCTGG--AC-TTTGTCACCATCTTC
+q monDom4.chr2 9999999999999999999999999999999999999999---999----999---99------999------9-999999--99-999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14920773 77 - 54797317 CGTCAGCTGGATCACACGGCTCAAACTATTGACTCACTGA---GGT----TCC---CC------TCGGCAGAAC-ACC--G--CT-ATCCATCCT--CCTC
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61595821 62 - 113657789 GGTCAGTTGGATAACAAGGCTTAAATTGTTGACTCATTGA--CTAT----TGA---TC------ACA------G-GAT--G--GT-TAC------------
+i galGal3.chr3 C 0 C 0
+s anoCar1.scaffold_0 8828948 76 + 16654889 GGTCAGTTGGATCACACGGCTGAAACTATTGACTCACTGAATTTAC----TGA---CT------GGA------C-TAT--G--AT-TATTTTGGTGGTGGG
+q anoCar1.scaffold_0 9999999999999999999999999999999999999999999999----999---99------999------9-999--9--99-999999999999999
+i anoCar1.scaffold_0 C 0 I 9
+s xenTro2.scaffold_2 3926224 78 + 7803671 GGTCAGCTGGTTTACAAAACTGAAACTCTTGCCTCGCTAA---ATG----TGT---TCAGATTGTTA------C-ACC--A--CT-T-AGTGCCTTTATAC
+i xenTro2.scaffold_2 C 0 N 0
+s tetNig1.chr10 10168037 65 - 12859810 GGTCAGTTGGATCACGAGGCTTAAGCTGTTGACTCACTGA---TGA----TGCGCTTC------TTG------T-CCG--G--GC-ccgc-----------
+i tetNig1.chr10 C 0 I 1
+s fr2.chrUn 66181382 65 + 400509343 GGTCAGTTGGATCACAAGGCTTAAGCTATTGACTCACTGA---TGA----TGCGCTTC------CTG------T-CCG--g--gg-cttc-----------
+i fr2.chrUn C 0 I 1
+s gasAcu1.chrXV 12523837 65 - 16198764 GGTCAGTTGGATCACGCGGCTTAAGCTATTGACTCACTGA---TGA----TGCGCTTC------CTG------T-CCG--G--GG-CTTC-----------
+q gasAcu1.chrXV 9999999999999999999999999999999999999999---999----99999999------999------9-999--9--99-9999-----------
+i gasAcu1.chrXV C 0 I 1
+s oryLat1.chr22 12887241 66 - 28810691 GGTCAGTTGGATCACGCGGCTTAAGCTATTGACTCACTGA---TGA----CGTGCTTC------CTG------TGCCG--G--GG-CTCC-----------
+q oryLat1.chr22 9999999999999999999999999999999999999999---999----99999999------999------99999--9--99-9999-----------
+i oryLat1.chr22 C 0 I 1
+s danRer5.chr20 555512 65 - 56528676 CAGCAGCTGGATCGCCCGACTCAAGCTGCTCACACACTGA---AGC----CCCGCGCC--------G------G-CCG--GCTGG-CTGC-----------
+i danRer5.chr20 C 0 N 0
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=69225.000000
+s mm9.chr10 3226286 20 + 129993255 ---TGCTAGC-AAGTGCC-TTCT---TC
+s rn4.chr1 230043866 20 - 267910886 ---TGCTAGC-AAGTGCC-TTCT---TC
+q rn4.chr1 ---9999999-9999999-9999---99
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 129964 19 - 139458 ---CGCTA-C-AAGTGCC-TTCT---TT
+q oryCun1.scaffold_214769 ---78876-8-9986395-9969---95
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118354 20 - 169015 ---TGCTCTT-AAGTGCC-TTGT---CC
+q cavPor2.scaffold_284118 ---8679999-9965495-9595---95
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 111293 19 - 523245 ---TGCTC-C-AAGTGCC-TTGC---TT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108547502 18 + 167655696 ---T-CCC-C-AAGTGCC-TTGC---TT
+q rheMac2.chr4 ---9-999-9-9999999-9999---99
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16443194 19 - 174210431 ---TGCCC-C-AAGTGCC-TTGC---TT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16655481 19 - 173908612 ---TGCCC-C-AAGTGCC-TTGC---TT
+q panTro2.chr6 ---99999-9-9999999-9999---99
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16130846 19 - 170899992 ---TGCCC-C-AAGTGCC-TTGC---TT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24324 18 - 136255 ---TGCCC-C-AAGTGCC-TTGC----T
+q otoGar1.scaffold_85251.1-136255 ---99999-9-9999867-9967----9
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422519 22 - 498454 ---CCCCC-C-AAGTGCC-TTTCTCCTC
+q tupBel1.scaffold_114895.1-498454 ---99999-9-9999999-999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10246 20 - 11555 ---tgccacc-aaGTGCC-TTGT---GT
+q eriEur1.scaffold_241672 ---6999758-9999497-9875---69
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 10266 19 + 14059 ---TGCCACC--CGTGCC-TTGC---GT
+q sorAra1.scaffold_173811 ---8999799--999999-9999---88
+i sorAra1.scaffold_173811 C 0 C 0
+s canFam2.chr1 78288713 20 - 125616256 ---CGCTCCC-AAGTGCC-TTGT---CT
+q canFam2.chr1 ---9999999-9999999-9999---99
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13081347 20 + 24938454 ---TGCTACC-AAGTGCC-TTGC---TC
+q equCab1.chr31 ---9999999-9999999-9999---99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13762811 20 - 95030419 ---TGCTACC-AAGTGCC-TTGT---TT
+q bosTau3.chr9 ---9999999-9999999-9999---99
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 6876 20 + 8690 ---CGCTCCC-AAGTGCC-TTGG---CT
+q dasNov1.scaffold_145011 ---3535555-5344343-1244---45
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 4181 20 - 5330 ---GGCTCCC-AAGTGCC-TCGG---CC
+q echTel1.scaffold_21342 ---9999999-9999999-9999---99
+i echTel1.scaffold_21342 I 1 C 0
+s monDom4.chr2 106279707 20 - 541556283 ---TGTTACT-AAGTGCC-TTCA---TT
+q monDom4.chr2 ---9999999-9999999-9999---99
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14920850 21 - 54797317 ---AGTTCCT-AAGTGCCTTTGT---TT
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61595883 15 - 113657789 --------CC-AAGTGCC-TTGG---TT
+i galGal3.chr3 C 0 I 1
+s anoCar1.scaffold_0 8829033 20 + 16654889 ---TGTTACC-AAGTGCC-TTCC---CC
+q anoCar1.scaffold_0 ---9999999-9999999-9999---99
+i anoCar1.scaffold_0 I 9 I 9446
+s tetNig1.chr10 10168103 22 - 12859810 tgtttctgtctttgtgtc-cttC-----
+i tetNig1.chr10 I 1 C 0
+s fr2.chrUn 66181448 22 + 400509343 tgtttctgtctttgtgtc-ctTC-----
+i fr2.chrUn I 1 C 0
+s gasAcu1.chrXV 12523903 21 - 16198764 TGTtcctgtc-ttttgtc-cttt-----
+q gasAcu1.chrXV 9999999999-9999999-9999-----
+i gasAcu1.chrXV I 1 C 0
+s oryLat1.chr22 12887308 21 - 28810691 CGCTCCTGTC-CTGCGTT-CTTC-----
+q oryLat1.chr22 9999999999-9999999-9999-----
+i oryLat1.chr22 I 1 C 0
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=-247959.000000
+s mm9.chr10 3226306 92 + 129993255 CT-CAGTGGACAG-CTTCT-----TTA----------------G-AC--TCCTTCCACAGTGCTCCG-TGGCAAC---TTTACTTCA-------------TT------------------------CCATT-----------T--------TTTTT---------AAGGTTGTATACTGTTGT------------TCCT
+s rn4.chr1 230043886 94 - 267910886 CT-CAGTGGACAG-CTTGT-----CCA----------------G-AC--TCCTGCCACAGTGCTCCA-TGGCGAC---CTTACTTCA-------------TT------------------------CCATT-----------T------TGTTTTT---------AAGGTTGTATATTGCCCT------------TCCT
+q rn4.chr1 99-9999999999-99999-----999----------------9-99--999999999999999999-9999999---999999999-------------99------------------------99999-----------9------9999999---------999999999999999999------------9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 129983 94 - 139458 GC---TTGGGC-----CCT-----GCG----------------G-AT--TTCAGCCACAGTATTACA-TCCTGAC---CTCACGCGA-------------TT------------------------CCTTT-----------CTTTCTCTCTGTTT---------GAAGTTGGAGACTACCCA------------TCTC
+q oryCun1.scaffold_214769 98---949939-----956-----559----------------5-59--988769536458495462-4774834---369585354-------------66------------------------95798-----------86877697999779---------779659999996999996------------9999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118374 95 - 169015 TT---GGGGACAA-TCTCC-----CCG----------------G-AC--TTC-ACCGCAGGCTTCCC-TAGTGAC---CTTGCAtca-------------tt------------------------tcctt-----------t-------gtatttcctAG----AAAGTTGTGTACTGCCCT------------TCTT
+q cavPor2.scaffold_284118 96---99933356-66998-----859----------------4-64--866-68365362288785-5683448---296453757-------------99------------------------79399-----------4-------73699686264----693656656547678999------------9999
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 111312 104 - 523245 TTACAGCGGACAG-CCTCT-----TCC----------------C-GT--TCCAGGCACAGTATTATG-TAGTGAC---CTTATGCTA-----tttctttctt------------------------tcttt-----------c--------ttttt--ttA----AAAGTTATCTACTGCCCT------------TCTT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108547520 104 + 167655696 TTACAGTGGACAG-CCTCT-----TCC----------------C-GT--TTCAGCCTCAGTATTATG-TAGTGAC---CTTATGTCA-----TTTCTTTTTT------------------------TTTTT-----------T--------TTTTT--TGA----AAAGTTACCTACTGCCCT------------TCTT
+q rheMac2.chr4 9999999999999-99999-----999----------------9-99--999999999999999999-9999999---999999999-----9999999999------------------------99999-----------9--------99999--999----999999999999999999------------9999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16443213 105 - 174210431 TTGCAGTGGACAG-CCTCT-----TCT----------------C-GT--TTCAGCCTCAGTATTATG-TAGGGAC---CTTACGCAA----ttttttttttt------------------------ttttt-----------t--------ttttt--tGA----AAAGTTATCTACTGCCCT------------TCTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16655500 96 - 173908612 TTACAGTGGACAG-CCTCT-----TCT----------------C-GT--TTCAGCCTCAGTATTATG-TAGGGAC---CTTACGCAA-------------TT------------------------TCTTT-----------T--------TTTTT--TGA----AAAGTTATCTACTGCCCT------------TCTT
+q panTro2.chr6 9999999999999-99999-----999----------------9-99--999999999999999999-9999999---999999999-------------99------------------------99999-----------9--------99999--999----999999999999999999------------9999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16130865 96 - 170899992 TTACAGTGGACAG-CCTCT-----TCT----------------C-GT--TTCAGCCTCAGTATTATG-TAGGGAC---CTTATGCAA-------------TT------------------------TCTTT-----------T--------TCTTT--TGA----AAAGTTATCTACTGCCCT------------TCTT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24342 102 - 136255 CCGCAGTGGACAG-CCTCT-----TCC----------------C-AT--CTCACCCACAGTATTAGG-GAGTGAC---CTTCTGCAT-------TCTCATTT------------------------TCTTT-----------T--------CTTTT--TGG----AAAGTTCTATACTGCCCT------------TCTT
+q otoGar1.scaffold_85251.1-136255 9999999999999-99999-----999----------------9-99--999999999999999999-9999999---999999999-------99999999------------------------99999-----------9--------99999--999----999999999999999999------------9999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422541 107 - 498454 CTTCAGTGGACAT-C--GC-----TCC----------------G-AT--TTCACCCACAGTGTTATG-TGGTGAC---CTTAGGTCACGTTTTTCTTTTCTC------------------------TTTTT-----------C--------TTTCT--TGG----AAAGTTGTATGCTGCCTC------------TCTT
+q tupBel1.scaffold_114895.1-498454 9999999999999-9--99-----999----------------9-99--999999999999999999-9999999---999999999999999999999999------------------------99999-----------9--------99999--998----999969999999999999------------9999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10266 92 - 11555 CTTCAGCTGCCGA-CCTGA-----T---------------------T-TTGCATTCGCAGTATTATATTAGTGAC---TTCCTgcca-------------tt------------------------tctcc---------ctt--------ttttt--ttg----aaaGCG---TG-TACCAT------------TTAT
+q eriEur1.scaffold_241672 5299985779664-85788-----9---------------------9-955779936999998779895775776---888987898-------------99------------------------94999---------899--------99999--857----999947---68-829989------------9998
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 10285 123 + 14059 CCGCAGCTGGCCA-CCGGT-----TCT----------------G-AT-TTGCAGCCGCAGTATTACG-TAGTGAC---CTTGTGCGA-------------Ttccttgccccctccccccatttccctctct---------ctc--------ttgtt--GGG----AAAACAATCTGTTGCCCT------------TCTT
+q sorAra1.scaffold_173811 9999799999999-98999-----998----------------9-99-9999799977667997998-9978988---987899869-------------6999799699999997796779949599655---------777--------99935--786----799666669999999747------------6757
+i sorAra1.scaffold_173811 C 0 C 0
+s canFam2.chr1 78288733 102 - 125616256 CCTCAGTTGACAA-CCTGT-----TCT----------------G-GT-CTTCATCCACAGTGTTATG-TTGTGAC---CTTATGCGA-------------TG------------------------TCATT-----GTGTGTT--------TTCCT--TTG----GAAGTTGTATAC-ACCCT------------TCTT
+q canFam2.chr1 9999999999999-99999-----999----------------9-99-9999999999999999999-9999999---999999999-------------99------------------------99999-----9999999--------99999--999----999999999999-99999------------9999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13081367 97 + 24938454 CTTCAGCTGACGA-CCTGC-----TCT----------------G-AT--TTCACCCACAGTATTATG-TAGTGAC---CTTATACGA-------------TT------------------------TCATT----------TT--------TTGTT--TTG----AAAGTTGCTTACTGCCCT------------TCTT
+q equCab1.chr31 9999999999999-99999-----999----------------9-99--999999999999999999-9990999---999999999-------------99------------------------99999----------99--------99999--999----999999999999999999------------9999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13762831 103 - 95030419 CCTCGGTTGGCAATCTTGT-----TGT----------------G-AT-TCTCATTCACAGTATTATG-TAGCCAT---CTTTTGCAA-------------TT------------------------TCGTG------GGTTTC--------TTTTT--TGG----AAAGTTGTGTATTGCACT------------TCTT
+q bosTau3.chr9 9999999999999999999-----999----------------9-99-9999999999999999999-9999999---999999999-------------99------------------------99999------999999--------99999--999----999999999999999999------------9999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 6896 63 + 8690 CCTCAGGCGATGA-CCTCT-----TCT----------------G-AC-GTTCATACACAGTATTATG-TAGCGAC---CTTCTGTAA-------------TT------------------------TC-----------------------------------------------------------------------
+q dasNov1.scaffold_145011 3173435455445-65413-----511----------------3-45-4274665757536764525-5534457---157445556-------------65------------------------66-----------------------------------------------------------------------
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 4201 63 - 5330 CCTC-------GG-CCTGT-----TCT----------------GAAC-GCTCGCCCTCAGTATTACG-TAGTGAC------CTGTCA-------------TT------------------------TCATC-----------C--------TTGTG-------------------------------------------
+q echTel1.scaffold_21342 9999-------99-99999-----999----------------9999-9999999999999999999-9999999------999999-------------99------------------------99999-----------9--------99999-------------------------------------------
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106279727 100 - 541556283 CCTCAGCTGA----CCTCT-----TTG----------------T-ACTTTTCACCTACAGTATTATG-TAGTGACTTTCttgtttta-------------tt------------------------ttatt-----------t--------tattt----------------tattttgtcttaattttattttatttt
+q monDom4.chr2 9999999999----99999-----999----------------9-9999999999999999999999-9999999999999999999-------------99------------------------99999-----------9--------99999----------------999999999999999999999999999
+i monDom4.chr2 C 0 C 0
+s ornAna1.chr2 14920871 88 - 54797317 TTCCAGTGGG----CCTTT-----TCT----------------T-AT--TGCATCTACAGTATTATG-TAGCAGC-------------------------TC------------------------TTAAA-----------T--------TTTTG--TGGGAGAAAGGAGGAGAGTTGTCCA------------CCCA
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61595899 90 - 113657789 ----ATCAGTCAG-ACTTC-----TCT----------------G-CT-TTTCAGCTTAACTGATGCA-TAGCGAC----TAATGCAG---------------------------------------TGTTC-----------T--------TTTCC--TGG----AGAATCTTATTCTTGACT------------TTTT
+i galGal3.chr3 I 1 C 0
+s tetNig1.chr10 10168125 98 - 12859810 -CTCAGTG------CCTTT-GATATTT----------------A-AC-Gtccagctg--gttttttt-tggcagc---tttgggc---------------tt------------------------tttttccccacattccT--------CTGTC--CCC----CAACCTCCATACTTCCCT----------------
+i tetNig1.chr10 C 0 C 0
+s fr2.chrUn 66181470 60 + 400509343 -CGTAGTG------CCTTT-GATATTC----------------A-AC-GTCCAGCTG----tttttt-tggcagc---tttgggc---------------t-----------------------------------------t--------ttttt--cc---------------------------------------
+i fr2.chrUn C 0 N 0
+s gasAcu1.chrXV 12523924 74 - 16198764 -CTCAGTG------Cctttcgattttttttttttttttttttaa-ac-atccagctg-----ttttt-tattcgt---ttt-------------------tt------------------------tttta--------gctt--------------------------------------------------------
+q gasAcu1.chrXV -9999999------999999999999999999999999999999-99-999999999-----99999-9999999---999-------------------99------------------------99999--------9999--------------------------------------------------------
+i gasAcu1.chrXV C 0 N 0
+s oryLat1.chr22 12887329 81 - 28810691 -CTCAGTG------CCTTT------------------------A-AC-ATCCGGCTG-----GTTTT-GGGCAGC---TTTGGGC---------------TT------------------------TCTCAC-------ACTT--------CTCTC--CCA----AATCTCCCTGGTGTTCCT----------------
+q oryLat1.chr22 -9999999------99999------------------------9-99-999999999-----99999-9999999---9999999---------------99------------------------999999-------9999--------99999--999----999999999999999999----------------
+i oryLat1.chr22 C 0 N 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=57246.000000
+s mm9.chr10 3226398 82 + 129993255 -G-----GAGT-----GTTCAAGTCAACCAGAGGGCATCAAATCCA-----GTGGATC------TT--A-GG-TGCC-ATCTGTGGAGGCAGAAGGAAGGA------CAGACATG
+s rn4.chr1 230043980 82 - 267910886 -G-----GAGT-----TTTGAAGTC-ACCAGAGGGCAACAAATCCG-----GTGGATC------TT--AGGG-TGCT-GTTCGTGGAGGCAGAAGGAAGGA------CGGACATG
+q rn4.chr1 -9-----9999-----999999999-99999999999999999999-----9999999------99--9999-9999-99999999999999999999999------99999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 130077 90 - 139458 -A-----GAAT-----TTCGAAGTC-ACTGGATGGCAACGAATCCA-----GAGGATC------TTTAA-AG-TGCTGGCTCGTGGAGGCAGAAGGAGGGATGCGGGTGGGTAGG
+q oryCun1.scaffold_214769 -6-----9955-----773556999-79999999999999999999-----9999999------99999-99-999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118469 73 - 169015 -G-----GA-C-----CTTCATG---ATTGGATGGCAGCAGACCCA-----GGGGATC------CT--A-GG-GGCC-ACTCATGGAAGCAGGAAGA-----------GGACATG
+q cavPor2.scaffold_284118 -9-----77-9-----9996699---89998679659999997997-----9992429------84--9-99-9999-9999999999999999999-----------9976999
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 111416 83 - 523245 -G-----GAAG-----TTTGCAG-G-ATTCGATGGGAACAAATTCA-----GAGGATC------TT--A-GG-TGCTGGCTTGTGAAGACACAAGGAGGGG----AATGACTGGA
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108547624 83 + 167655696 -G-----GAAG-----TTTGCAG-A-ATTGGATGGGAACAAATTCA-----GAGGATC------TT--A-GG-TGCTGGCTTGTGGAGACAAAAGGAGGAA----AACGGGTAGA
+q rheMac2.chr4 -9-----9999-----9999999-9-99999999999999999999-----9999999------99--9-99-9999999999999999999999999999----9999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16443318 83 - 174210431 -G-----GAAG-----TTTGCAG-G-ATTGGATGGGAACAAATTCA-----GAGGATC------TT--A-GG-TGCTGGCTTGTGGAGACAAAAGGAGGGA----AATGGGTAGA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16655596 83 - 173908612 -G-----GAAG-----TTTGCAG-G-ATTGGATGGGAACAAATTCA-----GAGGATC------TT--A-GG-TGCTGGCTTGTGGAGACAAAAGGAGGGA----AATGGGTAGA
+q panTro2.chr6 -9-----9999-----9999999-9-99999999999999999999-----9999999------99--9-99-9999999999999999999999999999----9999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16130961 83 - 170899992 -G-----GAAG-----TTTGCAG-G-ATTGGATGGGAACAAATTCA-----GAGGATC------TT--A-GG-TGCTGGCTTGTGGAGACAAAAGGAGGGA----AATGGGTAGA
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24444 83 - 136255 -G-----GAAG-----TTTGAGGTA-ATTGAATGGGAACAAATCCA-----GAGGATC------TT--A-GG-TGCTGGCTTACGGGGGC-CCAGGAGGGA----AATGGACAGA
+q otoGar1.scaffold_85251.1-136255 -9-----9999-----999999999-99999999999999999999-----9999999------99--9-99-99999999999999999-9999999999----9999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422648 80 - 498454 -G-----GAAT-----CCTGAAGTA-AGTGGAT-GGAACAACTCTG-----GAGCATC------CT--A-GA-TGCTGGCTCATGGAGAG-AGGGGTAGGC----CATGGGTA--
+q tupBel1.scaffold_114895.1-498454 -9-----9999-----999999999-9999988-999999999999-----9999999------99--9-99-99999789989989999-9999989975----99999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10358 71 - 11555 -G-----GAAT-----TTGGAAGTG-ATTGTAAGGGAACCAACACA-----GAATGAT------TG--G-GGTGTCTGTTGTTCTTGGTCAGAAGAT------------------
+q eriEur1.scaffold_241672 -7-----9989-----976789868-99578979999789986457-----7998898------68--9-985593699889949998987696553------------------
+i eriEur1.scaffold_241672 C 0 C 0
+s sorAra1.scaffold_173811 10408 71 + 14059 -G-----GGAT-----TTTGATGTC-CTCGGGATGGGACCAAATCC-----GCGCATC------TA--G-GAATGCTGGCTTGtggagacggaagga------------------
+q sorAra1.scaffold_173811 -8-----8896-----996666666-57757465884969494679-----9876479------69--8-555653675545656594543567656------------------
+i sorAra1.scaffold_173811 C 0 I 616
+s canFam2.chr1 78288835 70 - 125616256 -G-----CAAT-----TTTGAAT-----TGGATGAGAACAAAACCA-----GAGGATC------TC--A-CG-TGTTGG----------CAGGAGGAGAGA----AGTGAATAGA
+q canFam2.chr1 -9-----9999-----9999999-----999999999999999999-----9999999------99--9-99-999999----------999999999999----9999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13081464 84 + 24938454 -G-----GAAT-----TTTGAAGTA-AATGAATGGGAACAAATCCA-----GAGGATC------TG--A-GA-TGCTGGTTTGTGGAGACAGGAGGAGAGA----AATGGGTAGA
+q equCab1.chr31 -9-----9999-----999999999-99999909999999999999-----9999999------99--9-99-9999999999999999999999999999----9999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13762934 89 - 95030419 -G-----GAAT-----TTTGAAGTC-ATTGGATGGGAATAAATCCA-----GAGAATCT-TAGATC--A-GA-TGCTGACTTGTGGCGGCCAAAGGAGAGA----AATGGGGAGA
+q bosTau3.chr9 -9-----9999-----999999999-99999999999999999999-----99999999-999999--9-99-9999999999999999999999999999----9999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 6959 59 + 8690 ---------AG-----TTTGAAGGC-ATCGGGTGGGACCCGGTCC------GAGAATC------AC--A-GG-TGGCGGC-------GGAAGGAGGA------------------
+q dasNov1.scaffold_145011 ---------53-----782453456-6656553555677452566------5556699------88--6-56-4576987-------9996566687------------------
+i dasNov1.scaffold_145011 C 0 I 11
+s echTel1.scaffold_21342 4264 80 - 5330 -G-----AAAG-----CTGGACGTG-ACTGGATGGGAGCAGACCCA-----GGGGATC------CT--G-GG-TACTGGCTTGTCGGAGCAGGAGGA--------AGGAAGCAGT
+q echTel1.scaffold_21342 -9-----9999-----999999999-99999999999999999999-----9999999------99--9-99-999999999999999999999999--------9999999999
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106279827 79 - 541556283 -G-----AGAGCAAGCTTTGGAGGT-ATTGGACAGGAATGAATTTG-----GTAGGTG------TA--ATGG-TGGTG---------GGCAGAAGAGGAGC----AGGAGATA--
+q monDom4.chr2 -9-----999999999999999999-99999999999999999999-----9999999------99--9999-99999---------99999999999999----99999999--
+i monDom4.chr2 C 0 I 75
+s ornAna1.chr2 14920959 61 - 54797317 -G-----TGTC-----T---------CCTACACAAGAATAA-----------------------TT--A-GA-TATCAGGGCAGGGAGG-AGAAGAAGGGG----TAGAGATG--
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61595989 68 - 113657789 -GTTTGTGATT-----TTTGATG-C-ATCAGAGGGTTGTGTGCACG-----GAGGAAAGAAAGATG--A-AG-TTCTTCTTAATG------------------------------
+i galGal3.chr3 C 0 C 0
+s tetNig1.chr10 10168223 66 - 12859810 GG-----TGTG-----CCTcctact-accaactactaccaaaCTCACTTTTGTAGATC------TC--A----TCCCATCCTGGTGACA--------------------------
+i tetNig1.chr10 C 0 N 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=-74740.000000
+s mm9.chr10 3226480 75 + 129993255 GCACAG-----------------------CCTGCCTAG-------------------------TT--CTGCCGTCCC-ACTGTGGG-AACATGG-------------------AGACA----TG----------CTCTTTAAAGTGTGGTG--TT-GGTCA--GA
+s echTel1.scaffold_21342 4344 72 - 5330 GGCTGC-----------------------TGC-------------------------------TTGCTTGCTTCACC-AGAGTCGG-GACACTG-------------------TCACT----CC----------CCCAGGAGGTGCTGCTC--TTGGGCCA--GG
+q echTel1.scaffold_21342 999999-----------------------999-------------------------------99999999999999-99999999-9999999-------------------99999----99----------99999999999999999--99999999--99
+i echTel1.scaffold_21342 C 0 C 0
+s dasNov1.scaffold_145011 7029 83 + 8690 GCCTGC-----------------------TCC-------------------------------TT--TTGCTTCACC-AGTGTGGGAGGCAATG-------------------TCCCT----CTGTGAGCGAGGCCCTTTGGGTGGCAGTC--GTGGGCCACCGT
+q dasNov1.scaffold_145011 595565-----------------------896-------------------------------69--9665777777-7555566866378658-------------------87769----65536764757878685344445995574--556545757757
+i dasNov1.scaffold_145011 I 11 C 0
+s bosTau3.chr9 13763023 93 - 95030419 GTCTGCCCCCCCGCCCCCACCTTTTTTTTTTT-------------------------------TT--TTGCTTCCTTAAGAGTCAG-AACACAG-------------------AGACA----CA----------TTCTGTAAAGCAGAGCC--TT-GGCCA--GG
+q bosTau3.chr9 99999999999999999999999999999999-------------------------------99--9999999999999999999-9999999-------------------99999----99----------99999999999999999--99-99999--99
+i bosTau3.chr9 C 0 C 0
+s equCab1.chr31 13081548 72 + 24938454 GTCTGC-----------------------TTT-------------------------------TC--TTGCTTCCTT-AGGGTCGG-AACACAG-------------------AGACACACTCA----------CTCTGTAAACTGGAGCC--TC--GCCA--GG
+q equCab1.chr31 999999-----------------------999-------------------------------99--9999999999-99999999-9999999-------------------99999999999----------99999999999999999--99--9999--99
+i equCab1.chr31 C 0 C 0
+s canFam2.chr1 78288905 69 - 125616256 GTCTGC-----------------------TTT-------------------------------TC--TTGCTTTCTT-AGGGTTGG-ATGACGG-------------------AGACA----CA----------CTCTGTGAACTGGGGCC--TT-GGCCA--GG
+q canFam2.chr1 999999-----------------------999-------------------------------99--9999999999-99999999-9999999-------------------99999----99----------99999999999999999--99-99999--99
+i canFam2.chr1 C 0 C 0
+s eriEur1.scaffold_241672 10429 38 - 11555 ------------------------------------------------------------------------------GGAGCTGG-AC---------------------------------TG----------TTCTAGAAACCTGAGCT--AT-GACCA--GG
+q eriEur1.scaffold_241672 ------------------------------------------------------------------------------88975799-77---------------------------------98----------99697798565879869--97-83999--99
+i eriEur1.scaffold_241672 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422728 65 - 498454 -TCTGA-----------------------TTG-------------------------------TC--TTCCTCTCC----AGTCAG-AACATGG-------------------AGACC----TG----------CTCTGTCAGTAAGAGTC--CT-GGCCA--GA
+q tupBel1.scaffold_114895.1-498454 -99999-----------------------799-------------------------------79--999999989----699989-9778996-------------------99899----99----------89988798988989779--98-95499--98
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24527 69 - 136255 GCCTTC-----------------------TCT-------------------------------TC--CTGCTTTCTC-AGAGACAG-AACATGG-------------------AGACA----CA----------CTCCATAAATCAGAGCC--GC-GGCCA--GA
+q otoGar1.scaffold_85251.1-136255 999999-----------------------999-------------------------------99--9999999999-99999999-9999999-------------------99999----99----------99999999999999999--99-96999--99
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s hg18.chr6 16131044 69 - 170899992 GCCTGT-----------------------TTG-------------------------------TC--TTGCTTCCCC-AGAGATAG-AATGTGA-------------------AGACA----CG----------CGCTAGAAATCGCAGTC--CT-GGCCA--GA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16655679 69 - 173908612 GCCTGT-----------------------TTG-------------------------------TC--TTGCTTCCCC-AGAGATAG-AATGTGA-------------------AGACA----CG----------CACTAGAAATCGCAGTC--CT-GGCCA--GA
+q panTro2.chr6 999999-----------------------999-------------------------------99--9999999999-99999999-9999999-------------------99999----99----------99999999999999999--99-99999--99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16443401 69 - 174210431 GCCTGT-----------------------TTG-------------------------------TC--TTGCTTTTCC-AGAGACAG-AATGTAA-------------------AGACA----CG----------CACTAGAAATCACAGTC--CT-GGCCA--GA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108547707 69 + 167655696 GCCTGT-----------------------TTG-------------------------------TC--TTGCTTCCCC-AGAGACAA-AATGTGG-------------------AGACA----CA----------CACTAGAAATCGCAGCC--CT-GGCCA--GA
+q rheMac2.chr4 999999-----------------------999-------------------------------99--9999999999-99999999-9999999-------------------99999----99----------99999999999999999--99-99999--99
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 111499 66 - 523245 GCC--------------------------TTG-------------------------------TC--TCGCTTCCCC-AGAGACAG-AACGTGG-------------------AGAGA----CA----------CCCTAGAAATGGCAGTC--CT-GGCCA--GA
+i calJac1.Contig1260 C 0 C 0
+s cavPor2.scaffold_284118 118542 58 - 169015 G--------------------------------------------------------------TC--CACCCCTTCC-AGGACAGC-A-CGTGG-------------------AGGCG----CA-----------TCTATACATTG-GGAG--CT-GGCCA--GA
+q cavPor2.scaffold_284118 9--------------------------------------------------------------99--9999999999-99999999-9-99999-------------------99999----99-----------99999999999-9999--99-99999--99
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 130167 100 - 139458 Gtctgc-----------------------ttttttctgttttgtggtgttttttttttttttttt--ttgcttCCCT-GGAGTCGG-AACATGG-------------------AGACA----C------------TCCATAAATGCGGGCATCTT-GGCCA--GA
+q oryCun1.scaffold_214769 999999-----------------------999999999999999999999999999999999999--9999999999-99999999-9999999-------------------99999----9------------99999999999999999999-99999--99
+i oryCun1.scaffold_214769 C 0 C 0
+s rn4.chr1 230044062 57 - 267910886 GCACAC-----------------------GTTTAGT---------------------------TT--TTGCCTTCCC-ACTGTGGG-AGCGTGG-------------------AGACA----TA----------CTCTTTAAAG---------------------
+q rn4.chr1 999999-----------------------9999999---------------------------99--9999999999-99999999-9999999-------------------99999----99----------9999999999---------------------
+i rn4.chr1 C 0 C 0
+s ornAna1.chr2 14921020 47 - 54797317 ------------------------------------------------------------GAGTC--TGCTTTTGAC-AGACCCTG------------------------------------TG----------CTGACTAAATTAGACTG--GT-GGC------
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61596057 92 - 113657789 --------------------------------------------------GCCAAAGGTTAGGTG--TTTGTTCCCT-GGGAAATG-AGTAAAATTTTGGTGATATAGTGACCACACA----TG----------ACCTGAAATCTGCATTA--CT-ATTCA--GA
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e monDom4.chr2 106279906 75 - 541556283 I
+e sorAra1.scaffold_173811 10479 616 + 14059 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=253565.000000
+s mm9.chr10 3226555 158 + 129993255 ---CAAC-----------TTAATGT------CAGG-------AATTGG-CAAAATTG---------TT-----------------CA-C----------TTTTGTTTTCTT-------------GGACA---GCGGGGACTGAAATTGA-----TG-GGT-----TTTGTCGCATAGATAAAACCCATAGT------CAGT-----TTGTGGTCCAACTTCTGCATCT-------------GA-AAAAGCCAAA-GGA-GAAAAG-CC----TTTGC--TTTGA
+s rn4.chr1 230044119 142 - 267910886 ----------------------TGT------CAGG-------AGTTGG-CAGCATTG---------TT-----------------CA-C----------TTTTGTTTTCTT-------------GGGCA---GTGGGGACTAAAATTGA-----TG-GGT-----TTTGTCACATAGATA--------TGT------TGGT-----TTGTGGTCCAACTTCTGTATCT-------------GA-AAAAGCTGAA-GGA-GGAAAA-CT----TCTGT--TTTGA
+q rn4.chr1 ----------------------999------9999-------999999-99999999---------99-----------------99-9----------999999999999-------------99999---99999999999999999-----99-999-----999999999999999--------999------9999-----9999999999999999999999-------------99-9999999999-999-999999-99----99999--99999
+i rn4.chr1 C 0 I 1
+s oryCun1.scaffold_214769 130267 179 - 139458 ---ATTGTGGTG-----GTCAGTGT--------GG-------AACTGG-GGGCCTCA---------TT-----------------CC-t----------ttttttttttttttttttttttGAGGGGTG--TATGGGTACTGAGATTGG-----GG-GGCAGTTGTCTGTCACACAGATG--------TGTTGGTTTTGGT-----TTGTGGTCCAACTTCTTTACCC-------------GA-AAGAGCCAGT-GGA-GGAAAC-AT----TTTTG--TTTGA
+q oryCun1.scaffold_214769 ---999999999-----99999999--------99-------999999-99999999---------99-----------------99-9----------999999999999999999999999999999--999999999999999999-----99-99999999999999999999999--------9998999999999-----9999999999999999999999-------------99-9999999999-999-999999-99----99999--99999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 118600 135 - 169015 ---CAGATGGTG-----GTCATTCT------CCCG-------AACTGG-CAACATCT---------AC-----------------TG-C----------TGTTGTTTTCTT-------------GAGT----GAGGGGACTCAGTTGGG-----TG-GCT-----GTTGT---ACAGATA--------TGT--------GG-----CTGTGGTCCACCT-----ACCT-------------GA-AAAAGCCAGT-tgg-agaaaa-----------------ga
+q cavPor2.scaffold_284118 ---999999999-----99999999------9999-------999999-99999999---------99-----------------99-9----------999999999999-------------9999----99999999999999999-----99-999-----99999---9999999--------999--------99-----9999999999999-----9999-------------99-9999999999-999-999999-----------------99
+i cavPor2.scaffold_284118 C 0 C 0
+s calJac1.Contig1260 111565 155 - 523245 ---GACGC---G-----GTCATTGT------GACGGACTGTTGACTGG-TAGCGTTG---------TT-----------------CC-T----------CTTTGAG------------------GGACT---GAGGGGACTGAAATTAG-----TG-GCT-----GTTTTCACACAAATA--------TAT------TGGT-----TTGTGGTCCAACTTCTTTATCT-------------GA-AAAAGCCAGT-GAG-AAAACA-TT----TTTGA--TTTGA
+i calJac1.Contig1260 C 0 I 3
+s rheMac2.chr4 108547776 151 + 167655696 ---GATACTATG-----ATCATTGT------GAGG-------GACTGG-TGACATTG---------TT-----------------CC-T----------CTTTGAG------------------GGGCT---GGGGGGACTAAAATTGG-----TG-GCT-----ATTTTCACACAGATA--------TGT------TGGT-----TTGTGGTCCAACTTCTTTATCT-------------GA-AAAAGCCAGT-GAG-AAAACA-TT----TTTGA--TTTGA
+q rheMac2.chr4 ---999999999-----99999999------9999-------999999-99999999---------99-----------------99-9----------9999999------------------99999---99999999999999999-----99-999-----999999999999999--------999------9999-----9999999999999999999999-------------99-9999999999-999-999999-99----99999--99999
+i rheMac2.chr4 C 0 I 308
+s ponAbe2.chr6 16443470 152 - 174210431 ---GACGTTATG-----GTCACTGT------GAGG-------GACTGGTTGGCATTA---------TT-----------------CC-T----------TTTTGAG------------------GGGCT---GGGGGAGCTAAAGTTGG-----TG-GCT-----ATTTTCACACAGATG--------TGT------TGGT-----TTGTGGTCCAACTTCTTTATCT-------------GA-AAAAGCCAGT-GAG-AAAACA-TT----TTTGA--TTTGA
+i ponAbe2.chr6 C 0 I 1
+s panTro2.chr6 16655748 151 - 173908612 ---GACGTTATG-----GTCATTGT------GAGG-------GACTGG-TGGCATTG---------TT-----------------CC-T----------TTTTGAG------------------GGGCT---GGGGGGACTAAAATTGG-----TG-GCT-----ATTTTCACACAGATG--------TGT------TGGT-----TTGTGGTCCAACTTCTTTATCT-------------GA-AAAAGCCAGT-GAG-AAAACA-TT----TTTGA--TTTGA
+q panTro2.chr6 ---999999999-----99999999------9999-------999999-99999999---------99-----------------99-9----------9999999------------------99999---99999999999999999-----99-999-----999999999999999--------999------9999-----9999999999999999999999-------------99-9999999999-999-999999-99----99999--99999
+i panTro2.chr6 C 0 I 1
+s hg18.chr6 16131113 151 - 170899992 ---GACGTTATG-----GTCATTGT------GAGG-------GACTGG-TGGCATTG---------TT-----------------CC-T----------TTTTGAG------------------GGGCT---GGGGGGACTCAAATTGG-----TG-GCT-----GTTTTCACACAGATG--------TGT------TGGT-----TTGTGGTCCAACTTCTTTATCT-------------GA-AAAAGCCAGT-GAG-AAAACA-TT----TTTGA--TTTGA
+i hg18.chr6 C 0 I 1
+s otoGar1.scaffold_85251.1-136255 24596 150 - 136255 ---AATGTTCTG-----GTCATTGT------GAGA-------AACTGT-TGGCATTG---------TT-----------------CC-T----------TTTGGGA------------------GG--T---TGGGGGACTAAAATTGG-----TG-GCT-----ATTGTCGTACAGATG--------TGT------TGGT-----TTGTGGTCCAACTTCTTTACCT-------------AA-AAAAGCCAGTGGAG-AAAACG-TC----TTTGT--TTTGA
+q otoGar1.scaffold_85251.1-136255 ---999979999-----76979666------7899-------999999-99799999---------99-----------------99-9----------9999999------------------98--9---99999978999999999-----99-899-----999999989999999--------999------9979-----9998996999999999999999-------------99-99999999999999-999999-99----99999--99999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422793 152 - 498454 ---A----TGCG-----GTCATTAT------GAGG-------AACTGG-TGGCATTGTTTGCCTTTTT-----------------CG-T----------TTTTGAA------------------AG-------GGGGGACTAAAATCAG-----GG-GCT-----GTTGTCATGCAGGTG--------TGT------TGGT-----TGGTGGTGCAACTTCCTTACCT-------------GA-AAAAGCCAGTGGAG-AAAACA-TT----TTTG---TTTGA
+q tupBel1.scaffold_114895.1-498454 ---8----8867-----86989986------7967-------776996-7979889879967699995-----------------67-8----------9998679------------------76-------9899656669966769-----99-778-----967677777869967--------579------6998-----6998996569579786986996-------------78-99996598758989-899778-99----9988---99798
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10467 135 - 11555 ---GTTGCTCTG-----GCCACTA-------ATGA-------GGCTGG--G----TG---------TTGGGGGCTAagaggagactg-t----------ttg----------------------aga-----ggtggGATGAAAGTGGG-----TG-GCC-----ATTGTCACACAGGTG--------AGT------TTGA-----CC---GTCCCACTTCTGCTCCT-------------GG-CAAAGCACAA-GAA--------------------------
+q eriEur1.scaffold_241672 ---995459767-----5998699-------9776-------895799--8----76---------958999848977799785795-9----------997----------------------856-----99699793599994999-----79-599-----977577363879546--------559------9765-----99---99999779947779974-------------87-8999995977-999--------------------------
+i eriEur1.scaffold_241672 C 0 I 93
+s canFam2.chr1 78288974 143 - 125616256 ---AACGTGGTG-----GCCATTAC------AAGG-------AACTGG--GCCATTG---------TT-----------------CG-T----------TTC----------------------GGG-----AGCGGGGCTGAAACTGG-----TG-GCC-----ATTGT--CACAGATG--------CGT------TGGT-----TTGTGGTCCAGCCTCTTCACCT-------------GA-AAGAGCCAGT-GGAGAAAACA-TT----TTTGT--TTTGA
+q canFam2.chr1 ---999999999-----99999999------9999-------999999--9999999---------99-----------------99-9----------999----------------------999-----99999999999999999-----99-999-----99999--99999999--------999------9999-----9999999999999999999999-------------99-9999999999-9999999999-99----99999--99999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13081620 147 + 24938454 ---AATGTTTTG-----GTCATTAG------AAGG-------AACTGG--GGCATTG---------TT-----------------TGTT----------TTT----------------------GGG-----AGTGGGACTAAAATTGG-----TG-GCC-----ATTGTCACACAGATG--------TGT------TGGT-----TTGTGGTCCAACTTCTTCACCT-------------GA-AAAAGCTAGT-GGAGAAAACATTT----TTTGT--TTTGA
+q equCab1.chr31 ---999999999-----99999999------9999-------999999--9999999---------99-----------------9999----------999----------------------999-----99999999999999999-----99-999-----999999999999999--------999------9999-----9999999999999999999999-------------99-9999999999-9999999999999----99999--99999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13763116 141 - 95030419 ---AATGGTATG-----ATCATTAC------AGAG-------AAC-AG--GCCATTG---------TT-----------------CG-T----------TTT----------------------GAG-----GGTCGAACTACAATTGG-----TG-GCC-----GCTGTCACACAGATG--------TGT------TGGA-----TTTTGGTCCAACCTCTTCACCT-------------GA-AAAAGCCAGT-GGAGAAAA---GT----TTTGT--TTTG-
+q bosTau3.chr9 ---999999999-----99999999------9999-------999-99--9999999---------99-----------------99-9----------999----------------------999-----99999999999999999-----99-999-----999999999999999--------999------9999-----9999999999999999999999-------------99-9999999999-99999999---99----99999--9999-
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 7112 157 + 8690 ---GAGCTGGAG-----TGTGCGGTTCTCACGAGG-------AGCGGG-TGGCACAG---------TT-----------------GG-C----------TTT----------------------TGGCG---GGGGGGACTGAAAATGGCTGCCCGTTCT-----GTTGACATGAAGATG--------CGT------TGGT-----TCGTGGTCCAGTGTCTTCACCT-------------GGAAAAAGCCGGT-GGA-GAAGAT-GT----TTTGA--TT---
+q dasNov1.scaffold_145011 ---688656686-----555567769688546666-------975665-35799975---------64-----------------65-8----------999----------------------37855---5554778845679957666599766756-----765569846777878--------666------4666-----8365678897535956778994-------------5569888575555-776-687795-68----77567--67---
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 4416 157 - 5330 ---GAGGTTATG-----TTTGCTGT------GAGG-------ACCTGG-TGGCACTG---------TT-----------------TA-TTGGTTTGTTGTTT----------------------GGGAG---GGGAGAGCTGAAATTGA-----TGGGCT-----GTCACCACACAGATG--------T-C------CGGT-----TTGTGGTCCAGTTTCTTTACCT-------------GG-CAAAGCTCAT-GGA-GACAGC-CC----TTTGG--TTTGG
+q echTel1.scaffold_21342 ---999999999-----99999999------9999-------999999-99999999---------99-----------------99-99999999999999----------------------99999---99999999999999999-----999999-----999999999999999--------9-9------9999-----9999999999999999999999-------------99-9999999999-999-999999-99----99999--99999
+i echTel1.scaffold_21342 C 0 I 1
+s monDom4.chr2 106279981 145 - 541556283 ---GATTTTAGGACTGTGTTGGTGT------GTGA-------CACCAT-TTGTACTT---------TT-----------------TT-T----------TTTCCTT------------------GTGATCATAATGGTGAGAGAACCTG-----TG-GTC-----ATGG----AAATATT--------ATT------TGGG-----GTATGGG-----------GCTT-------------GA-AAGAGCCAGT-GGG-GAAAAC-AC----CATGTTCTTTG-
+q monDom4.chr2 ---9999999999999999999999------9999-------999999-99999999---------99-----------------99-9----------9999999------------------9999999999999999999999999-----99-999-----9999----9999999--------999------9999-----9999999-----------9999-------------99-9999999999-999-999999-99----99999999999-
+i monDom4.chr2 I 75 C 0
+s ornAna1.chr2 14921067 128 - 54797317 -----------------------------------------------------ATTT---------CT-----------------TG-A----------CTTTCTACCATT-------------GTGTA---A---------------------TG-GCC---TCATCAGTGTGCAGGTA--------GGT------AGAC-----CTGGCAAATATCAACCTTACCCTTGCTTTTTCCGAGG-GGAAACCAGT-TTT-AGAAAA-CTATGGTTTGC--TGTGA
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61596149 160 - 113657789 GGAAACCTTTGT-----ATTACAGT------GAAG--------TCCAG-TGGCACTT---------TA-----------------TT-T----------GTCTGAATGCTCAG-----------AGGCT---GATGTGACTG-----GC-----TG-GAT-----GTCATAATAGGCAAG--------GCT------CAGTGAAAGTTGTGTT--ACTTTCCTGACCA-------------GG-AAAGGCAAGG-AGG-CAAAGA-GC--GGTTTGG--TACAA
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e sorAra1.scaffold_173811 10479 616 + 14059 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=50816.000000
+s mm9.chr10 3226713 53 + 129993255 ----------TTTTTAAAG------C-TATAGAACA-TATTTATA--AGT-----ATGGCAGCGTCCGCCACAGAA-----------TG------
+s rn4.chr1 230044262 50 - 267910886 ----------TTTTTAAAG------C-TGTAGAGCA-TATTTATC--AGG-----GTGGCAGCGCCCACTGCAGA--------------------
+q rn4.chr1 ----------999999999------9-999999999-99999999--999-----99999999999999999999--------------------
+i rn4.chr1 I 1 C 0
+s oryCun1.scaffold_214769 130446 47 - 139458 ----------TTTTTGCAG------C-TATATTCCA-TATCTGTA--AGT-----GTAGCAGCTTTGACTAT-----------------------
+q oryCun1.scaffold_214769 ----------999999999------9-999999999-99999999--999-----99999999999999999-----------------------
+i oryCun1.scaffold_214769 C 0 I 71
+s cavPor2.scaffold_284118 118735 62 - 169015 ----------tttttaaag------tgtaTGTACCATTATTTGTA--AGC-----ACAGAGGC-TTTGGCATGGAAAGGATA---CGTG------
+q cavPor2.scaffold_284118 ----------799999999------99999999999999999999--999-----99999999-999999999999999979---9999------
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16131265 57 - 170899992 ----------TTTTCTAAA------C-TATCTACCA-TATTT-TA--AGT-----GTAGCAGCTTTGACTTT----GCAATA--ACGTG------
+i hg18.chr6 I 1 C 0
+s panTro2.chr6 16655900 57 - 173908612 ----------TTTTCTAAA------C-TATCTACCA-TATTT-TA--AGT-----GTAGCAGCTTTGACTTT----GCAATA--ACGTG------
+q panTro2.chr6 ----------999999999------9-999999999-99999-99--999-----99999999999999999----999999--99999------
+i panTro2.chr6 I 1 C 0
+s ponAbe2.chr6 16443623 57 - 174210431 ----------TTTTCTAAA------C-TATATACCA-TATTT-TA--AGT-----GTAGCAGCTTTGACTTT----GCAATA--ACATG------
+i ponAbe2.chr6 I 1 C 0
+s rheMac2.chr4 108548235 58 + 167655696 ----------TTTTCTAAA------C-TATGTACCA-TATTTGTA--AGT-----GTAGCAGCTTTGACTTT----GCAATA--ACGTG------
+q rheMac2.chr4 ----------766767676------6-676666776-67676666--666-----66666767676667666----666667--66666------
+i rheMac2.chr4 I 308 C 0
+s calJac1.Contig1260 111723 58 - 523245 ----------TTTTTTAAG------C-TATATACCA-TATTCGTA--AGT-----GTAGCAGCTTTGACTTT----GCAATA--ATGTG------
+i calJac1.Contig1260 I 3 C 0
+s otoGar1.scaffold_85251.1-136255 24746 60 - 136255 ----------TTTTTAAGG------C-TATGTGCCA-CATTTGTA--AGT-----GCAGGAGTTTGGCTTTG----AAAATAACACGTG------
+q otoGar1.scaffold_85251.1-136255 ----------999999999------9-999998999-99999999--999-----99999999999899999----9999999999999------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 422945 56 - 498454 ----------TTTTTAAAG------C-TA----CCA-TATTTGTC--AGT-----GTAGCAGCTTTGACTTT----GAAATAGCGCGTG------
+q tupBel1.scaffold_114895.1-498454 ----------999999999------7-96----998-98999899--999-----99989999999999997----9999999999999------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s bosTau3.chr9 13763257 39 - 95030419 -------------------------------TACCA-CATGCAAA--CGT-----GTAGCAGCCTTGACCTT----GAAATA-------------
+q bosTau3.chr9 -------------------------------99999-99999999--999-----99999999999999999----999999-------------
+i bosTau3.chr9 C 0 I 9
+s equCab1.chr31 13081767 53 + 24938454 ----------TTTTTCAAG------C-TATATACCG-TATTTGTA--AGT-----GTAGCAGCTTTGACTTT----GAAGTA-------------
+q equCab1.chr31 ----------999999999------9-999999999-99999999--999-----99999999999999999----999999-------------
+i equCab1.chr31 C 0 I 9
+s canFam2.chr1 78289117 53 - 125616256 ----------TTTTTCAAG------C-TACATCCCG-TATTTGTA--AGT-----GTAGCAGCTTTGACTTT----GAAATA-------------
+q canFam2.chr1 ----------999999999------9-999999999-99999999--999-----99999999999999999----999999-------------
+i canFam2.chr1 C 0 I 9
+s dasNov1.scaffold_145011 7269 51 + 8690 ------------TCTGAAG------C-TATGTCCCC-TATTTGTA--AGT-----GTAGCAGCTTTGACTTT----GAAATC-------------
+q dasNov1.scaffold_145011 ------------8447997------6-967587898-99994878--876-----99888755984799953----699788-------------
+i dasNov1.scaffold_145011 C 0 I 7
+s echTel1.scaffold_21342 4574 53 - 5330 ----------TGTCCTGAG------C-GCTCTACCT-TGTGTGTC--AGG-----GTAGCGGCTTTGACTCT----GAGGGG-------------
+q echTel1.scaffold_21342 ----------999999999------9-999999999-99999999--999-----99999999999999989----999999-------------
+i echTel1.scaffold_21342 I 1 I 7
+s monDom4.chr2 106280126 54 - 541556283 ----------TGGAAAAAA------C-TGTGTCCTA-AAGTTGAAT-AAT-----ATAGCAGCTTAGACTTG----GAAAAG-------------
+q monDom4.chr2 ----------999999999------9-999999999-999999999-999-----99999999999999999----999999-------------
+i monDom4.chr2 C 0 I 10
+s ornAna1.chr2 14921195 25 - 54797317 ---------------------------------------------GTTGA-----ACAGCTGTCTTGATTTG----AAT----------------
+i ornAna1.chr2 C 0 I 3
+s galGal3.chr3 61596309 80 - 113657789 CTTAGCAATATGTTGCAAGATCTTAT-TGCATGATA-AGCCTGTG--AGGATGAAGTAGTGGCATTGCTATT----CTAATA-------TCCAAG
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e sorAra1.scaffold_173811 10479 616 + 14059 I
+e eriEur1.scaffold_241672 10602 93 - 11555 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=-111406.000000
+s mm9.chr10 3226766 16 + 129993255 -------ATGTG----TGTGA----GGCTC-T
+s cavPor2.scaffold_284118 118797 15 - 169015 -------GTAAG----TGTG-----TGCTC-T
+q cavPor2.scaffold_284118 -------99999----9999-----99999-9
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044312 12 - 267910886 -----------G----TGTGA----GGCTG-T
+q rn4.chr1 -----------9----99999----99999-9
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131322 20 - 170899992 -------GCAAG----TATCTGAT-TTCTCCT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16655957 20 - 173908612 -------GCAAG----TATCTGAT-TTCTCCT
+q panTro2.chr6 -------99999----99999999-9999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16443680 20 - 174210431 -------GCAAG----TATCTGAT-TTCTCCT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108548293 20 + 167655696 -------GCAAG----TATCCGAT-TTCTCCT
+q rheMac2.chr4 -------66666----77766666-6766666
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 111781 19 - 523245 -------GCAAG----TGTCTGA--TTCTCCT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24806 20 - 136255 -------GCAAG----TGTCTCCTGCTCTCC-
+q otoGar1.scaffold_85251.1-136255 -------99999----999999999999999-
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423001 19 - 498454 -------ACAAG----TGTCCAAAGCTCTC--
+q tupBel1.scaffold_114895.1-498454 -------89999----97999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10695 21 - 11555 ---------AGAGTTCTGTCTGA--TGCTCCT
+q eriEur1.scaffold_241672 ---------99999999999999--9999999
+i eriEur1.scaffold_241672 I 93 C 0
+s canFam2.chr1 78289179 17 - 125616256 ---------ATG----CATTTCA--TGCTGTT
+q canFam2.chr1 ---------999----9999999--9999999
+i canFam2.chr1 I 9 C 0
+s equCab1.chr31 13081829 17 + 24938454 ---------AAG----TGTCTGA--TATTCTT
+q equCab1.chr31 ---------999----9999999--9999999
+i equCab1.chr31 I 9 C 0
+s bosTau3.chr9 13763305 17 - 95030419 ---------CAG----CATCTGA--TGTTCTT
+q bosTau3.chr9 ---------999----9999999--9999999
+i bosTau3.chr9 I 9 C 0
+s dasNov1.scaffold_145011 7327 9 + 8690 -------GGAAG----CGTC------------
+q dasNov1.scaffold_145011 -------88999----9994------------
+i dasNov1.scaffold_145011 I 7 I 10
+s echTel1.scaffold_21342 4634 9 - 5330 -------AGAAG----CACT------------
+q echTel1.scaffold_21342 -------99999----9999------------
+i echTel1.scaffold_21342 I 7 I 40
+s monDom4.chr2 106280190 8 - 541556283 -------GAAAA----TGT-------------
+q monDom4.chr2 -------99999----999-------------
+i monDom4.chr2 I 10 I 13
+s ornAna1.chr2 14921223 8 - 54797317 -------GAAAT----TGG-------------
+i ornAna1.chr2 I 3 I 19
+s galGal3.chr3 61596389 15 - 113657789 ATCTGAGGGAAG----TCT-------------
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e sorAra1.scaffold_173811 10479 616 + 14059 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130493 71 - 139458 I
+
+a score=66517.000000
+s mm9.chr10 3226782 63 + 129993255 TTGTAGCAGGGCTTTC-TT----TACCT--ACAGA---TCAGCTGT----------------------TACCCGCGCCCAGCCACCCCCCCACCC
+s cavPor2.scaffold_284118 118812 45 - 169015 TCTGAGCAGAGG-----TT----TAGGT--GTGAA---T---CTGT----------------------TCCATGTG-----------GTTAATCC
+q cavPor2.scaffold_284118 999999999999-----99----99999--99999---9---9999----------------------99999999-----------99999999
+i cavPor2.scaffold_284118 C 0 I 15
+s rn4.chr1 230044324 46 - 267910886 TTGGAGCAGAGC------T----TACCT--GCAGG---TCAGCTCT----------------------TATGTGTG------------TTCACCC
+q rn4.chr1 999999999999------9----99999--99999---99999999----------------------99999999------------9999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131342 45 - 170899992 TTGAGGCAGAGG-----TT----TAAGT--GTAGG---C---CTGT----------------------TACACTTG-----------TTTGATAC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16655977 45 - 173908612 TTGAGGCAGAGG-----TT----TAAGT--GTAGG---C---CTGT----------------------TACACTTG-----------TTTGATAC
+q panTro2.chr6 999999999999-----99----99999--99999---9---9999----------------------99999999-----------99999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16443700 45 - 174210431 TTGAGGCAGAGG-----TT----TAAGT--GTAGG---C---CTGT----------------------TACACTTG-----------TTTGATAC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108548313 45 + 167655696 TTGAGGCAGAAG-----TT----TAAGT--ATAGG---C---CTGT----------------------TACACTTG-----------TTTGATAC
+q rheMac2.chr4 666677677676-----66----66667--77666---6---7677----------------------66676666-----------66676666
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 111800 43 - 523245 TTGAGGCAGATG------T----TAAGT--GTA-G---C---CTGT----------------------TACACTTG-----------TTCAATAC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24826 42 - 136255 ---AAACAGAGG-----TG----TAAGT--GTAGG---C---CCGT----------------------TACACTTG-----------ATTCATTT
+q otoGar1.scaffold_85251.1-136255 ---999999999-----99----99999--99999---9---9999----------------------99999999-----------99999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423020 30 - 498454 ------------------------AAGT--GTAAG---T---CTGT----------------------TACACTTG-----------GTGAATCC
+q tupBel1.scaffold_114895.1-498454 ------------------------9999--99999---9---9999----------------------99999999-----------99995999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10716 45 - 11555 TCGAAGCGGAAG-----AT----AAAGG--CTACA---C---CCAT----------------------TACTTTTG-----------CTCCATCC
+q eriEur1.scaffold_241672 999999999999-----99----99999--99999---9---9979----------------------99999999-----------99999999
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78289196 47 - 125616256 TCAAAGAAGTGG-----TTGAAGTAAGT--GTAGG---C---CTGT----------------------TACACTTG-----------GTTATT--
+q canFam2.chr1 999999999999-----99999999999--99999---9---9999----------------------99999999-----------999999--
+i canFam2.chr1 C 0 I 1
+s equCab1.chr31 13081846 45 + 24938454 TCAAAGCAAAGG-----TT----TACGT--GTAGA---C---CTGT----------------------TACACTTG-----------GTTAATCC
+q equCab1.chr31 999999999999-----99----99999--99999---9---9999----------------------99999999-----------99999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13763322 43 - 95030419 TCAGAGCAGAGG-----TA----TAAAT--GTAGG---C---CTGT----------------------TACACTTG-----------TTTAAC--
+q bosTau3.chr9 999999999999-----99----99999--99999---9---9999----------------------99999999-----------999999--
+i bosTau3.chr9 C 0 I 2
+s dasNov1.scaffold_145011 7346 48 + 8690 TCACAGCGGAGG-----TG----TAAGT--GTAGG---T---CTGT-------------------TTCTACATTTG-----------GTTTATCC
+q dasNov1.scaffold_145011 999998888998-----69----99995--99996---9---6599-------------------99799999989-----------89999999
+i dasNov1.scaffold_145011 I 10 C 0
+s monDom4.chr2 106280211 46 - 541556283 TGAAAGCAGAGA-----AT----AATGTTGGGGAA---T---TTGT----------------------CACACTTG-----------ATCATTC-
+q monDom4.chr2 999999999999-----99----999999999999---9---9999----------------------99999999-----------9999999-
+i monDom4.chr2 I 13 I 1
+s ornAna1.chr2 14921250 43 - 54797317 GTAAACCAGAGA-----GT------AGT--ACAGGGGCC---TTGT----------------------TACACTGC-----------AACAG---
+i ornAna1.chr2 I 19 C 0
+s galGal3.chr3 61596404 69 - 113657789 --TAGGAAGAGGGGTCTCT----TATCT--AGAGA---C---ATTTGCAAGTTGGGCTAGTCTAACTGTAAATCTG-----------TCCAACC-
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e sorAra1.scaffold_173811 10479 616 + 14059 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e echTel1.scaffold_21342 4643 40 - 5330 I
+e oryCun1.scaffold_214769 130493 71 - 139458 I
+
+a score=284762.000000
+s mm9.chr10 3226845 124 + 129993255 CC-CTTTCAGTAAC-----AGCCTC--CA-TGTAGGTGA-GCCAATACACAAATTCACGAGC--ACG-CTTTGATGGA-----------ACTTAG----CATATG-CA-AAGAAGTGTG------------TGCTTTTT-GTGAATGG------TGTTGCAG--T-----TGTAT------------------ATGGG--
+s rn4.chr1 230044370 126 - 267910886 CC-CCTTCAGTAAC-----AGCCTC--CG-TGTAGGGGA-GCCAGT-CACAAGCTCACGAGC--ACG-CTTTGATGGA-----------ACCTTG----CGTATA-CA-AAGACGTGTG------------TGCGTTTT--TGAGAGG------TGTCGCAG--TTA-CGTGTAC------------------GAGGG--
+q rn4.chr1 99-99999999999-----999999--99-999999999-999999-999999999999999--999-9999999999-----------999999----999999-99-9999999999------------99999999--9999999------99999999--999-9999999------------------99999--
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131387 137 - 170899992 CT-TTTTCATGA-C-----AGTCTC--AG-TATAGATCA-GTTGGTACAGAAATACATGAAC--ACA-TTTTGATAGG-----------GCTTAT----TTCACA-CA-AAGAAGTTTA------------TGGTTATTTGTGTGGGG------TGGTGTTG--T---TATATATTAT-------TGTCTTTAAGGGA--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656022 137 - 173908612 CT-TTTTCATGA-C-----AGTCTC--AG-TATAGATCA-GTTGGTACAGAAATACATGAAC--ACA-TTTTGATAGG-----------GCTTAT----TTCACA-CA-AAGAAGTTTA------------TGGTTATTTGTGTGGGG------TGTTGTTG--T---TATATATTAT-------TGTCTTTAAGGGA--
+q panTro2.chr6 99-999999999-9-----999999--99-999999999-9999999999999999999999--999-9999999999-----------999999----999999-99-9999999999------------99999999999999999------99999999--9---9999999999-------9999999999999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16443745 136 - 174210431 C--TTTTCATGA-C-----AGTCTC--AG-TATAAATCA-GTTGGTACAGAAACACATGAAC--ACA-TTTTGATAGG-----------GCTTAT----TTCACA-CA-AAGAAGTTTA------------TGTTTATTTGTGTGGGT------TGTTGTTG--T---TATATATTAT-------TGTCTTTAAGGGA--
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108548358 133 + 167655696 CT-TTTTCATGA-C-----AGTCTC--AG-TATAGATCA-GTTGGTACAGAAACACATGAAC--ACA-TTTTGATAGG-----------GCTTAT----TTCACA-CA-AAGAAGTTTA------------TGGTTATTTGTGTGGGG---------TGTTG--T---TATATATTAT-------TGTCTTTAA-GGA--
+q rheMac2.chr4 76-666666666-6-----676676--67-666666666-6666666666666776666666--666-6666766666-----------676667----766766-66-6676766666------------76666676666667666---------67666--6---7666666766-------666766666-676--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 111843 139 - 523245 CT-TCTTCATGA-C-----AGTCTT--AG-TATAGATCA-GTTGGTACCGAAACACATGAAC--ACA-TTTTGATAGG-----------GCTTAT----TTCACA-CA-AAGAAGTTTG------------TGGTTATTTGTGTGGGG------TGTTGTTGTTT---TATATATTAT-------TGTTTTTAAGGAA--
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 24868 140 - 136255 CC-ATTTT-TGT-A-----AGTCTC--AG-TATAGGTCA-GTTAATACA-AACCACATGAAC--ACA-TTTTGATAGG-----------GCTTAT----TACACA-CA-AAGAACTGTA------------TGTTTATTTGTGAGGGGTATTGTTGTTGTTG--T---TACATATTAT-------TGTCTGTAA-GGG--
+q otoGar1.scaffold_85251.1-136255 99-99999-999-9-----999999--99-999999999-999999999-999999999999--999-9999999999-----------999999----999999-99-9999999999------------9999999999999999999999999999999--9---9999999999-------999999999-999--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423050 132 - 498454 CCACTTTTATAA-C-----GATCTC--AC-TATAGGTCA-GTTAACACAGAAGTACATGAAC--ACCTTTTTGATAGG-----------GCTTAT----TACAAA-CA-AAG---TTTA------------TGGTTATTTGTGAGGGG---------TGTTG--T---CATATATTGT-------TGTCTATAA-GGG--
+q tupBel1.scaffold_114895.1-498454 997999999999-7-----999999--99-999999999-9999999999999999999999--99999999999999-----------999999----999999-99-999---9999------------99999999999999999---------99999--9---9999999999-------999999999-999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s eriEur1.scaffold_241672 10761 137 - 11555 CT-TGTTCATAA-T-----GACGTC--TG-TGTAGGTTG-AGGCTGACAGAGATGTGAGGTC--ATG-TCCACAGAGG-----------GCTTAT----TCCACA-AG-AAGAACTTCC------------TGGTTCCTTTGAAGGTGTGGTG-----GTTG--T---TATATATTAT-------CATCTTTAAGGG---
+q eriEur1.scaffold_241672 99-999999999-9-----999999--99-999999999-9999999999999999999999--999-9999999999-----------999999----999999-99-9999999999------------9999999999999999999999-----9979--9---9999999999-------999999999978---
+i eriEur1.scaffold_241672 C 0 I 1
+s canFam2.chr1 78289244 143 - 125616256 CC-TTTTCCTAA-C-----AACCTCGGTA-TGTAGGTCA-GTTAATAGAGAAACACATGAAC--ACA-TTTAGATAGG-----------GCTTAT----TACACA-CA-AAGAAGTTTA------------TGGTTATTTGTGAGGGGTGGCG-CATTGTTA--T---TATATATTAT-------TGTCTTTAAGGG---
+q canFam2.chr1 99-999999999-9-----9999999999-999999999-9999999999999999999999--999-9999999999-----------999999----999999-99-9999999999------------9999999999999999999999-99999999--9---9999999999-------999999999999---
+i canFam2.chr1 I 1 I 1
+s felCat3.scaffold_217398 149019 134 - 219823 CC-TTGTCATAA-C-----CATCTCCATA-GATAAGTCA-ATTAATGCAGAAACACGTGAAC--ACG-TTTAGATAGG-----------GCTTAT----TACACA-CA-AAGAAGTTCA------------TGGTTATTTGTGAGGGG----------GGTG--T---TATACGTTGT-------TGTCTTTAAGGG---
+q felCat3.scaffold_217398 97-676543987-9-----7786686547-266562885-6766689952856845283666--458-9687277898-----------978696----766457-53-6638828666------------49957999966585968----------7949--9---6868739799-------353456467398---
+i felCat3.scaffold_217398 N 0 C 0
+s equCab1.chr31 13081891 144 + 24938454 CC-TTTTCATAA-T-----GATCTCTCAG-TATAGGTCA-ATTAATACAGAAACACAGGGAC--GCA-TTTAGATAGG-----------GCTTGT----TACGCA-CC-AAGAAGTTTA------------TGGTTATTTGTGAGGGGTGTCGTTGTTATCG--T---TATATATTAT-------TATCTTTAAGGA---
+q equCab1.chr31 99-999999999-9-----9999999999-999999999-9999999999999999999999--099-9999999999-----------999999----999999-99-9999999999------------9999999999999999999999999999999--9---9999999999-------999999999999---
+i equCab1.chr31 C 0 I 1
+s bosTau3.chr9 13763367 137 - 95030419 AG-TTTGCATAA-C-----AATC----AG-TGTAGGTCA-GTTAATACAGAAACACGTGAAA--ACA-TTTAGATAGG-----------GCTTAC----TACACA-CA----AAGTTTA------------TGGTTATTTGTAAGGGGTGTCATTGTTAATG--G---TGTATATTAT-------TGTCTTTAAGGG---
+q bosTau3.chr9 99-999999999-9-----9999----99-999999999-9999999999999999999999--999-9999999999-----------999999----999999-99----9999999------------9999999999999999999999999999999--9---9999999999-------999999999999---
+i bosTau3.chr9 I 2 I 1
+s oryCun1.scaffold_214769 130564 131 - 139458 -------------C-----AGTCTC--TG-TGTAGGTCA-GTTAATGCAGAAACACATGGAT--ACA-TTTTGATATACATGGATGCACGTTTTGTGACCATACA-CA-AAGAAGTGTG------------TGGCCCTT---------------TGT----G--TTGTTATATATTGT-------CCTCTCTAAGGGA--
+q oryCun1.scaffold_214769 -------------9-----999999--99-999999999-9999999999999999999999--999-9999999999999999999999999999999999999-99-9999999999------------99999999---------------999----9--99999999999999-------9999999999999--
+i oryCun1.scaffold_214769 I 71 C 0
+s cavPor2.scaffold_284118 118872 113 - 169015 -------------T-----AGCCTG--TG-TCTA-------TTAATGCAGAGACGCAGGAGC--GTG-TGTGGACAGG-----------------------------A-AAGCAGTTTA------------TGGTTACTCGTGAGAGG---AATTGTCGTAG--TCGTTATGTATTAT-------TGTCTTTAAGGGA--
+q cavPor2.scaffold_284118 -------------9-----999999--99-9999-------999999999998999999999--999-9999979999-----------------------------9-9999999999------------99999999999999999---99999999999--99999999999999-------9999999999999--
+i cavPor2.scaffold_284118 I 15 C 0
+s dasNov1.scaffold_145011 7394 145 + 8690 CC-TTTTCATAA-AAAAAGAATCTC--CG-TACTGTATAGGTCAATG----AATACCGAATC--ACA-GTTAGATACA-----------GATTAT----CACACG-CA-GAGAAGTTTG------------TTGTTATTTGCGAGGGGTGTTGTCGTCGTCG--T---TATATATTAT-------TATCTTTAAGGGG--
+q dasNov1.scaffold_145011 99-976999999-999999999999--99-99999999999999999----99999999999--999-9999999999-----------999999----999999-99-9999999999------------9999999999999999999999999999999--9---9999999999-------9999999999999--
+i dasNov1.scaffold_145011 C 0 I 1
+s echTel1.scaffold_21342 4683 124 - 5330 -------------------GACCTC--AG-AGCAGGGCA-GCCGATGC--AGACACGTGAAC--TCA-GTGAGGCCCG-----------GATTCT----CCCACA-CA-ACGACGCTGC------------AGTTCTTTTGCGAGGGTGG-----AGCAATG--T---TGTATATTAC-------TGTCTTTAAGGGG--
+q echTel1.scaffold_21342 -------------------999999--99-999999999-99999999--999999999999--999-9999999999-----------999999----999999-99-9999999999------------9999999999999999899-----9999999--9---9999999999-------9999999999999--
+i echTel1.scaffold_21342 I 40 I 1
+s monDom4.chr2 106280258 136 - 541556283 CC-TTTTGGTGG-A-----AATTTC--AT-TGTAGTTTT-TCTG--------------GAGC--ATA-CTT----ATG-----------GTTTAC----TACACA-TGCAAGAAATACATCATTCTTCAG-TGGTTATTTGTGCATTT-GATGATGATGGTA--T---TAGCAAGTAA-------TGTCTTTAAAGAG--
+q monDom4.chr2 99-999999999-9-----999999--99-999999999-9999--------------9999--999-999----999-----------999999----999999-999999999999999999999999-99999999999999999-9999999999999--9---9999999999-------9999999999999--
+i monDom4.chr2 I 1 I 4
+s ornAna1.chr2 14921293 93 - 54797317 -----------------------------------------------------CACATGAGCATACA-TTTAGATACA-----------GATTAT----CACCCATTG-ACGAAATCCA---TTCTTCAGTTGGTTATT--TAAGGGT---TTTTTTTGTTG--T---TACATATA------------------------
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61596473 135 - 113657789 -----TGCTTTA-T-----ATTCTA--TGCTATTCTTCT-ACTGTTAT-GTAACAC---AGC--ACA----------A-----------ATTAAG----TGCACA-GA-ACAGCTGAAG------------TGCTCATCCCTAAAGAT-GTATGGATTGTTA--C---AATATGCCATGGAGATGCATCTGTTGAGGTGG
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e sorAra1.scaffold_173811 10479 616 + 14059 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=1298509.000000
+s mm9.chr10 3226969 191 + 129993255 AAAGGAG--------CTATA--A-----------------------GATTTGCTGACAG-----CCAAAGTGTATTGTTC-------------------------AG-GAAGCAGAAGCAACCAGAGT-TAGAGTTATGAGGCA--T-TGGT-CAG-TTTGCA-GTGTTGATCTGTTTGATG---TCTGTGT------TCG-----AGGGGGGGGGGGGGAAAC-----CTA--C---AGTCCTTC----------CCA---------GGTG-TAC-AC----ATTTTTGCTA-ATTAGAAATATCTTGG-AA
+s rn4.chr1 230044496 177 - 267910886 AAAGAAG--------CTATA--A-----------------------GATTTGCTGACAG-----CCAAAGCGTA--GTTC-------------------------CG-GAAGCTGAAGCAACCGGATT-TA-------GAGGCA--T-CGGT-CAG-TTTGCG-GTATTGGCCTGTTTGATG---TCTGTGT------TCT-----A-----GGGGGGAAAAGC-----CTT--C---AGGCCTTC----------CCA---------GGTG-TGC-AC----AGTTTTGCTA-GTTAGAAATATCTTGG-AA
+q rn4.chr1 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-99-------999999--9-9999-999-999999-999999999999999999---9999999------999-----9-----999999999999-----999--9---99999999----------999---------9999-999-99----9999999999-9999999999999999-99
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 118985 180 - 169015 AAAGAAG--------CTATA--A-----------------------GATTTGCTGAAAG-----CCAAAGTATC--ATTC-------------------------AGAAAAGTTAAAGCAACCAGATT-TAAGTTTGTGAGAGT--C-ACAT-CAG-TTTGCATTTTTTGGCCTTTTCGATG---TCTGTCT------TCT-----A----------GAAAGAA-----CCA--C---AGCTCTTC----------AAA---------ATTG-GAC-AC----A-TGTTGCTA-ACTAGAAATGTCTTGG-AA
+q cavPor2.scaffold_284118 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99999999999999999999999-999999999999999--9-9999-999-9999999999999889999999999---9999999------999-----9----------9999999-----999--9---99999999----------999---------9999-999-99----9-99999999-9999999999999999-99
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 130695 181 - 139458 AAAGAAG--------CTATC--A-----------------------GACTTGCTGACTG-----CCAAAGTCTC--ATTC-------------------------AG-AAAAGCAAAGCAGCGAGATT-TAGTTTTATGAGAGA--T-ACAT-CAG-TTTGCA--TTTTGACCTTTTCAATG---TCCATCT------TCC-----A--------GAAAAAAAC-----CTTTGC---AATTGTCC----------AAA---------ATTG-TGC-AC----A-TTTTTCTT-ACTAGAAATATCTGGA-AA
+q oryCun1.scaffold_214769 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999999999999--9-9999-999-999999--97439239999999999---9998999------999-----9--------999898999-----999541---99174529----------999---------9946-689-68----6-69999967-7867899553675359-94
+i oryCun1.scaffold_214769 C 0 I 838
+s hg18.chr6 16131524 179 - 170899992 AAAGAAG--------CTATA--A-----------------------GATTCGCTGACAG-----CCAAAGTATC--ATTT-------------------------AG-AAAAGTGAAGCAACAAGATT-TAGGTTGATGAAAGA--T-ACAT-GAG-TTTGCA--TTTTGACCTGTTCAGTG---TCTGTCT------TCC-----A--------GCACGGTGT-----GTA--C---ACTTCTTC----------AAA---------ATTG-TAC-AC----A-GTTTGCTA-ATTAGAAATATCTTGG-AA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656159 179 - 173908612 AAAGAAG--------CTATA--A-----------------------GATTCGCTGACAG-----CCAAAGTATC--ATTT-------------------------AG-AAAAGTGAAGCAACAAGATT-TAGGTTGATGAAAGA--T-ACAT-CAG-TTTGCA--TTTTGACCTGTTCAGTG---TCTGTCT------TCC-----A--------ACATGGTGT-----GTA--C---AGTTCTTC----------AAA---------ATTG-TAC-AC----A-GTTTGCTA-ATTAGAAATATCTTGG-AA
+q panTro2.chr6 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999999999999--9-9999-999-999999--99999999999999999---9999999------999-----9--------099999999-----999--9---99999999----------999---------9999-999-99----9-99999999-9999999999999999-99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16443881 180 - 174210431 AAAGAAG--------CTATA--A-----------------------GATTTGCTGACAG-----CCAAAGTATC--ATTT-------------------------AG-AAAAGTGAAGCAACAAGATT-TAGGTTAATGAAAGA--TAACAT-CAG-TTTGCA--TTTTGACCTGTTCAGTG---TCTGTCT------TCC-----A--------GCACGGTGT-----GTA--C---AGTTCTTC----------AAA---------ATAG-TAC-TC----A-GTTTGCTA-ATTAGAAATATCATGG-AA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108548491 179 + 167655696 AAAGAAG--------CGATA--A-----------------------GATTCGCTGACAG-----CCAAAGTATC--ATTT-------------------------AG-AAAAGTGAAGCAACAAGATT-TAGGTTGATGAAAGA--T-ACAT-CAG-TTTGCA--TTTTGACCTGTTCAGTG---TCTGTCT------TCC-----A--------GCACAGTGT-----GTA--C---AGTTCTTC----------AAA---------ATTG-TAC-GC----A-GTTTGCTA-ATTAGAAATATCTTGG-AA
+q rheMac2.chr4 7666666--------66667--7-----------------------6666666666666-----6766666666--6666-------------------------66-67666667666677777666-666666666666666--7-6666-666-667667--66666656656666567---6666566------667-----6--------666665767-----666--6---66766666----------666---------6666-667-76----7-66666666-6666666666644334-56
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 111982 182 - 523245 AAAGAAG--------CTATT--A-----------------------GATTCGCTGACAG-----CCAAAGTATC--ATTT-------------------------AG-AAAAGTGAAACAACAAGATT-TAGGTTTATGAAAGG--T-CTAT-CAG-TTTGCA--TTTTGACCTGTTCAGTGTATTCTGTCT------TCC-----G--------GCATAGTAT-----GTG--C---AGTTCTTC----------AAA---------ACTG-TAC-AC----G-ATTTGCTG-ATTAGAAATATCTTGG-AA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25008 176 - 136255 AAGGAAG--------CTATA--C-----------------------GATTTGCTGACAG-----CCAAAGTATC--ATTC-------------------------AG-AAACATGA---AACAAGATT-TGGGTTAATGAGACA--T-AGAT-CAG-TTTGCA--TTTCACCCTGTCCAATG---TCTATCT------TCC-----A--------GAAAAGAAT-----GTA--C---AGTTCTTT----------GAA---------ATTG-TAC-AC----A-TTTTGCTA-ACTAGAAATATCTTGG-AA
+q otoGar1.scaffold_85251.1-136255 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999---999999999-999999999999999--9-9999-999-999999--99999999999999999---9999999------999-----9--------999999999-----999--9---99999999----------999---------9999-999-99----9-99999999-9999999999999999-99
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423182 174 - 498454 AAGGAAG--------CTGTA--A-----------------------GATTTGCTCAAAG-----CCAAAGTATC--ATTC-------------------------CG-AAAAGTGAAGCAACA--ATT-TAGGTTTATG--AGA--T-ACAT-CAA-TTTGCA--TTTTTA-CTGTTCAATG---TCTATCT------TCC-----A--------GAAAAGAAT-----GTG--T---ACTTCTTC----------AAA---------ACTG-TGC-AT----A-TTTTGCTA-ATTAGAAATATCTTGA-GA
+q tupBel1.scaffold_114895.1-498454 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-999999999999999--999-9999999999--999--9-9999-999-999999--999999-9999999999---9999999------999-----9--------999999999-----999--9---99999999----------999---------9999-999-99----9-99999999-9999999999999999-99
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11095 195 + 14059 aaaaaag--------ctcta--a-----------------------gaTTTGCTGGCTG-----CCAAAGTCTC--ATTT-------------------------AG-GAAAATGAAGCAACAATACT-TACAGTTCTGAGTGA--T-ACATGCAG-TTTGCA--TTGCGATCTGTTTAATG---TCCATCT------TTTAGGAAA--------GAGAGGAGC-----AGT--C---CTCTCTTTCACAGTTACCAAA---------ACTG-TAC-AC----A-GTTTGCTA-ATTAGAACTGTCTTGA-AA
+q sorAra1.scaffold_173811 8888844--------47385--4-----------------------7558355285445-----6859447356--5586-------------------------44-56994258566725835767-769759824697677--5-69645875-894597--55676576678988958---7995879------997674995--------797667889-----769--9---795979999897888699999---------6859-989-99----9-99778989-7989997968998889-99
+i sorAra1.scaffold_173811 I 616 C 0
+s eriEur1.scaffold_241672 10899 209 - 11555 AAAGAAG--------TTACA--T-----------------------GATGTGCTGACTGGCAACCAAAAGGCTC--Aattcagacaaaaacaaaaccaaaaaaaaaa-aaaaatgaagcaccaGTTCT-TAGGTTTATGAGGGA--G-ACAT-CAG-GCTGCA--TTTTGACCTGTTCGTTG---agcatttgttttcttt---------------aaaggAGC-----AGG--T---GGTTCTTT--------TTGAA---------GGCC-TAT-AA----A-TCTTGCT-------CCCTATCTCAG-GA
+q eriEur1.scaffold_241672 9997577--------99999--9-----------------------9999699466777259579999986878--8685899977888467782678998988888-88887567667568555868-868889966888869--9-7877-969-875787--99988799679978859---8999996999999999---------------89688899-----888--6---88999999--------96898---------9899-989-99----7-8998999-------99998988989-99
+i eriEur1.scaffold_241672 I 1 C 0
+s canFam2.chr1 78289388 183 - 125616256 AAAGAAG--------CTATA--A-----------------------GATTTGCTGACAG-----CCAAAGTATC--ATTC-------------------------AG-AAAGATGAAACAACAATATT-TAGGTTTATGAGAGA--T-ACAT-CAG-TTTGCA--TTTTGA-CTGTATAACA---TCTGTCT------TCC-----A--------GAAGAAAAAAAACCAGG--C---AGTTCTTC----------AAA---------ATTG-TAC-AT----A-TTTTGCTA-AATAGAAATCTCTTGG-AC
+q canFam2.chr1 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999999999999--9-9999-999-999999--999999-9999999999---9999999------999-----9--------99999999999999999--9---99999999----------999---------9999-999-99----9-99999999-9999999999999999-99
+i canFam2.chr1 I 1 C 0
+s felCat3.scaffold_217398 149153 177 - 219823 AAAGAAG--------CTATA--A-----------------------GATTTGCTGACAG-----CCAAAGTATC--ATGC-------------------------AG-AAAAATGAAGCAACAATATT-TAGGTTTATGAGAGA--T-ACAT-CAG-TTTGCA--TTTTGA-CTGTTTAATG---CCTGTCT------TCC-----G--------GAAAAAAAA-----AGG--C---AGTTCTTC----------AAA---------ATTG-TAC-AT----A--TTTGCTA-AATAGAAATCTCTTGG-AA
+q felCat3.scaffold_217398 9995985--------99999--9-----------------------9969999999979-----9979999989--7798-------------------------56-99999999999999999999-998999799999999--9-9989-876-999999--999999-9999999999---9999999------999-----9--------999999999-----999--9---99999999----------999---------9999-999-99----9--9999999-9999999999999999-99
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082036 183 + 24938454 AAAGAAAGA-----TTCATA--A-----------------------GATTTGCTGACAG-----CCAAAGTATC--ATTC-------------------------AG-AAAGATGAAGCAACAATACT-TAGGTTTATGAGAGA--T-ACAT-CAGTTTTGCA--TTTTGACCTGTTCAATG---TCTATCT------TCC-----A--------GAAAAGAAT-----GGA--C---AGTTCTTT----------AAA---------ATTG-TAC-AC----A-TTTTGCTA-ATTAGAAATTTCTCGG-AA
+q equCab1.chr31 999999999-----999999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999999999999--9-9999-9999999999--99999999999999999---9999999------999-----9--------999999999-----999--9---99999999----------999---------9999-999-99----9-99999999-9999999999999999-99
+i equCab1.chr31 I 1 C 0
+s bosTau3.chr9 13763505 180 - 95030419 AAAGAAG--------CTATAATA-----------------------GACTTGCTGACAG-----CCAAAGTCTC--ATTC-------------------------AG-AAAAATGAAGCAAGCATACT-TAGGTTTATGAGAGA--G-ACAT-CAA-TTTGCA--TTTTAACCTGTTCAGTG---ACTATCT------TCC-----A--------GAAAAGAAT-----GGA--C---AGTTCTTC----------AAA---------ATTG-TAC-AT-------TTTGCTA-ATTAGAAACCTCTTGGAAA
+q bosTau3.chr9 9999999--------99999999-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999999999999--9-9999-999-999999--99999999999999999---9999999------999-----9--------999999999-----999--9---99999999----------999---------9999-999-99-------9999999-9999999999999999999
+i bosTau3.chr9 I 1 C 0
+s dasNov1.scaffold_145011 7540 180 + 8690 AAAAAAG--------CTATA--A-----------------------AATTTGCTGTTAG-----CCAAAGTATC--TTTC-------------------------AG-AAAAATAAAACAACAATATT-CAGATTTATGAGCGA--T-ACGT-CAG-TTCACA--TTTGGACCTGCTCAATG---TCTGCCT------TCC-----A--------GAAAAGAAC-----ATA--C---AGTTCTTC----------AAA---------ATTGTTAC-AT----G-TCTTGCTA-ATTAGATATATCTTGG-AA
+q dasNov1.scaffold_145011 9999999--------99999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999999999999--9-9999-999-999999--99999999999999999---9999999------999-----9--------999999999-----999--9---99999999----------999---------99999999-99----9-99999999-9999999999999999-99
+i dasNov1.scaffold_145011 I 1 C 0
+s echTel1.scaffold_21342 4808 196 - 5330 GGGTGGG---------GATT--T-----------------------GACTTGCTGACAG-----CCAAAGCACC--ATTC-------------------------AG-ACAGAGGAAGTGACGACATT-TAGGCTTATGAGCCAATA-ACAC-CAG-TTTGCA--TTTTGACCTGCTCAATG---TTTAACT------TCC---CAG--------GGGAAAAAC-----ATA--T---AGATATAT----------AGATATATACTTATATCTAC-ATCTGCC-TTTTTCTA-ATTAGAAAGATCTGAG-AC
+q echTel1.scaffold_21342 9999999---------9999--9-----------------------9999999999999-----9999999999--9999-------------------------99-99999999999999999999-999999997999999999-7976-999-999999--99999899999999989---9999999------879---999--------999999999-----999--9---99999999----------99999989999998889999-7999699-99999989-9989999999999999-99
+i echTel1.scaffold_21342 I 1 C 0
+s monDom4.chr2 106280398 161 - 541556283 AAAAAAG--------CTATA--A-------------------GATTGATTTGCTGGCAA-----CCAAA-------GCTA-------------------------AA-AAAA------CAACCACTCTGTAGACTTATGAGTGA--C-TAAG-CAG-TTGGCA--TTTTGAACTGTTAAGTA---TCTATAT------CCT-----A--------GAAAAA--------GAA--C---CCTTTATC----------AAA------------------------A-TTTTGCTA-TTCAGAGATACCTTGG-AA
+q monDom4.chr2 9999999--------99999--9-------------------99999999999999999-----99999-------9999-------------------------99-9999------99999999999999999999999999--9-9999-999-999999--99999999999999999---9999999------999-----9--------999999--------999--9---99999999----------999------------------------9-99999999-9999999999999999-99
+i monDom4.chr2 I 4 C 0
+s ornAna1.chr2 14921386 151 - 54797317 --------ATTCTTTTTTTA--A-----------------------GATTTGCTGGCAA-----CCAAAGTACC--TTTC-------------------------A--AAAATTAAAGTGACT---CT-AGGGCTAGGGAGTGC--C-TCAG-AAG-TTTGCA--TTT-----TGTTTAATG-------TAA------TAT-----A--------GGAAATAAA-----AT---C---AGGATATT----------GAA---------ATTG-TAC-AT----C----------------CATAGCTTGG-AA
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61596608 198 - 113657789 TAAAAAT--------ATATA--TTTTTTCCTTAAATGTTTAAGAATGATTTGCTGTTAA-----CCAAAGTAAT--CTTT--------------------------G-AAAGGCAGTCCTGTTGGACT-TAGGA----GAATTT--T-ACGG-TGG-TTCAGT--TTTTGAAAGAT---GTG---TTAGTTT------TTA-----T--------GAAAAGTAT-----GTG--CTATGATACATT----------ACA---------ATTG-TAAGAT----A-TCTTGCTATTTTAATTATAGCTCAA-T-
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=467245.000000
+s mm9.chr10 3227160 40 + 129993255 AGCCTCATCGTC-----ACTGA-TTT-TCAA-C-TAGGATCAGGTATTT
+s cavPor2.scaffold_284118 119165 40 - 169015 AGACTTGTGGTC-----ACTAA-CTT-TCAA-C-TAGCTTCAGGTATTT
+q cavPor2.scaffold_284118 999999999999-----99999-999-9999-9-999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044673 41 - 267910886 GGCCTCATGGTC-----ACTGATTTT-TCAA-C-TAGCATCAGGTATTT
+q rn4.chr1 999999999999-----999999999-9999-9-999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131703 40 - 170899992 AGCCTCATGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656338 40 - 173908612 AGCCTCATGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+q panTro2.chr6 999999999999-----99999-999-9999-9-999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444061 40 - 174210431 AGCCTCATGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108548670 40 + 167655696 AGCCTCATGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+q rheMac2.chr4 666665336555-----35344-656-6564-4-455455544566556
+i rheMac2.chr4 C 0 I 3007
+s calJac1.Contig1260 112164 40 - 523245 AGCCTCATGGTC-----GCTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25184 40 - 136255 AGCCTTGTGGTC-----ACTAA-TTT-TCAA-C-TTGCATCAGGTATTT
+q otoGar1.scaffold_85251.1-136255 999999999999-----99999-999-9999-9-999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423356 40 - 498454 CACCTCATGGTC-----ACTCA-TTT-TCAA-C-TAGCATCAGGTATTT
+q tupBel1.scaffold_114895.1-498454 999999999999-----99999-999-9999-9-999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11290 41 + 14059 TGTCTCACGGTC-----GCCCA-TTT-TCAA-CTTAGCGTCGGATATCT
+q sorAra1.scaffold_173811 789699898798-----99997-999-9899-89289899899997998
+i sorAra1.scaffold_173811 C 0 C 0
+s eriEur1.scaffold_241672 11108 35 - 11555 GCTCTCACAGTCACTAAGCTCA-TTC-CCAA-C-TAGCA----------
+q eriEur1.scaffold_241672 9999999999999999999996-799-9999-9-99999----------
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78289571 40 - 125616256 AGTCTCATGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+q canFam2.chr1 999999999999-----99999-999-9999-9-999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149330 40 - 219823 AGTCTCACGGTC-----ACTCA-TTT-TCAA-C-TAGCATCAGGTATTT
+q felCat3.scaffold_217398 999999999999-----99999-999-9999-9-999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082219 40 + 24938454 AGTCTCATGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGCTATTT
+q equCab1.chr31 999999999999-----99999-999-9999-9-999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13763685 40 - 95030419 AATCTCACGGTC-----ACTCA-TTT-TCAA-C-TAGCATATGGTATTT
+q bosTau3.chr9 999999999999-----99999-999-9999-9-999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 7720 40 + 8690 AGCCTCTTGGTC-----ACTAA-TTT-TCAA-C-TAGCATCAGGTATTT
+q dasNov1.scaffold_145011 999899899999-----99999-999-9869-9-999999999999999
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 5004 41 - 5330 ACGCTCCCCGTC-----ACTCG-TTTCTCAA-G-TAGCGTCCGGTATTT
+q echTel1.scaffold_21342 899999999799-----99999-99999999-9-999999999999899
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106280559 40 - 541556283 ATTCTAATGGTC-----AATAA-TTT-TCAA-G-TAGCATCTGGTATTT
+q monDom4.chr2 999999999999-----99999-999-9999-9-999999999999999
+i monDom4.chr2 C 0 I 2
+s ornAna1.chr2 14921537 41 - 54797317 ATTCCAGTGGTC-----AATCA-TTT-TCAAGT-TAGCATCAGGTATTT
+i ornAna1.chr2 C 0 C 0
+s galGal3.chr3 61596806 40 - 113657789 ATTTTCCCACTC-----CAGAA-TTT-TAAA-G-TAGTATTGGGTATTT
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=1658717.000000
+s mm9.chr10 3227200 163 + 129993255 --------TGAAAATGTGT-------GTCT------------GCA------------TATTAAC----TC--TTGTTTAAAACTGAATGTACAATATTTTGCTAGAGTGG--AAAAAGCCCTATCTTGT-----------TAATTTAAGTGTTTTAAATAGAGTTGTATA-TTTTTCTTACTCTT-AGT-CACACATAA-TTGAA-ATGTTTCTGTT-TTGTGTCAT-
+s cavPor2.scaffold_284118 119205 159 - 169015 --------GGAAAAAGTGC-------ATCT------------GAA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACATGTAA-TTGAA-ATATT--TGTT-TTGCGTCAT-
+q cavPor2.scaffold_284118 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-99999--9999-999999999-
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044714 162 - 267910886 --------TGAAAATGTAT-------GTCT------------GGG------------TATTAAC----TC--TTGTTTAAAACCAAATGTACAATATTTTGCTAGAATGG--AAAAA-CCCTTTCTTGT-----------TAATTTAAGTGTTTTAAATAGAGTTGTATA-TTTTTCTTACTCTT-AGT-CACATGTAA-TTGAA-ATATTTCTGTT-TTGCGTTAT-
+q rn4.chr1 --------99999999999-------9999------------999------------9999999----99--99999999999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-99999999999-999999999-
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131743 161 - 170899992 --------TGAAAACGTGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTATCTTGT-----------TAATTTAAGTATTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACCTGTAA-TTGAA-ATATTTCTGTT-TTGCGTCAT-
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656378 161 - 173908612 --------TGAAAACGTGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTATCTTGT-----------TAATTTAAGTATTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACCTGTAA-TTGAA-ATATTTCTGTT-TTGCGTCAT-
+q panTro2.chr6 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-99999999999-999999999-
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444101 161 - 174210431 --------TGAAAACGTGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTATCTTTT-----------TAATTTAAGTATTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACCTGTAA-TTGAA-ATGTTTCTGTT-TTGCGTCAT-
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112204 161 - 523245 --------TGAAAATGTGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTATCTTGT-----------TAATTTAAGTATTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACCTGTAA-TTGAA-ATATTTCTGTT-ATGCGTCAT-
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25224 161 - 136255 --------TGGAAAAGCGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTATTCTT-AGT-CACATGTGA-TTGAA-GTATTTCTGTT-TCGCGTCAT-
+q otoGar1.scaffold_85251.1-136255 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-99999999999-999999999-
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423396 161 - 498454 --------TGAAAAAGTGT-------GTCT------------GGA------------TAGTGAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGTTTGG--AAAAA-TACTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-AATATGTAA-TTGAA-ATATTTCTGTT-CTGGGTCAT-
+q tupBel1.scaffold_114895.1-498454 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-99999999999-999999999-
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11331 159 + 14059 --------TGAAAAAGTGT-------CTCT------------GG-------------TATTAAC----TC--TTGTTT-AAACAGAATGTATGATATTTTGTTAGAATGG--AAAAG-TGCTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACATGTAG-TCGAA-CTGTCTCTGTT-TTGCGAAT--
+q sorAra1.scaffold_173811 --------68999999699-------9997------------99-------------9999999----99--989999-8999899999989999999969998999589--99999-99998999899-----------999999999899999999999999599999-99999999999799-998-999969999-99999-97999999999-99989999--
+i sorAra1.scaffold_173811 C 0 C 0
+s eriEur1.scaffold_241672 11143 157 - 11555 ---------AAAACCGTGT-------GTCT------------GA-------------TATTAAT----TC--TTGTCT-CAATGGAATGTATGATATTTCGCTAGAATGG--AGAAG-TGCTGTCCTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATATTTTTTCTTACTCTC-AGT-TGC--GTGG-TTGAA-CT-TTTCTGCT-TTGCGGCTT-
+q eriEur1.scaffold_241672 ---------9999999899-------9998------------89-------------9999989----99--979999-9997899979998989999999999999799--99999-99999999999-----------999999999999999999999999999999999989999999999-999-999--9999-99999-99-99999999-999999999-
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78289611 159 - 125616256 --------TGGAAAAGTGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAACAG--AAAAG-TACTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACACGTAA-TTGAA-ATA--TTTGTT-TTGCGTCAG-
+q canFam2.chr1 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-999--999999-999999999-
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149370 162 - 219823 --------TGGAAAAGTGT-------GTCT------------GGA------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATATTTTGTTAGAACAG--AAAAG-TACTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AGT-CACATGTAATTTGAA-ATATCTTTGTT-TTGCGTCTT-
+q felCat3.scaffold_217398 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999997--99999-99999999999-----------999999999999999999999999999999-99999999988977-999-999999999999999-99999999999-999999999-
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082259 161 + 24938454 --------TGGATAAGCGT-------GTCT------------GGA------------TATTAAC----TC--CTGTTT-AAACTGAATGTATGATATTTTGTTAGAATGG--AAAAG-TACTGTCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTACTCCT-AGT-CACATGTAA-TTGAA-ATATTTCTGTT-TTGCGTCAC-
+q equCab1.chr31 --------99999999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999999999-----------999999999999999999999999999999-99999999999999-999-999999999-99999-99999999999-999999999-
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13763725 157 - 95030419 --------TGGAAAAGTGT-------GTCT------------G--------------TATTAAC----TC--TTGTTT-AAACTGAATGTATGATACTTTGTTAGAAT-G--AAAAG-TACTATCTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTAC-CTT-AGT-CACATGTAA-TTGGT-ATATTTCTGTT-TGGTGTCCT-
+q bosTau3.chr9 --------99999999999-------9999------------9--------------9999999----99--999999-99999999999999999999999999999-9--99999-99999999999-----------999999999999999999999999999999-9999999999-999-999-999999999-99999-99999999999-999999999-
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 7760 159 + 8690 --------T--GGAAACGT-------GTCT------------GGA------------TATTAAT----TC--TTGTTT-AAACTGAATGTATGATACTTTGTTAGAATGG--AAAAG-TACTA-CTTGT-----------TAATTTAAGTGTTTTAAATATAGTTGTATA-TTTTTCTTATTCTTAAGT-CACATGAAA-TTGGA-ATGCTTTTGTT-TTGCGTCCT-
+q dasNov1.scaffold_145011 --------9--99999999-------9999------------999------------9999999----99--999999-9999999999999999999999999999999--99999-99999-99999-----------999999999998999999999999999999-999999899999899999-979899999-99999-99989999999-998778999-
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 5045 147 - 5330 --------CTGGAAAGCAT-------GTCT------------GGGTGT---------TATTAAC----TCCTTTGCTG-GAACTGAGTGGATGATGTTTT-TTAGAACT---------------------------------ATTTAAGTGTTTTAAATACAGTTGTATA-TTTTTCTTACTCGC-GGT-CACATGTAC-TTGAACGTATTTCTGGT-TTGCGTCAG-
+q echTel1.scaffold_21342 --------97899999999-------9998------------999999---------9999999----9999999968-999979998999899999999-99999999---------------------------------9999999999999999999999899999-99999999999999-999-999989999-99999999999998899-999989999-
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106280601 168 - 541556283 --------TGGGAAAAAGTCATAAAAGTTT------------AGG------------ATATAAA----TT--GTGTTT-AAA-TGAATGTATGATATTTTATTAGAAGGA--AAAAG-TCTTATTGTGT-----------TAATTTAAGTG-TTTAAATATAGTTGTATA-TTTTTCTTACTCTT-AACAAATGTGTAG-TTGGT-ATATTTCTATTATTGCGCCAT-
+q monDom4.chr2 --------9999999999999999999999------------999------------9999999----99--999999-999-999999999999999999999999999--99999-99999999999-----------99999999999-999999999999999999-99999999999999-9999999999999-99999-999999999999999999999-
+i monDom4.chr2 I 2 C 0
+s ornAna1.chr2 14921578 187 - 54797317 --------TGGAAAAAATC-------TCTT------------GGAAACATTAGGGTATAAAAAA----TC--TTGTTT-AAAATGAATGTACAATATTTTGTTAGAATGGAAAAAAG-TCTTATTGTGttaaaaaaaaaataatttaaatGTTCTAAATATAGTTGTATA-TTTTTCTTATTCAT-ACC-AACATGTGG-TTTGT-ATATTCCTACTGATGCGCCAT-
+i ornAna1.chr2 C 0 N 0
+s galGal3.chr3 61596846 175 - 113657789 TGGGAGAAAAATAAAACTT-------GTTTAACAAAAGAAGAGGA------------TATTAAAGAGGTA--TTGTTTAAAATTGAATGTACATAAGATTGTTCGTATGC--AAACA-----ATTGTGTT----------TAATTTAAATG--TTAAATATAGTTGTATA-TATTTTTT-------ACT-CAAACAGAG-TTTGT-ACCTTCCTGTC--TGCGGTACT
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=-5787.000000
+s mm9.chr10 3227363 25 + 129993255 --ATGTG-A---A----ACCCAAGG-A------------------------------AAAAGAGTA--------------
+s cavPor2.scaffold_284118 119364 24 - 169015 --TTGCG-A---A----GCTA-ATG-A------------------------------AACTGACTG--------------
+q cavPor2.scaffold_284118 --99999-9---9----9999-999-9------------------------------999999999--------------
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044876 24 - 267910886 --ACGTG-A---A----ACCC-AGG-G------------------------------GAAAGAGCA--------------
+q rn4.chr1 --99999-9---9----9999-999-9------------------------------999999999--------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131904 24 - 170899992 --ACACG-A---A----GCTA-GTG-A------------------------------AAAAGAAAG--------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656539 24 - 173908612 --ACACG-A---A----GCTA-GTG-A------------------------------AAAAGAAAG--------------
+q panTro2.chr6 --99999-9---9----9999-999-9------------------------------999999999--------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444262 24 - 174210431 --ACACG-A---A----GCTA-GTG-A------------------------------AAAAGAAAG--------------
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112365 26 - 523245 --ACACGAA---A----GCTA-GTGAA------------------------------AAAAGAAAG--------------
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25385 23 - 136255 --ACACG-A---A----CCCA-ACG-A------------------------------AAAA-AGCA--------------
+q otoGar1.scaffold_85251.1-136255 --99999-9---9----9999-999-9------------------------------9999-9999--------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423557 24 - 498454 --ACAGA-A---A----ACTG-ATG-A------------------------------CTGAGAGCA--------------
+q tupBel1.scaffold_114895.1-498454 --99999-9---9----9999-999-9------------------------------999999999--------------
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11490 11 + 14059 ------------------------G-A------------------------------GAGAGAATG--------------
+q sorAra1.scaffold_173811 ------------------------9-9------------------------------999999999--------------
+i sorAra1.scaffold_173811 C 0 C 0
+s eriEur1.scaffold_241672 11300 24 - 11555 --ACACA-A---A----TCTC-AAG-G------------------------------AAAAGAGTG--------------
+q eriEur1.scaffold_241672 --99999-9---9----9999-999-9------------------------------999999999--------------
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78289770 24 - 125616256 --ACGTG-A---A----GCGA-ATG-A------------------------------AGGCAAGGG--------------
+q canFam2.chr1 --99999-9---9----9999-999-9------------------------------999999999--------------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149532 24 - 219823 --ACATG-A---A----GTTA-ATG-A------------------------------AAAAGAGTG--------------
+q felCat3.scaffold_217398 --99999-9---9----9999-999-9------------------------------999999999--------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082420 24 + 24938454 --TGACA-A---A----GCTA-ATG-A------------------------------AAAAGAGTC--------------
+q equCab1.chr31 --99999-9---9----9999-999-9------------------------------999999999--------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13763882 22 - 95030419 --ACAGG-A---A----GCTA-ATG-A------------------------------AAA--AGTG--------------
+q bosTau3.chr9 --99999-9---9----9999-999-9------------------------------999--9999--------------
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 7919 23 + 8690 --ATGTG-A---A----GCTA-ATG-A-------------------------------AGGGAGTG--------------
+q dasNov1.scaffold_145011 --99999-9---9----9999-999-9-------------------------------99999989--------------
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 5192 54 - 5330 --ACAGG-A---A----ACAG-ATG-ACACTGTTTCAGGGTGTTTTAGGAAACAGACGACAGAGTG--------------
+q echTel1.scaffold_21342 --99999-9---9----9999-999-9999899999999989999999999999999999999988--------------
+i echTel1.scaffold_21342 C 0 C 0
+s monDom4.chr2 106280769 27 - 541556283 --GTATA-AATTA----GCCA-AAG-T------------------------------AACGGGGTA--------------
+q monDom4.chr2 --99999-99999----9999-999-9------------------------------999999999--------------
+i monDom4.chr2 C 0 I 50352
+s galGal3.chr3 61597021 44 - 113657789 GTGCATG-A---ATTAGACAA-ATG-A------------------------------AAGAAAAAAGAAAGTCTTTGGTA
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=120084.000000
+s mm9.chr10 3227388 29 + 129993255 -TTC-AACGTGGTTTCAGATTTACA--AGTGAC
+s cavPor2.scaffold_284118 119388 29 - 169015 -TTG-AAGGTGTTTTCAGATTTACA--AGTGAC
+q cavPor2.scaffold_284118 -999-99999999999999999999--999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044900 27 - 267910886 -TTA-AATGT--TTTCAGATTTACA--CGTGAC
+q rn4.chr1 -999-99999--9999999999999--999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131928 29 - 170899992 -TGC-AAGGCATTTTCAGATGAGCA--AGTGAC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656563 29 - 173908612 -TGC-AAGGCATGTTCAGATGAGCA--AGTGAC
+q panTro2.chr6 -999-99999999999999999999--999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444286 29 - 174210431 -TGC-AAGGCATTTTCAGATTAGCA--AGTGAC
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112391 29 - 523245 -TGC-AAGGTGTTTTCAGATTAGCA--AGTGAC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25408 31 - 136255 -TTT-AAGGTGTTTTCAGATTATCAAGAGTGAC
+q otoGar1.scaffold_85251.1-136255 -999-9999999999999999999799987994
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423581 29 - 498454 -TTT-GAGGTGTTTTCAAATTCATG--AATGAC
+q tupBel1.scaffold_114895.1-498454 -999-99999999999999999999--999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11501 11 + 14059 -------------TTCCCATTCAC---------
+q sorAra1.scaffold_173811 -------------99999999999---------
+i sorAra1.scaffold_173811 C 0 C 0
+s eriEur1.scaffold_241672 11324 28 - 11555 -TTG-GAGGTGT-TTCCAGCTCATG--AGTGCC
+q eriEur1.scaffold_241672 -979-9999999-999999999999--999999
+i eriEur1.scaffold_241672 C 0 C 0
+s canFam2.chr1 78289794 29 - 125616256 -TTC-AGGGTATATTCTGATTGACA--AGTGAC
+q canFam2.chr1 -999-99999999999999999999--999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149556 29 - 219823 -TTC-AAGGTGTTTTCAGATTTATA--AGTGGC
+q felCat3.scaffold_217398 -999-66799999999899999999--989999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082444 29 + 24938454 -TTC-AAAGTGTTTTCAGATTCACA--AGTGGC
+q equCab1.chr31 -999-99999999999999999999--999999
+i equCab1.chr31 C 0 I 223
+s bosTau3.chr9 13763904 29 - 95030419 -TTC-AAGATGTTTTCAGGTTTACC--AGTGAC
+q bosTau3.chr9 -999-99999999999999999999--999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 7942 29 + 8690 -CTT-AAGGTGTTTTCAAATTTACA--AGTGAC
+q dasNov1.scaffold_145011 -799-99996969999599999995--999999
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 5246 30 - 5330 -TTTCAGGGTGTTTTCGGATGCTCA--CGCGAC
+q echTel1.scaffold_21342 -999999998899999999998999--988999
+i echTel1.scaffold_21342 C 0 C 0
+s galGal3.chr3 61597065 30 - 113657789 TTCT-CCACTAATTTTATTTTCATA--GATGTT
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=-19382.000000
+s mm9.chr10 3227417 35 + 129993255 CCACTCCTGGCCG-TTGG-CA---------GTG----TGGGCACTTATAT--
+s cavPor2.scaffold_284118 119417 33 - 169015 CAAC--CTGGTGG-TTAC-CA---------GTT----TGGGCactaatat--
+q cavPor2.scaffold_284118 9999--9999999-9999-99---------999----9999999999999--
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044927 34 - 267910886 CCAGT-GTGGCCG-TTGG-CA---------GCC----TGGGCGCGCATAT--
+q rn4.chr1 99999-9999999-9999-99---------999----9999999999999--
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131957 32 - 170899992 TATC--GTGGCTG-TTGC-CA---------GCA-----GGGCAGTATTGT--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656592 32 - 173908612 TATC--TTGGCTG-TTGC-CA---------GCA-----GGGCAGTATTGT--
+q panTro2.chr6 9999--9999999-9999-99---------999-----999999999999--
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444315 32 - 174210431 TGTC--GTGGCTA-TTGC-CA---------GCA-----GGGCAATATTGT--
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112420 32 - 523245 TATC--ATGGCTC-TTAC-CA---------GCA-----GGGCACTATTGT--
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25439 29 - 136255 CAAC--A---CTA-TTGT-CA---------GCA-----GGGCACTGTTGT--
+q otoGar1.scaffold_85251.1-136255 9799--9---999-9997-99---------889-----999999997986--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423610 41 - 498454 CACC--ATGGCTG-TTGA-CATGGCTGTTTGGT-----GAGCACTGTTGT--
+q tupBel1.scaffold_114895.1-498454 9999--9999999-9999-99999999999999-----999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11512 9 + 14059 -----------------------------------------TGGTAGGGT--
+q sorAra1.scaffold_173811 -----------------------------------------999999999--
+i sorAra1.scaffold_173811 C 0 C 0
+s eriEur1.scaffold_241672 11352 18 - 11555 -------------------CA---------GCA----TGGGTGCTGTGGT--
+q eriEur1.scaffold_241672 -------------------99---------999----9999999999999--
+i eriEur1.scaffold_241672 C 0 N 0
+s felCat3.scaffold_217398 149585 33 - 219823 CACT--GTGGCCG-ATGC-CA---------GTG----TGGGCGCTATCGT--
+q felCat3.scaffold_217398 9999--9999999-9999-98---------999----9999999999989--
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78289823 33 - 125616256 CACC--ACTGGCG-TTGC-CA---------TGG----TGGGCGCTATTGT--
+q canFam2.chr1 9999--9999999-9999-99---------999----9999999999999--
+i canFam2.chr1 C 0 C 0
+s bosTau3.chr9 13763933 33 - 95030419 CACC--ATGGCTG-TTGC-CA---------CCG----TGGGCATTATTGT--
+q bosTau3.chr9 9999--9999999-9999-99---------999----9999999999999--
+i bosTau3.chr9 C 0 I 3
+s dasNov1.scaffold_145011 7971 33 + 8690 AGCC--ATGGCCA-GAGC-CA---------CCA----TGGGAGCTATTGT--
+q dasNov1.scaffold_145011 5798--6999684-9989-86---------886----9997869699897--
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 5276 35 - 5330 CACC--ATGGCTGTGTGTGCA---------CCA----TGAGAGCTGTTGT--
+q echTel1.scaffold_21342 9999--964831221192159---------999----6599999457347--
+i echTel1.scaffold_21342 C 0 C 0
+s galGal3.chr3 61597095 31 - 113657789 ----------ATA-TTGC-CA---------ACAGCTTTTCCTCCTTTGGTCT
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13082473 223 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=23771.000000
+s mm9.chr10 3227452 13 + 129993255 T----AAAGACGGA-----AAT
+s cavPor2.scaffold_284118 119450 18 - 169015 t----aaaaaaacaaacataat
+q cavPor2.scaffold_284118 9----99999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044961 13 - 267910886 T----AAAGATGGA-----AAT
+q rn4.chr1 9----999999999-----999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16131989 16 - 170899992 T-AAAAAAAATCAA-----AAT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656624 17 - 173908612 TAAAAAAAAATCAA-----AAT
+q panTro2.chr6 99999999999999-----999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444347 17 - 174210431 TAAAAAAAAATCAA-----AAT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112452 16 - 523245 T-AAAAAAAATCAA-----AAT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25468 14 - 136255 C---AAAAAACCAA-----AAC
+q otoGar1.scaffold_85251.1-136255 9---9999994549-----976
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423651 13 - 498454 T----GAAAAATAA-----AAT
+q tupBel1.scaffold_114895.1-498454 9----999999999-----999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11521 13 + 14059 ----TAAAAGATGA-----AAC
+q sorAra1.scaffold_173811 ----9999999999-----999
+i sorAra1.scaffold_173811 C 0 C 0
+s canFam2.chr1 78289856 13 - 125616256 ----TAAAAAACAA-----AAT
+q canFam2.chr1 ----9999999999-----999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149618 13 - 219823 ----TAAAAAACAA-----AAT
+q felCat3.scaffold_217398 ----9999999999-----999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082696 13 + 24938454 ----taaaaGCAAA-----AAT
+q equCab1.chr31 ----9999999999-----999
+i equCab1.chr31 I 223 C 0
+s bosTau3.chr9 13763969 13 - 95030419 ----AAAAGAAAAA-----AAT
+q bosTau3.chr9 ----9999999999-----999
+i bosTau3.chr9 I 3 C 0
+s dasNov1.scaffold_145011 8004 13 + 8690 ----TAAAAAAAAA-----AAA
+q dasNov1.scaffold_145011 ----8699999999-----996
+i dasNov1.scaffold_145011 C 0 C 0
+s echTel1.scaffold_21342 5311 13 - 5330 ----TAAAAAAAAA-----AAT
+q echTel1.scaffold_21342 ----7599999999-----957
+i echTel1.scaffold_21342 C 0 N 0
+s galGal3.chr3 61597126 13 - 113657789 -TACTAAAGAAAAG--------
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=223938.000000
+s mm9.chr10 3227465 55 + 129993255 AAATTCTTCCAAGC------A-TTTGGGA-TT--TTATGA-ATTTGTGGT--AGAGGAGC-GAAAGAAA
+s cavPor2.scaffold_284118 119468 57 - 169015 aaaGCCGCCCAAGC------ATTTTGGGA-TT--TTATGA-ATTAATAGT--GGAGGAGCTGAAGGAAC
+q cavPor2.scaffold_284118 99999999999999------999999999-99--999999-999999999--99999989999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230044974 56 - 267910886 AAACCCTCCCAAGC------GTTTTAGGA-TT--TTATGA-ATTTGTGGT--AGAGGAGC-TAAGGAAG
+q rn4.chr1 99999999999999------999999999-99--999999-999999999--99999999-99999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16132005 56 - 170899992 AAACCCTCCCAAGC------ATTTTGGGA-TT--TTATGG-ATTAGAAAT--GGAAGAAC-AGGAGAAG
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656641 56 - 173908612 AAACCCTCCTAAGC------ATTTTGGGA-TT--TTATGG-ATTAGAAAT--GGAAGAAC-AGGAGAAG
+q panTro2.chr6 99999999999999------999999999-99--999999-999999999--99999999-99999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444364 56 - 174210431 AAACTCTCCCAAGC------ATTTTGGGA-TT--TTATGG-ATTAGAAAT--GGAAGAAC-AGGAGAAG
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112468 56 - 523245 AAATCCTTCCAAGA------ATTTTGGGG-TT--TTATGG-ATTAGAAAT--GGAAGAGC-AGGAGAAG
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25482 56 - 136255 AAATCCTGCCAGGC------ATTTTGGGA-TT--TTATGG-ATTGGAAAT--GGAGGAGA-AGAAGGGG
+q otoGar1.scaffold_85251.1-136255 69877776366664------569996976-79--977767-567667976--67756666-66666997
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423664 46 - 498454 AAACCCTCCCAGGC------A-TTTGGGG-TT--TTATGG-ATGAGAAAT------------GAAGGAG
+q tupBel1.scaffold_114895.1-498454 99999999999999------9-9999999-99--999999-999999999------------9999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s sorAra1.scaffold_173811 11534 57 + 14059 AAACCCTCTCGCGC------ATTTGGGGA-TT--TTATGGCATGATAGCA--GGGGGCAT-GCAAAGGA
+q sorAra1.scaffold_173811 99999999999999------999999999-99--9999999999999999--99999999-99999999
+i sorAra1.scaffold_173811 C 0 N 0
+s canFam2.chr1 78289869 52 - 125616256 AAA----CCCACGC------ATTTTGGGA-TT--TTAGGA-ATCAGAAAT--GGGGATGT-TGAGAAAG
+q canFam2.chr1 999----9999999------999999999-99--999999-999999999--99999999-99999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149631 59 - 219823 AAACCTTCCCAAGC------ATTTTGGGATTT--TTATGG-ATTAGAACTGGGGGGGCGT-TGAGGACA
+q felCat3.scaffold_217398 99999999998999------999999999499--989999-9899999999999999999-99979969
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082709 56 + 24938454 AAACCCTCCCAAAC------ATTTTGGGA-TT--TTATGG-ATTAGAAAC--AGGGACAT-TGAGGAAG
+q equCab1.chr31 99999999999999------999999999-99--999999-999999999--99999999-99999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13763982 57 - 95030419 AAACCCTCTGAAGCA-----ATTTTAGAA-TT--GTATGG-ATTAGAAAT--GGGGACAT-GGAGGGGG
+q bosTau3.chr9 999999999999999-----999999999-99--999999-999999999--99999999-99999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 8017 56 + 8690 TAAGCCGTCGAGGC------ATTTTGGGA-TT--TTATGG-ATTAGTAAT--GGAGGCGC-TGGAGAAG
+q dasNov1.scaffold_145011 76957766969688------569999997-69--957697-665776775--95858556-65877875
+i dasNov1.scaffold_145011 C 0 C 0
+s galGal3.chr3 61597139 47 - 113657789 --------------AGGTCAAATTTGTAA-TTAATAATTG-GTGGGGGAA--GAGGGAGT-TTAAA---
+i galGal3.chr3 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=55707.000000
+s mm9.chr10 3227520 35 + 129993255 ----CAAACGTAAA-TGACACTACAGAAAAGAAATGTTCC
+s cavPor2.scaffold_284118 119525 36 - 169015 ----catatataaagtaaaattacAGTAGGGGAATTCTCC
+q cavPor2.scaffold_284118 ----999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230045030 35 - 267910886 ----CAAACATAAA-TGACACCACAGAAAAGGAATTTTCC
+q rn4.chr1 ----9999999999-9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16132061 36 - 170899992 ----CATATGCAAAGTGAAATTGCACGAGGGGAATTTTCT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656697 36 - 173908612 ----CATATGCAAAGTGAAATTGCACGAGGGGAATTTTCT
+q panTro2.chr6 ----999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444420 36 - 174210431 ----CATATGCAAAGTGAAATTGCACGAGGGGAATTTTCT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112524 36 - 523245 ----CATCTGCAAAGTGAAATCGCACGAGGGTAGTTTTCT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 25538 35 - 136255 ----TGTGTGCAAAGTGCCATTATATGGGGGGA-TCCTTT
+q otoGar1.scaffold_85251.1-136255 ----66364424866556657665645977963-346786
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423710 36 - 498454 ----CATGTGTAAAGTAAAATTATCGTTGGGGAATTTGCT
+q tupBel1.scaffold_114895.1-498454 ----999999999999999999999999999998699899
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78289921 23 - 125616256 ----CAC-GGCAAGGTAACATTACA------------TCT
+q canFam2.chr1 ----999-99999999999999999------------999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149690 35 - 219823 ----CGC-GGTACAGGAACATTACATTTGGGAACTTTTCC
+q felCat3.scaffold_217398 ----999-99999959999899997999999997999997
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082765 36 + 24938454 ----TGCTTGGAAAGTAAAATTACATTCGGGGAATTTTCT
+q equCab1.chr31 ----999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13764039 32 - 95030419 ----CATGTGTGGAGT----TTACATTTGGGGACTTTTCT
+q bosTau3.chr9 ----999999999999----99999999999999999999
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 8073 24 + 8690 ----CCTGCGGAAAATAAAATTACA------------TCA
+q dasNov1.scaffold_145011 ----955753689965899657595------------797
+i dasNov1.scaffold_145011 C 0 C 0
+s galGal3.chr3 61597186 38 - 113657789 CAGTAGTTTGCACTTTGGACTG--AGGCAGGAAATGTACC
+i galGal3.chr3 C 0 I 15914
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=205466.000000
+s mm9.chr10 3227555 77 + 129993255 AAGG--TATTCCTAGGCAGAGCTGAAGCCCAGCG-----TCC----ACATACT----------TC-ACCACTGGGATTG-----TCCAGTGACCTG-CCTGAAGT
+s cavPor2.scaffold_284118 119561 91 - 169015 AAGGTATATTCCTAAGCATAACTGGTATCCCCTA-----CTTTA-AATACACTGTCT------CA-CACTATGGAATTGTTTGTTTTGCTAACATT-CCTGAAAT
+q cavPor2.scaffold_284118 9999999999999999999999999999999999-----99999-999999999999------99-999999999999999999999999999999-99999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230045065 81 - 267910886 AGGG--TAACCTTAGACAGAGCTGTAGCCCGGTA-----TCC----ACATACTGTCC------TA-GCCACTGGGGTTG-----TCCACTGACCTG-CCTGAAGT
+q rn4.chr1 9999--9999999999999999999999999999-----999----99999999999------99-9999999999999-----999999999999-99999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16132097 93 - 170899992 GAGGTATCTTCCTAGGCAGAGCCGAAATCTCCTA-----CTCCAAAATGCCCTTTCT------CATACCACCGGAATTGTTGAGTTTGCTGAACTG-CCTGGAAT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16656733 93 - 173908612 GAGGTATCTTCCTAGGCAGAGCCGAAATCCCCTA-----TTCCAAAATGCCCTTTCT------CATACCACCGGAATTCTTGAGTTTGCTGAACTG-CCTGGAAT
+q panTro2.chr6 9999999999999999999999999999999999-----999999999999999999------999999999999999999999999999999999-99999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16444456 93 - 174210431 GAGGTATCTTCCTAGGCAGAGCTGAAATCCCCTA-----CTCCAAAATGCCCTTTCT------CATATCACTGGAATCGTTGAGTTTGCTGAACTG-TCTGGAAT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 112560 93 - 523245 GAGGTATCTTCCTAGGCAGAAATGAAGGCCCCTA-----CTCCAAAATGTTCTTTCT------CACACCGCTGGAATTGTTGAGTTTGCTCAACTG-CCTGGAAT
+i calJac1.Contig1260 C 0 I 923
+s otoGar1.scaffold_85251.1-136255 25573 80 - 136255 GAGGGATGTTCCTGGGCAGAGCAGATATCCTCTAGTCTCCCCCACGGTG-CCTCTCT------CA-----------------GCTTTGCTGAACTG-CCTGGAGT
+q otoGar1.scaffold_85251.1-136255 5658532536555686555632566345733336543357663445334-5432433------25-----------------45674334446454-43553323
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 423746 81 - 498454 AAAGAATATTCCTA-GCAGGACTGGTATACCCTA-----CGTGAAATCGTACTTTCT------CACA-----------ATTTGCTTTGCTGAATTG-CCAGGTAG
+q tupBel1.scaffold_114895.1-498454 99999989899999-9999999998897999999-----999999999879999999------9999-----------999999999639999798-89999899
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78289944 93 - 125616256 GAGGTATCTTCCTAGACAGAACTGATACCCCCTG-----CTCAAAAACATGCCCCCC------CACCCCCCTGGAATTGTTTACTTTGTTCAAGTG-CCTGAAAT
+q canFam2.chr1 9999999999999999999999999999999999-----999999999999999999------999999999999999999999999999999999-99999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149725 99 - 219823 GAGGTGTGTGCCCGGGCAGAGCTGGTATCCCTTC-----CTCAAAAACACGCCCCTCCCCACACACACCCTTCGAATTGTTTACTTTGCTGAACTG-CCTGAAAT
+q felCat3.scaffold_217398 4959897431111699887939989488966998-----996299998687636688999586969576599959659649557696677566557-57556975
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13082801 94 + 24938454 GAGGTATATTCCTAGGCAGAGCTGGTGTCCCCTA-----CACAAAAATATCCTCCTC------CTCCCCCCCGGGATTGTTTACTTTGCTAAACGGACTTGAAAT
+q equCab1.chr31 9999999999999999999999999999999999-----999999999999999999------999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13764071 63 - 95030419 GAGCTGTACCCCTGGACAAAGCTGGTATTTGT--------------------------------------CTTGAATTGTCTACTTTGCTGAACTG-CCTGA---
+q bosTau3.chr9 99999999999999999999999999999999--------------------------------------99999999999999999999999999-99999---
+i bosTau3.chr9 C 0 C 0
+s dasNov1.scaffold_145011 8097 93 + 8690 GTGGGATATTTTTAGACAGAGCAGGTATCCCTTA-----CCCCAAAATACCTTCTCT------CACACTGCTGGAATTGTTTACTTTGCTGCACTG-CCTGAAAT
+q dasNov1.scaffold_145011 5479666779995558955759535756597966-----999989966596998999------969996785789995789989986775799957-97479965
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=67532.000000
+s mm9.chr10 3227632 94 + 129993255 GCAGT--GCGC---AGGATGACT---GGAGTTAGTAAGGCCTCCCCTCCCCCCATCTTAAA-------TGCCT-------CTGT-GGCAG------------TGTTAAGGG-----GCACAGTAGCCACCTCTG
+s cavPor2.scaffold_284118 119652 93 - 169015 TCAGC--CCATGAGAAACTCATG---TTGGTTAGTGAAACTCTTTTCTC--------TAAAAATCGTCTACTC-------TAGT-GGGGT--------------TCAAGGA-----GCA-AGCAGTCACTCACG
+q cavPor2.scaffold_284118 99899--9999999999999999---99999999999999999999999--------9999999998999999-------9999-99978--------------9999999-----999-99999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230045146 106 - 267910886 GTGGT--TCACAAGAGGATCACT---GGAGTTAATAAGGCTCTCCTCCCCCATG---TAAA-------TGCCT-------CTGT-GGGGGTGGGGGAGTGCATGGTAAGGG-----GCACAGTGGCCACTTCTG
+q rn4.chr1 99999--9999999999999999---9999999999999999999999999999---9999-------99999-------9999-99999999999999999999999999-----999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16132190 85 - 170899992 TCAGC--CCAT--GAAAATCACT---GGAGTTAGGAAACATCTTCCCTT--------TAAAA------TGCTT-------CTGGTGTGGT--------------TAAAGGA-----ACT-AGCAACCACTCAT-
+i hg18.chr6 C 0 I 744
+s panTro2.chr6 16656826 86 - 173908612 TCAGC--CCAT--GAAAATCACT---GGAGTTAGGAAACATCTTCCCTT--------TAAAA------TGCCT-------CCGGTGTGGT--------------TAAAGGA-----ACT-AGCAACCACTCATG
+q panTro2.chr6 99999--9999--9999999999---99999999999999999999999--------99999------99999-------9999999999--------------9999999-----999-99999999999999
+i panTro2.chr6 C 0 I 340
+s ponAbe2.chr6 16444549 86 - 174210431 TCAGC--CCAT--GAAAATCACT---GGAGTTAGGAAACATCTTCCCTT--------TAAAA------TGCCT-------CTGGTGTGGT--------------TAAAGGA-----ACT-AGCAACCACTCATG
+i ponAbe2.chr6 C 0 I 1109
+s otoGar1.scaffold_85251.1-136255 25653 85 - 136255 -CAGC--ACATGGGAGAGCCCCC---TGCACTGGCCAACAG-TCCCCTT--------TCAGA------TGCTT-------CTGG-GGGGT--------------TAGAGGG-----GCC-GGCAGCTCTCCCCG
+q otoGar1.scaffold_85251.1-136255 -3321--1223572426345551---131223221166234-4565336--------42595------54298-------6999-99941--------------9999999-----226-94296337999966
+i otoGar1.scaffold_85251.1-136255 C 0 I 14
+s tupBel1.scaffold_114895.1-498454 423827 85 - 498454 TCAGCCACCAA--GAGAGACGCT---GAAGTTAGG-GGCATCTTCTGTT--------TAAAA------TGTC--------CTGG-GGGAT--------------TCAAAGA-----ACT-AATAGCCACACACG
+q tupBel1.scaffold_114895.1-498454 99997999999--9999974679---999999999-9666999998869--------89889------7759--------9998-79965--------------9969999-----999-99999999999899
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78290037 89 - 125616256 TCAAT--GAATTGGAGCTTCCCCAGAGGAGTTAGTAAACATCTTCCTTT--------TTAAG------TACCT-------CTGGTGAGAC--------------CAAGGGGATGAAGTC-AGTCAGG-------
+q canFam2.chr1 99999--999999999999999999999999999999999999999999--------99999------99999-------9999999999--------------999999999999999-9999999-------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 149824 71 - 219823 TCAAC--AAATTAGAGATTTCCC---GGAGTTACTAAACATCTTCCTTT--------TAGAA------TGCCT-------CTGGTGGGGC--------------TAACGGG-----------------------
+q felCat3.scaffold_217398 85467--5965855945398597---47827545558655785656698--------55476------57465-------8557497665--------------5310175-----------------------
+i felCat3.scaffold_217398 C 0 I 4985
+s equCab1.chr31 13082895 81 + 24938454 TCAAT--GAATTGGAGATTCCCT---AGAGTTAGCACACATCTGCCCTT--------TCAGA------TGCCT-------CTGCTGGGCT--------------TAAAGGA-----ACT-AGGAACC-------
+q equCab1.chr31 99999--9999999999999999---99999999999999999999999--------99999------99999-------9999999999--------------9999999-----999-9999999-------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13764134 89 - 95030419 --------AATCAGAGATTTCTT---GGAGTTAGCAAACATCTTCCTTT--------AGATG------CGATTGAGGGAGTTGGTGAGCT--------------TCAGGGA-----ACT-GGCAACCACTTGTG
+q bosTau3.chr9 --------999999999999999---99999999999999999999999--------99999------9999999999999999999999--------------9999999-----999-99999999999999
+i bosTau3.chr9 C 0 I 2618
+s dasNov1.scaffold_145011 8190 84 + 8690 TCAGC--CAACTGGAGATTTACT---GGCATTCGGAAATGTCTTCCCTT--------TAAAA------TATCT-------CTGGCGAGGT--------------TAAAGGA-----ACT-AGCAGCCACT----
+q dasNov1.scaffold_145011 99879--9999497568999995---99999968889968999899999--------95898------97989-------9498586887--------------8797888-----999-9999999999----
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 112653 923 - 523245 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=-21033.000000
+s mm9.chr10 3227726 55 + 129993255 ------CCAGTGTCATTGTTTTTACACTTACAACAAC-ATA---------TTCCCAGCAGTGTCTGGGGCA-
+s cavPor2.scaffold_284118 119745 48 - 169015 ------TGAGTGTGA------CTAAAATCACAAAGTCTACT---------GTCCTGTCAGCCTCGGAGG---
+q cavPor2.scaffold_284118 ------999777699------99999999999999999999---------9799998997999988999---
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230045252 55 - 267910886 ------CTGGTGCCATTGTTTTTATACCCACACCAAC-ACA---------TTCCCATCAGTGTCTGGGGCA-
+q rn4.chr1 ------9999999999999999999999999999999-999---------999999999999999999999-
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16657252 35 - 173908612 ---------------------tCAG-----TCTGGCT-GTT---------TTCCTCTCTACCTCTAAGACA-
+q panTro2.chr6 ---------------------9999-----9999999-999---------999999999999999999999-
+i panTro2.chr6 I 340 I 60
+s otoGar1.scaffold_85251.1-136255 25752 37 - 136255 ---------------------TCAG---CACCAGGAC-GCT---------TTGCTGTCAGTCTCTGAGGCA-
+q otoGar1.scaffold_85251.1-136255 ---------------------6995---515221564-569---------943119799979999999659-
+i otoGar1.scaffold_85251.1-136255 I 14 I 545
+s tupBel1.scaffold_114895.1-498454 423912 50 - 498454 ------ATGGTGTGATTGAATTCAG-----TCAGGCT-GTT---------TTCCTGACAGCCTGTAAGGGA-
+q tupBel1.scaffold_114895.1-498454 ------9899999999999999999-----9999999-999---------999999999999999999999-
+i tupBel1.scaffold_114895.1-498454 C 0 I 1
+s canFam2.chr1 78290126 24 - 125616256 --------------------------------------CTC---------TTCCTGTCAGCCTCTGAGGGA-
+q canFam2.chr1 --------------------------------------999---------999999999999999999999-
+i canFam2.chr1 C 0 I 1
+s equCab1.chr31 13082976 32 + 24938454 --------------------------------------CTCGTGTATGGGTTCCTTTCAGTCTCT-AAGGA-
+q equCab1.chr31 --------------------------------------999999999900999999999999999-99999-
+i equCab1.chr31 C 0 I 1
+s dasNov1.scaffold_145011 8274 57 + 8690 CACATATTAGTATAATTGAACTCGG-----ACCAGCT-GCT---------TTTCTATCAACCCCTAAATGAA
+q dasNov1.scaffold_145011 9999999999999999688999897-----6798977-999---------9999989989999999996899
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 112653 923 - 523245 I
+e hg18.chr6 16132275 744 - 170899992 I
+e ponAbe2.chr6 16444635 1109 - 174210431 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=-54153.000000
+s mm9.chr10 3227781 59 + 129993255 CTTCA--A--------GAAACTAATCT--GTTGGC---------TGGGGGTGGGGGGTGGGAGGGCAGCCCCCACAAACA
+s cavPor2.scaffold_284118 119793 41 - 169015 ----------------GAAGATAGTGT--GTTCCA---------TGGGGG------------ACCCAAGTGTGCTATGCA
+q cavPor2.scaffold_284118 ----------------69998599976--799965---------989998------------959859979689997756
+i cavPor2.scaffold_284118 C 0 I 4
+s rn4.chr1 230045307 53 - 267910886 CTTTG--A--------GAAGCCAGTGTGCGTTGGC---------CGGGGGCAGG--------AACCAGATGCCACAAACA
+q rn4.chr1 99999--9--------9999999999999999999---------9999999999--------999999999999999999
+i rn4.chr1 C 0 I 1
+s panTro2.chr6 16657347 61 - 173908612 ctttg--g--------gaggccaaggt--gggtggattac----tgggggtcaggagttca-agaccagcctggccaa--
+q panTro2.chr6 99999--9--------65445444557--66685455335----51111133445665554-4655222111113322--
+i panTro2.chr6 I 60 I 77
+s tupBel1.scaffold_114895.1-498454 423963 52 - 498454 CTGCA--GT-------GAGATCCGAGT--ATTCCGAGTATTCCGTGGGGG------------AGGCAAGGGTGTC-----
+q tupBel1.scaffold_114895.1-498454 99999--99-------99999999999--999999999999999999999------------9999999999999-----
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s canFam2.chr1 78290151 11 - 125616256 CTACA--------------------------------------------------------------------GCTGAA-
+q canFam2.chr1 99999--------------------------------------------------------------------999999-
+i canFam2.chr1 I 1 C 0
+s equCab1.chr31 13083009 52 + 24938454 CTGCAGAG--------AAGACGTGGGT--GTTTCG---------TGGGGGACGG--------AAAGGAGTTTGGCAAAT-
+q equCab1.chr31 99999999--------99999999999--999999---------9999999999--------99999999999999999-
+i equCab1.chr31 I 1 C 0
+s dasNov1.scaffold_145011 8331 31 + 8690 --------TGACAAGAAGGATGTGGGT--GTCCAAAC-------TGAG--------------------------------
+q dasNov1.scaffold_145011 --------6899979979996969996--98789987-------7899--------------------------------
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 112653 923 - 523245 I
+e otoGar1.scaffold_85251.1-136255 25789 545 - 136255 I
+e hg18.chr6 16132275 744 - 170899992 I
+e ponAbe2.chr6 16444635 1109 - 174210431 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=-2958.000000
+s mm9.chr10 3227840 50 + 129993255 GGATTGAAGAGGCTTCTG--TGGTGATTCATTCAGTATATA-G-CGCATGCCTG
+s cavPor2.scaffold_284118 119838 49 - 169015 GGGAAGGAAAATCTGATG--GCAAGATTCATTGAGTGCCTT-C-TGTGTGACA-
+q cavPor2.scaffold_284118 897969989966977959--559999799699999988789-9-998999978-
+i cavPor2.scaffold_284118 I 4 C 0
+s rn4.chr1 230045361 50 - 267910886 GGATGGAAGGGGCTTGTG--TGGTGATTCATCTGGTACATA-A-CCCGCAGTCG
+q rn4.chr1 999999999999999999--999999999999999999999-9-9999999999
+i rn4.chr1 I 1 C 0
+s hg18.chr6 16133019 48 - 170899992 GGAGAGAAGAGGCTTGCAGTGTGTGA-CCACAGGGTGTTCA-A-CACACTA---
+i hg18.chr6 I 744 I 29
+s tupBel1.scaffold_114895.1-498454 424015 37 - 498454 -------------TTGGAGTGTGTGATTCAATGGGTGCTTAGG-CGTACTA---
+q tupBel1.scaffold_114895.1-498454 -------------999999999999999999999999999999-9999999---
+i tupBel1.scaffold_114895.1-498454 C 0 I 3
+s canFam2.chr1 78290162 51 - 125616256 GGGTAGAAGAGACGGGGGTTGTGTGATTCA-TGAGTGCTTT-A-ACCACAATGT
+q canFam2.chr1 999999999999999999999999999999-9999999999-9-9999999999
+i canFam2.chr1 C 0 I 1
+s equCab1.chr31 13083061 52 + 24938454 GGGTAGAGAGGGTGGGAA-AGTGTGATTCATTGGGTGCTGA-AGGACACAACAT
+q equCab1.chr31 999999999999999999-9999999999999999999999-999999999999
+i equCab1.chr31 C 0 I 1
+s dasNov1.scaffold_145011 8362 51 + 8690 GGACAGGAGAGGCTTGGAGTGAGTGACTTGTTGGGTATTTA-G-TAAAGGGTA-
+q dasNov1.scaffold_145011 99998998999999799996899889998898999999999-9-999999999-
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 112653 923 - 523245 I
+e otoGar1.scaffold_85251.1-136255 25789 545 - 136255 I
+e panTro2.chr6 16657408 77 - 173908612 I
+e ponAbe2.chr6 16444635 1109 - 174210431 I
+e oryCun1.scaffold_214769 130876 838 - 139458 I
+
+a score=68412.000000
+s mm9.chr10 3227890 201 + 129993255 TGAGCAGAGTACA-GGAAAG-----------GGC--------------AAGGA-AGGAGCTGTGTTCCAGG-A---GCGTTGG-CCC-CTGCCAGTTTC-CTGTTGACC----TGGGCTCTGTGCCCAGACA---------CGATGCTT-----GCTTTGACT-CTCTG------GTCTG----GAAGATGGTTAC--------------AGTCCCATTGCTTAATGGTGTGCAGAGCTTCGGACAGCATGGTTAGTGTGATGGGC-ACTTTTCTCTGC-----
+s cavPor2.scaffold_284118 119887 198 - 169015 -GGGCAGAGTGTACTCACAGG--ACACTGGTGGT--------------GAGAA-GGGAGCTGTGGAAAAGG-G---GAGCCT--CGC-TTGCTAGTTTTACTGTTCACT-GAGCTGGCTCTGTGCCCAACAAGTGGAGTGGCCCCGCTG-----CGTTTTGCT-CCTGG------ATTTA----GGGGAGA---------------------------TGACTAA--------AAAGCTTTGGAGGTCTTATCTGGCATGGTG----TCCCTTGTCTGT-----
+q cavPor2.scaffold_284118 -99669899885678959699--98779999999--------------99999-99999799999999999-9---997999--989-999899999999999999799-999999999999997975998999999999959999999-----998999969-99999------99999----9999999---------------------------7999989--------999999999999989799999999999999----997999977799-----
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230045411 215 - 267910886 TGAGCAGAGTATA-GGAAGGG--CCTCTGGAGGC--------------AAGGA-GGGAGCTACGCTCGAGGAA---GAGTTGA-CCC-CTGCCAGTTTC-CTGTTGGCCTGAGTGGGCTCTGTCCCCAGAC----------CCATGCTT-----GCTTTTACT-GTCTG------GTCTG----AAGGAGGGCTAC--------------AGTCCCACTGGTTAATGGTGTTCAGAGCTTCCGACAGCATGGTTGGTGTGGTGGACGGTTTTTCTCTGC-----
+q rn4.chr1 9999999999999-9999999--99999999999--------------99999-9999999999999999999---9999999-999-99999999999-9999999999999999999999999999999----------99999999-----999999999-99999------99999----999999999999--------------999999999999999999999999999999999999999999999999999999999999999999999-----
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16133096 220 - 170899992 --CGTGTAGGGCA----CT---------GGTGAT--------------GAGGA-GGGAGCTGTGTACGAGG-GGC-GAGCCAG-CCC-TGCCTGTTTTA-CTCTTGTCTTGAGCTGGCTTTATGCCCAGGAAGT-GGGTGGCAACATCT-----CCTCTTACT-CCCCA------GATTG----TGGGGAGAACTCTAAGAGCTGT----AGTTCCACTGGATGATGAGTTAAATCACTCTGGAGGCCTTAGCTGGCTGGTGAG---CTCTTTTTCTGT-----
+i hg18.chr6 I 29 I 5
+s panTro2.chr6 16657485 220 - 173908612 --CGTGTAGGGCA----CT---------GGTGAT--------------GAGGA-GGGAGCTGTGTACGAGG-GGC-GAGCCAG-CCC-TGCCCTTTTTA-TTC-TGTCTTGAGCTGGCTTTGTGCCCAGGAAGT-GGGCGGCAACATTT----CCCTCTCACTCCCCCA------GATTG-----GGGGAGAACTCTAAGAGCTGT----GGTTCCGCTGGATAATCAGTTAAATCACTTTGGAGGCCTTAGCTGGCTGGTGAG---CTCTTTTTCTGC-----
+q panTro2.chr6 --22222444232----32---------223322--------------22111-11121112111222433-322-2223221-111-11111122321-111-121223442222332222224445322222-33222223322112----1111223345433422------22332-----223543333222433323343----465544434456999999999499999999999999899999799999999791---655599999999-----
+i panTro2.chr6 I 77 I 5
+s tupBel1.scaffold_114895.1-498454 424055 226 - 498454 -------AGGGCAGAGCCT---------AGTCATGGGGGGCTG-CGAGTGGGA-GGGGACTATTTAAAGGC-AGCAGAGCCAG-CCCTTGGCTATTTCA-CTGTTAGCCTGAGCTGGCTGTGTGCCCAGAAGATGGGGCAGTAACACCTCACTCCACCTCATT-GCCTG------GATTT----AGGGGAAGACTGTCAGTGTTGT----AGTTCCACTACTTAGTGAATGAAACAGCTTTGGAAGGT--------------AG---TCCTTTTTCTGT-----
+q tupBel1.scaffold_114895.1-498454 -------999999999999---------999999999999999-999999999-99999999999999999-99999999999-999999999999999-999999999999999999999999999999999799999999999999999999979999999-99999------99999----9999899999999999999999----99999989999999999999999999999999999999--------------99---999999999998-----
+i tupBel1.scaffold_114895.1-498454 I 3 I 5
+s oryCun1.scaffold_214769 131714 193 - 139458 -----------------------------GGAAC--------------GGGCA-AGGAGCTG------AGG-A---GAGCCAG-CCC-TTACCACTTGA-CGGTTT----GAGCTGGCTTTGTGCCCA--CAGTGGAGTGGCAACACAT-----TTTGTCGCT-GTCTGA-----ACTTA----GGGGAGGGTTCCTAGTACCTGT----AATCCCACTACTTATTGA-GTTCAAAGCTTTAGAGGTCTTGACTGGCAGGGTGA---CCCACTTCCTGT-----
+q oryCun1.scaffold_214769 -----------------------------77996--------------66799-57578788------798-7---8989999-999-99999999489-988895----989969999979968999--9993999757799999999-----993999999-999999-----99999----9999999999999999999999----999999999999999999-99999999999999999999999999999999999---999999999899-----
+i oryCun1.scaffold_214769 I 838 C 0
+s calJac1.Contig1260 113576 203 - 523245 -------------------------------AAT-----------GATGAGGA-GGGAGCTGTGTACGAGG-GGT-GAGCCAG-CCC-TGCCTG-TTTA-CTCTTGTCTTGAGCTGGCTTTATGCCCAGGAAGT-GGATGGCAGCACCC-----CCTCTTACT-CCCCA------GATTG----TGGGGAGAG--CTAAGAGTCGT----AGTTCCGCCGTGTAATGAGTT-AATTGCTTTGGAGGTCTTAGCTGGCAGGTTAG---CTCTTTTTCTGT-----
+i calJac1.Contig1260 I 923 I 2
+s ponAbe2.chr6 16445744 204 - 174210431 ---------------------------------------------GATGAGGA-GGGAGCTGTGTATGAGG-GGC-GAGCTAG-CCC-TGCCTGTTTTA-CTCTTGTCTTGAGCTGGCTTTATGCCCAGGAAGT-GGGTGGCAACATCT-----CCTCTTACT-CCCCA------GATTG----TGGGGAGAACTCTAAGAGCTGT----AGTTCCGCTGCATAATGAGTTAAATCACTTTGGAGGCCTTAGCTGGCTGGTGAG---CTCTTTTTCTGT-----
+i ponAbe2.chr6 I 1109 I 5
+s canFam2.chr1 78290214 253 - 125616256 AGGGCAGAGCAT-GGGGTGGGGAGGTCTGGTGATAGGGCCCTGAAGACTAGCATGGAAGCTATGGAAAAGG-AGGGGCACCAGCCCT-GGCCCATTTTA-CTGTTAGCTTGAGCTGGCTTTATGCCCAGAAAAGGAGATGGCAACACTT-----CCTCTCACT-CCCTG------GAT------TTGGGAGGATTCTTAGTGCTCCATCTAGTTCAGCTGAGTAATGAGTTAAGTAGCTTTGGAGGTCTTAGCTGG-AGGTTGG---CTCCTTTTCTGT-----
+q canFam2.chr1 999999999999-9999999999999999999999999999999999999999999999999999999999-999999999999999-99999999999-9999999999999999999999999999999999999999999999999-----999999999-99999------999------999999999999999999999999999999999999999999999999999999999999999999999999-9999999---999999999999-----
+i canFam2.chr1 I 1 I 2
+s equCab1.chr31 13083114 254 + 24938454 AGGGCAGAGCGTGGGGGCGGGGAGCTCTGGTAATAGGGCCCTGGTGACTGGGA-GGGGGCTATGGAAAAGG-AGGCGCGCCAG-CCG-GGCCCATTTTA-CTGTTAGTGTGAGCTGGCTTTATGCCCAGAAAATGGGGTGGCAACACTT-----CCTCTCACT-CCCTG------GCTGGGGGGGTGGGTGGACTCTGAGGGCTGC----AGTTCAGCTGAATAATGAGTTAAGCAGCTTTGGAGGTCTTAGCTGA-AGGTTAG---CCCCTTTTCTAT-----
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999-99999999999999999-99999999999-999-99999999999-9999999999999999999999999999999999999999999999999-----999999999-99999------9999999999099999999999999999999----9999999999999999999999999999999999999999999999-9999999---999999999999-----
+i equCab1.chr31 I 1 I 2
+s dasNov1.scaffold_145011 8413 98 + 8690 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------AGAGCAGAGTG----TAGGGGAGG-----GGGGCTTG----GGATTAGCTGCATCATGAAATGGAGAGCTTTGGAGGCATCAGTTGGCAGGT-AG---TCCCTTTCCTGTGGGGA
+q dasNov1.scaffold_145011 -------------------------------------------------------------------------------------------------------------------------------------------------------------------------99999999999----999999989-----99999999----999999999999999998999999999999999999999999999998999-69---99999999999999998
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e otoGar1.scaffold_85251.1-136255 25789 545 - 136255 I
+
+a score=118715.000000
+s mm9.chr10 3228091 58 + 129993255 AG-----ATGTCTCTTCTAAATTGAAGGAGCGTCCTAAGAATGGATTCTCAGAACTCAGACTT
+s rn4.chr1 230045626 59 - 267910886 AG----AAAATGTCTTCTAAATTGAAGGAGCACCCTGAGAATGAATTCTCAGAACTCACACTT
+q rn4.chr1 99----999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 120085 50 - 169015 GGGAAAAATACCACTTGTAAATCGAAG-------------CTGAATTTTCAAAACTCACTCTT
+q cavPor2.scaffold_284118 999999999999699999999996789-------------97999999653899998599979
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 131907 63 - 139458 AGAGCAAATGCCACTTGTGAATTGATTGACCATCATCAAAATGAATTTTCAGGACTGAGTCTT
+q oryCun1.scaffold_214769 999999999999999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16657710 58 - 173908612 -----AAATGCCACTTGTGAATTGAACAGCCATCCTTTAAGTGAATATTCGGCAGTCAGTCTT
+q panTro2.chr6 -----9999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 5 C 0
+s hg18.chr6 16133321 58 - 170899992 -----AAATGCCACTTGTGAATTGAACAGCCATCCTTTAAGTGAATATTCGGCAGTCAGTCTT
+i hg18.chr6 I 5 C 0
+s calJac1.Contig1260 113781 13 - 523245 --------------------------------------------------GGCAGTCAGTCTT
+i calJac1.Contig1260 I 2 C 0
+s ponAbe2.chr6 16445953 58 - 174210431 -----AAATGCTACTTGTGAATTGAATAGCCATCCTTTAAATGAATATTCGGCAGTCAGTCTT
+i ponAbe2.chr6 I 5 C 0
+s otoGar1.scaffold_85251.1-136255 26334 52 - 136255 -----AAATGTCACTTGTGAATTGAATAGCCATCCTCAAAATGCATTTTCAGAA------TGT
+q otoGar1.scaffold_85251.1-136255 -----9976677678676666697666776656666769986765899875767------686
+i otoGar1.scaffold_85251.1-136255 I 545 C 0
+s tupBel1.scaffold_114895.1-498454 424286 57 - 498454 -----CAATGCTATTTGTGAGTTCAATGACCA-CCTTGAAATGAATTTTTAGAAGTCAGTCTT
+q tupBel1.scaffold_114895.1-498454 -----999999999999999999999999999-999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 5 I 2731
+s canFam2.chr1 78290469 60 - 125616256 --AGAAAATACCACTCGTGA-TCAGATGACCATCCTCAAAATGCATTTTTAGGAGTCAGTCTT
+q canFam2.chr1 --999999999999999999-999999999999999999999999999999999999999999
+i canFam2.chr1 I 2 C 0
+s equCab1.chr31 13083370 60 + 24938454 --AAAAAATGCCACTTGTGA-TCAAATGAGCGTCCTCAAAATGAATTTTCAGCAGCCAGTCCT
+q equCab1.chr31 --999999999999999999-999999999999999999999999999999999999999999
+i equCab1.chr31 I 2 C 0
+s dasNov1.scaffold_145011 8511 57 + 8690 -----AAATGCCACTTGTGAATGAAATGACCA-ACTTGAAATGACTTTTCTGAAGTCAATCTT
+q dasNov1.scaffold_145011 -----799999999999799899999799999-997799995899999955999999999999
+i dasNov1.scaffold_145011 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+
+a score=80427.000000
+s mm9.chr10 3228149 107 + 129993255 AACTCTTGTCTGCAGCG--CTCAACTCAAATTATTACACCAGA-TGGTGCCTCCCTCCCACACTCTTCCTGGAAGCTCTGGGGGA----AGTCCAGGGAAAGTTCTGGCTTCCT
+s rn4.chr1 230045685 104 - 267910886 CACTC---TCCGCAGCG--CTCAACTCAAATTATTACACCAGA-TGGTACCTCCCACACACATTCTTCCTGGAAGCTCTGGAGGA----AGTCCAGGCAAAGTTCTGGTTTCCT
+q rn4.chr1 99999---999999999--999999999999999999999999-99999999999999999999999999999999999999999----9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 120135 81 - 169015 AACTC---TGTACAG---------------------CATCAAA-TCGTACTT-------AGACCTTTCCT-GAAGCCCTGCGGGAAAGGAGGTCCGAGAAGGTTCTGACTTCAT
+q cavPor2.scaffold_284118 99999---9977659---------------------7799699-99989799-------99999899999-9767989999998989999994999999999799699989949
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 131970 106 - 139458 AACAGCTAGAAGCAGTG--CCCAACTTCAGCTACTGTACCAGGTTGGTGCTTCTCAGACTCCATTCCCCT-GAGGCCCC-CAGAT----GGACCAGAGAAGGTTCTGGGGTCCC
+q oryCun1.scaffold_214769 99999999999999999--999999999999999999999999999999999999999999999999999-99999999-99999----9999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16657768 87 - 173908612 CATTA---TAGGCAGTG--GCCA--------------ACCAGATTGGTGCTTTTCAGCCTT-TGTTCCCT-GGAGTCCC-GGGAC----CCGCGAGAGAAGTTCCTGGC-TCCT
+q panTro2.chr6 99999---999999999--9999--------------999999999999999999999999-99999999-99999999-99999----99999999999999999999-9999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16133379 87 - 170899992 CATTA---TAGGCAGTG--GCCA--------------ACCAGATTGGTGCTTTTCAGCCTT-TGTTCCCT-GGAGTCCC-AGGAC----CCGCGAGAGAAGTTCCTGGC-TCCT
+i hg18.chr6 C 0 C 0
+s calJac1.Contig1260 113794 66 - 523245 CATTA---TAGGCAGTG--CCCA--------------ACCAGATCGCTGCTTTTCAACCTT-TGTTCTCT-GGAATCCT-G-------------------------GGC-TGCT
+i calJac1.Contig1260 C 0 C 0
+s ponAbe2.chr6 16446011 87 - 174210431 CATTA---TGGGCAGTG--GCCA--------------ACCAGATCGGTGCTTTTCAGCCTT-TGTTCCCT-GGAGTCCC-AGGAC----CCGAGAGAGAAGTTCCTGGC-TCCT
+i ponAbe2.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 26386 81 - 136255 CACTA---TTGGCAGCACCCCCA--------------ACCAGATGGGCGCTTTTT---------TCCCCT-GAAGTCCC-GGGGA----CAGCCAGAGAAGTCTCTGCA-TCCT
+q otoGar1.scaffold_85251.1-136255 77786---778767645699975--------------697678679566589999---------868976-76665696-69965----68669787796646966654-6767
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s canFam2.chr1 78290529 102 - 125616256 AACTA---CAGGCAGTG--CCCAACTTAAATGACTGCACCAGGTAGGTGTTTCTGTGACCT-TGTTCTCT-CAAGCTCTAAAAGG----AGACCAGAGAAGTTTCTGGG-TCCT
+q canFam2.chr1 99999---999999999--999999999999999999999999999999999999999999-99999999-99999999999999----99999999999999999999-9999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13083430 102 + 24938454 AACTG---TAGGCAGTG--CCCAGCTTAAATTACTGTATTAGATGAGTGTTTTTTAGACTC-TGTTCCCC-GAAGCCCTAAAAGA----AGACCAGAGAGATTTCTGAG-TCCT
+q equCab1.chr31 99999---999999999--999999999999999999999999999999999999999999-99999999-99999999999999----99999999999999999999-9999
+i equCab1.chr31 C 0 C 0
+s dasNov1.scaffold_145011 8568 100 + 8690 AACTC---TAAGCAGTG--CCCA-CTTAAATTCTTCACCCAGATGGGTATTTTTTGGACCC---TGTCCT-GAAGCCTTAGGGGA----AGGCCAGAGAGTTTTCTGGGGCCCT
+q dasNov1.scaffold_145011 99999---999999999--9999-9999999999999999886799999999998999999---999995-99999999999999----8843499999999998279999993
+i dasNov1.scaffold_145011 C 0 N 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+
+a score=203025.000000
+s mm9.chr10 3228256 146 + 129993255 CT--------A-----------CAGCCTCCACA-ATGTCTCTTTTCTTTGTATTTTCGTCTGAGG-TTTTT-ACCTGAATTATGTTTAAAAACTCTATCGCTGCTA------------------------------AAG-GAT-----TTTGTAAAACTCTGCTTTTGAAATATAT-AGCAACAGC--TAATAGT-AGTTCCTCAAAA
+s rn4.chr1 230045789 149 - 267910886 CT--------A-----------CAGCTTCCACA-ATTTCTCCTTTCTTTGTATTTTCATCTGGGG-TTTTTAACCTGAATTATGTTTGAAAACTCTATTGCTGCTA------------------------------AAGTTAT-----TTTGTAAACCTCTGCTTGTGAGATATAT-AGCAATAGG--TAATAATAAATTTCTCAGAA
+q rn4.chr1 99--------9-----------99999999999-9999999999999999999999999999999-9999999999999999999999999999999999999999------------------------------9999999-----9999999999999999999999999999-999999999--99999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 120216 154 - 169015 CT--------ATCTATA---GTTAGtctcttta-gttttgtttttatttgtacttttagcTGGGA-TCCTT-TCCTGAATTGTGTTTGAAAAATATATTGCTGCTa------------------------------aaa-aaa-----TCTGTACAAATCTATTTTTGAAATACGTAAGTAATAGT--TAACATG-AGTTTCTTAGA-
+q cavPor2.scaffold_284118 96--------9996999---9688869698999-9787885679998986498599995558996-58769-9996968999365568868897887887649646------------------------------699-999-----96599962879989999999599899678977796999--8999799-99999999999-
+i cavPor2.scaffold_284118 C 0 I 2039
+s oryCun1.scaffold_214769 132076 128 - 139458 AT--------TTGTTT------TGCGCCCTGCA-ATTTTGTTTTTGTTTGTATTTTTATTTAATG-TTTTC-TCCTGAACTGTGTTTAAAAAATATACTGCTGCTA------------------------------AAA-AAA-----TGTATAAAATTCTG---TTGAAATCTAT---CAGTAGC--T-------------------
+q oryCun1.scaffold_214769 99--------999999------99999999999-9999999999999999999999999999999-99999-9999999999999999999999999999999999------------------------------999-999-----99999999999999---99999999999---9999999--9-------------------
+i oryCun1.scaffold_214769 C 0 I 2762
+s panTro2.chr6 16657855 162 - 173908612 CT--------ACCTTCA---GTCACCCTCCACA-GCTTCATCTTTCT------TTTTATTTGAGG-TTTTC-TCCTGAATTGTGTTTGAAAAATATATTGCTGCTAAAAAAAAACAAAACACACACACACACACACAAA-AAA---CCTTTGTAAACCTCTACTATGGACATACATAAATAATAGT----------------------
+q panTro2.chr6 99--------9999999---9999999999999-9999999999999------999999999999-99999-9999999999999999999999999999999999999999999999999999999999999999999-999---9999999999999999999999999999999999999999----------------------
+i panTro2.chr6 C 0 I 3010
+s hg18.chr6 16133466 137 - 170899992 CT--------ACTTGCA---GTCACCCTCCACA-GCTTCATCTTTCT------TTTTATTTGAGG-TTTTC-TCCTGAATTGTGTTTGAAAAATATATTGCTGCTAAAAAA-------------------------AAA-AAA---CCTTTGTAAACCTCTACTATGGACATACATAAATAATAGT----------------------
+i hg18.chr6 C 0 I 1677
+s calJac1.Contig1260 113860 135 - 523245 CT--------ACCTTCA---GTCAGCCTCCACAGGCTTCGTCTGTTT------TTTTATTTGAGGTTTTTC-TCCTGAATTGTGTTTGAAAAATACATTGCTCCTA------------------------------GAA-AAA---ACTTTGTAAACCTCTACTGTTGACATATATAAATAATAGT-T--------------------
+i calJac1.Contig1260 C 0 I 2091
+s ponAbe2.chr6 16446098 160 - 174210431 CTACCTTCAGACCTTCA---GTCACCCTCCACA-GCTTCATCTTTCT------TTTTATTTGAGG-TTTTC-TCCTGAATTGTGTTTGAAAAATATATGGCTGCTaaaaaaaaaaaaaaaaaaaa-----------aaa-aaa---CCTTTGTAAACCTCTACTATGGACATACATAAATAATAGTT---------------------
+i ponAbe2.chr6 C 0 I 1674
+s otoGar1.scaffold_85251.1-136255 26467 122 - 136255 CT--------ACGGTCA---GTCCCTCTCTGCT-GCTGCATTTTTAT------CTTTATTTGAGG-CTCTC-TTCTGAATTATGTTTGAACAATATATTGCTGCTA------------------------------AAA-AAA---AGTTTGTCCGTCTTTG-TATTGAAATGTGTA-------------------------------
+q otoGar1.scaffold_85251.1-136255 69--------6697699---7679997996858-9757675898557------999799959996-69897-9957897897799899966987998889988986------------------------------999-999---9889978998899988-99878999897999-------------------------------
+i otoGar1.scaffold_85251.1-136255 C 0 I 1709
+s canFam2.chr1 78290631 155 - 125616256 CT--------GCCTTCATTGGTCAGACGCCACA-GCTTCATCTGTAT------TTTTATGTGGGG-TTTCC-TCCTGAATTGTGTTTGAGAAATAGATCACTGCTA------------------------------AAA-AAAATGTTTGCATACATCTCTACTTGTGAGATATATAAACAATAGT--TTAATACTGATTTCTTA---
+q canFam2.chr1 99--------99999999999999999999999-9999999999999------999999999999-99999-9999999999999999999999999999999999------------------------------999-9999999999999999999999999999999999999999999999--99999999999999999---
+i canFam2.chr1 C 0 I 1728
+s equCab1.chr31 13083532 153 + 24938454 CT--------CTCTTCA---GTCAGCCTCCCCA-GCTTCATTTTTAT------TTTTATTTGGAG-CTTTC-TCCTGAATTGTGTTTGAGAGAGAGATTGCTGCTA------------------------------AAA-AAA--GTTTGTATATATTTCTCCTGTTGAGATATATAAACAGTACT--TTCATACTAATTTCTTAGAA
+q equCab1.chr31 99--------9999999---9999999999999-9999999999999------999999999999-99999-9999999999999999999999999999999999------------------------------999-999--99999999999999999999999999999999999999999--99999999999999999999
+i equCab1.chr31 C 0 I 1595
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+
+a score=11758.000000
+s mm9.chr10 3228402 280 + 129993255 -----tggggagatatcttggtatataaagagcttgctgaacaaggaaagcgccagagtttggatccctccgatccctgcaggtgtggtaactctacacctcctgcactcccaggctgtcaagatgagggatcccaggagcaggctggtcggctagactggctggagtctgcaagttctgggtcagtgaaagatcagctttcagtatgtacgatggaagggcagccaaggaaggaactcggtgtctgtgcgcacaggtctgcacatgcatgtgtgcgcacaGGAA
+s rn4.chr1 230045938 251 - 267910886 Tggactggggcgataccttggtgggtagagggcttgctgagcaaggaaagcattcgagtttggat-----------ctgcaggtgtggtgactg-------cctgtactccca-gccgtaaagatgagggct-ccaggagcaggccgg---------ccggttggagtctaca--ttctgggtcactgaggaatcagctttcagtacgtaaggtggaagagtggccaacgaagaaacccaggggcagc---ctctgatccacatgtgcatgtgtgtgcacacaca
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999-----------999999999999999999-------999999999999-999999999999999999-999999999999999---------9999999999999999--9999999999999999999999999999999999999999999999999999999999999999999999999---9999999999999999999999999999999999
+i rn4.chr1 C 0 I 145
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13083685 1595 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 113995 2091 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 120370 2039 - 169015 I
+e otoGar1.scaffold_85251.1-136255 26589 1709 - 136255 I
+e hg18.chr6 16133603 1677 - 170899992 I
+e panTro2.chr6 16658017 3010 - 173908612 I
+e ponAbe2.chr6 16446258 1674 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=0.000000
+s mm9.chr10 3228682 215 + 129993255 CTTCCTGGTGACTTCCTAGTCCTGTCCAACCTGACCCTACCCCATCACCCCCCATACACACTTttgttgttgttgttgttgtttgttttttgagacatggtttctctatatagctctggctgttctggaactcattctgtagaccaggctggtcttgaactcagaaatccgcctgcctctgcctcccaagtgctgggattaaaggtgtgcgccac
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e rn4.chr1 230046189 145 - 267910886 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13083685 1595 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 113995 2091 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 120370 2039 - 169015 I
+e otoGar1.scaffold_85251.1-136255 26589 1709 - 136255 I
+e hg18.chr6 16133603 1677 - 170899992 I
+e panTro2.chr6 16658017 3010 - 173908612 I
+e ponAbe2.chr6 16446258 1674 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=16668.000000
+s mm9.chr10 3228897 337 + 129993255 cactgcctggctTCATCCCCCCCCCCCTCCCCTTTAAAGAAATGTTTTTCACTTAAACATTTTTAAATTCTATTTTATTTTGTGTTACTTTAAACATCTTAAAGATTTATA--TGTTTAATTATGTT---CTCCTTCCCCAAGTCCTTCTAGATCTTCTACCCACTCCCTACCTACCCAACTTTAAGTTCTTTCTCAAGGAACaac--------aacaacaaaaatacaaaaacaaaagctccaaacaaaaaaaacaaaaacacaatcataaaccaaaaaaagaaaatcaataacaaaTGAACCCAACCCACCACACTGTAGTCAAATAAAAGTGTCCACACACACACAC
+s rn4.chr1 230046334 338 - 267910886 TCCTGTCAAACCCAACCGAACACCATCCCCCATTTTAAGAAATGTTTTTCatttaaaa--tttaaaattttattttattttGTGTTACTTTAAACTTTTTTAAAGTTTATATGTGTTTGACCATGTTCTCCTCCTCCCCCAAGTCCTCCTAGATCCTCTACCCCCTCCTT-CCCCCCTAACTTTAAGCTCTTTCTcaaaacaaaacaaaaaacaaacaaaacaaaaacaaaaacaaaaacTCCAAACTAAGAAAACCAAAA---------GAACCACAAAACAAAACAAAATAGCAAATGAATCCAACCCACCACACTGTAGTCAAATAAAAATGTacacagacacacag
+q rn4.chr1 9999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------99999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 I 145 I 117
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13083685 1595 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 113995 2091 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 120370 2039 - 169015 I
+e otoGar1.scaffold_85251.1-136255 26589 1709 - 136255 I
+e hg18.chr6 16133603 1677 - 170899992 I
+e panTro2.chr6 16658017 3010 - 173908612 I
+e ponAbe2.chr6 16446258 1674 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=33819.000000
+s mm9.chr10 3229234 595 + 129993255 CAAAACCTGTAGAGTCCACTGTATGTTTGCCAACTACTCCTGAACATGAAGCCTGTCC------------------AAGTGTCACTCTTGGAGAAAACTGATTGTCCCTGTCCCAGCAGGTAAGAATGACAGTGGCTAGGTTTTCcattca----ttcattcattcattcattcattcTTTTTTTTTTTTTaacaaaatatgatttaagttaaaaactatcacatcaaatttggacaaggcaaagcagcagaaggaaaagagccca-gagaaggtacaagaatcagagacccactcacactcaggaatcccataaaaacactaagctggaagtcattatgtatttgcagaggatcactgcagacccctccaggccctg-------------------tgggtttgtatgagctttgctcacattgatttag [...]
+s rn4.chr1 230046789 617 - 267910886 ACAAACCTGTAGAGTCCACTCTATGCTTTCCAATGGCTCCTGAACGTGAGGCCTGTCCTGTAGTGATTAATATACTTAGTGTCACTCTTGGAGAAAACTGATTGTTCCTCGCCCAGCAGGTCAAAGTAACAGTGGCTAGGTTTTCTGTCCATATGTCcatccatccattcatttgtttattcattcattTTTacaaaatataataaaagttacaaactatcacaccgaagttggacaaggcaaagcaacagaaggcaaagagcccatgagaaggcacaaggatcggagacctgcttgcatttagga-----ataaaaacacggggctggaagtcattatatacttgcagaggatcgc-acagacccctacaggccctgtgcctgctgcttcagactctgggttcctgtgagctttgctcacattgatttag [...]
+q rn4.chr1 999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999 [...]
+i rn4.chr1 I 117 I 1240
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13083685 1595 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 113995 2091 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 120370 2039 - 169015 I
+e otoGar1.scaffold_85251.1-136255 26589 1709 - 136255 I
+e hg18.chr6 16133603 1677 - 170899992 I
+e panTro2.chr6 16658017 3010 - 173908612 I
+e ponAbe2.chr6 16446258 1674 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=10972.000000
+s mm9.chr10 3229829 161 + 129993255 ggtactagagatgtagctgaaaattttatattcaga---gcagacagcaggaaga-agagccagccattgggcctggcttaagcatctgagatctcaaagcccaccccc--------agtgacatacttccttcaagaaggccacatcttctagtagtgccacttcctgtggg
+s rn4.chr1 230048646 173 - 267910886 cgtactggacatgtagctgagagttctatattcagatcagcagacagcaggaagagagagtgagccactgggcctggcttgaacatctgagacctcaaagcccaccccccctttcccagtgacacacttccttcaacaaggccacatcttctagtactgccatgccctgtggg
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 I 1240 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13083685 1595 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 113995 2091 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 120370 2039 - 169015 I
+e otoGar1.scaffold_85251.1-136255 26589 1709 - 136255 I
+e hg18.chr6 16133603 1677 - 170899992 I
+e panTro2.chr6 16658017 3010 - 173908612 I
+e ponAbe2.chr6 16446258 1674 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=1065.000000
+s mm9.chr10 3229990 33 + 129993255 cctatgaagccattttcttt---caaaccaccacCA-
+s rn4.chr1 230048819 36 - 267910886 cccatggaaccatttttttttttcaaaccactacaA-
+q rn4.chr1 999999999999999999999999999999999999-
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13085280 33 + 24938454 CCTAAGAGG-TATTTATTTA---CACATCACTTTTCA
+q equCab1.chr31 999999999-9999999999---99999999999999
+i equCab1.chr31 I 1595 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 113995 2091 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 120370 2039 - 169015 I
+e otoGar1.scaffold_85251.1-136255 26589 1709 - 136255 I
+e hg18.chr6 16133603 1677 - 170899992 I
+e panTro2.chr6 16658017 3010 - 173908612 I
+e ponAbe2.chr6 16446258 1674 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=396169.000000
+s mm9.chr10 3230023 357 + 129993255 --CCCCCAAGAGTTTGAGGGAGTAAATATCTTTA-----AGTTTGAATATTACCAGAAATGAAGAAACTTTTTGACTGTC--ATTT----GCCAACCTGG-AGTGCATTAGGTAGAAATGTAGGCCTAGCTTAGATAGT-TCACCTGCTATGTCTGTGTTTTATGTACGTAGATAACTGCTTTATATTTTTTCCTAGTG--TGTTAAT-AAAC----TGCCTAG-TTCCTTTGGGGTGAGTGAACC-CAAGCCATTTCCT---AGATTATCTGTGA-GCGACCATCTTAAAAGGA----ATTCATACAC-------------------------TTTGATACAGCCACTCTCTGGCTTGGACAA-------TGGTTTTGATAGTCATTTGG-GGAATTACTC--TGTCTTAGTCAGGTTGAGCT
+s rn4.chr1 230048855 332 - 267910886 --CCCCTAAGAGTTTGAGGGAGTAAATGTCTTTGTTTAGAGGTTGAATATTACCAAAAATGAAGAAACCTTTTGGCTGCC--TTTT----GCCAACCTGG--TTGCCTTAGGTAAAGATGTAGGCCTAGATTTGATAGT-TCACTTGCTGTGT--GTGTTTTATTTCCATAGATAACTGGTTCACATTTTT-CCTAGTC--TGTTAGT-AAACAAACTGCCTCG-TTCCTTTGGGGTGAGTGAACC-AAAGCCAT------------------------------CTTAAAACCA------TCGTACAC-------------------------TCGGGTGCAGCCGCTCTCTGGCTTGGCCA--------TGGTTTTAATAGTCATTCTG-GGAATTACTC--TGCCT-AGTCAGGTTGGGTT
+q rn4.chr1 --999999999999999999999999999999999999999999999999999999999999999999999999999999--9999----9999999999--9999999999999999999999999999999999999-9999999999999--999999999999999999999999999999999999-9999999--9999999-999999999999999-999999999999999999999-99999999------------------------------9999999999------99999999-------------------------99999999999999999999999999999--------99999999999999999999-9999999999--99999-99999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 122409 395 - 169015 --CCCTCAAGagttgaaataaatcaatctctgtG--TAACACTGGAATtttaccagcaaagaaaaaccTCACAG--TGCA--TTTT----ACACAGTGAA-CATGAATGGGGTAGAGATTTAGGCCTCACTTGGGTGTTCTTAGCTCTTGTAA-TGTGATTAGTTTTCACAGACCACTGGTTCACATTTTCTTCCCATCCTTGATAAT-AAGTGCATGACATCATTTCCTTTGGGATGAAACTACCACAAGCTACTTCCTTGAAGATTATGTGAAAGGTGAACATGTTAAACAAG----AATTGTTTGcatgttaaaaaaagaattaaactgcTTTTAGTATAGTCA--CACTGGTTTGGGCAGTGCAACCCGAGTTTATTA---AATTTT-GAAGTCACTG--TGGCTTAATCAGCTTGTG--
+q cavPor2.scaffold_284118 --99999999999999999999999999999999--99999999999999999999999999999999999999--9999--9999----9999999999-9999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999----999999999999999999999999999999999999999999999999--999999999999999999999999999999999---999999-9999999999--999999999999999999--
+i cavPor2.scaffold_284118 I 2039 C 0
+s calJac1.Contig1260 116086 367 - 523245 --CTCCAAAGAGCTCGAGTAAGTAAA----TCTG----ACATTTGAATGTCACCGGCAAAGCATGAGACTCATG-CTGCC-TTTTT----ACCCCCATAGGCACGAATGGTATGGAGAAGTAGCCCTAACT----TGCTTTCTCCTACTGTGGATGAGATTAGTTTT-GTAGACCACTAGTTCATGTTTTGCTCCTACCCTTGCTGAT-AAAATCACTGCATCATTTCTGTGGGGATGAGACTATGGCAAGCTACTTCCTTGGAGAGTCTATGGAAGATGGATGTCTTAAAAGTA----AACTGCT----------------------------TTTTGTATGGCCACTCATTGGCTTGGCCAATGATACTTGATGTTATTT---ATTTTGTTAAGTTACTCTGtgtcttaatcagctcaggct
+i calJac1.Contig1260 I 2091 I 192
+s ponAbe2.chr6 16447932 369 - 174210431 --CCCCAAAGAGCTCGAGTAAGTAAATCTGTCTG----ACATTTGAATGTCACCAGCAAAGCATGAGACTCATG-CTGCC--TTTT----GCCACCATAGGCATGAATGGTATGGAGAAGTAGGCCTGACT----TGTTTTCTCCTATTGTAGATGAGATTAGTTTT-GTAGACCATTAGTTCACATTTTGCTCCTACCTTTGTGCAT-AAAATCACTGCGTCATTTCCGTGGGGATGGGACTACTGCAGGCTACTTCCTTGGAGATTCTGTGGAAGATGGACATCTTAAAAGTA----AACTACT----------------------------TTTGGTATGGCCGCTCATTGGCTTGGCCAATGATACTTGATGTTAATT---ATTTTG-TGAGTTACTCTGtgtcttaatcagctcaggct
+i ponAbe2.chr6 I 1674 I 153
+s otoGar1.scaffold_85251.1-136255 28298 349 - 136255 ---CTCAGAGAGCTCCAGTGAGTAAATGTGTTTG----ACATTTGAATGTTA---GCAAAACACAAACTTTGTG-TTGGCCTTTTG----GCCACCAGGGGTAAGGACAGT-----------GACCTGACTTGAATGTTTTTTCCT-TCGTGCGTGTCAT---------TAGGCCACTGATTCACGTTTTGCTCC----ATTGTTAATAAAAATCACTGCATCGTTTCCTTTGGTATGGGACTAATGCAG---ATTTGGTGGAAGATTTTGTGGACGGTCGACAACTTAAAAGGAATTTAACTACT----------------------------TTGGGGATGGTCATTCTTTGGCTTAGCCAGTGATATTTGATTTTATTC---ATTTTT-GAAGTTATTTTGtgtcttagccagctcaggct
+q otoGar1.scaffold_85251.1-136255 ---9999999999999999999999999999999----99999999999999---9999999999999999999-99999999999----999999999999999999999-----------999999999999999999999999-9999999999999---------99999999999999999999999999----999999999999999999999999999999999999999999999999999---99999999999999999999999999999999999999999999999999999----------------------------999999999999999999999999999999999999999999999999---999999-99999979999866888999999999999999
+i otoGar1.scaffold_85251.1-136255 I 1709 C 0
+s hg18.chr6 16135280 367 - 170899992 ----CCAAAGAGCTCGAGTAAGTAAATCTGTCTG----ACATTTGAATGTCACCAGCAAAGCATGAGACTCATG-CTGCC--TTTT----GCCACCATAGGCATGAATGGTATGGAGAAGTAGGCCTGACT----TGTTTTCTTCTATTGTAGATGAGATTAGTTTT-GTAGACCATTAGTTCACATTTTGCTCCTACCCTTGTGCAT-AAAATCACTGCATCATTTCCGTGGGGATGAGACTACTGCAAGCTACTTCCTTGGAGATTCTGTGGAAGATGGACATCTTAAAAGTA----AACTACT----------------------------TTTGGTATGACTGCTCATTGGCTTGGCCAGTGATACTTGATGTTATTT---ATTTTG-TGAGTTACTCTGtgtcttaatcagctcaggct
+i hg18.chr6 I 1677 I 152
+s panTro2.chr6 16661027 367 - 173908612 ----CCAAAGAGCTCGAGTAAGTAAATCTGTCTG----ACATTTGAATGTCACCAGCAAAGCATGAGACTCATG-CTGCC--TTTT----GCCACCATAGGCATGAATGGTATGGAGAAGTAGGCCTGACT----TGTTTTCTCCTACTGTAGATGAGATTAGTTTT-GTAGACCATTAGTTCACATTTTGCTCCTACACTTGTGCAT-AAAATCACTGCATCATTTCCGTGGGGATGAGACTACTGCAAGCTACTTCTTTGGAGATTCTGTGGAAGATGGACATCTTAAAAGTA----AACTACT----------------------------TTTGGTATGGCCGCTCATTGGCTTGGCCAGTGATACTTGATGTTATTT---ATTTTG-TGAGTTACTCTGtgtcttaatcagctcaggct
+q panTro2.chr6 ----999999999999999999999999999999----999999999999999999999999999999999999-99999--9999----99999999999999999999999999999999999999999----99999999999909999999999999999999-9999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999----9999999----------------------------999999999999999999999999999999999999999999999999---999999-99999999999999999999999999999999
+i panTro2.chr6 I 3010 C 0
+s equCab1.chr31 13085313 370 + 24938454 TCCCCTATAGAGTTTGAGTAAGTAAATCTCTCTGTTTGACGCTTGAATATTACCGGCAAAGAATAAACATCCTG-TTGCT--TTTTTTTGGCCACCAAGGGCATCAATAGGATGGCCATGTCGGCCTACTTTGGATGTTTCC-----GTGTATCTGTGATTGGTCCTTACAGACAAGTGGTTCACAGTTTGCTCCCAAGCTTGTGAAT-GCAATCACAGCATCCTTTCCTTTGGGATGAGACCACGGCAAGCTACTTCCTTGGAGATTATCTGGAAGGTGAACATCTTGAAAAAGAATAAACTACT----------------------------TTTGGTATGGCCGCTTTTTGGCTTGGCTAATGACATTTGATTTTACTC---ATTTTT-GGAGTTACTC--TGCTTTTGT-----------
+q equCab1.chr31 99999999999999999999999999999999999999999999999999999999999999999999999999-99999--999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------------------------999999999999999999999999999999999999099999999999---999999-9999999999--999999999-----------
+i equCab1.chr31 C 0 I 8
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=-19192.000000
+s mm9.chr10 3230380 139 + 129993255 TTGCCACAG-----------------CCAAGTATAGAATCT--------------------------------GAGGTCA-AGTCTGAGGTGCTGACTGTCTCAGTT------------------CTAG-------------ATTGCACACAGCCATATTGGGGT-----------GGGTAAGGGAGAGAGAGAAGT--Aagaggagagagaagacgtggggaggacaagaga
+s rn4.chr1 230049187 119 - 267910886 TTGCCACAA-----------------CCAAGTATGGAATCT--------------------------------GAGGTCA-AGTCTGAGATGCTGACTGTTTCAGTT------------------CTAG-------------TTTGCACACAGCCATCTTGGGTT-----------gggggggggaaagagaggggt--aagaggagagagca--------------------
+q rn4.chr1 999999999-----------------999999999999999--------------------------------9999999-99999999999999999999999999------------------9999-------------99999999999999999999999-----------999999999999999999999--99999999999999--------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 122804 169 - 169015 TTgctataataaaaatacagtagaCTCCATGACTTGAATGTTGAA-aacatttctcacagttctgaaggctgaGAGGTCC-GGATTGAAGTGCTGGCTGTAT-ATTC------------------CTAGGGAAGGTCTTATCTTTGCATGTAACAATCTTActata----------agaagagaaaaagagagaagt--gaG-------------------------------
+q cavPor2.scaffold_284118 999999999999999999999999999999999999999999999-9999999999999999999999999999999999-999999999999999999999-9999------------------99999999999999999999999999999999999999999----------999999999999999999999--999-------------------------------
+i cavPor2.scaffold_284118 C 0 I 1031
+s panTro2.chr6 16661394 102 - 173908612 --gcaataa-----------------caaaataccatacactgggtagcctaaatgaca--------------gaaattt--------------------ctca---------------------ctgt-------------tctggaggc--------------------------------------tgggaagtccaagatcaaggtgagttcctggtgagcac------
+q panTro2.chr6 --9999999-----------------990999999999999999999999999999999--------------9999999--------------------9999---------------------9999-------------999999999--------------------------------------99999999999999999999999999999999999999------
+i panTro2.chr6 C 0 I 50
+s otoGar1.scaffold_85251.1-136255 28647 157 - 136255 --cctataa-----------------caaaataccacagcctgggtggcttatgtgacagttctagaggctgggaagtctaatgcccaggtgcaggctgactcagttcctggtaatgccctcgtcctgg-------------tttgcagacattcgtcttccgttgcatcctcacctggccgaggagag--------------------------------------------
+q otoGar1.scaffold_85251.1-136255 --9999899-----------------9999995998977897999989999999889998999989999976999989998958999869778669778587976798978988956499866789679-------------79987864878976786959779776689786797797987797898--------------------------------------------
+i otoGar1.scaffold_85251.1-136255 C 0 I 52
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13085683 8 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 116453 192 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e hg18.chr6 16135647 152 - 170899992 I
+e ponAbe2.chr6 16448301 153 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=8686.000000
+s mm9.chr10 3230519 35 + 129993255 gaaagagagaaggaggggagagaagaaag-----------------gtgagg
+s rn4.chr1 230049306 28 - 267910886 -------agaagaagtggggaggagaaga-----------------aagagT
+q rn4.chr1 -------9999999999999999999999-----------------999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16661546 52 - 173908612 ggcagagagaaagaaaggaagcaagcaagctctcctttcccttcttgtgagg
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 50 I 31
+s hg18.chr6 16135799 52 - 170899992 ggcagagagagagaaaggaagcaagcaagctctcctttcccttcttgtgagg
+i hg18.chr6 I 152 I 5
+s ponAbe2.chr6 16448454 28 - 174210431 -gcagagagagagaaaggaagcaagcaag-----------------------
+i ponAbe2.chr6 I 153 I 54
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13085683 8 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 116453 192 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+e otoGar1.scaffold_85251.1-136255 28804 52 - 136255 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=-3062.000000
+s mm9.chr10 3230554 37 + 129993255 agaggtcaagaggagagaggagggaagagCACACACC
+s rn4.chr1 230049334 29 - 267910886 GCACACCAACCTTAT--------TATGAGGGTACACT
+q rn4.chr1 999999999999999--------99999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16135856 14 - 170899992 -----------------aatattcatgaggg------
+i hg18.chr6 I 5 I 12
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13085683 8 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 116453 192 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+e otoGar1.scaffold_85251.1-136255 28804 52 - 136255 I
+e panTro2.chr6 16661598 31 - 173908612 I
+e ponAbe2.chr6 16448482 54 - 174210431 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=30073.000000
+s mm9.chr10 3230591 122 + 129993255 GACCTTTACATTCAAGGGC---------------TTGCTCCCTTCAAA--------------------GCCAACCCCCT---AATGTTCCTAATGGGGCTTAAACCTTCAGCATTGGAAGCTTGGGAGGGAATGTGGGGGCATTCTATGtgtggtggttt
+s rn4.chr1 230049363 123 - 267910886 AGCCTT--ATTTTGAGGGT---------------TTACTCTCCTCAAA--------------------GCCTCCCCTTCTAGCATGTTCCTAGTGGGACTTAAGCCTCCAGTGTGGGGAATTTAGGAGAGAATATGGCGATGTTCTATGtgtggtggttt
+q rn4.chr1 999999--99999999999---------------99999999999999--------------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16448536 125 - 174210431 ----------------gac---------------ctactcacttcccaaaggcccgcttatggtattagctctgcctcctaataccattgctttggagataagggtttcaacagatgaattttgggaggacataaacatgcaatccatag----caCTCT
+i ponAbe2.chr6 I 54 I 4
+s panTro2.chr6 16661629 114 - 173908612 ----------------gac---------------ctactcacttcccaaaggcccacttatggtattagctccacctcctaataccattgctttggagattagggtttcaacagatgaattttgggaggacataaacatgcaatc---------------
+q panTro2.chr6 ----------------999---------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---------------
+i panTro2.chr6 I 31 I 37
+s hg18.chr6 16135882 119 - 170899992 ----------------gac---------------ctactcacttcccaaaggcccacttatggtattagctccgcctcctaataccattgctttggagattagggtttcaacagatgaattttgggaggacataaacatgcaatccatag----------
+i hg18.chr6 I 12 I 31
+s otoGar1.scaffold_85251.1-136255 28856 121 - 136255 -------------------ctctgccctcaggacctacttacctctaaaaag----------------gccctacctcctgataccatcacattggagatggaggtttcaacatatgaatctggggaggatgtgaatgttcagtct----gtagcaCTCT
+q otoGar1.scaffold_85251.1-136255 -------------------699999999999999999999999999999999----------------979999999999999999999999999999999999999999999999999999999999999999999999999999----9998999999
+i otoGar1.scaffold_85251.1-136255 I 52 I 23
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13085683 8 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 116453 192 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=653.000000
+s mm9.chr10 3230713 46 + 129993255 aaatatgcttggcacatgggaagtgctactattagcaggtgcggcc
+s rn4.chr1 230049486 46 - 267910886 gaaaattcttagcacatgggaagtggcactattgggagatgtggct
+q rn4.chr1 9999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16448665 17 - 174210431 -----------------------TTGTATTTTT------TTCAACT
+i ponAbe2.chr6 I 4 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13764223 2618 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13085683 8 + 24938454 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e canFam2.chr1 78290786 1728 - 125616256 I
+e loxAfr1.scaffold_33178 19072 0 + 41726 I
+e calJac1.Contig1260 116453 192 - 523245 I
+e tupBel1.scaffold_114895.1-498454 424343 2731 - 498454 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+e otoGar1.scaffold_85251.1-136255 28977 23 - 136255 I
+e hg18.chr6 16136001 31 - 170899992 I
+e panTro2.chr6 16661743 37 - 173908612 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=55836.000000
+s mm9.chr10 3230759 79 + 129993255 ttgttggaggaagtgtgtcactgagggtgaacAATGCACACATACTTACCAACTAGAAGAGGAACA-TCTT--------T-------TGATTGAC-
+s ponAbe2.chr6 16448682 47 - 174210431 TTT-------------------------------------CATGCTAATCAACTGGAAGGTGAATA-TTTTAAAATCTAT-------T--TTAA--
+i ponAbe2.chr6 C 0 C 0
+s rn4.chr1 230049532 82 - 267910886 ttg---gaggaagtgtgtcactgtggggg--tgggcgacacacacttagcacctagaagaGGAACA-TCTTAACATCTTT-------TGATTGAC-
+q rn4.chr1 999---99999999999999999999999--99999999999999999999999999999999999-9999999999999-------99999999-
+i rn4.chr1 C 0 C 0
+s loxAfr1.scaffold_4233 94434 84 + 124190 TTTTTGGAGTAACCGTGCTTGTGAATTT---TTATGCTTTCATGCTAGTCAACTAGAAGGTGAGTA-CTTAAAAATGCAT-------TGATTAA-A
+q loxAfr1.scaffold_4233 9999999999999999999999999999---99999999997999999999999999999999999-9999999999999-------9999999-9
+i loxAfr1.scaffold_4233 I 19856 C 0
+s tupBel1.scaffold_114895.1-498454 427074 59 - 498454 --------------------------------AATGCTTTCATGCTAATCAGCTGGAAGGTGAATA-CTTAAAAATCTGTTTACTGAT--TGAA--
+q tupBel1.scaffold_114895.1-498454 --------------------------------9888899998989997899998899998899889-999999999999999999999--9999--
+i tupBel1.scaffold_114895.1-498454 I 2731 C 0
+s otoGar1.scaffold_85251.1-136255 29000 28 - 136255 ----------------------------------------CATGCTAATCGGCTGGAAGG-----------------TAT-------T--TTAA--
+q otoGar1.scaffold_85251.1-136255 ----------------------------------------99999999999999999999-----------------999-------9--9999--
+i otoGar1.scaffold_85251.1-136255 I 23 C 0
+s calJac1.Contig1260 116645 44 - 523245 ----------------------------------------CATGCTAATCAGCTGGAAAGTGAGTA-TTTTAAAATCTGT-------T--TTAA--
+i calJac1.Contig1260 I 192 C 0
+s hg18.chr6 16136032 44 - 170899992 ----------------------------------------CATGCTAATCAGCTGGAAGGTGAATA-TTTTAAAATCTAT-------T--TTAA--
+i hg18.chr6 I 31 C 0
+s panTro2.chr6 16661780 43 - 173908612 -----------------------------------------ATGCTAATCAGCTGGAAGGTGAATA-TTTTAAAATCTAT-------T--TTAA--
+q panTro2.chr6 -----------------------------------------9999999999999999999999999-9999999999999-------9--9999--
+i panTro2.chr6 I 37 C 0
+s equCab1.chr31 13085691 54 + 24938454 --------------------------------AATACATTCATGCTAATCCCCTGGAAGGTGAGTA-TTTAAAAGTCTGT-------TGATTAA--
+q equCab1.chr31 --------------------------------9999999999999999999999999999999999-9999999999999-------9999999--
+i equCab1.chr31 I 8 I 1
+s canFam2.chr1 78292514 54 - 125616256 --------------------------------AATACATTCATACTAATCACCT-GAAGGTGAGTATTTTAAAAATCTGT-------TGATTAA--
+q canFam2.chr1 --------------------------------9999999999999999999999-9999999999999999999999999-------9999999--
+i canFam2.chr1 I 1728 I 1
+s bosTau3.chr9 13766841 54 - 95030419 --------------------------------AATATGTTCATGCTAATCACCCGGAAGGTGAGTA-TTTAAAAATCTGC-------TGATGAA--
+q bosTau3.chr9 --------------------------------9999999999999999999999999999999999-9999999999999-------9999999--
+i bosTau3.chr9 I 2618 I 1
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+e oryCun1.scaffold_214769 132204 2762 - 139458 I
+
+a score=245311.000000
+s mm9.chr10 3230838 109 + 129993255 AACTGGCTTGACAAATACCCCAAA-----------------------------------------CC-TGATCTTTTCAACATGTCTTTAAGGATGTGGAAGGCCTTGTGTGATGAACCAG-GCCTC-----------------------TAAGGAC-----ACAGGTTTGGTA--ACCTAC
+s rn4.chr1 230049614 113 - 267910886 AGCTAGCT-GAAGAATACCCTGAC-----------------------------------------CC-TGACCTTTTCAATGTGTCTTCAAGGGTGTGGAAGGCCTTATGTGATCAACCAG-GCCTC-----------------------TAAGAACCCAGCACAGGTTTGGTA--ACCTGC
+q rn4.chr1 99999999-999999999999999-----------------------------------------99-99999999999999999999999999999999999999999999999999999-99999-----------------------999999999999999999999999--999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 134966 116 - 139458 AATTGGCATGTAGAGTCCAGAAAA-----------------------------------------GC-TGACTTCTCCAGTGTTTCTTAAAATAGTTTGAAAGCCTTGTATGATATGGCAA-GCTAA-----------------------TGTGACCTTAGCACATGTTTGTGAATACCTGA
+q oryCun1.scaffold_214769 999999999999444999999999-----------------------------------------99-99999999997999999999999999999999999999999999999999999-99999-----------------------99999999999999999999999999999999
+i oryCun1.scaffold_214769 I 2762 C 0
+s tupBel1.scaffold_114895.1-498454 427133 114 - 498454 AACTGGCTTAAGGAGCACACAAAA-----------------------------------------GC-TGACCTTTCTGATATT--TTCAAATATGTGGAAGGCCTTAAATGAAGCATCAA-GCCTAGTT-----------------------GAGCTAAGCAAATGTTTGGTAATACCTAA
+q tupBel1.scaffold_114895.1-498454 989899999999998778799999-----------------------------------------99-9989999999999999--99999999999999996999999999998999999-99999999-----------------------99999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 29028 102 - 136255 AATTGCCTTAAATGAC------------------------------------------------------T--TTTCTGATGTCTCTTCAAATATGTGGGAGGTCTTGCAGGATGCATCAA-CCCTAG----------------------GAGGACCTCTGTACATGTTTGGTAATA-CTAA
+q otoGar1.scaffold_85251.1-136255 9999999999999999------------------------------------------------------9--999999999999999999999999999999999999999999999999-999999----------------------999999999999999999999999999-9999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 116689 134 - 523245 AACTGGCTTAAGCAGCATACAAAA-----------------------------------------GC-TGA--TTTCTGATGTTTCTTCCAATACCTGGAAGGTTTTGCATGATGTGTTTA-CCCTAGTTAGGGTCCCTTGATCCAAGTTGAAGACCTCAACATACATTTGG---TTCCTAA
+i calJac1.Contig1260 C 0 C 0
+s hg18.chr6 16136076 138 - 170899992 AACTGGCTTAAGGAGCACACAAAA-----------------------------------------GC-TGA--TTTCTGATGTTTCTTCCAATACGTGGAAAATTTTGCATGATGTATTAACCCCTAGTTAGGGTCCCTCAACCCCAGTTGAGGACCTCAACACACATTTGGTAATACCTAA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16661823 137 - 173908612 AACTGGCTTAAGGAGCACACAAAA-----------------------------------------GC-TGA--TTTCTGATGTTTCTTCCAATACGTGGAAAATTTTGCATGATGTATTAA-CCCTAGTTAGGGTCCCTCAACCCCAGTTGAGGACCTCAACACACATTTGGTAATACCTAA
+q panTro2.chr6 999999999999999999999999-----------------------------------------99-999--999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16448729 137 - 174210431 AACTGGCTTAAGGAGCACACAAAA-----------------------------------------GC-TGA--TTTCTGATGTTTCTTCCAATACGTGGAAAATTTTGCGTGATGTATTAA-CCCTAGTTAGAGTCCCTCAACCCCAGCTGAAGACCTCAACACACATTTGGTAATACCTAA
+i ponAbe2.chr6 C 0 C 0
+s bosTau3.chr9 13766896 132 - 95030419 AACTGGCTTAAGGAGTATGCAAAGcagggcttccctgatggctcggacggtaaagaTCATACAAAGC-TGACGTTTCTGATGTTTTTTCACATATGTGGAAGACCTTGTGTGACGAATCAA-GCCCAG----------------------GAGGAC--------------------------
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999-999999----------------------999999--------------------------
+i bosTau3.chr9 I 1 I 386
+s equCab1.chr31 13085746 117 + 24938454 AACCAGCTTAAAGAGTACACAAAA-----------------------------------------GT-TGACCTTTCTCATGTTTCTTCAAATATGTGGAAGGCCTTGCATGATGGATCAA-GCCTAG----------------------CAGAACCATAGTACATGTTTGGTGATACCCAA
+q equCab1.chr31 999999999999999999999999-----------------------------------------99-99999999999999999999999999999999999999999999999999999-999999----------------------99999999999999999999999999999999
+i equCab1.chr31 I 1 C 0
+s canFam2.chr1 78292569 111 - 125616256 AACTGGCTTAAATAGTACACAAAA------------------------------------------C-TGACCTTTTTGATGTTTCTTCAAATACGTAGAAGGCCTCGTGTGAT-----AA-ACCTAG----------------------TGGGATCATAGTACGTGGTTGGTGATACCTAG
+q canFam2.chr1 999999999999999999999999------------------------------------------9-9999999999999999999999999999999999999999999999-----99-999999----------------------99999999999999999999999999999999
+i canFam2.chr1 I 1 C 0
+s loxAfr1.scaffold_4233 94518 118 + 124190 GGTAGCCTTAGAGAGTGCACCAAA-----------------------------------------ATACGAATTATCTGATGTTTCTTCAAATATGCACAAGGCCTAGTGTGATGCCCCAA-GTATAG----------------------CAGGACCTCGTTACATGACTGGTGATACCTAT
+q loxAfr1.scaffold_4233 999999999999999999999999-----------------------------------------99999999999999999999999999999999999999997999999999999999-999999----------------------99999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+
+a score=17953.000000
+s mm9.chr10 3230947 43 + 129993255 AGGGACTT-----------TGAAAATG-G--ATTC--TCTAACTTGTA--TTATAGG-----------------TTCT
+s rn4.chr1 230049727 44 - 267910886 AGGGACTTG----------CAAAAATA-G--ATTC--TGTAACTTGTA--ATATAGG-----------------TTCT
+q rn4.chr1 999999999----------99999999-9--9999--99999999999--9999999-----------------9999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 135082 64 - 139458 AGAAACTT-----------GGAAAACA-GGTATTT--TATAGCTTGTAGGTTATGGAATTAGGAAAAGATGATTTTCT
+q oryCun1.scaffold_214769 99999999-----------99999999-9999998--89999999999999999999999999999999999999984
+i oryCun1.scaffold_214769 C 0 I 5
+s tupBel1.scaffold_114895.1-498454 427247 37 - 498454 AGAAAT-----------------AATG-T--ACTT--CATAGATTGTAGGTGGTGAT-----------------TT--
+q tupBel1.scaffold_114895.1-498454 999999-----------------9999-9--9999--99999999999999999999-----------------99--
+i tupBel1.scaffold_114895.1-498454 C 0 I 16
+s otoGar1.scaffold_85251.1-136255 29130 43 - 136255 AGGAGCTT------------AAAAATATT--TTTT--TACAGCTTGAAGGAGATGGA-----------------AT--
+q otoGar1.scaffold_85251.1-136255 99999999------------999999999--9999--99999999999999999999-----------------99--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 116823 42 - 523245 AGGAACTT------------AAATATA-T--ATTT--TATAGCCTATAGGATGTGGA-----------------AT--
+i calJac1.Contig1260 C 0 I 25
+s hg18.chr6 16136214 42 - 170899992 GGGAATTT------------AAATATA-T--ATTT--TGTAGCCTATAGCATATGGA-----------------AT--
+i hg18.chr6 C 0 I 25
+s panTro2.chr6 16661960 42 - 173908612 GGGaattt------------aaatata-t--attt--tataGCCTATAGCATTTGAA-----------------AT--
+q panTro2.chr6 99999999------------9999999-9--9999--99999999999999999999-----------------99--
+i panTro2.chr6 C 0 I 25
+s ponAbe2.chr6 16448866 42 - 174210431 GGGaattt------------aaatata-t--attt--tataGCCTATAGCATATGGA-----------------AT--
+i ponAbe2.chr6 C 0 I 25
+s canFam2.chr1 78292680 48 - 125616256 AAGGACTTAAA-----AAAAAAAAAAA-G--ATGT--TAT-ACCTGTAGGATATGGG-----------------AT--
+q canFam2.chr1 99999999999-----99999999999-9--9999--999-9999999999999999-----------------99--
+i canFam2.chr1 C 0 I 21
+s equCab1.chr31 13085863 42 + 24938454 AAGGATT------------AAAAAATA-G--ATTT--TATGACCTCTAGGGTATGGG-----------------AT--
+q equCab1.chr31 9999999------------99999999-9--9999--99999999999999999999-----------------99--
+i equCab1.chr31 C 0 I 23
+s bosTau3.chr9 13767414 43 - 95030419 AGGGACTC-----------ATAAAGTA-G--ATTA--TATAAACTGTAGAATTTGAG-----------------AT--
+q bosTau3.chr9 99999999-----------99999999-9--9999--99999999999999999999-----------------99--
+i bosTau3.chr9 I 386 I 26
+s loxAfr1.scaffold_4233 94636 56 + 124190 AGGATCTGGGATTGGGAAAAAAAAATA-A--CCTTACTGTAAAATTAACCGTAATTA-----------------TT--
+q loxAfr1.scaffold_4233 999979999997999999999999999-9--99999999999999999999999999-----------------99--
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108548710 3007 + 167655696 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+
+a score=605540.000000
+s mm9.chr10 3230990 214 + 129993255 TAAAA--------ATCACCACCGTCTTATCTGAAAAGTTCTCGATT--TTTA-----TTTCACAGAG-ATCCTATGTATTTGGGTTTAGAAGTACTTTTAGAAGTAGGCTG-------------AT---------GCCACT----GTG---TGAAATTTAATGTAAG--T-AAA----GGA--AAAATGATTATGTCACGTTGAAGT-TTGCCAAAGAGCCCCATTTTT-C-TCCAAATTTTGGCA-GTATAATCTATCCT-AACTTG------TGTAT
+s rn4.chr1 230049771 210 - 267910886 TAAAA--------ATTACCATTGTATTATCTGGAAAGTTCTCAGTT--TTTA----ATTTTATGGTG-GTTCTATGTATTTGGGCTTAGATGTATTTTTAGAAGTGGGCTG-------------AT---------GTCACT----GTG---TGAAATTTAAGGTAAG--T-AAA----GGGG-AAAACGATCCTGTCACATTGAGG-----CCAGAGAGCCTCGTTTTT-C-TCCAGTTTTAGGCA-GTGTGGTCTATCCC-AATTTC------T--AC
+q rn4.chr1 99999--------999999999999999999999999999999999--9999----99999999999-9999999999999999999999999999999999999999999-------------99---------999999----999---9999999999999999--9-999----9999-99999999999999999999999-----999999999999999999-9-99999999999999-99999999999999-999999------9--99
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 135151 227 - 139458 TATAA--------TTTACAACATAATTATTTGGAAATCGCTCAGTT--GCTG--TTTCTTTTTAAGG-GTTCTATTTATTTTGTGCCATAA-TGATTGCAGAAGTGTGCTG-------------ATTTGACAAAAGGGACC----GTAAACTTAGGTTTAACAAAAG--T-AAA----GGGGAAAAGGGATTATATCCCATTCAGAT-TTGCTATGGGACTGCATTTTT-C-TCTAGTTTTAGAAA-G---GGTCTATCCCAAATCtg------tgtg-
+q oryCun1.scaffold_214769 99999--------889999988999999999999998999989899--9999--9999899889999-88999999999889999997999-9999999699999999999-------------99999997999999999----9999999999999999979999--9-999----99999999999979999999989997999-999999999999999899999-9-99999999999999-9---99799999997999989------9999-
+i oryCun1.scaffold_214769 I 5 C 0
+s hg18.chr6 16136281 223 - 170899992 TAAAA--------TTTACCTTTTAATTATTTGGAAATTTCACAATT--GCCAAGTTTCAACTTAAAG-TTTCTATTTATTTGGGGCCAGAATTATTGCCAGAAGTGTGCTA-------------ATTTGACAAAGGGTACC---------------TTTTACATAAG--T-AAA----GGAA-AAAGTGATTACATCATGTTCAGAC-CTGCTAGAGGGCCTTGTTTTTCC-TCTAGTTTTAGGGGTGTGGAGTCTGTCCC-AAACCC------TATAT
+i hg18.chr6 I 25 C 0
+s panTro2.chr6 16662027 222 - 173908612 TAAAA--------TTTACCTTTTAATTATTTGGAAATTTCACAATT--GCCAAGTTTCAACTTAAAG-TTTCTATTTATTTGGGGCCAGAATTGTTGCCAGAAGTGTGCTA-------------ATTTGAC-AAGGGTACC---------------TTTTACATAAG--T-AAA----GGAA-AAAGTGATTACATCATGTTCAGAC-CTGCTAGAGGGCCTTGTTTTTCC-TCTAGTTTTAGGGGTGTGGAGTCTGTCCC-AAACCC------TATAT
+q panTro2.chr6 99999--------999999999999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999-------------9999999-999999999---------------99999999999--9-999----9999-999999999999999999999999-99999999999999999999999-99999999999999999999999999999-999999------99999
+i panTro2.chr6 I 25 C 0
+s ponAbe2.chr6 16448933 223 - 174210431 TAAAA--------TTTACCTTTTAATTATTTGGAAATTTCACAATT--GCCAAGTTTCACCTTAAAG-TTTCTATTTATTTGGGGCCAGAATTATTGCCAGAAGTGTGCTA-------------ATTTGACAAAGGGTATC---------------TTTTACATAAG--T-AAA----GGAA-AAAGTGATTACATCATGTTCAGAC-CTGCTAGAGGGCCTTGTTTTTCC-TCTAGTTTTAGGGGTGTGGAGTCTGTCCC-AAACCC------TATAT
+i ponAbe2.chr6 I 25 C 0
+s rheMac2.chr4 108551717 225 + 167655696 TAAAA--------TTTACCTTTTAATTATTTGGAATTTTCTCTATTCGCTCACCTCCCCCCTTAGAG-TTTCTATTTATTTTAGAGCAGAATTATTGCCAGAAGTGTGCTG-------------ATTTGACAAAGGGTACC---------------TTTTACATAAG--T-AAA----GGAA-AAAGCGATTACATCATGTTCAGAC-CAGCTAGAGGGCCTTGTTTTTCC-TCTAGTTTTAGGGGTGTGGAGTCTGTCCC-AAACCC------TATAT
+q rheMac2.chr4 33666--------546566666666666666543222311111121111111111111122132244-4655655452242111116768788799998999997788789-------------99888799899999999---------------99999999999--9-999----9999-999999999999999999999899-89797899889669897666878-77787999898899973334322233576-666654------44352
+i rheMac2.chr4 I 3007 C 0
+s calJac1.Contig1260 116890 223 - 523245 TAAAA--------CTTACTTTATAATTATTTGGAAATTTCACAGTT--GCTAAGTTTCACCTTAGAG-TTTCTATTTATTTGGGGCCAGAGTTATTGCCAGAAGTGTGCTA-------------ATTTGACAAAGAGTAGC---------------TTTTACATAAT--C-AAA----GGAA-AAAGTGATTGCATCATGTTCAGAC-CTGCTAAAGGGCCTTGCTTTTCC-TCTAGTTTTAGGGGTGTGGAGTCTGTCCA-AAACCC------TATGC
+i calJac1.Contig1260 I 25 I 1185
+s otoGar1.scaffold_85251.1-136255 29173 225 - 136255 TAGAAAAAACAACCTGACCTTTCTACTGCC--------------AT--ATTAAGTTCTGCTGTAGGG-CTTCTATTTATTTGGAGCCAGAATGATTGCCGGGA-TATGCTA-------------AACTAAC-AAGGACACCCTCAAAG---TGAGTTTTAACATAAG--T-AAA----GGGG-AA--TGATTACATCGTGTTCGGACATTGCTAGAGAGCCATGTTTCT-C-TCTGGTTTTAGGGAGATGGGATCTGTCCC-AAGCTC------TGTGT
+q otoGar1.scaffold_85251.1-136255 999999999999999999999999999999--------------99--9999999999999999999-99999999999999999999999999999999999-9999999-------------9999999-9999999999999999---9999999999999999--9-999----9999-99--999999999999999999999999999999987999999999-9-99999999999999996999979999989-869799------99999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 427300 219 - 498454 TAAAA--------TTTACA-TATAATTACTTGGAAACTTCTCAAGT--CCTAACTGTAACTCTAGAGAATTCTATTTATTTTGTACTGGAATTACTGCTAGATGTGTATGA-------------AGTTGACAAAGGGGGCC---------------CTCAATGTAAGGCT-AACATATGGAA-AAAGTGACTACATCATGTTCAGAC-TTGCTAGAGAGCCATGTTTTT-C-TCTGGTTTTAGGGATGGGGTGTCTGTACC-AA---------------
+q tupBel1.scaffold_114895.1-498454 99999--------999999-99999999999999999999999999--999999999999999999999999999999999999999999999999999999999999999-------------99999999999999999---------------99999999999999-99999999999-999999999999999999999999-999999999999999999999-9-99999999999999999999999999999-99---------------
+i tupBel1.scaffold_114895.1-498454 I 16 C 0
+s canFam2.chr1 78292749 228 - 125616256 TAAAA--------TTTACCTTTTAATTTTCTGGAAATTTCTCAACT--GCTAAGTTTTGTCCTTGGG-G-----TTAATTTTTGGCCACAATTACTGCTAGAAATGTGCTG--GTCTCACTAAGTTTTGACAAATGTGAGG---------------TTTAATGTAAG--TAAAG----GAAA-AAAGATATT--CTCAAATTCAGAT-TTGCTAAATGGCCCCGTTTTT-CACCAGGTTGTAGGGATATGAAATCTGTCCC-AAACCC------TGTGT
+q canFam2.chr1 99999--------999999999999999999999999999999999--9999999999999999999-9-----9999999999999999999999999999999999999--9999999999999999999999999999---------------99999999999--99999----9999-999999999--9999999999999-999999999999999999999-9999999999999999999999999999999-999999------99999
+i canFam2.chr1 I 21 I 2
+s equCab1.chr31 13085928 236 + 24938454 TAAAA--------TTTACCTTATCATTTTCTGGAAATGTCTCAACT--GCTAAGTTTTGCCTTTGGG-G----TTTTATTTGGGGCCAGAATTATTGCTAGAAGTATGCTG--GTTTGACAAAAGTTTGACAAACAGAAGG---------------TTTAACGTAAG--TAAAA----AAAA-AAAAAGATTACATCAAATTCAGAT-TTGCTAGAAGACCATGCTTTT-C-TCTGGTTTTAGGGATGTGAGGTCTATCCC-AAACCCAGTTTGTGTGT
+q equCab1.chr31 99999--------999999999999999999999999999999999--9999999999999999999-9----99999999999999999999999999999999999999--9999999999999999999999999999---------------99999999999--99999----9999-999999999999999999999999-999999999999999999999-9-99999999999999999999999999999-99999999999999999
+i equCab1.chr31 I 23 I 2
+s bosTau3.chr9 13767483 224 - 95030419 taaaa--------atta-----taattCTCTGGAAATTTCTCAAAT--GCTAAGTTTTGACTTAGGG-ATTTTTTTAATTTGGGGCCAGAATTGTTGCTAGAAGTGTTCTGGTGTGTGACTGAGGTTTGGCAAAGAGAAGT------------------------------AAA----GGAA-AAAGTGATTACATCAAATTTGAAT-TTACTGGAGGGTCATGTATTT-C-TCTAGTTTTAGGAACTTGAGGCCTGTCCC-AAACCCTTtgtgtgtgt
+q bosTau3.chr9 99999--------9999-----999999999999999999999999--9999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999------------------------------999----9999-999999999999999999999999-999999999999999999999-9-99999999999999999999999999999-99999999999999999
+i bosTau3.chr9 I 26 I 2
+s loxAfr1.scaffold_4233 94692 194 + 124190 ------------------------------TGGAAATTT---AACT--GCAAAGTTTTGTCTTAGGG-GTTCTATTTACTTTCGGCCAGAGTTATTGCTAAATGTGTGCTG-------------GTTTGGCAAAGCAGACC---------------CTCGATGTAAG--G--------TTTA-AAAGTGAGGGCATCAAATTCAGAT-TTGCTAGAGGGCCATGTTCTT-C-CCTAGTTTTACGGATGTGAGATCTGCCCC-AAATCC------TGTGT
+q loxAfr1.scaffold_4233 ------------------------------999999999---9999--9969999999999999999-9899999999999999989899999999999999999999999-------------98999999999999989---------------99999999999--9--------7999-999999999989999999999999-999999999997999999999-9-99999999999999999999999999999-999999------99999
+i loxAfr1.scaffold_4233 C 0 I 1561
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+
+a score=25916.000000
+s mm9.chr10 3231204 56 + 129993255 CATTCTGTATCTCTCCATCGCTATA---------------------------------------------------GAGAAGAGT-TTTCTGTTA---C---TTTCCTTCTCAA
+s rn4.chr1 230049981 56 - 267910886 CGTTCTGTATCTCTCCATTCCTATA---------------------------------------------------GAAGAAAGT-TTTCTGCTA---C---ATTCCTTCCCAA
+q rn4.chr1 9999999999999999999999999---------------------------------------------------999999999-999999999---9---999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 135378 56 - 139458 ---tgtgtgtgtgtgtgtgtttgtA---------------------------------------------------GAAGAGAAT-TTCCTACCA---CAGAAGTCCTTCTGAG
+q oryCun1.scaffold_214769 ---9999999999999999999999---------------------------------------------------999999999-999999997---9999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108551942 58 + 167655696 ----ACGTGTGCATGTGTGTATATA---------------------------------------------------AAAGACGAATTTTTTTGTACT-CAAAAATTTTTCTTAA
+q rheMac2.chr4 ----222542222345353446565---------------------------------------------------574411153545453421144-6666564442222447
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449156 57 - 174210431 ----ATGTGTGCATGTGTGTCTATA---------------------------------------------------AAAGACAAA-TTTTTTATACG-AAAAAATTTGTCTTAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662249 57 - 173908612 ----ATGTGTGCATGTGTGTATATA---------------------------------------------------AAAGACAAA-TTTTTTATACT-CAAAAATTTGTCTTAA
+q panTro2.chr6 ----999999999999999999999---------------------------------------------------999999999-99999999999-9999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16136504 57 - 170899992 ----ATGTGTGCATTTGTGTATGTA---------------------------------------------------AAAGACAAA-TTTTTTATACT-CAAAAGTTTGTCTTAA
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 29398 46 - 136255 ----------------GTATGTACA---------------------------------------------------GAAAAAAGA-TTGCTCCTACTACAAGAGTCGTTCTGAC
+q otoGar1.scaffold_85251.1-136255 ----------------999999998---------------------------------------------------999999999-6977898999997899986966799999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 427519 53 - 498454 -------ATTCCGTGTGTGTGTAGA---------------------------------------------------GGAAAATGC-TTTCTTAT-TT-CAAAAGTCCTTCTGAA
+q tupBel1.scaffold_114895.1-498454 -------999999699979899999---------------------------------------------------999999877-99999999-99-9999987999987999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78292979 46 - 125616256 ----------------GTGTATGTG---------------------------------------------------GAAAAGAAT-TTTGCCCTCTTACAAAAGTCCTTCTAAA
+q canFam2.chr1 ----------------999999999---------------------------------------------------999999999-9999999999999999999999999999
+i canFam2.chr1 I 2 C 0
+s equCab1.chr31 13086166 46 + 24938454 ----------------GTGTTTATA---------------------------------------------------GAAGATAAT-TTTTTCCTACTACAAAAATCTTTCTAGG
+q equCab1.chr31 ----------------999999999---------------------------------------------------999999999-9999999999999999999999999999
+i equCab1.chr31 I 2 C 0
+s bosTau3.chr9 13767709 94 - 95030419 ----------------gtgtgtgtgtAAGAGAGAGACAGAGAAACAGATAAAGAGAAAATTTTTTCTTGTTTCTTCTAAGAGAGT-TTTTTCCTACTACAAAAGTC---CTGAA
+q bosTau3.chr9 ----------------999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999---99999
+i bosTau3.chr9 I 2 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 149895 4985 - 219823 I
+e loxAfr1.scaffold_4233 94886 1561 + 124190 I
+e calJac1.Contig1260 117113 1185 - 523245 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+
+a score=411041.000000
+s mm9.chr10 3231260 166 + 129993255 ATGATGACCAA-TGACCTATCTT-TCTGGTGAACAGAGAT--TA--AATTCTGTCTGGAACTAACAAAATAA----TGCCGCATATCCAACAGACTGCCTGCCGT-GTGGAGTCTTTCAGAACCTTTGAG-----------GTTCTCTGTGAATA--CTTGCATGTGGT-TTAGGTTTCCTGAGGTTCAGA
+s rn4.chr1 230050037 165 - 267910886 ATAATGACCAA-TGACCTATCTA-TT--ATGAACAGAGAT--TA--AATTCTGTCTGGAACTAACAAAATAA----TGCCACACATCCAACAGGCTACAGCCTGTCGTGTAGTCTCTCAGAATCCTTGGG-----------GTTCTCTACAAATA--CATGCATATGGT-TTGGGTTTCCTGAGGTTCAGA
+q rn4.chr1 99999999999-99999999999-99--999999999999--99--99999999999999999999999999----999999999999999999999999999999999999999999999999999999-----------99999999999999--999999999999-999999999999999999999
+i rn4.chr1 C 0 C 0
+s oryCun1.scaffold_214769 135434 143 - 139458 ATGATGACCTA-TGACCTATG-------ATGAGAGGAGAG--GAACAATTTTGTCTGTAACTCACAAAATAG----CATACCTCAGCTCAGGGTCTTGGAAC----GTGTAATCT--------------------------GCTCCCTGTATGTAG-AAAGTGCATGGG-TCAG--TTATTAAGGACAGGA
+q oryCun1.scaffold_214769 99999999999-999999999-------999999999999--999999999999999999999999999999----99999999999999999999999999----999999999--------------------------999999999999999-999999999999-9999--999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108552000 175 + 167655696 ATAATGGCCTA-TAGCCTACTGA-TTTGGATAGAGGAGAG---A--AATTTTGTCTATAAGCAACAAAATAATGCTTGCTACACAGTCAGGAGAC--TCAC-----ACACAGTTTTTCAGAACTTTTGGAGCACATAGTCCATATCTCTTCCATAGAAACACACATGGGGTCAG--TGATTAAGGACTCAA
+q rheMac2.chr4 79999999999-99999994999-9998799999999999---9--9999978919999999999999999999999999999999999999999--9999-----99999999999999999999999999999999999999999999999999999999999999999999--999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449213 173 - 174210431 ACAATGGCCTA-TGGCCTGCTGA-TTTGGATAGAGGAGAG---A--AATTTTGTCTATAAGCAACAAAATAA----TGCTACACAGCCAGGAGACTGTCAC-----ACGCAGTTTTTCAGAACCTTTGGGGCACATACTGCACTCCCCTTCCATAGAAATACACATGGGGTCAG--TGATTAAGGACTTAA
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662306 172 - 173908612 ATAATGGCCTA-TGGCCTACTGA-TTTGGATAGAGGAGAG---A--AATTTTGTCTATAAGCAACAAAA-AA----TGCTACACAGCCAGGAGACTGTCAC-----ACACAGTTTTTCAGAACCTTTGGGCCACATACTGCACTCCCCTTCCATAGAAATACACATGGGGTCAG--TGATTAAGGACTCAA
+q panTro2.chr6 99999999999-99999999999-9999999999999999---9--99999999999999999999999-99----9999999999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999--999999999999909
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16136561 172 - 170899992 ATAATGGCCTA-TGGCCTACTGA-TTTGGATAGAGGAGAG---A--AATTTTGTCTATAAGCAACAAAA-AA----TGCTACACAGCCAGGAGACTGTCAC-----ACACAGTTTTTCAGAACCTTTGGGCCACATACTGCACTCCCCTTCCATAGAAATACACATGGGGTCAG--TGATTAAGGACTCAA
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 29444 173 - 136255 ACAAATGCCTACTGGCCCAGTGA-TGTGGAGAGAGGAAAG--AA--AATTTTGTGCATAACCAAAAAAATAA----TGTCACCCAGCCAGGAGGCTGTCAC-----ATGCAGTTTCTCAGAACCTTGGGGGCATGTACTCCTCTCCCCTTGCATAGAAACGTGTATGGTTCCAG--TTATTAAGGACTA--
+q otoGar1.scaffold_85251.1-136255 97992355699886759898799-6779699999999999--99--99899996686867999999996898----9979745678687999997978979-----99989699999999969996999999798769999999999999999999999999999999999999--9999999998999--
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 427572 173 - 498454 ACATTGGTCTA-TGGCTTACC-A-TTTGGAGAGAGGACGGTTAA--AATTTTGCTCATAATCAGTAAAACAA----TATCATAAAGCTAGGAGGTTGTCAC-----A--AAGTTGTTCAGAACCTTTGGGGCACACAATCTGCTCCCCTTAGATAGAAATGCAAGTGGCACTGG--TTATTGAGGACTAGA
+q tupBel1.scaffold_114895.1-498454 69998899999-999899689-9-99699999999999999999--99999999999999999999997899----9999999999999999999999999-----9--99999999999999999998999898999999999999999999999999999999999999999--999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78293025 177 - 125616256 ATTATGGCCTG-TGACTTACTGA-CTTGGAAAGAGGAGAGACAA--GATTTTGTCCACAATCAACAAAATAA----CATCACCCAGTCAGGAGACTGTCAT-----ACACAGTCTTTGAGAACCTTTGGGGCACTGTTTCCACTTCCCTCACATAGAAATGCACATGGTGTTGGA-TTATTAAAGACAAGG
+q canFam2.chr1 99999999999-99999999999-99999999999999999999--99999999999999999999999999----9999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999-999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 154880 163 - 219823 ATAATGGCCTT-GGGCTTACTGA-TTTGGAAAGAAGAGAG--AA--GATTTTGTTCACAGTCAACAAAATAA----CATCACTCAG-CAGGAGACGGTCAC-----ACACCGTCTTTGAGAACCTTTGGGGTACT-----------CCCCTTACAGAAATGCATGTGGTGTCGGG-CTATTAAGGACAAGA
+q felCat3.scaffold_217398 65754566634-15446666666-6947459665766867--74--76699686666966766697994576----9568757878-97798997957999-----99694597797798648679576997869-----------89989789799996799795996997999-798979999999898
+i felCat3.scaffold_217398 I 4985 C 0
+s equCab1.chr31 13086212 177 + 24938454 ATAATGGCCTA-TGGCTTACTGA-TTTGGAAAGAGGAGAGAGAA--AATTTTGTCCATAATCAACAGAATAA----TGTCACTCAGCCAAGAGGCTGGCAC-----ACACAGCCTTTCAGAACCTCTGGGGCACTTACTCCTCTCTGCTTACGTGGAAATGCGCATGATGTTGGG-TTATTAAGGACAAGA
+q equCab1.chr31 99999999999-99999999999-99999999999999999999--99999999999999999999999999----9999999999999999999999999-----999999999999999999999999999999999999999999999999999999999999999999999-999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13767803 166 - 95030419 ACGGTGTCCTA-TGACCTATTGATTTTGGAAATAGAAGCGGTAA--GA-GTTGTCTATAAGCAACAAAATAA----TGTCACTCTGTCAACAGGCTGTCAC-----AGACAGTATTTCAGAACCTTTGGGGCTCC-----------CCTTACCTAGAAATGCACCTGGGGTTGAG-CTTTTAAGGTCTAGA
+q bosTau3.chr9 99999999999-99999999999999999999999999999999--99-99999999999999999999999----9999999999999999999999999-----99999999999999999999999999999-----------99999999999999999999999999999-999999999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 94886 1561 + 124190 I
+e calJac1.Contig1260 117113 1185 - 523245 I
+e cavPor2.scaffold_284118 122973 1031 - 169015 I
+
+a score=214848.000000
+s mm9.chr10 3231426 71 + 129993255 CTCAGGCTGTATCCTGATAAAC-CTGC-GCACATTCTAAAAGGTCATGGCTCT-GTCTCTGAAGTTCATCTTCT
+s rn4.chr1 230050202 68 - 267910886 TGCAGGCTGTAGCCTGATAAGC-CTTT--CACATTCTGAAAGGTCATGGCT---GTTTCTGAAGTTCATCTTTT
+q rn4.chr1 9999999999999999999999-9999--9999999999999999999999---99999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124004 70 - 169015 CCCAGG-TGCATCCTGATTGTC-CATCAGCCCTTTCTAAAATCT-ATTGTACC-TTTGATAAAGGTCATCTTTT
+q cavPor2.scaffold_284118 296597-546489999769779-839969999999976999975-54364334-78599999998799999999
+i cavPor2.scaffold_284118 I 1031 C 0
+s oryCun1.scaffold_214769 135577 68 - 139458 CTCCAGTTGTATCCTGATCGTCACTGC-AAATCCTCTGCCATTCTCTGGCAAC-ACTTCTGAGGCTCATC----
+q oryCun1.scaffold_214769 999999999999999999999999999-9999999999999999999999999-9999999999999999----
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108552175 72 + 167655696 TTCTGGTTGTAACTTGGCCATC-CCTAGGCATATTCTAAAGTTCTATGGCAAC-CTTTCTGAAGCTCGTCTTCT
+q rheMac2.chr4 9999999999999999999999-999999999999998999999999999999-99999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449386 72 - 174210431 TTCTGGTTGTAACTTGGCCATC-CATAGGCATATTCTAAAGTTCTATGGCAAC-CTTTATGAAGCTCGTCTTCT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662478 72 - 173908612 TTCTGGTTGTAACTTGGCCATC-CATAGGCATATTCTAAAGTTCTATGGCAAC-CTTTATGAAGCTCGTCTTCT
+q panTro2.chr6 9999999999999999999999-999999999999999999999999999999-99999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16136733 72 - 170899992 TTCTGGTTGTGACTTGGCCATC-CATAGGCATATTCTAAAGTTCTATGGCAAC-CTTTATGAAGCTCGTCTTCT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 29617 72 - 136255 -TCTGGCCATAAGATGACCAGC-TCCAGGCATATTCTAAAATTCTATGGAAGTGTTTTACAAAGCCTATCTTCT
+q otoGar1.scaffold_85251.1-136255 -999989999999999999999-999999999999999999999999999999999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 427745 72 - 498454 TTCTGGTTGTAACCTGATCATG-ACTAGGAATATACTAAAATTCTTTGACCAT-GTTTAGGAAATTTATCTTCT
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999-999999999999999998999999999999-99999999999998999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 361
+s canFam2.chr1 78293202 70 - 125616256 TTCTGGTTGTATGCTGGTCAT---TAGGGCATACTCTATAATTCTATGGCAGC-ATTCATGAAGTTCATCTTCT
+q canFam2.chr1 999999999999999999999---99999999999999999999999999999-99999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 155043 67 - 219823 TTCTGATTGTACCCCGATCGT--CTTAGGCATACTCTAAAATTCGATGACAAC-ATTCTTGAAGTTCATC----
+q felCat3.scaffold_217398 999899979999999999779--799999999999899999999997999999-9999989999999999----
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13086389 72 + 24938454 TTCTGGTTGTAACCTGATCATC-CCTAAGCATATTCTGTAATTCTGTGGCAAC-ATTTATGAAGCTTATCTTCT
+q equCab1.chr31 9999999999999999999999-999999999999999999999999999999-99999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13767969 72 - 95030419 TTCTGGATGTAACCCGGTCGTT-CCTCAGCGTGTGGTAAAACTCTGTGGCAGT-GTTTATGAAGCACATCTTCT
+q bosTau3.chr9 9999999999999999999999-999999999999999999999999999999-99999999999999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 94886 1561 + 124190 I
+e calJac1.Contig1260 117113 1185 - 523245 I
+
+a score=107575.000000
+s mm9.chr10 3231497 103 + 129993255 GAGTGG---ATCCTGTGTCCTCAGGCTGCTCCTTTATGACTGACGTCTGGGATGAGAACATAGCAAGTAATATGAGAGGGAAGCTGGGCGCCAACCCTATGTTCT--------T
+s rn4.chr1 230050270 103 - 267910886 GAGTGG---ATCCTGTGTCCTTAGGCTGCTCCTTTATGACTGATGTCACAGATGAGAACATAACAAGTGATATGAGATGGAAGGTGGGTACCAACCCTACATTCT--------T
+q rn4.chr1 999999---999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124074 93 - 169015 GAGCCA---ATTACCTGTTGTTTTACTCCTAATTGACAGCTGATGT-AGGGATGCAAACACCTAAGGCTTCGTGTGGAGG-AGGTAAGTGTTAACCCC----------------
+q cavPor2.scaffold_284118 999999---9999999999999999999999999999999999999-999999999999999999999999999999999-99999999999999999----------------
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 135645 85 - 139458 ------------ACATGCTGCCAAGGTACCC-----------AGGTTCAGGATTAGAACCTGCGGGGCCAC-CGTGAAGA-----GGGTCCCAACTCTGCCTTCTCTTCTGTGT
+q oryCun1.scaffold_214769 ------------9999999999999999999-----------99999999999999999999999999999-99999999-----99999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108552247 110 + 167655696 GAGTTG---ATCACCTGTTCATGCACTGCCCATTTACAACATACCTCGGGGATTAAAACAAGTGAGTCTACACCTAAGGA-AAGTCGGTCCTAATCCTGCATTCCCTCCTGCAT
+q rheMac2.chr4 999999---99999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449458 108 - 174210431 GAGTTG---ATCACCTGTTCATGCGCTGCCCATTTACAACATACCTCACGGATTAAAAC--GTGAGGCTACACCTAAGGA-AAGTCGGTCCTAATCCTGCGTTCCCTCCTGCAT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662550 108 - 173908612 GAGTTG---ATCACCTGTTCATGCGCTGCCCATTTACAACATACCTCAGGGATTAAAAC--GTGAGGCTACATTTAAGGA-AAGTTTGTCCTAATCCTGCGTTTCCTCCTGCAT
+q panTro2.chr6 999999---99999999999999999999999999999999999999999999999999--9999999999999999999-999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16136805 108 - 170899992 GAGTTG---ATCACCTGTTCATGCGCTGCCCATTTACAACATACCTCAGGGATTAAAAC--GTGAGGCTACACCTAAGGA-AAGTCGGTCCTAATCCTGCGTTTCCTCCTGCAT
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 29689 92 - 136255 GAGTTG---ATCAGCTGTCCCTG-GCTGCCATTTTACAATAGACCTCAGGGATAAAAGCATGTGACCTTACACTGAAGAA------GGTCCTTG------------TTGGAGAT
+q otoGar1.scaffold_85251.1-136255 999999---99999999999999-99999999999999999999999999999999999999999999999999999999------99999999------------99999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s canFam2.chr1 78293272 100 - 125616256 G-GTCG---ATCTACTGTTCATGTGCTGCCAAATCACAACAGATGTCAGGGATTAAAAGACGTGAGGCTACAGCC-AAGA-TCATGGAGTTTAATTGTCCCTTCTC--------
+q canFam2.chr1 9-9999---999999999999999999999999999999999999999999999999999999999999999999-9999-9999999999999999999999999--------
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 155110 87 - 219823 -----------------TTCACGTGCTGCCAGTTGACAACAGACCTCAGGGGTCAAAACCTGTGAGGCTGTGGCC-AAGA-CTGTGGGTTTTAATCCTACATTCTC--------
+q felCat3.scaffold_217398 -----------------9999999999999999899999999998999999999999999999999999999999-9999-9999999999999999999999999--------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13086461 98 + 24938454 GAGTTG---ATCAACTATTCATGTGCTGTCAATTTACAATGGACCTCAGAT-TTAAAACATG---AGCTCCAACTGAAGG-AGGTGGAGTTTAATCCTACTTTCTC--------
+q equCab1.chr31 999999---999999999999999999999999999999999999999999-9999999999---999999999999999-9999990999999999999999999--------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13768041 104 - 95030419 AAGTCAAACATTTACTGTTCATGGGATGCCAGTTTACAACAGCCGGCAGGGGTTAAAACATGTGAGGAAACACCT-GAAG-AAGAGGATGTTAATCCTCACTCTTT--------
+q bosTau3.chr9 999999999999999999999999999999999999999999999999999999999999999999999999999-9999-9999999999999999999999999--------
+i bosTau3.chr9 C 0 I 92
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 94886 1561 + 124190 I
+e calJac1.Contig1260 117113 1185 - 523245 I
+e tupBel1.scaffold_114895.1-498454 427817 361 - 498454 I
+
+a score=42259.000000
+s mm9.chr10 3231600 53 + 129993255 --------GTTACTGCACATGTTG-CCTGGATGCT--TTGATGAAGAT-------------------------------------GGCTTGTTTTGAGGGA
+s rn4.chr1 230050373 55 - 267910886 --------GTTATTGTGCCTGTTGGCTTGGATGCT--TTGGGGAGGACA------------------------------------GGCTTGTTTTGAGGGA
+q rn4.chr1 --------999999999999999999999999999--999999999999------------------------------------9999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124167 89 - 169015 ---------TCACAGGCCATCTTGGACTTCATACC--CTGAGGAAGACAGCTCCCGGCTTGAGCTCTT-GATCATACTTGCATTCAGCTTCTTATACAGTA
+q cavPor2.scaffold_284118 ---------99999999999999999999999999--9999999999999999999999999999999-99999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 135730 88 - 139458 --------GTTGCTGATCATTGTG---TCACTGCT--CTGAGGAAGAGAGCCAGCAGCCTGGGCGGGGAGGTCACACTGGGAGCTGGCTTGCCGCACAGCA
+q oryCun1.scaffold_214769 --------9999999999999999---99999999--9999999999999999999999999999999999999999999999999999999999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s rheMac2.chr4 108552357 84 + 167655696 --------GTCACTGACC--ATTGGAGTCACTGCTCTCTGAGGAAG-------ACAGCCTGAGCATTCATGTCACGCTCACAGCCAACCTGTTACTCGCTG
+q rheMac2.chr4 --------9999999999--99999999999999999999999999-------999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449566 91 - 174210431 --------GTCACTGACC--TTTGGAGTCACTGCTCTCTGAGGAAGACAGTTTACAGCCTGAGCATGCATGTCACGCTCACAGCCAACCTGTTACTCACTG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662658 91 - 173908612 --------GTCACTGACC--ATTGGAGTCACTGCTCTCTGAGGAAGACAGTTTACAGCCTGAGCATTCATGTCACGCTCACAGCCAACCTGTTACTTGCTG
+q panTro2.chr6 --------9999999999--999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16136913 91 - 170899992 --------GTCACTGACC--ATTGGAGTCACTGCTCTCTGAGGAAGACAGTTTACAGCCTGAGCATTCATGTCACGCTCACAGCCAACCTGTTACTTGCTG
+i hg18.chr6 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 29781 91 - 136255 --------ATCATGGGCCTTGTTGGAGTCAATGCTCGCTGAGGAAGGCAGCTCACAGCCC-AGCATTCACGCCACGCT-GCAGCCAGGTTGTTACACACCA
+q otoGar1.scaffold_85251.1-136255 --------9999999999999999999999999999999999999999999999999999-99999999999999999-9999999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s equCab1.chr31 13086559 63 + 24938454 T-CTGGATCCCACCAACCATGCTGGAGTCACAGCT--CTGAGAAAGACAGTTCACAGTCTGAGCAG-----------------------------------
+q equCab1.chr31 9-999999999999999999999999999999999--99999999999999999999999999999-----------------------------------
+i equCab1.chr31 C 0 I 32
+s felCat3.scaffold_217398 155197 64 - 219823 CCCTGGATCCTGCCCACCGCTCTGCAGTCACTGCT--CCTGGGAAGATGGGTCACAGTCTGGGCAT-----------------------------------
+q felCat3.scaffold_217398 99999999999999999999999999999999999--99999999999999999999999999999-----------------------------------
+i felCat3.scaffold_217398 C 0 I 32
+s canFam2.chr1 78293372 64 - 125616256 TCCTGGATCCCACCTACTGCTCTGCAGTCACTGCT--CTTGGGAAAATGGGTCAAAGTCTGAGCAT-----------------------------------
+q canFam2.chr1 99999999999999999999999999999999999--99999999999999999999999999999-----------------------------------
+i canFam2.chr1 C 0 I 32
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13768145 92 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 94886 1561 + 124190 I
+e calJac1.Contig1260 117113 1185 - 523245 I
+e tupBel1.scaffold_114895.1-498454 427817 361 - 498454 I
+
+a score=259924.000000
+s mm9.chr10 3231653 195 + 129993255 -GC-TCTCTGTCCTGAGTCTCACGTTTCTTTGAAAGGTTATGGAACTGAAGTTGAGGG-AGATGATTCAAAAAGAAAATTTAAGAGATTTTA----CAGAGTGAGGAAGG-GCAGT-----------------------------AAGTCCTGA----TATCTCAGGT----GGTGGTAATCTAACCAT------------------------------------------CAC----------CCAACCCcttt--------gtctctgtctctgtctctctctgtctctgtctgtctc
+s bosTau3.chr9 13768237 124 - 95030419 GCT-CTCCTTTCCCAAGCTTCTTGTTTCTCAGAAAAGTTGTGAAACTGAAGCTGTAGG-AGAAAATTAAGAAATCAACCTCAAA-GGTGTTT----TAAAAAGAAGGACT-CCATC------------------------------ACCCCCTC----A-------------AATC-------------------------------------------------------CAG------------------------------------------------------------------
+q bosTau3.chr9 999-999999999999999999999999999999999999999999999999999999-9999999999999999999999999-9999999----99999999999999-99999------------------------------99999999----9-------------9999-------------------------------------------------------999------------------------------------------------------------------
+i bosTau3.chr9 I 92 I 21
+s equCab1.chr31 13086654 135 + 24938454 CTT-CTCCTTTACCGAGCTTCTTGTTTCTTCGAAAAGTTTGGAAACTGAAGTTGTAGG-AGAAAATTAAGAGATAAACCTCAAA-GGTATTTTTTAAAAAAAGAAGGGGT-ACATT------------------------------GCTTCTGG----AATCC--AGG----GATC-------------------------------------------------------CGG------------------------------------------------------------------
+q equCab1.chr31 999-999999999999999999999999999999999999999999999999999999-9999999999999999999999999-9999999999999999999999999-99999------------------------------99999999----99999--999----9999-------------------------------------------------------999------------------------------------------------------------------
+i equCab1.chr31 I 32 I 21
+s felCat3.scaffold_217398 155293 284 - 219823 AATGCTTCTTTATGGAGCTTCTTGTCTCTCCGAAAAACTGTGAACCTGAAGCTGTAGG-AGAAAATTAAGAAGTAAATCTCAAA-GGCATTT----AAAAAAGAAGAGAT-ggggcgcctgggtggctcagtcggttgagtgtctgactcttgatttcagctc--aggtcatgatc-------tctcagtaagtgagtttgagccccacgtcgggctctgtgttgacagctcagaacctgcttgggattctctgtgtccctctcctcccgcccctctcctgcttgtgctccctctctttc
+q felCat3.scaffold_217398 9999999999999999999999999999999999999999999999999999999999-9999999999999999999999999-9999999----99999999999999-9999999999999999999999999999999999999999999999999999--99999999999-------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i felCat3.scaffold_217398 I 32 I 78
+s canFam2.chr1 78293468 131 - 125616256 GCT-CTTCTTTACTGAGTTTCTTGTCTCTGTGAGAAGTTGTGAAACTGAAGCAGTAGG-AGAAAATTAAAAAATAAACCTCAAA-GGCATTT----TAAAAAGAAGAGAT-ACAAC------------------------------ACTCCTGA----AATCC--AGG----GATC-------------------------------------------------------CAG------------------------------------------------------------------
+q canFam2.chr1 999-999999999999999999999999999999999999999999999999999999-9999999999999999999999999-9999999----99999999999999-99999------------------------------99999999----99999--999----9999-------------------------------------------------------999------------------------------------------------------------------
+i canFam2.chr1 I 32 I 18
+s otoGar1.scaffold_85251.1-136255 29872 143 - 136255 -AG-TCCCTTTACTGAACCTCTTGTTTCTCTGAGAAGTTGTCAAACTAAAGTTGGAGGAGAAAAATTAAGAAATACACCTCAAA-GGTATTT----TTAAAAGAAGC--A-GTAAT-----------------------------CACTCCTCC----TGCCC--TGG----GATGGGAATATTCTCAT------------------------------------------CAT------------------------------------------------------------------
+q otoGar1.scaffold_85251.1-136255 -99-99999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999----99999999999--9-99999-----------------------------999999999----99999--999----99999999999999999------------------------------------------999------------------------------------------------------------------
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s hg18.chr6 16137004 145 - 170899992 -GC-CTCCTTTACCAAGCTCCTTGTTTCATGAAGAAGTTGTGAAACTGAAGTTGGAGGAAAAAAATTAAGAAATAAACCTCAAA-GGTATTT----AAAAGGGCAGTAGA-GTAAT-----------------------------TACTCCTCA----CACCC--AGG----GATAAGGATATTCTCAT------------------------------------------CAT------------------------------------------------------------------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16662749 145 - 173908612 -GC-CTCCTTTACCAAGCTCCTTGTTTCATGAAGAAGTTGTGAAACTGAAGTTGGAGGAAAAAAATTAAGAAATAAACCTCAAA-GGTATTT----AAAAGGGCAGTGGA-GTAAT-----------------------------TACTCCTCA----CACCC--AGG----GATAAGGATATTCTCAT------------------------------------------CAT------------------------------------------------------------------
+q panTro2.chr6 -99-99999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999----99999999999999-99999-----------------------------999999999----99999--999----99999999999999999------------------------------------------999------------------------------------------------------------------
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16449657 144 - 174210431 -GC-CTCCTTTACCAAGCTGCTTGTTTCATGAAGAAGTTGTGAAACTGAAGTTGGAGG-AAAAAATTAAGAAATGAACCTCAAA-GGTATTT----AAAAGGGCAATGGA-GTAAT-----------------------------TACTCCTCA----CACCC--AGG----GATAAGGATGTTCTCAT------------------------------------------CAT------------------------------------------------------------------
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108552441 142 + 167655696 -GC-CTCCTTTACCAAGCTCCTTGTTTCATGAAGAAGTTGTGAAACTGAAGTTGGAGGGAAAAAATTAAGAAATAAACCTCAGA-GGTATTT----AAAAGGGCAATGGA-GTAAT-----------------------------TACTCCTCA----CACCT--GGG----GATAAGGATATTC---T------------------------------------------CAT------------------------------------------------------------------
+q rheMac2.chr4 -99-99999999999999999999999999999999999999999999999999999999999999999999999999999999-9999999----99999999999999-99999-----------------------------999999999----99999--999----9999999999999---9------------------------------------------999------------------------------------------------------------------
+i rheMac2.chr4 C 0 C 0
+s oryCun1.scaffold_214769 135818 147 - 139458 -GT-CCCCTTCACCAAGCTTCGTGTTTCTCTGGGAAGTTGTG--ACAGAAGTTGTAAG-AGATATTTAAGAAATAAGCCTCA---GTTATAT----AACAAGGAAGAAGGCATAAA-----------------------------GACTTCTTG----CATGCCAGGA----G--AGCAATATTCTCAT------------------------------------------CAT------------------------------------------------------------TTTTTC
+q oryCun1.scaffold_214769 -99-99999999999999999999999999999999999999--99999999999999-99999999999999999999999---9999999----99999999999999999999-----------------------------999999999----9999999999----9--99999999999999------------------------------------------999------------------------------------------------------------999999
+i oryCun1.scaffold_214769 C 0 C 0
+s cavPor2.scaffold_284118 124256 149 - 169015 -GT-CTCCTTTTCTGAGCTTTGTGTTTTTTCGGAAAGTTGTGAAACTGAAGTTCtaga-agaaaattaagaaatcaacttCAAG-gctatta----aaaaaggaaaaagg-ttaAT-----------------------------TGCTGCTTG----CATCT--AGG----AGTAACaatat-------------------------------------------------------------------------------------------------------tcttgttatttttc
+q cavPor2.scaffold_284118 -99-999999999999999999999999999999999999999999999999999999-9999999999999999999999999-9999999----99999999999999-99999-----------------------------999999999----99999--999----99999999999-------------------------------------------------------------------------------------------------------99999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rn4.chr1 230050428 203 - 267910886 -GC-TCTCTTTTCTGAGCACCATGTTTCTTTGAAAAGTTGTGGAGCTGAAGTCAAGGG-AGATGATTCAAAAAGAAACCTTAAGGGATTTTA----CAGAATGAGGAAGG-AGAGT-----------------------------AAGTCCTGA----CATCTCAGGT----GGTGAGAACATCACCAT------------------------------------------CAC----------ACACACCCCACCCCCACCAGtctctctctctctctctctctctctctctctctctc
+q rn4.chr1 -99-999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999----99999999999999-99999-----------------------------999999999----9999999999----99999999999999999------------------------------------------999----------99999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s loxAfr1.scaffold_4233 96447 134 + 124190 -------CTTTACCGAACTTCGTGCTTCTCTGGAAAATTGTGAAGCTGAAG-TGTAAA-GGAAAATTAAGAAATAAACCACAAA-AGTATTT----AAAAAGGAAGAAGG-GAAAC---------------------------ATCATGCCTCA----CGTCC--GGG----GACA------TTCTCTT------------------------------------------CAT------------------------------------------------------------------
+q loxAfr1.scaffold_4233 -------99999999999999999999999999999999999999999999-999999-9999999999999999999999999-9999999----99999999999999-99999---------------------------99999999999----99999--999----9999------9999999------------------------------------------999------------------------------------------------------------------
+i loxAfr1.scaffold_4233 I 1561 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e calJac1.Contig1260 117113 1185 - 523245 I
+e tupBel1.scaffold_114895.1-498454 427817 361 - 498454 I
+
+a score=304845.000000
+s mm9.chr10 3231848 103 + 129993255 tccctctct------------------------------------------------------------------ccctgtGT--AGAGCATTGTAAACAAGGATGTTTGTGTGAAGGATTGAT---ATAAAGGAGAA-AAAA----TAT-----CAAAAAAATAATTAA--------AAGAAGAAGAAGAA
+s rn4.chr1 230050631 173 - 267910886 tcctcttcctccacctcttcctcctcctcctcctcctcctcttcctcctcctcctcctcctcttcctccCAGAGCCCCTGTAC--AGAGCACTGTAAACAAGGAAGTTCAGGTGAAGAATTGAT---ATGAAGGAGAA-AAAAAAATCAA-----GAGAAAAATATTTAA--------AAGGAAAGGAAGAA
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999999999999999999999999999999999999---99999999999-99999999999-----999999999999999--------99999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124405 92 - 169015 tcc------------------------------------------------------------------------ctttggcC--AGAGCATTGCAAACACTGAAATTTTTGTGAAGGGATGAT---AAGGAGGGAGA-ATAT----CAA-----GAGCAACATgattaa--------aat-----gaagga
+q cavPor2.scaffold_284118 999------------------------------------------------------------------------99999999--999999999999999999999999999999999999999---99999999999-9999----999-----999999999999999--------999-----999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 135965 98 - 139458 TTC------------------------------------------------------------------------CCTTGCTT--GGGGCATTATAAACATCCAAACGCTTGTGAGGGGATGATTACATGGAGGGAGA-ATAT----CAG-----GAGAAAAGTGATGAG--------AAGGAGAGAAA--A
+q oryCun1.scaffold_214769 999------------------------------------------------------------------------99999999--99999999999999999999999999999999999999999999999999999-9999----969-----974499999999999--------29999999999--9
+i oryCun1.scaffold_214769 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 30015 103 - 136255 TTTCTCTTT------------------------------------------------------------------CCTTGCCT--GGAGGATTGTAAACACTCAACTGTTTACGAAGAAATGATTAAAAGGAGAGAAA-ATGT----CAG-----GAGAAAAATGATTAA--------AACGAAAGAA---A
+q otoGar1.scaffold_85251.1-136255 999999999------------------------------------------------------------------99999999--99999999999999999999999999999999999999999999999999999-9999----999-----999999999999999--------9999999999---9
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 118298 103 - 523245 TTTCCTTCC------------------------------------------------------------------TCTTGTCT--GGAGTGTTATAAACATTCAGATGTTTGTGAAGAAATGATTAAAAGGAGAGAAA-ATAT----CAG-----GAGAAAAGTGATTAA--------AACGAGAGAA---A
+i calJac1.Contig1260 I 1185 C 0
+s rheMac2.chr4 108552583 103 + 167655696 TTTCTCTCC------------------------------------------------------------------TCTTCCCT--GGAGCATTGTAAACATTCAGATGTTTGTGAAGAAATGATTAAAAGGAGAGAAA-ATAT----CAG-----GAGAAAAATGATTAA--------AATGAGAGAC---A
+q rheMac2.chr4 999999999------------------------------------------------------------------99999999--99999999999999999999999999999999999999999999999999999-9999----999-----999999999999999--------9999999999---9
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449801 103 - 174210431 TTTCTCTCC------------------------------------------------------------------TCTTGCCT--GAAGCATTGTAAACATTCAGAGGTTTGTGAAGAAGTGATTAAAAGGAGAGAAA-ATAT----CAG-----GAGAAAAATGATTAA--------AATGAGAGAA---G
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662894 100 - 173908612 TTTCTCTCC------------------------------------------------------------------TCTTGCCT--GGAGCA---TAAACATTCAGATGTTTGTGAAGAAATGATTAAAAGGAGAGAAA-ATAT----CAG-----GAGAAAAATGATTAA--------AATGAGAGAA---A
+q panTro2.chr6 999999999------------------------------------------------------------------99999999--999999---99999999999999999999999999999999999999999999-9999----999-----999999999999999--------9999999999---9
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16137149 100 - 170899992 TTTCTCTCC------------------------------------------------------------------TCTTGCCT--GGAGCA---TAAACATTCAGATGTTTGTGAAGAAATGATTAAAAGGAGAGAAA-ATAT----CAG-----GAGAAAAATGATTAA--------AATGAGAGAA---A
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78293617 92 - 125616256 TTTCTCTCC------------------------------------------------------------------CTACATACAGAGAGCACTGTAAGCGCTCAAATGTTTGTGAGGGAATGATTAAAAGGAGAGAAA-AAGT----CAG-----GAAAC--ATTATTTT----------------------
+q canFam2.chr1 999999999------------------------------------------------------------------999999999999999999999999999999999999999999999999999999999999999-9999----999-----99999--99999999----------------------
+i canFam2.chr1 I 18 I 6
+s felCat3.scaffold_217398 155655 92 - 219823 TTTCTCTTC------------------------------------------------------------------CCTTGTGC--AGAACATTGTAAGTACTCAAATGTTTGTGAAGGAATGACTAAAAGGAGAGAAAGAAAC----CAG-----AAAACAAATTA-CTC----------------------
+q felCat3.scaffold_217398 999999999------------------------------------------------------------------99999999--9999999999999999999999999999999999999999999999999999999999----999-----99999999999-999----------------------
+i felCat3.scaffold_217398 I 78 I 6
+s equCab1.chr31 13086810 87 + 24938454 TTTCTTTGC------------------------------------------------------------------CCTTGCTC--GGCGTATTGTAAGTACTCAAATGCTTGTGAAGGAATGACTAAAAAGAGAGAAACACAT----CAG-----GAAAAAACT----------------------------
+q equCab1.chr31 999999999------------------------------------------------------------------99999999--9999999999999999999999999999999999999999999999999999999999----999-----999999999----------------------------
+i equCab1.chr31 I 21 I 10
+s bosTau3.chr9 13768382 105 - 95030419 TTTCTCTCC------------------------------------------------------------------CCTTGCCA--GGAGCATTGTAAATCCTCAAATGTTTGCAAAGGAATGATTAAAAGGAGAGAAA-ACAT----CAGAGGATAAAAAAAATCGTATTTTTTCCCT--------------
+q bosTau3.chr9 999999999------------------------------------------------------------------99999999--99999999999999999999999999999999999999999999999999999-9999----9999999999999999999999999999999--------------
+i bosTau3.chr9 I 21 C 0
+s loxAfr1.scaffold_4233 96581 89 + 124190 TTTCTCTCC------------------------------------------------------------------CTTTGCCT--GGAGCATTGTAAACACTCAGATGTGTGTGAAGGAATGATTAAAAGGAGAAAAC-ACTA----GAA-----GAGACAAACCAT-------------------------
+q loxAfr1.scaffold_4233 999999999------------------------------------------------------------------99999999--99999999999999999999999999999999999899899999999999999-8999----999-----999986999999-------------------------
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e tupBel1.scaffold_114895.1-498454 427817 361 - 498454 I
+
+a score=477278.000000
+s mm9.chr10 3231951 134 + 129993255 ---------TATTCTTGTACTGAATAGACTTGCTA-AATGGA-TTTATAATTTAATTTTGCTACT---GGAGGATGACAGTGGT-------------------ATTTCATTTGAAGATAAATATT-TGCCATTTTGACAGATCTTTGTTGGGACATTTCTG-ATGATTT
+s rn4.chr1 230050804 134 - 267910886 ---------TATTCTTCTACCGAGTGGACTTGCTA-AATGAG-TTTCCAATTTAACTTTGCTATT---GGGGGAGGATGATGGT-------------------GTTTTGTTTGAAGATATTTATT-TACCATTGTGACATATCTTGGTTGGGACATTTTTG-ACGATTT
+q rn4.chr1 ---------99999999999999999999999999-999999-9999999999999999999999---9999999999999999-------------------9999999999999999999999-99999999999999999999999999999999999-9999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124497 136 - 169015 ---------aattgtTTTACTGACTAGACTTGTTAGAAGGGA-TTTATAGTTCAACTTTATTTTC---AGTGGAGGAAGAtggg-------------------attttatttaaagacatttCTTCCATCATTTTGACATATATTGGTTGgaacattttga-ttatttt
+q cavPor2.scaffold_284118 ---------999999999999999999999999999999999-9999999999999999999999---9999999999999999-------------------9999999999999999999999999999999999999999999999999999999999-9999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136063 133 - 139458 ---------TGTTCTTCTGCTGACTAGACCCGTGG-AAAGGA-TTTATAATTTATTGTG-----T---GAGGGATGAACATATTCTCTCACCATTTGTGCTTAATTTTGTTTAAA---------T-GATTACTTTAAAGAATC----ACGAGAGAGCTTTA-AAAGT--
+q oryCun1.scaffold_214769 ---------99999999999999999779999999-999999-9999999999968919-----9---99999999999999992999979999992999999999999999999---------9-99999189899999999----99999999999999-99999--
+i oryCun1.scaffold_214769 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 30118 134 - 136255 ---------TGTTGTTCTACTGACTAGACCCATTA-AAAGGG----ATAATTTAACTTGATTGTTGGGGGGGGATGAAGACTGG-------------------ATTTTATTTTAAAATATTTCTT-CACCAGTTTGATATGGCTTGATCTGAACATTTTGG-TTATTTT
+q otoGar1.scaffold_85251.1-136255 ---------99999999999999999999999999-999999----98999999999999999999999999987999999999-------------------9999999999999999999999-99999999999999999999999999999999999-9999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 118401 132 - 523245 ---------TGTTCTTCCACTGACTGGACCCATTA-AAAGGG----AAAATTGAACTTTATTGTT--AGGGGGATGAAAACTGG-------------------ATTTTATTTTAAGATATTTCTT-CACTATTTTGTCATATCTTGCGCTGAACATTTTGA-TGATCTT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108552686 127 + 167655696 ---------TGTTCTTTCACTGACTAGACCCATTA-AAGGGG----AGGATTTAACTTTATTGTG--AGAGGGATAAAAAGTGG------------------------ATTTTAAGATATTTCTT-CACCATTTTGACATATCTTGGGCTGAACATTTTGA-TTATTTT
+q rheMac2.chr4 ---------99999999999999999999999999-999999----9999999999999999999--99999999999999999------------------------99999999999999999-99999999999999999999999999999999999-9999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16449904 127 - 174210431 ---------TGTTCTTCCACTGACTAGACCCATTA-AAGGGG----AGGATTTAACTTTATTGTT--AGAGGGATGAAAACTGG------------------------ATTTTAAGATATTTCTT-CACCATTTTGACGTATCTTGGGCTGAACATTTTGA-TTATTTT
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16662994 127 - 173908612 ---------TGTTCTTCCACTGACTAGACCCATTA-AAGGGG----AGGATTTAACTTTATTGTT--AGAGGGATGAAAACTGG------------------------ATTTTAAGATATTTCTT-CACCATTTTGACATATCTTGGGCTGAACATTTTGA-TTATTTT
+q panTro2.chr6 ---------99999999999999999999999999-999999----9999999999999999999--99999999999999999------------------------99999999999999999-99999999999999999999999999999999999-9999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16137249 127 - 170899992 ---------TGTTCTTCCACTGACTAGACCCATTA-AAGGGG----AGGATTTAACTTTATTGTT--AGAGGGGTGAAAACTGG------------------------ATTTTAAGATATTTCTT-CACCATTTTGACATATCTTGGGCTGAACATTTTGA-TTATTTT
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78293715 132 - 125616256 ---------TGTTCTTCCATTGACCAGACCCATTTGAAGGGATTTTACCCTGTAGTCTTAATGTT--AAGGTGACAAAGACCAG------------------------ATTTGAAGACATTCCTT-CAACATTTTGACATAGCTTGATCTGAACATTTCGA-TTATTTT
+q canFam2.chr1 ---------99999999999999999999999999999999999999999999999999999999--99999999999999999------------------------99999999999999999-99999999999999999999999999999999999-9999999
+i canFam2.chr1 I 6 C 0
+s felCat3.scaffold_217398 155753 131 - 219823 ---------TGTTCTTCCGCAGACCAGACCAATTATAAGGGA-TTTACCCTGTAATTCTAATGTT--AGGGTGACGGAGACCAG------------------------ATTTTAAGACATCCCTT-CACCATATGGACATACCTTGGTCTGAACATTTTGA-TTATTTT
+q felCat3.scaffold_217398 ---------999999999999999999999999999999999-9999999999999999999999--99999999999999999------------------------99999999999999999-99999999999999999999999999999999999-9999999
+i felCat3.scaffold_217398 I 6 C 0
+s equCab1.chr31 13086907 130 + 24938454 ---------TGTTCTTCCACTGACTAGACCCATTAAAAGAGA-TTTACCATTTCACTTTATTGTT--AGGGTGAT-GAGACGGC------------------------ATTTTGAGCTATTCCTT-CACCATTCGGACATATCTTGGTCTGAACATTTTGA-TTATTTT
+q equCab1.chr31 ---------999999999999999999999999999999999-9999999999999999999999--99999999-99999999------------------------99999999999999999-99999999999999999999999999999999999-9999999
+i equCab1.chr31 I 10 C 0
+s bosTau3.chr9 13768487 132 - 95030419 ---------TGTTCTTTCATTGTCTAGACCCACTGAAAGGGA-TTTTCCATTTGACTTTATTTTT--TGGATGACGAAGACTGG------------------------ATTTGAGGATGATCCTT-CAACATTTTGACATATCTCTGGGTGAACATTTTGATTTATCTT
+q bosTau3.chr9 ---------999999999999999999999999999999999-9999999999999999999999--99999999999999999------------------------99999999999999999-9999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 96670 131 + 124190 TTTAGTCCTCATTCTTCCACTGAATAGGCCCAGAAGAAGGGGATTTATAATTTAAGTTTATTGTT---GAAGAATGAAGACTGA-------------------ATTTTCTTTTAGGAA------T-CGCCATC-------ATCTTGATCTGAACATTTTGA-TTATTT-
+q loxAfr1.scaffold_4233 99999999899899899859999999998997799798699873998998899796999889959---8894965966695796-------------------779968799875766------6-9568587-------499699758658855588885-557488-
+i loxAfr1.scaffold_4233 C 0 I 2072
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e tupBel1.scaffold_114895.1-498454 427817 361 - 498454 I
+
+a score=62578.000000
+s mm9.chr10 3232085 67 + 129993255 AG-GA----------AGC---ACCAG---ACTTT------------------------------------------------------------------------------------------------------------------------------------------G-------TG----------AGTGTCAGGCTCTG--TTT---------AAGAGCTGCATTCCATTTCTTCAAGTGAGG
+s rn4.chr1 230050938 130 - 267910886 AG-GA----------AGC---ACCAG---GCTTTTAAAATC------------------AAC-TTTACTATAAAGCGA---TATCGTCCATGAAGTAAGAAATTGTCCTTTT-----------AT-----------------------------------------ATTTT-G-------TG----------AATGTCAGGCTCTG--TTT---------AAGAGCTGCATTCCATTTTCTCAAGCGAGG
+q rn4.chr1 99-99----------999---99999---999999999999------------------999-999999999999999---9999999999999999999999999999999-----------99-----------------------------------------99999-9-------99----------99999999999999--999---------999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124633 139 - 169015 agaGA----------ATC---ATGAGAGAACATTAAAAATG------------------AAG-TTCAATACCAAGTAATATT---GTCTCTGAAGGAGGAGATTGTTTTAAT-----------TT-----------------------------------------A-----G-------TG----------AATGTCAGGTTCTG--TTTTCTTACTCATAAATTCACTCTCTGTCATTCCAACTGAGG
+q cavPor2.scaffold_284118 99999----------999---99999999999999999999------------------999-9999999999999999999---999999999999999999999999999-----------99-----------------------------------------9-----9-------99----------99999999999999--999999999999999999999999999999999999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136196 106 - 139458 ---GA----------AGTTTAATGAGATAGCATT-----------------------------------------------T---GTCTCTGAAGTGAGAAATTGTGCTTTT-----------AG-----------------------------------------------T-------CT----------ATTGTCAGTTTCTG--TTTTCTTA----TTGATCTACACTCTCTGTCACCTACTTAGT
+q oryCun1.scaffold_214769 ---99----------9999999999999999999-----------------------------------------------9---999999999999999999999999999-----------99-----------------------------------------------9-------99----------99999999999999--99999999----999999999799999999979999999999
+i oryCun1.scaffold_214769 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 30252 144 - 136255 ACAGA----------ATT---ATGAAAGAGCTCTAAAAATGAAGTTTAATATATAAAGTAA--------------------T---ATCTCTGAAATAAGAAAGTATCCTTTA-----------AA-----------------------------------------------TTTTAGAGTT----------CATGTCAGGTTCTG--TTTTCTTACTTGAGTCCACATTTTCTGTCATTCCAACTGAGG
+q otoGar1.scaffold_85251.1-136255 99999----------999---9999999999999999999999999999999999999999--------------------9---999999999999999999999999999-----------99-----------------------------------------------9999999989----------99998999979999--899999999999999998999999999799999979999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s calJac1.Contig1260 118533 161 - 523245 AGGGAGAACATTTTGATT---ATCTTAGAGAATCATAAGAGAGCTTCAGT-----AATGAAG-TTTAATATAAAGTAAGATT---GTCTCTGAAGGAAGAAATGGTCCTTTA-----------AA-----------------------------------------------T-------TT----------GGTGTCAGTTTCTG--TTTTCTTACTCATTTCTAAACTTTCTGTCGCTCCAACTGAGT
+i calJac1.Contig1260 C 0 C 0
+s rheMac2.chr4 108552813 135 + 167655696 AGAGA----------------ATCAGAGAGCTTCAGAAATG------------------AAG-TTTAATATAAAGTAAGATT---GTCTCTGAAGGAAGCAATTGTCCTGTT-----------AA-----------------------------------------------T-------TG----------AGTGTCAGGTTCTG--TTTTCTTACTCATATCTAAACTTGCTGTCACTCCAACTGAGA
+q rheMac2.chr4 99999----------------99999999999999999999------------------999-9999999999999999999---999999999999999999999999999-----------99-----------------------------------------------9-------99----------99999999999999--999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s ponAbe2.chr6 16450031 135 - 174210431 AGAGA----------------ATCAGGGAGCTTCAGAAATG------------------AAG-TTTAATATAAAGTAAGATT---GTCTCTGAAGGAAGAAATTGTCCTTTT-----------AA-----------------------------------------------T-------TC----------AGTGTCAGGTTCTG--TTTTCTTACTCGTATCTAAACTTCCTGTCACTCCAACTGAGG
+i ponAbe2.chr6 C 0 C 0
+s panTro2.chr6 16663121 135 - 173908612 AGAGA----------------ATCAGGGAGCTTCAGAAATG------------------AAG-TTTAATATAAAGTAAGATT---GTCTCTGAAGGAAGAAATTGTCCTTTT-----------AA-----------------------------------------------C-------TC----------AGTGTCAGGTTCTG--TTTTCTTACTCATATCTAAACTTCCTGTCACTCCAACTGAGG
+q panTro2.chr6 99999----------------99999999999999999999------------------999-9999999999999999999---999999999999999999999999999-----------99-----------------------------------------------9-------99----------99999999999999--999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16137376 135 - 170899992 AGAGA----------------ATCAGGGAGCTTCAGAAATG------------------AAG-TTTAATATAAAGTAAGATT---GTCTCTGAAGGAAGAAATTGTCCTTTT-----------AA-----------------------------------------------C-------TC----------AGTGTCAGGTTCCG--TTTTCTTACTCATATCTAAACTTCCTGTCACTCCAACTGAGG
+i hg18.chr6 C 0 C 0
+s canFam2.chr1 78293847 138 - 125616256 GAAGA----------AAC---ATGAAGGAACTTTAAAGTTG------------------AAG-TTTGATATAAAGTA----------------------------------------------AT------------------------ACTGTCTCTGAAGTTAAATTGTCT-------TTTGATTTTATGGGCATCGAGTTCTG--TTTTCCCACTCCCAAATAC-CTCTCTCTCATTCCAGCTGAGG
+q canFam2.chr1 99999----------999---99999999999999999999------------------999-99999999999999----------------------------------------------99------------------------999999999999999999999999-------99999999999999999999999999--9999999999999999999-9999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 155884 115 - 219823 AGAGA----------AAC---ATGAAAGAACTTTA------------------------AAA-ATTAATATAAGGTA----------------------------------------------AC-----------------------------------------ACAGTCT-------CTGAAGTTGA--GAAATTGTCTTTTAATTTTTCTCACTCATAAATCT-CTCTTGTCAATTCCATCAGAGG
+q felCat3.scaffold_217398 99999----------999---99999999999999------------------------999-99999999999999----------------------------------------------99-----------------------------------------9999999-------9999999999--99999999999999999999999999999999999-9999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13087037 138 + 24938454 AAAGA----------AAC---ATGAAAGAGCTTTAAAGATG------------------AAA-TTTAACAGAAAGGA----------------------------------------------ATATTGTCTCTCAAGTAAGAAATTGTCCT--------------------T-------TTAATGTTGT--AGTGTTGCGTCG----TTTTCTTTCTCATAGATAC-TTGTCTGTCATTCCAACTGAGG
+q equCab1.chr31 99999----------999---99999999999999999999------------------999-99999999999999----------------------------------------------99999999999999999999999999999--------------------9-------9999999999--999999999999----9999999999999999999-9999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13768619 142 - 95030419 AAGAA----------AAC---AGGAAGGA-CTTTAAAAATG------------------AACTTTTAATATAAAGTAATATT---TTGTCTGAAGTA---------------AGAAATTGTCCAT-----------------------------------------------T-------TTAATTTTGT-GAGTGTGGGGTTCTG--TTTTCTTACTCATCTGCAC-TTCTGTGTCCTTCCAGCTGAGG
+q bosTau3.chr9 99999----------999---99999999-99999999999------------------99999999999999999999999---999999999999---------------9999999999999-----------------------------------------------9-------9999999999-999999999999999--9999999999999999999-9999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 427817 361 - 498454 I
+
+a score=1375410.000000
+s mm9.chr10 3232152 316 + 129993255 CTATGCAAGGATAAGAGAGGACGGGCT-T-GGGGAATTAACAAGGGTGGAGAAAGCTTTGACTTTTGGAAATTGGCATCAAGGAATCAGA--AATAGAATAGAGGAATTAGCTTTTGAAGTCAGACAATCCGTCTCATCCACTT----ACAGA------CTTTGGTCTTGAAGCAAGTTGCTTATTTCCGTCCTG--CAGTTACCTATGACAGGGAAATGATACTGGAATCTACTGCCCAGGCTTCCATTGG-TCGAGCAAGAGCAT--G----TAAGGCCCTTTCTCA----GGAGCAT---------------CTAGATGCCGACTTTTGT---CTTGCTATAACAG---CAGTGCTTATA--C
+s rn4.chr1 230051068 307 - 267910886 CTGTACCAGGATAACAGAGGAAGGGCT-T-GTGGAGTTAACATGGATGTAGAAAGCATTGACTTTTGGAAATTGGCATCAAGGAACCAGA--AATAG--TTGAGGAATTAGCTTTtgaagtcaggcaattcatctcatccactt----ataga------ctttggtcttgaagtaagttgtttatttctgtccta--cagtcacctatgatgtggaaatgatactggaatctactgcccaggcttCCATTGG-TTGAGTGGGAGCGT--G----TAAGGCCCTCTCTC----------------------------TAGATGCCAACTCTTGT---CTTGCTATAACAG---CAGTGCTTTTTGTC
+q rn4.chr1 999999999999999999999999999-9-999999999999999999999999999999999999999999999999999999999999--99999--999999999999999999999999999999999999999999999----99999------999999999999999999999999999999999999--9999999999999999999999999999999999999999999999999999999-99999999999999--9----99999999999999----------------------------99999999999999999---9999999999999---99999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 124772 296 - 169015 CTGTGTCAGGATCAGAGAGGAGAGATT-T-GGGGAATTAGTACTGACTTGGAAGTCTTTGATTTTT-GAAATTAGCATCAAGTAGTTAGATCAATTG------GGACTGAGCTTTTGAAATCTG---------CTTA-CCATTT---------------CTGTGGTC-TGAGGCAAGTGACTTAAGTCTTTGCTACTCAGTTATGTATGAAATGGAGA----AATAG------------AGGCTCATGGTGA-CCAAATGGGAGAAT--G----GAAGACCCTTCTTCAC--TGTAGCCTAGCACAGCA--CGTAATAGACACTGACTC-TAT---CATAAAACAGTAG---CAGTAGTTACT-CC
+q cavPor2.scaffold_284118 999999999999999999999999969-9-999999899999999999998999999999979999-989999889999899998999898997999------998789989999997987979---------7787-696899---------------87969968-79858667779769777779697966767766866686979798675677----96676------------9776776677495-46697699686776--7----7455759659666655--57666665857657575--675745746445465566-654---6458986336575---65657543344-47
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136302 332 - 139458 GT---CCAAGAAAGGAGAGGAGGGACT-T-GGGGAATTAATACGAATTTAGGAATC--TGACTTGTGGAAATTGGCATCAAGTTGACAGA--AGCAT--TTTGGAGCTTGGCTTTTATAGTCCACTAAcctggctctcccactttgccacagagaagctctgtgatg-caaagccaggtctctatctctgctcct--cagctgtctgtggaaaggggataataataggatcaacttcctaggcttactgtga-ttttatgagagtgttgg----tgagactcaccttca---tacagtccagcacacagt-CCTCAGTGATGTCGACTCTCG-------ACAATGCTAA---TAGGGTTTACT-CC
+q oryCun1.scaffold_214769 99---9999999999999999999999-9-99999999999999999999999999--99999999999999999999999999999999--99999--99999999999999999999999999999999999999999999999999999999999999999989-999999999999999999999999999--9999999999999999988999999999999999999999999999999999999-99999999999999999----999999999999999---999989999999999999-999999999999999999999-------9999999999---99999999999-99
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16137511 343 - 170899992 CTGCACCAGGATA--AGAGGAGGGATT-T-GAGGAATTAGCGCGAATTTAGAAGCCTTTGACTTTTGGGAATTTGCATCAAGCAGATAGA--AGCAG--GCGGGGGCTCAGCTTTTGAAGTTGGATCATCCAGCTGTctcactttgccacttatgggatctgtgact-tgaagcaggtgactgacctctccactcctcagttatctatgaaatggggataatactagcatctacttcgaaggcttatggtga-ttaaatgagataat--gtttttaaggccctttcttcg--catagtctggcacacagcatttaagagatgttgactcGTGT-----TCCTGTAGTAG---CAGTACTGACT-CC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16663256 343 - 173908612 CTGCACCAGGATA--AGAGGAGGGATT-T-AAGGAATTAGCACGAATTTAGAAGCCTTTGACTTTTGGGAATTTGCATCAAGCAGATAGA--AGCAG--GCGGGGGCTCAGCTTTTGAAGTTGGATCATCCAGCTGTctcactttgccacttatgagatctgtgact-tgaagcaggtgactgacctctccactcctcagttatctatgaaatggggataataatagcgtctacttcgaaggcttatggtga-ttaaatgagataat--gtttttaaggccctttcttcg--catagtctggcacacagcaTTTAGGAGATGTTGACTCGTGT-----TCCTGTAGTAG---CAGTACTGACT-CC
+q panTro2.chr6 9999999999999--999999999999-9-099999999999999999999999999999999999999999999999999999999999--99999--99999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999--999999999999999999999--99999999999999999999999999999999999999999-----99999999999---99999999999-99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16450166 343 - 174210431 CTGCACCAGGAGA--AGAGGAGGGATT-T-GAGGAATTAGCGCGAATTTAGAAGCCTTTGACTTTTGGGAATTTGCATCAAGCAGATAGA--AGCAG--GCGGgggctcagcttttgaagtcggatcatccagctgtctcactttgccacttacaagatctgtgact-tgaagcaggtgactgacctctccactcctcag-tatctatgaaatggggataataatagcgtctactttgaaggtttatggtgatttaaatgagataat--ggttttaaggccctttcttcg--catagtctggcacacagcatttaagagatgttgactcGTGT-----TCCTGTAGTAG---CAGTACTGACT-CC
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108552948 343 + 167655696 CTGCACCAGGATAAGAGAGGAGGGATT-T-GAGGAATTAGTGCGAATTCAGAAGCCTTTGACTTTTGGAAATTGGCATCAAGCAGATAGA--AGCAG--GCGGGGGCTCGGCTTTTGAAGTCGAATCACCCAGCTATCTCACTTTGCCACTTACAAGATCTGTGACT-TGAAGCAAGTGTCTGACCTCTCTACTTCTCAGTTATCTATGAAGTGGGGATAATAATAGCGTCTACTTCGAAGGCTTATGGTGA-TTACATGAGAGAAT--GTTTTTAAGGCCCTTTCTTCG--CATAGTCTGGCACACAACATTTA--AGATGTTGACTCGTAT-----TCCTGTAGCAG---CGGTACTGACT-CC
+q rheMac2.chr4 999999999999999999999999999-9-999999999999999999999999999999999999999999999999999999999999--99999--99999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999--999999999999999999999--99999999999999999999999--9999999999999999-----99999999999---99999999999-99
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 118694 338 - 523245 CTGCACT-GGATG--AGAGGAGGGATT-T-GCAGAATTAGCACGAATTTAGAAGCCTTTAACTTTTGGAAATTGGCATCAAGCAGATAGA--AGCAG--GCGGGGGCTCAGCTTTTGAAGTCGGATCATCCAGCTGTcctactttgccacttataagatctttgact-tgaagcaggtgactgatctctccactcctcatttacctatgaaatggggataataatagcatcttcttcaaaggcttatggtga-ttaaatgagataat--atttttaaggtccttt----g--tatagtccggcacacagcatttaaaaaatattgACTCACAT-----TCCTATAGTAG---CAGTACTGATT-CC
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 30396 344 - 136255 CAACACCAGGATAAGAGAGGAGGGATT-TGGGGGAATTAGTTCTAATTTAGAAGTCTTTGACTTTTGGAAATTGGCATCGAGTAGACAGA--agcag--ttgggagctctgcttttgaagtcagataatccagctgtcccactttaccacttacaagctctgtgact-tgaagcgaggtactta--tctctgctcctcagttatctatcaaatggggataataatagaatctacctcacagacctatggtga-ttaaatgagataag--gtctgtaaggcccttTCTTGG----TAGTCTAACACTTATCACCCAATGCATGTTGACCCCTGT---AATGCTACGGTAG---CAGTATTGACT-CC
+q otoGar1.scaffold_85251.1-136255 899989999977999999999999789-99999898799869999979999999799999799999989987998899999999999999--99999--99997987999899999999989999999799999987999799998999999799999999999899-9999999999999999--999998999999999999999999999999999999999999699999999999999999999999-99999999999999--999999999779999999999----999999999999999999999999999999999999999---9999999999999---99999999999-99
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 428178 337 - 498454 CTGTGCCAGGATAAGAAAGGAGGGATT-T-GGGGAATTAGCACTAATTTAGAGGTCTTTGACTTTTGGAAATTGCCGTTAAGT-GGTATG--AGCAG--TTGGGGACTCAGCTTTTGAAGTCCCGTAATCCAGCTTTCCCGCTTCACC-CTTCTGAGCTCGGTAACT-TGGAGCAAGGTA------TCTTTGCT--TCAGTTATCTATGAAATGGGGATAATAATAGAATCTACTCTATAGGCTTACTGCAA-CTAAATGAGAATGT--GTTTGTAAGGCCTTTGCTTAG--TATAGTCTAGCACACAGCACTTGATGGATGCTGATGCTTGT---AATACTGTAGTAG---CAGCATTTATT-CC
+q tupBel1.scaffold_114895.1-498454 434327445334434483535586568-4-68853354423256546965655655695645698665797566495657656-647647--66775--5779986677655799766645796667559775479689867777679-699667766788468696-699768976776------68996879--78979867997589986599868789899799799979999999968996997894-99899789999799--999999999569999999989--99998999967997997999999999999989999999999---9999999999998---99999999999-99
+i tupBel1.scaffold_114895.1-498454 I 361 C 0
+s canFam2.chr1 78293985 344 - 125616256 CTGTGCCAGGATAGGAGGGGAGCGATT-T-CAGGAATTAGTACTAATTTGGAAGTCTTTGACTTTTGTCAATTGGC----AGGAGTCAGA--AACAG--TTGGGGTCTCAGCTTTTGAAGTCCGATAATCCAGCTGccccactttaccacttagaggctttgtgact-tgaagcaagttacttatctctctgctccccagttatctgcaaaatgagggtaataatagaatctccttcataggcttatgggga-ttaaaggagataat--gtttgtaaggccctt----agtttacagtctaccacacagcacttaatagatagtgacttttgttGGAATGCTCTAGTAG---TAGTGTTTATA-CC
+q canFam2.chr1 999999999999999999999999999-9-9999999999999999999999999999999999999999999999----9999999999--99999--99999999999999999999999999999999999999999999999998898888999999999999-999999999999999999999999999999899888889999999999999999999999988899999999999999999999-99999999999999--999999999999999----9999999999999999999999999999999999999999999999999999999999999---99999999999-99
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 155999 345 - 219823 CTGTGCCAGGATATGAGTGGAGAGATTGT-GGGGAATTAGGGCTAATTTAGAAGCCTTTGACTTTTGGAAATCGGC----TGTAGTTAGA--agcag--ctgggggctcagcttttgaggtcagataatccagctgtccccctttaccacttaca-actttgtgact-tgaaggaagttacttatctctctgctccccagttatctacgaaatgcggataataatagaatccacttcataggcttacggggg-ttaaaggagataac--gttcataaggccctt----gg--tatcgggtaccacacagcatttaatagatcttgacttttgttGGAATATTCTAGTAATACTAGTGTGTACA-CC
+q felCat3.scaffold_217398 99999999999999999999999999999-9999999999999999999999999999999999999999999999----9999999999--99999--99999999999999999999999999999999999999999999999999999999-99999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999--999999999999999----99--99999999999999999999999999999999999999999999999999999999999999999999999-99
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13087175 341 + 24938454 CTGTGCCAAGATAAGAGTGGAGAGATT-T-CAGGAATTAGTACTAATTTAGAAGTCTTTGACTTCTGGAAATTGATATCGAGTATTCAGA--ACCAG--TTGGGGGCTCAGCTTTTGAAGTC--ATAATCCAGCTGTCCCTctttactgcttctaagctctgtgact-tgaagcaagttacttatctcactctttcccagttatctatgaaatgaggataataatagaagctacttcctaggcttatgggga-ttaaaggagataat--gtttgtaaggccctt----ag--tatggtctagcacacagcacttcatagatgttgACTCTCGTTGAAATACTCTAG------GAGTGTTTACA-CC
+q equCab1.chr31 999999999999999990999999999-9-999999999999999999999999999999999999999999999999999999999999--99999--99999999999999999999999--9999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999--999999999999999----99--999999999999999999999999999999999999999999999999999999------99999999999-99
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13768761 339 - 95030419 TCATGCCAGGGTAAGAATGGAGGGATT-T-TAGGAATTAGTGTTAATTTAGAAGTCGCTGACCTTTGGAAGCTGGCATCCAGTAGTTAGA--AGCAG--TTGAGGGCTCAGCTTTTAAAGTTAGATaatccagctgcctcactgaagcatttacaagctctgtgaca-caaaacaagttacttatctctctgctcctcagttatctatgaagtggggataaaaatagaatctcattcataggcttacgggaa-ttaaatgagatagt--gttcctaaggcctgt----ag--gatcctccagcacccagcacttaggagatgtccaCTCTTGTTGGAACA--CAAGTAG---CAGTGTTT------
+q bosTau3.chr9 999999999999999999999999999-9-999999999999999999999999999999999999999999999999999999999999--99999--99999999999999999999999999999999999999999999999999999999999999999999-998889999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999--999999999999999----99--999999999999999999999999999999999999999999999999--9999999---99999999------
+i bosTau3.chr9 C 0 I 506
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+
+a score=639409.000000
+s mm9.chr10 3232468 153 + 129993255 ATCTCAGCCTCTGG-TAAATGAGGCATT-CAGGGCCAGCCAACAGGGAATTACTCACCGTTTTGTC----CATAACCCACAAA-ATAATACCCTTGT-CCATTCTC---AGA-GGCTGCTTAGGAGTCTGTGGCTTG-GCAGTGTGGTTGTC-ACTAGTACATATC--G-
+s rn4.chr1 230051375 153 - 267910886 ATCTCATTCTCTGG-TAAATGAGGCATT-CAGGGCCAGCCAACAGGGAATTACTCACCGTTTTGTC----TATAACCCACAAA-ATAATACCCTTGT-CCATTCTC---AGA-GGCTGCCGTGGAGTCTGTGGCTTG-GCAGTGTGGTTGTC-ACTGGTACATAAC--A-
+q rn4.chr1 99999999999999-9999999999999-9999999999999999999999999999999999999----9999999999999-9999999999999-99999999---999-999999999999999999999999-99999999999999-9999999999999--9-
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 125068 140 - 169015 ACTTAGACCTCTAC-TAAATAAAGGCTT-CTAGAACTGGTCACAGGAAGCTGCACATTCTTCTGTC----CACAATCAGCAAATATA-----------CCACCGTC---AAA-GAATGCTGTGGAATCTGTGGCCTG-GCAATTTGGTTTAC-TGTTGTAAAT-------
+q cavPor2.scaffold_284118 33477375313232-2585458522321-1222252234113013123221111212111122224----31224333422531012-----------31113212---331-114231111221112121121212-15242121027422-2131233613-------
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136634 154 - 139458 ATCCTCACCTCTCA-GGCTAAAAGCATC---AGAATGGTCAACAGGGATCTTCTCATTCTTTTGTCTGTATGTATCCAACAAA-ATGGTCCCACTG--TCACTCTCCCAGAA-GGCTTCTGTGGAGTC--TGACCTG-GAAATAC-ATTTTT-ACTGGTACAAATT--T-
+q oryCun1.scaffold_214769 89999999999999-9999999999999---9999999999999999899999999999999999999999999999999999-999999999999--99999999999999-999999999999999--9999999-9999999-999999-9999999999999--9-
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16137854 154 - 170899992 ATCTCAGCCTCTAG-TGAATAAGGTATT-CAGAGCTGGCCAACAGGAAATTGCTCATTCTTTTGTC----CATAAGCAGCAAA-ATAATGCCAGTGTGACACTGTC---AGAGGGCTGCAGTGTGGTCAGTGGCCTA-GAGATGCAGCTTTT-ACTGTTAGAAAAC----
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16663599 154 - 173908612 ATCTCAGCCTCTAG-TGAATAAGGTATT-CAGAGCTGGCCAACAGGAAATTGCTCATTCTTTTGTC----CATAAGCAGCAAA-ATAATGCCAGTGTGACACTGTC---AGAGGGCTGCAGTGTGGTCAGTGGCCTA-GAGATGCAGCTTTT-ACTGTTAGAAAAC----
+q panTro2.chr6 99999999999999-9999999999999-9999999999999999999999999999999999999----9999999999999-9999999999999999999999---9999999999999999999999999999-99999999999999-9999999999999----
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16450509 154 - 174210431 ATCTCAGCCTCTAG-TGAATAAGGTATT-CAGAGCTGGCCAACAGGAAATTGCTCATTCTTTTGTC----CATAAGCAGCAAA-ATAATGCCAGTGTGACACTGTC---AGAGGGCTGCAGTGTGGTCAGTGGCCTA-GAGATGCAGTTTTT-ACTGTTAGAAAAC----
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108553291 154 + 167655696 ACCTCAGCCTCTAG-TGAAAAAGGTATT-CAGAGCCAGCTAACAGGAAATTGCTCATTCTTTTGTC----CATAAGCAGCAAA-ATAATGCCAGTGTGACACTGTC---AGAGGGCTGCAGTGTGGTCAGTGGCCTA-GAGATGCAGTTTTT-ACTGTTAGAAATC----
+q rheMac2.chr4 99999999999999-9999999999999-9999999999999999999999999999999999999----9999999999999-9999999999999999999999---9999999999999999999999999999-99999999999999-9999999999999----
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 119032 153 - 523245 ATTGCAGCCTCTAG-TGAATAACATATT-CATAACTGGCCAACAGGAAATTGCTCATTCCTTTGTC----CATAAGCGGCAAA-ATCATGCCATTGTGA-ACTGTC---CAAGGGCTGCAATGTGGTCAGTGGCCTA-GAGATGTAGTTTTT-ACTGTTAGAAATC----
+i calJac1.Contig1260 C 0 I 304
+s otoGar1.scaffold_85251.1-136255 30740 153 - 136255 CTCTTAACCGCTAG-TAAATAAGGCATT-CAGAGCCAGCCAACAGGGAATCGATCATTCTTTTGTC----CATAACCAGCAAA-GTAATGCTACTGTCCCATTGTC---AAAAGGCCTCTGTGGAGTC--TGGTCTG-GACATGTGGTTTTT-ACTGGTACAGATCT---
+q otoGar1.scaffold_85251.1-136255 99999999999999-9999999999999-9999999999999999999999999989999999999----9999999999999-9999999999988999999999---9999999999999999999--9999999-99999999999999-99999999999999---
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 428515 147 - 498454 ATCTTGACCTTCAA-TACATAATATATT-CAGAGCTGGTCAACAGAGGATTGCTCATTCTTTTGTC----CATAATCA-CAAA-ATAATGCTA---TCACGTTATC---AGACGTCTTCTGTGGAAACTGTGGCCTG-GAAATGGGGTT-----CTGGTACAAATC-T--
+q tupBel1.scaffold_114895.1-498454 99999979999999-9999999999999-9999999999999999999999999999999999999----99999999-9999-999999999---9999999999---9999999999999999999999999999-99999999999-----999999999999-9--
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78294329 155 - 125616256 ATCTTAACCCCCAG-TAAATAAGACATT-CAGAGCTGGTCTACAGAGAATTGCTCATTCTTTTGTC----CAAAAGCAGCAAA-GTAATGCCTTTGTCACACTGTC---AGAAGGCTGCTGTGCTGTGTGTGACCTG-GAAATGTGGTGTTT-GTTGGTACAAATC---C
+q canFam2.chr1 99999999999999-9999999999999-9999999999999999999999999999999999999----9999999999999-9999999999999999999999---9999999999999999999999999999-99999999999999-9999999999999---9
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 156344 157 - 219823 ATCTTAACCTCTAG-TAAATAAGACATTCCAGAGCTGGTCGATGAGGAATTGCTCATTCTTTTGTC----CACAAACAGCAAA-AGAATGCCTTTGTCACACTGTC---AGAAAGCCGCTGTGCTGTGTGTAACCTG-TAAGTGTGGTTTTTCACTGGTACGCATC---T
+q felCat3.scaffold_217398 99999999999999-999999999999999999999999999999999999999999999999999----9999999999999-9999999999999999999999---9999999999999999999999999999-9999999999999999999999999999---9
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13087516 156 + 24938454 ATCTTAACCTCTAG-TAAATATGACCTT-CGGAGCCAGTCAGCAGAGAATTGCTCATTCTTTTGTC----CATAACCAGCAAA-ATAATACCATTGTCACACTGTC---AGAAGACTGCTGTGTAGTCTGTGGCCTGAAAAATGTGGTTTTT-ACTGGCACACATC---T
+q equCab1.chr31 99999999999999-9999999999999-9999999999999999999999999999999999999----9999999999999-9999999999999999999999---9999999999999999999999999999999999999999999-9999999999999---9
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13769606 144 - 95030419 ATCCTAACCTCTAGTTAAATAAGGCATT-CAGAGCTGGTCAATAGG------------CTTTTGTC----CATAACCAGCAAA-ATTATGCTATGGCCACACTGTT---AGAAGGCTGCTAGGTAGTCTGCAGCCTG-GAAATGTGGCTTTT-ACTGGTACAGATC---T
+q bosTau3.chr9 9999999999999999999999999999-99999999999999999------------99999999----9999999999999-9999999999999999999999---9999999999999999999999999999-99999999999999-9999999999999---9
+i bosTau3.chr9 I 506 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+
+a score=150522.000000
+s mm9.chr10 3232621 29 + 129993255 TTGTCACTCAGATG-CTTGGCTGAGTCAGA
+s rn4.chr1 230051528 29 - 267910886 TTGTCACTCAGATG-CTTGGCTGAGTCAGA
+q rn4.chr1 99999999999999-999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 125208 27 - 169015 TCAGTACTCAGATA-TTTG--TGAGTCAGA
+q cavPor2.scaffold_284118 21213113222211-2412--112222243
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136788 30 - 139458 CAGTTACTCAAATGTTTTGGCTGAGTTGGA
+q oryCun1.scaffold_214769 999999999999999999999999998999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16138008 27 - 170899992 ---TCACTCGGATGTTTTAGCCGATTCAGA
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16663753 27 - 173908612 ---TCACTCGGATGTTTTAGCCGATTCAGA
+q panTro2.chr6 ---999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16450663 27 - 174210431 ---TCACTCGGATGTTTTAGCCAAGTCAGA
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108553445 27 + 167655696 ---TCACTCAGATGTTTTGGCTGAGTCAGA
+q rheMac2.chr4 ---999999999999999999999999999
+i rheMac2.chr4 C 0 I 360
+s calJac1.Contig1260 119489 30 - 523245 TTCTCACTTAGATGTTTTGGCTAAGTCAGA
+i calJac1.Contig1260 I 304 C 0
+s otoGar1.scaffold_85251.1-136255 30893 28 - 136255 CAATTACTC--ATGTTTTGGTTGAGTCAGA
+q otoGar1.scaffold_85251.1-136255 999999999--9999999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 428662 30 - 498454 CAATTACTCATATATTTTGGATGAGTCAGA
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 17
+s canFam2.chr1 78294484 30 - 125616256 CAGTTGCTCAGATGTGTTAGCTGAGTCAGA
+q canFam2.chr1 999999999999999999999999999999
+i canFam2.chr1 C 0 I 7
+s felCat3.scaffold_217398 156501 30 - 219823 CAGTTGCTCAGAAGTTTTGGCTGAGTCAGA
+q felCat3.scaffold_217398 999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 7
+s equCab1.chr31 13087672 30 + 24938454 CCATTACTCAGAAGTTCTGGCTGAGTCAGA
+q equCab1.chr31 999999999999999999999999999999
+i equCab1.chr31 C 0 I 10
+s bosTau3.chr9 13769750 30 - 95030419 CAATTATTCAGAAGTTTTGGATGGGTCAAA
+q bosTau3.chr9 999999999999999999999999999999
+i bosTau3.chr9 C 0 I 10
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+
+a score=11708.000000
+s mm9.chr10 3232650 36 + 129993255 TGCTTGGCTGAG--------TCA----TGATTGGACACCC---TCCGAACA
+s rn4.chr1 230051557 44 - 267910886 ACCCAAGAAAGGGTGACTATCCA----TGGTTGGACACCC---TCTGAACA
+q rn4.chr1 99999999999999999999999----9999999999999---99999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 125235 42 - 169015 ATCCAAAAATGA-TGAAAGTCTA----TGATC-GACATTT---GCAGAATA
+q cavPor2.scaffold_284118 212226764243-2246323243----25210-2132363---33363123
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136818 30 - 139458 ACCTAAGAGAAG--------ACA----------AACATCT---GCCTGTGA
+q oryCun1.scaffold_214769 999999999999--------999----------9999999---99999999
+i oryCun1.scaffold_214769 C 0 C 0
+s hg18.chr6 16138035 36 - 170899992 ACTCAAGAAATGACAAAAGTCTG----TGATTGGACACAC-----------
+i hg18.chr6 C 0 I 295
+s panTro2.chr6 16663780 36 - 173908612 ACTCAAGAAATGACAAAAGTCTG----TGATTGGACACAC-----------
+q panTro2.chr6 99999999999999999999999----9999999999999-----------
+i panTro2.chr6 C 0 I 302
+s ponAbe2.chr6 16450690 37 - 174210431 GCTCAAGAAATGACAAAAGTCTA----TGATTGGACACACt----------
+i ponAbe2.chr6 C 0 I 3212
+s calJac1.Contig1260 119519 46 - 523245 ACTCAAGAAATGACAAAAGTCTA----TGATTGGACACAC-ATTCAGAATA
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 30921 44 - 136255 ACTCAAGAAATGAC--AAGTCTA----TGACTGGACACAC-ACTCAGAATA
+q otoGar1.scaffold_85251.1-136255 99999999999999--9999999----9999999999999-9999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 428709 33 - 498454 AGTC-------------TGTCTA----TGATTAGACACAT-ACTCAGACTA
+q tupBel1.scaffold_114895.1-498454 9999-------------999999----9999999999999-9999999999
+i tupBel1.scaffold_114895.1-498454 I 17 C 0
+s canFam2.chr1 78294521 34 - 125616256 ----------CGATTAAAGCTTG--TCTGGTTGG--ACAT---CCAGAATC
+q canFam2.chr1 ----------9999999999999--999999999--9999---99999999
+i canFam2.chr1 I 7 C 0
+s felCat3.scaffold_217398 156538 38 - 219823 ----------TGATAAAAGCCTGTCTCTGATGGGGCACAT---CCAGAACC
+q felCat3.scaffold_217398 ----------999999999999999999999999999999---99999999
+i felCat3.scaffold_217398 I 7 C 0
+s equCab1.chr31 13087712 38 + 24938454 ----------TGATAAAAGTCTGTCTATGATTGGACACAC---TCAGAATA
+q equCab1.chr31 ----------999999999999999999999999999999---99999999
+i equCab1.chr31 I 10 C 0
+s bosTau3.chr9 13769790 34 - 95030419 ----------TGATAAAAGTTTA----TGATTGGATGCAC---GTTGAATA
+q bosTau3.chr9 ----------9999999999999----9999999999999---99999999
+i bosTau3.chr9 I 10 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108553472 360 + 167655696 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+
+a score=32068.000000
+s mm9.chr10 3232686 25 + 129993255 CTGGAGTCCTG-TTTG-AACATGGGCT
+s rn4.chr1 230051601 25 - 267910886 CTGGAGTCCTG-TTTG-AATATGGGTT
+q rn4.chr1 99999999999-9999-9999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 125277 25 - 169015 ATAGAGTTTTA-TTTC-AACATTGGGT
+q cavPor2.scaffold_284118 11113356753-3745-3364688976
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136848 19 - 139458 TTGAAGG--TA-CTTG-GAT----GCT
+q oryCun1.scaffold_214769 9899999--99-9969-999----999
+i oryCun1.scaffold_214769 C 0 C 0
+s panTro2.chr6 16664118 25 - 173908612 cTAGAGTATTC-TTTT-AATATTGACT
+q panTro2.chr6 99999999999-9999-9999999999
+i panTro2.chr6 I 302 C 0
+s hg18.chr6 16138366 25 - 170899992 cTAGAGTATTC-TTTC-AATATTGACT
+i hg18.chr6 I 295 C 0
+s rheMac2.chr4 108553832 24 + 167655696 -TAGAGTATTC-TTTT-AATATTGACT
+q rheMac2.chr4 -9999999999-9999-9999999999
+i rheMac2.chr4 I 360 C 0
+s calJac1.Contig1260 119565 24 - 523245 ATACAGTATT--TTTT-AATATGGATT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 30965 25 - 136255 ACAGAGTATTG-TTTT-CACATTGTCT
+q otoGar1.scaffold_85251.1-136255 99988999979-8999-9999998998
+i otoGar1.scaffold_85251.1-136255 C 0 I 2238
+s tupBel1.scaffold_114895.1-498454 428742 24 - 498454 --AAAGAGTTCATCTT-TACATTGGCT
+q tupBel1.scaffold_114895.1-498454 --99999999999999-9999999999
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s canFam2.chr1 78294555 20 - 125616256 AC--CATATCA-C----AGCACTGGCT
+q canFam2.chr1 99--9999999-9----9999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 156576 24 - 219823 AC--AGTCTGG-CTTTAACAACCAGCT
+q felCat3.scaffold_217398 99--9999999-999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13087750 25 + 24938454 ATAGAGTATTA-TTTT-AACATTGGCT
+q equCab1.chr31 99999999999-9999-9999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13769824 25 - 95030419 ATAGAGTATTA-TTTT-AATATTGGCT
+q bosTau3.chr9 99999999999-9999-9999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=47419.000000
+s mm9.chr10 3232711 48 + 129993255 TGGTTTAGCCTAAGTTTCTCTT--------------------------C------------CC----------CCACTTCC---AAATTCCTTCATCAA--
+s rn4.chr1 230051626 32 - 267910886 TGGCTTATCTCTGGTTTATCTT--------------------------C------------CC----------CCTCCCT---------------------
+q rn4.chr1 9999999999999999999999--------------------------9------------99----------9999999---------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 125302 52 - 169015 TGACTTATCATTAGTATAACTT--------------------------CTATCTTTACTGTCC----------CCACTTT---------CCttcagc----
+q cavPor2.scaffold_284118 7743999955899989999999--------------------------777999986534448----------8644899---------99998598----
+i cavPor2.scaffold_284118 C 0 C 0
+s oryCun1.scaffold_214769 136867 51 - 139458 TGATTTATCATCAGCATGTCTT--------------------------C------------TC----------TAATCCCCTAAAACTTCCTTCAACAA--
+q oryCun1.scaffold_214769 8899999999893223488989--------------------------9------------99----------79459999789977759933899899--
+i oryCun1.scaffold_214769 C 0 N 0
+s panTro2.chr6 16664143 54 - 173908612 TGATTTGTCATCATCATATCTT--------------------------T------------TCTAT-------TAAATCCCTTCCACTTCCTTCAATGA--
+q panTro2.chr6 9999999999999999999999--------------------------9------------99999-------99988899999999999999999999--
+i panTro2.chr6 C 0 I 2
+s hg18.chr6 16138391 54 - 170899992 TGATTTGTCATCATCATATCTT--------------------------T------------TCTAT-------TAAATCCCTTCCACTTCCTTCAATGA--
+i hg18.chr6 C 0 I 2
+s rheMac2.chr4 108553856 54 + 167655696 TGATTTGTCATCAGCATATCTT--------------------------T------------TCTAT-------TAAATCCCTCCCATTACCTTCAACGA--
+q rheMac2.chr4 9999999999999999999999--------------------------9------------99999-------99999999999999999999999999--
+i rheMac2.chr4 C 0 I 2
+s calJac1.Contig1260 119589 52 - 523245 TGATTTTTCATCAGCATATCCT--------------------------C------------TC--T-------TAAATCCCTTCCAGTTCCTTCAACAA--
+i calJac1.Contig1260 C 0 I 2
+s tupBel1.scaffold_114895.1-498454 428766 49 - 498454 TGCTTTATCATCAGTCTATTTT--------------------------G------------TCTCT-------TGAAT-----CAAAAACTTTCAACAA--
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999--------------------------9------------99999-------99999-----9999999999999999--
+i tupBel1.scaffold_114895.1-498454 C 0 I 2
+s canFam2.chr1 78294575 82 - 125616256 TGACTTCTTGCCGACATGTCTTGACTTCACCTGTCGCCACGGCCACCCC------------GCCCC-------CTCCCGCCCCGAGCTTTCTTTAGCTAAA
+q canFam2.chr1 9999999999999999999999999999999999999999999999999------------99999-------9999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 156600 56 - 219823 TGACTCATCACCAACATGCCTT--------------------------C------------TCTCT-------TTACTTCCCGCAGCTTTCTTCAGCAAAA
+q felCat3.scaffold_217398 9999999999999999999999--------------------------9------------99999-------9999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13087775 56 + 24938454 TGATTTGTCATCAGCATGTCTT--------------------------C------------TCTCT-------TTAATCCCCTCAACTTTCTTCAACAAAA
+q equCab1.chr31 9999999999999999999999--------------------------9------------99999-------9999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13769849 60 - 95030419 TGATTTAT---CAGCATATTTT--------------------------C------------TCTTTAACCGCACCTCCCCCCCCACCTTTCTTCAACAGAA
+q bosTau3.chr9 99999999---99999999999--------------------------9------------9999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=202697.000000
+s mm9.chr10 3232759 102 + 129993255 TTATAGATGAAAACATGGGAAATATGAGCC-T-GGTTCCCAGC-CCTAG-AGACTGTAAT-TGCTTTTGCTACCCA------TCTCTGTCTTAAAGGGGTGC--CCCAAACTCAT
+s rn4.chr1 230051658 105 - 267910886 ---TAGATGAAAACACAGGaaatctgagtc-t-ggttcccagc-cctag-agattctaat-tGCTTTTGCCACCCATCTCTCTCTCTCTCTTAAAGGGGCAC--CCCAAACTCAT
+q rn4.chr1 ---999999999999999999999999999-9-9999999999-99999-9999999999-99999999999999999999999999999999999999999--99999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 125354 99 - 169015 ---aaaatgaaaac-----aaagctgaaCG-TGGGTTCCCATCTCCTAGTGGACTGAAAGATATTTTTACCCTTTA------TCCTTGTCTTAAAGTGGCATG-CCAAAACTCAT
+q cavPor2.scaffold_284118 ---69999999997-----69999999979-599899999699999999999999999999999999999999999------999999999999999999999-99699999989
+i cavPor2.scaffold_284118 C 0 I 1348
+s panTro2.chr6 16664199 105 - 173908612 TCGTATATGAAAACAAAGGGAATCGGAGCA-T-TTTGCCCACCTCCTAGTTGGCTG-AAG-CATTTTTGCCTCCCA------TTCCCATCTTGAAGTGGTATTCCTCAAACTCGT
+q panTro2.chr6 999999999999999999999999999999-9-99999999999999999999999-999-999999999999999------999999999999999999999999999999999
+i panTro2.chr6 I 2 C 0
+s hg18.chr6 16138447 105 - 170899992 TCGTATATGAAAACAAAGGGAATCGGAGCA-T-TTTGCCCACCTCCTAGTTGGCTG-AAT-TATTTTTGCCTCCCA------TTCCCATCTTGAAGTGGTATTCCTCAAACTCGT
+i hg18.chr6 I 2 C 0
+s rheMac2.chr4 108553912 106 + 167655696 TGATATATGAAAACAAAGGGAATCAGAGCATT-TTTGCCCACCTCCTAGTTGGCTG-AGG-CATTTTTGCCTCCCA------TCCCCATCTTGAAGTGGTATTTCTCAAACTCGT
+q rheMac2.chr4 99999999999999999999999999999999-99999999999999999999999-999-999999999999999------999999999999999999999999999999999
+i rheMac2.chr4 I 2 C 0
+s calJac1.Contig1260 119643 105 - 523245 TGATATATGAAAACAAAGAAAATCAGAGCA-T-TTCGCCCCCATCCTAGTTGGCTG-AAG-CATTTTTGCCTCCCA------GCCCCATCTCAAAGTGGTAGTCCTCAAATTCGT
+i calJac1.Contig1260 I 2 C 0
+s tupBel1.scaffold_114895.1-498454 428817 81 - 498454 TGATACATGAAAACAAAGGAAATCTAAGTG-T-TTTCCCTATCTCCTAGATGGCTG-AAG-GA-CTTTGCTTCTCA------TCTTTCTCTT-----------------------
+q tupBel1.scaffold_114895.1-498454 999999999999999999999999999999-9-99999999999999999999999-999-99-999999999999------9999999999-----------------------
+i tupBel1.scaffold_114895.1-498454 I 2 I 9385
+s canFam2.chr1 78294657 100 - 125616256 TGATGTAGGAAACCA----AAATCTGAGCA-T--TGTCCCATCTCCTGTTTGGCTG-AAT-GACTTTTGCCTCTCA------AGCTCGGTTTGAAGTGGTACCACCCACACTTAT
+q canFam2.chr1 999999999999999----99999999999-9--9999999999999999999999-999-999999999999999------999999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 156656 98 - 219823 CTGTGTGGGAAAACA----AAATCTGTGCA-T--TGGCCCGTGTCCTGTTCGACTG-AAT-GACTTCCGCCTCTCA------TCCCCAGTTTCAAGTGGTACC-CCCAAAC-TAT
+q felCat3.scaffold_217398 999999999999999----99999999999-9--9999999999999999999999-999-999999999999999------999999999999999999999-9999999-999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13087831 104 + 24938454 TGATGTATGAGGACAAAGGAAATCTGAGCA-T-CTTCCCCATCTCCTATTTGGCTG-AGT-GACTTCTGCCTCCTG------TCCCCGGCTTGAAGTGGTACC-CCCGAACTTAC
+q equCab1.chr31 999999999999999999999999999999-9-99999999999999999999999-999-999999999999999------999999999999999999999-99999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13769909 101 - 95030419 TAATGTATAAAATAA-AGGAAATCTGAGCA-T--TTCCCCATCTCCTAGTTGACTG-AAT-GACTTTTGCCTCCCA------TCCCTGGTTTGAAGCAGCAC--CCTAAATTTAT
+q bosTau3.chr9 999999999999999-99999999999999-9--9999999999999999999999-999-999999999999999------99999999999999999999--99999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=10951.000000
+s mm9.chr10 3232861 21 + 129993255 TTTCCA--------------------AAA------------------------------------------------------------------------------------------GGGATGATGTAG
+s rn4.chr1 230051763 21 - 267910886 TCTCTA--------------------AAA------------------------------------------------------------------------------------------GGAATGATATGG
+q rn4.chr1 999999--------------------999------------------------------------------------------------------------------------------999999999999
+i rn4.chr1 C 0 C 0
+s panTro2.chr6 16664304 40 - 173908612 -TTCTATGTTTCCTGTGGTTTTAAATAAA------------------------------------------------------------------------------------------GGAATAATGTAG
+q panTro2.chr6 -9999999999999999999999999999------------------------------------------------------------------------------------------999999999999
+i panTro2.chr6 C 0 I 140
+s hg18.chr6 16138552 40 - 170899992 -TTCTATGTTTCCTGTGGTTTTAAATAAA------------------------------------------------------------------------------------------GGAATAATGTAG
+i hg18.chr6 C 0 I 146
+s rheMac2.chr4 108554018 40 + 167655696 -TTCTATGTTTCCTTTGGTTTTAAATAAA------------------------------------------------------------------------------------------AGAATAATGTAG
+q rheMac2.chr4 -9999999999999999999999999999------------------------------------------------------------------------------------------999999999999
+i rheMac2.chr4 C 0 I 140
+s calJac1.Contig1260 119748 40 - 523245 -TTCTGTGATTCCTGTGGTTTTAAGTAAA------------------------------------------------------------------------------------------GGAATAATGTAG
+i calJac1.Contig1260 C 0 I 121
+s canFam2.chr1 78294757 38 - 125616256 -TTC--TGTTTCATATGGTTAGGAAAATA------------------------------------------------------------------------------------------GGAGTCATGGAG
+q canFam2.chr1 -999--99999999999999999999999------------------------------------------------------------------------------------------999999999999
+i canFam2.chr1 C 0 I 143
+s felCat3.scaffold_217398 156754 40 - 219823 -TTCTGTGTCTCATGTGGTTAGAAGAAAA------------------------------------------------------------------------------------------GGAATCATGTAG
+q felCat3.scaffold_217398 -9999999999999999999999999999------------------------------------------------------------------------------------------999999999999
+i felCat3.scaffold_217398 C 0 I 138
+s equCab1.chr31 13087935 129 + 24938454 -TTCTGTGTGTCATATAGTTAGGAAAAAAGGAAACATGGAGAGTGGTACCTATTTTGAAAATTCTCCTGAAAAGGAACTCTTCCATAATTGTAAAACTAACAGATTGCGTTGCCTTTGTGGAAGC-TGAAG
+q equCab1.chr31 -9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999
+i equCab1.chr31 C 0 I 51
+s bosTau3.chr9 13770010 25 - 95030419 -TTCTGGGTTTCATATAATTAGAAAA---------------------------------------------------------------------------------------------------------
+q bosTau3.chr9 -9999999999999999999999999---------------------------------------------------------------------------------------------------------
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 125453 1348 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=58690.000000
+s mm9.chr10 3232882 70 + 129993255 AAGGCAAATGGGATAAG--ACCATGGGGCCAATAAA-GGATCTGAACAATGGTTGTTGGTCTGAGTTC---------TTTTG--
+s rn4.chr1 230051784 67 - 267910886 AAAGCAAACGGGAAAAGAAACCACAGGGCCAATAAA-GGATCTGAAGAATGGTTGTTGACCTGGGTTC----------------
+q rn4.chr1 999999999999999999999999999999999999-9999999999999999999999999999999----------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16138738 82 - 170899992 AAGTGAAAAGGAAAGAGAAGCTATGGGAGAGACAAAGGGAAGTAAAAAATGGTTGTTCGGCTCAGCATAACAATCACTTTTG--
+i hg18.chr6 I 146 C 0
+s panTro2.chr6 16664484 82 - 173908612 AAGTGAAAAGGAAAGAGAAGCTATGGGAGAGACAAAGGGAAGTAAAAAATGGTTGTTCGGCTCAGCATAACAATCACTTTTG--
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999999999999999999999999--
+i panTro2.chr6 I 140 C 0
+s rheMac2.chr4 108554198 82 + 167655696 AAGTGAAAAGGAAAGAGAAACTATGGGAGAGACAAAGGGAAGTGAAAAATGGTTGTTCGGCTCAGCATAACAATCACTTTTG--
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999999999999999999999999--
+i rheMac2.chr4 I 140 C 0
+s calJac1.Contig1260 119909 82 - 523245 AAGTGAAAAGGAAAGAGAAACTATGGGAGAGACAAAGGGAAGTAAATGATAGTTGTTAGACTCAGCATAATAACCATTTTCG--
+i calJac1.Contig1260 I 121 C 0
+s bosTau3.chr9 13770035 44 - 95030419 ----------AAAAAGGGAATCATG-----------------TGGAA--TGATTTCTGTGTTGAAG-----------TCTCATG
+q bosTau3.chr9 ----------999999999999999-----------------99999--99999999999999999-----------9999999
+i bosTau3.chr9 C 0 I 283
+s equCab1.chr31 13088115 69 + 24938454 --GAAATTGGGAAAGAGAAACTACGAGAGGGACAAAGGGAACTGGAAAATGATTGTTAGTCTTGGC-----------TTTCA--
+q equCab1.chr31 --9999999999999999990999999999999999999999999999999999999999999999-----------99999--
+i equCab1.chr31 I 51 C 0
+s felCat3.scaffold_217398 156932 56 - 219823 --------------GAGAAACCGTGGGAGGGACACCAGG-GCTGGAAGATGATCTTTAGGCCTGGC-----------TTTCA--
+q felCat3.scaffold_217398 --------------9999999999999999999999999-99999999999999999999999999-----------99999--
+i felCat3.scaffold_217398 I 138 C 0
+s canFam2.chr1 78294938 68 - 125616256 --TAACCAGGGAAAGAGAACCTGTGGGAGGGACGAGGTG-GCTGGAAGGTGAGCATTAGGCTCGGC-----------TTTCA--
+q canFam2.chr1 --9999999999999999999999999999999999999-99999999999999999999999999-----------99999--
+i canFam2.chr1 I 143 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 125453 1348 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=192153.000000
+s mm9.chr10 3232952 207 + 129993255 TTTGGTTTGCTGGGCTCTGGGTGATGCTCAAGAATCTGGGC---TGT--GCCATTTCCATCACCAT----------GATAGAACACTCAGAAGCTTAGCTAATACAGAAGCTGGGCCCTTC--TGTTGAATCGGGAAGGACTATTGGAAATGGCAACTCC----------CTACAAATC--AGTTTAATTATCTGTGCCACTAGGC------AGGGTGTGGCTGT---------ACTTTTTATGGTACTGT-----------
+s rn4.chr1 230051851 212 - 267910886 TTTGGTTTGCTGAGCTCTGTGTGATTCTCAAG--TCTGGACA--TAT--GCAGTTTCAACCATCCT----------GAGAGAACACTCAGAAGCTTAGCGAGTACAGAAACTGGGCCCTTC--TGTGGACTCCAGAAGGACTTTTGGGAATGTTGACTTC----------CTGCAAATC--AGTTTAGTTATCTGTGCCACTAGACCAGGCAGGGTTGTGGCTAT---------CTTTTTTATGGTAATTT-----------
+q rn4.chr1 99999999999999999999999999999999--99999999--999--99999999999999999----------999999999999999999999999999999999999999999999--9999999999999999999999999999999999999----------999999999--99999999999999999999999999999999999999999999---------99999999999999999-----------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16138820 212 - 170899992 TGGGGCTTATT-GGTTGTGCATAAATTTCATCCATTTGGGCACACAC--ACAGATGTGACACCC---------------AGACCACTCAGACACTTGGCTAACACTGATGCCGTCATCCTGAATGTTGTTTCTGGAAGGACTTTCATGAATAGAATCTATTTCAGATTGGCCGTAAGTCTCGATTTATTGATCCGCACCACTGGACT-----GGGGTGGGGTTGT---------GTCCACT-------TTT-----------
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16664566 212 - 173908612 TGGGGCTTATT-GGTTGTACATGAATTTCATCCATTTGGGCACACAC--ACAGCTGTGACACCC---------------AGACCACTCAGACACTTGGCTAACACTGATGCCGTCATCCTGAATGTTGTTTCTGGAAGGACTTTCATGAATAGAATCTGTTTCAGGTTGGCCGTAAGTCTCGGTTTATTGATCCGCACCACTGGACT-----GGGGTGGGGTTGT---------GTCCACT-------TTT-----------
+q panTro2.chr6 99999999999-99999909999999999999999999999999999--999999999999999---------------99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999---------9999999-------999-----------
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108554280 211 + 167655696 TGTGGTTTATT-GGTTGTGCATGAATTTCATCCATTTGGGCACGCAC--ACAGATGTGACACCC---------------AGACCA-TCAGACACTTGGCTAACACTGATGCCGTCATCCTGAATGTTGTTTCTGGAAGGACTTTCATGAATAGAATCTATTTCAGGTTGGCTGTAAGTCTTGGTTTATTGATCTGCACCGCTGGACT-----GGGGCGGGGTTGT---------GTCCACT-------TTT-----------
+q rheMac2.chr4 99999999999-99999999999999999999999999999999999--999999999999999---------------999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999---------9999999-------999-----------
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 119991 215 - 523245 TGGGGTTTATTGGGTTGTGCATTAATTTCATCCACTTGGGCACACATAGACAGATGTGACATCC---------------AGACCACTCGGACACTTGGCTAACACAGATGCAGTCATCCTCAGTGTTGTTTCTGGAAGGACTTTCATCAATAGCATCTATTTCAGATTGACCATAAGTCTCGGTTTACTGATCTGCACCATAGAGCT-----GTGGTGGAGTTAT---------ATCCACC-------TTT-----------
+i calJac1.Contig1260 C 0 C 0
+s equCab1.chr31 13088184 233 + 24938454 CTTGGTTTATTGCGTTGTGCGTGACTTCCAACCATCTGAGCA--CGT--GCAG-CGTATCAGCCAACCTGAG----CACAGACCA-ACAGATGCTTGGCTAATACAGACACAGTAGTCATGAATGTTGTTTCTGGAAAGACTTTGGTGAATAGAGTCCGTTTCTGATTGCCCGTGAGTTGAGATTTATTTATCTGTGCCGTCCGATG-----GTGGTGGGACTGTGG-------CTACACT-------TTTTACAGTGAGCT
+q equCab1.chr31 999999999999999999999999999999999999999999--999--9999-999999999999999999----999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----999999999999999-------9999999-------99999999999999
+i equCab1.chr31 C 0 C 0
+s felCat3.scaffold_217398 156988 237 - 219823 TCTGTTTTATGGAGTTGTGTCTGACTTTCAGCCATCTGGGCA--TGT--GCAG-TGTATCAGCCAAAGGGTCAGCACACACACCA-ACAGATGCTTAGCCAATATAGACACAGTGGTCGTGGATATTGTTTCTGGAAGAACTTTCGTGAATTG-------CCCTGATTGCCCATGAGTCTCAGTTCATTTATCTGTGACGTGGGACT-----GGGGTGGGACTGTGAATTTTACACACACA-------TTTCACAGTGAATT
+q felCat3.scaffold_217398 999999999999999999999999999999999999999999--999--9999-9999999999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999-------99999999999999999999999999999999999999999999999-----99999999999999999999999999999-------99999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s canFam2.chr1 78295006 223 - 125616256 TTTGCTTTCTGGAGCTGTGCCTGACTTTTAACCCTCTAGGCC--TGT--GCAG-TGTATCTGCCAGACTGTGGGCACACAGACCT-ACAGACACATAGCTAAGACAGACACCAGGGTCATGAATATCA-TTCTGGAAGAACTTCCGTGAATGGAGTCCCTATCTGATTGCCCACGAGTATCGGTTTATGTATGTGCCATGTGGGACT-----GG--------------------CCACACG-------TTTTATAGTGAATT
+q canFam2.chr1 999999999999999999999999999999999999999999--999--9999-9999999999999999999999999999999-999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999-----99--------------------9999999-------99999999999999
+i canFam2.chr1 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13770079 283 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 125453 1348 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=136068.000000
+s mm9.chr10 3233159 96 + 129993255 TCTCTGTCCCTTCCTTGAT-------------TTATGTCTCCCCATCTGTTAAGTAGAAACCAGATGACTTGATG--G------GGCCATGAG-------TCACTGGTTCATTCCACAGT-TATA
+s rn4.chr1 230052063 102 - 267910886 TCTCTGTCCCTTCCTTGAT-------------TTGTGCCCCCTCACCTGTTAGGCAG-AACCATACGACTTGATG--GGTACTTGGCCATGTC-------CCACTGGTACAGTCCACAGTCTAAA
+q rn4.chr1 9999999999999999999-------------9999999999999999999999999-99999999999999999--9999999999999999-------9999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16139032 114 - 170899992 TCCCTGCCCCTTCCCTGCTTTGGCTCTTGTGATTGTGTC-CTCCGTGTGtcaggcag-agccctgtgaaggtgtg--gatatgtggccatatt-------ttacctgcataatctgcagttcata
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16664778 114 - 173908612 TCCCTGCCCCTTCCCTGCTTTGGCTCTTGTGATTGTGTC-CTCCGTGTGtcaggcag-agccctatgaaggtgtg--gatatgtggccatatt-------ttacctgcataatctgcagttcata
+q panTro2.chr6 999999999999999999999999999999999999999-99999999999999999-99999999999999999--9999999999999999-------9999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108554491 114 + 167655696 TCCCGGCCCCTTGCCTGCTTGGGCTCTTGTGATTGTGTC-CTCCGTGTGTCAGGCAG-AGCCCTATGAAGGTGTG--GATATGTGGCCATATT-------TTACCTGCATAATCTGCAGTTCATA
+q rheMac2.chr4 999999999999999999999999999999999999999-99999999990999999-99999999999999999--9999999999999999-------9999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 120206 115 - 523245 TCTGGGTCCCTTCCCTGCTTGAGCTCTTGTGATTGTGTC-CTCTGTGTGTCAGGCAG-A-CCCTGTGAATGTGTGGTGCTATGTGGCTGTATT-------TTACCTGCATAATCTTCAGTTCCTA
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78295229 117 - 125616256 TCCAGGCCCCTTCCATGCTTGGGCTCT--TGTTTGCACT-CCTCCTCTG-TGAGGGG-AACCATGTGGATGTGCG--GGTCTTCGTCCATATT-AAATAAAAACCTGCATAATCAGCAGTCCACA
+q canFam2.chr1 999999999999999999999999999--9999999999-999999999-9999999-99999999999999999--9999999999999999-9999999999999999999999999999999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 157225 116 - 219823 TCCCAGCCCCTTTGGTGTCT---CTCTTGTGTTTGTGCC-TCTCCTCTG-TTAGGGG-AACCATGTGAACGTATG--GCTGTTTGCCCATGTT-AAATAAAAACCTACATAATCAGCAGTCCGCA
+q felCat3.scaffold_217398 99999999999999999999---9999999999999999-999999999-9999999-99999999999999999--9999999999999999-9999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13088417 120 + 24938454 TCCTGGACCCAGCACTGCTTGAGCTCCTGTGTTTACCTT-CTTCCTCTA-TAGGCAG-AACTATATGAATGTGTG--GTTAGTCGGCCATGTTAAAATAAAAACCTACATCATCAGCAGTCCATA
+q equCab1.chr31 999999999999999999999999999999999999999-999999999-9999999-99999999999999999--999999999999999999999999999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13770362 113 - 95030419 -----GCTCCATTCCTGCCCATCCTCG--TGTTTGTCTC-ACTCACCTGTTAAGCAG-AATCATATGAGT-CGTG--ACTATTTGGCCATATTAGAATAAAAACCTACAGAGCCAGCAGTCAGTT
+q bosTau3.chr9 -----9999999999999999999999--9999999999-99999999999999999-999999999999-9999--999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 283 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 125453 1348 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=152183.000000
+s mm9.chr10 3233255 156 + 129993255 TGATGTAGC---------------------------------CTACTACATTACAAATGTCCCAA-GAC--AAATAATGTTTTT--------------CCCCCAACCAAAACTCAAGCCTGTTCTTTGTTCTGCACTACAGGTGCATTTTGTACTGATGGTCTGC----ATGGAGTG--TTCACC-TCCACTGAAAC-----CCT------------------------------------------------------------------------------------------------------------------------------G--GTGAGGACCCCT--
+s rn4.chr1 230052165 162 - 267910886 TGACACAAC---------------------------------CTAATACATTACAAAGGCCCCAA-GAC--AAATGATACATCC--T------CTCAGCCCCCAAGCAAAACTCAAGCCTGTTCTTTGTTCTGTATTATGGGTACATTTTGTACTGTCTGTCTCC----ATGAACCC--TTCACT-TCCACTGGACT-----CCT------------------------------------------------------------------------------------------------------------------------------G--GTGAGGACCCCT--
+q rn4.chr1 999999999---------------------------------99999999999999999999999-999--9999999999999--9------999999999999999999999999999999999999999999999999999999999999999999999999----99999999--999999-99999999999-----999------------------------------------------------------------------------------------------------------------------------------9--999999999999--
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 126801 165 - 169015 TGATTTTAC---------------------------------TTAC-AGATTACAAATGCTCTGA-GACGGAgatcatgttttt--t---tc-tttgacctTTCAGCACGAGCCACATGTGTTCTGCATTCTGT-TTCCAGTTGCATTTTGTACTAATTGTCTGCCTTTATGAAATC--CTCAGT-CCCA---GAGT-----CAT------------------------------------------------------------------------------------------------------------------------------GTAATGATGA--TCT--
+q cavPor2.scaffold_284118 233356533---------------------------------2022-242242417534243211-213444533333357767--7---55-68454434745345354535445535446663474676455-856754643446984566665552357233757664558235--376545-5966---6757-----863------------------------------------------------------------------------------------------------------------------------------7554575453--767--
+i cavPor2.scaffold_284118 I 1348 C 0
+s hg18.chr6 16139146 172 - 170899992 tgattcagc---------------------------------ctaaTGGGTTGCAA-TGCCCTGAGGACAGAGACCATACTTTT--TCTTCC-TTTGTCTTTTTAGCGAAATTCAATCCTGTTCTGCG-CCTGCGCCACAGTTGCAGGCTGTACTGTCTGCCCT-----GTGCATCTCACACACC-CCCACTGCACTGTGCACCT------------------------------------------------------------------------------------------------------------------------------A--GTGATGG--CCG--
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16664892 172 - 173908612 tgattcagc---------------------------------ctaaTGGGTTGCAA-TGCCCTGAGGACAGAGACCATACTTTT--TCTTCC-CTTGTCTTTTTAGCGAAATTCAATCCCGTTCTGCG-CCTGCGCCACAGTTGCAGGCTGTACTGTCTGCCCT-----GTGTATCTCACACACC-CCCACTGCACTGTGCACCT------------------------------------------------------------------------------------------------------------------------------A--GTGATGG--CCG--
+q panTro2.chr6 999999999---------------------------------99999999999999-999999999999999999999999999--999999-99999999999999099999999999999999999-99999999999999999999999999999999999-----9999999999999999-9999999999999999999------------------------------------------------------------------------------------------------------------------------------9--9999999--999--
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108554605 169 + 167655696 TGATTCAGC---------------------------------CTAATGGGTTGCAAGTGCCCTGAGGACAGAGACCATACTTTT--TCTTC-----GTCTATTTAGCGAAATTCAATCCCGTTCTGTG-CCTGCACCACAGTTGCAGGCTGTACTGTCTGCCCT-----GTGCATCTCACACACC-CCCACTGCACCGTGCACCT------------------------------------------------------------------------------------------------------------------------------G--GTGATGA--CTG--
+q rheMac2.chr4 999999999---------------------------------999999999999999999999999999999999999999999--99999-----99999999999999999999999999999999-99999999999999999999999999999999999-----9999999999999999-9999999999999999999------------------------------------------------------------------------------------------------------------------------------9--9999999--999--
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 120321 297 - 523245 TGATTCAGC---------------------------------ctaatgggttgcaagtgctctgaggacagagaccatacttat--tcttcc-tttgtctttttagcaAAATTCAATCCCGTTCTTTG-CCTGCATCACAGTTGCAGGCTGTACTGTCTGTCCT-----GTGCATCT--CACACT-CACAATGGACTGTGCACCTAGTGATGATCTCAGATTTGCTCTTACTCATCTGTTTCCAGGGCCTACTCTGTTAATTTCATCACAGTTGCAGGCTGAACTGTCTGCCCTGTGCATGCATCTCCCACACCTGACTGCACCATCCACTA--GTGATGA--CCA--
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78295346 137 - 125616256 CAATTCAAT-------------------------------------------------------------GTAATCATATTTTT---------TTCCTCTTTCTAGCAAAACTCAATTCTGTCCTGTACCCTCTAT-AAAGTTGCATTTTGTACTAATTATCTGTCTCCATGAATCT--CTCACC-------ACCTGGGACACA-------------------------------------------------------------------------------------------------------------------------------A--ACGATGA--CCCCT
+q canFam2.chr1 999999999-------------------------------------------------------------99999999999999---------9999999999999999999999999999999999999999999-9999999999999999999999999999999999999999--999999-------999999999999-------------------------------------------------------------------------------------------------------------------------------9--9999999--99999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 157341 208 - 219823 CAATTCAActaaccctaaccctaaccctaaccctaaccctaacTACTACTTTGCAAAAGCCCCAAGGAAAGAGATCATACTTTTCCTCCTTC-TTTCTCTTTCTAGCAAAACTCAATTCTCTTCTGTACTCTGTGTCACAGCTGTATTTTGTACTAATTATCCCCCTCCCTGGAATT--CTCACT-------ACCCTGAACACCT------------------------------------------------------------------------------------------------------------------------------A--ATGTTCA--CCCCT
+q felCat3.scaffold_217398 99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999--999999-------9999999999999------------------------------------------------------------------------------------------------------------------------------9--9999999--99999
+i felCat3.scaffold_217398 C 0 I 503
+s equCab1.chr31 13088537 179 + 24938454 CAATTCAGC---------------------------------CTAGTACATTGCAGATGCCCCAAGGACAGAG-TCATATTTTT--TCCTTCATTTCTCCTTCTGGCAAAACTCAGTTCTGTTCTGTGCCCTGTGTCATGGTTGCATTTTGTACTAATTGTCTGCCTCCCTGGATCT--CTCACCCCTGACTACGCTGAACATGT------------------------------------------------------------------------------------------------------------------------------A--ATGATGA--CCCT-
+q equCab1.chr31 999999999---------------------------------9999999999999999999999999999999-9999999999--9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999------------------------------------------------------------------------------------------------------------------------------9--9999999--9999-
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13770475 174 - 95030419 TGATTTGAT---------------------------------CTAGTAGATTACAGATGCCCCAAGATCAGAGATCATGTTTGT--TTCT---TTTTACTTTCTGGCAAAACTCAACTCTGTTCTGTGTCCTGTGT--TAGTTCCACTTTGTAATGACTGTCTGCCTCTGTGGATCT--CTCATC-CCTATTGCCCTGAACATCC------------------------------------------------------------------------------------------------------------------------------G--AAGATGA--CCCT-
+q bosTau3.chr9 999999999---------------------------------999999999999999999999999999999999999999999--9999---9999999999999999999999999999999999999999999--999999999999999999999999999999999999999--999999-9999999999999999999------------------------------------------------------------------------------------------------------------------------------9--9999999--9999-
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=47236.000000
+s mm9.chr10 3233411 45 + 129993255 CAAGTCTGAC----TTTATCAGGTC-----TCCAGATCTGCTTCTGTT-AATCTC
+s rn4.chr1 230052327 45 - 267910886 CAGGTCTGGT----TTTATCAGTTG-----TCCAGACCTGCTACTGTT-AATCTC
+q rn4.chr1 9999999999----99999999999-----999999999999999999-999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 126966 52 - 169015 CAAGGCTAGTCTTGTTTATCTGTTCATT--TCTGGGCCTGCAATGGTT-AAGTCC
+q cavPor2.scaffold_284118 6835585559983889668556767769--984884996699845666-955589
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16139318 45 - 170899992 CAGATTTGCTTTTACTCATC---TT-----CCAGGGCCTACC-CTGTT-AATTCC
+i hg18.chr6 C 0 I 311
+s panTro2.chr6 16665064 45 - 173908612 CAGATTTGCTTTTACTCATC---TT-----CCAGGGCCTACC-CTGTT-AATTCC
+q panTro2.chr6 99999999999999999999---99-----999999999999-99999-999999
+i panTro2.chr6 C 0 I 308
+s rheMac2.chr4 108554774 48 + 167655696 CAGATTTGCTATTACTCATCTGTTT-----CCAGGGCCTACC-GTGTT-AATTCC
+q rheMac2.chr4 9999999999999999999999999-----999999999999-99999-999999
+i rheMac2.chr4 C 0 I 17
+s calJac1.Contig1260 120618 48 - 523245 CAGATTTGCTCTTACTCATCTATTT-----TCAGGGCCTACT-CTGTT-AATTTC
+i calJac1.Contig1260 C 0 I 57
+s canFam2.chr1 78295483 53 - 125616256 -AAATGGGATTTTACTCATCTCTTTATTTCCTAGGAAATAAT-CTGTTTAATTCC
+q canFam2.chr1 -99999999999999999999999999999999999999999-999999999999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13088716 53 + 24938454 CAAATTTGG-TCTACTCATCTGTTCATTTCCTAGGAAATAAT-TTGTTCAATTCC
+q equCab1.chr31 999999999-99999999999999999999999999999999-999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13770649 54 - 95030419 CAAATTTGACTTTACTTATCTGTTTATTTCCTAGAAAATAAT-CTGTTTAATTCC
+q bosTau3.chr9 999999999999999999999999999999999999999999-999999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 157549 503 - 219823 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=-13897.000000
+s mm9.chr10 3233456 40 + 129993255 CACTAACC---------AGGGAAGGCACTGATGATGTTATGCTACAACT
+s rn4.chr1 230052372 40 - 267910886 TACTCACC---------AGGGAAGGCAGTGATGACATCAGGCTACAACT
+q rn4.chr1 99999999---------99999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 127018 39 - 169015 CAAAACTC---------AGAGCGAACAGTCATGGTGGAATGtta-aatt
+q cavPor2.scaffold_284118 99998698---------799769779778995686989857989-9986
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108554839 33 + 167655696 TACTGCCC---------TGTGCATGCATC-------TCACACACCGATT
+q rheMac2.chr4 99999999---------999999999999-------9999999999999
+i rheMac2.chr4 I 17 I 40
+s calJac1.Contig1260 120723 47 - 523245 CACCATCCACCTGGTGATGACCACAGATT--TGCTGTTACTCATCTGTT
+i calJac1.Contig1260 I 57 I 82
+s canFam2.chr1 78295536 40 - 125616256 TAGGAAAA---------ATGGAAGACAATCATGGTGGATGGAGTAAGTT
+q canFam2.chr1 99999999---------99999999999999999999999999999999
+i canFam2.chr1 C 0 I 17
+s equCab1.chr31 13088769 40 + 24938454 TAGGAAAA---------AGGGAAGACCGTCACAGTGGATTGACTGACTT
+q equCab1.chr31 99999999---------99999999999999999999999999999999
+i equCab1.chr31 C 0 I 18
+s bosTau3.chr9 13770703 39 - 95030419 TAGGAAGA---------AGGG-AGACGATTATGGGTGAATGACTAAACT
+q bosTau3.chr9 99999999---------9999-999999999999999999999999999
+i bosTau3.chr9 C 0 I 18
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 157549 503 - 219823 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e hg18.chr6 16139363 311 - 170899992 I
+e panTro2.chr6 16665109 308 - 173908612 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=39811.000000
+s mm9.chr10 3233496 52 + 129993255 TGC-TTAT-----GGAT----------------ATGCCAAGGAT-----------TTGCAAGGG-----------------------------------------------ACAGCTGACATTTAGATCAGA
+s rn4.chr1 230052412 43 - 267910886 TGT-------------------------------TGCCAAGGAC-----------CTGAAAGGG-----------------------------------------------GCAGTTGACATTTAGATCAGA
+q rn4.chr1 999-------------------------------9999999999-----------999999999-----------------------------------------------999999999999999999999
+i rn4.chr1 C 0 I 12
+s cavPor2.scaffold_284118 127057 71 - 169015 tgcatttt-----gtattATCTCTGCTTATGCAATGGCAAGGAT-----------AAACATAGG--------------------------------------------AT-GCATGTGGCCTTTAGATCAGA
+q cavPor2.scaffold_284118 68989996-----8999967999597999588987999989999-----------999999799--------------------------------------------96-999999988999999899999
+i cavPor2.scaffold_284118 C 0 I 29
+s hg18.chr6 16139674 55 - 170899992 TGT-TCAT-----GGCC----------------ATGCCAATGAT-----------AAACAAGAG--------------------------------------------CTGGTCATGGGCATTCAGATCAGA
+i hg18.chr6 I 311 I 35
+s panTro2.chr6 16665417 55 - 173908612 TGT-TTAT-----GGCC----------------ATGCCAATGAT-----------AAACAAGAG--------------------------------------------CTGGTCATGGGCATTCAGATCAGA
+q panTro2.chr6 999-9999-----9999----------------99999999999-----------999999999--------------------------------------------999999999999999999999999
+i panTro2.chr6 I 308 I 35
+s rheMac2.chr4 108554912 115 + 167655696 CAT-CTATTTCCGGGGC----------------CTGCCACTGTTAATTCCTAGGAAAAAAAGAAAAAACAATCATGGTGGATTGGTTACATTGGCATTTTATATTATTTTTGTTATGGGCATTTAGATCAGA
+q rheMac2.chr4 999-9999999999999----------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 40 I 352
+s calJac1.Contig1260 120852 55 - 523245 TGT-TCAT-----GACC----------------ATGCCAATGAT-----------AAACAAGGG--------------------------------------------CTGGTCATGGGCACTTAGATCAGA
+i calJac1.Contig1260 I 82 I 38
+s canFam2.chr1 78295593 55 - 125616256 TGC-TCAG-----GGCA----------------TTACCAAGGAT-----------AGATAAAGG--------------------------------------------TTGGCCTTGGGCATTCAGATCAGC
+q canFam2.chr1 999-9999-----9999----------------99999999999-----------999999999--------------------------------------------999999999999999999999999
+i canFam2.chr1 I 17 C 0
+s equCab1.chr31 13088827 45 + 24938454 TGC-TTGT-----GGCA----------------ATGCCAAGGGT-----------AGA------------------------------------------------------CCATGGGCATTGAGACCAGA
+q equCab1.chr31 999-9999-----9999----------------99999999999-----------999------------------------------------------------------99999999999999999999
+i equCab1.chr31 I 18 C 0
+s bosTau3.chr9 13770760 55 - 95030419 TGC-TCAT-----GGCA----------------CTGCCAAGGAT-----------AAGCAAGGG--------------------------------------------TTGGCCATGGCTATTTAGCTCAGA
+q bosTau3.chr9 999-9999-----9999----------------99999999999-----------999999999--------------------------------------------999999999999999999999999
+i bosTau3.chr9 I 18 C 0
+e anoCar1.scaffold_0 8829053 9446 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 157549 503 - 219823 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=-29420.000000
+s mm9.chr10 3233548 19 + 129993255 ACTTT-----------A----------ATGATGGAATTGA--
+s bosTau3.chr9 13770815 29 - 95030419 -------TGAGCAATTAACACACAAAGAAAAAAGCA------
+q bosTau3.chr9 -------99999999999999999999999999999------
+i bosTau3.chr9 C 0 I 53
+s equCab1.chr31 13088872 19 + 24938454 -------TGAGCAATTA----------CAAAAACCA------
+q equCab1.chr31 -------9999999999----------999999999------
+i equCab1.chr31 C 0 I 48
+s canFam2.chr1 78295648 19 - 125616256 -------TGAGCAGTTA----------AAAAAATAA------
+q canFam2.chr1 -------9999999999----------999999999------
+i canFam2.chr1 C 0 I 74
+s calJac1.Contig1260 120945 22 - 523245 ACTTT------TAGAGG----------AGAAAAGAATT----
+i calJac1.Contig1260 I 38 C 0
+s rheMac2.chr4 108555379 22 + 167655696 ACTTT------TAGAGA----------AGAAAAGGATT----
+q rheMac2.chr4 99999------999999----------99999999999----
+i rheMac2.chr4 I 352 C 0
+s panTro2.chr6 16665507 22 - 173908612 ACTTT------TAGAGA----------AGAAAAGAATT----
+q panTro2.chr6 99999------999999----------99999999999----
+i panTro2.chr6 I 35 C 0
+s hg18.chr6 16139764 22 - 170899992 ACTTT------TAGAGA----------AGAAAAGAATT----
+i hg18.chr6 I 35 C 0
+s cavPor2.scaffold_284118 127157 28 - 169015 ACtctgctgtttttaaa----------aagaagaaaca----
+q cavPor2.scaffold_284118 99999998999999899----------99998999999----
+i cavPor2.scaffold_284118 I 29 C 0
+s rn4.chr1 230052467 18 - 267910886 ACTTT-----------A----------AAGATGGAATTG---
+q rn4.chr1 99999-----------9----------999999999999---
+i rn4.chr1 I 12 C 0
+s anoCar1.scaffold_0 8838499 10 + 16654889 ------------------------------ATGGAATT--TA
+q anoCar1.scaffold_0 ------------------------------99999999--99
+i anoCar1.scaffold_0 I 9446 C 0
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 157549 503 - 219823 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=77019.000000
+s mm9.chr10 3233567 31 + 129993255 AAGTCAA----GAC----------CTTACTT-TCCCTTTC-AATCCC
+s rn4.chr1 230052485 31 - 267910886 AAGCTAA----GAC----------CTTACTT-TCCCTTTT-ACTCCC
+q rn4.chr1 9999999----999----------9999999-99999999-999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 127185 41 - 169015 aaaccaa----aac-tttcaACATTTTACTTCTCTCTTTT-ACTCTA
+q cavPor2.scaffold_284118 9998999----999-9999999999999999999999999-999999
+i cavPor2.scaffold_284118 C 0 C 0
+s hg18.chr6 16139786 41 - 170899992 AAACCAA----GATCTTTCAGGGTTTTGCTT-CTCCTTTT-GTTTTT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16665529 41 - 173908612 AAACCAA----GATCTTTCAAGGTTTTGCTT-CTCCTTTT-GTTTTT
+q panTro2.chr6 9999999----99999999999999999999-99999999-999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108555401 41 + 167655696 AAACCAA----GATCTGTCAAGATTTTGATT-CTCCTTTT-GTTTTT
+q rheMac2.chr4 9999999----99999999999999999999-99999999-999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 120967 41 - 523245 AAACCAA----GATCTTTCAAGGTTTTGCTT-CTCCTTTT-GTTTTT
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78295741 38 - 125616256 AAACTAA----GACCTTTCCAGA-TTTGCTC-CTCC--TT-GCTCTT
+q canFam2.chr1 9999999----999999999999-9999999-9999--99-999999
+i canFam2.chr1 I 74 C 0
+s felCat3.scaffold_217398 158052 40 - 219823 AAATCAA----GACCTTTCAAGC-TTTGCTT-CTCCTTTT-GCTCTT
+q felCat3.scaffold_217398 9999999----999999999999-9999999-99999999-999999
+i felCat3.scaffold_217398 I 503 C 0
+s equCab1.chr31 13088939 39 + 24938454 AAACCAA-----ACCTTTCAAGG-TTTGCTT-CTCCTTTT-GCTCTT
+q equCab1.chr31 9999999-----99999999999-9999999-99999999-999999
+i equCab1.chr31 I 48 C 0
+s bosTau3.chr9 13770897 45 - 95030419 AAATTAACCCAGACCTTTCAATA-TTTACTT-CTCTTTTTAGCTCTT
+q bosTau3.chr9 99999999999999999999999-9999999-999999999999999
+i bosTau3.chr9 I 53 C 0
+s anoCar1.scaffold_0 8838509 31 + 16654889 ACATTAA----GGC----------CTAAATT-CCATTGTT-AATCCC
+q anoCar1.scaffold_0 9999999----999----------9999999-99999999-999999
+i anoCar1.scaffold_0 C 0 I 11070
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=189730.000000
+s mm9.chr10 3233598 78 + 129993255 TGGGCACTTAAGTGAAGAAGTGAAGAAGATATAGGCTGATGATGTTTGTAGTGCTGCATTTTACTTCAAAGTGTCACT
+s rn4.chr1 230052516 75 - 267910886 TGGGCACTTAAGTGAACG---GAAGAAGATATAGACTAATAATGTTTGTAGTGCTGTGTTTTACTTCAAAGCGTGAGT
+q rn4.chr1 999999999999999999---999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 127226 73 - 169015 GGggcatttaaataaatg---gaaga--acACAAGCTAACCTTgcttagagtactgtagtttacttGGAAGTGTGGCT
+q cavPor2.scaffold_284118 999999999999999958---99899--99999999999999999999999999999999999994999999999999
+i cavPor2.scaffold_284118 C 0 I 1135
+s hg18.chr6 16139827 75 - 170899992 AAGGCACTTAAATAAATG---GAAGAACATGTAAGCTAACCGTGTTTAGAGTACTATGTTTTACTAGAAAGTGCTACC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16665570 75 - 173908612 AAGGCACTTAAATTAATG---GAAGAACATGTAAGCTAACCGTGCTTAGAGTACTATGTTTTACTAGAAAGTGCTACC
+q panTro2.chr6 999999999999999999---999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108555442 75 + 167655696 AAGGCACTTAAATAAATG---GAAGAACATGTAAGCTAACCGTGCTTAGAGTACTATGTTTTACTTGAAAGTGCTACC
+q rheMac2.chr4 999999999999999999---999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 121008 74 - 523245 AAAGCACTTAAATAAATG---GAAGAAGATGTGAGCTAACC-TGTTTAGAGTACTGTGTTTTACTTGAAAGTGCCACC
+i calJac1.Contig1260 C 0 C 0
+s canFam2.chr1 78295779 66 - 125616256 AGGGCATTGAAATAAGTG---GGAGAACATTTAAGCTAATCTTGTT-----TAGTATGTTTTACTTGAAAGTGC----
+q canFam2.chr1 999999999999999999---9999999999999999999999999-----99999999999999999999999----
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 158092 71 - 219823 AGGGCATTTAAATAAATG---GAAGAACATTGAAGCAAATCTTGTTTAGAGTAGTACATTTTACTTGGAAGTGC----
+q felCat3.scaffold_217398 999999999999999999---99999999999999999999999999999999999999999999999999999----
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13088978 65 + 24938454 AGGGCATTTAAATAAATG---GAGGAACGTTTAAGCTAATCTTGTT--------TGTATTTTACTTGGAAGTGCTG--
+q equCab1.chr31 999999999999999999---9999999999999999999999999--------9999999999999999999999--
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13770942 73 - 95030419 GTGACAGTTTAATAAATA---GAAAAATATTTAAGCCAGTCTTGTTTAGAATACTGTATTTTACTTGAAAGTGCTA--
+q bosTau3.chr9 999999999999999999---9999999999999999999999999999999999999999999999999999999--
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=39911.000000
+s mm9.chr10 3233676 38 + 129993255 CTGCCATTTTTCAGATTTC-CCTCACTGAAGGAATGCTA---
+s rn4.chr1 230052591 26 - 267910886 CAGCCATTTTCC-GATTTC-CCTCACTG--------------
+q rn4.chr1 999999999999-999999-99999999--------------
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16139902 34 - 170899992 -----CTTCTGCAGATTTCTCCTCAATGAAAGAATGCCA---
+i hg18.chr6 C 0 I 1488
+s panTro2.chr6 16665645 34 - 173908612 -----CTTCTGCAGATTTCTCCTCAATGAAAGAATGCCA---
+q panTro2.chr6 -----9999999999999999999999999999999999---
+i panTro2.chr6 C 0 I 1477
+s rheMac2.chr4 108555517 34 + 167655696 -----CTTCTGCAGACTTCTCCTCAATGAAAGAATGCCA---
+q rheMac2.chr4 -----9999999999999999999999999999999999---
+i rheMac2.chr4 C 0 I 1147
+s calJac1.Contig1260 121082 29 - 523245 -----CTTTTGCAGATTTCTTCTCAATGCAAGAA--------
+i calJac1.Contig1260 C 0 I 1178
+s canFam2.chr1 78295845 32 - 125616256 -----CTTTTTCAGA--CCTCCTCAATGAAGGGATG---CTG
+q canFam2.chr1 -----9999999999--9999999999999999999---999
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 158163 34 - 219823 -----CTTTTTCAGA---CTTCTCAATGAAGGGATGCCACTG
+q felCat3.scaffold_217398 -----9999999999---999999999999999999999999
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13089043 37 + 24938454 ----ATTTTTTCAGA-TTTCTCTCAATGAAGGAATGCCACCA
+q equCab1.chr31 ----99999999999-99999999999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13771015 42 - 95030419 TTGCTTTTTTTCAGATTTCTCCTCAAGGAAGGAATGTCATTG
+q bosTau3.chr9 999999999999999999999999999999999999999999
+i bosTau3.chr9 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=16377.000000
+s mm9.chr10 3233714 49 + 129993255 AGCAAGGATGCTGTGCTCATGGAGGAAACATTCAGAGCTTTCAATTGAA
+s rn4.chr1 230052617 46 - 267910886 ---AAGGATGCTGAGCTTGCTGAGGGAGCATTCCGTGTTTTAAATTGAA
+q rn4.chr1 ---9999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s canFam2.chr1 78295877 39 - 125616256 ----AA------GTGCCCCCTTAGAGGGTATTCAGTGATGTTAATTGAA
+q canFam2.chr1 ----99------9999999999999999999999999999999999999
+i canFam2.chr1 C 0 I 890
+s felCat3.scaffold_217398 158197 39 - 219823 ----AA------ATGCCCCCTTAGAGTGTATTCAATGATGTGAATTGAA
+q felCat3.scaffold_217398 ----99------9999999999999999999999999999999999999
+i felCat3.scaffold_217398 C 0 I 988
+s equCab1.chr31 13089080 37 + 24938454 ----AG--------GCCCCCAGAGAGGATATTCAGTGATATTAATTGAA
+q equCab1.chr31 ----99--------99999999999999999999999999999999999
+i equCab1.chr31 C 0 I 839
+s bosTau3.chr9 13771057 41 - 95030419 ----AACCCACCATGCCC----AGAGGGCATTCATGGATGTTAATTGAA
+q bosTau3.chr9 ----99999999999999----999999999999999999999999999
+i bosTau3.chr9 C 0 I 860
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108555551 1147 + 167655696 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e calJac1.Contig1260 121111 1178 - 523245 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e hg18.chr6 16139936 1488 - 170899992 I
+e panTro2.chr6 16665679 1477 - 173908612 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=15317.000000
+s mm9.chr10 3233763 311 + 129993255 GAGACACAAATACCTTTAAGGAGGAACTAGCTGATGTCTTTTCCTTAAGTCCTTCTCCTAACATTATTCACCCTTAATCTCAATCTTGAAAGAGGGTAATTTGTTTGTA-----TACAGGGATACATAC-AACTCTGAACTGA-gagataactcaatgggtaaaggcacttgcttcacaaacctgacaacctggagctcagcctcagactc-----------ataaaaatgagaagagagtaaaagatcccaaaagttattctctgatctctctctctctctttctctctctctctctccctccctccctccctccacccctccctctc
+s rn4.chr1 230052663 321 - 267910886 GAGACATACATGCCTTTAAGGAGGAACTAGCTGATGTGTTTTCCTTAAATCCTAAAGTTTTCCAGAGTCACCTTTAATCTCAA-CTTGAAGGAGGGTGATTTGGACCCAAGAAGTACAAGTATACATACAAACACTAAgctggtgtgataactcagtgggtagaggcacctgcttc----acctgacaccctggggctgagtctcagggcctaagaactcatttaaaaatgagaagagagtaaaacctccaaaaagttattctctgCGctctctcgctctctctctctctctctctctctctctctctctctctctctctctctct---
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999---
+i rn4.chr1 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13771098 860 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13089117 839 + 24938454 I
+e rheMac2.chr4 108555551 1147 + 167655696 I
+e felCat3.scaffold_217398 158236 988 - 219823 I
+e canFam2.chr1 78295916 890 - 125616256 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e calJac1.Contig1260 121111 1178 - 523245 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+e hg18.chr6 16139936 1488 - 170899992 I
+e panTro2.chr6 16665679 1477 - 173908612 I
+e ponAbe2.chr6 16450727 3212 - 174210431 I
+
+a score=7253.000000
+s mm9.chr10 3234074 67 + 129993255 CCAacacacacacacacatacacacgcacacacacacacacacacacacaGTTTCAAAAATAGCTAT
+s hg18.chr6 16141424 34 - 170899992 -----------------------------aCGTACATGCATATATAGGCTGTAGACTAAATAG----
+i hg18.chr6 I 1488 C 0
+s panTro2.chr6 16667156 34 - 173908612 -----------------------------aCGTACATACATACATAGGCTGTAGACTAAATAG----
+q panTro2.chr6 -----------------------------9999999999999999999999999999999999----
+i panTro2.chr6 I 1477 C 0
+s calJac1.Contig1260 122289 40 - 523245 -----------------------ACATCTACATGCATCCATACTGAGACTGTCCACTAACTAG----
+i calJac1.Contig1260 I 1178 C 0
+s rheMac2.chr4 108556698 58 + 167655696 CCAACAAG----CAAACAAACA-AAACGTACATACATACATAGTGAGGCTGTAGACTAAATAG----
+q rheMac2.chr4 99999999----9999999999-9999999999999999999999999999999999999999----
+i rheMac2.chr4 I 1147 C 0
+s ponAbe2.chr6 16453939 54 - 174210431 --------caaacaaacaaaca-aaaCGTACATACATACATAGTGAGGCTGTAGACTAAATAG----
+i ponAbe2.chr6 I 3212 C 0
+s rn4.chr1 230052984 61 - 267910886 ------cacacacacacacacacacacacacacacacacaAAGTGTTTTTTTTTAAAAACCCTCTGA
+q rn4.chr1 ------9999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13771098 860 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13089117 839 + 24938454 I
+e felCat3.scaffold_217398 158236 988 - 219823 I
+e canFam2.chr1 78295916 890 - 125616256 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e tupBel1.scaffold_114895.1-498454 428898 9385 - 498454 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+
+a score=46727.000000
+s mm9.chr10 3234141 37 + 129993255 ATGAAATATTCCTGGGAACTTGACTTGACCAGGACAT
+s rn4.chr1 230053045 37 - 267910886 GCTTGTTGATTCATTATGAAATATTTCAATATCACAT
+q rn4.chr1 9999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s equCab1.chr31 13089956 33 + 24938454 ATGAAATATTGCTAAGAAC----CTTCATCCCAGGGG
+q equCab1.chr31 9999999999999999999----99999999999999
+i equCab1.chr31 I 839 C 0
+s tupBel1.scaffold_114895.1-498454 438283 32 - 498454 -TGAAATATTACTAAGAAC----CTTCATCCCAAGGG
+q tupBel1.scaffold_114895.1-498454 -999999999999999999----99999999999999
+i tupBel1.scaffold_114895.1-498454 I 9385 C 0
+s ponAbe2.chr6 16453993 32 - 174210431 -TGAAATATTACTAAGAAC----CTTCATCCCAAGGG
+i ponAbe2.chr6 C 0 C 0
+s rheMac2.chr4 108556756 32 + 167655696 -TGAAATATTACTAAGCAC----CTTCATCCCAAGTG
+q rheMac2.chr4 -999999999999999999----99999999999999
+i rheMac2.chr4 C 0 C 0
+s calJac1.Contig1260 122329 32 - 523245 -TGAAAGATTACTAAGAAC----CTTCATCCCAAGGG
+i calJac1.Contig1260 C 0 C 0
+s panTro2.chr6 16667190 32 - 173908612 -TGAAATATTACTAAGAAC----CTTCATCCCAAGGG
+q panTro2.chr6 -999999999999999999----99999999999999
+i panTro2.chr6 C 0 C 0
+s hg18.chr6 16141458 32 - 170899992 -TGAAATATTACTAAGAAC----CTTCATCCCAAGGG
+i hg18.chr6 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13771098 860 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 158236 988 - 219823 I
+e canFam2.chr1 78295916 890 - 125616256 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+e otoGar1.scaffold_85251.1-136255 30990 2238 - 136255 I
+
+a score=325943.000000
+s mm9.chr10 3234178 125 + 129993255 ATTGAGCGATAGAACCATAGGAAAATGTTGTCACTTATATTTTGGATACAACAAAC-CACAGCTATTAAA--ATTGTCTA-AG-T-C-TGAAAGTTCAGTTT-----TAA---TG---TGCACTGGGCA---CTAAATAGTG-CTAG
+s otoGar1.scaffold_85251.1-136255 33228 133 - 136255 --TGAGTGACAGAACCAC-TGAGAATATTGCTGTTGTTATTTTGGAGACAACAAAC-CATG-CTGTTAAGATA--GTCTG-AG-G-AGTGAAAGTTGAGTTTTAAAATACTGTTG---TCCTTTGTGCATTGCTACATCAGG-CTCA
+q otoGar1.scaffold_85251.1-136255 --9999999999999999-9999999999999999999999999999999999999-9999-99999999999--99999-99-9-99999999999999999999999999999---999999999899999999999999-9999
+i otoGar1.scaffold_85251.1-136255 I 2238 I 16
+s canFam2.chr1 78296806 133 - 125616256 --TGAGTGACAGCAGTAC-TGAGAATATTATCGCTG-TGGCTTAGAGACAAGAAAC-AATA-CTGTTGCA--ATCATGTG-AG-ATTGTTGAAGTCCAGTTTTACAATAA---CGTCATCCTTTGCTTATTGCCACACTGGG-CTCG
+q canFam2.chr1 --9999999999999999-99999999999999999-9999999999999999999-9999-99999999--99999999-99-99999999999999999999999999---99999999999999999999999999999-9999
+i canFam2.chr1 I 890 I 24
+s bosTau3.chr9 13771958 133 - 95030419 ATTCAGTGATAGAATTAC-TGAGAATATTGTTGCTG-TGTTTTAGAGACAACCAGCAAATG-CTGCCCAT--ACCGTCTTCAG-A-CCTGAAAGTCTAGCTTTAAAATAA---TG---TCCTCTGCTTGAGGCTACACGGGA-CTCA
+q bosTau3.chr9 999999999999999999-99999999999999999-999999999999999999999999-99999999--99999999999-9-999999999999999999999999---99---999999999999999999999999-9999
+i bosTau3.chr9 I 860 I 24
+s equCab1.chr31 13089989 134 + 24938454 GTCGGGTGATGGAACTAC-TGAGAATATTGTTGCTG-TGTTTTAGAGACAACGGGC-TGCG-CTGCTGAT--GCCATCTG-AG-A-CATGAAAGTCTAGTTCTAAAATAA---TGTTGTCCTTTGCTCCTTGCTACATTGGG-CTCA
+q equCab1.chr31 999999999999999999-99999999999999999-9999999999999999999-9999-99999999--99999999-99-9-999999999999999999999999---99999999999999999999999999999-9999
+i equCab1.chr31 C 0 I 24
+s tupBel1.scaffold_114895.1-498454 438315 131 - 498454 GTTGAAT--TAAAATCAC-TGAGAAGGTTGTTGCTGTTATTTTGTAGACAAACAGC-AATG-CTGCTAAA--ATCATCTG-AG-A-CATGAATGTTTAATTTTAAAATAA---TG---TTCTTTGCTCATTGCTCTGTTGGATCCCA
+q tupBel1.scaffold_114895.1-498454 9999999--999999999-9999999999999999999999999999999999999-9999-99999999--99999999-99-9-999999999999999999999999---99---99999999999999999999999999999
+i tupBel1.scaffold_114895.1-498454 C 0 I 13
+s ponAbe2.chr6 16454025 131 - 174210431 GTTGAGTGGTAGAACCAC-TGAGAATATTGTTGCTGCTCTTTTGGAGACAACAAAC-TACA-CTAATAAA--A--GTCTG-AGAA-CAAGAAAGTTGAGTTTTCAAGTAA---TG---TCCTTTGCATATTGCTACATAGGG-CTCA
+i ponAbe2.chr6 C 0 I 16
+s rheMac2.chr4 108556788 130 + 167655696 GCTGAGTGGTAGAACCAC-TGAGAATATTGTTGCAGCTCTTTTGGAGACAACAAAC-TACA-CCAATAAA--A--GTCTG-AG-A-CAAGAAAGTTGAGTTTTCAAGTAA---TG---TCCTTTGCGTATTGCTGCATAGGG-CTCA
+q rheMac2.chr4 999999999999999999-9999999999999999999999999999999999999-9999-99999999--9--99999-99-9-999999999999999999999999---99---999999999999999999999999-9999
+i rheMac2.chr4 C 0 I 16
+s calJac1.Contig1260 122361 130 - 523245 GCTGAGTGGTAGAACCAC-TGAGAATACTGTTGCTGCTCCTTTGGAGACAAGAAAC-TACA-CTAATAAA--A--GTCTG-AG-A-CAAGAAAGTTGAATTTTCAAGTCA---TG---TCCTTTGTATTTTGCTACGTAGGG-CTCA
+i calJac1.Contig1260 C 0 I 16
+s panTro2.chr6 16667222 131 - 173908612 GTTGAGTGGTAGAACCAC-TGAGAATATTGTTGCTGCTCTTTTGGAGACAACAAAC-TGCA-TTAATAAA--A--GTCTG-AGAA-CAAGAAAGTTGAGTTTTCAAGTAA---TG---TCCTTTGCATATTGCTACATAGGG-CTCA
+q panTro2.chr6 999999999999999999-9999999999999999999999999999999999999-9999-99999999--9--99999-9999-999999999999999999999999---99---999999999999999999999999-9999
+i panTro2.chr6 C 0 I 16
+s hg18.chr6 16141490 131 - 170899992 GTTGAGTGGTAGAACCAC-TGAGAATATTGTTGCTGCTCTTTTGGAGACAACAAAC-TGCA-TTAATAAA--A--GTCTG-AGAA-CAAGAAAGTTGAGTTTTCAAGTAA---TG---TCCTTTGCATATTGCTACATAGGG-CTCA
+i hg18.chr6 C 0 I 16
+s rn4.chr1 230053082 125 - 267910886 ATTGAATGACAGAACCACAGGGAAATGTTGTCCCTTATATTTTGGCTGCAACAAAC-TTCCTCTATTAAA--ACTGTCTA-AG-A-C-TGAAAATTTAGTTT-----TAA---TG---TGCACTGGGCT---CTAAACAGAG-CCAA
+q rn4.chr1 99999999999999999999999999999999999999999999999999999999-9999999999999--99999999-99-9-9-99999999999999-----999---99---99999999999---9999999999-9999
+i rn4.chr1 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 158236 988 - 219823 I
+e loxAfr1.scaffold_4233 96801 2072 + 124190 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+
+a score=105451.000000
+s mm9.chr10 3234303 42 + 129993255 TCTACTTTGTGGTTATAAG-----TAATCAGAAATTCTGCACCC--------ATG
+s rn4.chr1 230053207 31 - 267910886 TCTACTCTGTGGTTA---------TAGTCGGAAATTCTAT---------------
+q rn4.chr1 999999999999999---------9999999999999999---------------
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16454172 46 - 174210431 TCTACTTTGTTGATGAAAGAAAA-CAAGTGGAAATTCTGCTCCC--------CCA
+i ponAbe2.chr6 I 16 I 2
+s rheMac2.chr4 108556934 46 + 167655696 TCTACTTTGTTGATGAAAGGAAA-CAAGTGGAAATTCTGCTCCC--------CCA
+q rheMac2.chr4 99999999999999999999999-99999999999999999999--------999
+i rheMac2.chr4 I 16 I 2
+s calJac1.Contig1260 122507 31 - 523245 TCTACTTTATTGATGAAAGAAAA-C---TAGAAA--------------------A
+i calJac1.Contig1260 I 16 I 2
+s panTro2.chr6 16667369 46 - 173908612 TCTACTTTGTTGATGAAAGAAAA-CAAGTGGAAATTCTGCTCCC--------CCA
+q panTro2.chr6 99999999999999999999999-99999999999999999999--------999
+i panTro2.chr6 I 16 I 2
+s hg18.chr6 16141637 46 - 170899992 TCTACTTTGTTGATGAAAGAAAA-CAAGTGGAAATTCTGCTCCC--------CCA
+i hg18.chr6 I 16 I 2
+s otoGar1.scaffold_85251.1-136255 33377 47 - 136255 TCTGCTTTGTGGATGTAAGAAAGTCAAGCAGAAAAGCTGCTCTC--------CTG
+q otoGar1.scaffold_85251.1-136255 99999999999998999999999999999999999999999999--------999
+i otoGar1.scaffold_85251.1-136255 I 16 I 2
+s tupBel1.scaffold_114895.1-498454 438459 45 - 498454 TCTACTTTGTTGATTTAAGAAAA-TGAGCAGAAATTCTGCTTCG--------C-A
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999-99999999999999999999--------9-9
+i tupBel1.scaffold_114895.1-498454 I 13 I 2
+s canFam2.chr1 78296963 39 - 125616256 --------GCTGACTTATGGAAA-CAAGCAGGGATCGTGCTCCC-------TCCG
+q canFam2.chr1 --------999999999999999-99999999999999999999-------9999
+i canFam2.chr1 I 24 I 2
+s felCat3.scaffold_217398 159224 38 - 219823 --------CCTGCTCTATGAAAA-CAAACAGGAATTCTGCTCCC--------CCA
+q felCat3.scaffold_217398 --------999999999999999-99999999999999999999--------999
+i felCat3.scaffold_217398 I 988 I 2
+s equCab1.chr31 13090147 38 + 24938454 --------GTTGATGTACGAAAA-CCAGCAGACATTCTGCTCCC--------CTA
+q equCab1.chr31 --------999999999999999-99999999999999999999--------999
+i equCab1.chr31 I 24 I 2
+s bosTau3.chr9 13772115 39 - 95030419 --------GTTGATGTATGAAGA-CAAGCAGAAAATCTGCTCCC-------TCCT
+q bosTau3.chr9 --------999999999999999-99999999999999999999-------9999
+i bosTau3.chr9 I 24 I 2
+s loxAfr1.scaffold_4233 98873 54 + 124190 TTTACGTTGTTGATGTATGAAAA-CAAGCAGAAATTCTGCCCCTATCCCTTGCTG
+q loxAfr1.scaffold_4233 99999999999999999999999-9999999999999999999999999999999
+i loxAfr1.scaffold_4233 I 2072 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e cavPor2.scaffold_284118 127299 1135 - 169015 I
+
+a score=241573.000000
+s mm9.chr10 3234345 61 + 129993255 AACCCTGCACTCTAGAAAGGTGAGTTATACCAGAAGAGGTTCAGCTATGATGTAATCCAAA
+s rn4.chr1 230053238 60 - 267910886 -ACCCTGCCCTCTAAAAAGATGACCCATGCCAGAAGAGGTTCAGCTATGATGTAATCCAAC
+q rn4.chr1 -999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 128434 58 - 169015 aaatctgcttccaaaAGAGACAAG---TAGCAGGAGAtgttgaaaaatattgcagttcaac
+q cavPor2.scaffold_284118 999797989999999999999988---9788898999699899999799979989899889
+i cavPor2.scaffold_284118 I 1135 C 0
+s ponAbe2.chr6 16454220 61 - 174210431 CATCCTGCACTGCAAAAAGATAACAAGTAGCAGGAGATACTCAATTATGATGCAGTTCAAC
+i ponAbe2.chr6 I 2 C 0
+s rheMac2.chr4 108556982 61 + 167655696 CATCCTGCACTGCAAAAAGGTAACAAGTAGCAGGAGATAGTCAATTATGATGCAGTTCAAC
+q rheMac2.chr4 9999999999999999999999999999999999999999999999999999999999999
+i rheMac2.chr4 I 2 C 0
+s calJac1.Contig1260 122540 58 - 523245 CATCCTGCACTGCAAAAGGATGACAAACAGCAGGAGATACTCAATTATCATGCAGTTC---
+i calJac1.Contig1260 I 2 I 299
+s panTro2.chr6 16667417 61 - 173908612 CATCCTGAACTGCAAAAAGATAACAAGTAGCAGGAGATACTCAATTATGATGCAGTTCAAC
+q panTro2.chr6 9999999999999999999999999999999999999999999999999999999999999
+i panTro2.chr6 I 2 C 0
+s hg18.chr6 16141685 61 - 170899992 CATCCTGCACTGCAAAAAGATAACAAGTAGCAGGAGATACTCAATTATGATGCAGTTCAAC
+i hg18.chr6 I 2 C 0
+s otoGar1.scaffold_85251.1-136255 33426 57 - 136255 TATCCCGCACACCAAAAGCATGGCAGGTAGCAGA----GTTCAATTATGACACAGTTCAAC
+q otoGar1.scaffold_85251.1-136255 9999989989999999989999999999989999----99999999999999999999979
+i otoGar1.scaffold_85251.1-136255 I 2 C 0
+s tupBel1.scaffold_114895.1-498454 438506 53 - 498454 CACCCTGCACTCCTGGAAGATGACAAGTAACA--------TCAACGATAATGTAATTCAAT
+q tupBel1.scaffold_114895.1-498454 99999999999999999999999999999999--------999999999999999999999
+i tupBel1.scaffold_114895.1-498454 I 2 I 1
+s canFam2.chr1 78297004 60 - 125616256 AATCC-ACACTCTGAAAAGATGATGAGTAGCAGGAGGTGTTCAACTATGATGCAGTTAAAC
+q canFam2.chr1 99999-9999999999999999999999999999999999999999999999999999999
+i canFam2.chr1 I 2 I 1
+s felCat3.scaffold_217398 159264 55 - 219823 AACCT-ACA--CTGAAAA---GATAAGTAGCAGGAGATGTTCAACTATGATGCAGTTCAAC
+q felCat3.scaffold_217398 99999-999--9999999---9999999999999999999999999999999999999999
+i felCat3.scaffold_217398 I 2 I 1
+s equCab1.chr31 13090187 61 + 24938454 AACCCTGCACTCCAAAAGGATGACAAGTAGCAGGAGATGTTCAACTATGATGCAGTTCAAT
+q equCab1.chr31 9999999999999999999999999999999999999999999999999999999999999
+i equCab1.chr31 I 2 I 1
+s bosTau3.chr9 13772156 61 - 95030419 AATCTGACTCTCCAAACGGATGACAGGTAGCAGGAGACATTCCACTAGGATGTAGCTCAAA
+q bosTau3.chr9 9999999999999999999999999999999999999999999999999999999999999
+i bosTau3.chr9 I 2 I 1
+s loxAfr1.scaffold_4233 98927 45 + 124190 CACCCTGTACTCCTAAAAGATGGCAAGTAGCAAAAGGCTCTCAAC----------------
+q loxAfr1.scaffold_4233 999999999999999999999999999999999999999999999----------------
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+
+a score=145322.000000
+s mm9.chr10 3234406 91 + 129993255 -AAA----GAAAATGGAAATTAAAAGGAAGACA--------------ATTAAATAGA----C-----------------------------------TCATTTTCACATAGTGTT---TAAAGACGTTGATTATCGCTGGGGCCC----------C--CTGCTT
+s rn4.chr1 230053298 78 - 267910886 -AAA----GAAAAAGGAAATTAAAAGGAAGACA--------------ATGAAATAGA----C-----------------------------------TCGTTTTCAAATACTGTT---CAAAGACGTCGATTATGTCTG-------------------------
+q rn4.chr1 -999----9999999999999999999999999--------------9999999999----9-----------------------------------999999999999999999---999999999999999999999-------------------------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 128492 99 - 169015 -aaa----gaaaaat--aattaaaaggaagAGATGCTAGAT------AATAAAGAGA----C-----------------------------------TGCTTTGCAAACAGCACT---TAATGATGGTGACTATTACTGGGGCTC----------CATATGGTT
+q cavPor2.scaffold_284118 -999----9999979--989999999999999989999999------9999999999----9-----------------------------------877997789989999999---999999999999999999999998999----------999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108557043 109 + 167655696 -AAA----GAAAACA--AATTAAAAT--AGAGATCCCACAT-GATTAAATACAGAGAGAGTC-----------------------------------TCCTTTGTAAACAGCAATGGATGATGATGGTGACTATTACCAGGGCTC----------TGTATGATT
+q rheMac2.chr4 -999----9999999--999999999--9999999999999-99999999999999999999-----------------------------------999999999999999999999999999999999999999999999999----------999999999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16141746 107 - 170899992 -AAA----GAAAACA--AATTAAAATAAAGAGATCCTGGGT-GGTTAAATACAGAGT----C-----------------------------------TCCTTTGTAAACAGCAATGGATGATGATGATGACTGTTACCAGGGCTC----------TGTATGATC
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16667478 107 - 173908612 -AAA----GAAAACA--AATTAAAATAAAGAGATCCTGGAT-GGTTAAATACAGAGA----C-----------------------------------TCCTTTGTAAACAGCAATGGATGATGATGATGACTGTTACCAGGGCTC----------TGTATGATC
+q panTro2.chr6 -999----9999999--999999999999999999999999-999999999999999----9-----------------------------------999999999999999999999999999999999999999999999999----------999999999
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16454281 102 - 174210431 -AAA----GAAAAC-------AAAATAAAGAGATCCTGGAT-GGTTAAATACAGAGA----C-----------------------------------TCCTTTGTAAACAGCAATGGATGATGATGATGATTGTTACCAGGGCTC----------TGTATGATC
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 122897 104 - 523245 -aaa----aaaaaag--a---aaaaaaagaaGATCCTAGAT-GATTAAATACAGAGA----C-----------------------------------TCCTTTGTAAACAGCCATGGTTGATGATGATGACTATTACCGTGGCTC----------TGAATGATT
+i calJac1.Contig1260 I 299 C 0
+s otoGar1.scaffold_85251.1-136255 33483 104 - 136255 -AAA----GAAAACA--A-TTAAAAGGAAGAGATATCACATGGGTTAAATGAAGAGA----C-----------------------------------TCCTTTGCAAACAGCAAT---CAATGATGATGACTATTACTGGGACGA----------CGTGCCGTG
+q otoGar1.scaffold_85251.1-136255 -999----9999899--8-99999989999999999999999999999999999999----9-----------------------------------999999899999999999---999999999999999999999999999----------999999999
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 438560 87 - 498454 -AAG----AAAAATA--AACTGAAA---GGAGATATGAAAT-GATTAAACAAAAAGA----C-----------------------------------TC--TTGCAAAAAGCAGT------TAATGATTATTGCAGCTAGG-------------------TATT
+q tupBel1.scaffold_114895.1-498454 -999----9999999--99999999---9999999999999-999999999999999----9-----------------------------------99--99999999999999------99999999999999999999-------------------9999
+i tupBel1.scaffold_114895.1-498454 I 1 C 0
+s canFam2.chr1 78297065 111 - 125616256 -AAGGAATAAAAAAA--GATTTAAAGGAATAAATATCAGAT-GGTTAAATTAAAAAA----AAAACAAAAACCT-----------------------TCCTTTGCAAATCACAGT---TAATGATGA---GGATTACCGGACCTA----------TTT------
+q canFam2.chr1 -99999999999999--999999999999999999999999-999999999999999----9999999999999-----------------------999999999999999999---999999999---999999999999999----------999------
+i canFam2.chr1 I 1 I 2
+s felCat3.scaffold_217398 159320 127 - 219823 -AAGGA--AAAAAAA--AATT-----GAAGAAATATCAGAT-ACTtaaataaataaa----taaataaataaataaataaataaataaataaacaaGTCCTTTGCAAATCACAGT---TAATGATGA---GGATTACTGGGCCTC----------CTT------
+q felCat3.scaffold_217398 -99999--9999999--9999-----999999999999999-999999999999999----999999999999999999999999999999999999999999999999999999---999999999---999999999999999----------999------
+i felCat3.scaffold_217398 I 1 I 2
+s equCab1.chr31 13090249 88 + 24938454 -AAG----AAAAACA--GATTAAAAGGAAGAAATATCAAAT-AATTAAATAAAGAAA----C-----------------------------------TCCTTTGCAAATTGCA-T---TAATGATG---------ACTGGACCTT----------CTT------
+q equCab1.chr31 -999----9999999--999999999999999999999999-999999999999999----9-----------------------------------9999999999999999-9---99999999---------9999999999----------999------
+i equCab1.chr31 I 1 I 2
+s bosTau3.chr9 13772218 106 - 95030419 -ACCAA--CAATAAA--GTTAAAAAGGAAGAAGTATCAGAT-GATTAGGTAAAC-------------------------------------------TCCTTTCCAGACCAAAAT---TAGTGATGGTGCTGATGCCTGGGCCTCTGGAGGGCTGCTT------
+q bosTau3.chr9 -99999--9999999--999999999999999999999999-999999999999-------------------------------------------999999999999999999---9999999999999999999999999999999999999999------
+i bosTau3.chr9 I 1 I 168
+s loxAfr1.scaffold_4233 98972 96 + 124190 AAAG----AAACCAA--AATCAAAAGGAAGAGATATCAAAT-GATTAAATAAAGAGA----C-----------------------------------TCCTTTGCAAGTAGCAAA------TGATGATGACTGTTACTGGGCTTT----------CTC------
+q loxAfr1.scaffold_4233 9999----9999999--999999999999999999999999-999999999999999----9-----------------------------------999999999999999999------999999999999999999999999----------999------
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+
+a score=15909.000000
+s mm9.chr10 3234497 36 + 129993255 AG---CTGTTTTTCTCCCAGTTAATACTTTGGAGT----GT-CA
+s rn4.chr1 230053376 30 - 267910886 ---------TTTTCCTCCAGTTACTACTTAGAAGT----GC-CA
+q rn4.chr1 ---------99999999999999999999999999----99-99
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 128591 35 - 169015 A--------TTTTCTCCCAATTAATACTTTGGAAGAAAAAC-AG
+q cavPor2.scaffold_284118 9--------99999999999999999999799999999999-99
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108557152 30 + 167655696 G--------TTTTCCC--AATTAATTCTTTGGAGT----ACTTT
+q rheMac2.chr4 9--------9999999--99999999999999999----99999
+i rheMac2.chr4 C 0 C 0
+s hg18.chr6 16141853 25 - 170899992 A--------TTTTCCC------AATTCTTTGGAGT----AC-TT
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16667585 29 - 173908612 A--------TTTTCCC--AATTAATTCTTTGGAGT----AC-TT
+q panTro2.chr6 9--------9999999--99999999999999999----99-99
+i panTro2.chr6 C 0 C 0
+s ponAbe2.chr6 16454383 29 - 174210431 G--------TTTTCCC--AATTAATTCTTTGGAGT----AC-TT
+i ponAbe2.chr6 C 0 C 0
+s calJac1.Contig1260 123001 29 - 523245 G--------TTTTCCC--AATTAATTCTTTGGAGT----AC-TT
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 33587 30 - 136255 G--------TTTTCCC-AAATTAACAATTTGGGGC----AC-TT
+q otoGar1.scaffold_85251.1-136255 9--------9999999-999999999999999999----99-99
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 438647 30 - 498454 G--------TTTTCCT-CTTTTAATACTTCAGGGT----AC-TT
+q tupBel1.scaffold_114895.1-498454 9--------9999999-999999999999999999----99-99
+i tupBel1.scaffold_114895.1-498454 C 0 C 0
+s equCab1.chr31 13090339 31 + 24938454 -A--GCTGCTTTCCCC-GAAT----ACATCTGGGT----GC-TT
+q equCab1.chr31 -9--999999999999-9999----9999999999----99-99
+i equCab1.chr31 I 2 C 0
+s felCat3.scaffold_217398 159449 32 - 219823 -G--GTTGCATTTCCC-CCGTG---AAATCTGGGC----AC-TT
+q felCat3.scaffold_217398 -9--999999999999-99999---9999999999----99-99
+i felCat3.scaffold_217398 I 2 C 0
+s canFam2.chr1 78297178 35 - 125616256 -G--GTTGTTTTTCCC-TGATGTGTGCATCTGGGC----AT-TT
+q canFam2.chr1 -9--999999999999-999999999999999999----99-99
+i canFam2.chr1 I 2 C 0
+s loxAfr1.scaffold_4233 99068 37 + 124190 -AGGGTTGTTCTTCCT-CAATTAATACATCTGGGT----AC-TT
+q loxAfr1.scaffold_4233 -999999999999999-999999999999999999----99-99
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13772324 168 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+
+a score=969064.000000
+s mm9.chr10 3234533 266 + 129993255 TTATCAAAAGCACTCTTGTAGAACTAGCTGAGAATGGAGATGG-----CTCCTCACTCGTTTCTTGGGGAGCGAGATTGAATTCTATTCTTGGCAGTGGAAAGTA----GTACACGCTAAT--CAGAACACTG-TGTTGCTCTTTTCTCTC-CT-----GGAGCGTGTTCTCCCAGTGCCGCTATGGAAGCTCCG---------CTCTTC--ACCCTGGGAGTCTTCCTTCCACTGAGC--TCTG-CACCTGT-------------------------------------GGTTCTTGGCTTCCAGCCTTCTGCTCTGTTCCTTAGGCTTT------G---T-G---------G
+s rn4.chr1 230053406 264 - 267910886 TTATCAAACGCACTCTTGTAGAACTAGCTGACAA--AAGATAG-----CGTCTCGCTCGTTTCGCGGGGGCCGTGATTGAATTCTATTCTTGGCCGTGGAAAGTA----GTACATGCTAAT--CAGAACACTG-TGCTGCTCGTTTCCTGC-GT-----GGAGCGTGTTCTCCCAGAGCTTCCATGGAAGCTCTG---------CTCTTC--GCCCTGGGAGCCTTCCTTCCGCTGGGC--TCTG-CACC-GT-------------------------------------GGTTCTCGGCTTCCAGCCTTCTGCTCTGTTCGGTAGGCTTT------G---TGG---------G
+q rn4.chr1 9999999999999999999999999999999999--9999999-----999999999999999999999999999999999999999999999999999999999----999999999999--9999999999-99999999999999999-99-----999999999999999999999999999999999999---------999999--999999999999999999999999999--9999-9999-99-------------------------------------99999999999999999999999999999999999999999------9---999---------9
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 128626 244 - 169015 TTATCAAAAGCACTCCTTTAGAATTAACTGAAAATGTAGACTA-----CTCCTCACTCATTACGTGGGAAATGAGATTGAATTCTATTCTTGGCAATGGTAAATACTTGGTGCATGCAACG--GGAAACAC-------------------------------------TCATCCTAAACCTCCTAGGAAGCATCA---------CACACCCTGTTCTGAGTGTCTGTATTCCATTTGTCCTTTTC-TATCTGT-------------------------------------GCTTCTTGATGTTTGgtcttttactctgttttttagccttt------c---t-g---------t
+q cavPor2.scaffold_284118 9999999997889999999999999999699999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999--99999999-------------------------------------999999999999999999999999999---------99999999999999999999999999999999999999999-9999999-------------------------------------99999999999999999999999999999999999999999------9---9-9---------9
+i cavPor2.scaffold_284118 C 0 C 0
+s rheMac2.chr4 108557182 277 + 167655696 TTTTCAAAAGCACTCTTGTAGAATTAACTGAAAACATAGACTA-----CGCTTCACTCATTACATGAGAAATGGGATTGAATTCTTTTCTTGGCAATGGAAAATACCTGATGCATGCAAAT--AAGACAACTC-TGCTTTTACCTTCTCTC-CTTGCAGGGGGAGCATTTGTCCTAAGCTTGCCAGGAAGCCCTG---------CTCTCC-TGCTCTGGGTGCCTCTGTTCCACTTGCCCTTTTC-CACCTGT-------------------------------------ACTCCCTGCATTTTGGTCTCTTGCTCTCGTCTTTAGCCTTC------G---C-G----------
+q rheMac2.chr4 9999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999--9999999999-99999999999999999-9999999999999999999999999999999999999999999---------999999-9999999999999999999999999999999999-9999999-------------------------------------99999999999999999999999999999999999999999------9---9-9----------
+i rheMac2.chr4 C 0 I 83
+s hg18.chr6 16141878 278 - 170899992 TTTTCAAAAGCACTCTTGTAGAATTAACTGGAAACATAGACTA-----CCCTTCACTCATTACATGGGAAATGGGATTGAATTCTCTTCTTGGCAATGGAAAATACTTGATGCATGCAAAT--AAGAAAACTCTTACTTTTTCCTTCTCTC-CTTGCAGGGGGAGCACGCGTCCTAAGCTTGCCAGGAAGCCCTG---------CTCTCC-TGCCCTGGGCACCTCCGTTCCACTTGACCTTTTC-CACCTGT-------------------------------------ACTCCCTGCATTTTGGTCTCTTGCTCTGGTCTTTAGCCTTC------G---C-A----------
+i hg18.chr6 C 0 I 75
+s panTro2.chr6 16667614 278 - 173908612 TTTTCAAAAGCACTCTTGTAGAATTAACTGGAAACATAGACTA-----CCCTTCACTCATTACATGGGAAATGGGATTGAATTCTCTTCTTGGCAATGGAAAATACTTGATGCATGCAAAT--AAGAAAACTCTTACTTTTTCCTTCTCTC-CTTGCAGGGGGAGCACGCGTCCTAAGCTTGCCAGGAAGCCCTG---------CTCTCC-TGCCCTGGGCACCTCTGTTCCACTTGACCTTTTC-CACCTGT-------------------------------------ACTCCCTGCATTTTGGTCTCTTGCTCTGGTCTTTAGCCTTC------G---C-A----------
+q panTro2.chr6 9999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999999999999999999999999--9999999999999999999999999999-9999999999999999999999999999999999999999999---------999999-9999999999999999999999999999999999-9999999-------------------------------------99999999999999999999999999999999999999999------9---9-9----------
+i panTro2.chr6 C 0 I 75
+s ponAbe2.chr6 16454412 280 - 174210431 TTTTCAAAAGCACTCTTGTAGAATTAACTGGAAACATAGACTG-----CCCTTCACTCATTACATGGGAAATGGGATTGAATTCTCTTCTTGGCAATGGAAAATTCTTGATGCATGCAAAT--AAGAAAACTCTTACTTTTTCCTTCTCTC-CTTGCAGGGGGAGCACGCGTCCTAAGCTTGCCAGGAAGCCCTG---------CTCTCC-TGCCCTGGGCGCCCCTGTT-CACTTGCCCTTTTC-CACCTGT-------------------------------------ACTCCCTGCATTTTGGTCTCTTGCTCTGGTCTTTAGCCTTC------G---T-GTTT-------
+i ponAbe2.chr6 C 0 I 72
+s calJac1.Contig1260 123030 279 - 523245 ATTTCAAAAGCACTCTTGTAGAATTAACTGAAAACATCGACTA-----CTCTTCGCTCATTACATGGGAAATGGCACTGAATTCTTTTCTTGGCAATAGAAAATAACTGATGCATGCGAAT--AAGAAAACTT-TGCTTTTACCTTCTCTC-CTTGCAGGGGGAGGAGGCGTCCTAAGCTTGCCAGGAAGCCTCG---------CTCCGC-TGCCCT-GGTGCCTCTGTTCCAC-TGCCTGTTTT-CACCTGT-------------------------------------ACTCCCCGCATTTTGGTCTCTTGTGCTGGTCTTCAGCCTTC------A---G-G---TTTT---
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 33617 256 - 136255 TTATTGAAAGCA--CTTGTAGAATTAAGTGAAAATGTAGACTA-----CTTTTCACTCATTTCGCAGGAAATGGAATTGAATTCTATTCTTGGCAACGAGAAAGATTTGC----------------AAAATTC-TGC-TTCACTTTCTTTC-CTTGCAGGGGGAGCATGTGTCCTAAGTTTCCTGGGAAGCCCTG---------CTCCCC-TGATCTGGGTTCCTCC-TCCCGCTTGTCCTTTCC-C-CCTGT-------------------------------------TCTCATC----TTTGGTCTCTTACTCTGTTCCTCAGTCTTT------G---T-G-------TT-
+q otoGar1.scaffold_85251.1-136255 999999999999--99999999999999999999999999999-----99999999999999999999999999999999999999999999999999999999999999----------------9999999-999-9999999999999-9999999999999999999999999999999999999999999---------999999-9999999999999999-99999999999999999-9-99999-------------------------------------9999999----999999999999999999999999999999------9---9-9-------99-
+i otoGar1.scaffold_85251.1-136255 C 0 C 0
+s tupBel1.scaffold_114895.1-498454 438677 271 - 498454 TTATCAAGAGCACTCAAGTAGAATAAACTGAAAATGTAGACTACTCTCCTCTCCACTCATTACAAGGGAAATGGAATTGAATTCTATTCTTGGCAATGGAAAATACTTGGTGCATGCAAAT--AAGAAAATTC-TGCTTTTGCCTTCTCTCTCGTGCA-GGGGAATATTCATCTTGCGCTCTCCGGGAAGCC-TG---------CTCCTC-TGCTCTGGATGTCTTTATTTGACTTGTACTTTTC-CTCCTAT-------------------------------------GTTTTCTGAATTTTGGGCTTTGGGTTTCTTCTTT------------------------------
+q tupBel1.scaffold_114895.1-498454 9999999999999999999999999999999999999999999999999999999999899999999999999999799999999999999997999999999999999989799979999--9989999999-797999996999999999997979-799499799999999997899989979999689-89---------779979-9978989996969899859987899959689999-7899498-------------------------------------8599896597599979239998958988686599------------------------------
+i tupBel1.scaffold_114895.1-498454 C 0 I 195
+s canFam2.chr1 78297213 268 - 125616256 TTATCAAAAGCACTCTTGTAGAATTAACTGTAAACATGGGGTA----------CACTTATTATATGGGAAATGGGATTGGATTCTATTCTTGGCAATGGAAAATACTTGGCTCATACAAAT--GACAATACTC-TGCTTCTG---TCATCC-CTTGCATGGGGAGCACTTGTCCTGAGCGCCCCAGGAAACCCTG----------CCCTC-TGCTCTTCAGGCCTTTCTTCCTTTTGCCCTCTTT--ACCTTT-------------------------------------ACTCTCTGACTTTTGGCCTCTTTCTCTGCGCTCTCGCCTTG------GTGT-------------
+q canFam2.chr1 9999999999999999999999999999999999999999999----------99999999999999999999999999999999999999999999999999999999999999999999--9999999999-99999999---999999-9999999999999999999999999999999999999999999----------99999-9999999999999999999999999999999999--999999-------------------------------------99999999999999999999999999999999999999999------9999-------------
+i canFam2.chr1 C 0 I 32
+s felCat3.scaffold_217398 159481 274 - 219823 TTTTCAAAAGCACTCTCGCAGAATTAACTGAAAATGTGGACTA----------TACTCATTATATGGGAAATGGGGTTGAATTCTATTCTTGGCAATGGAAAATCCTTGGGGCACGCAAAT--GGCAATGCTC-TGCTTTTGTTTTTTTCC-CTTGCATGGGGAGCCCTTGTCCTGAGCACCCCAGGAACCCCTGCCCCCCCCCCCCCCC-CGTTCTGTGGGCCTTTCTTCTTCTTGCCCTTTTT--ACCTTT-------------------------------------GGCCCCCGGC-TCTGCTCTTTTGCCCTTTGTTT---CCCTG------A----------------
+q felCat3.scaffold_217398 9999999999999999999999999999999999999999999----------99999999999999999999999999999999999999999999999999999999999999999999--9999999999-99999999999999999-9999999999999999736599699596999969877999528399999999999999-9999999999999999999999999999999999--999999-------------------------------------9999999999-9999999999999999999999---99999------9----------------
+i felCat3.scaffold_217398 C 0 C 0
+s equCab1.chr31 13090370 272 + 24938454 TTATCAAAAGCACTCTTGTAGAATTAACTGAAAATGTGGGCCA----------CCCTTATTACGTGAAAGATGGGATTGAATTCTGTTCCTGGCAGTGGAAAACAGTTGGTGCACCCAAAT--GACCATACTC-TGCTTTTGTCTTTTCTC-CTTGCATGAGGAGCACTCATCCTCAGCACCATAGGAAACCCTG---------CTCCCC-TGCCCCGCCTGCC-TTCTTCCTCTTGCCCTTTTT-CACCTTT-------------------------------------GCTCTCTGACTTTTGACCTCTTGCTCTGCTCTTTTGCATTT------GTGT-------------
+q equCab1.chr31 9999999999999999999999999999999999999999999----------99999999999999999999999999999999999999999999999999999999999999999999--9999999999-99999999999999999-9999999999999999999999999999999999999999999---------999999-9999999999999-99999999999999999999-9999999-------------------------------------99999999999999999999999999999999999999999------0999-------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13772492 269 - 95030419 TGATCAAAAGTGCTCTTGTTGAATTAGCTGAAAATGTGGACTA----------TGCTTATTACATGGGAAGTGGGATTGGATCCTCTTCTTGGCAGTGGCAAATACTTTGTGCACTCAAAT--GACAGAAC-C-TAC-TCTGTCTCTTCTC-CTTGCATGGGGAGCCCTTGCCCTGAGTGCCCCAGGAAACCctg----------cttcc-tgctctgcttgcctttcttcttcttgccttttcctcaccttc-------------------------------------accctct-acttttggcctctttttctgctttttT-CCTTT------GTGA-------------
+q bosTau3.chr9 9999999999999999999999999999999999999999999----------99999999999999999999999999999999999999999999999999999999999999999999--99999999-9-999-9999999999999-9999999999999999999999999999999999999999999----------99999-999999999999999999999999999999999999999999-------------------------------------9999999-999999999999999999999999999-99999------9999-------------
+i bosTau3.chr9 I 168 I 1
+s loxAfr1.scaffold_4233 99105 308 + 124190 TTGTCAAAAGCACACTTGTAGAATTAGCTGAAAATTCAAACTA----------CTCTCATTATATGGGAAATGGGATTGAATTCTATTCTTGGAAGTGGAAAATACTTGGGGCCCACAAACAAAAGAAAACTC-TGCTTTTGTCTTCTCTC-AT-----GGGGAGCACTCATCCTGAGCCT-CTGGGCAGCTTTG----------TTCCC-TGCTCTCTGGGCCTTGATTCCATTTGCCCTTTTT-AACCTTTAAACCAGTGactgtcaagttgattccaactcatggcaaccccatgtgtgtcagagtagaactgtgctccatagggttttcagtgg----------------
+q loxAfr1.scaffold_4233 9999999999999999999999999999999999999999999----------99999999999999999999999999999999999997999999999999999999999999999999999999999999-99999999999999999-99-----9999999999999999999999-9999999999999----------99999-9999999999999999999999999999999999-99999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----------------
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+
+a score=-22925.000000
+s mm9.chr10 3234799 21 + 129993255 ---------------------------------TTAGGGAAGCAGCTGAGGAAA
+s rn4.chr1 230053670 21 - 267910886 ---------------------------------TTAGTGAGGCAGTGGAGGAAA
+q rn4.chr1 ---------------------------------999999999999999999999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 128870 2 - 169015 ---------------------------------tt-------------------
+q cavPor2.scaffold_284118 ---------------------------------99-------------------
+i cavPor2.scaffold_284118 C 0 I 263
+s calJac1.Contig1260 123309 19 - 523245 -----------------------------------CCTGATGCAGCCCAAACCA
+i calJac1.Contig1260 C 0 I 8
+s otoGar1.scaffold_85251.1-136255 33873 16 - 136255 --------------------------------------GATGCAGCTCAAACCA
+q otoGar1.scaffold_85251.1-136255 --------------------------------------9999999999999999
+i otoGar1.scaffold_85251.1-136255 C 0 I 10
+s equCab1.chr31 13090642 2 + 24938454 ---------------------------------TT-------------------
+q equCab1.chr31 ---------------------------------99-------------------
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13772762 1 - 95030419 ----------------------------------T-------------------
+q bosTau3.chr9 ----------------------------------9-------------------
+i bosTau3.chr9 I 1 C 0
+s loxAfr1.scaffold_4233 99413 54 + 124190 ttgattttttcagaagtagattgccaggccttttttccaaggtacctcagggta
+q loxAfr1.scaffold_4233 999999999999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108557459 83 + 167655696 I
+e felCat3.scaffold_217398 159755 0 - 219823 C
+e canFam2.chr1 78297481 32 - 125616256 I
+e tupBel1.scaffold_114895.1-498454 438948 195 - 498454 I
+e hg18.chr6 16142156 75 - 170899992 I
+e panTro2.chr6 16667892 75 - 173908612 I
+e ponAbe2.chr6 16454692 72 - 174210431 I
+
+a score=-91256.000000
+s mm9.chr10 3234820 69 + 129993255 -------------------------------------------------------TCTTGGGATTTCTCC---------------AATTTGAGGCTCCCAGGTTAC-----------------------------------------------------CCTAGTTGTATCCCTGCCATCCACTAGGGGGCT----------------
+s rn4.chr1 230053691 69 - 267910886 -------------------------------------------------------TCTTAGGATTTCTCC---------------AATTTGAGGCTCCCAGGTTAC-----------------------------------------------------CCTAGCTGTATCCATGCCATCCACTAGGGGGCT----------------
+q rn4.chr1 -------------------------------------------------------999999999999999---------------999999999999999999999-----------------------------------------------------999999999999999999999999999999999----------------
+i rn4.chr1 C 0 C 0
+s calJac1.Contig1260 123336 44 - 523245 -------------------------------------------------------TTTCCTAGATTCATT-----------------CTCTGTGCTCAGA--CTAT----------------------------------------------------------CTGTTTGATTTG--------------------------------
+i calJac1.Contig1260 I 8 C 0
+s otoGar1.scaffold_85251.1-136255 33899 50 - 136255 -------------------------------------------------------TCTCTTGGCTTTGAC-----------------CTCCATCCTCCAA--CCAT----------------------------------------------------------CTCTTTCCTTGGGTTTCT--------------------------
+q otoGar1.scaffold_85251.1-136255 -------------------------------------------------------999999999999999-----------------9999999999999--9999----------------------------------------------------------999999999999999999--------------------------
+i otoGar1.scaffold_85251.1-136255 I 10 C 0
+s tupBel1.scaffold_114895.1-498454 439143 41 - 498454 -------------------------------------------------------TCTAATGATTTCTCC---------------AGTTCCAGGCTTCAAGGCTAC-----------------------------------------------------CCTGG--------------------------------------------
+q tupBel1.scaffold_114895.1-498454 -------------------------------------------------------233364402211114---------------213512235234332542342-----------------------------------------------------43335--------------------------------------------
+i tupBel1.scaffold_114895.1-498454 I 195 I 5294
+s felCat3.scaffold_217398 159755 4 - 219823 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGCA--------------------------
+q felCat3.scaffold_217398 ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------9999--------------------------
+i felCat3.scaffold_217398 C 0 I 3
+s equCab1.chr31 13090644 62 + 24938454 -------------------------------------------------------TCTTGATGCCCTTCA---------------AACCACAGTTACCTCTGTTCC--------------------------CAG------------------------ATTTGCTGTCTATGCTCTGTGCA--------------------------
+q equCab1.chr31 -------------------------------------------------------999999999999999---------------999999999999999999999--------------------------999------------------------99999999999999999999999--------------------------
+i equCab1.chr31 C 0 I 20
+s bosTau3.chr9 13772763 63 - 95030419 -------------------------------------------------------TCTTGATGCAGTTCA---------------AACCCTGGCCACCTCTGTTCCT-------------------------CGG------------------------ATTTGCTCTGTCTGCTCAGTCCA--------------------------
+q bosTau3.chr9 -------------------------------------------------------999999999999999---------------9999999999999999999999-------------------------999------------------------99999999999999999999999--------------------------
+i bosTau3.chr9 C 0 I 18
+s loxAfr1.scaffold_4233 99467 198 + 124190 tatttgagcctccaaccttttggttcgcTACACAGTGCATTCATCATTTGTACCACCTAGGGACTCCTTTTCCCCTTTATTCCTGAGTTTTGGCCTCTTGGTCTGCCCGTTAACATTAGTGTTTTCCCAGTGCAGCTCAAACCAAAATGAGCTCTGTTCCCTAGATTTGCCTTCCACATTCA----------GGCCTTTTCCCACCCT
+q loxAfr1.scaffold_4233 99999999999999999999998999999999999999999999999999999999999999999999999999999999999998999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999997----------9999999999989999
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e rheMac2.chr4 108557459 83 + 167655696 I
+e canFam2.chr1 78297481 32 - 125616256 I
+e cavPor2.scaffold_284118 128872 263 - 169015 I
+e hg18.chr6 16142156 75 - 170899992 I
+e panTro2.chr6 16667892 75 - 173908612 I
+e ponAbe2.chr6 16454692 72 - 174210431 I
+
+a score=1214207.000000
+s mm9.chr10 3234889 556 + 129993255 --------GTACTTAGGACTGG---------GGCAAATTGCCTGGGCAATTGCAGGAATAA---AGAAACAGCAGAGCCC--ATAGACCTTG-CTGTTTGGAAGCTCTTGATGTGTGTGC--TTTGAACCCCACAGGG-AGATGAAAATATACTTGACAAGAAGACTTGAAACAGAATTGGT----GA----------------TGACTGATAGCTCTCCTAGGGGCTAGGGAGGA----------GTCCCTTTTGTTGTGGCTTTCTGTTG---TTCTGTTT-------CACTAACTTCTGCTCT-CTCCTTTC--------------TCCTTTGGTGACAATAGTCACCctctttcactctttccctcttccttctcctcctccctc-agtttttctcttcctcctcttcattttccA------CTTGT [...]
+s rn4.chr1 230053760 547 - 267910886 --------GTTCCTAGGACTGG---------GGCAAATTTCCTGGGCAATTGGAGGAATAA---AGAAACAATGGAGCCC--ACAGAGCTTG-CTGGTTGGAAGCTCTTGATGTGTACAC---------------GGG-AGGTGTAGGTATACTCGACAAGAGGACTTGAAACAGAATTGGC----AAtgactgactgactgactgactgacGGCTCTCCTAGGGGTTAGAGAGGA----------GTCTCTTTCCTTGTGGCTTTCTGTT----CTATGTTT-------CACTGATTTCTGCTCT-TTACCGTCTCTGTTTCTCTACTTCCTTTGGTGACAACAGTCACC--------CTCTTTCcctcttccttctcctcctccccctcattgttctctccctcctcttccCTTTTCA------TCTCT [...]
+q rn4.chr1 --------99999999999999---------999999999999999999999999999999---9999999999999999--9999999999-999999999999999999999999999---------------999-9999999999999999999999999999999999999999999----99999999999999999999999999999999999999999999999999----------9999999999999999999999999----99999999-------9999999999999999-99999999999999999999999999999999999999999999--------9999999999999999999999999999999999999999999999999999999999999------99999 [...]
+i rn4.chr1 C 0 C 0
+s ponAbe2.chr6 16454764 522 - 174210431 --------GTTCCTGTGATGAA---------AGAAAATGTATTTGGCCGTTGGAGGTATAAGCAACAAAGAATCCAACCC--ACGCAGCTTT-ATATATGCAGGTTCTCGATATGCTCTTCTTGTGAACAGCGTGGGG-AGAGGAAAATAGACTTGGCAAGAGGAC-----AAGCCATTGGA----CA--------------GTTATCTGATGGCTTTCCTAAGGTTCAGGaaagaac----agtggtcccttt-gttgggcctttctgttgtttctttgttttcaatttcactgatttctgcttt-ttattttctattttcttctgcttcctttggaa--------------------ttcttc---------------------------------ttctttttttttttactt----------cttGT [...]
+i ponAbe2.chr6 I 72 C 0
+s panTro2.chr6 16667967 530 - 173908612 --------GTTCCTGTGACGAA---------AGAAAATGTATTTGGCCATTGGAGGTATAAGCAACAAAGAATCCAACCC--ACACAGCTTT-ATATATGCAGGTTCTCGATATGCTCTTCTTGTGAACAGAGTGGGG-AGAGGAAAATAGACTTGGCAAGAGGACTAAGAACAGAATCGGA----CA--------------CTTATCTGATGGCTTTCCTAAGGTTCAGGaaagaac----agtggtcccttt-gttgggcctttctgttgtttctttgttttcaatttcactgatttctgcttt-ttattttctattttcttctgtttcctttggaa--------------------ttcttc------------------------------tttttttttttttttttactt----------cctGT [...]
+q panTro2.chr6 --------99999999999999---------9999999999999999999999999999999999999999999999999--9999999999-999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999----99--------------999999999999999999999999999999999999----999999999999-099999999999999999999999999999999999999999999999999-99999999999999999999999999999999--------------------999999------------------------------999999999999999999999----------99999 [...]
+i panTro2.chr6 I 75 C 0
+s hg18.chr6 16142231 534 - 170899992 --------GTTCCTGTGACGAA---------AGAAAATGTATTTGGCCATTGGAGGTATAAGCAACAAAGAATCCAACCC--ACACAGCTTT-ATATATGCAGGTTCTCTATATGCTCTTCTTGTGAACAGCGTGGGG-AGAGGAAAATAGACTTGGCAAGAGGACTAAGAACAGAATCGGA----CA--------------GTTATCTGATGGCTTTCCTAAGGTTCAGGaaagaac----agtggtcccttt-gttgggcctttctgttgtttctttgttttcaatttcactgatttctgcttt-ttattttctattttcttctgtttcctttggaa--------------------ttcttc--------------------------tttttttttttttttttttttaCTT----------CTTGT [...]
+i hg18.chr6 I 75 C 0
+s rheMac2.chr4 108557542 530 + 167655696 ----------------GATGGG---------TGAAAATGTATTTGGCCATTGGAGGTATAAGTAACAAAGAATCCAACCC--ACACAGCTTT-ATATATGCAGGTTCTCGATACGCTCTTCTTATGAACAGCATGGGG-AGAGAAAAATAGACTTGGCAGGAGGACTAAGAACAGAATCGGA----CA--------------GTTATCTGATGGCTTTCCTGAGGTTCAGGAAAGAAC----AGTGGTCCCTTT-GTTGGGCCTTTCTGTTGTTTCTTTGTTTTCAATTTCACTGATTTCTGCTCT-TTATTTTCTCTTTTCTTCTGTTTCCTTTGGAA--------------------TTCTTCCTT----------------------TTTTTTTTTTTTTTTTTTTTTTACTT----------CTTGT [...]
+q rheMac2.chr4 ----------------999999---------9999999999999999999999999999999999999999999999999--9999999999-999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999----99--------------999999999999999999999999999999999999----999999999999-999999999999999999999999999999999999999999999999999-99999999999999999999999999999999--------------------999999999----------------------99999999999999999999999999----------99999 [...]
+i rheMac2.chr4 I 83 C 0
+s calJac1.Contig1260 123380 499 - 523245 --------GTTCCTGTGATGGA---------AGAAAATGTATTTGGCCATTGGAGGTATAAGCAACAAATAATCCAACCC--ATGCAGCTTT-ATAGATGTGGCTTCTCGATGTGCTCCTCTTGTGAACAGCATGGGA-AGAGGAAAATGGACTTGGCAAGAGGACTAAGAACGGAATTGGG----CA--------------GCTATCTGCTGGCTTTCCTAAGGGTCAGGGAAGAAC----AGCGGTCCcttt-gttgggcctttctgttgtttctttgttttcaaattcgctgatttctgctct-ttattttctattttatttgatttcctttgga-------------------------------------------------------------tttttttttttttactt----------cttgt [...]
+i calJac1.Contig1260 C 0 C 0
+s otoGar1.scaffold_85251.1-136255 33949 489 - 136255 --------------GTGATGGT---------GAACACTTTATTTAGCAATTGGAGGAATAAGCAAC-AATAATCCAGCCC--ACAC---------ATATGCAGCCTGTCAGCGTGTTCTTCTTTTGAACAGCATGGGGAAGATGAAAATACACTTGGCAGGAGGAGTGGGAACAGAAGCAGG----CA--------------GCGATATGATGGATTTCCCAAGATTCAAGaaagaac----agctgtccttgt-gttgggccttcctgttgtttctttgttttccttttcactgatttctattct-ttactttctcttttcttctatctctgttggg-----------------------------------------------------------------tttattctcgctt----------cttGT [...]
+q otoGar1.scaffold_85251.1-136255 --------------99999999---------99999999999999999999999999999999999-9999999999999--9999---------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999----99--------------999999999999999999999999999999999999----999999999999-999997999999999999999999999999999999999999999999999-9989999999899699999959997996999-----------------------------------------------------------------9997489675997----------97688 [...]
+i otoGar1.scaffold_85251.1-136255 C 0 I 1359
+s cavPor2.scaffold_284118 129135 453 - 169015 -------------------TGG---------AAAAATTTTATTTGGCAACTGGAGGAATAA-----GAACAAAGAATCTAGGATGGAGCTTT-CC------aggtttttcttctgttctt---ttgagTAGCACAGGG-AGA-GAAAATACGCTTGGCAGAGGGACC---ACCAAGAATGGC----GT--------TGCGCAGCCATCCGATGATTTCCCGAAGTTCAGGAAAGCA-C----AGCTGTCCcttt-gttgggcttctctgtt----gtttgttt--------------------ttt-ctttcatt--------------gtttttggtg--------------------cttt---------------------------aat--ttcccttttatctatttcctttaaaaaacattGTAT [...]
+q cavPor2.scaffold_284118 -------------------686---------366758655675324576617964787977-----97684457989864898347766797-89------6977766679876748999---456767577798777-997-989989788986666779787899---899999983749----99--------9979997998999999989999999999999999999999-9----999899999998-9987999999999999----99989899--------------------999-99999999--------------9999999999--------------------9999---------------------------999--999999999999999999999999999999949999 [...]
+i cavPor2.scaffold_284118 I 263 C 0
+s felCat3.scaffold_217398 159762 497 - 219823 --------------GCAATGGGAGAAAACACAGCACATTTATTTGGCAGTTAGGGAAATGAGCAAC--CCGATCCAGCCC--ATGCAGCTTC-GTACATGTGGAGTCTCAACACAGTCTTC---TGAACAGTGTGGGG-AGATGAAAACGC-CCTGGCAAGGAGTTAAGG-GCAGAGGTGAG----CA--------------GTTACCTGATGGCTCACCCAGAGTTCGGGGAAGAA------------CCAtt-gtggagactttccgctgcttctttgttttccatttcatcgatttctgctcttttattttctccgtcactccatttcctttgggt--------------------ttattctg----------------------------gcttgttttgttctTTAA-TG----------CTTAT [...]
+q felCat3.scaffold_217398 --------------9999999999999999999999999999999999999999999999999999--999999999999--9999999999-9999999999999999999999999995---99999999999999-999999999999-999999999999999999-99999999999----99--------------99999599999999999999999999999999999------------99999-999999999999996995999999999999999999998999995999999999999999999999999999999999999999--------------------99999989----------------------------999999999999999999-99----------99999 [...]
+i felCat3.scaffold_217398 I 3 C 0
+s equCab1.chr31 13090726 512 + 24938454 --------------GCAGTGGGAGAAAATCCAGTACATTTATTTGGCAGTTGGAGGAATAAGCAACAAATAATCCAGCCC--ATGCAGCTTC-ATATACATAGGCTTTCAGTGTGTTCTTCTTTTGAGCAGCATGTGG-TGGTGGAAATACATTTGGTGAGGAGACTATGAACAGAGTTGGG----CA--------------GTTAGCGGATGGCTTTTCTAAGGTTCGGGAAAGAACAGCTAGCTGTCCCTTG-GTGGAGACtttctgctgctgctttgttttccatttcattaatttttgctctgttattttctccttgcttctatttcctttggat--------------------ttattctg----------------------------------ttTGTTTC---ACTT----------CTTGT [...]
+q equCab1.chr31 --------------999999999999999999999999999999999999999999999999999999999999999999--9999999999-999999999999999999999999999999999999999999999-9999999999999999999999999999999999999999999----99--------------9999999999999999999999999999999999999999999999999999-999999999999999999999999999999999999999999999999999999999999999999999999999999999999--------------------99999999----------------------------------99999999---9999----------99999 [...]
+i equCab1.chr31 I 20 C 0
+s bosTau3.chr9 13772844 519 - 95030419 --------------ACATTGAGAAAACATA--GCACATTTATTTGCCAATTGGAAGAACAAGAAACAAGTACTCCGGCCC--ATTCAGTTTC-ATATATGTCGGCTCTCAGTGTGTTCTTT---CGAATAGTGTGGAG-AGATGGAAACACGTTTGACAAGGGGTCCAAGGCCAGGGTTGGGCAATCA--------------ATTACCTGATGGCTTTTCTAAGGCTCAGGaaagaac----agttgttcctct-gctgag--ttt--gatgattctttgttttccatttcattgctctttgcttttttattttctcc----ttccatttcctttgggt--------------------tt-tgctgt------------------------tttttttttttttttttttaattt----------cttgT [...]
+q bosTau3.chr9 --------------9999999999999999--999999999999999999999999999999999999999999999999--9999999999-9999999999999999999999999999---99999999999999-9999999999999999999999999999999999999999999999999--------------999999999999999999999999999999999999----999999999999-999999--999--99999999999999999999999999999999999999999999999999----99999999999999999--------------------99-999999------------------------999999999999999999999999----------99999 [...]
+i bosTau3.chr9 I 18 C 0
+s canFam2.chr1 78297513 471 - 125616256 -------------------------------AGCACATTTGTTTGGCACTTGGAGAAATA---------------AGCCC--ATACAACTTCAGTACA--TAGGGTCTCAATGAGTGCTTCTTGTGAGCAGTGTGGGG-AGATGAAAACACTCTTGGCAAGGAGAGTAA----------GAG----CT--------------GTTATCTGATGGCTTTTCCAGAGTTCAGGGAAGAAC----AGCTGTCCTGTT-GTTGAGActgt--actgcttctttgttttccatttcagcaatttctgcccttgtaccttctccttcattctgtttcctttgggt--------------------ttattctg----------------------------gtttggtttgttttttaactt----------cttAT [...]
+q canFam2.chr1 -------------------------------99999999999999999999999999999---------------99999--9999999999999999--99999999999999999999999999999999999999-999999999999999999999999999999----------999----99--------------999999999999999999999999999999999999----999999999999-99999999999--99999999999999999999999999999999999999999999999999999999999999999999999--------------------99999999----------------------------999999999999999999999----------99999 [...]
+i canFam2.chr1 I 32 C 0
+s loxAfr1.scaffold_4233 99665 549 + 124190 TTACTTTGGTGCCTGTGATGGTAGAAAATACAGTAACTTTATCTGGCACTTGAAGGACTATGTAACAAATAACCCAACCC--ATATAGCTTC-ATATAAGCCGGTTCTCAATTTGTTCTTT---TGAACAGCATGGGG-ACCTGGAGATACACTTGGCAAGAGGACTAAGAACAGAATTGGG----CA--------------GTTACCGGATGGTTTTCCTAAGGTGCGGGTGAGAGC----AGCTGTCCCctttgttaagcctctctattgtttctttgttttccattttgtagatttctgctct-ttattttc--------------tcttccg-----------------------ttctgg---------------------------------atttatcccgtttgggtt--------------t [...]
+q loxAfr1.scaffold_4233 99999999999999999999989999998999999999999999999999999999979999999999999999989999--8999999999-6999999999989999999999899999---97999799999999-7989999998999999988999999999999989999998999----99--------------999998999699999998999987979986997979----9998999999998999999999997999799997799889999999997847679997999889-99999976--------------8879999-----------------------963344---------------------------------587745291476699999--------------7 [...]
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+
+a score=97767.000000
+s mm9.chr10 3235445 53 + 129993255 TACCCTGGCTTCATTTATCTCCATGGAA------GGCTGGGGGGATGGGCCATGGGAAA
+s rn4.chr1 230054307 40 - 267910886 TCCCCTGGC----CTTACCTCCATGGAA------GGCTGGGGCAGGGGTC---------
+q rn4.chr1 999999999----999999999999999------9999999999999999---------
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 129588 43 - 169015 TACCCTGGG-------ATTTTCGTGTAGTCAACTAGATGGGAAAGTAAGA---------
+q cavPor2.scaffold_284118 978996899-------7799979499789999997894989997999699---------
+i cavPor2.scaffold_284118 C 0 C 0
+s ponAbe2.chr6 16455286 48 - 174210431 GACCCAGGC----ATTATCCACCTGGTA------AATTGGGGGATGGGCCCCAGGAAA-
+i ponAbe2.chr6 C 0 I 9
+s panTro2.chr6 16668497 48 - 173908612 GACCCAGGC----ATTACCCACCTGGTA------AATTGGGAGATGGGTCCCAGGAAA-
+q panTro2.chr6 999999999----999999999999999------999999999999999999999999-
+i panTro2.chr6 C 0 I 167
+s hg18.chr6 16142765 48 - 170899992 GACCCAGGC----ATTATCCACCTGGTA------AATTGGGAGATGGGTCCCAGGAAA-
+i hg18.chr6 C 0 I 166
+s rheMac2.chr4 108558072 48 + 167655696 GACCCTAGT----ATTACCCACCTGGTA------AATTGGGGGATGGGCCTCAGGAAA-
+q rheMac2.chr4 999999999----999999999999999------999999999999999999999999-
+i rheMac2.chr4 C 0 I 167
+s calJac1.Contig1260 123879 48 - 523245 gaccctggc----attatccacctggta------aattgggggaTGGGCCCCAGAAAA-
+i calJac1.Contig1260 C 0 I 5
+s canFam2.chr1 78297984 47 - 125616256 CACCCT-GC----ATTATCCATCTGGTA------GATTGGAGTATGGGCCATGTGAAA-
+q canFam2.chr1 999999-99----999999999999999------999999999999999999999999-
+i canFam2.chr1 C 0 I 8
+s felCat3.scaffold_217398 160259 41 - 219823 -------GC----ATTATCTGCCTGGTA------GGTTGAGGTGCAGGACCTGTGAAA-
+q felCat3.scaffold_217398 -------99----999999999999999------999999999999999999999999-
+i felCat3.scaffold_217398 C 0 I 8
+s equCab1.chr31 13091238 47 + 24938454 TACTCT-GC----ATTATTCATGGGGTA------GATTGGGGTGTGGGACATGGGGAA-
+q equCab1.chr31 999999-99----999999999999999------999999999999999999999999-
+i equCab1.chr31 C 0 I 8
+s bosTau3.chr9 13773363 48 - 95030419 ttccctggc----attatccatctggta------gaccggggtatgagaCATGAGAAA-
+q bosTau3.chr9 999999999----999999999999999------999999999999999999999999-
+i bosTau3.chr9 C 0 I 8
+s loxAfr1.scaffold_4233 100214 47 + 124190 taccctggC----ATTATCCATTGGATA------GACTGGG-CATGGGGCATGGGAAA-
+q loxAfr1.scaffold_4233 979996899----999999999468999------9997999-9989999996998999-
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+e otoGar1.scaffold_85251.1-136255 34438 1359 - 136255 I
+
+a score=-65191.000000
+s mm9.chr10 3235498 33 + 129993255 --------CAGCACCCAAT-CC---------------CCTGG-------------------------------------------GCTCAGCAATT--------AGTG
+s rn4.chr1 230054347 28 - 267910886 -------------CCCAAT-CC---------------CCTTG-------------------------------------------GCTCCACAATG--------AGTG
+q rn4.chr1 -------------999999-99---------------99999-------------------------------------------99999999999--------9999
+i rn4.chr1 C 0 C 0
+s cavPor2.scaffold_284118 129631 37 - 169015 ------------ACTCAGT-CA---------------ACCTG-------------------------------------------GCTTAGAAATGTCAGTcctggtg
+q cavPor2.scaffold_284118 ------------9999999-99---------------69969-------------------------------------------99998999999999989949978
+i cavPor2.scaffold_284118 C 0 I 385
+s hg18.chr6 16142979 87 - 170899992 -----------taa-caac-caggcttggtggtgtacacctgtggtcccagctatttgggaggctgaggtgggataatcgctggagcccaggagtt--------tgag
+i hg18.chr6 I 166 I 86
+s panTro2.chr6 16668712 87 - 173908612 -----------taa-caac-caggcttggtggtgtacacctgtggtcccagctatttgggaggctgaggtgggagaatcgctggagcccaggagtt--------tgag
+q panTro2.chr6 -----------999-9999-9999999999999999999999999999999999999999999999999999999999999999999999999999--------9999
+i panTro2.chr6 I 167 I 87
+s ponAbe2.chr6 16455343 21 - 174210431 ---------------CAAC-CA---------------ACCTG-------------------------------------------GCCTAGAAAT-------------
+i ponAbe2.chr6 I 9 I 3188
+s rheMac2.chr4 108558287 47 + 167655696 -----------TAA-CAAC-CAGGCTTGGTGGTGCACACCTGTGGTCCCAGCTAT----------------------------------------T--------TGGG
+q rheMac2.chr4 -----------999-9999-99999999999999999999999999999999999----------------------------------------9--------9999
+i rheMac2.chr4 I 167 I 126
+s calJac1.Contig1260 123932 30 - 523245 -----------TACTCAAC-CA---------------ACTTG-------------------------------------------GCCTAGAAATG--------ATAG
+i calJac1.Contig1260 I 5 I 1449
+s canFam2.chr1 78298039 29 - 125616256 --------TCATA----AA-CA---------------ACTCA-------------------------------------------GCCTAGAAACG--------ATGA
+q canFam2.chr1 --------99999----99-99---------------99999-------------------------------------------99999999999--------9999
+i canFam2.chr1 I 8 C 0
+s felCat3.scaffold_217398 160308 30 - 219823 --------GCATA----AACCA---------------ACTTA-------------------------------------------GCCTAGAAATG--------ATGA
+q felCat3.scaffold_217398 --------99999----99999---------------99999-------------------------------------------99999999999--------9999
+i felCat3.scaffold_217398 I 8 C 0
+s equCab1.chr31 13091293 33 + 24938454 --------TCATAGTTGAA-CA---------------ACTTG-------------------------------------------GCCTAGAAATG--------ACAA
+q equCab1.chr31 --------99999999999-99---------------99999-------------------------------------------99999999999--------9999
+i equCab1.chr31 I 8 C 0
+s bosTau3.chr9 13773419 33 - 95030419 --------GAGTAGTTAAC-TA---------------TGTTG-------------------------------------------GCCTAGAAATG--------ACAG
+q bosTau3.chr9 --------99999999999-99---------------99999-------------------------------------------99999999999--------9999
+i bosTau3.chr9 I 8 C 0
+s loxAfr1.scaffold_4233 100261 41 + 124190 GTGAAACTGGATACTTAGC-CA---------------GCTTG-------------------------------------------GCCTAGAAGTG--------ACAA
+q loxAfr1.scaffold_4233 9799999599899899879-99---------------99975-------------------------------------------69998999976--------6997
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+e otoGar1.scaffold_85251.1-136255 34438 1359 - 136255 I
+
+a score=430857.000000
+s mm9.chr10 3235531 196 + 129993255 TCACAGCTACTTTACCTG---------------------------------------------CATGGAAAGGTAACAAAGGGGTGCTGTTA-AGATCAATGGTCTCTTCCATATTTCTCAACCTGAATATTTA-CTTCATAATATG-------AATTTTTAAAAAATAGTGGTCAAGAC--TACATTTTCCTTGAAATGTTGCCTTTGCCATATTTCTCAGTGTTTGGTTT-GCACTGTTTTTATTACTATT
+s rn4.chr1 230054375 193 - 267910886 TCACAGCTGCTT----------------------------------------------------ACAGAAAGGTGATAAAGAGATATTGTTA-AGATCAAAGGTCTTTTCTGCACTCCTCAACTTGAATACTTA-CTTCACAATATG------TATtttttttagaataatggtcaagactgtacattttccttgaaatcctacttttgccatatttcccagtgtttggcttggcaatgttttcattagcgtt
+q rn4.chr1 999999999999----------------------------------------------------9999999999999999999999999999-99999999999999999999999999999999999999999-999999999999------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16143152 202 - 170899992 TCACAGCCACTGCAACTT---------------------------------------------CAAGGAAGGTTGGGAGAGTGATATTGGTCAGGATGAGTGGTCTCTGACATgtttcttaagttggatatttagcttattaatttacaac---tcttttctaatattaatactcaagac--tacattttccccaaaacatttattttgccatgttttgcaaggcttggtat-atggcattttcattactctt
+i hg18.chr6 I 86 C 0
+s panTro2.chr6 16668886 205 - 173908612 TCACAGCCACTGCAACTT---------------------------------------------CAAGGAAGGTTGGGAGAGTGATATTGGTCAGGATGAGTGGTCTCTGACATgtttcttaagttggatatttagcttattaatttacaactcttcttttctaatattaatactcaagac--tacattttccccaaaacatttattttgccatgttttgcaaggcttggtat-atggcattttcattactctt
+q panTro2.chr6 999999999999999999---------------------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999-99999999999999999999
+i panTro2.chr6 I 87 C 0
+s rheMac2.chr4 108558460 205 + 167655696 TCACAGCCACTGCAACTT---------------------------------------------CAAGGAAGGTTGGGAGAGTGATACTGGTCAGGATGAATGGTCTCTGACATGTTTCTTAAGTTGGATATTTAGCTTATTAATCTACAACTCTTCTTTTCTAATATTACTACTCAAGAC--TGCATTTTCCCCAAAACATTTCTTTGGCCATGTTTTGCAAGGCTTGGTAT-ATGGCACTTTCATTACCTTT
+q rheMac2.chr4 999999999999999999---------------------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999--99999999999999999999999999999999999999999999999999-99999999999999999999
+i rheMac2.chr4 I 126 C 0
+s cavPor2.scaffold_284118 130053 194 - 169015 ------------TAACTG---------------------------------------------CAAGGAAGTTTGGAAAAGGGATATTGGTAGGGATTAATCATCCCTGCCATGTTTCTTAAATTGGATAGTTA-ACCGTTAATATATGGATTTACTTTCCCAGTATTAATACCCAAGACTACAAGTTTCCCTTGATATGTTACTTTTATCATATTTCATAAAGTTTggttt-gtaatgtttttattatcaTT
+q cavPor2.scaffold_284118 ------------798765---------------------------------------------99485956798659995997775948799999999649959794799977699959979994999998998-7999999997997999999999999999899999897999999999799999999999999997879999999899999999999999999699998-99999999999999999998
+i cavPor2.scaffold_284118 I 385 C 0
+s canFam2.chr1 78298068 185 - 125616256 TCATGG-CAC-----------------------------------------------------CAAGGGCAGAAGGGAAAGGGATATTAGTGAGGACTAGTGGTTTCCACCATgtttcataagttggctacttagctcattaatatacag-----cttctaaaatactaatatttaagactataagtttcccttgaaacattacttt-----tattttacaagatttggtat-gtcgtattttcattatt---
+q canFam2.chr1 999999-999-----------------------------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----9999999999999999999999999999999999999999999999999999-----99999999999999999999-99999999999999999---
+i canFam2.chr1 C 0 C 0
+s felCat3.scaffold_217398 160338 202 - 219823 TCACGGCCACCCTCGCTG---------------------------------------------CAAGTGAGGATGGGAAAGGGATATCGGTGAAGAGTAGTAGTTTCTGCCATgtttcttaagttgggtacttcgctcattaatatataa-----ttcctaaaatactagtacttaagactgtaagtttcccttgaaacatcacttttgctgtatttcacaaggtttggcat-gtagtattctcattatcatt
+q felCat3.scaffold_217398 999999999999999999---------------------------------------------999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-----99999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999
+i felCat3.scaffold_217398 C 0 I 19177
+s equCab1.chr31 13091326 207 + 24938454 TCATGGCCACTTTAACTG---------------------------------------------CCAGCGAGATTGGGAAAGGGTTATTGGTGAGGACTAATGGGCTCTGCCATgtttcttaagttggatacttagctcatcagcatacaacttttcttttctaatatcaacacttaaaagtataaatttctctcaaaacattacttttgctatatttcacaagatttggaat-gtagaattttcattctcatt
+q equCab1.chr31 999999999999999999---------------------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13773452 206 - 95030419 TCGTGGCCAC-CTTACTA---------------------------------------------CAAGGGAGGTTCGGAAAGGGATATTGGTGAGAACTAATGGTCTCTGCCATgttccctaagttggatacttagttcattaatatatgatttttcttgtctaatgttaacactcaaggctataaatttccttcgaagcattacttttgctacattttacaaggtttggtgt-gtaatgttttcattaccatt
+q bosTau3.chr9 9999999999-9999999---------------------------------------------9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 100302 251 + 124190 TCACGGCCACCGTAACTGGAAGTTGTTGTTGTGTGCCTTCAAGTCGATACTGACTCATAACTAGAAGGGGAGTTGGGAAATGGTTATTG-TGAGGATTAATGGTTTCTGCCATgtttcttaggttggatacttaactcattaacataccccctttcttttctaatattaacatttaaggctatacatttccctctacacattacttttgtcctatctcacaaagtttgatat-gtagtgttttcatttctatt
+q loxAfr1.scaffold_4233 78799899799999999999999999999989999999998999999999999999999999799999999999999999999999999-9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999-99999999999999999999
+i loxAfr1.scaffold_4233 C 0 C 0
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e calJac1.Contig1260 123962 1449 - 523245 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+e otoGar1.scaffold_85251.1-136255 34438 1359 - 136255 I
+e ponAbe2.chr6 16455364 3188 - 174210431 I
+
+a score=133471.000000
+s mm9.chr10 3235727 76 + 129993255 CCAATCTAACTAA-TCTTACATCCCTGTTATTGTCTATTCTTAGATGCACATAAGATTACAAAGTTGATGTATTCTT
+s rn4.chr1 230054568 76 - 267910886 ctaatttaactaa-tcttacattcctgttattgtttattcttagatgcacataacatttcaaagttgatgtattctt
+q rn4.chr1 9999999999999-999999999999999999999999999999999999999999999999999999999999999
+i rn4.chr1 C 0 C 0
+s hg18.chr6 16143354 71 - 170899992 taattctaactaa-tttttaatttctattatgatttattatttgatctatgaatcattttgaaattt-----gtttt
+i hg18.chr6 C 0 C 0
+s panTro2.chr6 16669091 71 - 173908612 taattctaactaa-tttttaatttctattatgatttattatttgatctatgaatcattttgaaattt-----gtttt
+q panTro2.chr6 9999999999999-99999999999999999999999999999999999999999999999999999-----99999
+i panTro2.chr6 C 0 C 0
+s rheMac2.chr4 108558665 66 + 167655696 CAATTCTAACTAA-TTTTTAACTTCTATTATGATTTTTTCTTTG-----TGAATCATTTTGAAGTTT-----GTTTT
+q rheMac2.chr4 9999999999999-999999999999999999999999999999-----999999999999999999-----99999
+i rheMac2.chr4 C 0 C 0
+s cavPor2.scaffold_284118 130247 72 - 169015 GCATTCTAactaa-ctttaaatttttattatgat---ttctttgatttatgcatcatttaaaagttt-tgtactttt
+q cavPor2.scaffold_284118 9999999999999-99999999999999999999---999999999999999999999999999999-999999999
+i cavPor2.scaffold_284118 C 0 C 0
+s canFam2.chr1 78298253 75 - 125616256 cagctccatctaa-tttttaatttccattatgatttatttcttggcccatgcaccactttggagattatat-atttt
+q canFam2.chr1 9999999999999-999999999999999999999999999999999999999999999999999999999-99999
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13091533 75 + 24938454 cagttccaactaa-tttttaatttccattatgatttattctttggtccatgcatcattttgaagtttatGt-atttt
+q equCab1.chr31 9999999999999-999999999999999999999999999999999999999999999999999999999-99888
+i equCab1.chr31 C 0 C 0
+s bosTau3.chr9 13773658 75 - 95030419 taattccaactaa-tttaaaatttctgttattatttagtctttggtccacacatcatttTTAGGTTTATat-atttt
+q bosTau3.chr9 9999999999999-999999999999999999999999999999999999999999999999999999999-99999
+i bosTau3.chr9 C 0 C 0
+s loxAfr1.scaffold_4233 100553 77 + 124190 taattctaagtaattttttaatttccattataatttcttttttgacccatgcagtatcttgaagttcatatattttt
+q loxAfr1.scaffold_4233 99999999999999999999999999999999999999999999999999999999999999999999999999999
+i loxAfr1.scaffold_4233 C 0 I 583
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 160540 19177 - 219823 I
+e calJac1.Contig1260 123962 1449 - 523245 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+e otoGar1.scaffold_85251.1-136255 34438 1359 - 136255 I
+e ponAbe2.chr6 16455364 3188 - 174210431 I
+
+a score=11504.000000
+s mm9.chr10 3235803 53 + 129993255 TATTACCCTGGTGTAGGGAAGGATTT--------TAACATGCATGCATATATACATACAAG
+s rn4.chr1 230054644 50 - 267910886 taTTACCTTGGTGTAGGGAAAGGTAT--------Ttacatacata-atacatacataca--
+q rn4.chr1 99999999999999999999999999--------99999999999-9999999999999--
+i rn4.chr1 C 0 I 16
+s hg18.chr6 16143425 26 - 170899992 tgtaaccttgg-atagggaaagattt--------c--------------------------
+i hg18.chr6 C 0 I 9
+s panTro2.chr6 16669162 26 - 173908612 tgtaaccttgg-atagggaaagattt--------c--------------------------
+q panTro2.chr6 99999999999-99999999999999--------9--------------------------
+i panTro2.chr6 C 0 I 9
+s rheMac2.chr4 108558731 26 + 167655696 TATAACCTTGG-ATAGGGAAAGATTT--------C--------------------------
+q rheMac2.chr4 99999999999-99999999999999--------9--------------------------
+i rheMac2.chr4 C 0 I 9
+s cavPor2.scaffold_284118 130319 29 - 169015 tattatCTTGGGATAgcgaaaaattt--------taa------------------------
+q cavPor2.scaffold_284118 99999999999999999999999999--------999------------------------
+i cavPor2.scaffold_284118 C 0 M 26645
+s canFam2.chr1 78298328 36 - 125616256 catggctttgagttggggaaggatctcttattca-------------------------ag
+q canFam2.chr1 9999999999999999999999999999999999-------------------------99
+i canFam2.chr1 C 0 C 0
+s equCab1.chr31 13091608 26 + 24938454 tgtgacattggaattaggaaggattt-----------------------------------
+q equCab1.chr31 88888888888888889999998899-----------------------------------
+i equCab1.chr31 C 0 I 1026
+s bosTau3.chr9 13773733 26 - 95030419 tatgacattgagatagggaaggattt-----------------------------------
+q bosTau3.chr9 99999999999999999999999999-----------------------------------
+i bosTau3.chr9 C 0 I 3770
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e felCat3.scaffold_217398 160540 19177 - 219823 I
+e loxAfr1.scaffold_4233 100630 583 + 124190 I
+e calJac1.Contig1260 123962 1449 - 523245 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+e otoGar1.scaffold_85251.1-136255 34438 1359 - 136255 I
+e ponAbe2.chr6 16455364 3188 - 174210431 I
+
+a score=0.000000
+s mm9.chr10 3235856 1942 + 129993255 TTAtggctagttttgtgttaacttgacaccgctgaagttatcacagagaaaggagcttcagttgaggaaatgcctccatgagatcgaactgtaaggcattttctcaattagtgatcaaggggaaaaggccccttgtgggtgggaccaactctgggctggtagtcttggttctataagagagcaggctaagcaaaccagggtaagcaagccagtatggaacatccctccatggcttctgcatcagctcctgcttcctgatctgcttgagttccagtcctgacttcctttggtgatgaacagcagtgtggaagtgtaagccgaataaaccctttcctccccaacttgcttctgggtcatgatgtttgtgcaggaatagaaaccctgactaagacaaattggtaccagaagtggggtattcctgtgacaatct [...]
+e anoCar1.scaffold_0 8838540 11070 + 16654889 I
+e rn4.chr1 230054694 16 - 267910886 I
+e galGal3.chr3 61597224 15914 - 113657789 I
+e bosTau3.chr9 13773759 3770 - 95030419 I
+e monDom4.chr2 106280796 50352 - 541556283 I
+e equCab1.chr31 13091634 1026 + 24938454 I
+e rheMac2.chr4 108558757 9 + 167655696 I
+e felCat3.scaffold_217398 160540 19177 - 219823 I
+e canFam2.chr1 78298364 0 - 125616256 C
+e loxAfr1.scaffold_4233 100630 583 + 124190 I
+e calJac1.Contig1260 123962 1449 - 523245 I
+e tupBel1.scaffold_114895.1-498454 439184 5294 - 498454 I
+e cavPor2.scaffold_284118 130348 26645 - 169015 M
+e otoGar1.scaffold_85251.1-136255 34438 1359 - 136255 I
+e hg18.chr6 16143451 9 - 170899992 I
+e panTro2.chr6 16669188 9 - 173908612 I
+e ponAbe2.chr6 16455364 3188 - 174210431 I
diff --git a/Tests/MAF/ucsc_mm9_chr10_big.mafindex b/Tests/MAF/ucsc_mm9_chr10_big.mafindex
new file mode 100644
index 0000000..a07dfd3
Binary files /dev/null and b/Tests/MAF/ucsc_mm9_chr10_big.mafindex differ
diff --git a/Tests/MAF/ucsc_test.maf b/Tests/MAF/ucsc_test.maf
new file mode 100644
index 0000000..adfa2ae
--- /dev/null
+++ b/Tests/MAF/ucsc_test.maf
@@ -0,0 +1,27 @@
+track name=euArc visibility=pack mafDot=off frames="multiz28wayFrames" speciesOrder="hg16 panTro1 baboon mm4 rn3" description="A sample alignment"
+##maf version=1 scoring=tba.v8
+# tba.v8 (((human chimp) baboon) (mouse rat))
+# multiz.v7
+# maf_project.v5 _tba_right.maf3 mouse _tba_C
+# single_cov2.v4 single_cov2 /dev/stdin
+
+a score=23262.0
+s hg16.chr7 27578828 38 + 158545518 AAA-GGGAATGTTAACCAAATGA---ATTGTCTCTTACGGTG
+s panTro1.chr6 28741140 38 + 161576975 AAA-GGGAATGTTAACCAAATGA---ATTGTCTCTTACGGTG
+s baboon 116834 38 + 4622798 AAA-GGGAATGTTAACCAAATGA---GTTGTCTCTTATGGTG
+s mm4.chr6 53215344 38 + 151104725 -AATGGGAATGTTAAGCAAACGA---ATTGTCTCTCAGTGTG
+s rn3.chr4 81344243 40 + 187371129 -AA-GGGGATGCTAAGCCAATGAGTTGTTGTCTCTCAATGTG
+
+a score=5062.0
+s hg16.chr7 27699739 6 + 158545518 TAAAGA
+s panTro1.chr6 28862317 6 + 161576975 TAAAGA
+s baboon 241163 6 + 4622798 TAAAGA
+s mm4.chr6 53303881 6 + 151104725 TAAAGA
+s rn3.chr4 81444246 6 + 187371129 taagga
+
+a score=6636.0
+s hg16.chr7 27707221 13 + 158545518 gcagctgaaaaca
+s panTro1.chr6 28869787 13 + 161576975 gcagctgaaaaca
+s baboon 249182 13 + 4622798 gcagctgaaaaca
+s mm4.chr6 53310102 13 + 151104725 ACAGCTGAAAATA
+
diff --git a/Tests/MAF/unfinished.idx b/Tests/MAF/unfinished.idx
new file mode 100644
index 0000000..fb0a127
Binary files /dev/null and b/Tests/MAF/unfinished.idx differ
diff --git a/Tests/MAF/wrong_version.idx b/Tests/MAF/wrong_version.idx
new file mode 100644
index 0000000..0672b76
Binary files /dev/null and b/Tests/MAF/wrong_version.idx differ
diff --git a/Tests/MEME/mast.dna.oops.txt b/Tests/MEME/mast.dna.oops.txt
deleted file mode 100644
index 250c40f..0000000
--- a/Tests/MEME/mast.dna.oops.txt
+++ /dev/null
@@ -1,301 +0,0 @@
-********************************************************************************
-MAST - Motif Alignment and Search Tool
-********************************************************************************
- MAST version 3.0 (Release date: 2004/08/18 09:07:01)
-
- For further information on how to interpret these results or to get
- a copy of the MAST software please access http://meme.sdsc.edu.
-********************************************************************************
-
-
-********************************************************************************
-REFERENCE
-********************************************************************************
- If you use this program in your research, please cite:
-
- Timothy L. Bailey and Michael Gribskov,
- "Combining evidence using p-values: application to sequence homology
- searches", Bioinformatics, 14(48-54), 1998.
-********************************************************************************
-
-
-********************************************************************************
-DATABASE AND MOTIFS
-********************************************************************************
- DATABASE INO_up800.s (nucleotide)
- Last updated on Mon Aug 16 21:19:59 2004
- Database contains 7 sequences, 5600 residues
-
- Scores for positive and reverse complement strands are combined.
-
- MOTIFS meme.INO_up800.oops.txt (nucleotide)
- MOTIF WIDTH BEST POSSIBLE MATCH
- ----- ----- -------------------
- 1 12 TTCACATGCCGC
- 2 10 TCTGGCACAG
-
- PAIRWISE MOTIF CORRELATIONS:
- MOTIF 1
- ----- -----
- 2 0.32
- No overly similar pairs (correlation > 0.60) found.
-
- Random model letter frequencies (from non-redundant database):
- A 0.281 C 0.222 G 0.229 T 0.267
-********************************************************************************
-
-
-********************************************************************************
-SECTION I: HIGH-SCORING SEQUENCES
-********************************************************************************
- - Each of the following 7 sequences has E-value less than 10.
- - The E-value of a sequence is the expected number of sequences
- in a random database of the same size that would match the motifs as
- well as the sequence does and is equal to the combined p-value of the
- sequence times the number of sequences in the database.
- - The combined p-value of a sequence measures the strength of the
- match of the sequence to all the motifs and is calculated by
- o finding the score of the single best match of each motif
- to the sequence (best matches may overlap),
- o calculating the sequence p-value of each score,
- o forming the product of the p-values,
- o taking the p-value of the product.
- - The sequence p-value of a score is defined as the
- probability of a random sequence of the same length containing
- some match with as good or better a score.
- - The score for the match of a position in a sequence to a motif
- is computed by by summing the appropriate entry from each column of
- the position-dependent scoring matrix that represents the motif.
- - Sequences shorter than one or more of the motifs are skipped.
- - The table is sorted by increasing E-value.
-********************************************************************************
-
-SEQUENCE NAME DESCRIPTION E-VALUE LENGTH
-------------- ----------- -------- ------
-ACC1 sequence of the region up... 6.1e-05 800
-CHO1 sequence of the region up... 0.00016 800
-INO1 sequence of the region up... 0.00019 800
-FAS1 sequence of the region up... 0.00022 800
-OPI3 sequence of the region up... 0.00092 800
-CHO2 sequence of the region up... 0.0029 800
-FAS2 sequence of the region up... 0.0093 800
-
-********************************************************************************
-
-
-
-********************************************************************************
-SECTION II: MOTIF DIAGRAMS
-********************************************************************************
- - The ordering and spacing of all non-overlapping motif occurrences
- are shown for each high-scoring sequence listed in Section I.
- - A motif occurrence is defined as a position in the sequence whose
- match to the motif has POSITION p-value less than 0.0001.
- - The POSITION p-value of a match is the probability of
- a single random subsequence of the length of the motif
- scoring at least as well as the observed match.
- - For each sequence, all motif occurrences are shown unless there
- are overlaps. In that case, a motif occurrence is shown only if its
- p-value is less than the product of the p-values of the other
- (lower-numbered) motif occurrences that it overlaps.
- - The table also shows the E-value of each sequence.
- - Spacers and motif occurences are indicated by
- o -d- `d' residues separate the end of the preceding motif
- occurrence and the start of the following motif occurrence
- o [sn] occurrence of motif `n' with p-value less than 0.0001.
- A minus sign indicates that the occurrence is on the
- reverse complement strand.
-********************************************************************************
-
-SEQUENCE NAME E-VALUE MOTIF DIAGRAM
-------------- -------- -------------
-ACC1 6.1e-05 82_[+1]_137_[+2]_559
-CHO1 0.00016 152_[+2]_396_[-2]_42_[+1]_17_
- [+1]_149
-INO1 0.00019 282_[-2]_327_[-1]_55_[+1]_102
-FAS1 0.00022 43_[+2]_41_[+1]_694
-OPI3 0.00092 185_[-2]_144_[+1]_449
-CHO2 0.0029 353_[+1]_47_[-2]_378
-FAS2 0.0093 184_[-2]_372_[+1]_222
-
-********************************************************************************
-
-
-
-********************************************************************************
-SECTION III: ANNOTATED SEQUENCES
-********************************************************************************
- - The positions and p-values of the non-overlapping motif occurrences
- are shown above the actual sequence for each of the high-scoring
- sequences from Section I.
- - A motif occurrence is defined as a position in the sequence whose
- match to the motif has POSITION p-value less than 0.0001 as
- defined in Section II.
- - For each sequence, the first line specifies the name of the sequence.
- - The second (and possibly more) lines give a description of the
- sequence.
- - Following the description line(s) is a line giving the length,
- combined p-value, and E-value of the sequence as defined in Section I.
- - The next line reproduces the motif diagram from Section II.
- - The entire sequence is printed on the following lines.
- - Motif occurrences are indicated directly above their positions in the
- sequence on lines showing
- o the motif number of the occurrence (a minus sign indicates that
- the occurrence is on the reverse complement strand),
- o the position p-value of the occurrence,
- o the best possible match to the motif (or its reverse complement), and
- o columns whose match to the motif has a positive score (indicated
- by a plus sign).
-********************************************************************************
-
-
-ACC1
- sequence of the region upstream from YNR016C
- LENGTH = 800 COMBINED P-VALUE = 8.78e-06 E-VALUE = 6.1e-05
- DIAGRAM: 82_[+1]_137_[+2]_559
-
-
- [+1]
- 3.1e-07
- TTCACATGCCGC
- ++++++++++ +
-76 TAAAATCTTCACATGGCCCGGCCGCGCGCGCGTTGTGCCAACAAGTCGCAGTCGAAATTCAACCGCTCATTGCCA
-
- [+2]
- 7.4e-07
- TCTGGCACAG
- ++++++++++
-226 TCGTATTCTGGCACAGTATAGCCTAGCACAATCACTGTCACAATTGTTATCGGTTCTACAATTGTTCTGCTCTCT
-
-
-CHO1
- sequence of the region upstream from YER026C
- LENGTH = 800 COMBINED P-VALUE = 2.30e-05 E-VALUE = 0.00016
- DIAGRAM: 152_[+2]_396_[-2]_42_[+1]_17_[+1]_149
-
-
- [+2]
- 3.9e-05
- TCTGGCACAG
- ++++++ +
-151 CGTCTGGCGCCCTTCCCATTCCGAACCATGTTATATTGAACCATCTGGCGACAAGCAGTATTAAGCATAATACAT
-
- [-2]
- 7.4e-07
- CTGTGCCAGA
- ++++++++++
-526 CAATCCCCACTCCTTCTCAATGTGTGCAGACTTCTGTGCCAGACACTGAATATATATCAGTAATTGGTCAAAATC
-
- [+1] [+1]
- 8.7e-07 2.2e-05
- TTCACATGCCGC TTCACATGCCGC
- ++++++ +++ + +++++++++ +
-601 ACTTTGAACGTTCACACGGCACCCTCACGCCTTTGAGCTTTCACATGGACCCATCTAAAGATGAAGATCCGTATT
-
-
-INO1
- sequence of the region upstream from YJL153C
- LENGTH = 800 COMBINED P-VALUE = 2.71e-05 E-VALUE = 0.00019
- DIAGRAM: 282_[-2]_327_[-1]_55_[+1]_102
-
-
- [-2]
- 1.8e-05
- CTGTGCCAGA
- +++ +++ ++
-226 ACGTTGTATATGAAACGAGTAGTGAACGTTCGTACGATCTTTCACGCAGACATGCGACTGCGCCCGCCGTAGACC
-
- [-1]
- 4.2e-08
- GCGGCATGTGAA
- ++++++++++++
-601 TGCGCTTCGGCGGCTAAATGCGGCATGTGAAAAGTATTGTCTATTTTATCTTCATCCTTCTTTCCCAGAATATTG
-
- [+1]
- 1.3e-05
- TTCACATGCCGC
- +++++++++ ++
-676 AACTTATTTAATTCACATGGAGCAGAGAAAGCGCACCTCTGCGTTGGCGGCAATGTTAATTTGAGACGTATATAA
-
-
-FAS1
- sequence of the region upstream from YKL182W
- LENGTH = 800 COMBINED P-VALUE = 3.19e-05 E-VALUE = 0.00022
- DIAGRAM: 43_[+2]_41_[+1]_694
-
- [+2]
- 2.2e-05
- TCTGGCACAG
- ++ +++++ +
-1 CCGGGTTATAGCAGCGTCTGCTCCGCATCACGATACACGAGGTGCAGGCACGGTTCACTACTCCCCTGGCCTCCA
-
- [+1]
- 4.2e-08
- TTCACATGCCGC
- ++++++++++++
-76 ACAAACGACGGCCAAAAACTTCACATGCCGCCCAGCCAAGCATAATTACGCAACAGCGATCTTTCCGTCGCACAA
-
-
-OPI3
- sequence of the region upstream from YJR073C
- LENGTH = 800 COMBINED P-VALUE = 1.32e-04 E-VALUE = 0.00092
- DIAGRAM: 185_[-2]_144_[+1]_449
-
-
- [-2]
- 7.4e-07
- CTGTGCCAGA
- ++++++++++
-151 GTTAATCTGATCAACGCTACGCCGATGACAACGGTCTGTGCCAGATCTGGTTTTCCCCACTTATTTGCTACTTCC
-
- [+1]
- 5.8e-06
- TTCACATGCCGC
- ++++ ++ ++ +
-301 AACTCCGTCAGGTCTTCCACGTGGAACTGCCAAGCCTCCTTCAGATCGCTCTTGTCGACCGTCTCCAAGAGATCC
-
-
-CHO2
- sequence of the region upstream from YGR157W
- LENGTH = 800 COMBINED P-VALUE = 4.18e-04 E-VALUE = 0.0029
- DIAGRAM: 353_[+1]_47_[-2]_378
-
-
- [+1]
- 5.2e-07
- TTCACATGCCGC
- +++ ++++++++
-301 ATATATATTTTTGCCTTGGTTTAAATTGGTCAAGACAGTCAATTGCCACACTTTTCTCATGCCGCATTCATTATT
-
- [-2]
- 2.9e-05
- CTGTGCCAGA
- + +++++++
-376 CGCGAAGTTTTCCACACAAAACTGTGAAAATGAACGGCGATGCCAGAAACGGCAAAACCTCAAATGTTAGATAAC
-
-
-FAS2
- sequence of the region upstream from YPL231W
- LENGTH = 800 COMBINED P-VALUE = 1.33e-03 E-VALUE = 0.0093
- DIAGRAM: 184_[-2]_372_[+1]_222
-
-
- [-2]
- 2.9e-05
- CTGTGCCAGA
- ++++++++
-151 AACAGGGTGTCGGTCATACCGATAAAGCCGTCAAGAGTGCCAGAAAAGCAAGAAAGAACAAGATTAGATGTTGGT
-
- [+1]
- 1.9e-06
- TTCACATGCCGC
- +++++++++ +
-526 GCTTAGCAAAATCCAACCATTTTTTTTTTATCTCCCGCGTTTTCACATGCTACCTCATTCGCCTCGTAACGTTAC
-
-********************************************************************************
-
-
-CPU: pmgm2
-Time 0.030000 secs.
-
-mast meme.INO_up800.oops.txt -text -stdout
diff --git a/Tests/MEME/mast.protein.oops.txt b/Tests/MEME/mast.protein.oops.txt
deleted file mode 100644
index 3fefee4..0000000
--- a/Tests/MEME/mast.protein.oops.txt
+++ /dev/null
@@ -1,885 +0,0 @@
-********************************************************************************
-MAST - Motif Alignment and Search Tool
-********************************************************************************
- MAST version 3.0 (Release date: 2004/08/18 09:07:01)
-
- For further information on how to interpret these results or to get
- a copy of the MAST software please access http://meme.sdsc.edu.
-********************************************************************************
-
-
-********************************************************************************
-REFERENCE
-********************************************************************************
- If you use this program in your research, please cite:
-
- Timothy L. Bailey and Michael Gribskov,
- "Combining evidence using p-values: application to sequence homology
- searches", Bioinformatics, 14(48-54), 1998.
-********************************************************************************
-
-
-********************************************************************************
-DATABASE AND MOTIFS
-********************************************************************************
- DATABASE adh.s (peptide)
- Last updated on Mon Aug 16 21:19:59 2004
- Database contains 33 sequences, 9996 residues
-
- MOTIFS meme.adh.oops.txt (peptide)
- MOTIF WIDTH BEST POSSIBLE MATCH
- ----- ----- -------------------
- 1 29 YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- 2 29 KVVLITGCSSGIGKATAKHLHKEGAKVVL
-
- PAIRWISE MOTIF CORRELATIONS:
- MOTIF 1
- ----- -----
- 2 0.30
- No overly similar pairs (correlation > 0.60) found.
-
- Random model letter frequencies (from non-redundant database):
- A 0.073 C 0.018 D 0.052 E 0.062 F 0.040 G 0.069 H 0.022 I 0.056 K 0.058
- L 0.092 M 0.023 N 0.046 P 0.051 Q 0.041 R 0.052 S 0.074 T 0.059 V 0.064
- W 0.013 Y 0.033
-********************************************************************************
-
-
-********************************************************************************
-SECTION I: HIGH-SCORING SEQUENCES
-********************************************************************************
- - Each of the following 33 sequences has E-value less than 10.
- - The E-value of a sequence is the expected number of sequences
- in a random database of the same size that would match the motifs as
- well as the sequence does and is equal to the combined p-value of the
- sequence times the number of sequences in the database.
- - The combined p-value of a sequence measures the strength of the
- match of the sequence to all the motifs and is calculated by
- o finding the score of the single best match of each motif
- to the sequence (best matches may overlap),
- o calculating the sequence p-value of each score,
- o forming the product of the p-values,
- o taking the p-value of the product.
- - The sequence p-value of a score is defined as the
- probability of a random sequence of the same length containing
- some match with as good or better a score.
- - The score for the match of a position in a sequence to a motif
- is computed by by summing the appropriate entry from each column of
- the position-dependent scoring matrix that represents the motif.
- - Sequences shorter than one or more of the motifs are skipped.
- - The table is sorted by increasing E-value.
-********************************************************************************
-
-SEQUENCE NAME DESCRIPTION E-VALUE LENGTH
-------------- ----------- -------- ------
-BUDC_KLETE ACETOIN(DIACETYL) REDUCTA... 2.6e-33 241
-YRTP_BACSU HYPOTHETICAL 25.3 KD PROT... 4.3e-33 238
-AP27_MOUSE ADIPOCYTE P27 PROTEIN (AP... 4.5e-33 244
-HDE_CANTR HYDRATASE-DEHYDROGENASE-E... 1.6e-32 906
-HDHA_ECOLI 7-ALPHA-HYDROXYSTEROID DE... 4.9e-31 255
-DHII_HUMAN CORTICOSTEROID 11-BETA-DE... 8.2e-31 292
-FIXR_BRAJA FIXR PROTEIN 2.6e-30 278
-DHGB_BACME GLUCOSE 1-DEHYDROGENASE B... 3.2e-30 262
-NODG_RHIME NODULATION PROTEIN G (HOS... 3.4e-29 245
-RIDH_KLEAE RIBITOL 2-DEHYDROGENASE (... 6.2e-29 249
-YINL_LISMO HYPOTHETICAL 26.8 KD PROT... 6.6e-29 248
-DHMA_FLAS1 N-ACYLMANNOSAMINE 1-DEHYD... 1.2e-28 270
-HMTR_LEIMA no comment 5.1e-28 287
-2BHD_STREX 20-BETA-HYDROXYSTEROID DE... 5.9e-28 255
-ENTA_ECOLI 2,3-DIHYDRO-2,3-DIHYDROXY... 4.8e-27 248
-DHB2_HUMAN no comment 1.7e-26 387
-BDH_HUMAN D-BETA-HYDROXYBUTYRATE DE... 2.8e-26 343
-BA72_EUBSP 7-ALPHA-HYDROXYSTEROID DE... 4.2e-26 249
-FVT1_HUMAN no comment 8.9e-26 332
-GUTD_ECOLI SORBITOL-6-PHOSPHATE 2-DE... 5.1e-25 259
-DHB3_HUMAN no comment 8.3e-25 310
-3BHD_COMTE 3-BETA-HYDROXYSTEROID DEH... 1.4e-24 253
-LIGD_PSEPA C ALPHA-DEHYDROGENASE (EC... 8.1e-24 305
-DHES_HUMAN ESTRADIOL 17 BETA-DEHYDRO... 2.4e-22 327
-RFBB_NEIGO no comment 3.2e-19 346
-BPHB_PSEPS BIPHENYL-CIS-DIOL DEHYDRO... 1e-18 275
-YURA_MYXXA no comment 1.9e-18 258
-PCR_PEA no comment 7.2e-18 399
-DHCA_HUMAN no comment 1.1e-17 276
-ADH_DROME ALCOHOL DEHYDROGENASE (EC... 2.7e-14 255
-MAS1_AGRRA no comment 3e-14 476
-FABI_ECOLI no comment 9.7e-14 262
-CSGA_MYXXA no comment 2.5e-12 166
-
-********************************************************************************
-
-
-
-********************************************************************************
-SECTION II: MOTIF DIAGRAMS
-********************************************************************************
- - The ordering and spacing of all non-overlapping motif occurrences
- are shown for each high-scoring sequence listed in Section I.
- - A motif occurrence is defined as a position in the sequence whose
- match to the motif has POSITION p-value less than 0.0001.
- - The POSITION p-value of a match is the probability of
- a single random subsequence of the length of the motif
- scoring at least as well as the observed match.
- - For each sequence, all motif occurrences are shown unless there
- are overlaps. In that case, a motif occurrence is shown only if its
- p-value is less than the product of the p-values of the other
- (lower-numbered) motif occurrences that it overlaps.
- - The table also shows the E-value of each sequence.
- - Spacers and motif occurences are indicated by
- o -d- `d' residues separate the end of the preceding motif
- occurrence and the start of the following motif occurrence
- o [n] occurrence of motif `n' with p-value less than 0.0001.
-********************************************************************************
-
-SEQUENCE NAME E-VALUE MOTIF DIAGRAM
-------------- -------- -------------
-BUDC_KLETE 2.6e-33 2_[2]_120_[1]_61
-YRTP_BACSU 4.3e-33 6_[2]_119_[1]_55
-AP27_MOUSE 4.5e-33 7_[2]_112_[1]_67
-HDE_CANTR 1.6e-32 8_[2]_125_[1]_131_[2]_115_[1]_411
-HDHA_ECOLI 4.9e-31 11_[2]_74_[1]_15_[1]_68
-DHII_HUMAN 8.2e-31 34_[2]_119_[1]_81
-FIXR_BRAJA 2.6e-30 36_[2]_123_[1]_61
-DHGB_BACME 3.2e-30 7_[2]_123_[1]_74
-NODG_RHIME 3.4e-29 6_[2]_116_[1]_65
-RIDH_KLEAE 6.2e-29 14_[2]_116_[1]_61
-YINL_LISMO 6.6e-29 5_[2]_75_[2]_15_[1]_66
-DHMA_FLAS1 1.2e-28 14_[2]_121_[1]_77
-HMTR_LEIMA 5.1e-28 6_[2]_157_[1]_66
-2BHD_STREX 5.9e-28 6_[2]_116_[1]_75
-ENTA_ECOLI 4.8e-27 5_[2]_109_[1]_76
-DHB2_HUMAN 1.7e-26 82_[2]_120_[1]_127
-BDH_HUMAN 2.8e-26 55_[2]_123_[1]_107
-BA72_EUBSP 4.2e-26 6_[2]_121_[1]_64
-FVT1_HUMAN 8.9e-26 32_[2]_124_[1]_118
-GUTD_ECOLI 5.1e-25 2_[2]_122_[1]_77
-DHB3_HUMAN 8.3e-25 48_[2]_120_[1]_84
-3BHD_COMTE 1.4e-24 6_[2]_115_[1]_74
-LIGD_PSEPA 8.1e-24 6_[2]_121_[1]_120
-DHES_HUMAN 2.4e-22 2_[2]_50_[2]_44_[1]_144
-RFBB_NEIGO 3.2e-19 6_[2]_129_[1]_153
-BPHB_PSEPS 1e-18 5_[2]_118_[1]_94
-YURA_MYXXA 1.9e-18 65_[2]_22_[2]_14_[1]_70
-PCR_PEA 7.2e-18 25_[1]_32_[2]_284
-DHCA_HUMAN 1.1e-17 4_[2]_159_[1]_55
-ADH_DROME 2.7e-14 6_[2]_116_[1]_75
-MAS1_AGRRA 3e-14 245_[2]_74_[1]_14_[1]_56
-FABI_ECOLI 9.7e-14 6_[2]_123_[1]_75
-CSGA_MYXXA 2.5e-12 51_[2]_7_[1]_50
-
-********************************************************************************
-
-
-
-********************************************************************************
-SECTION III: ANNOTATED SEQUENCES
-********************************************************************************
- - The positions and p-values of the non-overlapping motif occurrences
- are shown above the actual sequence for each of the high-scoring
- sequences from Section I.
- - A motif occurrence is defined as a position in the sequence whose
- match to the motif has POSITION p-value less than 0.0001 as
- defined in Section II.
- - For each sequence, the first line specifies the name of the sequence.
- - The second (and possibly more) lines give a description of the
- sequence.
- - Following the description line(s) is a line giving the length,
- combined p-value, and E-value of the sequence as defined in Section I.
- - The next line reproduces the motif diagram from Section II.
- - The entire sequence is printed on the following lines.
- - Motif occurrences are indicated directly above their positions in the
- sequence on lines showing
- o the motif number of the occurrence,
- o the position p-value of the occurrence,
- o the best possible match to the motif, and
- o columns whose match to the motif has a positive score (indicated
- by a plus sign).
-********************************************************************************
-
-
-BUDC_KLETE
- ACETOIN(DIACETYL) REDUCTASE (EC 1.1.1.5) (ACETOIN DEHYDROGENASE)
- LENGTH = 241 COMBINED P-VALUE = 7.82e-35 E-VALUE = 2.6e-33
- DIAGRAM: 2_[2]_120_[1]_61
-
- [2]
- 7.9e-21
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++++++++++++++ + +
-1 MQKVALVTGAGQGIGKAIALRLVKDGFAVAIADYNDATATAVAAEINQAGGRAVAIKVDVSRRDQVFAAVEQARK
-
- [1]
- 2.6e-21
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++++++++++ ++++++
-151 VYSSSKFAVRGLTQTAARDLAPLGITVNGFCPGIVKTPMWAEIDRQCRKRRANRWATARLNLPNASPLAACRSLK
-
-
-YRTP_BACSU
- HYPOTHETICAL 25.3 KD PROTEIN IN RTP 5'REGION (ORF238)
- LENGTH = 238 COMBINED P-VALUE = 1.31e-34 E-VALUE = 4.3e-33
- DIAGRAM: 6_[2]_119_[1]_55
-
- [2]
- 2.8e-19
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++++++++++++++++ ++ +
-1 MQSLQHKTALITGGGRGIGRATALALAKEGVNIGLIGRTSANVEKVAEEVKALGVKAAFAAADVKDADQVNQAVA
-
- [1]
- 1.3e-22
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++++++++ ++++++++++++++++++++
-151 VTSAYSASKFAVLGLTESLMQEVRKHNIRVSALTPSTVASDMSIELNLTDGNPEKVMQPEDLAEYMVAQLKLDPR
-
-
-AP27_MOUSE
- ADIPOCYTE P27 PROTEIN (AP27)
- LENGTH = 244 COMBINED P-VALUE = 1.37e-34 E-VALUE = 4.5e-33
- DIAGRAM: 7_[2]_112_[1]_67
-
- [2]
- 7.4e-20
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++ ++++++++++++++
-1 MKLNFSGLRALVTGAGKGIGRDTVKALHASGAKVVAVTRTNSDLVSLAKECPGIEPVCVDLGDWDATEKALGGIG
-
- [1
- 4.
- YS
- ++
-76 PVDLLVNNAALVIMQPFLEVTKEAFDRSFSVNLRSVFQVSQMVARDMINRGVPGSIVNVSSMVAHVTFPNLITYS
-
- ]
- 8e-22
- ASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++++++++++++++++++++ ++++++
-151 STKGAMTMLTKAMAMELGPHKIRVNSVNPTVVLTDMGKKVSADPEFARKLKERHPLRKFAEVEDVVNSILFLLSD
-
-
-HDE_CANTR
- HYDRATASE-DEHYDROGENASE-EPIMERASE (HDE)
- LENGTH = 906 COMBINED P-VALUE = 4.94e-34 E-VALUE = 1.6e-32
- DIAGRAM: 8_[2]_125_[1]_131_[2]_115_[1]_411
-
- [2]
- 2.5e-19
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++++++ + +++++ ++++++
-1 MSPVDFKDKVVIITGAGGGLGKYYSLEFAKLGAKVVVNDLGGALNGQGGNSKAADVVVDEIVKNGGVAVADYNNV
-
- [1]
- 2.8e-13
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + +++ ++ ++ ++++++ ++++++ +++
-151 PAGLYGNFGQANYASAKSALLGFAETLAKEGAKYNIKANAIAPLARSRMTESILPPPMLEKLGPEKVAPLVLYLS
-
- [2]
- 1.5e-24
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++ +++++++++++++++++++
-301 TNEARKLPANDASGAPTVSLKDKVVLITGAGAGLGKEYAKWFAKYGAKVVVNDFKDATKTVDEIKAAGGEAWPDQ
-
- [1]
- 5.2e-18
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++++++++ +++++++ + ++ +++++++
-451 NITSTSGIYGNFGQANYSSSKAGILGLSKTMAIEGAKNNIKVNIVAPHAETAMTLTIFREQDKNLYHADQVAPLL
-
-
-HDHA_ECOLI
- 7-ALPHA-HYDROXYSTEROID DEHYDROGENASE (EC 1.1.1.159) (HSDH)
- LENGTH = 255 COMBINED P-VALUE = 1.49e-32 E-VALUE = 4.9e-31
- DIAGRAM: 11_[2]_74_[1]_15_[1]_68
-
- [2]
- 4.3e-21
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++ +++++++++++++++++++
-1 MFNSDNLRLDGKCAIITGAGAGIGKEIAITFATAGASVVVSDINADAANHVVDEIQQLGGQAFACRCDITSEQEL
-
- [1]
- 2.9e-05
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + ++ ++++ + ++++ + +
-76 SALADFAISKLGKVDILVNNAGGGGPKPFDMPMADFRRAYELNVFSFFHLSQLVAPEMEKNGGGVILTITSMAAE
-
- [1]
- 8.6e-19
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + +++++ +++++ +++++++++++++++
-151 NKNINMTSYASSKAAASHLVRNMAFDLGEKNIRVNGIAPGAILTDALKSVITPEIEQKMLQHTPIRRLGQPQDIA
-
-
-DHII_HUMAN
- CORTICOSTEROID 11-BETA-DEHYDROGENASE (EC 1.1.1.146) (11-DH) (11-BETA-
- HYDROXYSTEROID DEHYDROGENASE) (11-BETA-HSD)
- LENGTH = 292 COMBINED P-VALUE = 2.49e-32 E-VALUE = 8.2e-31
- DIAGRAM: 34_[2]_119_[1]_81
-
- [2]
- 3.9e-24
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++++++++++++++++++
-1 MAFMKKYLLPILGLFMAYYYYSANEEFRPEMLQGKKVIVTGASKGIGREMAYHLAKMGAHVVVTARSKETLQKVV
-
- [1]
- 1.2e-15
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++ ++ +++++ +++++++
-151 TVAALPMLKQSNGSIVVVSSLAGKVAYPMVAAYSASKFALDGFFSSIRKEYSVSRVNVSITLCVLGLIDTETAMK
-
-
-FIXR_BRAJA
- FIXR PROTEIN
- LENGTH = 278 COMBINED P-VALUE = 7.83e-32 E-VALUE = 2.6e-30
- DIAGRAM: 36_[2]_123_[1]_61
-
- [2]
- 3.2e-18
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++ +++++++++++++ + ++++++
-1 MGLDLPNDNLIRGPLPEAHLDRLVDAVNARVDRGEPKVMLLTGASRGIGHATAKLFSEAGWRIISCARQPFDGER
-
- [1]
- 5.1e-21
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + +++++ ++++++++++++++++++++
-151 APILLAQGLFDELRAASGSIVNVTSIAGSRVHPFAGSAYATSKAALASLTRELAHDYAPHGIRVNAIAPGEIRTD
-
-
-DHGB_BACME
- GLUCOSE 1-DEHYDROGENASE B (EC 1.1.1.47)
- LENGTH = 262 COMBINED P-VALUE = 9.77e-32 E-VALUE = 3.2e-30
- DIAGRAM: 7_[2]_123_[1]_74
-
- [2]
- 4.4e-19
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++ + +++++++++++++ +++++
-1 MYKDLEGKVVVITGSSTGLGKSMAIRFATEKAKVVVNYRSKEDEANSVLEEEIKKVGGEAIAVKGDVTVESDVIN
-
- [1]
- 5.3e-20
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + +++++++ +++++++++++++++++++
-151 KIPWPLFVHYAASKGGMKLMTETLALEYAPKGIRVNNIGPGAINTPINAEKFADPEQRADVESMIPMGYIGEPEE
-
-
-NODG_RHIME
- NODULATION PROTEIN G (HOST-SPECIFICITY OF NODULATION PROTEIN C)
- LENGTH = 245 COMBINED P-VALUE = 1.03e-30 E-VALUE = 3.4e-29
- DIAGRAM: 6_[2]_116_[1]_65
-
- [2]
- 4.0e-16
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++ ++ ++++ ++++++ + +
-1 MFELTGRKALVTGASGAIGGAIARVLHAQGAIVGLHGTQIEKLETLATELGDRVKLFPANLANRDEVKALGQRAE
-
- [1]
- 7.3e-22
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++++++++++ +++++++
-151 NYCASKAGMIGFSKSLAQEIATRNITVNCVAPGFIESAMTDKLNHKQKEKIMVAIPIHRMGTGTEVASAVAYLAS
-
-
-RIDH_KLEAE
- RIBITOL 2-DEHYDROGENASE (EC 1.1.1.56) (RDH)
- LENGTH = 249 COMBINED P-VALUE = 1.88e-30 E-VALUE = 6.2e-29
- DIAGRAM: 14_[2]_116_[1]_61
-
- [2]
- 7.0e-21
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++ +++++++++++++++++ +++++++
-1 MKHSVSSMNTSLSGKVAAITGAASGIGLECARTLLGAGAKVVLIDREGEKLNKLVAELGENAFALQVDLMQADQV
-
- [1]
- 7.4e-17
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++++++++++++++ +++++++++++ ++
-151 VVPVIWEPVYTASKFAVQAFVHTTRRQVAQYGVRVGAVLPGPVVTALLDDWPKAKMDEALANGSLMQPIEVAESV
-
-
-YINL_LISMO
- HYPOTHETICAL 26.8 KD PROTEIN IN INLA 5'REGION (ORFA)
- LENGTH = 248 COMBINED P-VALUE = 1.99e-30 E-VALUE = 6.6e-29
- DIAGRAM: 5_[2]_75_[2]_15_[1]_66
-
- [2]
- 2.9e-23
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++++++++++ +++++++ ++
-1 MTIKNKVIIITGASSGIGKATALLLAEKGAKLVLAARRVEKLEKIVQIIKANSGEAIFAKTDVTKREDNKKLVEL
-
- [2]
- 3.8e-05
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- + + + ++ + +++ ++ +
-76 AIERYGKVDAIFLNAGIMPNSPLSALKEDEWEQMIDINIKGVLNGIAAVLPSFIAQKSGHIIATSSVAGLKAYPG
-
- [1]
- 1.9e-14
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++ +++ ++++ ++++ ++++
-151 GAVYGATKWAVRDLMEVLRMESAQEGTNIRTATIYPAAINTELLETITDKETEQGMTSLYKQYGITPDRIASIVA
-
-
-DHMA_FLAS1
- N-ACYLMANNOSAMINE 1-DEHYDROGENASE (EC 1.1.1.233) (NAM-DH)
- LENGTH = 270 COMBINED P-VALUE = 3.65e-30 E-VALUE = 1.2e-28
- DIAGRAM: 14_[2]_121_[1]_77
-
- [2]
- 2.0e-19
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- + +++++++++++++++++ +++++++++
-1 TTAGVSRRPGRLAGKAAIVTGAAGGIGRATVEAYLREGASVVAMDLAPRLAATRYEEPGAIPIACDLADRAAIDA
-
- [1]
- 4.2e-18
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + ++++++ +++++++++++++++ ++++
-151 GSVNSFMAEPEAAAYVAAKGGVAMLTRAMAVDLARHGILVNMIAPGPVDVTGNNTGYSEPRLAEQVLDEVALGRP
-
-
-HMTR_LEIMA
- no comment
- LENGTH = 287 COMBINED P-VALUE = 1.55e-29 E-VALUE = 5.1e-28
- DIAGRAM: 6_[2]_157_[1]_66
-
- [2]
- 1.6e-17
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++ +++++++ ++++++ +++
-1 MTAPTVPVALVTGAAKRLGRSIAEGLHAEGYAVCLHYHRSAAEANALSATLNARRPNSAITVQADLSNVATAPVS
-
- [1]
- 2.1e-19
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++++++++++ +++++++
-151 PYFLIKAFAHRSRHPSQASRTNYSIINMVDAMTNQPLLGYTIYTMAKGALEGLTRSAALELAPLQIRVNGVGPGL
-
-
-2BHD_STREX
- 20-BETA-HYDROXYSTEROID DEHYDROGENASE (EC 1.1.1.53)
- LENGTH = 255 COMBINED P-VALUE = 1.78e-29 E-VALUE = 5.9e-28
- DIAGRAM: 6_[2]_116_[1]_75
-
- [2]
- 7.1e-18
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++ + +++ +++++++++
-1 MNDLSGKTVIITGGARGLGAEAARQAVAAGARVVLADVLDEEGAATARELGDAARYQHLDVTIEEDWQRVVAYAR
-
- [1]
- 6.8e-19
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++ +++++++ +++++++
-151 SYGASKWGVRGLSKLAAVELGTDRIRVNSVHPGMTYTPMTAETGIRQGEGNYPNTPMGRVGNEPGEIAGAVVKLL
-
-
-ENTA_ECOLI
- 2,3-DIHYDRO-2,3-DIHYDROXYBENZOATE DEHYDROGENASE (EC 1.3.1.28)
- LENGTH = 248 COMBINED P-VALUE = 1.45e-28 E-VALUE = 4.8e-27
- DIAGRAM: 5_[2]_109_[1]_76
-
- [2]
- 3.7e-20
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++++++++++++++++
-1 MDFSGKNVWVTGAGKGIGYATALAFVEAGAKVTGFDQAFTQEQYPFATEVMDVADAAQVAQVCQRLLAETERLDA
-
- [1]
- 1.2e-15
- YSASKFA
- +++++++
-76 LVNAAGILRMGATDQLSKEDWQQTFAVNVGGAFNLFQQTMNQFRRQRGGAIVTVASDAAHTPRIGMSAYGASKAA
-
-
-
- VRMLTRSMAHEYAPHGIRVNCI
- ++++ + ++++ ++++++++
-151 LKSLALSVGLELAGSGVRCNVVSPGSTDTDMQRTLWVSDDAEEQRIRGFGEQFKLGIPLGKIARPQEIANTILFL
-
-
-DHB2_HUMAN
- no comment
- LENGTH = 387 COMBINED P-VALUE = 5.05e-28 E-VALUE = 1.7e-26
- DIAGRAM: 82_[2]_120_[1]_127
-
-
- [2]
- 3.4e-17
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- + ++++++++++++++++++ + ++ +++
-76 ELLPVDQKAVLVTGGDCGLGHALCKYLDELGFTVFAGVLNENGPGAEELRRTCSPRLSVLQMDITKPVQIKDAYS
-
- [1]
- 1.7e-18
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++ ++++++++++++ ++
-226 MERLASYGSSKAAVTMFSSVMRLELSKWGIKVASIQPGGFLTNIAGTSDKWEKLEKDILDHLPAEVQEDYGQDYI
-
-
-BDH_HUMAN
- D-BETA-HYDROXYBUTYRATE DEHYDROGENASE PRECURSOR (EC 1.1.1.30) (BDH)
- (3-HYDROXYBUTYRATE DEHYDROGENASE) (FRAGMENT)
- LENGTH = 343 COMBINED P-VALUE = 8.57e-28 E-VALUE = 2.8e-26
- DIAGRAM: 55_[2]_123_[1]_107
-
- [2]
- 2.3e-18
- KVVLITGCSSGIGKATAKHL
- + +++++++++ ++++++++
-1 GLRPPPPGRFSRLPGKTLSACDRENGARRPLLLGSTSFIPIGRRTYASAAEPVGSKAVLVTGCDSGFGFSLAKHL
-
-
-
- HKEGAKVVL
- +++++ +++
-76 HSKGFLVFAGCLMKDKGHDGVKELDSLNSDRLRTVQLNVFRSEEVEKVVGDCPFEPEGPEKGMWGLVNNAGISTF
-
- [1]
- 5.5e-17
- YSASKFAVRMLTRSMAHE
- ++ +++++++++++++++
-151 GEVEFTSLETYKQVAEVNLWGTVRMTKSFLPLIRRAKGRVVNISSMLGRMANPARSPYCITKFGVEAFSDCLRYE
-
-
-
- YAPHGIRVNCI
- +++ +++++++
-226 MYPLGVKVSVVEPGNFIAATSLYNPESIQAIAKKMWEELPEVVRKDYGKKYFDEKIAKMETYCSSGSTDTSPVID
-
-
-BA72_EUBSP
- 7-ALPHA-HYDROXYSTEROID DEHYDROGENASE (EC 1.1.1.159) (BILE ACID
- 7-DEHYDROXYLASE) (BILE ACID-INDUCIBLE PROTEIN)
- LENGTH = 249 COMBINED P-VALUE = 1.28e-27 E-VALUE = 4.2e-26
- DIAGRAM: 6_[2]_121_[1]_64
-
- [2]
- 2.6e-18
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++ ++++++ ++ ++ +++++ +
-1 MNLVQDKVTIITGGTRGIGFAAAKIFIDNGAKVSIFGETQEEVDTALAQLKELYPEEEVLGFAPDLTSRDAVMAA
-
- [1]
- 1.5e-16
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + +++++++++++ + +++ +++++++++
-151 SLSGVGYPASKASVIGLTHGLGREIIRKNIRVVGVAPGVVNTDMTNGNPPEIMEGYLKALPMKRMLEPEEIANVY
-
-
-FVT1_HUMAN
- no comment
- LENGTH = 332 COMBINED P-VALUE = 2.70e-27 E-VALUE = 8.9e-26
- DIAGRAM: 32_[2]_124_[1]_118
-
- [2]
- 2.3e-17
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++++++++++++++++ + +
-1 MLLLAAAFLVAFVLLLYMVSPLISPKPLALPGAHVVVTGGSSGIGKCIAIECYKQGAFITLVARNEDKLLQAKKE
-
- [1]
- 1.9e-17
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++ ++++++++++++++++
-151 YPSRAVITTMKERRVGRIVFVSSQAGQLGLFGFTAYSASKFAIRGLAEALQMEVKPYNVYITVAYPPDTDTPGFA
-
-
-GUTD_ECOLI
- SORBITOL-6-PHOSPHATE 2-DEHYDROGENASE (EC 1.1.1.140) (GLUCITOL-6- PHOSPHATE
- DEHYDROGENASE) (KETOSEPHOSPHATE REDUCTASE)
- LENGTH = 259 COMBINED P-VALUE = 1.54e-26 E-VALUE = 5.1e-25
- DIAGRAM: 2_[2]_122_[1]_77
-
- [2]
- 1.5e-14
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++ ++++ ++ +++ ++++++++ +
-1 MNQVAVVIGGGQTLGAFLCHGLAAEGYRVAVVDIQSDKAANVAQEINAEYGESMAYGFGADATSEQSCLALSRGV
-
- [1]
- 3.0e-19
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++ +++++++++++++++++++++
-151 NSGYSAAKFGGVGLTQSLALDLAEYGITVHSLMLGNLLKSPMFQSLLPQYATKLGIKPDQVEQYYIDKVPLKRGC
-
-
-DHB3_HUMAN
- no comment
- LENGTH = 310 COMBINED P-VALUE = 2.53e-26 E-VALUE = 8.3e-25
- DIAGRAM: 48_[2]_120_[1]_84
-
- [2]
- 7.4e-19
- KVVLITGCSSGIGKATAKHLHKEGAKV
- +++++++++ ++++++ ++++++ ++
-1 MGDVLEQFFILTGLLVCLACLAKCVRFSRCVLLNYYKVLPKSFLRSMGQWAVITGAGDGIGKAYSFELAKRGLNV
-
-
-
- VL
- ++
-76 VLISRTLEKLEAIATEIERTTGRSVKIIQADFTKDDIYEHIKEKLAGLEIGILVNNVGMLPNLLPSHFLNAPDEI
-
- [1]
- 6.7e-15
- YSASKFAVRMLTRSMAHEYAPHGIRVNC
- ++++++++++++++++ +++ + + +++
-151 QSLIHCNITSVVKMTQLILKHMESRQKGLILNISSGIALFPWPLYSMYSASKAFVCAFSKALQEEYKAKEVIIQV
-
-
-
- I
- +
-226 LTPYAVSTAMTKYLNTNVITKTADEFVKESLNYVTIGGETCGCLAHEILAGFLSLIPAWAFYSGAFQRLLLTHYV
-
-
-3BHD_COMTE
- 3-BETA-HYDROXYSTEROID DEHYDROGENASE (EC 1.1.1.51)
- LENGTH = 253 COMBINED P-VALUE = 4.25e-26 E-VALUE = 1.4e-24
- DIAGRAM: 6_[2]_115_[1]_74
-
- [2]
- 2.6e-18
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++ ++++++ ++ +++++
-1 TNRLQGKVALVTGGASGVGLEVVKLLLGEGAKVAFSDINEAAGQQLAAELGERSMFVRHDVSSEADWTLVMAAVQ
-
- [1]
- 5.1e-15
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++++++ +++++ +++
-151 YSASKAAVSALTRAAALSCRKQGYAIRVNSIHPDGIYTPMMQASLPKGVSKEMVLHDPKLNRAGRAYMPERIAQL
-
-
-LIGD_PSEPA
- C ALPHA-DEHYDROGENASE (EC -.-.-.-)
- LENGTH = 305 COMBINED P-VALUE = 2.45e-25 E-VALUE = 8.1e-24
- DIAGRAM: 6_[2]_121_[1]_120
-
- [2]
- 6.5e-17
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++ +++++++ ++ ++ + ++++++++
-1 MKDFQDQVAFITGGASGAGFGQAKVFGQAGAKIVVADVRAEAVEKAVAELEGLGITAHGIVLDIMDREAYARAAD
-
- [1]
- 7.9e-16
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++ +++++ +++ ++++++ ++++
-151 SALAGPYSAAKAASINLMEGYRQGLEKYGIGVSVCTPANIKSNIAEASRLRPAKYGTSGYVENEESIASLHSIHQ
-
-
-DHES_HUMAN
- ESTRADIOL 17 BETA-DEHYDROGENASE (EC 1.1.1.62) (20 ALPHA-HYDROXYSTEROID
- DEHYDROGENASE) (E2DH) (17-BETA-HSD) (PLACENTAL 17-BETA-HYDROXYSTEROID
- DEHYDROGENASE)
- LENGTH = 327 COMBINED P-VALUE = 7.31e-24 E-VALUE = 2.4e-22
- DIAGRAM: 2_[2]_50_[2]_44_[1]_144
-
- [2]
- 1.4e-14
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++++++ +++++ ++ +
-1 ARTVVLITGCSSGIGLHLAVRLASDPSQSFKVYATLRDLKTQGRLWEAARALACPPGSLETLQLDVRDSKSVAAA
-
- [2]
- 9.3e-05
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++ + ++ ++++ ++ + + + +
-76 RERVTEGRVDVLVCNAGLGLLGPLEALGEDAVASVLDVNVVGTVRMLQAFLPDMKRRGSGRVLVTGSVGGLMGLP
-
- [1]
- 1.0e-16
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++++++++++ + + +++ + +
-151 FNDVYCASKFALEGLCESLAVLLLPFGVHLSLIECGPVHTAFMEKVLGSPEEVLDRTDIHTFHRFYQYLAHSKQV
-
-
-RFBB_NEIGO
- no comment
- LENGTH = 346 COMBINED P-VALUE = 9.68e-21 E-VALUE = 3.2e-19
- DIAGRAM: 6_[2]_129_[1]_153
-
- [2]
- 1.8e-13
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++ ++ +++++ +++ ++
-1 MQTEGKKNILVTGGAGFIGSAVVRHIIQNTRDSVVNLDKLTYAGNLESLTDIADNPRYAFEQVDICDRAELDRVF
-
- [1]
- 1.0e-14
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++ +++++++++ ++ ++ ++
-151 DLFTETTPYAPSSPYSASKAAADHLVRAWQRTYRLPSIVSNCSNNYGPRQFPEKLIPLMILNALSGKPLPVYGDG
-
-
-BPHB_PSEPS
- BIPHENYL-CIS-DIOL DEHYDROGENASE (EC 1.3.1.-)
- LENGTH = 275 COMBINED P-VALUE = 3.02e-20 E-VALUE = 1e-18
- DIAGRAM: 5_[2]_118_[1]_94
-
- [2]
- 8.6e-15
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++++ +++++ ++
-1 MKLKGEAVLITGGASGLGRALVDRFVAEAKVAVLDKSAERLAELETDLGDNVLGIVGDVRSLEDQKQAASRCVAR
-
- [1]
- 1.2e-12
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++++++++++++++++++++++ + +
-151 PLYTAAKQAIVGLVRELAFELAPYVRVNGVGPGGMNSDMRGPSSLGMGSKAISTVPLADMLKSVLPIGRMPEVEE
-
-
-YURA_MYXXA
- no comment
- LENGTH = 258 COMBINED P-VALUE = 5.64e-20 E-VALUE = 1.9e-18
- DIAGRAM: 65_[2]_22_[2]_14_[1]_70
-
- [2]
- 5.6e-05
- KVVLITGCSS
- + ++ ++
-1 RQHTGGLHGGDELPDGVGDGCLQRPGTRAGAVARQAGVRVFAAGRRLPQLQAADEAPGGRRHRGARGVDVTKADA
-
- [2]
- 5.7e-08
- GIGKATAKHLHKEGAKVVL KVVLITGCSSGIGKATAKHLHKEGAKVVL
- + + +++ + + ++ + +++++ + + ++ ++ + +
-76 TLERIRALDAEAGGLDLVVANAGVGGTTNAKRLPWERVRGIIDTNVTGAAATLSAVLPQMVERKRGHLVGVSSLA
-
- [1]
- 3.8e-19
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- +++++++++ ++++++++++ ++++++++
-151 GFRGLPATRYSASKAFLSTFMESLRVDLRGTGVRVTCIYPGFVKSELTATNNFPMPFLMETHDAVELMGKGIVRG
-
-
-PCR_PEA
- no comment
- LENGTH = 399 COMBINED P-VALUE = 2.17e-19 E-VALUE = 7.2e-18
- DIAGRAM: 25_[1]_32_[2]_284
-
- [1]
- 1.7e-08
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++ ++++++++++ + + +++ +
-1 MALQTASMLPASFSIPKEGKIGASLKDSTLFGVSSLSDSLKGDFTSSALRCKELRQKVGAVRAETAAPATPAVNK
-
- [2]
- 1.9e-18
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++++++++++++++++++ + ++
-76 SSSEGKKTLRKGNVVITGASSGLGLATAKALAESGKWHVIMACRDYLKAARAAKSAGLAKENYTIMHLDLASLDS
-
-
-DHCA_HUMAN
- no comment
- LENGTH = 276 COMBINED P-VALUE = 3.43e-19 E-VALUE = 1.1e-17
- DIAGRAM: 4_[2]_159_[1]_55
-
- [2]
- 4.0e-16
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++++++++++++++++++++ + ++
-1 SSGIHVALVTGGNKGIGLAIVRDLCRLFSGDVVLTARDVTRGQAAVQQLQAEGLSPRFHQLDIDDLQSIRALRDF
-
- [1]
- 2.9e-10
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++ ++ +++ +++ +++ +++++ +++
-151 PELQQKFRSETITEEELVGLMNKFVEDTKKGVHQKEGWPSSAYGVTKIGVTVLSRIHARKLSEQRKGDKILLNAC
-
-
-ADH_DROME
- ALCOHOL DEHYDROGENASE (EC 1.1.1.1)
- LENGTH = 255 COMBINED P-VALUE = 8.17e-16 E-VALUE = 2.7e-14
- DIAGRAM: 6_[2]_116_[1]_75
-
- [2]
- 1.1e-10
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- ++++ + +++++ + ++++++ + +
-1 SFTLTNKNVIFVAGLGGIGLDTSKELLKRDLKNLVILDRIENPAAIAELKAINPKVTVTFYPYDVTVPIAETTKL
-
- [1]
- 3.6e-12
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++ ++++++++++++++ ++++ +++
-151 VYSGTKAAVVNFTSSLAKLAPITGVTAYTVNPGITRTTLVHKFNSWLDVEPQVAEKLLAHPTQPSLACAENFVKA
-
-
-MAS1_AGRRA
- no comment
- LENGTH = 476 COMBINED P-VALUE = 9.22e-16 E-VALUE = 3e-14
- DIAGRAM: 245_[2]_74_[1]_14_[1]_56
-
-
- [2]
- 2.9e-15
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++ + +++ ++++++++++++++ +
-226 GRVLHFRRGFSHWTVEIHQSPVILVSGSNRGVGKAIAEDLIAHGYRLSLGARKVKDLEVAFGPQDEWLHYARFDA
-
- [1]
- 4.0e-08
- YSASKFAVRMLTRSMAHEYAPHGIRVN
- + + + +++ ++ + +++ +++
-301 EDHGTMAAWVTAAVEKFGRIDGLVNNAGYGEPVNLDKHVDYQRFHLQWYINCVAPLRMTELCLPHLYETGSGRIV
-
- [1]
- 8.7e-05
- CI YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++ + +++ ++ +++++ ++ + +
-376 NINSMSGQRVLNPLVGYNMTKHALGGLTKTTQHVGWDRRCAAIDICLGFVATDMSAWTDLIASKDMIQPEDIAKL
-
-
-FABI_ECOLI
- no comment
- LENGTH = 262 COMBINED P-VALUE = 2.94e-15 E-VALUE = 9.7e-14
- DIAGRAM: 6_[2]_123_[1]_75
-
- [2]
- 4.5e-10
- KVVLITGCSSGIGKATAKHLHKEGAKVVL
- +++++++ ++ + ++ ++ +++ +
-1 MGFLSGKRILVTGVASKLSIAYGIAQAMHREGAELAFTYQNDKLKGRVEEFAAQLGSDIVLQCDVAEDASIDTMF
-
- [1]
- 3.1e-12
- YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- ++ +++++++ +++++ +++++++++++
-151 RAIPNYNVMGLAKASLEANVRYMANAMGPEGVRVNAISAGPIRTLAASGIKDFRKMLAHCEAVTPIRRTVTIEDV
-
-
-CSGA_MYXXA
- no comment
- LENGTH = 166 COMBINED P-VALUE = 7.50e-14 E-VALUE = 2.5e-12
- DIAGRAM: 51_[2]_7_[1]_50
-
- [2]
- 9.0e-08
- KVVLITGCSSGIGKATAKHLHKEG
- + ++ + ++ + +++ +++
-1 MRAFATNVCTGPVDVLINNAGVSGLWCALGDVDYADMARTFTINALGPLRVTSAMLPGLRQGALRRVAHVTSRMG
-
- [1]
- 1.3e-12
- AKVVL YSASKFAVRMLTRSMAHEYAPHGIRVNCI
- + + ++++++ + ++++ ++++++ + + +
-76 SLAANTDGGAYAYRMSKAALNMAVRSMSTDLRPEGFVTVLLHPGWVQTDMGGPDATLPAPDSVRGMLRVIDGLNP
-
-********************************************************************************
-
-
-CPU: pmgm2
-Time 0.250000 secs.
-
-mast meme.adh.oops.txt -text -stdout
diff --git a/Tests/MEME/mast.protein.tcm.txt b/Tests/MEME/mast.protein.tcm.txt
deleted file mode 100644
index 15340c5..0000000
--- a/Tests/MEME/mast.protein.tcm.txt
+++ /dev/null
@@ -1,332 +0,0 @@
-********************************************************************************
-MAST - Motif Alignment and Search Tool
-********************************************************************************
- MAST version 3.0 (Release date: 2004/08/18 09:07:01)
-
- For further information on how to interpret these results or to get
- a copy of the MAST software please access http://meme.sdsc.edu.
-********************************************************************************
-
-
-********************************************************************************
-REFERENCE
-********************************************************************************
- If you use this program in your research, please cite:
-
- Timothy L. Bailey and Michael Gribskov,
- "Combining evidence using p-values: application to sequence homology
- searches", Bioinformatics, 14(48-54), 1998.
-********************************************************************************
-
-
-********************************************************************************
-DATABASE AND MOTIFS
-********************************************************************************
- DATABASE farntrans5.s (peptide)
- Last updated on Mon Aug 16 21:19:59 2004
- Database contains 5 sequences, 1900 residues
-
- MOTIFS meme.farntrans5.tcm.txt (peptide)
- MOTIF WIDTH BEST POSSIBLE MATCH
- ----- ----- -------------------
- 1 30 GGFQGRPNKEVHTCYTYWALAALAILNKLH
- 2 14 INKEKLIQWIKSCQ
-
- PAIRWISE MOTIF CORRELATIONS:
- MOTIF 1
- ----- -----
- 2 0.22
- No overly similar pairs (correlation > 0.60) found.
-
- Random model letter frequencies (from non-redundant database):
- A 0.073 C 0.018 D 0.052 E 0.062 F 0.040 G 0.069 H 0.022 I 0.056 K 0.058
- L 0.092 M 0.023 N 0.046 P 0.051 Q 0.041 R 0.052 S 0.074 T 0.059 V 0.064
- W 0.013 Y 0.033
-********************************************************************************
-
-
-********************************************************************************
-SECTION I: HIGH-SCORING SEQUENCES
-********************************************************************************
- - Each of the following 5 sequences has E-value less than 10.
- - The E-value of a sequence is the expected number of sequences
- in a random database of the same size that would match the motifs as
- well as the sequence does and is equal to the combined p-value of the
- sequence times the number of sequences in the database.
- - The combined p-value of a sequence measures the strength of the
- match of the sequence to all the motifs and is calculated by
- o finding the score of the single best match of each motif
- to the sequence (best matches may overlap),
- o calculating the sequence p-value of each score,
- o forming the product of the p-values,
- o taking the p-value of the product.
- - The sequence p-value of a score is defined as the
- probability of a random sequence of the same length containing
- some match with as good or better a score.
- - The score for the match of a position in a sequence to a motif
- is computed by by summing the appropriate entry from each column of
- the position-dependent scoring matrix that represents the motif.
- - Sequences shorter than one or more of the motifs are skipped.
- - The table is sorted by increasing E-value.
-********************************************************************************
-
-SEQUENCE NAME DESCRIPTION E-VALUE LENGTH
-------------- ----------- -------- ------
-BET2_YEAST YPT1/SEC4 PROTEINS GERANY... 2.9e-27 325
-RATRABGERB Rat rab geranylgeranyl tr... 1.4e-25 331
-CAL1_YEAST RAS PROTEINS GERANYLGERAN... 9.7e-22 376
-PFTB_RAT PROTEIN FARNESYLTRANSFERA... 7.6e-21 437
-RAM1_YEAST PROTEIN FARNESYLTRANSFERA... 6.2e-20 431
-
-********************************************************************************
-
-
-
-********************************************************************************
-SECTION II: MOTIF DIAGRAMS
-********************************************************************************
- - The ordering and spacing of all non-overlapping motif occurrences
- are shown for each high-scoring sequence listed in Section I.
- - A motif occurrence is defined as a position in the sequence whose
- match to the motif has POSITION p-value less than 0.0001.
- - The POSITION p-value of a match is the probability of
- a single random subsequence of the length of the motif
- scoring at least as well as the observed match.
- - For each sequence, all motif occurrences are shown unless there
- are overlaps. In that case, a motif occurrence is shown only if its
- p-value is less than the product of the p-values of the other
- (lower-numbered) motif occurrences that it overlaps.
- - The table also shows the E-value of each sequence.
- - Spacers and motif occurences are indicated by
- o -d- `d' residues separate the end of the preceding motif
- occurrence and the start of the following motif occurrence
- o [n] occurrence of motif `n' with p-value less than 0.0001.
-********************************************************************************
-
-SEQUENCE NAME E-VALUE MOTIF DIAGRAM
-------------- -------- -------------
-BET2_YEAST 2.9e-27 6_[2]_3_[1]_1_[2]_4_[1]_4_[2]_
- 3_[1]_1_[2]_3_[1]_21_[1]_1_[2]_
- 4_[1]_24
-RATRABGERB 1.4e-25 65_[2]_3_[1]_1_[2]_3_[1]_1_[2]_
- 3_[1]_18_[1]_1_[2]_4_[1]_26
-CAL1_YEAST 9.7e-22 125_[2]_50_[2]_1_[1]_4_[2]_22_
- [1]_22_[1]_5_[2]_1
-PFTB_RAT 7.6e-21 120_[2]_3_[1]_4_[2]_3_[1]_1_[2]_
- 3_[1]_1_[2]_4_[1]_14_[2]_4_[1]_60
-RAM1_YEAST 6.2e-20 144_[1]_5_[2]_4_[1]_1_[2]_4_[1]_
- 1_[2]_4_[1]_4_[2]_5_[1]_35_[2]_4
-
-********************************************************************************
-
-
-
-********************************************************************************
-SECTION III: ANNOTATED SEQUENCES
-********************************************************************************
- - The positions and p-values of the non-overlapping motif occurrences
- are shown above the actual sequence for each of the high-scoring
- sequences from Section I.
- - A motif occurrence is defined as a position in the sequence whose
- match to the motif has POSITION p-value less than 0.0001 as
- defined in Section II.
- - For each sequence, the first line specifies the name of the sequence.
- - The second (and possibly more) lines give a description of the
- sequence.
- - Following the description line(s) is a line giving the length,
- combined p-value, and E-value of the sequence as defined in Section I.
- - The next line reproduces the motif diagram from Section II.
- - The entire sequence is printed on the following lines.
- - Motif occurrences are indicated directly above their positions in the
- sequence on lines showing
- o the motif number of the occurrence,
- o the position p-value of the occurrence,
- o the best possible match to the motif, and
- o columns whose match to the motif has a positive score (indicated
- by a plus sign).
-********************************************************************************
-
-
-BET2_YEAST
- YPT1/SEC4 PROTEINS GERANYLGERANYLTRANSFERASE BETA SUBUNIT (EC 2.
- LENGTH = 325 COMBINED P-VALUE = 5.77e-28 E-VALUE = 2.9e-27
- DIAGRAM: 6_[2]_3_[1]_1_[2]_4_[1]_4_[2]_3_[1]_1_[2]_3_[1]_21_[1]_1_[2]_4_[1]_24
-
- [2] [1] [2] [1]
- 5.2e-05 2.7e-10 6.6e-10 5.9
- INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGF
- +++ +++++++ ++ + +++ +++ +++++ +++++++ + ++++++++++++++ + +
-1 MSGSLTLLKEKHIRYIESLDTNKHNFEYWLTEHLRLNGIYWGLTALCVLDSPETFVKEEVISFVLSCWDDKYGAF
-
- [2] [1]
- e-14 4.8e-07 2.3e-17
- QGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILN
- + +++++++ + ++++++ +++++ +++ +++++++ ++ + ++++ +++++++ +++++++++++
-76 APFPRHDAHLLTTLSAVQILATYDALDVLGKDRKVRLISFIRGNQLEDGSFQGDRFGEVDTRFVYTALSALSILG
-
- [2] [1] [1]
- 5.1e-07 1.4e-18 4.6
- KLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH GGF
- +++ ++++ ++++++++ ++++ ++++++++++++++++++++++++ +++
-151 ELTSEVVDPAVDFVLKCYNFDGGFGLCPNAESHAAQAFTCLGALAIANKLDMLSDDQLEEIGWWLCERQLPEGGL
-
- [2] [1]
- e-22 2.0e-13 3.8e-17
- QGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKL
- ++++ ++++++++++++++++++++++ ++ +++++++++++ ++++++++++++++++ ++++++++++ +
-226 NGRPSKLPDVCYSWWVLSSLAIIGRLDWINYEKLTEFILKCQDEKKGGISDRPENEVDVFHTVFGVAGLSLMGYD
-
-
-
- H
- +
-301 NLVPIDPIYCMPKSVTSKFKKYPYK
-
-
-RATRABGERB
- Rat rab geranylgeranyl transferase beta-subunit
- LENGTH = 331 COMBINED P-VALUE = 2.83e-26 E-VALUE = 1.4e-25
- DIAGRAM: 65_[2]_3_[1]_1_[2]_3_[1]_1_[2]_3_[1]_18_[1]_1_[2]_4_[1]_26
-
- [2]
- 1.0e-11
- INKEKLIQWI
- +++++++ ++
-1 MGTQQKDVTIKSDAPDTLLLEKHADYIASYGSKKDDYEYCMSEYLRMSGVYWGLTVMDLMGQLHRMNKEEILVFI
-
- [1] [2] [1]
- 1.6e-14 1.4e-09 5.4e-19
- KSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWAL
- ++++ ++ + +++++++ ++ ++++++++++++ +++++++ ++++++ + ++++++++++++++++++
-76 KSCQHECGGVSASIGHDPHLLYTLSAVQILTLYDSIHVINVDKVVAYVQSLQKEDGSFAGDIWGEIDTRFSFCAV
-
- [2] [1]
- 3.8e-12 4.8e-19
- AALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH
- ++++++++++ ++++++++++++++ ++++++++ ++++++++++++ ++++++++
-151 ATLALLGKLDAINVEKAIEFVLSCMNFDGGFGCRPGSESHAGQIYCCTGFLAITSQLHQVNSDLLGWWLCERQLP
-
- [1] [2] [1]
- 3.9e-21 1.2e-12 9.6e-18
- GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAI
- +++++++++++++++++++++++ ++++++ ++++++++++++++ ++++++++++++ +++ ++++++++
-226 SGGLNGRPEKLPDVCYSWWVLASLKIIGRLHWIDREKLRSFILACQDEETGGFADRPGDMVDPFHTLFGIAGLSL
-
-
-
- LNKLH
- +++++
-301 LGEEQIKPVSPVFCMPEEVLQRVNVQPELVS
-
-
-CAL1_YEAST
- RAS PROTEINS GERANYLGERANYLTRANSFERASE (EC 2.5.1.-) (PROTEIN GER
- LENGTH = 376 COMBINED P-VALUE = 1.94e-22 E-VALUE = 9.7e-22
- DIAGRAM: 125_[2]_50_[2]_1_[1]_4_[2]_22_[1]_22_[1]_5_[2]_1
-
-
- [2]
- 1.8e-08
- INKEKLIQWIKSCQ
- +++++++++++++
-76 LDDTENTVISGFVGSLVMNIPHATTINLPNTLFALLSMIMLRDYEYFETILDKRSLARFVSKCQRPDRGSFVSCL
-
- [2] [1]
- 4.8e-10 8.7e-14
- INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALA
- +++++++ ++++++ + + + +++++ +++ ++++
-151 DYKTNCGSSVDSDDLRFCYIAVAILYICGCRSKEDFDEYIDTEKLLGYIMSQQCYNGAFGAHNEPHSGYTSCALS
-
- [2] [1]
- 5.9e-08 5.9e-20
- ALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAIL
- +++++++++ ++++++++++++ +++++++++ +++++++++++++ ++
-226 TLALLSSLEKLSDKFKEDTITWLLHRQVSSHGCMKFESELNASYDQSDDGGFQGRENKFADTCYAFWCLNSLHLL
-
- [1] [2]
- 4.0e-13 2.1e-07
- NKLH GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ
- ++++ ++++ + ++++++++++ + +++++++ + ++ +++++++++
-301 TKDWKMLCQTELVTNYLLDRTQKTLTGGFSKNDEEDADLYHSCLGSAALALIEGKFNGELCIPQEIFNDFSKRCC
-
-
-PFTB_RAT
- PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARNES
- LENGTH = 437 COMBINED P-VALUE = 1.53e-21 E-VALUE = 7.6e-21
- DIAGRAM: 120_[2]_3_[1]_4_[2]_3_[1]_1_[2]_3_[1]_1_[2]_4_[1]_14_[2]_4_[1]_60
-
-
- [2] [1]
- 1.3e-07 2.8e-19
- INKEKLIQWIKSCQ GGFQGRPNKEVHT
- ++ ++++++++ ++ +++++++++ +++
-76 EKHFHYLKRGLRQLTDAYECLDASRPWLCYWILHSLELLDEPIPQIVATDVCQFLELCQSPDGGFGGGPGQYPHL
-
- [2] [1] [2]
- 2.3e-09 2.1e-14 1.8e-0
- CYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKL
- + +++++++++++++++ ++++++++++ +++ + + ++ +++++++ +++++++++++++++ + +++
-151 APTYAAVNALCIIGTEEAYNVINREKLLQYLYSLKQPDGSFLMHVGGEVDVRSAYCAASVASLTNIITPDLFEGT
-
- [1] [2] [1]
- 8 7.4e-20 1.8e-08 2.2e-16
- IQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCY
- ++++ +++ +++++ +++++++++++++++++ ++++++ + +++++++++++ ++++++ ++++++++
-226 AEWIARCQNWEGGIGGVPGMEAHGGYTFCGLAALVILKKERSLNLKSLLQWVTSRQMRFEGGFQGRCNKLVDGCY
-
- [2] [1]
- 5.0e-08 3.1e-15
- TYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNK
- ++++++ + ++++ ++++++++++++++ +++ +++++ +++++++++++++++++
-301 SFWQAGLLPLLHRALHAQGDPALSMSHWMFHQQALQEYILMCCQCPAGGLLDKPGKSRDFYHTCYCLSGLSIAQH
-
-
-
- LH
- +
-376 FGSGAMLHDVVMGVPENVLQPTHPVYNIGPDKVIQATTHFLQKPVPGFEECEDAVTSDPATD
-
-
-RAM1_YEAST
- PROTEIN FARNESYLTRANSFERASE BETA SUBUNIT (EC 2.5.1.-) (CAAX FARN
- LENGTH = 431 COMBINED P-VALUE = 1.24e-20 E-VALUE = 6.2e-20
- DIAGRAM: 144_[1]_5_[2]_4_[1]_1_[2]_4_[1]_1_[2]_4_[1]_4_[2]_5_[1]_35_[2]_4
-
-
- [1]
- 8.8e-1
- GGFQGR
- + ++++
-76 PALTKEFHKMYLDVAFEISLPPQMTALDASQPWMLYWIANSLKVMDRDWLSDDTKRKIVVKLFTISPSGGPFGGG
-
- [2] [1]
- 7 6.4e-07 1.0e-13
- PNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNK
- ++++++++ ++++++++++ ++++ ++++++++++ +++ + ++ ++++++++ +++++++++++++
-151 PGQLSHLASTYAAINALSLCDNIDGCWDRIDRKGIYQWLISLKEPNGGFKTCLEVGEVDTRGIYCALSIATLLNI
-
- [2] [1] [2] [1]
- 2.5e-08 3.1e-17 4.7e-11 2.4e-
- LH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQG
- ++ + ++++++++++++ + ++ +++++++++++++++++++++++ ++++++++++++++ ++ +
-226 LTEELTEGVLNYLKNCQNYEGGFGSCPHVDEAHGGYTFCATASLAILRSMDQINVEKLLEWSSARQLQEERGFCG
-
- [2] [1]
- 16 4.9e-09 2.7e-13
- RPNKEVHTCYTYWALAALAILNKLH INKEKLIQWIKSCQ GGFQGRPNKEVHTCYTYWALAALAILN
- + ++++++++++++ +++++++++ +++++++++++ ++ +++++++++++++++ +++ ++++++
-301 RSNKLVDGCYSFWVGGSAAILEAFGYGQCFNKHALRDYILYCCQEKEQPGLRDKPGAHSDFYHTNYCLLGLAVAE
-
- [2]
- 9.8e-05
- KLH INKEKLIQWIKSCQ
- + +++++++ + +++
-376 SSYSCTPNDSPHNIKCTPDRLIGSSKLTDVNPVYGLPIENVRKIIHYFKSNLSSPS
-
-********************************************************************************
-
-
-CPU: pmgm2
-Time 0.130000 secs.
-
-mast meme.farntrans5.tcm.txt -text -stdout
diff --git a/Tests/MEME/meme.dna.oops.txt b/Tests/MEME/meme.dna.oops.txt
deleted file mode 100644
index d2f53fe..0000000
--- a/Tests/MEME/meme.dna.oops.txt
+++ /dev/null
@@ -1,324 +0,0 @@
-********************************************************************************
-MEME - Motif discovery tool
-********************************************************************************
-MEME version 3.0 (Release date: 2004/08/18 09:07:01)
-
-For further information on how to interpret these results or to get
-a copy of the MEME software please access http://meme.sdsc.edu.
-
-This file may be used as input to the MAST algorithm for searching
-sequence databases for matches to groups of motifs. MAST is available
-for interactive use and downloading at http://meme.sdsc.edu.
-********************************************************************************
-
-
-********************************************************************************
-REFERENCE
-********************************************************************************
-If you use this program in your research, please cite:
-
-Timothy L. Bailey and Charles Elkan,
-"Fitting a mixture model by expectation maximization to discover
-motifs in biopolymers", Proceedings of the Second International
-Conference on Intelligent Systems for Molecular Biology, pp. 28-36,
-AAAI Press, Menlo Park, California, 1994.
-********************************************************************************
-
-
-********************************************************************************
-TRAINING SET
-********************************************************************************
-DATAFILE= INO_up800.s
-ALPHABET= ACGT
-Sequence name Weight Length Sequence name Weight Length
-------------- ------ ------ ------------- ------ ------
-CHO1 1.0000 800 CHO2 1.0000 800
-FAS1 1.0000 800 FAS2 1.0000 800
-ACC1 1.0000 800 INO1 1.0000 800
-OPI3 1.0000 800
-********************************************************************************
-
-********************************************************************************
-COMMAND LINE SUMMARY
-********************************************************************************
-This information can also be useful in the event you wish to report a
-problem with the MEME software.
-
-command: meme -mod oops -dna -revcomp -nmotifs 2 -bfile yeast.nc.6.freq INO_up800.s
-
-model: mod= oops nmotifs= 2 evt= inf
-object function= E-value of product of p-values
-width: minw= 8 maxw= 50 minic= 0.00
-width: wg= 11 ws= 1 endgaps= yes
-nsites: minsites= 7 maxsites= 7 wnsites= 0.8
-theta: prob= 1 spmap= uni spfuzz= 0.5
-em: prior= dirichlet b= 0.01 maxiter= 50
- distance= 1e-05
-data: n= 5600 N= 7
-strands: + -
-sample: seed= 0 seqfrac= 1
-Letter frequencies in dataset:
-A 0.304 C 0.196 G 0.196 T 0.304
-Background letter frequencies (from yeast.nc.6.freq):
-A 0.324 C 0.176 G 0.176 T 0.324
-********************************************************************************
-
-
-********************************************************************************
-MOTIF 1 width = 12 sites = 7 llr = 95 E-value = 2.0e-001
-********************************************************************************
---------------------------------------------------------------------------------
- Motif 1 Description
---------------------------------------------------------------------------------
-Simplified A :::9:a::::3:
-pos.-specific C ::a:9:11691a
-probability G ::::1::94:4:
-matrix T aa:1::9::11:
-
- bits 2.5 * *
- 2.3 * *
- 2.0 * * * *
- 1.8 * * * * *
-Information 1.5 *** ** *** *
-content 1.3 *** ****** *
-(19.5 bits) 1.0 ********** *
- 0.8 ********** *
- 0.5 ********** *
- 0.3 ************
- 0.0 ------------
-
-Multilevel TTCACATGCCGC
-consensus G A
-sequence
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 sites sorted by position p-value
---------------------------------------------------------------------------------
-Sequence name Strand Start P-value Site
-------------- ------ ----- --------- ------------
-INO1 - 620 1.85e-08 GACAATACTT TTCACATGCCGC ATTTAGCCGC
-FAS1 + 95 1.85e-08 GGCCAAAAAC TTCACATGCCGC CCAGCCAAGC
-ACC1 + 83 1.52e-07 CGTTAAAATC TTCACATGGCCC GGCCGCGCGC
-CHO2 + 354 2.52e-07 TGCCACACTT TTCTCATGCCGC ATTCATTATT
-CHO1 + 611 4.23e-07 ACTTTGAACG TTCACACGGCAC CCTCACGCCT
-FAS2 + 567 9.43e-07 CTCCCGCGTT TTCACATGCTAC CTCATTCGCC
-OPI3 + 340 3.32e-06 CCAAGCCTCC TTCAGATCGCTC TTGTCGACCG
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 block diagrams
---------------------------------------------------------------------------------
-SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-INO1 1.8e-08 619_[-1]_169
-FAS1 1.8e-08 94_[+1]_694
-ACC1 1.5e-07 82_[+1]_706
-CHO2 2.5e-07 353_[+1]_435
-CHO1 4.2e-07 610_[+1]_178
-FAS2 9.4e-07 566_[+1]_222
-OPI3 3.3e-06 339_[+1]_449
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 in BLOCKS format
---------------------------------------------------------------------------------
-BL MOTIF 1 width=12 seqs=7
-INO1 ( 620) TTCACATGCCGC 1
-FAS1 ( 95) TTCACATGCCGC 1
-ACC1 ( 83) TTCACATGGCCC 1
-CHO2 ( 354) TTCTCATGCCGC 1
-CHO1 ( 611) TTCACACGGCAC 1
-FAS2 ( 567) TTCACATGCTAC 1
-OPI3 ( 340) TTCAGATCGCTC 1
-//
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 position-specific scoring matrix
---------------------------------------------------------------------------------
-log-odds matrix: alength= 4 w= 12 n= 5523 bayes= 9.62205 E= 2.0e-001
- -945 -945 -945 162
- -945 -945 -945 162
- -945 251 -945 -945
- 140 -945 -945 -118
- -945 229 -30 -945
- 162 -945 -945 -945
- -945 -30 -945 140
- -945 -30 229 -945
- -945 170 129 -945
- -945 229 -945 -118
- -18 -30 129 -118
- -945 251 -945 -945
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 position-specific probability matrix
---------------------------------------------------------------------------------
-letter-probability matrix: alength= 4 w= 12 nsites= 7 E= 2.0e-001
- 0.000000 0.000000 0.000000 1.000000
- 0.000000 0.000000 0.000000 1.000000
- 0.000000 1.000000 0.000000 0.000000
- 0.857143 0.000000 0.000000 0.142857
- 0.000000 0.857143 0.142857 0.000000
- 1.000000 0.000000 0.000000 0.000000
- 0.000000 0.142857 0.000000 0.857143
- 0.000000 0.142857 0.857143 0.000000
- 0.000000 0.571429 0.428571 0.000000
- 0.000000 0.857143 0.000000 0.142857
- 0.285714 0.142857 0.428571 0.142857
- 0.000000 1.000000 0.000000 0.000000
---------------------------------------------------------------------------------
-
-
-
-
-
-Time 20.91 secs.
-
-********************************************************************************
-
-
-********************************************************************************
-MOTIF 2 width = 10 sites = 7 llr = 81 E-value = 1.1e+002
-********************************************************************************
---------------------------------------------------------------------------------
- Motif 2 Description
---------------------------------------------------------------------------------
-Simplified A ::1:::9:6:
-pos.-specific C :a:::a:911
-probability G 3:1aa:1:19
-matrix T 7:7::::11:
-
- bits 2.5 * ***
- 2.3 * ***
- 2.0 * *** *
- 1.8 * *** * *
-Information 1.5 * *** * *
-content 1.3 * ***** *
-(16.7 bits) 1.0 ** ***** *
- 0.8 ** ***** *
- 0.5 ******** *
- 0.3 **********
- 0.0 ----------
-
-Multilevel TCTGGCACAG
-consensus G
-sequence
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 sites sorted by position p-value
---------------------------------------------------------------------------------
-Sequence name Strand Start P-value Site
-------------- ------ ----- --------- ----------
-OPI3 - 186 3.24e-07 GAAAACCAGA TCTGGCACAG ACCGTTGTCA
-ACC1 + 232 3.24e-07 CCAGTCGTAT TCTGGCACAG TATAGCCTAG
-CHO1 - 559 3.24e-07 ATATTCAGTG TCTGGCACAG AAGTCTGCAC
-INO1 - 283 5.29e-06 ACGGTCTACG GCGGGCGCAG TCGCATGTCT
-FAS1 + 44 6.25e-06 TACACGAGGT GCAGGCACGG TTCACTACTC
-FAS2 - 185 8.48e-06 TTCTTGCTTT TCTGGCACTC TTGACGGCTT
-CHO2 - 413 8.48e-06 TTTTGCCGTT TCTGGCATCG CCGTTCATTT
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 block diagrams
---------------------------------------------------------------------------------
-SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-OPI3 3.2e-07 185_[-2]_605
-ACC1 3.2e-07 231_[+2]_559
-CHO1 3.2e-07 558_[-2]_232
-INO1 5.3e-06 282_[-2]_508
-FAS1 6.3e-06 43_[+2]_747
-FAS2 8.5e-06 184_[-2]_606
-CHO2 8.5e-06 412_[-2]_378
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 in BLOCKS format
---------------------------------------------------------------------------------
-BL MOTIF 2 width=10 seqs=7
-OPI3 ( 186) TCTGGCACAG 1
-ACC1 ( 232) TCTGGCACAG 1
-CHO1 ( 559) TCTGGCACAG 1
-INO1 ( 283) GCGGGCGCAG 1
-FAS1 ( 44) GCAGGCACGG 1
-FAS2 ( 185) TCTGGCACTC 1
-CHO2 ( 413) TCTGGCATCG 1
-//
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 position-specific scoring matrix
---------------------------------------------------------------------------------
-log-odds matrix: alength= 4 w= 10 n= 5537 bayes= 9.62571 E= 1.1e+002
- -945 -945 70 114
- -945 251 -945 -945
- -118 -945 -30 114
- -945 -945 251 -945
- -945 -945 251 -945
- -945 251 -945 -945
- 140 -945 -30 -945
- -945 229 -945 -118
- 82 -30 -30 -118
- -945 -30 229 -945
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 position-specific probability matrix
---------------------------------------------------------------------------------
-letter-probability matrix: alength= 4 w= 10 nsites= 7 E= 1.1e+002
- 0.000000 0.000000 0.285714 0.714286
- 0.000000 1.000000 0.000000 0.000000
- 0.142857 0.000000 0.142857 0.714286
- 0.000000 0.000000 1.000000 0.000000
- 0.000000 0.000000 1.000000 0.000000
- 0.000000 1.000000 0.000000 0.000000
- 0.857143 0.000000 0.142857 0.000000
- 0.000000 0.857143 0.000000 0.142857
- 0.571429 0.142857 0.142857 0.142857
- 0.000000 0.142857 0.857143 0.000000
---------------------------------------------------------------------------------
-
-
-
-
-
-Time 41.19 secs.
-
-********************************************************************************
-
-
-********************************************************************************
-SUMMARY OF MOTIFS
-********************************************************************************
-
---------------------------------------------------------------------------------
- Combined block diagrams: non-overlapping sites with p-value < 0.0001
---------------------------------------------------------------------------------
-SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-CHO1 5.44e-06 152_[+2(1.10e-05)]_396_[-2(3.24e-07)]_42_[+1(4.23e-07)]_17_[+1(1.23e-05)]_149
-CHO2 6.96e-05 353_[+1(2.52e-07)]_47_[-2(8.48e-06)]_378
-FAS1 4.61e-06 43_[+2(6.25e-06)]_41_[+1(1.85e-08)]_694
-FAS2 2.34e-04 184_[-2(8.48e-06)]_372_[+1(9.43e-07)]_222
-ACC1 2.09e-06 82_[+1(1.52e-07)]_137_[+2(3.24e-07)]_559
-INO1 3.95e-06 282_[-2(5.29e-06)]_327_[-1(1.85e-08)]_55_[+1(7.55e-06)]_102
-OPI3 3.70e-05 185_[-2(3.24e-07)]_144_[+1(3.32e-06)]_449
---------------------------------------------------------------------------------
-
-********************************************************************************
-
-
-********************************************************************************
-Stopped because nmotifs = 2 reached.
-********************************************************************************
-
-CPU: pmgm2
-
-********************************************************************************
diff --git a/Tests/MEME/meme.protein.oops.txt b/Tests/MEME/meme.protein.oops.txt
deleted file mode 100644
index 1d72fe2..0000000
--- a/Tests/MEME/meme.protein.oops.txt
+++ /dev/null
@@ -1,630 +0,0 @@
-********************************************************************************
-MEME - Motif discovery tool
-********************************************************************************
-MEME version 3.0 (Release date: 2004/08/18 09:07:01)
-
-For further information on how to interpret these results or to get
-a copy of the MEME software please access http://meme.sdsc.edu.
-
-This file may be used as input to the MAST algorithm for searching
-sequence databases for matches to groups of motifs. MAST is available
-for interactive use and downloading at http://meme.sdsc.edu.
-********************************************************************************
-
-
-********************************************************************************
-REFERENCE
-********************************************************************************
-If you use this program in your research, please cite:
-
-Timothy L. Bailey and Charles Elkan,
-"Fitting a mixture model by expectation maximization to discover
-motifs in biopolymers", Proceedings of the Second International
-Conference on Intelligent Systems for Molecular Biology, pp. 28-36,
-AAAI Press, Menlo Park, California, 1994.
-********************************************************************************
-
-
-********************************************************************************
-TRAINING SET
-********************************************************************************
-DATAFILE= adh.s
-ALPHABET= ACDEFGHIKLMNPQRSTVWY
-Sequence name Weight Length Sequence name Weight Length
-------------- ------ ------ ------------- ------ ------
-2BHD_STREX 1.0000 255 3BHD_COMTE 1.0000 253
-ADH_DROME 1.0000 255 AP27_MOUSE 1.0000 244
-BA72_EUBSP 1.0000 249 BDH_HUMAN 1.0000 343
-BPHB_PSEPS 1.0000 275 BUDC_KLETE 1.0000 241
-DHES_HUMAN 1.0000 327 DHGB_BACME 1.0000 262
-DHII_HUMAN 1.0000 292 DHMA_FLAS1 1.0000 270
-ENTA_ECOLI 1.0000 248 FIXR_BRAJA 1.0000 278
-GUTD_ECOLI 1.0000 259 HDE_CANTR 1.0000 906
-HDHA_ECOLI 1.0000 255 LIGD_PSEPA 1.0000 305
-NODG_RHIME 1.0000 245 RIDH_KLEAE 1.0000 249
-YINL_LISMO 1.0000 248 YRTP_BACSU 1.0000 238
-CSGA_MYXXA 1.0000 166 DHB2_HUMAN 1.0000 387
-DHB3_HUMAN 1.0000 310 DHCA_HUMAN 1.0000 276
-FABI_ECOLI 1.0000 262 FVT1_HUMAN 1.0000 332
-HMTR_LEIMA 1.0000 287 MAS1_AGRRA 1.0000 476
-PCR_PEA 1.0000 399 RFBB_NEIGO 1.0000 346
-YURA_MYXXA 1.0000 258
-********************************************************************************
-
-********************************************************************************
-COMMAND LINE SUMMARY
-********************************************************************************
-This information can also be useful in the event you wish to report a
-problem with the MEME software.
-
-command: meme adh.s -mod oops -protein -nmotifs 2
-
-model: mod= oops nmotifs= 2 evt= inf
-object function= E-value of product of p-values
-width: minw= 8 maxw= 50 minic= 0.00
-width: wg= 11 ws= 1 endgaps= yes
-nsites: minsites= 33 maxsites= 33 wnsites= 0.8
-theta: prob= 1 spmap= pam spfuzz= 120
-em: prior= dmix b= 0 maxiter= 50
- distance= 1e-05
-data: n= 9996 N= 33
-
-sample: seed= 0 seqfrac= 1
-Dirichlet mixture priors file: prior30.plib
-Letter frequencies in dataset:
-A 0.111 C 0.012 D 0.050 E 0.055 F 0.036 G 0.090 H 0.018 I 0.057 K 0.052
-L 0.092 M 0.027 N 0.041 P 0.041 Q 0.029 R 0.049 S 0.064 T 0.057 V 0.083
-W 0.010 Y 0.027
-Background letter frequencies (from dataset with add-one prior applied):
-A 0.111 C 0.012 D 0.050 E 0.055 F 0.036 G 0.090 H 0.018 I 0.057 K 0.052
-L 0.092 M 0.027 N 0.041 P 0.041 Q 0.029 R 0.049 S 0.064 T 0.057 V 0.083
-W 0.010 Y 0.027
-********************************************************************************
-
-
-********************************************************************************
-MOTIF 1 width = 29 sites = 33 llr = 1118 E-value = 3.6e-165
-********************************************************************************
---------------------------------------------------------------------------------
- Motif 1 Description
---------------------------------------------------------------------------------
-Simplified A :162:56112:1:215:::4:::::::11
-pos.-specific C :1:::::::::::1:::::::::::1:1:
-probability D ::::::::1:::1::::2:::::::::::
-matrix E ::::::::1:::21:::5:111:::::::
- F :::::31:::2:::::1::::::::::::
- G :2:::13::4:::1:1:::11:5:1:11:
- H :::::::::1::1:::1::::1:::::::
- I :::::::11:::::::::1::::5:2:13
- K ::::9:::1:::2:::1::121::1:1::
- L :::::::31:6:1:5:215::1:::::12
- M ::1::::1:2:1::2:1:1::::::::::
- N :::::::::1::::::::::::2:1:41:
- P ::::::::::::::::::::3::::::::
- Q ::::::::::::1::11:::11:::::::
- R ::::::::2:::3::22::21:1:4:1::
- S :426::1:11:213:::::1:11:::21:
- T :1:2::::1::3:1::::::11::1:11:
- V :::::::41::2:1::1:1::::316123
- W :::::1:::::::::::::::::::::::
- Y 9:::::::::::::::::2::2:::::::
-
- bits 6.7
- 6.0
- 5.4
- 4.7 *
-Information 4.0 * *
-content 3.4 * *
-(48.9 bits) 2.7 * ** *
- 2.0 * **** * * * * *
- 1.3 ******** ******* ** * ***** *
- 0.7 *****************************
- 0.0 -----------------------------
-
-Multilevel YSASKAAVxGLTRSLAxELAPxGIRVNVV
-consensus FGL FSE MR D V I
-sequence
-
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 sites sorted by position p-value
---------------------------------------------------------------------------------
-Sequence name Start P-value Site
-------------- ----- --------- -----------------------------
-YRTP_BACSU 155 1.64e-22 GQRGAAVTSA YSASKFAVLGLTESLMQEVRKHNIRVSAL TPSTVASDMS
-AP27_MOUSE 149 6.32e-22 AHVTFPNLIT YSSTKGAMTMLTKAMAMELGPHKIRVNSV NPTVVLTDMG
-NODG_RHIME 152 1.13e-21 GAIGNPGQTN YCASKAGMIGFSKSLAQEIATRNITVNCV APGFIESAMT
-BUDC_KLETE 152 4.04e-21 GHVGNPELAV YSSSKFAVRGLTQTAARDLAPLGITVNGF CPGIVKTPMW
-FIXR_BRAJA 189 6.12e-21 SRVHPFAGSA YATSKAALASLTRELAHDYAPHGIRVNAI APGEIRTDML
-DHGB_BACME 160 7.52e-20 WKIPWPLFVH YAASKGGMKLMTETLALEYAPKGIRVNNI GPGAINTPIN
-HMTR_LEIMA 193 3.35e-19 TNQPLLGYTI YTMAKGALEGLTRSAALELAPLQIRVNGV GPGLSVLVDD
-YURA_MYXXA 160 4.82e-19 AGFRGLPATR YSASKAFLSTFMESLRVDLRGTGVRVTCI YPGFVKSELT
-GUTD_ECOLI 154 4.82e-19 GKVGSKHNSG YSAAKFGGVGLTQSLALDLAEYGITVHSL MLGNLLKSPM
-2BHD_STREX 152 1.11e-18 GLMGLALTSS YGASKWGVRGLSKLAAVELGTDRIRVNSV HPGMTYTPMT
-HDHA_ECOLI 159 1.25e-18 AENKNINMTS YASSKAAASHLVRNMAFDLGEKNIRVNGI APGAILTDAL
-DHB2_HUMAN 232 2.23e-18 GGAPMERLAS YGSSKAAVTMFSSVMRLELSKWGIKVASI QPGGFLTNIA
-DHMA_FLAS1 165 5.53e-18 SFMAEPEAAA YVAAKGGVAMLTRAMAVDLARHGILVNMI APGPVDVTGN
-HDE_CANTR 467 9.65e-18 GIYGNFGQAN YSSSKAGILGLSKTMAIEGAKNNIKVNIV APHAETAMTL
-FVT1_HUMAN 186 2.86e-17 GQLGLFGFTA YSASKFAIRGLAEALQMEVKPYNVYITVA YPPDTDTPGF
-BDH_HUMAN 208 8.20e-17 GRMANPARSP YCITKFGVEAFSDCLRYEMYPLGVKVSVV EPGNFIAATS
-RIDH_KLEAE 160 9.09e-17 GVVPVIWEPV YTASKFAVQAFVHTTRRQVAQYGVRVGAV LPGPVVTALL
-DHES_HUMAN 155 1.37e-16 GLMGLPFNDV YCASKFALEGLCESLAVLLLPFGVHLSLI ECGPVHTAFM
-BA72_EUBSP 157 2.52e-16 GIFGSLSGVG YPASKASVIGLTHGLGREIIRKNIRVVGV APGVVNTDMT
-LIGD_PSEPA 157 1.21e-15 GFMGSALAGP YSAAKAASINLMEGYRQGLEKYGIGVSVC TPANIKSNIA
-DHII_HUMAN 183 1.61e-15 GKVAYPMVAA YSASKFALDGFFSSIRKEYSVSRVNVSIT LCVLGLIDTE
-ENTA_ECOLI 144 1.77e-15 AHTPRIGMSA YGASKAALKSLALSVGLELAGSGVRCNVV SPGSTDTDMQ
-3BHD_COMTE 151 7.81e-15 SWLPIEQYAG YSASKAAVSALTRAAALSCRKQGYAIRVN SIHPDGIYTP
-DHB3_HUMAN 198 8.55e-15 ALFPWPLYSM YSASKAFVCAFSKALQEEYKAKEVIIQVL TPYAVSTAMT
-RFBB_NEIGO 165 1.47e-14 ETTPYAPSSP YSASKAAADHLVRAWQRTYRLPSIVSNCS NNYGPRQFPE
-YINL_LISMO 154 3.24e-14 GLKAYPGGAV YGATKWAVRDLMEVLRMESAQEGTNIRTA TIYPAAINTE
-BPHB_PSEPS 153 1.80e-12 GFYPNGGGPL YTAAKQAIVGLVRELAFELAPYVRVNGVG PGGMNSDMRG
-CSGA_MYXXA 88 2.10e-12 AANTDGGAYA YRMSKAALNMAVRSMSTDLRPEGFVTVLL HPGWVQTDMG
-FABI_ECOLI 159 4.15e-12 AERAIPNYNV MGLAKASLEANVRYMANAMGPEGVRVNAI SAGPIRTLAA
-ADH_DROME 152 5.20e-12 GFNAIYQVPV YSGTKAAVVNFTSSLAKLAPITGVTAYTV NPGITRTTLV
-DHCA_HUMAN 193 4.80e-10 HQKEGWPSSA YGVTKIGVTVLSRIHARKLSEQRKGDKIL LNACCPGWVR
-PCR_PEA 26 2.77e-08 PKEGKIGASL KDSTLFGVSSLSDSLKGDFTSSALRCKEL RQKVGAVRAE
-MAS1_AGRRA 349 5.72e-08 VDYQRFHLQW YINCVAPLRMTELCLPHLYETGSGRIVNI NSMSGQRVLN
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 block diagrams
---------------------------------------------------------------------------------
-SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-YRTP_BACSU 1.6e-22 154_[1]_55
-AP27_MOUSE 6.3e-22 148_[1]_67
-NODG_RHIME 1.1e-21 151_[1]_65
-BUDC_KLETE 4e-21 151_[1]_61
-FIXR_BRAJA 6.1e-21 188_[1]_61
-DHGB_BACME 7.5e-20 159_[1]_74
-HMTR_LEIMA 3.4e-19 192_[1]_66
-YURA_MYXXA 4.8e-19 159_[1]_70
-GUTD_ECOLI 4.8e-19 153_[1]_77
-2BHD_STREX 1.1e-18 151_[1]_75
-HDHA_ECOLI 1.2e-18 158_[1]_68
-DHB2_HUMAN 2.2e-18 231_[1]_127
-DHMA_FLAS1 5.5e-18 164_[1]_77
-HDE_CANTR 9.7e-18 466_[1]_411
-FVT1_HUMAN 2.9e-17 185_[1]_118
-BDH_HUMAN 8.2e-17 207_[1]_107
-RIDH_KLEAE 9.1e-17 159_[1]_61
-DHES_HUMAN 1.4e-16 154_[1]_144
-BA72_EUBSP 2.5e-16 156_[1]_64
-LIGD_PSEPA 1.2e-15 156_[1]_120
-DHII_HUMAN 1.6e-15 182_[1]_81
-ENTA_ECOLI 1.8e-15 143_[1]_76
-3BHD_COMTE 7.8e-15 150_[1]_74
-DHB3_HUMAN 8.6e-15 197_[1]_84
-RFBB_NEIGO 1.5e-14 164_[1]_153
-YINL_LISMO 3.2e-14 153_[1]_66
-BPHB_PSEPS 1.8e-12 152_[1]_94
-CSGA_MYXXA 2.1e-12 87_[1]_50
-FABI_ECOLI 4.2e-12 158_[1]_75
-ADH_DROME 5.2e-12 151_[1]_75
-DHCA_HUMAN 4.8e-10 192_[1]_55
-PCR_PEA 2.8e-08 25_[1]_345
-MAS1_AGRRA 5.7e-08 348_[1]_99
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 in BLOCKS format
---------------------------------------------------------------------------------
-BL MOTIF 1 width=29 seqs=33
-YRTP_BACSU ( 155) YSASKFAVLGLTESLMQEVRKHNIRVSAL 1
-AP27_MOUSE ( 149) YSSTKGAMTMLTKAMAMELGPHKIRVNSV 1
-NODG_RHIME ( 152) YCASKAGMIGFSKSLAQEIATRNITVNCV 1
-BUDC_KLETE ( 152) YSSSKFAVRGLTQTAARDLAPLGITVNGF 1
-FIXR_BRAJA ( 189) YATSKAALASLTRELAHDYAPHGIRVNAI 1
-DHGB_BACME ( 160) YAASKGGMKLMTETLALEYAPKGIRVNNI 1
-HMTR_LEIMA ( 193) YTMAKGALEGLTRSAALELAPLQIRVNGV 1
-YURA_MYXXA ( 160) YSASKAFLSTFMESLRVDLRGTGVRVTCI 1
-GUTD_ECOLI ( 154) YSAAKFGGVGLTQSLALDLAEYGITVHSL 1
-2BHD_STREX ( 152) YGASKWGVRGLSKLAAVELGTDRIRVNSV 1
-HDHA_ECOLI ( 159) YASSKAAASHLVRNMAFDLGEKNIRVNGI 1
-DHB2_HUMAN ( 232) YGSSKAAVTMFSSVMRLELSKWGIKVASI 1
-DHMA_FLAS1 ( 165) YVAAKGGVAMLTRAMAVDLARHGILVNMI 1
-HDE_CANTR ( 467) YSSSKAGILGLSKTMAIEGAKNNIKVNIV 1
-FVT1_HUMAN ( 186) YSASKFAIRGLAEALQMEVKPYNVYITVA 1
-BDH_HUMAN ( 208) YCITKFGVEAFSDCLRYEMYPLGVKVSVV 1
-RIDH_KLEAE ( 160) YTASKFAVQAFVHTTRRQVAQYGVRVGAV 1
-DHES_HUMAN ( 155) YCASKFALEGLCESLAVLLLPFGVHLSLI 1
-BA72_EUBSP ( 157) YPASKASVIGLTHGLGREIIRKNIRVVGV 1
-LIGD_PSEPA ( 157) YSAAKAASINLMEGYRQGLEKYGIGVSVC 1
-DHII_HUMAN ( 183) YSASKFALDGFFSSIRKEYSVSRVNVSIT 1
-ENTA_ECOLI ( 144) YGASKAALKSLALSVGLELAGSGVRCNVV 1
-3BHD_COMTE ( 151) YSASKAAVSALTRAAALSCRKQGYAIRVN 1
-DHB3_HUMAN ( 198) YSASKAFVCAFSKALQEEYKAKEVIIQVL 1
-RFBB_NEIGO ( 165) YSASKAAADHLVRAWQRTYRLPSIVSNCS 1
-YINL_LISMO ( 154) YGATKWAVRDLMEVLRMESAQEGTNIRTA 1
-BPHB_PSEPS ( 153) YTAAKQAIVGLVRELAFELAPYVRVNGVG 1
-CSGA_MYXXA ( 88) YRMSKAALNMAVRSMSTDLRPEGFVTVLL 1
-FABI_ECOLI ( 159) MGLAKASLEANVRYMANAMGPEGVRVNAI 1
-ADH_DROME ( 152) YSGTKAAVVNFTSSLAKLAPITGVTAYTV 1
-DHCA_HUMAN ( 193) YGVTKIGVTVLSRIHARKLSEQRKGDKIL 1
-PCR_PEA ( 26) KDSTLFGVSSLSDSLKGDFTSSALRCKEL 1
-MAS1_AGRRA ( 349) YINCVAPLRMTELCLPHLYETGSGRIVNI 1
-//
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 position-specific scoring matrix
---------------------------------------------------------------------------------
-log-odds matrix: alength= 20 w= 29 n= 9072 bayes= 8.09755 E= 3.6e-165
- -716 -497 -698 -691 -172 -730 -304 -562 -80 -507 12 -550 -661 -513 -563 -605 -625 -609 -217 508
- -51 240 -90 -249 -334 53 -232 -106 -219 -337 -278 -209 -72 -192 -79 276 81 -153 -332 -306
- 257 -64 -390 -343 -320 -160 -326 -144 -343 -193 26 -120 -436 -313 -349 86 -117 -123 -309 -358
- 57 116 -511 -541 -504 -420 -453 -532 -481 -549 -470 -353 -434 -438 -470 325 161 -493 -485 -492
- -433 -317 -482 -429 -524 -520 -342 -409 413 -326 -416 -349 -435 -343 -57 -433 -392 -321 -375 -453
- 205 -259 -559 -505 282 34 -356 -70 -475 -333 -299 -445 -475 -1 -468 -326 -334 -312 255 -226
- 235 -273 -630 -622 68 154 -557 -603 -636 -616 -544 -517 -44 -518 -595 5 -371 -482 -571 -615
- -80 -195 -498 -421 -234 -161 -307 78 -389 146 165 -378 -410 -325 -384 -96 -250 223 -275 -265
- -75 107 27 110 -355 -358 -150 45 46 -69 -279 -14 -296 44 145 85 61 -5 -331 -279
- 33 -283 -54 -168 -321 176 159 -291 -150 -137 223 56 -315 -120 -208 49 -61 -125 -319 -277
- -215 -277 -532 -447 217 -558 -360 -167 -423 288 23 -95 -427 -325 -396 -413 -122 -250 -311 -327
- -89 117 -466 -101 -26 -476 -318 -198 -376 -255 156 -325 -415 -315 -380 173 259 99 -304 -300
- -295 -344 26 181 -386 -383 160 -385 151 -69 -304 -196 -322 112 242 49 -236 -378 -354 -305
- 56 211 -348 6 -258 -72 -244 -52 -256 -112 -197 -40 -364 -217 -294 224 101 -30 -286 10
- -3 -202 -498 -419 -224 -471 54 -37 -388 234 272 -382 -407 -317 -379 -325 -74 -85 143 8
- 204 -306 -264 -189 -396 -69 -189 -390 -14 -378 3 -217 -51 156 193 -72 -251 -369 -361 -322
- -277 -280 -236 -39 57 -152 158 -80 39 79 153 -21 -313 156 145 -204 -60 39 -315 8
- -164 -464 216 305 -496 -158 -268 -472 -47 -16 -396 -277 -379 31 -306 -90 -81 -452 -469 -411
- -157 123 -496 -418 -13 -163 -303 31 -385 220 113 -376 -406 -318 -379 -98 -251 25 -270 253
- 149 -311 -209 33 -354 22 -151 -97 45 -149 -278 -172 -46 -92 145 50 -59 -348 -330 5
- -142 -318 -208 76 -356 -68 -151 -97 147 -150 -280 -172 276 112 34 -61 60 -140 -332 -280
- -268 -317 -47 77 -38 -150 250 -359 121 -18 -279 -15 -46 112 -37 50 13 -352 139 222
- -156 -338 -229 -48 -391 239 -183 -396 -30 -386 -318 190 -329 27 74 -6 -247 -151 -356 -313
- -372 -253 -410 -399 -123 -293 -366 345 -197 -52 -102 -354 -429 -337 -203 -342 -171 118 -313 -110
- -144 -290 -233 -162 -327 -68 73 -84 85 -139 -256 56 -312 -113 285 -203 97 1 -321 8
- -146 94 -193 -329 -285 -443 -265 73 -337 -177 -228 -168 -320 -310 -312 -198 -113 308 -344 -389
- -142 -319 -207 -138 -356 -68 75 -360 46 -347 -280 302 -296 44 34 113 13 -5 -332 6
- 6 273 -480 -92 -230 26 -297 77 -371 -32 33 44 -403 -310 -372 80 13 130 -270 -259
- -80 123 -491 -416 -13 -162 -302 217 -383 93 -169 -51 -405 -320 -379 -96 -66 178 -270 -260
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 position-specific probability matrix
---------------------------------------------------------------------------------
-letter-probability matrix: alength= 20 w= 29 nsites= 33 E= 3.6e-165
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.939394
- 0.090909 0.090909 0.030303 0.000000 0.000000 0.181818 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.393939 0.090909 0.030303 0.000000 0.000000
- 0.575758 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.000000 0.030303 0.060606 0.030303 0.000000 0.000000 0.000000 0.181818 0.030303 0.030303 0.000000 0.000000
- 0.181818 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.606061 0.181818 0.000000 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.939394 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000
- 0.484848 0.000000 0.000000 0.000000 0.272727 0.121212 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000
- 0.575758 0.000000 0.000000 0.000000 0.060606 0.272727 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.000000
- 0.060606 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.090909 0.000000 0.272727 0.090909 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.424242 0.000000 0.000000
- 0.060606 0.030303 0.060606 0.121212 0.000000 0.000000 0.000000 0.090909 0.060606 0.060606 0.000000 0.030303 0.000000 0.030303 0.151515 0.121212 0.090909 0.090909 0.000000 0.000000
- 0.151515 0.000000 0.030303 0.000000 0.000000 0.363636 0.060606 0.000000 0.000000 0.030303 0.151515 0.060606 0.000000 0.000000 0.000000 0.090909 0.030303 0.030303 0.000000 0.000000
- 0.030303 0.000000 0.000000 0.000000 0.242424 0.000000 0.000000 0.000000 0.000000 0.636364 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000
- 0.060606 0.030303 0.000000 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.090909 0.000000 0.000000 0.000000 0.000000 0.242424 0.333333 0.181818 0.000000 0.000000
- 0.000000 0.000000 0.060606 0.212121 0.000000 0.000000 0.060606 0.000000 0.151515 0.060606 0.000000 0.000000 0.000000 0.060606 0.303030 0.090909 0.000000 0.000000 0.000000 0.000000
- 0.181818 0.060606 0.000000 0.060606 0.000000 0.060606 0.000000 0.030303 0.000000 0.030303 0.000000 0.030303 0.000000 0.000000 0.000000 0.333333 0.121212 0.060606 0.000000 0.030303
- 0.121212 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.030303 0.000000 0.484848 0.212121 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.030303 0.030303 0.030303
- 0.515152 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.030303 0.000000 0.030303 0.000000 0.030303 0.090909 0.212121 0.030303 0.000000 0.000000 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.030303 0.060606 0.030303 0.060606 0.030303 0.060606 0.181818 0.090909 0.030303 0.000000 0.090909 0.151515 0.000000 0.030303 0.121212 0.000000 0.030303
- 0.030303 0.000000 0.242424 0.484848 0.000000 0.030303 0.000000 0.000000 0.030303 0.090909 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.030303 0.000000 0.000000 0.000000
- 0.030303 0.030303 0.000000 0.000000 0.030303 0.030303 0.000000 0.060606 0.000000 0.454545 0.060606 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.090909 0.000000 0.181818
- 0.363636 0.000000 0.000000 0.060606 0.000000 0.121212 0.000000 0.030303 0.060606 0.030303 0.000000 0.000000 0.030303 0.000000 0.151515 0.090909 0.030303 0.000000 0.000000 0.030303
- 0.030303 0.000000 0.000000 0.090909 0.000000 0.060606 0.000000 0.030303 0.151515 0.030303 0.000000 0.000000 0.333333 0.060606 0.060606 0.030303 0.090909 0.030303 0.000000 0.000000
- 0.000000 0.000000 0.030303 0.090909 0.030303 0.030303 0.121212 0.000000 0.121212 0.090909 0.000000 0.030303 0.030303 0.060606 0.030303 0.090909 0.060606 0.000000 0.030303 0.151515
- 0.030303 0.000000 0.000000 0.030303 0.000000 0.515152 0.000000 0.000000 0.030303 0.000000 0.000000 0.181818 0.000000 0.030303 0.090909 0.060606 0.000000 0.030303 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.030303 0.030303 0.000000 0.484848 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.030303 0.303030 0.000000 0.030303
- 0.030303 0.000000 0.000000 0.000000 0.000000 0.060606 0.030303 0.030303 0.090909 0.030303 0.000000 0.060606 0.000000 0.000000 0.424242 0.000000 0.121212 0.090909 0.000000 0.030303
- 0.030303 0.060606 0.030303 0.000000 0.000000 0.000000 0.000000 0.151515 0.000000 0.030303 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.030303 0.606061 0.000000 0.000000
- 0.030303 0.000000 0.000000 0.000000 0.000000 0.060606 0.030303 0.000000 0.060606 0.000000 0.000000 0.393939 0.000000 0.030303 0.060606 0.151515 0.060606 0.090909 0.000000 0.030303
- 0.121212 0.090909 0.000000 0.030303 0.000000 0.121212 0.000000 0.090909 0.000000 0.060606 0.030303 0.060606 0.000000 0.000000 0.000000 0.121212 0.060606 0.212121 0.000000 0.000000
- 0.060606 0.030303 0.000000 0.000000 0.030303 0.030303 0.000000 0.272727 0.000000 0.181818 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.030303 0.303030 0.000000 0.000000
---------------------------------------------------------------------------------
-
-
-
-
-
-Time 36.66 secs.
-
-********************************************************************************
-
-
-********************************************************************************
-MOTIF 2 width = 29 sites = 33 llr = 1106 E-value = 2.3e-159
-********************************************************************************
---------------------------------------------------------------------------------
- Motif 2 Description
---------------------------------------------------------------------------------
-Simplified A :14::::531:1:1516:2:322:51111
-pos.-specific C :::::::1::::::::1::::::::::::
-probability D ::::::::1:::::1:::1:::1::::::
-matrix E ::::::::::::::2::11::22::::::
- F :::::::::::::1:::::2::::1::1:
- G ::::::a4218:9:::::1::1:8:1:11
- H :::::::::::::1:::11:1:1::1:::
- I ::124::::::5:::2:1::1:::::1:1
- K 61:::::::2:::2:::3:::21:13:::
- L :::51::::::3:2:2:1151:1:111:3
- M :::::::::::::::1::::::1::::::
- N :1::::::1:::::::::::::1::1:::
- P 1::::::::::::::::::::::::::::
- Q 1::::::::1:::::::::::11::::::
- R :1:::::::2:::2:::21::111:1:::
- S :::::::123::1:1:1:::111:1111:
- T 111::9::::1::::2::1::1:::::1:
- V :4425::::::1:::12:1:1:::::553
- W :::::::::::::::::::::::::::::
- Y :::::::::::::::1::::::::1::::
-
- bits 6.7
- 6.0
- 5.4
- 4.7
-Information 4.0
-content 3.4 **
-(48.4 bits) 2.7 *** * *
- 2.0 * ****** *** * * *
- 1.3 ****************** * * ** ***
- 0.7 *****************************
- 0.0 -----------------------------
-
-Multilevel KVALVTGAASGIGKATAKxLAAEGAKVVL
-consensus VII GG L R I F K V
-sequence S
-
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 sites sorted by position p-value
---------------------------------------------------------------------------------
-Sequence name Start P-value Site
-------------- ----- --------- -----------------------------
-HDE_CANTR 323 2.44e-23 SGAPTVSLKD KVVLITGAGAGLGKEYAKWFAKYGAKVVV NDFKDATKTV
-DHII_HUMAN 35 5.50e-23 EEFRPEMLQG KKVIVTGASKGIGREMAYHLAKMGAHVVV TARSKETLQK
-YINL_LISMO 6 5.38e-22 MTIKN KVIIITGASSGIGKATALLLAEKGAKLVL AARRVEKLEK
-HDHA_ECOLI 12 5.65e-20 FNSDNLRLDG KCAIITGAGAGIGKEIAITFATAGASVVV SDINADAANH
-RIDH_KLEAE 15 1.17e-19 VSSMNTSLSG KVAAITGAASGIGLECARTLLGAGAKVVL IDREGEKLNK
-BUDC_KLETE 3 1.17e-19 MQ KVALVTGAGQGIGKAIALRLVKDGFAVAI ADYNDATATA
-ENTA_ECOLI 6 4.74e-19 MDFSG KNVWVTGAGKGIGYATALAFVEAGAKVTG FDQAFTQEQY
-AP27_MOUSE 8 9.31e-19 MKLNFSG LRALVTGAGKGIGRDTVKALHASGAKVVA VTRTNSDLVS
-DHMA_FLAS1 15 2.50e-18 VSRRPGRLAG KAAIVTGAAGGIGRATVEAYLREGASVVA MDLAPRLAAT
-YRTP_BACSU 7 3.45e-18 MQSLQH KTALITGGGRGIGRATALALAKEGVNIGL IGRTSANVEK
-DHGB_BACME 8 5.86e-18 MYKDLEG KVVVITGSSTGLGKSMAIRFATEKAKVVV NYRSKEDEAN
-DHB3_HUMAN 49 9.86e-18 LPKSFLRSMG QWAVITGAGDGIGKAYSFELAKRGLNVVL ISRTLEKLEA
-PCR_PEA 87 2.47e-17 SSEGKKTLRK GNVVITGASSGLGLATAKALAESGKWHVI MACRDYLKAA
-BDH_HUMAN 56 3.01e-17 YASAAEPVGS KAVLVTGCDSGFGFSLAKHLHSKGFLVFA GCLMKDKGHD
-BA72_EUBSP 7 3.33e-17 MNLVQD KVTIITGGTRGIGFAAAKIFIDNGAKVSI FGETQEEVDT
-FIXR_BRAJA 37 4.06e-17 VNARVDRGEP KVMLLTGASRGIGHATAKLFSEAGWRIIS CARQPFDGER
-3BHD_COMTE 7 4.06e-17 TNRLQG KVALVTGGASGVGLEVVKLLLGEGAKVAF SDINEAAGQQ
-2BHD_STREX 7 8.05e-17 MNDLSG KTVIITGGARGLGAEAARQAVAAGARVVL ADVLDEEGAA
-HMTR_LEIMA 7 1.90e-16 MTAPTV PVALVTGAAKRLGRSIAEGLHAEGYAVCL HYHRSAAEAN
-FVT1_HUMAN 33 2.77e-16 ISPKPLALPG AHVVVTGGSSGIGKCIAIECYKQGAFITL VARNEDKLLQ
-DHB2_HUMAN 83 3.65e-16 SGQELLPVDQ KAVLVTGGDCGLGHALCKYLDELGFTVFA GVLNENGPGA
-LIGD_PSEPA 7 8.31e-16 MKDFQD QVAFITGGASGAGFGQAKVFGQAGAKIVV ADVRAEAVEK
-NODG_RHIME 7 4.05e-15 MFELTG RKALVTGASGAIGGAIARVLHAQGAIVGL HGTQIEKLET
-DHCA_HUMAN 5 5.24e-15 SSGI HVALVTGGNKGIGLAIVRDLCRLFSGDVV LTARDVTRGQ
-MAS1_AGRRA 246 3.00e-14 SHWTVEIHQS PVILVSGSNRGVGKAIAEDLIAHGYRLSL GARKVKDLEV
-BPHB_PSEPS 6 8.47e-14 MKLKG EAVLITGGASGLGRALVDRFVAEAKVAVL DKSAERLAEL
-GUTD_ECOLI 3 1.46e-13 MN QVAVVIGGGQTLGAFLCHGLAAEGYRVAV VDIQSDKAAN
-DHES_HUMAN 3 1.46e-13 AR TVVLITGCSSGIGLHLAVRLASDPSQSFK VYATLRDLKT
-RFBB_NEIGO 7 1.59e-12 MQTEGK KNILVTGGAGFIGSAVVRHIIQNTRDSVV NLDKLTYAGN
-ADH_DROME 7 6.97e-10 SFTLTN KNVIFVAGLGGIGLDTSKELLKRDLKNLV ILDRIENPAA
-FABI_ECOLI 7 3.15e-09 MGFLSG KRILVTGVASKLSIAYGIAQAMHREGAEL AFTYQNDKLK
-YURA_MYXXA 117 2.77e-07 RLPWERVRGI IDTNVTGAAATLSAVLPQMVERKRGHLVG VSSLAGFRGL
-CSGA_MYXXA 52 4.24e-07 TINALGPLRV TSAMLPGLRQGALRRVAHVTSRMGSLAAN TDGGAYAYRM
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 block diagrams
---------------------------------------------------------------------------------
-SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-HDE_CANTR 2.4e-23 322_[2]_555
-DHII_HUMAN 5.5e-23 34_[2]_229
-YINL_LISMO 5.4e-22 5_[2]_214
-HDHA_ECOLI 5.7e-20 11_[2]_215
-RIDH_KLEAE 1.2e-19 14_[2]_206
-BUDC_KLETE 1.2e-19 2_[2]_210
-ENTA_ECOLI 4.7e-19 5_[2]_214
-AP27_MOUSE 9.3e-19 7_[2]_208
-DHMA_FLAS1 2.5e-18 14_[2]_227
-YRTP_BACSU 3.4e-18 6_[2]_203
-DHGB_BACME 5.9e-18 7_[2]_226
-DHB3_HUMAN 9.9e-18 48_[2]_233
-PCR_PEA 2.5e-17 86_[2]_284
-BDH_HUMAN 3e-17 55_[2]_259
-BA72_EUBSP 3.3e-17 6_[2]_214
-FIXR_BRAJA 4.1e-17 36_[2]_213
-3BHD_COMTE 4.1e-17 6_[2]_218
-2BHD_STREX 8e-17 6_[2]_220
-HMTR_LEIMA 1.9e-16 6_[2]_252
-FVT1_HUMAN 2.8e-16 32_[2]_271
-DHB2_HUMAN 3.7e-16 82_[2]_276
-LIGD_PSEPA 8.3e-16 6_[2]_270
-NODG_RHIME 4.1e-15 6_[2]_210
-DHCA_HUMAN 5.2e-15 4_[2]_243
-MAS1_AGRRA 3e-14 245_[2]_202
-BPHB_PSEPS 8.5e-14 5_[2]_241
-GUTD_ECOLI 1.5e-13 2_[2]_228
-DHES_HUMAN 1.5e-13 2_[2]_296
-RFBB_NEIGO 1.6e-12 6_[2]_311
-ADH_DROME 7e-10 6_[2]_220
-FABI_ECOLI 3.1e-09 6_[2]_227
-YURA_MYXXA 2.8e-07 116_[2]_113
-CSGA_MYXXA 4.2e-07 51_[2]_86
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 in BLOCKS format
---------------------------------------------------------------------------------
-BL MOTIF 2 width=29 seqs=33
-HDE_CANTR ( 323) KVVLITGAGAGLGKEYAKWFAKYGAKVVV 1
-DHII_HUMAN ( 35) KKVIVTGASKGIGREMAYHLAKMGAHVVV 1
-YINL_LISMO ( 6) KVIIITGASSGIGKATALLLAEKGAKLVL 1
-HDHA_ECOLI ( 12) KCAIITGAGAGIGKEIAITFATAGASVVV 1
-RIDH_KLEAE ( 15) KVAAITGAASGIGLECARTLLGAGAKVVL 1
-BUDC_KLETE ( 3) KVALVTGAGQGIGKAIALRLVKDGFAVAI 1
-ENTA_ECOLI ( 6) KNVWVTGAGKGIGYATALAFVEAGAKVTG 1
-AP27_MOUSE ( 8) LRALVTGAGKGIGRDTVKALHASGAKVVA 1
-DHMA_FLAS1 ( 15) KAAIVTGAAGGIGRATVEAYLREGASVVA 1
-YRTP_BACSU ( 7) KTALITGGGRGIGRATALALAKEGVNIGL 1
-DHGB_BACME ( 8) KVVVITGSSTGLGKSMAIRFATEKAKVVV 1
-DHB3_HUMAN ( 49) QWAVITGAGDGIGKAYSFELAKRGLNVVL 1
-PCR_PEA ( 87) GNVVITGASSGLGLATAKALAESGKWHVI 1
-BDH_HUMAN ( 56) KAVLVTGCDSGFGFSLAKHLHSKGFLVFA 1
-BA72_EUBSP ( 7) KVTIITGGTRGIGFAAAKIFIDNGAKVSI 1
-FIXR_BRAJA ( 37) KVMLLTGASRGIGHATAKLFSEAGWRIIS 1
-3BHD_COMTE ( 7) KVALVTGGASGVGLEVVKLLLGEGAKVAF 1
-2BHD_STREX ( 7) KTVIITGGARGLGAEAARQAVAAGARVVL 1
-HMTR_LEIMA ( 7) PVALVTGAAKRLGRSIAEGLHAEGYAVCL 1
-FVT1_HUMAN ( 33) AHVVVTGGSSGIGKCIAIECYKQGAFITL 1
-DHB2_HUMAN ( 83) KAVLVTGGDCGLGHALCKYLDELGFTVFA 1
-LIGD_PSEPA ( 7) QVAFITGGASGAGFGQAKVFGQAGAKIVV 1
-NODG_RHIME ( 7) RKALVTGASGAIGGAIARVLHAQGAIVGL 1
-DHCA_HUMAN ( 5) HVALVTGGNKGIGLAIVRDLCRLFSGDVV 1
-MAS1_AGRRA ( 246) PVILVSGSNRGVGKAIAEDLIAHGYRLSL 1
-BPHB_PSEPS ( 6) EAVLITGGASGLGRALVDRFVAEAKVAVL 1
-GUTD_ECOLI ( 3) QVAVVIGGGQTLGAFLCHGLAAEGYRVAV 1
-DHES_HUMAN ( 3) TVVLITGCSSGIGLHLAVRLASDPSQSFK 1
-RFBB_NEIGO ( 7) KNILVTGGAGFIGSAVVRHIIQNTRDSVV 1
-ADH_DROME ( 7) KNVIFVAGLGGIGLDTSKELLKRDLKNLV 1
-FABI_ECOLI ( 7) KRILVTGVASKLSIAYGIAQAMHREGAEL 1
-YURA_MYXXA ( 117) IDTNVTGAAATLSAVLPQMVERKRGHLVG 1
-CSGA_MYXXA ( 52) TSAMLPGLRQGALRRVAHVTSRMGSLAAN 1
-//
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 position-specific scoring matrix
---------------------------------------------------------------------------------
-log-odds matrix: alength= 20 w= 29 n= 9072 bayes= 8.09755 E= 2.3e-159
- -143 -322 -212 -29 -360 -150 75 -97 323 -150 -283 -174 41 159 -35 -190 13 -356 -334 -283
- 0 103 -55 -150 -343 -365 68 -277 37 -328 -270 137 -300 -104 27 -68 8 216 134 -284
- 184 -328 -685 -628 -415 -668 -559 121 -607 -334 17 -587 -610 -559 -621 -535 7 212 -519 -487
- -171 -214 -506 -425 -20 -485 -317 170 -395 240 30 -63 -412 -320 -383 -339 -272 73 137 -278
- -548 -378 -767 -727 -25 -789 -710 277 -719 -45 -344 -695 -699 -669 -749 -678 -480 260 -602 -574
- -390 -251 -433 -462 -434 -534 -365 -109 -376 -462 -320 -258 -80 -318 -390 -26 386 -153 -406 -454
- -198 -345 -337 -398 -504 336 -361 -523 -381 -566 -470 -293 -442 -394 -385 -308 -423 -506 -397 -449
- 205 225 -616 -594 -556 193 -536 -552 -603 -163 -504 -510 -489 -501 -571 4 -361 -139 -540 -583
- 131 -370 35 -219 -442 128 -213 -456 -212 -158 -382 70 -370 -181 -55 181 -71 -445 -421 -359
- -30 108 -48 -141 -360 23 -153 -364 148 -351 -284 -173 -299 159 146 204 -60 -357 -335 -283
- -204 -337 -316 -378 -112 323 -341 -505 -141 -549 -452 -272 -427 -375 -136 -296 -74 -492 -378 -430
- -95 -361 -677 -632 -23 -695 -554 323 -604 166 -255 -593 -615 -536 -614 -563 -440 -15 -461 -462
- -326 -337 -324 -385 -492 331 -348 -511 -368 -235 -458 -280 -431 -381 -372 -66 -413 -495 -385 -437
- -30 -269 -258 -187 114 -153 158 -74 206 82 -239 -214 -326 -135 191 -71 -224 -281 -312 9
- 237 89 -43 92 -86 -158 5 -315 -262 -325 -263 -289 -394 -232 -114 27 -229 -127 -314 -338
- -79 126 -496 -418 -229 -460 -302 183 -384 95 114 -373 -406 -2 -380 -314 194 28 -269 160
- 260 176 -422 -376 -354 -156 -358 -340 -378 -355 -293 -375 -107 -342 -381 -6 -258 55 -342 -392
- -270 -314 -48 76 -39 -361 159 86 236 21 -276 -175 -299 43 146 -189 -211 -138 -330 6
- 56 -301 25 75 -338 -68 212 -90 -130 -15 8 -180 -302 41 116 -193 13 -2 141 7
- -177 105 -501 -421 238 -487 -316 -44 -391 257 -134 -393 -406 -19 -377 -340 -87 -96 -279 -4
- 151 122 -87 -90 -241 -159 248 70 -331 38 -181 -340 -395 -280 -347 -10 -242 54 -276 11
- 75 -319 -47 137 -356 -68 -150 -361 189 -347 5 -170 -296 112 117 5 13 -353 -332 -279
- 55 -318 27 179 -355 -357 159 -360 88 -69 94 59 -295 112 34 6 -209 -352 -331 6
- -204 -337 -127 -377 -112 318 -341 -505 -141 -549 -452 -272 -122 -374 -52 -296 -161 -492 -378 -430
- 225 -109 -325 -105 68 -158 -257 -288 -22 -98 -250 -283 -385 -221 -102 31 -229 -121 98 106
- -75 -318 -47 -137 -40 -68 159 -97 236 -69 -279 59 -295 44 117 6 -59 -140 140 -279
- -91 -125 -192 -330 -284 -443 -59 58 -338 -101 -228 -167 -320 -310 -312 -132 -175 304 -343 -387
- -59 39 -374 -175 10 -177 -269 -2 -342 -164 -220 -355 -327 -311 -318 -112 -56 295 -333 -366
- 6 -192 -493 -415 -11 -69 -301 78 -81 174 -170 -49 -406 -318 -378 -94 -246 162 -269 -259
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 position-specific probability matrix
---------------------------------------------------------------------------------
-letter-probability matrix: alength= 20 w= 29 nsites= 33 E= 2.3e-159
- 0.030303 0.000000 0.000000 0.030303 0.000000 0.030303 0.030303 0.030303 0.575758 0.030303 0.000000 0.000000 0.060606 0.090909 0.030303 0.000000 0.060606 0.000000 0.000000 0.000000
- 0.121212 0.030303 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.000000 0.121212 0.000000 0.000000 0.060606 0.030303 0.060606 0.424242 0.030303 0.000000
- 0.424242 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.121212 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.363636 0.000000 0.000000
- 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.212121 0.000000 0.484848 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.151515 0.030303 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.393939 0.000000 0.060606 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.515152 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.030303 0.878788 0.030303 0.000000 0.000000
- 0.030303 0.000000 0.000000 0.000000 0.000000 0.969697 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
- 0.454545 0.060606 0.000000 0.000000 0.000000 0.363636 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.030303 0.000000 0.000000
- 0.303030 0.000000 0.060606 0.000000 0.000000 0.242424 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.000000 0.030303 0.242424 0.030303 0.000000 0.000000 0.000000
- 0.090909 0.030303 0.030303 0.000000 0.000000 0.121212 0.000000 0.000000 0.151515 0.000000 0.000000 0.000000 0.000000 0.090909 0.151515 0.303030 0.030303 0.000000 0.000000 0.000000
- 0.030303 0.000000 0.000000 0.000000 0.030303 0.818182 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.000000 0.000000
- 0.060606 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.545455 0.000000 0.303030 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.909091 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.000000 0.000000 0.000000
- 0.090909 0.000000 0.000000 0.000000 0.090909 0.030303 0.060606 0.030303 0.242424 0.181818 0.000000 0.000000 0.000000 0.000000 0.212121 0.030303 0.000000 0.000000 0.000000 0.030303
- 0.484848 0.030303 0.060606 0.181818 0.030303 0.030303 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.090909 0.000000 0.030303 0.000000 0.000000
- 0.060606 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.212121 0.000000 0.181818 0.060606 0.000000 0.000000 0.030303 0.000000 0.000000 0.242424 0.090909 0.000000 0.090909
- 0.636364 0.060606 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.060606 0.000000 0.181818 0.000000 0.000000
- 0.000000 0.000000 0.030303 0.090909 0.030303 0.000000 0.060606 0.121212 0.303030 0.121212 0.000000 0.000000 0.000000 0.030303 0.151515 0.000000 0.000000 0.030303 0.000000 0.030303
- 0.181818 0.000000 0.060606 0.090909 0.000000 0.060606 0.090909 0.030303 0.000000 0.090909 0.030303 0.000000 0.000000 0.030303 0.121212 0.000000 0.060606 0.090909 0.030303 0.030303
- 0.030303 0.030303 0.000000 0.000000 0.242424 0.000000 0.000000 0.030303 0.000000 0.545455 0.000000 0.000000 0.000000 0.030303 0.000000 0.000000 0.030303 0.030303 0.000000 0.030303
- 0.333333 0.030303 0.030303 0.030303 0.000000 0.030303 0.121212 0.090909 0.000000 0.121212 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.000000 0.121212 0.000000 0.030303
- 0.212121 0.000000 0.030303 0.151515 0.000000 0.060606 0.000000 0.000000 0.212121 0.000000 0.030303 0.000000 0.000000 0.060606 0.121212 0.060606 0.060606 0.000000 0.000000 0.000000
- 0.181818 0.000000 0.060606 0.212121 0.000000 0.000000 0.060606 0.000000 0.090909 0.060606 0.060606 0.060606 0.000000 0.060606 0.060606 0.060606 0.000000 0.000000 0.000000 0.030303
- 0.030303 0.000000 0.030303 0.000000 0.030303 0.757576 0.000000 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.060606 0.000000 0.030303 0.000000 0.000000 0.000000
- 0.454545 0.000000 0.000000 0.030303 0.090909 0.030303 0.000000 0.000000 0.060606 0.060606 0.000000 0.000000 0.000000 0.000000 0.030303 0.090909 0.000000 0.030303 0.030303 0.090909
- 0.060606 0.000000 0.030303 0.000000 0.030303 0.060606 0.060606 0.030303 0.303030 0.060606 0.000000 0.060606 0.000000 0.030303 0.121212 0.060606 0.030303 0.030303 0.030303 0.000000
- 0.090909 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.121212 0.000000 0.090909 0.000000 0.030303 0.000000 0.000000 0.000000 0.060606 0.000000 0.545455 0.000000 0.000000
- 0.121212 0.030303 0.000000 0.030303 0.090909 0.060606 0.000000 0.030303 0.000000 0.030303 0.000000 0.000000 0.000000 0.000000 0.000000 0.060606 0.060606 0.484848 0.000000 0.000000
- 0.121212 0.000000 0.000000 0.000000 0.030303 0.060606 0.000000 0.090909 0.030303 0.333333 0.000000 0.030303 0.000000 0.000000 0.000000 0.030303 0.000000 0.272727 0.000000 0.000000
---------------------------------------------------------------------------------
-
-
-
-
-
-Time 67.32 secs.
-
-********************************************************************************
-
-
-********************************************************************************
-SUMMARY OF MOTIFS
-********************************************************************************
-
---------------------------------------------------------------------------------
- Combined block diagrams: non-overlapping sites with p-value < 0.0001
---------------------------------------------------------------------------------
-SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-2BHD_STREX 3.15e-28 6_[2(8.05e-17)]_116_[1(1.11e-18)]_75
-3BHD_COMTE 9.69e-25 6_[2(4.06e-17)]_115_[1(7.81e-15)]_74
-ADH_DROME 6.95e-15 6_[2(6.97e-10)]_116_[1(5.20e-12)]_75
-AP27_MOUSE 2.21e-33 7_[2(9.31e-19)]_112_[1(6.32e-22)]_67
-BA72_EUBSP 2.62e-26 6_[2(3.33e-17)]_121_[1(2.52e-16)]_64
-BDH_HUMAN 1.58e-26 55_[2(3.01e-17)]_123_[1(8.20e-17)]_107
-BPHB_PSEPS 4.38e-19 5_[2(8.47e-14)]_118_[1(1.80e-12)]_94
-BUDC_KLETE 1.73e-33 2_[2(1.17e-19)]_120_[1(4.04e-21)]_61
-DHES_HUMAN 9.98e-23 2_[2(1.46e-13)]_123_[1(1.37e-16)]_144
-DHGB_BACME 1.78e-30 7_[2(5.86e-18)]_123_[1(7.52e-20)]_74
-DHII_HUMAN 4.64e-31 34_[2(5.50e-23)]_119_[1(1.61e-15)]_81
-DHMA_FLAS1 5.69e-29 14_[2(2.50e-18)]_121_[1(5.53e-18)]_77
-ENTA_ECOLI 2.69e-27 5_[2(4.74e-19)]_109_[1(1.77e-15)]_76
-FIXR_BRAJA 1.15e-30 36_[2(4.06e-17)]_123_[1(6.12e-21)]_61
-GUTD_ECOLI 2.33e-25 2_[2(1.46e-13)]_122_[1(4.82e-19)]_77
-HDE_CANTR 1.43e-32 8_[2(3.45e-18)]_125_[1(4.01e-13)]_131_[2(2.44e-23)]_115_[1(9.65e-18)]_411
-HDHA_ECOLI 2.75e-31 11_[2(5.65e-20)]_74_[1(4.42e-05)]_15_[1(1.25e-18)]_68
-LIGD_PSEPA 4.54e-24 6_[2(8.31e-16)]_121_[1(1.21e-15)]_120
-NODG_RHIME 1.55e-29 6_[2(4.05e-15)]_116_[1(1.13e-21)]_65
-RIDH_KLEAE 3.67e-29 14_[2(1.17e-19)]_116_[1(9.09e-17)]_61
-YINL_LISMO 5.92e-29 5_[2(5.38e-22)]_119_[1(3.24e-14)]_66
-YRTP_BACSU 2.01e-33 6_[2(3.45e-18)]_119_[1(1.64e-22)]_55
-CSGA_MYXXA 5.53e-13 51_[2(4.24e-07)]_7_[1(2.10e-12)]_50
-DHB2_HUMAN 6.87e-27 82_[2(3.65e-16)]_120_[1(2.23e-18)]_127
-DHB3_HUMAN 4.11e-25 48_[2(9.86e-18)]_120_[1(8.55e-15)]_84
-DHCA_HUMAN 6.86e-18 4_[2(5.24e-15)]_159_[1(4.80e-10)]_55
-FABI_ECOLI 2.57e-14 6_[2(3.15e-09)]_123_[1(4.15e-12)]_75
-FVT1_HUMAN 4.64e-26 32_[2(2.77e-16)]_124_[1(2.86e-17)]_118
-HMTR_LEIMA 2.93e-28 6_[2(1.90e-16)]_157_[1(3.35e-19)]_66
-MAS1_AGRRA 1.26e-14 245_[2(3.00e-14)]_74_[1(5.72e-08)]_99
-PCR_PEA 4.22e-18 25_[1(2.77e-08)]_32_[2(2.47e-17)]_284
-RFBB_NEIGO 1.14e-19 6_[2(1.59e-12)]_129_[1(1.47e-14)]_153
-YURA_MYXXA 3.34e-19 116_[2(2.77e-07)]_14_[1(4.82e-19)]_70
---------------------------------------------------------------------------------
-
-********************************************************************************
-
-
-********************************************************************************
-Stopped because nmotifs = 2 reached.
-********************************************************************************
-
-CPU: pmgm2
-
-********************************************************************************
diff --git a/Tests/MEME/meme.protein.tcm.txt b/Tests/MEME/meme.protein.tcm.txt
deleted file mode 100644
index 0356bc1..0000000
--- a/Tests/MEME/meme.protein.tcm.txt
+++ /dev/null
@@ -1,466 +0,0 @@
-********************************************************************************
-MEME - Motif discovery tool
-********************************************************************************
-MEME version 3.0 (Release date: 2004/08/18 09:07:01)
-
-For further information on how to interpret these results or to get
-a copy of the MEME software please access http://meme.sdsc.edu.
-
-This file may be used as input to the MAST algorithm for searching
-sequence databases for matches to groups of motifs. MAST is available
-for interactive use and downloading at http://meme.sdsc.edu.
-********************************************************************************
-
-
-********************************************************************************
-REFERENCE
-********************************************************************************
-If you use this program in your research, please cite:
-
-Timothy L. Bailey and Charles Elkan,
-"Fitting a mixture model by expectation maximization to discover
-motifs in biopolymers", Proceedings of the Second International
-Conference on Intelligent Systems for Molecular Biology, pp. 28-36,
-AAAI Press, Menlo Park, California, 1994.
-********************************************************************************
-
-
-********************************************************************************
-TRAINING SET
-********************************************************************************
-DATAFILE= farntrans5.s
-ALPHABET= ACDEFGHIKLMNPQRSTVWY
-Sequence name Weight Length Sequence name Weight Length
-------------- ------ ------ ------------- ------ ------
-RAM1_YEAST 1.0000 431 PFTB_RAT 1.0000 437
-BET2_YEAST 1.0000 325 RATRABGERB 1.0000 331
-CAL1_YEAST 1.0000 376
-********************************************************************************
-
-********************************************************************************
-COMMAND LINE SUMMARY
-********************************************************************************
-This information can also be useful in the event you wish to report a
-problem with the MEME software.
-
-command: meme farntrans5.s -mod tcm -protein -nmotifs 2
-
-model: mod= tcm nmotifs= 2 evt= inf
-object function= E-value of product of p-values
-width: minw= 8 maxw= 50 minic= 0.00
-width: wg= 11 ws= 1 endgaps= yes
-nsites: minsites= 2 maxsites= 25 wnsites= 0.8
-theta: prob= 1 spmap= pam spfuzz= 120
-em: prior= megap b= 9500 maxiter= 50
- distance= 1e-05
-data: n= 1900 N= 5
-
-sample: seed= 0 seqfrac= 1
-Dirichlet mixture priors file: prior30.plib
-Letter frequencies in dataset:
-A 0.061 C 0.037 D 0.062 E 0.061 F 0.044 G 0.075 H 0.030 I 0.053 K 0.051
-L 0.114 M 0.021 N 0.034 P 0.041 Q 0.038 R 0.041 S 0.078 T 0.046 V 0.057
-W 0.018 Y 0.041
-Background letter frequencies (from dataset with add-one prior applied):
-A 0.061 C 0.037 D 0.061 E 0.060 F 0.044 G 0.075 H 0.030 I 0.053 K 0.051
-L 0.113 M 0.021 N 0.034 P 0.041 Q 0.039 R 0.041 S 0.078 T 0.046 V 0.057
-W 0.018 Y 0.041
-********************************************************************************
-
-
-********************************************************************************
-MOTIF 1 width = 30 sites = 24 llr = 854 E-value = 2.2e-094
-********************************************************************************
---------------------------------------------------------------------------------
- Motif 1 Description
---------------------------------------------------------------------------------
-Simplified A :::2::::1:2:11:1:1413314:1:1::
-pos.-specific C ::::1::::::::2::132::::1::::::
-probability D ::::21::11:6::::::::::::::2:13
-matrix E ::::::1114::::::::::::::::1111
- F :16:::::::::111:31::::::::::1:
- G 861241:42:::221:::2:22::::3::1
- H ::::::::11:4::2::::::::::::::1
- I ::1:::1::::::::1:::1:1::42:11:
- K :::::1::3::::::::::::::::::2::
- L ::21:::::2::31::1::5::9:55::4:
- M ::::::::::::::::::::::::::::::
- N :1:1:::21:::::::::::1:::::1:::
- P ::::::5:::2:::::::::::::::::::
- Q :::1::::1:::::1:::::1:::::::::
- R :::::3:::::::2:::::::::::::1::
- S :1:2::::::2:::13:1::32:3::12::
- T ::::::::::::2::5:1:1:1:1:1:::1
- V :::::::1::3:2:::::12::::1:::::
- W ::::::::::::::::13::::::::::::
- Y :::::::::::::14:31:::::::1::::
-
- bits 5.8
- 5.2
- 4.6
- 4.0
-Information 3.5 *
-content 2.9 * * *
-(51.4 bits) 2.3 *** * * ** * *
- 1.7 *** ** *** ***** * ****
- 1.2 ******************************
- 0.6 ******************************
- 0.0 ------------------------------
-
-Multilevel GGFGGRPGKEVDLCYTFCALAALALLGSLD
-consensus LAH HSYWCVSS SI
-sequence P G
-
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 sites sorted by position p-value
---------------------------------------------------------------------------------
-Sequence name Start P-value Site
-------------- ----- --------- ------------------------------
-BET2_YEAST 223 7.28e-22 WWLCERQLPE GGLNGRPSKLPDVCYSWWVLSSLAIIGRLD WINYEKLTEF
-RATRABGERB 227 6.18e-21 WWLCERQLPS GGLNGRPEKLPDVCYSWWVLASLKIIGRLH WIDREKLRSF
-CAL1_YEAST 275 9.17e-20 LNASYDQSDD GGFQGRENKFADTCYAFWCLNSLHLLTKDW KMLCQTELVT
-PFTB_RAT 237 1.15e-19 EWIARCQNWE GGIGGVPGMEAHGGYTFCGLAALVILKKER SLNLKSLLQW
-PFTB_RAT 138 4.30e-19 QFLELCQSPD GGFGGGPGQYPHLAPTYAAVNALCIIGTEE AYNVINREKL
-RATRABGERB 179 7.36e-19 EFVLSCMNFD GGFGCRPGSESHAGQIYCCTGFLAITSQLH QVNSDLLGWW
-RATRABGERB 131 8.19e-19 AYVQSLQKED GSFAGDIWGEIDTRFSFCAVATLALLGKLD AINVEKAIEF
-BET2_YEAST 172 2.10e-18 DFVLKCYNFD GGFGLCPNAESHAAQAFTCLGALAIANKLD MLSDDQLEEI
-RATRABGERB 276 1.43e-17 FILACQDEET GGFADRPGDMVDPFHTLFGIAGLSLLGEEQ IKPVSPVFCM
-BET2_YEAST 124 3.41e-17 SFIRGNQLED GSFQGDRFGEVDTRFVYTALSALSILGELT SEVVDPAVDF
-RAM1_YEAST 247 5.00e-17 YLKNCQNYEG GFGSCPHVDEAHGGYTFCATASLAILRSMD QINVEKLLEW
-BET2_YEAST 272 6.64e-17 FILKCQDEKK GGISDRPENEVDVFHTVFGVAGLSLMGYDN LVPIDPIYCM
-RAM1_YEAST 145 1.27e-16 VKLFTISPSG GPFGGGPGQLSHLASTYAAINALSLCDNID GCWDRIDRKG
-PFTB_RAT 286 3.17e-16 WVTSRQMRFE GGFQGRCNKLVDGCYSFWQAGLLPLLHRAL HAQGDPALSM
-RAM1_YEAST 296 3.47e-16 WSSARQLQEE RGFCGRSNKLVDGCYSFWVGGSAAILEAFG YGQCFNKHAL
-PFTB_RAT 348 4.30e-15 YILMCCQCPA GGLLDKPGKSRDFYHTCYCLSGLSIAQHFG SGAMLHDVVM
-RATRABGERB 83 2.40e-14 VFIKSCQHEC GGVSASIGHDPHLLYTLSAVQILTLYDSIH VINVDKVVAY
-PFTB_RAT 189 2.81e-14 QYLYSLKQPD GSFLMHVGGEVDVRSAYCAASVASLTNIIT PDLFEGTAEW
-BET2_YEAST 73 7.78e-14 FVLSCWDDKY GAFAPFPRHDAHLLTTLSAVQILATYDALD VLGKDRKVRL
-CAL1_YEAST 205 1.14e-13 LLGYIMSQQC YNGAFGAHNEPHSGYTSCALSTLALLSSLE KLSDKFKEDT
-RAM1_YEAST 198 1.33e-13 WLISLKEPNG GFKTCLEVGEVDTRGIYCALSIATLLNILT EELTEGVLNY
-RAM1_YEAST 349 3.52e-13 ILYCCQEKEQ PGLRDKPGAHSDFYHTNYCLLGLAVAESSY SCTPNDSPHN
-CAL1_YEAST 327 5.47e-13 LLDRTQKTLT GGFSKNDEEDADLYHSCLGSAALALIEGKF NGELCIPQEI
-BET2_YEAST 24 3.11e-10 RYIESLDTNK HNFEYWLTEHLRLNGIYWGLTALCVLDSPE TFVKEEVISF
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 block diagrams
---------------------------------------------------------------------------------
-SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-BET2_YEAST 3.1e-10 23_[1]_19_[1]_21_[1]_18_[1]_21_
- [1]_19_[1]_24
-RATRABGERB 2.4e-14 82_[1]_18_[1]_18_[1]_18_[1]_19_[1]_26
-CAL1_YEAST 1.1e-13 204_[1]_40_[1]_22_[1]_20
-PFTB_RAT 4.3e-15 137_[1]_21_[1]_18_[1]_19_[1]_32_
- [1]_60
-RAM1_YEAST 1.3e-13 144_[1]_23_[1]_19_[1]_19_[1]_23_
- [1]_53
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 in BLOCKS format
---------------------------------------------------------------------------------
-BL MOTIF 1 width=30 seqs=24
-BET2_YEAST ( 223) GGLNGRPSKLPDVCYSWWVLSSLAIIGRLD 1
-RATRABGERB ( 227) GGLNGRPEKLPDVCYSWWVLASLKIIGRLH 1
-CAL1_YEAST ( 275) GGFQGRENKFADTCYAFWCLNSLHLLTKDW 1
-PFTB_RAT ( 237) GGIGGVPGMEAHGGYTFCGLAALVILKKER 1
-PFTB_RAT ( 138) GGFGGGPGQYPHLAPTYAAVNALCIIGTEE 1
-RATRABGERB ( 179) GGFGCRPGSESHAGQIYCCTGFLAITSQLH 1
-RATRABGERB ( 131) GSFAGDIWGEIDTRFSFCAVATLALLGKLD 1
-BET2_YEAST ( 172) GGFGLCPNAESHAAQAFTCLGALAIANKLD 1
-RATRABGERB ( 276) GGFADRPGDMVDPFHTLFGIAGLSLLGEEQ 1
-BET2_YEAST ( 124) GSFQGDRFGEVDTRFVYTALSALSILGELT 1
-RAM1_YEAST ( 247) GFGSCPHVDEAHGGYTFCATASLAILRSMD 1
-BET2_YEAST ( 272) GGISDRPENEVDVFHTVFGVAGLSLMGYDN 1
-RAM1_YEAST ( 145) GPFGGGPGQLSHLASTYAAINALSLCDNID 1
-PFTB_RAT ( 286) GGFQGRCNKLVDGCYSFWQAGLLPLLHRAL 1
-RAM1_YEAST ( 296) RGFCGRSNKLVDGCYSFWVGGSAAILEAFG 1
-PFTB_RAT ( 348) GGLLDKPGKSRDFYHTCYCLSGLSIAQHFG 1
-RATRABGERB ( 83) GGVSASIGHDPHLLYTLSAVQILTLYDSIH 1
-PFTB_RAT ( 189) GSFLMHVGGEVDVRSAYCAASVASLTNIIT 1
-BET2_YEAST ( 73) GAFAPFPRHDAHLLTTLSAVQILATYDALD 1
-CAL1_YEAST ( 205) YNGAFGAHNEPHSGYTSCALSTLALLSSLE 1
-RAM1_YEAST ( 198) GFKTCLEVGEVDTRGIYCALSIATLLNILT 1
-RAM1_YEAST ( 349) PGLRDKPGAHSDFYHTNYCLLGLAVAESSY 1
-CAL1_YEAST ( 327) GGFSKNDEEDADLYHSCLGSAALALIEGKF 1
-BET2_YEAST ( 24) HNFEYWLTEHLRLNGIYWGLTALCVLDSPE 1
-//
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 position-specific scoring matrix
---------------------------------------------------------------------------------
-log-odds matrix: alength= 20 w= 30 n= 1755 bayes= 6.12445 E= 2.2e-094
- -218 -476 -324 -369 -492 351 -61 -474 -334 -558 -392 -225 -103 -392 -86 -303 -361 -418 -449 -109
- -81 -470 -327 -377 -1 330 -398 -485 -347 -566 -404 54 -81 -396 -330 -9 -350 -421 -467 -482
- -244 -349 -513 -434 367 -26 -384 59 -61 38 -123 -357 -404 -371 -364 -348 -238 -14 -322 -240
- 127 -17 -201 -5 -348 114 -187 -312 -81 -63 -205 120 -263 155 27 92 7 -262 -388 -304
- -26 143 115 -207 -17 219 -252 -171 -9 -112 95 -186 -16 -179 -195 -235 -164 -152 -351 -13
- -146 -17 33 -115 -32 45 38 -310 85 -143 -204 47 -13 -95 271 -53 -143 -50 83 -303
- -47 -38 -90 6 -396 -374 0 15 -233 -169 -288 -259 375 -235 -26 -97 -231 -75 -473 -424
- -148 -438 -204 99 -31 196 38 -302 -85 -335 -202 205 -266 -99 26 -54 6 33 83 -304
- 47 -444 33 57 -349 84 122 -315 209 -342 79 121 -263 109 -118 -53 -144 -265 -389 -305
- -160 -416 82 250 -25 -316 123 -254 -111 61 85 -136 -283 -122 -146 -60 -156 -221 -375 -14
- 161 -320 -465 -373 -228 -392 -333 13 -325 -90 -101 -301 208 -309 -7 90 -181 221 -331 -288
- -438 -650 318 -350 -594 -396 355 -672 -341 -686 -596 -158 -495 -373 4 -357 -386 -623 -637 -514
- 47 -316 -480 -387 82 91 -337 -111 -338 103 -98 -307 -15 -318 -312 -83 170 152 -328 -285
- 94 221 -398 -311 80 90 -301 -129 -266 -30 -111 21 -354 -263 179 -282 -178 -115 -329 139
- -167 -305 -309 -259 149 -77 196 -221 -241 -249 -153 -216 -75 19 -217 -54 -68 -205 -133 341
- 71 -383 -460 -463 -428 -445 -427 86 -370 -442 -260 -234 -417 -351 -356 143 348 -55 -479 -484
- -170 21 -317 -268 232 -354 -39 -217 -250 -54 -152 -36 -288 -261 -224 -116 -223 -78 132 328
- 46 272 -489 -397 84 -402 -334 -118 -347 -90 -105 -314 -378 -325 -320 -1 82 -106 351 88
- 277 240 -625 -594 -564 141 -583 -514 -585 -580 -446 -452 -451 4 -521 -277 -297 107 -614 -619
- 45 -317 -489 -395 -222 -96 -340 81 -346 184 -95 -313 -373 -323 -316 -85 81 179 -327 -285
- 211 -440 -247 -196 -412 97 -258 -374 -166 -146 -278 178 -325 106 -202 153 0 -314 -457 -377
- 213 -308 -476 -384 -5 88 -337 123 -337 -91 -99 -307 -372 -318 -311 118 79 12 -328 -287
- 87 -518 -675 -601 -320 -554 -562 -243 -564 290 -164 -543 -528 -491 -503 -489 -418 -296 -502 -500
- 317 38 -358 -284 -334 -229 -37 -276 -81 -332 -204 -260 -82 -270 -263 99 23 -47 -389 -383
- -408 -489 -735 -670 -387 -688 -678 294 -638 194 -240 -597 -632 -619 -631 -623 -16 84 -602 -556
- 91 0 -492 -398 -220 -404 -343 158 -348 187 109 -317 -375 -324 -318 -313 78 -100 -329 80
- -159 -454 121 100 -362 163 39 -329 20 -356 -221 172 -274 38 24 13 5 -279 -402 -316
- 47 -443 -200 57 -348 -88 38 37 160 -341 -205 47 -262 41 145 120 7 -264 -388 -19
- -28 -364 22 86 69 -344 -250 108 -9 153 95 -185 -17 -174 -192 -72 -165 -153 -352 -294
- -146 -443 171 100 -32 -6 175 -314 -80 -144 -205 47 -262 41 27 -178 126 -263 82 -19
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 1 position-specific probability matrix
---------------------------------------------------------------------------------
-letter-probability matrix: alength= 20 w= 30 nsites= 24 E= 2.2e-094
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.833333 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000 0.041667
- 0.041667 0.000000 0.000000 0.000000 0.083333 0.625000 0.000000 0.000000 0.000000 0.000000 0.000000 0.083333 0.041667 0.000000 0.000000 0.125000 0.000000 0.000000 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.583333 0.083333 0.000000 0.083333 0.041667 0.166667 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.000000
- 0.166667 0.041667 0.000000 0.041667 0.000000 0.208333 0.000000 0.000000 0.000000 0.083333 0.000000 0.083333 0.000000 0.125000 0.041667 0.166667 0.041667 0.000000 0.000000 0.000000
- 0.041667 0.125000 0.166667 0.000000 0.041667 0.416667 0.000000 0.000000 0.041667 0.041667 0.041667 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667
- 0.000000 0.041667 0.083333 0.000000 0.041667 0.125000 0.041667 0.000000 0.083333 0.041667 0.000000 0.041667 0.041667 0.000000 0.333333 0.041667 0.000000 0.041667 0.041667 0.000000
- 0.041667 0.041667 0.041667 0.083333 0.000000 0.000000 0.041667 0.083333 0.000000 0.041667 0.000000 0.000000 0.500000 0.000000 0.041667 0.041667 0.000000 0.041667 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.125000 0.041667 0.375000 0.041667 0.000000 0.000000 0.000000 0.000000 0.166667 0.000000 0.000000 0.041667 0.041667 0.041667 0.083333 0.041667 0.000000
- 0.083333 0.000000 0.083333 0.083333 0.000000 0.166667 0.083333 0.000000 0.250000 0.000000 0.041667 0.083333 0.000000 0.083333 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000
- 0.000000 0.000000 0.125000 0.416667 0.041667 0.000000 0.083333 0.000000 0.000000 0.208333 0.041667 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.000000 0.000000 0.041667
- 0.208333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.041667 0.000000 0.000000 0.208333 0.000000 0.041667 0.166667 0.000000 0.291667 0.000000 0.000000
- 0.000000 0.000000 0.583333 0.000000 0.000000 0.000000 0.375000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000
- 0.083333 0.000000 0.000000 0.000000 0.083333 0.166667 0.000000 0.000000 0.000000 0.250000 0.000000 0.000000 0.041667 0.000000 0.000000 0.041667 0.166667 0.166667 0.000000 0.000000
- 0.125000 0.208333 0.000000 0.000000 0.083333 0.166667 0.000000 0.000000 0.000000 0.083333 0.000000 0.041667 0.000000 0.000000 0.166667 0.000000 0.000000 0.000000 0.000000 0.125000
- 0.000000 0.000000 0.000000 0.000000 0.083333 0.083333 0.208333 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.083333 0.000000 0.083333 0.041667 0.000000 0.000000 0.375000
- 0.125000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.125000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.250000 0.458333 0.041667 0.000000 0.000000
- 0.000000 0.083333 0.000000 0.000000 0.291667 0.000000 0.000000 0.000000 0.000000 0.125000 0.000000 0.041667 0.000000 0.000000 0.000000 0.041667 0.000000 0.041667 0.083333 0.291667
- 0.083333 0.291667 0.000000 0.000000 0.083333 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000 0.083333 0.083333 0.000000 0.250000 0.083333
- 0.416667 0.208333 0.000000 0.000000 0.000000 0.208333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.000000 0.000000 0.125000 0.000000 0.000000
- 0.083333 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.083333 0.000000 0.458333 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.083333 0.208333 0.000000 0.000000
- 0.291667 0.000000 0.000000 0.000000 0.000000 0.166667 0.000000 0.000000 0.000000 0.041667 0.000000 0.125000 0.000000 0.083333 0.000000 0.250000 0.041667 0.000000 0.000000 0.000000
- 0.291667 0.000000 0.000000 0.000000 0.041667 0.166667 0.000000 0.125000 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000 0.208333 0.083333 0.041667 0.000000 0.000000
- 0.125000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.875000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
- 0.416667 0.083333 0.000000 0.000000 0.000000 0.000000 0.041667 0.000000 0.041667 0.000000 0.000000 0.000000 0.041667 0.000000 0.000000 0.250000 0.083333 0.041667 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.416667 0.000000 0.458333 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.041667 0.083333 0.000000 0.000000
- 0.125000 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000 0.166667 0.000000 0.458333 0.041667 0.000000 0.000000 0.000000 0.000000 0.000000 0.083333 0.000000 0.000000 0.083333
- 0.000000 0.000000 0.166667 0.125000 0.000000 0.291667 0.041667 0.000000 0.041667 0.000000 0.000000 0.125000 0.000000 0.041667 0.041667 0.083333 0.041667 0.000000 0.000000 0.000000
- 0.083333 0.000000 0.000000 0.083333 0.000000 0.041667 0.041667 0.083333 0.166667 0.000000 0.000000 0.041667 0.000000 0.041667 0.125000 0.208333 0.041667 0.000000 0.000000 0.041667
- 0.041667 0.000000 0.083333 0.125000 0.083333 0.000000 0.000000 0.125000 0.041667 0.375000 0.041667 0.000000 0.041667 0.000000 0.000000 0.041667 0.000000 0.000000 0.000000 0.000000
- 0.000000 0.000000 0.250000 0.125000 0.041667 0.083333 0.125000 0.000000 0.000000 0.041667 0.000000 0.041667 0.000000 0.041667 0.041667 0.000000 0.125000 0.000000 0.041667 0.041667
---------------------------------------------------------------------------------
-
-
-
-
-
-Time 32.68 secs.
-
-********************************************************************************
-
-
-********************************************************************************
-MOTIF 2 width = 14 sites = 21 llr = 376 E-value = 3.1e-019
-********************************************************************************
---------------------------------------------------------------------------------
- Motif 2 Description
---------------------------------------------------------------------------------
-Simplified A ::::111::::1::
-pos.-specific C ::::::::::::61
-probability D 12:11::1::::::
-matrix E 1::61::2::::::
- F 1:::::::5:::::
- G ::::1:::::::::
- H ::::::::::::::
- I 5::::12::4::::
- K ::313:::::11:1
- L 11:::53::24:1:
- M ::::::::::::::
- N :4::::::::::::
- P ::::::::::::::
- Q ::1::::2:::::6
- R ::1:::1::::11:
- S ::::1::1:114::
- T ::1::1::::::::
- V :12::21::3::::
- W ::::::::2:::::
- Y ::::::::3:::::
-
- bits 5.8
- 5.2
- 4.6
- 4.0
-Information 3.5 *
-content 2.9 * **
-(25.8 bits) 2.3 * ** **
- 1.7 **** * ** **
- 1.2 **************
- 0.6 **************
- 0.0 --------------
-
-Multilevel INKEKLLEFILSCQ
-consensus YV
-sequence WL
-
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 sites sorted by position p-value
---------------------------------------------------------------------------------
-Sequence name Start P-value Site
-------------- ----- --------- --------------
-BET2_YEAST 254 2.24e-13 SLAIIGRLDW INYEKLTEFILKCQ DEKKGGISDR
-RATRABGERB 258 1.30e-12 SLKIIGRLHW IDREKLRSFILACQ DEETGGFADR
-RATRABGERB 162 4.20e-12 TLALLGKLDA INVEKAIEFVLSCM NFDGGFGCRP
-RATRABGERB 66 9.60e-12 VMDLMGQLHR MNKEEILVFIKSCQ HECGGVSASI
-RAM1_YEAST 278 5.08e-11 SLAILRSMDQ INVEKLLEWSSARQ LQEERGFCGR
-CAL1_YEAST 190 5.01e-10 CRSKEDFDEY IDTEKLLGYIMSQQ CYNGAFGAHN
-BET2_YEAST 55 6.90e-10 ALCVLDSPET FVKEEVISFVLSCW DDKYGAFAPF
-RATRABGERB 114 1.57e-09 ILTLYDSIHV INVDKVVAYVQSLQ KEDGSFAGDI
-PFTB_RAT 172 2.34e-09 IIGTEEAYNV INREKLLQYLYSLK QPDGSFLMHV
-RAM1_YEAST 330 4.59e-09 ILEAFGYGQC FNKHALRDYILYCC QEKEQPGLRD
-CAL1_YEAST 126 1.65e-08 LRDYEYFETI LDKRSLARFVSKCQ RPDRGSFVSC
-PFTB_RAT 268 1.65e-08 ALVILKKERS LNLKSLLQWVTSRQ MRFEGGFQGR
-PFTB_RAT 220 1.65e-08 VASLTNIITP DLFEGTAEWIARCQ NWEGGIGGVP
-RAM1_YEAST 229 2.54e-08 IATLLNILTE ELTEGVLNYLKNCQ NYEGGFGSCP
-PFTB_RAT 330 4.58e-08 DPALSMSHWM FHQQALQEYILMCC QCPAGGLLDK
-CAL1_YEAST 239 5.86e-08 LLSSLEKLSD KFKEDTITWLLHRQ VSSHGCMKFE
-PFTB_RAT 121 1.52e-07 LELLDEPIPQ IVATDVCQFLELCQ SPDGGFGGGP
-CAL1_YEAST 362 1.91e-07 IEGKFNGELC IPQEIFNDFSKRCC F
-BET2_YEAST 107 4.34e-07 TYDALDVLGK DRKVRLISFIRGNQ LEDGSFQGDR
-BET2_YEAST 155 5.01e-07 ALSILGELTS EVVDPAVDFVLKCY NFDGGFGLCP
-RAM1_YEAST 180 5.78e-07 CDNIDGCWDR IDRKGIYQWLISLK EPNGGFKTCL
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 block diagrams
---------------------------------------------------------------------------------
-SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-BET2_YEAST 4.3e-07 54_[2]_38_[2]_34_[2]_85_[2]_58
-RATRABGERB 1.6e-09 65_[2]_34_[2]_34_[2]_82_[2]_60
-RAM1_YEAST 5.8e-07 179_[2]_35_[2]_35_[2]_38_[2]_88
-CAL1_YEAST 5.9e-08 125_[2]_50_[2]_35_[2]_109_[2]_1
-PFTB_RAT 2.3e-09 120_[2]_37_[2]_34_[2]_34_[2]_48_
- [2]_94
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 in BLOCKS format
---------------------------------------------------------------------------------
-BL MOTIF 2 width=14 seqs=21
-BET2_YEAST ( 254) INYEKLTEFILKCQ 1
-RATRABGERB ( 258) IDREKLRSFILACQ 1
-RATRABGERB ( 162) INVEKAIEFVLSCM 1
-RATRABGERB ( 66) MNKEEILVFIKSCQ 1
-RAM1_YEAST ( 278) INVEKLLEWSSARQ 1
-CAL1_YEAST ( 190) IDTEKLLGYIMSQQ 1
-BET2_YEAST ( 55) FVKEEVISFVLSCW 1
-RATRABGERB ( 114) INVDKVVAYVQSLQ 1
-PFTB_RAT ( 172) INREKLLQYLYSLK 1
-RAM1_YEAST ( 330) FNKHALRDYILYCC 1
-CAL1_YEAST ( 126) LDKRSLARFVSKCQ 1
-PFTB_RAT ( 268) LNLKSLLQWVTSRQ 1
-PFTB_RAT ( 220) DLFEGTAEWIARCQ 1
-RAM1_YEAST ( 229) ELTEGVLNYLKNCQ 1
-PFTB_RAT ( 330) FHQQALQEYILMCC 1
-CAL1_YEAST ( 239) KFKEDTITWLLHRQ 1
-PFTB_RAT ( 121) IVATDVCQFLELCQ 1
-CAL1_YEAST ( 362) IPQEIFNDFSKRCC 1
-BET2_YEAST ( 107) DRKVRLISFIRGNQ 1
-BET2_YEAST ( 155) EVVDPAVDFVLKCY 1
-RAM1_YEAST ( 180) IDRKGIYQWLISLK 1
-//
-
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 position-specific scoring matrix
---------------------------------------------------------------------------------
-log-odds matrix: alength= 20 w= 14 n= 1835 bayes= 7.42721 E= 3.1e-019
- -180 -316 28 36 140 -376 -308 299 -24 -14 117 -265 -348 -268 -271 -280 -167 -65 -321 -275
- -149 -393 133 -139 -11 -301 50 -227 -104 -40 -165 317 0 -117 32 -189 -143 106 -363 -290
- -9 -383 -234 -146 -8 -309 -205 -210 224 -111 -154 -135 -277 119 160 -196 94 147 -356 0
- -174 -491 57 300 -396 -328 51 -351 95 -378 -243 -145 -289 50 33 -217 12 -38 -433 -348
- 61 -430 48 71 -335 60 -173 -37 243 -328 -192 -95 2 -80 41 27 -130 -250 -375 -291
- 55 -332 -507 -413 10 -422 -361 96 -365 194 -94 -334 -390 -340 -334 -331 92 167 -344 -304
- 61 19 -456 -363 -205 -378 -316 176 -315 118 -79 32 -352 14 98 -285 19 91 -309 10
- -6 -431 96 174 -336 -74 -174 -302 -67 -329 -193 61 -249 205 41 72 21 -37 -376 -291
- -585 -591 -675 -658 339 -654 -303 -494 -585 -478 -424 -461 -604 -498 -508 -576 -538 -496 362 282
- -333 -431 -610 -551 -351 -574 -548 290 -506 94 -192 -471 -535 -506 -502 6 -316 227 -516 -458
- -7 -410 -200 4 -314 -290 -182 -28 139 137 97 -106 -256 51 38 25 20 -221 -366 -4
- 61 -428 -188 -102 -334 -74 52 -298 141 -130 93 61 -249 -81 112 195 -129 -248 -374 -5
- -318 386 -431 -324 -470 -438 -297 -372 -61 20 -304 47 -439 41 186 -360 -300 -347 -474 -424
- -264 97 -402 -180 -325 -446 -118 -335 29 -335 49 -229 -343 411 -155 -328 -274 -317 47 -50
---------------------------------------------------------------------------------
-
---------------------------------------------------------------------------------
- Motif 2 position-specific probability matrix
---------------------------------------------------------------------------------
-letter-probability matrix: alength= 20 w= 14 nsites= 21 E= 3.1e-019
- 0.000000 0.000000 0.095238 0.095238 0.142857 0.000000 0.000000 0.476190 0.047619 0.095238 0.047619 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000
- 0.000000 0.000000 0.190476 0.000000 0.047619 0.000000 0.047619 0.000000 0.000000 0.095238 0.000000 0.380952 0.047619 0.000000 0.047619 0.000000 0.000000 0.142857 0.000000 0.000000
- 0.047619 0.000000 0.000000 0.000000 0.047619 0.000000 0.000000 0.000000 0.285714 0.047619 0.000000 0.000000 0.000000 0.095238 0.142857 0.000000 0.095238 0.190476 0.000000 0.047619
- 0.000000 0.000000 0.095238 0.571429 0.000000 0.000000 0.047619 0.000000 0.095238 0.000000 0.000000 0.000000 0.000000 0.047619 0.047619 0.000000 0.047619 0.047619 0.000000 0.000000
- 0.095238 0.000000 0.095238 0.095238 0.000000 0.142857 0.000000 0.047619 0.333333 0.000000 0.000000 0.000000 0.047619 0.000000 0.047619 0.095238 0.000000 0.000000 0.000000 0.000000
- 0.095238 0.000000 0.000000 0.000000 0.047619 0.000000 0.000000 0.095238 0.000000 0.476190 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.095238 0.190476 0.000000 0.000000
- 0.095238 0.047619 0.000000 0.000000 0.000000 0.000000 0.000000 0.190476 0.000000 0.285714 0.000000 0.047619 0.000000 0.047619 0.095238 0.000000 0.047619 0.095238 0.000000 0.047619
- 0.047619 0.000000 0.142857 0.238095 0.000000 0.047619 0.000000 0.000000 0.000000 0.000000 0.000000 0.047619 0.000000 0.190476 0.047619 0.142857 0.047619 0.047619 0.000000 0.000000
- 0.000000 0.000000 0.000000 0.000000 0.476190 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.238095 0.285714
- 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.380952 0.000000 0.238095 0.000000 0.000000 0.000000 0.000000 0.000000 0.095238 0.000000 0.285714 0.000000 0.000000
- 0.047619 0.000000 0.000000 0.047619 0.000000 0.000000 0.000000 0.047619 0.142857 0.380952 0.047619 0.000000 0.000000 0.047619 0.047619 0.095238 0.047619 0.000000 0.000000 0.047619
- 0.095238 0.000000 0.000000 0.000000 0.000000 0.047619 0.047619 0.000000 0.142857 0.047619 0.047619 0.047619 0.000000 0.000000 0.095238 0.380952 0.000000 0.000000 0.000000 0.047619
- 0.000000 0.619048 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.142857 0.000000 0.047619 0.000000 0.047619 0.142857 0.000000 0.000000 0.000000 0.000000 0.000000
- 0.000000 0.142857 0.000000 0.000000 0.000000 0.000000 0.000000 0.000000 0.095238 0.000000 0.047619 0.000000 0.000000 0.619048 0.000000 0.000000 0.000000 0.000000 0.047619 0.047619
---------------------------------------------------------------------------------
-
-
-
-
-
-Time 51.86 secs.
-
-********************************************************************************
-
-
-********************************************************************************
-SUMMARY OF MOTIFS
-********************************************************************************
-
---------------------------------------------------------------------------------
- Combined block diagrams: non-overlapping sites with p-value < 0.0001
---------------------------------------------------------------------------------
-SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM
-------------- ---------------- -------------
-RAM1_YEAST 2.14e-20 144_[1(1.27e-16)]_5_[2(5.78e-07)]_4_[1(1.33e-13)]_1_[2(2.54e-08)]_4_[1(5.00e-17)]_1_[2(5.08e-11)]_4_[1(3.47e-16)]_4_[2(4.59e-09)]_5_[1(3.52e-13)]_35_[2(9.16e-05)]_4
-PFTB_RAT 2.44e-21 120_[2(1.52e-07)]_3_[1(4.30e-19)]_4_[2(2.34e-09)]_3_[1(2.81e-14)]_1_[2(1.65e-08)]_3_[1(1.15e-19)]_1_[2(1.65e-08)]_4_[1(3.17e-16)]_14_[2(4.58e-08)]_4_[1(4.30e-15)]_60
-BET2_YEAST 1.02e-27 6_[2(5.17e-05)]_3_[1(3.11e-10)]_1_[2(6.90e-10)]_4_[1(7.78e-14)]_4_[2(4.34e-07)]_3_[1(3.41e-17)]_1_[2(5.01e-07)]_3_[1(2.10e-18)]_21_[1(7.28e-22)]_1_[2(2.24e-13)]_4_[1(6.64e-17)]_24
-RATRABGERB 4.90e-26 65_[2(9.60e-12)]_3_[1(2.40e-14)]_1_[2(1.57e-09)]_3_[1(8.19e-19)]_1_[2(4.20e-12)]_3_[1(7.36e-19)]_18_[1(6.18e-21)]_1_[2(1.30e-12)]_4_[1(1.43e-17)]_26
-CAL1_YEAST 3.16e-22 125_[2(1.65e-08)]_50_[2(5.01e-10)]_1_[1(1.14e-13)]_4_[2(5.86e-08)]_22_[1(9.17e-20)]_22_[1(5.47e-13)]_5_[2(1.91e-07)]_1
---------------------------------------------------------------------------------
-
-********************************************************************************
-
-
-********************************************************************************
-Stopped because nmotifs = 2 reached.
-********************************************************************************
-
-CPU: pmgm2
-
-********************************************************************************
diff --git a/Tests/Mauve/simple.fa b/Tests/Mauve/simple.fa
new file mode 100644
index 0000000..930ad78
--- /dev/null
+++ b/Tests/Mauve/simple.fa
@@ -0,0 +1,400 @@
+>1
+ATATTAGGTTTTTACCTACCCAGGAAAAGCCAACCAACCTCGATCTCTTGTAGATCTGTTCTCTAAACGA
+ACTTTAAAATCTGTGTAGCTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAATAAA
+TTTTACTGTCGTTGACAAGAAACGAGTAACTCGTCCCTCTTCTGCAGACTGCTTACGGTTTCGTCCGTGT
+TGCAGTCGATCATCAGCATACCTAGGTTTCGTCCGGGTGTGACCGAAAGGTAAGATGGAGAGCCTTGTTC
+TTGGTGTCAACGAGAAAACACACGTCCAACTCAGTTTGCCTGTCCTTCAGGTTAGAGACGTGCTAGTGCG
+TGGCTTCGGGGACTCTGTGGAAGAGGCCCTATCGGAGGCACGTGAACACCTCAAAAATGGCACTTGTGGT
+CTAGTAGAGCTGGAAAAAGGCGTACTGCCCCAGCTTGAACAGCCCTATGTGTTCATTAAACGTTCTGATG
+CCTTAAGCACCAATCACGGCCACAAGGTCGTTGAGCTGGTTGCAGAAATGGACGGCATTCAGTACGGTCG
+TAGCGGTATAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACCCCAATTGCATACCGCAATGTTCTT
+CTTCGTAAGAACGGTAATAAGGGAGCCGGTGGTCATAGCTATGGCATCGATCTAAAGTCTTATGACTTAG
+GTGACGAGCTTGGCACTGATCCCATTGAAGATTATGAACAAAACTGGAACACTAAGCATGGCAGTGGTGC
+ACTCCGTGAACTCACTCGTGAGCTCAATGGAGGTGCAGTCACTCGCTATGTCGACAACAATTTCTGTGGC
+CCAGATGGGTACCCTCTTGATTGCATCAAAGATTTTCTCGCACGCGCGGGCAAGTCAATGTGCACTCTTT
+CCGAACAACTTGATTACATCGAGTCGAAGAGAGGTGTCTACTGCTGCCGTGACCATGAGCATGAAATTGC
+CTGGTTCACTGAGCGCTCTGATAAGAGCTACGAGCACCAGACACCCTTCGAAATTAAGAGTGCCAAGAAA
+TTTGACACTTTCAAAGGGGAATGCCCAAAGTTTGTGTTTCCTCTTAACTCAAAAGTCAAAGTCATTCAAC
+CACGTGTTGAAAAGAAAAAGACTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCTGTTGCATCTCC
+ACAGGAGTGTAACAATATGCACTTGTCTACCTTGATGAAATGTAATCATTGCGATGAAGTTTCATGGCAG
+ACGTGCGACTTTCTGAAAGCCACTTGTGAACATTGTGGCACTGAAAATTTAGTTATTGAAGGACCTACTA
+CATGTGGGTACCTACCTACTAATGCTGTAGTGAAAATGCCATGTCCTGCCTGTCAAGACCCAGAGATTGG
+ACCTGAGCATAGTGTTGCAGATTATCACAACCACTCAAACATTGAAACTCGACTCCGCAAGGGAGGTAGG
+ACTAGATGTTTTGGAGGCTGTGTGTTTGCCTATGTTGGCTGCTATAATAAGCGTGCCTACTGGGTTCCTC
+GTGCTAGTGCTGATATTGGCTCAGGCCATACTGGCATTACTGGTGACAATGTGGAGACCTTGAATGAGGA
+TCTCCTTGAGATACTGAGTCGTGAACGTGTTAACATTAACATTGTTGGCGATTTTCATTTGAATGAAGAG
+GTTGCCATCATTTTGGCATCTTTCTCTGCTTCTACAAGTGCCTTTATTGACACTATAAAGAGTCTTGATT
+ACAAGTCTTTCAAAACCATTGTTGAGTCCTGCGGTAACTATAAAGTTACCAAGGGAAAGCCCGTAAAAGG
+TGCTTGGAACATTGGACAACAGAGATCAGTTTTAACACCACTGTGTGGTTTTCCCTCACAGGCTGCTGGT
+GTTATCAGATCAATTTTTGCGCGCACACTTGATGCAGCAAACCACTCAATTCCTGATTTGCAAAGAGCAG
+CTGTCACCATACTTGATGGTATTTCTGAACAGTCATTACGTCTTGTCGACGCCATGGTTTATACTTCAGA
+CCTGCTCACCAACAGTGTCATTATTATGGCATATGTAACTGGTGGTCTTGTACAACAGACTTCTCAGTGG
+TTGTCTAATCTTTTGGGCACTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGATTGAGGCGAAACTTA
+GTGCAGGAGTTGAATTTCTCAAGGATGCTTGGGAGATTCTCAAATTTCTCATTACAGGTGTTTTTGACAT
+CGTCAAGGGTCAAATACAGGTTGCTTCAGATAACATCAAGGATTGTGTAAAATGCTTCATTGATGTTGTT
+AACAAGGCACTCGAAATGTGCATTGATCAAGTCACTATCGCTGGCGCAAAGTTGCGATCACTCAACTTAG
+GTGAAGTCTTCATCGCTCAAAGCAAGGGACTTTACCGTCAGTGTATACGTGGCAAGGAGCAGCTGCAACT
+ACTCATGCCTCTTAAGGCACCAAAAGAAGTAACCTTTCTTGAAGGTGATTCACATGACACAGTACTTACC
+TCTGAGGAGGTTGTTCTCAAGAACGGTGAACTCGAAGCACTCGAGACGCCCGTTGATAGCTTCACAAATG
+GAGCTATCGTTGGCACACCAGTCTGTGTAAATGGCCTCATGCTCTTAGAGATTAAGGACAAAGAACAATA
+CTGCGCATTGTCTCCTGGTTTACTGGCTACAAACAATGTCTTTCGCTTAAAAGGGGGTGCACCAATTAAA
+GGTGTAACCTTTGGAGAAGATACTGTTTGGGAAGTTCAAGGTTACAAGAATGTGAGAATCACATTTGAGC
+TTGATGAACGTGTTGACAAAGTGCTTAATGAAAAGTGCTCTGTCTACACTGTTGAATCCGGTACCGAAGT
+TACTGAGTTTGCATGTGTTGTAGCAGAGGCTGTTGTGAAGACTTTACAACCAGTTTCTGATCTCCTTACC
+AACATGGGTATTGATCTTGATGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTGAAGAAA
+ACTTTTCATCACGTATGTATTGTTCCTTTTACCCTCCAGATGAGGAAGAAGAGGACGATGCAGAGTGTGA
+GGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGTACAGAGGATGATTATCAAGGTCTCCCTCTG
+GAATTTGGTGCCTCAGCTGAAACAGTTCGAGTTGAGGAAGAAGAAGAGGAAGACTGGCTGGATGATACTA
+CTGAGCAATCAGAGATTGAGCCAGAACCAGAACCTACACCTGAAGAACCAGTTAATCAGTTTACTGGTTA
+TTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAGGCACAAAGTGCTAATCCT
+ATGGTGATTGTAAATGCTGCTAACATACACCTGAAACATGGTGGTGGTGTAGCAGGTGCACTCAACAAGG
+CAACCAATGGTGCCATGCAAAAGGAGAGTGATGATTACATTAAGCTAAATGGCCCTCTTACAGTAGGAGG
+GTCTTGTTTGCTTTCTGGACATAATCTTGCTAAGAAGTGTCTGCATGTTGTTGGACCTAACCTAAATGCA
+GGTGAGGACATCCAGCTTCTTAAGGCAGCATATGAAAATTTCAATTCACAGGACATCTTACTTGCACCAT
+TGTTGTCAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTACAAGTGTGCGTGCAGACGGTTCGTAC
+ACAGGTTTATATTGCAGTCAATGACAAAGCTCTTTATGAGCAGGTTGTCATGGATTATCTTGATAACCTG
+AAGCCTAGAGTGGAAGCACCTAAACAAGAGGAGCCACCAAACACAGAAGATTCCAAAACTGAGGAGAAAT
+CTGTCGTACAGAAGCCTGTCGATGTGAAGCCAAAAATTAAGGCCTGCATTGATGAGGTTACCACAACACT
+GGAAGAAACTAAGTTTCTTACCAATAAGTTACTCTTGTTTGCTGATATCAATGGTAAGCTTTACCATGAT
+TCTCAGAACATGCTTAGAGGTGAAGATATGTCTTTCCTTGAGAAGGATGCACCTTACATGGTAGGTGATG
+TTATCACTAGTGGTGATATCACTTGTGTTGTAATACCCTCCAAAAAGGCTGGTGGCACTACTGAGATGCT
+CTCAAGAGCTTTGAAGAAAGTGCCAGTTGATGAGTATATAACCACGTACCCTGGACAAGGATGTGCTGGT
+TATACACTTGAGGAAGCTAAGACTGCTCTTAAGAAATGCAAATCTGCATTTTATGTACTACCTTCAGAAG
+CACCTAATGCTAAGGAAGAGATTCTAGGAACTGTATCCTGGAATTTGAGAGAAATGCTTGCTCATGCTGA
+AGAGACAAGAAAATTAATGCCTATATGCATGGATGTTAGAGCCATAATGGCAACCATCCAACGTAAGTAT
+AAAGGAATTAAAATTCAAGAGGGCATCGTTGACTATGGTGTCCGATTCTTCTTTTATACTAGTAAAGAGC
+CTGTAGCTTCTATTATTACGAAGCTGAACTCTCTAAATGAGCCGCTTGTCACAATGCCAATTGGTTATGT
+GACACATGGTTTTAATCTTGAAGAGGCTGCGCGCTGTATGCGTTCTCTTAAAGCTCCTGCCGTAGTGTCA
+GTATCATCACCAGATGCTGTTACTACATATAATGGATACCTCACTTCGTCATCAAAGACATCTGAGGAGC
+ACTTTGTAGAAACAGTTTCTTTGGCTGGCTCTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAGTT
+AGGTGTTGAATTTCTTAAGCGTGGTGACAAAATTGTGTACCACACTCTGGAGAGCCCCGTCGAGTTTCAT
+CTTGACGGTGAGGTTCTTTCACTTGACAAACTAAAGAGTCTCTTATCCCTGCGGGAGGTTAAGACTATAA
+AAGTGTTCACAACTGTGGACAACACTAATCTCCACACACAGCTTGTGGATATGTCTATGACATATGGACA
+GCAGTTTGGTCCAACATACTTGGATGGTGCTGATGTTACAAAAATTAAACCTCATGTAAATCATGAGGGT
+AAGACTTTCTTTGTACTACCTAGTGATGACACACTACGTAGTGAAGCTTTCGAGTACTACCATACTCTTG
+ATGAGAGTTTTCTTGGTAGGTACATGTCTGCTTTAAACCACACAAAGAAATGGAAATTTCCTCAAGTTGG
+TGGTTTAACTTCAATTAAATGGGCTGATAACAATTGTTATTTGTCTAGTGTTTTATTAGCACTTCAACAG
+CTTGAAGTCAAATTCAATGCACCAGCACTTCAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCTA
+ACTTTTGTGCACTCATACTCGCTTACAGTAATAAAACTGTTGGCGAGCTTGGTGATGTCAGAGAAACTAT
+GACCCATCTTCTACAGCATGCTAATTTGGAATCTGCAAAGCGAGTTCTTAATGTGGTGTGTAAACATTGT
+GGTCAGAAAACTACTACCTTAACGGGTGTAGAAGCTGTGATGTATATGGGTACTCTATCTTATGATAATC
+TTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTACACAATATCTAGTACAACAAGAGTC
+TTCTTTTGTTATGATGTCTGCACCACCTGCTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCGAAT
+GAGTACACTGGTAACTATCAGTGTGGTCATTACACTCATATAACTGCTAAGGAGACCCTCTATCGTATTG
+ACGGAGCTCACCTTACAAAGATGTCAGAGTACAAAGGACCAGTGACTGATGTTTTCTACAAGGAAACATC
+TTACACTACAACCATCAAGCCTGTGTCGTATAAACTCGATGGAGTTACTTACACAGAGATTGAACCAAAA
+TTGGATGGGTATTATAAAAAGGATAATGCTTACTATACAGAGCAGCCTATAGACCTTGTACCAACTCAAC
+CATTACCAAATGCGAGTTTTGATAATTTCAAACTCACATGTTCTAACACAAAATTTGCTGATGATTTAAA
+TCAAATGACAGGCTTCACAAAGCCAGCTTCACGAGAGCTATCTGTCACATTCTTCCCAGACTTGAATGGC
+GATGTAGTGGCTATTGACTATAGACACTATTCAGCGAGTTTCAAGAAAGGTGCTAAATTACTGCATAAGC
+CAATTGTTTGGCACATTAACCAGGCTACAACCAAGACAACGTTCAAACCAAACACTTGGTGTTTACGTTG
+TCTTTGGAGTACAAAGCCAGTAGATACTTCAAATTCATTTGAAGTTCTGGCAGTAGAAGACACACAAGGA
+ATGGACAATCTTGCTTGTGAAAGTCAACAACCCACCTCTGAAGAAGTAGTGGAAAATCCTACCATACAGA
+AGGAAGTCATAGAGTGTGACGTGAAAACTACCGAAGTTGTAGGCAATGTCATACTTAAACCATCAGATGA
+AGGTGTTAAAGTAACACAAGAGTTAGGTCATGAGGATCTTATGGCTGCTTATGTGGAAAACACAAGCATT
+ACCATTAAGAAACCTAATGAGCTTTCACTAGCCTTAGGTTTAAAAACAATTGCCACTCATGGTATTGCTG
+CAATTAATAGTGTTCCTTGGAGTAAAATTTTGGCTTATGTCAAACCATTCTTAGGACAAGCAGCAATTAC
+AACATCAAATTGCGCTAAGAGATTAGCACAACGTGTGTTTAACAATTATATGCCTTATGTGTTTACATTA
+TTGTTCCAATTGTGTACTTTTACTAAAAGTACCAATTCTAGAATTAGAGCTTCACTACCTACAACTATTG
+CTAAAAATAGTGTTAAGAGTGTTGCTAAATTATGTTTGGATGCCGGCATTAATTATGTGAAGTCACCCAA
+ATTTTCTAAATTGTTCACAATCGCTATGTGGCTATTGTTGTTAAGTATTTGCTTAGGTTCTCTAATCTGT
+GTAACTGCTGCTTTTGGTGTACTCTTATCTAATTTTGGTGCTCCTTCTTATTGTAATGGCGTTAGAGAAT
+TGTATCTTAATTCGTCTAACGTTACTACTATGGATTTCTGTGAAGGTTCTTTTCCTTGCAGCATTTGTTT
+AAGTGGATTAGACTCCCTTGATTCTTATCCAGCTCTTGAAACCATTCAGGTGACGATTTCATCGTACAAG
+CTAGACTTGACAATTTTAGGTCTGGCCGCTGAGTGGGTTTTGGCATATATGTTGTTCACAAAATTCTTTT
+ATTTATTAGGTCTTTCAGCTATAATGCAGGTGTTCTTTGGCTATTTTGCTAGTCATTTCATCAGCAATTC
+TTGGCTCATGTGGTTTATCATTAGTATTGTACAAATGGCACCCGTTTCTGCAATGGTTAGGATGTACATC
+TTCTTTGCTTCTTTCTACTACATATGGAAGAGCTATGTTCATATCATGGATGGTTGCACCTCTTCGACTT
+GCATGATGTGCTATAAGCGCAATCGTGCCACACGCGTTGAGTGTACAACTATTGTTAATGGCATGAAGAG
+ATCTTTCTATGTCTATGCAAATGGAGGCCGTGGCTTCTGCAAGACTCACAATTGGAATTGTCTCAATTGT
+GACACATTTTGCACTGGTAGTACATTCATTAGTGATGAAGTTGCTCGTGATTTGTCACTCCAGTTTAAAA
+GACCAATCAACCCTACTGACCAGTCATCGTATATTGTTGATAGTGTTGCTGTGAAAAATGGCGCGCTTCA
+CCTCTACTTTGACAAGGCTGGTCAAAAGACCTATGAGAGACATCCGCTCTCCCATTTTGTCAATTTAGAC
+AATTTGAGAGCTAACAACACTAAAGGTTCACTGCCTATTAATGTCATAGTTTTTGATGGCAAGTCCAAAT
+GCGACGAGTCTGCTTCTAAGTCTGCTTCTGTGTACTACAGTCAGCTGATGTGCCAACCTATTCTGTTGCT
+TGACCAAGCTCTTGTATCAGACGTTGGAGATAGTACTGAAGTTTCCGTTAAGATGTTTGATGCTTATGTC
+GACACCTTTTCAGCAACTTTTAGTGTTCCTATGGAAAAACTTAAGGCACTTGTTGCTACAGCTCACAGCG
+AGTTAGCAAAGGGTGTAGCTTTAGATGGTGTCCTTTCTACATTCGTGTCAGCTGCCCGACAAGGTGTTGT
+TGATACCGATGTTGACACAAAGGATGTTATTGAATGTCTCAAACTTTCACATCACTCTGACTTAGAAGTG
+ACAGGTGACAGTTGTAACAATTTCATGCTCACCTATAATAAGGTTGAAAACATGACGCCCAGAGATCTTG
+GCGCATGTATTGACTGTAATGCAAGGCATATCAATGCCCAAGTAGCAAAAAGTCACAATGTTTCACTCAT
+CTGGAATGTAAAAGACTACATGTCTTTATCTGAACAGCTGCGTAAACAAATTCGTAGTGCTGCCAAGAAG
+AACAACATACCTTTTAGACTAACTTGTGCTACAACTAGACAGGTTGTCAATGTCATAACTACTAAAATCT
+CACTCAAGGGTGGTAAGATTGTTAGTACTTGTTTTAAACTTATGCTTAAGGCCACATTATTGTGCGTTCT
+TGCTGCATTGGTTTGTTATATCGTTATGCCAGTACATACATTGTCAATCCATGATGGTTACACAAATGAA
+ATCATTGGTTACAAAGCCATTCAGGATGGTGTCACTCGTGACATCATTTCTACTGATGATTGTTTTGCAA
+ATAAACATGCTGGTTTTGACGCATGGTTTAGCCAGCGTGGTGGTTCATACAAAAATGACAAAAGCTGCCC
+TGTAGTAGCTGCTATCATTACAAGAGAGATTGGTTTCATAGTGCCTGGCTTACCGGGTACTGTGCTGAGA
+GCAATCAATGGTGACTTCTTGCATTTTCTACCTCGTGTTTTTAGTGCTGTTGGCAACATTTGCTACACAC
+CTTCCAAACTCATTGAGTATAGTGATTTTGCTACCTCTGCTTGCGTTCTTGCTGCTGAGTGTACAATTTT
+TAAGGATGCTATGGGCAAACCTGTGCCATATTGTTATGACACTAATTTGCTAGAGGGTTCTATTTCTTAT
+AGTGAGCTTCGTCCAGACACTCGTTATGTGCTTATGGATGGTTCCATCATACAGTTTCCTAACACTTACC
+TGGAGGGTTCTGTTAGAGTAGTAACAACTTTTGATGCTGAGTACTGTAGACATGGTACATGCGAAAGGTC
+AGAAGTAGGTATTTGCCTATCTACCAGTGGTAGATGGGTTCTTAATAATGAGCATTACAGAGCTCTATCA
+GGAGTTTTCTGTGGTGTTGATGCGATGAATCTCATAGCTAACATCTTTACTCCTCTTGTGCAACCTGTGG
+GTGCTTTAGATGTGTCTGCTTCAGTAGTGGCTGGTGGTATTATTGCCATATTGGTGACTTGTGCTGCCTA
+CTACTTTATGAAATTCAGACGTGTTTTTGGTGAGTACAACCATGTTGTTGCTGCTAATGCACTTTTGTTT
+TTGATGTCTTTCACTATACTCTGTCTGGTACCAGCTTACAGCTTTCTGCCGGGAGTCTACTCAGTCTTTT
+ACTTGTACTTGACATTCTATTTCACCAATGATGTTTCATTCTTGGCTCACCTTCAATGGTTTGCCATGTT
+TTCTCCTATTGTGCCTTTTTGGATAACAGCAATCTATGTATTCTGTATTTCTCTGAAGCACTGCCATTGG
+TTCTTTAACAACTATCTTAGGAAAAGAGTCATGTTTAATGGAGTTACATTTAGTACCTTCGAGGAGGCTG
+CTTTGTGTACCTTTTTGCTCAACAAGGAAATGTACCTAAAATTGCGTAGCGAGACACTGTTGCCACTTAC
+ACAGTATAACAGGTATCTTGCTCTATATAACAAGTACAAGTATTTCAGTGGAGCCTTAGATACTACCAGC
+TATCGTGAAGCAGCTTGCTGCCACTTAGCAAAGGCTCTAAATGACTTTAGCAACTCAGGTGCTGATGTTC
+TCTACCAACCACCACAGACATCAATCACTTCTGCTGTTCTGCAGAGTGGTTTTAGGAAAATGGCATTCCC
+GTCAGGCAAAGTTGAAGGGTGCATGGTACAAGTAACCTGTGGAACTACAACTCTTAATGGATTGTGGTTG
+GATGACACAGTATACTGTCCAAGACATGTCATTTGCACAGCAGAAGACATGCTTAATCCTAACTATGAAG
+ATCTGCTCATTCGCAAATCCAACCATAGCTTTCTTGTTCAGGCTGGCAATGTTCAACTTCGTGTTATTGG
+CCATTCTATGCAAAATTGTCTGCTTAGGCTTAAAGTTGATACTTCTAACCCTAAGACACCCAAGTATAAA
+TTTGTCCGTATCCAACCTGGTCAAACATTTTCAGTTCTAGCATGCTACAATGGTTCACCATCTGGTGTTT
+ATCAGTGTGCCATGAGACCTAATCATACCATTAAAGGTTCTTTCCTTAATGGATCATGTGGTAGTGTTGG
+TTTTAACATTGATTATGATTGCGTGTCTTTCTGCTATATGCATCATATGGAGCTTCCAACAGGAGTACAC
+GCTGGTACTGACTTAGAAGGTAAATTCTATGGTCCATTTGTTGACAGACAAACTGCACAGGCTGCAGGTA
+CAGACACAACCATAACATTAAATGTTTTGGCATGGCTGTATGCTGCTGTTATCAATGGTGATAGGTGGTT
+TCTTAATAGATTCACCACTACTTTGAATGACTTTAACCTTGTGGCAATGAAGTACAACTATGAACCTTTG
+ACACAAGATCATGTTGACATATTGGGACCTCTTTCTGCTCAAACAGGAATTGCCGTCTTAGATATGTGTG
+CTGCTTTGAAAGAGCTGCTGCAGAATGGTATGAATGGTCGTACTATCCTTGGTAGCACTATTTTAGAAGA
+TGAGTTTACACCATTTGATGTTGTTAGACAATGCTCTGGTGTTACCTTCCAAGGTAAGTTCAAGAAAATT
+GTTAAGGGCACTCATCATTGGATGCTTTTAACTTTCTTGACATCACTATTGATTCTTGTTCAAAGTACAC
+AGTGGTCACTGTTTTTCTTTGTTTACGAGAATGCTTTCTTGCCATTTACTCTTGGTATTATGGCAATTGC
+TGCATGTGCTATGCTGCTTGTTAAGCATAAGCACGCATTCTTGTGCTTGTTTCTGTTACCTTCTCTTGCA
+ACAGTTGCTTACTTTAATATGGTCTACATGCCTGCTAGCTGGGTGATGCGTATCATGACATGGCTTGAAT
+TGGCTGACACTAGCTTGTCTGGTTATAGGCTTAAGGATTGTGTTATGTATGCTTCAGCTTTAGTTTTGCT
+TATTCTCATGACAGCTCGCACTGTTTATGATGATGCTGCTAGACGTGTTTGGACACTGATGAATGTCATT
+ACACTTGTTTACAAAGTCTACTATGGTAATGCTTTAGATCAAGCTATTTCCATGTGGGCCTTAGTTATTT
+CTGTAACCTCTAACTATTCTGGTGTCGTTACGACTATCATGTTTTTAGCTAGAGCTATAGTGTTTGTGTG
+TGTTGAGTATTACCCATTGTTATTTATTACTGGCAACACCTTACAGTGTATCATGCTTGTTTATTGTTTC
+TTAGGCTATTGTTGCTGCTGCTACTTTGGCCTTTTCTGTTTACTCAACCGTTACTTCAGGCTTACTCTTG
+GTGTTTATGACTACTTGGTCTCTACACAAGAATTTAGGTATATGAACTCCCAGGGGCTTTTGCCTCCTAA
+GAGTAGTATTGATGCTTTCAAGCTTAACATTAAGTTGTTGGGTATTGGAGGTAAACCATGTATCAAGGTT
+GCTACTGTACAGTCTAAAATGTCTGACGTAAAGTGCACATCTGTGGTACTGCTCTCGGTTCTTCAACAAC
+TTAGAGTAGAGTCATCTTCTAAATTGTGGGCACAATGTGTACAACTCCACAATGATATTCTTCTTGCAAA
+AGACACAACTGAAGCTTTCGAGAAGATGGTTTCTCTTTTGTCTGTTTTGCTATCCATGCAGGGTGCTGTA
+GACATTAATAGGTTGTGCGAGGAAATGCTCGATAACCGTGCTACTCTTCAGGCTATTGCTTCAGAATTTA
+GTTCTTTACCATCATATGCCGCTTATGCCACTGCCCAGGAGGCCTATGAGCAGGCTGTAGCTAATGGTGA
+TTCTGAAGTCGTTCTCAAAAAGTTAAAGAAATCTTTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCT
+GCCATGCAACGCAAGTTGGAAAAGATGGCAGATCAGGCTATGACCCAAATGTACAAACAGGCAAGATCTG
+AGGACAAGAGGGCAAAAGTAACTAGTGCTATGCAAACAATGCTCTTCACTATGCTTAGGAAGCTTGATAA
+TGATGCACTTAACAACATTATCAACAATGCGCGTGATGGTTGTGTTCCACTCAACATCATACCATTGACT
+ACAGCAGCCAAACTCATGGTTGTTGTCCCTGATTATGGTACCTACAAGAACACTTGTGATGGTAACACCT
+TTACATATGCATCTGCACTCTGGGAAATCCAGCAAGTTGTTGATGCGGATAGCAAGATTGTTCAACTTAG
+TGAAATTAACATGGACAATTCACCAAATTTGGCTTGGCCTCTTATTGTTACAGCTCTAAGAGCCAACTCA
+GCTGTTAAACTACAGAATAATGAACTGAGTCCAGTAGCACTACGACAGATGTCCTGTGCGGCTGGTACCA
+CACAAACAGCTTGTACTGATGACAATGCACTTGCCTACTATAACAATTCGAAGGGAGGTAGGTTTGTGCT
+GGCATTACTATCAGACCACCAAGATCTCAAATGGGCTAGATTCCCTAAGAGTGATGGTACAGGTACAATT
+TACACAGAACTGGAACCACCTTGTAGGTTTGTTACAGACACACCAAAAGGGCCTAAAGTGAAATACTTGT
+ACTTCATCAAAGGCTTAAACAACCTAAATAGAGGTATGGTGCTGGGCAGTTTAGCTGCTACAGTACGTCT
+TCAGGCTGGAAATGCTACAGAAGTACCTGCCAATTCAACTGTGCTTTCCTTCTGTGCTTTTGCAGTAGAC
+CCTGCTAAAGCATATAAGGATTACCTAGCAAGTGGAGGACAACCAATCACCAACTGTGTGAAGATGTTGT
+GTACACACACTGGTACAGGACAGGCAATTACTGTAACACCAGAAGCTAACATGGACCAAGAGTCCTTTGG
+TGGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGACCATCCAAATCCTAAAGGATTCTGTGACTTG
+AAAGGTAAGTACGTCCAAATACCTACCACTTGTGCTAATGACCCAGTGGGTTTTACACTTAGAAACACAG
+TCTGTACCGTCTGCGGAATGTGGAAAGGTTATGGCTGTAGTTGTGACCAACTCCGCGAACCCTTGATGCA
+GTCTGCGGATGCATCAACGTTTTTAAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCA
+CAGGCACTAGTACTGATGTCGTCTACAGGGCTTTTGATATTTACAACGAAAAAGTTGCTGGTTTTGCAAA
+GTTCCTAAAAACTAATTGCTGTCGCTTCCAGGAGAAGGATGAGGAAGGCAATTTATTAGACTCTTACTTT
+GTAGTTAAGAGGCATACTATGTCTAACTACCAACATGAAGAGACTATTTATAACTTGGTTAAAGATTGTC
+CAGCGGTTGCTGTCCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATGGTACCACATATATCACGTCA
+GCGTCTAACTAAATACACAATGGCTGATTTAGTCTATGCTCTACGTCATTTTGATGAGGGTAATTGTGAT
+ACATTAAAAGAAATACTCGTCACATACAATTGCTGTGATGATGATTATTTCAATAAGAAGGATTGGTATG
+ACTTCGTAGAGAATCCTGACATCTTACGCGTATATGCTAACTTAGGTGAGCGTGTACGCCAATCATTATT
+AAAGACTGTACAATTCTGCGATGCTATGCGTGATGCAGGCATTGTAGGCGTACTGACATTAGATAATCAG
+GATCTTAATGGGAACTGGTACGATTTCGGTGATTTCGTACAAGTAGCACCAGGCTGCGGAGTTCCTATTG
+TGGATTCATATTACTCATTGCTGATGCCCATCCTCACTTTGACTAGGGCATTGGCTGCTGAGTCCCATAT
+GGATGCTGATCTCGCAAAACCACTTATTAAGTGGGATTTGCTGAAATATGATTTTACGGAAGAGAGACTT
+TGTCTCTTCGACCGTTATTTTAAATATTGGGACCAGACATACCATCCCAATTGTATTAACTGTTTGGATG
+ATAGGTGTATCCTTCATTGTGCAAACTTTAATGTGTTATTTTCTACTGTGTTTCCACCTACAAGTTTTGG
+ACCACTAGTAAGAAAAATATTTGTAGATGGTGTTCCTTTTGTTGTTTCAACTGGATACCATTTTCGTGAG
+TTAGGAGTCGTACATAATCAGGATGTAAACTTACATAGCTCGCGTCTCAGTTTCAAGGAACTTTTAGTGT
+ATGCTGCTGATCCAGCTATGCATGCAGCTTCTGGCAATTTATTGCTAGATAAACGCACTACATGCTTTTC
+AGTAGCTGCACTAACAAACAATGTTGCTTTTCAAACTGTCAAACCCGGTAATTTTAATAAAGACTTTTAT
+GACTTTGCTGTGTCTAAAGGTTTCTTTAAGGAAGGAAGTTCTGTTGAACTAAAACACTTCTTCTTTGCTC
+AGGATGGCAACGCTGCTATCAGTGATTATGACTATTATCGTTATAATCTGCCAACAATGTGTGATATCAG
+ACAACTCCTATTCGTAGTTGAAGTTGTTGATAAATACTTTGATTGTTACGATGGTGGCTGTATTAATGCC
+AACCAAGTAATCGTTAACAATCTGGATAAATCAGCTGGTTTCCCATTTAATAAATGGGGTAAGGCTAGAC
+>2
+ATATTAGGTTTTTACCTACCCAGGAAAAGCCAACCAACCTCGATCTCTTGTAGATCTGTTCTCTAAACGA
+ACTTTAAAATCTGTGTAGCTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAATAAA
+TTTTACTGTCGTTGACAAGAAACGAGTAACTCGTCCCTCTTCTGCAGACTGCTTACGGTTTCGTCCGTGT
+TGCAGTCGATCATCAGCATACCTAGGTTTCGTCCGGGTGTGACCGAAAGGTAAGATGGAGAGCCTTGTTC
+TTGGTGTCAACGAGAAAACACACGTCCAACTCAGTTTGCCTGTCCTTCAGGTTAGAGACGTGCTAGTGCG
+TGGCTTCGGGGACTCTGTGGAAGAGGCCCTATCGGAGGCACGTGAACACCTCAAAAATGGCACTTGTGGT
+CTAGTAGAGCTGGAAAAAGGCGTACTGCCCCAGCTTGAACAGCCCTATGTGTTCATTAAACGTTCTGATG
+CCTTAAGCACCAATCACGGCCACAAGGTCGTTGAGCTGGTTGCAGAAATGGACGGCATTCAGTACGGTCG
+TAGCGGTATAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACCCCAATTGCATACCGCAATGTTCTT
+CTTCGTAAGAACGGTAATAAGGGAGCCGGTGGTCATAGCTATGGCATCGATCTAAAGTCTTATGACTTAG
+GTGACGAGCTTGGCACTGATCCCATTGAAGATTATGAACAAAACTGGAACACTAAGCATGGCAGTGGTGC
+ACTCCGTGAACTCACTCGTGAGCTCAATGGAGGTGCAGTCACTCGCTATGTCGACAACAATTTCTGTGGC
+CCAGATGGGTACCCTCTTGATTGCATCAAAGATTTTCTCGCACGCGCGGGCAAGTCAATGTGCACTCTTT
+CCGAACAACTTGATTACATCGAGTCGAAGAGAGGTGTCTACTGCTGCCGTGACCATGAGCATGAAATTGC
+CTGGTTCACTGAGCGCTCTGATAAGAGCTACGAGCACCAGACACCCTTCGAAATTAAGAGTGCCAAGAAA
+TTTGACACTTTCAAAGGGGAATGCCCAAAGTTTGTGTTTCCTCTTAACTCAAAAGTCAAAGTCATTCAAC
+CACGTGTTGAAAAGAAAAAGACTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCTGTTGCATCTCC
+ACAGGAGTGTAACAATATGCACTTGTCTACCTTGATGAAATGTAATCATTGCGATGAAGTTTCATGGCAG
+ACGTGCGACTTTCTGAAAGCCACTTGTGAACATTGTGGCACTGAAAATTTAGTTATTGAAGGACCTACTA
+CATGTGGGTACCTACCTACTAATGCTGTAGTGAAAATGCCATGTCCTGCCTGTCAAGACCCAGAGATTGG
+ACCTGAGCATAGTGTTGCAGATTATCACAACCACTCAAACATTGAAACTCGACTCCGCAAGGGAGGTAGG
+ACTAGATGTTTTGGAGGCTGTGTGTTTGCCTATGTTGGCTGCTATAATAAGCGTGCCTACTGGGTTCCTC
+GTGCTAGTGCTGATATTGGCTCAGGCCATACTGGCATTACTGGTGACAATGTGGAGACCTTGAATGAGGA
+TCTCCTTGAGATACTGAGTCGTGAACGTGTTAACATTAACATTGTTGGCGATTTTCATTTGAATGAAGAG
+GTTGCCATCATTTTGGCATCTTTCTCTGCTTCTACAAGTGCCTTTATTGACACTATAAAGAGTCTTGATT
+ACAAGTCTTTCAAAACCATTGTTGAGTCCTGCGGTAACTATAAAGTTACCAAGGGAAAGCCCGTAAAAGG
+TGCTTGGAACATTGGACAACAGAGATCAGTTTTAACACCACTGTGTGGTTTTCCCTCACAGGCTGCTGGT
+GTTATCAGATCAATTTTTGCGCGCACACTTGATGCAGCAAACCACTCAATTCCTGATTTGCAAAGAGCAG
+CTGTCACCATACTTGATGGTATTTCTGAACAGTCATTACGTCTTGTCGACGCCATGGTTTATACTTCAGA
+CCTGCTCACCAACAGTGTCATTATTATGGCATATGTAACTGGTGGTCTTGTACAACAGACTTCTCAGTGG
+TTGTCTAATCTTTTGGGCACTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGATTGAGGCGAAACTTA
+GTGCAGGAGTTGAATTTCTCAAGGATGCTTGGGAGATTCTCAAATTTCTCATTACAGGTGTTTTTGACAT
+CGTCAAGGGTCAAATACAGGTTGCTTCAGATAACATCAAGGATTGTGTAAAATGCTTCATTGATGTTGTT
+AACAAGGCACTCGAAATGTGCATTGATCAAGTCACTATCGCTGGCGCAAAGTTGCGATCACTCAACTTAG
+GTGAAGTCTTCATCGCTCAAAGCAAGGGACTTTACCGTCAGTGTATACGTGGCAAGGAGCAGCTGCAACT
+ACTCATGCCTCTTAAGGCACCAAAAGAAGTAACCTTTCTTGAAGGTGATTCACATGACACAGTACTTACC
+TCTGAGGAGGTTGTTCTCAAGAACGGTGAACTCGAAGCACTCGAGACGCCCGTTGATAGCTTCACAAATG
+GAGCTATCGTTGGCACACCAGTCTGTGTAAATGGCCTCATGCTCTTAGAGATTAAGGACAAAGAACAATA
+CTGCGCATTGTCTCCTGGTTTACTGGCTACAAACAATGTCTTTCGCTTAAAAGGGGGTGCACCAATTAAA
+GGTGTAACCTTTGGAGAAGATACTGTTTGGGAAGTTCAAGGTTACAAGAATGTGAGAATCACATTTGAGC
+TTGATGAACGTGTTGACAAAGTGCTTAATGAAAAGTGCTCTGTCTACACTGTTGAATCCGGTACCGAAGT
+TACTGAGTTTGCATGTGTTGTAGCAGAGGCTGTTGTGAAGACTTTACAACCAGTTTCTGATCTCCTTACC
+AACATGGGTATTGATCTTGATGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTGAAGAAA
+ACTTTTCATCACGTATGTATTGTTCCTTTTACCCTCCAGATGAGGAAGAAGAGGACGATGCAGAGTGTGA
+GGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGTACAGAGGATGATTATCAAGGTCTCCCTCTG
+GAATTTGGTGCCTCAGCTGAAACAGTTCGAGTTGAGGAAGAAGAAGAGGAAGACTGGCTGGATGATACTA
+CTGAGCAATCAGAGATTGAGCCAGAACCAGAACCTACACCTGAAGAACCAGTTAATCAGTTTACTGGTTA
+TTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAGGCACAAAGTGCTAATCCT
+ATGGTGATTGTAAATGCTGCTAACATACACCTGAAACATGGTGGTGGTGTAGCAGGTGCACTCAACAAGG
+CAACCAATGGTGCCATGCAAAAGGAGAGTGATGATTACATTAAGCTAAATGGCCCTCTTACAGTAGGAGG
+GTCTTGTTTGCTTTCTGGACATAATCTTGCTAAGAAGTGTCTGCATGTTGTTGGACCTAACCTAAATGCA
+GGTGAGGACATCCAGCTTCTTAAGGCAGCATATGAAAATTTCAATTCACAGGACATCTTACTTGCACCAT
+TGTTGTCAGCAGGCATATTTGGTGCTAAACCACTTCAGTCTTTACAAGTGTGCGTGCAGACGGTTCGTAC
+ACAGGTTTATATTGCAGTCAATGACAAAGCTCTTTATGAGCAGGTTGTCATGGATTATCTTGATAACCTG
+AAGCCTAGAGTGGAAGCACCTAAACAAGAGGAGCCACCAAACACAGAAGATTCCAAAACTGAGGAGAAAT
+CTGTCGTACAGAAGCCTGTCGATGTGAAGCCAAAAATTAAGGCCTGCATTGATGAGGTTACCACAACACT
+GGAAGAAACTAAGTTTCTTACCAATAAGTTACTCTTGTTTGCTGATATCAATGGTAAGCTTTACCATGAT
+TCTCAGAACATGCTTAGAGGTGAAGATATGTCTTTCCTTGAGAAGGATGCACCTTACATGGTAGGTGATG
+TTATCACTAGTGGTGATATCACTTGTGTTGTAATACCCTCCAAAAAGGCTGGTGGCACTACTGAGATGCT
+CTCAAGAGCTTTGAAGAAAGTGCCAGTTGATGAGTATATAACCACGTACCCTGGACAAGGATGTGCTGGT
+TATACACTTGAGGAAGCTAAGACTGCTCTTAAGAAATGCAAATCTGCATTTTATGTACTACCTTCAGAAG
+CACCTAATGCTAAGGAAGAGATTCTAGGAACTGTATCCTGGAATTTGAGAGAAATGCTTGCTCATGCTGA
+AGAGACAAGAAAATTAATGCCTATATGCATGGATGTTAGAGCCATAATGGCAACCATCCAACGTAAGTAT
+AAAGGAATTAAAATTCAAGAGGGCATCGTTGACTATGGTGTCCGATTCTTCTTTTATACTAGTAAAGAGC
+CTGTAGCTTCTATTATTACGAAGCTGAACTCTCTAAATGAGCCGCTTGTCACAATGCCAATTGGTTATGT
+GACACATGGTTTTAATCTTGAAGAGGCTGCGCGCTGTATGCGTTCTCTTAAAGCTCCTGCCGTAGTGTCA
+GTATCATCACCAGATGCTGTTACTACATATAATGGATACCTCACTTCGTCATCAAAGACATCTGAGGAGC
+ACTTTGTAGAAACAGTTTCTTTGGCTGGCTCTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAGTT
+AGGTGTTGAATTTCTTAAGCGTGGTGACAAAATTGTGTACCACACTCTGGAGAGCCCCGTCGAGTTTCAT
+CTTGACGGTGAGGTTCTTTCACTTGACAAACTAAAGAGTCTCTTATCCCTGCGGGAGGTTAAGACTATAA
+AAGTGTTCACAACTGTGGACAACACTAATCTCCACACACAGCTTGTGGATATGTCTATGACATATGGACA
+GCAGTTTGGTCCAACATACTTGGATGGTGCTGATGTTACAAAAATTAAACCTCATGTAAATCATGAGGGT
+AAGACTTTCTTTGTACTACCTAGTGATGACACACTACGTAGTGAAGCTTTCGAGTACTACCATACTCTTG
+ATGAGAGTTTTCTTGGTAGGTACATGTCTGCTTTAAACCACACAAAGAAATGGAAATTTCCTCAAGTTGG
+TGGTTTAACTTCAATTAAATGGGCTGATAACAATTGTTATTTGTCTAGTGTTTTATTAGCACTTCAACAG
+CTTGAAGTCAAATTCAATGCACCAGCACTTCAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCTA
+ACTTTTGTGCACTCATACTCGCTTACAGTAATAAAACTGTTGGCGAGCTTGGTGATGTCAGAGAAACTAT
+GACCCATCTTCTACAGCATGCTAATTTGGAATCTGCAAAGCGAGTTCTTAATGTGGTGTGTAAACATTGT
+GGTCAGAAAACTACTACCTTAACGGGTGTAGAAGCTGTGATGTATATGGGTACTCTATCTTATGATAATC
+TTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTACACAATATCTAGTACAACAAGAGTC
+TTCTTTTGTTATGATGTCTGCACCACCTGCTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCGAAT
+GAGTACACTGGTAACTATCAGTGTGGTCATTACACTCATATAACTGCTAAGGAGACCCTCTATCGTATTG
+ACGGAGCTCACCTTACAAAGATGTCAGAGTACAAAGGACCAGTGACTGATGTTTTCTACAAGGAAACATC
+TTACACTACAACCATCAAGCCTGTGTCGTATAAACTCGATGGAGTTACTTACACAGAGATTGAACCAAAA
+TTGGATGGGTATTATAAAAAGGATAATGCTTACTATACAGAGCAGCCTATAGACCTTGTACCAACTCAAC
+CATTACCAAATGCGAGTTTTGATAATTTCAAACTCACATGTTCTAACACAAAATTTGCTGATGATTTAAA
+TCAAATGACAGGCTTCACAAAGCCAGCTTCACGAGAGCTATCTGTCACATTCTTCCCAGACTTGAATGGC
+GATGTAGTGGCTATTGACTATAGACACTATTCAGCGAGTTTCAAGAAAGGTGCTAAATTACTGCATAAGC
+CAATTGTTTGGCACATTAACCAGGCTACAACCAAGACAACGTTCAAACCAAACACTTGGTGTTTACGTTG
+TCTTTGGAGTACAAAGCCAGTAGATACTTCAAATTCATTTGAAGTTCTGGCAGTAGAAGACACACAAGGA
+ATGGACAATCTTGCTTGTGAAAGTCAACAACCCACCTCTGAAGAAGTAGTGGAAAATCCTACCATACAGA
+AGGAAGTCATAGAGTGTGACGTGAAAACTACCGAAGTTGTAGGCAATGTCATACTTAAACCATCAGATGA
+AGGTGTTAAAGTAACACAAGAGTTAGGTCATGAGGATCTTATGGCTGCTTATGTGGAAAACACAAGCATT
+ACCATTAAGAAACCTAATGAGCTTTCACTAGCCTTAGGTTTAAAAACAATTGCCACTCATGGTATTGCTG
+CAATTAATAGTGTTCCTTGGAGTAAAATTTTGGCTTATGTCAAACCATTCTTAGGACAAGCAGCAATTAC
+AACATCAAATTGCGCTAAGAGATTAGCACAACGTGTGTTTAACAATTATATGCCTTATGTGTTTACATTA
+TTGTTCCAATTGTGTACTTTTACTAAAAGTACCAATTCTAGAATTAGAGCTTCACTACCTACAACTATTG
+CTAAAAATAGTGTTAAGAGTGTTGCTAAATTATGTTTGGATGCCGGCATTAATTATGTGAAGTCACCCAA
+ATTTTCTAAATTGTTCACAATCGCTATGTGGCTATTGTTGTTAAGTATTTGCTTAGGTTCTCTAATCTGT
+GTAACTGCTGCTTTTGGTGTACTCTTATCTAATTTTGGTGCTCCTTCTTATTGTAATGGCGTTAGAGAAT
+TGTATCTTAATTCGTCTAACGTTACTACTATGGATTTCTGTGAAGGTTCTTTTCCTTGCAGCATTTGTTT
+AAGTGGATTAGACTCCCTTGATTCTTATCCAGCTCTTGAAACCATTCAGGTGACGATTTCATCGTACAAG
+GAACATCAGCACCTGAGTTGCTAAAGTCATTTAGAGCCTTTGCTAAGTGGCAGCAAGCTGCTTCACGATA
+GCTGGTAGTATCTAAGGCTCCACTGAAATACTTGTACTTGTTATATAGAGCAAGATACCTGTTATACTGT
+GTAAGTGGCAACAGTGTCTCGCTACGCAATTTTAGGTACATTTCCTTGTTGAGCAAAAAGGTACACAAAG
+CAGCCTCCTCGAAGGTACTAAATGTAACTCCATTAAACATGACTCTTTTCCTAAGATAGTTGTTAAAGAA
+CCAATGGCAGTGCTTCAGAGAAATACAGAATACATAGATTGCTGTTATCCAAAAAGGCACAATAGGAGAA
+AACATGGCAAACCATTGAAGGTGAGCCAAGAATGAAACATCATTGGTGAAATAGAATGTCAAGTACAAGT
+AAAAGACTGAGTAGACTCCCGGCAGAAAGCTGTAAGCTGGTACCAGACAGAGTATAGTGAAAGACATCAA
+AAACAAAAGTGCATTAGCAGCAACAACATGGTTGTACTCACCAAAAACACGTCTGAATTTCATAAAGTAG
+TAGGCAGCACAAGTCACCAATATGGCAATAATACCACCAGCCACTACTGAAGCAGACACATCTAAAGCAC
+CCACAGGTTGCACAAGAGGAGTAAAGATGTTAGCTATGAGATTCATCGCATCAACACCACAGAAAACTCC
+TGATAGAGCTCTGTAATGCTCATTATTAAGAACCCATCTACCACTGGTAGATAGGCAAATACCTACTTCT
+GACCTTTCGCATGTACCATGTCTACAGTACTCAGCATCAAAAGTTGTTACTACTCTAACAGAACCCTCCA
+GGTAAGTGTTAGGAAACTGTATGATGGAACCATCCATAAGCACATAACGAGTGTCTGGACGAAGCTCACT
+ATAAGAAATAGAACCCTCTAGCAAATTAGTGTCATAACAATATGGCACAGGTTTGCCCATAGCATCCTTA
+AAAATTGTACACTCAGCAGCAAGAACGCAAGCAGAGGTAGCAAAATCACTATACTCAATGAGTTTGGAAG
+GTGTGTAGCAAATGTTGCCAACAGCACTAAAAACACGAGGTAGAAAATGCAAGAAGTCACCATTGATTGC
+TCTCAGCACAGTACCCGGTAAGCCAGGCACTATGAAACCAATCTCTCTTGTAATGATAGCAGCTACTACA
+GGGCAGCTTTTGTCATTTTTGTATGAACCACCACGCTGGCTAAACCATGCGTCAAAACCAGCATGTTTAT
+TTGCAAAACAATCATCAGTAGAAATGATGTCACGAGTGACACCATCCTGAATGGCTTTGTAACCAATGAT
+TTCATTTGTGTAACCATCATGGATTGACAATGTATGTACTGGCATAACGATATAACAAACCAATGCAGCA
+AGAACGCACAATAATGTGGCCTTAAGCATAAGTTTAAAACAAGTACTAACAATCTTACCACCCTTGAGTG
+AGATTTTAGTAGTTATGACATTGACAACCTGTCTAGTTGTAGCACAAGTTAGTCTAAAAGGTATGTTGTT
+CTTCTTGGCAGCACTACGAATTTGTTTACGCAGCTGTTCAGATAAAGACATGTAGTCTTTTACATTCCAG
+ATGAGTGAAACATTGTGACTTTTTGCTACTTGGGCATTGATATGCCTTGCATTACAGTCAATACATGCGC
+CAAGATCTCTGGGCGTCATGTTTTCAACCTTATTATAGGTGAGCATGAAATTGTTACAACTGTCACCTGT
+CACTTCTAAGTCAGAGTGATGTGAAAGTTTGAGACATTCAATAACATCCTTTGTGTCAACATCGGTATCA
+ACAACACCTTGTCGGGCAGCTGACACGAATGTAGAAAGGACACCATCTAAAGCTACACCCTTTGCTAACT
+CGCTGTGAGCTGTAGCAACAAGTGCCTTAAGTTTTTCCATAGGAACACTAAAAGTTGCTGAAAAGGTGTC
+GACATAAGCATCAAACATCTTAACGGAAACTTCAGTACTATCTCCAACGTCTGATACAAGAGCTTGGTCA
+AGCAACAGAATAGGTTGGCACATCAGCTGACTGTAGTACACAGAAGCAGACTTAGAAGCAGACTCGTCGC
+ATTTGGACTTGCCATCAAAAACTATGACATTAATAGGCAGTGAACCTTTAGTGTTGTTAGCTCTCAAATT
+GTCTAAATTGACAAAATGGGAGAGCGGATGTCTCTCATAGGTCTTTTGACCAGCCTTGTCAAAGTAGAGG
+TGAAGCGCGCCATTTTTCACAGCAACACTATCAACAATATACGATGACTGGTCAGTAGGGTTGATTGGTC
+TTTTAAACTGGAGTGACAAATCACGAGCAACTTCATCACTAATGAATGTACTACCAGTGCAAAATGTGTC
+ACAATTGAGACAATTCCAATTGTGAGTCTTGCAGAAGCCACGGCCTCCATTTGCATAGACATAGAAAGAT
+CTCTTCATGCCATTAACAATAGTTGTACACTCAACGCGTGTGGCACGATTGCGCTTATAGCACATCATGC
+AAGTCGAAGAGGTGCAACCATCCATGATATGAACATAGCTCTTCCATATGTAGTAGAAAGAAGCAAAGAA
+GATGTACATCCTAACCATTGCAGAAACGGGTGCCATTTGTACAATACTAATGATAAACCACATGAGCCAA
+GAATTGCTGATGAAATGACTAGCAAAATAGCCAAAGAACACCTGCATTATAGCTGAAAGACCTAATAAAT
+AAAAGAATTTTGTGAACAACATATATGCCAAAACCCACTCAGCGGCCAGACCTAAAATTGTCAAGTCTAG
+CTTGTACGATGAAATCGTCACCTGAATGGTTTCAAGAGCTGGATAAGAATCAAGGGAGTCTAATCCACTT
+AAACAAATGCTGCAAGGAAAAGAACCTTCACAGAAATCCATAGTAGTAACGTTAGACGAATTAAGATACA
+ATTCTCTAACGCCATTACAATAAGAAGGAGCACCAAAATTAGATAAGAGTACACCAAAAGCAGCAGTTAC
+ACAGATTAGAGAACCTAAGCAAATACTTAACAACAATAGCCACATAGCGATTGTGAACAATTTAGAAAAT
+TTGGGTGACTTCACATAATTAATGCCGGCATCCAAACATAATTTAGCAACACTCTTAACACTATTTTTAG
+CAATAGTTGTAGGTAGTGAAGCTCTAATTCTAGAATTGGTACTTTTAGTAAAAGTACACAATTGGAACAA
+TAATGTAAACACATAAGGCATATAATTGTTAAACACACGTTGTGCTAATCTCTTAGCGCAATTTGATGTT
+GTAATTGCTGCTTGTCCTAAGAATGGTTTGACATAAGCCAAAATTTTACTCCAAGGAACACTATTAATTG
+CAGCAATACCATGAGTGGCAATTGTTTTTAAACCTAAGGCTAGTGAAAGCTCATTAGGTTTCTTAATGGT
+AATGCTTGTGTTTTCCACATAAGCAGCCATAAGATCCTCATGACCTAACTCTTGTGTTACTTTAACACCT
+TCATCTGATGGTTTAAGTATGACATTGCCTACAACTTCGGTAGTTTTCACGTCACACTCTATGACTTCCT
+TCTGTATGGTAGGATTTTCCACTACTTCTTCAGAGGTGGGTTGTTGACTTTCACAAGCAAGATTGTCCAT
+TCCTTGTGTGTCTTCTACTGCCAGAACTTCAAATGAATTTGAAGTATCTACTGGCTTTGTACTCCAAAGA
+CAACGTAAACACCAAGTGTTTGGTTTGAACGTTGTCTTGGTTGTAGCCTGGTTAATGTGCCAAACAATTG
+GCTTATGCAGTAATTTAGCACCTTTCTTGAAACTCGCTGAATAGTGTCTATAGTCAATAGCCACTACATC
+GCCATTCAAGTCTGGGAAGAATGTGACAGATAGCTCTCGTGAAGCTGGCTTTGTGAAGCCTGTCATTTGA
+TTTAAATCATCAGCAAATTTTGTGTTAGAACATGTGAGTTTGAAATTATCAAAACTCGCATTTGGTAATG
+GTTGAGTTGGTACAAGGTCTATAGGCTGCTCTGTATAGTAAGCATTATCCTTTTTATAATACCCATCCAA
+TTTTGGTTCAATCTCTGTGTAAGTAACTCCATCGAGTTTATACGACACAGGCTTGATGGTTGTAGTGTAA
+GATGTTTCCTTGTAGAAAACATCAGTCACTGGTCCTTTGTACTCTGACATCTTTGTAAGGTGAGCTCCGT
+CAATACGATAGAGGGTCTCCTTAGCAGTTATATGAGTGTAATGACCACACTGATAGTTACCAGTGTACTC
+ATTCGCACATAAGAATGTACCTTGCTGTAATTTATACTCAGCAGGTGGTGCAGACATCATAACAAAAGAA
+GACTCTTGTTGTACTAGATATTGTGTAGCATCACGACCACACACACATGGAATGGAAACACCTGTCTTAA
+GATTATCATAAGATAGAGTACCCATATACATCACAGCTTCTACACCCGTTAAGGTAGTAGTTTTCTGACC
+ACAATGTTTACACACCACATTAAGAACTCGCTTTGCAGATTCCAAATTAGCATGCTGTAGAAGATGGGTC
+ATAGTTTCTCTGACATCACCAAGCTCGCCAACAGTTTTATTACTGTAAGCGAGTATGAGTGCACAAAAGT
+TAGCAGCATCACCAGCACGGGCTCTATAATAAGCCTCTTGAAGTGCTGGTGCATTGAATTTGACTTCAAG
+CTGTTGAAGTGCTAATAAAACACTAGACAAATAACAATTGTTATCAGCCCATTTAATTGAAGTTAAACCA
+CCAACTTGAGGAAATTTCCATTTCTTTGTGTGGTTTAAAGCAGACATGTACCTACCAAGAAAACTCTCAT
+CAAGAGTATGGTAGTACTCGAAAGCTTCACTACGTAGTGTGTCATCACTAGGTAGTACAAAGAAAGTCTT
+ACCCTCATGATTTACATGAGGTTTAATTTTTGTAACATCAGCACCATCCAAGTATGTTGGACCAAACTGC
+TGTCCATATGTCATAGACATATCCACAAGCTGTGTGTGGAGATTAGTGTTGTCCACAGTTGTGAACACTT
+TTATAGTCTTAACCTCCCGCAGGGATAAGAGACTCTTTAGTTTGTCAAGTGAAAGAACCTCACCGTCAAG
+ATGAAACTCGACGGGGCTCTCCAGAGTGTGGTACACAATTTTGTCACCACGCTTAAGAAATTCAACACCT
+AACTCTGTACGCTGTCCTGAATAGGACCAATCTCTGTAAGAGCCAGCCAAAGAAACTGTTTCTACAAAGT
+GCTCCTCAGATGTCTTTGATGACGAAGTGAGGTATCCATTATATGTAGTAACAGCATCTGGTGATGATAC
+TGACACTACGGCAGGAGCTTTAAGAGAACGCATACAGCGCGCAGCCTCTTCAAGATTAAAACCATGTGTC
+ACATAACCAATTGGCATTGTGACAAGCGGCTCATTTAGAGAGTTCAGCTTCGTAATAATAGAAGCTACAG
+GCTCTTTACTAGTATAAAAGAAGAATCGGACACCATAGTCAACGATGCCCTCTTGAATTTTAATTCCTTT
+ATACTTACGTTGGATGGTTGCCATTATGGCTCTAACATCCATGCATATAGGCATTAATTTTCTTGTCTCT
+TCAGCATGAGCAAGCATTTCTCTCAAATTCCAGGATACAGTTCCTAGAATCTCTTCCTTAGCATTAGGTG
+CTTCTGAAGGTAGTACATAAAATGCAGATTTGCATTTCTTAAGAGCAGTCTTAGCTTCCTCAAGTGTATA
+
diff --git a/Tests/Mauve/simple.xmfa b/Tests/Mauve/simple.xmfa
new file mode 100644
index 0000000..deb77d2
--- /dev/null
+++ b/Tests/Mauve/simple.xmfa
@@ -0,0 +1,375 @@
+#FormatVersion Mauve1
+#Sequence1File unknown.fa
+#Sequence1Entry 1
+#Sequence1Format FastA
+#Sequence2File unknown.fa
+#Sequence2Entry 2
+#Sequence2Format FastA
+#BackboneFile simple.xmfa.bbcols
+> 1:1-5670 + unknown.fa # 1
+ATATTAGGTTTTTACCTACCCAGGAAAAGCCAACCAACCTCGATCTCTTGTAGATCTGTTCTCTAAACGAACTTTAAAAT
+CTGTGTAGCTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAATAAATTTTACTGTCGTTGACAAGA
+AACGAGTAACTCGTCCCTCTTCTGCAGACTGCTTACGGTTTCGTCCGTGTTGCAGTCGATCATCAGCATACCTAGGTTTC
+GTCCGGGTGTGACCGAAAGGTAAGATGGAGAGCCTTGTTCTTGGTGTCAACGAGAAAACACACGTCCAACTCAGTTTGCC
+TGTCCTTCAGGTTAGAGACGTGCTAGTGCGTGGCTTCGGGGACTCTGTGGAAGAGGCCCTATCGGAGGCACGTGAACACC
+TCAAAAATGGCACTTGTGGTCTAGTAGAGCTGGAAAAAGGCGTACTGCCCCAGCTTGAACAGCCCTATGTGTTCATTAAA
+CGTTCTGATGCCTTAAGCACCAATCACGGCCACAAGGTCGTTGAGCTGGTTGCAGAAATGGACGGCATTCAGTACGGTCG
+TAGCGGTATAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACCCCAATTGCATACCGCAATGTTCTTCTTCGTAAGA
+ACGGTAATAAGGGAGCCGGTGGTCATAGCTATGGCATCGATCTAAAGTCTTATGACTTAGGTGACGAGCTTGGCACTGAT
+CCCATTGAAGATTATGAACAAAACTGGAACACTAAGCATGGCAGTGGTGCACTCCGTGAACTCACTCGTGAGCTCAATGG
+AGGTGCAGTCACTCGCTATGTCGACAACAATTTCTGTGGCCCAGATGGGTACCCTCTTGATTGCATCAAAGATTTTCTCG
+CACGCGCGGGCAAGTCAATGTGCACTCTTTCCGAACAACTTGATTACATCGAGTCGAAGAGAGGTGTCTACTGCTGCCGT
+GACCATGAGCATGAAATTGCCTGGTTCACTGAGCGCTCTGATAAGAGCTACGAGCACCAGACACCCTTCGAAATTAAGAG
+TGCCAAGAAATTTGACACTTTCAAAGGGGAATGCCCAAAGTTTGTGTTTCCTCTTAACTCAAAAGTCAAAGTCATTCAAC
+CACGTGTTGAAAAGAAAAAGACTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCTGTTGCATCTCCACAGGAGTGT
+AACAATATGCACTTGTCTACCTTGATGAAATGTAATCATTGCGATGAAGTTTCATGGCAGACGTGCGACTTTCTGAAAGC
+CACTTGTGAACATTGTGGCACTGAAAATTTAGTTATTGAAGGACCTACTACATGTGGGTACCTACCTACTAATGCTGTAG
+TGAAAATGCCATGTCCTGCCTGTCAAGACCCAGAGATTGGACCTGAGCATAGTGTTGCAGATTATCACAACCACTCAAAC
+ATTGAAACTCGACTCCGCAAGGGAGGTAGGACTAGATGTTTTGGAGGCTGTGTGTTTGCCTATGTTGGCTGCTATAATAA
+GCGTGCCTACTGGGTTCCTCGTGCTAGTGCTGATATTGGCTCAGGCCATACTGGCATTACTGGTGACAATGTGGAGACCT
+TGAATGAGGATCTCCTTGAGATACTGAGTCGTGAACGTGTTAACATTAACATTGTTGGCGATTTTCATTTGAATGAAGAG
+GTTGCCATCATTTTGGCATCTTTCTCTGCTTCTACAAGTGCCTTTATTGACACTATAAAGAGTCTTGATTACAAGTCTTT
+CAAAACCATTGTTGAGTCCTGCGGTAACTATAAAGTTACCAAGGGAAAGCCCGTAAAAGGTGCTTGGAACATTGGACAAC
+AGAGATCAGTTTTAACACCACTGTGTGGTTTTCCCTCACAGGCTGCTGGTGTTATCAGATCAATTTTTGCGCGCACACTT
+GATGCAGCAAACCACTCAATTCCTGATTTGCAAAGAGCAGCTGTCACCATACTTGATGGTATTTCTGAACAGTCATTACG
+TCTTGTCGACGCCATGGTTTATACTTCAGACCTGCTCACCAACAGTGTCATTATTATGGCATATGTAACTGGTGGTCTTG
+TACAACAGACTTCTCAGTGGTTGTCTAATCTTTTGGGCACTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGATTGAG
+GCGAAACTTAGTGCAGGAGTTGAATTTCTCAAGGATGCTTGGGAGATTCTCAAATTTCTCATTACAGGTGTTTTTGACAT
+CGTCAAGGGTCAAATACAGGTTGCTTCAGATAACATCAAGGATTGTGTAAAATGCTTCATTGATGTTGTTAACAAGGCAC
+TCGAAATGTGCATTGATCAAGTCACTATCGCTGGCGCAAAGTTGCGATCACTCAACTTAGGTGAAGTCTTCATCGCTCAA
+AGCAAGGGACTTTACCGTCAGTGTATACGTGGCAAGGAGCAGCTGCAACTACTCATGCCTCTTAAGGCACCAAAAGAAGT
+AACCTTTCTTGAAGGTGATTCACATGACACAGTACTTACCTCTGAGGAGGTTGTTCTCAAGAACGGTGAACTCGAAGCAC
+TCGAGACGCCCGTTGATAGCTTCACAAATGGAGCTATCGTTGGCACACCAGTCTGTGTAAATGGCCTCATGCTCTTAGAG
+ATTAAGGACAAAGAACAATACTGCGCATTGTCTCCTGGTTTACTGGCTACAAACAATGTCTTTCGCTTAAAAGGGGGTGC
+ACCAATTAAAGGTGTAACCTTTGGAGAAGATACTGTTTGGGAAGTTCAAGGTTACAAGAATGTGAGAATCACATTTGAGC
+TTGATGAACGTGTTGACAAAGTGCTTAATGAAAAGTGCTCTGTCTACACTGTTGAATCCGGTACCGAAGTTACTGAGTTT
+GCATGTGTTGTAGCAGAGGCTGTTGTGAAGACTTTACAACCAGTTTCTGATCTCCTTACCAACATGGGTATTGATCTTGA
+TGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTGAAGAAAACTTTTCATCACGTATGTATTGTTCCTTTT
+ACCCTCCAGATGAGGAAGAAGAGGACGATGCAGAGTGTGAGGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGT
+ACAGAGGATGATTATCAAGGTCTCCCTCTGGAATTTGGTGCCTCAGCTGAAACAGTTCGAGTTGAGGAAGAAGAAGAGGA
+AGACTGGCTGGATGATACTACTGAGCAATCAGAGATTGAGCCAGAACCAGAACCTACACCTGAAGAACCAGTTAATCAGT
+TTACTGGTTATTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAGGCACAAAGTGCTAATCCT
+ATGGTGATTGTAAATGCTGCTAACATACACCTGAAACATGGTGGTGGTGTAGCAGGTGCACTCAACAAGGCAACCAATGG
+TGCCATGCAAAAGGAGAGTGATGATTACATTAAGCTAAATGGCCCTCTTACAGTAGGAGGGTCTTGTTTGCTTTCTGGAC
+ATAATCTTGCTAAGAAGTGTCTGCATGTTGTTGGACCTAACCTAAATGCAGGTGAGGACATCCAGCTTCTTAAGGCAGCA
+TATGAAAATTTCAATTCACAGGACATCTTACTTGCACCATTGTTGTCAGCAGGCATATTTGGTGCTAAACCACTTCAGTC
+TTTACAAGTGTGCGTGCAGACGGTTCGTACACAGGTTTATATTGCAGTCAATGACAAAGCTCTTTATGAGCAGGTTGTCA
+TGGATTATCTTGATAACCTGAAGCCTAGAGTGGAAGCACCTAAACAAGAGGAGCCACCAAACACAGAAGATTCCAAAACT
+GAGGAGAAATCTGTCGTACAGAAGCCTGTCGATGTGAAGCCAAAAATTAAGGCCTGCATTGATGAGGTTACCACAACACT
+GGAAGAAACTAAGTTTCTTACCAATAAGTTACTCTTGTTTGCTGATATCAATGGTAAGCTTTACCATGATTCTCAGAACA
+TGCTTAGAGGTGAAGATATGTCTTTCCTTGAGAAGGATGCACCTTACATGGTAGGTGATGTTATCACTAGTGGTGATATC
+ACTTGTGTTGTAATACCCTCCAAAAAGGCTGGTGGCACTACTGAGATGCTCTCAAGAGCTTTGAAGAAAGTGCCAGTTGA
+TGAGTATATAACCACGTACCCTGGACAAGGATGTGCTGGTTATACACTTGAGGAAGCTAAGACTGCTCTTAAGAAATGCA
+AATCTGCATTTTATGTACTACCTTCAGAAGCACCTAATGCTAAGGAAGAGATTCTAGGAACTGTATCCTGGAATTTGAGA
+GAAATGCTTGCTCATGCTGAAGAGACAAGAAAATTAATGCCTATATGCATGGATGTTAGAGCCATAATGGCAACCATCCA
+ACGTAAGTATAAAGGAATTAAAATTCAAGAGGGCATCGTTGACTATGGTGTCCGATTCTTCTTTTATACTAGTAAAGAGC
+CTGTAGCTTCTATTATTACGAAGCTGAACTCTCTAAATGAGCCGCTTGTCACAATGCCAATTGGTTATGTGACACATGGT
+TTTAATCTTGAAGAGGCTGCGCGCTGTATGCGTTCTCTTAAAGCTCCTGCCGTAGTGTCAGTATCATCACCAGATGCTGT
+TACTACATATAATGGATACCTCACTTCGTCATCAAAGACATCTGAGGAGCACTTTGTAGAAACAGTTTCTTTGGCTGGCT
+CTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAGTTAGGTGTTGAATTTCTTAAGCGTGGTGACAAAATTGTGTAC
+CACACTCTGGAGAGCCCCGTCGAGTTTCATCTTGACGGTGAGGTTCTTTCACTTGACAAACTAAAGAGTCTCTTATCCCT
+GCGGGAGGTTAAGACTATAAAAGTGTTCACAACTGTGGACAACACTAATCTCCACACACAGCTTGTGGATATGTCTATGA
+CATATGGACAGCAGTTTGGTCCAACATACTTGGATGGTGCTGATGTTACAAAAATTAAACCTCATGTAAATCATGAGGGT
+AAGACTTTCTTTGTACTACCTAGTGATGACACACTACGTAGTGAAGCTTTCGAGTACTACCATACTCTTGATGAGAGTTT
+TCTTGGTAGGTACATGTCTGCTTTAAACCACACAAAGAAATGGAAATTTCCTCAAGTTGGTGGTTTAACTTCAATTAAAT
+GGGCTGATAACAATTGTTATTTGTCTAGTGTTTTATTAGCACTTCAACAGCTTGAAGTCAAATTCAATGCACCAGCACTT
+CAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCTAACTTTTGTGCACTCATACTCGCTTACAGTAATAAAACTGT
+TGGCGAGCTTGGTGATGTCAGAGAAACTATGACCCATCTTCTACAGCATGCTAATTTGGAATCTGCAAAGCGAGTTCTTA
+ATGTGGTGTGTAAACATTGTGGTCAGAAAACTACTACCTTAACGGGTGTAGAAGCTGTGATGTATATGGGTACTCTATCT
+TATGATAATCTTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTACACAATATCTAGTACAACAAGAGTC
+TTCTTTTGTTATGATGTCTGCACCACCTGCTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCGAAT
+> 2:1-5670 + unknown.fa # 2
+ATATTAGGTTTTTACCTACCCAGGAAAAGCCAACCAACCTCGATCTCTTGTAGATCTGTTCTCTAAACGAACTTTAAAAT
+CTGTGTAGCTGTCGCTCGGCTGCATGCCTAGTGCACCTACGCAGTATAAACAATAATAAATTTTACTGTCGTTGACAAGA
+AACGAGTAACTCGTCCCTCTTCTGCAGACTGCTTACGGTTTCGTCCGTGTTGCAGTCGATCATCAGCATACCTAGGTTTC
+GTCCGGGTGTGACCGAAAGGTAAGATGGAGAGCCTTGTTCTTGGTGTCAACGAGAAAACACACGTCCAACTCAGTTTGCC
+TGTCCTTCAGGTTAGAGACGTGCTAGTGCGTGGCTTCGGGGACTCTGTGGAAGAGGCCCTATCGGAGGCACGTGAACACC
+TCAAAAATGGCACTTGTGGTCTAGTAGAGCTGGAAAAAGGCGTACTGCCCCAGCTTGAACAGCCCTATGTGTTCATTAAA
+CGTTCTGATGCCTTAAGCACCAATCACGGCCACAAGGTCGTTGAGCTGGTTGCAGAAATGGACGGCATTCAGTACGGTCG
+TAGCGGTATAACACTGGGAGTACTCGTGCCACATGTGGGCGAAACCCCAATTGCATACCGCAATGTTCTTCTTCGTAAGA
+ACGGTAATAAGGGAGCCGGTGGTCATAGCTATGGCATCGATCTAAAGTCTTATGACTTAGGTGACGAGCTTGGCACTGAT
+CCCATTGAAGATTATGAACAAAACTGGAACACTAAGCATGGCAGTGGTGCACTCCGTGAACTCACTCGTGAGCTCAATGG
+AGGTGCAGTCACTCGCTATGTCGACAACAATTTCTGTGGCCCAGATGGGTACCCTCTTGATTGCATCAAAGATTTTCTCG
+CACGCGCGGGCAAGTCAATGTGCACTCTTTCCGAACAACTTGATTACATCGAGTCGAAGAGAGGTGTCTACTGCTGCCGT
+GACCATGAGCATGAAATTGCCTGGTTCACTGAGCGCTCTGATAAGAGCTACGAGCACCAGACACCCTTCGAAATTAAGAG
+TGCCAAGAAATTTGACACTTTCAAAGGGGAATGCCCAAAGTTTGTGTTTCCTCTTAACTCAAAAGTCAAAGTCATTCAAC
+CACGTGTTGAAAAGAAAAAGACTGAGGGTTTCATGGGGCGTATACGCTCTGTGTACCCTGTTGCATCTCCACAGGAGTGT
+AACAATATGCACTTGTCTACCTTGATGAAATGTAATCATTGCGATGAAGTTTCATGGCAGACGTGCGACTTTCTGAAAGC
+CACTTGTGAACATTGTGGCACTGAAAATTTAGTTATTGAAGGACCTACTACATGTGGGTACCTACCTACTAATGCTGTAG
+TGAAAATGCCATGTCCTGCCTGTCAAGACCCAGAGATTGGACCTGAGCATAGTGTTGCAGATTATCACAACCACTCAAAC
+ATTGAAACTCGACTCCGCAAGGGAGGTAGGACTAGATGTTTTGGAGGCTGTGTGTTTGCCTATGTTGGCTGCTATAATAA
+GCGTGCCTACTGGGTTCCTCGTGCTAGTGCTGATATTGGCTCAGGCCATACTGGCATTACTGGTGACAATGTGGAGACCT
+TGAATGAGGATCTCCTTGAGATACTGAGTCGTGAACGTGTTAACATTAACATTGTTGGCGATTTTCATTTGAATGAAGAG
+GTTGCCATCATTTTGGCATCTTTCTCTGCTTCTACAAGTGCCTTTATTGACACTATAAAGAGTCTTGATTACAAGTCTTT
+CAAAACCATTGTTGAGTCCTGCGGTAACTATAAAGTTACCAAGGGAAAGCCCGTAAAAGGTGCTTGGAACATTGGACAAC
+AGAGATCAGTTTTAACACCACTGTGTGGTTTTCCCTCACAGGCTGCTGGTGTTATCAGATCAATTTTTGCGCGCACACTT
+GATGCAGCAAACCACTCAATTCCTGATTTGCAAAGAGCAGCTGTCACCATACTTGATGGTATTTCTGAACAGTCATTACG
+TCTTGTCGACGCCATGGTTTATACTTCAGACCTGCTCACCAACAGTGTCATTATTATGGCATATGTAACTGGTGGTCTTG
+TACAACAGACTTCTCAGTGGTTGTCTAATCTTTTGGGCACTACTGTTGAAAAACTCAGGCCTATCTTTGAATGGATTGAG
+GCGAAACTTAGTGCAGGAGTTGAATTTCTCAAGGATGCTTGGGAGATTCTCAAATTTCTCATTACAGGTGTTTTTGACAT
+CGTCAAGGGTCAAATACAGGTTGCTTCAGATAACATCAAGGATTGTGTAAAATGCTTCATTGATGTTGTTAACAAGGCAC
+TCGAAATGTGCATTGATCAAGTCACTATCGCTGGCGCAAAGTTGCGATCACTCAACTTAGGTGAAGTCTTCATCGCTCAA
+AGCAAGGGACTTTACCGTCAGTGTATACGTGGCAAGGAGCAGCTGCAACTACTCATGCCTCTTAAGGCACCAAAAGAAGT
+AACCTTTCTTGAAGGTGATTCACATGACACAGTACTTACCTCTGAGGAGGTTGTTCTCAAGAACGGTGAACTCGAAGCAC
+TCGAGACGCCCGTTGATAGCTTCACAAATGGAGCTATCGTTGGCACACCAGTCTGTGTAAATGGCCTCATGCTCTTAGAG
+ATTAAGGACAAAGAACAATACTGCGCATTGTCTCCTGGTTTACTGGCTACAAACAATGTCTTTCGCTTAAAAGGGGGTGC
+ACCAATTAAAGGTGTAACCTTTGGAGAAGATACTGTTTGGGAAGTTCAAGGTTACAAGAATGTGAGAATCACATTTGAGC
+TTGATGAACGTGTTGACAAAGTGCTTAATGAAAAGTGCTCTGTCTACACTGTTGAATCCGGTACCGAAGTTACTGAGTTT
+GCATGTGTTGTAGCAGAGGCTGTTGTGAAGACTTTACAACCAGTTTCTGATCTCCTTACCAACATGGGTATTGATCTTGA
+TGAGTGGAGTGTAGCTACATTCTACTTATTTGATGATGCTGGTGAAGAAAACTTTTCATCACGTATGTATTGTTCCTTTT
+ACCCTCCAGATGAGGAAGAAGAGGACGATGCAGAGTGTGAGGAAGAAGAAATTGATGAAACCTGTGAACATGAGTACGGT
+ACAGAGGATGATTATCAAGGTCTCCCTCTGGAATTTGGTGCCTCAGCTGAAACAGTTCGAGTTGAGGAAGAAGAAGAGGA
+AGACTGGCTGGATGATACTACTGAGCAATCAGAGATTGAGCCAGAACCAGAACCTACACCTGAAGAACCAGTTAATCAGT
+TTACTGGTTATTTAAAACTTACTGACAATGTTGCCATTAAATGTGTTGACATCGTTAAGGAGGCACAAAGTGCTAATCCT
+ATGGTGATTGTAAATGCTGCTAACATACACCTGAAACATGGTGGTGGTGTAGCAGGTGCACTCAACAAGGCAACCAATGG
+TGCCATGCAAAAGGAGAGTGATGATTACATTAAGCTAAATGGCCCTCTTACAGTAGGAGGGTCTTGTTTGCTTTCTGGAC
+ATAATCTTGCTAAGAAGTGTCTGCATGTTGTTGGACCTAACCTAAATGCAGGTGAGGACATCCAGCTTCTTAAGGCAGCA
+TATGAAAATTTCAATTCACAGGACATCTTACTTGCACCATTGTTGTCAGCAGGCATATTTGGTGCTAAACCACTTCAGTC
+TTTACAAGTGTGCGTGCAGACGGTTCGTACACAGGTTTATATTGCAGTCAATGACAAAGCTCTTTATGAGCAGGTTGTCA
+TGGATTATCTTGATAACCTGAAGCCTAGAGTGGAAGCACCTAAACAAGAGGAGCCACCAAACACAGAAGATTCCAAAACT
+GAGGAGAAATCTGTCGTACAGAAGCCTGTCGATGTGAAGCCAAAAATTAAGGCCTGCATTGATGAGGTTACCACAACACT
+GGAAGAAACTAAGTTTCTTACCAATAAGTTACTCTTGTTTGCTGATATCAATGGTAAGCTTTACCATGATTCTCAGAACA
+TGCTTAGAGGTGAAGATATGTCTTTCCTTGAGAAGGATGCACCTTACATGGTAGGTGATGTTATCACTAGTGGTGATATC
+ACTTGTGTTGTAATACCCTCCAAAAAGGCTGGTGGCACTACTGAGATGCTCTCAAGAGCTTTGAAGAAAGTGCCAGTTGA
+TGAGTATATAACCACGTACCCTGGACAAGGATGTGCTGGTTATACACTTGAGGAAGCTAAGACTGCTCTTAAGAAATGCA
+AATCTGCATTTTATGTACTACCTTCAGAAGCACCTAATGCTAAGGAAGAGATTCTAGGAACTGTATCCTGGAATTTGAGA
+GAAATGCTTGCTCATGCTGAAGAGACAAGAAAATTAATGCCTATATGCATGGATGTTAGAGCCATAATGGCAACCATCCA
+ACGTAAGTATAAAGGAATTAAAATTCAAGAGGGCATCGTTGACTATGGTGTCCGATTCTTCTTTTATACTAGTAAAGAGC
+CTGTAGCTTCTATTATTACGAAGCTGAACTCTCTAAATGAGCCGCTTGTCACAATGCCAATTGGTTATGTGACACATGGT
+TTTAATCTTGAAGAGGCTGCGCGCTGTATGCGTTCTCTTAAAGCTCCTGCCGTAGTGTCAGTATCATCACCAGATGCTGT
+TACTACATATAATGGATACCTCACTTCGTCATCAAAGACATCTGAGGAGCACTTTGTAGAAACAGTTTCTTTGGCTGGCT
+CTTACAGAGATTGGTCCTATTCAGGACAGCGTACAGAGTTAGGTGTTGAATTTCTTAAGCGTGGTGACAAAATTGTGTAC
+CACACTCTGGAGAGCCCCGTCGAGTTTCATCTTGACGGTGAGGTTCTTTCACTTGACAAACTAAAGAGTCTCTTATCCCT
+GCGGGAGGTTAAGACTATAAAAGTGTTCACAACTGTGGACAACACTAATCTCCACACACAGCTTGTGGATATGTCTATGA
+CATATGGACAGCAGTTTGGTCCAACATACTTGGATGGTGCTGATGTTACAAAAATTAAACCTCATGTAAATCATGAGGGT
+AAGACTTTCTTTGTACTACCTAGTGATGACACACTACGTAGTGAAGCTTTCGAGTACTACCATACTCTTGATGAGAGTTT
+TCTTGGTAGGTACATGTCTGCTTTAAACCACACAAAGAAATGGAAATTTCCTCAAGTTGGTGGTTTAACTTCAATTAAAT
+GGGCTGATAACAATTGTTATTTGTCTAGTGTTTTATTAGCACTTCAACAGCTTGAAGTCAAATTCAATGCACCAGCACTT
+CAAGAGGCTTATTATAGAGCCCGTGCTGGTGATGCTGCTAACTTTTGTGCACTCATACTCGCTTACAGTAATAAAACTGT
+TGGCGAGCTTGGTGATGTCAGAGAAACTATGACCCATCTTCTACAGCATGCTAATTTGGAATCTGCAAAGCGAGTTCTTA
+ATGTGGTGTGTAAACATTGTGGTCAGAAAACTACTACCTTAACGGGTGTAGAAGCTGTGATGTATATGGGTACTCTATCT
+TATGATAATCTTAAGACAGGTGTTTCCATTCCATGTGTGTGTGGTCGTGATGCTACACAATATCTAGTACAACAAGAGTC
+TTCTTTTGTTATGATGTCTGCACCACCTGCTGAGTATAAATTACAGCAAGGTACATTCTTATGTGCGAAT
+=
+> 1:5671-9940 - unknown.fa # 1
+GAACATCAGCACCTGAGTTGCTAAAGTCATTTAGAGCCTTTGCTAAGTGGCAGCAAGCTGCTTCACGATAGCTGGTAGTA
+TCTAAGGCTCCACTGAAATACTTGTACTTGTTATATAGAGCAAGATACCTGTTATACTGTGTAAGTGGCAACAGTGTCTC
+GCTACGCAATTTTAGGTACATTTCCTTGTTGAGCAAAAAGGTACACAAAGCAGCCTCCTCGAAGGTACTAAATGTAACTC
+CATTAAACATGACTCTTTTCCTAAGATAGTTGTTAAAGAACCAATGGCAGTGCTTCAGAGAAATACAGAATACATAGATT
+GCTGTTATCCAAAAAGGCACAATAGGAGAAAACATGGCAAACCATTGAAGGTGAGCCAAGAATGAAACATCATTGGTGAA
+ATAGAATGTCAAGTACAAGTAAAAGACTGAGTAGACTCCCGGCAGAAAGCTGTAAGCTGGTACCAGACAGAGTATAGTGA
+AAGACATCAAAAACAAAAGTGCATTAGCAGCAACAACATGGTTGTACTCACCAAAAACACGTCTGAATTTCATAAAGTAG
+TAGGCAGCACAAGTCACCAATATGGCAATAATACCACCAGCCACTACTGAAGCAGACACATCTAAAGCACCCACAGGTTG
+CACAAGAGGAGTAAAGATGTTAGCTATGAGATTCATCGCATCAACACCACAGAAAACTCCTGATAGAGCTCTGTAATGCT
+CATTATTAAGAACCCATCTACCACTGGTAGATAGGCAAATACCTACTTCTGACCTTTCGCATGTACCATGTCTACAGTAC
+TCAGCATCAAAAGTTGTTACTACTCTAACAGAACCCTCCAGGTAAGTGTTAGGAAACTGTATGATGGAACCATCCATAAG
+CACATAACGAGTGTCTGGACGAAGCTCACTATAAGAAATAGAACCCTCTAGCAAATTAGTGTCATAACAATATGGCACAG
+GTTTGCCCATAGCATCCTTAAAAATTGTACACTCAGCAGCAAGAACGCAAGCAGAGGTAGCAAAATCACTATACTCAATG
+AGTTTGGAAGGTGTGTAGCAAATGTTGCCAACAGCACTAAAAACACGAGGTAGAAAATGCAAGAAGTCACCATTGATTGC
+TCTCAGCACAGTACCCGGTAAGCCAGGCACTATGAAACCAATCTCTCTTGTAATGATAGCAGCTACTACAGGGCAGCTTT
+TGTCATTTTTGTATGAACCACCACGCTGGCTAAACCATGCGTCAAAACCAGCATGTTTATTTGCAAAACAATCATCAGTA
+GAAATGATGTCACGAGTGACACCATCCTGAATGGCTTTGTAACCAATGATTTCATTTGTGTAACCATCATGGATTGACAA
+TGTATGTACTGGCATAACGATATAACAAACCAATGCAGCAAGAACGCACAATAATGTGGCCTTAAGCATAAGTTTAAAAC
+AAGTACTAACAATCTTACCACCCTTGAGTGAGATTTTAGTAGTTATGACATTGACAACCTGTCTAGTTGTAGCACAAGTT
+AGTCTAAAAGGTATGTTGTTCTTCTTGGCAGCACTACGAATTTGTTTACGCAGCTGTTCAGATAAAGACATGTAGTCTTT
+TACATTCCAGATGAGTGAAACATTGTGACTTTTTGCTACTTGGGCATTGATATGCCTTGCATTACAGTCAATACATGCGC
+CAAGATCTCTGGGCGTCATGTTTTCAACCTTATTATAGGTGAGCATGAAATTGTTACAACTGTCACCTGTCACTTCTAAG
+TCAGAGTGATGTGAAAGTTTGAGACATTCAATAACATCCTTTGTGTCAACATCGGTATCAACAACACCTTGTCGGGCAGC
+TGACACGAATGTAGAAAGGACACCATCTAAAGCTACACCCTTTGCTAACTCGCTGTGAGCTGTAGCAACAAGTGCCTTAA
+GTTTTTCCATAGGAACACTAAAAGTTGCTGAAAAGGTGTCGACATAAGCATCAAACATCTTAACGGAAACTTCAGTACTA
+TCTCCAACGTCTGATACAAGAGCTTGGTCAAGCAACAGAATAGGTTGGCACATCAGCTGACTGTAGTACACAGAAGCAGA
+CTTAGAAGCAGACTCGTCGCATTTGGACTTGCCATCAAAAACTATGACATTAATAGGCAGTGAACCTTTAGTGTTGTTAG
+CTCTCAAATTGTCTAAATTGACAAAATGGGAGAGCGGATGTCTCTCATAGGTCTTTTGACCAGCCTTGTCAAAGTAGAGG
+TGAAGCGCGCCATTTTTCACAGCAACACTATCAACAATATACGATGACTGGTCAGTAGGGTTGATTGGTCTTTTAAACTG
+GAGTGACAAATCACGAGCAACTTCATCACTAATGAATGTACTACCAGTGCAAAATGTGTCACAATTGAGACAATTCCAAT
+TGTGAGTCTTGCAGAAGCCACGGCCTCCATTTGCATAGACATAGAAAGATCTCTTCATGCCATTAACAATAGTTGTACAC
+TCAACGCGTGTGGCACGATTGCGCTTATAGCACATCATGCAAGTCGAAGAGGTGCAACCATCCATGATATGAACATAGCT
+CTTCCATATGTAGTAGAAAGAAGCAAAGAAGATGTACATCCTAACCATTGCAGAAACGGGTGCCATTTGTACAATACTAA
+TGATAAACCACATGAGCCAAGAATTGCTGATGAAATGACTAGCAAAATAGCCAAAGAACACCTGCATTATAGCTGAAAGA
+CCTAATAAATAAAAGAATTTTGTGAACAACATATATGCCAAAACCCACTCAGCGGCCAGACCTAAAATTGTCAAGTCTAG
+CTTGTACGATGAAATCGTCACCTGAATGGTTTCAAGAGCTGGATAAGAATCAAGGGAGTCTAATCCACTTAAACAAATGC
+TGCAAGGAAAAGAACCTTCACAGAAATCCATAGTAGTAACGTTAGACGAATTAAGATACAATTCTCTAACGCCATTACAA
+TAAGAAGGAGCACCAAAATTAGATAAGAGTACACCAAAAGCAGCAGTTACACAGATTAGAGAACCTAAGCAAATACTTAA
+CAACAATAGCCACATAGCGATTGTGAACAATTTAGAAAATTTGGGTGACTTCACATAATTAATGCCGGCATCCAAACATA
+ATTTAGCAACACTCTTAACACTATTTTTAGCAATAGTTGTAGGTAGTGAAGCTCTAATTCTAGAATTGGTACTTTTAGTA
+--------------------------------------------------------------------------------
+----------------------------------------------------------------------AAAGTACACA
+ATTGGAACAATAATGTAAACACATAAGGCATATAATTGTTAAACACACGTTGTGCTAATCTCTTAGCGCAATTTGATGTT
+GTAATTGCTGCTTGTCCTAAGAATGGTTTGACATAAGCCAAAATTTTACTCCAAGGAACACTATTAATTGCAGCAATACC
+ATGAGTGGCAATTGTTTTTAAACCTAAGGCTAGTGAAAGCTCATTAGGTTTCTTAATGGTAATGCTTGTGTTTTCCACAT
+AAGCAGCCATAAGATCCTCATGACCTAACTCTTGTGTTACTTTAACACCTTCATCTGATGGTTTAAGTATGACATTGCCT
+ACAACTTCGGTAGTTTTCACGTCACACTCTATGACTTCCTTCTGTATGGTAGGATTTTCCACTACTTCTTCAGAGGTGGG
+TTGTTGACTTTCACAAGCAAGATTGTCCATTCCTTGTGTGTCTTCTACTGCCAGAACTTCAAATGAATTTGAAGTATCTA
+CTGGCTTTGTACTCCAAAGACAACGTAAACACCAAGTGTTTGGTTTGAACGTTGTCTTGGTTGTAGCCTGGTTAATGTGC
+CAAACAATTGGCTTATGCAGTAATTTAGCACCTTTCTTGAAACTCGCTGAATAGTGTCTATAGTCAATAGCCACTACATC
+GCCATTCAAGTCTGGGAAGAATGTGACAGATAGCTCTCGTGAAGCTGGCTTTGTGAAGCCTGTCATTTGATTTAAATCAT
+CAGCAAATTTTGTGTTAGAACATGTGAGTTTGAAATTATCAAAACTCGCATTTGGTAATGGTTGAGTTGGTACAAGGTCT
+ATAGGCTGCTCTGTATAGTAAGCATTATCCTTTTTATAATACCCATCCAATTTTGGTTCAATCTCTGTGTAAGTAACTCC
+ATCGAGTTTATACGACACAGGCTTGATGGTTGTAGTGTAAGATGTTTCCTTGTAGAAAACATCAGTCACTGGTCCTTTGT
+ACTCTGACATCTTTGTAAGGTGAGCTCCGTCAATACGATAGAGGGTCTCCTTAGCAGTTATATGAGTGTAATGACCACAC
+TGATAGTTACCAGTGTACTC
+> 2:7141-11410 + unknown.fa # 2
+GAACATCAGCACCTGAGTTGCTAAAGTCATTTAGAGCCTTTGCTAAGTGGCAGCAAGCTGCTTCACGATAGCTGGTAGTA
+TCTAAGGCTCCACTGAAATACTTGTACTTGTTATATAGAGCAAGATACCTGTTATACTGTGTAAGTGGCAACAGTGTCTC
+GCTACGCAATTTTAGGTACATTTCCTTGTTGAGCAAAAAGGTACACAAAGCAGCCTCCTCGAAGGTACTAAATGTAACTC
+CATTAAACATGACTCTTTTCCTAAGATAGTTGTTAAAGAACCAATGGCAGTGCTTCAGAGAAATACAGAATACATAGATT
+GCTGTTATCCAAAAAGGCACAATAGGAGAAAACATGGCAAACCATTGAAGGTGAGCCAAGAATGAAACATCATTGGTGAA
+ATAGAATGTCAAGTACAAGTAAAAGACTGAGTAGACTCCCGGCAGAAAGCTGTAAGCTGGTACCAGACAGAGTATAGTGA
+AAGACATCAAAAACAAAAGTGCATTAGCAGCAACAACATGGTTGTACTCACCAAAAACACGTCTGAATTTCATAAAGTAG
+TAGGCAGCACAAGTCACCAATATGGCAATAATACCACCAGCCACTACTGAAGCAGACACATCTAAAGCACCCACAGGTTG
+CACAAGAGGAGTAAAGATGTTAGCTATGAGATTCATCGCATCAACACCACAGAAAACTCCTGATAGAGCTCTGTAATGCT
+CATTATTAAGAACCCATCTACCACTGGTAGATAGGCAAATACCTACTTCTGACCTTTCGCATGTACCATGTCTACAGTAC
+TCAGCATCAAAAGTTGTTACTACTCTAACAGAACCCTCCAGGTAAGTGTTAGGAAACTGTATGATGGAACCATCCATAAG
+CACATAACGAGTGTCTGGACGAAGCTCACTATAAGAAATAGAACCCTCTAGCAAATTAGTGTCATAACAATATGGCACAG
+GTTTGCCCATAGCATCCTTAAAAATTGTACACTCAGCAGCAAGAACGCAAGCAGAGGTAGCAAAATCACTATACTCAATG
+AGTTTGGAAGGTGTGTAGCAAATGTTGCCAACAGCACTAAAAACACGAGGTAGAAAATGCAAGAAGTCACCATTGATTGC
+TCTCAGCACAGTACCCGGTAAGCCAGGCACTATGAAACCAATCTCTCTTGTAATGATAGCAGCTACTACAGGGCAGCTTT
+TGTCATTTTTGTATGAACCACCACGCTGGCTAAACCATGCGTCAAAACCAGCATGTTTATTTGCAAAACAATCATCAGTA
+GAAATGATGTCACGAGTGACACCATCCTGAATGGCTTTGTAACCAATGATTTCATTTGTGTAACCATCATGGATTGACAA
+TGTATGTACTGGCATAACGATATAACAAACCAATGCAGCAAGAACGCACAATAATGTGGCCTTAAGCATAAGTTTAAAAC
+AAGTACTAACAATCTTACCACCCTTGAGTGAGATTTTAGTAGTTATGACATTGACAACCTGTCTAGTTGTAGCACAAGTT
+AGTCTAAAAGGTATGTTGTTCTTCTTGGCAGCACTACGAATTTGTTTACGCAGCTGTTCAGATAAAGACATGTAGTCTTT
+TACATTCCAGATGAGTGAAACATTGTGACTTTTTGCTACTTGGGCATTGATATGCCTTGCATTACAGTCAATACATGCGC
+CAAGATCTCTGGGCGTCATGTTTTCAACCTTATTATAGGTGAGCATGAAATTGTTACAACTGTCACCTGTCACTTCTAAG
+TCAGAGTGATGTGAAAGTTTGAGACATTCAATAACATCCTTTGTGTCAACATCGGTATCAACAACACCTTGTCGGGCAGC
+TGACACGAATGTAGAAAGGACACCATCTAAAGCTACACCCTTTGCTAACTCGCTGTGAGCTGTAGCAACAAGTGCCTTAA
+GTTTTTCCATAGGAACACTAAAAGTTGCTGAAAAGGTGTCGACATAAGCATCAAACATCTTAACGGAAACTTCAGTACTA
+TCTCCAACGTCTGATACAAGAGCTTGGTCAAGCAACAGAATAGGTTGGCACATCAGCTGACTGTAGTACACAGAAGCAGA
+CTTAGAAGCAGACTCGTCGCATTTGGACTTGCCATCAAAAACTATGACATTAATAGGCAGTGAACCTTTAGTGTTGTTAG
+CTCTCAAATTGTCTAAATTGACAAAATGGGAGAGCGGATGTCTCTCATAGGTCTTTTGACCAGCCTTGTCAAAGTAGAGG
+TGAAGCGCGCCATTTTTCACAGCAACACTATCAACAATATACGATGACTGGTCAGTAGGGTTGATTGGTCTTTTAAACTG
+GAGTGACAAATCACGAGCAACTTCATCACTAATGAATGTACTACCAGTGCAAAATGTGTCACAATTGAGACAATTCCAAT
+TGTGAGTCTTGCAGAAGCCACGGCCTCCATTTGCATAGACATAGAAAGATCTCTTCATGCCATTAACAATAGTTGTACAC
+TCAACGCGTGTGGCACGATTGCGCTTATAGCACATCATGCAAGTCGAAGAGGTGCAACCATCCATGATATGAACATAGCT
+CTTCCATATGTAGTAGAAAGAAGCAAAGAAGATGTACATCCTAACCATTGCAGAAACGGGTGCCATTTGTACAATACTAA
+TGATAAACCACATGAGCCAAGAATTGCTGATGAAATGACTAGCAAAATAGCCAAAGAACACCTGCATTATAGCTGAAAGA
+CCTAATAAATAAAAGAATTTTGTGAACAACATATATGCCAAAACCCACTCAGCGGCCAGACCTAAAATTGTCAAGTCTAG
+CTTGTACGATGAAATCGTCACCTGAATGGTTTCAAGAGCTGGATAAGAATCAAGGGAGTCTAATCCACTTAAACAAATGC
+TGCAAGGAAAAGAACCTTCACAGAAATCCATAGTAGTAACGTTAGACGAATTAAGATACAATTCTCTAACGCCATTACAA
+TAAGAAGGAGCACCAAAATTAGATAAGAGTACACCAAAAGCAGCAGTTACACAGATTAGAGAACCTAAGCAAATACTTAA
+CAACAATAGC----------------------------------------------------------------------
+--------------------------------------------------------------------------------
+CACATAGCGATTGTGAACAATTTAGAAAATTTGGGTGACTTCACATAATTAATGCCGGCATCCAAACATAATTTAGCAAC
+ACTCTTAACACTATTTTTAGCAATAGTTGTAGGTAGTGAAGCTCTAATTCTAGAATTGGTACTTTTAGTAAAAGTACACA
+ATTGGAACAATAATGTAAACACATAAGGCATATAATTGTTAAACACACGTTGTGCTAATCTCTTAGCGCAATTTGATGTT
+GTAATTGCTGCTTGTCCTAAGAATGGTTTGACATAAGCCAAAATTTTACTCCAAGGAACACTATTAATTGCAGCAATACC
+ATGAGTGGCAATTGTTTTTAAACCTAAGGCTAGTGAAAGCTCATTAGGTTTCTTAATGGTAATGCTTGTGTTTTCCACAT
+AAGCAGCCATAAGATCCTCATGACCTAACTCTTGTGTTACTTTAACACCTTCATCTGATGGTTTAAGTATGACATTGCCT
+ACAACTTCGGTAGTTTTCACGTCACACTCTATGACTTCCTTCTGTATGGTAGGATTTTCCACTACTTCTTCAGAGGTGGG
+TTGTTGACTTTCACAAGCAAGATTGTCCATTCCTTGTGTGTCTTCTACTGCCAGAACTTCAAATGAATTTGAAGTATCTA
+CTGGCTTTGTACTCCAAAGACAACGTAAACACCAAGTGTTTGGTTTGAACGTTGTCTTGGTTGTAGCCTGGTTAATGTGC
+CAAACAATTGGCTTATGCAGTAATTTAGCACCTTTCTTGAAACTCGCTGAATAGTGTCTATAGTCAATAGCCACTACATC
+GCCATTCAAGTCTGGGAAGAATGTGACAGATAGCTCTCGTGAAGCTGGCTTTGTGAAGCCTGTCATTTGATTTAAATCAT
+CAGCAAATTTTGTGTTAGAACATGTGAGTTTGAAATTATCAAAACTCGCATTTGGTAATGGTTGAGTTGGTACAAGGTCT
+ATAGGCTGCTCTGTATAGTAAGCATTATCCTTTTTATAATACCCATCCAATTTTGGTTCAATCTCTGTGTAAGTAACTCC
+ATCGAGTTTATACGACACAGGCTTGATGGTTGTAGTGTAAGATGTTTCCTTGTAGAAAACATCAGTCACTGGTCCTTTGT
+ACTCTGACATCTTTGTAAGGTGAGCTCCGTCAATACGATAGAGGGTCTCCTTAGCAGTTATATGAGTGTAATGACCACAC
+TGATAGTTACCAGTGTACTC
+=
+> 1:9941-14910 + unknown.fa # 1
+TCTACCAACCACCACAGACATCAATCACTTCTGCTGTTCTGCAGAGTGGTTTTAGGAAAATGGCATTCCCGTCAGGCAAA
+GTTGAAGGGTGCATGGTACAAGTAACCTGTGGAACTACAACTCTTAATGGATTGTGGTTGGATGACACAGTATACTGTCC
+AAGACATGTCATTTGCACAGCAGAAGACATGCTTAATCCTAACTATGAAGATCTGCTCATTCGCAAATCCAACCATAGCT
+TTCTTGTTCAGGCTGGCAATGTTCAACTTCGTGTTATTGGCCATTCTATGCAAAATTGTCTGCTTAGGCTTAAAGTTGAT
+ACTTCTAACCCTAAGACACCCAAGTATAAATTTGTCCGTATCCAACCTGGTCAAACATTTTCAGTTCTAGCATGCTACAA
+TGGTTCACCATCTGGTGTTTATCAGTGTGCCATGAGACCTAATCATACCATTAAAGGTTCTTTCCTTAATGGATCATGTG
+GTAGTGTTGGTTTTAACATTGATTATGATTGCGTGTCTTTCTGCTATATGCATCATATGGAGCTTCCAACAGGAGTACAC
+GCTGGTACTGACTTAGAAGGTAAATTCTATGGTCCATTTGTTGACAGACAAACTGCACAGGCTGCAGGTACAGACACAAC
+CATAACATTAAATGTTTTGGCATGGCTGTATGCTGCTGTTATCAATGGTGATAGGTGGTTTCTTAATAGATTCACCACTA
+CTTTGAATGACTTTAACCTTGTGGCAATGAAGTACAACTATGAACCTTTGACACAAGATCATGTTGACATATTGGGACCT
+CTTTCTGCTCAAACAGGAATTGCCGTCTTAGATATGTGTGCTGCTTTGAAAGAGCTGCTGCAGAATGGTATGAATGGTCG
+TACTATCCTTGGTAGCACTATTTTAGAAGATGAGTTTACACCATTTGATGTTGTTAGACAATGCTCTGGTGTTACCTTCC
+AAGGTAAGTTCAAGAAAATTGTTAAGGGCACTCATCATTGGATGCTTTTAACTTTCTTGACATCACTATTGATTCTTGTT
+CAAAGTACACAGTGGTCACTGTTTTTCTTTGTTTACGAGAATGCTTTCTTGCCATTTACTCTTGGTATTATGGCAATTGC
+TGCATGTGCTATGCTGCTTGTTAAGCATAAGCACGCATTCTTGTGCTTGTTTCTGTTACCTTCTCTTGCAACAGTTGCTT
+ACTTTAATATGGTCTACATGCCTGCTAGCTGGGTGATGCGTATCATGACATGGCTTGAATTGGCTGACACTAGCTTGTCT
+GGTTATAGGCTTAAGGATTGTGTTATGTATGCTTCAGCTTTAGTTTTGCTTATTCTCATGACAGCTCGCACTGTTTATGA
+TGATGCTGCTAGACGTGTTTGGACACTGATGAATGTCATTACACTTGTTTACAAAGTCTACTATGGTAATGCTTTAGATC
+AAGCTATTTCCATGTGGGCCTTAGTTATTTCTGTAACCTCTAACTATTCTGGTGTCGTTACGACTATCATGTTTTTAGCT
+AGAGCTATAGTGTTTGTGTGTGTTGAGTATTACCCATTGTTATTTATTACTGGCAACACCTTACAGTGTATCATGCTTGT
+TTATTGTTTCTTAGGCTATTGTTGCTGCTGCTACTTTGGCCTTTTCTGTTTACTCAACCGTTACTTCAGGCTTACTCTTG
+GTGTTTATGACTACTTGGTCTCTACACAAGAATTTAGGTATATGAACTCCCAGGGGCTTTTGCCTCCTAAGAGTAGTATT
+GATGCTTTCAAGCTTAACATTAAGTTGTTGGGTATTGGAGGTAAACCATGTATCAAGGTTGCTACTGTACAGTCTAAAAT
+GTCTGACGTAAAGTGCACATCTGTGGTACTGCTCTCGGTTCTTCAACAACTTAGAGTAGAGTCATCTTCTAAATTGTGGG
+CACAATGTGTACAACTCCACAATGATATTCTTCTTGCAAAAGACACAACTGAAGCTTTCGAGAAGATGGTTTCTCTTTTG
+TCTGTTTTGCTATCCATGCAGGGTGCTGTAGACATTAATAGGTTGTGCGAGGAAATGCTCGATAACCGTGCTACTCTTCA
+GGCTATTGCTTCAGAATTTAGTTCTTTACCATCATATGCCGCTTATGCCACTGCCCAGGAGGCCTATGAGCAGGCTGTAG
+CTAATGGTGATTCTGAAGTCGTTCTCAAAAAGTTAAAGAAATCTTTGAATGTGGCTAAATCTGAGTTTGACCGTGATGCT
+GCCATGCAACGCAAGTTGGAAAAGATGGCAGATCAGGCTATGACCCAAATGTACAAACAGGCAAGATCTGAGGACAAGAG
+GGCAAAAGTAACTAGTGCTATGCAAACAATGCTCTTCACTATGCTTAGGAAGCTTGATAATGATGCACTTAACAACATTA
+TCAACAATGCGCGTGATGGTTGTGTTCCACTCAACATCATACCATTGACTACAGCAGCCAAACTCATGGTTGTTGTCCCT
+GATTATGGTACCTACAAGAACACTTGTGATGGTAACACCTTTACATATGCATCTGCACTCTGGGAAATCCAGCAAGTTGT
+TGATGCGGATAGCAAGATTGTTCAACTTAGTGAAATTAACATGGACAATTCACCAAATTTGGCTTGGCCTCTTATTGTTA
+CAGCTCTAAGAGCCAACTCAGCTGTTAAACTACAGAATAATGAACTGAGTCCAGTAGCACTACGACAGATGTCCTGTGCG
+GCTGGTACCACACAAACAGCTTGTACTGATGACAATGCACTTGCCTACTATAACAATTCGAAGGGAGGTAGGTTTGTGCT
+GGCATTACTATCAGACCACCAAGATCTCAAATGGGCTAGATTCCCTAAGAGTGATGGTACAGGTACAATTTACACAGAAC
+TGGAACCACCTTGTAGGTTTGTTACAGACACACCAAAAGGGCCTAAAGTGAAATACTTGTACTTCATCAAAGGCTTAAAC
+AACCTAAATAGAGGTATGGTGCTGGGCAGTTTAGCTGCTACAGTACGTCTTCAGGCTGGAAATGCTACAGAAGTACCTGC
+CAATTCAACTGTGCTTTCCTTCTGTGCTTTTGCAGTAGACCCTGCTAAAGCATATAAGGATTACCTAGCAAGTGGAGGAC
+AACCAATCACCAACTGTGTGAAGATGTTGTGTACACACACTGGTACAGGACAGGCAATTACTGTAACACCAGAAGCTAAC
+ATGGACCAAGAGTCCTTTGGTGGTGCTTCATGTTGTCTGTATTGTAGATGCCACATTGACCATCCAAATCCTAAAGGATT
+CTGTGACTTGAAAGGTAAGTACGTCCAAATACCTACCACTTGTGCTAATGACCCAGTGGGTTTTACACTTAGAAACACAG
+TCTGTACCGTCTGCGGAATGTGGAAAGGTTATGGCTGTAGTTGTGACCAACTCCGCGAACCCTTGATGCAGTCTGCGGAT
+GCATCAACGTTTTTAAACGGGTTTGCGGTGTAAGTGCAGCCCGTCTTACACCGTGCGGCACAGGCACTAGTACTGATGTC
+GTCTACAGGGCTTTTGATATTTACAACGAAAAAGTTGCTGGTTTTGCAAAGTTCCTAAAAACTAATTGCTGTCGCTTCCA
+GGAGAAGGATGAGGAAGGCAATTTATTAGACTCTTACTTTGTAGTTAAGAGGCATACTATGTCTAACTACCAACATGAAG
+AGACTATTTATAACTTGGTTAAAGATTGTCCAGCGGTTGCTGTCCATGACTTTTTCAAGTTTAGAGTAGATGGTGACATG
+GTACCACATATATCACGTCAGCGTCTAACTAAATACACAATGGCTGATTTAGTCTATGCTCTACGTCATTTTGATGAGGG
+TAATTGTGATACATTAAAAGAAATACTCGTCACATACAATTGCTGTGATGATGATTATTTCAATAAGAAGGATTGGTATG
+ACTTCGTAGAGAATCCTGACATCTTACGCGTATATGCTAACTTAGGTGAGCGTGTACGCCAATCATTATTAAAGACTGTA
+CAATTCTGCGATGCTATGCGTGATGCAGGCATTGTAGGCGTACTGACATTAGATAATCAGGATCTTAATGGGAACTGGTA
+CGATTTCGGTGATTTCGTACAAGTAGCACCAGGCTGCGGAGTTCCTATTGTGGATTCATATTACTCATTGCTGATGCCCA
+TCCTCACTTTGACTAGGGCATTGGCTGCTGAGTCCCATATGGATGCTGATCTCGCAAAACCACTTATTAAGTGGGATTTG
+CTGAAATATGATTTTACGGAAGAGAGACTTTGTCTCTTCGACCGTTATTTTAAATATTGGGACCAGACATACCATCCCAA
+TTGTATTAACTGTTTGGATGATAGGTGTATCCTTCATTGTGCAAACTTTAATGTGTTATTTTCTACTGTGTTTCCACCTA
+CAAGTTTTGGACCACTAGTAAGAAAAATATTTGTAGATGGTGTTCCTTTTGTTGTTTCAACTGGATACCATTTTCGTGAG
+TTAGGAGTCGTACATAATCAGGATGTAAACTTACATAGCTCGCGTCTCAGTTTCAAGGAACTTTTAGTGTATGCTGCTGA
+TCCAGCTATGCATGCAGCTTCTGGCAATTTATTGCTAGATAAACGCACTACATGCTTTTCAGTAGCTGCACTAACAAACA
+ATGTTGCTTTTCAAACTGTCAAACCCGGTAATTTTAATAAAGACTTTTATGACTTTGCTGTGTCTAAAGGTTTCTTTAAG
+GAAGGAAGTTCTGTTGAACTAAAACACTTCTTCTTTGCTCAGGATGGCAACGCTGCTATCAGTGATTATGACTATTATCG
+TTATAATCTGCCAACAATGTGTGATATCAGACAACTCCTATTCGTAGTTGAAGTTGTTGATAAATACTTTGATTGTTACG
+ATGGTGGCTGTATTAATGCCAACCAAGTAATCGTTAACAATCTGGATAAATCAGCTGGTTTCCCATTTAATAAATGGGGT
+AAGGCTAGAC
+=
+> 2:5671-7140 + unknown.fa # 2
+GAGTACACTGGTAACTATCAGTGTGGTCATTACACTCATATAACTGCTAAGGAGACCCTCTATCGTATTGACGGAGCTCA
+CCTTACAAAGATGTCAGAGTACAAAGGACCAGTGACTGATGTTTTCTACAAGGAAACATCTTACACTACAACCATCAAGC
+CTGTGTCGTATAAACTCGATGGAGTTACTTACACAGAGATTGAACCAAAATTGGATGGGTATTATAAAAAGGATAATGCT
+TACTATACAGAGCAGCCTATAGACCTTGTACCAACTCAACCATTACCAAATGCGAGTTTTGATAATTTCAAACTCACATG
+TTCTAACACAAAATTTGCTGATGATTTAAATCAAATGACAGGCTTCACAAAGCCAGCTTCACGAGAGCTATCTGTCACAT
+TCTTCCCAGACTTGAATGGCGATGTAGTGGCTATTGACTATAGACACTATTCAGCGAGTTTCAAGAAAGGTGCTAAATTA
+CTGCATAAGCCAATTGTTTGGCACATTAACCAGGCTACAACCAAGACAACGTTCAAACCAAACACTTGGTGTTTACGTTG
+TCTTTGGAGTACAAAGCCAGTAGATACTTCAAATTCATTTGAAGTTCTGGCAGTAGAAGACACACAAGGAATGGACAATC
+TTGCTTGTGAAAGTCAACAACCCACCTCTGAAGAAGTAGTGGAAAATCCTACCATACAGAAGGAAGTCATAGAGTGTGAC
+GTGAAAACTACCGAAGTTGTAGGCAATGTCATACTTAAACCATCAGATGAAGGTGTTAAAGTAACACAAGAGTTAGGTCA
+TGAGGATCTTATGGCTGCTTATGTGGAAAACACAAGCATTACCATTAAGAAACCTAATGAGCTTTCACTAGCCTTAGGTT
+TAAAAACAATTGCCACTCATGGTATTGCTGCAATTAATAGTGTTCCTTGGAGTAAAATTTTGGCTTATGTCAAACCATTC
+TTAGGACAAGCAGCAATTACAACATCAAATTGCGCTAAGAGATTAGCACAACGTGTGTTTAACAATTATATGCCTTATGT
+GTTTACATTATTGTTCCAATTGTGTACTTTTACTAAAAGTACCAATTCTAGAATTAGAGCTTCACTACCTACAACTATTG
+CTAAAAATAGTGTTAAGAGTGTTGCTAAATTATGTTTGGATGCCGGCATTAATTATGTGAAGTCACCCAAATTTTCTAAA
+TTGTTCACAATCGCTATGTGGCTATTGTTGTTAAGTATTTGCTTAGGTTCTCTAATCTGTGTAACTGCTGCTTTTGGTGT
+ACTCTTATCTAATTTTGGTGCTCCTTCTTATTGTAATGGCGTTAGAGAATTGTATCTTAATTCGTCTAACGTTACTACTA
+TGGATTTCTGTGAAGGTTCTTTTCCTTGCAGCATTTGTTTAAGTGGATTAGACTCCCTTGATTCTTATCCAGCTCTTGAA
+ACCATTCAGGTGACGATTTCATCGTACAAG
+=
+> 2:11411-12880 + unknown.fa # 2
+ATTCGCACATAAGAATGTACCTTGCTGTAATTTATACTCAGCAGGTGGTGCAGACATCATAACAAAAGAAGACTCTTGTT
+GTACTAGATATTGTGTAGCATCACGACCACACACACATGGAATGGAAACACCTGTCTTAAGATTATCATAAGATAGAGTA
+CCCATATACATCACAGCTTCTACACCCGTTAAGGTAGTAGTTTTCTGACCACAATGTTTACACACCACATTAAGAACTCG
+CTTTGCAGATTCCAAATTAGCATGCTGTAGAAGATGGGTCATAGTTTCTCTGACATCACCAAGCTCGCCAACAGTTTTAT
+TACTGTAAGCGAGTATGAGTGCACAAAAGTTAGCAGCATCACCAGCACGGGCTCTATAATAAGCCTCTTGAAGTGCTGGT
+GCATTGAATTTGACTTCAAGCTGTTGAAGTGCTAATAAAACACTAGACAAATAACAATTGTTATCAGCCCATTTAATTGA
+AGTTAAACCACCAACTTGAGGAAATTTCCATTTCTTTGTGTGGTTTAAAGCAGACATGTACCTACCAAGAAAACTCTCAT
+CAAGAGTATGGTAGTACTCGAAAGCTTCACTACGTAGTGTGTCATCACTAGGTAGTACAAAGAAAGTCTTACCCTCATGA
+TTTACATGAGGTTTAATTTTTGTAACATCAGCACCATCCAAGTATGTTGGACCAAACTGCTGTCCATATGTCATAGACAT
+ATCCACAAGCTGTGTGTGGAGATTAGTGTTGTCCACAGTTGTGAACACTTTTATAGTCTTAACCTCCCGCAGGGATAAGA
+GACTCTTTAGTTTGTCAAGTGAAAGAACCTCACCGTCAAGATGAAACTCGACGGGGCTCTCCAGAGTGTGGTACACAATT
+TTGTCACCACGCTTAAGAAATTCAACACCTAACTCTGTACGCTGTCCTGAATAGGACCAATCTCTGTAAGAGCCAGCCAA
+AGAAACTGTTTCTACAAAGTGCTCCTCAGATGTCTTTGATGACGAAGTGAGGTATCCATTATATGTAGTAACAGCATCTG
+GTGATGATACTGACACTACGGCAGGAGCTTTAAGAGAACGCATACAGCGCGCAGCCTCTTCAAGATTAAAACCATGTGTC
+ACATAACCAATTGGCATTGTGACAAGCGGCTCATTTAGAGAGTTCAGCTTCGTAATAATAGAAGCTACAGGCTCTTTACT
+AGTATAAAAGAAGAATCGGACACCATAGTCAACGATGCCCTCTTGAATTTTAATTCCTTTATACTTACGTTGGATGGTTG
+CCATTATGGCTCTAACATCCATGCATATAGGCATTAATTTTCTTGTCTCTTCAGCATGAGCAAGCATTTCTCTCAAATTC
+CAGGATACAGTTCCTAGAATCTCTTCCTTAGCATTAGGTGCTTCTGAAGGTAGTACATAAAATGCAGATTTGCATTTCTT
+AAGAGCAGTCTTAGCTTCCTCAAGTGTATA
+=
diff --git a/Tests/Mauve/simple.xmfa.backbone b/Tests/Mauve/simple.xmfa.backbone
new file mode 100644
index 0000000..ccb25d5
--- /dev/null
+++ b/Tests/Mauve/simple.xmfa.backbone
@@ -0,0 +1,7 @@
+seq0_leftend seq0_rightend seq1_leftend seq1_rightend
+1 5670 1 5670
+-6891 -9940 7141 10190
+-5671 -6740 10341 11410
+6741 6890 0 0
+0 0 5671 7140
+0 0 10191 10340
diff --git a/Tests/Mauve/simple.xmfa.bbcols b/Tests/Mauve/simple.xmfa.bbcols
new file mode 100644
index 0000000..e85f5f3
--- /dev/null
+++ b/Tests/Mauve/simple.xmfa.bbcols
@@ -0,0 +1,3 @@
+0 1 5670 0 1
+1 1 3050 0 1
+1 3351 1070 0 1
diff --git a/Tests/PAML/Alignments/longnames.fasta b/Tests/PAML/Alignments/longnames.fasta
new file mode 100644
index 0000000..3b41387
--- /dev/null
+++ b/Tests/PAML/Alignments/longnames.fasta
@@ -0,0 +1,63 @@
+>patient1_1000_326|1M|XXX|XXX|2011_11_10
+gctccagctggttatgcgattctaaggtataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatgtacacatggaattaagccagtggtaccaactcaa
+ccactgttaaatggtagcctagcaaaagagaagataataattagatctgaaaatctgaca
+agcaatcacaaaacaataatagtacagcttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggataggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcatattgtaacattagtgcagaaagatggaat
+gagactttagaatgggtaaagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaagttacaatgcatagcttt
+>patient1_1000_16|1M|XXX|XXX|2011_11_10
+gctccagctggttatgcgattctaaggtataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatgtacacatggaattaagccagtggtaccaactcaa
+ccactgttaaatggtagcctagcaaaagagaagataataattagatctgaaaatctgaca
+agcaatcacaaaacaataatagtacagcttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggataggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcatattgtaacattagtgcagaaagatggaat
+gagactttagaatgggtaaagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaaattacaatgcatagcttt
+>patient1_1000_325|1M|XXX|XXX|2011_11_10
+gctccagctggttatgcgattctaaggtataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatatacacatggaattaagccagtggtaccaactcaa
+ccactgttaaatggtagcctagcaaaagagaagataataattagatctgaaaatctgaca
+agcaatcacaaaacaataatagtacagcttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggataggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcatattgtaacattagtgcagaaagatggaat
+gagactttagaatgggtaaagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaagttacaatgcatagcttt
+>patient1_1000_105|1M|XXX|XXX|2011_11_10
+gctccagctggttatgcgattctaaggtataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatgtacatatggaattaagccagtagtatcaactcaa
+ccactgttaagtggtagcctagcagaagaggagataataattagatctgaaaatctgaca
+agcaatcacaaaacaataatagtacagcttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggataggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcatattgtaacattagtgcagaaagatggaat
+gagactttagaatgggtagagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaagttacaatgcatagcttt
+>patient1_1000_20|1M|XXX|XXX|2011_11_10
+gctccagctggttatgcgattctaagggataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatgtacacatggaattaagccagtggtatcaactcaa
+ccactgttaaatggtagcctagcagaagaggagataataattagatctgaaaatctgaca
+agcaatcacaaaacaataatagtacagcttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggataggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcatattgtaacattagtgcagaaagatggaat
+gagattttagaatgggtaaagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaagttacaatgcataacttt
+>patient1_1500_22|6M|XXX|XXX|2012_03_02
+gctccagctggttatgcgactctaaggtataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatgtacatatggaattaagccagtagtatcaactcaa
+ccactgttaaatggtagcctagtagaagaggaaataataattagatttgaaaatctgaca
+agcaatcacaaaacaataatagtacagcttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggataggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcacattgtaacattagtgcagaaagatggaat
+gagactttagaatgggtagagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaagttacaatgcatagcttt
+>patient1_1500_321|6M|XXX|XXX|2012_03_02
+gctccagctggttatgcgactctaaggtataatagtaagacattcaatgggacaggacca
+tgcaacaatgtcagcacagtacaatgtacatatggaattaagccagtagtatcaactcaa
+ccactgttaaatggtagcctagcagaagaggagataataattagatttgaaaatctgaca
+agcaatcacaaagcaataatagtacaacttaatggatccatagaaattgtgtgcataaga
+cccggcaataacacaagaaaaagtgtaaggagaggaacaggacaaacattctatgcaaca
+ggtgacataataggagacataagaaaagcatattgtaacattagtgcagaaagatggaat
+gagactttagaatgggtagagaaaaaattggtagaacactttcctaataagacaataaga
+tatcaaccatcttcgggaagagacctagaagttacaatgcatagcttt
diff --git a/Tests/PAML/Control_files/yn00/yn00.ctl b/Tests/PAML/Control_files/yn00/yn00.ctl
index fddaff9..cdff25e 100755
--- a/Tests/PAML/Control_files/yn00/yn00.ctl
+++ b/Tests/PAML/Control_files/yn00/yn00.ctl
@@ -1,4 +1,4 @@
- seqfile = PAML/alignment.phylip * sequence data file name
+ seqfile = Alignments/alignment.phylip * sequence data file name
outfile = temp.out * main result file
verbose = 1 * 1: detailed output (list sequences), 0: concise output
diff --git a/Tests/PAML/Control_files/yn00/yn00.ctl b/Tests/PAML/Control_files/yn00/yn00_long.ctl
old mode 100755
new mode 100644
similarity index 80%
copy from Tests/PAML/Control_files/yn00/yn00.ctl
copy to Tests/PAML/Control_files/yn00/yn00_long.ctl
index fddaff9..50b5563
--- a/Tests/PAML/Control_files/yn00/yn00.ctl
+++ b/Tests/PAML/Control_files/yn00/yn00_long.ctl
@@ -1,16 +1,18 @@
- seqfile = PAML/alignment.phylip * sequence data file name
- outfile = temp.out * main result file
- verbose = 1 * 1: detailed output (list sequences), 0: concise output
-
- icode = 0 * 0:universal code; 1:mammalian mt; 2-10:see below
-
- weighting = 0 * weighting pathways between codons (0/1)?
- commonf3x4 = 0 * use one set of codon freqs for all pairs (0/1)?
- ndata = 1
-
-
-* Genetic codes: 0:universal, 1:mammalian mt., 2:yeast mt., 3:mold mt.,
-* 4: invertebrate mt., 5: ciliate nuclear, 6: echinoderm mt.,
-* 7: euplotid mt., 8: alternative yeast nu. 9: ascidian mt.,
-* 10: blepharisma nu.
-* These codes correspond to transl_table 1 to 11 of GENEBANK.
+* YN00 control file to test performance when the taxon names are particularly long.
+
+ seqfile = Alignments/longnames.fasta * sequence data file name
+ outfile = temp.out * main result file
+ verbose = 1 * 1: detailed output (list sequences), 0: concise output
+
+ icode = 0 * 0:universal code; 1:mammalian mt; 2-10:see below
+
+ weighting = 0 * weighting pathways between codons (0/1)?
+ commonf3x4 = 0 * use one set of codon freqs for all pairs (0/1)?
+ ndata = 1
+
+
+* Genetic codes: 0:universal, 1:mammalian mt., 2:yeast mt., 3:mold mt.,
+* 4: invertebrate mt., 5: ciliate nuclear, 6: echinoderm mt.,
+* 7: euplotid mt., 8: alternative yeast nu. 9: ascidian mt.,
+* 10: blepharisma nu.
+* These codes correspond to transl_table 1 to 11 of GENEBANK.
diff --git a/Tests/PAML/Results/yn00/yn00-4_8.out b/Tests/PAML/Results/yn00/yn00-4_8.out
new file mode 100644
index 0000000..7751b40
--- /dev/null
+++ b/Tests/PAML/Results/yn00/yn00-4_8.out
@@ -0,0 +1,262 @@
+ 5 222
+
+Homo_sapie ATG CCA GTA ATC AAT ATT GAG GAC CTG ACA GAA AAG GAC AAA TTG AAG ATG GAA GTT GAC CAG CTC AAG AAA GAA GTG ACA CTG GAA AGA ATG CTA GTT TCC AAA TGT TGT GAA GAA GTA AGA GAT TAC GTT GAA GAA CGA TCT GGC GAG GAT CCA CTG GTA AAG GGC ATC CCA GAG GAC AAA AAT CCC TTC AAG GAG CTC AAA GGA GGC TGT GTG ATT TCA
+Pan_troglo ATG CCA GTA ATC AAT ATT GAG GAC CTG ACA GAA AAG GAC AAA TTG AAG ATG GAA GTT GAC CAG CTC AAG AAA GAA GTG ACA CTG GAA AGA ATG CTA GTT TCC AAA TGC TGT GAA GAA GTA AGA GAT TAC GTT GAA GAA CGA TCT GGC GAG GAT CCA CTG GTA AAG GGC ATC CCA GAG GAC AAA AAT CCC TTC AAG GAG CTC AAA GGA GGC TGT GTG ATT TCA
+Gorilla_go ATG CCA GTA ATC AAT ATT GAG GAC CTG ACA GAA AAG GAC AAA TTG AAG ATG GAA GTT GAC CAG CTC AAG AAA GAA GTG ACA CTG GAA AGA ATG CTA GTT TCC AAA TGT TGT GAA GAA GTA AGA GAT TAT GTT GAA GAA CGA TCT GGC GAG GAT CCA CTG GTA AAG GGC ATC CCA GAG GAC AAA AAT CCC TTC AAG GAG CTC AAA GGA GGC TGT GTG ATT TCA
+Pongo_pygm ATG CCA GTA ATC AAT ATT GAG GAC CTG ACA GAA AAG GAC AAA TTG AAG ATG GAA GTT GAC CAG CTC AAG AAA GAA GTG ACA CTG GAA AGA ATG CTA GTT TCC AAA TGT TGT GAA GAA GTA AGA GAT TAC GTT GAA GAA CGA TCT GGC GAG GAT CCA CTG GTA AAG GGC ATC CCA GAG GAC AAA AAT CCC TTC AAG GAG CTC AAA GGA GGC TGT GTG ATT TCA
+Macaca_mul ATG CCA GTA ATC AAT ATT GAG GAC CTG ACA GAA AAG GAC AAA TTG AAG ATG GAA GTT GAC CAG CTC AAG AAA GAA GTG ACA CTG GAA AGA ATG CTA GTA TCC AAA TGT TGT GAA GAA GTA AGA GAT TAC GTC GAA GAA CGA TCT GGC GAG GAT CCA CTG GTA AAG GGC ATC CCA GAG GAC AAA AAT CCC TTC AAG GAG CTC AAA GGA GGC TGT GTG ATT TCA
+
+
+
+Printing out site pattern counts
+
+
+ 5 102 P
+
+Homo_sapie AAA AAG AAT ACA AGA ATC ATG ATT CAG CCA CCC CGA CTA CTC CTG GAA GAC GAG GAT GGA GGC GTA GTG GTT GTT GTT TAC TCA TCC TCT TGT TGT TTC TTG
+Pan_troglo ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..C ... ... ...
+Gorilla_go ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..T ... ... ... ... ... ... ...
+Pongo_pygm ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ...
+Macaca_mul ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..A ..C ... ... ... ... ... ... ... ... ...
+
+ 5 5 2 2 2 2 3 2 1 3 1 1 1 2 3
+ 8 4 4 2 1 3 3 2 1 1 1 1 1 1 1
+ 1 2 1 1
+
+YN00 Alignments/alignment.phylip
+
+ns = 5 ls = 74
+
+Codon position x base (3x4) table for each sequence.
+
+Homo_sapie
+position 1: T:0.12162 C:0.16216 A:0.31081 G:0.40541
+position 2: T:0.31081 C:0.12162 A:0.43243 G:0.13514
+position 3: T:0.17568 C:0.20270 A:0.36486 G:0.25676
+
+Pan_troglo
+position 1: T:0.12162 C:0.16216 A:0.31081 G:0.40541
+position 2: T:0.31081 C:0.12162 A:0.43243 G:0.13514
+position 3: T:0.16216 C:0.21622 A:0.36486 G:0.25676
+
+Gorilla_go
+position 1: T:0.12162 C:0.16216 A:0.31081 G:0.40541
+position 2: T:0.31081 C:0.12162 A:0.43243 G:0.13514
+position 3: T:0.18919 C:0.18919 A:0.36486 G:0.25676
+
+Pongo_pygm
+position 1: T:0.12162 C:0.16216 A:0.31081 G:0.40541
+position 2: T:0.31081 C:0.12162 A:0.43243 G:0.13514
+position 3: T:0.17568 C:0.20270 A:0.36486 G:0.25676
+
+Macaca_mul
+position 1: T:0.12162 C:0.16216 A:0.31081 G:0.40541
+position 2: T:0.31081 C:0.12162 A:0.43243 G:0.13514
+position 3: T:0.14865 C:0.21622 A:0.37838 G:0.25676
+
+Average
+position 1: T:0.12162 C:0.16216 A:0.31081 G:0.40541
+position 2: T:0.31081 C:0.12162 A:0.43243 G:0.13514
+position 3: T:0.17027 C:0.20541 A:0.36757 G:0.25676
+
+Codon usage for each species
+----------------------------------------------------------------------------------------------------------------------
+Phe TTT 0 0 0 0 0 | Ser TCT 1 1 1 1 1 | Tyr TAT 0 0 1 0 0 | Cys TGT 3 2 3 3 3
+ TTC 1 1 1 1 1 | TCC 1 1 1 1 1 | TAC 1 1 0 1 1 | TGC 0 1 0 0 0
+Leu TTA 0 0 0 0 0 | TCA 1 1 1 1 1 | *** TAA 0 0 0 0 0 | *** TGA 0 0 0 0 0
+ TTG 1 1 1 1 1 | TCG 0 0 0 0 0 | TAG 0 0 0 0 0 | Trp TGG 0 0 0 0 0
+----------------------------------------------------------------------------------------------------------------------
+Leu CTT 0 0 0 0 0 | Pro CCT 0 0 0 0 0 | His CAT 0 0 0 0 0 | Arg CGT 0 0 0 0 0
+ CTC 2 2 2 2 2 | CCC 1 1 1 1 1 | CAC 0 0 0 0 0 | CGC 0 0 0 0 0
+ CTA 1 1 1 1 1 | CCA 3 3 3 3 3 | Gln CAA 0 0 0 0 0 | CGA 1 1 1 1 1
+ CTG 3 3 3 3 3 | CCG 0 0 0 0 0 | CAG 1 1 1 1 1 | CGG 0 0 0 0 0
+----------------------------------------------------------------------------------------------------------------------
+Ile ATT 2 2 2 2 2 | Thr ACT 0 0 0 0 0 | Asn AAT 2 2 2 2 2 | Ser AGT 0 0 0 0 0
+ ATC 2 2 2 2 2 | ACC 0 0 0 0 0 | AAC 0 0 0 0 0 | AGC 0 0 0 0 0
+ ATA 0 0 0 0 0 | ACA 2 2 2 2 2 | Lys AAA 5 5 5 5 5 | Arg AGA 2 2 2 2 2
+Met ATG 3 3 3 3 3 | ACG 0 0 0 0 0 | AAG 5 5 5 5 5 | AGG 0 0 0 0 0
+----------------------------------------------------------------------------------------------------------------------
+Val GTT 3 3 3 3 1 | Ala GCT 0 0 0 0 0 | Asp GAT 2 2 2 2 2 | Gly GGT 0 0 0 0 0
+ GTC 0 0 0 0 1 | GCC 0 0 0 0 0 | GAC 4 4 4 4 4 | GGC 3 3 3 3 3
+ GTA 3 3 3 3 4 | GCA 0 0 0 0 0 | Glu GAA 8 8 8 8 8 | GGA 1 1 1 1 1
+ GTG 2 2 2 2 2 | GCG 0 0 0 0 0 | GAG 4 4 4 4 4 | GGG 0 0 0 0 0
+----------------------------------------------------------------------------------------------------------------------
+
+
+Sums
+------------------------------------------------------
+Phe TTT 0 | Ser TCT 5 | Tyr TAT 1 | Cys TGT 14
+ TTC 5 | TCC 5 | TAC 4 | TGC 1
+Leu TTA 0 | TCA 5 | *** TAA 0 | *** TGA 0
+ TTG 5 | TCG 0 | TAG 0 | Trp TGG 0
+------------------------------------------------------
+Leu CTT 0 | Pro CCT 0 | His CAT 0 | Arg CGT 0
+ CTC 10 | CCC 5 | CAC 0 | CGC 0
+ CTA 5 | CCA 15 | Gln CAA 0 | CGA 5
+ CTG 15 | CCG 0 | CAG 5 | CGG 0
+------------------------------------------------------
+Ile ATT 10 | Thr ACT 0 | Asn AAT 10 | Ser AGT 0
+ ATC 10 | ACC 0 | AAC 0 | AGC 0
+ ATA 0 | ACA 10 | Lys AAA 25 | Arg AGA 10
+Met ATG 15 | ACG 0 | AAG 25 | AGG 0
+------------------------------------------------------
+Val GTT 13 | Ala GCT 0 | Asp GAT 10 | Gly GGT 0
+ GTC 1 | GCC 0 | GAC 20 | GGC 15
+ GTA 16 | GCA 0 | Glu GAA 40 | GGA 5
+ GTG 10 | GCG 0 | GAG 20 | GGG 0
+------------------------------------------------------
+
+
+
+(A) Nei-Gojobori (1986) method
+
+
+
+Nei & Gojobori 1986. dN/dS (dN, dS)
+(Note: This matrix is not used in later ML. analysis.
+Use runmode = -2 for ML pairwise comparison.)
+
+Homo_sapie
+Pan_troglo -1.0000 (0.0000 0.0207)
+Gorilla_go -1.0000 (0.0000 0.0207)-1.0000 (0.0000 0.0421)
+Pongo_pygm -1.0000 (0.0000 0.0000)-1.0000 (0.0000 0.0207)-1.0000 (0.0000 0.0207)
+Macaca_mul -1.0000 (0.0000 0.0421)-1.0000 (0.0000 0.0640)-1.0000 (0.0000 0.0640)-1.0000 (0.0000 0.0421)
+
+
+(B) Yang & Nielsen (2000) method
+
+Yang Z, Nielsen R (2000) Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol. Biol. Evol. 17:32-43
+
+(equal weighting of pathways)
+
+seq. seq. S N t kappa omega dN +- SE dS +- SE
+
+ 2 1 67.3 154.7 0.0136 3.6564 0.0000 -0.0000 +- 0.0000 0.0150 +- 0.0151
+ 3 1 67.4 154.6 0.0136 3.6564 0.0000 -0.0000 +- 0.0000 0.0150 +- 0.0150
+ 3 2 67.3 154.7 0.0276 3.6564 0.0000 -0.0000 +- 0.0000 0.0303 +- 0.0215
+ 4 1 67.3 154.7 -0.0000 3.6564 99.0000 -0.0000 +- 0.0000 -0.0000 +- 0.0000
+ 4 2 67.3 154.7 0.0136 3.6564 0.0000 -0.0000 +- 0.0000 0.0150 +- 0.0151
+ 4 3 67.4 154.6 0.0136 3.6564 0.0000 -0.0000 +- 0.0000 0.0150 +- 0.0150
+ 5 1 66.8 155.2 0.0276 3.6564 0.0000 -0.0000 +- 0.0000 0.0306 +- 0.0218
+ 5 2 66.7 155.3 0.0420 3.6564 0.0000 -0.0000 +- 0.0000 0.0466 +- 0.0272
+ 5 3 67.0 155.0 0.0420 3.6564 0.0000 -0.0000 +- 0.0000 0.0464 +- 0.0271
+ 5 4 66.8 155.2 0.0276 3.6564 0.0000 -0.0000 +- 0.0000 0.0306 +- 0.0218
+
+
+(C) LWL85, LPB93 & LWLm methods
+
+Li W.-H., C.-I. Wu, Luo (1985) A new method for estimating synonymous and nonsynonymous rates of nucleotide substitutions considering the relative likelihood of nucleotide and codon changes. Mol. Biol. Evol. 2: 150-174.
+Li W-H (1993) Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J. Mol. Evol. 36:96-99
+Pamilo P, Bianchi NO (1993) Evolution of the Zfx and Zfy genes - rates and interdependence between the genes. Mol. Biol. Evol. 10:271-281
+Yang Z (2006) Computational Molecular Evolution. Oxford University Press, Oxford. Eqs. 2.12 & 2.13
+
+2 (Pan_troglo) vs. 1 (Homo_sapie)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 1.0000 0.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0000 0.0200 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0227 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0129 dN = 0.0000 w = 0.0000
+
+3 (Gorilla_go) vs. 1 (Homo_sapie)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 1.0000 0.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0000 0.0200 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0227 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0129 dN = 0.0000 w = 0.0000
+
+3 (Gorilla_go) vs. 2 (Pan_troglo)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 2.0000 0.0000 sum= 2.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0000 0.0408 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0463 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0264 dN = 0.0000 w = 0.0000
+
+4 (Pongo_pygm) vs. 1 (Homo_sapie)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 0.0000 0.0000 sum= 0.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0000 0.0000 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0000 w = -nan S = 45.0 N = 177.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0000 w = -nan
+
+4 (Pongo_pygm) vs. 2 (Pan_troglo)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 1.0000 0.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0000 0.0200 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0227 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0129 dN = 0.0000 w = 0.0000
+
+4 (Pongo_pygm) vs. 3 (Gorilla_go)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 1.0000 0.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0000 0.0200 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0227 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0129 dN = 0.0000 w = 0.0000
+
+5 (Macaca_mul) vs. 1 (Homo_sapie)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 0.0000 1.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 1.0000 sum= 1.0000
+A(i): 0.0000 0.0000 0.0381
+B(i): -0.0000 -0.0000 0.0371
+LWL85: dS = 0.0468 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = 0.0391 dN = 0.0000 w = 0.0000 S = 53.9 N = 168.1 (rho = 0.507)
+LPB93: dS = 0.0506 dN = 0.0000 w = 0.0000
+
+5 (Macaca_mul) vs. 2 (Pan_troglo)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 1.0000 1.0000 sum= 2.0000
+Nv(i): 0.0000 0.0000 1.0000 sum= 1.0000
+A(i): 0.0000 0.0200 0.0381
+B(i): -0.0000 -0.0000 0.0371
+LWL85: dS = 0.0695 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = 0.0580 dN = 0.0000 w = 0.0000 S = 53.9 N = 168.1 (rho = 0.507)
+LPB93: dS = 0.0635 dN = 0.0000 w = 0.0000
+
+5 (Macaca_mul) vs. 3 (Gorilla_go)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 1.0000 1.0000 sum= 2.0000
+Nv(i): 0.0000 0.0000 1.0000 sum= 1.0000
+A(i): 0.0000 0.0200 0.0381
+B(i): -0.0000 -0.0000 0.0371
+LWL85: dS = 0.0695 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = 0.0580 dN = 0.0000 w = 0.0000 S = 53.9 N = 168.1 (rho = 0.507)
+LPB93: dS = 0.0635 dN = 0.0000 w = 0.0000
+
+5 (Macaca_mul) vs. 4 (Pongo_pygm)
+
+L(i): 143.0 51.0 28.0 sum= 222.0
+Ns(i): 0.0000 0.0000 1.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 1.0000 sum= 1.0000
+A(i): 0.0000 0.0000 0.0381
+B(i): -0.0000 -0.0000 0.0371
+LWL85: dS = 0.0468 dN = 0.0000 w = 0.0000 S = 45.0 N = 177.0
+LWL85m: dS = 0.0391 dN = 0.0000 w = 0.0000 S = 53.9 N = 168.1 (rho = 0.507)
+LPB93: dS = 0.0506 dN = 0.0000 w = 0.0000
+
diff --git a/Tests/PAML/Results/yn00/yn00_long-4_8.out b/Tests/PAML/Results/yn00/yn00_long-4_8.out
new file mode 100644
index 0000000..83288f9
--- /dev/null
+++ b/Tests/PAML/Results/yn00/yn00_long-4_8.out
@@ -0,0 +1,434 @@
+ 7 468
+
+patient1_1000_326|1M|XXX|XXX|2 GCT CCA GCT GGT TAT GCG ATT CTA AGG TAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TGT ACA CAT GGA ATT AAG CCA GTG GTA CCA ACT CAA CCA CTG TTA AAT GGT AGC CTA GCA AAA GAG AAG ATA ATA ATT AGA TCT GAA AAT CTG ACA AGC AAT CAC AAA ACA ATA ATA GTA CAG CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG ATA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA TAT TGT AAC ATT AGT [...]
+patient1_1000_16|1M|XXX|XXX|20 GCT CCA GCT GGT TAT GCG ATT CTA AGG TAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TGT ACA CAT GGA ATT AAG CCA GTG GTA CCA ACT CAA CCA CTG TTA AAT GGT AGC CTA GCA AAA GAG AAG ATA ATA ATT AGA TCT GAA AAT CTG ACA AGC AAT CAC AAA ACA ATA ATA GTA CAG CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG ATA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA TAT TGT AAC ATT AGT [...]
+patient1_1000_325|1M|XXX|XXX|2 GCT CCA GCT GGT TAT GCG ATT CTA AGG TAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TAT ACA CAT GGA ATT AAG CCA GTG GTA CCA ACT CAA CCA CTG TTA AAT GGT AGC CTA GCA AAA GAG AAG ATA ATA ATT AGA TCT GAA AAT CTG ACA AGC AAT CAC AAA ACA ATA ATA GTA CAG CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG ATA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA TAT TGT AAC ATT AGT [...]
+patient1_1000_105|1M|XXX|XXX|2 GCT CCA GCT GGT TAT GCG ATT CTA AGG TAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TGT ACA TAT GGA ATT AAG CCA GTA GTA TCA ACT CAA CCA CTG TTA AGT GGT AGC CTA GCA GAA GAG GAG ATA ATA ATT AGA TCT GAA AAT CTG ACA AGC AAT CAC AAA ACA ATA ATA GTA CAG CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG ATA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA TAT TGT AAC ATT AGT [...]
+patient1_1000_20|1M|XXX|XXX|20 GCT CCA GCT GGT TAT GCG ATT CTA AGG GAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TGT ACA CAT GGA ATT AAG CCA GTG GTA TCA ACT CAA CCA CTG TTA AAT GGT AGC CTA GCA GAA GAG GAG ATA ATA ATT AGA TCT GAA AAT CTG ACA AGC AAT CAC AAA ACA ATA ATA GTA CAG CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG ATA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA TAT TGT AAC ATT AGT [...]
+patient1_1500_22|6M|XXX|XXX|20 GCT CCA GCT GGT TAT GCG ACT CTA AGG TAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TGT ACA TAT GGA ATT AAG CCA GTA GTA TCA ACT CAA CCA CTG TTA AAT GGT AGC CTA GTA GAA GAG GAA ATA ATA ATT AGA TTT GAA AAT CTG ACA AGC AAT CAC AAA ACA ATA ATA GTA CAG CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG ATA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA CAT TGT AAC ATT AGT [...]
+patient1_1500_321|6M|XXX|XXX|2 GCT CCA GCT GGT TAT GCG ACT CTA AGG TAT AAT AGT AAG ACA TTC AAT GGG ACA GGA CCA TGC AAC AAT GTC AGC ACA GTA CAA TGT ACA TAT GGA ATT AAG CCA GTA GTA TCA ACT CAA CCA CTG TTA AAT GGT AGC CTA GCA GAA GAG GAG ATA ATA ATT AGA TTT GAA AAT CTG ACA AGC AAT CAC AAA GCA ATA ATA GTA CAA CTT AAT GGA TCC ATA GAA ATT GTG TGC ATA AGA CCC GGC AAT AAC ACA AGA AAA AGT GTA AGG AGA GGA ACA GGA CAA ACA TTC TAT GCA ACA GGT GAC ATA ATA GGA GAC ATA AGA AAA GCA TAT TGT AAC ATT AGT [...]
+
+
+
+Printing out site pattern counts
+
+
+ 7 195 P
+
+patient1_1000_326|1M|XXX|XXX|2 AAA AAA AAC AAG AAG AAG AAT AAT ACA ACA ACT ACT AGA AGC AGC AGG AGT ATA ATA ATG ATT ATT CAA CAC CAG CAT CAT CCA CCA CCC CCT CTA CTG CTT GAA GAC GAG GCA GCA GCG GCT GGA GGC GGG GGT GTA GTC GTG GTG GTT TAT TAT TAT TCC TCG TCT TCT TGC TGG TGT TGT TTA TTC TTG TTT
+patient1_1000_16|1M|XXX|XXX|20 ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... A.. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ...
+patient1_1000_325|1M|XXX|XXX|2 ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... .A. ... ... ... ... ...
+patient1_1000_105|1M|XXX|XXX|2 ... G.. ... ... G.. G.. ... .G. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... T.. ... T.. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..A ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ...
+patient1_1000_20|1M|XXX|XXX|20 ... G.. ... ... ... G.. ... ... ... ... ... .T. ... .A. ... ... ... ... ... ... ... ... ... ... ... ... ... ... T.. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... G.. ... ... ... ... ... ... ... ... ... ... ... ... ... ...
+patient1_1500_22|6M|XXX|XXX|20 ... G.. ... ... G.. G.A ... ... ... ... ... ... ... ... ... ... ... ... ... ... .C. ... ... ... ... ... T.. ... T.. ... ... ... ... ... ... ... ... ... .T. ... ... ... ... ... ... ... ... ..A ... ... ... C.. ... ... ... ... .T. ... ... ... ... ... ... ... ...
+patient1_1500_321|6M|XXX|XXX|2 ... G.. ... ... G.. G.. ... ... ... G.. ... ... ... ... ... ... ... .G. ... ... .C. ... ... ... ..A ... T.. ... T.. ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ... ..A ... ... ... ... ... ... ... ... .T. ... ... ... ... ... ... ... ...
+
+ 5 1 3 3 1 1 9 1 11 1 1 1 7 1 3
+ 2 3 1 10 1 1 4 4 2 1 1 1 5 1 1
+ 1 3 2 1 6 3 2 3 1 1 2 7 1 1 3
+ 6 1 1 1 1 1 1 3 1 1 1 1 2 2 1
+ 1 2 2 1 2
+
+YN00 Alignments/longnames.fasta
+
+ns = 7 ls = 156
+
+Codon position x base (3x4) table for each sequence.
+
+patient1_1000_326|1M|XXX|XXX|2
+position 1: T:0.14103 C:0.14744 A:0.45513 G:0.25641
+position 2: T:0.25641 C:0.21154 A:0.31410 G:0.21795
+position 3: T:0.26282 C:0.12821 A:0.47436 G:0.13462
+
+patient1_1000_16|1M|XXX|XXX|20
+position 1: T:0.14103 C:0.14744 A:0.46154 G:0.25000
+position 2: T:0.25641 C:0.21154 A:0.31410 G:0.21795
+position 3: T:0.26282 C:0.12821 A:0.47436 G:0.13462
+
+patient1_1000_325|1M|XXX|XXX|2
+position 1: T:0.14103 C:0.14744 A:0.45513 G:0.25641
+position 2: T:0.25641 C:0.21154 A:0.32051 G:0.21154
+position 3: T:0.26282 C:0.12821 A:0.47436 G:0.13462
+
+patient1_1000_105|1M|XXX|XXX|2
+position 1: T:0.15385 C:0.13462 A:0.43590 G:0.27564
+position 2: T:0.25641 C:0.21154 A:0.30769 G:0.22436
+position 3: T:0.26282 C:0.12821 A:0.48077 G:0.12821
+
+patient1_1000_20|1M|XXX|XXX|20
+position 1: T:0.14103 C:0.14103 A:0.44231 G:0.27564
+position 2: T:0.26282 C:0.20513 A:0.32051 G:0.21154
+position 3: T:0.26282 C:0.12821 A:0.47436 G:0.13462
+
+patient1_1500_22|6M|XXX|XXX|20
+position 1: T:0.14744 C:0.14103 A:0.43590 G:0.27564
+position 2: T:0.26282 C:0.20513 A:0.31410 G:0.21795
+position 3: T:0.26282 C:0.12821 A:0.48718 G:0.12179
+
+patient1_1500_321|6M|XXX|XXX|2
+position 1: T:0.15385 C:0.13462 A:0.42949 G:0.28205
+position 2: T:0.25000 C:0.21154 A:0.31410 G:0.22436
+position 3: T:0.26282 C:0.12821 A:0.48718 G:0.12179
+
+Average
+position 1: T:0.14560 C:0.14194 A:0.44505 G:0.26740
+position 2: T:0.25733 C:0.20971 A:0.31502 G:0.21795
+position 3: T:0.26282 C:0.12821 A:0.47894 G:0.13004
+
+Codon usage for each species
+--------------------------------------------------------------------------------------------------------------------------------------
+Phe TTT 2 2 2 2 2 3 | Ser TCT 2 2 2 2 2 1 | Tyr TAT 5 5 6 6 4 5 | Cys TGT 2 2 1 2 2 2
+ TTC 2 2 2 2 2 2 | TCC 1 1 1 1 1 1 | TAC 0 0 0 0 0 0 | TGC 2 2 2 2 2 2
+Leu TTA 2 2 2 2 2 2 | TCA 0 0 0 1 1 1 | *** TAA 0 0 0 0 0 0 | *** TGA 0 0 0 0 0 0
+ TTG 1 1 1 1 1 1 | TCG 1 1 1 1 1 1 | TAG 0 0 0 0 0 0 | Trp TGG 2 2 2 2 2 2
+--------------------------------------------------------------------------------------------------------------------------------------
+Leu CTT 1 1 1 1 1 1 | Pro CCT 1 1 1 1 1 1 | His CAT 2 2 2 1 2 2 | Arg CGT 0 0 0 0 0 0
+ CTC 0 0 0 0 0 0 | CCC 1 1 1 1 1 1 | CAC 2 2 2 2 2 2 | CGC 0 0 0 0 0 0
+ CTA 3 3 3 3 3 3 | CCA 6 6 6 5 5 5 | Gln CAA 4 4 4 4 4 4 | CGA 0 0 0 0 0 0
+ CTG 2 2 2 2 2 2 | CCG 0 0 0 0 0 0 | CAG 1 1 1 1 1 1 | CGG 0 0 0 0 0 0
+--------------------------------------------------------------------------------------------------------------------------------------
+Ile ATT 5 6 5 5 6 4 | Thr ACT 2 2 2 2 1 3 | Asn AAT 10 10 10 9 10 10 | Ser AGT 3 3 3 4 3 3
+ ATC 0 0 0 0 0 0 | ACC 0 0 0 0 0 0 | AAC 3 3 3 3 4 3 | AGC 4 4 4 4 3 4
+ ATA 11 11 11 11 11 11 | ACA 12 12 12 12 12 12 | Lys AAA 6 6 6 5 5 5 | Arg AGA 7 7 7 7 7 7
+Met ATG 1 1 1 1 1 1 | ACG 0 0 0 0 0 0 | AAG 5 5 5 3 4 3 | AGG 2 2 2 2 2 2
+--------------------------------------------------------------------------------------------------------------------------------------
+Val GTT 1 0 1 1 1 1 | Ala GCT 2 2 2 2 2 2 | Asp GAT 0 0 0 0 1 0 | Gly GGT 3 3 3 3 3 3
+ GTC 1 1 1 1 1 1 | GCC 0 0 0 0 0 0 | GAC 3 3 3 3 3 3 | GGC 1 1 1 1 1 1
+ GTA 6 6 6 7 6 8 | GCA 4 4 4 4 4 3 | Glu GAA 6 6 6 7 7 8 | GGA 7 7 7 7 7 7
+ GTG 2 2 2 1 2 1 | GCG 1 1 1 1 1 1 | GAG 2 2 2 4 3 3 | GGG 1 1 1 1 1 1
+--------------------------------------------------------------------------------------------------------------------------------------
+
+------------------------------------------------------
+Phe TTT 3 | Ser TCT 1 | Tyr TAT 6 | Cys TGT 2
+ TTC 2 | TCC 1 | TAC 0 | TGC 2
+Leu TTA 2 | TCA 1 | *** TAA 0 | *** TGA 0
+ TTG 1 | TCG 1 | TAG 0 | Trp TGG 2
+------------------------------------------------------
+Leu CTT 1 | Pro CCT 1 | His CAT 1 | Arg CGT 0
+ CTC 0 | CCC 1 | CAC 2 | CGC 0
+ CTA 3 | CCA 5 | Gln CAA 5 | CGA 0
+ CTG 2 | CCG 0 | CAG 0 | CGG 0
+------------------------------------------------------
+Ile ATT 4 | Thr ACT 3 | Asn AAT 10 | Ser AGT 3
+ ATC 0 | ACC 0 | AAC 3 | AGC 4
+ ATA 10 | ACA 11 | Lys AAA 5 | Arg AGA 8
+Met ATG 1 | ACG 0 | AAG 3 | AGG 2
+------------------------------------------------------
+Val GTT 1 | Ala GCT 2 | Asp GAT 0 | Gly GGT 3
+ GTC 1 | GCC 0 | GAC 3 | GGC 1
+ GTA 7 | GCA 5 | Glu GAA 7 | GGA 7
+ GTG 1 | GCG 1 | GAG 4 | GGG 1
+------------------------------------------------------
+
+
+Sums
+------------------------------------------------------
+Phe TTT 16 | Ser TCT 12 | Tyr TAT 37 | Cys TGT 13
+ TTC 14 | TCC 7 | TAC 0 | TGC 14
+Leu TTA 14 | TCA 4 | *** TAA 0 | *** TGA 0
+ TTG 7 | TCG 7 | TAG 0 | Trp TGG 14
+------------------------------------------------------
+Leu CTT 7 | Pro CCT 7 | His CAT 12 | Arg CGT 0
+ CTC 0 | CCC 7 | CAC 14 | CGC 0
+ CTA 21 | CCA 38 | Gln CAA 29 | CGA 0
+ CTG 14 | CCG 0 | CAG 6 | CGG 0
+------------------------------------------------------
+Ile ATT 35 | Thr ACT 15 | Asn AAT 69 | Ser AGT 22
+ ATC 0 | ACC 0 | AAC 22 | AGC 27
+ ATA 76 | ACA 83 | Lys AAA 38 | Arg AGA 50
+Met ATG 7 | ACG 0 | AAG 28 | AGG 14
+------------------------------------------------------
+Val GTT 6 | Ala GCT 14 | Asp GAT 1 | Gly GGT 21
+ GTC 7 | GCC 0 | GAC 21 | GGC 7
+ GTA 46 | GCA 28 | Glu GAA 47 | GGA 49
+ GTG 11 | GCG 7 | GAG 20 | GGG 7
+------------------------------------------------------
+
+
+
+(A) Nei-Gojobori (1986) method
+
+
+
+Nei & Gojobori 1986. dN/dS (dN, dS)
+(Note: This matrix is not used in later ML. analysis.
+Use runmode = -2 for ML pairwise comparison.)
+
+patient1_1000_326|1M|XXX|XXX|2
+patient1_1000_16|1M|XXX|XXX|20-1.0000 (0.0028 0.0000)
+patient1_1000_325|1M|XXX|XXX|2-1.0000 (0.0028 0.0000)-1.0000 (0.0056 0.0000)
+patient1_1000_105|1M|XXX|XXX|2 1.7996 (0.0168 0.0094) 2.0991 (0.0197 0.0094) 2.1046 (0.0197 0.0094)
+patient1_1000_20|1M|XXX|XXX|20-1.0000 (0.0168 0.0000)-1.0000 (0.0196 0.0000)-1.0000 (0.0197 0.0000) 1.7958 (0.0168 0.0094)
+patient1_1500_22|6M|XXX|XXX|20 1.3447 (0.0254 0.0189) 1.4937 (0.0282 0.0189) 1.4977 (0.0283 0.0189) 1.4951 (0.0140 0.0094) 1.3418 (0.0254 0.0189)
+patient1_1500_321|6M|XXX|XXX|2 1.3467 (0.0254 0.0189) 1.4959 (0.0282 0.0189) 1.4999 (0.0283 0.0188) 1.4973 (0.0140 0.0094) 1.3438 (0.0254 0.0189) 0.5922 (0.0112 0.0189)
+
+
+(B) Yang & Nielsen (2000) method
+
+Yang Z, Nielsen R (2000) Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol. Biol. Evol. 17:32-43
+
+(equal weighting of pathways)
+
+seq. seq. S N t kappa omega dN +- SE dS +- SE
+
+ 2 1 98.4 369.6 0.0064 7.9532 99.0000 0.0027 +- 0.0027 -0.0000 +- 0.0000
+ 3 1 98.4 369.6 0.0064 7.9532 99.0000 0.0027 +- 0.0027 -0.0000 +- 0.0000
+ 3 2 98.6 369.4 0.0129 7.9532 99.0000 0.0054 +- 0.0038 -0.0000 +- 0.0000
+ 4 1 96.0 372.0 0.0453 7.9532 1.5543 0.0163 +- 0.0067 0.0105 +- 0.0105
+ 4 2 96.1 371.9 0.0519 7.9532 1.8196 0.0191 +- 0.0072 0.0105 +- 0.0105
+ 4 3 96.1 371.9 0.0519 7.9532 1.8189 0.0191 +- 0.0072 0.0105 +- 0.0105
+ 5 1 97.8 370.2 0.0390 7.9532 99.0000 0.0164 +- 0.0068 -0.0000 +- 0.0000
+ 5 2 98.0 370.0 0.0456 7.9532 99.0000 0.0192 +- 0.0073 -0.0000 +- 0.0000
+ 5 3 97.9 370.1 0.0456 7.9532 99.0000 0.0192 +- 0.0073 -0.0000 +- 0.0000
+ 5 4 95.6 372.4 0.0455 7.9532 1.5520 0.0163 +- 0.0067 0.0105 +- 0.0105
+ 6 1 94.8 373.2 0.0716 7.9532 1.1455 0.0245 +- 0.0082 0.0214 +- 0.0152
+ 6 2 94.9 373.1 0.0783 7.9532 1.2773 0.0273 +- 0.0087 0.0214 +- 0.0152
+ 6 3 94.9 373.1 0.0783 7.9532 1.2768 0.0273 +- 0.0087 0.0214 +- 0.0152
+ 6 4 92.6 375.4 0.0388 7.9532 1.2362 0.0134 +- 0.0060 0.0109 +- 0.0109
+ 6 5 94.5 373.5 0.0720 7.9532 1.1467 0.0246 +- 0.0083 0.0215 +- 0.0152
+ 7 1 95.3 372.7 0.0720 7.9532 1.1601 0.0247 +- 0.0083 0.0213 +- 0.0151
+ 7 2 95.4 372.6 0.0787 7.9532 1.2946 0.0275 +- 0.0088 0.0213 +- 0.0151
+ 7 3 95.4 372.6 0.0787 7.9532 1.2942 0.0275 +- 0.0088 0.0213 +- 0.0151
+ 7 4 93.2 374.8 0.0389 7.9532 1.2490 0.0135 +- 0.0061 0.0108 +- 0.0108
+ 7 5 95.0 373.0 0.0719 7.9532 1.1527 0.0246 +- 0.0083 0.0214 +- 0.0152
+ 7 6 91.9 376.1 0.0389 7.9532 0.4860 0.0107 +- 0.0054 0.0221 +- 0.0157
+
+
+(C) LWL85, LPB93 & LWLm methods
+
+Li W.-H., C.-I. Wu, Luo (1985) A new method for estimating synonymous and nonsynonymous rates of nucleotide substitutions considering the relative likelihood of nucleotide and codon changes. Mol. Biol. Evol. 2: 150-174.
+Li W-H (1993) Unbiased estimation of the rates of synonymous and nonsynonymous substitution. J. Mol. Evol. 36:96-99
+Pamilo P, Bianchi NO (1993) Evolution of the Zfx and Zfy genes - rates and interdependence between the genes. Mol. Biol. Evol. 10:271-281
+Yang Z (2006) Computational Molecular Evolution. Oxford University Press, Oxford. Eqs. 2.12 & 2.13
+
+2 (patient1_1000_16|1M|XXX|XXX|20) vs. 1 (patient1_1000_326|1M|XXX|XXX|2)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 1.0000 0.0000 0.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0034 0.0000 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0027 w = inf S = 97.0 N = 371.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0034 w = inf
+
+3 (patient1_1000_325|1M|XXX|XXX|2) vs. 1 (patient1_1000_326|1M|XXX|XXX|2)
+
+L(i): 298.0 109.0 61.0 sum= 468.0
+Ns(i): 1.0000 0.0000 0.0000 sum= 1.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0034 0.0000 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0027 w = inf S = 97.3 N = 370.7
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0034 w = inf
+
+3 (patient1_1000_325|1M|XXX|XXX|2) vs. 2 (patient1_1000_16|1M|XXX|XXX|20)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 2.0000 0.0000 0.0000 sum= 2.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0068 0.0000 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0054 w = inf S = 97.0 N = 371.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0068 w = inf
+
+4 (patient1_1000_105|1M|XXX|XXX|2) vs. 1 (patient1_1000_326|1M|XXX|XXX|2)
+
+L(i): 298.0 109.0 61.0 sum= 468.0
+Ns(i): 6.0000 0.0000 1.0000 sum= 7.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0206 0.0000 0.0167
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0104 dN = 0.0165 w = 1.5816 S = 97.3 N = 370.7
+LWL85m: dS = 0.0060 dN = 0.0206 w = 3.4361 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0060 dN = 0.0206 w = 3.4361
+
+4 (patient1_1000_105|1M|XXX|XXX|2) vs. 2 (patient1_1000_16|1M|XXX|XXX|20)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 7.0000 0.0000 1.0000 sum= 8.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0241 0.0000 0.0168
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0105 dN = 0.0193 w = 1.8434 S = 97.0 N = 371.0
+LWL85m: dS = 0.0060 dN = 0.0241 w = 4.0222 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0060 dN = 0.0241 w = 4.0222
+
+4 (patient1_1000_105|1M|XXX|XXX|2) vs. 3 (patient1_1000_325|1M|XXX|XXX|2)
+
+L(i): 298.0 109.0 61.0 sum= 468.0
+Ns(i): 7.0000 0.0000 1.0000 sum= 8.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0241 0.0000 0.0167
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0104 dN = 0.0193 w = 1.8517 S = 97.3 N = 370.7
+LWL85m: dS = 0.0060 dN = 0.0241 w = 4.0227 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0060 dN = 0.0241 w = 4.0227
+
+5 (patient1_1000_20|1M|XXX|XXX|20) vs. 1 (patient1_1000_326|1M|XXX|XXX|2)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 5.0000 0.0000 0.0000 sum= 5.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0171 0.0000 0.0000
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0165 w = inf S = 97.0 N = 371.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0196 w = inf
+
+5 (patient1_1000_20|1M|XXX|XXX|20) vs. 2 (patient1_1000_16|1M|XXX|XXX|20)
+
+L(i): 298.0 110.0 60.0 sum= 468.0
+Ns(i): 6.0000 0.0000 0.0000 sum= 6.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0206 0.0000 0.0000
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0192 w = inf S = 96.7 N = 371.3
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0231 w = inf
+
+5 (patient1_1000_20|1M|XXX|XXX|20) vs. 3 (patient1_1000_325|1M|XXX|XXX|2)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 6.0000 0.0000 0.0000 sum= 6.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0206 0.0000 0.0000
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0000 dN = 0.0193 w = inf S = 97.0 N = 371.0
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0000 dN = 0.0231 w = inf
+
+5 (patient1_1000_20|1M|XXX|XXX|20) vs. 4 (patient1_1000_105|1M|XXX|XXX|2)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 5.0000 0.0000 1.0000 sum= 6.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0171 0.0000 0.0168
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0105 dN = 0.0165 w = 1.5699 S = 97.0 N = 371.0
+LWL85m: dS = 0.0060 dN = 0.0205 w = 3.4253 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0060 dN = 0.0196 w = 3.2740
+
+6 (patient1_1500_22|6M|XXX|XXX|20) vs. 1 (patient1_1000_326|1M|XXX|XXX|2)
+
+L(i): 298.0 109.0 61.0 sum= 468.0
+Ns(i): 9.0000 1.0000 1.0000 sum= 11.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0312 0.0093 0.0167
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0208 dN = 0.0250 w = 1.2032 S = 97.3 N = 370.7
+LWL85m: dS = 0.0119 dN = 0.0312 w = 2.6139 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0312 w = 2.6139
+
+6 (patient1_1500_22|6M|XXX|XXX|20) vs. 2 (patient1_1000_16|1M|XXX|XXX|20)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 10.0000 1.0000 1.0000 sum= 12.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0347 0.0092 0.0168
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0209 dN = 0.0279 w = 1.3357 S = 97.0 N = 371.0
+LWL85m: dS = 0.0119 dN = 0.0347 w = 2.9145 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0347 w = 2.9145
+
+6 (patient1_1500_22|6M|XXX|XXX|20) vs. 3 (patient1_1000_325|1M|XXX|XXX|2)
+
+L(i): 298.0 109.0 61.0 sum= 468.0
+Ns(i): 10.0000 1.0000 1.0000 sum= 12.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0347 0.0093 0.0167
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0208 dN = 0.0279 w = 1.3416 S = 97.3 N = 370.7
+LWL85m: dS = 0.0119 dN = 0.0347 w = 2.9146 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0347 w = 2.9146
+
+6 (patient1_1500_22|6M|XXX|XXX|20) vs. 4 (patient1_1000_105|1M|XXX|XXX|2)
+
+L(i): 298.0 109.0 61.0 sum= 468.0
+Ns(i): 5.0000 1.0000 0.0000 sum= 6.0000
+Nv(i): 0.0000 0.0000 0.0000 sum= 0.0000
+A(i): 0.0171 0.0093 0.0000
+B(i): -0.0000 -0.0000 -0.0000
+LWL85: dS = 0.0104 dN = 0.0137 w = 1.3232 S = 97.3 N = 370.7
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0059 dN = 0.0171 w = 2.8746
+
+6 (patient1_1500_22|6M|XXX|XXX|20) vs. 5 (patient1_1000_20|1M|XXX|XXX|20)
+
+L(i): 298.0 109.5 60.5 sum= 468.0
+Ns(i): 8.0000 1.0000 1.0000 sum= 10.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0277 0.0092 0.0168
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0209 dN = 0.0249 w = 1.1941 S = 97.0 N = 371.0
+LWL85m: dS = 0.0119 dN = 0.0311 w = 2.6054 S = 170.0 N = 298.0 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0301 w = 2.5295
+
+7 (patient1_1500_321|6M|XXX|XXX|2) vs. 1 (patient1_1000_326|1M|XXX|XXX|2)
+
+L(i): 297.5 109.5 61.0 sum= 468.0
+Ns(i): 8.0000 1.0000 1.0000 sum= 10.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0277 0.0092 0.0167
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0208 dN = 0.0250 w = 1.2020 S = 97.5 N = 370.5
+LWL85m: dS = 0.0119 dN = 0.0311 w = 2.6178 S = 170.5 N = 297.5 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0302 w = 2.5414
+
+7 (patient1_1500_321|6M|XXX|XXX|2) vs. 2 (patient1_1000_16|1M|XXX|XXX|20)
+
+L(i): 297.5 110.0 60.5 sum= 468.0
+Ns(i): 9.0000 1.0000 1.0000 sum= 11.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0313 0.0092 0.0168
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0209 dN = 0.0278 w = 1.3344 S = 97.2 N = 370.8
+LWL85m: dS = 0.0119 dN = 0.0347 w = 2.9188 S = 170.5 N = 297.5 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0338 w = 2.8421
+
+7 (patient1_1500_321|6M|XXX|XXX|2) vs. 3 (patient1_1000_325|1M|XXX|XXX|2)
+
+L(i): 297.5 109.5 61.0 sum= 468.0
+Ns(i): 9.0000 1.0000 1.0000 sum= 11.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0313 0.0092 0.0167
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0208 dN = 0.0279 w = 1.3403 S = 97.5 N = 370.5
+LWL85m: dS = 0.0119 dN = 0.0347 w = 2.9189 S = 170.5 N = 297.5 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0338 w = 2.8425
+
+7 (patient1_1500_321|6M|XXX|XXX|2) vs. 4 (patient1_1000_105|1M|XXX|XXX|2)
+
+L(i): 297.5 109.5 61.0 sum= 468.0
+Ns(i): 4.0000 1.0000 0.0000 sum= 5.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0137 0.0092 0.0000
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0104 dN = 0.0137 w = 1.3223 S = 97.5 N = 370.5
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0059 dN = 0.0161 w = 2.7264
+
+7 (patient1_1500_321|6M|XXX|XXX|2) vs. 5 (patient1_1000_20|1M|XXX|XXX|20)
+
+L(i): 297.5 110.0 60.5 sum= 468.0
+Ns(i): 7.0000 1.0000 1.0000 sum= 9.0000
+Nv(i): 2.0000 0.0000 0.0000 sum= 2.0000
+A(i): 0.0243 0.0092 0.0168
+B(i): 0.0068 -0.0000 -0.0000
+LWL85: dS = 0.0209 dN = 0.0249 w = 1.1936 S = 97.2 N = 370.8
+LWL85m: dS = 0.0119 dN = 0.0310 w = 2.6108 S = 170.5 N = 297.5 (rho = 1.000)
+LPB93: dS = 0.0119 dN = 0.0292 w = 2.4571
+
+7 (patient1_1500_321|6M|XXX|XXX|2) vs. 6 (patient1_1500_22|6M|XXX|XXX|20)
+
+L(i): 297.5 109.5 61.0 sum= 468.0
+Ns(i): 3.0000 2.0000 0.0000 sum= 5.0000
+Nv(i): 1.0000 0.0000 0.0000 sum= 1.0000
+A(i): 0.0102 0.0186 0.0000
+B(i): 0.0034 -0.0000 -0.0000
+LWL85: dS = 0.0209 dN = 0.0109 w = 0.5223 S = 97.5 N = 370.5
+LWL85m: dS = -nan dN = -nan w = -nan S = -nan N = -nan (rho = -nan)
+LPB93: dS = 0.0119 dN = 0.0127 w = 1.0615
+
diff --git a/Tests/PAML/gen_results.py b/Tests/PAML/gen_results.py
index 326aa9a..2d24f63 100644
--- a/Tests/PAML/gen_results.py
+++ b/Tests/PAML/gen_results.py
@@ -111,8 +111,7 @@ def yn00(vers=None, verbose=False):
versions = [vers]
else:
versions = VERSIONS
- tests = ["yn00"]
- alignment = os.path.join("Alignments", "alignment.phylip")
+ tests = ["yn00", "yn00_long"]
for test in tests:
print(test[0])
yn = yn00.Yn00()
@@ -121,9 +120,8 @@ def yn00(vers=None, verbose=False):
ctl_file = os.path.join("Control_files", "yn00",
"{0}.ctl".format(test))
yn.read_ctl_file(ctl_file)
- yn.alignment = alignment
out_file = "{0}-{1}.out".format(test, version)
- yn.out_file = os.path.join("Results", "yn00", out_file)
+ yn.out_file = os.path.join("Results", 'yn00', out_file)
bin = "yn00{0}".format(version)
yn.run(command=bin, verbose=verbose)
@@ -145,6 +143,7 @@ results will be generated for all versions listed above.
""" % (versions)
sys.exit(usage)
+
if __name__ == "__main__":
programs = ["codeml", "baseml", "yn00"]
prog = None
diff --git a/Tests/PDB/1A8O.mmtf b/Tests/PDB/1A8O.mmtf
index 4d0cecc..ef04d2c 100644
Binary files a/Tests/PDB/1A8O.mmtf and b/Tests/PDB/1A8O.mmtf differ
diff --git a/Tests/PDB/1A8O.xyzr b/Tests/PDB/1A8O.xyzr
new file mode 100644
index 0000000..a7cef8a
--- /dev/null
+++ b/Tests/PDB/1A8O.xyzr
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+ 21.507 37.319 9.432 2.00
+ 23.105 36.476 9.199 2.15
+ 22.645 35.192 8.071 2.00
+ 18.915 39.521 6.253 1.70
+ 18.636 40.413 5.133 2.00
+ 17.640 41.485 5.571 1.74
+ 17.807 42.666 5.263 1.40
+ 18.050 39.641 3.929 2.00
+ 18.998 38.664 3.483 1.60
+ 17.730 40.596 2.778 2.00
+ 16.631 41.064 6.328 1.70
+ 15.593 41.963 6.816 2.00
+ 16.104 43.052 7.759 1.74
+ 15.685 44.202 7.659 1.40
+ 14.486 41.158 7.488 2.00
+ 17.033 42.701 8.645 1.70
+ 17.572 43.657 9.613 2.00
+ 18.985 44.159 9.339 1.74
+ 19.634 44.683 10.245 1.40
+ 17.525 43.060 11.021 2.00
+ 15.855 42.777 11.680 1.80
+ 19.451 44.037 8.099 1.70
+ 20.802 44.479 7.755 2.00
+ 21.001 45.986 7.940 1.74
+ 20.066 46.772 7.786 1.40
+ 21.152 44.074 6.323 2.00
+ 20.421 44.863 5.251 2.00
+ 20.725 44.362 3.860 1.74
+ 21.768 44.673 3.288 1.40
+ 19.817 43.572 3.311 1.80
+ 22.226 46.374 8.287 1.70
+ 22.536 47.781 8.491 2.00
+ 23.683 48.032 9.461 1.74
+ 24.328 47.057 9.907 1.40
+ 23.949 49.212 9.776 1.40
+ 15.165 37.722 1.767 1.60
+ 19.774 39.105 29.335 1.60
+ 22.152 41.230 9.295 1.60
+ 12.938 36.120 1.368 1.60
+ 23.499 43.387 10.442 1.60
+ 17.568 32.010 2.812 1.60
+ 13.544 42.152 23.067 1.60
+ 15.524 51.867 21.467 1.60
+ 31.249 29.077 22.178 1.60
+ 11.999 37.653 3.633 1.60
+ 14.511 39.069 4.067 1.60
+ 7.439 39.671 4.171 1.60
+ 19.303 38.158 0.364 1.60
+ 17.114 46.823 7.498 1.60
+ 21.867 45.557 11.341 1.60
+ 17.573 36.347 2.076 1.60
+ 26.151 39.210 7.337 1.60
+ 20.974 36.704 2.736 1.60
+ 20.796 49.132 25.996 1.60
+ 28.370 43.431 19.191 1.60
+ 29.565 39.861 17.495 1.60
+ 21.248 19.663 20.917 1.60
+ 25.744 28.721 26.627 1.60
+ 8.691 29.441 5.693 1.60
+ 30.789 37.281 18.454 1.60
+ 30.905 41.821 19.077 1.60
+ 28.623 45.786 17.612 1.60
+ 24.935 39.275 27.098 1.60
+ 23.462 49.242 21.058 1.60
+ 9.924 39.544 2.749 1.60
+ 28.729 39.834 24.613 1.60
+ 13.579 27.260 21.149 1.60
+ 23.652 23.003 29.711 1.60
+ 25.631 24.685 18.228 1.60
+ 17.799 29.236 9.197 1.60
+ 23.547 33.102 28.360 1.60
+ 16.363 35.102 26.457 1.60
+ 24.125 30.214 28.423 1.60
+ 33.063 32.577 18.258 1.60
+ 29.209 40.826 8.442 1.60
+ 10.391 48.156 12.777 1.60
+ 12.221 30.930 11.756 1.60
+ 18.997 45.418 13.303 1.60
+ 16.360 49.482 18.244 1.60
+ 27.915 38.760 27.252 1.60
+ 28.158 34.837 23.497 1.60
+ 21.975 48.757 12.570 1.60
+ 27.069 48.275 18.837 1.60
+ 30.148 32.964 9.614 1.60
+ 21.196 27.107 11.789 1.60
+ 8.864 38.227 22.360 1.60
+ 13.228 45.007 6.286 1.60
+ 18.577 28.344 11.840 1.60
+ 20.526 31.891 2.074 1.60
+ 25.758 34.472 27.008 1.60
+ 7.838 42.380 22.861 1.60
+ 20.569 50.052 9.597 1.60
+ 13.009 36.362 25.377 1.60
+ 19.229 48.467 11.442 1.60
+ 17.655 18.464 11.930 1.60
+ 30.445 40.241 14.615 1.60
+ 9.014 41.676 7.543 1.60
+ 3.398 36.556 10.329 1.60
+ 31.603 38.138 21.437 1.60
+ 16.543 47.103 11.490 1.60
+ 12.037 24.714 13.107 1.60
+ 7.261 36.306 24.007 1.60
+ 5.607 42.442 13.596 1.60
+ 23.532 49.788 24.189 1.60
+ 30.701 46.187 13.647 1.60
+ 32.300 36.531 11.832 1.60
+ 34.351 35.009 19.379 1.60
+ 9.450 49.006 15.663 1.60
+ 29.476 37.267 23.087 1.60
+ 13.681 31.440 0.753 1.60
+ 26.728 21.941 27.773 1.60
+ 10.004 34.063 12.086 1.60
+ 30.553 39.203 10.893 1.60
+ 23.569 17.799 20.501 1.60
+ 10.927 19.731 12.370 1.60
+ 17.983 47.329 4.501 1.60
+ 8.191 47.481 10.669 1.60
+ 32.095 31.237 24.622 1.60
+ 11.520 27.290 5.507 1.60
+ 13.249 36.425 28.955 1.60
+ 15.919 54.510 15.962 1.60
+ 11.187 43.000 5.973 1.60
+ 16.743 33.111 28.517 1.60
diff --git a/Tests/PDB/1AS5.cif b/Tests/PDB/1AS5.cif
new file mode 100644
index 0000000..e14c394
--- /dev/null
+++ b/Tests/PDB/1AS5.cif
@@ -0,0 +1,5995 @@
+data_1AS5
+#
+_entry.id 1AS5
+#
+_audit_conform.dict_name mmcif_pdbx.dic
+_audit_conform.dict_version 4.007
+_audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
+#
+_database_2.database_id PDB
+_database_2.database_code 1AS5
+#
+loop_
+_database_PDB_rev.num
+_database_PDB_rev.date
+_database_PDB_rev.date_original
+_database_PDB_rev.status
+_database_PDB_rev.replaces
+_database_PDB_rev.mod_type
+1 1998-10-14 1997-08-13 ? 1AS5 0
+2 2009-02-24 ? ? 1AS5 1
+#
+_database_PDB_rev_record.rev_num 2
+_database_PDB_rev_record.type VERSN
+_database_PDB_rev_record.details ?
+#
+_pdbx_database_status.status_code REL
+_pdbx_database_status.entry_id 1AS5
+_pdbx_database_status.deposit_site ?
+_pdbx_database_status.process_site ?
+_pdbx_database_status.status_code_sf ?
+_pdbx_database_status.status_code_mr REL
+_pdbx_database_status.SG_entry ?
+#
+loop_
+_audit_author.name
+_audit_author.pdbx_ordinal
+'Mitchell, S.S.' 1
+'Shon, K.' 2
+'Foster, M.P.' 3
+'Olivera, B.M.' 4
+'Ireland, C.M.' 5
+#
+_citation.id primary
+_citation.title
+'Three-dimensional solution structure of conotoxin psi-PIIIE, an acetylcholine gated ion channel antagonist.'
+_citation.journal_abbrev Biochemistry
+_citation.journal_volume 37
+_citation.page_first 1215
+_citation.page_last 1220
+_citation.year 1998
+_citation.journal_id_ASTM BICHAW
+_citation.country US
+_citation.journal_id_ISSN 0006-2960
+_citation.journal_id_CSD 0033
+_citation.book_publisher ?
+_citation.pdbx_database_id_PubMed 9477946
+_citation.pdbx_database_id_DOI 10.1021/bi972186t
+#
+loop_
+_citation_author.citation_id
+_citation_author.name
+_citation_author.ordinal
+primary 'Mitchell, S.S.' 1
+primary 'Shon, K.J.' 2
+primary 'Foster, M.P.' 3
+primary 'Davis, D.R.' 4
+primary 'Olivera, B.M.' 5
+primary 'Ireland, C.M.' 6
+#
+_cell.entry_id 1AS5
+_cell.length_a 1.000
+_cell.length_b 1.000
+_cell.length_c 1.000
+_cell.angle_alpha 90.00
+_cell.angle_beta 90.00
+_cell.angle_gamma 90.00
+_cell.Z_PDB 1
+_cell.pdbx_unique_axis ?
+#
+_symmetry.entry_id 1AS5
+_symmetry.space_group_name_H-M 'P 1'
+_symmetry.pdbx_full_space_group_name_H-M ?
+_symmetry.cell_setting ?
+_symmetry.Int_Tables_number ?
+#
+_entity.id 1
+_entity.type polymer
+_entity.src_method man
+_entity.pdbx_description 'CONOTOXIN Y-PIIIE'
+_entity.formula_weight 2727.173
+_entity.pdbx_number_of_molecules 1
+_entity.details 'CONOTOXIN Y-PIIIE CONTAINS THE SAME DISULFIDE BONDING PATTERN AS THE MU-CONOTOXINS'
+#
+_entity_poly.entity_id 1
+_entity_poly.type 'polypeptide(L)'
+_entity_poly.nstd_linkage no
+_entity_poly.nstd_monomer yes
+_entity_poly.pdbx_seq_one_letter_code 'H(HYP)(HYP)CCLYGKCRRY(HYP)GCSSASCCQR(NH2)'
+_entity_poly.pdbx_seq_one_letter_code_can HPPCCLYGKCRRYPGCSSASCCQRX
+_entity_poly.pdbx_strand_id A
+#
+loop_
+_entity_poly_seq.entity_id
+_entity_poly_seq.num
+_entity_poly_seq.mon_id
+_entity_poly_seq.hetero
+1 1 HIS n
+1 2 HYP n
+1 3 HYP n
+1 4 CYS n
+1 5 CYS n
+1 6 LEU n
+1 7 TYR n
+1 8 GLY n
+1 9 LYS n
+1 10 CYS n
+1 11 ARG n
+1 12 ARG n
+1 13 TYR n
+1 14 HYP n
+1 15 GLY n
+1 16 CYS n
+1 17 SER n
+1 18 SER n
+1 19 ALA n
+1 20 SER n
+1 21 CYS n
+1 22 CYS n
+1 23 GLN n
+1 24 ARG n
+1 25 NH2 n
+#
+_entity_src_gen.entity_id 1
+_entity_src_gen.gene_src_common_name ?
+_entity_src_gen.gene_src_genus Conus
+_entity_src_gen.pdbx_gene_src_gene ?
+_entity_src_gen.gene_src_species ?
+_entity_src_gen.gene_src_strain ?
+_entity_src_gen.gene_src_tissue ?
+_entity_src_gen.gene_src_tissue_fraction ?
+_entity_src_gen.gene_src_details ?
+_entity_src_gen.pdbx_gene_src_fragment ?
+_entity_src_gen.pdbx_gene_src_scientific_name 'Conus purpurascens'
+_entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 41690
+_entity_src_gen.pdbx_gene_src_variant ?
+_entity_src_gen.pdbx_gene_src_cell_line ?
+_entity_src_gen.pdbx_gene_src_atcc ?
+_entity_src_gen.pdbx_gene_src_organ ?
+_entity_src_gen.pdbx_gene_src_organelle ?
+_entity_src_gen.pdbx_gene_src_cell ?
+_entity_src_gen.pdbx_gene_src_cellular_location ?
+_entity_src_gen.host_org_common_name ?
+_entity_src_gen.pdbx_host_org_scientific_name ?
+_entity_src_gen.pdbx_host_org_ncbi_taxonomy_id ?
+_entity_src_gen.host_org_genus ?
+_entity_src_gen.pdbx_host_org_gene ?
+_entity_src_gen.pdbx_host_org_organ ?
+_entity_src_gen.host_org_species ?
+_entity_src_gen.pdbx_host_org_tissue ?
+_entity_src_gen.pdbx_host_org_tissue_fraction ?
+_entity_src_gen.pdbx_host_org_strain ?
+_entity_src_gen.pdbx_host_org_variant ?
+_entity_src_gen.pdbx_host_org_cell_line ?
+_entity_src_gen.pdbx_host_org_atcc ?
+_entity_src_gen.pdbx_host_org_culture_collection ?
+_entity_src_gen.pdbx_host_org_cell ?
+_entity_src_gen.pdbx_host_org_organelle ?
+_entity_src_gen.pdbx_host_org_cellular_location ?
+_entity_src_gen.pdbx_host_org_vector_type ?
+_entity_src_gen.pdbx_host_org_vector ?
+_entity_src_gen.plasmid_name ?
+_entity_src_gen.plasmid_details ?
+_entity_src_gen.pdbx_description ?
+#
+_struct_ref.id 1
+_struct_ref.db_name UNP
+_struct_ref.db_code CXP3E_CONPU
+_struct_ref.entity_id 1
+_struct_ref.pdbx_db_accession P56529
+_struct_ref.pdbx_align_begin 1
+_struct_ref.pdbx_seq_one_letter_code RRHPPCCLYGKCRRYPGCSSASCCQRG
+_struct_ref.biol_id .
+#
+_struct_ref_seq.align_id 1
+_struct_ref_seq.ref_id 1
+_struct_ref_seq.pdbx_PDB_id_code 1AS5
+_struct_ref_seq.pdbx_strand_id A
+_struct_ref_seq.seq_align_beg 1
+_struct_ref_seq.pdbx_seq_align_beg_ins_code ?
+_struct_ref_seq.seq_align_end 24
+_struct_ref_seq.pdbx_seq_align_end_ins_code ?
+_struct_ref_seq.pdbx_db_accession P56529
+_struct_ref_seq.db_align_beg 3
+_struct_ref_seq.pdbx_db_align_beg_ins_code ?
+_struct_ref_seq.db_align_end 26
+_struct_ref_seq.pdbx_db_align_end_ins_code ?
+_struct_ref_seq.pdbx_auth_seq_align_beg 1
+_struct_ref_seq.pdbx_auth_seq_align_end 24
+#
+loop_
+_struct_ref_seq_dif.align_id
+_struct_ref_seq_dif.pdbx_pdb_id_code
+_struct_ref_seq_dif.mon_id
+_struct_ref_seq_dif.pdbx_pdb_strand_id
+_struct_ref_seq_dif.seq_num
+_struct_ref_seq_dif.pdbx_pdb_ins_code
+_struct_ref_seq_dif.pdbx_seq_db_name
+_struct_ref_seq_dif.pdbx_seq_db_accession_code
+_struct_ref_seq_dif.db_mon_id
+_struct_ref_seq_dif.pdbx_seq_db_seq_num
+_struct_ref_seq_dif.details
+_struct_ref_seq_dif.pdbx_auth_seq_num
+_struct_ref_seq_dif.pdbx_ordinal
+1 1AS5 HYP A 2 ? UNP P56529 PRO 4 CONFLICT 2 1
+1 1AS5 HYP A 3 ? UNP P56529 PRO 5 CONFLICT 3 2
+1 1AS5 HYP A 14 ? UNP P56529 PRO 16 CONFLICT 14 3
+#
+loop_
+_chem_comp.id
+_chem_comp.type
+_chem_comp.mon_nstd_flag
+_chem_comp.name
+_chem_comp.pdbx_synonyms
+_chem_comp.formula
+_chem_comp.formula_weight
+HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.164
+HYP 'L-peptide linking' n 4-HYDROXYPROLINE HYDROXYPROLINE 'C5 H9 N O3' 131.131
+CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.154
+LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.174
+TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.191
+GLY 'PEPTIDE LINKING' y GLYCINE ? 'C2 H5 N O2' 75.067
+LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.197
+ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.210
+SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093
+ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.094
+GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.146
+NH2 NON-POLYMER . 'AMINO GROUP' ? 'H2 N' 16.022
+PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.132
+#
+loop_
+_pdbx_nmr_exptl.experiment_id
+_pdbx_nmr_exptl.conditions_id
+_pdbx_nmr_exptl.type
+_pdbx_nmr_exptl.solution_id
+1 1 NOESY 1
+2 1 TOCSY 1
+3 1 DQF-COSY 1
+4 1 PE-COSY 1
+#
+_pdbx_nmr_exptl_sample_conditions.conditions_id 1
+_pdbx_nmr_exptl_sample_conditions.temperature 277
+_pdbx_nmr_exptl_sample_conditions.pressure 1
+_pdbx_nmr_exptl_sample_conditions.pH 3.5
+_pdbx_nmr_exptl_sample_conditions.ionic_strength '6 MM'
+_pdbx_nmr_exptl_sample_conditions.pressure_units ATM
+#
+_pdbx_nmr_sample_details.solution_id 1
+_pdbx_nmr_sample_details.contents H2O/D2O
+#
+_pdbx_nmr_spectrometer.spectrometer_id 1
+_pdbx_nmr_spectrometer.model 'UNITY 500'
+_pdbx_nmr_spectrometer.manufacturer VARIAN
+_pdbx_nmr_spectrometer.field_strength 500
+#
+_pdbx_nmr_refine.entry_id 1AS5
+_pdbx_nmr_refine.method 'SIMULATED ANNEALING COMBINED WITH IRMA'
+_pdbx_nmr_refine.details 'NO REFINEMENT WAS DONE'
+#
+_pdbx_nmr_details.entry_id 1AS5
+_pdbx_nmr_details.text
+;THE STRUCTURE WAS DETERMINED ON THE SYNTHETIC PEPTIDE. NOE BUILD UP CURVES (100, 200, AND 400 MS) WERE GENERATED FOR ANALYSIS BY USING IRMA.
+;
+#
+_pdbx_nmr_ensemble.entry_id 1AS5
+_pdbx_nmr_ensemble.conformers_calculated_total_number 50
+_pdbx_nmr_ensemble.conformers_submitted_total_number 14
+_pdbx_nmr_ensemble.conformer_selection_criteria 'LEAST RESTRAINT VIOLATION, ENERGY'
+#
+_pdbx_nmr_representative.entry_id 1AS5
+_pdbx_nmr_representative.conformer_id 14
+_pdbx_nmr_representative.selection_criteria ?
+#
+loop_
+_pdbx_nmr_software.classification
+_pdbx_nmr_software.name
+_pdbx_nmr_software.version
+_pdbx_nmr_software.authors
+_pdbx_nmr_software.ordinal
+'structure solution' BIOSYM ? ? 1
+refinement BIOSYM ? ? 2
+#
+_exptl.entry_id 1AS5
+_exptl.method 'SOLUTION NMR'
+_exptl.crystals_number ?
+#
+_struct.entry_id 1AS5
+_struct.title 'SOLUTION STRUCTURE OF CONOTOXIN Y-PIIIE FROM CONUS PURPURASCENS, NMR, 14 STRUCTURES'
+_struct.pdbx_descriptor 'CONOTOXIN Y-PIIIE'
+_struct.pdbx_model_details ?
+_struct.pdbx_CASP_flag ?
+_struct.pdbx_model_type_details ?
+#
+_struct_keywords.entry_id 1AS5
+_struct_keywords.pdbx_keywords NEUROTOXIN
+_struct_keywords.text 'CONOTOXIN, NEUROTOXIN, ACETYLCHOLINE'
+#
+_struct_asym.id A
+_struct_asym.pdbx_blank_PDB_chainid_flag Y
+_struct_asym.pdbx_modified N
+_struct_asym.entity_id 1
+_struct_asym.details ?
+#
+_struct_biol.id 1
+#
+loop_
+_struct_conn.id
+_struct_conn.conn_type_id
+_struct_conn.pdbx_PDB_id
+_struct_conn.ptnr1_label_asym_id
+_struct_conn.ptnr1_label_comp_id
+_struct_conn.ptnr1_label_seq_id
+_struct_conn.ptnr1_label_atom_id
+_struct_conn.pdbx_ptnr1_label_alt_id
+_struct_conn.pdbx_ptnr1_PDB_ins_code
+_struct_conn.pdbx_ptnr1_standard_comp_id
+_struct_conn.ptnr1_symmetry
+_struct_conn.ptnr2_label_asym_id
+_struct_conn.ptnr2_label_comp_id
+_struct_conn.ptnr2_label_seq_id
+_struct_conn.ptnr2_label_atom_id
+_struct_conn.pdbx_ptnr2_label_alt_id
+_struct_conn.pdbx_ptnr2_PDB_ins_code
+_struct_conn.ptnr1_auth_asym_id
+_struct_conn.ptnr1_auth_comp_id
+_struct_conn.ptnr1_auth_seq_id
+_struct_conn.ptnr2_auth_asym_id
+_struct_conn.ptnr2_auth_comp_id
+_struct_conn.ptnr2_auth_seq_id
+_struct_conn.ptnr2_symmetry
+_struct_conn.pdbx_ptnr3_label_atom_id
+_struct_conn.pdbx_ptnr3_label_seq_id
+_struct_conn.pdbx_ptnr3_label_comp_id
+_struct_conn.pdbx_ptnr3_label_asym_id
+_struct_conn.pdbx_ptnr3_label_alt_id
+_struct_conn.pdbx_ptnr3_PDB_ins_code
+_struct_conn.details
+_struct_conn.pdbx_dist_value
+_struct_conn.pdbx_value_order
+disulf1 disulf ? A CYS 4 SG ? ? ? 1_555 A CYS 16 SG ? ? A CYS 4 A CYS 16 1_555 ? ? ? ? ? ? ? 1.999 ?
+disulf2 disulf ? A CYS 5 SG ? ? ? 1_555 A CYS 21 SG ? ? A CYS 5 A CYS 21 1_555 ? ? ? ? ? ? ? 2.001 ?
+disulf3 disulf ? A CYS 10 SG ? ? ? 1_555 A CYS 22 SG ? ? A CYS 10 A CYS 22 1_555 ? ? ? ? ? ? ? 1.992 ?
+covale1 covale ? A HYP 2 N ? ? ? 1_555 A HIS 1 C ? ? A HYP 2 A HIS 1 1_555 ? ? ? ? ? ? ? 1.398 ?
+covale2 covale ? A HYP 2 C ? ? ? 1_555 A HYP 3 N ? ? A HYP 2 A HYP 3 1_555 ? ? ? ? ? ? ? 1.395 ?
+covale3 covale ? A HYP 3 C ? ? ? 1_555 A CYS 4 N ? ? A HYP 3 A CYS 4 1_555 ? ? ? ? ? ? ? 1.367 ?
+covale4 covale ? A HYP 14 N ? ? ? 1_555 A TYR 13 C ? ? A HYP 14 A TYR 13 1_555 ? ? ? ? ? ? ? 1.416 ?
+covale5 covale ? A HYP 14 C ? ? ? 1_555 A GLY 15 N ? ? A HYP 14 A GLY 15 1_555 ? ? ? ? ? ? ? 1.329 ?
+covale6 covale ? A NH2 25 N ? ? ? 1_555 A ARG 24 C ? ? A NH2 25 A ARG 24 1_555 ? ? ? ? ? ? ? 1.325 ?
+#
+loop_
+_struct_conn_type.id
+_struct_conn_type.criteria
+_struct_conn_type.reference
+disulf ? ?
+covale ? ?
+#
+_struct_site.id AC1
+_struct_site.details 'BINDING SITE FOR RESIDUE NH2 A 25'
+_struct_site.pdbx_evidence_code SOFTWARE
+#
+_struct_site_gen.id 1
+_struct_site_gen.site_id AC1
+_struct_site_gen.pdbx_num_res 1
+_struct_site_gen.label_comp_id ARG
+_struct_site_gen.label_asym_id A
+_struct_site_gen.label_seq_id 24
+_struct_site_gen.pdbx_auth_ins_code ?
+_struct_site_gen.auth_comp_id ARG
+_struct_site_gen.auth_asym_id A
+_struct_site_gen.auth_seq_id 24
+_struct_site_gen.label_atom_id .
+_struct_site_gen.label_alt_id .
+_struct_site_gen.symmetry 1_555
+_struct_site_gen.details ?
+#
+_database_PDB_matrix.entry_id 1AS5
+_database_PDB_matrix.origx[1][1] 1.000000
+_database_PDB_matrix.origx[1][2] 0.000000
+_database_PDB_matrix.origx[1][3] 0.000000
+_database_PDB_matrix.origx[2][1] 0.000000
+_database_PDB_matrix.origx[2][2] 1.000000
+_database_PDB_matrix.origx[2][3] 0.000000
+_database_PDB_matrix.origx[3][1] 0.000000
+_database_PDB_matrix.origx[3][2] 0.000000
+_database_PDB_matrix.origx[3][3] 1.000000
+_database_PDB_matrix.origx_vector[1] 0.00000
+_database_PDB_matrix.origx_vector[2] 0.00000
+_database_PDB_matrix.origx_vector[3] 0.00000
+#
+_atom_sites.entry_id 1AS5
+_atom_sites.Cartn_transform_axes ?
+_atom_sites.fract_transf_matrix[1][1] 1.000000
+_atom_sites.fract_transf_matrix[1][2] 0.000000
+_atom_sites.fract_transf_matrix[1][3] 0.000000
+_atom_sites.fract_transf_matrix[2][1] 0.000000
+_atom_sites.fract_transf_matrix[2][2] 1.000000
+_atom_sites.fract_transf_matrix[2][3] 0.000000
+_atom_sites.fract_transf_matrix[3][1] 0.000000
+_atom_sites.fract_transf_matrix[3][2] 0.000000
+_atom_sites.fract_transf_matrix[3][3] 1.000000
+_atom_sites.fract_transf_vector[1] 0.00000
+_atom_sites.fract_transf_vector[2] 0.00000
+_atom_sites.fract_transf_vector[3] 0.00000
+#
+loop_
+_atom_type.symbol
+N
+C
+O
+H
+S
+#
+loop_
+_atom_site.group_PDB
+_atom_site.id
+_atom_site.type_symbol
+_atom_site.label_atom_id
+_atom_site.label_alt_id
+_atom_site.label_comp_id
+_atom_site.label_asym_id
+_atom_site.label_entity_id
+_atom_site.label_seq_id
+_atom_site.pdbx_PDB_ins_code
+_atom_site.Cartn_x
+_atom_site.Cartn_y
+_atom_site.Cartn_z
+_atom_site.occupancy
+_atom_site.B_iso_or_equiv
+_atom_site.Cartn_x_esd
+_atom_site.Cartn_y_esd
+_atom_site.Cartn_z_esd
+_atom_site.occupancy_esd
+_atom_site.B_iso_or_equiv_esd
+_atom_site.pdbx_formal_charge
+_atom_site.auth_seq_id
+_atom_site.auth_comp_id
+_atom_site.auth_asym_id
+_atom_site.auth_atom_id
+_atom_site.pdbx_PDB_model_num
+ATOM 1 N N . HIS A 1 1 ? 8.305 4.928 4.859 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 1
+ATOM 2 C CA . HIS A 1 1 ? 8.296 3.537 4.327 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 1
+ATOM 3 C C . HIS A 1 1 ? 8.406 3.596 2.721 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 1
+ATOM 4 O O . HIS A 1 1 ? 8.722 4.704 2.259 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 1
+ATOM 5 C CB . HIS A 1 1 ? 6.999 2.796 4.896 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 1
+ATOM 6 C CG . HIS A 1 1 ? 6.548 2.842 6.371 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 1
+ATOM 7 N ND1 . HIS A 1 1 ? 5.351 2.265 6.754 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 1
+ATOM 8 C CD2 . HIS A 1 1 ? 7.222 3.338 7.512 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 1
+ATOM 9 C CE1 . HIS A 1 1 ? 5.404 2.460 8.108 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 1
+ATOM 10 N NE2 . HIS A 1 1 ? 6.478 3.107 8.655 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 1
+ATOM 11 H H1 . HIS A 1 1 ? 9.132 5.448 4.544 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 1
+ATOM 12 H H2 . HIS A 1 1 ? 7.480 5.455 4.554 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 1
+ATOM 13 H H3 . HIS A 1 1 ? 8.311 4.940 5.885 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 1
+ATOM 14 H HA . HIS A 1 1 ? 9.256 3.093 4.677 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 1
+ATOM 15 H HB2 . HIS A 1 1 ? 6.187 3.158 4.237 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 1
+ATOM 16 H HB3 . HIS A 1 1 ? 6.947 1.692 4.671 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 1
+ATOM 17 H HD1 . HIS A 1 1 ? 4.704 1.711 6.184 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 1
+ATOM 18 H HD2 . HIS A 1 1 ? 8.195 3.807 7.499 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 1
+ATOM 19 H HE1 . HIS A 1 1 ? 4.620 2.073 8.744 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 1
+ATOM 20 H HE2 . HIS A 1 1 ? 6.701 3.303 9.638 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 1
+ATOM 21 N N . HYP A 1 2 ? 8.215 2.572 1.789 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 1
+ATOM 22 C CA . HYP A 1 2 ? 8.327 2.765 0.308 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 1
+ATOM 23 C C . HYP A 1 2 ? 7.290 3.797 -0.347 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 1
+ATOM 24 O O . HYP A 1 2 ? 6.688 4.525 0.440 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 1
+ATOM 25 C CB . HYP A 1 2 ? 8.123 1.341 -0.267 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 1
+ATOM 26 C CG . HYP A 1 2 ? 8.266 0.369 0.871 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 1
+ATOM 27 C CD . HYP A 1 2 ? 7.898 1.161 2.095 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 1
+ATOM 28 O OD1 . HYP A 1 2 ? 9.612 -0.073 0.965 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 1
+ATOM 29 H HA . HYP A 1 2 ? 9.352 3.109 0.077 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 1
+ATOM 30 H HB2 . HYP A 1 2 ? 7.142 1.336 -0.809 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 1
+ATOM 31 H HB3 . HYP A 1 2 ? 8.851 1.104 -1.054 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 1
+ATOM 32 H HG . HYP A 1 2 ? 7.601 -0.478 0.741 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 1
+ATOM 33 H HD22 . HYP A 1 2 ? 6.815 1.119 2.358 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 1
+ATOM 34 H HD23 . HYP A 1 2 ? 8.489 0.799 2.956 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 1
+ATOM 35 H HD1 . HYP A 1 2 ? 10.143 0.718 1.077 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 1
+ATOM 36 N N . HYP A 1 3 ? 6.988 3.855 -1.708 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 1
+ATOM 37 C CA . HYP A 1 3 ? 5.594 3.948 -2.250 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 1
+ATOM 38 C C . HYP A 1 3 ? 4.467 2.988 -1.688 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 1
+ATOM 39 O O . HYP A 1 3 ? 4.823 1.957 -1.110 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 1
+ATOM 40 C CB . HYP A 1 3 ? 5.888 3.570 -3.714 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 1
+ATOM 41 C CG . HYP A 1 3 ? 7.333 4.112 -4.083 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 1
+ATOM 42 C CD . HYP A 1 3 ? 8.030 3.684 -2.767 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 1
+ATOM 43 O OD1 . HYP A 1 3 ? 7.316 5.534 -4.151 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 1
+ATOM 44 H HA . HYP A 1 3 ? 5.250 4.997 -2.186 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 1
+ATOM 45 H HB2 . HYP A 1 3 ? 5.739 2.457 -3.711 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 1
+ATOM 46 H HB3 . HYP A 1 3 ? 5.058 3.964 -4.309 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 1
+ATOM 47 H HG . HYP A 1 3 ? 7.857 3.785 -5.078 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 1
+ATOM 48 H HD22 . HYP A 1 3 ? 8.293 2.595 -2.830 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 1
+ATOM 49 H HD23 . HYP A 1 3 ? 8.928 4.236 -2.364 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 1
+ATOM 50 H HD1 . HYP A 1 3 ? 8.233 5.805 -4.239 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 1
+ATOM 51 N N . CYS A 1 4 ? 3.158 3.301 -1.926 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 1
+ATOM 52 C CA . CYS A 1 4 ? 1.997 2.384 -1.567 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 1
+ATOM 53 C C . CYS A 1 4 ? 1.971 0.981 -2.278 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 1
+ATOM 54 O O . CYS A 1 4 ? 1.477 0.020 -1.682 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 1
+ATOM 55 C CB . CYS A 1 4 ? 0.677 3.134 -1.930 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 1
+ATOM 56 S SG . CYS A 1 4 ? -0.667 2.359 -1.011 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 1
+ATOM 57 H H . CYS A 1 4 ? 3.057 4.310 -2.107 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 1
+ATOM 58 H HA . CYS A 1 4 ? 1.910 2.221 -0.458 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 1
+ATOM 59 H HB2 . CYS A 1 4 ? 0.668 4.214 -1.607 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 1
+ATOM 60 H HB3 . CYS A 1 4 ? 0.478 3.050 -3.038 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 1
+ATOM 61 N N . CYS A 1 5 ? 2.430 0.921 -3.550 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 1
+ATOM 62 C CA . CYS A 1 5 ? 2.135 -0.254 -4.486 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 1
+ATOM 63 C C . CYS A 1 5 ? 3.219 -1.317 -4.821 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 1
+ATOM 64 O O . CYS A 1 5 ? 2.964 -2.286 -5.547 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 1
+ATOM 65 C CB . CYS A 1 5 ? 1.625 0.391 -5.795 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 1
+ATOM 66 S SG . CYS A 1 5 ? 0.490 -0.689 -6.698 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 1
+ATOM 67 H H . CYS A 1 5 ? 2.680 1.914 -3.801 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 1
+ATOM 68 H HA . CYS A 1 5 ? 1.412 -0.966 -4.064 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 1
+ATOM 69 H HB2 . CYS A 1 5 ? 1.087 1.366 -5.598 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 1
+ATOM 70 H HB3 . CYS A 1 5 ? 2.505 0.550 -6.467 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 1
+ATOM 71 N N . LEU A 1 6 ? 4.383 -1.095 -4.251 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 1
+ATOM 72 C CA . LEU A 1 6 ? 5.658 -1.763 -4.612 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 1
+ATOM 73 C C . LEU A 1 6 ? 5.863 -3.040 -3.741 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 1
+ATOM 74 O O . LEU A 1 6 ? 5.431 -3.125 -2.586 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 1
+ATOM 75 C CB . LEU A 1 6 ? 6.777 -0.689 -4.430 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 1
+ATOM 76 C CG . LEU A 1 6 ? 8.293 -0.891 -4.774 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 1
+ATOM 77 C CD1 . LEU A 1 6 ? 8.593 -1.199 -6.265 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 1
+ATOM 78 C CD2 . LEU A 1 6 ? 9.128 0.332 -4.319 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 1
+ATOM 79 H H . LEU A 1 6 ? 4.267 -0.170 -3.828 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 1
+ATOM 80 H HA . LEU A 1 6 ? 5.624 -2.008 -5.696 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 1
+ATOM 81 H HB2 . LEU A 1 6 ? 6.462 0.215 -4.980 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 1
+ATOM 82 H HB3 . LEU A 1 6 ? 6.728 -0.462 -3.354 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 1
+ATOM 83 H HG . LEU A 1 6 ? 8.659 -1.713 -4.146 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 1
+ATOM 84 H HD11 . LEU A 1 6 ? 8.023 -2.087 -6.594 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 1
+ATOM 85 H HD12 . LEU A 1 6 ? 8.294 -0.364 -6.926 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 1
+ATOM 86 H HD13 . LEU A 1 6 ? 9.662 -1.416 -6.449 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 1
+ATOM 87 H HD21 . LEU A 1 6 ? 9.000 0.510 -3.234 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 1
+ATOM 88 H HD22 . LEU A 1 6 ? 10.212 0.202 -4.488 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 1
+ATOM 89 H HD23 . LEU A 1 6 ? 8.801 1.252 -4.840 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 1
+ATOM 90 N N . TYR A 1 7 ? 6.572 -4.027 -4.340 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 1
+ATOM 91 C CA . TYR A 1 7 ? 6.885 -5.417 -3.811 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 1
+ATOM 92 C C . TYR A 1 7 ? 5.719 -6.440 -3.640 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 1
+ATOM 93 O O . TYR A 1 7 ? 5.955 -7.633 -3.409 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 1
+ATOM 94 C CB . TYR A 1 7 ? 7.780 -5.384 -2.567 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 1
+ATOM 95 C CG . TYR A 1 7 ? 9.264 -5.000 -2.782 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 1
+ATOM 96 C CD1 . TYR A 1 7 ? 10.202 -5.955 -3.165 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 1
+ATOM 97 C CD2 . TYR A 1 7 ? 9.686 -3.694 -2.564 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 1
+ATOM 98 C CE1 . TYR A 1 7 ? 11.527 -5.604 -3.336 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 1
+ATOM 99 C CE2 . TYR A 1 7 ? 11.013 -3.351 -2.737 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 1
+ATOM 100 C CZ . TYR A 1 7 ? 11.932 -4.303 -3.123 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 1
+ATOM 101 O OH . TYR A 1 7 ? 13.247 -3.958 -3.292 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 1
+ATOM 102 H H . TYR A 1 7 ? 6.736 -3.784 -5.299 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 1
+ATOM 103 H HA . TYR A 1 7 ? 7.474 -5.918 -4.531 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 1
+ATOM 104 H HB2 . TYR A 1 7 ? 7.225 -4.654 -1.999 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 1
+ATOM 105 H HB3 . TYR A 1 7 ? 7.766 -6.367 -2.067 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 1
+ATOM 106 H HD1 . TYR A 1 7 ? 9.922 -6.986 -3.338 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 1
+ATOM 107 H HD2 . TYR A 1 7 ? 8.999 -2.916 -2.256 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 1
+ATOM 108 H HE1 . TYR A 1 7 ? 12.248 -6.351 -3.635 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 1
+ATOM 109 H HE2 . TYR A 1 7 ? 11.331 -2.333 -2.567 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 1
+ATOM 110 H HH . TYR A 1 7 ? 13.352 -3.023 -3.103 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 1
+ATOM 111 N N . GLY A 1 8 ? 4.510 -5.935 -3.794 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 1
+ATOM 112 C CA . GLY A 1 8 ? 3.239 -6.647 -3.591 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 1
+ATOM 113 C C . GLY A 1 8 ? 2.824 -7.029 -2.140 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 1
+ATOM 114 O O . GLY A 1 8 ? 1.962 -7.907 -2.027 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 1
+ATOM 115 H H . GLY A 1 8 ? 4.651 -4.936 -3.923 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 1
+ATOM 116 H HA2 . GLY A 1 8 ? 2.455 -5.991 -4.051 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 1
+ATOM 117 H HA3 . GLY A 1 8 ? 3.309 -7.587 -4.183 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 1
+ATOM 118 N N . LYS A 1 9 ? 3.398 -6.408 -1.077 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 1
+ATOM 119 C CA . LYS A 1 9 ? 2.988 -6.667 0.342 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 1
+ATOM 120 C C . LYS A 1 9 ? 2.114 -5.427 0.724 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 1
+ATOM 121 O O . LYS A 1 9 ? 2.606 -4.294 0.625 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 1
+ATOM 122 C CB . LYS A 1 9 ? 4.260 -6.801 1.226 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 1
+ATOM 123 C CG . LYS A 1 9 ? 4.027 -7.314 2.674 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 1
+ATOM 124 C CD . LYS A 1 9 ? 5.312 -7.423 3.521 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 1
+ATOM 125 C CE . LYS A 1 9 ? 5.061 -7.932 4.949 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 1
+ATOM 126 N NZ . LYS A 1 9 ? 6.327 -8.009 5.694 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 1
+ATOM 127 H H . LYS A 1 9 ? 4.060 -5.648 -1.346 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 1
+ATOM 128 H HA . LYS A 1 9 ? 2.438 -7.652 0.433 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 1
+ATOM 129 H HB2 . LYS A 1 9 ? 4.969 -7.497 0.735 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 1
+ATOM 130 H HB3 . LYS A 1 9 ? 4.781 -5.825 1.250 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 1
+ATOM 131 H HG2 . LYS A 1 9 ? 3.302 -6.635 3.165 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 1
+ATOM 132 H HG3 . LYS A 1 9 ? 3.515 -8.294 2.616 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 1
+ATOM 133 H HD2 . LYS A 1 9 ? 6.030 -8.097 3.016 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 1
+ATOM 134 H HD3 . LYS A 1 9 ? 5.807 -6.435 3.569 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 1
+ATOM 135 H HE2 . LYS A 1 9 ? 4.363 -7.261 5.485 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 1
+ATOM 136 H HE3 . LYS A 1 9 ? 4.588 -8.931 4.930 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 1
+ATOM 137 H HZ1 . LYS A 1 9 ? 6.783 -7.093 5.761 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 1
+ATOM 138 H HZ2 . LYS A 1 9 ? 6.182 -8.347 6.652 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 1
+ATOM 139 H HZ3 . LYS A 1 9 ? 6.992 -8.648 5.244 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 1
+ATOM 140 N N . CYS A 1 10 ? 0.859 -5.642 1.186 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 1
+ATOM 141 C CA . CYS A 1 10 ? -0.166 -4.571 1.264 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 1
+ATOM 142 C C . CYS A 1 10 ? 0.136 -3.518 2.385 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 1
+ATOM 143 O O . CYS A 1 10 ? 0.125 -3.866 3.573 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 1
+ATOM 144 C CB . CYS A 1 10 ? -1.522 -5.270 1.493 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 1
+ATOM 145 S SG . CYS A 1 10 ? -2.846 -4.053 1.504 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 1
+ATOM 146 H H . CYS A 1 10 ? 0.519 -6.591 1.032 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 1
+ATOM 147 H HA . CYS A 1 10 ? -0.276 -4.142 0.248 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 1
+ATOM 148 H HB2 . CYS A 1 10 ? -1.779 -5.966 0.669 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 1
+ATOM 149 H HB3 . CYS A 1 10 ? -1.502 -5.863 2.424 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 1
+ATOM 150 N N . ARG A 1 11 ? 0.348 -2.247 1.981 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 1
+ATOM 151 C CA . ARG A 1 11 ? 0.353 -1.083 2.856 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 1
+ATOM 152 C C . ARG A 1 11 ? -0.822 -0.179 2.411 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 1
+ATOM 153 O O . ARG A 1 11 ? -0.921 0.234 1.249 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 1
+ATOM 154 C CB . ARG A 1 11 ? 1.705 -0.359 2.729 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 1
+ATOM 155 C CG . ARG A 1 11 ? 2.331 0.127 1.371 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 1
+ATOM 156 C CD . ARG A 1 11 ? 3.254 -0.876 0.648 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 1
+ATOM 157 N NE . ARG A 1 11 ? 4.483 -1.025 1.462 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 1
+ATOM 158 C CZ . ARG A 1 11 ? 5.414 -2.007 1.369 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 1
+ATOM 159 N NH1 . ARG A 1 11 ? 5.570 -2.843 0.333 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 1
+ATOM 160 N NH2 . ARG A 1 11 ? 6.251 -2.140 2.381 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 1
+ATOM 161 H H . ARG A 1 11 ? 1.206 -2.030 1.472 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 1
+ATOM 162 H HA . ARG A 1 11 ? 0.363 -1.390 3.929 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 1
+ATOM 163 H HB2 . ARG A 1 11 ? 1.646 0.496 3.359 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 1
+ATOM 164 H HB3 . ARG A 1 11 ? 2.437 -0.916 3.326 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 1
+ATOM 165 H HG2 . ARG A 1 11 ? 1.491 0.382 0.704 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 1
+ATOM 166 H HG3 . ARG A 1 11 ? 2.866 1.080 1.526 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 1
+ATOM 167 H HD2 . ARG A 1 11 ? 2.754 -1.853 0.521 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 1
+ATOM 168 H HD3 . ARG A 1 11 ? 3.515 -0.507 -0.360 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 1
+ATOM 169 H HE . ARG A 1 11 ? 4.405 -0.507 2.348 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 1
+ATOM 170 H HH11 . ARG A 1 11 ? 4.919 -2.728 -0.452 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 1
+ATOM 171 H HH12 . ARG A 1 11 ? 6.327 -3.531 0.408 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 1
+ATOM 172 H HH21 . ARG A 1 11 ? 6.129 -1.492 3.167 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 1
+ATOM 173 H HH22 . ARG A 1 11 ? 6.956 -2.881 2.300 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 1
+ATOM 174 N N . ARG A 1 12 ? -1.636 0.148 3.401 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 1
+ATOM 175 C CA . ARG A 1 12 ? -2.536 1.308 3.444 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 1
+ATOM 176 C C . ARG A 1 12 ? -1.917 2.307 4.475 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 1
+ATOM 177 O O . ARG A 1 12 ? -2.238 2.232 5.667 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 1
+ATOM 178 C CB . ARG A 1 12 ? -4.017 0.823 3.624 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 1
+ATOM 179 C CG . ARG A 1 12 ? -4.476 0.276 4.995 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 1
+ATOM 180 C CD . ARG A 1 12 ? -5.899 -0.308 5.090 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 1
+ATOM 181 N NE . ARG A 1 12 ? -6.006 -1.692 4.541 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 1
+ATOM 182 C CZ . ARG A 1 12 ? -6.407 -2.037 3.290 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 1
+ATOM 183 N NH1 . ARG A 1 12 ? -6.780 -1.191 2.319 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 1
+ATOM 184 N NH2 . ARG A 1 12 ? -6.431 -3.325 3.003 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 1
+ATOM 185 H H . ARG A 1 12 ? -1.233 -0.117 4.255 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 1
+ATOM 186 H HA . ARG A 1 12 ? -2.455 1.743 2.473 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 1
+ATOM 187 H HB2 . ARG A 1 12 ? -4.758 1.600 3.335 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 1
+ATOM 188 H HB3 . ARG A 1 12 ? -4.130 -0.003 2.903 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 1
+ATOM 189 H HG2 . ARG A 1 12 ? -3.720 -0.464 5.310 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 1
+ATOM 190 H HG3 . ARG A 1 12 ? -4.384 1.134 5.680 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 1
+ATOM 191 H HD2 . ARG A 1 12 ? -6.197 -0.340 6.154 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 1
+ATOM 192 H HD3 . ARG A 1 12 ? -6.633 0.359 4.599 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 1
+ATOM 193 H HE . ARG A 1 12 ? -5.764 -2.499 5.127 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 1
+ATOM 194 H HH11 . ARG A 1 12 ? -6.760 -0.191 2.548 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 1
+ATOM 195 H HH12 . ARG A 1 12 ? -7.057 -1.612 1.425 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 1
+ATOM 196 H HH21 . ARG A 1 12 ? -6.144 -3.968 3.750 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 1
+ATOM 197 H HH22 . ARG A 1 12 ? -6.734 -3.580 2.057 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 1
+ATOM 198 N N . TYR A 1 13 ? -0.990 3.179 4.016 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 1
+ATOM 199 C CA . TYR A 1 13 ? -0.055 3.923 4.896 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 1
+ATOM 200 C C . TYR A 1 13 ? 0.004 5.489 4.692 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 1
+ATOM 201 O O . TYR A 1 13 ? -0.506 5.888 3.643 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 1
+ATOM 202 C CB . TYR A 1 13 ? 1.419 3.342 4.623 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 1
+ATOM 203 C CG . TYR A 1 13 ? 2.137 3.422 3.226 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 1
+ATOM 204 C CD1 . TYR A 1 13 ? 1.554 4.038 2.127 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 1
+ATOM 205 C CD2 . TYR A 1 13 ? 3.507 3.160 3.158 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 1
+ATOM 206 C CE1 . TYR A 1 13 ? 2.306 4.541 1.101 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 1
+ATOM 207 C CE2 . TYR A 1 13 ? 4.270 3.665 2.122 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 1
+ATOM 208 C CZ . TYR A 1 13 ? 3.666 4.436 1.146 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 1
+ATOM 209 O OH . TYR A 1 13 ? 4.361 5.181 0.239 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 1
+ATOM 210 H H . TYR A 1 13 ? -0.728 3.068 3.029 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 1
+ATOM 211 H HA . TYR A 1 13 ? -0.428 3.881 5.960 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 1
+ATOM 212 H HB2 . TYR A 1 13 ? 2.133 3.880 5.258 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 1
+ATOM 213 H HB3 . TYR A 1 13 ? 1.508 2.356 5.062 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 1
+ATOM 214 H HD1 . TYR A 1 13 ? 0.512 4.259 2.134 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 1
+ATOM 215 H HD2 . TYR A 1 13 ? 4.033 2.630 3.936 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 1
+ATOM 216 H HE1 . TYR A 1 13 ? 1.844 5.054 0.276 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 1
+ATOM 217 H HE2 . TYR A 1 13 ? 5.334 3.468 2.115 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 1
+ATOM 218 H HH . TYR A 1 13 ? 5.301 5.050 0.382 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 1
+ATOM 219 N N . HYP A 1 14 ? 0.645 6.393 5.573 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 1
+ATOM 220 C CA . HYP A 1 14 ? 1.269 7.715 5.139 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 1
+ATOM 221 C C . HYP A 1 14 ? 1.048 8.421 3.751 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 1
+ATOM 222 O O . HYP A 1 14 ? 1.969 8.893 3.066 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 1
+ATOM 223 C CB . HYP A 1 14 ? 2.742 7.297 5.311 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 1
+ATOM 224 C CG . HYP A 1 14 ? 2.793 6.582 6.662 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 1
+ATOM 225 C CD . HYP A 1 14 ? 1.399 5.969 6.815 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 1
+ATOM 226 O OD1 . HYP A 1 14 ? 3.023 7.518 7.705 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 1
+ATOM 227 H HA . HYP A 1 14 ? 0.961 8.505 5.865 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 1
+ATOM 228 H HB2 . HYP A 1 14 ? 2.920 6.613 4.461 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 1
+ATOM 229 H HB3 . HYP A 1 14 ? 3.487 8.107 5.214 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 1
+ATOM 230 H HG . HYP A 1 14 ? 3.585 5.812 6.669 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 1
+ATOM 231 H HD22 . HYP A 1 14 ? 1.472 4.842 6.894 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 1
+ATOM 232 H HD23 . HYP A 1 14 ? 0.891 6.310 7.719 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 1
+ATOM 233 H HD1 . HYP A 1 14 ? 2.312 8.160 7.646 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 1
+ATOM 234 N N . GLY A 1 15 ? -0.237 8.570 3.445 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 1
+ATOM 235 C CA . GLY A 1 15 ? -0.752 9.216 2.220 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 1
+ATOM 236 C C . GLY A 1 15 ? -0.650 8.452 0.879 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 1
+ATOM 237 O O . GLY A 1 15 ? -0.212 8.998 -0.137 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 1
+ATOM 238 H H . GLY A 1 15 ? -0.719 7.752 3.793 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 1
+ATOM 239 H HA2 . GLY A 1 15 ? -1.868 9.368 2.415 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 1
+ATOM 240 H HA3 . GLY A 1 15 ? -0.132 10.137 2.119 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 1
+ATOM 241 N N . CYS A 1 16 ? -1.159 7.227 0.936 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 1
+ATOM 242 C CA . CYS A 1 16 ? -1.630 6.415 -0.228 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 1
+ATOM 243 C C . CYS A 1 16 ? -3.089 6.728 -0.651 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 1
+ATOM 244 O O . CYS A 1 16 ? -3.408 6.552 -1.823 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 1
+ATOM 245 C CB . CYS A 1 16 ? -1.481 4.977 0.331 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 1
+ATOM 246 S SG . CYS A 1 16 ? -2.119 3.712 -0.770 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 1
+ATOM 247 H H . CYS A 1 16 ? -1.474 7.011 1.896 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 1
+ATOM 248 H HA . CYS A 1 16 ? -1.000 6.527 -1.164 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 1
+ATOM 249 H HB2 . CYS A 1 16 ? -0.404 4.799 0.381 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 1
+ATOM 250 H HB3 . CYS A 1 16 ? -1.937 4.848 1.358 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 1
+ATOM 251 N N . SER A 1 17 ? -3.985 7.132 0.267 1.00 0.00 ? ? ? ? ? ? 17 SER A N 1
+ATOM 252 C CA . SER A 1 17 ? -5.090 6.227 0.702 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 1
+ATOM 253 C C . SER A 1 17 ? -6.341 6.073 -0.210 1.00 0.00 ? ? ? ? ? ? 17 SER A C 1
+ATOM 254 O O . SER A 1 17 ? -7.259 5.295 0.079 1.00 0.00 ? ? ? ? ? ? 17 SER A O 1
+ATOM 255 C CB . SER A 1 17 ? -5.530 6.672 2.111 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 1
+ATOM 256 O OG . SER A 1 17 ? -6.087 7.979 2.069 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 1
+ATOM 257 H H . SER A 1 17 ? -3.410 7.564 0.976 1.00 0.00 ? ? ? ? ? ? 17 SER A H 1
+ATOM 258 H HA . SER A 1 17 ? -4.660 5.219 0.761 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 1
+ATOM 259 H HB2 . SER A 1 17 ? -6.283 5.970 2.515 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 1
+ATOM 260 H HB3 . SER A 1 17 ? -4.691 6.641 2.831 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 1
+ATOM 261 H HG . SER A 1 17 ? -6.349 8.184 2.970 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 1
+ATOM 262 N N . SER A 1 18 ? -6.257 6.734 -1.363 1.00 0.00 ? ? ? ? ? ? 18 SER A N 1
+ATOM 263 C CA . SER A 1 18 ? -6.914 6.307 -2.635 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 1
+ATOM 264 C C . SER A 1 18 ? -6.416 4.934 -3.206 1.00 0.00 ? ? ? ? ? ? 18 SER A C 1
+ATOM 265 O O . SER A 1 18 ? -7.254 4.134 -3.636 1.00 0.00 ? ? ? ? ? ? 18 SER A O 1
+ATOM 266 C CB . SER A 1 18 ? -6.702 7.438 -3.670 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 1
+ATOM 267 O OG . SER A 1 18 ? -5.348 7.483 -4.104 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 1
+ATOM 268 H H . SER A 1 18 ? -5.313 7.149 -1.315 1.00 0.00 ? ? ? ? ? ? 18 SER A H 1
+ATOM 269 H HA . SER A 1 18 ? -8.003 6.225 -2.454 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 1
+ATOM 270 H HB2 . SER A 1 18 ? -7.367 7.296 -4.540 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 1
+ATOM 271 H HB3 . SER A 1 18 ? -6.941 8.410 -3.232 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 1
+ATOM 272 H HG . SER A 1 18 ? -4.822 7.638 -3.316 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 1
+ATOM 273 N N . ALA A 1 19 ? -5.072 4.704 -3.178 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 1
+ATOM 274 C CA . ALA A 1 19 ? -4.423 3.566 -3.864 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 1
+ATOM 275 C C . ALA A 1 19 ? -4.618 2.277 -3.018 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 1
+ATOM 276 O O . ALA A 1 19 ? -3.788 1.870 -2.192 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 1
+ATOM 277 C CB . ALA A 1 19 ? -2.934 3.840 -4.129 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 1
+ATOM 278 H H . ALA A 1 19 ? -4.667 5.642 -3.111 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 1
+ATOM 279 H HA . ALA A 1 19 ? -4.808 3.507 -4.899 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 1
+ATOM 280 H HB1 . ALA A 1 19 ? -2.397 4.157 -3.227 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 1
+ATOM 281 H HB2 . ALA A 1 19 ? -2.427 2.925 -4.497 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 1
+ATOM 282 H HB3 . ALA A 1 19 ? -2.798 4.620 -4.893 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 1
+ATOM 283 N N . SER A 1 20 ? -5.770 1.638 -3.284 1.00 0.00 ? ? ? ? ? ? 20 SER A N 1
+ATOM 284 C CA . SER A 1 20 ? -6.074 0.213 -2.934 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 1
+ATOM 285 C C . SER A 1 20 ? -4.851 -0.769 -2.953 1.00 0.00 ? ? ? ? ? ? 20 SER A C 1
+ATOM 286 O O . SER A 1 20 ? -4.489 -1.347 -1.927 1.00 0.00 ? ? ? ? ? ? 20 SER A O 1
+ATOM 287 C CB . SER A 1 20 ? -7.175 -0.252 -3.933 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 1
+ATOM 288 O OG . SER A 1 20 ? -6.790 -0.079 -5.293 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 1
+ATOM 289 H H . SER A 1 20 ? -6.431 2.254 -3.762 1.00 0.00 ? ? ? ? ? ? 20 SER A H 1
+ATOM 290 H HA . SER A 1 20 ? -6.509 0.162 -1.915 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 1
+ATOM 291 H HB2 . SER A 1 20 ? -7.363 -1.306 -3.771 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 1
+ATOM 292 H HB3 . SER A 1 20 ? -8.130 0.210 -3.778 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 1
+ATOM 293 H HG . SER A 1 20 ? -6.667 0.865 -5.416 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 1
+ATOM 294 N N . CYS A 1 21 ? -4.256 -0.884 -4.159 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 1
+ATOM 295 C CA . CYS A 1 21 ? -3.169 -1.849 -4.592 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 1
+ATOM 296 C C . CYS A 1 21 ? -2.924 -3.167 -3.766 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 1
+ATOM 297 O O . CYS A 1 21 ? -1.791 -3.638 -3.596 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 1
+ATOM 298 C CB . CYS A 1 21 ? -1.934 -0.942 -4.769 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 1
+ATOM 299 S SG . CYS A 1 21 ? -0.569 -1.875 -5.483 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 1
+ATOM 300 H H . CYS A 1 21 ? -4.782 -0.173 -4.699 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 1
+ATOM 301 H HA . CYS A 1 21 ? -3.386 -2.262 -5.604 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 1
+ATOM 302 H HB2 . CYS A 1 21 ? -2.172 -0.094 -5.446 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 1
+ATOM 303 H HB3 . CYS A 1 21 ? -1.616 -0.511 -3.801 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 1
+ATOM 304 N N . CYS A 1 22 ? -4.053 -3.781 -3.344 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 1
+ATOM 305 C CA . CYS A 1 22 ? -4.096 -5.010 -2.533 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 1
+ATOM 306 C C . CYS A 1 22 ? -4.955 -6.039 -3.343 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 1
+ATOM 307 O O . CYS A 1 22 ? -4.355 -6.849 -4.052 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 1
+ATOM 308 C CB . CYS A 1 22 ? -4.433 -4.564 -1.080 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 1
+ATOM 309 S SG . CYS A 1 22 ? -3.130 -3.522 -0.395 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 1
+ATOM 310 H H . CYS A 1 22 ? -4.783 -3.078 -3.150 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 1
+ATOM 311 H HA . CYS A 1 22 ? -3.113 -5.483 -2.469 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 1
+ATOM 312 H HB2 . CYS A 1 22 ? -5.354 -3.921 -0.997 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 1
+ATOM 313 H HB3 . CYS A 1 22 ? -4.440 -5.477 -0.455 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 1
+ATOM 314 N N . GLN A 1 23 ? -6.309 -5.978 -3.376 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 1
+ATOM 315 C CA . GLN A 1 23 ? -7.201 -6.046 -4.576 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 1
+ATOM 316 C C . GLN A 1 23 ? -6.548 -6.336 -5.975 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 1
+ATOM 317 O O . GLN A 1 23 ? -5.451 -5.827 -6.227 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 1
+ATOM 318 C CB . GLN A 1 23 ? -7.960 -4.678 -4.654 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 1
+ATOM 319 C CG . GLN A 1 23 ? -8.641 -4.019 -3.419 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 1
+ATOM 320 C CD . GLN A 1 23 ? -9.893 -4.742 -2.901 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 1
+ATOM 321 O OE1 . GLN A 1 23 ? -9.801 -5.657 -2.084 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 1
+ATOM 322 N NE2 . GLN A 1 23 ? -11.075 -4.353 -3.356 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 1
+ATOM 323 H H . GLN A 1 23 ? -6.699 -5.267 -2.769 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 1
+ATOM 324 H HA . GLN A 1 23 ? -7.985 -6.779 -4.349 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 1
+ATOM 325 H HB2 . GLN A 1 23 ? -7.137 -3.958 -4.931 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 1
+ATOM 326 H HB3 . GLN A 1 23 ? -8.810 -4.796 -5.398 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 1
+ATOM 327 H HG2 . GLN A 1 23 ? -7.889 -3.969 -2.606 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 1
+ATOM 328 H HG3 . GLN A 1 23 ? -8.849 -2.965 -3.667 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 1
+ATOM 329 H HE21 . GLN A 1 23 ? -11.075 -3.584 -4.036 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 1
+ATOM 330 H HE22 . GLN A 1 23 ? -11.894 -4.853 -2.993 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 1
+ATOM 331 N N . ARG A 1 24 ? -7.218 -7.123 -6.845 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 1
+ATOM 332 C CA . ARG A 1 24 ? -6.738 -7.453 -8.213 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 1
+ATOM 333 C C . ARG A 1 24 ? -8.000 -7.248 -9.092 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 1
+ATOM 334 O O . ARG A 1 24 ? -8.969 -8.003 -9.008 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 1
+ATOM 335 C CB . ARG A 1 24 ? -6.156 -8.896 -8.224 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 1
+ATOM 336 C CG . ARG A 1 24 ? -5.484 -9.369 -9.542 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 1
+ATOM 337 C CD . ARG A 1 24 ? -4.960 -10.820 -9.557 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 1
+ATOM 338 N NE . ARG A 1 24 ? -6.028 -11.841 -9.762 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 1
+ATOM 339 C CZ . ARG A 1 24 ? -5.845 -13.179 -9.902 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 1
+ATOM 340 N NH1 . ARG A 1 24 ? -4.669 -13.823 -9.880 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 1
+ATOM 341 N NH2 . ARG A 1 24 ? -6.926 -13.915 -10.076 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 1
+ATOM 342 H H . ARG A 1 24 ? -8.201 -7.262 -6.596 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 1
+ATOM 343 H HA . ARG A 1 24 ? -5.925 -6.759 -8.518 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 1
+ATOM 344 H HB2 . ARG A 1 24 ? -5.381 -8.997 -7.436 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 1
+ATOM 345 H HB3 . ARG A 1 24 ? -6.968 -9.587 -7.937 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 1
+ATOM 346 H HG2 . ARG A 1 24 ? -6.183 -9.222 -10.385 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 1
+ATOM 347 H HG3 . ARG A 1 24 ? -4.635 -8.693 -9.749 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 1
+ATOM 348 H HD2 . ARG A 1 24 ? -4.232 -10.920 -10.382 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 1
+ATOM 349 H HD3 . ARG A 1 24 ? -4.391 -11.051 -8.636 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 1
+ATOM 350 H HE . ARG A 1 24 ? -7.012 -11.557 -9.810 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 1
+ATOM 351 H HH11 . ARG A 1 24 ? -3.831 -13.246 -9.745 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 1
+ATOM 352 H HH12 . ARG A 1 24 ? -4.700 -14.842 -10.001 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 1
+ATOM 353 H HH21 . ARG A 1 24 ? -7.823 -13.417 -10.091 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 1
+ATOM 354 H HH22 . ARG A 1 24 ? -6.782 -14.926 -10.181 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 1
+ATOM 355 N N . NH2 A 1 25 ? -8.022 -6.229 -9.939 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 1
+ATOM 356 H HN1 . NH2 A 1 25 ? -8.872 -6.119 -10.503 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 1
+ATOM 357 H HN2 . NH2 A 1 25 ? -7.187 -5.633 -9.961 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 1
+ATOM 358 N N . HIS A 1 1 ? 8.170 6.243 4.720 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 2
+ATOM 359 C CA . HIS A 1 1 ? 8.273 4.974 3.949 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 2
+ATOM 360 C C . HIS A 1 1 ? 8.072 5.211 2.378 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 2
+ATOM 361 O O . HIS A 1 1 ? 7.772 6.374 2.069 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 2
+ATOM 362 C CB . HIS A 1 1 ? 7.169 3.980 4.479 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 2
+ATOM 363 C CG . HIS A 1 1 ? 7.266 3.390 5.896 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 2
+ATOM 364 N ND1 . HIS A 1 1 ? 6.153 3.234 6.718 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 2
+ATOM 365 C CD2 . HIS A 1 1 ? 8.384 2.760 6.489 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 2
+ATOM 366 C CE1 . HIS A 1 1 ? 6.713 2.530 7.751 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 2
+ATOM 367 N NE2 . HIS A 1 1 ? 8.044 2.215 7.714 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 2
+ATOM 368 H H1 . HIS A 1 1 ? 8.868 6.930 4.412 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 2
+ATOM 369 H H2 . HIS A 1 1 ? 7.247 6.678 4.611 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 2
+ATOM 370 H H3 . HIS A 1 1 ? 8.317 6.089 5.723 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 2
+ATOM 371 H HA . HIS A 1 1 ? 9.322 4.653 4.154 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 2
+ATOM 372 H HB2 . HIS A 1 1 ? 6.208 4.531 4.405 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 2
+ATOM 373 H HB3 . HIS A 1 1 ? 7.005 3.109 3.788 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 2
+ATOM 374 H HD1 . HIS A 1 1 ? 5.158 3.417 6.525 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 2
+ATOM 375 H HD2 . HIS A 1 1 ? 9.358 2.671 6.029 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 2
+ATOM 376 H HE1 . HIS A 1 1 ? 6.096 2.181 8.566 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 2
+ATOM 377 H HE2 . HIS A 1 1 ? 8.604 1.648 8.360 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 2
+ATOM 378 N N . HYP A 1 2 ? 8.150 4.280 1.328 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 2
+ATOM 379 C CA . HYP A 1 2 ? 7.800 4.627 -0.089 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 2
+ATOM 380 C C . HYP A 1 2 ? 6.266 5.024 -0.323 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 2
+ATOM 381 O O . HYP A 1 2 ? 5.602 5.269 0.692 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 2
+ATOM 382 C CB . HYP A 1 2 ? 8.190 3.356 -0.887 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 2
+ATOM 383 C CG . HYP A 1 2 ? 9.099 2.558 0.014 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 2
+ATOM 384 C CD . HYP A 1 2 ? 8.588 2.856 1.408 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 2
+ATOM 385 O OD1 . HYP A 1 2 ? 10.438 3.012 -0.117 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 2
+ATOM 386 H HA . HYP A 1 2 ? 8.434 5.473 -0.410 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 2
+ATOM 387 H HB2 . HYP A 1 2 ? 7.245 2.839 -1.209 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 2
+ATOM 388 H HB3 . HYP A 1 2 ? 8.674 3.604 -1.844 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 2
+ATOM 389 H HG . HYP A 1 2 ? 9.035 1.495 -0.227 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 2
+ATOM 390 H HD22 . HYP A 1 2 ? 7.732 2.185 1.640 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 2
+ATOM 391 H HD23 . HYP A 1 2 ? 9.401 2.676 2.134 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 2
+ATOM 392 H HD1 . HYP A 1 2 ? 10.422 3.947 0.097 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 2
+ATOM 393 N N . HYP A 1 3 ? 5.612 4.962 -1.551 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 2
+ATOM 394 C CA . HYP A 1 3 ? 4.250 4.397 -1.696 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 2
+ATOM 395 C C . HYP A 1 3 ? 3.977 2.944 -1.190 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 2
+ATOM 396 O O . HYP A 1 3 ? 4.919 2.144 -1.182 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 2
+ATOM 397 C CB . HYP A 1 3 ? 4.150 4.330 -3.213 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 2
+ATOM 398 C CG . HYP A 1 3 ? 5.023 5.495 -3.828 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 2
+ATOM 399 C CD . HYP A 1 3 ? 6.231 5.335 -2.864 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 2
+ATOM 400 O OD1 . HYP A 1 3 ? 4.404 6.752 -3.577 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 2
+ATOM 401 H HA . HYP A 1 3 ? 3.517 5.114 -1.278 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 2
+ATOM 402 H HB2 . HYP A 1 3 ? 4.428 3.265 -3.447 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 2
+ATOM 403 H HB3 . HYP A 1 3 ? 3.077 4.354 -3.345 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 2
+ATOM 404 H HG . HYP A 1 3 ? 5.252 5.513 -4.974 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 2
+ATOM 405 H HD22 . HYP A 1 3 ? 6.877 4.483 -3.214 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 2
+ATOM 406 H HD23 . HYP A 1 3 ? 6.898 6.213 -2.625 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 2
+ATOM 407 H HD1 . HYP A 1 3 ? 4.224 6.775 -2.634 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 2
+ATOM 408 N N . CYS A 1 4 ? 2.699 2.599 -0.937 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 2
+ATOM 409 C CA . CYS A 1 4 ? 2.278 1.262 -0.479 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 2
+ATOM 410 C C . CYS A 1 4 ? 2.498 0.047 -1.433 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 2
+ATOM 411 O O . CYS A 1 4 ? 2.964 -1.000 -0.977 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 2
+ATOM 412 C CB . CYS A 1 4 ? 0.741 1.595 -0.274 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 2
+ATOM 413 S SG . CYS A 1 4 ? -0.117 2.867 -1.208 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 2
+ATOM 414 H H . CYS A 1 4 ? 2.038 3.367 -0.731 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 2
+ATOM 415 H HA . CYS A 1 4 ? 2.800 0.979 0.497 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 2
+ATOM 416 H HB2 . CYS A 1 4 ? 0.131 0.751 -0.654 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 2
+ATOM 417 H HB3 . CYS A 1 4 ? 0.481 2.015 0.728 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 2
+ATOM 418 N N . CYS A 1 5 ? 2.135 0.194 -2.716 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 2
+ATOM 419 C CA . CYS A 1 5 ? 1.969 -1.012 -3.656 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 2
+ATOM 420 C C . CYS A 1 5 ? 3.209 -1.858 -4.098 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 2
+ATOM 421 O O . CYS A 1 5 ? 3.111 -2.830 -4.858 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 2
+ATOM 422 C CB . CYS A 1 5 ? 1.230 -0.499 -4.899 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 2
+ATOM 423 S SG . CYS A 1 5 ? 0.213 -1.851 -5.535 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 2
+ATOM 424 H H . CYS A 1 5 ? 1.863 1.220 -2.774 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 2
+ATOM 425 H HA . CYS A 1 5 ? 1.425 -1.856 -3.185 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 2
+ATOM 426 H HB2 . CYS A 1 5 ? 0.557 0.375 -4.661 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 2
+ATOM 427 H HB3 . CYS A 1 5 ? 2.008 -0.220 -5.653 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 2
+ATOM 428 N N . LEU A 1 6 ? 4.326 -1.453 -3.543 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 2
+ATOM 429 C CA . LEU A 1 6 ? 5.693 -1.946 -3.809 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 2
+ATOM 430 C C . LEU A 1 6 ? 6.026 -3.140 -2.866 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 2
+ATOM 431 O O . LEU A 1 6 ? 5.527 -3.249 -1.740 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 2
+ATOM 432 C CB . LEU A 1 6 ? 6.618 -0.702 -3.596 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 2
+ATOM 433 C CG . LEU A 1 6 ? 8.165 -0.658 -3.845 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 2
+ATOM 434 C CD1 . LEU A 1 6 ? 8.594 -0.964 -5.303 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 2
+ATOM 435 C CD2 . LEU A 1 6 ? 8.751 0.711 -3.408 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 2
+ATOM 436 H H . LEU A 1 6 ? 4.049 -0.600 -3.047 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 2
+ATOM 437 H HA . LEU A 1 6 ? 5.750 -2.234 -4.879 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 2
+ATOM 438 H HB2 . LEU A 1 6 ? 6.191 0.125 -4.191 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 2
+ATOM 439 H HB3 . LEU A 1 6 ? 6.473 -0.455 -2.532 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 2
+ATOM 440 H HG . LEU A 1 6 ? 8.632 -1.387 -3.165 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 2
+ATOM 441 H HD11 . LEU A 1 6 ? 8.202 -1.949 -5.615 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 2
+ATOM 442 H HD12 . LEU A 1 6 ? 8.188 -0.219 -6.013 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 2
+ATOM 443 H HD13 . LEU A 1 6 ? 9.693 -0.997 -5.426 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 2
+ATOM 444 H HD21 . LEU A 1 6 ? 8.513 0.927 -2.349 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 2
+ATOM 445 H HD22 . LEU A 1 6 ? 9.851 0.755 -3.498 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 2
+ATOM 446 H HD23 . LEU A 1 6 ? 8.320 1.538 -4.005 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 2
+ATOM 447 N N . TYR A 1 7 ? 6.911 -4.030 -3.371 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 2
+ATOM 448 C CA . TYR A 1 7 ? 7.378 -5.341 -2.763 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 2
+ATOM 449 C C . TYR A 1 7 ? 6.368 -6.523 -2.670 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 2
+ATOM 450 O O . TYR A 1 7 ? 6.783 -7.678 -2.523 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 2
+ATOM 451 C CB . TYR A 1 7 ? 8.136 -5.157 -1.446 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 2
+ATOM 452 C CG . TYR A 1 7 ? 9.558 -4.556 -1.551 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 2
+ATOM 453 C CD1 . TYR A 1 7 ? 10.665 -5.370 -1.773 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 2
+ATOM 454 C CD2 . TYR A 1 7 ? 9.749 -3.186 -1.410 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 2
+ATOM 455 C CE1 . TYR A 1 7 ? 11.930 -4.821 -1.859 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 2
+ATOM 456 C CE2 . TYR A 1 7 ? 11.016 -2.645 -1.497 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 2
+ATOM 457 C CZ . TYR A 1 7 ? 12.106 -3.460 -1.721 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 2
+ATOM 458 O OH . TYR A 1 7 ? 13.362 -2.919 -1.806 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 2
+ATOM 459 H H . TYR A 1 7 ? 7.119 -3.788 -4.321 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 2
+ATOM 460 H HA . TYR A 1 7 ? 8.100 -5.763 -3.410 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 2
+ATOM 461 H HB2 . TYR A 1 7 ? 7.436 -4.504 -0.952 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 2
+ATOM 462 H HB3 . TYR A 1 7 ? 8.220 -6.121 -0.917 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 2
+ATOM 463 H HD1 . TYR A 1 7 ? 10.566 -6.442 -1.885 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 2
+ATOM 464 H HD2 . TYR A 1 7 ? 8.923 -2.511 -1.226 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 2
+ATOM 465 H HE1 . TYR A 1 7 ? 12.783 -5.460 -2.033 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 2
+ATOM 466 H HE2 . TYR A 1 7 ? 11.155 -1.579 -1.386 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 2
+ATOM 467 H HH . TYR A 1 7 ? 13.301 -1.969 -1.687 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 2
+ATOM 468 N N . GLY A 1 8 ? 5.096 -6.194 -2.810 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 2
+ATOM 469 C CA . GLY A 1 8 ? 3.982 -7.126 -3.075 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 2
+ATOM 470 C C . GLY A 1 8 ? 3.033 -7.483 -1.901 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 2
+ATOM 471 O O . GLY A 1 8 ? 2.313 -8.474 -2.060 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 2
+ATOM 472 H H . GLY A 1 8 ? 5.123 -5.209 -3.062 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 2
+ATOM 473 H HA2 . GLY A 1 8 ? 3.377 -6.645 -3.887 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 2
+ATOM 474 H HA3 . GLY A 1 8 ? 4.400 -8.079 -3.472 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 2
+ATOM 475 N N . LYS A 1 9 ? 3.002 -6.713 -0.782 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 2
+ATOM 476 C CA . LYS A 1 9 ? 2.032 -6.946 0.346 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 2
+ATOM 477 C C . LYS A 1 9 ? 1.485 -5.542 0.748 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 2
+ATOM 478 O O . LYS A 1 9 ? 2.280 -4.628 1.006 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 2
+ATOM 479 C CB . LYS A 1 9 ? 2.753 -7.647 1.533 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 2
+ATOM 480 C CG . LYS A 1 9 ? 1.826 -8.219 2.650 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 2
+ATOM 481 C CD . LYS A 1 9 ? 2.505 -8.974 3.820 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 2
+ATOM 482 C CE . LYS A 1 9 ? 3.055 -8.110 4.973 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 2
+ATOM 483 N NZ . LYS A 1 9 ? 3.646 -8.955 6.023 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 2
+ATOM 484 H H . LYS A 1 9 ? 3.729 -5.960 -0.798 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 2
+ATOM 485 H HA . LYS A 1 9 ? 1.201 -7.643 0.023 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 2
+ATOM 486 H HB2 . LYS A 1 9 ? 3.354 -8.493 1.149 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 2
+ATOM 487 H HB3 . LYS A 1 9 ? 3.485 -6.952 1.983 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 2
+ATOM 488 H HG2 . LYS A 1 9 ? 1.171 -7.405 3.021 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 2
+ATOM 489 H HG3 . LYS A 1 9 ? 1.122 -8.917 2.158 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 2
+ATOM 490 H HD2 . LYS A 1 9 ? 1.748 -9.658 4.248 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 2
+ATOM 491 H HD3 . LYS A 1 9 ? 3.299 -9.642 3.436 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 2
+ATOM 492 H HE2 . LYS A 1 9 ? 3.819 -7.409 4.590 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 2
+ATOM 493 H HE3 . LYS A 1 9 ? 2.247 -7.492 5.405 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 2
+ATOM 494 H HZ1 . LYS A 1 9 ? 4.420 -9.522 5.661 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 2
+ATOM 495 H HZ2 . LYS A 1 9 ? 4.017 -8.392 6.797 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 2
+ATOM 496 H HZ3 . LYS A 1 9 ? 2.955 -9.601 6.421 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 2
+ATOM 497 N N . CYS A 1 10 ? 0.145 -5.407 0.844 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 2
+ATOM 498 C CA . CYS A 1 10 ? -0.536 -4.148 0.687 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 2
+ATOM 499 C C . CYS A 1 10 ? -0.711 -3.379 2.027 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 2
+ATOM 500 O O . CYS A 1 10 ? -1.240 -3.967 2.979 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 2
+ATOM 501 C CB . CYS A 1 10 ? -1.858 -4.664 0.090 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 2
+ATOM 502 S SG . CYS A 1 10 ? -1.869 -5.965 -1.196 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 2
+ATOM 503 H H . CYS A 1 10 ? -0.457 -5.991 0.252 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 2
+ATOM 504 H HA . CYS A 1 10 ? -0.064 -3.583 -0.148 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 2
+ATOM 505 H HB2 . CYS A 1 10 ? -2.652 -4.889 0.807 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 2
+ATOM 506 H HB3 . CYS A 1 10 ? -2.197 -3.811 -0.442 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 2
+ATOM 507 N N . ARG A 1 11 ? -0.316 -2.083 2.088 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 2
+ATOM 508 C CA . ARG A 1 11 ? -0.407 -1.215 3.263 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 2
+ATOM 509 C C . ARG A 1 11 ? -1.186 0.081 2.884 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 2
+ATOM 510 O O . ARG A 1 11 ? -1.240 0.513 1.727 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 2
+ATOM 511 C CB . ARG A 1 11 ? 1.052 -0.964 3.732 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 2
+ATOM 512 C CG . ARG A 1 11 ? 2.200 -0.399 2.853 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 2
+ATOM 513 C CD . ARG A 1 11 ? 3.024 -1.402 2.007 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 2
+ATOM 514 N NE . ARG A 1 11 ? 3.831 -2.226 2.942 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 2
+ATOM 515 C CZ . ARG A 1 11 ? 4.768 -3.158 2.639 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 2
+ATOM 516 N NH1 . ARG A 1 11 ? 5.149 -3.515 1.405 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 2
+ATOM 517 N NH2 . ARG A 1 11 ? 5.359 -3.767 3.650 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 2
+ATOM 518 H H . ARG A 1 11 ? 0.643 -1.812 1.863 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 2
+ATOM 519 H HA . ARG A 1 11 ? -0.846 -1.748 4.129 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 2
+ATOM 520 H HB2 . ARG A 1 11 ? 1.028 -0.334 4.594 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 2
+ATOM 521 H HB3 . ARG A 1 11 ? 1.401 -1.862 4.225 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 2
+ATOM 522 H HG2 . ARG A 1 11 ? 1.774 0.409 2.238 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 2
+ATOM 523 H HG3 . ARG A 1 11 ? 2.893 0.077 3.547 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 2
+ATOM 524 H HD2 . ARG A 1 11 ? 2.381 -2.029 1.361 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 2
+ATOM 525 H HD3 . ARG A 1 11 ? 3.713 -0.866 1.327 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 2
+ATOM 526 H HE . ARG A 1 11 ? 3.604 -2.018 3.927 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 2
+ATOM 527 H HH11 . ARG A 1 11 ? 4.684 -3.037 0.624 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 2
+ATOM 528 H HH12 . ARG A 1 11 ? 5.873 -4.238 1.338 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 2
+ATOM 529 H HH21 . ARG A 1 11 ? 5.062 -3.488 4.592 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 2
+ATOM 530 H HH22 . ARG A 1 11 ? 6.067 -4.470 3.412 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 2
+ATOM 531 N N . ARG A 1 12 ? -1.772 0.688 3.919 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 2
+ATOM 532 C CA . ARG A 1 12 ? -2.471 1.988 3.921 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 2
+ATOM 533 C C . ARG A 1 12 ? -1.779 2.985 4.921 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 2
+ATOM 534 O O . ARG A 1 12 ? -2.319 3.268 5.998 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 2
+ATOM 535 C CB . ARG A 1 12 ? -4.025 1.785 4.046 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 2
+ATOM 536 C CG . ARG A 1 12 ? -4.597 1.224 5.361 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 2
+ATOM 537 C CD . ARG A 1 12 ? -6.130 1.032 5.396 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 2
+ATOM 538 N NE . ARG A 1 12 ? -6.469 0.026 6.430 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 2
+ATOM 539 C CZ . ARG A 1 12 ? -7.463 0.096 7.354 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 2
+ATOM 540 N NH1 . ARG A 1 12 ? -8.321 1.113 7.513 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 2
+ATOM 541 N NH2 . ARG A 1 12 ? -7.594 -0.932 8.172 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 2
+ATOM 542 H H . ARG A 1 12 ? -1.715 0.139 4.731 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 2
+ATOM 543 H HA . ARG A 1 12 ? -2.284 2.350 2.939 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 2
+ATOM 544 H HB2 . ARG A 1 12 ? -4.575 2.723 3.807 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 2
+ATOM 545 H HB3 . ARG A 1 12 ? -4.309 1.041 3.281 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 2
+ATOM 546 H HG2 . ARG A 1 12 ? -4.052 0.269 5.498 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 2
+ATOM 547 H HG3 . ARG A 1 12 ? -4.273 1.891 6.175 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 2
+ATOM 548 H HD2 . ARG A 1 12 ? -6.633 1.997 5.589 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 2
+ATOM 549 H HD3 . ARG A 1 12 ? -6.526 0.661 4.430 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 2
+ATOM 550 H HE . ARG A 1 12 ? -5.908 -0.831 6.443 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 2
+ATOM 551 H HH11 . ARG A 1 12 ? -8.214 1.909 6.874 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 2
+ATOM 552 H HH12 . ARG A 1 12 ? -9.018 1.015 8.260 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 2
+ATOM 553 H HH21 . ARG A 1 12 ? -6.933 -1.707 8.046 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 2
+ATOM 554 H HH22 . ARG A 1 12 ? -8.346 -0.872 8.867 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 2
+ATOM 555 N N . TYR A 1 13 ? -0.582 3.500 4.545 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 2
+ATOM 556 C CA . TYR A 1 13 ? 0.296 4.317 5.436 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 2
+ATOM 557 C C . TYR A 1 13 ? 0.538 5.837 5.040 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 2
+ATOM 558 O O . TYR A 1 13 ? 0.071 6.166 3.949 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 2
+ATOM 559 C CB . TYR A 1 13 ? 1.733 3.601 5.474 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 2
+ATOM 560 C CG . TYR A 1 13 ? 2.563 3.288 4.197 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 2
+ATOM 561 C CD1 . TYR A 1 13 ? 2.466 3.992 2.995 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 2
+ATOM 562 C CD2 . TYR A 1 13 ? 3.613 2.392 4.344 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 2
+ATOM 563 C CE1 . TYR A 1 13 ? 3.379 3.793 1.985 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 2
+ATOM 564 C CE2 . TYR A 1 13 ? 4.489 2.163 3.315 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 2
+ATOM 565 C CZ . TYR A 1 13 ? 4.411 2.892 2.164 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 2
+ATOM 566 O OH . TYR A 1 13 ? 5.412 2.708 1.261 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 2
+ATOM 567 H H . TYR A 1 13 ? -0.146 2.965 3.784 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 2
+ATOM 568 H HA . TYR A 1 13 ? -0.226 4.467 6.424 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 2
+ATOM 569 H HB2 . TYR A 1 13 ? 2.462 4.230 6.000 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 2
+ATOM 570 H HB3 . TYR A 1 13 ? 1.731 2.755 6.177 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 2
+ATOM 571 H HD1 . TYR A 1 13 ? 1.697 4.730 2.826 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 2
+ATOM 572 H HD2 . TYR A 1 13 ? 3.767 1.796 5.229 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 2
+ATOM 573 H HE1 . TYR A 1 13 ? 3.233 4.325 1.053 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 2
+ATOM 574 H HE2 . TYR A 1 13 ? 5.215 1.374 3.388 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 2
+ATOM 575 H HH . TYR A 1 13 ? 5.262 3.281 0.506 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 2
+ATOM 576 N N . HYP A 1 14 ? 1.294 6.781 5.796 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 2
+ATOM 577 C CA . HYP A 1 14 ? 2.297 7.741 5.158 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 2
+ATOM 578 C C . HYP A 1 14 ? 2.342 8.120 3.637 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 2
+ATOM 579 O O . HYP A 1 14 ? 3.373 8.112 2.945 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 2
+ATOM 580 C CB . HYP A 1 14 ? 3.582 6.998 5.573 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 2
+ATOM 581 C CG . HYP A 1 14 ? 3.370 6.706 7.060 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 2
+ATOM 582 C CD . HYP A 1 14 ? 1.853 6.507 7.180 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 2
+ATOM 583 O OD1 . HYP A 1 14 ? 3.778 7.814 7.848 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 2
+ATOM 584 H HA . HYP A 1 14 ? 2.210 8.741 5.651 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 2
+ATOM 585 H HB2 . HYP A 1 14 ? 3.567 6.088 4.947 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 2
+ATOM 586 H HB3 . HYP A 1 14 ? 4.536 7.500 5.336 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 2
+ATOM 587 H HG . HYP A 1 14 ? 3.928 5.803 7.367 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 2
+ATOM 588 H HD22 . HYP A 1 14 ? 1.666 5.437 7.488 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 2
+ATOM 589 H HD23 . HYP A 1 14 ? 1.401 7.157 7.932 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 2
+ATOM 590 H HD1 . HYP A 1 14 ? 3.267 8.564 7.535 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 2
+ATOM 591 N N . GLY A 1 15 ? 1.169 8.565 3.203 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 2
+ATOM 592 C CA . GLY A 1 15 ? 0.881 9.016 1.831 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 2
+ATOM 593 C C . GLY A 1 15 ? 0.688 7.923 0.759 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 2
+ATOM 594 O O . GLY A 1 15 ? 1.370 7.905 -0.270 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 2
+ATOM 595 H H . GLY A 1 15 ? 0.462 8.041 3.699 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 2
+ATOM 596 H HA2 . GLY A 1 15 ? -0.101 9.596 1.914 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 2
+ATOM 597 H HA3 . GLY A 1 15 ? 1.783 9.598 1.534 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 2
+ATOM 598 N N . CYS A 1 16 ? -0.304 7.091 1.049 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 2
+ATOM 599 C CA . CYS A 1 16 ? -0.864 6.045 0.160 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 2
+ATOM 600 C C . CYS A 1 16 ? -2.351 6.335 -0.234 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 2
+ATOM 601 O O . CYS A 1 16 ? -2.753 5.932 -1.327 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 2
+ATOM 602 C CB . CYS A 1 16 ? -0.707 4.762 1.017 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 2
+ATOM 603 S SG . CYS A 1 16 ? -1.480 3.439 0.136 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 2
+ATOM 604 H H . CYS A 1 16 ? -0.623 7.204 2.024 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 2
+ATOM 605 H HA . CYS A 1 16 ? -0.300 5.904 -0.814 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 2
+ATOM 606 H HB2 . CYS A 1 16 ? 0.346 4.469 1.077 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 2
+ATOM 607 H HB3 . CYS A 1 16 ? -1.116 4.845 2.063 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 2
+ATOM 608 N N . SER A 1 17 ? -3.201 6.877 0.663 1.00 0.00 ? ? ? ? ? ? 17 SER A N 2
+ATOM 609 C CA . SER A 1 17 ? -4.268 6.042 1.287 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 2
+ATOM 610 C C . SER A 1 17 ? -5.577 5.780 0.487 1.00 0.00 ? ? ? ? ? ? 17 SER A C 2
+ATOM 611 O O . SER A 1 17 ? -6.494 5.105 0.973 1.00 0.00 ? ? ? ? ? ? 17 SER A O 2
+ATOM 612 C CB . SER A 1 17 ? -4.557 6.707 2.650 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 2
+ATOM 613 O OG . SER A 1 17 ? -5.519 5.964 3.390 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 2
+ATOM 614 H H . SER A 1 17 ? -2.636 7.396 1.323 1.00 0.00 ? ? ? ? ? ? 17 SER A H 2
+ATOM 615 H HA . SER A 1 17 ? -3.832 5.051 1.468 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 2
+ATOM 616 H HB2 . SER A 1 17 ? -3.637 6.784 3.262 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 2
+ATOM 617 H HB3 . SER A 1 17 ? -4.916 7.742 2.505 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 2
+ATOM 618 H HG . SER A 1 17 ? -5.139 5.091 3.516 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 2
+ATOM 619 N N . SER A 1 18 ? -5.568 6.261 -0.750 1.00 0.00 ? ? ? ? ? ? 18 SER A N 2
+ATOM 620 C CA . SER A 1 18 ? -6.478 5.805 -1.841 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 2
+ATOM 621 C C . SER A 1 18 ? -6.217 4.377 -2.440 1.00 0.00 ? ? ? ? ? ? 18 SER A C 2
+ATOM 622 O O . SER A 1 18 ? -7.045 3.936 -3.245 1.00 0.00 ? ? ? ? ? ? 18 SER A O 2
+ATOM 623 C CB . SER A 1 18 ? -6.383 6.860 -2.963 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 2
+ATOM 624 O OG . SER A 1 18 ? -6.818 8.136 -2.507 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 2
+ATOM 625 H H . SER A 1 18 ? -4.605 6.619 -0.857 1.00 0.00 ? ? ? ? ? ? 18 SER A H 2
+ATOM 626 H HA . SER A 1 18 ? -7.516 5.816 -1.459 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 2
+ATOM 627 H HB2 . SER A 1 18 ? -5.348 6.932 -3.346 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 2
+ATOM 628 H HB3 . SER A 1 18 ? -7.010 6.567 -3.827 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 2
+ATOM 629 H HG . SER A 1 18 ? -6.234 8.371 -1.783 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 2
+ATOM 630 N N . ALA A 1 19 ? -5.118 3.671 -2.056 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 2
+ATOM 631 C CA . ALA A 1 19 ? -4.561 2.507 -2.784 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 2
+ATOM 632 C C . ALA A 1 19 ? -5.475 1.255 -2.749 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 2
+ATOM 633 O O . ALA A 1 19 ? -5.402 0.359 -1.894 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 2
+ATOM 634 C CB . ALA A 1 19 ? -3.181 2.179 -2.197 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 2
+ATOM 635 H H . ALA A 1 19 ? -4.483 4.278 -1.542 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 2
+ATOM 636 H HA . ALA A 1 19 ? -4.335 2.832 -3.821 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 2
+ATOM 637 H HB1 . ALA A 1 19 ? -2.496 3.045 -2.264 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 2
+ATOM 638 H HB2 . ALA A 1 19 ? -3.231 1.917 -1.119 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 2
+ATOM 639 H HB3 . ALA A 1 19 ? -2.668 1.334 -2.692 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 2
+ATOM 640 N N . SER A 1 20 ? -6.290 1.212 -3.809 1.00 0.00 ? ? ? ? ? ? 20 SER A N 2
+ATOM 641 C CA . SER A 1 20 ? -6.823 -0.052 -4.395 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 2
+ATOM 642 C C . SER A 1 20 ? -5.777 -1.167 -4.706 1.00 0.00 ? ? ? ? ? ? 20 SER A C 2
+ATOM 643 O O . SER A 1 20 ? -6.068 -2.318 -4.417 1.00 0.00 ? ? ? ? ? ? 20 SER A O 2
+ATOM 644 C CB . SER A 1 20 ? -7.511 0.264 -5.733 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 2
+ATOM 645 O OG . SER A 1 20 ? -6.617 0.847 -6.674 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 2
+ATOM 646 H H . SER A 1 20 ? -6.630 2.151 -4.028 1.00 0.00 ? ? ? ? ? ? 20 SER A H 2
+ATOM 647 H HA . SER A 1 20 ? -7.609 -0.465 -3.733 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 2
+ATOM 648 H HB2 . SER A 1 20 ? -7.870 -0.695 -6.103 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 2
+ATOM 649 H HB3 . SER A 1 20 ? -8.369 0.899 -5.636 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 2
+ATOM 650 H HG . SER A 1 20 ? -7.120 0.958 -7.484 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 2
+ATOM 651 N N . CYS A 1 21 ? -4.637 -0.762 -5.302 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 2
+ATOM 652 C CA . CYS A 1 21 ? -3.607 -1.600 -6.026 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 2
+ATOM 653 C C . CYS A 1 21 ? -3.049 -2.909 -5.357 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 2
+ATOM 654 O O . CYS A 1 21 ? -2.102 -3.514 -5.873 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 2
+ATOM 655 C CB . CYS A 1 21 ? -2.497 -0.556 -6.366 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 2
+ATOM 656 S SG . CYS A 1 21 ? -0.955 -1.225 -7.036 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 2
+ATOM 657 H H . CYS A 1 21 ? -4.946 0.190 -5.525 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 2
+ATOM 658 H HA . CYS A 1 21 ? -4.031 -1.952 -6.991 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 2
+ATOM 659 H HB2 . CYS A 1 21 ? -2.860 0.142 -7.147 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 2
+ATOM 660 H HB3 . CYS A 1 21 ? -2.237 0.066 -5.484 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 2
+ATOM 661 N N . CYS A 1 22 ? -3.744 -3.415 -4.326 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 2
+ATOM 662 C CA . CYS A 1 22 ? -3.821 -4.855 -3.972 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 2
+ATOM 663 C C . CYS A 1 22 ? -4.619 -5.711 -5.028 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 2
+ATOM 664 O O . CYS A 1 22 ? -4.011 -6.536 -5.712 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 2
+ATOM 665 C CB . CYS A 1 22 ? -4.295 -4.835 -2.498 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 2
+ATOM 666 S SG . CYS A 1 22 ? -3.783 -6.329 -1.661 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 2
+ATOM 667 H H . CYS A 1 22 ? -4.514 -2.757 -4.050 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 2
+ATOM 668 H HA . CYS A 1 22 ? -2.811 -5.263 -3.976 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 2
+ATOM 669 H HB2 . CYS A 1 22 ? -3.714 -4.083 -1.920 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 2
+ATOM 670 H HB3 . CYS A 1 22 ? -5.375 -4.565 -2.377 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 2
+ATOM 671 N N . GLN A 1 23 ? -5.921 -5.428 -5.252 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 2
+ATOM 672 C CA . GLN A 1 23 ? -6.716 -5.501 -6.509 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 2
+ATOM 673 C C . GLN A 1 23 ? -5.898 -5.562 -7.844 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 2
+ATOM 674 O O . GLN A 1 23 ? -4.829 -4.943 -7.901 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 2
+ATOM 675 C CB . GLN A 1 23 ? -7.633 -4.227 -6.521 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 2
+ATOM 676 C CG . GLN A 1 23 ? -8.451 -3.790 -5.259 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 2
+ATOM 677 C CD . GLN A 1 23 ? -9.844 -4.412 -5.099 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 2
+ATOM 678 O OE1 . GLN A 1 23 ? -10.838 -3.873 -5.584 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 2
+ATOM 679 N NE2 . GLN A 1 23 ? -9.946 -5.546 -4.422 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 2
+ATOM 680 H H . GLN A 1 23 ? -6.314 -4.707 -4.658 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 2
+ATOM 681 H HA . GLN A 1 23 ? -7.395 -6.351 -6.416 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 2
+ATOM 682 H HB2 . GLN A 1 23 ? -6.899 -3.379 -6.691 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 2
+ATOM 683 H HB3 . GLN A 1 23 ? -8.408 -4.378 -7.338 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 2
+ATOM 684 H HG2 . GLN A 1 23 ? -7.830 -3.951 -4.348 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 2
+ATOM 685 H HG3 . GLN A 1 23 ? -8.505 -2.686 -5.277 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 2
+ATOM 686 H HE21 . GLN A 1 23 ? -9.075 -5.936 -4.047 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 2
+ATOM 687 H HE22 . GLN A 1 23 ? -10.888 -5.942 -4.329 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 2
+ATOM 688 N N . ARG A 1 24 ? -6.391 -6.297 -8.864 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 2
+ATOM 689 C CA . ARG A 1 24 ? -5.747 -6.408 -10.208 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 2
+ATOM 690 C C . ARG A 1 24 ? -6.843 -6.073 -11.280 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 2
+ATOM 691 O O . ARG A 1 24 ? -6.751 -5.018 -11.905 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 2
+ATOM 692 C CB . ARG A 1 24 ? -4.990 -7.776 -10.292 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 2
+ATOM 693 C CG . ARG A 1 24 ? -4.159 -8.031 -11.576 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 2
+ATOM 694 C CD . ARG A 1 24 ? -3.474 -9.409 -11.683 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 2
+ATOM 695 N NE . ARG A 1 24 ? -2.219 -9.516 -10.884 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 2
+ATOM 696 C CZ . ARG A 1 24 ? -1.347 -10.558 -10.891 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 2
+ATOM 697 N NH1 . ARG A 1 24 ? -1.460 -11.679 -11.618 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 2
+ATOM 698 N NH2 . ARG A 1 24 ? -0.289 -10.457 -10.108 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 2
+ATOM 699 H H . ARG A 1 24 ? -7.365 -6.585 -8.729 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 2
+ATOM 700 H HA . ARG A 1 24 ? -4.980 -5.616 -10.325 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 2
+ATOM 701 H HB2 . ARG A 1 24 ? -4.280 -7.870 -9.444 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 2
+ATOM 702 H HB3 . ARG A 1 24 ? -5.733 -8.583 -10.154 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 2
+ATOM 703 H HG2 . ARG A 1 24 ? -4.835 -7.922 -12.443 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 2
+ATOM 704 H HG3 . ARG A 1 24 ? -3.405 -7.231 -11.696 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 2
+ATOM 705 H HD2 . ARG A 1 24 ? -4.167 -10.226 -11.406 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 2
+ATOM 706 H HD3 . ARG A 1 24 ? -3.218 -9.592 -12.742 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 2
+ATOM 707 H HE . ARG A 1 24 ? -1.941 -8.756 -10.253 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 2
+ATOM 708 H HH11 . ARG A 1 24 ? -2.284 -11.752 -12.225 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 2
+ATOM 709 H HH12 . ARG A 1 24 ? -0.713 -12.374 -11.510 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 2
+ATOM 710 H HH21 . ARG A 1 24 ? -0.208 -9.597 -9.554 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 2
+ATOM 711 H HH22 . ARG A 1 24 ? 0.366 -11.246 -10.117 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 2
+ATOM 712 N N . NH2 A 1 25 ? -7.874 -6.883 -11.545 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 2
+ATOM 713 H HN1 . NH2 A 1 25 ? -8.533 -6.567 -12.265 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 2
+ATOM 714 H HN2 . NH2 A 1 25 ? -7.923 -7.755 -11.007 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 2
+ATOM 715 N N . HIS A 1 1 ? 8.788 5.821 4.882 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 3
+ATOM 716 C CA . HIS A 1 1 ? 8.783 4.467 4.263 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 3
+ATOM 717 C C . HIS A 1 1 ? 8.804 4.540 2.663 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 3
+ATOM 718 O O . HIS A 1 1 ? 8.747 5.690 2.201 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 3
+ATOM 719 C CB . HIS A 1 1 ? 7.490 3.707 4.752 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 3
+ATOM 720 C CG . HIS A 1 1 ? 7.362 3.258 6.218 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 3
+ATOM 721 N ND1 . HIS A 1 1 ? 6.161 3.331 6.918 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 3
+ATOM 722 C CD2 . HIS A 1 1 ? 8.315 2.548 6.987 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 3
+ATOM 723 C CE1 . HIS A 1 1 ? 6.507 2.666 8.064 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 3
+ATOM 724 N NE2 . HIS A 1 1 ? 7.778 2.178 8.207 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 3
+ATOM 725 H H1 . HIS A 1 1 ? 9.612 6.363 4.600 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 3
+ATOM 726 H H2 . HIS A 1 1 ? 7.960 6.363 4.613 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 3
+ATOM 727 H H3 . HIS A 1 1 ? 8.796 5.767 5.907 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 3
+ATOM 728 H HA . HIS A 1 1 ? 9.741 4.030 4.634 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 3
+ATOM 729 H HB2 . HIS A 1 1 ? 6.636 4.379 4.526 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 3
+ATOM 730 H HB3 . HIS A 1 1 ? 7.261 2.802 4.126 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 3
+ATOM 731 H HD1 . HIS A 1 1 ? 5.226 3.615 6.594 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 3
+ATOM 732 H HD2 . HIS A 1 1 ? 9.307 2.286 6.651 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 3
+ATOM 733 H HE1 . HIS A 1 1 ? 5.767 2.482 8.828 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 3
+ATOM 734 H HE2 . HIS A 1 1 ? 8.183 1.609 8.958 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 3
+ATOM 735 N N . HYP A 1 2 ? 8.835 3.488 1.731 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 3
+ATOM 736 C CA . HYP A 1 2 ? 8.711 3.706 0.250 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 3
+ATOM 737 C C . HYP A 1 2 ? 7.327 4.367 -0.227 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 3
+ATOM 738 O O . HYP A 1 2 ? 6.712 5.025 0.621 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 3
+ATOM 739 C CB . HYP A 1 2 ? 8.928 2.287 -0.342 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 3
+ATOM 740 C CG . HYP A 1 2 ? 9.619 1.488 0.735 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 3
+ATOM 741 C CD . HYP A 1 2 ? 9.029 2.034 2.017 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 3
+ATOM 742 O OD1 . HYP A 1 2 ? 11.019 1.723 0.704 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 3
+ATOM 743 H HA . HYP A 1 2 ? 9.536 4.365 -0.074 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 3
+ATOM 744 H HB2 . HYP A 1 2 ? 7.929 1.891 -0.674 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 3
+ATOM 745 H HB3 . HYP A 1 2 ? 9.510 2.316 -1.277 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 3
+ATOM 746 H HG . HYP A 1 2 ? 9.412 0.423 0.610 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 3
+ATOM 747 H HD22 . HYP A 1 2 ? 8.057 1.530 2.222 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 3
+ATOM 748 H HD23 . HYP A 1 2 ? 9.727 1.833 2.849 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 3
+ATOM 749 H HD1 . HYP A 1 2 ? 11.130 2.671 0.808 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 3
+ATOM 750 N N . HYP A 1 3 ? 6.740 4.133 -1.458 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 3
+ATOM 751 C CA . HYP A 1 3 ? 5.284 3.879 -1.614 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 3
+ATOM 752 C C . HYP A 1 3 ? 4.557 2.661 -0.888 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 3
+ATOM 753 O O . HYP A 1 3 ? 5.189 1.648 -0.582 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 3
+ATOM 754 C CB . HYP A 1 3 ? 5.291 3.608 -3.114 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 3
+ATOM 755 C CG . HYP A 1 3 ? 6.411 4.477 -3.815 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 3
+ATOM 756 C CD . HYP A 1 3 ? 7.503 4.230 -2.747 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 3
+ATOM 757 O OD1 . HYP A 1 3 ? 6.047 5.852 -3.781 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 3
+ATOM 758 H HA . HYP A 1 3 ? 4.751 4.824 -1.397 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 3
+ATOM 759 H HB2 . HYP A 1 3 ? 5.373 2.494 -3.181 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 3
+ATOM 760 H HB3 . HYP A 1 3 ? 4.271 3.834 -3.364 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 3
+ATOM 761 H HG . HYP A 1 3 ? 6.705 4.284 -4.932 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 3
+ATOM 762 H HD22 . HYP A 1 3 ? 7.999 3.238 -2.936 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 3
+ATOM 763 H HD23 . HYP A 1 3 ? 8.309 5.005 -2.569 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 3
+ATOM 764 H HD1 . HYP A 1 3 ? 6.816 6.338 -4.086 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 3
+ATOM 765 N N . CYS A 1 4 ? 3.213 2.764 -0.766 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 3
+ATOM 766 C CA . CYS A 1 4 ? 2.233 1.786 -0.222 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 3
+ATOM 767 C C . CYS A 1 4 ? 1.939 0.449 -0.992 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 3
+ATOM 768 O O . CYS A 1 4 ? 1.402 -0.480 -0.384 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 3
+ATOM 769 C CB . CYS A 1 4 ? 1.033 2.806 -0.430 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 3
+ATOM 770 S SG . CYS A 1 4 ? 1.381 4.602 -0.278 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 3
+ATOM 771 H H . CYS A 1 4 ? 2.824 3.720 -0.763 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 3
+ATOM 772 H HA . CYS A 1 4 ? 2.375 1.510 0.878 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 3
+ATOM 773 H HB2 . CYS A 1 4 ? 0.545 2.643 -1.443 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 3
+ATOM 774 H HB3 . CYS A 1 4 ? 0.265 2.791 0.372 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 3
+ATOM 775 N N . CYS A 1 5 ? 2.187 0.405 -2.312 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 3
+ATOM 776 C CA . CYS A 1 5 ? 1.734 -0.754 -3.209 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 3
+ATOM 777 C C . CYS A 1 5 ? 2.715 -1.930 -3.516 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 3
+ATOM 778 O O . CYS A 1 5 ? 2.505 -2.788 -4.385 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 3
+ATOM 779 C CB . CYS A 1 5 ? 1.332 -0.102 -4.532 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 3
+ATOM 780 S SG . CYS A 1 5 ? 0.143 -1.200 -5.330 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 3
+ATOM 781 H H . CYS A 1 5 ? 2.502 1.376 -2.563 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 3
+ATOM 782 H HA . CYS A 1 5 ? 0.890 -1.346 -2.781 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 3
+ATOM 783 H HB2 . CYS A 1 5 ? 0.885 0.923 -4.382 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 3
+ATOM 784 H HB3 . CYS A 1 5 ? 2.262 -0.054 -5.154 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 3
+ATOM 785 N N . LEU A 1 6 ? 3.745 -1.949 -2.696 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 3
+ATOM 786 C CA . LEU A 1 6 ? 4.959 -2.820 -2.786 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 3
+ATOM 787 C C . LEU A 1 6 ? 4.588 -4.334 -2.740 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 3
+ATOM 788 O O . LEU A 1 6 ? 3.678 -4.773 -2.032 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 3
+ATOM 789 C CB . LEU A 1 6 ? 5.882 -2.338 -1.620 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 3
+ATOM 790 C CG . LEU A 1 6 ? 7.309 -2.860 -1.241 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 3
+ATOM 791 C CD1 . LEU A 1 6 ? 8.001 -1.905 -0.227 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 3
+ATOM 792 C CD2 . LEU A 1 6 ? 7.300 -4.293 -0.661 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 3
+ATOM 793 H H . LEU A 1 6 ? 3.646 -1.039 -2.224 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 3
+ATOM 794 H HA . LEU A 1 6 ? 5.486 -2.581 -3.742 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 3
+ATOM 795 H HB2 . LEU A 1 6 ? 6.077 -1.305 -1.939 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 3
+ATOM 796 H HB3 . LEU A 1 6 ? 5.288 -2.301 -0.690 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 3
+ATOM 797 H HG . LEU A 1 6 ? 7.952 -2.803 -2.133 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 3
+ATOM 798 H HD11 . LEU A 1 6 ? 8.074 -0.882 -0.641 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 3
+ATOM 799 H HD12 . LEU A 1 6 ? 7.426 -1.826 0.715 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 3
+ATOM 800 H HD13 . LEU A 1 6 ? 9.032 -2.216 0.023 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 3
+ATOM 801 H HD21 . LEU A 1 6 ? 6.665 -4.349 0.244 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 3
+ATOM 802 H HD22 . LEU A 1 6 ? 6.873 -5.001 -1.391 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 3
+ATOM 803 H HD23 . LEU A 1 6 ? 8.309 -4.665 -0.409 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 3
+ATOM 804 N N . TYR A 1 7 ? 5.329 -5.058 -3.577 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 3
+ATOM 805 C CA . TYR A 1 7 ? 5.289 -6.511 -3.828 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 3
+ATOM 806 C C . TYR A 1 7 ? 4.834 -7.541 -2.760 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 3
+ATOM 807 O O . TYR A 1 7 ? 4.068 -8.467 -3.043 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 3
+ATOM 808 C CB . TYR A 1 7 ? 6.678 -6.844 -4.465 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 3
+ATOM 809 C CG . TYR A 1 7 ? 7.957 -6.574 -3.618 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 3
+ATOM 810 C CD1 . TYR A 1 7 ? 8.452 -7.529 -2.739 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 3
+ATOM 811 C CD2 . TYR A 1 7 ? 8.606 -5.347 -3.714 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 3
+ATOM 812 C CE1 . TYR A 1 7 ? 9.589 -7.275 -1.997 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 3
+ATOM 813 C CE2 . TYR A 1 7 ? 9.745 -5.101 -2.973 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 3
+ATOM 814 C CZ . TYR A 1 7 ? 10.238 -6.064 -2.117 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 3
+ATOM 815 O OH . TYR A 1 7 ? 11.364 -5.814 -1.378 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 3
+ATOM 816 H H . TYR A 1 7 ? 6.218 -4.650 -3.807 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 3
+ATOM 817 H HA . TYR A 1 7 ? 4.536 -6.610 -4.570 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 3
+ATOM 818 H HB2 . TYR A 1 7 ? 6.654 -7.902 -4.690 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 3
+ATOM 819 H HB3 . TYR A 1 7 ? 6.762 -6.315 -5.436 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 3
+ATOM 820 H HD1 . TYR A 1 7 ? 7.951 -8.476 -2.602 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 3
+ATOM 821 H HD2 . TYR A 1 7 ? 8.238 -4.550 -4.351 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 3
+ATOM 822 H HE1 . TYR A 1 7 ? 9.966 -8.024 -1.316 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 3
+ATOM 823 H HE2 . TYR A 1 7 ? 10.246 -4.148 -3.055 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 3
+ATOM 824 H HH . TYR A 1 7 ? 11.680 -4.930 -1.580 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 3
+ATOM 825 N N . GLY A 1 8 ? 5.388 -7.317 -1.588 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 3
+ATOM 826 C CA . GLY A 1 8 ? 5.396 -8.243 -0.450 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 3
+ATOM 827 C C . GLY A 1 8 ? 4.205 -8.057 0.526 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 3
+ATOM 828 O O . GLY A 1 8 ? 3.733 -9.093 1.008 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 3
+ATOM 829 H H . GLY A 1 8 ? 6.009 -6.542 -1.793 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 3
+ATOM 830 H HA2 . GLY A 1 8 ? 5.327 -9.284 -0.847 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 3
+ATOM 831 H HA3 . GLY A 1 8 ? 6.404 -8.141 0.040 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 3
+ATOM 832 N N . LYS A 1 9 ? 3.720 -6.811 0.825 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 3
+ATOM 833 C CA . LYS A 1 9 ? 2.505 -6.599 1.705 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 3
+ATOM 834 C C . LYS A 1 9 ? 1.840 -5.260 1.248 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 3
+ATOM 835 O O . LYS A 1 9 ? 2.551 -4.264 1.066 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 3
+ATOM 836 C CB . LYS A 1 9 ? 2.905 -6.508 3.216 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 3
+ATOM 837 C CG . LYS A 1 9 ? 1.737 -6.623 4.234 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 3
+ATOM 838 C CD . LYS A 1 9 ? 2.165 -6.548 5.717 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 3
+ATOM 839 C CE . LYS A 1 9 ? 1.025 -6.668 6.750 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 3
+ATOM 840 N NZ . LYS A 1 9 ? 0.259 -5.419 6.947 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 3
+ATOM 841 H H . LYS A 1 9 ? 4.172 -6.042 0.266 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 3
+ATOM 842 H HA . LYS A 1 9 ? 1.792 -7.478 1.624 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 3
+ATOM 843 H HB2 . LYS A 1 9 ? 3.619 -7.326 3.435 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 3
+ATOM 844 H HB3 . LYS A 1 9 ? 3.476 -5.577 3.398 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 3
+ATOM 845 H HG2 . LYS A 1 9 ? 1.011 -5.818 4.012 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 3
+ATOM 846 H HG3 . LYS A 1 9 ? 1.189 -7.564 4.040 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 3
+ATOM 847 H HD2 . LYS A 1 9 ? 2.881 -7.368 5.913 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 3
+ATOM 848 H HD3 . LYS A 1 9 ? 2.733 -5.618 5.902 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 3
+ATOM 849 H HE2 . LYS A 1 9 ? 0.335 -7.496 6.500 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 3
+ATOM 850 H HE3 . LYS A 1 9 ? 1.470 -6.948 7.722 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 3
+ATOM 851 H HZ1 . LYS A 1 9 ? 0.864 -4.646 7.245 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 3
+ATOM 852 H HZ2 . LYS A 1 9 ? -0.209 -5.122 6.083 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 3
+ATOM 853 H HZ3 . LYS A 1 9 ? -0.468 -5.530 7.663 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 3
+ATOM 854 N N . CYS A 1 10 ? 0.488 -5.238 1.175 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 3
+ATOM 855 C CA . CYS A 1 10 ? -0.259 -3.974 0.948 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 3
+ATOM 856 C C . CYS A 1 10 ? -0.536 -3.214 2.287 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 3
+ATOM 857 O O . CYS A 1 10 ? -1.655 -3.230 2.816 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 3
+ATOM 858 C CB . CYS A 1 10 ? -1.487 -4.322 0.078 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 3
+ATOM 859 S SG . CYS A 1 10 ? -2.636 -2.929 -0.069 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 3
+ATOM 860 H H . CYS A 1 10 ? 0.198 -6.054 0.631 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 3
+ATOM 861 H HA . CYS A 1 10 ? 0.284 -3.342 0.211 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 3
+ATOM 862 H HB2 . CYS A 1 10 ? -1.095 -4.565 -0.924 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 3
+ATOM 863 H HB3 . CYS A 1 10 ? -2.068 -5.222 0.299 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 3
+ATOM 864 N N . ARG A 1 11 ? 0.471 -2.449 2.783 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 3
+ATOM 865 C CA . ARG A 1 11 ? 0.354 -1.209 3.535 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 3
+ATOM 866 C C . ARG A 1 11 ? -0.430 -0.093 2.775 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 3
+ATOM 867 O O . ARG A 1 11 ? -0.274 0.106 1.567 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 3
+ATOM 868 C CB . ARG A 1 11 ? 1.819 -0.762 3.769 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 3
+ATOM 869 C CG . ARG A 1 11 ? 2.895 -0.701 2.604 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 3
+ATOM 870 C CD . ARG A 1 11 ? 4.010 -1.763 2.562 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 3
+ATOM 871 N NE . ARG A 1 11 ? 4.891 -1.548 3.723 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 3
+ATOM 872 C CZ . ARG A 1 11 ? 6.111 -2.090 3.962 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 3
+ATOM 873 N NH1 . ARG A 1 11 ? 6.798 -2.878 3.123 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 3
+ATOM 874 N NH2 . ARG A 1 11 ? 6.674 -1.815 5.123 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 3
+ATOM 875 H H . ARG A 1 11 ? 1.474 -2.450 2.581 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 3
+ATOM 876 H HA . ARG A 1 11 ? 0.008 -1.432 4.564 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 3
+ATOM 877 H HB2 . ARG A 1 11 ? 1.738 0.229 4.206 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 3
+ATOM 878 H HB3 . ARG A 1 11 ? 2.190 -1.326 4.645 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 3
+ATOM 879 H HG2 . ARG A 1 11 ? 2.362 -0.804 1.652 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 3
+ATOM 880 H HG3 . ARG A 1 11 ? 3.320 0.297 2.526 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 3
+ATOM 881 H HD2 . ARG A 1 11 ? 3.584 -2.777 2.606 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 3
+ATOM 882 H HD3 . ARG A 1 11 ? 4.588 -1.685 1.622 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 3
+ATOM 883 H HE . ARG A 1 11 ? 4.421 -1.001 4.449 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 3
+ATOM 884 H HH11 . ARG A 1 11 ? 6.354 -3.087 2.222 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 3
+ATOM 885 H HH12 . ARG A 1 11 ? 7.712 -3.210 3.450 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 3
+ATOM 886 H HH21 . ARG A 1 11 ? 6.142 -1.210 5.759 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 3
+ATOM 887 H HH22 . ARG A 1 11 ? 7.597 -2.228 5.296 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 3
+ATOM 888 N N . ARG A 1 12 ? -1.196 0.623 3.583 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 3
+ATOM 889 C CA . ARG A 1 12 ? -1.942 1.843 3.271 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 3
+ATOM 890 C C . ARG A 1 12 ? -1.461 2.953 4.266 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 3
+ATOM 891 O O . ARG A 1 12 ? -2.110 3.154 5.300 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 3
+ATOM 892 C CB . ARG A 1 12 ? -3.480 1.545 3.163 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 3
+ATOM 893 C CG . ARG A 1 12 ? -4.245 1.106 4.437 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 3
+ATOM 894 C CD . ARG A 1 12 ? -5.713 0.668 4.276 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 3
+ATOM 895 N NE . ARG A 1 12 ? -6.654 1.823 4.196 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 3
+ATOM 896 C CZ . ARG A 1 12 ? -7.430 2.317 5.197 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 3
+ATOM 897 N NH1 . ARG A 1 12 ? -7.515 1.830 6.443 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 3
+ATOM 898 N NH2 . ARG A 1 12 ? -8.169 3.374 4.916 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 3
+ATOM 899 H H . ARG A 1 12 ? -1.274 0.182 4.456 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 3
+ATOM 900 H HA . ARG A 1 12 ? -1.601 2.084 2.297 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 3
+ATOM 901 H HB2 . ARG A 1 12 ? -4.039 2.406 2.740 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 3
+ATOM 902 H HB3 . ARG A 1 12 ? -3.572 0.725 2.431 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 3
+ATOM 903 H HG2 . ARG A 1 12 ? -3.662 0.260 4.840 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 3
+ATOM 904 H HG3 . ARG A 1 12 ? -4.155 1.925 5.167 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 3
+ATOM 905 H HD2 . ARG A 1 12 ? -5.839 0.022 3.387 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 3
+ATOM 906 H HD3 . ARG A 1 12 ? -5.985 0.026 5.136 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 3
+ATOM 907 H HE . ARG A 1 12 ? -6.727 2.358 3.324 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 3
+ATOM 908 H HH11 . ARG A 1 12 ? -6.939 1.008 6.656 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 3
+ATOM 909 H HH12 . ARG A 1 12 ? -8.150 2.318 7.085 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 3
+ATOM 910 H HH21 . ARG A 1 12 ? -8.099 3.741 3.960 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 3
+ATOM 911 H HH22 . ARG A 1 12 ? -8.752 3.742 5.675 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 3
+ATOM 912 N N . TYR A 1 13 ? -0.311 3.625 3.984 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 3
+ATOM 913 C CA . TYR A 1 13 ? 0.365 4.547 4.946 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 3
+ATOM 914 C C . TYR A 1 13 ? 0.354 6.102 4.611 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 3
+ATOM 915 O O . TYR A 1 13 ? -0.428 6.447 3.727 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 3
+ATOM 916 C CB . TYR A 1 13 ? 1.846 3.970 5.150 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 3
+ATOM 917 C CG . TYR A 1 13 ? 2.823 3.578 4.019 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 3
+ATOM 918 C CD1 . TYR A 1 13 ? 3.160 4.464 3.000 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 3
+ATOM 919 C CD2 . TYR A 1 13 ? 3.604 2.445 4.201 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 3
+ATOM 920 C CE1 . TYR A 1 13 ? 4.209 4.198 2.144 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 3
+ATOM 921 C CE2 . TYR A 1 13 ? 4.689 2.227 3.397 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 3
+ATOM 922 C CZ . TYR A 1 13 ? 4.984 3.078 2.375 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 3
+ATOM 923 O OH . TYR A 1 13 ? 6.049 2.720 1.619 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 3
+ATOM 924 H H . TYR A 1 13 ? 0.207 3.340 3.130 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 3
+ATOM 925 H HA . TYR A 1 13 ? -0.279 4.634 5.871 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 3
+ATOM 926 H HB2 . TYR A 1 13 ? 2.477 4.705 5.657 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 3
+ATOM 927 H HB3 . TYR A 1 13 ? 1.819 3.178 5.901 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 3
+ATOM 928 H HD1 . TYR A 1 13 ? 2.643 5.404 2.876 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 3
+ATOM 929 H HD2 . TYR A 1 13 ? 3.423 1.729 4.992 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 3
+ATOM 930 H HE1 . TYR A 1 13 ? 4.399 4.883 1.319 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 3
+ATOM 931 H HE2 . TYR A 1 13 ? 5.291 1.347 3.499 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 3
+ATOM 932 H HH . TYR A 1 13 ? 6.171 3.370 0.923 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 3
+ATOM 933 N N . HYP A 1 14 ? 1.058 7.119 5.288 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 3
+ATOM 934 C CA . HYP A 1 14 ? 1.938 8.142 4.593 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 3
+ATOM 935 C C . HYP A 1 14 ? 1.978 8.557 3.081 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 3
+ATOM 936 O O . HYP A 1 14 ? 2.838 9.383 2.742 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 3
+ATOM 937 C CB . HYP A 1 14 ? 3.311 7.581 5.067 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 3
+ATOM 938 C CG . HYP A 1 14 ? 3.106 7.359 6.569 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 3
+ATOM 939 C CD . HYP A 1 14 ? 1.625 6.972 6.684 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 3
+ATOM 940 O OD1 . HYP A 1 14 ? 3.350 8.561 7.287 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 3
+ATOM 941 H HA . HYP A 1 14 ? 1.729 9.137 5.042 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 3
+ATOM 942 H HB2 . HYP A 1 14 ? 3.504 6.623 4.568 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 3
+ATOM 943 H HB3 . HYP A 1 14 ? 4.197 8.185 4.814 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 3
+ATOM 944 H HG . HYP A 1 14 ? 3.770 6.560 6.945 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 3
+ATOM 945 H HD22 . HYP A 1 14 ? 1.541 5.905 7.044 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 3
+ATOM 946 H HD23 . HYP A 1 14 ? 1.086 7.599 7.400 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 3
+ATOM 947 H HD1 . HYP A 1 14 ? 3.161 8.363 8.207 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 3
+ATOM 948 N N . GLY A 1 15 ? 1.044 8.121 2.224 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 3
+ATOM 949 C CA . GLY A 1 15 ? 0.944 8.515 0.812 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 3
+ATOM 950 C C . GLY A 1 15 ? -0.141 7.868 -0.099 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 3
+ATOM 951 O O . GLY A 1 15 ? 0.067 7.823 -1.315 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 3
+ATOM 952 H H . GLY A 1 15 ? 0.596 7.252 2.471 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 3
+ATOM 953 H HA2 . GLY A 1 15 ? 0.768 9.628 0.838 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 3
+ATOM 954 H HA3 . GLY A 1 15 ? 1.919 8.114 0.411 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 3
+ATOM 955 N N . CYS A 1 16 ? -1.241 7.308 0.471 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 3
+ATOM 956 C CA . CYS A 1 16 ? -1.864 6.054 0.032 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 3
+ATOM 957 C C . CYS A 1 16 ? -3.405 6.258 0.111 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 3
+ATOM 958 O O . CYS A 1 16 ? -4.062 6.145 -0.922 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 3
+ATOM 959 C CB . CYS A 1 16 ? -1.253 5.050 1.114 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 3
+ATOM 960 S SG . CYS A 1 16 ? 0.516 5.140 1.428 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 3
+ATOM 961 H H . CYS A 1 16 ? -1.224 7.172 1.491 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 3
+ATOM 962 H HA . CYS A 1 16 ? -1.661 5.755 -1.071 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 3
+ATOM 963 H HB2 . CYS A 1 16 ? -1.783 4.126 1.508 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 3
+ATOM 964 H HB3 . CYS A 1 16 ? -0.994 4.483 0.345 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 3
+ATOM 965 N N . SER A 1 17 ? -4.041 6.440 1.300 1.00 0.00 ? ? ? ? ? ? 17 SER A N 3
+ATOM 966 C CA . SER A 1 17 ? -4.612 5.208 1.960 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 3
+ATOM 967 C C . SER A 1 17 ? -5.936 4.592 1.411 1.00 0.00 ? ? ? ? ? ? 17 SER A C 3
+ATOM 968 O O . SER A 1 17 ? -6.369 3.519 1.846 1.00 0.00 ? ? ? ? ? ? 17 SER A O 3
+ATOM 969 C CB . SER A 1 17 ? -4.720 5.484 3.474 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 3
+ATOM 970 O OG . SER A 1 17 ? -5.116 4.314 4.181 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 3
+ATOM 971 H H . SER A 1 17 ? -3.428 7.072 1.841 1.00 0.00 ? ? ? ? ? ? 17 SER A H 3
+ATOM 972 H HA . SER A 1 17 ? -3.838 4.434 1.743 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 3
+ATOM 973 H HB2 . SER A 1 17 ? -3.757 5.823 3.900 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 3
+ATOM 974 H HB3 . SER A 1 17 ? -5.450 6.292 3.661 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 3
+ATOM 975 H HG . SER A 1 17 ? -5.969 4.062 3.820 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 3
+ATOM 976 N N . SER A 1 18 ? -6.463 5.265 0.399 1.00 0.00 ? ? ? ? ? ? 18 SER A N 3
+ATOM 977 C CA . SER A 1 18 ? -7.388 4.680 -0.612 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 3
+ATOM 978 C C . SER A 1 18 ? -6.781 3.661 -1.649 1.00 0.00 ? ? ? ? ? ? 18 SER A C 3
+ATOM 979 O O . SER A 1 18 ? -7.576 3.125 -2.428 1.00 0.00 ? ? ? ? ? ? 18 SER A O 3
+ATOM 980 C CB . SER A 1 18 ? -7.996 5.881 -1.371 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 3
+ATOM 981 O OG . SER A 1 18 ? -8.734 6.729 -0.498 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 3
+ATOM 982 H H . SER A 1 18 ? -5.767 6.008 0.226 1.00 0.00 ? ? ? ? ? ? 18 SER A H 3
+ATOM 983 H HA . SER A 1 18 ? -8.215 4.173 -0.082 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 3
+ATOM 984 H HB2 . SER A 1 18 ? -7.203 6.461 -1.880 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 3
+ATOM 985 H HB3 . SER A 1 18 ? -8.676 5.530 -2.169 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 3
+ATOM 986 H HG . SER A 1 18 ? -8.109 7.041 0.160 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 3
+ATOM 987 N N . ALA A 1 19 ? -5.443 3.398 -1.658 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 3
+ATOM 988 C CA . ALA A 1 19 ? -4.689 2.863 -2.827 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 3
+ATOM 989 C C . ALA A 1 19 ? -5.045 1.405 -3.281 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 3
+ATOM 990 O O . ALA A 1 19 ? -4.353 0.416 -2.991 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 3
+ATOM 991 C CB . ALA A 1 19 ? -3.198 2.995 -2.454 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 3
+ATOM 992 H H . ALA A 1 19 ? -4.954 4.022 -1.007 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 3
+ATOM 993 H HA . ALA A 1 19 ? -4.837 3.560 -3.676 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 3
+ATOM 994 H HB1 . ALA A 1 19 ? -2.905 4.037 -2.232 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 3
+ATOM 995 H HB2 . ALA A 1 19 ? -2.945 2.376 -1.573 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 3
+ATOM 996 H HB3 . ALA A 1 19 ? -2.555 2.644 -3.283 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 3
+ATOM 997 N N . SER A 1 20 ? -6.154 1.338 -4.041 1.00 0.00 ? ? ? ? ? ? 20 SER A N 3
+ATOM 998 C CA . SER A 1 20 ? -6.640 0.035 -4.674 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 3
+ATOM 999 C C . SER A 1 20 ? -5.944 -0.545 -5.921 1.00 0.00 ? ? ? ? ? ? 20 SER A C 3
+ATOM 1000 O O . SER A 1 20 ? -6.271 -1.627 -6.431 1.00 0.00 ? ? ? ? ? ? 20 SER A O 3
+ATOM 1001 C CB . SER A 1 20 ? -8.119 0.160 -5.011 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 3
+ATOM 1002 O OG . SER A 1 20 ? -8.696 -0.946 -5.704 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 3
+ATOM 1003 H H . SER A 1 20 ? -6.733 2.058 -3.581 1.00 0.00 ? ? ? ? ? ? 20 SER A H 3
+ATOM 1004 H HA . SER A 1 20 ? -6.546 -0.745 -3.913 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 3
+ATOM 1005 H HB2 . SER A 1 20 ? -8.534 0.143 -4.011 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 3
+ATOM 1006 H HB3 . SER A 1 20 ? -8.301 1.080 -5.598 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 3
+ATOM 1007 H HG . SER A 1 20 ? -8.263 -0.977 -6.560 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 3
+ATOM 1008 N N . CYS A 1 21 ? -4.810 0.059 -6.188 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 3
+ATOM 1009 C CA . CYS A 1 21 ? -3.562 -0.618 -6.688 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 3
+ATOM 1010 C C . CYS A 1 21 ? -3.293 -2.102 -6.181 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 3
+ATOM 1011 O O . CYS A 1 21 ? -2.673 -2.870 -6.923 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 3
+ATOM 1012 C CB . CYS A 1 21 ? -2.406 0.327 -6.283 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 3
+ATOM 1013 S SG . CYS A 1 21 ? -0.795 -0.282 -6.836 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 3
+ATOM 1014 H H . CYS A 1 21 ? -5.008 1.008 -5.841 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 3
+ATOM 1015 H HA . CYS A 1 21 ? -3.556 -0.563 -7.792 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 3
+ATOM 1016 H HB2 . CYS A 1 21 ? -2.521 1.320 -6.764 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 3
+ATOM 1017 H HB3 . CYS A 1 21 ? -2.410 0.499 -5.189 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 3
+ATOM 1018 N N . CYS A 1 22 ? -3.774 -2.467 -4.956 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 3
+ATOM 1019 C CA . CYS A 1 22 ? -3.619 -3.793 -4.320 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 3
+ATOM 1020 C C . CYS A 1 22 ? -4.935 -4.627 -4.424 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 3
+ATOM 1021 O O . CYS A 1 22 ? -5.030 -5.503 -5.286 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 3
+ATOM 1022 C CB . CYS A 1 22 ? -2.983 -3.462 -2.941 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 3
+ATOM 1023 S SG . CYS A 1 22 ? -3.988 -3.391 -1.464 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 3
+ATOM 1024 H H . CYS A 1 22 ? -4.171 -1.699 -4.390 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 3
+ATOM 1025 H HA . CYS A 1 22 ? -2.863 -4.379 -4.861 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 3
+ATOM 1026 H HB2 . CYS A 1 22 ? -2.316 -4.303 -2.664 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 3
+ATOM 1027 H HB3 . CYS A 1 22 ? -2.483 -2.462 -2.930 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 3
+ATOM 1028 N N . GLN A 1 23 ? -5.948 -4.313 -3.596 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 3
+ATOM 1029 C CA . GLN A 1 23 ? -7.407 -4.550 -3.710 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 3
+ATOM 1030 C C . GLN A 1 23 ? -7.953 -5.031 -5.098 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 3
+ATOM 1031 O O . GLN A 1 23 ? -7.374 -4.654 -6.122 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 3
+ATOM 1032 C CB . GLN A 1 23 ? -8.049 -3.181 -3.317 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 3
+ATOM 1033 C CG . GLN A 1 23 ? -7.587 -2.384 -2.051 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 3
+ATOM 1034 C CD . GLN A 1 23 ? -8.075 -2.952 -0.715 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 3
+ATOM 1035 O OE1 . GLN A 1 23 ? -7.450 -3.839 -0.136 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 3
+ATOM 1036 N NE2 . GLN A 1 23 ? -9.191 -2.457 -0.203 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 3
+ATOM 1037 H H . GLN A 1 23 ? -5.761 -3.484 -3.014 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 3
+ATOM 1038 H HA . GLN A 1 23 ? -7.684 -5.244 -2.910 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 3
+ATOM 1039 H HB2 . GLN A 1 23 ? -7.755 -2.545 -4.205 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 3
+ATOM 1040 H HB3 . GLN A 1 23 ? -9.161 -3.355 -3.158 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 3
+ATOM 1041 H HG2 . GLN A 1 23 ? -6.473 -2.334 -2.047 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 3
+ATOM 1042 H HG3 . GLN A 1 23 ? -7.854 -1.324 -2.199 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 3
+ATOM 1043 H HE21 . GLN A 1 23 ? -9.656 -1.719 -0.743 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 3
+ATOM 1044 H HE22 . GLN A 1 23 ? -9.500 -2.851 0.692 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 3
+ATOM 1045 N N . ARG A 1 24 ? -9.034 -5.834 -5.101 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 3
+ATOM 1046 C CA . ARG A 1 24 ? -9.668 -6.385 -6.319 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 3
+ATOM 1047 C C . ARG A 1 24 ? -11.189 -6.180 -6.097 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 3
+ATOM 1048 O O . ARG A 1 24 ? -11.786 -6.724 -5.166 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 3
+ATOM 1049 C CB . ARG A 1 24 ? -9.310 -7.888 -6.500 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 3
+ATOM 1050 C CG . ARG A 1 24 ? -7.934 -8.203 -7.147 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 3
+ATOM 1051 C CD . ARG A 1 24 ? -7.608 -9.695 -7.376 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 3
+ATOM 1052 N NE . ARG A 1 24 ? -7.175 -10.413 -6.139 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 3
+ATOM 1053 C CZ . ARG A 1 24 ? -5.899 -10.597 -5.708 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 3
+ATOM 1054 N NH1 . ARG A 1 24 ? -4.789 -10.161 -6.322 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 3
+ATOM 1055 N NH2 . ARG A 1 24 ? -5.737 -11.266 -4.581 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 3
+ATOM 1056 H H . ARG A 1 24 ? -9.491 -5.960 -4.202 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 3
+ATOM 1057 H HA . ARG A 1 24 ? -9.339 -5.818 -7.220 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 3
+ATOM 1058 H HB2 . ARG A 1 24 ? -9.400 -8.454 -5.553 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 3
+ATOM 1059 H HB3 . ARG A 1 24 ? -10.087 -8.336 -7.126 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 3
+ATOM 1060 H HG2 . ARG A 1 24 ? -7.895 -7.691 -8.126 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 3
+ATOM 1061 H HG3 . ARG A 1 24 ? -7.130 -7.741 -6.546 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 3
+ATOM 1062 H HD2 . ARG A 1 24 ? -8.469 -10.223 -7.828 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 3
+ATOM 1063 H HD3 . ARG A 1 24 ? -6.803 -9.764 -8.132 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 3
+ATOM 1064 H HE . ARG A 1 24 ? -7.876 -10.830 -5.515 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 3
+ATOM 1065 H HH11 . ARG A 1 24 ? -4.923 -9.642 -7.197 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 3
+ATOM 1066 H HH12 . ARG A 1 24 ? -3.896 -10.382 -5.868 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 3
+ATOM 1067 H HH21 . ARG A 1 24 ? -6.589 -11.596 -4.117 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 3
+ATOM 1068 H HH22 . ARG A 1 24 ? -4.771 -11.401 -4.262 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 3
+ATOM 1069 N N . NH2 A 1 25 ? -11.853 -5.398 -6.936 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 3
+ATOM 1070 H HN1 . NH2 A 1 25 ? -11.309 -4.970 -7.693 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 3
+ATOM 1071 H HN2 . NH2 A 1 25 ? -12.857 -5.284 -6.760 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 3
+ATOM 1072 N N . HIS A 1 1 ? 8.481 5.506 4.618 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 4
+ATOM 1073 C CA . HIS A 1 1 ? 8.432 4.042 4.347 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 4
+ATOM 1074 C C . HIS A 1 1 ? 8.498 3.810 2.754 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 4
+ATOM 1075 O O . HIS A 1 1 ? 8.827 4.808 2.093 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 4
+ATOM 1076 C CB . HIS A 1 1 ? 7.140 3.447 5.075 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 4
+ATOM 1077 C CG . HIS A 1 1 ? 6.744 3.761 6.534 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 4
+ATOM 1078 N ND1 . HIS A 1 1 ? 5.559 3.277 7.058 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 4
+ATOM 1079 C CD2 . HIS A 1 1 ? 7.464 4.444 7.544 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 4
+ATOM 1080 C CE1 . HIS A 1 1 ? 5.664 3.711 8.353 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 4
+ATOM 1081 N NE2 . HIS A 1 1 ? 6.763 4.431 8.736 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 4
+ATOM 1082 H H1 . HIS A 1 1 ? 9.308 5.941 4.194 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 4
+ATOM 1083 H H2 . HIS A 1 1 ? 7.657 5.988 4.243 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 4
+ATOM 1084 H H3 . HIS A 1 1 ? 8.517 5.702 5.625 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 4
+ATOM 1085 H HA . HIS A 1 1 ? 9.393 3.645 4.746 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 4
+ATOM 1086 H HB2 . HIS A 1 1 ? 6.313 3.709 4.387 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 4
+ATOM 1087 H HB3 . HIS A 1 1 ? 7.059 2.322 5.048 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 4
+ATOM 1088 H HD1 . HIS A 1 1 ? 4.886 2.637 6.624 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 4
+ATOM 1089 H HD2 . HIS A 1 1 ? 8.439 4.891 7.412 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 4
+ATOM 1090 H HE1 . HIS A 1 1 ? 4.903 3.454 9.075 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 4
+ATOM 1091 H HE2 . HIS A 1 1 ? 7.023 4.797 9.659 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 4
+ATOM 1092 N N . HYP A 1 2 ? 8.261 2.641 2.025 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 4
+ATOM 1093 C CA . HYP A 1 2 ? 8.356 2.557 0.532 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 4
+ATOM 1094 C C . HYP A 1 2 ? 7.363 3.505 -0.293 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 4
+ATOM 1095 O O . HYP A 1 2 ? 6.820 4.399 0.354 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 4
+ATOM 1096 C CB . HYP A 1 2 ? 8.075 1.066 0.226 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 4
+ATOM 1097 C CG . HYP A 1 2 ? 8.226 0.310 1.516 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 4
+ATOM 1098 C CD . HYP A 1 2 ? 7.915 1.318 2.587 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 4
+ATOM 1099 O OD1 . HYP A 1 2 ? 9.563 -0.148 1.655 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 4
+ATOM 1100 H HA . HYP A 1 2 ? 9.392 2.802 0.235 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 4
+ATOM 1101 H HB2 . HYP A 1 2 ? 7.080 1.002 -0.293 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 4
+ATOM 1102 H HB3 . HYP A 1 2 ? 8.769 0.664 -0.522 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 4
+ATOM 1103 H HG . HYP A 1 2 ? 7.538 -0.525 1.557 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 4
+ATOM 1104 H HD22 . HYP A 1 2 ? 6.840 1.358 2.879 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 4
+ATOM 1105 H HD23 . HYP A 1 2 ? 8.522 1.099 3.485 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 4
+ATOM 1106 H HD1 . HYP A 1 2 ? 9.713 -0.752 0.924 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 4
+ATOM 1107 N N . HYP A 1 3 ? 7.035 3.325 -1.637 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 4
+ATOM 1108 C CA . HYP A 1 3 ? 5.642 3.439 -2.175 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 4
+ATOM 1109 C C . HYP A 1 3 ? 4.454 2.685 -1.451 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 4
+ATOM 1110 O O . HYP A 1 3 ? 4.741 1.741 -0.709 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 4
+ATOM 1111 C CB . HYP A 1 3 ? 5.881 2.788 -3.550 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 4
+ATOM 1112 C CG . HYP A 1 3 ? 7.351 3.154 -4.024 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 4
+ATOM 1113 C CD . HYP A 1 3 ? 8.042 2.898 -2.661 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 4
+ATOM 1114 O OD1 . HYP A 1 3 ? 7.435 4.542 -4.329 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 4
+ATOM 1115 H HA . HYP A 1 3 ? 5.383 4.507 -2.294 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 4
+ATOM 1116 H HB2 . HYP A 1 3 ? 5.655 1.703 -3.369 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 4
+ATOM 1117 H HB3 . HYP A 1 3 ? 5.067 3.137 -4.187 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 4
+ATOM 1118 H HG . HYP A 1 3 ? 7.827 2.629 -4.956 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 4
+ATOM 1119 H HD22 . HYP A 1 3 ? 8.228 1.795 -2.546 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 4
+ATOM 1120 H HD23 . HYP A 1 3 ? 8.988 3.443 -2.368 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 4
+ATOM 1121 H HD1 . HYP A 1 3 ? 6.908 4.671 -5.120 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 4
+ATOM 1122 N N . CYS A 1 4 ? 3.166 3.062 -1.726 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 4
+ATOM 1123 C CA . CYS A 1 4 ? 1.937 2.318 -1.227 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 4
+ATOM 1124 C C . CYS A 1 4 ? 1.826 0.807 -1.651 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 4
+ATOM 1125 O O . CYS A 1 4 ? 1.245 0.023 -0.893 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 4
+ATOM 1126 C CB . CYS A 1 4 ? 0.692 3.086 -1.773 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 4
+ATOM 1127 S SG . CYS A 1 4 ? -0.760 2.483 -0.892 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 4
+ATOM 1128 H H . CYS A 1 4 ? 3.127 4.017 -2.104 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 4
+ATOM 1129 H HA . CYS A 1 4 ? 1.807 2.374 -0.108 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 4
+ATOM 1130 H HB2 . CYS A 1 4 ? 0.729 4.198 -1.576 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 4
+ATOM 1131 H HB3 . CYS A 1 4 ? 0.562 2.875 -2.871 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 4
+ATOM 1132 N N . CYS A 1 5 ? 2.315 0.457 -2.862 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 4
+ATOM 1133 C CA . CYS A 1 5 ? 1.985 -0.878 -3.525 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 4
+ATOM 1134 C C . CYS A 1 5 ? 3.079 -1.918 -3.876 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 4
+ATOM 1135 O O . CYS A 1 5 ? 2.788 -3.035 -4.324 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 4
+ATOM 1136 C CB . CYS A 1 5 ? 1.228 -0.508 -4.809 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 4
+ATOM 1137 S SG . CYS A 1 5 ? 0.089 -1.848 -5.169 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 4
+ATOM 1138 H H . CYS A 1 5 ? 2.570 1.361 -3.339 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 4
+ATOM 1139 H HA . CYS A 1 5 ? 1.400 -1.549 -2.881 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 4
+ATOM 1140 H HB2 . CYS A 1 5 ? 0.657 0.461 -4.695 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 4
+ATOM 1141 H HB3 . CYS A 1 5 ? 1.955 -0.445 -5.658 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 4
+ATOM 1142 N N . LEU A 1 6 ? 4.298 -1.496 -3.642 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 4
+ATOM 1143 C CA . LEU A 1 6 ? 5.538 -2.138 -4.091 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 4
+ATOM 1144 C C . LEU A 1 6 ? 6.062 -3.083 -2.965 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 4
+ATOM 1145 O O . LEU A 1 6 ? 5.583 -3.122 -1.825 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 4
+ATOM 1146 C CB . LEU A 1 6 ? 6.486 -0.951 -4.514 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 4
+ATOM 1147 C CG . LEU A 1 6 ? 7.570 -1.124 -5.635 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 4
+ATOM 1148 C CD1 . LEU A 1 6 ? 8.719 -2.116 -5.452 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 4
+ATOM 1149 C CD2 . LEU A 1 6 ? 7.040 -1.154 -7.098 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 4
+ATOM 1150 H H . LEU A 1 6 ? 4.207 -0.550 -3.295 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 4
+ATOM 1151 H HA . LEU A 1 6 ? 5.351 -2.754 -4.990 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 4
+ATOM 1152 H HB2 . LEU A 1 6 ? 5.937 -0.061 -4.866 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 4
+ATOM 1153 H HB3 . LEU A 1 6 ? 6.909 -0.556 -3.570 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 4
+ATOM 1154 H HG . LEU A 1 6 ? 8.126 -0.206 -5.519 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 4
+ATOM 1155 H HD11 . LEU A 1 6 ? 9.090 -2.050 -4.416 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 4
+ATOM 1156 H HD12 . LEU A 1 6 ? 8.357 -3.149 -5.604 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 4
+ATOM 1157 H HD13 . LEU A 1 6 ? 9.558 -1.911 -6.133 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 4
+ATOM 1158 H HD21 . LEU A 1 6 ? 6.286 -0.364 -7.272 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 4
+ATOM 1159 H HD22 . LEU A 1 6 ? 7.838 -0.994 -7.849 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 4
+ATOM 1160 H HD23 . LEU A 1 6 ? 6.558 -2.123 -7.325 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 4
+ATOM 1161 N N . TYR A 1 7 ? 7.086 -3.867 -3.356 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 4
+ATOM 1162 C CA . TYR A 1 7 ? 7.939 -4.802 -2.521 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 4
+ATOM 1163 C C . TYR A 1 7 ? 7.286 -6.159 -2.129 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 4
+ATOM 1164 O O . TYR A 1 7 ? 7.975 -7.095 -1.709 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 4
+ATOM 1165 C CB . TYR A 1 7 ? 8.597 -4.127 -1.311 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 4
+ATOM 1166 C CG . TYR A 1 7 ? 9.729 -3.118 -1.633 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 4
+ATOM 1167 C CD1 . TYR A 1 7 ? 11.037 -3.548 -1.836 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 4
+ATOM 1168 C CD2 . TYR A 1 7 ? 9.442 -1.761 -1.750 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 4
+ATOM 1169 C CE1 . TYR A 1 7 ? 12.034 -2.643 -2.137 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 4
+ATOM 1170 C CE2 . TYR A 1 7 ? 10.445 -0.863 -2.062 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 4
+ATOM 1171 C CZ . TYR A 1 7 ? 11.740 -1.301 -2.248 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 4
+ATOM 1172 O OH . TYR A 1 7 ? 12.728 -0.405 -2.560 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 4
+ATOM 1173 H H . TYR A 1 7 ? 7.411 -3.450 -4.229 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 4
+ATOM 1174 H HA . TYR A 1 7 ? 8.767 -5.106 -3.114 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 4
+ATOM 1175 H HB2 . TYR A 1 7 ? 7.729 -3.669 -0.871 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 4
+ATOM 1176 H HB3 . TYR A 1 7 ? 9.015 -4.893 -0.634 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 4
+ATOM 1177 H HD1 . TYR A 1 7 ? 11.290 -4.597 -1.797 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 4
+ATOM 1178 H HD2 . TYR A 1 7 ? 8.433 -1.373 -1.646 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 4
+ATOM 1179 H HE1 . TYR A 1 7 ? 13.045 -2.988 -2.299 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 4
+ATOM 1180 H HE2 . TYR A 1 7 ? 10.217 0.186 -2.173 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 4
+ATOM 1181 H HH . TYR A 1 7 ? 12.350 0.476 -2.602 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 4
+ATOM 1182 N N . GLY A 1 8 ? 5.982 -6.216 -2.349 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 4
+ATOM 1183 C CA . GLY A 1 8 ? 5.170 -7.446 -2.459 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 4
+ATOM 1184 C C . GLY A 1 8 ? 3.980 -7.655 -1.489 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 4
+ATOM 1185 O O . GLY A 1 8 ? 3.259 -8.640 -1.680 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 4
+ATOM 1186 H H . GLY A 1 8 ? 5.808 -5.345 -2.855 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 4
+ATOM 1187 H HA2 . GLY A 1 8 ? 4.729 -7.393 -3.482 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 4
+ATOM 1188 H HA3 . GLY A 1 8 ? 5.838 -8.331 -2.394 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 4
+ATOM 1189 N N . LYS A 1 9 ? 3.780 -6.764 -0.492 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 4
+ATOM 1190 C CA . LYS A 1 9 ? 2.627 -6.832 0.476 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 4
+ATOM 1191 C C . LYS A 1 9 ? 2.158 -5.361 0.681 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 4
+ATOM 1192 O O . LYS A 1 9 ? 2.990 -4.485 0.960 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 4
+ATOM 1193 C CB . LYS A 1 9 ? 3.092 -7.480 1.814 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 4
+ATOM 1194 C CG . LYS A 1 9 ? 1.966 -7.900 2.807 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 4
+ATOM 1195 C CD . LYS A 1 9 ? 2.400 -8.592 4.123 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 4
+ATOM 1196 C CE . LYS A 1 9 ? 2.826 -7.667 5.283 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 4
+ATOM 1197 N NZ . LYS A 1 9 ? 3.184 -8.454 6.473 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 4
+ATOM 1198 H H . LYS A 1 9 ? 4.487 -5.997 -0.546 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 4
+ATOM 1199 H HA . LYS A 1 9 ? 1.793 -7.481 0.071 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 4
+ATOM 1200 H HB2 . LYS A 1 9 ? 3.678 -8.393 1.593 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 4
+ATOM 1201 H HB3 . LYS A 1 9 ? 3.800 -6.803 2.327 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 4
+ATOM 1202 H HG2 . LYS A 1 9 ? 1.320 -7.023 3.009 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 4
+ATOM 1203 H HG3 . LYS A 1 9 ? 1.303 -8.599 2.263 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 4
+ATOM 1204 H HD2 . LYS A 1 9 ? 1.539 -9.191 4.474 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 4
+ATOM 1205 H HD3 . LYS A 1 9 ? 3.194 -9.336 3.923 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 4
+ATOM 1206 H HE2 . LYS A 1 9 ? 3.688 -7.048 4.976 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 4
+ATOM 1207 H HE3 . LYS A 1 9 ? 2.007 -6.968 5.533 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 4
+ATOM 1208 H HZ1 . LYS A 1 9 ? 3.962 -9.096 6.283 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 4
+ATOM 1209 H HZ2 . LYS A 1 9 ? 3.471 -7.852 7.253 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 4
+ATOM 1210 H HZ3 . LYS A 1 9 ? 2.395 -9.022 6.802 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 4
+ATOM 1211 N N . CYS A 1 10 ? 0.831 -5.117 0.609 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 4
+ATOM 1212 C CA . CYS A 1 10 ? 0.269 -3.820 0.335 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 4
+ATOM 1213 C C . CYS A 1 10 ? 0.130 -2.940 1.619 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 4
+ATOM 1214 O O . CYS A 1 10 ? -0.678 -3.278 2.495 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 4
+ATOM 1215 C CB . CYS A 1 10 ? -1.070 -4.260 -0.300 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 4
+ATOM 1216 S SG . CYS A 1 10 ? -1.203 -5.741 -1.356 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 4
+ATOM 1217 H H . CYS A 1 10 ? 0.219 -5.692 0.016 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 4
+ATOM 1218 H HA . CYS A 1 10 ? 0.828 -3.355 -0.506 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 4
+ATOM 1219 H HB2 . CYS A 1 10 ? -1.901 -4.320 0.408 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 4
+ATOM 1220 H HB3 . CYS A 1 10 ? -1.305 -3.482 -0.990 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 4
+ATOM 1221 N N . ARG A 1 11 ? 0.871 -1.809 1.706 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 4
+ATOM 1222 C CA . ARG A 1 11 ? 0.775 -0.806 2.756 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 4
+ATOM 1223 C C . ARG A 1 11 ? -0.270 0.245 2.331 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 4
+ATOM 1224 O O . ARG A 1 11 ? -0.151 0.890 1.288 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 4
+ATOM 1225 C CB . ARG A 1 11 ? 2.152 -0.156 2.968 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 4
+ATOM 1226 C CG . ARG A 1 11 ? 3.134 0.290 1.827 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 4
+ATOM 1227 C CD . ARG A 1 11 ? 4.080 -0.803 1.278 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 4
+ATOM 1228 N NE . ARG A 1 11 ? 5.036 -1.147 2.358 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 4
+ATOM 1229 C CZ . ARG A 1 11 ? 5.725 -2.307 2.505 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 4
+ATOM 1230 N NH1 . ARG A 1 11 ? 5.920 -3.227 1.550 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 4
+ATOM 1231 N NH2 . ARG A 1 11 ? 6.269 -2.538 3.684 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 4
+ATOM 1232 H H . ARG A 1 11 ? 1.868 -1.737 1.500 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 4
+ATOM 1233 H HA . ARG A 1 11 ? 0.608 -1.293 3.747 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 4
+ATOM 1234 H HB2 . ARG A 1 11 ? 1.997 0.663 3.624 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 4
+ATOM 1235 H HB3 . ARG A 1 11 ? 2.695 -0.770 3.682 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 4
+ATOM 1236 H HG2 . ARG A 1 11 ? 2.531 0.682 1.004 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 4
+ATOM 1237 H HG3 . ARG A 1 11 ? 3.744 1.140 2.164 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 4
+ATOM 1238 H HD2 . ARG A 1 11 ? 3.511 -1.697 0.966 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 4
+ATOM 1239 H HD3 . ARG A 1 11 ? 4.629 -0.437 0.392 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 4
+ATOM 1240 H HE . ARG A 1 11 ? 4.855 -0.581 3.201 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 4
+ATOM 1241 H HH11 . ARG A 1 11 ? 5.502 -3.034 0.633 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 4
+ATOM 1242 H HH12 . ARG A 1 11 ? 6.473 -4.051 1.812 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 4
+ATOM 1243 H HH21 . ARG A 1 11 ? 6.123 -1.824 4.406 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 4
+ATOM 1244 H HH22 . ARG A 1 11 ? 6.796 -3.414 3.783 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 4
+ATOM 1245 N N . ARG A 1 12 ? -1.255 0.372 3.207 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 4
+ATOM 1246 C CA . ARG A 1 12 ? -2.206 1.486 3.305 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 4
+ATOM 1247 C C . ARG A 1 12 ? -1.682 2.452 4.418 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 4
+ATOM 1248 O O . ARG A 1 12 ? -2.063 2.316 5.586 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 4
+ATOM 1249 C CB . ARG A 1 12 ? -3.676 0.947 3.410 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 4
+ATOM 1250 C CG . ARG A 1 12 ? -4.127 0.221 4.700 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 4
+ATOM 1251 C CD . ARG A 1 12 ? -5.531 -0.415 4.704 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 4
+ATOM 1252 N NE . ARG A 1 12 ? -6.628 0.574 4.908 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 4
+ATOM 1253 C CZ . ARG A 1 12 ? -7.930 0.289 5.170 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 4
+ATOM 1254 N NH1 . ARG A 1 12 ? -8.462 -0.936 5.292 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 4
+ATOM 1255 N NH2 . ARG A 1 12 ? -8.748 1.314 5.318 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 4
+ATOM 1256 H H . ARG A 1 12 ? -0.998 -0.073 4.043 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 4
+ATOM 1257 H HA . ARG A 1 12 ? -2.124 1.968 2.359 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 4
+ATOM 1258 H HB2 . ARG A 1 12 ? -4.430 1.743 3.222 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 4
+ATOM 1259 H HB3 . ARG A 1 12 ? -3.776 0.222 2.584 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 4
+ATOM 1260 H HG2 . ARG A 1 12 ? -3.366 -0.560 4.868 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 4
+ATOM 1261 H HG3 . ARG A 1 12 ? -4.025 0.945 5.523 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 4
+ATOM 1262 H HD2 . ARG A 1 12 ? -5.709 -0.986 3.774 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 4
+ATOM 1263 H HD3 . ARG A 1 12 ? -5.582 -1.156 5.522 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 4
+ATOM 1264 H HE . ARG A 1 12 ? -6.434 1.580 4.856 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 4
+ATOM 1265 H HH11 . ARG A 1 12 ? -7.822 -1.729 5.176 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 4
+ATOM 1266 H HH12 . ARG A 1 12 ? -9.468 -0.982 5.492 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 4
+ATOM 1267 H HH21 . ARG A 1 12 ? -8.336 2.249 5.224 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 4
+ATOM 1268 H HH22 . ARG A 1 12 ? -9.731 1.093 5.516 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 4
+ATOM 1269 N N . TYR A 1 13 ? -0.774 3.375 4.040 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 4
+ATOM 1270 C CA . TYR A 1 13 ? 0.067 4.154 4.987 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 4
+ATOM 1271 C C . TYR A 1 13 ? 0.038 5.730 4.819 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 4
+ATOM 1272 O O . TYR A 1 13 ? -0.527 6.125 3.798 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 4
+ATOM 1273 C CB . TYR A 1 13 ? 1.586 3.677 4.753 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 4
+ATOM 1274 C CG . TYR A 1 13 ? 2.320 3.801 3.372 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 4
+ATOM 1275 C CD1 . TYR A 1 13 ? 1.741 4.397 2.258 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 4
+ATOM 1276 C CD2 . TYR A 1 13 ? 3.681 3.506 3.309 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 4
+ATOM 1277 C CE1 . TYR A 1 13 ? 2.481 4.750 1.166 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 4
+ATOM 1278 C CE2 . TYR A 1 13 ? 4.431 3.865 2.207 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 4
+ATOM 1279 C CZ . TYR A 1 13 ? 3.833 4.562 1.171 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 4
+ATOM 1280 O OH . TYR A 1 13 ? 4.526 5.121 0.136 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 4
+ATOM 1281 H H . TYR A 1 13 ? -0.412 3.251 3.083 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 4
+ATOM 1282 H HA . TYR A 1 13 ? -0.349 4.053 6.030 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 4
+ATOM 1283 H HB2 . TYR A 1 13 ? 2.256 4.266 5.389 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 4
+ATOM 1284 H HB3 . TYR A 1 13 ? 1.747 2.702 5.206 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 4
+ATOM 1285 H HD1 . TYR A 1 13 ? 0.705 4.665 2.270 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 4
+ATOM 1286 H HD2 . TYR A 1 13 ? 4.198 2.996 4.109 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 4
+ATOM 1287 H HE1 . TYR A 1 13 ? 2.001 5.177 0.304 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 4
+ATOM 1288 H HE2 . TYR A 1 13 ? 5.474 3.574 2.184 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 4
+ATOM 1289 H HH . TYR A 1 13 ? 5.461 4.937 0.250 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 4
+ATOM 1290 N N . HYP A 1 14 ? 0.664 6.661 5.692 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 4
+ATOM 1291 C CA . HYP A 1 14 ? 1.313 7.959 5.216 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 4
+ATOM 1292 C C . HYP A 1 14 ? 1.074 8.635 3.817 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 4
+ATOM 1293 O O . HYP A 1 14 ? 1.983 9.064 3.091 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 4
+ATOM 1294 C CB . HYP A 1 14 ? 2.780 7.510 5.371 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 4
+ATOM 1295 C CG . HYP A 1 14 ? 2.829 6.848 6.749 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 4
+ATOM 1296 C CD . HYP A 1 14 ? 1.423 6.270 6.943 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 4
+ATOM 1297 O OD1 . HYP A 1 14 ? 3.091 7.819 7.751 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 4
+ATOM 1298 H HA . HYP A 1 14 ? 1.044 8.777 5.927 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 4
+ATOM 1299 H HB2 . HYP A 1 14 ? 2.921 6.788 4.546 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 4
+ATOM 1300 H HB3 . HYP A 1 14 ? 3.546 8.291 5.220 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 4
+ATOM 1301 H HG . HYP A 1 14 ? 3.605 6.061 6.780 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 4
+ATOM 1302 H HD22 . HYP A 1 14 ? 1.490 5.144 7.047 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 4
+ATOM 1303 H HD23 . HYP A 1 14 ? 0.935 6.651 7.844 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 4
+ATOM 1304 H HD1 . HYP A 1 14 ? 2.394 8.474 7.674 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 4
+ATOM 1305 N N . GLY A 1 15 ? -0.217 8.808 3.557 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 4
+ATOM 1306 C CA . GLY A 1 15 ? -0.768 9.452 2.346 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 4
+ATOM 1307 C C . GLY A 1 15 ? -0.685 8.718 0.985 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 4
+ATOM 1308 O O . GLY A 1 15 ? -0.382 9.324 -0.046 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 4
+ATOM 1309 H H . GLY A 1 15 ? -0.694 8.013 3.963 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 4
+ATOM 1310 H HA2 . GLY A 1 15 ? -1.884 9.573 2.561 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 4
+ATOM 1311 H HA3 . GLY A 1 15 ? -0.170 10.391 2.255 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 4
+ATOM 1312 N N . CYS A 1 16 ? -1.060 7.446 1.045 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 4
+ATOM 1313 C CA . CYS A 1 16 ? -1.573 6.629 -0.098 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 4
+ATOM 1314 C C . CYS A 1 16 ? -3.075 6.857 -0.436 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 4
+ATOM 1315 O O . CYS A 1 16 ? -3.464 6.565 -1.566 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 4
+ATOM 1316 C CB . CYS A 1 16 ? -1.336 5.189 0.429 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 4
+ATOM 1317 S SG . CYS A 1 16 ? -2.064 3.962 -0.663 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 4
+ATOM 1318 H H . CYS A 1 16 ? -1.285 7.192 2.021 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 4
+ATOM 1319 H HA . CYS A 1 16 ? -1.009 6.778 -1.071 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 4
+ATOM 1320 H HB2 . CYS A 1 16 ? -0.254 5.015 0.408 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 4
+ATOM 1321 H HB3 . CYS A 1 16 ? -1.707 5.036 1.489 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 4
+ATOM 1322 N N . SER A 1 17 ? -3.930 7.230 0.534 1.00 0.00 ? ? ? ? ? ? 17 SER A N 4
+ATOM 1323 C CA . SER A 1 17 ? -4.942 6.265 1.073 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 4
+ATOM 1324 C C . SER A 1 17 ? -6.227 5.984 0.240 1.00 0.00 ? ? ? ? ? ? 17 SER A C 4
+ATOM 1325 O O . SER A 1 17 ? -7.076 5.174 0.634 1.00 0.00 ? ? ? ? ? ? 17 SER A O 4
+ATOM 1326 C CB . SER A 1 17 ? -5.302 6.731 2.503 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 4
+ATOM 1327 O OG . SER A 1 17 ? -6.206 5.826 3.127 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 4
+ATOM 1328 H H . SER A 1 17 ? -3.315 7.694 1.186 1.00 0.00 ? ? ? ? ? ? 17 SER A H 4
+ATOM 1329 H HA . SER A 1 17 ? -4.451 5.287 1.123 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 4
+ATOM 1330 H HB2 . SER A 1 17 ? -4.408 6.804 3.150 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 4
+ATOM 1331 H HB3 . SER A 1 17 ? -5.753 7.740 2.472 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 4
+ATOM 1332 H HG . SER A 1 17 ? -6.381 6.187 4.000 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 4
+ATOM 1333 N N . SER A 1 18 ? -6.254 6.580 -0.946 1.00 0.00 ? ? ? ? ? ? 18 SER A N 4
+ATOM 1334 C CA . SER A 1 18 ? -7.001 6.065 -2.123 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 4
+ATOM 1335 C C . SER A 1 18 ? -6.441 4.758 -2.773 1.00 0.00 ? ? ? ? ? ? 18 SER A C 4
+ATOM 1336 O O . SER A 1 18 ? -7.285 4.032 -3.307 1.00 0.00 ? ? ? ? ? ? 18 SER A O 4
+ATOM 1337 C CB . SER A 1 18 ? -7.086 7.192 -3.168 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 4
+ATOM 1338 O OG . SER A 1 18 ? -7.849 8.276 -2.654 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 4
+ATOM 1339 H H . SER A 1 18 ? -5.358 7.094 -0.976 1.00 0.00 ? ? ? ? ? ? 18 SER A H 4
+ATOM 1340 H HA . SER A 1 18 ? -8.043 5.860 -1.813 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 4
+ATOM 1341 H HB2 . SER A 1 18 ? -6.088 7.563 -3.464 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 4
+ATOM 1342 H HB3 . SER A 1 18 ? -7.572 6.834 -4.095 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 4
+ATOM 1343 H HG . SER A 1 18 ? -7.874 8.936 -3.350 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 4
+ATOM 1344 N N . ALA A 1 19 ? -5.102 4.458 -2.745 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 4
+ATOM 1345 C CA . ALA A 1 19 ? -4.518 3.375 -3.584 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 4
+ATOM 1346 C C . ALA A 1 19 ? -4.792 1.982 -2.949 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 4
+ATOM 1347 O O . ALA A 1 19 ? -3.999 1.404 -2.190 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 4
+ATOM 1348 C CB . ALA A 1 19 ? -3.010 3.557 -3.841 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 4
+ATOM 1349 H H . ALA A 1 19 ? -4.571 5.311 -2.577 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 4
+ATOM 1350 H HA . ALA A 1 19 ? -4.897 3.493 -4.621 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 4
+ATOM 1351 H HB1 . ALA A 1 19 ? -2.737 4.606 -4.039 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 4
+ATOM 1352 H HB2 . ALA A 1 19 ? -2.377 3.170 -3.026 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 4
+ATOM 1353 H HB3 . ALA A 1 19 ? -2.713 2.960 -4.724 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 4
+ATOM 1354 N N . SER A 1 20 ? -5.959 1.455 -3.335 1.00 0.00 ? ? ? ? ? ? 20 SER A N 4
+ATOM 1355 C CA . SER A 1 20 ? -6.340 0.013 -3.197 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 4
+ATOM 1356 C C . SER A 1 20 ? -5.206 -1.009 -3.576 1.00 0.00 ? ? ? ? ? ? 20 SER A C 4
+ATOM 1357 O O . SER A 1 20 ? -4.713 -1.743 -2.720 1.00 0.00 ? ? ? ? ? ? 20 SER A O 4
+ATOM 1358 C CB . SER A 1 20 ? -7.609 -0.173 -4.078 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 4
+ATOM 1359 O OG . SER A 1 20 ? -7.399 0.210 -5.434 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 4
+ATOM 1360 H H . SER A 1 20 ? -6.606 2.197 -3.613 1.00 0.00 ? ? ? ? ? ? 20 SER A H 4
+ATOM 1361 H HA . SER A 1 20 ? -6.644 -0.195 -2.152 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 4
+ATOM 1362 H HB2 . SER A 1 20 ? -7.898 -1.218 -4.068 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 4
+ATOM 1363 H HB3 . SER A 1 20 ? -8.473 0.335 -3.702 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 4
+ATOM 1364 H HG . SER A 1 20 ? -8.221 0.025 -5.892 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 4
+ATOM 1365 N N . CYS A 1 21 ? -4.810 -0.933 -4.863 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 4
+ATOM 1366 C CA . CYS A 1 21 ? -3.770 -1.736 -5.618 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 4
+ATOM 1367 C C . CYS A 1 21 ? -3.289 -3.137 -5.075 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 4
+ATOM 1368 O O . CYS A 1 21 ? -2.152 -3.566 -5.296 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 4
+ATOM 1369 C CB . CYS A 1 21 ? -2.687 -0.661 -5.898 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 4
+ATOM 1370 S SG . CYS A 1 21 ? -1.168 -1.311 -6.625 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 4
+ATOM 1371 H H . CYS A 1 21 ? -5.286 -0.060 -5.119 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 4
+ATOM 1372 H HA . CYS A 1 21 ? -4.165 -2.013 -6.621 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 4
+ATOM 1373 H HB2 . CYS A 1 21 ? -3.074 0.066 -6.642 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 4
+ATOM 1374 H HB3 . CYS A 1 21 ? -2.470 -0.070 -4.985 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 4
+ATOM 1375 N N . CYS A 1 22 ? -4.231 -3.881 -4.448 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 4
+ATOM 1376 C CA . CYS A 1 22 ? -3.981 -5.209 -3.788 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 4
+ATOM 1377 C C . CYS A 1 22 ? -5.073 -6.327 -3.956 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 4
+ATOM 1378 O O . CYS A 1 22 ? -4.690 -7.496 -3.964 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 4
+ATOM 1379 C CB . CYS A 1 22 ? -3.930 -4.896 -2.305 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 4
+ATOM 1380 S SG . CYS A 1 22 ? -3.146 -6.209 -1.369 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 4
+ATOM 1381 H H . CYS A 1 22 ? -4.937 -3.191 -4.066 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 4
+ATOM 1382 H HA . CYS A 1 22 ? -3.004 -5.621 -4.108 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 4
+ATOM 1383 H HB2 . CYS A 1 22 ? -3.250 -4.047 -2.257 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 4
+ATOM 1384 H HB3 . CYS A 1 22 ? -4.943 -4.581 -1.940 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 4
+ATOM 1385 N N . GLN A 1 23 ? -6.388 -6.099 -4.186 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 4
+ATOM 1386 C CA . GLN A 1 23 ? -7.296 -5.269 -3.349 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 4
+ATOM 1387 C C . GLN A 1 23 ? -8.522 -6.101 -2.861 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 4
+ATOM 1388 O O . GLN A 1 23 ? -9.042 -6.924 -3.621 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 4
+ATOM 1389 C CB . GLN A 1 23 ? -7.705 -3.948 -4.121 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 4
+ATOM 1390 C CG . GLN A 1 23 ? -7.269 -3.504 -5.564 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 4
+ATOM 1391 C CD . GLN A 1 23 ? -8.205 -2.615 -6.418 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 4
+ATOM 1392 O OE1 . GLN A 1 23 ? -9.279 -2.182 -5.999 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 4
+ATOM 1393 N NE2 . GLN A 1 23 ? -7.795 -2.331 -7.642 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 4
+ATOM 1394 H H . GLN A 1 23 ? -6.259 -5.339 -4.849 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 4
+ATOM 1395 H HA . GLN A 1 23 ? -6.748 -4.973 -2.444 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 4
+ATOM 1396 H HB2 . GLN A 1 23 ? -8.726 -4.106 -4.438 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 4
+ATOM 1397 H HB3 . GLN A 1 23 ? -7.509 -3.096 -3.372 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 4
+ATOM 1398 H HG2 . GLN A 1 23 ? -6.324 -2.972 -5.485 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 4
+ATOM 1399 H HG3 . GLN A 1 23 ? -7.053 -4.423 -6.136 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 4
+ATOM 1400 H HE21 . GLN A 1 23 ? -6.890 -2.724 -7.926 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 4
+ATOM 1401 H HE22 . GLN A 1 23 ? -8.414 -1.741 -8.209 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 4
+ATOM 1402 N N . ARG A 1 24 ? -9.011 -5.831 -1.607 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 4
+ATOM 1403 C CA . ARG A 1 24 ? -10.165 -6.514 -0.923 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 4
+ATOM 1404 C C . ARG A 1 24 ? -9.951 -8.052 -0.696 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 4
+ATOM 1405 O O . ARG A 1 24 ? -9.897 -8.488 0.454 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 4
+ATOM 1406 C CB . ARG A 1 24 ? -11.547 -6.081 -1.540 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 4
+ATOM 1407 C CG . ARG A 1 24 ? -12.856 -6.337 -0.736 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 4
+ATOM 1408 C CD . ARG A 1 24 ? -13.197 -5.383 0.434 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 4
+ATOM 1409 N NE . ARG A 1 24 ? -13.723 -4.061 -0.012 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 4
+ATOM 1410 C CZ . ARG A 1 24 ? -14.095 -3.032 0.792 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 4
+ATOM 1411 N NH1 . ARG A 1 24 ? -14.056 -3.020 2.133 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 4
+ATOM 1412 N NH2 . ARG A 1 24 ? -14.537 -1.939 0.198 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 4
+ATOM 1413 H H . ARG A 1 24 ? -8.628 -4.996 -1.147 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 4
+ATOM 1414 H HA . ARG A 1 24 ? -10.161 -6.100 0.103 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 4
+ATOM 1415 H HB2 . ARG A 1 24 ? -11.504 -5.004 -1.794 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 4
+ATOM 1416 H HB3 . ARG A 1 24 ? -11.639 -6.590 -2.516 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 4
+ATOM 1417 H HG2 . ARG A 1 24 ? -13.706 -6.341 -1.442 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 4
+ATOM 1418 H HG3 . ARG A 1 24 ? -12.817 -7.369 -0.343 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 4
+ATOM 1419 H HD2 . ARG A 1 24 ? -13.958 -5.861 1.078 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 4
+ATOM 1420 H HD3 . ARG A 1 24 ? -12.308 -5.235 1.074 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 4
+ATOM 1421 H HE . ARG A 1 24 ? -13.834 -3.859 -1.011 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 4
+ATOM 1422 H HH11 . ARG A 1 24 ? -13.712 -3.872 2.589 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 4
+ATOM 1423 H HH12 . ARG A 1 24 ? -14.373 -2.161 2.594 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 4
+ATOM 1424 H HH21 . ARG A 1 24 ? -14.565 -1.953 -0.828 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 4
+ATOM 1425 H HH22 . ARG A 1 24 ? -14.817 -1.165 0.809 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 4
+ATOM 1426 N N . NH2 A 1 25 ? -9.827 -8.905 -1.710 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 4
+ATOM 1427 H HN1 . NH2 A 1 25 ? -9.690 -9.892 -1.465 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 4
+ATOM 1428 H HN2 . NH2 A 1 25 ? -9.877 -8.507 -2.654 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 4
+ATOM 1429 N N . HIS A 1 1 ? 8.319 5.570 5.091 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 5
+ATOM 1430 C CA . HIS A 1 1 ? 8.390 4.327 4.275 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 5
+ATOM 1431 C C . HIS A 1 1 ? 8.517 4.644 2.709 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 5
+ATOM 1432 O O . HIS A 1 1 ? 8.464 5.850 2.422 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 5
+ATOM 1433 C CB . HIS A 1 1 ? 7.087 3.481 4.557 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 5
+ATOM 1434 C CG . HIS A 1 1 ? 6.890 2.796 5.920 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 5
+ATOM 1435 N ND1 . HIS A 1 1 ? 5.652 2.739 6.555 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 5
+ATOM 1436 C CD2 . HIS A 1 1 ? 7.814 1.979 6.613 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 5
+ATOM 1437 C CE1 . HIS A 1 1 ? 5.951 1.898 7.593 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 5
+ATOM 1438 N NE2 . HIS A 1 1 ? 7.222 1.407 7.724 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 5
+ATOM 1439 H H1 . HIS A 1 1 ? 9.146 6.162 4.951 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 5
+ATOM 1440 H H2 . HIS A 1 1 ? 7.497 6.134 4.849 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 5
+ATOM 1441 H H3 . HIS A 1 1 ? 8.260 5.362 6.094 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 5
+ATOM 1442 H HA . HIS A 1 1 ? 9.331 3.855 4.644 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 5
+ATOM 1443 H HB2 . HIS A 1 1 ? 6.231 4.170 4.395 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 5
+ATOM 1444 H HB3 . HIS A 1 1 ? 6.909 2.690 3.777 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 5
+ATOM 1445 H HD1 . HIS A 1 1 ? 4.729 3.060 6.232 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 5
+ATOM 1446 H HD2 . HIS A 1 1 ? 8.827 1.785 6.293 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 5
+ATOM 1447 H HE1 . HIS A 1 1 ? 5.175 1.581 8.274 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 5
+ATOM 1448 H HE2 . HIS A 1 1 ? 7.598 0.724 8.392 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 5
+ATOM 1449 N N . HYP A 1 2 ? 8.629 3.747 1.632 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 5
+ATOM 1450 C CA . HYP A 1 2 ? 8.557 4.176 0.191 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 5
+ATOM 1451 C C . HYP A 1 2 ? 7.168 4.856 -0.235 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 5
+ATOM 1452 O O . HYP A 1 2 ? 6.509 5.379 0.672 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 5
+ATOM 1453 C CB . HYP A 1 2 ? 8.842 2.861 -0.584 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 5
+ATOM 1454 C CG . HYP A 1 2 ? 9.523 1.939 0.396 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 5
+ATOM 1455 C CD . HYP A 1 2 ? 8.851 2.272 1.710 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 5
+ATOM 1456 O OD1 . HYP A 1 2 ? 10.913 2.224 0.468 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 5
+ATOM 1457 H HA . HYP A 1 2 ? 9.372 4.899 0.001 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 5
+ATOM 1458 H HB2 . HYP A 1 2 ? 7.866 2.475 -0.983 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 5
+ATOM 1459 H HB3 . HYP A 1 2 ? 9.439 3.035 -1.494 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 5
+ATOM 1460 H HG . HYP A 1 2 ? 9.364 0.896 0.111 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 5
+ATOM 1461 H HD22 . HYP A 1 2 ? 7.883 1.727 1.783 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 5
+ATOM 1462 H HD23 . HYP A 1 2 ? 9.508 1.965 2.543 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 5
+ATOM 1463 H HD1 . HYP A 1 2 ? 11.266 2.044 -0.407 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 5
+ATOM 1464 N N . HYP A 1 3 ? 6.597 4.756 -1.494 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 5
+ATOM 1465 C CA . HYP A 1 3 ? 5.185 4.360 -1.691 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 5
+ATOM 1466 C C . HYP A 1 3 ? 4.689 2.979 -1.124 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 5
+ATOM 1467 O O . HYP A 1 3 ? 5.469 2.025 -1.083 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 5
+ATOM 1468 C CB . HYP A 1 3 ? 5.149 4.268 -3.213 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 5
+ATOM 1469 C CG . HYP A 1 3 ? 6.204 5.297 -3.797 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 5
+ATOM 1470 C CD . HYP A 1 3 ? 7.336 5.011 -2.770 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 5
+ATOM 1471 O OD1 . HYP A 1 3 ? 5.741 6.629 -3.599 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 5
+ATOM 1472 H HA . HYP A 1 3 ? 4.543 5.193 -1.344 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 5
+ATOM 1473 H HB2 . HYP A 1 3 ? 4.096 4.423 -3.429 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 5
+ATOM 1474 H HB3 . HYP A 1 3 ? 5.321 3.180 -3.421 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 5
+ATOM 1475 H HG . HYP A 1 3 ? 6.492 5.266 -4.930 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 5
+ATOM 1476 H HD22 . HYP A 1 3 ? 7.884 4.072 -3.059 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 5
+ATOM 1477 H HD23 . HYP A 1 3 ? 8.100 5.804 -2.517 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 5
+ATOM 1478 H HD1 . HYP A 1 3 ? 6.470 7.202 -3.847 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 5
+ATOM 1479 N N . CYS A 1 4 ? 3.383 2.900 -0.818 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 5
+ATOM 1480 C CA . CYS A 1 4 ? 2.604 1.672 -0.477 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 5
+ATOM 1481 C C . CYS A 1 4 ? 2.620 0.444 -1.462 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 5
+ATOM 1482 O O . CYS A 1 4 ? 2.666 -0.702 -1.015 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 5
+ATOM 1483 C CB . CYS A 1 4 ? 1.181 2.382 -0.526 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 5
+ATOM 1484 S SG . CYS A 1 4 ? 0.903 3.591 -1.857 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 5
+ATOM 1485 H H . CYS A 1 4 ? 2.905 3.808 -0.728 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 5
+ATOM 1486 H HA . CYS A 1 4 ? 2.837 1.278 0.577 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 5
+ATOM 1487 H HB2 . CYS A 1 4 ? 0.408 1.679 -0.894 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 5
+ATOM 1488 H HB3 . CYS A 1 4 ? 0.903 2.955 0.407 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 5
+ATOM 1489 N N . CYS A 1 5 ? 2.481 0.717 -2.767 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 5
+ATOM 1490 C CA . CYS A 1 5 ? 2.006 -0.308 -3.815 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 5
+ATOM 1491 C C . CYS A 1 5 ? 2.902 -1.519 -4.231 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 5
+ATOM 1492 O O . CYS A 1 5 ? 2.632 -2.243 -5.200 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 5
+ATOM 1493 C CB . CYS A 1 5 ? 1.767 0.578 -5.048 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 5
+ATOM 1494 S SG . CYS A 1 5 ? 0.631 -0.180 -6.226 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 5
+ATOM 1495 H H . CYS A 1 5 ? 2.439 1.775 -2.755 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 5
+ATOM 1496 H HA . CYS A 1 5 ? 1.116 -0.911 -3.526 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 5
+ATOM 1497 H HB2 . CYS A 1 5 ? 1.354 1.586 -4.770 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 5
+ATOM 1498 H HB3 . CYS A 1 5 ? 2.767 0.675 -5.538 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 5
+ATOM 1499 N N . LEU A 1 6 ? 3.945 -1.697 -3.446 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 5
+ATOM 1500 C CA . LEU A 1 6 ? 5.197 -2.362 -3.835 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 5
+ATOM 1501 C C . LEU A 1 6 ? 5.467 -3.540 -2.847 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 5
+ATOM 1502 O O . LEU A 1 6 ? 4.806 -3.735 -1.819 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 5
+ATOM 1503 C CB . LEU A 1 6 ? 6.299 -1.227 -3.879 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 5
+ATOM 1504 C CG . LEU A 1 6 ? 7.508 -1.291 -4.883 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 5
+ATOM 1505 C CD1 . LEU A 1 6 ? 8.475 -2.478 -4.854 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 5
+ATOM 1506 C CD2 . LEU A 1 6 ? 7.175 -0.898 -6.352 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 5
+ATOM 1507 H H . LEU A 1 6 ? 3.917 -0.881 -2.836 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 5
+ATOM 1508 H HA . LEU A 1 6 ? 5.117 -2.797 -4.847 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 5
+ATOM 1509 H HB2 . LEU A 1 6 ? 5.866 -0.234 -4.086 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 5
+ATOM 1510 H HB3 . LEU A 1 6 ? 6.622 -1.073 -2.830 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 5
+ATOM 1511 H HG . LEU A 1 6 ? 8.160 -0.527 -4.480 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 5
+ATOM 1512 H HD11 . LEU A 1 6 ? 8.729 -2.702 -3.806 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 5
+ATOM 1513 H HD12 . LEU A 1 6 ? 7.977 -3.378 -5.260 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 5
+ATOM 1514 H HD13 . LEU A 1 6 ? 9.408 -2.283 -5.405 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 5
+ATOM 1515 H HD21 . LEU A 1 6 ? 6.563 0.022 -6.397 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 5
+ATOM 1516 H HD22 . LEU A 1 6 ? 8.078 -0.700 -6.961 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 5
+ATOM 1517 H HD23 . LEU A 1 6 ? 6.601 -1.697 -6.856 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 5
+ATOM 1518 N N . TYR A 1 7 ? 6.493 -4.341 -3.214 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 5
+ATOM 1519 C CA . TYR A 1 7 ? 7.113 -5.496 -2.441 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 5
+ATOM 1520 C C . TYR A 1 7 ? 6.240 -6.789 -2.307 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 5
+ATOM 1521 O O . TYR A 1 7 ? 6.643 -7.796 -1.709 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 5
+ATOM 1522 C CB . TYR A 1 7 ? 7.662 -5.066 -1.074 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 5
+ATOM 1523 C CG . TYR A 1 7 ? 8.928 -4.176 -1.096 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 5
+ATOM 1524 C CD1 . TYR A 1 7 ? 10.199 -4.738 -1.134 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 5
+ATOM 1525 C CD2 . TYR A 1 7 ? 8.804 -2.791 -1.096 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 5
+ATOM 1526 C CE1 . TYR A 1 7 ? 11.321 -3.933 -1.156 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 5
+ATOM 1527 C CE2 . TYR A 1 7 ? 9.931 -1.992 -1.124 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 5
+ATOM 1528 C CZ . TYR A 1 7 ? 11.187 -2.560 -1.149 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 5
+ATOM 1529 O OH . TYR A 1 7 ? 12.300 -1.763 -1.181 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 5
+ATOM 1530 H H . TYR A 1 7 ? 6.977 -3.831 -3.957 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 5
+ATOM 1531 H HA . TYR A 1 7 ? 7.976 -5.828 -2.966 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 5
+ATOM 1532 H HB2 . TYR A 1 7 ? 6.782 -4.576 -0.693 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 5
+ATOM 1533 H HB3 . TYR A 1 7 ? 7.894 -5.960 -0.469 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 5
+ATOM 1534 H HD1 . TYR A 1 7 ? 10.337 -5.809 -1.166 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 5
+ATOM 1535 H HD2 . TYR A 1 7 ? 7.840 -2.296 -1.115 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 5
+ATOM 1536 H HE1 . TYR A 1 7 ? 12.304 -4.378 -1.188 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 5
+ATOM 1537 H HE2 . TYR A 1 7 ? 9.828 -0.918 -1.140 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 5
+ATOM 1538 H HH . TYR A 1 7 ? 12.026 -0.843 -1.176 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 5
+ATOM 1539 N N . GLY A 1 8 ? 5.075 -6.698 -2.923 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 5
+ATOM 1540 C CA . GLY A 1 8 ? 3.967 -7.657 -2.837 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 5
+ATOM 1541 C C . GLY A 1 8 ? 3.152 -7.740 -1.513 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 5
+ATOM 1542 O O . GLY A 1 8 ? 2.609 -8.823 -1.271 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 5
+ATOM 1543 H H . GLY A 1 8 ? 5.028 -5.726 -3.235 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 5
+ATOM 1544 H HA2 . GLY A 1 8 ? 3.290 -7.394 -3.690 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 5
+ATOM 1545 H HA3 . GLY A 1 8 ? 4.410 -8.658 -3.029 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 5
+ATOM 1546 N N . LYS A 1 9 ? 3.043 -6.659 -0.693 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 5
+ATOM 1547 C CA . LYS A 1 9 ? 2.223 -6.650 0.564 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 5
+ATOM 1548 C C . LYS A 1 9 ? 1.388 -5.330 0.516 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 5
+ATOM 1549 O O . LYS A 1 9 ? 1.894 -4.276 0.109 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 5
+ATOM 1550 C CB . LYS A 1 9 ? 3.190 -6.696 1.783 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 5
+ATOM 1551 C CG . LYS A 1 9 ? 2.546 -6.979 3.172 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 5
+ATOM 1552 C CD . LYS A 1 9 ? 3.498 -7.059 4.393 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 5
+ATOM 1553 C CE . LYS A 1 9 ? 3.895 -5.721 5.051 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 5
+ATOM 1554 N NZ . LYS A 1 9 ? 4.774 -5.949 6.209 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 5
+ATOM 1555 H H . LYS A 1 9 ? 3.605 -5.826 -0.970 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 5
+ATOM 1556 H HA . LYS A 1 9 ? 1.557 -7.564 0.632 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 5
+ATOM 1557 H HB2 . LYS A 1 9 ? 3.952 -7.485 1.624 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 5
+ATOM 1558 H HB3 . LYS A 1 9 ? 3.760 -5.751 1.831 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 5
+ATOM 1559 H HG2 . LYS A 1 9 ? 1.732 -6.252 3.353 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 5
+ATOM 1560 H HG3 . LYS A 1 9 ? 2.028 -7.952 3.093 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 5
+ATOM 1561 H HD2 . LYS A 1 9 ? 2.989 -7.669 5.161 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 5
+ATOM 1562 H HD3 . LYS A 1 9 ? 4.406 -7.636 4.135 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 5
+ATOM 1563 H HE2 . LYS A 1 9 ? 4.411 -5.075 4.317 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 5
+ATOM 1564 H HE3 . LYS A 1 9 ? 2.991 -5.173 5.374 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 5
+ATOM 1565 H HZ1 . LYS A 1 9 ? 5.638 -6.433 5.938 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 5
+ATOM 1566 H HZ2 . LYS A 1 9 ? 5.047 -5.067 6.656 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 5
+ATOM 1567 H HZ3 . LYS A 1 9 ? 4.315 -6.523 6.925 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 5
+ATOM 1568 N N . CYS A 1 10 ? 0.133 -5.412 0.990 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 5
+ATOM 1569 C CA . CYS A 1 10 ? -0.880 -4.391 0.834 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 5
+ATOM 1570 C C . CYS A 1 10 ? -0.829 -3.322 1.960 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 5
+ATOM 1571 O O . CYS A 1 10 ? -1.202 -3.629 3.102 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 5
+ATOM 1572 C CB . CYS A 1 10 ? -2.104 -5.339 0.863 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 5
+ATOM 1573 S SG . CYS A 1 10 ? -2.100 -6.754 -0.266 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 5
+ATOM 1574 H H . CYS A 1 10 ? -0.409 -6.234 0.701 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 5
+ATOM 1575 H HA . CYS A 1 10 ? -0.831 -3.954 -0.185 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 5
+ATOM 1576 H HB2 . CYS A 1 10 ? -2.415 -5.627 1.887 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 5
+ATOM 1577 H HB3 . CYS A 1 10 ? -2.903 -4.802 0.411 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 5
+ATOM 1578 N N . ARG A 1 11 ? -0.385 -2.079 1.639 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 5
+ATOM 1579 C CA . ARG A 1 11 ? -0.376 -0.968 2.586 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 5
+ATOM 1580 C C . ARG A 1 11 ? -1.295 0.154 2.006 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 5
+ATOM 1581 O O . ARG A 1 11 ? -1.434 0.347 0.791 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 5
+ATOM 1582 C CB . ARG A 1 11 ? 1.078 -0.553 2.847 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 5
+ATOM 1583 C CG . ARG A 1 11 ? 2.264 -1.553 3.071 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 5
+ATOM 1584 C CD . ARG A 1 11 ? 3.014 -1.969 1.785 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 5
+ATOM 1585 N NE . ARG A 1 11 ? 4.005 -0.914 1.507 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 5
+ATOM 1586 C CZ . ARG A 1 11 ? 5.268 -1.073 1.025 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 5
+ATOM 1587 N NH1 . ARG A 1 11 ? 5.822 -2.238 0.661 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 5
+ATOM 1588 N NH2 . ARG A 1 11 ? 6.018 0.002 0.902 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 5
+ATOM 1589 H H . ARG A 1 11 ? 0.594 -1.953 1.345 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 5
+ATOM 1590 H HA . ARG A 1 11 ? -0.609 -1.249 3.599 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 5
+ATOM 1591 H HB2 . ARG A 1 11 ? 1.225 0.214 2.132 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 5
+ATOM 1592 H HB3 . ARG A 1 11 ? 1.128 0.074 3.707 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 5
+ATOM 1593 H HG2 . ARG A 1 11 ? 2.962 -1.143 3.833 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 5
+ATOM 1594 H HG3 . ARG A 1 11 ? 1.853 -2.457 3.546 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 5
+ATOM 1595 H HD2 . ARG A 1 11 ? 3.522 -2.943 1.894 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 5
+ATOM 1596 H HD3 . ARG A 1 11 ? 2.350 -2.072 0.904 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 5
+ATOM 1597 H HE . ARG A 1 11 ? 3.639 0.005 1.799 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 5
+ATOM 1598 H HH11 . ARG A 1 11 ? 5.237 -3.075 0.757 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 5
+ATOM 1599 H HH12 . ARG A 1 11 ? 6.788 -2.199 0.315 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 5
+ATOM 1600 H HH21 . ARG A 1 11 ? 5.593 0.893 1.181 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 5
+ATOM 1601 H HH22 . ARG A 1 11 ? 6.967 -0.139 0.537 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 5
+ATOM 1602 N N . ARG A 1 12 ? -1.855 0.919 2.949 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 5
+ATOM 1603 C CA . ARG A 1 12 ? -2.508 2.233 2.757 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 5
+ATOM 1604 C C . ARG A 1 12 ? -1.988 3.209 3.872 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 5
+ATOM 1605 O O . ARG A 1 12 ? -2.685 3.420 4.873 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 5
+ATOM 1606 C CB . ARG A 1 12 ? -4.051 1.997 2.581 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 5
+ATOM 1607 C CG . ARG A 1 12 ? -4.928 1.684 3.812 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 5
+ATOM 1608 C CD . ARG A 1 12 ? -6.391 1.271 3.557 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 5
+ATOM 1609 N NE . ARG A 1 12 ? -7.286 2.422 3.248 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 5
+ATOM 1610 C CZ . ARG A 1 12 ? -8.644 2.411 3.260 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 5
+ATOM 1611 N NH1 . ARG A 1 12 ? -9.424 1.360 3.553 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 5
+ATOM 1612 N NH2 . ARG A 1 12 ? -9.254 3.541 2.956 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 5
+ATOM 1613 H H . ARG A 1 12 ? -1.308 0.789 3.756 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 5
+ATOM 1614 H HA . ARG A 1 12 ? -2.110 2.601 1.830 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 5
+ATOM 1615 H HB2 . ARG A 1 12 ? -4.560 2.811 2.020 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 5
+ATOM 1616 H HB3 . ARG A 1 12 ? -4.073 1.100 1.947 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 5
+ATOM 1617 H HG2 . ARG A 1 12 ? -4.396 0.872 4.339 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 5
+ATOM 1618 H HG3 . ARG A 1 12 ? -4.878 2.571 4.462 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 5
+ATOM 1619 H HD2 . ARG A 1 12 ? -6.454 0.518 2.749 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 5
+ATOM 1620 H HD3 . ARG A 1 12 ? -6.780 0.768 4.461 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 5
+ATOM 1621 H HE . ARG A 1 12 ? -6.889 3.334 2.997 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 5
+ATOM 1622 H HH11 . ARG A 1 12 ? -8.945 0.484 3.789 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 5
+ATOM 1623 H HH12 . ARG A 1 12 ? -10.438 1.516 3.517 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 5
+ATOM 1624 H HH21 . ARG A 1 12 ? -8.653 4.342 2.733 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 5
+ATOM 1625 H HH22 . ARG A 1 12 ? -10.280 3.527 2.967 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 5
+ATOM 1626 N N . TYR A 1 13 ? -0.752 3.757 3.728 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 5
+ATOM 1627 C CA . TYR A 1 13 ? 0.010 4.343 4.870 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 5
+ATOM 1628 C C . TYR A 1 13 ? 0.208 5.919 4.874 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 5
+ATOM 1629 O O . TYR A 1 13 ? -0.417 6.527 4.004 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 5
+ATOM 1630 C CB . TYR A 1 13 ? 1.413 3.564 4.925 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 5
+ATOM 1631 C CG . TYR A 1 13 ? 2.337 3.330 3.706 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 5
+ATOM 1632 C CD1 . TYR A 1 13 ? 2.727 4.387 2.885 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 5
+ATOM 1633 C CD2 . TYR A 1 13 ? 3.078 2.155 3.687 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 5
+ATOM 1634 C CE1 . TYR A 1 13 ? 3.865 4.287 2.110 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 5
+ATOM 1635 C CE2 . TYR A 1 13 ? 4.214 2.069 2.928 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 5
+ATOM 1636 C CZ . TYR A 1 13 ? 4.627 3.136 2.178 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 5
+ATOM 1637 O OH . TYR A 1 13 ? 5.826 3.017 1.545 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 5
+ATOM 1638 H H . TYR A 1 13 ? -0.203 3.417 2.922 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 5
+ATOM 1639 H HA . TYR A 1 13 ? -0.629 4.295 5.800 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 5
+ATOM 1640 H HB2 . TYR A 1 13 ? 2.124 4.110 5.553 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 5
+ATOM 1641 H HB3 . TYR A 1 13 ? 1.321 2.639 5.517 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 5
+ATOM 1642 H HD1 . TYR A 1 13 ? 2.199 5.332 2.890 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 5
+ATOM 1643 H HD2 . TYR A 1 13 ? 2.868 1.318 4.338 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 5
+ATOM 1644 H HE1 . TYR A 1 13 ? 4.159 5.123 1.483 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 5
+ATOM 1645 H HE2 . TYR A 1 13 ? 4.824 1.190 2.967 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 5
+ATOM 1646 H HH . TYR A 1 13 ? 6.009 3.830 1.068 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 5
+ATOM 1647 N N . HYP A 1 14 ? 0.971 6.666 5.799 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 5
+ATOM 1648 C CA . HYP A 1 14 ? 1.934 7.771 5.418 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 5
+ATOM 1649 C C . HYP A 1 14 ? 2.041 8.572 4.089 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 5
+ATOM 1650 O O . HYP A 1 14 ? 2.724 9.603 4.136 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 5
+ATOM 1651 C CB . HYP A 1 14 ? 3.259 7.017 5.707 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 5
+ATOM 1652 C CG . HYP A 1 14 ? 3.009 6.397 7.086 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 5
+ATOM 1653 C CD . HYP A 1 14 ? 1.496 6.133 7.116 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 5
+ATOM 1654 O OD1 . HYP A 1 14 ? 3.356 7.317 8.110 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 5
+ATOM 1655 H HA . HYP A 1 14 ? 1.778 8.617 6.124 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 5
+ATOM 1656 H HB2 . HYP A 1 14 ? 3.405 6.221 4.960 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 5
+ATOM 1657 H HB3 . HYP A 1 14 ? 4.184 7.614 5.646 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 5
+ATOM 1658 H HG . HYP A 1 14 ? 3.590 5.465 7.209 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 5
+ATOM 1659 H HD22 . HYP A 1 14 ? 1.301 5.029 7.215 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 5
+ATOM 1660 H HD23 . HYP A 1 14 ? 1.007 6.622 7.962 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 5
+ATOM 1661 H HD1 . HYP A 1 14 ? 3.138 6.885 8.939 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 5
+ATOM 1662 N N . GLY A 1 15 ? 1.409 8.185 2.974 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 5
+ATOM 1663 C CA . GLY A 1 15 ? 1.341 8.958 1.739 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 5
+ATOM 1664 C C . GLY A 1 15 ? 0.490 8.425 0.559 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 5
+ATOM 1665 O O . GLY A 1 15 ? 0.857 8.749 -0.575 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 5
+ATOM 1666 H H . GLY A 1 15 ? 0.949 7.294 2.965 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 5
+ATOM 1667 H HA2 . GLY A 1 15 ? 0.955 9.985 2.021 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 5
+ATOM 1668 H HA3 . GLY A 1 15 ? 2.404 8.838 1.395 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 5
+ATOM 1669 N N . CYS A 1 16 ? -0.581 7.614 0.781 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 5
+ATOM 1670 C CA . CYS A 1 16 ? -1.197 6.750 -0.274 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 5
+ATOM 1671 C C . CYS A 1 16 ? -2.757 6.656 -0.251 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 5
+ATOM 1672 O O . CYS A 1 16 ? -3.288 6.173 -1.253 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 5
+ATOM 1673 C CB . CYS A 1 16 ? -0.664 5.334 0.050 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 5
+ATOM 1674 S SG . CYS A 1 16 ? -0.861 4.378 -1.455 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 5
+ATOM 1675 H H . CYS A 1 16 ? -0.751 7.303 1.756 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 5
+ATOM 1676 H HA . CYS A 1 16 ? -0.902 7.031 -1.338 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 5
+ATOM 1677 H HB2 . CYS A 1 16 ? 0.409 5.281 0.347 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 5
+ATOM 1678 H HB3 . CYS A 1 16 ? -1.207 4.915 0.933 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 5
+ATOM 1679 N N . SER A 1 17 ? -3.453 6.969 0.877 1.00 0.00 ? ? ? ? ? ? 17 SER A N 5
+ATOM 1680 C CA . SER A 1 17 ? -4.404 6.003 1.529 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 5
+ATOM 1681 C C . SER A 1 17 ? -5.781 5.664 0.861 1.00 0.00 ? ? ? ? ? ? 17 SER A C 5
+ATOM 1682 O O . SER A 1 17 ? -6.602 4.928 1.423 1.00 0.00 ? ? ? ? ? ? 17 SER A O 5
+ATOM 1683 C CB . SER A 1 17 ? -4.607 6.506 2.982 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 5
+ATOM 1684 O OG . SER A 1 17 ? -5.441 5.621 3.723 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 5
+ATOM 1685 H H . SER A 1 17 ? -2.820 7.500 1.467 1.00 0.00 ? ? ? ? ? ? 17 SER A H 5
+ATOM 1686 H HA . SER A 1 17 ? -3.879 5.040 1.565 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 5
+ATOM 1687 H HB2 . SER A 1 17 ? -3.651 6.586 3.533 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 5
+ATOM 1688 H HB3 . SER A 1 17 ? -5.058 7.515 2.979 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 5
+ATOM 1689 H HG . SER A 1 17 ? -5.518 6.003 4.600 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 5
+ATOM 1690 N N . SER A 1 18 ? -5.919 6.103 -0.383 1.00 0.00 ? ? ? ? ? ? 18 SER A N 5
+ATOM 1691 C CA . SER A 1 18 ? -6.746 5.422 -1.434 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 5
+ATOM 1692 C C . SER A 1 18 ? -6.292 3.994 -1.950 1.00 0.00 ? ? ? ? ? ? 18 SER A C 5
+ATOM 1693 O O . SER A 1 18 ? -6.956 3.449 -2.840 1.00 0.00 ? ? ? ? ? ? 18 SER A O 5
+ATOM 1694 C CB . SER A 1 18 ? -6.756 6.397 -2.632 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 5
+ATOM 1695 O OG . SER A 1 18 ? -7.319 7.659 -2.289 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 5
+ATOM 1696 H H . SER A 1 18 ? -5.012 6.579 -0.546 1.00 0.00 ? ? ? ? ? ? 18 SER A H 5
+ATOM 1697 H HA . SER A 1 18 ? -7.780 5.325 -1.056 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 5
+ATOM 1698 H HB2 . SER A 1 18 ? -5.723 6.524 -3.007 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 5
+ATOM 1699 H HB3 . SER A 1 18 ? -7.338 5.975 -3.472 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 5
+ATOM 1700 H HG . SER A 1 18 ? -7.282 8.191 -3.088 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 5
+ATOM 1701 N N . ALA A 1 19 ? -5.210 3.401 -1.390 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 5
+ATOM 1702 C CA . ALA A 1 19 ? -4.352 2.350 -2.003 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 5
+ATOM 1703 C C . ALA A 1 19 ? -5.059 1.010 -2.369 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 5
+ATOM 1704 O O . ALA A 1 19 ? -5.076 0.023 -1.615 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 5
+ATOM 1705 C CB . ALA A 1 19 ? -3.195 2.083 -1.017 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 5
+ATOM 1706 H H . ALA A 1 19 ? -4.769 4.065 -0.756 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 5
+ATOM 1707 H HA . ALA A 1 19 ? -3.883 2.789 -2.909 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 5
+ATOM 1708 H HB1 . ALA A 1 19 ? -2.781 2.993 -0.551 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 5
+ATOM 1709 H HB2 . ALA A 1 19 ? -3.512 1.432 -0.184 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 5
+ATOM 1710 H HB3 . ALA A 1 19 ? -2.362 1.564 -1.526 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 5
+ATOM 1711 N N . SER A 1 20 ? -5.638 1.042 -3.572 1.00 0.00 ? ? ? ? ? ? 20 SER A N 5
+ATOM 1712 C CA . SER A 1 20 ? -6.316 -0.145 -4.145 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 5
+ATOM 1713 C C . SER A 1 20 ? -5.441 -1.264 -4.795 1.00 0.00 ? ? ? ? ? ? 20 SER A C 5
+ATOM 1714 O O . SER A 1 20 ? -5.982 -2.301 -5.180 1.00 0.00 ? ? ? ? ? ? 20 SER A O 5
+ATOM 1715 C CB . SER A 1 20 ? -7.230 0.336 -5.256 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 5
+ATOM 1716 O OG . SER A 1 20 ? -8.189 1.293 -4.820 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 5
+ATOM 1717 H H . SER A 1 20 ? -6.018 1.981 -3.718 1.00 0.00 ? ? ? ? ? ? 20 SER A H 5
+ATOM 1718 H HA . SER A 1 20 ? -6.999 -0.581 -3.387 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 5
+ATOM 1719 H HB2 . SER A 1 20 ? -6.654 0.691 -6.137 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 5
+ATOM 1720 H HB3 . SER A 1 20 ? -7.727 -0.611 -5.507 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 5
+ATOM 1721 H HG . SER A 1 20 ? -8.651 0.888 -4.083 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 5
+ATOM 1722 N N . CYS A 1 21 ? -4.137 -1.055 -4.984 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 5
+ATOM 1723 C CA . CYS A 1 21 ? -3.130 -2.026 -5.520 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 5
+ATOM 1724 C C . CYS A 1 21 ? -3.287 -3.576 -5.279 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 5
+ATOM 1725 O O . CYS A 1 21 ? -2.718 -4.349 -6.056 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 5
+ATOM 1726 C CB . CYS A 1 21 ? -1.826 -1.503 -4.883 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 5
+ATOM 1727 S SG . CYS A 1 21 ? -1.277 0.037 -5.642 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 5
+ATOM 1728 H H . CYS A 1 21 ? -3.894 -0.131 -4.651 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 5
+ATOM 1729 H HA . CYS A 1 21 ? -3.042 -1.893 -6.618 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 5
+ATOM 1730 H HB2 . CYS A 1 21 ? -1.860 -1.413 -3.773 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 5
+ATOM 1731 H HB3 . CYS A 1 21 ? -1.031 -2.205 -5.100 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 5
+ATOM 1732 N N . CYS A 1 22 ? -4.023 -3.982 -4.226 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 5
+ATOM 1733 C CA . CYS A 1 22 ? -4.226 -5.385 -3.794 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 5
+ATOM 1734 C C . CYS A 1 22 ? -5.566 -6.021 -4.288 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 5
+ATOM 1735 O O . CYS A 1 22 ? -5.503 -7.037 -4.987 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 5
+ATOM 1736 C CB . CYS A 1 22 ? -3.910 -5.385 -2.274 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 5
+ATOM 1737 S SG . CYS A 1 22 ? -2.204 -5.919 -2.059 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 5
+ATOM 1738 H H . CYS A 1 22 ? -4.433 -3.178 -3.721 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 5
+ATOM 1739 H HA . CYS A 1 22 ? -3.472 -6.017 -4.258 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 5
+ATOM 1740 H HB2 . CYS A 1 22 ? -4.007 -4.367 -1.779 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 5
+ATOM 1741 H HB3 . CYS A 1 22 ? -4.524 -6.134 -1.729 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 5
+ATOM 1742 N N . GLN A 1 23 ? -6.753 -5.433 -4.016 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 5
+ATOM 1743 C CA . GLN A 1 23 ? -8.028 -5.476 -4.786 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 5
+ATOM 1744 C C . GLN A 1 23 ? -7.957 -6.011 -6.259 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 5
+ATOM 1745 O O . GLN A 1 23 ? -6.935 -5.772 -6.912 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 5
+ATOM 1746 C CB . GLN A 1 23 ? -8.552 -3.999 -4.800 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 5
+ATOM 1747 C CG . GLN A 1 23 ? -8.563 -3.122 -3.501 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 5
+ATOM 1748 C CD . GLN A 1 23 ? -9.705 -2.103 -3.369 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 5
+ATOM 1749 O OE1 . GLN A 1 23 ? -9.595 -0.958 -3.803 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 5
+ATOM 1750 N NE2 . GLN A 1 23 ? -10.817 -2.498 -2.770 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 5
+ATOM 1751 H H . GLN A 1 23 ? -6.745 -4.570 -3.483 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 5
+ATOM 1752 H HA . GLN A 1 23 ? -8.744 -6.052 -4.193 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 5
+ATOM 1753 H HB2 . GLN A 1 23 ? -7.803 -3.492 -5.479 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 5
+ATOM 1754 H HB3 . GLN A 1 23 ? -9.634 -4.052 -5.154 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 5
+ATOM 1755 H HG2 . GLN A 1 23 ? -8.486 -3.762 -2.607 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 5
+ATOM 1756 H HG3 . GLN A 1 23 ? -7.593 -2.592 -3.465 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 5
+ATOM 1757 H HE21 . GLN A 1 23 ? -10.838 -3.467 -2.433 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 5
+ATOM 1758 H HE22 . GLN A 1 23 ? -11.568 -1.804 -2.692 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 5
+ATOM 1759 N N . ARG A 1 24 ? -9.004 -6.714 -6.739 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 5
+ATOM 1760 C CA . ARG A 1 24 ? -9.088 -7.247 -8.133 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 5
+ATOM 1761 C C . ARG A 1 24 ? -10.463 -6.810 -8.744 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 5
+ATOM 1762 O O . ARG A 1 24 ? -10.464 -6.005 -9.674 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 5
+ATOM 1763 C CB . ARG A 1 24 ? -8.739 -8.778 -8.119 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 5
+ATOM 1764 C CG . ARG A 1 24 ? -8.652 -9.550 -9.467 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 5
+ATOM 1765 C CD . ARG A 1 24 ? -9.975 -10.003 -10.127 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 5
+ATOM 1766 N NE . ARG A 1 24 ? -10.589 -11.197 -9.479 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 5
+ATOM 1767 C CZ . ARG A 1 24 ? -11.697 -11.860 -9.899 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 5
+ATOM 1768 N NH1 . ARG A 1 24 ? -12.439 -11.559 -10.975 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 5
+ATOM 1769 N NH2 . ARG A 1 24 ? -12.080 -12.900 -9.181 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 5
+ATOM 1770 H H . ARG A 1 24 ? -9.838 -6.670 -6.146 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 5
+ATOM 1771 H HA . ARG A 1 24 ? -8.323 -6.762 -8.772 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 5
+ATOM 1772 H HB2 . ARG A 1 24 ? -7.737 -8.908 -7.661 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 5
+ATOM 1773 H HB3 . ARG A 1 24 ? -9.437 -9.290 -7.431 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 5
+ATOM 1774 H HG2 . ARG A 1 24 ? -8.094 -8.927 -10.190 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 5
+ATOM 1775 H HG3 . ARG A 1 24 ? -8.013 -10.440 -9.320 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 5
+ATOM 1776 H HD2 . ARG A 1 24 ? -10.702 -9.171 -10.141 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 5
+ATOM 1777 H HD3 . ARG A 1 24 ? -9.780 -10.249 -11.187 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 5
+ATOM 1778 H HE . ARG A 1 24 ? -10.173 -11.596 -8.630 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 5
+ATOM 1779 H HH11 . ARG A 1 24 ? -12.136 -10.750 -11.529 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 5
+ATOM 1780 H HH12 . ARG A 1 24 ? -13.249 -12.161 -11.157 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 5
+ATOM 1781 H HH21 . ARG A 1 24 ? -11.509 -13.126 -8.359 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 5
+ATOM 1782 H HH22 . ARG A 1 24 ? -12.918 -13.397 -9.503 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 5
+ATOM 1783 N N . NH2 A 1 25 ? -11.638 -7.272 -8.301 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 5
+ATOM 1784 H HN1 . NH2 A 1 25 ? -11.605 -7.942 -7.525 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 5
+ATOM 1785 H HN2 . NH2 A 1 25 ? -12.478 -6.919 -8.774 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 5
+ATOM 1786 N N . HIS A 1 1 ? 8.242 5.262 4.817 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 6
+ATOM 1787 C CA . HIS A 1 1 ? 8.320 3.897 4.226 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 6
+ATOM 1788 C C . HIS A 1 1 ? 8.712 4.027 2.662 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 6
+ATOM 1789 O O . HIS A 1 1 ? 9.126 5.142 2.312 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 6
+ATOM 1790 C CB . HIS A 1 1 ? 6.927 3.160 4.498 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 6
+ATOM 1791 C CG . HIS A 1 1 ? 6.159 3.185 5.828 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 6
+ATOM 1792 N ND1 . HIS A 1 1 ? 4.862 2.707 5.892 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 6
+ATOM 1793 C CD2 . HIS A 1 1 ? 6.607 3.544 7.117 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 6
+ATOM 1794 C CE1 . HIS A 1 1 ? 4.633 2.814 7.238 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 6
+ATOM 1795 N NE2 . HIS A 1 1 ? 5.612 3.318 8.053 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 6
+ATOM 1796 H H1 . HIS A 1 1 ? 9.117 5.781 4.688 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 6
+ATOM 1797 H H2 . HIS A 1 1 ? 7.493 5.817 4.389 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 6
+ATOM 1798 H H3 . HIS A 1 1 ? 8.056 5.226 5.826 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 6
+ATOM 1799 H HA . HIS A 1 1 ? 9.194 3.429 4.736 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 6
+ATOM 1800 H HB2 . HIS A 1 1 ? 6.285 3.560 3.696 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 6
+ATOM 1801 H HB3 . HIS A 1 1 ? 6.892 2.064 4.234 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 6
+ATOM 1802 H HD1 . HIS A 1 1 ? 4.296 2.287 5.143 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 6
+ATOM 1803 H HD2 . HIS A 1 1 ? 7.597 3.906 7.350 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 6
+ATOM 1804 H HE1 . HIS A 1 1 ? 3.696 2.479 7.658 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 6
+ATOM 1805 H HE2 . HIS A 1 1 ? 5.627 3.433 9.072 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 6
+ATOM 1806 N N . HYP A 1 2 ? 8.621 3.057 1.654 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 6
+ATOM 1807 C CA . HYP A 1 2 ? 8.809 3.337 0.191 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 6
+ATOM 1808 C C . HYP A 1 2 ? 7.764 4.389 -0.422 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 6
+ATOM 1809 O O . HYP A 1 2 ? 7.379 5.290 0.328 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 6
+ATOM 1810 C CB . HYP A 1 2 ? 8.701 1.923 -0.446 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 6
+ATOM 1811 C CG . HYP A 1 2 ? 8.948 0.929 0.654 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 6
+ATOM 1812 C CD . HYP A 1 2 ? 8.376 1.614 1.866 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 6
+ATOM 1813 O OD1 . HYP A 1 2 ? 10.340 0.703 0.821 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 6
+ATOM 1814 H HA . HYP A 1 2 ? 9.829 3.732 0.039 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 6
+ATOM 1815 H HB2 . HYP A 1 2 ? 7.694 1.823 -0.907 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 6
+ATOM 1816 H HB3 . HYP A 1 2 ? 9.381 1.799 -1.303 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 6
+ATOM 1817 H HG . HYP A 1 2 ? 8.424 -0.004 0.455 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 6
+ATOM 1818 H HD22 . HYP A 1 2 ? 7.273 1.488 1.977 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 6
+ATOM 1819 H HD23 . HYP A 1 2 ? 8.879 1.246 2.780 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 6
+ATOM 1820 H HD1 . HYP A 1 2 ? 10.646 0.315 -0.002 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 6
+ATOM 1821 N N . HYP A 1 3 ? 7.220 4.311 -1.693 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 6
+ATOM 1822 C CA . HYP A 1 3 ? 5.753 4.285 -1.937 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 6
+ATOM 1823 C C . HYP A 1 3 ? 4.888 3.158 -1.253 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 6
+ATOM 1824 O O . HYP A 1 3 ? 5.460 2.211 -0.708 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 6
+ATOM 1825 C CB . HYP A 1 3 ? 5.767 4.062 -3.458 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 6
+ATOM 1826 C CG . HYP A 1 3 ? 7.096 4.687 -4.052 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 6
+ATOM 1827 C CD . HYP A 1 3 ? 8.052 4.196 -2.929 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 6
+ATOM 1828 O OD1 . HYP A 1 3 ? 7.025 6.108 -3.994 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 6
+ATOM 1829 H HA . HYP A 1 3 ? 5.326 5.275 -1.696 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 6
+ATOM 1830 H HB2 . HYP A 1 3 ? 5.621 2.952 -3.572 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 6
+ATOM 1831 H HB3 . HYP A 1 3 ? 4.815 4.500 -3.762 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 6
+ATOM 1832 H HG . HYP A 1 3 ? 7.410 4.465 -5.157 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 6
+ATOM 1833 H HD22 . HYP A 1 3 ? 8.312 3.113 -3.086 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 6
+ATOM 1834 H HD23 . HYP A 1 3 ? 9.006 4.756 -2.702 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 6
+ATOM 1835 H HD1 . HYP A 1 3 ? 7.897 6.426 -4.238 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 6
+ATOM 1836 N N . CYS A 1 4 ? 3.537 3.219 -1.359 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 6
+ATOM 1837 C CA . CYS A 1 4 ? 2.617 2.105 -1.027 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 6
+ATOM 1838 C C . CYS A 1 4 ? 2.691 0.863 -1.988 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 6
+ATOM 1839 O O . CYS A 1 4 ? 2.955 -0.251 -1.532 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 6
+ATOM 1840 C CB . CYS A 1 4 ? 1.244 2.907 -1.126 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 6
+ATOM 1841 S SG . CYS A 1 4 ? 1.144 4.351 -2.221 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 6
+ATOM 1842 H H . CYS A 1 4 ? 3.091 4.153 -1.313 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 6
+ATOM 1843 H HA . CYS A 1 4 ? 2.779 1.727 0.041 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 6
+ATOM 1844 H HB2 . CYS A 1 4 ? 0.469 2.281 -1.628 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 6
+ATOM 1845 H HB3 . CYS A 1 4 ? 0.916 3.390 -0.168 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 6
+ATOM 1846 N N . CYS A 1 5 ? 2.452 1.066 -3.293 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 6
+ATOM 1847 C CA . CYS A 1 5 ? 1.994 -0.063 -4.228 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 6
+ATOM 1848 C C . CYS A 1 5 ? 3.016 -1.136 -4.736 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 6
+ATOM 1849 O O . CYS A 1 5 ? 2.734 -1.964 -5.612 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 6
+ATOM 1850 C CB . CYS A 1 5 ? 1.381 0.671 -5.427 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 6
+ATOM 1851 S SG . CYS A 1 5 ? 0.143 -0.394 -6.199 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 6
+ATOM 1852 H H . CYS A 1 5 ? 2.456 2.120 -3.404 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 6
+ATOM 1853 H HA . CYS A 1 5 ? 1.264 -0.764 -3.762 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 6
+ATOM 1854 H HB2 . CYS A 1 5 ? 0.890 1.642 -5.133 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 6
+ATOM 1855 H HB3 . CYS A 1 5 ? 2.226 0.846 -6.137 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 6
+ATOM 1856 N N . LEU A 1 6 ? 4.173 -1.071 -4.117 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 6
+ATOM 1857 C CA . LEU A 1 6 ? 5.445 -1.688 -4.579 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 6
+ATOM 1858 C C . LEU A 1 6 ? 5.613 -3.057 -3.858 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 6
+ATOM 1859 O O . LEU A 1 6 ? 5.230 -3.245 -2.698 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 6
+ATOM 1860 C CB . LEU A 1 6 ? 6.554 -0.647 -4.255 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 6
+ATOM 1861 C CG . LEU A 1 6 ? 8.053 -0.734 -4.610 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 6
+ATOM 1862 C CD1 . LEU A 1 6 ? 8.776 0.635 -4.466 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 6
+ATOM 1863 C CD2 . LEU A 1 6 ? 8.885 -1.829 -3.906 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 6
+ATOM 1864 H H . LEU A 1 6 ? 4.056 -0.224 -3.547 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 6
+ATOM 1865 H HA . LEU A 1 6 ? 5.406 -1.793 -5.685 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 6
+ATOM 1866 H HB2 . LEU A 1 6 ? 6.194 0.303 -4.695 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 6
+ATOM 1867 H HB3 . LEU A 1 6 ? 6.586 -0.544 -3.199 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 6
+ATOM 1868 H HG . LEU A 1 6 ? 7.985 -0.956 -5.646 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 6
+ATOM 1869 H HD11 . LEU A 1 6 ? 8.245 1.434 -5.020 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 6
+ATOM 1870 H HD12 . LEU A 1 6 ? 8.809 0.950 -3.406 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 6
+ATOM 1871 H HD13 . LEU A 1 6 ? 9.810 0.620 -4.856 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 6
+ATOM 1872 H HD21 . LEU A 1 6 ? 8.449 -2.823 -4.063 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 6
+ATOM 1873 H HD22 . LEU A 1 6 ? 9.925 -1.886 -4.275 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 6
+ATOM 1874 H HD23 . LEU A 1 6 ? 8.914 -1.661 -2.813 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 6
+ATOM 1875 N N . TYR A 1 7 ? 6.206 -4.016 -4.602 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 6
+ATOM 1876 C CA . TYR A 1 7 ? 6.421 -5.483 -4.273 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 6
+ATOM 1877 C C . TYR A 1 7 ? 5.180 -6.425 -4.202 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 6
+ATOM 1878 O O . TYR A 1 7 ? 5.313 -7.650 -4.074 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 6
+ATOM 1879 C CB . TYR A 1 7 ? 7.333 -5.687 -3.051 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 6
+ATOM 1880 C CG . TYR A 1 7 ? 8.853 -5.372 -3.140 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 6
+ATOM 1881 C CD1 . TYR A 1 7 ? 9.674 -5.821 -4.175 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 6
+ATOM 1882 C CD2 . TYR A 1 7 ? 9.443 -4.671 -2.090 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 6
+ATOM 1883 C CE1 . TYR A 1 7 ? 11.023 -5.531 -4.186 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 6
+ATOM 1884 C CE2 . TYR A 1 7 ? 10.793 -4.384 -2.107 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 6
+ATOM 1885 C CZ . TYR A 1 7 ? 11.584 -4.813 -3.152 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 6
+ATOM 1886 O OH . TYR A 1 7 ? 12.922 -4.519 -3.166 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 6
+ATOM 1887 H H . TYR A 1 7 ? 6.483 -3.631 -5.482 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 6
+ATOM 1888 H HA . TYR A 1 7 ? 6.983 -5.919 -5.060 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 6
+ATOM 1889 H HB2 . TYR A 1 7 ? 6.794 -5.044 -2.373 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 6
+ATOM 1890 H HB3 . TYR A 1 7 ? 7.281 -6.739 -2.722 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 6
+ATOM 1891 H HD1 . TYR A 1 7 ? 9.253 -6.373 -5.004 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 6
+ATOM 1892 H HD2 . TYR A 1 7 ? 8.868 -4.294 -1.252 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 6
+ATOM 1893 H HE1 . TYR A 1 7 ? 11.636 -5.858 -5.013 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 6
+ATOM 1894 H HE2 . TYR A 1 7 ? 11.229 -3.811 -1.302 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 6
+ATOM 1895 H HH . TYR A 1 7 ? 13.314 -4.888 -3.961 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 6
+ATOM 1896 N N . GLY A 1 8 ? 4.018 -5.811 -4.325 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 6
+ATOM 1897 C CA . GLY A 1 8 ? 2.694 -6.422 -4.141 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 6
+ATOM 1898 C C . GLY A 1 8 ? 2.256 -6.783 -2.688 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 6
+ATOM 1899 O O . GLY A 1 8 ? 1.461 -7.721 -2.572 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 6
+ATOM 1900 H H . GLY A 1 8 ? 4.242 -4.819 -4.375 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 6
+ATOM 1901 H HA2 . GLY A 1 8 ? 1.968 -5.716 -4.625 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 6
+ATOM 1902 H HA3 . GLY A 1 8 ? 2.704 -7.366 -4.730 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 6
+ATOM 1903 N N . LYS A 1 9 ? 2.739 -6.086 -1.623 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 6
+ATOM 1904 C CA . LYS A 1 9 ? 2.299 -6.323 -0.211 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 6
+ATOM 1905 C C . LYS A 1 9 ? 1.208 -5.232 0.070 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 6
+ATOM 1906 O O . LYS A 1 9 ? 1.377 -4.072 -0.330 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 6
+ATOM 1907 C CB . LYS A 1 9 ? 3.546 -6.170 0.709 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 6
+ATOM 1908 C CG . LYS A 1 9 ? 3.383 -6.635 2.180 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 6
+ATOM 1909 C CD . LYS A 1 9 ? 4.637 -6.428 3.061 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 6
+ATOM 1910 C CE . LYS A 1 9 ? 4.506 -6.875 4.533 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 6
+ATOM 1911 N NZ . LYS A 1 9 ? 4.649 -8.333 4.733 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 6
+ATOM 1912 H H . LYS A 1 9 ? 3.341 -5.270 -1.857 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 6
+ATOM 1913 H HA . LYS A 1 9 ? 1.918 -7.382 -0.075 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 6
+ATOM 1914 H HB2 . LYS A 1 9 ? 4.390 -6.750 0.282 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 6
+ATOM 1915 H HB3 . LYS A 1 9 ? 3.878 -5.115 0.681 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 6
+ATOM 1916 H HG2 . LYS A 1 9 ? 2.530 -6.098 2.634 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 6
+ATOM 1917 H HG3 . LYS A 1 9 ? 3.103 -7.704 2.192 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 6
+ATOM 1918 H HD2 . LYS A 1 9 ? 5.511 -6.928 2.603 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 6
+ATOM 1919 H HD3 . LYS A 1 9 ? 4.888 -5.351 3.061 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 6
+ATOM 1920 H HE2 . LYS A 1 9 ? 5.299 -6.374 5.117 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 6
+ATOM 1921 H HE3 . LYS A 1 9 ? 3.555 -6.527 4.979 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 6
+ATOM 1922 H HZ1 . LYS A 1 9 ? 5.552 -8.675 4.387 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 6
+ATOM 1923 H HZ2 . LYS A 1 9 ? 4.587 -8.586 5.725 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 6
+ATOM 1924 H HZ3 . LYS A 1 9 ? 3.916 -8.856 4.239 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 6
+ATOM 1925 N N . CYS A 1 10 ? 0.123 -5.603 0.782 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 6
+ATOM 1926 C CA . CYS A 1 10 ? -1.020 -4.691 1.046 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 6
+ATOM 1927 C C . CYS A 1 10 ? -0.708 -3.611 2.137 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 6
+ATOM 1928 O O . CYS A 1 10 ? -0.963 -3.796 3.336 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 6
+ATOM 1929 C CB . CYS A 1 10 ? -2.225 -5.604 1.374 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 6
+ATOM 1930 S SG . CYS A 1 10 ? -3.680 -4.607 1.675 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 6
+ATOM 1931 H H . CYS A 1 10 ? -0.113 -6.574 0.577 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 6
+ATOM 1932 H HA . CYS A 1 10 ? -1.303 -4.206 0.091 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 6
+ATOM 1933 H HB2 . CYS A 1 10 ? -2.508 -6.240 0.508 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 6
+ATOM 1934 H HB3 . CYS A 1 10 ? -2.014 -6.270 2.230 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 6
+ATOM 1935 N N . ARG A 1 11 ? -0.199 -2.461 1.651 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 6
+ATOM 1936 C CA . ARG A 1 11 ? -0.170 -1.190 2.360 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 6
+ATOM 1937 C C . ARG A 1 11 ? -0.950 -0.141 1.514 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 6
+ATOM 1938 O O . ARG A 1 11 ? -0.761 0.013 0.303 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 6
+ATOM 1939 C CB . ARG A 1 11 ? 1.292 -0.755 2.566 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 6
+ATOM 1940 C CG . ARG A 1 11 ? 2.357 -0.611 1.423 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 6
+ATOM 1941 C CD . ARG A 1 11 ? 3.329 -1.768 1.123 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 6
+ATOM 1942 N NE . ARG A 1 11 ? 4.215 -1.930 2.295 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 6
+ATOM 1943 C CZ . ARG A 1 11 ? 5.347 -2.670 2.394 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 6
+ATOM 1944 N NH1 . ARG A 1 11 ? 5.886 -3.413 1.417 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 6
+ATOM 1945 N NH2 . ARG A 1 11 ? 5.974 -2.658 3.556 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 6
+ATOM 1946 H H . ARG A 1 11 ? 0.782 -2.488 1.381 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 6
+ATOM 1947 H HA . ARG A 1 11 ? -0.515 -1.320 3.414 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 6
+ATOM 1948 H HB2 . ARG A 1 11 ? 1.207 0.207 3.031 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 6
+ATOM 1949 H HB3 . ARG A 1 11 ? 1.696 -1.304 3.417 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 6
+ATOM 1950 H HG2 . ARG A 1 11 ? 1.800 -0.356 0.507 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 6
+ATOM 1951 H HG3 . ARG A 1 11 ? 2.971 0.275 1.623 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 6
+ATOM 1952 H HD2 . ARG A 1 11 ? 2.796 -2.701 0.907 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 6
+ATOM 1953 H HD3 . ARG A 1 11 ? 3.943 -1.536 0.231 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 6
+ATOM 1954 H HE . ARG A 1 11 ? 3.872 -1.389 3.099 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 6
+ATOM 1955 H HH11 . ARG A 1 11 ? 5.393 -3.417 0.518 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 6
+ATOM 1956 H HH12 . ARG A 1 11 ? 6.749 -3.918 1.647 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 6
+ATOM 1957 H HH21 . ARG A 1 11 ? 5.554 -2.087 4.298 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 6
+ATOM 1958 H HH22 . ARG A 1 11 ? 6.829 -3.221 3.622 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 6
+ATOM 1959 N N . ARG A 1 12 ? -1.748 0.613 2.260 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 6
+ATOM 1960 C CA . ARG A 1 12 ? -2.576 1.764 1.851 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 6
+ATOM 1961 C C . ARG A 1 12 ? -2.447 2.933 2.884 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 6
+ATOM 1962 O O . ARG A 1 12 ? -3.395 3.306 3.586 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 6
+ATOM 1963 C CB . ARG A 1 12 ? -4.028 1.336 1.494 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 6
+ATOM 1964 C CG . ARG A 1 12 ? -4.896 0.493 2.430 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 6
+ATOM 1965 C CD . ARG A 1 12 ? -5.502 1.091 3.712 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 6
+ATOM 1966 N NE . ARG A 1 12 ? -4.530 1.009 4.833 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 6
+ATOM 1967 C CZ . ARG A 1 12 ? -4.803 1.140 6.156 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 6
+ATOM 1968 N NH1 . ARG A 1 12 ? -6.010 1.368 6.694 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 6
+ATOM 1969 N NH2 . ARG A 1 12 ? -3.786 1.033 6.990 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 6
+ATOM 1970 H H . ARG A 1 12 ? -1.919 0.171 3.114 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 6
+ATOM 1971 H HA . ARG A 1 12 ? -2.131 2.064 0.941 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 6
+ATOM 1972 H HB2 . ARG A 1 12 ? -4.637 2.184 1.119 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 6
+ATOM 1973 H HB3 . ARG A 1 12 ? -3.873 0.647 0.654 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 6
+ATOM 1974 H HG2 . ARG A 1 12 ? -5.707 0.162 1.772 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 6
+ATOM 1975 H HG3 . ARG A 1 12 ? -4.256 -0.386 2.635 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 6
+ATOM 1976 H HD2 . ARG A 1 12 ? -5.822 2.136 3.551 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 6
+ATOM 1977 H HD3 . ARG A 1 12 ? -6.409 0.524 3.990 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 6
+ATOM 1978 H HE . ARG A 1 12 ? -3.543 0.837 4.608 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 6
+ATOM 1979 H HH11 . ARG A 1 12 ? -6.797 1.451 6.041 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 6
+ATOM 1980 H HH12 . ARG A 1 12 ? -6.050 1.443 7.717 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 6
+ATOM 1981 H HH21 . ARG A 1 12 ? -2.865 0.859 6.573 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 6
+ATOM 1982 H HH22 . ARG A 1 12 ? -3.999 1.134 7.989 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 6
+ATOM 1983 N N . TYR A 1 13 ? -1.229 3.506 3.008 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 6
+ATOM 1984 C CA . TYR A 1 13 ? -0.647 3.837 4.343 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 6
+ATOM 1985 C C . TYR A 1 13 ? -0.583 5.378 4.736 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 6
+ATOM 1986 O O . TYR A 1 13 ? -1.158 6.146 3.963 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 6
+ATOM 1987 C CB . TYR A 1 13 ? 0.819 3.162 4.379 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 6
+ATOM 1988 C CG . TYR A 1 13 ? 1.871 3.275 3.247 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 6
+ATOM 1989 C CD1 . TYR A 1 13 ? 2.011 4.422 2.469 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 6
+ATOM 1990 C CD2 . TYR A 1 13 ? 2.909 2.351 3.266 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 6
+ATOM 1991 C CE1 . TYR A 1 13 ? 3.184 4.664 1.794 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 6
+ATOM 1992 C CE2 . TYR A 1 13 ? 4.065 2.586 2.571 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 6
+ATOM 1993 C CZ . TYR A 1 13 ? 4.228 3.773 1.902 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 6
+ATOM 1994 O OH . TYR A 1 13 ? 5.458 4.089 1.419 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 6
+ATOM 1995 H H . TYR A 1 13 ? -0.572 3.234 2.260 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 6
+ATOM 1996 H HA . TYR A 1 13 ? -1.367 3.510 5.148 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 6
+ATOM 1997 H HB2 . TYR A 1 13 ? 1.414 3.616 5.179 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 6
+ATOM 1998 H HB3 . TYR A 1 13 ? 0.789 2.122 4.754 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 6
+ATOM 1999 H HD1 . TYR A 1 13 ? 1.242 5.180 2.443 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 6
+ATOM 2000 H HD2 . TYR A 1 13 ? 2.886 1.447 3.859 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 6
+ATOM 2001 H HE1 . TYR A 1 13 ? 3.293 5.572 1.223 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 6
+ATOM 2002 H HE2 . TYR A 1 13 ? 4.864 1.862 2.614 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 6
+ATOM 2003 H HH . TYR A 1 13 ? 5.420 4.956 1.007 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 6
+ATOM 2004 N N . HYP A 1 14 ? 0.027 5.922 5.886 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 6
+ATOM 2005 C CA . HYP A 1 14 ? 0.941 7.127 5.878 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 6
+ATOM 2006 C C . HYP A 1 14 ? 1.163 8.194 4.770 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 6
+ATOM 2007 O O . HYP A 1 14 ? 1.723 9.236 5.132 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 6
+ATOM 2008 C CB . HYP A 1 14 ? 2.274 6.399 6.190 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 6
+ATOM 2009 C CG . HYP A 1 14 ? 1.905 5.495 7.371 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 6
+ATOM 2010 C CD . HYP A 1 14 ? 0.439 5.124 7.106 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 6
+ATOM 2011 O OD1 . HYP A 1 14 ? 2.013 6.205 8.598 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 6
+ATOM 2012 H HA . HYP A 1 14 ? 0.628 7.792 6.714 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 6
+ATOM 2013 H HB2 . HYP A 1 14 ? 2.578 5.776 5.335 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 6
+ATOM 2014 H HB3 . HYP A 1 14 ? 3.148 7.046 6.369 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 6
+ATOM 2015 H HG . HYP A 1 14 ? 2.554 4.602 7.402 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 6
+ATOM 2016 H HD22 . HYP A 1 14 ? 0.356 4.019 6.918 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 6
+ATOM 2017 H HD23 . HYP A 1 14 ? -0.206 5.349 7.957 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 6
+ATOM 2018 H HD1 . HYP A 1 14 ? 1.727 5.596 9.282 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 6
+ATOM 2019 N N . GLY A 1 15 ? 0.759 8.003 3.507 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 6
+ATOM 2020 C CA . GLY A 1 15 ? 0.830 9.006 2.449 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 6
+ATOM 2021 C C . GLY A 1 15 ? 0.224 8.680 1.063 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 6
+ATOM 2022 O O . GLY A 1 15 ? 0.760 9.213 0.086 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 6
+ATOM 2023 H H . GLY A 1 15 ? 0.367 7.117 3.248 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 6
+ATOM 2024 H HA2 . GLY A 1 15 ? 0.324 9.938 2.848 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 6
+ATOM 2025 H HA3 . GLY A 1 15 ? 1.940 9.004 2.278 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 6
+ATOM 2026 N N . CYS A 1 16 ? -0.826 7.822 0.951 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 6
+ATOM 2027 C CA . CYS A 1 16 ? -1.237 7.177 -0.334 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 6
+ATOM 2028 C C . CYS A 1 16 ? -2.780 7.079 -0.582 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 6
+ATOM 2029 O O . CYS A 1 16 ? -3.148 6.762 -1.715 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 6
+ATOM 2030 C CB . CYS A 1 16 ? -0.708 5.728 -0.194 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 6
+ATOM 2031 S SG . CYS A 1 16 ? -0.654 5.089 -1.868 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 6
+ATOM 2032 H H . CYS A 1 16 ? -1.129 7.327 1.811 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 6
+ATOM 2033 H HA . CYS A 1 16 ? -0.788 7.661 -1.262 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 6
+ATOM 2034 H HB2 . CYS A 1 16 ? 0.309 5.629 0.248 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 6
+ATOM 2035 H HB3 . CYS A 1 16 ? -1.365 5.144 0.502 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 6
+ATOM 2036 N N . SER A 1 17 ? -3.644 7.217 0.453 1.00 0.00 ? ? ? ? ? ? 17 SER A N 6
+ATOM 2037 C CA . SER A 1 17 ? -4.631 6.153 0.820 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 6
+ATOM 2038 C C . SER A 1 17 ? -5.951 6.001 -0.005 1.00 0.00 ? ? ? ? ? ? 17 SER A C 6
+ATOM 2039 O O . SER A 1 17 ? -6.883 5.285 0.387 1.00 0.00 ? ? ? ? ? ? 17 SER A O 6
+ATOM 2040 C CB . SER A 1 17 ? -4.937 6.389 2.319 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 6
+ATOM 2041 O OG . SER A 1 17 ? -3.771 6.210 3.116 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 6
+ATOM 2042 H H . SER A 1 17 ? -3.120 7.593 1.233 1.00 0.00 ? ? ? ? ? ? 17 SER A H 6
+ATOM 2043 H HA . SER A 1 17 ? -4.118 5.181 0.733 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 6
+ATOM 2044 H HB2 . SER A 1 17 ? -5.352 7.400 2.486 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 6
+ATOM 2045 H HB3 . SER A 1 17 ? -5.708 5.680 2.674 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 6
+ATOM 2046 H HG . SER A 1 17 ? -4.045 6.362 4.023 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 6
+ATOM 2047 N N . SER A 1 18 ? -5.915 6.563 -1.212 1.00 0.00 ? ? ? ? ? ? 18 SER A N 6
+ATOM 2048 C CA . SER A 1 18 ? -6.633 6.003 -2.404 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 6
+ATOM 2049 C C . SER A 1 18 ? -6.185 4.588 -2.927 1.00 0.00 ? ? ? ? ? ? 18 SER A C 6
+ATOM 2050 O O . SER A 1 18 ? -6.943 3.987 -3.694 1.00 0.00 ? ? ? ? ? ? 18 SER A O 6
+ATOM 2051 C CB . SER A 1 18 ? -6.482 7.024 -3.544 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 6
+ATOM 2052 O OG . SER A 1 18 ? -7.282 6.657 -4.662 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 6
+ATOM 2053 H H . SER A 1 18 ? -4.980 7.012 -1.224 1.00 0.00 ? ? ? ? ? ? 18 SER A H 6
+ATOM 2054 H HA . SER A 1 18 ? -7.707 5.929 -2.151 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 6
+ATOM 2055 H HB2 . SER A 1 18 ? -6.782 8.039 -3.222 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 6
+ATOM 2056 H HB3 . SER A 1 18 ? -5.423 7.094 -3.853 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 6
+ATOM 2057 H HG . SER A 1 18 ? -8.189 6.644 -4.345 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 6
+ATOM 2058 N N . ALA A 1 19 ? -5.002 4.074 -2.499 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 6
+ATOM 2059 C CA . ALA A 1 19 ? -4.351 2.854 -3.003 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 6
+ATOM 2060 C C . ALA A 1 19 ? -5.120 1.587 -2.563 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 6
+ATOM 2061 O O . ALA A 1 19 ? -5.010 1.069 -1.443 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 6
+ATOM 2062 C CB . ALA A 1 19 ? -2.908 2.805 -2.484 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 6
+ATOM 2063 H H . ALA A 1 19 ? -4.402 4.807 -2.158 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 6
+ATOM 2064 H HA . ALA A 1 19 ? -4.191 2.959 -4.098 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 6
+ATOM 2065 H HB1 . ALA A 1 19 ? -2.826 2.973 -1.392 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 6
+ATOM 2066 H HB2 . ALA A 1 19 ? -2.408 1.845 -2.704 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 6
+ATOM 2067 H HB3 . ALA A 1 19 ? -2.317 3.577 -2.999 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 6
+ATOM 2068 N N . SER A 1 20 ? -5.866 1.083 -3.549 1.00 0.00 ? ? ? ? ? ? 20 SER A N 6
+ATOM 2069 C CA . SER A 1 20 ? -6.328 -0.335 -3.629 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 6
+ATOM 2070 C C . SER A 1 20 ? -5.209 -1.372 -3.287 1.00 0.00 ? ? ? ? ? ? 20 SER A C 6
+ATOM 2071 O O . SER A 1 20 ? -5.253 -1.987 -2.224 1.00 0.00 ? ? ? ? ? ? 20 SER A O 6
+ATOM 2072 C CB . SER A 1 20 ? -6.890 -0.561 -5.058 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 6
+ATOM 2073 O OG . SER A 1 20 ? -5.955 -0.235 -6.082 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 6
+ATOM 2074 H H . SER A 1 20 ? -6.201 1.836 -4.148 1.00 0.00 ? ? ? ? ? ? 20 SER A H 6
+ATOM 2075 H HA . SER A 1 20 ? -7.174 -0.493 -2.930 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 6
+ATOM 2076 H HB2 . SER A 1 20 ? -7.155 -1.613 -5.146 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 6
+ATOM 2077 H HB3 . SER A 1 20 ? -7.790 -0.021 -5.246 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 6
+ATOM 2078 H HG . SER A 1 20 ? -5.771 0.703 -5.983 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 6
+ATOM 2079 N N . CYS A 1 21 ? -4.191 -1.428 -4.183 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 6
+ATOM 2080 C CA . CYS A 1 21 ? -2.899 -2.187 -4.131 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 6
+ATOM 2081 C C . CYS A 1 21 ? -2.747 -3.423 -3.178 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 6
+ATOM 2082 O O . CYS A 1 21 ? -1.713 -3.664 -2.543 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 6
+ATOM 2083 C CB . CYS A 1 21 ? -1.909 -1.025 -3.932 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 6
+ATOM 2084 S SG . CYS A 1 21 ? -1.675 -0.033 -5.425 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 6
+ATOM 2085 H H . CYS A 1 21 ? -4.337 -0.591 -4.744 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 6
+ATOM 2086 H HA . CYS A 1 21 ? -2.660 -2.639 -5.123 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 6
+ATOM 2087 H HB2 . CYS A 1 21 ? -2.184 -0.361 -3.085 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 6
+ATOM 2088 H HB3 . CYS A 1 21 ? -0.956 -1.459 -3.713 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 6
+ATOM 2089 N N . CYS A 1 22 ? -3.844 -4.209 -3.184 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 6
+ATOM 2090 C CA . CYS A 1 22 ? -4.108 -5.349 -2.294 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 6
+ATOM 2091 C C . CYS A 1 22 ? -4.904 -6.518 -3.004 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 6
+ATOM 2092 O O . CYS A 1 22 ? -4.382 -7.630 -2.931 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 6
+ATOM 2093 C CB . CYS A 1 22 ? -4.923 -4.821 -1.111 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 6
+ATOM 2094 S SG . CYS A 1 22 ? -4.010 -3.694 -0.055 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 6
+ATOM 2095 H H . CYS A 1 22 ? -4.644 -3.563 -3.376 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 6
+ATOM 2096 H HA . CYS A 1 22 ? -3.167 -5.767 -1.919 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 6
+ATOM 2097 H HB2 . CYS A 1 22 ? -5.807 -4.253 -1.517 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 6
+ATOM 2098 H HB3 . CYS A 1 22 ? -5.213 -5.760 -0.619 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 6
+ATOM 2099 N N . GLN A 1 23 ? -6.046 -6.463 -3.752 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 6
+ATOM 2100 C CA . GLN A 1 23 ? -7.198 -5.527 -3.637 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 6
+ATOM 2101 C C . GLN A 1 23 ? -8.557 -6.292 -3.743 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 6
+ATOM 2102 O O . GLN A 1 23 ? -8.649 -7.281 -4.483 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 6
+ATOM 2103 C CB . GLN A 1 23 ? -7.070 -4.328 -4.667 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 6
+ATOM 2104 C CG . GLN A 1 23 ? -5.935 -4.118 -5.731 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 6
+ATOM 2105 C CD . GLN A 1 23 ? -6.222 -3.326 -7.028 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 6
+ATOM 2106 O OE1 . GLN A 1 23 ? -7.315 -2.811 -7.269 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 6
+ATOM 2107 N NE2 . GLN A 1 23 ? -5.225 -3.226 -7.891 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 6
+ATOM 2108 H H . GLN A 1 23 ? -5.668 -5.887 -4.487 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 6
+ATOM 2109 H HA . GLN A 1 23 ? -7.173 -5.123 -2.624 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 6
+ATOM 2110 H HB2 . GLN A 1 23 ? -7.827 -4.509 -5.429 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 6
+ATOM 2111 H HB3 . GLN A 1 23 ? -7.194 -3.381 -4.023 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 6
+ATOM 2112 H HG2 . GLN A 1 23 ? -5.084 -3.644 -5.249 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 6
+ATOM 2113 H HG3 . GLN A 1 23 ? -5.588 -5.125 -6.020 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 6
+ATOM 2114 H HE21 . GLN A 1 23 ? -4.343 -3.680 -7.629 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 6
+ATOM 2115 H HE22 . GLN A 1 23 ? -5.414 -2.703 -8.753 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 6
+ATOM 2116 N N . ARG A 1 24 ? -9.605 -5.802 -3.022 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 6
+ATOM 2117 C CA . ARG A 1 24 ? -10.957 -6.418 -2.997 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 6
+ATOM 2118 C C . ARG A 1 24 ? -11.809 -5.839 -4.157 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 6
+ATOM 2119 O O . ARG A 1 24 ? -11.950 -4.624 -4.287 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 6
+ATOM 2120 C CB . ARG A 1 24 ? -11.620 -6.236 -1.597 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 6
+ATOM 2121 C CG . ARG A 1 24 ? -11.994 -4.851 -0.971 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 6
+ATOM 2122 C CD . ARG A 1 24 ? -10.844 -3.986 -0.411 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 6
+ATOM 2123 N NE . ARG A 1 24 ? -10.324 -4.460 0.908 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 6
+ATOM 2124 C CZ . ARG A 1 24 ? -10.721 -4.038 2.138 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 6
+ATOM 2125 N NH1 . ARG A 1 24 ? -11.659 -3.114 2.390 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 6
+ATOM 2126 N NH2 . ARG A 1 24 ? -10.128 -4.589 3.181 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 6
+ATOM 2127 H H . ARG A 1 24 ? -9.444 -4.953 -2.463 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 6
+ATOM 2128 H HA . ARG A 1 24 ? -10.847 -7.516 -3.127 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 6
+ATOM 2129 H HB2 . ARG A 1 24 ? -12.558 -6.806 -1.649 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 6
+ATOM 2130 H HB3 . ARG A 1 24 ? -11.013 -6.790 -0.857 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 6
+ATOM 2131 H HG2 . ARG A 1 24 ? -12.530 -4.265 -1.740 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 6
+ATOM 2132 H HG3 . ARG A 1 24 ? -12.737 -5.012 -0.168 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 6
+ATOM 2133 H HD2 . ARG A 1 24 ? -10.013 -3.931 -1.136 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 6
+ATOM 2134 H HD3 . ARG A 1 24 ? -11.204 -2.946 -0.305 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 6
+ATOM 2135 H HE . ARG A 1 24 ? -9.590 -5.176 0.944 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 6
+ATOM 2136 H HH11 . ARG A 1 24 ? -12.116 -2.690 1.575 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 6
+ATOM 2137 H HH12 . ARG A 1 24 ? -11.845 -2.905 3.377 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 6
+ATOM 2138 H HH21 . ARG A 1 24 ? -9.411 -5.296 2.981 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 6
+ATOM 2139 H HH22 . ARG A 1 24 ? -10.432 -4.267 4.106 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 6
+ATOM 2140 N N . NH2 A 1 25 ? -12.395 -6.675 -5.002 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 6
+ATOM 2141 H HN1 . NH2 A 1 25 ? -12.954 -6.252 -5.752 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 6
+ATOM 2142 H HN2 . NH2 A 1 25 ? -12.243 -7.676 -4.838 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 6
+ATOM 2143 N N . HIS A 1 1 ? 8.848 5.410 5.029 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 7
+ATOM 2144 C CA . HIS A 1 1 ? 8.150 4.196 4.534 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 7
+ATOM 2145 C C . HIS A 1 1 ? 8.066 4.134 2.941 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 7
+ATOM 2146 O O . HIS A 1 1 ? 8.481 5.149 2.360 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 7
+ATOM 2147 C CB . HIS A 1 1 ? 6.726 4.153 5.204 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 7
+ATOM 2148 C CG . HIS A 1 1 ? 6.589 3.679 6.663 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 7
+ATOM 2149 N ND1 . HIS A 1 1 ? 5.469 4.018 7.411 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 7
+ATOM 2150 C CD2 . HIS A 1 1 ? 7.374 2.750 7.400 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 7
+ATOM 2151 C CE1 . HIS A 1 1 ? 5.684 3.274 8.539 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 7
+ATOM 2152 N NE2 . HIS A 1 1 ? 6.807 2.499 8.635 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 7
+ATOM 2153 H H1 . HIS A 1 1 ? 9.798 5.483 4.648 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 7
+ATOM 2154 H H2 . HIS A 1 1 ? 8.348 6.267 4.766 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 7
+ATOM 2155 H H3 . HIS A 1 1 ? 8.930 5.408 6.052 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 7
+ATOM 2156 H HA . HIS A 1 1 ? 8.818 3.373 4.879 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 7
+ATOM 2157 H HB2 . HIS A 1 1 ? 6.300 5.177 5.152 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 7
+ATOM 2158 H HB3 . HIS A 1 1 ? 5.991 3.547 4.608 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 7
+ATOM 2159 H HD1 . HIS A 1 1 ? 4.623 4.521 7.116 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 7
+ATOM 2160 H HD2 . HIS A 1 1 ? 8.267 2.268 7.029 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 7
+ATOM 2161 H HE1 . HIS A 1 1 ? 4.946 3.259 9.328 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 7
+ATOM 2162 H HE2 . HIS A 1 1 ? 7.091 1.839 9.368 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 7
+ATOM 2163 N N . HYP A 1 2 ? 7.615 3.077 2.144 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 7
+ATOM 2164 C CA . HYP A 1 2 ? 7.862 3.027 0.673 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 7
+ATOM 2165 C C . HYP A 1 2 ? 6.980 4.026 -0.212 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 7
+ATOM 2166 O O . HYP A 1 2 ? 6.404 4.939 0.372 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 7
+ATOM 2167 C CB . HYP A 1 2 ? 7.592 1.549 0.302 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 7
+ATOM 2168 C CG . HYP A 1 2 ? 7.489 0.781 1.593 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 7
+ATOM 2169 C CD . HYP A 1 2 ? 6.971 1.801 2.580 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 7
+ATOM 2170 O OD1 . HYP A 1 2 ? 8.769 0.317 1.995 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 7
+ATOM 2171 H HA . HYP A 1 2 ? 8.928 3.255 0.486 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 7
+ATOM 2172 H HB2 . HYP A 1 2 ? 6.668 1.533 -0.322 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 7
+ATOM 2173 H HB3 . HYP A 1 2 ? 8.367 1.138 -0.361 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 7
+ATOM 2174 H HG . HYP A 1 2 ? 6.797 -0.055 1.472 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 7
+ATOM 2175 H HD22 . HYP A 1 2 ? 5.866 1.891 2.504 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 7
+ATOM 2176 H HD23 . HYP A 1 2 ? 7.231 1.472 3.602 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 7
+ATOM 2177 H HD1 . HYP A 1 2 ? 9.322 1.098 2.068 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 7
+ATOM 2178 N N . HYP A 1 3 ? 6.764 3.874 -1.577 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 7
+ATOM 2179 C CA . HYP A 1 3 ? 5.403 3.926 -2.203 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 7
+ATOM 2180 C C . HYP A 1 3 ? 4.223 3.066 -1.574 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 7
+ATOM 2181 O O . HYP A 1 3 ? 4.512 2.241 -0.705 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 7
+ATOM 2182 C CB . HYP A 1 3 ? 5.782 3.395 -3.602 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 7
+ATOM 2183 C CG . HYP A 1 3 ? 7.277 3.824 -3.917 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 7
+ATOM 2184 C CD . HYP A 1 3 ? 7.860 3.491 -2.519 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 7
+ATOM 2185 O OD1 . HYP A 1 3 ? 7.344 5.233 -4.111 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 7
+ATOM 2186 H HA . HYP A 1 3 ? 5.080 4.981 -2.272 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 7
+ATOM 2187 H HB2 . HYP A 1 3 ? 5.580 2.291 -3.535 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 7
+ATOM 2188 H HB3 . HYP A 1 3 ? 5.005 3.790 -4.263 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 7
+ATOM 2189 H HG . HYP A 1 3 ? 7.842 3.387 -4.845 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 7
+ATOM 2190 H HD22 . HYP A 1 3 ? 8.037 2.383 -2.414 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 7
+ATOM 2191 H HD23 . HYP A 1 3 ? 8.776 4.022 -2.123 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 7
+ATOM 2192 H HD1 . HYP A 1 3 ? 8.278 5.449 -4.159 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 7
+ATOM 2193 N N . CYS A 1 4 ? 2.956 3.216 -2.050 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 7
+ATOM 2194 C CA . CYS A 1 4 ? 1.835 2.280 -1.645 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 7
+ATOM 2195 C C . CYS A 1 4 ? 1.799 0.882 -2.325 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 7
+ATOM 2196 O O . CYS A 1 4 ? 1.167 0.010 -1.730 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 7
+ATOM 2197 C CB . CYS A 1 4 ? 0.496 2.986 -1.991 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 7
+ATOM 2198 S SG . CYS A 1 4 ? -0.797 2.124 -1.062 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 7
+ATOM 2199 H H . CYS A 1 4 ? 2.808 4.215 -2.257 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 7
+ATOM 2200 H HA . CYS A 1 4 ? 1.781 2.119 -0.527 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 7
+ATOM 2201 H HB2 . CYS A 1 4 ? 0.468 4.058 -1.636 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 7
+ATOM 2202 H HB3 . CYS A 1 4 ? 0.308 2.918 -3.101 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 7
+ATOM 2203 N N . CYS A 1 5 ? 2.303 0.753 -3.569 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 7
+ATOM 2204 C CA . CYS A 1 5 ? 2.045 -0.479 -4.447 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 7
+ATOM 2205 C C . CYS A 1 5 ? 3.148 -1.577 -4.604 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 7
+ATOM 2206 O O . CYS A 1 5 ? 3.005 -2.530 -5.381 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 7
+ATOM 2207 C CB . CYS A 1 5 ? 1.671 0.094 -5.831 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 7
+ATOM 2208 S SG . CYS A 1 5 ? 0.606 -1.031 -6.767 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 7
+ATOM 2209 H H . CYS A 1 5 ? 2.538 1.744 -3.852 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 7
+ATOM 2210 H HA . CYS A 1 5 ? 1.251 -1.141 -4.057 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 7
+ATOM 2211 H HB2 . CYS A 1 5 ? 1.138 1.087 -5.747 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 7
+ATOM 2212 H HB3 . CYS A 1 5 ? 2.621 0.197 -6.412 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 7
+ATOM 2213 N N . LEU A 1 6 ? 4.212 -1.408 -3.831 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 7
+ATOM 2214 C CA . LEU A 1 6 ? 5.566 -1.961 -4.126 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 7
+ATOM 2215 C C . LEU A 1 6 ? 6.112 -2.805 -2.929 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 7
+ATOM 2216 O O . LEU A 1 6 ? 5.800 -2.546 -1.764 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 7
+ATOM 2217 C CB . LEU A 1 6 ? 6.466 -0.723 -4.477 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 7
+ATOM 2218 C CG . LEU A 1 6 ? 7.943 -0.786 -5.005 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 7
+ATOM 2219 C CD1 . LEU A 1 6 ? 8.140 -1.604 -6.309 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 7
+ATOM 2220 C CD2 . LEU A 1 6 ? 8.514 0.642 -5.204 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 7
+ATOM 2221 H H . LEU A 1 6 ? 4.045 -0.448 -3.520 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 7
+ATOM 2222 H HA . LEU A 1 6 ? 5.504 -2.583 -5.042 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 7
+ATOM 2223 H HB2 . LEU A 1 6 ? 5.902 -0.122 -5.212 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 7
+ATOM 2224 H HB3 . LEU A 1 6 ? 6.497 -0.148 -3.538 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 7
+ATOM 2225 H HG . LEU A 1 6 ? 8.570 -1.216 -4.207 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 7
+ATOM 2226 H HD11 . LEU A 1 6 ? 7.760 -2.632 -6.171 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 7
+ATOM 2227 H HD12 . LEU A 1 6 ? 7.576 -1.167 -7.155 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 7
+ATOM 2228 H HD13 . LEU A 1 6 ? 9.202 -1.687 -6.606 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 7
+ATOM 2229 H HD21 . LEU A 1 6 ? 8.456 1.227 -4.267 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 7
+ATOM 2230 H HD22 . LEU A 1 6 ? 9.576 0.643 -5.507 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 7
+ATOM 2231 H HD23 . LEU A 1 6 ? 7.934 1.201 -5.963 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 7
+ATOM 2232 N N . TYR A 1 7 ? 7.000 -3.774 -3.267 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 7
+ATOM 2233 C CA . TYR A 1 7 ? 7.732 -4.768 -2.382 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 7
+ATOM 2234 C C . TYR A 1 7 ? 6.980 -6.052 -1.936 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 7
+ATOM 2235 O O . TYR A 1 7 ? 7.626 -7.050 -1.597 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 7
+ATOM 2236 C CB . TYR A 1 7 ? 8.508 -4.140 -1.224 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 7
+ATOM 2237 C CG . TYR A 1 7 ? 9.793 -3.368 -1.608 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 7
+ATOM 2238 C CD1 . TYR A 1 7 ? 11.017 -4.022 -1.705 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 7
+ATOM 2239 C CD2 . TYR A 1 7 ? 9.741 -1.999 -1.851 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 7
+ATOM 2240 C CE1 . TYR A 1 7 ? 12.159 -3.322 -2.042 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 7
+ATOM 2241 C CE2 . TYR A 1 7 ? 10.887 -1.306 -2.187 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 7
+ATOM 2242 C CZ . TYR A 1 7 ? 12.095 -1.966 -2.283 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 7
+ATOM 2243 O OH . TYR A 1 7 ? 13.229 -1.274 -2.616 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 7
+ATOM 2244 H H . TYR A 1 7 ? 7.039 -3.860 -4.264 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 7
+ATOM 2245 H HA . TYR A 1 7 ? 8.487 -5.219 -2.968 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 7
+ATOM 2246 H HB2 . TYR A 1 7 ? 7.733 -3.501 -0.847 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 7
+ATOM 2247 H HB3 . TYR A 1 7 ? 8.784 -4.910 -0.484 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 7
+ATOM 2248 H HD1 . TYR A 1 7 ? 11.107 -5.085 -1.522 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 7
+ATOM 2249 H HD2 . TYR A 1 7 ? 8.815 -1.443 -1.785 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 7
+ATOM 2250 H HE1 . TYR A 1 7 ? 13.105 -3.838 -2.116 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 7
+ATOM 2251 H HE2 . TYR A 1 7 ? 10.838 -0.244 -2.375 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 7
+ATOM 2252 H HH . TYR A 1 7 ? 13.005 -0.350 -2.748 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 7
+ATOM 2253 N N . GLY A 1 8 ? 5.661 -6.006 -2.011 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 7
+ATOM 2254 C CA . GLY A 1 8 ? 4.767 -7.188 -2.071 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 7
+ATOM 2255 C C . GLY A 1 8 ? 3.940 -7.575 -0.818 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 7
+ATOM 2256 O O . GLY A 1 8 ? 3.278 -8.616 -0.884 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 7
+ATOM 2257 H H . GLY A 1 8 ? 5.466 -5.102 -2.423 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 7
+ATOM 2258 H HA2 . GLY A 1 8 ? 4.042 -6.966 -2.896 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 7
+ATOM 2259 H HA3 . GLY A 1 8 ? 5.366 -8.082 -2.366 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 7
+ATOM 2260 N N . LYS A 1 9 ? 3.953 -6.768 0.266 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 7
+ATOM 2261 C CA . LYS A 1 9 ? 3.034 -6.950 1.444 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 7
+ATOM 2262 C C . LYS A 1 9 ? 2.272 -5.590 1.591 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 7
+ATOM 2263 O O . LYS A 1 9 ? 2.938 -4.559 1.757 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 7
+ATOM 2264 C CB . LYS A 1 9 ? 3.883 -7.303 2.697 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 7
+ATOM 2265 C CG . LYS A 1 9 ? 3.092 -7.784 3.951 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 7
+ATOM 2266 C CD . LYS A 1 9 ? 3.914 -8.181 5.202 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 7
+ATOM 2267 C CE . LYS A 1 9 ? 4.345 -7.033 6.140 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 7
+ATOM 2268 N NZ . LYS A 1 9 ? 5.092 -7.555 7.295 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 7
+ATOM 2269 H H . LYS A 1 9 ? 4.560 -5.932 0.091 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 7
+ATOM 2270 H HA . LYS A 1 9 ? 2.335 -7.823 1.287 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 7
+ATOM 2271 H HB2 . LYS A 1 9 ? 4.604 -8.105 2.445 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 7
+ATOM 2272 H HB3 . LYS A 1 9 ? 4.503 -6.430 2.970 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 7
+ATOM 2273 H HG2 . LYS A 1 9 ? 2.321 -7.029 4.202 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 7
+ATOM 2274 H HG3 . LYS A 1 9 ? 2.506 -8.669 3.640 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 7
+ATOM 2275 H HD2 . LYS A 1 9 ? 3.291 -8.877 5.793 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 7
+ATOM 2276 H HD3 . LYS A 1 9 ? 4.798 -8.778 4.907 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 7
+ATOM 2277 H HE2 . LYS A 1 9 ? 4.973 -6.309 5.590 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 7
+ATOM 2278 H HE3 . LYS A 1 9 ? 3.457 -6.477 6.493 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 7
+ATOM 2279 H HZ1 . LYS A 1 9 ? 4.528 -8.212 7.845 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 7
+ATOM 2280 H HZ2 . LYS A 1 9 ? 5.940 -8.054 7.002 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 7
+ATOM 2281 H HZ3 . LYS A 1 9 ? 5.385 -6.802 7.927 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 7
+ATOM 2282 N N . CYS A 1 10 ? 0.912 -5.579 1.564 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 7
+ATOM 2283 C CA . CYS A 1 10 ? 0.127 -4.344 1.293 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 7
+ATOM 2284 C C . CYS A 1 10 ? 0.235 -3.237 2.412 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 7
+ATOM 2285 O O . CYS A 1 10 ? -0.578 -3.197 3.341 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 7
+ATOM 2286 C CB . CYS A 1 10 ? -1.312 -4.777 0.926 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 7
+ATOM 2287 S SG . CYS A 1 10 ? -2.498 -3.398 0.869 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 7
+ATOM 2288 H H . CYS A 1 10 ? 0.480 -6.466 1.291 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 7
+ATOM 2289 H HA . CYS A 1 10 ? 0.450 -3.987 0.292 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 7
+ATOM 2290 H HB2 . CYS A 1 10 ? -1.227 -5.224 -0.076 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 7
+ATOM 2291 H HB3 . CYS A 1 10 ? -1.792 -5.613 1.427 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 7
+ATOM 2292 N N . ARG A 1 11 ? 1.180 -2.266 2.260 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 7
+ATOM 2293 C CA . ARG A 1 11 ? 1.111 -0.852 2.667 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 7
+ATOM 2294 C C . ARG A 1 11 ? -0.319 -0.209 2.614 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 7
+ATOM 2295 O O . ARG A 1 11 ? -1.004 -0.224 1.586 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 7
+ATOM 2296 C CB . ARG A 1 11 ? 2.038 -0.074 1.742 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 7
+ATOM 2297 C CG . ARG A 1 11 ? 3.577 -0.295 1.495 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 7
+ATOM 2298 C CD . ARG A 1 11 ? 4.049 -1.487 0.631 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 7
+ATOM 2299 N NE . ARG A 1 11 ? 3.276 -1.584 -0.633 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 7
+ATOM 2300 C CZ . ARG A 1 11 ? 2.805 -2.745 -1.181 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 7
+ATOM 2301 N NH1 . ARG A 1 11 ? 3.382 -3.940 -1.054 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 7
+ATOM 2302 N NH2 . ARG A 1 11 ? 1.707 -2.718 -1.908 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 7
+ATOM 2303 H H . ARG A 1 11 ? 1.996 -2.296 1.662 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 7
+ATOM 2304 H HA . ARG A 1 11 ? 1.690 -0.630 3.549 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 7
+ATOM 2305 H HB2 . ARG A 1 11 ? 1.458 -0.015 0.867 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 7
+ATOM 2306 H HB3 . ARG A 1 11 ? 1.980 0.947 1.958 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 7
+ATOM 2307 H HG2 . ARG A 1 11 ? 3.972 0.617 1.015 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 7
+ATOM 2308 H HG3 . ARG A 1 11 ? 4.091 -0.338 2.472 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 7
+ATOM 2309 H HD2 . ARG A 1 11 ? 5.117 -1.360 0.373 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 7
+ATOM 2310 H HD3 . ARG A 1 11 ? 3.974 -2.424 1.208 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 7
+ATOM 2311 H HE . ARG A 1 11 ? 2.724 -0.717 -0.766 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 7
+ATOM 2312 H HH11 . ARG A 1 11 ? 4.241 -3.978 -0.495 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 7
+ATOM 2313 H HH12 . ARG A 1 11 ? 2.919 -4.725 -1.525 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 7
+ATOM 2314 H HH21 . ARG A 1 11 ? 1.253 -1.805 -2.020 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 7
+ATOM 2315 H HH22 . ARG A 1 11 ? 1.395 -3.612 -2.302 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 7
+ATOM 2316 N N . ARG A 1 12 ? -0.673 0.360 3.758 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 7
+ATOM 2317 C CA . ARG A 1 12 ? -1.739 1.358 3.965 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 7
+ATOM 2318 C C . ARG A 1 12 ? -1.167 2.449 4.933 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 7
+ATOM 2319 O O . ARG A 1 12 ? -1.356 2.339 6.151 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 7
+ATOM 2320 C CB . ARG A 1 12 ? -3.085 0.636 4.328 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 7
+ATOM 2321 C CG . ARG A 1 12 ? -3.285 0.027 5.725 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 7
+ATOM 2322 C CD . ARG A 1 12 ? -4.593 -0.770 5.927 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 7
+ATOM 2323 N NE . ARG A 1 12 ? -4.417 -1.705 7.063 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 7
+ATOM 2324 C CZ . ARG A 1 12 ? -5.292 -1.949 8.073 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 7
+ATOM 2325 N NH1 . ARG A 1 12 ? -6.488 -1.366 8.239 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 7
+ATOM 2326 N NH2 . ARG A 1 12 ? -4.932 -2.843 8.976 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 7
+ATOM 2327 H H . ARG A 1 12 ? 0.098 0.333 4.360 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 7
+ATOM 2328 H HA . ARG A 1 12 ? -1.847 1.818 3.003 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 7
+ATOM 2329 H HB2 . ARG A 1 12 ? -3.983 1.248 4.086 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 7
+ATOM 2330 H HB3 . ARG A 1 12 ? -3.076 -0.232 3.653 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 7
+ATOM 2331 H HG2 . ARG A 1 12 ? -2.382 -0.597 5.873 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 7
+ATOM 2332 H HG3 . ARG A 1 12 ? -3.224 0.859 6.443 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 7
+ATOM 2333 H HD2 . ARG A 1 12 ? -5.440 -0.080 6.098 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 7
+ATOM 2334 H HD3 . ARG A 1 12 ? -4.856 -1.374 5.037 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 7
+ATOM 2335 H HE . ARG A 1 12 ? -3.548 -2.247 7.085 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 7
+ATOM 2336 H HH11 . ARG A 1 12 ? -6.762 -0.672 7.534 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 7
+ATOM 2337 H HH12 . ARG A 1 12 ? -7.034 -1.659 9.056 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 7
+ATOM 2338 H HH21 . ARG A 1 12 ? -4.015 -3.285 8.844 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 7
+ATOM 2339 H HH22 . ARG A 1 12 ? -5.597 -3.022 9.736 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 7
+ATOM 2340 N N . TYR A 1 13 ? -0.423 3.449 4.394 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 7
+ATOM 2341 C CA . TYR A 1 13 ? 0.482 4.307 5.206 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 7
+ATOM 2342 C C . TYR A 1 13 ? 0.243 5.871 5.172 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 7
+ATOM 2343 O O . TYR A 1 13 ? -0.637 6.268 4.404 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 7
+ATOM 2344 C CB . TYR A 1 13 ? 1.985 3.956 4.786 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 7
+ATOM 2345 C CG . TYR A 1 13 ? 2.538 4.317 3.363 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 7
+ATOM 2346 C CD1 . TYR A 1 13 ? 1.892 4.044 2.162 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 7
+ATOM 2347 C CD2 . TYR A 1 13 ? 3.739 5.030 3.299 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 7
+ATOM 2348 C CE1 . TYR A 1 13 ? 2.378 4.561 0.978 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 7
+ATOM 2349 C CE2 . TYR A 1 13 ? 4.221 5.527 2.115 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 7
+ATOM 2350 C CZ . TYR A 1 13 ? 3.530 5.308 0.950 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 7
+ATOM 2351 O OH . TYR A 1 13 ? 3.991 5.820 -0.233 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 7
+ATOM 2352 H H . TYR A 1 13 ? -0.231 3.321 3.392 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 7
+ATOM 2353 H HA . TYR A 1 13 ? 0.251 4.154 6.299 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 7
+ATOM 2354 H HB2 . TYR A 1 13 ? 2.664 4.481 5.463 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 7
+ATOM 2355 H HB3 . TYR A 1 13 ? 2.255 2.953 5.103 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 7
+ATOM 2356 H HD1 . TYR A 1 13 ? 0.987 3.460 2.126 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 7
+ATOM 2357 H HD2 . TYR A 1 13 ? 4.323 5.259 4.175 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 7
+ATOM 2358 H HE1 . TYR A 1 13 ? 1.855 4.410 0.061 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 7
+ATOM 2359 H HE2 . TYR A 1 13 ? 5.167 6.051 2.100 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 7
+ATOM 2360 H HH . TYR A 1 13 ? 3.390 5.567 -0.938 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 7
+ATOM 2361 N N . HYP A 1 14 ? 0.953 6.802 5.947 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 7
+ATOM 2362 C CA . HYP A 1 14 ? 1.424 8.145 5.447 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 7
+ATOM 2363 C C . HYP A 1 14 ? 1.190 8.824 4.064 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 7
+ATOM 2364 O O . HYP A 1 14 ? 1.405 10.042 4.020 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 7
+ATOM 2365 C CB . HYP A 1 14 ? 2.947 7.918 5.606 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 7
+ATOM 2366 C CG . HYP A 1 14 ? 3.090 7.291 6.994 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 7
+ATOM 2367 C CD . HYP A 1 14 ? 1.821 6.444 7.136 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 7
+ATOM 2368 O OD1 . HYP A 1 14 ? 3.119 8.297 7.997 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 7
+ATOM 2369 H HA . HYP A 1 14 ? 1.040 8.913 6.151 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 7
+ATOM 2370 H HB2 . HYP A 1 14 ? 3.300 7.214 4.842 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 7
+ATOM 2371 H HB3 . HYP A 1 14 ? 3.571 8.811 5.437 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 7
+ATOM 2372 H HG . HYP A 1 14 ? 4.005 6.675 7.059 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 7
+ATOM 2373 H HD22 . HYP A 1 14 ? 2.066 5.338 7.133 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 7
+ATOM 2374 H HD23 . HYP A 1 14 ? 1.299 6.643 8.080 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 7
+ATOM 2375 H HD1 . HYP A 1 14 ? 3.904 8.821 7.823 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 7
+ATOM 2376 N N . GLY A 1 15 ? 0.828 8.119 2.981 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 7
+ATOM 2377 C CA . GLY A 1 15 ? 0.776 8.643 1.623 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 7
+ATOM 2378 C C . GLY A 1 15 ? 0.176 7.719 0.537 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 7
+ATOM 2379 O O . GLY A 1 15 ? 0.740 7.694 -0.562 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 7
+ATOM 2380 H H . GLY A 1 15 ? 0.464 7.190 3.090 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 7
+ATOM 2381 H HA2 . GLY A 1 15 ? 0.193 9.617 1.649 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 7
+ATOM 2382 H HA3 . GLY A 1 15 ? 1.875 8.661 1.405 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 7
+ATOM 2383 N N . CYS A 1 16 ? -0.935 7.005 0.823 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 7
+ATOM 2384 C CA . CYS A 1 16 ? -1.599 6.067 -0.130 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 7
+ATOM 2385 C C . CYS A 1 16 ? -3.087 6.435 -0.356 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 7
+ATOM 2386 O O . CYS A 1 16 ? -3.535 6.300 -1.492 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 7
+ATOM 2387 C CB . CYS A 1 16 ? -1.408 4.664 0.495 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 7
+ATOM 2388 S SG . CYS A 1 16 ? -2.196 3.432 -0.552 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 7
+ATOM 2389 H H . CYS A 1 16 ? -1.230 6.983 1.819 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 7
+ATOM 2390 H HA . CYS A 1 16 ? -1.129 6.044 -1.165 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 7
+ATOM 2391 H HB2 . CYS A 1 16 ? -0.326 4.469 0.502 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 7
+ATOM 2392 H HB3 . CYS A 1 16 ? -1.780 4.581 1.546 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 7
+ATOM 2393 N N . SER A 1 17 ? -3.877 6.819 0.671 1.00 0.00 ? ? ? ? ? ? 17 SER A N 7
+ATOM 2394 C CA . SER A 1 17 ? -4.951 5.903 1.186 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 7
+ATOM 2395 C C . SER A 1 17 ? -6.201 5.574 0.316 1.00 0.00 ? ? ? ? ? ? 17 SER A C 7
+ATOM 2396 O O . SER A 1 17 ? -6.980 4.673 0.648 1.00 0.00 ? ? ? ? ? ? 17 SER A O 7
+ATOM 2397 C CB . SER A 1 17 ? -5.398 6.435 2.566 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 7
+ATOM 2398 O OG . SER A 1 17 ? -6.307 5.540 3.198 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 7
+ATOM 2399 H H . SER A 1 17 ? -3.239 7.268 1.328 1.00 0.00 ? ? ? ? ? ? 17 SER A H 7
+ATOM 2400 H HA . SER A 1 17 ? -4.486 4.925 1.297 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 7
+ATOM 2401 H HB2 . SER A 1 17 ? -4.542 6.575 3.253 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 7
+ATOM 2402 H HB3 . SER A 1 17 ? -5.874 7.425 2.453 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 7
+ATOM 2403 H HG . SER A 1 17 ? -7.059 5.464 2.606 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 7
+ATOM 2404 N N . SER A 1 18 ? -6.282 6.275 -0.801 1.00 0.00 ? ? ? ? ? ? 18 SER A N 7
+ATOM 2405 C CA . SER A 1 18 ? -7.076 5.872 -1.995 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 7
+ATOM 2406 C C . SER A 1 18 ? -6.521 4.681 -2.849 1.00 0.00 ? ? ? ? ? ? 18 SER A C 7
+ATOM 2407 O O . SER A 1 18 ? -7.364 4.036 -3.479 1.00 0.00 ? ? ? ? ? ? 18 SER A O 7
+ATOM 2408 C CB . SER A 1 18 ? -7.240 7.115 -2.891 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 7
+ATOM 2409 O OG . SER A 1 18 ? -7.971 8.127 -2.208 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 7
+ATOM 2410 H H . SER A 1 18 ? -5.401 6.815 -0.780 1.00 0.00 ? ? ? ? ? ? 18 SER A H 7
+ATOM 2411 H HA . SER A 1 18 ? -8.094 5.601 -1.663 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 7
+ATOM 2412 H HB2 . SER A 1 18 ? -6.262 7.520 -3.205 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 7
+ATOM 2413 H HB3 . SER A 1 18 ? -7.785 6.864 -3.821 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 7
+ATOM 2414 H HG . SER A 1 18 ? -8.823 7.740 -1.994 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 7
+ATOM 2415 N N . ALA A 1 19 ? -5.182 4.419 -2.904 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 7
+ATOM 2416 C CA . ALA A 1 19 ? -4.554 3.610 -3.985 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 7
+ATOM 2417 C C . ALA A 1 19 ? -4.775 2.073 -3.805 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 7
+ATOM 2418 O O . ALA A 1 19 ? -3.943 1.328 -3.266 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 7
+ATOM 2419 C CB . ALA A 1 19 ? -3.062 3.989 -4.029 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 7
+ATOM 2420 H H . ALA A 1 19 ? -4.671 5.223 -2.529 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 7
+ATOM 2421 H HA . ALA A 1 19 ? -4.913 3.979 -4.967 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 7
+ATOM 2422 H HB1 . ALA A 1 19 ? -2.907 5.076 -4.166 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 7
+ATOM 2423 H HB2 . ALA A 1 19 ? -2.536 3.687 -3.111 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 7
+ATOM 2424 H HB3 . ALA A 1 19 ? -2.553 3.481 -4.869 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 7
+ATOM 2425 N N . SER A 1 20 ? -5.957 1.654 -4.277 1.00 0.00 ? ? ? ? ? ? 20 SER A N 7
+ATOM 2426 C CA . SER A 1 20 ? -6.467 0.253 -4.123 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 7
+ATOM 2427 C C . SER A 1 20 ? -5.835 -0.939 -4.940 1.00 0.00 ? ? ? ? ? ? 20 SER A C 7
+ATOM 2428 O O . SER A 1 20 ? -6.376 -2.049 -5.017 1.00 0.00 ? ? ? ? ? ? 20 SER A O 7
+ATOM 2429 C CB . SER A 1 20 ? -7.922 0.336 -4.554 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 7
+ATOM 2430 O OG . SER A 1 20 ? -8.694 1.325 -3.875 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 7
+ATOM 2431 H H . SER A 1 20 ? -6.609 2.447 -4.260 1.00 0.00 ? ? ? ? ? ? 20 SER A H 7
+ATOM 2432 H HA . SER A 1 20 ? -6.443 -0.034 -3.051 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 7
+ATOM 2433 H HB2 . SER A 1 20 ? -7.952 0.451 -5.657 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 7
+ATOM 2434 H HB3 . SER A 1 20 ? -8.295 -0.655 -4.290 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 7
+ATOM 2435 H HG . SER A 1 20 ? -9.592 1.228 -4.200 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 7
+ATOM 2436 N N . CYS A 1 21 ? -4.656 -0.702 -5.482 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 7
+ATOM 2437 C CA . CYS A 1 21 ? -3.564 -1.695 -5.818 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 7
+ATOM 2438 C C . CYS A 1 21 ? -3.621 -3.161 -5.223 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 7
+ATOM 2439 O O . CYS A 1 21 ? -3.217 -4.097 -5.921 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 7
+ATOM 2440 C CB . CYS A 1 21 ? -2.244 -0.964 -5.418 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 7
+ATOM 2441 S SG . CYS A 1 21 ? -0.742 -1.962 -5.611 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 7
+ATOM 2442 H H . CYS A 1 21 ? -4.626 0.307 -5.366 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 7
+ATOM 2443 H HA . CYS A 1 21 ? -3.542 -1.801 -6.918 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 7
+ATOM 2444 H HB2 . CYS A 1 21 ? -2.120 -0.040 -6.016 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 7
+ATOM 2445 H HB3 . CYS A 1 21 ? -2.275 -0.653 -4.353 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 7
+ATOM 2446 N N . CYS A 1 22 ? -4.088 -3.311 -3.965 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 7
+ATOM 2447 C CA . CYS A 1 22 ? -3.977 -4.537 -3.139 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 7
+ATOM 2448 C C . CYS A 1 22 ? -5.329 -5.296 -2.994 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 7
+ATOM 2449 O O . CYS A 1 22 ? -5.491 -6.345 -3.620 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 7
+ATOM 2450 C CB . CYS A 1 22 ? -3.216 -4.060 -1.875 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 7
+ATOM 2451 S SG . CYS A 1 22 ? -4.037 -3.914 -0.298 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 7
+ATOM 2452 H H . CYS A 1 22 ? -4.243 -2.380 -3.550 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 7
+ATOM 2453 H HA . CYS A 1 22 ? -3.305 -5.254 -3.641 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 7
+ATOM 2454 H HB2 . CYS A 1 22 ? -2.540 -4.887 -1.590 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 7
+ATOM 2455 H HB3 . CYS A 1 22 ? -2.701 -3.071 -1.998 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 7
+ATOM 2456 N N . GLN A 1 23 ? -6.287 -4.757 -2.214 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 7
+ATOM 2457 C CA . GLN A 1 23 ? -7.766 -4.848 -2.335 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 7
+ATOM 2458 C C . GLN A 1 23 ? -8.376 -5.736 -3.475 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 7
+ATOM 2459 O O . GLN A 1 23 ? -7.819 -5.735 -4.578 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 7
+ATOM 2460 C CB . GLN A 1 23 ? -8.257 -3.381 -2.520 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 7
+ATOM 2461 C CG . GLN A 1 23 ? -7.782 -2.199 -1.619 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 7
+ATOM 2462 C CD . GLN A 1 23 ? -8.306 -2.238 -0.176 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 7
+ATOM 2463 O OE1 . GLN A 1 23 ? -7.705 -2.862 0.697 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 7
+ATOM 2464 N NE2 . GLN A 1 23 ? -9.423 -1.582 0.106 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 7
+ATOM 2465 H H . GLN A 1 23 ? -6.004 -3.824 -1.899 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 7
+ATOM 2466 H HA . GLN A 1 23 ? -8.135 -5.150 -1.348 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 7
+ATOM 2467 H HB2 . GLN A 1 23 ? -7.842 -3.158 -3.544 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 7
+ATOM 2468 H HB3 . GLN A 1 23 ? -9.382 -3.381 -2.399 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 7
+ATOM 2469 H HG2 . GLN A 1 23 ? -6.673 -2.198 -1.596 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 7
+ATOM 2470 H HG3 . GLN A 1 23 ? -8.046 -1.254 -2.122 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 7
+ATOM 2471 H HE21 . GLN A 1 23 ? -9.871 -1.084 -0.671 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 7
+ATOM 2472 H HE22 . GLN A 1 23 ? -9.749 -1.626 1.077 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 7
+ATOM 2473 N N . ARG A 1 24 ? -9.492 -6.443 -3.202 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 7
+ATOM 2474 C CA . ARG A 1 24 ? -10.201 -7.298 -4.191 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 7
+ATOM 2475 C C . ARG A 1 24 ? -11.690 -6.910 -3.995 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 7
+ATOM 2476 O O . ARG A 1 24 ? -12.299 -7.205 -2.966 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 7
+ATOM 2477 C CB . ARG A 1 24 ? -9.869 -8.793 -3.913 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 7
+ATOM 2478 C CG . ARG A 1 24 ? -10.416 -9.832 -4.929 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 7
+ATOM 2479 C CD . ARG A 1 24 ? -10.122 -11.315 -4.617 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 7
+ATOM 2480 N NE . ARG A 1 24 ? -11.009 -11.897 -3.563 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 7
+ATOM 2481 C CZ . ARG A 1 24 ? -12.175 -12.568 -3.759 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 7
+ATOM 2482 N NH1 . ARG A 1 24 ? -12.744 -12.830 -4.945 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 7
+ATOM 2483 N NH2 . ARG A 1 24 ? -12.805 -13.002 -2.684 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 7
+ATOM 2484 H H . ARG A 1 24 ? -9.965 -6.137 -2.348 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 7
+ATOM 2485 H HA . ARG A 1 24 ? -9.861 -7.065 -5.223 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 7
+ATOM 2486 H HB2 . ARG A 1 24 ? -8.768 -8.939 -3.895 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 7
+ATOM 2487 H HB3 . ARG A 1 24 ? -10.220 -9.031 -2.893 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 7
+ATOM 2488 H HG2 . ARG A 1 24 ? -11.506 -9.693 -5.046 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 7
+ATOM 2489 H HG3 . ARG A 1 24 ? -9.987 -9.596 -5.919 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 7
+ATOM 2490 H HD2 . ARG A 1 24 ? -10.243 -11.898 -5.549 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 7
+ATOM 2491 H HD3 . ARG A 1 24 ? -9.063 -11.457 -4.329 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 7
+ATOM 2492 H HE . ARG A 1 24 ? -10.756 -11.808 -2.573 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 7
+ATOM 2493 H HH11 . ARG A 1 24 ? -12.248 -12.490 -5.777 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 7
+ATOM 2494 H HH12 . ARG A 1 24 ? -13.628 -13.349 -4.926 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 7
+ATOM 2495 H HH21 . ARG A 1 24 ? -12.365 -12.798 -1.780 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 7
+ATOM 2496 H HH22 . ARG A 1 24 ? -13.685 -13.507 -2.839 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 7
+ATOM 2497 N N . NH2 A 1 25 ? -12.300 -6.239 -4.960 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 7
+ATOM 2498 H HN1 . NH2 A 1 25 ? -11.739 -6.018 -5.791 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 7
+ATOM 2499 H HN2 . NH2 A 1 25 ? -13.283 -5.993 -4.799 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 7
+ATOM 2500 N N . HIS A 1 1 ? 8.371 5.514 4.918 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 8
+ATOM 2501 C CA . HIS A 1 1 ? 8.407 4.360 3.979 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 8
+ATOM 2502 C C . HIS A 1 1 ? 8.361 4.834 2.448 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 8
+ATOM 2503 O O . HIS A 1 1 ? 8.210 6.055 2.293 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 8
+ATOM 2504 C CB . HIS A 1 1 ? 7.166 3.435 4.284 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 8
+ATOM 2505 C CG . HIS A 1 1 ? 7.072 2.648 5.603 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 8
+ATOM 2506 N ND1 . HIS A 1 1 ? 5.870 2.475 6.287 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 8
+ATOM 2507 C CD2 . HIS A 1 1 ? 8.076 1.852 6.201 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 8
+ATOM 2508 C CE1 . HIS A 1 1 ? 6.269 1.593 7.256 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 8
+ATOM 2509 N NE2 . HIS A 1 1 ? 7.572 1.176 7.298 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 8
+ATOM 2510 H H1 . HIS A 1 1 ? 9.159 6.153 4.762 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 8
+ATOM 2511 H H2 . HIS A 1 1 ? 7.510 6.062 4.811 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 8
+ATOM 2512 H H3 . HIS A 1 1 ? 8.417 5.207 5.896 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 8
+ATOM 2513 H HA . HIS A 1 1 ? 9.396 3.898 4.210 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 8
+ATOM 2514 H HB2 . HIS A 1 1 ? 6.279 4.100 4.230 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 8
+ATOM 2515 H HB3 . HIS A 1 1 ? 6.960 2.696 3.460 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 8
+ATOM 2516 H HD1 . HIS A 1 1 ? 4.914 2.770 6.039 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 8
+ATOM 2517 H HD2 . HIS A 1 1 ? 9.084 1.746 5.829 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 8
+ATOM 2518 H HE1 . HIS A 1 1 ? 5.549 1.192 7.954 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 8
+ATOM 2519 H HE2 . HIS A 1 1 ? 8.022 0.483 7.908 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 8
+ATOM 2520 N N . HYP A 1 2 ? 8.415 4.054 1.280 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 8
+ATOM 2521 C CA . HYP A 1 2 ? 8.189 4.624 -0.094 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 8
+ATOM 2522 C C . HYP A 1 2 ? 6.718 5.217 -0.330 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 8
+ATOM 2523 O O . HYP A 1 2 ? 6.096 5.558 0.684 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 8
+ATOM 2524 C CB . HYP A 1 2 ? 8.513 3.427 -1.027 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 8
+ATOM 2525 C CG . HYP A 1 2 ? 9.335 2.466 -0.206 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 8
+ATOM 2526 C CD . HYP A 1 2 ? 8.742 2.599 1.181 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 8
+ATOM 2527 O OD1 . HYP A 1 2 ? 10.701 2.858 -0.197 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 8
+ATOM 2528 H HA . HYP A 1 2 ? 8.924 5.432 -0.263 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 8
+ATOM 2529 H HB2 . HYP A 1 2 ? 7.542 3.001 -1.391 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 8
+ATOM 2530 H HB3 . HYP A 1 2 ? 9.022 3.745 -1.951 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 8
+ATOM 2531 H HG . HYP A 1 2 ? 9.234 1.452 -0.601 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 8
+ATOM 2532 H HD22 . HYP A 1 2 ? 7.825 1.971 1.256 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 8
+ATOM 2533 H HD23 . HYP A 1 2 ? 9.483 2.252 1.922 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 8
+ATOM 2534 H HD1 . HYP A 1 2 ? 10.716 3.754 0.147 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 8
+ATOM 2535 N N . HYP A 1 3 ? 6.046 5.228 -1.548 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 8
+ATOM 2536 C CA . HYP A 1 3 ? 4.650 4.751 -1.686 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 8
+ATOM 2537 C C . HYP A 1 3 ? 4.305 3.316 -1.164 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 8
+ATOM 2538 O O . HYP A 1 3 ? 5.202 2.469 -1.116 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 8
+ATOM 2539 C CB . HYP A 1 3 ? 4.520 4.738 -3.208 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 8
+ATOM 2540 C CG . HYP A 1 3 ? 5.443 5.889 -3.786 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 8
+ATOM 2541 C CD . HYP A 1 3 ? 6.659 5.635 -2.852 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 8
+ATOM 2542 O OD1 . HYP A 1 3 ? 4.888 7.162 -3.473 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 8
+ATOM 2543 H HA . HYP A 1 3 ? 3.972 5.506 -1.245 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 8
+ATOM 2544 H HB2 . HYP A 1 3 ? 4.747 3.677 -3.502 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 8
+ATOM 2545 H HB3 . HYP A 1 3 ? 3.446 4.823 -3.339 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 8
+ATOM 2546 H HG . HYP A 1 3 ? 5.657 5.948 -4.933 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 8
+ATOM 2547 H HD22 . HYP A 1 3 ? 7.258 4.777 -3.262 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 8
+ATOM 2548 H HD23 . HYP A 1 3 ? 7.368 6.471 -2.587 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 8
+ATOM 2549 H HD1 . HYP A 1 3 ? 4.082 7.234 -3.990 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 8
+ATOM 2550 N N . CYS A 1 4 ? 3.013 3.050 -0.889 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 8
+ATOM 2551 C CA . CYS A 1 4 ? 2.475 1.729 -0.491 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 8
+ATOM 2552 C C . CYS A 1 4 ? 2.684 0.537 -1.492 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 8
+ATOM 2553 O O . CYS A 1 4 ? 3.135 -0.531 -1.071 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 8
+ATOM 2554 C CB . CYS A 1 4 ? 0.952 2.167 -0.374 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 8
+ATOM 2555 S SG . CYS A 1 4 ? 0.260 3.465 -1.405 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 8
+ATOM 2556 H H . CYS A 1 4 ? 2.387 3.854 -0.731 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 8
+ATOM 2557 H HA . CYS A 1 4 ? 2.876 1.378 0.530 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 8
+ATOM 2558 H HB2 . CYS A 1 4 ? 0.300 1.361 -0.771 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 8
+ATOM 2559 H HB3 . CYS A 1 4 ? 0.660 2.627 0.606 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 8
+ATOM 2560 N N . CYS A 1 5 ? 2.330 0.736 -2.774 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 8
+ATOM 2561 C CA . CYS A 1 5 ? 2.104 -0.433 -3.741 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 8
+ATOM 2562 C C . CYS A 1 5 ? 3.293 -1.306 -4.236 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 8
+ATOM 2563 O O . CYS A 1 5 ? 3.113 -2.324 -4.917 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 8
+ATOM 2564 C CB . CYS A 1 5 ? 1.369 0.131 -4.959 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 8
+ATOM 2565 S SG . CYS A 1 5 ? 0.490 -1.244 -5.744 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 8
+ATOM 2566 H H . CYS A 1 5 ? 2.090 1.769 -2.822 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 8
+ATOM 2567 H HA . CYS A 1 5 ? 1.557 -1.281 -3.282 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 8
+ATOM 2568 H HB2 . CYS A 1 5 ? 0.657 0.953 -4.666 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 8
+ATOM 2569 H HB3 . CYS A 1 5 ? 2.153 0.515 -5.658 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 8
+ATOM 2570 N N . LEU A 1 6 ? 4.453 -0.907 -3.775 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 8
+ATOM 2571 C CA . LEU A 1 6 ? 5.703 -1.670 -3.750 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 8
+ATOM 2572 C C . LEU A 1 6 ? 5.665 -2.817 -2.683 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 8
+ATOM 2573 O O . LEU A 1 6 ? 4.770 -2.924 -1.838 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 8
+ATOM 2574 C CB . LEU A 1 6 ? 6.805 -0.569 -3.511 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 8
+ATOM 2575 C CG . LEU A 1 6 ? 8.252 -0.732 -4.081 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 8
+ATOM 2576 C CD1 . LEU A 1 6 ? 9.175 -1.819 -3.531 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 8
+ATOM 2577 C CD2 . LEU A 1 6 ? 8.406 -0.565 -5.618 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 8
+ATOM 2578 H H . LEU A 1 6 ? 4.242 -0.118 -3.175 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 8
+ATOM 2579 H HA . LEU A 1 6 ? 5.863 -2.120 -4.744 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 8
+ATOM 2580 H HB2 . LEU A 1 6 ? 6.508 0.423 -3.892 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 8
+ATOM 2581 H HB3 . LEU A 1 6 ? 6.814 -0.370 -2.421 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 8
+ATOM 2582 H HG . LEU A 1 6 ? 8.735 0.119 -3.632 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 8
+ATOM 2583 H HD11 . LEU A 1 6 ? 9.045 -1.897 -2.437 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 8
+ATOM 2584 H HD12 . LEU A 1 6 ? 8.917 -2.800 -3.968 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 8
+ATOM 2585 H HD13 . LEU A 1 6 ? 10.232 -1.594 -3.737 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 8
+ATOM 2586 H HD21 . LEU A 1 6 ? 7.842 0.314 -5.983 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 8
+ATOM 2587 H HD22 . LEU A 1 6 ? 9.456 -0.420 -5.933 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 8
+ATOM 2588 H HD23 . LEU A 1 6 ? 8.009 -1.450 -6.149 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 8
+ATOM 2589 N N . TYR A 1 7 ? 6.692 -3.679 -2.789 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 8
+ATOM 2590 C CA . TYR A 1 7 ? 7.071 -4.826 -1.875 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 8
+ATOM 2591 C C . TYR A 1 7 ? 6.209 -6.118 -1.997 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 8
+ATOM 2592 O O . TYR A 1 7 ? 6.532 -7.166 -1.424 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 8
+ATOM 2593 C CB . TYR A 1 7 ? 7.249 -4.408 -0.407 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 8
+ATOM 2594 C CG . TYR A 1 7 ? 8.477 -3.525 -0.071 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 8
+ATOM 2595 C CD1 . TYR A 1 7 ? 9.752 -4.070 0.045 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 8
+ATOM 2596 C CD2 . TYR A 1 7 ? 8.305 -2.165 0.170 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 8
+ATOM 2597 C CE1 . TYR A 1 7 ? 10.824 -3.279 0.407 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 8
+ATOM 2598 C CE2 . TYR A 1 7 ? 9.380 -1.383 0.543 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 8
+ATOM 2599 C CZ . TYR A 1 7 ? 10.637 -1.938 0.663 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 8
+ATOM 2600 O OH . TYR A 1 7 ? 11.700 -1.155 1.030 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 8
+ATOM 2601 H H . TYR A 1 7 ? 7.368 -3.183 -3.369 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 8
+ATOM 2602 H HA . TYR A 1 7 ? 8.035 -5.159 -2.158 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 8
+ATOM 2603 H HB2 . TYR A 1 7 ? 6.307 -3.913 -0.248 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 8
+ATOM 2604 H HB3 . TYR A 1 7 ? 7.323 -5.307 0.229 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 8
+ATOM 2605 H HD1 . TYR A 1 7 ? 9.931 -5.113 -0.174 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 8
+ATOM 2606 H HD2 . TYR A 1 7 ? 7.342 -1.677 0.063 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 8
+ATOM 2607 H HE1 . TYR A 1 7 ? 11.810 -3.712 0.489 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 8
+ATOM 2608 H HE2 . TYR A 1 7 ? 9.236 -0.334 0.748 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 8
+ATOM 2609 H HH . TYR A 1 7 ? 11.394 -0.255 1.166 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 8
+ATOM 2610 N N . GLY A 1 8 ? 5.158 -5.974 -2.782 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 8
+ATOM 2611 C CA . GLY A 1 8 ? 4.129 -6.986 -3.061 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 8
+ATOM 2612 C C . GLY A 1 8 ? 3.140 -7.363 -1.922 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 8
+ATOM 2613 O O . GLY A 1 8 ? 2.580 -8.460 -2.017 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 8
+ATOM 2614 H H . GLY A 1 8 ? 5.165 -4.987 -3.048 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 8
+ATOM 2615 H HA2 . GLY A 1 8 ? 3.565 -6.598 -3.948 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 8
+ATOM 2616 H HA3 . GLY A 1 8 ? 4.673 -7.909 -3.359 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 8
+ATOM 2617 N N . LYS A 1 9 ? 2.933 -6.511 -0.881 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 8
+ATOM 2618 C CA . LYS A 1 9 ? 2.038 -6.824 0.283 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 8
+ATOM 2619 C C . LYS A 1 9 ? 1.255 -5.503 0.623 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 8
+ATOM 2620 O O . LYS A 1 9 ? 1.755 -4.389 0.416 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 8
+ATOM 2621 C CB . LYS A 1 9 ? 2.901 -7.335 1.493 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 8
+ATOM 2622 C CG . LYS A 1 9 ? 2.142 -7.992 2.688 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 8
+ATOM 2623 C CD . LYS A 1 9 ? 1.832 -9.502 2.550 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 8
+ATOM 2624 C CE . LYS A 1 9 ? 1.105 -10.102 3.762 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 8
+ATOM 2625 N NZ . LYS A 1 9 ? 0.851 -11.535 3.547 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 8
+ATOM 2626 H H . LYS A 1 9 ? 3.459 -5.612 -0.946 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 8
+ATOM 2627 H HA . LYS A 1 9 ? 1.327 -7.668 0.027 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 8
+ATOM 2628 H HB2 . LYS A 1 9 ? 3.697 -8.022 1.139 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 8
+ATOM 2629 H HB3 . LYS A 1 9 ? 3.466 -6.472 1.890 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 8
+ATOM 2630 H HG2 . LYS A 1 9 ? 2.754 -7.829 3.592 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 8
+ATOM 2631 H HG3 . LYS A 1 9 ? 1.203 -7.431 2.880 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 8
+ATOM 2632 H HD2 . LYS A 1 9 ? 1.225 -9.661 1.640 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 8
+ATOM 2633 H HD3 . LYS A 1 9 ? 2.778 -10.048 2.380 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 8
+ATOM 2634 H HE2 . LYS A 1 9 ? 1.708 -9.970 4.679 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 8
+ATOM 2635 H HE3 . LYS A 1 9 ? 0.146 -9.581 3.935 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 8
+ATOM 2636 H HZ1 . LYS A 1 9 ? 1.724 -12.057 3.411 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 8
+ATOM 2637 H HZ2 . LYS A 1 9 ? 0.365 -11.957 4.346 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 8
+ATOM 2638 H HZ3 . LYS A 1 9 ? 0.269 -11.695 2.718 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 8
+ATOM 2639 N N . CYS A 1 10 ? 0.047 -5.666 1.194 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 8
+ATOM 2640 C CA . CYS A 1 10 ? -0.991 -4.667 1.234 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 8
+ATOM 2641 C C . CYS A 1 10 ? -0.863 -3.656 2.412 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 8
+ATOM 2642 O O . CYS A 1 10 ? -1.337 -3.893 3.532 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 8
+ATOM 2643 C CB . CYS A 1 10 ? -2.190 -5.633 1.300 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 8
+ATOM 2644 S SG . CYS A 1 10 ? -2.378 -6.852 -0.037 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 8
+ATOM 2645 H H . CYS A 1 10 ? -0.481 -6.491 0.916 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 8
+ATOM 2646 H HA . CYS A 1 10 ? -1.065 -4.164 0.246 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 8
+ATOM 2647 H HB2 . CYS A 1 10 ? -2.384 -6.061 2.305 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 8
+ATOM 2648 H HB3 . CYS A 1 10 ? -2.990 -4.986 1.075 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 8
+ATOM 2649 N N . ARG A 1 11 ? -0.248 -2.502 2.095 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 8
+ATOM 2650 C CA . ARG A 1 11 ? -0.113 -1.329 2.949 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 8
+ATOM 2651 C C . ARG A 1 11 ? -0.880 -0.159 2.284 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 8
+ATOM 2652 O O . ARG A 1 11 ? -0.784 0.101 1.080 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 8
+ATOM 2653 C CB . ARG A 1 11 ? 1.394 -1.042 3.069 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 8
+ATOM 2654 C CG . ARG A 1 11 ? 2.329 -1.229 1.812 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 8
+ATOM 2655 C CD . ARG A 1 11 ? 3.852 -1.162 1.806 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 8
+ATOM 2656 N NE . ARG A 1 11 ? 4.511 -1.567 3.066 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 8
+ATOM 2657 C CZ . ARG A 1 11 ? 5.794 -1.337 3.443 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 8
+ATOM 2658 N NH1 . ARG A 1 11 ? 6.743 -0.761 2.693 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 8
+ATOM 2659 N NH2 . ARG A 1 11 ? 6.138 -1.717 4.659 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 8
+ATOM 2660 H H . ARG A 1 11 ? 0.749 -2.509 1.787 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 8
+ATOM 2661 H HA . ARG A 1 11 ? -0.387 -1.550 4.002 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 8
+ATOM 2662 H HB2 . ARG A 1 11 ? 1.509 -0.077 3.534 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 8
+ATOM 2663 H HB3 . ARG A 1 11 ? 1.738 -1.660 3.900 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 8
+ATOM 2664 H HG2 . ARG A 1 11 ? 2.142 -2.247 1.436 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 8
+ATOM 2665 H HG3 . ARG A 1 11 ? 1.931 -0.589 1.012 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 8
+ATOM 2666 H HD2 . ARG A 1 11 ? 4.182 -1.842 0.999 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 8
+ATOM 2667 H HD3 . ARG A 1 11 ? 4.132 -0.159 1.494 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 8
+ATOM 2668 H HE . ARG A 1 11 ? 3.871 -1.954 3.760 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 8
+ATOM 2669 H HH11 . ARG A 1 11 ? 6.468 -0.470 1.748 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 8
+ATOM 2670 H HH12 . ARG A 1 11 ? 7.669 -0.659 3.123 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 8
+ATOM 2671 H HH21 . ARG A 1 11 ? 5.407 -2.157 5.228 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 8
+ATOM 2672 H HH22 . ARG A 1 11 ? 7.110 -1.540 4.937 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 8
+ATOM 2673 N N . ARG A 1 12 ? -1.601 0.543 3.154 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 8
+ATOM 2674 C CA . ARG A 1 12 ? -2.314 1.811 2.928 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 8
+ATOM 2675 C C . ARG A 1 12 ? -1.907 2.815 4.065 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 8
+ATOM 2676 O O . ARG A 1 12 ? -2.623 2.957 5.062 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 8
+ATOM 2677 C CB . ARG A 1 12 ? -3.840 1.535 2.678 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 8
+ATOM 2678 C CG . ARG A 1 12 ? -4.736 1.088 3.848 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 8
+ATOM 2679 C CD . ARG A 1 12 ? -6.199 0.752 3.481 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 8
+ATOM 2680 N NE . ARG A 1 12 ? -6.766 -0.137 4.522 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 8
+ATOM 2681 C CZ . ARG A 1 12 ? -7.987 -0.045 5.110 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 8
+ATOM 2682 N NH1 . ARG A 1 12 ? -8.911 0.895 4.864 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 8
+ATOM 2683 N NH2 . ARG A 1 12 ? -8.291 -0.965 6.006 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 8
+ATOM 2684 H H . ARG A 1 12 ? -1.468 0.221 4.068 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 8
+ATOM 2685 H HA . ARG A 1 12 ? -1.889 2.167 2.017 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 8
+ATOM 2686 H HB2 . ARG A 1 12 ? -4.343 2.389 2.171 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 8
+ATOM 2687 H HB3 . ARG A 1 12 ? -3.859 0.680 1.982 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 8
+ATOM 2688 H HG2 . ARG A 1 12 ? -4.197 0.219 4.275 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 8
+ATOM 2689 H HG3 . ARG A 1 12 ? -4.705 1.888 4.602 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 8
+ATOM 2690 H HD2 . ARG A 1 12 ? -6.790 1.681 3.376 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 8
+ATOM 2691 H HD3 . ARG A 1 12 ? -6.274 0.222 2.512 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 8
+ATOM 2692 H HE . ARG A 1 12 ? -6.185 -0.927 4.822 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 8
+ATOM 2693 H HH11 . ARG A 1 12 ? -8.668 1.607 4.167 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 8
+ATOM 2694 H HH12 . ARG A 1 12 ? -9.787 0.827 5.393 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 8
+ATOM 2695 H HH21 . ARG A 1 12 ? -7.580 -1.681 6.189 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 8
+ATOM 2696 H HH22 . ARG A 1 12 ? -9.215 -0.890 6.447 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 8
+ATOM 2697 N N . TYR A 1 13 ? -0.726 3.457 3.912 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 8
+ATOM 2698 C CA . TYR A 1 13 ? 0.010 4.135 5.017 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 8
+ATOM 2699 C C . TYR A 1 13 ? 0.233 5.706 4.889 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 8
+ATOM 2700 O O . TYR A 1 13 ? -0.152 6.197 3.826 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 8
+ATOM 2701 C CB . TYR A 1 13 ? 1.453 3.425 5.102 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 8
+ATOM 2702 C CG . TYR A 1 13 ? 2.372 3.234 3.864 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 8
+ATOM 2703 C CD1 . TYR A 1 13 ? 2.608 4.265 2.952 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 8
+ATOM 2704 C CD2 . TYR A 1 13 ? 3.203 2.123 3.840 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 8
+ATOM 2705 C CE1 . TYR A 1 13 ? 3.667 4.202 2.075 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 8
+ATOM 2706 C CE2 . TYR A 1 13 ? 4.268 2.078 2.978 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 8
+ATOM 2707 C CZ . TYR A 1 13 ? 4.520 3.119 2.123 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 8
+ATOM 2708 O OH . TYR A 1 13 ? 5.666 3.073 1.385 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 8
+ATOM 2709 H H . TYR A 1 13 ? -0.158 3.039 3.167 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 8
+ATOM 2710 H HA . TYR A 1 13 ? -0.628 4.117 5.946 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 8
+ATOM 2711 H HB2 . TYR A 1 13 ? 2.136 4.012 5.728 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 8
+ATOM 2712 H HB3 . TYR A 1 13 ? 1.419 2.513 5.722 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 8
+ATOM 2713 H HD1 . TYR A 1 13 ? 2.004 5.160 2.932 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 8
+ATOM 2714 H HD2 . TYR A 1 13 ? 3.093 1.301 4.535 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 8
+ATOM 2715 H HE1 . TYR A 1 13 ? 3.807 5.002 1.356 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 8
+ATOM 2716 H HE2 . TYR A 1 13 ? 4.932 1.235 2.981 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 8
+ATOM 2717 H HH . TYR A 1 13 ? 5.729 3.870 0.855 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 8
+ATOM 2718 N N . HYP A 1 14 ? 0.894 6.538 5.838 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 8
+ATOM 2719 C CA . HYP A 1 14 ? 1.886 7.632 5.441 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 8
+ATOM 2720 C C . HYP A 1 14 ? 1.996 8.262 4.008 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 8
+ATOM 2721 O O . HYP A 1 14 ? 3.056 8.376 3.374 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 8
+ATOM 2722 C CB . HYP A 1 14 ? 3.176 6.874 5.811 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 8
+ATOM 2723 C CG . HYP A 1 14 ? 2.886 6.319 7.207 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 8
+ATOM 2724 C CD . HYP A 1 14 ? 1.373 6.067 7.196 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 8
+ATOM 2725 O OD1 . HYP A 1 14 ? 3.208 7.283 8.199 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 8
+ATOM 2726 H HA . HYP A 1 14 ? 1.726 8.530 6.090 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 8
+ATOM 2727 H HB2 . HYP A 1 14 ? 3.235 6.088 5.037 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 8
+ATOM 2728 H HB3 . HYP A 1 14 ? 4.121 7.437 5.733 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 8
+ATOM 2729 H HG . HYP A 1 14 ? 3.457 5.391 7.388 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 8
+ATOM 2730 H HD22 . HYP A 1 14 ? 1.197 4.963 7.332 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 8
+ATOM 2731 H HD23 . HYP A 1 14 ? 0.854 6.583 8.003 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 8
+ATOM 2732 H HD1 . HYP A 1 14 ? 4.153 7.435 8.124 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 8
+ATOM 2733 N N . GLY A 1 15 ? 0.835 8.760 3.598 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 8
+ATOM 2734 C CA . GLY A 1 15 ? 0.597 9.417 2.301 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 8
+ATOM 2735 C C . GLY A 1 15 ? 0.481 8.498 1.066 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 8
+ATOM 2736 O O . GLY A 1 15 ? 1.228 8.632 0.093 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 8
+ATOM 2737 H H . GLY A 1 15 ? 0.116 8.165 3.982 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 8
+ATOM 2738 H HA2 . GLY A 1 15 ? -0.402 9.959 2.425 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 8
+ATOM 2739 H HA3 . GLY A 1 15 ? 1.496 10.054 2.144 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 8
+ATOM 2740 N N . CYS A 1 16 ? -0.514 7.620 1.169 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 8
+ATOM 2741 C CA . CYS A 1 16 ? -0.931 6.632 0.141 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 8
+ATOM 2742 C C . CYS A 1 16 ? -2.438 6.774 -0.261 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 8
+ATOM 2743 O O . CYS A 1 16 ? -2.764 6.417 -1.393 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 8
+ATOM 2744 C CB . CYS A 1 16 ? -0.656 5.269 0.826 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 8
+ATOM 2745 S SG . CYS A 1 16 ? -1.265 4.005 -0.250 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 8
+ATOM 2746 H H . CYS A 1 16 ? -0.862 7.572 2.140 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 8
+ATOM 2747 H HA . CYS A 1 16 ? -0.338 6.683 -0.825 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 8
+ATOM 2748 H HB2 . CYS A 1 16 ? 0.420 5.081 0.931 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 8
+ATOM 2749 H HB3 . CYS A 1 16 ? -1.122 5.175 1.843 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 8
+ATOM 2750 N N . SER A 1 17 ? -3.361 7.128 0.658 1.00 0.00 ? ? ? ? ? ? 17 SER A N 8
+ATOM 2751 C CA . SER A 1 17 ? -4.353 6.135 1.179 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 8
+ATOM 2752 C C . SER A 1 17 ? -5.599 5.777 0.316 1.00 0.00 ? ? ? ? ? ? 17 SER A C 8
+ATOM 2753 O O . SER A 1 17 ? -6.468 4.996 0.728 1.00 0.00 ? ? ? ? ? ? 17 SER A O 8
+ATOM 2754 C CB . SER A 1 17 ? -4.801 6.625 2.574 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 8
+ATOM 2755 O OG . SER A 1 17 ? -5.483 7.869 2.474 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 8
+ATOM 2756 H H . SER A 1 17 ? -2.836 7.656 1.337 1.00 0.00 ? ? ? ? ? ? 17 SER A H 8
+ATOM 2757 H HA . SER A 1 17 ? -3.821 5.182 1.297 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 8
+ATOM 2758 H HB2 . SER A 1 17 ? -5.475 5.881 3.038 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 8
+ATOM 2759 H HB3 . SER A 1 17 ? -3.950 6.714 3.274 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 8
+ATOM 2760 H HG . SER A 1 17 ? -5.743 8.100 3.369 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 8
+ATOM 2761 N N . SER A 1 18 ? -5.573 6.283 -0.912 1.00 0.00 ? ? ? ? ? ? 18 SER A N 8
+ATOM 2762 C CA . SER A 1 18 ? -6.343 5.731 -2.062 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 8
+ATOM 2763 C C . SER A 1 18 ? -5.913 4.328 -2.614 1.00 0.00 ? ? ? ? ? ? 18 SER A C 8
+ATOM 2764 O O . SER A 1 18 ? -6.725 3.777 -3.365 1.00 0.00 ? ? ? ? ? ? 18 SER A O 8
+ATOM 2765 C CB . SER A 1 18 ? -6.255 6.779 -3.188 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 8
+ATOM 2766 O OG . SER A 1 18 ? -7.086 6.413 -4.283 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 8
+ATOM 2767 H H . SER A 1 18 ? -4.647 6.741 -0.962 1.00 0.00 ? ? ? ? ? ? 18 SER A H 8
+ATOM 2768 H HA . SER A 1 18 ? -7.404 5.644 -1.757 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 8
+ATOM 2769 H HB2 . SER A 1 18 ? -6.568 7.782 -2.837 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 8
+ATOM 2770 H HB3 . SER A 1 18 ? -5.210 6.878 -3.533 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 8
+ATOM 2771 H HG . SER A 1 18 ? -6.976 7.104 -4.941 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 8
+ATOM 2772 N N . ALA A 1 19 ? -4.710 3.775 -2.277 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 8
+ATOM 2773 C CA . ALA A 1 19 ? -4.099 2.637 -3.025 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 8
+ATOM 2774 C C . ALA A 1 19 ? -4.818 1.278 -2.784 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 8
+ATOM 2775 O O . ALA A 1 19 ? -4.480 0.467 -1.905 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 8
+ATOM 2776 C CB . ALA A 1 19 ? -2.617 2.495 -2.647 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 8
+ATOM 2777 H H . ALA A 1 19 ? -4.121 4.500 -1.857 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 8
+ATOM 2778 H HA . ALA A 1 19 ? -4.069 2.913 -4.098 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 8
+ATOM 2779 H HB1 . ALA A 1 19 ? -2.060 3.450 -2.710 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 8
+ATOM 2780 H HB2 . ALA A 1 19 ? -2.504 2.151 -1.598 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 8
+ATOM 2781 H HB3 . ALA A 1 19 ? -2.072 1.756 -3.260 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 8
+ATOM 2782 N N . SER A 1 20 ? -5.826 1.080 -3.636 1.00 0.00 ? ? ? ? ? ? 20 SER A N 8
+ATOM 2783 C CA . SER A 1 20 ? -6.535 -0.215 -3.745 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 8
+ATOM 2784 C C . SER A 1 20 ? -5.775 -1.398 -4.407 1.00 0.00 ? ? ? ? ? ? 20 SER A C 8
+ATOM 2785 O O . SER A 1 20 ? -6.287 -2.510 -4.325 1.00 0.00 ? ? ? ? ? ? 20 SER A O 8
+ATOM 2786 C CB . SER A 1 20 ? -7.777 0.011 -4.599 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 8
+ATOM 2787 O OG . SER A 1 20 ? -8.666 0.963 -4.026 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 8
+ATOM 2788 H H . SER A 1 20 ? -6.307 1.968 -3.796 1.00 0.00 ? ? ? ? ? ? 20 SER A H 8
+ATOM 2789 H HA . SER A 1 20 ? -6.907 -0.536 -2.749 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 8
+ATOM 2790 H HB2 . SER A 1 20 ? -7.537 0.258 -5.653 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 8
+ATOM 2791 H HB3 . SER A 1 20 ? -8.240 -0.982 -4.602 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 8
+ATOM 2792 H HG . SER A 1 20 ? -9.442 0.975 -4.591 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 8
+ATOM 2793 N N . CYS A 1 21 ? -4.620 -1.195 -5.058 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 8
+ATOM 2794 C CA . CYS A 1 21 ? -3.894 -2.210 -5.885 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 8
+ATOM 2795 C C . CYS A 1 21 ? -3.641 -3.667 -5.323 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 8
+ATOM 2796 O O . CYS A 1 21 ? -3.148 -4.517 -6.072 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 8
+ATOM 2797 C CB . CYS A 1 21 ? -2.565 -1.521 -6.261 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 8
+ATOM 2798 S SG . CYS A 1 21 ? -1.323 -1.560 -4.945 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 8
+ATOM 2799 H H . CYS A 1 21 ? -4.446 -0.199 -5.098 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 8
+ATOM 2800 H HA . CYS A 1 21 ? -4.458 -2.356 -6.830 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 8
+ATOM 2801 H HB2 . CYS A 1 21 ? -2.196 -2.124 -7.082 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 8
+ATOM 2802 H HB3 . CYS A 1 21 ? -2.636 -0.499 -6.701 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 8
+ATOM 2803 N N . CYS A 1 22 ? -4.018 -3.925 -4.053 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 8
+ATOM 2804 C CA . CYS A 1 22 ? -4.112 -5.269 -3.426 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 8
+ATOM 2805 C C . CYS A 1 22 ? -5.391 -6.058 -3.876 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 8
+ATOM 2806 O O . CYS A 1 22 ? -5.276 -6.964 -4.702 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 8
+ATOM 2807 C CB . CYS A 1 22 ? -3.881 -4.993 -1.915 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 8
+ATOM 2808 S SG . CYS A 1 22 ? -4.124 -6.478 -0.934 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 8
+ATOM 2809 H H . CYS A 1 22 ? -4.524 -3.095 -3.674 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 8
+ATOM 2810 H HA . CYS A 1 22 ? -3.262 -5.876 -3.756 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 8
+ATOM 2811 H HB2 . CYS A 1 22 ? -2.812 -4.760 -1.827 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 8
+ATOM 2812 H HB3 . CYS A 1 22 ? -4.480 -4.133 -1.478 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 8
+ATOM 2813 N N . GLN A 1 23 ? -6.583 -5.681 -3.376 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 8
+ATOM 2814 C CA . GLN A 1 23 ? -7.959 -5.837 -3.915 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 8
+ATOM 2815 C C . GLN A 1 23 ? -8.106 -6.397 -5.371 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 8
+ATOM 2816 O O . GLN A 1 23 ? -7.240 -6.101 -6.202 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 8
+ATOM 2817 C CB . GLN A 1 23 ? -8.605 -4.415 -3.832 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 8
+ATOM 2818 C CG . GLN A 1 23 ? -8.495 -3.519 -2.556 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 8
+ATOM 2819 C CD . GLN A 1 23 ? -9.389 -3.949 -1.388 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 8
+ATOM 2820 O OE1 . GLN A 1 23 ? -9.018 -4.803 -0.585 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 8
+ATOM 2821 N NE2 . GLN A 1 23 ? -10.575 -3.372 -1.272 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 8
+ATOM 2822 H H . GLN A 1 23 ? -6.528 -4.832 -2.821 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 8
+ATOM 2823 H HA . GLN A 1 23 ? -8.516 -6.444 -3.194 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 8
+ATOM 2824 H HB2 . GLN A 1 23 ? -8.033 -3.856 -4.630 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 8
+ATOM 2825 H HB3 . GLN A 1 23 ? -9.721 -4.543 -3.998 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 8
+ATOM 2826 H HG2 . GLN A 1 23 ? -7.435 -3.515 -2.216 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 8
+ATOM 2827 H HG3 . GLN A 1 23 ? -8.647 -2.469 -2.857 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 8
+ATOM 2828 H HE21 . GLN A 1 23 ? -10.816 -2.669 -1.979 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 8
+ATOM 2829 H HE22 . GLN A 1 23 ? -11.158 -3.675 -0.483 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 8
+ATOM 2830 N N . ARG A 1 24 ? -9.176 -7.166 -5.645 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 8
+ATOM 2831 C CA . ARG A 1 24 ? -9.458 -7.774 -6.965 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 8
+ATOM 2832 C C . ARG A 1 24 ? -10.964 -7.501 -7.208 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 8
+ATOM 2833 O O . ARG A 1 24 ? -11.834 -7.959 -6.465 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 8
+ATOM 2834 C CB . ARG A 1 24 ? -9.144 -9.297 -6.951 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 8
+ATOM 2835 C CG . ARG A 1 24 ? -7.658 -9.702 -7.156 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 8
+ATOM 2836 C CD . ARG A 1 24 ? -7.358 -11.214 -7.184 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 8
+ATOM 2837 N NE . ARG A 1 24 ? -7.689 -11.865 -8.484 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 8
+ATOM 2838 C CZ . ARG A 1 24 ? -7.342 -13.122 -8.866 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 8
+ATOM 2839 N NH1 . ARG A 1 24 ? -6.639 -14.003 -8.140 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 8
+ATOM 2840 N NH2 . ARG A 1 24 ? -7.734 -13.512 -10.065 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 8
+ATOM 2841 H H . ARG A 1 24 ? -9.884 -7.208 -4.919 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 8
+ATOM 2842 H HA . ARG A 1 24 ? -8.853 -7.280 -7.759 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 8
+ATOM 2843 H HB2 . ARG A 1 24 ? -9.532 -9.794 -6.041 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 8
+ATOM 2844 H HB3 . ARG A 1 24 ? -9.730 -9.759 -7.750 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 8
+ATOM 2845 H HG2 . ARG A 1 24 ? -7.272 -9.231 -8.079 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 8
+ATOM 2846 H HG3 . ARG A 1 24 ? -7.071 -9.252 -6.335 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 8
+ATOM 2847 H HD2 . ARG A 1 24 ? -6.279 -11.361 -6.996 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 8
+ATOM 2848 H HD3 . ARG A 1 24 ? -7.873 -11.741 -6.358 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 8
+ATOM 2849 H HE . ARG A 1 24 ? -8.229 -11.358 -9.194 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 8
+ATOM 2850 H HH11 . ARG A 1 24 ? -6.337 -13.695 -7.210 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 8
+ATOM 2851 H HH12 . ARG A 1 24 ? -6.459 -14.916 -8.574 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 8
+ATOM 2852 H HH21 . ARG A 1 24 ? -8.272 -12.833 -10.615 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 8
+ATOM 2853 H HH22 . ARG A 1 24 ? -7.470 -14.462 -10.348 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 8
+ATOM 2854 N N . NH2 A 1 25 ? -11.314 -6.752 -8.245 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 8
+ATOM 2855 H HN1 . NH2 A 1 25 ? -12.318 -6.591 -8.377 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 8
+ATOM 2856 H HN2 . NH2 A 1 25 ? -10.552 -6.395 -8.831 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 8
+ATOM 2857 N N . HIS A 1 1 ? 8.364 5.047 4.528 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 9
+ATOM 2858 C CA . HIS A 1 1 ? 8.259 3.605 4.171 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 9
+ATOM 2859 C C . HIS A 1 1 ? 8.327 3.466 2.567 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 9
+ATOM 2860 O O . HIS A 1 1 ? 8.701 4.487 1.969 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 9
+ATOM 2861 C CB . HIS A 1 1 ? 6.942 3.020 4.859 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 9
+ATOM 2862 C CG . HIS A 1 1 ? 6.556 3.256 6.336 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 9
+ATOM 2863 N ND1 . HIS A 1 1 ? 5.357 2.778 6.835 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 9
+ATOM 2864 C CD2 . HIS A 1 1 ? 7.296 3.857 7.383 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 9
+ATOM 2865 C CE1 . HIS A 1 1 ? 5.476 3.131 8.153 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 9
+ATOM 2866 N NE2 . HIS A 1 1 ? 6.596 3.794 8.575 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 9
+ATOM 2867 H H1 . HIS A 1 1 ? 9.209 5.474 4.133 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 9
+ATOM 2868 H H2 . HIS A 1 1 ? 7.561 5.582 4.179 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 9
+ATOM 2869 H H3 . HIS A 1 1 ? 8.401 5.183 5.545 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 9
+ATOM 2870 H HA . HIS A 1 1 ? 9.202 3.147 4.549 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 9
+ATOM 2871 H HB2 . HIS A 1 1 ? 6.127 3.358 4.189 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 9
+ATOM 2872 H HB3 . HIS A 1 1 ? 6.816 1.903 4.761 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 9
+ATOM 2873 H HD1 . HIS A 1 1 ? 4.664 2.184 6.367 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 9
+ATOM 2874 H HD2 . HIS A 1 1 ? 8.283 4.283 7.275 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 9
+ATOM 2875 H HE1 . HIS A 1 1 ? 4.709 2.855 8.861 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 9
+ATOM 2876 H HE2 . HIS A 1 1 ? 6.868 4.097 9.516 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 9
+ATOM 2877 N N . HYP A 1 2 ? 8.048 2.353 1.768 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 9
+ATOM 2878 C CA . HYP A 1 2 ? 8.141 2.357 0.271 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 9
+ATOM 2879 C C . HYP A 1 2 ? 7.186 3.396 -0.488 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 9
+ATOM 2880 O O . HYP A 1 2 ? 6.685 4.269 0.219 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 9
+ATOM 2881 C CB . HYP A 1 2 ? 7.794 0.900 -0.123 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 9
+ATOM 2882 C CG . HYP A 1 2 ? 7.907 0.061 1.119 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 9
+ATOM 2883 C CD . HYP A 1 2 ? 7.641 1.017 2.249 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 9
+ATOM 2884 O OD1 . HYP A 1 2 ? 9.221 -0.466 1.231 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 9
+ATOM 2885 H HA . HYP A 1 2 ? 9.187 2.574 -0.013 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 9
+ATOM 2886 H HB2 . HYP A 1 2 ? 6.792 0.918 -0.630 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 9
+ATOM 2887 H HB3 . HYP A 1 2 ? 8.465 0.509 -0.900 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 9
+ATOM 2888 H HG . HYP A 1 2 ? 7.180 -0.742 1.112 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 9
+ATOM 2889 H HD22 . HYP A 1 2 ? 6.566 1.087 2.542 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 9
+ATOM 2890 H HD23 . HYP A 1 2 ? 8.233 0.718 3.133 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 9
+ATOM 2891 H HD1 . HYP A 1 2 ? 9.811 0.292 1.233 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 9
+ATOM 2892 N N . HYP A 1 3 ? 6.836 3.315 -1.838 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 9
+ATOM 2893 C CA . HYP A 1 3 ? 5.438 3.497 -2.347 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 9
+ATOM 2894 C C . HYP A 1 3 ? 4.246 2.747 -1.629 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 9
+ATOM 2895 O O . HYP A 1 3 ? 4.527 1.769 -0.929 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 9
+ATOM 2896 C CB . HYP A 1 3 ? 5.628 2.907 -3.758 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 9
+ATOM 2897 C CG . HYP A 1 3 ? 7.103 3.251 -4.235 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 9
+ATOM 2898 C CD . HYP A 1 3 ? 7.810 2.904 -2.899 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 9
+ATOM 2899 O OD1 . HYP A 1 3 ? 7.228 4.649 -4.471 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 9
+ATOM 2900 H HA . HYP A 1 3 ? 5.209 4.576 -2.408 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 9
+ATOM 2901 H HB2 . HYP A 1 3 ? 5.375 1.820 -3.624 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 9
+ATOM 2902 H HB3 . HYP A 1 3 ? 4.811 3.304 -4.368 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 9
+ATOM 2903 H HG . HYP A 1 3 ? 7.548 2.761 -5.201 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 9
+ATOM 2904 H HD22 . HYP A 1 3 ? 7.959 1.791 -2.841 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 9
+ATOM 2905 H HD23 . HYP A 1 3 ? 8.778 3.399 -2.594 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 9
+ATOM 2906 H HD1 . HYP A 1 3 ? 6.898 5.082 -3.680 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 9
+ATOM 2907 N N . CYS A 1 4 ? 2.959 3.160 -1.857 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 9
+ATOM 2908 C CA . CYS A 1 4 ? 1.738 2.417 -1.337 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 9
+ATOM 2909 C C . CYS A 1 4 ? 1.593 0.936 -1.819 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 9
+ATOM 2910 O O . CYS A 1 4 ? 0.954 0.146 -1.115 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 9
+ATOM 2911 C CB . CYS A 1 4 ? 0.471 3.189 -1.806 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 9
+ATOM 2912 S SG . CYS A 1 4 ? -0.916 2.583 -0.818 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 9
+ATOM 2913 H H . CYS A 1 4 ? 2.923 4.124 -2.207 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 9
+ATOM 2914 H HA . CYS A 1 4 ? 1.658 2.436 -0.211 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 9
+ATOM 2915 H HB2 . CYS A 1 4 ? 0.536 4.300 -1.613 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 9
+ATOM 2916 H HB3 . CYS A 1 4 ? 0.274 2.985 -2.897 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 9
+ATOM 2917 N N . CYS A 1 5 ? 2.131 0.610 -3.013 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 9
+ATOM 2918 C CA . CYS A 1 5 ? 2.143 -0.805 -3.529 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 9
+ATOM 2919 C C . CYS A 1 5 ? 3.616 -1.340 -3.639 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 9
+ATOM 2920 O O . CYS A 1 5 ? 4.589 -0.577 -3.693 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 9
+ATOM 2921 C CB . CYS A 1 5 ? 1.442 -0.837 -4.908 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 9
+ATOM 2922 S SG . CYS A 1 5 ? 0.372 -2.273 -5.047 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 9
+ATOM 2923 H H . CYS A 1 5 ? 2.296 1.506 -3.545 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 9
+ATOM 2924 H HA . CYS A 1 5 ? 1.533 -1.473 -2.835 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 9
+ATOM 2925 H HB2 . CYS A 1 5 ? 0.793 0.048 -5.020 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 9
+ATOM 2926 H HB3 . CYS A 1 5 ? 2.197 -0.921 -5.730 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 9
+ATOM 2927 N N . LEU A 1 6 ? 3.727 -2.685 -3.717 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 9
+ATOM 2928 C CA . LEU A 1 6 ? 4.942 -3.490 -3.829 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 9
+ATOM 2929 C C . LEU A 1 6 ? 4.560 -4.603 -4.878 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 9
+ATOM 2930 O O . LEU A 1 6 ? 3.397 -4.812 -5.257 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 9
+ATOM 2931 C CB . LEU A 1 6 ? 5.180 -3.995 -2.358 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 9
+ATOM 2932 C CG . LEU A 1 6 ? 6.593 -3.973 -1.716 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 9
+ATOM 2933 C CD1 . LEU A 1 6 ? 6.978 -2.635 -1.047 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 9
+ATOM 2934 C CD2 . LEU A 1 6 ? 6.843 -5.200 -0.836 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 9
+ATOM 2935 H H . LEU A 1 6 ? 2.908 -3.265 -3.584 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 9
+ATOM 2936 H HA . LEU A 1 6 ? 5.800 -2.914 -4.217 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 9
+ATOM 2937 H HB2 . LEU A 1 6 ? 4.508 -3.508 -1.649 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 9
+ATOM 2938 H HB3 . LEU A 1 6 ? 4.745 -4.993 -2.354 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 9
+ATOM 2939 H HG . LEU A 1 6 ? 7.319 -4.117 -2.484 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 9
+ATOM 2940 H HD11 . LEU A 1 6 ? 6.904 -1.803 -1.770 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 9
+ATOM 2941 H HD12 . LEU A 1 6 ? 6.306 -2.393 -0.207 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 9
+ATOM 2942 H HD13 . LEU A 1 6 ? 8.016 -2.641 -0.663 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 9
+ATOM 2943 H HD21 . LEU A 1 6 ? 6.717 -6.119 -1.446 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 9
+ATOM 2944 H HD22 . LEU A 1 6 ? 7.874 -5.218 -0.450 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 9
+ATOM 2945 H HD23 . LEU A 1 6 ? 6.119 -5.250 -0.009 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 9
+ATOM 2946 N N . TYR A 1 7 ? 5.573 -5.396 -5.248 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 9
+ATOM 2947 C CA . TYR A 1 7 ? 5.458 -6.685 -5.996 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 9
+ATOM 2948 C C . TYR A 1 7 ? 4.565 -7.818 -5.379 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 9
+ATOM 2949 O O . TYR A 1 7 ? 4.160 -8.753 -6.079 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 9
+ATOM 2950 C CB . TYR A 1 7 ? 6.822 -7.285 -6.442 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 9
+ATOM 2951 C CG . TYR A 1 7 ? 8.024 -6.340 -6.696 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 9
+ATOM 2952 C CD1 . TYR A 1 7 ? 8.170 -5.678 -7.906 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 9
+ATOM 2953 C CD2 . TYR A 1 7 ? 8.905 -6.055 -5.657 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 9
+ATOM 2954 C CE1 . TYR A 1 7 ? 9.184 -4.755 -8.072 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 9
+ATOM 2955 C CE2 . TYR A 1 7 ? 9.916 -5.133 -5.830 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 9
+ATOM 2956 C CZ . TYR A 1 7 ? 10.057 -4.483 -7.038 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 9
+ATOM 2957 O OH . TYR A 1 7 ? 11.052 -3.557 -7.206 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 9
+ATOM 2958 H H . TYR A 1 7 ? 6.460 -4.982 -5.059 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 9
+ATOM 2959 H HA . TYR A 1 7 ? 4.977 -6.413 -6.874 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 9
+ATOM 2960 H HB2 . TYR A 1 7 ? 7.101 -8.027 -5.711 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 9
+ATOM 2961 H HB3 . TYR A 1 7 ? 6.661 -7.875 -7.367 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 9
+ATOM 2962 H HD1 . TYR A 1 7 ? 7.491 -5.848 -8.732 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 9
+ATOM 2963 H HD2 . TYR A 1 7 ? 8.817 -6.527 -4.686 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 9
+ATOM 2964 H HE1 . TYR A 1 7 ? 9.280 -4.228 -9.008 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 9
+ATOM 2965 H HE2 . TYR A 1 7 ? 10.578 -4.911 -5.005 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 9
+ATOM 2966 H HH . TYR A 1 7 ? 11.001 -3.202 -8.097 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 9
+ATOM 2967 N N . GLY A 1 8 ? 4.344 -7.694 -4.068 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 9
+ATOM 2968 C CA . GLY A 1 8 ? 4.035 -8.802 -3.158 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 9
+ATOM 2969 C C . GLY A 1 8 ? 3.100 -8.535 -1.942 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 9
+ATOM 2970 O O . GLY A 1 8 ? 2.269 -9.421 -1.708 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 9
+ATOM 2971 H H . GLY A 1 8 ? 4.959 -6.925 -3.823 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 9
+ATOM 2972 H HA2 . GLY A 1 8 ? 3.531 -9.586 -3.757 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 9
+ATOM 2973 H HA3 . GLY A 1 8 ? 5.032 -9.185 -2.824 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 9
+ATOM 2974 N N . LYS A 1 9 ? 3.229 -7.436 -1.137 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 9
+ATOM 2975 C CA . LYS A 1 9 ? 2.506 -7.305 0.186 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 9
+ATOM 2976 C C . LYS A 1 9 ? 2.061 -5.804 0.368 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 9
+ATOM 2977 O O . LYS A 1 9 ? 2.731 -4.879 -0.112 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 9
+ATOM 2978 C CB . LYS A 1 9 ? 3.451 -7.774 1.356 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 9
+ATOM 2979 C CG . LYS A 1 9 ? 2.787 -8.054 2.742 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 9
+ATOM 2980 C CD . LYS A 1 9 ? 2.219 -9.479 2.944 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 9
+ATOM 2981 C CE . LYS A 1 9 ? 1.602 -9.713 4.330 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 9
+ATOM 2982 N NZ . LYS A 1 9 ? 1.089 -11.088 4.435 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 9
+ATOM 2983 H H . LYS A 1 9 ? 3.764 -6.631 -1.525 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 9
+ATOM 2984 H HA . LYS A 1 9 ? 1.607 -7.998 0.221 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 9
+ATOM 2985 H HB2 . LYS A 1 9 ? 4.046 -8.658 1.046 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 9
+ATOM 2986 H HB3 . LYS A 1 9 ? 4.221 -6.994 1.506 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 9
+ATOM 2987 H HG2 . LYS A 1 9 ? 3.546 -7.849 3.515 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 9
+ATOM 2988 H HG3 . LYS A 1 9 ? 1.990 -7.305 2.929 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 9
+ATOM 2989 H HD2 . LYS A 1 9 ? 1.460 -9.676 2.165 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 9
+ATOM 2990 H HD3 . LYS A 1 9 ? 3.026 -10.215 2.771 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 9
+ATOM 2991 H HE2 . LYS A 1 9 ? 2.354 -9.541 5.123 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 9
+ATOM 2992 H HE3 . LYS A 1 9 ? 0.779 -8.999 4.514 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 9
+ATOM 2993 H HZ1 . LYS A 1 9 ? 1.833 -11.781 4.299 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 9
+ATOM 2994 H HZ2 . LYS A 1 9 ? 0.671 -11.266 5.355 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 9
+ATOM 2995 H HZ3 . LYS A 1 9 ? 0.366 -11.276 3.732 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 9
+ATOM 2996 N N . CYS A 1 10 ? 0.963 -5.601 1.129 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 9
+ATOM 2997 C CA . CYS A 1 10 ? 0.191 -4.383 1.166 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 9
+ATOM 2998 C C . CYS A 1 10 ? 0.634 -3.352 2.232 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 9
+ATOM 2999 O O . CYS A 1 10 ? 0.910 -3.735 3.375 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 9
+ATOM 3000 C CB . CYS A 1 10 ? -1.161 -5.017 1.532 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 9
+ATOM 3001 S SG . CYS A 1 10 ? -1.830 -6.301 0.427 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 9
+ATOM 3002 H H . CYS A 1 10 ? 0.220 -6.296 1.045 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 9
+ATOM 3003 H HA . CYS A 1 10 ? 0.089 -3.971 0.140 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 9
+ATOM 3004 H HB2 . CYS A 1 10 ? -1.276 -5.281 2.605 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 9
+ATOM 3005 H HB3 . CYS A 1 10 ? -1.825 -4.222 1.344 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 9
+ATOM 3006 N N . ARG A 1 11 ? 0.621 -2.057 1.853 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 9
+ATOM 3007 C CA . ARG A 1 11 ? 0.578 -0.916 2.765 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 9
+ATOM 3008 C C . ARG A 1 11 ? -0.519 0.035 2.228 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 9
+ATOM 3009 O O . ARG A 1 11 ? -0.500 0.470 1.072 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 9
+ATOM 3010 C CB . ARG A 1 11 ? 1.938 -0.196 2.819 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 9
+ATOM 3011 C CG . ARG A 1 11 ? 2.820 0.171 1.576 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 9
+ATOM 3012 C CD . ARG A 1 11 ? 3.699 -0.970 1.006 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 9
+ATOM 3013 N NE . ARG A 1 11 ? 4.724 -1.237 2.045 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 9
+ATOM 3014 C CZ . ARG A 1 11 ? 5.160 -2.446 2.479 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 9
+ATOM 3015 N NH1 . ARG A 1 11 ? 5.046 -3.604 1.818 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 9
+ATOM 3016 N NH2 . ARG A 1 11 ? 5.757 -2.482 3.656 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 9
+ATOM 3017 H H . ARG A 1 11 ? 1.485 -1.753 1.399 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 9
+ATOM 3018 H HA . ARG A 1 11 ? 0.461 -1.243 3.822 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 9
+ATOM 3019 H HB2 . ARG A 1 11 ? 1.805 0.694 3.385 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 9
+ATOM 3020 H HB3 . ARG A 1 11 ? 2.551 -0.722 3.554 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 9
+ATOM 3021 H HG2 . ARG A 1 11 ? 2.146 0.547 0.806 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 9
+ATOM 3022 H HG3 . ARG A 1 11 ? 3.458 1.038 1.815 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 9
+ATOM 3023 H HD2 . ARG A 1 11 ? 3.098 -1.872 0.782 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 9
+ATOM 3024 H HD3 . ARG A 1 11 ? 4.184 -0.663 0.060 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 9
+ATOM 3025 H HE . ARG A 1 11 ? 4.640 -0.514 2.774 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 9
+ATOM 3026 H HH11 . ARG A 1 11 ? 4.584 -3.567 0.903 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 9
+ATOM 3027 H HH12 . ARG A 1 11 ? 5.430 -4.436 2.280 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 9
+ATOM 3028 H HH21 . ARG A 1 11 ? 5.842 -1.589 4.155 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 9
+ATOM 3029 H HH22 . ARG A 1 11 ? 6.086 -3.399 3.977 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 9
+ATOM 3030 N N . ARG A 1 12 ? -1.419 0.363 3.147 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 9
+ATOM 3031 C CA . ARG A 1 12 ? -2.368 1.484 3.098 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 9
+ATOM 3032 C C . ARG A 1 12 ? -1.908 2.506 4.192 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 9
+ATOM 3033 O O . ARG A 1 12 ? -2.354 2.419 5.341 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 9
+ATOM 3034 C CB . ARG A 1 12 ? -3.838 0.933 3.123 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 9
+ATOM 3035 C CG . ARG A 1 12 ? -4.412 0.367 4.443 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 9
+ATOM 3036 C CD . ARG A 1 12 ? -5.795 -0.313 4.385 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 9
+ATOM 3037 N NE . ARG A 1 12 ? -5.734 -1.714 3.875 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 9
+ATOM 3038 C CZ . ARG A 1 12 ? -5.944 -2.120 2.595 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 9
+ATOM 3039 N NH1 . ARG A 1 12 ? -6.270 -1.333 1.560 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 9
+ATOM 3040 N NH2 . ARG A 1 12 ? -5.813 -3.410 2.350 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 9
+ATOM 3041 H H . ARG A 1 12 ? -1.129 0.077 4.039 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 9
+ATOM 3042 H HA . ARG A 1 12 ? -2.205 1.923 2.140 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 9
+ATOM 3043 H HB2 . ARG A 1 12 ? -4.580 1.679 2.763 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 9
+ATOM 3044 H HB3 . ARG A 1 12 ? -3.846 0.109 2.390 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 9
+ATOM 3045 H HG2 . ARG A 1 12 ? -3.649 -0.317 4.857 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 9
+ATOM 3046 H HG3 . ARG A 1 12 ? -4.453 1.236 5.119 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 9
+ATOM 3047 H HD2 . ARG A 1 12 ? -6.218 -0.340 5.405 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 9
+ATOM 3048 H HD3 . ARG A 1 12 ? -6.507 0.285 3.786 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 9
+ATOM 3049 H HE . ARG A 1 12 ? -5.495 -2.483 4.510 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 9
+ATOM 3050 H HH11 . ARG A 1 12 ? -6.370 -0.331 1.758 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 9
+ATOM 3051 H HH12 . ARG A 1 12 ? -6.394 -1.795 0.653 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 9
+ATOM 3052 H HH21 . ARG A 1 12 ? -5.562 -4.006 3.146 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 9
+ATOM 3053 H HH22 . ARG A 1 12 ? -5.972 -3.712 1.382 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 9
+ATOM 3054 N N . TYR A 1 13 ? -0.970 3.410 3.834 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 9
+ATOM 3055 C CA . TYR A 1 13 ? -0.120 4.148 4.807 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 9
+ATOM 3056 C C . TYR A 1 13 ? -0.112 5.730 4.685 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 9
+ATOM 3057 O O . TYR A 1 13 ? -0.684 6.175 3.688 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 9
+ATOM 3058 C CB . TYR A 1 13 ? 1.390 3.638 4.573 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 9
+ATOM 3059 C CG . TYR A 1 13 ? 2.133 3.761 3.198 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 9
+ATOM 3060 C CD1 . TYR A 1 13 ? 1.600 4.454 2.117 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 9
+ATOM 3061 C CD2 . TYR A 1 13 ? 3.471 3.376 3.122 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 9
+ATOM 3062 C CE1 . TYR A 1 13 ? 2.373 4.825 1.053 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 9
+ATOM 3063 C CE2 . TYR A 1 13 ? 4.255 3.755 2.048 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 9
+ATOM 3064 C CZ . TYR A 1 13 ? 3.711 4.550 1.055 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 9
+ATOM 3065 O OH . TYR A 1 13 ? 4.442 5.122 0.055 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 9
+ATOM 3066 H H . TYR A 1 13 ? -0.590 3.271 2.889 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 9
+ATOM 3067 H HA . TYR A 1 13 ? -0.546 4.031 5.844 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 9
+ATOM 3068 H HB2 . TYR A 1 13 ? 2.071 4.211 5.215 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 9
+ATOM 3069 H HB3 . TYR A 1 13 ? 1.531 2.654 5.018 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 9
+ATOM 3070 H HD1 . TYR A 1 13 ? 0.582 4.787 2.140 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 9
+ATOM 3071 H HD2 . TYR A 1 13 ? 3.952 2.802 3.902 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 9
+ATOM 3072 H HE1 . TYR A 1 13 ? 1.940 5.339 0.215 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 9
+ATOM 3073 H HE2 . TYR A 1 13 ? 5.284 3.414 2.012 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 9
+ATOM 3074 H HH . TYR A 1 13 ? 5.363 4.871 0.159 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 9
+ATOM 3075 N N . HYP A 1 14 ? 0.542 6.617 5.580 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 9
+ATOM 3076 C CA . HYP A 1 14 ? 1.252 7.893 5.134 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 9
+ATOM 3077 C C . HYP A 1 14 ? 1.102 8.577 3.726 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 9
+ATOM 3078 O O . HYP A 1 14 ? 2.060 8.937 3.023 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 9
+ATOM 3079 C CB . HYP A 1 14 ? 2.696 7.395 5.339 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 9
+ATOM 3080 C CG . HYP A 1 14 ? 2.679 6.729 6.715 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 9
+ATOM 3081 C CD . HYP A 1 14 ? 1.259 6.172 6.838 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 9
+ATOM 3082 O OD1 . HYP A 1 14 ? 2.907 7.695 7.731 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 9
+ATOM 3083 H HA . HYP A 1 14 ? 0.983 8.716 5.840 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 9
+ATOM 3084 H HB2 . HYP A 1 14 ? 2.837 6.672 4.516 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 9
+ATOM 3085 H HB3 . HYP A 1 14 ? 3.490 8.152 5.217 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 9
+ATOM 3086 H HG . HYP A 1 14 ? 3.442 5.933 6.778 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 9
+ATOM 3087 H HD22 . HYP A 1 14 ? 1.307 5.043 6.906 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 9
+ATOM 3088 H HD23 . HYP A 1 14 ? 0.746 6.527 7.736 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 9
+ATOM 3089 H HD1 . HYP A 1 14 ? 2.221 8.359 7.623 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 9
+ATOM 3090 N N . GLY A 1 15 ? -0.164 8.837 3.424 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 9
+ATOM 3091 C CA . GLY A 1 15 ? -0.629 9.508 2.195 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 9
+ATOM 3092 C C . GLY A 1 15 ? -0.637 8.701 0.877 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 9
+ATOM 3093 O O . GLY A 1 15 ? -0.118 9.144 -0.151 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 9
+ATOM 3094 H H . GLY A 1 15 ? -0.712 8.079 3.804 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 9
+ATOM 3095 H HA2 . GLY A 1 15 ? -1.714 9.794 2.412 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 9
+ATOM 3096 H HA3 . GLY A 1 15 ? 0.090 10.348 2.054 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 9
+ATOM 3097 N N . CYS A 1 16 ? -1.321 7.568 0.970 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 9
+ATOM 3098 C CA . CYS A 1 16 ? -1.806 6.727 -0.162 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 9
+ATOM 3099 C C . CYS A 1 16 ? -3.304 6.962 -0.500 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 9
+ATOM 3100 O O . CYS A 1 16 ? -3.675 6.767 -1.654 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 9
+ATOM 3101 C CB . CYS A 1 16 ? -1.548 5.298 0.376 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 9
+ATOM 3102 S SG . CYS A 1 16 ? -2.271 4.025 -0.665 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 9
+ATOM 3103 H H . CYS A 1 16 ? -1.587 7.371 1.948 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 9
+ATOM 3104 H HA . CYS A 1 16 ? -1.236 6.872 -1.132 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 9
+ATOM 3105 H HB2 . CYS A 1 16 ? -0.464 5.152 0.331 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 9
+ATOM 3106 H HB3 . CYS A 1 16 ? -1.901 5.151 1.438 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 9
+ATOM 3107 N N . SER A 1 17 ? -4.177 7.287 0.474 1.00 0.00 ? ? ? ? ? ? 17 SER A N 9
+ATOM 3108 C CA . SER A 1 17 ? -5.171 6.286 0.975 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 9
+ATOM 3109 C C . SER A 1 17 ? -6.453 6.026 0.128 1.00 0.00 ? ? ? ? ? ? 17 SER A C 9
+ATOM 3110 O O . SER A 1 17 ? -7.307 5.206 0.490 1.00 0.00 ? ? ? ? ? ? 17 SER A O 9
+ATOM 3111 C CB . SER A 1 17 ? -5.540 6.694 2.420 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 9
+ATOM 3112 O OG . SER A 1 17 ? -6.432 5.752 3.008 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 9
+ATOM 3113 H H . SER A 1 17 ? -3.583 7.753 1.145 1.00 0.00 ? ? ? ? ? ? 17 SER A H 9
+ATOM 3114 H HA . SER A 1 17 ? -4.656 5.315 0.999 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 9
+ATOM 3115 H HB2 . SER A 1 17 ? -4.649 6.757 3.072 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 9
+ATOM 3116 H HB3 . SER A 1 17 ? -6.008 7.695 2.426 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 9
+ATOM 3117 H HG . SER A 1 17 ? -5.966 4.913 3.010 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 9
+ATOM 3118 N N . SER A 1 18 ? -6.466 6.644 -1.050 1.00 0.00 ? ? ? ? ? ? 18 SER A N 9
+ATOM 3119 C CA . SER A 1 18 ? -7.131 6.117 -2.277 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 9
+ATOM 3120 C C . SER A 1 18 ? -6.539 4.774 -2.827 1.00 0.00 ? ? ? ? ? ? 18 SER A C 9
+ATOM 3121 O O . SER A 1 18 ? -7.332 3.894 -3.179 1.00 0.00 ? ? ? ? ? ? 18 SER A O 9
+ATOM 3122 C CB . SER A 1 18 ? -7.059 7.228 -3.353 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 9
+ATOM 3123 O OG . SER A 1 18 ? -5.735 7.369 -3.854 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 9
+ATOM 3124 H H . SER A 1 18 ? -5.560 7.140 -1.056 1.00 0.00 ? ? ? ? ? ? 18 SER A H 9
+ATOM 3125 H HA . SER A 1 18 ? -8.201 5.949 -2.048 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 9
+ATOM 3126 H HB2 . SER A 1 18 ? -7.750 7.005 -4.186 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 9
+ATOM 3127 H HB3 . SER A 1 18 ? -7.356 8.192 -2.934 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 9
+ATOM 3128 H HG . SER A 1 18 ? -5.506 6.520 -4.240 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 9
+ATOM 3129 N N . ALA A 1 19 ? -5.180 4.657 -2.896 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 9
+ATOM 3130 C CA . ALA A 1 19 ? -4.509 3.607 -3.703 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 9
+ATOM 3131 C C . ALA A 1 19 ? -4.532 2.243 -2.956 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 9
+ATOM 3132 O O . ALA A 1 19 ? -3.615 1.857 -2.216 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 9
+ATOM 3133 C CB . ALA A 1 19 ? -3.067 3.984 -4.070 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 9
+ATOM 3134 H H . ALA A 1 19 ? -4.846 5.628 -2.820 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 9
+ATOM 3135 H HA . ALA A 1 19 ? -4.984 3.579 -4.703 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 9
+ATOM 3136 H HB1 . ALA A 1 19 ? -3.006 4.963 -4.569 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 9
+ATOM 3137 H HB2 . ALA A 1 19 ? -2.400 3.986 -3.198 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 9
+ATOM 3138 H HB3 . ALA A 1 19 ? -2.653 3.221 -4.758 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 9
+ATOM 3139 N N . SER A 1 20 ? -5.636 1.514 -3.207 1.00 0.00 ? ? ? ? ? ? 20 SER A N 9
+ATOM 3140 C CA . SER A 1 20 ? -5.791 0.063 -2.816 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 9
+ATOM 3141 C C . SER A 1 20 ? -4.550 -0.810 -3.218 1.00 0.00 ? ? ? ? ? ? 20 SER A C 9
+ATOM 3142 O O . SER A 1 20 ? -3.867 -1.358 -2.352 1.00 0.00 ? ? ? ? ? ? 20 SER A O 9
+ATOM 3143 C CB . SER A 1 20 ? -7.157 -0.567 -3.311 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 9
+ATOM 3144 O OG . SER A 1 20 ? -7.023 -1.697 -4.168 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 9
+ATOM 3145 H H . SER A 1 20 ? -6.383 2.195 -3.382 1.00 0.00 ? ? ? ? ? ? 20 SER A H 9
+ATOM 3146 H HA . SER A 1 20 ? -5.803 0.027 -1.707 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 9
+ATOM 3147 H HB2 . SER A 1 20 ? -7.669 -0.918 -2.425 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 9
+ATOM 3148 H HB3 . SER A 1 20 ? -7.854 0.094 -3.842 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 9
+ATOM 3149 H HG . SER A 1 20 ? -6.490 -2.333 -3.686 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 9
+ATOM 3150 N N . CYS A 1 21 ? -4.329 -0.908 -4.547 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 9
+ATOM 3151 C CA . CYS A 1 21 ? -3.469 -1.910 -5.293 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 9
+ATOM 3152 C C . CYS A 1 21 ? -3.077 -3.271 -4.596 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 9
+ATOM 3153 O O . CYS A 1 21 ? -2.007 -3.841 -4.843 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 9
+ATOM 3154 C CB . CYS A 1 21 ? -2.330 -1.009 -5.831 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 9
+ATOM 3155 S SG . CYS A 1 21 ? -0.926 -1.908 -6.521 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 9
+ATOM 3156 H H . CYS A 1 21 ? -4.778 -0.053 -4.887 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 9
+ATOM 3157 H HA . CYS A 1 21 ? -4.001 -2.275 -6.201 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 9
+ATOM 3158 H HB2 . CYS A 1 21 ? -2.736 -0.378 -6.649 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 9
+ATOM 3159 H HB3 . CYS A 1 21 ? -1.983 -0.300 -5.052 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 9
+ATOM 3160 N N . CYS A 1 22 ? -4.013 -3.809 -3.771 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 9
+ATOM 3161 C CA . CYS A 1 22 ? -3.779 -4.993 -2.897 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 9
+ATOM 3162 C C . CYS A 1 22 ? -5.038 -5.892 -3.088 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 9
+ATOM 3163 O O . CYS A 1 22 ? -5.074 -6.671 -4.042 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 9
+ATOM 3164 C CB . CYS A 1 22 ? -3.343 -4.471 -1.481 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 9
+ATOM 3165 S SG . CYS A 1 22 ? -3.630 -5.699 -0.202 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 9
+ATOM 3166 H H . CYS A 1 22 ? -4.604 -3.020 -3.428 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 9
+ATOM 3167 H HA . CYS A 1 22 ? -2.910 -5.576 -3.260 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 9
+ATOM 3168 H HB2 . CYS A 1 22 ? -2.240 -4.366 -1.515 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 9
+ATOM 3169 H HB3 . CYS A 1 22 ? -3.821 -3.482 -1.190 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 9
+ATOM 3170 N N . GLN A 1 23 ? -6.082 -5.739 -2.250 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 9
+ATOM 3171 C CA . GLN A 1 23 ? -7.541 -5.772 -2.553 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 9
+ATOM 3172 C C . GLN A 1 23 ? -7.997 -6.164 -4.003 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 9
+ATOM 3173 O O . GLN A 1 23 ? -7.331 -5.750 -4.958 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 9
+ATOM 3174 C CB . GLN A 1 23 ? -8.082 -4.344 -2.223 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 9
+ATOM 3175 C CG . GLN A 1 23 ? -7.712 -3.590 -0.910 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 9
+ATOM 3176 C CD . GLN A 1 23 ? -8.329 -4.175 0.370 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 9
+ATOM 3177 O OE1 . GLN A 1 23 ? -7.777 -5.091 0.977 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 9
+ATOM 3178 N NE2 . GLN A 1 23 ? -9.476 -3.670 0.799 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 9
+ATOM 3179 H H . GLN A 1 23 ? -5.904 -4.965 -1.604 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 9
+ATOM 3180 H HA . GLN A 1 23 ? -8.000 -6.422 -1.800 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 9
+ATOM 3181 H HB2 . GLN A 1 23 ? -7.627 -3.722 -3.044 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 9
+ATOM 3182 H HB3 . GLN A 1 23 ? -9.216 -4.407 -2.192 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 9
+ATOM 3183 H HG2 . GLN A 1 23 ? -6.606 -3.585 -0.821 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 9
+ATOM 3184 H HG3 . GLN A 1 23 ? -7.966 -2.529 -1.039 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 9
+ATOM 3185 H HE21 . GLN A 1 23 ? -9.880 -2.909 0.241 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 9
+ATOM 3186 H HE22 . GLN A 1 23 ? -9.867 -4.080 1.654 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 9
+ATOM 3187 N N . ARG A 1 24 ? -9.107 -6.919 -4.139 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 9
+ATOM 3188 C CA . ARG A 1 24 ? -9.678 -7.334 -5.448 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 9
+ATOM 3189 C C . ARG A 1 24 ? -11.196 -7.060 -5.273 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 9
+ATOM 3190 O O . ARG A 1 24 ? -11.884 -7.737 -4.508 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 9
+ATOM 3191 C CB . ARG A 1 24 ? -9.306 -8.819 -5.734 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 9
+ATOM 3192 C CG . ARG A 1 24 ? -9.707 -9.377 -7.124 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 9
+ATOM 3193 C CD . ARG A 1 24 ? -9.378 -10.864 -7.318 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 9
+ATOM 3194 N NE . ARG A 1 24 ? -9.796 -11.308 -8.672 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 9
+ATOM 3195 C CZ . ARG A 1 24 ? -9.440 -12.466 -9.285 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 9
+ATOM 3196 N NH1 . ARG A 1 24 ? -8.646 -13.420 -8.776 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 9
+ATOM 3197 N NH2 . ARG A 1 24 ? -9.921 -12.674 -10.496 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 9
+ATOM 3198 H H . ARG A 1 24 ? -9.678 -6.961 -3.291 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 9
+ATOM 3199 H HA . ARG A 1 24 ? -9.256 -6.715 -6.270 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 9
+ATOM 3200 H HB2 . ARG A 1 24 ? -8.205 -8.947 -5.650 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 9
+ATOM 3201 H HB3 . ARG A 1 24 ? -9.744 -9.426 -4.920 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 9
+ATOM 3202 H HG2 . ARG A 1 24 ? -10.791 -9.222 -7.273 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 9
+ATOM 3203 H HG3 . ARG A 1 24 ? -9.206 -8.782 -7.910 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 9
+ATOM 3204 H HD2 . ARG A 1 24 ? -8.295 -11.041 -7.190 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 9
+ATOM 3205 H HD3 . ARG A 1 24 ? -9.892 -11.477 -6.555 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 9
+ATOM 3206 H HE . ARG A 1 24 ? -10.413 -10.719 -9.242 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 9
+ATOM 3207 H HH11 . ARG A 1 24 ? -8.274 -13.253 -7.834 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 9
+ATOM 3208 H HH12 . ARG A 1 24 ? -8.473 -14.239 -9.368 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 9
+ATOM 3209 H HH21 . ARG A 1 24 ? -10.528 -11.942 -10.881 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 9
+ATOM 3210 H HH22 . ARG A 1 24 ? -9.649 -13.551 -10.955 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 9
+ATOM 3211 N N . NH2 A 1 25 ? -11.742 -6.068 -5.960 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 9
+ATOM 3212 H HN1 . NH2 A 1 25 ? -11.117 -5.538 -6.577 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 9
+ATOM 3213 H HN2 . NH2 A 1 25 ? -12.746 -5.910 -5.819 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 9
+ATOM 3214 N N . HIS A 1 1 ? 8.552 5.947 4.450 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 10
+ATOM 3215 C CA . HIS A 1 1 ? 8.540 4.493 4.127 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 10
+ATOM 3216 C C . HIS A 1 1 ? 8.498 4.317 2.525 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 10
+ATOM 3217 O O . HIS A 1 1 ? 8.721 5.352 1.877 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 10
+ATOM 3218 C CB . HIS A 1 1 ? 7.324 3.815 4.912 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 10
+ATOM 3219 C CG . HIS A 1 1 ? 6.970 4.092 6.384 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 10
+ATOM 3220 N ND1 . HIS A 1 1 ? 5.802 3.589 6.923 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 10
+ATOM 3221 C CD2 . HIS A 1 1 ? 7.718 4.749 7.389 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 10
+ATOM 3222 C CE1 . HIS A 1 1 ? 5.941 3.985 8.227 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 10
+ATOM 3223 N NE2 . HIS A 1 1 ? 7.049 4.698 8.600 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 10
+ATOM 3224 H H1 . HIS A 1 1 ? 9.329 6.431 3.987 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 10
+ATOM 3225 H H2 . HIS A 1 1 ? 7.686 6.408 4.151 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 10
+ATOM 3226 H H3 . HIS A 1 1 ? 8.650 6.109 5.459 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 10
+ATOM 3227 H HA . HIS A 1 1 ? 9.543 4.127 4.445 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 10
+ATOM 3228 H HB2 . HIS A 1 1 ? 6.452 4.039 4.269 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 10
+ATOM 3229 H HB3 . HIS A 1 1 ? 7.298 2.687 4.875 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 10
+ATOM 3230 H HD1 . HIS A 1 1 ? 5.122 2.963 6.479 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 10
+ATOM 3231 H HD2 . HIS A 1 1 ? 8.688 5.200 7.243 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 10
+ATOM 3232 H HE1 . HIS A 1 1 ? 5.201 3.706 8.962 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 10
+ATOM 3233 H HE2 . HIS A 1 1 ? 7.334 5.038 9.525 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 10
+ATOM 3234 N N . HYP A 1 2 ? 8.261 3.159 1.778 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 10
+ATOM 3235 C CA . HYP A 1 2 ? 8.204 3.135 0.285 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 10
+ATOM 3236 C C . HYP A 1 2 ? 7.024 3.981 -0.394 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 10
+ATOM 3237 O O . HYP A 1 2 ? 6.370 4.699 0.359 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 10
+ATOM 3238 C CB . HYP A 1 2 ? 8.044 1.634 -0.059 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 10
+ATOM 3239 C CG . HYP A 1 2 ? 8.343 0.850 1.188 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 10
+ATOM 3240 C CD . HYP A 1 2 ? 8.045 1.798 2.316 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 10
+ATOM 3241 O OD1 . HYP A 1 2 ? 9.716 0.485 1.214 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 10
+ATOM 3242 H HA . HYP A 1 2 ? 9.168 3.502 -0.110 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 10
+ATOM 3243 H HB2 . HYP A 1 2 ? 7.022 1.501 -0.506 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 10
+ATOM 3244 H HB3 . HYP A 1 2 ? 8.721 1.318 -0.864 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 10
+ATOM 3245 H HG . HYP A 1 2 ? 7.720 -0.034 1.244 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 10
+ATOM 3246 H HD22 . HYP A 1 2 ? 6.992 1.753 2.681 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 10
+ATOM 3247 H HD23 . HYP A 1 2 ? 8.726 1.587 3.161 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 10
+ATOM 3248 H HD1 . HYP A 1 2 ? 10.209 1.306 1.159 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 10
+ATOM 3249 N N . HYP A 1 3 ? 6.644 3.867 -1.732 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 10
+ATOM 3250 C CA . HYP A 1 3 ? 5.215 3.808 -2.190 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 10
+ATOM 3251 C C . HYP A 1 3 ? 4.177 2.889 -1.421 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 10
+ATOM 3252 O O . HYP A 1 3 ? 4.630 2.079 -0.609 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 10
+ATOM 3253 C CB . HYP A 1 3 ? 5.462 3.237 -3.602 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 10
+ATOM 3254 C CG . HYP A 1 3 ? 6.839 3.811 -4.140 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 10
+ATOM 3255 C CD . HYP A 1 3 ? 7.632 3.610 -2.826 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 10
+ATOM 3256 O OD1 . HYP A 1 3 ? 6.720 5.206 -4.395 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 10
+ATOM 3257 H HA . HYP A 1 3 ? 4.812 4.835 -2.256 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 10
+ATOM 3258 H HB2 . HYP A 1 3 ? 5.384 2.124 -3.447 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 10
+ATOM 3259 H HB3 . HYP A 1 3 ? 4.574 3.497 -4.180 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 10
+ATOM 3260 H HG . HYP A 1 3 ? 7.325 3.383 -5.115 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 10
+ATOM 3261 H HD22 . HYP A 1 3 ? 7.964 2.539 -2.756 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 10
+ATOM 3262 H HD23 . HYP A 1 3 ? 8.512 4.263 -2.558 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 10
+ATOM 3263 H HD1 . HYP A 1 3 ? 7.609 5.518 -4.580 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 10
+ATOM 3264 N N . CYS A 1 4 ? 2.850 2.963 -1.747 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 10
+ATOM 3265 C CA . CYS A 1 4 ? 1.806 1.974 -1.266 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 10
+ATOM 3266 C C . CYS A 1 4 ? 1.952 0.511 -1.784 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 10
+ATOM 3267 O O . CYS A 1 4 ? 1.738 -0.410 -0.988 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 10
+ATOM 3268 C CB . CYS A 1 4 ? 0.433 2.572 -1.696 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 10
+ATOM 3269 S SG . CYS A 1 4 ? -0.855 1.770 -0.731 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 10
+ATOM 3270 H H . CYS A 1 4 ? 2.594 3.914 -2.049 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 10
+ATOM 3271 H HA . CYS A 1 4 ? 1.722 1.927 -0.146 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 10
+ATOM 3272 H HB2 . CYS A 1 4 ? 0.337 3.672 -1.447 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 10
+ATOM 3273 H HB3 . CYS A 1 4 ? 0.243 2.383 -2.789 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 10
+ATOM 3274 N N . CYS A 1 5 ? 2.259 0.329 -3.089 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 10
+ATOM 3275 C CA . CYS A 1 5 ? 2.064 -1.016 -3.790 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 10
+ATOM 3276 C C . CYS A 1 5 ? 3.281 -1.924 -4.136 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 10
+ATOM 3277 O O . CYS A 1 5 ? 3.132 -3.031 -4.669 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 10
+ATOM 3278 C CB . CYS A 1 5 ? 1.259 -0.708 -5.068 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 10
+ATOM 3279 S SG . CYS A 1 5 ? 0.118 -2.071 -5.375 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 10
+ATOM 3280 H H . CYS A 1 5 ? 2.348 1.295 -3.513 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 10
+ATOM 3281 H HA . CYS A 1 5 ? 1.535 -1.755 -3.165 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 10
+ATOM 3282 H HB2 . CYS A 1 5 ? 0.645 0.238 -4.968 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 10
+ATOM 3283 H HB3 . CYS A 1 5 ? 1.978 -0.635 -5.923 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 10
+ATOM 3284 N N . LEU A 1 6 ? 4.440 -1.409 -3.789 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 10
+ATOM 3285 C CA . LEU A 1 6 ? 5.779 -1.918 -4.189 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 10
+ATOM 3286 C C . LEU A 1 6 ? 6.292 -2.874 -3.073 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 10
+ATOM 3287 O O . LEU A 1 6 ? 6.017 -2.700 -1.880 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 10
+ATOM 3288 C CB . LEU A 1 6 ? 6.651 -0.653 -4.419 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 10
+ATOM 3289 C CG . LEU A 1 6 ? 8.099 -0.604 -4.949 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 10
+ATOM 3290 C CD1 . LEU A 1 6 ? 8.490 0.803 -5.473 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 10
+ATOM 3291 C CD2 . LEU A 1 6 ? 9.211 -1.144 -4.022 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 10
+ATOM 3292 H H . LEU A 1 6 ? 4.193 -0.469 -3.472 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 10
+ATOM 3293 H HA . LEU A 1 6 ? 5.682 -2.433 -5.166 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 10
+ATOM 3294 H HB2 . LEU A 1 6 ? 6.047 -0.013 -5.092 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 10
+ATOM 3295 H HB3 . LEU A 1 6 ? 6.747 -0.158 -3.484 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 10
+ATOM 3296 H HG . LEU A 1 6 ? 8.025 -1.234 -5.798 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 10
+ATOM 3297 H HD11 . LEU A 1 6 ? 7.743 1.186 -6.198 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 10
+ATOM 3298 H HD12 . LEU A 1 6 ? 8.531 1.532 -4.646 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 10
+ATOM 3299 H HD13 . LEU A 1 6 ? 9.463 0.811 -5.993 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 10
+ATOM 3300 H HD21 . LEU A 1 6 ? 8.989 -2.166 -3.681 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 10
+ATOM 3301 H HD22 . LEU A 1 6 ? 10.198 -1.186 -4.518 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 10
+ATOM 3302 H HD23 . LEU A 1 6 ? 9.308 -0.522 -3.113 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 10
+ATOM 3303 N N . TYR A 1 7 ? 7.035 -3.912 -3.515 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 10
+ATOM 3304 C CA . TYR A 1 7 ? 7.542 -5.120 -2.747 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 10
+ATOM 3305 C C . TYR A 1 7 ? 6.503 -6.196 -2.304 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 10
+ATOM 3306 O O . TYR A 1 7 ? 6.883 -7.315 -1.940 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 10
+ATOM 3307 C CB . TYR A 1 7 ? 8.476 -4.744 -1.589 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 10
+ATOM 3308 C CG . TYR A 1 7 ? 9.888 -4.174 -1.911 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 10
+ATOM 3309 C CD1 . TYR A 1 7 ? 10.814 -4.841 -2.714 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 10
+ATOM 3310 C CD2 . TYR A 1 7 ? 10.265 -2.964 -1.334 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 10
+ATOM 3311 C CE1 . TYR A 1 7 ? 12.057 -4.294 -2.962 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 10
+ATOM 3312 C CE2 . TYR A 1 7 ? 11.510 -2.423 -1.586 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 10
+ATOM 3313 C CZ . TYR A 1 7 ? 12.407 -3.088 -2.395 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 10
+ATOM 3314 O OH . TYR A 1 7 ? 13.636 -2.540 -2.652 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 10
+ATOM 3315 H H . TYR A 1 7 ? 7.185 -3.830 -4.500 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 10
+ATOM 3316 H HA . TYR A 1 7 ? 8.180 -5.681 -3.388 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 10
+ATOM 3317 H HB2 . TYR A 1 7 ? 7.819 -4.039 -1.111 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 10
+ATOM 3318 H HB3 . TYR A 1 7 ? 8.651 -5.624 -0.946 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 10
+ATOM 3319 H HD1 . TYR A 1 7 ? 10.548 -5.769 -3.201 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 10
+ATOM 3320 H HD2 . TYR A 1 7 ? 9.586 -2.381 -0.723 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 10
+ATOM 3321 H HE1 . TYR A 1 7 ? 12.746 -4.805 -3.618 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 10
+ATOM 3322 H HE2 . TYR A 1 7 ? 11.773 -1.465 -1.162 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 10
+ATOM 3323 H HH . TYR A 1 7 ? 14.125 -3.127 -3.234 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 10
+ATOM 3324 N N . GLY A 1 8 ? 5.229 -5.842 -2.427 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 10
+ATOM 3325 C CA . GLY A 1 8 ? 4.086 -6.769 -2.548 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 10
+ATOM 3326 C C . GLY A 1 8 ? 3.623 -7.483 -1.266 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 10
+ATOM 3327 O O . GLY A 1 8 ? 3.135 -8.616 -1.323 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 10
+ATOM 3328 H H . GLY A 1 8 ? 5.303 -4.973 -2.920 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 10
+ATOM 3329 H HA2 . GLY A 1 8 ? 3.168 -6.252 -2.952 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 10
+ATOM 3330 H HA3 . GLY A 1 8 ? 4.445 -7.465 -3.314 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 10
+ATOM 3331 N N . LYS A 1 9 ? 3.700 -6.725 -0.163 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 10
+ATOM 3332 C CA . LYS A 1 9 ? 2.873 -6.960 1.065 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 10
+ATOM 3333 C C . LYS A 1 9 ? 2.406 -5.521 1.461 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 10
+ATOM 3334 O O . LYS A 1 9 ? 3.260 -4.685 1.791 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 10
+ATOM 3335 C CB . LYS A 1 9 ? 3.702 -7.653 2.182 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 10
+ATOM 3336 C CG . LYS A 1 9 ? 2.875 -8.154 3.405 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 10
+ATOM 3337 C CD . LYS A 1 9 ? 3.645 -8.898 4.529 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 10
+ATOM 3338 C CE . LYS A 1 9 ? 4.409 -8.055 5.580 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 10
+ATOM 3339 N NZ . LYS A 1 9 ? 3.536 -7.419 6.588 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 10
+ATOM 3340 H H . LYS A 1 9 ? 4.270 -5.879 -0.419 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 10
+ATOM 3341 H HA . LYS A 1 9 ? 2.021 -7.673 0.850 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 10
+ATOM 3342 H HB2 . LYS A 1 9 ? 4.232 -8.524 1.754 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 10
+ATOM 3343 H HB3 . LYS A 1 9 ? 4.495 -6.966 2.528 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 10
+ATOM 3344 H HG2 . LYS A 1 9 ? 2.312 -7.295 3.824 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 10
+ATOM 3345 H HG3 . LYS A 1 9 ? 2.084 -8.825 3.016 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 10
+ATOM 3346 H HD2 . LYS A 1 9 ? 2.923 -9.542 5.066 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 10
+ATOM 3347 H HD3 . LYS A 1 9 ? 4.353 -9.617 4.075 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 10
+ATOM 3348 H HE2 . LYS A 1 9 ? 5.130 -8.707 6.106 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 10
+ATOM 3349 H HE3 . LYS A 1 9 ? 5.016 -7.282 5.074 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 10
+ATOM 3350 H HZ1 . LYS A 1 9 ? 2.992 -8.115 7.110 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 10
+ATOM 3351 H HZ2 . LYS A 1 9 ? 4.078 -6.881 7.273 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 10
+ATOM 3352 H HZ3 . LYS A 1 9 ? 2.867 -6.773 6.155 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 10
+ATOM 3353 N N . CYS A 1 10 ? 1.083 -5.229 1.401 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 10
+ATOM 3354 C CA . CYS A 1 10 ? 0.617 -3.844 1.149 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 10
+ATOM 3355 C C . CYS A 1 10 ? 0.612 -2.975 2.441 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 10
+ATOM 3356 O O . CYS A 1 10 ? 0.049 -3.427 3.445 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 10
+ATOM 3357 C CB . CYS A 1 10 ? -0.784 -3.942 0.533 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 10
+ATOM 3358 S SG . CYS A 1 10 ? -1.404 -2.308 0.118 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 10
+ATOM 3359 H H . CYS A 1 10 ? 0.523 -5.981 0.995 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 10
+ATOM 3360 H HA . CYS A 1 10 ? 1.175 -3.445 0.277 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 10
+ATOM 3361 H HB2 . CYS A 1 10 ? -0.738 -4.496 -0.424 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 10
+ATOM 3362 H HB3 . CYS A 1 10 ? -1.513 -4.495 1.149 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 10
+ATOM 3363 N N . ARG A 1 11 ? 1.123 -1.725 2.367 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 10
+ATOM 3364 C CA . ARG A 1 11 ? 0.977 -0.699 3.386 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 10
+ATOM 3365 C C . ARG A 1 11 ? -0.190 0.218 2.958 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 10
+ATOM 3366 O O . ARG A 1 11 ? -0.184 0.827 1.883 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 10
+ATOM 3367 C CB . ARG A 1 11 ? 2.296 0.080 3.509 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 10
+ATOM 3368 C CG . ARG A 1 11 ? 3.117 0.665 2.306 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 10
+ATOM 3369 C CD . ARG A 1 11 ? 4.136 -0.305 1.661 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 10
+ATOM 3370 N NE . ARG A 1 11 ? 5.222 -0.513 2.648 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 10
+ATOM 3371 C CZ . ARG A 1 11 ? 6.060 -1.577 2.732 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 10
+ATOM 3372 N NH1 . ARG A 1 11 ? 6.295 -2.466 1.757 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 10
+ATOM 3373 N NH2 . ARG A 1 11 ? 6.719 -1.736 3.864 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 10
+ATOM 3374 H H . ARG A 1 11 ? 2.075 -1.515 2.064 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 10
+ATOM 3375 H HA . ARG A 1 11 ? 0.901 -1.159 4.401 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 10
+ATOM 3376 H HB2 . ARG A 1 11 ? 2.107 0.871 4.187 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 10
+ATOM 3377 H HB3 . ARG A 1 11 ? 2.958 -0.489 4.163 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 10
+ATOM 3378 H HG2 . ARG A 1 11 ? 2.386 0.969 1.549 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 10
+ATOM 3379 H HG3 . ARG A 1 11 ? 3.620 1.599 2.617 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 10
+ATOM 3380 H HD2 . ARG A 1 11 ? 3.658 -1.266 1.395 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 10
+ATOM 3381 H HD3 . ARG A 1 11 ? 4.553 0.106 0.726 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 10
+ATOM 3382 H HE . ARG A 1 11 ? 5.035 0.017 3.512 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 10
+ATOM 3383 H HH11 . ARG A 1 11 ? 5.786 -2.329 0.877 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 10
+ATOM 3384 H HH12 . ARG A 1 11 ? 6.966 -3.213 1.969 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 10
+ATOM 3385 H HH21 . ARG A 1 11 ? 6.540 -1.045 4.602 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 10
+ATOM 3386 H HH22 . ARG A 1 11 ? 7.358 -2.538 3.915 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 10
+ATOM 3387 N N . ARG A 1 12 ? -1.143 0.300 3.877 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 10
+ATOM 3388 C CA . ARG A 1 12 ? -2.159 1.356 3.996 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 10
+ATOM 3389 C C . ARG A 1 12 ? -1.625 2.412 5.021 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 10
+ATOM 3390 O O . ARG A 1 12 ? -1.923 2.321 6.218 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 10
+ATOM 3391 C CB . ARG A 1 12 ? -3.577 0.729 4.236 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 10
+ATOM 3392 C CG . ARG A 1 12 ? -3.883 0.041 5.588 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 10
+ATOM 3393 C CD . ARG A 1 12 ? -5.236 -0.685 5.731 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 10
+ATOM 3394 N NE . ARG A 1 12 ? -6.373 0.250 5.978 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 10
+ATOM 3395 C CZ . ARG A 1 12 ? -6.975 0.509 7.169 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 10
+ATOM 3396 N NH1 . ARG A 1 12 ? -6.675 -0.060 8.346 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 10
+ATOM 3397 N NH2 . ARG A 1 12 ? -7.947 1.402 7.167 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 10
+ATOM 3398 H H . ARG A 1 12 ? -0.803 -0.075 4.719 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 10
+ATOM 3399 H HA . ARG A 1 12 ? -2.180 1.793 3.025 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 10
+ATOM 3400 H HB2 . ARG A 1 12 ? -4.396 1.464 4.072 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 10
+ATOM 3401 H HB3 . ARG A 1 12 ? -3.688 -0.041 3.454 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 10
+ATOM 3402 H HG2 . ARG A 1 12 ? -3.062 -0.682 5.730 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 10
+ATOM 3403 H HG3 . ARG A 1 12 ? -3.770 0.809 6.368 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 10
+ATOM 3404 H HD2 . ARG A 1 12 ? -5.448 -1.298 4.834 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 10
+ATOM 3405 H HD3 . ARG A 1 12 ? -5.161 -1.411 6.563 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 10
+ATOM 3406 H HE . ARG A 1 12 ? -6.746 0.810 5.205 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 10
+ATOM 3407 H HH11 . ARG A 1 12 ? -5.920 -0.754 8.341 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 10
+ATOM 3408 H HH12 . ARG A 1 12 ? -7.225 0.244 9.157 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 10
+ATOM 3409 H HH21 . ARG A 1 12 ? -8.173 1.834 6.264 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 10
+ATOM 3410 H HH22 . ARG A 1 12 ? -8.398 1.593 8.069 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 10
+ATOM 3411 N N . TYR A 1 13 ? -0.786 3.354 4.538 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 10
+ATOM 3412 C CA . TYR A 1 13 ? 0.146 4.138 5.385 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 10
+ATOM 3413 C C . TYR A 1 13 ? 0.058 5.714 5.269 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 10
+ATOM 3414 O O . TYR A 1 13 ? -0.770 6.151 4.464 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 10
+ATOM 3415 C CB . TYR A 1 13 ? 1.633 3.639 5.044 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 10
+ATOM 3416 C CG . TYR A 1 13 ? 2.294 3.820 3.628 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 10
+ATOM 3417 C CD1 . TYR A 1 13 ? 1.622 3.775 2.412 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 10
+ATOM 3418 C CD2 . TYR A 1 13 ? 3.650 4.163 3.591 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 10
+ATOM 3419 C CE1 . TYR A 1 13 ? 2.215 4.248 1.263 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 10
+ATOM 3420 C CE2 . TYR A 1 13 ? 4.251 4.596 2.432 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 10
+ATOM 3421 C CZ . TYR A 1 13 ? 3.502 4.718 1.283 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 10
+ATOM 3422 O OH . TYR A 1 13 ? 3.978 5.352 0.168 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 10
+ATOM 3423 H H . TYR A 1 13 ? -0.510 3.176 3.566 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 10
+ATOM 3424 H HA . TYR A 1 13 ? -0.171 4.037 6.463 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 10
+ATOM 3425 H HB2 . TYR A 1 13 ? 2.327 4.187 5.683 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 10
+ATOM 3426 H HB3 . TYR A 1 13 ? 1.818 2.654 5.465 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 10
+ATOM 3427 H HD1 . TYR A 1 13 ? 0.620 3.400 2.338 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 10
+ATOM 3428 H HD2 . TYR A 1 13 ? 4.269 4.152 4.475 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 10
+ATOM 3429 H HE1 . TYR A 1 13 ? 1.688 4.242 0.327 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 10
+ATOM 3430 H HE2 . TYR A 1 13 ? 5.304 4.833 2.457 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 10
+ATOM 3431 H HH . TYR A 1 13 ? 4.877 5.645 0.335 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 10
+ATOM 3432 N N . HYP A 1 14 ? 0.824 6.622 6.015 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 10
+ATOM 3433 C CA . HYP A 1 14 ? 1.417 7.895 5.464 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 10
+ATOM 3434 C C . HYP A 1 14 ? 1.260 8.527 4.048 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 10
+ATOM 3435 O O . HYP A 1 14 ? 1.585 9.717 3.955 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 10
+ATOM 3436 C CB . HYP A 1 14 ? 2.911 7.543 5.661 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 10
+ATOM 3437 C CG . HYP A 1 14 ? 2.977 6.968 7.078 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 10
+ATOM 3438 C CD . HYP A 1 14 ? 1.629 6.260 7.245 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 10
+ATOM 3439 O OD1 . HYP A 1 14 ? 3.096 8.014 8.032 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 10
+ATOM 3440 H HA . HYP A 1 14 ? 1.090 8.726 6.125 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 10
+ATOM 3441 H HB2 . HYP A 1 14 ? 3.208 6.773 4.932 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 10
+ATOM 3442 H HB3 . HYP A 1 14 ? 3.614 8.374 5.477 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 10
+ATOM 3443 H HG . HYP A 1 14 ? 3.826 6.269 7.183 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 10
+ATOM 3444 H HD22 . HYP A 1 14 ? 1.764 5.139 7.323 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 10
+ATOM 3445 H HD23 . HYP A 1 14 ? 1.110 6.573 8.156 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 10
+ATOM 3446 H HD1 . HYP A 1 14 ? 2.340 8.588 7.892 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 10
+ATOM 3447 N N . GLY A 1 15 ? 0.843 7.812 2.990 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 10
+ATOM 3448 C CA . GLY A 1 15 ? 0.834 8.291 1.614 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 10
+ATOM 3449 C C . GLY A 1 15 ? 0.191 7.372 0.550 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 10
+ATOM 3450 O O . GLY A 1 15 ? 0.776 7.267 -0.533 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 10
+ATOM 3451 H H . GLY A 1 15 ? 0.396 6.924 3.129 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 10
+ATOM 3452 H HA2 . GLY A 1 15 ? 0.314 9.300 1.601 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 10
+ATOM 3453 H HA3 . GLY A 1 15 ? 1.934 8.232 1.407 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 10
+ATOM 3454 N N . CYS A 1 16 ? -0.972 6.744 0.835 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 10
+ATOM 3455 C CA . CYS A 1 16 ? -1.661 5.794 -0.091 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 10
+ATOM 3456 C C . CYS A 1 16 ? -3.126 6.210 -0.352 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 10
+ATOM 3457 O O . CYS A 1 16 ? -3.562 6.047 -1.488 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 10
+ATOM 3458 C CB . CYS A 1 16 ? -1.545 4.414 0.596 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 10
+ATOM 3459 S SG . CYS A 1 16 ? -2.280 3.132 -0.428 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 10
+ATOM 3460 H H . CYS A 1 16 ? -1.288 6.772 1.824 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 10
+ATOM 3461 H HA . CYS A 1 16 ? -1.176 5.708 -1.116 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 10
+ATOM 3462 H HB2 . CYS A 1 16 ? -0.473 4.198 0.656 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 10
+ATOM 3463 H HB3 . CYS A 1 16 ? -1.972 4.391 1.627 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 10
+ATOM 3464 N N . SER A 1 17 ? -3.910 6.687 0.643 1.00 0.00 ? ? ? ? ? ? 17 SER A N 10
+ATOM 3465 C CA . SER A 1 17 ? -5.065 5.872 1.151 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 10
+ATOM 3466 C C . SER A 1 17 ? -6.302 5.593 0.247 1.00 0.00 ? ? ? ? ? ? 17 SER A C 10
+ATOM 3467 O O . SER A 1 17 ? -7.125 4.725 0.559 1.00 0.00 ? ? ? ? ? ? 17 SER A O 10
+ATOM 3468 C CB . SER A 1 17 ? -5.531 6.488 2.488 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 10
+ATOM 3469 O OG . SER A 1 17 ? -6.509 5.672 3.123 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 10
+ATOM 3470 H H . SER A 1 17 ? -3.274 7.141 1.301 1.00 0.00 ? ? ? ? ? ? 17 SER A H 10
+ATOM 3471 H HA . SER A 1 17 ? -4.662 4.876 1.319 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 10
+ATOM 3472 H HB2 . SER A 1 17 ? -4.694 6.615 3.201 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 10
+ATOM 3473 H HB3 . SER A 1 17 ? -5.949 7.496 2.314 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 10
+ATOM 3474 H HG . SER A 1 17 ? -6.746 6.126 3.935 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 10
+ATOM 3475 N N . SER A 1 18 ? -6.330 6.308 -0.863 1.00 0.00 ? ? ? ? ? ? 18 SER A N 10
+ATOM 3476 C CA . SER A 1 18 ? -7.143 5.972 -2.067 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 10
+ATOM 3477 C C . SER A 1 18 ? -6.660 4.765 -2.942 1.00 0.00 ? ? ? ? ? ? 18 SER A C 10
+ATOM 3478 O O . SER A 1 18 ? -7.521 4.198 -3.621 1.00 0.00 ? ? ? ? ? ? 18 SER A O 10
+ATOM 3479 C CB . SER A 1 18 ? -7.220 7.235 -2.947 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 10
+ATOM 3480 O OG . SER A 1 18 ? -7.873 8.290 -2.251 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 10
+ATOM 3481 H H . SER A 1 18 ? -5.419 6.792 -0.824 1.00 0.00 ? ? ? ? ? ? 18 SER A H 10
+ATOM 3482 H HA . SER A 1 18 ? -8.179 5.760 -1.742 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 10
+ATOM 3483 H HB2 . SER A 1 18 ? -6.213 7.567 -3.257 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 10
+ATOM 3484 H HB3 . SER A 1 18 ? -7.782 7.036 -3.879 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 10
+ATOM 3485 H HG . SER A 1 18 ? -8.751 7.966 -2.040 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 10
+ATOM 3486 N N . ALA A 1 19 ? -5.345 4.407 -2.953 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 10
+ATOM 3487 C CA . ALA A 1 19 ? -4.715 3.572 -4.005 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 10
+ATOM 3488 C C . ALA A 1 19 ? -5.088 2.069 -3.858 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 10
+ATOM 3489 O O . ALA A 1 19 ? -4.386 1.259 -3.231 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 10
+ATOM 3490 C CB . ALA A 1 19 ? -3.190 3.800 -3.927 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 10
+ATOM 3491 H H . ALA A 1 19 ? -4.796 5.161 -2.543 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 10
+ATOM 3492 H HA . ALA A 1 19 ? -4.978 3.986 -4.999 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 10
+ATOM 3493 H HB1 . ALA A 1 19 ? -2.914 4.865 -4.023 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 10
+ATOM 3494 H HB2 . ALA A 1 19 ? -2.772 3.430 -2.976 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 10
+ATOM 3495 H HB3 . ALA A 1 19 ? -2.665 3.252 -4.732 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 10
+ATOM 3496 N N . SER A 1 20 ? -6.237 1.745 -4.470 1.00 0.00 ? ? ? ? ? ? 20 SER A N 10
+ATOM 3497 C CA . SER A 1 20 ? -6.808 0.366 -4.460 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 10
+ATOM 3498 C C . SER A 1 20 ? -6.056 -0.795 -5.199 1.00 0.00 ? ? ? ? ? ? 20 SER A C 10
+ATOM 3499 O O . SER A 1 20 ? -6.499 -1.945 -5.170 1.00 0.00 ? ? ? ? ? ? 20 SER A O 10
+ATOM 3500 C CB . SER A 1 20 ? -8.183 0.469 -5.104 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 10
+ATOM 3501 O OG . SER A 1 20 ? -9.044 1.401 -4.456 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 10
+ATOM 3502 H H . SER A 1 20 ? -6.849 2.566 -4.525 1.00 0.00 ? ? ? ? ? ? 20 SER A H 10
+ATOM 3503 H HA . SER A 1 20 ? -6.961 0.047 -3.409 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 10
+ATOM 3504 H HB2 . SER A 1 20 ? -8.102 0.669 -6.192 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 10
+ATOM 3505 H HB3 . SER A 1 20 ? -8.578 -0.542 -4.973 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 10
+ATOM 3506 H HG . SER A 1 20 ? -9.083 1.130 -3.536 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 10
+ATOM 3507 N N . CYS A 1 21 ? -4.894 -0.512 -5.784 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 10
+ATOM 3508 C CA . CYS A 1 21 ? -3.829 -1.496 -6.207 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 10
+ATOM 3509 C C . CYS A 1 21 ? -3.579 -2.785 -5.333 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 10
+ATOM 3510 O O . CYS A 1 21 ? -2.975 -3.729 -5.852 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 10
+ATOM 3511 C CB . CYS A 1 21 ? -2.516 -0.680 -6.262 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 10
+ATOM 3512 S SG . CYS A 1 21 ? -1.103 -1.615 -6.896 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 10
+ATOM 3513 H H . CYS A 1 21 ? -4.909 0.503 -5.862 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 10
+ATOM 3514 H HA . CYS A 1 21 ? -4.056 -1.819 -7.239 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 10
+ATOM 3515 H HB2 . CYS A 1 21 ? -2.616 0.203 -6.926 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 10
+ATOM 3516 H HB3 . CYS A 1 21 ? -2.259 -0.297 -5.255 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 10
+ATOM 3517 N N . CYS A 1 22 ? -4.018 -2.791 -4.054 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 10
+ATOM 3518 C CA . CYS A 1 22 ? -3.879 -3.901 -3.098 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 10
+ATOM 3519 C C . CYS A 1 22 ? -5.056 -4.923 -3.248 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 10
+ATOM 3520 O O . CYS A 1 22 ? -4.825 -6.001 -3.801 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 10
+ATOM 3521 C CB . CYS A 1 22 ? -3.593 -3.193 -1.748 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 10
+ATOM 3522 S SG . CYS A 1 22 ? -1.969 -2.425 -1.774 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 10
+ATOM 3523 H H . CYS A 1 22 ? -4.617 -1.987 -3.799 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 10
+ATOM 3524 H HA . CYS A 1 22 ? -2.986 -4.482 -3.321 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 10
+ATOM 3525 H HB2 . CYS A 1 22 ? -4.320 -2.366 -1.489 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 10
+ATOM 3526 H HB3 . CYS A 1 22 ? -3.537 -3.980 -0.965 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 10
+ATOM 3527 N N . GLN A 1 23 ? -6.303 -4.587 -2.848 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 10
+ATOM 3528 C CA . GLN A 1 23 ? -7.627 -5.085 -3.305 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 10
+ATOM 3529 C C . GLN A 1 23 ? -7.659 -5.917 -4.632 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 10
+ATOM 3530 O O . GLN A 1 23 ? -6.844 -5.630 -5.516 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 10
+ATOM 3531 C CB . GLN A 1 23 ? -8.507 -3.794 -3.460 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 10
+ATOM 3532 C CG . GLN A 1 23 ? -8.472 -2.631 -2.403 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 10
+ATOM 3533 C CD . GLN A 1 23 ? -9.815 -1.974 -2.052 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 10
+ATOM 3534 O OE1 . GLN A 1 23 ? -10.493 -2.389 -1.114 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 10
+ATOM 3535 N NE2 . GLN A 1 23 ? -10.223 -0.950 -2.784 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 10
+ATOM 3536 H H . GLN A 1 23 ? -6.430 -3.651 -2.477 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 10
+ATOM 3537 H HA . GLN A 1 23 ? -8.060 -5.655 -2.477 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 10
+ATOM 3538 H HB2 . GLN A 1 23 ? -8.072 -3.323 -4.389 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 10
+ATOM 3539 H HB3 . GLN A 1 23 ? -9.588 -4.159 -3.509 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 10
+ATOM 3540 H HG2 . GLN A 1 23 ? -7.989 -2.989 -1.475 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 10
+ATOM 3541 H HG3 . GLN A 1 23 ? -7.732 -1.881 -2.759 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 10
+ATOM 3542 H HE21 . GLN A 1 23 ? -9.606 -0.658 -3.550 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 10
+ATOM 3543 H HE22 . GLN A 1 23 ? -11.124 -0.531 -2.526 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 10
+ATOM 3544 N N . ARG A 1 24 ? -8.565 -6.914 -4.744 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 10
+ATOM 3545 C CA . ARG A 1 24 ? -8.740 -7.753 -5.969 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 10
+ATOM 3546 C C . ARG A 1 24 ? -10.265 -7.776 -6.328 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 10
+ATOM 3547 O O . ARG A 1 24 ? -10.637 -7.209 -7.354 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 10
+ATOM 3548 C CB . ARG A 1 24 ? -8.003 -9.127 -5.765 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 10
+ATOM 3549 C CG . ARG A 1 24 ? -7.978 -10.156 -6.934 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 10
+ATOM 3550 C CD . ARG A 1 24 ? -6.997 -9.919 -8.108 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 10
+ATOM 3551 N NE . ARG A 1 24 ? -5.577 -10.242 -7.774 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 10
+ATOM 3552 C CZ . ARG A 1 24 ? -4.939 -11.423 -7.992 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 10
+ATOM 3553 N NH1 . ARG A 1 24 ? -5.476 -12.518 -8.550 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 10
+ATOM 3554 N NH2 . ARG A 1 24 ? -3.675 -11.499 -7.618 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 10
+ATOM 3555 H H . ARG A 1 24 ? -9.278 -6.915 -4.008 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 10
+ATOM 3556 H HA . ARG A 1 24 ? -8.250 -7.265 -6.835 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 10
+ATOM 3557 H HB2 . ARG A 1 24 ? -6.949 -8.958 -5.460 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 10
+ATOM 3558 H HB3 . ARG A 1 24 ? -8.476 -9.608 -4.890 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 10
+ATOM 3559 H HG2 . ARG A 1 24 ? -7.777 -11.158 -6.513 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 10
+ATOM 3560 H HG3 . ARG A 1 24 ? -9.001 -10.229 -7.346 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 10
+ATOM 3561 H HD2 . ARG A 1 24 ? -7.317 -10.529 -8.973 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 10
+ATOM 3562 H HD3 . ARG A 1 24 ? -7.065 -8.869 -8.445 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 10
+ATOM 3563 H HE . ARG A 1 24 ? -4.979 -9.535 -7.333 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 10
+ATOM 3564 H HH11 . ARG A 1 24 ? -6.458 -12.452 -8.838 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 10
+ATOM 3565 H HH12 . ARG A 1 24 ? -4.860 -13.333 -8.646 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 10
+ATOM 3566 H HH21 . ARG A 1 24 ? -3.271 -10.658 -7.191 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 10
+ATOM 3567 H HH22 . ARG A 1 24 ? -3.200 -12.393 -7.786 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 10
+ATOM 3568 N N . NH2 A 1 25 ? -11.183 -8.385 -5.568 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 10
+ATOM 3569 H HN1 . NH2 A 1 25 ? -10.843 -8.849 -4.719 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 10
+ATOM 3570 H HN2 . NH2 A 1 25 ? -12.154 -8.339 -5.896 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 10
+ATOM 3571 N N . HIS A 1 1 ? 8.012 6.650 4.320 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 11
+ATOM 3572 C CA . HIS A 1 1 ? 8.222 5.180 4.202 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 11
+ATOM 3573 C C . HIS A 1 1 ? 8.276 4.792 2.639 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 11
+ATOM 3574 O O . HIS A 1 1 ? 8.431 5.753 1.870 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 11
+ATOM 3575 C CB . HIS A 1 1 ? 7.091 4.457 5.067 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 11
+ATOM 3576 C CG . HIS A 1 1 ? 6.741 4.837 6.526 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 11
+ATOM 3577 N ND1 . HIS A 1 1 ? 5.724 4.185 7.203 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 11
+ATOM 3578 C CD2 . HIS A 1 1 ? 7.380 5.748 7.402 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 11
+ATOM 3579 C CE1 . HIS A 1 1 ? 5.840 4.758 8.441 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 11
+ATOM 3580 N NE2 . HIS A 1 1 ? 6.793 5.717 8.654 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 11
+ATOM 3581 H H1 . HIS A 1 1 ? 8.728 7.176 3.807 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 11
+ATOM 3582 H H2 . HIS A 1 1 ? 7.100 6.933 3.946 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 11
+ATOM 3583 H H3 . HIS A 1 1 ? 8.050 6.959 5.298 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 11
+ATOM 3584 H HA . HIS A 1 1 ? 9.253 5.001 4.583 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 11
+ATOM 3585 H HB2 . HIS A 1 1 ? 6.195 4.515 4.419 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 11
+ATOM 3586 H HB3 . HIS A 1 1 ? 7.202 3.337 5.140 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 11
+ATOM 3587 H HD1 . HIS A 1 1 ? 5.158 3.388 6.895 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 11
+ATOM 3588 H HD2 . HIS A 1 1 ? 8.231 6.361 7.141 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 11
+ATOM 3589 H HE1 . HIS A 1 1 ? 5.208 4.431 9.253 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 11
+ATOM 3590 H HE2 . HIS A 1 1 ? 7.045 6.217 9.514 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 11
+ATOM 3591 N N . HYP A 1 2 ? 8.208 3.530 2.042 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 11
+ATOM 3592 C CA . HYP A 1 2 ? 8.333 3.298 0.566 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 11
+ATOM 3593 C C . HYP A 1 2 ? 7.238 4.010 -0.361 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 11
+ATOM 3594 O O . HYP A 1 2 ? 6.595 4.918 0.166 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 11
+ATOM 3595 C CB . HYP A 1 2 ? 8.260 1.757 0.430 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 11
+ATOM 3596 C CG . HYP A 1 2 ? 8.531 1.174 1.787 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 11
+ATOM 3597 C CD . HYP A 1 2 ? 8.093 2.240 2.752 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 11
+ATOM 3598 O OD1 . HYP A 1 2 ? 9.921 0.924 1.936 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 11
+ATOM 3599 H HA . HYP A 1 2 ? 9.331 3.645 0.245 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 11
+ATOM 3600 H HB2 . HYP A 1 2 ? 7.277 1.500 -0.055 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 11
+ATOM 3601 H HB3 . HYP A 1 2 ? 8.998 1.379 -0.288 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 11
+ATOM 3602 H HG . HYP A 1 2 ? 7.970 0.261 1.937 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 11
+ATOM 3603 H HD22 . HYP A 1 2 ? 7.034 2.147 3.091 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 11
+ATOM 3604 H HD23 . HYP A 1 2 ? 8.751 2.222 3.640 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 11
+ATOM 3605 H HD1 . HYP A 1 2 ? 10.036 0.595 2.831 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 11
+ATOM 3606 N N . HYP A 1 3 ? 6.936 3.616 -1.665 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 11
+ATOM 3607 C CA . HYP A 1 3 ? 5.542 3.500 -2.189 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 11
+ATOM 3608 C C . HYP A 1 3 ? 4.461 2.676 -1.380 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 11
+ATOM 3609 O O . HYP A 1 3 ? 4.855 1.854 -0.547 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 11
+ATOM 3610 C CB . HYP A 1 3 ? 5.855 2.752 -3.495 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 11
+ATOM 3611 C CG . HYP A 1 3 ? 7.272 3.226 -4.023 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 11
+ATOM 3612 C CD . HYP A 1 3 ? 7.985 3.195 -2.650 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 11
+ATOM 3613 O OD1 . HYP A 1 3 ? 7.199 4.576 -4.470 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 11
+ATOM 3614 H HA . HYP A 1 3 ? 5.154 4.512 -2.407 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 11
+ATOM 3615 H HB2 . HYP A 1 3 ? 5.738 1.670 -3.213 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 11
+ATOM 3616 H HB3 . HYP A 1 3 ? 5.004 2.963 -4.138 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 11
+ATOM 3617 H HG . HYP A 1 3 ? 7.801 2.662 -4.903 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 11
+ATOM 3618 H HD22 . HYP A 1 3 ? 8.289 2.137 -2.422 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 11
+ATOM 3619 H HD23 . HYP A 1 3 ? 8.867 3.868 -2.431 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 11
+ATOM 3620 H HD1 . HYP A 1 3 ? 6.793 5.070 -3.754 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 11
+ATOM 3621 N N . CYS A 1 4 ? 3.145 2.853 -1.708 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 11
+ATOM 3622 C CA . CYS A 1 4 ? 2.018 1.996 -1.173 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 11
+ATOM 3623 C C . CYS A 1 4 ? 2.058 0.479 -1.590 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 11
+ATOM 3624 O O . CYS A 1 4 ? 1.733 -0.368 -0.751 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 11
+ATOM 3625 C CB . CYS A 1 4 ? 0.699 2.641 -1.700 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 11
+ATOM 3626 S SG . CYS A 1 4 ? -0.673 1.863 -0.825 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 11
+ATOM 3627 H H . CYS A 1 4 ? 2.994 3.789 -2.107 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 11
+ATOM 3628 H HA . CYS A 1 4 ? 1.900 2.055 -0.053 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 11
+ATOM 3629 H HB2 . CYS A 1 4 ? 0.634 3.752 -1.494 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 11
+ATOM 3630 H HB3 . CYS A 1 4 ? 0.583 2.430 -2.799 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 11
+ATOM 3631 N N . CYS A 1 5 ? 2.354 0.181 -2.876 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 11
+ATOM 3632 C CA . CYS A 1 5 ? 1.922 -1.136 -3.527 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 11
+ATOM 3633 C C . CYS A 1 5 ? 2.952 -2.259 -3.835 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 11
+ATOM 3634 O O . CYS A 1 5 ? 2.615 -3.335 -4.347 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 11
+ATOM 3635 C CB . CYS A 1 5 ? 1.208 -0.727 -4.827 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 11
+ATOM 3636 S SG . CYS A 1 5 ? -0.068 -1.944 -5.198 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 11
+ATOM 3637 H H . CYS A 1 5 ? 2.558 1.107 -3.344 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 11
+ATOM 3638 H HA . CYS A 1 5 ? 1.266 -1.748 -2.883 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 11
+ATOM 3639 H HB2 . CYS A 1 5 ? 0.715 0.286 -4.745 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 11
+ATOM 3640 H HB3 . CYS A 1 5 ? 1.965 -0.742 -5.651 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 11
+ATOM 3641 N N . LEU A 1 6 ? 4.171 -1.950 -3.465 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 11
+ATOM 3642 C CA . LEU A 1 6 ? 5.394 -2.710 -3.759 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 11
+ATOM 3643 C C . LEU A 1 6 ? 5.660 -3.732 -2.609 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 11
+ATOM 3644 O O . LEU A 1 6 ? 4.989 -3.785 -1.572 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 11
+ATOM 3645 C CB . LEU A 1 6 ? 6.488 -1.605 -4.019 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 11
+ATOM 3646 C CG . LEU A 1 6 ? 7.741 -1.882 -4.912 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 11
+ATOM 3647 C CD1 . LEU A 1 6 ? 8.854 -2.791 -4.398 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 11
+ATOM 3648 C CD2 . LEU A 1 6 ? 7.493 -2.063 -6.435 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 11
+ATOM 3649 H H . LEU A 1 6 ? 4.115 -0.985 -3.158 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 11
+ATOM 3650 H HA . LEU A 1 6 ? 5.283 -3.288 -4.693 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 11
+ATOM 3651 H HB2 . LEU A 1 6 ? 6.075 -0.695 -4.490 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 11
+ATOM 3652 H HB3 . LEU A 1 6 ? 6.781 -1.221 -3.024 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 11
+ATOM 3653 H HG . LEU A 1 6 ? 8.260 -0.943 -4.810 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 11
+ATOM 3654 H HD11 . LEU A 1 6 ? 9.008 -2.624 -3.318 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 11
+ATOM 3655 H HD12 . LEU A 1 6 ? 8.591 -3.852 -4.545 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 11
+ATOM 3656 H HD13 . LEU A 1 6 ? 9.806 -2.585 -4.910 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 11
+ATOM 3657 H HD21 . LEU A 1 6 ? 6.787 -1.302 -6.818 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 11
+ATOM 3658 H HD22 . LEU A 1 6 ? 8.417 -1.967 -7.036 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 11
+ATOM 3659 H HD23 . LEU A 1 6 ? 7.052 -3.054 -6.649 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 11
+ATOM 3660 N N . TYR A 1 7 ? 6.682 -4.572 -2.864 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 11
+ATOM 3661 C CA . TYR A 1 7 ? 7.329 -5.595 -1.948 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 11
+ATOM 3662 C C . TYR A 1 7 ? 6.536 -6.922 -1.727 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 11
+ATOM 3663 O O . TYR A 1 7 ? 7.015 -7.871 -1.094 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 11
+ATOM 3664 C CB . TYR A 1 7 ? 7.800 -5.004 -0.611 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 11
+ATOM 3665 C CG . TYR A 1 7 ? 9.005 -4.032 -0.667 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 11
+ATOM 3666 C CD1 . TYR A 1 7 ? 10.311 -4.504 -0.756 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 11
+ATOM 3667 C CD2 . TYR A 1 7 ? 8.789 -2.658 -0.621 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 11
+ATOM 3668 C CE1 . TYR A 1 7 ? 11.375 -3.624 -0.782 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 11
+ATOM 3669 C CE2 . TYR A 1 7 ? 9.859 -1.785 -0.650 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 11
+ATOM 3670 C CZ . TYR A 1 7 ? 11.149 -2.266 -0.725 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 11
+ATOM 3671 O OH . TYR A 1 7 ? 12.205 -1.393 -0.759 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 11
+ATOM 3672 H H . TYR A 1 7 ? 7.171 -4.150 -3.656 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 11
+ATOM 3673 H HA . TYR A 1 7 ? 8.229 -5.924 -2.406 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 11
+ATOM 3674 H HB2 . TYR A 1 7 ? 6.879 -4.541 -0.303 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 11
+ATOM 3675 H HB3 . TYR A 1 7 ? 8.075 -5.818 0.081 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 11
+ATOM 3676 H HD1 . TYR A 1 7 ? 10.515 -5.560 -0.843 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 11
+ATOM 3677 H HD2 . TYR A 1 7 ? 7.791 -2.230 -0.599 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 11
+ATOM 3678 H HE1 . TYR A 1 7 ? 12.384 -4.001 -0.858 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 11
+ATOM 3679 H HE2 . TYR A 1 7 ? 9.685 -0.721 -0.624 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 11
+ATOM 3680 H HH . TYR A 1 7 ? 13.022 -1.893 -0.817 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 11
+ATOM 3681 N N . GLY A 1 8 ? 5.361 -6.928 -2.326 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 11
+ATOM 3682 C CA . GLY A 1 8 ? 4.382 -8.024 -2.331 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 11
+ATOM 3683 C C . GLY A 1 8 ? 3.414 -8.188 -1.132 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 11
+ATOM 3684 O O . GLY A 1 8 ? 2.589 -9.105 -1.198 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 11
+ATOM 3685 H H . GLY A 1 8 ? 5.261 -5.992 -2.719 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 11
+ATOM 3686 H HA2 . GLY A 1 8 ? 3.752 -7.816 -3.227 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 11
+ATOM 3687 H HA3 . GLY A 1 8 ? 4.943 -8.971 -2.482 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 11
+ATOM 3688 N N . LYS A 1 9 ? 3.491 -7.326 -0.092 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 11
+ATOM 3689 C CA . LYS A 1 9 ? 2.494 -7.295 1.035 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 11
+ATOM 3690 C C . LYS A 1 9 ? 2.239 -5.773 1.290 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 11
+ATOM 3691 O O . LYS A 1 9 ? 3.202 -5.055 1.599 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 11
+ATOM 3692 C CB . LYS A 1 9 ? 3.067 -8.019 2.289 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 11
+ATOM 3693 C CG . LYS A 1 9 ? 2.046 -8.288 3.427 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 11
+ATOM 3694 C CD . LYS A 1 9 ? 2.635 -9.009 4.660 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 11
+ATOM 3695 C CE . LYS A 1 9 ? 1.642 -9.298 5.805 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 11
+ATOM 3696 N NZ . LYS A 1 9 ? 1.363 -8.129 6.668 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 11
+ATOM 3697 H H . LYS A 1 9 ? 4.260 -6.634 -0.247 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 11
+ATOM 3698 H HA . LYS A 1 9 ? 1.556 -7.864 0.759 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 11
+ATOM 3699 H HB2 . LYS A 1 9 ? 3.492 -8.993 1.976 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 11
+ATOM 3700 H HB3 . LYS A 1 9 ? 3.924 -7.439 2.681 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 11
+ATOM 3701 H HG2 . LYS A 1 9 ? 1.607 -7.319 3.735 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 11
+ATOM 3702 H HG3 . LYS A 1 9 ? 1.198 -8.867 3.015 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 11
+ATOM 3703 H HD2 . LYS A 1 9 ? 3.052 -9.978 4.329 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 11
+ATOM 3704 H HD3 . LYS A 1 9 ? 3.498 -8.443 5.057 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 11
+ATOM 3705 H HE2 . LYS A 1 9 ? 0.691 -9.717 5.423 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 11
+ATOM 3706 H HE3 . LYS A 1 9 ? 2.071 -10.092 6.442 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 11
+ATOM 3707 H HZ1 . LYS A 1 9 ? 2.220 -7.758 7.091 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 11
+ATOM 3708 H HZ2 . LYS A 1 9 ? 0.929 -7.364 6.139 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 11
+ATOM 3709 H HZ3 . LYS A 1 9 ? 0.724 -8.369 7.434 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 11
+ATOM 3710 N N . CYS A 1 10 ? 0.974 -5.292 1.176 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 11
+ATOM 3711 C CA . CYS A 1 10 ? 0.711 -3.849 0.951 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 11
+ATOM 3712 C C . CYS A 1 10 ? 0.797 -3.011 2.264 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 11
+ATOM 3713 O O . CYS A 1 10 ? 0.214 -3.426 3.272 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 11
+ATOM 3714 C CB . CYS A 1 10 ? -0.682 -3.735 0.316 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 11
+ATOM 3715 S SG . CYS A 1 10 ? -1.064 -2.018 -0.071 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 11
+ATOM 3716 H H . CYS A 1 10 ? 0.326 -5.944 0.730 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 11
+ATOM 3717 H HA . CYS A 1 10 ? 1.347 -3.519 0.104 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 11
+ATOM 3718 H HB2 . CYS A 1 10 ? -0.710 -4.273 -0.651 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 11
+ATOM 3719 H HB3 . CYS A 1 10 ? -1.481 -4.185 0.930 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 11
+ATOM 3720 N N . ARG A 1 11 ? 1.392 -1.800 2.187 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 11
+ATOM 3721 C CA . ARG A 1 11 ? 1.289 -0.737 3.174 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 11
+ATOM 3722 C C . ARG A 1 11 ? 0.134 0.193 2.744 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 11
+ATOM 3723 O O . ARG A 1 11 ? 0.132 0.779 1.658 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 11
+ATOM 3724 C CB . ARG A 1 11 ? 2.623 0.023 3.238 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 11
+ATOM 3725 C CG . ARG A 1 11 ? 3.491 0.412 1.987 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 11
+ATOM 3726 C CD . ARG A 1 11 ? 4.504 -0.648 1.498 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 11
+ATOM 3727 N NE . ARG A 1 11 ? 5.553 -0.772 2.537 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 11
+ATOM 3728 C CZ . ARG A 1 11 ? 6.395 -1.816 2.734 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 11
+ATOM 3729 N NH1 . ARG A 1 11 ? 6.635 -2.805 1.862 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 11
+ATOM 3730 N NH2 . ARG A 1 11 ? 7.051 -1.853 3.879 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 11
+ATOM 3731 H H . ARG A 1 11 ? 2.369 -1.664 1.915 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 11
+ATOM 3732 H HA . ARG A 1 11 ? 1.229 -1.155 4.208 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 11
+ATOM 3733 H HB2 . ARG A 1 11 ? 2.444 0.887 3.830 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 11
+ATOM 3734 H HB3 . ARG A 1 11 ? 3.252 -0.483 3.967 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 11
+ATOM 3735 H HG2 . ARG A 1 11 ? 2.796 0.615 1.168 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 11
+ATOM 3736 H HG3 . ARG A 1 11 ? 4.027 1.354 2.160 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 11
+ATOM 3737 H HD2 . ARG A 1 11 ? 4.009 -1.621 1.330 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 11
+ATOM 3738 H HD3 . ARG A 1 11 ? 4.959 -0.339 0.539 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 11
+ATOM 3739 H HE . ARG A 1 11 ? 5.358 -0.144 3.331 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 11
+ATOM 3740 H HH11 . ARG A 1 11 ? 6.126 -2.765 0.971 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 11
+ATOM 3741 H HH12 . ARG A 1 11 ? 7.307 -3.523 2.154 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 11
+ATOM 3742 H HH21 . ARG A 1 11 ? 6.867 -1.088 4.538 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 11
+ATOM 3743 H HH22 . ARG A 1 11 ? 7.691 -2.643 4.017 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 11
+ATOM 3744 N N . ARG A 1 12 ? -0.808 0.292 3.671 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 11
+ATOM 3745 C CA . ARG A 1 12 ? -1.857 1.318 3.760 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 11
+ATOM 3746 C C . ARG A 1 12 ? -1.401 2.353 4.842 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 11
+ATOM 3747 O O . ARG A 1 12 ? -1.745 2.213 6.022 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 11
+ATOM 3748 C CB . ARG A 1 12 ? -3.265 0.640 3.908 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 11
+ATOM 3749 C CG . ARG A 1 12 ? -3.632 -0.071 5.232 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 11
+ATOM 3750 C CD . ARG A 1 12 ? -4.963 -0.846 5.279 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 11
+ATOM 3751 N NE . ARG A 1 12 ? -6.154 0.033 5.451 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 11
+ATOM 3752 C CZ . ARG A 1 12 ? -7.418 -0.372 5.739 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 11
+ATOM 3753 N NH1 . ARG A 1 12 ? -7.821 -1.638 5.920 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 11
+ATOM 3754 N NH2 . ARG A 1 12 ? -8.337 0.569 5.851 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 11
+ATOM 3755 H H . ARG A 1 12 ? -0.453 -0.048 4.520 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 11
+ATOM 3756 H HA . ARG A 1 12 ? -1.838 1.786 2.804 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 11
+ATOM 3757 H HB2 . ARG A 1 12 ? -4.098 1.346 3.696 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 11
+ATOM 3758 H HB3 . ARG A 1 12 ? -3.295 -0.127 3.116 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 11
+ATOM 3759 H HG2 . ARG A 1 12 ? -2.793 -0.761 5.426 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 11
+ATOM 3760 H HG3 . ARG A 1 12 ? -3.599 0.696 6.022 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 11
+ATOM 3761 H HD2 . ARG A 1 12 ? -5.086 -1.473 4.376 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 11
+ATOM 3762 H HD3 . ARG A 1 12 ? -4.933 -1.552 6.129 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 11
+ATOM 3763 H HE . ARG A 1 12 ? -6.065 1.050 5.353 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 11
+ATOM 3764 H HH11 . ARG A 1 12 ? -7.103 -2.366 5.832 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 11
+ATOM 3765 H HH12 . ARG A 1 12 ? -8.815 -1.778 6.133 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 11
+ATOM 3766 H HH21 . ARG A 1 12 ? -8.023 1.536 5.711 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 11
+ATOM 3767 H HH22 . ARG A 1 12 ? -9.290 0.258 6.068 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 11
+ATOM 3768 N N . TYR A 1 13 ? -0.572 3.335 4.429 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 11
+ATOM 3769 C CA . TYR A 1 13 ? 0.310 4.114 5.340 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 11
+ATOM 3770 C C . TYR A 1 13 ? 0.104 5.690 5.364 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 11
+ATOM 3771 O O . TYR A 1 13 ? -0.798 6.134 4.649 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 11
+ATOM 3772 C CB . TYR A 1 13 ? 1.825 3.782 4.897 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 11
+ATOM 3773 C CG . TYR A 1 13 ? 2.385 3.974 3.451 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 11
+ATOM 3774 C CD1 . TYR A 1 13 ? 1.665 4.555 2.414 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 11
+ATOM 3775 C CD2 . TYR A 1 13 ? 3.741 3.727 3.243 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 11
+ATOM 3776 C CE1 . TYR A 1 13 ? 2.275 4.904 1.238 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 11
+ATOM 3777 C CE2 . TYR A 1 13 ? 4.354 4.084 2.061 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 11
+ATOM 3778 C CZ . TYR A 1 13 ? 3.621 4.727 1.079 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 11
+ATOM 3779 O OH . TYR A 1 13 ? 4.172 5.240 -0.060 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 11
+ATOM 3780 H H . TYR A 1 13 ? -0.244 3.194 3.466 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 11
+ATOM 3781 H HA . TYR A 1 13 ? 0.032 3.883 6.408 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 11
+ATOM 3782 H HB2 . TYR A 1 13 ? 2.507 4.440 5.445 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 11
+ATOM 3783 H HB3 . TYR A 1 13 ? 2.155 2.822 5.307 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 11
+ATOM 3784 H HD1 . TYR A 1 13 ? 0.619 4.784 2.527 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 11
+ATOM 3785 H HD2 . TYR A 1 13 ? 4.371 3.255 3.987 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 11
+ATOM 3786 H HE1 . TYR A 1 13 ? 1.704 5.326 0.435 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 11
+ATOM 3787 H HE2 . TYR A 1 13 ? 5.403 3.834 1.945 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 11
+ATOM 3788 H HH . TYR A 1 13 ? 5.116 5.067 -0.057 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 11
+ATOM 3789 N N . HYP A 1 14 ? 0.869 6.597 6.120 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 11
+ATOM 3790 C CA . HYP A 1 14 ? 1.437 7.881 5.564 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 11
+ATOM 3791 C C . HYP A 1 14 ? 1.175 8.573 4.193 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 11
+ATOM 3792 O O . HYP A 1 14 ? 1.483 9.770 4.136 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 11
+ATOM 3793 C CB . HYP A 1 14 ? 2.942 7.518 5.638 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 11
+ATOM 3794 C CG . HYP A 1 14 ? 3.100 6.933 7.044 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 11
+ATOM 3795 C CD . HYP A 1 14 ? 1.768 6.208 7.279 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 11
+ATOM 3796 O OD1 . HYP A 1 14 ? 3.272 7.967 8.005 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 11
+ATOM 3797 H HA . HYP A 1 14 ? 1.170 8.694 6.273 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 11
+ATOM 3798 H HB2 . HYP A 1 14 ? 3.183 6.748 4.888 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 11
+ATOM 3799 H HB3 . HYP A 1 14 ? 3.637 8.338 5.396 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 11
+ATOM 3800 H HG . HYP A 1 14 ? 3.958 6.240 7.088 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 11
+ATOM 3801 H HD22 . HYP A 1 14 ? 1.945 5.091 7.290 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 11
+ATOM 3802 H HD23 . HYP A 1 14 ? 1.313 6.470 8.237 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 11
+ATOM 3803 H HD1 . HYP A 1 14 ? 3.316 7.530 8.859 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 11
+ATOM 3804 N N . GLY A 1 15 ? 0.707 7.905 3.124 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 11
+ATOM 3805 C CA . GLY A 1 15 ? 0.683 8.440 1.767 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 11
+ATOM 3806 C C . GLY A 1 15 ? 0.109 7.552 0.642 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 11
+ATOM 3807 O O . GLY A 1 15 ? 0.693 7.569 -0.446 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 11
+ATOM 3808 H H . GLY A 1 15 ? 0.309 6.990 3.231 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 11
+ATOM 3809 H HA2 . GLY A 1 15 ? 0.110 9.419 1.801 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 11
+ATOM 3810 H HA3 . GLY A 1 15 ? 1.785 8.449 1.561 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 11
+ATOM 3811 N N . CYS A 1 16 ? -0.996 6.817 0.884 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 11
+ATOM 3812 C CA . CYS A 1 16 ? -1.607 5.874 -0.099 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 11
+ATOM 3813 C C . CYS A 1 16 ? -3.102 6.177 -0.348 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 11
+ATOM 3814 O O . CYS A 1 16 ? -3.534 5.966 -1.480 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 11
+ATOM 3815 C CB . CYS A 1 16 ? -1.391 4.470 0.512 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 11
+ATOM 3816 S SG . CYS A 1 16 ? -2.089 3.218 -0.566 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 11
+ATOM 3817 H H . CYS A 1 16 ? -1.321 6.772 1.869 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 11
+ATOM 3818 H HA . CYS A 1 16 ? -1.117 5.883 -1.124 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 11
+ATOM 3819 H HB2 . CYS A 1 16 ? -0.308 4.310 0.544 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 11
+ATOM 3820 H HB3 . CYS A 1 16 ? -1.797 4.357 1.548 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 11
+ATOM 3821 N N . SER A 1 17 ? -3.913 6.545 0.671 1.00 0.00 ? ? ? ? ? ? 17 SER A N 11
+ATOM 3822 C CA . SER A 1 17 ? -4.983 5.616 1.153 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 11
+ATOM 3823 C C . SER A 1 17 ? -6.256 5.368 0.291 1.00 0.00 ? ? ? ? ? ? 17 SER A C 11
+ATOM 3824 O O . SER A 1 17 ? -7.093 4.521 0.623 1.00 0.00 ? ? ? ? ? ? 17 SER A O 11
+ATOM 3825 C CB . SER A 1 17 ? -5.359 6.096 2.568 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 11
+ATOM 3826 O OG . SER A 1 17 ? -4.259 5.939 3.456 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 11
+ATOM 3827 H H . SER A 1 17 ? -3.342 6.994 1.389 1.00 0.00 ? ? ? ? ? ? 17 SER A H 11
+ATOM 3828 H HA . SER A 1 17 ? -4.523 4.627 1.213 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 11
+ATOM 3829 H HB2 . SER A 1 17 ? -5.664 7.159 2.550 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 11
+ATOM 3830 H HB3 . SER A 1 17 ? -6.217 5.528 2.977 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 11
+ATOM 3831 H HG . SER A 1 17 ? -4.560 6.258 4.310 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 11
+ATOM 3832 N N . SER A 1 18 ? -6.289 6.069 -0.830 1.00 0.00 ? ? ? ? ? ? 18 SER A N 11
+ATOM 3833 C CA . SER A 1 18 ? -7.085 5.713 -2.034 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 11
+ATOM 3834 C C . SER A 1 18 ? -6.587 4.503 -2.893 1.00 0.00 ? ? ? ? ? ? 18 SER A C 11
+ATOM 3835 O O . SER A 1 18 ? -7.449 3.968 -3.596 1.00 0.00 ? ? ? ? ? ? 18 SER A O 11
+ATOM 3836 C CB . SER A 1 18 ? -7.136 6.957 -2.940 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 11
+ATOM 3837 O OG . SER A 1 18 ? -7.757 8.050 -2.273 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 11
+ATOM 3838 H H . SER A 1 18 ? -5.381 6.561 -0.816 1.00 0.00 ? ? ? ? ? ? 18 SER A H 11
+ATOM 3839 H HA . SER A 1 18 ? -8.125 5.503 -1.720 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 11
+ATOM 3840 H HB2 . SER A 1 18 ? -6.116 7.245 -3.256 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 11
+ATOM 3841 H HB3 . SER A 1 18 ? -7.702 6.753 -3.869 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 11
+ATOM 3842 H HG . SER A 1 18 ? -8.645 7.757 -2.055 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 11
+ATOM 3843 N N . ALA A 1 19 ? -5.276 4.114 -2.888 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 11
+ATOM 3844 C CA . ALA A 1 19 ? -4.648 3.306 -3.975 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 11
+ATOM 3845 C C . ALA A 1 19 ? -5.132 1.816 -4.009 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 11
+ATOM 3846 O O . ALA A 1 19 ? -4.511 0.898 -3.449 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 11
+ATOM 3847 C CB . ALA A 1 19 ? -3.111 3.385 -3.833 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 11
+ATOM 3848 H H . ALA A 1 19 ? -4.713 4.816 -2.396 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 11
+ATOM 3849 H HA . ALA A 1 19 ? -4.837 3.820 -4.939 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 11
+ATOM 3850 H HB1 . ALA A 1 19 ? -2.732 4.410 -3.664 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 11
+ATOM 3851 H HB2 . ALA A 1 19 ? -2.749 2.745 -3.011 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 11
+ATOM 3852 H HB3 . ALA A 1 19 ? -2.612 3.004 -4.744 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 11
+ATOM 3853 N N . SER A 1 20 ? -6.273 1.624 -4.699 1.00 0.00 ? ? ? ? ? ? 20 SER A N 11
+ATOM 3854 C CA . SER A 1 20 ? -6.889 0.242 -4.897 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 11
+ATOM 3855 C C . SER A 1 20 ? -6.194 -0.837 -5.744 1.00 0.00 ? ? ? ? ? ? 20 SER A C 11
+ATOM 3856 O O . SER A 1 20 ? -6.590 -2.012 -5.752 1.00 0.00 ? ? ? ? ? ? 20 SER A O 11
+ATOM 3857 C CB . SER A 1 20 ? -8.314 0.377 -5.426 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 11
+ATOM 3858 O OG . SER A 1 20 ? -8.961 -0.839 -5.802 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 11
+ATOM 3859 H H . SER A 1 20 ? -6.782 2.508 -4.543 1.00 0.00 ? ? ? ? ? ? 20 SER A H 11
+ATOM 3860 H HA . SER A 1 20 ? -6.928 -0.219 -3.905 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 11
+ATOM 3861 H HB2 . SER A 1 20 ? -8.801 0.716 -4.525 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 11
+ATOM 3862 H HB3 . SER A 1 20 ? -8.374 1.084 -6.276 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 11
+ATOM 3863 H HG . SER A 1 20 ? -8.903 -1.417 -5.037 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 11
+ATOM 3864 N N . CYS A 1 21 ? -5.028 -0.465 -6.218 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 11
+ATOM 3865 C CA . CYS A 1 21 ? -3.818 -1.352 -6.326 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 11
+ATOM 3866 C C . CYS A 1 21 ? -3.638 -2.475 -5.222 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 11
+ATOM 3867 O O . CYS A 1 21 ? -3.043 -3.507 -5.547 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 11
+ATOM 3868 C CB . CYS A 1 21 ? -2.575 -0.435 -6.304 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 11
+ATOM 3869 S SG . CYS A 1 21 ? -1.106 -1.359 -6.807 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 11
+ATOM 3870 H H . CYS A 1 21 ? -5.174 0.544 -6.341 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 11
+ATOM 3871 H HA . CYS A 1 21 ? -3.807 -1.784 -7.342 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 11
+ATOM 3872 H HB2 . CYS A 1 21 ? -2.681 0.414 -7.009 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 11
+ATOM 3873 H HB3 . CYS A 1 21 ? -2.420 -0.007 -5.295 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 11
+ATOM 3874 N N . CYS A 1 22 ? -4.156 -2.265 -3.972 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 11
+ATOM 3875 C CA . CYS A 1 22 ? -4.125 -3.242 -2.873 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 11
+ATOM 3876 C C . CYS A 1 22 ? -5.466 -4.049 -2.833 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 11
+ATOM 3877 O O . CYS A 1 22 ? -5.472 -5.189 -3.301 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 11
+ATOM 3878 C CB . CYS A 1 22 ? -3.615 -2.435 -1.653 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 11
+ATOM 3879 S SG . CYS A 1 22 ? -1.882 -2.014 -1.877 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 11
+ATOM 3880 H H . CYS A 1 22 ? -4.624 -1.356 -3.795 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 11
+ATOM 3881 H HA . CYS A 1 22 ? -3.357 -3.995 -3.038 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 11
+ATOM 3882 H HB2 . CYS A 1 22 ? -4.161 -1.461 -1.476 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 11
+ATOM 3883 H HB3 . CYS A 1 22 ? -3.639 -3.121 -0.780 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 11
+ATOM 3884 N N . GLN A 1 23 ? -6.596 -3.473 -2.361 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 11
+ATOM 3885 C CA . GLN A 1 23 ? -8.026 -3.760 -2.662 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 11
+ATOM 3886 C C . GLN A 1 23 ? -8.329 -4.694 -3.883 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 11
+ATOM 3887 O O . GLN A 1 23 ? -7.554 -4.673 -4.845 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 11
+ATOM 3888 C CB . GLN A 1 23 ? -8.682 -2.355 -2.888 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 11
+ATOM 3889 C CG . GLN A 1 23 ? -8.404 -1.172 -1.905 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 11
+ATOM 3890 C CD . GLN A 1 23 ? -9.174 -1.224 -0.581 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 11
+ATOM 3891 O OE1 . GLN A 1 23 ? -10.303 -0.745 -0.486 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 11
+ATOM 3892 N NE2 . GLN A 1 23 ? -8.588 -1.800 0.457 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 11
+ATOM 3893 H H . GLN A 1 23 ? -6.542 -2.487 -2.108 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 11
+ATOM 3894 H HA . GLN A 1 23 ? -8.480 -4.145 -1.745 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 11
+ATOM 3895 H HB2 . GLN A 1 23 ? -8.230 -2.034 -3.874 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 11
+ATOM 3896 H HB3 . GLN A 1 23 ? -9.816 -2.491 -2.874 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 11
+ATOM 3897 H HG2 . GLN A 1 23 ? -7.300 -1.088 -1.747 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 11
+ATOM 3898 H HG3 . GLN A 1 23 ? -8.610 -0.240 -2.454 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 11
+ATOM 3899 H HE21 . GLN A 1 23 ? -7.646 -2.177 0.302 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 11
+ATOM 3900 H HE22 . GLN A 1 23 ? -9.123 -1.823 1.332 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 11
+ATOM 3901 N N . ARG A 1 24 ? -9.423 -5.478 -3.820 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 11
+ATOM 3902 C CA . ARG A 1 24 ? -9.850 -6.418 -4.891 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 11
+ATOM 3903 C C . ARG A 1 24 ? -11.357 -6.172 -5.240 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 11
+ATOM 3904 O O . ARG A 1 24 ? -11.649 -5.837 -6.387 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 11
+ATOM 3905 C CB . ARG A 1 24 ? -9.489 -7.893 -4.491 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 11
+ATOM 3906 C CG . ARG A 1 24 ? -8.029 -8.391 -4.680 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 11
+ATOM 3907 C CD . ARG A 1 24 ? -7.622 -8.822 -6.104 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 11
+ATOM 3908 N NE . ARG A 1 24 ? -6.204 -9.273 -6.127 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 11
+ATOM 3909 C CZ . ARG A 1 24 ? -5.758 -10.558 -6.137 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 11
+ATOM 3910 N NH1 . ARG A 1 24 ? -6.524 -11.658 -6.128 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 11
+ATOM 3911 N NH2 . ARG A 1 24 ? -4.451 -10.738 -6.158 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 11
+ATOM 3912 H H . ARG A 1 24 ? -10.045 -5.301 -3.037 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 11
+ATOM 3913 H HA . ARG A 1 24 ? -9.313 -6.186 -5.834 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 11
+ATOM 3914 H HB2 . ARG A 1 24 ? -9.760 -8.094 -3.437 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 11
+ATOM 3915 H HB3 . ARG A 1 24 ? -10.184 -8.555 -5.017 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 11
+ATOM 3916 H HG2 . ARG A 1 24 ? -7.332 -7.616 -4.312 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 11
+ATOM 3917 H HG3 . ARG A 1 24 ? -7.879 -9.256 -4.009 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 11
+ATOM 3918 H HD2 . ARG A 1 24 ? -8.293 -9.624 -6.465 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 11
+ATOM 3919 H HD3 . ARG A 1 24 ? -7.748 -7.975 -6.802 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 11
+ATOM 3920 H HE . ARG A 1 24 ? -5.445 -8.582 -6.137 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 11
+ATOM 3921 H HH11 . ARG A 1 24 ? -7.540 -11.511 -6.112 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 11
+ATOM 3922 H HH12 . ARG A 1 24 ? -6.034 -12.559 -6.138 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 11
+ATOM 3923 H HH21 . ARG A 1 24 ? -3.870 -9.892 -6.165 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 11
+ATOM 3924 H HH22 . ARG A 1 24 ? -4.122 -11.710 -6.165 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 11
+ATOM 3925 N N . NH2 A 1 25 ? -12.350 -6.309 -4.351 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 11
+ATOM 3926 H HN1 . NH2 A 1 25 ? -13.300 -6.123 -4.691 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 11
+ATOM 3927 H HN2 . NH2 A 1 25 ? -12.081 -6.589 -3.402 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 11
+ATOM 3928 N N . HIS A 1 1 ? 8.672 4.884 4.992 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 12
+ATOM 3929 C CA . HIS A 1 1 ? 8.151 3.644 4.358 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 12
+ATOM 3930 C C . HIS A 1 1 ? 8.109 3.739 2.764 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 12
+ATOM 3931 O O . HIS A 1 1 ? 8.414 4.850 2.305 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 12
+ATOM 3932 C CB . HIS A 1 1 ? 6.724 3.363 4.962 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 12
+ATOM 3933 C CG . HIS A 1 1 ? 6.573 2.813 6.392 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 12
+ATOM 3934 N ND1 . HIS A 1 1 ? 5.345 2.881 7.036 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 12
+ATOM 3935 C CD2 . HIS A 1 1 ? 7.483 2.077 7.197 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 12
+ATOM 3936 C CE1 . HIS A 1 1 ? 5.625 2.186 8.182 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 12
+ATOM 3937 N NE2 . HIS A 1 1 ? 6.881 1.680 8.377 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 12
+ATOM 3938 H H1 . HIS A 1 1 ? 9.613 5.114 4.655 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 12
+ATOM 3939 H H2 . HIS A 1 1 ? 8.072 5.692 4.793 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 12
+ATOM 3940 H H3 . HIS A 1 1 ? 8.729 4.792 6.012 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 12
+ATOM 3941 H HA . HIS A 1 1 ? 8.910 2.883 4.648 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 12
+ATOM 3942 H HB2 . HIS A 1 1 ? 6.152 4.314 4.922 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 12
+ATOM 3943 H HB3 . HIS A 1 1 ? 6.107 2.688 4.308 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 12
+ATOM 3944 H HD1 . HIS A 1 1 ? 4.444 3.224 6.680 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 12
+ATOM 3945 H HD2 . HIS A 1 1 ? 8.494 1.827 6.912 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 12
+ATOM 3946 H HE1 . HIS A 1 1 ? 4.849 2.006 8.911 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 12
+ATOM 3947 H HE2 . HIS A 1 1 ? 7.247 1.102 9.141 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 12
+ATOM 3948 N N . HYP A 1 2 ? 7.791 2.733 1.844 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 12
+ATOM 3949 C CA . HYP A 1 2 ? 7.989 2.902 0.371 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 12
+ATOM 3950 C C . HYP A 1 2 ? 6.996 3.929 -0.349 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 12
+ATOM 3951 O O . HYP A 1 2 ? 6.390 4.713 0.379 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 12
+ATOM 3952 C CB . HYP A 1 2 ? 7.832 1.470 -0.191 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 12
+ATOM 3953 C CG . HYP A 1 2 ? 7.906 0.533 0.984 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 12
+ATOM 3954 C CD . HYP A 1 2 ? 7.335 1.339 2.127 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 12
+ATOM 3955 O OD1 . HYP A 1 2 ? 9.257 0.192 1.257 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 12
+ATOM 3956 H HA . HYP A 1 2 ? 9.024 3.249 0.199 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 12
+ATOM 3957 H HB2 . HYP A 1 2 ? 6.871 1.441 -0.768 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 12
+ATOM 3958 H HB3 . HYP A 1 2 ? 8.602 1.232 -0.941 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 12
+ATOM 3959 H HG . HYP A 1 2 ? 7.321 -0.363 0.781 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 12
+ATOM 3960 H HD22 . HYP A 1 2 ? 6.225 1.291 2.117 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 12
+ATOM 3961 H HD23 . HYP A 1 2 ? 7.703 0.915 3.078 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 12
+ATOM 3962 H HD1 . HYP A 1 2 ? 9.577 -0.267 0.477 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 12
+ATOM 3963 N N . HYP A 1 3 ? 6.727 3.934 -1.715 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 12
+ATOM 3964 C CA . HYP A 1 3 ? 5.343 4.024 -2.281 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 12
+ATOM 3965 C C . HYP A 1 3 ? 4.203 3.068 -1.724 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 12
+ATOM 3966 O O . HYP A 1 3 ? 4.550 2.104 -1.035 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 12
+ATOM 3967 C CB . HYP A 1 3 ? 5.680 3.643 -3.733 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 12
+ATOM 3968 C CG . HYP A 1 3 ? 7.136 4.168 -4.077 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 12
+ATOM 3969 C CD . HYP A 1 3 ? 7.798 3.739 -2.745 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 12
+ATOM 3970 O OD1 . HYP A 1 3 ? 7.133 5.589 -4.148 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 12
+ATOM 3971 H HA . HYP A 1 3 ? 4.997 5.072 -2.229 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 12
+ATOM 3972 H HB2 . HYP A 1 3 ? 5.516 2.531 -3.737 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 12
+ATOM 3973 H HB3 . HYP A 1 3 ? 4.866 4.059 -4.328 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 12
+ATOM 3974 H HG . HYP A 1 3 ? 7.675 3.833 -5.061 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 12
+ATOM 3975 H HD22 . HYP A 1 3 ? 8.055 2.645 -2.797 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 12
+ATOM 3976 H HD23 . HYP A 1 3 ? 8.694 4.288 -2.330 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 12
+ATOM 3977 H HD1 . HYP A 1 3 ? 6.721 5.894 -3.336 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 12
+ATOM 3978 N N . CYS A 1 4 ? 2.907 3.293 -2.103 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 12
+ATOM 3979 C CA . CYS A 1 4 ? 1.782 2.312 -1.822 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 12
+ATOM 3980 C C . CYS A 1 4 ? 1.831 0.955 -2.602 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 12
+ATOM 3981 O O . CYS A 1 4 ? 1.490 -0.078 -2.016 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 12
+ATOM 3982 C CB . CYS A 1 4 ? 0.434 3.032 -2.146 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 12
+ATOM 3983 S SG . CYS A 1 4 ? -0.875 2.164 -1.260 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 12
+ATOM 3984 H H . CYS A 1 4 ? 2.755 4.305 -2.233 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 12
+ATOM 3985 H HA . CYS A 1 4 ? 1.693 2.084 -0.727 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 12
+ATOM 3986 H HB2 . CYS A 1 4 ? 0.397 4.094 -1.770 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 12
+ATOM 3987 H HB3 . CYS A 1 4 ? 0.224 2.996 -3.254 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 12
+ATOM 3988 N N . CYS A 1 5 ? 2.173 1.008 -3.907 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 12
+ATOM 3989 C CA . CYS A 1 5 ? 1.803 -0.093 -4.904 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 12
+ATOM 3990 C C . CYS A 1 5 ? 2.747 -1.310 -5.126 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 12
+ATOM 3991 O O . CYS A 1 5 ? 2.511 -2.185 -5.970 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 12
+ATOM 3992 C CB . CYS A 1 5 ? 1.584 0.641 -6.240 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 12
+ATOM 3993 S SG . CYS A 1 5 ? 0.434 -0.225 -7.343 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 12
+ATOM 3994 H H . CYS A 1 5 ? 2.454 2.011 -4.086 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 12
+ATOM 3995 H HA . CYS A 1 5 ? 0.915 -0.676 -4.594 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 12
+ATOM 3996 H HB2 . CYS A 1 5 ? 1.188 1.686 -6.081 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 12
+ATOM 3997 H HB3 . CYS A 1 5 ? 2.578 0.664 -6.754 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 12
+ATOM 3998 N N . LEU A 1 6 ? 3.755 -1.334 -4.280 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 12
+ATOM 3999 C CA . LEU A 1 6 ? 4.867 -2.319 -4.259 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 12
+ATOM 4000 C C . LEU A 1 6 ? 4.399 -3.644 -3.574 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 12
+ATOM 4001 O O . LEU A 1 6 ? 3.540 -3.663 -2.686 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 12
+ATOM 4002 C CB . LEU A 1 6 ? 6.053 -1.612 -3.536 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 12
+ATOM 4003 C CG . LEU A 1 6 ? 7.487 -2.207 -3.330 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 12
+ATOM 4004 C CD1 . LEU A 1 6 ? 8.257 -2.535 -4.636 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 12
+ATOM 4005 C CD2 . LEU A 1 6 ? 8.346 -1.268 -2.442 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 12
+ATOM 4006 H H . LEU A 1 6 ? 3.717 -0.413 -3.835 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 12
+ATOM 4007 H HA . LEU A 1 6 ? 5.174 -2.483 -5.314 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 12
+ATOM 4008 H HB2 . LEU A 1 6 ? 6.202 -0.625 -4.014 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 12
+ATOM 4009 H HB3 . LEU A 1 6 ? 5.646 -1.438 -2.532 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 12
+ATOM 4010 H HG . LEU A 1 6 ? 7.371 -3.121 -2.734 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 12
+ATOM 4011 H HD11 . LEU A 1 6 ? 7.665 -3.225 -5.262 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 12
+ATOM 4012 H HD12 . LEU A 1 6 ? 8.442 -1.628 -5.242 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 12
+ATOM 4013 H HD13 . LEU A 1 6 ? 9.230 -3.025 -4.445 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 12
+ATOM 4014 H HD21 . LEU A 1 6 ? 7.850 -1.076 -1.470 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 12
+ATOM 4015 H HD22 . LEU A 1 6 ? 9.340 -1.688 -2.210 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 12
+ATOM 4016 H HD23 . LEU A 1 6 ? 8.487 -0.284 -2.927 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 12
+ATOM 4017 N N . TYR A 1 7 ? 4.922 -4.756 -4.099 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 12
+ATOM 4018 C CA . TYR A 1 7 ? 4.082 -5.912 -4.547 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 12
+ATOM 4019 C C . TYR A 1 7 ? 3.876 -7.086 -3.560 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 12
+ATOM 4020 O O . TYR A 1 7 ? 2.846 -7.767 -3.598 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 12
+ATOM 4021 C CB . TYR A 1 7 ? 4.463 -6.435 -5.967 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 12
+ATOM 4022 C CG . TYR A 1 7 ? 5.129 -5.435 -6.950 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 12
+ATOM 4023 C CD1 . TYR A 1 7 ? 4.361 -4.551 -7.699 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 12
+ATOM 4024 C CD2 . TYR A 1 7 ? 6.512 -5.281 -6.937 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 12
+ATOM 4025 C CE1 . TYR A 1 7 ? 4.970 -3.590 -8.482 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 12
+ATOM 4026 C CE2 . TYR A 1 7 ? 7.114 -4.321 -7.724 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 12
+ATOM 4027 C CZ . TYR A 1 7 ? 6.345 -3.482 -8.504 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 12
+ATOM 4028 O OH . TYR A 1 7 ? 6.944 -2.512 -9.264 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 12
+ATOM 4029 H H . TYR A 1 7 ? 5.634 -4.506 -4.767 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 12
+ATOM 4030 H HA . TYR A 1 7 ? 3.110 -5.555 -4.664 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 12
+ATOM 4031 H HB2 . TYR A 1 7 ? 5.083 -7.317 -5.837 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 12
+ATOM 4032 H HB3 . TYR A 1 7 ? 3.560 -6.840 -6.470 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 12
+ATOM 4033 H HD1 . TYR A 1 7 ? 3.282 -4.543 -7.629 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 12
+ATOM 4034 H HD2 . TYR A 1 7 ? 7.149 -5.850 -6.269 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 12
+ATOM 4035 H HE1 . TYR A 1 7 ? 4.366 -2.896 -9.046 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 12
+ATOM 4036 H HE2 . TYR A 1 7 ? 8.187 -4.200 -7.694 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 12
+ATOM 4037 H HH . TYR A 1 7 ? 6.266 -2.013 -9.725 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 12
+ATOM 4038 N N . GLY A 1 8 ? 4.901 -7.280 -2.745 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 12
+ATOM 4039 C CA . GLY A 1 8 ? 5.009 -8.329 -1.725 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 12
+ATOM 4040 C C . GLY A 1 8 ? 4.147 -8.183 -0.440 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 12
+ATOM 4041 O O . GLY A 1 8 ? 3.728 -9.238 0.049 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 12
+ATOM 4042 H H . GLY A 1 8 ? 5.483 -6.454 -2.840 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 12
+ATOM 4043 H HA2 . GLY A 1 8 ? 4.701 -9.276 -2.221 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 12
+ATOM 4044 H HA3 . GLY A 1 8 ? 6.102 -8.404 -1.483 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 12
+ATOM 4045 N N . LYS A 1 9 ? 3.892 -6.960 0.114 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 12
+ATOM 4046 C CA . LYS A 1 9 ? 3.091 -6.791 1.383 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 12
+ATOM 4047 C C . LYS A 1 9 ? 2.213 -5.512 1.186 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 12
+ATOM 4048 O O . LYS A 1 9 ? 2.770 -4.463 0.832 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 12
+ATOM 4049 C CB . LYS A 1 9 ? 4.060 -6.626 2.595 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 12
+ATOM 4050 C CG . LYS A 1 9 ? 3.428 -6.753 4.011 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 12
+ATOM 4051 C CD . LYS A 1 9 ? 4.387 -6.574 5.218 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 12
+ATOM 4052 C CE . LYS A 1 9 ? 5.218 -7.792 5.686 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 12
+ATOM 4053 N NZ . LYS A 1 9 ? 6.402 -8.034 4.839 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 12
+ATOM 4054 H H . LYS A 1 9 ? 4.225 -6.143 -0.451 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 12
+ATOM 4055 H HA . LYS A 1 9 ? 2.468 -7.711 1.600 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 12
+ATOM 4056 H HB2 . LYS A 1 9 ? 4.852 -7.398 2.536 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 12
+ATOM 4057 H HB3 . LYS A 1 9 ? 4.596 -5.662 2.517 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 12
+ATOM 4058 H HG2 . LYS A 1 9 ? 2.639 -5.981 4.081 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 12
+ATOM 4059 H HG3 . LYS A 1 9 ? 2.885 -7.713 4.085 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 12
+ATOM 4060 H HD2 . LYS A 1 9 ? 5.050 -5.701 5.067 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 12
+ATOM 4061 H HD3 . LYS A 1 9 ? 3.752 -6.286 6.076 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 12
+ATOM 4062 H HE2 . LYS A 1 9 ? 5.559 -7.618 6.723 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 12
+ATOM 4063 H HE3 . LYS A 1 9 ? 4.589 -8.700 5.722 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 12
+ATOM 4064 H HZ1 . LYS A 1 9 ? 7.029 -7.222 4.824 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 12
+ATOM 4065 H HZ2 . LYS A 1 9 ? 6.949 -8.835 5.175 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 12
+ATOM 4066 H HZ3 . LYS A 1 9 ? 6.138 -8.233 3.868 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 12
+ATOM 4067 N N . CYS A 1 10 ? 0.893 -5.577 1.508 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 12
+ATOM 4068 C CA . CYS A 1 10 ? -0.030 -4.428 1.327 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 12
+ATOM 4069 C C . CYS A 1 10 ? 0.180 -3.338 2.427 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 12
+ATOM 4070 O O . CYS A 1 10 ? 0.178 -3.691 3.613 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 12
+ATOM 4071 C CB . CYS A 1 10 ? -1.465 -4.977 1.392 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 12
+ATOM 4072 S SG . CYS A 1 10 ? -2.644 -3.651 1.082 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 12
+ATOM 4073 H H . CYS A 1 10 ? 0.487 -6.509 1.397 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 12
+ATOM 4074 H HA . CYS A 1 10 ? 0.055 -4.085 0.277 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 12
+ATOM 4075 H HB2 . CYS A 1 10 ? -1.659 -5.730 0.602 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 12
+ATOM 4076 H HB3 . CYS A 1 10 ? -1.645 -5.471 2.363 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 12
+ATOM 4077 N N . ARG A 1 11 ? 0.278 -2.050 2.031 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 12
+ATOM 4078 C CA . ARG A 1 11 ? 0.258 -0.902 2.929 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 12
+ATOM 4079 C C . ARG A 1 11 ? -0.933 -0.008 2.507 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 12
+ATOM 4080 O O . ARG A 1 11 ? -1.049 0.410 1.349 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 12
+ATOM 4081 C CB . ARG A 1 11 ? 1.598 -0.151 2.811 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 12
+ATOM 4082 C CG . ARG A 1 11 ? 2.195 0.398 1.468 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 12
+ATOM 4083 C CD . ARG A 1 11 ? 3.074 -0.580 0.663 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 12
+ATOM 4084 N NE . ARG A 1 11 ? 4.316 -0.804 1.440 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 12
+ATOM 4085 C CZ . ARG A 1 11 ? 5.138 -1.880 1.365 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 12
+ATOM 4086 N NH1 . ARG A 1 11 ? 5.198 -2.751 0.348 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 12
+ATOM 4087 N NH2 . ARG A 1 11 ? 5.967 -2.075 2.374 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 12
+ATOM 4088 H H . ARG A 1 11 ? 1.086 -1.753 1.484 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 12
+ATOM 4089 H HA . ARG A 1 11 ? 0.275 -1.228 3.995 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 12
+ATOM 4090 H HB2 . ARG A 1 11 ? 1.547 0.678 3.474 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 12
+ATOM 4091 H HB3 . ARG A 1 11 ? 2.351 -0.720 3.367 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 12
+ATOM 4092 H HG2 . ARG A 1 11 ? 1.335 0.693 0.846 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 12
+ATOM 4093 H HG3 . ARG A 1 11 ? 2.752 1.333 1.665 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 12
+ATOM 4094 H HD2 . ARG A 1 11 ? 2.547 -1.536 0.491 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 12
+ATOM 4095 H HD3 . ARG A 1 11 ? 3.322 -0.157 -0.327 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 12
+ATOM 4096 H HE . ARG A 1 11 ? 4.289 -0.281 2.328 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 12
+ATOM 4097 H HH11 . ARG A 1 11 ? 4.557 -2.586 -0.436 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 12
+ATOM 4098 H HH12 . ARG A 1 11 ? 5.881 -3.512 0.434 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 12
+ATOM 4099 H HH21 . ARG A 1 11 ? 5.920 -1.399 3.145 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 12
+ATOM 4100 H HH22 . ARG A 1 11 ? 6.591 -2.886 2.306 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 12
+ATOM 4101 N N . ARG A 1 12 ? -1.738 0.312 3.508 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 12
+ATOM 4102 C CA . ARG A 1 12 ? -2.638 1.473 3.565 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 12
+ATOM 4103 C C . ARG A 1 12 ? -2.014 2.475 4.595 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 12
+ATOM 4104 O O . ARG A 1 12 ? -2.365 2.434 5.780 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 12
+ATOM 4105 C CB . ARG A 1 12 ? -4.116 0.984 3.751 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 12
+ATOM 4106 C CG . ARG A 1 12 ? -4.567 0.432 5.123 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 12
+ATOM 4107 C CD . ARG A 1 12 ? -5.985 -0.164 5.221 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 12
+ATOM 4108 N NE . ARG A 1 12 ? -6.080 -1.549 4.673 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 12
+ATOM 4109 C CZ . ARG A 1 12 ? -6.481 -1.899 3.423 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 12
+ATOM 4110 N NH1 . ARG A 1 12 ? -6.864 -1.057 2.452 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 12
+ATOM 4111 N NH2 . ARG A 1 12 ? -6.493 -3.188 3.137 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 12
+ATOM 4112 H H . ARG A 1 12 ? -1.322 0.050 4.357 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 12
+ATOM 4113 H HA . ARG A 1 12 ? -2.563 1.916 2.597 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 12
+ATOM 4114 H HB2 . ARG A 1 12 ? -4.862 1.760 3.468 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 12
+ATOM 4115 H HB3 . ARG A 1 12 ? -4.231 0.160 3.027 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 12
+ATOM 4116 H HG2 . ARG A 1 12 ? -3.804 -0.302 5.436 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 12
+ATOM 4117 H HG3 . ARG A 1 12 ? -4.482 1.290 5.808 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 12
+ATOM 4118 H HD2 . ARG A 1 12 ? -6.280 -0.198 6.285 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 12
+ATOM 4119 H HD3 . ARG A 1 12 ? -6.725 0.496 4.731 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 12
+ATOM 4120 H HE . ARG A 1 12 ? -5.830 -2.353 5.259 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 12
+ATOM 4121 H HH11 . ARG A 1 12 ? -6.852 -0.057 2.680 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 12
+ATOM 4122 H HH12 . ARG A 1 12 ? -7.138 -1.481 1.559 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 12
+ATOM 4123 H HH21 . ARG A 1 12 ? -6.199 -3.826 3.884 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 12
+ATOM 4124 H HH22 . ARG A 1 12 ? -6.796 -3.445 2.191 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 12
+ATOM 4125 N N . TYR A 1 13 ? -1.046 3.309 4.144 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 12
+ATOM 4126 C CA . TYR A 1 13 ? -0.076 3.993 5.035 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 12
+ATOM 4127 C C . TYR A 1 13 ? -0.057 5.575 4.987 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 12
+ATOM 4128 O O . TYR A 1 13 ? -0.820 6.098 4.172 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 12
+ATOM 4129 C CB . TYR A 1 13 ? 1.378 3.403 4.706 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 12
+ATOM 4130 C CG . TYR A 1 13 ? 2.093 3.627 3.326 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 12
+ATOM 4131 C CD1 . TYR A 1 13 ? 1.463 3.719 2.090 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 12
+ATOM 4132 C CD2 . TYR A 1 13 ? 3.466 3.887 3.359 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 12
+ATOM 4133 C CE1 . TYR A 1 13 ? 2.129 4.248 1.005 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 12
+ATOM 4134 C CE2 . TYR A 1 13 ? 4.129 4.397 2.271 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 12
+ATOM 4135 C CZ . TYR A 1 13 ? 3.434 4.652 1.113 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 12
+ATOM 4136 O OH . TYR A 1 13 ? 3.980 5.376 0.090 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 12
+ATOM 4137 H H . TYR A 1 13 ? -0.787 3.152 3.164 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 12
+ATOM 4138 H HA . TYR A 1 13 ? -0.413 3.872 6.104 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 12
+ATOM 4139 H HB2 . TYR A 1 13 ? 2.088 3.847 5.406 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 12
+ATOM 4140 H HB3 . TYR A 1 13 ? 1.476 2.379 5.060 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 12
+ATOM 4141 H HD1 . TYR A 1 13 ? 0.442 3.414 1.957 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 12
+ATOM 4142 H HD2 . TYR A 1 13 ? 4.055 3.769 4.252 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 12
+ATOM 4143 H HE1 . TYR A 1 13 ? 1.644 4.365 0.057 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 12
+ATOM 4144 H HE2 . TYR A 1 13 ? 5.184 4.602 2.369 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 12
+ATOM 4145 H HH . TYR A 1 13 ? 4.881 5.612 0.320 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 12
+ATOM 4146 N N . HYP A 1 14 ? 0.732 6.392 5.811 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 12
+ATOM 4147 C CA . HYP A 1 14 ? 1.384 7.680 5.375 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 12
+ATOM 4148 C C . HYP A 1 14 ? 1.297 8.422 4.007 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 12
+ATOM 4149 O O . HYP A 1 14 ? 1.669 9.602 4.012 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 12
+ATOM 4150 C CB . HYP A 1 14 ? 2.857 7.259 5.592 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 12
+ATOM 4151 C CG . HYP A 1 14 ? 2.856 6.574 6.960 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 12
+ATOM 4152 C CD . HYP A 1 14 ? 1.476 5.914 7.038 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 12
+ATOM 4153 O OD1 . HYP A 1 14 ? 2.990 7.538 7.995 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 12
+ATOM 4154 H HA . HYP A 1 14 ? 1.064 8.471 6.086 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 12
+ATOM 4155 H HB2 . HYP A 1 14 ? 3.152 6.537 4.815 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 12
+ATOM 4156 H HB3 . HYP A 1 14 ? 3.594 8.075 5.501 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 12
+ATOM 4157 H HG . HYP A 1 14 ? 3.673 5.833 7.033 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 12
+ATOM 4158 H HD22 . HYP A 1 14 ? 1.555 4.785 7.050 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 12
+ATOM 4159 H HD23 . HYP A 1 14 ? 0.941 6.194 7.952 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 12
+ATOM 4160 H HD1 . HYP A 1 14 ? 2.935 7.050 8.820 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 12
+ATOM 4161 N N . GLY A 1 15 ? 0.883 7.806 2.889 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 12
+ATOM 4162 C CA . GLY A 1 15 ? 0.903 8.392 1.554 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 12
+ATOM 4163 C C . GLY A 1 15 ? 0.229 7.586 0.418 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 12
+ATOM 4164 O O . GLY A 1 15 ? 0.816 7.538 -0.667 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 12
+ATOM 4165 H H . GLY A 1 15 ? 0.400 6.929 2.954 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 12
+ATOM 4166 H HA2 . GLY A 1 15 ? 0.428 9.422 1.618 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 12
+ATOM 4167 H HA3 . GLY A 1 15 ? 2.002 8.302 1.351 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 12
+ATOM 4168 N N . CYS A 1 16 ? -0.962 6.986 0.649 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 12
+ATOM 4169 C CA . CYS A 1 16 ? -1.671 6.112 -0.340 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 12
+ATOM 4170 C C . CYS A 1 16 ? -3.130 6.568 -0.583 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 12
+ATOM 4171 O O . CYS A 1 16 ? -3.565 6.494 -1.726 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 12
+ATOM 4172 C CB . CYS A 1 16 ? -1.587 4.692 0.262 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 12
+ATOM 4173 S SG . CYS A 1 16 ? -2.313 3.482 -0.839 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 12
+ATOM 4174 H H . CYS A 1 16 ? -1.278 6.957 1.639 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 12
+ATOM 4175 H HA . CYS A 1 16 ? -1.183 6.082 -1.366 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 12
+ATOM 4176 H HB2 . CYS A 1 16 ? -0.523 4.449 0.322 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 12
+ATOM 4177 H HB3 . CYS A 1 16 ? -2.042 4.615 1.277 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 12
+ATOM 4178 N N . SER A 1 17 ? -3.895 7.037 0.425 1.00 0.00 ? ? ? ? ? ? 17 SER A N 12
+ATOM 4179 C CA . SER A 1 17 ? -5.058 6.247 0.943 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 12
+ATOM 4180 C C . SER A 1 17 ? -6.351 6.074 0.096 1.00 0.00 ? ? ? ? ? ? 17 SER A C 12
+ATOM 4181 O O . SER A 1 17 ? -7.253 5.305 0.453 1.00 0.00 ? ? ? ? ? ? 17 SER A O 12
+ATOM 4182 C CB . SER A 1 17 ? -5.430 6.824 2.322 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 12
+ATOM 4183 O OG . SER A 1 17 ? -5.913 8.154 2.186 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 12
+ATOM 4184 H H . SER A 1 17 ? -3.230 7.434 1.082 1.00 0.00 ? ? ? ? ? ? 17 SER A H 12
+ATOM 4185 H HA . SER A 1 17 ? -4.705 5.220 1.057 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 12
+ATOM 4186 H HB2 . SER A 1 17 ? -6.208 6.203 2.805 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 12
+ATOM 4187 H HB3 . SER A 1 17 ? -4.574 6.804 3.021 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 12
+ATOM 4188 H HG . SER A 1 17 ? -6.135 8.447 3.073 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 12
+ATOM 4189 N N . SER A 1 18 ? -6.325 6.714 -1.063 1.00 0.00 ? ? ? ? ? ? 18 SER A N 12
+ATOM 4190 C CA . SER A 1 18 ? -7.074 6.289 -2.286 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 12
+ATOM 4191 C C . SER A 1 18 ? -6.626 4.921 -2.918 1.00 0.00 ? ? ? ? ? ? 18 SER A C 12
+ATOM 4192 O O . SER A 1 18 ? -7.493 4.129 -3.302 1.00 0.00 ? ? ? ? ? ? 18 SER A O 12
+ATOM 4193 C CB . SER A 1 18 ? -6.945 7.434 -3.321 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 12
+ATOM 4194 O OG . SER A 1 18 ? -5.629 7.486 -3.859 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 12
+ATOM 4195 H H . SER A 1 18 ? -5.377 7.126 -1.053 1.00 0.00 ? ? ? ? ? ? 18 SER A H 12
+ATOM 4196 H HA . SER A 1 18 ? -8.146 6.209 -2.023 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 12
+ATOM 4197 H HB2 . SER A 1 18 ? -7.677 7.300 -4.138 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 12
+ATOM 4198 H HB3 . SER A 1 18 ? -7.151 8.401 -2.855 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 12
+ATOM 4199 H HG . SER A 1 18 ? -5.044 7.633 -3.113 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 12
+ATOM 4200 N N . ALA A 1 19 ? -5.288 4.698 -3.015 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 12
+ATOM 4201 C CA . ALA A 1 19 ? -4.679 3.661 -3.873 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 12
+ATOM 4202 C C . ALA A 1 19 ? -4.786 2.269 -3.191 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 12
+ATOM 4203 O O . ALA A 1 19 ? -3.889 1.788 -2.483 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 12
+ATOM 4204 C CB . ALA A 1 19 ? -3.220 4.026 -4.183 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 12
+ATOM 4205 H H . ALA A 1 19 ? -4.879 5.627 -2.893 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 12
+ATOM 4206 H HA . ALA A 1 19 ? -5.131 3.715 -4.883 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 12
+ATOM 4207 H HB1 . ALA A 1 19 ? -2.625 4.176 -3.272 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 12
+ATOM 4208 H HB2 . ALA A 1 19 ? -2.733 3.210 -4.752 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 12
+ATOM 4209 H HB3 . ALA A 1 19 ? -3.152 4.944 -4.787 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 12
+ATOM 4210 N N . SER A 1 20 ? -5.937 1.630 -3.457 1.00 0.00 ? ? ? ? ? ? 20 SER A N 12
+ATOM 4211 C CA . SER A 1 20 ? -6.189 0.163 -3.252 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 12
+ATOM 4212 C C . SER A 1 20 ? -4.950 -0.789 -3.394 1.00 0.00 ? ? ? ? ? ? 20 SER A C 12
+ATOM 4213 O O . SER A 1 20 ? -4.598 -1.485 -2.445 1.00 0.00 ? ? ? ? ? ? 20 SER A O 12
+ATOM 4214 C CB . SER A 1 20 ? -7.296 -0.239 -4.269 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 12
+ATOM 4215 O OG . SER A 1 20 ? -6.900 0.022 -5.611 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 12
+ATOM 4216 H H . SER A 1 20 ? -6.626 2.276 -3.841 1.00 0.00 ? ? ? ? ? ? 20 SER A H 12
+ATOM 4217 H HA . SER A 1 20 ? -6.592 -0.003 -2.232 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 12
+ATOM 4218 H HB2 . SER A 1 20 ? -7.515 -1.296 -4.162 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 12
+ATOM 4219 H HB3 . SER A 1 20 ? -8.244 0.227 -4.099 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 12
+ATOM 4220 H HG . SER A 1 20 ? -6.767 0.971 -5.668 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 12
+ATOM 4221 N N . CYS A 1 21 ? -4.314 -0.716 -4.581 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 12
+ATOM 4222 C CA . CYS A 1 21 ? -3.307 -1.664 -5.199 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 12
+ATOM 4223 C C . CYS A 1 21 ? -2.740 -2.850 -4.336 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 12
+ATOM 4224 O O . CYS A 1 21 ? -1.538 -3.012 -4.094 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 12
+ATOM 4225 C CB . CYS A 1 21 ? -2.280 -0.684 -5.813 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 12
+ATOM 4226 S SG . CYS A 1 21 ? -0.778 -1.513 -6.394 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 12
+ATOM 4227 H H . CYS A 1 21 ? -4.870 0.019 -5.038 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 12
+ATOM 4228 H HA . CYS A 1 21 ? -3.747 -2.183 -6.086 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 12
+ATOM 4229 H HB2 . CYS A 1 21 ? -2.733 -0.187 -6.695 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 12
+ATOM 4230 H HB3 . CYS A 1 21 ? -2.040 0.129 -5.099 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 12
+ATOM 4231 N N . CYS A 1 22 ? -3.724 -3.678 -3.926 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 12
+ATOM 4232 C CA . CYS A 1 22 ? -3.567 -4.831 -3.017 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 12
+ATOM 4233 C C . CYS A 1 22 ? -4.481 -6.065 -3.408 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 12
+ATOM 4234 O O . CYS A 1 22 ? -3.884 -7.124 -3.601 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 12
+ATOM 4235 C CB . CYS A 1 22 ? -3.908 -4.352 -1.602 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 12
+ATOM 4236 S SG . CYS A 1 22 ? -2.629 -3.322 -0.884 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 12
+ATOM 4237 H H . CYS A 1 22 ? -4.565 -3.067 -3.808 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 12
+ATOM 4238 H HA . CYS A 1 22 ? -2.531 -5.186 -3.027 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 12
+ATOM 4239 H HB2 . CYS A 1 22 ? -4.872 -3.764 -1.653 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 12
+ATOM 4240 H HB3 . CYS A 1 22 ? -4.052 -5.292 -1.041 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 12
+ATOM 4241 N N . GLN A 1 23 ? -5.826 -6.112 -3.637 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 12
+ATOM 4242 C CA . GLN A 1 23 ? -6.905 -5.290 -3.028 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 12
+ATOM 4243 C C . GLN A 1 23 ? -8.155 -6.165 -2.702 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 12
+ATOM 4244 O O . GLN A 1 23 ? -8.482 -7.086 -3.459 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 12
+ATOM 4245 C CB . GLN A 1 23 ? -7.251 -4.032 -3.929 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 12
+ATOM 4246 C CG . GLN A 1 23 ? -6.565 -3.615 -5.282 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 12
+ATOM 4247 C CD . GLN A 1 23 ? -7.431 -3.299 -6.522 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 12
+ATOM 4248 O OE1 . GLN A 1 23 ? -7.726 -2.144 -6.822 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 12
+ATOM 4249 N NE2 . GLN A 1 23 ? -7.849 -4.319 -7.254 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 12
+ATOM 4250 H H . GLN A 1 23 ? -5.821 -5.489 -4.430 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 12
+ATOM 4251 H HA . GLN A 1 23 ? -6.522 -4.946 -2.063 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 12
+ATOM 4252 H HB2 . GLN A 1 23 ? -8.229 -4.220 -4.373 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 12
+ATOM 4253 H HB3 . GLN A 1 23 ? -7.198 -3.144 -3.195 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 12
+ATOM 4254 H HG2 . GLN A 1 23 ? -5.979 -2.717 -5.052 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 12
+ATOM 4255 H HG3 . GLN A 1 23 ? -5.802 -4.363 -5.558 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 12
+ATOM 4256 H HE21 . GLN A 1 23 ? -7.566 -5.255 -6.943 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 12
+ATOM 4257 H HE22 . GLN A 1 23 ? -8.424 -4.091 -8.073 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 12
+ATOM 4258 N N . ARG A 1 24 ? -8.881 -5.851 -1.577 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 12
+ATOM 4259 C CA . ARG A 1 24 ? -10.135 -6.530 -1.092 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 12
+ATOM 4260 C C . ARG A 1 24 ? -9.983 -8.089 -1.026 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 12
+ATOM 4261 O O . ARG A 1 24 ? -9.951 -8.768 -2.052 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 12
+ATOM 4262 C CB . ARG A 1 24 ? -11.384 -6.072 -1.919 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 12
+ATOM 4263 C CG . ARG A 1 24 ? -12.784 -6.282 -1.277 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 12
+ATOM 4264 C CD . ARG A 1 24 ? -13.995 -5.842 -2.124 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 12
+ATOM 4265 N NE . ARG A 1 24 ? -14.365 -6.816 -3.192 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 12
+ATOM 4266 C CZ . ARG A 1 24 ? -15.177 -6.576 -4.254 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 12
+ATOM 4267 N NH1 . ARG A 1 24 ? -15.792 -5.417 -4.532 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 12
+ATOM 4268 N NH2 . ARG A 1 24 ? -15.379 -7.577 -5.090 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 12
+ATOM 4269 H H . ARG A 1 24 ? -8.576 -5.006 -1.074 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 12
+ATOM 4270 H HA . ARG A 1 24 ? -10.274 -6.144 -0.061 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 12
+ATOM 4271 H HB2 . ARG A 1 24 ? -11.295 -4.990 -2.142 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 12
+ATOM 4272 H HB3 . ARG A 1 24 ? -11.352 -6.570 -2.904 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 12
+ATOM 4273 H HG2 . ARG A 1 24 ? -12.901 -7.343 -0.988 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 12
+ATOM 4274 H HG3 . ARG A 1 24 ? -12.806 -5.720 -0.326 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 12
+ATOM 4275 H HD2 . ARG A 1 24 ? -14.867 -5.727 -1.455 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 12
+ATOM 4276 H HD3 . ARG A 1 24 ? -13.833 -4.842 -2.567 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 12
+ATOM 4277 H HE . ARG A 1 24 ? -13.997 -7.774 -3.169 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 12
+ATOM 4278 H HH11 . ARG A 1 24 ? -15.631 -4.643 -3.879 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 12
+ATOM 4279 H HH12 . ARG A 1 24 ? -16.375 -5.398 -5.377 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 12
+ATOM 4280 H HH21 . ARG A 1 24 ? -14.905 -8.461 -4.872 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 12
+ATOM 4281 H HH22 . ARG A 1 24 ? -15.993 -7.390 -5.891 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 12
+ATOM 4282 N N . NH2 A 1 25 ? -9.874 -8.672 0.159 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 12
+ATOM 4283 H HN1 . NH2 A 1 25 ? -9.902 -8.055 0.979 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 12
+ATOM 4284 H HN2 . NH2 A 1 25 ? -9.771 -9.692 0.162 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 12
+ATOM 4285 N N . HIS A 1 1 ? 8.206 4.725 5.150 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 13
+ATOM 4286 C CA . HIS A 1 1 ? 7.747 3.421 4.599 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 13
+ATOM 4287 C C . HIS A 1 1 ? 7.842 3.362 3.005 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 13
+ATOM 4288 O O . HIS A 1 1 ? 8.194 4.424 2.469 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 13
+ATOM 4289 C CB . HIS A 1 1 ? 6.280 3.173 5.116 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 13
+ATOM 4290 C CG . HIS A 1 1 ? 6.064 2.729 6.574 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 13
+ATOM 4291 N ND1 . HIS A 1 1 ? 4.918 3.082 7.276 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 13
+ATOM 4292 C CD2 . HIS A 1 1 ? 6.794 1.772 7.326 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 13
+ATOM 4293 C CE1 . HIS A 1 1 ? 5.069 2.317 8.402 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 13
+ATOM 4294 N NE2 . HIS A 1 1 ? 6.171 1.518 8.534 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 13
+ATOM 4295 H H1 . HIS A 1 1 ? 9.170 4.936 4.867 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 13
+ATOM 4296 H H2 . HIS A 1 1 ? 7.618 5.500 4.825 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 13
+ATOM 4297 H H3 . HIS A 1 1 ? 8.181 4.732 6.175 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 13
+ATOM 4298 H HA . HIS A 1 1 ? 8.487 2.700 5.017 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 13
+ATOM 4299 H HB2 . HIS A 1 1 ? 5.701 4.105 4.945 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 13
+ATOM 4300 H HB3 . HIS A 1 1 ? 5.731 2.425 4.488 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 13
+ATOM 4301 H HD1 . HIS A 1 1 ? 4.086 3.584 6.943 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 13
+ATOM 4302 H HD2 . HIS A 1 1 ? 7.683 1.266 6.980 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 13
+ATOM 4303 H HE1 . HIS A 1 1 ? 4.293 2.300 9.153 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 13
+ATOM 4304 H HE2 . HIS A 1 1 ? 6.403 0.834 9.263 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 13
+ATOM 4305 N N . HYP A 1 2 ? 7.595 2.273 2.156 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 13
+ATOM 4306 C CA . HYP A 1 2 ? 7.888 2.308 0.687 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 13
+ATOM 4307 C C . HYP A 1 2 ? 7.018 3.342 -0.173 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 13
+ATOM 4308 O O . HYP A 1 2 ? 6.469 4.242 0.462 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 13
+ATOM 4309 C CB . HYP A 1 2 ? 7.656 0.848 0.231 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 13
+ATOM 4310 C CG . HYP A 1 2 ? 7.647 -0.001 1.472 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 13
+ATOM 4311 C CD . HYP A 1 2 ? 7.097 0.917 2.535 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 13
+ATOM 4312 O OD1 . HYP A 1 2 ? 8.970 -0.395 1.807 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 13
+ATOM 4313 H HA . HYP A 1 2 ? 8.954 2.565 0.553 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 13
+ATOM 4314 H HB2 . HYP A 1 2 ? 6.717 0.829 -0.382 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 13
+ATOM 4315 H HB3 . HYP A 1 2 ? 8.432 0.510 -0.469 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 13
+ATOM 4316 H HG . HYP A 1 2 ? 7.016 -0.877 1.323 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 13
+ATOM 4317 H HD22 . HYP A 1 2 ? 5.987 0.906 2.517 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 13
+ATOM 4318 H HD23 . HYP A 1 2 ? 7.447 0.563 3.520 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 13
+ATOM 4319 H HD1 . HYP A 1 2 ? 8.899 -0.894 2.623 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 13
+ATOM 4320 N N . HYP A 1 3 ? 6.798 3.241 -1.548 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 13
+ATOM 4321 C CA . HYP A 1 3 ? 5.451 3.392 -2.181 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 13
+ATOM 4322 C C . HYP A 1 3 ? 4.224 2.583 -1.600 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 13
+ATOM 4323 O O . HYP A 1 3 ? 4.469 1.607 -0.883 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 13
+ATOM 4324 C CB . HYP A 1 3 ? 5.788 2.844 -3.577 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 13
+ATOM 4325 C CG . HYP A 1 3 ? 7.295 3.214 -3.909 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 13
+ATOM 4326 C CD . HYP A 1 3 ? 7.877 2.863 -2.517 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 13
+ATOM 4327 O OD1 . HYP A 1 3 ? 7.416 4.618 -4.115 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 13
+ATOM 4328 H HA . HYP A 1 3 ? 5.192 4.465 -2.240 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 13
+ATOM 4329 H HB2 . HYP A 1 3 ? 5.527 1.754 -3.487 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 13
+ATOM 4330 H HB3 . HYP A 1 3 ? 5.028 3.260 -4.240 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 13
+ATOM 4331 H HG . HYP A 1 3 ? 7.834 2.742 -4.835 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 13
+ATOM 4332 H HD22 . HYP A 1 3 ? 8.041 1.752 -2.465 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 13
+ATOM 4333 H HD23 . HYP A 1 3 ? 8.803 3.372 -2.120 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 13
+ATOM 4334 H HD1 . HYP A 1 3 ? 7.006 5.033 -3.353 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 13
+ATOM 4335 N N . CYS A 1 4 ? 2.958 2.942 -1.974 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 13
+ATOM 4336 C CA . CYS A 1 4 ? 1.732 2.123 -1.622 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 13
+ATOM 4337 C C . CYS A 1 4 ? 1.678 0.683 -2.254 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 13
+ATOM 4338 O O . CYS A 1 4 ? 1.149 -0.227 -1.608 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 13
+ATOM 4339 C CB . CYS A 1 4 ? 0.474 2.916 -2.087 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 13
+ATOM 4340 S SG . CYS A 1 4 ? -0.953 2.194 -1.245 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 13
+ATOM 4341 H H . CYS A 1 4 ? 2.916 3.938 -2.236 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 13
+ATOM 4342 H HA . CYS A 1 4 ? 1.583 2.043 -0.510 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 13
+ATOM 4343 H HB2 . CYS A 1 4 ? 0.507 4.005 -1.783 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 13
+ATOM 4344 H HB3 . CYS A 1 4 ? 0.331 2.817 -3.200 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 13
+ATOM 4345 N N . CYS A 1 5 ? 2.155 0.522 -3.510 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 13
+ATOM 4346 C CA . CYS A 1 5 ? 1.881 -0.739 -4.329 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 13
+ATOM 4347 C C . CYS A 1 5 ? 2.964 -1.816 -4.576 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 13
+ATOM 4348 O O . CYS A 1 5 ? 2.686 -2.895 -5.116 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 13
+ATOM 4349 C CB . CYS A 1 5 ? 1.345 -0.258 -5.687 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 13
+ATOM 4350 S SG . CYS A 1 5 ? 0.198 -1.508 -6.278 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 13
+ATOM 4351 H H . CYS A 1 5 ? 2.414 1.486 -3.859 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 13
+ATOM 4352 H HA . CYS A 1 5 ? 1.182 -1.429 -3.835 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 13
+ATOM 4353 H HB2 . CYS A 1 5 ? 0.804 0.730 -5.597 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 13
+ATOM 4354 H HB3 . CYS A 1 5 ? 2.193 -0.185 -6.412 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 13
+ATOM 4355 N N . LEU A 1 6 ? 4.152 -1.474 -4.148 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 13
+ATOM 4356 C CA . LEU A 1 6 ? 5.404 -2.193 -4.395 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 13
+ATOM 4357 C C . LEU A 1 6 ? 5.689 -3.151 -3.194 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 13
+ATOM 4358 O O . LEU A 1 6 ? 5.047 -3.136 -2.137 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 13
+ATOM 4359 C CB . LEU A 1 6 ? 6.479 -1.069 -4.663 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 13
+ATOM 4360 C CG . LEU A 1 6 ? 7.700 -1.313 -5.622 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 13
+ATOM 4361 C CD1 . LEU A 1 6 ? 8.696 -2.439 -5.337 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 13
+ATOM 4362 C CD2 . LEU A 1 6 ? 7.381 -1.239 -7.143 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 13
+ATOM 4363 H H . LEU A 1 6 ? 4.065 -0.543 -3.766 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 13
+ATOM 4364 H HA . LEU A 1 6 ? 5.320 -2.806 -5.310 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 13
+ATOM 4365 H HB2 . LEU A 1 6 ? 6.038 -0.144 -5.071 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 13
+ATOM 4366 H HB3 . LEU A 1 6 ? 6.784 -0.705 -3.662 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 13
+ATOM 4367 H HG . LEU A 1 6 ? 8.327 -0.466 -5.379 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 13
+ATOM 4368 H HD11 . LEU A 1 6 ? 8.932 -2.440 -4.261 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 13
+ATOM 4369 H HD12 . LEU A 1 6 ? 8.232 -3.417 -5.564 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 13
+ATOM 4370 H HD13 . LEU A 1 6 ? 9.635 -2.327 -5.900 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 13
+ATOM 4371 H HD21 . LEU A 1 6 ? 6.748 -0.364 -7.383 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 13
+ATOM 4372 H HD22 . LEU A 1 6 ? 8.289 -1.145 -7.771 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 13
+ATOM 4373 H HD23 . LEU A 1 6 ? 6.836 -2.140 -7.479 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 13
+ATOM 4374 N N . TYR A 1 7 ? 6.706 -4.006 -3.419 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 13
+ATOM 4375 C CA . TYR A 1 7 ? 7.362 -4.977 -2.455 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 13
+ATOM 4376 C C . TYR A 1 7 ? 6.561 -6.271 -2.120 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 13
+ATOM 4377 O O . TYR A 1 7 ? 7.090 -7.218 -1.527 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 13
+ATOM 4378 C CB . TYR A 1 7 ? 7.905 -4.308 -1.185 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 13
+ATOM 4379 C CG . TYR A 1 7 ? 9.148 -3.404 -1.375 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 13
+ATOM 4380 C CD1 . TYR A 1 7 ? 10.432 -3.940 -1.370 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 13
+ATOM 4381 C CD2 . TYR A 1 7 ? 8.992 -2.037 -1.581 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 13
+ATOM 4382 C CE1 . TYR A 1 7 ? 11.533 -3.128 -1.557 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 13
+ATOM 4383 C CE2 . TYR A 1 7 ? 10.099 -1.232 -1.778 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 13
+ATOM 4384 C CZ . TYR A 1 7 ? 11.366 -1.775 -1.760 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 13
+ATOM 4385 O OH . TYR A 1 7 ? 12.459 -0.972 -1.958 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 13
+ATOM 4386 H H . TYR A 1 7 ? 7.178 -3.633 -4.242 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 13
+ATOM 4387 H HA . TYR A 1 7 ? 8.231 -5.362 -2.925 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 13
+ATOM 4388 H HB2 . TYR A 1 7 ? 7.025 -3.767 -0.882 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 13
+ATOM 4389 H HB3 . TYR A 1 7 ? 8.162 -5.078 -0.437 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 13
+ATOM 4390 H HD1 . TYR A 1 7 ? 10.593 -5.001 -1.249 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 13
+ATOM 4391 H HD2 . TYR A 1 7 ? 8.014 -1.569 -1.632 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 13
+ATOM 4392 H HE1 . TYR A 1 7 ? 12.525 -3.555 -1.557 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 13
+ATOM 4393 H HE2 . TYR A 1 7 ? 9.973 -0.175 -1.958 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 13
+ATOM 4394 H HH . TYR A 1 7 ? 12.163 -0.068 -2.087 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 13
+ATOM 4395 N N . GLY A 1 8 ? 5.324 -6.260 -2.583 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 13
+ATOM 4396 C CA . GLY A 1 8 ? 4.394 -7.401 -2.632 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 13
+ATOM 4397 C C . GLY A 1 8 ? 3.465 -7.635 -1.411 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 13
+ATOM 4398 O O . GLY A 1 8 ? 2.936 -8.748 -1.323 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 13
+ATOM 4399 H H . GLY A 1 8 ? 5.242 -5.363 -3.066 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 13
+ATOM 4400 H HA2 . GLY A 1 8 ? 3.765 -7.228 -3.544 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 13
+ATOM 4401 H HA3 . GLY A 1 8 ? 4.994 -8.326 -2.789 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 13
+ATOM 4402 N N . LYS A 1 9 ? 3.257 -6.639 -0.509 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 13
+ATOM 4403 C CA . LYS A 1 9 ? 2.360 -6.785 0.693 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 13
+ATOM 4404 C C . LYS A 1 9 ? 1.535 -5.459 0.776 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 13
+ATOM 4405 O O . LYS A 1 9 ? 2.152 -4.386 0.791 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 13
+ATOM 4406 C CB . LYS A 1 9 ? 3.239 -7.005 1.961 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 13
+ATOM 4407 C CG . LYS A 1 9 ? 2.497 -7.467 3.249 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 13
+ATOM 4408 C CD . LYS A 1 9 ? 3.359 -7.721 4.516 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 13
+ATOM 4409 C CE . LYS A 1 9 ? 3.785 -6.504 5.374 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 13
+ATOM 4410 N NZ . LYS A 1 9 ? 2.700 -5.953 6.212 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 13
+ATOM 4411 H H . LYS A 1 9 ? 3.837 -5.792 -0.715 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 13
+ATOM 4412 H HA . LYS A 1 9 ? 1.700 -7.697 0.599 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 13
+ATOM 4413 H HB2 . LYS A 1 9 ? 4.008 -7.773 1.748 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 13
+ATOM 4414 H HB3 . LYS A 1 9 ? 3.808 -6.082 2.178 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 13
+ATOM 4415 H HG2 . LYS A 1 9 ? 1.691 -6.745 3.480 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 13
+ATOM 4416 H HG3 . LYS A 1 9 ? 1.966 -8.405 3.002 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 13
+ATOM 4417 H HD2 . LYS A 1 9 ? 2.805 -8.422 5.167 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 13
+ATOM 4418 H HD3 . LYS A 1 9 ? 4.268 -8.285 4.233 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 13
+ATOM 4419 H HE2 . LYS A 1 9 ? 4.616 -6.807 6.036 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 13
+ATOM 4420 H HE3 . LYS A 1 9 ? 4.191 -5.709 4.723 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 13
+ATOM 4421 H HZ1 . LYS A 1 9 ? 2.331 -6.655 6.863 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 13
+ATOM 4422 H HZ2 . LYS A 1 9 ? 3.022 -5.158 6.774 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 13
+ATOM 4423 H HZ3 . LYS A 1 9 ? 1.913 -5.624 5.643 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 13
+ATOM 4424 N N . CYS A 1 10 ? 0.181 -5.524 0.886 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 13
+ATOM 4425 C CA . CYS A 1 10 ? -0.687 -4.332 0.716 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 13
+ATOM 4426 C C . CYS A 1 10 ? -0.606 -3.352 1.942 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 13
+ATOM 4427 O O . CYS A 1 10 ? -1.041 -3.718 3.042 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 13
+ATOM 4428 C CB . CYS A 1 10 ? -2.121 -4.843 0.490 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 13
+ATOM 4429 S SG . CYS A 1 10 ? -3.179 -3.448 0.089 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 13
+ATOM 4430 H H . CYS A 1 10 ? -0.225 -6.422 0.615 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 13
+ATOM 4431 H HA . CYS A 1 10 ? -0.457 -3.885 -0.272 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 13
+ATOM 4432 H HB2 . CYS A 1 10 ? -2.212 -5.522 -0.384 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 13
+ATOM 4433 H HB3 . CYS A 1 10 ? -2.466 -5.407 1.373 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 13
+ATOM 4434 N N . ARG A 1 11 ? -0.088 -2.122 1.727 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 13
+ATOM 4435 C CA . ARG A 1 11 ? -0.055 -1.033 2.695 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 13
+ATOM 4436 C C . ARG A 1 11 ? -1.126 0.004 2.282 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 13
+ATOM 4437 O O . ARG A 1 11 ? -1.169 0.480 1.143 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 13
+ATOM 4438 C CB . ARG A 1 11 ? 1.355 -0.406 2.681 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 13
+ATOM 4439 C CG . ARG A 1 11 ? 2.116 0.018 1.374 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 13
+ATOM 4440 C CD . ARG A 1 11 ? 2.990 -1.065 0.708 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 13
+ATOM 4441 N NE . ARG A 1 11 ? 4.129 -1.336 1.617 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 13
+ATOM 4442 C CZ . ARG A 1 11 ? 4.854 -2.478 1.700 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 13
+ATOM 4443 N NH1 . ARG A 1 11 ? 4.914 -3.438 0.768 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 13
+ATOM 4444 N NH2 . ARG A 1 11 ? 5.583 -2.650 2.787 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 13
+ATOM 4445 H H . ARG A 1 11 ? 0.840 -1.983 1.328 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 13
+ATOM 4446 H HA . ARG A 1 11 ? -0.115 -1.421 3.739 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 13
+ATOM 4447 H HB2 . ARG A 1 11 ? 1.332 0.437 3.327 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 13
+ATOM 4448 H HB3 . ARG A 1 11 ? 2.007 -1.015 3.313 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 13
+ATOM 4449 H HG2 . ARG A 1 11 ? 1.338 0.333 0.668 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 13
+ATOM 4450 H HG3 . ARG A 1 11 ? 2.724 0.917 1.549 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 13
+ATOM 4451 H HD2 . ARG A 1 11 ? 2.407 -1.984 0.527 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 13
+ATOM 4452 H HD3 . ARG A 1 11 ? 3.365 -0.715 -0.271 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 13
+ATOM 4453 H HE . ARG A 1 11 ? 4.069 -0.750 2.463 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 13
+ATOM 4454 H HH11 . ARG A 1 11 ? 4.352 -3.293 -0.078 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 13
+ATOM 4455 H HH12 . ARG A 1 11 ? 5.517 -4.242 0.974 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 13
+ATOM 4456 H HH21 . ARG A 1 11 ? 5.538 -1.907 3.493 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 13
+ATOM 4457 H HH22 . ARG A 1 11 ? 6.136 -3.513 2.838 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 13
+ATOM 4458 N N . ARG A 1 12 ? -1.907 0.368 3.288 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 13
+ATOM 4459 C CA . ARG A 1 12 ? -2.748 1.570 3.369 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 13
+ATOM 4460 C C . ARG A 1 12 ? -2.135 2.479 4.487 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 13
+ATOM 4461 O O . ARG A 1 12 ? -2.515 2.351 5.657 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 13
+ATOM 4462 C CB . ARG A 1 12 ? -4.259 1.159 3.454 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 13
+ATOM 4463 C CG . ARG A 1 12 ? -4.806 0.538 4.761 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 13
+ATOM 4464 C CD . ARG A 1 12 ? -6.256 0.016 4.749 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 13
+ATOM 4465 N NE . ARG A 1 12 ? -7.275 1.098 4.868 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 13
+ATOM 4466 C CZ . ARG A 1 12 ? -8.619 0.957 4.728 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 13
+ATOM 4467 N NH1 . ARG A 1 12 ? -9.270 -0.184 4.456 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 13
+ATOM 4468 N NH2 . ARG A 1 12 ? -9.353 2.044 4.872 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 13
+ATOM 4469 H H . ARG A 1 12 ? -1.584 -0.021 4.126 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 13
+ATOM 4470 H HA . ARG A 1 12 ? -2.599 2.051 2.429 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 13
+ATOM 4471 H HB2 . ARG A 1 12 ? -4.942 1.999 3.201 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 13
+ATOM 4472 H HB3 . ARG A 1 12 ? -4.388 0.400 2.665 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 13
+ATOM 4473 H HG2 . ARG A 1 12 ? -4.115 -0.290 4.995 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 13
+ATOM 4474 H HG3 . ARG A 1 12 ? -4.670 1.297 5.548 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 13
+ATOM 4475 H HD2 . ARG A 1 12 ? -6.451 -0.586 3.843 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 13
+ATOM 4476 H HD3 . ARG A 1 12 ? -6.391 -0.676 5.600 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 13
+ATOM 4477 H HE . ARG A 1 12 ? -6.987 2.060 5.075 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 13
+ATOM 4478 H HH11 . ARG A 1 12 ? -8.695 -1.026 4.344 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 13
+ATOM 4479 H HH12 . ARG A 1 12 ? -10.291 -0.123 4.381 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 13
+ATOM 4480 H HH21 . ARG A 1 12 ? -8.849 2.914 5.080 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 13
+ATOM 4481 H HH22 . ARG A 1 12 ? -10.367 1.932 4.765 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 13
+ATOM 4482 N N . TYR A 1 13 ? -1.149 3.330 4.123 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 13
+ATOM 4483 C CA . TYR A 1 13 ? -0.183 3.931 5.082 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 13
+ATOM 4484 C C . TYR A 1 13 ? -0.116 5.519 5.133 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 13
+ATOM 4485 O O . TYR A 1 13 ? -0.882 6.119 4.373 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 13
+ATOM 4486 C CB . TYR A 1 13 ? 1.270 3.359 4.683 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 13
+ATOM 4487 C CG . TYR A 1 13 ? 1.906 3.502 3.264 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 13
+ATOM 4488 C CD1 . TYR A 1 13 ? 1.363 4.300 2.266 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 13
+ATOM 4489 C CD2 . TYR A 1 13 ? 3.204 3.026 3.084 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 13
+ATOM 4490 C CE1 . TYR A 1 13 ? 2.109 4.678 1.183 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 13
+ATOM 4491 C CE2 . TYR A 1 13 ? 3.963 3.430 2.004 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 13
+ATOM 4492 C CZ . TYR A 1 13 ? 3.422 4.317 1.090 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 13
+ATOM 4493 O OH . TYR A 1 13 ? 4.141 4.921 0.102 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 13
+ATOM 4494 H H . TYR A 1 13 ? -0.832 3.204 3.155 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 13
+ATOM 4495 H HA . TYR A 1 13 ? -0.534 3.732 6.135 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 13
+ATOM 4496 H HB2 . TYR A 1 13 ? 2.032 3.878 5.274 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 13
+ATOM 4497 H HB3 . TYR A 1 13 ? 1.419 2.349 5.070 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 13
+ATOM 4498 H HD1 . TYR A 1 13 ? 0.364 4.693 2.352 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 13
+ATOM 4499 H HD2 . TYR A 1 13 ? 3.674 2.350 3.782 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 13
+ATOM 4500 H HE1 . TYR A 1 13 ? 1.685 5.281 0.406 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 13
+ATOM 4501 H HE2 . TYR A 1 13 ? 4.972 3.041 1.917 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 13
+ATOM 4502 H HH . TYR A 1 13 ? 3.563 5.507 -0.392 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 13
+ATOM 4503 N N . HYP A 1 14 ? 0.737 6.266 5.965 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 13
+ATOM 4504 C CA . HYP A 1 14 ? 1.487 7.499 5.523 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 13
+ATOM 4505 C C . HYP A 1 14 ? 1.406 8.287 4.182 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 13
+ATOM 4506 O O . HYP A 1 14 ? 1.854 9.440 4.218 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 13
+ATOM 4507 C CB . HYP A 1 14 ? 2.928 6.949 5.671 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 13
+ATOM 4508 C CG . HYP A 1 14 ? 2.918 6.272 7.045 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 13
+ATOM 4509 C CD . HYP A 1 14 ? 1.498 5.703 7.149 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 13
+ATOM 4510 O OD1 . HYP A 1 14 ? 3.142 7.223 8.077 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 13
+ATOM 4511 H HA . HYP A 1 14 ? 1.268 8.298 6.262 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 13
+ATOM 4512 H HB2 . HYP A 1 14 ? 3.133 6.199 4.892 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 13
+ATOM 4513 H HB3 . HYP A 1 14 ? 3.729 7.693 5.531 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 13
+ATOM 4514 H HG . HYP A 1 14 ? 3.685 5.480 7.099 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 13
+ATOM 4515 H HD22 . HYP A 1 14 ? 1.528 4.575 7.109 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 13
+ATOM 4516 H HD23 . HYP A 1 14 ? 1.011 5.971 8.089 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 13
+ATOM 4517 H HD1 . HYP A 1 14 ? 2.454 7.886 7.980 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 13
+ATOM 4518 N N . GLY A 1 15 ? 0.932 7.741 3.049 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 13
+ATOM 4519 C CA . GLY A 1 15 ? 1.011 8.370 1.733 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 13
+ATOM 4520 C C . GLY A 1 15 ? 0.357 7.646 0.534 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 13
+ATOM 4521 O O . GLY A 1 15 ? 0.949 7.697 -0.549 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 13
+ATOM 4522 H H . GLY A 1 15 ? 0.438 6.870 3.074 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 13
+ATOM 4523 H HA2 . GLY A 1 15 ? 0.562 9.407 1.828 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 13
+ATOM 4524 H HA3 . GLY A 1 15 ? 2.112 8.256 1.552 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 13
+ATOM 4525 N N . CYS A 1 16 ? -0.813 7.003 0.714 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 13
+ATOM 4526 C CA . CYS A 1 16 ? -1.508 6.205 -0.343 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 13
+ATOM 4527 C C . CYS A 1 16 ? -2.922 6.753 -0.642 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 13
+ATOM 4528 O O . CYS A 1 16 ? -3.305 6.739 -1.806 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 13
+ATOM 4529 C CB . CYS A 1 16 ? -1.519 4.766 0.215 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 13
+ATOM 4530 S SG . CYS A 1 16 ? -2.293 3.631 -0.927 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 13
+ATOM 4531 H H . CYS A 1 16 ? -1.165 6.947 1.690 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 13
+ATOM 4532 H HA . CYS A 1 16 ? -0.969 6.185 -1.343 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 13
+ATOM 4533 H HB2 . CYS A 1 16 ? -0.472 4.447 0.283 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 13
+ATOM 4534 H HB3 . CYS A 1 16 ? -2.005 4.677 1.217 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 13
+ATOM 4535 N N . SER A 1 17 ? -3.706 7.231 0.346 1.00 0.00 ? ? ? ? ? ? 17 SER A N 13
+ATOM 4536 C CA . SER A 1 17 ? -4.921 6.479 0.794 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 13
+ATOM 4537 C C . SER A 1 17 ? -6.199 6.478 -0.100 1.00 0.00 ? ? ? ? ? ? 17 SER A C 13
+ATOM 4538 O O . SER A 1 17 ? -7.193 5.809 0.209 1.00 0.00 ? ? ? ? ? ? 17 SER A O 13
+ATOM 4539 C CB . SER A 1 17 ? -5.258 6.969 2.221 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 13
+ATOM 4540 O OG . SER A 1 17 ? -6.348 6.239 2.775 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 13
+ATOM 4541 H H . SER A 1 17 ? -3.042 7.566 1.036 1.00 0.00 ? ? ? ? ? ? 17 SER A H 13
+ATOM 4542 H HA . SER A 1 17 ? -4.633 5.424 0.832 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 13
+ATOM 4543 H HB2 . SER A 1 17 ? -4.401 6.855 2.911 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 13
+ATOM 4544 H HB3 . SER A 1 17 ? -5.508 8.045 2.203 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 13
+ATOM 4545 H HG . SER A 1 17 ? -6.066 5.321 2.800 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 13
+ATOM 4546 N N . SER A 1 18 ? -6.066 7.133 -1.246 1.00 0.00 ? ? ? ? ? ? 18 SER A N 13
+ATOM 4547 C CA . SER A 1 18 ? -6.782 6.787 -2.510 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 13
+ATOM 4548 C C . SER A 1 18 ? -6.412 5.391 -3.128 1.00 0.00 ? ? ? ? ? ? 18 SER A C 13
+ATOM 4549 O O . SER A 1 18 ? -7.326 4.672 -3.545 1.00 0.00 ? ? ? ? ? ? 18 SER A O 13
+ATOM 4550 C CB . SER A 1 18 ? -6.500 7.923 -3.523 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 13
+ATOM 4551 O OG . SER A 1 18 ? -5.155 7.871 -3.985 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 13
+ATOM 4552 H H . SER A 1 18 ? -5.087 7.459 -1.201 1.00 0.00 ? ? ? ? ? ? 18 SER A H 13
+ATOM 4553 H HA . SER A 1 18 ? -7.870 6.797 -2.308 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 13
+ATOM 4554 H HB2 . SER A 1 18 ? -7.191 7.855 -4.383 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 13
+ATOM 4555 H HB3 . SER A 1 18 ? -6.653 8.901 -3.060 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 13
+ATOM 4556 H HG . SER A 1 18 ? -5.054 7.015 -4.409 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 13
+ATOM 4557 N N . ALA A 1 19 ? -5.091 5.056 -3.173 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 13
+ATOM 4558 C CA . ALA A 1 19 ? -4.554 3.947 -3.996 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 13
+ATOM 4559 C C . ALA A 1 19 ? -4.821 2.590 -3.293 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 13
+ATOM 4560 O O . ALA A 1 19 ? -4.001 2.021 -2.558 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 13
+ATOM 4561 C CB . ALA A 1 19 ? -3.052 4.117 -4.296 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 13
+ATOM 4562 H H . ALA A 1 19 ? -4.613 5.955 -3.053 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 13
+ATOM 4563 H HA . ALA A 1 19 ? -4.988 4.023 -5.012 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 13
+ATOM 4564 H HB1 . ALA A 1 19 ? -2.438 4.170 -3.387 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 13
+ATOM 4565 H HB2 . ALA A 1 19 ? -2.674 3.243 -4.864 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 13
+ATOM 4566 H HB3 . ALA A 1 19 ? -2.847 5.014 -4.898 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 13
+ATOM 4567 N N . SER A 1 20 ? -6.013 2.060 -3.611 1.00 0.00 ? ? ? ? ? ? 20 SER A N 13
+ATOM 4568 C CA . SER A 1 20 ? -6.360 0.608 -3.486 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 13
+ATOM 4569 C C . SER A 1 20 ? -5.191 -0.373 -3.863 1.00 0.00 ? ? ? ? ? ? 20 SER A C 13
+ATOM 4570 O O . SER A 1 20 ? -4.717 -1.129 -3.016 1.00 0.00 ? ? ? ? ? ? 20 SER A O 13
+ATOM 4571 C CB . SER A 1 20 ? -7.614 0.378 -4.377 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 13
+ATOM 4572 O OG . SER A 1 20 ? -7.379 0.729 -5.737 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 13
+ATOM 4573 H H . SER A 1 20 ? -6.673 2.788 -3.890 1.00 0.00 ? ? ? ? ? ? 20 SER A H 13
+ATOM 4574 H HA . SER A 1 20 ? -6.667 0.387 -2.444 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 13
+ATOM 4575 H HB2 . SER A 1 20 ? -7.885 -0.672 -4.338 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 13
+ATOM 4576 H HB3 . SER A 1 20 ? -8.500 0.880 -4.037 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 13
+ATOM 4577 H HG . SER A 1 20 ? -7.186 1.670 -5.738 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 13
+ATOM 4578 N N . CYS A 1 21 ? -4.732 -0.245 -5.127 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 13
+ATOM 4579 C CA . CYS A 1 21 ? -3.676 -1.064 -5.850 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 13
+ATOM 4580 C C . CYS A 1 21 ? -3.227 -2.458 -5.261 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 13
+ATOM 4581 O O . CYS A 1 21 ? -2.046 -2.816 -5.191 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 13
+ATOM 4582 C CB . CYS A 1 21 ? -2.537 -0.040 -6.058 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 13
+ATOM 4583 S SG . CYS A 1 21 ? -1.316 -0.639 -7.240 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 13
+ATOM 4584 H H . CYS A 1 21 ? -5.355 0.510 -5.471 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 13
+ATOM 4585 H HA . CYS A 1 21 ? -4.021 -1.339 -6.874 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 13
+ATOM 4586 H HB2 . CYS A 1 21 ? -2.916 0.918 -6.476 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 13
+ATOM 4587 H HB3 . CYS A 1 21 ? -2.059 0.198 -5.091 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 13
+ATOM 4588 N N . CYS A 1 22 ? -4.258 -3.244 -4.870 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 13
+ATOM 4589 C CA . CYS A 1 22 ? -4.146 -4.498 -4.096 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 13
+ATOM 4590 C C . CYS A 1 22 ? -5.150 -5.628 -4.567 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 13
+ATOM 4591 O O . CYS A 1 22 ? -4.630 -6.688 -4.913 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 13
+ATOM 4592 C CB . CYS A 1 22 ? -4.389 -4.139 -2.623 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 13
+ATOM 4593 S SG . CYS A 1 22 ? -3.047 -3.205 -1.887 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 13
+ATOM 4594 H H . CYS A 1 22 ? -5.058 -2.616 -4.629 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 13
+ATOM 4595 H HA . CYS A 1 22 ? -3.138 -4.914 -4.191 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 13
+ATOM 4596 H HB2 . CYS A 1 22 ? -5.327 -3.510 -2.556 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 13
+ATOM 4597 H HB3 . CYS A 1 22 ? -4.539 -5.120 -2.139 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 13
+ATOM 4598 N N . GLN A 1 23 ? -6.504 -5.570 -4.724 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 13
+ATOM 4599 C CA . GLN A 1 23 ? -7.502 -4.819 -3.916 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 13
+ATOM 4600 C C . GLN A 1 23 ? -8.768 -5.690 -3.640 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 13
+ATOM 4601 O O . GLN A 1 23 ? -9.174 -6.477 -4.505 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 13
+ATOM 4602 C CB . GLN A 1 23 ? -7.843 -3.416 -4.575 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 13
+ATOM 4603 C CG . GLN A 1 23 ? -7.272 -2.830 -5.914 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 13
+ATOM 4604 C CD . GLN A 1 23 ? -8.167 -1.973 -6.840 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 13
+ATOM 4605 O OE1 . GLN A 1 23 ? -9.339 -1.706 -6.573 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 13
+ATOM 4606 N NE2 . GLN A 1 23 ? -7.609 -1.528 -7.954 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 13
+ATOM 4607 H H . GLN A 1 23 ? -6.521 -4.841 -5.419 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 13
+ATOM 4608 H HA . GLN A 1 23 ? -7.039 -4.650 -2.940 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 13
+ATOM 4609 H HB2 . GLN A 1 23 ? -8.850 -3.494 -4.972 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 13
+ATOM 4610 H HB3 . GLN A 1 23 ? -7.692 -2.660 -3.718 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 13
+ATOM 4611 H HG2 . GLN A 1 23 ? -6.439 -2.186 -5.623 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 13
+ATOM 4612 H HG3 . GLN A 1 23 ? -6.840 -3.655 -6.506 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 13
+ATOM 4613 H HE21 . GLN A 1 23 ? -6.629 -1.788 -8.112 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 13
+ATOM 4614 H HE22 . GLN A 1 23 ? -8.201 -0.960 -8.569 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 13
+ATOM 4615 N N . ARG A 1 24 ? -9.391 -5.510 -2.443 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 13
+ATOM 4616 C CA . ARG A 1 24 ? -10.610 -6.240 -2.022 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 13
+ATOM 4617 C C . ARG A 1 24 ? -11.486 -5.167 -1.327 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 13
+ATOM 4618 O O . ARG A 1 24 ? -11.109 -4.581 -0.310 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 13
+ATOM 4619 C CB . ARG A 1 24 ? -10.265 -7.410 -1.054 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 13
+ATOM 4620 C CG . ARG A 1 24 ? -9.771 -8.727 -1.711 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 13
+ATOM 4621 C CD . ARG A 1 24 ? -9.468 -9.899 -0.753 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 13
+ATOM 4622 N NE . ARG A 1 24 ? -10.689 -10.615 -0.274 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 13
+ATOM 4623 C CZ . ARG A 1 24 ? -11.256 -11.721 -0.828 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 13
+ATOM 4624 N NH1 . ARG A 1 24 ? -10.814 -12.372 -1.914 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 13
+ATOM 4625 N NH2 . ARG A 1 24 ? -12.339 -12.196 -0.243 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 13
+ATOM 4626 H H . ARG A 1 24 ? -9.030 -4.783 -1.815 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 13
+ATOM 4627 H HA . ARG A 1 24 ? -11.143 -6.643 -2.912 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 13
+ATOM 4628 H HB2 . ARG A 1 24 ? -9.545 -7.103 -0.273 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 13
+ATOM 4629 H HB3 . ARG A 1 24 ? -11.169 -7.639 -0.481 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 13
+ATOM 4630 H HG2 . ARG A 1 24 ? -10.500 -9.055 -2.474 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 13
+ATOM 4631 H HG3 . ARG A 1 24 ? -8.848 -8.496 -2.273 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 13
+ATOM 4632 H HD2 . ARG A 1 24 ? -8.813 -10.619 -1.280 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 13
+ATOM 4633 H HD3 . ARG A 1 24 ? -8.874 -9.557 0.115 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 13
+ATOM 4634 H HE . ARG A 1 24 ? -11.190 -10.278 0.555 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 13
+ATOM 4635 H HH11 . ARG A 1 24 ? -9.972 -11.997 -2.363 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 13
+ATOM 4636 H HH12 . ARG A 1 24 ? -11.355 -13.193 -2.208 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 13
+ATOM 4637 H HH21 . ARG A 1 24 ? -12.671 -11.693 0.587 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 13
+ATOM 4638 H HH22 . ARG A 1 24 ? -12.761 -13.030 -0.666 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 13
+ATOM 4639 N N . NH2 A 1 25 ? -12.670 -4.879 -1.849 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 13
+ATOM 4640 H HN1 . NH2 A 1 25 ? -13.225 -4.165 -1.365 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 13
+ATOM 4641 H HN2 . NH2 A 1 25 ? -12.936 -5.395 -2.696 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 13
+ATOM 4642 N N . HIS A 1 1 ? 9.316 5.887 4.912 1.00 0.00 ? ? ? ? ? ? 1 HIS A N 14
+ATOM 4643 C CA . HIS A 1 1 ? 8.689 4.590 4.544 1.00 0.00 ? ? ? ? ? ? 1 HIS A CA 14
+ATOM 4644 C C . HIS A 1 1 ? 8.540 4.403 2.966 1.00 0.00 ? ? ? ? ? ? 1 HIS A C 14
+ATOM 4645 O O . HIS A 1 1 ? 8.857 5.396 2.294 1.00 0.00 ? ? ? ? ? ? 1 HIS A O 14
+ATOM 4646 C CB . HIS A 1 1 ? 7.303 4.503 5.285 1.00 0.00 ? ? ? ? ? ? 1 HIS A CB 14
+ATOM 4647 C CG . HIS A 1 1 ? 7.248 4.176 6.788 1.00 0.00 ? ? ? ? ? ? 1 HIS A CG 14
+ATOM 4648 N ND1 . HIS A 1 1 ? 6.083 4.409 7.504 1.00 0.00 ? ? ? ? ? ? 1 HIS A ND1 14
+ATOM 4649 C CD2 . HIS A 1 1 ? 8.185 3.512 7.625 1.00 0.00 ? ? ? ? ? ? 1 HIS A CD2 14
+ATOM 4650 C CE1 . HIS A 1 1 ? 6.422 3.874 8.718 1.00 0.00 ? ? ? ? ? ? 1 HIS A CE1 14
+ATOM 4651 N NE2 . HIS A 1 1 ? 7.664 3.328 8.893 1.00 0.00 ? ? ? ? ? ? 1 HIS A NE2 14
+ATOM 4652 H H1 . HIS A 1 1 ? 10.240 5.997 4.480 1.00 0.00 ? ? ? ? ? ? 1 HIS A H1 14
+ATOM 4653 H H2 . HIS A 1 1 ? 8.743 6.683 4.611 1.00 0.00 ? ? ? ? ? ? 1 HIS A H2 14
+ATOM 4654 H H3 . HIS A 1 1 ? 9.443 5.971 5.927 1.00 0.00 ? ? ? ? ? ? 1 HIS A H3 14
+ATOM 4655 H HA . HIS A 1 1 ? 9.431 3.847 4.915 1.00 0.00 ? ? ? ? ? ? 1 HIS A HA 14
+ATOM 4656 H HB2 . HIS A 1 1 ? 6.787 5.477 5.150 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB2 14
+ATOM 4657 H HB3 . HIS A 1 1 ? 6.597 3.784 4.786 1.00 0.00 ? ? ? ? ? ? 1 HIS A HB3 14
+ATOM 4658 H HD1 . HIS A 1 1 ? 5.174 4.746 7.166 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD1 14
+ATOM 4659 H HD2 . HIS A 1 1 ? 9.157 3.163 7.307 1.00 0.00 ? ? ? ? ? ? 1 HIS A HD2 14
+ATOM 4660 H HE1 . HIS A 1 1 ? 5.700 3.847 9.520 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE1 14
+ATOM 4661 H HE2 . HIS A 1 1 ? 8.063 2.845 9.706 1.00 0.00 ? ? ? ? ? ? 1 HIS A HE2 14
+ATOM 4662 N N . HYP A 1 2 ? 8.127 3.262 2.268 1.00 0.00 ? ? ? ? ? ? 2 HYP A N 14
+ATOM 4663 C CA . HYP A 1 2 ? 8.315 3.120 0.794 1.00 0.00 ? ? ? ? ? ? 2 HYP A CA 14
+ATOM 4664 C C . HYP A 1 2 ? 7.344 4.007 -0.117 1.00 0.00 ? ? ? ? ? ? 2 HYP A C 14
+ATOM 4665 O O . HYP A 1 2 ? 6.751 4.936 0.428 1.00 0.00 ? ? ? ? ? ? 2 HYP A O 14
+ATOM 4666 C CB . HYP A 1 2 ? 8.113 1.607 0.540 1.00 0.00 ? ? ? ? ? ? 2 HYP A CB 14
+ATOM 4667 C CG . HYP A 1 2 ? 8.133 0.928 1.884 1.00 0.00 ? ? ? ? ? ? 2 HYP A CG 14
+ATOM 4668 C CD . HYP A 1 2 ? 7.598 1.981 2.826 1.00 0.00 ? ? ? ? ? ? 2 HYP A CD 14
+ATOM 4669 O OD1 . HYP A 1 2 ? 9.463 0.584 2.243 1.00 0.00 ? ? ? ? ? ? 2 HYP A OD1 14
+ATOM 4670 H HA . HYP A 1 2 ? 9.357 3.391 0.545 1.00 0.00 ? ? ? ? ? ? 2 HYP A HA 14
+ATOM 4671 H HB2 . HYP A 1 2 ? 7.160 1.492 -0.030 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB2 14
+ATOM 4672 H HB3 . HYP A 1 2 ? 8.878 1.198 -0.135 1.00 0.00 ? ? ? ? ? ? 2 HYP A HB3 14
+ATOM 4673 H HG . HYP A 1 2 ? 7.500 0.039 1.863 1.00 0.00 ? ? ? ? ? ? 2 HYP A HG 14
+ATOM 4674 H HD22 . HYP A 1 2 ? 6.487 1.989 2.806 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD22 14
+ATOM 4675 H HD23 . HYP A 1 2 ? 7.933 1.747 3.852 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD23 14
+ATOM 4676 H HD1 . HYP A 1 2 ? 9.409 0.197 3.120 1.00 0.00 ? ? ? ? ? ? 2 HYP A HD1 14
+ATOM 4677 N N . HYP A 1 3 ? 7.067 3.740 -1.453 1.00 0.00 ? ? ? ? ? ? 3 HYP A N 14
+ATOM 4678 C CA . HYP A 1 3 ? 5.675 3.697 -2.005 1.00 0.00 ? ? ? ? ? ? 3 HYP A CA 14
+ATOM 4679 C C . HYP A 1 3 ? 4.567 2.846 -1.245 1.00 0.00 ? ? ? ? ? ? 3 HYP A C 14
+ATOM 4680 O O . HYP A 1 3 ? 4.934 2.101 -0.332 1.00 0.00 ? ? ? ? ? ? 3 HYP A O 14
+ATOM 4681 C CB . HYP A 1 3 ? 6.001 3.078 -3.379 1.00 0.00 ? ? ? ? ? ? 3 HYP A CB 14
+ATOM 4682 C CG . HYP A 1 3 ? 7.459 3.530 -3.810 1.00 0.00 ? ? ? ? ? ? 3 HYP A CG 14
+ATOM 4683 C CD . HYP A 1 3 ? 8.127 3.330 -2.426 1.00 0.00 ? ? ? ? ? ? 3 HYP A CD 14
+ATOM 4684 O OD1 . HYP A 1 3 ? 7.460 4.920 -4.117 1.00 0.00 ? ? ? ? ? ? 3 HYP A OD1 14
+ATOM 4685 H HA . HYP A 1 3 ? 5.307 4.731 -2.132 1.00 0.00 ? ? ? ? ? ? 3 HYP A HA 14
+ATOM 4686 H HB2 . HYP A 1 3 ? 5.839 1.977 -3.219 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB2 14
+ATOM 4687 H HB3 . HYP A 1 3 ? 5.179 3.403 -4.023 1.00 0.00 ? ? ? ? ? ? 3 HYP A HB3 14
+ATOM 4688 H HG . HYP A 1 3 ? 7.991 3.037 -4.730 1.00 0.00 ? ? ? ? ? ? 3 HYP A HG 14
+ATOM 4689 H HD22 . HYP A 1 3 ? 8.357 2.242 -2.259 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD22 14
+ATOM 4690 H HD23 . HYP A 1 3 ? 9.038 3.926 -2.123 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD23 14
+ATOM 4691 H HD1 . HYP A 1 3 ? 8.381 5.164 -4.235 1.00 0.00 ? ? ? ? ? ? 3 HYP A HD1 14
+ATOM 4692 N N . CYS A 1 4 ? 3.272 2.905 -1.669 1.00 0.00 ? ? ? ? ? ? 4 CYS A N 14
+ATOM 4693 C CA . CYS A 1 4 ? 2.219 1.927 -1.185 1.00 0.00 ? ? ? ? ? ? 4 CYS A CA 14
+ATOM 4694 C C . CYS A 1 4 ? 2.300 0.489 -1.805 1.00 0.00 ? ? ? ? ? ? 4 CYS A C 14
+ATOM 4695 O O . CYS A 1 4 ? 2.050 -0.478 -1.078 1.00 0.00 ? ? ? ? ? ? 4 CYS A O 14
+ATOM 4696 C CB . CYS A 1 4 ? 0.835 2.564 -1.518 1.00 0.00 ? ? ? ? ? ? 4 CYS A CB 14
+ATOM 4697 S SG . CYS A 1 4 ? -0.391 1.708 -0.532 1.00 0.00 ? ? ? ? ? ? 4 CYS A SG 14
+ATOM 4698 H H . CYS A 1 4 ? 3.060 3.880 -1.927 1.00 0.00 ? ? ? ? ? ? 4 CYS A H 14
+ATOM 4699 H HA . CYS A 1 4 ? 2.200 1.823 -0.062 1.00 0.00 ? ? ? ? ? ? 4 CYS A HA 14
+ATOM 4700 H HB2 . CYS A 1 4 ? 0.752 3.647 -1.209 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB2 14
+ATOM 4701 H HB3 . CYS A 1 4 ? 0.601 2.430 -2.611 1.00 0.00 ? ? ? ? ? ? 4 CYS A HB3 14
+ATOM 4702 N N . CYS A 1 5 ? 2.571 0.389 -3.126 1.00 0.00 ? ? ? ? ? ? 5 CYS A N 14
+ATOM 4703 C CA . CYS A 1 5 ? 2.264 -0.866 -3.946 1.00 0.00 ? ? ? ? ? ? 5 CYS A CA 14
+ATOM 4704 C C . CYS A 1 5 ? 3.334 -1.988 -4.110 1.00 0.00 ? ? ? ? ? ? 5 CYS A C 14
+ATOM 4705 O O . CYS A 1 5 ? 3.125 -2.996 -4.798 1.00 0.00 ? ? ? ? ? ? 5 CYS A O 14
+ATOM 4706 C CB . CYS A 1 5 ? 1.850 -0.341 -5.336 1.00 0.00 ? ? ? ? ? ? 5 CYS A CB 14
+ATOM 4707 S SG . CYS A 1 5 ? 0.731 -1.513 -6.124 1.00 0.00 ? ? ? ? ? ? 5 CYS A SG 14
+ATOM 4708 H H . CYS A 1 5 ? 2.789 1.367 -3.459 1.00 0.00 ? ? ? ? ? ? 5 CYS A H 14
+ATOM 4709 H HA . CYS A 1 5 ? 1.475 -1.499 -3.498 1.00 0.00 ? ? ? ? ? ? 5 CYS A HA 14
+ATOM 4710 H HB2 . CYS A 1 5 ? 1.333 0.661 -5.281 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB2 14
+ATOM 4711 H HB3 . CYS A 1 5 ? 2.776 -0.284 -5.962 1.00 0.00 ? ? ? ? ? ? 5 CYS A HB3 14
+ATOM 4712 N N . LEU A 1 6 ? 4.439 -1.759 -3.435 1.00 0.00 ? ? ? ? ? ? 6 LEU A N 14
+ATOM 4713 C CA . LEU A 1 6 ? 5.734 -2.463 -3.626 1.00 0.00 ? ? ? ? ? ? 6 LEU A CA 14
+ATOM 4714 C C . LEU A 1 6 ? 5.808 -3.730 -2.719 1.00 0.00 ? ? ? ? ? ? 6 LEU A C 14
+ATOM 4715 O O . LEU A 1 6 ? 5.182 -3.812 -1.657 1.00 0.00 ? ? ? ? ? ? 6 LEU A O 14
+ATOM 4716 C CB . LEU A 1 6 ? 6.843 -1.393 -3.343 1.00 0.00 ? ? ? ? ? ? 6 LEU A CB 14
+ATOM 4717 C CG . LEU A 1 6 ? 8.391 -1.629 -3.453 1.00 0.00 ? ? ? ? ? ? 6 LEU A CG 14
+ATOM 4718 C CD1 . LEU A 1 6 ? 8.889 -2.102 -4.845 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD1 14
+ATOM 4719 C CD2 . LEU A 1 6 ? 9.175 -0.361 -3.028 1.00 0.00 ? ? ? ? ? ? 6 LEU A CD2 14
+ATOM 4720 H H . LEU A 1 6 ? 4.298 -0.804 -3.090 1.00 0.00 ? ? ? ? ? ? 6 LEU A H 14
+ATOM 4721 H HA . LEU A 1 6 ? 5.822 -2.747 -4.697 1.00 0.00 ? ? ? ? ? ? 6 LEU A HA 14
+ATOM 4722 H HB2 . LEU A 1 6 ? 6.621 -0.510 -3.972 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB2 14
+ATOM 4723 H HB3 . LEU A 1 6 ? 6.661 -1.107 -2.296 1.00 0.00 ? ? ? ? ? ? 6 LEU A HB3 14
+ATOM 4724 H HG . LEU A 1 6 ? 8.661 -2.376 -2.691 1.00 0.00 ? ? ? ? ? ? 6 LEU A HG 14
+ATOM 4725 H HD11 . LEU A 1 6 ? 8.355 -3.021 -5.146 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD11 14
+ATOM 4726 H HD12 . LEU A 1 6 ? 8.691 -1.346 -5.629 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD12 14
+ATOM 4727 H HD13 . LEU A 1 6 ? 9.970 -2.335 -4.855 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD13 14
+ATOM 4728 H HD21 . LEU A 1 6 ? 8.892 -0.045 -2.006 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD21 14
+ATOM 4729 H HD22 . LEU A 1 6 ? 10.269 -0.513 -3.018 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD22 14
+ATOM 4730 H HD23 . LEU A 1 6 ? 8.947 0.489 -3.698 1.00 0.00 ? ? ? ? ? ? 6 LEU A HD23 14
+ATOM 4731 N N . TYR A 1 7 ? 6.614 -4.721 -3.181 1.00 0.00 ? ? ? ? ? ? 7 TYR A N 14
+ATOM 4732 C CA . TYR A 1 7 ? 6.825 -6.111 -2.596 1.00 0.00 ? ? ? ? ? ? 7 TYR A CA 14
+ATOM 4733 C C . TYR A 1 7 ? 5.640 -7.132 -2.634 1.00 0.00 ? ? ? ? ? ? 7 TYR A C 14
+ATOM 4734 O O . TYR A 1 7 ? 5.810 -8.317 -2.318 1.00 0.00 ? ? ? ? ? ? 7 TYR A O 14
+ATOM 4735 C CB . TYR A 1 7 ? 7.469 -6.070 -1.206 1.00 0.00 ? ? ? ? ? ? 7 TYR A CB 14
+ATOM 4736 C CG . TYR A 1 7 ? 8.962 -5.672 -1.146 1.00 0.00 ? ? ? ? ? ? 7 TYR A CG 14
+ATOM 4737 C CD1 . TYR A 1 7 ? 9.966 -6.623 -1.309 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD1 14
+ATOM 4738 C CD2 . TYR A 1 7 ? 9.322 -4.350 -0.907 1.00 0.00 ? ? ? ? ? ? 7 TYR A CD2 14
+ATOM 4739 C CE1 . TYR A 1 7 ? 11.295 -6.255 -1.242 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE1 14
+ATOM 4740 C CE2 . TYR A 1 7 ? 10.654 -3.990 -0.841 1.00 0.00 ? ? ? ? ? ? 7 TYR A CE2 14
+ATOM 4741 C CZ . TYR A 1 7 ? 11.639 -4.940 -1.008 1.00 0.00 ? ? ? ? ? ? 7 TYR A CZ 14
+ATOM 4742 O OH . TYR A 1 7 ? 12.959 -4.579 -0.941 1.00 0.00 ? ? ? ? ? ? 7 TYR A OH 14
+ATOM 4743 H H . TYR A 1 7 ? 6.958 -4.485 -4.095 1.00 0.00 ? ? ? ? ? ? 7 TYR A H 14
+ATOM 4744 H HA . TYR A 1 7 ? 7.541 -6.616 -3.191 1.00 0.00 ? ? ? ? ? ? 7 TYR A HA 14
+ATOM 4745 H HB2 . TYR A 1 7 ? 6.807 -5.347 -0.759 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB2 14
+ATOM 4746 H HB3 . TYR A 1 7 ? 7.369 -7.053 -0.716 1.00 0.00 ? ? ? ? ? ? 7 TYR A HB3 14
+ATOM 4747 H HD1 . TYR A 1 7 ? 9.733 -7.664 -1.492 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD1 14
+ATOM 4748 H HD2 . TYR A 1 7 ? 8.581 -3.573 -0.768 1.00 0.00 ? ? ? ? ? ? 7 TYR A HD2 14
+ATOM 4749 H HE1 . TYR A 1 7 ? 12.067 -6.999 -1.371 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE1 14
+ATOM 4750 H HE2 . TYR A 1 7 ? 10.924 -2.961 -0.657 1.00 0.00 ? ? ? ? ? ? 7 TYR A HE2 14
+ATOM 4751 H HH . TYR A 1 7 ? 13.016 -3.635 -0.773 1.00 0.00 ? ? ? ? ? ? 7 TYR A HH 14
+ATOM 4752 N N . GLY A 1 8 ? 4.502 -6.634 -3.074 1.00 0.00 ? ? ? ? ? ? 8 GLY A N 14
+ATOM 4753 C CA . GLY A 1 8 ? 3.224 -7.350 -3.190 1.00 0.00 ? ? ? ? ? ? 8 GLY A CA 14
+ATOM 4754 C C . GLY A 1 8 ? 2.380 -7.608 -1.915 1.00 0.00 ? ? ? ? ? ? 8 GLY A C 14
+ATOM 4755 O O . GLY A 1 8 ? 1.375 -8.314 -2.049 1.00 0.00 ? ? ? ? ? ? 8 GLY A O 14
+ATOM 4756 H H . GLY A 1 8 ? 4.669 -5.639 -3.189 1.00 0.00 ? ? ? ? ? ? 8 GLY A H 14
+ATOM 4757 H HA2 . GLY A 1 8 ? 2.612 -6.717 -3.877 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA2 14
+ATOM 4758 H HA3 . GLY A 1 8 ? 3.439 -8.324 -3.681 1.00 0.00 ? ? ? ? ? ? 8 GLY A HA3 14
+ATOM 4759 N N . LYS A 1 9 ? 2.738 -7.039 -0.740 1.00 0.00 ? ? ? ? ? ? 9 LYS A N 14
+ATOM 4760 C CA . LYS A 1 9 ? 1.853 -7.034 0.474 1.00 0.00 ? ? ? ? ? ? 9 LYS A CA 14
+ATOM 4761 C C . LYS A 1 9 ? 1.682 -5.518 0.814 1.00 0.00 ? ? ? ? ? ? 9 LYS A C 14
+ATOM 4762 O O . LYS A 1 9 ? 2.692 -4.846 1.070 1.00 0.00 ? ? ? ? ? ? 9 LYS A O 14
+ATOM 4763 C CB . LYS A 1 9 ? 2.527 -7.836 1.621 1.00 0.00 ? ? ? ? ? ? 9 LYS A CB 14
+ATOM 4764 C CG . LYS A 1 9 ? 1.628 -8.133 2.857 1.00 0.00 ? ? ? ? ? ? 9 LYS A CG 14
+ATOM 4765 C CD . LYS A 1 9 ? 2.263 -8.941 4.020 1.00 0.00 ? ? ? ? ? ? 9 LYS A CD 14
+ATOM 4766 C CE . LYS A 1 9 ? 2.334 -10.484 3.893 1.00 0.00 ? ? ? ? ? ? 9 LYS A CE 14
+ATOM 4767 N NZ . LYS A 1 9 ? 1.041 -11.163 4.116 1.00 0.00 ? ? ? ? ? ? 9 LYS A NZ 14
+ATOM 4768 H H . LYS A 1 9 ? 3.627 -6.497 -0.826 1.00 0.00 ? ? ? ? ? ? 9 LYS A H 14
+ATOM 4769 H HA . LYS A 1 9 ? 0.873 -7.559 0.269 1.00 0.00 ? ? ? ? ? ? 9 LYS A HA 14
+ATOM 4770 H HB2 . LYS A 1 9 ? 2.877 -8.812 1.234 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB2 14
+ATOM 4771 H HB3 . LYS A 1 9 ? 3.440 -7.307 1.949 1.00 0.00 ? ? ? ? ? ? 9 LYS A HB3 14
+ATOM 4772 H HG2 . LYS A 1 9 ? 1.296 -7.155 3.254 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG2 14
+ATOM 4773 H HG3 . LYS A 1 9 ? 0.692 -8.620 2.519 1.00 0.00 ? ? ? ? ? ? 9 LYS A HG3 14
+ATOM 4774 H HD2 . LYS A 1 9 ? 3.282 -8.560 4.220 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD2 14
+ATOM 4775 H HD3 . LYS A 1 9 ? 1.706 -8.700 4.945 1.00 0.00 ? ? ? ? ? ? 9 LYS A HD3 14
+ATOM 4776 H HE2 . LYS A 1 9 ? 2.733 -10.761 2.901 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE2 14
+ATOM 4777 H HE3 . LYS A 1 9 ? 3.061 -10.870 4.629 1.00 0.00 ? ? ? ? ? ? 9 LYS A HE3 14
+ATOM 4778 H HZ1 . LYS A 1 9 ? 0.665 -10.963 5.049 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ1 14
+ATOM 4779 H HZ2 . LYS A 1 9 ? 0.335 -10.865 3.434 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ2 14
+ATOM 4780 H HZ3 . LYS A 1 9 ? 1.130 -12.182 4.036 1.00 0.00 ? ? ? ? ? ? 9 LYS A HZ3 14
+ATOM 4781 N N . CYS A 1 10 ? 0.434 -4.984 0.814 1.00 0.00 ? ? ? ? ? ? 10 CYS A N 14
+ATOM 4782 C CA . CYS A 1 10 ? 0.202 -3.523 0.639 1.00 0.00 ? ? ? ? ? ? 10 CYS A CA 14
+ATOM 4783 C C . CYS A 1 10 ? 0.567 -2.673 1.909 1.00 0.00 ? ? ? ? ? ? 10 CYS A C 14
+ATOM 4784 O O . CYS A 1 10 ? 0.432 -3.203 3.020 1.00 0.00 ? ? ? ? ? ? 10 CYS A O 14
+ATOM 4785 C CB . CYS A 1 10 ? -1.283 -3.373 0.257 1.00 0.00 ? ? ? ? ? ? 10 CYS A CB 14
+ATOM 4786 S SG . CYS A 1 10 ? -1.699 -1.649 -0.002 1.00 0.00 ? ? ? ? ? ? 10 CYS A SG 14
+ATOM 4787 H H . CYS A 1 10 ? -0.294 -5.610 0.461 1.00 0.00 ? ? ? ? ? ? 10 CYS A H 14
+ATOM 4788 H HA . CYS A 1 10 ? 0.723 -3.247 -0.299 1.00 0.00 ? ? ? ? ? ? 10 CYS A HA 14
+ATOM 4789 H HB2 . CYS A 1 10 ? -1.483 -3.879 -0.707 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB2 14
+ATOM 4790 H HB3 . CYS A 1 10 ? -1.990 -3.821 0.976 1.00 0.00 ? ? ? ? ? ? 10 CYS A HB3 14
+ATOM 4791 N N . ARG A 1 11 ? 0.938 -1.368 1.773 1.00 0.00 ? ? ? ? ? ? 11 ARG A N 14
+ATOM 4792 C CA . ARG A 1 11 ? 1.261 -0.474 2.854 1.00 0.00 ? ? ? ? ? ? 11 ARG A CA 14
+ATOM 4793 C C . ARG A 1 11 ? 0.001 0.389 3.082 1.00 0.00 ? ? ? ? ? ? 11 ARG A C 14
+ATOM 4794 O O . ARG A 1 11 ? -0.457 1.113 2.192 1.00 0.00 ? ? ? ? ? ? 11 ARG A O 14
+ATOM 4795 C CB . ARG A 1 11 ? 2.479 0.397 2.561 1.00 0.00 ? ? ? ? ? ? 11 ARG A CB 14
+ATOM 4796 C CG . ARG A 1 11 ? 3.826 0.050 1.809 1.00 0.00 ? ? ? ? ? ? 11 ARG A CG 14
+ATOM 4797 C CD . ARG A 1 11 ? 4.469 -1.359 1.847 1.00 0.00 ? ? ? ? ? ? 11 ARG A CD 14
+ATOM 4798 N NE . ARG A 1 11 ? 4.342 -1.843 3.234 1.00 0.00 ? ? ? ? ? ? 11 ARG A NE 14
+ATOM 4799 C CZ . ARG A 1 11 ? 5.058 -2.806 3.864 1.00 0.00 ? ? ? ? ? ? 11 ARG A CZ 14
+ATOM 4800 N NH1 . ARG A 1 11 ? 6.053 -3.523 3.322 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH1 14
+ATOM 4801 N NH2 . ARG A 1 11 ? 4.748 -3.060 5.122 1.00 0.00 ? ? ? ? ? ? 11 ARG A NH2 14
+ATOM 4802 H H . ARG A 1 11 ? 1.350 -0.883 0.994 1.00 0.00 ? ? ? ? ? ? 11 ARG A H 14
+ATOM 4803 H HA . ARG A 1 11 ? 1.692 -0.982 3.693 1.00 0.00 ? ? ? ? ? ? 11 ARG A HA 14
+ATOM 4804 H HB2 . ARG A 1 11 ? 2.101 1.203 2.082 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB2 14
+ATOM 4805 H HB3 . ARG A 1 11 ? 2.657 0.869 3.515 1.00 0.00 ? ? ? ? ? ? 11 ARG A HB3 14
+ATOM 4806 H HG2 . ARG A 1 11 ? 3.681 0.299 0.742 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG2 14
+ATOM 4807 H HG3 . ARG A 1 11 ? 4.584 0.776 2.154 1.00 0.00 ? ? ? ? ? ? 11 ARG A HG3 14
+ATOM 4808 H HD2 . ARG A 1 11 ? 3.936 -2.040 1.157 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD2 14
+ATOM 4809 H HD3 . ARG A 1 11 ? 5.525 -1.326 1.520 1.00 0.00 ? ? ? ? ? ? 11 ARG A HD3 14
+ATOM 4810 H HE . ARG A 1 11 ? 3.579 -1.317 3.702 1.00 0.00 ? ? ? ? ? ? 11 ARG A HE 14
+ATOM 4811 H HH11 . ARG A 1 11 ? 6.286 -3.318 2.345 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH11 14
+ATOM 4812 H HH12 . ARG A 1 11 ? 6.501 -4.218 3.929 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH12 14
+ATOM 4813 H HH21 . ARG A 1 11 ? 3.986 -2.507 5.528 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH21 14
+ATOM 4814 H HH22 . ARG A 1 11 ? 5.296 -3.790 5.591 1.00 0.00 ? ? ? ? ? ? 11 ARG A HH22 14
+ATOM 4815 N N . ARG A 1 12 ? -0.487 0.321 4.306 1.00 0.00 ? ? ? ? ? ? 12 ARG A N 14
+ATOM 4816 C CA . ARG A 1 12 ? -1.455 1.263 4.895 1.00 0.00 ? ? ? ? ? ? 12 ARG A CA 14
+ATOM 4817 C C . ARG A 1 12 ? -0.692 2.419 5.621 1.00 0.00 ? ? ? ? ? ? 12 ARG A C 14
+ATOM 4818 O O . ARG A 1 12 ? -0.643 2.430 6.858 1.00 0.00 ? ? ? ? ? ? 12 ARG A O 14
+ATOM 4819 C CB . ARG A 1 12 ? -2.579 0.498 5.684 1.00 0.00 ? ? ? ? ? ? 12 ARG A CB 14
+ATOM 4820 C CG . ARG A 1 12 ? -2.189 -0.260 6.976 1.00 0.00 ? ? ? ? ? ? 12 ARG A CG 14
+ATOM 4821 C CD . ARG A 1 12 ? -3.289 -1.085 7.671 1.00 0.00 ? ? ? ? ? ? 12 ARG A CD 14
+ATOM 4822 N NE . ARG A 1 12 ? -4.229 -0.256 8.478 1.00 0.00 ? ? ? ? ? ? 12 ARG A NE 14
+ATOM 4823 C CZ . ARG A 1 12 ? -5.096 -0.709 9.420 1.00 0.00 ? ? ? ? ? ? 12 ARG A CZ 14
+ATOM 4824 N NH1 . ARG A 1 12 ? -5.264 -1.987 9.791 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH1 14
+ATOM 4825 N NH2 . ARG A 1 12 ? -5.845 0.193 10.026 1.00 0.00 ? ? ? ? ? ? 12 ARG A NH2 14
+ATOM 4826 H H . ARG A 1 12 ? 0.095 -0.230 4.875 1.00 0.00 ? ? ? ? ? ? 12 ARG A H 14
+ATOM 4827 H HA . ARG A 1 12 ? -1.926 1.682 4.042 1.00 0.00 ? ? ? ? ? ? 12 ARG A HA 14
+ATOM 4828 H HB2 . ARG A 1 12 ? -3.420 1.171 5.956 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB2 14
+ATOM 4829 H HB3 . ARG A 1 12 ? -2.994 -0.246 4.981 1.00 0.00 ? ? ? ? ? ? 12 ARG A HB3 14
+ATOM 4830 H HG2 . ARG A 1 12 ? -1.363 -0.928 6.677 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG2 14
+ATOM 4831 H HG3 . ARG A 1 12 ? -1.757 0.477 7.670 1.00 0.00 ? ? ? ? ? ? 12 ARG A HG3 14
+ATOM 4832 H HD2 . ARG A 1 12 ? -3.856 -1.689 6.937 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD2 14
+ATOM 4833 H HD3 . ARG A 1 12 ? -2.810 -1.815 8.348 1.00 0.00 ? ? ? ? ? ? 12 ARG A HD3 14
+ATOM 4834 H HE . ARG A 1 12 ? -4.262 0.762 8.350 1.00 0.00 ? ? ? ? ? ? 12 ARG A HE 14
+ATOM 4835 H HH11 . ARG A 1 12 ? -4.680 -2.684 9.316 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH11 14
+ATOM 4836 H HH12 . ARG A 1 12 ? -5.963 -2.165 10.520 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH12 14
+ATOM 4837 H HH21 . ARG A 1 12 ? -5.712 1.169 9.738 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH21 14
+ATOM 4838 H HH22 . ARG A 1 12 ? -6.498 -0.155 10.737 1.00 0.00 ? ? ? ? ? ? 12 ARG A HH22 14
+ATOM 4839 N N . TYR A 1 13 ? -0.089 3.371 4.851 1.00 0.00 ? ? ? ? ? ? 13 TYR A N 14
+ATOM 4840 C CA . TYR A 1 13 ? 0.781 4.426 5.432 1.00 0.00 ? ? ? ? ? ? 13 TYR A CA 14
+ATOM 4841 C C . TYR A 1 13 ? 0.513 5.922 5.026 1.00 0.00 ? ? ? ? ? ? 13 TYR A C 14
+ATOM 4842 O O . TYR A 1 13 ? -0.133 6.048 3.986 1.00 0.00 ? ? ? ? ? ? 13 TYR A O 14
+ATOM 4843 C CB . TYR A 1 13 ? 2.295 4.069 5.089 1.00 0.00 ? ? ? ? ? ? 13 TYR A CB 14
+ATOM 4844 C CG . TYR A 1 13 ? 2.880 4.222 3.636 1.00 0.00 ? ? ? ? ? ? 13 TYR A CG 14
+ATOM 4845 C CD1 . TYR A 1 13 ? 2.189 3.930 2.464 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD1 14
+ATOM 4846 C CD2 . TYR A 1 13 ? 4.112 4.871 3.513 1.00 0.00 ? ? ? ? ? ? 13 TYR A CD2 14
+ATOM 4847 C CE1 . TYR A 1 13 ? 2.666 4.376 1.246 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE1 14
+ATOM 4848 C CE2 . TYR A 1 13 ? 4.582 5.298 2.296 1.00 0.00 ? ? ? ? ? ? 13 TYR A CE2 14
+ATOM 4849 C CZ . TYR A 1 13 ? 3.847 5.071 1.160 1.00 0.00 ? ? ? ? ? ? 13 TYR A CZ 14
+ATOM 4850 O OH . TYR A 1 13 ? 4.256 5.573 -0.045 1.00 0.00 ? ? ? ? ? ? 13 TYR A OH 14
+ATOM 4851 H H . TYR A 1 13 ? -0.036 3.157 3.846 1.00 0.00 ? ? ? ? ? ? 13 TYR A H 14
+ATOM 4852 H HA . TYR A 1 13 ? 0.545 4.512 6.532 1.00 0.00 ? ? ? ? ? ? 13 TYR A HA 14
+ATOM 4853 H HB2 . TYR A 1 13 ? 2.945 4.701 5.704 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB2 14
+ATOM 4854 H HB3 . TYR A 1 13 ? 2.551 3.128 5.549 1.00 0.00 ? ? ? ? ? ? 13 TYR A HB3 14
+ATOM 4855 H HD1 . TYR A 1 13 ? 1.237 3.423 2.490 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD1 14
+ATOM 4856 H HD2 . TYR A 1 13 ? 4.716 5.128 4.368 1.00 0.00 ? ? ? ? ? ? 13 TYR A HD2 14
+ATOM 4857 H HE1 . TYR A 1 13 ? 2.107 4.242 0.346 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE1 14
+ATOM 4858 H HE2 . TYR A 1 13 ? 5.528 5.820 2.233 1.00 0.00 ? ? ? ? ? ? 13 TYR A HE2 14
+ATOM 4859 H HH . TYR A 1 13 ? 3.615 5.333 -0.718 1.00 0.00 ? ? ? ? ? ? 13 TYR A HH 14
+ATOM 4860 N N . HYP A 1 14 ? 1.028 7.040 5.725 1.00 0.00 ? ? ? ? ? ? 14 HYP A N 14
+ATOM 4861 C CA . HYP A 1 14 ? 1.336 8.387 5.085 1.00 0.00 ? ? ? ? ? ? 14 HYP A CA 14
+ATOM 4862 C C . HYP A 1 14 ? 0.886 8.852 3.654 1.00 0.00 ? ? ? ? ? ? 14 HYP A C 14
+ATOM 4863 O O . HYP A 1 14 ? 1.626 9.481 2.881 1.00 0.00 ? ? ? ? ? ? 14 HYP A O 14
+ATOM 4864 C CB . HYP A 1 14 ? 2.874 8.296 5.170 1.00 0.00 ? ? ? ? ? ? 14 HYP A CB 14
+ATOM 4865 C CG . HYP A 1 14 ? 3.162 7.787 6.582 1.00 0.00 ? ? ? ? ? ? 14 HYP A CG 14
+ATOM 4866 C CD . HYP A 1 14 ? 1.939 6.937 6.931 1.00 0.00 ? ? ? ? ? ? 14 HYP A CD 14
+ATOM 4867 O OD1 . HYP A 1 14 ? 3.264 8.878 7.486 1.00 0.00 ? ? ? ? ? ? 14 HYP A OD1 14
+ATOM 4868 H HA . HYP A 1 14 ? 0.918 9.188 5.738 1.00 0.00 ? ? ? ? ? ? 14 HYP A HA 14
+ATOM 4869 H HB2 . HYP A 1 14 ? 3.147 7.557 4.394 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB2 14
+ATOM 4870 H HB3 . HYP A 1 14 ? 3.422 9.222 4.918 1.00 0.00 ? ? ? ? ? ? 14 HYP A HB3 14
+ATOM 4871 H HG . HYP A 1 14 ? 4.095 7.195 6.604 1.00 0.00 ? ? ? ? ? ? 14 HYP A HG 14
+ATOM 4872 H HD22 . HYP A 1 14 ? 2.241 5.863 7.127 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD22 14
+ATOM 4873 H HD23 . HYP A 1 14 ? 1.436 7.286 7.838 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD23 14
+ATOM 4874 H HD1 . HYP A 1 14 ? 3.401 8.491 8.354 1.00 0.00 ? ? ? ? ? ? 14 HYP A HD1 14
+ATOM 4875 N N . GLY A 1 15 ? -0.399 8.621 3.400 1.00 0.00 ? ? ? ? ? ? 15 GLY A N 14
+ATOM 4876 C CA . GLY A 1 15 ? -1.084 8.936 2.133 1.00 0.00 ? ? ? ? ? ? 15 GLY A CA 14
+ATOM 4877 C C . GLY A 1 15 ? -0.823 8.016 0.921 1.00 0.00 ? ? ? ? ? ? 15 GLY A C 14
+ATOM 4878 O O . GLY A 1 15 ? -0.509 8.485 -0.177 1.00 0.00 ? ? ? ? ? ? 15 GLY A O 14
+ATOM 4879 H H . GLY A 1 15 ? -0.645 7.747 3.852 1.00 0.00 ? ? ? ? ? ? 15 GLY A H 14
+ATOM 4880 H HA2 . GLY A 1 15 ? -2.199 8.854 2.369 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA2 14
+ATOM 4881 H HA3 . GLY A 1 15 ? -0.704 9.946 1.855 1.00 0.00 ? ? ? ? ? ? 15 GLY A HA3 14
+ATOM 4882 N N . CYS A 1 16 ? -1.080 6.730 1.160 1.00 0.00 ? ? ? ? ? ? 16 CYS A N 14
+ATOM 4883 C CA . CYS A 1 16 ? -1.515 5.734 0.136 1.00 0.00 ? ? ? ? ? ? 16 CYS A CA 14
+ATOM 4884 C C . CYS A 1 16 ? -3.024 5.851 -0.246 1.00 0.00 ? ? ? ? ? ? 16 CYS A C 14
+ATOM 4885 O O . CYS A 1 16 ? -3.371 5.477 -1.368 1.00 0.00 ? ? ? ? ? ? 16 CYS A O 14
+ATOM 4886 C CB . CYS A 1 16 ? -1.201 4.381 0.840 1.00 0.00 ? ? ? ? ? ? 16 CYS A CB 14
+ATOM 4887 S SG . CYS A 1 16 ? -1.852 2.999 -0.143 1.00 0.00 ? ? ? ? ? ? 16 CYS A SG 14
+ATOM 4888 H H . CYS A 1 16 ? -1.352 6.599 2.149 1.00 0.00 ? ? ? ? ? ? 16 CYS A H 14
+ATOM 4889 H HA . CYS A 1 16 ? -0.941 5.788 -0.843 1.00 0.00 ? ? ? ? ? ? 16 CYS A HA 14
+ATOM 4890 H HB2 . CYS A 1 16 ? -0.107 4.294 0.885 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB2 14
+ATOM 4891 H HB3 . CYS A 1 16 ? -1.592 4.343 1.905 1.00 0.00 ? ? ? ? ? ? 16 CYS A HB3 14
+ATOM 4892 N N . SER A 1 17 ? -3.928 6.201 0.697 1.00 0.00 ? ? ? ? ? ? 17 SER A N 14
+ATOM 4893 C CA . SER A 1 17 ? -4.935 5.198 1.170 1.00 0.00 ? ? ? ? ? ? 17 SER A CA 14
+ATOM 4894 C C . SER A 1 17 ? -6.117 4.813 0.229 1.00 0.00 ? ? ? ? ? ? 17 SER A C 14
+ATOM 4895 O O . SER A 1 17 ? -6.835 3.839 0.480 1.00 0.00 ? ? ? ? ? ? 17 SER A O 14
+ATOM 4896 C CB . SER A 1 17 ? -5.490 5.675 2.528 1.00 0.00 ? ? ? ? ? ? 17 SER A CB 14
+ATOM 4897 O OG . SER A 1 17 ? -6.345 4.695 3.109 1.00 0.00 ? ? ? ? ? ? 17 SER A OG 14
+ATOM 4898 H H . SER A 1 17 ? -3.420 6.766 1.376 1.00 0.00 ? ? ? ? ? ? 17 SER A H 14
+ATOM 4899 H HA . SER A 1 17 ? -4.365 4.277 1.305 1.00 0.00 ? ? ? ? ? ? 17 SER A HA 14
+ATOM 4900 H HB2 . SER A 1 17 ? -4.681 5.881 3.254 1.00 0.00 ? ? ? ? ? ? 17 SER A HB2 14
+ATOM 4901 H HB3 . SER A 1 17 ? -6.046 6.621 2.400 1.00 0.00 ? ? ? ? ? ? 17 SER A HB3 14
+ATOM 4902 H HG . SER A 1 17 ? -5.805 3.910 3.229 1.00 0.00 ? ? ? ? ? ? 17 SER A HG 14
+ATOM 4903 N N . SER A 1 18 ? -6.222 5.588 -0.839 1.00 0.00 ? ? ? ? ? ? 18 SER A N 14
+ATOM 4904 C CA . SER A 1 18 ? -7.026 5.270 -2.052 1.00 0.00 ? ? ? ? ? ? 18 SER A CA 14
+ATOM 4905 C C . SER A 1 18 ? -6.472 4.163 -3.010 1.00 0.00 ? ? ? ? ? ? 18 SER A C 14
+ATOM 4906 O O . SER A 1 18 ? -7.268 3.692 -3.828 1.00 0.00 ? ? ? ? ? ? 18 SER A O 14
+ATOM 4907 C CB . SER A 1 18 ? -7.176 6.579 -2.851 1.00 0.00 ? ? ? ? ? ? 18 SER A CB 14
+ATOM 4908 O OG . SER A 1 18 ? -7.854 7.570 -2.088 1.00 0.00 ? ? ? ? ? ? 18 SER A OG 14
+ATOM 4909 H H . SER A 1 18 ? -5.357 6.144 -0.795 1.00 0.00 ? ? ? ? ? ? 18 SER A H 14
+ATOM 4910 H HA . SER A 1 18 ? -8.039 4.961 -1.732 1.00 0.00 ? ? ? ? ? ? 18 SER A HA 14
+ATOM 4911 H HB2 . SER A 1 18 ? -6.185 6.960 -3.161 1.00 0.00 ? ? ? ? ? ? 18 SER A HB2 14
+ATOM 4912 H HB3 . SER A 1 18 ? -7.747 6.411 -3.784 1.00 0.00 ? ? ? ? ? ? 18 SER A HB3 14
+ATOM 4913 H HG . SER A 1 18 ? -7.316 7.717 -1.307 1.00 0.00 ? ? ? ? ? ? 18 SER A HG 14
+ATOM 4914 N N . ALA A 1 19 ? -5.170 3.774 -2.929 1.00 0.00 ? ? ? ? ? ? 19 ALA A N 14
+ATOM 4915 C CA . ALA A 1 19 ? -4.441 2.981 -3.954 1.00 0.00 ? ? ? ? ? ? 19 ALA A CA 14
+ATOM 4916 C C . ALA A 1 19 ? -5.004 1.535 -4.155 1.00 0.00 ? ? ? ? ? ? 19 ALA A C 14
+ATOM 4917 O O . ALA A 1 19 ? -4.584 0.559 -3.515 1.00 0.00 ? ? ? ? ? ? 19 ALA A O 14
+ATOM 4918 C CB . ALA A 1 19 ? -2.967 2.962 -3.516 1.00 0.00 ? ? ? ? ? ? 19 ALA A CB 14
+ATOM 4919 H H . ALA A 1 19 ? -4.639 4.397 -2.317 1.00 0.00 ? ? ? ? ? ? 19 ALA A H 14
+ATOM 4920 H HA . ALA A 1 19 ? -4.412 3.557 -4.903 1.00 0.00 ? ? ? ? ? ? 19 ALA A HA 14
+ATOM 4921 H HB1 . ALA A 1 19 ? -2.544 3.980 -3.429 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB1 14
+ATOM 4922 H HB2 . ALA A 1 19 ? -2.843 2.455 -2.543 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB2 14
+ATOM 4923 H HB3 . ALA A 1 19 ? -2.350 2.413 -4.251 1.00 0.00 ? ? ? ? ? ? 19 ALA A HB3 14
+ATOM 4924 N N . SER A 1 20 ? -5.988 1.458 -5.072 1.00 0.00 ? ? ? ? ? ? 20 SER A N 14
+ATOM 4925 C CA . SER A 1 20 ? -6.669 0.141 -5.437 1.00 0.00 ? ? ? ? ? ? 20 SER A CA 14
+ATOM 4926 C C . SER A 1 20 ? -5.912 -0.956 -6.219 1.00 0.00 ? ? ? ? ? ? 20 SER A C 14
+ATOM 4927 O O . SER A 1 20 ? -6.394 -2.080 -6.417 1.00 0.00 ? ? ? ? ? ? 20 SER A O 14
+ATOM 4928 C CB . SER A 1 20 ? -7.947 0.419 -6.214 1.00 0.00 ? ? ? ? ? ? 20 SER A CB 14
+ATOM 4929 O OG . SER A 1 20 ? -8.661 -0.747 -6.627 1.00 0.00 ? ? ? ? ? ? 20 SER A OG 14
+ATOM 4930 H H . SER A 1 20 ? -6.434 2.383 -4.995 1.00 0.00 ? ? ? ? ? ? 20 SER A H 14
+ATOM 4931 H HA . SER A 1 20 ? -6.954 -0.340 -4.495 1.00 0.00 ? ? ? ? ? ? 20 SER A HA 14
+ATOM 4932 H HB2 . SER A 1 20 ? -8.558 0.890 -5.463 1.00 0.00 ? ? ? ? ? ? 20 SER A HB2 14
+ATOM 4933 H HB3 . SER A 1 20 ? -7.738 1.066 -7.086 1.00 0.00 ? ? ? ? ? ? 20 SER A HB3 14
+ATOM 4934 H HG . SER A 1 20 ? -8.820 -1.256 -5.830 1.00 0.00 ? ? ? ? ? ? 20 SER A HG 14
+ATOM 4935 N N . CYS A 1 21 ? -4.631 -0.701 -6.352 1.00 0.00 ? ? ? ? ? ? 21 CYS A N 14
+ATOM 4936 C CA . CYS A 1 21 ? -3.528 -1.660 -5.986 1.00 0.00 ? ? ? ? ? ? 21 CYS A CA 14
+ATOM 4937 C C . CYS A 1 21 ? -3.843 -2.722 -4.844 1.00 0.00 ? ? ? ? ? ? 21 CYS A C 14
+ATOM 4938 O O . CYS A 1 21 ? -3.312 -3.834 -4.928 1.00 0.00 ? ? ? ? ? ? 21 CYS A O 14
+ATOM 4939 C CB . CYS A 1 21 ? -2.311 -0.783 -5.580 1.00 0.00 ? ? ? ? ? ? 21 CYS A CB 14
+ATOM 4940 S SG . CYS A 1 21 ? -0.903 -1.779 -5.000 1.00 0.00 ? ? ? ? ? ? 21 CYS A SG 14
+ATOM 4941 H H . CYS A 1 21 ? -4.636 0.318 -6.494 1.00 0.00 ? ? ? ? ? ? 21 CYS A H 14
+ATOM 4942 H HA . CYS A 1 21 ? -3.157 -2.136 -6.912 1.00 0.00 ? ? ? ? ? ? 21 CYS A HA 14
+ATOM 4943 H HB2 . CYS A 1 21 ? -1.973 -0.180 -6.445 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB2 14
+ATOM 4944 H HB3 . CYS A 1 21 ? -2.597 -0.069 -4.783 1.00 0.00 ? ? ? ? ? ? 21 CYS A HB3 14
+ATOM 4945 N N . CYS A 1 22 ? -4.657 -2.352 -3.808 1.00 0.00 ? ? ? ? ? ? 22 CYS A N 14
+ATOM 4946 C CA . CYS A 1 22 ? -4.817 -3.104 -2.556 1.00 0.00 ? ? ? ? ? ? 22 CYS A CA 14
+ATOM 4947 C C . CYS A 1 22 ? -6.238 -3.766 -2.510 1.00 0.00 ? ? ? ? ? ? 22 CYS A C 14
+ATOM 4948 O O . CYS A 1 22 ? -6.325 -4.973 -2.746 1.00 0.00 ? ? ? ? ? ? 22 CYS A O 14
+ATOM 4949 C CB . CYS A 1 22 ? -4.309 -2.114 -1.471 1.00 0.00 ? ? ? ? ? ? 22 CYS A CB 14
+ATOM 4950 S SG . CYS A 1 22 ? -2.597 -1.617 -1.756 1.00 0.00 ? ? ? ? ? ? 22 CYS A SG 14
+ATOM 4951 H H . CYS A 1 22 ? -4.974 -1.367 -3.806 1.00 0.00 ? ? ? ? ? ? 22 CYS A H 14
+ATOM 4952 H HA . CYS A 1 22 ? -4.136 -3.953 -2.514 1.00 0.00 ? ? ? ? ? ? 22 CYS A HA 14
+ATOM 4953 H HB2 . CYS A 1 22 ? -4.872 -1.139 -1.434 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB2 14
+ATOM 4954 H HB3 . CYS A 1 22 ? -4.298 -2.673 -0.510 1.00 0.00 ? ? ? ? ? ? 22 CYS A HB3 14
+ATOM 4955 N N . GLN A 1 23 ? -7.343 -3.015 -2.297 1.00 0.00 ? ? ? ? ? ? 23 GLN A N 14
+ATOM 4956 C CA . GLN A 1 23 ? -8.746 -3.205 -2.767 1.00 0.00 ? ? ? ? ? ? 23 GLN A CA 14
+ATOM 4957 C C . GLN A 1 23 ? -9.008 -4.336 -3.821 1.00 0.00 ? ? ? ? ? ? 23 GLN A C 14
+ATOM 4958 O O . GLN A 1 23 ? -8.119 -4.590 -4.641 1.00 0.00 ? ? ? ? ? ? 23 GLN A O 14
+ATOM 4959 C CB . GLN A 1 23 ? -9.178 -1.818 -3.358 1.00 0.00 ? ? ? ? ? ? 23 GLN A CB 14
+ATOM 4960 C CG . GLN A 1 23 ? -8.889 -0.483 -2.599 1.00 0.00 ? ? ? ? ? ? 23 GLN A CG 14
+ATOM 4961 C CD . GLN A 1 23 ? -9.807 -0.204 -1.405 1.00 0.00 ? ? ? ? ? ? 23 GLN A CD 14
+ATOM 4962 O OE1 . GLN A 1 23 ? -9.554 -0.659 -0.290 1.00 0.00 ? ? ? ? ? ? 23 GLN A OE1 14
+ATOM 4963 N NE2 . GLN A 1 23 ? -10.880 0.543 -1.611 1.00 0.00 ? ? ? ? ? ? 23 GLN A NE2 14
+ATOM 4964 H H . GLN A 1 23 ? -7.202 -2.012 -2.221 1.00 0.00 ? ? ? ? ? ? 23 GLN A H 14
+ATOM 4965 H HA . GLN A 1 23 ? -9.371 -3.342 -1.879 1.00 0.00 ? ? ? ? ? ? 23 GLN A HA 14
+ATOM 4966 H HB2 . GLN A 1 23 ? -8.573 -1.762 -4.313 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB2 14
+ATOM 4967 H HB3 . GLN A 1 23 ? -10.311 -1.834 -3.498 1.00 0.00 ? ? ? ? ? ? 23 GLN A HB3 14
+ATOM 4968 H HG2 . GLN A 1 23 ? -7.830 -0.492 -2.257 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG2 14
+ATOM 4969 H HG3 . GLN A 1 23 ? -8.869 0.335 -3.337 1.00 0.00 ? ? ? ? ? ? 23 GLN A HG3 14
+ATOM 4970 H HE21 . GLN A 1 23 ? -11.023 0.887 -2.567 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE21 14
+ATOM 4971 H HE22 . GLN A 1 23 ? -11.481 0.718 -0.798 1.00 0.00 ? ? ? ? ? ? 23 GLN A HE22 14
+ATOM 4972 N N . ARG A 1 24 ? -10.194 -4.974 -3.781 1.00 0.00 ? ? ? ? ? ? 24 ARG A N 14
+ATOM 4973 C CA . ARG A 1 24 ? -10.591 -6.066 -4.697 1.00 0.00 ? ? ? ? ? ? 24 ARG A CA 14
+ATOM 4974 C C . ARG A 1 24 ? -12.045 -5.717 -5.107 1.00 0.00 ? ? ? ? ? ? 24 ARG A C 14
+ATOM 4975 O O . ARG A 1 24 ? -12.958 -5.669 -4.280 1.00 0.00 ? ? ? ? ? ? 24 ARG A O 14
+ATOM 4976 C CB . ARG A 1 24 ? -10.507 -7.450 -3.987 1.00 0.00 ? ? ? ? ? ? 24 ARG A CB 14
+ATOM 4977 C CG . ARG A 1 24 ? -9.101 -8.100 -3.917 1.00 0.00 ? ? ? ? ? ? 24 ARG A CG 14
+ATOM 4978 C CD . ARG A 1 24 ? -9.081 -9.483 -3.252 1.00 0.00 ? ? ? ? ? ? 24 ARG A CD 14
+ATOM 4979 N NE . ARG A 1 24 ? -7.698 -10.023 -3.232 1.00 0.00 ? ? ? ? ? ? 24 ARG A NE 14
+ATOM 4980 C CZ . ARG A 1 24 ? -7.343 -11.322 -3.054 1.00 0.00 ? ? ? ? ? ? 24 ARG A CZ 14
+ATOM 4981 N NH1 . ARG A 1 24 ? -8.180 -12.352 -2.864 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH1 14
+ATOM 4982 N NH2 . ARG A 1 24 ? -6.051 -11.596 -3.070 1.00 0.00 ? ? ? ? ? ? 24 ARG A NH2 14
+ATOM 4983 H H . ARG A 1 24 ? -10.886 -4.581 -3.149 1.00 0.00 ? ? ? ? ? ? 24 ARG A H 14
+ATOM 4984 H HA . ARG A 1 24 ? -9.938 -6.073 -5.599 1.00 0.00 ? ? ? ? ? ? 24 ARG A HA 14
+ATOM 4985 H HB2 . ARG A 1 24 ? -10.955 -7.414 -2.975 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB2 14
+ATOM 4986 H HB3 . ARG A 1 24 ? -11.178 -8.125 -4.529 1.00 0.00 ? ? ? ? ? ? 24 ARG A HB3 14
+ATOM 4987 H HG2 . ARG A 1 24 ? -8.691 -8.179 -4.941 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG2 14
+ATOM 4988 H HG3 . ARG A 1 24 ? -8.419 -7.422 -3.372 1.00 0.00 ? ? ? ? ? ? 24 ARG A HG3 14
+ATOM 4989 H HD2 . ARG A 1 24 ? -9.468 -9.421 -2.219 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD2 14
+ATOM 4990 H HD3 . ARG A 1 24 ? -9.742 -10.183 -3.796 1.00 0.00 ? ? ? ? ? ? 24 ARG A HD3 14
+ATOM 4991 H HE . ARG A 1 24 ? -6.896 -9.395 -3.361 1.00 0.00 ? ? ? ? ? ? 24 ARG A HE 14
+ATOM 4992 H HH11 . ARG A 1 24 ? -9.182 -12.134 -2.853 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH11 14
+ATOM 4993 H HH12 . ARG A 1 24 ? -7.751 -13.277 -2.745 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH12 14
+ATOM 4994 H HH21 . ARG A 1 24 ? -5.416 -10.804 -3.216 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH21 14
+ATOM 4995 H HH22 . ARG A 1 24 ? -5.789 -12.578 -2.934 1.00 0.00 ? ? ? ? ? ? 24 ARG A HH22 14
+ATOM 4996 N N . NH2 A 1 25 ? -12.301 -5.463 -6.383 1.00 0.00 ? ? ? ? ? ? 25 NH2 A N 14
+ATOM 4997 H HN1 . NH2 A 1 25 ? -13.273 -5.234 -6.619 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN1 14
+ATOM 4998 H HN2 . NH2 A 1 25 ? -11.506 -5.515 -7.030 1.00 0.00 ? ? ? ? ? ? 25 NH2 A HN2 14
+#
+loop_
+_pdbx_poly_seq_scheme.asym_id
+_pdbx_poly_seq_scheme.entity_id
+_pdbx_poly_seq_scheme.seq_id
+_pdbx_poly_seq_scheme.mon_id
+_pdbx_poly_seq_scheme.ndb_seq_num
+_pdbx_poly_seq_scheme.pdb_seq_num
+_pdbx_poly_seq_scheme.auth_seq_num
+_pdbx_poly_seq_scheme.pdb_mon_id
+_pdbx_poly_seq_scheme.auth_mon_id
+_pdbx_poly_seq_scheme.pdb_strand_id
+_pdbx_poly_seq_scheme.pdb_ins_code
+_pdbx_poly_seq_scheme.hetero
+A 1 1 HIS 1 1 1 HIS HIS A . n
+A 1 2 HYP 2 2 2 HYP HYP A . n
+A 1 3 HYP 3 3 3 HYP HYP A . n
+A 1 4 CYS 4 4 4 CYS CYS A . n
+A 1 5 CYS 5 5 5 CYS CYS A . n
+A 1 6 LEU 6 6 6 LEU LEU A . n
+A 1 7 TYR 7 7 7 TYR TYR A . n
+A 1 8 GLY 8 8 8 GLY GLY A . n
+A 1 9 LYS 9 9 9 LYS LYS A . n
+A 1 10 CYS 10 10 10 CYS CYS A . n
+A 1 11 ARG 11 11 11 ARG ARG A . n
+A 1 12 ARG 12 12 12 ARG ARG A . n
+A 1 13 TYR 13 13 13 TYR TYR A . n
+A 1 14 HYP 14 14 14 HYP HYP A . n
+A 1 15 GLY 15 15 15 GLY GLY A . n
+A 1 16 CYS 16 16 16 CYS CYS A . n
+A 1 17 SER 17 17 17 SER SER A . n
+A 1 18 SER 18 18 18 SER SER A . n
+A 1 19 ALA 19 19 19 ALA ALA A . n
+A 1 20 SER 20 20 20 SER SER A . n
+A 1 21 CYS 21 21 21 CYS CYS A . n
+A 1 22 CYS 22 22 22 CYS CYS A . n
+A 1 23 GLN 23 23 23 GLN GLN A . n
+A 1 24 ARG 24 24 24 ARG ARG A . n
+A 1 25 NH2 25 25 25 NH2 NH2 A . n
+#
+loop_
+_pdbx_struct_chem_comp_diagnostics.ordinal
+_pdbx_struct_chem_comp_diagnostics.asym_id
+_pdbx_struct_chem_comp_diagnostics.auth_comp_id
+_pdbx_struct_chem_comp_diagnostics.auth_seq_id
+_pdbx_struct_chem_comp_diagnostics.pdb_ins_code
+_pdbx_struct_chem_comp_diagnostics.pdb_strand_id
+_pdbx_struct_chem_comp_diagnostics.seq_num
+_pdbx_struct_chem_comp_diagnostics.type
+1 A HYP 2 ? A 2 GEOMETRY
+2 A HYP 3 ? A 3 GEOMETRY
+#
+loop_
+_pdbx_version.entry_id
+_pdbx_version.revision_date
+_pdbx_version.major_version
+_pdbx_version.minor_version
+_pdbx_version.revision_type
+_pdbx_version.details
+1AS5 2008-03-24 3 2 'Version format compliance' 'compliance with PDB format V.3.15'
+1AS5 2011-07-13 4 0000 'Version format compliance' 'compliance with PDB Exchange Dictionary V4'
+#
+loop_
+_pdbx_struct_mod_residue.id
+_pdbx_struct_mod_residue.label_asym_id
+_pdbx_struct_mod_residue.label_seq_id
+_pdbx_struct_mod_residue.label_comp_id
+_pdbx_struct_mod_residue.auth_asym_id
+_pdbx_struct_mod_residue.auth_seq_id
+_pdbx_struct_mod_residue.auth_comp_id
+_pdbx_struct_mod_residue.PDB_ins_code
+_pdbx_struct_mod_residue.parent_comp_id
+_pdbx_struct_mod_residue.details
+1 A 2 HYP A 2 HYP ? PRO 4-HYDROXYPROLINE
+2 A 3 HYP A 3 HYP ? PRO 4-HYDROXYPROLINE
+3 A 14 HYP A 14 HYP ? PRO 4-HYDROXYPROLINE
+#
+loop_
+_pdbx_validate_close_contact.id
+_pdbx_validate_close_contact.PDB_model_num
+_pdbx_validate_close_contact.auth_atom_id_1
+_pdbx_validate_close_contact.auth_asym_id_1
+_pdbx_validate_close_contact.auth_comp_id_1
+_pdbx_validate_close_contact.auth_seq_id_1
+_pdbx_validate_close_contact.PDB_ins_code_1
+_pdbx_validate_close_contact.label_alt_id_1
+_pdbx_validate_close_contact.auth_atom_id_2
+_pdbx_validate_close_contact.auth_asym_id_2
+_pdbx_validate_close_contact.auth_comp_id_2
+_pdbx_validate_close_contact.auth_seq_id_2
+_pdbx_validate_close_contact.PDB_ins_code_2
+_pdbx_validate_close_contact.label_alt_id_2
+_pdbx_validate_close_contact.dist
+1 1 O A HYP 2 ? ? HH A TYR 13 ? ? 1.48
+2 4 O A HYP 2 ? ? HH A TYR 13 ? ? 1.47
+3 9 O A HYP 2 ? ? HH A TYR 13 ? ? 1.45
+4 11 HG A SER 20 ? ? HB2 A GLN 23 ? ? 1.48
+5 11 O A HYP 2 ? ? HH A TYR 13 ? ? 1.50
+#
+loop_
+_pdbx_validate_rmsd_bond.id
+_pdbx_validate_rmsd_bond.PDB_model_num
+_pdbx_validate_rmsd_bond.auth_atom_id_1
+_pdbx_validate_rmsd_bond.auth_asym_id_1
+_pdbx_validate_rmsd_bond.auth_comp_id_1
+_pdbx_validate_rmsd_bond.auth_seq_id_1
+_pdbx_validate_rmsd_bond.PDB_ins_code_1
+_pdbx_validate_rmsd_bond.label_alt_id_1
+_pdbx_validate_rmsd_bond.auth_atom_id_2
+_pdbx_validate_rmsd_bond.auth_asym_id_2
+_pdbx_validate_rmsd_bond.auth_comp_id_2
+_pdbx_validate_rmsd_bond.auth_seq_id_2
+_pdbx_validate_rmsd_bond.PDB_ins_code_2
+_pdbx_validate_rmsd_bond.label_alt_id_2
+_pdbx_validate_rmsd_bond.bond_deviation
+1 1 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.061
+2 2 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.060
+3 3 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.062
+4 4 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.062
+5 5 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.061
+6 6 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.057
+7 7 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.068
+8 8 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.060
+9 9 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.062
+10 10 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.061
+11 11 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.062
+12 12 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.067
+13 13 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.065
+14 14 CG A HIS 1 ? ? CD2 A HIS 1 ? ? 0.067
+#
+loop_
+_pdbx_validate_rmsd_angle.id
+_pdbx_validate_rmsd_angle.PDB_model_num
+_pdbx_validate_rmsd_angle.auth_atom_id_1
+_pdbx_validate_rmsd_angle.auth_asym_id_1
+_pdbx_validate_rmsd_angle.auth_comp_id_1
+_pdbx_validate_rmsd_angle.auth_seq_id_1
+_pdbx_validate_rmsd_angle.PDB_ins_code_1
+_pdbx_validate_rmsd_angle.label_alt_id_1
+_pdbx_validate_rmsd_angle.auth_atom_id_2
+_pdbx_validate_rmsd_angle.auth_asym_id_2
+_pdbx_validate_rmsd_angle.auth_comp_id_2
+_pdbx_validate_rmsd_angle.auth_seq_id_2
+_pdbx_validate_rmsd_angle.PDB_ins_code_2
+_pdbx_validate_rmsd_angle.label_alt_id_2
+_pdbx_validate_rmsd_angle.auth_atom_id_3
+_pdbx_validate_rmsd_angle.auth_asym_id_3
+_pdbx_validate_rmsd_angle.auth_comp_id_3
+_pdbx_validate_rmsd_angle.auth_seq_id_3
+_pdbx_validate_rmsd_angle.PDB_ins_code_3
+_pdbx_validate_rmsd_angle.label_alt_id_3
+_pdbx_validate_rmsd_angle.angle_deviation
+1 1 CA A HIS 1 ? ? CB A HIS 1 ? ? CG A HIS 1 ? ? 10.7
+2 1 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.1
+3 1 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.5
+4 1 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+5 1 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+6 1 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+7 1 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 12.0
+8 1 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.8
+9 1 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+10 2 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.2
+11 2 N A CYS 4 ? ? CA A CYS 4 ? ? CB A CYS 4 ? ? -13.3
+12 2 CA A CYS 4 ? ? CB A CYS 4 ? ? SG A CYS 4 ? ? 8.8
+13 2 N A CYS 10 ? ? CA A CYS 10 ? ? CB A CYS 10 ? ? -11.7
+14 2 CA A CYS 10 ? ? CB A CYS 10 ? ? SG A CYS 10 ? ? 6.9
+15 2 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.5
+16 2 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+17 2 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.7
+18 2 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+19 2 CB A TYR 13 ? ? CG A TYR 13 ? ? CD2 A TYR 13 ? ? -4.5
+20 2 CB A TYR 13 ? ? CG A TYR 13 ? ? CD1 A TYR 13 ? ? 3.6
+21 2 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 7.8
+22 2 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.8
+23 2 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+24 3 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.2
+25 3 N A CYS 4 ? ? CA A CYS 4 ? ? CB A CYS 4 ? ? -19.0
+26 3 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.6
+27 3 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+28 3 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+29 3 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+30 3 CA A TYR 13 ? ? CB A TYR 13 ? ? CG A TYR 13 ? ? 12.2
+31 3 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 9.7
+32 3 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.7
+33 3 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+34 4 CA A HIS 1 ? ? CB A HIS 1 ? ? CG A HIS 1 ? ? 10.6
+35 4 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.0
+36 4 N A CYS 10 ? ? CA A CYS 10 ? ? CB A CYS 10 ? ? -11.4
+37 4 CA A CYS 10 ? ? CB A CYS 10 ? ? SG A CYS 10 ? ? 8.0
+38 4 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.4
+39 4 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+40 4 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+41 4 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.4
+42 4 CA A GLN 23 ? ? CB A GLN 23 ? ? CG A GLN 23 ? ? 14.3
+43 4 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.9
+44 4 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+45 5 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.2
+46 5 N A CYS 4 ? ? CA A CYS 4 ? ? CB A CYS 4 ? ? -15.3
+47 5 N A CYS 10 ? ? CA A CYS 10 ? ? CB A CYS 10 ? ? -13.7
+48 5 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.2
+49 5 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+50 5 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+51 5 CB A TYR 13 ? ? CG A TYR 13 ? ? CD2 A TYR 13 ? ? -3.8
+52 5 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 7.4
+53 5 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.9
+54 5 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+55 6 CA A HIS 1 ? ? CB A HIS 1 ? ? CG A HIS 1 ? ? 11.5
+56 6 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.1
+57 6 N A CYS 4 ? ? CA A CYS 4 ? ? CB A CYS 4 ? ? -12.4
+58 6 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.5
+59 6 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+60 6 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+61 6 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+62 6 CB A TYR 13 ? ? CG A TYR 13 ? ? CD2 A TYR 13 ? ? -4.3
+63 6 CA A GLN 23 ? ? CB A GLN 23 ? ? CG A GLN 23 ? ? 13.4
+64 6 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.7
+65 6 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+66 7 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.2
+67 7 CA A ARG 11 ? ? CB A ARG 11 ? ? CG A ARG 11 ? ? 14.8
+68 7 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 4.7
+69 7 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+70 7 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+71 7 CB A TYR 13 ? ? CG A TYR 13 ? ? CD1 A TYR 13 ? ? 4.1
+72 7 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 8.5
+73 7 CA A CYS 22 ? ? CB A CYS 22 ? ? SG A CYS 22 ? ? 7.1
+74 7 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.7
+75 7 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+76 8 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.2
+77 8 N A CYS 4 ? ? CA A CYS 4 ? ? CB A CYS 4 ? ? -13.6
+78 8 CA A CYS 4 ? ? CB A CYS 4 ? ? SG A CYS 4 ? ? 7.5
+79 8 N A CYS 10 ? ? CA A CYS 10 ? ? CB A CYS 10 ? ? -13.3
+80 8 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.7
+81 8 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.3
+82 8 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.7
+83 8 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+84 8 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 7.8
+85 8 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.8
+86 8 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+87 9 CA A HIS 1 ? ? CB A HIS 1 ? ? CG A HIS 1 ? ? 10.6
+88 9 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.0
+89 9 N A CYS 10 ? ? CA A CYS 10 ? ? CB A CYS 10 ? ? -13.2
+90 9 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.6
+91 9 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+92 9 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+93 9 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.5
+94 9 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 10.3
+95 9 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.9
+96 9 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+97 10 CA A HIS 1 ? ? CB A HIS 1 ? ? CG A HIS 1 ? ? 11.0
+98 10 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.0
+99 10 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.4
+100 10 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+101 10 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+102 10 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+103 10 CB A TYR 13 ? ? CG A TYR 13 ? ? CD2 A TYR 13 ? ? -3.7
+104 10 CB A TYR 13 ? ? CG A TYR 13 ? ? CD1 A TYR 13 ? ? 4.5
+105 10 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 9.8
+106 10 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.7
+107 10 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+108 11 CA A HIS 1 ? ? CB A HIS 1 ? ? CG A HIS 1 ? ? 10.4
+109 11 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.0
+110 11 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.5
+111 11 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+112 11 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+113 11 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+114 11 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 10.5
+115 11 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.7
+116 11 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+117 12 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.2
+118 12 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.5
+119 12 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+120 12 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+121 12 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+122 12 CB A TYR 13 ? ? CG A TYR 13 ? ? CD2 A TYR 13 ? ? -4.1
+123 12 CB A TYR 13 ? ? CG A TYR 13 ? ? CD1 A TYR 13 ? ? 4.8
+124 12 CA A GLN 23 ? ? CB A GLN 23 ? ? CG A GLN 23 ? ? 13.7
+125 12 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.8
+126 12 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+127 13 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.1
+128 13 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.5
+129 13 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+130 13 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+131 13 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.3
+132 13 CA A GLN 23 ? ? CB A GLN 23 ? ? CG A GLN 23 ? ? 13.9
+133 13 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.6
+134 13 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.3
+135 14 ND1 A HIS 1 ? ? CE1 A HIS 1 ? ? NE2 A HIS 1 ? ? 8.1
+136 14 CA A ARG 11 ? ? CB A ARG 11 ? ? CG A ARG 11 ? ? 16.8
+137 14 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH1 A ARG 11 ? ? 5.4
+138 14 NE A ARG 11 ? ? CZ A ARG 11 ? ? NH2 A ARG 11 ? ? -3.2
+139 14 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH1 A ARG 12 ? ? 5.8
+140 14 NE A ARG 12 ? ? CZ A ARG 12 ? ? NH2 A ARG 12 ? ? -3.4
+141 14 CB A TYR 13 ? ? CG A TYR 13 ? ? CD2 A TYR 13 ? ? -4.0
+142 14 CB A TYR 13 ? ? CG A TYR 13 ? ? CD1 A TYR 13 ? ? 3.9
+143 14 CB A CYS 22 ? ? CA A CYS 22 ? ? C A CYS 22 ? ? 11.5
+144 14 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH1 A ARG 24 ? ? 5.9
+145 14 NE A ARG 24 ? ? CZ A ARG 24 ? ? NH2 A ARG 24 ? ? -3.4
+#
+loop_
+_pdbx_validate_torsion.id
+_pdbx_validate_torsion.PDB_model_num
+_pdbx_validate_torsion.auth_comp_id
+_pdbx_validate_torsion.auth_asym_id
+_pdbx_validate_torsion.auth_seq_id
+_pdbx_validate_torsion.PDB_ins_code
+_pdbx_validate_torsion.phi
+_pdbx_validate_torsion.psi
+1 1 HYP A 2 ? -61.73 -162.18
+2 1 HYP A 3 ? -46.83 163.39
+3 1 TYR A 7 ? 67.57 -9.42
+4 1 HYP A 14 ? 13.56 52.11
+5 1 CYS A 21 ? 19.90 40.37
+6 1 CYS A 22 ? -123.53 -77.93
+7 1 GLN A 23 ? 5.39 142.30
+8 2 HYP A 2 ? -64.09 -158.24
+9 2 CYS A 5 ? -68.02 2.60
+10 2 TYR A 7 ? 69.22 -16.72
+11 2 HYP A 14 ? 18.55 53.86
+12 2 ALA A 19 ? -68.06 92.56
+13 2 CYS A 21 ? -48.73 16.37
+14 2 GLN A 23 ? -17.29 145.33
+15 3 HYP A 2 ? -61.73 -150.07
+16 3 TYR A 7 ? -28.04 -46.40
+17 3 HYP A 14 ? 17.78 8.95
+18 3 CYS A 16 ? -139.94 -66.00
+19 3 ALA A 19 ? -66.24 80.68
+20 3 CYS A 21 ? -33.07 -29.01
+21 3 CYS A 22 ? -102.79 -76.43
+22 3 GLN A 23 ? -11.57 148.69
+23 4 HYP A 2 ? -60.61 -161.73
+24 4 HYP A 3 ? -48.41 163.24
+25 4 TYR A 7 ? 76.74 -12.65
+26 4 HYP A 14 ? 16.77 52.50
+27 4 CYS A 21 ? 19.77 34.62
+28 4 CYS A 22 ? -140.26 -26.08
+29 5 HYP A 2 ? -61.41 -147.65
+30 5 CYS A 5 ? -69.48 11.51
+31 5 HYP A 14 ? 17.60 -13.22
+32 5 CYS A 16 ? -140.95 -20.20
+33 5 SER A 18 ? -66.17 2.94
+34 5 ALA A 19 ? -61.03 85.33
+35 5 CYS A 21 ? -30.75 -23.41
+36 5 GLN A 23 ? -14.28 145.58
+37 6 HYP A 2 ? -60.59 -143.21
+38 6 HYP A 3 ? -56.95 173.03
+39 6 TYR A 7 ? 68.71 -5.76
+40 6 HYP A 14 ? 15.23 -15.54
+41 6 CYS A 21 ? 20.11 41.85
+42 6 CYS A 22 ? -145.32 -49.43
+43 7 HYP A 2 ? -74.01 -160.33
+44 7 HYP A 3 ? -48.64 173.15
+45 7 TYR A 7 ? 81.45 -19.73
+46 7 CYS A 10 ? -66.87 93.61
+47 7 ARG A 11 ? -32.10 126.59
+48 7 HYP A 14 ? 3.52 -19.15
+49 7 CYS A 21 ? -14.20 -36.71
+50 7 CYS A 22 ? -106.57 -72.23
+51 7 GLN A 23 ? 3.12 142.31
+52 8 HYP A 2 ? -63.45 -148.87
+53 8 TYR A 7 ? 76.49 -7.49
+54 8 HYP A 14 ? 18.69 55.69
+55 8 CYS A 21 ? -48.00 -4.43
+56 8 CYS A 22 ? -76.64 -74.04
+57 8 GLN A 23 ? -7.18 146.54
+58 9 HYP A 2 ? -60.35 -161.18
+59 9 HYP A 3 ? -46.89 163.52
+60 9 HYP A 14 ? 14.43 54.81
+61 9 CYS A 21 ? 19.75 34.55
+62 9 CYS A 22 ? -134.98 -91.85
+63 9 GLN A 23 ? 6.35 142.29
+64 10 HYP A 2 ? -63.67 -166.45
+65 10 HYP A 3 ? -44.40 172.38
+66 10 TYR A 7 ? 70.85 -11.77
+67 10 HYP A 14 ? 4.25 -18.71
+68 10 SER A 20 ? -66.51 2.06
+69 10 CYS A 21 ? -34.92 -19.33
+70 10 CYS A 22 ? -85.86 -70.98
+71 10 GLN A 23 ? -13.57 146.46
+72 11 HYP A 2 ? -60.40 -159.97
+73 11 TYR A 7 ? 76.73 -3.49
+74 11 HYP A 14 ? 9.16 -21.53
+75 11 SER A 20 ? -66.83 2.39
+76 11 CYS A 21 ? -32.36 -28.57
+77 11 CYS A 22 ? -95.35 -74.77
+78 11 GLN A 23 ? -11.95 148.25
+79 12 HYP A 2 ? -70.26 -159.38
+80 12 HYP A 3 ? -48.72 170.37
+81 12 HYP A 14 ? 3.17 -18.17
+82 12 SER A 20 ? -29.98 -57.21
+83 12 CYS A 21 ? -7.88 60.22
+84 12 CYS A 22 ? -142.70 -52.39
+85 13 HYP A 2 ? -65.34 -157.75
+86 13 HYP A 3 ? -49.28 165.43
+87 13 TYR A 7 ? 75.39 -8.94
+88 13 HYP A 14 ? 6.54 -20.98
+89 13 CYS A 21 ? 15.69 45.78
+90 13 CYS A 22 ? -140.89 -53.06
+91 14 HYP A 2 ? -73.26 -159.57
+92 14 HYP A 3 ? -48.79 173.81
+93 14 TYR A 7 ? 67.64 -6.00
+94 14 HYP A 14 ? 12.75 47.32
+95 14 ALA A 19 ? -64.31 88.52
+96 14 SER A 20 ? -69.80 8.66
+97 14 CYS A 21 ? -27.29 -34.73
+98 14 CYS A 22 ? -109.13 -73.16
+99 14 GLN A 23 ? -8.73 147.73
+#
+loop_
+_pdbx_validate_peptide_omega.id
+_pdbx_validate_peptide_omega.PDB_model_num
+_pdbx_validate_peptide_omega.auth_comp_id_1
+_pdbx_validate_peptide_omega.auth_asym_id_1
+_pdbx_validate_peptide_omega.auth_seq_id_1
+_pdbx_validate_peptide_omega.PDB_ins_code_1
+_pdbx_validate_peptide_omega.auth_comp_id_2
+_pdbx_validate_peptide_omega.auth_asym_id_2
+_pdbx_validate_peptide_omega.auth_seq_id_2
+_pdbx_validate_peptide_omega.PDB_ins_code_2
+_pdbx_validate_peptide_omega.omega
+1 1 HYP A 2 ? HYP A 3 ? 133.864
+2 1 CYS A 16 ? SER A 17 ? -108.717
+3 1 SER A 17 ? SER A 18 ? 149.779
+4 1 CYS A 22 ? GLN A 23 ? 131.768
+5 2 HYP A 2 ? HYP A 3 ? 135.546
+6 2 TYR A 13 ? HYP A 14 ? 135.737
+7 2 CYS A 16 ? SER A 17 ? -106.832
+8 2 CYS A 21 ? CYS A 22 ? 149.599
+9 2 CYS A 22 ? GLN A 23 ? 145.301
+10 3 HYP A 2 ? HYP A 3 ? 136.159
+11 3 CYS A 10 ? ARG A 11 ? 147.192
+12 3 TYR A 13 ? HYP A 14 ? 128.909
+13 3 GLY A 15 ? CYS A 16 ? -139.735
+14 3 CYS A 16 ? SER A 17 ? -94.055
+15 3 SER A 20 ? CYS A 21 ? 141.663
+16 4 HYP A 2 ? HYP A 3 ? 135.925
+17 4 TYR A 13 ? HYP A 14 ? 144.087
+18 4 CYS A 16 ? SER A 17 ? -107.607
+19 4 CYS A 22 ? GLN A 23 ? -55.812
+20 5 HYP A 2 ? HYP A 3 ? 129.771
+21 5 TYR A 13 ? HYP A 14 ? 134.729
+22 5 CYS A 16 ? SER A 17 ? -123.742
+23 5 SER A 17 ? SER A 18 ? 149.222
+24 6 HYP A 2 ? HYP A 3 ? 123.941
+25 6 ARG A 12 ? TYR A 13 ? -136.450
+26 6 TYR A 13 ? HYP A 14 ? 133.779
+27 6 CYS A 16 ? SER A 17 ? -121.986
+28 6 SER A 17 ? SER A 18 ? 146.191
+29 6 CYS A 22 ? GLN A 23 ? -31.551
+30 7 HYP A 2 ? HYP A 3 ? 130.109
+31 7 CYS A 10 ? ARG A 11 ? 146.194
+32 7 TYR A 13 ? HYP A 14 ? 139.845
+33 7 CYS A 16 ? SER A 17 ? -108.153
+34 7 CYS A 22 ? GLN A 23 ? 149.229
+35 8 HYP A 2 ? HYP A 3 ? 130.790
+36 8 TYR A 13 ? HYP A 14 ? 137.144
+37 8 CYS A 16 ? SER A 17 ? -107.861
+38 9 HYP A 2 ? HYP A 3 ? 134.520
+39 9 TYR A 13 ? HYP A 14 ? 142.393
+40 9 CYS A 16 ? SER A 17 ? -106.343
+41 9 SER A 17 ? SER A 18 ? 148.408
+42 9 CYS A 22 ? GLN A 23 ? 140.360
+43 10 HYP A 2 ? HYP A 3 ? 136.234
+44 10 TYR A 13 ? HYP A 14 ? 140.388
+45 10 CYS A 16 ? SER A 17 ? -110.987
+46 11 HYP A 2 ? HYP A 3 ? 136.002
+47 11 TYR A 13 ? HYP A 14 ? 133.600
+48 11 CYS A 16 ? SER A 17 ? -110.566
+49 11 SER A 20 ? CYS A 21 ? 141.430
+50 12 HYP A 2 ? HYP A 3 ? 133.195
+51 12 LEU A 6 ? TYR A 7 ? -127.548
+52 12 TYR A 13 ? HYP A 14 ? 143.479
+53 12 CYS A 16 ? SER A 17 ? -110.335
+54 12 CYS A 22 ? GLN A 23 ? -31.496
+55 13 HYP A 2 ? HYP A 3 ? 133.003
+56 13 TYR A 13 ? HYP A 14 ? 138.158
+57 13 CYS A 16 ? SER A 17 ? -109.200
+58 13 SER A 17 ? SER A 18 ? 149.192
+59 13 CYS A 22 ? GLN A 23 ? -35.480
+60 14 HYP A 2 ? HYP A 3 ? 130.641
+61 14 CYS A 16 ? SER A 17 ? -111.525
+62 14 SER A 20 ? CYS A 21 ? 127.898
+63 14 CYS A 22 ? GLN A 23 ? 149.775
+#
+_pdbx_validate_chiral.id 1
+_pdbx_validate_chiral.PDB_model_num 7
+_pdbx_validate_chiral.auth_comp_id TYR
+_pdbx_validate_chiral.auth_asym_id A
+_pdbx_validate_chiral.auth_seq_id 7
+_pdbx_validate_chiral.PDB_ins_code ?
+_pdbx_validate_chiral.details 'Expecting L Found L OUTSIDE RANGE'
+_pdbx_validate_chiral.omega 24.028
+#
+loop_
+_pdbx_validate_planes.id
+_pdbx_validate_planes.PDB_model_num
+_pdbx_validate_planes.auth_comp_id
+_pdbx_validate_planes.auth_asym_id
+_pdbx_validate_planes.auth_seq_id
+_pdbx_validate_planes.PDB_ins_code
+_pdbx_validate_planes.rmsd
+_pdbx_validate_planes.type
+1 1 ARG A 11 ? 0.076 'SIDE CHAIN'
+2 1 TYR A 13 ? 0.209 'SIDE CHAIN'
+3 2 TYR A 13 ? 0.077 'SIDE CHAIN'
+4 3 TYR A 13 ? 0.077 'SIDE CHAIN'
+5 4 ARG A 11 ? 0.076 'SIDE CHAIN'
+6 4 TYR A 13 ? 0.134 'SIDE CHAIN'
+7 5 TYR A 13 ? 0.156 'SIDE CHAIN'
+8 6 TYR A 13 ? 0.166 'SIDE CHAIN'
+9 7 ARG A 11 ? 0.142 'SIDE CHAIN'
+10 8 TYR A 13 ? 0.129 'SIDE CHAIN'
+11 9 ARG A 11 ? 0.093 'SIDE CHAIN'
+12 9 TYR A 13 ? 0.143 'SIDE CHAIN'
+13 10 ARG A 11 ? 0.081 'SIDE CHAIN'
+14 10 TYR A 13 ? 0.146 'SIDE CHAIN'
+15 11 TYR A 13 ? 0.101 'SIDE CHAIN'
+16 12 ARG A 11 ? 0.088 'SIDE CHAIN'
+17 12 TYR A 13 ? 0.161 'SIDE CHAIN'
+18 13 ARG A 11 ? 0.082 'SIDE CHAIN'
+19 13 TYR A 13 ? 0.155 'SIDE CHAIN'
+20 14 TYR A 13 ? 0.105 'SIDE CHAIN'
+#
+_pdbx_struct_assembly.id 1
+_pdbx_struct_assembly.details author_defined_assembly
+_pdbx_struct_assembly.method_details ?
+_pdbx_struct_assembly.oligomeric_details monomeric
+_pdbx_struct_assembly.oligomeric_count 1
+#
+_pdbx_struct_assembly_gen.assembly_id 1
+_pdbx_struct_assembly_gen.oper_expression 1
+_pdbx_struct_assembly_gen.asym_id_list A
+#
+_pdbx_struct_oper_list.id 1
+_pdbx_struct_oper_list.type 'identity operation'
+_pdbx_struct_oper_list.name 1_555
+_pdbx_struct_oper_list.symmetry_operation x,y,z
+_pdbx_struct_oper_list.matrix[1][1] 1.0000000000
+_pdbx_struct_oper_list.matrix[1][2] 0.0000000000
+_pdbx_struct_oper_list.matrix[1][3] 0.0000000000
+_pdbx_struct_oper_list.vector[1] 0.0000000000
+_pdbx_struct_oper_list.matrix[2][1] 0.0000000000
+_pdbx_struct_oper_list.matrix[2][2] 1.0000000000
+_pdbx_struct_oper_list.matrix[2][3] 0.0000000000
+_pdbx_struct_oper_list.vector[2] 0.0000000000
+_pdbx_struct_oper_list.matrix[3][1] 0.0000000000
+_pdbx_struct_oper_list.matrix[3][2] 0.0000000000
+_pdbx_struct_oper_list.matrix[3][3] 1.0000000000
+_pdbx_struct_oper_list.vector[3] 0.0000000000
+#
diff --git a/Tests/PDB/2BEG.cif b/Tests/PDB/2BEG.cif
new file mode 100644
index 0000000..878d492
--- /dev/null
+++ b/Tests/PDB/2BEG.cif
@@ -0,0 +1,20317 @@
+data_2BEG
+#
+_entry.id 2BEG
+#
+_audit_conform.dict_name mmcif_pdbx.dic
+_audit_conform.dict_version 4.007
+_audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
+#
+loop_
+_database_2.database_id
+_database_2.database_code
+PDB 2BEG
+RCSB RCSB034997
+#
+loop_
+_database_PDB_rev.num
+_database_PDB_rev.date
+_database_PDB_rev.date_original
+_database_PDB_rev.status
+_database_PDB_rev.replaces
+_database_PDB_rev.mod_type
+1 2005-11-22 2005-10-24 ? 2BEG 0
+2 2005-12-20 ? ? 2BEG 1
+3 2009-02-24 ? ? 2BEG 1
+#
+loop_
+_database_PDB_rev_record.rev_num
+_database_PDB_rev_record.type
+_database_PDB_rev_record.details
+2 JRNL ?
+3 VERSN ?
+#
+_pdbx_database_status.status_code REL
+_pdbx_database_status.entry_id 2BEG
+_pdbx_database_status.deposit_site RCSB
+_pdbx_database_status.process_site RCSB
+_pdbx_database_status.status_code_sf ?
+_pdbx_database_status.status_code_mr REL
+_pdbx_database_status.SG_entry ?
+#
+loop_
+_audit_author.name
+_audit_author.pdbx_ordinal
+'Luhrs, T.' 1
+'Ritter, C.' 2
+'Adrian, M.' 3
+'Riek-Loher, D.' 4
+'Bohrmann, B.' 5
+'Dobeli, H.' 6
+'Schubert, D.' 7
+'Riek, R.' 8
+#
+_citation.id primary
+_citation.title
+;3D structure of Alzheimer's amyloid-{beta}(1-42) fibrils.
+;
+_citation.journal_abbrev Proc.Natl.Acad.Sci.Usa
+_citation.journal_volume 102
+_citation.page_first 17342
+_citation.page_last 17347
+_citation.year 2005
+_citation.journal_id_ASTM PNASA6
+_citation.country US
+_citation.journal_id_ISSN 0027-8424
+_citation.journal_id_CSD 0040
+_citation.book_publisher ?
+_citation.pdbx_database_id_PubMed 16293696
+_citation.pdbx_database_id_DOI 10.1073/pnas.0506723102
+#
+loop_
+_citation_author.citation_id
+_citation_author.name
+_citation_author.ordinal
+primary 'Luhrs, T.' 1
+primary 'Ritter, C.' 2
+primary 'Adrian, M.' 3
+primary 'Riek-Loher, D.' 4
+primary 'Bohrmann, B.' 5
+primary 'Dobeli, H.' 6
+primary 'Schubert, D.' 7
+primary 'Riek, R.' 8
+#
+_entity.id 1
+_entity.type polymer
+_entity.src_method man
+_entity.pdbx_description 'Amyloid beta A4 protein'
+_entity.formula_weight 4520.130
+_entity.pdbx_number_of_molecules 5
+_entity.details ?
+_entity.pdbx_mutation ?
+_entity.pdbx_fragment 'Beta-amyloid protein 42'
+_entity.pdbx_ec ?
+#
+_entity_keywords.entity_id 1
+_entity_keywords.text ?
+#
+_entity_name_com.entity_id 1
+_entity_name_com.name
+;APP, ABPP, Alzheimer's disease amyloid protein, Cerebral vascular amyloid peptide, CVAP, Protease nexin-II, PN-II, APPI
+;
+#
+_entity_poly.entity_id 1
+_entity_poly.type 'polypeptide(L)'
+_entity_poly.nstd_linkage no
+_entity_poly.nstd_monomer no
+_entity_poly.pdbx_seq_one_letter_code DAEFRHDSGYEVHHQKLVFFAEDVGSNKGAIIGLMVGGVVIA
+_entity_poly.pdbx_seq_one_letter_code_can DAEFRHDSGYEVHHQKLVFFAEDVGSNKGAIIGLMVGGVVIA
+_entity_poly.pdbx_strand_id A,B,C,D,E
+#
+loop_
+_entity_poly_seq.entity_id
+_entity_poly_seq.num
+_entity_poly_seq.mon_id
+_entity_poly_seq.hetero
+1 1 ASP n
+1 2 ALA n
+1 3 GLU n
+1 4 PHE n
+1 5 ARG n
+1 6 HIS n
+1 7 ASP n
+1 8 SER n
+1 9 GLY n
+1 10 TYR n
+1 11 GLU n
+1 12 VAL n
+1 13 HIS n
+1 14 HIS n
+1 15 GLN n
+1 16 LYS n
+1 17 LEU n
+1 18 VAL n
+1 19 PHE n
+1 20 PHE n
+1 21 ALA n
+1 22 GLU n
+1 23 ASP n
+1 24 VAL n
+1 25 GLY n
+1 26 SER n
+1 27 ASN n
+1 28 LYS n
+1 29 GLY n
+1 30 ALA n
+1 31 ILE n
+1 32 ILE n
+1 33 GLY n
+1 34 LEU n
+1 35 MET n
+1 36 VAL n
+1 37 GLY n
+1 38 GLY n
+1 39 VAL n
+1 40 VAL n
+1 41 ILE n
+1 42 ALA n
+#
+_entity_src_gen.entity_id 1
+_entity_src_gen.gene_src_common_name human
+_entity_src_gen.gene_src_genus Homo
+_entity_src_gen.pdbx_gene_src_gene APP
+_entity_src_gen.gene_src_species ?
+_entity_src_gen.gene_src_strain ?
+_entity_src_gen.gene_src_tissue ?
+_entity_src_gen.gene_src_tissue_fraction ?
+_entity_src_gen.gene_src_details ?
+_entity_src_gen.pdbx_gene_src_fragment ?
+_entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens'
+_entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606
+_entity_src_gen.pdbx_gene_src_variant ?
+_entity_src_gen.pdbx_gene_src_cell_line ?
+_entity_src_gen.pdbx_gene_src_atcc ?
+_entity_src_gen.pdbx_gene_src_organ ?
+_entity_src_gen.pdbx_gene_src_organelle ?
+_entity_src_gen.pdbx_gene_src_cell ?
+_entity_src_gen.pdbx_gene_src_cellular_location ?
+_entity_src_gen.host_org_common_name ?
+_entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli BL21(DE3)'
+_entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008
+_entity_src_gen.host_org_genus Escherichia
+_entity_src_gen.pdbx_host_org_gene ?
+_entity_src_gen.pdbx_host_org_organ ?
+_entity_src_gen.host_org_species 'Escherichia coli'
+_entity_src_gen.pdbx_host_org_tissue ?
+_entity_src_gen.pdbx_host_org_tissue_fraction ?
+_entity_src_gen.pdbx_host_org_strain 'BL21(DE3)'
+_entity_src_gen.pdbx_host_org_variant ?
+_entity_src_gen.pdbx_host_org_cell_line ?
+_entity_src_gen.pdbx_host_org_atcc ?
+_entity_src_gen.pdbx_host_org_culture_collection ?
+_entity_src_gen.pdbx_host_org_cell ?
+_entity_src_gen.pdbx_host_org_organelle ?
+_entity_src_gen.pdbx_host_org_cellular_location ?
+_entity_src_gen.pdbx_host_org_vector_type plasmid
+_entity_src_gen.pdbx_host_org_vector ?
+_entity_src_gen.plasmid_name pRSET
+_entity_src_gen.plasmid_details ?
+_entity_src_gen.pdbx_description ?
+#
+_struct_ref.id 1
+_struct_ref.db_name UNP
+_struct_ref.db_code A4_HUMAN
+_struct_ref.pdbx_db_accession P05067
+_struct_ref.entity_id 1
+_struct_ref.pdbx_seq_one_letter_code DAEFRHDSGYEVHHQKLVFFAEDVGSNKGAIIGLMVGGVVIA
+_struct_ref.pdbx_align_begin 672
+_struct_ref.biol_id .
+#
+loop_
+_struct_ref_seq.align_id
+_struct_ref_seq.ref_id
+_struct_ref_seq.pdbx_PDB_id_code
+_struct_ref_seq.pdbx_strand_id
+_struct_ref_seq.seq_align_beg
+_struct_ref_seq.pdbx_seq_align_beg_ins_code
+_struct_ref_seq.seq_align_end
+_struct_ref_seq.pdbx_seq_align_end_ins_code
+_struct_ref_seq.pdbx_db_accession
+_struct_ref_seq.db_align_beg
+_struct_ref_seq.db_align_end
+_struct_ref_seq.pdbx_auth_seq_align_beg
+_struct_ref_seq.pdbx_auth_seq_align_end
+1 1 2BEG A 1 ? 42 ? P05067 672 713 1 42
+2 1 2BEG B 1 ? 42 ? P05067 672 713 1 42
+3 1 2BEG C 1 ? 42 ? P05067 672 713 1 42
+4 1 2BEG D 1 ? 42 ? P05067 672 713 1 42
+5 1 2BEG E 1 ? 42 ? P05067 672 713 1 42
+#
+loop_
+_chem_comp.id
+_chem_comp.type
+_chem_comp.mon_nstd_flag
+_chem_comp.name
+_chem_comp.pdbx_synonyms
+_chem_comp.formula
+_chem_comp.formula_weight
+LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.174
+VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.147
+PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.191
+ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.094
+GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.130
+ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.104
+GLY 'PEPTIDE LINKING' y GLYCINE ? 'C2 H5 N O2' 75.067
+SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093
+ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.119
+LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.197
+ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.174
+MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.207
+ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.210
+HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.164
+TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.191
+GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.146
+#
+_pdbx_nmr_details.entry_id 2BEG
+_pdbx_nmr_details.text
+;Restraints for the calculation of the structure were obtained form quenched hydrogen/deuterium exchange measurements, cryogenic electron microscopy, and pairwise mutagenesis studies in combination with Thioflavin T fluorescence. For details on the process, please refer to the original publication.
+;
+#
+_pdbx_nmr_ensemble.entry_id 2BEG
+_pdbx_nmr_ensemble.conformers_calculated_total_number 100
+_pdbx_nmr_ensemble.conformers_submitted_total_number 10
+_pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations'
+_pdbx_nmr_ensemble.average_constraints_per_residue ?
+_pdbx_nmr_ensemble.average_constraint_violations_per_residue ?
+_pdbx_nmr_ensemble.maximum_distance_constraint_violation ?
+_pdbx_nmr_ensemble.average_distance_constraint_violation ?
+_pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ?
+_pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ?
+_pdbx_nmr_ensemble.distance_constraint_violation_method ?
+_pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ?
+_pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ?
+_pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ?
+#
+_pdbx_nmr_representative.entry_id 2BEG
+_pdbx_nmr_representative.conformer_id 1
+_pdbx_nmr_representative.selection_criteria 'fewest violations'
+#
+loop_
+_pdbx_nmr_software.classification
+_pdbx_nmr_software.name
+_pdbx_nmr_software.version
+_pdbx_nmr_software.authors
+_pdbx_nmr_software.ordinal
+'structure solution' CYANA 1.0.6 'Guntert, P., Herrmann, T.' 1
+refinement CYANA 1.0.6 'Guntert, P., Herrmann, T.' 2
+#
+_exptl.entry_id 2BEG
+_exptl.method 'SOLUTION NMR'
+_exptl.crystals_number ?
+#
+_exptl_crystal.id 1
+#
+_diffrn.id 1
+_diffrn.ambient_temp ?
+_diffrn.ambient_temp_details ?
+_diffrn.crystal_id 1
+#
+_diffrn_radiation.diffrn_id 1
+_diffrn_radiation.wavelength_id 1
+_diffrn_radiation.monochromator ?
+_diffrn_radiation.pdbx_monochromatic_or_laue_m_l M
+_diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH'
+_diffrn_radiation.pdbx_scattering_type x-ray
+#
+_diffrn_radiation_wavelength.id 1
+_diffrn_radiation_wavelength.wavelength .
+_diffrn_radiation_wavelength.wt 1.0
+#
+_struct.entry_id 2BEG
+_struct.title
+;3D Structure of Alzheimer's Abeta(1-42) fibrils
+;
+_struct.pdbx_descriptor
+;Amyloid beta A4 protein (APP) (ABPP) (Alzheimer's disease amyloid protein) (Cerebral vascular amyloid peptide) (CVAP) (Protease nexin-II) (PN-II) (APPI)
+;
+_struct.pdbx_model_details ?
+_struct.pdbx_CASP_flag ?
+_struct.pdbx_model_type_details ?
+#
+_struct_keywords.entry_id 2BEG
+_struct_keywords.pdbx_keywords 'PROTEIN FIBRIL'
+_struct_keywords.text
+;alzheimer's, fibril, protofilament, beta-sandwich, quenched hydrogen/deuterium exchange, pairwise mutagenesis, PROTEIN FIBRIL
+;
+#
+loop_
+_struct_asym.id
+_struct_asym.pdbx_blank_PDB_chainid_flag
+_struct_asym.pdbx_modified
+_struct_asym.entity_id
+_struct_asym.details
+A N N 1 ?
+B N N 1 ?
+C N N 1 ?
+D N N 1 ?
+E N N 1 ?
+#
+_struct_biol.id 1
+#
+loop_
+_struct_sheet.id
+_struct_sheet.type
+_struct_sheet.number_strands
+_struct_sheet.details
+A ? 5 ?
+B ? 5 ?
+#
+loop_
+_struct_sheet_order.sheet_id
+_struct_sheet_order.range_id_1
+_struct_sheet_order.range_id_2
+_struct_sheet_order.offset
+_struct_sheet_order.sense
+A 1 2 ? parallel
+A 2 3 ? parallel
+A 3 4 ? parallel
+A 4 5 ? parallel
+B 1 2 ? parallel
+B 2 3 ? parallel
+B 3 4 ? parallel
+B 4 5 ? parallel
+#
+loop_
+_struct_sheet_range.sheet_id
+_struct_sheet_range.id
+_struct_sheet_range.beg_label_comp_id
+_struct_sheet_range.beg_label_asym_id
+_struct_sheet_range.beg_label_seq_id
+_struct_sheet_range.pdbx_beg_PDB_ins_code
+_struct_sheet_range.end_label_comp_id
+_struct_sheet_range.end_label_asym_id
+_struct_sheet_range.end_label_seq_id
+_struct_sheet_range.pdbx_end_PDB_ins_code
+_struct_sheet_range.symmetry
+_struct_sheet_range.beg_auth_comp_id
+_struct_sheet_range.beg_auth_asym_id
+_struct_sheet_range.beg_auth_seq_id
+_struct_sheet_range.end_auth_comp_id
+_struct_sheet_range.end_auth_asym_id
+_struct_sheet_range.end_auth_seq_id
+A 1 VAL A 18 ? SER A 26 ? ? VAL A 18 SER A 26
+A 2 VAL B 18 ? SER B 26 ? ? VAL B 18 SER B 26
+A 3 VAL C 18 ? SER C 26 ? ? VAL C 18 SER C 26
+A 4 VAL D 18 ? SER D 26 ? ? VAL D 18 SER D 26
+A 5 VAL E 18 ? SER E 26 ? ? VAL E 18 SER E 26
+B 1 ILE A 31 ? ILE A 41 ? ? ILE A 31 ILE A 41
+B 2 ILE B 31 ? ILE B 41 ? ? ILE B 31 ILE B 41
+B 3 ILE C 31 ? ILE C 41 ? ? ILE C 31 ILE C 41
+B 4 ILE D 31 ? ILE D 41 ? ? ILE D 31 ILE D 41
+B 5 ILE E 31 ? ILE E 41 ? ? ILE E 31 ILE E 41
+#
+loop_
+_pdbx_struct_sheet_hbond.sheet_id
+_pdbx_struct_sheet_hbond.range_id_1
+_pdbx_struct_sheet_hbond.range_id_2
+_pdbx_struct_sheet_hbond.range_1_label_atom_id
+_pdbx_struct_sheet_hbond.range_1_label_comp_id
+_pdbx_struct_sheet_hbond.range_1_label_asym_id
+_pdbx_struct_sheet_hbond.range_1_label_seq_id
+_pdbx_struct_sheet_hbond.range_1_PDB_ins_code
+_pdbx_struct_sheet_hbond.range_1_auth_atom_id
+_pdbx_struct_sheet_hbond.range_1_auth_comp_id
+_pdbx_struct_sheet_hbond.range_1_auth_asym_id
+_pdbx_struct_sheet_hbond.range_1_auth_seq_id
+_pdbx_struct_sheet_hbond.range_2_label_atom_id
+_pdbx_struct_sheet_hbond.range_2_label_comp_id
+_pdbx_struct_sheet_hbond.range_2_label_asym_id
+_pdbx_struct_sheet_hbond.range_2_label_seq_id
+_pdbx_struct_sheet_hbond.range_2_PDB_ins_code
+_pdbx_struct_sheet_hbond.range_2_auth_atom_id
+_pdbx_struct_sheet_hbond.range_2_auth_comp_id
+_pdbx_struct_sheet_hbond.range_2_auth_asym_id
+_pdbx_struct_sheet_hbond.range_2_auth_seq_id
+A 1 2 N PHE A 20 ? N PHE A 20 O PHE B 19 ? O PHE B 19
+A 2 3 N SER B 26 ? N SER B 26 O GLY C 25 ? O GLY C 25
+A 3 4 N PHE C 20 ? N PHE C 20 O PHE D 19 ? O PHE D 19
+A 4 5 N VAL D 24 ? N VAL D 24 O ASP E 23 ? O ASP E 23
+B 1 2 N VAL A 39 ? N VAL A 39 O GLY B 38 ? O GLY B 38
+B 2 3 N VAL B 39 ? N VAL B 39 O GLY C 38 ? O GLY C 38
+B 3 4 N MET C 35 ? N MET C 35 O VAL D 36 ? O VAL D 36
+B 4 5 N GLY D 33 ? N GLY D 33 O LEU E 34 ? O LEU E 34
+#
+_database_PDB_matrix.entry_id 2BEG
+_database_PDB_matrix.origx[1][1] 1.000000
+_database_PDB_matrix.origx[1][2] 0.000000
+_database_PDB_matrix.origx[1][3] 0.000000
+_database_PDB_matrix.origx[2][1] 0.000000
+_database_PDB_matrix.origx[2][2] 1.000000
+_database_PDB_matrix.origx[2][3] 0.000000
+_database_PDB_matrix.origx[3][1] 0.000000
+_database_PDB_matrix.origx[3][2] 0.000000
+_database_PDB_matrix.origx[3][3] 1.000000
+_database_PDB_matrix.origx_vector[1] 0.00000
+_database_PDB_matrix.origx_vector[2] 0.00000
+_database_PDB_matrix.origx_vector[3] 0.00000
+#
+_atom_sites.entry_id 2BEG
+_atom_sites.Cartn_transform_axes ?
+_atom_sites.fract_transf_matrix[1][1] 1.000000
+_atom_sites.fract_transf_matrix[1][2] 0.000000
+_atom_sites.fract_transf_matrix[1][3] 0.000000
+_atom_sites.fract_transf_matrix[2][1] 0.000000
+_atom_sites.fract_transf_matrix[2][2] 1.000000
+_atom_sites.fract_transf_matrix[2][3] 0.000000
+_atom_sites.fract_transf_matrix[3][1] 0.000000
+_atom_sites.fract_transf_matrix[3][2] 0.000000
+_atom_sites.fract_transf_matrix[3][3] 1.000000
+_atom_sites.fract_transf_vector[1] 0.00000
+_atom_sites.fract_transf_vector[2] 0.00000
+_atom_sites.fract_transf_vector[3] 0.00000
+#
+loop_
+_atom_type.symbol
+N
+C
+O
+H
+S
+#
+loop_
+_atom_site.group_PDB
+_atom_site.id
+_atom_site.type_symbol
+_atom_site.label_atom_id
+_atom_site.label_alt_id
+_atom_site.label_comp_id
+_atom_site.label_asym_id
+_atom_site.label_entity_id
+_atom_site.label_seq_id
+_atom_site.pdbx_PDB_ins_code
+_atom_site.Cartn_x
+_atom_site.Cartn_y
+_atom_site.Cartn_z
+_atom_site.occupancy
+_atom_site.B_iso_or_equiv
+_atom_site.Cartn_x_esd
+_atom_site.Cartn_y_esd
+_atom_site.Cartn_z_esd
+_atom_site.occupancy_esd
+_atom_site.B_iso_or_equiv_esd
+_atom_site.pdbx_formal_charge
+_atom_site.auth_seq_id
+_atom_site.auth_comp_id
+_atom_site.auth_asym_id
+_atom_site.auth_atom_id
+_atom_site.pdbx_PDB_model_num
+ATOM 1 N N . LEU A 1 17 ? -16.074 -6.064 -3.588 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 1
+ATOM 2 C CA . LEU A 1 17 ? -15.394 -4.793 -3.408 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 1
+ATOM 3 C C . LEU A 1 17 ? -14.229 -4.977 -2.434 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 1
+ATOM 4 O O . LEU A 1 17 ? -14.238 -4.420 -1.337 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 1
+ATOM 5 C CB . LEU A 1 17 ? -16.387 -3.710 -2.982 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 1
+ATOM 6 C CG . LEU A 1 17 ? -17.448 -3.328 -4.016 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 1
+ATOM 7 C CD1 . LEU A 1 17 ? -18.857 -3.570 -3.471 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 1
+ATOM 8 C CD2 . LEU A 1 17 ? -17.257 -1.886 -4.490 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 1
+ATOM 9 H H . LEU A 1 17 ? -16.261 -6.313 -4.539 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 1
+ATOM 10 H HA . LEU A 1 17 ? -14.992 -4.498 -4.377 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 1
+ATOM 11 H HB2 . LEU A 1 17 ? -16.895 -4.046 -2.077 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 1
+ATOM 12 H HB3 . LEU A 1 17 ? -15.826 -2.814 -2.718 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 1
+ATOM 13 H HG . LEU A 1 17 ? -17.324 -3.972 -4.886 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 1
+ATOM 14 H HD11 . LEU A 1 17 ? -19.509 -2.751 -3.775 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 1
+ATOM 15 H HD12 . LEU A 1 17 ? -19.244 -4.509 -3.868 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 1
+ATOM 16 H HD13 . LEU A 1 17 ? -18.822 -3.623 -2.383 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 1
+ATOM 17 H HD21 . LEU A 1 17 ? -18.008 -1.248 -4.025 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 1
+ATOM 18 H HD22 . LEU A 1 17 ? -16.262 -1.540 -4.209 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 1
+ATOM 19 H HD23 . LEU A 1 17 ? -17.364 -1.843 -5.574 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 1
+ATOM 20 N N . VAL A 1 18 ? -13.253 -5.760 -2.870 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 1
+ATOM 21 C CA . VAL A 1 18 ? -12.083 -6.024 -2.050 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 1
+ATOM 22 C C . VAL A 1 18 ? -10.893 -5.231 -2.596 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 1
+ATOM 23 O O . VAL A 1 18 ? -10.863 -4.885 -3.776 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 1
+ATOM 24 C CB . VAL A 1 18 ? -11.818 -7.529 -1.985 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 1
+ATOM 25 C CG1 . VAL A 1 18 ? -13.115 -8.304 -1.739 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 1
+ATOM 26 C CG2 . VAL A 1 18 ? -11.119 -8.019 -3.255 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 1
+ATOM 27 H H . VAL A 1 18 ? -13.253 -6.209 -3.763 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 1
+ATOM 28 H HA . VAL A 1 18 ? -12.303 -5.676 -1.041 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 1
+ATOM 29 H HB . VAL A 1 18 ? -11.152 -7.716 -1.143 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 1
+ATOM 30 H HG11 . VAL A 1 18 ? -12.943 -9.070 -0.983 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 1
+ATOM 31 H HG12 . VAL A 1 18 ? -13.888 -7.617 -1.393 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 1
+ATOM 32 H HG13 . VAL A 1 18 ? -13.438 -8.775 -2.667 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 1
+ATOM 33 H HG21 . VAL A 1 18 ? -10.040 -8.005 -3.103 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 1
+ATOM 34 H HG22 . VAL A 1 18 ? -11.442 -9.035 -3.478 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 1
+ATOM 35 H HG23 . VAL A 1 18 ? -11.378 -7.364 -4.087 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 1
+ATOM 36 N N . PHE A 1 19 ? -9.943 -4.966 -1.711 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 1
+ATOM 37 C CA . PHE A 1 19 ? -8.755 -4.221 -2.089 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 1
+ATOM 38 C C . PHE A 1 19 ? -7.485 -4.971 -1.683 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 1
+ATOM 39 O O . PHE A 1 19 ? -7.200 -5.119 -0.495 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 1
+ATOM 40 C CB . PHE A 1 19 ? -8.807 -2.887 -1.342 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 1
+ATOM 41 C CG . PHE A 1 19 ? -9.070 -1.679 -2.243 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 1
+ATOM 42 C CD1 . PHE A 1 19 ? -10.331 -1.421 -2.683 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 1
+ATOM 43 C CD2 . PHE A 1 19 ? -8.044 -0.862 -2.602 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 1
+ATOM 44 C CE1 . PHE A 1 19 ? -10.575 -0.299 -3.519 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 1
+ATOM 45 C CE2 . PHE A 1 19 ? -8.288 0.259 -3.438 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 1
+ATOM 46 C CZ . PHE A 1 19 ? -9.549 0.517 -3.879 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 1
+ATOM 47 H H . PHE A 1 19 ? -9.976 -5.252 -0.753 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 1
+ATOM 48 H HA . PHE A 1 19 ? -8.776 -4.107 -3.173 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 1
+ATOM 49 H HB2 . PHE A 1 19 ? -9.587 -2.938 -0.582 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 1
+ATOM 50 H HB3 . PHE A 1 19 ? -7.862 -2.738 -0.819 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 1
+ATOM 51 H HD1 . PHE A 1 19 ? -11.153 -2.075 -2.395 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 1
+ATOM 52 H HD2 . PHE A 1 19 ? -7.033 -1.069 -2.249 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 1
+ATOM 53 H HE1 . PHE A 1 19 ? -11.585 -0.093 -3.872 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 1
+ATOM 54 H HE2 . PHE A 1 19 ? -7.466 0.914 -3.727 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 1
+ATOM 55 H HZ . PHE A 1 19 ? -9.736 1.378 -4.521 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 1
+ATOM 56 N N . PHE A 1 20 ? -6.755 -5.423 -2.692 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 1
+ATOM 57 C CA . PHE A 1 20 ? -5.521 -6.154 -2.454 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 1
+ATOM 58 C C . PHE A 1 20 ? -4.302 -5.309 -2.830 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 1
+ATOM 59 O O . PHE A 1 20 ? -3.700 -5.516 -3.882 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 1
+ATOM 60 C CB . PHE A 1 20 ? -5.560 -7.397 -3.345 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 1
+ATOM 61 C CG . PHE A 1 20 ? -5.908 -8.687 -2.599 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 1
+ATOM 62 C CD1 . PHE A 1 20 ? -7.120 -8.818 -1.996 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 1
+ATOM 63 C CD2 . PHE A 1 20 ? -5.005 -9.703 -2.539 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 1
+ATOM 64 C CE1 . PHE A 1 20 ? -7.443 -10.015 -1.304 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 1
+ATOM 65 C CE2 . PHE A 1 20 ? -5.328 -10.899 -1.846 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 1
+ATOM 66 C CZ . PHE A 1 20 ? -6.540 -11.030 -1.244 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 1
+ATOM 67 H H . PHE A 1 20 ? -6.993 -5.298 -3.655 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 1
+ATOM 68 H HA . PHE A 1 20 ? -5.484 -6.389 -1.391 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 1
+ATOM 69 H HB2 . PHE A 1 20 ? -6.290 -7.241 -4.139 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 1
+ATOM 70 H HB3 . PHE A 1 20 ? -4.588 -7.518 -3.825 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 1
+ATOM 71 H HD1 . PHE A 1 20 ? -7.843 -8.004 -2.045 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 1
+ATOM 72 H HD2 . PHE A 1 20 ? -4.033 -9.598 -3.022 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 1
+ATOM 73 H HE1 . PHE A 1 20 ? -8.414 -10.120 -0.821 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 1
+ATOM 74 H HE2 . PHE A 1 20 ? -4.604 -11.713 -1.798 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 1
+ATOM 75 H HZ . PHE A 1 20 ? -6.788 -11.949 -0.712 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 1
+ATOM 76 N N . ALA A 1 21 ? -3.975 -4.375 -1.949 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 1
+ATOM 77 C CA . ALA A 1 21 ? -2.839 -3.498 -2.175 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 1
+ATOM 78 C C . ALA A 1 21 ? -1.675 -3.940 -1.286 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 1
+ATOM 79 O O . ALA A 1 21 ? -1.840 -4.108 -0.079 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 1
+ATOM 80 C CB . ALA A 1 21 ? -3.254 -2.048 -1.916 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 1
+ATOM 81 H H . ALA A 1 21 ? -4.471 -4.214 -1.096 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 1
+ATOM 82 H HA . ALA A 1 21 ? -2.546 -3.598 -3.220 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 1
+ATOM 83 H HB1 . ALA A 1 21 ? -2.363 -1.428 -1.819 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 1
+ATOM 84 H HB2 . ALA A 1 21 ? -3.858 -1.689 -2.749 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 1
+ATOM 85 H HB3 . ALA A 1 21 ? -3.835 -1.996 -0.996 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 1
+ATOM 86 N N . GLU A 1 22 ? -0.523 -4.115 -1.918 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 1
+ATOM 87 C CA . GLU A 1 22 ? 0.668 -4.534 -1.199 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 1
+ATOM 88 C C . GLU A 1 22 ? 1.924 -4.146 -1.982 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 1
+ATOM 89 O O . GLU A 1 22 ? 1.889 -4.046 -3.207 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 1
+ATOM 90 C CB . GLU A 1 22 ? 0.639 -6.037 -0.918 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 1
+ATOM 91 C CG . GLU A 1 22 ? 1.010 -6.836 -2.169 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 1
+ATOM 92 C CD . GLU A 1 22 ? -0.054 -7.891 -2.481 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 1
+ATOM 93 O OE1 . GLU A 1 22 ? -1.110 -7.491 -3.017 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 1
+ATOM 94 O OE2 . GLU A 1 22 ? 0.214 -9.074 -2.177 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 1
+ATOM 95 H H . GLU A 1 22 ? -0.398 -3.976 -2.900 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 1
+ATOM 96 H HA . GLU A 1 22 ? 0.640 -3.993 -0.253 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 1
+ATOM 97 H HB2 . GLU A 1 22 ? 1.334 -6.274 -0.112 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 1
+ATOM 98 H HB3 . GLU A 1 22 ? -0.355 -6.328 -0.578 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 1
+ATOM 99 H HG2 . GLU A 1 22 ? 1.117 -6.160 -3.018 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 1
+ATOM 100 H HG3 . GLU A 1 22 ? 1.975 -7.320 -2.023 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 1
+ATOM 101 N N . ASP A 1 23 ? 3.003 -3.939 -1.242 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 1
+ATOM 102 C CA . ASP A 1 23 ? 4.268 -3.565 -1.852 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 1
+ATOM 103 C C . ASP A 1 23 ? 5.384 -4.444 -1.283 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 1
+ATOM 104 O O . ASP A 1 23 ? 5.845 -4.221 -0.165 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 1
+ATOM 105 C CB . ASP A 1 23 ? 4.615 -2.106 -1.550 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 1
+ATOM 106 C CG . ASP A 1 23 ? 5.991 -1.653 -2.042 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 1
+ATOM 107 O OD1 . ASP A 1 23 ? 6.158 -1.587 -3.279 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 1
+ATOM 108 O OD2 . ASP A 1 23 ? 6.845 -1.384 -1.170 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 1
+ATOM 109 H H . ASP A 1 23 ? 3.023 -4.023 -0.246 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 1
+ATOM 110 H HA . ASP A 1 23 ? 4.125 -3.714 -2.923 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 1
+ATOM 111 H HB2 . ASP A 1 23 ? 3.856 -1.467 -2.001 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 1
+ATOM 112 H HB3 . ASP A 1 23 ? 4.562 -1.952 -0.472 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 1
+ATOM 113 N N . VAL A 1 24 ? 5.784 -5.425 -2.079 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 1
+ATOM 114 C CA . VAL A 1 24 ? 6.837 -6.339 -1.668 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 1
+ATOM 115 C C . VAL A 1 24 ? 8.197 -5.672 -1.883 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 1
+ATOM 116 O O . VAL A 1 24 ? 8.513 -5.240 -2.991 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 1
+ATOM 117 C CB . VAL A 1 24 ? 6.698 -7.667 -2.414 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 1
+ATOM 118 C CG1 . VAL A 1 24 ? 7.835 -8.623 -2.049 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 1
+ATOM 119 C CG2 . VAL A 1 24 ? 5.335 -8.307 -2.144 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 1
+ATOM 120 H H . VAL A 1 24 ? 5.404 -5.600 -2.987 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 1
+ATOM 121 H HA . VAL A 1 24 ? 6.706 -6.534 -0.604 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 1
+ATOM 122 H HB . VAL A 1 24 ? 6.765 -7.460 -3.482 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 1
+ATOM 123 H HG11 . VAL A 1 24 ? 7.471 -9.365 -1.338 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 1
+ATOM 124 H HG12 . VAL A 1 24 ? 8.190 -9.126 -2.948 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 1
+ATOM 125 H HG13 . VAL A 1 24 ? 8.653 -8.060 -1.599 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 1
+ATOM 126 H HG21 . VAL A 1 24 ? 5.469 -9.213 -1.553 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 1
+ATOM 127 H HG22 . VAL A 1 24 ? 4.706 -7.605 -1.596 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 1
+ATOM 128 H HG23 . VAL A 1 24 ? 4.857 -8.559 -3.091 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 1
+ATOM 129 N N . GLY A 1 25 ? 8.967 -5.609 -0.806 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 1
+ATOM 130 C CA . GLY A 1 25 ? 10.286 -5.003 -0.863 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 1
+ATOM 131 C C . GLY A 1 25 ? 11.363 -5.990 -0.411 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 1
+ATOM 132 O O . GLY A 1 25 ? 11.488 -6.278 0.779 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 1
+ATOM 133 H H . GLY A 1 25 ? 8.702 -5.963 0.091 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 1
+ATOM 134 H HA2 . GLY A 1 25 ? 10.494 -4.672 -1.880 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 1
+ATOM 135 H HA3 . GLY A 1 25 ? 10.310 -4.117 -0.229 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 1
+ATOM 136 N N . SER A 1 26 ? 12.115 -6.483 -1.384 1.00 0.00 ? ? ? ? ? ? 26 SER A N 1
+ATOM 137 C CA . SER A 1 26 ? 13.178 -7.432 -1.102 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 1
+ATOM 138 C C . SER A 1 26 ? 14.525 -6.708 -1.043 1.00 0.00 ? ? ? ? ? ? 26 SER A C 1
+ATOM 139 O O . SER A 1 26 ? 15.125 -6.422 -2.078 1.00 0.00 ? ? ? ? ? ? 26 SER A O 1
+ATOM 140 C CB . SER A 1 26 ? 13.218 -8.543 -2.152 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 1
+ATOM 141 O OG . SER A 1 26 ? 14.047 -8.201 -3.260 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 1
+ATOM 142 H H . SER A 1 26 ? 12.008 -6.244 -2.349 1.00 0.00 ? ? ? ? ? ? 26 SER A H 1
+ATOM 143 H HA . SER A 1 26 ? 12.932 -7.861 -0.130 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 1
+ATOM 144 H HB2 . SER A 1 26 ? 13.586 -9.462 -1.695 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 1
+ATOM 145 H HB3 . SER A 1 26 ? 12.207 -8.745 -2.505 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 1
+ATOM 146 H HG . SER A 1 26 ? 15.010 -8.301 -3.010 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 1
+ATOM 147 N N . ASN A 1 27 ? 14.960 -6.433 0.178 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 1
+ATOM 148 C CA . ASN A 1 27 ? 16.224 -5.747 0.385 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 1
+ATOM 149 C C . ASN A 1 27 ? 16.146 -4.346 -0.224 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 1
+ATOM 150 O O . ASN A 1 27 ? 15.256 -4.063 -1.025 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 1
+ATOM 151 C CB . ASN A 1 27 ? 17.373 -6.495 -0.295 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 1
+ATOM 152 C CG . ASN A 1 27 ? 18.698 -6.236 0.426 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 1
+ATOM 153 O OD1 . ASN A 1 27 ? 18.741 -5.747 1.543 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 1
+ATOM 154 N ND2 . ASN A 1 27 ? 19.772 -6.590 -0.273 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 1
+ATOM 155 H H . ASN A 1 27 ? 14.465 -6.669 1.014 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 1
+ATOM 156 H HA . ASN A 1 27 ? 16.364 -5.725 1.466 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 1
+ATOM 157 H HB2 . ASN A 1 27 ? 17.162 -7.564 -0.303 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 1
+ATOM 158 H HB3 . ASN A 1 27 ? 17.453 -6.178 -1.335 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 1
+ATOM 159 H HD21 . ASN A 1 27 ? 19.667 -6.986 -1.185 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 1
+ATOM 160 H HD22 . ASN A 1 27 ? 20.685 -6.460 0.114 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 1
+ATOM 161 N N . LYS A 1 28 ? 17.088 -3.507 0.178 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 1
+ATOM 162 C CA . LYS A 1 28 ? 17.137 -2.142 -0.318 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 1
+ATOM 163 C C . LYS A 1 28 ? 15.841 -1.421 0.057 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 1
+ATOM 164 O O . LYS A 1 28 ? 14.769 -1.766 -0.439 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 1
+ATOM 165 C CB . LYS A 1 28 ? 17.437 -2.128 -1.818 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 1
+ATOM 166 C CG . LYS A 1 28 ? 18.915 -1.830 -2.079 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 1
+ATOM 167 C CD . LYS A 1 28 ? 19.189 -1.689 -3.578 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 1
+ATOM 168 C CE . LYS A 1 28 ? 20.147 -0.528 -3.853 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 1
+ATOM 169 N NZ . LYS A 1 28 ? 21.260 -0.969 -4.723 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 1
+ATOM 170 H H . LYS A 1 28 ? 17.808 -3.745 0.830 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 1
+ATOM 171 H HA . LYS A 1 28 ? 17.967 -1.642 0.181 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 1
+ATOM 172 H HB2 . LYS A 1 28 ? 17.174 -3.091 -2.255 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 1
+ATOM 173 H HB3 . LYS A 1 28 ? 16.818 -1.377 -2.310 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 1
+ATOM 174 H HG2 . LYS A 1 28 ? 19.200 -0.912 -1.566 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 1
+ATOM 175 H HG3 . LYS A 1 28 ? 19.529 -2.630 -1.667 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 1
+ATOM 176 H HD2 . LYS A 1 28 ? 19.616 -2.616 -3.962 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 1
+ATOM 177 H HD3 . LYS A 1 28 ? 18.252 -1.525 -4.109 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 1
+ATOM 178 H HE2 . LYS A 1 28 ? 19.608 0.291 -4.329 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 1
+ATOM 179 H HE3 . LYS A 1 28 ? 20.543 -0.145 -2.912 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 1
+ATOM 180 H HZ1 . LYS A 1 28 ? 20.959 -1.741 -5.283 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 1
+ATOM 181 H HZ2 . LYS A 1 28 ? 21.538 -0.214 -5.317 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 1
+ATOM 182 H HZ3 . LYS A 1 28 ? 22.035 -1.251 -4.156 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 1
+ATOM 183 N N . GLY A 1 29 ? 15.981 -0.434 0.929 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 1
+ATOM 184 C CA . GLY A 1 29 ? 14.834 0.339 1.376 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 1
+ATOM 185 C C . GLY A 1 29 ? 15.087 1.839 1.214 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 1
+ATOM 186 O O . GLY A 1 29 ? 14.263 2.553 0.646 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 1
+ATOM 187 H H . GLY A 1 29 ? 16.856 -0.160 1.327 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 1
+ATOM 188 H HA2 . GLY A 1 29 ? 13.952 0.051 0.803 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 1
+ATOM 189 H HA3 . GLY A 1 29 ? 14.624 0.112 2.421 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 1
+ATOM 190 N N . ALA A 1 30 ? 16.231 2.272 1.724 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 1
+ATOM 191 C CA . ALA A 1 30 ? 16.602 3.675 1.643 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 1
+ATOM 192 C C . ALA A 1 30 ? 15.381 4.541 1.957 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 1
+ATOM 193 O O . ALA A 1 30 ? 14.535 4.158 2.764 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 1
+ATOM 194 C CB . ALA A 1 30 ? 17.186 3.969 0.260 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 1
+ATOM 195 H H . ALA A 1 30 ? 16.896 1.685 2.184 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 1
+ATOM 196 H HA . ALA A 1 30 ? 17.371 3.858 2.394 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 1
+ATOM 197 H HB1 . ALA A 1 30 ? 16.395 3.910 -0.488 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 1
+ATOM 198 H HB2 . ALA A 1 30 ? 17.618 4.970 0.253 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 1
+ATOM 199 H HB3 . ALA A 1 30 ? 17.960 3.238 0.028 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 1
+ATOM 200 N N . ILE A 1 31 ? 15.327 5.691 1.303 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 1
+ATOM 201 C CA . ILE A 1 31 ? 14.223 6.615 1.502 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 1
+ATOM 202 C C . ILE A 1 31 ? 12.992 6.100 0.754 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 1
+ATOM 203 O O . ILE A 1 31 ? 12.929 6.179 -0.472 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 1
+ATOM 204 C CB . ILE A 1 31 ? 14.634 8.035 1.107 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 1
+ATOM 205 C CG1 . ILE A 1 31 ? 15.942 8.437 1.792 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 1
+ATOM 206 C CG2 . ILE A 1 31 ? 13.508 9.031 1.392 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 1
+ATOM 207 C CD1 . ILE A 1 31 ? 16.956 8.960 0.772 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 1
+ATOM 208 H H . ILE A 1 31 ? 16.019 5.995 0.648 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 1
+ATOM 209 H HA . ILE A 1 31 ? 13.998 6.629 2.569 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 1
+ATOM 210 H HB . ILE A 1 31 ? 14.815 8.051 0.033 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 1
+ATOM 211 H HG12 . ILE A 1 31 ? 15.744 9.205 2.539 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 1
+ATOM 212 H HG13 . ILE A 1 31 ? 16.360 7.580 2.319 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 1
+ATOM 213 H HG21 . ILE A 1 31 ? 13.651 9.469 2.380 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 1
+ATOM 214 H HG22 . ILE A 1 31 ? 13.521 9.819 0.639 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 1
+ATOM 215 H HG23 . ILE A 1 31 ? 12.549 8.514 1.359 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 1
+ATOM 216 H HD11 . ILE A 1 31 ? 17.243 8.152 0.099 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 1
+ATOM 217 H HD12 . ILE A 1 31 ? 16.509 9.770 0.197 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 1
+ATOM 218 H HD13 . ILE A 1 31 ? 17.839 9.329 1.294 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 1
+ATOM 219 N N . ILE A 1 32 ? 12.044 5.585 1.523 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 1
+ATOM 220 C CA . ILE A 1 32 ? 10.818 5.058 0.948 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 1
+ATOM 221 C C . ILE A 1 32 ? 9.617 5.658 1.680 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 1
+ATOM 222 O O . ILE A 1 32 ? 9.660 5.853 2.894 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 1
+ATOM 223 C CB . ILE A 1 32 ? 10.839 3.528 0.951 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 1
+ATOM 224 C CG1 . ILE A 1 32 ? 9.617 2.961 0.227 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 1
+ATOM 225 C CG2 . ILE A 1 32 ? 10.964 2.985 2.376 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 1
+ATOM 226 C CD1 . ILE A 1 32 ? 8.406 2.901 1.159 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 1
+ATOM 227 H H . ILE A 1 32 ? 12.103 5.525 2.519 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 1
+ATOM 228 H HA . ILE A 1 32 ? 10.782 5.377 -0.094 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 1
+ATOM 229 H HB . ILE A 1 32 ? 11.721 3.197 0.402 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 1
+ATOM 230 H HG12 . ILE A 1 32 ? 9.383 3.580 -0.639 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 1
+ATOM 231 H HG13 . ILE A 1 32 ? 9.842 1.962 -0.147 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 1
+ATOM 232 H HG21 . ILE A 1 32 ? 10.423 2.042 2.454 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 1
+ATOM 233 H HG22 . ILE A 1 32 ? 12.016 2.821 2.611 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 1
+ATOM 234 H HG23 . ILE A 1 32 ? 10.543 3.705 3.078 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 1
+ATOM 235 H HD11 . ILE A 1 32 ? 8.184 1.861 1.400 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 1
+ATOM 236 H HD12 . ILE A 1 32 ? 8.626 3.447 2.077 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 1
+ATOM 237 H HD13 . ILE A 1 32 ? 7.545 3.352 0.666 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 1
+ATOM 238 N N . GLY A 1 33 ? 8.573 5.933 0.912 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 1
+ATOM 239 C CA . GLY A 1 33 ? 7.361 6.507 1.474 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 1
+ATOM 240 C C . GLY A 1 33 ? 6.133 5.683 1.083 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 1
+ATOM 241 O O . GLY A 1 33 ? 5.704 5.710 -0.069 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 1
+ATOM 242 H H . GLY A 1 33 ? 8.546 5.771 -0.074 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 1
+ATOM 243 H HA2 . GLY A 1 33 ? 7.445 6.550 2.560 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 1
+ATOM 244 H HA3 . GLY A 1 33 ? 7.244 7.532 1.122 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 1
+ATOM 245 N N . LEU A 1 34 ? 5.601 4.971 2.065 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 1
+ATOM 246 C CA . LEU A 1 34 ? 4.430 4.141 1.839 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 1
+ATOM 247 C C . LEU A 1 34 ? 3.192 4.853 2.388 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 1
+ATOM 248 O O . LEU A 1 34 ? 2.859 4.709 3.564 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 1
+ATOM 249 C CB . LEU A 1 34 ? 4.644 2.742 2.420 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 1
+ATOM 250 C CG . LEU A 1 34 ? 3.730 1.642 1.876 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 1
+ATOM 251 C CD1 . LEU A 1 34 ? 2.392 2.221 1.411 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 1
+ATOM 252 C CD2 . LEU A 1 34 ? 4.427 0.849 0.768 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 1
+ATOM 253 H H . LEU A 1 34 ? 5.956 4.955 3.000 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 1
+ATOM 254 H HA . LEU A 1 34 ? 4.313 4.028 0.761 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 1
+ATOM 255 H HB2 . LEU A 1 34 ? 5.678 2.450 2.241 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 1
+ATOM 256 H HB3 . LEU A 1 34 ? 4.511 2.795 3.501 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 1
+ATOM 257 H HG . LEU A 1 34 ? 3.515 0.945 2.685 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 1
+ATOM 258 H HD11 . LEU A 1 34 ? 2.572 3.017 0.688 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 1
+ATOM 259 H HD12 . LEU A 1 34 ? 1.799 1.435 0.945 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 1
+ATOM 260 H HD13 . LEU A 1 34 ? 1.853 2.624 2.268 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 1
+ATOM 261 H HD21 . LEU A 1 34 ? 3.678 0.396 0.119 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 1
+ATOM 262 H HD22 . LEU A 1 34 ? 5.058 1.519 0.183 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 1
+ATOM 263 H HD23 . LEU A 1 34 ? 5.043 0.068 1.214 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 1
+ATOM 264 N N . MET A 1 35 ? 2.543 5.605 1.512 1.00 0.00 ? ? ? ? ? ? 35 MET A N 1
+ATOM 265 C CA . MET A 1 35 ? 1.349 6.339 1.894 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 1
+ATOM 266 C C . MET A 1 35 ? 0.092 5.673 1.331 1.00 0.00 ? ? ? ? ? ? 35 MET A C 1
+ATOM 267 O O . MET A 1 35 ? -0.066 5.564 0.116 1.00 0.00 ? ? ? ? ? ? 35 MET A O 1
+ATOM 268 C CB . MET A 1 35 ? 1.443 7.775 1.374 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 1
+ATOM 269 C CG . MET A 1 35 ? 2.468 8.581 2.174 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 1
+ATOM 270 S SD . MET A 1 35 ? 2.930 10.050 1.270 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 1
+ATOM 271 C CE . MET A 1 35 ? 4.707 9.893 1.310 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 1
+ATOM 272 H H . MET A 1 35 ? 2.820 5.716 0.557 1.00 0.00 ? ? ? ? ? ? 35 MET A H 1
+ATOM 273 H HA . MET A 1 35 ? 1.325 6.312 2.984 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 1
+ATOM 274 H HB2 . MET A 1 35 ? 1.724 7.766 0.321 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 1
+ATOM 275 H HB3 . MET A 1 35 ? 0.467 8.254 1.439 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 1
+ATOM 276 H HG2 . MET A 1 35 ? 2.051 8.857 3.142 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 1
+ATOM 277 H HG3 . MET A 1 35 ? 3.351 7.972 2.369 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 1
+ATOM 278 H HE1 . MET A 1 35 ? 5.159 10.748 0.808 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 1
+ATOM 279 H HE2 . MET A 1 35 ? 5.046 9.859 2.346 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 1
+ATOM 280 H HE3 . MET A 1 35 ? 5.003 8.975 0.801 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 1
+ATOM 281 N N . VAL A 1 36 ? -0.771 5.246 2.241 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 1
+ATOM 282 C CA . VAL A 1 36 ? -2.010 4.594 1.850 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 1
+ATOM 283 C C . VAL A 1 36 ? -3.190 5.319 2.499 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 1
+ATOM 284 O O . VAL A 1 36 ? -3.107 5.738 3.653 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 1
+ATOM 285 C CB . VAL A 1 36 ? -1.953 3.107 2.204 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 1
+ATOM 286 C CG1 . VAL A 1 36 ? -1.217 2.887 3.528 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 1
+ATOM 287 C CG2 . VAL A 1 36 ? -3.356 2.500 2.249 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 1
+ATOM 288 H H . VAL A 1 36 ? -0.636 5.339 3.227 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 1
+ATOM 289 H HA . VAL A 1 36 ? -2.099 4.679 0.767 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 1
+ATOM 290 H HB . VAL A 1 36 ? -1.392 2.597 1.421 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 1
+ATOM 291 H HG11 . VAL A 1 36 ? -1.794 3.327 4.342 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 1
+ATOM 292 H HG12 . VAL A 1 36 ? -1.098 1.818 3.704 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 1
+ATOM 293 H HG13 . VAL A 1 36 ? -0.236 3.359 3.481 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 1
+ATOM 294 H HG21 . VAL A 1 36 ? -3.869 2.700 1.309 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 1
+ATOM 295 H HG22 . VAL A 1 36 ? -3.282 1.423 2.400 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 1
+ATOM 296 H HG23 . VAL A 1 36 ? -3.918 2.943 3.071 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 1
+ATOM 297 N N . GLY A 1 37 ? -4.262 5.444 1.731 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 1
+ATOM 298 C CA . GLY A 1 37 ? -5.458 6.112 2.217 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 1
+ATOM 299 C C . GLY A 1 37 ? -6.697 5.242 2.000 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 1
+ATOM 300 O O . GLY A 1 37 ? -7.077 4.969 0.863 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 1
+ATOM 301 H H . GLY A 1 37 ? -4.321 5.101 0.794 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 1
+ATOM 302 H HA2 . GLY A 1 37 ? -5.347 6.335 3.278 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 1
+ATOM 303 H HA3 . GLY A 1 37 ? -5.582 7.064 1.702 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 1
+ATOM 304 N N . GLY A 1 38 ? -7.294 4.830 3.109 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 1
+ATOM 305 C CA . GLY A 1 38 ? -8.483 3.997 3.055 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 1
+ATOM 306 C C . GLY A 1 38 ? -9.728 4.791 3.456 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 1
+ATOM 307 O O . GLY A 1 38 ? -9.851 5.221 4.602 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 1
+ATOM 308 H H . GLY A 1 38 ? -6.978 5.056 4.031 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 1
+ATOM 309 H HA2 . GLY A 1 38 ? -8.609 3.602 2.047 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 1
+ATOM 310 H HA3 . GLY A 1 38 ? -8.363 3.141 3.720 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 1
+ATOM 311 N N . VAL A 1 39 ? -10.619 4.960 2.491 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 1
+ATOM 312 C CA . VAL A 1 39 ? -11.850 5.695 2.729 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 1
+ATOM 313 C C . VAL A 1 39 ? -13.043 4.830 2.315 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 1
+ATOM 314 O O . VAL A 1 39 ? -13.459 4.854 1.158 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 1
+ATOM 315 C CB . VAL A 1 39 ? -11.806 7.040 2.003 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 1
+ATOM 316 C CG1 . VAL A 1 39 ? -12.952 7.946 2.456 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 1
+ATOM 317 C CG2 . VAL A 1 39 ? -10.453 7.726 2.202 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 1
+ATOM 318 H H . VAL A 1 39 ? -10.511 4.607 1.562 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 1
+ATOM 319 H HA . VAL A 1 39 ? -11.914 5.891 3.800 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 1
+ATOM 320 H HB . VAL A 1 39 ? -11.931 6.849 0.937 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 1
+ATOM 321 H HG11 . VAL A 1 39 ? -12.644 8.508 3.338 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 1
+ATOM 322 H HG12 . VAL A 1 39 ? -13.206 8.639 1.654 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 1
+ATOM 323 H HG13 . VAL A 1 39 ? -13.823 7.337 2.699 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 1
+ATOM 324 H HG21 . VAL A 1 39 ? -9.955 7.302 3.074 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 1
+ATOM 325 H HG22 . VAL A 1 39 ? -9.833 7.571 1.318 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 1
+ATOM 326 H HG23 . VAL A 1 39 ? -10.606 8.795 2.354 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 1
+ATOM 327 N N . VAL A 1 40 ? -13.559 4.088 3.284 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 1
+ATOM 328 C CA . VAL A 1 40 ? -14.696 3.218 3.034 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 1
+ATOM 329 C C . VAL A 1 40 ? -15.971 3.892 3.544 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 1
+ATOM 330 O O . VAL A 1 40 ? -16.228 3.912 4.746 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 1
+ATOM 331 C CB . VAL A 1 40 ? -14.452 1.845 3.665 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 1
+ATOM 332 C CG1 . VAL A 1 40 ? -15.725 0.996 3.639 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 1
+ATOM 333 C CG2 . VAL A 1 40 ? -13.296 1.121 2.974 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 1
+ATOM 334 H H . VAL A 1 40 ? -13.214 4.074 4.222 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 1
+ATOM 335 H HA . VAL A 1 40 ? -14.777 3.083 1.956 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 1
+ATOM 336 H HB . VAL A 1 40 ? -14.175 2.000 4.708 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 1
+ATOM 337 H HG11 . VAL A 1 40 ? -15.462 -0.056 3.741 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 1
+ATOM 338 H HG12 . VAL A 1 40 ? -16.375 1.290 4.464 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 1
+ATOM 339 H HG13 . VAL A 1 40 ? -16.245 1.151 2.694 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 1
+ATOM 340 H HG21 . VAL A 1 40 ? -12.404 1.181 3.598 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 1
+ATOM 341 H HG22 . VAL A 1 40 ? -13.562 0.075 2.820 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 1
+ATOM 342 H HG23 . VAL A 1 40 ? -13.097 1.590 2.010 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 1
+ATOM 343 N N . ILE A 1 41 ? -16.734 4.429 2.604 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 1
+ATOM 344 C CA . ILE A 1 41 ? -17.976 5.103 2.943 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 1
+ATOM 345 C C . ILE A 1 41 ? -19.149 4.346 2.317 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 1
+ATOM 346 O O . ILE A 1 41 ? -19.280 4.298 1.095 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 1
+ATOM 347 C CB . ILE A 1 41 ? -17.912 6.578 2.542 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 1
+ATOM 348 C CG1 . ILE A 1 41 ? -16.779 7.297 3.277 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 1
+ATOM 349 C CG2 . ILE A 1 41 ? -19.262 7.265 2.758 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 1
+ATOM 350 C CD1 . ILE A 1 41 ? -16.518 8.676 2.668 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 1
+ATOM 351 H H . ILE A 1 41 ? -16.517 4.408 1.628 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 1
+ATOM 352 H HA . ILE A 1 41 ? -18.082 5.068 4.027 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 1
+ATOM 353 H HB . ILE A 1 41 ? -17.690 6.633 1.476 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 1
+ATOM 354 H HG12 . ILE A 1 41 ? -17.034 7.404 4.331 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 1
+ATOM 355 H HG13 . ILE A 1 41 ? -15.870 6.697 3.228 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 1
+ATOM 356 H HG21 . ILE A 1 41 ? -20.058 6.632 2.366 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 1
+ATOM 357 H HG22 . ILE A 1 41 ? -19.420 7.428 3.824 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 1
+ATOM 358 H HG23 . ILE A 1 41 ? -19.270 8.223 2.239 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 1
+ATOM 359 H HD11 . ILE A 1 41 ? -15.687 9.152 3.188 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 1
+ATOM 360 H HD12 . ILE A 1 41 ? -16.271 8.566 1.612 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 1
+ATOM 361 H HD13 . ILE A 1 41 ? -17.411 9.293 2.769 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 1
+ATOM 362 N N . ALA A 1 42 ? -19.973 3.775 3.183 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 1
+ATOM 363 C CA . ALA A 1 42 ? -21.131 3.023 2.730 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 1
+ATOM 364 C C . ALA A 1 42 ? -22.344 3.401 3.583 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 1
+ATOM 365 O O . ALA A 1 42 ? -22.656 2.722 4.560 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 1
+ATOM 366 C CB . ALA A 1 42 ? -20.822 1.525 2.787 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 1
+ATOM 367 H H . ALA A 1 42 ? -19.859 3.819 4.175 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 1
+ATOM 368 H HA . ALA A 1 42 ? -21.324 3.302 1.694 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 1
+ATOM 369 H HB1 . ALA A 1 42 ? -21.624 1.009 3.314 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 1
+ATOM 370 H HB2 . ALA A 1 42 ? -20.741 1.132 1.774 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 1
+ATOM 371 H HB3 . ALA A 1 42 ? -19.881 1.369 3.315 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 1
+ATOM 372 N N . LEU B 1 17 ? -15.873 -7.040 -8.510 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 1
+ATOM 373 C CA . LEU B 1 17 ? -15.576 -5.797 -7.820 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 1
+ATOM 374 C C . LEU B 1 17 ? -14.395 -6.014 -6.872 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 1
+ATOM 375 O O . LEU B 1 17 ? -14.586 -6.228 -5.676 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 1
+ATOM 376 C CB . LEU B 1 17 ? -16.828 -5.255 -7.128 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 1
+ATOM 377 C CG . LEU B 1 17 ? -18.077 -5.129 -8.004 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 1
+ATOM 378 C CD1 . LEU B 1 17 ? -19.180 -6.075 -7.526 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 1
+ATOM 379 C CD2 . LEU B 1 17 ? -18.555 -3.677 -8.070 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 1
+ATOM 380 H H . LEU B 1 17 ? -15.739 -7.016 -9.501 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 1
+ATOM 381 H HA . LEU B 1 17 ? -15.283 -5.066 -8.575 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 1
+ATOM 382 H HB2 . LEU B 1 17 ? -17.064 -5.906 -6.286 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 1
+ATOM 383 H HB3 . LEU B 1 17 ? -16.596 -4.273 -6.717 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 1
+ATOM 384 H HG . LEU B 1 17 ? -17.814 -5.428 -9.019 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 1
+ATOM 385 H HD11 . LEU B 1 17 ? -19.548 -5.742 -6.555 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 1
+ATOM 386 H HD12 . LEU B 1 17 ? -19.999 -6.070 -8.246 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 1
+ATOM 387 H HD13 . LEU B 1 17 ? -18.780 -7.084 -7.437 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 1
+ATOM 388 H HD21 . LEU B 1 17 ? -17.954 -3.129 -8.796 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 1
+ATOM 389 H HD22 . LEU B 1 17 ? -19.602 -3.653 -8.374 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 1
+ATOM 390 H HD23 . LEU B 1 17 ? -18.450 -3.215 -7.089 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 1
+ATOM 391 N N . VAL B 1 18 ? -13.200 -5.952 -7.442 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 1
+ATOM 392 C CA . VAL B 1 18 ? -11.989 -6.139 -6.662 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 1
+ATOM 393 C C . VAL B 1 18 ? -10.924 -5.148 -7.135 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 1
+ATOM 394 O O . VAL B 1 18 ? -10.922 -4.741 -8.296 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 1
+ATOM 395 C CB . VAL B 1 18 ? -11.530 -7.596 -6.750 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 1
+ATOM 396 C CG1 . VAL B 1 18 ? -12.702 -8.555 -6.533 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 1
+ATOM 397 C CG2 . VAL B 1 18 ? -10.836 -7.873 -8.085 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 1
+ATOM 398 H H . VAL B 1 18 ? -13.054 -5.778 -8.415 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 1
+ATOM 399 H HA . VAL B 1 18 ? -12.231 -5.924 -5.621 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 1
+ATOM 400 H HB . VAL B 1 18 ? -10.805 -7.768 -5.954 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 1
+ATOM 401 H HG11 . VAL B 1 18 ? -12.331 -9.499 -6.136 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 1
+ATOM 402 H HG12 . VAL B 1 18 ? -13.405 -8.114 -5.825 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 1
+ATOM 403 H HG13 . VAL B 1 18 ? -13.207 -8.733 -7.483 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 1
+ATOM 404 H HG21 . VAL B 1 18 ? -11.485 -7.561 -8.904 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 1
+ATOM 405 H HG22 . VAL B 1 18 ? -9.900 -7.315 -8.131 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 1
+ATOM 406 H HG23 . VAL B 1 18 ? -10.628 -8.939 -8.173 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 1
+ATOM 407 N N . PHE B 1 19 ? -10.045 -4.787 -6.212 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 1
+ATOM 408 C CA . PHE B 1 19 ? -8.977 -3.851 -6.521 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 1
+ATOM 409 C C . PHE B 1 19 ? -7.620 -4.402 -6.079 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 1
+ATOM 410 O O . PHE B 1 19 ? -7.286 -4.364 -4.895 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 1
+ATOM 411 C CB . PHE B 1 19 ? -9.271 -2.566 -5.744 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 1
+ATOM 412 C CG . PHE B 1 19 ? -9.270 -1.303 -6.607 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 1
+ATOM 413 C CD1 . PHE B 1 19 ? -8.093 -0.763 -7.022 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 1
+ATOM 414 C CD2 . PHE B 1 19 ? -10.447 -0.720 -6.959 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 1
+ATOM 415 C CE1 . PHE B 1 19 ? -8.092 0.409 -7.823 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 1
+ATOM 416 C CE2 . PHE B 1 19 ? -10.447 0.453 -7.760 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 1
+ATOM 417 C CZ . PHE B 1 19 ? -9.269 0.992 -8.175 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 1
+ATOM 418 H H . PHE B 1 19 ? -10.053 -5.123 -5.270 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 1
+ATOM 419 H HA . PHE B 1 19 ? -8.975 -3.708 -7.601 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 1
+ATOM 420 H HB2 . PHE B 1 19 ? -10.242 -2.661 -5.258 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 1
+ATOM 421 H HB3 . PHE B 1 19 ? -8.528 -2.454 -4.953 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 1
+ATOM 422 H HD1 . PHE B 1 19 ? -7.150 -1.231 -6.739 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 1
+ATOM 423 H HD2 . PHE B 1 19 ? -11.391 -1.152 -6.627 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 1
+ATOM 424 H HE1 . PHE B 1 19 ? -7.149 0.842 -8.155 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 1
+ATOM 425 H HE2 . PHE B 1 19 ? -11.390 0.920 -8.043 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 1
+ATOM 426 H HZ . PHE B 1 19 ? -9.269 1.892 -8.790 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 1
+ATOM 427 N N . PHE B 1 20 ? -6.874 -4.900 -7.053 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 1
+ATOM 428 C CA . PHE B 1 20 ? -5.560 -5.458 -6.779 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 1
+ATOM 429 C C . PHE B 1 20 ? -4.454 -4.489 -7.201 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 1
+ATOM 430 O O . PHE B 1 20 ? -4.410 -4.054 -8.351 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 1
+ATOM 431 C CB . PHE B 1 20 ? -5.439 -6.742 -7.603 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 1
+ATOM 432 C CG . PHE B 1 20 ? -5.635 -8.023 -6.790 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 1
+ATOM 433 C CD1 . PHE B 1 20 ? -6.889 -8.498 -6.562 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 1
+ATOM 434 C CD2 . PHE B 1 20 ? -4.556 -8.688 -6.297 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 1
+ATOM 435 C CE1 . PHE B 1 20 ? -7.072 -9.687 -5.807 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 1
+ATOM 436 C CE2 . PHE B 1 20 ? -4.739 -9.877 -5.543 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 1
+ATOM 437 C CZ . PHE B 1 20 ? -5.993 -10.352 -5.314 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 1
+ATOM 438 H H . PHE B 1 20 ? -7.152 -4.927 -8.013 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 1
+ATOM 439 H HA . PHE B 1 20 ? -5.499 -5.630 -5.705 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 1
+ATOM 440 H HB2 . PHE B 1 20 ? -6.174 -6.717 -8.406 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 1
+ATOM 441 H HB3 . PHE B 1 20 ? -4.455 -6.769 -8.072 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 1
+ATOM 442 H HD1 . PHE B 1 20 ? -7.754 -7.965 -6.957 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 1
+ATOM 443 H HD2 . PHE B 1 20 ? -3.551 -8.308 -6.480 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 1
+ATOM 444 H HE1 . PHE B 1 20 ? -8.077 -10.067 -5.624 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 1
+ATOM 445 H HE2 . PHE B 1 20 ? -3.874 -10.410 -5.147 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 1
+ATOM 446 H HZ . PHE B 1 20 ? -6.133 -11.265 -4.735 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 1
+ATOM 447 N N . ALA B 1 21 ? -3.587 -4.179 -6.248 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 1
+ATOM 448 C CA . ALA B 1 21 ? -2.484 -3.269 -6.507 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 1
+ATOM 449 C C . ALA B 1 21 ? -1.236 -3.766 -5.775 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 1
+ATOM 450 O O . ALA B 1 21 ? -0.927 -3.299 -4.680 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 1
+ATOM 451 C CB . ALA B 1 21 ? -2.881 -1.852 -6.086 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 1
+ATOM 452 H H . ALA B 1 21 ? -3.630 -4.537 -5.316 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 1
+ATOM 453 H HA . ALA B 1 21 ? -2.293 -3.276 -7.580 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 1
+ATOM 454 H HB1 . ALA B 1 21 ? -3.967 -1.781 -6.030 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 1
+ATOM 455 H HB2 . ALA B 1 21 ? -2.452 -1.630 -5.109 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 1
+ATOM 456 H HB3 . ALA B 1 21 ? -2.507 -1.137 -6.819 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 1
+ATOM 457 N N . GLU B 1 22 ? -0.553 -4.708 -6.409 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 1
+ATOM 458 C CA . GLU B 1 22 ? 0.654 -5.274 -5.832 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 1
+ATOM 459 C C . GLU B 1 22 ? 1.890 -4.747 -6.564 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 1
+ATOM 460 O O . GLU B 1 22 ? 1.868 -4.577 -7.782 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 1
+ATOM 461 C CB . GLU B 1 22 ? 0.611 -6.803 -5.860 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 1
+ATOM 462 C CG . GLU B 1 22 ? 0.866 -7.333 -7.273 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 1
+ATOM 463 C CD . GLU B 1 22 ? 0.645 -8.846 -7.339 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 1
+ATOM 464 O OE1 . GLU B 1 22 ? 1.372 -9.558 -6.613 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 1
+ATOM 465 O OE2 . GLU B 1 22 ? -0.246 -9.255 -8.114 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 1
+ATOM 466 H H . GLU B 1 22 ? -0.812 -5.083 -7.299 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 1
+ATOM 467 H HA . GLU B 1 22 ? 0.666 -4.936 -4.796 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 1
+ATOM 468 H HB2 . GLU B 1 22 ? 1.359 -7.204 -5.176 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 1
+ATOM 469 H HB3 . GLU B 1 22 ? -0.361 -7.149 -5.508 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 1
+ATOM 470 H HG2 . GLU B 1 22 ? 0.202 -6.834 -7.978 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 1
+ATOM 471 H HG3 . GLU B 1 22 ? 1.887 -7.097 -7.574 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 1
+ATOM 472 N N . ASP B 1 23 ? 2.938 -4.504 -5.791 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 1
+ATOM 473 C CA . ASP B 1 23 ? 4.180 -4.000 -6.351 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 1
+ATOM 474 C C . ASP B 1 23 ? 5.340 -4.881 -5.882 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 1
+ATOM 475 O O . ASP B 1 23 ? 5.814 -4.742 -4.755 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 1
+ATOM 476 C CB . ASP B 1 23 ? 4.454 -2.569 -5.883 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 1
+ATOM 477 C CG . ASP B 1 23 ? 5.859 -2.046 -6.190 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 1
+ATOM 478 O OD1 . ASP B 1 23 ? 6.590 -2.768 -6.903 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 1
+ATOM 479 O OD2 . ASP B 1 23 ? 6.171 -0.937 -5.705 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 1
+ATOM 480 H H . ASP B 1 23 ? 2.947 -4.645 -4.801 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 1
+ATOM 481 H HA . ASP B 1 23 ? 4.042 -4.033 -7.431 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 1
+ATOM 482 H HB2 . ASP B 1 23 ? 3.726 -1.905 -6.349 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 1
+ATOM 483 H HB3 . ASP B 1 23 ? 4.291 -2.516 -4.807 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 1
+ATOM 484 N N . VAL B 1 24 ? 5.764 -5.768 -6.770 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 1
+ATOM 485 C CA . VAL B 1 24 ? 6.859 -6.671 -6.462 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 1
+ATOM 486 C C . VAL B 1 24 ? 8.189 -5.939 -6.656 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 1
+ATOM 487 O O . VAL B 1 24 ? 8.827 -6.071 -7.699 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 1
+ATOM 488 C CB . VAL B 1 24 ? 6.746 -7.940 -7.309 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 1
+ATOM 489 C CG1 . VAL B 1 24 ? 7.883 -8.913 -6.994 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 1
+ATOM 490 C CG2 . VAL B 1 24 ? 5.383 -8.608 -7.116 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 1
+ATOM 491 H H . VAL B 1 24 ? 5.373 -5.874 -7.685 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 1
+ATOM 492 H HA . VAL B 1 24 ? 6.766 -6.955 -5.414 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 1
+ATOM 493 H HB . VAL B 1 24 ? 6.832 -7.652 -8.357 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 1
+ATOM 494 H HG11 . VAL B 1 24 ? 8.820 -8.516 -7.384 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 1
+ATOM 495 H HG12 . VAL B 1 24 ? 7.964 -9.040 -5.914 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 1
+ATOM 496 H HG13 . VAL B 1 24 ? 7.676 -9.877 -7.459 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 1
+ATOM 497 H HG21 . VAL B 1 24 ? 5.141 -9.201 -7.998 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 1
+ATOM 498 H HG22 . VAL B 1 24 ? 5.417 -9.256 -6.241 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 1
+ATOM 499 H HG23 . VAL B 1 24 ? 4.620 -7.843 -6.972 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 1
+ATOM 500 N N . GLY B 1 25 ? 8.566 -5.182 -5.636 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 1
+ATOM 501 C CA . GLY B 1 25 ? 9.808 -4.429 -5.682 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 1
+ATOM 502 C C . GLY B 1 25 ? 10.962 -5.239 -5.088 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 1
+ATOM 503 O O . GLY B 1 25 ? 11.039 -5.418 -3.874 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 1
+ATOM 504 H H . GLY B 1 25 ? 8.041 -5.080 -4.792 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 1
+ATOM 505 H HA2 . GLY B 1 25 ? 10.038 -4.164 -6.714 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 1
+ATOM 506 H HA3 . GLY B 1 25 ? 9.692 -3.496 -5.131 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 1
+ATOM 507 N N . SER B 1 26 ? 11.832 -5.705 -5.972 1.00 0.00 ? ? ? ? ? ? 26 SER B N 1
+ATOM 508 C CA . SER B 1 26 ? 12.979 -6.491 -5.550 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 1
+ATOM 509 C C . SER B 1 26 ? 14.231 -5.612 -5.513 1.00 0.00 ? ? ? ? ? ? 26 SER B C 1
+ATOM 510 O O . SER B 1 26 ? 14.725 -5.184 -6.555 1.00 0.00 ? ? ? ? ? ? 26 SER B O 1
+ATOM 511 C CB . SER B 1 26 ? 13.198 -7.688 -6.478 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 1
+ATOM 512 O OG . SER B 1 26 ? 14.417 -8.368 -6.193 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 1
+ATOM 513 H H . SER B 1 26 ? 11.763 -5.555 -6.958 1.00 0.00 ? ? ? ? ? ? 26 SER B H 1
+ATOM 514 H HA . SER B 1 26 ? 12.732 -6.848 -4.550 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 1
+ATOM 515 H HB2 . SER B 1 26 ? 12.364 -8.382 -6.378 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 1
+ATOM 516 H HB3 . SER B 1 26 ? 13.207 -7.347 -7.514 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 1
+ATOM 517 H HG . SER B 1 26 ? 14.228 -9.316 -5.937 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 1
+ATOM 518 N N . ASN B 1 27 ? 14.708 -5.369 -4.301 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 1
+ATOM 519 C CA . ASN B 1 27 ? 15.893 -4.548 -4.114 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 1
+ATOM 520 C C . ASN B 1 27 ? 15.611 -3.132 -4.619 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 1
+ATOM 521 O O . ASN B 1 27 ? 16.165 -2.708 -5.632 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 1
+ATOM 522 C CB . ASN B 1 27 ? 17.078 -5.105 -4.905 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 1
+ATOM 523 C CG . ASN B 1 27 ? 17.454 -6.506 -4.416 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 1
+ATOM 524 O OD1 . ASN B 1 27 ? 16.852 -7.501 -4.784 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 1
+ATOM 525 N ND2 . ASN B 1 27 ? 18.480 -6.526 -3.570 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 1
+ATOM 526 H H . ASN B 1 27 ? 14.300 -5.720 -3.458 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 1
+ATOM 527 H HA . ASN B 1 27 ? 16.095 -4.577 -3.044 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 1
+ATOM 528 H HB2 . ASN B 1 27 ? 16.829 -5.140 -5.965 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 1
+ATOM 529 H HB3 . ASN B 1 27 ? 17.934 -4.438 -4.801 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 1
+ATOM 530 H HD21 . ASN B 1 27 ? 18.930 -5.673 -3.310 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 1
+ATOM 531 H HD22 . ASN B 1 27 ? 18.801 -7.396 -3.195 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 1
+ATOM 532 N N . LYS B 1 28 ? 14.751 -2.438 -3.889 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 1
+ATOM 533 C CA . LYS B 1 28 ? 14.389 -1.077 -4.250 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 1
+ATOM 534 C C . LYS B 1 28 ? 15.560 -0.143 -3.937 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 1
+ATOM 535 O O . LYS B 1 28 ? 16.479 -0.003 -4.743 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 1
+ATOM 536 C CB . LYS B 1 28 ? 13.080 -0.672 -3.569 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 1
+ATOM 537 C CG . LYS B 1 28 ? 11.900 -1.463 -4.135 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 1
+ATOM 538 C CD . LYS B 1 28 ? 10.951 -1.907 -3.020 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 1
+ATOM 539 C CE . LYS B 1 28 ? 9.498 -1.586 -3.376 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 1
+ATOM 540 N NZ . LYS B 1 28 ? 8.579 -2.529 -2.700 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 1
+ATOM 541 H H . LYS B 1 28 ? 14.305 -2.789 -3.066 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 1
+ATOM 542 H HA . LYS B 1 28 ? 14.211 -1.061 -5.325 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 1
+ATOM 543 H HB2 . LYS B 1 28 ? 13.156 -0.844 -2.495 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 1
+ATOM 544 H HB3 . LYS B 1 28 ? 12.909 0.395 -3.709 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 1
+ATOM 545 H HG2 . LYS B 1 28 ? 11.358 -0.850 -4.855 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 1
+ATOM 546 H HG3 . LYS B 1 28 ? 12.267 -2.337 -4.674 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 1
+ATOM 547 H HD2 . LYS B 1 28 ? 11.060 -2.978 -2.849 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 1
+ATOM 548 H HD3 . LYS B 1 28 ? 11.220 -1.407 -2.089 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 1
+ATOM 549 H HE2 . LYS B 1 28 ? 9.262 -0.564 -3.081 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 1
+ATOM 550 H HE3 . LYS B 1 28 ? 9.361 -1.646 -4.456 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 1
+ATOM 551 H HZ1 . LYS B 1 28 ? 8.340 -2.172 -1.797 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 1
+ATOM 552 H HZ2 . LYS B 1 28 ? 7.748 -2.634 -3.247 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 1
+ATOM 553 H HZ3 . LYS B 1 28 ? 9.027 -3.418 -2.600 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 1
+ATOM 554 N N . GLY B 1 29 ? 15.489 0.471 -2.766 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 1
+ATOM 555 C CA . GLY B 1 29 ? 16.531 1.388 -2.337 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 1
+ATOM 556 C C . GLY B 1 29 ? 16.362 2.758 -2.997 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 1
+ATOM 557 O O . GLY B 1 29 ? 15.476 2.945 -3.829 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 1
+ATOM 558 H H . GLY B 1 29 ? 14.738 0.351 -2.116 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 1
+ATOM 559 H HA2 . GLY B 1 29 ? 16.501 1.497 -1.253 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 1
+ATOM 560 H HA3 . GLY B 1 29 ? 17.508 0.977 -2.589 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 1
+ATOM 561 N N . ALA B 1 30 ? 17.226 3.681 -2.600 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 1
+ATOM 562 C CA . ALA B 1 30 ? 17.183 5.028 -3.143 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 1
+ATOM 563 C C . ALA B 1 30 ? 15.870 5.698 -2.731 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 1
+ATOM 564 O O . ALA B 1 30 ? 15.375 5.475 -1.628 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 1
+ATOM 565 C CB . ALA B 1 30 ? 17.358 4.973 -4.662 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 1
+ATOM 566 H H . ALA B 1 30 ? 17.943 3.521 -1.923 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 1
+ATOM 567 H HA . ALA B 1 30 ? 18.016 5.586 -2.713 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 1
+ATOM 568 H HB1 . ALA B 1 30 ? 17.501 5.982 -5.048 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 1
+ATOM 569 H HB2 . ALA B 1 30 ? 18.229 4.364 -4.905 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 1
+ATOM 570 H HB3 . ALA B 1 30 ? 16.470 4.533 -5.114 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 1
+ATOM 571 N N . ILE B 1 31 ? 15.344 6.505 -3.641 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 1
+ATOM 572 C CA . ILE B 1 31 ? 14.099 7.209 -3.387 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 1
+ATOM 573 C C . ILE B 1 31 ? 12.949 6.465 -4.070 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 1
+ATOM 574 O O . ILE B 1 31 ? 12.921 6.349 -5.294 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 1
+ATOM 575 C CB . ILE B 1 31 ? 14.217 8.676 -3.805 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 1
+ATOM 576 C CG1 . ILE B 1 31 ? 15.424 9.340 -3.139 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 1
+ATOM 577 C CG2 . ILE B 1 31 ? 12.917 9.433 -3.522 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 1
+ATOM 578 C CD1 . ILE B 1 31 ? 16.606 9.423 -4.106 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 1
+ATOM 579 H H . ILE B 1 31 ? 15.754 6.681 -4.536 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 1
+ATOM 580 H HA . ILE B 1 31 ? 13.929 7.193 -2.310 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 1
+ATOM 581 H HB . ILE B 1 31 ? 14.383 8.712 -4.881 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 1
+ATOM 582 H HG12 . ILE B 1 31 ? 15.153 10.341 -2.803 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 1
+ATOM 583 H HG13 . ILE B 1 31 ? 15.712 8.774 -2.253 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 1
+ATOM 584 H HG21 . ILE B 1 31 ? 12.808 10.246 -4.240 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 1
+ATOM 585 H HG22 . ILE B 1 31 ? 12.072 8.750 -3.614 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 1
+ATOM 586 H HG23 . ILE B 1 31 ? 12.947 9.841 -2.512 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 1
+ATOM 587 H HD11 . ILE B 1 31 ? 16.582 8.570 -4.783 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 1
+ATOM 588 H HD12 . ILE B 1 31 ? 16.541 10.347 -4.682 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 1
+ATOM 589 H HD13 . ILE B 1 31 ? 17.539 9.413 -3.541 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 1
+ATOM 590 N N . ILE B 1 32 ? 12.029 5.981 -3.249 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 1
+ATOM 591 C CA . ILE B 1 32 ? 10.880 5.252 -3.759 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 1
+ATOM 592 C C . ILE B 1 32 ? 9.624 5.700 -3.010 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 1
+ATOM 593 O O . ILE B 1 32 ? 9.464 5.406 -1.826 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 1
+ATOM 594 C CB . ILE B 1 32 ? 11.130 3.744 -3.692 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 1
+ATOM 595 C CG1 . ILE B 1 32 ? 10.053 2.975 -4.460 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 1
+ATOM 596 C CG2 . ILE B 1 32 ? 11.249 3.271 -2.242 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 1
+ATOM 597 C CD1 . ILE B 1 32 ? 8.664 3.253 -3.881 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 1
+ATOM 598 H H . ILE B 1 32 ? 12.059 6.080 -2.254 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 1
+ATOM 599 H HA . ILE B 1 32 ? 10.768 5.514 -4.810 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 1
+ATOM 600 H HB . ILE B 1 32 ? 12.083 3.534 -4.178 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 1
+ATOM 601 H HG12 . ILE B 1 32 ? 10.076 3.261 -5.511 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 1
+ATOM 602 H HG13 . ILE B 1 32 ? 10.262 1.907 -4.415 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 1
+ATOM 603 H HG21 . ILE B 1 32 ? 12.194 2.744 -2.108 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 1
+ATOM 604 H HG22 . ILE B 1 32 ? 11.216 4.133 -1.575 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 1
+ATOM 605 H HG23 . ILE B 1 32 ? 10.422 2.600 -2.010 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 1
+ATOM 606 H HD11 . ILE B 1 32 ? 8.744 3.416 -2.806 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 1
+ATOM 607 H HD12 . ILE B 1 32 ? 8.245 4.142 -4.352 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 1
+ATOM 608 H HD13 . ILE B 1 32 ? 8.013 2.400 -4.072 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 1
+ATOM 609 N N . GLY B 1 33 ? 8.764 6.406 -3.730 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 1
+ATOM 610 C CA . GLY B 1 33 ? 7.527 6.898 -3.149 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 1
+ATOM 611 C C . GLY B 1 33 ? 6.348 5.997 -3.524 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 1
+ATOM 612 O O . GLY B 1 33 ? 6.304 5.455 -4.627 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 1
+ATOM 613 H H . GLY B 1 33 ? 8.902 6.641 -4.692 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 1
+ATOM 614 H HA2 . GLY B 1 33 ? 7.623 6.943 -2.064 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 1
+ATOM 615 H HA3 . GLY B 1 33 ? 7.337 7.914 -3.494 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 1
+ATOM 616 N N . LEU B 1 34 ? 5.422 5.866 -2.586 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 1
+ATOM 617 C CA . LEU B 1 34 ? 4.247 5.041 -2.805 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 1
+ATOM 618 C C . LEU B 1 34 ? 3.011 5.769 -2.271 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 1
+ATOM 619 O O . LEU B 1 34 ? 2.982 6.183 -1.113 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 1
+ATOM 620 C CB . LEU B 1 34 ? 4.449 3.650 -2.201 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 1
+ATOM 621 C CG . LEU B 1 34 ? 4.135 2.468 -3.121 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 1
+ATOM 622 C CD1 . LEU B 1 34 ? 4.987 1.250 -2.758 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 1
+ATOM 623 C CD2 . LEU B 1 34 ? 2.639 2.145 -3.108 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 1
+ATOM 624 H H . LEU B 1 34 ? 5.466 6.311 -1.691 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 1
+ATOM 625 H HA . LEU B 1 34 ? 4.134 4.912 -3.881 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 1
+ATOM 626 H HB2 . LEU B 1 34 ? 5.485 3.564 -1.874 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 1
+ATOM 627 H HB3 . LEU B 1 34 ? 3.826 3.567 -1.311 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 1
+ATOM 628 H HG . LEU B 1 34 ? 4.395 2.750 -4.141 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 1
+ATOM 629 H HD11 . LEU B 1 34 ? 5.778 1.551 -2.072 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 1
+ATOM 630 H HD12 . LEU B 1 34 ? 4.359 0.496 -2.281 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 1
+ATOM 631 H HD13 . LEU B 1 34 ? 5.430 0.833 -3.663 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 1
+ATOM 632 H HD21 . LEU B 1 34 ? 2.429 1.429 -2.314 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 1
+ATOM 633 H HD22 . LEU B 1 34 ? 2.072 3.060 -2.932 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 1
+ATOM 634 H HD23 . LEU B 1 34 ? 2.352 1.718 -4.069 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 1
+ATOM 635 N N . MET B 1 35 ? 2.021 5.903 -3.141 1.00 0.00 ? ? ? ? ? ? 35 MET B N 1
+ATOM 636 C CA . MET B 1 35 ? 0.786 6.574 -2.772 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 1
+ATOM 637 C C . MET B 1 35 ? -0.427 5.857 -3.369 1.00 0.00 ? ? ? ? ? ? 35 MET B C 1
+ATOM 638 O O . MET B 1 35 ? -0.674 5.944 -4.571 1.00 0.00 ? ? ? ? ? ? 35 MET B O 1
+ATOM 639 C CB . MET B 1 35 ? 0.822 8.020 -3.270 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 1
+ATOM 640 C CG . MET B 1 35 ? 0.479 8.997 -2.144 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 1
+ATOM 641 S SD . MET B 1 35 ? 0.285 10.644 -2.802 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 1
+ATOM 642 C CE . MET B 1 35 ? -0.625 11.406 -1.469 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 1
+ATOM 643 H H . MET B 1 35 ? 2.053 5.563 -4.081 1.00 0.00 ? ? ? ? ? ? 35 MET B H 1
+ATOM 644 H HA . MET B 1 35 ? 0.743 6.530 -1.683 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 1
+ATOM 645 H HB2 . MET B 1 35 ? 1.812 8.248 -3.665 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 1
+ATOM 646 H HB3 . MET B 1 35 ? 0.115 8.143 -4.091 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 1
+ATOM 647 H HG2 . MET B 1 35 ? -0.439 8.684 -1.647 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 1
+ATOM 648 H HG3 . MET B 1 35 ? 1.267 8.987 -1.391 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 1
+ATOM 649 H HE1 . MET B 1 35 ? -0.434 10.864 -0.543 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 1
+ATOM 650 H HE2 . MET B 1 35 ? -0.305 12.442 -1.356 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 1
+ATOM 651 H HE3 . MET B 1 35 ? -1.691 11.377 -1.694 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 1
+ATOM 652 N N . VAL B 1 36 ? -1.151 5.166 -2.502 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 1
+ATOM 653 C CA . VAL B 1 36 ? -2.333 4.435 -2.929 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 1
+ATOM 654 C C . VAL B 1 36 ? -3.564 5.007 -2.223 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 1
+ATOM 655 O O . VAL B 1 36 ? -3.600 5.085 -0.996 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 1
+ATOM 656 C CB . VAL B 1 36 ? -2.141 2.938 -2.677 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 1
+ATOM 657 C CG1 . VAL B 1 36 ? -1.331 2.696 -1.402 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 1
+ATOM 658 C CG2 . VAL B 1 36 ? -3.488 2.215 -2.617 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 1
+ATOM 659 H H . VAL B 1 36 ? -0.944 5.100 -1.526 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 1
+ATOM 660 H HA . VAL B 1 36 ? -2.442 4.585 -4.003 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 1
+ATOM 661 H HB . VAL B 1 36 ? -1.577 2.527 -3.515 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 1
+ATOM 662 H HG11 . VAL B 1 36 ? -1.858 3.126 -0.550 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 1
+ATOM 663 H HG12 . VAL B 1 36 ? -1.207 1.624 -1.248 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 1
+ATOM 664 H HG13 . VAL B 1 36 ? -0.352 3.165 -1.498 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 1
+ATOM 665 H HG21 . VAL B 1 36 ? -3.437 1.302 -3.210 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 1
+ATOM 666 H HG22 . VAL B 1 36 ? -3.720 1.964 -1.582 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 1
+ATOM 667 H HG23 . VAL B 1 36 ? -4.267 2.864 -3.016 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 1
+ATOM 668 N N . GLY B 1 37 ? -4.542 5.392 -3.029 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 1
+ATOM 669 C CA . GLY B 1 37 ? -5.772 5.955 -2.497 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 1
+ATOM 670 C C . GLY B 1 37 ? -6.945 4.992 -2.692 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 1
+ATOM 671 O O . GLY B 1 37 ? -7.371 4.748 -3.820 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 1
+ATOM 672 H H . GLY B 1 37 ? -4.505 5.326 -4.026 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 1
+ATOM 673 H HA2 . GLY B 1 37 ? -5.647 6.172 -1.436 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 1
+ATOM 674 H HA3 . GLY B 1 37 ? -5.987 6.902 -2.993 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 1
+ATOM 675 N N . GLY B 1 38 ? -7.433 4.471 -1.576 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 1
+ATOM 676 C CA . GLY B 1 38 ? -8.548 3.541 -1.610 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 1
+ATOM 677 C C . GLY B 1 38 ? -9.828 4.199 -1.091 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 1
+ATOM 678 O O . GLY B 1 38 ? -10.087 4.198 0.112 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 1
+ATOM 679 H H . GLY B 1 38 ? -7.081 4.675 -0.663 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 1
+ATOM 680 H HA2 . GLY B 1 38 ? -8.704 3.191 -2.631 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 1
+ATOM 681 H HA3 . GLY B 1 38 ? -8.314 2.665 -1.005 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 1
+ATOM 682 N N . VAL B 1 39 ? -10.595 4.745 -2.023 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 1
+ATOM 683 C CA . VAL B 1 39 ? -11.841 5.406 -1.675 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 1
+ATOM 684 C C . VAL B 1 39 ? -13.017 4.563 -2.173 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 1
+ATOM 685 O O . VAL B 1 39 ? -12.976 4.027 -3.279 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 1
+ATOM 686 C CB . VAL B 1 39 ? -11.851 6.832 -2.229 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 1
+ATOM 687 C CG1 . VAL B 1 39 ? -12.654 7.767 -1.323 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 1
+ATOM 688 C CG2 . VAL B 1 39 ? -10.426 7.352 -2.428 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 1
+ATOM 689 H H . VAL B 1 39 ? -10.377 4.742 -2.999 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 1
+ATOM 690 H HA . VAL B 1 39 ? -11.889 5.466 -0.587 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 1
+ATOM 691 H HB . VAL B 1 39 ? -12.338 6.810 -3.203 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 1
+ATOM 692 H HG11 . VAL B 1 39 ? -13.459 7.208 -0.846 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 1
+ATOM 693 H HG12 . VAL B 1 39 ? -11.998 8.184 -0.558 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 1
+ATOM 694 H HG13 . VAL B 1 39 ? -13.077 8.576 -1.919 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 1
+ATOM 695 H HG21 . VAL B 1 39 ? -9.896 7.334 -1.476 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 1
+ATOM 696 H HG22 . VAL B 1 39 ? -9.904 6.718 -3.145 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 1
+ATOM 697 H HG23 . VAL B 1 39 ? -10.461 8.374 -2.805 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 1
+ATOM 698 N N . VAL B 1 40 ? -14.037 4.473 -1.333 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 1
+ATOM 699 C CA . VAL B 1 40 ? -15.222 3.704 -1.674 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 1
+ATOM 700 C C . VAL B 1 40 ? -16.461 4.416 -1.129 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 1
+ATOM 701 O O . VAL B 1 40 ? -16.895 4.146 -0.010 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 1
+ATOM 702 C CB . VAL B 1 40 ? -15.082 2.270 -1.160 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 1
+ATOM 703 C CG1 . VAL B 1 40 ? -16.411 1.519 -1.262 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 1
+ATOM 704 C CG2 . VAL B 1 40 ? -13.973 1.526 -1.906 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 1
+ATOM 705 H H . VAL B 1 40 ? -14.063 4.912 -0.435 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 1
+ATOM 706 H HA . VAL B 1 40 ? -15.288 3.668 -2.762 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 1
+ATOM 707 H HB . VAL B 1 40 ? -14.804 2.317 -0.107 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 1
+ATOM 708 H HG11 . VAL B 1 40 ? -16.746 1.512 -2.299 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 1
+ATOM 709 H HG12 . VAL B 1 40 ? -16.276 0.493 -0.917 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 1
+ATOM 710 H HG13 . VAL B 1 40 ? -17.157 2.015 -0.642 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 1
+ATOM 711 H HG21 . VAL B 1 40 ? -13.047 2.098 -1.845 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 1
+ATOM 712 H HG22 . VAL B 1 40 ? -13.824 0.546 -1.453 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 1
+ATOM 713 H HG23 . VAL B 1 40 ? -14.256 1.404 -2.951 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 1
+ATOM 714 N N . ILE B 1 41 ? -16.997 5.313 -1.945 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 1
+ATOM 715 C CA . ILE B 1 41 ? -18.177 6.066 -1.558 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 1
+ATOM 716 C C . ILE B 1 41 ? -19.419 5.401 -2.155 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 1
+ATOM 717 O O . ILE B 1 41 ? -19.532 5.268 -3.373 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 1
+ATOM 718 C CB . ILE B 1 41 ? -18.023 7.539 -1.943 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 1
+ATOM 719 C CG1 . ILE B 1 41 ? -17.172 8.288 -0.916 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 1
+ATOM 720 C CG2 . ILE B 1 41 ? -19.389 8.198 -2.145 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 1
+ATOM 721 C CD1 . ILE B 1 41 ? -16.664 9.614 -1.487 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 1
+ATOM 722 H H . ILE B 1 41 ? -16.638 5.526 -2.853 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 1
+ATOM 723 H HA . ILE B 1 41 ? -18.251 6.023 -0.472 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 1
+ATOM 724 H HB . ILE B 1 41 ? -17.497 7.589 -2.896 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 1
+ATOM 725 H HG12 . ILE B 1 41 ? -17.760 8.475 -0.018 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 1
+ATOM 726 H HG13 . ILE B 1 41 ? -16.326 7.668 -0.619 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 1
+ATOM 727 H HG21 . ILE B 1 41 ? -20.061 7.895 -1.343 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 1
+ATOM 728 H HG22 . ILE B 1 41 ? -19.274 9.282 -2.133 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 1
+ATOM 729 H HG23 . ILE B 1 41 ? -19.804 7.887 -3.104 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 1
+ATOM 730 H HD11 . ILE B 1 41 ? -17.364 9.976 -2.240 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 1
+ATOM 731 H HD12 . ILE B 1 41 ? -16.583 10.347 -0.684 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 1
+ATOM 732 H HD13 . ILE B 1 41 ? -15.686 9.462 -1.942 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 1
+ATOM 733 N N . ALA B 1 42 ? -20.321 5.001 -1.270 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 1
+ATOM 734 C CA . ALA B 1 42 ? -21.550 4.353 -1.694 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 1
+ATOM 735 C C . ALA B 1 42 ? -22.705 4.834 -0.813 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 1
+ATOM 736 O O . ALA B 1 42 ? -22.556 4.951 0.402 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 1
+ATOM 737 C CB . ALA B 1 42 ? -21.371 2.835 -1.644 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 1
+ATOM 738 H H . ALA B 1 42 ? -20.222 5.113 -0.281 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 1
+ATOM 739 H HA . ALA B 1 42 ? -21.743 4.650 -2.725 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 1
+ATOM 740 H HB1 . ALA B 1 42 ? -21.208 2.455 -2.653 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 1
+ATOM 741 H HB2 . ALA B 1 42 ? -20.511 2.591 -1.021 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 1
+ATOM 742 H HB3 . ALA B 1 42 ? -22.266 2.377 -1.223 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 1
+ATOM 743 N N . LEU C 1 17 ? -15.443 -2.647 -11.141 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 1
+ATOM 744 C CA . LEU C 1 17 ? -15.453 -4.086 -10.935 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 1
+ATOM 745 C C . LEU C 1 17 ? -14.052 -4.548 -10.526 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 1
+ATOM 746 O O . LEU C 1 17 ? -13.546 -4.152 -9.478 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 1
+ATOM 747 C CB . LEU C 1 17 ? -15.999 -4.800 -12.172 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 1
+ATOM 748 C CG . LEU C 1 17 ? -17.491 -4.609 -12.453 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 1
+ATOM 749 C CD1 . LEU C 1 17 ? -18.336 -5.554 -11.597 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 1
+ATOM 750 C CD2 . LEU C 1 17 ? -17.901 -3.146 -12.267 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 1
+ATOM 751 H H . LEU C 1 17 ? -15.295 -2.357 -12.086 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 1
+ATOM 752 H HA . LEU C 1 17 ? -16.138 -4.293 -10.113 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 1
+ATOM 753 H HB2 . LEU C 1 17 ? -15.439 -4.457 -13.042 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 1
+ATOM 754 H HB3 . LEU C 1 17 ? -15.804 -5.867 -12.067 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 1
+ATOM 755 H HG . LEU C 1 17 ? -17.678 -4.865 -13.496 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 1
+ATOM 756 H HD11 . LEU C 1 17 ? -17.683 -6.260 -11.083 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 1
+ATOM 757 H HD12 . LEU C 1 17 ? -18.896 -4.976 -10.862 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 1
+ATOM 758 H HD13 . LEU C 1 17 ? -19.030 -6.100 -12.235 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 1
+ATOM 759 H HD21 . LEU C 1 17 ? -18.845 -2.965 -12.782 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 1
+ATOM 760 H HD22 . LEU C 1 17 ? -18.020 -2.935 -11.204 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 1
+ATOM 761 H HD23 . LEU C 1 17 ? -17.130 -2.497 -12.682 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 1
+ATOM 762 N N . VAL C 1 18 ? -13.467 -5.379 -11.376 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 1
+ATOM 763 C CA . VAL C 1 18 ? -12.135 -5.899 -11.117 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 1
+ATOM 764 C C . VAL C 1 18 ? -11.094 -4.892 -11.610 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 1
+ATOM 765 O O . VAL C 1 18 ? -11.265 -4.284 -12.665 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 1
+ATOM 766 C CB . VAL C 1 18 ? -11.979 -7.280 -11.755 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 1
+ATOM 767 C CG1 . VAL C 1 18 ? -10.799 -8.037 -11.142 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 1
+ATOM 768 C CG2 . VAL C 1 18 ? -13.272 -8.089 -11.633 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 1
+ATOM 769 H H . VAL C 1 18 ? -13.886 -5.696 -12.227 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 1
+ATOM 770 H HA . VAL C 1 18 ? -12.031 -6.011 -10.037 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 1
+ATOM 771 H HB . VAL C 1 18 ? -11.772 -7.138 -12.815 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 1
+ATOM 772 H HG11 . VAL C 1 18 ? -10.202 -8.484 -11.938 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 1
+ATOM 773 H HG12 . VAL C 1 18 ? -10.181 -7.345 -10.570 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 1
+ATOM 774 H HG13 . VAL C 1 18 ? -11.173 -8.821 -10.484 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 1
+ATOM 775 H HG21 . VAL C 1 18 ? -13.794 -7.805 -10.719 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 1
+ATOM 776 H HG22 . VAL C 1 18 ? -13.910 -7.887 -12.493 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 1
+ATOM 777 H HG23 . VAL C 1 18 ? -13.034 -9.153 -11.599 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 1
+ATOM 778 N N . PHE C 1 19 ? -10.038 -4.747 -10.822 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 1
+ATOM 779 C CA . PHE C 1 19 ? -8.970 -3.824 -11.166 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 1
+ATOM 780 C C . PHE C 1 19 ? -7.618 -4.342 -10.671 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 1
+ATOM 781 O O . PHE C 1 19 ? -7.207 -4.043 -9.550 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 1
+ATOM 782 C CB . PHE C 1 19 ? -9.282 -2.499 -10.467 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 1
+ATOM 783 C CG . PHE C 1 19 ? -8.371 -1.344 -10.889 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 1
+ATOM 784 C CD1 . PHE C 1 19 ? -7.153 -1.190 -10.303 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 1
+ATOM 785 C CD2 . PHE C 1 19 ? -8.779 -0.471 -11.849 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 1
+ATOM 786 C CE1 . PHE C 1 19 ? -6.308 -0.118 -10.694 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 1
+ATOM 787 C CE2 . PHE C 1 19 ? -7.933 0.600 -12.240 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 1
+ATOM 788 C CZ . PHE C 1 19 ? -6.715 0.754 -11.654 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 1
+ATOM 789 H H . PHE C 1 19 ? -9.907 -5.245 -9.965 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 1
+ATOM 790 H HA . PHE C 1 19 ? -8.950 -3.742 -12.252 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 1
+ATOM 791 H HB2 . PHE C 1 19 ? -10.316 -2.225 -10.674 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 1
+ATOM 792 H HB3 . PHE C 1 19 ? -9.198 -2.639 -9.390 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 1
+ATOM 793 H HD1 . PHE C 1 19 ? -6.826 -1.889 -9.533 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 1
+ATOM 794 H HD2 . PHE C 1 19 ? -9.755 -0.595 -12.318 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 1
+ATOM 795 H HE1 . PHE C 1 19 ? -5.332 0.005 -10.224 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 1
+ATOM 796 H HE2 . PHE C 1 19 ? -8.260 1.300 -13.009 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 1
+ATOM 797 H HZ . PHE C 1 19 ? -6.067 1.577 -11.954 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 1
+ATOM 798 N N . PHE C 1 20 ? -6.964 -5.110 -11.530 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 1
+ATOM 799 C CA . PHE C 1 20 ? -5.667 -5.672 -11.194 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 1
+ATOM 800 C C . PHE C 1 20 ? -4.537 -4.724 -11.599 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 1
+ATOM 801 O O . PHE C 1 20 ? -4.574 -4.133 -12.677 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 1
+ATOM 802 C CB . PHE C 1 20 ? -5.528 -6.977 -11.980 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 1
+ATOM 803 C CG . PHE C 1 20 ? -5.676 -8.237 -11.125 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 1
+ATOM 804 C CD1 . PHE C 1 20 ? -6.909 -8.640 -10.714 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 1
+ATOM 805 C CD2 . PHE C 1 20 ? -4.575 -8.955 -10.776 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 1
+ATOM 806 C CE1 . PHE C 1 20 ? -7.046 -9.809 -9.921 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 1
+ATOM 807 C CE2 . PHE C 1 20 ? -4.712 -10.125 -9.982 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 1
+ATOM 808 C CZ . PHE C 1 20 ? -5.945 -10.527 -9.572 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 1
+ATOM 809 H H . PHE C 1 20 ? -7.305 -5.348 -12.439 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 1
+ATOM 810 H HA . PHE C 1 20 ? -5.647 -5.817 -10.114 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 1
+ATOM 811 H HB2 . PHE C 1 20 ? -6.280 -6.996 -12.769 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 1
+ATOM 812 H HB3 . PHE C 1 20 ? -4.554 -6.994 -12.468 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 1
+ATOM 813 H HD1 . PHE C 1 20 ? -7.791 -8.064 -10.994 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 1
+ATOM 814 H HD2 . PHE C 1 20 ? -3.587 -8.633 -11.105 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 1
+ATOM 815 H HE1 . PHE C 1 20 ? -8.033 -10.132 -9.592 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 1
+ATOM 816 H HE2 . PHE C 1 20 ? -3.830 -10.700 -9.703 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 1
+ATOM 817 H HZ . PHE C 1 20 ? -6.050 -11.425 -8.962 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 1
+ATOM 818 N N . ALA C 1 21 ? -3.559 -4.608 -10.713 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 1
+ATOM 819 C CA . ALA C 1 21 ? -2.420 -3.741 -10.965 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 1
+ATOM 820 C C . ALA C 1 21 ? -1.177 -4.333 -10.297 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 1
+ATOM 821 O O . ALA C 1 21 ? -0.991 -4.194 -9.089 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 1
+ATOM 822 C CB . ALA C 1 21 ? -2.732 -2.329 -10.467 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 1
+ATOM 823 H H . ALA C 1 21 ? -3.536 -5.092 -9.838 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 1
+ATOM 824 H HA . ALA C 1 21 ? -2.261 -3.707 -12.043 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 1
+ATOM 825 H HB1 . ALA C 1 21 ? -3.056 -1.712 -11.305 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 1
+ATOM 826 H HB2 . ALA C 1 21 ? -3.526 -2.374 -9.721 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 1
+ATOM 827 H HB3 . ALA C 1 21 ? -1.838 -1.895 -10.020 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 1
+ATOM 828 N N . GLU C 1 22 ? -0.357 -4.981 -11.112 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 1
+ATOM 829 C CA . GLU C 1 22 ? 0.862 -5.594 -10.615 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 1
+ATOM 830 C C . GLU C 1 22 ? 2.086 -4.940 -11.260 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 1
+ATOM 831 O O . GLU C 1 22 ? 2.129 -4.757 -12.475 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 1
+ATOM 832 C CB . GLU C 1 22 ? 0.856 -7.104 -10.859 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 1
+ATOM 833 C CG . GLU C 1 22 ? 2.104 -7.761 -10.268 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 1
+ATOM 834 C CD . GLU C 1 22 ? 2.683 -8.803 -11.227 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 1
+ATOM 835 O OE1 . GLU C 1 22 ? 2.817 -8.461 -12.422 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 1
+ATOM 836 O OE2 . GLU C 1 22 ? 2.978 -9.917 -10.744 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 1
+ATOM 837 H H . GLU C 1 22 ? -0.516 -5.089 -12.093 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 1
+ATOM 838 H HA . GLU C 1 22 ? 0.865 -5.406 -9.541 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 1
+ATOM 839 H HB2 . GLU C 1 22 ? -0.037 -7.544 -10.414 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 1
+ATOM 840 H HB3 . GLU C 1 22 ? 0.809 -7.303 -11.930 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 1
+ATOM 841 H HG2 . GLU C 1 22 ? 2.855 -6.999 -10.057 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 1
+ATOM 842 H HG3 . GLU C 1 22 ? 1.855 -8.235 -9.318 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 1
+ATOM 843 N N . ASP C 1 23 ? 3.052 -4.605 -10.416 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 1
+ATOM 844 C CA . ASP C 1 23 ? 4.273 -3.975 -10.888 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 1
+ATOM 845 C C . ASP C 1 23 ? 5.476 -4.814 -10.453 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 1
+ATOM 846 O O . ASP C 1 23 ? 5.845 -4.815 -9.280 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 1
+ATOM 847 C CB . ASP C 1 23 ? 4.434 -2.574 -10.296 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 1
+ATOM 848 C CG . ASP C 1 23 ? 5.643 -1.789 -10.811 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 1
+ATOM 849 O OD1 . ASP C 1 23 ? 6.064 -2.080 -11.951 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 1
+ATOM 850 O OD2 . ASP C 1 23 ? 6.119 -0.917 -10.052 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 1
+ATOM 851 H H . ASP C 1 23 ? 3.009 -4.757 -9.429 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 1
+ATOM 852 H HA . ASP C 1 23 ? 4.169 -3.926 -11.972 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 1
+ATOM 853 H HB2 . ASP C 1 23 ? 3.532 -2.000 -10.506 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 1
+ATOM 854 H HB3 . ASP C 1 23 ? 4.512 -2.661 -9.212 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 1
+ATOM 855 N N . VAL C 1 24 ? 6.054 -5.509 -11.422 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 1
+ATOM 856 C CA . VAL C 1 24 ? 7.207 -6.350 -11.154 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 1
+ATOM 857 C C . VAL C 1 24 ? 8.486 -5.570 -11.464 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 1
+ATOM 858 O O . VAL C 1 24 ? 8.857 -5.414 -12.626 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 1
+ATOM 859 C CB . VAL C 1 24 ? 7.098 -7.656 -11.944 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 1
+ATOM 860 C CG1 . VAL C 1 24 ? 8.231 -8.616 -11.576 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 1
+ATOM 861 C CG2 . VAL C 1 24 ? 5.732 -8.312 -11.732 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 1
+ATOM 862 H H . VAL C 1 24 ? 5.747 -5.503 -12.374 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 1
+ATOM 863 H HA . VAL C 1 24 ? 7.195 -6.597 -10.092 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 1
+ATOM 864 H HB . VAL C 1 24 ? 7.193 -7.416 -13.003 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 1
+ATOM 865 H HG11 . VAL C 1 24 ? 8.222 -9.467 -12.258 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 1
+ATOM 866 H HG12 . VAL C 1 24 ? 9.186 -8.098 -11.655 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 1
+ATOM 867 H HG13 . VAL C 1 24 ? 8.091 -8.969 -10.554 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 1
+ATOM 868 H HG21 . VAL C 1 24 ? 4.973 -7.540 -11.608 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 1
+ATOM 869 H HG22 . VAL C 1 24 ? 5.486 -8.927 -12.598 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 1
+ATOM 870 H HG23 . VAL C 1 24 ? 5.764 -8.937 -10.840 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 1
+ATOM 871 N N . GLY C 1 25 ? 9.126 -5.099 -10.403 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 1
+ATOM 872 C CA . GLY C 1 25 ? 10.355 -4.338 -10.547 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 1
+ATOM 873 C C . GLY C 1 25 ? 11.543 -5.097 -9.951 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 1
+ATOM 874 O O . GLY C 1 25 ? 11.615 -5.290 -8.738 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 1
+ATOM 875 H H . GLY C 1 25 ? 8.818 -5.230 -9.461 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 1
+ATOM 876 H HA2 . GLY C 1 25 ? 10.541 -4.136 -11.602 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 1
+ATOM 877 H HA3 . GLY C 1 25 ? 10.250 -3.373 -10.052 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 1
+ATOM 878 N N . SER C 1 26 ? 12.444 -5.507 -10.831 1.00 0.00 ? ? ? ? ? ? 26 SER C N 1
+ATOM 879 C CA . SER C 1 26 ? 13.625 -6.240 -10.407 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 1
+ATOM 880 C C . SER C 1 26 ? 14.804 -5.280 -10.237 1.00 0.00 ? ? ? ? ? ? 26 SER C C 1
+ATOM 881 O O . SER C 1 26 ? 15.515 -4.988 -11.198 1.00 0.00 ? ? ? ? ? ? 26 SER C O 1
+ATOM 882 C CB . SER C 1 26 ? 13.977 -7.342 -11.408 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 1
+ATOM 883 O OG . SER C 1 26 ? 13.594 -8.632 -10.939 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 1
+ATOM 884 H H . SER C 1 26 ? 12.378 -5.346 -11.816 1.00 0.00 ? ? ? ? ? ? 26 SER C H 1
+ATOM 885 H HA . SER C 1 26 ? 13.357 -6.690 -9.452 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 1
+ATOM 886 H HB2 . SER C 1 26 ? 13.483 -7.140 -12.359 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 1
+ATOM 887 H HB3 . SER C 1 26 ? 15.051 -7.329 -11.598 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 1
+ATOM 888 H HG . SER C 1 26 ? 14.406 -9.161 -10.691 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 1
+ATOM 889 N N . ASN C 1 27 ? 14.975 -4.816 -9.008 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 1
+ATOM 890 C CA . ASN C 1 27 ? 16.056 -3.895 -8.700 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 1
+ATOM 891 C C . ASN C 1 27 ? 15.654 -2.482 -9.128 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 1
+ATOM 892 O O . ASN C 1 27 ? 16.228 -1.926 -10.062 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 1
+ATOM 893 C CB . ASN C 1 27 ? 17.333 -4.272 -9.454 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 1
+ATOM 894 C CG . ASN C 1 27 ? 18.575 -3.986 -8.608 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 1
+ATOM 895 O OD1 . ASN C 1 27 ? 18.523 -3.316 -7.590 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 1
+ATOM 896 N ND2 . ASN C 1 27 ? 19.691 -4.530 -9.084 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 1
+ATOM 897 H H . ASN C 1 27 ? 14.393 -5.059 -8.233 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 1
+ATOM 898 H HA . ASN C 1 27 ? 16.205 -3.979 -7.624 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 1
+ATOM 899 H HB2 . ASN C 1 27 ? 17.305 -5.329 -9.719 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 1
+ATOM 900 H HB3 . ASN C 1 27 ? 17.387 -3.712 -10.387 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 1
+ATOM 901 H HD21 . ASN C 1 27 ? 19.665 -5.069 -9.926 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 1
+ATOM 902 H HD22 . ASN C 1 27 ? 20.557 -4.399 -8.600 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 1
+ATOM 903 N N . LYS C 1 28 ? 14.671 -1.943 -8.423 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 1
+ATOM 904 C CA . LYS C 1 28 ? 14.185 -0.605 -8.718 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 1
+ATOM 905 C C . LYS C 1 28 ? 15.298 0.409 -8.443 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 1
+ATOM 906 O O . LYS C 1 28 ? 16.205 0.575 -9.257 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 1
+ATOM 907 C CB . LYS C 1 28 ? 12.893 -0.323 -7.949 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 1
+ATOM 908 C CG . LYS C 1 28 ? 11.686 -0.935 -8.663 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 1
+ATOM 909 C CD . LYS C 1 28 ? 10.383 -0.281 -8.197 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 1
+ATOM 910 C CE . LYS C 1 28 ? 9.549 -1.255 -7.363 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 1
+ATOM 911 N NZ . LYS C 1 28 ? 8.125 -0.851 -7.365 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 1
+ATOM 912 H H . LYS C 1 28 ? 14.209 -2.402 -7.664 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 1
+ATOM 913 H HA . LYS C 1 28 ? 13.942 -0.573 -9.780 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 1
+ATOM 914 H HB2 . LYS C 1 28 ? 12.968 -0.729 -6.941 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 1
+ATOM 915 H HB3 . LYS C 1 28 ? 12.753 0.753 -7.849 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 1
+ATOM 916 H HG2 . LYS C 1 28 ? 11.794 -0.811 -9.740 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 1
+ATOM 917 H HG3 . LYS C 1 28 ? 11.649 -2.007 -8.468 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 1
+ATOM 918 H HD2 . LYS C 1 28 ? 10.609 0.607 -7.607 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 1
+ATOM 919 H HD3 . LYS C 1 28 ? 9.808 0.048 -9.062 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 1
+ATOM 920 H HE2 . LYS C 1 28 ? 9.647 -2.264 -7.764 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 1
+ATOM 921 H HE3 . LYS C 1 28 ? 9.924 -1.282 -6.340 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 1
+ATOM 922 H HZ1 . LYS C 1 28 ? 8.011 -0.034 -7.930 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 1
+ATOM 923 H HZ2 . LYS C 1 28 ? 7.568 -1.593 -7.737 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 1
+ATOM 924 H HZ3 . LYS C 1 28 ? 7.833 -0.652 -6.429 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 1
+ATOM 925 N N . GLY C 1 29 ? 15.191 1.059 -7.294 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 1
+ATOM 926 C CA . GLY C 1 29 ? 16.177 2.052 -6.902 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 1
+ATOM 927 C C . GLY C 1 29 ? 15.905 3.394 -7.584 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 1
+ATOM 928 O O . GLY C 1 29 ? 14.872 3.568 -8.230 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 1
+ATOM 929 H H . GLY C 1 29 ? 14.450 0.917 -6.638 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 1
+ATOM 930 H HA2 . GLY C 1 29 ? 16.159 2.180 -5.820 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 1
+ATOM 931 H HA3 . GLY C 1 29 ? 17.175 1.702 -7.165 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 1
+ATOM 932 N N . ALA C 1 30 ? 16.849 4.309 -7.418 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 1
+ATOM 933 C CA . ALA C 1 30 ? 16.724 5.630 -8.010 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 1
+ATOM 934 C C . ALA C 1 30 ? 15.441 6.291 -7.504 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 1
+ATOM 935 O O . ALA C 1 30 ? 15.072 6.130 -6.342 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 1
+ATOM 936 C CB . ALA C 1 30 ? 16.756 5.511 -9.535 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 1
+ATOM 937 H H . ALA C 1 30 ? 17.686 4.159 -6.892 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 1
+ATOM 938 H HA . ALA C 1 30 ? 17.580 6.221 -7.686 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 1
+ATOM 939 H HB1 . ALA C 1 30 ? 17.599 4.888 -9.834 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 1
+ATOM 940 H HB2 . ALA C 1 30 ? 15.828 5.059 -9.884 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 1
+ATOM 941 H HB3 . ALA C 1 30 ? 16.865 6.503 -9.975 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 1
+ATOM 942 N N . ILE C 1 31 ? 14.796 7.022 -8.401 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 1
+ATOM 943 C CA . ILE C 1 31 ? 13.561 7.708 -8.060 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 1
+ATOM 944 C C . ILE C 1 31 ? 12.381 6.977 -8.704 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 1
+ATOM 945 O O . ILE C 1 31 ? 12.261 6.943 -9.927 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 1
+ATOM 946 C CB . ILE C 1 31 ? 13.649 9.188 -8.439 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 1
+ATOM 947 C CG1 . ILE C 1 31 ? 14.715 9.905 -7.608 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 1
+ATOM 948 C CG2 . ILE C 1 31 ? 12.282 9.865 -8.325 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 1
+ATOM 949 C CD1 . ILE C 1 31 ? 15.613 10.769 -8.496 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 1
+ATOM 950 H H . ILE C 1 31 ? 15.102 7.148 -9.345 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 1
+ATOM 951 H HA . ILE C 1 31 ? 13.449 7.659 -6.977 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 1
+ATOM 952 H HB . ILE C 1 31 ? 13.955 9.256 -9.483 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 1
+ATOM 953 H HG12 . ILE C 1 31 ? 14.235 10.529 -6.854 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 1
+ATOM 954 H HG13 . ILE C 1 31 ? 15.320 9.171 -7.076 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 1
+ATOM 955 H HG21 . ILE C 1 31 ? 12.401 10.944 -8.425 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 1
+ATOM 956 H HG22 . ILE C 1 31 ? 11.627 9.497 -9.115 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 1
+ATOM 957 H HG23 . ILE C 1 31 ? 11.843 9.636 -7.353 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 1
+ATOM 958 H HD11 . ILE C 1 31 ? 15.227 11.788 -8.521 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 1
+ATOM 959 H HD12 . ILE C 1 31 ? 16.626 10.773 -8.092 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 1
+ATOM 960 H HD13 . ILE C 1 31 ? 15.627 10.360 -9.506 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 1
+ATOM 961 N N . ILE C 1 32 ? 11.541 6.411 -7.850 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 1
+ATOM 962 C CA . ILE C 1 32 ? 10.375 5.683 -8.321 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 1
+ATOM 963 C C . ILE C 1 32 ? 9.128 6.206 -7.603 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 1
+ATOM 964 O O . ILE C 1 32 ? 9.065 6.196 -6.375 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 1
+ATOM 965 C CB . ILE C 1 32 ? 10.586 4.176 -8.166 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 1
+ATOM 966 C CG1 . ILE C 1 32 ? 9.283 3.477 -7.773 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 1
+ATOM 967 C CG2 . ILE C 1 32 ? 11.716 3.879 -7.178 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 1
+ATOM 968 C CD1 . ILE C 1 32 ? 8.272 3.515 -8.921 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 1
+ATOM 969 H H . ILE C 1 32 ? 11.646 6.444 -6.856 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 1
+ATOM 970 H HA . ILE C 1 32 ? 10.270 5.886 -9.386 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 1
+ATOM 971 H HB . ILE C 1 32 ? 10.889 3.772 -9.132 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 1
+ATOM 972 H HG12 . ILE C 1 32 ? 9.489 2.442 -7.499 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 1
+ATOM 973 H HG13 . ILE C 1 32 ? 8.858 3.960 -6.893 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 1
+ATOM 974 H HG21 . ILE C 1 32 ? 12.676 4.091 -7.650 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 1
+ATOM 975 H HG22 . ILE C 1 32 ? 11.599 4.505 -6.294 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 1
+ATOM 976 H HG23 . ILE C 1 32 ? 11.678 2.829 -6.888 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 1
+ATOM 977 H HD11 . ILE C 1 32 ? 8.473 2.693 -9.609 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 1
+ATOM 978 H HD12 . ILE C 1 32 ? 7.263 3.415 -8.520 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 1
+ATOM 979 H HD13 . ILE C 1 32 ? 8.360 4.463 -9.451 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 1
+ATOM 980 N N . GLY C 1 33 ? 8.168 6.651 -8.401 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 1
+ATOM 981 C CA . GLY C 1 33 ? 6.928 7.177 -7.857 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 1
+ATOM 982 C C . GLY C 1 33 ? 5.750 6.260 -8.192 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 1
+ATOM 983 O O . GLY C 1 33 ? 5.505 5.959 -9.360 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 1
+ATOM 984 H H . GLY C 1 33 ? 8.228 6.656 -9.399 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 1
+ATOM 985 H HA2 . GLY C 1 33 ? 7.016 7.281 -6.776 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 1
+ATOM 986 H HA3 . GLY C 1 33 ? 6.744 8.173 -8.260 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 1
+ATOM 987 N N . LEU C 1 34 ? 5.051 5.841 -7.147 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 1
+ATOM 988 C CA . LEU C 1 34 ? 3.905 4.964 -7.316 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 1
+ATOM 989 C C . LEU C 1 34 ? 2.642 5.686 -6.841 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 1
+ATOM 990 O O . LEU C 1 34 ? 2.495 5.971 -5.654 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 1
+ATOM 991 C CB . LEU C 1 34 ? 4.147 3.625 -6.618 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 1
+ATOM 992 C CG . LEU C 1 34 ? 3.982 2.376 -7.486 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 1
+ATOM 993 C CD1 . LEU C 1 34 ? 5.307 1.624 -7.624 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 1
+ATOM 994 C CD2 . LEU C 1 34 ? 2.866 1.478 -6.948 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 1
+ATOM 995 H H . LEU C 1 34 ? 5.257 6.090 -6.201 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 1
+ATOM 996 H HA . LEU C 1 34 ? 3.805 4.759 -8.382 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 1
+ATOM 997 H HB2 . LEU C 1 34 ? 5.158 3.628 -6.210 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 1
+ATOM 998 H HB3 . LEU C 1 34 ? 3.463 3.549 -5.773 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 1
+ATOM 999 H HG . LEU C 1 34 ? 3.686 2.692 -8.487 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 1
+ATOM 1000 H HD11 . LEU C 1 34 ? 6.124 2.264 -7.290 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 1
+ATOM 1001 H HD12 . LEU C 1 34 ? 5.279 0.723 -7.012 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 1
+ATOM 1002 H HD13 . LEU C 1 34 ? 5.463 1.351 -8.667 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 1
+ATOM 1003 H HD21 . LEU C 1 34 ? 2.312 1.048 -7.782 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 1
+ATOM 1004 H HD22 . LEU C 1 34 ? 3.301 0.677 -6.350 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 1
+ATOM 1005 H HD23 . LEU C 1 34 ? 2.191 2.068 -6.329 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 1
+ATOM 1006 N N . MET C 1 35 ? 1.763 5.961 -7.793 1.00 0.00 ? ? ? ? ? ? 35 MET C N 1
+ATOM 1007 C CA . MET C 1 35 ? 0.517 6.644 -7.487 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 1
+ATOM 1008 C C . MET C 1 35 ? -0.688 5.782 -7.869 1.00 0.00 ? ? ? ? ? ? 35 MET C C 1
+ATOM 1009 O O . MET C 1 35 ? -1.065 5.718 -9.038 1.00 0.00 ? ? ? ? ? ? 35 MET C O 1
+ATOM 1010 C CB . MET C 1 35 ? 0.460 7.969 -8.250 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 1
+ATOM 1011 C CG . MET C 1 35 ? -0.066 9.094 -7.357 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 1
+ATOM 1012 S SD . MET C 1 35 ? 0.809 10.610 -7.705 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 1
+ATOM 1013 C CE . MET C 1 35 ? -0.543 11.773 -7.630 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 1
+ATOM 1014 H H . MET C 1 35 ? 1.890 5.726 -8.757 1.00 0.00 ? ? ? ? ? ? 35 MET C H 1
+ATOM 1015 H HA . MET C 1 35 ? 0.530 6.806 -6.409 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 1
+ATOM 1016 H HB2 . MET C 1 35 ? 1.455 8.225 -8.616 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 1
+ATOM 1017 H HB3 . MET C 1 35 ? -0.183 7.862 -9.124 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 1
+ATOM 1018 H HG2 . MET C 1 35 ? -1.134 9.234 -7.525 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 1
+ATOM 1019 H HG3 . MET C 1 35 ? 0.059 8.825 -6.308 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 1
+ATOM 1020 H HE1 . MET C 1 35 ? -0.231 12.722 -8.066 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 1
+ATOM 1021 H HE2 . MET C 1 35 ? -1.392 11.378 -8.188 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 1
+ATOM 1022 H HE3 . MET C 1 35 ? -0.832 11.928 -6.591 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 1
+ATOM 1023 N N . VAL C 1 36 ? -1.260 5.142 -6.860 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 1
+ATOM 1024 C CA . VAL C 1 36 ? -2.416 4.287 -7.075 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 1
+ATOM 1025 C C . VAL C 1 36 ? -3.686 5.047 -6.688 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 1
+ATOM 1026 O O . VAL C 1 36 ? -3.952 5.258 -5.506 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 1
+ATOM 1027 C CB . VAL C 1 36 ? -2.247 2.975 -6.305 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 1
+ATOM 1028 C CG1 . VAL C 1 36 ? -3.602 2.423 -5.858 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 1
+ATOM 1029 C CG2 . VAL C 1 36 ? -1.483 1.945 -7.140 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 1
+ATOM 1030 H H . VAL C 1 36 ? -0.948 5.199 -5.911 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 1
+ATOM 1031 H HA . VAL C 1 36 ? -2.457 4.052 -8.138 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 1
+ATOM 1032 H HB . VAL C 1 36 ? -1.659 3.184 -5.412 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 1
+ATOM 1033 H HG11 . VAL C 1 36 ? -4.324 2.534 -6.667 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 1
+ATOM 1034 H HG12 . VAL C 1 36 ? -3.499 1.368 -5.605 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 1
+ATOM 1035 H HG13 . VAL C 1 36 ? -3.948 2.975 -4.984 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 1
+ATOM 1036 H HG21 . VAL C 1 36 ? -0.812 1.380 -6.493 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 1
+ATOM 1037 H HG22 . VAL C 1 36 ? -2.191 1.264 -7.613 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 1
+ATOM 1038 H HG23 . VAL C 1 36 ? -0.902 2.457 -7.907 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 1
+ATOM 1039 N N . GLY C 1 37 ? -4.437 5.439 -7.708 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 1
+ATOM 1040 C CA . GLY C 1 37 ? -5.672 6.171 -7.489 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 1
+ATOM 1041 C C . GLY C 1 37 ? -6.886 5.249 -7.619 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 1
+ATOM 1042 O O . GLY C 1 37 ? -7.300 4.913 -8.728 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 1
+ATOM 1043 H H . GLY C 1 37 ? -4.213 5.263 -8.666 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 1
+ATOM 1044 H HA2 . GLY C 1 37 ? -5.660 6.625 -6.498 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 1
+ATOM 1045 H HA3 . GLY C 1 37 ? -5.750 6.984 -8.211 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 1
+ATOM 1046 N N . GLY C 1 38 ? -7.423 4.865 -6.470 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 1
+ATOM 1047 C CA . GLY C 1 38 ? -8.581 3.988 -6.442 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 1
+ATOM 1048 C C . GLY C 1 38 ? -9.726 4.617 -5.644 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 1
+ATOM 1049 O O . GLY C 1 38 ? -9.788 4.473 -4.423 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 1
+ATOM 1050 H H . GLY C 1 38 ? -7.081 5.142 -5.573 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 1
+ATOM 1051 H HA2 . GLY C 1 38 ? -8.913 3.784 -7.460 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 1
+ATOM 1052 H HA3 . GLY C 1 38 ? -8.307 3.031 -5.998 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 1
+ATOM 1053 N N . VAL C 1 39 ? -10.602 5.300 -6.365 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 1
+ATOM 1054 C CA . VAL C 1 39 ? -11.740 5.952 -5.739 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 1
+ATOM 1055 C C . VAL C 1 39 ? -13.024 5.519 -6.450 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 1
+ATOM 1056 O O . VAL C 1 39 ? -13.125 5.620 -7.672 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 1
+ATOM 1057 C CB . VAL C 1 39 ? -11.540 7.469 -5.738 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 1
+ATOM 1058 C CG1 . VAL C 1 39 ? -10.058 7.826 -5.598 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 1
+ATOM 1059 C CG2 . VAL C 1 39 ? -12.140 8.102 -6.995 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 1
+ATOM 1060 H H . VAL C 1 39 ? -10.543 5.413 -7.357 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 1
+ATOM 1061 H HA . VAL C 1 39 ? -11.783 5.616 -4.703 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 1
+ATOM 1062 H HB . VAL C 1 39 ? -12.066 7.875 -4.874 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 1
+ATOM 1063 H HG11 . VAL C 1 39 ? -9.958 8.734 -5.003 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 1
+ATOM 1064 H HG12 . VAL C 1 39 ? -9.533 7.008 -5.104 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 1
+ATOM 1065 H HG13 . VAL C 1 39 ? -9.629 7.989 -6.586 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 1
+ATOM 1066 H HG21 . VAL C 1 39 ? -13.224 7.997 -6.972 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 1
+ATOM 1067 H HG22 . VAL C 1 39 ? -11.878 9.160 -7.029 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 1
+ATOM 1068 H HG23 . VAL C 1 39 ? -11.744 7.601 -7.878 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 1
+ATOM 1069 N N . VAL C 1 40 ? -13.972 5.046 -5.655 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 1
+ATOM 1070 C CA . VAL C 1 40 ? -15.245 4.597 -6.193 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 1
+ATOM 1071 C C . VAL C 1 40 ? -16.371 5.453 -5.609 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 1
+ATOM 1072 O O . VAL C 1 40 ? -16.744 5.286 -4.449 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 1
+ATOM 1073 C CB . VAL C 1 40 ? -15.429 3.102 -5.925 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 1
+ATOM 1074 C CG1 . VAL C 1 40 ? -16.891 2.689 -6.104 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 1
+ATOM 1075 C CG2 . VAL C 1 40 ? -14.510 2.267 -6.818 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 1
+ATOM 1076 H H . VAL C 1 40 ? -13.881 4.966 -4.662 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 1
+ATOM 1077 H HA . VAL C 1 40 ? -15.216 4.745 -7.273 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 1
+ATOM 1078 H HB . VAL C 1 40 ? -15.152 2.911 -4.888 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 1
+ATOM 1079 H HG11 . VAL C 1 40 ? -17.430 2.842 -5.169 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 1
+ATOM 1080 H HG12 . VAL C 1 40 ? -17.346 3.294 -6.888 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 1
+ATOM 1081 H HG13 . VAL C 1 40 ? -16.940 1.636 -6.382 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 1
+ATOM 1082 H HG21 . VAL C 1 40 ? -14.714 1.208 -6.660 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 1
+ATOM 1083 H HG22 . VAL C 1 40 ? -14.691 2.520 -7.863 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 1
+ATOM 1084 H HG23 . VAL C 1 40 ? -13.470 2.478 -6.568 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 1
+ATOM 1085 N N . ILE C 1 41 ? -16.881 6.350 -6.439 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 1
+ATOM 1086 C CA . ILE C 1 41 ? -17.956 7.232 -6.019 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 1
+ATOM 1087 C C . ILE C 1 41 ? -19.267 6.772 -6.660 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 1
+ATOM 1088 O O . ILE C 1 41 ? -19.451 6.903 -7.869 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 1
+ATOM 1089 C CB . ILE C 1 41 ? -17.603 8.690 -6.322 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 1
+ATOM 1090 C CG1 . ILE C 1 41 ? -16.610 9.238 -5.295 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 1
+ATOM 1091 C CG2 . ILE C 1 41 ? -18.864 9.552 -6.416 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 1
+ATOM 1092 C CD1 . ILE C 1 41 ? -15.783 10.381 -5.887 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 1
+ATOM 1093 H H . ILE C 1 41 ? -16.572 6.480 -7.381 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 1
+ATOM 1094 H HA . ILE C 1 41 ? -18.050 7.141 -4.937 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 1
+ATOM 1095 H HB . ILE C 1 41 ? -17.114 8.728 -7.295 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 1
+ATOM 1096 H HG12 . ILE C 1 41 ? -17.148 9.591 -4.415 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 1
+ATOM 1097 H HG13 . ILE C 1 41 ? -15.947 8.439 -4.963 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 1
+ATOM 1098 H HG21 . ILE C 1 41 ? -19.097 9.740 -7.464 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 1
+ATOM 1099 H HG22 . ILE C 1 41 ? -19.697 9.029 -5.946 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 1
+ATOM 1100 H HG23 . ILE C 1 41 ? -18.695 10.500 -5.905 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 1
+ATOM 1101 H HD11 . ILE C 1 41 ? -15.051 9.976 -6.586 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 1
+ATOM 1102 H HD12 . ILE C 1 41 ? -16.443 11.072 -6.411 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 1
+ATOM 1103 H HD13 . ILE C 1 41 ? -15.267 10.909 -5.085 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 1
+ATOM 1104 N N . ALA C 1 42 ? -20.145 6.242 -5.821 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 1
+ATOM 1105 C CA . ALA C 1 42 ? -21.433 5.761 -6.290 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 1
+ATOM 1106 C C . ALA C 1 42 ? -22.537 6.298 -5.376 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 1
+ATOM 1107 O O . ALA C 1 42 ? -22.858 5.686 -4.359 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 1
+ATOM 1108 C CB . ALA C 1 42 ? -21.417 4.233 -6.349 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 1
+ATOM 1109 H H . ALA C 1 42 ? -19.988 6.139 -4.839 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 1
+ATOM 1110 H HA . ALA C 1 42 ? -21.586 6.150 -7.297 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 1
+ATOM 1111 H HB1 . ALA C 1 42 ? -20.418 3.870 -6.108 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 1
+ATOM 1112 H HB2 . ALA C 1 42 ? -22.132 3.834 -5.629 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 1
+ATOM 1113 H HB3 . ALA C 1 42 ? -21.691 3.905 -7.352 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 1
+ATOM 1114 N N . LEU D 1 17 ? -15.932 -4.783 -15.725 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 1
+ATOM 1115 C CA . LEU D 1 17 ? -14.673 -4.082 -15.918 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 1
+ATOM 1116 C C . LEU D 1 17 ? -13.545 -4.879 -15.259 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 1
+ATOM 1117 O O . LEU D 1 17 ? -13.537 -5.060 -14.042 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 1
+ATOM 1118 C CB . LEU D 1 17 ? -14.781 -2.640 -15.419 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 1
+ATOM 1119 C CG . LEU D 1 17 ? -15.992 -1.848 -15.913 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 1
+ATOM 1120 C CD1 . LEU D 1 17 ? -17.298 -2.492 -15.443 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 1
+ATOM 1121 C CD2 . LEU D 1 17 ? -15.895 -0.379 -15.495 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 1
+ATOM 1122 H H . LEU D 1 17 ? -16.239 -4.846 -14.775 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 1
+ATOM 1123 H HA . LEU D 1 17 ? -14.485 -4.039 -16.990 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 1
+ATOM 1124 H HB2 . LEU D 1 17 ? -14.801 -2.654 -14.329 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 1
+ATOM 1125 H HB3 . LEU D 1 17 ? -13.877 -2.106 -15.714 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 1
+ATOM 1126 H HG . LEU D 1 17 ? -15.995 -1.872 -17.003 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 1
+ATOM 1127 H HD11 . LEU D 1 17 ? -17.707 -3.109 -16.244 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 1
+ATOM 1128 H HD12 . LEU D 1 17 ? -17.102 -3.114 -14.570 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 1
+ATOM 1129 H HD13 . LEU D 1 17 ? -18.014 -1.713 -15.182 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 1
+ATOM 1130 H HD21 . LEU D 1 17 ? -15.799 0.246 -16.383 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 1
+ATOM 1131 H HD22 . LEU D 1 17 ? -16.794 -0.097 -14.948 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 1
+ATOM 1132 H HD23 . LEU D 1 17 ? -15.022 -0.240 -14.857 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 1
+ATOM 1133 N N . VAL D 1 18 ? -12.620 -5.333 -16.091 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 1
+ATOM 1134 C CA . VAL D 1 18 ? -11.490 -6.106 -15.605 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 1
+ATOM 1135 C C . VAL D 1 18 ? -10.190 -5.401 -15.995 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 1
+ATOM 1136 O O . VAL D 1 18 ? -9.680 -5.595 -17.097 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 1
+ATOM 1137 C CB . VAL D 1 18 ? -11.572 -7.541 -16.130 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 1
+ATOM 1138 C CG1 . VAL D 1 18 ? -10.264 -8.293 -15.877 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 1
+ATOM 1139 C CG2 . VAL D 1 18 ? -12.760 -8.283 -15.513 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 1
+ATOM 1140 H H . VAL D 1 18 ? -12.634 -5.182 -17.080 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 1
+ATOM 1141 H HA . VAL D 1 18 ? -11.559 -6.140 -14.518 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 1
+ATOM 1142 H HB . VAL D 1 18 ? -11.730 -7.495 -17.207 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 1
+ATOM 1143 H HG11 . VAL D 1 18 ? -9.817 -8.574 -16.831 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 1
+ATOM 1144 H HG12 . VAL D 1 18 ? -9.576 -7.650 -15.329 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 1
+ATOM 1145 H HG13 . VAL D 1 18 ? -10.468 -9.190 -15.293 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 1
+ATOM 1146 H HG21 . VAL D 1 18 ? -12.999 -9.155 -16.122 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 1
+ATOM 1147 H HG22 . VAL D 1 18 ? -12.502 -8.605 -14.504 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 1
+ATOM 1148 H HG23 . VAL D 1 18 ? -13.623 -7.619 -15.474 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 1
+ATOM 1149 N N . PHE D 1 19 ? -9.690 -4.596 -15.068 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 1
+ATOM 1150 C CA . PHE D 1 19 ? -8.459 -3.861 -15.301 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 1
+ATOM 1151 C C . PHE D 1 19 ? -7.236 -4.731 -15.005 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 1
+ATOM 1152 O O . PHE D 1 19 ? -7.193 -5.423 -13.989 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 1
+ATOM 1153 C CB . PHE D 1 19 ? -8.463 -2.666 -14.345 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 1
+ATOM 1154 C CG . PHE D 1 19 ? -8.200 -1.322 -15.027 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 1
+ATOM 1155 C CD1 . PHE D 1 19 ? -7.079 -1.148 -15.776 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 1
+ATOM 1156 C CD2 . PHE D 1 19 ? -9.088 -0.302 -14.883 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 1
+ATOM 1157 C CE1 . PHE D 1 19 ? -6.835 0.100 -16.409 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 1
+ATOM 1158 C CE2 . PHE D 1 19 ? -8.844 0.946 -15.516 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 1
+ATOM 1159 C CZ . PHE D 1 19 ? -7.723 1.120 -16.266 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 1
+ATOM 1160 H H . PHE D 1 19 ? -10.111 -4.443 -14.174 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 1
+ATOM 1161 H HA . PHE D 1 19 ? -8.450 -3.569 -16.352 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 1
+ATOM 1162 H HB2 . PHE D 1 19 ? -9.428 -2.623 -13.838 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 1
+ATOM 1163 H HB3 . PHE D 1 19 ? -7.707 -2.826 -13.576 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 1
+ATOM 1164 H HD1 . PHE D 1 19 ? -6.368 -1.965 -15.892 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 1
+ATOM 1165 H HD2 . PHE D 1 19 ? -9.986 -0.441 -14.282 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 1
+ATOM 1166 H HE1 . PHE D 1 19 ? -5.937 0.240 -17.010 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 1
+ATOM 1167 H HE2 . PHE D 1 19 ? -9.555 1.764 -15.400 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 1
+ATOM 1168 H HZ . PHE D 1 19 ? -7.536 2.078 -16.751 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 1
+ATOM 1169 N N . PHE D 1 20 ? -6.271 -4.668 -15.912 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 1
+ATOM 1170 C CA . PHE D 1 20 ? -5.051 -5.442 -15.761 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 1
+ATOM 1171 C C . PHE D 1 20 ? -3.828 -4.627 -16.186 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 1
+ATOM 1172 O O . PHE D 1 20 ? -3.572 -4.461 -17.377 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 1
+ATOM 1173 C CB . PHE D 1 20 ? -5.179 -6.662 -16.675 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 1
+ATOM 1174 C CG . PHE D 1 20 ? -5.377 -7.982 -15.928 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 1
+ATOM 1175 C CD1 . PHE D 1 20 ? -6.631 -8.403 -15.612 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 1
+ATOM 1176 C CD2 . PHE D 1 20 ? -4.299 -8.735 -15.580 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 1
+ATOM 1177 C CE1 . PHE D 1 20 ? -6.815 -9.628 -14.918 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 1
+ATOM 1178 C CE2 . PHE D 1 20 ? -4.483 -9.961 -14.886 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 1
+ATOM 1179 C CZ . PHE D 1 20 ? -5.737 -10.381 -14.570 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 1
+ATOM 1180 H H . PHE D 1 20 ? -6.314 -4.103 -16.736 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 1
+ATOM 1181 H HA . PHE D 1 20 ? -4.962 -5.704 -14.706 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 1
+ATOM 1182 H HB2 . PHE D 1 20 ? -6.019 -6.510 -17.352 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 1
+ATOM 1183 H HB3 . PHE D 1 20 ? -4.283 -6.737 -17.292 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 1
+ATOM 1184 H HD1 . PHE D 1 20 ? -7.495 -7.800 -15.891 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 1
+ATOM 1185 H HD2 . PHE D 1 20 ? -3.294 -8.398 -15.833 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 1
+ATOM 1186 H HE1 . PHE D 1 20 ? -7.820 -9.966 -14.665 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 1
+ATOM 1187 H HE2 . PHE D 1 20 ? -3.619 -10.564 -14.607 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 1
+ATOM 1188 H HZ . PHE D 1 20 ? -5.879 -11.322 -14.037 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 1
+ATOM 1189 N N . ALA D 1 21 ? -3.106 -4.138 -15.188 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 1
+ATOM 1190 C CA . ALA D 1 21 ? -1.917 -3.344 -15.443 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 1
+ATOM 1191 C C . ALA D 1 21 ? -0.691 -4.079 -14.899 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 1
+ATOM 1192 O O . ALA D 1 21 ? -0.369 -3.967 -13.717 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 1
+ATOM 1193 C CB . ALA D 1 21 ? -2.087 -1.956 -14.823 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 1
+ATOM 1194 H H . ALA D 1 21 ? -3.322 -4.277 -14.221 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 1
+ATOM 1195 H HA . ALA D 1 21 ? -1.816 -3.236 -16.523 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 1
+ATOM 1196 H HB1 . ALA D 1 21 ? -2.745 -2.023 -13.957 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 1
+ATOM 1197 H HB2 . ALA D 1 21 ? -1.114 -1.575 -14.512 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 1
+ATOM 1198 H HB3 . ALA D 1 21 ? -2.523 -1.280 -15.559 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 1
+ATOM 1199 N N . GLU D 1 22 ? -0.040 -4.817 -15.786 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 1
+ATOM 1200 C CA . GLU D 1 22 ? 1.144 -5.571 -15.409 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 1
+ATOM 1201 C C . GLU D 1 22 ? 2.396 -4.926 -16.006 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 1
+ATOM 1202 O O . GLU D 1 22 ? 2.520 -4.813 -17.225 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 1
+ATOM 1203 C CB . GLU D 1 22 ? 1.022 -7.034 -15.840 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 1
+ATOM 1204 C CG . GLU D 1 22 ? 1.679 -7.963 -14.817 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 1
+ATOM 1205 C CD . GLU D 1 22 ? 1.867 -9.367 -15.394 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 1
+ATOM 1206 O OE1 . GLU D 1 22 ? 0.850 -10.089 -15.474 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 1
+ATOM 1207 O OE2 . GLU D 1 22 ? 3.024 -9.688 -15.742 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 1
+ATOM 1208 H H . GLU D 1 22 ? -0.308 -4.903 -16.746 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 1
+ATOM 1209 H HA . GLU D 1 22 ? 1.184 -5.521 -14.321 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 1
+ATOM 1210 H HB2 . GLU D 1 22 ? -0.030 -7.297 -15.953 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 1
+ATOM 1211 H HB3 . GLU D 1 22 ? 1.491 -7.170 -16.815 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 1
+ATOM 1212 H HG2 . GLU D 1 22 ? 2.645 -7.556 -14.519 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 1
+ATOM 1213 H HG3 . GLU D 1 22 ? 1.064 -8.014 -13.919 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 1
+ATOM 1214 N N . ASP D 1 23 ? 3.293 -4.519 -15.120 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 1
+ATOM 1215 C CA . ASP D 1 23 ? 4.532 -3.888 -15.544 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 1
+ATOM 1216 C C . ASP D 1 23 ? 5.714 -4.764 -15.124 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 1
+ATOM 1217 O O . ASP D 1 23 ? 5.944 -4.974 -13.934 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 1
+ATOM 1218 C CB . ASP D 1 23 ? 4.703 -2.516 -14.889 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 1
+ATOM 1219 C CG . ASP D 1 23 ? 5.918 -1.719 -15.367 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 1
+ATOM 1220 O OD1 . ASP D 1 23 ? 6.063 -1.591 -16.602 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 1
+ATOM 1221 O OD2 . ASP D 1 23 ? 6.675 -1.255 -14.487 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 1
+ATOM 1222 H H . ASP D 1 23 ? 3.184 -4.614 -14.130 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 1
+ATOM 1223 H HA . ASP D 1 23 ? 4.448 -3.791 -16.626 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 1
+ATOM 1224 H HB2 . ASP D 1 23 ? 3.805 -1.927 -15.075 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 1
+ATOM 1225 H HB3 . ASP D 1 23 ? 4.778 -2.652 -13.810 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 1
+ATOM 1226 N N . VAL D 1 24 ? 6.434 -5.250 -16.125 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 1
+ATOM 1227 C CA . VAL D 1 24 ? 7.587 -6.097 -15.874 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 1
+ATOM 1228 C C . VAL D 1 24 ? 8.863 -5.337 -16.243 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 1
+ATOM 1229 O O . VAL D 1 24 ? 9.322 -5.403 -17.382 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 1
+ATOM 1230 C CB . VAL D 1 24 ? 7.439 -7.419 -16.631 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 1
+ATOM 1231 C CG1 . VAL D 1 24 ? 8.573 -8.383 -16.276 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 1
+ATOM 1232 C CG2 . VAL D 1 24 ? 6.074 -8.055 -16.362 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 1
+ATOM 1233 H H . VAL D 1 24 ? 6.241 -5.073 -17.090 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 1
+ATOM 1234 H HA . VAL D 1 24 ? 7.607 -6.319 -14.807 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 1
+ATOM 1235 H HB . VAL D 1 24 ? 7.504 -7.204 -17.697 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 1
+ATOM 1236 H HG11 . VAL D 1 24 ? 9.384 -8.271 -16.996 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 1
+ATOM 1237 H HG12 . VAL D 1 24 ? 8.942 -8.158 -15.275 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 1
+ATOM 1238 H HG13 . VAL D 1 24 ? 8.201 -9.407 -16.305 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 1
+ATOM 1239 H HG21 . VAL D 1 24 ? 5.445 -7.348 -15.820 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 1
+ATOM 1240 H HG22 . VAL D 1 24 ? 5.600 -8.312 -17.309 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 1
+ATOM 1241 H HG23 . VAL D 1 24 ? 6.205 -8.957 -15.764 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 1
+ATOM 1242 N N . GLY D 1 25 ? 9.399 -4.633 -15.257 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 1
+ATOM 1243 C CA . GLY D 1 25 ? 10.613 -3.861 -15.463 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 1
+ATOM 1244 C C . GLY D 1 25 ? 11.799 -4.500 -14.738 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 1
+ATOM 1245 O O . GLY D 1 25 ? 11.807 -4.587 -13.511 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 1
+ATOM 1246 H H . GLY D 1 25 ? 9.020 -4.584 -14.333 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 1
+ATOM 1247 H HA2 . GLY D 1 25 ? 10.828 -3.793 -16.530 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 1
+ATOM 1248 H HA3 . GLY D 1 25 ? 10.467 -2.843 -15.102 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 1
+ATOM 1249 N N . SER D 1 26 ? 12.773 -4.929 -15.527 1.00 0.00 ? ? ? ? ? ? 26 SER D N 1
+ATOM 1250 C CA . SER D 1 26 ? 13.961 -5.558 -14.975 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 1
+ATOM 1251 C C . SER D 1 26 ? 15.047 -4.506 -14.738 1.00 0.00 ? ? ? ? ? ? 26 SER D C 1
+ATOM 1252 O O . SER D 1 26 ? 15.794 -4.163 -15.653 1.00 0.00 ? ? ? ? ? ? 26 SER D O 1
+ATOM 1253 C CB . SER D 1 26 ? 14.482 -6.659 -15.901 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 1
+ATOM 1254 O OG . SER D 1 26 ? 14.697 -7.884 -15.205 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 1
+ATOM 1255 H H . SER D 1 26 ? 12.759 -4.854 -16.524 1.00 0.00 ? ? ? ? ? ? 26 SER D H 1
+ATOM 1256 H HA . SER D 1 26 ? 13.642 -5.998 -14.031 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 1
+ATOM 1257 H HB2 . SER D 1 26 ? 13.768 -6.821 -16.709 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 1
+ATOM 1258 H HB3 . SER D 1 26 ? 15.415 -6.335 -16.361 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 1
+ATOM 1259 H HG . SER D 1 26 ? 15.015 -8.587 -15.841 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 1
+ATOM 1260 N N . ASN D 1 27 ? 15.100 -4.024 -13.505 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 1
+ATOM 1261 C CA . ASN D 1 27 ? 16.081 -3.018 -13.137 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 1
+ATOM 1262 C C . ASN D 1 27 ? 15.617 -1.650 -13.639 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 1
+ATOM 1263 O O . ASN D 1 27 ? 16.125 -1.147 -14.640 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 1
+ATOM 1264 C CB . ASN D 1 27 ? 17.441 -3.318 -13.770 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 1
+ATOM 1265 C CG . ASN D 1 27 ? 18.572 -3.131 -12.756 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 1
+ATOM 1266 O OD1 . ASN D 1 27 ? 19.124 -4.079 -12.222 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 1
+ATOM 1267 N ND2 . ASN D 1 27 ? 18.884 -1.860 -12.522 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 1
+ATOM 1268 H H . ASN D 1 27 ? 14.488 -4.308 -12.767 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 1
+ATOM 1269 H HA . ASN D 1 27 ? 16.144 -3.064 -12.049 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 1
+ATOM 1270 H HB2 . ASN D 1 27 ? 17.453 -4.340 -14.149 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 1
+ATOM 1271 H HB3 . ASN D 1 27 ? 17.602 -2.659 -14.624 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 1
+ATOM 1272 H HD21 . ASN D 1 27 ? 18.391 -1.129 -12.994 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 1
+ATOM 1273 H HD22 . ASN D 1 27 ? 19.611 -1.635 -11.873 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 1
+ATOM 1274 N N . LYS D 1 28 ? 14.656 -1.086 -12.921 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 1
+ATOM 1275 C CA . LYS D 1 28 ? 14.118 0.214 -13.282 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 1
+ATOM 1276 C C . LYS D 1 28 ? 15.195 1.281 -13.081 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 1
+ATOM 1277 O O . LYS D 1 28 ? 15.993 1.541 -13.981 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 1
+ATOM 1278 C CB . LYS D 1 28 ? 12.826 0.492 -12.510 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 1
+ATOM 1279 C CG . LYS D 1 28 ? 11.669 -0.347 -13.058 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 1
+ATOM 1280 C CD . LYS D 1 28 ? 10.702 -0.742 -11.940 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 1
+ATOM 1281 C CE . LYS D 1 28 ? 9.307 -1.031 -12.499 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 1
+ATOM 1282 N NZ . LYS D 1 28 ? 8.333 -1.205 -11.398 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 1
+ATOM 1283 H H . LYS D 1 28 ? 14.248 -1.502 -12.109 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 1
+ATOM 1284 H HA . LYS D 1 28 ? 13.859 0.179 -14.340 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 1
+ATOM 1285 H HB2 . LYS D 1 28 ? 12.974 0.268 -11.454 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 1
+ATOM 1286 H HB3 . LYS D 1 28 ? 12.577 1.551 -12.579 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 1
+ATOM 1287 H HG2 . LYS D 1 28 ? 11.136 0.219 -13.822 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 1
+ATOM 1288 H HG3 . LYS D 1 28 ? 12.061 -1.243 -13.539 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 1
+ATOM 1289 H HD2 . LYS D 1 28 ? 11.080 -1.624 -11.423 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 1
+ATOM 1290 H HD3 . LYS D 1 28 ? 10.644 0.059 -11.204 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 1
+ATOM 1291 H HE2 . LYS D 1 28 ? 8.991 -0.212 -13.146 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 1
+ATOM 1292 H HE3 . LYS D 1 28 ? 9.334 -1.930 -13.114 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 1
+ATOM 1293 H HZ1 . LYS D 1 28 ? 7.880 -2.091 -11.491 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 1
+ATOM 1294 H HZ2 . LYS D 1 28 ? 8.812 -1.166 -10.521 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 1
+ATOM 1295 H HZ3 . LYS D 1 28 ? 7.651 -0.475 -11.439 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 1
+ATOM 1296 N N . GLY D 1 29 ? 15.185 1.872 -11.895 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 1
+ATOM 1297 C CA . GLY D 1 29 ? 16.151 2.905 -11.564 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 1
+ATOM 1298 C C . GLY D 1 29 ? 15.779 4.235 -12.222 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 1
+ATOM 1299 O O . GLY D 1 29 ? 14.634 4.432 -12.627 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 1
+ATOM 1300 H H . GLY D 1 29 ? 14.533 1.655 -11.168 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 1
+ATOM 1301 H HA2 . GLY D 1 29 ? 16.199 3.031 -10.483 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 1
+ATOM 1302 H HA3 . GLY D 1 29 ? 17.144 2.598 -11.893 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 1
+ATOM 1303 N N . ALA D 1 30 ? 16.767 5.113 -12.308 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 1
+ATOM 1304 C CA . ALA D 1 30 ? 16.557 6.419 -12.910 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 1
+ATOM 1305 C C . ALA D 1 30 ? 15.245 7.010 -12.391 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 1
+ATOM 1306 O O . ALA D 1 30 ? 14.884 6.808 -11.233 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 1
+ATOM 1307 C CB . ALA D 1 30 ? 16.575 6.288 -14.434 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 1
+ATOM 1308 H H . ALA D 1 30 ? 17.695 4.945 -11.977 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 1
+ATOM 1309 H HA . ALA D 1 30 ? 17.382 7.062 -12.603 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 1
+ATOM 1310 H HB1 . ALA D 1 30 ? 15.644 5.832 -14.771 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 1
+ATOM 1311 H HB2 . ALA D 1 30 ? 16.679 7.276 -14.883 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 1
+ATOM 1312 H HB3 . ALA D 1 30 ? 17.416 5.663 -14.735 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 1
+ATOM 1313 N N . ILE D 1 31 ? 14.566 7.729 -13.274 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 1
+ATOM 1314 C CA . ILE D 1 31 ? 13.302 8.350 -12.920 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 1
+ATOM 1315 C C . ILE D 1 31 ? 12.155 7.562 -13.556 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 1
+ATOM 1316 O O . ILE D 1 31 ? 11.996 7.566 -14.776 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 1
+ATOM 1317 C CB . ILE D 1 31 ? 13.311 9.834 -13.294 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 1
+ATOM 1318 C CG1 . ILE D 1 31 ? 14.304 10.612 -12.429 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 1
+ATOM 1319 C CG2 . ILE D 1 31 ? 11.902 10.426 -13.222 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 1
+ATOM 1320 C CD1 . ILE D 1 31 ? 15.690 10.640 -13.076 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 1
+ATOM 1321 H H . ILE D 1 31 ? 14.867 7.888 -14.214 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 1
+ATOM 1322 H HA . ILE D 1 31 ? 13.202 8.292 -11.836 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 1
+ATOM 1323 H HB . ILE D 1 31 ? 13.645 9.923 -14.327 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 1
+ATOM 1324 H HG12 . ILE D 1 31 ? 13.945 11.631 -12.284 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 1
+ATOM 1325 H HG13 . ILE D 1 31 ? 14.369 10.153 -11.442 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 1
+ATOM 1326 H HG21 . ILE D 1 31 ? 11.266 9.778 -12.617 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 1
+ATOM 1327 H HG22 . ILE D 1 31 ? 11.946 11.416 -12.770 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 1
+ATOM 1328 H HG23 . ILE D 1 31 ? 11.489 10.504 -14.228 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 1
+ATOM 1329 H HD11 . ILE D 1 31 ? 15.929 9.651 -13.467 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 1
+ATOM 1330 H HD12 . ILE D 1 31 ? 15.696 11.364 -13.891 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 1
+ATOM 1331 H HD13 . ILE D 1 31 ? 16.433 10.926 -12.331 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 1
+ATOM 1332 N N . ILE D 1 32 ? 11.386 6.905 -12.701 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 1
+ATOM 1333 C CA . ILE D 1 32 ? 10.258 6.114 -13.165 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 1
+ATOM 1334 C C . ILE D 1 32 ? 9.004 6.516 -12.386 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 1
+ATOM 1335 O O . ILE D 1 32 ? 8.917 6.285 -11.181 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 1
+ATOM 1336 C CB . ILE D 1 32 ? 10.581 4.621 -13.082 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 1
+ATOM 1337 C CG1 . ILE D 1 32 ? 9.314 3.776 -13.231 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 1
+ATOM 1338 C CG2 . ILE D 1 32 ? 11.339 4.294 -11.793 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 1
+ATOM 1339 C CD1 . ILE D 1 32 ? 9.660 2.304 -13.462 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 1
+ATOM 1340 H H . ILE D 1 32 ? 11.522 6.906 -11.710 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 1
+ATOM 1341 H HA . ILE D 1 32 ? 10.103 6.352 -14.217 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 1
+ATOM 1342 H HB . ILE D 1 32 ? 11.237 4.366 -13.914 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 1
+ATOM 1343 H HG12 . ILE D 1 32 ? 8.700 3.873 -12.335 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 1
+ATOM 1344 H HG13 . ILE D 1 32 ? 8.720 4.149 -14.066 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 1
+ATOM 1345 H HG21 . ILE D 1 32 ? 12.301 4.805 -11.798 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 1
+ATOM 1346 H HG22 . ILE D 1 32 ? 10.755 4.627 -10.934 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 1
+ATOM 1347 H HG23 . ILE D 1 32 ? 11.498 3.218 -11.728 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 1
+ATOM 1348 H HD11 . ILE D 1 32 ? 8.741 1.724 -13.547 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 1
+ATOM 1349 H HD12 . ILE D 1 32 ? 10.238 2.206 -14.381 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 1
+ATOM 1350 H HD13 . ILE D 1 32 ? 10.248 1.933 -12.623 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 1
+ATOM 1351 N N . GLY D 1 33 ? 8.064 7.110 -13.106 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 1
+ATOM 1352 C CA . GLY D 1 33 ? 6.819 7.546 -12.498 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 1
+ATOM 1353 C C . GLY D 1 33 ? 5.673 6.598 -12.855 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 1
+ATOM 1354 O O . GLY D 1 33 ? 5.214 6.574 -13.996 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 1
+ATOM 1355 H H . GLY D 1 33 ? 8.143 7.294 -14.086 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 1
+ATOM 1356 H HA2 . GLY D 1 33 ? 6.935 7.591 -11.415 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 1
+ATOM 1357 H HA3 . GLY D 1 33 ? 6.579 8.555 -12.835 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 1
+ATOM 1358 N N . LEU D 1 34 ? 5.242 5.840 -11.857 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 1
+ATOM 1359 C CA . LEU D 1 34 ? 4.158 4.892 -12.051 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 1
+ATOM 1360 C C . LEU D 1 34 ? 2.851 5.510 -11.553 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 1
+ATOM 1361 O O . LEU D 1 34 ? 2.682 5.735 -10.356 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 1
+ATOM 1362 C CB . LEU D 1 34 ? 4.494 3.552 -11.393 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 1
+ATOM 1363 C CG . LEU D 1 34 ? 3.932 2.307 -12.082 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 1
+ATOM 1364 C CD1 . LEU D 1 34 ? 5.047 1.315 -12.419 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 1
+ATOM 1365 C CD2 . LEU D 1 34 ? 2.830 1.664 -11.238 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 1
+ATOM 1366 H H . LEU D 1 34 ? 5.621 5.865 -10.932 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 1
+ATOM 1367 H HA . LEU D 1 34 ? 4.070 4.712 -13.122 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 1
+ATOM 1368 H HB2 . LEU D 1 34 ? 5.579 3.456 -11.343 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 1
+ATOM 1369 H HB3 . LEU D 1 34 ? 4.128 3.571 -10.367 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 1
+ATOM 1370 H HG . LEU D 1 34 ? 3.478 2.613 -13.025 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 1
+ATOM 1371 H HD11 . LEU D 1 34 ? 5.098 0.548 -11.647 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 1
+ATOM 1372 H HD12 . LEU D 1 34 ? 4.840 0.848 -13.382 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 1
+ATOM 1373 H HD13 . LEU D 1 34 ? 6.000 1.843 -12.469 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 1
+ATOM 1374 H HD21 . LEU D 1 34 ? 2.495 2.370 -10.479 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 1
+ATOM 1375 H HD22 . LEU D 1 34 ? 1.990 1.396 -11.880 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 1
+ATOM 1376 H HD23 . LEU D 1 34 ? 3.218 0.767 -10.755 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 1
+ATOM 1377 N N . MET D 1 35 ? 1.958 5.768 -12.498 1.00 0.00 ? ? ? ? ? ? 35 MET D N 1
+ATOM 1378 C CA . MET D 1 35 ? 0.670 6.356 -12.170 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 1
+ATOM 1379 C C . MET D 1 35 ? -0.475 5.416 -12.552 1.00 0.00 ? ? ? ? ? ? 35 MET D C 1
+ATOM 1380 O O . MET D 1 35 ? -0.588 5.007 -13.706 1.00 0.00 ? ? ? ? ? ? 35 MET D O 1
+ATOM 1381 C CB . MET D 1 35 ? 0.511 7.684 -12.915 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 1
+ATOM 1382 C CG . MET D 1 35 ? 1.045 8.849 -12.078 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 1
+ATOM 1383 S SD . MET D 1 35 ? -0.206 10.113 -11.926 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 1
+ATOM 1384 C CE . MET D 1 35 ? 0.827 11.532 -11.597 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 1
+ATOM 1385 H H . MET D 1 35 ? 2.103 5.583 -13.470 1.00 0.00 ? ? ? ? ? ? 35 MET D H 1
+ATOM 1386 H HA . MET D 1 35 ? 0.683 6.506 -11.091 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 1
+ATOM 1387 H HB2 . MET D 1 35 ? 1.045 7.639 -13.864 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 1
+ATOM 1388 H HB3 . MET D 1 35 ? -0.540 7.850 -13.147 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 1
+ATOM 1389 H HG2 . MET D 1 35 ? 1.337 8.494 -11.090 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 1
+ATOM 1390 H HG3 . MET D 1 35 ? 1.938 9.263 -12.545 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 1
+ATOM 1391 H HE1 . MET D 1 35 ? 0.305 12.439 -11.900 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 1
+ATOM 1392 H HE2 . MET D 1 35 ? 1.051 11.580 -10.532 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 1
+ATOM 1393 H HE3 . MET D 1 35 ? 1.756 11.443 -12.160 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 1
+ATOM 1394 N N . VAL D 1 36 ? -1.295 5.102 -11.560 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 1
+ATOM 1395 C CA . VAL D 1 36 ? -2.427 4.218 -11.777 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 1
+ATOM 1396 C C . VAL D 1 36 ? -3.725 4.983 -11.510 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 1
+ATOM 1397 O O . VAL D 1 36 ? -4.055 5.271 -10.361 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 1
+ATOM 1398 C CB . VAL D 1 36 ? -2.285 2.963 -10.913 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 1
+ATOM 1399 C CG1 . VAL D 1 36 ? -3.618 2.221 -10.800 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 1
+ATOM 1400 C CG2 . VAL D 1 36 ? -1.190 2.044 -11.457 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 1
+ATOM 1401 H H . VAL D 1 36 ? -1.196 5.439 -10.624 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 1
+ATOM 1402 H HA . VAL D 1 36 ? -2.409 3.911 -12.823 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 1
+ATOM 1403 H HB . VAL D 1 36 ? -1.991 3.277 -9.912 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 1
+ATOM 1404 H HG11 . VAL D 1 36 ? -4.079 2.445 -9.838 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 1
+ATOM 1405 H HG12 . VAL D 1 36 ? -4.281 2.541 -11.604 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 1
+ATOM 1406 H HG13 . VAL D 1 36 ? -3.444 1.148 -10.879 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 1
+ATOM 1407 H HG21 . VAL D 1 36 ? -1.643 1.258 -12.062 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 1
+ATOM 1408 H HG22 . VAL D 1 36 ? -0.501 2.624 -12.072 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 1
+ATOM 1409 H HG23 . VAL D 1 36 ? -0.646 1.595 -10.627 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 1
+ATOM 1410 N N . GLY D 1 37 ? -4.426 5.291 -12.592 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 1
+ATOM 1411 C CA . GLY D 1 37 ? -5.680 6.018 -12.489 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 1
+ATOM 1412 C C . GLY D 1 37 ? -6.866 5.055 -12.410 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 1
+ATOM 1413 O O . GLY D 1 37 ? -7.172 4.360 -13.378 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 1
+ATOM 1414 H H . GLY D 1 37 ? -4.150 5.054 -13.523 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 1
+ATOM 1415 H HA2 . GLY D 1 37 ? -5.664 6.655 -11.605 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 1
+ATOM 1416 H HA3 . GLY D 1 37 ? -5.796 6.674 -13.352 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 1
+ATOM 1417 N N . GLY D 1 38 ? -7.503 5.045 -11.248 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 1
+ATOM 1418 C CA . GLY D 1 38 ? -8.649 4.180 -11.030 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 1
+ATOM 1419 C C . GLY D 1 38 ? -9.773 4.929 -10.312 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 1
+ATOM 1420 O O . GLY D 1 38 ? -10.009 4.712 -9.124 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 1
+ATOM 1421 H H . GLY D 1 38 ? -7.248 5.614 -10.466 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 1
+ATOM 1422 H HA2 . GLY D 1 38 ? -9.012 3.802 -11.986 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 1
+ATOM 1423 H HA3 . GLY D 1 38 ? -8.349 3.314 -10.439 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 1
+ATOM 1424 N N . VAL D 1 39 ? -10.438 5.795 -11.063 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 1
+ATOM 1425 C CA . VAL D 1 39 ? -11.531 6.578 -10.513 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 1
+ATOM 1426 C C . VAL D 1 39 ? -12.847 6.127 -11.151 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 1
+ATOM 1427 O O . VAL D 1 39 ? -12.884 5.794 -12.335 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 1
+ATOM 1428 C CB . VAL D 1 39 ? -11.255 8.070 -10.704 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 1
+ATOM 1429 C CG1 . VAL D 1 39 ? -12.266 8.919 -9.929 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 1
+ATOM 1430 C CG2 . VAL D 1 39 ? -9.821 8.419 -10.298 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 1
+ATOM 1431 H H . VAL D 1 39 ? -10.239 5.966 -12.028 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 1
+ATOM 1432 H HA . VAL D 1 39 ? -11.574 6.377 -9.442 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 1
+ATOM 1433 H HB . VAL D 1 39 ? -11.368 8.299 -11.763 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 1
+ATOM 1434 H HG11 . VAL D 1 39 ? -11.795 9.312 -9.028 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 1
+ATOM 1435 H HG12 . VAL D 1 39 ? -12.601 9.746 -10.555 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 1
+ATOM 1436 H HG13 . VAL D 1 39 ? -13.121 8.302 -9.653 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 1
+ATOM 1437 H HG21 . VAL D 1 39 ? -9.126 7.767 -10.827 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 1
+ATOM 1438 H HG22 . VAL D 1 39 ? -9.613 9.457 -10.555 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 1
+ATOM 1439 H HG23 . VAL D 1 39 ? -9.704 8.280 -9.223 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 1
+ATOM 1440 N N . VAL D 1 40 ? -13.894 6.131 -10.339 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 1
+ATOM 1441 C CA . VAL D 1 40 ? -15.207 5.726 -10.810 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 1
+ATOM 1442 C C . VAL D 1 40 ? -16.264 6.672 -10.235 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 1
+ATOM 1443 O O . VAL D 1 40 ? -16.240 6.986 -9.046 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 1
+ATOM 1444 C CB . VAL D 1 40 ? -15.462 4.260 -10.456 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 1
+ATOM 1445 C CG1 . VAL D 1 40 ? -16.835 3.806 -10.954 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 1
+ATOM 1446 C CG2 . VAL D 1 40 ? -14.353 3.362 -11.010 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 1
+ATOM 1447 H H . VAL D 1 40 ? -13.855 6.403 -9.378 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 1
+ATOM 1448 H HA . VAL D 1 40 ? -15.210 5.817 -11.896 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 1
+ATOM 1449 H HB . VAL D 1 40 ? -15.453 4.171 -9.370 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 1
+ATOM 1450 H HG11 . VAL D 1 40 ? -17.599 4.104 -10.235 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 1
+ATOM 1451 H HG12 . VAL D 1 40 ? -17.044 4.269 -11.918 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 1
+ATOM 1452 H HG13 . VAL D 1 40 ? -16.842 2.721 -11.063 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 1
+ATOM 1453 H HG21 . VAL D 1 40 ? -14.788 2.432 -11.377 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 1
+ATOM 1454 H HG22 . VAL D 1 40 ? -13.846 3.874 -11.828 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 1
+ATOM 1455 H HG23 . VAL D 1 40 ? -13.636 3.141 -10.220 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 1
+ATOM 1456 N N . ILE D 1 41 ? -17.167 7.099 -11.106 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 1
+ATOM 1457 C CA . ILE D 1 41 ? -18.230 8.002 -10.699 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 1
+ATOM 1458 C C . ILE D 1 41 ? -19.555 7.525 -11.296 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 1
+ATOM 1459 O O . ILE D 1 41 ? -19.769 7.626 -12.503 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 1
+ATOM 1460 C CB . ILE D 1 41 ? -17.876 9.445 -11.064 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 1
+ATOM 1461 C CG1 . ILE D 1 41 ? -16.669 9.934 -10.260 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 1
+ATOM 1462 C CG2 . ILE D 1 41 ? -19.086 10.366 -10.898 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 1
+ATOM 1463 C CD1 . ILE D 1 41 ? -16.182 11.291 -10.773 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 1
+ATOM 1464 H H . ILE D 1 41 ? -17.179 6.839 -12.071 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 1
+ATOM 1465 H HA . ILE D 1 41 ? -18.302 7.953 -9.613 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 1
+ATOM 1466 H HB . ILE D 1 41 ? -17.593 9.472 -12.117 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 1
+ATOM 1467 H HG12 . ILE D 1 41 ? -16.938 10.015 -9.207 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 1
+ATOM 1468 H HG13 . ILE D 1 41 ? -15.862 9.204 -10.328 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 1
+ATOM 1469 H HG21 . ILE D 1 41 ? -18.836 11.364 -11.258 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 1
+ATOM 1470 H HG22 . ILE D 1 41 ? -19.924 9.972 -11.473 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 1
+ATOM 1471 H HG23 . ILE D 1 41 ? -19.361 10.418 -9.845 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 1
+ATOM 1472 H HD11 . ILE D 1 41 ? -15.951 11.216 -11.835 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 1
+ATOM 1473 H HD12 . ILE D 1 41 ? -16.961 12.038 -10.621 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 1
+ATOM 1474 H HD13 . ILE D 1 41 ? -15.285 11.585 -10.226 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 1
+ATOM 1475 N N . ALA D 1 42 ? -20.411 7.014 -10.423 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 1
+ATOM 1476 C CA . ALA D 1 42 ? -21.709 6.520 -10.848 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 1
+ATOM 1477 C C . ALA D 1 42 ? -22.792 7.087 -9.928 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 1
+ATOM 1478 O O . ALA D 1 42 ? -23.399 6.352 -9.151 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 1
+ATOM 1479 C CB . ALA D 1 42 ? -21.696 4.991 -10.859 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 1
+ATOM 1480 H H . ALA D 1 42 ? -20.229 6.935 -9.442 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 1
+ATOM 1481 H HA . ALA D 1 42 ? -21.884 6.877 -11.863 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 1
+ATOM 1482 H HB1 . ALA D 1 42 ? -22.583 4.616 -10.349 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 1
+ATOM 1483 H HB2 . ALA D 1 42 ? -21.691 4.634 -11.889 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 1
+ATOM 1484 H HB3 . ALA D 1 42 ? -20.803 4.632 -10.346 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 1
+ATOM 1485 N N . LEU E 1 17 ? -15.416 -4.638 -20.698 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 1
+ATOM 1486 C CA . LEU E 1 17 ? -14.469 -3.598 -20.334 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 1
+ATOM 1487 C C . LEU E 1 17 ? -13.190 -4.244 -19.798 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 1
+ATOM 1488 O O . LEU E 1 17 ? -12.866 -4.105 -18.620 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 1
+ATOM 1489 C CB . LEU E 1 17 ? -15.110 -2.606 -19.361 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 1
+ATOM 1490 C CG . LEU E 1 17 ? -15.475 -1.238 -19.942 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 1
+ATOM 1491 C CD1 . LEU E 1 17 ? -16.989 -1.017 -19.915 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 1
+ATOM 1492 C CD2 . LEU E 1 17 ? -14.720 -0.118 -19.224 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 1
+ATOM 1493 H H . LEU E 1 17 ? -15.674 -5.254 -19.955 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 1
+ATOM 1494 H HA . LEU E 1 17 ? -14.224 -3.046 -21.241 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 1
+ATOM 1495 H HB2 . LEU E 1 17 ? -16.015 -3.059 -18.955 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 1
+ATOM 1496 H HB3 . LEU E 1 17 ? -14.427 -2.453 -18.526 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 1
+ATOM 1497 H HG . LEU E 1 17 ? -15.166 -1.217 -20.987 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 1
+ATOM 1498 H HD11 . LEU E 1 17 ? -17.200 0.024 -19.671 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 1
+ATOM 1499 H HD12 . LEU E 1 17 ? -17.408 -1.253 -20.893 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 1
+ATOM 1500 H HD13 . LEU E 1 17 ? -17.437 -1.665 -19.161 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 1
+ATOM 1501 H HD21 . LEU E 1 17 ? -14.674 0.760 -19.867 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 1
+ATOM 1502 H HD22 . LEU E 1 17 ? -15.238 0.135 -18.299 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 1
+ATOM 1503 H HD23 . LEU E 1 17 ? -13.708 -0.452 -18.993 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 1
+ATOM 1504 N N . VAL E 1 18 ? -12.497 -4.938 -20.690 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 1
+ATOM 1505 C CA . VAL E 1 18 ? -11.261 -5.606 -20.321 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 1
+ATOM 1506 C C . VAL E 1 18 ? -10.073 -4.724 -20.713 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 1
+ATOM 1507 O O . VAL E 1 18 ? -9.972 -4.285 -21.857 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 1
+ATOM 1508 C CB . VAL E 1 18 ? -11.208 -6.997 -20.957 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 1
+ATOM 1509 C CG1 . VAL E 1 18 ? -9.847 -7.655 -20.723 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 1
+ATOM 1510 C CG2 . VAL E 1 18 ? -12.342 -7.881 -20.436 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 1
+ATOM 1511 H H . VAL E 1 18 ? -12.768 -5.046 -21.646 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 1
+ATOM 1512 H HA . VAL E 1 18 ? -11.264 -5.730 -19.238 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 1
+ATOM 1513 H HB . VAL E 1 18 ? -11.342 -6.879 -22.033 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 1
+ATOM 1514 H HG11 . VAL E 1 18 ? -9.994 -8.666 -20.342 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 1
+ATOM 1515 H HG12 . VAL E 1 18 ? -9.297 -7.698 -21.663 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 1
+ATOM 1516 H HG13 . VAL E 1 18 ? -9.281 -7.072 -19.997 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 1
+ATOM 1517 H HG21 . VAL E 1 18 ? -12.579 -8.643 -21.179 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 1
+ATOM 1518 H HG22 . VAL E 1 18 ? -12.032 -8.362 -19.509 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 1
+ATOM 1519 H HG23 . VAL E 1 18 ? -13.225 -7.269 -20.250 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 1
+ATOM 1520 N N . PHE E 1 19 ? -9.204 -4.491 -19.740 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 1
+ATOM 1521 C CA . PHE E 1 19 ? -8.028 -3.670 -19.969 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 1
+ATOM 1522 C C . PHE E 1 19 ? -6.757 -4.397 -19.526 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 1
+ATOM 1523 O O . PHE E 1 19 ? -6.279 -4.195 -18.410 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 1
+ATOM 1524 C CB . PHE E 1 19 ? -8.196 -2.403 -19.127 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 1
+ATOM 1525 C CG . PHE E 1 19 ? -7.603 -1.147 -19.768 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 1
+ATOM 1526 C CD1 . PHE E 1 19 ? -6.404 -1.210 -20.407 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 1
+ATOM 1527 C CD2 . PHE E 1 19 ? -8.275 0.034 -19.699 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 1
+ATOM 1528 C CE1 . PHE E 1 19 ? -5.854 -0.044 -21.002 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 1
+ATOM 1529 C CE2 . PHE E 1 19 ? -7.725 1.200 -20.294 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 1
+ATOM 1530 C CZ . PHE E 1 19 ? -6.526 1.136 -20.933 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 1
+ATOM 1531 H H . PHE E 1 19 ? -9.294 -4.852 -18.812 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 1
+ATOM 1532 H HA . PHE E 1 19 ? -7.976 -3.470 -21.039 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 1
+ATOM 1533 H HB2 . PHE E 1 19 ? -9.258 -2.239 -18.945 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 1
+ATOM 1534 H HB3 . PHE E 1 19 ? -7.727 -2.559 -18.156 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 1
+ATOM 1535 H HD1 . PHE E 1 19 ? -5.866 -2.157 -20.463 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 1
+ATOM 1536 H HD2 . PHE E 1 19 ? -9.236 0.085 -19.187 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 1
+ATOM 1537 H HE1 . PHE E 1 19 ? -4.893 -0.095 -21.514 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 1
+ATOM 1538 H HE2 . PHE E 1 19 ? -8.263 2.146 -20.238 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 1
+ATOM 1539 H HZ . PHE E 1 19 ? -6.103 2.031 -21.390 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 1
+ATOM 1540 N N . PHE E 1 20 ? -6.245 -5.228 -20.422 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 1
+ATOM 1541 C CA . PHE E 1 20 ? -5.039 -5.986 -20.138 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 1
+ATOM 1542 C C . PHE E 1 20 ? -3.797 -5.253 -20.649 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 1
+ATOM 1543 O O . PHE E 1 20 ? -3.730 -4.879 -21.819 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 1
+ATOM 1544 C CB . PHE E 1 20 ? -5.166 -7.322 -20.873 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 1
+ATOM 1545 C CG . PHE E 1 20 ? -5.062 -8.546 -19.961 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 1
+ATOM 1546 C CD1 . PHE E 1 20 ? -3.854 -8.918 -19.458 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 1
+ATOM 1547 C CD2 . PHE E 1 20 ? -6.176 -9.262 -19.653 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 1
+ATOM 1548 C CE1 . PHE E 1 20 ? -3.757 -10.054 -18.612 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 1
+ATOM 1549 C CE2 . PHE E 1 20 ? -6.079 -10.398 -18.807 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 1
+ATOM 1550 C CZ . PHE E 1 20 ? -4.872 -10.770 -18.304 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 1
+ATOM 1551 H H . PHE E 1 20 ? -6.640 -5.386 -21.327 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 1
+ATOM 1552 H HA . PHE E 1 20 ? -4.974 -6.096 -19.055 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 1
+ATOM 1553 H HB2 . PHE E 1 20 ? -6.124 -7.349 -21.392 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 1
+ATOM 1554 H HB3 . PHE E 1 20 ? -4.389 -7.381 -21.634 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 1
+ATOM 1555 H HD1 . PHE E 1 20 ? -2.961 -8.344 -19.705 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 1
+ATOM 1556 H HD2 . PHE E 1 20 ? -7.144 -8.964 -20.056 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 1
+ATOM 1557 H HE1 . PHE E 1 20 ? -2.789 -10.353 -18.209 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 1
+ATOM 1558 H HE2 . PHE E 1 20 ? -6.972 -10.972 -18.560 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 1
+ATOM 1559 H HZ . PHE E 1 20 ? -4.797 -11.642 -17.655 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 1
+ATOM 1560 N N . ALA E 1 21 ? -2.844 -5.069 -19.746 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 1
+ATOM 1561 C CA . ALA E 1 21 ? -1.609 -4.387 -20.091 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 1
+ATOM 1562 C C . ALA E 1 21 ? -0.424 -5.165 -19.515 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 1
+ATOM 1563 O O . ALA E 1 21 ? -0.297 -5.299 -18.299 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 1
+ATOM 1564 C CB . ALA E 1 21 ? -1.662 -2.945 -19.583 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 1
+ATOM 1565 H H . ALA E 1 21 ? -2.907 -5.376 -18.797 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 1
+ATOM 1566 H HA . ALA E 1 21 ? -1.529 -4.373 -21.178 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 1
+ATOM 1567 H HB1 . ALA E 1 21 ? -0.912 -2.807 -18.803 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 1
+ATOM 1568 H HB2 . ALA E 1 21 ? -1.459 -2.261 -20.407 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 1
+ATOM 1569 H HB3 . ALA E 1 21 ? -2.652 -2.740 -19.175 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 1
+ATOM 1570 N N . GLU E 1 22 ? 0.413 -5.658 -20.416 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 1
+ATOM 1571 C CA . GLU E 1 22 ? 1.583 -6.420 -20.012 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 1
+ATOM 1572 C C . GLU E 1 22 ? 2.851 -5.797 -20.601 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 1
+ATOM 1573 O O . GLU E 1 22 ? 3.315 -6.212 -21.662 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 1
+ATOM 1574 C CB . GLU E 1 22 ? 1.451 -7.887 -20.423 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 1
+ATOM 1575 C CG . GLU E 1 22 ? 2.539 -8.741 -19.769 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 1
+ATOM 1576 C CD . GLU E 1 22 ? 2.112 -10.208 -19.689 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 1
+ATOM 1577 O OE1 . GLU E 1 22 ? 1.214 -10.580 -20.474 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 1
+ATOM 1578 O OE2 . GLU E 1 22 ? 2.694 -10.923 -18.846 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 1
+ATOM 1579 H H . GLU E 1 22 ? 0.303 -5.545 -21.403 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 1
+ATOM 1580 H HA . GLU E 1 22 ? 1.610 -6.355 -18.924 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 1
+ATOM 1581 H HB2 . GLU E 1 22 ? 0.469 -8.262 -20.137 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 1
+ATOM 1582 H HB3 . GLU E 1 22 ? 1.521 -7.973 -21.508 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 1
+ATOM 1583 H HG2 . GLU E 1 22 ? 3.464 -8.658 -20.339 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 1
+ATOM 1584 H HG3 . GLU E 1 22 ? 2.748 -8.364 -18.767 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 1
+ATOM 1585 N N . ASP E 1 23 ? 3.375 -4.812 -19.887 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 1
+ATOM 1586 C CA . ASP E 1 23 ? 4.579 -4.128 -20.325 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 1
+ATOM 1587 C C . ASP E 1 23 ? 5.806 -4.922 -19.869 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 1
+ATOM 1588 O O . ASP E 1 23 ? 5.981 -5.169 -18.677 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 1
+ATOM 1589 C CB . ASP E 1 23 ? 4.670 -2.727 -19.717 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 1
+ATOM 1590 C CG . ASP E 1 23 ? 5.984 -1.990 -19.984 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 1
+ATOM 1591 O OD1 . ASP E 1 23 ? 6.944 -2.249 -19.227 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 1
+ATOM 1592 O OD2 . ASP E 1 23 ? 5.998 -1.184 -20.940 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 1
+ATOM 1593 H H . ASP E 1 23 ? 2.991 -4.481 -19.025 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 1
+ATOM 1594 H HA . ASP E 1 23 ? 4.498 -4.073 -21.411 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 1
+ATOM 1595 H HB2 . ASP E 1 23 ? 3.848 -2.125 -20.105 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 1
+ATOM 1596 H HB3 . ASP E 1 23 ? 4.527 -2.805 -18.640 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 1
+ATOM 1597 N N . VAL E 1 24 ? 6.622 -5.298 -20.842 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 1
+ATOM 1598 C CA . VAL E 1 24 ? 7.827 -6.058 -20.556 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 1
+ATOM 1599 C C . VAL E 1 24 ? 9.048 -5.272 -21.038 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 1
+ATOM 1600 O O . VAL E 1 24 ? 9.266 -5.133 -22.240 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 1
+ATOM 1601 C CB . VAL E 1 24 ? 7.728 -7.451 -21.181 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 1
+ATOM 1602 C CG1 . VAL E 1 24 ? 8.793 -8.387 -20.607 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 1
+ATOM 1603 C CG2 . VAL E 1 24 ? 6.327 -8.037 -20.997 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 1
+ATOM 1604 H H . VAL E 1 24 ? 6.472 -5.093 -21.809 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 1
+ATOM 1605 H HA . VAL E 1 24 ? 7.891 -6.178 -19.474 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 1
+ATOM 1606 H HB . VAL E 1 24 ? 7.911 -7.352 -22.251 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 1
+ATOM 1607 H HG11 . VAL E 1 24 ? 8.985 -9.196 -21.312 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 1
+ATOM 1608 H HG12 . VAL E 1 24 ? 9.714 -7.829 -20.436 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 1
+ATOM 1609 H HG13 . VAL E 1 24 ? 8.440 -8.804 -19.664 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 1
+ATOM 1610 H HG21 . VAL E 1 24 ? 6.167 -8.272 -19.945 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 1
+ATOM 1611 H HG22 . VAL E 1 24 ? 5.583 -7.309 -21.323 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 1
+ATOM 1612 H HG23 . VAL E 1 24 ? 6.231 -8.945 -21.592 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 1
+ATOM 1613 N N . GLY E 1 25 ? 9.811 -4.778 -20.074 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 1
+ATOM 1614 C CA . GLY E 1 25 ? 11.005 -4.009 -20.385 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 1
+ATOM 1615 C C . GLY E 1 25 ? 12.187 -4.458 -19.524 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 1
+ATOM 1616 O O . GLY E 1 25 ? 12.039 -4.664 -18.320 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 1
+ATOM 1617 H H . GLY E 1 25 ? 9.627 -4.895 -19.099 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 1
+ATOM 1618 H HA2 . GLY E 1 25 ? 11.253 -4.127 -21.440 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 1
+ATOM 1619 H HA3 . GLY E 1 25 ? 10.812 -2.949 -20.220 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 1
+ATOM 1620 N N . SER E 1 26 ? 13.332 -4.598 -20.174 1.00 0.00 ? ? ? ? ? ? 26 SER E N 1
+ATOM 1621 C CA . SER E 1 26 ? 14.539 -5.019 -19.483 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 1
+ATOM 1622 C C . SER E 1 26 ? 15.504 -3.840 -19.349 1.00 0.00 ? ? ? ? ? ? 26 SER E C 1
+ATOM 1623 O O . SER E 1 26 ? 16.072 -3.382 -20.340 1.00 0.00 ? ? ? ? ? ? 26 SER E O 1
+ATOM 1624 C CB . SER E 1 26 ? 15.216 -6.179 -20.215 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 1
+ATOM 1625 O OG . SER E 1 26 ? 15.085 -7.408 -19.505 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 1
+ATOM 1626 H H . SER E 1 26 ? 13.444 -4.428 -21.153 1.00 0.00 ? ? ? ? ? ? 26 SER E H 1
+ATOM 1627 H HA . SER E 1 26 ? 14.206 -5.354 -18.501 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 1
+ATOM 1628 H HB2 . SER E 1 26 ? 14.780 -6.286 -21.208 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 1
+ATOM 1629 H HB3 . SER E 1 26 ? 16.273 -5.952 -20.354 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 1
+ATOM 1630 H HG . SER E 1 26 ? 14.128 -7.561 -19.260 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 1
+ATOM 1631 N N . ASN E 1 27 ? 15.661 -3.382 -18.116 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 1
+ATOM 1632 C CA . ASN E 1 27 ? 16.548 -2.264 -17.840 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 1
+ATOM 1633 C C . ASN E 1 27 ? 15.915 -0.974 -18.364 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 1
+ATOM 1634 O O . ASN E 1 27 ? 16.295 -0.477 -19.423 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 1
+ATOM 1635 C CB . ASN E 1 27 ? 17.897 -2.446 -18.539 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 1
+ATOM 1636 C CG . ASN E 1 27 ? 19.052 -2.326 -17.542 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 1
+ATOM 1637 O OD1 . ASN E 1 27 ? 19.390 -3.257 -16.829 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 1
+ATOM 1638 N ND2 . ASN E 1 27 ? 19.636 -1.131 -17.532 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 1
+ATOM 1639 H H . ASN E 1 27 ? 15.196 -3.759 -17.316 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 1
+ATOM 1640 H HA . ASN E 1 27 ? 16.673 -2.258 -16.757 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 1
+ATOM 1641 H HB2 . ASN E 1 27 ? 17.931 -3.422 -19.024 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 1
+ATOM 1642 H HB3 . ASN E 1 27 ? 18.009 -1.697 -19.322 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 1
+ATOM 1643 H HD21 . ASN E 1 27 ? 19.309 -0.410 -18.143 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 1
+ATOM 1644 H HD22 . ASN E 1 27 ? 20.401 -0.954 -16.914 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 1
+ATOM 1645 N N . LYS E 1 28 ? 14.959 -0.468 -17.598 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 1
+ATOM 1646 C CA . LYS E 1 28 ? 14.269 0.754 -17.972 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 1
+ATOM 1647 C C . LYS E 1 28 ? 15.212 1.945 -17.786 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 1
+ATOM 1648 O O . LYS E 1 28 ? 15.817 2.418 -18.747 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 1
+ATOM 1649 C CB . LYS E 1 28 ? 12.954 0.885 -17.201 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 1
+ATOM 1650 C CG . LYS E 1 28 ? 12.003 -0.265 -17.538 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 1
+ATOM 1651 C CD . LYS E 1 28 ? 10.871 -0.359 -16.513 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 1
+ATOM 1652 C CE . LYS E 1 28 ? 9.600 -0.922 -17.151 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 1
+ATOM 1653 N NZ . LYS E 1 28 ? 8.488 -0.928 -16.174 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 1
+ATOM 1654 H H . LYS E 1 28 ? 14.656 -0.879 -16.739 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 1
+ATOM 1655 H HA . LYS E 1 28 ? 14.016 0.676 -19.030 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 1
+ATOM 1656 H HB2 . LYS E 1 28 ? 13.156 0.893 -16.129 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 1
+ATOM 1657 H HB3 . LYS E 1 28 ? 12.480 1.837 -17.441 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 1
+ATOM 1658 H HG2 . LYS E 1 28 ? 11.586 -0.115 -18.534 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 1
+ATOM 1659 H HG3 . LYS E 1 28 ? 12.556 -1.204 -17.562 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 1
+ATOM 1660 H HD2 . LYS E 1 28 ? 11.179 -0.995 -15.684 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 1
+ATOM 1661 H HD3 . LYS E 1 28 ? 10.668 0.629 -16.099 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 1
+ATOM 1662 H HE2 . LYS E 1 28 ? 9.325 -0.323 -18.020 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 1
+ATOM 1663 H HE3 . LYS E 1 28 ? 9.783 -1.936 -17.508 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 1
+ATOM 1664 H HZ1 . LYS E 1 28 ? 8.806 -0.547 -15.305 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 1
+ATOM 1665 H HZ2 . LYS E 1 28 ? 7.734 -0.373 -16.524 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 1
+ATOM 1666 H HZ3 . LYS E 1 28 ? 8.174 -1.867 -16.032 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 1
+ATOM 1667 N N . GLY E 1 29 ? 15.309 2.394 -16.544 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 1
+ATOM 1668 C CA . GLY E 1 29 ? 16.169 3.519 -16.219 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 1
+ATOM 1669 C C . GLY E 1 29 ? 15.727 4.780 -16.966 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 1
+ATOM 1670 O O . GLY E 1 29 ? 14.559 4.914 -17.328 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 1
+ATOM 1671 H H . GLY E 1 29 ? 14.814 2.003 -15.768 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 1
+ATOM 1672 H HA2 . GLY E 1 29 ? 16.145 3.702 -15.145 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 1
+ATOM 1673 H HA3 . GLY E 1 29 ? 17.200 3.281 -16.480 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 1
+ATOM 1674 N N . ALA E 1 30 ? 16.684 5.671 -17.175 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 1
+ATOM 1675 C CA . ALA E 1 30 ? 16.409 6.916 -17.872 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 1
+ATOM 1676 C C . ALA E 1 30 ? 15.142 7.549 -17.294 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 1
+ATOM 1677 O O . ALA E 1 30 ? 14.847 7.388 -16.111 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 1
+ATOM 1678 C CB . ALA E 1 30 ? 16.292 6.645 -19.374 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 1
+ATOM 1679 H H . ALA E 1 30 ? 17.632 5.554 -16.878 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 1
+ATOM 1680 H HA . ALA E 1 30 ? 17.251 7.586 -17.701 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 1
+ATOM 1681 H HB1 . ALA E 1 30 ? 15.241 6.554 -19.646 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 1
+ATOM 1682 H HB2 . ALA E 1 30 ? 16.741 7.470 -19.927 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 1
+ATOM 1683 H HB3 . ALA E 1 30 ? 16.812 5.719 -19.617 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 1
+ATOM 1684 N N . ILE E 1 31 ? 14.426 8.257 -18.156 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 1
+ATOM 1685 C CA . ILE E 1 31 ? 13.198 8.916 -17.745 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 1
+ATOM 1686 C C . ILE E 1 31 ? 12.001 8.172 -18.342 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 1
+ATOM 1687 O O . ILE E 1 31 ? 11.800 8.187 -19.556 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 1
+ATOM 1688 C CB . ILE E 1 31 ? 13.240 10.402 -18.106 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 1
+ATOM 1689 C CG1 . ILE E 1 31 ? 14.681 10.917 -18.141 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 1
+ATOM 1690 C CG2 . ILE E 1 31 ? 12.362 11.222 -17.158 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 1
+ATOM 1691 C CD1 . ILE E 1 31 ? 15.388 10.658 -16.809 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 1
+ATOM 1692 H H . ILE E 1 31 ? 14.673 8.384 -19.116 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 1
+ATOM 1693 H HA . ILE E 1 31 ? 13.139 8.849 -16.659 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 1
+ATOM 1694 H HB . ILE E 1 31 ? 12.831 10.522 -19.109 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 1
+ATOM 1695 H HG12 . ILE E 1 31 ? 15.226 10.427 -18.948 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 1
+ATOM 1696 H HG13 . ILE E 1 31 ? 14.684 11.985 -18.357 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 1
+ATOM 1697 H HG21 . ILE E 1 31 ? 12.819 11.247 -16.169 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 1
+ATOM 1698 H HG22 . ILE E 1 31 ? 12.265 12.238 -17.540 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 1
+ATOM 1699 H HG23 . ILE E 1 31 ? 11.375 10.764 -17.091 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 1
+ATOM 1700 H HD11 . ILE E 1 31 ? 16.126 9.866 -16.937 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 1
+ATOM 1701 H HD12 . ILE E 1 31 ? 15.886 11.570 -16.479 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 1
+ATOM 1702 H HD13 . ILE E 1 31 ? 14.655 10.354 -16.062 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 1
+ATOM 1703 N N . ILE E 1 32 ? 11.239 7.540 -17.462 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 1
+ATOM 1704 C CA . ILE E 1 32 ? 10.068 6.792 -17.887 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 1
+ATOM 1705 C C . ILE E 1 32 ? 8.885 7.148 -16.984 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 1
+ATOM 1706 O O . ILE E 1 32 ? 9.070 7.462 -15.809 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 1
+ATOM 1707 C CB . ILE E 1 32 ? 10.377 5.294 -17.935 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 1
+ATOM 1708 C CG1 . ILE E 1 32 ? 9.287 4.533 -18.692 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 1
+ATOM 1709 C CG2 . ILE E 1 32 ? 10.595 4.734 -16.528 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 1
+ATOM 1710 C CD1 . ILE E 1 32 ? 8.179 4.073 -17.742 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 1
+ATOM 1711 H H . ILE E 1 32 ? 11.410 7.533 -16.477 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 1
+ATOM 1712 H HA . ILE E 1 32 ? 9.832 7.105 -18.904 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 1
+ATOM 1713 H HB . ILE E 1 32 ? 11.308 5.155 -18.485 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 1
+ATOM 1714 H HG12 . ILE E 1 32 ? 8.864 5.172 -19.467 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 1
+ATOM 1715 H HG13 . ILE E 1 32 ? 9.723 3.670 -19.194 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 1
+ATOM 1716 H HG21 . ILE E 1 32 ? 11.609 4.961 -16.200 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 1
+ATOM 1717 H HG22 . ILE E 1 32 ? 9.881 5.189 -15.841 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 1
+ATOM 1718 H HG23 . ILE E 1 32 ? 10.449 3.654 -16.540 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 1
+ATOM 1719 H HD11 . ILE E 1 32 ? 8.469 3.132 -17.276 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 1
+ATOM 1720 H HD12 . ILE E 1 32 ? 8.024 4.828 -16.972 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 1
+ATOM 1721 H HD13 . ILE E 1 32 ? 7.255 3.931 -18.303 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 1
+ATOM 1722 N N . GLY E 1 33 ? 7.697 7.085 -17.566 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 1
+ATOM 1723 C CA . GLY E 1 33 ? 6.485 7.397 -16.829 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 1
+ATOM 1724 C C . GLY E 1 33 ? 5.312 6.543 -17.315 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 1
+ATOM 1725 O O . GLY E 1 33 ? 4.981 6.554 -18.500 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 1
+ATOM 1726 H H . GLY E 1 33 ? 7.556 6.828 -18.522 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 1
+ATOM 1727 H HA2 . GLY E 1 33 ? 6.648 7.224 -15.765 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 1
+ATOM 1728 H HA3 . GLY E 1 33 ? 6.244 8.453 -16.947 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 1
+ATOM 1729 N N . LEU E 1 34 ? 4.715 5.823 -16.376 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 1
+ATOM 1730 C CA . LEU E 1 34 ? 3.587 4.966 -16.694 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 1
+ATOM 1731 C C . LEU E 1 34 ? 2.299 5.613 -16.181 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 1
+ATOM 1732 O O . LEU E 1 34 ? 2.243 6.075 -15.043 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 1
+ATOM 1733 C CB . LEU E 1 34 ? 3.820 3.552 -16.158 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 1
+ATOM 1734 C CG . LEU E 1 34 ? 3.093 2.426 -16.896 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 1
+ATOM 1735 C CD1 . LEU E 1 34 ? 4.045 1.270 -17.208 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 1
+ATOM 1736 C CD2 . LEU E 1 34 ? 1.864 1.961 -16.111 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 1
+ATOM 1737 H H . LEU E 1 34 ? 4.991 5.820 -15.415 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 1
+ATOM 1738 H HA . LEU E 1 34 ? 3.528 4.893 -17.780 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 1
+ATOM 1739 H HB2 . LEU E 1 34 ? 4.890 3.346 -16.187 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 1
+ATOM 1740 H HB3 . LEU E 1 34 ? 3.519 3.527 -15.111 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 1
+ATOM 1741 H HG . LEU E 1 34 ? 2.737 2.816 -17.849 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 1
+ATOM 1742 H HD11 . LEU E 1 34 ? 4.641 1.041 -16.325 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 1
+ATOM 1743 H HD12 . LEU E 1 34 ? 3.467 0.391 -17.494 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 1
+ATOM 1744 H HD13 . LEU E 1 34 ? 4.704 1.554 -18.028 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 1
+ATOM 1745 H HD21 . LEU E 1 34 ? 1.090 2.727 -16.160 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 1
+ATOM 1746 H HD22 . LEU E 1 34 ? 1.487 1.034 -16.543 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 1
+ATOM 1747 H HD23 . LEU E 1 34 ? 2.141 1.790 -15.071 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 1
+ATOM 1748 N N . MET E 1 35 ? 1.295 5.626 -17.046 1.00 0.00 ? ? ? ? ? ? 35 MET E N 1
+ATOM 1749 C CA . MET E 1 35 ? 0.012 6.209 -16.695 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 1
+ATOM 1750 C C . MET E 1 35 ? -1.141 5.317 -17.160 1.00 0.00 ? ? ? ? ? ? 35 MET E C 1
+ATOM 1751 O O . MET E 1 35 ? -1.263 5.024 -18.348 1.00 0.00 ? ? ? ? ? ? 35 MET E O 1
+ATOM 1752 C CB . MET E 1 35 ? -0.117 7.589 -17.342 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 1
+ATOM 1753 C CG . MET E 1 35 ? -0.096 8.695 -16.285 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 1
+ATOM 1754 S SD . MET E 1 35 ? -1.320 9.935 -16.674 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 1
+ATOM 1755 C CE . MET E 1 35 ? -0.565 10.674 -18.113 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 1
+ATOM 1756 H H . MET E 1 35 ? 1.349 5.248 -17.970 1.00 0.00 ? ? ? ? ? ? 35 MET E H 1
+ATOM 1757 H HA . MET E 1 35 ? 0.010 6.279 -15.607 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 1
+ATOM 1758 H HB2 . MET E 1 35 ? 0.700 7.741 -18.048 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 1
+ATOM 1759 H HB3 . MET E 1 35 ? -1.044 7.643 -17.912 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 1
+ATOM 1760 H HG2 . MET E 1 35 ? -0.296 8.272 -15.300 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 1
+ATOM 1761 H HG3 . MET E 1 35 ? 0.893 9.150 -16.241 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 1
+ATOM 1762 H HE1 . MET E 1 35 ? 0.355 11.180 -17.821 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 1
+ATOM 1763 H HE2 . MET E 1 35 ? -0.337 9.897 -18.843 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 1
+ATOM 1764 H HE3 . MET E 1 35 ? -1.253 11.395 -18.554 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 1
+ATOM 1765 N N . VAL E 1 36 ? -1.958 4.912 -16.199 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 1
+ATOM 1766 C CA . VAL E 1 36 ? -3.097 4.059 -16.495 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 1
+ATOM 1767 C C . VAL E 1 36 ? -4.389 4.857 -16.305 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 1
+ATOM 1768 O O . VAL E 1 36 ? -4.844 5.049 -15.178 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 1
+ATOM 1769 C CB . VAL E 1 36 ? -3.043 2.796 -15.634 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 1
+ATOM 1770 C CG1 . VAL E 1 36 ? -4.379 2.051 -15.669 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 1
+ATOM 1771 C CG2 . VAL E 1 36 ? -1.895 1.883 -16.071 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 1
+ATOM 1772 H H . VAL E 1 36 ? -1.852 5.155 -15.235 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 1
+ATOM 1773 H HA . VAL E 1 36 ? -3.020 3.759 -17.540 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 1
+ATOM 1774 H HB . VAL E 1 36 ? -2.855 3.100 -14.604 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 1
+ATOM 1775 H HG11 . VAL E 1 36 ? -4.820 2.049 -14.672 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 1
+ATOM 1776 H HG12 . VAL E 1 36 ? -5.055 2.550 -16.363 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 1
+ATOM 1777 H HG13 . VAL E 1 36 ? -4.215 1.025 -15.995 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 1
+ATOM 1778 H HG21 . VAL E 1 36 ? -1.324 1.573 -15.196 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 1
+ATOM 1779 H HG22 . VAL E 1 36 ? -2.301 1.003 -16.571 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 1
+ATOM 1780 H HG23 . VAL E 1 36 ? -1.244 2.423 -16.758 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 1
+ATOM 1781 N N . GLY E 1 37 ? -4.942 5.301 -17.424 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 1
+ATOM 1782 C CA . GLY E 1 37 ? -6.173 6.074 -17.395 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 1
+ATOM 1783 C C . GLY E 1 37 ? -7.383 5.169 -17.154 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 1
+ATOM 1784 O O . GLY E 1 37 ? -7.997 4.682 -18.102 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 1
+ATOM 1785 H H . GLY E 1 37 ? -4.566 5.141 -18.336 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 1
+ATOM 1786 H HA2 . GLY E 1 37 ? -6.115 6.827 -16.609 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 1
+ATOM 1787 H HA3 . GLY E 1 37 ? -6.294 6.606 -18.338 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 1
+ATOM 1788 N N . GLY E 1 38 ? -7.690 4.972 -15.880 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 1
+ATOM 1789 C CA . GLY E 1 38 ? -8.816 4.135 -15.503 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 1
+ATOM 1790 C C . GLY E 1 38 ? -9.909 4.961 -14.821 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 1
+ATOM 1791 O O . GLY E 1 38 ? -10.149 4.811 -13.624 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 1
+ATOM 1792 H H . GLY E 1 38 ? -7.185 5.372 -15.115 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 1
+ATOM 1793 H HA2 . GLY E 1 38 ? -9.223 3.646 -16.388 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 1
+ATOM 1794 H HA3 . GLY E 1 38 ? -8.478 3.347 -14.830 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 1
+ATOM 1795 N N . VAL E 1 39 ? -10.542 5.814 -15.613 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 1
+ATOM 1796 C CA . VAL E 1 39 ? -11.604 6.663 -15.101 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 1
+ATOM 1797 C C . VAL E 1 39 ? -12.932 6.252 -15.739 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 1
+ATOM 1798 O O . VAL E 1 39 ? -13.029 6.134 -16.960 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 1
+ATOM 1799 C CB . VAL E 1 39 ? -11.257 8.134 -15.338 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 1
+ATOM 1800 C CG1 . VAL E 1 39 ? -12.408 9.045 -14.906 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 1
+ATOM 1801 C CG2 . VAL E 1 39 ? -9.959 8.514 -14.622 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 1
+ATOM 1802 H H . VAL E 1 39 ? -10.340 5.929 -16.586 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 1
+ATOM 1803 H HA . VAL E 1 39 ? -11.666 6.500 -14.025 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 1
+ATOM 1804 H HB . VAL E 1 39 ? -11.103 8.274 -16.408 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 1
+ATOM 1805 H HG11 . VAL E 1 39 ? -13.328 8.724 -15.394 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 1
+ATOM 1806 H HG12 . VAL E 1 39 ? -12.531 8.988 -13.825 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 1
+ATOM 1807 H HG13 . VAL E 1 39 ? -12.185 10.073 -15.192 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 1
+ATOM 1808 H HG21 . VAL E 1 39 ? -10.043 9.528 -14.230 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 1
+ATOM 1809 H HG22 . VAL E 1 39 ? -9.781 7.820 -13.800 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 1
+ATOM 1810 H HG23 . VAL E 1 39 ? -9.128 8.464 -15.326 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 1
+ATOM 1811 N N . VAL E 1 40 ? -13.923 6.044 -14.884 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 1
+ATOM 1812 C CA . VAL E 1 40 ? -15.242 5.648 -15.349 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 1
+ATOM 1813 C C . VAL E 1 40 ? -16.277 6.661 -14.856 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 1
+ATOM 1814 O O . VAL E 1 40 ? -16.504 6.787 -13.654 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 1
+ATOM 1815 C CB . VAL E 1 40 ? -15.546 4.217 -14.903 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 1
+ATOM 1816 C CG1 . VAL E 1 40 ? -16.903 3.753 -15.437 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 1
+ATOM 1817 C CG2 . VAL E 1 40 ? -14.432 3.260 -15.331 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 1
+ATOM 1818 H H . VAL E 1 40 ? -13.836 6.142 -13.893 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 1
+ATOM 1819 H HA . VAL E 1 40 ? -15.225 5.666 -16.439 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 1
+ATOM 1820 H HB . VAL E 1 40 ? -15.594 4.209 -13.814 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 1
+ATOM 1821 H HG11 . VAL E 1 40 ? -17.221 2.862 -14.896 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 1
+ATOM 1822 H HG12 . VAL E 1 40 ? -17.639 4.545 -15.297 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 1
+ATOM 1823 H HG13 . VAL E 1 40 ? -16.815 3.522 -16.499 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 1
+ATOM 1824 H HG21 . VAL E 1 40 ? -14.870 2.326 -15.681 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 1
+ATOM 1825 H HG22 . VAL E 1 40 ? -13.853 3.714 -16.136 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 1
+ATOM 1826 H HG23 . VAL E 1 40 ? -13.779 3.060 -14.482 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 1
+ATOM 1827 N N . ILE E 1 41 ? -16.876 7.359 -15.810 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 1
+ATOM 1828 C CA . ILE E 1 41 ? -17.882 8.357 -15.488 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 1
+ATOM 1829 C C . ILE E 1 41 ? -19.241 7.896 -16.020 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 1
+ATOM 1830 O O . ILE E 1 41 ? -19.548 8.087 -17.196 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 1
+ATOM 1831 C CB . ILE E 1 41 ? -17.455 9.733 -16.002 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 1
+ATOM 1832 C CG1 . ILE E 1 41 ? -16.004 10.035 -15.619 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 1
+ATOM 1833 C CG2 . ILE E 1 41 ? -18.414 10.822 -15.516 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 1
+ATOM 1834 C CD1 . ILE E 1 41 ? -15.874 10.281 -14.115 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 1
+ATOM 1835 H H . ILE E 1 41 ? -16.686 7.251 -16.786 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 1
+ATOM 1836 H HA . ILE E 1 41 ? -17.941 8.422 -14.401 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 1
+ATOM 1837 H HB . ILE E 1 41 ? -17.505 9.722 -17.090 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 1
+ATOM 1838 H HG12 . ILE E 1 41 ? -15.366 9.202 -15.912 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 1
+ATOM 1839 H HG13 . ILE E 1 41 ? -15.656 10.911 -16.166 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 1
+ATOM 1840 H HG21 . ILE E 1 41 ? -19.263 10.887 -16.197 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 1
+ATOM 1841 H HG22 . ILE E 1 41 ? -18.769 10.574 -14.516 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 1
+ATOM 1842 H HG23 . ILE E 1 41 ? -17.894 11.779 -15.491 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 1
+ATOM 1843 H HD11 . ILE E 1 41 ? -15.171 11.095 -13.939 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 1
+ATOM 1844 H HD12 . ILE E 1 41 ? -16.848 10.547 -13.704 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 1
+ATOM 1845 H HD13 . ILE E 1 41 ? -15.510 9.375 -13.629 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 1
+ATOM 1846 N N . ALA E 1 42 ? -20.018 7.299 -15.128 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 1
+ATOM 1847 C CA . ALA E 1 42 ? -21.336 6.809 -15.494 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 1
+ATOM 1848 C C . ALA E 1 42 ? -22.398 7.588 -14.715 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 1
+ATOM 1849 O O . ALA E 1 42 ? -22.992 7.064 -13.774 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 1
+ATOM 1850 C CB . ALA E 1 42 ? -21.412 5.303 -15.235 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 1
+ATOM 1851 H H . ALA E 1 42 ? -19.760 7.148 -14.174 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 1
+ATOM 1852 H HA . ALA E 1 42 ? -21.474 6.990 -16.560 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 1
+ATOM 1853 H HB1 . ALA E 1 42 ? -20.442 4.850 -15.442 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 1
+ATOM 1854 H HB2 . ALA E 1 42 ? -21.681 5.126 -14.194 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 1
+ATOM 1855 H HB3 . ALA E 1 42 ? -22.165 4.860 -15.886 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 1
+ATOM 1856 N N . LEU A 1 17 ? -15.458 -4.938 -1.728 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 2
+ATOM 1857 C CA . LEU A 1 17 ? -14.328 -4.433 -2.489 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 2
+ATOM 1858 C C . LEU A 1 17 ? -13.081 -5.250 -2.146 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 2
+ATOM 1859 O O . LEU A 1 17 ? -13.068 -5.985 -1.160 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 2
+ATOM 1860 C CB . LEU A 1 17 ? -14.159 -2.929 -2.263 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 2
+ATOM 1861 C CG . LEU A 1 17 ? -15.417 -2.078 -2.448 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 2
+ATOM 1862 C CD1 . LEU A 1 17 ? -15.209 -0.665 -1.898 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 2
+ATOM 1863 C CD2 . LEU A 1 17 ? -15.860 -2.064 -3.912 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 2
+ATOM 1864 H H . LEU A 1 17 ? -15.390 -4.814 -0.738 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 2
+ATOM 1865 H HA . LEU A 1 17 ? -14.555 -4.577 -3.545 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 2
+ATOM 1866 H HB2 . LEU A 1 17 ? -13.785 -2.774 -1.251 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 2
+ATOM 1867 H HB3 . LEU A 1 17 ? -13.393 -2.563 -2.946 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 2
+ATOM 1868 H HG . LEU A 1 17 ? -16.224 -2.531 -1.872 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 2
+ATOM 1869 H HD11 . LEU A 1 17 ? -15.156 -0.703 -0.810 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 2
+ATOM 1870 H HD12 . LEU A 1 17 ? -14.279 -0.255 -2.293 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 2
+ATOM 1871 H HD13 . LEU A 1 17 ? -16.043 -0.031 -2.200 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 2
+ATOM 1872 H HD21 . LEU A 1 17 ? -15.706 -3.051 -4.348 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 2
+ATOM 1873 H HD22 . LEU A 1 17 ? -16.916 -1.801 -3.970 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 2
+ATOM 1874 H HD23 . LEU A 1 17 ? -15.272 -1.329 -4.462 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 2
+ATOM 1875 N N . VAL A 1 18 ? -12.062 -5.094 -2.978 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 2
+ATOM 1876 C CA . VAL A 1 18 ? -10.813 -5.808 -2.775 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 2
+ATOM 1877 C C . VAL A 1 18 ? -9.655 -4.963 -3.309 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 2
+ATOM 1878 O O . VAL A 1 18 ? -9.625 -4.619 -4.490 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 2
+ATOM 1879 C CB . VAL A 1 18 ? -10.891 -7.193 -3.422 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 2
+ATOM 1880 C CG1 . VAL A 1 18 ? -9.502 -7.826 -3.531 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 2
+ATOM 1881 C CG2 . VAL A 1 18 ? -11.850 -8.103 -2.653 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 2
+ATOM 1882 H H . VAL A 1 18 ? -12.081 -4.494 -3.778 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 2
+ATOM 1883 H HA . VAL A 1 18 ? -10.683 -5.944 -1.702 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 2
+ATOM 1884 H HB . VAL A 1 18 ? -11.283 -7.069 -4.431 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 2
+ATOM 1885 H HG11 . VAL A 1 18 ? -8.894 -7.515 -2.681 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 2
+ATOM 1886 H HG12 . VAL A 1 18 ? -9.597 -8.911 -3.532 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 2
+ATOM 1887 H HG13 . VAL A 1 18 ? -9.026 -7.501 -4.456 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 2
+ATOM 1888 H HG21 . VAL A 1 18 ? -12.877 -7.780 -2.828 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 2
+ATOM 1889 H HG22 . VAL A 1 18 ? -11.729 -9.131 -2.996 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 2
+ATOM 1890 H HG23 . VAL A 1 18 ? -11.629 -8.048 -1.587 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 2
+ATOM 1891 N N . PHE A 1 19 ? -8.729 -4.653 -2.414 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 2
+ATOM 1892 C CA . PHE A 1 19 ? -7.571 -3.854 -2.781 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 2
+ATOM 1893 C C . PHE A 1 19 ? -6.277 -4.514 -2.301 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 2
+ATOM 1894 O O . PHE A 1 19 ? -6.000 -4.549 -1.103 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 2
+ATOM 1895 C CB . PHE A 1 19 ? -7.726 -2.498 -2.089 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 2
+ATOM 1896 C CG . PHE A 1 19 ? -7.588 -1.300 -3.030 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 2
+ATOM 1897 C CD1 . PHE A 1 19 ? -6.408 -1.066 -3.665 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 2
+ATOM 1898 C CD2 . PHE A 1 19 ? -8.645 -0.469 -3.232 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 2
+ATOM 1899 C CE1 . PHE A 1 19 ? -6.280 0.046 -4.538 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 2
+ATOM 1900 C CE2 . PHE A 1 19 ? -8.517 0.643 -4.106 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 2
+ATOM 1901 C CZ . PHE A 1 19 ? -7.337 0.877 -4.740 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 2
+ATOM 1902 H H . PHE A 1 19 ? -8.760 -4.936 -1.456 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 2
+ATOM 1903 H HA . PHE A 1 19 ? -7.559 -3.782 -3.868 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 2
+ATOM 1904 H HB2 . PHE A 1 19 ? -8.702 -2.458 -1.606 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 2
+ATOM 1905 H HB3 . PHE A 1 19 ? -6.977 -2.417 -1.301 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 2
+ATOM 1906 H HD1 . PHE A 1 19 ? -5.561 -1.733 -3.503 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 2
+ATOM 1907 H HD2 . PHE A 1 19 ? -9.591 -0.656 -2.724 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 2
+ATOM 1908 H HE1 . PHE A 1 19 ? -5.334 0.233 -5.047 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 2
+ATOM 1909 H HE2 . PHE A 1 19 ? -9.365 1.309 -4.268 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 2
+ATOM 1910 H HZ . PHE A 1 19 ? -7.239 1.731 -5.411 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 2
+ATOM 1911 N N . PHE A 1 20 ? -5.517 -5.020 -3.262 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 2
+ATOM 1912 C CA . PHE A 1 20 ? -4.258 -5.676 -2.953 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 2
+ATOM 1913 C C . PHE A 1 20 ? -3.070 -4.809 -3.373 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 2
+ATOM 1914 O O . PHE A 1 20 ? -2.937 -4.457 -4.544 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 2
+ATOM 1915 C CB . PHE A 1 20 ? -4.228 -6.983 -3.749 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 2
+ATOM 1916 C CG . PHE A 1 20 ? -4.725 -8.200 -2.966 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 2
+ATOM 1917 C CD1 . PHE A 1 20 ? -6.055 -8.361 -2.734 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 2
+ATOM 1918 C CD2 . PHE A 1 20 ? -3.837 -9.120 -2.503 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 2
+ATOM 1919 C CE1 . PHE A 1 20 ? -6.518 -9.491 -2.009 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 2
+ATOM 1920 C CE2 . PHE A 1 20 ? -4.299 -10.250 -1.777 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 2
+ATOM 1921 C CZ . PHE A 1 20 ? -5.630 -10.411 -1.545 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 2
+ATOM 1922 H H . PHE A 1 20 ? -5.749 -4.987 -4.234 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 2
+ATOM 1923 H HA . PHE A 1 20 ? -4.230 -5.830 -1.874 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 2
+ATOM 1924 H HB2 . PHE A 1 20 ? -4.837 -6.865 -4.644 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 2
+ATOM 1925 H HB3 . PHE A 1 20 ? -3.206 -7.170 -4.081 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 2
+ATOM 1926 H HD1 . PHE A 1 20 ? -6.767 -7.624 -3.106 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 2
+ATOM 1927 H HD2 . PHE A 1 20 ? -2.771 -8.990 -2.689 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 2
+ATOM 1928 H HE1 . PHE A 1 20 ? -7.584 -9.621 -1.823 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 2
+ATOM 1929 H HE2 . PHE A 1 20 ? -3.588 -10.987 -1.406 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 2
+ATOM 1930 H HZ . PHE A 1 20 ? -5.984 -11.278 -0.988 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 2
+ATOM 1931 N N . ALA A 1 21 ? -2.237 -4.488 -2.394 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 2
+ATOM 1932 C CA . ALA A 1 21 ? -1.064 -3.669 -2.647 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 2
+ATOM 1933 C C . ALA A 1 21 ? 0.177 -4.380 -2.106 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 2
+ATOM 1934 O O . ALA A 1 21 ? 0.689 -4.024 -1.046 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 2
+ATOM 1935 C CB . ALA A 1 21 ? -1.263 -2.286 -2.022 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 2
+ATOM 1936 H H . ALA A 1 21 ? -2.352 -4.778 -1.444 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 2
+ATOM 1937 H HA . ALA A 1 21 ? -0.966 -3.555 -3.727 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 2
+ATOM 1938 H HB1 . ALA A 1 21 ? -2.221 -1.877 -2.341 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 2
+ATOM 1939 H HB2 . ALA A 1 21 ? -1.248 -2.373 -0.936 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 2
+ATOM 1940 H HB3 . ALA A 1 21 ? -0.460 -1.623 -2.344 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 2
+ATOM 1941 N N . GLU A 1 22 ? 0.625 -5.374 -2.859 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 2
+ATOM 1942 C CA . GLU A 1 22 ? 1.797 -6.140 -2.468 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 2
+ATOM 1943 C C . GLU A 1 22 ? 3.066 -5.488 -3.023 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 2
+ATOM 1944 O O . GLU A 1 22 ? 3.120 -5.127 -4.197 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 2
+ATOM 1945 C CB . GLU A 1 22 ? 1.681 -7.594 -2.929 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 2
+ATOM 1946 C CG . GLU A 1 22 ? 0.366 -8.216 -2.453 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 2
+ATOM 1947 C CD . GLU A 1 22 ? -0.341 -8.945 -3.598 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 2
+ATOM 1948 O OE1 . GLU A 1 22 ? -0.918 -8.236 -4.451 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 2
+ATOM 1949 O OE2 . GLU A 1 22 ? -0.288 -10.193 -3.595 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 2
+ATOM 1950 H H . GLU A 1 22 ? 0.203 -5.658 -3.720 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 2
+ATOM 1951 H HA . GLU A 1 22 ? 1.812 -6.110 -1.378 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 2
+ATOM 1952 H HB2 . GLU A 1 22 ? 1.737 -7.640 -4.016 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 2
+ATOM 1953 H HB3 . GLU A 1 22 ? 2.521 -8.170 -2.541 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 2
+ATOM 1954 H HG2 . GLU A 1 22 ? 0.564 -8.915 -1.640 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 2
+ATOM 1955 H HG3 . GLU A 1 22 ? -0.285 -7.439 -2.055 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 2
+ATOM 1956 N N . ASP A 1 23 ? 4.055 -5.358 -2.151 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 2
+ATOM 1957 C CA . ASP A 1 23 ? 5.320 -4.757 -2.539 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 2
+ATOM 1958 C C . ASP A 1 23 ? 6.468 -5.665 -2.096 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 2
+ATOM 1959 O O . ASP A 1 23 ? 7.071 -5.443 -1.047 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 2
+ATOM 1960 C CB . ASP A 1 23 ? 5.510 -3.394 -1.871 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 2
+ATOM 1961 C CG . ASP A 1 23 ? 6.623 -2.531 -2.467 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 2
+ATOM 1962 O OD1 . ASP A 1 23 ? 6.792 -2.597 -3.704 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 2
+ATOM 1963 O OD2 . ASP A 1 23 ? 7.280 -1.823 -1.673 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 2
+ATOM 1964 H H . ASP A 1 23 ? 4.003 -5.655 -1.198 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 2
+ATOM 1965 H HA . ASP A 1 23 ? 5.266 -4.651 -3.623 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 2
+ATOM 1966 H HB2 . ASP A 1 23 ? 4.571 -2.843 -1.930 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 2
+ATOM 1967 H HB3 . ASP A 1 23 ? 5.720 -3.551 -0.813 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 2
+ATOM 1968 N N . VAL A 1 24 ? 6.737 -6.669 -2.918 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 2
+ATOM 1969 C CA . VAL A 1 24 ? 7.803 -7.612 -2.624 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 2
+ATOM 1970 C C . VAL A 1 24 ? 9.154 -6.954 -2.913 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 2
+ATOM 1971 O O . VAL A 1 24 ? 9.454 -6.623 -4.059 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 2
+ATOM 1972 C CB . VAL A 1 24 ? 7.588 -8.907 -3.410 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 2
+ATOM 1973 C CG1 . VAL A 1 24 ? 8.874 -9.734 -3.465 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 2
+ATOM 1974 C CG2 . VAL A 1 24 ? 6.436 -9.722 -2.818 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 2
+ATOM 1975 H H . VAL A 1 24 ? 6.242 -6.843 -3.769 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 2
+ATOM 1976 H HA . VAL A 1 24 ? 7.749 -7.849 -1.561 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 2
+ATOM 1977 H HB . VAL A 1 24 ? 7.318 -8.638 -4.431 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 2
+ATOM 1978 H HG11 . VAL A 1 24 ? 9.673 -9.135 -3.902 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 2
+ATOM 1979 H HG12 . VAL A 1 24 ? 9.156 -10.036 -2.457 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 2
+ATOM 1980 H HG13 . VAL A 1 24 ? 8.709 -10.621 -4.077 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 2
+ATOM 1981 H HG21 . VAL A 1 24 ? 6.280 -9.429 -1.780 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 2
+ATOM 1982 H HG22 . VAL A 1 24 ? 5.527 -9.534 -3.390 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 2
+ATOM 1983 H HG23 . VAL A 1 24 ? 6.681 -10.783 -2.864 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 2
+ATOM 1984 N N . GLY A 1 25 ? 9.933 -6.785 -1.854 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 2
+ATOM 1985 C CA . GLY A 1 25 ? 11.244 -6.173 -1.981 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 2
+ATOM 1986 C C . GLY A 1 25 ? 12.318 -7.035 -1.312 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 2
+ATOM 1987 O O . GLY A 1 25 ? 12.550 -6.921 -0.110 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 2
+ATOM 1988 H H . GLY A 1 25 ? 9.681 -7.058 -0.926 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 2
+ATOM 1989 H HA2 . GLY A 1 25 ? 11.486 -6.037 -3.035 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 2
+ATOM 1990 H HA3 . GLY A 1 25 ? 11.233 -5.183 -1.526 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 2
+ATOM 1991 N N . SER A 1 26 ? 12.944 -7.876 -2.121 1.00 0.00 ? ? ? ? ? ? 26 SER A N 2
+ATOM 1992 C CA . SER A 1 26 ? 13.988 -8.756 -1.623 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 2
+ATOM 1993 C C . SER A 1 26 ? 15.307 -7.991 -1.509 1.00 0.00 ? ? ? ? ? ? 26 SER A C 2
+ATOM 1994 O O . SER A 1 26 ? 16.093 -7.956 -2.454 1.00 0.00 ? ? ? ? ? ? 26 SER A O 2
+ATOM 1995 C CB . SER A 1 26 ? 14.159 -9.976 -2.531 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 2
+ATOM 1996 O OG . SER A 1 26 ? 14.611 -11.119 -1.810 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 2
+ATOM 1997 H H . SER A 1 26 ? 12.750 -7.962 -3.098 1.00 0.00 ? ? ? ? ? ? 26 SER A H 2
+ATOM 1998 H HA . SER A 1 26 ? 13.647 -9.081 -0.640 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 2
+ATOM 1999 H HB2 . SER A 1 26 ? 13.209 -10.205 -3.014 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 2
+ATOM 2000 H HB3 . SER A 1 26 ? 14.871 -9.742 -3.323 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 2
+ATOM 2001 H HG . SER A 1 26 ? 15.599 -11.062 -1.664 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 2
+ATOM 2002 N N . ASN A 1 27 ? 15.510 -7.397 -0.342 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 2
+ATOM 2003 C CA . ASN A 1 27 ? 16.721 -6.634 -0.091 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 2
+ATOM 2004 C C . ASN A 1 27 ? 16.574 -5.237 -0.697 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 2
+ATOM 2005 O O . ASN A 1 27 ? 16.698 -5.065 -1.908 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 2
+ATOM 2006 C CB . ASN A 1 27 ? 17.937 -7.302 -0.736 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 2
+ATOM 2007 C CG . ASN A 1 27 ? 19.208 -7.023 0.069 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 2
+ATOM 2008 O OD1 . ASN A 1 27 ? 19.254 -7.176 1.278 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 2
+ATOM 2009 N ND2 . ASN A 1 27 ? 20.234 -6.607 -0.668 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 2
+ATOM 2010 H H . ASN A 1 27 ? 14.866 -7.430 0.422 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 2
+ATOM 2011 H HA . ASN A 1 27 ? 16.825 -6.609 0.994 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 2
+ATOM 2012 H HB2 . ASN A 1 27 ? 17.773 -8.378 -0.802 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 2
+ATOM 2013 H HB3 . ASN A 1 27 ? 18.060 -6.936 -1.755 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 2
+ATOM 2014 H HD21 . ASN A 1 27 ? 20.130 -6.502 -1.657 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 2
+ATOM 2015 H HD22 . ASN A 1 27 ? 21.110 -6.398 -0.232 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 2
+ATOM 2016 N N . LYS A 1 28 ? 16.310 -4.274 0.174 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 2
+ATOM 2017 C CA . LYS A 1 28 ? 16.143 -2.897 -0.259 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 2
+ATOM 2018 C C . LYS A 1 28 ? 17.248 -2.036 0.356 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 2
+ATOM 2019 O O . LYS A 1 28 ? 18.039 -2.520 1.164 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 2
+ATOM 2020 C CB . LYS A 1 28 ? 14.730 -2.403 0.056 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 2
+ATOM 2021 C CG . LYS A 1 28 ? 14.622 -1.946 1.513 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 2
+ATOM 2022 C CD . LYS A 1 28 ? 13.355 -2.499 2.168 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 2
+ATOM 2023 C CE . LYS A 1 28 ? 13.677 -3.169 3.505 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 2
+ATOM 2024 N NZ . LYS A 1 28 ? 12.679 -4.219 3.813 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 2
+ATOM 2025 H H . LYS A 1 28 ? 16.209 -4.422 1.158 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 2
+ATOM 2026 H HA . LYS A 1 28 ? 16.256 -2.880 -1.343 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 2
+ATOM 2027 H HB2 . LYS A 1 28 ? 14.472 -1.578 -0.607 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 2
+ATOM 2028 H HB3 . LYS A 1 28 ? 14.011 -3.200 -0.133 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 2
+ATOM 2029 H HG2 . LYS A 1 28 ? 15.498 -2.280 2.068 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 2
+ATOM 2030 H HG3 . LYS A 1 28 ? 14.612 -0.857 1.556 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 2
+ATOM 2031 H HD2 . LYS A 1 28 ? 12.639 -1.692 2.324 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 2
+ATOM 2032 H HD3 . LYS A 1 28 ? 12.881 -3.220 1.501 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 2
+ATOM 2033 H HE2 . LYS A 1 28 ? 14.674 -3.607 3.468 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 2
+ATOM 2034 H HE3 . LYS A 1 28 ? 13.685 -2.423 4.300 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 2
+ATOM 2035 H HZ1 . LYS A 1 28 ? 11.819 -4.007 3.349 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 2
+ATOM 2036 H HZ2 . LYS A 1 28 ? 13.019 -5.104 3.497 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 2
+ATOM 2037 H HZ3 . LYS A 1 28 ? 12.526 -4.253 4.800 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 2
+ATOM 2038 N N . GLY A 1 29 ? 17.267 -0.775 -0.049 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 2
+ATOM 2039 C CA . GLY A 1 29 ? 18.261 0.158 0.452 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 2
+ATOM 2040 C C . GLY A 1 29 ? 18.051 1.554 -0.138 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 2
+ATOM 2041 O O . GLY A 1 29 ? 18.989 2.164 -0.649 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 2
+ATOM 2042 H H . GLY A 1 29 ? 16.619 -0.389 -0.707 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 2
+ATOM 2043 H HA2 . GLY A 1 29 ? 18.203 0.207 1.540 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 2
+ATOM 2044 H HA3 . GLY A 1 29 ? 19.260 -0.200 0.202 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 2
+ATOM 2045 N N . ALA A 1 30 ? 16.813 2.019 -0.049 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 2
+ATOM 2046 C CA . ALA A 1 30 ? 16.468 3.331 -0.567 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 2
+ATOM 2047 C C . ALA A 1 30 ? 15.271 3.883 0.209 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 2
+ATOM 2048 O O . ALA A 1 30 ? 14.851 3.300 1.208 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 2
+ATOM 2049 C CB . ALA A 1 30 ? 16.192 3.231 -2.069 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 2
+ATOM 2050 H H . ALA A 1 30 ? 16.056 1.517 0.368 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 2
+ATOM 2051 H HA . ALA A 1 30 ? 17.325 3.986 -0.411 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 2
+ATOM 2052 H HB1 . ALA A 1 30 ? 17.137 3.220 -2.612 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 2
+ATOM 2053 H HB2 . ALA A 1 30 ? 15.643 2.312 -2.277 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 2
+ATOM 2054 H HB3 . ALA A 1 30 ? 15.599 4.088 -2.388 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 2
+ATOM 2055 N N . ILE A 1 31 ? 14.754 5.002 -0.278 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 2
+ATOM 2056 C CA . ILE A 1 31 ? 13.613 5.639 0.358 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 2
+ATOM 2057 C C . ILE A 1 31 ? 12.349 4.835 0.050 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 2
+ATOM 2058 O O . ILE A 1 31 ? 12.199 4.302 -1.048 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 2
+ATOM 2059 C CB . ILE A 1 31 ? 13.523 7.109 -0.054 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 2
+ATOM 2060 C CG1 . ILE A 1 31 ? 14.682 7.916 0.535 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 2
+ATOM 2061 C CG2 . ILE A 1 31 ? 12.163 7.701 0.322 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 2
+ATOM 2062 C CD1 . ILE A 1 31 ? 15.222 8.922 -0.483 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 2
+ATOM 2063 H H . ILE A 1 31 ? 15.101 5.470 -1.091 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 2
+ATOM 2064 H HA . ILE A 1 31 ? 13.785 5.615 1.434 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 2
+ATOM 2065 H HB . ILE A 1 31 ? 13.610 7.166 -1.139 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 2
+ATOM 2066 H HG12 . ILE A 1 31 ? 14.346 8.443 1.428 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 2
+ATOM 2067 H HG13 . ILE A 1 31 ? 15.480 7.241 0.844 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 2
+ATOM 2068 H HG21 . ILE A 1 31 ? 12.111 7.835 1.402 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 2
+ATOM 2069 H HG22 . ILE A 1 31 ? 12.038 8.666 -0.170 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 2
+ATOM 2070 H HG23 . ILE A 1 31 ? 11.371 7.024 0.001 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 2
+ATOM 2071 H HD11 . ILE A 1 31 ? 15.571 9.815 0.037 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 2
+ATOM 2072 H HD12 . ILE A 1 31 ? 16.052 8.475 -1.031 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 2
+ATOM 2073 H HD13 . ILE A 1 31 ? 14.430 9.195 -1.181 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 2
+ATOM 2074 N N . ILE A 1 32 ? 11.470 4.773 1.040 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 2
+ATOM 2075 C CA . ILE A 1 32 ? 10.223 4.043 0.889 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 2
+ATOM 2076 C C . ILE A 1 32 ? 9.097 4.817 1.578 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 2
+ATOM 2077 O O . ILE A 1 32 ? 9.071 4.922 2.803 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 2
+ATOM 2078 C CB . ILE A 1 32 ? 10.379 2.606 1.392 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 2
+ATOM 2079 C CG1 . ILE A 1 32 ? 9.055 1.845 1.293 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 2
+ATOM 2080 C CG2 . ILE A 1 32 ? 10.951 2.581 2.810 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 2
+ATOM 2081 C CD1 . ILE A 1 32 ? 9.281 0.414 0.799 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 2
+ATOM 2082 H H . ILE A 1 32 ? 11.599 5.209 1.931 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 2
+ATOM 2083 H HA . ILE A 1 32 ? 10.003 3.989 -0.177 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 2
+ATOM 2084 H HB . ILE A 1 32 ? 11.093 2.095 0.747 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 2
+ATOM 2085 H HG12 . ILE A 1 32 ? 8.571 1.823 2.270 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 2
+ATOM 2086 H HG13 . ILE A 1 32 ? 8.381 2.366 0.614 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 2
+ATOM 2087 H HG21 . ILE A 1 32 ? 11.196 3.596 3.121 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 2
+ATOM 2088 H HG22 . ILE A 1 32 ? 10.212 2.160 3.493 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 2
+ATOM 2089 H HG23 . ILE A 1 32 ? 11.852 1.968 2.827 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 2
+ATOM 2090 H HD11 . ILE A 1 32 ? 10.323 0.292 0.504 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 2
+ATOM 2091 H HD12 . ILE A 1 32 ? 9.044 -0.288 1.598 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 2
+ATOM 2092 H HD13 . ILE A 1 32 ? 8.636 0.220 -0.058 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 2
+ATOM 2093 N N . GLY A 1 33 ? 8.195 5.339 0.761 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 2
+ATOM 2094 C CA . GLY A 1 33 ? 7.070 6.100 1.276 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 2
+ATOM 2095 C C . GLY A 1 33 ? 5.773 5.294 1.183 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 2
+ATOM 2096 O O . GLY A 1 33 ? 5.282 5.025 0.088 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 2
+ATOM 2097 H H . GLY A 1 33 ? 8.224 5.249 -0.235 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 2
+ATOM 2098 H HA2 . GLY A 1 33 ? 7.257 6.376 2.314 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 2
+ATOM 2099 H HA3 . GLY A 1 33 ? 6.966 7.029 0.714 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 2
+ATOM 2100 N N . LEU A 1 34 ? 5.255 4.929 2.347 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 2
+ATOM 2101 C CA . LEU A 1 34 ? 4.025 4.159 2.411 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 2
+ATOM 2102 C C . LEU A 1 34 ? 2.862 5.091 2.754 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 2
+ATOM 2103 O O . LEU A 1 34 ? 2.817 5.660 3.843 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 2
+ATOM 2104 C CB . LEU A 1 34 ? 4.178 2.984 3.380 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 2
+ATOM 2105 C CG . LEU A 1 34 ? 4.179 1.590 2.749 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 2
+ATOM 2106 C CD1 . LEU A 1 34 ? 2.795 1.235 2.203 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 2
+ATOM 2107 C CD2 . LEU A 1 34 ? 5.265 1.473 1.678 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 2
+ATOM 2108 H H . LEU A 1 34 ? 5.661 5.152 3.234 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 2
+ATOM 2109 H HA . LEU A 1 34 ? 3.851 3.738 1.420 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 2
+ATOM 2110 H HB2 . LEU A 1 34 ? 5.110 3.113 3.931 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 2
+ATOM 2111 H HB3 . LEU A 1 34 ? 3.369 3.032 4.108 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 2
+ATOM 2112 H HG . LEU A 1 34 ? 4.414 0.864 3.527 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 2
+ATOM 2113 H HD11 . LEU A 1 34 ? 2.874 0.992 1.143 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 2
+ATOM 2114 H HD12 . LEU A 1 34 ? 2.399 0.376 2.745 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 2
+ATOM 2115 H HD13 . LEU A 1 34 ? 2.124 2.085 2.331 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 2
+ATOM 2116 H HD21 . LEU A 1 34 ? 5.278 2.380 1.073 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 2
+ATOM 2117 H HD22 . LEU A 1 34 ? 6.235 1.343 2.158 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 2
+ATOM 2118 H HD23 . LEU A 1 34 ? 5.056 0.614 1.041 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 2
+ATOM 2119 N N . MET A 1 35 ? 1.948 5.218 1.803 1.00 0.00 ? ? ? ? ? ? 35 MET A N 2
+ATOM 2120 C CA . MET A 1 35 ? 0.787 6.072 1.990 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 2
+ATOM 2121 C C . MET A 1 35 ? -0.481 5.396 1.465 1.00 0.00 ? ? ? ? ? ? 35 MET A C 2
+ATOM 2122 O O . MET A 1 35 ? -0.803 5.506 0.282 1.00 0.00 ? ? ? ? ? ? 35 MET A O 2
+ATOM 2123 C CB . MET A 1 35 ? 1.002 7.396 1.255 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 2
+ATOM 2124 C CG . MET A 1 35 ? 0.761 8.586 2.185 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 2
+ATOM 2125 S SD . MET A 1 35 ? -0.021 9.915 1.287 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 2
+ATOM 2126 C CE . MET A 1 35 ? 0.646 11.318 2.166 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 2
+ATOM 2127 H H . MET A 1 35 ? 1.991 4.752 0.919 1.00 0.00 ? ? ? ? ? ? 35 MET A H 2
+ATOM 2128 H HA . MET A 1 35 ? 0.706 6.224 3.067 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 2
+ATOM 2129 H HB2 . MET A 1 35 ? 2.019 7.437 0.862 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 2
+ATOM 2130 H HB3 . MET A 1 35 ? 0.328 7.455 0.400 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 2
+ATOM 2131 H HG2 . MET A 1 35 ? 0.131 8.282 3.022 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 2
+ATOM 2132 H HG3 . MET A 1 35 ? 1.707 8.927 2.606 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 2
+ATOM 2133 H HE1 . MET A 1 35 ? 1.253 11.918 1.487 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 2
+ATOM 2134 H HE2 . MET A 1 35 ? -0.171 11.926 2.555 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 2
+ATOM 2135 H HE3 . MET A 1 35 ? 1.264 10.969 2.993 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 2
+ATOM 2136 N N . VAL A 1 36 ? -1.167 4.712 2.369 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 2
+ATOM 2137 C CA . VAL A 1 36 ? -2.393 4.019 2.011 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 2
+ATOM 2138 C C . VAL A 1 36 ? -3.594 4.886 2.391 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 2
+ATOM 2139 O O . VAL A 1 36 ? -4.147 4.744 3.481 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 2
+ATOM 2140 C CB . VAL A 1 36 ? -2.422 2.636 2.666 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 2
+ATOM 2141 C CG1 . VAL A 1 36 ? -3.574 1.793 2.115 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 2
+ATOM 2142 C CG2 . VAL A 1 36 ? -1.083 1.918 2.491 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 2
+ATOM 2143 H H . VAL A 1 36 ? -0.898 4.628 3.328 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 2
+ATOM 2144 H HA . VAL A 1 36 ? -2.388 3.879 0.930 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 2
+ATOM 2145 H HB . VAL A 1 36 ? -2.590 2.776 3.734 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 2
+ATOM 2146 H HG11 . VAL A 1 36 ? -4.188 2.405 1.455 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 2
+ATOM 2147 H HG12 . VAL A 1 36 ? -3.170 0.948 1.557 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 2
+ATOM 2148 H HG13 . VAL A 1 36 ? -4.183 1.426 2.942 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 2
+ATOM 2149 H HG21 . VAL A 1 36 ? -0.661 2.168 1.518 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 2
+ATOM 2150 H HG22 . VAL A 1 36 ? -0.396 2.232 3.277 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 2
+ATOM 2151 H HG23 . VAL A 1 36 ? -1.238 0.840 2.553 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 2
+ATOM 2152 N N . GLY A 1 37 ? -3.963 5.766 1.471 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 2
+ATOM 2153 C CA . GLY A 1 37 ? -5.088 6.657 1.697 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 2
+ATOM 2154 C C . GLY A 1 37 ? -6.407 5.983 1.310 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 2
+ATOM 2155 O O . GLY A 1 37 ? -6.489 5.319 0.278 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 2
+ATOM 2156 H H . GLY A 1 37 ? -3.508 5.875 0.588 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 2
+ATOM 2157 H HA2 . GLY A 1 37 ? -5.120 6.950 2.746 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 2
+ATOM 2158 H HA3 . GLY A 1 37 ? -4.958 7.569 1.114 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 2
+ATOM 2159 N N . GLY A 1 38 ? -7.405 6.176 2.160 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 2
+ATOM 2160 C CA . GLY A 1 38 ? -8.715 5.596 1.920 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 2
+ATOM 2161 C C . GLY A 1 38 ? -9.794 6.329 2.719 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 2
+ATOM 2162 O O . GLY A 1 38 ? -9.578 6.692 3.874 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 2
+ATOM 2163 H H . GLY A 1 38 ? -7.329 6.718 2.997 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 2
+ATOM 2164 H HA2 . GLY A 1 38 ? -8.949 5.644 0.856 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 2
+ATOM 2165 H HA3 . GLY A 1 38 ? -8.706 4.542 2.197 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 2
+ATOM 2166 N N . VAL A 1 39 ? -10.933 6.526 2.071 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 2
+ATOM 2167 C CA . VAL A 1 39 ? -12.047 7.210 2.707 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 2
+ATOM 2168 C C . VAL A 1 39 ? -13.349 6.484 2.362 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 2
+ATOM 2169 O O . VAL A 1 39 ? -13.669 6.299 1.189 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 2
+ATOM 2170 C CB . VAL A 1 39 ? -12.058 8.684 2.298 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 2
+ATOM 2171 C CG1 . VAL A 1 39 ? -10.668 9.305 2.450 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 2
+ATOM 2172 C CG2 . VAL A 1 39 ? -12.581 8.853 0.870 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 2
+ATOM 2173 H H . VAL A 1 39 ? -11.101 6.228 1.132 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 2
+ATOM 2174 H HA . VAL A 1 39 ? -11.892 7.159 3.785 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 2
+ATOM 2175 H HB . VAL A 1 39 ? -12.736 9.212 2.968 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 2
+ATOM 2176 H HG11 . VAL A 1 39 ? -10.079 8.712 3.150 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 2
+ATOM 2177 H HG12 . VAL A 1 39 ? -10.170 9.323 1.481 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 2
+ATOM 2178 H HG13 . VAL A 1 39 ? -10.764 10.323 2.828 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 2
+ATOM 2179 H HG21 . VAL A 1 39 ? -13.669 8.795 0.873 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 2
+ATOM 2180 H HG22 . VAL A 1 39 ? -12.270 9.823 0.482 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 2
+ATOM 2181 H HG23 . VAL A 1 39 ? -12.177 8.062 0.239 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 2
+ATOM 2182 N N . VAL A 1 40 ? -14.065 6.092 3.406 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 2
+ATOM 2183 C CA . VAL A 1 40 ? -15.325 5.391 3.228 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 2
+ATOM 2184 C C . VAL A 1 40 ? -16.441 6.173 3.923 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 2
+ATOM 2185 O O . VAL A 1 40 ? -16.343 6.479 5.111 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 2
+ATOM 2186 C CB . VAL A 1 40 ? -15.199 3.952 3.733 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 2
+ATOM 2187 C CG1 . VAL A 1 40 ? -16.513 3.190 3.550 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 2
+ATOM 2188 C CG2 . VAL A 1 40 ? -14.044 3.228 3.040 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 2
+ATOM 2189 H H . VAL A 1 40 ? -13.798 6.247 4.357 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 2
+ATOM 2190 H HA . VAL A 1 40 ? -15.534 5.357 2.159 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 2
+ATOM 2191 H HB . VAL A 1 40 ? -14.979 3.990 4.800 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 2
+ATOM 2192 H HG11 . VAL A 1 40 ? -16.303 2.191 3.169 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 2
+ATOM 2193 H HG12 . VAL A 1 40 ? -17.025 3.113 4.509 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 2
+ATOM 2194 H HG13 . VAL A 1 40 ? -17.147 3.723 2.842 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 2
+ATOM 2195 H HG21 . VAL A 1 40 ? -14.425 2.348 2.522 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 2
+ATOM 2196 H HG22 . VAL A 1 40 ? -13.574 3.898 2.320 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 2
+ATOM 2197 H HG23 . VAL A 1 40 ? -13.309 2.921 3.784 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 2
+ATOM 2198 N N . ILE A 1 41 ? -17.477 6.474 3.154 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 2
+ATOM 2199 C CA . ILE A 1 41 ? -18.611 7.215 3.682 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 2
+ATOM 2200 C C . ILE A 1 41 ? -19.891 6.737 2.993 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 2
+ATOM 2201 O O . ILE A 1 41 ? -20.120 7.038 1.822 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 2
+ATOM 2202 C CB . ILE A 1 41 ? -18.371 8.721 3.558 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 2
+ATOM 2203 C CG1 . ILE A 1 41 ? -19.191 9.493 4.594 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 2
+ATOM 2204 C CG2 . ILE A 1 41 ? -18.646 9.205 2.133 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 2
+ATOM 2205 C CD1 . ILE A 1 41 ? -20.638 9.669 4.128 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 2
+ATOM 2206 H H . ILE A 1 41 ? -17.549 6.222 2.189 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 2
+ATOM 2207 H HA . ILE A 1 41 ? -18.684 6.986 4.745 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 2
+ATOM 2208 H HB . ILE A 1 41 ? -17.320 8.918 3.768 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 2
+ATOM 2209 H HG12 . ILE A 1 41 ? -19.174 8.962 5.546 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 2
+ATOM 2210 H HG13 . ILE A 1 41 ? -18.739 10.470 4.766 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 2
+ATOM 2211 H HG21 . ILE A 1 41 ? -18.150 8.543 1.423 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 2
+ATOM 2212 H HG22 . ILE A 1 41 ? -19.720 9.198 1.947 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 2
+ATOM 2213 H HG23 . ILE A 1 41 ? -18.263 10.219 2.014 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 2
+ATOM 2214 H HD11 . ILE A 1 41 ? -21.026 8.712 3.779 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 2
+ATOM 2215 H HD12 . ILE A 1 41 ? -21.246 10.027 4.958 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 2
+ATOM 2216 H HD13 . ILE A 1 41 ? -20.672 10.393 3.313 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 2
+ATOM 2217 N N . ALA A 1 42 ? -20.692 6.001 3.749 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 2
+ATOM 2218 C CA . ALA A 1 42 ? -21.944 5.479 3.226 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 2
+ATOM 2219 C C . ALA A 1 42 ? -23.112 6.241 3.857 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 2
+ATOM 2220 O O . ALA A 1 42 ? -23.191 6.363 5.078 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 2
+ATOM 2221 C CB . ALA A 1 42 ? -22.019 3.974 3.490 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 2
+ATOM 2222 H H . ALA A 1 42 ? -20.499 5.761 4.700 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 2
+ATOM 2223 H HA . ALA A 1 42 ? -21.950 5.648 2.150 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 2
+ATOM 2224 H HB1 . ALA A 1 42 ? -21.139 3.487 3.070 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 2
+ATOM 2225 H HB2 . ALA A 1 42 ? -22.056 3.795 4.564 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 2
+ATOM 2226 H HB3 . ALA A 1 42 ? -22.916 3.568 3.023 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 2
+ATOM 2227 N N . LEU B 1 17 ? -15.737 -4.969 -6.663 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 2
+ATOM 2228 C CA . LEU B 1 17 ? -14.599 -4.180 -7.100 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 2
+ATOM 2229 C C . LEU B 1 17 ? -13.306 -4.912 -6.736 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 2
+ATOM 2230 O O . LEU B 1 17 ? -13.006 -5.100 -5.558 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 2
+ATOM 2231 C CB . LEU B 1 17 ? -14.682 -2.761 -6.535 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 2
+ATOM 2232 C CG . LEU B 1 17 ? -14.131 -1.648 -7.430 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 2
+ATOM 2233 C CD1 . LEU B 1 17 ? -14.371 -0.273 -6.805 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 2
+ATOM 2234 C CD2 . LEU B 1 17 ? -12.653 -1.883 -7.748 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 2
+ATOM 2235 H H . LEU B 1 17 ? -15.710 -5.257 -5.706 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 2
+ATOM 2236 H HA . LEU B 1 17 ? -14.655 -4.098 -8.186 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 2
+ATOM 2237 H HB2 . LEU B 1 17 ? -15.727 -2.539 -6.315 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 2
+ATOM 2238 H HB3 . LEU B 1 17 ? -14.145 -2.736 -5.587 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 2
+ATOM 2239 H HG . LEU B 1 17 ? -14.672 -1.672 -8.376 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 2
+ATOM 2240 H HD11 . LEU B 1 17 ? -13.534 -0.017 -6.156 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 2
+ATOM 2241 H HD12 . LEU B 1 17 ? -14.461 0.474 -7.594 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 2
+ATOM 2242 H HD13 . LEU B 1 17 ? -15.291 -0.295 -6.220 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 2
+ATOM 2243 H HD21 . LEU B 1 17 ? -12.053 -1.673 -6.863 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 2
+ATOM 2244 H HD22 . LEU B 1 17 ? -12.507 -2.921 -8.049 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 2
+ATOM 2245 H HD23 . LEU B 1 17 ? -12.348 -1.223 -8.560 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 2
+ATOM 2246 N N . VAL B 1 18 ? -12.575 -5.305 -7.768 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 2
+ATOM 2247 C CA . VAL B 1 18 ? -11.321 -6.013 -7.571 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 2
+ATOM 2248 C C . VAL B 1 18 ? -10.163 -5.130 -8.043 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 2
+ATOM 2249 O O . VAL B 1 18 ? -10.186 -4.614 -9.159 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 2
+ATOM 2250 C CB . VAL B 1 18 ? -11.367 -7.367 -8.281 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 2
+ATOM 2251 C CG1 . VAL B 1 18 ? -9.965 -7.966 -8.411 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 2
+ATOM 2252 C CG2 . VAL B 1 18 ? -12.311 -8.332 -7.560 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 2
+ATOM 2253 H H . VAL B 1 18 ? -12.826 -5.148 -8.723 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 2
+ATOM 2254 H HA . VAL B 1 18 ? -11.211 -6.195 -6.502 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 2
+ATOM 2255 H HB . VAL B 1 18 ? -11.757 -7.206 -9.286 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 2
+ATOM 2256 H HG11 . VAL B 1 18 ? -9.577 -8.201 -7.420 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 2
+ATOM 2257 H HG12 . VAL B 1 18 ? -10.013 -8.878 -9.007 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 2
+ATOM 2258 H HG13 . VAL B 1 18 ? -9.307 -7.247 -8.899 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 2
+ATOM 2259 H HG21 . VAL B 1 18 ? -11.888 -9.336 -7.580 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 2
+ATOM 2260 H HG22 . VAL B 1 18 ? -12.438 -8.011 -6.526 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 2
+ATOM 2261 H HG23 . VAL B 1 18 ? -13.279 -8.335 -8.061 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 2
+ATOM 2262 N N . PHE B 1 19 ? -9.178 -4.984 -7.168 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 2
+ATOM 2263 C CA . PHE B 1 19 ? -8.014 -4.174 -7.481 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 2
+ATOM 2264 C C . PHE B 1 19 ? -6.728 -4.857 -7.012 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 2
+ATOM 2265 O O . PHE B 1 19 ? -6.377 -4.787 -5.835 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 2
+ATOM 2266 C CB . PHE B 1 19 ? -8.176 -2.850 -6.731 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 2
+ATOM 2267 C CG . PHE B 1 19 ? -7.500 -1.660 -7.415 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 2
+ATOM 2268 C CD1 . PHE B 1 19 ? -6.144 -1.559 -7.420 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 2
+ATOM 2269 C CD2 . PHE B 1 19 ? -8.255 -0.703 -8.018 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 2
+ATOM 2270 C CE1 . PHE B 1 19 ? -5.516 -0.455 -8.054 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 2
+ATOM 2271 C CE2 . PHE B 1 19 ? -7.627 0.401 -8.653 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 2
+ATOM 2272 C CZ . PHE B 1 19 ? -6.271 0.502 -8.658 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 2
+ATOM 2273 H H . PHE B 1 19 ? -9.168 -5.408 -6.262 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 2
+ATOM 2274 H HA . PHE B 1 19 ? -7.985 -4.053 -8.564 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 2
+ATOM 2275 H HB2 . PHE B 1 19 ? -9.239 -2.635 -6.619 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 2
+ATOM 2276 H HB3 . PHE B 1 19 ? -7.766 -2.960 -5.727 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 2
+ATOM 2277 H HD1 . PHE B 1 19 ? -5.539 -2.326 -6.936 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 2
+ATOM 2278 H HD2 . PHE B 1 19 ? -9.342 -0.784 -8.015 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 2
+ATOM 2279 H HE1 . PHE B 1 19 ? -4.429 -0.375 -8.058 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 2
+ATOM 2280 H HE2 . PHE B 1 19 ? -8.232 1.168 -9.137 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 2
+ATOM 2281 H HZ . PHE B 1 19 ? -5.789 1.349 -9.145 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 2
+ATOM 2282 N N . PHE B 1 20 ? -6.061 -5.503 -7.957 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 2
+ATOM 2283 C CA . PHE B 1 20 ? -4.821 -6.199 -7.655 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 2
+ATOM 2284 C C . PHE B 1 20 ? -3.608 -5.348 -8.036 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 2
+ATOM 2285 O O . PHE B 1 20 ? -3.487 -4.910 -9.179 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 2
+ATOM 2286 C CB . PHE B 1 20 ? -4.813 -7.480 -8.491 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 2
+ATOM 2287 C CG . PHE B 1 20 ? -4.980 -8.760 -7.670 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 2
+ATOM 2288 C CD1 . PHE B 1 20 ? -3.905 -9.317 -7.051 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 2
+ATOM 2289 C CD2 . PHE B 1 20 ? -6.205 -9.341 -7.559 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 2
+ATOM 2290 C CE1 . PHE B 1 20 ? -4.061 -10.505 -6.289 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 2
+ATOM 2291 C CE2 . PHE B 1 20 ? -6.361 -10.529 -6.797 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 2
+ATOM 2292 C CZ . PHE B 1 20 ? -5.285 -11.086 -6.178 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 2
+ATOM 2293 H H . PHE B 1 20 ? -6.353 -5.556 -8.912 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 2
+ATOM 2294 H HA . PHE B 1 20 ? -4.808 -6.387 -6.582 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 2
+ATOM 2295 H HB2 . PHE B 1 20 ? -5.614 -7.426 -9.229 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 2
+ATOM 2296 H HB3 . PHE B 1 20 ? -3.874 -7.535 -9.043 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 2
+ATOM 2297 H HD1 . PHE B 1 20 ? -2.923 -8.851 -7.140 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 2
+ATOM 2298 H HD2 . PHE B 1 20 ? -7.067 -8.895 -8.055 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 2
+ATOM 2299 H HE1 . PHE B 1 20 ? -3.199 -10.951 -5.793 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 2
+ATOM 2300 H HE2 . PHE B 1 20 ? -7.342 -10.995 -6.708 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 2
+ATOM 2301 H HZ . PHE B 1 20 ? -5.405 -11.998 -5.593 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 2
+ATOM 2302 N N . ALA B 1 21 ? -2.741 -5.139 -7.056 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 2
+ATOM 2303 C CA . ALA B 1 21 ? -1.542 -4.348 -7.274 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 2
+ATOM 2304 C C . ALA B 1 21 ? -0.368 -4.995 -6.536 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 2
+ATOM 2305 O O . ALA B 1 21 ? -0.305 -4.955 -5.308 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 2
+ATOM 2306 C CB . ALA B 1 21 ? -1.791 -2.907 -6.824 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 2
+ATOM 2307 H H . ALA B 1 21 ? -2.847 -5.499 -6.130 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 2
+ATOM 2308 H HA . ALA B 1 21 ? -1.332 -4.350 -8.344 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 2
+ATOM 2309 H HB1 . ALA B 1 21 ? -1.491 -2.222 -7.617 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 2
+ATOM 2310 H HB2 . ALA B 1 21 ? -2.851 -2.772 -6.610 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 2
+ATOM 2311 H HB3 . ALA B 1 21 ? -1.210 -2.701 -5.926 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 2
+ATOM 2312 N N . GLU B 1 22 ? 0.533 -5.575 -7.315 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 2
+ATOM 2313 C CA . GLU B 1 22 ? 1.701 -6.229 -6.750 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 2
+ATOM 2314 C C . GLU B 1 22 ? 2.969 -5.760 -7.465 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 2
+ATOM 2315 O O . GLU B 1 22 ? 2.936 -5.446 -8.654 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 2
+ATOM 2316 C CB . GLU B 1 22 ? 1.563 -7.752 -6.818 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 2
+ATOM 2317 C CG . GLU B 1 22 ? 1.245 -8.210 -8.243 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 2
+ATOM 2318 C CD . GLU B 1 22 ? -0.045 -9.031 -8.280 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 2
+ATOM 2319 O OE1 . GLU B 1 22 ? -0.263 -9.790 -7.311 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 2
+ATOM 2320 O OE2 . GLU B 1 22 ? -0.785 -8.881 -9.276 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 2
+ATOM 2321 H H . GLU B 1 22 ? 0.474 -5.603 -8.313 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 2
+ATOM 2322 H HA . GLU B 1 22 ? 1.729 -5.920 -5.705 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 2
+ATOM 2323 H HB2 . GLU B 1 22 ? 2.488 -8.219 -6.480 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 2
+ATOM 2324 H HB3 . GLU B 1 22 ? 0.774 -8.080 -6.142 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 2
+ATOM 2325 H HG2 . GLU B 1 22 ? 1.146 -7.341 -8.895 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 2
+ATOM 2326 H HG3 . GLU B 1 22 ? 2.071 -8.806 -8.630 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 2
+ATOM 2327 N N . ASP B 1 23 ? 4.058 -5.728 -6.710 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 2
+ATOM 2328 C CA . ASP B 1 23 ? 5.335 -5.303 -7.257 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 2
+ATOM 2329 C C . ASP B 1 23 ? 6.438 -6.233 -6.748 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 2
+ATOM 2330 O O . ASP B 1 23 ? 6.765 -6.224 -5.562 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 2
+ATOM 2331 C CB . ASP B 1 23 ? 5.677 -3.879 -6.814 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 2
+ATOM 2332 C CG . ASP B 1 23 ? 7.078 -3.400 -7.200 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 2
+ATOM 2333 O OD1 . ASP B 1 23 ? 7.745 -4.144 -7.952 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 2
+ATOM 2334 O OD2 . ASP B 1 23 ? 7.451 -2.301 -6.736 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 2
+ATOM 2335 H H . ASP B 1 23 ? 4.076 -5.985 -5.744 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 2
+ATOM 2336 H HA . ASP B 1 23 ? 5.214 -5.352 -8.339 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 2
+ATOM 2337 H HB2 . ASP B 1 23 ? 4.945 -3.195 -7.244 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 2
+ATOM 2338 H HB3 . ASP B 1 23 ? 5.574 -3.816 -5.731 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 2
+ATOM 2339 N N . VAL B 1 24 ? 6.981 -7.015 -7.670 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 2
+ATOM 2340 C CA . VAL B 1 24 ? 8.040 -7.949 -7.330 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 2
+ATOM 2341 C C . VAL B 1 24 ? 9.396 -7.309 -7.633 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 2
+ATOM 2342 O O . VAL B 1 24 ? 9.842 -7.304 -8.779 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 2
+ATOM 2343 C CB . VAL B 1 24 ? 7.826 -9.273 -8.066 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 2
+ATOM 2344 C CG1 . VAL B 1 24 ? 9.017 -10.212 -7.862 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 2
+ATOM 2345 C CG2 . VAL B 1 24 ? 6.521 -9.940 -7.627 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 2
+ATOM 2346 H H . VAL B 1 24 ? 6.709 -7.016 -8.632 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 2
+ATOM 2347 H HA . VAL B 1 24 ? 7.976 -8.144 -6.259 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 2
+ATOM 2348 H HB . VAL B 1 24 ? 7.749 -9.056 -9.131 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 2
+ATOM 2349 H HG11 . VAL B 1 24 ? 8.984 -10.628 -6.855 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 2
+ATOM 2350 H HG12 . VAL B 1 24 ? 8.970 -11.022 -8.591 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 2
+ATOM 2351 H HG13 . VAL B 1 24 ? 9.945 -9.656 -7.996 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 2
+ATOM 2352 H HG21 . VAL B 1 24 ? 5.891 -10.116 -8.499 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 2
+ATOM 2353 H HG22 . VAL B 1 24 ? 6.743 -10.891 -7.142 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 2
+ATOM 2354 H HG23 . VAL B 1 24 ? 5.998 -9.289 -6.927 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 2
+ATOM 2355 N N . GLY B 1 25 ? 10.014 -6.784 -6.585 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 2
+ATOM 2356 C CA . GLY B 1 25 ? 11.311 -6.143 -6.725 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 2
+ATOM 2357 C C . GLY B 1 25 ? 12.408 -6.972 -6.054 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 2
+ATOM 2358 O O . GLY B 1 25 ? 12.445 -7.084 -4.830 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 2
+ATOM 2359 H H . GLY B 1 25 ? 9.645 -6.792 -5.656 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 2
+ATOM 2360 H HA2 . GLY B 1 25 ? 11.544 -6.012 -7.782 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 2
+ATOM 2361 H HA3 . GLY B 1 25 ? 11.278 -5.148 -6.280 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 2
+ATOM 2362 N N . SER B 1 26 ? 13.275 -7.530 -6.885 1.00 0.00 ? ? ? ? ? ? 26 SER B N 2
+ATOM 2363 C CA . SER B 1 26 ? 14.370 -8.345 -6.388 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 2
+ATOM 2364 C C . SER B 1 26 ? 15.630 -7.491 -6.234 1.00 0.00 ? ? ? ? ? ? 26 SER B C 2
+ATOM 2365 O O . SER B 1 26 ? 16.278 -7.150 -7.222 1.00 0.00 ? ? ? ? ? ? 26 SER B O 2
+ATOM 2366 C CB . SER B 1 26 ? 14.642 -9.530 -7.318 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 2
+ATOM 2367 O OG . SER B 1 26 ? 14.947 -10.718 -6.593 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 2
+ATOM 2368 H H . SER B 1 26 ? 13.238 -7.434 -7.880 1.00 0.00 ? ? ? ? ? ? 26 SER B H 2
+ATOM 2369 H HA . SER B 1 26 ? 14.037 -8.715 -5.418 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 2
+ATOM 2370 H HB2 . SER B 1 26 ? 13.770 -9.703 -7.948 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 2
+ATOM 2371 H HB3 . SER B 1 26 ? 15.472 -9.286 -7.981 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 2
+ATOM 2372 H HG . SER B 1 26 ? 14.104 -11.145 -6.267 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 2
+ATOM 2373 N N . ASN B 1 27 ? 15.940 -7.171 -4.986 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 2
+ATOM 2374 C CA . ASN B 1 27 ? 17.111 -6.363 -4.690 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 2
+ATOM 2375 C C . ASN B 1 27 ? 16.768 -4.885 -4.884 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 2
+ATOM 2376 O O . ASN B 1 27 ? 17.474 -4.167 -5.590 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 2
+ATOM 2377 C CB . ASN B 1 27 ? 18.269 -6.707 -5.629 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 2
+ATOM 2378 C CG . ASN B 1 27 ? 19.608 -6.651 -4.891 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 2
+ATOM 2379 O OD1 . ASN B 1 27 ? 20.312 -5.655 -4.904 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 2
+ATOM 2380 N ND2 . ASN B 1 27 ? 19.920 -7.774 -4.250 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 2
+ATOM 2381 H H . ASN B 1 27 ? 15.408 -7.453 -4.188 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 2
+ATOM 2382 H HA . ASN B 1 27 ? 17.368 -6.600 -3.658 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 2
+ATOM 2383 H HB2 . ASN B 1 27 ? 18.121 -7.703 -6.046 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 2
+ATOM 2384 H HB3 . ASN B 1 27 ? 18.282 -6.009 -6.467 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 2
+ATOM 2385 H HD21 . ASN B 1 27 ? 19.297 -8.556 -4.280 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 2
+ATOM 2386 H HD22 . ASN B 1 27 ? 20.776 -7.836 -3.738 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 2
+ATOM 2387 N N . LYS B 1 28 ? 15.684 -4.473 -4.243 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 2
+ATOM 2388 C CA . LYS B 1 28 ? 15.238 -3.093 -4.336 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 2
+ATOM 2389 C C . LYS B 1 28 ? 16.415 -2.161 -4.040 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 2
+ATOM 2390 O O . LYS B 1 28 ? 17.482 -2.614 -3.629 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 2
+ATOM 2391 C CB . LYS B 1 28 ? 14.026 -2.859 -3.433 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 2
+ATOM 2392 C CG . LYS B 1 28 ? 12.722 -3.146 -4.180 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 2
+ATOM 2393 C CD . LYS B 1 28 ? 11.511 -2.683 -3.367 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 2
+ATOM 2394 C CE . LYS B 1 28 ? 10.205 -3.136 -4.023 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 2
+ATOM 2395 N NZ . LYS B 1 28 ? 9.193 -3.460 -2.994 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 2
+ATOM 2396 H H . LYS B 1 28 ? 15.115 -5.063 -3.670 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 2
+ATOM 2397 H HA . LYS B 1 28 ? 14.913 -2.923 -5.362 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 2
+ATOM 2398 H HB2 . LYS B 1 28 ? 14.093 -3.500 -2.554 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 2
+ATOM 2399 H HB3 . LYS B 1 28 ? 14.026 -1.829 -3.077 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 2
+ATOM 2400 H HG2 . LYS B 1 28 ? 12.732 -2.638 -5.145 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 2
+ATOM 2401 H HG3 . LYS B 1 28 ? 12.642 -4.214 -4.383 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 2
+ATOM 2402 H HD2 . LYS B 1 28 ? 11.572 -3.085 -2.356 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 2
+ATOM 2403 H HD3 . LYS B 1 28 ? 11.520 -1.597 -3.280 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 2
+ATOM 2404 H HE2 . LYS B 1 28 ? 9.828 -2.349 -4.677 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 2
+ATOM 2405 H HE3 . LYS B 1 28 ? 10.389 -4.009 -4.649 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 2
+ATOM 2406 H HZ1 . LYS B 1 28 ? 8.978 -2.638 -2.466 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 2
+ATOM 2407 H HZ2 . LYS B 1 28 ? 8.362 -3.798 -3.437 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 2
+ATOM 2408 H HZ3 . LYS B 1 28 ? 9.553 -4.164 -2.381 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 2
+ATOM 2409 N N . GLY B 1 29 ? 16.180 -0.876 -4.260 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 2
+ATOM 2410 C CA . GLY B 1 29 ? 17.207 0.124 -4.021 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 2
+ATOM 2411 C C . GLY B 1 29 ? 16.885 1.427 -4.757 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 2
+ATOM 2412 O O . GLY B 1 29 ? 17.772 2.053 -5.335 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 2
+ATOM 2413 H H . GLY B 1 29 ? 15.309 -0.516 -4.594 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 2
+ATOM 2414 H HA2 . GLY B 1 29 ? 17.290 0.317 -2.952 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 2
+ATOM 2415 H HA3 . GLY B 1 29 ? 18.173 -0.256 -4.353 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 2
+ATOM 2416 N N . ALA B 1 30 ? 15.614 1.797 -4.711 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 2
+ATOM 2417 C CA . ALA B 1 30 ? 15.164 3.013 -5.365 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 2
+ATOM 2418 C C . ALA B 1 30 ? 14.139 3.718 -4.474 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 2
+ATOM 2419 O O . ALA B 1 30 ? 13.721 3.174 -3.453 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 2
+ATOM 2420 C CB . ALA B 1 30 ? 14.599 2.672 -6.746 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 2
+ATOM 2421 H H . ALA B 1 30 ? 14.898 1.282 -4.238 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 2
+ATOM 2422 H HA . ALA B 1 30 ? 16.031 3.662 -5.491 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 2
+ATOM 2423 H HB1 . ALA B 1 30 ? 15.302 2.030 -7.277 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 2
+ATOM 2424 H HB2 . ALA B 1 30 ? 13.648 2.152 -6.630 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 2
+ATOM 2425 H HB3 . ALA B 1 30 ? 14.445 3.590 -7.312 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 2
+ATOM 2426 N N . ILE B 1 31 ? 13.764 4.917 -4.893 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 2
+ATOM 2427 C CA . ILE B 1 31 ? 12.796 5.702 -4.145 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 2
+ATOM 2428 C C . ILE B 1 31 ? 11.389 5.168 -4.424 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 2
+ATOM 2429 O O . ILE B 1 31 ? 10.712 5.640 -5.336 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 2
+ATOM 2430 C CB . ILE B 1 31 ? 12.961 7.191 -4.454 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 2
+ATOM 2431 C CG1 . ILE B 1 31 ? 14.241 7.744 -3.824 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 2
+ATOM 2432 C CG2 . ILE B 1 31 ? 11.723 7.981 -4.023 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 2
+ATOM 2433 C CD1 . ILE B 1 31 ? 14.906 8.770 -4.743 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 2
+ATOM 2434 H H . ILE B 1 31 ? 14.108 5.352 -5.725 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 2
+ATOM 2435 H HA . ILE B 1 31 ? 13.013 5.566 -3.086 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 2
+ATOM 2436 H HB . ILE B 1 31 ? 13.057 7.308 -5.533 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 2
+ATOM 2437 H HG12 . ILE B 1 31 ? 14.008 8.206 -2.864 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 2
+ATOM 2438 H HG13 . ILE B 1 31 ? 14.934 6.926 -3.624 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 2
+ATOM 2439 H HG21 . ILE B 1 31 ? 11.073 7.340 -3.427 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 2
+ATOM 2440 H HG22 . ILE B 1 31 ? 12.030 8.841 -3.428 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 2
+ATOM 2441 H HG23 . ILE B 1 31 ? 11.184 8.323 -4.906 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 2
+ATOM 2442 H HD11 . ILE B 1 31 ? 15.975 8.805 -4.535 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 2
+ATOM 2443 H HD12 . ILE B 1 31 ? 14.746 8.485 -5.783 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 2
+ATOM 2444 H HD13 . ILE B 1 31 ? 14.469 9.753 -4.565 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 2
+ATOM 2445 N N . ILE B 1 32 ? 10.991 4.192 -3.621 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 2
+ATOM 2446 C CA . ILE B 1 32 ? 9.678 3.590 -3.769 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 2
+ATOM 2447 C C . ILE B 1 32 ? 8.639 4.458 -3.056 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 2
+ATOM 2448 O O . ILE B 1 32 ? 8.729 4.673 -1.848 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 2
+ATOM 2449 C CB . ILE B 1 32 ? 9.698 2.137 -3.290 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 2
+ATOM 2450 C CG1 . ILE B 1 32 ? 8.425 1.402 -3.715 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 2
+ATOM 2451 C CG2 . ILE B 1 32 ? 9.926 2.061 -1.779 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 2
+ATOM 2452 C CD1 . ILE B 1 32 ? 8.737 -0.034 -4.143 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 2
+ATOM 2453 H H . ILE B 1 32 ? 11.548 3.815 -2.881 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 2
+ATOM 2454 H HA . ILE B 1 32 ? 9.443 3.575 -4.833 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 2
+ATOM 2455 H HB . ILE B 1 32 ? 10.536 1.631 -3.768 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 2
+ATOM 2456 H HG12 . ILE B 1 32 ? 7.713 1.392 -2.890 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 2
+ATOM 2457 H HG13 . ILE B 1 32 ? 7.951 1.935 -4.539 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 2
+ATOM 2458 H HG21 . ILE B 1 32 ? 9.066 2.483 -1.260 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 2
+ATOM 2459 H HG22 . ILE B 1 32 ? 10.054 1.019 -1.483 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 2
+ATOM 2460 H HG23 . ILE B 1 32 ? 10.821 2.625 -1.518 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 2
+ATOM 2461 H HD11 . ILE B 1 32 ? 9.614 -0.037 -4.791 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 2
+ATOM 2462 H HD12 . ILE B 1 32 ? 8.937 -0.641 -3.259 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 2
+ATOM 2463 H HD13 . ILE B 1 32 ? 7.885 -0.446 -4.682 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 2
+ATOM 2464 N N . GLY B 1 33 ? 7.678 4.934 -3.833 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 2
+ATOM 2465 C CA . GLY B 1 33 ? 6.624 5.774 -3.291 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 2
+ATOM 2466 C C . GLY B 1 33 ? 5.269 5.068 -3.362 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 2
+ATOM 2467 O O . GLY B 1 33 ? 4.517 5.253 -4.318 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 2
+ATOM 2468 H H . GLY B 1 33 ? 7.612 4.754 -4.815 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 2
+ATOM 2469 H HA2 . GLY B 1 33 ? 6.852 6.027 -2.256 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 2
+ATOM 2470 H HA3 . GLY B 1 33 ? 6.579 6.711 -3.846 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 2
+ATOM 2471 N N . LEU B 1 34 ? 4.997 4.273 -2.338 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 2
+ATOM 2472 C CA . LEU B 1 34 ? 3.746 3.537 -2.272 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 2
+ATOM 2473 C C . LEU B 1 34 ? 2.611 4.501 -1.916 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 2
+ATOM 2474 O O . LEU B 1 34 ? 2.631 5.124 -0.856 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 2
+ATOM 2475 C CB . LEU B 1 34 ? 3.870 2.353 -1.311 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 2
+ATOM 2476 C CG . LEU B 1 34 ? 3.625 0.969 -1.917 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 2
+ATOM 2477 C CD1 . LEU B 1 34 ? 2.223 0.876 -2.522 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 2
+ATOM 2478 C CD2 . LEU B 1 34 ? 4.712 0.616 -2.934 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 2
+ATOM 2479 H H . LEU B 1 34 ? 5.614 4.127 -1.564 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 2
+ATOM 2480 H HA . LEU B 1 34 ? 3.554 3.129 -3.264 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 2
+ATOM 2481 H HB2 . LEU B 1 34 ? 4.870 2.366 -0.877 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 2
+ATOM 2482 H HB3 . LEU B 1 34 ? 3.165 2.499 -0.493 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 2
+ATOM 2483 H HG . LEU B 1 34 ? 3.681 0.231 -1.117 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 2
+ATOM 2484 H HD11 . LEU B 1 34 ? 2.199 0.076 -3.262 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 2
+ATOM 2485 H HD12 . LEU B 1 34 ? 1.501 0.663 -1.733 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 2
+ATOM 2486 H HD13 . LEU B 1 34 ? 1.970 1.822 -3.000 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 2
+ATOM 2487 H HD21 . LEU B 1 34 ? 4.491 1.100 -3.886 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 2
+ATOM 2488 H HD22 . LEU B 1 34 ? 5.679 0.962 -2.568 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 2
+ATOM 2489 H HD23 . LEU B 1 34 ? 4.742 -0.465 -3.074 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 2
+ATOM 2490 N N . MET B 1 35 ? 1.650 4.592 -2.823 1.00 0.00 ? ? ? ? ? ? 35 MET B N 2
+ATOM 2491 C CA . MET B 1 35 ? 0.509 5.469 -2.618 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 2
+ATOM 2492 C C . MET B 1 35 ? -0.759 4.872 -3.232 1.00 0.00 ? ? ? ? ? ? 35 MET B C 2
+ATOM 2493 O O . MET B 1 35 ? -0.811 4.620 -4.435 1.00 0.00 ? ? ? ? ? ? 35 MET B O 2
+ATOM 2494 C CB . MET B 1 35 ? 0.792 6.831 -3.255 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 2
+ATOM 2495 C CG . MET B 1 35 ? 0.703 7.951 -2.216 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 2
+ATOM 2496 S SD . MET B 1 35 ? 1.181 9.506 -2.951 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 2
+ATOM 2497 C CE . MET B 1 35 ? -0.109 10.560 -2.311 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 2
+ATOM 2498 H H . MET B 1 35 ? 1.641 4.081 -3.683 1.00 0.00 ? ? ? ? ? ? 35 MET B H 2
+ATOM 2499 H HA . MET B 1 35 ? 0.394 5.552 -1.538 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 2
+ATOM 2500 H HB2 . MET B 1 35 ? 1.784 6.827 -3.706 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 2
+ATOM 2501 H HB3 . MET B 1 35 ? 0.078 7.017 -4.057 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 2
+ATOM 2502 H HG2 . MET B 1 35 ? -0.313 8.019 -1.829 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 2
+ATOM 2503 H HG3 . MET B 1 35 ? 1.352 7.725 -1.369 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 2
+ATOM 2504 H HE1 . MET B 1 35 ? 0.339 11.425 -1.821 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 2
+ATOM 2505 H HE2 . MET B 1 35 ? -0.744 10.896 -3.130 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 2
+ATOM 2506 H HE3 . MET B 1 35 ? -0.709 10.005 -1.590 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 2
+ATOM 2507 N N . VAL B 1 36 ? -1.750 4.663 -2.378 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 2
+ATOM 2508 C CA . VAL B 1 36 ? -3.014 4.100 -2.821 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 2
+ATOM 2509 C C . VAL B 1 36 ? -4.159 5.003 -2.359 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 2
+ATOM 2510 O O . VAL B 1 36 ? -4.047 5.680 -1.338 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 2
+ATOM 2511 C CB . VAL B 1 36 ? -3.149 2.660 -2.322 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 2
+ATOM 2512 C CG1 . VAL B 1 36 ? -1.847 1.884 -2.530 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 2
+ATOM 2513 C CG2 . VAL B 1 36 ? -3.580 2.626 -0.855 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 2
+ATOM 2514 H H . VAL B 1 36 ? -1.699 4.871 -1.401 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 2
+ATOM 2515 H HA . VAL B 1 36 ? -3.001 4.080 -3.911 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 2
+ATOM 2516 H HB . VAL B 1 36 ? -3.927 2.173 -2.911 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 2
+ATOM 2517 H HG11 . VAL B 1 36 ? -0.998 2.534 -2.319 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 2
+ATOM 2518 H HG12 . VAL B 1 36 ? -1.824 1.027 -1.857 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 2
+ATOM 2519 H HG13 . VAL B 1 36 ? -1.791 1.537 -3.562 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 2
+ATOM 2520 H HG21 . VAL B 1 36 ? -2.805 2.142 -0.260 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 2
+ATOM 2521 H HG22 . VAL B 1 36 ? -3.730 3.645 -0.497 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 2
+ATOM 2522 H HG23 . VAL B 1 36 ? -4.511 2.068 -0.762 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 2
+ATOM 2523 N N . GLY B 1 37 ? -5.235 4.983 -3.132 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 2
+ATOM 2524 C CA . GLY B 1 37 ? -6.400 5.792 -2.815 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 2
+ATOM 2525 C C . GLY B 1 37 ? -7.670 4.939 -2.794 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 2
+ATOM 2526 O O . GLY B 1 37 ? -8.225 4.622 -3.845 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 2
+ATOM 2527 H H . GLY B 1 37 ? -5.318 4.430 -3.961 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 2
+ATOM 2528 H HA2 . GLY B 1 37 ? -6.262 6.269 -1.844 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 2
+ATOM 2529 H HA3 . GLY B 1 37 ? -6.504 6.590 -3.550 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 2
+ATOM 2530 N N . GLY B 1 38 ? -8.093 4.593 -1.588 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 2
+ATOM 2531 C CA . GLY B 1 38 ? -9.287 3.783 -1.417 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 2
+ATOM 2532 C C . GLY B 1 38 ? -10.488 4.651 -1.037 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 2
+ATOM 2533 O O . GLY B 1 38 ? -10.841 4.751 0.137 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 2
+ATOM 2534 H H . GLY B 1 38 ? -7.635 4.855 -0.738 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 2
+ATOM 2535 H HA2 . GLY B 1 38 ? -9.501 3.244 -2.340 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 2
+ATOM 2536 H HA3 . GLY B 1 38 ? -9.116 3.035 -0.643 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 2
+ATOM 2537 N N . VAL B 1 39 ? -11.084 5.258 -2.054 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 2
+ATOM 2538 C CA . VAL B 1 39 ? -12.239 6.115 -1.841 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 2
+ATOM 2539 C C . VAL B 1 39 ? -13.515 5.330 -2.153 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 2
+ATOM 2540 O O . VAL B 1 39 ? -13.571 4.595 -3.137 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 2
+ATOM 2541 C CB . VAL B 1 39 ? -12.103 7.391 -2.674 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 2
+ATOM 2542 C CG1 . VAL B 1 39 ? -12.794 8.570 -1.986 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 2
+ATOM 2543 C CG2 . VAL B 1 39 ? -10.633 7.707 -2.959 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 2
+ATOM 2544 H H . VAL B 1 39 ? -10.791 5.172 -3.006 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 2
+ATOM 2545 H HA . VAL B 1 39 ? -12.249 6.398 -0.789 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 2
+ATOM 2546 H HB . VAL B 1 39 ? -12.601 7.222 -3.629 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 2
+ATOM 2547 H HG11 . VAL B 1 39 ? -13.268 9.202 -2.737 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 2
+ATOM 2548 H HG12 . VAL B 1 39 ? -13.550 8.196 -1.296 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 2
+ATOM 2549 H HG13 . VAL B 1 39 ? -12.056 9.153 -1.435 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 2
+ATOM 2550 H HG21 . VAL B 1 39 ? -10.559 8.678 -3.449 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 2
+ATOM 2551 H HG22 . VAL B 1 39 ? -10.078 7.729 -2.021 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 2
+ATOM 2552 H HG23 . VAL B 1 39 ? -10.216 6.938 -3.609 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 2
+ATOM 2553 N N . VAL B 1 40 ? -14.508 5.513 -1.295 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 2
+ATOM 2554 C CA . VAL B 1 40 ? -15.780 4.832 -1.467 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 2
+ATOM 2555 C C . VAL B 1 40 ? -16.881 5.634 -0.771 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 2
+ATOM 2556 O O . VAL B 1 40 ? -16.922 5.704 0.456 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 2
+ATOM 2557 C CB . VAL B 1 40 ? -15.675 3.393 -0.956 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 2
+ATOM 2558 C CG1 . VAL B 1 40 ? -15.025 3.348 0.428 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 2
+ATOM 2559 C CG2 . VAL B 1 40 ? -17.047 2.716 -0.940 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 2
+ATOM 2560 H H . VAL B 1 40 ? -14.454 6.113 -0.497 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 2
+ATOM 2561 H HA . VAL B 1 40 ? -15.992 4.796 -2.535 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 2
+ATOM 2562 H HB . VAL B 1 40 ? -15.036 2.839 -1.644 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 2
+ATOM 2563 H HG11 . VAL B 1 40 ? -14.600 4.324 0.662 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 2
+ATOM 2564 H HG12 . VAL B 1 40 ? -15.777 3.092 1.174 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 2
+ATOM 2565 H HG13 . VAL B 1 40 ? -14.236 2.597 0.435 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 2
+ATOM 2566 H HG21 . VAL B 1 40 ? -17.640 3.116 -0.118 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 2
+ATOM 2567 H HG22 . VAL B 1 40 ? -17.558 2.908 -1.884 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 2
+ATOM 2568 H HG23 . VAL B 1 40 ? -16.921 1.641 -0.808 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 2
+ATOM 2569 N N . ILE B 1 41 ? -17.747 6.219 -1.586 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 2
+ATOM 2570 C CA . ILE B 1 41 ? -18.846 7.014 -1.064 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 2
+ATOM 2571 C C . ILE B 1 41 ? -20.160 6.520 -1.671 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 2
+ATOM 2572 O O . ILE B 1 41 ? -20.235 6.263 -2.872 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 2
+ATOM 2573 C CB . ILE B 1 41 ? -18.585 8.504 -1.293 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 2
+ATOM 2574 C CG1 . ILE B 1 41 ? -19.809 9.340 -0.913 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 2
+ATOM 2575 C CG2 . ILE B 1 41 ? -18.134 8.768 -2.731 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 2
+ATOM 2576 C CD1 . ILE B 1 41 ? -19.400 10.753 -0.493 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 2
+ATOM 2577 H H . ILE B 1 41 ? -17.706 6.157 -2.583 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 2
+ATOM 2578 H HA . ILE B 1 41 ? -18.881 6.855 0.013 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 2
+ATOM 2579 H HB . ILE B 1 41 ? -17.769 8.813 -0.638 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 2
+ATOM 2580 H HG12 . ILE B 1 41 ? -20.494 9.393 -1.759 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 2
+ATOM 2581 H HG13 . ILE B 1 41 ? -20.346 8.855 -0.098 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 2
+ATOM 2582 H HG21 . ILE B 1 41 ? -18.143 9.841 -2.924 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 2
+ATOM 2583 H HG22 . ILE B 1 41 ? -17.124 8.382 -2.872 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 2
+ATOM 2584 H HG23 . ILE B 1 41 ? -18.813 8.269 -3.422 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 2
+ATOM 2585 H HD11 . ILE B 1 41 ? -18.312 10.821 -0.457 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 2
+ATOM 2586 H HD12 . ILE B 1 41 ? -19.785 11.473 -1.215 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 2
+ATOM 2587 H HD13 . ILE B 1 41 ? -19.810 10.972 0.493 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 2
+ATOM 2588 N N . ALA B 1 42 ? -21.163 6.402 -0.814 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 2
+ATOM 2589 C CA . ALA B 1 42 ? -22.471 5.943 -1.251 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 2
+ATOM 2590 C C . ALA B 1 42 ? -23.541 6.915 -0.751 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 2
+ATOM 2591 O O . ALA B 1 42 ? -24.074 6.747 0.344 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 2
+ATOM 2592 C CB . ALA B 1 42 ? -22.703 4.514 -0.754 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 2
+ATOM 2593 H H . ALA B 1 42 ? -21.094 6.613 0.161 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 2
+ATOM 2594 H HA . ALA B 1 42 ? -22.474 5.940 -2.341 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 2
+ATOM 2595 H HB1 . ALA B 1 42 ? -23.639 4.471 -0.198 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 2
+ATOM 2596 H HB2 . ALA B 1 42 ? -22.755 3.837 -1.607 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 2
+ATOM 2597 H HB3 . ALA B 1 42 ? -21.880 4.217 -0.104 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 2
+ATOM 2598 N N . LEU C 1 17 ? -15.596 -4.421 -11.653 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 2
+ATOM 2599 C CA . LEU C 1 17 ? -14.303 -3.763 -11.572 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 2
+ATOM 2600 C C . LEU C 1 17 ? -13.219 -4.810 -11.308 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 2
+ATOM 2601 O O . LEU C 1 17 ? -13.284 -5.541 -10.320 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 2
+ATOM 2602 C CB . LEU C 1 17 ? -14.337 -2.638 -10.536 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 2
+ATOM 2603 C CG . LEU C 1 17 ? -13.687 -1.319 -10.957 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 2
+ATOM 2604 C CD1 . LEU C 1 17 ? -12.178 -1.487 -11.148 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 2
+ATOM 2605 C CD2 . LEU C 1 17 ? -14.363 -0.748 -12.205 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 2
+ATOM 2606 H H . LEU C 1 17 ? -15.727 -5.176 -11.010 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 2
+ATOM 2607 H HA . LEU C 1 17 ? -14.110 -3.303 -12.541 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 2
+ATOM 2608 H HB2 . LEU C 1 17 ? -15.377 -2.441 -10.277 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 2
+ATOM 2609 H HB3 . LEU C 1 17 ? -13.844 -2.991 -9.630 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 2
+ATOM 2610 H HG . LEU C 1 17 ? -13.830 -0.596 -10.154 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 2
+ATOM 2611 H HD11 . LEU C 1 17 ? -11.763 -2.031 -10.300 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 2
+ATOM 2612 H HD12 . LEU C 1 17 ? -11.988 -2.045 -12.066 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 2
+ATOM 2613 H HD13 . LEU C 1 17 ? -11.708 -0.506 -11.216 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 2
+ATOM 2614 H HD21 . LEU C 1 17 ? -13.601 -0.419 -12.913 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 2
+ATOM 2615 H HD22 . LEU C 1 17 ? -14.980 -1.518 -12.668 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 2
+ATOM 2616 H HD23 . LEU C 1 17 ? -14.988 0.099 -11.924 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 2
+ATOM 2617 N N . VAL C 1 18 ? -12.247 -4.850 -12.208 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 2
+ATOM 2618 C CA . VAL C 1 18 ? -11.151 -5.795 -12.084 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 2
+ATOM 2619 C C . VAL C 1 18 ? -9.858 -5.136 -12.569 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 2
+ATOM 2620 O O . VAL C 1 18 ? -9.709 -4.852 -13.756 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 2
+ATOM 2621 C CB . VAL C 1 18 ? -11.484 -7.084 -12.838 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 2
+ATOM 2622 C CG1 . VAL C 1 18 ? -10.296 -8.049 -12.826 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 2
+ATOM 2623 C CG2 . VAL C 1 18 ? -12.736 -7.749 -12.262 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 2
+ATOM 2624 H H . VAL C 1 18 ? -12.202 -4.252 -13.008 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 2
+ATOM 2625 H HA . VAL C 1 18 ? -11.045 -6.040 -11.027 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 2
+ATOM 2626 H HB . VAL C 1 18 ? -11.691 -6.822 -13.876 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 2
+ATOM 2627 H HG11 . VAL C 1 18 ? -10.540 -8.919 -12.217 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 2
+ATOM 2628 H HG12 . VAL C 1 18 ? -10.078 -8.369 -13.845 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 2
+ATOM 2629 H HG13 . VAL C 1 18 ? -9.424 -7.546 -12.409 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 2
+ATOM 2630 H HG21 . VAL C 1 18 ? -12.974 -8.640 -12.843 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 2
+ATOM 2631 H HG22 . VAL C 1 18 ? -12.553 -8.030 -11.225 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 2
+ATOM 2632 H HG23 . VAL C 1 18 ? -13.571 -7.051 -12.307 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 2
+ATOM 2633 N N . PHE C 1 19 ? -8.955 -4.913 -11.625 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 2
+ATOM 2634 C CA . PHE C 1 19 ? -7.680 -4.293 -11.940 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 2
+ATOM 2635 C C . PHE C 1 19 ? -6.514 -5.166 -11.470 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 2
+ATOM 2636 O O . PHE C 1 19 ? -6.566 -5.746 -10.387 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 2
+ATOM 2637 C CB . PHE C 1 19 ? -7.635 -2.958 -11.194 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 2
+ATOM 2638 C CG . PHE C 1 19 ? -7.198 -1.775 -12.061 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 2
+ATOM 2639 C CD1 . PHE C 1 19 ? -5.884 -1.609 -12.372 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 2
+ATOM 2640 C CD2 . PHE C 1 19 ? -8.123 -0.890 -12.520 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 2
+ATOM 2641 C CE1 . PHE C 1 19 ? -5.479 -0.511 -13.177 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 2
+ATOM 2642 C CE2 . PHE C 1 19 ? -7.717 0.207 -13.325 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 2
+ATOM 2643 C CZ . PHE C 1 19 ? -6.404 0.374 -13.636 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 2
+ATOM 2644 H H . PHE C 1 19 ? -9.084 -5.148 -10.661 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 2
+ATOM 2645 H HA . PHE C 1 19 ? -7.634 -4.181 -13.024 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 2
+ATOM 2646 H HB2 . PHE C 1 19 ? -8.623 -2.749 -10.784 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 2
+ATOM 2647 H HB3 . PHE C 1 19 ? -6.951 -3.048 -10.350 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 2
+ATOM 2648 H HD1 . PHE C 1 19 ? -5.143 -2.318 -12.004 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 2
+ATOM 2649 H HD2 . PHE C 1 19 ? -9.175 -1.024 -12.271 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 2
+ATOM 2650 H HE1 . PHE C 1 19 ? -4.426 -0.378 -13.426 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 2
+ATOM 2651 H HE2 . PHE C 1 19 ? -8.459 0.917 -13.693 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 2
+ATOM 2652 H HZ . PHE C 1 19 ? -6.092 1.216 -14.254 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 2
+ATOM 2653 N N . PHE C 1 20 ? -5.491 -5.232 -12.309 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 2
+ATOM 2654 C CA . PHE C 1 20 ? -4.314 -6.024 -11.993 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 2
+ATOM 2655 C C . PHE C 1 20 ? -3.037 -5.315 -12.448 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 2
+ATOM 2656 O O . PHE C 1 20 ? -2.794 -5.174 -13.645 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 2
+ATOM 2657 C CB . PHE C 1 20 ? -4.448 -7.346 -12.752 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 2
+ATOM 2658 C CG . PHE C 1 20 ? -4.631 -8.567 -11.849 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 2
+ATOM 2659 C CD1 . PHE C 1 20 ? -5.836 -8.806 -11.265 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 2
+ATOM 2660 C CD2 . PHE C 1 20 ? -3.590 -9.413 -11.630 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 2
+ATOM 2661 C CE1 . PHE C 1 20 ? -6.006 -9.939 -10.426 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 2
+ATOM 2662 C CE2 . PHE C 1 20 ? -3.760 -10.547 -10.791 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 2
+ATOM 2663 C CZ . PHE C 1 20 ? -4.964 -10.786 -10.207 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 2
+ATOM 2664 H H . PHE C 1 20 ? -5.457 -4.757 -13.188 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 2
+ATOM 2665 H HA . PHE C 1 20 ? -4.291 -6.152 -10.910 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 2
+ATOM 2666 H HB2 . PHE C 1 20 ? -5.298 -7.278 -13.432 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 2
+ATOM 2667 H HB3 . PHE C 1 20 ? -3.559 -7.491 -13.367 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 2
+ATOM 2668 H HD1 . PHE C 1 20 ? -6.671 -8.128 -11.440 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 2
+ATOM 2669 H HD2 . PHE C 1 20 ? -2.624 -9.222 -12.098 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 2
+ATOM 2670 H HE1 . PHE C 1 20 ? -6.972 -10.131 -9.958 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 2
+ATOM 2671 H HE2 . PHE C 1 20 ? -2.925 -11.225 -10.616 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 2
+ATOM 2672 H HZ . PHE C 1 20 ? -5.095 -11.656 -9.564 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 2
+ATOM 2673 N N . ALA C 1 21 ? -2.255 -4.887 -11.467 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 2
+ATOM 2674 C CA . ALA C 1 21 ? -1.009 -4.196 -11.752 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 2
+ATOM 2675 C C . ALA C 1 21 ? 0.152 -4.968 -11.122 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 2
+ATOM 2676 O O . ALA C 1 21 ? 0.388 -4.870 -9.919 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 2
+ATOM 2677 C CB . ALA C 1 21 ? -1.096 -2.756 -11.243 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 2
+ATOM 2678 H H . ALA C 1 21 ? -2.460 -5.006 -10.496 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 2
+ATOM 2679 H HA . ALA C 1 21 ? -0.878 -4.179 -12.834 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 2
+ATOM 2680 H HB1 . ALA C 1 21 ? -1.801 -2.706 -10.413 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 2
+ATOM 2681 H HB2 . ALA C 1 21 ? -0.112 -2.430 -10.905 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 2
+ATOM 2682 H HB3 . ALA C 1 21 ? -1.437 -2.106 -12.049 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 2
+ATOM 2683 N N . GLU C 1 22 ? 0.848 -5.719 -11.964 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 2
+ATOM 2684 C CA . GLU C 1 22 ? 1.979 -6.507 -11.504 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 2
+ATOM 2685 C C . GLU C 1 22 ? 3.273 -6.003 -12.147 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 2
+ATOM 2686 O O . GLU C 1 22 ? 3.414 -6.030 -13.369 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 2
+ATOM 2687 C CB . GLU C 1 22 ? 1.765 -7.994 -11.794 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 2
+ATOM 2688 C CG . GLU C 1 22 ? 3.072 -8.775 -11.643 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 2
+ATOM 2689 C CD . GLU C 1 22 ? 2.846 -10.271 -11.876 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 2
+ATOM 2690 O OE1 . GLU C 1 22 ? 2.071 -10.857 -11.089 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 2
+ATOM 2691 O OE2 . GLU C 1 22 ? 3.454 -10.793 -12.834 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 2
+ATOM 2692 H H . GLU C 1 22 ? 0.650 -5.793 -12.941 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 2
+ATOM 2693 H HA . GLU C 1 22 ? 2.019 -6.355 -10.426 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 2
+ATOM 2694 H HB2 . GLU C 1 22 ? 1.015 -8.396 -11.114 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 2
+ATOM 2695 H HB3 . GLU C 1 22 ? 1.378 -8.119 -12.806 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 2
+ATOM 2696 H HG2 . GLU C 1 22 ? 3.809 -8.400 -12.352 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 2
+ATOM 2697 H HG3 . GLU C 1 22 ? 3.481 -8.617 -10.645 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 2
+ATOM 2698 N N . ASP C 1 23 ? 4.184 -5.555 -11.296 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 2
+ATOM 2699 C CA . ASP C 1 23 ? 5.461 -5.047 -11.766 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 2
+ATOM 2700 C C . ASP C 1 23 ? 6.577 -5.996 -11.324 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 2
+ATOM 2701 O O . ASP C 1 23 ? 6.902 -6.069 -10.140 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 2
+ATOM 2702 C CB . ASP C 1 23 ? 5.754 -3.665 -11.177 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 2
+ATOM 2703 C CG . ASP C 1 23 ? 7.018 -2.989 -11.711 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 2
+ATOM 2704 O OD1 . ASP C 1 23 ? 7.652 -3.595 -12.602 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 2
+ATOM 2705 O OD2 . ASP C 1 23 ? 7.322 -1.882 -11.217 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 2
+ATOM 2706 H H . ASP C 1 23 ? 4.061 -5.537 -10.304 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 2
+ATOM 2707 H HA . ASP C 1 23 ? 5.366 -4.991 -12.850 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 2
+ATOM 2708 H HB2 . ASP C 1 23 ? 4.902 -3.015 -11.372 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 2
+ATOM 2709 H HB3 . ASP C 1 23 ? 5.841 -3.760 -10.094 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 2
+ATOM 2710 N N . VAL C 1 24 ? 7.133 -6.699 -12.300 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 2
+ATOM 2711 C CA . VAL C 1 24 ? 8.206 -7.640 -12.026 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 2
+ATOM 2712 C C . VAL C 1 24 ? 9.553 -6.933 -12.187 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 2
+ATOM 2713 O O . VAL C 1 24 ? 10.148 -6.960 -13.263 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 2
+ATOM 2714 C CB . VAL C 1 24 ? 8.065 -8.870 -12.926 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 2
+ATOM 2715 C CG1 . VAL C 1 24 ? 9.286 -9.783 -12.801 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 2
+ATOM 2716 C CG2 . VAL C 1 24 ? 6.775 -9.632 -12.615 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 2
+ATOM 2717 H H . VAL C 1 24 ? 6.863 -6.633 -13.260 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 2
+ATOM 2718 H HA . VAL C 1 24 ? 8.102 -7.966 -10.991 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 2
+ATOM 2719 H HB . VAL C 1 24 ? 8.009 -8.525 -13.958 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 2
+ATOM 2720 H HG11 . VAL C 1 24 ? 9.667 -10.019 -13.795 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 2
+ATOM 2721 H HG12 . VAL C 1 24 ? 10.061 -9.277 -12.225 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 2
+ATOM 2722 H HG13 . VAL C 1 24 ? 9.000 -10.705 -12.294 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 2
+ATOM 2723 H HG21 . VAL C 1 24 ? 6.999 -10.468 -11.952 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 2
+ATOM 2724 H HG22 . VAL C 1 24 ? 6.066 -8.962 -12.129 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 2
+ATOM 2725 H HG23 . VAL C 1 24 ? 6.343 -10.009 -13.542 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 2
+ATOM 2726 N N . GLY C 1 25 ? 9.994 -6.316 -11.101 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 2
+ATOM 2727 C CA . GLY C 1 25 ? 11.260 -5.602 -11.108 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 2
+ATOM 2728 C C . GLY C 1 25 ? 12.369 -6.447 -10.478 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 2
+ATOM 2729 O O . GLY C 1 25 ? 12.125 -7.192 -9.531 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 2
+ATOM 2730 H H . GLY C 1 25 ? 9.504 -6.298 -10.230 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 2
+ATOM 2731 H HA2 . GLY C 1 25 ? 11.531 -5.345 -12.132 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 2
+ATOM 2732 H HA3 . GLY C 1 25 ? 11.156 -4.665 -10.561 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 2
+ATOM 2733 N N . SER C 1 26 ? 13.565 -6.302 -11.029 1.00 0.00 ? ? ? ? ? ? 26 SER C N 2
+ATOM 2734 C CA . SER C 1 26 ? 14.713 -7.042 -10.533 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 2
+ATOM 2735 C C . SER C 1 26 ? 15.914 -6.107 -10.383 1.00 0.00 ? ? ? ? ? ? 26 SER C C 2
+ATOM 2736 O O . SER C 1 26 ? 16.644 -5.869 -11.344 1.00 0.00 ? ? ? ? ? ? 26 SER C O 2
+ATOM 2737 C CB . SER C 1 26 ? 15.060 -8.207 -11.462 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 2
+ATOM 2738 O OG . SER C 1 26 ? 15.090 -9.452 -10.769 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 2
+ATOM 2739 H H . SER C 1 26 ? 13.756 -5.693 -11.800 1.00 0.00 ? ? ? ? ? ? 26 SER C H 2
+ATOM 2740 H HA . SER C 1 26 ? 14.407 -7.431 -9.562 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 2
+ATOM 2741 H HB2 . SER C 1 26 ? 14.329 -8.259 -12.268 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 2
+ATOM 2742 H HB3 . SER C 1 26 ? 16.031 -8.026 -11.923 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 2
+ATOM 2743 H HG . SER C 1 26 ? 14.234 -9.948 -10.920 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 2
+ATOM 2744 N N . ASN C 1 27 ? 16.082 -5.601 -9.170 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 2
+ATOM 2745 C CA . ASN C 1 27 ? 17.182 -4.696 -8.882 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 2
+ATOM 2746 C C . ASN C 1 27 ? 16.782 -3.272 -9.272 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 2
+ATOM 2747 O O . ASN C 1 27 ? 16.994 -2.854 -10.409 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 2
+ATOM 2748 C CB . ASN C 1 27 ? 18.429 -5.074 -9.683 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 2
+ATOM 2749 C CG . ASN C 1 27 ? 19.696 -4.539 -9.011 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 2
+ATOM 2750 O OD1 . ASN C 1 27 ? 19.651 -3.721 -8.107 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 2
+ATOM 2751 N ND2 . ASN C 1 27 ? 20.823 -5.044 -9.502 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 2
+ATOM 2752 H H . ASN C 1 27 ? 15.483 -5.799 -8.394 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 2
+ATOM 2753 H HA . ASN C 1 27 ? 17.365 -4.800 -7.812 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 2
+ATOM 2754 H HB2 . ASN C 1 27 ? 18.493 -6.158 -9.776 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 2
+ATOM 2755 H HB3 . ASN C 1 27 ? 18.352 -4.672 -10.694 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 2
+ATOM 2756 H HD21 . ASN C 1 27 ? 20.790 -5.713 -10.246 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 2
+ATOM 2757 H HD22 . ASN C 1 27 ? 21.705 -4.757 -9.128 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 2
+ATOM 2758 N N . LYS C 1 28 ? 16.209 -2.567 -8.308 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 2
+ATOM 2759 C CA . LYS C 1 28 ? 15.777 -1.199 -8.537 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 2
+ATOM 2760 C C . LYS C 1 28 ? 16.852 -0.237 -8.026 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 2
+ATOM 2761 O O . LYS C 1 28 ? 17.353 -0.395 -6.914 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 2
+ATOM 2762 C CB . LYS C 1 28 ? 14.397 -0.962 -7.920 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 2
+ATOM 2763 C CG . LYS C 1 28 ? 13.325 -1.779 -8.645 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 2
+ATOM 2764 C CD . LYS C 1 28 ? 11.968 -1.639 -7.954 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 2
+ATOM 2765 C CE . LYS C 1 28 ? 11.002 -2.732 -8.416 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 2
+ATOM 2766 N NZ . LYS C 1 28 ? 9.753 -2.688 -7.623 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 2
+ATOM 2767 H H . LYS C 1 28 ? 16.040 -2.915 -7.386 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 2
+ATOM 2768 H HA . LYS C 1 28 ? 15.677 -1.064 -9.614 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 2
+ATOM 2769 H HB2 . LYS C 1 28 ? 14.414 -1.234 -6.865 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 2
+ATOM 2770 H HB3 . LYS C 1 28 ? 14.148 0.097 -7.972 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 2
+ATOM 2771 H HG2 . LYS C 1 28 ? 13.247 -1.446 -9.680 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 2
+ATOM 2772 H HG3 . LYS C 1 28 ? 13.618 -2.829 -8.670 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 2
+ATOM 2773 H HD2 . LYS C 1 28 ? 12.098 -1.696 -6.874 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 2
+ATOM 2774 H HD3 . LYS C 1 28 ? 11.544 -0.659 -8.173 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 2
+ATOM 2775 H HE2 . LYS C 1 28 ? 10.773 -2.601 -9.473 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 2
+ATOM 2776 H HE3 . LYS C 1 28 ? 11.472 -3.710 -8.310 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 2
+ATOM 2777 H HZ1 . LYS C 1 28 ? 9.401 -3.617 -7.503 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 2
+ATOM 2778 H HZ2 . LYS C 1 28 ? 9.940 -2.284 -6.728 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 2
+ATOM 2779 H HZ3 . LYS C 1 28 ? 9.073 -2.134 -8.103 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 2
+ATOM 2780 N N . GLY C 1 29 ? 17.174 0.738 -8.862 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 2
+ATOM 2781 C CA . GLY C 1 29 ? 18.180 1.726 -8.509 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 2
+ATOM 2782 C C . GLY C 1 29 ? 17.872 3.078 -9.156 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 2
+ATOM 2783 O O . GLY C 1 29 ? 18.425 3.409 -10.204 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 2
+ATOM 2784 H H . GLY C 1 29 ? 16.761 0.860 -9.765 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 2
+ATOM 2785 H HA2 . GLY C 1 29 ? 18.220 1.838 -7.426 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 2
+ATOM 2786 H HA3 . GLY C 1 29 ? 19.162 1.380 -8.830 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 2
+ATOM 2787 N N . ALA C 1 30 ? 16.991 3.822 -8.505 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 2
+ATOM 2788 C CA . ALA C 1 30 ? 16.603 5.131 -9.003 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 2
+ATOM 2789 C C . ALA C 1 30 ? 15.335 5.592 -8.281 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 2
+ATOM 2790 O O . ALA C 1 30 ? 15.375 5.917 -7.096 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 2
+ATOM 2791 C CB . ALA C 1 30 ? 16.419 5.065 -10.521 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 2
+ATOM 2792 H H . ALA C 1 30 ? 16.546 3.546 -7.653 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 2
+ATOM 2793 H HA . ALA C 1 30 ? 17.412 5.825 -8.777 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 2
+ATOM 2794 H HB1 . ALA C 1 30 ? 15.807 5.905 -10.849 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 2
+ATOM 2795 H HB2 . ALA C 1 30 ? 17.393 5.113 -11.007 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 2
+ATOM 2796 H HB3 . ALA C 1 30 ? 15.925 4.131 -10.787 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 2
+ATOM 2797 N N . ILE C 1 31 ? 14.240 5.605 -9.027 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 2
+ATOM 2798 C CA . ILE C 1 31 ? 12.962 6.020 -8.473 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 2
+ATOM 2799 C C . ILE C 1 31 ? 11.861 5.092 -8.989 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 2
+ATOM 2800 O O . ILE C 1 31 ? 11.945 4.585 -10.107 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 2
+ATOM 2801 C CB . ILE C 1 31 ? 12.707 7.500 -8.766 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 2
+ATOM 2802 C CG1 . ILE C 1 31 ? 13.669 8.390 -7.976 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 2
+ATOM 2803 C CG2 . ILE C 1 31 ? 11.244 7.865 -8.507 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 2
+ATOM 2804 C CD1 . ILE C 1 31 ? 14.036 9.643 -8.773 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 2
+ATOM 2805 H H . ILE C 1 31 ? 14.216 5.338 -9.990 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 2
+ATOM 2806 H HA . ILE C 1 31 ? 13.025 5.912 -7.390 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 2
+ATOM 2807 H HB . ILE C 1 31 ? 12.900 7.676 -9.824 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 2
+ATOM 2808 H HG12 . ILE C 1 31 ? 13.210 8.677 -7.030 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 2
+ATOM 2809 H HG13 . ILE C 1 31 ? 14.572 7.830 -7.735 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 2
+ATOM 2810 H HG21 . ILE C 1 31 ? 11.187 8.884 -8.122 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 2
+ATOM 2811 H HG22 . ILE C 1 31 ? 10.682 7.797 -9.438 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 2
+ATOM 2812 H HG23 . ILE C 1 31 ? 10.821 7.176 -7.776 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 2
+ATOM 2813 H HD11 . ILE C 1 31 ? 14.912 9.438 -9.389 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 2
+ATOM 2814 H HD12 . ILE C 1 31 ? 13.200 9.925 -9.413 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 2
+ATOM 2815 H HD13 . ILE C 1 31 ? 14.258 10.459 -8.086 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 2
+ATOM 2816 N N . ILE C 1 32 ? 10.854 4.896 -8.150 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 2
+ATOM 2817 C CA . ILE C 1 32 ? 9.738 4.038 -8.508 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 2
+ATOM 2818 C C . ILE C 1 32 ? 8.489 4.491 -7.750 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 2
+ATOM 2819 O O . ILE C 1 32 ? 8.312 4.154 -6.580 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 2
+ATOM 2820 C CB . ILE C 1 32 ? 10.097 2.568 -8.278 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 2
+ATOM 2821 C CG1 . ILE C 1 32 ? 9.103 1.644 -8.985 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 2
+ATOM 2822 C CG2 . ILE C 1 32 ? 10.207 2.257 -6.784 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 2
+ATOM 2823 C CD1 . ILE C 1 32 ? 7.663 1.994 -8.604 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 2
+ATOM 2824 H H . ILE C 1 32 ? 10.794 5.312 -7.243 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 2
+ATOM 2825 H HA . ILE C 1 32 ? 9.559 4.163 -9.575 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 2
+ATOM 2826 H HB . ILE C 1 32 ? 11.077 2.384 -8.718 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 2
+ATOM 2827 H HG12 . ILE C 1 32 ? 9.228 1.728 -10.064 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 2
+ATOM 2828 H HG13 . ILE C 1 32 ? 9.313 0.608 -8.719 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 2
+ATOM 2829 H HG21 . ILE C 1 32 ? 9.209 2.146 -6.362 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 2
+ATOM 2830 H HG22 . ILE C 1 32 ? 10.765 1.331 -6.646 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 2
+ATOM 2831 H HG23 . ILE C 1 32 ? 10.726 3.073 -6.281 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 2
+ATOM 2832 H HD11 . ILE C 1 32 ? 7.618 2.237 -7.542 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 2
+ATOM 2833 H HD12 . ILE C 1 32 ? 7.331 2.851 -9.188 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 2
+ATOM 2834 H HD13 . ILE C 1 32 ? 7.016 1.141 -8.809 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 2
+ATOM 2835 N N . GLY C 1 33 ? 7.654 5.247 -8.447 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 2
+ATOM 2836 C CA . GLY C 1 33 ? 6.426 5.750 -7.855 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 2
+ATOM 2837 C C . GLY C 1 33 ? 5.272 4.770 -8.071 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 2
+ATOM 2838 O O . GLY C 1 33 ? 4.987 4.380 -9.203 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 2
+ATOM 2839 H H . GLY C 1 33 ? 7.805 5.516 -9.398 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 2
+ATOM 2840 H HA2 . GLY C 1 33 ? 6.574 5.913 -6.787 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 2
+ATOM 2841 H HA3 . GLY C 1 33 ? 6.175 6.716 -8.293 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 2
+ATOM 2842 N N . LEU C 1 34 ? 4.638 4.399 -6.968 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 2
+ATOM 2843 C CA . LEU C 1 34 ? 3.520 3.471 -7.023 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 2
+ATOM 2844 C C . LEU C 1 34 ? 2.240 4.197 -6.607 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 2
+ATOM 2845 O O . LEU C 1 34 ? 1.979 4.370 -5.417 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 2
+ATOM 2846 C CB . LEU C 1 34 ? 3.819 2.223 -6.191 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 2
+ATOM 2847 C CG . LEU C 1 34 ? 3.415 0.887 -6.817 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 2
+ATOM 2848 C CD1 . LEU C 1 34 ? 2.004 0.960 -7.403 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 2
+ATOM 2849 C CD2 . LEU C 1 34 ? 4.444 0.435 -7.855 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 2
+ATOM 2850 H H . LEU C 1 34 ? 4.875 4.720 -6.052 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 2
+ATOM 2851 H HA . LEU C 1 34 ? 3.414 3.150 -8.059 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 2
+ATOM 2852 H HB2 . LEU C 1 34 ? 4.888 2.196 -5.983 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 2
+ATOM 2853 H HB3 . LEU C 1 34 ? 3.310 2.321 -5.232 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 2
+ATOM 2854 H HG . LEU C 1 34 ? 3.398 0.132 -6.030 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 2
+ATOM 2855 H HD11 . LEU C 1 34 ? 1.905 0.226 -8.203 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 2
+ATOM 2856 H HD12 . LEU C 1 34 ? 1.274 0.746 -6.622 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 2
+ATOM 2857 H HD13 . LEU C 1 34 ? 1.827 1.959 -7.802 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 2
+ATOM 2858 H HD21 . LEU C 1 34 ? 4.125 0.754 -8.847 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 2
+ATOM 2859 H HD22 . LEU C 1 34 ? 5.412 0.880 -7.624 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 2
+ATOM 2860 H HD23 . LEU C 1 34 ? 4.530 -0.652 -7.833 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 2
+ATOM 2861 N N . MET C 1 35 ? 1.474 4.603 -7.609 1.00 0.00 ? ? ? ? ? ? 35 MET C N 2
+ATOM 2862 C CA . MET C 1 35 ? 0.227 5.307 -7.362 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 2
+ATOM 2863 C C . MET C 1 35 ? -0.957 4.553 -7.970 1.00 0.00 ? ? ? ? ? ? 35 MET C C 2
+ATOM 2864 O O . MET C 1 35 ? -0.986 4.304 -9.175 1.00 0.00 ? ? ? ? ? ? 35 MET C O 2
+ATOM 2865 C CB . MET C 1 35 ? 0.304 6.711 -7.965 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 2
+ATOM 2866 C CG . MET C 1 35 ? 0.334 7.778 -6.869 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 2
+ATOM 2867 S SD . MET C 1 35 ? -0.307 9.319 -7.500 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 2
+ATOM 2868 C CE . MET C 1 35 ? -1.767 9.486 -6.486 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 2
+ATOM 2869 H H . MET C 1 35 ? 1.694 4.459 -8.574 1.00 0.00 ? ? ? ? ? ? 35 MET C H 2
+ATOM 2870 H HA . MET C 1 35 ? 0.124 5.346 -6.277 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 2
+ATOM 2871 H HB2 . MET C 1 35 ? 1.197 6.796 -8.585 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 2
+ATOM 2872 H HB3 . MET C 1 35 ? -0.553 6.878 -8.617 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 2
+ATOM 2873 H HG2 . MET C 1 35 ? -0.259 7.450 -6.015 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 2
+ATOM 2874 H HG3 . MET C 1 35 ? 1.355 7.917 -6.513 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 2
+ATOM 2875 H HE1 . MET C 1 35 ? -2.561 8.857 -6.887 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 2
+ATOM 2876 H HE2 . MET C 1 35 ? -1.538 9.177 -5.466 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 2
+ATOM 2877 H HE3 . MET C 1 35 ? -2.092 10.526 -6.486 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 2
+ATOM 2878 N N . VAL C 1 36 ? -1.906 4.213 -7.110 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 2
+ATOM 2879 C CA . VAL C 1 36 ? -3.089 3.493 -7.548 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 2
+ATOM 2880 C C . VAL C 1 36 ? -4.337 4.205 -7.022 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 2
+ATOM 2881 O O . VAL C 1 36 ? -4.547 4.284 -5.813 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 2
+ATOM 2882 C CB . VAL C 1 36 ? -3.005 2.030 -7.108 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 2
+ATOM 2883 C CG1 . VAL C 1 36 ? -1.684 1.399 -7.552 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 2
+ATOM 2884 C CG2 . VAL C 1 36 ? -3.194 1.901 -5.596 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 2
+ATOM 2885 H H . VAL C 1 36 ? -1.874 4.420 -6.133 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 2
+ATOM 2886 H HA . VAL C 1 36 ? -3.105 3.517 -8.638 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 2
+ATOM 2887 H HB . VAL C 1 36 ? -3.815 1.487 -7.595 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 2
+ATOM 2888 H HG11 . VAL C 1 36 ? -1.887 0.489 -8.115 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 2
+ATOM 2889 H HG12 . VAL C 1 36 ? -1.139 2.102 -8.182 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 2
+ATOM 2890 H HG13 . VAL C 1 36 ? -1.084 1.158 -6.674 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 2
+ATOM 2891 H HG21 . VAL C 1 36 ? -4.219 2.164 -5.334 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 2
+ATOM 2892 H HG22 . VAL C 1 36 ? -2.994 0.873 -5.291 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 2
+ATOM 2893 H HG23 . VAL C 1 36 ? -2.504 2.572 -5.085 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 2
+ATOM 2894 N N . GLY C 1 37 ? -5.133 4.704 -7.956 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 2
+ATOM 2895 C CA . GLY C 1 37 ? -6.355 5.407 -7.602 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 2
+ATOM 2896 C C . GLY C 1 37 ? -7.554 4.457 -7.606 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 2
+ATOM 2897 O O . GLY C 1 37 ? -7.842 3.820 -8.618 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 2
+ATOM 2898 H H . GLY C 1 37 ? -4.955 4.635 -8.938 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 2
+ATOM 2899 H HA2 . GLY C 1 37 ? -6.246 5.857 -6.615 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 2
+ATOM 2900 H HA3 . GLY C 1 37 ? -6.528 6.220 -8.306 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 2
+ATOM 2901 N N . GLY C 1 38 ? -8.221 4.392 -6.463 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 2
+ATOM 2902 C CA . GLY C 1 38 ? -9.383 3.531 -6.322 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 2
+ATOM 2903 C C . GLY C 1 38 ? -10.539 4.276 -5.652 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 2
+ATOM 2904 O O . GLY C 1 38 ? -10.760 4.134 -4.450 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 2
+ATOM 2905 H H . GLY C 1 38 ? -7.980 4.914 -5.644 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 2
+ATOM 2906 H HA2 . GLY C 1 38 ? -9.695 3.173 -7.302 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 2
+ATOM 2907 H HA3 . GLY C 1 38 ? -9.120 2.653 -5.731 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 2
+ATOM 2908 N N . VAL C 1 39 ? -11.247 5.053 -6.459 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 2
+ATOM 2909 C CA . VAL C 1 39 ? -12.375 5.820 -5.959 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 2
+ATOM 2910 C C . VAL C 1 39 ? -13.666 5.283 -6.580 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 2
+ATOM 2911 O O . VAL C 1 39 ? -13.755 5.124 -7.797 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 2
+ATOM 2912 C CB . VAL C 1 39 ? -12.156 7.310 -6.230 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 2
+ATOM 2913 C CG1 . VAL C 1 39 ? -10.683 7.686 -6.062 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 2
+ATOM 2914 C CG2 . VAL C 1 39 ? -12.665 7.695 -7.620 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 2
+ATOM 2915 H H . VAL C 1 39 ? -11.061 5.162 -7.435 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 2
+ATOM 2916 H HA . VAL C 1 39 ? -12.419 5.676 -4.880 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 2
+ATOM 2917 H HB . VAL C 1 39 ? -12.732 7.872 -5.495 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 2
+ATOM 2918 H HG11 . VAL C 1 39 ? -10.150 6.864 -5.585 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 2
+ATOM 2919 H HG12 . VAL C 1 39 ? -10.245 7.885 -7.040 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 2
+ATOM 2920 H HG13 . VAL C 1 39 ? -10.604 8.578 -5.441 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 2
+ATOM 2921 H HG21 . VAL C 1 39 ? -13.753 7.761 -7.603 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 2
+ATOM 2922 H HG22 . VAL C 1 39 ? -12.247 8.660 -7.906 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 2
+ATOM 2923 H HG23 . VAL C 1 39 ? -12.359 6.938 -8.342 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 2
+ATOM 2924 N N . VAL C 1 40 ? -14.636 5.018 -5.716 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 2
+ATOM 2925 C CA . VAL C 1 40 ? -15.918 4.503 -6.165 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 2
+ATOM 2926 C C . VAL C 1 40 ? -17.043 5.302 -5.505 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 2
+ATOM 2927 O O . VAL C 1 40 ? -17.205 5.262 -4.286 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 2
+ATOM 2928 C CB . VAL C 1 40 ? -16.005 3.001 -5.883 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 2
+ATOM 2929 C CG1 . VAL C 1 40 ? -15.354 2.656 -4.543 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 2
+ATOM 2930 C CG2 . VAL C 1 40 ? -17.457 2.519 -5.929 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 2
+ATOM 2931 H H . VAL C 1 40 ? -14.555 5.151 -4.728 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 2
+ATOM 2932 H HA . VAL C 1 40 ? -15.971 4.648 -7.244 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 2
+ATOM 2933 H HB . VAL C 1 40 ? -15.455 2.481 -6.667 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 2
+ATOM 2934 H HG11 . VAL C 1 40 ? -14.342 2.290 -4.714 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 2
+ATOM 2935 H HG12 . VAL C 1 40 ? -15.317 3.548 -3.917 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 2
+ATOM 2936 H HG13 . VAL C 1 40 ? -15.940 1.885 -4.042 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 2
+ATOM 2937 H HG21 . VAL C 1 40 ? -17.959 2.959 -6.790 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 2
+ATOM 2938 H HG22 . VAL C 1 40 ? -17.476 1.432 -6.013 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 2
+ATOM 2939 H HG23 . VAL C 1 40 ? -17.969 2.821 -5.015 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 2
+ATOM 2940 N N . ILE C 1 41 ? -17.792 6.008 -6.338 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 2
+ATOM 2941 C CA . ILE C 1 41 ? -18.898 6.815 -5.850 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 2
+ATOM 2942 C C . ILE C 1 41 ? -20.203 6.314 -6.472 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 2
+ATOM 2943 O O . ILE C 1 41 ? -20.299 6.172 -7.690 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 2
+ATOM 2944 C CB . ILE C 1 41 ? -18.628 8.300 -6.100 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 2
+ATOM 2945 C CG1 . ILE C 1 41 ? -19.859 9.145 -5.765 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 2
+ATOM 2946 C CG2 . ILE C 1 41 ? -18.144 8.536 -7.532 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 2
+ATOM 2947 C CD1 . ILE C 1 41 ? -19.468 10.599 -5.492 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 2
+ATOM 2948 H H . ILE C 1 41 ? -17.654 6.035 -7.328 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 2
+ATOM 2949 H HA . ILE C 1 41 ? -18.953 6.675 -4.771 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 2
+ATOM 2950 H HB . ILE C 1 41 ? -17.827 8.619 -5.433 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 2
+ATOM 2951 H HG12 . ILE C 1 41 ? -20.569 9.104 -6.591 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 2
+ATOM 2952 H HG13 . ILE C 1 41 ? -20.362 8.730 -4.892 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 2
+ATOM 2953 H HG21 . ILE C 1 41 ? -18.611 9.438 -7.930 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 2
+ATOM 2954 H HG22 . ILE C 1 41 ? -17.061 8.657 -7.534 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 2
+ATOM 2955 H HG23 . ILE C 1 41 ? -18.415 7.683 -8.153 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 2
+ATOM 2956 H HD11 . ILE C 1 41 ? -19.470 10.780 -4.417 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 2
+ATOM 2957 H HD12 . ILE C 1 41 ? -18.472 10.789 -5.891 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 2
+ATOM 2958 H HD13 . ILE C 1 41 ? -20.185 11.264 -5.973 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 2
+ATOM 2959 N N . ALA C 1 42 ? -21.174 6.060 -5.608 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 2
+ATOM 2960 C CA . ALA C 1 42 ? -22.469 5.577 -6.057 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 2
+ATOM 2961 C C . ALA C 1 42 ? -23.573 6.401 -5.392 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 2
+ATOM 2962 O O . ALA C 1 42 ? -24.135 5.989 -4.379 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 2
+ATOM 2963 C CB . ALA C 1 42 ? -22.591 4.083 -5.752 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 2
+ATOM 2964 H H . ALA C 1 42 ? -21.087 6.178 -4.619 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 2
+ATOM 2965 H HA . ALA C 1 42 ? -22.520 5.721 -7.136 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 2
+ATOM 2966 H HB1 . ALA C 1 42 ? -23.518 3.898 -5.209 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 2
+ATOM 2967 H HB2 . ALA C 1 42 ? -22.598 3.521 -6.685 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 2
+ATOM 2968 H HB3 . ALA C 1 42 ? -21.745 3.766 -5.143 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 2
+ATOM 2969 N N . LEU D 1 17 ? -15.169 -4.416 -16.636 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 2
+ATOM 2970 C CA . LEU D 1 17 ? -14.066 -3.497 -16.410 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 2
+ATOM 2971 C C . LEU D 1 17 ? -12.840 -4.285 -15.943 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 2
+ATOM 2972 O O . LEU D 1 17 ? -12.498 -4.264 -14.762 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 2
+ATOM 2973 C CB . LEU D 1 17 ? -14.484 -2.383 -15.449 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 2
+ATOM 2974 C CG . LEU D 1 17 ? -13.940 -0.988 -15.763 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 2
+ATOM 2975 C CD1 . LEU D 1 17 ? -12.454 -1.047 -16.125 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 2
+ATOM 2976 C CD2 . LEU D 1 17 ? -14.769 -0.308 -16.854 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 2
+ATOM 2977 H H . LEU D 1 17 ? -15.676 -4.676 -15.814 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 2
+ATOM 2978 H HA . LEU D 1 17 ? -13.831 -3.028 -17.366 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 2
+ATOM 2979 H HB2 . LEU D 1 17 ? -15.572 -2.332 -15.435 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 2
+ATOM 2980 H HB3 . LEU D 1 17 ? -14.165 -2.658 -14.444 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 2
+ATOM 2981 H HG . LEU D 1 17 ? -14.028 -0.377 -14.864 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 2
+ATOM 2982 H HD11 . LEU D 1 17 ? -12.347 -1.100 -17.208 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 2
+ATOM 2983 H HD12 . LEU D 1 17 ? -11.954 -0.153 -15.753 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 2
+ATOM 2984 H HD13 . LEU D 1 17 ? -12.005 -1.930 -15.672 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 2
+ATOM 2985 H HD21 . LEU D 1 17 ? -15.827 -0.504 -16.681 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 2
+ATOM 2986 H HD22 . LEU D 1 17 ? -14.590 0.767 -16.831 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 2
+ATOM 2987 H HD23 . LEU D 1 17 ? -14.481 -0.703 -17.828 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 2
+ATOM 2988 N N . VAL D 1 18 ? -12.212 -4.961 -16.894 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 2
+ATOM 2989 C CA . VAL D 1 18 ? -11.032 -5.753 -16.595 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 2
+ATOM 2990 C C . VAL D 1 18 ? -9.793 -5.044 -17.146 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 2
+ATOM 2991 O O . VAL D 1 18 ? -9.657 -4.877 -18.357 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 2
+ATOM 2992 C CB . VAL D 1 18 ? -11.202 -7.172 -17.142 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 2
+ATOM 2993 C CG1 . VAL D 1 18 ? -9.897 -7.963 -17.029 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 2
+ATOM 2994 C CG2 . VAL D 1 18 ? -12.347 -7.899 -16.434 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 2
+ATOM 2995 H H . VAL D 1 18 ? -12.497 -4.972 -17.853 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 2
+ATOM 2996 H HA . VAL D 1 18 ? -10.946 -5.818 -15.510 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 2
+ATOM 2997 H HB . VAL D 1 18 ? -11.456 -7.095 -18.199 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 2
+ATOM 2998 H HG11 . VAL D 1 18 ? -10.108 -9.028 -17.128 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 2
+ATOM 2999 H HG12 . VAL D 1 18 ? -9.214 -7.653 -17.820 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 2
+ATOM 3000 H HG13 . VAL D 1 18 ? -9.439 -7.772 -16.058 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 2
+ATOM 3001 H HG21 . VAL D 1 18 ? -12.016 -8.226 -15.448 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 2
+ATOM 3002 H HG22 . VAL D 1 18 ? -13.195 -7.223 -16.327 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 2
+ATOM 3003 H HG23 . VAL D 1 18 ? -12.645 -8.767 -17.023 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 2
+ATOM 3004 N N . PHE D 1 19 ? -8.922 -4.647 -16.230 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 2
+ATOM 3005 C CA . PHE D 1 19 ? -7.699 -3.960 -16.609 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 2
+ATOM 3006 C C . PHE D 1 19 ? -6.469 -4.683 -16.057 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 2
+ATOM 3007 O O . PHE D 1 19 ? -6.300 -4.790 -14.843 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 2
+ATOM 3008 C CB . PHE D 1 19 ? -7.767 -2.558 -16.001 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 2
+ATOM 3009 C CG . PHE D 1 19 ? -7.274 -1.450 -16.933 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 2
+ATOM 3010 C CD1 . PHE D 1 19 ? -5.950 -1.350 -17.230 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 2
+ATOM 3011 C CD2 . PHE D 1 19 ? -8.159 -0.565 -17.466 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 2
+ATOM 3012 C CE1 . PHE D 1 19 ? -5.493 -0.321 -18.096 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 2
+ATOM 3013 C CE2 . PHE D 1 19 ? -7.701 0.463 -18.332 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 2
+ATOM 3014 C CZ . PHE D 1 19 ? -6.378 0.563 -18.629 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 2
+ATOM 3015 H H . PHE D 1 19 ? -9.040 -4.787 -15.247 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 2
+ATOM 3016 H HA . PHE D 1 19 ? -7.656 -3.953 -17.698 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 2
+ATOM 3017 H HB2 . PHE D 1 19 ? -8.797 -2.346 -15.715 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 2
+ATOM 3018 H HB3 . PHE D 1 19 ? -7.173 -2.540 -15.087 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 2
+ATOM 3019 H HD1 . PHE D 1 19 ? -5.241 -2.059 -16.804 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 2
+ATOM 3020 H HD2 . PHE D 1 19 ? -9.220 -0.645 -17.228 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 2
+ATOM 3021 H HE1 . PHE D 1 19 ? -4.432 -0.241 -18.334 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 2
+ATOM 3022 H HE2 . PHE D 1 19 ? -8.411 1.172 -18.759 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 2
+ATOM 3023 H HZ . PHE D 1 19 ? -6.026 1.352 -19.293 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 2
+ATOM 3024 N N . PHE D 1 20 ? -5.643 -5.162 -16.975 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 2
+ATOM 3025 C CA . PHE D 1 20 ? -4.433 -5.873 -16.595 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 2
+ATOM 3026 C C . PHE D 1 20 ? -3.187 -5.139 -17.093 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 2
+ATOM 3027 O O . PHE D 1 20 ? -3.015 -4.944 -18.295 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 2
+ATOM 3028 C CB . PHE D 1 20 ? -4.498 -7.251 -17.257 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 2
+ATOM 3029 C CG . PHE D 1 20 ? -4.399 -8.419 -16.274 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 2
+ATOM 3030 C CD1 . PHE D 1 20 ? -5.471 -8.754 -15.506 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 2
+ATOM 3031 C CD2 . PHE D 1 20 ? -3.240 -9.122 -16.167 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 2
+ATOM 3032 C CE1 . PHE D 1 20 ? -5.379 -9.838 -14.594 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 2
+ATOM 3033 C CE2 . PHE D 1 20 ? -3.148 -10.206 -15.254 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 2
+ATOM 3034 C CZ . PHE D 1 20 ? -4.220 -10.541 -14.487 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 2
+ATOM 3035 H H . PHE D 1 20 ? -5.787 -5.071 -17.960 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 2
+ATOM 3036 H HA . PHE D 1 20 ? -4.415 -5.920 -15.506 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 2
+ATOM 3037 H HB2 . PHE D 1 20 ? -5.433 -7.333 -17.811 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 2
+ATOM 3038 H HB3 . PHE D 1 20 ? -3.689 -7.332 -17.984 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 2
+ATOM 3039 H HD1 . PHE D 1 20 ? -6.400 -8.191 -15.592 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 2
+ATOM 3040 H HD2 . PHE D 1 20 ? -2.381 -8.853 -16.782 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 2
+ATOM 3041 H HE1 . PHE D 1 20 ? -6.238 -10.107 -13.979 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 2
+ATOM 3042 H HE2 . PHE D 1 20 ? -2.219 -10.769 -15.169 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 2
+ATOM 3043 H HZ . PHE D 1 20 ? -4.149 -11.373 -13.787 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 2
+ATOM 3044 N N . ALA D 1 21 ? -2.348 -4.751 -16.142 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 2
+ATOM 3045 C CA . ALA D 1 21 ? -1.123 -4.043 -16.469 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 2
+ATOM 3046 C C . ALA D 1 21 ? 0.067 -4.779 -15.849 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 2
+ATOM 3047 O O . ALA D 1 21 ? 0.157 -4.903 -14.628 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 2
+ATOM 3048 C CB . ALA D 1 21 ? -1.227 -2.594 -15.990 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 2
+ATOM 3049 H H . ALA D 1 21 ? -2.496 -4.914 -15.167 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 2
+ATOM 3050 H HA . ALA D 1 21 ? -1.016 -4.047 -17.554 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 2
+ATOM 3051 H HB1 . ALA D 1 21 ? -0.741 -1.937 -16.711 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 2
+ATOM 3052 H HB2 . ALA D 1 21 ? -2.277 -2.317 -15.896 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 2
+ATOM 3053 H HB3 . ALA D 1 21 ? -0.737 -2.496 -15.021 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 2
+ATOM 3054 N N . GLU D 1 22 ? 0.951 -5.247 -16.718 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 2
+ATOM 3055 C CA . GLU D 1 22 ? 2.131 -5.966 -16.271 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 2
+ATOM 3056 C C . GLU D 1 22 ? 3.396 -5.314 -16.833 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 2
+ATOM 3057 O O . GLU D 1 22 ? 3.423 -4.902 -17.992 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 2
+ATOM 3058 C CB . GLU D 1 22 ? 2.055 -7.443 -16.664 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 2
+ATOM 3059 C CG . GLU D 1 22 ? 2.257 -8.346 -15.445 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 2
+ATOM 3060 C CD . GLU D 1 22 ? 3.080 -9.583 -15.810 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 2
+ATOM 3061 O OE1 . GLU D 1 22 ? 4.198 -9.387 -16.333 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 2
+ATOM 3062 O OE2 . GLU D 1 22 ? 2.572 -10.697 -15.558 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 2
+ATOM 3063 H H . GLU D 1 22 ? 0.871 -5.141 -17.709 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 2
+ATOM 3064 H HA . GLU D 1 22 ? 2.125 -5.885 -15.184 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 2
+ATOM 3065 H HB2 . GLU D 1 22 ? 1.087 -7.652 -17.119 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 2
+ATOM 3066 H HB3 . GLU D 1 22 ? 2.814 -7.663 -17.414 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 2
+ATOM 3067 H HG2 . GLU D 1 22 ? 2.761 -7.789 -14.655 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 2
+ATOM 3068 H HG3 . GLU D 1 22 ? 1.288 -8.652 -15.050 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 2
+ATOM 3069 N N . ASP D 1 23 ? 4.412 -5.241 -15.987 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 2
+ATOM 3070 C CA . ASP D 1 23 ? 5.677 -4.646 -16.385 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 2
+ATOM 3071 C C . ASP D 1 23 ? 6.828 -5.481 -15.822 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 2
+ATOM 3072 O O . ASP D 1 23 ? 6.855 -5.784 -14.630 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 2
+ATOM 3073 C CB . ASP D 1 23 ? 5.812 -3.224 -15.838 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 2
+ATOM 3074 C CG . ASP D 1 23 ? 7.016 -2.440 -16.366 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 2
+ATOM 3075 O OD1 . ASP D 1 23 ? 7.652 -2.948 -17.314 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 2
+ATOM 3076 O OD2 . ASP D 1 23 ? 7.272 -1.351 -15.809 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 2
+ATOM 3077 H H . ASP D 1 23 ? 4.382 -5.579 -15.046 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 2
+ATOM 3078 H HA . ASP D 1 23 ? 5.660 -4.640 -17.475 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 2
+ATOM 3079 H HB2 . ASP D 1 23 ? 4.904 -2.670 -16.078 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 2
+ATOM 3080 H HB3 . ASP D 1 23 ? 5.878 -3.273 -14.751 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 2
+ATOM 3081 N N . VAL D 1 24 ? 7.752 -5.829 -16.706 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 2
+ATOM 3082 C CA . VAL D 1 24 ? 8.903 -6.623 -16.311 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 2
+ATOM 3083 C C . VAL D 1 24 ? 10.181 -5.815 -16.550 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 2
+ATOM 3084 O O . VAL D 1 24 ? 10.599 -5.631 -17.692 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 2
+ATOM 3085 C CB . VAL D 1 24 ? 8.895 -7.961 -17.053 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 2
+ATOM 3086 C CG1 . VAL D 1 24 ? 10.200 -8.726 -16.819 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 2
+ATOM 3087 C CG2 . VAL D 1 24 ? 7.685 -8.805 -16.648 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 2
+ATOM 3088 H H . VAL D 1 24 ? 7.723 -5.578 -17.673 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 2
+ATOM 3089 H HA . VAL D 1 24 ? 8.812 -6.828 -15.245 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 2
+ATOM 3090 H HB . VAL D 1 24 ? 8.816 -7.752 -18.120 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 2
+ATOM 3091 H HG11 . VAL D 1 24 ? 11.032 -8.161 -17.240 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 2
+ATOM 3092 H HG12 . VAL D 1 24 ? 10.356 -8.859 -15.749 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 2
+ATOM 3093 H HG13 . VAL D 1 24 ? 10.141 -9.701 -17.303 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 2
+ATOM 3094 H HG21 . VAL D 1 24 ? 6.862 -8.148 -16.366 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 2
+ATOM 3095 H HG22 . VAL D 1 24 ? 7.380 -9.429 -17.488 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 2
+ATOM 3096 H HG23 . VAL D 1 24 ? 7.950 -9.439 -15.802 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 2
+ATOM 3097 N N . GLY D 1 25 ? 10.765 -5.354 -15.454 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 2
+ATOM 3098 C CA . GLY D 1 25 ? 11.986 -4.570 -15.530 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 2
+ATOM 3099 C C . GLY D 1 25 ? 13.161 -5.323 -14.902 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 2
+ATOM 3100 O O . GLY D 1 25 ? 13.321 -5.325 -13.683 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 2
+ATOM 3101 H H . GLY D 1 25 ? 10.418 -5.509 -14.529 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 2
+ATOM 3102 H HA2 . GLY D 1 25 ? 12.211 -4.341 -16.571 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 2
+ATOM 3103 H HA3 . GLY D 1 25 ? 11.844 -3.619 -15.017 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 2
+ATOM 3104 N N . SER D 1 26 ? 13.952 -5.945 -15.764 1.00 0.00 ? ? ? ? ? ? 26 SER D N 2
+ATOM 3105 C CA . SER D 1 26 ? 15.108 -6.699 -15.310 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 2
+ATOM 3106 C C . SER D 1 26 ? 16.316 -5.772 -15.167 1.00 0.00 ? ? ? ? ? ? 26 SER D C 2
+ATOM 3107 O O . SER D 1 26 ? 16.841 -5.272 -16.161 1.00 0.00 ? ? ? ? ? ? 26 SER D O 2
+ATOM 3108 C CB . SER D 1 26 ? 15.430 -7.846 -16.271 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 2
+ATOM 3109 O OG . SER D 1 26 ? 16.153 -8.893 -15.630 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 2
+ATOM 3110 H H . SER D 1 26 ? 13.815 -5.938 -16.755 1.00 0.00 ? ? ? ? ? ? 26 SER D H 2
+ATOM 3111 H HA . SER D 1 26 ? 14.822 -7.108 -14.340 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 2
+ATOM 3112 H HB2 . SER D 1 26 ? 14.503 -8.245 -16.683 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 2
+ATOM 3113 H HB3 . SER D 1 26 ? 16.012 -7.463 -17.109 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 2
+ATOM 3114 H HG . SER D 1 26 ? 16.034 -8.833 -14.639 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 2
+ATOM 3115 N N . ASN D 1 27 ? 16.722 -5.569 -13.922 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 2
+ATOM 3116 C CA . ASN D 1 27 ? 17.858 -4.710 -13.636 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 2
+ATOM 3117 C C . ASN D 1 27 ? 17.430 -3.246 -13.762 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 2
+ATOM 3118 O O . ASN D 1 27 ? 18.153 -2.432 -14.334 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 2
+ATOM 3119 C CB . ASN D 1 27 ? 18.998 -4.956 -14.626 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 2
+ATOM 3120 C CG . ASN D 1 27 ? 20.336 -4.492 -14.048 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 2
+ATOM 3121 O OD1 . ASN D 1 27 ? 20.756 -4.903 -12.979 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 2
+ATOM 3122 N ND2 . ASN D 1 27 ? 20.980 -3.614 -14.813 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 2
+ATOM 3123 H H . ASN D 1 27 ? 16.289 -5.979 -13.119 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 2
+ATOM 3124 H HA . ASN D 1 27 ? 18.165 -4.969 -12.622 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 2
+ATOM 3125 H HB2 . ASN D 1 27 ? 19.051 -6.018 -14.868 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 2
+ATOM 3126 H HB3 . ASN D 1 27 ? 18.796 -4.427 -15.557 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 2
+ATOM 3127 H HD21 . ASN D 1 27 ? 20.580 -3.318 -15.680 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 2
+ATOM 3128 H HD22 . ASN D 1 27 ? 21.865 -3.251 -14.521 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 2
+ATOM 3129 N N . LYS D 1 28 ? 16.257 -2.957 -13.218 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 2
+ATOM 3130 C CA . LYS D 1 28 ? 15.724 -1.606 -13.263 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 2
+ATOM 3131 C C . LYS D 1 28 ? 16.745 -0.640 -12.659 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 2
+ATOM 3132 O O . LYS D 1 28 ? 17.595 -1.044 -11.867 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 2
+ATOM 3133 C CB . LYS D 1 28 ? 14.351 -1.549 -12.591 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 2
+ATOM 3134 C CG . LYS D 1 28 ? 13.274 -2.157 -13.492 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 2
+ATOM 3135 C CD . LYS D 1 28 ? 12.050 -2.577 -12.676 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 2
+ATOM 3136 C CE . LYS D 1 28 ? 10.930 -1.540 -12.794 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 2
+ATOM 3137 N NZ . LYS D 1 28 ? 9.643 -2.114 -12.341 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 2
+ATOM 3138 H H . LYS D 1 28 ? 15.675 -3.626 -12.755 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 2
+ATOM 3139 H HA . LYS D 1 28 ? 15.581 -1.346 -14.312 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 2
+ATOM 3140 H HB2 . LYS D 1 28 ? 14.383 -2.086 -11.643 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 2
+ATOM 3141 H HB3 . LYS D 1 28 ? 14.097 -0.514 -12.361 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 2
+ATOM 3142 H HG2 . LYS D 1 28 ? 12.979 -1.432 -14.251 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 2
+ATOM 3143 H HG3 . LYS D 1 28 ? 13.679 -3.021 -14.017 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 2
+ATOM 3144 H HD2 . LYS D 1 28 ? 11.691 -3.546 -13.023 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 2
+ATOM 3145 H HD3 . LYS D 1 28 ? 12.329 -2.697 -11.629 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 2
+ATOM 3146 H HE2 . LYS D 1 28 ? 11.175 -0.662 -12.196 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 2
+ATOM 3147 H HE3 . LYS D 1 28 ? 10.843 -1.207 -13.828 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 2
+ATOM 3148 H HZ1 . LYS D 1 28 ? 9.269 -1.551 -11.603 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 2
+ATOM 3149 H HZ2 . LYS D 1 28 ? 8.999 -2.133 -13.105 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 2
+ATOM 3150 H HZ3 . LYS D 1 28 ? 9.792 -3.045 -12.007 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 2
+ATOM 3151 N N . GLY D 1 29 ? 16.628 0.619 -13.056 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 2
+ATOM 3152 C CA . GLY D 1 29 ? 17.530 1.646 -12.564 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 2
+ATOM 3153 C C . GLY D 1 29 ? 17.248 2.991 -13.236 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 2
+ATOM 3154 O O . GLY D 1 29 ? 18.133 3.575 -13.860 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 2
+ATOM 3155 H H . GLY D 1 29 ? 15.934 0.940 -13.701 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 2
+ATOM 3156 H HA2 . GLY D 1 29 ? 17.420 1.745 -11.484 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 2
+ATOM 3157 H HA3 . GLY D 1 29 ? 18.562 1.350 -12.753 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 2
+ATOM 3158 N N . ALA D 1 30 ? 16.012 3.444 -13.086 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 2
+ATOM 3159 C CA . ALA D 1 30 ? 15.603 4.710 -13.671 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 2
+ATOM 3160 C C . ALA D 1 30 ? 14.372 5.235 -12.930 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 2
+ATOM 3161 O O . ALA D 1 30 ? 14.122 4.855 -11.787 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 2
+ATOM 3162 C CB . ALA D 1 30 ? 15.347 4.522 -15.168 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 2
+ATOM 3163 H H . ALA D 1 30 ? 15.299 2.964 -12.577 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 2
+ATOM 3164 H HA . ALA D 1 30 ? 16.423 5.416 -13.541 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 2
+ATOM 3165 H HB1 . ALA D 1 30 ? 14.280 4.614 -15.368 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 2
+ATOM 3166 H HB2 . ALA D 1 30 ? 15.889 5.284 -15.728 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 2
+ATOM 3167 H HB3 . ALA D 1 30 ? 15.691 3.534 -15.474 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 2
+ATOM 3168 N N . ILE D 1 31 ? 13.634 6.099 -13.612 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 2
+ATOM 3169 C CA . ILE D 1 31 ? 12.435 6.680 -13.033 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 2
+ATOM 3170 C C . ILE D 1 31 ? 11.207 5.934 -13.559 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 2
+ATOM 3171 O O . ILE D 1 31 ? 10.835 6.086 -14.722 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 2
+ATOM 3172 C CB . ILE D 1 31 ? 12.393 8.188 -13.287 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 2
+ATOM 3173 C CG1 . ILE D 1 31 ? 13.642 8.873 -12.728 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 2
+ATOM 3174 C CG2 . ILE D 1 31 ? 11.107 8.802 -12.732 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 2
+ATOM 3175 C CD1 . ILE D 1 31 ? 13.622 10.374 -13.020 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 2
+ATOM 3176 H H . ILE D 1 31 ? 13.845 6.403 -14.541 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 2
+ATOM 3177 H HA . ILE D 1 31 ? 12.490 6.536 -11.954 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 2
+ATOM 3178 H HB . ILE D 1 31 ? 12.391 8.353 -14.364 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 2
+ATOM 3179 H HG12 . ILE D 1 31 ? 13.701 8.709 -11.652 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 2
+ATOM 3180 H HG13 . ILE D 1 31 ? 14.534 8.425 -13.167 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 2
+ATOM 3181 H HG21 . ILE D 1 31 ? 11.349 9.693 -12.152 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 2
+ATOM 3182 H HG22 . ILE D 1 31 ? 10.449 9.075 -13.557 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 2
+ATOM 3183 H HG23 . ILE D 1 31 ? 10.605 8.077 -12.092 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 2
+ATOM 3184 H HD11 . ILE D 1 31 ? 13.535 10.926 -12.084 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 2
+ATOM 3185 H HD12 . ILE D 1 31 ? 14.545 10.659 -13.525 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 2
+ATOM 3186 H HD13 . ILE D 1 31 ? 12.771 10.608 -13.660 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 2
+ATOM 3187 N N . ILE D 1 32 ? 10.612 5.144 -12.678 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 2
+ATOM 3188 C CA . ILE D 1 32 ? 9.434 4.374 -13.039 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 2
+ATOM 3189 C C . ILE D 1 32 ? 8.221 4.921 -12.285 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 2
+ATOM 3190 O O . ILE D 1 32 ? 8.251 5.048 -11.062 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 2
+ATOM 3191 C CB . ILE D 1 32 ? 9.678 2.881 -12.809 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 2
+ATOM 3192 C CG1 . ILE D 1 32 ? 8.392 2.175 -12.375 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 2
+ATOM 3193 C CG2 . ILE D 1 32 ? 10.818 2.659 -11.814 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 2
+ATOM 3194 C CD1 . ILE D 1 32 ? 7.354 2.187 -13.499 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 2
+ATOM 3195 H H . ILE D 1 32 ? 10.921 5.026 -11.734 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 2
+ATOM 3196 H HA . ILE D 1 32 ? 9.268 4.512 -14.107 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 2
+ATOM 3197 H HB . ILE D 1 32 ? 9.986 2.436 -13.756 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 2
+ATOM 3198 H HG12 . ILE D 1 32 ? 8.616 1.146 -12.093 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 2
+ATOM 3199 H HG13 . ILE D 1 32 ? 7.984 2.666 -11.492 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 2
+ATOM 3200 H HG21 . ILE D 1 32 ? 11.702 3.204 -12.146 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 2
+ATOM 3201 H HG22 . ILE D 1 32 ? 10.517 3.019 -10.830 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 2
+ATOM 3202 H HG23 . ILE D 1 32 ? 11.048 1.595 -11.756 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 2
+ATOM 3203 H HD11 . ILE D 1 32 ? 6.633 2.985 -13.319 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 2
+ATOM 3204 H HD12 . ILE D 1 32 ? 7.853 2.357 -14.453 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 2
+ATOM 3205 H HD13 . ILE D 1 32 ? 6.836 1.228 -13.525 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 2
+ATOM 3206 N N . GLY D 1 33 ? 7.181 5.231 -13.046 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 2
+ATOM 3207 C CA . GLY D 1 33 ? 5.960 5.762 -12.464 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 2
+ATOM 3208 C C . GLY D 1 33 ? 4.768 4.851 -12.764 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 2
+ATOM 3209 O O . GLY D 1 33 ? 4.214 4.888 -13.862 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 2
+ATOM 3210 H H . GLY D 1 33 ? 7.164 5.124 -14.040 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 2
+ATOM 3211 H HA2 . GLY D 1 33 ? 6.081 5.865 -11.386 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 2
+ATOM 3212 H HA3 . GLY D 1 33 ? 5.768 6.759 -12.860 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 2
+ATOM 3213 N N . LEU D 1 34 ? 4.409 4.053 -11.769 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 2
+ATOM 3214 C CA . LEU D 1 34 ? 3.293 3.133 -11.913 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 2
+ATOM 3215 C C . LEU D 1 34 ? 2.007 3.822 -11.451 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 2
+ATOM 3216 O O . LEU D 1 34 ? 1.699 3.836 -10.261 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 2
+ATOM 3217 C CB . LEU D 1 34 ? 3.583 1.820 -11.183 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 2
+ATOM 3218 C CG . LEU D 1 34 ? 3.248 0.539 -11.949 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 2
+ATOM 3219 C CD1 . LEU D 1 34 ? 4.237 -0.578 -11.609 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 2
+ATOM 3220 C CD2 . LEU D 1 34 ? 1.798 0.116 -11.702 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 2
+ATOM 3221 H H . LEU D 1 34 ? 4.865 4.028 -10.880 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 2
+ATOM 3222 H HA . LEU D 1 34 ? 3.198 2.899 -12.973 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 2
+ATOM 3223 H HB2 . LEU D 1 34 ? 4.641 1.798 -10.923 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 2
+ATOM 3224 H HB3 . LEU D 1 34 ? 3.025 1.817 -10.247 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 2
+ATOM 3225 H HG . LEU D 1 34 ? 3.346 0.742 -13.015 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 2
+ATOM 3226 H HD11 . LEU D 1 34 ? 5.255 -0.211 -11.732 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 2
+ATOM 3227 H HD12 . LEU D 1 34 ? 4.087 -0.894 -10.576 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 2
+ATOM 3228 H HD13 . LEU D 1 34 ? 4.072 -1.424 -12.275 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 2
+ATOM 3229 H HD21 . LEU D 1 34 ? 1.192 0.999 -11.498 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 2
+ATOM 3230 H HD22 . LEU D 1 34 ? 1.413 -0.393 -12.585 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 2
+ATOM 3231 H HD23 . LEU D 1 34 ? 1.757 -0.559 -10.847 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 2
+ATOM 3232 N N . MET D 1 35 ? 1.292 4.378 -12.418 1.00 0.00 ? ? ? ? ? ? 35 MET D N 2
+ATOM 3233 C CA . MET D 1 35 ? 0.046 5.067 -12.126 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 2
+ATOM 3234 C C . MET D 1 35 ? -1.148 4.319 -12.722 1.00 0.00 ? ? ? ? ? ? 35 MET D C 2
+ATOM 3235 O O . MET D 1 35 ? -1.209 4.102 -13.931 1.00 0.00 ? ? ? ? ? ? 35 MET D O 2
+ATOM 3236 C CB . MET D 1 35 ? 0.099 6.484 -12.701 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 2
+ATOM 3237 C CG . MET D 1 35 ? 0.715 7.461 -11.697 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 2
+ATOM 3238 S SD . MET D 1 35 ? -0.519 8.624 -11.141 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 2
+ATOM 3239 C CE . MET D 1 35 ? 0.433 10.133 -11.190 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 2
+ATOM 3240 H H . MET D 1 35 ? 1.549 4.363 -13.384 1.00 0.00 ? ? ? ? ? ? 35 MET D H 2
+ATOM 3241 H HA . MET D 1 35 ? -0.031 5.083 -11.039 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 2
+ATOM 3242 H HB2 . MET D 1 35 ? 0.684 6.485 -13.621 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 2
+ATOM 3243 H HB3 . MET D 1 35 ? -0.907 6.812 -12.963 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 2
+ATOM 3244 H HG2 . MET D 1 35 ? 1.120 6.913 -10.846 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 2
+ATOM 3245 H HG3 . MET D 1 35 ? 1.547 7.993 -12.158 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 2
+ATOM 3246 H HE1 . MET D 1 35 ? 1.190 10.111 -10.406 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 2
+ATOM 3247 H HE2 . MET D 1 35 ? 0.919 10.225 -12.161 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 2
+ATOM 3248 H HE3 . MET D 1 35 ? -0.228 10.985 -11.032 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 2
+ATOM 3249 N N . VAL D 1 36 ? -2.067 3.944 -11.845 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 2
+ATOM 3250 C CA . VAL D 1 36 ? -3.256 3.224 -12.269 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 2
+ATOM 3251 C C . VAL D 1 36 ? -4.499 3.954 -11.756 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 2
+ATOM 3252 O O . VAL D 1 36 ? -4.838 3.858 -10.578 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 2
+ATOM 3253 C CB . VAL D 1 36 ? -3.182 1.769 -11.801 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 2
+ATOM 3254 C CG1 . VAL D 1 36 ? -2.063 1.017 -12.525 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 2
+ATOM 3255 C CG2 . VAL D 1 36 ? -3.004 1.689 -10.284 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 2
+ATOM 3256 H H . VAL D 1 36 ? -2.010 4.123 -10.863 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 2
+ATOM 3257 H HA . VAL D 1 36 ? -3.272 3.227 -13.359 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 2
+ATOM 3258 H HB . VAL D 1 36 ? -4.127 1.287 -12.053 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 2
+ATOM 3259 H HG11 . VAL D 1 36 ? -1.447 1.726 -13.078 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 2
+ATOM 3260 H HG12 . VAL D 1 36 ? -1.446 0.493 -11.794 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 2
+ATOM 3261 H HG13 . VAL D 1 36 ? -2.498 0.296 -13.217 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 2
+ATOM 3262 H HG21 . VAL D 1 36 ? -3.919 2.021 -9.793 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 2
+ATOM 3263 H HG22 . VAL D 1 36 ? -2.790 0.660 -9.996 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 2
+ATOM 3264 H HG23 . VAL D 1 36 ? -2.176 2.331 -9.981 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 2
+ATOM 3265 N N . GLY D 1 37 ? -5.145 4.667 -12.667 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 2
+ATOM 3266 C CA . GLY D 1 37 ? -6.344 5.413 -12.322 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 2
+ATOM 3267 C C . GLY D 1 37 ? -7.573 4.502 -12.312 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 2
+ATOM 3268 O O . GLY D 1 37 ? -8.014 4.037 -13.362 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 2
+ATOM 3269 H H . GLY D 1 37 ? -4.863 4.740 -13.624 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 2
+ATOM 3270 H HA2 . GLY D 1 37 ? -6.220 5.873 -11.342 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 2
+ATOM 3271 H HA3 . GLY D 1 37 ? -6.492 6.221 -13.038 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 2
+ATOM 3272 N N . GLY D 1 38 ? -8.091 4.273 -11.114 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 2
+ATOM 3273 C CA . GLY D 1 38 ? -9.260 3.426 -10.954 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 2
+ATOM 3274 C C . GLY D 1 38 ? -10.414 4.200 -10.314 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 2
+ATOM 3275 O O . GLY D 1 38 ? -10.496 4.302 -9.091 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 2
+ATOM 3276 H H . GLY D 1 38 ? -7.726 4.655 -10.265 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 2
+ATOM 3277 H HA2 . GLY D 1 38 ? -9.570 3.041 -11.925 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 2
+ATOM 3278 H HA3 . GLY D 1 38 ? -9.008 2.565 -10.335 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 2
+ATOM 3279 N N . VAL D 1 39 ? -11.278 4.727 -11.170 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 2
+ATOM 3280 C CA . VAL D 1 39 ? -12.424 5.489 -10.703 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 2
+ATOM 3281 C C . VAL D 1 39 ? -13.703 4.890 -11.293 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 2
+ATOM 3282 O O . VAL D 1 39 ? -13.718 4.463 -12.446 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 2
+ATOM 3283 C CB . VAL D 1 39 ? -12.243 6.969 -11.047 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 2
+ATOM 3284 C CG1 . VAL D 1 39 ? -13.301 7.826 -10.349 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 2
+ATOM 3285 C CG2 . VAL D 1 39 ? -10.832 7.445 -10.695 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 2
+ATOM 3286 H H . VAL D 1 39 ? -11.204 4.639 -12.163 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 2
+ATOM 3287 H HA . VAL D 1 39 ? -12.461 5.396 -9.618 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 2
+ATOM 3288 H HB . VAL D 1 39 ? -12.376 7.082 -12.122 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 2
+ATOM 3289 H HG11 . VAL D 1 39 ? -13.855 7.213 -9.639 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 2
+ATOM 3290 H HG12 . VAL D 1 39 ? -12.814 8.645 -9.820 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 2
+ATOM 3291 H HG13 . VAL D 1 39 ? -13.988 8.232 -11.093 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 2
+ATOM 3292 H HG21 . VAL D 1 39 ? -10.866 8.494 -10.401 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 2
+ATOM 3293 H HG22 . VAL D 1 39 ? -10.443 6.848 -9.869 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 2
+ATOM 3294 H HG23 . VAL D 1 39 ? -10.183 7.331 -11.563 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 2
+ATOM 3295 N N . VAL D 1 40 ? -14.745 4.879 -10.474 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 2
+ATOM 3296 C CA . VAL D 1 40 ? -16.025 4.340 -10.900 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 2
+ATOM 3297 C C . VAL D 1 40 ? -17.153 5.146 -10.253 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 2
+ATOM 3298 O O . VAL D 1 40 ? -17.244 5.221 -9.028 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 2
+ATOM 3299 C CB . VAL D 1 40 ? -16.097 2.846 -10.578 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 2
+ATOM 3300 C CG1 . VAL D 1 40 ? -15.695 2.577 -9.126 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 2
+ATOM 3301 C CG2 . VAL D 1 40 ? -17.491 2.288 -10.873 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 2
+ATOM 3302 H H . VAL D 1 40 ? -14.724 5.228 -9.537 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 2
+ATOM 3303 H HA . VAL D 1 40 ? -16.087 4.455 -11.982 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 2
+ATOM 3304 H HB . VAL D 1 40 ? -15.386 2.329 -11.223 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 2
+ATOM 3305 H HG11 . VAL D 1 40 ? -15.175 3.448 -8.727 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 2
+ATOM 3306 H HG12 . VAL D 1 40 ? -16.588 2.383 -8.532 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 2
+ATOM 3307 H HG13 . VAL D 1 40 ? -15.036 1.710 -9.086 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 2
+ATOM 3308 H HG21 . VAL D 1 40 ? -17.898 1.831 -9.971 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 2
+ATOM 3309 H HG22 . VAL D 1 40 ? -18.145 3.097 -11.197 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 2
+ATOM 3310 H HG23 . VAL D 1 40 ? -17.423 1.538 -11.661 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 2
+ATOM 3311 N N . ILE D 1 41 ? -17.985 5.728 -11.104 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 2
+ATOM 3312 C CA . ILE D 1 41 ? -19.103 6.525 -10.630 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 2
+ATOM 3313 C C . ILE D 1 41 ? -20.406 5.956 -11.196 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 2
+ATOM 3314 O O . ILE D 1 41 ? -20.481 5.624 -12.379 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 2
+ATOM 3315 C CB . ILE D 1 41 ? -18.884 8.003 -10.959 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 2
+ATOM 3316 C CG1 . ILE D 1 41 ? -19.891 8.885 -10.217 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 2
+ATOM 3317 C CG2 . ILE D 1 41 ? -18.919 8.241 -12.470 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 2
+ATOM 3318 C CD1 . ILE D 1 41 ? -19.513 10.363 -10.329 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 2
+ATOM 3319 H H . ILE D 1 41 ? -17.904 5.662 -12.098 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 2
+ATOM 3320 H HA . ILE D 1 41 ? -19.131 6.437 -9.544 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 2
+ATOM 3321 H HB . ILE D 1 41 ? -17.891 8.287 -10.611 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 2
+ATOM 3322 H HG12 . ILE D 1 41 ? -20.889 8.728 -10.628 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 2
+ATOM 3323 H HG13 . ILE D 1 41 ? -19.930 8.594 -9.167 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 2
+ATOM 3324 H HG21 . ILE D 1 41 ? -18.952 9.312 -12.669 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 2
+ATOM 3325 H HG22 . ILE D 1 41 ? -18.025 7.814 -12.925 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 2
+ATOM 3326 H HG23 . ILE D 1 41 ? -19.804 7.765 -12.892 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 2
+ATOM 3327 H HD11 . ILE D 1 41 ? -19.950 10.914 -9.496 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 2
+ATOM 3328 H HD12 . ILE D 1 41 ? -18.428 10.464 -10.302 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 2
+ATOM 3329 H HD13 . ILE D 1 41 ? -19.892 10.764 -11.269 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 2
+ATOM 3330 N N . ALA D 1 42 ? -21.400 5.860 -10.326 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 2
+ATOM 3331 C CA . ALA D 1 42 ? -22.696 5.336 -10.724 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 2
+ATOM 3332 C C . ALA D 1 42 ? -23.800 6.160 -10.059 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 2
+ATOM 3333 O O . ALA D 1 42 ? -24.355 5.753 -9.040 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 2
+ATOM 3334 C CB . ALA D 1 42 ? -22.779 3.852 -10.364 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 2
+ATOM 3335 H H . ALA D 1 42 ? -21.331 6.132 -9.366 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 2
+ATOM 3336 H HA . ALA D 1 42 ? -22.777 5.441 -11.806 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 2
+ATOM 3337 H HB1 . ALA D 1 42 ? -22.441 3.707 -9.339 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 2
+ATOM 3338 H HB2 . ALA D 1 42 ? -23.811 3.513 -10.458 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 2
+ATOM 3339 H HB3 . ALA D 1 42 ? -22.145 3.278 -11.041 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 2
+ATOM 3340 N N . LEU E 1 17 ? -14.513 -3.643 -21.517 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 2
+ATOM 3341 C CA . LEU E 1 17 ? -13.247 -2.982 -21.250 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 2
+ATOM 3342 C C . LEU E 1 17 ? -12.240 -4.008 -20.727 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 2
+ATOM 3343 O O . LEU E 1 17 ? -12.074 -4.159 -19.517 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 2
+ATOM 3344 C CB . LEU E 1 17 ? -13.452 -1.789 -20.314 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 2
+ATOM 3345 C CG . LEU E 1 17 ? -13.435 -0.408 -20.974 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 2
+ATOM 3346 C CD1 . LEU E 1 17 ? -14.435 0.533 -20.300 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 2
+ATOM 3347 C CD2 . LEU E 1 17 ? -12.020 0.174 -20.991 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 2
+ATOM 3348 H H . LEU E 1 17 ? -15.023 -3.923 -20.703 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 2
+ATOM 3349 H HA . LEU E 1 17 ? -12.878 -2.589 -22.198 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 2
+ATOM 3350 H HB2 . LEU E 1 17 ? -14.406 -1.914 -19.803 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 2
+ATOM 3351 H HB3 . LEU E 1 17 ? -12.675 -1.814 -19.550 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 2
+ATOM 3352 H HG . LEU E 1 17 ? -13.749 -0.522 -22.012 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 2
+ATOM 3353 H HD11 . LEU E 1 17 ? -14.030 0.869 -19.345 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 2
+ATOM 3354 H HD12 . LEU E 1 17 ? -14.612 1.396 -20.942 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 2
+ATOM 3355 H HD13 . LEU E 1 17 ? -15.374 0.006 -20.131 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 2
+ATOM 3356 H HD21 . LEU E 1 17 ? -12.051 1.211 -20.658 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 2
+ATOM 3357 H HD22 . LEU E 1 17 ? -11.382 -0.404 -20.323 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 2
+ATOM 3358 H HD23 . LEU E 1 17 ? -11.621 0.129 -22.005 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 2
+ATOM 3359 N N . VAL E 1 18 ? -11.595 -4.688 -21.663 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 2
+ATOM 3360 C CA . VAL E 1 18 ? -10.609 -5.696 -21.311 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 2
+ATOM 3361 C C . VAL E 1 18 ? -9.238 -5.267 -21.837 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 2
+ATOM 3362 O O . VAL E 1 18 ? -9.023 -5.211 -23.047 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 2
+ATOM 3363 C CB . VAL E 1 18 ? -11.050 -7.064 -21.836 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 2
+ATOM 3364 C CG1 . VAL E 1 18 ? -9.873 -8.042 -21.872 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 2
+ATOM 3365 C CG2 . VAL E 1 18 ? -12.204 -7.625 -21.002 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 2
+ATOM 3366 H H . VAL E 1 18 ? -11.736 -4.560 -22.645 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 2
+ATOM 3367 H HA . VAL E 1 18 ? -10.567 -5.749 -20.223 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 2
+ATOM 3368 H HB . VAL E 1 18 ? -11.407 -6.932 -22.857 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 2
+ATOM 3369 H HG11 . VAL E 1 18 ? -10.235 -9.052 -21.680 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 2
+ATOM 3370 H HG12 . VAL E 1 18 ? -9.400 -8.005 -22.853 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 2
+ATOM 3371 H HG13 . VAL E 1 18 ? -9.147 -7.765 -21.108 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 2
+ATOM 3372 H HG21 . VAL E 1 18 ? -12.054 -8.694 -20.847 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 2
+ATOM 3373 H HG22 . VAL E 1 18 ? -12.235 -7.119 -20.037 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 2
+ATOM 3374 H HG23 . VAL E 1 18 ? -13.144 -7.463 -21.528 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 2
+ATOM 3375 N N . PHE E 1 19 ? -8.346 -4.976 -20.902 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 2
+ATOM 3376 C CA . PHE E 1 19 ? -7.001 -4.554 -21.256 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 2
+ATOM 3377 C C . PHE E 1 19 ? -5.956 -5.508 -20.673 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 2
+ATOM 3378 O O . PHE E 1 19 ? -6.175 -6.107 -19.622 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 2
+ATOM 3379 C CB . PHE E 1 19 ? -6.796 -3.163 -20.654 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 2
+ATOM 3380 C CG . PHE E 1 19 ? -6.541 -2.067 -21.691 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 2
+ATOM 3381 C CD1 . PHE E 1 19 ? -5.271 -1.796 -22.096 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 2
+ATOM 3382 C CD2 . PHE E 1 19 ? -7.585 -1.365 -22.209 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 2
+ATOM 3383 C CE1 . PHE E 1 19 ? -5.035 -0.780 -23.059 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 2
+ATOM 3384 C CE2 . PHE E 1 19 ? -7.348 -0.349 -23.172 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 2
+ATOM 3385 C CZ . PHE E 1 19 ? -6.079 -0.077 -23.576 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 2
+ATOM 3386 H H . PHE E 1 19 ? -8.529 -5.024 -19.920 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 2
+ATOM 3387 H HA . PHE E 1 19 ? -6.934 -4.565 -22.344 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 2
+ATOM 3388 H HB2 . PHE E 1 19 ? -7.676 -2.897 -20.069 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 2
+ATOM 3389 H HB3 . PHE E 1 19 ? -5.953 -3.197 -19.963 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 2
+ATOM 3390 H HD1 . PHE E 1 19 ? -4.435 -2.359 -21.681 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 2
+ATOM 3391 H HD2 . PHE E 1 19 ? -8.602 -1.582 -21.884 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 2
+ATOM 3392 H HE1 . PHE E 1 19 ? -4.017 -0.562 -23.384 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 2
+ATOM 3393 H HE2 . PHE E 1 19 ? -8.184 0.214 -23.586 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 2
+ATOM 3394 H HZ . PHE E 1 19 ? -5.897 0.703 -24.316 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 2
+ATOM 3395 N N . PHE E 1 20 ? -4.842 -5.619 -21.382 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 2
+ATOM 3396 C CA . PHE E 1 20 ? -3.763 -6.490 -20.949 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 2
+ATOM 3397 C C . PHE E 1 20 ? -2.418 -6.011 -21.499 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 2
+ATOM 3398 O O . PHE E 1 20 ? -2.016 -6.404 -22.594 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 2
+ATOM 3399 C CB . PHE E 1 20 ? -4.061 -7.883 -21.505 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 2
+ATOM 3400 C CG . PHE E 1 20 ? -3.622 -9.027 -20.588 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 2
+ATOM 3401 C CD1 . PHE E 1 20 ? -2.309 -9.373 -20.514 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 2
+ATOM 3402 C CD2 . PHE E 1 20 ? -4.545 -9.697 -19.847 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 2
+ATOM 3403 C CE1 . PHE E 1 20 ? -1.901 -10.434 -19.663 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 2
+ATOM 3404 C CE2 . PHE E 1 20 ? -4.137 -10.758 -18.997 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 2
+ATOM 3405 C CZ . PHE E 1 20 ? -2.824 -11.104 -18.922 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 2
+ATOM 3406 H H . PHE E 1 20 ? -4.672 -5.128 -22.237 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 2
+ATOM 3407 H HA . PHE E 1 20 ? -3.739 -6.458 -19.860 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 2
+ATOM 3408 H HB2 . PHE E 1 20 ? -5.133 -7.969 -21.688 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 2
+ATOM 3409 H HB3 . PHE E 1 20 ? -3.564 -7.993 -22.469 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 2
+ATOM 3410 H HD1 . PHE E 1 20 ? -1.569 -8.835 -21.108 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 2
+ATOM 3411 H HD2 . PHE E 1 20 ? -5.597 -9.420 -19.907 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 2
+ATOM 3412 H HE1 . PHE E 1 20 ? -0.849 -10.711 -19.604 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 2
+ATOM 3413 H HE2 . PHE E 1 20 ? -4.876 -11.295 -18.403 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 2
+ATOM 3414 H HZ . PHE E 1 20 ? -2.511 -11.919 -18.269 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 2
+ATOM 3415 N N . ALA E 1 21 ? -1.759 -5.170 -20.715 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 2
+ATOM 3416 C CA . ALA E 1 21 ? -0.468 -4.634 -21.111 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 2
+ATOM 3417 C C . ALA E 1 21 ? 0.643 -5.502 -20.517 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 2
+ATOM 3418 O O . ALA E 1 21 ? 0.548 -5.942 -19.372 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 2
+ATOM 3419 C CB . ALA E 1 21 ? -0.365 -3.173 -20.669 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 2
+ATOM 3420 H H . ALA E 1 21 ? -2.093 -4.856 -19.827 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 2
+ATOM 3421 H HA . ALA E 1 21 ? -0.409 -4.677 -22.198 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 2
+ATOM 3422 H HB1 . ALA E 1 21 ? 0.062 -3.125 -19.667 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 2
+ATOM 3423 H HB2 . ALA E 1 21 ? 0.275 -2.628 -21.363 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 2
+ATOM 3424 H HB3 . ALA E 1 21 ? -1.358 -2.724 -20.663 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 2
+ATOM 3425 N N . GLU E 1 22 ? 1.672 -5.723 -21.322 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 2
+ATOM 3426 C CA . GLU E 1 22 ? 2.800 -6.530 -20.891 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 2
+ATOM 3427 C C . GLU E 1 22 ? 4.110 -5.936 -21.414 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 2
+ATOM 3428 O O . GLU E 1 22 ? 4.521 -6.223 -22.537 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 2
+ATOM 3429 C CB . GLU E 1 22 ? 2.639 -7.983 -21.342 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 2
+ATOM 3430 C CG . GLU E 1 22 ? 3.488 -8.922 -20.483 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 2
+ATOM 3431 C CD . GLU E 1 22 ? 2.634 -10.044 -19.888 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 2
+ATOM 3432 O OE1 . GLU E 1 22 ? 1.768 -10.553 -20.632 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 2
+ATOM 3433 O OE2 . GLU E 1 22 ? 2.867 -10.366 -18.703 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 2
+ATOM 3434 H H . GLU E 1 22 ? 1.742 -5.361 -22.252 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 2
+ATOM 3435 H HA . GLU E 1 22 ? 2.785 -6.491 -19.802 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 2
+ATOM 3436 H HB2 . GLU E 1 22 ? 1.590 -8.274 -21.277 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 2
+ATOM 3437 H HB3 . GLU E 1 22 ? 2.931 -8.078 -22.388 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 2
+ATOM 3438 H HG2 . GLU E 1 22 ? 4.288 -9.350 -21.087 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 2
+ATOM 3439 H HG3 . GLU E 1 22 ? 3.963 -8.357 -19.681 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 2
+ATOM 3440 N N . ASP E 1 23 ? 4.728 -5.118 -20.575 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 2
+ATOM 3441 C CA . ASP E 1 23 ? 5.982 -4.481 -20.938 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 2
+ATOM 3442 C C . ASP E 1 23 ? 7.143 -5.251 -20.304 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 2
+ATOM 3443 O O . ASP E 1 23 ? 7.099 -5.583 -19.121 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 2
+ATOM 3444 C CB . ASP E 1 23 ? 6.036 -3.040 -20.428 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 2
+ATOM 3445 C CG . ASP E 1 23 ? 6.935 -2.101 -21.235 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 2
+ATOM 3446 O OD1 . ASP E 1 23 ? 8.132 -2.436 -21.367 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 2
+ATOM 3447 O OD2 . ASP E 1 23 ? 6.405 -1.070 -21.702 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 2
+ATOM 3448 H H . ASP E 1 23 ? 4.387 -4.890 -19.663 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 2
+ATOM 3449 H HA . ASP E 1 23 ? 6.011 -4.506 -22.027 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 2
+ATOM 3450 H HB2 . ASP E 1 23 ? 5.024 -2.634 -20.423 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 2
+ATOM 3451 H HB3 . ASP E 1 23 ? 6.380 -3.049 -19.394 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 2
+ATOM 3452 N N . VAL E 1 24 ? 8.154 -5.511 -21.120 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 2
+ATOM 3453 C CA . VAL E 1 24 ? 9.324 -6.235 -20.654 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 2
+ATOM 3454 C C . VAL E 1 24 ? 10.587 -5.481 -21.076 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 2
+ATOM 3455 O O . VAL E 1 24 ? 10.988 -5.536 -22.237 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 2
+ATOM 3456 C CB . VAL E 1 24 ? 9.288 -7.675 -21.169 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 2
+ATOM 3457 C CG1 . VAL E 1 24 ? 10.592 -8.407 -20.842 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 2
+ATOM 3458 C CG2 . VAL E 1 24 ? 8.081 -8.428 -20.607 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 2
+ATOM 3459 H H . VAL E 1 24 ? 8.182 -5.237 -22.081 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 2
+ATOM 3460 H HA . VAL E 1 24 ? 9.281 -6.265 -19.565 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 2
+ATOM 3461 H HB . VAL E 1 24 ? 9.186 -7.641 -22.254 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 2
+ATOM 3462 H HG11 . VAL E 1 24 ? 10.381 -9.244 -20.177 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 2
+ATOM 3463 H HG12 . VAL E 1 24 ? 11.040 -8.779 -21.764 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 2
+ATOM 3464 H HG13 . VAL E 1 24 ? 11.282 -7.719 -20.354 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 2
+ATOM 3465 H HG21 . VAL E 1 24 ? 8.408 -9.095 -19.809 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 2
+ATOM 3466 H HG22 . VAL E 1 24 ? 7.359 -7.714 -20.211 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 2
+ATOM 3467 H HG23 . VAL E 1 24 ? 7.616 -9.013 -21.401 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 2
+ATOM 3468 N N . GLY E 1 25 ? 11.178 -4.794 -20.109 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 2
+ATOM 3469 C CA . GLY E 1 25 ? 12.387 -4.029 -20.366 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 2
+ATOM 3470 C C . GLY E 1 25 ? 13.529 -4.488 -19.457 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 2
+ATOM 3471 O O . GLY E 1 25 ? 13.290 -4.998 -18.364 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 2
+ATOM 3472 H H . GLY E 1 25 ? 10.845 -4.754 -19.167 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 2
+ATOM 3473 H HA2 . GLY E 1 25 ? 12.679 -4.144 -21.409 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 2
+ATOM 3474 H HA3 . GLY E 1 25 ? 12.192 -2.969 -20.204 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 2
+ATOM 3475 N N . SER E 1 26 ? 14.745 -4.291 -19.944 1.00 0.00 ? ? ? ? ? ? 26 SER E N 2
+ATOM 3476 C CA . SER E 1 26 ? 15.925 -4.678 -19.190 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 2
+ATOM 3477 C C . SER E 1 26 ? 16.808 -3.455 -18.935 1.00 0.00 ? ? ? ? ? ? 26 SER E C 2
+ATOM 3478 O O . SER E 1 26 ? 16.933 -2.585 -19.796 1.00 0.00 ? ? ? ? ? ? 26 SER E O 2
+ATOM 3479 C CB . SER E 1 26 ? 16.717 -5.761 -19.924 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 2
+ATOM 3480 O OG . SER E 1 26 ? 16.769 -6.979 -19.185 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 2
+ATOM 3481 H H . SER E 1 26 ? 14.931 -3.875 -20.835 1.00 0.00 ? ? ? ? ? ? 26 SER E H 2
+ATOM 3482 H HA . SER E 1 26 ? 15.548 -5.080 -18.249 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 2
+ATOM 3483 H HB2 . SER E 1 26 ? 16.262 -5.947 -20.897 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 2
+ATOM 3484 H HB3 . SER E 1 26 ? 17.731 -5.406 -20.110 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 2
+ATOM 3485 H HG . SER E 1 26 ? 16.368 -7.722 -19.721 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 2
+ATOM 3486 N N . ASN E 1 27 ? 17.399 -3.427 -17.749 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 2
+ATOM 3487 C CA . ASN E 1 27 ? 18.267 -2.325 -17.371 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 2
+ATOM 3488 C C . ASN E 1 27 ? 17.412 -1.146 -16.903 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 2
+ATOM 3489 O O . ASN E 1 27 ? 17.620 -0.617 -15.813 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 2
+ATOM 3490 C CB . ASN E 1 27 ? 19.111 -1.857 -18.558 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 2
+ATOM 3491 C CG . ASN E 1 27 ? 20.562 -1.616 -18.137 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 2
+ATOM 3492 O OD1 . ASN E 1 27 ? 21.404 -2.497 -18.188 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 2
+ATOM 3493 N ND2 . ASN E 1 27 ? 20.806 -0.377 -17.720 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 2
+ATOM 3494 H H . ASN E 1 27 ? 17.292 -4.139 -17.055 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 2
+ATOM 3495 H HA . ASN E 1 27 ? 18.901 -2.720 -16.578 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 2
+ATOM 3496 H HB2 . ASN E 1 27 ? 19.077 -2.604 -19.350 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 2
+ATOM 3497 H HB3 . ASN E 1 27 ? 18.690 -0.938 -18.968 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 2
+ATOM 3498 H HD21 . ASN E 1 27 ? 20.069 0.299 -17.703 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 2
+ATOM 3499 H HD22 . ASN E 1 27 ? 21.726 -0.121 -17.423 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 2
+ATOM 3500 N N . LYS E 1 28 ? 16.467 -0.767 -17.752 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 2
+ATOM 3501 C CA . LYS E 1 28 ? 15.580 0.340 -17.440 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 2
+ATOM 3502 C C . LYS E 1 28 ? 16.379 1.451 -16.757 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 2
+ATOM 3503 O O . LYS E 1 28 ? 16.473 1.490 -15.531 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 2
+ATOM 3504 C CB . LYS E 1 28 ? 14.382 -0.148 -16.622 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 2
+ATOM 3505 C CG . LYS E 1 28 ? 13.196 -0.477 -17.531 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 2
+ATOM 3506 C CD . LYS E 1 28 ? 11.948 -0.803 -16.707 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 2
+ATOM 3507 C CE . LYS E 1 28 ? 10.760 -1.126 -17.615 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 2
+ATOM 3508 N NZ . LYS E 1 28 ? 9.556 -1.424 -16.808 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 2
+ATOM 3509 H H . LYS E 1 28 ? 16.304 -1.203 -18.638 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 2
+ATOM 3510 H HA . LYS E 1 28 ? 15.191 0.723 -18.384 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 2
+ATOM 3511 H HB2 . LYS E 1 28 ? 14.663 -1.032 -16.050 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 2
+ATOM 3512 H HB3 . LYS E 1 28 ? 14.092 0.618 -15.903 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 2
+ATOM 3513 H HG2 . LYS E 1 28 ? 12.991 0.368 -18.188 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 2
+ATOM 3514 H HG3 . LYS E 1 28 ? 13.446 -1.324 -18.169 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 2
+ATOM 3515 H HD2 . LYS E 1 28 ? 12.151 -1.651 -16.053 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 2
+ATOM 3516 H HD3 . LYS E 1 28 ? 11.701 0.043 -16.065 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 2
+ATOM 3517 H HE2 . LYS E 1 28 ? 10.562 -0.283 -18.278 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 2
+ATOM 3518 H HE3 . LYS E 1 28 ? 11.001 -1.979 -18.249 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 2
+ATOM 3519 H HZ1 . LYS E 1 28 ? 9.328 -2.393 -16.896 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 2
+ATOM 3520 H HZ2 . LYS E 1 28 ? 9.737 -1.210 -15.848 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 2
+ATOM 3521 H HZ3 . LYS E 1 28 ? 8.790 -0.870 -17.134 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 2
+ATOM 3522 N N . GLY E 1 29 ? 16.936 2.328 -17.580 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 2
+ATOM 3523 C CA . GLY E 1 29 ? 17.724 3.437 -17.071 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 2
+ATOM 3524 C C . GLY E 1 29 ? 17.283 4.759 -17.702 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 2
+ATOM 3525 O O . GLY E 1 29 ? 18.107 5.637 -17.953 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 2
+ATOM 3526 H H . GLY E 1 29 ? 16.855 2.289 -18.576 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 2
+ATOM 3527 H HA2 . GLY E 1 29 ? 17.621 3.494 -15.987 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 2
+ATOM 3528 H HA3 . GLY E 1 29 ? 18.780 3.264 -17.281 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 2
+ATOM 3529 N N . ALA E 1 30 ? 15.983 4.859 -17.940 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 2
+ATOM 3530 C CA . ALA E 1 30 ? 15.422 6.059 -18.536 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 2
+ATOM 3531 C C . ALA E 1 30 ? 14.215 6.516 -17.714 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 2
+ATOM 3532 O O . ALA E 1 30 ? 14.250 6.486 -16.485 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 2
+ATOM 3533 C CB . ALA E 1 30 ? 15.061 5.782 -19.997 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 2
+ATOM 3534 H H . ALA E 1 30 ? 15.320 4.140 -17.732 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 2
+ATOM 3535 H HA . ALA E 1 30 ? 16.187 6.835 -18.505 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 2
+ATOM 3536 H HB1 . ALA E 1 30 ? 14.109 5.253 -20.043 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 2
+ATOM 3537 H HB2 . ALA E 1 30 ? 14.978 6.726 -20.536 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 2
+ATOM 3538 H HB3 . ALA E 1 30 ? 15.839 5.171 -20.454 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 2
+ATOM 3539 N N . ILE E 1 31 ? 13.176 6.928 -18.426 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 2
+ATOM 3540 C CA . ILE E 1 31 ? 11.961 7.390 -17.778 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 2
+ATOM 3541 C C . ILE E 1 31 ? 10.774 6.569 -18.284 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 2
+ATOM 3542 O O . ILE E 1 31 ? 10.576 6.436 -19.491 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 2
+ATOM 3543 C CB . ILE E 1 31 ? 11.792 8.899 -17.970 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 2
+ATOM 3544 C CG1 . ILE E 1 31 ? 12.983 9.663 -17.389 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 2
+ATOM 3545 C CG2 . ILE E 1 31 ? 10.462 9.380 -17.386 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 2
+ATOM 3546 C CD1 . ILE E 1 31 ? 13.003 11.109 -17.888 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 2
+ATOM 3547 H H . ILE E 1 31 ? 13.156 6.949 -19.426 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 2
+ATOM 3548 H HA . ILE E 1 31 ? 12.073 7.212 -16.708 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 2
+ATOM 3549 H HB . ILE E 1 31 ? 11.767 9.106 -19.040 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 2
+ATOM 3550 H HG12 . ILE E 1 31 ? 12.932 9.650 -16.300 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 2
+ATOM 3551 H HG13 . ILE E 1 31 ? 13.911 9.165 -17.670 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 2
+ATOM 3552 H HG21 . ILE E 1 31 ? 10.590 10.377 -16.964 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 2
+ATOM 3553 H HG22 . ILE E 1 31 ? 9.709 9.412 -18.173 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 2
+ATOM 3554 H HG23 . ILE E 1 31 ? 10.140 8.694 -16.603 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 2
+ATOM 3555 H HD11 . ILE E 1 31 ? 13.458 11.146 -18.877 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 2
+ATOM 3556 H HD12 . ILE E 1 31 ? 11.982 11.488 -17.943 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 2
+ATOM 3557 H HD13 . ILE E 1 31 ? 13.582 11.723 -17.198 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 2
+ATOM 3558 N N . ILE E 1 32 ? 10.015 6.039 -17.336 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 2
+ATOM 3559 C CA . ILE E 1 32 ? 8.852 5.234 -17.671 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 2
+ATOM 3560 C C . ILE E 1 32 ? 7.718 5.552 -16.694 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 2
+ATOM 3561 O O . ILE E 1 32 ? 7.953 5.718 -15.499 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 2
+ATOM 3562 C CB . ILE E 1 32 ? 9.224 3.750 -17.720 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 2
+ATOM 3563 C CG1 . ILE E 1 32 ? 7.976 2.878 -17.872 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 2
+ATOM 3564 C CG2 . ILE E 1 32 ? 10.056 3.353 -16.500 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 2
+ATOM 3565 C CD1 . ILE E 1 32 ? 8.341 1.392 -17.851 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 2
+ATOM 3566 H H . ILE E 1 32 ? 10.182 6.152 -16.357 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 2
+ATOM 3567 H HA . ILE E 1 32 ? 8.535 5.520 -18.674 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 2
+ATOM 3568 H HB . ILE E 1 32 ? 9.844 3.583 -18.601 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 2
+ATOM 3569 H HG12 . ILE E 1 32 ? 7.275 3.095 -17.067 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 2
+ATOM 3570 H HG13 . ILE E 1 32 ? 7.471 3.119 -18.808 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 2
+ATOM 3571 H HG21 . ILE E 1 32 ? 10.594 2.429 -16.712 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 2
+ATOM 3572 H HG22 . ILE E 1 32 ? 10.770 4.145 -16.273 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 2
+ATOM 3573 H HG23 . ILE E 1 32 ? 9.397 3.202 -15.644 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 2
+ATOM 3574 H HD11 . ILE E 1 32 ? 7.520 0.810 -18.271 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 2
+ATOM 3575 H HD12 . ILE E 1 32 ? 9.241 1.230 -18.445 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 2
+ATOM 3576 H HD13 . ILE E 1 32 ? 8.522 1.077 -16.824 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 2
+ATOM 3577 N N . GLY E 1 33 ? 6.513 5.627 -17.240 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 2
+ATOM 3578 C CA . GLY E 1 33 ? 5.343 5.922 -16.432 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 2
+ATOM 3579 C C . GLY E 1 33 ? 4.134 5.109 -16.900 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 2
+ATOM 3580 O O . GLY E 1 33 ? 3.487 5.463 -17.885 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 2
+ATOM 3581 H H . GLY E 1 33 ? 6.331 5.490 -18.214 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 2
+ATOM 3582 H HA2 . GLY E 1 33 ? 5.553 5.698 -15.386 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 2
+ATOM 3583 H HA3 . GLY E 1 33 ? 5.114 6.986 -16.491 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 2
+ATOM 3584 N N . LEU E 1 34 ? 3.866 4.035 -16.173 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 2
+ATOM 3585 C CA . LEU E 1 34 ? 2.746 3.169 -16.501 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 2
+ATOM 3586 C C . LEU E 1 34 ? 1.440 3.855 -16.096 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 2
+ATOM 3587 O O . LEU E 1 34 ? 0.874 3.549 -15.047 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 2
+ATOM 3588 C CB . LEU E 1 34 ? 2.936 1.786 -15.874 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 2
+ATOM 3589 C CG . LEU E 1 34 ? 2.515 0.594 -16.736 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 2
+ATOM 3590 C CD1 . LEU E 1 34 ? 3.487 -0.575 -16.567 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 2
+ATOM 3591 C CD2 . LEU E 1 34 ? 1.071 0.186 -16.441 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 2
+ATOM 3592 H H . LEU E 1 34 ? 4.397 3.754 -15.373 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 2
+ATOM 3593 H HA . LEU E 1 34 ? 2.744 3.034 -17.583 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 2
+ATOM 3594 H HB2 . LEU E 1 34 ? 3.987 1.668 -15.613 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 2
+ATOM 3595 H HB3 . LEU E 1 34 ? 2.371 1.752 -14.942 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 2
+ATOM 3596 H HG . LEU E 1 34 ? 2.557 0.898 -17.782 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 2
+ATOM 3597 H HD11 . LEU E 1 34 ? 3.912 -0.838 -17.535 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 2
+ATOM 3598 H HD12 . LEU E 1 34 ? 4.288 -0.286 -15.885 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 2
+ATOM 3599 H HD13 . LEU E 1 34 ? 2.955 -1.434 -16.158 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 2
+ATOM 3600 H HD21 . LEU E 1 34 ? 0.609 0.929 -15.791 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 2
+ATOM 3601 H HD22 . LEU E 1 34 ? 0.512 0.124 -17.375 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 2
+ATOM 3602 H HD23 . LEU E 1 34 ? 1.061 -0.785 -15.946 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 2
+ATOM 3603 N N . MET E 1 35 ? 0.999 4.769 -16.948 1.00 0.00 ? ? ? ? ? ? 35 MET E N 2
+ATOM 3604 C CA . MET E 1 35 ? -0.229 5.500 -16.691 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 2
+ATOM 3605 C C . MET E 1 35 ? -1.416 4.845 -17.400 1.00 0.00 ? ? ? ? ? ? 35 MET E C 2
+ATOM 3606 O O . MET E 1 35 ? -1.607 5.032 -18.601 1.00 0.00 ? ? ? ? ? ? 35 MET E O 2
+ATOM 3607 C CB . MET E 1 35 ? -0.076 6.943 -17.178 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 2
+ATOM 3608 C CG . MET E 1 35 ? 0.984 7.687 -16.364 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 2
+ATOM 3609 S SD . MET E 1 35 ? 0.199 8.837 -15.247 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 2
+ATOM 3610 C CE . MET E 1 35 ? 1.037 10.343 -15.713 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 2
+ATOM 3611 H H . MET E 1 35 ? 1.466 5.011 -17.798 1.00 0.00 ? ? ? ? ? ? 35 MET E H 2
+ATOM 3612 H HA . MET E 1 35 ? -0.374 5.459 -15.611 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 2
+ATOM 3613 H HB2 . MET E 1 35 ? 0.201 6.946 -18.232 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 2
+ATOM 3614 H HB3 . MET E 1 35 ? -1.032 7.461 -17.098 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 2
+ATOM 3615 H HG2 . MET E 1 35 ? 1.588 6.975 -15.801 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 2
+ATOM 3616 H HG3 . MET E 1 35 ? 1.660 8.220 -17.032 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 2
+ATOM 3617 H HE1 . MET E 1 35 ? 1.504 10.211 -16.689 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 2
+ATOM 3618 H HE2 . MET E 1 35 ? 0.317 11.159 -15.762 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 2
+ATOM 3619 H HE3 . MET E 1 35 ? 1.802 10.577 -14.973 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 2
+ATOM 3620 N N . VAL E 1 36 ? -2.183 4.090 -16.627 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 2
+ATOM 3621 C CA . VAL E 1 36 ? -3.346 3.405 -17.166 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 2
+ATOM 3622 C C . VAL E 1 36 ? -4.616 4.100 -16.671 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 2
+ATOM 3623 O O . VAL E 1 36 ? -4.793 4.297 -15.470 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 2
+ATOM 3624 C CB . VAL E 1 36 ? -3.295 1.921 -16.800 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 2
+ATOM 3625 C CG1 . VAL E 1 36 ? -2.081 1.240 -17.435 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 2
+ATOM 3626 C CG2 . VAL E 1 36 ? -3.300 1.729 -15.282 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 2
+ATOM 3627 H H . VAL E 1 36 ? -2.020 3.943 -15.651 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 2
+ATOM 3628 H HA . VAL E 1 36 ? -3.301 3.487 -18.252 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 2
+ATOM 3629 H HB . VAL E 1 36 ? -4.192 1.447 -17.200 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 2
+ATOM 3630 H HG11 . VAL E 1 36 ? -2.276 1.062 -18.492 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 2
+ATOM 3631 H HG12 . VAL E 1 36 ? -1.208 1.885 -17.330 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 2
+ATOM 3632 H HG13 . VAL E 1 36 ? -1.894 0.290 -16.935 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 2
+ATOM 3633 H HG21 . VAL E 1 36 ? -4.185 2.205 -14.859 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 2
+ATOM 3634 H HG22 . VAL E 1 36 ? -3.314 0.664 -15.050 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 2
+ATOM 3635 H HG23 . VAL E 1 36 ? -2.405 2.183 -14.856 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 2
+ATOM 3636 N N . GLY E 1 37 ? -5.468 4.454 -17.623 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 2
+ATOM 3637 C CA . GLY E 1 37 ? -6.716 5.123 -17.299 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 2
+ATOM 3638 C C . GLY E 1 37 ? -7.836 4.108 -17.062 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 2
+ATOM 3639 O O . GLY E 1 37 ? -8.165 3.322 -17.950 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 2
+ATOM 3640 H H . GLY E 1 37 ? -5.316 4.291 -18.598 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 2
+ATOM 3641 H HA2 . GLY E 1 37 ? -6.583 5.737 -16.408 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 2
+ATOM 3642 H HA3 . GLY E 1 37 ? -6.994 5.794 -18.111 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 2
+ATOM 3643 N N . GLY E 1 38 ? -8.392 4.158 -15.860 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 2
+ATOM 3644 C CA . GLY E 1 38 ? -9.469 3.252 -15.496 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 2
+ATOM 3645 C C . GLY E 1 38 ? -10.609 4.006 -14.808 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 2
+ATOM 3646 O O . GLY E 1 38 ? -10.847 3.825 -13.615 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 2
+ATOM 3647 H H . GLY E 1 38 ? -8.119 4.800 -15.144 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 2
+ATOM 3648 H HA2 . GLY E 1 38 ? -9.845 2.751 -16.388 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 2
+ATOM 3649 H HA3 . GLY E 1 38 ? -9.087 2.477 -14.831 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 2
+ATOM 3650 N N . VAL E 1 39 ? -11.284 4.835 -15.591 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 2
+ATOM 3651 C CA . VAL E 1 39 ? -12.394 5.616 -15.072 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 2
+ATOM 3652 C C . VAL E 1 39 ? -13.684 5.192 -15.777 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 2
+ATOM 3653 O O . VAL E 1 39 ? -13.756 5.198 -17.005 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 2
+ATOM 3654 C CB . VAL E 1 39 ? -12.096 7.110 -15.219 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 2
+ATOM 3655 C CG1 . VAL E 1 39 ? -13.211 7.955 -14.599 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 2
+ATOM 3656 C CG2 . VAL E 1 39 ? -10.738 7.460 -14.608 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 2
+ATOM 3657 H H . VAL E 1 39 ? -11.084 4.976 -16.560 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 2
+ATOM 3658 H HA . VAL E 1 39 ? -12.485 5.393 -14.010 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 2
+ATOM 3659 H HB . VAL E 1 39 ? -12.054 7.340 -16.284 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 2
+ATOM 3660 H HG11 . VAL E 1 39 ? -13.715 8.521 -15.382 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 2
+ATOM 3661 H HG12 . VAL E 1 39 ? -13.929 7.302 -14.103 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 2
+ATOM 3662 H HG13 . VAL E 1 39 ? -12.783 8.643 -13.871 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 2
+ATOM 3663 H HG21 . VAL E 1 39 ? -10.582 8.538 -14.664 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 2
+ATOM 3664 H HG22 . VAL E 1 39 ? -10.716 7.144 -13.566 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 2
+ATOM 3665 H HG23 . VAL E 1 39 ? -9.949 6.950 -15.160 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 2
+ATOM 3666 N N . VAL E 1 40 ? -14.672 4.833 -14.970 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 2
+ATOM 3667 C CA . VAL E 1 40 ? -15.955 4.407 -15.501 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 2
+ATOM 3668 C C . VAL E 1 40 ? -17.056 5.317 -14.953 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 2
+ATOM 3669 O O . VAL E 1 40 ? -17.148 5.529 -13.745 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 2
+ATOM 3670 C CB . VAL E 1 40 ? -16.188 2.929 -15.182 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 2
+ATOM 3671 C CG1 . VAL E 1 40 ? -16.202 2.689 -13.671 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 2
+ATOM 3672 C CG2 . VAL E 1 40 ? -17.480 2.426 -15.829 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 2
+ATOM 3673 H H . VAL E 1 40 ? -14.605 4.831 -13.972 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 2
+ATOM 3674 H HA . VAL E 1 40 ? -15.916 4.517 -16.584 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 2
+ATOM 3675 H HB . VAL E 1 40 ? -15.359 2.360 -15.604 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 2
+ATOM 3676 H HG11 . VAL E 1 40 ? -17.061 3.195 -13.231 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 2
+ATOM 3677 H HG12 . VAL E 1 40 ? -16.270 1.619 -13.474 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 2
+ATOM 3678 H HG13 . VAL E 1 40 ? -15.284 3.082 -13.233 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 2
+ATOM 3679 H HG21 . VAL E 1 40 ? -17.537 2.786 -16.856 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 2
+ATOM 3680 H HG22 . VAL E 1 40 ? -17.488 1.336 -15.825 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 2
+ATOM 3681 H HG23 . VAL E 1 40 ? -18.337 2.797 -15.266 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 2
+ATOM 3682 N N . ILE E 1 41 ? -17.865 5.831 -15.869 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 2
+ATOM 3683 C CA . ILE E 1 41 ? -18.956 6.714 -15.493 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 2
+ATOM 3684 C C . ILE E 1 41 ? -20.271 6.152 -16.037 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 2
+ATOM 3685 O O . ILE E 1 41 ? -20.485 6.125 -17.248 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 2
+ATOM 3686 C CB . ILE E 1 41 ? -18.666 8.147 -15.945 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 2
+ATOM 3687 C CG1 . ILE E 1 41 ? -19.715 9.117 -15.397 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 2
+ATOM 3688 C CG2 . ILE E 1 41 ? -18.549 8.228 -17.468 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 2
+ATOM 3689 C CD1 . ILE E 1 41 ? -19.055 10.371 -14.822 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 2
+ATOM 3690 H H . ILE E 1 41 ? -17.783 5.654 -16.850 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 2
+ATOM 3691 H HA . ILE E 1 41 ? -19.008 6.723 -14.404 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 2
+ATOM 3692 H HB . ILE E 1 41 ? -17.703 8.447 -15.531 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 2
+ATOM 3693 H HG12 . ILE E 1 41 ? -20.406 9.397 -16.193 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 2
+ATOM 3694 H HG13 . ILE E 1 41 ? -20.303 8.624 -14.624 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 2
+ATOM 3695 H HG21 . ILE E 1 41 ? -19.535 8.398 -17.899 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 2
+ATOM 3696 H HG22 . ILE E 1 41 ? -17.887 9.052 -17.738 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 2
+ATOM 3697 H HG23 . ILE E 1 41 ? -18.140 7.294 -17.851 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 2
+ATOM 3698 H HD11 . ILE E 1 41 ? -18.131 10.095 -14.314 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 2
+ATOM 3699 H HD12 . ILE E 1 41 ? -18.831 11.067 -15.631 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 2
+ATOM 3700 H HD13 . ILE E 1 41 ? -19.732 10.846 -14.112 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 2
+ATOM 3701 N N . ALA E 1 42 ? -21.118 5.717 -15.115 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 2
+ATOM 3702 C CA . ALA E 1 42 ? -22.406 5.158 -15.487 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 2
+ATOM 3703 C C . ALA E 1 42 ? -23.516 6.131 -15.085 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 2
+ATOM 3704 O O . ALA E 1 42 ? -23.837 6.259 -13.905 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 2
+ATOM 3705 C CB . ALA E 1 42 ? -22.573 3.783 -14.836 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 2
+ATOM 3706 H H . ALA E 1 42 ? -20.936 5.743 -14.132 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 2
+ATOM 3707 H HA . ALA E 1 42 ? -22.415 5.036 -16.570 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 2
+ATOM 3708 H HB1 . ALA E 1 42 ? -22.220 3.824 -13.805 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 2
+ATOM 3709 H HB2 . ALA E 1 42 ? -23.625 3.500 -14.849 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 2
+ATOM 3710 H HB3 . ALA E 1 42 ? -21.992 3.046 -15.390 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 2
+ATOM 3711 N N . LEU A 1 17 ? -15.652 -4.171 -2.878 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 3
+ATOM 3712 C CA . LEU A 1 17 ? -14.465 -3.556 -3.449 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 3
+ATOM 3713 C C . LEU A 1 17 ? -13.221 -4.128 -2.765 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 3
+ATOM 3714 O O . LEU A 1 17 ? -12.758 -3.590 -1.761 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 3
+ATOM 3715 C CB . LEU A 1 17 ? -14.562 -2.031 -3.373 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 3
+ATOM 3716 C CG . LEU A 1 17 ? -14.608 -1.294 -4.713 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 3
+ATOM 3717 C CD1 . LEU A 1 17 ? -13.376 -1.619 -5.559 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 3
+ATOM 3718 C CD2 . LEU A 1 17 ? -15.910 -1.592 -5.458 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 3
+ATOM 3719 H H . LEU A 1 17 ? -16.320 -4.499 -3.545 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 3
+ATOM 3720 H HA . LEU A 1 17 ? -14.434 -3.825 -4.504 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 3
+ATOM 3721 H HB2 . LEU A 1 17 ? -15.457 -1.772 -2.807 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 3
+ATOM 3722 H HB3 . LEU A 1 17 ? -13.709 -1.660 -2.805 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 3
+ATOM 3723 H HG . LEU A 1 17 ? -14.588 -0.223 -4.514 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 3
+ATOM 3724 H HD11 . LEU A 1 17 ? -13.371 -0.992 -6.450 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 3
+ATOM 3725 H HD12 . LEU A 1 17 ? -12.474 -1.430 -4.977 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 3
+ATOM 3726 H HD13 . LEU A 1 17 ? -13.404 -2.668 -5.854 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 3
+ATOM 3727 H HD21 . LEU A 1 17 ? -16.024 -0.891 -6.285 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 3
+ATOM 3728 H HD22 . LEU A 1 17 ? -15.882 -2.610 -5.847 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 3
+ATOM 3729 H HD23 . LEU A 1 17 ? -16.752 -1.487 -4.774 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 3
+ATOM 3730 N N . VAL A 1 18 ? -12.716 -5.211 -3.337 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 3
+ATOM 3731 C CA . VAL A 1 18 ? -11.535 -5.861 -2.796 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 3
+ATOM 3732 C C . VAL A 1 18 ? -10.290 -5.316 -3.499 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 3
+ATOM 3733 O O . VAL A 1 18 ? -10.211 -5.329 -4.727 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 3
+ATOM 3734 C CB . VAL A 1 18 ? -11.672 -7.380 -2.917 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 3
+ATOM 3735 C CG1 . VAL A 1 18 ? -11.958 -7.792 -4.363 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 3
+ATOM 3736 C CG2 . VAL A 1 18 ? -10.426 -8.088 -2.381 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 3
+ATOM 3737 H H . VAL A 1 18 ? -13.099 -5.642 -4.154 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 3
+ATOM 3738 H HA . VAL A 1 18 ? -11.478 -5.611 -1.737 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 3
+ATOM 3739 H HB . VAL A 1 18 ? -12.521 -7.690 -2.307 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 3
+ATOM 3740 H HG11 . VAL A 1 18 ? -13.005 -7.598 -4.595 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 3
+ATOM 3741 H HG12 . VAL A 1 18 ? -11.323 -7.216 -5.036 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 3
+ATOM 3742 H HG13 . VAL A 1 18 ? -11.749 -8.854 -4.486 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 3
+ATOM 3743 H HG21 . VAL A 1 18 ? -9.573 -7.412 -2.436 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 3
+ATOM 3744 H HG22 . VAL A 1 18 ? -10.592 -8.380 -1.344 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 3
+ATOM 3745 H HG23 . VAL A 1 18 ? -10.226 -8.976 -2.981 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 3
+ATOM 3746 N N . PHE A 1 19 ? -9.349 -4.850 -2.691 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 3
+ATOM 3747 C CA . PHE A 1 19 ? -8.113 -4.301 -3.220 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 3
+ATOM 3748 C C . PHE A 1 19 ? -6.907 -5.123 -2.760 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 3
+ATOM 3749 O O . PHE A 1 19 ? -6.871 -5.597 -1.626 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 3
+ATOM 3750 C CB . PHE A 1 19 ? -7.984 -2.878 -2.673 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 3
+ATOM 3751 C CG . PHE A 1 19 ? -7.861 -1.804 -3.756 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 3
+ATOM 3752 C CD1 . PHE A 1 19 ? -8.980 -1.240 -4.284 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 3
+ATOM 3753 C CD2 . PHE A 1 19 ? -6.632 -1.413 -4.189 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 3
+ATOM 3754 C CE1 . PHE A 1 19 ? -8.865 -0.243 -5.289 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 3
+ATOM 3755 C CE2 . PHE A 1 19 ? -6.518 -0.416 -5.193 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 3
+ATOM 3756 C CZ . PHE A 1 19 ? -7.637 0.148 -5.722 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 3
+ATOM 3757 H H . PHE A 1 19 ? -9.422 -4.843 -1.694 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 3
+ATOM 3758 H HA . PHE A 1 19 ? -8.181 -4.338 -4.308 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 3
+ATOM 3759 H HB2 . PHE A 1 19 ? -8.854 -2.658 -2.055 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 3
+ATOM 3760 H HB3 . PHE A 1 19 ? -7.110 -2.827 -2.024 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 3
+ATOM 3761 H HD1 . PHE A 1 19 ? -9.964 -1.553 -3.937 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 3
+ATOM 3762 H HD2 . PHE A 1 19 ? -5.736 -1.865 -3.765 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 3
+ATOM 3763 H HE1 . PHE A 1 19 ? -9.762 0.210 -5.713 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 3
+ATOM 3764 H HE2 . PHE A 1 19 ? -5.533 -0.103 -5.541 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 3
+ATOM 3765 H HZ . PHE A 1 19 ? -7.549 0.914 -6.493 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 3
+ATOM 3766 N N . PHE A 1 20 ? -5.949 -5.266 -3.664 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 3
+ATOM 3767 C CA . PHE A 1 20 ? -4.744 -6.022 -3.364 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 3
+ATOM 3768 C C . PHE A 1 20 ? -3.492 -5.183 -3.625 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 3
+ATOM 3769 O O . PHE A 1 20 ? -2.985 -5.149 -4.745 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 3
+ATOM 3770 C CB . PHE A 1 20 ? -4.735 -7.235 -4.297 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 3
+ATOM 3771 C CG . PHE A 1 20 ? -4.962 -8.569 -3.584 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 3
+ATOM 3772 C CD1 . PHE A 1 20 ? -6.113 -8.783 -2.892 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 3
+ATOM 3773 C CD2 . PHE A 1 20 ? -4.013 -9.542 -3.643 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 3
+ATOM 3774 C CE1 . PHE A 1 20 ? -6.324 -10.022 -2.230 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 3
+ATOM 3775 C CE2 . PHE A 1 20 ? -4.224 -10.781 -2.982 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 3
+ATOM 3776 C CZ . PHE A 1 20 ? -5.375 -10.995 -2.289 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 3
+ATOM 3777 H H . PHE A 1 20 ? -5.986 -4.877 -4.584 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 3
+ATOM 3778 H HA . PHE A 1 20 ? -4.786 -6.292 -2.309 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 3
+ATOM 3779 H HB2 . PHE A 1 20 ? -5.506 -7.104 -5.055 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 3
+ATOM 3780 H HB3 . PHE A 1 20 ? -3.778 -7.271 -4.818 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 3
+ATOM 3781 H HD1 . PHE A 1 20 ? -6.873 -8.004 -2.845 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 3
+ATOM 3782 H HD2 . PHE A 1 20 ? -3.091 -9.371 -4.198 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 3
+ATOM 3783 H HE1 . PHE A 1 20 ? -7.246 -10.193 -1.676 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 3
+ATOM 3784 H HE2 . PHE A 1 20 ? -3.463 -11.560 -3.029 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 3
+ATOM 3785 H HZ . PHE A 1 20 ? -5.537 -11.945 -1.782 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 3
+ATOM 3786 N N . ALA A 1 21 ? -3.028 -4.527 -2.571 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 3
+ATOM 3787 C CA . ALA A 1 21 ? -1.844 -3.691 -2.671 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 3
+ATOM 3788 C C . ALA A 1 21 ? -0.674 -4.385 -1.972 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 3
+ATOM 3789 O O . ALA A 1 21 ? -0.653 -4.490 -0.746 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 3
+ATOM 3790 C CB . ALA A 1 21 ? -2.142 -2.311 -2.080 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 3
+ATOM 3791 H H . ALA A 1 21 ? -3.446 -4.560 -1.663 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 3
+ATOM 3792 H HA . ALA A 1 21 ? -1.608 -3.575 -3.729 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 3
+ATOM 3793 H HB1 . ALA A 1 21 ? -2.363 -2.412 -1.017 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 3
+ATOM 3794 H HB2 . ALA A 1 21 ? -1.274 -1.665 -2.211 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 3
+ATOM 3795 H HB3 . ALA A 1 21 ? -3.000 -1.875 -2.590 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 3
+ATOM 3796 N N . GLU A 1 22 ? 0.271 -4.840 -2.781 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 3
+ATOM 3797 C CA . GLU A 1 22 ? 1.442 -5.522 -2.255 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 3
+ATOM 3798 C C . GLU A 1 22 ? 2.696 -5.084 -3.014 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 3
+ATOM 3799 O O . GLU A 1 22 ? 2.658 -4.900 -4.230 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 3
+ATOM 3800 C CB . GLU A 1 22 ? 1.266 -7.040 -2.315 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 3
+ATOM 3801 C CG . GLU A 1 22 ? 0.808 -7.593 -0.964 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 3
+ATOM 3802 C CD . GLU A 1 22 ? 0.386 -9.059 -1.086 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 3
+ATOM 3803 O OE1 . GLU A 1 22 ? -0.509 -9.324 -1.918 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 3
+ATOM 3804 O OE2 . GLU A 1 22 ? 0.967 -9.880 -0.345 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 3
+ATOM 3805 H H . GLU A 1 22 ? 0.246 -4.751 -3.776 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 3
+ATOM 3806 H HA . GLU A 1 22 ? 1.514 -5.211 -1.212 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 3
+ATOM 3807 H HB2 . GLU A 1 22 ? 0.535 -7.295 -3.083 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 3
+ATOM 3808 H HB3 . GLU A 1 22 ? 2.208 -7.508 -2.603 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 3
+ATOM 3809 H HG2 . GLU A 1 22 ? 1.616 -7.503 -0.238 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 3
+ATOM 3810 H HG3 . GLU A 1 22 ? -0.026 -7.001 -0.588 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 3
+ATOM 3811 N N . ASP A 1 23 ? 3.779 -4.931 -2.266 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 3
+ATOM 3812 C CA . ASP A 1 23 ? 5.043 -4.519 -2.854 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 3
+ATOM 3813 C C . ASP A 1 23 ? 6.175 -5.356 -2.255 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 3
+ATOM 3814 O O . ASP A 1 23 ? 6.512 -5.202 -1.082 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 3
+ATOM 3815 C CB . ASP A 1 23 ? 5.334 -3.047 -2.556 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 3
+ATOM 3816 C CG . ASP A 1 23 ? 6.672 -2.532 -3.091 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 3
+ATOM 3817 O OD1 . ASP A 1 23 ? 7.642 -3.318 -3.046 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 3
+ATOM 3818 O OD2 . ASP A 1 23 ? 6.694 -1.363 -3.533 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 3
+ATOM 3819 H H . ASP A 1 23 ? 3.802 -5.083 -1.278 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 3
+ATOM 3820 H HA . ASP A 1 23 ? 4.926 -4.680 -3.925 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 3
+ATOM 3821 H HB2 . ASP A 1 23 ? 4.533 -2.441 -2.979 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 3
+ATOM 3822 H HB3 . ASP A 1 23 ? 5.310 -2.898 -1.477 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 3
+ATOM 3823 N N . VAL A 1 24 ? 6.732 -6.222 -3.088 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 3
+ATOM 3824 C CA . VAL A 1 24 ? 7.820 -7.083 -2.656 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 3
+ATOM 3825 C C . VAL A 1 24 ? 9.128 -6.290 -2.670 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 3
+ATOM 3826 O O . VAL A 1 24 ? 9.752 -6.133 -3.719 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 3
+ATOM 3827 C CB . VAL A 1 24 ? 7.872 -8.338 -3.529 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 3
+ATOM 3828 C CG1 . VAL A 1 24 ? 8.876 -9.351 -2.974 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 3
+ATOM 3829 C CG2 . VAL A 1 24 ? 6.483 -8.965 -3.673 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 3
+ATOM 3830 H H . VAL A 1 24 ? 6.452 -6.341 -4.041 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 3
+ATOM 3831 H HA . VAL A 1 24 ? 7.608 -7.392 -1.633 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 3
+ATOM 3832 H HB . VAL A 1 24 ? 8.210 -8.042 -4.523 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 3
+ATOM 3833 H HG11 . VAL A 1 24 ? 9.845 -8.868 -2.845 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 3
+ATOM 3834 H HG12 . VAL A 1 24 ? 8.523 -9.722 -2.012 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 3
+ATOM 3835 H HG13 . VAL A 1 24 ? 8.975 -10.184 -3.670 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 3
+ATOM 3836 H HG21 . VAL A 1 24 ? 5.802 -8.239 -4.116 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 3
+ATOM 3837 H HG22 . VAL A 1 24 ? 6.546 -9.844 -4.314 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 3
+ATOM 3838 H HG23 . VAL A 1 24 ? 6.114 -9.257 -2.690 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 3
+ATOM 3839 N N . GLY A 1 25 ? 9.506 -5.812 -1.494 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 3
+ATOM 3840 C CA . GLY A 1 25 ? 10.729 -5.039 -1.357 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 3
+ATOM 3841 C C . GLY A 1 25 ? 11.882 -5.920 -0.873 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 3
+ATOM 3842 O O . GLY A 1 25 ? 12.243 -5.885 0.303 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 3
+ATOM 3843 H H . GLY A 1 25 ? 8.993 -5.944 -0.646 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 3
+ATOM 3844 H HA2 . GLY A 1 25 ? 10.988 -4.590 -2.316 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 3
+ATOM 3845 H HA3 . GLY A 1 25 ? 10.570 -4.222 -0.654 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 3
+ATOM 3846 N N . SER A 1 26 ? 12.429 -6.689 -1.803 1.00 0.00 ? ? ? ? ? ? 26 SER A N 3
+ATOM 3847 C CA . SER A 1 26 ? 13.534 -7.577 -1.486 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 3
+ATOM 3848 C C . SER A 1 26 ? 14.828 -6.772 -1.342 1.00 0.00 ? ? ? ? ? ? 26 SER A C 3
+ATOM 3849 O O . SER A 1 26 ? 15.411 -6.344 -2.337 1.00 0.00 ? ? ? ? ? ? 26 SER A O 3
+ATOM 3850 C CB . SER A 1 26 ? 13.698 -8.657 -2.556 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 3
+ATOM 3851 O OG . SER A 1 26 ? 13.492 -9.965 -2.031 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 3
+ATOM 3852 H H . SER A 1 26 ? 12.130 -6.711 -2.757 1.00 0.00 ? ? ? ? ? ? 26 SER A H 3
+ATOM 3853 H HA . SER A 1 26 ? 13.267 -8.043 -0.538 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 3
+ATOM 3854 H HB2 . SER A 1 26 ? 12.990 -8.476 -3.366 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 3
+ATOM 3855 H HB3 . SER A 1 26 ? 14.697 -8.593 -2.987 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 3
+ATOM 3856 H HG . SER A 1 26 ? 13.789 -10.002 -1.077 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 3
+ATOM 3857 N N . ASN A 1 27 ? 15.238 -6.590 -0.095 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 3
+ATOM 3858 C CA . ASN A 1 27 ? 16.452 -5.844 0.192 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 3
+ATOM 3859 C C . ASN A 1 27 ? 16.211 -4.359 -0.091 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 3
+ATOM 3860 O O . ASN A 1 27 ? 16.652 -3.839 -1.114 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 3
+ATOM 3861 C CB . ASN A 1 27 ? 17.608 -6.312 -0.694 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 3
+ATOM 3862 C CG . ASN A 1 27 ? 18.953 -5.850 -0.129 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 3
+ATOM 3863 O OD1 . ASN A 1 27 ? 19.212 -5.917 1.061 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 3
+ATOM 3864 N ND2 . ASN A 1 27 ? 19.791 -5.376 -1.047 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 3
+ATOM 3865 H H . ASN A 1 27 ? 14.758 -6.941 0.709 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 3
+ATOM 3866 H HA . ASN A 1 27 ? 16.666 -6.039 1.242 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 3
+ATOM 3867 H HB2 . ASN A 1 27 ? 17.596 -7.400 -0.769 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 3
+ATOM 3868 H HB3 . ASN A 1 27 ? 17.480 -5.921 -1.703 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 3
+ATOM 3869 H HD21 . ASN A 1 27 ? 19.516 -5.348 -2.008 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 3
+ATOM 3870 H HD22 . ASN A 1 27 ? 20.696 -5.049 -0.776 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 3
+ATOM 3871 N N . LYS A 1 28 ? 15.513 -3.719 0.836 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 3
+ATOM 3872 C CA . LYS A 1 28 ? 15.208 -2.305 0.699 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 3
+ATOM 3873 C C . LYS A 1 28 ? 16.389 -1.482 1.218 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 3
+ATOM 3874 O O . LYS A 1 28 ? 17.460 -2.025 1.484 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 3
+ATOM 3875 C CB . LYS A 1 28 ? 13.880 -1.974 1.383 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 3
+ATOM 3876 C CG . LYS A 1 28 ? 12.717 -2.698 0.701 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 3
+ATOM 3877 C CD . LYS A 1 28 ? 11.381 -2.303 1.332 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 3
+ATOM 3878 C CE . LYS A 1 28 ? 10.810 -3.449 2.170 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 3
+ATOM 3879 N NZ . LYS A 1 28 ? 9.362 -3.611 1.909 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 3
+ATOM 3880 H H . LYS A 1 28 ? 15.157 -4.150 1.665 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 3
+ATOM 3881 H HA . LYS A 1 28 ? 15.084 -2.099 -0.364 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 3
+ATOM 3882 H HB2 . LYS A 1 28 ? 13.926 -2.262 2.434 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 3
+ATOM 3883 H HB3 . LYS A 1 28 ? 13.711 -0.898 1.355 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 3
+ATOM 3884 H HG2 . LYS A 1 28 ? 12.707 -2.456 -0.362 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 3
+ATOM 3885 H HG3 . LYS A 1 28 ? 12.857 -3.776 0.781 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 3
+ATOM 3886 H HD2 . LYS A 1 28 ? 11.516 -1.422 1.959 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 3
+ATOM 3887 H HD3 . LYS A 1 28 ? 10.671 -2.032 0.550 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 3
+ATOM 3888 H HE2 . LYS A 1 28 ? 11.334 -4.375 1.934 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 3
+ATOM 3889 H HE3 . LYS A 1 28 ? 10.975 -3.250 3.229 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 3
+ATOM 3890 H HZ1 . LYS A 1 28 ? 8.861 -3.563 2.773 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 3
+ATOM 3891 H HZ2 . LYS A 1 28 ? 9.049 -2.882 1.301 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 3
+ATOM 3892 H HZ3 . LYS A 1 28 ? 9.199 -4.498 1.477 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 3
+ATOM 3893 N N . GLY A 1 29 ? 16.154 -0.184 1.346 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 3
+ATOM 3894 C CA . GLY A 1 29 ? 17.184 0.720 1.828 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 3
+ATOM 3895 C C . GLY A 1 29 ? 17.034 2.107 1.201 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 3
+ATOM 3896 O O . GLY A 1 29 ? 16.220 2.300 0.299 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 3
+ATOM 3897 H H . GLY A 1 29 ? 15.280 0.250 1.127 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 3
+ATOM 3898 H HA2 . GLY A 1 29 ? 17.125 0.799 2.913 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 3
+ATOM 3899 H HA3 . GLY A 1 29 ? 18.168 0.314 1.591 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 3
+ATOM 3900 N N . ALA A 1 30 ? 17.831 3.038 1.704 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 3
+ATOM 3901 C CA . ALA A 1 30 ? 17.796 4.402 1.205 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 3
+ATOM 3902 C C . ALA A 1 30 ? 16.496 5.072 1.653 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 3
+ATOM 3903 O O . ALA A 1 30 ? 15.931 4.712 2.685 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 3
+ATOM 3904 C CB . ALA A 1 30 ? 17.953 4.393 -0.317 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 3
+ATOM 3905 H H . ALA A 1 30 ? 18.489 2.873 2.438 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 3
+ATOM 3906 H HA . ALA A 1 30 ? 18.640 4.937 1.641 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 3
+ATOM 3907 H HB1 . ALA A 1 30 ? 18.292 5.373 -0.653 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 3
+ATOM 3908 H HB2 . ALA A 1 30 ? 18.685 3.638 -0.602 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 3
+ATOM 3909 H HB3 . ALA A 1 30 ? 16.993 4.162 -0.779 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 3
+ATOM 3910 N N . ILE A 1 31 ? 16.059 6.036 0.856 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 3
+ATOM 3911 C CA . ILE A 1 31 ? 14.835 6.760 1.158 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 3
+ATOM 3912 C C . ILE A 1 31 ? 13.637 5.970 0.629 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 3
+ATOM 3913 O O . ILE A 1 31 ? 13.631 5.542 -0.525 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 3
+ATOM 3914 C CB . ILE A 1 31 ? 14.913 8.191 0.623 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 3
+ATOM 3915 C CG1 . ILE A 1 31 ? 16.090 8.945 1.245 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 3
+ATOM 3916 C CG2 . ILE A 1 31 ? 13.588 8.926 0.828 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 3
+ATOM 3917 C CD1 . ILE A 1 31 ? 16.937 9.625 0.167 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 3
+ATOM 3918 H H . ILE A 1 31 ? 16.524 6.323 0.019 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 3
+ATOM 3919 H HA . ILE A 1 31 ? 14.754 6.825 2.243 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 3
+ATOM 3920 H HB . ILE A 1 31 ? 15.093 8.145 -0.451 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 3
+ATOM 3921 H HG12 . ILE A 1 31 ? 15.718 9.693 1.945 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 3
+ATOM 3922 H HG13 . ILE A 1 31 ? 16.709 8.254 1.816 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 3
+ATOM 3923 H HG21 . ILE A 1 31 ? 13.736 9.994 0.666 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 3
+ATOM 3924 H HG22 . ILE A 1 31 ? 12.850 8.550 0.120 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 3
+ATOM 3925 H HG23 . ILE A 1 31 ? 13.233 8.759 1.845 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 3
+ATOM 3926 H HD11 . ILE A 1 31 ? 17.353 10.552 0.563 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 3
+ATOM 3927 H HD12 . ILE A 1 31 ? 17.748 8.961 -0.130 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 3
+ATOM 3928 H HD13 . ILE A 1 31 ? 16.313 9.847 -0.699 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 3
+ATOM 3929 N N . ILE A 1 32 ? 12.650 5.800 1.497 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 3
+ATOM 3930 C CA . ILE A 1 32 ? 11.449 5.069 1.131 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 3
+ATOM 3931 C C . ILE A 1 32 ? 10.250 5.663 1.873 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 3
+ATOM 3932 O O . ILE A 1 32 ? 10.262 5.764 3.099 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 3
+ATOM 3933 C CB . ILE A 1 32 ? 11.640 3.570 1.371 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 3
+ATOM 3934 C CG1 . ILE A 1 32 ? 10.296 2.838 1.362 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 3
+ATOM 3935 C CG2 . ILE A 1 32 ? 12.422 3.317 2.662 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 3
+ATOM 3936 C CD1 . ILE A 1 32 ? 10.485 1.350 1.063 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 3
+ATOM 3937 H H . ILE A 1 32 ? 12.663 6.151 2.433 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 3
+ATOM 3938 H HA . ILE A 1 32 ? 11.296 5.207 0.061 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 3
+ATOM 3939 H HB . ILE A 1 32 ? 12.233 3.166 0.551 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 3
+ATOM 3940 H HG12 . ILE A 1 32 ? 9.806 2.959 2.328 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 3
+ATOM 3941 H HG13 . ILE A 1 32 ? 9.641 3.283 0.614 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 3
+ATOM 3942 H HG21 . ILE A 1 32 ? 11.897 3.774 3.500 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 3
+ATOM 3943 H HG22 . ILE A 1 32 ? 12.509 2.243 2.829 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 3
+ATOM 3944 H HG23 . ILE A 1 32 ? 13.417 3.753 2.575 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 3
+ATOM 3945 H HD11 . ILE A 1 32 ? 9.567 0.946 0.636 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 3
+ATOM 3946 H HD12 . ILE A 1 32 ? 11.303 1.222 0.354 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 3
+ATOM 3947 H HD13 . ILE A 1 32 ? 10.720 0.820 1.987 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 3
+ATOM 3948 N N . GLY A 1 33 ? 9.243 6.041 1.099 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 3
+ATOM 3949 C CA . GLY A 1 33 ? 8.039 6.622 1.667 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 3
+ATOM 3950 C C . GLY A 1 33 ? 6.786 5.961 1.090 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 3
+ATOM 3951 O O . GLY A 1 33 ? 6.399 6.240 -0.044 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 3
+ATOM 3952 H H . GLY A 1 33 ? 9.241 5.955 0.102 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 3
+ATOM 3953 H HA2 . GLY A 1 33 ? 8.051 6.504 2.751 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 3
+ATOM 3954 H HA3 . GLY A 1 33 ? 8.017 7.692 1.464 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 3
+ATOM 3955 N N . LEU A 1 34 ? 6.186 5.097 1.896 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 3
+ATOM 3956 C CA . LEU A 1 34 ? 4.985 4.394 1.480 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 3
+ATOM 3957 C C . LEU A 1 34 ? 3.765 5.047 2.133 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 3
+ATOM 3958 O O . LEU A 1 34 ? 3.852 5.556 3.249 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 3
+ATOM 3959 C CB . LEU A 1 34 ? 5.111 2.898 1.772 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 3
+ATOM 3960 C CG . LEU A 1 34 ? 4.082 2.315 2.743 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 3
+ATOM 3961 C CD1 . LEU A 1 34 ? 2.765 2.008 2.028 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 3
+ATOM 3962 C CD2 . LEU A 1 34 ? 4.643 1.087 3.463 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 3
+ATOM 3963 H H . LEU A 1 34 ? 6.507 4.876 2.817 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 3
+ATOM 3964 H HA . LEU A 1 34 ? 4.899 4.506 0.399 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 3
+ATOM 3965 H HB2 . LEU A 1 34 ? 5.039 2.356 0.829 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 3
+ATOM 3966 H HB3 . LEU A 1 34 ? 6.107 2.709 2.172 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 3
+ATOM 3967 H HG . LEU A 1 34 ? 3.868 3.065 3.504 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 3
+ATOM 3968 H HD11 . LEU A 1 34 ? 2.919 2.050 0.949 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 3
+ATOM 3969 H HD12 . LEU A 1 34 ? 2.423 1.011 2.307 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 3
+ATOM 3970 H HD13 . LEU A 1 34 ? 2.015 2.744 2.316 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 3
+ATOM 3971 H HD21 . LEU A 1 34 ? 4.631 0.232 2.787 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 3
+ATOM 3972 H HD22 . LEU A 1 34 ? 5.667 1.286 3.778 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 3
+ATOM 3973 H HD23 . LEU A 1 34 ? 4.030 0.868 4.338 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 3
+ATOM 3974 N N . MET A 1 35 ? 2.656 5.012 1.408 1.00 0.00 ? ? ? ? ? ? 35 MET A N 3
+ATOM 3975 C CA . MET A 1 35 ? 1.420 5.594 1.903 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 3
+ATOM 3976 C C . MET A 1 35 ? 0.203 4.900 1.289 1.00 0.00 ? ? ? ? ? ? 35 MET A C 3
+ATOM 3977 O O . MET A 1 35 ? 0.222 4.526 0.117 1.00 0.00 ? ? ? ? ? ? 35 MET A O 3
+ATOM 3978 C CB . MET A 1 35 ? 1.384 7.085 1.560 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 3
+ATOM 3979 C CG . MET A 1 35 ? 1.145 7.930 2.813 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 3
+ATOM 3980 S SD . MET A 1 35 ? 0.890 9.637 2.358 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 3
+ATOM 3981 C CE . MET A 1 35 ? 0.076 10.232 3.830 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 3
+ATOM 3982 H H . MET A 1 35 ? 2.594 4.596 0.501 1.00 0.00 ? ? ? ? ? ? 35 MET A H 3
+ATOM 3983 H HA . MET A 1 35 ? 1.433 5.435 2.981 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 3
+ATOM 3984 H HB2 . MET A 1 35 ? 2.326 7.377 1.094 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 3
+ATOM 3985 H HB3 . MET A 1 35 ? 0.596 7.276 0.832 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 3
+ATOM 3986 H HG2 . MET A 1 35 ? 0.276 7.556 3.353 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 3
+ATOM 3987 H HG3 . MET A 1 35 ? 1.999 7.848 3.485 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 3
+ATOM 3988 H HE1 . MET A 1 35 ? 0.727 10.082 4.692 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 3
+ATOM 3989 H HE2 . MET A 1 35 ? -0.142 11.294 3.721 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 3
+ATOM 3990 H HE3 . MET A 1 35 ? -0.854 9.684 3.978 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 3
+ATOM 3991 N N . VAL A 1 36 ? -0.828 4.748 2.108 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 3
+ATOM 3992 C CA . VAL A 1 36 ? -2.051 4.105 1.661 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 3
+ATOM 3993 C C . VAL A 1 36 ? -3.250 4.772 2.338 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 3
+ATOM 3994 O O . VAL A 1 36 ? -3.395 4.704 3.558 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 3
+ATOM 3995 C CB . VAL A 1 36 ? -1.977 2.599 1.923 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 3
+ATOM 3996 C CG1 . VAL A 1 36 ? -1.156 2.301 3.179 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 3
+ATOM 3997 C CG2 . VAL A 1 36 ? -3.378 1.991 2.026 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 3
+ATOM 3998 H H . VAL A 1 36 ? -0.835 5.055 3.060 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 3
+ATOM 3999 H HA . VAL A 1 36 ? -2.128 4.257 0.584 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 3
+ATOM 4000 H HB . VAL A 1 36 ? -1.473 2.136 1.075 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 3
+ATOM 4001 H HG11 . VAL A 1 36 ? -1.657 2.724 4.049 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 3
+ATOM 4002 H HG12 . VAL A 1 36 ? -1.061 1.222 3.303 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 3
+ATOM 4003 H HG13 . VAL A 1 36 ? -0.165 2.745 3.079 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 3
+ATOM 4004 H HG21 . VAL A 1 36 ? -3.998 2.368 1.213 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 3
+ATOM 4005 H HG22 . VAL A 1 36 ? -3.308 0.906 1.957 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 3
+ATOM 4006 H HG23 . VAL A 1 36 ? -3.824 2.267 2.981 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 3
+ATOM 4007 N N . GLY A 1 37 ? -4.079 5.401 1.518 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 3
+ATOM 4008 C CA . GLY A 1 37 ? -5.260 6.079 2.023 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 3
+ATOM 4009 C C . GLY A 1 37 ? -6.523 5.261 1.746 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 3
+ATOM 4010 O O . GLY A 1 37 ? -6.895 5.059 0.591 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 3
+ATOM 4011 H H . GLY A 1 37 ? -3.953 5.451 0.527 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 3
+ATOM 4012 H HA2 . GLY A 1 37 ? -5.158 6.245 3.095 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 3
+ATOM 4013 H HA3 . GLY A 1 37 ? -5.348 7.060 1.556 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 3
+ATOM 4014 N N . GLY A 1 38 ? -7.147 4.812 2.825 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 3
+ATOM 4015 C CA . GLY A 1 38 ? -8.360 4.020 2.712 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 3
+ATOM 4016 C C . GLY A 1 38 ? -9.543 4.733 3.370 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 3
+ATOM 4017 O O . GLY A 1 38 ? -9.530 4.984 4.574 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 3
+ATOM 4018 H H . GLY A 1 38 ? -6.838 4.981 3.760 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 3
+ATOM 4019 H HA2 . GLY A 1 38 ? -8.582 3.835 1.661 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 3
+ATOM 4020 H HA3 . GLY A 1 38 ? -8.210 3.049 3.182 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 3
+ATOM 4021 N N . VAL A 1 39 ? -10.538 5.040 2.551 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 3
+ATOM 4022 C CA . VAL A 1 39 ? -11.727 5.719 3.038 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 3
+ATOM 4023 C C . VAL A 1 39 ? -12.970 5.038 2.463 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 3
+ATOM 4024 O O . VAL A 1 39 ? -13.021 4.733 1.272 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 3
+ATOM 4025 C CB . VAL A 1 39 ? -11.653 7.210 2.703 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 3
+ATOM 4026 C CG1 . VAL A 1 39 ? -12.982 7.906 3.002 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 3
+ATOM 4027 C CG2 . VAL A 1 39 ? -10.500 7.883 3.450 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 3
+ATOM 4028 H H . VAL A 1 39 ? -10.542 4.833 1.573 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 3
+ATOM 4029 H HA . VAL A 1 39 ? -11.742 5.618 4.124 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 3
+ATOM 4030 H HB . VAL A 1 39 ? -11.459 7.303 1.634 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 3
+ATOM 4031 H HG11 . VAL A 1 39 ? -13.679 7.726 2.184 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 3
+ATOM 4032 H HG12 . VAL A 1 39 ? -13.398 7.511 3.928 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 3
+ATOM 4033 H HG13 . VAL A 1 39 ? -12.815 8.978 3.107 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 3
+ATOM 4034 H HG21 . VAL A 1 39 ? -10.313 8.867 3.019 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 3
+ATOM 4035 H HG22 . VAL A 1 39 ? -10.763 7.992 4.502 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 3
+ATOM 4036 H HG23 . VAL A 1 39 ? -9.602 7.271 3.361 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 3
+ATOM 4037 N N . VAL A 1 40 ? -13.943 4.819 3.336 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 3
+ATOM 4038 C CA . VAL A 1 40 ? -15.183 4.179 2.929 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 3
+ATOM 4039 C C . VAL A 1 40 ? -16.361 4.891 3.597 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 3
+ATOM 4040 O O . VAL A 1 40 ? -16.310 5.205 4.785 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 3
+ATOM 4041 C CB . VAL A 1 40 ? -15.129 2.684 3.248 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 3
+ATOM 4042 C CG1 . VAL A 1 40 ? -14.769 2.449 4.717 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 3
+ATOM 4043 C CG2 . VAL A 1 40 ? -16.451 2.000 2.892 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 3
+ATOM 4044 H H . VAL A 1 40 ? -13.894 5.069 4.302 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 3
+ATOM 4045 H HA . VAL A 1 40 ? -15.272 4.291 1.849 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 3
+ATOM 4046 H HB . VAL A 1 40 ? -14.346 2.238 2.636 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 3
+ATOM 4047 H HG11 . VAL A 1 40 ? -14.381 3.372 5.148 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 3
+ATOM 4048 H HG12 . VAL A 1 40 ? -15.659 2.138 5.264 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 3
+ATOM 4049 H HG13 . VAL A 1 40 ? -14.010 1.670 4.784 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 3
+ATOM 4050 H HG21 . VAL A 1 40 ? -16.986 1.745 3.807 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 3
+ATOM 4051 H HG22 . VAL A 1 40 ? -17.059 2.675 2.291 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 3
+ATOM 4052 H HG23 . VAL A 1 40 ? -16.248 1.091 2.325 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 3
+ATOM 4053 N N . ILE A 1 41 ? -17.396 5.125 2.803 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 3
+ATOM 4054 C CA . ILE A 1 41 ? -18.585 5.794 3.302 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 3
+ATOM 4055 C C . ILE A 1 41 ? -19.825 5.165 2.663 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 3
+ATOM 4056 O O . ILE A 1 41 ? -20.081 5.356 1.475 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 3
+ATOM 4057 C CB . ILE A 1 41 ? -18.482 7.305 3.084 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 3
+ATOM 4058 C CG1 . ILE A 1 41 ? -19.869 7.947 3.021 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 3
+ATOM 4059 C CG2 . ILE A 1 41 ? -17.646 7.624 1.842 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 3
+ATOM 4060 C CD1 . ILE A 1 41 ? -19.784 9.460 3.234 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 3
+ATOM 4061 H H . ILE A 1 41 ? -17.430 4.867 1.837 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 3
+ATOM 4062 H HA . ILE A 1 41 ? -18.628 5.626 4.378 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 3
+ATOM 4063 H HB . ILE A 1 41 ? -17.965 7.739 3.940 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 3
+ATOM 4064 H HG12 . ILE A 1 41 ? -20.327 7.737 2.054 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 3
+ATOM 4065 H HG13 . ILE A 1 41 ? -20.513 7.505 3.781 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 3
+ATOM 4066 H HG21 . ILE A 1 41 ? -16.596 7.712 2.124 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 3
+ATOM 4067 H HG22 . ILE A 1 41 ? -17.760 6.823 1.112 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 3
+ATOM 4068 H HG23 . ILE A 1 41 ? -17.986 8.564 1.407 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 3
+ATOM 4069 H HD11 . ILE A 1 41 ? -19.676 9.957 2.270 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 3
+ATOM 4070 H HD12 . ILE A 1 41 ? -20.693 9.810 3.723 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 3
+ATOM 4071 H HD13 . ILE A 1 41 ? -18.922 9.690 3.860 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 3
+ATOM 4072 N N . ALA A 1 42 ? -20.562 4.427 3.480 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 3
+ATOM 4073 C CA . ALA A 1 42 ? -21.769 3.768 3.010 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 3
+ATOM 4074 C C . ALA A 1 42 ? -22.993 4.540 3.508 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 3
+ATOM 4075 O O . ALA A 1 42 ? -23.570 4.197 4.539 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 3
+ATOM 4076 C CB . ALA A 1 42 ? -21.769 2.311 3.476 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 3
+ATOM 4077 H H . ALA A 1 42 ? -20.347 4.277 4.445 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 3
+ATOM 4078 H HA . ALA A 1 42 ? -21.755 3.789 1.921 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 3
+ATOM 4079 H HB1 . ALA A 1 42 ? -21.432 1.669 2.662 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 3
+ATOM 4080 H HB2 . ALA A 1 42 ? -21.098 2.201 4.327 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 3
+ATOM 4081 H HB3 . ALA A 1 42 ? -22.779 2.023 3.770 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 3
+ATOM 4082 N N . LEU B 1 17 ? -16.394 -4.986 -6.931 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 3
+ATOM 4083 C CA . LEU B 1 17 ? -15.261 -4.758 -7.812 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 3
+ATOM 4084 C C . LEU B 1 17 ? -13.990 -5.295 -7.151 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 3
+ATOM 4085 O O . LEU B 1 17 ? -13.967 -5.534 -5.945 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 3
+ATOM 4086 C CB . LEU B 1 17 ? -15.175 -3.281 -8.202 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 3
+ATOM 4087 C CG . LEU B 1 17 ? -16.508 -2.576 -8.460 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 3
+ATOM 4088 C CD1 . LEU B 1 17 ? -16.286 -1.178 -9.042 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 3
+ATOM 4089 C CD2 . LEU B 1 17 ? -17.416 -3.429 -9.349 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 3
+ATOM 4090 H H . LEU B 1 17 ? -16.367 -4.481 -6.069 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 3
+ATOM 4091 H HA . LEU B 1 17 ? -15.440 -5.322 -8.727 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 3
+ATOM 4092 H HB2 . LEU B 1 17 ? -14.652 -2.746 -7.409 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 3
+ATOM 4093 H HB3 . LEU B 1 17 ? -14.563 -3.198 -9.100 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 3
+ATOM 4094 H HG . LEU B 1 17 ? -17.019 -2.450 -7.506 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 3
+ATOM 4095 H HD11 . LEU B 1 17 ? -16.185 -0.459 -8.230 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 3
+ATOM 4096 H HD12 . LEU B 1 17 ? -15.378 -1.176 -9.645 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 3
+ATOM 4097 H HD13 . LEU B 1 17 ? -17.137 -0.905 -9.666 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 3
+ATOM 4098 H HD21 . LEU B 1 17 ? -17.870 -2.800 -10.115 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 3
+ATOM 4099 H HD22 . LEU B 1 17 ? -16.827 -4.212 -9.825 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 3
+ATOM 4100 H HD23 . LEU B 1 17 ? -18.199 -3.882 -8.740 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 3
+ATOM 4101 N N . VAL B 1 18 ? -12.964 -5.468 -7.971 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 3
+ATOM 4102 C CA . VAL B 1 18 ? -11.692 -5.972 -7.481 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 3
+ATOM 4103 C C . VAL B 1 18 ? -10.551 -5.226 -8.174 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 3
+ATOM 4104 O O . VAL B 1 18 ? -10.471 -5.209 -9.402 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 3
+ATOM 4105 C CB . VAL B 1 18 ? -11.620 -7.488 -7.675 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 3
+ATOM 4106 C CG1 . VAL B 1 18 ? -11.727 -7.856 -9.157 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 3
+ATOM 4107 C CG2 . VAL B 1 18 ? -10.342 -8.060 -7.059 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 3
+ATOM 4108 H H . VAL B 1 18 ? -12.991 -5.271 -8.951 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 3
+ATOM 4109 H HA . VAL B 1 18 ? -11.647 -5.767 -6.411 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 3
+ATOM 4110 H HB . VAL B 1 18 ? -12.470 -7.933 -7.157 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 3
+ATOM 4111 H HG11 . VAL B 1 18 ? -11.899 -8.929 -9.253 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 3
+ATOM 4112 H HG12 . VAL B 1 18 ? -12.559 -7.314 -9.607 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 3
+ATOM 4113 H HG13 . VAL B 1 18 ? -10.801 -7.590 -9.665 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 3
+ATOM 4114 H HG21 . VAL B 1 18 ? -10.603 -8.773 -6.277 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 3
+ATOM 4115 H HG22 . VAL B 1 18 ? -9.761 -8.565 -7.831 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 3
+ATOM 4116 H HG23 . VAL B 1 18 ? -9.751 -7.251 -6.631 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 3
+ATOM 4117 N N . PHE B 1 19 ? -9.696 -4.626 -7.358 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 3
+ATOM 4118 C CA . PHE B 1 19 ? -8.563 -3.880 -7.878 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 3
+ATOM 4119 C C . PHE B 1 19 ? -7.247 -4.419 -7.314 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 3
+ATOM 4120 O O . PHE B 1 19 ? -6.932 -4.200 -6.145 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 3
+ATOM 4121 C CB . PHE B 1 19 ? -8.740 -2.428 -7.429 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 3
+ATOM 4122 C CG . PHE B 1 19 ? -8.551 -1.403 -8.549 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 3
+ATOM 4123 C CD1 . PHE B 1 19 ? -7.298 -1.058 -8.951 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 3
+ATOM 4124 C CD2 . PHE B 1 19 ? -9.635 -0.837 -9.143 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 3
+ATOM 4125 C CE1 . PHE B 1 19 ? -7.122 -0.107 -9.990 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 3
+ATOM 4126 C CE2 . PHE B 1 19 ? -9.460 0.115 -10.182 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 3
+ATOM 4127 C CZ . PHE B 1 19 ? -8.207 0.459 -10.584 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 3
+ATOM 4128 H H . PHE B 1 19 ? -9.769 -4.645 -6.361 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 3
+ATOM 4129 H HA . PHE B 1 19 ? -8.568 -3.998 -8.962 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 3
+ATOM 4130 H HB2 . PHE B 1 19 ? -9.737 -2.308 -7.006 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 3
+ATOM 4131 H HB3 . PHE B 1 19 ? -8.028 -2.215 -6.632 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 3
+ATOM 4132 H HD1 . PHE B 1 19 ? -6.429 -1.512 -8.475 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 3
+ATOM 4133 H HD2 . PHE B 1 19 ? -10.639 -1.113 -8.821 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 3
+ATOM 4134 H HE1 . PHE B 1 19 ? -6.118 0.169 -10.312 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 3
+ATOM 4135 H HE2 . PHE B 1 19 ? -10.329 0.569 -10.658 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 3
+ATOM 4136 H HZ . PHE B 1 19 ? -8.072 1.190 -11.382 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 3
+ATOM 4137 N N . PHE B 1 20 ? -6.513 -5.112 -8.172 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 3
+ATOM 4138 C CA . PHE B 1 20 ? -5.237 -5.684 -7.774 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 3
+ATOM 4139 C C . PHE B 1 20 ? -4.084 -4.737 -8.110 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 3
+ATOM 4140 O O . PHE B 1 20 ? -4.087 -4.095 -9.159 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 3
+ATOM 4141 C CB . PHE B 1 20 ? -5.063 -6.982 -8.566 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 3
+ATOM 4142 C CG . PHE B 1 20 ? -5.377 -8.247 -7.764 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 3
+ATOM 4143 C CD1 . PHE B 1 20 ? -6.668 -8.582 -7.501 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 3
+ATOM 4144 C CD2 . PHE B 1 20 ? -4.365 -9.035 -7.314 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 3
+ATOM 4145 C CE1 . PHE B 1 20 ? -6.960 -9.756 -6.757 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 3
+ATOM 4146 C CE2 . PHE B 1 20 ? -4.656 -10.209 -6.570 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 3
+ATOM 4147 C CZ . PHE B 1 20 ? -5.948 -10.545 -6.307 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 3
+ATOM 4148 H H . PHE B 1 20 ? -6.776 -5.285 -9.121 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 3
+ATOM 4149 H HA . PHE B 1 20 ? -5.275 -5.840 -6.696 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 3
+ATOM 4150 H HB2 . PHE B 1 20 ? -5.709 -6.950 -9.443 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 3
+ATOM 4151 H HB3 . PHE B 1 20 ? -4.036 -7.039 -8.928 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 3
+ATOM 4152 H HD1 . PHE B 1 20 ? -7.480 -7.950 -7.862 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 3
+ATOM 4153 H HD2 . PHE B 1 20 ? -3.329 -8.767 -7.524 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 3
+ATOM 4154 H HE1 . PHE B 1 20 ? -7.995 -10.025 -6.547 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 3
+ATOM 4155 H HE2 . PHE B 1 20 ? -3.845 -10.841 -6.209 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 3
+ATOM 4156 H HZ . PHE B 1 20 ? -6.172 -11.446 -5.736 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 3
+ATOM 4157 N N . ALA B 1 21 ? -3.124 -4.679 -7.198 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 3
+ATOM 4158 C CA . ALA B 1 21 ? -1.966 -3.821 -7.384 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 3
+ATOM 4159 C C . ALA B 1 21 ? -0.749 -4.462 -6.714 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 3
+ATOM 4160 O O . ALA B 1 21 ? -0.548 -4.313 -5.510 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 3
+ATOM 4161 C CB . ALA B 1 21 ? -2.269 -2.427 -6.831 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 3
+ATOM 4162 H H . ALA B 1 21 ? -3.128 -5.204 -6.347 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 3
+ATOM 4163 H HA . ALA B 1 21 ? -1.780 -3.741 -8.455 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 3
+ATOM 4164 H HB1 . ALA B 1 21 ? -1.958 -2.374 -5.788 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 3
+ATOM 4165 H HB2 . ALA B 1 21 ? -1.726 -1.681 -7.411 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 3
+ATOM 4166 H HB3 . ALA B 1 21 ? -3.339 -2.234 -6.901 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 3
+ATOM 4167 N N . GLU B 1 22 ? 0.033 -5.162 -7.524 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 3
+ATOM 4168 C CA . GLU B 1 22 ? 1.225 -5.826 -7.025 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 3
+ATOM 4169 C C . GLU B 1 22 ? 2.468 -5.294 -7.741 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 3
+ATOM 4170 O O . GLU B 1 22 ? 2.442 -5.066 -8.949 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 3
+ATOM 4171 C CB . GLU B 1 22 ? 1.111 -7.344 -7.177 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 3
+ATOM 4172 C CG . GLU B 1 22 ? 0.269 -7.947 -6.051 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 3
+ATOM 4173 C CD . GLU B 1 22 ? 0.689 -9.389 -5.763 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 3
+ATOM 4174 O OE1 . GLU B 1 22 ? 1.899 -9.667 -5.908 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 3
+ATOM 4175 O OE2 . GLU B 1 22 ? -0.208 -10.181 -5.404 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 3
+ATOM 4176 H H . GLU B 1 22 ? -0.137 -5.278 -8.502 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 3
+ATOM 4177 H HA . GLU B 1 22 ? 1.273 -5.576 -5.965 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 3
+ATOM 4178 H HB2 . GLU B 1 22 ? 0.661 -7.584 -8.140 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 3
+ATOM 4179 H HB3 . GLU B 1 22 ? 2.106 -7.789 -7.170 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 3
+ATOM 4180 H HG2 . GLU B 1 22 ? 0.378 -7.345 -5.148 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 3
+ATOM 4181 H HG3 . GLU B 1 22 ? -0.786 -7.920 -6.326 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 3
+ATOM 4182 N N . ASP B 1 23 ? 3.526 -5.113 -6.965 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 3
+ATOM 4183 C CA . ASP B 1 23 ? 4.777 -4.613 -7.510 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 3
+ATOM 4184 C C . ASP B 1 23 ? 5.943 -5.396 -6.903 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 3
+ATOM 4185 O O . ASP B 1 23 ? 6.119 -5.409 -5.685 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 3
+ATOM 4186 C CB . ASP B 1 23 ? 4.973 -3.134 -7.171 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 3
+ATOM 4187 C CG . ASP B 1 23 ? 6.314 -2.542 -7.610 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 3
+ATOM 4188 O OD1 . ASP B 1 23 ? 7.346 -3.151 -7.256 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 3
+ATOM 4189 O OD2 . ASP B 1 23 ? 6.275 -1.494 -8.291 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 3
+ATOM 4190 H H . ASP B 1 23 ? 3.539 -5.301 -5.983 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 3
+ATOM 4191 H HA . ASP B 1 23 ? 4.696 -4.754 -8.588 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 3
+ATOM 4192 H HB2 . ASP B 1 23 ? 4.170 -2.561 -7.635 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 3
+ATOM 4193 H HB3 . ASP B 1 23 ? 4.873 -3.007 -6.093 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 3
+ATOM 4194 N N . VAL B 1 24 ? 6.709 -6.029 -7.778 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 3
+ATOM 4195 C CA . VAL B 1 24 ? 7.852 -6.812 -7.343 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 3
+ATOM 4196 C C . VAL B 1 24 ? 9.104 -5.933 -7.362 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 3
+ATOM 4197 O O . VAL B 1 24 ? 9.636 -5.626 -8.427 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 3
+ATOM 4198 C CB . VAL B 1 24 ? 7.989 -8.065 -8.211 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 3
+ATOM 4199 C CG1 . VAL B 1 24 ? 8.796 -9.146 -7.490 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 3
+ATOM 4200 C CG2 . VAL B 1 24 ? 6.617 -8.594 -8.632 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 3
+ATOM 4201 H H . VAL B 1 24 ? 6.558 -6.013 -8.767 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 3
+ATOM 4202 H HA . VAL B 1 24 ? 7.662 -7.131 -6.319 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 3
+ATOM 4203 H HB . VAL B 1 24 ? 8.533 -7.789 -9.115 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 3
+ATOM 4204 H HG11 . VAL B 1 24 ? 8.486 -9.195 -6.446 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 3
+ATOM 4205 H HG12 . VAL B 1 24 ? 8.620 -10.110 -7.967 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 3
+ATOM 4206 H HG13 . VAL B 1 24 ? 9.858 -8.904 -7.543 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 3
+ATOM 4207 H HG21 . VAL B 1 24 ? 5.950 -8.599 -7.769 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 3
+ATOM 4208 H HG22 . VAL B 1 24 ? 6.202 -7.951 -9.408 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 3
+ATOM 4209 H HG23 . VAL B 1 24 ? 6.720 -9.608 -9.017 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 3
+ATOM 4210 N N . GLY B 1 25 ? 9.538 -5.552 -6.169 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 3
+ATOM 4211 C CA . GLY B 1 25 ? 10.717 -4.713 -6.035 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 3
+ATOM 4212 C C . GLY B 1 25 ? 11.911 -5.524 -5.526 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 3
+ATOM 4213 O O . GLY B 1 25 ? 12.168 -5.569 -4.324 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 3
+ATOM 4214 H H . GLY B 1 25 ? 9.099 -5.806 -5.307 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 3
+ATOM 4215 H HA2 . GLY B 1 25 ? 10.961 -4.265 -6.998 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 3
+ATOM 4216 H HA3 . GLY B 1 25 ? 10.509 -3.894 -5.346 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 3
+ATOM 4217 N N . SER B 1 26 ? 12.609 -6.143 -6.466 1.00 0.00 ? ? ? ? ? ? 26 SER B N 3
+ATOM 4218 C CA . SER B 1 26 ? 13.769 -6.949 -6.128 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 3
+ATOM 4219 C C . SER B 1 26 ? 15.010 -6.061 -6.020 1.00 0.00 ? ? ? ? ? ? 26 SER B C 3
+ATOM 4220 O O . SER B 1 26 ? 15.610 -5.700 -7.032 1.00 0.00 ? ? ? ? ? ? 26 SER B O 3
+ATOM 4221 C CB . SER B 1 26 ? 13.995 -8.052 -7.165 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 3
+ATOM 4222 O OG . SER B 1 26 ? 14.253 -9.314 -6.554 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 3
+ATOM 4223 H H . SER B 1 26 ? 12.393 -6.101 -7.442 1.00 0.00 ? ? ? ? ? ? 26 SER B H 3
+ATOM 4224 H HA . SER B 1 26 ? 13.536 -7.400 -5.164 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 3
+ATOM 4225 H HB2 . SER B 1 26 ? 13.116 -8.133 -7.805 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 3
+ATOM 4226 H HB3 . SER B 1 26 ? 14.833 -7.781 -7.806 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 3
+ATOM 4227 H HG . SER B 1 26 ? 15.009 -9.771 -7.022 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 3
+ATOM 4228 N N . ASN B 1 27 ? 15.359 -5.734 -4.784 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 3
+ATOM 4229 C CA . ASN B 1 27 ? 16.518 -4.895 -4.531 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 3
+ATOM 4230 C C . ASN B 1 27 ? 16.141 -3.430 -4.759 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 3
+ATOM 4231 O O . ASN B 1 27 ? 16.224 -2.931 -5.880 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 3
+ATOM 4232 C CB . ASN B 1 27 ? 17.667 -5.241 -5.481 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 3
+ATOM 4233 C CG . ASN B 1 27 ? 19.021 -4.935 -4.838 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 3
+ATOM 4234 O OD1 . ASN B 1 27 ? 19.734 -5.814 -4.383 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 3
+ATOM 4235 N ND2 . ASN B 1 27 ? 19.334 -3.642 -4.826 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 3
+ATOM 4236 H H . ASN B 1 27 ? 14.866 -6.032 -3.967 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 3
+ATOM 4237 H HA . ASN B 1 27 ? 16.798 -5.098 -3.498 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 3
+ATOM 4238 H HB2 . ASN B 1 27 ? 17.617 -6.296 -5.749 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 3
+ATOM 4239 H HB3 . ASN B 1 27 ? 17.562 -4.672 -6.405 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 3
+ATOM 4240 H HD21 . ASN B 1 27 ? 18.704 -2.971 -5.217 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 3
+ATOM 4241 H HD22 . ASN B 1 27 ? 20.200 -3.342 -4.426 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 3
+ATOM 4242 N N . LYS B 1 28 ? 15.733 -2.782 -3.678 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 3
+ATOM 4243 C CA . LYS B 1 28 ? 15.343 -1.384 -3.745 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 3
+ATOM 4244 C C . LYS B 1 28 ? 16.440 -0.521 -3.118 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 3
+ATOM 4245 O O . LYS B 1 28 ? 17.242 -1.012 -2.325 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 3
+ATOM 4246 C CB . LYS B 1 28 ? 13.964 -1.181 -3.113 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 3
+ATOM 4247 C CG . LYS B 1 28 ? 12.919 -0.838 -4.177 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 3
+ATOM 4248 C CD . LYS B 1 28 ? 11.620 -1.611 -3.938 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 3
+ATOM 4249 C CE . LYS B 1 28 ? 10.489 -0.667 -3.525 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 3
+ATOM 4250 N NZ . LYS B 1 28 ? 9.199 -1.391 -3.483 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 3
+ATOM 4251 H H . LYS B 1 28 ? 15.668 -3.195 -2.769 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 3
+ATOM 4252 H HA . LYS B 1 28 ? 15.256 -1.120 -4.799 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 3
+ATOM 4253 H HB2 . LYS B 1 28 ? 13.666 -2.086 -2.584 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 3
+ATOM 4254 H HB3 . LYS B 1 28 ? 14.013 -0.381 -2.375 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 3
+ATOM 4255 H HG2 . LYS B 1 28 ? 12.717 0.233 -4.161 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 3
+ATOM 4256 H HG3 . LYS B 1 28 ? 13.310 -1.074 -5.166 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 3
+ATOM 4257 H HD2 . LYS B 1 28 ? 11.339 -2.146 -4.845 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 3
+ATOM 4258 H HD3 . LYS B 1 28 ? 11.775 -2.360 -3.161 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 3
+ATOM 4259 H HE2 . LYS B 1 28 ? 10.704 -0.239 -2.546 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 3
+ATOM 4260 H HE3 . LYS B 1 28 ? 10.424 0.163 -4.229 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 3
+ATOM 4261 H HZ1 . LYS B 1 28 ? 8.948 -1.678 -4.408 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 3
+ATOM 4262 H HZ2 . LYS B 1 28 ? 9.287 -2.196 -2.897 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 3
+ATOM 4263 H HZ3 . LYS B 1 28 ? 8.490 -0.788 -3.117 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 3
+ATOM 4264 N N . GLY B 1 29 ? 16.439 0.748 -3.497 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 3
+ATOM 4265 C CA . GLY B 1 29 ? 17.424 1.683 -2.981 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 3
+ATOM 4266 C C . GLY B 1 29 ? 17.189 3.089 -3.537 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 3
+ATOM 4267 O O . GLY B 1 29 ? 16.204 3.329 -4.234 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 3
+ATOM 4268 H H . GLY B 1 29 ? 15.783 1.139 -4.142 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 3
+ATOM 4269 H HA2 . GLY B 1 29 ? 17.374 1.706 -1.892 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 3
+ATOM 4270 H HA3 . GLY B 1 29 ? 18.426 1.346 -3.247 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 3
+ATOM 4271 N N . ALA B 1 30 ? 18.111 3.983 -3.208 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 3
+ATOM 4272 C CA . ALA B 1 30 ? 18.016 5.359 -3.666 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 3
+ATOM 4273 C C . ALA B 1 30 ? 16.756 6.000 -3.083 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 3
+ATOM 4274 O O . ALA B 1 30 ? 16.587 6.052 -1.865 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 3
+ATOM 4275 C CB . ALA B 1 30 ? 18.033 5.390 -5.195 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 3
+ATOM 4276 H H . ALA B 1 30 ? 18.909 3.780 -2.641 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 3
+ATOM 4277 H HA . ALA B 1 30 ? 18.891 5.893 -3.294 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 3
+ATOM 4278 H HB1 . ALA B 1 30 ? 18.952 4.931 -5.558 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 3
+ATOM 4279 H HB2 . ALA B 1 30 ? 17.175 4.838 -5.579 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 3
+ATOM 4280 H HB3 . ALA B 1 30 ? 17.983 6.424 -5.538 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 3
+ATOM 4281 N N . ILE B 1 31 ? 15.902 6.473 -3.979 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 3
+ATOM 4282 C CA . ILE B 1 31 ? 14.662 7.109 -3.569 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 3
+ATOM 4283 C C . ILE B 1 31 ? 13.491 6.168 -3.860 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 3
+ATOM 4284 O O . ILE B 1 31 ? 13.374 5.640 -4.965 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 3
+ATOM 4285 C CB . ILE B 1 31 ? 14.523 8.485 -4.224 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 3
+ATOM 4286 C CG1 . ILE B 1 31 ? 15.517 9.481 -3.624 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 3
+ATOM 4287 C CG2 . ILE B 1 31 ? 13.082 8.990 -4.138 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 3
+ATOM 4288 C CD1 . ILE B 1 31 ? 16.309 10.194 -4.722 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 3
+ATOM 4289 H H . ILE B 1 31 ? 16.047 6.427 -4.968 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 3
+ATOM 4290 H HA . ILE B 1 31 ? 14.717 7.269 -2.492 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 3
+ATOM 4291 H HB . ILE B 1 31 ? 14.766 8.385 -5.282 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 3
+ATOM 4292 H HG12 . ILE B 1 31 ? 14.982 10.215 -3.021 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 3
+ATOM 4293 H HG13 . ILE B 1 31 ? 16.202 8.959 -2.956 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 3
+ATOM 4294 H HG21 . ILE B 1 31 ? 12.443 8.379 -4.777 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 3
+ATOM 4295 H HG22 . ILE B 1 31 ? 12.734 8.923 -3.107 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 3
+ATOM 4296 H HG23 . ILE B 1 31 ? 13.040 10.028 -4.469 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 3
+ATOM 4297 H HD11 . ILE B 1 31 ? 17.339 10.336 -4.393 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 3
+ATOM 4298 H HD12 . ILE B 1 31 ? 16.298 9.590 -5.629 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 3
+ATOM 4299 H HD13 . ILE B 1 31 ? 15.856 11.164 -4.925 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 3
+ATOM 4300 N N . ILE B 1 32 ? 12.654 5.988 -2.849 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 3
+ATOM 4301 C CA . ILE B 1 32 ? 11.496 5.120 -2.983 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 3
+ATOM 4302 C C . ILE B 1 32 ? 10.241 5.880 -2.548 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 3
+ATOM 4303 O O . ILE B 1 32 ? 10.246 6.556 -1.520 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 3
+ATOM 4304 C CB . ILE B 1 32 ? 11.717 3.811 -2.222 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 3
+ATOM 4305 C CG1 . ILE B 1 32 ? 12.635 2.870 -3.004 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 3
+ATOM 4306 C CG2 . ILE B 1 32 ? 10.383 3.149 -1.870 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 3
+ATOM 4307 C CD1 . ILE B 1 32 ? 13.917 2.578 -2.221 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 3
+ATOM 4308 H H . ILE B 1 32 ? 12.756 6.421 -1.954 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 3
+ATOM 4309 H HA . ILE B 1 32 ? 11.398 4.866 -4.038 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 3
+ATOM 4310 H HB . ILE B 1 32 ? 12.218 4.043 -1.282 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 3
+ATOM 4311 H HG12 . ILE B 1 32 ? 12.112 1.937 -3.213 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 3
+ATOM 4312 H HG13 . ILE B 1 32 ? 12.886 3.318 -3.966 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 3
+ATOM 4313 H HG21 . ILE B 1 32 ? 9.882 2.833 -2.785 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 3
+ATOM 4314 H HG22 . ILE B 1 32 ? 10.564 2.280 -1.237 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 3
+ATOM 4315 H HG23 . ILE B 1 32 ? 9.753 3.862 -1.338 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 3
+ATOM 4316 H HD11 . ILE B 1 32 ? 14.625 3.394 -2.366 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 3
+ATOM 4317 H HD12 . ILE B 1 32 ? 13.682 2.485 -1.161 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 3
+ATOM 4318 H HD13 . ILE B 1 32 ? 14.357 1.647 -2.578 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 3
+ATOM 4319 N N . GLY B 1 33 ? 9.197 5.743 -3.351 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 3
+ATOM 4320 C CA . GLY B 1 33 ? 7.938 6.408 -3.062 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 3
+ATOM 4321 C C . GLY B 1 33 ? 6.753 5.585 -3.571 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 3
+ATOM 4322 O O . GLY B 1 33 ? 6.675 5.271 -4.758 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 3
+ATOM 4323 H H . GLY B 1 33 ? 9.201 5.191 -4.185 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 3
+ATOM 4324 H HA2 . GLY B 1 33 ? 7.843 6.563 -1.987 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 3
+ATOM 4325 H HA3 . GLY B 1 33 ? 7.928 7.394 -3.528 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 3
+ATOM 4326 N N . LEU B 1 34 ? 5.860 5.259 -2.648 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 3
+ATOM 4327 C CA . LEU B 1 34 ? 4.683 4.478 -2.988 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 3
+ATOM 4328 C C . LEU B 1 34 ? 3.455 5.097 -2.319 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 3
+ATOM 4329 O O . LEU B 1 34 ? 3.459 5.345 -1.114 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 3
+ATOM 4330 C CB . LEU B 1 34 ? 4.898 3.004 -2.637 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 3
+ATOM 4331 C CG . LEU B 1 34 ? 3.774 2.333 -1.844 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 3
+ATOM 4332 C CD1 . LEU B 1 34 ? 2.460 2.359 -2.628 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 3
+ATOM 4333 C CD2 . LEU B 1 34 ? 4.167 0.914 -1.430 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 3
+ATOM 4334 H H . LEU B 1 34 ? 5.932 5.518 -1.685 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 3
+ATOM 4335 H HA . LEU B 1 34 ? 4.554 4.536 -4.069 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 3
+ATOM 4336 H HB2 . LEU B 1 34 ? 5.045 2.448 -3.562 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 3
+ATOM 4337 H HB3 . LEU B 1 34 ? 5.821 2.919 -2.063 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 3
+ATOM 4338 H HG . LEU B 1 34 ? 3.614 2.903 -0.929 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 3
+ATOM 4339 H HD11 . LEU B 1 34 ? 2.025 1.359 -2.639 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 3
+ATOM 4340 H HD12 . LEU B 1 34 ? 1.766 3.051 -2.151 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 3
+ATOM 4341 H HD13 . LEU B 1 34 ? 2.653 2.683 -3.650 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 3
+ATOM 4342 H HD21 . LEU B 1 34 ? 4.641 0.408 -2.271 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 3
+ATOM 4343 H HD22 . LEU B 1 34 ? 4.865 0.960 -0.593 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 3
+ATOM 4344 H HD23 . LEU B 1 34 ? 3.276 0.363 -1.129 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 3
+ATOM 4345 N N . MET B 1 35 ? 2.433 5.329 -3.130 1.00 0.00 ? ? ? ? ? ? 35 MET B N 3
+ATOM 4346 C CA . MET B 1 35 ? 1.200 5.915 -2.631 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 3
+ATOM 4347 C C . MET B 1 35 ? -0.015 5.099 -3.078 1.00 0.00 ? ? ? ? ? ? 35 MET B C 3
+ATOM 4348 O O . MET B 1 35 ? -0.110 4.707 -4.240 1.00 0.00 ? ? ? ? ? ? 35 MET B O 3
+ATOM 4349 C CB . MET B 1 35 ? 1.070 7.349 -3.148 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 3
+ATOM 4350 C CG . MET B 1 35 ? 1.089 8.352 -1.993 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 3
+ATOM 4351 S SD . MET B 1 35 ? 0.812 10.003 -2.613 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 3
+ATOM 4352 C CE . MET B 1 35 ? -0.948 9.934 -2.902 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 3
+ATOM 4353 H H . MET B 1 35 ? 2.438 5.124 -4.109 1.00 0.00 ? ? ? ? ? ? 35 MET B H 3
+ATOM 4354 H HA . MET B 1 35 ? 1.283 5.890 -1.545 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 3
+ATOM 4355 H HB2 . MET B 1 35 ? 1.887 7.566 -3.836 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 3
+ATOM 4356 H HB3 . MET B 1 35 ? 0.143 7.454 -3.711 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 3
+ATOM 4357 H HG2 . MET B 1 35 ? 0.320 8.094 -1.264 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 3
+ATOM 4358 H HG3 . MET B 1 35 ? 2.047 8.305 -1.475 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 3
+ATOM 4359 H HE1 . MET B 1 35 ? -1.296 8.907 -2.786 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 3
+ATOM 4360 H HE2 . MET B 1 35 ? -1.460 10.574 -2.183 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 3
+ATOM 4361 H HE3 . MET B 1 35 ? -1.164 10.278 -3.913 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 3
+ATOM 4362 N N . VAL B 1 36 ? -0.913 4.868 -2.132 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 3
+ATOM 4363 C CA . VAL B 1 36 ? -2.118 4.106 -2.414 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 3
+ATOM 4364 C C . VAL B 1 36 ? -3.344 4.949 -2.059 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 3
+ATOM 4365 O O . VAL B 1 36 ? -3.305 5.744 -1.122 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 3
+ATOM 4366 C CB . VAL B 1 36 ? -2.077 2.768 -1.672 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 3
+ATOM 4367 C CG1 . VAL B 1 36 ? -3.482 2.327 -1.260 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 3
+ATOM 4368 C CG2 . VAL B 1 36 ? -1.390 1.693 -2.517 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 3
+ATOM 4369 H H . VAL B 1 36 ? -0.828 5.190 -1.190 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 3
+ATOM 4370 H HA . VAL B 1 36 ? -2.132 3.898 -3.484 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 3
+ATOM 4371 H HB . VAL B 1 36 ? -1.489 2.907 -0.764 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 3
+ATOM 4372 H HG11 . VAL B 1 36 ? -4.087 2.161 -2.152 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 3
+ATOM 4373 H HG12 . VAL B 1 36 ? -3.419 1.402 -0.687 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 3
+ATOM 4374 H HG13 . VAL B 1 36 ? -3.942 3.103 -0.648 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 3
+ATOM 4375 H HG21 . VAL B 1 36 ? -1.511 1.930 -3.574 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 3
+ATOM 4376 H HG22 . VAL B 1 36 ? -0.328 1.661 -2.271 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 3
+ATOM 4377 H HG23 . VAL B 1 36 ? -1.841 0.724 -2.308 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 3
+ATOM 4378 N N . GLY B 1 37 ? -4.404 4.747 -2.828 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 3
+ATOM 4379 C CA . GLY B 1 37 ? -5.640 5.479 -2.607 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 3
+ATOM 4380 C C . GLY B 1 37 ? -6.857 4.575 -2.815 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 3
+ATOM 4381 O O . GLY B 1 37 ? -7.096 4.096 -3.923 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 3
+ATOM 4382 H H . GLY B 1 37 ? -4.428 4.098 -3.589 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 3
+ATOM 4383 H HA2 . GLY B 1 37 ? -5.651 5.882 -1.594 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 3
+ATOM 4384 H HA3 . GLY B 1 37 ? -5.691 6.327 -3.288 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 3
+ATOM 4385 N N . GLY B 1 38 ? -7.594 4.370 -1.734 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 3
+ATOM 4386 C CA . GLY B 1 38 ? -8.780 3.532 -1.784 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 3
+ATOM 4387 C C . GLY B 1 38 ? -9.991 4.262 -1.199 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 3
+ATOM 4388 O O . GLY B 1 38 ? -10.266 4.156 -0.005 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 3
+ATOM 4389 H H . GLY B 1 38 ? -7.392 4.763 -0.837 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 3
+ATOM 4390 H HA2 . GLY B 1 38 ? -8.986 3.249 -2.816 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 3
+ATOM 4391 H HA3 . GLY B 1 38 ? -8.603 2.611 -1.230 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 3
+ATOM 4392 N N . VAL B 1 39 ? -10.682 4.985 -2.067 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 3
+ATOM 4393 C CA . VAL B 1 39 ? -11.857 5.732 -1.651 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 3
+ATOM 4394 C C . VAL B 1 39 ? -13.106 5.090 -2.260 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 3
+ATOM 4395 O O . VAL B 1 39 ? -13.182 4.900 -3.473 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 3
+ATOM 4396 C CB . VAL B 1 39 ? -11.700 7.207 -2.026 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 3
+ATOM 4397 C CG1 . VAL B 1 39 ? -12.994 7.980 -1.763 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 3
+ATOM 4398 C CG2 . VAL B 1 39 ? -10.522 7.839 -1.283 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 3
+ATOM 4399 H H . VAL B 1 39 ? -10.452 5.066 -3.037 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 3
+ATOM 4400 H HA . VAL B 1 39 ? -11.923 5.665 -0.565 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 3
+ATOM 4401 H HB . VAL B 1 39 ? -11.490 7.260 -3.095 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 3
+ATOM 4402 H HG11 . VAL B 1 39 ? -12.789 8.811 -1.088 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 3
+ATOM 4403 H HG12 . VAL B 1 39 ? -13.385 8.365 -2.705 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 3
+ATOM 4404 H HG13 . VAL B 1 39 ? -13.728 7.316 -1.309 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 3
+ATOM 4405 H HG21 . VAL B 1 39 ? -9.742 7.092 -1.135 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 3
+ATOM 4406 H HG22 . VAL B 1 39 ? -10.125 8.668 -1.869 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 3
+ATOM 4407 H HG23 . VAL B 1 39 ? -10.859 8.208 -0.314 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 3
+ATOM 4408 N N . VAL B 1 40 ? -14.054 4.774 -1.390 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 3
+ATOM 4409 C CA . VAL B 1 40 ? -15.295 4.158 -1.827 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 3
+ATOM 4410 C C . VAL B 1 40 ? -16.473 4.849 -1.137 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 3
+ATOM 4411 O O . VAL B 1 40 ? -16.520 4.926 0.089 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 3
+ATOM 4412 C CB . VAL B 1 40 ? -15.251 2.650 -1.567 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 3
+ATOM 4413 C CG1 . VAL B 1 40 ? -15.027 2.356 -0.083 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 3
+ATOM 4414 C CG2 . VAL B 1 40 ? -16.522 1.969 -2.076 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 3
+ATOM 4415 H H . VAL B 1 40 ? -13.984 4.932 -0.405 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 3
+ATOM 4416 H HA . VAL B 1 40 ? -15.378 4.312 -2.903 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 3
+ATOM 4417 H HB . VAL B 1 40 ? -14.406 2.240 -2.121 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 3
+ATOM 4418 H HG11 . VAL B 1 40 ? -14.470 3.177 0.370 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 3
+ATOM 4419 H HG12 . VAL B 1 40 ? -15.990 2.252 0.416 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 3
+ATOM 4420 H HG13 . VAL B 1 40 ? -14.460 1.431 0.023 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 3
+ATOM 4421 H HG21 . VAL B 1 40 ? -16.894 1.280 -1.317 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 3
+ATOM 4422 H HG22 . VAL B 1 40 ? -17.281 2.723 -2.284 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 3
+ATOM 4423 H HG23 . VAL B 1 40 ? -16.299 1.417 -2.989 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 3
+ATOM 4424 N N . ILE B 1 41 ? -17.396 5.333 -1.956 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 3
+ATOM 4425 C CA . ILE B 1 41 ? -18.570 6.015 -1.440 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 3
+ATOM 4426 C C . ILE B 1 41 ? -19.821 5.447 -2.114 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 3
+ATOM 4427 O O . ILE B 1 41 ? -20.017 5.622 -3.315 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 3
+ATOM 4428 C CB . ILE B 1 41 ? -18.422 7.529 -1.595 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 3
+ATOM 4429 C CG1 . ILE B 1 41 ? -19.789 8.205 -1.718 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 3
+ATOM 4430 C CG2 . ILE B 1 41 ? -17.505 7.873 -2.770 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 3
+ATOM 4431 C CD1 . ILE B 1 41 ? -19.667 9.723 -1.572 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 3
+ATOM 4432 H H . ILE B 1 41 ? -17.350 5.265 -2.952 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 3
+ATOM 4433 H HA . ILE B 1 41 ? -18.628 5.804 -0.372 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 3
+ATOM 4434 H HB . ILE B 1 41 ? -17.950 7.920 -0.693 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 3
+ATOM 4435 H HG12 . ILE B 1 41 ? -20.232 7.964 -2.685 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 3
+ATOM 4436 H HG13 . ILE B 1 41 ? -20.461 7.815 -0.954 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 3
+ATOM 4437 H HG21 . ILE B 1 41 ? -17.739 7.226 -3.615 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 3
+ATOM 4438 H HG22 . ILE B 1 41 ? -17.656 8.914 -3.057 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 3
+ATOM 4439 H HG23 . ILE B 1 41 ? -16.466 7.725 -2.476 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 3
+ATOM 4440 H HD11 . ILE B 1 41 ? -20.121 10.209 -2.435 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 3
+ATOM 4441 H HD12 . ILE B 1 41 ? -20.178 10.043 -0.663 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 3
+ATOM 4442 H HD13 . ILE B 1 41 ? -18.614 9.998 -1.512 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 3
+ATOM 4443 N N . ALA B 1 42 ? -20.636 4.779 -1.310 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 3
+ATOM 4444 C CA . ALA B 1 42 ? -21.862 4.185 -1.814 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 3
+ATOM 4445 C C . ALA B 1 42 ? -23.059 5.003 -1.324 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 3
+ATOM 4446 O O . ALA B 1 42 ? -23.753 4.599 -0.392 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 3
+ATOM 4447 C CB . ALA B 1 42 ? -21.939 2.721 -1.375 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 3
+ATOM 4448 H H . ALA B 1 42 ? -20.470 4.641 -0.334 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 3
+ATOM 4449 H HA . ALA B 1 42 ? -21.827 4.224 -2.903 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 3
+ATOM 4450 H HB1 . ALA B 1 42 ? -21.604 2.634 -0.341 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 3
+ATOM 4451 H HB2 . ALA B 1 42 ? -22.968 2.371 -1.454 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 3
+ATOM 4452 H HB3 . ALA B 1 42 ? -21.298 2.116 -2.017 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 3
+ATOM 4453 N N . LEU C 1 17 ? -16.020 -5.112 -12.080 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 3
+ATOM 4454 C CA . LEU C 1 17 ? -14.790 -4.356 -12.244 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 3
+ATOM 4455 C C . LEU C 1 17 ? -13.628 -5.141 -11.633 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 3
+ATOM 4456 O O . LEU C 1 17 ? -13.555 -5.301 -10.416 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 3
+ATOM 4457 C CB . LEU C 1 17 ? -14.948 -2.946 -11.673 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 3
+ATOM 4458 C CG . LEU C 1 17 ? -15.519 -1.895 -12.627 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 3
+ATOM 4459 C CD1 . LEU C 1 17 ? -14.499 -1.518 -13.702 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 3
+ATOM 4460 C CD2 . LEU C 1 17 ? -16.843 -2.367 -13.233 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 3
+ATOM 4461 H H . LEU C 1 17 ? -16.796 -4.586 -11.731 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 3
+ATOM 4462 H HA . LEU C 1 17 ? -14.612 -4.252 -13.315 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 3
+ATOM 4463 H HB2 . LEU C 1 17 ? -15.593 -3.000 -10.796 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 3
+ATOM 4464 H HB3 . LEU C 1 17 ? -13.972 -2.603 -11.330 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 3
+ATOM 4465 H HG . LEU C 1 17 ? -15.732 -0.993 -12.054 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 3
+ATOM 4466 H HD11 . LEU C 1 17 ? -13.677 -0.966 -13.245 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 3
+ATOM 4467 H HD12 . LEU C 1 17 ? -14.113 -2.423 -14.171 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 3
+ATOM 4468 H HD13 . LEU C 1 17 ? -14.979 -0.895 -14.457 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 3
+ATOM 4469 H HD21 . LEU C 1 17 ? -17.332 -1.531 -13.734 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 3
+ATOM 4470 H HD22 . LEU C 1 17 ? -16.649 -3.160 -13.956 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 3
+ATOM 4471 H HD23 . LEU C 1 17 ? -17.490 -2.746 -12.442 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 3
+ATOM 4472 N N . VAL C 1 18 ? -12.748 -5.610 -12.506 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 3
+ATOM 4473 C CA . VAL C 1 18 ? -11.593 -6.375 -12.067 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 3
+ATOM 4474 C C . VAL C 1 18 ? -10.326 -5.770 -12.675 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 3
+ATOM 4475 O O . VAL C 1 18 ? -9.957 -6.097 -13.802 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 3
+ATOM 4476 C CB . VAL C 1 18 ? -11.779 -7.852 -12.419 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 3
+ATOM 4477 C CG1 . VAL C 1 18 ? -12.101 -8.025 -13.905 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 3
+ATOM 4478 C CG2 . VAL C 1 18 ? -10.547 -8.669 -12.026 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 3
+ATOM 4479 H H . VAL C 1 18 ? -12.815 -5.475 -13.495 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 3
+ATOM 4480 H HA . VAL C 1 18 ? -11.536 -6.291 -10.982 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 3
+ATOM 4481 H HB . VAL C 1 18 ? -12.627 -8.229 -11.847 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 3
+ATOM 4482 H HG11 . VAL C 1 18 ? -12.461 -9.039 -14.083 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 3
+ATOM 4483 H HG12 . VAL C 1 18 ? -12.870 -7.310 -14.196 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 3
+ATOM 4484 H HG13 . VAL C 1 18 ? -11.200 -7.851 -14.494 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 3
+ATOM 4485 H HG21 . VAL C 1 18 ? -9.717 -7.994 -11.814 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 3
+ATOM 4486 H HG22 . VAL C 1 18 ? -10.771 -9.259 -11.138 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 3
+ATOM 4487 H HG23 . VAL C 1 18 ? -10.274 -9.333 -12.845 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 3
+ATOM 4488 N N . PHE C 1 19 ? -9.695 -4.899 -11.902 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 3
+ATOM 4489 C CA . PHE C 1 19 ? -8.477 -4.246 -12.351 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 3
+ATOM 4490 C C . PHE C 1 19 ? -7.238 -5.008 -11.874 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 3
+ATOM 4491 O O . PHE C 1 19 ? -7.186 -5.463 -10.733 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 3
+ATOM 4492 C CB . PHE C 1 19 ? -8.467 -2.846 -11.734 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 3
+ATOM 4493 C CG . PHE C 1 19 ? -8.071 -1.738 -12.712 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 3
+ATOM 4494 C CD1 . PHE C 1 19 ? -6.764 -1.555 -13.040 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 3
+ATOM 4495 C CD2 . PHE C 1 19 ? -9.027 -0.936 -13.255 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 3
+ATOM 4496 C CE1 . PHE C 1 19 ? -6.397 -0.526 -13.948 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 3
+ATOM 4497 C CE2 . PHE C 1 19 ? -8.660 0.092 -14.163 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 3
+ATOM 4498 C CZ . PHE C 1 19 ? -7.353 0.275 -14.490 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 3
+ATOM 4499 H H . PHE C 1 19 ? -10.001 -4.639 -10.987 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 3
+ATOM 4500 H HA . PHE C 1 19 ? -8.498 -4.235 -13.440 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 3
+ATOM 4501 H HB2 . PHE C 1 19 ? -9.458 -2.628 -11.336 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 3
+ATOM 4502 H HB3 . PHE C 1 19 ? -7.776 -2.836 -10.891 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 3
+ATOM 4503 H HD1 . PHE C 1 19 ? -5.998 -2.197 -12.606 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 3
+ATOM 4504 H HD2 . PHE C 1 19 ? -10.075 -1.083 -12.992 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 3
+ATOM 4505 H HE1 . PHE C 1 19 ? -5.349 -0.380 -14.211 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 3
+ATOM 4506 H HE2 . PHE C 1 19 ? -9.426 0.734 -14.597 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 3
+ATOM 4507 H HZ . PHE C 1 19 ? -7.071 1.064 -15.187 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 3
+ATOM 4508 N N . PHE C 1 20 ? -6.272 -5.125 -12.774 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 3
+ATOM 4509 C CA . PHE C 1 20 ? -5.038 -5.824 -12.460 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 3
+ATOM 4510 C C . PHE C 1 20 ? -3.819 -4.981 -12.837 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 3
+ATOM 4511 O O . PHE C 1 20 ? -3.573 -4.731 -14.017 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 3
+ATOM 4512 C CB . PHE C 1 20 ? -5.030 -7.111 -13.288 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 3
+ATOM 4513 C CG . PHE C 1 20 ? -5.188 -8.386 -12.459 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 3
+ATOM 4514 C CD1 . PHE C 1 20 ? -6.424 -8.786 -12.054 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 3
+ATOM 4515 C CD2 . PHE C 1 20 ? -4.093 -9.121 -12.125 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 3
+ATOM 4516 C CE1 . PHE C 1 20 ? -6.571 -9.970 -11.284 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 3
+ATOM 4517 C CE2 . PHE C 1 20 ? -4.240 -10.305 -11.355 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 3
+ATOM 4518 C CZ . PHE C 1 20 ? -5.476 -10.704 -10.951 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 3
+ATOM 4519 H H . PHE C 1 20 ? -6.323 -4.752 -13.700 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 3
+ATOM 4520 H HA . PHE C 1 20 ? -5.034 -6.006 -11.385 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 3
+ATOM 4521 H HB2 . PHE C 1 20 ? -5.836 -7.064 -14.021 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 3
+ATOM 4522 H HB3 . PHE C 1 20 ? -4.095 -7.166 -13.846 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 3
+ATOM 4523 H HD1 . PHE C 1 20 ? -7.301 -8.197 -12.321 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 3
+ATOM 4524 H HD2 . PHE C 1 20 ? -3.103 -8.801 -12.449 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 3
+ATOM 4525 H HE1 . PHE C 1 20 ? -7.561 -10.290 -10.960 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 3
+ATOM 4526 H HE2 . PHE C 1 20 ? -3.362 -10.894 -11.088 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 3
+ATOM 4527 H HZ . PHE C 1 20 ? -5.588 -11.613 -10.360 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 3
+ATOM 4528 N N . ALA C 1 21 ? -3.087 -4.565 -11.814 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 3
+ATOM 4529 C CA . ALA C 1 21 ? -1.899 -3.755 -12.024 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 3
+ATOM 4530 C C . ALA C 1 21 ? -0.695 -4.447 -11.381 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 3
+ATOM 4531 O O . ALA C 1 21 ? -0.414 -4.241 -10.201 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 3
+ATOM 4532 C CB . ALA C 1 21 ? -2.133 -2.351 -11.463 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 3
+ATOM 4533 H H . ALA C 1 21 ? -3.294 -4.773 -10.858 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 3
+ATOM 4534 H HA . ALA C 1 21 ? -1.734 -3.681 -13.098 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 3
+ATOM 4535 H HB1 . ALA C 1 21 ? -1.339 -2.104 -10.758 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 3
+ATOM 4536 H HB2 . ALA C 1 21 ? -2.132 -1.629 -12.279 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 3
+ATOM 4537 H HB3 . ALA C 1 21 ? -3.095 -2.320 -10.952 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 3
+ATOM 4538 N N . GLU C 1 22 ? -0.017 -5.253 -12.184 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 3
+ATOM 4539 C CA . GLU C 1 22 ? 1.150 -5.976 -11.708 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 3
+ATOM 4540 C C . GLU C 1 22 ? 2.403 -5.509 -12.452 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 3
+ATOM 4541 O O . GLU C 1 22 ? 2.456 -5.561 -13.679 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 3
+ATOM 4542 C CB . GLU C 1 22 ? 0.956 -7.487 -11.855 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 3
+ATOM 4543 C CG . GLU C 1 22 ? 0.862 -8.162 -10.485 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 3
+ATOM 4544 C CD . GLU C 1 22 ? 0.882 -9.686 -10.623 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 3
+ATOM 4545 O OE1 . GLU C 1 22 ? -0.171 -10.235 -11.014 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 3
+ATOM 4546 O OE2 . GLU C 1 22 ? 1.951 -10.268 -10.335 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 3
+ATOM 4547 H H . GLU C 1 22 ? -0.253 -5.415 -13.143 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 3
+ATOM 4548 H HA . GLU C 1 22 ? 1.233 -5.727 -10.650 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 3
+ATOM 4549 H HB2 . GLU C 1 22 ? 0.050 -7.687 -12.426 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 3
+ATOM 4550 H HB3 . GLU C 1 22 ? 1.788 -7.911 -12.417 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 3
+ATOM 4551 H HG2 . GLU C 1 22 ? 1.693 -7.839 -9.859 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 3
+ATOM 4552 H HG3 . GLU C 1 22 ? -0.055 -7.852 -9.984 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 3
+ATOM 4553 N N . ASP C 1 23 ? 3.381 -5.065 -11.676 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 3
+ATOM 4554 C CA . ASP C 1 23 ? 4.630 -4.589 -12.246 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 3
+ATOM 4555 C C . ASP C 1 23 ? 5.802 -5.226 -11.496 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 3
+ATOM 4556 O O . ASP C 1 23 ? 6.091 -4.857 -10.359 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 3
+ATOM 4557 C CB . ASP C 1 23 ? 4.754 -3.070 -12.112 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 3
+ATOM 4558 C CG . ASP C 1 23 ? 6.137 -2.503 -12.435 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 3
+ATOM 4559 O OD1 . ASP C 1 23 ? 6.941 -3.263 -13.017 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 3
+ATOM 4560 O OD2 . ASP C 1 23 ? 6.360 -1.322 -12.093 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 3
+ATOM 4561 H H . ASP C 1 23 ? 3.330 -5.026 -10.678 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 3
+ATOM 4562 H HA . ASP C 1 23 ? 4.597 -4.883 -13.295 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 3
+ATOM 4563 H HB2 . ASP C 1 23 ? 4.023 -2.602 -12.772 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 3
+ATOM 4564 H HB3 . ASP C 1 23 ? 4.490 -2.787 -11.093 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 3
+ATOM 4565 N N . VAL C 1 24 ? 6.446 -6.173 -12.164 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 3
+ATOM 4566 C CA . VAL C 1 24 ? 7.580 -6.865 -11.576 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 3
+ATOM 4567 C C . VAL C 1 24 ? 8.867 -6.118 -11.931 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 3
+ATOM 4568 O O . VAL C 1 24 ? 9.213 -5.992 -13.105 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 3
+ATOM 4569 C CB . VAL C 1 24 ? 7.593 -8.326 -12.027 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 3
+ATOM 4570 C CG1 . VAL C 1 24 ? 6.266 -9.014 -11.697 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 3
+ATOM 4571 C CG2 . VAL C 1 24 ? 7.911 -8.437 -13.519 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 3
+ATOM 4572 H H . VAL C 1 24 ? 6.204 -6.467 -13.089 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 3
+ATOM 4573 H HA . VAL C 1 24 ? 7.451 -6.846 -10.494 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 3
+ATOM 4574 H HB . VAL C 1 24 ? 8.382 -8.840 -11.477 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 3
+ATOM 4575 H HG11 . VAL C 1 24 ? 5.837 -9.431 -12.608 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 3
+ATOM 4576 H HG12 . VAL C 1 24 ? 6.440 -9.813 -10.977 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 3
+ATOM 4577 H HG13 . VAL C 1 24 ? 5.576 -8.285 -11.271 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 3
+ATOM 4578 H HG21 . VAL C 1 24 ? 7.201 -7.836 -14.088 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 3
+ATOM 4579 H HG22 . VAL C 1 24 ? 8.923 -8.074 -13.703 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 3
+ATOM 4580 H HG23 . VAL C 1 24 ? 7.837 -9.479 -13.831 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 3
+ATOM 4581 N N . GLY C 1 25 ? 9.543 -5.642 -10.895 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 3
+ATOM 4582 C CA . GLY C 1 25 ? 10.784 -4.912 -11.083 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 3
+ATOM 4583 C C . GLY C 1 25 ? 11.967 -5.678 -10.487 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 3
+ATOM 4584 O O . GLY C 1 25 ? 12.007 -5.927 -9.283 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 3
+ATOM 4585 H H . GLY C 1 25 ? 9.255 -5.749 -9.943 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 3
+ATOM 4586 H HA2 . GLY C 1 25 ? 10.954 -4.744 -12.146 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 3
+ATOM 4587 H HA3 . GLY C 1 25 ? 10.708 -3.931 -10.613 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 3
+ATOM 4588 N N . SER C 1 26 ? 12.902 -6.031 -11.357 1.00 0.00 ? ? ? ? ? ? 26 SER C N 3
+ATOM 4589 C CA . SER C 1 26 ? 14.082 -6.764 -10.932 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 3
+ATOM 4590 C C . SER C 1 26 ? 15.281 -5.817 -10.840 1.00 0.00 ? ? ? ? ? ? 26 SER C C 3
+ATOM 4591 O O . SER C 1 26 ? 15.828 -5.402 -11.860 1.00 0.00 ? ? ? ? ? ? 26 SER C O 3
+ATOM 4592 C CB . SER C 1 26 ? 14.389 -7.917 -11.890 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 3
+ATOM 4593 O OG . SER C 1 26 ? 15.428 -8.758 -11.396 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 3
+ATOM 4594 H H . SER C 1 26 ? 12.862 -5.824 -12.335 1.00 0.00 ? ? ? ? ? ? 26 SER C H 3
+ATOM 4595 H HA . SER C 1 26 ? 13.834 -7.164 -9.949 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 3
+ATOM 4596 H HB2 . SER C 1 26 ? 13.487 -8.508 -12.046 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 3
+ATOM 4597 H HB3 . SER C 1 26 ? 14.678 -7.515 -12.860 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 3
+ATOM 4598 H HG . SER C 1 26 ? 15.663 -8.498 -10.460 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 3
+ATOM 4599 N N . ASN C 1 27 ? 15.653 -5.504 -9.607 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 3
+ATOM 4600 C CA . ASN C 1 27 ? 16.776 -4.614 -9.368 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 3
+ATOM 4601 C C . ASN C 1 27 ? 16.305 -3.163 -9.480 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 3
+ATOM 4602 O O . ASN C 1 27 ? 16.654 -2.464 -10.431 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 3
+ATOM 4603 C CB . ASN C 1 27 ? 17.882 -4.833 -10.403 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 3
+ATOM 4604 C CG . ASN C 1 27 ? 19.263 -4.601 -9.787 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 3
+ATOM 4605 O OD1 . ASN C 1 27 ? 19.476 -4.767 -8.597 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 3
+ATOM 4606 N ND2 . ASN C 1 27 ? 20.187 -4.210 -10.660 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 3
+ATOM 4607 H H . ASN C 1 27 ? 15.202 -5.846 -8.783 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 3
+ATOM 4608 H HA . ASN C 1 27 ? 17.130 -4.861 -8.367 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 3
+ATOM 4609 H HB2 . ASN C 1 27 ? 17.821 -5.847 -10.796 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 3
+ATOM 4610 H HB3 . ASN C 1 27 ? 17.737 -4.155 -11.244 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 3
+ATOM 4611 H HD21 . ASN C 1 27 ? 19.946 -4.094 -11.624 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 3
+ATOM 4612 H HD22 . ASN C 1 27 ? 21.122 -4.033 -10.354 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 3
+ATOM 4613 N N . LYS C 1 28 ? 15.519 -2.752 -8.496 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 3
+ATOM 4614 C CA . LYS C 1 28 ? 14.996 -1.396 -8.472 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 3
+ATOM 4615 C C . LYS C 1 28 ? 16.040 -0.462 -7.855 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 3
+ATOM 4616 O O . LYS C 1 28 ? 16.957 -0.915 -7.173 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 3
+ATOM 4617 C CB . LYS C 1 28 ? 13.641 -1.357 -7.763 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 3
+ATOM 4618 C CG . LYS C 1 28 ? 12.492 -1.419 -8.772 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 3
+ATOM 4619 C CD . LYS C 1 28 ? 11.137 -1.391 -8.062 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 3
+ATOM 4620 C CE . LYS C 1 28 ? 10.023 -0.974 -9.024 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 3
+ATOM 4621 N NZ . LYS C 1 28 ? 8.744 -1.615 -8.645 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 3
+ATOM 4622 H H . LYS C 1 28 ? 15.240 -3.326 -7.726 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 3
+ATOM 4623 H HA . LYS C 1 28 ? 14.828 -1.092 -9.505 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 3
+ATOM 4624 H HB2 . LYS C 1 28 ? 13.565 -2.193 -7.068 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 3
+ATOM 4625 H HB3 . LYS C 1 28 ? 13.562 -0.444 -7.172 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 3
+ATOM 4626 H HG2 . LYS C 1 28 ? 12.563 -0.578 -9.461 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 3
+ATOM 4627 H HG3 . LYS C 1 28 ? 12.576 -2.328 -9.367 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 3
+ATOM 4628 H HD2 . LYS C 1 28 ? 10.918 -2.377 -7.650 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 3
+ATOM 4629 H HD3 . LYS C 1 28 ? 11.177 -0.697 -7.222 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 3
+ATOM 4630 H HE2 . LYS C 1 28 ? 9.911 0.110 -9.012 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 3
+ATOM 4631 H HE3 . LYS C 1 28 ? 10.290 -1.255 -10.043 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 3
+ATOM 4632 H HZ1 . LYS C 1 28 ? 8.383 -2.125 -9.426 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 3
+ATOM 4633 H HZ2 . LYS C 1 28 ? 8.899 -2.242 -7.881 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 3
+ATOM 4634 H HZ3 . LYS C 1 28 ? 8.087 -0.913 -8.372 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 3
+ATOM 4635 N N . GLY C 1 29 ? 15.865 0.824 -8.119 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 3
+ATOM 4636 C CA . GLY C 1 29 ? 16.780 1.826 -7.598 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 3
+ATOM 4637 C C . GLY C 1 29 ? 16.526 3.189 -8.244 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 3
+ATOM 4638 O O . GLY C 1 29 ? 15.551 3.362 -8.974 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 3
+ATOM 4639 H H . GLY C 1 29 ? 15.116 1.185 -8.675 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 3
+ATOM 4640 H HA2 . GLY C 1 29 ? 16.663 1.904 -6.517 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 3
+ATOM 4641 H HA3 . GLY C 1 29 ? 17.808 1.516 -7.786 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 3
+ATOM 4642 N N . ALA C 1 30 ? 17.420 4.123 -7.952 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 3
+ATOM 4643 C CA . ALA C 1 30 ? 17.305 5.465 -8.496 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 3
+ATOM 4644 C C . ALA C 1 30 ? 16.081 6.153 -7.889 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 3
+ATOM 4645 O O . ALA C 1 30 ? 16.165 6.740 -6.811 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 3
+ATOM 4646 C CB . ALA C 1 30 ? 17.237 5.394 -10.023 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 3
+ATOM 4647 H H . ALA C 1 30 ? 18.210 3.974 -7.358 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 3
+ATOM 4648 H HA . ALA C 1 30 ? 18.201 6.017 -8.210 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 3
+ATOM 4649 H HB1 . ALA C 1 30 ? 16.532 6.140 -10.390 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 3
+ATOM 4650 H HB2 . ALA C 1 30 ? 18.224 5.591 -10.440 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 3
+ATOM 4651 H HB3 . ALA C 1 30 ? 16.905 4.401 -10.326 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 3
+ATOM 4652 N N . ILE C 1 31 ? 14.972 6.059 -8.607 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 3
+ATOM 4653 C CA . ILE C 1 31 ? 13.732 6.665 -8.153 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 3
+ATOM 4654 C C . ILE C 1 31 ? 12.570 5.708 -8.430 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 3
+ATOM 4655 O O . ILE C 1 31 ? 12.310 5.360 -9.581 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 3
+ATOM 4656 C CB . ILE C 1 31 ? 13.551 8.049 -8.778 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 3
+ATOM 4657 C CG1 . ILE C 1 31 ? 14.577 9.040 -8.223 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 3
+ATOM 4658 C CG2 . ILE C 1 31 ? 12.116 8.549 -8.599 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 3
+ATOM 4659 C CD1 . ILE C 1 31 ? 15.759 9.200 -9.182 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 3
+ATOM 4660 H H . ILE C 1 31 ? 14.912 5.580 -9.483 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 3
+ATOM 4661 H HA . ILE C 1 31 ? 13.813 6.806 -7.075 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 3
+ATOM 4662 H HB . ILE C 1 31 ? 13.731 7.966 -9.850 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 3
+ATOM 4663 H HG12 . ILE C 1 31 ? 14.102 10.007 -8.060 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 3
+ATOM 4664 H HG13 . ILE C 1 31 ? 14.935 8.693 -7.254 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 3
+ATOM 4665 H HG21 . ILE C 1 31 ? 12.119 9.635 -8.506 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 3
+ATOM 4666 H HG22 . ILE C 1 31 ? 11.520 8.260 -9.464 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 3
+ATOM 4667 H HG23 . ILE C 1 31 ? 11.688 8.109 -7.699 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 3
+ATOM 4668 H HD11 . ILE C 1 31 ? 16.533 9.802 -8.706 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 3
+ATOM 4669 H HD12 . ILE C 1 31 ? 16.162 8.218 -9.429 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 3
+ATOM 4670 H HD13 . ILE C 1 31 ? 15.422 9.695 -10.093 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 3
+ATOM 4671 N N . ILE C 1 32 ? 11.903 5.312 -7.356 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 3
+ATOM 4672 C CA . ILE C 1 32 ? 10.775 4.403 -7.470 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 3
+ATOM 4673 C C . ILE C 1 32 ? 9.502 5.116 -7.008 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 3
+ATOM 4674 O O . ILE C 1 32 ? 9.290 5.302 -5.811 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 3
+ATOM 4675 C CB . ILE C 1 32 ? 11.058 3.101 -6.717 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 3
+ATOM 4676 C CG1 . ILE C 1 32 ? 12.243 2.357 -7.335 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 3
+ATOM 4677 C CG2 . ILE C 1 32 ? 9.805 2.225 -6.646 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 3
+ATOM 4678 C CD1 . ILE C 1 32 ? 13.571 2.959 -6.871 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 3
+ATOM 4679 H H . ILE C 1 32 ? 12.121 5.600 -6.424 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 3
+ATOM 4680 H HA . ILE C 1 32 ? 10.665 4.148 -8.524 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 3
+ATOM 4681 H HB . ILE C 1 32 ? 11.334 3.352 -5.693 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 3
+ATOM 4682 H HG12 . ILE C 1 32 ? 12.201 1.304 -7.057 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 3
+ATOM 4683 H HG13 . ILE C 1 32 ? 12.179 2.402 -8.422 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 3
+ATOM 4684 H HG21 . ILE C 1 32 ? 9.528 2.072 -5.603 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 3
+ATOM 4685 H HG22 . ILE C 1 32 ? 8.987 2.718 -7.170 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 3
+ATOM 4686 H HG23 . ILE C 1 32 ? 10.009 1.262 -7.113 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 3
+ATOM 4687 H HD11 . ILE C 1 32 ? 14.329 2.177 -6.827 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 3
+ATOM 4688 H HD12 . ILE C 1 32 ? 13.885 3.731 -7.574 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 3
+ATOM 4689 H HD13 . ILE C 1 32 ? 13.445 3.399 -5.881 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 3
+ATOM 4690 N N . GLY C 1 33 ? 8.688 5.495 -7.983 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 3
+ATOM 4691 C CA . GLY C 1 33 ? 7.442 6.184 -7.692 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 3
+ATOM 4692 C C . GLY C 1 33 ? 6.244 5.396 -8.223 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 3
+ATOM 4693 O O . GLY C 1 33 ? 6.103 5.213 -9.432 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 3
+ATOM 4694 H H . GLY C 1 33 ? 8.868 5.340 -8.954 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 3
+ATOM 4695 H HA2 . GLY C 1 33 ? 7.342 6.322 -6.615 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 3
+ATOM 4696 H HA3 . GLY C 1 33 ? 7.458 7.176 -8.141 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 3
+ATOM 4697 N N . LEU C 1 34 ? 5.410 4.950 -7.295 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 3
+ATOM 4698 C CA . LEU C 1 34 ? 4.227 4.186 -7.655 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 3
+ATOM 4699 C C . LEU C 1 34 ? 3.001 4.804 -6.980 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 3
+ATOM 4700 O O . LEU C 1 34 ? 3.003 5.034 -5.772 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 3
+ATOM 4701 C CB . LEU C 1 34 ? 4.427 2.705 -7.329 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 3
+ATOM 4702 C CG . LEU C 1 34 ? 3.419 2.090 -6.356 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 3
+ATOM 4703 C CD1 . LEU C 1 34 ? 2.126 1.706 -7.076 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 3
+ATOM 4704 C CD2 . LEU C 1 34 ? 4.033 0.905 -5.608 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 3
+ATOM 4705 H H . LEU C 1 34 ? 5.531 5.104 -6.314 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 3
+ATOM 4706 H HA . LEU C 1 34 ? 4.104 4.265 -8.735 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 3
+ATOM 4707 H HB2 . LEU C 1 34 ? 4.393 2.141 -8.261 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 3
+ATOM 4708 H HB3 . LEU C 1 34 ? 5.427 2.576 -6.915 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 3
+ATOM 4709 H HG . LEU C 1 34 ? 3.162 2.843 -5.611 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 3
+ATOM 4710 H HD11 . LEU C 1 34 ? 1.770 2.554 -7.662 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 3
+ATOM 4711 H HD12 . LEU C 1 34 ? 2.315 0.861 -7.738 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 3
+ATOM 4712 H HD13 . LEU C 1 34 ? 1.369 1.430 -6.342 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 3
+ATOM 4713 H HD21 . LEU C 1 34 ? 3.476 0.729 -4.687 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 3
+ATOM 4714 H HD22 . LEU C 1 34 ? 3.986 0.015 -6.236 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 3
+ATOM 4715 H HD23 . LEU C 1 34 ? 5.073 1.126 -5.367 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 3
+ATOM 4716 N N . MET C 1 35 ? 1.984 5.056 -7.791 1.00 0.00 ? ? ? ? ? ? 35 MET C N 3
+ATOM 4717 C CA . MET C 1 35 ? 0.754 5.643 -7.287 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 3
+ATOM 4718 C C . MET C 1 35 ? -0.466 4.848 -7.757 1.00 0.00 ? ? ? ? ? ? 35 MET C C 3
+ATOM 4719 O O . MET C 1 35 ? -0.638 4.618 -8.953 1.00 0.00 ? ? ? ? ? ? 35 MET C O 3
+ATOM 4720 C CB . MET C 1 35 ? 0.640 7.089 -7.776 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 3
+ATOM 4721 C CG . MET C 1 35 ? 1.215 8.063 -6.746 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 3
+ATOM 4722 S SD . MET C 1 35 ? 0.304 9.597 -6.782 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 3
+ATOM 4723 C CE . MET C 1 35 ? 1.538 10.707 -6.125 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 3
+ATOM 4724 H H . MET C 1 35 ? 1.991 4.867 -8.772 1.00 0.00 ? ? ? ? ? ? 35 MET C H 3
+ATOM 4725 H HA . MET C 1 35 ? 0.830 5.597 -6.201 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 3
+ATOM 4726 H HB2 . MET C 1 35 ? 1.170 7.199 -8.722 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 3
+ATOM 4727 H HB3 . MET C 1 35 ? -0.406 7.331 -7.967 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 3
+ATOM 4728 H HG2 . MET C 1 35 ? 1.164 7.624 -5.750 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 3
+ATOM 4729 H HG3 . MET C 1 35 ? 2.267 8.250 -6.958 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 3
+ATOM 4730 H HE1 . MET C 1 35 ? 1.061 11.434 -5.468 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 3
+ATOM 4731 H HE2 . MET C 1 35 ? 2.276 10.136 -5.561 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 3
+ATOM 4732 H HE3 . MET C 1 35 ? 2.032 11.227 -6.946 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 3
+ATOM 4733 N N . VAL C 1 36 ? -1.281 4.450 -6.791 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 3
+ATOM 4734 C CA . VAL C 1 36 ? -2.479 3.685 -7.090 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 3
+ATOM 4735 C C . VAL C 1 36 ? -3.703 4.431 -6.555 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 3
+ATOM 4736 O O . VAL C 1 36 ? -3.773 4.742 -5.367 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 3
+ATOM 4737 C CB . VAL C 1 36 ? -2.350 2.268 -6.528 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 3
+ATOM 4738 C CG1 . VAL C 1 36 ? -3.724 1.678 -6.205 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 3
+ATOM 4739 C CG2 . VAL C 1 36 ? -1.578 1.363 -7.491 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 3
+ATOM 4740 H H . VAL C 1 36 ? -1.133 4.641 -5.820 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 3
+ATOM 4741 H HA . VAL C 1 36 ? -2.560 3.611 -8.175 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 3
+ATOM 4742 H HB . VAL C 1 36 ? -1.783 2.326 -5.598 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 3
+ATOM 4743 H HG11 . VAL C 1 36 ? -3.704 0.600 -6.364 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 3
+ATOM 4744 H HG12 . VAL C 1 36 ? -3.974 1.887 -5.164 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 3
+ATOM 4745 H HG13 . VAL C 1 36 ? -4.474 2.128 -6.856 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 3
+ATOM 4746 H HG21 . VAL C 1 36 ? -2.259 0.975 -8.249 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 3
+ATOM 4747 H HG22 . VAL C 1 36 ? -0.787 1.938 -7.974 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 3
+ATOM 4748 H HG23 . VAL C 1 36 ? -1.139 0.534 -6.938 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 3
+ATOM 4749 N N . GLY C 1 37 ? -4.636 4.696 -7.457 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 3
+ATOM 4750 C CA . GLY C 1 37 ? -5.853 5.400 -7.090 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 3
+ATOM 4751 C C . GLY C 1 37 ? -7.089 4.545 -7.375 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 3
+ATOM 4752 O O . GLY C 1 37 ? -7.214 3.971 -8.456 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 3
+ATOM 4753 H H . GLY C 1 37 ? -4.570 4.440 -8.421 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 3
+ATOM 4754 H HA2 . GLY C 1 37 ? -5.822 5.660 -6.032 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 3
+ATOM 4755 H HA3 . GLY C 1 37 ? -5.917 6.336 -7.645 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 3
+ATOM 4756 N N . GLY C 1 38 ? -7.969 4.486 -6.387 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 3
+ATOM 4757 C CA . GLY C 1 38 ? -9.191 3.710 -6.519 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 3
+ATOM 4758 C C . GLY C 1 38 ? -10.384 4.460 -5.923 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 3
+ATOM 4759 O O . GLY C 1 38 ? -10.716 4.275 -4.753 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 3
+ATOM 4760 H H . GLY C 1 38 ? -7.859 4.955 -5.511 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 3
+ATOM 4761 H HA2 . GLY C 1 38 ? -9.379 3.497 -7.571 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 3
+ATOM 4762 H HA3 . GLY C 1 38 ? -9.072 2.750 -6.016 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 3
+ATOM 4763 N N . VAL C 1 39 ? -10.995 5.290 -6.754 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 3
+ATOM 4764 C CA . VAL C 1 39 ? -12.144 6.069 -6.324 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 3
+ATOM 4765 C C . VAL C 1 39 ? -13.413 5.485 -6.949 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 3
+ATOM 4766 O O . VAL C 1 39 ? -13.519 5.386 -8.170 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 3
+ATOM 4767 C CB . VAL C 1 39 ? -11.934 7.545 -6.666 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 3
+ATOM 4768 C CG1 . VAL C 1 39 ? -13.124 8.389 -6.207 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 3
+ATOM 4769 C CG2 . VAL C 1 39 ? -10.627 8.066 -6.064 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 3
+ATOM 4770 H H . VAL C 1 39 ? -10.719 5.435 -7.704 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 3
+ATOM 4771 H HA . VAL C 1 39 ? -12.214 5.980 -5.240 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 3
+ATOM 4772 H HB . VAL C 1 39 ? -11.861 7.631 -7.750 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 3
+ATOM 4773 H HG11 . VAL C 1 39 ? -13.320 8.198 -5.152 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 3
+ATOM 4774 H HG12 . VAL C 1 39 ? -12.896 9.446 -6.348 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 3
+ATOM 4775 H HG13 . VAL C 1 39 ? -14.004 8.126 -6.793 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 3
+ATOM 4776 H HG21 . VAL C 1 39 ? -10.434 7.558 -5.119 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 3
+ATOM 4777 H HG22 . VAL C 1 39 ? -9.806 7.873 -6.755 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 3
+ATOM 4778 H HG23 . VAL C 1 39 ? -10.710 9.139 -5.889 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 3
+ATOM 4779 N N . VAL C 1 40 ? -14.345 5.115 -6.082 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 3
+ATOM 4780 C CA . VAL C 1 40 ? -15.602 4.544 -6.534 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 3
+ATOM 4781 C C . VAL C 1 40 ? -16.762 5.276 -5.856 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 3
+ATOM 4782 O O . VAL C 1 40 ? -16.817 5.359 -4.630 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 3
+ATOM 4783 C CB . VAL C 1 40 ? -15.615 3.036 -6.276 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 3
+ATOM 4784 C CG1 . VAL C 1 40 ? -15.392 2.731 -4.794 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 3
+ATOM 4785 C CG2 . VAL C 1 40 ? -16.916 2.405 -6.776 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 3
+ATOM 4786 H H . VAL C 1 40 ? -14.251 5.199 -5.090 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 3
+ATOM 4787 H HA . VAL C 1 40 ? -15.668 4.703 -7.610 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 3
+ATOM 4788 H HB . VAL C 1 40 ? -14.791 2.594 -6.837 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 3
+ATOM 4789 H HG11 . VAL C 1 40 ? -16.266 3.046 -4.223 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 3
+ATOM 4790 H HG12 . VAL C 1 40 ? -15.239 1.660 -4.662 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 3
+ATOM 4791 H HG13 . VAL C 1 40 ? -14.513 3.270 -4.440 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 3
+ATOM 4792 H HG21 . VAL C 1 40 ? -17.766 2.950 -6.364 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 3
+ATOM 4793 H HG22 . VAL C 1 40 ? -16.948 2.453 -7.865 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 3
+ATOM 4794 H HG23 . VAL C 1 40 ? -16.961 1.364 -6.457 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 3
+ATOM 4795 N N . ILE C 1 41 ? -17.661 5.788 -6.683 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 3
+ATOM 4796 C CA . ILE C 1 41 ? -18.817 6.510 -6.179 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 3
+ATOM 4797 C C . ILE C 1 41 ? -20.095 5.834 -6.682 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 3
+ATOM 4798 O O . ILE C 1 41 ? -20.280 5.667 -7.886 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 3
+ATOM 4799 C CB . ILE C 1 41 ? -18.722 7.993 -6.542 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 3
+ATOM 4800 C CG1 . ILE C 1 41 ? -18.507 8.851 -5.294 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 3
+ATOM 4801 C CG2 . ILE C 1 41 ? -19.948 8.442 -7.342 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 3
+ATOM 4802 C CD1 . ILE C 1 41 ? -18.958 10.293 -5.535 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 3
+ATOM 4803 H H . ILE C 1 41 ? -17.610 5.716 -7.679 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 3
+ATOM 4804 H HA . ILE C 1 41 ? -18.795 6.443 -5.091 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 3
+ATOM 4805 H HB . ILE C 1 41 ? -17.851 8.133 -7.183 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 3
+ATOM 4806 H HG12 . ILE C 1 41 ? -19.064 8.428 -4.457 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 3
+ATOM 4807 H HG13 . ILE C 1 41 ? -17.454 8.837 -5.015 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 3
+ATOM 4808 H HG21 . ILE C 1 41 ? -20.843 8.320 -6.732 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 3
+ATOM 4809 H HG22 . ILE C 1 41 ? -19.837 9.490 -7.620 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 3
+ATOM 4810 H HG23 . ILE C 1 41 ? -20.036 7.834 -8.243 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 3
+ATOM 4811 H HD11 . ILE C 1 41 ? -18.365 10.729 -6.339 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 3
+ATOM 4812 H HD12 . ILE C 1 41 ? -20.011 10.303 -5.814 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 3
+ATOM 4813 H HD13 . ILE C 1 41 ? -18.817 10.875 -4.624 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 3
+ATOM 4814 N N . ALA C 1 42 ? -20.942 5.464 -5.733 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 3
+ATOM 4815 C CA . ALA C 1 42 ? -22.197 4.811 -6.065 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 3
+ATOM 4816 C C . ALA C 1 42 ? -23.360 5.642 -5.519 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 3
+ATOM 4817 O O . ALA C 1 42 ? -24.020 5.240 -4.562 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 3
+ATOM 4818 C CB . ALA C 1 42 ? -22.191 3.384 -5.512 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 3
+ATOM 4819 H H . ALA C 1 42 ? -20.784 5.604 -4.756 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 3
+ATOM 4820 H HA . ALA C 1 42 ? -22.271 4.766 -7.151 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 3
+ATOM 4821 H HB1 . ALA C 1 42 ? -22.978 3.280 -4.765 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 3
+ATOM 4822 H HB2 . ALA C 1 42 ? -22.366 2.679 -6.325 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 3
+ATOM 4823 H HB3 . ALA C 1 42 ? -21.225 3.176 -5.053 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 3
+ATOM 4824 N N . LEU D 1 17 ? -15.803 -5.625 -17.060 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 3
+ATOM 4825 C CA . LEU D 1 17 ? -14.706 -4.680 -17.178 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 3
+ATOM 4826 C C . LEU D 1 17 ? -13.454 -5.274 -16.530 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 3
+ATOM 4827 O O . LEU D 1 17 ? -13.325 -5.277 -15.307 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 3
+ATOM 4828 C CB . LEU D 1 17 ? -15.108 -3.319 -16.606 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 3
+ATOM 4829 C CG . LEU D 1 17 ? -14.162 -2.156 -16.914 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 3
+ATOM 4830 C CD1 . LEU D 1 17 ? -13.319 -2.449 -18.157 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 3
+ATOM 4831 C CD2 . LEU D 1 17 ? -14.933 -0.841 -17.041 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 3
+ATOM 4832 H H . LEU D 1 17 ? -16.137 -5.995 -17.927 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 3
+ATOM 4833 H HA . LEU D 1 17 ? -14.510 -4.537 -18.241 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 3
+ATOM 4834 H HB2 . LEU D 1 17 ? -16.098 -3.066 -16.984 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 3
+ATOM 4835 H HB3 . LEU D 1 17 ? -15.195 -3.414 -15.524 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 3
+ATOM 4836 H HG . LEU D 1 17 ? -13.473 -2.045 -16.076 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 3
+ATOM 4837 H HD11 . LEU D 1 17 ? -12.655 -3.290 -17.955 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 3
+ATOM 4838 H HD12 . LEU D 1 17 ? -13.976 -2.696 -18.991 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 3
+ATOM 4839 H HD13 . LEU D 1 17 ? -12.726 -1.570 -18.409 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 3
+ATOM 4840 H HD21 . LEU D 1 17 ? -15.178 -0.663 -18.088 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 3
+ATOM 4841 H HD22 . LEU D 1 17 ? -15.852 -0.901 -16.458 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 3
+ATOM 4842 H HD23 . LEU D 1 17 ? -14.319 -0.022 -16.668 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 3
+ATOM 4843 N N . VAL D 1 18 ? -12.562 -5.764 -17.379 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 3
+ATOM 4844 C CA . VAL D 1 18 ? -11.325 -6.360 -16.905 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 3
+ATOM 4845 C C . VAL D 1 18 ? -10.142 -5.516 -17.382 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 3
+ATOM 4846 O O . VAL D 1 18 ? -9.897 -5.407 -18.583 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 3
+ATOM 4847 C CB . VAL D 1 18 ? -11.240 -7.819 -17.356 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 3
+ATOM 4848 C CG1 . VAL D 1 18 ? -9.844 -8.391 -17.102 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 3
+ATOM 4849 C CG2 . VAL D 1 18 ? -12.313 -8.668 -16.673 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 3
+ATOM 4850 H H . VAL D 1 18 ? -12.674 -5.758 -18.373 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 3
+ATOM 4851 H HA . VAL D 1 18 ? -11.350 -6.344 -15.815 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 3
+ATOM 4852 H HB . VAL D 1 18 ? -11.424 -7.848 -18.430 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 3
+ATOM 4853 H HG11 . VAL D 1 18 ? -9.768 -9.379 -17.557 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 3
+ATOM 4854 H HG12 . VAL D 1 18 ? -9.095 -7.731 -17.540 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 3
+ATOM 4855 H HG13 . VAL D 1 18 ? -9.674 -8.472 -16.028 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 3
+ATOM 4856 H HG21 . VAL D 1 18 ? -11.840 -9.360 -15.975 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 3
+ATOM 4857 H HG22 . VAL D 1 18 ? -13.000 -8.018 -16.130 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 3
+ATOM 4858 H HG23 . VAL D 1 18 ? -12.865 -9.231 -17.425 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 3
+ATOM 4859 N N . PHE D 1 19 ? -9.439 -4.940 -16.418 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 3
+ATOM 4860 C CA . PHE D 1 19 ? -8.287 -4.110 -16.725 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 3
+ATOM 4861 C C . PHE D 1 19 ? -6.986 -4.804 -16.318 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 3
+ATOM 4862 O O . PHE D 1 19 ? -6.496 -4.611 -15.206 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 3
+ATOM 4863 C CB . PHE D 1 19 ? -8.437 -2.820 -15.916 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 3
+ATOM 4864 C CG . PHE D 1 19 ? -8.019 -1.558 -16.674 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 3
+ATOM 4865 C CD1 . PHE D 1 19 ? -6.766 -1.459 -17.192 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 3
+ATOM 4866 C CD2 . PHE D 1 19 ? -8.902 -0.535 -16.829 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 3
+ATOM 4867 C CE1 . PHE D 1 19 ? -6.378 -0.288 -17.895 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 3
+ATOM 4868 C CE2 . PHE D 1 19 ? -8.515 0.636 -17.533 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 3
+ATOM 4869 C CZ . PHE D 1 19 ? -7.261 0.735 -18.050 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 3
+ATOM 4870 H H . PHE D 1 19 ? -9.644 -5.034 -15.444 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 3
+ATOM 4871 H HA . PHE D 1 19 ? -8.286 -3.943 -17.802 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 3
+ATOM 4872 H HB2 . PHE D 1 19 ? -9.476 -2.717 -15.605 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 3
+ATOM 4873 H HB3 . PHE D 1 19 ? -7.839 -2.901 -15.008 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 3
+ATOM 4874 H HD1 . PHE D 1 19 ? -6.058 -2.279 -17.067 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 3
+ATOM 4875 H HD2 . PHE D 1 19 ? -9.907 -0.614 -16.414 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 3
+ATOM 4876 H HE1 . PHE D 1 19 ? -5.374 -0.209 -18.310 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 3
+ATOM 4877 H HE2 . PHE D 1 19 ? -9.222 1.456 -17.657 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 3
+ATOM 4878 H HZ . PHE D 1 19 ? -6.964 1.634 -18.590 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 3
+ATOM 4879 N N . PHE D 1 20 ? -6.463 -5.599 -17.241 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 3
+ATOM 4880 C CA . PHE D 1 20 ? -5.228 -6.323 -16.992 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 3
+ATOM 4881 C C . PHE D 1 20 ? -4.015 -5.515 -17.457 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 3
+ATOM 4882 O O . PHE D 1 20 ? -3.764 -5.399 -18.655 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 3
+ATOM 4883 C CB . PHE D 1 20 ? -5.301 -7.621 -17.799 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 3
+ATOM 4884 C CG . PHE D 1 20 ? -5.070 -8.885 -16.967 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 3
+ATOM 4885 C CD1 . PHE D 1 20 ? -6.106 -9.454 -16.293 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 3
+ATOM 4886 C CD2 . PHE D 1 20 ? -3.830 -9.439 -16.901 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 3
+ATOM 4887 C CE1 . PHE D 1 20 ? -5.892 -10.626 -15.522 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 3
+ATOM 4888 C CE2 . PHE D 1 20 ? -3.616 -10.611 -16.130 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 3
+ATOM 4889 C CZ . PHE D 1 20 ? -4.651 -11.180 -15.456 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 3
+ATOM 4890 H H . PHE D 1 20 ? -6.867 -5.751 -18.142 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 3
+ATOM 4891 H HA . PHE D 1 20 ? -5.162 -6.489 -15.917 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 3
+ATOM 4892 H HB2 . PHE D 1 20 ? -6.279 -7.686 -18.276 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 3
+ATOM 4893 H HB3 . PHE D 1 20 ? -4.559 -7.583 -18.596 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 3
+ATOM 4894 H HD1 . PHE D 1 20 ? -7.100 -9.010 -16.346 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 3
+ATOM 4895 H HD2 . PHE D 1 20 ? -3.000 -8.983 -17.441 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 3
+ATOM 4896 H HE1 . PHE D 1 20 ? -6.722 -11.082 -14.982 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 3
+ATOM 4897 H HE2 . PHE D 1 20 ? -2.622 -11.055 -16.077 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 3
+ATOM 4898 H HZ . PHE D 1 20 ? -4.487 -12.080 -14.864 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 3
+ATOM 4899 N N . ALA D 1 21 ? -3.294 -4.978 -16.483 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 3
+ATOM 4900 C CA . ALA D 1 21 ? -2.113 -4.184 -16.778 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 3
+ATOM 4901 C C . ALA D 1 21 ? -0.890 -4.839 -16.133 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 3
+ATOM 4902 O O . ALA D 1 21 ? -0.679 -4.715 -14.927 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 3
+ATOM 4903 C CB . ALA D 1 21 ? -2.329 -2.749 -16.294 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 3
+ATOM 4904 H H . ALA D 1 21 ? -3.505 -5.077 -15.511 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 3
+ATOM 4905 H HA . ALA D 1 21 ? -1.981 -4.174 -17.860 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 3
+ATOM 4906 H HB1 . ALA D 1 21 ? -1.370 -2.234 -16.243 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 3
+ATOM 4907 H HB2 . ALA D 1 21 ? -2.985 -2.226 -16.990 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 3
+ATOM 4908 H HB3 . ALA D 1 21 ? -2.787 -2.764 -15.305 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 3
+ATOM 4909 N N . GLU D 1 22 ? -0.116 -5.521 -16.965 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 3
+ATOM 4910 C CA . GLU D 1 22 ? 1.080 -6.195 -16.490 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 3
+ATOM 4911 C C . GLU D 1 22 ? 2.320 -5.625 -17.183 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 3
+ATOM 4912 O O . GLU D 1 22 ? 2.301 -5.368 -18.385 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 3
+ATOM 4913 C CB . GLU D 1 22 ? 0.979 -7.706 -16.704 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 3
+ATOM 4914 C CG . GLU D 1 22 ? 1.311 -8.466 -15.418 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 3
+ATOM 4915 C CD . GLU D 1 22 ? 0.500 -9.760 -15.320 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 3
+ATOM 4916 O OE1 . GLU D 1 22 ? -0.696 -9.655 -14.972 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 3
+ATOM 4917 O OE2 . GLU D 1 22 ? 1.095 -10.824 -15.596 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 3
+ATOM 4918 H H . GLU D 1 22 ? -0.295 -5.616 -17.944 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 3
+ATOM 4919 H HA . GLU D 1 22 ? 1.125 -5.988 -15.421 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 3
+ATOM 4920 H HB2 . GLU D 1 22 ? -0.028 -7.964 -17.033 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 3
+ATOM 4921 H HB3 . GLU D 1 22 ? 1.661 -8.012 -17.497 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 3
+ATOM 4922 H HG2 . GLU D 1 22 ? 2.376 -8.697 -15.392 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 3
+ATOM 4923 H HG3 . GLU D 1 22 ? 1.101 -7.835 -14.555 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 3
+ATOM 4924 N N . ASP D 1 23 ? 3.369 -5.444 -16.393 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 3
+ATOM 4925 C CA . ASP D 1 23 ? 4.615 -4.910 -16.915 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 3
+ATOM 4926 C C . ASP D 1 23 ? 5.790 -5.540 -16.164 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 3
+ATOM 4927 O O . ASP D 1 23 ? 5.706 -5.776 -14.959 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 3
+ATOM 4928 C CB . ASP D 1 23 ? 4.688 -3.394 -16.721 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 3
+ATOM 4929 C CG . ASP D 1 23 ? 6.008 -2.750 -17.150 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 3
+ATOM 4930 O OD1 . ASP D 1 23 ? 6.755 -3.426 -17.890 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 3
+ATOM 4931 O OD2 . ASP D 1 23 ? 6.240 -1.597 -16.728 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 3
+ATOM 4932 H H . ASP D 1 23 ? 3.376 -5.656 -15.416 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 3
+ATOM 4933 H HA . ASP D 1 23 ? 4.614 -5.163 -17.975 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 3
+ATOM 4934 H HB2 . ASP D 1 23 ? 3.876 -2.931 -17.282 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 3
+ATOM 4935 H HB3 . ASP D 1 23 ? 4.517 -3.169 -15.668 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 3
+ATOM 4936 N N . VAL D 1 24 ? 6.857 -5.794 -16.906 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 3
+ATOM 4937 C CA . VAL D 1 24 ? 8.047 -6.392 -16.325 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 3
+ATOM 4938 C C . VAL D 1 24 ? 9.266 -5.536 -16.675 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 3
+ATOM 4939 O O . VAL D 1 24 ? 9.339 -4.970 -17.765 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 3
+ATOM 4940 C CB . VAL D 1 24 ? 8.183 -7.844 -16.789 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 3
+ATOM 4941 C CG1 . VAL D 1 24 ? 6.886 -8.619 -16.551 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 3
+ATOM 4942 C CG2 . VAL D 1 24 ? 8.601 -7.913 -18.259 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 3
+ATOM 4943 H H . VAL D 1 24 ? 6.917 -5.599 -17.885 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 3
+ATOM 4944 H HA . VAL D 1 24 ? 7.919 -6.395 -15.242 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 3
+ATOM 4945 H HB . VAL D 1 24 ? 8.968 -8.314 -16.196 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 3
+ATOM 4946 H HG11 . VAL D 1 24 ? 6.941 -9.134 -15.592 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 3
+ATOM 4947 H HG12 . VAL D 1 24 ? 6.044 -7.926 -16.543 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 3
+ATOM 4948 H HG13 . VAL D 1 24 ? 6.747 -9.350 -17.348 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 3
+ATOM 4949 H HG21 . VAL D 1 24 ? 7.713 -7.983 -18.887 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 3
+ATOM 4950 H HG22 . VAL D 1 24 ? 9.160 -7.014 -18.520 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 3
+ATOM 4951 H HG23 . VAL D 1 24 ? 9.229 -8.790 -18.418 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 3
+ATOM 4952 N N . GLY D 1 25 ? 10.192 -5.468 -15.730 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 3
+ATOM 4953 C CA . GLY D 1 25 ? 11.404 -4.691 -15.925 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 3
+ATOM 4954 C C . GLY D 1 25 ? 12.621 -5.417 -15.348 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 3
+ATOM 4955 O O . GLY D 1 25 ? 12.797 -5.470 -14.132 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 3
+ATOM 4956 H H . GLY D 1 25 ? 10.125 -5.931 -14.847 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 3
+ATOM 4957 H HA2 . GLY D 1 25 ? 11.556 -4.508 -16.989 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 3
+ATOM 4958 H HA3 . GLY D 1 25 ? 11.297 -3.717 -15.447 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 3
+ATOM 4959 N N . SER D 1 26 ? 13.428 -5.959 -16.248 1.00 0.00 ? ? ? ? ? ? 26 SER D N 3
+ATOM 4960 C CA . SER D 1 26 ? 14.623 -6.680 -15.843 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 3
+ATOM 4961 C C . SER D 1 26 ? 15.787 -5.704 -15.663 1.00 0.00 ? ? ? ? ? ? 26 SER D C 3
+ATOM 4962 O O . SER D 1 26 ? 16.334 -5.197 -16.641 1.00 0.00 ? ? ? ? ? ? 26 SER D O 3
+ATOM 4963 C CB . SER D 1 26 ? 14.988 -7.759 -16.865 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 3
+ATOM 4964 O OG . SER D 1 26 ? 15.578 -8.900 -16.249 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 3
+ATOM 4965 H H . SER D 1 26 ? 13.277 -5.912 -17.235 1.00 0.00 ? ? ? ? ? ? 26 SER D H 3
+ATOM 4966 H HA . SER D 1 26 ? 14.368 -7.152 -14.894 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 3
+ATOM 4967 H HB2 . SER D 1 26 ? 14.092 -8.062 -17.408 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 3
+ATOM 4968 H HB3 . SER D 1 26 ? 15.680 -7.345 -17.598 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 3
+ATOM 4969 H HG . SER D 1 26 ? 15.907 -9.535 -16.948 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 3
+ATOM 4970 N N . ASN D 1 27 ? 16.133 -5.471 -14.405 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 3
+ATOM 4971 C CA . ASN D 1 27 ? 17.223 -4.565 -14.084 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 3
+ATOM 4972 C C . ASN D 1 27 ? 16.705 -3.126 -14.100 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 3
+ATOM 4973 O O . ASN D 1 27 ? 17.142 -2.314 -14.914 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 3
+ATOM 4974 C CB . ASN D 1 27 ? 18.350 -4.674 -15.113 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 3
+ATOM 4975 C CG . ASN D 1 27 ? 19.696 -4.291 -14.493 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 3
+ATOM 4976 O OD1 . ASN D 1 27 ? 19.959 -3.143 -14.177 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 3
+ATOM 4977 N ND2 . ASN D 1 27 ? 20.530 -5.315 -14.338 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 3
+ATOM 4978 H H . ASN D 1 27 ? 15.684 -5.888 -13.615 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 3
+ATOM 4979 H HA . ASN D 1 27 ? 17.569 -4.873 -13.098 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 3
+ATOM 4980 H HB2 . ASN D 1 27 ? 18.399 -5.692 -15.498 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 3
+ATOM 4981 H HB3 . ASN D 1 27 ? 18.138 -4.022 -15.960 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 3
+ATOM 4982 H HD21 . ASN D 1 27 ? 20.252 -6.234 -14.619 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 3
+ATOM 4983 H HD22 . ASN D 1 27 ? 21.436 -5.167 -13.941 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 3
+ATOM 4984 N N . LYS D 1 28 ? 15.780 -2.853 -13.192 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 3
+ATOM 4985 C CA . LYS D 1 28 ? 15.197 -1.526 -13.091 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 3
+ATOM 4986 C C . LYS D 1 28 ? 16.229 -0.565 -12.496 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 3
+ATOM 4987 O O . LYS D 1 28 ? 17.341 -0.971 -12.163 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 3
+ATOM 4988 C CB . LYS D 1 28 ? 13.882 -1.575 -12.312 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 3
+ATOM 4989 C CG . LYS D 1 28 ? 12.682 -1.580 -13.261 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 3
+ATOM 4990 C CD . LYS D 1 28 ? 11.367 -1.644 -12.482 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 3
+ATOM 4991 C CE . LYS D 1 28 ? 10.172 -1.386 -13.402 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 3
+ATOM 4992 N NZ . LYS D 1 28 ? 8.909 -1.765 -12.730 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 3
+ATOM 4993 H H . LYS D 1 28 ? 15.429 -3.519 -12.533 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 3
+ATOM 4994 H HA . LYS D 1 28 ? 14.961 -1.195 -14.103 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 3
+ATOM 4995 H HB2 . LYS D 1 28 ? 13.859 -2.467 -11.686 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 3
+ATOM 4996 H HB3 . LYS D 1 28 ? 13.818 -0.716 -11.644 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 3
+ATOM 4997 H HG2 . LYS D 1 28 ? 12.699 -0.683 -13.880 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 3
+ATOM 4998 H HG3 . LYS D 1 28 ? 12.751 -2.434 -13.936 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 3
+ATOM 4999 H HD2 . LYS D 1 28 ? 11.265 -2.623 -12.013 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 3
+ATOM 5000 H HD3 . LYS D 1 28 ? 11.379 -0.906 -11.681 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 3
+ATOM 5001 H HE2 . LYS D 1 28 ? 10.140 -0.333 -13.681 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 3
+ATOM 5002 H HE3 . LYS D 1 28 ? 10.285 -1.957 -14.324 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 3
+ATOM 5003 H HZ1 . LYS D 1 28 ? 8.962 -1.524 -11.761 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 3
+ATOM 5004 H HZ2 . LYS D 1 28 ? 8.146 -1.276 -13.154 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 3
+ATOM 5005 H HZ3 . LYS D 1 28 ? 8.765 -2.750 -12.822 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 3
+ATOM 5006 N N . GLY D 1 29 ? 15.823 0.691 -12.380 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 3
+ATOM 5007 C CA . GLY D 1 29 ? 16.698 1.713 -11.831 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 3
+ATOM 5008 C C . GLY D 1 29 ? 16.641 2.991 -12.670 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 3
+ATOM 5009 O O . GLY D 1 29 ? 17.361 3.122 -13.658 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 3
+ATOM 5010 H H . GLY D 1 29 ? 14.916 1.013 -12.654 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 3
+ATOM 5011 H HA2 . GLY D 1 29 ? 16.406 1.934 -10.805 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 3
+ATOM 5012 H HA3 . GLY D 1 29 ? 17.722 1.341 -11.798 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 3
+ATOM 5013 N N . ALA D 1 30 ? 15.778 3.902 -12.244 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 3
+ATOM 5014 C CA . ALA D 1 30 ? 15.618 5.166 -12.943 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 3
+ATOM 5015 C C . ALA D 1 30 ? 14.416 5.915 -12.364 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 3
+ATOM 5016 O O . ALA D 1 30 ? 14.002 5.654 -11.236 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 3
+ATOM 5017 C CB . ALA D 1 30 ? 15.474 4.905 -14.444 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 3
+ATOM 5018 H H . ALA D 1 30 ? 15.196 3.788 -11.439 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 3
+ATOM 5019 H HA . ALA D 1 30 ? 16.519 5.755 -12.774 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 3
+ATOM 5020 H HB1 . ALA D 1 30 ? 16.271 5.421 -14.980 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 3
+ATOM 5021 H HB2 . ALA D 1 30 ? 15.543 3.834 -14.634 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 3
+ATOM 5022 H HB3 . ALA D 1 30 ? 14.507 5.274 -14.786 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 3
+ATOM 5023 N N . ILE D 1 31 ? 13.891 6.833 -13.163 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 3
+ATOM 5024 C CA . ILE D 1 31 ? 12.745 7.622 -12.744 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 3
+ATOM 5025 C C . ILE D 1 31 ? 11.461 6.841 -13.030 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 3
+ATOM 5026 O O . ILE D 1 31 ? 10.825 7.042 -14.064 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 3
+ATOM 5027 C CB . ILE D 1 31 ? 12.781 9.006 -13.395 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 3
+ATOM 5028 C CG1 . ILE D 1 31 ? 13.979 9.816 -12.896 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 3
+ATOM 5029 C CG2 . ILE D 1 31 ? 11.459 9.747 -13.182 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 3
+ATOM 5030 C CD1 . ILE D 1 31 ? 15.153 9.717 -13.872 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 3
+ATOM 5031 H H . ILE D 1 31 ? 14.234 7.040 -14.079 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 3
+ATOM 5032 H HA . ILE D 1 31 ? 12.827 7.770 -11.667 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 3
+ATOM 5033 H HB . ILE D 1 31 ? 12.906 8.875 -14.470 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 3
+ATOM 5034 H HG12 . ILE D 1 31 ? 13.691 10.860 -12.773 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 3
+ATOM 5035 H HG13 . ILE D 1 31 ? 14.285 9.453 -11.915 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 3
+ATOM 5036 H HG21 . ILE D 1 31 ? 11.051 10.046 -14.147 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 3
+ATOM 5037 H HG22 . ILE D 1 31 ? 10.752 9.090 -12.676 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 3
+ATOM 5038 H HG23 . ILE D 1 31 ? 11.634 10.633 -12.571 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 3
+ATOM 5039 H HD11 . ILE D 1 31 ? 15.976 10.337 -13.515 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 3
+ATOM 5040 H HD12 . ILE D 1 31 ? 15.483 8.680 -13.939 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 3
+ATOM 5041 H HD13 . ILE D 1 31 ? 14.838 10.062 -14.856 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 3
+ATOM 5042 N N . ILE D 1 32 ? 11.118 5.966 -12.097 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 3
+ATOM 5043 C CA . ILE D 1 32 ? 9.921 5.154 -12.236 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 3
+ATOM 5044 C C . ILE D 1 32 ? 8.708 5.956 -11.761 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 3
+ATOM 5045 O O . ILE D 1 32 ? 8.667 6.410 -10.619 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 3
+ATOM 5046 C CB . ILE D 1 32 ? 10.095 3.816 -11.513 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 3
+ATOM 5047 C CG1 . ILE D 1 32 ? 11.241 3.007 -12.125 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 3
+ATOM 5048 C CG2 . ILE D 1 32 ? 8.783 3.029 -11.495 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 3
+ATOM 5049 C CD1 . ILE D 1 32 ? 11.875 2.082 -11.085 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 3
+ATOM 5050 H H . ILE D 1 32 ? 11.641 5.808 -11.259 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 3
+ATOM 5051 H HA . ILE D 1 32 ? 9.797 4.933 -13.296 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 3
+ATOM 5052 H HB . ILE D 1 32 ? 10.362 4.020 -10.477 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 3
+ATOM 5053 H HG12 . ILE D 1 32 ? 10.867 2.417 -12.962 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 3
+ATOM 5054 H HG13 . ILE D 1 32 ? 11.996 3.684 -12.524 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 3
+ATOM 5055 H HG21 . ILE D 1 32 ? 8.866 2.168 -12.159 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 3
+ATOM 5056 H HG22 . ILE D 1 32 ? 8.579 2.686 -10.480 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 3
+ATOM 5057 H HG23 . ILE D 1 32 ? 7.969 3.670 -11.832 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 3
+ATOM 5058 H HD11 . ILE D 1 32 ? 12.660 2.619 -10.552 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 3
+ATOM 5059 H HD12 . ILE D 1 32 ? 11.114 1.755 -10.376 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 3
+ATOM 5060 H HD13 . ILE D 1 32 ? 12.304 1.214 -11.584 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 3
+ATOM 5061 N N . GLY D 1 33 ? 7.749 6.105 -12.663 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 3
+ATOM 5062 C CA . GLY D 1 33 ? 6.537 6.845 -12.351 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 3
+ATOM 5063 C C . GLY D 1 33 ? 5.295 6.089 -12.828 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 3
+ATOM 5064 O O . GLY D 1 33 ? 4.829 6.298 -13.947 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 3
+ATOM 5065 H H . GLY D 1 33 ? 7.789 5.733 -13.590 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 3
+ATOM 5066 H HA2 . GLY D 1 33 ? 6.475 7.011 -11.276 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 3
+ATOM 5067 H HA3 . GLY D 1 33 ? 6.574 7.826 -12.824 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 3
+ATOM 5068 N N . LEU D 1 34 ? 4.796 5.227 -11.955 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 3
+ATOM 5069 C CA . LEU D 1 34 ? 3.617 4.439 -12.273 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 3
+ATOM 5070 C C . LEU D 1 34 ? 2.401 5.037 -11.563 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 3
+ATOM 5071 O O . LEU D 1 34 ? 2.420 5.228 -10.348 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 3
+ATOM 5072 C CB . LEU D 1 34 ? 3.855 2.963 -11.947 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 3
+ATOM 5073 C CG . LEU D 1 34 ? 2.897 2.338 -10.930 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 3
+ATOM 5074 C CD1 . LEU D 1 34 ? 1.456 2.372 -11.441 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 3
+ATOM 5075 C CD2 . LEU D 1 34 ? 3.340 0.922 -10.558 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 3
+ATOM 5076 H H . LEU D 1 34 ? 5.181 5.063 -11.047 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 3
+ATOM 5077 H HA . LEU D 1 34 ? 3.457 4.509 -13.349 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 3
+ATOM 5078 H HB2 . LEU D 1 34 ? 3.793 2.392 -12.873 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 3
+ATOM 5079 H HB3 . LEU D 1 34 ? 4.873 2.854 -11.572 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 3
+ATOM 5080 H HG . LEU D 1 34 ? 2.930 2.935 -10.018 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 3
+ATOM 5081 H HD11 . LEU D 1 34 ? 1.083 1.353 -11.547 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 3
+ATOM 5082 H HD12 . LEU D 1 34 ? 0.831 2.916 -10.732 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 3
+ATOM 5083 H HD13 . LEU D 1 34 ? 1.425 2.872 -12.409 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 3
+ATOM 5084 H HD21 . LEU D 1 34 ? 2.585 0.207 -10.885 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 3
+ATOM 5085 H HD22 . LEU D 1 34 ? 4.288 0.697 -11.047 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 3
+ATOM 5086 H HD23 . LEU D 1 34 ? 3.463 0.851 -9.477 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 3
+ATOM 5087 N N . MET D 1 35 ? 1.374 5.317 -12.351 1.00 0.00 ? ? ? ? ? ? 35 MET D N 3
+ATOM 5088 C CA . MET D 1 35 ? 0.152 5.890 -11.812 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 3
+ATOM 5089 C C . MET D 1 35 ? -1.081 5.178 -12.372 1.00 0.00 ? ? ? ? ? ? 35 MET D C 3
+ATOM 5090 O O . MET D 1 35 ? -1.253 5.089 -13.587 1.00 0.00 ? ? ? ? ? ? 35 MET D O 3
+ATOM 5091 C CB . MET D 1 35 ? 0.087 7.378 -12.165 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 3
+ATOM 5092 C CG . MET D 1 35 ? -0.678 8.162 -11.097 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 3
+ATOM 5093 S SD . MET D 1 35 ? -0.858 9.865 -11.601 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 3
+ATOM 5094 C CE . MET D 1 35 ? -2.055 10.419 -10.398 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 3
+ATOM 5095 H H . MET D 1 35 ? 1.367 5.159 -13.338 1.00 0.00 ? ? ? ? ? ? 35 MET D H 3
+ATOM 5096 H HA . MET D 1 35 ? 0.209 5.740 -10.734 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 3
+ATOM 5097 H HB2 . MET D 1 35 ? 1.097 7.777 -12.261 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 3
+ATOM 5098 H HB3 . MET D 1 35 ? -0.399 7.505 -13.132 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 3
+ATOM 5099 H HG2 . MET D 1 35 ? -1.660 7.715 -10.939 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 3
+ATOM 5100 H HG3 . MET D 1 35 ? -0.148 8.110 -10.146 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 3
+ATOM 5101 H HE1 . MET D 1 35 ? -1.538 10.874 -9.554 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 3
+ATOM 5102 H HE2 . MET D 1 35 ? -2.718 11.153 -10.857 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 3
+ATOM 5103 H HE3 . MET D 1 35 ? -2.641 9.568 -10.050 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 3
+ATOM 5104 N N . VAL D 1 36 ? -1.908 4.690 -11.459 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 3
+ATOM 5105 C CA . VAL D 1 36 ? -3.120 3.989 -11.847 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 3
+ATOM 5106 C C . VAL D 1 36 ? -4.337 4.762 -11.335 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 3
+ATOM 5107 O O . VAL D 1 36 ? -4.495 4.952 -10.130 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 3
+ATOM 5108 C CB . VAL D 1 36 ? -3.074 2.545 -11.342 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 3
+ATOM 5109 C CG1 . VAL D 1 36 ? -4.484 1.997 -11.117 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 3
+ATOM 5110 C CG2 . VAL D 1 36 ? -2.286 1.653 -12.303 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 3
+ATOM 5111 H H . VAL D 1 36 ? -1.762 4.767 -10.473 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 3
+ATOM 5112 H HA . VAL D 1 36 ? -3.153 3.965 -12.936 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 3
+ATOM 5113 H HB . VAL D 1 36 ? -2.556 2.542 -10.382 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 3
+ATOM 5114 H HG11 . VAL D 1 36 ? -4.460 0.908 -11.151 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 3
+ATOM 5115 H HG12 . VAL D 1 36 ? -4.850 2.323 -10.143 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 3
+ATOM 5116 H HG13 . VAL D 1 36 ? -5.148 2.370 -11.898 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 3
+ATOM 5117 H HG21 . VAL D 1 36 ? -2.968 0.967 -12.805 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 3
+ATOM 5118 H HG22 . VAL D 1 36 ? -1.784 2.274 -13.046 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 3
+ATOM 5119 H HG23 . VAL D 1 36 ? -1.543 1.084 -11.745 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 3
+ATOM 5120 N N . GLY D 1 37 ? -5.167 5.187 -12.276 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 3
+ATOM 5121 C CA . GLY D 1 37 ? -6.365 5.935 -11.936 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 3
+ATOM 5122 C C . GLY D 1 37 ? -7.611 5.053 -12.042 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 3
+ATOM 5123 O O . GLY D 1 37 ? -8.233 4.976 -13.100 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 3
+ATOM 5124 H H . GLY D 1 37 ? -5.032 5.028 -13.254 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 3
+ATOM 5125 H HA2 . GLY D 1 37 ? -6.278 6.327 -10.922 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 3
+ATOM 5126 H HA3 . GLY D 1 37 ? -6.464 6.793 -12.601 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 3
+ATOM 5127 N N . GLY D 1 38 ? -7.939 4.410 -10.931 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 3
+ATOM 5128 C CA . GLY D 1 38 ? -9.099 3.537 -10.886 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 3
+ATOM 5129 C C . GLY D 1 38 ? -10.339 4.297 -10.412 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 3
+ATOM 5130 O O . GLY D 1 38 ? -10.727 4.194 -9.249 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 3
+ATOM 5131 H H . GLY D 1 38 ? -7.427 4.478 -10.074 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 3
+ATOM 5132 H HA2 . GLY D 1 38 ? -9.281 3.117 -11.875 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 3
+ATOM 5133 H HA3 . GLY D 1 38 ? -8.903 2.700 -10.216 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 3
+ATOM 5134 N N . VAL D 1 39 ? -10.927 5.042 -11.336 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 3
+ATOM 5135 C CA . VAL D 1 39 ? -12.115 5.819 -11.027 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 3
+ATOM 5136 C C . VAL D 1 39 ? -13.341 5.127 -11.625 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 3
+ATOM 5137 O O . VAL D 1 39 ? -13.315 4.694 -12.776 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 3
+ATOM 5138 C CB . VAL D 1 39 ? -11.942 7.258 -11.518 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 3
+ATOM 5139 C CG1 . VAL D 1 39 ? -13.127 8.128 -11.095 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 3
+ATOM 5140 C CG2 . VAL D 1 39 ? -10.621 7.851 -11.023 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 3
+ATOM 5141 H H . VAL D 1 39 ? -10.604 5.120 -12.279 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 3
+ATOM 5142 H HA . VAL D 1 39 ? -12.219 5.843 -9.942 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 3
+ATOM 5143 H HB . VAL D 1 39 ? -11.912 7.239 -12.608 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 3
+ATOM 5144 H HG11 . VAL D 1 39 ? -13.548 7.742 -10.167 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 3
+ATOM 5145 H HG12 . VAL D 1 39 ? -12.789 9.153 -10.941 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 3
+ATOM 5146 H HG13 . VAL D 1 39 ? -13.888 8.110 -11.875 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 3
+ATOM 5147 H HG21 . VAL D 1 39 ? -9.802 7.478 -11.638 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 3
+ATOM 5148 H HG22 . VAL D 1 39 ? -10.662 8.938 -11.093 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 3
+ATOM 5149 H HG23 . VAL D 1 39 ? -10.458 7.560 -9.985 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 3
+ATOM 5150 N N . VAL D 1 40 ? -14.387 5.044 -10.816 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 3
+ATOM 5151 C CA . VAL D 1 40 ? -15.621 4.412 -11.250 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 3
+ATOM 5152 C C . VAL D 1 40 ? -16.806 5.085 -10.554 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 3
+ATOM 5153 O O . VAL D 1 40 ? -16.999 4.919 -9.351 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 3
+ATOM 5154 C CB . VAL D 1 40 ? -15.555 2.905 -10.996 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 3
+ATOM 5155 C CG1 . VAL D 1 40 ? -14.786 2.600 -9.708 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 3
+ATOM 5156 C CG2 . VAL D 1 40 ? -16.957 2.293 -10.955 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 3
+ATOM 5157 H H . VAL D 1 40 ? -14.401 5.399 -9.881 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 3
+ATOM 5158 H HA . VAL D 1 40 ? -15.710 4.569 -12.325 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 3
+ATOM 5159 H HB . VAL D 1 40 ? -15.014 2.449 -11.825 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 3
+ATOM 5160 H HG11 . VAL D 1 40 ? -15.139 1.658 -9.289 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 3
+ATOM 5161 H HG12 . VAL D 1 40 ? -13.722 2.523 -9.930 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 3
+ATOM 5162 H HG13 . VAL D 1 40 ? -14.951 3.402 -8.988 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 3
+ATOM 5163 H HG21 . VAL D 1 40 ? -17.200 2.010 -9.931 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 3
+ATOM 5164 H HG22 . VAL D 1 40 ? -17.682 3.025 -11.312 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 3
+ATOM 5165 H HG23 . VAL D 1 40 ? -16.987 1.411 -11.594 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 3
+ATOM 5166 N N . ILE D 1 41 ? -17.569 5.829 -11.341 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 3
+ATOM 5167 C CA . ILE D 1 41 ? -18.730 6.526 -10.816 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 3
+ATOM 5168 C C . ILE D 1 41 ? -20.000 5.924 -11.422 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 3
+ATOM 5169 O O . ILE D 1 41 ? -20.182 5.947 -12.638 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 3
+ATOM 5170 C CB . ILE D 1 41 ? -18.597 8.034 -11.041 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 3
+ATOM 5171 C CG1 . ILE D 1 41 ? -17.457 8.615 -10.201 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 3
+ATOM 5172 C CG2 . ILE D 1 41 ? -19.924 8.747 -10.778 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 3
+ATOM 5173 C CD1 . ILE D 1 41 ? -17.488 10.144 -10.218 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 3
+ATOM 5174 H H . ILE D 1 41 ? -17.406 5.958 -12.319 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 3
+ATOM 5175 H HA . ILE D 1 41 ? -18.750 6.362 -9.738 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 3
+ATOM 5176 H HB . ILE D 1 41 ? -18.343 8.202 -12.087 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 3
+ATOM 5177 H HG12 . ILE D 1 41 ? -17.539 8.257 -9.174 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 3
+ATOM 5178 H HG13 . ILE D 1 41 ? -16.501 8.262 -10.586 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 3
+ATOM 5179 H HG21 . ILE D 1 41 ? -19.787 9.492 -9.994 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 3
+ATOM 5180 H HG22 . ILE D 1 41 ? -20.260 9.239 -11.691 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 3
+ATOM 5181 H HG23 . ILE D 1 41 ? -20.671 8.020 -10.461 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 3
+ATOM 5182 H HD11 . ILE D 1 41 ? -16.497 10.525 -10.465 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 3
+ATOM 5183 H HD12 . ILE D 1 41 ? -18.205 10.485 -10.965 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 3
+ATOM 5184 H HD13 . ILE D 1 41 ? -17.785 10.513 -9.236 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 3
+ATOM 5185 N N . ALA D 1 42 ? -20.845 5.401 -10.546 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 3
+ATOM 5186 C CA . ALA D 1 42 ? -22.091 4.794 -10.979 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 3
+ATOM 5187 C C . ALA D 1 42 ? -23.260 5.692 -10.570 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 3
+ATOM 5188 O O . ALA D 1 42 ? -23.742 5.614 -9.441 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 3
+ATOM 5189 C CB . ALA D 1 42 ? -22.205 3.385 -10.392 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 3
+ATOM 5190 H H . ALA D 1 42 ? -20.689 5.387 -9.558 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 3
+ATOM 5191 H HA . ALA D 1 42 ? -22.064 4.720 -12.066 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 3
+ATOM 5192 H HB1 . ALA D 1 42 ? -22.784 2.756 -11.068 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 3
+ATOM 5193 H HB2 . ALA D 1 42 ? -21.208 2.963 -10.266 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 3
+ATOM 5194 H HB3 . ALA D 1 42 ? -22.704 3.434 -9.425 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 3
+ATOM 5195 N N . LEU E 1 17 ? -16.104 -6.758 -21.927 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 3
+ATOM 5196 C CA . LEU E 1 17 ? -15.200 -5.634 -21.756 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 3
+ATOM 5197 C C . LEU E 1 17 ? -13.908 -6.120 -21.095 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 3
+ATOM 5198 O O . LEU E 1 17 ? -13.787 -6.101 -19.871 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 3
+ATOM 5199 C CB . LEU E 1 17 ? -15.891 -4.501 -20.994 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 3
+ATOM 5200 C CG . LEU E 1 17 ? -15.355 -3.092 -21.257 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 3
+ATOM 5201 C CD1 . LEU E 1 17 ? -15.344 -2.780 -22.754 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 3
+ATOM 5202 C CD2 . LEU E 1 17 ? -16.142 -2.050 -20.459 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 3
+ATOM 5203 H H . LEU E 1 17 ? -16.543 -6.815 -22.824 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 3
+ATOM 5204 H HA . LEU E 1 17 ? -14.958 -5.255 -22.749 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 3
+ATOM 5205 H HB2 . LEU E 1 17 ? -16.952 -4.517 -21.243 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 3
+ATOM 5206 H HB3 . LEU E 1 17 ? -15.811 -4.706 -19.927 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 3
+ATOM 5207 H HG . LEU E 1 17 ? -14.322 -3.050 -20.912 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 3
+ATOM 5208 H HD11 . LEU E 1 17 ? -16.143 -3.335 -23.247 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 3
+ATOM 5209 H HD12 . LEU E 1 17 ? -15.499 -1.711 -22.904 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 3
+ATOM 5210 H HD13 . LEU E 1 17 ? -14.384 -3.071 -23.179 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 3
+ATOM 5211 H HD21 . LEU E 1 17 ? -17.207 -2.275 -20.518 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 3
+ATOM 5212 H HD22 . LEU E 1 17 ? -15.822 -2.072 -19.418 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 3
+ATOM 5213 H HD23 . LEU E 1 17 ? -15.956 -1.059 -20.875 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 3
+ATOM 5214 N N . VAL E 1 18 ? -12.975 -6.545 -21.935 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 3
+ATOM 5215 C CA . VAL E 1 18 ? -11.697 -7.035 -21.448 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 3
+ATOM 5216 C C . VAL E 1 18 ? -10.577 -6.135 -21.973 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 3
+ATOM 5217 O O . VAL E 1 18 ? -10.586 -5.742 -23.138 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 3
+ATOM 5218 C CB . VAL E 1 18 ? -11.517 -8.503 -21.838 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 3
+ATOM 5219 C CG1 . VAL E 1 18 ? -10.122 -9.004 -21.460 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 3
+ATOM 5220 C CG2 . VAL E 1 18 ? -12.603 -9.376 -21.207 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 3
+ATOM 5221 H H . VAL E 1 18 ? -13.081 -6.557 -22.929 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 3
+ATOM 5222 H HA . VAL E 1 18 ? -11.715 -6.975 -20.360 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 3
+ATOM 5223 H HB . VAL E 1 18 ? -11.616 -8.577 -22.921 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 3
+ATOM 5224 H HG11 . VAL E 1 18 ? -9.847 -9.839 -22.105 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 3
+ATOM 5225 H HG12 . VAL E 1 18 ? -9.400 -8.197 -21.583 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 3
+ATOM 5226 H HG13 . VAL E 1 18 ? -10.124 -9.334 -20.421 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 3
+ATOM 5227 H HG21 . VAL E 1 18 ? -12.172 -10.331 -20.906 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 3
+ATOM 5228 H HG22 . VAL E 1 18 ? -13.012 -8.871 -20.331 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 3
+ATOM 5229 H HG23 . VAL E 1 18 ? -13.399 -9.548 -21.931 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 3
+ATOM 5230 N N . PHE E 1 19 ? -9.638 -5.835 -21.087 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 3
+ATOM 5231 C CA . PHE E 1 19 ? -8.513 -4.989 -21.447 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 3
+ATOM 5232 C C . PHE E 1 19 ? -7.201 -5.562 -20.906 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 3
+ATOM 5233 O O . PHE E 1 19 ? -6.934 -5.488 -19.708 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 3
+ATOM 5234 C CB . PHE E 1 19 ? -8.760 -3.621 -20.808 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 3
+ATOM 5235 C CG . PHE E 1 19 ? -7.637 -2.610 -21.047 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 3
+ATOM 5236 C CD1 . PHE E 1 19 ? -6.539 -2.611 -20.245 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 3
+ATOM 5237 C CD2 . PHE E 1 19 ? -7.736 -1.711 -22.063 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 3
+ATOM 5238 C CE1 . PHE E 1 19 ? -5.496 -1.673 -20.467 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 3
+ATOM 5239 C CE2 . PHE E 1 19 ? -6.694 -0.773 -22.285 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 3
+ATOM 5240 C CZ . PHE E 1 19 ? -5.596 -0.773 -21.483 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 3
+ATOM 5241 H H . PHE E 1 19 ? -9.637 -6.160 -20.141 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 3
+ATOM 5242 H HA . PHE E 1 19 ? -8.470 -4.953 -22.535 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 3
+ATOM 5243 H HB2 . PHE E 1 19 ? -9.692 -3.212 -21.198 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 3
+ATOM 5244 H HB3 . PHE E 1 19 ? -8.894 -3.752 -19.734 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 3
+ATOM 5245 H HD1 . PHE E 1 19 ? -6.459 -3.332 -19.431 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 3
+ATOM 5246 H HD2 . PHE E 1 19 ? -8.616 -1.710 -22.706 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 3
+ATOM 5247 H HE1 . PHE E 1 19 ? -4.616 -1.673 -19.824 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 3
+ATOM 5248 H HE2 . PHE E 1 19 ? -6.774 -0.052 -23.099 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 3
+ATOM 5249 H HZ . PHE E 1 19 ? -4.796 -0.053 -21.653 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 3
+ATOM 5250 N N . PHE E 1 20 ? -6.417 -6.120 -21.816 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 3
+ATOM 5251 C CA . PHE E 1 20 ? -5.139 -6.705 -21.446 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 3
+ATOM 5252 C C . PHE E 1 20 ? -3.977 -5.830 -21.921 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 3
+ATOM 5253 O O . PHE E 1 20 ? -4.011 -5.295 -23.028 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 3
+ATOM 5254 C CB . PHE E 1 20 ? -5.053 -8.067 -22.138 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 3
+ATOM 5255 C CG . PHE E 1 20 ? -4.435 -9.167 -21.273 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 3
+ATOM 5256 C CD1 . PHE E 1 20 ? -5.125 -9.667 -20.214 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 3
+ATOM 5257 C CD2 . PHE E 1 20 ? -3.195 -9.644 -21.564 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 3
+ATOM 5258 C CE1 . PHE E 1 20 ? -4.551 -10.688 -19.411 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 3
+ATOM 5259 C CE2 . PHE E 1 20 ? -2.621 -10.665 -20.762 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 3
+ATOM 5260 C CZ . PHE E 1 20 ? -3.311 -11.166 -19.702 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 3
+ATOM 5261 H H . PHE E 1 20 ? -6.641 -6.176 -22.789 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 3
+ATOM 5262 H HA . PHE E 1 20 ? -5.118 -6.774 -20.358 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 3
+ATOM 5263 H HB2 . PHE E 1 20 ? -6.055 -8.374 -22.438 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 3
+ATOM 5264 H HB3 . PHE E 1 20 ? -4.465 -7.962 -23.051 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 3
+ATOM 5265 H HD1 . PHE E 1 20 ? -6.118 -9.284 -19.980 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 3
+ATOM 5266 H HD2 . PHE E 1 20 ? -2.642 -9.244 -22.414 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 3
+ATOM 5267 H HE1 . PHE E 1 20 ? -5.104 -11.089 -18.561 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 3
+ATOM 5268 H HE2 . PHE E 1 20 ? -1.628 -11.048 -20.995 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 3
+ATOM 5269 H HZ . PHE E 1 20 ? -2.871 -11.950 -19.085 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 3
+ATOM 5270 N N . ALA E 1 21 ? -2.977 -5.712 -21.060 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 3
+ATOM 5271 C CA . ALA E 1 21 ? -1.807 -4.912 -21.378 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 3
+ATOM 5272 C C . ALA E 1 21 ? -0.567 -5.560 -20.758 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 3
+ATOM 5273 O O . ALA E 1 21 ? -0.378 -5.511 -19.544 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 3
+ATOM 5274 C CB . ALA E 1 21 ? -2.021 -3.478 -20.889 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 3
+ATOM 5275 H H . ALA E 1 21 ? -2.958 -6.151 -20.162 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 3
+ATOM 5276 H HA . ALA E 1 21 ? -1.697 -4.900 -22.462 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 3
+ATOM 5277 H HB1 . ALA E 1 21 ? -3.089 -3.265 -20.842 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 3
+ATOM 5278 H HB2 . ALA E 1 21 ? -1.584 -3.363 -19.897 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 3
+ATOM 5279 H HB3 . ALA E 1 21 ? -1.542 -2.783 -21.579 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 3
+ATOM 5280 N N . GLU E 1 22 ? 0.245 -6.153 -21.621 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 3
+ATOM 5281 C CA . GLU E 1 22 ? 1.461 -6.810 -21.174 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 3
+ATOM 5282 C C . GLU E 1 22 ? 2.684 -6.173 -21.838 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 3
+ATOM 5283 O O . GLU E 1 22 ? 2.862 -6.279 -23.050 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 3
+ATOM 5284 C CB . GLU E 1 22 ? 1.407 -8.314 -21.453 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 3
+ATOM 5285 C CG . GLU E 1 22 ? 0.812 -9.071 -20.265 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 3
+ATOM 5286 C CD . GLU E 1 22 ? 1.441 -10.459 -20.129 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 3
+ATOM 5287 O OE1 . GLU E 1 22 ? 2.683 -10.509 -20.001 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 3
+ATOM 5288 O OE2 . GLU E 1 22 ? 0.665 -11.439 -20.155 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 3
+ATOM 5289 H H . GLU E 1 22 ? 0.084 -6.189 -22.607 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 3
+ATOM 5290 H HA . GLU E 1 22 ? 1.499 -6.649 -20.097 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 3
+ATOM 5291 H HB2 . GLU E 1 22 ? 0.808 -8.500 -22.345 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 3
+ATOM 5292 H HB3 . GLU E 1 22 ? 2.410 -8.685 -21.661 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 3
+ATOM 5293 H HG2 . GLU E 1 22 ? 0.974 -8.503 -19.349 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 3
+ATOM 5294 H HG3 . GLU E 1 22 ? -0.266 -9.167 -20.393 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 3
+ATOM 5295 N N . ASP E 1 23 ? 3.494 -5.526 -21.013 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 3
+ATOM 5296 C CA . ASP E 1 23 ? 4.695 -4.872 -21.505 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 3
+ATOM 5297 C C . ASP E 1 23 ? 5.922 -5.504 -20.845 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 3
+ATOM 5298 O O . ASP E 1 23 ? 5.937 -5.721 -19.635 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 3
+ATOM 5299 C CB . ASP E 1 23 ? 4.690 -3.381 -21.163 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 3
+ATOM 5300 C CG . ASP E 1 23 ? 3.303 -2.772 -20.945 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 3
+ATOM 5301 O OD1 . ASP E 1 23 ? 2.561 -2.677 -21.946 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 3
+ATOM 5302 O OD2 . ASP E 1 23 ? 3.016 -2.416 -19.782 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 3
+ATOM 5303 H H . ASP E 1 23 ? 3.342 -5.444 -20.028 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 3
+ATOM 5304 H HA . ASP E 1 23 ? 4.680 -5.019 -22.585 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 3
+ATOM 5305 H HB2 . ASP E 1 23 ? 5.283 -3.228 -20.261 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 3
+ATOM 5306 H HB3 . ASP E 1 23 ? 5.187 -2.837 -21.966 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 3
+ATOM 5307 N N . VAL E 1 24 ? 6.921 -5.782 -21.670 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 3
+ATOM 5308 C CA . VAL E 1 24 ? 8.149 -6.385 -21.181 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 3
+ATOM 5309 C C . VAL E 1 24 ? 9.334 -5.491 -21.553 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 3
+ATOM 5310 O O . VAL E 1 24 ? 9.504 -5.131 -22.717 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 3
+ATOM 5311 C CB . VAL E 1 24 ? 8.283 -7.810 -21.721 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 3
+ATOM 5312 C CG1 . VAL E 1 24 ? 7.009 -8.616 -21.463 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 3
+ATOM 5313 C CG2 . VAL E 1 24 ? 8.635 -7.801 -23.211 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 3
+ATOM 5314 H H . VAL E 1 24 ? 6.901 -5.602 -22.653 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 3
+ATOM 5315 H HA . VAL E 1 24 ? 8.079 -6.440 -20.095 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 3
+ATOM 5316 H HB . VAL E 1 24 ? 9.101 -8.295 -21.188 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 3
+ATOM 5317 H HG11 . VAL E 1 24 ? 6.283 -7.991 -20.943 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 3
+ATOM 5318 H HG12 . VAL E 1 24 ? 6.589 -8.946 -22.414 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 3
+ATOM 5319 H HG13 . VAL E 1 24 ? 7.247 -9.485 -20.850 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 3
+ATOM 5320 H HG21 . VAL E 1 24 ? 8.583 -8.817 -23.602 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 3
+ATOM 5321 H HG22 . VAL E 1 24 ? 7.927 -7.169 -23.747 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 3
+ATOM 5322 H HG23 . VAL E 1 24 ? 9.644 -7.412 -23.344 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 3
+ATOM 5323 N N . GLY E 1 25 ? 10.123 -5.157 -20.542 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 3
+ATOM 5324 C CA . GLY E 1 25 ? 11.287 -4.312 -20.748 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 3
+ATOM 5325 C C . GLY E 1 25 ? 12.541 -4.951 -20.147 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 3
+ATOM 5326 O O . GLY E 1 25 ? 12.604 -5.188 -18.941 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 3
+ATOM 5327 H H . GLY E 1 25 ? 9.978 -5.454 -19.598 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 3
+ATOM 5328 H HA2 . GLY E 1 25 ? 11.435 -4.145 -21.814 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 3
+ATOM 5329 H HA3 . GLY E 1 25 ? 11.117 -3.337 -20.292 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 3
+ATOM 5330 N N . SER E 1 26 ? 13.508 -5.211 -21.015 1.00 0.00 ? ? ? ? ? ? 26 SER E N 3
+ATOM 5331 C CA . SER E 1 26 ? 14.756 -5.817 -20.585 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 3
+ATOM 5332 C C . SER E 1 26 ? 15.826 -4.738 -20.403 1.00 0.00 ? ? ? ? ? ? 26 SER E C 3
+ATOM 5333 O O . SER E 1 26 ? 16.230 -4.090 -21.367 1.00 0.00 ? ? ? ? ? ? 26 SER E O 3
+ATOM 5334 C CB . SER E 1 26 ? 15.231 -6.871 -21.587 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 3
+ATOM 5335 O OG . SER E 1 26 ? 15.639 -8.074 -20.943 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 3
+ATOM 5336 H H . SER E 1 26 ? 13.448 -5.014 -21.994 1.00 0.00 ? ? ? ? ? ? 26 SER E H 3
+ATOM 5337 H HA . SER E 1 26 ? 14.531 -6.297 -19.633 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 3
+ATOM 5338 H HB2 . SER E 1 26 ? 14.427 -7.090 -22.290 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 3
+ATOM 5339 H HB3 . SER E 1 26 ? 16.061 -6.470 -22.169 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 3
+ATOM 5340 H HG . SER E 1 26 ? 15.646 -8.828 -21.600 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 3
+ATOM 5341 N N . ASN E 1 27 ? 16.255 -4.579 -19.159 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 3
+ATOM 5342 C CA . ASN E 1 27 ? 17.270 -3.590 -18.838 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 3
+ATOM 5343 C C . ASN E 1 27 ? 16.611 -2.216 -18.701 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 3
+ATOM 5344 O O . ASN E 1 27 ? 17.031 -1.255 -19.344 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 3
+ATOM 5345 C CB . ASN E 1 27 ? 18.322 -3.501 -19.946 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 3
+ATOM 5346 C CG . ASN E 1 27 ? 19.700 -3.175 -19.368 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 3
+ATOM 5347 O OD1 . ASN E 1 27 ? 19.844 -2.779 -18.223 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 3
+ATOM 5348 N ND2 . ASN E 1 27 ? 20.703 -3.362 -20.221 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 3
+ATOM 5349 H H . ASN E 1 27 ? 15.921 -5.110 -18.381 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 3
+ATOM 5350 H HA . ASN E 1 27 ? 17.719 -3.933 -17.906 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 3
+ATOM 5351 H HB2 . ASN E 1 27 ? 18.365 -4.446 -20.488 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 3
+ATOM 5352 H HB3 . ASN E 1 27 ? 18.034 -2.734 -20.665 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 3
+ATOM 5353 H HD21 . ASN E 1 27 ? 20.517 -3.689 -21.148 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 3
+ATOM 5354 H HD22 . ASN E 1 27 ? 21.643 -3.175 -19.936 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 3
+ATOM 5355 N N . LYS E 1 28 ? 15.590 -2.166 -17.858 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 3
+ATOM 5356 C CA . LYS E 1 28 ? 14.870 -0.926 -17.627 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 3
+ATOM 5357 C C . LYS E 1 28 ? 15.806 0.087 -16.965 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 3
+ATOM 5358 O O . LYS E 1 28 ? 16.640 -0.281 -16.139 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 3
+ATOM 5359 C CB . LYS E 1 28 ? 13.589 -1.190 -16.834 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 3
+ATOM 5360 C CG . LYS E 1 28 ? 12.456 -1.643 -17.757 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 3
+ATOM 5361 C CD . LYS E 1 28 ? 11.090 -1.343 -17.137 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 3
+ATOM 5362 C CE . LYS E 1 28 ? 9.957 -1.750 -18.082 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 3
+ATOM 5363 N NZ . LYS E 1 28 ? 8.704 -1.968 -17.325 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 3
+ATOM 5364 H H . LYS E 1 28 ? 15.255 -2.952 -17.338 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 3
+ATOM 5365 H HA . LYS E 1 28 ? 14.572 -0.535 -18.600 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 3
+ATOM 5366 H HB2 . LYS E 1 28 ? 13.775 -1.953 -16.078 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 3
+ATOM 5367 H HB3 . LYS E 1 28 ? 13.291 -0.284 -16.305 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 3
+ATOM 5368 H HG2 . LYS E 1 28 ? 12.541 -1.138 -18.719 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 3
+ATOM 5369 H HG3 . LYS E 1 28 ? 12.545 -2.712 -17.949 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 3
+ATOM 5370 H HD2 . LYS E 1 28 ? 10.990 -1.878 -16.192 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 3
+ATOM 5371 H HD3 . LYS E 1 28 ? 11.015 -0.280 -16.910 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 3
+ATOM 5372 H HE2 . LYS E 1 28 ? 9.806 -0.975 -18.832 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 3
+ATOM 5373 H HE3 . LYS E 1 28 ? 10.230 -2.661 -18.615 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 3
+ATOM 5374 H HZ1 . LYS E 1 28 ? 8.324 -2.863 -17.561 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 3
+ATOM 5375 H HZ2 . LYS E 1 28 ? 8.897 -1.936 -16.344 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 3
+ATOM 5376 H HZ3 . LYS E 1 28 ? 8.045 -1.254 -17.559 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 3
+ATOM 5377 N N . GLY E 1 29 ? 15.636 1.343 -17.351 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 3
+ATOM 5378 C CA . GLY E 1 29 ? 16.455 2.412 -16.805 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 3
+ATOM 5379 C C . GLY E 1 29 ? 16.025 3.771 -17.360 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 3
+ATOM 5380 O O . GLY E 1 29 ? 14.988 3.879 -18.013 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 3
+ATOM 5381 H H . GLY E 1 29 ? 14.955 1.634 -18.023 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 3
+ATOM 5382 H HA2 . GLY E 1 29 ? 16.375 2.417 -15.718 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 3
+ATOM 5383 H HA3 . GLY E 1 29 ? 17.503 2.231 -17.046 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 3
+ATOM 5384 N N . ALA E 1 30 ? 16.844 4.774 -17.081 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 3
+ATOM 5385 C CA . ALA E 1 30 ? 16.561 6.122 -17.545 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 3
+ATOM 5386 C C . ALA E 1 30 ? 15.214 6.579 -16.981 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 3
+ATOM 5387 O O . ALA E 1 30 ? 15.142 7.065 -15.854 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 3
+ATOM 5388 C CB . ALA E 1 30 ? 16.594 6.153 -19.074 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 3
+ATOM 5389 H H . ALA E 1 30 ? 17.686 4.678 -16.550 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 3
+ATOM 5390 H HA . ALA E 1 30 ? 17.346 6.776 -17.163 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 3
+ATOM 5391 H HB1 . ALA E 1 30 ? 16.054 7.030 -19.431 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 3
+ATOM 5392 H HB2 . ALA E 1 30 ? 17.629 6.201 -19.414 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 3
+ATOM 5393 H HB3 . ALA E 1 30 ? 16.124 5.252 -19.466 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 3
+ATOM 5394 N N . ILE E 1 31 ? 14.181 6.406 -17.792 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 3
+ATOM 5395 C CA . ILE E 1 31 ? 12.840 6.794 -17.388 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 3
+ATOM 5396 C C . ILE E 1 31 ? 11.920 5.573 -17.449 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 3
+ATOM 5397 O O . ILE E 1 31 ? 12.026 4.757 -18.363 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 3
+ATOM 5398 C CB . ILE E 1 31 ? 12.349 7.976 -18.226 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 3
+ATOM 5399 C CG1 . ILE E 1 31 ? 13.451 9.024 -18.395 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 3
+ATOM 5400 C CG2 . ILE E 1 31 ? 11.073 8.577 -17.633 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 3
+ATOM 5401 C CD1 . ILE E 1 31 ? 13.591 9.881 -17.136 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 3
+ATOM 5402 H H . ILE E 1 31 ? 14.248 6.009 -18.707 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 3
+ATOM 5403 H HA . ILE E 1 31 ? 12.896 7.133 -16.354 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 3
+ATOM 5404 H HB . ILE E 1 31 ? 12.099 7.608 -19.221 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 3
+ATOM 5405 H HG12 . ILE E 1 31 ? 14.399 8.529 -18.609 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 3
+ATOM 5406 H HG13 . ILE E 1 31 ? 13.225 9.661 -19.250 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 3
+ATOM 5407 H HG21 . ILE E 1 31 ? 10.266 7.847 -17.691 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 3
+ATOM 5408 H HG22 . ILE E 1 31 ? 11.248 8.843 -16.590 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 3
+ATOM 5409 H HG23 . ILE E 1 31 ? 10.797 9.470 -18.194 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 3
+ATOM 5410 H HD11 . ILE E 1 31 ? 14.474 10.514 -17.223 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 3
+ATOM 5411 H HD12 . ILE E 1 31 ? 12.705 10.507 -17.023 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 3
+ATOM 5412 H HD13 . ILE E 1 31 ? 13.692 9.234 -16.265 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 3
+ATOM 5413 N N . ILE E 1 32 ? 11.038 5.487 -16.464 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 3
+ATOM 5414 C CA . ILE E 1 32 ? 10.100 4.379 -16.394 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 3
+ATOM 5415 C C . ILE E 1 32 ? 8.735 4.900 -15.942 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 3
+ATOM 5416 O O . ILE E 1 32 ? 8.281 4.589 -14.842 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 3
+ATOM 5417 C CB . ILE E 1 32 ? 10.656 3.262 -15.509 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 3
+ATOM 5418 C CG1 . ILE E 1 32 ? 11.996 2.753 -16.044 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 3
+ATOM 5419 C CG2 . ILE E 1 32 ? 9.637 2.132 -15.347 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 3
+ATOM 5420 C CD1 . ILE E 1 32 ? 12.702 1.874 -15.009 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 3
+ATOM 5421 H H . ILE E 1 32 ? 10.959 6.155 -15.724 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 3
+ATOM 5422 H HA . ILE E 1 32 ? 9.999 3.973 -17.400 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 3
+ATOM 5423 H HB . ILE E 1 32 ? 10.841 3.672 -14.516 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 3
+ATOM 5424 H HG12 . ILE E 1 32 ? 11.833 2.183 -16.959 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 3
+ATOM 5425 H HG13 . ILE E 1 32 ? 12.633 3.598 -16.304 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 3
+ATOM 5426 H HG21 . ILE E 1 32 ? 10.157 1.175 -15.316 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 3
+ATOM 5427 H HG22 . ILE E 1 32 ? 9.081 2.274 -14.420 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 3
+ATOM 5428 H HG23 . ILE E 1 32 ? 8.946 2.143 -16.190 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 3
+ATOM 5429 H HD11 . ILE E 1 32 ? 12.069 1.021 -14.764 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 3
+ATOM 5430 H HD12 . ILE E 1 32 ? 13.647 1.519 -15.419 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 3
+ATOM 5431 H HD13 . ILE E 1 32 ? 12.892 2.456 -14.108 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 3
+ATOM 5432 N N . GLY E 1 33 ? 8.118 5.685 -16.813 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 3
+ATOM 5433 C CA . GLY E 1 33 ? 6.814 6.253 -16.517 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 3
+ATOM 5434 C C . GLY E 1 33 ? 5.702 5.464 -17.213 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 3
+ATOM 5435 O O . GLY E 1 33 ? 5.809 5.145 -18.396 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 3
+ATOM 5436 H H . GLY E 1 33 ? 8.495 5.934 -17.706 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 3
+ATOM 5437 H HA2 . GLY E 1 33 ? 6.648 6.249 -15.440 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 3
+ATOM 5438 H HA3 . GLY E 1 33 ? 6.784 7.293 -16.841 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 3
+ATOM 5439 N N . LEU E 1 34 ? 4.660 5.172 -16.448 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 3
+ATOM 5440 C CA . LEU E 1 34 ? 3.530 4.427 -16.976 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 3
+ATOM 5441 C C . LEU E 1 34 ? 2.252 4.875 -16.264 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 3
+ATOM 5442 O O . LEU E 1 34 ? 2.074 4.611 -15.076 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 3
+ATOM 5443 C CB . LEU E 1 34 ? 3.790 2.922 -16.883 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 3
+ATOM 5444 C CG . LEU E 1 34 ? 3.686 2.308 -15.485 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 3
+ATOM 5445 C CD1 . LEU E 1 34 ? 2.299 1.707 -15.253 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 3
+ATOM 5446 C CD2 . LEU E 1 34 ? 4.801 1.287 -15.250 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 3
+ATOM 5447 H H . LEU E 1 34 ? 4.581 5.435 -15.486 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 3
+ATOM 5448 H HA . LEU E 1 34 ? 3.441 4.674 -18.034 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 3
+ATOM 5449 H HB2 . LEU E 1 34 ? 3.084 2.410 -17.536 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 3
+ATOM 5450 H HB3 . LEU E 1 34 ? 4.788 2.721 -17.273 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 3
+ATOM 5451 H HG . LEU E 1 34 ? 3.818 3.104 -14.752 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 3
+ATOM 5452 H HD11 . LEU E 1 34 ? 1.636 2.468 -14.842 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 3
+ATOM 5453 H HD12 . LEU E 1 34 ? 1.896 1.346 -16.199 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 3
+ATOM 5454 H HD13 . LEU E 1 34 ? 2.376 0.876 -14.551 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 3
+ATOM 5455 H HD21 . LEU E 1 34 ? 5.768 1.788 -15.295 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 3
+ATOM 5456 H HD22 . LEU E 1 34 ? 4.674 0.830 -14.269 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 3
+ATOM 5457 H HD23 . LEU E 1 34 ? 4.755 0.516 -16.019 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 3
+ATOM 5458 N N . MET E 1 35 ? 1.396 5.546 -17.021 1.00 0.00 ? ? ? ? ? ? 35 MET E N 3
+ATOM 5459 C CA . MET E 1 35 ? 0.140 6.033 -16.477 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 3
+ATOM 5460 C C . MET E 1 35 ? -1.047 5.273 -17.073 1.00 0.00 ? ? ? ? ? ? 35 MET E C 3
+ATOM 5461 O O . MET E 1 35 ? -1.321 5.379 -18.267 1.00 0.00 ? ? ? ? ? ? 35 MET E O 3
+ATOM 5462 C CB . MET E 1 35 ? -0.005 7.525 -16.784 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 3
+ATOM 5463 C CG . MET E 1 35 ? 1.224 8.304 -16.309 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 3
+ATOM 5464 S SD . MET E 1 35 ? 0.756 9.964 -15.852 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 3
+ATOM 5465 C CE . MET E 1 35 ? 1.966 10.894 -16.778 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 3
+ATOM 5466 H H . MET E 1 35 ? 1.549 5.756 -17.986 1.00 0.00 ? ? ? ? ? ? 35 MET E H 3
+ATOM 5467 H HA . MET E 1 35 ? 0.195 5.852 -15.404 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 3
+ATOM 5468 H HB2 . MET E 1 35 ? -0.138 7.669 -17.856 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 3
+ATOM 5469 H HB3 . MET E 1 35 ? -0.898 7.916 -16.296 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 3
+ATOM 5470 H HG2 . MET E 1 35 ? 1.679 7.798 -15.457 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 3
+ATOM 5471 H HG3 . MET E 1 35 ? 1.974 8.333 -17.099 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 3
+ATOM 5472 H HE1 . MET E 1 35 ? 1.604 11.050 -17.794 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 3
+ATOM 5473 H HE2 . MET E 1 35 ? 2.128 11.859 -16.298 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 3
+ATOM 5474 H HE3 . MET E 1 35 ? 2.904 10.340 -16.807 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 3
+ATOM 5475 N N . VAL E 1 36 ? -1.720 4.523 -16.212 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 3
+ATOM 5476 C CA . VAL E 1 36 ? -2.871 3.745 -16.638 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 3
+ATOM 5477 C C . VAL E 1 36 ? -4.152 4.439 -16.170 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 3
+ATOM 5478 O O . VAL E 1 36 ? -4.350 4.644 -14.974 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 3
+ATOM 5479 C CB . VAL E 1 36 ? -2.750 2.308 -16.127 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 3
+ATOM 5480 C CG1 . VAL E 1 36 ? -4.130 1.698 -15.872 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 3
+ATOM 5481 C CG2 . VAL E 1 36 ? -1.940 1.447 -17.098 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 3
+ATOM 5482 H H . VAL E 1 36 ? -1.491 4.442 -15.242 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 3
+ATOM 5483 H HA . VAL E 1 36 ? -2.865 3.717 -17.727 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 3
+ATOM 5484 H HB . VAL E 1 36 ? -2.215 2.334 -15.177 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 3
+ATOM 5485 H HG11 . VAL E 1 36 ? -4.825 2.042 -16.638 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 3
+ATOM 5486 H HG12 . VAL E 1 36 ? -4.058 0.611 -15.909 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 3
+ATOM 5487 H HG13 . VAL E 1 36 ? -4.488 2.007 -14.890 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 3
+ATOM 5488 H HG21 . VAL E 1 36 ? -1.067 2.005 -17.438 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 3
+ATOM 5489 H HG22 . VAL E 1 36 ? -1.615 0.537 -16.594 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 3
+ATOM 5490 H HG23 . VAL E 1 36 ? -2.560 1.186 -17.956 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 3
+ATOM 5491 N N . GLY E 1 37 ? -4.988 4.784 -17.139 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 3
+ATOM 5492 C CA . GLY E 1 37 ? -6.244 5.451 -16.841 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 3
+ATOM 5493 C C . GLY E 1 37 ? -7.400 4.450 -16.798 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 3
+ATOM 5494 O O . GLY E 1 37 ? -7.624 3.713 -17.758 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 3
+ATOM 5495 H H . GLY E 1 37 ? -4.819 4.614 -18.110 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 3
+ATOM 5496 H HA2 . GLY E 1 37 ? -6.168 5.966 -15.884 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 3
+ATOM 5497 H HA3 . GLY E 1 37 ? -6.444 6.210 -17.597 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 3
+ATOM 5498 N N . GLY E 1 38 ? -8.104 4.455 -15.676 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 3
+ATOM 5499 C CA . GLY E 1 38 ? -9.231 3.556 -15.495 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 3
+ATOM 5500 C C . GLY E 1 38 ? -10.468 4.318 -15.015 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 3
+ATOM 5501 O O . GLY E 1 38 ? -10.879 4.179 -13.864 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 3
+ATOM 5502 H H . GLY E 1 38 ? -7.915 5.057 -14.900 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 3
+ATOM 5503 H HA2 . GLY E 1 38 ? -9.453 3.051 -16.435 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 3
+ATOM 5504 H HA3 . GLY E 1 38 ? -8.972 2.783 -14.771 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 3
+ATOM 5505 N N . VAL E 1 39 ? -11.027 5.107 -15.922 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 3
+ATOM 5506 C CA . VAL E 1 39 ? -12.208 5.891 -15.606 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 3
+ATOM 5507 C C . VAL E 1 39 ? -13.459 5.092 -15.977 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 3
+ATOM 5508 O O . VAL E 1 39 ? -13.520 4.490 -17.048 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 3
+ATOM 5509 C CB . VAL E 1 39 ? -12.137 7.250 -16.304 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 3
+ATOM 5510 C CG1 . VAL E 1 39 ? -13.428 8.044 -16.092 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 3
+ATOM 5511 C CG2 . VAL E 1 39 ? -10.919 8.046 -15.831 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 3
+ATOM 5512 H H . VAL E 1 39 ? -10.686 5.214 -16.856 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 3
+ATOM 5513 H HA . VAL E 1 39 ? -12.210 6.064 -14.529 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 3
+ATOM 5514 H HB . VAL E 1 39 ? -12.025 7.071 -17.374 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 3
+ATOM 5515 H HG11 . VAL E 1 39 ? -14.214 7.373 -15.745 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 3
+ATOM 5516 H HG12 . VAL E 1 39 ? -13.258 8.821 -15.347 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 3
+ATOM 5517 H HG13 . VAL E 1 39 ? -13.731 8.502 -17.034 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 3
+ATOM 5518 H HG21 . VAL E 1 39 ? -10.155 8.037 -16.608 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 3
+ATOM 5519 H HG22 . VAL E 1 39 ? -11.216 9.075 -15.626 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 3
+ATOM 5520 H HG23 . VAL E 1 39 ? -10.520 7.595 -14.923 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 3
+ATOM 5521 N N . VAL E 1 40 ? -14.427 5.113 -15.072 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 3
+ATOM 5522 C CA . VAL E 1 40 ? -15.673 4.398 -15.292 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 3
+ATOM 5523 C C . VAL E 1 40 ? -16.841 5.255 -14.799 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 3
+ATOM 5524 O O . VAL E 1 40 ? -17.346 5.048 -13.697 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 3
+ATOM 5525 C CB . VAL E 1 40 ? -15.614 3.025 -14.620 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 3
+ATOM 5526 C CG1 . VAL E 1 40 ? -17.015 2.537 -14.246 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 3
+ATOM 5527 C CG2 . VAL E 1 40 ? -14.898 2.009 -15.512 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 3
+ATOM 5528 H H . VAL E 1 40 ? -14.369 5.605 -14.204 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 3
+ATOM 5529 H HA . VAL E 1 40 ? -15.779 4.245 -16.365 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 3
+ATOM 5530 H HB . VAL E 1 40 ? -15.038 3.126 -13.700 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 3
+ATOM 5531 H HG11 . VAL E 1 40 ? -17.274 2.903 -13.253 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 3
+ATOM 5532 H HG12 . VAL E 1 40 ? -17.736 2.912 -14.972 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 3
+ATOM 5533 H HG13 . VAL E 1 40 ? -17.032 1.447 -14.248 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 3
+ATOM 5534 H HG21 . VAL E 1 40 ? -14.184 1.441 -14.915 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 3
+ATOM 5535 H HG22 . VAL E 1 40 ? -15.630 1.328 -15.947 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 3
+ATOM 5536 H HG23 . VAL E 1 40 ? -14.371 2.532 -16.309 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 3
+ATOM 5537 N N . ILE E 1 41 ? -17.235 6.200 -15.639 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 3
+ATOM 5538 C CA . ILE E 1 41 ? -18.334 7.089 -15.303 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 3
+ATOM 5539 C C . ILE E 1 41 ? -19.611 6.596 -15.986 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 3
+ATOM 5540 O O . ILE E 1 41 ? -19.890 6.960 -17.127 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 3
+ATOM 5541 C CB . ILE E 1 41 ? -17.975 8.537 -15.643 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 3
+ATOM 5542 C CG1 . ILE E 1 41 ? -16.924 9.084 -14.675 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 3
+ATOM 5543 C CG2 . ILE E 1 41 ? -19.227 9.417 -15.687 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 3
+ATOM 5544 C CD1 . ILE E 1 41 ? -16.470 10.484 -15.092 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 3
+ATOM 5545 H H . ILE E 1 41 ? -16.819 6.363 -16.534 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 3
+ATOM 5546 H HA . ILE E 1 41 ? -18.477 7.038 -14.224 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 3
+ATOM 5547 H HB . ILE E 1 41 ? -17.535 8.555 -16.640 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 3
+ATOM 5548 H HG12 . ILE E 1 41 ? -17.336 9.116 -13.666 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 3
+ATOM 5549 H HG13 . ILE E 1 41 ? -16.066 8.412 -14.647 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 3
+ATOM 5550 H HG21 . ILE E 1 41 ? -18.934 10.466 -15.659 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 3
+ATOM 5551 H HG22 . ILE E 1 41 ? -19.779 9.218 -16.606 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 3
+ATOM 5552 H HG23 . ILE E 1 41 ? -19.859 9.192 -14.828 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 3
+ATOM 5553 H HD11 . ILE E 1 41 ? -16.499 10.567 -16.178 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 3
+ATOM 5554 H HD12 . ILE E 1 41 ? -17.136 11.228 -14.653 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 3
+ATOM 5555 H HD13 . ILE E 1 41 ? -15.452 10.655 -14.741 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 3
+ATOM 5556 N N . ALA E 1 42 ? -20.353 5.774 -15.258 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 3
+ATOM 5557 C CA . ALA E 1 42 ? -21.594 5.226 -15.779 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 3
+ATOM 5558 C C . ALA E 1 42 ? -22.737 6.204 -15.496 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 3
+ATOM 5559 O O . ALA E 1 42 ? -23.232 6.277 -14.372 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 3
+ATOM 5560 C CB . ALA E 1 42 ? -21.842 3.847 -15.165 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 3
+ATOM 5561 H H . ALA E 1 42 ? -20.120 5.482 -14.330 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 3
+ATOM 5562 H HA . ALA E 1 42 ? -21.481 5.115 -16.858 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 3
+ATOM 5563 H HB1 . ALA E 1 42 ? -20.956 3.226 -15.298 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 3
+ATOM 5564 H HB2 . ALA E 1 42 ? -22.053 3.955 -14.101 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 3
+ATOM 5565 H HB3 . ALA E 1 42 ? -22.692 3.377 -15.659 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 3
+ATOM 5566 N N . LEU A 1 17 ? -16.269 -3.122 -1.743 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 4
+ATOM 5567 C CA . LEU A 1 17 ? -15.221 -3.363 -2.720 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 4
+ATOM 5568 C C . LEU A 1 17 ? -14.065 -4.107 -2.049 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 4
+ATOM 5569 O O . LEU A 1 17 ? -13.884 -4.015 -0.835 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 4
+ATOM 5570 C CB . LEU A 1 17 ? -14.802 -2.054 -3.391 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 4
+ATOM 5571 C CG . LEU A 1 17 ? -15.932 -1.074 -3.714 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 4
+ATOM 5572 C CD1 . LEU A 1 17 ? -17.253 -1.813 -3.932 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 4
+ATOM 5573 C CD2 . LEU A 1 17 ? -16.049 0.003 -2.634 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 4
+ATOM 5574 H H . LEU A 1 17 ? -16.277 -2.202 -1.351 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 4
+ATOM 5575 H HA . LEU A 1 17 ? -15.640 -4.004 -3.496 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 4
+ATOM 5576 H HB2 . LEU A 1 17 ? -14.085 -1.550 -2.744 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 4
+ATOM 5577 H HB3 . LEU A 1 17 ? -14.281 -2.294 -4.318 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 4
+ATOM 5578 H HG . LEU A 1 17 ? -15.689 -0.568 -4.648 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 4
+ATOM 5579 H HD11 . LEU A 1 17 ? -17.877 -1.247 -4.623 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 4
+ATOM 5580 H HD12 . LEU A 1 17 ? -17.053 -2.801 -4.348 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 4
+ATOM 5581 H HD13 . LEU A 1 17 ? -17.772 -1.920 -2.979 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 4
+ATOM 5582 H HD21 . LEU A 1 17 ? -16.928 -0.192 -2.020 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 4
+ATOM 5583 H HD22 . LEU A 1 17 ? -15.157 -0.013 -2.006 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 4
+ATOM 5584 H HD23 . LEU A 1 17 ? -16.144 0.981 -3.105 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 4
+ATOM 5585 N N . VAL A 1 18 ? -13.313 -4.829 -2.867 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 4
+ATOM 5586 C CA . VAL A 1 18 ? -12.180 -5.588 -2.367 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 4
+ATOM 5587 C C . VAL A 1 18 ? -10.882 -4.895 -2.786 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 4
+ATOM 5588 O O . VAL A 1 18 ? -10.456 -5.007 -3.934 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 4
+ATOM 5589 C CB . VAL A 1 18 ? -12.266 -7.037 -2.851 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 4
+ATOM 5590 C CG1 . VAL A 1 18 ? -11.015 -7.824 -2.454 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 4
+ATOM 5591 C CG2 . VAL A 1 18 ? -13.532 -7.717 -2.324 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 4
+ATOM 5592 H H . VAL A 1 18 ? -13.467 -4.898 -3.852 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 4
+ATOM 5593 H HA . VAL A 1 18 ? -12.240 -5.592 -1.279 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 4
+ATOM 5594 H HB . VAL A 1 18 ? -12.322 -7.024 -3.940 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 4
+ATOM 5595 H HG11 . VAL A 1 18 ? -10.597 -8.310 -3.336 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 4
+ATOM 5596 H HG12 . VAL A 1 18 ? -10.277 -7.143 -2.030 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 4
+ATOM 5597 H HG13 . VAL A 1 18 ? -11.280 -8.579 -1.715 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 4
+ATOM 5598 H HG21 . VAL A 1 18 ? -13.648 -8.689 -2.803 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 4
+ATOM 5599 H HG22 . VAL A 1 18 ? -13.449 -7.850 -1.245 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 4
+ATOM 5600 H HG23 . VAL A 1 18 ? -14.398 -7.095 -2.548 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 4
+ATOM 5601 N N . PHE A 1 19 ? -10.289 -4.193 -1.831 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 4
+ATOM 5602 C CA . PHE A 1 19 ? -9.048 -3.481 -2.086 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 4
+ATOM 5603 C C . PHE A 1 19 ? -7.851 -4.244 -1.516 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 4
+ATOM 5604 O O . PHE A 1 19 ? -7.821 -4.560 -0.328 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 4
+ATOM 5605 C CB . PHE A 1 19 ? -9.157 -2.126 -1.383 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 4
+ATOM 5606 C CG . PHE A 1 19 ? -8.775 -0.935 -2.264 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 4
+ATOM 5607 C CD1 . PHE A 1 19 ? -7.564 -0.908 -2.883 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 4
+ATOM 5608 C CD2 . PHE A 1 19 ? -9.646 0.096 -2.428 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 4
+ATOM 5609 C CE1 . PHE A 1 19 ? -7.209 0.197 -3.701 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 4
+ATOM 5610 C CE2 . PHE A 1 19 ? -9.291 1.202 -3.246 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 4
+ATOM 5611 C CZ . PHE A 1 19 ? -8.080 1.229 -3.865 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 4
+ATOM 5612 H H . PHE A 1 19 ? -10.642 -4.106 -0.899 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 4
+ATOM 5613 H HA . PHE A 1 19 ? -8.941 -3.396 -3.168 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 4
+ATOM 5614 H HB2 . PHE A 1 19 ? -10.180 -1.992 -1.032 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 4
+ATOM 5615 H HB3 . PHE A 1 19 ? -8.515 -2.134 -0.502 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 4
+ATOM 5616 H HD1 . PHE A 1 19 ? -6.866 -1.735 -2.751 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 4
+ATOM 5617 H HD2 . PHE A 1 19 ? -10.616 0.075 -1.932 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 4
+ATOM 5618 H HE1 . PHE A 1 19 ? -6.239 0.219 -4.197 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 4
+ATOM 5619 H HE2 . PHE A 1 19 ? -9.989 2.029 -3.378 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 4
+ATOM 5620 H HZ . PHE A 1 19 ? -7.808 2.078 -4.493 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 4
+ATOM 5621 N N . PHE A 1 20 ? -6.894 -4.518 -2.390 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 4
+ATOM 5622 C CA . PHE A 1 20 ? -5.697 -5.238 -1.988 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 4
+ATOM 5623 C C . PHE A 1 20 ? -4.439 -4.558 -2.534 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 4
+ATOM 5624 O O . PHE A 1 20 ? -4.391 -4.182 -3.704 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 4
+ATOM 5625 C CB . PHE A 1 20 ? -5.801 -6.644 -2.582 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 4
+ATOM 5626 C CG . PHE A 1 20 ? -5.024 -7.707 -1.802 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 4
+ATOM 5627 C CD1 . PHE A 1 20 ? -3.680 -7.584 -1.640 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 4
+ATOM 5628 C CD2 . PHE A 1 20 ? -5.679 -8.775 -1.271 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 4
+ATOM 5629 C CE1 . PHE A 1 20 ? -2.959 -8.571 -0.917 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 4
+ATOM 5630 C CE2 . PHE A 1 20 ? -4.958 -9.761 -0.548 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 4
+ATOM 5631 C CZ . PHE A 1 20 ? -3.613 -9.638 -0.386 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 4
+ATOM 5632 H H . PHE A 1 20 ? -6.926 -4.257 -3.355 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 4
+ATOM 5633 H HA . PHE A 1 20 ? -5.667 -5.232 -0.899 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 4
+ATOM 5634 H HB2 . PHE A 1 20 ? -6.851 -6.933 -2.623 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 4
+ATOM 5635 H HB3 . PHE A 1 20 ? -5.436 -6.622 -3.608 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 4
+ATOM 5636 H HD1 . PHE A 1 20 ? -3.155 -6.729 -2.066 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 4
+ATOM 5637 H HD2 . PHE A 1 20 ? -6.756 -8.873 -1.401 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 4
+ATOM 5638 H HE1 . PHE A 1 20 ? -1.881 -8.473 -0.787 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 4
+ATOM 5639 H HE2 . PHE A 1 20 ? -5.482 -10.617 -0.122 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 4
+ATOM 5640 H HZ . PHE A 1 20 ? -3.060 -10.396 0.169 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 4
+ATOM 5641 N N . ALA A 1 21 ? -3.452 -4.423 -1.661 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 4
+ATOM 5642 C CA . ALA A 1 21 ? -2.198 -3.796 -2.040 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 4
+ATOM 5643 C C . ALA A 1 21 ? -1.040 -4.529 -1.360 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 4
+ATOM 5644 O O . ALA A 1 21 ? -0.988 -4.613 -0.134 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 4
+ATOM 5645 C CB . ALA A 1 21 ? -2.240 -2.310 -1.678 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 4
+ATOM 5646 H H . ALA A 1 21 ? -3.500 -4.732 -0.711 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 4
+ATOM 5647 H HA . ALA A 1 21 ? -2.093 -3.891 -3.121 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 4
+ATOM 5648 H HB1 . ALA A 1 21 ? -3.139 -1.859 -2.097 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 4
+ATOM 5649 H HB2 . ALA A 1 21 ? -2.249 -2.200 -0.594 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 4
+ATOM 5650 H HB3 . ALA A 1 21 ? -1.360 -1.812 -2.086 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 4
+ATOM 5651 N N . GLU A 1 22 ? -0.140 -5.042 -2.187 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 4
+ATOM 5652 C CA . GLU A 1 22 ? 1.014 -5.765 -1.680 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 4
+ATOM 5653 C C . GLU A 1 22 ? 2.289 -5.287 -2.379 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 4
+ATOM 5654 O O . GLU A 1 22 ? 2.328 -5.184 -3.604 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 4
+ATOM 5655 C CB . GLU A 1 22 ? 0.831 -7.275 -1.848 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 4
+ATOM 5656 C CG . GLU A 1 22 ? 1.905 -8.046 -1.077 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 4
+ATOM 5657 C CD . GLU A 1 22 ? 1.824 -9.545 -1.376 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 4
+ATOM 5658 O OE1 . GLU A 1 22 ? 0.728 -9.983 -1.786 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 4
+ATOM 5659 O OE2 . GLU A 1 22 ? 2.861 -10.217 -1.187 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 4
+ATOM 5660 H H . GLU A 1 22 ? -0.190 -4.969 -3.183 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 4
+ATOM 5661 H HA . GLU A 1 22 ? 1.062 -5.527 -0.618 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 4
+ATOM 5662 H HB2 . GLU A 1 22 ? -0.157 -7.567 -1.492 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 4
+ATOM 5663 H HB3 . GLU A 1 22 ? 0.879 -7.536 -2.905 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 4
+ATOM 5664 H HG2 . GLU A 1 22 ? 2.892 -7.670 -1.347 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 4
+ATOM 5665 H HG3 . GLU A 1 22 ? 1.781 -7.878 -0.007 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 4
+ATOM 5666 N N . ASP A 1 23 ? 3.299 -5.007 -1.569 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 4
+ATOM 5667 C CA . ASP A 1 23 ? 4.572 -4.542 -2.094 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 4
+ATOM 5668 C C . ASP A 1 23 ? 5.659 -5.568 -1.767 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 4
+ATOM 5669 O O . ASP A 1 23 ? 6.195 -5.578 -0.660 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 4
+ATOM 5670 C CB . ASP A 1 23 ? 4.975 -3.208 -1.460 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 4
+ATOM 5671 C CG . ASP A 1 23 ? 6.341 -2.673 -1.893 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 4
+ATOM 5672 O OD1 . ASP A 1 23 ? 6.656 -2.825 -3.093 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 4
+ATOM 5673 O OD2 . ASP A 1 23 ? 7.040 -2.125 -1.014 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 4
+ATOM 5674 H H . ASP A 1 23 ? 3.259 -5.093 -0.573 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 4
+ATOM 5675 H HA . ASP A 1 23 ? 4.415 -4.428 -3.166 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 4
+ATOM 5676 H HB2 . ASP A 1 23 ? 4.216 -2.464 -1.704 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 4
+ATOM 5677 H HB3 . ASP A 1 23 ? 4.972 -3.323 -0.376 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 4
+ATOM 5678 N N . VAL A 1 24 ? 5.952 -6.406 -2.750 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 4
+ATOM 5679 C CA . VAL A 1 24 ? 6.965 -7.433 -2.581 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 4
+ATOM 5680 C C . VAL A 1 24 ? 8.347 -6.826 -2.830 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 4
+ATOM 5681 O O . VAL A 1 24 ? 8.723 -6.578 -3.975 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 4
+ATOM 5682 C CB . VAL A 1 24 ? 6.662 -8.623 -3.494 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 4
+ATOM 5683 C CG1 . VAL A 1 24 ? 7.918 -9.462 -3.737 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 4
+ATOM 5684 C CG2 . VAL A 1 24 ? 5.532 -9.480 -2.920 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 4
+ATOM 5685 H H . VAL A 1 24 ? 5.511 -6.391 -3.648 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 4
+ATOM 5686 H HA . VAL A 1 24 ? 6.915 -7.778 -1.549 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 4
+ATOM 5687 H HB . VAL A 1 24 ? 6.329 -8.231 -4.455 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 4
+ATOM 5688 H HG11 . VAL A 1 24 ? 7.671 -10.520 -3.645 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 4
+ATOM 5689 H HG12 . VAL A 1 24 ? 8.299 -9.264 -4.739 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 4
+ATOM 5690 H HG13 . VAL A 1 24 ? 8.678 -9.200 -3.001 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 4
+ATOM 5691 H HG21 . VAL A 1 24 ? 5.659 -10.513 -3.245 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 4
+ATOM 5692 H HG22 . VAL A 1 24 ? 5.560 -9.436 -1.831 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 4
+ATOM 5693 H HG23 . VAL A 1 24 ? 4.573 -9.103 -3.274 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 4
+ATOM 5694 N N . GLY A 1 25 ? 9.066 -6.604 -1.740 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 4
+ATOM 5695 C CA . GLY A 1 25 ? 10.399 -6.030 -1.826 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 4
+ATOM 5696 C C . GLY A 1 25 ? 11.457 -7.030 -1.356 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 4
+ATOM 5697 O O . GLY A 1 25 ? 11.659 -7.209 -0.156 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 4
+ATOM 5698 H H . GLY A 1 25 ? 8.753 -6.808 -0.812 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 4
+ATOM 5699 H HA2 . GLY A 1 25 ? 10.605 -5.732 -2.854 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 4
+ATOM 5700 H HA3 . GLY A 1 25 ? 10.450 -5.128 -1.216 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 4
+ATOM 5701 N N . SER A 1 26 ? 12.106 -7.656 -2.328 1.00 0.00 ? ? ? ? ? ? 26 SER A N 4
+ATOM 5702 C CA . SER A 1 26 ? 13.139 -8.633 -2.029 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 4
+ATOM 5703 C C . SER A 1 26 ? 14.408 -7.924 -1.552 1.00 0.00 ? ? ? ? ? ? 26 SER A C 4
+ATOM 5704 O O . SER A 1 26 ? 15.394 -7.852 -2.283 1.00 0.00 ? ? ? ? ? ? 26 SER A O 4
+ATOM 5705 C CB . SER A 1 26 ? 13.443 -9.503 -3.250 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 4
+ATOM 5706 O OG . SER A 1 26 ? 12.273 -10.134 -3.762 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 4
+ATOM 5707 H H . SER A 1 26 ? 11.936 -7.505 -3.301 1.00 0.00 ? ? ? ? ? ? 26 SER A H 4
+ATOM 5708 H HA . SER A 1 26 ? 12.726 -9.255 -1.235 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 4
+ATOM 5709 H HB2 . SER A 1 26 ? 13.894 -8.888 -4.030 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 4
+ATOM 5710 H HB3 . SER A 1 26 ? 14.176 -10.263 -2.980 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 4
+ATOM 5711 H HG . SER A 1 26 ? 11.703 -9.463 -4.238 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 4
+ATOM 5712 N N . ASN A 1 27 ? 14.341 -7.420 -0.329 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 4
+ATOM 5713 C CA . ASN A 1 27 ? 15.473 -6.719 0.254 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 4
+ATOM 5714 C C . ASN A 1 27 ? 15.631 -5.359 -0.428 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 4
+ATOM 5715 O O . ASN A 1 27 ? 14.772 -4.946 -1.206 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 4
+ATOM 5716 C CB . ASN A 1 27 ? 16.770 -7.503 0.051 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 4
+ATOM 5717 C CG . ASN A 1 27 ? 17.737 -7.275 1.215 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 4
+ATOM 5718 O OD1 . ASN A 1 27 ? 18.858 -6.825 1.045 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 4
+ATOM 5719 N ND2 . ASN A 1 27 ? 17.242 -7.610 2.403 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 4
+ATOM 5720 H H . ASN A 1 27 ? 13.535 -7.483 0.259 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 4
+ATOM 5721 H HA . ASN A 1 27 ? 15.238 -6.629 1.315 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 4
+ATOM 5722 H HB2 . ASN A 1 27 ? 16.547 -8.567 -0.038 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 4
+ATOM 5723 H HB3 . ASN A 1 27 ? 17.242 -7.198 -0.883 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 4
+ATOM 5724 H HD21 . ASN A 1 27 ? 16.314 -7.974 2.473 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 4
+ATOM 5725 H HD22 . ASN A 1 27 ? 17.799 -7.497 3.226 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 4
+ATOM 5726 N N . LYS A 1 28 ? 16.736 -4.699 -0.111 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 4
+ATOM 5727 C CA . LYS A 1 28 ? 17.017 -3.393 -0.684 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 4
+ATOM 5728 C C . LYS A 1 28 ? 15.878 -2.433 -0.338 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 4
+ATOM 5729 O O . LYS A 1 28 ? 14.809 -2.862 0.094 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 4
+ATOM 5730 C CB . LYS A 1 28 ? 17.286 -3.513 -2.185 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 4
+ATOM 5731 C CG . LYS A 1 28 ? 18.621 -2.864 -2.557 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 4
+ATOM 5732 C CD . LYS A 1 28 ? 19.717 -3.919 -2.723 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 4
+ATOM 5733 C CE . LYS A 1 28 ? 21.097 -3.265 -2.818 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 4
+ATOM 5734 N NZ . LYS A 1 28 ? 21.618 -3.355 -4.200 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 4
+ATOM 5735 H H . LYS A 1 28 ? 17.429 -5.041 0.523 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 4
+ATOM 5736 H HA . LYS A 1 28 ? 17.933 -3.024 -0.221 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 4
+ATOM 5737 H HB2 . LYS A 1 28 ? 17.296 -4.564 -2.474 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 4
+ATOM 5738 H HB3 . LYS A 1 28 ? 16.479 -3.038 -2.742 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 4
+ATOM 5739 H HG2 . LYS A 1 28 ? 18.510 -2.301 -3.483 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 4
+ATOM 5740 H HG3 . LYS A 1 28 ? 18.911 -2.152 -1.784 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 4
+ATOM 5741 H HD2 . LYS A 1 28 ? 19.694 -4.607 -1.878 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 4
+ATOM 5742 H HD3 . LYS A 1 28 ? 19.527 -4.508 -3.620 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 4
+ATOM 5743 H HE2 . LYS A 1 28 ? 21.033 -2.220 -2.515 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 4
+ATOM 5744 H HE3 . LYS A 1 28 ? 21.786 -3.755 -2.130 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 4
+ATOM 5745 H HZ1 . LYS A 1 28 ? 22.399 -2.738 -4.303 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 4
+ATOM 5746 H HZ2 . LYS A 1 28 ? 21.909 -4.294 -4.386 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 4
+ATOM 5747 H HZ3 . LYS A 1 28 ? 20.900 -3.094 -4.845 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 4
+ATOM 5748 N N . GLY A 1 29 ? 16.145 -1.151 -0.540 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 4
+ATOM 5749 C CA . GLY A 1 29 ? 15.155 -0.126 -0.255 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 4
+ATOM 5750 C C . GLY A 1 29 ? 15.719 0.931 0.697 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 4
+ATOM 5751 O O . GLY A 1 29 ? 15.502 0.861 1.906 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 4
+ATOM 5752 H H . GLY A 1 29 ? 17.017 -0.810 -0.892 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 4
+ATOM 5753 H HA2 . GLY A 1 29 ? 14.840 0.348 -1.185 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 4
+ATOM 5754 H HA3 . GLY A 1 29 ? 14.270 -0.583 0.186 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 4
+ATOM 5755 N N . ALA A 1 30 ? 16.432 1.885 0.117 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 4
+ATOM 5756 C CA . ALA A 1 30 ? 17.028 2.954 0.899 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 4
+ATOM 5757 C C . ALA A 1 30 ? 15.925 3.718 1.634 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 4
+ATOM 5758 O O . ALA A 1 30 ? 15.851 3.681 2.861 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 4
+ATOM 5759 C CB . ALA A 1 30 ? 17.852 3.860 -0.019 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 4
+ATOM 5760 H H . ALA A 1 30 ? 16.604 1.934 -0.867 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 4
+ATOM 5761 H HA . ALA A 1 30 ? 17.693 2.498 1.632 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 4
+ATOM 5762 H HB1 . ALA A 1 30 ? 18.130 3.310 -0.918 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 4
+ATOM 5763 H HB2 . ALA A 1 30 ? 17.261 4.733 -0.295 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 4
+ATOM 5764 H HB3 . ALA A 1 30 ? 18.754 4.182 0.502 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 4
+ATOM 5765 N N . ILE A 1 31 ? 15.095 4.394 0.852 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 4
+ATOM 5766 C CA . ILE A 1 31 ? 14.000 5.166 1.414 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 4
+ATOM 5767 C C . ILE A 1 31 ? 12.676 4.659 0.837 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 4
+ATOM 5768 O O . ILE A 1 31 ? 12.398 4.849 -0.346 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 4
+ATOM 5769 C CB . ILE A 1 31 ? 14.232 6.662 1.197 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 4
+ATOM 5770 C CG1 . ILE A 1 31 ? 15.590 7.093 1.756 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 4
+ATOM 5771 C CG2 . ILE A 1 31 ? 13.084 7.486 1.783 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 4
+ATOM 5772 C CD1 . ILE A 1 31 ? 16.354 7.948 0.743 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 4
+ATOM 5773 H H . ILE A 1 31 ? 15.163 4.419 -0.145 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 4
+ATOM 5774 H HA . ILE A 1 31 ? 13.996 4.993 2.490 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 4
+ATOM 5775 H HB . ILE A 1 31 ? 14.251 6.853 0.124 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 4
+ATOM 5776 H HG12 . ILE A 1 31 ? 15.446 7.656 2.678 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 4
+ATOM 5777 H HG13 . ILE A 1 31 ? 16.179 6.212 2.010 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 4
+ATOM 5778 H HG21 . ILE A 1 31 ? 12.257 6.825 2.040 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 4
+ATOM 5779 H HG22 . ILE A 1 31 ? 13.428 8.003 2.679 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 4
+ATOM 5780 H HG23 . ILE A 1 31 ? 12.749 8.217 1.047 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 4
+ATOM 5781 H HD11 . ILE A 1 31 ? 17.425 7.789 0.867 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 4
+ATOM 5782 H HD12 . ILE A 1 31 ? 16.058 7.665 -0.267 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 4
+ATOM 5783 H HD13 . ILE A 1 31 ? 16.122 9.001 0.908 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 4
+ATOM 5784 N N . ILE A 1 32 ? 11.896 4.025 1.699 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 4
+ATOM 5785 C CA . ILE A 1 32 ? 10.609 3.490 1.290 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 4
+ATOM 5786 C C . ILE A 1 32 ? 9.493 4.247 2.013 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 4
+ATOM 5787 O O . ILE A 1 32 ? 9.361 4.150 3.232 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 4
+ATOM 5788 C CB . ILE A 1 32 ? 10.564 1.976 1.507 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 4
+ATOM 5789 C CG1 . ILE A 1 32 ? 9.183 1.413 1.167 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 4
+ATOM 5790 C CG2 . ILE A 1 32 ? 10.997 1.613 2.929 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 4
+ATOM 5791 C CD1 . ILE A 1 32 ? 9.269 -0.070 0.801 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 4
+ATOM 5792 H H . ILE A 1 32 ? 12.130 3.875 2.660 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 4
+ATOM 5793 H HA . ILE A 1 32 ? 10.507 3.665 0.219 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 4
+ATOM 5794 H HB . ILE A 1 32 ? 11.277 1.512 0.825 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 4
+ATOM 5795 H HG12 . ILE A 1 32 ? 8.514 1.543 2.018 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 4
+ATOM 5796 H HG13 . ILE A 1 32 ? 8.753 1.972 0.335 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 4
+ATOM 5797 H HG21 . ILE A 1 32 ? 10.324 0.856 3.331 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 4
+ATOM 5798 H HG22 . ILE A 1 32 ? 12.014 1.221 2.911 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 4
+ATOM 5799 H HG23 . ILE A 1 32 ? 10.961 2.502 3.558 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 4
+ATOM 5800 H HD11 . ILE A 1 32 ? 9.523 -0.169 -0.255 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 4
+ATOM 5801 H HD12 . ILE A 1 32 ? 10.039 -0.549 1.406 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 4
+ATOM 5802 H HD13 . ILE A 1 32 ? 8.308 -0.548 0.990 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 4
+ATOM 5803 N N . GLY A 1 33 ? 8.719 4.985 1.230 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 4
+ATOM 5804 C CA . GLY A 1 33 ? 7.619 5.758 1.781 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 4
+ATOM 5805 C C . GLY A 1 33 ? 6.281 5.053 1.547 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 4
+ATOM 5806 O O . GLY A 1 33 ? 5.593 5.330 0.565 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 4
+ATOM 5807 H H . GLY A 1 33 ? 8.833 5.058 0.240 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 4
+ATOM 5808 H HA2 . GLY A 1 33 ? 7.773 5.907 2.849 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 4
+ATOM 5809 H HA3 . GLY A 1 33 ? 7.599 6.746 1.321 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 4
+ATOM 5810 N N . LEU A 1 34 ? 5.953 4.156 2.464 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 4
+ATOM 5811 C CA . LEU A 1 34 ? 4.710 3.409 2.370 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 4
+ATOM 5812 C C . LEU A 1 34 ? 3.585 4.215 3.022 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 4
+ATOM 5813 O O . LEU A 1 34 ? 3.735 4.704 4.141 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 4
+ATOM 5814 C CB . LEU A 1 34 ? 4.882 2.007 2.957 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 4
+ATOM 5815 C CG . LEU A 1 34 ? 4.725 0.844 1.975 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 4
+ATOM 5816 C CD1 . LEU A 1 34 ? 3.288 0.752 1.460 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 4
+ATOM 5817 C CD2 . LEU A 1 34 ? 5.738 0.952 0.833 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 4
+ATOM 5818 H H . LEU A 1 34 ? 6.519 3.937 3.260 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 4
+ATOM 5819 H HA . LEU A 1 34 ? 4.481 3.289 1.311 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 4
+ATOM 5820 H HB2 . LEU A 1 34 ? 5.871 1.943 3.410 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 4
+ATOM 5821 H HB3 . LEU A 1 34 ? 4.155 1.879 3.760 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 4
+ATOM 5822 H HG . LEU A 1 34 ? 4.937 -0.083 2.507 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 4
+ATOM 5823 H HD11 . LEU A 1 34 ? 2.975 1.724 1.079 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 4
+ATOM 5824 H HD12 . LEU A 1 34 ? 3.236 0.015 0.659 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 4
+ATOM 5825 H HD13 . LEU A 1 34 ? 2.629 0.451 2.274 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 4
+ATOM 5826 H HD21 . LEU A 1 34 ? 5.614 1.909 0.326 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 4
+ATOM 5827 H HD22 . LEU A 1 34 ? 6.748 0.882 1.235 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 4
+ATOM 5828 H HD23 . LEU A 1 34 ? 5.573 0.141 0.123 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 4
+ATOM 5829 N N . MET A 1 35 ? 2.484 4.330 2.294 1.00 0.00 ? ? ? ? ? ? 35 MET A N 4
+ATOM 5830 C CA . MET A 1 35 ? 1.334 5.068 2.788 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 4
+ATOM 5831 C C . MET A 1 35 ? 0.027 4.427 2.317 1.00 0.00 ? ? ? ? ? ? 35 MET A C 4
+ATOM 5832 O O . MET A 1 35 ? -0.105 4.063 1.150 1.00 0.00 ? ? ? ? ? ? 35 MET A O 4
+ATOM 5833 C CB . MET A 1 35 ? 1.403 6.513 2.289 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 4
+ATOM 5834 C CG . MET A 1 35 ? 2.107 7.412 3.307 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 4
+ATOM 5835 S SD . MET A 1 35 ? 1.937 9.124 2.830 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 4
+ATOM 5836 C CE . MET A 1 35 ? 0.556 9.596 3.857 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 4
+ATOM 5837 H H . MET A 1 35 ? 2.371 3.929 1.385 1.00 0.00 ? ? ? ? ? ? 35 MET A H 4
+ATOM 5838 H HA . MET A 1 35 ? 1.400 5.020 3.875 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 4
+ATOM 5839 H HB2 . MET A 1 35 ? 1.934 6.548 1.338 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 4
+ATOM 5840 H HB3 . MET A 1 35 ? 0.395 6.886 2.105 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 4
+ATOM 5841 H HG2 . MET A 1 35 ? 1.680 7.258 4.298 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 4
+ATOM 5842 H HG3 . MET A 1 35 ? 3.162 7.146 3.370 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 4
+ATOM 5843 H HE1 . MET A 1 35 ? 0.032 8.702 4.196 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 4
+ATOM 5844 H HE2 . MET A 1 35 ? 0.918 10.154 4.720 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 4
+ATOM 5845 H HE3 . MET A 1 35 ? -0.128 10.221 3.282 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 4
+ATOM 5846 N N . VAL A 1 36 ? -0.905 4.307 3.251 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 4
+ATOM 5847 C CA . VAL A 1 36 ? -2.197 3.716 2.946 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 4
+ATOM 5848 C C . VAL A 1 36 ? -3.306 4.694 3.338 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 4
+ATOM 5849 O O . VAL A 1 36 ? -3.506 4.972 4.519 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 4
+ATOM 5850 C CB . VAL A 1 36 ? -2.327 2.357 3.638 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 4
+ATOM 5851 C CG1 . VAL A 1 36 ? -3.710 1.749 3.397 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 4
+ATOM 5852 C CG2 . VAL A 1 36 ? -1.222 1.402 3.183 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 4
+ATOM 5853 H H . VAL A 1 36 ? -0.790 4.605 4.198 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 4
+ATOM 5854 H HA . VAL A 1 36 ? -2.238 3.551 1.870 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 4
+ATOM 5855 H HB . VAL A 1 36 ? -2.213 2.515 4.711 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 4
+ATOM 5856 H HG11 . VAL A 1 36 ? -4.392 2.075 4.183 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 4
+ATOM 5857 H HG12 . VAL A 1 36 ? -4.088 2.078 2.429 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 4
+ATOM 5858 H HG13 . VAL A 1 36 ? -3.636 0.662 3.408 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 4
+ATOM 5859 H HG21 . VAL A 1 36 ? -1.450 1.033 2.183 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 4
+ATOM 5860 H HG22 . VAL A 1 36 ? -0.269 1.931 3.167 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 4
+ATOM 5861 H HG23 . VAL A 1 36 ? -1.159 0.563 3.875 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 4
+ATOM 5862 N N . GLY A 1 37 ? -3.999 5.190 2.323 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 4
+ATOM 5863 C CA . GLY A 1 37 ? -5.083 6.132 2.546 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 4
+ATOM 5864 C C . GLY A 1 37 ? -6.429 5.522 2.151 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 4
+ATOM 5865 O O . GLY A 1 37 ? -6.553 4.918 1.087 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 4
+ATOM 5866 H H . GLY A 1 37 ? -3.831 4.959 1.365 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 4
+ATOM 5867 H HA2 . GLY A 1 37 ? -5.106 6.423 3.596 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 4
+ATOM 5868 H HA3 . GLY A 1 37 ? -4.906 7.039 1.968 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 4
+ATOM 5869 N N . GLY A 1 38 ? -7.405 5.702 3.030 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 4
+ATOM 5870 C CA . GLY A 1 38 ? -8.737 5.176 2.786 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 4
+ATOM 5871 C C . GLY A 1 38 ? -9.809 6.168 3.243 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 4
+ATOM 5872 O O . GLY A 1 38 ? -9.635 6.857 4.247 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 4
+ATOM 5873 H H . GLY A 1 38 ? -7.296 6.194 3.893 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 4
+ATOM 5874 H HA2 . GLY A 1 38 ? -8.861 4.966 1.724 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 4
+ATOM 5875 H HA3 . GLY A 1 38 ? -8.862 4.231 3.314 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 4
+ATOM 5876 N N . VAL A 1 39 ? -10.895 6.208 2.484 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 4
+ATOM 5877 C CA . VAL A 1 39 ? -11.995 7.104 2.799 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 4
+ATOM 5878 C C . VAL A 1 39 ? -13.290 6.541 2.210 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 4
+ATOM 5879 O O . VAL A 1 39 ? -13.332 6.167 1.038 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 4
+ATOM 5880 C CB . VAL A 1 39 ? -11.678 8.517 2.303 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 4
+ATOM 5881 C CG1 . VAL A 1 39 ? -11.229 8.497 0.841 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 4
+ATOM 5882 C CG2 . VAL A 1 39 ? -12.876 9.448 2.497 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 4
+ATOM 5883 H H . VAL A 1 39 ? -11.028 5.645 1.669 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 4
+ATOM 5884 H HA . VAL A 1 39 ? -12.089 7.140 3.884 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 4
+ATOM 5885 H HB . VAL A 1 39 ? -10.853 8.904 2.901 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 4
+ATOM 5886 H HG11 . VAL A 1 39 ? -10.521 7.682 0.689 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 4
+ATOM 5887 H HG12 . VAL A 1 39 ? -12.096 8.350 0.197 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 4
+ATOM 5888 H HG13 . VAL A 1 39 ? -10.750 9.445 0.595 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 4
+ATOM 5889 H HG21 . VAL A 1 39 ? -13.777 8.853 2.649 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 4
+ATOM 5890 H HG22 . VAL A 1 39 ? -12.707 10.081 3.368 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 4
+ATOM 5891 H HG23 . VAL A 1 39 ? -12.998 10.072 1.612 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 4
+ATOM 5892 N N . VAL A 1 40 ? -14.314 6.498 3.049 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 4
+ATOM 5893 C CA . VAL A 1 40 ? -15.607 5.986 2.626 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 4
+ATOM 5894 C C . VAL A 1 40 ? -16.700 6.975 3.035 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 4
+ATOM 5895 O O . VAL A 1 40 ? -16.704 7.470 4.161 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 4
+ATOM 5896 C CB . VAL A 1 40 ? -15.826 4.583 3.195 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 4
+ATOM 5897 C CG1 . VAL A 1 40 ? -17.183 4.022 2.763 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 4
+ATOM 5898 C CG2 . VAL A 1 40 ? -14.690 3.643 2.788 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 4
+ATOM 5899 H H . VAL A 1 40 ? -14.271 6.803 4.000 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 4
+ATOM 5900 H HA . VAL A 1 40 ? -15.591 5.911 1.538 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 4
+ATOM 5901 H HB . VAL A 1 40 ? -15.825 4.658 4.282 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 4
+ATOM 5902 H HG11 . VAL A 1 40 ? -17.864 4.845 2.548 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 4
+ATOM 5903 H HG12 . VAL A 1 40 ? -17.056 3.412 1.869 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 4
+ATOM 5904 H HG13 . VAL A 1 40 ? -17.594 3.410 3.566 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 4
+ATOM 5905 H HG21 . VAL A 1 40 ? -14.498 2.934 3.593 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 4
+ATOM 5906 H HG22 . VAL A 1 40 ? -14.973 3.100 1.886 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 4
+ATOM 5907 H HG23 . VAL A 1 40 ? -13.788 4.224 2.594 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 4
+ATOM 5908 N N . ILE A 1 41 ? -17.602 7.232 2.099 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 4
+ATOM 5909 C CA . ILE A 1 41 ? -18.698 8.153 2.348 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 4
+ATOM 5910 C C . ILE A 1 41 ? -19.967 7.620 1.681 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 4
+ATOM 5911 O O . ILE A 1 41 ? -20.186 7.839 0.490 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 4
+ATOM 5912 C CB . ILE A 1 41 ? -18.319 9.568 1.907 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 4
+ATOM 5913 C CG1 . ILE A 1 41 ? -19.524 10.508 1.987 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 4
+ATOM 5914 C CG2 . ILE A 1 41 ? -17.691 9.559 0.512 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 4
+ATOM 5915 C CD1 . ILE A 1 41 ? -19.159 11.911 1.500 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 4
+ATOM 5916 H H . ILE A 1 41 ? -17.591 6.825 1.185 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 4
+ATOM 5917 H HA . ILE A 1 41 ? -18.860 8.183 3.425 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 4
+ATOM 5918 H HB . ILE A 1 41 ? -17.567 9.951 2.597 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 4
+ATOM 5919 H HG12 . ILE A 1 41 ? -20.340 10.111 1.384 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 4
+ATOM 5920 H HG13 . ILE A 1 41 ? -19.883 10.558 3.015 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 4
+ATOM 5921 H HG21 . ILE A 1 41 ? -16.720 10.052 0.548 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 4
+ATOM 5922 H HG22 . ILE A 1 41 ? -17.564 8.529 0.178 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 4
+ATOM 5923 H HG23 . ILE A 1 41 ? -18.343 10.089 -0.183 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 4
+ATOM 5924 H HD11 . ILE A 1 41 ? -19.159 11.929 0.410 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 4
+ATOM 5925 H HD12 . ILE A 1 41 ? -19.889 12.628 1.875 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 4
+ATOM 5926 H HD13 . ILE A 1 41 ? -18.167 12.177 1.868 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 4
+ATOM 5927 N N . ALA A 1 42 ? -20.771 6.931 2.477 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 4
+ATOM 5928 C CA . ALA A 1 42 ? -22.013 6.365 1.979 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 4
+ATOM 5929 C C . ALA A 1 42 ? -23.149 7.366 2.199 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 4
+ATOM 5930 O O . ALA A 1 42 ? -23.185 8.057 3.216 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 4
+ATOM 5931 C CB . ALA A 1 42 ? -22.276 5.024 2.668 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 4
+ATOM 5932 H H . ALA A 1 42 ? -20.586 6.757 3.445 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 4
+ATOM 5933 H HA . ALA A 1 42 ? -21.894 6.192 0.909 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 4
+ATOM 5934 H HB1 . ALA A 1 42 ? -22.828 5.193 3.593 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 4
+ATOM 5935 H HB2 . ALA A 1 42 ? -22.862 4.385 2.007 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 4
+ATOM 5936 H HB3 . ALA A 1 42 ? -21.327 4.540 2.895 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 4
+ATOM 5937 N N . LEU B 1 17 ? -16.022 -4.956 -6.404 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 4
+ATOM 5938 C CA . LEU B 1 17 ? -14.906 -4.236 -6.995 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 4
+ATOM 5939 C C . LEU B 1 17 ? -13.593 -4.830 -6.483 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 4
+ATOM 5940 O O . LEU B 1 17 ? -13.110 -4.451 -5.417 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 4
+ATOM 5941 C CB . LEU B 1 17 ? -15.042 -2.734 -6.740 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 4
+ATOM 5942 C CG . LEU B 1 17 ? -15.673 -1.916 -7.869 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 4
+ATOM 5943 C CD1 . LEU B 1 17 ? -17.090 -2.404 -8.174 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 4
+ATOM 5944 C CD2 . LEU B 1 17 ? -15.639 -0.420 -7.548 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 4
+ATOM 5945 H H . LEU B 1 17 ? -16.734 -4.378 -6.005 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 4
+ATOM 5946 H HA . LEU B 1 17 ? -14.956 -4.386 -8.073 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 4
+ATOM 5947 H HB2 . LEU B 1 17 ? -15.638 -2.591 -5.838 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 4
+ATOM 5948 H HB3 . LEU B 1 17 ? -14.051 -2.329 -6.534 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 4
+ATOM 5949 H HG . LEU B 1 17 ? -15.080 -2.065 -8.771 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 4
+ATOM 5950 H HD11 . LEU B 1 17 ? -17.173 -2.640 -9.235 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 4
+ATOM 5951 H HD12 . LEU B 1 17 ? -17.301 -3.298 -7.586 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 4
+ATOM 5952 H HD13 . LEU B 1 17 ? -17.807 -1.624 -7.918 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 4
+ATOM 5953 H HD21 . LEU B 1 17 ? -14.604 -0.080 -7.512 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 4
+ATOM 5954 H HD22 . LEU B 1 17 ? -16.176 0.129 -8.320 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 4
+ATOM 5955 H HD23 . LEU B 1 17 ? -16.112 -0.245 -6.581 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 4
+ATOM 5956 N N . VAL B 1 18 ? -13.052 -5.752 -7.266 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 4
+ATOM 5957 C CA . VAL B 1 18 ? -11.803 -6.402 -6.905 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 4
+ATOM 5958 C C . VAL B 1 18 ? -10.632 -5.498 -7.293 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 4
+ATOM 5959 O O . VAL B 1 18 ? -10.522 -5.077 -8.444 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 4
+ATOM 5960 C CB . VAL B 1 18 ? -11.729 -7.787 -7.551 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 4
+ATOM 5961 C CG1 . VAL B 1 18 ? -10.337 -8.397 -7.381 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 4
+ATOM 5962 C CG2 . VAL B 1 18 ? -12.807 -8.714 -6.986 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 4
+ATOM 5963 H H . VAL B 1 18 ? -13.451 -6.054 -8.132 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 4
+ATOM 5964 H HA . VAL B 1 18 ? -11.802 -6.533 -5.823 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 4
+ATOM 5965 H HB . VAL B 1 18 ? -11.915 -7.670 -8.619 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 4
+ATOM 5966 H HG11 . VAL B 1 18 ? -10.380 -9.466 -7.593 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 4
+ATOM 5967 H HG12 . VAL B 1 18 ? -9.643 -7.918 -8.071 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 4
+ATOM 5968 H HG13 . VAL B 1 18 ? -9.995 -8.243 -6.357 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 4
+ATOM 5969 H HG21 . VAL B 1 18 ? -13.455 -9.053 -7.794 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 4
+ATOM 5970 H HG22 . VAL B 1 18 ? -12.334 -9.575 -6.513 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 4
+ATOM 5971 H HG23 . VAL B 1 18 ? -13.399 -8.174 -6.247 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 4
+ATOM 5972 N N . PHE B 1 19 ? -9.785 -5.226 -6.311 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 4
+ATOM 5973 C CA . PHE B 1 19 ? -8.626 -4.380 -6.535 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 4
+ATOM 5974 C C . PHE B 1 19 ? -7.344 -5.070 -6.066 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 4
+ATOM 5975 O O . PHE B 1 19 ? -6.978 -4.978 -4.895 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 4
+ATOM 5976 C CB . PHE B 1 19 ? -8.836 -3.106 -5.714 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 4
+ATOM 5977 C CG . PHE B 1 19 ? -9.097 -1.857 -6.557 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 4
+ATOM 5978 C CD1 . PHE B 1 19 ? -8.055 -1.091 -6.979 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 4
+ATOM 5979 C CD2 . PHE B 1 19 ? -10.371 -1.512 -6.886 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 4
+ATOM 5980 C CE1 . PHE B 1 19 ? -8.297 0.068 -7.762 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 4
+ATOM 5981 C CE2 . PHE B 1 19 ? -10.613 -0.353 -7.669 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 4
+ATOM 5982 C CZ . PHE B 1 19 ? -9.571 0.413 -8.090 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 4
+ATOM 5983 H H . PHE B 1 19 ? -9.881 -5.572 -5.378 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 4
+ATOM 5984 H HA . PHE B 1 19 ? -8.564 -4.193 -7.608 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 4
+ATOM 5985 H HB2 . PHE B 1 19 ? -9.676 -3.257 -5.037 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 4
+ATOM 5986 H HB3 . PHE B 1 19 ? -7.955 -2.936 -5.094 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 4
+ATOM 5987 H HD1 . PHE B 1 19 ? -7.034 -1.367 -6.716 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 4
+ATOM 5988 H HD2 . PHE B 1 19 ? -11.206 -2.126 -6.548 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 4
+ATOM 5989 H HE1 . PHE B 1 19 ? -7.462 0.682 -8.100 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 4
+ATOM 5990 H HE2 . PHE B 1 19 ? -11.634 -0.076 -7.932 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 4
+ATOM 5991 H HZ . PHE B 1 19 ? -9.757 1.303 -8.691 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 4
+ATOM 5992 N N . PHE B 1 20 ? -6.696 -5.747 -7.003 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 4
+ATOM 5993 C CA . PHE B 1 20 ? -5.463 -6.452 -6.700 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 4
+ATOM 5994 C C . PHE B 1 20 ? -4.246 -5.666 -7.192 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 4
+ATOM 5995 O O . PHE B 1 20 ? -4.010 -5.570 -8.396 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 4
+ATOM 5996 C CB . PHE B 1 20 ? -5.522 -7.792 -7.436 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 4
+ATOM 5997 C CG . PHE B 1 20 ? -5.161 -8.997 -6.565 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 4
+ATOM 5998 C CD1 . PHE B 1 20 ? -3.859 -9.255 -6.267 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 4
+ATOM 5999 C CD2 . PHE B 1 20 ? -6.141 -9.811 -6.089 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 4
+ATOM 6000 C CE1 . PHE B 1 20 ? -3.524 -10.373 -5.459 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 4
+ATOM 6001 C CE2 . PHE B 1 20 ? -5.806 -10.929 -5.281 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 4
+ATOM 6002 C CZ . PHE B 1 20 ? -4.505 -11.187 -4.983 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 4
+ATOM 6003 H H . PHE B 1 20 ? -7.001 -5.817 -7.953 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 4
+ATOM 6004 H HA . PHE B 1 20 ? -5.410 -6.560 -5.617 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 4
+ATOM 6005 H HB2 . PHE B 1 20 ? -6.527 -7.933 -7.834 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 4
+ATOM 6006 H HB3 . PHE B 1 20 ? -4.843 -7.757 -8.289 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 4
+ATOM 6007 H HD1 . PHE B 1 20 ? -3.073 -8.603 -6.648 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 4
+ATOM 6008 H HD2 . PHE B 1 20 ? -7.185 -9.604 -6.328 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 4
+ATOM 6009 H HE1 . PHE B 1 20 ? -2.481 -10.580 -5.219 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 4
+ATOM 6010 H HE2 . PHE B 1 20 ? -6.592 -11.581 -4.900 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 4
+ATOM 6011 H HZ . PHE B 1 20 ? -4.247 -12.045 -4.362 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 4
+ATOM 6012 N N . ALA B 1 21 ? -3.506 -5.124 -6.237 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 4
+ATOM 6013 C CA . ALA B 1 21 ? -2.319 -4.350 -6.558 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 4
+ATOM 6014 C C . ALA B 1 21 ? -1.086 -5.055 -5.990 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 4
+ATOM 6015 O O . ALA B 1 21 ? -0.827 -4.990 -4.789 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 4
+ATOM 6016 C CB . ALA B 1 21 ? -2.477 -2.927 -6.018 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 4
+ATOM 6017 H H . ALA B 1 21 ? -3.705 -5.207 -5.260 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 4
+ATOM 6018 H HA . ALA B 1 21 ? -2.235 -4.306 -7.644 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 4
+ATOM 6019 H HB1 . ALA B 1 21 ? -2.786 -2.264 -6.827 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 4
+ATOM 6020 H HB2 . ALA B 1 21 ? -3.232 -2.917 -5.232 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 4
+ATOM 6021 H HB3 . ALA B 1 21 ? -1.525 -2.585 -5.612 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 4
+ATOM 6022 N N . GLU B 1 22 ? -0.358 -5.713 -6.880 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 4
+ATOM 6023 C CA . GLU B 1 22 ? 0.842 -6.430 -6.483 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 4
+ATOM 6024 C C . GLU B 1 22 ? 2.074 -5.810 -7.144 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 4
+ATOM 6025 O O . GLU B 1 22 ? 2.069 -5.538 -8.344 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 4
+ATOM 6026 C CB . GLU B 1 22 ? 0.729 -7.918 -6.820 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 4
+ATOM 6027 C CG . GLU B 1 22 ? 1.577 -8.762 -5.867 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 4
+ATOM 6028 C CD . GLU B 1 22 ? 1.467 -10.250 -6.208 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 4
+ATOM 6029 O OE1 . GLU B 1 22 ? 1.365 -10.550 -7.417 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 4
+ATOM 6030 O OE2 . GLU B 1 22 ? 1.488 -11.054 -5.251 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 4
+ATOM 6031 H H . GLU B 1 22 ? -0.576 -5.762 -7.855 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 4
+ATOM 6032 H HA . GLU B 1 22 ? 0.904 -6.313 -5.401 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 4
+ATOM 6033 H HB2 . GLU B 1 22 ? -0.314 -8.231 -6.759 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 4
+ATOM 6034 H HB3 . GLU B 1 22 ? 1.052 -8.087 -7.848 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 4
+ATOM 6035 H HG2 . GLU B 1 22 ? 2.619 -8.448 -5.927 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 4
+ATOM 6036 H HG3 . GLU B 1 22 ? 1.252 -8.596 -4.841 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 4
+ATOM 6037 N N . ASP B 1 23 ? 3.101 -5.604 -6.333 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 4
+ATOM 6038 C CA . ASP B 1 23 ? 4.338 -5.021 -6.824 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 4
+ATOM 6039 C C . ASP B 1 23 ? 5.496 -5.982 -6.546 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 4
+ATOM 6040 O O . ASP B 1 23 ? 6.100 -5.938 -5.476 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 4
+ATOM 6041 C CB . ASP B 1 23 ? 4.642 -3.698 -6.119 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 4
+ATOM 6042 C CG . ASP B 1 23 ? 5.765 -2.872 -6.749 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 4
+ATOM 6043 O OD1 . ASP B 1 23 ? 5.853 -2.892 -7.996 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 4
+ATOM 6044 O OD2 . ASP B 1 23 ? 6.509 -2.237 -5.970 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 4
+ATOM 6045 H H . ASP B 1 23 ? 3.098 -5.828 -5.358 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 4
+ATOM 6046 H HA . ASP B 1 23 ? 4.176 -4.861 -7.890 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 4
+ATOM 6047 H HB2 . ASP B 1 23 ? 3.733 -3.096 -6.102 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 4
+ATOM 6048 H HB3 . ASP B 1 23 ? 4.904 -3.908 -5.082 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 4
+ATOM 6049 N N . VAL B 1 24 ? 5.770 -6.827 -7.528 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 4
+ATOM 6050 C CA . VAL B 1 24 ? 6.845 -7.797 -7.403 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 4
+ATOM 6051 C C . VAL B 1 24 ? 8.183 -7.107 -7.671 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 4
+ATOM 6052 O O . VAL B 1 24 ? 8.754 -7.249 -8.752 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 4
+ATOM 6053 C CB . VAL B 1 24 ? 6.588 -8.986 -8.332 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 4
+ATOM 6054 C CG1 . VAL B 1 24 ? 7.898 -9.687 -8.699 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 4
+ATOM 6055 C CG2 . VAL B 1 24 ? 5.597 -9.968 -7.704 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 4
+ATOM 6056 H H . VAL B 1 24 ? 5.274 -6.857 -8.396 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 4
+ATOM 6057 H HA . VAL B 1 24 ? 6.838 -8.164 -6.376 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 4
+ATOM 6058 H HB . VAL B 1 24 ? 6.144 -8.603 -9.250 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 4
+ATOM 6059 H HG11 . VAL B 1 24 ? 8.603 -9.594 -7.874 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 4
+ATOM 6060 H HG12 . VAL B 1 24 ? 7.703 -10.742 -8.894 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 4
+ATOM 6061 H HG13 . VAL B 1 24 ? 8.319 -9.225 -9.592 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 4
+ATOM 6062 H HG21 . VAL B 1 24 ? 5.291 -9.600 -6.725 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 4
+ATOM 6063 H HG22 . VAL B 1 24 ? 4.722 -10.062 -8.347 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 4
+ATOM 6064 H HG23 . VAL B 1 24 ? 6.073 -10.943 -7.594 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 4
+ATOM 6065 N N . GLY B 1 25 ? 8.646 -6.374 -6.669 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 4
+ATOM 6066 C CA . GLY B 1 25 ? 9.907 -5.661 -6.783 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 4
+ATOM 6067 C C . GLY B 1 25 ? 11.031 -6.418 -6.075 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 4
+ATOM 6068 O O . GLY B 1 25 ? 11.054 -6.498 -4.847 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 4
+ATOM 6069 H H . GLY B 1 25 ? 8.176 -6.263 -5.793 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 4
+ATOM 6070 H HA2 . GLY B 1 25 ? 10.159 -5.528 -7.835 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 4
+ATOM 6071 H HA3 . GLY B 1 25 ? 9.806 -4.665 -6.352 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 4
+ATOM 6072 N N . SER B 1 26 ? 11.938 -6.955 -6.878 1.00 0.00 ? ? ? ? ? ? 26 SER B N 4
+ATOM 6073 C CA . SER B 1 26 ? 13.062 -7.704 -6.344 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 4
+ATOM 6074 C C . SER B 1 26 ? 14.199 -6.748 -5.976 1.00 0.00 ? ? ? ? ? ? 26 SER B C 4
+ATOM 6075 O O . SER B 1 26 ? 14.884 -6.225 -6.853 1.00 0.00 ? ? ? ? ? ? 26 SER B O 4
+ATOM 6076 C CB . SER B 1 26 ? 13.553 -8.751 -7.345 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 4
+ATOM 6077 O OG . SER B 1 26 ? 14.362 -9.746 -6.723 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 4
+ATOM 6078 H H . SER B 1 26 ? 11.912 -6.885 -7.876 1.00 0.00 ? ? ? ? ? ? 26 SER B H 4
+ATOM 6079 H HA . SER B 1 26 ? 12.680 -8.204 -5.454 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 4
+ATOM 6080 H HB2 . SER B 1 26 ? 12.695 -9.227 -7.821 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 4
+ATOM 6081 H HB3 . SER B 1 26 ? 14.123 -8.260 -8.133 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 4
+ATOM 6082 H HG . SER B 1 26 ? 14.035 -9.922 -5.795 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 4
+ATOM 6083 N N . ASN B 1 27 ? 14.366 -6.550 -4.676 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 4
+ATOM 6084 C CA . ASN B 1 27 ? 15.408 -5.667 -4.181 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 4
+ATOM 6085 C C . ASN B 1 27 ? 15.086 -4.227 -4.588 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 4
+ATOM 6086 O O . ASN B 1 27 ? 15.419 -3.801 -5.692 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 4
+ATOM 6087 C CB . ASN B 1 27 ? 16.769 -6.033 -4.776 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 4
+ATOM 6088 C CG . ASN B 1 27 ? 17.594 -6.861 -3.789 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 4
+ATOM 6089 O OD1 . ASN B 1 27 ? 18.419 -6.351 -3.049 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 4
+ATOM 6090 N ND2 . ASN B 1 27 ? 17.327 -8.163 -3.820 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 4
+ATOM 6091 H H . ASN B 1 27 ? 13.805 -6.980 -3.969 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 4
+ATOM 6092 H HA . ASN B 1 27 ? 15.410 -5.804 -3.100 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 4
+ATOM 6093 H HB2 . ASN B 1 27 ? 16.627 -6.596 -5.699 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 4
+ATOM 6094 H HB3 . ASN B 1 27 ? 17.312 -5.125 -5.038 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 4
+ATOM 6095 H HD21 . ASN B 1 27 ? 16.638 -8.518 -4.451 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 4
+ATOM 6096 H HD22 . ASN B 1 27 ? 17.816 -8.788 -3.210 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 4
+ATOM 6097 N N . LYS B 1 28 ? 14.442 -3.518 -3.673 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 4
+ATOM 6098 C CA . LYS B 1 28 ? 14.071 -2.135 -3.922 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 4
+ATOM 6099 C C . LYS B 1 28 ? 15.295 -1.367 -4.426 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 4
+ATOM 6100 O O . LYS B 1 28 ? 16.369 -1.943 -4.592 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 4
+ATOM 6101 C CB . LYS B 1 28 ? 13.428 -1.520 -2.678 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 4
+ATOM 6102 C CG . LYS B 1 28 ? 11.903 -1.615 -2.745 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 4
+ATOM 6103 C CD . LYS B 1 28 ? 11.411 -2.951 -2.184 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 4
+ATOM 6104 C CE . LYS B 1 28 ? 10.015 -2.810 -1.575 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 4
+ATOM 6105 N NZ . LYS B 1 28 ? 9.000 -3.429 -2.456 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 4
+ATOM 6106 H H . LYS B 1 28 ? 14.175 -3.872 -2.777 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 4
+ATOM 6107 H HA . LYS B 1 28 ? 13.316 -2.136 -4.708 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 4
+ATOM 6108 H HB2 . LYS B 1 28 ? 13.789 -2.032 -1.786 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 4
+ATOM 6109 H HB3 . LYS B 1 28 ? 13.728 -0.476 -2.588 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 4
+ATOM 6110 H HG2 . LYS B 1 28 ? 11.458 -0.795 -2.182 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 4
+ATOM 6111 H HG3 . LYS B 1 28 ? 11.573 -1.508 -3.778 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 4
+ATOM 6112 H HD2 . LYS B 1 28 ? 11.392 -3.698 -2.978 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 4
+ATOM 6113 H HD3 . LYS B 1 28 ? 12.108 -3.310 -1.426 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 4
+ATOM 6114 H HE2 . LYS B 1 28 ? 9.990 -3.283 -0.593 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 4
+ATOM 6115 H HE3 . LYS B 1 28 ? 9.781 -1.755 -1.427 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 4
+ATOM 6116 H HZ1 . LYS B 1 28 ? 8.466 -2.712 -2.905 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 4
+ATOM 6117 H HZ2 . LYS B 1 28 ? 9.456 -3.987 -3.149 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 4
+ATOM 6118 H HZ3 . LYS B 1 28 ? 8.392 -4.006 -1.911 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 4
+ATOM 6119 N N . GLY B 1 29 ? 15.091 -0.078 -4.654 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 4
+ATOM 6120 C CA . GLY B 1 29 ? 16.164 0.776 -5.135 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 4
+ATOM 6121 C C . GLY B 1 29 ? 16.441 1.915 -4.152 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 4
+ATOM 6122 O O . GLY B 1 29 ? 16.329 1.736 -2.941 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 4
+ATOM 6123 H H . GLY B 1 29 ? 14.215 0.383 -4.516 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 4
+ATOM 6124 H HA2 . GLY B 1 29 ? 17.069 0.184 -5.275 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 4
+ATOM 6125 H HA3 . GLY B 1 29 ? 15.898 1.187 -6.109 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 4
+ATOM 6126 N N . ALA B 1 30 ? 16.797 3.063 -4.712 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 4
+ATOM 6127 C CA . ALA B 1 30 ? 17.091 4.231 -3.900 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 4
+ATOM 6128 C C . ALA B 1 30 ? 15.835 4.638 -3.126 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 4
+ATOM 6129 O O . ALA B 1 30 ? 15.658 4.248 -1.973 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 4
+ATOM 6130 C CB . ALA B 1 30 ? 17.614 5.356 -4.795 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 4
+ATOM 6131 H H . ALA B 1 30 ? 16.886 3.200 -5.698 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 4
+ATOM 6132 H HA . ALA B 1 30 ? 17.871 3.955 -3.190 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 4
+ATOM 6133 H HB1 . ALA B 1 30 ? 18.699 5.284 -4.873 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 4
+ATOM 6134 H HB2 . ALA B 1 30 ? 17.172 5.267 -5.787 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 4
+ATOM 6135 H HB3 . ALA B 1 30 ? 17.345 6.320 -4.362 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 4
+ATOM 6136 N N . ILE B 1 31 ? 14.995 5.417 -3.792 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 4
+ATOM 6137 C CA . ILE B 1 31 ? 13.761 5.881 -3.181 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 4
+ATOM 6138 C C . ILE B 1 31 ? 12.580 5.117 -3.783 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 4
+ATOM 6139 O O . ILE B 1 31 ? 12.598 4.771 -4.964 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 4
+ATOM 6140 C CB . ILE B 1 31 ? 13.639 7.401 -3.307 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 4
+ATOM 6141 C CG1 . ILE B 1 31 ? 14.839 8.102 -2.667 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 4
+ATOM 6142 C CG2 . ILE B 1 31 ? 12.311 7.894 -2.729 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 4
+ATOM 6143 C CD1 . ILE B 1 31 ? 15.563 8.987 -3.684 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 4
+ATOM 6144 H H . ILE B 1 31 ? 15.146 5.730 -4.729 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 4
+ATOM 6145 H HA . ILE B 1 31 ? 13.816 5.649 -2.117 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 4
+ATOM 6146 H HB . ILE B 1 31 ? 13.644 7.657 -4.367 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 4
+ATOM 6147 H HG12 . ILE B 1 31 ? 14.504 8.709 -1.826 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 4
+ATOM 6148 H HG13 . ILE B 1 31 ? 15.529 7.359 -2.269 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 4
+ATOM 6149 H HG21 . ILE B 1 31 ? 12.376 7.920 -1.641 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 4
+ATOM 6150 H HG22 . ILE B 1 31 ? 12.101 8.896 -3.104 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 4
+ATOM 6151 H HG23 . ILE B 1 31 ? 11.511 7.218 -3.029 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 4
+ATOM 6152 H HD11 . ILE B 1 31 ? 14.877 9.255 -4.487 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 4
+ATOM 6153 H HD12 . ILE B 1 31 ? 15.917 9.893 -3.191 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 4
+ATOM 6154 H HD13 . ILE B 1 31 ? 16.413 8.443 -4.098 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 4
+ATOM 6155 N N . ILE B 1 32 ? 11.583 4.876 -2.945 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 4
+ATOM 6156 C CA . ILE B 1 32 ? 10.396 4.159 -3.381 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 4
+ATOM 6157 C C . ILE B 1 32 ? 9.183 4.671 -2.602 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 4
+ATOM 6158 O O . ILE B 1 32 ? 9.149 4.590 -1.375 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 4
+ATOM 6159 C CB . ILE B 1 32 ? 10.610 2.649 -3.264 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 4
+ATOM 6160 C CG1 . ILE B 1 32 ? 9.329 1.886 -3.609 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 4
+ATOM 6161 C CG2 . ILE B 1 32 ? 11.144 2.276 -1.880 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 4
+ATOM 6162 C CD1 . ILE B 1 32 ? 9.645 0.455 -4.050 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 4
+ATOM 6163 H H . ILE B 1 32 ? 11.577 5.161 -1.987 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 4
+ATOM 6164 H HA . ILE B 1 32 ? 10.248 4.384 -4.437 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 4
+ATOM 6165 H HB . ILE B 1 32 ? 11.366 2.354 -3.992 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 4
+ATOM 6166 H HG12 . ILE B 1 32 ? 8.669 1.866 -2.742 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 4
+ATOM 6167 H HG13 . ILE B 1 32 ? 8.795 2.406 -4.405 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 4
+ATOM 6168 H HG21 . ILE B 1 32 ? 11.842 3.042 -1.541 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 4
+ATOM 6169 H HG22 . ILE B 1 32 ? 10.314 2.204 -1.177 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 4
+ATOM 6170 H HG23 . ILE B 1 32 ? 11.657 1.316 -1.936 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 4
+ATOM 6171 H HD11 . ILE B 1 32 ? 9.499 -0.224 -3.210 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 4
+ATOM 6172 H HD12 . ILE B 1 32 ? 8.981 0.172 -4.867 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 4
+ATOM 6173 H HD13 . ILE B 1 32 ? 10.680 0.399 -4.387 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 4
+ATOM 6174 N N . GLY B 1 33 ? 8.215 5.186 -3.347 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 4
+ATOM 6175 C CA . GLY B 1 33 ? 7.003 5.710 -2.742 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 4
+ATOM 6176 C C . GLY B 1 33 ? 5.794 4.841 -3.094 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 4
+ATOM 6177 O O . GLY B 1 33 ? 5.549 4.558 -4.266 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 4
+ATOM 6178 H H . GLY B 1 33 ? 8.251 5.247 -4.344 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 4
+ATOM 6179 H HA2 . GLY B 1 33 ? 7.122 5.752 -1.659 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 4
+ATOM 6180 H HA3 . GLY B 1 33 ? 6.834 6.731 -3.084 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 4
+ATOM 6181 N N . LEU B 1 34 ? 5.070 4.442 -2.059 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 4
+ATOM 6182 C CA . LEU B 1 34 ? 3.893 3.611 -2.245 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 4
+ATOM 6183 C C . LEU B 1 34 ? 2.706 4.247 -1.518 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 4
+ATOM 6184 O O . LEU B 1 34 ? 2.691 4.318 -0.290 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 4
+ATOM 6185 C CB . LEU B 1 34 ? 4.179 2.172 -1.813 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 4
+ATOM 6186 C CG . LEU B 1 34 ? 3.584 1.075 -2.699 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 4
+ATOM 6187 C CD1 . LEU B 1 34 ? 4.685 0.208 -3.312 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 4
+ATOM 6188 C CD2 . LEU B 1 34 ? 2.561 0.240 -1.925 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 4
+ATOM 6189 H H . LEU B 1 34 ? 5.276 4.677 -1.109 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 4
+ATOM 6190 H HA . LEU B 1 34 ? 3.673 3.590 -3.312 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 4
+ATOM 6191 H HB2 . LEU B 1 34 ? 5.260 2.033 -1.774 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 4
+ATOM 6192 H HB3 . LEU B 1 34 ? 3.803 2.036 -0.799 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 4
+ATOM 6193 H HG . LEU B 1 34 ? 3.053 1.552 -3.523 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 4
+ATOM 6194 H HD11 . LEU B 1 34 ? 4.426 -0.033 -4.343 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 4
+ATOM 6195 H HD12 . LEU B 1 34 ? 5.630 0.752 -3.292 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 4
+ATOM 6196 H HD13 . LEU B 1 34 ? 4.785 -0.713 -2.737 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 4
+ATOM 6197 H HD21 . LEU B 1 34 ? 2.028 0.880 -1.222 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 4
+ATOM 6198 H HD22 . LEU B 1 34 ? 1.852 -0.203 -2.623 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 4
+ATOM 6199 H HD23 . LEU B 1 34 ? 3.076 -0.550 -1.379 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 4
+ATOM 6200 N N . MET B 1 35 ? 1.739 4.692 -2.307 1.00 0.00 ? ? ? ? ? ? 35 MET B N 4
+ATOM 6201 C CA . MET B 1 35 ? 0.551 5.319 -1.754 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 4
+ATOM 6202 C C . MET B 1 35 ? -0.720 4.675 -2.313 1.00 0.00 ? ? ? ? ? ? 35 MET B C 4
+ATOM 6203 O O . MET B 1 35 ? -0.960 4.713 -3.519 1.00 0.00 ? ? ? ? ? ? 35 MET B O 4
+ATOM 6204 C CB . MET B 1 35 ? 0.557 6.812 -2.090 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 4
+ATOM 6205 C CG . MET B 1 35 ? 0.743 7.658 -0.829 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 4
+ATOM 6206 S SD . MET B 1 35 ? 0.364 9.367 -1.178 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 4
+ATOM 6207 C CE . MET B 1 35 ? 2.015 10.016 -1.374 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 4
+ATOM 6208 H H . MET B 1 35 ? 1.759 4.631 -3.305 1.00 0.00 ? ? ? ? ? ? 35 MET B H 4
+ATOM 6209 H HA . MET B 1 35 ? 0.607 5.155 -0.678 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 4
+ATOM 6210 H HB2 . MET B 1 35 ? 1.359 7.026 -2.797 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 4
+ATOM 6211 H HB3 . MET B 1 35 ? -0.379 7.082 -2.579 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 4
+ATOM 6212 H HG2 . MET B 1 35 ? 0.094 7.288 -0.035 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 4
+ATOM 6213 H HG3 . MET B 1 35 ? 1.768 7.570 -0.469 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 4
+ATOM 6214 H HE1 . MET B 1 35 ? 2.362 9.828 -2.390 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 4
+ATOM 6215 H HE2 . MET B 1 35 ? 2.009 11.089 -1.185 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 4
+ATOM 6216 H HE3 . MET B 1 35 ? 2.684 9.527 -0.666 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 4
+ATOM 6217 N N . VAL B 1 36 ? -1.499 4.100 -1.410 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 4
+ATOM 6218 C CA . VAL B 1 36 ? -2.739 3.448 -1.797 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 4
+ATOM 6219 C C . VAL B 1 36 ? -3.923 4.315 -1.363 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 4
+ATOM 6220 O O . VAL B 1 36 ? -4.358 4.247 -0.214 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 4
+ATOM 6221 C CB . VAL B 1 36 ? -2.790 2.033 -1.218 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 4
+ATOM 6222 C CG1 . VAL B 1 36 ? -4.107 1.342 -1.575 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 4
+ATOM 6223 C CG2 . VAL B 1 36 ? -1.592 1.205 -1.688 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 4
+ATOM 6224 H H . VAL B 1 36 ? -1.297 4.074 -0.431 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 4
+ATOM 6225 H HA . VAL B 1 36 ? -2.743 3.369 -2.884 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 4
+ATOM 6226 H HB . VAL B 1 36 ? -2.737 2.113 -0.133 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 4
+ATOM 6227 H HG11 . VAL B 1 36 ? -4.942 1.972 -1.271 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 4
+ATOM 6228 H HG12 . VAL B 1 36 ? -4.151 1.176 -2.652 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 4
+ATOM 6229 H HG13 . VAL B 1 36 ? -4.167 0.384 -1.057 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 4
+ATOM 6230 H HG21 . VAL B 1 36 ? -1.931 0.434 -2.379 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 4
+ATOM 6231 H HG22 . VAL B 1 36 ? -0.876 1.855 -2.192 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 4
+ATOM 6232 H HG23 . VAL B 1 36 ? -1.114 0.737 -0.827 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 4
+ATOM 6233 N N . GLY B 1 37 ? -4.411 5.109 -2.304 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 4
+ATOM 6234 C CA . GLY B 1 37 ? -5.536 5.988 -2.033 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 4
+ATOM 6235 C C . GLY B 1 37 ? -6.848 5.361 -2.508 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 4
+ATOM 6236 O O . GLY B 1 37 ? -7.139 5.351 -3.703 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 4
+ATOM 6237 H H . GLY B 1 37 ? -4.051 5.159 -3.236 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 4
+ATOM 6238 H HA2 . GLY B 1 37 ? -5.592 6.193 -0.964 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 4
+ATOM 6239 H HA3 . GLY B 1 37 ? -5.384 6.944 -2.533 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 4
+ATOM 6240 N N . GLY B 1 38 ? -7.605 4.852 -1.547 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 4
+ATOM 6241 C CA . GLY B 1 38 ? -8.880 4.224 -1.851 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 4
+ATOM 6242 C C . GLY B 1 38 ? -10.043 5.049 -1.298 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 4
+ATOM 6243 O O . GLY B 1 38 ? -10.270 5.076 -0.089 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 4
+ATOM 6244 H H . GLY B 1 38 ? -7.361 4.864 -0.577 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 4
+ATOM 6245 H HA2 . GLY B 1 38 ? -8.987 4.116 -2.930 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 4
+ATOM 6246 H HA3 . GLY B 1 38 ? -8.906 3.221 -1.426 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 4
+ATOM 6247 N N . VAL B 1 39 ? -10.750 5.702 -2.208 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 4
+ATOM 6248 C CA . VAL B 1 39 ? -11.885 6.526 -1.827 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 4
+ATOM 6249 C C . VAL B 1 39 ? -13.170 5.898 -2.369 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 4
+ATOM 6250 O O . VAL B 1 39 ? -13.268 5.603 -3.559 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 4
+ATOM 6251 C CB . VAL B 1 39 ? -11.673 7.963 -2.306 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 4
+ATOM 6252 C CG1 . VAL B 1 39 ? -10.903 7.992 -3.627 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 4
+ATOM 6253 C CG2 . VAL B 1 39 ? -13.007 8.701 -2.432 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 4
+ATOM 6254 H H . VAL B 1 39 ? -10.559 5.675 -3.190 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 4
+ATOM 6255 H HA . VAL B 1 39 ? -11.931 6.536 -0.738 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 4
+ATOM 6256 H HB . VAL B 1 39 ? -11.073 8.481 -1.557 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 4
+ATOM 6257 H HG11 . VAL B 1 39 ? -10.750 9.027 -3.936 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 4
+ATOM 6258 H HG12 . VAL B 1 39 ? -9.936 7.506 -3.496 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 4
+ATOM 6259 H HG13 . VAL B 1 39 ? -11.473 7.466 -4.392 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 4
+ATOM 6260 H HG21 . VAL B 1 39 ? -13.755 8.209 -1.810 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 4
+ATOM 6261 H HG22 . VAL B 1 39 ? -12.884 9.733 -2.104 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 4
+ATOM 6262 H HG23 . VAL B 1 39 ? -13.333 8.687 -3.472 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 4
+ATOM 6263 N N . VAL B 1 40 ? -14.125 5.712 -1.469 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 4
+ATOM 6264 C CA . VAL B 1 40 ? -15.401 5.125 -1.842 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 4
+ATOM 6265 C C . VAL B 1 40 ? -16.531 6.078 -1.448 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 4
+ATOM 6266 O O . VAL B 1 40 ? -16.528 6.628 -0.347 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 4
+ATOM 6267 C CB . VAL B 1 40 ? -15.542 3.737 -1.214 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 4
+ATOM 6268 C CG1 . VAL B 1 40 ? -16.911 3.129 -1.528 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 4
+ATOM 6269 C CG2 . VAL B 1 40 ? -14.413 2.811 -1.671 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 4
+ATOM 6270 H H . VAL B 1 40 ? -14.038 5.954 -0.503 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 4
+ATOM 6271 H HA . VAL B 1 40 ? -15.404 5.006 -2.926 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 4
+ATOM 6272 H HB . VAL B 1 40 ? -15.466 3.850 -0.132 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 4
+ATOM 6273 H HG11 . VAL B 1 40 ? -16.936 2.095 -1.185 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 4
+ATOM 6274 H HG12 . VAL B 1 40 ? -17.687 3.700 -1.018 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 4
+ATOM 6275 H HG13 . VAL B 1 40 ? -17.084 3.161 -2.603 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 4
+ATOM 6276 H HG21 . VAL B 1 40 ? -14.624 1.792 -1.345 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 4
+ATOM 6277 H HG22 . VAL B 1 40 ? -14.339 2.837 -2.758 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 4
+ATOM 6278 H HG23 . VAL B 1 40 ? -13.471 3.144 -1.235 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 4
+ATOM 6279 N N . ILE B 1 41 ? -17.470 6.243 -2.367 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 4
+ATOM 6280 C CA . ILE B 1 41 ? -18.604 7.120 -2.129 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 4
+ATOM 6281 C C . ILE B 1 41 ? -19.860 6.502 -2.748 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 4
+ATOM 6282 O O . ILE B 1 41 ? -19.849 6.097 -3.909 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 4
+ATOM 6283 C CB . ILE B 1 41 ? -18.303 8.534 -2.630 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 4
+ATOM 6284 C CG1 . ILE B 1 41 ? -19.536 9.432 -2.510 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 4
+ATOM 6285 C CG2 . ILE B 1 41 ? -17.752 8.504 -4.057 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 4
+ATOM 6286 C CD1 . ILE B 1 41 ? -19.262 10.820 -3.094 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 4
+ATOM 6287 H H . ILE B 1 41 ? -17.465 5.792 -3.259 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 4
+ATOM 6288 H HA . ILE B 1 41 ? -18.747 7.184 -1.050 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 4
+ATOM 6289 H HB . ILE B 1 41 ? -17.529 8.963 -1.995 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 4
+ATOM 6290 H HG12 . ILE B 1 41 ? -20.376 8.974 -3.032 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 4
+ATOM 6291 H HG13 . ILE B 1 41 ? -19.823 9.524 -1.463 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 4
+ATOM 6292 H HG21 . ILE B 1 41 ? -18.579 8.441 -4.765 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 4
+ATOM 6293 H HG22 . ILE B 1 41 ? -17.181 9.413 -4.245 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 4
+ATOM 6294 H HG23 . ILE B 1 41 ? -17.104 7.636 -4.178 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 4
+ATOM 6295 H HD11 . ILE B 1 41 ? -20.187 11.395 -3.112 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 4
+ATOM 6296 H HD12 . ILE B 1 41 ? -18.526 11.335 -2.476 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 4
+ATOM 6297 H HD13 . ILE B 1 41 ? -18.877 10.718 -4.109 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 4
+ATOM 6298 N N . ALA B 1 42 ? -20.912 6.450 -1.945 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 4
+ATOM 6299 C CA . ALA B 1 42 ? -22.173 5.889 -2.399 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 4
+ATOM 6300 C C . ALA B 1 42 ? -23.231 6.993 -2.446 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 4
+ATOM 6301 O O . ALA B 1 42 ? -23.968 7.192 -1.482 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 4
+ATOM 6302 C CB . ALA B 1 42 ? -22.578 4.732 -1.482 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 4
+ATOM 6303 H H . ALA B 1 42 ? -20.913 6.782 -1.001 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 4
+ATOM 6304 H HA . ALA B 1 42 ? -22.020 5.501 -3.406 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 4
+ATOM 6305 H HB1 . ALA B 1 42 ? -21.701 4.127 -1.253 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 4
+ATOM 6306 H HB2 . ALA B 1 42 ? -22.995 5.131 -0.558 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 4
+ATOM 6307 H HB3 . ALA B 1 42 ? -23.325 4.116 -1.983 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 4
+ATOM 6308 N N . LEU C 1 17 ? -15.761 -5.827 -11.344 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 4
+ATOM 6309 C CA . LEU C 1 17 ? -14.656 -4.884 -11.383 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 4
+ATOM 6310 C C . LEU C 1 17 ? -13.371 -5.592 -10.947 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 4
+ATOM 6311 O O . LEU C 1 17 ? -13.043 -5.615 -9.762 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 4
+ATOM 6312 C CB . LEU C 1 17 ? -14.984 -3.640 -10.555 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 4
+ATOM 6313 C CG . LEU C 1 17 ? -15.450 -2.413 -11.342 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 4
+ATOM 6314 C CD1 . LEU C 1 17 ? -14.430 -2.034 -12.418 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 4
+ATOM 6315 C CD2 . LEU C 1 17 ? -16.845 -2.635 -11.928 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 4
+ATOM 6316 H H . LEU C 1 17 ? -16.383 -5.781 -12.125 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 4
+ATOM 6317 H HA . LEU C 1 17 ? -14.539 -4.561 -12.417 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 4
+ATOM 6318 H HB2 . LEU C 1 17 ? -15.760 -3.901 -9.835 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 4
+ATOM 6319 H HB3 . LEU C 1 17 ? -14.098 -3.365 -9.982 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 4
+ATOM 6320 H HG . LEU C 1 17 ? -15.519 -1.571 -10.654 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 4
+ATOM 6321 H HD11 . LEU C 1 17 ? -14.906 -2.069 -13.398 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 4
+ATOM 6322 H HD12 . LEU C 1 17 ? -14.061 -1.026 -12.229 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 4
+ATOM 6323 H HD13 . LEU C 1 17 ? -13.597 -2.736 -12.394 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 4
+ATOM 6324 H HD21 . LEU C 1 17 ? -17.597 -2.423 -11.167 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 4
+ATOM 6325 H HD22 . LEU C 1 17 ? -16.992 -1.970 -12.779 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 4
+ATOM 6326 H HD23 . LEU C 1 17 ? -16.942 -3.671 -12.256 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 4
+ATOM 6327 N N . VAL C 1 18 ? -12.680 -6.151 -11.929 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 4
+ATOM 6328 C CA . VAL C 1 18 ? -11.438 -6.857 -11.662 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 4
+ATOM 6329 C C . VAL C 1 18 ? -10.256 -5.973 -12.065 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 4
+ATOM 6330 O O . VAL C 1 18 ? -9.840 -5.977 -13.222 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 4
+ATOM 6331 C CB . VAL C 1 18 ? -11.442 -8.211 -12.375 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 4
+ATOM 6332 C CG1 . VAL C 1 18 ? -10.060 -8.864 -12.318 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 4
+ATOM 6333 C CG2 . VAL C 1 18 ? -12.511 -9.136 -11.788 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 4
+ATOM 6334 H H . VAL C 1 18 ? -12.954 -6.127 -12.890 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 4
+ATOM 6335 H HA . VAL C 1 18 ? -11.389 -7.041 -10.589 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 4
+ATOM 6336 H HB . VAL C 1 18 ? -11.688 -8.037 -13.422 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 4
+ATOM 6337 H HG11 . VAL C 1 18 ? -9.878 -9.242 -11.312 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 4
+ATOM 6338 H HG12 . VAL C 1 18 ? -10.019 -9.690 -13.029 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 4
+ATOM 6339 H HG13 . VAL C 1 18 ? -9.299 -8.127 -12.573 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 4
+ATOM 6340 H HG21 . VAL C 1 18 ? -13.392 -8.551 -11.523 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 4
+ATOM 6341 H HG22 . VAL C 1 18 ? -12.784 -9.889 -12.527 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 4
+ATOM 6342 H HG23 . VAL C 1 18 ? -12.118 -9.626 -10.898 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 4
+ATOM 6343 N N . PHE C 1 19 ? -9.749 -5.236 -11.087 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 4
+ATOM 6344 C CA . PHE C 1 19 ? -8.624 -4.348 -11.326 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 4
+ATOM 6345 C C . PHE C 1 19 ? -7.312 -4.993 -10.875 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 4
+ATOM 6346 O O . PHE C 1 19 ? -6.925 -4.875 -9.713 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 4
+ATOM 6347 C CB . PHE C 1 19 ? -8.868 -3.085 -10.499 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 4
+ATOM 6348 C CG . PHE C 1 19 ? -9.362 -1.891 -11.318 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 4
+ATOM 6349 C CD1 . PHE C 1 19 ? -10.652 -1.848 -11.748 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 4
+ATOM 6350 C CD2 . PHE C 1 19 ? -8.512 -0.872 -11.616 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 4
+ATOM 6351 C CE1 . PHE C 1 19 ? -11.111 -0.740 -12.508 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 4
+ATOM 6352 C CE2 . PHE C 1 19 ? -8.971 0.236 -12.377 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 4
+ATOM 6353 C CZ . PHE C 1 19 ? -10.261 0.279 -12.807 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 4
+ATOM 6354 H H . PHE C 1 19 ? -10.094 -5.239 -10.149 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 4
+ATOM 6355 H HA . PHE C 1 19 ? -8.583 -4.158 -12.398 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 4
+ATOM 6356 H HB2 . PHE C 1 19 ? -9.599 -3.307 -9.722 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 4
+ATOM 6357 H HB3 . PHE C 1 19 ? -7.941 -2.808 -9.995 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 4
+ATOM 6358 H HD1 . PHE C 1 19 ? -11.333 -2.665 -11.509 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 4
+ATOM 6359 H HD2 . PHE C 1 19 ? -7.479 -0.906 -11.272 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 4
+ATOM 6360 H HE1 . PHE C 1 19 ? -12.144 -0.706 -12.853 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 4
+ATOM 6361 H HE2 . PHE C 1 19 ? -8.290 1.053 -12.616 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 4
+ATOM 6362 H HZ . PHE C 1 19 ? -10.613 1.129 -13.390 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 4
+ATOM 6363 N N . PHE C 1 20 ? -6.664 -5.662 -11.817 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 4
+ATOM 6364 C CA . PHE C 1 20 ? -5.403 -6.326 -11.531 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 4
+ATOM 6365 C C . PHE C 1 20 ? -4.219 -5.485 -12.011 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 4
+ATOM 6366 O O . PHE C 1 20 ? -4.223 -4.985 -13.135 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 4
+ATOM 6367 C CB . PHE C 1 20 ? -5.413 -7.653 -12.294 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 4
+ATOM 6368 C CG . PHE C 1 20 ? -5.051 -8.867 -11.436 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 4
+ATOM 6369 C CD1 . PHE C 1 20 ? -3.754 -9.100 -11.101 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 4
+ATOM 6370 C CD2 . PHE C 1 20 ? -6.027 -9.712 -11.008 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 4
+ATOM 6371 C CE1 . PHE C 1 20 ? -3.418 -10.227 -10.305 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 4
+ATOM 6372 C CE2 . PHE C 1 20 ? -5.691 -10.839 -10.212 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 4
+ATOM 6373 C CZ . PHE C 1 20 ? -4.393 -11.072 -9.877 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 4
+ATOM 6374 H H . PHE C 1 20 ? -6.985 -5.754 -12.760 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 4
+ATOM 6375 H HA . PHE C 1 20 ? -5.342 -6.453 -10.450 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 4
+ATOM 6376 H HB2 . PHE C 1 20 ? -6.404 -7.806 -12.723 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 4
+ATOM 6377 H HB3 . PHE C 1 20 ? -4.712 -7.587 -13.126 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 4
+ATOM 6378 H HD1 . PHE C 1 20 ? -2.972 -8.422 -11.444 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 4
+ATOM 6379 H HD2 . PHE C 1 20 ? -7.066 -9.525 -11.277 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 4
+ATOM 6380 H HE1 . PHE C 1 20 ? -2.378 -10.414 -10.037 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 4
+ATOM 6381 H HE2 . PHE C 1 20 ? -6.472 -11.517 -9.869 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 4
+ATOM 6382 H HZ . PHE C 1 20 ? -4.135 -11.937 -9.266 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 4
+ATOM 6383 N N . ALA C 1 21 ? -3.234 -5.353 -11.134 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 4
+ATOM 6384 C CA . ALA C 1 21 ? -2.046 -4.581 -11.454 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 4
+ATOM 6385 C C . ALA C 1 21 ? -0.825 -5.240 -10.809 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 4
+ATOM 6386 O O . ALA C 1 21 ? -0.584 -5.073 -9.614 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 4
+ATOM 6387 C CB . ALA C 1 21 ? -2.238 -3.134 -10.995 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 4
+ATOM 6388 H H . ALA C 1 21 ? -3.239 -5.763 -10.222 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 4
+ATOM 6389 H HA . ALA C 1 21 ? -1.924 -4.592 -12.537 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 4
+ATOM 6390 H HB1 . ALA C 1 21 ? -3.032 -2.670 -11.580 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 4
+ATOM 6391 H HB2 . ALA C 1 21 ? -2.510 -3.121 -9.939 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 4
+ATOM 6392 H HB3 . ALA C 1 21 ? -1.310 -2.581 -11.138 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 4
+ATOM 6393 N N . GLU C 1 22 ? -0.087 -5.975 -11.628 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 4
+ATOM 6394 C CA . GLU C 1 22 ? 1.102 -6.660 -11.152 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 4
+ATOM 6395 C C . GLU C 1 22 ? 2.351 -6.083 -11.822 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 4
+ATOM 6396 O O . GLU C 1 22 ? 2.436 -6.033 -13.048 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 4
+ATOM 6397 C CB . GLU C 1 22 ? 1.000 -8.168 -11.391 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 4
+ATOM 6398 C CG . GLU C 1 22 ? 1.845 -8.943 -10.379 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 4
+ATOM 6399 C CD . GLU C 1 22 ? 2.400 -10.228 -10.997 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 4
+ATOM 6400 O OE1 . GLU C 1 22 ? 1.584 -11.150 -11.216 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 4
+ATOM 6401 O OE2 . GLU C 1 22 ? 3.626 -10.259 -11.237 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 4
+ATOM 6402 H H . GLU C 1 22 ? -0.290 -6.106 -12.598 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 4
+ATOM 6403 H HA . GLU C 1 22 ? 1.136 -6.471 -10.079 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 4
+ATOM 6404 H HB2 . GLU C 1 22 ? -0.042 -8.482 -11.316 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 4
+ATOM 6405 H HB3 . GLU C 1 22 ? 1.331 -8.403 -12.403 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 4
+ATOM 6406 H HG2 . GLU C 1 22 ? 2.668 -8.317 -10.033 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 4
+ATOM 6407 H HG3 . GLU C 1 22 ? 1.241 -9.187 -9.505 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 4
+ATOM 6408 N N . ASP C 1 23 ? 3.289 -5.661 -10.987 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 4
+ATOM 6409 C CA . ASP C 1 23 ? 4.530 -5.089 -11.482 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 4
+ATOM 6410 C C . ASP C 1 23 ? 5.709 -5.919 -10.973 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 4
+ATOM 6411 O O . ASP C 1 23 ? 6.144 -5.752 -9.834 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 4
+ATOM 6412 C CB . ASP C 1 23 ? 4.712 -3.653 -10.985 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 4
+ATOM 6413 C CG . ASP C 1 23 ? 6.119 -3.081 -11.163 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 4
+ATOM 6414 O OD1 . ASP C 1 23 ? 6.795 -3.522 -12.118 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 4
+ATOM 6415 O OD2 . ASP C 1 23 ? 6.488 -2.214 -10.341 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 4
+ATOM 6416 H H . ASP C 1 23 ? 3.213 -5.705 -9.991 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 4
+ATOM 6417 H HA . ASP C 1 23 ? 4.442 -5.112 -12.569 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 4
+ATOM 6418 H HB2 . ASP C 1 23 ? 4.005 -3.010 -11.509 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 4
+ATOM 6419 H HB3 . ASP C 1 23 ? 4.452 -3.616 -9.927 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 4
+ATOM 6420 N N . VAL C 1 24 ? 6.193 -6.796 -11.840 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 4
+ATOM 6421 C CA . VAL C 1 24 ? 7.314 -7.653 -11.492 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 4
+ATOM 6422 C C . VAL C 1 24 ? 8.595 -7.083 -12.103 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 4
+ATOM 6423 O O . VAL C 1 24 ? 8.939 -7.401 -13.241 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 4
+ATOM 6424 C CB . VAL C 1 24 ? 7.029 -9.090 -11.931 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 4
+ATOM 6425 C CG1 . VAL C 1 24 ? 6.302 -9.119 -13.277 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 4
+ATOM 6426 C CG2 . VAL C 1 24 ? 8.319 -9.912 -11.988 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 4
+ATOM 6427 H H . VAL C 1 24 ? 5.833 -6.925 -12.764 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 4
+ATOM 6428 H HA . VAL C 1 24 ? 7.409 -7.644 -10.406 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 4
+ATOM 6429 H HB . VAL C 1 24 ? 6.375 -9.545 -11.187 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 4
+ATOM 6430 H HG11 . VAL C 1 24 ? 6.652 -8.293 -13.896 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 4
+ATOM 6431 H HG12 . VAL C 1 24 ? 6.507 -10.063 -13.781 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 4
+ATOM 6432 H HG13 . VAL C 1 24 ? 5.229 -9.020 -13.112 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 4
+ATOM 6433 H HG21 . VAL C 1 24 ? 8.649 -10.000 -13.023 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 4
+ATOM 6434 H HG22 . VAL C 1 24 ? 9.092 -9.415 -11.401 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 4
+ATOM 6435 H HG23 . VAL C 1 24 ? 8.135 -10.905 -11.579 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 4
+ATOM 6436 N N . GLY C 1 25 ? 9.267 -6.251 -11.321 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 4
+ATOM 6437 C CA . GLY C 1 25 ? 10.503 -5.634 -11.771 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 4
+ATOM 6438 C C . GLY C 1 25 ? 11.682 -6.068 -10.898 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 4
+ATOM 6439 O O . GLY C 1 25 ? 11.568 -6.114 -9.674 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 4
+ATOM 6440 H H . GLY C 1 25 ? 8.980 -5.998 -10.397 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 4
+ATOM 6441 H HA2 . GLY C 1 25 ? 10.694 -5.909 -12.808 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 4
+ATOM 6442 H HA3 . GLY C 1 25 ? 10.404 -4.549 -11.742 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 4
+ATOM 6443 N N . SER C 1 26 ? 12.788 -6.373 -11.561 1.00 0.00 ? ? ? ? ? ? 26 SER C N 4
+ATOM 6444 C CA . SER C 1 26 ? 13.986 -6.802 -10.860 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 4
+ATOM 6445 C C . SER C 1 26 ? 14.835 -5.585 -10.484 1.00 0.00 ? ? ? ? ? ? 26 SER C C 4
+ATOM 6446 O O . SER C 1 26 ? 15.129 -4.743 -11.331 1.00 0.00 ? ? ? ? ? ? 26 SER C O 4
+ATOM 6447 C CB . SER C 1 26 ? 14.803 -7.776 -11.712 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 4
+ATOM 6448 O OG . SER C 1 26 ? 14.375 -9.124 -11.540 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 4
+ATOM 6449 H H . SER C 1 26 ? 12.872 -6.333 -12.557 1.00 0.00 ? ? ? ? ? ? 26 SER C H 4
+ATOM 6450 H HA . SER C 1 26 ? 13.631 -7.312 -9.965 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 4
+ATOM 6451 H HB2 . SER C 1 26 ? 14.717 -7.499 -12.763 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 4
+ATOM 6452 H HB3 . SER C 1 26 ? 15.857 -7.693 -11.446 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 4
+ATOM 6453 H HG . SER C 1 26 ? 13.392 -9.150 -11.359 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 4
+ATOM 6454 N N . ASN C 1 27 ? 15.204 -5.532 -9.212 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 4
+ATOM 6455 C CA . ASN C 1 27 ? 16.013 -4.433 -8.713 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 4
+ATOM 6456 C C . ASN C 1 27 ? 15.337 -3.107 -9.067 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 4
+ATOM 6457 O O . ASN C 1 27 ? 15.599 -2.535 -10.124 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 4
+ATOM 6458 C CB . ASN C 1 27 ? 17.404 -4.439 -9.350 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 4
+ATOM 6459 C CG . ASN C 1 27 ? 18.423 -5.118 -8.433 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 4
+ATOM 6460 O OD1 . ASN C 1 27 ? 18.864 -4.568 -7.437 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 4
+ATOM 6461 N ND2 . ASN C 1 27 ? 18.772 -6.341 -8.823 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 4
+ATOM 6462 H H . ASN C 1 27 ? 14.960 -6.221 -8.530 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 4
+ATOM 6463 H HA . ASN C 1 27 ? 16.080 -4.593 -7.637 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 4
+ATOM 6464 H HB2 . ASN C 1 27 ? 17.367 -4.959 -10.307 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 4
+ATOM 6465 H HB3 . ASN C 1 27 ? 17.718 -3.416 -9.555 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 4
+ATOM 6466 H HD21 . ASN C 1 27 ? 18.372 -6.734 -9.651 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 4
+ATOM 6467 H HD22 . ASN C 1 27 ? 19.434 -6.867 -8.289 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 4
+ATOM 6468 N N . LYS C 1 28 ? 14.480 -2.656 -8.162 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 4
+ATOM 6469 C CA . LYS C 1 28 ? 13.765 -1.407 -8.365 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 4
+ATOM 6470 C C . LYS C 1 28 ? 14.733 -0.352 -8.903 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 4
+ATOM 6471 O O . LYS C 1 28 ? 15.947 -0.550 -8.884 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 4
+ATOM 6472 C CB . LYS C 1 28 ? 13.047 -0.986 -7.082 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 4
+ATOM 6473 C CG . LYS C 1 28 ? 11.865 -1.912 -6.786 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 4
+ATOM 6474 C CD . LYS C 1 28 ? 10.683 -1.604 -7.708 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 4
+ATOM 6475 C CE . LYS C 1 28 ? 9.357 -1.701 -6.950 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 4
+ATOM 6476 N NZ . LYS C 1 28 ? 8.375 -2.492 -7.725 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 4
+ATOM 6477 H H . LYS C 1 28 ? 14.273 -3.127 -7.305 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 4
+ATOM 6478 H HA . LYS C 1 28 ? 12.999 -1.589 -9.119 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 4
+ATOM 6479 H HB2 . LYS C 1 28 ? 13.746 -1.005 -6.246 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 4
+ATOM 6480 H HB3 . LYS C 1 28 ? 12.694 0.040 -7.178 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 4
+ATOM 6481 H HG2 . LYS C 1 28 ? 12.171 -2.950 -6.915 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 4
+ATOM 6482 H HG3 . LYS C 1 28 ? 11.559 -1.796 -5.746 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 4
+ATOM 6483 H HD2 . LYS C 1 28 ? 10.795 -0.604 -8.126 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 4
+ATOM 6484 H HD3 . LYS C 1 28 ? 10.680 -2.301 -8.545 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 4
+ATOM 6485 H HE2 . LYS C 1 28 ? 9.521 -2.165 -5.977 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 4
+ATOM 6486 H HE3 . LYS C 1 28 ? 8.963 -0.702 -6.765 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 4
+ATOM 6487 H HZ1 . LYS C 1 28 ? 7.572 -1.929 -7.919 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 4
+ATOM 6488 H HZ2 . LYS C 1 28 ? 8.790 -2.789 -8.585 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 4
+ATOM 6489 H HZ3 . LYS C 1 28 ? 8.099 -3.293 -7.193 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 4
+ATOM 6490 N N . GLY C 1 29 ? 14.160 0.748 -9.370 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 4
+ATOM 6491 C CA . GLY C 1 29 ? 14.957 1.835 -9.912 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 4
+ATOM 6492 C C . GLY C 1 29 ? 15.237 2.895 -8.844 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 4
+ATOM 6493 O O . GLY C 1 29 ? 14.866 2.725 -7.684 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 4
+ATOM 6494 H H . GLY C 1 29 ? 13.172 0.901 -9.382 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 4
+ATOM 6495 H HA2 . GLY C 1 29 ? 15.899 1.444 -10.297 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 4
+ATOM 6496 H HA3 . GLY C 1 29 ? 14.434 2.290 -10.753 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 4
+ATOM 6497 N N . ALA C 1 30 ? 15.889 3.965 -9.274 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 4
+ATOM 6498 C CA . ALA C 1 30 ? 16.223 5.052 -8.370 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 4
+ATOM 6499 C C . ALA C 1 30 ? 14.983 5.434 -7.560 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 4
+ATOM 6500 O O . ALA C 1 30 ? 14.881 5.101 -6.380 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 4
+ATOM 6501 C CB . ALA C 1 30 ? 16.782 6.229 -9.171 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 4
+ATOM 6502 H H . ALA C 1 30 ? 16.187 4.095 -10.220 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 4
+ATOM 6503 H HA . ALA C 1 30 ? 16.995 4.692 -7.690 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 4
+ATOM 6504 H HB1 . ALA C 1 30 ? 16.031 7.017 -9.232 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 4
+ATOM 6505 H HB2 . ALA C 1 30 ? 17.674 6.614 -8.677 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 4
+ATOM 6506 H HB3 . ALA C 1 30 ? 17.040 5.895 -10.176 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 4
+ATOM 6507 N N . ILE C 1 31 ? 14.072 6.128 -8.225 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 4
+ATOM 6508 C CA . ILE C 1 31 ? 12.843 6.560 -7.581 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 4
+ATOM 6509 C C . ILE C 1 31 ? 11.656 5.836 -8.221 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 4
+ATOM 6510 O O . ILE C 1 31 ? 11.279 6.135 -9.353 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 4
+ATOM 6511 C CB . ILE C 1 31 ? 12.725 8.085 -7.618 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 4
+ATOM 6512 C CG1 . ILE C 1 31 ? 13.861 8.741 -6.829 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 4
+ATOM 6513 C CG2 . ILE C 1 31 ? 11.349 8.541 -7.128 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 4
+ATOM 6514 C CD1 . ILE C 1 31 ? 14.810 9.497 -7.761 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 4
+ATOM 6515 H H . ILE C 1 31 ? 14.162 6.395 -9.184 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 4
+ATOM 6516 H HA . ILE C 1 31 ? 12.902 6.266 -6.533 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 4
+ATOM 6517 H HB . ILE C 1 31 ? 12.823 8.410 -8.654 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 4
+ATOM 6518 H HG12 . ILE C 1 31 ? 13.446 9.429 -6.092 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 4
+ATOM 6519 H HG13 . ILE C 1 31 ? 14.414 7.980 -6.280 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 4
+ATOM 6520 H HG21 . ILE C 1 31 ? 11.463 9.119 -6.211 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 4
+ATOM 6521 H HG22 . ILE C 1 31 ? 10.879 9.161 -7.892 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 4
+ATOM 6522 H HG23 . ILE C 1 31 ? 10.726 7.669 -6.934 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 4
+ATOM 6523 H HD11 . ILE C 1 31 ? 14.287 10.345 -8.203 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 4
+ATOM 6524 H HD12 . ILE C 1 31 ? 15.669 9.854 -7.193 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 4
+ATOM 6525 H HD13 . ILE C 1 31 ? 15.151 8.828 -8.552 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 4
+ATOM 6526 N N . ILE C 1 32 ? 11.100 4.899 -7.468 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 4
+ATOM 6527 C CA . ILE C 1 32 ? 9.963 4.130 -7.947 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 4
+ATOM 6528 C C . ILE C 1 32 ? 8.724 4.496 -7.127 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 4
+ATOM 6529 O O . ILE C 1 32 ? 8.643 4.177 -5.942 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 4
+ATOM 6530 C CB . ILE C 1 32 ? 10.286 2.635 -7.939 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 4
+ATOM 6531 C CG1 . ILE C 1 32 ? 9.289 1.854 -8.797 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 4
+ATOM 6532 C CG2 . ILE C 1 32 ? 10.357 2.096 -6.509 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 4
+ATOM 6533 C CD1 . ILE C 1 32 ? 7.849 2.151 -8.372 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 4
+ATOM 6534 H H . ILE C 1 32 ? 11.412 4.662 -6.548 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 4
+ATOM 6535 H HA . ILE C 1 32 ? 9.789 4.417 -8.984 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 4
+ATOM 6536 H HB . ILE C 1 32 ? 11.272 2.496 -8.384 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 4
+ATOM 6537 H HG12 . ILE C 1 32 ? 9.423 2.117 -9.847 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 4
+ATOM 6538 H HG13 . ILE C 1 32 ? 9.485 0.786 -8.708 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 4
+ATOM 6539 H HG21 . ILE C 1 32 ? 10.618 2.906 -5.828 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 4
+ATOM 6540 H HG22 . ILE C 1 32 ? 9.388 1.684 -6.228 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 4
+ATOM 6541 H HG23 . ILE C 1 32 ? 11.114 1.315 -6.452 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 4
+ATOM 6542 H HD11 . ILE C 1 32 ? 7.802 2.236 -7.286 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 4
+ATOM 6543 H HD12 . ILE C 1 32 ? 7.522 3.087 -8.824 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 4
+ATOM 6544 H HD13 . ILE C 1 32 ? 7.199 1.341 -8.701 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 4
+ATOM 6545 N N . GLY C 1 33 ? 7.789 5.160 -7.792 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 4
+ATOM 6546 C CA . GLY C 1 33 ? 6.558 5.572 -7.140 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 4
+ATOM 6547 C C . GLY C 1 33 ? 5.381 4.707 -7.594 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 4
+ATOM 6548 O O . GLY C 1 33 ? 5.214 4.455 -8.787 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 4
+ATOM 6549 H H . GLY C 1 33 ? 7.863 5.415 -8.756 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 4
+ATOM 6550 H HA2 . GLY C 1 33 ? 6.672 5.497 -6.058 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 4
+ATOM 6551 H HA3 . GLY C 1 33 ? 6.354 6.618 -7.367 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 4
+ATOM 6552 N N . LEU C 1 34 ? 4.594 4.275 -6.619 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 4
+ATOM 6553 C CA . LEU C 1 34 ? 3.437 3.443 -6.904 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 4
+ATOM 6554 C C . LEU C 1 34 ? 2.212 4.021 -6.193 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 4
+ATOM 6555 O O . LEU C 1 34 ? 2.023 3.802 -4.997 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 4
+ATOM 6556 C CB . LEU C 1 34 ? 3.725 1.984 -6.546 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 4
+ATOM 6557 C CG . LEU C 1 34 ? 2.720 0.954 -7.066 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 4
+ATOM 6558 C CD1 . LEU C 1 34 ? 3.437 -0.266 -7.647 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 4
+ATOM 6559 C CD2 . LEU C 1 34 ? 1.718 0.566 -5.977 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 4
+ATOM 6560 H H . LEU C 1 34 ? 4.736 4.484 -5.652 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 4
+ATOM 6561 H HA . LEU C 1 34 ? 3.263 3.482 -7.979 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 4
+ATOM 6562 H HB2 . LEU C 1 34 ? 4.712 1.724 -6.928 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 4
+ATOM 6563 H HB3 . LEU C 1 34 ? 3.772 1.900 -5.460 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 4
+ATOM 6564 H HG . LEU C 1 34 ? 2.153 1.411 -7.878 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 4
+ATOM 6565 H HD11 . LEU C 1 34 ? 2.702 -1.021 -7.925 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 4
+ATOM 6566 H HD12 . LEU C 1 34 ? 4.003 0.031 -8.530 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 4
+ATOM 6567 H HD13 . LEU C 1 34 ? 4.117 -0.678 -6.901 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 4
+ATOM 6568 H HD21 . LEU C 1 34 ? 1.136 1.442 -5.690 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 4
+ATOM 6569 H HD22 . LEU C 1 34 ? 1.050 -0.206 -6.357 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 4
+ATOM 6570 H HD23 . LEU C 1 34 ? 2.256 0.186 -5.108 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 4
+ATOM 6571 N N . MET C 1 35 ? 1.410 4.746 -6.959 1.00 0.00 ? ? ? ? ? ? 35 MET C N 4
+ATOM 6572 C CA . MET C 1 35 ? 0.208 5.357 -6.417 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 4
+ATOM 6573 C C . MET C 1 35 ? -1.048 4.727 -7.024 1.00 0.00 ? ? ? ? ? ? 35 MET C C 4
+ATOM 6574 O O . MET C 1 35 ? -1.256 4.792 -8.235 1.00 0.00 ? ? ? ? ? ? 35 MET C O 4
+ATOM 6575 C CB . MET C 1 35 ? 0.221 6.858 -6.712 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 4
+ATOM 6576 C CG . MET C 1 35 ? 0.530 7.663 -5.448 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 4
+ATOM 6577 S SD . MET C 1 35 ? -0.329 9.227 -5.495 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 4
+ATOM 6578 C CE . MET C 1 35 ? -1.982 8.685 -5.093 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 4
+ATOM 6579 H H . MET C 1 35 ? 1.571 4.919 -7.931 1.00 0.00 ? ? ? ? ? ? 35 MET C H 4
+ATOM 6580 H HA . MET C 1 35 ? 0.239 5.163 -5.345 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 4
+ATOM 6581 H HB2 . MET C 1 35 ? 0.966 7.076 -7.478 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 4
+ATOM 6582 H HB3 . MET C 1 35 ? -0.747 7.162 -7.113 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 4
+ATOM 6583 H HG2 . MET C 1 35 ? 0.228 7.099 -4.565 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 4
+ATOM 6584 H HG3 . MET C 1 35 ? 1.604 7.831 -5.368 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 4
+ATOM 6585 H HE1 . MET C 1 35 ? -2.707 9.332 -5.587 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 4
+ATOM 6586 H HE2 . MET C 1 35 ? -2.120 7.658 -5.432 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 4
+ATOM 6587 H HE3 . MET C 1 35 ? -2.128 8.734 -4.014 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 4
+ATOM 6588 N N . VAL C 1 36 ? -1.852 4.134 -6.155 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 4
+ATOM 6589 C CA . VAL C 1 36 ? -3.082 3.493 -6.589 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 4
+ATOM 6590 C C . VAL C 1 36 ? -4.277 4.338 -6.143 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 4
+ATOM 6591 O O . VAL C 1 36 ? -4.514 4.501 -4.947 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 4
+ATOM 6592 C CB . VAL C 1 36 ? -3.136 2.056 -6.067 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 4
+ATOM 6593 C CG1 . VAL C 1 36 ? -4.505 1.427 -6.336 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 4
+ATOM 6594 C CG2 . VAL C 1 36 ? -2.015 1.210 -6.672 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 4
+ATOM 6595 H H . VAL C 1 36 ? -1.675 4.086 -5.171 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 4
+ATOM 6596 H HA . VAL C 1 36 ? -3.066 3.456 -7.679 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 4
+ATOM 6597 H HB . VAL C 1 36 ? -2.988 2.086 -4.988 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 4
+ATOM 6598 H HG11 . VAL C 1 36 ? -4.624 1.263 -7.407 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 4
+ATOM 6599 H HG12 . VAL C 1 36 ? -4.575 0.473 -5.813 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 4
+ATOM 6600 H HG13 . VAL C 1 36 ? -5.289 2.096 -5.981 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 4
+ATOM 6601 H HG21 . VAL C 1 36 ? -1.535 0.627 -5.885 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 4
+ATOM 6602 H HG22 . VAL C 1 36 ? -2.431 0.536 -7.420 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 4
+ATOM 6603 H HG23 . VAL C 1 36 ? -1.279 1.863 -7.141 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 4
+ATOM 6604 N N . GLY C 1 37 ? -4.998 4.852 -7.128 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 4
+ATOM 6605 C CA . GLY C 1 37 ? -6.163 5.676 -6.851 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 4
+ATOM 6606 C C . GLY C 1 37 ? -7.455 4.928 -7.186 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 4
+ATOM 6607 O O . GLY C 1 37 ? -7.872 4.888 -8.343 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 4
+ATOM 6608 H H . GLY C 1 37 ? -4.798 4.715 -8.098 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 4
+ATOM 6609 H HA2 . GLY C 1 37 ? -6.167 5.965 -5.800 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 4
+ATOM 6610 H HA3 . GLY C 1 37 ? -6.109 6.595 -7.434 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 4
+ATOM 6611 N N . GLY C 1 38 ? -8.053 4.353 -6.153 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 4
+ATOM 6612 C CA . GLY C 1 38 ? -9.289 3.609 -6.323 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 4
+ATOM 6613 C C . GLY C 1 38 ? -10.495 4.442 -5.884 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 4
+ATOM 6614 O O . GLY C 1 38 ? -10.826 4.487 -4.700 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 4
+ATOM 6615 H H . GLY C 1 38 ? -7.707 4.390 -5.215 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 4
+ATOM 6616 H HA2 . GLY C 1 38 ? -9.403 3.320 -7.367 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 4
+ATOM 6617 H HA3 . GLY C 1 38 ? -9.247 2.689 -5.740 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 4
+ATOM 6618 N N . VAL C 1 39 ? -11.120 5.081 -6.862 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 4
+ATOM 6619 C CA . VAL C 1 39 ? -12.283 5.909 -6.591 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 4
+ATOM 6620 C C . VAL C 1 39 ? -13.543 5.185 -7.070 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 4
+ATOM 6621 O O . VAL C 1 39 ? -13.646 4.820 -8.240 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 4
+ATOM 6622 C CB . VAL C 1 39 ? -12.105 7.287 -7.234 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 4
+ATOM 6623 C CG1 . VAL C 1 39 ? -13.370 8.133 -7.077 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 4
+ATOM 6624 C CG2 . VAL C 1 39 ? -10.886 8.008 -6.655 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 4
+ATOM 6625 H H . VAL C 1 39 ? -10.846 5.039 -7.822 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 4
+ATOM 6626 H HA . VAL C 1 39 ? -12.345 6.046 -5.512 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 4
+ATOM 6627 H HB . VAL C 1 39 ? -11.931 7.139 -8.300 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 4
+ATOM 6628 H HG11 . VAL C 1 39 ? -13.747 8.035 -6.059 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 4
+ATOM 6629 H HG12 . VAL C 1 39 ? -13.135 9.178 -7.279 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 4
+ATOM 6630 H HG13 . VAL C 1 39 ? -14.127 7.788 -7.780 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 4
+ATOM 6631 H HG21 . VAL C 1 39 ? -10.225 7.282 -6.181 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 4
+ATOM 6632 H HG22 . VAL C 1 39 ? -10.351 8.519 -7.456 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 4
+ATOM 6633 H HG23 . VAL C 1 39 ? -11.214 8.738 -5.915 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 4
+ATOM 6634 N N . VAL C 1 40 ? -14.469 4.999 -6.141 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 4
+ATOM 6635 C CA . VAL C 1 40 ? -15.718 4.325 -6.453 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 4
+ATOM 6636 C C . VAL C 1 40 ? -16.890 5.227 -6.063 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 4
+ATOM 6637 O O . VAL C 1 40 ? -17.154 5.432 -4.879 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 4
+ATOM 6638 C CB . VAL C 1 40 ? -15.760 2.959 -5.766 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 4
+ATOM 6639 C CG1 . VAL C 1 40 ? -17.057 2.218 -6.099 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 4
+ATOM 6640 C CG2 . VAL C 1 40 ? -14.538 2.119 -6.139 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 4
+ATOM 6641 H H . VAL C 1 40 ? -14.377 5.300 -5.191 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 4
+ATOM 6642 H HA . VAL C 1 40 ? -15.743 4.162 -7.530 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 4
+ATOM 6643 H HB . VAL C 1 40 ? -15.737 3.124 -4.689 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 4
+ATOM 6644 H HG11 . VAL C 1 40 ? -17.867 2.939 -6.218 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 4
+ATOM 6645 H HG12 . VAL C 1 40 ? -16.929 1.659 -7.026 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 4
+ATOM 6646 H HG13 . VAL C 1 40 ? -17.300 1.529 -5.290 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 4
+ATOM 6647 H HG21 . VAL C 1 40 ? -14.510 1.977 -7.219 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 4
+ATOM 6648 H HG22 . VAL C 1 40 ? -13.632 2.633 -5.817 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 4
+ATOM 6649 H HG23 . VAL C 1 40 ? -14.599 1.148 -5.647 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 4
+ATOM 6650 N N . ILE C 1 41 ? -17.563 5.743 -7.082 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 4
+ATOM 6651 C CA . ILE C 1 41 ? -18.701 6.618 -6.861 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 4
+ATOM 6652 C C . ILE C 1 41 ? -19.964 5.955 -7.414 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 4
+ATOM 6653 O O . ILE C 1 41 ? -20.090 5.762 -8.622 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 4
+ATOM 6654 C CB . ILE C 1 41 ? -18.430 8.007 -7.443 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 4
+ATOM 6655 C CG1 . ILE C 1 41 ? -19.737 8.711 -7.813 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 4
+ATOM 6656 C CG2 . ILE C 1 41 ? -17.468 7.925 -8.630 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 4
+ATOM 6657 C CD1 . ILE C 1 41 ? -19.570 10.231 -7.779 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 4
+ATOM 6658 H H . ILE C 1 41 ? -17.341 5.571 -8.042 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 4
+ATOM 6659 H HA . ILE C 1 41 ? -18.817 6.738 -5.784 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 4
+ATOM 6660 H HB . ILE C 1 41 ? -17.945 8.610 -6.676 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 4
+ATOM 6661 H HG12 . ILE C 1 41 ? -20.054 8.398 -8.808 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 4
+ATOM 6662 H HG13 . ILE C 1 41 ? -20.524 8.413 -7.119 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 4
+ATOM 6663 H HG21 . ILE C 1 41 ? -17.859 7.225 -9.368 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 4
+ATOM 6664 H HG22 . ILE C 1 41 ? -17.366 8.911 -9.084 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 4
+ATOM 6665 H HG23 . ILE C 1 41 ? -16.493 7.583 -8.284 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 4
+ATOM 6666 H HD11 . ILE C 1 41 ? -20.445 10.683 -7.311 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 4
+ATOM 6667 H HD12 . ILE C 1 41 ? -18.679 10.486 -7.205 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 4
+ATOM 6668 H HD13 . ILE C 1 41 ? -19.466 10.608 -8.797 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 4
+ATOM 6669 N N . ALA C 1 42 ? -20.867 5.624 -6.503 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 4
+ATOM 6670 C CA . ALA C 1 42 ? -22.116 4.986 -6.885 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 4
+ATOM 6671 C C . ALA C 1 42 ? -23.261 5.991 -6.743 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 4
+ATOM 6672 O O . ALA C 1 42 ? -23.768 6.210 -5.644 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 4
+ATOM 6673 C CB . ALA C 1 42 ? -22.331 3.734 -6.033 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 4
+ATOM 6674 H H . ALA C 1 42 ? -20.757 5.784 -5.522 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 4
+ATOM 6675 H HA . ALA C 1 42 ? -22.031 4.689 -7.930 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 4
+ATOM 6676 H HB1 . ALA C 1 42 ? -21.544 3.011 -6.245 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 4
+ATOM 6677 H HB2 . ALA C 1 42 ? -22.302 4.003 -4.977 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 4
+ATOM 6678 H HB3 . ALA C 1 42 ? -23.300 3.295 -6.270 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 4
+ATOM 6679 N N . LEU D 1 17 ? -15.568 -6.316 -16.320 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 4
+ATOM 6680 C CA . LEU D 1 17 ? -14.472 -5.378 -16.145 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 4
+ATOM 6681 C C . LEU D 1 17 ? -13.239 -6.130 -15.641 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 4
+ATOM 6682 O O . LEU D 1 17 ? -13.145 -6.453 -14.458 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 4
+ATOM 6683 C CB . LEU D 1 17 ? -14.898 -4.219 -15.242 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 4
+ATOM 6684 C CG . LEU D 1 17 ? -15.450 -2.982 -15.954 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 4
+ATOM 6685 C CD1 . LEU D 1 17 ? -14.345 -2.248 -16.715 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 4
+ATOM 6686 C CD2 . LEU D 1 17 ? -16.624 -3.351 -16.863 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 4
+ATOM 6687 H H . LEU D 1 17 ? -15.917 -6.389 -17.254 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 4
+ATOM 6688 H HA . LEU D 1 17 ? -14.244 -4.957 -17.124 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 4
+ATOM 6689 H HB2 . LEU D 1 17 ? -15.656 -4.584 -14.549 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 4
+ATOM 6690 H HB3 . LEU D 1 17 ? -14.039 -3.916 -14.644 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 4
+ATOM 6691 H HG . LEU D 1 17 ? -15.832 -2.295 -15.198 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 4
+ATOM 6692 H HD11 . LEU D 1 17 ? -14.431 -2.464 -17.780 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 4
+ATOM 6693 H HD12 . LEU D 1 17 ? -14.443 -1.174 -16.553 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 4
+ATOM 6694 H HD13 . LEU D 1 17 ? -13.372 -2.582 -16.354 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 4
+ATOM 6695 H HD21 . LEU D 1 17 ? -17.321 -3.987 -16.317 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 4
+ATOM 6696 H HD22 . LEU D 1 17 ? -17.135 -2.443 -17.184 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 4
+ATOM 6697 H HD23 . LEU D 1 17 ? -16.252 -3.887 -17.737 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 4
+ATOM 6698 N N . VAL D 1 18 ? -12.323 -6.386 -16.564 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 4
+ATOM 6699 C CA . VAL D 1 18 ? -11.099 -7.094 -16.228 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 4
+ATOM 6700 C C . VAL D 1 18 ? -9.895 -6.247 -16.645 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 4
+ATOM 6701 O O . VAL D 1 18 ? -9.443 -6.325 -17.786 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 4
+ATOM 6702 C CB . VAL D 1 18 ? -11.105 -8.483 -16.869 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 4
+ATOM 6703 C CG1 . VAL D 1 18 ? -9.679 -8.997 -17.075 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 4
+ATOM 6704 C CG2 . VAL D 1 18 ? -11.928 -9.468 -16.036 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 4
+ATOM 6705 H H . VAL D 1 18 ? -12.407 -6.120 -17.524 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 4
+ATOM 6706 H HA . VAL D 1 18 ? -11.080 -7.222 -15.145 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 4
+ATOM 6707 H HB . VAL D 1 18 ? -11.575 -8.398 -17.849 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 4
+ATOM 6708 H HG11 . VAL D 1 18 ? -9.048 -8.656 -16.254 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 4
+ATOM 6709 H HG12 . VAL D 1 18 ? -9.685 -10.087 -17.100 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 4
+ATOM 6710 H HG13 . VAL D 1 18 ? -9.287 -8.615 -18.018 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 4
+ATOM 6711 H HG21 . VAL D 1 18 ? -11.720 -9.311 -14.978 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 4
+ATOM 6712 H HG22 . VAL D 1 18 ? -12.989 -9.305 -16.226 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 4
+ATOM 6713 H HG23 . VAL D 1 18 ? -11.662 -10.488 -16.312 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 4
+ATOM 6714 N N . PHE D 1 19 ? -9.410 -5.458 -15.698 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 4
+ATOM 6715 C CA . PHE D 1 19 ? -8.267 -4.598 -15.953 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 4
+ATOM 6716 C C . PHE D 1 19 ? -6.973 -5.241 -15.447 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 4
+ATOM 6717 O O . PHE D 1 19 ? -6.586 -5.042 -14.296 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 4
+ATOM 6718 C CB . PHE D 1 19 ? -8.508 -3.295 -15.188 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 4
+ATOM 6719 C CG . PHE D 1 19 ? -8.995 -2.140 -16.065 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 4
+ATOM 6720 C CD1 . PHE D 1 19 ? -10.306 -2.062 -16.420 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 4
+ATOM 6721 C CD2 . PHE D 1 19 ? -8.118 -1.192 -16.489 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 4
+ATOM 6722 C CE1 . PHE D 1 19 ? -10.758 -0.991 -17.234 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 4
+ATOM 6723 C CE2 . PHE D 1 19 ? -8.571 -0.120 -17.304 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 4
+ATOM 6724 C CZ . PHE D 1 19 ? -9.881 -0.042 -17.659 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 4
+ATOM 6725 H H . PHE D 1 19 ? -9.783 -5.401 -14.772 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 4
+ATOM 6726 H HA . PHE D 1 19 ? -8.202 -4.457 -17.032 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 4
+ATOM 6727 H HB2 . PHE D 1 19 ? -9.242 -3.477 -14.403 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 4
+ATOM 6728 H HB3 . PHE D 1 19 ? -7.582 -2.998 -14.696 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 4
+ATOM 6729 H HD1 . PHE D 1 19 ? -11.009 -2.823 -16.080 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 4
+ATOM 6730 H HD2 . PHE D 1 19 ? -7.068 -1.254 -16.205 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 4
+ATOM 6731 H HE1 . PHE D 1 19 ? -11.809 -0.928 -17.519 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 4
+ATOM 6732 H HE2 . PHE D 1 19 ? -7.868 0.641 -17.644 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 4
+ATOM 6733 H HZ . PHE D 1 19 ? -10.228 0.781 -18.284 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 4
+ATOM 6734 N N . PHE D 1 20 ? -6.341 -5.998 -16.331 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 4
+ATOM 6735 C CA . PHE D 1 20 ? -5.100 -6.671 -15.989 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 4
+ATOM 6736 C C . PHE D 1 20 ? -3.891 -5.884 -16.500 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 4
+ATOM 6737 O O . PHE D 1 20 ? -3.634 -5.846 -17.702 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 4
+ATOM 6738 C CB . PHE D 1 20 ? -5.129 -8.039 -16.672 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 4
+ATOM 6739 C CG . PHE D 1 20 ? -5.113 -9.221 -15.701 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 4
+ATOM 6740 C CD1 . PHE D 1 20 ? -6.274 -9.659 -15.144 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 4
+ATOM 6741 C CD2 . PHE D 1 20 ? -3.938 -9.833 -15.393 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 4
+ATOM 6742 C CE1 . PHE D 1 20 ? -6.259 -10.755 -14.242 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 4
+ATOM 6743 C CE2 . PHE D 1 20 ? -3.923 -10.929 -14.491 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 4
+ATOM 6744 C CZ . PHE D 1 20 ? -5.084 -11.367 -13.935 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 4
+ATOM 6745 H H . PHE D 1 20 ? -6.663 -6.154 -17.265 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 4
+ATOM 6746 H HA . PHE D 1 20 ? -5.056 -6.735 -14.902 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 4
+ATOM 6747 H HB2 . PHE D 1 20 ? -6.022 -8.105 -17.293 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 4
+ATOM 6748 H HB3 . PHE D 1 20 ? -4.271 -8.119 -17.340 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 4
+ATOM 6749 H HD1 . PHE D 1 20 ? -7.216 -9.168 -15.390 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 4
+ATOM 6750 H HD2 . PHE D 1 20 ? -3.008 -9.481 -15.840 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 4
+ATOM 6751 H HE1 . PHE D 1 20 ? -7.190 -11.107 -13.796 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 4
+ATOM 6752 H HE2 . PHE D 1 20 ? -2.982 -11.420 -14.245 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 4
+ATOM 6753 H HZ . PHE D 1 20 ? -5.073 -12.209 -13.242 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 4
+ATOM 6754 N N . ALA D 1 21 ? -3.180 -5.277 -15.561 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 4
+ATOM 6755 C CA . ALA D 1 21 ? -2.005 -4.493 -15.902 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 4
+ATOM 6756 C C . ALA D 1 21 ? -0.752 -5.220 -15.407 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 4
+ATOM 6757 O O . ALA D 1 21 ? -0.338 -5.041 -14.263 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 4
+ATOM 6758 C CB . ALA D 1 21 ? -2.137 -3.089 -15.308 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 4
+ATOM 6759 H H . ALA D 1 21 ? -3.396 -5.313 -14.586 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 4
+ATOM 6760 H HA . ALA D 1 21 ? -1.963 -4.413 -16.988 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 4
+ATOM 6761 H HB1 . ALA D 1 21 ? -2.244 -3.161 -14.226 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 4
+ATOM 6762 H HB2 . ALA D 1 21 ? -1.246 -2.509 -15.547 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 4
+ATOM 6763 H HB3 . ALA D 1 21 ? -3.014 -2.598 -15.729 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 4
+ATOM 6764 N N . GLU D 1 22 ? -0.185 -6.025 -16.293 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 4
+ATOM 6765 C CA . GLU D 1 22 ? 1.011 -6.780 -15.961 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 4
+ATOM 6766 C C . GLU D 1 22 ? 2.236 -6.154 -16.631 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 4
+ATOM 6767 O O . GLU D 1 22 ? 2.340 -6.142 -17.857 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 4
+ATOM 6768 C CB . GLU D 1 22 ? 0.860 -8.250 -16.357 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 4
+ATOM 6769 C CG . GLU D 1 22 ? 0.735 -9.141 -15.120 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 4
+ATOM 6770 C CD . GLU D 1 22 ? 0.705 -10.620 -15.510 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 4
+ATOM 6771 O OE1 . GLU D 1 22 ? 1.808 -11.194 -15.644 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 4
+ATOM 6772 O OE2 . GLU D 1 22 ? -0.419 -11.143 -15.666 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 4
+ATOM 6773 H H . GLU D 1 22 ? -0.529 -6.165 -17.222 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 4
+ATOM 6774 H HA . GLU D 1 22 ? 1.106 -6.710 -14.877 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 4
+ATOM 6775 H HB2 . GLU D 1 22 ? -0.020 -8.371 -16.988 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 4
+ATOM 6776 H HB3 . GLU D 1 22 ? 1.722 -8.561 -16.948 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 4
+ATOM 6777 H HG2 . GLU D 1 22 ? 1.573 -8.955 -14.447 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 4
+ATOM 6778 H HG3 . GLU D 1 22 ? -0.174 -8.887 -14.575 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 4
+ATOM 6779 N N . ASP D 1 23 ? 3.134 -5.649 -15.797 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 4
+ATOM 6780 C CA . ASP D 1 23 ? 4.348 -5.024 -16.294 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 4
+ATOM 6781 C C . ASP D 1 23 ? 5.561 -5.664 -15.615 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 4
+ATOM 6782 O O . ASP D 1 23 ? 5.641 -5.705 -14.389 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 4
+ATOM 6783 C CB . ASP D 1 23 ? 4.365 -3.527 -15.978 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 4
+ATOM 6784 C CG . ASP D 1 23 ? 5.735 -2.857 -16.095 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 4
+ATOM 6785 O OD1 . ASP D 1 23 ? 6.586 -3.149 -15.227 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 4
+ATOM 6786 O OD2 . ASP D 1 23 ? 5.901 -2.067 -17.050 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 4
+ATOM 6787 H H . ASP D 1 23 ? 3.042 -5.663 -14.802 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 4
+ATOM 6788 H HA . ASP D 1 23 ? 4.336 -5.190 -17.371 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 4
+ATOM 6789 H HB2 . ASP D 1 23 ? 3.671 -3.021 -16.650 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 4
+ATOM 6790 H HB3 . ASP D 1 23 ? 3.991 -3.380 -14.965 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 4
+ATOM 6791 N N . VAL D 1 24 ? 6.475 -6.148 -16.443 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 4
+ATOM 6792 C CA . VAL D 1 24 ? 7.679 -6.784 -15.939 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 4
+ATOM 6793 C C . VAL D 1 24 ? 8.895 -5.935 -16.315 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 4
+ATOM 6794 O O . VAL D 1 24 ? 8.959 -5.388 -17.415 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 4
+ATOM 6795 C CB . VAL D 1 24 ? 7.770 -8.221 -16.459 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 4
+ATOM 6796 C CG1 . VAL D 1 24 ? 6.898 -8.409 -17.702 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 4
+ATOM 6797 C CG2 . VAL D 1 24 ? 9.222 -8.611 -16.743 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 4
+ATOM 6798 H H . VAL D 1 24 ? 6.402 -6.111 -17.440 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 4
+ATOM 6799 H HA . VAL D 1 24 ? 7.601 -6.823 -14.852 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 4
+ATOM 6800 H HB . VAL D 1 24 ? 7.391 -8.883 -15.680 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 4
+ATOM 6801 H HG11 . VAL D 1 24 ? 7.291 -7.801 -18.517 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 4
+ATOM 6802 H HG12 . VAL D 1 24 ? 6.907 -9.459 -17.996 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 4
+ATOM 6803 H HG13 . VAL D 1 24 ? 5.876 -8.103 -17.479 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 4
+ATOM 6804 H HG21 . VAL D 1 24 ? 9.591 -8.040 -17.594 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 4
+ATOM 6805 H HG22 . VAL D 1 24 ? 9.834 -8.394 -15.867 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 4
+ATOM 6806 H HG23 . VAL D 1 24 ? 9.274 -9.676 -16.969 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 4
+ATOM 6807 N N . GLY D 1 25 ? 9.830 -5.851 -15.380 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 4
+ATOM 6808 C CA . GLY D 1 25 ? 11.041 -5.078 -15.599 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 4
+ATOM 6809 C C . GLY D 1 25 ? 12.278 -5.857 -15.150 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 4
+ATOM 6810 O O . GLY D 1 25 ? 12.217 -6.628 -14.193 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 4
+ATOM 6811 H H . GLY D 1 25 ? 9.771 -6.299 -14.488 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 4
+ATOM 6812 H HA2 . GLY D 1 25 ? 11.129 -4.826 -16.656 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 4
+ATOM 6813 H HA3 . GLY D 1 25 ? 10.980 -4.137 -15.052 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 4
+ATOM 6814 N N . SER D 1 26 ? 13.373 -5.629 -15.861 1.00 0.00 ? ? ? ? ? ? 26 SER D N 4
+ATOM 6815 C CA . SER D 1 26 ? 14.623 -6.299 -15.547 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 4
+ATOM 6816 C C . SER D 1 26 ? 15.697 -5.268 -15.200 1.00 0.00 ? ? ? ? ? ? 26 SER D C 4
+ATOM 6817 O O . SER D 1 26 ? 16.346 -4.718 -16.089 1.00 0.00 ? ? ? ? ? ? 26 SER D O 4
+ATOM 6818 C CB . SER D 1 26 ? 15.085 -7.176 -16.713 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 4
+ATOM 6819 O OG . SER D 1 26 ? 14.912 -8.563 -16.439 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 4
+ATOM 6820 H H . SER D 1 26 ? 13.414 -5.000 -16.638 1.00 0.00 ? ? ? ? ? ? 26 SER D H 4
+ATOM 6821 H HA . SER D 1 26 ? 14.404 -6.929 -14.685 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 4
+ATOM 6822 H HB2 . SER D 1 26 ? 14.526 -6.910 -17.610 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 4
+ATOM 6823 H HB3 . SER D 1 26 ? 16.136 -6.976 -16.922 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 4
+ATOM 6824 H HG . SER D 1 26 ? 15.298 -8.786 -15.544 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 4
+ATOM 6825 N N . ASN D 1 27 ? 15.852 -5.035 -13.904 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 4
+ATOM 6826 C CA . ASN D 1 27 ? 16.837 -4.079 -13.428 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 4
+ATOM 6827 C C . ASN D 1 27 ? 16.299 -2.660 -13.620 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 4
+ATOM 6828 O O . ASN D 1 27 ? 16.592 -2.011 -14.624 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 4
+ATOM 6829 C CB . ASN D 1 27 ? 18.145 -4.198 -14.213 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 4
+ATOM 6830 C CG . ASN D 1 27 ? 19.351 -4.209 -13.272 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 4
+ATOM 6831 O OD1 . ASN D 1 27 ? 19.965 -5.232 -13.019 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 4
+ATOM 6832 N ND2 . ASN D 1 27 ? 19.655 -3.016 -12.768 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 4
+ATOM 6833 H H . ASN D 1 27 ? 15.321 -5.486 -13.188 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 4
+ATOM 6834 H HA . ASN D 1 27 ? 16.994 -4.327 -12.379 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 4
+ATOM 6835 H HB2 . ASN D 1 27 ? 18.135 -5.112 -14.807 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 4
+ATOM 6836 H HB3 . ASN D 1 27 ? 18.232 -3.366 -14.912 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 4
+ATOM 6837 H HD21 . ASN D 1 27 ? 19.110 -2.215 -13.017 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 4
+ATOM 6838 H HD22 . ASN D 1 27 ? 20.428 -2.920 -12.141 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 4
+ATOM 6839 N N . LYS D 1 28 ? 15.520 -2.219 -12.643 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 4
+ATOM 6840 C CA . LYS D 1 28 ? 14.938 -0.889 -12.692 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 4
+ATOM 6841 C C . LYS D 1 28 ? 15.998 0.142 -12.298 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 4
+ATOM 6842 O O . LYS D 1 28 ? 16.939 -0.176 -11.573 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 4
+ATOM 6843 C CB . LYS D 1 28 ? 13.671 -0.827 -11.835 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 4
+ATOM 6844 C CG . LYS D 1 28 ? 12.476 -1.424 -12.580 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 4
+ATOM 6845 C CD . LYS D 1 28 ? 11.269 -1.572 -11.651 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 4
+ATOM 6846 C CE . LYS D 1 28 ? 10.049 -2.089 -12.416 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 4
+ATOM 6847 N NZ . LYS D 1 28 ? 8.944 -2.398 -11.480 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 4
+ATOM 6848 H H . LYS D 1 28 ? 15.287 -2.753 -11.830 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 4
+ATOM 6849 H HA . LYS D 1 28 ? 14.639 -0.701 -13.723 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 4
+ATOM 6850 H HB2 . LYS D 1 28 ? 13.831 -1.369 -10.903 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 4
+ATOM 6851 H HB3 . LYS D 1 28 ? 13.458 0.208 -11.569 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 4
+ATOM 6852 H HG2 . LYS D 1 28 ? 12.213 -0.787 -13.424 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 4
+ATOM 6853 H HG3 . LYS D 1 28 ? 12.747 -2.398 -12.988 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 4
+ATOM 6854 H HD2 . LYS D 1 28 ? 11.512 -2.258 -10.840 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 4
+ATOM 6855 H HD3 . LYS D 1 28 ? 11.037 -0.609 -11.195 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 4
+ATOM 6856 H HE2 . LYS D 1 28 ? 9.722 -1.342 -13.139 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 4
+ATOM 6857 H HE3 . LYS D 1 28 ? 10.317 -2.982 -12.979 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 4
+ATOM 6858 H HZ1 . LYS D 1 28 ? 9.322 -2.730 -10.616 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 4
+ATOM 6859 H HZ2 . LYS D 1 28 ? 8.407 -1.571 -11.313 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 4
+ATOM 6860 H HZ3 . LYS D 1 28 ? 8.357 -3.102 -11.880 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 4
+ATOM 6861 N N . GLY D 1 29 ? 15.809 1.356 -12.794 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 4
+ATOM 6862 C CA . GLY D 1 29 ? 16.737 2.435 -12.503 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 4
+ATOM 6863 C C . GLY D 1 29 ? 16.042 3.795 -12.595 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 4
+ATOM 6864 O O . GLY D 1 29 ? 14.816 3.867 -12.662 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 4
+ATOM 6865 H H . GLY D 1 29 ? 15.041 1.606 -13.383 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 4
+ATOM 6866 H HA2 . GLY D 1 29 ? 17.153 2.303 -11.504 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 4
+ATOM 6867 H HA3 . GLY D 1 29 ? 17.571 2.401 -13.203 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 4
+ATOM 6868 N N . ALA D 1 30 ? 16.856 4.841 -12.595 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 4
+ATOM 6869 C CA . ALA D 1 30 ? 16.335 6.195 -12.678 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 4
+ATOM 6870 C C . ALA D 1 30 ? 15.026 6.282 -11.891 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 4
+ATOM 6871 O O . ALA D 1 30 ? 14.885 5.655 -10.842 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 4
+ATOM 6872 C CB . ALA D 1 30 ? 16.160 6.586 -14.147 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 4
+ATOM 6873 H H . ALA D 1 30 ? 17.852 4.774 -12.540 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 4
+ATOM 6874 H HA . ALA D 1 30 ? 17.068 6.861 -12.223 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 4
+ATOM 6875 H HB1 . ALA D 1 30 ? 17.092 6.410 -14.683 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 4
+ATOM 6876 H HB2 . ALA D 1 30 ? 15.366 5.984 -14.590 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 4
+ATOM 6877 H HB3 . ALA D 1 30 ? 15.896 7.641 -14.213 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 4
+ATOM 6878 N N . ILE D 1 31 ? 14.101 7.064 -12.428 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 4
+ATOM 6879 C CA . ILE D 1 31 ? 12.808 7.241 -11.789 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 4
+ATOM 6880 C C . ILE D 1 31 ? 11.748 6.460 -12.568 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 4
+ATOM 6881 O O . ILE D 1 31 ? 11.739 6.475 -13.798 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 4
+ATOM 6882 C CB . ILE D 1 31 ? 12.486 8.729 -11.634 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 4
+ATOM 6883 C CG1 . ILE D 1 31 ? 13.674 9.488 -11.039 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 4
+ATOM 6884 C CG2 . ILE D 1 31 ? 11.209 8.931 -10.817 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 4
+ATOM 6885 C CD1 . ILE D 1 31 ? 13.949 10.775 -11.820 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 4
+ATOM 6886 H H . ILE D 1 31 ? 14.224 7.570 -13.281 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 4
+ATOM 6887 H HA . ILE D 1 31 ? 12.879 6.821 -10.786 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 4
+ATOM 6888 H HB . ILE D 1 31 ? 12.303 9.143 -12.626 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 4
+ATOM 6889 H HG12 . ILE D 1 31 ? 13.471 9.728 -9.996 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 4
+ATOM 6890 H HG13 . ILE D 1 31 ? 14.560 8.853 -11.054 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 4
+ATOM 6891 H HG21 . ILE D 1 31 ? 11.171 9.957 -10.451 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 4
+ATOM 6892 H HG22 . ILE D 1 31 ? 10.340 8.738 -11.446 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 4
+ATOM 6893 H HG23 . ILE D 1 31 ? 11.206 8.244 -9.971 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 4
+ATOM 6894 H HD11 . ILE D 1 31 ? 14.838 11.261 -11.418 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 4
+ATOM 6895 H HD12 . ILE D 1 31 ? 14.110 10.535 -12.871 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 4
+ATOM 6896 H HD13 . ILE D 1 31 ? 13.095 11.446 -11.727 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 4
+ATOM 6897 N N . ILE D 1 32 ? 10.879 5.796 -11.820 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 4
+ATOM 6898 C CA . ILE D 1 32 ? 9.817 5.011 -12.425 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 4
+ATOM 6899 C C . ILE D 1 32 ? 8.512 5.255 -11.665 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 4
+ATOM 6900 O O . ILE D 1 32 ? 8.315 4.722 -10.574 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 4
+ATOM 6901 C CB . ILE D 1 32 ? 10.218 3.536 -12.500 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 4
+ATOM 6902 C CG1 . ILE D 1 32 ? 8.983 2.634 -12.554 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 4
+ATOM 6903 C CG2 . ILE D 1 32 ? 11.151 3.162 -11.347 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 4
+ATOM 6904 C CD1 . ILE D 1 32 ? 9.360 1.211 -12.970 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 4
+ATOM 6905 H H . ILE D 1 32 ? 10.893 5.789 -10.820 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 4
+ATOM 6906 H HA . ILE D 1 32 ? 9.692 5.364 -13.448 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 4
+ATOM 6907 H HB . ILE D 1 32 ? 10.771 3.379 -13.426 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 4
+ATOM 6908 H HG12 . ILE D 1 32 ? 8.499 2.616 -11.577 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 4
+ATOM 6909 H HG13 . ILE D 1 32 ? 8.259 3.044 -13.259 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 4
+ATOM 6910 H HG21 . ILE D 1 32 ? 10.938 3.795 -10.487 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 4
+ATOM 6911 H HG22 . ILE D 1 32 ? 10.994 2.117 -11.077 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 4
+ATOM 6912 H HG23 . ILE D 1 32 ? 12.186 3.305 -11.657 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 4
+ATOM 6913 H HD11 . ILE D 1 32 ? 10.028 0.780 -12.224 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 4
+ATOM 6914 H HD12 . ILE D 1 32 ? 8.458 0.603 -13.044 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 4
+ATOM 6915 H HD13 . ILE D 1 32 ? 9.862 1.237 -13.937 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 4
+ATOM 6916 N N . GLY D 1 33 ? 7.653 6.062 -12.272 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 4
+ATOM 6917 C CA . GLY D 1 33 ? 6.373 6.384 -11.666 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 4
+ATOM 6918 C C . GLY D 1 33 ? 5.291 5.399 -12.114 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 4
+ATOM 6919 O O . GLY D 1 33 ? 5.193 5.075 -13.297 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 4
+ATOM 6920 H H . GLY D 1 33 ? 7.821 6.492 -13.159 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 4
+ATOM 6921 H HA2 . GLY D 1 33 ? 6.463 6.360 -10.580 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 4
+ATOM 6922 H HA3 . GLY D 1 33 ? 6.081 7.398 -11.939 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 4
+ATOM 6923 N N . LEU D 1 34 ? 4.506 4.949 -11.146 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 4
+ATOM 6924 C CA . LEU D 1 34 ? 3.436 4.008 -11.426 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 4
+ATOM 6925 C C . LEU D 1 34 ? 2.139 4.513 -10.791 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 4
+ATOM 6926 O O . LEU D 1 34 ? 1.949 4.396 -9.582 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 4
+ATOM 6927 C CB . LEU D 1 34 ? 3.831 2.599 -10.980 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 4
+ATOM 6928 C CG . LEU D 1 34 ? 3.102 1.446 -11.673 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 4
+ATOM 6929 C CD1 . LEU D 1 34 ? 4.086 0.361 -12.114 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 4
+ATOM 6930 C CD2 . LEU D 1 34 ? 1.991 0.886 -10.783 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 4
+ATOM 6931 H H . LEU D 1 34 ? 4.593 5.218 -10.187 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 4
+ATOM 6932 H HA . LEU D 1 34 ? 3.302 3.978 -12.508 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 4
+ATOM 6933 H HB2 . LEU D 1 34 ? 4.902 2.475 -11.141 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 4
+ATOM 6934 H HB3 . LEU D 1 34 ? 3.659 2.518 -9.907 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 4
+ATOM 6935 H HG . LEU D 1 34 ? 2.627 1.835 -12.574 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 4
+ATOM 6936 H HD11 . LEU D 1 34 ? 3.770 -0.049 -13.073 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 4
+ATOM 6937 H HD12 . LEU D 1 34 ? 5.082 0.792 -12.213 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 4
+ATOM 6938 H HD13 . LEU D 1 34 ? 4.107 -0.434 -11.369 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 4
+ATOM 6939 H HD21 . LEU D 1 34 ? 2.423 0.507 -9.857 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 4
+ATOM 6940 H HD22 . LEU D 1 34 ? 1.276 1.676 -10.554 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 4
+ATOM 6941 H HD23 . LEU D 1 34 ? 1.482 0.075 -11.305 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 4
+ATOM 6942 N N . MET D 1 35 ? 1.280 5.065 -11.636 1.00 0.00 ? ? ? ? ? ? 35 MET D N 4
+ATOM 6943 C CA . MET D 1 35 ? 0.006 5.588 -11.172 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 4
+ATOM 6944 C C . MET D 1 35 ? -1.161 4.797 -11.767 1.00 0.00 ? ? ? ? ? ? 35 MET D C 4
+ATOM 6945 O O . MET D 1 35 ? -1.446 4.906 -12.958 1.00 0.00 ? ? ? ? ? ? 35 MET D O 4
+ATOM 6946 C CB . MET D 1 35 ? -0.118 7.060 -11.573 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 4
+ATOM 6947 C CG . MET D 1 35 ? 0.385 7.976 -10.456 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 4
+ATOM 6948 S SD . MET D 1 35 ? -0.959 8.968 -9.828 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 4
+ATOM 6949 C CE . MET D 1 35 ? -0.467 10.575 -10.430 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 4
+ATOM 6950 H H . MET D 1 35 ? 1.442 5.156 -12.618 1.00 0.00 ? ? ? ? ? ? 35 MET D H 4
+ATOM 6951 H HA . MET D 1 35 ? 0.019 5.472 -10.088 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 4
+ATOM 6952 H HB2 . MET D 1 35 ? 0.454 7.242 -12.483 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 4
+ATOM 6953 H HB3 . MET D 1 35 ? -1.158 7.293 -11.798 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 4
+ATOM 6954 H HG2 . MET D 1 35 ? 0.815 7.380 -9.651 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 4
+ATOM 6955 H HG3 . MET D 1 35 ? 1.179 8.622 -10.833 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 4
+ATOM 6956 H HE1 . MET D 1 35 ? -1.192 10.925 -11.165 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 4
+ATOM 6957 H HE2 . MET D 1 35 ? -0.425 11.277 -9.598 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 4
+ATOM 6958 H HE3 . MET D 1 35 ? 0.516 10.503 -10.895 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 4
+ATOM 6959 N N . VAL D 1 36 ? -1.804 4.019 -10.909 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 4
+ATOM 6960 C CA . VAL D 1 36 ? -2.934 3.210 -11.334 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 4
+ATOM 6961 C C . VAL D 1 36 ? -4.229 3.833 -10.808 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 4
+ATOM 6962 O O . VAL D 1 36 ? -4.476 3.832 -9.603 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 4
+ATOM 6963 C CB . VAL D 1 36 ? -2.740 1.761 -10.882 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 4
+ATOM 6964 C CG1 . VAL D 1 36 ? -4.043 0.969 -11.005 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 4
+ATOM 6965 C CG2 . VAL D 1 36 ? -1.613 1.088 -11.668 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 4
+ATOM 6966 H H . VAL D 1 36 ? -1.566 3.936 -9.941 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 4
+ATOM 6967 H HA . VAL D 1 36 ? -2.956 3.223 -12.424 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 4
+ATOM 6968 H HB . VAL D 1 36 ? -2.454 1.774 -9.831 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 4
+ATOM 6969 H HG11 . VAL D 1 36 ? -4.826 1.466 -10.432 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 4
+ATOM 6970 H HG12 . VAL D 1 36 ? -4.339 0.917 -12.053 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 4
+ATOM 6971 H HG13 . VAL D 1 36 ? -3.894 -0.039 -10.619 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 4
+ATOM 6972 H HG21 . VAL D 1 36 ? -0.931 0.595 -10.975 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 4
+ATOM 6973 H HG22 . VAL D 1 36 ? -2.036 0.350 -12.349 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 4
+ATOM 6974 H HG23 . VAL D 1 36 ? -1.069 1.840 -12.239 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 4
+ATOM 6975 N N . GLY D 1 37 ? -5.020 4.349 -11.736 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 4
+ATOM 6976 C CA . GLY D 1 37 ? -6.283 4.973 -11.381 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 4
+ATOM 6977 C C . GLY D 1 37 ? -7.448 3.998 -11.565 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 4
+ATOM 6978 O O . GLY D 1 37 ? -7.355 3.057 -12.352 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 4
+ATOM 6979 H H . GLY D 1 37 ? -4.811 4.345 -12.714 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 4
+ATOM 6980 H HA2 . GLY D 1 37 ? -6.247 5.310 -10.345 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 4
+ATOM 6981 H HA3 . GLY D 1 37 ? -6.442 5.857 -11.998 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 4
+ATOM 6982 N N . GLY D 1 38 ? -8.517 4.257 -10.827 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 4
+ATOM 6983 C CA . GLY D 1 38 ? -9.698 3.414 -10.899 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 4
+ATOM 6984 C C . GLY D 1 38 ? -10.963 4.214 -10.578 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 4
+ATOM 6985 O O . GLY D 1 38 ? -11.507 4.108 -9.480 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 4
+ATOM 6986 H H . GLY D 1 38 ? -8.584 5.025 -10.189 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 4
+ATOM 6987 H HA2 . GLY D 1 38 ? -9.780 2.982 -11.896 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 4
+ATOM 6988 H HA3 . GLY D 1 38 ? -9.601 2.585 -10.199 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 4
+ATOM 6989 N N . VAL D 1 39 ? -11.393 4.997 -11.557 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 4
+ATOM 6990 C CA . VAL D 1 39 ? -12.583 5.814 -11.392 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 4
+ATOM 6991 C C . VAL D 1 39 ? -13.802 5.040 -11.898 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 4
+ATOM 6992 O O . VAL D 1 39 ? -13.949 4.822 -13.099 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 4
+ATOM 6993 C CB . VAL D 1 39 ? -12.396 7.159 -12.097 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 4
+ATOM 6994 C CG1 . VAL D 1 39 ? -13.689 7.976 -12.072 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 4
+ATOM 6995 C CG2 . VAL D 1 39 ? -11.239 7.946 -11.477 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 4
+ATOM 6996 H H . VAL D 1 39 ? -10.945 5.078 -12.447 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 4
+ATOM 6997 H HA . VAL D 1 39 ? -12.707 6.005 -10.326 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 4
+ATOM 6998 H HB . VAL D 1 39 ? -12.145 6.960 -13.138 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 4
+ATOM 6999 H HG11 . VAL D 1 39 ? -13.551 8.857 -11.445 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 4
+ATOM 7000 H HG12 . VAL D 1 39 ? -13.941 8.288 -13.086 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 4
+ATOM 7001 H HG13 . VAL D 1 39 ? -14.497 7.366 -11.668 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 4
+ATOM 7002 H HG21 . VAL D 1 39 ? -11.617 8.571 -10.668 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 4
+ATOM 7003 H HG22 . VAL D 1 39 ? -10.497 7.251 -11.083 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 4
+ATOM 7004 H HG23 . VAL D 1 39 ? -10.779 8.576 -12.238 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 4
+ATOM 7005 N N . VAL D 1 40 ? -14.646 4.646 -10.955 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 4
+ATOM 7006 C CA . VAL D 1 40 ? -15.847 3.900 -11.290 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 4
+ATOM 7007 C C . VAL D 1 40 ? -17.077 4.703 -10.861 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 4
+ATOM 7008 O O . VAL D 1 40 ? -17.310 4.899 -9.669 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 4
+ATOM 7009 C CB . VAL D 1 40 ? -15.792 2.508 -10.658 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 4
+ATOM 7010 C CG1 . VAL D 1 40 ? -17.013 1.676 -11.056 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 4
+ATOM 7011 C CG2 . VAL D 1 40 ? -14.494 1.788 -11.029 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 4
+ATOM 7012 H H . VAL D 1 40 ? -14.519 4.827 -9.980 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 4
+ATOM 7013 H HA . VAL D 1 40 ? -15.868 3.779 -12.373 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 4
+ATOM 7014 H HB . VAL D 1 40 ? -15.810 2.630 -9.575 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 4
+ATOM 7015 H HG11 . VAL D 1 40 ? -16.975 0.710 -10.553 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 4
+ATOM 7016 H HG12 . VAL D 1 40 ? -17.922 2.203 -10.764 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 4
+ATOM 7017 H HG13 . VAL D 1 40 ? -17.013 1.524 -12.136 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 4
+ATOM 7018 H HG21 . VAL D 1 40 ? -14.125 2.172 -11.980 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 4
+ATOM 7019 H HG22 . VAL D 1 40 ? -13.748 1.961 -10.253 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 4
+ATOM 7020 H HG23 . VAL D 1 40 ? -14.684 0.719 -11.118 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 4
+ATOM 7021 N N . ILE D 1 41 ? -17.831 5.147 -11.856 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 4
+ATOM 7022 C CA . ILE D 1 41 ? -19.031 5.925 -11.596 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 4
+ATOM 7023 C C . ILE D 1 41 ? -20.262 5.087 -11.946 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 4
+ATOM 7024 O O . ILE D 1 41 ? -20.493 4.775 -13.113 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 4
+ATOM 7025 C CB . ILE D 1 41 ? -18.970 7.265 -12.331 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 4
+ATOM 7026 C CG1 . ILE D 1 41 ? -18.101 8.269 -11.570 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 4
+ATOM 7027 C CG2 . ILE D 1 41 ? -20.375 7.809 -12.597 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 4
+ATOM 7028 C CD1 . ILE D 1 41 ? -17.821 9.508 -12.422 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 4
+ATOM 7029 H H . ILE D 1 41 ? -17.634 4.984 -12.822 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 4
+ATOM 7030 H HA . ILE D 1 41 ? -19.054 6.143 -10.528 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 4
+ATOM 7031 H HB . ILE D 1 41 ? -18.499 7.102 -13.300 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 4
+ATOM 7032 H HG12 . ILE D 1 41 ? -18.602 8.563 -10.648 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 4
+ATOM 7033 H HG13 . ILE D 1 41 ? -17.160 7.798 -11.285 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 4
+ATOM 7034 H HG21 . ILE D 1 41 ? -20.915 7.119 -13.246 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 4
+ATOM 7035 H HG22 . ILE D 1 41 ? -20.909 7.913 -11.652 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 4
+ATOM 7036 H HG23 . ILE D 1 41 ? -20.302 8.782 -13.082 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 4
+ATOM 7037 H HD11 . ILE D 1 41 ? -16.793 9.833 -12.264 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 4
+ATOM 7038 H HD12 . ILE D 1 41 ? -17.967 9.266 -13.475 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 4
+ATOM 7039 H HD13 . ILE D 1 41 ? -18.503 10.308 -12.135 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 4
+ATOM 7040 N N . ALA D 1 42 ? -21.020 4.746 -10.914 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 4
+ATOM 7041 C CA . ALA D 1 42 ? -22.221 3.951 -11.098 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 4
+ATOM 7042 C C . ALA D 1 42 ? -23.447 4.865 -11.037 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 4
+ATOM 7043 O O . ALA D 1 42 ? -24.148 4.903 -10.027 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 4
+ATOM 7044 C CB . ALA D 1 42 ? -22.267 2.843 -10.043 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 4
+ATOM 7045 H H . ALA D 1 42 ? -20.824 5.005 -9.968 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 4
+ATOM 7046 H HA . ALA D 1 42 ? -22.168 3.493 -12.086 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 4
+ATOM 7047 H HB1 . ALA D 1 42 ? -21.252 2.593 -9.735 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 4
+ATOM 7048 H HB2 . ALA D 1 42 ? -22.835 3.188 -9.179 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 4
+ATOM 7049 H HB3 . ALA D 1 42 ? -22.747 1.960 -10.465 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 4
+ATOM 7050 N N . LEU E 1 17 ? -15.609 -6.843 -21.052 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 4
+ATOM 7051 C CA . LEU E 1 17 ? -14.568 -5.833 -20.962 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 4
+ATOM 7052 C C . LEU E 1 17 ? -13.295 -6.467 -20.398 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 4
+ATOM 7053 O O . LEU E 1 17 ? -13.019 -6.357 -19.204 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 4
+ATOM 7054 C CB . LEU E 1 17 ? -15.061 -4.626 -20.162 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 4
+ATOM 7055 C CG . LEU E 1 17 ? -14.868 -3.259 -20.823 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 4
+ATOM 7056 C CD1 . LEU E 1 17 ? -16.101 -2.375 -20.622 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 4
+ATOM 7057 C CD2 . LEU E 1 17 ? -13.590 -2.583 -20.322 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 4
+ATOM 7058 H H . LEU E 1 17 ? -15.739 -7.390 -20.225 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 4
+ATOM 7059 H HA . LEU E 1 17 ? -14.361 -5.486 -21.974 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 4
+ATOM 7060 H HB2 . LEU E 1 17 ? -16.122 -4.761 -19.955 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 4
+ATOM 7061 H HB3 . LEU E 1 17 ? -14.547 -4.618 -19.201 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 4
+ATOM 7062 H HG . LEU E 1 17 ? -14.753 -3.412 -21.896 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 4
+ATOM 7063 H HD11 . LEU E 1 17 ? -15.825 -1.494 -20.043 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 4
+ATOM 7064 H HD12 . LEU E 1 17 ? -16.488 -2.065 -21.593 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 4
+ATOM 7065 H HD13 . LEU E 1 17 ? -16.867 -2.936 -20.087 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 4
+ATOM 7066 H HD21 . LEU E 1 17 ? -12.979 -3.311 -19.788 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 4
+ATOM 7067 H HD22 . LEU E 1 17 ? -13.030 -2.192 -21.171 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 4
+ATOM 7068 H HD23 . LEU E 1 17 ? -13.851 -1.765 -19.651 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 4
+ATOM 7069 N N . VAL E 1 18 ? -12.554 -7.118 -21.282 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 4
+ATOM 7070 C CA . VAL E 1 18 ? -11.317 -7.769 -20.887 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 4
+ATOM 7071 C C . VAL E 1 18 ? -10.131 -6.896 -21.300 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 4
+ATOM 7072 O O . VAL E 1 18 ? -9.975 -6.569 -22.475 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 4
+ATOM 7073 C CB . VAL E 1 18 ? -11.256 -9.179 -21.479 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 4
+ATOM 7074 C CG1 . VAL E 1 18 ? -9.821 -9.710 -21.485 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 4
+ATOM 7075 C CG2 . VAL E 1 18 ? -12.189 -10.130 -20.729 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 4
+ATOM 7076 H H . VAL E 1 18 ? -12.786 -7.203 -22.251 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 4
+ATOM 7077 H HA . VAL E 1 18 ? -11.325 -7.860 -19.801 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 4
+ATOM 7078 H HB . VAL E 1 18 ? -11.596 -9.123 -22.513 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 4
+ATOM 7079 H HG11 . VAL E 1 18 ? -9.835 -10.794 -21.590 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 4
+ATOM 7080 H HG12 . VAL E 1 18 ? -9.274 -9.270 -22.319 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 4
+ATOM 7081 H HG13 . VAL E 1 18 ? -9.331 -9.442 -20.548 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 4
+ATOM 7082 H HG21 . VAL E 1 18 ? -12.756 -10.725 -21.446 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 4
+ATOM 7083 H HG22 . VAL E 1 18 ? -11.600 -10.792 -20.093 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 4
+ATOM 7084 H HG23 . VAL E 1 18 ? -12.878 -9.552 -20.112 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 4
+ATOM 7085 N N . PHE E 1 19 ? -9.325 -6.542 -20.309 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 4
+ATOM 7086 C CA . PHE E 1 19 ? -8.157 -5.712 -20.555 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 4
+ATOM 7087 C C . PHE E 1 19 ? -6.886 -6.388 -20.039 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 4
+ATOM 7088 O O . PHE E 1 19 ? -6.764 -6.662 -18.846 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 4
+ATOM 7089 C CB . PHE E 1 19 ? -8.370 -4.403 -19.791 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 4
+ATOM 7090 C CG . PHE E 1 19 ? -8.748 -3.218 -20.682 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 4
+ATOM 7091 C CD1 . PHE E 1 19 ? -10.022 -3.090 -21.139 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 4
+ATOM 7092 C CD2 . PHE E 1 19 ? -7.809 -2.292 -21.016 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 4
+ATOM 7093 C CE1 . PHE E 1 19 ? -10.373 -1.990 -21.965 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 4
+ATOM 7094 C CE2 . PHE E 1 19 ? -8.160 -1.192 -21.842 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 4
+ATOM 7095 C CZ . PHE E 1 19 ? -9.434 -1.064 -22.300 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 4
+ATOM 7096 H H . PHE E 1 19 ? -9.459 -6.811 -19.356 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 4
+ATOM 7097 H HA . PHE E 1 19 ? -8.081 -5.572 -21.633 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 4
+ATOM 7098 H HB2 . PHE E 1 19 ? -9.154 -4.551 -19.049 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 4
+ATOM 7099 H HB3 . PHE E 1 19 ? -7.458 -4.160 -19.247 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 4
+ATOM 7100 H HD1 . PHE E 1 19 ? -10.775 -3.832 -20.871 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 4
+ATOM 7101 H HD2 . PHE E 1 19 ? -6.788 -2.395 -20.649 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 4
+ATOM 7102 H HE1 . PHE E 1 19 ? -11.394 -1.887 -22.332 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 4
+ATOM 7103 H HE2 . PHE E 1 19 ? -7.408 -0.450 -22.110 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 4
+ATOM 7104 H HZ . PHE E 1 19 ? -9.703 -0.219 -22.934 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 4
+ATOM 7105 N N . PHE E 1 20 ? -5.970 -6.639 -20.963 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 4
+ATOM 7106 C CA . PHE E 1 20 ? -4.712 -7.278 -20.617 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 4
+ATOM 7107 C C . PHE E 1 20 ? -3.523 -6.445 -21.098 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 4
+ATOM 7108 O O . PHE E 1 20 ? -3.338 -6.256 -22.300 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 4
+ATOM 7109 C CB . PHE E 1 20 ? -4.690 -8.634 -21.326 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 4
+ATOM 7110 C CG . PHE E 1 20 ? -4.819 -9.832 -20.382 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 4
+ATOM 7111 C CD1 . PHE E 1 20 ? -6.006 -10.090 -19.770 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 4
+ATOM 7112 C CD2 . PHE E 1 20 ? -3.747 -10.637 -20.155 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 4
+ATOM 7113 C CE1 . PHE E 1 20 ? -6.126 -11.201 -18.895 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 4
+ATOM 7114 C CE2 . PHE E 1 20 ? -3.868 -11.749 -19.279 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 4
+ATOM 7115 C CZ . PHE E 1 20 ? -5.055 -12.007 -18.667 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 4
+ATOM 7116 H H . PHE E 1 20 ? -6.077 -6.413 -21.932 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 4
+ATOM 7117 H HA . PHE E 1 20 ? -4.680 -7.361 -19.531 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 4
+ATOM 7118 H HB2 . PHE E 1 20 ? -5.502 -8.667 -22.051 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 4
+ATOM 7119 H HB3 . PHE E 1 20 ? -3.758 -8.725 -21.885 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 4
+ATOM 7120 H HD1 . PHE E 1 20 ? -6.865 -9.444 -19.953 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 4
+ATOM 7121 H HD2 . PHE E 1 20 ? -2.796 -10.430 -20.645 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 4
+ATOM 7122 H HE1 . PHE E 1 20 ? -7.078 -11.409 -18.405 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 4
+ATOM 7123 H HE2 . PHE E 1 20 ? -3.009 -12.394 -19.097 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 4
+ATOM 7124 H HZ . PHE E 1 20 ? -5.147 -12.860 -17.995 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 4
+ATOM 7125 N N . ALA E 1 21 ? -2.747 -5.969 -20.136 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 4
+ATOM 7126 C CA . ALA E 1 21 ? -1.580 -5.160 -20.446 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 4
+ATOM 7127 C C . ALA E 1 21 ? -0.318 -5.898 -19.996 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 4
+ATOM 7128 O O . ALA E 1 21 ? 0.092 -5.787 -18.842 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 4
+ATOM 7129 C CB . ALA E 1 21 ? -1.720 -3.787 -19.784 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 4
+ATOM 7130 H H . ALA E 1 21 ? -2.904 -6.127 -19.161 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 4
+ATOM 7131 H HA . ALA E 1 21 ? -1.547 -5.026 -21.527 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 4
+ATOM 7132 H HB1 . ALA E 1 21 ? -1.145 -3.770 -18.858 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 4
+ATOM 7133 H HB2 . ALA E 1 21 ? -1.344 -3.018 -20.459 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 4
+ATOM 7134 H HB3 . ALA E 1 21 ? -2.770 -3.595 -19.564 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 4
+ATOM 7135 N N . GLU E 1 22 ? 0.262 -6.636 -20.931 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 4
+ATOM 7136 C CA . GLU E 1 22 ? 1.469 -7.393 -20.645 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 4
+ATOM 7137 C C . GLU E 1 22 ? 2.673 -6.753 -21.339 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 4
+ATOM 7138 O O . GLU E 1 22 ? 2.895 -6.967 -22.529 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 4
+ATOM 7139 C CB . GLU E 1 22 ? 1.310 -8.856 -21.062 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 4
+ATOM 7140 C CG . GLU E 1 22 ? 1.124 -9.758 -19.840 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 4
+ATOM 7141 C CD . GLU E 1 22 ? 2.376 -10.601 -19.585 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 4
+ATOM 7142 O OE1 . GLU E 1 22 ? 2.822 -11.260 -20.549 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 4
+ATOM 7143 O OE2 . GLU E 1 22 ? 2.858 -10.566 -18.432 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 4
+ATOM 7144 H H . GLU E 1 22 ? -0.078 -6.721 -21.868 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 4
+ATOM 7145 H HA . GLU E 1 22 ? 1.594 -7.342 -19.564 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 4
+ATOM 7146 H HB2 . GLU E 1 22 ? 0.452 -8.958 -21.727 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 4
+ATOM 7147 H HB3 . GLU E 1 22 ? 2.188 -9.176 -21.624 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 4
+ATOM 7148 H HG2 . GLU E 1 22 ? 0.908 -9.148 -18.963 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 4
+ATOM 7149 H HG3 . GLU E 1 22 ? 0.266 -10.412 -19.993 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 4
+ATOM 7150 N N . ASP E 1 23 ? 3.420 -5.980 -20.564 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 4
+ATOM 7151 C CA . ASP E 1 23 ? 4.596 -5.308 -21.088 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 4
+ATOM 7152 C C . ASP E 1 23 ? 5.820 -5.710 -20.262 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 4
+ATOM 7153 O O . ASP E 1 23 ? 5.723 -5.883 -19.047 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 4
+ATOM 7154 C CB . ASP E 1 23 ? 4.446 -3.788 -21.001 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 4
+ATOM 7155 C CG . ASP E 1 23 ? 4.614 -3.200 -19.599 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 4
+ATOM 7156 O OD1 . ASP E 1 23 ? 5.691 -3.434 -19.010 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 4
+ATOM 7157 O OD2 . ASP E 1 23 ? 3.660 -2.531 -19.146 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 4
+ATOM 7158 H H . ASP E 1 23 ? 3.233 -5.811 -19.596 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 4
+ATOM 7159 H HA . ASP E 1 23 ? 4.671 -5.629 -22.127 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 4
+ATOM 7160 H HB2 . ASP E 1 23 ? 5.181 -3.327 -21.662 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 4
+ATOM 7161 H HB3 . ASP E 1 23 ? 3.461 -3.513 -21.379 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 4
+ATOM 7162 N N . VAL E 1 24 ? 6.942 -5.847 -20.952 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 4
+ATOM 7163 C CA . VAL E 1 24 ? 8.182 -6.226 -20.297 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 4
+ATOM 7164 C C . VAL E 1 24 ? 9.300 -5.282 -20.747 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 4
+ATOM 7165 O O . VAL E 1 24 ? 9.591 -5.182 -21.937 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 4
+ATOM 7166 C CB . VAL E 1 24 ? 8.494 -7.697 -20.577 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 4
+ATOM 7167 C CG1 . VAL E 1 24 ? 7.214 -8.482 -20.873 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 4
+ATOM 7168 C CG2 . VAL E 1 24 ? 9.500 -7.837 -21.721 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 4
+ATOM 7169 H H . VAL E 1 24 ? 7.012 -5.705 -21.940 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 4
+ATOM 7170 H HA . VAL E 1 24 ? 8.036 -6.110 -19.223 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 4
+ATOM 7171 H HB . VAL E 1 24 ? 8.946 -8.120 -19.680 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 4
+ATOM 7172 H HG11 . VAL E 1 24 ? 6.379 -8.031 -20.337 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 4
+ATOM 7173 H HG12 . VAL E 1 24 ? 7.013 -8.459 -21.944 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 4
+ATOM 7174 H HG13 . VAL E 1 24 ? 7.338 -9.515 -20.549 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 4
+ATOM 7175 H HG21 . VAL E 1 24 ? 10.468 -7.451 -21.403 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 4
+ATOM 7176 H HG22 . VAL E 1 24 ? 9.599 -8.888 -21.992 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 4
+ATOM 7177 H HG23 . VAL E 1 24 ? 9.149 -7.271 -22.585 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 4
+ATOM 7178 N N . GLY E 1 25 ? 9.895 -4.614 -19.770 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 4
+ATOM 7179 C CA . GLY E 1 25 ? 10.974 -3.682 -20.050 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 4
+ATOM 7180 C C . GLY E 1 25 ? 12.313 -4.228 -19.551 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 4
+ATOM 7181 O O . GLY E 1 25 ? 12.409 -4.713 -18.424 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 4
+ATOM 7182 H H . GLY E 1 25 ? 9.652 -4.701 -18.804 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 4
+ATOM 7183 H HA2 . GLY E 1 25 ? 11.030 -3.496 -21.122 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 4
+ATOM 7184 H HA3 . GLY E 1 25 ? 10.766 -2.725 -19.571 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 4
+ATOM 7185 N N . SER E 1 26 ? 13.314 -4.131 -20.414 1.00 0.00 ? ? ? ? ? ? 26 SER E N 4
+ATOM 7186 C CA . SER E 1 26 ? 14.644 -4.609 -20.075 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 4
+ATOM 7187 C C . SER E 1 26 ? 15.526 -3.437 -19.640 1.00 0.00 ? ? ? ? ? ? 26 SER E C 4
+ATOM 7188 O O . SER E 1 26 ? 15.997 -2.666 -20.475 1.00 0.00 ? ? ? ? ? ? 26 SER E O 4
+ATOM 7189 C CB . SER E 1 26 ? 15.282 -5.344 -21.255 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 4
+ATOM 7190 O OG . SER E 1 26 ? 15.818 -6.607 -20.870 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 4
+ATOM 7191 H H . SER E 1 26 ? 13.227 -3.735 -21.328 1.00 0.00 ? ? ? ? ? ? 26 SER E H 4
+ATOM 7192 H HA . SER E 1 26 ? 14.498 -5.305 -19.249 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 4
+ATOM 7193 H HB2 . SER E 1 26 ? 14.536 -5.490 -22.037 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 4
+ATOM 7194 H HB3 . SER E 1 26 ? 16.074 -4.729 -21.681 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 4
+ATOM 7195 H HG . SER E 1 26 ? 16.400 -6.968 -21.598 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 4
+ATOM 7196 N N . ASN E 1 27 ? 15.724 -3.340 -18.334 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 4
+ATOM 7197 C CA . ASN E 1 27 ? 16.541 -2.275 -17.778 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 4
+ATOM 7198 C C . ASN E 1 27 ? 15.802 -0.943 -17.920 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 4
+ATOM 7199 O O . ASN E 1 27 ? 16.006 -0.215 -18.890 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 4
+ATOM 7200 C CB . ASN E 1 27 ? 17.873 -2.157 -18.522 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 4
+ATOM 7201 C CG . ASN E 1 27 ? 19.051 -2.436 -17.586 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 4
+ATOM 7202 O OD1 . ASN E 1 27 ? 19.572 -3.537 -17.512 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 4
+ATOM 7203 N ND2 . ASN E 1 27 ? 19.440 -1.380 -16.877 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 4
+ATOM 7204 H H . ASN E 1 27 ? 15.337 -3.971 -17.661 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 4
+ATOM 7205 H HA . ASN E 1 27 ? 16.704 -2.553 -16.737 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 4
+ATOM 7206 H HB2 . ASN E 1 27 ? 17.892 -2.861 -19.355 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 4
+ATOM 7207 H HB3 . ASN E 1 27 ? 17.970 -1.158 -18.947 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 4
+ATOM 7208 H HD21 . ASN E 1 27 ? 18.969 -0.504 -16.985 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 4
+ATOM 7209 H HD22 . ASN E 1 27 ? 20.203 -1.461 -16.236 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 4
+ATOM 7210 N N . LYS E 1 28 ? 14.958 -0.664 -16.937 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 4
+ATOM 7211 C CA . LYS E 1 28 ? 14.186 0.568 -16.940 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 4
+ATOM 7212 C C . LYS E 1 28 ? 15.034 1.696 -16.351 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 4
+ATOM 7213 O O . LYS E 1 28 ? 15.710 1.508 -15.340 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 4
+ATOM 7214 C CB . LYS E 1 28 ? 12.850 0.364 -16.224 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 4
+ATOM 7215 C CG . LYS E 1 28 ? 11.946 -0.588 -17.010 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 4
+ATOM 7216 C CD . LYS E 1 28 ? 10.624 -0.820 -16.276 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 4
+ATOM 7217 C CE . LYS E 1 28 ? 9.621 -1.551 -17.171 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 4
+ATOM 7218 N NZ . LYS E 1 28 ? 8.349 -1.776 -16.448 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 4
+ATOM 7219 H H . LYS E 1 28 ? 14.797 -1.261 -16.151 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 4
+ATOM 7220 H HA . LYS E 1 28 ? 13.962 0.810 -17.979 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 4
+ATOM 7221 H HB2 . LYS E 1 28 ? 13.024 -0.036 -15.226 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 4
+ATOM 7222 H HB3 . LYS E 1 28 ? 12.350 1.325 -16.099 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 4
+ATOM 7223 H HG2 . LYS E 1 28 ? 11.749 -0.174 -17.999 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 4
+ATOM 7224 H HG3 . LYS E 1 28 ? 12.456 -1.539 -17.159 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 4
+ATOM 7225 H HD2 . LYS E 1 28 ? 10.803 -1.403 -15.373 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 4
+ATOM 7226 H HD3 . LYS E 1 28 ? 10.206 0.136 -15.960 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 4
+ATOM 7227 H HE2 . LYS E 1 28 ? 9.435 -0.967 -18.072 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 4
+ATOM 7228 H HE3 . LYS E 1 28 ? 10.038 -2.506 -17.490 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 4
+ATOM 7229 H HZ1 . LYS E 1 28 ? 7.598 -1.355 -16.956 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 4
+ATOM 7230 H HZ2 . LYS E 1 28 ? 8.184 -2.758 -16.361 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 4
+ATOM 7231 H HZ3 . LYS E 1 28 ? 8.406 -1.366 -15.537 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 4
+ATOM 7232 N N . GLY E 1 29 ? 14.971 2.846 -17.007 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 4
+ATOM 7233 C CA . GLY E 1 29 ? 15.725 4.005 -16.561 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 4
+ATOM 7234 C C . GLY E 1 29 ? 14.976 5.301 -16.879 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 4
+ATOM 7235 O O . GLY E 1 29 ? 13.779 5.278 -17.159 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 4
+ATOM 7236 H H . GLY E 1 29 ? 14.419 2.991 -17.828 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 4
+ATOM 7237 H HA2 . GLY E 1 29 ? 15.902 3.937 -15.488 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 4
+ATOM 7238 H HA3 . GLY E 1 29 ? 16.701 4.017 -17.045 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 4
+ATOM 7239 N N . ALA E 1 30 ? 15.713 6.401 -16.824 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 4
+ATOM 7240 C CA . ALA E 1 30 ? 15.134 7.704 -17.103 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 4
+ATOM 7241 C C . ALA E 1 30 ? 13.869 7.886 -16.262 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 4
+ATOM 7242 O O . ALA E 1 30 ? 13.719 7.255 -15.216 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 4
+ATOM 7243 C CB . ALA E 1 30 ? 14.860 7.831 -18.603 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 4
+ATOM 7244 H H . ALA E 1 30 ? 16.687 6.411 -16.596 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 4
+ATOM 7245 H HA . ALA E 1 30 ? 15.864 8.460 -16.814 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 4
+ATOM 7246 H HB1 . ALA E 1 30 ? 14.720 8.881 -18.859 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 4
+ATOM 7247 H HB2 . ALA E 1 30 ? 15.705 7.430 -19.162 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 4
+ATOM 7248 H HB3 . ALA E 1 30 ? 13.959 7.272 -18.856 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 4
+ATOM 7249 N N . ILE E 1 31 ? 12.992 8.751 -16.749 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 4
+ATOM 7250 C CA . ILE E 1 31 ? 11.745 9.023 -16.055 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 4
+ATOM 7251 C C . ILE E 1 31 ? 10.599 8.312 -16.777 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 4
+ATOM 7252 O O . ILE E 1 31 ? 10.036 8.846 -17.732 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 4
+ATOM 7253 C CB . ILE E 1 31 ? 11.535 10.531 -15.903 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 4
+ATOM 7254 C CG1 . ILE E 1 31 ? 12.780 11.202 -15.320 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 4
+ATOM 7255 C CG2 . ILE E 1 31 ? 10.283 10.830 -15.075 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 4
+ATOM 7256 C CD1 . ILE E 1 31 ? 13.198 12.409 -16.163 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 4
+ATOM 7257 H H . ILE E 1 31 ? 13.122 9.260 -17.600 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 4
+ATOM 7258 H HA . ILE E 1 31 ? 11.832 8.607 -15.051 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 4
+ATOM 7259 H HB . ILE E 1 31 ? 11.374 10.955 -16.894 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 4
+ATOM 7260 H HG12 . ILE E 1 31 ? 12.581 11.521 -14.297 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 4
+ATOM 7261 H HG13 . ILE E 1 31 ? 13.599 10.483 -15.277 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 4
+ATOM 7262 H HG21 . ILE E 1 31 ? 9.413 10.389 -15.562 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 4
+ATOM 7263 H HG22 . ILE E 1 31 ? 10.396 10.404 -14.078 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 4
+ATOM 7264 H HG23 . ILE E 1 31 ? 10.148 11.908 -14.997 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 4
+ATOM 7265 H HD11 . ILE E 1 31 ? 12.609 13.278 -15.871 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 4
+ATOM 7266 H HD12 . ILE E 1 31 ? 14.256 12.616 -16.001 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 4
+ATOM 7267 H HD13 . ILE E 1 31 ? 13.028 12.191 -17.218 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 4
+ATOM 7268 N N . ILE E 1 32 ? 10.286 7.120 -16.292 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 4
+ATOM 7269 C CA . ILE E 1 32 ? 9.216 6.330 -16.879 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 4
+ATOM 7270 C C . ILE E 1 32 ? 7.994 6.371 -15.960 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 4
+ATOM 7271 O O . ILE E 1 32 ? 8.090 6.041 -14.779 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 4
+ATOM 7272 C CB . ILE E 1 32 ? 9.705 4.914 -17.191 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 4
+ATOM 7273 C CG1 . ILE E 1 32 ? 8.532 3.935 -17.271 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 4
+ATOM 7274 C CG2 . ILE E 1 32 ? 10.760 4.463 -16.179 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 4
+ATOM 7275 C CD1 . ILE E 1 32 ? 9.020 2.519 -17.586 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 4
+ATOM 7276 H H . ILE E 1 32 ? 10.748 6.693 -15.515 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 4
+ATOM 7277 H HA . ILE E 1 32 ? 8.951 6.795 -17.829 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 4
+ATOM 7278 H HB . ILE E 1 32 ? 10.182 4.925 -18.170 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 4
+ATOM 7279 H HG12 . ILE E 1 32 ? 7.989 3.934 -16.325 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 4
+ATOM 7280 H HG13 . ILE E 1 32 ? 7.832 4.262 -18.039 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 4
+ATOM 7281 H HG21 . ILE E 1 32 ? 10.844 3.376 -16.201 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 4
+ATOM 7282 H HG22 . ILE E 1 32 ? 11.722 4.907 -16.435 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 4
+ATOM 7283 H HG23 . ILE E 1 32 ? 10.466 4.785 -15.180 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 4
+ATOM 7284 H HD11 . ILE E 1 32 ? 9.985 2.572 -18.089 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 4
+ATOM 7285 H HD12 . ILE E 1 32 ? 9.122 1.955 -16.659 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 4
+ATOM 7286 H HD13 . ILE E 1 32 ? 8.298 2.023 -18.235 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 4
+ATOM 7287 N N . GLY E 1 33 ? 6.873 6.779 -16.537 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 4
+ATOM 7288 C CA . GLY E 1 33 ? 5.634 6.867 -15.784 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 4
+ATOM 7289 C C . GLY E 1 33 ? 4.560 5.959 -16.387 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 4
+ATOM 7290 O O . GLY E 1 33 ? 4.169 6.135 -17.540 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 4
+ATOM 7291 H H . GLY E 1 33 ? 6.804 7.045 -17.498 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 4
+ATOM 7292 H HA2 . GLY E 1 33 ? 5.813 6.585 -14.746 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 4
+ATOM 7293 H HA3 . GLY E 1 33 ? 5.281 7.898 -15.777 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 4
+ATOM 7294 N N . LEU E 1 34 ? 4.114 5.007 -15.580 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 4
+ATOM 7295 C CA . LEU E 1 34 ? 3.093 4.071 -16.019 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 4
+ATOM 7296 C C . LEU E 1 34 ? 1.730 4.525 -15.493 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 4
+ATOM 7297 O O . LEU E 1 34 ? 1.383 4.255 -14.344 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 4
+ATOM 7298 C CB . LEU E 1 34 ? 3.465 2.644 -15.613 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 4
+ATOM 7299 C CG . LEU E 1 34 ? 2.596 1.531 -16.203 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 4
+ATOM 7300 C CD1 . LEU E 1 34 ? 3.335 0.191 -16.185 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 4
+ATOM 7301 C CD2 . LEU E 1 34 ? 1.247 1.451 -15.487 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 4
+ATOM 7302 H H . LEU E 1 34 ? 4.437 4.871 -14.643 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 4
+ATOM 7303 H HA . LEU E 1 34 ? 3.070 4.101 -17.109 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 4
+ATOM 7304 H HB2 . LEU E 1 34 ? 4.500 2.462 -15.903 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 4
+ATOM 7305 H HB3 . LEU E 1 34 ? 3.422 2.574 -14.526 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 4
+ATOM 7306 H HG . LEU E 1 34 ? 2.393 1.773 -17.246 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 4
+ATOM 7307 H HD11 . LEU E 1 34 ? 4.179 0.233 -16.874 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 4
+ATOM 7308 H HD12 . LEU E 1 34 ? 3.698 -0.010 -15.177 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 4
+ATOM 7309 H HD13 . LEU E 1 34 ? 2.654 -0.603 -16.492 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 4
+ATOM 7310 H HD21 . LEU E 1 34 ? 0.506 2.027 -16.042 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 4
+ATOM 7311 H HD22 . LEU E 1 34 ? 0.927 0.410 -15.428 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 4
+ATOM 7312 H HD23 . LEU E 1 34 ? 1.345 1.858 -14.480 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 4
+ATOM 7313 N N . MET E 1 35 ? 0.995 5.208 -16.358 1.00 0.00 ? ? ? ? ? ? 35 MET E N 4
+ATOM 7314 C CA . MET E 1 35 ? -0.322 5.703 -15.995 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 4
+ATOM 7315 C C . MET E 1 35 ? -1.421 4.788 -16.540 1.00 0.00 ? ? ? ? ? ? 35 MET E C 4
+ATOM 7316 O O . MET E 1 35 ? -1.538 4.606 -17.751 1.00 0.00 ? ? ? ? ? ? 35 MET E O 4
+ATOM 7317 C CB . MET E 1 35 ? -0.510 7.115 -16.553 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 4
+ATOM 7318 C CG . MET E 1 35 ? -1.467 7.927 -15.679 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 4
+ATOM 7319 S SD . MET E 1 35 ? -0.547 8.841 -14.452 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 4
+ATOM 7320 C CE . MET E 1 35 ? -0.786 10.502 -15.060 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 4
+ATOM 7321 H H . MET E 1 35 ? 1.285 5.424 -17.291 1.00 0.00 ? ? ? ? ? ? 35 MET E H 4
+ATOM 7322 H HA . MET E 1 35 ? -0.345 5.700 -14.905 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 4
+ATOM 7323 H HB2 . MET E 1 35 ? 0.455 7.619 -16.608 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 4
+ATOM 7324 H HB3 . MET E 1 35 ? -0.898 7.059 -17.570 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 4
+ATOM 7325 H HG2 . MET E 1 35 ? -2.044 8.614 -16.299 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 4
+ATOM 7326 H HG3 . MET E 1 35 ? -2.180 7.262 -15.191 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 4
+ATOM 7327 H HE1 . MET E 1 35 ? -1.771 10.584 -15.519 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 4
+ATOM 7328 H HE2 . MET E 1 35 ? -0.712 11.206 -14.232 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 4
+ATOM 7329 H HE3 . MET E 1 35 ? -0.020 10.731 -15.801 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 4
+ATOM 7330 N N . VAL E 1 36 ? -2.197 4.235 -15.620 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 4
+ATOM 7331 C CA . VAL E 1 36 ? -3.282 3.344 -15.993 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 4
+ATOM 7332 C C . VAL E 1 36 ? -4.542 3.727 -15.214 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 4
+ATOM 7333 O O . VAL E 1 36 ? -4.896 3.069 -14.236 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 4
+ATOM 7334 C CB . VAL E 1 36 ? -2.863 1.889 -15.773 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 4
+ATOM 7335 C CG1 . VAL E 1 36 ? -2.286 1.690 -14.370 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 4
+ATOM 7336 C CG2 . VAL E 1 36 ? -4.034 0.937 -16.024 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 4
+ATOM 7337 H H . VAL E 1 36 ? -2.095 4.388 -14.637 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 4
+ATOM 7338 H HA . VAL E 1 36 ? -3.472 3.484 -17.057 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 4
+ATOM 7339 H HB . VAL E 1 36 ? -2.080 1.653 -16.494 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 4
+ATOM 7340 H HG11 . VAL E 1 36 ? -3.100 1.612 -13.650 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 4
+ATOM 7341 H HG12 . VAL E 1 36 ? -1.691 0.777 -14.348 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 4
+ATOM 7342 H HG13 . VAL E 1 36 ? -1.655 2.541 -14.113 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 4
+ATOM 7343 H HG21 . VAL E 1 36 ? -4.840 1.161 -15.326 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 4
+ATOM 7344 H HG22 . VAL E 1 36 ? -4.393 1.063 -17.046 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 4
+ATOM 7345 H HG23 . VAL E 1 36 ? -3.704 -0.092 -15.880 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 4
+ATOM 7346 N N . GLY E 1 37 ? -5.185 4.789 -15.676 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 4
+ATOM 7347 C CA . GLY E 1 37 ? -6.398 5.267 -15.035 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 4
+ATOM 7348 C C . GLY E 1 37 ? -7.637 4.612 -15.648 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 4
+ATOM 7349 O O . GLY E 1 37 ? -8.007 4.914 -16.782 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 4
+ATOM 7350 H H . GLY E 1 37 ? -4.891 5.318 -16.472 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 4
+ATOM 7351 H HA2 . GLY E 1 37 ? -6.359 5.052 -13.967 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 4
+ATOM 7352 H HA3 . GLY E 1 37 ? -6.466 6.350 -15.139 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 4
+ATOM 7353 N N . GLY E 1 38 ? -8.245 3.727 -14.871 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 4
+ATOM 7354 C CA . GLY E 1 38 ? -9.435 3.026 -15.323 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 4
+ATOM 7355 C C . GLY E 1 38 ? -10.689 3.873 -15.097 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 4
+ATOM 7356 O O . GLY E 1 38 ? -10.971 4.283 -13.972 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 4
+ATOM 7357 H H . GLY E 1 38 ? -7.937 3.487 -13.950 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 4
+ATOM 7358 H HA2 . GLY E 1 38 ? -9.339 2.787 -16.382 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 4
+ATOM 7359 H HA3 . GLY E 1 38 ? -9.529 2.081 -14.790 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 4
+ATOM 7360 N N . VAL E 1 39 ? -11.408 4.110 -16.184 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 4
+ATOM 7361 C CA . VAL E 1 39 ? -12.625 4.901 -16.119 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 4
+ATOM 7362 C C . VAL E 1 39 ? -13.805 4.053 -16.597 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 4
+ATOM 7363 O O . VAL E 1 39 ? -13.797 3.548 -17.718 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 4
+ATOM 7364 C CB . VAL E 1 39 ? -12.454 6.193 -16.921 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 4
+ATOM 7365 C CG1 . VAL E 1 39 ? -13.765 6.979 -16.980 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 4
+ATOM 7366 C CG2 . VAL E 1 39 ? -11.326 7.051 -16.344 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 4
+ATOM 7367 H H . VAL E 1 39 ? -11.171 3.774 -17.096 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 4
+ATOM 7368 H HA . VAL E 1 39 ? -12.786 5.171 -15.075 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 4
+ATOM 7369 H HB . VAL E 1 39 ? -12.180 5.921 -17.940 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 4
+ATOM 7370 H HG11 . VAL E 1 39 ? -14.241 6.966 -16.000 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 4
+ATOM 7371 H HG12 . VAL E 1 39 ? -13.558 8.009 -17.270 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 4
+ATOM 7372 H HG13 . VAL E 1 39 ? -14.430 6.522 -17.713 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 4
+ATOM 7373 H HG21 . VAL E 1 39 ? -11.106 7.870 -17.029 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 4
+ATOM 7374 H HG22 . VAL E 1 39 ? -11.634 7.455 -15.380 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 4
+ATOM 7375 H HG23 . VAL E 1 39 ? -10.434 6.438 -16.213 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 4
+ATOM 7376 N N . VAL E 1 40 ? -14.792 3.922 -15.722 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 4
+ATOM 7377 C CA . VAL E 1 40 ? -15.976 3.144 -16.040 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 4
+ATOM 7378 C C . VAL E 1 40 ? -17.211 3.847 -15.474 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 4
+ATOM 7379 O O . VAL E 1 40 ? -17.362 3.962 -14.258 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 4
+ATOM 7380 C CB . VAL E 1 40 ? -15.815 1.712 -15.526 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 4
+ATOM 7381 C CG1 . VAL E 1 40 ? -14.890 1.667 -14.309 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 4
+ATOM 7382 C CG2 . VAL E 1 40 ? -17.175 1.089 -15.204 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 4
+ATOM 7383 H H . VAL E 1 40 ? -14.790 4.336 -14.812 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 4
+ATOM 7384 H HA . VAL E 1 40 ? -16.062 3.105 -17.126 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 4
+ATOM 7385 H HB . VAL E 1 40 ? -15.356 1.121 -16.318 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 4
+ATOM 7386 H HG11 . VAL E 1 40 ? -13.857 1.565 -14.641 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 4
+ATOM 7387 H HG12 . VAL E 1 40 ? -14.997 2.589 -13.736 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 4
+ATOM 7388 H HG13 . VAL E 1 40 ? -15.155 0.817 -13.681 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 4
+ATOM 7389 H HG21 . VAL E 1 40 ? -17.034 0.062 -14.866 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 4
+ATOM 7390 H HG22 . VAL E 1 40 ? -17.662 1.666 -14.418 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 4
+ATOM 7391 H HG23 . VAL E 1 40 ? -17.799 1.095 -16.098 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 4
+ATOM 7392 N N . ILE E 1 41 ? -18.063 4.301 -16.381 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 4
+ATOM 7393 C CA . ILE E 1 41 ? -19.280 4.990 -15.987 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 4
+ATOM 7394 C C . ILE E 1 41 ? -20.491 4.138 -16.372 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 4
+ATOM 7395 O O . ILE E 1 41 ? -20.533 3.568 -17.461 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 4
+ATOM 7396 C CB . ILE E 1 41 ? -19.310 6.402 -16.575 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 4
+ATOM 7397 C CG1 . ILE E 1 41 ? -18.430 7.353 -15.762 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 4
+ATOM 7398 C CG2 . ILE E 1 41 ? -20.747 6.915 -16.698 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 4
+ATOM 7399 C CD1 . ILE E 1 41 ? -17.644 8.292 -16.680 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 4
+ATOM 7400 H H . ILE E 1 41 ? -17.933 4.203 -17.368 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 4
+ATOM 7401 H HA . ILE E 1 41 ? -19.261 5.093 -14.902 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 4
+ATOM 7402 H HB . ILE E 1 41 ? -18.896 6.362 -17.582 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 4
+ATOM 7403 H HG12 . ILE E 1 41 ? -19.050 7.938 -15.083 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 4
+ATOM 7404 H HG13 . ILE E 1 41 ? -17.738 6.778 -15.146 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 4
+ATOM 7405 H HG21 . ILE E 1 41 ? -20.742 7.899 -17.165 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 4
+ATOM 7406 H HG22 . ILE E 1 41 ? -21.328 6.225 -17.309 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 4
+ATOM 7407 H HG23 . ILE E 1 41 ? -21.193 6.985 -15.706 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 4
+ATOM 7408 H HD11 . ILE E 1 41 ? -17.484 7.808 -17.644 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 4
+ATOM 7409 H HD12 . ILE E 1 41 ? -18.206 9.214 -16.825 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 4
+ATOM 7410 H HD13 . ILE E 1 41 ? -16.680 8.522 -16.225 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 4
+ATOM 7411 N N . ALA E 1 42 ? -21.447 4.078 -15.457 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 4
+ATOM 7412 C CA . ALA E 1 42 ? -22.656 3.305 -15.686 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 4
+ATOM 7413 C C . ALA E 1 42 ? -23.865 4.242 -15.675 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 4
+ATOM 7414 O O . ALA E 1 42 ? -24.501 4.428 -14.639 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 4
+ATOM 7415 C CB . ALA E 1 42 ? -22.764 2.201 -14.633 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 4
+ATOM 7416 H H . ALA E 1 42 ? -21.406 4.545 -14.573 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 4
+ATOM 7417 H HA . ALA E 1 42 ? -22.573 2.844 -16.671 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 4
+ATOM 7418 H HB1 . ALA E 1 42 ? -21.807 1.687 -14.545 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 4
+ATOM 7419 H HB2 . ALA E 1 42 ? -23.030 2.641 -13.671 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 4
+ATOM 7420 H HB3 . ALA E 1 42 ? -23.533 1.488 -14.931 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 4
+ATOM 7421 N N . LEU A 1 17 ? -15.847 -3.599 -2.657 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 5
+ATOM 7422 C CA . LEU A 1 17 ? -14.614 -2.868 -2.892 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 5
+ATOM 7423 C C . LEU A 1 17 ? -13.445 -3.636 -2.271 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 5
+ATOM 7424 O O . LEU A 1 17 ? -13.136 -3.459 -1.094 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 5
+ATOM 7425 C CB . LEU A 1 17 ? -14.740 -1.429 -2.388 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 5
+ATOM 7426 C CG . LEU A 1 17 ? -15.021 -0.368 -3.454 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 5
+ATOM 7427 C CD1 . LEU A 1 17 ? -13.719 0.156 -4.063 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 5
+ATOM 7428 C CD2 . LEU A 1 17 ? -15.978 -0.902 -4.521 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 5
+ATOM 7429 H H . LEU A 1 17 ? -16.417 -3.737 -3.468 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 5
+ATOM 7430 H HA . LEU A 1 17 ? -14.462 -2.820 -3.970 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 5
+ATOM 7431 H HB2 . LEU A 1 17 ? -15.539 -1.393 -1.648 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 5
+ATOM 7432 H HB3 . LEU A 1 17 ? -13.817 -1.163 -1.873 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 5
+ATOM 7433 H HG . LEU A 1 17 ? -15.514 0.477 -2.973 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 5
+ATOM 7434 H HD11 . LEU A 1 17 ? -13.243 -0.637 -4.639 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 5
+ATOM 7435 H HD12 . LEU A 1 17 ? -13.937 1.000 -4.717 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 5
+ATOM 7436 H HD13 . LEU A 1 17 ? -13.049 0.478 -3.266 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 5
+ATOM 7437 H HD21 . LEU A 1 17 ? -16.784 -0.186 -4.678 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 5
+ATOM 7438 H HD22 . LEU A 1 17 ? -15.436 -1.049 -5.455 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 5
+ATOM 7439 H HD23 . LEU A 1 17 ? -16.396 -1.853 -4.190 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 5
+ATOM 7440 N N . VAL A 1 18 ? -12.827 -4.474 -3.091 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 5
+ATOM 7441 C CA . VAL A 1 18 ? -11.700 -5.270 -2.637 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 5
+ATOM 7442 C C . VAL A 1 18 ? -10.400 -4.642 -3.146 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 5
+ATOM 7443 O O . VAL A 1 18 ? -10.126 -4.660 -4.345 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 5
+ATOM 7444 C CB . VAL A 1 18 ? -11.874 -6.725 -3.080 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 5
+ATOM 7445 C CG1 . VAL A 1 18 ? -10.683 -7.578 -2.639 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 5
+ATOM 7446 C CG2 . VAL A 1 18 ? -13.188 -7.304 -2.553 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 5
+ATOM 7447 H H . VAL A 1 18 ? -13.085 -4.613 -4.047 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 5
+ATOM 7448 H HA . VAL A 1 18 ? -11.698 -5.247 -1.547 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 5
+ATOM 7449 H HB . VAL A 1 18 ? -11.913 -6.741 -4.169 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 5
+ATOM 7450 H HG11 . VAL A 1 18 ? -9.818 -6.936 -2.470 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 5
+ATOM 7451 H HG12 . VAL A 1 18 ? -10.933 -8.101 -1.715 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 5
+ATOM 7452 H HG13 . VAL A 1 18 ? -10.450 -8.305 -3.416 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 5
+ATOM 7453 H HG21 . VAL A 1 18 ? -13.014 -7.784 -1.590 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 5
+ATOM 7454 H HG22 . VAL A 1 18 ? -13.917 -6.502 -2.433 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 5
+ATOM 7455 H HG23 . VAL A 1 18 ? -13.571 -8.039 -3.262 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 5
+ATOM 7456 N N . PHE A 1 19 ? -9.635 -4.102 -2.209 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 5
+ATOM 7457 C CA . PHE A 1 19 ? -8.372 -3.470 -2.547 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 5
+ATOM 7458 C C . PHE A 1 19 ? -7.193 -4.262 -1.978 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 5
+ATOM 7459 O O . PHE A 1 19 ? -7.200 -4.638 -0.807 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 5
+ATOM 7460 C CB . PHE A 1 19 ? -8.386 -2.076 -1.916 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 5
+ATOM 7461 C CG . PHE A 1 19 ? -8.060 -0.946 -2.895 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 5
+ATOM 7462 C CD1 . PHE A 1 19 ? -6.776 -0.741 -3.294 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 5
+ATOM 7463 C CD2 . PHE A 1 19 ? -9.054 -0.147 -3.367 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 5
+ATOM 7464 C CE1 . PHE A 1 19 ? -6.473 0.307 -4.203 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 5
+ATOM 7465 C CE2 . PHE A 1 19 ? -8.752 0.901 -4.276 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 5
+ATOM 7466 C CZ . PHE A 1 19 ? -7.468 1.106 -4.675 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 5
+ATOM 7467 H H . PHE A 1 19 ? -9.866 -4.091 -1.236 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 5
+ATOM 7468 H HA . PHE A 1 19 ? -8.302 -3.448 -3.634 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 5
+ATOM 7469 H HB2 . PHE A 1 19 ? -9.369 -1.894 -1.482 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 5
+ATOM 7470 H HB3 . PHE A 1 19 ? -7.667 -2.051 -1.097 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 5
+ATOM 7471 H HD1 . PHE A 1 19 ? -5.979 -1.382 -2.916 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 5
+ATOM 7472 H HD2 . PHE A 1 19 ? -10.083 -0.311 -3.047 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 5
+ATOM 7473 H HE1 . PHE A 1 19 ? -5.444 0.471 -4.523 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 5
+ATOM 7474 H HE2 . PHE A 1 19 ? -9.548 1.542 -4.654 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 5
+ATOM 7475 H HZ . PHE A 1 19 ? -7.235 1.911 -5.372 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 5
+ATOM 7476 N N . PHE A 1 20 ? -6.208 -4.492 -2.834 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 5
+ATOM 7477 C CA . PHE A 1 20 ? -5.024 -5.232 -2.431 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 5
+ATOM 7478 C C . PHE A 1 20 ? -3.753 -4.564 -2.959 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 5
+ATOM 7479 O O . PHE A 1 20 ? -3.691 -4.172 -4.123 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 5
+ATOM 7480 C CB . PHE A 1 20 ? -5.142 -6.630 -3.042 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 5
+ATOM 7481 C CG . PHE A 1 20 ? -4.498 -7.733 -2.201 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 5
+ATOM 7482 C CD1 . PHE A 1 20 ? -3.146 -7.777 -2.056 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 5
+ATOM 7483 C CD2 . PHE A 1 20 ? -5.277 -8.671 -1.597 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 5
+ATOM 7484 C CE1 . PHE A 1 20 ? -2.548 -8.801 -1.274 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 5
+ATOM 7485 C CE2 . PHE A 1 20 ? -4.679 -9.695 -0.816 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 5
+ATOM 7486 C CZ . PHE A 1 20 ? -3.327 -9.738 -0.671 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 5
+ATOM 7487 H H . PHE A 1 20 ? -6.210 -4.183 -3.785 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 5
+ATOM 7488 H HA . PHE A 1 20 ? -5.003 -5.241 -1.342 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 5
+ATOM 7489 H HB2 . PHE A 1 20 ? -6.197 -6.866 -3.185 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 5
+ATOM 7490 H HB3 . PHE A 1 20 ? -4.680 -6.624 -4.030 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 5
+ATOM 7491 H HD1 . PHE A 1 20 ? -2.522 -7.025 -2.539 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 5
+ATOM 7492 H HD2 . PHE A 1 20 ? -6.360 -8.636 -1.713 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 5
+ATOM 7493 H HE1 . PHE A 1 20 ? -1.465 -8.835 -1.158 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 5
+ATOM 7494 H HE2 . PHE A 1 20 ? -5.303 -10.446 -0.332 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 5
+ATOM 7495 H HZ . PHE A 1 20 ? -2.868 -10.524 -0.071 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 5
+ATOM 7496 N N . ALA A 1 21 ? -2.771 -4.454 -2.077 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 5
+ATOM 7497 C CA . ALA A 1 21 ? -1.505 -3.839 -2.439 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 5
+ATOM 7498 C C . ALA A 1 21 ? -0.360 -4.616 -1.785 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 5
+ATOM 7499 O O . ALA A 1 21 ? -0.259 -4.665 -0.560 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 5
+ATOM 7500 C CB . ALA A 1 21 ? -1.518 -2.365 -2.030 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 5
+ATOM 7501 H H . ALA A 1 21 ? -2.830 -4.776 -1.132 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 5
+ATOM 7502 H HA . ALA A 1 21 ? -1.403 -3.903 -3.522 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 5
+ATOM 7503 H HB1 . ALA A 1 21 ? -1.804 -2.281 -0.982 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 5
+ATOM 7504 H HB2 . ALA A 1 21 ? -0.524 -1.941 -2.170 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 5
+ATOM 7505 H HB3 . ALA A 1 21 ? -2.234 -1.823 -2.647 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 5
+ATOM 7506 N N . GLU A 1 22 ? 0.473 -5.204 -2.631 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 5
+ATOM 7507 C CA . GLU A 1 22 ? 1.606 -5.975 -2.150 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 5
+ATOM 7508 C C . GLU A 1 22 ? 2.867 -5.613 -2.937 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 5
+ATOM 7509 O O . GLU A 1 22 ? 2.808 -5.398 -4.147 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 5
+ATOM 7510 C CB . GLU A 1 22 ? 1.322 -7.476 -2.231 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 5
+ATOM 7511 C CG . GLU A 1 22 ? 1.565 -8.155 -0.882 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 5
+ATOM 7512 C CD . GLU A 1 22 ? 1.566 -9.678 -1.026 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 5
+ATOM 7513 O OE1 . GLU A 1 22 ? 0.755 -10.171 -1.839 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 5
+ATOM 7514 O OE2 . GLU A 1 22 ? 2.377 -10.314 -0.319 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 5
+ATOM 7515 H H . GLU A 1 22 ? 0.383 -5.159 -3.626 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 5
+ATOM 7516 H HA . GLU A 1 22 ? 1.728 -5.691 -1.105 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 5
+ATOM 7517 H HB2 . GLU A 1 22 ? 0.290 -7.638 -2.543 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 5
+ATOM 7518 H HB3 . GLU A 1 22 ? 1.958 -7.931 -2.991 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 5
+ATOM 7519 H HG2 . GLU A 1 22 ? 2.519 -7.824 -0.471 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 5
+ATOM 7520 H HG3 . GLU A 1 22 ? 0.793 -7.853 -0.174 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 5
+ATOM 7521 N N . ASP A 1 23 ? 3.979 -5.557 -2.219 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 5
+ATOM 7522 C CA . ASP A 1 23 ? 5.252 -5.225 -2.835 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 5
+ATOM 7523 C C . ASP A 1 23 ? 6.349 -6.110 -2.240 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 5
+ATOM 7524 O O . ASP A 1 23 ? 6.654 -6.012 -1.052 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 5
+ATOM 7525 C CB . ASP A 1 23 ? 5.627 -3.765 -2.572 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 5
+ATOM 7526 C CG . ASP A 1 23 ? 7.030 -3.365 -3.033 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 5
+ATOM 7527 O OD1 . ASP A 1 23 ? 7.435 -3.854 -4.109 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 5
+ATOM 7528 O OD2 . ASP A 1 23 ? 7.666 -2.578 -2.298 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 5
+ATOM 7529 H H . ASP A 1 23 ? 4.019 -5.734 -1.236 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 5
+ATOM 7530 H HA . ASP A 1 23 ? 5.109 -5.400 -3.902 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 5
+ATOM 7531 H HB2 . ASP A 1 23 ? 4.900 -3.123 -3.069 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 5
+ATOM 7532 H HB3 . ASP A 1 23 ? 5.544 -3.572 -1.502 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 5
+ATOM 7533 N N . VAL A 1 24 ? 6.912 -6.954 -3.092 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 5
+ATOM 7534 C CA . VAL A 1 24 ? 7.968 -7.856 -2.664 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 5
+ATOM 7535 C C . VAL A 1 24 ? 9.298 -7.100 -2.637 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 5
+ATOM 7536 O O . VAL A 1 24 ? 9.775 -6.638 -3.672 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 5
+ATOM 7537 C CB . VAL A 1 24 ? 8.000 -9.090 -3.568 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 5
+ATOM 7538 C CG1 . VAL A 1 24 ? 8.861 -10.196 -2.955 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 5
+ATOM 7539 C CG2 . VAL A 1 24 ? 6.585 -9.594 -3.859 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 5
+ATOM 7540 H H . VAL A 1 24 ? 6.658 -7.028 -4.056 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 5
+ATOM 7541 H HA . VAL A 1 24 ? 7.730 -8.185 -1.653 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 5
+ATOM 7542 H HB . VAL A 1 24 ? 8.453 -8.799 -4.516 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 5
+ATOM 7543 H HG11 . VAL A 1 24 ? 8.246 -11.078 -2.776 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 5
+ATOM 7544 H HG12 . VAL A 1 24 ? 9.669 -10.450 -3.642 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 5
+ATOM 7545 H HG13 . VAL A 1 24 ? 9.282 -9.848 -2.012 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 5
+ATOM 7546 H HG21 . VAL A 1 24 ? 5.914 -9.272 -3.062 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 5
+ATOM 7547 H HG22 . VAL A 1 24 ? 6.242 -9.186 -4.809 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 5
+ATOM 7548 H HG23 . VAL A 1 24 ? 6.591 -10.683 -3.911 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 5
+ATOM 7549 N N . GLY A 1 25 ? 9.859 -6.998 -1.441 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 5
+ATOM 7550 C CA . GLY A 1 25 ? 11.125 -6.306 -1.265 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 5
+ATOM 7551 C C . GLY A 1 25 ? 12.217 -7.270 -0.798 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 5
+ATOM 7552 O O . GLY A 1 25 ? 12.483 -7.380 0.398 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 5
+ATOM 7553 H H . GLY A 1 25 ? 9.465 -7.377 -0.604 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 5
+ATOM 7554 H HA2 . GLY A 1 25 ? 11.423 -5.841 -2.205 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 5
+ATOM 7555 H HA3 . GLY A 1 25 ? 11.007 -5.504 -0.536 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 5
+ATOM 7556 N N . SER A 1 26 ? 12.819 -7.945 -1.766 1.00 0.00 ? ? ? ? ? ? 26 SER A N 5
+ATOM 7557 C CA . SER A 1 26 ? 13.876 -8.897 -1.469 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 5
+ATOM 7558 C C . SER A 1 26 ? 15.206 -8.163 -1.290 1.00 0.00 ? ? ? ? ? ? 26 SER A C 5
+ATOM 7559 O O . SER A 1 26 ? 15.964 -8.003 -2.245 1.00 0.00 ? ? ? ? ? ? 26 SER A O 5
+ATOM 7560 C CB . SER A 1 26 ? 13.995 -9.950 -2.572 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 5
+ATOM 7561 O OG . SER A 1 26 ? 12.933 -10.899 -2.522 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 5
+ATOM 7562 H H . SER A 1 26 ? 12.596 -7.850 -2.736 1.00 0.00 ? ? ? ? ? ? 26 SER A H 5
+ATOM 7563 H HA . SER A 1 26 ? 13.577 -9.379 -0.538 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 5
+ATOM 7564 H HB2 . SER A 1 26 ? 13.995 -9.458 -3.545 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 5
+ATOM 7565 H HB3 . SER A 1 26 ? 14.949 -10.468 -2.478 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 5
+ATOM 7566 H HG . SER A 1 26 ? 13.301 -11.827 -2.577 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 5
+ATOM 7567 N N . ASN A 1 27 ? 15.449 -7.736 -0.060 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 5
+ATOM 7568 C CA . ASN A 1 27 ? 16.675 -7.022 0.256 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 5
+ATOM 7569 C C . ASN A 1 27 ? 16.546 -5.568 -0.201 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 5
+ATOM 7570 O O . ASN A 1 27 ? 17.459 -5.025 -0.822 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 5
+ATOM 7571 C CB . ASN A 1 27 ? 17.874 -7.640 -0.465 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 5
+ATOM 7572 C CG . ASN A 1 27 ? 19.148 -7.502 0.371 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 5
+ATOM 7573 O OD1 . ASN A 1 27 ? 19.211 -7.897 1.523 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 5
+ATOM 7574 N ND2 . ASN A 1 27 ? 20.156 -6.921 -0.272 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 5
+ATOM 7575 H H . ASN A 1 27 ? 14.827 -7.870 0.712 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 5
+ATOM 7576 H HA . ASN A 1 27 ? 16.787 -7.111 1.337 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 5
+ATOM 7577 H HB2 . ASN A 1 27 ? 17.679 -8.694 -0.666 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 5
+ATOM 7578 H HB3 . ASN A 1 27 ? 18.013 -7.153 -1.430 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 5
+ATOM 7579 H HD21 . ASN A 1 27 ? 20.039 -6.619 -1.219 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 5
+ATOM 7580 H HD22 . ASN A 1 27 ? 21.033 -6.785 0.190 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 5
+ATOM 7581 N N . LYS A 1 28 ? 15.405 -4.978 0.123 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 5
+ATOM 7582 C CA . LYS A 1 28 ? 15.144 -3.597 -0.247 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 5
+ATOM 7583 C C . LYS A 1 28 ? 16.102 -2.680 0.516 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 5
+ATOM 7584 O O . LYS A 1 28 ? 16.898 -3.147 1.329 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 5
+ATOM 7585 C CB . LYS A 1 28 ? 13.668 -3.255 -0.038 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 5
+ATOM 7586 C CG . LYS A 1 28 ? 13.389 -2.905 1.426 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 5
+ATOM 7587 C CD . LYS A 1 28 ? 11.921 -3.155 1.779 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 5
+ATOM 7588 C CE . LYS A 1 28 ? 11.444 -2.183 2.859 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 5
+ATOM 7589 N NZ . LYS A 1 28 ? 11.463 -2.835 4.188 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 5
+ATOM 7590 H H . LYS A 1 28 ? 14.667 -5.426 0.628 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 5
+ATOM 7591 H HA . LYS A 1 28 ? 15.349 -3.501 -1.314 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 5
+ATOM 7592 H HB2 . LYS A 1 28 ? 13.390 -2.416 -0.675 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 5
+ATOM 7593 H HB3 . LYS A 1 28 ? 13.049 -4.101 -0.337 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 5
+ATOM 7594 H HG2 . LYS A 1 28 ? 14.029 -3.502 2.075 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 5
+ATOM 7595 H HG3 . LYS A 1 28 ? 13.637 -1.860 1.607 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 5
+ATOM 7596 H HD2 . LYS A 1 28 ? 11.304 -3.044 0.886 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 5
+ATOM 7597 H HD3 . LYS A 1 28 ? 11.796 -4.181 2.126 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 5
+ATOM 7598 H HE2 . LYS A 1 28 ? 12.084 -1.301 2.871 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 5
+ATOM 7599 H HE3 . LYS A 1 28 ? 10.435 -1.841 2.630 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 5
+ATOM 7600 H HZ1 . LYS A 1 28 ? 10.532 -2.882 4.549 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 5
+ATOM 7601 H HZ2 . LYS A 1 28 ? 11.834 -3.759 4.100 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 5
+ATOM 7602 H HZ3 . LYS A 1 28 ? 12.036 -2.303 4.812 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 5
+ATOM 7603 N N . GLY A 1 29 ? 15.994 -1.392 0.226 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 5
+ATOM 7604 C CA . GLY A 1 29 ? 16.841 -0.405 0.874 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 5
+ATOM 7605 C C . GLY A 1 29 ? 16.548 1.001 0.346 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 5
+ATOM 7606 O O . GLY A 1 29 ? 15.803 1.162 -0.620 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 5
+ATOM 7607 H H . GLY A 1 29 ? 15.344 -1.020 -0.437 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 5
+ATOM 7608 H HA2 . GLY A 1 29 ? 16.679 -0.434 1.952 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 5
+ATOM 7609 H HA3 . GLY A 1 29 ? 17.889 -0.651 0.703 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 5
+ATOM 7610 N N . ALA A 1 30 ? 17.148 1.982 1.003 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 5
+ATOM 7611 C CA . ALA A 1 30 ? 16.961 3.369 0.612 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 5
+ATOM 7612 C C . ALA A 1 30 ? 15.671 3.902 1.239 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 5
+ATOM 7613 O O . ALA A 1 30 ? 15.188 3.358 2.230 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 5
+ATOM 7614 C CB . ALA A 1 30 ? 16.954 3.472 -0.914 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 5
+ATOM 7615 H H . ALA A 1 30 ? 17.752 1.842 1.788 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 5
+ATOM 7616 H HA . ALA A 1 30 ? 17.806 3.940 0.998 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 5
+ATOM 7617 H HB1 . ALA A 1 30 ? 17.419 4.411 -1.217 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 5
+ATOM 7618 H HB2 . ALA A 1 30 ? 17.512 2.637 -1.338 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 5
+ATOM 7619 H HB3 . ALA A 1 30 ? 15.926 3.443 -1.276 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 5
+ATOM 7620 N N . ILE A 1 31 ? 15.150 4.959 0.634 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 5
+ATOM 7621 C CA . ILE A 1 31 ? 13.925 5.571 1.121 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 5
+ATOM 7622 C C . ILE A 1 31 ? 12.736 5.018 0.333 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 5
+ATOM 7623 O O . ILE A 1 31 ? 12.750 5.013 -0.897 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 5
+ATOM 7624 C CB . ILE A 1 31 ? 14.035 7.097 1.078 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 5
+ATOM 7625 C CG1 . ILE A 1 31 ? 12.900 7.751 1.868 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 5
+ATOM 7626 C CG2 . ILE A 1 31 ? 14.095 7.602 -0.365 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 5
+ATOM 7627 C CD1 . ILE A 1 31 ? 11.794 8.243 0.933 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 5
+ATOM 7628 H H . ILE A 1 31 ? 15.549 5.396 -0.172 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 5
+ATOM 7629 H HA . ILE A 1 31 ? 13.810 5.286 2.166 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 5
+ATOM 7630 H HB . ILE A 1 31 ? 14.970 7.385 1.559 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 5
+ATOM 7631 H HG12 . ILE A 1 31 ? 12.488 7.035 2.579 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 5
+ATOM 7632 H HG13 . ILE A 1 31 ? 13.290 8.587 2.448 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 5
+ATOM 7633 H HG21 . ILE A 1 31 ? 14.886 7.079 -0.901 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 5
+ATOM 7634 H HG22 . ILE A 1 31 ? 13.139 7.415 -0.855 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 5
+ATOM 7635 H HG23 . ILE A 1 31 ? 14.300 8.672 -0.367 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 5
+ATOM 7636 H HD11 . ILE A 1 31 ? 12.192 9.013 0.272 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 5
+ATOM 7637 H HD12 . ILE A 1 31 ? 11.424 7.409 0.337 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 5
+ATOM 7638 H HD13 . ILE A 1 31 ? 10.977 8.658 1.523 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 5
+ATOM 7639 N N . ILE A 1 32 ? 11.736 4.565 1.074 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 5
+ATOM 7640 C CA . ILE A 1 32 ? 10.541 4.011 0.461 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 5
+ATOM 7641 C C . ILE A 1 32 ? 9.309 4.478 1.240 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 5
+ATOM 7642 O O . ILE A 1 32 ? 8.997 3.934 2.298 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 5
+ATOM 7643 C CB . ILE A 1 32 ? 10.655 2.490 0.344 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 5
+ATOM 7644 C CG1 . ILE A 1 32 ? 9.272 1.843 0.236 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 5
+ATOM 7645 C CG2 . ILE A 1 32 ? 11.470 1.911 1.502 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 5
+ATOM 7646 C CD1 . ILE A 1 32 ? 9.349 0.505 -0.502 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 5
+ATOM 7647 H H . ILE A 1 32 ? 11.732 4.573 2.074 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 5
+ATOM 7648 H HA . ILE A 1 32 ? 10.480 4.408 -0.552 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 5
+ATOM 7649 H HB . ILE A 1 32 ? 11.191 2.257 -0.575 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 5
+ATOM 7650 H HG12 . ILE A 1 32 ? 8.860 1.690 1.234 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 5
+ATOM 7651 H HG13 . ILE A 1 32 ? 8.593 2.514 -0.289 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 5
+ATOM 7652 H HG21 . ILE A 1 32 ? 12.516 2.192 1.386 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 5
+ATOM 7653 H HG22 . ILE A 1 32 ? 11.090 2.303 2.446 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 5
+ATOM 7654 H HG23 . ILE A 1 32 ? 11.383 0.824 1.500 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 5
+ATOM 7655 H HD11 . ILE A 1 32 ? 9.067 -0.300 0.177 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 5
+ATOM 7656 H HD12 . ILE A 1 32 ? 8.666 0.519 -1.351 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 5
+ATOM 7657 H HD13 . ILE A 1 32 ? 10.367 0.343 -0.856 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 5
+ATOM 7658 N N . GLY A 1 33 ? 8.643 5.480 0.686 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 5
+ATOM 7659 C CA . GLY A 1 33 ? 7.452 6.026 1.315 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 5
+ATOM 7660 C C . GLY A 1 33 ? 6.226 5.163 1.011 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 5
+ATOM 7661 O O . GLY A 1 33 ? 6.035 4.729 -0.124 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 5
+ATOM 7662 H H . GLY A 1 33 ? 8.903 5.916 -0.175 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 5
+ATOM 7663 H HA2 . GLY A 1 33 ? 7.601 6.085 2.393 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 5
+ATOM 7664 H HA3 . GLY A 1 33 ? 7.283 7.043 0.961 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 5
+ATOM 7665 N N . LEU A 1 34 ? 5.428 4.939 2.044 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 5
+ATOM 7666 C CA . LEU A 1 34 ? 4.226 4.136 1.902 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 5
+ATOM 7667 C C . LEU A 1 34 ? 3.046 4.875 2.536 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 5
+ATOM 7668 O O . LEU A 1 34 ? 2.830 4.784 3.744 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 5
+ATOM 7669 C CB . LEU A 1 34 ? 4.449 2.732 2.468 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 5
+ATOM 7670 C CG . LEU A 1 34 ? 4.679 1.623 1.439 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 5
+ATOM 7671 C CD1 . LEU A 1 34 ? 5.712 0.614 1.943 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 5
+ATOM 7672 C CD2 . LEU A 1 34 ? 3.361 0.950 1.054 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 5
+ATOM 7673 H H . LEU A 1 34 ? 5.591 5.296 2.964 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 5
+ATOM 7674 H HA . LEU A 1 34 ? 4.031 4.026 0.835 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 5
+ATOM 7675 H HB2 . LEU A 1 34 ? 5.309 2.764 3.137 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 5
+ATOM 7676 H HB3 . LEU A 1 34 ? 3.584 2.465 3.074 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 5
+ATOM 7677 H HG . LEU A 1 34 ? 5.086 2.075 0.535 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 5
+ATOM 7678 H HD11 . LEU A 1 34 ? 6.638 0.728 1.379 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 5
+ATOM 7679 H HD12 . LEU A 1 34 ? 5.907 0.791 3.001 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 5
+ATOM 7680 H HD13 . LEU A 1 34 ? 5.328 -0.398 1.810 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 5
+ATOM 7681 H HD21 . LEU A 1 34 ? 3.293 -0.023 1.541 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 5
+ATOM 7682 H HD22 . LEU A 1 34 ? 2.527 1.575 1.374 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 5
+ATOM 7683 H HD23 . LEU A 1 34 ? 3.322 0.818 -0.027 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 5
+ATOM 7684 N N . MET A 1 35 ? 2.313 5.588 1.694 1.00 0.00 ? ? ? ? ? ? 35 MET A N 5
+ATOM 7685 C CA . MET A 1 35 ? 1.161 6.342 2.158 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 5
+ATOM 7686 C C . MET A 1 35 ? -0.144 5.652 1.754 1.00 0.00 ? ? ? ? ? ? 35 MET A C 5
+ATOM 7687 O O . MET A 1 35 ? -0.403 5.453 0.568 1.00 0.00 ? ? ? ? ? ? 35 MET A O 5
+ATOM 7688 C CB . MET A 1 35 ? 1.199 7.751 1.563 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 5
+ATOM 7689 C CG . MET A 1 35 ? 1.972 8.709 2.472 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 5
+ATOM 7690 S SD . MET A 1 35 ? 2.877 9.889 1.486 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 5
+ATOM 7691 C CE . MET A 1 35 ? 2.295 11.412 2.213 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 5
+ATOM 7692 H H . MET A 1 35 ? 2.496 5.656 0.713 1.00 0.00 ? ? ? ? ? ? 35 MET A H 5
+ATOM 7693 H HA . MET A 1 35 ? 1.245 6.367 3.244 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 5
+ATOM 7694 H HB2 . MET A 1 35 ? 1.666 7.721 0.579 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 5
+ATOM 7695 H HB3 . MET A 1 35 ? 0.182 8.118 1.423 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 5
+ATOM 7696 H HG2 . MET A 1 35 ? 1.282 9.230 3.135 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 5
+ATOM 7697 H HG3 . MET A 1 35 ? 2.660 8.148 3.104 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 5
+ATOM 7698 H HE1 . MET A 1 35 ? 1.277 11.275 2.577 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 5
+ATOM 7699 H HE2 . MET A 1 35 ? 2.944 11.689 3.044 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 5
+ATOM 7700 H HE3 . MET A 1 35 ? 2.310 12.202 1.463 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 5
+ATOM 7701 N N . VAL A 1 36 ? -0.930 5.307 2.762 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 5
+ATOM 7702 C CA . VAL A 1 36 ? -2.202 4.644 2.527 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 5
+ATOM 7703 C C . VAL A 1 36 ? -3.334 5.509 3.084 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 5
+ATOM 7704 O O . VAL A 1 36 ? -3.316 5.881 4.257 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 5
+ATOM 7705 C CB . VAL A 1 36 ? -2.176 3.235 3.124 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 5
+ATOM 7706 C CG1 . VAL A 1 36 ? -2.229 3.287 4.653 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 5
+ATOM 7707 C CG2 . VAL A 1 36 ? -3.315 2.381 2.564 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 5
+ATOM 7708 H H . VAL A 1 36 ? -0.712 5.473 3.724 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 5
+ATOM 7709 H HA . VAL A 1 36 ? -2.329 4.551 1.449 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 5
+ATOM 7710 H HB . VAL A 1 36 ? -1.234 2.767 2.838 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 5
+ATOM 7711 H HG11 . VAL A 1 36 ? -1.673 2.445 5.064 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 5
+ATOM 7712 H HG12 . VAL A 1 36 ? -1.786 4.220 5.000 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 5
+ATOM 7713 H HG13 . VAL A 1 36 ? -3.267 3.233 4.982 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 5
+ATOM 7714 H HG21 . VAL A 1 36 ? -4.002 3.015 2.004 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 5
+ATOM 7715 H HG22 . VAL A 1 36 ? -2.905 1.617 1.904 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 5
+ATOM 7716 H HG23 . VAL A 1 36 ? -3.849 1.904 3.386 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 5
+ATOM 7717 N N . GLY A 1 37 ? -4.292 5.804 2.218 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 5
+ATOM 7718 C CA . GLY A 1 37 ? -5.430 6.618 2.609 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 5
+ATOM 7719 C C . GLY A 1 37 ? -6.744 5.975 2.161 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 5
+ATOM 7720 O O . GLY A 1 37 ? -7.015 5.877 0.965 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 5
+ATOM 7721 H H . GLY A 1 37 ? -4.299 5.497 1.266 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 5
+ATOM 7722 H HA2 . GLY A 1 37 ? -5.435 6.747 3.691 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 5
+ATOM 7723 H HA3 . GLY A 1 37 ? -5.339 7.612 2.169 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 5
+ATOM 7724 N N . GLY A 1 38 ? -7.525 5.553 3.145 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 5
+ATOM 7725 C CA . GLY A 1 38 ? -8.804 4.922 2.867 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 5
+ATOM 7726 C C . GLY A 1 38 ? -9.958 5.905 3.079 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 5
+ATOM 7727 O O . GLY A 1 38 ? -10.084 6.499 4.149 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 5
+ATOM 7728 H H . GLY A 1 38 ? -7.297 5.637 4.115 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 5
+ATOM 7729 H HA2 . GLY A 1 38 ? -8.817 4.556 1.841 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 5
+ATOM 7730 H HA3 . GLY A 1 38 ? -8.935 4.057 3.516 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 5
+ATOM 7731 N N . VAL A 1 39 ? -10.770 6.046 2.042 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 5
+ATOM 7732 C CA . VAL A 1 39 ? -11.909 6.946 2.101 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 5
+ATOM 7733 C C . VAL A 1 39 ? -13.159 6.214 1.608 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 5
+ATOM 7734 O O . VAL A 1 39 ? -13.500 6.285 0.429 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 5
+ATOM 7735 C CB . VAL A 1 39 ? -11.611 8.220 1.308 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 5
+ATOM 7736 C CG1 . VAL A 1 39 ? -12.865 9.086 1.169 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 5
+ATOM 7737 C CG2 . VAL A 1 39 ? -10.468 9.009 1.947 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 5
+ATOM 7738 H H . VAL A 1 39 ? -10.661 5.559 1.175 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 5
+ATOM 7739 H HA . VAL A 1 39 ? -12.055 7.225 3.145 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 5
+ATOM 7740 H HB . VAL A 1 39 ? -11.296 7.925 0.307 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 5
+ATOM 7741 H HG11 . VAL A 1 39 ? -13.461 9.010 2.079 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 5
+ATOM 7742 H HG12 . VAL A 1 39 ? -12.574 10.124 1.011 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 5
+ATOM 7743 H HG13 . VAL A 1 39 ? -13.454 8.739 0.320 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 5
+ATOM 7744 H HG21 . VAL A 1 39 ? -10.202 8.555 2.902 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 5
+ATOM 7745 H HG22 . VAL A 1 39 ? -9.602 8.996 1.285 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 5
+ATOM 7746 H HG23 . VAL A 1 39 ? -10.784 10.039 2.111 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 5
+ATOM 7747 N N . VAL A 1 40 ? -13.808 5.526 2.537 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 5
+ATOM 7748 C CA . VAL A 1 40 ? -15.012 4.781 2.212 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 5
+ATOM 7749 C C . VAL A 1 40 ? -16.214 5.441 2.891 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 5
+ATOM 7750 O O . VAL A 1 40 ? -16.354 5.378 4.112 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 5
+ATOM 7751 C CB . VAL A 1 40 ? -14.839 3.311 2.600 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 5
+ATOM 7752 C CG1 . VAL A 1 40 ? -16.105 2.510 2.289 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 5
+ATOM 7753 C CG2 . VAL A 1 40 ? -13.620 2.702 1.906 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 5
+ATOM 7754 H H . VAL A 1 40 ? -13.524 5.474 3.494 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 5
+ATOM 7755 H HA . VAL A 1 40 ? -15.149 4.832 1.132 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 5
+ATOM 7756 H HB . VAL A 1 40 ? -14.670 3.266 3.675 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 5
+ATOM 7757 H HG11 . VAL A 1 40 ? -16.983 3.111 2.525 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 5
+ATOM 7758 H HG12 . VAL A 1 40 ? -16.118 2.248 1.231 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 5
+ATOM 7759 H HG13 . VAL A 1 40 ? -16.115 1.600 2.889 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 5
+ATOM 7760 H HG21 . VAL A 1 40 ? -13.924 1.817 1.347 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 5
+ATOM 7761 H HG22 . VAL A 1 40 ? -13.188 3.432 1.222 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 5
+ATOM 7762 H HG23 . VAL A 1 40 ? -12.878 2.422 2.654 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 5
+ATOM 7763 N N . ILE A 1 41 ? -17.051 6.060 2.071 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 5
+ATOM 7764 C CA . ILE A 1 41 ? -18.236 6.731 2.578 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 5
+ATOM 7765 C C . ILE A 1 41 ? -19.484 6.036 2.029 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 5
+ATOM 7766 O O . ILE A 1 41 ? -19.741 6.073 0.827 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 5
+ATOM 7767 C CB . ILE A 1 41 ? -18.178 8.228 2.266 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 5
+ATOM 7768 C CG1 . ILE A 1 41 ? -16.954 8.877 2.916 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 5
+ATOM 7769 C CG2 . ILE A 1 41 ? -19.479 8.923 2.673 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 5
+ATOM 7770 C CD1 . ILE A 1 41 ? -16.183 9.727 1.904 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 5
+ATOM 7771 H H . ILE A 1 41 ? -16.930 6.107 1.080 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 5
+ATOM 7772 H HA . ILE A 1 41 ? -18.231 6.627 3.663 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 5
+ATOM 7773 H HB . ILE A 1 41 ? -18.073 8.349 1.188 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 5
+ATOM 7774 H HG12 . ILE A 1 41 ? -17.269 9.499 3.753 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 5
+ATOM 7775 H HG13 . ILE A 1 41 ? -16.301 8.104 3.321 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 5
+ATOM 7776 H HG21 . ILE A 1 41 ? -19.285 9.599 3.507 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 5
+ATOM 7777 H HG22 . ILE A 1 41 ? -19.867 9.491 1.828 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 5
+ATOM 7778 H HG23 . ILE A 1 41 ? -20.212 8.175 2.976 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 5
+ATOM 7779 H HD11 . ILE A 1 41 ? -15.977 9.133 1.013 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 5
+ATOM 7780 H HD12 . ILE A 1 41 ? -16.779 10.597 1.631 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 5
+ATOM 7781 H HD13 . ILE A 1 41 ? -15.243 10.055 2.347 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 5
+ATOM 7782 N N . ALA A 1 42 ? -20.226 5.420 2.937 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 5
+ATOM 7783 C CA . ALA A 1 42 ? -21.441 4.717 2.559 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 5
+ATOM 7784 C C . ALA A 1 42 ? -22.655 5.570 2.933 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 5
+ATOM 7785 O O . ALA A 1 42 ? -23.138 5.508 4.062 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 5
+ATOM 7786 C CB . ALA A 1 42 ? -21.465 3.343 3.230 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 5
+ATOM 7787 H H . ALA A 1 42 ? -20.010 5.395 3.913 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 5
+ATOM 7788 H HA . ALA A 1 42 ? -21.422 4.580 1.478 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 5
+ATOM 7789 H HB1 . ALA A 1 42 ? -21.515 2.566 2.467 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 5
+ATOM 7790 H HB2 . ALA A 1 42 ? -20.560 3.211 3.823 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 5
+ATOM 7791 H HB3 . ALA A 1 42 ? -22.338 3.271 3.879 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 5
+ATOM 7792 N N . LEU B 1 17 ? -15.883 -4.574 -6.730 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 5
+ATOM 7793 C CA . LEU B 1 17 ? -14.653 -4.108 -7.348 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 5
+ATOM 7794 C C . LEU B 1 17 ? -13.469 -4.884 -6.767 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 5
+ATOM 7795 O O . LEU B 1 17 ? -13.507 -5.309 -5.613 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 5
+ATOM 7796 C CB . LEU B 1 17 ? -14.523 -2.590 -7.204 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 5
+ATOM 7797 C CG . LEU B 1 17 ? -13.652 -1.890 -8.249 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 5
+ATOM 7798 C CD1 . LEU B 1 17 ? -14.322 -0.609 -8.752 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 5
+ATOM 7799 C CD2 . LEU B 1 17 ? -12.247 -1.626 -7.704 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 5
+ATOM 7800 H H . LEU B 1 17 ? -15.973 -4.362 -5.757 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 5
+ATOM 7801 H HA . LEU B 1 17 ? -14.719 -4.326 -8.414 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 5
+ATOM 7802 H HB2 . LEU B 1 17 ? -15.521 -2.155 -7.241 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 5
+ATOM 7803 H HB3 . LEU B 1 17 ? -14.116 -2.372 -6.217 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 5
+ATOM 7804 H HG . LEU B 1 17 ? -13.545 -2.555 -9.106 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 5
+ATOM 7805 H HD11 . LEU B 1 17 ? -14.771 -0.080 -7.911 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 5
+ATOM 7806 H HD12 . LEU B 1 17 ? -13.576 0.029 -9.226 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 5
+ATOM 7807 H HD13 . LEU B 1 17 ? -15.095 -0.864 -9.476 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 5
+ATOM 7808 H HD21 . LEU B 1 17 ? -12.002 -0.571 -7.827 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 5
+ATOM 7809 H HD22 . LEU B 1 17 ? -12.212 -1.886 -6.646 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 5
+ATOM 7810 H HD23 . LEU B 1 17 ? -11.525 -2.232 -8.251 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 5
+ATOM 7811 N N . VAL B 1 18 ? -12.446 -5.046 -7.593 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 5
+ATOM 7812 C CA . VAL B 1 18 ? -11.254 -5.764 -7.176 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 5
+ATOM 7813 C C . VAL B 1 18 ? -10.014 -5.012 -7.663 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 5
+ATOM 7814 O O . VAL B 1 18 ? -9.662 -5.084 -8.839 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 5
+ATOM 7815 C CB . VAL B 1 18 ? -11.311 -7.209 -7.675 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 5
+ATOM 7816 C CG1 . VAL B 1 18 ? -9.947 -7.889 -7.543 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 5
+ATOM 7817 C CG2 . VAL B 1 18 ? -12.393 -8.001 -6.939 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 5
+ATOM 7818 H H . VAL B 1 18 ? -12.423 -4.698 -8.530 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 5
+ATOM 7819 H HA . VAL B 1 18 ? -11.246 -5.784 -6.086 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 5
+ATOM 7820 H HB . VAL B 1 18 ? -11.573 -7.187 -8.733 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 5
+ATOM 7821 H HG11 . VAL B 1 18 ? -9.455 -7.909 -8.515 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 5
+ATOM 7822 H HG12 . VAL B 1 18 ? -9.331 -7.334 -6.835 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 5
+ATOM 7823 H HG13 . VAL B 1 18 ? -10.083 -8.910 -7.184 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 5
+ATOM 7824 H HG21 . VAL B 1 18 ? -12.961 -8.594 -7.656 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 5
+ATOM 7825 H HG22 . VAL B 1 18 ? -11.925 -8.663 -6.210 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 5
+ATOM 7826 H HG23 . VAL B 1 18 ? -13.063 -7.312 -6.426 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 5
+ATOM 7827 N N . PHE B 1 19 ? -9.386 -4.306 -6.734 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 5
+ATOM 7828 C CA . PHE B 1 19 ? -8.193 -3.541 -7.054 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 5
+ATOM 7829 C C . PHE B 1 19 ? -6.940 -4.218 -6.493 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 5
+ATOM 7830 O O . PHE B 1 19 ? -6.695 -4.177 -5.288 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 5
+ATOM 7831 C CB . PHE B 1 19 ? -8.353 -2.168 -6.399 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 5
+ATOM 7832 C CG . PHE B 1 19 ? -7.629 -1.039 -7.136 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 5
+ATOM 7833 C CD1 . PHE B 1 19 ? -6.270 -0.985 -7.130 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 5
+ATOM 7834 C CD2 . PHE B 1 19 ? -8.344 -0.089 -7.796 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 5
+ATOM 7835 C CE1 . PHE B 1 19 ? -5.598 0.063 -7.813 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 5
+ATOM 7836 C CE2 . PHE B 1 19 ? -7.672 0.958 -8.480 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 5
+ATOM 7837 C CZ . PHE B 1 19 ? -6.314 1.012 -8.474 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 5
+ATOM 7838 H H . PHE B 1 19 ? -9.679 -4.252 -5.779 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 5
+ATOM 7839 H HA . PHE B 1 19 ? -8.121 -3.493 -8.140 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 5
+ATOM 7840 H HB2 . PHE B 1 19 ? -9.414 -1.927 -6.339 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 5
+ATOM 7841 H HB3 . PHE B 1 19 ? -7.979 -2.218 -5.376 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 5
+ATOM 7842 H HD1 . PHE B 1 19 ? -5.697 -1.746 -6.600 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 5
+ATOM 7843 H HD2 . PHE B 1 19 ? -9.434 -0.133 -7.801 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 5
+ATOM 7844 H HE1 . PHE B 1 19 ? -4.509 0.106 -7.808 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 5
+ATOM 7845 H HE2 . PHE B 1 19 ? -8.246 1.719 -9.009 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 5
+ATOM 7846 H HZ . PHE B 1 19 ? -5.798 1.817 -8.999 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 5
+ATOM 7847 N N . PHE B 1 20 ? -6.181 -4.825 -7.393 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 5
+ATOM 7848 C CA . PHE B 1 20 ? -4.960 -5.509 -7.002 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 5
+ATOM 7849 C C . PHE B 1 20 ? -3.729 -4.800 -7.569 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 5
+ATOM 7850 O O . PHE B 1 20 ? -3.639 -4.573 -8.775 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 5
+ATOM 7851 C CB . PHE B 1 20 ? -5.034 -6.922 -7.584 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 5
+ATOM 7852 C CG . PHE B 1 20 ? -4.975 -8.032 -6.533 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 5
+ATOM 7853 C CD1 . PHE B 1 20 ? -3.786 -8.366 -5.963 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 5
+ATOM 7854 C CD2 . PHE B 1 20 ? -6.111 -8.685 -6.169 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 5
+ATOM 7855 C CE1 . PHE B 1 20 ? -3.732 -9.397 -4.987 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 5
+ATOM 7856 C CE2 . PHE B 1 20 ? -6.057 -9.715 -5.193 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 5
+ATOM 7857 C CZ . PHE B 1 20 ? -4.868 -10.049 -4.623 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 5
+ATOM 7858 H H . PHE B 1 20 ? -6.387 -4.853 -8.371 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 5
+ATOM 7859 H HA . PHE B 1 20 ? -4.915 -5.495 -5.913 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 5
+ATOM 7860 H HB2 . PHE B 1 20 ? -5.958 -7.022 -8.152 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 5
+ATOM 7861 H HB3 . PHE B 1 20 ? -4.211 -7.058 -8.287 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 5
+ATOM 7862 H HD1 . PHE B 1 20 ? -2.876 -7.843 -6.254 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 5
+ATOM 7863 H HD2 . PHE B 1 20 ? -7.064 -8.417 -6.626 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 5
+ATOM 7864 H HE1 . PHE B 1 20 ? -2.779 -9.664 -4.530 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 5
+ATOM 7865 H HE2 . PHE B 1 20 ? -6.968 -10.238 -4.901 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 5
+ATOM 7866 H HZ . PHE B 1 20 ? -4.827 -10.840 -3.874 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 5
+ATOM 7867 N N . ALA B 1 21 ? -2.810 -4.470 -6.673 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 5
+ATOM 7868 C CA . ALA B 1 21 ? -1.588 -3.791 -7.069 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 5
+ATOM 7869 C C . ALA B 1 21 ? -0.386 -4.519 -6.463 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 5
+ATOM 7870 O O . ALA B 1 21 ? -0.047 -4.303 -5.301 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 5
+ATOM 7871 C CB . ALA B 1 21 ? -1.657 -2.324 -6.642 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 5
+ATOM 7872 H H . ALA B 1 21 ? -2.891 -4.658 -5.695 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 5
+ATOM 7873 H HA . ALA B 1 21 ? -1.520 -3.838 -8.156 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 5
+ATOM 7874 H HB1 . ALA B 1 21 ? -1.042 -2.174 -5.755 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 5
+ATOM 7875 H HB2 . ALA B 1 21 ? -1.289 -1.692 -7.451 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 5
+ATOM 7876 H HB3 . ALA B 1 21 ? -2.690 -2.059 -6.417 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 5
+ATOM 7877 N N . GLU B 1 22 ? 0.225 -5.366 -7.278 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 5
+ATOM 7878 C CA . GLU B 1 22 ? 1.381 -6.127 -6.837 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 5
+ATOM 7879 C C . GLU B 1 22 ? 2.654 -5.587 -7.493 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 5
+ATOM 7880 O O . GLU B 1 22 ? 2.627 -5.157 -8.645 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 5
+ATOM 7881 C CB . GLU B 1 22 ? 1.202 -7.618 -7.131 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 5
+ATOM 7882 C CG . GLU B 1 22 ? 0.564 -8.339 -5.942 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 5
+ATOM 7883 C CD . GLU B 1 22 ? 1.064 -9.782 -5.844 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 5
+ATOM 7884 O OE1 . GLU B 1 22 ? 2.302 -9.953 -5.817 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 5
+ATOM 7885 O OE2 . GLU B 1 22 ? 0.197 -10.681 -5.797 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 5
+ATOM 7886 H H . GLU B 1 22 ? -0.058 -5.536 -8.222 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 5
+ATOM 7887 H HA . GLU B 1 22 ? 1.431 -5.980 -5.758 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 5
+ATOM 7888 H HB2 . GLU B 1 22 ? 0.578 -7.745 -8.016 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 5
+ATOM 7889 H HB3 . GLU B 1 22 ? 2.170 -8.066 -7.357 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 5
+ATOM 7890 H HG2 . GLU B 1 22 ? 0.798 -7.805 -5.021 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 5
+ATOM 7891 H HG3 . GLU B 1 22 ? -0.521 -8.332 -6.048 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 5
+ATOM 7892 N N . ASP B 1 23 ? 3.737 -5.628 -6.732 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 5
+ATOM 7893 C CA . ASP B 1 23 ? 5.017 -5.148 -7.225 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 5
+ATOM 7894 C C . ASP B 1 23 ? 6.129 -6.076 -6.731 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 5
+ATOM 7895 O O . ASP B 1 23 ? 6.394 -6.149 -5.532 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 5
+ATOM 7896 C CB . ASP B 1 23 ? 5.313 -3.739 -6.709 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 5
+ATOM 7897 C CG . ASP B 1 23 ? 6.733 -3.236 -6.979 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 5
+ATOM 7898 O OD1 . ASP B 1 23 ? 7.486 -3.988 -7.635 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 5
+ATOM 7899 O OD2 . ASP B 1 23 ? 7.033 -2.112 -6.523 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 5
+ATOM 7900 H H . ASP B 1 23 ? 3.750 -5.980 -5.796 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 5
+ATOM 7901 H HA . ASP B 1 23 ? 4.924 -5.150 -8.311 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 5
+ATOM 7902 H HB2 . ASP B 1 23 ? 4.606 -3.046 -7.165 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 5
+ATOM 7903 H HB3 . ASP B 1 23 ? 5.133 -3.716 -5.635 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 5
+ATOM 7904 N N . VAL B 1 24 ? 6.750 -6.761 -7.680 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 5
+ATOM 7905 C CA . VAL B 1 24 ? 7.827 -7.681 -7.356 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 5
+ATOM 7906 C C . VAL B 1 24 ? 9.157 -6.924 -7.363 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 5
+ATOM 7907 O O . VAL B 1 24 ? 9.706 -6.638 -8.426 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 5
+ATOM 7908 C CB . VAL B 1 24 ? 7.809 -8.868 -8.321 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 5
+ATOM 7909 C CG1 . VAL B 1 24 ? 8.882 -9.893 -7.948 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 5
+ATOM 7910 C CG2 . VAL B 1 24 ? 6.424 -9.516 -8.367 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 5
+ATOM 7911 H H . VAL B 1 24 ? 6.528 -6.696 -8.653 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 5
+ATOM 7912 H HA . VAL B 1 24 ? 7.644 -8.060 -6.351 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 5
+ATOM 7913 H HB . VAL B 1 24 ? 8.037 -8.492 -9.318 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 5
+ATOM 7914 H HG11 . VAL B 1 24 ? 8.404 -10.811 -7.605 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 5
+ATOM 7915 H HG12 . VAL B 1 24 ? 9.498 -10.109 -8.822 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 5
+ATOM 7916 H HG13 . VAL B 1 24 ? 9.509 -9.490 -7.153 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 5
+ATOM 7917 H HG21 . VAL B 1 24 ? 6.369 -10.195 -9.218 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 5
+ATOM 7918 H HG22 . VAL B 1 24 ? 6.253 -10.074 -7.446 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 5
+ATOM 7919 H HG23 . VAL B 1 24 ? 5.664 -8.742 -8.471 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 5
+ATOM 7920 N N . GLY B 1 25 ? 9.636 -6.622 -6.165 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 5
+ATOM 7921 C CA . GLY B 1 25 ? 10.891 -5.905 -6.020 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 5
+ATOM 7922 C C . GLY B 1 25 ? 12.019 -6.852 -5.608 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 5
+ATOM 7923 O O . GLY B 1 25 ? 12.034 -7.354 -4.485 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 5
+ATOM 7924 H H . GLY B 1 25 ? 9.183 -6.859 -5.306 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 5
+ATOM 7925 H HA2 . GLY B 1 25 ? 11.146 -5.417 -6.961 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 5
+ATOM 7926 H HA3 . GLY B 1 25 ? 10.780 -5.118 -5.273 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 5
+ATOM 7927 N N . SER B 1 26 ? 12.938 -7.067 -6.538 1.00 0.00 ? ? ? ? ? ? 26 SER B N 5
+ATOM 7928 C CA . SER B 1 26 ? 14.067 -7.945 -6.285 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 5
+ATOM 7929 C C . SER B 1 26 ? 15.337 -7.117 -6.078 1.00 0.00 ? ? ? ? ? ? 26 SER B C 5
+ATOM 7930 O O . SER B 1 26 ? 15.845 -6.508 -7.018 1.00 0.00 ? ? ? ? ? ? 26 SER B O 5
+ATOM 7931 C CB . SER B 1 26 ? 14.262 -8.937 -7.434 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 5
+ATOM 7932 O OG . SER B 1 26 ? 14.340 -10.282 -6.970 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 5
+ATOM 7933 H H . SER B 1 26 ? 12.918 -6.655 -7.449 1.00 0.00 ? ? ? ? ? ? 26 SER B H 5
+ATOM 7934 H HA . SER B 1 26 ? 13.813 -8.489 -5.376 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 5
+ATOM 7935 H HB2 . SER B 1 26 ? 13.435 -8.844 -8.138 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 5
+ATOM 7936 H HB3 . SER B 1 26 ? 15.173 -8.688 -7.978 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 5
+ATOM 7937 H HG . SER B 1 26 ? 14.646 -10.882 -7.710 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 5
+ATOM 7938 N N . ASN B 1 27 ? 15.814 -7.122 -4.842 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 5
+ATOM 7939 C CA . ASN B 1 27 ? 17.014 -6.379 -4.500 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 5
+ATOM 7940 C C . ASN B 1 27 ? 16.848 -4.921 -4.933 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 5
+ATOM 7941 O O . ASN B 1 27 ? 17.703 -4.375 -5.628 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 5
+ATOM 7942 C CB . ASN B 1 27 ? 18.239 -6.949 -5.219 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 5
+ATOM 7943 C CG . ASN B 1 27 ? 19.529 -6.573 -4.488 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 5
+ATOM 7944 O OD1 . ASN B 1 27 ? 20.076 -7.336 -3.708 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 5
+ATOM 7945 N ND2 . ASN B 1 27 ? 19.983 -5.358 -4.781 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 5
+ATOM 7946 H H . ASN B 1 27 ? 15.394 -7.621 -4.083 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 5
+ATOM 7947 H HA . ASN B 1 27 ? 17.118 -6.484 -3.420 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 5
+ATOM 7948 H HB2 . ASN B 1 27 ? 18.155 -8.034 -5.282 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 5
+ATOM 7949 H HB3 . ASN B 1 27 ? 18.273 -6.572 -6.241 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 5
+ATOM 7950 H HD21 . ASN B 1 27 ? 19.485 -4.782 -5.430 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 5
+ATOM 7951 H HD22 . ASN B 1 27 ? 20.821 -5.020 -4.354 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 5
+ATOM 7952 N N . LYS B 1 28 ? 15.741 -4.333 -4.503 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 5
+ATOM 7953 C CA . LYS B 1 28 ? 15.451 -2.949 -4.838 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 5
+ATOM 7954 C C . LYS B 1 28 ? 16.214 -2.028 -3.884 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 5
+ATOM 7955 O O . LYS B 1 28 ? 16.600 -2.441 -2.791 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 5
+ATOM 7956 C CB . LYS B 1 28 ? 13.941 -2.706 -4.851 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 5
+ATOM 7957 C CG . LYS B 1 28 ? 13.381 -2.652 -3.428 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 5
+ATOM 7958 C CD . LYS B 1 28 ? 11.936 -3.154 -3.388 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 5
+ATOM 7959 C CE . LYS B 1 28 ? 10.985 -2.133 -4.016 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 5
+ATOM 7960 N NZ . LYS B 1 28 ? 9.583 -2.594 -3.901 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 5
+ATOM 7961 H H . LYS B 1 28 ? 15.051 -4.784 -3.938 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 5
+ATOM 7962 H HA . LYS B 1 28 ? 15.815 -2.775 -5.851 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 5
+ATOM 7963 H HB2 . LYS B 1 28 ? 13.723 -1.770 -5.367 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 5
+ATOM 7964 H HB3 . LYS B 1 28 ? 13.446 -3.500 -5.411 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 5
+ATOM 7965 H HG2 . LYS B 1 28 ? 14.000 -3.260 -2.768 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 5
+ATOM 7966 H HG3 . LYS B 1 28 ? 13.426 -1.629 -3.054 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 5
+ATOM 7967 H HD2 . LYS B 1 28 ? 11.862 -4.102 -3.920 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 5
+ATOM 7968 H HD3 . LYS B 1 28 ? 11.642 -3.344 -2.356 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 5
+ATOM 7969 H HE2 . LYS B 1 28 ? 11.099 -1.169 -3.522 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 5
+ATOM 7970 H HE3 . LYS B 1 28 ? 11.240 -1.986 -5.065 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 5
+ATOM 7971 H HZ1 . LYS B 1 28 ? 8.980 -1.946 -4.367 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 5
+ATOM 7972 H HZ2 . LYS B 1 28 ? 9.492 -3.496 -4.322 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 5
+ATOM 7973 H HZ3 . LYS B 1 28 ? 9.328 -2.650 -2.935 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 5
+ATOM 7974 N N . GLY B 1 29 ? 16.409 -0.796 -4.331 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 5
+ATOM 7975 C CA . GLY B 1 29 ? 17.118 0.188 -3.530 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 5
+ATOM 7976 C C . GLY B 1 29 ? 17.124 1.554 -4.219 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 5
+ATOM 7977 O O . GLY B 1 29 ? 17.902 1.784 -5.144 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 5
+ATOM 7978 H H . GLY B 1 29 ? 16.092 -0.467 -5.221 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 5
+ATOM 7979 H HA2 . GLY B 1 29 ? 16.648 0.272 -2.551 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 5
+ATOM 7980 H HA3 . GLY B 1 29 ? 18.143 -0.144 -3.364 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 5
+ATOM 7981 N N . ALA B 1 30 ? 16.248 2.425 -3.741 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 5
+ATOM 7982 C CA . ALA B 1 30 ? 16.143 3.763 -4.299 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 5
+ATOM 7983 C C . ALA B 1 30 ? 15.017 4.519 -3.591 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 5
+ATOM 7984 O O . ALA B 1 30 ? 14.376 3.982 -2.689 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 5
+ATOM 7985 C CB . ALA B 1 30 ? 15.922 3.670 -5.810 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 5
+ATOM 7986 H H . ALA B 1 30 ? 15.619 2.231 -2.989 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 5
+ATOM 7987 H HA . ALA B 1 30 ? 17.086 4.276 -4.113 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 5
+ATOM 7988 H HB1 . ALA B 1 30 ? 15.783 2.627 -6.094 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 5
+ATOM 7989 H HB2 . ALA B 1 30 ? 15.035 4.242 -6.084 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 5
+ATOM 7990 H HB3 . ALA B 1 30 ? 16.790 4.075 -6.330 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 5
+ATOM 7991 N N . ILE B 1 31 ? 14.810 5.753 -4.027 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 5
+ATOM 7992 C CA . ILE B 1 31 ? 13.773 6.588 -3.446 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 5
+ATOM 7993 C C . ILE B 1 31 ? 12.451 6.332 -4.173 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 5
+ATOM 7994 O O . ILE B 1 31 ? 12.197 6.912 -5.228 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 5
+ATOM 7995 C CB . ILE B 1 31 ? 14.203 8.057 -3.450 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 5
+ATOM 7996 C CG1 . ILE B 1 31 ? 13.008 8.978 -3.196 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 5
+ATOM 7997 C CG2 . ILE B 1 31 ? 14.935 8.411 -4.746 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 5
+ATOM 7998 C CD1 . ILE B 1 31 ? 13.427 10.448 -3.258 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 5
+ATOM 7999 H H . ILE B 1 31 ? 15.336 6.182 -4.761 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 5
+ATOM 8000 H HA . ILE B 1 31 ? 13.658 6.289 -2.404 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 5
+ATOM 8001 H HB . ILE B 1 31 ? 14.906 8.209 -2.631 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 5
+ATOM 8002 H HG12 . ILE B 1 31 ? 12.232 8.786 -3.938 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 5
+ATOM 8003 H HG13 . ILE B 1 31 ? 12.576 8.760 -2.219 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 5
+ATOM 8004 H HG21 . ILE B 1 31 ? 14.550 7.796 -5.560 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 5
+ATOM 8005 H HG22 . ILE B 1 31 ? 14.774 9.463 -4.978 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 5
+ATOM 8006 H HG23 . ILE B 1 31 ? 16.002 8.224 -4.623 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 5
+ATOM 8007 H HD11 . ILE B 1 31 ? 14.513 10.519 -3.217 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 5
+ATOM 8008 H HD12 . ILE B 1 31 ? 13.069 10.889 -4.188 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 5
+ATOM 8009 H HD13 . ILE B 1 31 ? 12.995 10.985 -2.413 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 5
+ATOM 8010 N N . ILE B 1 32 ? 11.645 5.464 -3.580 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 5
+ATOM 8011 C CA . ILE B 1 32 ? 10.356 5.124 -4.158 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 5
+ATOM 8012 C C . ILE B 1 32 ? 9.244 5.771 -3.330 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 5
+ATOM 8013 O O . ILE B 1 32 ? 9.353 5.871 -2.109 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 5
+ATOM 8014 C CB . ILE B 1 32 ? 10.215 3.607 -4.299 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 5
+ATOM 8015 C CG1 . ILE B 1 32 ? 8.747 3.205 -4.457 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 5
+ATOM 8016 C CG2 . ILE B 1 32 ? 10.886 2.883 -3.130 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 5
+ATOM 8017 C CD1 . ILE B 1 32 ? 8.623 1.815 -5.083 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 5
+ATOM 8018 H H . ILE B 1 32 ? 11.860 4.997 -2.722 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 5
+ATOM 8019 H HA . ILE B 1 32 ? 10.328 5.546 -5.163 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 5
+ATOM 8020 H HB . ILE B 1 32 ? 10.732 3.299 -5.208 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 5
+ATOM 8021 H HG12 . ILE B 1 32 ? 8.258 3.215 -3.483 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 5
+ATOM 8022 H HG13 . ILE B 1 32 ? 8.231 3.936 -5.080 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 5
+ATOM 8023 H HG21 . ILE B 1 32 ? 10.667 1.817 -3.190 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 5
+ATOM 8024 H HG22 . ILE B 1 32 ? 11.964 3.036 -3.179 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 5
+ATOM 8025 H HG23 . ILE B 1 32 ? 10.504 3.281 -2.190 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 5
+ATOM 8026 H HD11 . ILE B 1 32 ? 7.798 1.809 -5.794 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 5
+ATOM 8027 H HD12 . ILE B 1 32 ? 9.550 1.565 -5.599 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 5
+ATOM 8028 H HD13 . ILE B 1 32 ? 8.434 1.080 -4.300 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 5
+ATOM 8029 N N . GLY B 1 33 ? 8.200 6.193 -4.027 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 5
+ATOM 8030 C CA . GLY B 1 33 ? 7.069 6.827 -3.372 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 5
+ATOM 8031 C C . GLY B 1 33 ? 5.772 6.067 -3.657 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 5
+ATOM 8032 O O . GLY B 1 33 ? 5.248 6.122 -4.768 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 5
+ATOM 8033 H H . GLY B 1 33 ? 8.119 6.108 -5.020 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 5
+ATOM 8034 H HA2 . GLY B 1 33 ? 7.242 6.866 -2.296 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 5
+ATOM 8035 H HA3 . GLY B 1 33 ? 6.974 7.857 -3.717 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 5
+ATOM 8036 N N . LEU B 1 34 ? 5.292 5.374 -2.634 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 5
+ATOM 8037 C CA . LEU B 1 34 ? 4.067 4.603 -2.761 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 5
+ATOM 8038 C C . LEU B 1 34 ? 2.902 5.407 -2.181 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 5
+ATOM 8039 O O . LEU B 1 34 ? 2.948 5.830 -1.027 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 5
+ATOM 8040 C CB . LEU B 1 34 ? 4.236 3.221 -2.129 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 5
+ATOM 8041 C CG . LEU B 1 34 ? 4.249 2.037 -3.098 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 5
+ATOM 8042 C CD1 . LEU B 1 34 ? 4.669 0.750 -2.385 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 5
+ATOM 8043 C CD2 . LEU B 1 34 ? 2.898 1.888 -3.800 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 5
+ATOM 8044 H H . LEU B 1 34 ? 5.725 5.335 -1.734 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 5
+ATOM 8045 H HA . LEU B 1 34 ? 3.886 4.451 -3.825 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 5
+ATOM 8046 H HB2 . LEU B 1 34 ? 5.168 3.213 -1.564 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 5
+ATOM 8047 H HB3 . LEU B 1 34 ? 3.428 3.070 -1.413 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 5
+ATOM 8048 H HG . LEU B 1 34 ? 4.993 2.235 -3.869 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 5
+ATOM 8049 H HD11 . LEU B 1 34 ? 5.091 0.054 -3.110 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 5
+ATOM 8050 H HD12 . LEU B 1 34 ? 5.417 0.982 -1.627 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 5
+ATOM 8051 H HD13 . LEU B 1 34 ? 3.799 0.296 -1.910 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 5
+ATOM 8052 H HD21 . LEU B 1 34 ? 2.623 2.836 -4.264 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 5
+ATOM 8053 H HD22 . LEU B 1 34 ? 2.970 1.116 -4.566 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 5
+ATOM 8054 H HD23 . LEU B 1 34 ? 2.138 1.607 -3.071 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 5
+ATOM 8055 N N . MET B 1 35 ? 1.884 5.594 -3.008 1.00 0.00 ? ? ? ? ? ? 35 MET B N 5
+ATOM 8056 C CA . MET B 1 35 ? 0.708 6.340 -2.592 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 5
+ATOM 8057 C C . MET B 1 35 ? -0.575 5.617 -3.007 1.00 0.00 ? ? ? ? ? ? 35 MET B C 5
+ATOM 8058 O O . MET B 1 35 ? -1.027 5.751 -4.143 1.00 0.00 ? ? ? ? ? ? 35 MET B O 5
+ATOM 8059 C CB . MET B 1 35 ? 0.737 7.733 -3.223 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 5
+ATOM 8060 C CG . MET B 1 35 ? 1.138 8.792 -2.196 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 5
+ATOM 8061 S SD . MET B 1 35 ? 1.267 10.389 -2.983 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 5
+ATOM 8062 C CE . MET B 1 35 ? 2.811 10.182 -3.854 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 5
+ATOM 8063 H H . MET B 1 35 ? 1.854 5.247 -3.946 1.00 0.00 ? ? ? ? ? ? 35 MET B H 5
+ATOM 8064 H HA . MET B 1 35 ? 0.767 6.395 -1.505 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 5
+ATOM 8065 H HB2 . MET B 1 35 ? 1.439 7.744 -4.056 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 5
+ATOM 8066 H HB3 . MET B 1 35 ? -0.246 7.971 -3.632 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 5
+ATOM 8067 H HG2 . MET B 1 35 ? 0.401 8.831 -1.394 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 5
+ATOM 8068 H HG3 . MET B 1 35 ? 2.092 8.525 -1.739 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 5
+ATOM 8069 H HE1 . MET B 1 35 ? 3.627 10.106 -3.134 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 5
+ATOM 8070 H HE2 . MET B 1 35 ? 2.771 9.274 -4.455 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 5
+ATOM 8071 H HE3 . MET B 1 35 ? 2.980 11.041 -4.504 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 5
+ATOM 8072 N N . VAL B 1 36 ? -1.125 4.867 -2.064 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 5
+ATOM 8073 C CA . VAL B 1 36 ? -2.348 4.123 -2.317 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 5
+ATOM 8074 C C . VAL B 1 36 ? -3.534 4.881 -1.720 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 5
+ATOM 8075 O O . VAL B 1 36 ? -3.614 5.060 -0.505 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 5
+ATOM 8076 C CB . VAL B 1 36 ? -2.215 2.698 -1.776 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 5
+ATOM 8077 C CG1 . VAL B 1 36 ? -2.163 2.695 -0.247 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 5
+ATOM 8078 C CG2 . VAL B 1 36 ? -3.349 1.809 -2.288 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 5
+ATOM 8079 H H . VAL B 1 36 ? -0.751 4.763 -1.142 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 5
+ATOM 8080 H HA . VAL B 1 36 ? -2.478 4.062 -3.398 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 5
+ATOM 8081 H HB . VAL B 1 36 ? -1.275 2.286 -2.143 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 5
+ATOM 8082 H HG11 . VAL B 1 36 ? -1.404 3.400 0.093 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 5
+ATOM 8083 H HG12 . VAL B 1 36 ? -3.135 2.989 0.150 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 5
+ATOM 8084 H HG13 . VAL B 1 36 ? -1.914 1.695 0.107 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 5
+ATOM 8085 H HG21 . VAL B 1 36 ? -2.944 1.053 -2.960 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 5
+ATOM 8086 H HG22 . VAL B 1 36 ? -3.837 1.320 -1.444 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 5
+ATOM 8087 H HG23 . VAL B 1 36 ? -4.076 2.419 -2.824 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 5
+ATOM 8088 N N . GLY B 1 37 ? -4.428 5.307 -2.601 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 5
+ATOM 8089 C CA . GLY B 1 37 ? -5.607 6.042 -2.175 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 5
+ATOM 8090 C C . GLY B 1 37 ? -6.886 5.329 -2.618 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 5
+ATOM 8091 O O . GLY B 1 37 ? -7.174 5.246 -3.811 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 5
+ATOM 8092 H H . GLY B 1 37 ? -4.356 5.157 -3.587 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 5
+ATOM 8093 H HA2 . GLY B 1 37 ? -5.602 6.148 -1.091 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 5
+ATOM 8094 H HA3 . GLY B 1 37 ? -5.583 7.048 -2.594 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 5
+ATOM 8095 N N . GLY B 1 38 ? -7.620 4.833 -1.633 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 5
+ATOM 8096 C CA . GLY B 1 38 ? -8.862 4.130 -1.905 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 5
+ATOM 8097 C C . GLY B 1 38 ? -10.072 5.010 -1.584 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 5
+ATOM 8098 O O . GLY B 1 38 ? -10.505 5.081 -0.435 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 5
+ATOM 8099 H H . GLY B 1 38 ? -7.379 4.905 -0.665 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 5
+ATOM 8100 H HA2 . GLY B 1 38 ? -8.893 3.832 -2.953 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 5
+ATOM 8101 H HA3 . GLY B 1 38 ? -8.905 3.216 -1.313 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 5
+ATOM 8102 N N . VAL B 1 39 ? -10.584 5.658 -2.620 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 5
+ATOM 8103 C CA . VAL B 1 39 ? -11.735 6.530 -2.463 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 5
+ATOM 8104 C C . VAL B 1 39 ? -13.004 5.768 -2.850 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 5
+ATOM 8105 O O . VAL B 1 39 ? -13.035 5.086 -3.874 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 5
+ATOM 8106 C CB . VAL B 1 39 ? -11.536 7.811 -3.276 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 5
+ATOM 8107 C CG1 . VAL B 1 39 ? -12.831 8.625 -3.342 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 5
+ATOM 8108 C CG2 . VAL B 1 39 ? -10.391 8.650 -2.706 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 5
+ATOM 8109 H H . VAL B 1 39 ? -10.226 5.594 -3.552 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 5
+ATOM 8110 H HA . VAL B 1 39 ? -11.799 6.805 -1.410 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 5
+ATOM 8111 H HB . VAL B 1 39 ? -11.268 7.525 -4.292 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 5
+ATOM 8112 H HG11 . VAL B 1 39 ? -13.637 8.065 -2.868 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 5
+ATOM 8113 H HG12 . VAL B 1 39 ? -12.691 9.572 -2.822 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 5
+ATOM 8114 H HG13 . VAL B 1 39 ? -13.086 8.817 -4.385 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 5
+ATOM 8115 H HG21 . VAL B 1 39 ? -10.642 8.969 -1.694 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 5
+ATOM 8116 H HG22 . VAL B 1 39 ? -9.480 8.051 -2.681 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 5
+ATOM 8117 H HG23 . VAL B 1 39 ? -10.233 9.525 -3.335 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 5
+ATOM 8118 N N . VAL B 1 40 ? -14.020 5.908 -2.011 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 5
+ATOM 8119 C CA . VAL B 1 40 ? -15.288 5.241 -2.253 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 5
+ATOM 8120 C C . VAL B 1 40 ? -16.421 6.078 -1.657 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 5
+ATOM 8121 O O . VAL B 1 40 ? -16.602 6.109 -0.440 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 5
+ATOM 8122 C CB . VAL B 1 40 ? -15.243 3.815 -1.700 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 5
+ATOM 8123 C CG1 . VAL B 1 40 ? -16.578 3.101 -1.917 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 5
+ATOM 8124 C CG2 . VAL B 1 40 ? -14.090 3.023 -2.319 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 5
+ATOM 8125 H H . VAL B 1 40 ? -13.987 6.464 -1.181 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 5
+ATOM 8126 H HA . VAL B 1 40 ? -15.427 5.180 -3.332 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 5
+ATOM 8127 H HB . VAL B 1 40 ? -15.067 3.878 -0.626 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 5
+ATOM 8128 H HG11 . VAL B 1 40 ? -16.933 2.699 -0.968 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 5
+ATOM 8129 H HG12 . VAL B 1 40 ? -17.310 3.808 -2.308 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 5
+ATOM 8130 H HG13 . VAL B 1 40 ? -16.443 2.287 -2.629 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 5
+ATOM 8131 H HG21 . VAL B 1 40 ? -14.085 3.174 -3.399 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 5
+ATOM 8132 H HG22 . VAL B 1 40 ? -13.145 3.368 -1.900 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 5
+ATOM 8133 H HG23 . VAL B 1 40 ? -14.219 1.963 -2.101 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 5
+ATOM 8134 N N . ILE B 1 41 ? -17.156 6.737 -2.541 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 5
+ATOM 8135 C CA . ILE B 1 41 ? -18.267 7.572 -2.117 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 5
+ATOM 8136 C C . ILE B 1 41 ? -19.574 6.987 -2.657 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 5
+ATOM 8137 O O . ILE B 1 41 ? -19.982 7.297 -3.775 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 5
+ATOM 8138 C CB . ILE B 1 41 ? -18.030 9.027 -2.526 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 5
+ATOM 8139 C CG1 . ILE B 1 41 ? -16.713 9.551 -1.949 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 5
+ATOM 8140 C CG2 . ILE B 1 41 ? -19.218 9.908 -2.133 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 5
+ATOM 8141 C CD1 . ILE B 1 41 ? -16.010 10.479 -2.942 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 5
+ATOM 8142 H H . ILE B 1 41 ? -17.003 6.706 -3.529 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 5
+ATOM 8143 H HA . ILE B 1 41 ? -18.300 7.544 -1.028 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 5
+ATOM 8144 H HB . ILE B 1 41 ? -17.944 9.068 -3.612 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 5
+ATOM 8145 H HG12 . ILE B 1 41 ? -16.906 10.086 -1.019 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 5
+ATOM 8146 H HG13 . ILE B 1 41 ? -16.060 8.713 -1.704 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 5
+ATOM 8147 H HG21 . ILE B 1 41 ? -19.224 10.048 -1.052 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 5
+ATOM 8148 H HG22 . ILE B 1 41 ? -19.130 10.876 -2.625 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 5
+ATOM 8149 H HG23 . ILE B 1 41 ? -20.145 9.426 -2.442 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 5
+ATOM 8150 H HD11 . ILE B 1 41 ? -16.248 10.169 -3.960 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 5
+ATOM 8151 H HD12 . ILE B 1 41 ? -16.349 11.503 -2.785 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 5
+ATOM 8152 H HD13 . ILE B 1 41 ? -14.932 10.425 -2.789 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 5
+ATOM 8153 N N . ALA B 1 42 ? -20.194 6.151 -1.837 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 5
+ATOM 8154 C CA . ALA B 1 42 ? -21.446 5.520 -2.218 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 5
+ATOM 8155 C C . ALA B 1 42 ? -22.614 6.382 -1.735 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 5
+ATOM 8156 O O . ALA B 1 42 ? -22.574 6.927 -0.633 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 5
+ATOM 8157 C CB . ALA B 1 42 ? -21.496 4.100 -1.651 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 5
+ATOM 8158 H H . ALA B 1 42 ? -19.856 5.904 -0.929 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 5
+ATOM 8159 H HA . ALA B 1 42 ? -21.472 5.465 -3.307 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 5
+ATOM 8160 H HB1 . ALA B 1 42 ? -22.509 3.877 -1.318 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 5
+ATOM 8161 H HB2 . ALA B 1 42 ? -21.203 3.390 -2.425 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 5
+ATOM 8162 H HB3 . ALA B 1 42 ? -20.811 4.022 -0.807 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 5
+ATOM 8163 N N . LEU C 1 17 ? -15.919 -4.444 -11.581 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 5
+ATOM 8164 C CA . LEU C 1 17 ? -14.686 -3.882 -12.107 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 5
+ATOM 8165 C C . LEU C 1 17 ? -13.492 -4.585 -11.458 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 5
+ATOM 8166 O O . LEU C 1 17 ? -13.260 -4.441 -10.259 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 5
+ATOM 8167 C CB . LEU C 1 17 ? -14.673 -2.362 -11.934 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 5
+ATOM 8168 C CG . LEU C 1 17 ? -13.293 -1.710 -11.828 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 5
+ATOM 8169 C CD1 . LEU C 1 17 ? -12.408 -2.104 -13.012 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 5
+ATOM 8170 C CD2 . LEU C 1 17 ? -13.413 -0.192 -11.682 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 5
+ATOM 8171 H H . LEU C 1 17 ? -15.968 -4.493 -10.584 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 5
+ATOM 8172 H HA . LEU C 1 17 ? -14.666 -4.084 -13.178 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 5
+ATOM 8173 H HB2 . LEU C 1 17 ? -15.200 -1.915 -12.777 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 5
+ATOM 8174 H HB3 . LEU C 1 17 ? -15.240 -2.114 -11.037 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 5
+ATOM 8175 H HG . LEU C 1 17 ? -12.808 -2.083 -10.925 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 5
+ATOM 8176 H HD11 . LEU C 1 17 ? -12.962 -1.967 -13.941 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 5
+ATOM 8177 H HD12 . LEU C 1 17 ? -11.517 -1.477 -13.024 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 5
+ATOM 8178 H HD13 . LEU C 1 17 ? -12.115 -3.150 -12.914 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 5
+ATOM 8179 H HD21 . LEU C 1 17 ? -13.407 0.269 -12.670 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 5
+ATOM 8180 H HD22 . LEU C 1 17 ? -14.346 0.052 -11.173 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 5
+ATOM 8181 H HD23 . LEU C 1 17 ? -12.572 0.185 -11.100 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 5
+ATOM 8182 N N . VAL C 1 18 ? -12.767 -5.330 -12.280 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 5
+ATOM 8183 C CA . VAL C 1 18 ? -11.603 -6.055 -11.801 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 5
+ATOM 8184 C C . VAL C 1 18 ? -10.334 -5.364 -12.303 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 5
+ATOM 8185 O O . VAL C 1 18 ? -9.869 -5.640 -13.408 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 5
+ATOM 8186 C CB . VAL C 1 18 ? -11.691 -7.524 -12.223 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 5
+ATOM 8187 C CG1 . VAL C 1 18 ? -10.370 -8.249 -11.962 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 5
+ATOM 8188 C CG2 . VAL C 1 18 ? -12.852 -8.228 -11.518 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 5
+ATOM 8189 H H . VAL C 1 18 ? -12.963 -5.441 -13.254 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 5
+ATOM 8190 H HA . VAL C 1 18 ? -11.616 -6.016 -10.711 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 5
+ATOM 8191 H HB . VAL C 1 18 ? -11.884 -7.553 -13.295 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 5
+ATOM 8192 H HG11 . VAL C 1 18 ? -10.045 -8.056 -10.940 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 5
+ATOM 8193 H HG12 . VAL C 1 18 ? -10.510 -9.321 -12.102 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 5
+ATOM 8194 H HG13 . VAL C 1 18 ? -9.613 -7.887 -12.658 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 5
+ATOM 8195 H HG21 . VAL C 1 18 ? -12.884 -7.919 -10.473 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 5
+ATOM 8196 H HG22 . VAL C 1 18 ? -13.790 -7.959 -12.004 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 5
+ATOM 8197 H HG23 . VAL C 1 18 ? -12.710 -9.307 -11.573 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 5
+ATOM 8198 N N . PHE C 1 19 ? -9.810 -4.479 -11.468 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 5
+ATOM 8199 C CA . PHE C 1 19 ? -8.604 -3.746 -11.814 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 5
+ATOM 8200 C C . PHE C 1 19 ? -7.367 -4.408 -11.204 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 5
+ATOM 8201 O O . PHE C 1 19 ? -7.214 -4.441 -9.984 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 5
+ATOM 8202 C CB . PHE C 1 19 ? -8.754 -2.339 -11.233 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 5
+ATOM 8203 C CG . PHE C 1 19 ? -7.874 -1.288 -11.913 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 5
+ATOM 8204 C CD1 . PHE C 1 19 ? -6.521 -1.426 -11.906 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 5
+ATOM 8205 C CD2 . PHE C 1 19 ? -8.445 -0.216 -12.525 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 5
+ATOM 8206 C CE1 . PHE C 1 19 ? -5.704 -0.451 -12.537 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 5
+ATOM 8207 C CE2 . PHE C 1 19 ? -7.628 0.759 -13.157 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 5
+ATOM 8208 C CZ . PHE C 1 19 ? -6.275 0.621 -13.149 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 5
+ATOM 8209 H H . PHE C 1 19 ? -10.195 -4.260 -10.571 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 5
+ATOM 8210 H HA . PHE C 1 19 ? -8.520 -3.756 -12.901 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 5
+ATOM 8211 H HB2 . PHE C 1 19 ? -9.797 -2.032 -11.315 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 5
+ATOM 8212 H HB3 . PHE C 1 19 ? -8.512 -2.367 -10.171 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 5
+ATOM 8213 H HD1 . PHE C 1 19 ? -6.064 -2.285 -11.416 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 5
+ATOM 8214 H HD2 . PHE C 1 19 ? -9.529 -0.105 -12.531 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 5
+ATOM 8215 H HE1 . PHE C 1 19 ? -4.620 -0.562 -12.531 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 5
+ATOM 8216 H HE2 . PHE C 1 19 ? -8.086 1.619 -13.647 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 5
+ATOM 8217 H HZ . PHE C 1 19 ? -5.648 1.370 -13.634 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 5
+ATOM 8218 N N . PHE C 1 20 ? -6.515 -4.918 -12.081 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 5
+ATOM 8219 C CA . PHE C 1 20 ? -5.296 -5.577 -11.644 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 5
+ATOM 8220 C C . PHE C 1 20 ? -4.061 -4.898 -12.241 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 5
+ATOM 8221 O O . PHE C 1 20 ? -4.082 -4.465 -13.392 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 5
+ATOM 8222 C CB . PHE C 1 20 ? -5.362 -7.020 -12.147 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 5
+ATOM 8223 C CG . PHE C 1 20 ? -4.935 -8.061 -11.109 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 5
+ATOM 8224 C CD1 . PHE C 1 20 ? -3.616 -8.336 -10.926 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 5
+ATOM 8225 C CD2 . PHE C 1 20 ? -5.875 -8.710 -10.371 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 5
+ATOM 8226 C CE1 . PHE C 1 20 ? -3.220 -9.302 -9.963 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 5
+ATOM 8227 C CE2 . PHE C 1 20 ? -5.478 -9.676 -9.408 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 5
+ATOM 8228 C CZ . PHE C 1 20 ? -4.159 -9.951 -9.224 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 5
+ATOM 8229 H H . PHE C 1 20 ? -6.647 -4.887 -13.072 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 5
+ATOM 8230 H HA . PHE C 1 20 ? -5.259 -5.502 -10.557 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 5
+ATOM 8231 H HB2 . PHE C 1 20 ? -6.382 -7.237 -12.465 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 5
+ATOM 8232 H HB3 . PHE C 1 20 ? -4.726 -7.117 -13.027 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 5
+ATOM 8233 H HD1 . PHE C 1 20 ? -2.863 -7.816 -11.517 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 5
+ATOM 8234 H HD2 . PHE C 1 20 ? -6.932 -8.489 -10.518 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 5
+ATOM 8235 H HE1 . PHE C 1 20 ? -2.162 -9.522 -9.816 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 5
+ATOM 8236 H HE2 . PHE C 1 20 ? -6.231 -10.196 -8.816 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 5
+ATOM 8237 H HZ . PHE C 1 20 ? -3.855 -10.692 -8.485 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 5
+ATOM 8238 N N . ALA C 1 21 ? -3.015 -4.826 -11.431 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 5
+ATOM 8239 C CA . ALA C 1 21 ? -1.774 -4.207 -11.865 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 5
+ATOM 8240 C C . ALA C 1 21 ? -0.596 -4.904 -11.183 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 5
+ATOM 8241 O O . ALA C 1 21 ? -0.545 -4.987 -9.957 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 5
+ATOM 8242 C CB . ALA C 1 21 ? -1.819 -2.707 -11.564 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 5
+ATOM 8243 H H . ALA C 1 21 ? -3.006 -5.180 -10.496 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 5
+ATOM 8244 H HA . ALA C 1 21 ? -1.693 -4.346 -12.943 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 5
+ATOM 8245 H HB1 . ALA C 1 21 ? -2.654 -2.496 -10.896 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 5
+ATOM 8246 H HB2 . ALA C 1 21 ? -0.886 -2.405 -11.087 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 5
+ATOM 8247 H HB3 . ALA C 1 21 ? -1.948 -2.153 -12.493 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 5
+ATOM 8248 N N . GLU C 1 22 ? 0.323 -5.387 -12.007 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 5
+ATOM 8249 C CA . GLU C 1 22 ? 1.497 -6.074 -11.498 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 5
+ATOM 8250 C C . GLU C 1 22 ? 2.763 -5.521 -12.156 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 5
+ATOM 8251 O O . GLU C 1 22 ? 2.876 -5.512 -13.381 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 5
+ATOM 8252 C CB . GLU C 1 22 ? 1.384 -7.585 -11.711 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 5
+ATOM 8253 C CG . GLU C 1 22 ? 2.518 -8.326 -11.001 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 5
+ATOM 8254 C CD . GLU C 1 22 ? 2.077 -9.729 -10.578 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 5
+ATOM 8255 O OE1 . GLU C 1 22 ? 1.655 -10.486 -11.478 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 5
+ATOM 8256 O OE2 . GLU C 1 22 ? 2.172 -10.012 -9.364 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 5
+ATOM 8257 H H . GLU C 1 22 ? 0.274 -5.315 -13.003 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 5
+ATOM 8258 H HA . GLU C 1 22 ? 1.515 -5.865 -10.428 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 5
+ATOM 8259 H HB2 . GLU C 1 22 ? 0.423 -7.938 -11.336 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 5
+ATOM 8260 H HB3 . GLU C 1 22 ? 1.411 -7.808 -12.778 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 5
+ATOM 8261 H HG2 . GLU C 1 22 ? 3.382 -8.396 -11.662 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 5
+ATOM 8262 H HG3 . GLU C 1 22 ? 2.834 -7.760 -10.124 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 5
+ATOM 8263 N N . ASP C 1 23 ? 3.682 -5.073 -11.314 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 5
+ATOM 8264 C CA . ASP C 1 23 ? 4.935 -4.520 -11.799 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 5
+ATOM 8265 C C . ASP C 1 23 ? 6.100 -5.341 -11.242 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 5
+ATOM 8266 O O . ASP C 1 23 ? 6.273 -5.436 -10.028 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 5
+ATOM 8267 C CB . ASP C 1 23 ? 5.114 -3.072 -11.337 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 5
+ATOM 8268 C CG . ASP C 1 23 ? 6.513 -2.493 -11.551 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 5
+ATOM 8269 O OD1 . ASP C 1 23 ? 7.443 -2.993 -10.883 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 5
+ATOM 8270 O OD2 . ASP C 1 23 ? 6.622 -1.562 -12.379 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 5
+ATOM 8271 H H . ASP C 1 23 ? 3.582 -5.084 -10.319 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 5
+ATOM 8272 H HA . ASP C 1 23 ? 4.870 -4.572 -12.886 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 5
+ATOM 8273 H HB2 . ASP C 1 23 ? 4.393 -2.447 -11.864 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 5
+ATOM 8274 H HB3 . ASP C 1 23 ? 4.871 -3.013 -10.276 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 5
+ATOM 8275 N N . VAL C 1 24 ? 6.869 -5.913 -12.157 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 5
+ATOM 8276 C CA . VAL C 1 24 ? 8.013 -6.723 -11.772 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 5
+ATOM 8277 C C . VAL C 1 24 ? 9.291 -5.897 -11.923 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 5
+ATOM 8278 O O . VAL C 1 24 ? 9.624 -5.457 -13.022 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 5
+ATOM 8279 C CB . VAL C 1 24 ? 8.037 -8.017 -12.589 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 5
+ATOM 8280 C CG1 . VAL C 1 24 ? 9.322 -8.805 -12.330 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 5
+ATOM 8281 C CG2 . VAL C 1 24 ? 6.801 -8.871 -12.300 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 5
+ATOM 8282 H H . VAL C 1 24 ? 6.722 -5.831 -13.142 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 5
+ATOM 8283 H HA . VAL C 1 24 ? 7.889 -6.990 -10.722 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 5
+ATOM 8284 H HB . VAL C 1 24 ? 8.017 -7.746 -13.645 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 5
+ATOM 8285 H HG11 . VAL C 1 24 ? 9.071 -9.782 -11.914 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 5
+ATOM 8286 H HG12 . VAL C 1 24 ? 9.863 -8.937 -13.267 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 5
+ATOM 8287 H HG13 . VAL C 1 24 ? 9.946 -8.260 -11.623 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 5
+ATOM 8288 H HG21 . VAL C 1 24 ? 6.552 -9.461 -13.182 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 5
+ATOM 8289 H HG22 . VAL C 1 24 ? 7.008 -9.538 -11.463 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 5
+ATOM 8290 H HG23 . VAL C 1 24 ? 5.961 -8.222 -12.048 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 5
+ATOM 8291 N N . GLY C 1 25 ? 9.973 -5.711 -10.802 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 5
+ATOM 8292 C CA . GLY C 1 25 ? 11.208 -4.945 -10.796 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 5
+ATOM 8293 C C . GLY C 1 25 ? 12.386 -5.808 -10.339 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 5
+ATOM 8294 O O . GLY C 1 25 ? 12.391 -6.315 -9.219 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 5
+ATOM 8295 H H . GLY C 1 25 ? 9.696 -6.072 -9.912 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 5
+ATOM 8296 H HA2 . GLY C 1 25 ? 11.404 -4.556 -11.796 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 5
+ATOM 8297 H HA3 . GLY C 1 25 ? 11.104 -4.085 -10.134 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 5
+ATOM 8298 N N . SER C 1 26 ? 13.357 -5.947 -11.230 1.00 0.00 ? ? ? ? ? ? 26 SER C N 5
+ATOM 8299 C CA . SER C 1 26 ? 14.538 -6.740 -10.932 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 5
+ATOM 8300 C C . SER C 1 26 ? 15.723 -5.820 -10.631 1.00 0.00 ? ? ? ? ? ? 26 SER C C 5
+ATOM 8301 O O . SER C 1 26 ? 16.441 -5.409 -11.540 1.00 0.00 ? ? ? ? ? ? 26 SER C O 5
+ATOM 8302 C CB . SER C 1 26 ? 14.877 -7.680 -12.091 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 5
+ATOM 8303 O OG . SER C 1 26 ? 15.374 -8.934 -11.632 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 5
+ATOM 8304 H H . SER C 1 26 ? 13.345 -5.531 -12.139 1.00 0.00 ? ? ? ? ? ? 26 SER C H 5
+ATOM 8305 H HA . SER C 1 26 ? 14.276 -7.328 -10.053 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 5
+ATOM 8306 H HB2 . SER C 1 26 ? 13.986 -7.843 -12.698 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 5
+ATOM 8307 H HB3 . SER C 1 26 ? 15.619 -7.209 -12.735 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 5
+ATOM 8308 H HG . SER C 1 26 ? 15.027 -9.672 -12.211 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 5
+ATOM 8309 N N . ASN C 1 27 ? 15.891 -5.525 -9.350 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 5
+ATOM 8310 C CA . ASN C 1 27 ? 16.976 -4.662 -8.917 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 5
+ATOM 8311 C C . ASN C 1 27 ? 16.652 -3.215 -9.293 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 5
+ATOM 8312 O O . ASN C 1 27 ? 17.291 -2.640 -10.173 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 5
+ATOM 8313 C CB . ASN C 1 27 ? 18.290 -5.045 -9.601 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 5
+ATOM 8314 C CG . ASN C 1 27 ? 19.492 -4.515 -8.815 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 5
+ATOM 8315 O OD1 . ASN C 1 27 ? 20.140 -5.229 -8.066 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 5
+ATOM 8316 N ND2 . ASN C 1 27 ? 19.752 -3.228 -9.026 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 5
+ATOM 8317 H H . ASN C 1 27 ? 15.302 -5.864 -8.616 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 5
+ATOM 8318 H HA . ASN C 1 27 ? 17.046 -4.807 -7.839 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 5
+ATOM 8319 H HB2 . ASN C 1 27 ? 18.357 -6.129 -9.687 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 5
+ATOM 8320 H HB3 . ASN C 1 27 ? 18.308 -4.642 -10.614 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 5
+ATOM 8321 H HD21 . ASN C 1 27 ? 19.180 -2.699 -9.653 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 5
+ATOM 8322 H HD22 . ASN C 1 27 ? 20.518 -2.790 -8.557 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 5
+ATOM 8323 N N . LYS C 1 28 ? 15.660 -2.667 -8.607 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 5
+ATOM 8324 C CA . LYS C 1 28 ? 15.243 -1.298 -8.857 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 5
+ATOM 8325 C C . LYS C 1 28 ? 16.266 -0.338 -8.247 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 5
+ATOM 8326 O O . LYS C 1 28 ? 17.017 -0.715 -7.348 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 5
+ATOM 8327 C CB . LYS C 1 28 ? 13.814 -1.072 -8.358 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 5
+ATOM 8328 C CG . LYS C 1 28 ? 12.871 -2.153 -8.890 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 5
+ATOM 8329 C CD . LYS C 1 28 ? 11.759 -2.454 -7.883 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 5
+ATOM 8330 C CE . LYS C 1 28 ? 10.478 -1.696 -8.238 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 5
+ATOM 8331 N NZ . LYS C 1 28 ? 9.314 -2.290 -7.543 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 5
+ATOM 8332 H H . LYS C 1 28 ? 15.145 -3.141 -7.892 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 5
+ATOM 8333 H HA . LYS C 1 28 ? 15.234 -1.151 -9.937 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 5
+ATOM 8334 H HB2 . LYS C 1 28 ? 13.801 -1.077 -7.268 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 5
+ATOM 8335 H HB3 . LYS C 1 28 ? 13.465 -0.090 -8.676 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 5
+ATOM 8336 H HG2 . LYS C 1 28 ? 12.434 -1.826 -9.834 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 5
+ATOM 8337 H HG3 . LYS C 1 28 ? 13.434 -3.063 -9.098 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 5
+ATOM 8338 H HD2 . LYS C 1 28 ? 11.559 -3.525 -7.867 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 5
+ATOM 8339 H HD3 . LYS C 1 28 ? 12.085 -2.175 -6.881 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 5
+ATOM 8340 H HE2 . LYS C 1 28 ? 10.580 -0.647 -7.959 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 5
+ATOM 8341 H HE3 . LYS C 1 28 ? 10.318 -1.725 -9.316 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 5
+ATOM 8342 H HZ1 . LYS C 1 28 ? 8.588 -2.474 -8.205 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 5
+ATOM 8343 H HZ2 . LYS C 1 28 ? 9.590 -3.145 -7.104 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 5
+ATOM 8344 H HZ3 . LYS C 1 28 ? 8.980 -1.652 -6.849 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 5
+ATOM 8345 N N . GLY C 1 29 ? 16.263 0.884 -8.759 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 5
+ATOM 8346 C CA . GLY C 1 29 ? 17.181 1.901 -8.275 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 5
+ATOM 8347 C C . GLY C 1 29 ? 16.750 3.294 -8.738 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 5
+ATOM 8348 O O . GLY C 1 29 ? 15.728 3.442 -9.406 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 5
+ATOM 8349 H H . GLY C 1 29 ? 15.648 1.183 -9.489 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 5
+ATOM 8350 H HA2 . GLY C 1 29 ? 17.221 1.872 -7.186 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 5
+ATOM 8351 H HA3 . GLY C 1 29 ? 18.187 1.689 -8.636 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 5
+ATOM 8352 N N . ALA C 1 30 ? 17.553 4.281 -8.366 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 5
+ATOM 8353 C CA . ALA C 1 30 ? 17.267 5.657 -8.735 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 5
+ATOM 8354 C C . ALA C 1 30 ? 16.017 6.131 -7.991 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 5
+ATOM 8355 O O . ALA C 1 30 ? 15.963 6.076 -6.764 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 5
+ATOM 8356 C CB . ALA C 1 30 ? 17.115 5.757 -10.254 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 5
+ATOM 8357 H H . ALA C 1 30 ? 18.383 4.152 -7.824 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 5
+ATOM 8358 H HA . ALA C 1 30 ? 18.117 6.266 -8.427 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 5
+ATOM 8359 H HB1 . ALA C 1 30 ? 16.204 5.245 -10.563 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 5
+ATOM 8360 H HB2 . ALA C 1 30 ? 17.058 6.806 -10.545 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 5
+ATOM 8361 H HB3 . ALA C 1 30 ? 17.974 5.292 -10.737 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 5
+ATOM 8362 N N . ILE C 1 31 ? 15.044 6.587 -8.766 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 5
+ATOM 8363 C CA . ILE C 1 31 ? 13.798 7.070 -8.196 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 5
+ATOM 8364 C C . ILE C 1 31 ? 12.628 6.293 -8.804 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 5
+ATOM 8365 O O . ILE C 1 31 ? 12.681 5.894 -9.966 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 5
+ATOM 8366 C CB . ILE C 1 31 ? 13.683 8.586 -8.367 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 5
+ATOM 8367 C CG1 . ILE C 1 31 ? 15.005 9.278 -8.026 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 5
+ATOM 8368 C CG2 . ILE C 1 31 ? 12.517 9.144 -7.548 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 5
+ATOM 8369 C CD1 . ILE C 1 31 ? 14.853 10.800 -8.061 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 5
+ATOM 8370 H H . ILE C 1 31 ? 15.096 6.628 -9.764 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 5
+ATOM 8371 H HA . ILE C 1 31 ? 13.828 6.868 -7.125 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 5
+ATOM 8372 H HB . ILE C 1 31 ? 13.470 8.797 -9.415 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 5
+ATOM 8373 H HG12 . ILE C 1 31 ? 15.339 8.964 -7.037 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 5
+ATOM 8374 H HG13 . ILE C 1 31 ? 15.774 8.970 -8.735 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 5
+ATOM 8375 H HG21 . ILE C 1 31 ? 12.825 10.069 -7.060 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 5
+ATOM 8376 H HG22 . ILE C 1 31 ? 11.673 9.344 -8.207 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 5
+ATOM 8377 H HG23 . ILE C 1 31 ? 12.223 8.415 -6.792 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 5
+ATOM 8378 H HD11 . ILE C 1 31 ? 15.806 11.254 -8.328 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 5
+ATOM 8379 H HD12 . ILE C 1 31 ? 14.100 11.073 -8.801 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 5
+ATOM 8380 H HD13 . ILE C 1 31 ? 14.542 11.156 -7.078 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 5
+ATOM 8381 N N . ILE C 1 32 ? 11.600 6.101 -7.990 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 5
+ATOM 8382 C CA . ILE C 1 32 ? 10.420 5.379 -8.433 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 5
+ATOM 8383 C C . ILE C 1 32 ? 9.169 6.075 -7.894 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 5
+ATOM 8384 O O . ILE C 1 32 ? 9.127 6.469 -6.729 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 5
+ATOM 8385 C CB . ILE C 1 32 ? 10.518 3.903 -8.044 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 5
+ATOM 8386 C CG1 . ILE C 1 32 ? 11.302 3.110 -9.092 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 5
+ATOM 8387 C CG2 . ILE C 1 32 ? 9.130 3.308 -7.795 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 5
+ATOM 8388 C CD1 . ILE C 1 32 ? 10.415 2.057 -9.760 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 5
+ATOM 8389 H H . ILE C 1 32 ? 11.566 6.429 -7.046 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 5
+ATOM 8390 H HA . ILE C 1 32 ? 10.398 5.425 -9.522 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 5
+ATOM 8391 H HB . ILE C 1 32 ? 11.071 3.832 -7.107 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 5
+ATOM 8392 H HG12 . ILE C 1 32 ? 11.696 3.790 -9.847 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 5
+ATOM 8393 H HG13 . ILE C 1 32 ? 12.157 2.625 -8.622 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 5
+ATOM 8394 H HG21 . ILE C 1 32 ? 8.607 3.906 -7.050 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 5
+ATOM 8395 H HG22 . ILE C 1 32 ? 8.562 3.309 -8.726 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 5
+ATOM 8396 H HG23 . ILE C 1 32 ? 9.233 2.285 -7.433 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 5
+ATOM 8397 H HD11 . ILE C 1 32 ? 10.033 1.371 -9.004 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 5
+ATOM 8398 H HD12 . ILE C 1 32 ? 9.580 2.549 -10.259 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 5
+ATOM 8399 H HD13 . ILE C 1 32 ? 10.999 1.502 -10.493 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 5
+ATOM 8400 N N . GLY C 1 33 ? 8.180 6.206 -8.766 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 5
+ATOM 8401 C CA . GLY C 1 33 ? 6.932 6.848 -8.392 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 5
+ATOM 8402 C C . GLY C 1 33 ? 5.763 5.864 -8.477 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 5
+ATOM 8403 O O . GLY C 1 33 ? 5.216 5.636 -9.554 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 5
+ATOM 8404 H H . GLY C 1 33 ? 8.223 5.883 -9.712 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 5
+ATOM 8405 H HA2 . GLY C 1 33 ? 7.010 7.239 -7.378 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 5
+ATOM 8406 H HA3 . GLY C 1 33 ? 6.745 7.698 -9.048 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 5
+ATOM 8407 N N . LEU C 1 34 ? 5.414 5.309 -7.325 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 5
+ATOM 8408 C CA . LEU C 1 34 ? 4.320 4.355 -7.256 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 5
+ATOM 8409 C C . LEU C 1 34 ? 3.052 5.073 -6.789 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 5
+ATOM 8410 O O . LEU C 1 34 ? 2.800 5.179 -5.589 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 5
+ATOM 8411 C CB . LEU C 1 34 ? 4.706 3.159 -6.383 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 5
+ATOM 8412 C CG . LEU C 1 34 ? 4.330 1.781 -6.929 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 5
+ATOM 8413 C CD1 . LEU C 1 34 ? 2.811 1.601 -6.964 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 5
+ATOM 8414 C CD2 . LEU C 1 34 ? 4.967 1.542 -8.300 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 5
+ATOM 8415 H H . LEU C 1 34 ? 5.864 5.500 -6.453 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 5
+ATOM 8416 H HA . LEU C 1 34 ? 4.151 3.977 -8.264 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 5
+ATOM 8417 H HB2 . LEU C 1 34 ? 5.784 3.184 -6.225 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 5
+ATOM 8418 H HB3 . LEU C 1 34 ? 4.238 3.281 -5.406 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 5
+ATOM 8419 H HG . LEU C 1 34 ? 4.728 1.025 -6.253 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 5
+ATOM 8420 H HD11 . LEU C 1 34 ? 2.424 1.961 -7.918 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 5
+ATOM 8421 H HD12 . LEU C 1 34 ? 2.568 0.545 -6.849 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 5
+ATOM 8422 H HD13 . LEU C 1 34 ? 2.359 2.168 -6.151 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 5
+ATOM 8423 H HD21 . LEU C 1 34 ? 5.502 2.438 -8.613 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 5
+ATOM 8424 H HD22 . LEU C 1 34 ? 5.665 0.707 -8.235 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 5
+ATOM 8425 H HD23 . LEU C 1 34 ? 4.189 1.309 -9.027 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 5
+ATOM 8426 N N . MET C 1 35 ? 2.288 5.549 -7.761 1.00 0.00 ? ? ? ? ? ? 35 MET C N 5
+ATOM 8427 C CA . MET C 1 35 ? 1.052 6.254 -7.464 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 5
+ATOM 8428 C C . MET C 1 35 ? -0.165 5.424 -7.876 1.00 0.00 ? ? ? ? ? ? 35 MET C C 5
+ATOM 8429 O O . MET C 1 35 ? -0.405 5.213 -9.064 1.00 0.00 ? ? ? ? ? ? 35 MET C O 5
+ATOM 8430 C CB . MET C 1 35 ? 1.035 7.590 -8.210 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 5
+ATOM 8431 C CG . MET C 1 35 ? 1.679 8.695 -7.370 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 5
+ATOM 8432 S SD . MET C 1 35 ? 0.864 10.252 -7.682 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 5
+ATOM 8433 C CE . MET C 1 35 ? -0.610 10.034 -6.698 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 5
+ATOM 8434 H H . MET C 1 35 ? 2.500 5.459 -8.734 1.00 0.00 ? ? ? ? ? ? 35 MET C H 5
+ATOM 8435 H HA . MET C 1 35 ? 1.052 6.402 -6.384 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 5
+ATOM 8436 H HB2 . MET C 1 35 ? 1.569 7.490 -9.155 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 5
+ATOM 8437 H HB3 . MET C 1 35 ? 0.008 7.863 -8.451 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 5
+ATOM 8438 H HG2 . MET C 1 35 ? 1.610 8.445 -6.311 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 5
+ATOM 8439 H HG3 . MET C 1 35 ? 2.739 8.776 -7.610 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 5
+ATOM 8440 H HE1 . MET C 1 35 ? -1.456 10.498 -7.204 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 5
+ATOM 8441 H HE2 . MET C 1 35 ? -0.804 8.969 -6.567 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 5
+ATOM 8442 H HE3 . MET C 1 35 ? -0.468 10.500 -5.723 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 5
+ATOM 8443 N N . VAL C 1 36 ? -0.902 4.975 -6.871 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 5
+ATOM 8444 C CA . VAL C 1 36 ? -2.089 4.173 -7.113 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 5
+ATOM 8445 C C . VAL C 1 36 ? -3.286 4.813 -6.407 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 5
+ATOM 8446 O O . VAL C 1 36 ? -3.206 5.152 -5.227 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 5
+ATOM 8447 C CB . VAL C 1 36 ? -1.841 2.727 -6.677 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 5
+ATOM 8448 C CG1 . VAL C 1 36 ? -1.533 2.651 -5.181 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 5
+ATOM 8449 C CG2 . VAL C 1 36 ? -3.030 1.834 -7.038 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 5
+ATOM 8450 H H . VAL C 1 36 ? -0.701 5.151 -5.907 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 5
+ATOM 8451 H HA . VAL C 1 36 ? -2.273 4.174 -8.188 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 5
+ATOM 8452 H HB . VAL C 1 36 ? -0.970 2.358 -7.218 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 5
+ATOM 8453 H HG11 . VAL C 1 36 ? -2.442 2.401 -4.634 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 5
+ATOM 8454 H HG12 . VAL C 1 36 ? -0.780 1.883 -5.004 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 5
+ATOM 8455 H HG13 . VAL C 1 36 ? -1.156 3.615 -4.838 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 5
+ATOM 8456 H HG21 . VAL C 1 36 ? -2.999 1.599 -8.102 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 5
+ATOM 8457 H HG22 . VAL C 1 36 ? -2.980 0.911 -6.461 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 5
+ATOM 8458 H HG23 . VAL C 1 36 ? -3.959 2.356 -6.808 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 5
+ATOM 8459 N N . GLY C 1 37 ? -4.367 4.960 -7.159 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 5
+ATOM 8460 C CA . GLY C 1 37 ? -5.578 5.554 -6.620 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 5
+ATOM 8461 C C . GLY C 1 37 ? -6.824 4.903 -7.224 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 5
+ATOM 8462 O O . GLY C 1 37 ? -6.785 4.403 -8.347 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 5
+ATOM 8463 H H . GLY C 1 37 ? -4.423 4.682 -8.118 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 5
+ATOM 8464 H HA2 . GLY C 1 37 ? -5.592 5.440 -5.536 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 5
+ATOM 8465 H HA3 . GLY C 1 37 ? -5.586 6.624 -6.828 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 5
+ATOM 8466 N N . GLY C 1 38 ? -7.900 4.930 -6.452 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 5
+ATOM 8467 C CA . GLY C 1 38 ? -9.155 4.348 -6.896 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 5
+ATOM 8468 C C . GLY C 1 38 ? -10.347 5.048 -6.240 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 5
+ATOM 8469 O O . GLY C 1 38 ? -10.563 4.915 -5.036 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 5
+ATOM 8470 H H . GLY C 1 38 ? -7.923 5.339 -5.539 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 5
+ATOM 8471 H HA2 . GLY C 1 38 ? -9.233 4.429 -7.980 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 5
+ATOM 8472 H HA3 . GLY C 1 38 ? -9.174 3.286 -6.653 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 5
+ATOM 8473 N N . VAL C 1 39 ? -11.088 5.778 -7.060 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 5
+ATOM 8474 C CA . VAL C 1 39 ? -12.252 6.499 -6.574 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 5
+ATOM 8475 C C . VAL C 1 39 ? -13.513 5.914 -7.213 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 5
+ATOM 8476 O O . VAL C 1 39 ? -13.626 5.863 -8.437 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 5
+ATOM 8477 C CB . VAL C 1 39 ? -12.088 7.997 -6.838 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 5
+ATOM 8478 C CG1 . VAL C 1 39 ? -11.439 8.245 -8.202 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 5
+ATOM 8479 C CG2 . VAL C 1 39 ? -13.430 8.724 -6.730 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 5
+ATOM 8480 H H . VAL C 1 39 ? -10.905 5.881 -8.037 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 5
+ATOM 8481 H HA . VAL C 1 39 ? -12.305 6.351 -5.495 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 5
+ATOM 8482 H HB . VAL C 1 39 ? -11.426 8.402 -6.073 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 5
+ATOM 8483 H HG11 . VAL C 1 39 ? -12.070 7.826 -8.986 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 5
+ATOM 8484 H HG12 . VAL C 1 39 ? -11.326 9.318 -8.361 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 5
+ATOM 8485 H HG13 . VAL C 1 39 ? -10.459 7.769 -8.229 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 5
+ATOM 8486 H HG21 . VAL C 1 39 ? -14.123 8.121 -6.143 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 5
+ATOM 8487 H HG22 . VAL C 1 39 ? -13.284 9.687 -6.241 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 5
+ATOM 8488 H HG23 . VAL C 1 39 ? -13.840 8.881 -7.727 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 5
+ATOM 8489 N N . VAL C 1 40 ? -14.429 5.487 -6.357 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 5
+ATOM 8490 C CA . VAL C 1 40 ? -15.677 4.907 -6.823 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 5
+ATOM 8491 C C . VAL C 1 40 ? -16.850 5.720 -6.271 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 5
+ATOM 8492 O O . VAL C 1 40 ? -17.118 5.694 -5.071 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 5
+ATOM 8493 C CB . VAL C 1 40 ? -15.742 3.427 -6.439 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 5
+ATOM 8494 C CG1 . VAL C 1 40 ? -17.075 2.809 -6.864 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 5
+ATOM 8495 C CG2 . VAL C 1 40 ? -14.564 2.654 -7.034 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 5
+ATOM 8496 H H . VAL C 1 40 ? -14.329 5.531 -5.363 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 5
+ATOM 8497 H HA . VAL C 1 40 ? -15.685 4.974 -7.911 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 5
+ATOM 8498 H HB . VAL C 1 40 ? -15.673 3.360 -5.353 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 5
+ATOM 8499 H HG11 . VAL C 1 40 ? -17.528 2.301 -6.013 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 5
+ATOM 8500 H HG12 . VAL C 1 40 ? -17.744 3.594 -7.217 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 5
+ATOM 8501 H HG13 . VAL C 1 40 ? -16.903 2.091 -7.666 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 5
+ATOM 8502 H HG21 . VAL C 1 40 ? -14.542 2.800 -8.113 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 5
+ATOM 8503 H HG22 . VAL C 1 40 ? -13.633 3.018 -6.598 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 5
+ATOM 8504 H HG23 . VAL C 1 40 ? -14.677 1.592 -6.812 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 5
+ATOM 8505 N N . ILE C 1 41 ? -17.517 6.424 -7.174 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 5
+ATOM 8506 C CA . ILE C 1 41 ? -18.655 7.243 -6.792 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 5
+ATOM 8507 C C . ILE C 1 41 ? -19.943 6.578 -7.281 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 5
+ATOM 8508 O O . ILE C 1 41 ? -20.177 6.480 -8.485 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 5
+ATOM 8509 C CB . ILE C 1 41 ? -18.474 8.677 -7.293 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 5
+ATOM 8510 C CG1 . ILE C 1 41 ? -17.240 9.326 -6.664 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 5
+ATOM 8511 C CG2 . ILE C 1 41 ? -19.740 9.504 -7.057 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 5
+ATOM 8512 C CD1 . ILE C 1 41 ? -16.696 10.447 -7.553 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 5
+ATOM 8513 H H . ILE C 1 41 ? -17.293 6.439 -8.148 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 5
+ATOM 8514 H HA . ILE C 1 41 ? -18.678 7.283 -5.703 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 5
+ATOM 8515 H HB . ILE C 1 41 ? -18.307 8.644 -8.370 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 5
+ATOM 8516 H HG12 . ILE C 1 41 ? -17.495 9.727 -5.683 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 5
+ATOM 8517 H HG13 . ILE C 1 41 ? -16.467 8.573 -6.509 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 5
+ATOM 8518 H HG21 . ILE C 1 41 ? -20.606 8.954 -7.424 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 5
+ATOM 8519 H HG22 . ILE C 1 41 ? -19.856 9.694 -5.990 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 5
+ATOM 8520 H HG23 . ILE C 1 41 ? -19.659 10.452 -7.589 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 5
+ATOM 8521 H HD11 . ILE C 1 41 ? -15.777 10.841 -7.120 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 5
+ATOM 8522 H HD12 . ILE C 1 41 ? -16.489 10.053 -8.548 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 5
+ATOM 8523 H HD13 . ILE C 1 41 ? -17.436 11.245 -7.625 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 5
+ATOM 8524 N N . ALA C 1 42 ? -20.746 6.140 -6.322 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 5
+ATOM 8525 C CA . ALA C 1 42 ? -22.005 5.487 -6.640 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 5
+ATOM 8526 C C . ALA C 1 42 ? -23.160 6.312 -6.070 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 5
+ATOM 8527 O O . ALA C 1 42 ? -23.420 6.275 -4.868 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 5
+ATOM 8528 C CB . ALA C 1 42 ? -21.988 4.056 -6.101 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 5
+ATOM 8529 H H . ALA C 1 42 ? -20.548 6.224 -5.346 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 5
+ATOM 8530 H HA . ALA C 1 42 ? -22.095 5.452 -7.726 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 5
+ATOM 8531 H HB1 . ALA C 1 42 ? -20.957 3.734 -5.954 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 5
+ATOM 8532 H HB2 . ALA C 1 42 ? -22.519 4.020 -5.149 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 5
+ATOM 8533 H HB3 . ALA C 1 42 ? -22.478 3.393 -6.814 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 5
+ATOM 8534 N N . LEU D 1 17 ? -15.603 -5.991 -16.308 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 5
+ATOM 8535 C CA . LEU D 1 17 ? -14.415 -5.163 -16.426 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 5
+ATOM 8536 C C . LEU D 1 17 ? -13.204 -5.939 -15.905 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 5
+ATOM 8537 O O . LEU D 1 17 ? -13.240 -6.485 -14.803 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 5
+ATOM 8538 C CB . LEU D 1 17 ? -14.628 -3.817 -15.732 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 5
+ATOM 8539 C CG . LEU D 1 17 ? -14.663 -2.589 -16.644 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 5
+ATOM 8540 C CD1 . LEU D 1 17 ? -15.960 -1.801 -16.453 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 5
+ATOM 8541 C CD2 . LEU D 1 17 ? -13.425 -1.715 -16.435 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 5
+ATOM 8542 H H . LEU D 1 17 ? -15.495 -6.807 -15.740 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 5
+ATOM 8543 H HA . LEU D 1 17 ? -14.264 -4.958 -17.486 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 5
+ATOM 8544 H HB2 . LEU D 1 17 ? -15.566 -3.860 -15.178 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 5
+ATOM 8545 H HB3 . LEU D 1 17 ? -13.832 -3.678 -15.000 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 5
+ATOM 8546 H HG . LEU D 1 17 ? -14.644 -2.932 -17.679 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 5
+ATOM 8547 H HD11 . LEU D 1 17 ? -15.782 -0.967 -15.775 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 5
+ATOM 8548 H HD12 . LEU D 1 17 ? -16.299 -1.420 -17.417 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 5
+ATOM 8549 H HD13 . LEU D 1 17 ? -16.724 -2.455 -16.032 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 5
+ATOM 8550 H HD21 . LEU D 1 17 ? -12.623 -2.317 -16.008 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 5
+ATOM 8551 H HD22 . LEU D 1 17 ? -13.102 -1.306 -17.393 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 5
+ATOM 8552 H HD23 . LEU D 1 17 ? -13.668 -0.898 -15.755 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 5
+ATOM 8553 N N . VAL D 1 18 ? -12.161 -5.964 -16.721 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 5
+ATOM 8554 C CA . VAL D 1 18 ? -10.941 -6.665 -16.356 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 5
+ATOM 8555 C C . VAL D 1 18 ? -9.735 -5.895 -16.898 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 5
+ATOM 8556 O O . VAL D 1 18 ? -9.331 -6.093 -18.043 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 5
+ATOM 8557 C CB . VAL D 1 18 ? -11.000 -8.111 -16.852 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 5
+ATOM 8558 C CG1 . VAL D 1 18 ? -9.626 -8.779 -16.759 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 5
+ATOM 8559 C CG2 . VAL D 1 18 ? -12.053 -8.912 -16.083 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 5
+ATOM 8560 H H . VAL D 1 18 ? -12.140 -5.517 -17.616 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 5
+ATOM 8561 H HA . VAL D 1 18 ? -10.886 -6.683 -15.268 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 5
+ATOM 8562 H HB . VAL D 1 18 ? -11.293 -8.093 -17.902 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 5
+ATOM 8563 H HG11 . VAL D 1 18 ? -9.256 -8.989 -17.762 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 5
+ATOM 8564 H HG12 . VAL D 1 18 ? -8.932 -8.112 -16.247 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 5
+ATOM 8565 H HG13 . VAL D 1 18 ? -9.713 -9.711 -16.201 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 5
+ATOM 8566 H HG21 . VAL D 1 18 ? -11.737 -9.024 -15.046 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 5
+ATOM 8567 H HG22 . VAL D 1 18 ? -13.006 -8.385 -16.118 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 5
+ATOM 8568 H HG23 . VAL D 1 18 ? -12.164 -9.896 -16.538 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 5
+ATOM 8569 N N . PHE D 1 19 ? -9.192 -5.035 -16.049 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 5
+ATOM 8570 C CA . PHE D 1 19 ? -8.040 -4.235 -16.428 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 5
+ATOM 8571 C C . PHE D 1 19 ? -6.763 -4.768 -15.774 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 5
+ATOM 8572 O O . PHE D 1 19 ? -6.505 -4.503 -14.601 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 5
+ATOM 8573 C CB . PHE D 1 19 ? -8.299 -2.812 -15.928 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 5
+ATOM 8574 C CG . PHE D 1 19 ? -7.516 -1.736 -16.683 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 5
+ATOM 8575 C CD1 . PHE D 1 19 ? -6.162 -1.676 -16.572 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 5
+ATOM 8576 C CD2 . PHE D 1 19 ? -8.175 -0.837 -17.463 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 5
+ATOM 8577 C CE1 . PHE D 1 19 ? -5.436 -0.677 -17.272 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 5
+ATOM 8578 C CE2 . PHE D 1 19 ? -7.448 0.162 -18.163 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 5
+ATOM 8579 C CZ . PHE D 1 19 ? -6.094 0.221 -18.053 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 5
+ATOM 8580 H H . PHE D 1 19 ? -9.526 -4.880 -15.119 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 5
+ATOM 8581 H HA . PHE D 1 19 ? -7.945 -4.298 -17.512 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 5
+ATOM 8582 H HB2 . PHE D 1 19 ? -9.364 -2.597 -16.011 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 5
+ATOM 8583 H HB3 . PHE D 1 19 ? -8.044 -2.758 -14.870 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 5
+ATOM 8584 H HD1 . PHE D 1 19 ? -5.634 -2.396 -15.946 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 5
+ATOM 8585 H HD2 . PHE D 1 19 ? -9.260 -0.885 -17.552 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 5
+ATOM 8586 H HE1 . PHE D 1 19 ? -4.350 -0.630 -17.184 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 5
+ATOM 8587 H HE2 . PHE D 1 19 ? -7.976 0.882 -18.789 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 5
+ATOM 8588 H HZ . PHE D 1 19 ? -5.536 0.988 -18.590 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 5
+ATOM 8589 N N . PHE D 1 20 ? -5.998 -5.509 -16.562 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 5
+ATOM 8590 C CA . PHE D 1 20 ? -4.755 -6.082 -16.074 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 5
+ATOM 8591 C C . PHE D 1 20 ? -3.547 -5.399 -16.719 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 5
+ATOM 8592 O O . PHE D 1 20 ? -3.296 -5.570 -17.911 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 5
+ATOM 8593 C CB . PHE D 1 20 ? -4.760 -7.561 -16.466 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 5
+ATOM 8594 C CG . PHE D 1 20 ? -4.927 -8.517 -15.284 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 5
+ATOM 8595 C CD1 . PHE D 1 20 ? -6.167 -8.778 -14.790 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 5
+ATOM 8596 C CD2 . PHE D 1 20 ? -3.835 -9.107 -14.726 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 5
+ATOM 8597 C CE1 . PHE D 1 20 ? -6.322 -9.666 -13.693 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 5
+ATOM 8598 C CE2 . PHE D 1 20 ? -3.991 -9.994 -13.629 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 5
+ATOM 8599 C CZ . PHE D 1 20 ? -5.231 -10.255 -13.136 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 5
+ATOM 8600 H H . PHE D 1 20 ? -6.215 -5.720 -17.515 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 5
+ATOM 8601 H HA . PHE D 1 20 ? -4.727 -5.923 -14.996 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 5
+ATOM 8602 H HB2 . PHE D 1 20 ? -5.566 -7.735 -17.178 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 5
+ATOM 8603 H HB3 . PHE D 1 20 ? -3.826 -7.793 -16.979 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 5
+ATOM 8604 H HD1 . PHE D 1 20 ? -7.042 -8.306 -15.237 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 5
+ATOM 8605 H HD2 . PHE D 1 20 ? -2.841 -8.898 -15.122 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 5
+ATOM 8606 H HE1 . PHE D 1 20 ? -7.316 -9.875 -13.298 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 5
+ATOM 8607 H HE2 . PHE D 1 20 ? -3.116 -10.467 -13.182 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 5
+ATOM 8608 H HZ . PHE D 1 20 ? -5.350 -10.937 -12.293 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 5
+ATOM 8609 N N . ALA D 1 21 ? -2.831 -4.641 -15.903 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 5
+ATOM 8610 C CA . ALA D 1 21 ? -1.655 -3.932 -16.379 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 5
+ATOM 8611 C C . ALA D 1 21 ? -0.398 -4.620 -15.842 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 5
+ATOM 8612 O O . ALA D 1 21 ? -0.021 -4.420 -14.689 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 5
+ATOM 8613 C CB . ALA D 1 21 ? -1.740 -2.463 -15.960 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 5
+ATOM 8614 H H . ALA D 1 21 ? -3.041 -4.507 -14.935 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 5
+ATOM 8615 H HA . ALA D 1 21 ? -1.652 -3.986 -17.468 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 5
+ATOM 8616 H HB1 . ALA D 1 21 ? -1.819 -2.399 -14.874 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 5
+ATOM 8617 H HB2 . ALA D 1 21 ? -0.843 -1.938 -16.290 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 5
+ATOM 8618 H HB3 . ALA D 1 21 ? -2.618 -2.005 -16.416 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 5
+ATOM 8619 N N . GLU D 1 22 ? 0.216 -5.415 -16.705 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 5
+ATOM 8620 C CA . GLU D 1 22 ? 1.423 -6.134 -16.332 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 5
+ATOM 8621 C C . GLU D 1 22 ? 2.646 -5.496 -16.994 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 5
+ATOM 8622 O O . GLU D 1 22 ? 2.663 -5.286 -18.206 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 5
+ATOM 8623 C CB . GLU D 1 22 ? 1.314 -7.616 -16.697 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 5
+ATOM 8624 C CG . GLU D 1 22 ? 0.652 -8.410 -15.569 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 5
+ATOM 8625 C CD . GLU D 1 22 ? 1.517 -9.603 -15.157 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 5
+ATOM 8626 O OE1 . GLU D 1 22 ? 1.631 -10.533 -15.984 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 5
+ATOM 8627 O OE2 . GLU D 1 22 ? 2.045 -9.557 -14.025 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 5
+ATOM 8628 H H . GLU D 1 22 ? -0.096 -5.572 -17.642 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 5
+ATOM 8629 H HA . GLU D 1 22 ? 1.495 -6.036 -15.249 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 5
+ATOM 8630 H HB2 . GLU D 1 22 ? 0.734 -7.727 -17.613 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 5
+ATOM 8631 H HB3 . GLU D 1 22 ? 2.306 -8.019 -16.897 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 5
+ATOM 8632 H HG2 . GLU D 1 22 ? 0.489 -7.760 -14.709 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 5
+ATOM 8633 H HG3 . GLU D 1 22 ? -0.328 -8.761 -15.893 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 5
+ATOM 8634 N N . ASP D 1 23 ? 3.641 -5.205 -16.169 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 5
+ATOM 8635 C CA . ASP D 1 23 ? 4.866 -4.595 -16.658 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 5
+ATOM 8636 C C . ASP D 1 23 ? 6.067 -5.268 -15.992 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 5
+ATOM 8637 O O . ASP D 1 23 ? 6.155 -5.318 -14.766 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 5
+ATOM 8638 C CB . ASP D 1 23 ? 4.912 -3.103 -16.320 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 5
+ATOM 8639 C CG . ASP D 1 23 ? 6.279 -2.441 -16.501 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 5
+ATOM 8640 O OD1 . ASP D 1 23 ? 7.162 -3.110 -17.080 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 5
+ATOM 8641 O OD2 . ASP D 1 23 ? 6.411 -1.281 -16.055 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 5
+ATOM 8642 H H . ASP D 1 23 ? 3.620 -5.378 -15.184 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 5
+ATOM 8643 H HA . ASP D 1 23 ? 4.849 -4.745 -17.738 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 5
+ATOM 8644 H HB2 . ASP D 1 23 ? 4.187 -2.582 -16.945 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 5
+ATOM 8645 H HB3 . ASP D 1 23 ? 4.594 -2.971 -15.286 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 5
+ATOM 8646 N N . VAL D 1 24 ? 6.964 -5.769 -16.829 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 5
+ATOM 8647 C CA . VAL D 1 24 ? 8.156 -6.437 -16.337 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 5
+ATOM 8648 C C . VAL D 1 24 ? 9.375 -5.549 -16.592 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 5
+ATOM 8649 O O . VAL D 1 24 ? 9.712 -5.265 -17.740 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 5
+ATOM 8650 C CB . VAL D 1 24 ? 8.282 -7.822 -16.976 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 5
+ATOM 8651 C CG1 . VAL D 1 24 ? 9.536 -8.544 -16.478 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 5
+ATOM 8652 C CG2 . VAL D 1 24 ? 7.028 -8.660 -16.718 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 5
+ATOM 8653 H H . VAL D 1 24 ? 6.885 -5.725 -17.825 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 5
+ATOM 8654 H HA . VAL D 1 24 ? 8.038 -6.571 -15.262 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 5
+ATOM 8655 H HB . VAL D 1 24 ? 8.379 -7.687 -18.053 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 5
+ATOM 8656 H HG11 . VAL D 1 24 ? 9.335 -8.993 -15.506 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 5
+ATOM 8657 H HG12 . VAL D 1 24 ? 9.813 -9.323 -17.188 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 5
+ATOM 8658 H HG13 . VAL D 1 24 ? 10.354 -7.829 -16.386 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 5
+ATOM 8659 H HG21 . VAL D 1 24 ? 6.144 -8.082 -16.984 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 5
+ATOM 8660 H HG22 . VAL D 1 24 ? 7.066 -9.566 -17.325 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 5
+ATOM 8661 H HG23 . VAL D 1 24 ? 6.982 -8.931 -15.664 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 5
+ATOM 8662 N N . GLY D 1 25 ? 10.003 -5.134 -15.501 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 5
+ATOM 8663 C CA . GLY D 1 25 ? 11.178 -4.283 -15.592 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 5
+ATOM 8664 C C . GLY D 1 25 ? 12.387 -4.944 -14.927 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 5
+ATOM 8665 O O . GLY D 1 25 ? 12.357 -5.244 -13.735 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 5
+ATOM 8666 H H . GLY D 1 25 ? 9.723 -5.369 -14.571 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 5
+ATOM 8667 H HA2 . GLY D 1 25 ? 11.401 -4.076 -16.639 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 5
+ATOM 8668 H HA3 . GLY D 1 25 ? 10.975 -3.324 -15.115 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 5
+ATOM 8669 N N . SER D 1 26 ? 13.422 -5.152 -15.728 1.00 0.00 ? ? ? ? ? ? 26 SER D N 5
+ATOM 8670 C CA . SER D 1 26 ? 14.639 -5.772 -15.232 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 5
+ATOM 8671 C C . SER D 1 26 ? 15.708 -4.706 -14.990 1.00 0.00 ? ? ? ? ? ? 26 SER D C 5
+ATOM 8672 O O . SER D 1 26 ? 16.387 -4.279 -15.922 1.00 0.00 ? ? ? ? ? ? 26 SER D O 5
+ATOM 8673 C CB . SER D 1 26 ? 15.155 -6.830 -16.210 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 5
+ATOM 8674 O OG . SER D 1 26 ? 15.315 -8.101 -15.586 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 5
+ATOM 8675 H H . SER D 1 26 ? 13.438 -4.905 -16.697 1.00 0.00 ? ? ? ? ? ? 26 SER D H 5
+ATOM 8676 H HA . SER D 1 26 ? 14.357 -6.252 -14.295 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 5
+ATOM 8677 H HB2 . SER D 1 26 ? 14.462 -6.921 -17.046 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 5
+ATOM 8678 H HB3 . SER D 1 26 ? 16.111 -6.506 -16.622 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 5
+ATOM 8679 H HG . SER D 1 26 ? 14.477 -8.352 -15.101 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 5
+ATOM 8680 N N . ASN D 1 27 ? 15.825 -4.306 -13.732 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 5
+ATOM 8681 C CA . ASN D 1 27 ? 16.801 -3.297 -13.355 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 5
+ATOM 8682 C C . ASN D 1 27 ? 16.289 -1.917 -13.774 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 5
+ATOM 8683 O O . ASN D 1 27 ? 16.560 -1.462 -14.884 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 5
+ATOM 8684 C CB . ASN D 1 27 ? 18.140 -3.538 -14.055 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 5
+ATOM 8685 C CG . ASN D 1 27 ? 19.293 -3.532 -13.049 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 5
+ATOM 8686 O OD1 . ASN D 1 27 ? 19.599 -4.526 -12.411 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 5
+ATOM 8687 N ND2 . ASN D 1 27 ? 19.913 -2.360 -12.943 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 5
+ATOM 8688 H H . ASN D 1 27 ? 15.269 -4.658 -12.979 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 5
+ATOM 8689 H HA . ASN D 1 27 ? 16.908 -3.392 -12.275 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 5
+ATOM 8690 H HB2 . ASN D 1 27 ? 18.114 -4.493 -14.579 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 5
+ATOM 8691 H HB3 . ASN D 1 27 ? 18.305 -2.766 -14.807 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 5
+ATOM 8692 H HD21 . ASN D 1 27 ? 19.611 -1.583 -13.496 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 5
+ATOM 8693 H HD22 . ASN D 1 27 ? 20.680 -2.256 -12.311 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 5
+ATOM 8694 N N . LYS D 1 28 ? 15.559 -1.291 -12.863 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 5
+ATOM 8695 C CA . LYS D 1 28 ? 15.007 0.028 -13.125 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 5
+ATOM 8696 C C . LYS D 1 28 ? 15.986 1.093 -12.627 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 5
+ATOM 8697 O O . LYS D 1 28 ? 16.998 0.771 -12.006 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 5
+ATOM 8698 C CB . LYS D 1 28 ? 13.606 0.151 -12.523 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 5
+ATOM 8699 C CG . LYS D 1 28 ? 12.629 -0.805 -13.209 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 5
+ATOM 8700 C CD . LYS D 1 28 ? 11.181 -0.455 -12.856 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 5
+ATOM 8701 C CE . LYS D 1 28 ? 10.287 -1.695 -12.918 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 5
+ATOM 8702 N NZ . LYS D 1 28 ? 9.115 -1.534 -12.029 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 5
+ATOM 8703 H H . LYS D 1 28 ? 15.343 -1.668 -11.963 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 5
+ATOM 8704 H HA . LYS D 1 28 ? 14.904 0.131 -14.205 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 5
+ATOM 8705 H HB2 . LYS D 1 28 ? 13.644 -0.066 -11.455 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 5
+ATOM 8706 H HB3 . LYS D 1 28 ? 13.251 1.177 -12.626 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 5
+ATOM 8707 H HG2 . LYS D 1 28 ? 12.765 -0.756 -14.289 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 5
+ATOM 8708 H HG3 . LYS D 1 28 ? 12.843 -1.829 -12.906 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 5
+ATOM 8709 H HD2 . LYS D 1 28 ? 11.141 -0.023 -11.856 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 5
+ATOM 8710 H HD3 . LYS D 1 28 ? 10.808 0.302 -13.546 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 5
+ATOM 8711 H HE2 . LYS D 1 28 ? 9.954 -1.860 -13.943 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 5
+ATOM 8712 H HE3 . LYS D 1 28 ? 10.857 -2.577 -12.623 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 5
+ATOM 8713 H HZ1 . LYS D 1 28 ? 8.988 -2.368 -11.491 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 5
+ATOM 8714 H HZ2 . LYS D 1 28 ? 9.267 -0.760 -11.414 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 5
+ATOM 8715 H HZ3 . LYS D 1 28 ? 8.299 -1.366 -12.581 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 5
+ATOM 8716 N N . GLY D 1 29 ? 15.652 2.342 -12.920 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 5
+ATOM 8717 C CA . GLY D 1 29 ? 16.489 3.456 -12.510 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 5
+ATOM 8718 C C . GLY D 1 29 ? 15.892 4.788 -12.970 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 5
+ATOM 8719 O O . GLY D 1 29 ? 14.722 4.852 -13.344 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 5
+ATOM 8720 H H . GLY D 1 29 ? 14.828 2.596 -13.426 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 5
+ATOM 8721 H HA2 . GLY D 1 29 ? 16.595 3.457 -11.425 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 5
+ATOM 8722 H HA3 . GLY D 1 29 ? 17.489 3.338 -12.928 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 5
+ATOM 8723 N N . ALA D 1 30 ? 16.724 5.819 -12.928 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 5
+ATOM 8724 C CA . ALA D 1 30 ? 16.293 7.145 -13.335 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 5
+ATOM 8725 C C . ALA D 1 30 ? 15.078 7.560 -12.504 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 5
+ATOM 8726 O O . ALA D 1 30 ? 15.142 7.591 -11.276 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 5
+ATOM 8727 C CB . ALA D 1 30 ? 16.001 7.148 -14.837 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 5
+ATOM 8728 H H . ALA D 1 30 ? 17.674 5.758 -12.622 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 5
+ATOM 8729 H HA . ALA D 1 30 ? 17.112 7.836 -13.136 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 5
+ATOM 8730 H HB1 . ALA D 1 30 ? 15.746 8.159 -15.156 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 5
+ATOM 8731 H HB2 . ALA D 1 30 ? 16.883 6.807 -15.380 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 5
+ATOM 8732 H HB3 . ALA D 1 30 ? 15.165 6.480 -15.046 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 5
+ATOM 8733 N N . ILE D 1 31 ? 13.997 7.868 -13.206 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 5
+ATOM 8734 C CA . ILE D 1 31 ? 12.769 8.280 -12.548 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 5
+ATOM 8735 C C . ILE D 1 31 ? 11.594 7.494 -13.134 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 5
+ATOM 8736 O O . ILE D 1 31 ? 11.183 7.738 -14.267 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 5
+ATOM 8737 C CB . ILE D 1 31 ? 12.598 9.798 -12.634 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 5
+ATOM 8738 C CG1 . ILE D 1 31 ? 13.769 10.520 -11.965 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 5
+ATOM 8739 C CG2 . ILE D 1 31 ? 11.250 10.231 -12.055 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 5
+ATOM 8740 C CD1 . ILE D 1 31 ? 14.308 11.637 -12.862 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 5
+ATOM 8741 H H . ILE D 1 31 ? 13.953 7.840 -14.205 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 5
+ATOM 8742 H HA . ILE D 1 31 ? 12.863 8.025 -11.493 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 5
+ATOM 8743 H HB . ILE D 1 31 ? 12.602 10.083 -13.686 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 5
+ATOM 8744 H HG12 . ILE D 1 31 ? 13.445 10.939 -11.012 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 5
+ATOM 8745 H HG13 . ILE D 1 31 ? 14.564 9.808 -11.747 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 5
+ATOM 8746 H HG21 . ILE D 1 31 ? 10.575 9.376 -12.026 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 5
+ATOM 8747 H HG22 . ILE D 1 31 ? 11.395 10.613 -11.044 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 5
+ATOM 8748 H HG23 . ILE D 1 31 ? 10.819 11.012 -12.681 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 5
+ATOM 8749 H HD11 . ILE D 1 31 ? 15.001 12.257 -12.293 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 5
+ATOM 8750 H HD12 . ILE D 1 31 ? 14.828 11.199 -13.714 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 5
+ATOM 8751 H HD13 . ILE D 1 31 ? 13.480 12.250 -13.217 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 5
+ATOM 8752 N N . ILE D 1 32 ? 11.086 6.567 -12.335 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 5
+ATOM 8753 C CA . ILE D 1 32 ? 9.967 5.744 -12.759 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 5
+ATOM 8754 C C . ILE D 1 32 ? 8.657 6.417 -12.342 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 5
+ATOM 8755 O O . ILE D 1 32 ? 8.488 6.785 -11.180 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 5
+ATOM 8756 C CB . ILE D 1 32 ? 10.120 4.317 -12.231 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 5
+ATOM 8757 C CG1 . ILE D 1 32 ? 11.522 3.774 -12.518 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 5
+ATOM 8758 C CG2 . ILE D 1 32 ? 9.026 3.405 -12.790 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 5
+ATOM 8759 C CD1 . ILE D 1 32 ? 11.634 3.282 -13.963 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 5
+ATOM 8760 H H . ILE D 1 32 ? 11.426 6.376 -11.414 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 5
+ATOM 8761 H HA . ILE D 1 32 ? 9.995 5.690 -13.848 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 5
+ATOM 8762 H HB . ILE D 1 32 ? 9.999 4.338 -11.148 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 5
+ATOM 8763 H HG12 . ILE D 1 32 ? 12.262 4.553 -12.337 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 5
+ATOM 8764 H HG13 . ILE D 1 32 ? 11.746 2.956 -11.834 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 5
+ATOM 8765 H HG21 . ILE D 1 32 ? 9.041 3.445 -13.880 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 5
+ATOM 8766 H HG22 . ILE D 1 32 ? 9.205 2.380 -12.463 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 5
+ATOM 8767 H HG23 . ILE D 1 32 ? 8.054 3.738 -12.427 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 5
+ATOM 8768 H HD11 . ILE D 1 32 ? 11.337 4.081 -14.642 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 5
+ATOM 8769 H HD12 . ILE D 1 32 ? 12.665 2.994 -14.169 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 5
+ATOM 8770 H HD13 . ILE D 1 32 ? 10.981 2.422 -14.106 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 5
+ATOM 8771 N N . GLY D 1 33 ? 7.765 6.557 -13.311 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 5
+ATOM 8772 C CA . GLY D 1 33 ? 6.477 7.179 -13.059 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 5
+ATOM 8773 C C . GLY D 1 33 ? 5.342 6.161 -13.190 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 5
+ATOM 8774 O O . GLY D 1 33 ? 4.892 5.866 -14.296 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 5
+ATOM 8775 H H . GLY D 1 33 ? 7.911 6.255 -14.253 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 5
+ATOM 8776 H HA2 . GLY D 1 33 ? 6.468 7.612 -12.059 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 5
+ATOM 8777 H HA3 . GLY D 1 33 ? 6.320 7.997 -13.762 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 5
+ATOM 8778 N N . LEU D 1 34 ? 4.911 5.652 -12.045 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 5
+ATOM 8779 C CA . LEU D 1 34 ? 3.837 4.674 -12.018 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 5
+ATOM 8780 C C . LEU D 1 34 ? 2.550 5.349 -11.540 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 5
+ATOM 8781 O O . LEU D 1 34 ? 2.382 5.598 -10.347 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 5
+ATOM 8782 C CB . LEU D 1 34 ? 4.241 3.458 -11.182 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 5
+ATOM 8783 C CG . LEU D 1 34 ? 3.909 2.090 -11.783 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 5
+ATOM 8784 C CD1 . LEU D 1 34 ? 2.397 1.910 -11.932 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 5
+ATOM 8785 C CD2 . LEU D 1 34 ? 4.645 1.880 -13.107 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 5
+ATOM 8786 H H . LEU D 1 34 ? 5.282 5.897 -11.149 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 5
+ATOM 8787 H HA . LEU D 1 34 ? 3.686 4.326 -13.040 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 5
+ATOM 8788 H HB2 . LEU D 1 34 ? 5.316 3.504 -11.005 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 5
+ATOM 8789 H HB3 . LEU D 1 34 ? 3.755 3.533 -10.209 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 5
+ATOM 8790 H HG . LEU D 1 34 ? 4.259 1.321 -11.095 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 5
+ATOM 8791 H HD11 . LEU D 1 34 ? 1.900 2.233 -11.017 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 5
+ATOM 8792 H HD12 . LEU D 1 34 ? 2.040 2.509 -12.770 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 5
+ATOM 8793 H HD13 . LEU D 1 34 ? 2.173 0.859 -12.115 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 5
+ATOM 8794 H HD21 . LEU D 1 34 ? 5.150 2.803 -13.393 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 5
+ATOM 8795 H HD22 . LEU D 1 34 ? 5.381 1.085 -12.992 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 5
+ATOM 8796 H HD23 . LEU D 1 34 ? 3.928 1.603 -13.881 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 5
+ATOM 8797 N N . MET D 1 35 ? 1.674 5.625 -12.495 1.00 0.00 ? ? ? ? ? ? 35 MET D N 5
+ATOM 8798 C CA . MET D 1 35 ? 0.408 6.266 -12.186 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 5
+ATOM 8799 C C . MET D 1 35 ? -0.770 5.382 -12.602 1.00 0.00 ? ? ? ? ? ? 35 MET D C 5
+ATOM 8800 O O . MET D 1 35 ? -1.175 5.388 -13.763 1.00 0.00 ? ? ? ? ? ? 35 MET D O 5
+ATOM 8801 C CB . MET D 1 35 ? 0.323 7.608 -12.917 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 5
+ATOM 8802 C CG . MET D 1 35 ? -0.713 8.524 -12.263 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 5
+ATOM 8803 S SD . MET D 1 35 ? -0.032 10.160 -12.047 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 5
+ATOM 8804 C CE . MET D 1 35 ? -1.180 11.107 -13.031 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 5
+ATOM 8805 H H . MET D 1 35 ? 1.819 5.419 -13.463 1.00 0.00 ? ? ? ? ? ? 35 MET D H 5
+ATOM 8806 H HA . MET D 1 35 ? 0.405 6.403 -11.105 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 5
+ATOM 8807 H HB2 . MET D 1 35 ? 1.299 8.093 -12.910 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 5
+ATOM 8808 H HB3 . MET D 1 35 ? 0.057 7.441 -13.961 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 5
+ATOM 8809 H HG2 . MET D 1 35 ? -1.610 8.574 -12.881 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 5
+ATOM 8810 H HG3 . MET D 1 35 ? -1.014 8.116 -11.298 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 5
+ATOM 8811 H HE1 . MET D 1 35 ? -1.338 10.607 -13.987 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 5
+ATOM 8812 H HE2 . MET D 1 35 ? -2.130 11.189 -12.503 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 5
+ATOM 8813 H HE3 . MET D 1 35 ? -0.774 12.103 -13.205 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 5
+ATOM 8814 N N . VAL D 1 36 ? -1.286 4.644 -11.630 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 5
+ATOM 8815 C CA . VAL D 1 36 ? -2.409 3.757 -11.880 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 5
+ATOM 8816 C C . VAL D 1 36 ? -3.619 4.232 -11.072 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 5
+ATOM 8817 O O . VAL D 1 36 ? -3.671 4.044 -9.858 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 5
+ATOM 8818 C CB . VAL D 1 36 ? -2.013 2.312 -11.570 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 5
+ATOM 8819 C CG1 . VAL D 1 36 ? -1.359 2.206 -10.191 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 5
+ATOM 8820 C CG2 . VAL D 1 36 ? -3.220 1.378 -11.677 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 5
+ATOM 8821 H H . VAL D 1 36 ? -0.950 4.646 -10.688 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 5
+ATOM 8822 H HA . VAL D 1 36 ? -2.649 3.821 -12.942 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 5
+ATOM 8823 H HB . VAL D 1 36 ? -1.280 1.998 -12.314 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 5
+ATOM 8824 H HG11 . VAL D 1 36 ? -0.398 2.720 -10.205 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 5
+ATOM 8825 H HG12 . VAL D 1 36 ? -2.006 2.667 -9.446 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 5
+ATOM 8826 H HG13 . VAL D 1 36 ? -1.205 1.156 -9.941 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 5
+ATOM 8827 H HG21 . VAL D 1 36 ? -3.154 0.608 -10.908 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 5
+ATOM 8828 H HG22 . VAL D 1 36 ? -4.137 1.951 -11.539 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 5
+ATOM 8829 H HG23 . VAL D 1 36 ? -3.230 0.908 -12.661 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 5
+ATOM 8830 N N . GLY D 1 37 ? -4.561 4.838 -11.780 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 5
+ATOM 8831 C CA . GLY D 1 37 ? -5.767 5.341 -11.144 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 5
+ATOM 8832 C C . GLY D 1 37 ? -7.006 4.604 -11.657 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 5
+ATOM 8833 O O . GLY D 1 37 ? -7.025 4.130 -12.792 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 5
+ATOM 8834 H H . GLY D 1 37 ? -4.511 4.986 -12.767 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 5
+ATOM 8835 H HA2 . GLY D 1 37 ? -5.689 5.220 -10.063 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 5
+ATOM 8836 H HA3 . GLY D 1 37 ? -5.867 6.408 -11.339 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 5
+ATOM 8837 N N . GLY D 1 38 ? -8.010 4.531 -10.796 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 5
+ATOM 8838 C CA . GLY D 1 38 ? -9.250 3.861 -11.148 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 5
+ATOM 8839 C C . GLY D 1 38 ? -10.462 4.659 -10.664 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 5
+ATOM 8840 O O . GLY D 1 38 ? -10.839 4.576 -9.496 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 5
+ATOM 8841 H H . GLY D 1 38 ? -7.987 4.919 -9.875 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 5
+ATOM 8842 H HA2 . GLY D 1 38 ? -9.304 3.731 -12.229 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 5
+ATOM 8843 H HA3 . GLY D 1 38 ? -9.267 2.864 -10.707 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 5
+ATOM 8844 N N . VAL D 1 39 ? -11.040 5.415 -11.587 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 5
+ATOM 8845 C CA . VAL D 1 39 ? -12.201 6.228 -11.269 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 5
+ATOM 8846 C C . VAL D 1 39 ? -13.438 5.628 -11.942 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 5
+ATOM 8847 O O . VAL D 1 39 ? -13.418 5.335 -13.136 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 5
+ATOM 8848 C CB . VAL D 1 39 ? -11.948 7.682 -11.671 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 5
+ATOM 8849 C CG1 . VAL D 1 39 ? -11.729 7.803 -13.181 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 5
+ATOM 8850 C CG2 . VAL D 1 39 ? -13.093 8.586 -11.209 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 5
+ATOM 8851 H H . VAL D 1 39 ? -10.727 5.477 -12.535 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 5
+ATOM 8852 H HA . VAL D 1 39 ? -12.339 6.195 -10.188 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 5
+ATOM 8853 H HB . VAL D 1 39 ? -11.038 8.014 -11.173 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 5
+ATOM 8854 H HG11 . VAL D 1 39 ? -12.638 7.507 -13.705 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 5
+ATOM 8855 H HG12 . VAL D 1 39 ? -11.485 8.836 -13.431 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 5
+ATOM 8856 H HG13 . VAL D 1 39 ? -10.908 7.153 -13.482 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 5
+ATOM 8857 H HG21 . VAL D 1 39 ? -13.832 8.673 -12.006 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 5
+ATOM 8858 H HG22 . VAL D 1 39 ? -13.562 8.155 -10.324 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 5
+ATOM 8859 H HG23 . VAL D 1 39 ? -12.701 9.574 -10.968 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 5
+ATOM 8860 N N . VAL D 1 40 ? -14.484 5.462 -11.145 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 5
+ATOM 8861 C CA . VAL D 1 40 ? -15.726 4.903 -11.649 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 5
+ATOM 8862 C C . VAL D 1 40 ? -16.905 5.695 -11.079 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 5
+ATOM 8863 O O . VAL D 1 40 ? -17.026 5.846 -9.864 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 5
+ATOM 8864 C CB . VAL D 1 40 ? -15.797 3.409 -11.325 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 5
+ATOM 8865 C CG1 . VAL D 1 40 ? -17.170 2.835 -11.680 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 5
+ATOM 8866 C CG2 . VAL D 1 40 ? -14.681 2.641 -12.035 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 5
+ATOM 8867 H H . VAL D 1 40 ? -14.491 5.703 -10.175 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 5
+ATOM 8868 H HA . VAL D 1 40 ? -15.721 5.013 -12.733 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 5
+ATOM 8869 H HB . VAL D 1 40 ? -15.653 3.292 -10.251 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 5
+ATOM 8870 H HG11 . VAL D 1 40 ? -17.834 3.644 -11.984 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 5
+ATOM 8871 H HG12 . VAL D 1 40 ? -17.066 2.123 -12.498 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 5
+ATOM 8872 H HG13 . VAL D 1 40 ? -17.589 2.330 -10.809 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 5
+ATOM 8873 H HG21 . VAL D 1 40 ? -15.103 1.770 -12.538 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 5
+ATOM 8874 H HG22 . VAL D 1 40 ? -14.204 3.289 -12.770 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 5
+ATOM 8875 H HG23 . VAL D 1 40 ? -13.942 2.315 -11.304 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 5
+ATOM 8876 N N . ILE D 1 41 ? -17.744 6.179 -11.983 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 5
+ATOM 8877 C CA . ILE D 1 41 ? -18.909 6.951 -11.586 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 5
+ATOM 8878 C C . ILE D 1 41 ? -20.176 6.224 -12.039 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 5
+ATOM 8879 O O . ILE D 1 41 ? -20.355 5.963 -13.228 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 5
+ATOM 8880 C CB . ILE D 1 41 ? -18.803 8.386 -12.106 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 5
+ATOM 8881 C CG1 . ILE D 1 41 ? -17.682 9.146 -11.395 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 5
+ATOM 8882 C CG2 . ILE D 1 41 ? -20.147 9.110 -11.995 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 5
+ATOM 8883 C CD1 . ILE D 1 41 ? -17.187 10.316 -12.247 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 5
+ATOM 8884 H H . ILE D 1 41 ? -17.638 6.051 -12.969 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 5
+ATOM 8885 H HA . ILE D 1 41 ? -18.911 7.002 -10.497 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 5
+ATOM 8886 H HB . ILE D 1 41 ? -18.545 8.347 -13.165 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 5
+ATOM 8887 H HG12 . ILE D 1 41 ? -18.041 9.517 -10.435 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 5
+ATOM 8888 H HG13 . ILE D 1 41 ? -16.854 8.468 -11.186 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 5
+ATOM 8889 H HG21 . ILE D 1 41 ? -20.011 10.046 -11.454 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 5
+ATOM 8890 H HG22 . ILE D 1 41 ? -20.530 9.320 -12.993 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 5
+ATOM 8891 H HG23 . ILE D 1 41 ? -20.856 8.479 -11.458 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 5
+ATOM 8892 H HD11 . ILE D 1 41 ? -17.211 11.232 -11.656 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 5
+ATOM 8893 H HD12 . ILE D 1 41 ? -16.165 10.122 -12.574 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 5
+ATOM 8894 H HD13 . ILE D 1 41 ? -17.832 10.430 -13.119 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 5
+ATOM 8895 N N . ALA D 1 42 ? -21.024 5.918 -11.068 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 5
+ATOM 8896 C CA . ALA D 1 42 ? -22.270 5.227 -11.353 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 5
+ATOM 8897 C C . ALA D 1 42 ? -23.444 6.078 -10.864 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 5
+ATOM 8898 O O . ALA D 1 42 ? -23.676 6.189 -9.661 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 5
+ATOM 8899 C CB . ALA D 1 42 ? -22.245 3.841 -10.704 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 5
+ATOM 8900 H H . ALA D 1 42 ? -20.871 6.134 -10.104 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 5
+ATOM 8901 H HA . ALA D 1 42 ? -22.344 5.107 -12.433 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 5
+ATOM 8902 H HB1 . ALA D 1 42 ? -23.256 3.437 -10.671 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 5
+ATOM 8903 H HB2 . ALA D 1 42 ? -21.607 3.178 -11.288 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 5
+ATOM 8904 H HB3 . ALA D 1 42 ? -21.853 3.922 -9.690 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 5
+ATOM 8905 N N . LEU E 1 17 ? -15.182 -6.980 -21.013 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 5
+ATOM 8906 C CA . LEU E 1 17 ? -14.129 -5.982 -21.080 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 5
+ATOM 8907 C C . LEU E 1 17 ? -12.831 -6.579 -20.534 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 5
+ATOM 8908 O O . LEU E 1 17 ? -12.457 -6.321 -19.391 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 5
+ATOM 8909 C CB . LEU E 1 17 ? -14.562 -4.698 -20.368 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 5
+ATOM 8910 C CG . LEU E 1 17 ? -14.531 -3.421 -21.211 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 5
+ATOM 8911 C CD1 . LEU E 1 17 ? -15.712 -2.510 -20.869 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 5
+ATOM 8912 C CD2 . LEU E 1 17 ? -13.190 -2.700 -21.064 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 5
+ATOM 8913 H H . LEU E 1 17 ? -15.403 -7.302 -20.092 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 5
+ATOM 8914 H HA . LEU E 1 17 ? -13.980 -5.733 -22.130 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 5
+ATOM 8915 H HB2 . LEU E 1 17 ? -15.576 -4.838 -19.994 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 5
+ATOM 8916 H HB3 . LEU E 1 17 ? -13.919 -4.553 -19.500 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 5
+ATOM 8917 H HG . LEU E 1 17 ? -14.634 -3.701 -22.259 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 5
+ATOM 8918 H HD11 . LEU E 1 17 ? -15.555 -1.529 -21.317 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 5
+ATOM 8919 H HD12 . LEU E 1 17 ? -16.632 -2.945 -21.259 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 5
+ATOM 8920 H HD13 . LEU E 1 17 ? -15.789 -2.407 -19.786 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 5
+ATOM 8921 H HD21 . LEU E 1 17 ? -13.049 -2.020 -21.904 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 5
+ATOM 8922 H HD22 . LEU E 1 17 ? -13.181 -2.134 -20.133 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 5
+ATOM 8923 H HD23 . LEU E 1 17 ? -12.383 -3.433 -21.052 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 5
+ATOM 8924 N N . VAL E 1 18 ? -12.179 -7.366 -21.377 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 5
+ATOM 8925 C CA . VAL E 1 18 ? -10.930 -8.002 -20.994 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 5
+ATOM 8926 C C . VAL E 1 18 ? -9.757 -7.184 -21.539 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 5
+ATOM 8927 O O . VAL E 1 18 ? -9.399 -7.310 -22.708 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 5
+ATOM 8928 C CB . VAL E 1 18 ? -10.916 -9.456 -21.469 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 5
+ATOM 8929 C CG1 . VAL E 1 18 ? -9.511 -10.054 -21.365 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 5
+ATOM 8930 C CG2 . VAL E 1 18 ? -11.928 -10.298 -20.689 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 5
+ATOM 8931 H H . VAL E 1 18 ? -12.490 -7.571 -22.305 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 5
+ATOM 8932 H HA . VAL E 1 18 ? -10.881 -8.002 -19.905 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 5
+ATOM 8933 H HB . VAL E 1 18 ? -11.208 -9.469 -22.519 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 5
+ATOM 8934 H HG11 . VAL E 1 18 ? -9.557 -10.998 -20.823 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 5
+ATOM 8935 H HG12 . VAL E 1 18 ? -9.116 -10.228 -22.366 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 5
+ATOM 8936 H HG13 . VAL E 1 18 ? -8.860 -9.360 -20.833 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 5
+ATOM 8937 H HG21 . VAL E 1 18 ? -11.627 -10.350 -19.643 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 5
+ATOM 8938 H HG22 . VAL E 1 18 ? -12.914 -9.839 -20.761 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 5
+ATOM 8939 H HG23 . VAL E 1 18 ? -11.964 -11.304 -21.108 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 5
+ATOM 8940 N N . PHE E 1 19 ? -9.193 -6.364 -20.665 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 5
+ATOM 8941 C CA . PHE E 1 19 ? -8.068 -5.525 -21.043 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 5
+ATOM 8942 C C . PHE E 1 19 ? -6.783 -5.986 -20.353 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 5
+ATOM 8943 O O . PHE E 1 19 ? -6.451 -5.510 -19.269 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 5
+ATOM 8944 C CB . PHE E 1 19 ? -8.397 -4.103 -20.585 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 5
+ATOM 8945 C CG . PHE E 1 19 ? -7.558 -3.020 -21.267 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 5
+ATOM 8946 C CD1 . PHE E 1 19 ? -6.204 -3.025 -21.135 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 5
+ATOM 8947 C CD2 . PHE E 1 19 ? -8.165 -2.052 -22.004 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 5
+ATOM 8948 C CE1 . PHE E 1 19 ? -5.425 -2.021 -21.767 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 5
+ATOM 8949 C CE2 . PHE E 1 19 ? -7.386 -1.048 -22.637 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 5
+ATOM 8950 C CZ . PHE E 1 19 ? -6.032 -1.053 -22.505 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 5
+ATOM 8951 H H . PHE E 1 19 ? -9.491 -6.267 -19.715 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 5
+ATOM 8952 H HA . PHE E 1 19 ? -7.950 -5.612 -22.123 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 5
+ATOM 8953 H HB2 . PHE E 1 19 ? -9.452 -3.905 -20.777 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 5
+ATOM 8954 H HB3 . PHE E 1 19 ? -8.251 -4.036 -19.507 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 5
+ATOM 8955 H HD1 . PHE E 1 19 ? -5.717 -3.801 -20.543 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 5
+ATOM 8956 H HD2 . PHE E 1 19 ? -9.250 -2.048 -22.110 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 5
+ATOM 8957 H HE1 . PHE E 1 19 ? -4.340 -2.025 -21.661 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 5
+ATOM 8958 H HE2 . PHE E 1 19 ? -7.873 -0.272 -23.228 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 5
+ATOM 8959 H HZ . PHE E 1 19 ? -5.435 -0.282 -22.990 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 5
+ATOM 8960 N N . PHE E 1 20 ? -6.095 -6.908 -21.010 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 5
+ATOM 8961 C CA . PHE E 1 20 ? -4.853 -7.439 -20.473 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 5
+ATOM 8962 C C . PHE E 1 20 ? -3.643 -6.809 -21.165 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 5
+ATOM 8963 O O . PHE E 1 20 ? -3.462 -6.966 -22.371 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 5
+ATOM 8964 C CB . PHE E 1 20 ? -4.855 -8.945 -20.746 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 5
+ATOM 8965 C CG . PHE E 1 20 ? -4.793 -9.806 -19.483 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 5
+ATOM 8966 C CD1 . PHE E 1 20 ? -3.598 -10.035 -18.875 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 5
+ATOM 8967 C CD2 . PHE E 1 20 ? -5.931 -10.343 -18.969 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 5
+ATOM 8968 C CE1 . PHE E 1 20 ? -3.540 -10.835 -17.703 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 5
+ATOM 8969 C CE2 . PHE E 1 20 ? -5.873 -11.143 -17.797 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 5
+ATOM 8970 C CZ . PHE E 1 20 ? -4.678 -11.372 -17.189 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 5
+ATOM 8971 H H . PHE E 1 20 ? -6.372 -7.291 -21.891 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 5
+ATOM 8972 H HA . PHE E 1 20 ? -4.830 -7.196 -19.411 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 5
+ATOM 8973 H HB2 . PHE E 1 20 ? -5.756 -9.201 -21.304 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 5
+ATOM 8974 H HB3 . PHE E 1 20 ? -4.005 -9.189 -21.383 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 5
+ATOM 8975 H HD1 . PHE E 1 20 ? -2.685 -9.604 -19.287 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 5
+ATOM 8976 H HD2 . PHE E 1 20 ? -6.889 -10.160 -19.457 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 5
+ATOM 8977 H HE1 . PHE E 1 20 ? -2.582 -11.018 -17.215 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 5
+ATOM 8978 H HE2 . PHE E 1 20 ? -6.786 -11.574 -17.385 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 5
+ATOM 8979 H HZ . PHE E 1 20 ? -4.633 -11.985 -16.289 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 5
+ATOM 8980 N N . ALA E 1 21 ? -2.845 -6.110 -20.371 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 5
+ATOM 8981 C CA . ALA E 1 21 ? -1.657 -5.455 -20.892 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 5
+ATOM 8982 C C . ALA E 1 21 ? -0.413 -6.111 -20.289 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 5
+ATOM 8983 O O . ALA E 1 21 ? -0.286 -6.206 -19.070 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 5
+ATOM 8984 C CB . ALA E 1 21 ? -1.728 -3.956 -20.594 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 5
+ATOM 8985 H H . ALA E 1 21 ? -3.000 -5.987 -19.391 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 5
+ATOM 8986 H HA . ALA E 1 21 ? -1.646 -5.598 -21.972 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 5
+ATOM 8987 H HB1 . ALA E 1 21 ? -1.649 -3.396 -21.526 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 5
+ATOM 8988 H HB2 . ALA E 1 21 ? -2.678 -3.726 -20.111 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 5
+ATOM 8989 H HB3 . ALA E 1 21 ? -0.907 -3.678 -19.933 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 5
+ATOM 8990 N N . GLU E 1 22 ? 0.473 -6.547 -21.172 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 5
+ATOM 8991 C CA . GLU E 1 22 ? 1.702 -7.191 -20.743 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 5
+ATOM 8992 C C . GLU E 1 22 ? 2.897 -6.619 -21.509 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 5
+ATOM 8993 O O . GLU E 1 22 ? 3.045 -6.862 -22.706 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 5
+ATOM 8994 C CB . GLU E 1 22 ? 1.616 -8.709 -20.916 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 5
+ATOM 8995 C CG . GLU E 1 22 ? 2.889 -9.392 -20.414 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 5
+ATOM 8996 C CD . GLU E 1 22 ? 2.557 -10.514 -19.428 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 5
+ATOM 8997 O OE1 . GLU E 1 22 ? 1.561 -11.223 -19.690 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 5
+ATOM 8998 O OE2 . GLU E 1 22 ? 3.306 -10.638 -18.435 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 5
+ATOM 8999 H H . GLU E 1 22 ? 0.362 -6.466 -22.163 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 5
+ATOM 9000 H HA . GLU E 1 22 ? 1.797 -6.958 -19.682 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 5
+ATOM 9001 H HB2 . GLU E 1 22 ? 0.754 -9.092 -20.371 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 5
+ATOM 9002 H HB3 . GLU E 1 22 ? 1.460 -8.950 -21.968 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 5
+ATOM 9003 H HG2 . GLU E 1 22 ? 3.446 -9.798 -21.258 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 5
+ATOM 9004 H HG3 . GLU E 1 22 ? 3.534 -8.658 -19.931 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 5
+ATOM 9005 N N . ASP E 1 23 ? 3.719 -5.871 -20.787 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 5
+ATOM 9006 C CA . ASP E 1 23 ? 4.895 -5.263 -21.384 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 5
+ATOM 9007 C C . ASP E 1 23 ? 6.144 -5.743 -20.643 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 5
+ATOM 9008 O O . ASP E 1 23 ? 6.129 -5.885 -19.421 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 5
+ATOM 9009 C CB . ASP E 1 23 ? 4.841 -3.737 -21.278 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 5
+ATOM 9010 C CG . ASP E 1 23 ? 4.144 -3.201 -20.026 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 5
+ATOM 9011 O OD1 . ASP E 1 23 ? 2.900 -3.314 -19.977 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 5
+ATOM 9012 O OD2 . ASP E 1 23 ? 4.871 -2.689 -19.148 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 5
+ATOM 9013 H H . ASP E 1 23 ? 3.591 -5.679 -19.814 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 5
+ATOM 9014 H HA . ASP E 1 23 ? 4.883 -5.578 -22.427 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 5
+ATOM 9015 H HB2 . ASP E 1 23 ? 5.859 -3.350 -21.303 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 5
+ATOM 9016 H HB3 . ASP E 1 23 ? 4.329 -3.345 -22.157 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 5
+ATOM 9017 N N . VAL E 1 24 ? 7.196 -5.981 -21.413 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 5
+ATOM 9018 C CA . VAL E 1 24 ? 8.451 -6.443 -20.844 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 5
+ATOM 9019 C C . VAL E 1 24 ? 9.565 -5.461 -21.211 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 5
+ATOM 9020 O O . VAL E 1 24 ? 9.817 -5.215 -22.390 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 5
+ATOM 9021 C CB . VAL E 1 24 ? 8.739 -7.873 -21.305 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 5
+ATOM 9022 C CG1 . VAL E 1 24 ? 9.999 -8.423 -20.632 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 5
+ATOM 9023 C CG2 . VAL E 1 24 ? 7.538 -8.785 -21.048 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 5
+ATOM 9024 H H . VAL E 1 24 ? 7.200 -5.864 -22.406 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 5
+ATOM 9025 H HA . VAL E 1 24 ? 8.336 -6.455 -19.760 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 5
+ATOM 9026 H HB . VAL E 1 24 ? 8.917 -7.849 -22.380 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 5
+ATOM 9027 H HG11 . VAL E 1 24 ? 10.294 -9.353 -21.119 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 5
+ATOM 9028 H HG12 . VAL E 1 24 ? 10.805 -7.694 -20.721 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 5
+ATOM 9029 H HG13 . VAL E 1 24 ? 9.795 -8.612 -19.579 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 5
+ATOM 9030 H HG21 . VAL E 1 24 ? 6.891 -8.790 -21.925 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 5
+ATOM 9031 H HG22 . VAL E 1 24 ? 7.887 -9.798 -20.848 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 5
+ATOM 9032 H HG23 . VAL E 1 24 ? 6.980 -8.417 -20.187 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 5
+ATOM 9033 N N . GLY E 1 25 ? 10.201 -4.925 -20.180 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 5
+ATOM 9034 C CA . GLY E 1 25 ? 11.282 -3.975 -20.379 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 5
+ATOM 9035 C C . GLY E 1 25 ? 12.547 -4.420 -19.642 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 5
+ATOM 9036 O O . GLY E 1 25 ? 12.509 -4.684 -18.441 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 5
+ATOM 9037 H H . GLY E 1 25 ? 9.990 -5.130 -19.224 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 5
+ATOM 9038 H HA2 . GLY E 1 25 ? 11.493 -3.877 -21.444 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 5
+ATOM 9039 H HA3 . GLY E 1 25 ? 10.977 -2.991 -20.023 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 5
+ATOM 9040 N N . SER E 1 26 ? 13.637 -4.490 -20.392 1.00 0.00 ? ? ? ? ? ? 26 SER E N 5
+ATOM 9041 C CA . SER E 1 26 ? 14.910 -4.899 -19.825 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 5
+ATOM 9042 C C . SER E 1 26 ? 15.806 -3.677 -19.615 1.00 0.00 ? ? ? ? ? ? 26 SER E C 5
+ATOM 9043 O O . SER E 1 26 ? 16.175 -3.001 -20.575 1.00 0.00 ? ? ? ? ? ? 26 SER E O 5
+ATOM 9044 C CB . SER E 1 26 ? 15.610 -5.923 -20.722 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 5
+ATOM 9045 O OG . SER E 1 26 ? 16.179 -6.990 -19.970 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 5
+ATOM 9046 H H . SER E 1 26 ? 13.659 -4.274 -21.368 1.00 0.00 ? ? ? ? ? ? 26 SER E H 5
+ATOM 9047 H HA . SER E 1 26 ? 14.665 -5.362 -18.869 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 5
+ATOM 9048 H HB2 . SER E 1 26 ? 14.894 -6.326 -21.438 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 5
+ATOM 9049 H HB3 . SER E 1 26 ? 16.391 -5.427 -21.297 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 5
+ATOM 9050 H HG . SER E 1 26 ? 16.454 -6.664 -19.065 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 5
+ATOM 9051 N N . ASN E 1 27 ? 16.131 -3.430 -18.355 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 5
+ATOM 9052 C CA . ASN E 1 27 ? 16.977 -2.301 -18.007 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 5
+ATOM 9053 C C . ASN E 1 27 ? 16.256 -1.000 -18.366 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 5
+ATOM 9054 O O . ASN E 1 27 ? 16.534 -0.397 -19.401 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 5
+ATOM 9055 C CB . ASN E 1 27 ? 18.295 -2.340 -18.784 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 5
+ATOM 9056 C CG . ASN E 1 27 ? 19.449 -2.784 -17.883 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 5
+ATOM 9057 O OD1 . ASN E 1 27 ? 19.348 -3.734 -17.123 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 5
+ATOM 9058 N ND2 . ASN E 1 27 ? 20.548 -2.046 -18.009 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 5
+ATOM 9059 H H . ASN E 1 27 ? 15.827 -3.984 -17.580 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 5
+ATOM 9060 H HA . ASN E 1 27 ? 17.157 -2.397 -16.937 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 5
+ATOM 9061 H HB2 . ASN E 1 27 ? 18.204 -3.025 -19.627 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 5
+ATOM 9062 H HB3 . ASN E 1 27 ? 18.508 -1.354 -19.195 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 5
+ATOM 9063 H HD21 . ASN E 1 27 ? 20.565 -1.280 -18.651 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 5
+ATOM 9064 H HD22 . ASN E 1 27 ? 21.358 -2.257 -17.461 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 5
+ATOM 9065 N N . LYS E 1 28 ? 15.344 -0.606 -17.489 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 5
+ATOM 9066 C CA . LYS E 1 28 ? 14.581 0.613 -17.700 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 5
+ATOM 9067 C C . LYS E 1 28 ? 15.353 1.800 -17.121 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 5
+ATOM 9068 O O . LYS E 1 28 ? 16.326 1.615 -16.391 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 5
+ATOM 9069 C CB . LYS E 1 28 ? 13.167 0.464 -17.135 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 5
+ATOM 9070 C CG . LYS E 1 28 ? 12.244 -0.226 -18.141 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 5
+ATOM 9071 C CD . LYS E 1 28 ? 11.141 -1.008 -17.426 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 5
+ATOM 9072 C CE . LYS E 1 28 ? 9.802 -0.273 -17.514 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 5
+ATOM 9073 N NZ . LYS E 1 28 ? 8.701 -1.143 -17.042 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 5
+ATOM 9074 H H . LYS E 1 28 ? 15.123 -1.102 -16.650 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 5
+ATOM 9075 H HA . LYS E 1 28 ? 14.484 0.756 -18.777 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 5
+ATOM 9076 H HB2 . LYS E 1 28 ? 13.199 -0.112 -16.211 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 5
+ATOM 9077 H HB3 . LYS E 1 28 ? 12.767 1.447 -16.884 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 5
+ATOM 9078 H HG2 . LYS E 1 28 ? 11.798 0.519 -18.801 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 5
+ATOM 9079 H HG3 . LYS E 1 28 ? 12.825 -0.901 -18.770 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 5
+ATOM 9080 H HD2 . LYS E 1 28 ? 11.046 -1.999 -17.871 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 5
+ATOM 9081 H HD3 . LYS E 1 28 ? 11.412 -1.154 -16.381 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 5
+ATOM 9082 H HE2 . LYS E 1 28 ? 9.839 0.635 -16.913 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 5
+ATOM 9083 H HE3 . LYS E 1 28 ? 9.615 0.033 -18.543 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 5
+ATOM 9084 H HZ1 . LYS E 1 28 ? 7.989 -0.581 -16.622 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 5
+ATOM 9085 H HZ2 . LYS E 1 28 ? 8.317 -1.644 -17.818 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 5
+ATOM 9086 H HZ3 . LYS E 1 28 ? 9.054 -1.792 -16.368 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 5
+ATOM 9087 N N . GLY E 1 29 ? 14.891 2.992 -17.468 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 5
+ATOM 9088 C CA . GLY E 1 29 ? 15.526 4.209 -16.992 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 5
+ATOM 9089 C C . GLY E 1 29 ? 14.787 5.448 -17.500 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 5
+ATOM 9090 O O . GLY E 1 29 ? 13.604 5.379 -17.830 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 5
+ATOM 9091 H H . GLY E 1 29 ? 14.099 3.133 -18.063 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 5
+ATOM 9092 H HA2 . GLY E 1 29 ? 15.542 4.212 -15.902 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 5
+ATOM 9093 H HA3 . GLY E 1 29 ? 16.563 4.237 -17.326 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 5
+ATOM 9094 N N . ALA E 1 30 ? 15.516 6.554 -17.548 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 5
+ATOM 9095 C CA . ALA E 1 30 ? 14.944 7.807 -18.010 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 5
+ATOM 9096 C C . ALA E 1 30 ? 13.727 8.156 -17.152 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 5
+ATOM 9097 O O . ALA E 1 30 ? 13.613 7.699 -16.015 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 5
+ATOM 9098 C CB . ALA E 1 30 ? 14.596 7.692 -19.496 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 5
+ATOM 9099 H H . ALA E 1 30 ? 16.477 6.602 -17.278 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 5
+ATOM 9100 H HA . ALA E 1 30 ? 15.700 8.583 -17.886 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 5
+ATOM 9101 H HB1 . ALA E 1 30 ? 15.456 7.304 -20.042 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 5
+ATOM 9102 H HB2 . ALA E 1 30 ? 13.751 7.015 -19.620 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 5
+ATOM 9103 H HB3 . ALA E 1 30 ? 14.333 8.676 -19.885 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 5
+ATOM 9104 N N . ILE E 1 31 ? 12.847 8.961 -17.728 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 5
+ATOM 9105 C CA . ILE E 1 31 ? 11.642 9.376 -17.029 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 5
+ATOM 9106 C C . ILE E 1 31 ? 10.451 8.573 -17.555 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 5
+ATOM 9107 O O . ILE E 1 31 ? 9.801 8.977 -18.518 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 5
+ATOM 9108 C CB . ILE E 1 31 ? 11.456 10.891 -17.134 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 5
+ATOM 9109 C CG1 . ILE E 1 31 ? 12.585 11.633 -16.415 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 5
+ATOM 9110 C CG2 . ILE E 1 31 ? 10.077 11.311 -16.623 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 5
+ATOM 9111 C CD1 . ILE E 1 31 ? 13.613 12.168 -17.414 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 5
+ATOM 9112 H H . ILE E 1 31 ? 12.947 9.328 -18.653 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 5
+ATOM 9113 H HA . ILE E 1 31 ? 11.779 9.140 -15.974 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 5
+ATOM 9114 H HB . ILE E 1 31 ? 11.508 11.169 -18.187 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 5
+ATOM 9115 H HG12 . ILE E 1 31 ? 12.171 12.458 -15.836 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 5
+ATOM 9116 H HG13 . ILE E 1 31 ? 13.074 10.962 -15.709 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 5
+ATOM 9117 H HG21 . ILE E 1 31 ? 9.533 10.431 -16.281 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 5
+ATOM 9118 H HG22 . ILE E 1 31 ? 10.194 12.011 -15.795 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 5
+ATOM 9119 H HG23 . ILE E 1 31 ? 9.522 11.791 -17.429 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 5
+ATOM 9120 H HD11 . ILE E 1 31 ? 13.110 12.791 -18.154 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 5
+ATOM 9121 H HD12 . ILE E 1 31 ? 14.358 12.763 -16.885 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 5
+ATOM 9122 H HD13 . ILE E 1 31 ? 14.103 11.333 -17.914 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 5
+ATOM 9123 N N . ILE E 1 32 ? 10.200 7.449 -16.900 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 5
+ATOM 9124 C CA . ILE E 1 32 ? 9.098 6.585 -17.289 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 5
+ATOM 9125 C C . ILE E 1 32 ? 7.783 7.188 -16.791 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 5
+ATOM 9126 O O . ILE E 1 32 ? 7.703 7.662 -15.659 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 5
+ATOM 9127 C CB . ILE E 1 32 ? 9.342 5.155 -16.804 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 5
+ATOM 9128 C CG1 . ILE E 1 32 ? 10.336 4.429 -17.713 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 5
+ATOM 9129 C CG2 . ILE E 1 32 ? 8.024 4.389 -16.670 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 5
+ATOM 9130 C CD1 . ILE E 1 32 ? 10.891 3.177 -17.031 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 5
+ATOM 9131 H H . ILE E 1 32 ? 10.733 7.127 -16.117 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 5
+ATOM 9132 H HA . ILE E 1 32 ? 9.075 6.557 -18.378 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 5
+ATOM 9133 H HB . ILE E 1 32 ? 9.789 5.202 -15.811 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 5
+ATOM 9134 H HG12 . ILE E 1 32 ? 9.845 4.152 -18.647 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 5
+ATOM 9135 H HG13 . ILE E 1 32 ? 11.155 5.101 -17.971 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 5
+ATOM 9136 H HG21 . ILE E 1 32 ? 7.660 4.469 -15.646 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 5
+ATOM 9137 H HG22 . ILE E 1 32 ? 7.286 4.813 -17.352 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 5
+ATOM 9138 H HG23 . ILE E 1 32 ? 8.186 3.340 -16.918 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 5
+ATOM 9139 H HD11 . ILE E 1 32 ? 10.931 2.359 -17.750 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 5
+ATOM 9140 H HD12 . ILE E 1 32 ? 11.894 3.382 -16.657 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 5
+ATOM 9141 H HD13 . ILE E 1 32 ? 10.242 2.899 -16.200 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 5
+ATOM 9142 N N . GLY E 1 33 ? 6.785 7.149 -17.661 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 5
+ATOM 9143 C CA . GLY E 1 33 ? 5.477 7.686 -17.324 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 5
+ATOM 9144 C C . GLY E 1 33 ? 4.377 6.656 -17.590 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 5
+ATOM 9145 O O . GLY E 1 33 ? 3.588 6.811 -18.521 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 5
+ATOM 9146 H H . GLY E 1 33 ? 6.858 6.762 -18.580 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 5
+ATOM 9147 H HA2 . GLY E 1 33 ? 5.460 7.979 -16.274 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 5
+ATOM 9148 H HA3 . GLY E 1 33 ? 5.287 8.585 -17.909 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 5
+ATOM 9149 N N . LEU E 1 34 ? 4.360 5.627 -16.755 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 5
+ATOM 9150 C CA . LEU E 1 34 ? 3.369 4.572 -16.888 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 5
+ATOM 9151 C C . LEU E 1 34 ? 2.012 5.090 -16.409 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 5
+ATOM 9152 O O . LEU E 1 34 ? 1.673 4.960 -15.233 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 5
+ATOM 9153 C CB . LEU E 1 34 ? 3.835 3.306 -16.166 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 5
+ATOM 9154 C CG . LEU E 1 34 ? 3.585 1.986 -16.897 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 5
+ATOM 9155 C CD1 . LEU E 1 34 ? 4.353 0.839 -16.237 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 5
+ATOM 9156 C CD2 . LEU E 1 34 ? 2.087 1.690 -16.998 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 5
+ATOM 9157 H H . LEU E 1 34 ? 5.005 5.508 -16.000 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 5
+ATOM 9158 H HA . LEU E 1 34 ? 3.292 4.329 -17.948 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 5
+ATOM 9159 H HB2 . LEU E 1 34 ? 4.904 3.395 -15.972 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 5
+ATOM 9160 H HB3 . LEU E 1 34 ? 3.338 3.261 -15.197 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 5
+ATOM 9161 H HG . LEU E 1 34 ? 3.963 2.083 -17.915 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 5
+ATOM 9162 H HD11 . LEU E 1 34 ? 5.260 1.229 -15.774 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 5
+ATOM 9163 H HD12 . LEU E 1 34 ? 3.727 0.374 -15.476 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 5
+ATOM 9164 H HD13 . LEU E 1 34 ? 4.619 0.099 -16.991 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 5
+ATOM 9165 H HD21 . LEU E 1 34 ? 1.522 2.544 -16.624 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 5
+ATOM 9166 H HD22 . LEU E 1 34 ? 1.822 1.507 -18.040 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 5
+ATOM 9167 H HD23 . LEU E 1 34 ? 1.850 0.808 -16.403 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 5
+ATOM 9168 N N . MET E 1 35 ? 1.270 5.666 -17.344 1.00 0.00 ? ? ? ? ? ? 35 MET E N 5
+ATOM 9169 C CA . MET E 1 35 ? -0.043 6.203 -17.032 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 5
+ATOM 9170 C C . MET E 1 35 ? -1.142 5.190 -17.358 1.00 0.00 ? ? ? ? ? ? 35 MET E C 5
+ATOM 9171 O O . MET E 1 35 ? -1.235 4.712 -18.487 1.00 0.00 ? ? ? ? ? ? 35 MET E O 5
+ATOM 9172 C CB . MET E 1 35 ? -0.275 7.484 -17.835 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 5
+ATOM 9173 C CG . MET E 1 35 ? 0.258 8.707 -17.085 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 5
+ATOM 9174 S SD . MET E 1 35 ? -1.072 9.851 -16.759 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 5
+ATOM 9175 C CE . MET E 1 35 ? -0.858 10.974 -18.129 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 5
+ATOM 9176 H H . MET E 1 35 ? 1.553 5.767 -18.298 1.00 0.00 ? ? ? ? ? ? 35 MET E H 5
+ATOM 9177 H HA . MET E 1 35 ? -0.030 6.404 -15.960 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 5
+ATOM 9178 H HB2 . MET E 1 35 ? 0.219 7.404 -18.804 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 5
+ATOM 9179 H HB3 . MET E 1 35 ? -1.340 7.609 -18.030 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 5
+ATOM 9180 H HG2 . MET E 1 35 ? 0.720 8.396 -16.148 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 5
+ATOM 9181 H HG3 . MET E 1 35 ? 1.034 9.196 -17.675 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 5
+ATOM 9182 H HE1 . MET E 1 35 ? -1.358 10.571 -19.010 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 5
+ATOM 9183 H HE2 . MET E 1 35 ? -1.291 11.942 -17.877 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 5
+ATOM 9184 H HE3 . MET E 1 35 ? 0.205 11.094 -18.338 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 5
+ATOM 9185 N N . VAL E 1 36 ? -1.947 4.892 -16.348 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 5
+ATOM 9186 C CA . VAL E 1 36 ? -3.035 3.944 -16.513 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 5
+ATOM 9187 C C . VAL E 1 36 ? -4.200 4.349 -15.607 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 5
+ATOM 9188 O O . VAL E 1 36 ? -4.264 3.934 -14.450 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 5
+ATOM 9189 C CB . VAL E 1 36 ? -2.536 2.523 -16.247 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 5
+ATOM 9190 C CG1 . VAL E 1 36 ? -1.799 2.442 -14.909 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 5
+ATOM 9191 C CG2 . VAL E 1 36 ? -3.689 1.518 -16.299 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 5
+ATOM 9192 H H . VAL E 1 36 ? -1.864 5.285 -15.432 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 5
+ATOM 9193 H HA . VAL E 1 36 ? -3.364 3.998 -17.551 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 5
+ATOM 9194 H HB . VAL E 1 36 ? -1.830 2.262 -17.035 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 5
+ATOM 9195 H HG11 . VAL E 1 36 ? -1.029 1.672 -14.964 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 5
+ATOM 9196 H HG12 . VAL E 1 36 ? -1.335 3.404 -14.691 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 5
+ATOM 9197 H HG13 . VAL E 1 36 ? -2.506 2.192 -14.118 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 5
+ATOM 9198 H HG21 . VAL E 1 36 ? -4.543 1.916 -15.749 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 5
+ATOM 9199 H HG22 . VAL E 1 36 ? -3.974 1.345 -17.337 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 5
+ATOM 9200 H HG23 . VAL E 1 36 ? -3.373 0.578 -15.847 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 5
+ATOM 9201 N N . GLY E 1 37 ? -5.091 5.154 -16.166 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 5
+ATOM 9202 C CA . GLY E 1 37 ? -6.250 5.619 -15.422 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 5
+ATOM 9203 C C . GLY E 1 37 ? -7.535 4.980 -15.953 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 5
+ATOM 9204 O O . GLY E 1 37 ? -7.982 5.298 -17.054 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 5
+ATOM 9205 H H . GLY E 1 37 ? -5.032 5.486 -17.107 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 5
+ATOM 9206 H HA2 . GLY E 1 37 ? -6.129 5.378 -14.366 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 5
+ATOM 9207 H HA3 . GLY E 1 37 ? -6.322 6.704 -15.496 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 5
+ATOM 9208 N N . GLY E 1 38 ? -8.093 4.090 -15.146 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 5
+ATOM 9209 C CA . GLY E 1 38 ? -9.317 3.403 -15.520 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 5
+ATOM 9210 C C . GLY E 1 38 ? -10.546 4.253 -15.188 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 5
+ATOM 9211 O O . GLY E 1 38 ? -11.042 4.221 -14.063 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 5
+ATOM 9212 H H . GLY E 1 38 ? -7.723 3.837 -14.252 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 5
+ATOM 9213 H HA2 . GLY E 1 38 ? -9.302 3.180 -16.587 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 5
+ATOM 9214 H HA3 . GLY E 1 38 ? -9.378 2.449 -14.996 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 5
+ATOM 9215 N N . VAL E 1 39 ? -11.001 4.993 -16.189 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 5
+ATOM 9216 C CA . VAL E 1 39 ? -12.162 5.850 -16.017 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 5
+ATOM 9217 C C . VAL E 1 39 ? -13.388 5.168 -16.628 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 5
+ATOM 9218 O O . VAL E 1 39 ? -13.402 4.860 -17.819 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 5
+ATOM 9219 C CB . VAL E 1 39 ? -11.885 7.231 -16.615 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 5
+ATOM 9220 C CG1 . VAL E 1 39 ? -11.775 7.157 -18.139 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 5
+ATOM 9221 C CG2 . VAL E 1 39 ? -12.958 8.236 -16.191 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 5
+ATOM 9222 H H . VAL E 1 39 ? -10.591 5.014 -17.101 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 5
+ATOM 9223 H HA . VAL E 1 39 ? -12.325 5.972 -14.947 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 5
+ATOM 9224 H HB . VAL E 1 39 ? -10.928 7.579 -16.226 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 5
+ATOM 9225 H HG11 . VAL E 1 39 ? -10.897 7.713 -18.467 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 5
+ATOM 9226 H HG12 . VAL E 1 39 ? -11.681 6.115 -18.446 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 5
+ATOM 9227 H HG13 . VAL E 1 39 ? -12.668 7.589 -18.590 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 5
+ATOM 9228 H HG21 . VAL E 1 39 ? -12.584 8.840 -15.364 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 5
+ATOM 9229 H HG22 . VAL E 1 39 ? -13.201 8.885 -17.033 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 5
+ATOM 9230 H HG23 . VAL E 1 39 ? -13.853 7.701 -15.875 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 5
+ATOM 9231 N N . VAL E 1 40 ? -14.387 4.954 -15.786 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 5
+ATOM 9232 C CA . VAL E 1 40 ? -15.615 4.315 -16.228 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 5
+ATOM 9233 C C . VAL E 1 40 ? -16.815 5.087 -15.675 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 5
+ATOM 9234 O O . VAL E 1 40 ? -17.158 4.950 -14.502 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 5
+ATOM 9235 C CB . VAL E 1 40 ? -15.614 2.840 -15.820 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 5
+ATOM 9236 C CG1 . VAL E 1 40 ? -17.006 2.227 -15.977 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 5
+ATOM 9237 C CG2 . VAL E 1 40 ? -14.574 2.051 -16.618 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 5
+ATOM 9238 H H . VAL E 1 40 ? -14.368 5.208 -14.819 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 5
+ATOM 9239 H HA . VAL E 1 40 ? -15.638 4.364 -17.317 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 5
+ATOM 9240 H HB . VAL E 1 40 ? -15.340 2.784 -14.766 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 5
+ATOM 9241 H HG11 . VAL E 1 40 ? -17.500 2.664 -16.845 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 5
+ATOM 9242 H HG12 . VAL E 1 40 ? -16.915 1.149 -16.115 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 5
+ATOM 9243 H HG13 . VAL E 1 40 ? -17.596 2.430 -15.083 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 5
+ATOM 9244 H HG21 . VAL E 1 40 ? -13.920 2.744 -17.147 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 5
+ATOM 9245 H HG22 . VAL E 1 40 ? -13.981 1.440 -15.938 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 5
+ATOM 9246 H HG23 . VAL E 1 40 ? -15.080 1.408 -17.338 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 5
+ATOM 9247 N N . ILE E 1 41 ? -17.419 5.881 -16.547 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 5
+ATOM 9248 C CA . ILE E 1 41 ? -18.573 6.675 -16.161 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 5
+ATOM 9249 C C . ILE E 1 41 ? -19.844 6.018 -16.703 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 5
+ATOM 9250 O O . ILE E 1 41 ? -19.934 5.723 -17.894 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 5
+ATOM 9251 C CB . ILE E 1 41 ? -18.395 8.129 -16.603 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 5
+ATOM 9252 C CG1 . ILE E 1 41 ? -17.519 8.900 -15.614 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 5
+ATOM 9253 C CG2 . ILE E 1 41 ? -19.751 8.806 -16.818 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 5
+ATOM 9254 C CD1 . ILE E 1 41 ? -16.322 9.537 -16.322 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 5
+ATOM 9255 H H . ILE E 1 41 ? -17.133 5.986 -17.499 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 5
+ATOM 9256 H HA . ILE E 1 41 ? -18.621 6.673 -15.072 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 5
+ATOM 9257 H HB . ILE E 1 41 ? -17.878 8.133 -17.562 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 5
+ATOM 9258 H HG12 . ILE E 1 41 ? -18.111 9.674 -15.125 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 5
+ATOM 9259 H HG13 . ILE E 1 41 ? -17.168 8.227 -14.832 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 5
+ATOM 9260 H HG21 . ILE E 1 41 ? -20.392 8.616 -15.957 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 5
+ATOM 9261 H HG22 . ILE E 1 41 ? -19.606 9.881 -16.932 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 5
+ATOM 9262 H HG23 . ILE E 1 41 ? -20.219 8.405 -17.716 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 5
+ATOM 9263 H HD11 . ILE E 1 41 ? -15.694 10.043 -15.590 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 5
+ATOM 9264 H HD12 . ILE E 1 41 ? -15.742 8.762 -16.824 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 5
+ATOM 9265 H HD13 . ILE E 1 41 ? -16.677 10.258 -17.058 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 5
+ATOM 9266 N N . ALA E 1 42 ? -20.794 5.808 -15.804 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 5
+ATOM 9267 C CA . ALA E 1 42 ? -22.055 5.191 -16.178 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 5
+ATOM 9268 C C . ALA E 1 42 ? -23.211 6.066 -15.688 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 5
+ATOM 9269 O O . ALA E 1 42 ? -23.191 6.550 -14.557 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 5
+ATOM 9270 C CB . ALA E 1 42 ? -22.117 3.771 -15.611 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 5
+ATOM 9271 H H . ALA E 1 42 ? -20.712 6.051 -14.837 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 5
+ATOM 9272 H HA . ALA E 1 42 ? -22.088 5.136 -17.266 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 5
+ATOM 9273 H HB1 . ALA E 1 42 ? -21.949 3.052 -16.413 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 5
+ATOM 9274 H HB2 . ALA E 1 42 ? -21.348 3.651 -14.848 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 5
+ATOM 9275 H HB3 . ALA E 1 42 ? -23.098 3.600 -15.168 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 5
+ATOM 9276 N N . LEU A 1 17 ? -16.567 -3.694 -2.386 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 6
+ATOM 9277 C CA . LEU A 1 17 ? -15.240 -3.400 -2.900 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 6
+ATOM 9278 C C . LEU A 1 17 ? -14.198 -4.143 -2.062 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 6
+ATOM 9279 O O . LEU A 1 17 ? -14.493 -4.596 -0.957 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 6
+ATOM 9280 C CB . LEU A 1 17 ? -15.014 -1.888 -2.963 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 6
+ATOM 9281 C CG . LEU A 1 17 ? -15.324 -1.219 -4.304 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 6
+ATOM 9282 C CD1 . LEU A 1 17 ? -16.383 -0.127 -4.140 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 6
+ATOM 9283 C CD2 . LEU A 1 17 ? -14.048 -0.686 -4.959 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 6
+ATOM 9284 H H . LEU A 1 17 ? -17.182 -2.908 -2.329 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 6
+ATOM 9285 H HA . LEU A 1 17 ? -15.195 -3.776 -3.922 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 6
+ATOM 9286 H HB2 . LEU A 1 17 ? -15.625 -1.416 -2.194 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 6
+ATOM 9287 H HB3 . LEU A 1 17 ? -13.973 -1.686 -2.711 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 6
+ATOM 9288 H HG . LEU A 1 17 ? -15.739 -1.972 -4.974 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 6
+ATOM 9289 H HD11 . LEU A 1 17 ? -15.906 0.796 -3.811 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 6
+ATOM 9290 H HD12 . LEU A 1 17 ? -16.881 0.042 -5.094 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 6
+ATOM 9291 H HD13 . LEU A 1 17 ? -17.117 -0.442 -3.398 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 6
+ATOM 9292 H HD21 . LEU A 1 17 ? -14.294 -0.236 -5.921 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 6
+ATOM 9293 H HD22 . LEU A 1 17 ? -13.594 0.065 -4.312 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 6
+ATOM 9294 H HD23 . LEU A 1 17 ? -13.347 -1.507 -5.110 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 6
+ATOM 9295 N N . VAL A 1 18 ? -13.001 -4.246 -2.621 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 6
+ATOM 9296 C CA . VAL A 1 18 ? -11.913 -4.927 -1.939 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 6
+ATOM 9297 C C . VAL A 1 18 ? -10.585 -4.539 -2.592 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 6
+ATOM 9298 O O . VAL A 1 18 ? -10.386 -4.766 -3.785 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 6
+ATOM 9299 C CB . VAL A 1 18 ? -12.160 -6.437 -1.937 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 6
+ATOM 9300 C CG1 . VAL A 1 18 ? -12.560 -6.928 -3.330 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 6
+ATOM 9301 C CG2 . VAL A 1 18 ? -10.934 -7.192 -1.420 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 6
+ATOM 9302 H H . VAL A 1 18 ? -12.769 -3.875 -3.520 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 6
+ATOM 9303 H HA . VAL A 1 18 ? -11.908 -4.585 -0.904 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 6
+ATOM 9304 H HB . VAL A 1 18 ? -12.989 -6.640 -1.260 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 6
+ATOM 9305 H HG11 . VAL A 1 18 ? -11.701 -6.864 -3.998 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 6
+ATOM 9306 H HG12 . VAL A 1 18 ? -12.895 -7.964 -3.268 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 6
+ATOM 9307 H HG13 . VAL A 1 18 ? -13.368 -6.307 -3.717 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 6
+ATOM 9308 H HG21 . VAL A 1 18 ? -10.797 -6.980 -0.360 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 6
+ATOM 9309 H HG22 . VAL A 1 18 ? -11.082 -8.263 -1.560 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 6
+ATOM 9310 H HG23 . VAL A 1 18 ? -10.051 -6.873 -1.972 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 6
+ATOM 9311 N N . PHE A 1 19 ? -9.711 -3.960 -1.783 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 6
+ATOM 9312 C CA . PHE A 1 19 ? -8.408 -3.538 -2.267 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 6
+ATOM 9313 C C . PHE A 1 19 ? -7.303 -4.455 -1.739 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 6
+ATOM 9314 O O . PHE A 1 19 ? -7.345 -4.884 -0.587 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 6
+ATOM 9315 C CB . PHE A 1 19 ? -8.172 -2.121 -1.742 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 6
+ATOM 9316 C CG . PHE A 1 19 ? -7.861 -1.095 -2.834 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 6
+ATOM 9317 C CD1 . PHE A 1 19 ? -6.597 -0.984 -3.322 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 6
+ATOM 9318 C CD2 . PHE A 1 19 ? -8.850 -0.295 -3.316 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 6
+ATOM 9319 C CE1 . PHE A 1 19 ? -6.309 -0.032 -4.336 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 6
+ATOM 9320 C CE2 . PHE A 1 19 ? -8.561 0.657 -4.330 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 6
+ATOM 9321 C CZ . PHE A 1 19 ? -7.297 0.768 -4.818 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 6
+ATOM 9322 H H . PHE A 1 19 ? -9.881 -3.778 -0.814 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 6
+ATOM 9323 H HA . PHE A 1 19 ? -8.434 -3.593 -3.356 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 6
+ATOM 9324 H HB2 . PHE A 1 19 ? -9.056 -1.796 -1.193 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 6
+ATOM 9325 H HB3 . PHE A 1 19 ? -7.346 -2.140 -1.031 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 6
+ATOM 9326 H HD1 . PHE A 1 19 ? -5.805 -1.625 -2.936 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 6
+ATOM 9327 H HD2 . PHE A 1 19 ? -9.863 -0.384 -2.925 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 6
+ATOM 9328 H HE1 . PHE A 1 19 ? -5.295 0.057 -4.728 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 6
+ATOM 9329 H HE2 . PHE A 1 19 ? -9.353 1.298 -4.716 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 6
+ATOM 9330 H HZ . PHE A 1 19 ? -7.076 1.499 -5.596 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 6
+ATOM 9331 N N . PHE A 1 20 ? -6.340 -4.729 -2.607 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 6
+ATOM 9332 C CA . PHE A 1 20 ? -5.226 -5.588 -2.242 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 6
+ATOM 9333 C C . PHE A 1 20 ? -3.893 -4.964 -2.660 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 6
+ATOM 9334 O O . PHE A 1 20 ? -3.475 -5.097 -3.809 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 6
+ATOM 9335 C CB . PHE A 1 20 ? -5.415 -6.908 -2.992 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 6
+ATOM 9336 C CG . PHE A 1 20 ? -6.449 -7.841 -2.359 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 6
+ATOM 9337 C CD1 . PHE A 1 20 ? -6.213 -8.388 -1.136 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 6
+ATOM 9338 C CD2 . PHE A 1 20 ? -7.605 -8.123 -3.018 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 6
+ATOM 9339 C CE1 . PHE A 1 20 ? -7.173 -9.254 -0.548 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 6
+ATOM 9340 C CE2 . PHE A 1 20 ? -8.565 -8.988 -2.430 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 6
+ATOM 9341 C CZ . PHE A 1 20 ? -8.329 -9.536 -1.208 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 6
+ATOM 9342 H H . PHE A 1 20 ? -6.313 -4.377 -3.542 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 6
+ATOM 9343 H HA . PHE A 1 20 ? -5.247 -5.703 -1.158 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 6
+ATOM 9344 H HB2 . PHE A 1 20 ? -5.715 -6.693 -4.017 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 6
+ATOM 9345 H HB3 . PHE A 1 20 ? -4.457 -7.426 -3.042 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 6
+ATOM 9346 H HD1 . PHE A 1 20 ? -5.287 -8.163 -0.607 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 6
+ATOM 9347 H HD2 . PHE A 1 20 ? -7.794 -7.684 -3.998 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 6
+ATOM 9348 H HE1 . PHE A 1 20 ? -6.984 -9.693 0.431 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 6
+ATOM 9349 H HE2 . PHE A 1 20 ? -9.491 -9.214 -2.959 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 6
+ATOM 9350 H HZ . PHE A 1 20 ? -9.066 -10.200 -0.757 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 6
+ATOM 9351 N N . ALA A 1 21 ? -3.263 -4.297 -1.704 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 6
+ATOM 9352 C CA . ALA A 1 21 ? -1.986 -3.652 -1.959 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 6
+ATOM 9353 C C . ALA A 1 21 ? -0.881 -4.410 -1.220 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 6
+ATOM 9354 O O . ALA A 1 21 ? -1.004 -4.688 -0.028 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 6
+ATOM 9355 C CB . ALA A 1 21 ? -2.064 -2.182 -1.543 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 6
+ATOM 9356 H H . ALA A 1 21 ? -3.610 -4.194 -0.772 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 6
+ATOM 9357 H HA . ALA A 1 21 ? -1.796 -3.704 -3.031 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 6
+ATOM 9358 H HB1 . ALA A 1 21 ? -2.224 -2.117 -0.466 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 6
+ATOM 9359 H HB2 . ALA A 1 21 ? -1.131 -1.681 -1.802 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 6
+ATOM 9360 H HB3 . ALA A 1 21 ? -2.892 -1.701 -2.063 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 6
+ATOM 9361 N N . GLU A 1 22 ? 0.175 -4.721 -1.958 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 6
+ATOM 9362 C CA . GLU A 1 22 ? 1.301 -5.441 -1.388 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 6
+ATOM 9363 C C . GLU A 1 22 ? 2.599 -5.037 -2.090 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 6
+ATOM 9364 O O . GLU A 1 22 ? 2.591 -4.706 -3.274 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 6
+ATOM 9365 C CB . GLU A 1 22 ? 1.082 -6.953 -1.466 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 6
+ATOM 9366 C CG . GLU A 1 22 ? 0.575 -7.504 -0.132 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 6
+ATOM 9367 C CD . GLU A 1 22 ? -0.294 -8.745 -0.346 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 6
+ATOM 9368 O OE1 . GLU A 1 22 ? -1.210 -8.658 -1.192 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 6
+ATOM 9369 O OE2 . GLU A 1 22 ? -0.023 -9.753 0.342 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 6
+ATOM 9370 H H . GLU A 1 22 ? 0.267 -4.491 -2.927 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 6
+ATOM 9371 H HA . GLU A 1 22 ? 1.337 -5.139 -0.341 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 6
+ATOM 9372 H HB2 . GLU A 1 22 ? 0.363 -7.180 -2.254 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 6
+ATOM 9373 H HB3 . GLU A 1 22 ? 2.016 -7.446 -1.736 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 6
+ATOM 9374 H HG2 . GLU A 1 22 ? 1.422 -7.754 0.507 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 6
+ATOM 9375 H HG3 . GLU A 1 22 ? -0.001 -6.738 0.387 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 6
+ATOM 9376 N N . ASP A 1 23 ? 3.683 -5.079 -1.329 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 6
+ATOM 9377 C CA . ASP A 1 23 ? 4.986 -4.722 -1.863 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 6
+ATOM 9378 C C . ASP A 1 23 ? 5.933 -5.916 -1.728 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 6
+ATOM 9379 O O . ASP A 1 23 ? 6.570 -6.093 -0.691 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 6
+ATOM 9380 C CB . ASP A 1 23 ? 5.594 -3.547 -1.094 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 6
+ATOM 9381 C CG . ASP A 1 23 ? 6.759 -2.848 -1.796 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 6
+ATOM 9382 O OD1 . ASP A 1 23 ? 6.640 -2.640 -3.022 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 6
+ATOM 9383 O OD2 . ASP A 1 23 ? 7.743 -2.538 -1.090 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 6
+ATOM 9384 H H . ASP A 1 23 ? 3.681 -5.350 -0.366 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 6
+ATOM 9385 H HA . ASP A 1 23 ? 4.805 -4.449 -2.903 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 6
+ATOM 9386 H HB2 . ASP A 1 23 ? 4.811 -2.813 -0.903 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 6
+ATOM 9387 H HB3 . ASP A 1 23 ? 5.937 -3.907 -0.123 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 6
+ATOM 9388 N N . VAL A 1 24 ? 5.995 -6.705 -2.791 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 6
+ATOM 9389 C CA . VAL A 1 24 ? 6.853 -7.877 -2.804 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 6
+ATOM 9390 C C . VAL A 1 24 ? 8.292 -7.447 -3.095 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 6
+ATOM 9391 O O . VAL A 1 24 ? 8.833 -7.756 -4.155 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 6
+ATOM 9392 C CB . VAL A 1 24 ? 6.321 -8.904 -3.806 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 6
+ATOM 9393 C CG1 . VAL A 1 24 ? 7.210 -10.149 -3.839 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 6
+ATOM 9394 C CG2 . VAL A 1 24 ? 4.870 -9.274 -3.494 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 6
+ATOM 9395 H H . VAL A 1 24 ? 5.473 -6.553 -3.630 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 6
+ATOM 9396 H HA . VAL A 1 24 ? 6.814 -8.324 -1.810 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 6
+ATOM 9397 H HB . VAL A 1 24 ? 6.345 -8.449 -4.796 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 6
+ATOM 9398 H HG11 . VAL A 1 24 ? 6.989 -10.729 -4.735 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 6
+ATOM 9399 H HG12 . VAL A 1 24 ? 8.258 -9.847 -3.851 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 6
+ATOM 9400 H HG13 . VAL A 1 24 ? 7.017 -10.757 -2.956 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 6
+ATOM 9401 H HG21 . VAL A 1 24 ? 4.492 -9.943 -4.266 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 6
+ATOM 9402 H HG22 . VAL A 1 24 ? 4.823 -9.774 -2.526 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 6
+ATOM 9403 H HG23 . VAL A 1 24 ? 4.262 -8.370 -3.466 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 6
+ATOM 9404 N N . GLY A 1 25 ? 8.871 -6.742 -2.134 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 6
+ATOM 9405 C CA . GLY A 1 25 ? 10.237 -6.267 -2.274 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 6
+ATOM 9406 C C . GLY A 1 25 ? 11.229 -7.264 -1.671 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 6
+ATOM 9407 O O . GLY A 1 25 ? 11.016 -7.767 -0.569 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 6
+ATOM 9408 H H . GLY A 1 25 ? 8.424 -6.496 -1.274 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 6
+ATOM 9409 H HA2 . GLY A 1 25 ? 10.466 -6.113 -3.328 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 6
+ATOM 9410 H HA3 . GLY A 1 25 ? 10.342 -5.301 -1.781 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 6
+ATOM 9411 N N . SER A 1 26 ? 12.291 -7.520 -2.420 1.00 0.00 ? ? ? ? ? ? 26 SER A N 6
+ATOM 9412 C CA . SER A 1 26 ? 13.316 -8.447 -1.974 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 6
+ATOM 9413 C C . SER A 1 26 ? 14.624 -7.697 -1.714 1.00 0.00 ? ? ? ? ? ? 26 SER A C 6
+ATOM 9414 O O . SER A 1 26 ? 15.345 -7.357 -2.651 1.00 0.00 ? ? ? ? ? ? 26 SER A O 6
+ATOM 9415 C CB . SER A 1 26 ? 13.538 -9.560 -3.000 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 6
+ATOM 9416 O OG . SER A 1 26 ? 14.319 -10.628 -2.470 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 6
+ATOM 9417 H H . SER A 1 26 ? 12.457 -7.106 -3.316 1.00 0.00 ? ? ? ? ? ? 26 SER A H 6
+ATOM 9418 H HA . SER A 1 26 ? 12.933 -8.878 -1.049 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 6
+ATOM 9419 H HB2 . SER A 1 26 ? 12.573 -9.945 -3.330 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 6
+ATOM 9420 H HB3 . SER A 1 26 ? 14.034 -9.149 -3.879 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 6
+ATOM 9421 H HG . SER A 1 26 ? 15.290 -10.455 -2.634 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 6
+ATOM 9422 N N . ASN A 1 27 ? 14.890 -7.460 -0.438 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 6
+ATOM 9423 C CA . ASN A 1 27 ? 16.099 -6.756 -0.044 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 6
+ATOM 9424 C C . ASN A 1 27 ? 15.994 -5.291 -0.474 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 6
+ATOM 9425 O O . ASN A 1 27 ? 16.612 -4.883 -1.456 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 6
+ATOM 9426 C CB . ASN A 1 27 ? 17.333 -7.359 -0.718 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 6
+ATOM 9427 C CG . ASN A 1 27 ? 17.175 -8.871 -0.897 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 6
+ATOM 9428 O OD1 . ASN A 1 27 ? 16.383 -9.521 -0.236 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 6
+ATOM 9429 N ND2 . ASN A 1 27 ? 17.972 -9.391 -1.826 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 6
+ATOM 9430 H H . ASN A 1 27 ? 14.298 -7.740 0.318 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 6
+ATOM 9431 H HA . ASN A 1 27 ? 16.156 -6.870 1.039 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 6
+ATOM 9432 H HB2 . ASN A 1 27 ? 17.488 -6.888 -1.688 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 6
+ATOM 9433 H HB3 . ASN A 1 27 ? 18.218 -7.151 -0.117 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 6
+ATOM 9434 H HD21 . ASN A 1 27 ? 18.600 -8.801 -2.334 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 6
+ATOM 9435 H HD22 . ASN A 1 27 ? 17.943 -10.372 -2.018 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 6
+ATOM 9436 N N . LYS A 1 28 ? 15.206 -4.541 0.282 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 6
+ATOM 9437 C CA . LYS A 1 28 ? 15.013 -3.130 -0.009 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 6
+ATOM 9438 C C . LYS A 1 28 ? 15.614 -2.294 1.123 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 6
+ATOM 9439 O O . LYS A 1 28 ? 16.231 -2.834 2.039 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 6
+ATOM 9440 C CB . LYS A 1 28 ? 13.535 -2.836 -0.273 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 6
+ATOM 9441 C CG . LYS A 1 28 ? 12.696 -3.067 0.986 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 6
+ATOM 9442 C CD . LYS A 1 28 ? 11.970 -4.413 0.921 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 6
+ATOM 9443 C CE . LYS A 1 28 ? 10.768 -4.433 1.868 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 6
+ATOM 9444 N NZ . LYS A 1 28 ? 10.794 -5.649 2.711 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 6
+ATOM 9445 H H . LYS A 1 28 ? 14.707 -4.880 1.079 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 6
+ATOM 9446 H HA . LYS A 1 28 ? 15.555 -2.909 -0.928 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 6
+ATOM 9447 H HB2 . LYS A 1 28 ? 13.419 -1.805 -0.607 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 6
+ATOM 9448 H HB3 . LYS A 1 28 ? 13.171 -3.474 -1.079 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 6
+ATOM 9449 H HG2 . LYS A 1 28 ? 13.338 -3.038 1.866 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 6
+ATOM 9450 H HG3 . LYS A 1 28 ? 11.969 -2.263 1.095 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 6
+ATOM 9451 H HD2 . LYS A 1 28 ? 11.637 -4.602 -0.099 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 6
+ATOM 9452 H HD3 . LYS A 1 28 ? 12.660 -5.215 1.186 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 6
+ATOM 9453 H HE2 . LYS A 1 28 ? 10.780 -3.545 2.500 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 6
+ATOM 9454 H HE3 . LYS A 1 28 ? 9.844 -4.402 1.292 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 6
+ATOM 9455 H HZ1 . LYS A 1 28 ? 9.925 -5.734 3.200 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 6
+ATOM 9456 H HZ2 . LYS A 1 28 ? 10.930 -6.454 2.133 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 6
+ATOM 9457 H HZ3 . LYS A 1 28 ? 11.542 -5.582 3.371 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 6
+ATOM 9458 N N . GLY A 1 29 ? 15.412 -0.988 1.021 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 6
+ATOM 9459 C CA . GLY A 1 29 ? 15.926 -0.071 2.025 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 6
+ATOM 9460 C C . GLY A 1 29 ? 15.906 1.370 1.512 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 6
+ATOM 9461 O O . GLY A 1 29 ? 15.171 1.691 0.580 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 6
+ATOM 9462 H H . GLY A 1 29 ? 14.908 -0.556 0.273 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 6
+ATOM 9463 H HA2 . GLY A 1 29 ? 15.327 -0.146 2.932 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 6
+ATOM 9464 H HA3 . GLY A 1 29 ? 16.945 -0.352 2.291 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 6
+ATOM 9465 N N . ALA A 1 30 ? 16.723 2.200 2.143 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 6
+ATOM 9466 C CA . ALA A 1 30 ? 16.809 3.600 1.762 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 6
+ATOM 9467 C C . ALA A 1 30 ? 15.507 4.308 2.142 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 6
+ATOM 9468 O O . ALA A 1 30 ? 14.686 3.755 2.872 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 6
+ATOM 9469 C CB . ALA A 1 30 ? 17.115 3.704 0.267 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 6
+ATOM 9470 H H . ALA A 1 30 ? 17.318 1.931 2.900 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 6
+ATOM 9471 H HA . ALA A 1 30 ? 17.632 4.046 2.321 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 6
+ATOM 9472 H HB1 . ALA A 1 30 ? 17.812 4.524 0.095 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 6
+ATOM 9473 H HB2 . ALA A 1 30 ? 17.559 2.771 -0.079 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 6
+ATOM 9474 H HB3 . ALA A 1 30 ? 16.191 3.892 -0.280 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 6
+ATOM 9475 N N . ILE A 1 31 ? 15.359 5.521 1.630 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 6
+ATOM 9476 C CA . ILE A 1 31 ? 14.171 6.310 1.906 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 6
+ATOM 9477 C C . ILE A 1 31 ? 13.031 5.842 1.000 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 6
+ATOM 9478 O O . ILE A 1 31 ? 12.872 6.342 -0.112 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 6
+ATOM 9479 C CB . ILE A 1 31 ? 14.480 7.804 1.784 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 6
+ATOM 9480 C CG1 . ILE A 1 31 ? 13.388 8.645 2.449 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 6
+ATOM 9481 C CG2 . ILE A 1 31 ? 14.699 8.201 0.323 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 6
+ATOM 9482 C CD1 . ILE A 1 31 ? 13.395 10.077 1.910 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 6
+ATOM 9483 H H . ILE A 1 31 ? 16.032 5.963 1.037 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 6
+ATOM 9484 H HA . ILE A 1 31 ? 13.888 6.123 2.942 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 6
+ATOM 9485 H HB . ILE A 1 31 ? 15.410 8.005 2.315 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 6
+ATOM 9486 H HG12 . ILE A 1 31 ? 12.414 8.190 2.271 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 6
+ATOM 9487 H HG13 . ILE A 1 31 ? 13.542 8.658 3.528 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 6
+ATOM 9488 H HG21 . ILE A 1 31 ? 13.736 8.403 -0.147 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 6
+ATOM 9489 H HG22 . ILE A 1 31 ? 15.320 9.096 0.279 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 6
+ATOM 9490 H HG23 . ILE A 1 31 ? 15.197 7.387 -0.204 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 6
+ATOM 9491 H HD11 . ILE A 1 31 ? 13.027 10.080 0.884 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 6
+ATOM 9492 H HD12 . ILE A 1 31 ? 12.751 10.701 2.529 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 6
+ATOM 9493 H HD13 . ILE A 1 31 ? 14.412 10.469 1.933 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 6
+ATOM 9494 N N . ILE A 1 32 ? 12.266 4.887 1.510 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 6
+ATOM 9495 C CA . ILE A 1 32 ? 11.145 4.346 0.760 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 6
+ATOM 9496 C C . ILE A 1 32 ? 9.836 4.816 1.398 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 6
+ATOM 9497 O O . ILE A 1 32 ? 9.672 4.740 2.615 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 6
+ATOM 9498 C CB . ILE A 1 32 ? 11.262 2.825 0.646 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 6
+ATOM 9499 C CG1 . ILE A 1 32 ? 10.834 2.142 1.947 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 6
+ATOM 9500 C CG2 . ILE A 1 32 ? 12.673 2.413 0.220 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 6
+ATOM 9501 C CD1 . ILE A 1 32 ? 10.808 0.621 1.785 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 6
+ATOM 9502 H H . ILE A 1 32 ? 12.402 4.486 2.416 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 6
+ATOM 9503 H HA . ILE A 1 32 ? 11.202 4.750 -0.250 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 6
+ATOM 9504 H HB . ILE A 1 32 ? 10.579 2.487 -0.134 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 6
+ATOM 9505 H HG12 . ILE A 1 32 ? 11.521 2.415 2.748 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 6
+ATOM 9506 H HG13 . ILE A 1 32 ? 9.846 2.498 2.240 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 6
+ATOM 9507 H HG21 . ILE A 1 32 ? 12.753 2.462 -0.865 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 6
+ATOM 9508 H HG22 . ILE A 1 32 ? 13.400 3.091 0.669 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 6
+ATOM 9509 H HG23 . ILE A 1 32 ? 12.871 1.395 0.554 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 6
+ATOM 9510 H HD11 . ILE A 1 32 ? 10.846 0.368 0.726 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 6
+ATOM 9511 H HD12 . ILE A 1 32 ? 11.668 0.187 2.294 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 6
+ATOM 9512 H HD13 . ILE A 1 32 ? 9.890 0.225 2.221 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 6
+ATOM 9513 N N . GLY A 1 33 ? 8.938 5.291 0.548 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 6
+ATOM 9514 C CA . GLY A 1 33 ? 7.649 5.773 1.013 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 6
+ATOM 9515 C C . GLY A 1 33 ? 6.548 4.746 0.740 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 6
+ATOM 9516 O O . GLY A 1 33 ? 6.376 4.302 -0.394 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 6
+ATOM 9517 H H . GLY A 1 33 ? 9.079 5.349 -0.440 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 6
+ATOM 9518 H HA2 . GLY A 1 33 ? 7.699 5.983 2.082 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 6
+ATOM 9519 H HA3 . GLY A 1 33 ? 7.407 6.712 0.515 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 6
+ATOM 9520 N N . LEU A 1 34 ? 5.832 4.398 1.800 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 6
+ATOM 9521 C CA . LEU A 1 34 ? 4.753 3.431 1.689 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 6
+ATOM 9522 C C . LEU A 1 34 ? 3.474 4.032 2.276 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 6
+ATOM 9523 O O . LEU A 1 34 ? 3.045 3.646 3.362 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 6
+ATOM 9524 C CB . LEU A 1 34 ? 5.157 2.101 2.327 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 6
+ATOM 9525 C CG . LEU A 1 34 ? 5.402 0.940 1.361 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 6
+ATOM 9526 C CD1 . LEU A 1 34 ? 4.220 0.763 0.407 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 6
+ATOM 9527 C CD2 . LEU A 1 34 ? 6.723 1.121 0.610 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 6
+ATOM 9528 H H . LEU A 1 34 ? 5.979 4.764 2.719 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 6
+ATOM 9529 H HA . LEU A 1 34 ? 4.591 3.243 0.627 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 6
+ATOM 9530 H HB2 . LEU A 1 34 ? 6.065 2.261 2.909 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 6
+ATOM 9531 H HB3 . LEU A 1 34 ? 4.377 1.806 3.029 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 6
+ATOM 9532 H HG . LEU A 1 34 ? 5.486 0.023 1.944 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 6
+ATOM 9533 H HD11 . LEU A 1 34 ? 4.526 1.030 -0.605 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 6
+ATOM 9534 H HD12 . LEU A 1 34 ? 3.891 -0.276 0.424 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 6
+ATOM 9535 H HD13 . LEU A 1 34 ? 3.399 1.409 0.720 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 6
+ATOM 9536 H HD21 . LEU A 1 34 ? 6.666 2.011 -0.016 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 6
+ATOM 9537 H HD22 . LEU A 1 34 ? 7.536 1.233 1.328 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 6
+ATOM 9538 H HD23 . LEU A 1 34 ? 6.908 0.247 -0.015 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 6
+ATOM 9539 N N . MET A 1 35 ? 2.901 4.966 1.531 1.00 0.00 ? ? ? ? ? ? 35 MET A N 6
+ATOM 9540 C CA . MET A 1 35 ? 1.679 5.623 1.964 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 6
+ATOM 9541 C C . MET A 1 35 ? 0.446 4.916 1.398 1.00 0.00 ? ? ? ? ? ? 35 MET A C 6
+ATOM 9542 O O . MET A 1 35 ? 0.366 4.665 0.197 1.00 0.00 ? ? ? ? ? ? 35 MET A O 6
+ATOM 9543 C CB . MET A 1 35 ? 1.691 7.080 1.499 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 6
+ATOM 9544 C CG . MET A 1 35 ? 1.547 8.036 2.685 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 6
+ATOM 9545 S SD . MET A 1 35 ? 1.165 9.679 2.102 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 6
+ATOM 9546 C CE . MET A 1 35 ? 2.781 10.429 2.206 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 6
+ATOM 9547 H H . MET A 1 35 ? 3.256 5.273 0.648 1.00 0.00 ? ? ? ? ? ? 35 MET A H 6
+ATOM 9548 H HA . MET A 1 35 ? 1.680 5.554 3.052 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 6
+ATOM 9549 H HB2 . MET A 1 35 ? 2.621 7.289 0.970 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 6
+ATOM 9550 H HB3 . MET A 1 35 ? 0.878 7.247 0.792 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 6
+ATOM 9551 H HG2 . MET A 1 35 ? 0.759 7.685 3.351 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 6
+ATOM 9552 H HG3 . MET A 1 35 ? 2.470 8.052 3.264 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 6
+ATOM 9553 H HE1 . MET A 1 35 ? 3.226 10.201 3.175 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 6
+ATOM 9554 H HE2 . MET A 1 35 ? 3.417 10.034 1.413 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 6
+ATOM 9555 H HE3 . MET A 1 35 ? 2.689 11.509 2.095 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 6
+ATOM 9556 N N . VAL A 1 36 ? -0.486 4.615 2.291 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 6
+ATOM 9557 C CA . VAL A 1 36 ? -1.711 3.942 1.896 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 6
+ATOM 9558 C C . VAL A 1 36 ? -2.913 4.734 2.415 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 6
+ATOM 9559 O O . VAL A 1 36 ? -3.156 4.783 3.620 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 6
+ATOM 9560 C CB . VAL A 1 36 ? -1.694 2.493 2.386 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 6
+ATOM 9561 C CG1 . VAL A 1 36 ? -2.959 1.751 1.950 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 6
+ATOM 9562 C CG2 . VAL A 1 36 ? -0.438 1.766 1.903 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 6
+ATOM 9563 H H . VAL A 1 36 ? -0.413 4.823 3.267 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 6
+ATOM 9564 H HA . VAL A 1 36 ? -1.743 3.930 0.807 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 6
+ATOM 9565 H HB . VAL A 1 36 ? -1.674 2.508 3.476 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 6
+ATOM 9566 H HG11 . VAL A 1 36 ? -3.807 2.436 1.971 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 6
+ATOM 9567 H HG12 . VAL A 1 36 ? -2.826 1.370 0.937 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 6
+ATOM 9568 H HG13 . VAL A 1 36 ? -3.146 0.920 2.630 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 6
+ATOM 9569 H HG21 . VAL A 1 36 ? -0.587 1.424 0.879 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 6
+ATOM 9570 H HG22 . VAL A 1 36 ? 0.413 2.447 1.938 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 6
+ATOM 9571 H HG23 . VAL A 1 36 ? -0.244 0.908 2.547 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 6
+ATOM 9572 N N . GLY A 1 37 ? -3.633 5.336 1.479 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 6
+ATOM 9573 C CA . GLY A 1 37 ? -4.804 6.123 1.827 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 6
+ATOM 9574 C C . GLY A 1 37 ? -6.092 5.367 1.496 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 6
+ATOM 9575 O O . GLY A 1 37 ? -6.392 5.127 0.327 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 6
+ATOM 9576 H H . GLY A 1 37 ? -3.429 5.291 0.502 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 6
+ATOM 9577 H HA2 . GLY A 1 37 ? -4.782 6.364 2.890 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 6
+ATOM 9578 H HA3 . GLY A 1 37 ? -4.784 7.069 1.286 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 6
+ATOM 9579 N N . GLY A 1 38 ? -6.819 5.012 2.545 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 6
+ATOM 9580 C CA . GLY A 1 38 ? -8.068 4.288 2.380 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 6
+ATOM 9581 C C . GLY A 1 38 ? -9.260 5.146 2.809 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 6
+ATOM 9582 O O . GLY A 1 38 ? -9.659 5.124 3.973 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 6
+ATOM 9583 H H . GLY A 1 38 ? -6.568 5.211 3.492 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 6
+ATOM 9584 H HA2 . GLY A 1 38 ? -8.185 3.991 1.338 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 6
+ATOM 9585 H HA3 . GLY A 1 38 ? -8.042 3.373 2.972 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 6
+ATOM 9586 N N . VAL A 1 39 ? -9.795 5.882 1.846 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 6
+ATOM 9587 C CA . VAL A 1 39 ? -10.934 6.745 2.109 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 6
+ATOM 9588 C C . VAL A 1 39 ? -12.215 6.048 1.648 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 6
+ATOM 9589 O O . VAL A 1 39 ? -12.370 5.747 0.465 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 6
+ATOM 9590 C CB . VAL A 1 39 ? -10.722 8.107 1.445 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 6
+ATOM 9591 C CG1 . VAL A 1 39 ? -11.894 9.047 1.736 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 6
+ATOM 9592 C CG2 . VAL A 1 39 ? -9.396 8.732 1.886 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 6
+ATOM 9593 H H . VAL A 1 39 ? -9.465 5.894 0.902 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 6
+ATOM 9594 H HA . VAL A 1 39 ? -10.987 6.900 3.187 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 6
+ATOM 9595 H HB . VAL A 1 39 ? -10.677 7.951 0.368 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 6
+ATOM 9596 H HG11 . VAL A 1 39 ? -11.626 9.721 2.550 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 6
+ATOM 9597 H HG12 . VAL A 1 39 ? -12.123 9.629 0.843 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 6
+ATOM 9598 H HG13 . VAL A 1 39 ? -12.767 8.461 2.022 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 6
+ATOM 9599 H HG21 . VAL A 1 39 ? -9.572 9.401 2.727 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 6
+ATOM 9600 H HG22 . VAL A 1 39 ? -8.706 7.944 2.186 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 6
+ATOM 9601 H HG23 . VAL A 1 39 ? -8.967 9.295 1.057 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 6
+ATOM 9602 N N . VAL A 1 40 ? -13.100 5.812 2.605 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 6
+ATOM 9603 C CA . VAL A 1 40 ? -14.363 5.156 2.311 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 6
+ATOM 9604 C C . VAL A 1 40 ? -15.503 5.936 2.968 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 6
+ATOM 9605 O O . VAL A 1 40 ? -15.733 5.812 4.170 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 6
+ATOM 9606 C CB . VAL A 1 40 ? -14.307 3.692 2.754 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 6
+ATOM 9607 C CG1 . VAL A 1 40 ? -15.678 3.025 2.617 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 6
+ATOM 9608 C CG2 . VAL A 1 40 ? -13.242 2.922 1.971 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 6
+ATOM 9609 H H . VAL A 1 40 ? -12.966 6.060 3.564 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 6
+ATOM 9610 H HA . VAL A 1 40 ? -14.500 5.176 1.230 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 6
+ATOM 9611 H HB . VAL A 1 40 ? -14.029 3.671 3.808 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 6
+ATOM 9612 H HG11 . VAL A 1 40 ? -15.914 2.895 1.561 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 6
+ATOM 9613 H HG12 . VAL A 1 40 ? -15.659 2.053 3.108 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 6
+ATOM 9614 H HG13 . VAL A 1 40 ? -16.436 3.654 3.084 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 6
+ATOM 9615 H HG21 . VAL A 1 40 ? -12.294 3.457 2.026 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 6
+ATOM 9616 H HG22 . VAL A 1 40 ? -13.123 1.927 2.401 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 6
+ATOM 9617 H HG23 . VAL A 1 40 ? -13.550 2.833 0.929 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 6
+ATOM 9618 N N . ILE A 1 41 ? -16.186 6.723 2.150 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 6
+ATOM 9619 C CA . ILE A 1 41 ? -17.297 7.524 2.636 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 6
+ATOM 9620 C C . ILE A 1 41 ? -18.608 6.780 2.377 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 6
+ATOM 9621 O O . ILE A 1 41 ? -19.014 6.612 1.228 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 6
+ATOM 9622 C CB . ILE A 1 41 ? -17.254 8.926 2.026 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 6
+ATOM 9623 C CG1 . ILE A 1 41 ? -16.053 9.716 2.550 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 6
+ATOM 9624 C CG2 . ILE A 1 41 ? -18.573 9.666 2.258 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 6
+ATOM 9625 C CD1 . ILE A 1 41 ? -15.340 10.449 1.413 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 6
+ATOM 9626 H H . ILE A 1 41 ? -15.992 6.818 1.173 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 6
+ATOM 9627 H HA . ILE A 1 41 ? -17.171 7.637 3.713 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 6
+ATOM 9628 H HB . ILE A 1 41 ? -17.127 8.826 0.948 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 6
+ATOM 9629 H HG12 . ILE A 1 41 ? -16.386 10.436 3.299 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 6
+ATOM 9630 H HG13 . ILE A 1 41 ? -15.357 9.040 3.046 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 6
+ATOM 9631 H HG21 . ILE A 1 41 ? -19.242 9.489 1.416 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 6
+ATOM 9632 H HG22 . ILE A 1 41 ? -19.038 9.301 3.174 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 6
+ATOM 9633 H HG23 . ILE A 1 41 ? -18.379 10.735 2.350 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 6
+ATOM 9634 H HD11 . ILE A 1 41 ? -15.159 9.756 0.591 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 6
+ATOM 9635 H HD12 . ILE A 1 41 ? -15.963 11.273 1.064 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 6
+ATOM 9636 H HD13 . ILE A 1 41 ? -14.388 10.841 1.773 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 6
+ATOM 9637 N N . ALA A 1 42 ? -19.235 6.355 3.463 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 6
+ATOM 9638 C CA . ALA A 1 42 ? -20.493 5.633 3.368 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 6
+ATOM 9639 C C . ALA A 1 42 ? -21.567 6.381 4.160 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 6
+ATOM 9640 O O . ALA A 1 42 ? -21.800 6.082 5.331 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 6
+ATOM 9641 C CB . ALA A 1 42 ? -20.297 4.198 3.862 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 6
+ATOM 9642 H H . ALA A 1 42 ? -18.899 6.496 4.395 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 6
+ATOM 9643 H HA . ALA A 1 42 ? -20.781 5.606 2.317 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 6
+ATOM 9644 H HB1 . ALA A 1 42 ? -19.889 4.214 4.873 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 6
+ATOM 9645 H HB2 . ALA A 1 42 ? -21.256 3.681 3.866 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 6
+ATOM 9646 H HB3 . ALA A 1 42 ? -19.605 3.677 3.200 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 6
+ATOM 9647 N N . LEU B 1 17 ? -16.117 -4.919 -7.202 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 6
+ATOM 9648 C CA . LEU B 1 17 ? -15.027 -4.045 -7.601 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 6
+ATOM 9649 C C . LEU B 1 17 ? -13.787 -4.371 -6.766 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 6
+ATOM 9650 O O . LEU B 1 17 ? -13.669 -3.928 -5.624 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 6
+ATOM 9651 C CB . LEU B 1 17 ? -15.458 -2.579 -7.517 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 6
+ATOM 9652 C CG . LEU B 1 17 ? -15.384 -1.783 -8.822 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 6
+ATOM 9653 C CD1 . LEU B 1 17 ? -16.415 -0.654 -8.834 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 6
+ATOM 9654 C CD2 . LEU B 1 17 ? -13.965 -1.267 -9.069 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 6
+ATOM 9655 H H . LEU B 1 17 ? -17.005 -4.470 -7.105 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 6
+ATOM 9656 H HA . LEU B 1 17 ? -14.805 -4.257 -8.647 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 6
+ATOM 9657 H HB2 . LEU B 1 17 ? -16.483 -2.543 -7.150 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 6
+ATOM 9658 H HB3 . LEU B 1 17 ? -14.835 -2.080 -6.774 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 6
+ATOM 9659 H HG . LEU B 1 17 ? -15.630 -2.453 -9.645 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 6
+ATOM 9660 H HD11 . LEU B 1 17 ? -16.698 -0.409 -7.810 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 6
+ATOM 9661 H HD12 . LEU B 1 17 ? -15.984 0.227 -9.312 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 6
+ATOM 9662 H HD13 . LEU B 1 17 ? -17.297 -0.973 -9.389 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 6
+ATOM 9663 H HD21 . LEU B 1 17 ? -13.927 -0.755 -10.030 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 6
+ATOM 9664 H HD22 . LEU B 1 17 ? -13.688 -0.572 -8.276 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 6
+ATOM 9665 H HD23 . LEU B 1 17 ? -13.269 -2.106 -9.077 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 6
+ATOM 9666 N N . VAL B 1 18 ? -12.893 -5.142 -7.368 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 6
+ATOM 9667 C CA . VAL B 1 18 ? -11.666 -5.532 -6.694 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 6
+ATOM 9668 C C . VAL B 1 18 ? -10.503 -4.702 -7.242 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 6
+ATOM 9669 O O . VAL B 1 18 ? -10.482 -4.361 -8.424 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 6
+ATOM 9670 C CB . VAL B 1 18 ? -11.446 -7.039 -6.838 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 6
+ATOM 9671 C CG1 . VAL B 1 18 ? -10.058 -7.441 -6.335 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 6
+ATOM 9672 C CG2 . VAL B 1 18 ? -12.541 -7.825 -6.114 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 6
+ATOM 9673 H H . VAL B 1 18 ? -12.997 -5.498 -8.296 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 6
+ATOM 9674 H HA . VAL B 1 18 ? -11.788 -5.308 -5.634 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 6
+ATOM 9675 H HB . VAL B 1 18 ? -11.503 -7.286 -7.899 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 6
+ATOM 9676 H HG11 . VAL B 1 18 ? -9.298 -6.890 -6.889 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 6
+ATOM 9677 H HG12 . VAL B 1 18 ? -9.975 -7.208 -5.274 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 6
+ATOM 9678 H HG13 . VAL B 1 18 ? -9.913 -8.510 -6.486 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 6
+ATOM 9679 H HG21 . VAL B 1 18 ? -13.230 -7.130 -5.633 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 6
+ATOM 9680 H HG22 . VAL B 1 18 ? -13.085 -8.437 -6.833 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 6
+ATOM 9681 H HG23 . VAL B 1 18 ? -12.088 -8.468 -5.359 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 6
+ATOM 9682 N N . PHE B 1 19 ? -9.564 -4.402 -6.358 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 6
+ATOM 9683 C CA . PHE B 1 19 ? -8.400 -3.620 -6.738 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 6
+ATOM 9684 C C . PHE B 1 19 ? -7.115 -4.249 -6.196 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 6
+ATOM 9685 O O . PHE B 1 19 ? -6.814 -4.129 -5.009 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 6
+ATOM 9686 C CB . PHE B 1 19 ? -8.574 -2.231 -6.120 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 6
+ATOM 9687 C CG . PHE B 1 19 ? -8.370 -1.080 -7.108 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 6
+ATOM 9688 C CD1 . PHE B 1 19 ? -7.182 -0.941 -7.754 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 6
+ATOM 9689 C CD2 . PHE B 1 19 ? -9.378 -0.197 -7.340 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 6
+ATOM 9690 C CE1 . PHE B 1 19 ? -6.993 0.127 -8.671 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 6
+ATOM 9691 C CE2 . PHE B 1 19 ? -9.189 0.871 -8.257 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 6
+ATOM 9692 C CZ . PHE B 1 19 ? -8.001 1.010 -8.903 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 6
+ATOM 9693 H H . PHE B 1 19 ? -9.588 -4.684 -5.398 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 6
+ATOM 9694 H HA . PHE B 1 19 ? -8.363 -3.603 -7.827 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 6
+ATOM 9695 H HB2 . PHE B 1 19 ? -9.574 -2.157 -5.693 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 6
+ATOM 9696 H HB3 . PHE B 1 19 ? -7.867 -2.119 -5.298 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 6
+ATOM 9697 H HD1 . PHE B 1 19 ? -6.374 -1.649 -7.568 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 6
+ATOM 9698 H HD2 . PHE B 1 19 ? -10.331 -0.309 -6.822 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 6
+ATOM 9699 H HE1 . PHE B 1 19 ? -6.040 0.238 -9.189 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 6
+ATOM 9700 H HE2 . PHE B 1 19 ? -9.997 1.578 -8.443 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 6
+ATOM 9701 H HZ . PHE B 1 19 ? -7.855 1.829 -9.607 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 6
+ATOM 9702 N N . PHE B 1 20 ? -6.392 -4.905 -7.091 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 6
+ATOM 9703 C CA . PHE B 1 20 ? -5.147 -5.554 -6.718 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 6
+ATOM 9704 C C . PHE B 1 20 ? -3.941 -4.724 -7.165 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 6
+ATOM 9705 O O . PHE B 1 20 ? -3.857 -4.320 -8.324 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 6
+ATOM 9706 C CB . PHE B 1 20 ? -5.114 -6.905 -7.434 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 6
+ATOM 9707 C CG . PHE B 1 20 ? -5.174 -8.110 -6.492 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 6
+ATOM 9708 C CD1 . PHE B 1 20 ? -6.357 -8.473 -5.927 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 6
+ATOM 9709 C CD2 . PHE B 1 20 ? -4.045 -8.817 -6.220 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 6
+ATOM 9710 C CE1 . PHE B 1 20 ? -6.413 -9.590 -5.053 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 6
+ATOM 9711 C CE2 . PHE B 1 20 ? -4.101 -9.935 -5.346 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 6
+ATOM 9712 C CZ . PHE B 1 20 ? -5.284 -10.298 -4.781 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 6
+ATOM 9713 H H . PHE B 1 20 ? -6.645 -4.998 -8.055 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 6
+ATOM 9714 H HA . PHE B 1 20 ? -5.141 -5.643 -5.632 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 6
+ATOM 9715 H HB2 . PHE B 1 20 ? -5.952 -6.958 -8.128 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 6
+ATOM 9716 H HB3 . PHE B 1 20 ? -4.202 -6.968 -8.029 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 6
+ATOM 9717 H HD1 . PHE B 1 20 ? -7.262 -7.905 -6.145 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 6
+ATOM 9718 H HD2 . PHE B 1 20 ? -3.097 -8.527 -6.672 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 6
+ATOM 9719 H HE1 . PHE B 1 20 ? -7.361 -9.881 -4.600 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 6
+ATOM 9720 H HE2 . PHE B 1 20 ? -3.196 -10.502 -5.127 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 6
+ATOM 9721 H HZ . PHE B 1 20 ? -5.327 -11.156 -4.110 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 6
+ATOM 9722 N N . ALA B 1 21 ? -3.039 -4.494 -6.222 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 6
+ATOM 9723 C CA . ALA B 1 21 ? -1.842 -3.720 -6.505 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 6
+ATOM 9724 C C . ALA B 1 21 ? -0.632 -4.413 -5.876 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 6
+ATOM 9725 O O . ALA B 1 21 ? -0.293 -4.153 -4.722 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 6
+ATOM 9726 C CB . ALA B 1 21 ? -2.027 -2.290 -5.993 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 6
+ATOM 9727 H H . ALA B 1 21 ? -3.115 -4.827 -5.282 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 6
+ATOM 9728 H HA . ALA B 1 21 ? -1.713 -3.692 -7.586 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 6
+ATOM 9729 H HB1 . ALA B 1 21 ? -1.135 -1.705 -6.220 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 6
+ATOM 9730 H HB2 . ALA B 1 21 ? -2.891 -1.839 -6.479 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 6
+ATOM 9731 H HB3 . ALA B 1 21 ? -2.185 -2.308 -4.914 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 6
+ATOM 9732 N N . GLU B 1 22 ? -0.012 -5.281 -6.662 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 6
+ATOM 9733 C CA . GLU B 1 22 ? 1.153 -6.013 -6.197 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 6
+ATOM 9734 C C . GLU B 1 22 ? 2.418 -5.485 -6.876 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 6
+ATOM 9735 O O . GLU B 1 22 ? 2.542 -5.547 -8.099 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 6
+ATOM 9736 C CB . GLU B 1 22 ? 0.989 -7.515 -6.436 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 6
+ATOM 9737 C CG . GLU B 1 22 ? 0.157 -8.160 -5.325 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 6
+ATOM 9738 C CD . GLU B 1 22 ? 0.522 -9.636 -5.152 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 6
+ATOM 9739 O OE1 . GLU B 1 22 ? 0.034 -10.441 -5.975 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 6
+ATOM 9740 O OE2 . GLU B 1 22 ? 1.281 -9.925 -4.202 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 6
+ATOM 9741 H H . GLU B 1 22 ? -0.294 -5.487 -7.599 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 6
+ATOM 9742 H HA . GLU B 1 22 ? 1.204 -5.826 -5.124 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 6
+ATOM 9743 H HB2 . GLU B 1 22 ? 0.508 -7.683 -7.399 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 6
+ATOM 9744 H HB3 . GLU B 1 22 ? 1.969 -7.989 -6.482 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 6
+ATOM 9745 H HG2 . GLU B 1 22 ? 0.322 -7.628 -4.387 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 6
+ATOM 9746 H HG3 . GLU B 1 22 ? -0.903 -8.069 -5.560 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 6
+ATOM 9747 N N . ASP B 1 23 ? 3.325 -4.977 -6.055 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 6
+ATOM 9748 C CA . ASP B 1 23 ? 4.576 -4.438 -6.562 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 6
+ATOM 9749 C C . ASP B 1 23 ? 5.731 -5.335 -6.113 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 6
+ATOM 9750 O O . ASP B 1 23 ? 6.162 -5.271 -4.963 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 6
+ATOM 9751 C CB . ASP B 1 23 ? 4.830 -3.032 -6.017 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 6
+ATOM 9752 C CG . ASP B 1 23 ? 6.064 -2.330 -6.588 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 6
+ATOM 9753 O OD1 . ASP B 1 23 ? 6.263 -2.444 -7.817 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 6
+ATOM 9754 O OD2 . ASP B 1 23 ? 6.781 -1.697 -5.783 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 6
+ATOM 9755 H H . ASP B 1 23 ? 3.216 -4.930 -5.062 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 6
+ATOM 9756 H HA . ASP B 1 23 ? 4.460 -4.417 -7.645 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 6
+ATOM 9757 H HB2 . ASP B 1 23 ? 3.954 -2.415 -6.220 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 6
+ATOM 9758 H HB3 . ASP B 1 23 ? 4.934 -3.091 -4.933 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 6
+ATOM 9759 N N . VAL B 1 24 ? 6.201 -6.151 -7.046 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 6
+ATOM 9760 C CA . VAL B 1 24 ? 7.298 -7.060 -6.761 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 6
+ATOM 9761 C C . VAL B 1 24 ? 8.572 -6.540 -7.429 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 6
+ATOM 9762 O O . VAL B 1 24 ? 8.573 -6.241 -8.622 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 6
+ATOM 9763 C CB . VAL B 1 24 ? 6.929 -8.479 -7.199 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 6
+ATOM 9764 C CG1 . VAL B 1 24 ? 6.768 -8.559 -8.719 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 6
+ATOM 9765 C CG2 . VAL B 1 24 ? 7.963 -9.492 -6.703 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 6
+ATOM 9766 H H . VAL B 1 24 ? 5.845 -6.198 -7.979 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 6
+ATOM 9767 H HA . VAL B 1 24 ? 7.446 -7.069 -5.681 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 6
+ATOM 9768 H HB . VAL B 1 24 ? 5.970 -8.731 -6.747 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 6
+ATOM 9769 H HG11 . VAL B 1 24 ? 7.743 -8.723 -9.179 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 6
+ATOM 9770 H HG12 . VAL B 1 24 ? 6.104 -9.386 -8.971 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 6
+ATOM 9771 H HG13 . VAL B 1 24 ? 6.344 -7.626 -9.089 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 6
+ATOM 9772 H HG21 . VAL B 1 24 ? 8.797 -9.532 -7.403 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 6
+ATOM 9773 H HG22 . VAL B 1 24 ? 8.326 -9.189 -5.721 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 6
+ATOM 9774 H HG23 . VAL B 1 24 ? 7.501 -10.477 -6.631 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 6
+ATOM 9775 N N . GLY B 1 25 ? 9.625 -6.448 -6.631 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 6
+ATOM 9776 C CA . GLY B 1 25 ? 10.903 -5.969 -7.131 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 6
+ATOM 9777 C C . GLY B 1 25 ? 12.065 -6.682 -6.436 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 6
+ATOM 9778 O O . GLY B 1 25 ? 12.033 -6.895 -5.225 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 6
+ATOM 9779 H H . GLY B 1 25 ? 9.616 -6.693 -5.662 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 6
+ATOM 9780 H HA2 . GLY B 1 25 ? 10.962 -6.134 -8.207 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 6
+ATOM 9781 H HA3 . GLY B 1 25 ? 10.981 -4.894 -6.968 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 6
+ATOM 9782 N N . SER B 1 26 ? 13.065 -7.030 -7.233 1.00 0.00 ? ? ? ? ? ? 26 SER B N 6
+ATOM 9783 C CA . SER B 1 26 ? 14.235 -7.714 -6.710 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 6
+ATOM 9784 C C . SER B 1 26 ? 15.325 -6.697 -6.365 1.00 0.00 ? ? ? ? ? ? 26 SER B C 6
+ATOM 9785 O O . SER B 1 26 ? 16.121 -6.320 -7.223 1.00 0.00 ? ? ? ? ? ? 26 SER B O 6
+ATOM 9786 C CB . SER B 1 26 ? 14.766 -8.741 -7.711 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 6
+ATOM 9787 O OG . SER B 1 26 ? 14.274 -10.051 -7.444 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 6
+ATOM 9788 H H . SER B 1 26 ? 13.084 -6.852 -8.217 1.00 0.00 ? ? ? ? ? ? 26 SER B H 6
+ATOM 9789 H HA . SER B 1 26 ? 13.892 -8.227 -5.811 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 6
+ATOM 9790 H HB2 . SER B 1 26 ? 14.480 -8.445 -8.721 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 6
+ATOM 9791 H HB3 . SER B 1 26 ? 15.856 -8.750 -7.679 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 6
+ATOM 9792 H HG . SER B 1 26 ? 14.942 -10.735 -7.738 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 6
+ATOM 9793 N N . ASN B 1 27 ? 15.326 -6.282 -5.106 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 6
+ATOM 9794 C CA . ASN B 1 27 ? 16.304 -5.316 -4.637 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 6
+ATOM 9795 C C . ASN B 1 27 ? 15.886 -3.914 -5.084 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 6
+ATOM 9796 O O . ASN B 1 27 ? 15.971 -3.584 -6.266 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 6
+ATOM 9797 C CB . ASN B 1 27 ? 17.688 -5.606 -5.222 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 6
+ATOM 9798 C CG . ASN B 1 27 ? 18.780 -5.416 -4.167 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 6
+ATOM 9799 O OD1 . ASN B 1 27 ? 19.049 -6.283 -3.352 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 6
+ATOM 9800 N ND2 . ASN B 1 27 ? 19.392 -4.237 -4.228 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 6
+ATOM 9801 H H . ASN B 1 27 ? 14.674 -6.594 -4.414 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 6
+ATOM 9802 H HA . ASN B 1 27 ? 16.314 -5.423 -3.552 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 6
+ATOM 9803 H HB2 . ASN B 1 27 ? 17.719 -6.626 -5.604 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 6
+ATOM 9804 H HB3 . ASN B 1 27 ? 17.875 -4.943 -6.067 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 6
+ATOM 9805 H HD21 . ASN B 1 27 ? 19.123 -3.570 -4.922 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 6
+ATOM 9806 H HD22 . ASN B 1 27 ? 20.122 -4.018 -3.580 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 6
+ATOM 9807 N N . LYS B 1 28 ? 15.443 -3.127 -4.115 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 6
+ATOM 9808 C CA . LYS B 1 28 ? 15.011 -1.768 -4.394 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 6
+ATOM 9809 C C . LYS B 1 28 ? 15.343 -0.876 -3.196 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 6
+ATOM 9810 O O . LYS B 1 28 ? 14.930 -1.159 -2.073 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 6
+ATOM 9811 C CB . LYS B 1 28 ? 13.532 -1.745 -4.785 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 6
+ATOM 9812 C CG . LYS B 1 28 ? 12.645 -2.129 -3.599 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 6
+ATOM 9813 C CD . LYS B 1 28 ? 11.163 -2.009 -3.961 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 6
+ATOM 9814 C CE . LYS B 1 28 ? 10.465 -3.367 -3.871 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 6
+ATOM 9815 N NZ . LYS B 1 28 ? 9.178 -3.242 -3.150 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 6
+ATOM 9816 H H . LYS B 1 28 ? 15.377 -3.403 -3.156 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 6
+ATOM 9817 H HA . LYS B 1 28 ? 15.578 -1.415 -5.255 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 6
+ATOM 9818 H HB2 . LYS B 1 28 ? 13.261 -0.751 -5.141 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 6
+ATOM 9819 H HB3 . LYS B 1 28 ? 13.360 -2.436 -5.611 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 6
+ATOM 9820 H HG2 . LYS B 1 28 ? 12.866 -3.150 -3.290 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 6
+ATOM 9821 H HG3 . LYS B 1 28 ? 12.868 -1.483 -2.750 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 6
+ATOM 9822 H HD2 . LYS B 1 28 ? 10.677 -1.301 -3.290 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 6
+ATOM 9823 H HD3 . LYS B 1 28 ? 11.063 -1.611 -4.971 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 6
+ATOM 9824 H HE2 . LYS B 1 28 ? 10.291 -3.761 -4.872 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 6
+ATOM 9825 H HE3 . LYS B 1 28 ? 11.109 -4.080 -3.356 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 6
+ATOM 9826 H HZ1 . LYS B 1 28 ? 8.850 -4.151 -2.894 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 6
+ATOM 9827 H HZ2 . LYS B 1 28 ? 9.310 -2.691 -2.327 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 6
+ATOM 9828 H HZ3 . LYS B 1 28 ? 8.506 -2.800 -3.744 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 6
+ATOM 9829 N N . GLY B 1 29 ? 16.086 0.185 -3.477 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 6
+ATOM 9830 C CA . GLY B 1 29 ? 16.479 1.120 -2.437 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 6
+ATOM 9831 C C . GLY B 1 29 ? 16.482 2.557 -2.964 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 6
+ATOM 9832 O O . GLY B 1 29 ? 15.556 2.968 -3.660 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 6
+ATOM 9833 H H . GLY B 1 29 ? 16.418 0.408 -4.394 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 6
+ATOM 9834 H HA2 . GLY B 1 29 ? 15.794 1.040 -1.593 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 6
+ATOM 9835 H HA3 . GLY B 1 29 ? 17.472 0.863 -2.067 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 6
+ATOM 9836 N N . ALA B 1 30 ? 17.535 3.280 -2.612 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 6
+ATOM 9837 C CA . ALA B 1 30 ? 17.671 4.661 -3.041 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 6
+ATOM 9838 C C . ALA B 1 30 ? 16.524 5.488 -2.457 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 6
+ATOM 9839 O O . ALA B 1 30 ? 16.553 5.854 -1.283 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 6
+ATOM 9840 C CB . ALA B 1 30 ? 17.713 4.720 -4.569 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 6
+ATOM 9841 H H . ALA B 1 30 ? 18.285 2.937 -2.045 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 6
+ATOM 9842 H HA . ALA B 1 30 ? 18.616 5.039 -2.649 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 6
+ATOM 9843 H HB1 . ALA B 1 30 ? 17.520 5.741 -4.899 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 6
+ATOM 9844 H HB2 . ALA B 1 30 ? 18.697 4.406 -4.918 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 6
+ATOM 9845 H HB3 . ALA B 1 30 ? 16.953 4.055 -4.979 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 6
+ATOM 9846 N N . ILE B 1 31 ? 15.540 5.756 -3.303 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 6
+ATOM 9847 C CA . ILE B 1 31 ? 14.385 6.532 -2.885 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 6
+ATOM 9848 C C . ILE B 1 31 ? 13.136 5.998 -3.589 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 6
+ATOM 9849 O O . ILE B 1 31 ? 13.093 5.927 -4.816 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 6
+ATOM 9850 C CB . ILE B 1 31 ? 14.630 8.025 -3.116 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 6
+ATOM 9851 C CG1 . ILE B 1 31 ? 13.310 8.773 -3.316 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 6
+ATOM 9852 C CG2 . ILE B 1 31 ? 15.597 8.248 -4.280 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 6
+ATOM 9853 C CD1 . ILE B 1 31 ? 13.490 10.274 -3.080 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 6
+ATOM 9854 H H . ILE B 1 31 ? 15.524 5.454 -4.256 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 6
+ATOM 9855 H HA . ILE B 1 31 ? 14.265 6.388 -1.811 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 6
+ATOM 9856 H HB . ILE B 1 31 ? 15.101 8.436 -2.223 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 6
+ATOM 9857 H HG12 . ILE B 1 31 ? 12.941 8.602 -4.327 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 6
+ATOM 9858 H HG13 . ILE B 1 31 ? 12.559 8.381 -2.631 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 6
+ATOM 9859 H HG21 . ILE B 1 31 ? 15.668 9.314 -4.495 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 6
+ATOM 9860 H HG22 . ILE B 1 31 ? 16.582 7.865 -4.013 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 6
+ATOM 9861 H HG23 . ILE B 1 31 ? 15.231 7.723 -5.163 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 6
+ATOM 9862 H HD11 . ILE B 1 31 ? 13.941 10.436 -2.101 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 6
+ATOM 9863 H HD12 . ILE B 1 31 ? 14.138 10.688 -3.852 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 6
+ATOM 9864 H HD13 . ILE B 1 31 ? 12.518 10.766 -3.118 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 6
+ATOM 9865 N N . ILE B 1 32 ? 12.150 5.636 -2.781 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 6
+ATOM 9866 C CA . ILE B 1 32 ? 10.903 5.111 -3.311 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 6
+ATOM 9867 C C . ILE B 1 32 ? 9.742 5.985 -2.832 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 6
+ATOM 9868 O O . ILE B 1 32 ? 9.809 6.578 -1.757 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 6
+ATOM 9869 C CB . ILE B 1 32 ? 10.749 3.632 -2.950 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 6
+ATOM 9870 C CG1 . ILE B 1 32 ? 12.013 2.846 -3.306 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 6
+ATOM 9871 C CG2 . ILE B 1 32 ? 9.500 3.036 -3.603 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 6
+ATOM 9872 C CD1 . ILE B 1 32 ? 11.815 1.349 -3.059 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 6
+ATOM 9873 H H . ILE B 1 32 ? 12.193 5.697 -1.784 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 6
+ATOM 9874 H HA . ILE B 1 32 ? 10.958 5.174 -4.398 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 6
+ATOM 9875 H HB . ILE B 1 32 ? 10.615 3.555 -1.871 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 6
+ATOM 9876 H HG12 . ILE B 1 32 ? 12.267 3.015 -4.353 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 6
+ATOM 9877 H HG13 . ILE B 1 32 ? 12.850 3.209 -2.711 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 6
+ATOM 9878 H HG21 . ILE B 1 32 ? 9.435 3.372 -4.638 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 6
+ATOM 9879 H HG22 . ILE B 1 32 ? 9.561 1.948 -3.578 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 6
+ATOM 9880 H HG23 . ILE B 1 32 ? 8.614 3.362 -3.059 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 6
+ATOM 9881 H HD11 . ILE B 1 32 ? 11.113 1.206 -2.238 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 6
+ATOM 9882 H HD12 . ILE B 1 32 ? 11.420 0.881 -3.961 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 6
+ATOM 9883 H HD13 . ILE B 1 32 ? 12.772 0.894 -2.803 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 6
+ATOM 9884 N N . GLY B 1 33 ? 8.704 6.036 -3.654 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 6
+ATOM 9885 C CA . GLY B 1 33 ? 7.530 6.828 -3.329 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 6
+ATOM 9886 C C . GLY B 1 33 ? 6.246 6.083 -3.702 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 6
+ATOM 9887 O O . GLY B 1 33 ? 5.640 6.363 -4.735 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 6
+ATOM 9888 H H . GLY B 1 33 ? 8.657 5.550 -4.527 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 6
+ATOM 9889 H HA2 . GLY B 1 33 ? 7.525 7.056 -2.263 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 6
+ATOM 9890 H HA3 . GLY B 1 33 ? 7.570 7.779 -3.858 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 6
+ATOM 9891 N N . LEU B 1 34 ? 5.869 5.150 -2.840 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 6
+ATOM 9892 C CA . LEU B 1 34 ? 4.669 4.364 -3.067 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 6
+ATOM 9893 C C . LEU B 1 34 ? 3.473 5.070 -2.424 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 6
+ATOM 9894 O O . LEU B 1 34 ? 3.453 5.287 -1.214 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 6
+ATOM 9895 C CB . LEU B 1 34 ? 4.869 2.927 -2.579 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 6
+ATOM 9896 C CG . LEU B 1 34 ? 4.510 1.824 -3.577 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 6
+ATOM 9897 C CD1 . LEU B 1 34 ? 5.768 1.217 -4.200 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 6
+ATOM 9898 C CD2 . LEU B 1 34 ? 3.624 0.762 -2.924 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 6
+ATOM 9899 H H . LEU B 1 34 ? 6.368 4.929 -2.002 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 6
+ATOM 9900 H HA . LEU B 1 34 ? 4.506 4.319 -4.144 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 6
+ATOM 9901 H HB2 . LEU B 1 34 ? 5.914 2.804 -2.293 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 6
+ATOM 9902 H HB3 . LEU B 1 34 ? 4.273 2.784 -1.679 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 6
+ATOM 9903 H HG . LEU B 1 34 ? 3.933 2.271 -4.387 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 6
+ATOM 9904 H HD11 . LEU B 1 34 ? 6.571 1.207 -3.462 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 6
+ATOM 9905 H HD12 . LEU B 1 34 ? 5.559 0.197 -4.523 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 6
+ATOM 9906 H HD13 . LEU B 1 34 ? 6.073 1.815 -5.060 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 6
+ATOM 9907 H HD21 . LEU B 1 34 ? 2.957 1.237 -2.204 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 6
+ATOM 9908 H HD22 . LEU B 1 34 ? 3.034 0.259 -3.690 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 6
+ATOM 9909 H HD23 . LEU B 1 34 ? 4.250 0.031 -2.411 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 6
+ATOM 9910 N N . MET B 1 35 ? 2.505 5.408 -3.264 1.00 0.00 ? ? ? ? ? ? 35 MET B N 6
+ATOM 9911 C CA . MET B 1 35 ? 1.309 6.085 -2.793 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 6
+ATOM 9912 C C . MET B 1 35 ? 0.047 5.390 -3.307 1.00 0.00 ? ? ? ? ? ? 35 MET B C 6
+ATOM 9913 O O . MET B 1 35 ? -0.252 5.440 -4.499 1.00 0.00 ? ? ? ? ? ? 35 MET B O 6
+ATOM 9914 C CB . MET B 1 35 ? 1.323 7.538 -3.272 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 6
+ATOM 9915 C CG . MET B 1 35 ? 1.172 8.505 -2.095 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 6
+ATOM 9916 S SD . MET B 1 35 ? 1.113 10.187 -2.691 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 6
+ATOM 9917 C CE . MET B 1 35 ? -0.652 10.457 -2.681 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 6
+ATOM 9918 H H . MET B 1 35 ? 2.529 5.228 -4.247 1.00 0.00 ? ? ? ? ? ? 35 MET B H 6
+ATOM 9919 H HA . MET B 1 35 ? 1.348 6.026 -1.705 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 6
+ATOM 9920 H HB2 . MET B 1 35 ? 2.255 7.743 -3.798 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 6
+ATOM 9921 H HB3 . MET B 1 35 ? 0.513 7.698 -3.984 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 6
+ATOM 9922 H HG2 . MET B 1 35 ? 0.264 8.275 -1.539 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 6
+ATOM 9923 H HG3 . MET B 1 35 ? 2.008 8.384 -1.406 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 6
+ATOM 9924 H HE1 . MET B 1 35 ? -0.929 11.078 -3.532 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 6
+ATOM 9925 H HE2 . MET B 1 35 ? -1.166 9.498 -2.749 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 6
+ATOM 9926 H HE3 . MET B 1 35 ? -0.938 10.958 -1.757 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 6
+ATOM 9927 N N . VAL B 1 36 ? -0.659 4.757 -2.382 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 6
+ATOM 9928 C CA . VAL B 1 36 ? -1.882 4.052 -2.726 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 6
+ATOM 9929 C C . VAL B 1 36 ? -3.086 4.861 -2.242 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 6
+ATOM 9930 O O . VAL B 1 36 ? -3.233 5.108 -1.045 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 6
+ATOM 9931 C CB . VAL B 1 36 ? -1.847 2.633 -2.155 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 6
+ATOM 9932 C CG1 . VAL B 1 36 ? -3.119 1.864 -2.517 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 6
+ATOM 9933 C CG2 . VAL B 1 36 ? -0.600 1.882 -2.627 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 6
+ATOM 9934 H H . VAL B 1 36 ? -0.409 4.721 -1.414 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 6
+ATOM 9935 H HA . VAL B 1 36 ? -1.924 3.977 -3.813 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 6
+ATOM 9936 H HB . VAL B 1 36 ? -1.800 2.710 -1.068 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 6
+ATOM 9937 H HG11 . VAL B 1 36 ? -3.062 1.534 -3.554 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 6
+ATOM 9938 H HG12 . VAL B 1 36 ? -3.218 0.996 -1.865 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 6
+ATOM 9939 H HG13 . VAL B 1 36 ? -3.985 2.514 -2.390 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 6
+ATOM 9940 H HG21 . VAL B 1 36 ? -0.718 1.603 -3.674 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 6
+ATOM 9941 H HG22 . VAL B 1 36 ? 0.274 2.525 -2.518 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 6
+ATOM 9942 H HG23 . VAL B 1 36 ? -0.467 0.984 -2.024 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 6
+ATOM 9943 N N . GLY B 1 37 ? -3.918 5.253 -3.196 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 6
+ATOM 9944 C CA . GLY B 1 37 ? -5.105 6.030 -2.881 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 6
+ATOM 9945 C C . GLY B 1 37 ? -6.376 5.217 -3.135 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 6
+ATOM 9946 O O . GLY B 1 37 ? -6.552 4.655 -4.215 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 6
+ATOM 9947 H H . GLY B 1 37 ? -3.792 5.049 -4.166 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 6
+ATOM 9948 H HA2 . GLY B 1 37 ? -5.072 6.344 -1.838 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 6
+ATOM 9949 H HA3 . GLY B 1 37 ? -5.122 6.936 -3.487 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 6
+ATOM 9950 N N . GLY B 1 38 ? -7.229 5.180 -2.121 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 6
+ATOM 9951 C CA . GLY B 1 38 ? -8.478 4.445 -2.221 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 6
+ATOM 9952 C C . GLY B 1 38 ? -9.656 5.300 -1.750 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 6
+ATOM 9953 O O . GLY B 1 38 ? -10.011 5.279 -0.572 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 6
+ATOM 9954 H H . GLY B 1 38 ? -7.078 5.640 -1.246 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 6
+ATOM 9955 H HA2 . GLY B 1 38 ? -8.640 4.134 -3.253 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 6
+ATOM 9956 H HA3 . GLY B 1 38 ? -8.419 3.537 -1.620 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 6
+ATOM 9957 N N . VAL B 1 39 ? -10.230 6.031 -2.694 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 6
+ATOM 9958 C CA . VAL B 1 39 ? -11.361 6.891 -2.390 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 6
+ATOM 9959 C C . VAL B 1 39 ? -12.650 6.218 -2.865 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 6
+ATOM 9960 O O . VAL B 1 39 ? -12.879 6.084 -4.066 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 6
+ATOM 9961 C CB . VAL B 1 39 ? -11.147 8.275 -3.007 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 6
+ATOM 9962 C CG1 . VAL B 1 39 ? -12.414 9.126 -2.898 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 6
+ATOM 9963 C CG2 . VAL B 1 39 ? -9.953 8.983 -2.363 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 6
+ATOM 9964 H H . VAL B 1 39 ? -9.936 6.042 -3.649 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 6
+ATOM 9965 H HA . VAL B 1 39 ? -11.404 7.007 -1.307 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 6
+ATOM 9966 H HB . VAL B 1 39 ? -10.924 8.139 -4.065 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 6
+ATOM 9967 H HG11 . VAL B 1 39 ? -13.054 8.725 -2.113 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 6
+ATOM 9968 H HG12 . VAL B 1 39 ? -12.142 10.153 -2.655 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 6
+ATOM 9969 H HG13 . VAL B 1 39 ? -12.947 9.106 -3.848 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 6
+ATOM 9970 H HG21 . VAL B 1 39 ? -9.819 9.962 -2.824 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 6
+ATOM 9971 H HG22 . VAL B 1 39 ? -10.137 9.107 -1.295 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 6
+ATOM 9972 H HG23 . VAL B 1 39 ? -9.054 8.386 -2.509 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 6
+ATOM 9973 N N . VAL B 1 40 ? -13.460 5.813 -1.897 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 6
+ATOM 9974 C CA . VAL B 1 40 ? -14.720 5.157 -2.202 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 6
+ATOM 9975 C C . VAL B 1 40 ? -15.869 5.957 -1.583 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 6
+ATOM 9976 O O . VAL B 1 40 ? -15.809 6.333 -0.413 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 6
+ATOM 9977 C CB . VAL B 1 40 ? -14.682 3.703 -1.728 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 6
+ATOM 9978 C CG1 . VAL B 1 40 ? -16.035 3.022 -1.938 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 6
+ATOM 9979 C CG2 . VAL B 1 40 ? -13.563 2.928 -2.428 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 6
+ATOM 9980 H H . VAL B 1 40 ? -13.267 5.926 -0.923 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 6
+ATOM 9981 H HA . VAL B 1 40 ? -14.837 5.156 -3.285 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 6
+ATOM 9982 H HB . VAL B 1 40 ? -14.469 3.704 -0.659 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 6
+ATOM 9983 H HG11 . VAL B 1 40 ? -16.026 2.041 -1.463 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 6
+ATOM 9984 H HG12 . VAL B 1 40 ? -16.822 3.632 -1.495 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 6
+ATOM 9985 H HG13 . VAL B 1 40 ? -16.222 2.906 -3.005 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 6
+ATOM 9986 H HG21 . VAL B 1 40 ? -12.842 2.582 -1.687 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 6
+ATOM 9987 H HG22 . VAL B 1 40 ? -13.987 2.071 -2.950 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 6
+ATOM 9988 H HG23 . VAL B 1 40 ? -13.064 3.580 -3.145 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 6
+ATOM 9989 N N . ILE B 1 41 ? -16.888 6.194 -2.396 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 6
+ATOM 9990 C CA . ILE B 1 41 ? -18.048 6.942 -1.943 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 6
+ATOM 9991 C C . ILE B 1 41 ? -19.319 6.163 -2.289 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 6
+ATOM 9992 O O . ILE B 1 41 ? -19.593 5.904 -3.460 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 6
+ATOM 9993 C CB . ILE B 1 41 ? -18.024 8.363 -2.510 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 6
+ATOM 9994 C CG1 . ILE B 1 41 ? -16.744 9.095 -2.102 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 6
+ATOM 9995 C CG2 . ILE B 1 41 ? -19.281 9.136 -2.105 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 6
+ATOM 9996 C CD1 . ILE B 1 41 ? -16.420 10.222 -3.084 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 6
+ATOM 9997 H H . ILE B 1 41 ? -16.929 5.885 -3.346 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 6
+ATOM 9998 H HA . ILE B 1 41 ? -17.979 7.027 -0.859 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 6
+ATOM 9999 H HB . ILE B 1 41 ? -18.024 8.296 -3.598 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 6
+ATOM 10000 H HG12 . ILE B 1 41 ? -16.859 9.504 -1.098 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 6
+ATOM 10001 H HG13 . ILE B 1 41 ? -15.914 8.390 -2.066 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 6
+ATOM 10002 H HG21 . ILE B 1 41 ? -19.010 10.160 -1.848 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 6
+ATOM 10003 H HG22 . ILE B 1 41 ? -19.986 9.144 -2.936 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 6
+ATOM 10004 H HG23 . ILE B 1 41 ? -19.741 8.655 -1.242 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 6
+ATOM 10005 H HD11 . ILE B 1 41 ? -16.118 11.111 -2.530 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 6
+ATOM 10006 H HD12 . ILE B 1 41 ? -15.608 9.910 -3.741 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 6
+ATOM 10007 H HD13 . ILE B 1 41 ? -17.304 10.449 -3.681 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 6
+ATOM 10008 N N . ALA B 1 42 ? -20.061 5.812 -1.249 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 6
+ATOM 10009 C CA . ALA B 1 42 ? -21.296 5.067 -1.428 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 6
+ATOM 10010 C C . ALA B 1 42 ? -22.443 5.821 -0.752 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 6
+ATOM 10011 O O . ALA B 1 42 ? -22.534 5.849 0.475 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 6
+ATOM 10012 C CB . ALA B 1 42 ? -21.123 3.651 -0.877 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 6
+ATOM 10013 H H . ALA B 1 42 ? -19.831 6.026 -0.300 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 6
+ATOM 10014 H HA . ALA B 1 42 ? -21.494 5.006 -2.498 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 6
+ATOM 10015 H HB1 . ALA B 1 42 ? -21.068 2.943 -1.704 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 6
+ATOM 10016 H HB2 . ALA B 1 42 ? -20.205 3.598 -0.292 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 6
+ATOM 10017 H HB3 . ALA B 1 42 ? -21.973 3.402 -0.242 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 6
+ATOM 10018 N N . LEU C 1 17 ? -15.634 -6.599 -11.893 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 6
+ATOM 10019 C CA . LEU C 1 17 ? -14.760 -5.441 -11.806 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 6
+ATOM 10020 C C . LEU C 1 17 ? -13.545 -5.789 -10.945 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 6
+ATOM 10021 O O . LEU C 1 17 ? -13.624 -5.772 -9.717 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 6
+ATOM 10022 C CB . LEU C 1 17 ? -15.536 -4.220 -11.310 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 6
+ATOM 10023 C CG . LEU C 1 17 ? -16.722 -3.783 -12.172 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 6
+ATOM 10024 C CD1 . LEU C 1 17 ? -18.048 -4.212 -11.539 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 6
+ATOM 10025 C CD2 . LEU C 1 17 ? -16.677 -2.278 -12.444 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 6
+ATOM 10026 H H . LEU C 1 17 ? -15.688 -7.021 -12.798 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 6
+ATOM 10027 H HA . LEU C 1 17 ? -14.415 -5.216 -12.815 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 6
+ATOM 10028 H HB2 . LEU C 1 17 ? -15.902 -4.430 -10.304 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 6
+ATOM 10029 H HB3 . LEU C 1 17 ? -14.843 -3.382 -11.228 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 6
+ATOM 10030 H HG . LEU C 1 17 ? -16.648 -4.287 -13.136 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 6
+ATOM 10031 H HD11 . LEU C 1 17 ? -18.371 -5.156 -11.978 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 6
+ATOM 10032 H HD12 . LEU C 1 17 ? -17.914 -4.337 -10.465 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 6
+ATOM 10033 H HD13 . LEU C 1 17 ? -18.803 -3.447 -11.724 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 6
+ATOM 10034 H HD21 . LEU C 1 17 ? -15.658 -1.985 -12.696 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 6
+ATOM 10035 H HD22 . LEU C 1 17 ? -17.340 -2.039 -13.275 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 6
+ATOM 10036 H HD23 . LEU C 1 17 ? -17.001 -1.738 -11.554 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 6
+ATOM 10037 N N . VAL C 1 18 ? -12.448 -6.097 -11.622 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 6
+ATOM 10038 C CA . VAL C 1 18 ? -11.218 -6.449 -10.934 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 6
+ATOM 10039 C C . VAL C 1 18 ? -10.048 -5.697 -11.573 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 6
+ATOM 10040 O O . VAL C 1 18 ? -9.701 -5.948 -12.726 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 6
+ATOM 10041 C CB . VAL C 1 18 ? -11.029 -7.967 -10.942 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 6
+ATOM 10042 C CG1 . VAL C 1 18 ? -9.582 -8.341 -10.612 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 6
+ATOM 10043 C CG2 . VAL C 1 18 ? -12.004 -8.646 -9.979 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 6
+ATOM 10044 H H . VAL C 1 18 ? -12.392 -6.109 -12.620 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 6
+ATOM 10045 H HA . VAL C 1 18 ? -11.317 -6.126 -9.897 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 6
+ATOM 10046 H HB . VAL C 1 18 ? -11.246 -8.326 -11.948 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 6
+ATOM 10047 H HG11 . VAL C 1 18 ? -9.121 -7.538 -10.037 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 6
+ATOM 10048 H HG12 . VAL C 1 18 ? -9.570 -9.260 -10.026 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 6
+ATOM 10049 H HG13 . VAL C 1 18 ? -9.026 -8.492 -11.537 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 6
+ATOM 10050 H HG21 . VAL C 1 18 ? -11.445 -9.216 -9.237 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 6
+ATOM 10051 H HG22 . VAL C 1 18 ? -12.606 -7.888 -9.477 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 6
+ATOM 10052 H HG23 . VAL C 1 18 ? -12.657 -9.318 -10.537 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 6
+ATOM 10053 N N . PHE C 1 19 ? -9.474 -4.790 -10.797 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 6
+ATOM 10054 C CA . PHE C 1 19 ? -8.351 -4.001 -11.273 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 6
+ATOM 10055 C C . PHE C 1 19 ? -7.032 -4.520 -10.697 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 6
+ATOM 10056 O O . PHE C 1 19 ? -6.687 -4.218 -9.555 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 6
+ATOM 10057 C CB . PHE C 1 19 ? -8.575 -2.567 -10.789 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 6
+ATOM 10058 C CG . PHE C 1 19 ? -8.108 -1.496 -11.777 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 6
+ATOM 10059 C CD1 . PHE C 1 19 ? -6.916 -1.635 -12.417 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 6
+ATOM 10060 C CD2 . PHE C 1 19 ? -8.885 -0.406 -12.016 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 6
+ATOM 10061 C CE1 . PHE C 1 19 ? -6.482 -0.642 -13.335 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 6
+ATOM 10062 C CE2 . PHE C 1 19 ? -8.451 0.588 -12.934 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 6
+ATOM 10063 C CZ . PHE C 1 19 ? -7.259 0.449 -13.573 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 6
+ATOM 10064 H H . PHE C 1 19 ? -9.762 -4.592 -9.860 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 6
+ATOM 10065 H HA . PHE C 1 19 ? -8.330 -4.089 -12.359 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 6
+ATOM 10066 H HB2 . PHE C 1 19 ? -9.637 -2.423 -10.589 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 6
+ATOM 10067 H HB3 . PHE C 1 19 ? -8.051 -2.427 -9.843 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 6
+ATOM 10068 H HD1 . PHE C 1 19 ? -6.293 -2.509 -12.226 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 6
+ATOM 10069 H HD2 . PHE C 1 19 ? -9.840 -0.294 -11.504 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 6
+ATOM 10070 H HE1 . PHE C 1 19 ? -5.527 -0.754 -13.847 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 6
+ATOM 10071 H HE2 . PHE C 1 19 ? -9.073 1.462 -13.125 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 6
+ATOM 10072 H HZ . PHE C 1 19 ? -6.926 1.211 -14.278 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 6
+ATOM 10073 N N . PHE C 1 20 ? -6.330 -5.292 -11.513 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 6
+ATOM 10074 C CA . PHE C 1 20 ? -5.056 -5.856 -11.099 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 6
+ATOM 10075 C C . PHE C 1 20 ? -3.891 -4.981 -11.565 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 6
+ATOM 10076 O O . PHE C 1 20 ? -3.838 -4.579 -12.726 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 6
+ATOM 10077 C CB . PHE C 1 20 ? -4.941 -7.232 -11.759 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 6
+ATOM 10078 C CG . PHE C 1 20 ? -4.844 -8.392 -10.766 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 6
+ATOM 10079 C CD1 . PHE C 1 20 ? -5.915 -8.719 -9.995 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 6
+ATOM 10080 C CD2 . PHE C 1 20 ? -3.686 -9.097 -10.655 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 6
+ATOM 10081 C CE1 . PHE C 1 20 ? -5.825 -9.796 -9.074 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 6
+ATOM 10082 C CE2 . PHE C 1 20 ? -3.596 -10.173 -9.734 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 6
+ATOM 10083 C CZ . PHE C 1 20 ? -4.667 -10.500 -8.963 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 6
+ATOM 10084 H H . PHE C 1 20 ? -6.617 -5.533 -12.440 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 6
+ATOM 10085 H HA . PHE C 1 20 ? -5.061 -5.902 -10.010 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 6
+ATOM 10086 H HB2 . PHE C 1 20 ? -5.806 -7.389 -12.402 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 6
+ATOM 10087 H HB3 . PHE C 1 20 ? -4.060 -7.242 -12.401 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 6
+ATOM 10088 H HD1 . PHE C 1 20 ? -6.843 -8.154 -10.085 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 6
+ATOM 10089 H HD2 . PHE C 1 20 ? -2.827 -8.835 -11.273 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 6
+ATOM 10090 H HE1 . PHE C 1 20 ? -6.684 -10.058 -8.456 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 6
+ATOM 10091 H HE2 . PHE C 1 20 ? -2.667 -10.738 -9.644 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 6
+ATOM 10092 H HZ . PHE C 1 20 ? -4.598 -11.327 -8.255 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 6
+ATOM 10093 N N . ALA C 1 21 ? -2.987 -4.711 -10.635 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 6
+ATOM 10094 C CA . ALA C 1 21 ? -1.826 -3.890 -10.935 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 6
+ATOM 10095 C C . ALA C 1 21 ? -0.565 -4.594 -10.431 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 6
+ATOM 10096 O O . ALA C 1 21 ? -0.181 -4.433 -9.273 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 6
+ATOM 10097 C CB . ALA C 1 21 ? -2.007 -2.503 -10.316 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 6
+ATOM 10098 H H . ALA C 1 21 ? -3.038 -5.042 -9.693 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 6
+ATOM 10099 H HA . ALA C 1 21 ? -1.765 -3.786 -12.019 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 6
+ATOM 10100 H HB1 . ALA C 1 21 ? -1.993 -2.586 -9.229 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 6
+ATOM 10101 H HB2 . ALA C 1 21 ? -1.197 -1.851 -10.642 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 6
+ATOM 10102 H HB3 . ALA C 1 21 ? -2.961 -2.084 -10.636 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 6
+ATOM 10103 N N . GLU C 1 22 ? 0.045 -5.359 -11.324 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 6
+ATOM 10104 C CA . GLU C 1 22 ? 1.255 -6.088 -10.984 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 6
+ATOM 10105 C C . GLU C 1 22 ? 2.472 -5.430 -11.636 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 6
+ATOM 10106 O O . GLU C 1 22 ? 2.452 -5.121 -12.826 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 6
+ATOM 10107 C CB . GLU C 1 22 ? 1.142 -7.559 -11.392 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 6
+ATOM 10108 C CG . GLU C 1 22 ? 0.317 -8.348 -10.374 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 6
+ATOM 10109 C CD . GLU C 1 22 ? 0.954 -9.710 -10.089 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 6
+ATOM 10110 O OE1 . GLU C 1 22 ? 0.933 -10.551 -11.013 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 6
+ATOM 10111 O OE2 . GLU C 1 22 ? 1.448 -9.878 -8.953 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 6
+ATOM 10112 H H . GLU C 1 22 ? -0.274 -5.485 -12.263 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 6
+ATOM 10113 H HA . GLU C 1 22 ? 1.336 -6.024 -9.899 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 6
+ATOM 10114 H HB2 . GLU C 1 22 ? 0.680 -7.632 -12.376 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 6
+ATOM 10115 H HB3 . GLU C 1 22 ? 2.138 -7.994 -11.474 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 6
+ATOM 10116 H HG2 . GLU C 1 22 ? 0.234 -7.780 -9.448 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 6
+ATOM 10117 H HG3 . GLU C 1 22 ? -0.696 -8.489 -10.753 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 6
+ATOM 10118 N N . ASP C 1 23 ? 3.504 -5.235 -10.827 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 6
+ATOM 10119 C CA . ASP C 1 23 ? 4.728 -4.619 -11.311 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 6
+ATOM 10120 C C . ASP C 1 23 ? 5.927 -5.453 -10.856 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 6
+ATOM 10121 O O . ASP C 1 23 ? 6.289 -5.437 -9.680 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 6
+ATOM 10122 C CB . ASP C 1 23 ? 4.893 -3.206 -10.748 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 6
+ATOM 10123 C CG . ASP C 1 23 ? 5.769 -2.274 -11.587 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 6
+ATOM 10124 O OD1 . ASP C 1 23 ? 5.881 -2.542 -12.803 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 6
+ATOM 10125 O OD2 . ASP C 1 23 ? 6.308 -1.315 -10.994 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 6
+ATOM 10126 H H . ASP C 1 23 ? 3.512 -5.490 -9.860 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 6
+ATOM 10127 H HA . ASP C 1 23 ? 4.626 -4.593 -12.396 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 6
+ATOM 10128 H HB2 . ASP C 1 23 ? 3.906 -2.756 -10.642 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 6
+ATOM 10129 H HB3 . ASP C 1 23 ? 5.319 -3.278 -9.747 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 6
+ATOM 10130 N N . VAL C 1 24 ? 6.512 -6.161 -11.811 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 6
+ATOM 10131 C CA . VAL C 1 24 ? 7.663 -7.000 -11.523 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 6
+ATOM 10132 C C . VAL C 1 24 ? 8.933 -6.297 -12.007 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 6
+ATOM 10133 O O . VAL C 1 24 ? 9.155 -6.166 -13.210 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 6
+ATOM 10134 C CB . VAL C 1 24 ? 7.471 -8.384 -12.146 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 6
+ATOM 10135 C CG1 . VAL C 1 24 ? 7.587 -8.320 -13.671 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 6
+ATOM 10136 C CG2 . VAL C 1 24 ? 8.464 -9.390 -11.562 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 6
+ATOM 10137 H H . VAL C 1 24 ? 6.211 -6.169 -12.765 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 6
+ATOM 10138 H HA . VAL C 1 24 ? 7.719 -7.121 -10.442 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 6
+ATOM 10139 H HB . VAL C 1 24 ? 6.465 -8.725 -11.901 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 6
+ATOM 10140 H HG11 . VAL C 1 24 ? 7.149 -9.218 -14.106 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 6
+ATOM 10141 H HG12 . VAL C 1 24 ? 7.056 -7.442 -14.039 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 6
+ATOM 10142 H HG13 . VAL C 1 24 ? 8.638 -8.255 -13.953 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 6
+ATOM 10143 H HG21 . VAL C 1 24 ? 8.994 -9.890 -12.373 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 6
+ATOM 10144 H HG22 . VAL C 1 24 ? 9.181 -8.868 -10.928 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 6
+ATOM 10145 H HG23 . VAL C 1 24 ? 7.926 -10.130 -10.969 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 6
+ATOM 10146 N N . GLY C 1 25 ? 9.734 -5.864 -11.045 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 6
+ATOM 10147 C CA . GLY C 1 25 ? 10.977 -5.179 -11.357 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 6
+ATOM 10148 C C . GLY C 1 25 ? 12.185 -5.996 -10.895 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 6
+ATOM 10149 O O . GLY C 1 25 ? 12.083 -6.786 -9.958 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 6
+ATOM 10150 H H . GLY C 1 25 ? 9.547 -5.975 -10.069 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 6
+ATOM 10151 H HA2 . GLY C 1 25 ? 11.040 -5.005 -12.431 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 6
+ATOM 10152 H HA3 . GLY C 1 25 ? 10.988 -4.201 -10.875 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 6
+ATOM 10153 N N . SER C 1 26 ? 13.302 -5.776 -11.573 1.00 0.00 ? ? ? ? ? ? 26 SER C N 6
+ATOM 10154 C CA . SER C 1 26 ? 14.528 -6.482 -11.244 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 6
+ATOM 10155 C C . SER C 1 26 ? 15.635 -5.480 -10.910 1.00 0.00 ? ? ? ? ? ? 26 SER C C 6
+ATOM 10156 O O . SER C 1 26 ? 16.324 -4.991 -11.803 1.00 0.00 ? ? ? ? ? ? 26 SER C O 6
+ATOM 10157 C CB . SER C 1 26 ? 14.966 -7.393 -12.393 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 6
+ATOM 10158 O OG . SER C 1 26 ? 14.699 -8.765 -12.118 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 6
+ATOM 10159 H H . SER C 1 26 ? 13.377 -5.132 -12.334 1.00 0.00 ? ? ? ? ? ? 26 SER C H 6
+ATOM 10160 H HA . SER C 1 26 ? 14.286 -7.090 -10.372 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 6
+ATOM 10161 H HB2 . SER C 1 26 ? 14.447 -7.099 -13.306 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 6
+ATOM 10162 H HB3 . SER C 1 26 ? 16.032 -7.260 -12.575 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 6
+ATOM 10163 H HG . SER C 1 26 ? 14.743 -8.932 -11.133 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 6
+ATOM 10164 N N . ASN C 1 27 ? 15.771 -5.205 -9.621 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 6
+ATOM 10165 C CA . ASN C 1 27 ? 16.783 -4.270 -9.158 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 6
+ATOM 10166 C C . ASN C 1 27 ? 16.353 -2.845 -9.511 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 6
+ATOM 10167 O O . ASN C 1 27 ? 17.035 -2.157 -10.269 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 6
+ATOM 10168 C CB . ASN C 1 27 ? 18.130 -4.539 -9.832 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 6
+ATOM 10169 C CG . ASN C 1 27 ? 19.286 -4.035 -8.965 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 6
+ATOM 10170 O OD1 . ASN C 1 27 ? 19.255 -2.947 -8.413 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 6
+ATOM 10171 N ND2 . ASN C 1 27 ? 20.305 -4.885 -8.876 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 6
+ATOM 10172 H H . ASN C 1 27 ? 15.206 -5.608 -8.901 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 6
+ATOM 10173 H HA . ASN C 1 27 ? 16.850 -4.431 -8.082 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 6
+ATOM 10174 H HB2 . ASN C 1 27 ? 18.244 -5.607 -10.012 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 6
+ATOM 10175 H HB3 . ASN C 1 27 ? 18.159 -4.047 -10.804 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 6
+ATOM 10176 H HD21 . ASN C 1 27 ? 20.268 -5.762 -9.354 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 6
+ATOM 10177 H HD22 . ASN C 1 27 ? 21.109 -4.646 -8.331 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 6
+ATOM 10178 N N . LYS C 1 28 ? 15.225 -2.443 -8.944 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 6
+ATOM 10179 C CA . LYS C 1 28 ? 14.697 -1.112 -9.189 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 6
+ATOM 10180 C C . LYS C 1 28 ? 15.084 -0.193 -8.029 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 6
+ATOM 10181 O O . LYS C 1 28 ? 14.616 -0.374 -6.905 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 6
+ATOM 10182 C CB . LYS C 1 28 ? 13.190 -1.173 -9.448 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 6
+ATOM 10183 C CG . LYS C 1 28 ? 12.467 -1.901 -8.313 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 6
+ATOM 10184 C CD . LYS C 1 28 ? 10.967 -1.599 -8.335 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 6
+ATOM 10185 C CE . LYS C 1 28 ? 10.176 -2.696 -7.620 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 6
+ATOM 10186 N NZ . LYS C 1 28 ? 8.790 -2.248 -7.357 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 6
+ATOM 10187 H H . LYS C 1 28 ? 14.677 -3.009 -8.328 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 6
+ATOM 10188 H HA . LYS C 1 28 ? 15.165 -0.737 -10.098 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 6
+ATOM 10189 H HB2 . LYS C 1 28 ? 12.793 -0.163 -9.548 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 6
+ATOM 10190 H HB3 . LYS C 1 28 ? 13.000 -1.685 -10.392 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 6
+ATOM 10191 H HG2 . LYS C 1 28 ? 12.627 -2.975 -8.405 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 6
+ATOM 10192 H HG3 . LYS C 1 28 ? 12.889 -1.597 -7.355 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 6
+ATOM 10193 H HD2 . LYS C 1 28 ? 10.779 -0.638 -7.855 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 6
+ATOM 10194 H HD3 . LYS C 1 28 ? 10.625 -1.513 -9.366 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 6
+ATOM 10195 H HE2 . LYS C 1 28 ? 10.164 -3.599 -8.229 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 6
+ATOM 10196 H HE3 . LYS C 1 28 ? 10.666 -2.952 -6.680 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 6
+ATOM 10197 H HZ1 . LYS C 1 28 ? 8.473 -1.682 -8.118 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 6
+ATOM 10198 H HZ2 . LYS C 1 28 ? 8.194 -3.046 -7.264 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 6
+ATOM 10199 H HZ3 . LYS C 1 28 ? 8.767 -1.714 -6.512 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 6
+ATOM 10200 N N . GLY C 1 29 ? 15.935 0.773 -8.340 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 6
+ATOM 10201 C CA . GLY C 1 29 ? 16.391 1.721 -7.338 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 6
+ATOM 10202 C C . GLY C 1 29 ? 16.204 3.161 -7.820 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 6
+ATOM 10203 O O . GLY C 1 29 ? 15.242 3.464 -8.525 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 6
+ATOM 10204 H H . GLY C 1 29 ? 16.311 0.913 -9.256 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 6
+ATOM 10205 H HA2 . GLY C 1 29 ? 15.838 1.570 -6.411 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 6
+ATOM 10206 H HA3 . GLY C 1 29 ? 17.443 1.543 -7.115 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 6
+ATOM 10207 N N . ALA C 1 30 ? 17.138 4.012 -7.420 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 6
+ATOM 10208 C CA . ALA C 1 30 ? 17.088 5.412 -7.802 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 6
+ATOM 10209 C C . ALA C 1 30 ? 15.807 6.042 -7.251 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 6
+ATOM 10210 O O . ALA C 1 30 ? 15.410 5.761 -6.121 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 6
+ATOM 10211 C CB . ALA C 1 30 ? 17.187 5.530 -9.325 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 6
+ATOM 10212 H H . ALA C 1 30 ? 17.917 3.757 -6.847 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 6
+ATOM 10213 H HA . ALA C 1 30 ? 17.949 5.909 -7.355 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 6
+ATOM 10214 H HB1 . ALA C 1 30 ? 17.911 4.806 -9.699 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 6
+ATOM 10215 H HB2 . ALA C 1 30 ? 16.211 5.331 -9.768 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 6
+ATOM 10216 H HB3 . ALA C 1 30 ? 17.508 6.537 -9.591 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 6
+ATOM 10217 N N . ILE C 1 31 ? 15.196 6.881 -8.074 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 6
+ATOM 10218 C CA . ILE C 1 31 ? 13.969 7.553 -7.682 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 6
+ATOM 10219 C C . ILE C 1 31 ? 12.778 6.853 -8.340 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 6
+ATOM 10220 O O . ILE C 1 31 ? 12.607 6.922 -9.556 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 6
+ATOM 10221 C CB . ILE C 1 31 ? 14.053 9.048 -7.995 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 6
+ATOM 10222 C CG1 . ILE C 1 31 ? 14.944 9.771 -6.982 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 6
+ATOM 10223 C CG2 . ILE C 1 31 ? 12.658 9.671 -8.077 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 6
+ATOM 10224 C CD1 . ILE C 1 31 ? 15.423 11.115 -7.535 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 6
+ATOM 10225 H H . ILE C 1 31 ? 15.526 7.105 -8.991 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 6
+ATOM 10226 H HA . ILE C 1 31 ? 13.873 7.455 -6.601 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 6
+ATOM 10227 H HB . ILE C 1 31 ? 14.517 9.167 -8.974 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 6
+ATOM 10228 H HG12 . ILE C 1 31 ? 14.392 9.930 -6.056 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 6
+ATOM 10229 H HG13 . ILE C 1 31 ? 15.803 9.147 -6.738 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 6
+ATOM 10230 H HG21 . ILE C 1 31 ? 12.325 9.679 -9.115 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 6
+ATOM 10231 H HG22 . ILE C 1 31 ? 11.962 9.084 -7.477 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 6
+ATOM 10232 H HG23 . ILE C 1 31 ? 12.692 10.692 -7.698 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 6
+ATOM 10233 H HD11 . ILE C 1 31 ? 15.391 11.865 -6.744 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 6
+ATOM 10234 H HD12 . ILE C 1 31 ? 16.446 11.014 -7.899 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 6
+ATOM 10235 H HD13 . ILE C 1 31 ? 14.774 11.423 -8.354 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 6
+ATOM 10236 N N . ILE C 1 32 ? 11.984 6.197 -7.506 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 6
+ATOM 10237 C CA . ILE C 1 32 ? 10.814 5.485 -7.992 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 6
+ATOM 10238 C C . ILE C 1 32 ? 9.578 5.963 -7.227 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 6
+ATOM 10239 O O . ILE C 1 32 ? 9.609 6.083 -6.003 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 6
+ATOM 10240 C CB . ILE C 1 32 ? 11.037 3.973 -7.917 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 6
+ATOM 10241 C CG1 . ILE C 1 32 ? 9.722 3.215 -8.109 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 6
+ATOM 10242 C CG2 . ILE C 1 32 ? 11.737 3.586 -6.612 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 6
+ATOM 10243 C CD1 . ILE C 1 32 ? 9.862 1.755 -7.672 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 6
+ATOM 10244 H H . ILE C 1 32 ? 12.130 6.146 -6.518 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 6
+ATOM 10245 H HA . ILE C 1 32 ? 10.689 5.741 -9.044 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 6
+ATOM 10246 H HB . ILE C 1 32 ? 11.697 3.684 -8.734 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 6
+ATOM 10247 H HG12 . ILE C 1 32 ? 8.933 3.697 -7.532 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 6
+ATOM 10248 H HG13 . ILE C 1 32 ? 9.423 3.258 -9.156 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 6
+ATOM 10249 H HG21 . ILE C 1 32 ? 11.041 3.696 -5.780 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 6
+ATOM 10250 H HG22 . ILE C 1 32 ? 12.070 2.550 -6.673 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 6
+ATOM 10251 H HG23 . ILE C 1 32 ? 12.597 4.236 -6.455 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 6
+ATOM 10252 H HD11 . ILE C 1 32 ? 9.017 1.180 -8.050 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 6
+ATOM 10253 H HD12 . ILE C 1 32 ? 10.789 1.344 -8.070 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 6
+ATOM 10254 H HD13 . ILE C 1 32 ? 9.879 1.702 -6.583 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 6
+ATOM 10255 N N . GLY C 1 33 ? 8.520 6.223 -7.980 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 6
+ATOM 10256 C CA . GLY C 1 33 ? 7.276 6.686 -7.388 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 6
+ATOM 10257 C C . GLY C 1 33 ? 6.080 5.918 -7.955 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 6
+ATOM 10258 O O . GLY C 1 33 ? 6.043 5.610 -9.146 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 6
+ATOM 10259 H H . GLY C 1 33 ? 8.503 6.123 -8.975 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 6
+ATOM 10260 H HA2 . GLY C 1 33 ? 7.314 6.559 -6.306 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 6
+ATOM 10261 H HA3 . GLY C 1 33 ? 7.152 7.751 -7.580 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 6
+ATOM 10262 N N . LEU C 1 34 ? 5.132 5.629 -7.076 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 6
+ATOM 10263 C CA . LEU C 1 34 ? 3.938 4.903 -7.474 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 6
+ATOM 10264 C C . LEU C 1 34 ? 2.703 5.621 -6.926 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 6
+ATOM 10265 O O . LEU C 1 34 ? 2.670 6.004 -5.758 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 6
+ATOM 10266 C CB . LEU C 1 34 ? 4.036 3.437 -7.047 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 6
+ATOM 10267 C CG . LEU C 1 34 ? 3.595 2.405 -8.088 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 6
+ATOM 10268 C CD1 . LEU C 1 34 ? 4.790 1.901 -8.899 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 6
+ATOM 10269 C CD2 . LEU C 1 34 ? 2.824 1.259 -7.430 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 6
+ATOM 10270 H H . LEU C 1 34 ? 5.170 5.883 -6.109 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 6
+ATOM 10271 H HA . LEU C 1 34 ? 3.893 4.920 -8.563 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 6
+ATOM 10272 H HB2 . LEU C 1 34 ? 5.069 3.227 -6.772 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 6
+ATOM 10273 H HB3 . LEU C 1 34 ? 3.433 3.299 -6.150 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 6
+ATOM 10274 H HG . LEU C 1 34 ? 2.915 2.892 -8.785 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 6
+ATOM 10275 H HD11 . LEU C 1 34 ? 5.376 1.210 -8.292 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 6
+ATOM 10276 H HD12 . LEU C 1 34 ? 4.432 1.386 -9.791 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 6
+ATOM 10277 H HD13 . LEU C 1 34 ? 5.413 2.746 -9.193 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 6
+ATOM 10278 H HD21 . LEU C 1 34 ? 1.828 1.193 -7.868 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 6
+ATOM 10279 H HD22 . LEU C 1 34 ? 3.356 0.322 -7.595 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 6
+ATOM 10280 H HD23 . LEU C 1 34 ? 2.739 1.445 -6.360 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 6
+ATOM 10281 N N . MET C 1 35 ? 1.717 5.783 -7.797 1.00 0.00 ? ? ? ? ? ? 35 MET C N 6
+ATOM 10282 C CA . MET C 1 35 ? 0.484 6.449 -7.416 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 6
+ATOM 10283 C C . MET C 1 35 ? -0.736 5.665 -7.904 1.00 0.00 ? ? ? ? ? ? 35 MET C C 6
+ATOM 10284 O O . MET C 1 35 ? -1.071 5.704 -9.087 1.00 0.00 ? ? ? ? ? ? 35 MET C O 6
+ATOM 10285 C CB . MET C 1 35 ? 0.458 7.857 -8.013 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 6
+ATOM 10286 C CG . MET C 1 35 ? 1.020 8.882 -7.025 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 6
+ATOM 10287 S SD . MET C 1 35 ? -0.284 9.957 -6.451 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 6
+ATOM 10288 C CE . MET C 1 35 ? 0.490 11.545 -6.706 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 6
+ATOM 10289 H H . MET C 1 35 ? 1.752 5.469 -8.746 1.00 0.00 ? ? ? ? ? ? 35 MET C H 6
+ATOM 10290 H HA . MET C 1 35 ? 0.492 6.479 -6.326 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 6
+ATOM 10291 H HB2 . MET C 1 35 ? 1.040 7.877 -8.934 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 6
+ATOM 10292 H HB3 . MET C 1 35 ? -0.565 8.125 -8.277 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 6
+ATOM 10293 H HG2 . MET C 1 35 ? 1.479 8.370 -6.179 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 6
+ATOM 10294 H HG3 . MET C 1 35 ? 1.803 9.469 -7.504 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 6
+ATOM 10295 H HE1 . MET C 1 35 ? 1.512 11.400 -7.055 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 6
+ATOM 10296 H HE2 . MET C 1 35 ? -0.072 12.107 -7.453 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 6
+ATOM 10297 H HE3 . MET C 1 35 ? 0.501 12.099 -5.768 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 6
+ATOM 10298 N N . VAL C 1 36 ? -1.367 4.971 -6.968 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 6
+ATOM 10299 C CA . VAL C 1 36 ? -2.543 4.179 -7.289 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 6
+ATOM 10300 C C . VAL C 1 36 ? -3.801 4.991 -6.974 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 6
+ATOM 10301 O O . VAL C 1 36 ? -4.282 4.982 -5.842 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 6
+ATOM 10302 C CB . VAL C 1 36 ? -2.492 2.843 -6.545 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 6
+ATOM 10303 C CG1 . VAL C 1 36 ? -3.641 1.930 -6.979 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 6
+ATOM 10304 C CG2 . VAL C 1 36 ? -1.140 2.155 -6.746 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 6
+ATOM 10305 H H . VAL C 1 36 ? -1.089 4.945 -6.008 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 6
+ATOM 10306 H HA . VAL C 1 36 ? -2.518 3.971 -8.358 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 6
+ATOM 10307 H HB . VAL C 1 36 ? -2.609 3.047 -5.481 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 6
+ATOM 10308 H HG11 . VAL C 1 36 ? -3.633 1.826 -8.064 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 6
+ATOM 10309 H HG12 . VAL C 1 36 ? -3.519 0.949 -6.519 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 6
+ATOM 10310 H HG13 . VAL C 1 36 ? -4.589 2.365 -6.663 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 6
+ATOM 10311 H HG21 . VAL C 1 36 ? -0.672 1.985 -5.776 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 6
+ATOM 10312 H HG22 . VAL C 1 36 ? -1.289 1.200 -7.249 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 6
+ATOM 10313 H HG23 . VAL C 1 36 ? -0.496 2.790 -7.354 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 6
+ATOM 10314 N N . GLY C 1 37 ? -4.297 5.673 -7.995 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 6
+ATOM 10315 C CA . GLY C 1 37 ? -5.490 6.488 -7.841 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 6
+ATOM 10316 C C . GLY C 1 37 ? -6.756 5.641 -7.984 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 6
+ATOM 10317 O O . GLY C 1 37 ? -7.265 5.461 -9.089 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 6
+ATOM 10318 H H . GLY C 1 37 ? -3.900 5.675 -8.913 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 6
+ATOM 10319 H HA2 . GLY C 1 37 ? -5.481 6.972 -6.865 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 6
+ATOM 10320 H HA3 . GLY C 1 37 ? -5.492 7.281 -8.590 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 6
+ATOM 10321 N N . GLY C 1 38 ? -7.227 5.142 -6.851 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 6
+ATOM 10322 C CA . GLY C 1 38 ? -8.423 4.318 -6.836 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 6
+ATOM 10323 C C . GLY C 1 38 ? -9.645 5.133 -6.407 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 6
+ATOM 10324 O O . GLY C 1 38 ? -9.975 5.187 -5.223 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 6
+ATOM 10325 H H . GLY C 1 38 ? -6.807 5.293 -5.956 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 6
+ATOM 10326 H HA2 . GLY C 1 38 ? -8.592 3.898 -7.827 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 6
+ATOM 10327 H HA3 . GLY C 1 38 ? -8.283 3.480 -6.154 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 6
+ATOM 10328 N N . VAL C 1 39 ? -10.284 5.746 -7.392 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 6
+ATOM 10329 C CA . VAL C 1 39 ? -11.462 6.556 -7.132 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 6
+ATOM 10330 C C . VAL C 1 39 ? -12.706 5.809 -7.617 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 6
+ATOM 10331 O O . VAL C 1 39 ? -12.781 5.411 -8.778 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 6
+ATOM 10332 C CB . VAL C 1 39 ? -11.303 7.934 -7.776 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 6
+ATOM 10333 C CG1 . VAL C 1 39 ? -12.560 8.782 -7.574 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 6
+ATOM 10334 C CG2 . VAL C 1 39 ? -10.064 8.653 -7.235 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 6
+ATOM 10335 H H . VAL C 1 39 ? -10.009 5.697 -8.353 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 6
+ATOM 10336 H HA . VAL C 1 39 ? -11.534 6.694 -6.053 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 6
+ATOM 10337 H HB . VAL C 1 39 ? -11.164 7.790 -8.847 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 6
+ATOM 10338 H HG11 . VAL C 1 39 ? -12.331 9.828 -7.782 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 6
+ATOM 10339 H HG12 . VAL C 1 39 ? -13.342 8.440 -8.252 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 6
+ATOM 10340 H HG13 . VAL C 1 39 ? -12.904 8.684 -6.544 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 6
+ATOM 10341 H HG21 . VAL C 1 39 ? -9.323 8.746 -8.029 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 6
+ATOM 10342 H HG22 . VAL C 1 39 ? -10.345 9.645 -6.882 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 6
+ATOM 10343 H HG23 . VAL C 1 39 ? -9.643 8.079 -6.410 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 6
+ATOM 10344 N N . VAL C 1 40 ? -13.651 5.642 -6.703 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 6
+ATOM 10345 C CA . VAL C 1 40 ? -14.888 4.950 -7.024 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 6
+ATOM 10346 C C . VAL C 1 40 ? -16.055 5.653 -6.327 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 6
+ATOM 10347 O O . VAL C 1 40 ? -16.119 5.688 -5.099 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 6
+ATOM 10348 C CB . VAL C 1 40 ? -14.772 3.471 -6.651 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 6
+ATOM 10349 C CG1 . VAL C 1 40 ? -14.145 3.302 -5.265 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 6
+ATOM 10350 C CG2 . VAL C 1 40 ? -16.134 2.778 -6.726 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 6
+ATOM 10351 H H . VAL C 1 40 ? -13.581 5.969 -5.761 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 6
+ATOM 10352 H HA . VAL C 1 40 ? -15.032 5.017 -8.102 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 6
+ATOM 10353 H HB . VAL C 1 40 ? -14.113 2.993 -7.377 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 6
+ATOM 10354 H HG11 . VAL C 1 40 ? -14.847 2.786 -4.610 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 6
+ATOM 10355 H HG12 . VAL C 1 40 ? -13.229 2.718 -5.349 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 6
+ATOM 10356 H HG13 . VAL C 1 40 ? -13.914 4.283 -4.849 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 6
+ATOM 10357 H HG21 . VAL C 1 40 ? -16.898 3.507 -6.997 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 6
+ATOM 10358 H HG22 . VAL C 1 40 ? -16.100 1.990 -7.478 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 6
+ATOM 10359 H HG23 . VAL C 1 40 ? -16.374 2.344 -5.755 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 6
+ATOM 10360 N N . ILE C 1 41 ? -16.949 6.194 -7.141 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 6
+ATOM 10361 C CA . ILE C 1 41 ? -18.111 6.893 -6.619 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 6
+ATOM 10362 C C . ILE C 1 41 ? -19.373 6.095 -6.952 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 6
+ATOM 10363 O O . ILE C 1 41 ? -19.460 5.478 -8.012 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 6
+ATOM 10364 C CB . ILE C 1 41 ? -18.142 8.335 -7.128 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 6
+ATOM 10365 C CG1 . ILE C 1 41 ? -16.826 9.054 -6.822 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 6
+ATOM 10366 C CG2 . ILE C 1 41 ? -19.350 9.089 -6.567 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 6
+ATOM 10367 C CD1 . ILE C 1 41 ? -16.587 10.202 -7.804 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 6
+ATOM 10368 H H . ILE C 1 41 ? -16.890 6.160 -8.139 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 6
+ATOM 10369 H HA . ILE C 1 41 ? -18.005 6.936 -5.535 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 6
+ATOM 10370 H HB . ILE C 1 41 ? -18.252 8.312 -8.212 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 6
+ATOM 10371 H HG12 . ILE C 1 41 ? -16.847 9.440 -5.803 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 6
+ATOM 10372 H HG13 . ILE C 1 41 ? -16.000 8.345 -6.877 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 6
+ATOM 10373 H HG21 . ILE C 1 41 ? -19.545 9.969 -7.180 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 6
+ATOM 10374 H HG22 . ILE C 1 41 ? -20.223 8.436 -6.581 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 6
+ATOM 10375 H HG23 . ILE C 1 41 ? -19.143 9.397 -5.543 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 6
+ATOM 10376 H HD11 . ILE C 1 41 ? -17.442 10.291 -8.474 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 6
+ATOM 10377 H HD12 . ILE C 1 41 ? -16.461 11.133 -7.250 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 6
+ATOM 10378 H HD13 . ILE C 1 41 ? -15.688 10.002 -8.386 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 6
+ATOM 10379 N N . ALA C 1 42 ? -20.321 6.135 -6.027 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 6
+ATOM 10380 C CA . ALA C 1 42 ? -21.575 5.424 -6.209 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 6
+ATOM 10381 C C . ALA C 1 42 ? -22.688 6.163 -5.465 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 6
+ATOM 10382 O O . ALA C 1 42 ? -22.876 5.965 -4.265 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 6
+ATOM 10383 C CB . ALA C 1 42 ? -21.416 3.978 -5.734 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 6
+ATOM 10384 H H . ALA C 1 42 ? -20.243 6.640 -5.167 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 6
+ATOM 10385 H HA . ALA C 1 42 ? -21.802 5.420 -7.275 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 6
+ATOM 10386 H HB1 . ALA C 1 42 ? -20.498 3.885 -5.154 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 6
+ATOM 10387 H HB2 . ALA C 1 42 ? -22.268 3.704 -5.112 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 6
+ATOM 10388 H HB3 . ALA C 1 42 ? -21.369 3.315 -6.598 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 6
+ATOM 10389 N N . LEU D 1 17 ? -14.564 -4.525 -16.295 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 6
+ATOM 10390 C CA . LEU D 1 17 ? -14.951 -5.551 -15.342 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 6
+ATOM 10391 C C . LEU D 1 17 ? -13.705 -6.311 -14.883 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 6
+ATOM 10392 O O . LEU D 1 17 ? -13.727 -6.981 -13.852 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 6
+ATOM 10393 C CB . LEU D 1 17 ? -16.037 -6.451 -15.935 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 6
+ATOM 10394 C CG . LEU D 1 17 ? -17.402 -5.796 -16.161 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 6
+ATOM 10395 C CD1 . LEU D 1 17 ? -18.164 -5.647 -14.843 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 6
+ATOM 10396 C CD2 . LEU D 1 17 ? -17.254 -4.460 -16.892 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 6
+ATOM 10397 H H . LEU D 1 17 ? -14.239 -4.868 -17.177 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 6
+ATOM 10398 H HA . LEU D 1 17 ? -15.386 -5.047 -14.479 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 6
+ATOM 10399 H HB2 . LEU D 1 17 ? -15.680 -6.838 -16.889 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 6
+ATOM 10400 H HB3 . LEU D 1 17 ? -16.173 -7.307 -15.274 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 6
+ATOM 10401 H HG . LEU D 1 17 ? -17.992 -6.450 -16.802 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 6
+ATOM 10402 H HD11 . LEU D 1 17 ? -19.001 -6.344 -14.827 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 6
+ATOM 10403 H HD12 . LEU D 1 17 ? -17.494 -5.864 -14.010 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 6
+ATOM 10404 H HD13 . LEU D 1 17 ? -18.538 -4.627 -14.753 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 6
+ATOM 10405 H HD21 . LEU D 1 17 ? -18.184 -4.225 -17.410 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 6
+ATOM 10406 H HD22 . LEU D 1 17 ? -17.031 -3.674 -16.171 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 6
+ATOM 10407 H HD23 . LEU D 1 17 ? -16.442 -4.530 -17.616 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 6
+ATOM 10408 N N . VAL D 1 18 ? -12.649 -6.182 -15.672 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 6
+ATOM 10409 C CA . VAL D 1 18 ? -11.396 -6.849 -15.360 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 6
+ATOM 10410 C C . VAL D 1 18 ? -10.248 -6.122 -16.062 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 6
+ATOM 10411 O O . VAL D 1 18 ? -10.085 -6.237 -17.276 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 6
+ATOM 10412 C CB . VAL D 1 18 ? -11.484 -8.330 -15.734 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 6
+ATOM 10413 C CG1 . VAL D 1 18 ? -10.134 -9.025 -15.541 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 6
+ATOM 10414 C CG2 . VAL D 1 18 ? -12.582 -9.033 -14.934 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 6
+ATOM 10415 H H . VAL D 1 18 ? -12.639 -5.636 -16.509 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 6
+ATOM 10416 H HA . VAL D 1 18 ? -11.247 -6.781 -14.282 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 6
+ATOM 10417 H HB . VAL D 1 18 ? -11.746 -8.394 -16.790 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 6
+ATOM 10418 H HG11 . VAL D 1 18 ? -9.810 -8.908 -14.507 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 6
+ATOM 10419 H HG12 . VAL D 1 18 ? -10.235 -10.085 -15.773 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 6
+ATOM 10420 H HG13 . VAL D 1 18 ? -9.396 -8.576 -16.206 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 6
+ATOM 10421 H HG21 . VAL D 1 18 ? -13.558 -8.691 -15.278 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 6
+ATOM 10422 H HG22 . VAL D 1 18 ? -12.503 -10.111 -15.079 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 6
+ATOM 10423 H HG23 . VAL D 1 18 ? -12.467 -8.799 -13.876 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 6
+ATOM 10424 N N . PHE D 1 19 ? -9.480 -5.389 -15.269 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 6
+ATOM 10425 C CA . PHE D 1 19 ? -8.352 -4.643 -15.800 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 6
+ATOM 10426 C C . PHE D 1 19 ? -7.033 -5.154 -15.214 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 6
+ATOM 10427 O O . PHE D 1 19 ? -6.668 -4.797 -14.095 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 6
+ATOM 10428 C CB . PHE D 1 19 ? -8.547 -3.183 -15.388 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 6
+ATOM 10429 C CG . PHE D 1 19 ? -7.657 -2.198 -16.148 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 6
+ATOM 10430 C CD1 . PHE D 1 19 ? -6.304 -2.301 -16.067 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 6
+ATOM 10431 C CD2 . PHE D 1 19 ? -8.220 -1.219 -16.907 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 6
+ATOM 10432 C CE1 . PHE D 1 19 ? -5.478 -1.386 -16.772 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 6
+ATOM 10433 C CE2 . PHE D 1 19 ? -7.394 -0.304 -17.612 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 6
+ATOM 10434 C CZ . PHE D 1 19 ? -6.041 -0.407 -17.530 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 6
+ATOM 10435 H H . PHE D 1 19 ? -9.619 -5.301 -14.283 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 6
+ATOM 10436 H HA . PHE D 1 19 ? -8.347 -4.788 -16.880 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 6
+ATOM 10437 H HB2 . PHE D 1 19 ? -9.591 -2.909 -15.543 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 6
+ATOM 10438 H HB3 . PHE D 1 19 ? -8.348 -3.087 -14.321 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 6
+ATOM 10439 H HD1 . PHE D 1 19 ? -5.853 -3.085 -15.459 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 6
+ATOM 10440 H HD2 . PHE D 1 19 ? -9.305 -1.136 -16.972 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 6
+ATOM 10441 H HE1 . PHE D 1 19 ? -4.393 -1.469 -16.707 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 6
+ATOM 10442 H HE2 . PHE D 1 19 ? -7.845 0.480 -18.220 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 6
+ATOM 10443 H HZ . PHE D 1 19 ? -5.407 0.295 -18.072 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 6
+ATOM 10444 N N . PHE D 1 20 ? -6.356 -5.980 -15.997 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 6
+ATOM 10445 C CA . PHE D 1 20 ? -5.086 -6.543 -15.571 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 6
+ATOM 10446 C C . PHE D 1 20 ? -3.912 -5.753 -16.154 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 6
+ATOM 10447 O O . PHE D 1 20 ? -3.599 -5.883 -17.337 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 6
+ATOM 10448 C CB . PHE D 1 20 ? -5.032 -7.978 -16.099 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 6
+ATOM 10449 C CG . PHE D 1 20 ? -4.953 -9.042 -15.002 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 6
+ATOM 10450 C CD1 . PHE D 1 20 ? -3.751 -9.367 -14.456 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 6
+ATOM 10451 C CD2 . PHE D 1 20 ? -6.085 -9.662 -14.573 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 6
+ATOM 10452 C CE1 . PHE D 1 20 ? -3.677 -10.355 -13.438 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 6
+ATOM 10453 C CE2 . PHE D 1 20 ? -6.011 -10.650 -13.555 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 6
+ATOM 10454 C CZ . PHE D 1 20 ? -4.809 -10.975 -13.010 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 6
+ATOM 10455 H H . PHE D 1 20 ? -6.660 -6.265 -16.906 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 6
+ATOM 10456 H HA . PHE D 1 20 ? -5.055 -6.484 -14.483 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 6
+ATOM 10457 H HB2 . PHE D 1 20 ? -5.918 -8.163 -16.707 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 6
+ATOM 10458 H HB3 . PHE D 1 20 ? -4.168 -8.081 -16.754 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 6
+ATOM 10459 H HD1 . PHE D 1 20 ? -2.844 -8.870 -14.800 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 6
+ATOM 10460 H HD2 . PHE D 1 20 ? -7.048 -9.401 -15.011 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 6
+ATOM 10461 H HE1 . PHE D 1 20 ? -2.713 -10.616 -13.001 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 6
+ATOM 10462 H HE2 . PHE D 1 20 ? -6.918 -11.147 -13.212 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 6
+ATOM 10463 H HZ . PHE D 1 20 ? -4.752 -11.733 -12.228 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 6
+ATOM 10464 N N . ALA D 1 21 ? -3.295 -4.953 -15.298 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 6
+ATOM 10465 C CA . ALA D 1 21 ? -2.163 -4.143 -15.714 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 6
+ATOM 10466 C C . ALA D 1 21 ? -0.875 -4.744 -15.147 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 6
+ATOM 10467 O O . ALA D 1 21 ? -0.648 -4.707 -13.939 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 6
+ATOM 10468 C CB . ALA D 1 21 ? -2.378 -2.696 -15.265 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 6
+ATOM 10469 H H . ALA D 1 21 ? -3.556 -4.853 -14.338 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 6
+ATOM 10470 H HA . ALA D 1 21 ? -2.118 -4.169 -16.803 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 6
+ATOM 10471 H HB1 . ALA D 1 21 ? -1.525 -2.370 -14.668 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 6
+ATOM 10472 H HB2 . ALA D 1 21 ? -2.475 -2.054 -16.140 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 6
+ATOM 10473 H HB3 . ALA D 1 21 ? -3.286 -2.633 -14.665 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 6
+ATOM 10474 N N . GLU D 1 22 ? -0.066 -5.284 -16.047 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 6
+ATOM 10475 C CA . GLU D 1 22 ? 1.193 -5.892 -15.651 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 6
+ATOM 10476 C C . GLU D 1 22 ? 2.361 -5.208 -16.366 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 6
+ATOM 10477 O O . GLU D 1 22 ? 2.328 -5.027 -17.582 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 6
+ATOM 10478 C CB . GLU D 1 22 ? 1.186 -7.396 -15.928 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 6
+ATOM 10479 C CG . GLU D 1 22 ? 2.211 -8.120 -15.053 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 6
+ATOM 10480 C CD . GLU D 1 22 ? 1.733 -9.531 -14.701 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 6
+ATOM 10481 O OE1 . GLU D 1 22 ? 1.291 -10.230 -15.638 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 6
+ATOM 10482 O OE2 . GLU D 1 22 ? 1.821 -9.877 -13.503 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 6
+ATOM 10483 H H . GLU D 1 22 ? -0.258 -5.309 -17.028 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 6
+ATOM 10484 H HA . GLU D 1 22 ? 1.270 -5.727 -14.576 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 6
+ATOM 10485 H HB2 . GLU D 1 22 ? 0.191 -7.800 -15.739 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 6
+ATOM 10486 H HB3 . GLU D 1 22 ? 1.409 -7.577 -16.980 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 6
+ATOM 10487 H HG2 . GLU D 1 22 ? 3.166 -8.176 -15.575 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 6
+ATOM 10488 H HG3 . GLU D 1 22 ? 2.380 -7.551 -14.139 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 6
+ATOM 10489 N N . ASP D 1 23 ? 3.364 -4.847 -15.580 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 6
+ATOM 10490 C CA . ASP D 1 23 ? 4.540 -4.188 -16.122 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 6
+ATOM 10491 C C . ASP D 1 23 ? 5.798 -4.858 -15.566 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 6
+ATOM 10492 O O . ASP D 1 23 ? 5.927 -5.035 -14.356 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 6
+ATOM 10493 C CB . ASP D 1 23 ? 4.575 -2.711 -15.724 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 6
+ATOM 10494 C CG . ASP D 1 23 ? 5.761 -1.920 -16.279 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 6
+ATOM 10495 O OD1 . ASP D 1 23 ? 6.595 -2.552 -16.964 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 6
+ATOM 10496 O OD2 . ASP D 1 23 ? 5.808 -0.701 -16.007 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 6
+ATOM 10497 H H . ASP D 1 23 ? 3.383 -4.998 -14.591 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 6
+ATOM 10498 H HA . ASP D 1 23 ? 4.454 -4.293 -17.204 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 6
+ATOM 10499 H HB2 . ASP D 1 23 ? 3.653 -2.237 -16.059 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 6
+ATOM 10500 H HB3 . ASP D 1 23 ? 4.591 -2.644 -14.636 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 6
+ATOM 10501 N N . VAL D 1 24 ? 6.692 -5.212 -16.477 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 6
+ATOM 10502 C CA . VAL D 1 24 ? 7.935 -5.859 -16.092 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 6
+ATOM 10503 C C . VAL D 1 24 ? 9.115 -4.995 -16.542 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 6
+ATOM 10504 O O . VAL D 1 24 ? 9.246 -4.683 -17.725 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 6
+ATOM 10505 C CB . VAL D 1 24 ? 7.984 -7.279 -16.660 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 6
+ATOM 10506 C CG1 . VAL D 1 24 ? 7.777 -7.270 -18.176 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 6
+ATOM 10507 C CG2 . VAL D 1 24 ? 9.296 -7.973 -16.290 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 6
+ATOM 10508 H H . VAL D 1 24 ? 6.579 -5.064 -17.459 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 6
+ATOM 10509 H HA . VAL D 1 24 ? 7.947 -5.930 -15.005 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 6
+ATOM 10510 H HB . VAL D 1 24 ? 7.167 -7.846 -16.214 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 6
+ATOM 10511 H HG11 . VAL D 1 24 ? 6.836 -6.773 -18.412 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 6
+ATOM 10512 H HG12 . VAL D 1 24 ? 8.600 -6.737 -18.652 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 6
+ATOM 10513 H HG13 . VAL D 1 24 ? 7.748 -8.296 -18.545 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 6
+ATOM 10514 H HG21 . VAL D 1 24 ? 9.079 -8.941 -15.837 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 6
+ATOM 10515 H HG22 . VAL D 1 24 ? 9.896 -8.119 -17.188 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 6
+ATOM 10516 H HG23 . VAL D 1 24 ? 9.846 -7.355 -15.580 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 6
+ATOM 10517 N N . GLY D 1 25 ? 9.945 -4.632 -15.574 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 6
+ATOM 10518 C CA . GLY D 1 25 ? 11.109 -3.810 -15.856 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 6
+ATOM 10519 C C . GLY D 1 25 ? 12.380 -4.447 -15.288 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 6
+ATOM 10520 O O . GLY D 1 25 ? 12.436 -4.781 -14.106 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 6
+ATOM 10521 H H . GLY D 1 25 ? 9.831 -4.890 -14.615 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 6
+ATOM 10522 H HA2 . GLY D 1 25 ? 11.214 -3.678 -16.933 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 6
+ATOM 10523 H HA3 . GLY D 1 25 ? 10.971 -2.818 -15.425 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 6
+ATOM 10524 N N . SER D 1 26 ? 13.368 -4.595 -16.158 1.00 0.00 ? ? ? ? ? ? 26 SER D N 6
+ATOM 10525 C CA . SER D 1 26 ? 14.634 -5.185 -15.758 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 6
+ATOM 10526 C C . SER D 1 26 ? 15.639 -4.085 -15.413 1.00 0.00 ? ? ? ? ? ? 26 SER D C 6
+ATOM 10527 O O . SER D 1 26 ? 16.259 -3.504 -16.303 1.00 0.00 ? ? ? ? ? ? 26 SER D O 6
+ATOM 10528 C CB . SER D 1 26 ? 15.193 -6.088 -16.860 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 6
+ATOM 10529 O OG . SER D 1 26 ? 15.108 -7.468 -16.514 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 6
+ATOM 10530 H H . SER D 1 26 ? 13.314 -4.321 -17.118 1.00 0.00 ? ? ? ? ? ? 26 SER D H 6
+ATOM 10531 H HA . SER D 1 26 ? 14.407 -5.786 -14.877 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 6
+ATOM 10532 H HB2 . SER D 1 26 ? 14.645 -5.912 -17.785 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 6
+ATOM 10533 H HB3 . SER D 1 26 ? 16.234 -5.826 -17.050 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 6
+ATOM 10534 H HG . SER D 1 26 ? 15.818 -7.698 -15.848 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 6
+ATOM 10535 N N . ASN D 1 27 ? 15.769 -3.831 -14.119 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 6
+ATOM 10536 C CA . ASN D 1 27 ? 16.688 -2.810 -13.646 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 6
+ATOM 10537 C C . ASN D 1 27 ? 16.078 -1.428 -13.889 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 6
+ATOM 10538 O O . ASN D 1 27 ? 16.790 -0.482 -14.225 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 6
+ATOM 10539 C CB . ASN D 1 27 ? 18.020 -2.877 -14.395 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 6
+ATOM 10540 C CG . ASN D 1 27 ? 19.124 -2.155 -13.620 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 6
+ATOM 10541 O OD1 . ASN D 1 27 ? 19.195 -0.938 -13.579 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 6
+ATOM 10542 N ND2 . ASN D 1 27 ? 19.978 -2.971 -13.008 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 6
+ATOM 10543 H H . ASN D 1 27 ? 15.262 -4.308 -13.402 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 6
+ATOM 10544 H HA . ASN D 1 27 ? 16.831 -3.022 -12.586 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 6
+ATOM 10545 H HB2 . ASN D 1 27 ? 18.302 -3.919 -14.551 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 6
+ATOM 10546 H HB3 . ASN D 1 27 ? 17.910 -2.427 -15.382 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 6
+ATOM 10547 H HD21 . ASN D 1 27 ? 19.863 -3.962 -13.081 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 6
+ATOM 10548 H HD22 . ASN D 1 27 ? 20.735 -2.594 -12.474 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 6
+ATOM 10549 N N . LYS D 1 28 ? 14.768 -1.355 -13.711 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 6
+ATOM 10550 C CA . LYS D 1 28 ? 14.054 -0.105 -13.907 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 6
+ATOM 10551 C C . LYS D 1 28 ? 14.305 0.814 -12.710 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 6
+ATOM 10552 O O . LYS D 1 28 ? 13.624 0.711 -11.691 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 6
+ATOM 10553 C CB . LYS D 1 28 ? 12.572 -0.371 -14.178 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 6
+ATOM 10554 C CG . LYS D 1 28 ? 12.008 -1.392 -13.188 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 6
+ATOM 10555 C CD . LYS D 1 28 ? 10.573 -1.039 -12.794 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 6
+ATOM 10556 C CE . LYS D 1 28 ? 9.845 -2.258 -12.222 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 6
+ATOM 10557 N NZ . LYS D 1 28 ? 8.380 -2.093 -12.348 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 6
+ATOM 10558 H H . LYS D 1 28 ? 14.197 -2.130 -13.438 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 6
+ATOM 10559 H HA . LYS D 1 28 ? 14.465 0.369 -14.798 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 6
+ATOM 10560 H HB2 . LYS D 1 28 ? 12.011 0.561 -14.103 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 6
+ATOM 10561 H HB3 . LYS D 1 28 ? 12.445 -0.737 -15.197 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 6
+ATOM 10562 H HG2 . LYS D 1 28 ? 12.032 -2.387 -13.634 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 6
+ATOM 10563 H HG3 . LYS D 1 28 ? 12.636 -1.426 -12.298 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 6
+ATOM 10564 H HD2 . LYS D 1 28 ? 10.581 -0.237 -12.056 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 6
+ATOM 10565 H HD3 . LYS D 1 28 ? 10.034 -0.665 -13.665 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 6
+ATOM 10566 H HE2 . LYS D 1 28 ? 10.163 -3.158 -12.748 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 6
+ATOM 10567 H HE3 . LYS D 1 28 ? 10.114 -2.390 -11.174 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 6
+ATOM 10568 H HZ1 . LYS D 1 28 ? 8.160 -1.752 -13.262 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 6
+ATOM 10569 H HZ2 . LYS D 1 28 ? 7.932 -2.975 -12.204 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 6
+ATOM 10570 H HZ3 . LYS D 1 28 ? 8.058 -1.440 -11.662 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 6
+ATOM 10571 N N . GLY D 1 29 ? 15.285 1.691 -12.872 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 6
+ATOM 10572 C CA . GLY D 1 29 ? 15.634 2.627 -11.817 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 6
+ATOM 10573 C C . GLY D 1 29 ? 15.443 4.072 -12.282 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 6
+ATOM 10574 O O . GLY D 1 29 ? 14.417 4.409 -12.870 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 6
+ATOM 10575 H H . GLY D 1 29 ? 15.834 1.768 -13.704 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 6
+ATOM 10576 H HA2 . GLY D 1 29 ? 15.016 2.438 -10.940 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 6
+ATOM 10577 H HA3 . GLY D 1 29 ? 16.670 2.471 -11.517 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 6
+ATOM 10578 N N . ALA D 1 30 ? 16.449 4.888 -12.000 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 6
+ATOM 10579 C CA . ALA D 1 30 ? 16.405 6.289 -12.381 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 6
+ATOM 10580 C C . ALA D 1 30 ? 15.106 6.913 -11.867 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 6
+ATOM 10581 O O . ALA D 1 30 ? 14.655 6.597 -10.767 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 6
+ATOM 10582 C CB . ALA D 1 30 ? 16.548 6.410 -13.900 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 6
+ATOM 10583 H H . ALA D 1 30 ? 17.280 4.606 -11.521 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 6
+ATOM 10584 H HA . ALA D 1 30 ? 17.250 6.789 -11.908 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 6
+ATOM 10585 H HB1 . ALA D 1 30 ? 16.805 7.437 -14.160 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 6
+ATOM 10586 H HB2 . ALA D 1 30 ? 17.335 5.740 -14.245 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 6
+ATOM 10587 H HB3 . ALA D 1 30 ? 15.606 6.140 -14.376 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 6
+ATOM 10588 N N . ILE D 1 31 ? 14.541 7.787 -12.687 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 6
+ATOM 10589 C CA . ILE D 1 31 ? 13.303 8.458 -12.328 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 6
+ATOM 10590 C C . ILE D 1 31 ? 12.129 7.748 -13.006 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 6
+ATOM 10591 O O . ILE D 1 31 ? 11.768 8.077 -14.135 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 6
+ATOM 10592 C CB . ILE D 1 31 ? 13.389 9.950 -12.652 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 6
+ATOM 10593 C CG1 . ILE D 1 31 ? 14.337 10.667 -11.688 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 6
+ATOM 10594 C CG2 . ILE D 1 31 ? 11.999 10.589 -12.669 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 6
+ATOM 10595 C CD1 . ILE D 1 31 ? 15.780 10.606 -12.192 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 6
+ATOM 10596 H H . ILE D 1 31 ? 14.914 8.038 -13.580 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 6
+ATOM 10597 H HA . ILE D 1 31 ? 13.184 8.368 -11.248 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 6
+ATOM 10598 H HB . ILE D 1 31 ? 13.805 10.059 -13.653 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 6
+ATOM 10599 H HG12 . ILE D 1 31 ? 14.030 11.707 -11.576 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 6
+ATOM 10600 H HG13 . ILE D 1 31 ? 14.273 10.208 -10.701 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 6
+ATOM 10601 H HG21 . ILE D 1 31 ? 11.448 10.285 -11.779 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 6
+ATOM 10602 H HG22 . ILE D 1 31 ? 12.097 11.674 -12.682 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 6
+ATOM 10603 H HG23 . ILE D 1 31 ? 11.460 10.263 -13.558 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 6
+ATOM 10604 H HD11 . ILE D 1 31 ? 15.824 10.981 -13.214 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 6
+ATOM 10605 H HD12 . ILE D 1 31 ? 16.415 11.219 -11.552 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 6
+ATOM 10606 H HD13 . ILE D 1 31 ? 16.130 9.574 -12.168 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 6
+ATOM 10607 N N . ILE D 1 32 ? 11.565 6.788 -12.288 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 6
+ATOM 10608 C CA . ILE D 1 32 ? 10.439 6.029 -12.806 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 6
+ATOM 10609 C C . ILE D 1 32 ? 9.193 6.343 -11.976 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 6
+ATOM 10610 O O . ILE D 1 32 ? 9.270 6.463 -10.755 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 6
+ATOM 10611 C CB . ILE D 1 32 ? 10.779 4.538 -12.865 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 6
+ATOM 10612 C CG1 . ILE D 1 32 ? 9.581 3.721 -13.351 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 6
+ATOM 10613 C CG2 . ILE D 1 32 ? 11.303 4.042 -11.516 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 6
+ATOM 10614 C CD1 . ILE D 1 32 ? 8.695 3.297 -12.178 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 6
+ATOM 10615 H H . ILE D 1 32 ? 11.865 6.526 -11.371 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 6
+ATOM 10616 H HA . ILE D 1 32 ? 10.265 6.360 -13.830 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 6
+ATOM 10617 H HB . ILE D 1 32 ? 11.580 4.399 -13.592 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 6
+ATOM 10618 H HG12 . ILE D 1 32 ? 8.997 4.311 -14.058 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 6
+ATOM 10619 H HG13 . ILE D 1 32 ? 9.931 2.838 -13.885 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 6
+ATOM 10620 H HG21 . ILE D 1 32 ? 11.184 2.960 -11.456 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 6
+ATOM 10621 H HG22 . ILE D 1 32 ? 12.358 4.298 -11.419 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 6
+ATOM 10622 H HG23 . ILE D 1 32 ? 10.739 4.514 -10.712 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 6
+ATOM 10623 H HD11 . ILE D 1 32 ? 8.865 3.965 -11.334 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 6
+ATOM 10624 H HD12 . ILE D 1 32 ? 7.647 3.348 -12.476 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 6
+ATOM 10625 H HD13 . ILE D 1 32 ? 8.940 2.275 -11.888 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 6
+ATOM 10626 N N . GLY D 1 33 ? 8.073 6.468 -12.673 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 6
+ATOM 10627 C CA . GLY D 1 33 ? 6.812 6.766 -12.016 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 6
+ATOM 10628 C C . GLY D 1 33 ? 5.669 5.952 -12.627 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 6
+ATOM 10629 O O . GLY D 1 33 ? 5.419 6.031 -13.828 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 6
+ATOM 10630 H H . GLY D 1 33 ? 8.019 6.369 -13.667 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 6
+ATOM 10631 H HA2 . GLY D 1 33 ? 6.892 6.545 -10.951 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 6
+ATOM 10632 H HA3 . GLY D 1 33 ? 6.593 7.830 -12.106 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 6
+ATOM 10633 N N . LEU D 1 34 ? 5.007 5.187 -11.771 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 6
+ATOM 10634 C CA . LEU D 1 34 ? 3.897 4.359 -12.212 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 6
+ATOM 10635 C C . LEU D 1 34 ? 2.620 4.802 -11.494 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 6
+ATOM 10636 O O . LEU D 1 34 ? 2.535 4.728 -10.269 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 6
+ATOM 10637 C CB . LEU D 1 34 ? 4.226 2.877 -12.023 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 6
+ATOM 10638 C CG . LEU D 1 34 ? 3.032 1.948 -11.796 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 6
+ATOM 10639 C CD1 . LEU D 1 34 ? 1.868 2.316 -12.719 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 6
+ATOM 10640 C CD2 . LEU D 1 34 ? 3.441 0.482 -11.946 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 6
+ATOM 10641 H H . LEU D 1 34 ? 5.217 5.128 -10.795 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 6
+ATOM 10642 H HA . LEU D 1 34 ? 3.769 4.527 -13.281 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 6
+ATOM 10643 H HB2 . LEU D 1 34 ? 4.769 2.531 -12.902 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 6
+ATOM 10644 H HB3 . LEU D 1 34 ? 4.902 2.781 -11.173 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 6
+ATOM 10645 H HG . LEU D 1 34 ? 2.684 2.082 -10.771 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 6
+ATOM 10646 H HD11 . LEU D 1 34 ? 1.101 2.838 -12.147 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 6
+ATOM 10647 H HD12 . LEU D 1 34 ? 2.229 2.964 -13.518 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 6
+ATOM 10648 H HD13 . LEU D 1 34 ? 1.446 1.409 -13.150 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 6
+ATOM 10649 H HD21 . LEU D 1 34 ? 2.909 0.041 -12.789 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 6
+ATOM 10650 H HD22 . LEU D 1 34 ? 4.515 0.421 -12.122 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 6
+ATOM 10651 H HD23 . LEU D 1 34 ? 3.190 -0.061 -11.034 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 6
+ATOM 10652 N N . MET D 1 35 ? 1.660 5.253 -12.288 1.00 0.00 ? ? ? ? ? ? 35 MET D N 6
+ATOM 10653 C CA . MET D 1 35 ? 0.391 5.707 -11.744 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 6
+ATOM 10654 C C . MET D 1 35 ? -0.774 4.903 -12.324 1.00 0.00 ? ? ? ? ? ? 35 MET D C 6
+ATOM 10655 O O . MET D 1 35 ? -0.726 4.479 -13.478 1.00 0.00 ? ? ? ? ? ? 35 MET D O 6
+ATOM 10656 C CB . MET D 1 35 ? 0.199 7.190 -12.067 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 6
+ATOM 10657 C CG . MET D 1 35 ? -1.222 7.646 -11.729 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 6
+ATOM 10658 S SD . MET D 1 35 ? -1.227 9.386 -11.333 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 6
+ATOM 10659 C CE . MET D 1 35 ? -2.837 9.841 -11.958 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 6
+ATOM 10660 H H . MET D 1 35 ? 1.737 5.310 -13.283 1.00 0.00 ? ? ? ? ? ? 35 MET D H 6
+ATOM 10661 H HA . MET D 1 35 ? 0.457 5.540 -10.669 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 6
+ATOM 10662 H HB2 . MET D 1 35 ? 0.919 7.785 -11.503 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 6
+ATOM 10663 H HB3 . MET D 1 35 ? 0.400 7.365 -13.124 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 6
+ATOM 10664 H HG2 . MET D 1 35 ? -1.884 7.454 -12.573 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 6
+ATOM 10665 H HG3 . MET D 1 35 ? -1.606 7.071 -10.886 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 6
+ATOM 10666 H HE1 . MET D 1 35 ? -3.044 10.881 -11.706 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 6
+ATOM 10667 H HE2 . MET D 1 35 ? -2.854 9.719 -13.041 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 6
+ATOM 10668 H HE3 . MET D 1 35 ? -3.595 9.200 -11.508 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 6
+ATOM 10669 N N . VAL D 1 36 ? -1.793 4.718 -11.498 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 6
+ATOM 10670 C CA . VAL D 1 36 ? -2.969 3.973 -11.915 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 6
+ATOM 10671 C C . VAL D 1 36 ? -4.214 4.839 -11.716 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 6
+ATOM 10672 O O . VAL D 1 36 ? -4.645 5.062 -10.586 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 6
+ATOM 10673 C CB . VAL D 1 36 ? -3.039 2.643 -11.162 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 6
+ATOM 10674 C CG1 . VAL D 1 36 ? -3.999 1.672 -11.853 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 6
+ATOM 10675 C CG2 . VAL D 1 36 ? -1.648 2.024 -11.012 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 6
+ATOM 10676 H H . VAL D 1 36 ? -1.824 5.067 -10.562 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 6
+ATOM 10677 H HA . VAL D 1 36 ? -2.860 3.754 -12.978 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 6
+ATOM 10678 H HB . VAL D 1 36 ? -3.426 2.843 -10.164 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 6
+ATOM 10679 H HG11 . VAL D 1 36 ? -4.628 2.221 -12.554 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 6
+ATOM 10680 H HG12 . VAL D 1 36 ? -3.427 0.917 -12.392 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 6
+ATOM 10681 H HG13 . VAL D 1 36 ? -4.626 1.187 -11.105 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 6
+ATOM 10682 H HG21 . VAL D 1 36 ? -1.710 1.141 -10.375 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 6
+ATOM 10683 H HG22 . VAL D 1 36 ? -1.269 1.738 -11.993 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 6
+ATOM 10684 H HG23 . VAL D 1 36 ? -0.974 2.751 -10.560 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 6
+ATOM 10685 N N . GLY D 1 37 ? -4.757 5.305 -12.831 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 6
+ATOM 10686 C CA . GLY D 1 37 ? -5.944 6.142 -12.793 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 6
+ATOM 10687 C C . GLY D 1 37 ? -7.215 5.294 -12.869 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 6
+ATOM 10688 O O . GLY D 1 37 ? -7.782 5.113 -13.946 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 6
+ATOM 10689 H H . GLY D 1 37 ? -4.400 5.119 -13.747 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 6
+ATOM 10690 H HA2 . GLY D 1 37 ? -5.949 6.730 -11.876 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 6
+ATOM 10691 H HA3 . GLY D 1 37 ? -5.923 6.847 -13.624 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 6
+ATOM 10692 N N . GLY D 1 38 ? -7.627 4.797 -11.712 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 6
+ATOM 10693 C CA . GLY D 1 38 ? -8.821 3.973 -11.634 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 6
+ATOM 10694 C C . GLY D 1 38 ? -10.017 4.787 -11.138 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 6
+ATOM 10695 O O . GLY D 1 38 ? -10.221 4.928 -9.933 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 6
+ATOM 10696 H H . GLY D 1 38 ? -7.160 4.949 -10.840 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 6
+ATOM 10697 H HA2 . GLY D 1 38 ? -9.042 3.554 -12.615 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 6
+ATOM 10698 H HA3 . GLY D 1 38 ? -8.644 3.133 -10.961 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 6
+ATOM 10699 N N . VAL D 1 39 ? -10.778 5.301 -12.093 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 6
+ATOM 10700 C CA . VAL D 1 39 ? -11.950 6.098 -11.769 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 6
+ATOM 10701 C C . VAL D 1 39 ? -13.208 5.349 -12.212 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 6
+ATOM 10702 O O . VAL D 1 39 ? -13.316 4.938 -13.366 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 6
+ATOM 10703 C CB . VAL D 1 39 ? -11.828 7.487 -12.397 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 6
+ATOM 10704 C CG1 . VAL D 1 39 ? -12.937 8.415 -11.895 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 6
+ATOM 10705 C CG2 . VAL D 1 39 ? -10.447 8.090 -12.131 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 6
+ATOM 10706 H H . VAL D 1 39 ? -10.606 5.182 -13.071 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 6
+ATOM 10707 H HA . VAL D 1 39 ? -11.976 6.218 -10.686 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 6
+ATOM 10708 H HB . VAL D 1 39 ? -11.944 7.379 -13.475 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 6
+ATOM 10709 H HG11 . VAL D 1 39 ? -13.575 8.703 -12.730 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 6
+ATOM 10710 H HG12 . VAL D 1 39 ? -13.532 7.896 -11.144 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 6
+ATOM 10711 H HG13 . VAL D 1 39 ? -12.492 9.307 -11.453 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 6
+ATOM 10712 H HG21 . VAL D 1 39 ? -10.256 8.891 -12.845 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 6
+ATOM 10713 H HG22 . VAL D 1 39 ? -10.414 8.491 -11.118 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 6
+ATOM 10714 H HG23 . VAL D 1 39 ? -9.686 7.317 -12.240 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 6
+ATOM 10715 N N . VAL D 1 40 ? -14.129 5.195 -11.271 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 6
+ATOM 10716 C CA . VAL D 1 40 ? -15.376 4.504 -11.551 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 6
+ATOM 10717 C C . VAL D 1 40 ? -16.507 5.160 -10.757 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 6
+ATOM 10718 O O . VAL D 1 40 ? -16.666 4.900 -9.565 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 6
+ATOM 10719 C CB . VAL D 1 40 ? -15.225 3.011 -11.253 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 6
+ATOM 10720 C CG1 . VAL D 1 40 ? -14.356 2.784 -10.014 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 6
+ATOM 10721 C CG2 . VAL D 1 40 ? -16.591 2.342 -11.095 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 6
+ATOM 10722 H H . VAL D 1 40 ? -14.033 5.533 -10.335 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 6
+ATOM 10723 H HA . VAL D 1 40 ? -15.583 4.617 -12.615 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 6
+ATOM 10724 H HB . VAL D 1 40 ? -14.722 2.549 -12.103 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 6
+ATOM 10725 H HG11 . VAL D 1 40 ? -14.783 1.981 -9.413 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 6
+ATOM 10726 H HG12 . VAL D 1 40 ? -13.347 2.510 -10.322 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 6
+ATOM 10727 H HG13 . VAL D 1 40 ? -14.320 3.700 -9.424 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 6
+ATOM 10728 H HG21 . VAL D 1 40 ? -16.718 2.015 -10.063 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 6
+ATOM 10729 H HG22 . VAL D 1 40 ? -17.376 3.054 -11.350 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 6
+ATOM 10730 H HG23 . VAL D 1 40 ? -16.653 1.480 -11.759 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 6
+ATOM 10731 N N . ILE D 1 41 ? -17.264 5.999 -11.449 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 6
+ATOM 10732 C CA . ILE D 1 41 ? -18.375 6.695 -10.823 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 6
+ATOM 10733 C C . ILE D 1 41 ? -19.690 6.185 -11.417 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 6
+ATOM 10734 O O . ILE D 1 41 ? -19.807 6.029 -12.631 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 6
+ATOM 10735 C CB . ILE D 1 41 ? -18.194 8.209 -10.940 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 6
+ATOM 10736 C CG1 . ILE D 1 41 ? -18.784 8.732 -12.252 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 6
+ATOM 10737 C CG2 . ILE D 1 41 ? -16.724 8.600 -10.777 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 6
+ATOM 10738 C CD1 . ILE D 1 41 ? -18.778 10.261 -12.285 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 6
+ATOM 10739 H H . ILE D 1 41 ? -17.128 6.206 -12.418 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 6
+ATOM 10740 H HA . ILE D 1 41 ? -18.358 6.449 -9.761 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 6
+ATOM 10741 H HB . ILE D 1 41 ? -18.745 8.683 -10.128 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 6
+ATOM 10742 H HG12 . ILE D 1 41 ? -18.209 8.344 -13.093 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 6
+ATOM 10743 H HG13 . ILE D 1 41 ? -19.804 8.366 -12.368 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 6
+ATOM 10744 H HG21 . ILE D 1 41 ? -16.636 9.686 -10.764 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 6
+ATOM 10745 H HG22 . ILE D 1 41 ? -16.342 8.194 -9.840 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 6
+ATOM 10746 H HG23 . ILE D 1 41 ? -16.147 8.198 -11.610 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 6
+ATOM 10747 H HD11 . ILE D 1 41 ? -19.047 10.647 -11.302 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 6
+ATOM 10748 H HD12 . ILE D 1 41 ? -17.783 10.615 -12.554 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 6
+ATOM 10749 H HD13 . ILE D 1 41 ? -19.500 10.612 -13.023 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 6
+ATOM 10750 N N . ALA D 1 42 ? -20.646 5.939 -10.533 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 6
+ATOM 10751 C CA . ALA D 1 42 ? -21.947 5.449 -10.954 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 6
+ATOM 10752 C C . ALA D 1 42 ? -23.042 6.231 -10.226 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 6
+ATOM 10753 O O . ALA D 1 42 ? -22.800 6.799 -9.162 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 6
+ATOM 10754 C CB . ALA D 1 42 ? -22.036 3.944 -10.695 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 6
+ATOM 10755 H H . ALA D 1 42 ? -20.542 6.068 -9.547 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 6
+ATOM 10756 H HA . ALA D 1 42 ? -22.037 5.627 -12.026 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 6
+ATOM 10757 H HB1 . ALA D 1 42 ? -22.723 3.757 -9.871 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 6
+ATOM 10758 H HB2 . ALA D 1 42 ? -22.398 3.442 -11.592 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 6
+ATOM 10759 H HB3 . ALA D 1 42 ? -21.048 3.561 -10.438 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 6
+ATOM 10760 N N . LEU E 1 17 ? -14.595 -5.115 -21.098 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 6
+ATOM 10761 C CA . LEU E 1 17 ? -14.897 -5.982 -19.972 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 6
+ATOM 10762 C C . LEU E 1 17 ? -13.594 -6.554 -19.410 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 6
+ATOM 10763 O O . LEU E 1 17 ? -13.251 -6.307 -18.255 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 6
+ATOM 10764 C CB . LEU E 1 17 ? -15.914 -7.052 -20.377 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 6
+ATOM 10765 C CG . LEU E 1 17 ? -17.188 -7.120 -19.533 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 6
+ATOM 10766 C CD1 . LEU E 1 17 ? -18.113 -5.940 -19.840 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 6
+ATOM 10767 C CD2 . LEU E 1 17 ? -17.895 -8.464 -19.715 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 6
+ATOM 10768 H H . LEU E 1 17 ? -15.199 -5.222 -21.888 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 6
+ATOM 10769 H HA . LEU E 1 17 ? -15.365 -5.368 -19.203 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 6
+ATOM 10770 H HB2 . LEU E 1 17 ? -16.198 -6.880 -21.415 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 6
+ATOM 10771 H HB3 . LEU E 1 17 ? -15.424 -8.024 -20.338 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 6
+ATOM 10772 H HG . LEU E 1 17 ? -16.907 -7.043 -18.483 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 6
+ATOM 10773 H HD11 . LEU E 1 17 ? -18.811 -5.801 -19.014 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 6
+ATOM 10774 H HD12 . LEU E 1 17 ? -17.517 -5.035 -19.968 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 6
+ATOM 10775 H HD13 . LEU E 1 17 ? -18.668 -6.142 -20.755 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 6
+ATOM 10776 H HD21 . LEU E 1 17 ? -18.698 -8.357 -20.444 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 6
+ATOM 10777 H HD22 . LEU E 1 17 ? -17.180 -9.206 -20.069 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 6
+ATOM 10778 H HD23 . LEU E 1 17 ? -18.312 -8.787 -18.761 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 6
+ATOM 10779 N N . VAL E 1 18 ? -12.904 -7.308 -20.254 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 6
+ATOM 10780 C CA . VAL E 1 18 ? -11.646 -7.916 -19.856 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 6
+ATOM 10781 C C . VAL E 1 18 ? -10.490 -7.181 -20.538 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 6
+ATOM 10782 O O . VAL E 1 18 ? -10.469 -7.050 -21.760 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 6
+ATOM 10783 C CB . VAL E 1 18 ? -11.668 -9.414 -20.167 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 6
+ATOM 10784 C CG1 . VAL E 1 18 ? -10.306 -10.053 -19.887 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 6
+ATOM 10785 C CG2 . VAL E 1 18 ? -12.776 -10.121 -19.382 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 6
+ATOM 10786 H H . VAL E 1 18 ? -13.190 -7.503 -21.192 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 6
+ATOM 10787 H HA . VAL E 1 18 ? -11.550 -7.797 -18.777 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 6
+ATOM 10788 H HB . VAL E 1 18 ? -11.882 -9.533 -21.229 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 6
+ATOM 10789 H HG11 . VAL E 1 18 ? -10.450 -11.039 -19.447 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 6
+ATOM 10790 H HG12 . VAL E 1 18 ? -9.752 -10.149 -20.821 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 6
+ATOM 10791 H HG13 . VAL E 1 18 ? -9.746 -9.424 -19.195 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 6
+ATOM 10792 H HG21 . VAL E 1 18 ? -12.780 -9.759 -18.354 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 6
+ATOM 10793 H HG22 . VAL E 1 18 ? -13.740 -9.910 -19.845 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 6
+ATOM 10794 H HG23 . VAL E 1 18 ? -12.597 -11.196 -19.389 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 6
+ATOM 10795 N N . PHE E 1 19 ? -9.557 -6.722 -19.717 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 6
+ATOM 10796 C CA . PHE E 1 19 ? -8.401 -6.004 -20.226 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 6
+ATOM 10797 C C . PHE E 1 19 ? -7.111 -6.509 -19.575 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 6
+ATOM 10798 O O . PHE E 1 19 ? -7.063 -6.718 -18.364 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 6
+ATOM 10799 C CB . PHE E 1 19 ? -8.596 -4.530 -19.865 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 6
+ATOM 10800 C CG . PHE E 1 19 ? -7.304 -3.710 -19.879 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 6
+ATOM 10801 C CD1 . PHE E 1 19 ? -6.397 -3.853 -18.877 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 6
+ATOM 10802 C CD2 . PHE E 1 19 ? -7.064 -2.837 -20.895 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 6
+ATOM 10803 C CE1 . PHE E 1 19 ? -5.198 -3.092 -18.890 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 6
+ATOM 10804 C CE2 . PHE E 1 19 ? -5.865 -2.076 -20.908 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 6
+ATOM 10805 C CZ . PHE E 1 19 ? -4.958 -2.219 -19.905 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 6
+ATOM 10806 H H . PHE E 1 19 ? -9.582 -6.834 -18.724 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 6
+ATOM 10807 H HA . PHE E 1 19 ? -8.357 -6.181 -21.300 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 6
+ATOM 10808 H HB2 . PHE E 1 19 ? -9.304 -4.086 -20.565 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 6
+ATOM 10809 H HB3 . PHE E 1 19 ? -9.044 -4.465 -18.874 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 6
+ATOM 10810 H HD1 . PHE E 1 19 ? -6.590 -4.552 -18.063 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 6
+ATOM 10811 H HD2 . PHE E 1 19 ? -7.791 -2.722 -21.698 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 6
+ATOM 10812 H HE1 . PHE E 1 19 ? -4.471 -3.207 -18.086 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 6
+ATOM 10813 H HE2 . PHE E 1 19 ? -5.672 -1.377 -21.721 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 6
+ATOM 10814 H HZ . PHE E 1 19 ? -4.037 -1.635 -19.915 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 6
+ATOM 10815 N N . PHE E 1 20 ? -6.098 -6.692 -20.409 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 6
+ATOM 10816 C CA . PHE E 1 20 ? -4.812 -7.169 -19.930 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 6
+ATOM 10817 C C . PHE E 1 20 ? -3.663 -6.413 -20.601 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 6
+ATOM 10818 O O . PHE E 1 20 ? -3.542 -6.418 -21.825 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 6
+ATOM 10819 C CB . PHE E 1 20 ? -4.717 -8.650 -20.302 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 6
+ATOM 10820 C CG . PHE E 1 20 ? -4.852 -9.600 -19.111 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 6
+ATOM 10821 C CD1 . PHE E 1 20 ? -6.083 -10.006 -18.700 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 6
+ATOM 10822 C CD2 . PHE E 1 20 ? -3.740 -10.039 -18.462 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 6
+ATOM 10823 C CE1 . PHE E 1 20 ? -6.208 -10.888 -17.595 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 6
+ATOM 10824 C CE2 . PHE E 1 20 ? -3.865 -10.921 -17.357 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 6
+ATOM 10825 C CZ . PHE E 1 20 ? -5.096 -11.327 -16.946 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 6
+ATOM 10826 H H . PHE E 1 20 ? -6.145 -6.519 -21.393 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 6
+ATOM 10827 H HA . PHE E 1 20 ? -4.781 -6.993 -18.855 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 6
+ATOM 10828 H HB2 . PHE E 1 20 ? -5.496 -8.882 -21.029 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 6
+ATOM 10829 H HB3 . PHE E 1 20 ? -3.760 -8.831 -20.792 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 6
+ATOM 10830 H HD1 . PHE E 1 20 ? -6.974 -9.654 -19.220 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 6
+ATOM 10831 H HD2 . PHE E 1 20 ? -2.753 -9.714 -18.791 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 6
+ATOM 10832 H HE1 . PHE E 1 20 ? -7.195 -11.213 -17.266 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 6
+ATOM 10833 H HE2 . PHE E 1 20 ? -2.974 -11.273 -16.837 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 6
+ATOM 10834 H HZ . PHE E 1 20 ? -5.192 -12.004 -16.097 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 6
+ATOM 10835 N N . ALA E 1 21 ? -2.848 -5.781 -19.768 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 6
+ATOM 10836 C CA . ALA E 1 21 ? -1.712 -5.022 -20.265 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 6
+ATOM 10837 C C . ALA E 1 21 ? -0.418 -5.642 -19.734 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 6
+ATOM 10838 O O . ALA E 1 21 ? -0.294 -5.898 -18.537 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 6
+ATOM 10839 C CB . ALA E 1 21 ? -1.864 -3.554 -19.862 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 6
+ATOM 10840 H H . ALA E 1 21 ? -2.953 -5.782 -18.774 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 6
+ATOM 10841 H HA . ALA E 1 21 ? -1.718 -5.090 -21.353 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 6
+ATOM 10842 H HB1 . ALA E 1 21 ? -2.409 -3.018 -20.639 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 6
+ATOM 10843 H HB2 . ALA E 1 21 ? -2.413 -3.490 -18.922 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 6
+ATOM 10844 H HB3 . ALA E 1 21 ? -0.877 -3.108 -19.737 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 6
+ATOM 10845 N N . GLU E 1 22 ? 0.513 -5.866 -20.650 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 6
+ATOM 10846 C CA . GLU E 1 22 ? 1.793 -6.451 -20.289 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 6
+ATOM 10847 C C . GLU E 1 22 ? 2.939 -5.609 -20.853 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 6
+ATOM 10848 O O . GLU E 1 22 ? 3.406 -5.856 -21.964 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 6
+ATOM 10849 C CB . GLU E 1 22 ? 1.888 -7.900 -20.770 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 6
+ATOM 10850 C CG . GLU E 1 22 ? 2.013 -8.863 -19.587 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 6
+ATOM 10851 C CD . GLU E 1 22 ? 0.665 -9.507 -19.259 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 6
+ATOM 10852 O OE1 . GLU E 1 22 ? 0.124 -10.183 -20.161 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 6
+ATOM 10853 O OE2 . GLU E 1 22 ? 0.205 -9.309 -18.114 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 6
+ATOM 10854 H H . GLU E 1 22 ? 0.403 -5.655 -21.621 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 6
+ATOM 10855 H HA . GLU E 1 22 ? 1.822 -6.433 -19.200 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 6
+ATOM 10856 H HB2 . GLU E 1 22 ? 1.004 -8.152 -21.356 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 6
+ATOM 10857 H HB3 . GLU E 1 22 ? 2.749 -8.013 -21.428 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 6
+ATOM 10858 H HG2 . GLU E 1 22 ? 2.743 -9.638 -19.820 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 6
+ATOM 10859 H HG3 . GLU E 1 22 ? 2.386 -8.326 -18.715 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 6
+ATOM 10860 N N . ASP E 1 23 ? 3.359 -4.633 -20.062 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 6
+ATOM 10861 C CA . ASP E 1 23 ? 4.442 -3.754 -20.469 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 6
+ATOM 10862 C C . ASP E 1 23 ? 5.777 -4.362 -20.036 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 6
+ATOM 10863 O O . ASP E 1 23 ? 5.905 -4.854 -18.916 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 6
+ATOM 10864 C CB . ASP E 1 23 ? 4.313 -2.379 -19.810 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 6
+ATOM 10865 C CG . ASP E 1 23 ? 5.505 -1.444 -20.025 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 6
+ATOM 10866 O OD1 . ASP E 1 23 ? 6.592 -1.784 -19.511 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 6
+ATOM 10867 O OD2 . ASP E 1 23 ? 5.301 -0.411 -20.698 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 6
+ATOM 10868 H H . ASP E 1 23 ? 2.974 -4.439 -19.160 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 6
+ATOM 10869 H HA . ASP E 1 23 ? 4.353 -3.672 -21.553 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 6
+ATOM 10870 H HB2 . ASP E 1 23 ? 3.415 -1.893 -20.193 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 6
+ATOM 10871 H HB3 . ASP E 1 23 ? 4.168 -2.519 -18.739 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 6
+ATOM 10872 N N . VAL E 1 24 ? 6.739 -4.308 -20.945 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 6
+ATOM 10873 C CA . VAL E 1 24 ? 8.060 -4.847 -20.671 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 6
+ATOM 10874 C C . VAL E 1 24 ? 9.121 -3.835 -21.109 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 6
+ATOM 10875 O O . VAL E 1 24 ? 9.001 -3.226 -22.171 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 6
+ATOM 10876 C CB . VAL E 1 24 ? 8.219 -6.211 -21.347 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 6
+ATOM 10877 C CG1 . VAL E 1 24 ? 8.008 -6.101 -22.858 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 6
+ATOM 10878 C CG2 . VAL E 1 24 ? 9.583 -6.825 -21.026 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 6
+ATOM 10879 H H . VAL E 1 24 ? 6.627 -3.906 -21.854 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 6
+ATOM 10880 H HA . VAL E 1 24 ? 8.139 -4.993 -19.594 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 6
+ATOM 10881 H HB . VAL E 1 24 ? 7.452 -6.874 -20.948 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 6
+ATOM 10882 H HG11 . VAL E 1 24 ? 8.630 -6.839 -23.366 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 6
+ATOM 10883 H HG12 . VAL E 1 24 ? 6.960 -6.286 -23.093 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 6
+ATOM 10884 H HG13 . VAL E 1 24 ? 8.285 -5.101 -23.192 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 6
+ATOM 10885 H HG21 . VAL E 1 24 ? 9.459 -7.881 -20.786 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 6
+ATOM 10886 H HG22 . VAL E 1 24 ? 10.239 -6.724 -21.891 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 6
+ATOM 10887 H HG23 . VAL E 1 24 ? 10.024 -6.308 -20.174 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 6
+ATOM 10888 N N . GLY E 1 25 ? 10.135 -3.688 -20.270 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 6
+ATOM 10889 C CA . GLY E 1 25 ? 11.216 -2.760 -20.557 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 6
+ATOM 10890 C C . GLY E 1 25 ? 12.534 -3.251 -19.955 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 6
+ATOM 10891 O O . GLY E 1 25 ? 12.549 -3.818 -18.864 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 6
+ATOM 10892 H H . GLY E 1 25 ? 10.225 -4.188 -19.408 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 6
+ATOM 10893 H HA2 . GLY E 1 25 ? 11.324 -2.646 -21.636 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 6
+ATOM 10894 H HA3 . GLY E 1 25 ? 10.972 -1.777 -20.155 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 6
+ATOM 10895 N N . SER E 1 26 ? 13.609 -3.015 -20.694 1.00 0.00 ? ? ? ? ? ? 26 SER E N 6
+ATOM 10896 C CA . SER E 1 26 ? 14.929 -3.426 -20.247 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 6
+ATOM 10897 C C . SER E 1 26 ? 15.716 -2.210 -19.754 1.00 0.00 ? ? ? ? ? ? 26 SER E C 6
+ATOM 10898 O O . SER E 1 26 ? 16.021 -1.307 -20.531 1.00 0.00 ? ? ? ? ? ? 26 SER E O 6
+ATOM 10899 C CB . SER E 1 26 ? 15.693 -4.135 -21.366 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 6
+ATOM 10900 O OG . SER E 1 26 ? 16.053 -5.466 -21.007 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 6
+ATOM 10901 H H . SER E 1 26 ? 13.588 -2.553 -21.580 1.00 0.00 ? ? ? ? ? ? 26 SER E H 6
+ATOM 10902 H HA . SER E 1 26 ? 14.752 -4.125 -19.429 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 6
+ATOM 10903 H HB2 . SER E 1 26 ? 15.080 -4.156 -22.267 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 6
+ATOM 10904 H HB3 . SER E 1 26 ? 16.593 -3.568 -21.606 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 6
+ATOM 10905 H HG . SER E 1 26 ? 15.686 -6.112 -21.675 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 6
+ATOM 10906 N N . ASN E 1 27 ? 16.022 -2.227 -18.465 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 6
+ATOM 10907 C CA . ASN E 1 27 ? 16.769 -1.137 -17.859 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 6
+ATOM 10908 C C . ASN E 1 27 ? 15.794 -0.048 -17.406 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 6
+ATOM 10909 O O . ASN E 1 27 ? 15.944 0.511 -16.320 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 6
+ATOM 10910 C CB . ASN E 1 27 ? 17.743 -0.513 -18.860 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 6
+ATOM 10911 C CG . ASN E 1 27 ? 18.950 0.096 -18.143 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 6
+ATOM 10912 O OD1 . ASN E 1 27 ? 19.533 -0.490 -17.247 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 6
+ATOM 10913 N ND2 . ASN E 1 27 ? 19.290 1.303 -18.587 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 6
+ATOM 10914 H H . ASN E 1 27 ? 15.770 -2.966 -17.839 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 6
+ATOM 10915 H HA . ASN E 1 27 ? 17.307 -1.588 -17.025 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 6
+ATOM 10916 H HB2 . ASN E 1 27 ? 18.080 -1.272 -19.566 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 6
+ATOM 10917 H HB3 . ASN E 1 27 ? 17.233 0.256 -19.439 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 6
+ATOM 10918 H HD21 . ASN E 1 27 ? 18.769 1.728 -19.327 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 6
+ATOM 10919 H HD22 . ASN E 1 27 ? 20.067 1.784 -18.181 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 6
+ATOM 10920 N N . LYS E 1 28 ? 14.818 0.221 -18.260 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 6
+ATOM 10921 C CA . LYS E 1 28 ? 13.820 1.234 -17.962 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 6
+ATOM 10922 C C . LYS E 1 28 ? 14.420 2.270 -17.009 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 6
+ATOM 10923 O O . LYS E 1 28 ? 13.923 2.460 -15.900 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 6
+ATOM 10924 C CB . LYS E 1 28 ? 12.539 0.584 -17.435 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 6
+ATOM 10925 C CG . LYS E 1 28 ? 11.384 0.769 -18.422 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 6
+ATOM 10926 C CD . LYS E 1 28 ? 10.037 0.770 -17.696 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 6
+ATOM 10927 C CE . LYS E 1 28 ? 9.374 -0.607 -17.772 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 6
+ATOM 10928 N NZ . LYS E 1 28 ? 8.274 -0.707 -16.786 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 6
+ATOM 10929 H H . LYS E 1 28 ? 14.704 -0.238 -19.141 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 6
+ATOM 10930 H HA . LYS E 1 28 ? 13.568 1.730 -18.899 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 6
+ATOM 10931 H HB2 . LYS E 1 28 ? 12.709 -0.479 -17.265 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 6
+ATOM 10932 H HB3 . LYS E 1 28 ? 12.273 1.022 -16.473 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 6
+ATOM 10933 H HG2 . LYS E 1 28 ? 11.511 1.708 -18.962 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 6
+ATOM 10934 H HG3 . LYS E 1 28 ? 11.402 -0.030 -19.163 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 6
+ATOM 10935 H HD2 . LYS E 1 28 ? 10.182 1.051 -16.653 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 6
+ATOM 10936 H HD3 . LYS E 1 28 ? 9.381 1.518 -18.140 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 6
+ATOM 10937 H HE2 . LYS E 1 28 ? 8.986 -0.776 -18.776 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 6
+ATOM 10938 H HE3 . LYS E 1 28 ? 10.113 -1.384 -17.580 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 6
+ATOM 10939 H HZ1 . LYS E 1 28 ? 8.405 -0.020 -16.070 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 6
+ATOM 10940 H HZ2 . LYS E 1 28 ? 7.400 -0.548 -17.244 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 6
+ATOM 10941 H HZ3 . LYS E 1 28 ? 8.275 -1.619 -16.377 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 6
+ATOM 10942 N N . GLY E 1 29 ? 15.479 2.913 -17.477 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 6
+ATOM 10943 C CA . GLY E 1 29 ? 16.152 3.926 -16.681 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 6
+ATOM 10944 C C . GLY E 1 29 ? 15.744 5.332 -17.123 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 6
+ATOM 10945 O O . GLY E 1 29 ? 14.683 5.516 -17.719 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 6
+ATOM 10946 H H . GLY E 1 29 ? 15.877 2.753 -18.381 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 6
+ATOM 10947 H HA2 . GLY E 1 29 ? 15.908 3.786 -15.628 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 6
+ATOM 10948 H HA3 . GLY E 1 29 ? 17.232 3.810 -16.776 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 6
+ATOM 10949 N N . ALA E 1 30 ? 16.606 6.289 -16.814 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 6
+ATOM 10950 C CA . ALA E 1 30 ? 16.348 7.673 -17.173 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 6
+ATOM 10951 C C . ALA E 1 30 ? 14.981 8.091 -16.627 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 6
+ATOM 10952 O O . ALA E 1 30 ? 14.609 7.710 -15.518 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 6
+ATOM 10953 C CB . ALA E 1 30 ? 16.444 7.834 -18.691 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 6
+ATOM 10954 H H . ALA E 1 30 ? 17.467 6.131 -16.330 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 6
+ATOM 10955 H HA . ALA E 1 30 ? 17.119 8.286 -16.705 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 6
+ATOM 10956 H HB1 . ALA E 1 30 ? 16.563 8.889 -18.938 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 6
+ATOM 10957 H HB2 . ALA E 1 30 ? 17.303 7.275 -19.062 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 6
+ATOM 10958 H HB3 . ALA E 1 30 ? 15.534 7.453 -19.155 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 6
+ATOM 10959 N N . ILE E 1 31 ? 14.271 8.868 -17.431 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 6
+ATOM 10960 C CA . ILE E 1 31 ? 12.953 9.340 -17.043 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 6
+ATOM 10961 C C . ILE E 1 31 ? 11.886 8.515 -17.765 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 6
+ATOM 10962 O O . ILE E 1 31 ? 11.780 8.566 -18.989 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 6
+ATOM 10963 C CB . ILE E 1 31 ? 12.832 10.847 -17.283 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 6
+ATOM 10964 C CG1 . ILE E 1 31 ? 14.149 11.559 -16.970 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 6
+ATOM 10965 C CG2 . ILE E 1 31 ? 11.661 11.435 -16.494 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 6
+ATOM 10966 C CD1 . ILE E 1 31 ? 14.416 11.582 -15.464 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 6
+ATOM 10967 H H . ILE E 1 31 ? 14.581 9.173 -18.331 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 6
+ATOM 10968 H HA . ILE E 1 31 ? 12.850 9.176 -15.970 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 6
+ATOM 10969 H HB . ILE E 1 31 ? 12.622 11.008 -18.340 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 6
+ATOM 10970 H HG12 . ILE E 1 31 ? 14.970 11.055 -17.481 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 6
+ATOM 10971 H HG13 . ILE E 1 31 ? 14.115 12.579 -17.352 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 6
+ATOM 10972 H HG21 . ILE E 1 31 ? 11.546 10.894 -15.555 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 6
+ATOM 10973 H HG22 . ILE E 1 31 ? 11.855 12.487 -16.285 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 6
+ATOM 10974 H HG23 . ILE E 1 31 ? 10.746 11.345 -17.080 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 6
+ATOM 10975 H HD11 . ILE E 1 31 ? 13.468 11.559 -14.926 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 6
+ATOM 10976 H HD12 . ILE E 1 31 ? 15.012 10.713 -15.187 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 6
+ATOM 10977 H HD13 . ILE E 1 31 ? 14.958 12.492 -15.204 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 6
+ATOM 10978 N N . ILE E 1 32 ? 11.123 7.773 -16.976 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 6
+ATOM 10979 C CA . ILE E 1 32 ? 10.068 6.938 -17.524 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 6
+ATOM 10980 C C . ILE E 1 32 ? 8.821 7.055 -16.646 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 6
+ATOM 10981 O O . ILE E 1 32 ? 8.854 6.708 -15.466 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 6
+ATOM 10982 C CB . ILE E 1 32 ? 10.561 5.501 -17.704 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 6
+ATOM 10983 C CG1 . ILE E 1 32 ? 9.442 4.598 -18.226 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 6
+ATOM 10984 C CG2 . ILE E 1 32 ? 11.172 4.965 -16.407 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 6
+ATOM 10985 C CD1 . ILE E 1 32 ? 8.534 4.134 -17.086 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 6
+ATOM 10986 H H . ILE E 1 32 ? 11.216 7.737 -15.981 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 6
+ATOM 10987 H HA . ILE E 1 32 ? 9.829 7.323 -18.516 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 6
+ATOM 10988 H HB . ILE E 1 32 ? 11.351 5.502 -18.455 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 6
+ATOM 10989 H HG12 . ILE E 1 32 ? 8.853 5.136 -18.969 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 6
+ATOM 10990 H HG13 . ILE E 1 32 ? 9.873 3.732 -18.728 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 6
+ATOM 10991 H HG21 . ILE E 1 32 ? 10.935 3.906 -16.305 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 6
+ATOM 10992 H HG22 . ILE E 1 32 ? 12.254 5.094 -16.434 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 6
+ATOM 10993 H HG23 . ILE E 1 32 ? 10.762 5.513 -15.559 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 6
+ATOM 10994 H HD11 . ILE E 1 32 ? 7.500 4.385 -17.320 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 6
+ATOM 10995 H HD12 . ILE E 1 32 ? 8.628 3.055 -16.963 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 6
+ATOM 10996 H HD13 . ILE E 1 32 ? 8.828 4.632 -16.162 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 6
+ATOM 10997 N N . GLY E 1 33 ? 7.751 7.545 -17.254 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 6
+ATOM 10998 C CA . GLY E 1 33 ? 6.496 7.712 -16.541 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 6
+ATOM 10999 C C . GLY E 1 33 ? 5.378 6.903 -17.202 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 6
+ATOM 11000 O O . GLY E 1 33 ? 4.954 7.217 -18.313 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 6
+ATOM 11001 H H . GLY E 1 33 ? 7.733 7.825 -18.214 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 6
+ATOM 11002 H HA2 . GLY E 1 33 ? 6.617 7.395 -15.506 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 6
+ATOM 11003 H HA3 . GLY E 1 33 ? 6.223 8.768 -16.521 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 6
+ATOM 11004 N N . LEU E 1 34 ? 4.934 5.877 -16.491 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 6
+ATOM 11005 C CA . LEU E 1 34 ? 3.874 5.021 -16.995 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 6
+ATOM 11006 C C . LEU E 1 34 ? 2.599 5.266 -16.186 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 6
+ATOM 11007 O O . LEU E 1 34 ? 2.645 5.361 -14.961 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 6
+ATOM 11008 C CB . LEU E 1 34 ? 4.325 3.559 -17.003 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 6
+ATOM 11009 C CG . LEU E 1 34 ? 4.336 2.852 -15.646 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 6
+ATOM 11010 C CD1 . LEU E 1 34 ? 3.689 1.470 -15.742 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 6
+ATOM 11011 C CD2 . LEU E 1 34 ? 5.754 2.782 -15.076 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 6
+ATOM 11012 H H . LEU E 1 34 ? 5.285 5.629 -15.588 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 6
+ATOM 11013 H HA . LEU E 1 34 ? 3.687 5.306 -18.030 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 6
+ATOM 11014 H HB2 . LEU E 1 34 ? 3.672 3.002 -17.675 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 6
+ATOM 11015 H HB3 . LEU E 1 34 ? 5.330 3.512 -17.423 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 6
+ATOM 11016 H HG . LEU E 1 34 ? 3.738 3.440 -14.950 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 6
+ATOM 11017 H HD11 . LEU E 1 34 ? 4.223 0.772 -15.098 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 6
+ATOM 11018 H HD12 . LEU E 1 34 ? 2.648 1.533 -15.425 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 6
+ATOM 11019 H HD13 . LEU E 1 34 ? 3.733 1.119 -16.773 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 6
+ATOM 11020 H HD21 . LEU E 1 34 ? 5.865 1.871 -14.488 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 6
+ATOM 11021 H HD22 . LEU E 1 34 ? 6.475 2.777 -15.893 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 6
+ATOM 11022 H HD23 . LEU E 1 34 ? 5.933 3.649 -14.439 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 6
+ATOM 11023 N N . MET E 1 35 ? 1.490 5.361 -16.905 1.00 0.00 ? ? ? ? ? ? 35 MET E N 6
+ATOM 11024 C CA . MET E 1 35 ? 0.204 5.593 -16.270 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 6
+ATOM 11025 C C . MET E 1 35 ? -0.912 4.843 -16.999 1.00 0.00 ? ? ? ? ? ? 35 MET E C 6
+ATOM 11026 O O . MET E 1 35 ? -0.982 4.867 -18.227 1.00 0.00 ? ? ? ? ? ? 35 MET E O 6
+ATOM 11027 C CB . MET E 1 35 ? -0.103 7.092 -16.271 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 6
+ATOM 11028 C CG . MET E 1 35 ? -1.418 7.384 -15.544 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 6
+ATOM 11029 S SD . MET E 1 35 ? -1.744 9.139 -15.552 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 6
+ATOM 11030 C CE . MET E 1 35 ? -3.527 9.122 -15.620 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 6
+ATOM 11031 H H . MET E 1 35 ? 1.461 5.282 -17.901 1.00 0.00 ? ? ? ? ? ? 35 MET E H 6
+ATOM 11032 H HA . MET E 1 35 ? 0.305 5.210 -15.254 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 6
+ATOM 11033 H HB2 . MET E 1 35 ? 0.711 7.634 -15.790 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 6
+ATOM 11034 H HB3 . MET E 1 35 ? -0.164 7.453 -17.298 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 6
+ATOM 11035 H HG2 . MET E 1 35 ? -2.236 6.851 -16.028 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 6
+ATOM 11036 H HG3 . MET E 1 35 ? -1.363 7.020 -14.518 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 6
+ATOM 11037 H HE1 . MET E 1 35 ? -3.921 9.951 -15.032 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 6
+ATOM 11038 H HE2 . MET E 1 35 ? -3.852 9.225 -16.656 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 6
+ATOM 11039 H HE3 . MET E 1 35 ? -3.898 8.181 -15.215 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 6
+ATOM 11040 N N . VAL E 1 36 ? -1.757 4.193 -16.212 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 6
+ATOM 11041 C CA . VAL E 1 36 ? -2.866 3.436 -16.768 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 6
+ATOM 11042 C C . VAL E 1 36 ? -4.161 4.232 -16.590 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 6
+ATOM 11043 O O . VAL E 1 36 ? -4.333 4.928 -15.591 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 6
+ATOM 11044 C CB . VAL E 1 36 ? -2.925 2.048 -16.128 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 6
+ATOM 11045 C CG1 . VAL E 1 36 ? -1.574 1.338 -16.232 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 6
+ATOM 11046 C CG2 . VAL E 1 36 ? -3.389 2.134 -14.673 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 6
+ATOM 11047 H H . VAL E 1 36 ? -1.694 4.178 -15.215 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 6
+ATOM 11048 H HA . VAL E 1 36 ? -2.676 3.309 -17.834 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 6
+ATOM 11049 H HB . VAL E 1 36 ? -3.657 1.456 -16.678 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 6
+ATOM 11050 H HG11 . VAL E 1 36 ? -1.697 0.398 -16.770 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 6
+ATOM 11051 H HG12 . VAL E 1 36 ? -0.870 1.974 -16.769 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 6
+ATOM 11052 H HG13 . VAL E 1 36 ? -1.191 1.137 -15.232 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 6
+ATOM 11053 H HG21 . VAL E 1 36 ? -2.523 2.088 -14.012 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 6
+ATOM 11054 H HG22 . VAL E 1 36 ? -3.917 3.075 -14.515 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 6
+ATOM 11055 H HG23 . VAL E 1 36 ? -4.057 1.301 -14.454 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 6
+ATOM 11056 N N . GLY E 1 37 ? -5.037 4.103 -17.575 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 6
+ATOM 11057 C CA . GLY E 1 37 ? -6.311 4.801 -17.540 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 6
+ATOM 11058 C C . GLY E 1 37 ? -7.469 3.820 -17.346 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 6
+ATOM 11059 O O . GLY E 1 37 ? -7.622 2.874 -18.117 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 6
+ATOM 11060 H H . GLY E 1 37 ? -4.889 3.535 -18.385 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 6
+ATOM 11061 H HA2 . GLY E 1 37 ? -6.308 5.530 -16.730 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 6
+ATOM 11062 H HA3 . GLY E 1 37 ? -6.452 5.356 -18.468 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 6
+ATOM 11063 N N . GLY E 1 38 ? -8.255 4.080 -16.311 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 6
+ATOM 11064 C CA . GLY E 1 38 ? -9.395 3.232 -16.006 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 6
+ATOM 11065 C C . GLY E 1 38 ? -10.604 4.069 -15.585 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 6
+ATOM 11066 O O . GLY E 1 38 ? -11.021 4.026 -14.429 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 6
+ATOM 11067 H H . GLY E 1 38 ? -8.124 4.852 -15.689 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 6
+ATOM 11068 H HA2 . GLY E 1 38 ? -9.650 2.631 -16.879 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 6
+ATOM 11069 H HA3 . GLY E 1 38 ? -9.133 2.538 -15.207 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 6
+ATOM 11070 N N . VAL E 1 39 ? -11.134 4.811 -16.547 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 6
+ATOM 11071 C CA . VAL E 1 39 ? -12.287 5.657 -16.290 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 6
+ATOM 11072 C C . VAL E 1 39 ? -13.566 4.837 -16.472 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 6
+ATOM 11073 O O . VAL E 1 39 ? -13.675 4.051 -17.412 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 6
+ATOM 11074 C CB . VAL E 1 39 ? -12.238 6.895 -17.188 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 6
+ATOM 11075 C CG1 . VAL E 1 39 ? -13.374 7.863 -16.849 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 6
+ATOM 11076 C CG2 . VAL E 1 39 ? -10.878 7.589 -17.091 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 6
+ATOM 11077 H H . VAL E 1 39 ? -10.789 4.840 -17.485 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 6
+ATOM 11078 H HA . VAL E 1 39 ? -12.228 5.989 -15.254 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 6
+ATOM 11079 H HB . VAL E 1 39 ? -12.374 6.567 -18.219 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 6
+ATOM 11080 H HG11 . VAL E 1 39 ? -14.106 7.358 -16.220 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 6
+ATOM 11081 H HG12 . VAL E 1 39 ? -12.970 8.725 -16.318 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 6
+ATOM 11082 H HG13 . VAL E 1 39 ? -13.854 8.196 -17.770 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 6
+ATOM 11083 H HG21 . VAL E 1 39 ? -11.009 8.586 -16.670 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 6
+ATOM 11084 H HG22 . VAL E 1 39 ? -10.218 7.007 -16.448 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 6
+ATOM 11085 H HG23 . VAL E 1 39 ? -10.439 7.669 -18.085 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 6
+ATOM 11086 N N . VAL E 1 40 ? -14.502 5.049 -15.558 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 6
+ATOM 11087 C CA . VAL E 1 40 ? -15.769 4.339 -15.606 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 6
+ATOM 11088 C C . VAL E 1 40 ? -16.879 5.250 -15.077 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 6
+ATOM 11089 O O . VAL E 1 40 ? -17.254 5.164 -13.909 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 6
+ATOM 11090 C CB . VAL E 1 40 ? -15.659 3.021 -14.836 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 6
+ATOM 11091 C CG1 . VAL E 1 40 ? -17.024 2.587 -14.296 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 6
+ATOM 11092 C CG2 . VAL E 1 40 ? -15.041 1.927 -15.707 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 6
+ATOM 11093 H H . VAL E 1 40 ? -14.405 5.690 -14.797 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 6
+ATOM 11094 H HA . VAL E 1 40 ? -15.975 4.104 -16.650 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 6
+ATOM 11095 H HB . VAL E 1 40 ? -14.999 3.184 -13.984 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 6
+ATOM 11096 H HG11 . VAL E 1 40 ? -17.193 3.048 -13.323 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 6
+ATOM 11097 H HG12 . VAL E 1 40 ? -17.805 2.901 -14.989 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 6
+ATOM 11098 H HG13 . VAL E 1 40 ? -17.045 1.502 -14.192 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 6
+ATOM 11099 H HG21 . VAL E 1 40 ? -13.973 1.858 -15.501 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 6
+ATOM 11100 H HG22 . VAL E 1 40 ? -15.516 0.972 -15.483 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 6
+ATOM 11101 H HG23 . VAL E 1 40 ? -15.192 2.170 -16.759 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 6
+ATOM 11102 N N . ILE E 1 41 ? -17.373 6.102 -15.963 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 6
+ATOM 11103 C CA . ILE E 1 41 ? -18.433 7.028 -15.601 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 6
+ATOM 11104 C C . ILE E 1 41 ? -19.744 6.572 -16.243 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 6
+ATOM 11105 O O . ILE E 1 41 ? -19.965 6.790 -17.434 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 6
+ATOM 11106 C CB . ILE E 1 41 ? -18.037 8.461 -15.960 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 6
+ATOM 11107 C CG1 . ILE E 1 41 ? -16.541 8.690 -15.738 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 6
+ATOM 11108 C CG2 . ILE E 1 41 ? -18.892 9.474 -15.196 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 6
+ATOM 11109 C CD1 . ILE E 1 41 ? -16.171 10.157 -15.964 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 6
+ATOM 11110 H H . ILE E 1 41 ? -17.062 6.165 -16.912 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 6
+ATOM 11111 H HA . ILE E 1 41 ? -18.546 6.987 -14.518 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 6
+ATOM 11112 H HB . ILE E 1 41 ? -18.232 8.613 -17.022 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 6
+ATOM 11113 H HG12 . ILE E 1 41 ? -16.272 8.395 -14.723 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 6
+ATOM 11114 H HG13 . ILE E 1 41 ? -15.968 8.058 -16.416 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 6
+ATOM 11115 H HG21 . ILE E 1 41 ? -18.245 10.129 -14.613 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 6
+ATOM 11116 H HG22 . ILE E 1 41 ? -19.470 10.069 -15.902 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 6
+ATOM 11117 H HG23 . ILE E 1 41 ? -19.570 8.945 -14.526 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 6
+ATOM 11118 H HD11 . ILE E 1 41 ? -15.124 10.226 -16.259 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 6
+ATOM 11119 H HD12 . ILE E 1 41 ? -16.799 10.573 -16.752 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 6
+ATOM 11120 H HD13 . ILE E 1 41 ? -16.326 10.717 -15.042 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 6
+ATOM 11121 N N . ALA E 1 42 ? -20.580 5.946 -15.427 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 6
+ATOM 11122 C CA . ALA E 1 42 ? -21.864 5.458 -15.901 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 6
+ATOM 11123 C C . ALA E 1 42 ? -22.978 6.352 -15.353 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 6
+ATOM 11124 O O . ALA E 1 42 ? -23.139 6.476 -14.140 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 6
+ATOM 11125 C CB . ALA E 1 42 ? -22.036 3.994 -15.491 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 6
+ATOM 11126 H H . ALA E 1 42 ? -20.392 5.773 -14.461 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 6
+ATOM 11127 H HA . ALA E 1 42 ? -21.861 5.520 -16.989 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 6
+ATOM 11128 H HB1 . ALA E 1 42 ? -22.372 3.943 -14.456 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 6
+ATOM 11129 H HB2 . ALA E 1 42 ? -22.775 3.521 -16.137 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 6
+ATOM 11130 H HB3 . ALA E 1 42 ? -21.082 3.475 -15.590 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 6
+ATOM 11131 N N . LEU A 1 17 ? -17.342 -5.429 -3.056 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 7
+ATOM 11132 C CA . LEU A 1 17 ? -16.118 -5.019 -3.721 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 7
+ATOM 11133 C C . LEU A 1 17 ? -14.938 -5.790 -3.126 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 7
+ATOM 11134 O O . LEU A 1 17 ? -15.104 -6.548 -2.172 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 7
+ATOM 11135 C CB . LEU A 1 17 ? -15.955 -3.499 -3.656 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 7
+ATOM 11136 C CG . LEU A 1 17 ? -15.837 -2.896 -2.255 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 7
+ATOM 11137 C CD1 . LEU A 1 17 ? -14.507 -2.163 -2.084 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 7
+ATOM 11138 C CD2 . LEU A 1 17 ? -17.033 -1.994 -1.945 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 7
+ATOM 11139 H H . LEU A 1 17 ? -17.606 -4.867 -2.272 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 7
+ATOM 11140 H HA . LEU A 1 17 ? -16.212 -5.289 -4.773 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 7
+ATOM 11141 H HB2 . LEU A 1 17 ? -15.066 -3.224 -4.224 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 7
+ATOM 11142 H HB3 . LEU A 1 17 ? -16.809 -3.041 -4.157 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 7
+ATOM 11143 H HG . LEU A 1 17 ? -15.852 -3.710 -1.530 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 7
+ATOM 11144 H HD11 . LEU A 1 17 ? -13.724 -2.882 -1.844 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 7
+ATOM 11145 H HD12 . LEU A 1 17 ? -14.255 -1.646 -3.010 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 7
+ATOM 11146 H HD13 . LEU A 1 17 ? -14.592 -1.437 -1.275 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 7
+ATOM 11147 H HD21 . LEU A 1 17 ? -16.804 -0.971 -2.244 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 7
+ATOM 11148 H HD22 . LEU A 1 17 ? -17.906 -2.346 -2.493 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 7
+ATOM 11149 H HD23 . LEU A 1 17 ? -17.241 -2.021 -0.875 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 7
+ATOM 11150 N N . VAL A 1 18 ? -13.771 -5.569 -3.713 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 7
+ATOM 11151 C CA . VAL A 1 18 ? -12.564 -6.233 -3.253 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 7
+ATOM 11152 C C . VAL A 1 18 ? -11.342 -5.426 -3.698 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 7
+ATOM 11153 O O . VAL A 1 18 ? -11.151 -5.187 -4.889 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 7
+ATOM 11154 C CB . VAL A 1 18 ? -12.538 -7.679 -3.752 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 7
+ATOM 11155 C CG1 . VAL A 1 18 ? -11.177 -8.325 -3.491 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 7
+ATOM 11156 C CG2 . VAL A 1 18 ? -13.665 -8.497 -3.118 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 7
+ATOM 11157 H H . VAL A 1 18 ? -13.644 -4.950 -4.489 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 7
+ATOM 11158 H HA . VAL A 1 18 ? -12.594 -6.252 -2.164 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 7
+ATOM 11159 H HB . VAL A 1 18 ? -12.701 -7.664 -4.830 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 7
+ATOM 11160 H HG11 . VAL A 1 18 ? -11.010 -8.402 -2.417 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 7
+ATOM 11161 H HG12 . VAL A 1 18 ? -11.156 -9.321 -3.934 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 7
+ATOM 11162 H HG13 . VAL A 1 18 ? -10.392 -7.714 -3.937 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 7
+ATOM 11163 H HG21 . VAL A 1 18 ? -14.613 -8.231 -3.584 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 7
+ATOM 11164 H HG22 . VAL A 1 18 ? -13.472 -9.559 -3.268 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 7
+ATOM 11165 H HG23 . VAL A 1 18 ? -13.712 -8.284 -2.050 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 7
+ATOM 11166 N N . PHE A 1 19 ? -10.545 -5.028 -2.716 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 7
+ATOM 11167 C CA . PHE A 1 19 ? -9.347 -4.253 -2.991 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 7
+ATOM 11168 C C . PHE A 1 19 ? -8.103 -4.954 -2.443 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 7
+ATOM 11169 O O . PHE A 1 19 ? -8.019 -5.234 -1.248 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 7
+ATOM 11170 C CB . PHE A 1 19 ? -9.514 -2.906 -2.283 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 7
+ATOM 11171 C CG . PHE A 1 19 ? -9.677 -1.719 -3.234 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 7
+ATOM 11172 C CD1 . PHE A 1 19 ? -10.800 -1.604 -3.992 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 7
+ATOM 11173 C CD2 . PHE A 1 19 ? -8.698 -0.778 -3.322 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 7
+ATOM 11174 C CE1 . PHE A 1 19 ? -10.951 -0.502 -4.875 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 7
+ATOM 11175 C CE2 . PHE A 1 19 ? -8.851 0.324 -4.204 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 7
+ATOM 11176 C CZ . PHE A 1 19 ? -9.974 0.438 -4.962 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 7
+ATOM 11177 H H . PHE A 1 19 ? -10.708 -5.226 -1.749 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 7
+ATOM 11178 H HA . PHE A 1 19 ? -9.264 -4.161 -4.074 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 7
+ATOM 11179 H HB2 . PHE A 1 19 ? -10.384 -2.956 -1.628 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 7
+ATOM 11180 H HB3 . PHE A 1 19 ? -8.646 -2.732 -1.647 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 7
+ATOM 11181 H HD1 . PHE A 1 19 ? -11.585 -2.358 -3.922 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 7
+ATOM 11182 H HD2 . PHE A 1 19 ? -7.799 -0.870 -2.714 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 7
+ATOM 11183 H HE1 . PHE A 1 19 ? -11.852 -0.410 -5.482 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 7
+ATOM 11184 H HE2 . PHE A 1 19 ? -8.066 1.077 -4.275 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 7
+ATOM 11185 H HZ . PHE A 1 19 ? -10.089 1.284 -5.640 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 7
+ATOM 11186 N N . PHE A 1 20 ? -7.167 -5.217 -3.343 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 7
+ATOM 11187 C CA . PHE A 1 20 ? -5.931 -5.880 -2.965 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 7
+ATOM 11188 C C . PHE A 1 20 ? -4.715 -5.024 -3.330 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 7
+ATOM 11189 O O . PHE A 1 20 ? -4.441 -4.800 -4.508 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 7
+ATOM 11190 C CB . PHE A 1 20 ? -5.869 -7.193 -3.748 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 7
+ATOM 11191 C CG . PHE A 1 20 ? -4.773 -8.149 -3.274 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 7
+ATOM 11192 C CD1 . PHE A 1 20 ? -3.510 -8.035 -3.767 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 7
+ATOM 11193 C CD2 . PHE A 1 20 ? -5.061 -9.114 -2.360 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 7
+ATOM 11194 C CE1 . PHE A 1 20 ? -2.493 -8.923 -3.327 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 7
+ATOM 11195 C CE2 . PHE A 1 20 ? -4.044 -10.002 -1.920 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 7
+ATOM 11196 C CZ . PHE A 1 20 ? -2.781 -9.887 -2.413 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 7
+ATOM 11197 H H . PHE A 1 20 ? -7.242 -4.985 -4.313 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 7
+ATOM 11198 H HA . PHE A 1 20 ? -5.958 -6.025 -1.885 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 7
+ATOM 11199 H HB2 . PHE A 1 20 ? -6.833 -7.695 -3.671 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 7
+ATOM 11200 H HB3 . PHE A 1 20 ? -5.709 -6.968 -4.802 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 7
+ATOM 11201 H HD1 . PHE A 1 20 ? -3.280 -7.261 -4.500 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 7
+ATOM 11202 H HD2 . PHE A 1 20 ? -6.073 -9.206 -1.965 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 7
+ATOM 11203 H HE1 . PHE A 1 20 ? -1.482 -8.831 -3.722 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 7
+ATOM 11204 H HE2 . PHE A 1 20 ? -4.275 -10.775 -1.187 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 7
+ATOM 11205 H HZ . PHE A 1 20 ? -2.001 -10.569 -2.075 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 7
+ATOM 11206 N N . ALA A 1 21 ? -4.019 -4.570 -2.298 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 7
+ATOM 11207 C CA . ALA A 1 21 ? -2.840 -3.745 -2.496 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 7
+ATOM 11208 C C . ALA A 1 21 ? -1.652 -4.378 -1.769 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 7
+ATOM 11209 O O . ALA A 1 21 ? -1.514 -4.235 -0.555 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 7
+ATOM 11210 C CB . ALA A 1 21 ? -3.127 -2.321 -2.014 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 7
+ATOM 11211 H H . ALA A 1 21 ? -4.249 -4.758 -1.343 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 7
+ATOM 11212 H HA . ALA A 1 21 ? -2.629 -3.718 -3.565 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 7
+ATOM 11213 H HB1 . ALA A 1 21 ? -3.757 -1.811 -2.743 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 7
+ATOM 11214 H HB2 . ALA A 1 21 ? -3.640 -2.359 -1.053 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 7
+ATOM 11215 H HB3 . ALA A 1 21 ? -2.188 -1.779 -1.903 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 7
+ATOM 11216 N N . GLU A 1 22 ? -0.824 -5.064 -2.543 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 7
+ATOM 11217 C CA . GLU A 1 22 ? 0.348 -5.720 -1.988 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 7
+ATOM 11218 C C . GLU A 1 22 ? 1.614 -5.233 -2.696 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 7
+ATOM 11219 O O . GLU A 1 22 ? 1.621 -5.060 -3.914 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 7
+ATOM 11220 C CB . GLU A 1 22 ? 0.220 -7.242 -2.079 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 7
+ATOM 11221 C CG . GLU A 1 22 ? 0.865 -7.920 -0.869 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 7
+ATOM 11222 C CD . GLU A 1 22 ? 2.135 -8.671 -1.273 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 7
+ATOM 11223 O OE1 . GLU A 1 22 ? 2.025 -9.526 -2.179 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 7
+ATOM 11224 O OE2 . GLU A 1 22 ? 3.187 -8.373 -0.668 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 7
+ATOM 11225 H H . GLU A 1 22 ? -0.943 -5.176 -3.529 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 7
+ATOM 11226 H HA . GLU A 1 22 ? 0.375 -5.426 -0.939 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 7
+ATOM 11227 H HB2 . GLU A 1 22 ? -0.833 -7.519 -2.138 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 7
+ATOM 11228 H HB3 . GLU A 1 22 ? 0.694 -7.596 -2.995 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 7
+ATOM 11229 H HG2 . GLU A 1 22 ? 1.105 -7.172 -0.114 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 7
+ATOM 11230 H HG3 . GLU A 1 22 ? 0.157 -8.614 -0.416 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 7
+ATOM 11231 N N . ASP A 1 23 ? 2.655 -5.025 -1.903 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 7
+ATOM 11232 C CA . ASP A 1 23 ? 3.923 -4.561 -2.439 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 7
+ATOM 11233 C C . ASP A 1 23 ? 5.068 -5.290 -1.732 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 7
+ATOM 11234 O O . ASP A 1 23 ? 5.181 -5.236 -0.509 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 7
+ATOM 11235 C CB . ASP A 1 23 ? 4.104 -3.060 -2.206 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 7
+ATOM 11236 C CG . ASP A 1 23 ? 5.498 -2.518 -2.528 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 7
+ATOM 11237 O OD1 . ASP A 1 23 ? 6.325 -3.328 -2.998 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 7
+ATOM 11238 O OD2 . ASP A 1 23 ? 5.703 -1.307 -2.298 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 7
+ATOM 11239 H H . ASP A 1 23 ? 2.641 -5.168 -0.913 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 7
+ATOM 11240 H HA . ASP A 1 23 ? 3.882 -4.783 -3.505 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 7
+ATOM 11241 H HB2 . ASP A 1 23 ? 3.373 -2.523 -2.810 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 7
+ATOM 11242 H HB3 . ASP A 1 23 ? 3.877 -2.840 -1.162 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 7
+ATOM 11243 N N . VAL A 1 24 ? 5.887 -5.955 -2.533 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 7
+ATOM 11244 C CA . VAL A 1 24 ? 7.017 -6.694 -2.000 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 7
+ATOM 11245 C C . VAL A 1 24 ? 8.293 -5.871 -2.187 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 7
+ATOM 11246 O O . VAL A 1 24 ? 8.720 -5.628 -3.315 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 7
+ATOM 11247 C CB . VAL A 1 24 ? 7.097 -8.075 -2.654 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 7
+ATOM 11248 C CG1 . VAL A 1 24 ? 5.802 -8.403 -3.399 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 7
+ATOM 11249 C CG2 . VAL A 1 24 ? 8.306 -8.172 -3.587 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 7
+ATOM 11250 H H . VAL A 1 24 ? 5.788 -5.994 -3.527 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 7
+ATOM 11251 H HA . VAL A 1 24 ? 6.844 -6.836 -0.933 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 7
+ATOM 11252 H HB . VAL A 1 24 ? 7.224 -8.814 -1.863 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 7
+ATOM 11253 H HG11 . VAL A 1 24 ? 5.736 -7.794 -4.300 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 7
+ATOM 11254 H HG12 . VAL A 1 24 ? 5.797 -9.458 -3.673 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 7
+ATOM 11255 H HG13 . VAL A 1 24 ? 4.948 -8.192 -2.755 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 7
+ATOM 11256 H HG21 . VAL A 1 24 ? 8.182 -7.472 -4.414 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 7
+ATOM 11257 H HG22 . VAL A 1 24 ? 9.212 -7.925 -3.034 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 7
+ATOM 11258 H HG23 . VAL A 1 24 ? 8.382 -9.186 -3.978 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 7
+ATOM 11259 N N . GLY A 1 25 ? 8.868 -5.464 -1.064 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 7
+ATOM 11260 C CA . GLY A 1 25 ? 10.085 -4.672 -1.090 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 7
+ATOM 11261 C C . GLY A 1 25 ? 11.245 -5.428 -0.438 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 7
+ATOM 11262 O O . GLY A 1 25 ? 11.415 -5.378 0.780 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 7
+ATOM 11263 H H . GLY A 1 25 ? 8.514 -5.666 -0.151 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 7
+ATOM 11264 H HA2 . GLY A 1 25 ? 10.342 -4.426 -2.121 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 7
+ATOM 11265 H HA3 . GLY A 1 25 ? 9.922 -3.729 -0.568 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 7
+ATOM 11266 N N . SER A 1 26 ? 12.010 -6.111 -1.276 1.00 0.00 ? ? ? ? ? ? 26 SER A N 7
+ATOM 11267 C CA . SER A 1 26 ? 13.148 -6.877 -0.796 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 7
+ATOM 11268 C C . SER A 1 26 ? 14.342 -5.949 -0.564 1.00 0.00 ? ? ? ? ? ? 26 SER A C 7
+ATOM 11269 O O . SER A 1 26 ? 14.758 -5.227 -1.469 1.00 0.00 ? ? ? ? ? ? 26 SER A O 7
+ATOM 11270 C CB . SER A 1 26 ? 13.520 -7.986 -1.781 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 7
+ATOM 11271 O OG . SER A 1 26 ? 14.602 -8.782 -1.305 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 7
+ATOM 11272 H H . SER A 1 26 ? 11.863 -6.146 -2.265 1.00 0.00 ? ? ? ? ? ? 26 SER A H 7
+ATOM 11273 H HA . SER A 1 26 ? 12.821 -7.321 0.144 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 7
+ATOM 11274 H HB2 . SER A 1 26 ? 12.653 -8.621 -1.957 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 7
+ATOM 11275 H HB3 . SER A 1 26 ? 13.791 -7.543 -2.740 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 7
+ATOM 11276 H HG . SER A 1 26 ? 15.460 -8.475 -1.716 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 7
+ATOM 11277 N N . ASN A 1 27 ? 14.863 -5.999 0.654 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 7
+ATOM 11278 C CA . ASN A 1 27 ? 16.001 -5.172 1.016 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 7
+ATOM 11279 C C . ASN A 1 27 ? 15.683 -3.709 0.702 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 7
+ATOM 11280 O O . ASN A 1 27 ? 16.108 -3.184 -0.326 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 7
+ATOM 11281 C CB . ASN A 1 27 ? 17.245 -5.567 0.218 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 7
+ATOM 11282 C CG . ASN A 1 27 ? 18.396 -4.593 0.477 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 7
+ATOM 11283 O OD1 . ASN A 1 27 ? 19.041 -4.614 1.512 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 7
+ATOM 11284 N ND2 . ASN A 1 27 ? 18.615 -3.739 -0.519 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 7
+ATOM 11285 H H . ASN A 1 27 ? 14.519 -6.589 1.384 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 7
+ATOM 11286 H HA . ASN A 1 27 ? 16.155 -5.346 2.081 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 7
+ATOM 11287 H HB2 . ASN A 1 27 ? 17.551 -6.577 0.491 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 7
+ATOM 11288 H HB3 . ASN A 1 27 ? 17.009 -5.583 -0.846 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 7
+ATOM 11289 H HD21 . ASN A 1 27 ? 18.049 -3.774 -1.342 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 7
+ATOM 11290 H HD22 . ASN A 1 27 ? 19.347 -3.061 -0.444 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 7
+ATOM 11291 N N . LYS A 1 28 ? 14.939 -3.091 1.607 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 7
+ATOM 11292 C CA . LYS A 1 28 ? 14.560 -1.698 1.440 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 7
+ATOM 11293 C C . LYS A 1 28 ? 15.713 -0.801 1.897 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 7
+ATOM 11294 O O . LYS A 1 28 ? 16.764 -1.294 2.302 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 7
+ATOM 11295 C CB . LYS A 1 28 ? 13.238 -1.413 2.156 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 7
+ATOM 11296 C CG . LYS A 1 28 ? 12.087 -1.295 1.155 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 7
+ATOM 11297 C CD . LYS A 1 28 ? 11.043 -0.283 1.636 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 7
+ATOM 11298 C CE . LYS A 1 28 ? 9.882 -0.987 2.341 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 7
+ATOM 11299 N NZ . LYS A 1 28 ? 9.441 -0.205 3.517 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 7
+ATOM 11300 H H . LYS A 1 28 ? 14.598 -3.524 2.441 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 7
+ATOM 11301 H HA . LYS A 1 28 ? 14.393 -1.530 0.376 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 7
+ATOM 11302 H HB2 . LYS A 1 28 ? 13.026 -2.211 2.868 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 7
+ATOM 11303 H HB3 . LYS A 1 28 ? 13.322 -0.490 2.729 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 7
+ATOM 11304 H HG2 . LYS A 1 28 ? 12.474 -0.989 0.184 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 7
+ATOM 11305 H HG3 . LYS A 1 28 ? 11.618 -2.269 1.019 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 7
+ATOM 11306 H HD2 . LYS A 1 28 ? 11.509 0.429 2.317 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 7
+ATOM 11307 H HD3 . LYS A 1 28 ? 10.667 0.287 0.787 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 7
+ATOM 11308 H HE2 . LYS A 1 28 ? 9.050 -1.112 1.647 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 7
+ATOM 11309 H HE3 . LYS A 1 28 ? 10.189 -1.984 2.654 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 7
+ATOM 11310 H HZ1 . LYS A 1 28 ? 9.359 -0.810 4.309 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 7
+ATOM 11311 H HZ2 . LYS A 1 28 ? 10.111 0.512 3.712 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 7
+ATOM 11312 H HZ3 . LYS A 1 28 ? 8.552 0.213 3.325 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 7
+ATOM 11313 N N . GLY A 1 29 ? 15.475 0.500 1.816 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 7
+ATOM 11314 C CA . GLY A 1 29 ? 16.481 1.470 2.216 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 7
+ATOM 11315 C C . GLY A 1 29 ? 16.322 2.777 1.438 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 7
+ATOM 11316 O O . GLY A 1 29 ? 15.433 2.898 0.595 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 7
+ATOM 11317 H H . GLY A 1 29 ? 14.617 0.893 1.485 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 7
+ATOM 11318 H HA2 . GLY A 1 29 ? 16.397 1.666 3.285 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 7
+ATOM 11319 H HA3 . GLY A 1 29 ? 17.476 1.059 2.044 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 7
+ATOM 11320 N N . ALA A 1 30 ? 17.194 3.724 1.749 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 7
+ATOM 11321 C CA . ALA A 1 30 ? 17.163 5.018 1.089 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 7
+ATOM 11322 C C . ALA A 1 30 ? 15.863 5.739 1.455 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 7
+ATOM 11323 O O . ALA A 1 30 ? 15.172 5.345 2.393 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 7
+ATOM 11324 C CB . ALA A 1 30 ? 17.318 4.826 -0.421 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 7
+ATOM 11325 H H . ALA A 1 30 ? 17.914 3.618 2.436 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 7
+ATOM 11326 H HA . ALA A 1 30 ? 18.008 5.600 1.457 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 7
+ATOM 11327 H HB1 . ALA A 1 30 ? 17.178 3.774 -0.669 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 7
+ATOM 11328 H HB2 . ALA A 1 30 ? 16.569 5.424 -0.942 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 7
+ATOM 11329 H HB3 . ALA A 1 30 ? 18.315 5.142 -0.727 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 7
+ATOM 11330 N N . ILE A 1 31 ? 15.569 6.784 0.694 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 7
+ATOM 11331 C CA . ILE A 1 31 ? 14.366 7.564 0.926 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 7
+ATOM 11332 C C . ILE A 1 31 ? 13.148 6.768 0.453 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 7
+ATOM 11333 O O . ILE A 1 31 ? 12.877 6.696 -0.745 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 7
+ATOM 11334 C CB . ILE A 1 31 ? 14.488 8.944 0.278 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 7
+ATOM 11335 C CG1 . ILE A 1 31 ? 13.196 9.746 0.446 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 7
+ATOM 11336 C CG2 . ILE A 1 31 ? 14.902 8.825 -1.190 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 7
+ATOM 11337 C CD1 . ILE A 1 31 ? 13.311 11.118 -0.221 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 7
+ATOM 11338 H H . ILE A 1 31 ? 16.137 7.098 -0.067 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 7
+ATOM 11339 H HA . ILE A 1 31 ? 14.280 7.719 2.002 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 7
+ATOM 11340 H HB . ILE A 1 31 ? 15.277 9.494 0.791 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 7
+ATOM 11341 H HG12 . ILE A 1 31 ? 12.363 9.194 0.010 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 7
+ATOM 11342 H HG13 . ILE A 1 31 ? 12.977 9.870 1.506 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 7
+ATOM 11343 H HG21 . ILE A 1 31 ? 14.165 9.325 -1.817 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 7
+ATOM 11344 H HG22 . ILE A 1 31 ? 15.877 9.294 -1.332 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 7
+ATOM 11345 H HG23 . ILE A 1 31 ? 14.961 7.773 -1.467 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 7
+ATOM 11346 H HD11 . ILE A 1 31 ? 12.382 11.346 -0.744 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 7
+ATOM 11347 H HD12 . ILE A 1 31 ? 13.495 11.877 0.540 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 7
+ATOM 11348 H HD13 . ILE A 1 31 ? 14.137 11.108 -0.932 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 7
+ATOM 11349 N N . ILE A 1 32 ? 12.448 6.189 1.417 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 7
+ATOM 11350 C CA . ILE A 1 32 ? 11.266 5.401 1.113 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 7
+ATOM 11351 C C . ILE A 1 32 ? 10.023 6.286 1.232 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 7
+ATOM 11352 O O . ILE A 1 32 ? 9.948 7.140 2.115 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 7
+ATOM 11353 C CB . ILE A 1 32 ? 11.215 4.150 1.992 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 7
+ATOM 11354 C CG1 . ILE A 1 32 ? 12.483 3.310 1.824 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 7
+ATOM 11355 C CG2 . ILE A 1 32 ? 9.950 3.336 1.717 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 7
+ATOM 11356 C CD1 . ILE A 1 32 ? 12.550 2.691 0.427 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 7
+ATOM 11357 H H . ILE A 1 32 ? 12.675 6.252 2.389 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 7
+ATOM 11358 H HA . ILE A 1 32 ? 11.352 5.065 0.080 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 7
+ATOM 11359 H HB . ILE A 1 32 ? 11.174 4.466 3.035 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 7
+ATOM 11360 H HG12 . ILE A 1 32 ? 13.362 3.935 1.992 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 7
+ATOM 11361 H HG13 . ILE A 1 32 ? 12.505 2.522 2.577 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 7
+ATOM 11362 H HG21 . ILE A 1 32 ? 9.651 3.469 0.677 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 7
+ATOM 11363 H HG22 . ILE A 1 32 ? 10.146 2.281 1.906 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 7
+ATOM 11364 H HG23 . ILE A 1 32 ? 9.148 3.679 2.371 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 7
+ATOM 11365 H HD11 . ILE A 1 32 ? 13.055 1.727 0.481 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 7
+ATOM 11366 H HD12 . ILE A 1 32 ? 11.540 2.551 0.043 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 7
+ATOM 11367 H HD13 . ILE A 1 32 ? 13.102 3.354 -0.238 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 7
+ATOM 11368 N N . GLY A 1 33 ? 9.080 6.052 0.331 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 7
+ATOM 11369 C CA . GLY A 1 33 ? 7.845 6.818 0.324 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 7
+ATOM 11370 C C . GLY A 1 33 ? 6.644 5.916 0.037 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 7
+ATOM 11371 O O . GLY A 1 33 ? 6.057 5.981 -1.043 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 7
+ATOM 11372 H H . GLY A 1 33 ? 9.151 5.356 -0.383 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 7
+ATOM 11373 H HA2 . GLY A 1 33 ? 7.714 7.311 1.287 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 7
+ATOM 11374 H HA3 . GLY A 1 33 ? 7.905 7.602 -0.430 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 7
+ATOM 11375 N N . LEU A 1 34 ? 6.311 5.096 1.023 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 7
+ATOM 11376 C CA . LEU A 1 34 ? 5.189 4.182 0.890 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 7
+ATOM 11377 C C . LEU A 1 34 ? 3.958 4.792 1.563 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 7
+ATOM 11378 O O . LEU A 1 34 ? 3.691 4.526 2.734 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 7
+ATOM 11379 C CB . LEU A 1 34 ? 5.559 2.797 1.425 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 7
+ATOM 11380 C CG . LEU A 1 34 ? 5.299 1.622 0.481 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 7
+ATOM 11381 C CD1 . LEU A 1 34 ? 3.958 1.780 -0.235 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 7
+ATOM 11382 C CD2 . LEU A 1 34 ? 6.457 1.444 -0.504 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 7
+ATOM 11383 H H . LEU A 1 34 ? 6.792 5.049 1.898 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 7
+ATOM 11384 H HA . LEU A 1 34 ? 4.981 4.071 -0.174 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 7
+ATOM 11385 H HB2 . LEU A 1 34 ? 6.618 2.801 1.686 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 7
+ATOM 11386 H HB3 . LEU A 1 34 ? 5.005 2.626 2.348 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 7
+ATOM 11387 H HG . LEU A 1 34 ? 5.241 0.711 1.077 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 7
+ATOM 11388 H HD11 . LEU A 1 34 ? 4.130 1.949 -1.298 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 7
+ATOM 11389 H HD12 . LEU A 1 34 ? 3.367 0.874 -0.103 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 7
+ATOM 11390 H HD13 . LEU A 1 34 ? 3.419 2.629 0.185 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 7
+ATOM 11391 H HD21 . LEU A 1 34 ? 7.023 0.550 -0.242 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 7
+ATOM 11392 H HD22 . LEU A 1 34 ? 6.061 1.340 -1.514 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 7
+ATOM 11393 H HD23 . LEU A 1 34 ? 7.111 2.315 -0.457 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 7
+ATOM 11394 N N . MET A 1 35 ? 3.241 5.598 0.794 1.00 0.00 ? ? ? ? ? ? 35 MET A N 7
+ATOM 11395 C CA . MET A 1 35 ? 2.045 6.248 1.301 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 7
+ATOM 11396 C C . MET A 1 35 ? 0.806 5.384 1.057 1.00 0.00 ? ? ? ? ? ? 35 MET A C 7
+ATOM 11397 O O . MET A 1 35 ? 0.304 5.314 -0.064 1.00 0.00 ? ? ? ? ? ? 35 MET A O 7
+ATOM 11398 C CB . MET A 1 35 ? 1.867 7.602 0.610 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 7
+ATOM 11399 C CG . MET A 1 35 ? 2.891 8.617 1.122 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 7
+ATOM 11400 S SD . MET A 1 35 ? 2.518 10.239 0.476 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 7
+ATOM 11401 C CE . MET A 1 35 ? 2.441 11.168 1.998 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 7
+ATOM 11402 H H . MET A 1 35 ? 3.466 5.809 -0.158 1.00 0.00 ? ? ? ? ? ? 35 MET A H 7
+ATOM 11403 H HA . MET A 1 35 ? 2.208 6.367 2.372 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 7
+ATOM 11404 H HB2 . MET A 1 35 ? 1.977 7.481 -0.468 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 7
+ATOM 11405 H HB3 . MET A 1 35 ? 0.859 7.975 0.788 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 7
+ATOM 11406 H HG2 . MET A 1 35 ? 2.880 8.639 2.212 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 7
+ATOM 11407 H HG3 . MET A 1 35 ? 3.895 8.318 0.819 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 7
+ATOM 11408 H HE1 . MET A 1 35 ? 1.983 12.139 1.808 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 7
+ATOM 11409 H HE2 . MET A 1 35 ? 1.844 10.621 2.727 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 7
+ATOM 11410 H HE3 . MET A 1 35 ? 3.447 11.312 2.388 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 7
+ATOM 11411 N N . VAL A 1 36 ? 0.349 4.747 2.124 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 7
+ATOM 11412 C CA . VAL A 1 36 ? -0.822 3.890 2.040 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 7
+ATOM 11413 C C . VAL A 1 36 ? -2.011 4.591 2.700 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 7
+ATOM 11414 O O . VAL A 1 36 ? -1.933 4.992 3.860 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 7
+ATOM 11415 C CB . VAL A 1 36 ? -0.516 2.523 2.658 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 7
+ATOM 11416 C CG1 . VAL A 1 36 ? -1.777 1.661 2.733 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 7
+ATOM 11417 C CG2 . VAL A 1 36 ? 0.593 1.808 1.884 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 7
+ATOM 11418 H H . VAL A 1 36 ? 0.763 4.808 3.033 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 7
+ATOM 11419 H HA . VAL A 1 36 ? -1.044 3.740 0.984 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 7
+ATOM 11420 H HB . VAL A 1 36 ? -0.161 2.688 3.675 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 7
+ATOM 11421 H HG11 . VAL A 1 36 ? -2.426 2.034 3.525 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 7
+ATOM 11422 H HG12 . VAL A 1 36 ? -2.304 1.705 1.780 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 7
+ATOM 11423 H HG13 . VAL A 1 36 ? -1.499 0.629 2.947 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 7
+ATOM 11424 H HG21 . VAL A 1 36 ? 0.980 0.984 2.483 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 7
+ATOM 11425 H HG22 . VAL A 1 36 ? 0.191 1.419 0.949 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 7
+ATOM 11426 H HG23 . VAL A 1 36 ? 1.398 2.511 1.668 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 7
+ATOM 11427 N N . GLY A 1 37 ? -3.083 4.718 1.932 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 7
+ATOM 11428 C CA . GLY A 1 37 ? -4.286 5.364 2.427 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 7
+ATOM 11429 C C . GLY A 1 37 ? -5.537 4.591 2.005 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 7
+ATOM 11430 O O . GLY A 1 37 ? -5.749 4.346 0.818 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 7
+ATOM 11431 H H . GLY A 1 37 ? -3.137 4.389 0.989 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 7
+ATOM 11432 H HA2 . GLY A 1 37 ? -4.247 5.431 3.514 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 7
+ATOM 11433 H HA3 . GLY A 1 37 ? -4.339 6.384 2.046 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 7
+ATOM 11434 N N . GLY A 1 38 ? -6.333 4.226 3.000 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 7
+ATOM 11435 C CA . GLY A 1 38 ? -7.557 3.486 2.747 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 7
+ATOM 11436 C C . GLY A 1 38 ? -8.778 4.255 3.255 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 7
+ATOM 11437 O O . GLY A 1 38 ? -8.830 4.645 4.421 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 7
+ATOM 11438 H H . GLY A 1 38 ? -6.153 4.429 3.963 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 7
+ATOM 11439 H HA2 . GLY A 1 38 ? -7.660 3.300 1.678 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 7
+ATOM 11440 H HA3 . GLY A 1 38 ? -7.505 2.513 3.236 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 7
+ATOM 11441 N N . VAL A 1 39 ? -9.731 4.449 2.356 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 7
+ATOM 11442 C CA . VAL A 1 39 ? -10.950 5.164 2.699 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 7
+ATOM 11443 C C . VAL A 1 39 ? -12.160 4.371 2.200 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 7
+ATOM 11444 O O . VAL A 1 39 ? -12.566 4.514 1.049 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 7
+ATOM 11445 C CB . VAL A 1 39 ? -10.896 6.587 2.140 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 7
+ATOM 11446 C CG1 . VAL A 1 39 ? -12.229 7.307 2.344 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 7
+ATOM 11447 C CG2 . VAL A 1 39 ? -9.745 7.378 2.765 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 7
+ATOM 11448 H H . VAL A 1 39 ? -9.682 4.128 1.411 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 7
+ATOM 11449 H HA . VAL A 1 39 ? -10.997 5.230 3.786 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 7
+ATOM 11450 H HB . VAL A 1 39 ? -10.712 6.519 1.068 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 7
+ATOM 11451 H HG11 . VAL A 1 39 ? -12.156 8.325 1.962 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 7
+ATOM 11452 H HG12 . VAL A 1 39 ? -13.016 6.775 1.808 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 7
+ATOM 11453 H HG13 . VAL A 1 39 ? -12.469 7.335 3.407 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 7
+ATOM 11454 H HG21 . VAL A 1 39 ? -9.674 7.141 3.827 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 7
+ATOM 11455 H HG22 . VAL A 1 39 ? -8.809 7.112 2.271 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 7
+ATOM 11456 H HG23 . VAL A 1 39 ? -9.929 8.446 2.643 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 7
+ATOM 11457 N N . VAL A 1 40 ? -12.700 3.553 3.092 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 7
+ATOM 11458 C CA . VAL A 1 40 ? -13.854 2.738 2.756 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 7
+ATOM 11459 C C . VAL A 1 40 ? -15.050 3.186 3.597 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 7
+ATOM 11460 O O . VAL A 1 40 ? -14.970 3.232 4.824 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 7
+ATOM 11461 C CB . VAL A 1 40 ? -13.519 1.256 2.936 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 7
+ATOM 11462 C CG1 . VAL A 1 40 ? -14.759 0.384 2.730 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 7
+ATOM 11463 C CG2 . VAL A 1 40 ? -12.387 0.832 1.997 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 7
+ATOM 11464 H H . VAL A 1 40 ? -12.361 3.443 4.026 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 7
+ATOM 11465 H HA . VAL A 1 40 ? -14.082 2.907 1.704 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 7
+ATOM 11466 H HB . VAL A 1 40 ? -13.175 1.112 3.960 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 7
+ATOM 11467 H HG11 . VAL A 1 40 ? -15.167 0.098 3.700 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 7
+ATOM 11468 H HG12 . VAL A 1 40 ? -15.509 0.945 2.172 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 7
+ATOM 11469 H HG13 . VAL A 1 40 ? -14.484 -0.512 2.173 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 7
+ATOM 11470 H HG21 . VAL A 1 40 ? -12.738 0.031 1.346 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 7
+ATOM 11471 H HG22 . VAL A 1 40 ? -12.080 1.684 1.391 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 7
+ATOM 11472 H HG23 . VAL A 1 40 ? -11.540 0.479 2.584 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 7
+ATOM 11473 N N . ILE A 1 41 ? -16.135 3.505 2.904 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 7
+ATOM 11474 C CA . ILE A 1 41 ? -17.347 3.948 3.571 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 7
+ATOM 11475 C C . ILE A 1 41 ? -18.547 3.207 2.982 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 7
+ATOM 11476 O O . ILE A 1 41 ? -19.118 3.639 1.982 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 7
+ATOM 11477 C CB . ILE A 1 41 ? -17.469 5.472 3.503 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 7
+ATOM 11478 C CG1 . ILE A 1 41 ? -16.417 6.147 4.384 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 7
+ATOM 11479 C CG2 . ILE A 1 41 ? -18.887 5.924 3.857 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 7
+ATOM 11480 C CD1 . ILE A 1 41 ? -16.098 7.555 3.876 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 7
+ATOM 11481 H H . ILE A 1 41 ? -16.191 3.465 1.906 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 7
+ATOM 11482 H HA . ILE A 1 41 ? -17.257 3.679 4.624 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 7
+ATOM 11483 H HB . ILE A 1 41 ? -17.278 5.784 2.476 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 7
+ATOM 11484 H HG12 . ILE A 1 41 ? -16.775 6.200 5.411 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 7
+ATOM 11485 H HG13 . ILE A 1 41 ? -15.507 5.547 4.394 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 7
+ATOM 11486 H HG21 . ILE A 1 41 ? -18.856 6.936 4.259 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 7
+ATOM 11487 H HG22 . ILE A 1 41 ? -19.508 5.907 2.961 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 7
+ATOM 11488 H HG23 . ILE A 1 41 ? -19.308 5.249 4.603 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 7
+ATOM 11489 H HD11 . ILE A 1 41 ? -15.378 7.493 3.060 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 7
+ATOM 11490 H HD12 . ILE A 1 41 ? -17.014 8.028 3.519 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 7
+ATOM 11491 H HD13 . ILE A 1 41 ? -15.677 8.148 4.688 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 7
+ATOM 11492 N N . ALA A 1 42 ? -18.896 2.104 3.627 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 7
+ATOM 11493 C CA . ALA A 1 42 ? -20.020 1.298 3.180 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 7
+ATOM 11494 C C . ALA A 1 42 ? -20.729 0.699 4.396 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 7
+ATOM 11495 O O . ALA A 1 42 ? -20.540 -0.475 4.713 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 7
+ATOM 11496 C CB . ALA A 1 42 ? -19.524 0.227 2.207 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 7
+ATOM 11497 H H . ALA A 1 42 ? -18.427 1.759 4.441 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 7
+ATOM 11498 H HA . ALA A 1 42 ? -20.712 1.957 2.654 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 7
+ATOM 11499 H HB1 . ALA A 1 42 ? -19.867 0.464 1.200 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 7
+ATOM 11500 H HB2 . ALA A 1 42 ? -18.435 0.197 2.223 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 7
+ATOM 11501 H HB3 . ALA A 1 42 ? -19.918 -0.745 2.505 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 7
+ATOM 11502 N N . LEU B 1 17 ? -17.365 -5.638 -8.066 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 7
+ATOM 11503 C CA . LEU B 1 17 ? -16.184 -4.934 -8.534 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 7
+ATOM 11504 C C . LEU B 1 17 ? -14.958 -5.443 -7.774 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 7
+ATOM 11505 O O . LEU B 1 17 ? -15.026 -5.690 -6.571 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 7
+ATOM 11506 C CB . LEU B 1 17 ? -16.385 -3.421 -8.433 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 7
+ATOM 11507 C CG . LEU B 1 17 ? -16.309 -2.827 -7.025 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 7
+ATOM 11508 C CD1 . LEU B 1 17 ? -14.856 -2.622 -6.595 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 7
+ATOM 11509 C CD2 . LEU B 1 17 ? -17.123 -1.535 -6.930 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 7
+ATOM 11510 H H . LEU B 1 17 ? -18.026 -5.072 -7.573 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 7
+ATOM 11511 H HA . LEU B 1 17 ? -16.059 -5.173 -9.591 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 7
+ATOM 11512 H HB2 . LEU B 1 17 ? -15.635 -2.932 -9.053 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 7
+ATOM 11513 H HB3 . LEU B 1 17 ? -17.359 -3.175 -8.857 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 7
+ATOM 11514 H HG . LEU B 1 17 ? -16.753 -3.539 -6.329 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 7
+ATOM 11515 H HD11 . LEU B 1 17 ? -14.420 -3.581 -6.318 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 7
+ATOM 11516 H HD12 . LEU B 1 17 ? -14.290 -2.190 -7.421 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 7
+ATOM 11517 H HD13 . LEU B 1 17 ? -14.821 -1.947 -5.740 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 7
+ATOM 11518 H HD21 . LEU B 1 17 ? -17.181 -1.068 -7.913 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 7
+ATOM 11519 H HD22 . LEU B 1 17 ? -18.128 -1.764 -6.577 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 7
+ATOM 11520 H HD23 . LEU B 1 17 ? -16.640 -0.852 -6.231 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 7
+ATOM 11521 N N . VAL B 1 18 ? -13.863 -5.586 -8.508 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 7
+ATOM 11522 C CA . VAL B 1 18 ? -12.623 -6.061 -7.918 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 7
+ATOM 11523 C C . VAL B 1 18 ? -11.481 -5.126 -8.320 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 7
+ATOM 11524 O O . VAL B 1 18 ? -11.464 -4.604 -9.434 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 7
+ATOM 11525 C CB . VAL B 1 18 ? -12.375 -7.516 -8.321 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 7
+ATOM 11526 C CG1 . VAL B 1 18 ? -10.955 -7.952 -7.955 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 7
+ATOM 11527 C CG2 . VAL B 1 18 ? -13.415 -8.444 -7.690 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 7
+ATOM 11528 H H . VAL B 1 18 ? -13.816 -5.383 -9.486 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 7
+ATOM 11529 H HA . VAL B 1 18 ? -12.741 -6.026 -6.834 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 7
+ATOM 11530 H HB . VAL B 1 18 ? -12.479 -7.585 -9.404 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 7
+ATOM 11531 H HG11 . VAL B 1 18 ? -10.873 -8.049 -6.872 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 7
+ATOM 11532 H HG12 . VAL B 1 18 ? -10.738 -8.912 -8.423 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 7
+ATOM 11533 H HG13 . VAL B 1 18 ? -10.243 -7.206 -8.308 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 7
+ATOM 11534 H HG21 . VAL B 1 18 ? -14.153 -7.850 -7.150 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 7
+ATOM 11535 H HG22 . VAL B 1 18 ? -13.913 -9.018 -8.472 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 7
+ATOM 11536 H HG23 . VAL B 1 18 ? -12.920 -9.126 -6.997 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 7
+ATOM 11537 N N . PHE B 1 19 ? -10.554 -4.943 -7.391 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 7
+ATOM 11538 C CA . PHE B 1 19 ? -9.410 -4.080 -7.635 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 7
+ATOM 11539 C C . PHE B 1 19 ? -8.125 -4.708 -7.094 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 7
+ATOM 11540 O O . PHE B 1 19 ? -7.851 -4.638 -5.896 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 7
+ATOM 11541 C CB . PHE B 1 19 ? -9.674 -2.768 -6.894 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 7
+ATOM 11542 C CG . PHE B 1 19 ? -9.293 -1.517 -7.690 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 7
+ATOM 11543 C CD1 . PHE B 1 19 ? -7.983 -1.202 -7.876 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 7
+ATOM 11544 C CD2 . PHE B 1 19 ? -10.266 -0.720 -8.209 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 7
+ATOM 11545 C CE1 . PHE B 1 19 ? -7.630 -0.042 -8.614 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 7
+ATOM 11546 C CE2 . PHE B 1 19 ? -9.911 0.441 -8.947 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 7
+ATOM 11547 C CZ . PHE B 1 19 ? -8.601 0.755 -9.134 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 7
+ATOM 11548 H H . PHE B 1 19 ? -10.575 -5.371 -6.488 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 7
+ATOM 11549 H HA . PHE B 1 19 ? -9.325 -3.954 -8.714 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 7
+ATOM 11550 H HB2 . PHE B 1 19 ? -10.733 -2.714 -6.637 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 7
+ATOM 11551 H HB3 . PHE B 1 19 ? -9.117 -2.773 -5.957 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 7
+ATOM 11552 H HD1 . PHE B 1 19 ? -7.205 -1.841 -7.459 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 7
+ATOM 11553 H HD2 . PHE B 1 19 ? -11.316 -0.972 -8.060 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 7
+ATOM 11554 H HE1 . PHE B 1 19 ? -6.580 0.210 -8.764 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 7
+ATOM 11555 H HE2 . PHE B 1 19 ? -10.691 1.080 -9.364 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 7
+ATOM 11556 H HZ . PHE B 1 19 ? -8.330 1.646 -9.700 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 7
+ATOM 11557 N N . PHE B 1 20 ? -7.368 -5.307 -8.002 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 7
+ATOM 11558 C CA . PHE B 1 20 ? -6.117 -5.946 -7.630 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 7
+ATOM 11559 C C . PHE B 1 20 ? -4.921 -5.064 -7.992 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 7
+ATOM 11560 O O . PHE B 1 20 ? -4.837 -4.552 -9.108 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 7
+ATOM 11561 C CB . PHE B 1 20 ? -6.030 -7.253 -8.423 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 7
+ATOM 11562 C CG . PHE B 1 20 ? -5.096 -8.294 -7.804 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 7
+ATOM 11563 C CD1 . PHE B 1 20 ? -3.757 -8.227 -8.031 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 7
+ATOM 11564 C CD2 . PHE B 1 20 ? -5.605 -9.288 -7.028 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 7
+ATOM 11565 C CE1 . PHE B 1 20 ? -2.890 -9.194 -7.457 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 7
+ATOM 11566 C CE2 . PHE B 1 20 ? -4.738 -10.255 -6.453 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 7
+ATOM 11567 C CZ . PHE B 1 20 ? -3.399 -10.188 -6.680 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 7
+ATOM 11568 H H . PHE B 1 20 ? -7.597 -5.359 -8.974 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 7
+ATOM 11569 H HA . PHE B 1 20 ? -6.141 -6.100 -6.552 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 7
+ATOM 11570 H HB2 . PHE B 1 20 ? -7.030 -7.680 -8.509 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 7
+ATOM 11571 H HB3 . PHE B 1 20 ? -5.690 -7.030 -9.434 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 7
+ATOM 11572 H HD1 . PHE B 1 20 ? -3.349 -7.430 -8.653 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 7
+ATOM 11573 H HD2 . PHE B 1 20 ? -6.678 -9.342 -6.846 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 7
+ATOM 11574 H HE1 . PHE B 1 20 ? -1.817 -9.140 -7.638 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 7
+ATOM 11575 H HE2 . PHE B 1 20 ? -5.146 -11.052 -5.831 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 7
+ATOM 11576 H HZ . PHE B 1 20 ? -2.734 -10.930 -6.239 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 7
+ATOM 11577 N N . ALA B 1 21 ? -4.025 -4.912 -7.028 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 7
+ATOM 11578 C CA . ALA B 1 21 ? -2.838 -4.099 -7.231 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 7
+ATOM 11579 C C . ALA B 1 21 ? -1.646 -4.765 -6.540 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 7
+ATOM 11580 O O . ALA B 1 21 ? -1.660 -4.967 -5.327 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 7
+ATOM 11581 C CB . ALA B 1 21 ? -3.094 -2.682 -6.715 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 7
+ATOM 11582 H H . ALA B 1 21 ? -4.101 -5.331 -6.123 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 7
+ATOM 11583 H HA . ALA B 1 21 ? -2.647 -4.053 -8.303 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 7
+ATOM 11584 H HB1 . ALA B 1 21 ? -3.468 -2.730 -5.692 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 7
+ATOM 11585 H HB2 . ALA B 1 21 ? -2.164 -2.114 -6.736 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 7
+ATOM 11586 H HB3 . ALA B 1 21 ? -3.833 -2.192 -7.349 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 7
+ATOM 11587 N N . GLU B 1 22 ? -0.642 -5.087 -7.343 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 7
+ATOM 11588 C CA . GLU B 1 22 ? 0.556 -5.725 -6.824 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 7
+ATOM 11589 C C . GLU B 1 22 ? 1.805 -5.087 -7.435 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 7
+ATOM 11590 O O . GLU B 1 22 ? 1.867 -4.870 -8.644 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 7
+ATOM 11591 C CB . GLU B 1 22 ? 0.529 -7.233 -7.082 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 7
+ATOM 11592 C CG . GLU B 1 22 ? 0.755 -8.015 -5.786 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 7
+ATOM 11593 C CD . GLU B 1 22 ? 1.749 -9.159 -6.003 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 7
+ATOM 11594 O OE1 . GLU B 1 22 ? 1.325 -10.174 -6.596 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 7
+ATOM 11595 O OE2 . GLU B 1 22 ? 2.909 -8.992 -5.569 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 7
+ATOM 11596 H H . GLU B 1 22 ? -0.638 -4.919 -8.329 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 7
+ATOM 11597 H HA . GLU B 1 22 ? 0.537 -5.546 -5.749 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 7
+ATOM 11598 H HB2 . GLU B 1 22 ? -0.430 -7.514 -7.517 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 7
+ATOM 11599 H HB3 . GLU B 1 22 ? 1.298 -7.495 -7.808 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 7
+ATOM 11600 H HG2 . GLU B 1 22 ? 1.131 -7.344 -5.013 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 7
+ATOM 11601 H HG3 . GLU B 1 22 ? -0.193 -8.415 -5.428 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 7
+ATOM 11602 N N . ASP B 1 23 ? 2.768 -4.804 -6.570 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 7
+ATOM 11603 C CA . ASP B 1 23 ? 4.012 -4.194 -7.010 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 7
+ATOM 11604 C C . ASP B 1 23 ? 5.189 -4.934 -6.373 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 7
+ATOM 11605 O O . ASP B 1 23 ? 5.352 -4.917 -5.153 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 7
+ATOM 11606 C CB . ASP B 1 23 ? 4.088 -2.727 -6.582 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 7
+ATOM 11607 C CG . ASP B 1 23 ? 5.455 -2.068 -6.774 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 7
+ATOM 11608 O OD1 . ASP B 1 23 ? 6.108 -2.399 -7.787 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 7
+ATOM 11609 O OD2 . ASP B 1 23 ? 5.816 -1.247 -5.904 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 7
+ATOM 11610 H H . ASP B 1 23 ? 2.710 -4.983 -5.588 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 7
+ATOM 11611 H HA . ASP B 1 23 ? 4.005 -4.280 -8.096 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 7
+ATOM 11612 H HB2 . ASP B 1 23 ? 3.346 -2.162 -7.145 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 7
+ATOM 11613 H HB3 . ASP B 1 23 ? 3.812 -2.656 -5.530 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 7
+ATOM 11614 N N . VAL B 1 24 ? 5.981 -5.567 -7.226 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 7
+ATOM 11615 C CA . VAL B 1 24 ? 7.139 -6.311 -6.762 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 7
+ATOM 11616 C C . VAL B 1 24 ? 8.394 -5.449 -6.924 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 7
+ATOM 11617 O O . VAL B 1 24 ? 8.793 -5.133 -8.044 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 7
+ATOM 11618 C CB . VAL B 1 24 ? 7.233 -7.647 -7.501 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 7
+ATOM 11619 C CG1 . VAL B 1 24 ? 8.486 -8.419 -7.082 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 7
+ATOM 11620 C CG2 . VAL B 1 24 ? 5.974 -8.486 -7.279 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 7
+ATOM 11621 H H . VAL B 1 24 ? 5.842 -5.576 -8.216 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 7
+ATOM 11622 H HA . VAL B 1 24 ? 6.993 -6.521 -5.703 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 7
+ATOM 11623 H HB . VAL B 1 24 ? 7.311 -7.436 -8.567 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 7
+ATOM 11624 H HG11 . VAL B 1 24 ? 8.873 -8.976 -7.935 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 7
+ATOM 11625 H HG12 . VAL B 1 24 ? 9.245 -7.718 -6.732 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 7
+ATOM 11626 H HG13 . VAL B 1 24 ? 8.236 -9.112 -6.279 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 7
+ATOM 11627 H HG21 . VAL B 1 24 ? 5.922 -9.270 -8.034 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 7
+ATOM 11628 H HG22 . VAL B 1 24 ? 6.007 -8.938 -6.288 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 7
+ATOM 11629 H HG23 . VAL B 1 24 ? 5.094 -7.848 -7.358 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 7
+ATOM 11630 N N . GLY B 1 25 ? 8.979 -5.091 -5.790 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 7
+ATOM 11631 C CA . GLY B 1 25 ? 10.177 -4.272 -5.792 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 7
+ATOM 11632 C C . GLY B 1 25 ? 11.351 -5.014 -5.148 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 7
+ATOM 11633 O O . GLY B 1 25 ? 11.450 -5.079 -3.924 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 7
+ATOM 11634 H H . GLY B 1 25 ? 8.646 -5.352 -4.884 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 7
+ATOM 11635 H HA2 . GLY B 1 25 ? 10.434 -3.999 -6.816 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 7
+ATOM 11636 H HA3 . GLY B 1 25 ? 9.990 -3.344 -5.253 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 7
+ATOM 11637 N N . SER B 1 26 ? 12.207 -5.555 -6.001 1.00 0.00 ? ? ? ? ? ? 26 SER B N 7
+ATOM 11638 C CA . SER B 1 26 ? 13.369 -6.290 -5.530 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 7
+ATOM 11639 C C . SER B 1 26 ? 14.543 -5.333 -5.318 1.00 0.00 ? ? ? ? ? ? 26 SER B C 7
+ATOM 11640 O O . SER B 1 26 ? 14.900 -4.573 -6.217 1.00 0.00 ? ? ? ? ? ? 26 SER B O 7
+ATOM 11641 C CB . SER B 1 26 ? 13.756 -7.396 -6.514 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 7
+ATOM 11642 O OG . SER B 1 26 ? 14.339 -8.517 -5.854 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 7
+ATOM 11643 H H . SER B 1 26 ? 12.118 -5.498 -6.995 1.00 0.00 ? ? ? ? ? ? 26 SER B H 7
+ATOM 11644 H HA . SER B 1 26 ? 13.064 -6.737 -4.584 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 7
+ATOM 11645 H HB2 . SER B 1 26 ? 12.873 -7.718 -7.064 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 7
+ATOM 11646 H HB3 . SER B 1 26 ? 14.461 -7.000 -7.245 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 7
+ATOM 11647 H HG . SER B 1 26 ? 14.855 -8.213 -5.054 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 7
+ATOM 11648 N N . ASN B 1 27 ? 15.113 -5.402 -4.123 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 7
+ATOM 11649 C CA . ASN B 1 27 ? 16.240 -4.551 -3.781 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 7
+ATOM 11650 C C . ASN B 1 27 ? 15.834 -3.084 -3.943 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 7
+ATOM 11651 O O . ASN B 1 27 ? 16.404 -2.365 -4.762 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 7
+ATOM 11652 C CB . ASN B 1 27 ? 17.431 -4.816 -4.705 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 7
+ATOM 11653 C CG . ASN B 1 27 ? 18.550 -3.802 -4.461 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 7
+ATOM 11654 O OD1 . ASN B 1 27 ? 18.466 -2.940 -3.602 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 7
+ATOM 11655 N ND2 . ASN B 1 27 ? 19.600 -3.952 -5.264 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 7
+ATOM 11656 H H . ASN B 1 27 ? 14.818 -6.023 -3.398 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 7
+ATOM 11657 H HA . ASN B 1 27 ? 16.488 -4.804 -2.750 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 7
+ATOM 11658 H HB2 . ASN B 1 27 ? 17.807 -5.825 -4.538 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 7
+ATOM 11659 H HB3 . ASN B 1 27 ? 17.108 -4.764 -5.745 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 7
+ATOM 11660 H HD21 . ASN B 1 27 ? 19.606 -4.680 -5.949 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 7
+ATOM 11661 H HD22 . ASN B 1 27 ? 20.384 -3.336 -5.182 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 7
+ATOM 11662 N N . LYS B 1 28 ? 14.850 -2.685 -3.150 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 7
+ATOM 11663 C CA . LYS B 1 28 ? 14.362 -1.317 -3.194 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 7
+ATOM 11664 C C . LYS B 1 28 ? 15.471 -0.368 -2.740 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 7
+ATOM 11665 O O . LYS B 1 28 ? 16.411 -0.784 -2.064 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 7
+ATOM 11666 C CB . LYS B 1 28 ? 13.069 -1.184 -2.386 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 7
+ATOM 11667 C CG . LYS B 1 28 ? 11.847 -1.509 -3.247 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 7
+ATOM 11668 C CD . LYS B 1 28 ? 10.559 -1.415 -2.428 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 7
+ATOM 11669 C CE . LYS B 1 28 ? 9.394 -0.929 -3.293 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 7
+ATOM 11670 N NZ . LYS B 1 28 ? 8.139 -1.613 -2.906 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 7
+ATOM 11671 H H . LYS B 1 28 ? 14.391 -3.276 -2.486 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 7
+ATOM 11672 H HA . LYS B 1 28 ? 14.116 -1.092 -4.232 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 7
+ATOM 11673 H HB2 . LYS B 1 28 ? 13.102 -1.854 -1.527 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 7
+ATOM 11674 H HB3 . LYS B 1 28 ? 12.984 -0.170 -1.995 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 7
+ATOM 11675 H HG2 . LYS B 1 28 ? 11.799 -0.820 -4.090 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 7
+ATOM 11676 H HG3 . LYS B 1 28 ? 11.946 -2.513 -3.662 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 7
+ATOM 11677 H HD2 . LYS B 1 28 ? 10.319 -2.392 -2.006 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 7
+ATOM 11678 H HD3 . LYS B 1 28 ? 10.705 -0.733 -1.591 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 7
+ATOM 11679 H HE2 . LYS B 1 28 ? 9.276 0.149 -3.182 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 7
+ATOM 11680 H HE3 . LYS B 1 28 ? 9.609 -1.119 -4.344 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 7
+ATOM 11681 H HZ1 . LYS B 1 28 ? 8.042 -1.593 -1.911 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 7
+ATOM 11682 H HZ2 . LYS B 1 28 ? 7.361 -1.146 -3.326 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 7
+ATOM 11683 H HZ3 . LYS B 1 28 ? 8.167 -2.562 -3.219 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 7
+ATOM 11684 N N . GLY B 1 29 ? 15.328 0.890 -3.131 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 7
+ATOM 11685 C CA . GLY B 1 29 ? 16.307 1.902 -2.773 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 7
+ATOM 11686 C C . GLY B 1 29 ? 16.014 3.225 -3.483 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 7
+ATOM 11687 O O . GLY B 1 29 ? 15.041 3.330 -4.230 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 7
+ATOM 11688 H H . GLY B 1 29 ? 14.561 1.220 -3.681 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 7
+ATOM 11689 H HA2 . GLY B 1 29 ? 16.299 2.055 -1.693 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 7
+ATOM 11690 H HA3 . GLY B 1 29 ? 17.306 1.556 -3.038 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 7
+ATOM 11691 N N . ALA B 1 30 ? 16.872 4.201 -3.227 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 7
+ATOM 11692 C CA . ALA B 1 30 ? 16.718 5.512 -3.833 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 7
+ATOM 11693 C C . ALA B 1 30 ? 15.352 6.087 -3.452 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 7
+ATOM 11694 O O . ALA B 1 30 ? 14.762 5.685 -2.450 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 7
+ATOM 11695 C CB . ALA B 1 30 ? 16.901 5.400 -5.347 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 7
+ATOM 11696 H H . ALA B 1 30 ? 17.661 4.106 -2.618 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 7
+ATOM 11697 H HA . ALA B 1 30 ? 17.499 6.157 -3.431 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 7
+ATOM 11698 H HB1 . ALA B 1 30 ? 17.331 6.325 -5.731 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 7
+ATOM 11699 H HB2 . ALA B 1 30 ? 17.569 4.568 -5.572 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 7
+ATOM 11700 H HB3 . ALA B 1 30 ? 15.933 5.226 -5.819 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 7
+ATOM 11701 N N . ILE B 1 31 ? 14.888 7.020 -4.271 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 7
+ATOM 11702 C CA . ILE B 1 31 ? 13.603 7.654 -4.033 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 7
+ATOM 11703 C C . ILE B 1 31 ? 12.483 6.681 -4.404 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 7
+ATOM 11704 O O . ILE B 1 31 ? 12.335 6.314 -5.569 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 7
+ATOM 11705 C CB . ILE B 1 31 ? 13.523 8.994 -4.767 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 7
+ATOM 11706 C CG1 . ILE B 1 31 ? 14.335 10.067 -4.040 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 7
+ATOM 11707 C CG2 . ILE B 1 31 ? 12.068 9.419 -4.975 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 7
+ATOM 11708 C CD1 . ILE B 1 31 ? 14.866 11.113 -5.022 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 7
+ATOM 11709 H H . ILE B 1 31 ? 15.374 7.341 -5.084 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 7
+ATOM 11710 H HA . ILE B 1 31 ? 13.536 7.867 -2.966 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 7
+ATOM 11711 H HB . ILE B 1 31 ? 13.966 8.869 -5.755 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 7
+ATOM 11712 H HG12 . ILE B 1 31 ? 13.713 10.553 -3.288 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 7
+ATOM 11713 H HG13 . ILE B 1 31 ? 15.168 9.603 -3.512 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 7
+ATOM 11714 H HG21 . ILE B 1 31 ? 12.040 10.397 -5.455 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 7
+ATOM 11715 H HG22 . ILE B 1 31 ? 11.563 8.689 -5.607 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 7
+ATOM 11716 H HG23 . ILE B 1 31 ? 11.564 9.474 -4.010 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 7
+ATOM 11717 H HD11 . ILE B 1 31 ? 14.268 11.093 -5.933 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 7
+ATOM 11718 H HD12 . ILE B 1 31 ? 14.805 12.102 -4.569 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 7
+ATOM 11719 H HD13 . ILE B 1 31 ? 15.905 10.888 -5.266 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 7
+ATOM 11720 N N . ILE B 1 32 ? 11.720 6.292 -3.393 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 7
+ATOM 11721 C CA . ILE B 1 32 ? 10.618 5.369 -3.598 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 7
+ATOM 11722 C C . ILE B 1 32 ? 9.299 6.077 -3.278 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 7
+ATOM 11723 O O . ILE B 1 32 ? 8.821 6.023 -2.146 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 7
+ATOM 11724 C CB . ILE B 1 32 ? 10.837 4.085 -2.796 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 7
+ATOM 11725 C CG1 . ILE B 1 32 ? 12.194 3.460 -3.121 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 7
+ATOM 11726 C CG2 . ILE B 1 32 ? 9.686 3.100 -3.012 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 7
+ATOM 11727 C CD1 . ILE B 1 32 ? 12.099 2.547 -4.346 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 7
+ATOM 11728 H H . ILE B 1 32 ? 11.847 6.595 -2.448 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 7
+ATOM 11729 H HA . ILE B 1 32 ? 10.615 5.093 -4.653 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 7
+ATOM 11730 H HB . ILE B 1 32 ? 10.845 4.341 -1.737 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 7
+ATOM 11731 H HG12 . ILE B 1 32 ? 12.926 4.247 -3.306 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 7
+ATOM 11732 H HG13 . ILE B 1 32 ? 12.550 2.888 -2.264 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 7
+ATOM 11733 H HG21 . ILE B 1 32 ? 8.790 3.473 -2.517 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 7
+ATOM 11734 H HG22 . ILE B 1 32 ? 9.493 2.995 -4.080 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 7
+ATOM 11735 H HG23 . ILE B 1 32 ? 9.955 2.129 -2.595 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 7
+ATOM 11736 H HD11 . ILE B 1 32 ? 11.743 1.564 -4.039 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 7
+ATOM 11737 H HD12 . ILE B 1 32 ? 11.405 2.978 -5.067 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 7
+ATOM 11738 H HD13 . ILE B 1 32 ? 13.085 2.450 -4.803 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 7
+ATOM 11739 N N . GLY B 1 33 ? 8.750 6.723 -4.296 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 7
+ATOM 11740 C CA . GLY B 1 33 ? 7.497 7.441 -4.137 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 7
+ATOM 11741 C C . GLY B 1 33 ? 6.311 6.574 -4.565 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 7
+ATOM 11742 O O . GLY B 1 33 ? 6.049 6.416 -5.756 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 7
+ATOM 11743 H H . GLY B 1 33 ? 9.146 6.761 -5.213 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 7
+ATOM 11744 H HA2 . GLY B 1 33 ? 7.375 7.741 -3.096 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 7
+ATOM 11745 H HA3 . GLY B 1 33 ? 7.517 8.353 -4.732 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 7
+ATOM 11746 N N . LEU B 1 34 ? 5.623 6.035 -3.569 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 7
+ATOM 11747 C CA . LEU B 1 34 ? 4.470 5.188 -3.827 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 7
+ATOM 11748 C C . LEU B 1 34 ? 3.243 5.779 -3.132 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 7
+ATOM 11749 O O . LEU B 1 34 ? 3.294 6.110 -1.948 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 7
+ATOM 11750 C CB . LEU B 1 34 ? 4.767 3.742 -3.426 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 7
+ATOM 11751 C CG . LEU B 1 34 ? 4.161 2.659 -4.320 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 7
+ATOM 11752 C CD1 . LEU B 1 34 ? 5.255 1.829 -4.996 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 7
+ATOM 11753 C CD2 . LEU B 1 34 ? 3.181 1.785 -3.536 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 7
+ATOM 11754 H H . LEU B 1 34 ? 5.840 6.168 -2.602 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 7
+ATOM 11755 H HA . LEU B 1 34 ? 4.295 5.194 -4.903 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 7
+ATOM 11756 H HB2 . LEU B 1 34 ? 5.849 3.606 -3.407 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 7
+ATOM 11757 H HB3 . LEU B 1 34 ? 4.410 3.587 -2.408 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 7
+ATOM 11758 H HG . LEU B 1 34 ? 3.592 3.149 -5.112 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 7
+ATOM 11759 H HD11 . LEU B 1 34 ? 4.818 0.918 -5.406 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 7
+ATOM 11760 H HD12 . LEU B 1 34 ? 5.707 2.410 -5.800 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 7
+ATOM 11761 H HD13 . LEU B 1 34 ? 6.017 1.568 -4.262 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 7
+ATOM 11762 H HD21 . LEU B 1 34 ? 2.712 2.379 -2.751 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 7
+ATOM 11763 H HD22 . LEU B 1 34 ? 2.413 1.404 -4.210 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 7
+ATOM 11764 H HD23 . LEU B 1 34 ? 3.717 0.949 -3.087 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 7
+ATOM 11765 N N . MET B 1 35 ? 2.167 5.894 -3.897 1.00 0.00 ? ? ? ? ? ? 35 MET B N 7
+ATOM 11766 C CA . MET B 1 35 ? 0.928 6.439 -3.369 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 7
+ATOM 11767 C C . MET B 1 35 ? -0.242 5.485 -3.620 1.00 0.00 ? ? ? ? ? ? 35 MET B C 7
+ATOM 11768 O O . MET B 1 35 ? -0.740 5.390 -4.740 1.00 0.00 ? ? ? ? ? ? 35 MET B O 7
+ATOM 11769 C CB . MET B 1 35 ? 0.640 7.787 -4.033 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 7
+ATOM 11770 C CG . MET B 1 35 ? 0.945 8.944 -3.080 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 7
+ATOM 11771 S SD . MET B 1 35 ? 1.645 10.313 -3.987 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 7
+ATOM 11772 C CE . MET B 1 35 ? 0.153 11.191 -4.424 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 7
+ATOM 11773 H H . MET B 1 35 ? 2.134 5.622 -4.858 1.00 0.00 ? ? ? ? ? ? 35 MET B H 7
+ATOM 11774 H HA . MET B 1 35 ? 1.091 6.552 -2.297 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 7
+ATOM 11775 H HB2 . MET B 1 35 ? 1.241 7.887 -4.937 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 7
+ATOM 11776 H HB3 . MET B 1 35 ? -0.406 7.829 -4.339 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 7
+ATOM 11777 H HG2 . MET B 1 35 ? 0.032 9.261 -2.575 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 7
+ATOM 11778 H HG3 . MET B 1 35 ? 1.638 8.616 -2.307 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 7
+ATOM 11779 H HE1 . MET B 1 35 ? -0.624 10.975 -3.690 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 7
+ATOM 11780 H HE2 . MET B 1 35 ? 0.353 12.262 -4.438 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 7
+ATOM 11781 H HE3 . MET B 1 35 ? -0.180 10.871 -5.411 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 7
+ATOM 11782 N N . VAL B 1 36 ? -0.646 4.804 -2.558 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 7
+ATOM 11783 C CA . VAL B 1 36 ? -1.747 3.861 -2.648 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 7
+ATOM 11784 C C . VAL B 1 36 ? -2.983 4.460 -1.974 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 7
+ATOM 11785 O O . VAL B 1 36 ? -3.047 4.542 -0.748 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 7
+ATOM 11786 C CB . VAL B 1 36 ? -1.334 2.514 -2.052 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 7
+ATOM 11787 C CG1 . VAL B 1 36 ? -2.511 1.536 -2.039 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 7
+ATOM 11788 C CG2 . VAL B 1 36 ? -0.139 1.925 -2.803 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 7
+ATOM 11789 H H . VAL B 1 36 ? -0.235 4.888 -1.650 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 7
+ATOM 11790 H HA . VAL B 1 36 ? -1.964 3.709 -3.706 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 7
+ATOM 11791 H HB . VAL B 1 36 ? -1.029 2.685 -1.019 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 7
+ATOM 11792 H HG11 . VAL B 1 36 ? -2.303 0.728 -1.337 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 7
+ATOM 11793 H HG12 . VAL B 1 36 ? -3.416 2.060 -1.732 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 7
+ATOM 11794 H HG13 . VAL B 1 36 ? -2.651 1.123 -3.038 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 7
+ATOM 11795 H HG21 . VAL B 1 36 ? -0.328 0.873 -3.019 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 7
+ATOM 11796 H HG22 . VAL B 1 36 ? 0.006 2.467 -3.738 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 7
+ATOM 11797 H HG23 . VAL B 1 36 ? 0.757 2.014 -2.189 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 7
+ATOM 11798 N N . GLY B 1 37 ? -3.934 4.863 -2.803 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 7
+ATOM 11799 C CA . GLY B 1 37 ? -5.164 5.453 -2.302 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 7
+ATOM 11800 C C . GLY B 1 37 ? -6.368 4.566 -2.625 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 7
+ATOM 11801 O O . GLY B 1 37 ? -6.650 4.296 -3.791 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 7
+ATOM 11802 H H . GLY B 1 37 ? -3.874 4.793 -3.799 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 7
+ATOM 11803 H HA2 . GLY B 1 37 ? -5.091 5.594 -1.224 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 7
+ATOM 11804 H HA3 . GLY B 1 37 ? -5.306 6.439 -2.744 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 7
+ATOM 11805 N N . GLY B 1 38 ? -7.046 4.137 -1.570 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 7
+ATOM 11806 C CA . GLY B 1 38 ? -8.214 3.286 -1.727 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 7
+ATOM 11807 C C . GLY B 1 38 ? -9.492 4.033 -1.345 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 7
+ATOM 11808 O O . GLY B 1 38 ? -10.024 3.843 -0.252 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 7
+ATOM 11809 H H . GLY B 1 38 ? -6.811 4.360 -0.625 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 7
+ATOM 11810 H HA2 . GLY B 1 38 ? -8.283 2.943 -2.759 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 7
+ATOM 11811 H HA3 . GLY B 1 38 ? -8.108 2.398 -1.103 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 7
+ATOM 11812 N N . VAL B 1 39 ? -9.950 4.869 -2.266 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 7
+ATOM 11813 C CA . VAL B 1 39 ? -11.156 5.647 -2.039 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 7
+ATOM 11814 C C . VAL B 1 39 ? -12.363 4.873 -2.571 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 7
+ATOM 11815 O O . VAL B 1 39 ? -12.568 4.791 -3.781 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 7
+ATOM 11816 C CB . VAL B 1 39 ? -11.010 7.034 -2.669 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 7
+ATOM 11817 C CG1 . VAL B 1 39 ? -12.339 7.792 -2.638 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 7
+ATOM 11818 C CG2 . VAL B 1 39 ? -9.905 7.836 -1.978 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 7
+ATOM 11819 H H . VAL B 1 39 ? -9.510 5.018 -3.152 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 7
+ATOM 11820 H HA . VAL B 1 39 ? -11.267 5.774 -0.963 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 7
+ATOM 11821 H HB . VAL B 1 39 ? -10.724 6.900 -3.712 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 7
+ATOM 11822 H HG11 . VAL B 1 39 ? -13.144 7.126 -2.951 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 7
+ATOM 11823 H HG12 . VAL B 1 39 ? -12.533 8.145 -1.625 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 7
+ATOM 11824 H HG13 . VAL B 1 39 ? -12.288 8.643 -3.317 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 7
+ATOM 11825 H HG21 . VAL B 1 39 ? -9.451 8.520 -2.694 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 7
+ATOM 11826 H HG22 . VAL B 1 39 ? -10.332 8.405 -1.152 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 7
+ATOM 11827 H HG23 . VAL B 1 39 ? -9.146 7.154 -1.596 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 7
+ATOM 11828 N N . VAL B 1 40 ? -13.132 4.324 -1.641 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 7
+ATOM 11829 C CA . VAL B 1 40 ? -14.314 3.560 -2.001 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 7
+ATOM 11830 C C . VAL B 1 40 ? -15.465 3.942 -1.070 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 7
+ATOM 11831 O O . VAL B 1 40 ? -15.396 3.712 0.136 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 7
+ATOM 11832 C CB . VAL B 1 40 ? -13.995 2.063 -1.977 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 7
+ATOM 11833 C CG1 . VAL B 1 40 ? -13.194 1.693 -0.727 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 7
+ATOM 11834 C CG2 . VAL B 1 40 ? -15.276 1.230 -2.075 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 7
+ATOM 11835 H H . VAL B 1 40 ? -12.957 4.396 -0.659 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 7
+ATOM 11836 H HA . VAL B 1 40 ? -14.582 3.831 -3.022 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 7
+ATOM 11837 H HB . VAL B 1 40 ? -13.382 1.837 -2.848 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 7
+ATOM 11838 H HG11 . VAL B 1 40 ? -12.734 0.715 -0.867 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 7
+ATOM 11839 H HG12 . VAL B 1 40 ? -12.418 2.439 -0.559 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 7
+ATOM 11840 H HG13 . VAL B 1 40 ? -13.861 1.661 0.135 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 7
+ATOM 11841 H HG21 . VAL B 1 40 ? -15.405 0.654 -1.158 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 7
+ATOM 11842 H HG22 . VAL B 1 40 ? -16.130 1.892 -2.212 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 7
+ATOM 11843 H HG23 . VAL B 1 40 ? -15.201 0.550 -2.923 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 7
+ATOM 11844 N N . ILE B 1 41 ? -16.500 4.518 -1.666 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 7
+ATOM 11845 C CA . ILE B 1 41 ? -17.665 4.934 -0.905 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 7
+ATOM 11846 C C . ILE B 1 41 ? -18.925 4.368 -1.562 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 7
+ATOM 11847 O O . ILE B 1 41 ? -19.188 4.627 -2.735 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 7
+ATOM 11848 C CB . ILE B 1 41 ? -17.685 6.455 -0.745 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 7
+ATOM 11849 C CG1 . ILE B 1 41 ? -16.406 6.952 -0.068 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 7
+ATOM 11850 C CG2 . ILE B 1 41 ? -18.941 6.912 -0.001 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 7
+ATOM 11851 C CD1 . ILE B 1 41 ? -15.677 7.965 -0.952 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 7
+ATOM 11852 H H . ILE B 1 41 ? -16.549 4.701 -2.648 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 7
+ATOM 11853 H HA . ILE B 1 41 ? -17.573 4.506 0.093 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 7
+ATOM 11854 H HB . ILE B 1 41 ? -17.719 6.903 -1.738 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 7
+ATOM 11855 H HG12 . ILE B 1 41 ? -16.651 7.411 0.890 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 7
+ATOM 11856 H HG13 . ILE B 1 41 ? -15.750 6.108 0.142 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 7
+ATOM 11857 H HG21 . ILE B 1 41 ? -19.225 7.907 -0.342 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 7
+ATOM 11858 H HG22 . ILE B 1 41 ? -19.755 6.214 -0.199 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 7
+ATOM 11859 H HG23 . ILE B 1 41 ? -18.740 6.939 1.070 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 7
+ATOM 11860 H HD11 . ILE B 1 41 ? -16.401 8.643 -1.404 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 7
+ATOM 11861 H HD12 . ILE B 1 41 ? -14.974 8.537 -0.346 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 7
+ATOM 11862 H HD13 . ILE B 1 41 ? -15.134 7.438 -1.737 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 7
+ATOM 11863 N N . ALA B 1 42 ? -19.672 3.607 -0.776 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 7
+ATOM 11864 C CA . ALA B 1 42 ? -20.899 3.002 -1.266 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 7
+ATOM 11865 C C . ALA B 1 42 ? -21.921 2.939 -0.130 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 7
+ATOM 11866 O O . ALA B 1 42 ? -21.984 1.950 0.599 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 7
+ATOM 11867 C CB . ALA B 1 42 ? -20.591 1.622 -1.850 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 7
+ATOM 11868 H H . ALA B 1 42 ? -19.452 3.401 0.178 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 7
+ATOM 11869 H HA . ALA B 1 42 ? -21.289 3.640 -2.060 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 7
+ATOM 11870 H HB1 . ALA B 1 42 ? -19.756 1.177 -1.309 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 7
+ATOM 11871 H HB2 . ALA B 1 42 ? -21.468 0.982 -1.755 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 7
+ATOM 11872 H HB3 . ALA B 1 42 ? -20.328 1.723 -2.903 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 7
+ATOM 11873 N N . LEU C 1 17 ? -16.889 -5.123 -13.225 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 7
+ATOM 11874 C CA . LEU C 1 17 ? -15.863 -4.199 -12.771 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 7
+ATOM 11875 C C . LEU C 1 17 ? -14.670 -4.992 -12.236 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 7
+ATOM 11876 O O . LEU C 1 17 ? -14.793 -5.717 -11.250 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 7
+ATOM 11877 C CB . LEU C 1 17 ? -16.445 -3.207 -11.762 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 7
+ATOM 11878 C CG . LEU C 1 17 ? -15.795 -1.822 -11.732 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 7
+ATOM 11879 C CD1 . LEU C 1 17 ? -16.650 -0.832 -10.940 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 7
+ATOM 11880 C CD2 . LEU C 1 17 ? -14.365 -1.900 -11.196 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 7
+ATOM 11881 H H . LEU C 1 17 ? -17.040 -5.134 -14.214 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 7
+ATOM 11882 H HA . LEU C 1 17 ? -15.536 -3.623 -13.637 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 7
+ATOM 11883 H HB2 . LEU C 1 17 ? -17.507 -3.083 -11.975 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 7
+ATOM 11884 H HB3 . LEU C 1 17 ? -16.368 -3.644 -10.767 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 7
+ATOM 11885 H HG . LEU C 1 17 ? -15.736 -1.450 -12.755 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 7
+ATOM 11886 H HD11 . LEU C 1 17 ? -16.109 0.108 -10.828 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 7
+ATOM 11887 H HD12 . LEU C 1 17 ? -17.584 -0.651 -11.472 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 7
+ATOM 11888 H HD13 . LEU C 1 17 ? -16.868 -1.246 -9.955 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 7
+ATOM 11889 H HD21 . LEU C 1 17 ? -14.290 -2.712 -10.474 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 7
+ATOM 11890 H HD22 . LEU C 1 17 ? -13.677 -2.084 -12.022 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 7
+ATOM 11891 H HD23 . LEU C 1 17 ? -14.106 -0.958 -10.712 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 7
+ATOM 11892 N N . VAL C 1 18 ? -13.540 -4.826 -12.909 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 7
+ATOM 11893 C CA . VAL C 1 18 ? -12.326 -5.518 -12.513 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 7
+ATOM 11894 C C . VAL C 1 18 ? -11.113 -4.658 -12.876 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 7
+ATOM 11895 O O . VAL C 1 18 ? -10.990 -4.199 -14.011 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 7
+ATOM 11896 C CB . VAL C 1 18 ? -12.283 -6.909 -13.149 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 7
+ATOM 11897 C CG1 . VAL C 1 18 ? -10.934 -7.586 -12.898 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 7
+ATOM 11898 C CG2 . VAL C 1 18 ? -13.436 -7.778 -12.642 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 7
+ATOM 11899 H H . VAL C 1 18 ? -13.448 -4.234 -13.709 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 7
+ATOM 11900 H HA . VAL C 1 18 ? -12.356 -5.642 -11.430 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 7
+ATOM 11901 H HB . VAL C 1 18 ? -12.403 -6.788 -14.226 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 7
+ATOM 11902 H HG11 . VAL C 1 18 ? -11.038 -8.663 -13.033 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 7
+ATOM 11903 H HG12 . VAL C 1 18 ? -10.198 -7.200 -13.603 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 7
+ATOM 11904 H HG13 . VAL C 1 18 ? -10.608 -7.377 -11.880 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 7
+ATOM 11905 H HG21 . VAL C 1 18 ? -13.378 -8.763 -13.105 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 7
+ATOM 11906 H HG22 . VAL C 1 18 ? -13.366 -7.881 -11.560 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 7
+ATOM 11907 H HG23 . VAL C 1 18 ? -14.385 -7.310 -12.901 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 7
+ATOM 11908 N N . PHE C 1 19 ? -10.248 -4.465 -11.891 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 7
+ATOM 11909 C CA . PHE C 1 19 ? -9.050 -3.668 -12.093 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 7
+ATOM 11910 C C . PHE C 1 19 ? -7.804 -4.427 -11.633 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 7
+ATOM 11911 O O . PHE C 1 19 ? -7.648 -4.711 -10.446 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 7
+ATOM 11912 C CB . PHE C 1 19 ? -9.205 -2.405 -11.244 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 7
+ATOM 11913 C CG . PHE C 1 19 ? -8.969 -1.104 -12.015 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 7
+ATOM 11914 C CD1 . PHE C 1 19 ? -7.707 -0.744 -12.370 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 7
+ATOM 11915 C CD2 . PHE C 1 19 ? -10.021 -0.309 -12.346 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 7
+ATOM 11916 C CE1 . PHE C 1 19 ? -7.488 0.463 -13.086 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 7
+ATOM 11917 C CE2 . PHE C 1 19 ? -9.802 0.897 -13.062 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 7
+ATOM 11918 C CZ . PHE C 1 19 ? -8.540 1.258 -13.417 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 7
+ATOM 11919 H H . PHE C 1 19 ? -10.356 -4.842 -10.971 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 7
+ATOM 11920 H HA . PHE C 1 19 ? -8.974 -3.462 -13.160 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 7
+ATOM 11921 H HB2 . PHE C 1 19 ? -10.208 -2.386 -10.819 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 7
+ATOM 11922 H HB3 . PHE C 1 19 ? -8.507 -2.452 -10.409 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 7
+ATOM 11923 H HD1 . PHE C 1 19 ? -6.863 -1.381 -12.105 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 7
+ATOM 11924 H HD2 . PHE C 1 19 ? -11.033 -0.598 -12.062 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 7
+ATOM 11925 H HE1 . PHE C 1 19 ? -6.476 0.752 -13.370 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 7
+ATOM 11926 H HE2 . PHE C 1 19 ? -10.646 1.535 -13.327 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 7
+ATOM 11927 H HZ . PHE C 1 19 ? -8.372 2.184 -13.966 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 7
+ATOM 11928 N N . PHE C 1 20 ? -6.947 -4.733 -12.597 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 7
+ATOM 11929 C CA . PHE C 1 20 ? -5.719 -5.453 -12.306 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 7
+ATOM 11930 C C . PHE C 1 20 ? -4.492 -4.617 -12.676 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 7
+ATOM 11931 O O . PHE C 1 20 ? -4.307 -4.260 -13.839 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 7
+ATOM 11932 C CB . PHE C 1 20 ? -5.733 -6.723 -13.159 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 7
+ATOM 11933 C CG . PHE C 1 20 ? -5.126 -7.945 -12.465 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 7
+ATOM 11934 C CD1 . PHE C 1 20 ? -5.900 -8.726 -11.665 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 7
+ATOM 11935 C CD2 . PHE C 1 20 ? -3.813 -8.249 -12.649 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 7
+ATOM 11936 C CE1 . PHE C 1 20 ? -5.339 -9.860 -11.022 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 7
+ATOM 11937 C CE2 . PHE C 1 20 ? -3.251 -9.383 -12.005 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 7
+ATOM 11938 C CZ . PHE C 1 20 ? -4.025 -10.165 -11.206 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 7
+ATOM 11939 H H . PHE C 1 20 ? -7.082 -4.498 -13.559 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 7
+ATOM 11940 H HA . PHE C 1 20 ? -5.708 -5.655 -11.235 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 7
+ATOM 11941 H HB2 . PHE C 1 20 ? -6.761 -6.950 -13.439 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 7
+ATOM 11942 H HB3 . PHE C 1 20 ? -5.186 -6.534 -14.082 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 7
+ATOM 11943 H HD1 . PHE C 1 20 ? -6.952 -8.482 -11.518 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 7
+ATOM 11944 H HD2 . PHE C 1 20 ? -3.193 -7.623 -13.290 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 7
+ATOM 11945 H HE1 . PHE C 1 20 ? -5.958 -10.486 -10.381 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 7
+ATOM 11946 H HE2 . PHE C 1 20 ? -2.199 -9.628 -12.152 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 7
+ATOM 11947 H HZ . PHE C 1 20 ? -3.593 -11.035 -10.712 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 7
+ATOM 11948 N N . ALA C 1 21 ? -3.685 -4.328 -11.665 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 7
+ATOM 11949 C CA . ALA C 1 21 ? -2.481 -3.541 -11.870 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 7
+ATOM 11950 C C . ALA C 1 21 ? -1.298 -4.244 -11.203 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 7
+ATOM 11951 O O . ALA C 1 21 ? -1.094 -4.117 -9.997 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 7
+ATOM 11952 C CB . ALA C 1 21 ? -2.699 -2.126 -11.329 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 7
+ATOM 11953 H H . ALA C 1 21 ? -3.843 -4.622 -10.722 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 7
+ATOM 11954 H HA . ALA C 1 21 ? -2.301 -3.482 -12.943 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 7
+ATOM 11955 H HB1 . ALA C 1 21 ? -2.966 -1.460 -12.150 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 7
+ATOM 11956 H HB2 . ALA C 1 21 ? -3.503 -2.138 -10.594 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 7
+ATOM 11957 H HB3 . ALA C 1 21 ? -1.781 -1.772 -10.859 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 7
+ATOM 11958 N N . GLU C 1 22 ? -0.547 -4.971 -12.018 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 7
+ATOM 11959 C CA . GLU C 1 22 ? 0.611 -5.695 -11.523 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 7
+ATOM 11960 C C . GLU C 1 22 ? 1.886 -5.178 -12.191 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 7
+ATOM 11961 O O . GLU C 1 22 ? 2.004 -5.203 -13.415 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 7
+ATOM 11962 C CB . GLU C 1 22 ? 0.451 -7.201 -11.740 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 7
+ATOM 11963 C CG . GLU C 1 22 ? 0.846 -7.982 -10.485 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 7
+ATOM 11964 C CD . GLU C 1 22 ? 1.631 -9.244 -10.849 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 7
+ATOM 11965 O OE1 . GLU C 1 22 ? 0.977 -10.206 -11.306 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 7
+ATOM 11966 O OE2 . GLU C 1 22 ? 2.867 -9.218 -10.662 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 7
+ATOM 11967 H H . GLU C 1 22 ? -0.720 -5.070 -12.998 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 7
+ATOM 11968 H HA . GLU C 1 22 ? 0.645 -5.490 -10.453 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 7
+ATOM 11969 H HB2 . GLU C 1 22 ? -0.583 -7.426 -12.002 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 7
+ATOM 11970 H HB3 . GLU C 1 22 ? 1.068 -7.519 -12.580 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 7
+ATOM 11971 H HG2 . GLU C 1 22 ? 1.450 -7.349 -9.834 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 7
+ATOM 11972 H HG3 . GLU C 1 22 ? -0.048 -8.254 -9.925 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 7
+ATOM 11973 N N . ASP C 1 23 ? 2.809 -4.720 -11.357 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 7
+ATOM 11974 C CA . ASP C 1 23 ? 4.071 -4.197 -11.852 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 7
+ATOM 11975 C C . ASP C 1 23 ? 5.224 -4.893 -11.128 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 7
+ATOM 11976 O O . ASP C 1 23 ? 5.358 -4.780 -9.911 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 7
+ATOM 11977 C CB . ASP C 1 23 ? 4.186 -2.694 -11.589 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 7
+ATOM 11978 C CG . ASP C 1 23 ? 5.592 -2.115 -11.747 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 7
+ATOM 11979 O OD1 . ASP C 1 23 ? 6.349 -2.680 -12.566 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 7
+ATOM 11980 O OD2 . ASP C 1 23 ? 5.880 -1.122 -11.045 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 7
+ATOM 11981 H H . ASP C 1 23 ? 2.705 -4.702 -10.363 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 7
+ATOM 11982 H HA . ASP C 1 23 ? 4.066 -4.402 -12.923 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 7
+ATOM 11983 H HB2 . ASP C 1 23 ? 3.515 -2.169 -12.269 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 7
+ATOM 11984 H HB3 . ASP C 1 23 ? 3.836 -2.490 -10.577 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 7
+ATOM 11985 N N . VAL C 1 24 ? 6.031 -5.598 -11.909 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 7
+ATOM 11986 C CA . VAL C 1 24 ? 7.170 -6.313 -11.357 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 7
+ATOM 11987 C C . VAL C 1 24 ? 8.441 -5.496 -11.593 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 7
+ATOM 11988 O O . VAL C 1 24 ? 8.960 -5.455 -12.707 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 7
+ATOM 11989 C CB . VAL C 1 24 ? 7.243 -7.719 -11.954 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 7
+ATOM 11990 C CG1 . VAL C 1 24 ? 8.248 -8.586 -11.191 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 7
+ATOM 11991 C CG2 . VAL C 1 24 ? 5.863 -8.376 -11.983 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 7
+ATOM 11992 H H . VAL C 1 24 ? 5.917 -5.685 -12.898 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 7
+ATOM 11993 H HA . VAL C 1 24 ? 7.009 -6.409 -10.284 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 7
+ATOM 11994 H HB . VAL C 1 24 ? 7.592 -7.629 -12.983 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 7
+ATOM 11995 H HG11 . VAL C 1 24 ? 7.790 -8.947 -10.270 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 7
+ATOM 11996 H HG12 . VAL C 1 24 ? 8.538 -9.436 -11.810 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 7
+ATOM 11997 H HG13 . VAL C 1 24 ? 9.130 -7.994 -10.951 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 7
+ATOM 11998 H HG21 . VAL C 1 24 ? 5.877 -9.281 -11.375 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 7
+ATOM 11999 H HG22 . VAL C 1 24 ? 5.122 -7.683 -11.584 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 7
+ATOM 12000 H HG23 . VAL C 1 24 ? 5.604 -8.633 -13.010 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 7
+ATOM 12001 N N . GLY C 1 25 ? 8.908 -4.865 -10.525 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 7
+ATOM 12002 C CA . GLY C 1 25 ? 10.109 -4.051 -10.601 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 7
+ATOM 12003 C C . GLY C 1 25 ? 11.283 -4.739 -9.901 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 7
+ATOM 12004 O O . GLY C 1 25 ? 11.250 -4.949 -8.690 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 7
+ATOM 12005 H H . GLY C 1 25 ? 8.479 -4.903 -9.622 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 7
+ATOM 12006 H HA2 . GLY C 1 25 ? 10.361 -3.866 -11.646 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 7
+ATOM 12007 H HA3 . GLY C 1 25 ? 9.924 -3.080 -10.141 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 7
+ATOM 12008 N N . SER C 1 26 ? 12.292 -5.071 -10.694 1.00 0.00 ? ? ? ? ? ? 26 SER C N 7
+ATOM 12009 C CA . SER C 1 26 ? 13.473 -5.731 -10.166 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 7
+ATOM 12010 C C . SER C 1 26 ? 14.613 -4.722 -10.017 1.00 0.00 ? ? ? ? ? ? 26 SER C C 7
+ATOM 12011 O O . SER C 1 26 ? 14.932 -3.998 -10.958 1.00 0.00 ? ? ? ? ? ? 26 SER C O 7
+ATOM 12012 C CB . SER C 1 26 ? 13.905 -6.891 -11.065 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 7
+ATOM 12013 O OG . SER C 1 26 ? 14.582 -7.909 -10.334 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 7
+ATOM 12014 H H . SER C 1 26 ? 12.309 -4.897 -11.679 1.00 0.00 ? ? ? ? ? ? 26 SER C H 7
+ATOM 12015 H HA . SER C 1 26 ? 13.175 -6.119 -9.191 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 7
+ATOM 12016 H HB2 . SER C 1 26 ? 13.027 -7.317 -11.553 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 7
+ATOM 12017 H HB3 . SER C 1 26 ? 14.557 -6.515 -11.853 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 7
+ATOM 12018 H HG . SER C 1 26 ? 14.516 -8.781 -10.820 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 7
+ATOM 12019 N N . ASN C 1 27 ? 15.196 -4.707 -8.827 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 7
+ATOM 12020 C CA . ASN C 1 27 ? 16.294 -3.798 -8.542 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 7
+ATOM 12021 C C . ASN C 1 27 ? 15.818 -2.356 -8.728 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 7
+ATOM 12022 O O . ASN C 1 27 ? 16.216 -1.685 -9.678 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 7
+ATOM 12023 C CB . ASN C 1 27 ? 17.466 -4.036 -9.496 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 7
+ATOM 12024 C CG . ASN C 1 27 ? 18.496 -2.910 -9.390 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 7
+ATOM 12025 O OD1 . ASN C 1 27 ? 18.536 -1.991 -10.192 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 7
+ATOM 12026 N ND2 . ASN C 1 27 ? 19.326 -3.031 -8.358 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 7
+ATOM 12027 H H . ASN C 1 27 ? 14.929 -5.299 -8.066 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 7
+ATOM 12028 H HA . ASN C 1 27 ? 16.584 -4.013 -7.514 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 7
+ATOM 12029 H HB2 . ASN C 1 27 ? 17.940 -4.990 -9.266 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 7
+ATOM 12030 H HB3 . ASN C 1 27 ? 17.099 -4.102 -10.521 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 7
+ATOM 12031 H HD21 . ASN C 1 27 ? 19.240 -3.810 -7.736 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 7
+ATOM 12032 H HD22 . ASN C 1 27 ? 20.036 -2.344 -8.203 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 7
+ATOM 12033 N N . LYS C 1 28 ? 14.973 -1.923 -7.804 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 7
+ATOM 12034 C CA . LYS C 1 28 ? 14.437 -0.572 -7.854 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 7
+ATOM 12035 C C . LYS C 1 28 ? 15.519 0.416 -7.412 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 7
+ATOM 12036 O O . LYS C 1 28 ? 16.410 0.064 -6.640 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 7
+ATOM 12037 C CB . LYS C 1 28 ? 13.148 -0.477 -7.038 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 7
+ATOM 12038 C CG . LYS C 1 28 ? 11.936 -0.892 -7.876 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 7
+ATOM 12039 C CD . LYS C 1 28 ? 10.644 -0.787 -7.063 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 7
+ATOM 12040 C CE . LYS C 1 28 ? 9.417 -1.000 -7.953 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 7
+ATOM 12041 N NZ . LYS C 1 28 ? 8.219 -1.262 -7.127 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 7
+ATOM 12042 H H . LYS C 1 28 ? 14.654 -2.475 -7.034 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 7
+ATOM 12043 H HA . LYS C 1 28 ? 14.179 -0.361 -8.891 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 7
+ATOM 12044 H HB2 . LYS C 1 28 ? 13.220 -1.115 -6.157 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 7
+ATOM 12045 H HB3 . LYS C 1 28 ? 13.013 0.544 -6.680 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 7
+ATOM 12046 H HG2 . LYS C 1 28 ? 11.866 -0.257 -8.760 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 7
+ATOM 12047 H HG3 . LYS C 1 28 ? 12.066 -1.915 -8.229 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 7
+ATOM 12048 H HD2 . LYS C 1 28 ? 10.653 -1.529 -6.264 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 7
+ATOM 12049 H HD3 . LYS C 1 28 ? 10.587 0.192 -6.588 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 7
+ATOM 12050 H HE2 . LYS C 1 28 ? 9.255 -0.119 -8.573 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 7
+ATOM 12051 H HE3 . LYS C 1 28 ? 9.592 -1.838 -8.628 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 7
+ATOM 12052 H HZ1 . LYS C 1 28 ? 7.753 -0.398 -6.931 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 7
+ATOM 12053 H HZ2 . LYS C 1 28 ? 7.597 -1.869 -7.623 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 7
+ATOM 12054 H HZ3 . LYS C 1 28 ? 8.493 -1.695 -6.268 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 7
+ATOM 12055 N N . GLY C 1 29 ? 15.407 1.634 -7.922 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 7
+ATOM 12056 C CA . GLY C 1 29 ? 16.364 2.676 -7.590 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 7
+ATOM 12057 C C . GLY C 1 29 ? 16.028 3.980 -8.316 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 7
+ATOM 12058 O O . GLY C 1 29 ? 15.036 4.055 -9.039 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 7
+ATOM 12059 H H . GLY C 1 29 ? 14.679 1.912 -8.549 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 7
+ATOM 12060 H HA2 . GLY C 1 29 ? 16.364 2.844 -6.513 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 7
+ATOM 12061 H HA3 . GLY C 1 29 ? 17.368 2.352 -7.862 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 7
+ATOM 12062 N N . ALA C 1 30 ? 16.875 4.976 -8.098 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 7
+ATOM 12063 C CA . ALA C 1 30 ? 16.681 6.273 -8.723 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 7
+ATOM 12064 C C . ALA C 1 30 ? 15.369 6.883 -8.224 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 7
+ATOM 12065 O O . ALA C 1 30 ? 15.126 6.942 -7.020 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 7
+ATOM 12066 C CB . ALA C 1 30 ? 16.710 6.117 -10.244 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 7
+ATOM 12067 H H . ALA C 1 30 ? 17.680 4.907 -7.508 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 7
+ATOM 12068 H HA . ALA C 1 30 ? 17.509 6.914 -8.420 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 7
+ATOM 12069 H HB1 . ALA C 1 30 ? 16.823 7.097 -10.708 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 7
+ATOM 12070 H HB2 . ALA C 1 30 ? 17.549 5.481 -10.528 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 7
+ATOM 12071 H HB3 . ALA C 1 30 ? 15.777 5.661 -10.580 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 7
+ATOM 12072 N N . ILE C 1 31 ? 14.557 7.322 -9.176 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 7
+ATOM 12073 C CA . ILE C 1 31 ? 13.277 7.925 -8.848 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 7
+ATOM 12074 C C . ILE C 1 31 ? 12.153 6.957 -9.219 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 7
+ATOM 12075 O O . ILE C 1 31 ? 11.979 6.619 -10.389 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 7
+ATOM 12076 C CB . ILE C 1 31 ? 13.148 9.299 -9.508 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 7
+ATOM 12077 C CG1 . ILE C 1 31 ? 14.168 10.283 -8.931 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 7
+ATOM 12078 C CG2 . ILE C 1 31 ? 11.717 9.827 -9.400 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 7
+ATOM 12079 C CD1 . ILE C 1 31 ? 15.327 10.507 -9.904 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 7
+ATOM 12080 H H . ILE C 1 31 ? 14.762 7.270 -10.153 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 7
+ATOM 12081 H HA . ILE C 1 31 ? 13.256 8.083 -7.770 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 7
+ATOM 12082 H HB . ILE C 1 31 ? 13.371 9.191 -10.570 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 7
+ATOM 12083 H HG12 . ILE C 1 31 ? 13.679 11.234 -8.716 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 7
+ATOM 12084 H HG13 . ILE C 1 31 ? 14.551 9.901 -7.985 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 7
+ATOM 12085 H HG21 . ILE C 1 31 ? 11.167 9.577 -10.307 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 7
+ATOM 12086 H HG22 . ILE C 1 31 ? 11.224 9.371 -8.540 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 7
+ATOM 12087 H HG23 . ILE C 1 31 ? 11.736 10.910 -9.274 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 7
+ATOM 12088 H HD11 . ILE C 1 31 ? 15.870 11.409 -9.621 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 7
+ATOM 12089 H HD12 . ILE C 1 31 ? 15.999 9.651 -9.870 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 7
+ATOM 12090 H HD13 . ILE C 1 31 ? 14.935 10.621 -10.915 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 7
+ATOM 12091 N N . ILE C 1 32 ? 11.417 6.537 -8.200 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 7
+ATOM 12092 C CA . ILE C 1 32 ? 10.314 5.614 -8.404 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 7
+ATOM 12093 C C . ILE C 1 32 ? 8.997 6.317 -8.067 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 7
+ATOM 12094 O O . ILE C 1 32 ? 8.684 6.529 -6.896 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 7
+ATOM 12095 C CB . ILE C 1 32 ? 10.540 4.323 -7.614 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 7
+ATOM 12096 C CG1 . ILE C 1 32 ? 11.981 3.831 -7.771 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 7
+ATOM 12097 C CG2 . ILE C 1 32 ? 9.523 3.252 -8.008 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 7
+ATOM 12098 C CD1 . ILE C 1 32 ? 12.314 3.571 -9.242 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 7
+ATOM 12099 H H . ILE C 1 32 ? 11.564 6.816 -7.251 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 7
+ATOM 12100 H HA . ILE C 1 32 ? 10.302 5.347 -9.461 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 7
+ATOM 12101 H HB . ILE C 1 32 ? 10.389 4.539 -6.556 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 7
+ATOM 12102 H HG12 . ILE C 1 32 ? 12.668 4.572 -7.364 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 7
+ATOM 12103 H HG13 . ILE C 1 32 ? 12.122 2.916 -7.196 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 7
+ATOM 12104 H HG21 . ILE C 1 32 ? 8.524 3.570 -7.706 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 7
+ATOM 12105 H HG22 . ILE C 1 32 ? 9.545 3.108 -9.088 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 7
+ATOM 12106 H HG23 . ILE C 1 32 ? 9.771 2.314 -7.511 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 7
+ATOM 12107 H HD11 . ILE C 1 32 ? 12.623 4.503 -9.714 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 7
+ATOM 12108 H HD12 . ILE C 1 32 ? 13.123 2.844 -9.308 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 7
+ATOM 12109 H HD13 . ILE C 1 32 ? 11.432 3.181 -9.751 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 7
+ATOM 12110 N N . GLY C 1 33 ? 8.260 6.659 -9.114 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 7
+ATOM 12111 C CA . GLY C 1 33 ? 6.986 7.334 -8.943 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 7
+ATOM 12112 C C . GLY C 1 33 ? 5.823 6.414 -9.323 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 7
+ATOM 12113 O O . GLY C 1 33 ? 5.634 6.100 -10.497 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 7
+ATOM 12114 H H . GLY C 1 33 ? 8.523 6.483 -10.063 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 7
+ATOM 12115 H HA2 . GLY C 1 33 ? 6.875 7.656 -7.908 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 7
+ATOM 12116 H HA3 . GLY C 1 33 ? 6.960 8.232 -9.561 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 7
+ATOM 12117 N N . LEU C 1 34 ? 5.075 6.008 -8.307 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 7
+ATOM 12118 C CA . LEU C 1 34 ? 3.938 5.131 -8.520 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 7
+ATOM 12119 C C . LEU C 1 34 ? 2.706 5.725 -7.833 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 7
+ATOM 12120 O O . LEU C 1 34 ? 2.700 5.915 -6.618 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 7
+ATOM 12121 C CB . LEU C 1 34 ? 4.267 3.707 -8.068 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 7
+ATOM 12122 C CG . LEU C 1 34 ? 3.752 2.581 -8.967 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 7
+ATOM 12123 C CD1 . LEU C 1 34 ? 4.823 2.147 -9.969 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 7
+ATOM 12124 C CD2 . LEU C 1 34 ? 3.235 1.407 -8.134 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 7
+ATOM 12125 H H . LEU C 1 34 ? 5.236 6.269 -7.355 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 7
+ATOM 12126 H HA . LEU C 1 34 ? 3.750 5.093 -9.593 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 7
+ATOM 12127 H HB2 . LEU C 1 34 ? 5.349 3.614 -7.987 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 7
+ATOM 12128 H HB3 . LEU C 1 34 ? 3.859 3.561 -7.068 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 7
+ATOM 12129 H HG . LEU C 1 34 ? 2.909 2.963 -9.543 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 7
+ATOM 12130 H HD11 . LEU C 1 34 ? 5.535 1.485 -9.475 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 7
+ATOM 12131 H HD12 . LEU C 1 34 ? 4.352 1.619 -10.799 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 7
+ATOM 12132 H HD13 . LEU C 1 34 ? 5.344 3.026 -10.348 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 7
+ATOM 12133 H HD21 . LEU C 1 34 ? 4.063 0.737 -7.898 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 7
+ATOM 12134 H HD22 . LEU C 1 34 ? 2.796 1.782 -7.210 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 7
+ATOM 12135 H HD23 . LEU C 1 34 ? 2.479 0.863 -8.702 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 7
+ATOM 12136 N N . MET C 1 35 ? 1.693 6.000 -8.641 1.00 0.00 ? ? ? ? ? ? 35 MET C N 7
+ATOM 12137 C CA . MET C 1 35 ? 0.458 6.569 -8.126 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 7
+ATOM 12138 C C . MET C 1 35 ? -0.710 5.599 -8.311 1.00 0.00 ? ? ? ? ? ? 35 MET C C 7
+ATOM 12139 O O . MET C 1 35 ? -1.330 5.563 -9.373 1.00 0.00 ? ? ? ? ? ? 35 MET C O 7
+ATOM 12140 C CB . MET C 1 35 ? 0.155 7.878 -8.857 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 7
+ATOM 12141 C CG . MET C 1 35 ? -0.301 8.960 -7.877 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 7
+ATOM 12142 S SD . MET C 1 35 ? 0.073 10.577 -8.534 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 7
+ATOM 12143 C CE . MET C 1 35 ? -1.563 11.100 -9.020 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 7
+ATOM 12144 H H . MET C 1 35 ? 1.706 5.842 -9.628 1.00 0.00 ? ? ? ? ? ? 35 MET C H 7
+ATOM 12145 H HA . MET C 1 35 ? 0.635 6.738 -7.064 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 7
+ATOM 12146 H HB2 . MET C 1 35 ? 1.045 8.216 -9.389 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 7
+ATOM 12147 H HB3 . MET C 1 35 ? -0.619 7.711 -9.606 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 7
+ATOM 12148 H HG2 . MET C 1 35 ? -1.372 8.871 -7.696 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 7
+ATOM 12149 H HG3 . MET C 1 35 ? 0.196 8.825 -6.916 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 7
+ATOM 12150 H HE1 . MET C 1 35 ? -2.007 10.348 -9.671 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 7
+ATOM 12151 H HE2 . MET C 1 35 ? -2.184 11.224 -8.132 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 7
+ATOM 12152 H HE3 . MET C 1 35 ? -1.498 12.049 -9.552 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 7
+ATOM 12153 N N . VAL C 1 36 ? -0.976 4.836 -7.261 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 7
+ATOM 12154 C CA . VAL C 1 36 ? -2.060 3.869 -7.293 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 7
+ATOM 12155 C C . VAL C 1 36 ? -3.279 4.450 -6.576 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 7
+ATOM 12156 O O . VAL C 1 36 ? -3.424 4.294 -5.364 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 7
+ATOM 12157 C CB . VAL C 1 36 ? -1.593 2.539 -6.696 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 7
+ATOM 12158 C CG1 . VAL C 1 36 ? -2.704 1.490 -6.757 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 7
+ATOM 12159 C CG2 . VAL C 1 36 ? -0.327 2.039 -7.396 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 7
+ATOM 12160 H H . VAL C 1 36 ? -0.467 4.872 -6.401 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 7
+ATOM 12161 H HA . VAL C 1 36 ? -2.316 3.697 -8.339 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 7
+ATOM 12162 H HB . VAL C 1 36 ? -1.350 2.710 -5.647 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 7
+ATOM 12163 H HG11 . VAL C 1 36 ? -3.425 1.677 -5.961 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 7
+ATOM 12164 H HG12 . VAL C 1 36 ? -3.207 1.549 -7.723 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 7
+ATOM 12165 H HG13 . VAL C 1 36 ? -2.274 0.497 -6.631 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 7
+ATOM 12166 H HG21 . VAL C 1 36 ? -0.604 1.440 -8.263 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 7
+ATOM 12167 H HG22 . VAL C 1 36 ? 0.271 2.891 -7.719 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 7
+ATOM 12168 H HG23 . VAL C 1 36 ? 0.254 1.429 -6.703 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 7
+ATOM 12169 N N . GLY C 1 37 ? -4.125 5.110 -7.354 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 7
+ATOM 12170 C CA . GLY C 1 37 ? -5.327 5.716 -6.808 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 7
+ATOM 12171 C C . GLY C 1 37 ? -6.577 4.960 -7.261 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 7
+ATOM 12172 O O . GLY C 1 37 ? -6.818 4.812 -8.459 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 7
+ATOM 12173 H H . GLY C 1 37 ? -3.999 5.233 -8.338 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 7
+ATOM 12174 H HA2 . GLY C 1 37 ? -5.275 5.719 -5.719 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 7
+ATOM 12175 H HA3 . GLY C 1 37 ? -5.391 6.756 -7.126 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 7
+ATOM 12176 N N . GLY C 1 38 ? -7.341 4.500 -6.281 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 7
+ATOM 12177 C CA . GLY C 1 38 ? -8.561 3.762 -6.564 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 7
+ATOM 12178 C C . GLY C 1 38 ? -9.792 4.534 -6.085 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 7
+ATOM 12179 O O . GLY C 1 38 ? -10.108 4.529 -4.896 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 7
+ATOM 12180 H H . GLY C 1 38 ? -7.138 4.624 -5.309 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 7
+ATOM 12181 H HA2 . GLY C 1 38 ? -8.636 3.578 -7.636 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 7
+ATOM 12182 H HA3 . GLY C 1 38 ? -8.523 2.789 -6.075 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 7
+ATOM 12183 N N . VAL C 1 39 ? -10.453 5.178 -7.035 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 7
+ATOM 12184 C CA . VAL C 1 39 ? -11.644 5.952 -6.724 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 7
+ATOM 12185 C C . VAL C 1 39 ? -12.880 5.198 -7.218 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 7
+ATOM 12186 O O . VAL C 1 39 ? -12.965 4.840 -8.391 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 7
+ATOM 12187 C CB . VAL C 1 39 ? -11.524 7.357 -7.318 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 7
+ATOM 12188 C CG1 . VAL C 1 39 ? -12.905 7.967 -7.567 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 7
+ATOM 12189 C CG2 . VAL C 1 39 ? -10.677 8.262 -6.420 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 7
+ATOM 12190 H H . VAL C 1 39 ? -10.191 5.176 -7.999 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 7
+ATOM 12191 H HA . VAL C 1 39 ? -11.701 6.048 -5.640 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 7
+ATOM 12192 H HB . VAL C 1 39 ? -11.016 7.272 -8.280 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 7
+ATOM 12193 H HG11 . VAL C 1 39 ? -13.425 8.088 -6.617 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 7
+ATOM 12194 H HG12 . VAL C 1 39 ? -12.790 8.940 -8.046 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 7
+ATOM 12195 H HG13 . VAL C 1 39 ? -13.481 7.308 -8.216 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 7
+ATOM 12196 H HG21 . VAL C 1 39 ? -10.547 9.231 -6.900 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 7
+ATOM 12197 H HG22 . VAL C 1 39 ? -11.182 8.395 -5.462 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 7
+ATOM 12198 H HG23 . VAL C 1 39 ? -9.702 7.803 -6.256 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 7
+ATOM 12199 N N . VAL C 1 40 ? -13.807 4.980 -6.297 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 7
+ATOM 12200 C CA . VAL C 1 40 ? -15.035 4.276 -6.623 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 7
+ATOM 12201 C C . VAL C 1 40 ? -16.147 4.732 -5.677 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 7
+ATOM 12202 O O . VAL C 1 40 ? -16.105 4.448 -4.481 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 7
+ATOM 12203 C CB . VAL C 1 40 ? -14.799 2.765 -6.583 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 7
+ATOM 12204 C CG1 . VAL C 1 40 ? -14.087 2.356 -5.292 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 7
+ATOM 12205 C CG2 . VAL C 1 40 ? -16.112 1.999 -6.750 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 7
+ATOM 12206 H H . VAL C 1 40 ? -13.731 5.276 -5.344 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 7
+ATOM 12207 H HA . VAL C 1 40 ? -15.309 4.547 -7.643 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 7
+ATOM 12208 H HB . VAL C 1 40 ? -14.151 2.505 -7.419 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 7
+ATOM 12209 H HG11 . VAL C 1 40 ? -14.818 2.249 -4.491 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 7
+ATOM 12210 H HG12 . VAL C 1 40 ? -13.573 1.407 -5.445 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 7
+ATOM 12211 H HG13 . VAL C 1 40 ? -13.361 3.122 -5.019 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 7
+ATOM 12212 H HG21 . VAL C 1 40 ? -15.911 0.928 -6.752 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 7
+ATOM 12213 H HG22 . VAL C 1 40 ? -16.782 2.241 -5.925 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 7
+ATOM 12214 H HG23 . VAL C 1 40 ? -16.580 2.283 -7.693 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 7
+ATOM 12215 N N . ILE C 1 41 ? -17.116 5.433 -6.247 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 7
+ATOM 12216 C CA . ILE C 1 41 ? -18.237 5.932 -5.469 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 7
+ATOM 12217 C C . ILE C 1 41 ? -19.545 5.456 -6.105 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 7
+ATOM 12218 O O . ILE C 1 41 ? -19.742 5.601 -7.310 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 7
+ATOM 12219 C CB . ILE C 1 41 ? -18.147 7.451 -5.312 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 7
+ATOM 12220 C CG1 . ILE C 1 41 ? -16.927 7.844 -4.476 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 7
+ATOM 12221 C CG2 . ILE C 1 41 ? -19.444 8.020 -4.735 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 7
+ATOM 12222 C CD1 . ILE C 1 41 ? -15.866 8.528 -5.342 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 7
+ATOM 12223 H H . ILE C 1 41 ? -17.143 5.660 -7.221 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 7
+ATOM 12224 H HA . ILE C 1 41 ? -18.161 5.499 -4.472 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 7
+ATOM 12225 H HB . ILE C 1 41 ? -18.014 7.889 -6.301 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 7
+ATOM 12226 H HG12 . ILE C 1 41 ? -17.233 8.514 -3.672 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 7
+ATOM 12227 H HG13 . ILE C 1 41 ? -16.501 6.956 -4.007 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 7
+ATOM 12228 H HG21 . ILE C 1 41 ? -20.167 7.216 -4.603 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 7
+ATOM 12229 H HG22 . ILE C 1 41 ? -19.239 8.486 -3.771 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 7
+ATOM 12230 H HG23 . ILE C 1 41 ? -19.850 8.766 -5.419 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 7
+ATOM 12231 H HD11 . ILE C 1 41 ? -16.355 9.091 -6.137 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 7
+ATOM 12232 H HD12 . ILE C 1 41 ? -15.276 9.206 -4.726 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 7
+ATOM 12233 H HD13 . ILE C 1 41 ? -15.214 7.773 -5.780 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 7
+ATOM 12234 N N . ALA C 1 42 ? -20.405 4.898 -5.266 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 7
+ATOM 12235 C CA . ALA C 1 42 ? -21.689 4.400 -5.730 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 7
+ATOM 12236 C C . ALA C 1 42 ? -22.768 4.750 -4.704 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 7
+ATOM 12237 O O . ALA C 1 42 ? -22.506 4.766 -3.503 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 7
+ATOM 12238 C CB . ALA C 1 42 ? -21.591 2.894 -5.983 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 7
+ATOM 12239 H H . ALA C 1 42 ? -20.237 4.784 -4.286 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 7
+ATOM 12240 H HA . ALA C 1 42 ? -21.917 4.900 -6.671 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 7
+ATOM 12241 H HB1 . ALA C 1 42 ? -22.137 2.359 -5.206 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 7
+ATOM 12242 H HB2 . ALA C 1 42 ? -22.023 2.661 -6.956 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 7
+ATOM 12243 H HB3 . ALA C 1 42 ? -20.545 2.590 -5.967 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 7
+ATOM 12244 N N . LEU D 1 17 ? -15.988 -3.477 -17.836 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 7
+ATOM 12245 C CA . LEU D 1 17 ? -14.972 -2.814 -17.036 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 7
+ATOM 12246 C C . LEU D 1 17 ? -13.908 -3.833 -16.622 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 7
+ATOM 12247 O O . LEU D 1 17 ? -14.031 -4.475 -15.580 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 7
+ATOM 12248 C CB . LEU D 1 17 ? -15.613 -2.081 -15.856 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 7
+ATOM 12249 C CG . LEU D 1 17 ? -15.823 -0.576 -16.035 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 7
+ATOM 12250 C CD1 . LEU D 1 17 ? -16.998 -0.082 -15.190 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 7
+ATOM 12251 C CD2 . LEU D 1 17 ? -14.538 0.196 -15.735 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 7
+ATOM 12252 H H . LEU D 1 17 ? -16.080 -3.134 -18.771 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 7
+ATOM 12253 H HA . LEU D 1 17 ? -14.500 -2.060 -17.666 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 7
+ATOM 12254 H HB2 . LEU D 1 17 ? -16.580 -2.541 -15.650 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 7
+ATOM 12255 H HB3 . LEU D 1 17 ? -14.991 -2.239 -14.975 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 7
+ATOM 12256 H HG . LEU D 1 17 ? -16.076 -0.388 -17.079 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 7
+ATOM 12257 H HD11 . LEU D 1 17 ? -17.733 0.402 -15.835 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 7
+ATOM 12258 H HD12 . LEU D 1 17 ? -17.462 -0.928 -14.683 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 7
+ATOM 12259 H HD13 . LEU D 1 17 ? -16.639 0.632 -14.449 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 7
+ATOM 12260 H HD21 . LEU D 1 17 ? -14.370 0.220 -14.659 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 7
+ATOM 12261 H HD22 . LEU D 1 17 ? -13.696 -0.296 -16.223 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 7
+ATOM 12262 H HD23 . LEU D 1 17 ? -14.630 1.215 -16.112 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 7
+ATOM 12263 N N . VAL D 1 18 ? -12.889 -3.951 -17.461 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 7
+ATOM 12264 C CA . VAL D 1 18 ? -11.806 -4.882 -17.195 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 7
+ATOM 12265 C C . VAL D 1 18 ? -10.470 -4.207 -17.516 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 7
+ATOM 12266 O O . VAL D 1 18 ? -10.151 -3.977 -18.682 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 7
+ATOM 12267 C CB . VAL D 1 18 ? -12.026 -6.178 -17.979 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 7
+ATOM 12268 C CG1 . VAL D 1 18 ? -10.816 -7.106 -17.852 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 7
+ATOM 12269 C CG2 . VAL D 1 18 ? -13.307 -6.881 -17.527 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 7
+ATOM 12270 H H . VAL D 1 18 ? -12.797 -3.425 -18.307 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 7
+ATOM 12271 H HA . VAL D 1 18 ? -11.832 -5.121 -16.132 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 7
+ATOM 12272 H HB . VAL D 1 18 ? -12.139 -5.918 -19.031 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 7
+ATOM 12273 H HG11 . VAL D 1 18 ? -10.793 -7.538 -16.851 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 7
+ATOM 12274 H HG12 . VAL D 1 18 ? -10.891 -7.904 -18.590 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 7
+ATOM 12275 H HG13 . VAL D 1 18 ? -9.901 -6.538 -18.023 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 7
+ATOM 12276 H HG21 . VAL D 1 18 ? -13.434 -6.748 -16.453 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 7
+ATOM 12277 H HG22 . VAL D 1 18 ? -14.160 -6.451 -18.051 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 7
+ATOM 12278 H HG23 . VAL D 1 18 ? -13.238 -7.944 -17.757 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 7
+ATOM 12279 N N . PHE D 1 19 ? -9.726 -3.910 -16.462 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 7
+ATOM 12280 C CA . PHE D 1 19 ? -8.431 -3.267 -16.617 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 7
+ATOM 12281 C C . PHE D 1 19 ? -7.299 -4.206 -16.198 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 7
+ATOM 12282 O O . PHE D 1 19 ? -7.307 -4.739 -15.089 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 7
+ATOM 12283 C CB . PHE D 1 19 ? -8.429 -2.042 -15.701 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 7
+ATOM 12284 C CG . PHE D 1 19 ? -9.070 -0.799 -16.321 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 7
+ATOM 12285 C CD1 . PHE D 1 19 ? -10.417 -0.747 -16.499 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 7
+ATOM 12286 C CD2 . PHE D 1 19 ? -8.293 0.253 -16.694 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 7
+ATOM 12287 C CE1 . PHE D 1 19 ? -11.014 0.407 -17.074 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 7
+ATOM 12288 C CE2 . PHE D 1 19 ? -8.889 1.406 -17.269 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 7
+ATOM 12289 C CZ . PHE D 1 19 ? -10.236 1.459 -17.447 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 7
+ATOM 12290 H H . PHE D 1 19 ? -9.991 -4.101 -15.517 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 7
+ATOM 12291 H HA . PHE D 1 19 ? -8.320 -3.015 -17.672 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 7
+ATOM 12292 H HB2 . PHE D 1 19 ? -8.955 -2.289 -14.779 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 7
+ATOM 12293 H HB3 . PHE D 1 19 ? -7.399 -1.809 -15.427 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 7
+ATOM 12294 H HD1 . PHE D 1 19 ? -11.040 -1.590 -16.200 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 7
+ATOM 12295 H HD2 . PHE D 1 19 ? -7.214 0.211 -16.551 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 7
+ATOM 12296 H HE1 . PHE D 1 19 ? -12.092 0.449 -17.217 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 7
+ATOM 12297 H HE2 . PHE D 1 19 ? -8.266 2.250 -17.568 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 7
+ATOM 12298 H HZ . PHE D 1 19 ? -10.693 2.344 -17.889 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 7
+ATOM 12299 N N . PHE D 1 20 ? -6.351 -4.381 -17.107 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 7
+ATOM 12300 C CA . PHE D 1 20 ? -5.214 -5.246 -16.845 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 7
+ATOM 12301 C C . PHE D 1 20 ? -3.904 -4.572 -17.262 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 7
+ATOM 12302 O O . PHE D 1 20 ? -3.668 -4.348 -18.448 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 7
+ATOM 12303 C CB . PHE D 1 20 ? -5.411 -6.511 -17.683 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 7
+ATOM 12304 C CG . PHE D 1 20 ? -5.049 -7.805 -16.951 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 7
+ATOM 12305 C CD1 . PHE D 1 20 ? -5.990 -8.460 -16.221 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 7
+ATOM 12306 C CD2 . PHE D 1 20 ? -3.784 -8.300 -17.031 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 7
+ATOM 12307 C CE1 . PHE D 1 20 ? -5.653 -9.661 -15.542 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 7
+ATOM 12308 C CE2 . PHE D 1 20 ? -3.448 -9.501 -16.353 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 7
+ATOM 12309 C CZ . PHE D 1 20 ? -4.389 -10.156 -15.622 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 7
+ATOM 12310 H H . PHE D 1 20 ? -6.351 -3.944 -18.006 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 7
+ATOM 12311 H HA . PHE D 1 20 ? -5.194 -5.440 -15.773 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 7
+ATOM 12312 H HB2 . PHE D 1 20 ? -6.452 -6.565 -18.000 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 7
+ATOM 12313 H HB3 . PHE D 1 20 ? -4.806 -6.435 -18.586 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 7
+ATOM 12314 H HD1 . PHE D 1 20 ? -7.003 -8.063 -16.156 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 7
+ATOM 12315 H HD2 . PHE D 1 20 ? -3.030 -7.775 -17.617 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 7
+ATOM 12316 H HE1 . PHE D 1 20 ? -6.408 -10.186 -14.956 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 7
+ATOM 12317 H HE2 . PHE D 1 20 ? -2.435 -9.898 -16.417 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 7
+ATOM 12318 H HZ . PHE D 1 20 ? -4.131 -11.078 -15.101 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 7
+ATOM 12319 N N . ALA D 1 21 ? -3.088 -4.269 -16.264 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 7
+ATOM 12320 C CA . ALA D 1 21 ? -1.809 -3.625 -16.512 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 7
+ATOM 12321 C C . ALA D 1 21 ? -0.689 -4.478 -15.914 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 7
+ATOM 12322 O O . ALA D 1 21 ? -0.377 -4.359 -14.730 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 7
+ATOM 12323 C CB . ALA D 1 21 ? -1.831 -2.207 -15.939 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 7
+ATOM 12324 H H . ALA D 1 21 ? -3.287 -4.454 -15.302 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 7
+ATOM 12325 H HA . ALA D 1 21 ? -1.671 -3.565 -17.592 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 7
+ATOM 12326 H HB1 . ALA D 1 21 ? -1.408 -1.514 -16.667 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 7
+ATOM 12327 H HB2 . ALA D 1 21 ? -2.859 -1.920 -15.720 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 7
+ATOM 12328 H HB3 . ALA D 1 21 ? -1.241 -2.176 -15.023 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 7
+ATOM 12329 N N . GLU D 1 22 ? -0.113 -5.321 -16.760 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 7
+ATOM 12330 C CA . GLU D 1 22 ? 0.965 -6.194 -16.329 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 7
+ATOM 12331 C C . GLU D 1 22 ? 2.292 -5.741 -16.943 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 7
+ATOM 12332 O O . GLU D 1 22 ? 2.515 -5.908 -18.141 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 7
+ATOM 12333 C CB . GLU D 1 22 ? 0.666 -7.651 -16.684 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 7
+ATOM 12334 C CG . GLU D 1 22 ? 1.761 -8.580 -16.156 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 7
+ATOM 12335 C CD . GLU D 1 22 ? 1.174 -9.921 -15.710 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 7
+ATOM 12336 O OE1 . GLU D 1 22 ? 1.046 -10.804 -16.585 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 7
+ATOM 12337 O OE2 . GLU D 1 22 ? 0.866 -10.032 -14.503 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 7
+ATOM 12338 H H . GLU D 1 22 ? -0.373 -5.412 -17.721 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 7
+ATOM 12339 H HA . GLU D 1 22 ? 1.005 -6.091 -15.245 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 7
+ATOM 12340 H HB2 . GLU D 1 22 ? -0.296 -7.942 -16.264 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 7
+ATOM 12341 H HB3 . GLU D 1 22 ? 0.586 -7.756 -17.766 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 7
+ATOM 12342 H HG2 . GLU D 1 22 ? 2.508 -8.747 -16.933 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 7
+ATOM 12343 H HG3 . GLU D 1 22 ? 2.273 -8.106 -15.319 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 7
+ATOM 12344 N N . ASP D 1 23 ? 3.138 -5.176 -16.094 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 7
+ATOM 12345 C CA . ASP D 1 23 ? 4.436 -4.698 -16.537 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 7
+ATOM 12346 C C . ASP D 1 23 ? 5.535 -5.412 -15.748 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 7
+ATOM 12347 O O . ASP D 1 23 ? 5.583 -5.319 -14.522 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 7
+ATOM 12348 C CB . ASP D 1 23 ? 4.581 -3.194 -16.296 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 7
+ATOM 12349 C CG . ASP D 1 23 ? 5.944 -2.608 -16.666 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 7
+ATOM 12350 O OD1 . ASP D 1 23 ? 6.233 -2.569 -17.882 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 7
+ATOM 12351 O OD2 . ASP D 1 23 ? 6.667 -2.214 -15.726 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 7
+ATOM 12352 H H . ASP D 1 23 ? 2.949 -5.044 -15.120 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 7
+ATOM 12353 H HA . ASP D 1 23 ? 4.475 -4.923 -17.603 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 7
+ATOM 12354 H HB2 . ASP D 1 23 ? 3.812 -2.674 -16.866 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 7
+ATOM 12355 H HB3 . ASP D 1 23 ? 4.389 -2.991 -15.242 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 7
+ATOM 12356 N N . VAL D 1 24 ? 6.389 -6.108 -16.482 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 7
+ATOM 12357 C CA . VAL D 1 24 ? 7.484 -6.837 -15.866 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 7
+ATOM 12358 C C . VAL D 1 24 ? 8.802 -6.117 -16.161 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 7
+ATOM 12359 O O . VAL D 1 24 ? 9.510 -6.472 -17.101 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 7
+ATOM 12360 C CB . VAL D 1 24 ? 7.479 -8.291 -16.342 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 7
+ATOM 12361 C CG1 . VAL D 1 24 ? 8.158 -9.206 -15.320 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 7
+ATOM 12362 C CG2 . VAL D 1 24 ? 6.056 -8.765 -16.642 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 7
+ATOM 12363 H H . VAL D 1 24 ? 6.344 -6.178 -17.479 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 7
+ATOM 12364 H HA . VAL D 1 24 ? 7.316 -6.834 -14.789 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 7
+ATOM 12365 H HB . VAL D 1 24 ? 8.052 -8.342 -17.269 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 7
+ATOM 12366 H HG11 . VAL D 1 24 ? 9.030 -8.702 -14.904 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 7
+ATOM 12367 H HG12 . VAL D 1 24 ? 7.457 -9.438 -14.519 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 7
+ATOM 12368 H HG13 . VAL D 1 24 ? 8.469 -10.129 -15.809 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 7
+ATOM 12369 H HG21 . VAL D 1 24 ? 5.653 -8.195 -17.479 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 7
+ATOM 12370 H HG22 . VAL D 1 24 ? 6.071 -9.824 -16.897 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 7
+ATOM 12371 H HG23 . VAL D 1 24 ? 5.429 -8.611 -15.763 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 7
+ATOM 12372 N N . GLY D 1 25 ? 9.090 -5.118 -15.340 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 7
+ATOM 12373 C CA . GLY D 1 25 ? 10.309 -4.344 -15.501 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 7
+ATOM 12374 C C . GLY D 1 25 ? 11.410 -4.857 -14.571 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 7
+ATOM 12375 O O . GLY D 1 25 ? 11.222 -4.927 -13.358 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 7
+ATOM 12376 H H . GLY D 1 25 ? 8.507 -4.835 -14.577 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 7
+ATOM 12377 H HA2 . GLY D 1 25 ? 10.646 -4.401 -16.536 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 7
+ATOM 12378 H HA3 . GLY D 1 25 ? 10.108 -3.294 -15.288 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 7
+ATOM 12379 N N . SER D 1 26 ? 12.538 -5.202 -15.176 1.00 0.00 ? ? ? ? ? ? 26 SER D N 7
+ATOM 12380 C CA . SER D 1 26 ? 13.671 -5.706 -14.418 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 7
+ATOM 12381 C C . SER D 1 26 ? 14.857 -4.750 -14.552 1.00 0.00 ? ? ? ? ? ? 26 SER D C 7
+ATOM 12382 O O . SER D 1 26 ? 15.269 -4.418 -15.662 1.00 0.00 ? ? ? ? ? ? 26 SER D O 7
+ATOM 12383 C CB . SER D 1 26 ? 14.064 -7.110 -14.884 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 7
+ATOM 12384 O OG . SER D 1 26 ? 14.068 -8.047 -13.810 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 7
+ATOM 12385 H H . SER D 1 26 ? 12.684 -5.142 -16.164 1.00 0.00 ? ? ? ? ? ? 26 SER D H 7
+ATOM 12386 H HA . SER D 1 26 ? 13.328 -5.750 -13.384 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 7
+ATOM 12387 H HB2 . SER D 1 26 ? 13.369 -7.444 -15.654 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 7
+ATOM 12388 H HB3 . SER D 1 26 ? 15.054 -7.076 -15.339 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 7
+ATOM 12389 H HG . SER D 1 26 ? 13.357 -8.736 -13.955 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 7
+ATOM 12390 N N . ASN D 1 27 ? 15.373 -4.335 -13.404 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 7
+ATOM 12391 C CA . ASN D 1 27 ? 16.506 -3.424 -13.380 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 7
+ATOM 12392 C C . ASN D 1 27 ? 16.001 -1.987 -13.517 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 7
+ATOM 12393 O O . ASN D 1 27 ? 16.563 -1.197 -14.275 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 7
+ATOM 12394 C CB . ASN D 1 27 ? 17.463 -3.702 -14.541 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 7
+ATOM 12395 C CG . ASN D 1 27 ? 18.906 -3.376 -14.152 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 7
+ATOM 12396 O OD1 . ASN D 1 27 ? 19.267 -3.326 -12.988 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 7
+ATOM 12397 N ND2 . ASN D 1 27 ? 19.709 -3.158 -15.190 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 7
+ATOM 12398 H H . ASN D 1 27 ? 15.033 -4.611 -12.506 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 7
+ATOM 12399 H HA . ASN D 1 27 ? 16.998 -3.604 -12.423 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 7
+ATOM 12400 H HB2 . ASN D 1 27 ? 17.389 -4.749 -14.835 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 7
+ATOM 12401 H HB3 . ASN D 1 27 ? 17.172 -3.107 -15.407 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 7
+ATOM 12402 H HD21 . ASN D 1 27 ? 19.350 -3.214 -16.121 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 7
+ATOM 12403 H HD22 . ASN D 1 27 ? 20.673 -2.937 -15.038 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 7
+ATOM 12404 N N . LYS D 1 28 ? 14.946 -1.690 -12.772 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 7
+ATOM 12405 C CA . LYS D 1 28 ? 14.359 -0.362 -12.801 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 7
+ATOM 12406 C C . LYS D 1 28 ? 15.398 0.661 -12.339 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 7
+ATOM 12407 O O . LYS D 1 28 ? 16.347 0.313 -11.637 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 7
+ATOM 12408 C CB . LYS D 1 28 ? 13.062 -0.331 -11.989 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 7
+ATOM 12409 C CG . LYS D 1 28 ? 11.884 -0.845 -12.817 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 7
+ATOM 12410 C CD . LYS D 1 28 ? 10.561 -0.647 -12.072 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 7
+ATOM 12411 C CE . LYS D 1 28 ? 9.370 -0.812 -13.017 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 7
+ATOM 12412 N NZ . LYS D 1 28 ? 8.113 -0.944 -12.248 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 7
+ATOM 12413 H H . LYS D 1 28 ? 14.495 -2.338 -12.158 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 7
+ATOM 12414 H HA . LYS D 1 28 ? 14.095 -0.143 -13.836 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 7
+ATOM 12415 H HB2 . LYS D 1 28 ? 13.175 -0.941 -11.093 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 7
+ATOM 12416 H HB3 . LYS D 1 28 ? 12.860 0.688 -11.657 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 7
+ATOM 12417 H HG2 . LYS D 1 28 ? 11.849 -0.320 -13.772 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 7
+ATOM 12418 H HG3 . LYS D 1 28 ? 12.024 -1.903 -13.040 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 7
+ATOM 12419 H HD2 . LYS D 1 28 ? 10.488 -1.368 -11.258 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 7
+ATOM 12420 H HD3 . LYS D 1 28 ? 10.538 0.345 -11.622 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 7
+ATOM 12421 H HE2 . LYS D 1 28 ? 9.307 0.046 -13.686 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 7
+ATOM 12422 H HE3 . LYS D 1 28 ? 9.514 -1.693 -13.643 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 7
+ATOM 12423 H HZ1 . LYS D 1 28 ? 8.158 -1.761 -11.673 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 7
+ATOM 12424 H HZ2 . LYS D 1 28 ? 7.990 -0.136 -11.670 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 7
+ATOM 12425 H HZ3 . LYS D 1 28 ? 7.342 -1.022 -12.880 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 7
+ATOM 12426 N N . GLY D 1 29 ? 15.186 1.902 -12.751 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 7
+ATOM 12427 C CA . GLY D 1 29 ? 16.093 2.977 -12.388 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 7
+ATOM 12428 C C . GLY D 1 29 ? 15.749 4.262 -13.145 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 7
+ATOM 12429 O O . GLY D 1 29 ? 14.717 4.340 -13.808 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 7
+ATOM 12430 H H . GLY D 1 29 ? 14.411 2.176 -13.322 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 7
+ATOM 12431 H HA2 . GLY D 1 29 ? 16.038 3.158 -11.315 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 7
+ATOM 12432 H HA3 . GLY D 1 29 ? 17.119 2.683 -12.610 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 7
+ATOM 12433 N N . ALA D 1 30 ? 16.637 5.239 -13.020 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 7
+ATOM 12434 C CA . ALA D 1 30 ? 16.442 6.517 -13.684 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 7
+ATOM 12435 C C . ALA D 1 30 ? 15.165 7.172 -13.153 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 7
+ATOM 12436 O O . ALA D 1 30 ? 15.100 7.562 -11.988 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 7
+ATOM 12437 C CB . ALA D 1 30 ? 16.402 6.304 -15.199 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 7
+ATOM 12438 H H . ALA D 1 30 ? 17.475 5.168 -12.479 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 7
+ATOM 12439 H HA . ALA D 1 30 ? 17.294 7.151 -13.440 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 7
+ATOM 12440 H HB1 . ALA D 1 30 ? 15.666 5.537 -15.439 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 7
+ATOM 12441 H HB2 . ALA D 1 30 ? 16.127 7.238 -15.689 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 7
+ATOM 12442 H HB3 . ALA D 1 30 ? 17.385 5.987 -15.547 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 7
+ATOM 12443 N N . ILE D 1 31 ? 14.179 7.274 -14.034 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 7
+ATOM 12444 C CA . ILE D 1 31 ? 12.908 7.875 -13.669 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 7
+ATOM 12445 C C . ILE D 1 31 ? 11.771 6.925 -14.050 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 7
+ATOM 12446 O O . ILE D 1 31 ? 11.637 6.548 -15.213 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 7
+ATOM 12447 C CB . ILE D 1 31 ? 12.778 9.269 -14.287 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 7
+ATOM 12448 C CG1 . ILE D 1 31 ? 13.796 10.236 -13.678 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 7
+ATOM 12449 C CG2 . ILE D 1 31 ? 11.345 9.791 -14.164 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 7
+ATOM 12450 C CD1 . ILE D 1 31 ? 13.694 11.618 -14.326 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 7
+ATOM 12451 H H . ILE D 1 31 ? 14.241 6.954 -14.980 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 7
+ATOM 12452 H HA . ILE D 1 31 ? 12.905 8.001 -12.586 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 7
+ATOM 12453 H HB . ILE D 1 31 ? 13.002 9.193 -15.351 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 7
+ATOM 12454 H HG12 . ILE D 1 31 ? 13.626 10.320 -12.604 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 7
+ATOM 12455 H HG13 . ILE D 1 31 ? 14.803 9.841 -13.811 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 7
+ATOM 12456 H HG21 . ILE D 1 31 ? 11.365 10.826 -13.820 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 7
+ATOM 12457 H HG22 . ILE D 1 31 ? 10.856 9.741 -15.136 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 7
+ATOM 12458 H HG23 . ILE D 1 31 ? 10.797 9.180 -13.447 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 7
+ATOM 12459 H HD11 . ILE D 1 31 ? 13.596 12.377 -13.550 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 7
+ATOM 12460 H HD12 . ILE D 1 31 ? 14.592 11.812 -14.912 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 7
+ATOM 12461 H HD13 . ILE D 1 31 ? 12.821 11.651 -14.978 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 7
+ATOM 12462 N N . ILE D 1 32 ? 10.983 6.565 -13.048 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 7
+ATOM 12463 C CA . ILE D 1 32 ? 9.863 5.666 -13.263 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 7
+ATOM 12464 C C . ILE D 1 32 ? 8.573 6.343 -12.792 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 7
+ATOM 12465 O O . ILE D 1 32 ? 8.280 6.363 -11.598 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 7
+ATOM 12466 C CB . ILE D 1 32 ? 10.125 4.313 -12.599 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 7
+ATOM 12467 C CG1 . ILE D 1 32 ? 10.608 3.284 -13.622 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 7
+ATOM 12468 C CG2 . ILE D 1 32 ? 8.891 3.827 -11.837 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 7
+ATOM 12469 C CD1 . ILE D 1 32 ? 12.059 3.552 -14.026 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 7
+ATOM 12470 H H . ILE D 1 32 ? 11.101 6.876 -12.105 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 7
+ATOM 12471 H HA . ILE D 1 32 ? 9.788 5.489 -14.336 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 7
+ATOM 12472 H HB . ILE D 1 32 ? 10.924 4.441 -11.868 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 7
+ATOM 12473 H HG12 . ILE D 1 32 ? 10.523 2.281 -13.203 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 7
+ATOM 12474 H HG13 . ILE D 1 32 ? 9.969 3.316 -14.505 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 7
+ATOM 12475 H HG21 . ILE D 1 32 ? 8.976 2.757 -11.650 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 7
+ATOM 12476 H HG22 . ILE D 1 32 ? 8.818 4.357 -10.887 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 7
+ATOM 12477 H HG23 . ILE D 1 32 ? 7.998 4.021 -12.431 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 7
+ATOM 12478 H HD11 . ILE D 1 32 ? 12.693 3.531 -13.140 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 7
+ATOM 12479 H HD12 . ILE D 1 32 ? 12.389 2.786 -14.727 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 7
+ATOM 12480 H HD13 . ILE D 1 32 ? 12.130 4.532 -14.499 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 7
+ATOM 12481 N N . GLY D 1 33 ? 7.839 6.880 -13.755 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 7
+ATOM 12482 C CA . GLY D 1 33 ? 6.589 7.556 -13.453 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 7
+ATOM 12483 C C . GLY D 1 33 ? 5.391 6.734 -13.935 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 7
+ATOM 12484 O O . GLY D 1 33 ? 4.984 6.840 -15.091 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 7
+ATOM 12485 H H . GLY D 1 33 ? 8.085 6.859 -14.724 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 7
+ATOM 12486 H HA2 . GLY D 1 33 ? 6.512 7.723 -12.379 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 7
+ATOM 12487 H HA3 . GLY D 1 33 ? 6.576 8.536 -13.930 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 7
+ATOM 12488 N N . LEU D 1 34 ? 4.859 5.932 -13.023 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 7
+ATOM 12489 C CA . LEU D 1 34 ? 3.717 5.092 -13.340 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 7
+ATOM 12490 C C . LEU D 1 34 ? 2.484 5.617 -12.603 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 7
+ATOM 12491 O O . LEU D 1 34 ? 2.381 5.482 -11.384 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 7
+ATOM 12492 C CB . LEU D 1 34 ? 4.033 3.625 -13.045 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 7
+ATOM 12493 C CG . LEU D 1 34 ? 2.826 2.714 -12.808 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 7
+ATOM 12494 C CD1 . LEU D 1 34 ? 1.690 3.046 -13.777 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 7
+ATOM 12495 C CD2 . LEU D 1 34 ? 3.229 1.240 -12.881 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 7
+ATOM 12496 H H . LEU D 1 34 ? 5.196 5.851 -12.085 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 7
+ATOM 12497 H HA . LEU D 1 34 ? 3.539 5.174 -14.413 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 7
+ATOM 12498 H HB2 . LEU D 1 34 ? 4.609 3.222 -13.878 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 7
+ATOM 12499 H HB3 . LEU D 1 34 ? 4.674 3.581 -12.164 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 7
+ATOM 12500 H HG . LEU D 1 34 ? 2.454 2.896 -11.800 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 7
+ATOM 12501 H HD11 . LEU D 1 34 ? 2.108 3.390 -14.723 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 7
+ATOM 12502 H HD12 . LEU D 1 34 ? 1.087 2.155 -13.949 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 7
+ATOM 12503 H HD13 . LEU D 1 34 ? 1.065 3.830 -13.349 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 7
+ATOM 12504 H HD21 . LEU D 1 34 ? 4.312 1.154 -12.792 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 7
+ATOM 12505 H HD22 . LEU D 1 34 ? 2.754 0.692 -12.067 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 7
+ATOM 12506 H HD23 . LEU D 1 34 ? 2.909 0.822 -13.836 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 7
+ATOM 12507 N N . MET D 1 35 ? 1.579 6.204 -13.372 1.00 0.00 ? ? ? ? ? ? 35 MET D N 7
+ATOM 12508 C CA . MET D 1 35 ? 0.357 6.750 -12.806 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 7
+ATOM 12509 C C . MET D 1 35 ? -0.827 5.814 -13.055 1.00 0.00 ? ? ? ? ? ? 35 MET D C 7
+ATOM 12510 O O . MET D 1 35 ? -1.424 5.833 -14.130 1.00 0.00 ? ? ? ? ? ? 35 MET D O 7
+ATOM 12511 C CB . MET D 1 35 ? 0.069 8.115 -13.434 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 7
+ATOM 12512 C CG . MET D 1 35 ? -0.046 9.199 -12.360 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 7
+ATOM 12513 S SD . MET D 1 35 ? 0.597 10.744 -12.981 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 7
+ATOM 12514 C CE . MET D 1 35 ? 2.203 10.747 -12.203 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 7
+ATOM 12515 H H . MET D 1 35 ? 1.671 6.310 -14.362 1.00 0.00 ? ? ? ? ? ? 35 MET D H 7
+ATOM 12516 H HA . MET D 1 35 ? 0.543 6.837 -11.736 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 7
+ATOM 12517 H HB2 . MET D 1 35 ? 0.865 8.374 -14.133 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 7
+ATOM 12518 H HB3 . MET D 1 35 ? -0.856 8.068 -14.008 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 7
+ATOM 12519 H HG2 . MET D 1 35 ? -1.088 9.321 -12.065 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 7
+ATOM 12520 H HG3 . MET D 1 35 ? 0.505 8.899 -11.468 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 7
+ATOM 12521 H HE1 . MET D 1 35 ? 2.092 10.955 -11.139 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 7
+ATOM 12522 H HE2 . MET D 1 35 ? 2.673 9.772 -12.335 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 7
+ATOM 12523 H HE3 . MET D 1 35 ? 2.827 11.515 -12.660 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 7
+ATOM 12524 N N . VAL D 1 36 ? -1.132 5.016 -12.042 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 7
+ATOM 12525 C CA . VAL D 1 36 ? -2.235 4.075 -12.136 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 7
+ATOM 12526 C C . VAL D 1 36 ? -3.411 4.587 -11.302 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 7
+ATOM 12527 O O . VAL D 1 36 ? -3.386 4.510 -10.075 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 7
+ATOM 12528 C CB . VAL D 1 36 ? -1.768 2.679 -11.718 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 7
+ATOM 12529 C CG1 . VAL D 1 36 ? -0.690 2.763 -10.635 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 7
+ATOM 12530 C CG2 . VAL D 1 36 ? -2.948 1.824 -11.251 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 7
+ATOM 12531 H H . VAL D 1 36 ? -0.642 5.007 -11.170 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 7
+ATOM 12532 H HA . VAL D 1 36 ? -2.540 4.029 -13.182 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 7
+ATOM 12533 H HB . VAL D 1 36 ? -1.329 2.196 -12.591 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 7
+ATOM 12534 H HG11 . VAL D 1 36 ? -0.506 1.769 -10.228 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 7
+ATOM 12535 H HG12 . VAL D 1 36 ? 0.230 3.155 -11.069 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 7
+ATOM 12536 H HG13 . VAL D 1 36 ? -1.027 3.425 -9.838 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 7
+ATOM 12537 H HG21 . VAL D 1 36 ? -2.689 0.768 -11.339 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 7
+ATOM 12538 H HG22 . VAL D 1 36 ? -3.177 2.056 -10.211 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 7
+ATOM 12539 H HG23 . VAL D 1 36 ? -3.819 2.037 -11.871 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 7
+ATOM 12540 N N . GLY D 1 37 ? -4.413 5.099 -12.002 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 7
+ATOM 12541 C CA . GLY D 1 37 ? -5.596 5.624 -11.341 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 7
+ATOM 12542 C C . GLY D 1 37 ? -6.860 4.924 -11.844 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 7
+ATOM 12543 O O . GLY D 1 37 ? -6.886 4.405 -12.959 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 7
+ATOM 12544 H H . GLY D 1 37 ? -4.425 5.158 -13.000 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 7
+ATOM 12545 H HA2 . GLY D 1 37 ? -5.505 5.488 -10.264 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 7
+ATOM 12546 H HA3 . GLY D 1 37 ? -5.672 6.696 -11.523 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 7
+ATOM 12547 N N . GLY D 1 38 ? -7.879 4.933 -10.997 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 7
+ATOM 12548 C CA . GLY D 1 38 ? -9.144 4.306 -11.341 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 7
+ATOM 12549 C C . GLY D 1 38 ? -10.308 4.984 -10.616 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 7
+ATOM 12550 O O . GLY D 1 38 ? -10.609 4.651 -9.470 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 7
+ATOM 12551 H H . GLY D 1 38 ? -7.851 5.358 -10.092 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 7
+ATOM 12552 H HA2 . GLY D 1 38 ? -9.300 4.362 -12.418 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 7
+ATOM 12553 H HA3 . GLY D 1 38 ? -9.113 3.249 -11.078 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 7
+ATOM 12554 N N . VAL D 1 39 ? -10.931 5.924 -11.312 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 7
+ATOM 12555 C CA . VAL D 1 39 ? -12.056 6.652 -10.748 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 7
+ATOM 12556 C C . VAL D 1 39 ? -13.344 6.214 -11.448 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 7
+ATOM 12557 O O . VAL D 1 39 ? -13.477 6.363 -12.662 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 7
+ATOM 12558 C CB . VAL D 1 39 ? -11.804 8.158 -10.845 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 7
+ATOM 12559 C CG1 . VAL D 1 39 ? -11.061 8.508 -12.136 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 7
+ATOM 12560 C CG2 . VAL D 1 39 ? -13.116 8.940 -10.738 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 7
+ATOM 12561 H H . VAL D 1 39 ? -10.681 6.189 -12.243 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 7
+ATOM 12562 H HA . VAL D 1 39 ? -12.122 6.388 -9.693 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 7
+ATOM 12563 H HB . VAL D 1 39 ? -11.172 8.447 -10.006 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 7
+ATOM 12564 H HG11 . VAL D 1 39 ? -11.269 9.544 -12.405 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 7
+ATOM 12565 H HG12 . VAL D 1 39 ? -9.990 8.380 -11.984 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 7
+ATOM 12566 H HG13 . VAL D 1 39 ? -11.396 7.850 -12.938 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 7
+ATOM 12567 H HG21 . VAL D 1 39 ? -12.910 9.943 -10.363 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 7
+ATOM 12568 H HG22 . VAL D 1 39 ? -13.580 9.008 -11.722 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 7
+ATOM 12569 H HG23 . VAL D 1 39 ? -13.790 8.426 -10.053 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 7
+ATOM 12570 N N . VAL D 1 40 ? -14.260 5.682 -10.652 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 7
+ATOM 12571 C CA . VAL D 1 40 ? -15.533 5.221 -11.180 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 7
+ATOM 12572 C C . VAL D 1 40 ? -16.664 5.727 -10.284 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 7
+ATOM 12573 O O . VAL D 1 40 ? -16.708 5.413 -9.095 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 7
+ATOM 12574 C CB . VAL D 1 40 ? -15.519 3.698 -11.323 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 7
+ATOM 12575 C CG1 . VAL D 1 40 ? -14.672 3.052 -10.225 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 7
+ATOM 12576 C CG2 . VAL D 1 40 ? -16.941 3.135 -11.322 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 7
+ATOM 12577 H H . VAL D 1 40 ? -14.144 5.564 -9.666 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 7
+ATOM 12578 H HA . VAL D 1 40 ? -15.653 5.653 -12.174 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 7
+ATOM 12579 H HB . VAL D 1 40 ? -15.064 3.456 -12.283 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 7
+ATOM 12580 H HG11 . VAL D 1 40 ? -13.642 2.960 -10.567 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 7
+ATOM 12581 H HG12 . VAL D 1 40 ? -14.705 3.672 -9.329 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 7
+ATOM 12582 H HG13 . VAL D 1 40 ? -15.068 2.062 -9.996 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 7
+ATOM 12583 H HG21 . VAL D 1 40 ? -17.015 2.333 -12.057 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 7
+ATOM 12584 H HG22 . VAL D 1 40 ? -17.177 2.743 -10.333 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 7
+ATOM 12585 H HG23 . VAL D 1 40 ? -17.646 3.926 -11.577 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 7
+ATOM 12586 N N . ILE D 1 41 ? -17.552 6.503 -10.888 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 7
+ATOM 12587 C CA . ILE D 1 41 ? -18.681 7.056 -10.159 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 7
+ATOM 12588 C C . ILE D 1 41 ? -19.983 6.555 -10.787 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 7
+ATOM 12589 O O . ILE D 1 41 ? -20.178 6.670 -11.996 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 7
+ATOM 12590 C CB . ILE D 1 41 ? -18.580 8.581 -10.090 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 7
+ATOM 12591 C CG1 . ILE D 1 41 ? -17.373 9.013 -9.253 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 7
+ATOM 12592 C CG2 . ILE D 1 41 ? -19.883 9.195 -9.576 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 7
+ATOM 12593 C CD1 . ILE D 1 41 ? -16.831 10.362 -9.729 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 7
+ATOM 12594 H H . ILE D 1 41 ? -17.510 6.754 -11.855 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 7
+ATOM 12595 H HA . ILE D 1 41 ? -18.625 6.683 -9.137 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 7
+ATOM 12596 H HB . ILE D 1 41 ? -18.422 8.959 -11.100 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 7
+ATOM 12597 H HG12 . ILE D 1 41 ? -17.660 9.082 -8.204 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 7
+ATOM 12598 H HG13 . ILE D 1 41 ? -16.591 8.258 -9.320 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 7
+ATOM 12599 H HG21 . ILE D 1 41 ? -19.666 9.867 -8.745 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 7
+ATOM 12600 H HG22 . ILE D 1 41 ? -20.364 9.754 -10.379 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 7
+ATOM 12601 H HG23 . ILE D 1 41 ? -20.549 8.402 -9.236 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 7
+ATOM 12602 H HD11 . ILE D 1 41 ? -16.778 11.050 -8.885 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 7
+ATOM 12603 H HD12 . ILE D 1 41 ? -15.835 10.225 -10.150 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 7
+ATOM 12604 H HD13 . ILE D 1 41 ? -17.494 10.772 -10.491 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 7
+ATOM 12605 N N . ALA D 1 42 ? -20.840 6.008 -9.938 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 7
+ATOM 12606 C CA . ALA D 1 42 ? -22.118 5.488 -10.395 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 7
+ATOM 12607 C C . ALA D 1 42 ? -23.217 5.920 -9.421 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 7
+ATOM 12608 O O . ALA D 1 42 ? -23.431 5.275 -8.395 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 7
+ATOM 12609 C CB . ALA D 1 42 ? -22.030 3.967 -10.537 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 7
+ATOM 12610 H H . ALA D 1 42 ? -20.674 5.917 -8.956 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 7
+ATOM 12611 H HA . ALA D 1 42 ? -22.322 5.921 -11.374 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 7
+ATOM 12612 H HB1 . ALA D 1 42 ? -21.111 3.612 -10.069 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 7
+ATOM 12613 H HB2 . ALA D 1 42 ? -22.888 3.506 -10.049 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 7
+ATOM 12614 H HB3 . ALA D 1 42 ? -22.026 3.701 -11.594 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 7
+ATOM 12615 N N . LEU E 1 17 ? -15.104 -1.030 -22.042 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 7
+ATOM 12616 C CA . LEU E 1 17 ? -14.019 -0.643 -21.156 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 7
+ATOM 12617 C C . LEU E 1 17 ? -13.167 -1.872 -20.835 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 7
+ATOM 12618 O O . LEU E 1 17 ? -13.392 -2.543 -19.829 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 7
+ATOM 12619 C CB . LEU E 1 17 ? -14.568 0.066 -19.916 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 7
+ATOM 12620 C CG . LEU E 1 17 ? -14.660 1.591 -20.001 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 7
+ATOM 12621 C CD1 . LEU E 1 17 ? -15.720 2.131 -19.040 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 7
+ATOM 12622 C CD2 . LEU E 1 17 ? -13.293 2.237 -19.767 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 7
+ATOM 12623 H H . LEU E 1 17 ? -15.938 -1.335 -21.582 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 7
+ATOM 12624 H HA . LEU E 1 17 ? -13.401 0.077 -21.691 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 7
+ATOM 12625 H HB2 . LEU E 1 17 ? -15.563 -0.327 -19.707 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 7
+ATOM 12626 H HB3 . LEU E 1 17 ? -13.938 -0.193 -19.065 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 7
+ATOM 12627 H HG . LEU E 1 17 ? -14.974 1.858 -21.010 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 7
+ATOM 12628 H HD11 . LEU E 1 17 ? -15.262 2.848 -18.359 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 7
+ATOM 12629 H HD12 . LEU E 1 17 ? -16.510 2.623 -19.609 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 7
+ATOM 12630 H HD13 . LEU E 1 17 ? -16.146 1.306 -18.468 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 7
+ATOM 12631 H HD21 . LEU E 1 17 ? -12.870 2.548 -20.722 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 7
+ATOM 12632 H HD22 . LEU E 1 17 ? -13.408 3.106 -19.120 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 7
+ATOM 12633 H HD23 . LEU E 1 17 ? -12.627 1.516 -19.292 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 7
+ATOM 12634 N N . VAL E 1 18 ? -12.203 -2.129 -21.708 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 7
+ATOM 12635 C CA . VAL E 1 18 ? -11.314 -3.265 -21.529 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 7
+ATOM 12636 C C . VAL E 1 18 ? -9.885 -2.850 -21.885 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 7
+ATOM 12637 O O . VAL E 1 18 ? -9.568 -2.643 -23.055 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 7
+ATOM 12638 C CB . VAL E 1 18 ? -11.814 -4.454 -22.353 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 7
+ATOM 12639 C CG1 . VAL E 1 18 ? -10.868 -5.649 -22.220 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 7
+ATOM 12640 C CG2 . VAL E 1 18 ? -13.241 -4.836 -21.954 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 7
+ATOM 12641 H H . VAL E 1 18 ? -12.026 -1.577 -22.523 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 7
+ATOM 12642 H HA . VAL E 1 18 ? -11.347 -3.546 -20.477 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 7
+ATOM 12643 H HB . VAL E 1 18 ? -11.830 -4.153 -23.400 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 7
+ATOM 12644 H HG11 . VAL E 1 18 ? -11.143 -6.234 -21.342 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 7
+ATOM 12645 H HG12 . VAL E 1 18 ? -10.944 -6.273 -23.110 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 7
+ATOM 12646 H HG13 . VAL E 1 18 ? -9.844 -5.292 -22.112 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 7
+ATOM 12647 H HG21 . VAL E 1 18 ? -13.255 -5.149 -20.910 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 7
+ATOM 12648 H HG22 . VAL E 1 18 ? -13.898 -3.976 -22.083 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 7
+ATOM 12649 H HG23 . VAL E 1 18 ? -13.587 -5.655 -22.583 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 7
+ATOM 12650 N N . PHE E 1 19 ? -9.061 -2.741 -20.853 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 7
+ATOM 12651 C CA . PHE E 1 19 ? -7.674 -2.355 -21.042 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 7
+ATOM 12652 C C . PHE E 1 19 ? -6.729 -3.494 -20.652 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 7
+ATOM 12653 O O . PHE E 1 19 ? -6.837 -4.048 -19.559 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 7
+ATOM 12654 C CB . PHE E 1 19 ? -7.415 -1.157 -20.125 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 7
+ATOM 12655 C CG . PHE E 1 19 ? -7.969 0.166 -20.658 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 7
+ATOM 12656 C CD1 . PHE E 1 19 ? -9.311 0.385 -20.668 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 7
+ATOM 12657 C CD2 . PHE E 1 19 ? -7.119 1.122 -21.121 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 7
+ATOM 12658 C CE1 . PHE E 1 19 ? -9.825 1.613 -21.162 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 7
+ATOM 12659 C CE2 . PHE E 1 19 ? -7.634 2.349 -21.615 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 7
+ATOM 12660 C CZ . PHE E 1 19 ? -8.976 2.569 -21.625 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 7
+ATOM 12661 H H . PHE E 1 19 ? -9.327 -2.911 -19.904 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 7
+ATOM 12662 H HA . PHE E 1 19 ? -7.543 -2.123 -22.099 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 7
+ATOM 12663 H HB2 . PHE E 1 19 ? -7.854 -1.357 -19.149 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 7
+ATOM 12664 H HB3 . PHE E 1 19 ? -6.339 -1.054 -19.975 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 7
+ATOM 12665 H HD1 . PHE E 1 19 ? -9.991 -0.381 -20.296 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 7
+ATOM 12666 H HD2 . PHE E 1 19 ? -6.044 0.946 -21.114 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 7
+ATOM 12667 H HE1 . PHE E 1 19 ? -10.901 1.789 -21.169 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 7
+ATOM 12668 H HE2 . PHE E 1 19 ? -6.954 3.115 -21.987 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 7
+ATOM 12669 H HZ . PHE E 1 19 ? -9.372 3.511 -22.004 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 7
+ATOM 12670 N N . PHE E 1 20 ? -5.825 -3.810 -21.568 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 7
+ATOM 12671 C CA . PHE E 1 20 ? -4.863 -4.874 -21.334 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 7
+ATOM 12672 C C . PHE E 1 20 ? -3.472 -4.472 -21.828 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 7
+ATOM 12673 O O . PHE E 1 20 ? -3.214 -4.466 -23.030 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 7
+ATOM 12674 C CB . PHE E 1 20 ? -5.341 -6.092 -22.126 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 7
+ATOM 12675 C CG . PHE E 1 20 ? -5.537 -7.349 -21.277 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 7
+ATOM 12676 C CD1 . PHE E 1 20 ? -4.460 -8.084 -20.891 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 7
+ATOM 12677 C CD2 . PHE E 1 20 ? -6.789 -7.732 -20.908 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 7
+ATOM 12678 C CE1 . PHE E 1 20 ? -4.642 -9.251 -20.102 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 7
+ATOM 12679 C CE2 . PHE E 1 20 ? -6.971 -8.899 -20.119 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 7
+ATOM 12680 C CZ . PHE E 1 20 ? -5.894 -9.633 -19.733 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 7
+ATOM 12681 H H . PHE E 1 20 ? -5.745 -3.355 -22.454 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 7
+ATOM 12682 H HA . PHE E 1 20 ? -4.829 -5.048 -20.258 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 7
+ATOM 12683 H HB2 . PHE E 1 20 ? -6.283 -5.847 -22.617 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 7
+ATOM 12684 H HB3 . PHE E 1 20 ? -4.618 -6.307 -22.913 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 7
+ATOM 12685 H HD1 . PHE E 1 20 ? -3.457 -7.777 -21.186 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 7
+ATOM 12686 H HD2 . PHE E 1 20 ? -7.653 -7.143 -21.217 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 7
+ATOM 12687 H HE1 . PHE E 1 20 ? -3.779 -9.840 -19.792 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 7
+ATOM 12688 H HE2 . PHE E 1 20 ? -7.976 -9.205 -19.823 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 7
+ATOM 12689 H HZ . PHE E 1 20 ? -6.035 -10.529 -19.128 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 7
+ATOM 12690 N N . ALA E 1 21 ? -2.611 -4.148 -20.874 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 7
+ATOM 12691 C CA . ALA E 1 21 ? -1.253 -3.746 -21.197 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 7
+ATOM 12692 C C . ALA E 1 21 ? -0.273 -4.782 -20.641 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 7
+ATOM 12693 O O . ALA E 1 21 ? -0.259 -5.045 -19.439 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 7
+ATOM 12694 C CB . ALA E 1 21 ? -0.991 -2.343 -20.648 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 7
+ATOM 12695 H H . ALA E 1 21 ? -2.829 -4.156 -19.898 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 7
+ATOM 12696 H HA . ALA E 1 21 ? -1.163 -3.721 -22.283 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 7
+ATOM 12697 H HB1 . ALA E 1 21 ? -1.643 -1.628 -21.150 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 7
+ATOM 12698 H HB2 . ALA E 1 21 ? -1.192 -2.328 -19.577 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 7
+ATOM 12699 H HB3 . ALA E 1 21 ? 0.050 -2.071 -20.825 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 7
+ATOM 12700 N N . GLU E 1 22 ? 0.521 -5.342 -21.542 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 7
+ATOM 12701 C CA . GLU E 1 22 ? 1.500 -6.343 -21.156 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 7
+ATOM 12702 C C . GLU E 1 22 ? 2.885 -5.962 -21.684 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 7
+ATOM 12703 O O . GLU E 1 22 ? 3.104 -5.929 -22.894 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 7
+ATOM 12704 C CB . GLU E 1 22 ? 1.089 -7.732 -21.649 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 7
+ATOM 12705 C CG . GLU E 1 22 ? 1.733 -8.829 -20.799 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 7
+ATOM 12706 C CD . GLU E 1 22 ? 0.674 -9.776 -20.230 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 7
+ATOM 12707 O OE1 . GLU E 1 22 ? -0.034 -9.340 -19.297 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 7
+ATOM 12708 O OE2 . GLU E 1 22 ? 0.596 -10.913 -20.742 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 7
+ATOM 12709 H H . GLU E 1 22 ? 0.502 -5.123 -22.517 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 7
+ATOM 12710 H HA . GLU E 1 22 ? 1.506 -6.338 -20.066 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 7
+ATOM 12711 H HB2 . GLU E 1 22 ? 0.004 -7.828 -21.611 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 7
+ATOM 12712 H HB3 . GLU E 1 22 ? 1.383 -7.854 -22.691 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 7
+ATOM 12713 H HG2 . GLU E 1 22 ? 2.443 -9.393 -21.404 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 7
+ATOM 12714 H HG3 . GLU E 1 22 ? 2.298 -8.378 -19.983 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 7
+ATOM 12715 N N . ASP E 1 23 ? 3.784 -5.685 -20.751 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 7
+ATOM 12716 C CA . ASP E 1 23 ? 5.141 -5.308 -21.108 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 7
+ATOM 12717 C C . ASP E 1 23 ? 6.120 -5.964 -20.133 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 7
+ATOM 12718 O O . ASP E 1 23 ? 6.023 -5.767 -18.923 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 7
+ATOM 12719 C CB . ASP E 1 23 ? 5.332 -3.793 -21.022 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 7
+ATOM 12720 C CG . ASP E 1 23 ? 6.785 -3.319 -21.086 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 7
+ATOM 12721 O OD1 . ASP E 1 23 ? 7.639 -4.157 -21.446 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 7
+ATOM 12722 O OD2 . ASP E 1 23 ? 7.009 -2.130 -20.773 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 7
+ATOM 12723 H H . ASP E 1 23 ? 3.598 -5.715 -19.769 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 7
+ATOM 12724 H HA . ASP E 1 23 ? 5.274 -5.657 -22.132 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 7
+ATOM 12725 H HB2 . ASP E 1 23 ? 4.776 -3.325 -21.836 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 7
+ATOM 12726 H HB3 . ASP E 1 23 ? 4.889 -3.438 -20.091 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 7
+ATOM 12727 N N . VAL E 1 24 ? 7.042 -6.730 -20.696 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 7
+ATOM 12728 C CA . VAL E 1 24 ? 8.040 -7.416 -19.892 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 7
+ATOM 12729 C C . VAL E 1 24 ? 9.434 -7.102 -20.438 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 7
+ATOM 12730 O O . VAL E 1 24 ? 9.722 -7.371 -21.603 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 7
+ATOM 12731 C CB . VAL E 1 24 ? 7.738 -8.915 -19.851 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 7
+ATOM 12732 C CG1 . VAL E 1 24 ? 6.236 -9.168 -19.701 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 7
+ATOM 12733 C CG2 . VAL E 1 24 ? 8.292 -9.620 -21.090 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 7
+ATOM 12734 H H . VAL E 1 24 ? 7.115 -6.885 -21.681 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 7
+ATOM 12735 H HA . VAL E 1 24 ? 7.965 -7.028 -18.876 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 7
+ATOM 12736 H HB . VAL E 1 24 ? 8.236 -9.333 -18.976 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 7
+ATOM 12737 H HG11 . VAL E 1 24 ? 5.731 -8.230 -19.471 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 7
+ATOM 12738 H HG12 . VAL E 1 24 ? 5.842 -9.575 -20.632 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 7
+ATOM 12739 H HG13 . VAL E 1 24 ? 6.066 -9.879 -18.893 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 7
+ATOM 12740 H HG21 . VAL E 1 24 ? 7.760 -10.560 -21.241 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 7
+ATOM 12741 H HG22 . VAL E 1 24 ? 8.155 -8.982 -21.963 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 7
+ATOM 12742 H HG23 . VAL E 1 24 ? 9.354 -9.821 -20.950 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 7
+ATOM 12743 N N . GLY E 1 25 ? 10.260 -6.537 -19.571 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 7
+ATOM 12744 C CA . GLY E 1 25 ? 11.618 -6.183 -19.952 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 7
+ATOM 12745 C C . GLY E 1 25 ? 12.594 -6.432 -18.800 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 7
+ATOM 12746 O O . GLY E 1 25 ? 12.193 -6.453 -17.637 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 7
+ATOM 12747 H H . GLY E 1 25 ? 10.017 -6.321 -18.625 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 7
+ATOM 12748 H HA2 . GLY E 1 25 ? 11.918 -6.767 -20.821 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 7
+ATOM 12749 H HA3 . GLY E 1 25 ? 11.656 -5.134 -20.244 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 7
+ATOM 12750 N N . SER E 1 26 ? 13.855 -6.615 -19.163 1.00 0.00 ? ? ? ? ? ? 26 SER E N 7
+ATOM 12751 C CA . SER E 1 26 ? 14.890 -6.862 -18.175 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 7
+ATOM 12752 C C . SER E 1 26 ? 16.062 -5.902 -18.393 1.00 0.00 ? ? ? ? ? ? 26 SER E C 7
+ATOM 12753 O O . SER E 1 26 ? 17.128 -6.312 -18.847 1.00 0.00 ? ? ? ? ? ? 26 SER E O 7
+ATOM 12754 C CB . SER E 1 26 ? 15.373 -8.312 -18.235 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 7
+ATOM 12755 O OG . SER E 1 26 ? 15.011 -9.045 -17.068 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 7
+ATOM 12756 H H . SER E 1 26 ? 14.171 -6.596 -20.112 1.00 0.00 ? ? ? ? ? ? 26 SER E H 7
+ATOM 12757 H HA . SER E 1 26 ? 14.418 -6.677 -17.210 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 7
+ATOM 12758 H HB2 . SER E 1 26 ? 14.953 -8.799 -19.115 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 7
+ATOM 12759 H HB3 . SER E 1 26 ? 16.458 -8.328 -18.351 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 7
+ATOM 12760 H HG . SER E 1 26 ? 14.016 -9.086 -16.986 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 7
+ATOM 12761 N N . ASN E 1 27 ? 15.822 -4.642 -18.059 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 7
+ATOM 12762 C CA . ASN E 1 27 ? 16.844 -3.621 -18.212 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 7
+ATOM 12763 C C . ASN E 1 27 ? 16.173 -2.260 -18.408 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 7
+ATOM 12764 O O . ASN E 1 27 ? 16.562 -1.493 -19.288 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 7
+ATOM 12765 C CB . ASN E 1 27 ? 17.720 -3.897 -19.436 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 7
+ATOM 12766 C CG . ASN E 1 27 ? 19.031 -4.574 -19.032 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 7
+ATOM 12767 O OD1 . ASN E 1 27 ? 19.620 -4.279 -18.005 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 7
+ATOM 12768 N ND2 . ASN E 1 27 ? 19.453 -5.495 -19.893 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 7
+ATOM 12769 H H . ASN E 1 27 ? 14.952 -4.317 -17.690 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 7
+ATOM 12770 H HA . ASN E 1 27 ? 17.435 -3.667 -17.298 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 7
+ATOM 12771 H HB2 . ASN E 1 27 ? 17.180 -4.533 -20.138 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 7
+ATOM 12772 H HB3 . ASN E 1 27 ? 17.934 -2.962 -19.954 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 7
+ATOM 12773 H HD21 . ASN E 1 27 ? 18.921 -5.689 -20.718 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 7
+ATOM 12774 H HD22 . ASN E 1 27 ? 20.302 -5.993 -19.716 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 7
+ATOM 12775 N N . LYS E 1 28 ? 15.176 -2.001 -17.574 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 7
+ATOM 12776 C CA . LYS E 1 28 ? 14.449 -0.746 -17.644 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 7
+ATOM 12777 C C . LYS E 1 28 ? 15.328 0.381 -17.099 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 7
+ATOM 12778 O O . LYS E 1 28 ? 16.143 0.159 -16.205 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 7
+ATOM 12779 C CB . LYS E 1 28 ? 13.098 -0.870 -16.935 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 7
+ATOM 12780 C CG . LYS E 1 28 ? 11.997 -0.160 -17.725 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 7
+ATOM 12781 C CD . LYS E 1 28 ? 10.792 -1.079 -17.934 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 7
+ATOM 12782 C CE . LYS E 1 28 ? 9.505 -0.419 -17.434 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 7
+ATOM 12783 N NZ . LYS E 1 28 ? 8.422 -1.421 -17.310 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 7
+ATOM 12784 H H . LYS E 1 28 ? 14.866 -2.631 -16.861 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 7
+ATOM 12785 H HA . LYS E 1 28 ? 14.242 -0.546 -18.696 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 7
+ATOM 12786 H HB2 . LYS E 1 28 ? 12.842 -1.922 -16.813 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 7
+ATOM 12787 H HB3 . LYS E 1 28 ? 13.168 -0.442 -15.936 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 7
+ATOM 12788 H HG2 . LYS E 1 28 ? 11.684 0.739 -17.193 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 7
+ATOM 12789 H HG3 . LYS E 1 28 ? 12.387 0.161 -18.691 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 7
+ATOM 12790 H HD2 . LYS E 1 28 ? 10.693 -1.320 -18.992 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 7
+ATOM 12791 H HD3 . LYS E 1 28 ? 10.951 -2.019 -17.406 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 7
+ATOM 12792 H HE2 . LYS E 1 28 ? 9.684 0.054 -16.468 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 7
+ATOM 12793 H HE3 . LYS E 1 28 ? 9.203 0.369 -18.123 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 7
+ATOM 12794 H HZ1 . LYS E 1 28 ? 8.818 -2.314 -17.094 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 7
+ATOM 12795 H HZ2 . LYS E 1 28 ? 7.797 -1.147 -16.579 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 7
+ATOM 12796 H HZ3 . LYS E 1 28 ? 7.922 -1.478 -18.173 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 7
+ATOM 12797 N N . GLY E 1 29 ? 15.134 1.565 -17.661 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 7
+ATOM 12798 C CA . GLY E 1 29 ? 15.898 2.726 -17.243 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 7
+ATOM 12799 C C . GLY E 1 29 ? 15.450 3.979 -17.997 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 7
+ATOM 12800 O O . GLY E 1 29 ? 14.422 3.968 -18.671 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 7
+ATOM 12801 H H . GLY E 1 29 ? 14.468 1.736 -18.388 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 7
+ATOM 12802 H HA2 . GLY E 1 29 ? 15.776 2.880 -16.170 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 7
+ATOM 12803 H HA3 . GLY E 1 29 ? 16.960 2.551 -17.421 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 7
+ATOM 12804 N N . ALA E 1 30 ? 16.245 5.031 -17.859 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 7
+ATOM 12805 C CA . ALA E 1 30 ? 15.943 6.289 -18.519 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 7
+ATOM 12806 C C . ALA E 1 30 ? 14.612 6.829 -17.993 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 7
+ATOM 12807 O O . ALA E 1 30 ? 14.269 6.623 -16.830 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 7
+ATOM 12808 C CB . ALA E 1 30 ? 15.929 6.080 -20.035 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 7
+ATOM 12809 H H . ALA E 1 30 ? 17.081 5.032 -17.309 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 7
+ATOM 12810 H HA . ALA E 1 30 ? 16.736 6.994 -18.269 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 7
+ATOM 12811 H HB1 . ALA E 1 30 ? 14.901 5.949 -20.374 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 7
+ATOM 12812 H HB2 . ALA E 1 30 ? 16.365 6.951 -20.525 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 7
+ATOM 12813 H HB3 . ALA E 1 30 ? 16.511 5.193 -20.285 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 7
+ATOM 12814 N N . ILE E 1 31 ? 13.894 7.510 -18.876 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 7
+ATOM 12815 C CA . ILE E 1 31 ? 12.608 8.081 -18.515 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 7
+ATOM 12816 C C . ILE E 1 31 ? 11.512 7.036 -18.732 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 7
+ATOM 12817 O O . ILE E 1 31 ? 11.177 6.711 -19.870 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 7
+ATOM 12818 C CB . ILE E 1 31 ? 12.370 9.389 -19.273 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 7
+ATOM 12819 C CG1 . ILE E 1 31 ? 13.641 10.241 -19.308 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 7
+ATOM 12820 C CG2 . ILE E 1 31 ? 11.182 10.154 -18.688 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 7
+ATOM 12821 C CD1 . ILE E 1 31 ? 13.967 10.795 -17.920 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 7
+ATOM 12822 H H . ILE E 1 31 ? 14.179 7.673 -19.820 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 7
+ATOM 12823 H HA . ILE E 1 31 ? 12.646 8.327 -17.454 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 7
+ATOM 12824 H HB . ILE E 1 31 ? 12.120 9.144 -20.305 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 7
+ATOM 12825 H HG12 . ILE E 1 31 ? 14.477 9.641 -19.670 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 7
+ATOM 12826 H HG13 . ILE E 1 31 ? 13.512 11.064 -20.011 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 7
+ATOM 12827 H HG21 . ILE E 1 31 ? 10.688 10.717 -19.479 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 7
+ATOM 12828 H HG22 . ILE E 1 31 ? 10.477 9.449 -18.248 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 7
+ATOM 12829 H HG23 . ILE E 1 31 ? 11.536 10.841 -17.920 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 7
+ATOM 12830 H HD11 . ILE E 1 31 ? 15.046 10.931 -17.827 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 7
+ATOM 12831 H HD12 . ILE E 1 31 ? 13.467 11.754 -17.784 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 7
+ATOM 12832 H HD13 . ILE E 1 31 ? 13.623 10.094 -17.159 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 7
+ATOM 12833 N N . ILE E 1 32 ? 10.986 6.539 -17.623 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 7
+ATOM 12834 C CA . ILE E 1 32 ? 9.934 5.537 -17.678 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 7
+ATOM 12835 C C . ILE E 1 32 ? 8.620 6.155 -17.194 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 7
+ATOM 12836 O O . ILE E 1 32 ? 8.198 5.917 -16.064 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 7
+ATOM 12837 C CB . ILE E 1 32 ? 10.347 4.284 -16.903 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 7
+ATOM 12838 C CG1 . ILE E 1 32 ? 11.568 3.622 -17.542 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 7
+ATOM 12839 C CG2 . ILE E 1 32 ? 9.172 3.312 -16.768 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 7
+ATOM 12840 C CD1 . ILE E 1 32 ? 11.248 3.129 -18.955 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 7
+ATOM 12841 H H . ILE E 1 32 ? 11.264 6.809 -16.702 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 7
+ATOM 12842 H HA . ILE E 1 32 ? 9.814 5.246 -18.722 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 7
+ATOM 12843 H HB . ILE E 1 32 ? 10.634 4.585 -15.896 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 7
+ATOM 12844 H HG12 . ILE E 1 32 ? 12.394 4.333 -17.580 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 7
+ATOM 12845 H HG13 . ILE E 1 32 ? 11.896 2.785 -16.926 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 7
+ATOM 12846 H HG21 . ILE E 1 32 ? 9.535 2.353 -16.398 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 7
+ATOM 12847 H HG22 . ILE E 1 32 ? 8.443 3.719 -16.067 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 7
+ATOM 12848 H HG23 . ILE E 1 32 ? 8.703 3.172 -17.741 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 7
+ATOM 12849 H HD11 . ILE E 1 32 ? 11.703 3.798 -19.685 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 7
+ATOM 12850 H HD12 . ILE E 1 32 ? 11.646 2.122 -19.087 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 7
+ATOM 12851 H HD13 . ILE E 1 32 ? 10.168 3.114 -19.099 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 7
+ATOM 12852 N N . GLY E 1 33 ? 8.012 6.938 -18.073 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 7
+ATOM 12853 C CA . GLY E 1 33 ? 6.755 7.592 -17.750 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 7
+ATOM 12854 C C . GLY E 1 33 ? 5.578 6.878 -18.417 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 7
+ATOM 12855 O O . GLY E 1 33 ? 5.361 7.022 -19.619 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 7
+ATOM 12856 H H . GLY E 1 33 ? 8.363 7.127 -18.991 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 7
+ATOM 12857 H HA2 . GLY E 1 33 ? 6.615 7.601 -16.669 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 7
+ATOM 12858 H HA3 . GLY E 1 33 ? 6.788 8.631 -18.076 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 7
+ATOM 12859 N N . LEU E 1 34 ? 4.849 6.125 -17.608 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 7
+ATOM 12860 C CA . LEU E 1 34 ? 3.699 5.389 -18.105 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 7
+ATOM 12861 C C . LEU E 1 34 ? 2.450 5.822 -17.335 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 7
+ATOM 12862 O O . LEU E 1 34 ? 2.509 6.056 -16.129 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 7
+ATOM 12863 C CB . LEU E 1 34 ? 3.963 3.883 -18.050 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 7
+ATOM 12864 C CG . LEU E 1 34 ? 4.359 3.320 -16.684 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 7
+ATOM 12865 C CD1 . LEU E 1 34 ? 3.874 1.878 -16.522 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 7
+ATOM 12866 C CD2 . LEU E 1 34 ? 5.868 3.445 -16.457 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 7
+ATOM 12867 H H . LEU E 1 34 ? 5.031 6.014 -16.631 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 7
+ATOM 12868 H HA . LEU E 1 34 ? 3.569 5.655 -19.153 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 7
+ATOM 12869 H HB2 . LEU E 1 34 ? 3.065 3.364 -18.387 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 7
+ATOM 12870 H HB3 . LEU E 1 34 ? 4.753 3.646 -18.762 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 7
+ATOM 12871 H HG . LEU E 1 34 ? 3.868 3.914 -15.914 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 7
+ATOM 12872 H HD11 . LEU E 1 34 ? 3.569 1.487 -17.493 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 7
+ATOM 12873 H HD12 . LEU E 1 34 ? 4.681 1.266 -16.120 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 7
+ATOM 12874 H HD13 . LEU E 1 34 ? 3.025 1.855 -15.838 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 7
+ATOM 12875 H HD21 . LEU E 1 34 ? 6.377 3.491 -17.419 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 7
+ATOM 12876 H HD22 . LEU E 1 34 ? 6.075 4.355 -15.892 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 7
+ATOM 12877 H HD23 . LEU E 1 34 ? 6.224 2.581 -15.897 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 7
+ATOM 12878 N N . MET E 1 35 ? 1.348 5.917 -18.064 1.00 0.00 ? ? ? ? ? ? 35 MET E N 7
+ATOM 12879 C CA . MET E 1 35 ? 0.086 6.318 -17.465 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 7
+ATOM 12880 C C . MET E 1 35 ? -0.992 5.256 -17.693 1.00 0.00 ? ? ? ? ? ? 35 MET E C 7
+ATOM 12881 O O . MET E 1 35 ? -0.958 4.537 -18.690 1.00 0.00 ? ? ? ? ? ? 35 MET E O 7
+ATOM 12882 C CB . MET E 1 35 ? -0.369 7.646 -18.074 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 7
+ATOM 12883 C CG . MET E 1 35 ? -0.403 8.751 -17.017 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 7
+ATOM 12884 S SD . MET E 1 35 ? 0.275 10.260 -17.688 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 7
+ATOM 12885 C CE . MET E 1 35 ? 1.959 10.127 -17.109 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 7
+ATOM 12886 H H . MET E 1 35 ? 1.308 5.725 -19.045 1.00 0.00 ? ? ? ? ? ? 35 MET E H 7
+ATOM 12887 H HA . MET E 1 35 ? 0.287 6.419 -16.399 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 7
+ATOM 12888 H HB2 . MET E 1 35 ? 0.307 7.931 -18.881 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 7
+ATOM 12889 H HB3 . MET E 1 35 ? -1.359 7.528 -18.515 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 7
+ATOM 12890 H HG2 . MET E 1 35 ? -1.428 8.919 -16.687 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 7
+ATOM 12891 H HG3 . MET E 1 35 ? 0.168 8.445 -16.140 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 7
+ATOM 12892 H HE1 . MET E 1 35 ? 2.176 10.953 -16.432 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 7
+ATOM 12893 H HE2 . MET E 1 35 ? 2.088 9.182 -16.583 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 7
+ATOM 12894 H HE3 . MET E 1 35 ? 2.638 10.166 -17.960 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 7
+ATOM 12895 N N . VAL E 1 36 ? -1.922 5.192 -16.752 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 7
+ATOM 12896 C CA . VAL E 1 36 ? -3.007 4.230 -16.837 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 7
+ATOM 12897 C C . VAL E 1 36 ? -4.131 4.650 -15.887 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 7
+ATOM 12898 O O . VAL E 1 36 ? -4.186 4.194 -14.746 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 7
+ATOM 12899 C CB . VAL E 1 36 ? -2.481 2.821 -16.556 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 7
+ATOM 12900 C CG1 . VAL E 1 36 ? -1.310 2.859 -15.573 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 7
+ATOM 12901 C CG2 . VAL E 1 36 ? -3.599 1.911 -16.042 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 7
+ATOM 12902 H H . VAL E 1 36 ? -1.942 5.781 -15.944 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 7
+ATOM 12903 H HA . VAL E 1 36 ? -3.386 4.251 -17.859 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 7
+ATOM 12904 H HB . VAL E 1 36 ? -2.117 2.406 -17.496 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 7
+ATOM 12905 H HG11 . VAL E 1 36 ? -1.350 3.783 -14.995 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 7
+ATOM 12906 H HG12 . VAL E 1 36 ? -1.373 2.005 -14.899 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 7
+ATOM 12907 H HG13 . VAL E 1 36 ? -0.371 2.817 -16.125 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 7
+ATOM 12908 H HG21 . VAL E 1 36 ? -3.721 2.056 -14.969 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 7
+ATOM 12909 H HG22 . VAL E 1 36 ? -4.531 2.158 -16.550 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 7
+ATOM 12910 H HG23 . VAL E 1 36 ? -3.341 0.871 -16.241 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 7
+ATOM 12911 N N . GLY E 1 37 ? -4.999 5.513 -16.392 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 7
+ATOM 12912 C CA . GLY E 1 37 ? -6.117 5.999 -15.603 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 7
+ATOM 12913 C C . GLY E 1 37 ? -7.450 5.525 -16.188 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 7
+ATOM 12914 O O . GLY E 1 37 ? -7.660 5.597 -17.398 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 7
+ATOM 12915 H H . GLY E 1 37 ? -4.947 5.879 -17.322 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 7
+ATOM 12916 H HA2 . GLY E 1 37 ? -6.023 5.648 -14.575 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 7
+ATOM 12917 H HA3 . GLY E 1 37 ? -6.098 7.089 -15.570 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 7
+ATOM 12918 N N . GLY E 1 38 ? -8.313 5.051 -15.303 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 7
+ATOM 12919 C CA . GLY E 1 38 ? -9.618 4.565 -15.717 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 7
+ATOM 12920 C C . GLY E 1 38 ? -10.738 5.421 -15.119 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 7
+ATOM 12921 O O . GLY E 1 38 ? -11.073 5.279 -13.944 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 7
+ATOM 12922 H H . GLY E 1 38 ? -8.134 4.996 -14.321 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 7
+ATOM 12923 H HA2 . GLY E 1 38 ? -9.688 4.578 -16.804 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 7
+ATOM 12924 H HA3 . GLY E 1 38 ? -9.741 3.529 -15.402 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 7
+ATOM 12925 N N . VAL E 1 39 ? -11.283 6.292 -15.956 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 7
+ATOM 12926 C CA . VAL E 1 39 ? -12.356 7.171 -15.525 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 7
+ATOM 12927 C C . VAL E 1 39 ? -13.672 6.707 -16.153 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 7
+ATOM 12928 O O . VAL E 1 39 ? -13.757 6.529 -17.367 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 7
+ATOM 12929 C CB . VAL E 1 39 ? -12.012 8.623 -15.863 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 7
+ATOM 12930 C CG1 . VAL E 1 39 ? -13.196 9.549 -15.576 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 7
+ATOM 12931 C CG2 . VAL E 1 39 ? -10.762 9.080 -15.108 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 7
+ATOM 12932 H H . VAL E 1 39 ? -11.004 6.401 -16.910 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 7
+ATOM 12933 H HA . VAL E 1 39 ? -12.436 7.087 -14.441 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 7
+ATOM 12934 H HB . VAL E 1 39 ? -11.797 8.676 -16.930 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 7
+ATOM 12935 H HG11 . VAL E 1 39 ? -14.102 9.126 -16.011 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 7
+ATOM 12936 H HG12 . VAL E 1 39 ? -13.325 9.650 -14.498 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 7
+ATOM 12937 H HG13 . VAL E 1 39 ? -13.005 10.528 -16.013 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 7
+ATOM 12938 H HG21 . VAL E 1 39 ? -10.313 8.227 -14.599 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 7
+ATOM 12939 H HG22 . VAL E 1 39 ? -10.045 9.500 -15.813 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 7
+ATOM 12940 H HG23 . VAL E 1 39 ? -11.037 9.837 -14.374 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 7
+ATOM 12941 N N . VAL E 1 40 ? -14.668 6.525 -15.297 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 7
+ATOM 12942 C CA . VAL E 1 40 ? -15.976 6.086 -15.752 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 7
+ATOM 12943 C C . VAL E 1 40 ? -17.045 6.588 -14.781 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 7
+ATOM 12944 O O . VAL E 1 40 ? -17.234 6.014 -13.709 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 7
+ATOM 12945 C CB . VAL E 1 40 ? -15.988 4.565 -15.920 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 7
+ATOM 12946 C CG1 . VAL E 1 40 ? -15.063 3.894 -14.903 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 7
+ATOM 12947 C CG2 . VAL E 1 40 ? -17.410 4.013 -15.815 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 7
+ATOM 12948 H H . VAL E 1 40 ? -14.592 6.673 -14.311 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 7
+ATOM 12949 H HA . VAL E 1 40 ? -16.151 6.534 -16.730 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 7
+ATOM 12950 H HB . VAL E 1 40 ? -15.613 4.335 -16.917 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 7
+ATOM 12951 H HG11 . VAL E 1 40 ? -14.877 4.577 -14.074 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 7
+ATOM 12952 H HG12 . VAL E 1 40 ? -15.533 2.986 -14.527 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 7
+ATOM 12953 H HG13 . VAL E 1 40 ? -14.118 3.641 -15.383 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 7
+ATOM 12954 H HG21 . VAL E 1 40 ? -17.536 3.195 -16.525 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 7
+ATOM 12955 H HG22 . VAL E 1 40 ? -17.583 3.645 -14.803 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 7
+ATOM 12956 H HG23 . VAL E 1 40 ? -18.125 4.804 -16.041 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 7
+ATOM 12957 N N . ILE E 1 41 ? -17.716 7.655 -15.189 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 7
+ATOM 12958 C CA . ILE E 1 41 ? -18.761 8.241 -14.368 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 7
+ATOM 12959 C C . ILE E 1 41 ? -20.116 8.035 -15.050 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 7
+ATOM 12960 O O . ILE E 1 41 ? -20.313 8.455 -16.189 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 7
+ATOM 12961 C CB . ILE E 1 41 ? -18.444 9.707 -14.062 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 7
+ATOM 12962 C CG1 . ILE E 1 41 ? -17.132 9.833 -13.286 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 7
+ATOM 12963 C CG2 . ILE E 1 41 ? -19.609 10.379 -13.333 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 7
+ATOM 12964 C CD1 . ILE E 1 41 ? -16.001 10.317 -14.197 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 7
+ATOM 12965 H H . ILE E 1 41 ? -17.556 8.116 -16.062 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 7
+ATOM 12966 H HA . ILE E 1 41 ? -18.768 7.708 -13.418 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 7
+ATOM 12967 H HB . ILE E 1 41 ? -18.311 10.232 -15.008 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 7
+ATOM 12968 H HG12 . ILE E 1 41 ? -17.260 10.530 -12.458 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 7
+ATOM 12969 H HG13 . ILE E 1 41 ? -16.868 8.869 -12.853 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 7
+ATOM 12970 H HG21 . ILE E 1 41 ? -19.238 11.235 -12.768 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 7
+ATOM 12971 H HG22 . ILE E 1 41 ? -20.347 10.716 -14.060 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 7
+ATOM 12972 H HG23 . ILE E 1 41 ? -20.070 9.665 -12.650 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 7
+ATOM 12973 H HD11 . ILE E 1 41 ? -15.161 10.650 -13.587 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 7
+ATOM 12974 H HD12 . ILE E 1 41 ? -15.679 9.500 -14.843 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 7
+ATOM 12975 H HD13 . ILE E 1 41 ? -16.358 11.146 -14.809 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 7
+ATOM 12976 N N . ALA E 1 42 ? -21.015 7.387 -14.324 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 7
+ATOM 12977 C CA . ALA E 1 42 ? -22.345 7.119 -14.844 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 7
+ATOM 12978 C C . ALA E 1 42 ? -23.389 7.618 -13.843 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 7
+ATOM 12979 O O . ALA E 1 42 ? -23.651 6.964 -12.835 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 7
+ATOM 12980 C CB . ALA E 1 42 ? -22.487 5.624 -15.138 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 7
+ATOM 12981 H H . ALA E 1 42 ? -20.847 7.048 -13.398 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 7
+ATOM 12982 H HA . ALA E 1 42 ? -22.454 7.672 -15.777 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 7
+ATOM 12983 H HB1 . ALA E 1 42 ? -22.397 5.061 -14.209 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 7
+ATOM 12984 H HB2 . ALA E 1 42 ? -23.462 5.433 -15.586 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 7
+ATOM 12985 H HB3 . ALA E 1 42 ? -21.702 5.314 -15.828 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 7
+ATOM 12986 N N . LEU A 1 17 ? -16.110 -5.476 -4.910 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 8
+ATOM 12987 C CA . LEU A 1 17 ? -14.894 -4.710 -5.125 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 8
+ATOM 12988 C C . LEU A 1 17 ? -13.912 -4.991 -3.985 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 8
+ATOM 12989 O O . LEU A 1 17 ? -14.175 -4.644 -2.835 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 8
+ATOM 12990 C CB . LEU A 1 17 ? -15.220 -3.226 -5.304 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 8
+ATOM 12991 C CG . LEU A 1 17 ? -16.042 -2.580 -4.187 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 8
+ATOM 12992 C CD1 . LEU A 1 17 ? -15.636 -1.119 -3.983 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 8
+ATOM 12993 C CD2 . LEU A 1 17 ? -17.541 -2.726 -4.455 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 8
+ATOM 12994 H H . LEU A 1 17 ? -16.949 -4.933 -4.864 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 8
+ATOM 12995 H HA . LEU A 1 17 ? -14.449 -5.058 -6.057 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 8
+ATOM 12996 H HB2 . LEU A 1 17 ? -14.283 -2.678 -5.402 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 8
+ATOM 12997 H HB3 . LEU A 1 17 ? -15.760 -3.104 -6.243 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 8
+ATOM 12998 H HG . LEU A 1 17 ? -15.828 -3.107 -3.257 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 8
+ATOM 12999 H HD11 . LEU A 1 17 ? -16.359 -0.469 -4.475 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 8
+ATOM 13000 H HD12 . LEU A 1 17 ? -15.612 -0.895 -2.916 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 8
+ATOM 13001 H HD13 . LEU A 1 17 ? -14.647 -0.953 -4.411 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 8
+ATOM 13002 H HD21 . LEU A 1 17 ? -17.697 -3.035 -5.489 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 8
+ATOM 13003 H HD22 . LEU A 1 17 ? -17.958 -3.478 -3.785 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 8
+ATOM 13004 H HD23 . LEU A 1 17 ? -18.036 -1.770 -4.282 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 8
+ATOM 13005 N N . VAL A 1 18 ? -12.801 -5.616 -4.345 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 8
+ATOM 13006 C CA . VAL A 1 18 ? -11.778 -5.947 -3.367 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 8
+ATOM 13007 C C . VAL A 1 18 ? -10.513 -5.141 -3.666 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 8
+ATOM 13008 O O . VAL A 1 18 ? -9.819 -5.408 -4.645 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 8
+ATOM 13009 C CB . VAL A 1 18 ? -11.535 -7.458 -3.355 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 8
+ATOM 13010 C CG1 . VAL A 1 18 ? -10.252 -7.801 -2.595 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 8
+ATOM 13011 C CG2 . VAL A 1 18 ? -12.736 -8.202 -2.768 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 8
+ATOM 13012 H H . VAL A 1 18 ? -12.595 -5.895 -5.283 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 8
+ATOM 13013 H HA . VAL A 1 18 ? -12.155 -5.658 -2.386 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 8
+ATOM 13014 H HB . VAL A 1 18 ? -11.411 -7.785 -4.387 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 8
+ATOM 13015 H HG11 . VAL A 1 18 ? -9.426 -7.212 -2.993 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 8
+ATOM 13016 H HG12 . VAL A 1 18 ? -10.385 -7.572 -1.537 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 8
+ATOM 13017 H HG13 . VAL A 1 18 ? -10.033 -8.862 -2.713 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 8
+ATOM 13018 H HG21 . VAL A 1 18 ? -12.389 -9.081 -2.225 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 8
+ATOM 13019 H HG22 . VAL A 1 18 ? -13.274 -7.543 -2.086 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 8
+ATOM 13020 H HG23 . VAL A 1 18 ? -13.401 -8.512 -3.574 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 8
+ATOM 13021 N N . PHE A 1 19 ? -10.251 -4.170 -2.803 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 8
+ATOM 13022 C CA . PHE A 1 19 ? -9.082 -3.322 -2.962 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 8
+ATOM 13023 C C . PHE A 1 19 ? -7.878 -3.905 -2.220 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 8
+ATOM 13024 O O . PHE A 1 19 ? -7.883 -3.992 -0.993 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 8
+ATOM 13025 C CB . PHE A 1 19 ? -9.430 -1.961 -2.356 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 8
+ATOM 13026 C CG . PHE A 1 19 ? -9.869 -0.916 -3.384 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 8
+ATOM 13027 C CD1 . PHE A 1 19 ? -10.921 -1.171 -4.206 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 8
+ATOM 13028 C CD2 . PHE A 1 19 ? -9.206 0.268 -3.476 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 8
+ATOM 13029 C CE1 . PHE A 1 19 ? -11.329 -0.201 -5.160 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 8
+ATOM 13030 C CE2 . PHE A 1 19 ? -9.613 1.238 -4.430 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 8
+ATOM 13031 C CZ . PHE A 1 19 ? -10.666 0.983 -5.252 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 8
+ATOM 13032 H H . PHE A 1 19 ? -10.821 -3.959 -2.009 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 8
+ATOM 13033 H HA . PHE A 1 19 ? -8.860 -3.273 -4.028 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 8
+ATOM 13034 H HB2 . PHE A 1 19 ? -10.227 -2.094 -1.625 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 8
+ATOM 13035 H HB3 . PHE A 1 19 ? -8.562 -1.583 -1.816 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 8
+ATOM 13036 H HD1 . PHE A 1 19 ? -11.453 -2.120 -4.133 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 8
+ATOM 13037 H HD2 . PHE A 1 19 ? -8.362 0.472 -2.817 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 8
+ATOM 13038 H HE1 . PHE A 1 19 ? -12.172 -0.406 -5.819 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 8
+ATOM 13039 H HE2 . PHE A 1 19 ? -9.081 2.186 -4.503 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 8
+ATOM 13040 H HZ . PHE A 1 19 ? -10.978 1.727 -5.984 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 8
+ATOM 13041 N N . PHE A 1 20 ? -6.874 -4.289 -2.995 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 8
+ATOM 13042 C CA . PHE A 1 20 ? -5.665 -4.861 -2.426 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 8
+ATOM 13043 C C . PHE A 1 20 ? -4.416 -4.241 -3.056 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 8
+ATOM 13044 O O . PHE A 1 20 ? -4.400 -3.946 -4.250 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 8
+ATOM 13045 C CB . PHE A 1 20 ? -5.690 -6.358 -2.737 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 8
+ATOM 13046 C CG . PHE A 1 20 ? -4.932 -7.217 -1.723 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 8
+ATOM 13047 C CD1 . PHE A 1 20 ? -3.583 -7.092 -1.599 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 8
+ATOM 13048 C CD2 . PHE A 1 20 ? -5.606 -8.106 -0.946 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 8
+ATOM 13049 C CE1 . PHE A 1 20 ? -2.880 -7.889 -0.658 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 8
+ATOM 13050 C CE2 . PHE A 1 20 ? -4.903 -8.903 -0.005 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 8
+ATOM 13051 C CZ . PHE A 1 20 ? -3.554 -8.778 0.120 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 8
+ATOM 13052 H H . PHE A 1 20 ? -6.878 -4.214 -3.992 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 8
+ATOM 13053 H HA . PHE A 1 20 ? -5.677 -4.644 -1.358 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 8
+ATOM 13054 H HB2 . PHE A 1 20 ? -6.726 -6.694 -2.780 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 8
+ATOM 13055 H HB3 . PHE A 1 20 ? -5.262 -6.520 -3.727 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 8
+ATOM 13056 H HD1 . PHE A 1 20 ? -3.042 -6.379 -2.222 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 8
+ATOM 13057 H HD2 . PHE A 1 20 ? -6.687 -8.207 -1.046 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 8
+ATOM 13058 H HE1 . PHE A 1 20 ? -1.799 -7.788 -0.558 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 8
+ATOM 13059 H HE2 . PHE A 1 20 ? -5.444 -9.616 0.618 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 8
+ATOM 13060 H HZ . PHE A 1 20 ? -3.014 -9.390 0.842 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 8
+ATOM 13061 N N . ALA A 1 21 ? -3.400 -4.061 -2.225 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 8
+ATOM 13062 C CA . ALA A 1 21 ? -2.150 -3.482 -2.685 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 8
+ATOM 13063 C C . ALA A 1 21 ? -0.982 -4.172 -1.979 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 8
+ATOM 13064 O O . ALA A 1 21 ? -0.917 -4.190 -0.751 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 8
+ATOM 13065 C CB . ALA A 1 21 ? -2.167 -1.971 -2.443 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 8
+ATOM 13066 H H . ALA A 1 21 ? -3.422 -4.303 -1.255 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 8
+ATOM 13067 H HA . ALA A 1 21 ? -2.075 -3.664 -3.757 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 8
+ATOM 13068 H HB1 . ALA A 1 21 ? -1.853 -1.454 -3.349 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 8
+ATOM 13069 H HB2 . ALA A 1 21 ? -3.176 -1.657 -2.176 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 8
+ATOM 13070 H HB3 . ALA A 1 21 ? -1.484 -1.726 -1.630 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 8
+ATOM 13071 N N . GLU A 1 22 ? -0.088 -4.725 -2.785 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 8
+ATOM 13072 C CA . GLU A 1 22 ? 1.074 -5.416 -2.253 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 8
+ATOM 13073 C C . GLU A 1 22 ? 2.324 -5.050 -3.057 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 8
+ATOM 13074 O O . GLU A 1 22 ? 2.255 -4.879 -4.273 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 8
+ATOM 13075 C CB . GLU A 1 22 ? 0.855 -6.930 -2.240 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 8
+ATOM 13076 C CG . GLU A 1 22 ? 1.732 -7.602 -1.182 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 8
+ATOM 13077 C CD . GLU A 1 22 ? 1.881 -9.099 -1.464 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 8
+ATOM 13078 O OE1 . GLU A 1 22 ? 2.667 -9.429 -2.378 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 8
+ATOM 13079 O OE2 . GLU A 1 22 ? 1.204 -9.879 -0.759 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 8
+ATOM 13080 H H . GLU A 1 22 ? -0.148 -4.707 -3.783 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 8
+ATOM 13081 H HA . GLU A 1 22 ? 1.178 -5.061 -1.227 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 8
+ATOM 13082 H HB2 . GLU A 1 22 ? -0.195 -7.147 -2.038 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 8
+ATOM 13083 H HB3 . GLU A 1 22 ? 1.082 -7.343 -3.223 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 8
+ATOM 13084 H HG2 . GLU A 1 22 ? 2.715 -7.132 -1.168 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 8
+ATOM 13085 H HG3 . GLU A 1 22 ? 1.294 -7.456 -0.195 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 8
+ATOM 13086 N N . ASP A 1 23 ? 3.436 -4.941 -2.345 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 8
+ATOM 13087 C CA . ASP A 1 23 ? 4.698 -4.598 -2.977 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 8
+ATOM 13088 C C . ASP A 1 23 ? 5.839 -5.314 -2.250 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 8
+ATOM 13089 O O . ASP A 1 23 ? 6.010 -5.148 -1.043 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 8
+ATOM 13090 C CB . ASP A 1 23 ? 4.961 -3.093 -2.903 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 8
+ATOM 13091 C CG . ASP A 1 23 ? 6.419 -2.680 -3.113 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 8
+ATOM 13092 O OD1 . ASP A 1 23 ? 7.253 -3.096 -2.280 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 8
+ATOM 13093 O OD2 . ASP A 1 23 ? 6.668 -1.958 -4.103 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 8
+ATOM 13094 H H . ASP A 1 23 ? 3.483 -5.081 -1.356 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 8
+ATOM 13095 H HA . ASP A 1 23 ? 4.597 -4.922 -4.013 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 8
+ATOM 13096 H HB2 . ASP A 1 23 ? 4.347 -2.595 -3.653 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 8
+ATOM 13097 H HB3 . ASP A 1 23 ? 4.633 -2.730 -1.929 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 8
+ATOM 13098 N N . VAL A 1 24 ? 6.588 -6.094 -3.015 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 8
+ATOM 13099 C CA . VAL A 1 24 ? 7.707 -6.835 -2.458 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 8
+ATOM 13100 C C . VAL A 1 24 ? 9.018 -6.195 -2.920 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 8
+ATOM 13101 O O . VAL A 1 24 ? 9.102 -5.679 -4.033 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 8
+ATOM 13102 C CB . VAL A 1 24 ? 7.597 -8.313 -2.839 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 8
+ATOM 13103 C CG1 . VAL A 1 24 ? 7.917 -8.523 -4.320 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 8
+ATOM 13104 C CG2 . VAL A 1 24 ? 8.500 -9.176 -1.955 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 8
+ATOM 13105 H H . VAL A 1 24 ? 6.442 -6.223 -3.995 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 8
+ATOM 13106 H HA . VAL A 1 24 ? 7.644 -6.761 -1.372 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 8
+ATOM 13107 H HB . VAL A 1 24 ? 6.566 -8.627 -2.671 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 8
+ATOM 13108 H HG11 . VAL A 1 24 ? 6.990 -8.556 -4.891 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 8
+ATOM 13109 H HG12 . VAL A 1 24 ? 8.536 -7.700 -4.678 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 8
+ATOM 13110 H HG13 . VAL A 1 24 ? 8.455 -9.463 -4.446 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 8
+ATOM 13111 H HG21 . VAL A 1 24 ? 9.544 -8.970 -2.191 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 8
+ATOM 13112 H HG22 . VAL A 1 24 ? 8.312 -8.943 -0.907 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 8
+ATOM 13113 H HG23 . VAL A 1 24 ? 8.288 -10.229 -2.137 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 8
+ATOM 13114 N N . GLY A 1 25 ? 10.008 -6.249 -2.041 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 8
+ATOM 13115 C CA . GLY A 1 25 ? 11.310 -5.681 -2.344 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 8
+ATOM 13116 C C . GLY A 1 25 ? 12.434 -6.567 -1.803 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 8
+ATOM 13117 O O . GLY A 1 25 ? 12.661 -6.620 -0.596 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 8
+ATOM 13118 H H . GLY A 1 25 ? 9.931 -6.671 -1.137 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 8
+ATOM 13119 H HA2 . GLY A 1 25 ? 11.419 -5.568 -3.423 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 8
+ATOM 13120 H HA3 . GLY A 1 25 ? 11.386 -4.685 -1.910 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 8
+ATOM 13121 N N . SER A 1 26 ? 13.108 -7.241 -2.724 1.00 0.00 ? ? ? ? ? ? 26 SER A N 8
+ATOM 13122 C CA . SER A 1 26 ? 14.203 -8.122 -2.354 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 8
+ATOM 13123 C C . SER A 1 26 ? 15.431 -7.295 -1.967 1.00 0.00 ? ? ? ? ? ? 26 SER A C 8
+ATOM 13124 O O . SER A 1 26 ? 16.368 -7.163 -2.754 1.00 0.00 ? ? ? ? ? ? 26 SER A O 8
+ATOM 13125 C CB . SER A 1 26 ? 14.547 -9.081 -3.495 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 8
+ATOM 13126 O OG . SER A 1 26 ? 13.470 -9.966 -3.791 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 8
+ATOM 13127 H H . SER A 1 26 ? 12.917 -7.192 -3.704 1.00 0.00 ? ? ? ? ? ? 26 SER A H 8
+ATOM 13128 H HA . SER A 1 26 ? 13.840 -8.691 -1.499 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 8
+ATOM 13129 H HB2 . SER A 1 26 ? 14.801 -8.508 -4.387 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 8
+ATOM 13130 H HB3 . SER A 1 26 ? 15.430 -9.661 -3.228 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 8
+ATOM 13131 H HG . SER A 1 26 ? 13.805 -10.907 -3.839 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 8
+ATOM 13132 N N . ASN A 1 27 ? 15.388 -6.762 -0.755 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 8
+ATOM 13133 C CA . ASN A 1 27 ? 16.486 -5.952 -0.254 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 8
+ATOM 13134 C C . ASN A 1 27 ? 16.315 -4.512 -0.741 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 8
+ATOM 13135 O O . ASN A 1 27 ? 16.656 -4.193 -1.879 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 8
+ATOM 13136 C CB . ASN A 1 27 ? 17.831 -6.469 -0.769 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 8
+ATOM 13137 C CG . ASN A 1 27 ? 17.862 -7.999 -0.782 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 8
+ATOM 13138 O OD1 . ASN A 1 27 ? 18.063 -8.632 -1.805 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 8
+ATOM 13139 N ND2 . ASN A 1 27 ? 17.651 -8.554 0.408 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 8
+ATOM 13140 H H . ASN A 1 27 ? 14.623 -6.875 -0.122 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 8
+ATOM 13141 H HA . ASN A 1 27 ? 16.430 -6.035 0.831 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 8
+ATOM 13142 H HB2 . ASN A 1 27 ? 18.009 -6.089 -1.775 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 8
+ATOM 13143 H HB3 . ASN A 1 27 ? 18.635 -6.091 -0.138 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 8
+ATOM 13144 H HD21 . ASN A 1 27 ? 17.492 -7.976 1.208 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 8
+ATOM 13145 H HD22 . ASN A 1 27 ? 17.653 -9.550 0.502 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 8
+ATOM 13146 N N . LYS A 1 28 ? 15.788 -3.680 0.145 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 8
+ATOM 13147 C CA . LYS A 1 28 ? 15.568 -2.281 -0.180 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 8
+ATOM 13148 C C . LYS A 1 28 ? 16.154 -1.406 0.930 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 8
+ATOM 13149 O O . LYS A 1 28 ? 16.976 -1.867 1.720 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 8
+ATOM 13150 C CB . LYS A 1 28 ? 14.084 -2.021 -0.450 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 8
+ATOM 13151 C CG . LYS A 1 28 ? 13.273 -2.077 0.846 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 8
+ATOM 13152 C CD . LYS A 1 28 ? 11.946 -2.808 0.631 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 8
+ATOM 13153 C CE . LYS A 1 28 ? 10.861 -2.259 1.558 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 8
+ATOM 13154 N NZ . LYS A 1 28 ? 9.642 -1.924 0.789 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 8
+ATOM 13155 H H . LYS A 1 28 ? 15.513 -3.948 1.069 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 8
+ATOM 13156 H HA . LYS A 1 28 ? 16.105 -2.072 -1.105 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 8
+ATOM 13157 H HB2 . LYS A 1 28 ? 13.962 -1.044 -0.917 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 8
+ATOM 13158 H HB3 . LYS A 1 28 ? 13.704 -2.760 -1.154 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 8
+ATOM 13159 H HG2 . LYS A 1 28 ? 13.850 -2.585 1.619 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 8
+ATOM 13160 H HG3 . LYS A 1 28 ? 13.081 -1.066 1.204 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 8
+ATOM 13161 H HD2 . LYS A 1 28 ? 11.632 -2.700 -0.407 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 8
+ATOM 13162 H HD3 . LYS A 1 28 ? 12.080 -3.874 0.813 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 8
+ATOM 13163 H HE2 . LYS A 1 28 ? 10.622 -2.996 2.325 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 8
+ATOM 13164 H HE3 . LYS A 1 28 ? 11.229 -1.371 2.073 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 8
+ATOM 13165 H HZ1 . LYS A 1 28 ? 9.825 -1.136 0.200 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 8
+ATOM 13166 H HZ2 . LYS A 1 28 ? 9.378 -2.707 0.225 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 8
+ATOM 13167 H HZ3 . LYS A 1 28 ? 8.899 -1.703 1.420 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 8
+ATOM 13168 N N . GLY A 1 29 ? 15.708 -0.159 0.954 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 8
+ATOM 13169 C CA . GLY A 1 29 ? 16.177 0.785 1.954 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 8
+ATOM 13170 C C . GLY A 1 29 ? 16.395 2.170 1.341 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 8
+ATOM 13171 O O . GLY A 1 29 ? 15.599 2.621 0.519 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 8
+ATOM 13172 H H . GLY A 1 29 ? 15.039 0.209 0.307 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 8
+ATOM 13173 H HA2 . GLY A 1 29 ? 15.452 0.852 2.765 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 8
+ATOM 13174 H HA3 . GLY A 1 29 ? 17.110 0.426 2.389 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 8
+ATOM 13175 N N . ALA A 1 30 ? 17.478 2.806 1.764 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 8
+ATOM 13176 C CA . ALA A 1 30 ? 17.810 4.130 1.267 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 8
+ATOM 13177 C C . ALA A 1 30 ? 16.712 5.114 1.675 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 8
+ATOM 13178 O O . ALA A 1 30 ? 16.700 5.605 2.802 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 8
+ATOM 13179 C CB . ALA A 1 30 ? 18.008 4.072 -0.249 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 8
+ATOM 13180 H H . ALA A 1 30 ? 18.120 2.432 2.433 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 8
+ATOM 13181 H HA . ALA A 1 30 ? 18.749 4.433 1.732 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 8
+ATOM 13182 H HB1 . ALA A 1 30 ? 17.873 5.068 -0.672 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 8
+ATOM 13183 H HB2 . ALA A 1 30 ? 19.014 3.716 -0.471 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 8
+ATOM 13184 H HB3 . ALA A 1 30 ? 17.277 3.391 -0.685 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 8
+ATOM 13185 N N . ILE A 1 31 ? 15.815 5.372 0.735 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 8
+ATOM 13186 C CA . ILE A 1 31 ? 14.714 6.289 0.982 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 8
+ATOM 13187 C C . ILE A 1 31 ? 13.413 5.666 0.471 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 8
+ATOM 13188 O O . ILE A 1 31 ? 13.151 5.666 -0.731 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 8
+ATOM 13189 C CB . ILE A 1 31 ? 15.016 7.663 0.381 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 8
+ATOM 13190 C CG1 . ILE A 1 31 ? 16.374 8.183 0.856 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 8
+ATOM 13191 C CG2 . ILE A 1 31 ? 13.887 8.652 0.679 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 8
+ATOM 13192 C CD1 . ILE A 1 31 ? 16.779 9.442 0.086 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 8
+ATOM 13193 H H . ILE A 1 31 ? 15.831 4.969 -0.180 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 8
+ATOM 13194 H HA . ILE A 1 31 ? 14.634 6.420 2.061 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 8
+ATOM 13195 H HB . ILE A 1 31 ? 15.073 7.557 -0.702 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 8
+ATOM 13196 H HG12 . ILE A 1 31 ? 16.330 8.403 1.923 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 8
+ATOM 13197 H HG13 . ILE A 1 31 ? 17.131 7.411 0.721 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 8
+ATOM 13198 H HG21 . ILE A 1 31 ? 13.537 9.095 -0.253 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 8
+ATOM 13199 H HG22 . ILE A 1 31 ? 13.063 8.127 1.163 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 8
+ATOM 13200 H HG23 . ILE A 1 31 ? 14.257 9.437 1.339 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 8
+ATOM 13201 H HD11 . ILE A 1 31 ? 15.899 10.062 -0.084 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 8
+ATOM 13202 H HD12 . ILE A 1 31 ? 17.512 10.002 0.666 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 8
+ATOM 13203 H HD13 . ILE A 1 31 ? 17.214 9.158 -0.872 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 8
+ATOM 13204 N N . ILE A 1 32 ? 12.633 5.151 1.410 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 8
+ATOM 13205 C CA . ILE A 1 32 ? 11.365 4.527 1.070 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 8
+ATOM 13206 C C . ILE A 1 32 ? 10.247 5.176 1.887 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 8
+ATOM 13207 O O . ILE A 1 32 ? 10.344 5.277 3.109 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 8
+ATOM 13208 C CB . ILE A 1 32 ? 11.452 3.009 1.243 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 8
+ATOM 13209 C CG1 . ILE A 1 32 ? 10.180 2.326 0.737 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 8
+ATOM 13210 C CG2 . ILE A 1 32 ? 11.763 2.640 2.694 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 8
+ATOM 13211 C CD1 . ILE A 1 32 ? 9.001 2.603 1.672 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 8
+ATOM 13212 H H . ILE A 1 32 ? 12.853 5.156 2.385 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 8
+ATOM 13213 H HA . ILE A 1 32 ? 11.179 4.721 0.014 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 8
+ATOM 13214 H HB . ILE A 1 32 ? 12.278 2.643 0.633 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 8
+ATOM 13215 H HG12 . ILE A 1 32 ? 9.945 2.683 -0.266 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 8
+ATOM 13216 H HG13 . ILE A 1 32 ? 10.345 1.251 0.663 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 8
+ATOM 13217 H HG21 . ILE A 1 32 ? 11.202 3.292 3.364 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 8
+ATOM 13218 H HG22 . ILE A 1 32 ? 11.479 1.603 2.874 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 8
+ATOM 13219 H HG23 . ILE A 1 32 ? 12.831 2.761 2.880 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 8
+ATOM 13220 H HD11 . ILE A 1 32 ? 8.462 1.674 1.862 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 8
+ATOM 13221 H HD12 . ILE A 1 32 ? 9.371 3.008 2.614 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 8
+ATOM 13222 H HD13 . ILE A 1 32 ? 8.329 3.323 1.205 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 8
+ATOM 13223 N N . GLY A 1 33 ? 9.209 5.599 1.180 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 8
+ATOM 13224 C CA . GLY A 1 33 ? 8.073 6.235 1.824 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 8
+ATOM 13225 C C . GLY A 1 33 ? 6.776 5.488 1.511 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 8
+ATOM 13226 O O . GLY A 1 33 ? 6.321 5.479 0.368 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 8
+ATOM 13227 H H . GLY A 1 33 ? 9.138 5.513 0.186 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 8
+ATOM 13228 H HA2 . GLY A 1 33 ? 8.230 6.262 2.903 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 8
+ATOM 13229 H HA3 . GLY A 1 33 ? 7.992 7.269 1.489 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 8
+ATOM 13230 N N . LEU A 1 34 ? 6.216 4.879 2.546 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 8
+ATOM 13231 C CA . LEU A 1 34 ? 4.979 4.131 2.396 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 8
+ATOM 13232 C C . LEU A 1 34 ? 3.808 4.985 2.885 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 8
+ATOM 13233 O O . LEU A 1 34 ? 3.841 5.511 3.997 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 8
+ATOM 13234 C CB . LEU A 1 34 ? 5.086 2.774 3.095 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 8
+ATOM 13235 C CG . LEU A 1 34 ? 3.770 2.172 3.594 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 8
+ATOM 13236 C CD1 . LEU A 1 34 ? 2.740 2.093 2.466 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 8
+ATOM 13237 C CD2 . LEU A 1 34 ? 4.005 0.811 4.252 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 8
+ATOM 13238 H H . LEU A 1 34 ? 6.592 4.892 3.473 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 8
+ATOM 13239 H HA . LEU A 1 34 ? 4.843 3.936 1.332 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 8
+ATOM 13240 H HB2 . LEU A 1 34 ? 5.547 2.068 2.405 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 8
+ATOM 13241 H HB3 . LEU A 1 34 ? 5.761 2.878 3.944 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 8
+ATOM 13242 H HG . LEU A 1 34 ? 3.361 2.833 4.358 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 8
+ATOM 13243 H HD11 . LEU A 1 34 ? 2.568 1.050 2.203 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 8
+ATOM 13244 H HD12 . LEU A 1 34 ? 1.804 2.544 2.796 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 8
+ATOM 13245 H HD13 . LEU A 1 34 ? 3.115 2.630 1.594 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 8
+ATOM 13246 H HD21 . LEU A 1 34 ? 4.975 0.811 4.750 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 8
+ATOM 13247 H HD22 . LEU A 1 34 ? 3.221 0.621 4.984 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 8
+ATOM 13248 H HD23 . LEU A 1 34 ? 3.988 0.032 3.490 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 8
+ATOM 13249 N N . MET A 1 35 ? 2.801 5.097 2.032 1.00 0.00 ? ? ? ? ? ? 35 MET A N 8
+ATOM 13250 C CA . MET A 1 35 ? 1.622 5.879 2.364 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 8
+ATOM 13251 C C . MET A 1 35 ? 0.355 5.219 1.816 1.00 0.00 ? ? ? ? ? ? 35 MET A C 8
+ATOM 13252 O O . MET A 1 35 ? 0.207 5.062 0.605 1.00 0.00 ? ? ? ? ? ? 35 MET A O 8
+ATOM 13253 C CB . MET A 1 35 ? 1.760 7.285 1.778 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 8
+ATOM 13254 C CG . MET A 1 35 ? 2.618 8.174 2.682 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 8
+ATOM 13255 S SD . MET A 1 35 ? 3.496 9.377 1.699 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 8
+ATOM 13256 C CE . MET A 1 35 ? 4.838 9.766 2.810 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 8
+ATOM 13257 H H . MET A 1 35 ? 2.782 4.666 1.130 1.00 0.00 ? ? ? ? ? ? 35 MET A H 8
+ATOM 13258 H HA . MET A 1 35 ? 1.585 5.904 3.453 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 8
+ATOM 13259 H HB2 . MET A 1 35 ? 2.209 7.228 0.787 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 8
+ATOM 13260 H HB3 . MET A 1 35 ? 0.773 7.731 1.656 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 8
+ATOM 13261 H HG2 . MET A 1 35 ? 1.987 8.679 3.413 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 8
+ATOM 13262 H HG3 . MET A 1 35 ? 3.326 7.562 3.241 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 8
+ATOM 13263 H HE1 . MET A 1 35 ? 4.445 10.279 3.688 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 8
+ATOM 13264 H HE2 . MET A 1 35 ? 5.333 8.845 3.118 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 8
+ATOM 13265 H HE3 . MET A 1 35 ? 5.554 10.412 2.303 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 8
+ATOM 13266 N N . VAL A 1 36 ? -0.527 4.851 2.734 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 8
+ATOM 13267 C CA . VAL A 1 36 ? -1.776 4.212 2.357 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 8
+ATOM 13268 C C . VAL A 1 36 ? -2.948 5.080 2.821 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 8
+ATOM 13269 O O . VAL A 1 36 ? -3.005 5.482 3.983 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 8
+ATOM 13270 C CB . VAL A 1 36 ? -1.827 2.790 2.919 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 8
+ATOM 13271 C CG1 . VAL A 1 36 ? -0.653 1.955 2.403 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 8
+ATOM 13272 C CG2 . VAL A 1 36 ? -1.858 2.805 4.448 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 8
+ATOM 13273 H H . VAL A 1 36 ? -0.398 4.982 3.716 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 8
+ATOM 13274 H HA . VAL A 1 36 ? -1.797 4.146 1.269 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 8
+ATOM 13275 H HB . VAL A 1 36 ? -2.748 2.324 2.570 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 8
+ATOM 13276 H HG11 . VAL A 1 36 ? -1.031 1.036 1.953 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 8
+ATOM 13277 H HG12 . VAL A 1 36 ? -0.102 2.525 1.655 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 8
+ATOM 13278 H HG13 . VAL A 1 36 ? 0.009 1.707 3.232 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 8
+ATOM 13279 H HG21 . VAL A 1 36 ? -2.033 1.795 4.818 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 8
+ATOM 13280 H HG22 . VAL A 1 36 ? -0.904 3.171 4.828 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 8
+ATOM 13281 H HG23 . VAL A 1 36 ? -2.659 3.461 4.789 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 8
+ATOM 13282 N N . GLY A 1 37 ? -3.852 5.344 1.890 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 8
+ATOM 13283 C CA . GLY A 1 37 ? -5.019 6.157 2.189 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 8
+ATOM 13284 C C . GLY A 1 37 ? -6.310 5.412 1.841 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 8
+ATOM 13285 O O . GLY A 1 37 ? -6.871 5.606 0.764 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 8
+ATOM 13286 H H . GLY A 1 37 ? -3.798 5.013 0.948 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 8
+ATOM 13287 H HA2 . GLY A 1 37 ? -5.021 6.421 3.247 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 8
+ATOM 13288 H HA3 . GLY A 1 37 ? -4.971 7.089 1.628 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 8
+ATOM 13289 N N . GLY A 1 38 ? -6.743 4.576 2.774 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 8
+ATOM 13290 C CA . GLY A 1 38 ? -7.957 3.802 2.579 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 8
+ATOM 13291 C C . GLY A 1 38 ? -9.167 4.519 3.181 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 8
+ATOM 13292 O O . GLY A 1 38 ? -9.196 4.797 4.379 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 8
+ATOM 13293 H H . GLY A 1 38 ? -6.280 4.425 3.647 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 8
+ATOM 13294 H HA2 . GLY A 1 38 ? -8.120 3.636 1.514 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 8
+ATOM 13295 H HA3 . GLY A 1 38 ? -7.845 2.821 3.041 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 8
+ATOM 13296 N N . VAL A 1 39 ? -10.136 4.799 2.322 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 8
+ATOM 13297 C CA . VAL A 1 39 ? -11.346 5.479 2.753 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 8
+ATOM 13298 C C . VAL A 1 39 ? -12.561 4.800 2.118 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 8
+ATOM 13299 O O . VAL A 1 39 ? -12.627 4.652 0.899 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 8
+ATOM 13300 C CB . VAL A 1 39 ? -11.254 6.970 2.424 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 8
+ATOM 13301 C CG1 . VAL A 1 39 ? -12.555 7.692 2.781 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 8
+ATOM 13302 C CG2 . VAL A 1 39 ? -10.058 7.614 3.128 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 8
+ATOM 13303 H H . VAL A 1 39 ? -10.104 4.569 1.349 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 8
+ATOM 13304 H HA . VAL A 1 39 ? -11.412 5.376 3.836 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 8
+ATOM 13305 H HB . VAL A 1 39 ? -11.101 7.067 1.349 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 8
+ATOM 13306 H HG11 . VAL A 1 39 ? -13.387 7.220 2.257 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 8
+ATOM 13307 H HG12 . VAL A 1 39 ? -12.721 7.631 3.856 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 8
+ATOM 13308 H HG13 . VAL A 1 39 ? -12.484 8.738 2.483 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 8
+ATOM 13309 H HG21 . VAL A 1 39 ? -9.878 7.106 4.076 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 8
+ATOM 13310 H HG22 . VAL A 1 39 ? -9.174 7.529 2.496 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 8
+ATOM 13311 H HG23 . VAL A 1 39 ? -10.270 8.667 3.315 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 8
+ATOM 13312 N N . VAL A 1 40 ? -13.493 4.406 2.973 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 8
+ATOM 13313 C CA . VAL A 1 40 ? -14.702 3.746 2.511 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 8
+ATOM 13314 C C . VAL A 1 40 ? -15.919 4.412 3.157 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 8
+ATOM 13315 O O . VAL A 1 40 ? -15.904 4.719 4.348 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 8
+ATOM 13316 C CB . VAL A 1 40 ? -14.621 2.245 2.795 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 8
+ATOM 13317 C CG1 . VAL A 1 40 ? -15.924 1.543 2.407 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 8
+ATOM 13318 C CG2 . VAL A 1 40 ? -13.424 1.616 2.079 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 8
+ATOM 13319 H H . VAL A 1 40 ? -13.431 4.530 3.964 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 8
+ATOM 13320 H HA . VAL A 1 40 ? -14.759 3.883 1.431 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 8
+ATOM 13321 H HB . VAL A 1 40 ? -14.476 2.114 3.867 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 8
+ATOM 13322 H HG11 . VAL A 1 40 ? -15.695 0.579 1.953 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 8
+ATOM 13323 H HG12 . VAL A 1 40 ? -16.533 1.389 3.298 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 8
+ATOM 13324 H HG13 . VAL A 1 40 ? -16.471 2.160 1.694 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 8
+ATOM 13325 H HG21 . VAL A 1 40 ? -12.699 2.392 1.834 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 8
+ATOM 13326 H HG22 . VAL A 1 40 ? -12.959 0.877 2.731 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 8
+ATOM 13327 H HG23 . VAL A 1 40 ? -13.762 1.131 1.163 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 8
+ATOM 13328 N N . ILE A 1 41 ? -16.944 4.615 2.342 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 8
+ATOM 13329 C CA . ILE A 1 41 ? -18.167 5.239 2.819 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 8
+ATOM 13330 C C . ILE A 1 41 ? -19.322 4.865 1.888 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 8
+ATOM 13331 O O . ILE A 1 41 ? -19.105 4.562 0.715 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 8
+ATOM 13332 C CB . ILE A 1 41 ? -17.971 6.748 2.981 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 8
+ATOM 13333 C CG1 . ILE A 1 41 ? -19.248 7.414 3.497 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 8
+ATOM 13334 C CG2 . ILE A 1 41 ? -17.482 7.380 1.677 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 8
+ATOM 13335 C CD1 . ILE A 1 41 ? -19.042 8.917 3.692 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 8
+ATOM 13336 H H . ILE A 1 41 ? -16.948 4.363 1.375 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 8
+ATOM 13337 H HA . ILE A 1 41 ? -18.376 4.833 3.809 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 8
+ATOM 13338 H HB . ILE A 1 41 ? -17.196 6.913 3.730 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 8
+ATOM 13339 H HG12 . ILE A 1 41 ? -20.062 7.243 2.793 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 8
+ATOM 13340 H HG13 . ILE A 1 41 ? -19.544 6.958 4.442 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 8
+ATOM 13341 H HG21 . ILE A 1 41 ? -16.533 7.887 1.853 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 8
+ATOM 13342 H HG22 . ILE A 1 41 ? -17.344 6.603 0.925 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 8
+ATOM 13343 H HG23 . ILE A 1 41 ? -18.219 8.101 1.324 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 8
+ATOM 13344 H HD11 . ILE A 1 41 ? -18.259 9.267 3.019 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 8
+ATOM 13345 H HD12 . ILE A 1 41 ? -19.971 9.443 3.473 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 8
+ATOM 13346 H HD13 . ILE A 1 41 ? -18.748 9.113 4.724 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 8
+ATOM 13347 N N . ALA A 1 42 ? -20.524 4.899 2.444 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 8
+ATOM 13348 C CA . ALA A 1 42 ? -21.713 4.567 1.678 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 8
+ATOM 13349 C C . ALA A 1 42 ? -22.547 5.832 1.467 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 8
+ATOM 13350 O O . ALA A 1 42 ? -22.759 6.603 2.402 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 8
+ATOM 13351 C CB . ALA A 1 42 ? -22.494 3.467 2.399 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 8
+ATOM 13352 H H . ALA A 1 42 ? -20.691 5.146 3.399 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 8
+ATOM 13353 H HA . ALA A 1 42 ? -21.388 4.190 0.708 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 8
+ATOM 13354 H HB1 . ALA A 1 42 ? -23.372 3.899 2.879 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 8
+ATOM 13355 H HB2 . ALA A 1 42 ? -22.809 2.713 1.677 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 8
+ATOM 13356 H HB3 . ALA A 1 42 ? -21.858 3.004 3.153 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 8
+ATOM 13357 N N . LEU B 1 17 ? -15.823 -7.038 -9.757 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 8
+ATOM 13358 C CA . LEU B 1 17 ? -15.321 -5.901 -9.003 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 8
+ATOM 13359 C C . LEU B 1 17 ? -14.116 -6.341 -8.169 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 8
+ATOM 13360 O O . LEU B 1 17 ? -14.277 -6.957 -7.116 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 8
+ATOM 13361 C CB . LEU B 1 17 ? -16.442 -5.267 -8.178 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 8
+ATOM 13362 C CG . LEU B 1 17 ? -17.132 -4.053 -8.804 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 8
+ATOM 13363 C CD1 . LEU B 1 17 ? -18.101 -3.403 -7.816 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 8
+ATOM 13364 C CD2 . LEU B 1 17 ? -16.103 -3.055 -9.340 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 8
+ATOM 13365 H H . LEU B 1 17 ? -15.691 -6.980 -10.746 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 8
+ATOM 13366 H HA . LEU B 1 17 ? -14.988 -5.154 -9.723 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 8
+ATOM 13367 H HB2 . LEU B 1 17 ? -17.198 -6.029 -7.983 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 8
+ATOM 13368 H HB3 . LEU B 1 17 ? -16.033 -4.970 -7.213 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 8
+ATOM 13369 H HG . LEU B 1 17 ? -17.721 -4.396 -9.655 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 8
+ATOM 13370 H HD11 . LEU B 1 17 ? -18.332 -4.107 -7.017 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 8
+ATOM 13371 H HD12 . LEU B 1 17 ? -17.643 -2.509 -7.392 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 8
+ATOM 13372 H HD13 . LEU B 1 17 ? -19.020 -3.129 -8.335 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 8
+ATOM 13373 H HD21 . LEU B 1 17 ? -15.900 -3.269 -10.389 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 8
+ATOM 13374 H HD22 . LEU B 1 17 ? -16.497 -2.042 -9.245 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 8
+ATOM 13375 H HD23 . LEU B 1 17 ? -15.180 -3.141 -8.766 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 8
+ATOM 13376 N N . VAL B 1 18 ? -12.936 -6.006 -8.669 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 8
+ATOM 13377 C CA . VAL B 1 18 ? -11.705 -6.358 -7.982 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 8
+ATOM 13378 C C . VAL B 1 18 ? -10.603 -5.377 -8.385 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 8
+ATOM 13379 O O . VAL B 1 18 ? -10.434 -5.077 -9.566 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 8
+ATOM 13380 C CB . VAL B 1 18 ? -11.342 -7.816 -8.273 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 8
+ATOM 13381 C CG1 . VAL B 1 18 ? -9.999 -8.184 -7.640 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 8
+ATOM 13382 C CG2 . VAL B 1 18 ? -12.449 -8.761 -7.800 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 8
+ATOM 13383 H H . VAL B 1 18 ? -12.814 -5.505 -9.525 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 8
+ATOM 13384 H HA . VAL B 1 18 ? -11.886 -6.263 -6.912 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 8
+ATOM 13385 H HB . VAL B 1 18 ? -11.245 -7.928 -9.353 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 8
+ATOM 13386 H HG11 . VAL B 1 18 ? -9.241 -8.270 -8.419 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 8
+ATOM 13387 H HG12 . VAL B 1 18 ? -9.706 -7.408 -6.933 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 8
+ATOM 13388 H HG13 . VAL B 1 18 ? -10.092 -9.135 -7.116 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 8
+ATOM 13389 H HG21 . VAL B 1 18 ? -12.670 -8.565 -6.751 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 8
+ATOM 13390 H HG22 . VAL B 1 18 ? -13.346 -8.598 -8.398 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 8
+ATOM 13391 H HG23 . VAL B 1 18 ? -12.118 -9.794 -7.914 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 8
+ATOM 13392 N N . PHE B 1 19 ? -9.881 -4.902 -7.380 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 8
+ATOM 13393 C CA . PHE B 1 19 ? -8.800 -3.960 -7.614 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 8
+ATOM 13394 C C . PHE B 1 19 ? -7.539 -4.373 -6.852 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 8
+ATOM 13395 O O . PHE B 1 19 ? -7.401 -4.075 -5.667 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 8
+ATOM 13396 C CB . PHE B 1 19 ? -9.272 -2.600 -7.098 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 8
+ATOM 13397 C CG . PHE B 1 19 ? -9.855 -1.691 -8.182 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 8
+ATOM 13398 C CD1 . PHE B 1 19 ? -10.886 -2.128 -8.953 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 8
+ATOM 13399 C CD2 . PHE B 1 19 ? -9.342 -0.446 -8.373 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 8
+ATOM 13400 C CE1 . PHE B 1 19 ? -11.428 -1.284 -9.959 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 8
+ATOM 13401 C CE2 . PHE B 1 19 ? -9.884 0.398 -9.379 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 8
+ATOM 13402 C CZ . PHE B 1 19 ? -10.915 -0.039 -10.151 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 8
+ATOM 13403 H H . PHE B 1 19 ? -10.025 -5.151 -6.422 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 8
+ATOM 13404 H HA . PHE B 1 19 ? -8.593 -3.965 -8.685 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 8
+ATOM 13405 H HB2 . PHE B 1 19 ? -10.025 -2.757 -6.326 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 8
+ATOM 13406 H HB3 . PHE B 1 19 ? -8.432 -2.091 -6.625 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 8
+ATOM 13407 H HD1 . PHE B 1 19 ? -11.297 -3.126 -8.799 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 8
+ATOM 13408 H HD2 . PHE B 1 19 ? -8.516 -0.096 -7.755 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 8
+ATOM 13409 H HE1 . PHE B 1 19 ? -12.254 -1.635 -10.577 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 8
+ATOM 13410 H HE2 . PHE B 1 19 ? -9.473 1.395 -9.533 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 8
+ATOM 13411 H HZ . PHE B 1 19 ? -11.330 0.608 -10.923 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 8
+ATOM 13412 N N . PHE B 1 20 ? -6.651 -5.051 -7.564 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 8
+ATOM 13413 C CA . PHE B 1 20 ? -5.406 -5.507 -6.970 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 8
+ATOM 13414 C C . PHE B 1 20 ? -4.200 -4.888 -7.680 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 8
+ATOM 13415 O O . PHE B 1 20 ? -4.149 -4.855 -8.909 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 8
+ATOM 13416 C CB . PHE B 1 20 ? -5.359 -7.026 -7.140 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 8
+ATOM 13417 C CG . PHE B 1 20 ? -4.647 -7.759 -6.001 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 8
+ATOM 13418 C CD1 . PHE B 1 20 ? -3.326 -7.533 -5.767 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 8
+ATOM 13419 C CD2 . PHE B 1 20 ? -5.336 -8.635 -5.221 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 8
+ATOM 13420 C CE1 . PHE B 1 20 ? -2.666 -8.213 -4.710 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 8
+ATOM 13421 C CE2 . PHE B 1 20 ? -4.675 -9.315 -4.164 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 8
+ATOM 13422 C CZ . PHE B 1 20 ? -3.355 -9.090 -3.930 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 8
+ATOM 13423 H H . PHE B 1 20 ? -6.770 -5.288 -8.528 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 8
+ATOM 13424 H HA . PHE B 1 20 ? -5.411 -5.192 -5.926 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 8
+ATOM 13425 H HB2 . PHE B 1 20 ? -6.378 -7.404 -7.221 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 8
+ATOM 13426 H HB3 . PHE B 1 20 ? -4.856 -7.261 -8.079 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 8
+ATOM 13427 H HD1 . PHE B 1 20 ? -2.775 -6.831 -6.392 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 8
+ATOM 13428 H HD2 . PHE B 1 20 ? -6.394 -8.816 -5.408 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 8
+ATOM 13429 H HE1 . PHE B 1 20 ? -1.608 -8.033 -4.523 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 8
+ATOM 13430 H HE2 . PHE B 1 20 ? -5.227 -10.017 -3.539 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 8
+ATOM 13431 H HZ . PHE B 1 20 ? -2.848 -9.611 -3.118 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 8
+ATOM 13432 N N . ALA B 1 21 ? -3.259 -4.414 -6.876 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 8
+ATOM 13433 C CA . ALA B 1 21 ? -2.057 -3.798 -7.413 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 8
+ATOM 13434 C C . ALA B 1 21 ? -0.830 -4.418 -6.743 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 8
+ATOM 13435 O O . ALA B 1 21 ? -0.537 -4.127 -5.584 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 8
+ATOM 13436 C CB . ALA B 1 21 ? -2.127 -2.283 -7.213 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 8
+ATOM 13437 H H . ALA B 1 21 ? -3.309 -4.445 -5.878 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 8
+ATOM 13438 H HA . ALA B 1 21 ? -2.024 -4.010 -8.481 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 8
+ATOM 13439 H HB1 . ALA B 1 21 ? -2.847 -2.052 -6.428 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 8
+ATOM 13440 H HB2 . ALA B 1 21 ? -1.144 -1.908 -6.927 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 8
+ATOM 13441 H HB3 . ALA B 1 21 ? -2.440 -1.808 -8.143 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 8
+ATOM 13442 N N . GLU B 1 22 ? -0.144 -5.262 -7.501 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 8
+ATOM 13443 C CA . GLU B 1 22 ? 1.045 -5.926 -6.996 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 8
+ATOM 13444 C C . GLU B 1 22 ? 2.297 -5.352 -7.662 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 8
+ATOM 13445 O O . GLU B 1 22 ? 2.361 -5.249 -8.886 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 8
+ATOM 13446 C CB . GLU B 1 22 ? 0.958 -7.439 -7.202 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 8
+ATOM 13447 C CG . GLU B 1 22 ? 1.315 -8.190 -5.918 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 8
+ATOM 13448 C CD . GLU B 1 22 ? 1.814 -9.603 -6.229 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 8
+ATOM 13449 O OE1 . GLU B 1 22 ? 2.700 -9.712 -7.104 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 8
+ATOM 13450 O OE2 . GLU B 1 22 ? 1.297 -10.541 -5.585 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 8
+ATOM 13451 H H . GLU B 1 22 ? -0.389 -5.493 -8.443 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 8
+ATOM 13452 H HA . GLU B 1 22 ? 1.064 -5.712 -5.927 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 8
+ATOM 13453 H HB2 . GLU B 1 22 ? -0.050 -7.709 -7.517 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 8
+ATOM 13454 H HB3 . GLU B 1 22 ? 1.634 -7.740 -8.003 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 8
+ATOM 13455 H HG2 . GLU B 1 22 ? 2.084 -7.641 -5.374 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 8
+ATOM 13456 H HG3 . GLU B 1 22 ? 0.442 -8.243 -5.269 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 8
+ATOM 13457 N N . ASP B 1 23 ? 3.261 -4.993 -6.828 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 8
+ATOM 13458 C CA . ASP B 1 23 ? 4.508 -4.433 -7.321 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 8
+ATOM 13459 C C . ASP B 1 23 ? 5.682 -5.231 -6.750 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 8
+ATOM 13460 O O . ASP B 1 23 ? 6.107 -4.994 -5.621 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 8
+ATOM 13461 C CB . ASP B 1 23 ? 4.668 -2.976 -6.882 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 8
+ATOM 13462 C CG . ASP B 1 23 ? 5.952 -2.294 -7.360 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 8
+ATOM 13463 O OD1 . ASP B 1 23 ? 6.054 -2.071 -8.585 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 8
+ATOM 13464 O OD2 . ASP B 1 23 ? 6.803 -2.012 -6.488 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 8
+ATOM 13465 H H . ASP B 1 23 ? 3.201 -5.080 -5.833 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 8
+ATOM 13466 H HA . ASP B 1 23 ? 4.444 -4.504 -8.407 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 8
+ATOM 13467 H HB2 . ASP B 1 23 ? 3.815 -2.406 -7.248 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 8
+ATOM 13468 H HB3 . ASP B 1 23 ? 4.636 -2.935 -5.793 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 8
+ATOM 13469 N N . VAL B 1 24 ? 6.173 -6.159 -7.558 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 8
+ATOM 13470 C CA . VAL B 1 24 ? 7.290 -6.994 -7.147 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 8
+ATOM 13471 C C . VAL B 1 24 ? 8.591 -6.395 -7.684 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 8
+ATOM 13472 O O . VAL B 1 24 ? 8.766 -6.264 -8.895 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 8
+ATOM 13473 C CB . VAL B 1 24 ? 7.061 -8.436 -7.605 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 8
+ATOM 13474 C CG1 . VAL B 1 24 ? 7.077 -8.536 -9.131 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 8
+ATOM 13475 C CG2 . VAL B 1 24 ? 8.094 -9.378 -6.983 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 8
+ATOM 13476 H H . VAL B 1 24 ? 5.821 -6.345 -8.475 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 8
+ATOM 13477 H HA . VAL B 1 24 ? 7.323 -6.986 -6.058 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 8
+ATOM 13478 H HB . VAL B 1 24 ? 6.075 -8.745 -7.259 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 8
+ATOM 13479 H HG11 . VAL B 1 24 ? 6.362 -9.293 -9.453 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 8
+ATOM 13480 H HG12 . VAL B 1 24 ? 6.803 -7.572 -9.561 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 8
+ATOM 13481 H HG13 . VAL B 1 24 ? 8.076 -8.813 -9.467 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 8
+ATOM 13482 H HG21 . VAL B 1 24 ? 8.490 -10.041 -7.751 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 8
+ATOM 13483 H HG22 . VAL B 1 24 ? 8.907 -8.793 -6.553 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 8
+ATOM 13484 H HG23 . VAL B 1 24 ? 7.620 -9.971 -6.200 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 8
+ATOM 13485 N N . GLY B 1 25 ? 9.472 -6.048 -6.757 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 8
+ATOM 13486 C CA . GLY B 1 25 ? 10.753 -5.467 -7.122 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 8
+ATOM 13487 C C . GLY B 1 25 ? 11.908 -6.246 -6.490 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 8
+ATOM 13488 O O . GLY B 1 25 ? 11.868 -6.571 -5.304 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 8
+ATOM 13489 H H . GLY B 1 25 ? 9.322 -6.158 -5.774 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 8
+ATOM 13490 H HA2 . GLY B 1 25 ? 10.860 -5.466 -8.206 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 8
+ATOM 13491 H HA3 . GLY B 1 25 ? 10.790 -4.427 -6.797 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 8
+ATOM 13492 N N . SER B 1 26 ? 12.912 -6.523 -7.310 1.00 0.00 ? ? ? ? ? ? 26 SER B N 8
+ATOM 13493 C CA . SER B 1 26 ? 14.076 -7.257 -6.846 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 8
+ATOM 13494 C C . SER B 1 26 ? 15.227 -6.290 -6.563 1.00 0.00 ? ? ? ? ? ? 26 SER B C 8
+ATOM 13495 O O . SER B 1 26 ? 15.911 -5.847 -7.485 1.00 0.00 ? ? ? ? ? ? 26 SER B O 8
+ATOM 13496 C CB . SER B 1 26 ? 14.507 -8.310 -7.869 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 8
+ATOM 13497 O OG . SER B 1 26 ? 13.421 -9.141 -8.270 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 8
+ATOM 13498 H H . SER B 1 26 ? 12.937 -6.255 -8.273 1.00 0.00 ? ? ? ? ? ? 26 SER B H 8
+ATOM 13499 H HA . SER B 1 26 ? 13.759 -7.752 -5.928 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 8
+ATOM 13500 H HB2 . SER B 1 26 ? 14.927 -7.814 -8.744 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 8
+ATOM 13501 H HB3 . SER B 1 26 ? 15.298 -8.927 -7.443 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 8
+ATOM 13502 H HG . SER B 1 26 ? 13.703 -9.730 -9.027 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 8
+ATOM 13503 N N . ASN B 1 27 ? 15.405 -5.989 -5.285 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 8
+ATOM 13504 C CA . ASN B 1 27 ? 16.461 -5.082 -4.870 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 8
+ATOM 13505 C C . ASN B 1 27 ? 16.048 -3.644 -5.192 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 8
+ATOM 13506 O O . ASN B 1 27 ? 16.071 -3.233 -6.351 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 8
+ATOM 13507 C CB . ASN B 1 27 ? 17.765 -5.377 -5.613 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 8
+ATOM 13508 C CG . ASN B 1 27 ? 18.034 -6.882 -5.671 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 8
+ATOM 13509 O OD1 . ASN B 1 27 ? 18.506 -7.492 -4.725 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 8
+ATOM 13510 N ND2 . ASN B 1 27 ? 17.709 -7.446 -6.831 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 8
+ATOM 13511 H H . ASN B 1 27 ? 14.844 -6.353 -4.542 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 8
+ATOM 13512 H HA . ASN B 1 27 ? 16.580 -5.251 -3.799 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 8
+ATOM 13513 H HB2 . ASN B 1 27 ? 17.711 -4.975 -6.624 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 8
+ATOM 13514 H HB3 . ASN B 1 27 ? 18.594 -4.875 -5.114 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 8
+ATOM 13515 H HD21 . ASN B 1 27 ? 17.326 -6.888 -7.567 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 8
+ATOM 13516 H HD22 . ASN B 1 27 ? 17.848 -8.427 -6.967 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 8
+ATOM 13517 N N . LYS B 1 28 ? 15.681 -2.919 -4.146 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 8
+ATOM 13518 C CA . LYS B 1 28 ? 15.264 -1.536 -4.303 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 8
+ATOM 13519 C C . LYS B 1 28 ? 16.235 -0.626 -3.549 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 8
+ATOM 13520 O O . LYS B 1 28 ? 17.327 -1.052 -3.175 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 8
+ATOM 13521 C CB . LYS B 1 28 ? 13.804 -1.365 -3.877 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 8
+ATOM 13522 C CG . LYS B 1 28 ? 12.885 -2.276 -4.692 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 8
+ATOM 13523 C CD . LYS B 1 28 ? 11.583 -2.557 -3.939 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 8
+ATOM 13524 C CE . LYS B 1 28 ? 10.367 -2.148 -4.773 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 8
+ATOM 13525 N NZ . LYS B 1 28 ? 9.117 -2.381 -4.016 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 8
+ATOM 13526 H H . LYS B 1 28 ? 15.665 -3.261 -3.206 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 8
+ATOM 13527 H HA . LYS B 1 28 ? 15.320 -1.297 -5.365 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 8
+ATOM 13528 H HB2 . LYS B 1 28 ? 13.702 -1.593 -2.816 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 8
+ATOM 13529 H HB3 . LYS B 1 28 ? 13.503 -0.326 -4.010 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 8
+ATOM 13530 H HG2 . LYS B 1 28 ? 12.660 -1.809 -5.651 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 8
+ATOM 13531 H HG3 . LYS B 1 28 ? 13.395 -3.215 -4.907 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 8
+ATOM 13532 H HD2 . LYS B 1 28 ? 11.521 -3.618 -3.695 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 8
+ATOM 13533 H HD3 . LYS B 1 28 ? 11.581 -2.013 -2.994 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 8
+ATOM 13534 H HE2 . LYS B 1 28 ? 10.444 -1.095 -5.045 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 8
+ATOM 13535 H HE3 . LYS B 1 28 ? 10.348 -2.717 -5.702 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 8
+ATOM 13536 H HZ1 . LYS B 1 28 ? 8.593 -1.531 -3.968 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 8
+ATOM 13537 H HZ2 . LYS B 1 28 ? 8.574 -3.082 -4.477 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 8
+ATOM 13538 H HZ3 . LYS B 1 28 ? 9.340 -2.688 -3.090 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 8
+ATOM 13539 N N . GLY B 1 29 ? 15.803 0.610 -3.348 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 8
+ATOM 13540 C CA . GLY B 1 29 ? 16.621 1.584 -2.646 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 8
+ATOM 13541 C C . GLY B 1 29 ? 16.545 2.955 -3.322 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 8
+ATOM 13542 O O . GLY B 1 29 ? 15.586 3.247 -4.034 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 8
+ATOM 13543 H H . GLY B 1 29 ? 14.914 0.949 -3.656 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 8
+ATOM 13544 H HA2 . GLY B 1 29 ? 16.287 1.666 -1.611 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 8
+ATOM 13545 H HA3 . GLY B 1 29 ? 17.657 1.244 -2.620 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 8
+ATOM 13546 N N . ALA B 1 30 ? 17.569 3.758 -3.076 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 8
+ATOM 13547 C CA . ALA B 1 30 ? 17.630 5.091 -3.652 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 8
+ATOM 13548 C C . ALA B 1 30 ? 16.408 5.893 -3.201 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 8
+ATOM 13549 O O . ALA B 1 30 ? 16.409 6.476 -2.118 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 8
+ATOM 13550 C CB . ALA B 1 30 ? 17.729 4.984 -5.175 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 8
+ATOM 13551 H H . ALA B 1 30 ? 18.346 3.513 -2.495 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 8
+ATOM 13552 H HA . ALA B 1 30 ? 18.531 5.574 -3.275 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 8
+ATOM 13553 H HB1 . ALA B 1 30 ? 17.014 4.244 -5.535 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 8
+ATOM 13554 H HB2 . ALA B 1 30 ? 17.506 5.953 -5.622 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 8
+ATOM 13555 H HB3 . ALA B 1 30 ? 18.738 4.679 -5.454 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 8
+ATOM 13556 N N . ILE B 1 31 ? 15.395 5.898 -4.056 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 8
+ATOM 13557 C CA . ILE B 1 31 ? 14.170 6.619 -3.759 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 8
+ATOM 13558 C C . ILE B 1 31 ? 12.971 5.794 -4.231 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 8
+ATOM 13559 O O . ILE B 1 31 ? 12.888 5.425 -5.401 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 8
+ATOM 13560 C CB . ILE B 1 31 ? 14.219 8.028 -4.355 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 8
+ATOM 13561 C CG1 . ILE B 1 31 ? 15.351 8.847 -3.731 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 8
+ATOM 13562 C CG2 . ILE B 1 31 ? 12.865 8.727 -4.222 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 8
+ATOM 13563 C CD1 . ILE B 1 31 ? 15.642 10.100 -4.560 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 8
+ATOM 13564 H H . ILE B 1 31 ? 15.403 5.422 -4.935 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 8
+ATOM 13565 H HA . ILE B 1 31 ? 14.109 6.729 -2.676 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 8
+ATOM 13566 H HB . ILE B 1 31 ? 14.434 7.941 -5.420 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 8
+ATOM 13567 H HG12 . ILE B 1 31 ? 15.080 9.134 -2.715 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 8
+ATOM 13568 H HG13 . ILE B 1 31 ? 16.251 8.236 -3.661 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 8
+ATOM 13569 H HG21 . ILE B 1 31 ? 12.948 9.752 -4.585 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 8
+ATOM 13570 H HG22 . ILE B 1 31 ? 12.120 8.193 -4.812 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 8
+ATOM 13571 H HG23 . ILE B 1 31 ? 12.561 8.736 -3.175 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 8
+ATOM 13572 H HD11 . ILE B 1 31 ? 16.483 9.907 -5.227 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 8
+ATOM 13573 H HD12 . ILE B 1 31 ? 14.762 10.358 -5.150 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 8
+ATOM 13574 H HD13 . ILE B 1 31 ? 15.888 10.927 -3.895 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 8
+ATOM 13575 N N . ILE B 1 32 ? 12.071 5.528 -3.295 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 8
+ATOM 13576 C CA . ILE B 1 32 ? 10.880 4.754 -3.600 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 8
+ATOM 13577 C C . ILE B 1 32 ? 9.702 5.296 -2.788 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 8
+ATOM 13578 O O . ILE B 1 32 ? 9.787 5.414 -1.567 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 8
+ATOM 13579 C CB . ILE B 1 32 ? 11.141 3.262 -3.383 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 8
+ATOM 13580 C CG1 . ILE B 1 32 ? 9.840 2.515 -3.086 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 8
+ATOM 13581 C CG2 . ILE B 1 32 ? 12.190 3.042 -2.291 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 8
+ATOM 13582 C CD1 . ILE B 1 32 ? 10.084 1.008 -2.983 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 8
+ATOM 13583 H H . ILE B 1 32 ? 12.146 5.832 -2.345 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 8
+ATOM 13584 H HA . ILE B 1 32 ? 10.663 4.892 -4.659 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 8
+ATOM 13585 H HB . ILE B 1 32 ? 11.547 2.848 -4.306 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 8
+ATOM 13586 H HG12 . ILE B 1 32 ? 9.410 2.882 -2.155 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 8
+ATOM 13587 H HG13 . ILE B 1 32 ? 9.113 2.716 -3.874 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 8
+ATOM 13588 H HG21 . ILE B 1 32 ? 11.808 3.415 -1.340 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 8
+ATOM 13589 H HG22 . ILE B 1 32 ? 12.406 1.977 -2.203 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 8
+ATOM 13590 H HG23 . ILE B 1 32 ? 13.103 3.578 -2.551 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 8
+ATOM 13591 H HD11 . ILE B 1 32 ? 10.604 0.787 -2.051 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 8
+ATOM 13592 H HD12 . ILE B 1 32 ? 9.128 0.483 -2.998 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 8
+ATOM 13593 H HD13 . ILE B 1 32 ? 10.692 0.680 -3.825 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 8
+ATOM 13594 N N . GLY B 1 33 ? 8.630 5.613 -3.500 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 8
+ATOM 13595 C CA . GLY B 1 33 ? 7.437 6.140 -2.861 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 8
+ATOM 13596 C C . GLY B 1 33 ? 6.211 5.289 -3.200 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 8
+ATOM 13597 O O . GLY B 1 33 ? 5.747 5.289 -4.339 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 8
+ATOM 13598 H H . GLY B 1 33 ? 8.569 5.514 -4.493 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 8
+ATOM 13599 H HA2 . GLY B 1 33 ? 7.579 6.164 -1.780 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 8
+ATOM 13600 H HA3 . GLY B 1 33 ? 7.271 7.168 -3.184 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 8
+ATOM 13601 N N . LEU B 1 34 ? 5.723 4.583 -2.191 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 8
+ATOM 13602 C CA . LEU B 1 34 ? 4.561 3.729 -2.368 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 8
+ATOM 13603 C C . LEU B 1 34 ? 3.324 4.435 -1.808 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 8
+ATOM 13604 O O . LEU B 1 34 ? 3.127 4.482 -0.595 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 8
+ATOM 13605 C CB . LEU B 1 34 ? 4.811 2.350 -1.755 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 8
+ATOM 13606 C CG . LEU B 1 34 ? 3.570 1.594 -1.275 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 8
+ATOM 13607 C CD1 . LEU B 1 34 ? 2.556 1.429 -2.409 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 8
+ATOM 13608 C CD2 . LEU B 1 34 ? 3.954 0.251 -0.650 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 8
+ATOM 13609 H H . LEU B 1 34 ? 6.107 4.588 -1.267 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 8
+ATOM 13610 H HA . LEU B 1 34 ? 4.421 3.585 -3.439 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 8
+ATOM 13611 H HB2 . LEU B 1 34 ? 5.324 1.733 -2.493 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 8
+ATOM 13612 H HB3 . LEU B 1 34 ? 5.490 2.467 -0.910 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 8
+ATOM 13613 H HG . LEU B 1 34 ? 3.089 2.186 -0.496 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 8
+ATOM 13614 H HD11 . LEU B 1 34 ? 2.995 1.780 -3.343 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 8
+ATOM 13615 H HD12 . LEU B 1 34 ? 2.287 0.378 -2.506 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 8
+ATOM 13616 H HD13 . LEU B 1 34 ? 1.663 2.014 -2.185 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 8
+ATOM 13617 H HD21 . LEU B 1 34 ? 4.334 -0.415 -1.425 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 8
+ATOM 13618 H HD22 . LEU B 1 34 ? 4.725 0.408 0.104 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 8
+ATOM 13619 H HD23 . LEU B 1 34 ? 3.076 -0.197 -0.184 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 8
+ATOM 13620 N N . MET B 1 35 ? 2.523 4.967 -2.720 1.00 0.00 ? ? ? ? ? ? 35 MET B N 8
+ATOM 13621 C CA . MET B 1 35 ? 1.311 5.669 -2.333 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 8
+ATOM 13622 C C . MET B 1 35 ? 0.075 5.010 -2.949 1.00 0.00 ? ? ? ? ? ? 35 MET B C 8
+ATOM 13623 O O . MET B 1 35 ? -0.036 4.911 -4.170 1.00 0.00 ? ? ? ? ? ? 35 MET B O 8
+ATOM 13624 C CB . MET B 1 35 ? 1.396 7.126 -2.792 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 8
+ATOM 13625 C CG . MET B 1 35 ? 2.049 8.001 -1.721 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 8
+ATOM 13626 S SD . MET B 1 35 ? 2.525 9.572 -2.424 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 8
+ATOM 13627 C CE . MET B 1 35 ? 3.984 9.078 -3.326 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 8
+ATOM 13628 H H . MET B 1 35 ? 2.690 4.924 -3.705 1.00 0.00 ? ? ? ? ? ? 35 MET B H 8
+ATOM 13629 H HA . MET B 1 35 ? 1.266 5.597 -1.246 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 8
+ATOM 13630 H HB2 . MET B 1 35 ? 1.970 7.186 -3.717 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 8
+ATOM 13631 H HB3 . MET B 1 35 ? 0.396 7.500 -3.013 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 8
+ATOM 13632 H HG2 . MET B 1 35 ? 1.356 8.158 -0.895 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 8
+ATOM 13633 H HG3 . MET B 1 35 ? 2.924 7.497 -1.311 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 8
+ATOM 13634 H HE1 . MET B 1 35 ? 4.141 8.007 -3.206 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 8
+ATOM 13635 H HE2 . MET B 1 35 ? 3.853 9.310 -4.383 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 8
+ATOM 13636 H HE3 . MET B 1 35 ? 4.849 9.618 -2.941 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 8
+ATOM 13637 N N . VAL B 1 36 ? -0.822 4.576 -2.076 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 8
+ATOM 13638 C CA . VAL B 1 36 ? -2.045 3.929 -2.519 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 8
+ATOM 13639 C C . VAL B 1 36 ? -3.248 4.764 -2.076 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 8
+ATOM 13640 O O . VAL B 1 36 ? -3.317 5.200 -0.928 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 8
+ATOM 13641 C CB . VAL B 1 36 ? -2.093 2.490 -2.001 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 8
+ATOM 13642 C CG1 . VAL B 1 36 ? -0.871 1.698 -2.469 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 8
+ATOM 13643 C CG2 . VAL B 1 36 ? -2.216 2.460 -0.476 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 8
+ATOM 13644 H H . VAL B 1 36 ? -0.723 4.660 -1.084 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 8
+ATOM 13645 H HA . VAL B 1 36 ? -2.023 3.895 -3.608 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 8
+ATOM 13646 H HB . VAL B 1 36 ? -2.981 2.014 -2.418 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 8
+ATOM 13647 H HG11 . VAL B 1 36 ? -1.195 0.864 -3.092 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 8
+ATOM 13648 H HG12 . VAL B 1 36 ? -0.215 2.349 -3.046 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 8
+ATOM 13649 H HG13 . VAL B 1 36 ? -0.333 1.315 -1.602 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 8
+ATOM 13650 H HG21 . VAL B 1 36 ? -1.260 2.735 -0.030 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 8
+ATOM 13651 H HG22 . VAL B 1 36 ? -2.982 3.168 -0.159 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 8
+ATOM 13652 H HG23 . VAL B 1 36 ? -2.492 1.456 -0.154 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 8
+ATOM 13653 N N . GLY B 1 37 ? -4.166 4.964 -3.010 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 8
+ATOM 13654 C CA . GLY B 1 37 ? -5.363 5.739 -2.731 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 8
+ATOM 13655 C C . GLY B 1 37 ? -6.623 4.899 -2.946 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 8
+ATOM 13656 O O . GLY B 1 37 ? -7.067 4.718 -4.078 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 8
+ATOM 13657 H H . GLY B 1 37 ? -4.102 4.606 -3.942 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 8
+ATOM 13658 H HA2 . GLY B 1 37 ? -5.333 6.101 -1.703 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 8
+ATOM 13659 H HA3 . GLY B 1 37 ? -5.391 6.616 -3.377 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 8
+ATOM 13660 N N . GLY B 1 38 ? -7.165 4.409 -1.840 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 8
+ATOM 13661 C CA . GLY B 1 38 ? -8.365 3.593 -1.894 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 8
+ATOM 13662 C C . GLY B 1 38 ? -9.568 4.348 -1.325 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 8
+ATOM 13663 O O . GLY B 1 38 ? -9.852 4.262 -0.131 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 8
+ATOM 13664 H H . GLY B 1 38 ? -6.797 4.561 -0.923 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 8
+ATOM 13665 H HA2 . GLY B 1 38 ? -8.567 3.304 -2.925 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 8
+ATOM 13666 H HA3 . GLY B 1 38 ? -8.210 2.673 -1.330 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 8
+ATOM 13667 N N . VAL B 1 39 ? -10.243 5.072 -2.206 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 8
+ATOM 13668 C CA . VAL B 1 39 ? -11.408 5.842 -1.807 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 8
+ATOM 13669 C C . VAL B 1 39 ? -12.662 5.219 -2.424 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 8
+ATOM 13670 O O . VAL B 1 39 ? -12.895 5.344 -3.625 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 8
+ATOM 13671 C CB . VAL B 1 39 ? -11.221 7.312 -2.191 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 8
+ATOM 13672 C CG1 . VAL B 1 39 ? -12.501 8.111 -1.942 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 8
+ATOM 13673 C CG2 . VAL B 1 39 ? -10.036 7.926 -1.443 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 8
+ATOM 13674 H H . VAL B 1 39 ? -10.005 5.136 -3.176 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 8
+ATOM 13675 H HA . VAL B 1 39 ? -11.485 5.784 -0.722 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 8
+ATOM 13676 H HB . VAL B 1 39 ? -11.001 7.354 -3.257 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 8
+ATOM 13677 H HG11 . VAL B 1 39 ? -12.338 9.153 -2.215 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 8
+ATOM 13678 H HG12 . VAL B 1 39 ? -13.310 7.699 -2.545 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 8
+ATOM 13679 H HG13 . VAL B 1 39 ? -12.768 8.050 -0.886 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 8
+ATOM 13680 H HG21 . VAL B 1 39 ? -10.319 8.906 -1.058 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 8
+ATOM 13681 H HG22 . VAL B 1 39 ? -9.754 7.278 -0.613 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 8
+ATOM 13682 H HG23 . VAL B 1 39 ? -9.192 8.033 -2.124 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 8
+ATOM 13683 N N . VAL B 1 40 ? -13.436 4.560 -1.574 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 8
+ATOM 13684 C CA . VAL B 1 40 ? -14.660 3.916 -2.020 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 8
+ATOM 13685 C C . VAL B 1 40 ? -15.862 4.638 -1.408 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 8
+ATOM 13686 O O . VAL B 1 40 ? -16.060 4.602 -0.194 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 8
+ATOM 13687 C CB . VAL B 1 40 ? -14.620 2.425 -1.681 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 8
+ATOM 13688 C CG1 . VAL B 1 40 ? -15.962 1.757 -1.990 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 8
+ATOM 13689 C CG2 . VAL B 1 40 ? -13.477 1.725 -2.417 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 8
+ATOM 13690 H H . VAL B 1 40 ? -13.238 4.462 -0.598 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 8
+ATOM 13691 H HA . VAL B 1 40 ? -14.706 4.015 -3.105 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 8
+ATOM 13692 H HB . VAL B 1 40 ? -14.438 2.329 -0.611 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 8
+ATOM 13693 H HG11 . VAL B 1 40 ? -16.293 1.188 -1.122 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 8
+ATOM 13694 H HG12 . VAL B 1 40 ? -16.702 2.521 -2.228 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 8
+ATOM 13695 H HG13 . VAL B 1 40 ? -15.846 1.087 -2.842 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 8
+ATOM 13696 H HG21 . VAL B 1 40 ? -13.081 2.388 -3.187 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 8
+ATOM 13697 H HG22 . VAL B 1 40 ? -12.686 1.478 -1.709 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 8
+ATOM 13698 H HG23 . VAL B 1 40 ? -13.848 0.811 -2.880 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 8
+ATOM 13699 N N . ILE B 1 41 ? -16.634 5.275 -2.276 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 8
+ATOM 13700 C CA . ILE B 1 41 ? -17.812 6.004 -1.835 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 8
+ATOM 13701 C C . ILE B 1 41 ? -19.016 5.572 -2.675 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 8
+ATOM 13702 O O . ILE B 1 41 ? -19.060 5.823 -3.878 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 8
+ATOM 13703 C CB . ILE B 1 41 ? -17.551 7.511 -1.863 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 8
+ATOM 13704 C CG1 . ILE B 1 41 ? -18.769 8.287 -1.359 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 8
+ATOM 13705 C CG2 . ILE B 1 41 ? -17.117 7.967 -3.258 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 8
+ATOM 13706 C CD1 . ILE B 1 41 ? -18.385 9.715 -0.964 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 8
+ATOM 13707 H H . ILE B 1 41 ? -16.466 5.299 -3.261 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 8
+ATOM 13708 H HA . ILE B 1 41 ? -17.997 5.728 -0.797 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 8
+ATOM 13709 H HB . ILE B 1 41 ? -16.727 7.728 -1.183 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 8
+ATOM 13710 H HG12 . ILE B 1 41 ? -19.534 8.315 -2.135 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 8
+ATOM 13711 H HG13 . ILE B 1 41 ? -19.203 7.773 -0.502 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 8
+ATOM 13712 H HG21 . ILE B 1 41 ? -16.664 8.956 -3.192 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 8
+ATOM 13713 H HG22 . ILE B 1 41 ? -16.392 7.261 -3.662 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 8
+ATOM 13714 H HG23 . ILE B 1 41 ? -17.987 8.008 -3.913 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 8
+ATOM 13715 H HD11 . ILE B 1 41 ? -19.168 10.403 -1.281 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 8
+ATOM 13716 H HD12 . ILE B 1 41 ? -18.266 9.773 0.118 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 8
+ATOM 13717 H HD13 . ILE B 1 41 ? -17.446 9.985 -1.448 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 8
+ATOM 13718 N N . ALA B 1 42 ? -19.963 4.930 -2.006 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 8
+ATOM 13719 C CA . ALA B 1 42 ? -21.165 4.462 -2.676 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 8
+ATOM 13720 C C . ALA B 1 42 ? -22.320 5.415 -2.366 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 8
+ATOM 13721 O O . ALA B 1 42 ? -22.355 6.030 -1.301 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 8
+ATOM 13722 C CB . ALA B 1 42 ? -21.463 3.025 -2.243 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 8
+ATOM 13723 H H . ALA B 1 42 ? -19.919 4.730 -1.028 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 8
+ATOM 13724 H HA . ALA B 1 42 ? -20.973 4.473 -3.749 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 8
+ATOM 13725 H HB1 . ALA B 1 42 ? -22.435 2.987 -1.754 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 8
+ATOM 13726 H HB2 . ALA B 1 42 ? -21.472 2.376 -3.120 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 8
+ATOM 13727 H HB3 . ALA B 1 42 ? -20.693 2.687 -1.549 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 8
+ATOM 13728 N N . LEU C 1 17 ? -14.397 -4.571 -14.171 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 8
+ATOM 13729 C CA . LEU C 1 17 ? -14.742 -5.073 -12.851 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 8
+ATOM 13730 C C . LEU C 1 17 ? -13.498 -5.681 -12.201 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 8
+ATOM 13731 O O . LEU C 1 17 ? -13.200 -5.401 -11.040 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 8
+ATOM 13732 C CB . LEU C 1 17 ? -15.925 -6.039 -12.938 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 8
+ATOM 13733 C CG . LEU C 1 17 ? -17.159 -5.662 -12.115 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 8
+ATOM 13734 C CD1 . LEU C 1 17 ? -17.817 -4.394 -12.663 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 8
+ATOM 13735 C CD2 . LEU C 1 17 ? -18.144 -6.831 -12.038 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 8
+ATOM 13736 H H . LEU C 1 17 ? -13.920 -5.224 -14.760 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 8
+ATOM 13737 H HA . LEU C 1 17 ? -15.064 -4.221 -12.252 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 8
+ATOM 13738 H HB2 . LEU C 1 17 ? -16.222 -6.126 -13.983 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 8
+ATOM 13739 H HB3 . LEU C 1 17 ? -15.588 -7.025 -12.619 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 8
+ATOM 13740 H HG . LEU C 1 17 ? -16.838 -5.444 -11.097 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 8
+ATOM 13741 H HD11 . LEU C 1 17 ? -18.519 -4.002 -11.927 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 8
+ATOM 13742 H HD12 . LEU C 1 17 ? -17.051 -3.647 -12.868 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 8
+ATOM 13743 H HD13 . LEU C 1 17 ? -18.351 -4.630 -13.584 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 8
+ATOM 13744 H HD21 . LEU C 1 17 ? -19.100 -6.530 -12.465 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 8
+ATOM 13745 H HD22 . LEU C 1 17 ? -17.747 -7.678 -12.597 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 8
+ATOM 13746 H HD23 . LEU C 1 17 ? -18.285 -7.118 -10.996 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 8
+ATOM 13747 N N . VAL C 1 18 ? -12.805 -6.502 -12.976 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 8
+ATOM 13748 C CA . VAL C 1 18 ? -11.600 -7.152 -12.490 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 8
+ATOM 13749 C C . VAL C 1 18 ? -10.380 -6.317 -12.884 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 8
+ATOM 13750 O O . VAL C 1 18 ? -9.925 -6.378 -14.025 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 8
+ATOM 13751 C CB . VAL C 1 18 ? -11.534 -8.589 -13.011 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 8
+ATOM 13752 C CG1 . VAL C 1 18 ? -10.373 -9.352 -12.369 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 8
+ATOM 13753 C CG2 . VAL C 1 18 ? -12.861 -9.316 -12.783 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 8
+ATOM 13754 H H . VAL C 1 18 ? -13.054 -6.724 -13.919 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 8
+ATOM 13755 H HA . VAL C 1 18 ? -11.663 -7.190 -11.402 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 8
+ATOM 13756 H HB . VAL C 1 18 ? -11.355 -8.548 -14.085 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 8
+ATOM 13757 H HG11 . VAL C 1 18 ? -10.592 -10.420 -12.377 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 8
+ATOM 13758 H HG12 . VAL C 1 18 ? -9.459 -9.164 -12.932 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 8
+ATOM 13759 H HG13 . VAL C 1 18 ? -10.242 -9.016 -11.340 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 8
+ATOM 13760 H HG21 . VAL C 1 18 ? -12.820 -10.301 -13.249 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 8
+ATOM 13761 H HG22 . VAL C 1 18 ? -13.035 -9.428 -11.712 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 8
+ATOM 13762 H HG23 . VAL C 1 18 ? -13.673 -8.738 -13.224 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 8
+ATOM 13763 N N . PHE C 1 19 ? -9.886 -5.556 -11.918 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 8
+ATOM 13764 C CA . PHE C 1 19 ? -8.728 -4.710 -12.151 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 8
+ATOM 13765 C C . PHE C 1 19 ? -7.488 -5.274 -11.454 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 8
+ATOM 13766 O O . PHE C 1 19 ? -7.485 -5.459 -10.238 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 8
+ATOM 13767 C CB . PHE C 1 19 ? -9.051 -3.337 -11.557 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 8
+ATOM 13768 C CG . PHE C 1 19 ? -9.169 -2.222 -12.598 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 8
+ATOM 13769 C CD1 . PHE C 1 19 ? -8.051 -1.588 -13.045 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 8
+ATOM 13770 C CD2 . PHE C 1 19 ? -10.391 -1.863 -13.076 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 8
+ATOM 13771 C CE1 . PHE C 1 19 ? -8.160 -0.553 -14.010 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 8
+ATOM 13772 C CE2 . PHE C 1 19 ? -10.499 -0.828 -14.041 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 8
+ATOM 13773 C CZ . PHE C 1 19 ? -9.382 -0.195 -14.488 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 8
+ATOM 13774 H H . PHE C 1 19 ? -10.263 -5.513 -10.993 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 8
+ATOM 13775 H HA . PHE C 1 19 ? -8.558 -4.683 -13.227 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 8
+ATOM 13776 H HB2 . PHE C 1 19 ? -9.988 -3.403 -11.003 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 8
+ATOM 13777 H HB3 . PHE C 1 19 ? -8.275 -3.071 -10.840 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 8
+ATOM 13778 H HD1 . PHE C 1 19 ? -7.072 -1.875 -12.662 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 8
+ATOM 13779 H HD2 . PHE C 1 19 ? -11.286 -2.371 -12.717 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 8
+ATOM 13780 H HE1 . PHE C 1 19 ? -7.265 -0.045 -14.369 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 8
+ATOM 13781 H HE2 . PHE C 1 19 ? -11.479 -0.541 -14.424 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 8
+ATOM 13782 H HZ . PHE C 1 19 ? -9.466 0.600 -15.230 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 8
+ATOM 13783 N N . PHE C 1 20 ? -6.465 -5.532 -12.255 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 8
+ATOM 13784 C CA . PHE C 1 20 ? -5.222 -6.072 -11.732 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 8
+ATOM 13785 C C . PHE C 1 20 ? -4.013 -5.403 -12.390 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 8
+ATOM 13786 O O . PHE C 1 20 ? -3.948 -5.298 -13.613 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 8
+ATOM 13787 C CB . PHE C 1 20 ? -5.207 -7.565 -12.064 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 8
+ATOM 13788 C CG . PHE C 1 20 ? -4.754 -8.456 -10.905 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 8
+ATOM 13789 C CD1 . PHE C 1 20 ? -3.433 -8.549 -10.595 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 8
+ATOM 13790 C CD2 . PHE C 1 20 ? -5.672 -9.155 -10.186 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 8
+ATOM 13791 C CE1 . PHE C 1 20 ? -3.013 -9.376 -9.520 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 8
+ATOM 13792 C CE2 . PHE C 1 20 ? -5.252 -9.982 -9.111 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 8
+ATOM 13793 C CZ . PHE C 1 20 ? -3.931 -10.075 -8.800 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 8
+ATOM 13794 H H . PHE C 1 20 ? -6.476 -5.379 -13.244 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 8
+ATOM 13795 H HA . PHE C 1 20 ? -5.208 -5.870 -10.660 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 8
+ATOM 13796 H HB2 . PHE C 1 20 ? -6.208 -7.869 -12.372 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 8
+ATOM 13797 H HB3 . PHE C 1 20 ? -4.547 -7.731 -12.916 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 8
+ATOM 13798 H HD1 . PHE C 1 20 ? -2.697 -7.989 -11.172 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 8
+ATOM 13799 H HD2 . PHE C 1 20 ? -6.731 -9.081 -10.434 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 8
+ATOM 13800 H HE1 . PHE C 1 20 ? -1.954 -9.450 -9.271 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 8
+ATOM 13801 H HE2 . PHE C 1 20 ? -5.988 -10.542 -8.534 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 8
+ATOM 13802 H HZ . PHE C 1 20 ? -3.608 -10.709 -7.975 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 8
+ATOM 13803 N N . ALA C 1 21 ? -3.086 -4.969 -11.548 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 8
+ATOM 13804 C CA . ALA C 1 21 ? -1.884 -4.313 -12.033 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 8
+ATOM 13805 C C . ALA C 1 21 ? -0.659 -4.961 -11.385 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 8
+ATOM 13806 O O . ALA C 1 21 ? -0.423 -4.794 -10.190 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 8
+ATOM 13807 C CB . ALA C 1 21 ? -1.970 -2.812 -11.747 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 8
+ATOM 13808 H H . ALA C 1 21 ? -3.147 -5.059 -10.554 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 8
+ATOM 13809 H HA . ALA C 1 21 ? -1.836 -4.463 -13.112 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 8
+ATOM 13810 H HB1 . ALA C 1 21 ? -2.482 -2.652 -10.798 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 8
+ATOM 13811 H HB2 . ALA C 1 21 ? -0.964 -2.395 -11.691 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 8
+ATOM 13812 H HB3 . ALA C 1 21 ? -2.523 -2.321 -12.547 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 8
+ATOM 13813 N N . GLU C 1 22 ? 0.089 -5.687 -12.203 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 8
+ATOM 13814 C CA . GLU C 1 22 ? 1.284 -6.361 -11.725 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 8
+ATOM 13815 C C . GLU C 1 22 ? 2.524 -5.804 -12.426 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 8
+ATOM 13816 O O . GLU C 1 22 ? 2.602 -5.808 -13.654 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 8
+ATOM 13817 C CB . GLU C 1 22 ? 1.176 -7.874 -11.921 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 8
+ATOM 13818 C CG . GLU C 1 22 ? 1.288 -8.610 -10.585 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 8
+ATOM 13819 C CD . GLU C 1 22 ? 1.425 -10.119 -10.799 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 8
+ATOM 13820 O OE1 . GLU C 1 22 ? 2.499 -10.527 -11.292 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 8
+ATOM 13821 O OE2 . GLU C 1 22 ? 0.453 -10.830 -10.466 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 8
+ATOM 13822 H H . GLU C 1 22 ? -0.110 -5.818 -13.174 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 8
+ATOM 13823 H HA . GLU C 1 22 ? 1.333 -6.142 -10.658 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 8
+ATOM 13824 H HB2 . GLU C 1 22 ? 0.225 -8.116 -12.395 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 8
+ATOM 13825 H HB3 . GLU C 1 22 ? 1.963 -8.214 -12.595 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 8
+ATOM 13826 H HG2 . GLU C 1 22 ? 2.151 -8.238 -10.032 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 8
+ATOM 13827 H HG3 . GLU C 1 22 ? 0.407 -8.404 -9.977 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 8
+ATOM 13828 N N . ASP C 1 23 ? 3.464 -5.338 -11.617 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 8
+ATOM 13829 C CA . ASP C 1 23 ? 4.697 -4.778 -12.145 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 8
+ATOM 13830 C C . ASP C 1 23 ? 5.889 -5.516 -11.533 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 8
+ATOM 13831 O O . ASP C 1 23 ? 5.953 -5.701 -10.318 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 8
+ATOM 13832 C CB . ASP C 1 23 ? 4.825 -3.296 -11.790 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 8
+ATOM 13833 C CG . ASP C 1 23 ? 6.088 -2.612 -12.318 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 8
+ATOM 13834 O OD1 . ASP C 1 23 ? 6.390 -2.821 -13.513 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 8
+ATOM 13835 O OD2 . ASP C 1 23 ? 6.723 -1.895 -11.514 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 8
+ATOM 13836 H H . ASP C 1 23 ? 3.393 -5.338 -10.619 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 8
+ATOM 13837 H HA . ASP C 1 23 ? 4.633 -4.913 -13.224 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 8
+ATOM 13838 H HB2 . ASP C 1 23 ? 3.955 -2.768 -12.179 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 8
+ATOM 13839 H HB3 . ASP C 1 23 ? 4.801 -3.194 -10.705 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 8
+ATOM 13840 N N . VAL C 1 24 ? 6.805 -5.918 -12.402 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 8
+ATOM 13841 C CA . VAL C 1 24 ? 7.992 -6.631 -11.962 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 8
+ATOM 13842 C C . VAL C 1 24 ? 9.238 -5.851 -12.388 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 8
+ATOM 13843 O O . VAL C 1 24 ? 9.580 -5.816 -13.569 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 8
+ATOM 13844 C CB . VAL C 1 24 ? 7.972 -8.063 -12.500 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 8
+ATOM 13845 C CG1 . VAL C 1 24 ? 9.307 -8.765 -12.244 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 8
+ATOM 13846 C CG2 . VAL C 1 24 ? 6.810 -8.858 -11.899 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 8
+ATOM 13847 H H . VAL C 1 24 ? 6.746 -5.763 -13.388 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 8
+ATOM 13848 H HA . VAL C 1 24 ? 7.963 -6.679 -10.874 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 8
+ATOM 13849 H HB . VAL C 1 24 ? 7.821 -8.014 -13.579 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 8
+ATOM 13850 H HG11 . VAL C 1 24 ? 10.034 -8.039 -11.878 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 8
+ATOM 13851 H HG12 . VAL C 1 24 ? 9.169 -9.548 -11.499 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 8
+ATOM 13852 H HG13 . VAL C 1 24 ? 9.670 -9.206 -13.172 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 8
+ATOM 13853 H HG21 . VAL C 1 24 ? 7.203 -9.634 -11.243 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 8
+ATOM 13854 H HG22 . VAL C 1 24 ? 6.170 -8.187 -11.326 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 8
+ATOM 13855 H HG23 . VAL C 1 24 ? 6.231 -9.318 -12.700 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 8
+ATOM 13856 N N . GLY C 1 25 ? 9.882 -5.244 -11.402 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 8
+ATOM 13857 C CA . GLY C 1 25 ? 11.082 -4.466 -11.659 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 8
+ATOM 13858 C C . GLY C 1 25 ? 12.304 -5.110 -11.001 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 8
+ATOM 13859 O O . GLY C 1 25 ? 12.453 -5.065 -9.781 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 8
+ATOM 13860 H H . GLY C 1 25 ? 9.597 -5.277 -10.444 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 8
+ATOM 13861 H HA2 . GLY C 1 25 ? 11.244 -4.385 -12.734 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 8
+ATOM 13862 H HA3 . GLY C 1 25 ? 10.952 -3.453 -11.279 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 8
+ATOM 13863 N N . SER C 1 26 ? 13.148 -5.694 -11.839 1.00 0.00 ? ? ? ? ? ? 26 SER C N 8
+ATOM 13864 C CA . SER C 1 26 ? 14.353 -6.346 -11.354 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 8
+ATOM 13865 C C . SER C 1 26 ? 15.447 -5.306 -11.106 1.00 0.00 ? ? ? ? ? ? 26 SER C C 8
+ATOM 13866 O O . SER C 1 26 ? 15.701 -4.452 -11.954 1.00 0.00 ? ? ? ? ? ? 26 SER C O 8
+ATOM 13867 C CB . SER C 1 26 ? 14.842 -7.406 -12.343 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 8
+ATOM 13868 O OG . SER C 1 26 ? 14.902 -8.701 -11.752 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 8
+ATOM 13869 H H . SER C 1 26 ? 13.020 -5.726 -12.830 1.00 0.00 ? ? ? ? ? ? 26 SER C H 8
+ATOM 13870 H HA . SER C 1 26 ? 14.064 -6.828 -10.420 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 8
+ATOM 13871 H HB2 . SER C 1 26 ? 14.176 -7.432 -13.206 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 8
+ATOM 13872 H HB3 . SER C 1 26 ? 15.830 -7.130 -12.712 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 8
+ATOM 13873 H HG . SER C 1 26 ? 14.771 -9.403 -12.452 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 8
+ATOM 13874 N N . ASN C 1 27 ? 16.067 -5.413 -9.940 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 8
+ATOM 13875 C CA . ASN C 1 27 ? 17.128 -4.492 -9.569 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 8
+ATOM 13876 C C . ASN C 1 27 ? 16.577 -3.065 -9.552 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 8
+ATOM 13877 O O . ASN C 1 27 ? 17.111 -2.181 -10.220 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 8
+ATOM 13878 C CB . ASN C 1 27 ? 18.278 -4.543 -10.578 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 8
+ATOM 13879 C CG . ASN C 1 27 ? 19.318 -5.588 -10.171 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 8
+ATOM 13880 O OD1 . ASN C 1 27 ? 19.001 -6.709 -9.809 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 8
+ATOM 13881 N ND2 . ASN C 1 27 ? 20.575 -5.160 -10.251 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 8
+ATOM 13882 H H . ASN C 1 27 ? 15.855 -6.110 -9.255 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 8
+ATOM 13883 H HA . ASN C 1 27 ? 17.463 -4.822 -8.586 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 8
+ATOM 13884 H HB2 . ASN C 1 27 ? 17.888 -4.779 -11.568 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 8
+ATOM 13885 H HB3 . ASN C 1 27 ? 18.750 -3.562 -10.646 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 8
+ATOM 13886 H HD21 . ASN C 1 27 ? 20.767 -4.227 -10.557 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 8
+ATOM 13887 H HD22 . ASN C 1 27 ? 21.328 -5.771 -10.006 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 8
+ATOM 13888 N N . LYS C 1 28 ? 15.515 -2.884 -8.781 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 8
+ATOM 13889 C CA . LYS C 1 28 ? 14.885 -1.580 -8.668 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 8
+ATOM 13890 C C . LYS C 1 28 ? 15.838 -0.619 -7.955 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 8
+ATOM 13891 O O . LYS C 1 28 ? 16.687 -1.046 -7.174 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 8
+ATOM 13892 C CB . LYS C 1 28 ? 13.517 -1.702 -7.995 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 8
+ATOM 13893 C CG . LYS C 1 28 ? 12.392 -1.687 -9.032 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 8
+ATOM 13894 C CD . LYS C 1 28 ? 11.049 -1.355 -8.379 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 8
+ATOM 13895 C CE . LYS C 1 28 ? 9.971 -2.354 -8.805 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 8
+ATOM 13896 N NZ . LYS C 1 28 ? 8.698 -2.075 -8.102 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 8
+ATOM 13897 H H . LYS C 1 28 ? 15.086 -3.609 -8.241 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 8
+ATOM 13898 H HA . LYS C 1 28 ? 14.715 -1.211 -9.679 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 8
+ATOM 13899 H HB2 . LYS C 1 28 ? 13.472 -2.625 -7.418 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 8
+ATOM 13900 H HB3 . LYS C 1 28 ? 13.379 -0.881 -7.291 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 8
+ATOM 13901 H HG2 . LYS C 1 28 ? 12.616 -0.952 -9.805 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 8
+ATOM 13902 H HG3 . LYS C 1 28 ? 12.332 -2.658 -9.523 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 8
+ATOM 13903 H HD2 . LYS C 1 28 ? 11.154 -1.369 -7.294 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 8
+ATOM 13904 H HD3 . LYS C 1 28 ? 10.744 -0.346 -8.656 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 8
+ATOM 13905 H HE2 . LYS C 1 28 ? 9.818 -2.296 -9.883 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 8
+ATOM 13906 H HE3 . LYS C 1 28 ? 10.300 -3.369 -8.584 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 8
+ATOM 13907 H HZ1 . LYS C 1 28 ? 7.940 -2.480 -8.613 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 8
+ATOM 13908 H HZ2 . LYS C 1 28 ? 8.731 -2.469 -7.184 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 8
+ATOM 13909 H HZ3 . LYS C 1 28 ? 8.565 -1.086 -8.035 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 8
+ATOM 13910 N N . GLY C 1 29 ? 15.665 0.662 -8.249 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 8
+ATOM 13911 C CA . GLY C 1 29 ? 16.499 1.687 -7.645 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 8
+ATOM 13912 C C . GLY C 1 29 ? 16.167 3.069 -8.212 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 8
+ATOM 13913 O O . GLY C 1 29 ? 15.178 3.229 -8.926 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 8
+ATOM 13914 H H . GLY C 1 29 ? 14.972 1.001 -8.885 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 8
+ATOM 13915 H HA2 . GLY C 1 29 ? 16.355 1.689 -6.565 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 8
+ATOM 13916 H HA3 . GLY C 1 29 ? 17.550 1.459 -7.826 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 8
+ATOM 13917 N N . ALA C 1 30 ? 17.012 4.031 -7.874 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 8
+ATOM 13918 C CA . ALA C 1 30 ? 16.820 5.394 -8.340 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 8
+ATOM 13919 C C . ALA C 1 30 ? 15.453 5.900 -7.875 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 8
+ATOM 13920 O O . ALA C 1 30 ? 14.979 5.524 -6.804 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 8
+ATOM 13921 C CB . ALA C 1 30 ? 16.971 5.439 -9.862 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 8
+ATOM 13922 H H . ALA C 1 30 ? 17.814 3.893 -7.293 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 8
+ATOM 13923 H HA . ALA C 1 30 ? 17.598 6.011 -7.892 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 8
+ATOM 13924 H HB1 . ALA C 1 30 ? 17.256 6.445 -10.169 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 8
+ATOM 13925 H HB2 . ALA C 1 30 ? 17.741 4.732 -10.171 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 8
+ATOM 13926 H HB3 . ALA C 1 30 ? 16.024 5.171 -10.330 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 8
+ATOM 13927 N N . ILE C 1 31 ? 14.857 6.744 -8.704 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 8
+ATOM 13928 C CA . ILE C 1 31 ? 13.553 7.305 -8.391 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 8
+ATOM 13929 C C . ILE C 1 31 ? 12.471 6.264 -8.684 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 8
+ATOM 13930 O O . ILE C 1 31 ? 12.249 5.902 -9.838 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 8
+ATOM 13931 C CB . ILE C 1 31 ? 13.349 8.630 -9.130 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 8
+ATOM 13932 C CG1 . ILE C 1 31 ? 14.242 9.726 -8.547 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 8
+ATOM 13933 C CG2 . ILE C 1 31 ? 11.873 9.034 -9.133 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 8
+ATOM 13934 C CD1 . ILE C 1 31 ? 15.314 10.152 -9.553 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 8
+ATOM 13935 H H . ILE C 1 31 ? 15.248 7.045 -9.574 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 8
+ATOM 13936 H HA . ILE C 1 31 ? 13.540 7.527 -7.324 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 8
+ATOM 13937 H HB . ILE C 1 31 ? 13.646 8.490 -10.170 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 8
+ATOM 13938 H HG12 . ILE C 1 31 ? 13.634 10.588 -8.272 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 8
+ATOM 13939 H HG13 . ILE C 1 31 ? 14.717 9.367 -7.634 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 8
+ATOM 13940 H HG21 . ILE C 1 31 ? 11.316 8.370 -9.794 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 8
+ATOM 13941 H HG22 . ILE C 1 31 ? 11.474 8.958 -8.122 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 8
+ATOM 13942 H HG23 . ILE C 1 31 ? 11.778 10.061 -9.485 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 8
+ATOM 13943 H HD11 . ILE C 1 31 ? 15.842 11.027 -9.172 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 8
+ATOM 13944 H HD12 . ILE C 1 31 ? 16.021 9.336 -9.698 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 8
+ATOM 13945 H HD13 . ILE C 1 31 ? 14.843 10.398 -10.504 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 8
+ATOM 13946 N N . ILE C 1 32 ? 11.826 5.813 -7.619 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 8
+ATOM 13947 C CA . ILE C 1 32 ? 10.772 4.821 -7.747 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 8
+ATOM 13948 C C . ILE C 1 32 ? 9.451 5.421 -7.262 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 8
+ATOM 13949 O O . ILE C 1 32 ? 9.059 5.221 -6.113 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 8
+ATOM 13950 C CB . ILE C 1 32 ? 11.162 3.529 -7.026 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 8
+ATOM 13951 C CG1 . ILE C 1 32 ? 12.281 2.800 -7.774 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 8
+ATOM 13952 C CG2 . ILE C 1 32 ? 9.941 2.633 -6.808 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 8
+ATOM 13953 C CD1 . ILE C 1 32 ? 13.212 2.078 -6.798 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 8
+ATOM 13954 H H . ILE C 1 32 ? 12.012 6.113 -6.683 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 8
+ATOM 13955 H HA . ILE C 1 32 ? 10.675 4.582 -8.806 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 8
+ATOM 13956 H HB . ILE C 1 32 ? 11.549 3.790 -6.042 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 8
+ATOM 13957 H HG12 . ILE C 1 32 ? 11.850 2.082 -8.470 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 8
+ATOM 13958 H HG13 . ILE C 1 32 ? 12.852 3.515 -8.366 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 8
+ATOM 13959 H HG21 . ILE C 1 32 ? 9.070 3.083 -7.283 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 8
+ATOM 13960 H HG22 . ILE C 1 32 ? 10.127 1.652 -7.245 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 8
+ATOM 13961 H HG23 . ILE C 1 32 ? 9.757 2.524 -5.739 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 8
+ATOM 13962 H HD11 . ILE C 1 32 ? 13.490 1.108 -7.211 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 8
+ATOM 13963 H HD12 . ILE C 1 32 ? 14.110 2.677 -6.641 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 8
+ATOM 13964 H HD13 . ILE C 1 32 ? 12.700 1.935 -5.846 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 8
+ATOM 13965 N N . GLY C 1 33 ? 8.800 6.144 -8.161 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 8
+ATOM 13966 C CA . GLY C 1 33 ? 7.531 6.774 -7.839 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 8
+ATOM 13967 C C . GLY C 1 33 ? 6.360 5.838 -8.148 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 8
+ATOM 13968 O O . GLY C 1 33 ? 5.966 5.692 -9.304 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 8
+ATOM 13969 H H . GLY C 1 33 ? 9.125 6.301 -9.094 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 8
+ATOM 13970 H HA2 . GLY C 1 33 ? 7.514 7.047 -6.784 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 8
+ATOM 13971 H HA3 . GLY C 1 33 ? 7.424 7.696 -8.410 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 8
+ATOM 13972 N N . LEU C 1 34 ? 5.837 5.229 -7.094 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 8
+ATOM 13973 C CA . LEU C 1 34 ? 4.719 4.312 -7.238 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 8
+ATOM 13974 C C . LEU C 1 34 ? 3.480 4.917 -6.575 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 8
+ATOM 13975 O O . LEU C 1 34 ? 3.451 5.106 -5.360 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 8
+ATOM 13976 C CB . LEU C 1 34 ? 5.090 2.928 -6.702 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 8
+ATOM 13977 C CG . LEU C 1 34 ? 3.932 2.087 -6.160 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 8
+ATOM 13978 C CD1 . LEU C 1 34 ? 2.859 1.878 -7.230 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 8
+ATOM 13979 C CD2 . LEU C 1 34 ? 4.438 0.760 -5.590 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 8
+ATOM 13980 H H . LEU C 1 34 ? 6.164 5.354 -6.157 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 8
+ATOM 13981 H HA . LEU C 1 34 ? 4.522 4.203 -8.304 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 8
+ATOM 13982 H HB2 . LEU C 1 34 ? 5.576 2.369 -7.501 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 8
+ATOM 13983 H HB3 . LEU C 1 34 ? 5.825 3.053 -5.907 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 8
+ATOM 13984 H HG . LEU C 1 34 ? 3.467 2.633 -5.340 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 8
+ATOM 13985 H HD11 . LEU C 1 34 ? 2.662 0.812 -7.345 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 8
+ATOM 13986 H HD12 . LEU C 1 34 ? 1.942 2.387 -6.930 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 8
+ATOM 13987 H HD13 . LEU C 1 34 ? 3.207 2.287 -8.179 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 8
+ATOM 13988 H HD21 . LEU C 1 34 ? 3.693 -0.016 -5.760 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 8
+ATOM 13989 H HD22 . LEU C 1 34 ? 5.370 0.484 -6.084 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 8
+ATOM 13990 H HD23 . LEU C 1 34 ? 4.612 0.868 -4.519 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 8
+ATOM 13991 N N . MET C 1 35 ? 2.486 5.205 -7.403 1.00 0.00 ? ? ? ? ? ? 35 MET C N 8
+ATOM 13992 C CA . MET C 1 35 ? 1.248 5.784 -6.912 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 8
+ATOM 13993 C C . MET C 1 35 ? 0.035 5.123 -7.570 1.00 0.00 ? ? ? ? ? ? 35 MET C C 8
+ATOM 13994 O O . MET C 1 35 ? -0.302 5.432 -8.712 1.00 0.00 ? ? ? ? ? ? 35 MET C O 8
+ATOM 13995 C CB . MET C 1 35 ? 1.234 7.285 -7.207 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 8
+ATOM 13996 C CG . MET C 1 35 ? -0.024 7.945 -6.638 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 8
+ATOM 13997 S SD . MET C 1 35 ? 0.140 9.721 -6.694 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 8
+ATOM 13998 C CE . MET C 1 35 ? -1.582 10.191 -6.707 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 8
+ATOM 13999 H H . MET C 1 35 ? 2.518 5.048 -8.390 1.00 0.00 ? ? ? ? ? ? 35 MET C H 8
+ATOM 14000 H HA . MET C 1 35 ? 1.239 5.590 -5.840 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 8
+ATOM 14001 H HB2 . MET C 1 35 ? 2.120 7.752 -6.777 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 8
+ATOM 14002 H HB3 . MET C 1 35 ? 1.279 7.448 -8.284 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 8
+ATOM 14003 H HG2 . MET C 1 35 ? -0.898 7.634 -7.210 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 8
+ATOM 14004 H HG3 . MET C 1 35 ? -0.183 7.618 -5.611 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 8
+ATOM 14005 H HE1 . MET C 1 35 ? -2.163 9.458 -6.148 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 8
+ATOM 14006 H HE2 . MET C 1 35 ? -1.695 11.172 -6.246 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 8
+ATOM 14007 H HE3 . MET C 1 35 ? -1.940 10.230 -7.736 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 8
+ATOM 14008 N N . VAL C 1 36 ? -0.589 4.226 -6.821 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 8
+ATOM 14009 C CA . VAL C 1 36 ? -1.758 3.519 -7.317 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 8
+ATOM 14010 C C . VAL C 1 36 ? -3.020 4.288 -6.922 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 8
+ATOM 14011 O O . VAL C 1 36 ? -3.247 4.551 -5.742 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 8
+ATOM 14012 C CB . VAL C 1 36 ? -1.752 2.077 -6.807 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 8
+ATOM 14013 C CG1 . VAL C 1 36 ? -0.471 1.352 -7.226 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 8
+ATOM 14014 C CG2 . VAL C 1 36 ? -1.936 2.031 -5.289 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 8
+ATOM 14015 H H . VAL C 1 36 ? -0.309 3.981 -5.893 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 8
+ATOM 14016 H HA . VAL C 1 36 ? -1.689 3.493 -8.405 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 8
+ATOM 14017 H HB . VAL C 1 36 ? -2.595 1.557 -7.262 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 8
+ATOM 14018 H HG11 . VAL C 1 36 ? 0.212 1.303 -6.379 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 8
+ATOM 14019 H HG12 . VAL C 1 36 ? -0.716 0.342 -7.554 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 8
+ATOM 14020 H HG13 . VAL C 1 36 ? 0.002 1.895 -8.044 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 8
+ATOM 14021 H HG21 . VAL C 1 36 ? -2.889 2.489 -5.025 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 8
+ATOM 14022 H HG22 . VAL C 1 36 ? -1.926 0.994 -4.953 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 8
+ATOM 14023 H HG23 . VAL C 1 36 ? -1.125 2.577 -4.808 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 8
+ATOM 14024 N N . GLY C 1 37 ? -3.808 4.627 -7.931 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 8
+ATOM 14025 C CA . GLY C 1 37 ? -5.042 5.361 -7.703 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 8
+ATOM 14026 C C . GLY C 1 37 ? -6.259 4.445 -7.846 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 8
+ATOM 14027 O O . GLY C 1 37 ? -6.418 3.771 -8.863 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 8
+ATOM 14028 H H . GLY C 1 37 ? -3.616 4.410 -8.888 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 8
+ATOM 14029 H HA2 . GLY C 1 37 ? -5.028 5.802 -6.707 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 8
+ATOM 14030 H HA3 . GLY C 1 37 ? -5.116 6.184 -8.415 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 8
+ATOM 14031 N N . GLY C 1 38 ? -7.087 4.449 -6.811 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 8
+ATOM 14032 C CA . GLY C 1 38 ? -8.285 3.626 -6.808 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 8
+ATOM 14033 C C . GLY C 1 38 ? -9.438 4.340 -6.100 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 8
+ATOM 14034 O O . GLY C 1 38 ? -9.538 4.301 -4.875 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 8
+ATOM 14035 H H . GLY C 1 38 ? -6.950 4.999 -5.988 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 8
+ATOM 14036 H HA2 . GLY C 1 38 ? -8.572 3.392 -7.833 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 8
+ATOM 14037 H HA3 . GLY C 1 38 ? -8.078 2.679 -6.310 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 8
+ATOM 14038 N N . VAL C 1 39 ? -10.280 4.976 -6.902 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 8
+ATOM 14039 C CA . VAL C 1 39 ? -11.422 5.697 -6.368 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 8
+ATOM 14040 C C . VAL C 1 39 ? -12.709 5.104 -6.943 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 8
+ATOM 14041 O O . VAL C 1 39 ? -12.810 4.882 -8.149 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 8
+ATOM 14042 C CB . VAL C 1 39 ? -11.275 7.194 -6.651 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 8
+ATOM 14043 C CG1 . VAL C 1 39 ? -12.506 7.966 -6.172 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 8
+ATOM 14044 C CG2 . VAL C 1 39 ? -9.998 7.749 -6.017 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 8
+ATOM 14045 H H . VAL C 1 39 ? -10.191 5.003 -7.898 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 8
+ATOM 14046 H HA . VAL C 1 39 ? -11.423 5.557 -5.287 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 8
+ATOM 14047 H HB . VAL C 1 39 ? -11.197 7.324 -7.730 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 8
+ATOM 14048 H HG11 . VAL C 1 39 ? -12.262 8.508 -5.258 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 8
+ATOM 14049 H HG12 . VAL C 1 39 ? -12.814 8.673 -6.942 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 8
+ATOM 14050 H HG13 . VAL C 1 39 ? -13.319 7.267 -5.974 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 8
+ATOM 14051 H HG21 . VAL C 1 39 ? -9.578 8.521 -6.662 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 8
+ATOM 14052 H HG22 . VAL C 1 39 ? -10.233 8.178 -5.042 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 8
+ATOM 14053 H HG23 . VAL C 1 39 ? -9.273 6.944 -5.894 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 8
+ATOM 14054 N N . VAL C 1 40 ? -13.661 4.863 -6.054 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 8
+ATOM 14055 C CA . VAL C 1 40 ? -14.938 4.299 -6.458 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 8
+ATOM 14056 C C . VAL C 1 40 ? -16.069 5.201 -5.960 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 8
+ATOM 14057 O O . VAL C 1 40 ? -16.426 5.164 -4.783 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 8
+ATOM 14058 C CB . VAL C 1 40 ? -15.057 2.859 -5.955 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 8
+ATOM 14059 C CG1 . VAL C 1 40 ? -16.476 2.323 -6.158 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 8
+ATOM 14060 C CG2 . VAL C 1 40 ? -14.027 1.955 -6.635 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 8
+ATOM 14061 H H . VAL C 1 40 ? -13.571 5.046 -5.075 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 8
+ATOM 14062 H HA . VAL C 1 40 ? -14.959 4.279 -7.547 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 8
+ATOM 14063 H HB . VAL C 1 40 ? -14.849 2.859 -4.885 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 8
+ATOM 14064 H HG11 . VAL C 1 40 ? -16.484 1.246 -5.992 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 8
+ATOM 14065 H HG12 . VAL C 1 40 ? -17.151 2.805 -5.451 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 8
+ATOM 14066 H HG13 . VAL C 1 40 ? -16.802 2.536 -7.176 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 8
+ATOM 14067 H HG21 . VAL C 1 40 ? -13.624 2.459 -7.513 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 8
+ATOM 14068 H HG22 . VAL C 1 40 ? -13.217 1.738 -5.937 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 8
+ATOM 14069 H HG23 . VAL C 1 40 ? -14.504 1.023 -6.937 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 8
+ATOM 14070 N N . ILE C 1 41 ? -16.603 5.990 -6.881 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 8
+ATOM 14071 C CA . ILE C 1 41 ? -17.686 6.900 -6.551 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 8
+ATOM 14072 C C . ILE C 1 41 ? -18.930 6.520 -7.357 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 8
+ATOM 14073 O O . ILE C 1 41 ? -18.978 6.732 -8.568 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 8
+ATOM 14074 C CB . ILE C 1 41 ? -17.246 8.352 -6.749 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 8
+ATOM 14075 C CG1 . ILE C 1 41 ? -18.305 9.323 -6.222 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 8
+ATOM 14076 C CG2 . ILE C 1 41 ? -16.896 8.624 -8.213 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 8
+ATOM 14077 C CD1 . ILE C 1 41 ? -17.654 10.561 -5.603 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 8
+ATOM 14078 H H . ILE C 1 41 ? -16.307 6.014 -7.837 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 8
+ATOM 14079 H HA . ILE C 1 41 ? -17.909 6.772 -5.492 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 8
+ATOM 14080 H HB . ILE C 1 41 ? -16.340 8.516 -6.166 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 8
+ATOM 14081 H HG12 . ILE C 1 41 ? -18.965 9.623 -7.035 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 8
+ATOM 14082 H HG13 . ILE C 1 41 ? -18.924 8.822 -5.477 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 8
+ATOM 14083 H HG21 . ILE C 1 41 ? -17.814 8.738 -8.790 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 8
+ATOM 14084 H HG22 . ILE C 1 41 ? -16.308 9.539 -8.282 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 8
+ATOM 14085 H HG23 . ILE C 1 41 ? -16.319 7.790 -8.610 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 8
+ATOM 14086 H HD11 . ILE C 1 41 ? -18.337 11.407 -5.679 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 8
+ATOM 14087 H HD12 . ILE C 1 41 ? -17.430 10.368 -4.554 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 8
+ATOM 14088 H HD13 . ILE C 1 41 ? -16.730 10.790 -6.135 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 8
+ATOM 14089 N N . ALA C 1 42 ? -19.905 5.963 -6.653 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 8
+ATOM 14090 C CA . ALA C 1 42 ? -21.145 5.551 -7.289 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 8
+ATOM 14091 C C . ALA C 1 42 ? -22.265 6.513 -6.884 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 8
+ATOM 14092 O O . ALA C 1 42 ? -22.586 6.634 -5.702 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 8
+ATOM 14093 C CB . ALA C 1 42 ? -21.456 4.102 -6.910 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 8
+ATOM 14094 H H . ALA C 1 42 ? -19.858 5.794 -5.669 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 8
+ATOM 14095 H HA . ALA C 1 42 ? -21.001 5.609 -8.367 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 8
+ATOM 14096 H HB1 . ALA C 1 42 ? -22.500 4.021 -6.607 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 8
+ATOM 14097 H HB2 . ALA C 1 42 ? -21.275 3.455 -7.769 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 8
+ATOM 14098 H HB3 . ALA C 1 42 ? -20.814 3.797 -6.084 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 8
+ATOM 14099 N N . LEU D 1 17 ? -15.614 -7.236 -18.284 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 8
+ATOM 14100 C CA . LEU D 1 17 ? -15.214 -6.202 -17.344 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 8
+ATOM 14101 C C . LEU D 1 17 ? -13.930 -6.633 -16.634 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 8
+ATOM 14102 O O . LEU D 1 17 ? -13.928 -6.843 -15.421 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 8
+ATOM 14103 C CB . LEU D 1 17 ? -16.364 -5.871 -16.390 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 8
+ATOM 14104 C CG . LEU D 1 17 ? -17.651 -5.362 -17.042 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 8
+ATOM 14105 C CD1 . LEU D 1 17 ? -18.687 -6.482 -17.156 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 8
+ATOM 14106 C CD2 . LEU D 1 17 ? -18.201 -4.146 -16.294 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 8
+ATOM 14107 H H . LEU D 1 17 ? -15.903 -6.903 -19.181 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 8
+ATOM 14108 H HA . LEU D 1 17 ? -15.004 -5.301 -17.921 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 8
+ATOM 14109 H HB2 . LEU D 1 17 ? -16.601 -6.766 -15.814 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 8
+ATOM 14110 H HB3 . LEU D 1 17 ? -16.017 -5.119 -15.682 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 8
+ATOM 14111 H HG . LEU D 1 17 ? -17.416 -5.037 -18.056 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 8
+ATOM 14112 H HD11 . LEU D 1 17 ? -18.178 -7.434 -17.305 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 8
+ATOM 14113 H HD12 . LEU D 1 17 ? -19.279 -6.524 -16.242 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 8
+ATOM 14114 H HD13 . LEU D 1 17 ? -19.344 -6.284 -18.004 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 8
+ATOM 14115 H HD21 . LEU D 1 17 ? -18.637 -3.447 -17.007 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 8
+ATOM 14116 H HD22 . LEU D 1 17 ? -18.966 -4.469 -15.588 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 8
+ATOM 14117 H HD23 . LEU D 1 17 ? -17.392 -3.656 -15.753 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 8
+ATOM 14118 N N . VAL D 1 18 ? -12.869 -6.754 -17.418 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 8
+ATOM 14119 C CA . VAL D 1 18 ? -11.582 -7.157 -16.879 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 8
+ATOM 14120 C C . VAL D 1 18 ? -10.495 -6.220 -17.410 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 8
+ATOM 14121 O O . VAL D 1 18 ? -10.403 -5.990 -18.615 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 8
+ATOM 14122 C CB . VAL D 1 18 ? -11.314 -8.628 -17.206 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 8
+ATOM 14123 C CG1 . VAL D 1 18 ? -9.886 -9.023 -16.825 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 8
+ATOM 14124 C CG2 . VAL D 1 18 ? -12.337 -9.536 -16.520 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 8
+ATOM 14125 H H . VAL D 1 18 ? -12.880 -6.582 -18.403 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 8
+ATOM 14126 H HA . VAL D 1 18 ? -11.633 -7.056 -15.795 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 8
+ATOM 14127 H HB . VAL D 1 18 ? -11.421 -8.756 -18.283 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 8
+ATOM 14128 H HG11 . VAL D 1 18 ? -9.831 -10.105 -16.699 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 8
+ATOM 14129 H HG12 . VAL D 1 18 ? -9.201 -8.713 -17.613 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 8
+ATOM 14130 H HG13 . VAL D 1 18 ? -9.611 -8.534 -15.891 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 8
+ATOM 14131 H HG21 . VAL D 1 18 ? -11.850 -10.089 -15.717 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 8
+ATOM 14132 H HG22 . VAL D 1 18 ? -13.143 -8.929 -16.107 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 8
+ATOM 14133 H HG23 . VAL D 1 18 ? -12.746 -10.237 -17.248 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 8
+ATOM 14134 N N . PHE D 1 19 ? -9.700 -5.703 -16.485 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 8
+ATOM 14135 C CA . PHE D 1 19 ? -8.623 -4.796 -16.845 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 8
+ATOM 14136 C C . PHE D 1 19 ? -7.310 -5.212 -16.179 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 8
+ATOM 14137 O O . PHE D 1 19 ? -7.083 -4.914 -15.007 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 8
+ATOM 14138 C CB . PHE D 1 19 ? -9.021 -3.408 -16.339 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 8
+ATOM 14139 C CG . PHE D 1 19 ? -8.131 -2.278 -16.861 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 8
+ATOM 14140 C CD1 . PHE D 1 19 ? -6.817 -2.231 -16.515 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 8
+ATOM 14141 C CD2 . PHE D 1 19 ? -8.655 -1.319 -17.672 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 8
+ATOM 14142 C CE1 . PHE D 1 19 ? -5.992 -1.182 -16.999 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 8
+ATOM 14143 C CE2 . PHE D 1 19 ? -7.830 -0.270 -18.156 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 8
+ATOM 14144 C CZ . PHE D 1 19 ? -6.516 -0.224 -17.809 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 8
+ATOM 14145 H H . PHE D 1 19 ? -9.781 -5.895 -15.507 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 8
+ATOM 14146 H HA . PHE D 1 19 ? -8.510 -4.842 -17.928 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 8
+ATOM 14147 H HB2 . PHE D 1 19 ? -10.052 -3.208 -16.629 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 8
+ATOM 14148 H HB3 . PHE D 1 19 ? -8.990 -3.407 -15.250 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 8
+ATOM 14149 H HD1 . PHE D 1 19 ? -6.397 -2.999 -15.865 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 8
+ATOM 14150 H HD2 . PHE D 1 19 ? -9.709 -1.356 -17.949 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 8
+ATOM 14151 H HE1 . PHE D 1 19 ? -4.938 -1.145 -16.722 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 8
+ATOM 14152 H HE2 . PHE D 1 19 ? -8.250 0.498 -18.805 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 8
+ATOM 14153 H HZ . PHE D 1 19 ? -5.882 0.582 -18.181 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 8
+ATOM 14154 N N . PHE D 1 20 ? -6.480 -5.894 -16.954 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 8
+ATOM 14155 C CA . PHE D 1 20 ? -5.196 -6.353 -16.454 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 8
+ATOM 14156 C C . PHE D 1 20 ? -4.048 -5.549 -17.069 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 8
+ATOM 14157 O O . PHE D 1 20 ? -4.012 -5.339 -18.280 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 8
+ATOM 14158 C CB . PHE D 1 20 ? -5.054 -7.820 -16.867 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 8
+ATOM 14159 C CG . PHE D 1 20 ? -4.951 -8.791 -15.689 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 8
+ATOM 14160 C CD1 . PHE D 1 20 ? -6.076 -9.187 -15.035 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 8
+ATOM 14161 C CD2 . PHE D 1 20 ? -3.736 -9.258 -15.296 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 8
+ATOM 14162 C CE1 . PHE D 1 20 ? -5.981 -10.088 -13.942 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 8
+ATOM 14163 C CE2 . PHE D 1 20 ? -3.641 -10.159 -14.203 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 8
+ATOM 14164 C CZ . PHE D 1 20 ? -4.766 -10.555 -13.549 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 8
+ATOM 14165 H H . PHE D 1 20 ? -6.673 -6.132 -17.906 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 8
+ATOM 14166 H HA . PHE D 1 20 ? -5.199 -6.210 -15.373 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 8
+ATOM 14167 H HB2 . PHE D 1 20 ? -5.910 -8.098 -17.481 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 8
+ATOM 14168 H HB3 . PHE D 1 20 ? -4.166 -7.927 -17.491 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 8
+ATOM 14169 H HD1 . PHE D 1 20 ? -7.050 -8.813 -15.350 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 8
+ATOM 14170 H HD2 . PHE D 1 20 ? -2.835 -8.940 -15.820 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 8
+ATOM 14171 H HE1 . PHE D 1 20 ? -6.883 -10.406 -13.418 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 8
+ATOM 14172 H HE2 . PHE D 1 20 ? -2.667 -10.533 -13.888 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 8
+ATOM 14173 H HZ . PHE D 1 20 ? -4.693 -11.247 -12.710 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 8
+ATOM 14174 N N . ALA D 1 21 ? -3.139 -5.121 -16.205 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 8
+ATOM 14175 C CA . ALA D 1 21 ? -1.994 -4.345 -16.648 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 8
+ATOM 14176 C C . ALA D 1 21 ? -0.716 -4.947 -16.059 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 8
+ATOM 14177 O O . ALA D 1 21 ? -0.454 -4.808 -14.865 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 8
+ATOM 14178 C CB . ALA D 1 21 ? -2.185 -2.880 -16.251 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 8
+ATOM 14179 H H . ALA D 1 21 ? -3.176 -5.296 -15.222 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 8
+ATOM 14180 H HA . ALA D 1 21 ? -1.949 -4.410 -17.735 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 8
+ATOM 14181 H HB1 . ALA D 1 21 ? -1.347 -2.290 -16.621 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 8
+ATOM 14182 H HB2 . ALA D 1 21 ? -3.113 -2.504 -16.683 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 8
+ATOM 14183 H HB3 . ALA D 1 21 ? -2.233 -2.801 -15.165 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 8
+ATOM 14184 N N . GLU D 1 22 ? 0.044 -5.602 -16.923 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 8
+ATOM 14185 C CA . GLU D 1 22 ? 1.288 -6.226 -16.503 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 8
+ATOM 14186 C C . GLU D 1 22 ? 2.479 -5.537 -17.172 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 8
+ATOM 14187 O O . GLU D 1 22 ? 2.436 -5.232 -18.363 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 8
+ATOM 14188 C CB . GLU D 1 22 ? 1.279 -7.725 -16.808 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 8
+ATOM 14189 C CG . GLU D 1 22 ? 1.496 -8.545 -15.534 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 8
+ATOM 14190 C CD . GLU D 1 22 ? 0.218 -9.286 -15.135 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 8
+ATOM 14191 O OE1 . GLU D 1 22 ? -0.813 -8.597 -14.980 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 8
+ATOM 14192 O OE2 . GLU D 1 22 ? 0.301 -10.525 -14.995 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 8
+ATOM 14193 H H . GLU D 1 22 ? -0.177 -5.710 -17.893 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 8
+ATOM 14194 H HA . GLU D 1 22 ? 1.334 -6.081 -15.424 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 8
+ATOM 14195 H HB2 . GLU D 1 22 ? 0.329 -8.002 -17.266 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 8
+ATOM 14196 H HB3 . GLU D 1 22 ? 2.061 -7.957 -17.531 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 8
+ATOM 14197 H HG2 . GLU D 1 22 ? 2.302 -9.261 -15.691 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 8
+ATOM 14198 H HG3 . GLU D 1 22 ? 1.807 -7.887 -14.723 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 8
+ATOM 14199 N N . ASP D 1 23 ? 3.514 -5.312 -16.376 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 8
+ATOM 14200 C CA . ASP D 1 23 ? 4.716 -4.665 -16.876 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 8
+ATOM 14201 C C . ASP D 1 23 ? 5.944 -5.319 -16.241 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 8
+ATOM 14202 O O . ASP D 1 23 ? 6.204 -5.136 -15.053 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 8
+ATOM 14203 C CB . ASP D 1 23 ? 4.731 -3.179 -16.515 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 8
+ATOM 14204 C CG . ASP D 1 23 ? 5.914 -2.389 -17.078 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 8
+ATOM 14205 O OD1 . ASP D 1 23 ? 6.347 -2.736 -18.198 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 8
+ATOM 14206 O OD2 . ASP D 1 23 ? 6.360 -1.455 -16.376 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 8
+ATOM 14207 H H . ASP D 1 23 ? 3.541 -5.564 -15.409 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 8
+ATOM 14208 H HA . ASP D 1 23 ? 4.684 -4.799 -17.958 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 8
+ATOM 14209 H HB2 . ASP D 1 23 ? 3.807 -2.724 -16.872 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 8
+ATOM 14210 H HB3 . ASP D 1 23 ? 4.734 -3.084 -15.429 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 8
+ATOM 14211 N N . VAL D 1 24 ? 6.667 -6.068 -17.061 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 8
+ATOM 14212 C CA . VAL D 1 24 ? 7.862 -6.750 -16.594 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 8
+ATOM 14213 C C . VAL D 1 24 ? 9.099 -5.999 -17.090 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 8
+ATOM 14214 O O . VAL D 1 24 ? 9.446 -6.077 -18.267 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 8
+ATOM 14215 C CB . VAL D 1 24 ? 7.835 -8.215 -17.035 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 8
+ATOM 14216 C CG1 . VAL D 1 24 ? 9.143 -8.921 -16.673 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 8
+ATOM 14217 C CG2 . VAL D 1 24 ? 6.632 -8.946 -16.435 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 8
+ATOM 14218 H H . VAL D 1 24 ? 6.448 -6.212 -18.026 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 8
+ATOM 14219 H HA . VAL D 1 24 ? 7.850 -6.726 -15.504 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 8
+ATOM 14220 H HB . VAL D 1 24 ? 7.732 -8.236 -18.120 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 8
+ATOM 14221 H HG11 . VAL D 1 24 ? 8.961 -9.991 -16.570 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 8
+ATOM 14222 H HG12 . VAL D 1 24 ? 9.877 -8.751 -17.460 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 8
+ATOM 14223 H HG13 . VAL D 1 24 ? 9.521 -8.524 -15.731 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 8
+ATOM 14224 H HG21 . VAL D 1 24 ? 6.618 -8.796 -15.355 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 8
+ATOM 14225 H HG22 . VAL D 1 24 ? 5.713 -8.552 -16.868 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 8
+ATOM 14226 H HG23 . VAL D 1 24 ? 6.709 -10.011 -16.652 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 8
+ATOM 14227 N N . GLY D 1 25 ? 9.731 -5.290 -16.166 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 8
+ATOM 14228 C CA . GLY D 1 25 ? 10.922 -4.526 -16.495 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 8
+ATOM 14229 C C . GLY D 1 25 ? 12.144 -5.067 -15.750 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 8
+ATOM 14230 O O . GLY D 1 25 ? 12.091 -5.289 -14.541 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 8
+ATOM 14231 H H . GLY D 1 25 ? 9.442 -5.232 -15.211 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 8
+ATOM 14232 H HA2 . GLY D 1 25 ? 11.100 -4.566 -17.570 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 8
+ATOM 14233 H HA3 . GLY D 1 25 ? 10.770 -3.478 -16.236 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 8
+ATOM 14234 N N . SER D 1 26 ? 13.216 -5.266 -16.503 1.00 0.00 ? ? ? ? ? ? 26 SER D N 8
+ATOM 14235 C CA . SER D 1 26 ? 14.449 -5.777 -15.929 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 8
+ATOM 14236 C C . SER D 1 26 ? 15.450 -4.636 -15.736 1.00 0.00 ? ? ? ? ? ? 26 SER D C 8
+ATOM 14237 O O . SER D 1 26 ? 15.682 -3.848 -16.651 1.00 0.00 ? ? ? ? ? ? 26 SER D O 8
+ATOM 14238 C CB . SER D 1 26 ? 15.055 -6.871 -16.812 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 8
+ATOM 14239 O OG . SER D 1 26 ? 15.062 -8.139 -16.162 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 8
+ATOM 14240 H H . SER D 1 26 ? 13.251 -5.083 -17.486 1.00 0.00 ? ? ? ? ? ? 26 SER D H 8
+ATOM 14241 H HA . SER D 1 26 ? 14.165 -6.204 -14.968 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 8
+ATOM 14242 H HB2 . SER D 1 26 ? 14.489 -6.942 -17.741 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 8
+ATOM 14243 H HB3 . SER D 1 26 ? 16.075 -6.596 -17.081 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 8
+ATOM 14244 H HG . SER D 1 26 ? 14.214 -8.629 -16.361 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 8
+ATOM 14245 N N . ASN D 1 27 ? 16.015 -4.584 -14.539 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 8
+ATOM 14246 C CA . ASN D 1 27 ? 16.985 -3.552 -14.214 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 8
+ATOM 14247 C C . ASN D 1 27 ? 16.296 -2.186 -14.234 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 8
+ATOM 14248 O O . ASN D 1 27 ? 16.532 -1.382 -15.134 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 8
+ATOM 14249 C CB . ASN D 1 27 ? 18.123 -3.524 -15.236 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 8
+ATOM 14250 C CG . ASN D 1 27 ? 19.387 -4.173 -14.669 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 8
+ATOM 14251 O OD1 . ASN D 1 27 ? 19.489 -5.381 -14.537 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 8
+ATOM 14252 N ND2 . ASN D 1 27 ? 20.340 -3.305 -14.343 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 8
+ATOM 14253 H H . ASN D 1 27 ? 15.821 -5.229 -13.800 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 8
+ATOM 14254 H HA . ASN D 1 27 ? 17.362 -3.815 -13.225 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 8
+ATOM 14255 H HB2 . ASN D 1 27 ? 17.815 -4.047 -16.142 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 8
+ATOM 14256 H HB3 . ASN D 1 27 ? 18.335 -2.493 -15.521 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 8
+ATOM 14257 H HD21 . ASN D 1 27 ? 20.192 -2.325 -14.477 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 8
+ATOM 14258 H HD22 . ASN D 1 27 ? 21.206 -3.633 -13.963 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 8
+ATOM 14259 N N . LYS D 1 28 ? 15.460 -1.966 -13.231 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 8
+ATOM 14260 C CA . LYS D 1 28 ? 14.735 -0.711 -13.122 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 8
+ATOM 14261 C C . LYS D 1 28 ? 15.575 0.290 -12.327 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 8
+ATOM 14262 O O . LYS D 1 28 ? 16.088 -0.035 -11.257 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 8
+ATOM 14263 C CB . LYS D 1 28 ? 13.341 -0.946 -12.537 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 8
+ATOM 14264 C CG . LYS D 1 28 ? 12.311 -1.166 -13.647 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 8
+ATOM 14265 C CD . LYS D 1 28 ? 10.902 -0.818 -13.164 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 8
+ATOM 14266 C CE . LYS D 1 28 ? 9.869 -1.786 -13.743 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 8
+ATOM 14267 N NZ . LYS D 1 28 ? 8.523 -1.495 -13.199 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 8
+ATOM 14268 H H . LYS D 1 28 ? 15.274 -2.625 -12.502 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 8
+ATOM 14269 H HA . LYS D 1 28 ? 14.600 -0.323 -14.132 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 8
+ATOM 14270 H HB2 . LYS D 1 28 ? 13.361 -1.813 -11.877 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 8
+ATOM 14271 H HB3 . LYS D 1 28 ? 13.049 -0.090 -11.929 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 8
+ATOM 14272 H HG2 . LYS D 1 28 ? 12.565 -0.552 -14.511 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 8
+ATOM 14273 H HG3 . LYS D 1 28 ? 12.341 -2.205 -13.974 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 8
+ATOM 14274 H HD2 . LYS D 1 28 ? 10.868 -0.853 -12.075 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 8
+ATOM 14275 H HD3 . LYS D 1 28 ? 10.654 0.202 -13.457 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 8
+ATOM 14276 H HE2 . LYS D 1 28 ? 9.853 -1.704 -14.830 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 8
+ATOM 14277 H HE3 . LYS D 1 28 ? 10.150 -2.812 -13.505 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 8
+ATOM 14278 H HZ1 . LYS D 1 28 ? 8.470 -1.815 -12.253 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 8
+ATOM 14279 H HZ2 . LYS D 1 28 ? 8.358 -0.509 -13.227 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 8
+ATOM 14280 H HZ3 . LYS D 1 28 ? 7.833 -1.965 -13.749 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 8
+ATOM 14281 N N . GLY D 1 29 ? 15.690 1.489 -12.880 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 8
+ATOM 14282 C CA . GLY D 1 29 ? 16.459 2.540 -12.235 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 8
+ATOM 14283 C C . GLY D 1 29 ? 16.114 3.910 -12.822 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 8
+ATOM 14284 O O . GLY D 1 29 ? 15.023 4.104 -13.356 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 8
+ATOM 14285 H H . GLY D 1 29 ? 15.270 1.746 -13.750 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 8
+ATOM 14286 H HA2 . GLY D 1 29 ? 16.258 2.538 -11.164 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 8
+ATOM 14287 H HA3 . GLY D 1 29 ? 17.524 2.345 -12.360 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 8
+ATOM 14288 N N . ALA D 1 30 ? 17.063 4.826 -12.702 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 8
+ATOM 14289 C CA . ALA D 1 30 ? 16.873 6.173 -13.213 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 8
+ATOM 14290 C C . ALA D 1 30 ? 15.589 6.761 -12.624 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 8
+ATOM 14291 O O . ALA D 1 30 ? 15.576 7.207 -11.478 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 8
+ATOM 14292 C CB . ALA D 1 30 ? 16.851 6.140 -14.743 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 8
+ATOM 14293 H H . ALA D 1 30 ? 17.948 4.661 -12.266 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 8
+ATOM 14294 H HA . ALA D 1 30 ? 17.722 6.775 -12.888 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 8
+ATOM 14295 H HB1 . ALA D 1 30 ? 16.564 7.120 -15.123 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 8
+ATOM 14296 H HB2 . ALA D 1 30 ? 17.843 5.882 -15.115 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 8
+ATOM 14297 H HB3 . ALA D 1 30 ? 16.131 5.394 -15.080 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 8
+ATOM 14298 N N . ILE D 1 31 ? 14.542 6.743 -13.435 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 8
+ATOM 14299 C CA . ILE D 1 31 ? 13.256 7.269 -13.009 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 8
+ATOM 14300 C C . ILE D 1 31 ? 12.162 6.246 -13.322 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 8
+ATOM 14301 O O . ILE D 1 31 ? 11.895 5.954 -14.486 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 8
+ATOM 14302 C CB . ILE D 1 31 ? 13.007 8.644 -13.630 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 8
+ATOM 14303 C CG1 . ILE D 1 31 ? 14.196 9.578 -13.390 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 8
+ATOM 14304 C CG2 . ILE D 1 31 ? 11.695 9.246 -13.123 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 8
+ATOM 14305 C CD1 . ILE D 1 31 ? 14.129 10.798 -14.311 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 8
+ATOM 14306 H H . ILE D 1 31 ? 14.561 6.378 -14.366 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 8
+ATOM 14307 H HA . ILE D 1 31 ? 13.302 7.406 -11.928 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 8
+ATOM 14308 H HB . ILE D 1 31 ? 12.908 8.519 -14.708 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 8
+ATOM 14309 H HG12 . ILE D 1 31 ? 14.204 9.902 -12.350 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 8
+ATOM 14310 H HG13 . ILE D 1 31 ? 15.127 9.038 -13.563 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 8
+ATOM 14311 H HG21 . ILE D 1 31 ? 11.332 8.664 -12.275 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 8
+ATOM 14312 H HG22 . ILE D 1 31 ? 11.864 10.276 -12.810 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 8
+ATOM 14313 H HG23 . ILE D 1 31 ? 10.954 9.226 -13.922 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 8
+ATOM 14314 H HD11 . ILE D 1 31 ? 13.087 11.042 -14.516 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 8
+ATOM 14315 H HD12 . ILE D 1 31 ? 14.613 11.646 -13.825 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 8
+ATOM 14316 H HD13 . ILE D 1 31 ? 14.641 10.575 -15.247 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 8
+ATOM 14317 N N . ILE D 1 32 ? 11.559 5.729 -12.261 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 8
+ATOM 14318 C CA . ILE D 1 32 ? 10.500 4.744 -12.408 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 8
+ATOM 14319 C C . ILE D 1 32 ? 9.171 5.362 -11.969 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 8
+ATOM 14320 O O . ILE D 1 32 ? 8.880 5.434 -10.776 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 8
+ATOM 14321 C CB . ILE D 1 32 ? 10.857 3.458 -11.661 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 8
+ATOM 14322 C CG1 . ILE D 1 32 ? 12.169 2.867 -12.182 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 8
+ATOM 14323 C CG2 . ILE D 1 32 ? 9.709 2.449 -11.725 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 8
+ATOM 14324 C CD1 . ILE D 1 32 ? 13.232 2.835 -11.081 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 8
+ATOM 14325 H H . ILE D 1 32 ? 11.783 5.971 -11.317 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 8
+ATOM 14326 H HA . ILE D 1 32 ? 10.432 4.494 -13.466 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 8
+ATOM 14327 H HB . ILE D 1 32 ? 11.010 3.705 -10.610 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 8
+ATOM 14328 H HG12 . ILE D 1 32 ? 11.995 1.857 -12.554 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 8
+ATOM 14329 H HG13 . ILE D 1 32 ? 12.530 3.459 -13.023 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 8
+ATOM 14330 H HG21 . ILE D 1 32 ? 9.748 1.915 -12.674 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 8
+ATOM 14331 H HG22 . ILE D 1 32 ? 9.802 1.739 -10.904 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 8
+ATOM 14332 H HG23 . ILE D 1 32 ? 8.758 2.976 -11.644 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 8
+ATOM 14333 H HD11 . ILE D 1 32 ? 13.536 3.853 -10.841 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 8
+ATOM 14334 H HD12 . ILE D 1 32 ? 12.819 2.359 -10.192 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 8
+ATOM 14335 H HD13 . ILE D 1 32 ? 14.096 2.269 -11.428 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 8
+ATOM 14336 N N . GLY D 1 33 ? 8.400 5.792 -12.957 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 8
+ATOM 14337 C CA . GLY D 1 33 ? 7.109 6.401 -12.687 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 8
+ATOM 14338 C C . GLY D 1 33 ? 5.968 5.434 -13.009 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 8
+ATOM 14339 O O . GLY D 1 33 ? 5.772 5.064 -14.166 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 8
+ATOM 14340 H H . GLY D 1 33 ? 8.644 5.730 -13.924 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 8
+ATOM 14341 H HA2 . GLY D 1 33 ? 7.054 6.697 -11.639 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 8
+ATOM 14342 H HA3 . GLY D 1 33 ? 7.000 7.309 -13.281 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 8
+ATOM 14343 N N . LEU D 1 34 ? 5.246 5.052 -11.966 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 8
+ATOM 14344 C CA . LEU D 1 34 ? 4.130 4.135 -12.124 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 8
+ATOM 14345 C C . LEU D 1 34 ? 2.898 4.712 -11.424 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 8
+ATOM 14346 O O . LEU D 1 34 ? 2.865 4.811 -10.199 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 8
+ATOM 14347 C CB . LEU D 1 34 ? 4.514 2.735 -11.638 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 8
+ATOM 14348 C CG . LEU D 1 34 ? 3.379 1.895 -11.051 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 8
+ATOM 14349 C CD1 . LEU D 1 34 ? 2.238 1.735 -12.057 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 8
+ATOM 14350 C CD2 . LEU D 1 34 ? 3.898 0.544 -10.553 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 8
+ATOM 14351 H H . LEU D 1 34 ? 5.413 5.358 -11.029 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 8
+ATOM 14352 H HA . LEU D 1 34 ? 3.918 4.059 -13.190 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 8
+ATOM 14353 H HB2 . LEU D 1 34 ? 4.949 2.189 -12.475 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 8
+ATOM 14354 H HB3 . LEU D 1 34 ? 5.294 2.836 -10.883 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 8
+ATOM 14355 H HG . LEU D 1 34 ? 2.975 2.422 -10.187 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 8
+ATOM 14356 H HD11 . LEU D 1 34 ? 2.039 2.694 -12.536 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 8
+ATOM 14357 H HD12 . LEU D 1 34 ? 2.520 1.002 -12.813 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 8
+ATOM 14358 H HD13 . LEU D 1 34 ? 1.341 1.395 -11.539 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 8
+ATOM 14359 H HD21 . LEU D 1 34 ? 3.883 0.528 -9.463 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 8
+ATOM 14360 H HD22 . LEU D 1 34 ? 3.261 -0.253 -10.936 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 8
+ATOM 14361 H HD23 . LEU D 1 34 ? 4.918 0.395 -10.905 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 8
+ATOM 14362 N N . MET D 1 35 ? 1.915 5.078 -12.234 1.00 0.00 ? ? ? ? ? ? 35 MET D N 8
+ATOM 14363 C CA . MET D 1 35 ? 0.684 5.643 -11.707 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 8
+ATOM 14364 C C . MET D 1 35 ? -0.532 4.847 -12.185 1.00 0.00 ? ? ? ? ? ? 35 MET D C 8
+ATOM 14365 O O . MET D 1 35 ? -0.762 4.718 -13.386 1.00 0.00 ? ? ? ? ? ? 35 MET D O 8
+ATOM 14366 C CB . MET D 1 35 ? 0.554 7.098 -12.164 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 8
+ATOM 14367 C CG . MET D 1 35 ? 0.364 8.033 -10.968 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 8
+ATOM 14368 S SD . MET D 1 35 ? -0.965 9.178 -11.293 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 8
+ATOM 14369 C CE . MET D 1 35 ? -0.031 10.574 -11.897 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 8
+ATOM 14370 H H . MET D 1 35 ? 1.950 4.994 -13.229 1.00 0.00 ? ? ? ? ? ? 35 MET D H 8
+ATOM 14371 H HA . MET D 1 35 ? 0.770 5.573 -10.623 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 8
+ATOM 14372 H HB2 . MET D 1 35 ? 1.444 7.389 -12.720 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 8
+ATOM 14373 H HB3 . MET D 1 35 ? -0.293 7.195 -12.844 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 8
+ATOM 14374 H HG2 . MET D 1 35 ? 0.144 7.451 -10.072 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 8
+ATOM 14375 H HG3 . MET D 1 35 ? 1.287 8.579 -10.773 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 8
+ATOM 14376 H HE1 . MET D 1 35 ? 0.216 10.418 -12.948 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 8
+ATOM 14377 H HE2 . MET D 1 35 ? -0.626 11.481 -11.795 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 8
+ATOM 14378 H HE3 . MET D 1 35 ? 0.888 10.674 -11.319 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 8
+ATOM 14379 N N . VAL D 1 36 ? -1.280 4.335 -11.219 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 8
+ATOM 14380 C CA . VAL D 1 36 ? -2.468 3.555 -11.525 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 8
+ATOM 14381 C C . VAL D 1 36 ? -3.698 4.463 -11.468 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 8
+ATOM 14382 O O . VAL D 1 36 ? -3.972 5.078 -10.438 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 8
+ATOM 14383 C CB . VAL D 1 36 ? -2.565 2.356 -10.579 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 8
+ATOM 14384 C CG1 . VAL D 1 36 ? -3.452 1.260 -11.173 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 8
+ATOM 14385 C CG2 . VAL D 1 36 ? -1.176 1.812 -10.239 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 8
+ATOM 14386 H H . VAL D 1 36 ? -1.087 4.445 -10.244 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 8
+ATOM 14387 H HA . VAL D 1 36 ? -2.359 3.175 -12.541 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 8
+ATOM 14388 H HB . VAL D 1 36 ? -3.027 2.697 -9.653 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 8
+ATOM 14389 H HG11 . VAL D 1 36 ? -4.471 1.635 -11.278 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 8
+ATOM 14390 H HG12 . VAL D 1 36 ? -3.068 0.972 -12.151 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 8
+ATOM 14391 H HG13 . VAL D 1 36 ? -3.451 0.394 -10.512 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 8
+ATOM 14392 H HG21 . VAL D 1 36 ? -0.706 1.424 -11.142 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 8
+ATOM 14393 H HG22 . VAL D 1 36 ? -0.563 2.614 -9.827 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 8
+ATOM 14394 H HG23 . VAL D 1 36 ? -1.269 1.012 -9.504 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 8
+ATOM 14395 N N . GLY D 1 37 ? -4.405 4.518 -12.586 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 8
+ATOM 14396 C CA . GLY D 1 37 ? -5.600 5.341 -12.676 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 8
+ATOM 14397 C C . GLY D 1 37 ? -6.862 4.476 -12.688 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 8
+ATOM 14398 O O . GLY D 1 37 ? -7.410 4.186 -13.750 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 8
+ATOM 14399 H H . GLY D 1 37 ? -4.175 4.015 -13.419 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 8
+ATOM 14400 H HA2 . GLY D 1 37 ? -5.635 6.031 -11.833 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 8
+ATOM 14401 H HA3 . GLY D 1 37 ? -5.561 5.946 -13.582 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 8
+ATOM 14402 N N . GLY D 1 38 ? -7.286 4.088 -11.494 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 8
+ATOM 14403 C CA . GLY D 1 38 ? -8.473 3.262 -11.354 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 8
+ATOM 14404 C C . GLY D 1 38 ? -9.611 4.045 -10.697 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 8
+ATOM 14405 O O . GLY D 1 38 ? -9.903 3.852 -9.518 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 8
+ATOM 14406 H H . GLY D 1 38 ? -6.834 4.328 -10.635 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 8
+ATOM 14407 H HA2 . GLY D 1 38 ? -8.790 2.905 -12.333 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 8
+ATOM 14408 H HA3 . GLY D 1 38 ? -8.239 2.382 -10.754 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 8
+ATOM 14409 N N . VAL D 1 39 ? -10.224 4.912 -11.490 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 8
+ATOM 14410 C CA . VAL D 1 39 ? -11.324 5.726 -11.001 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 8
+ATOM 14411 C C . VAL D 1 39 ? -12.632 5.235 -11.624 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 8
+ATOM 14412 O O . VAL D 1 39 ? -12.669 4.886 -12.803 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 8
+ATOM 14413 C CB . VAL D 1 39 ? -11.046 7.204 -11.280 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 8
+ATOM 14414 C CG1 . VAL D 1 39 ? -12.262 8.066 -10.931 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 8
+ATOM 14415 C CG2 . VAL D 1 39 ? -9.802 7.680 -10.527 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 8
+ATOM 14416 H H . VAL D 1 39 ? -9.980 5.063 -12.448 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 8
+ATOM 14417 H HA . VAL D 1 39 ? -11.378 5.591 -9.920 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 8
+ATOM 14418 H HB . VAL D 1 39 ? -10.854 7.313 -12.347 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 8
+ATOM 14419 H HG11 . VAL D 1 39 ? -12.793 8.331 -11.844 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 8
+ATOM 14420 H HG12 . VAL D 1 39 ? -12.926 7.506 -10.273 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 8
+ATOM 14421 H HG13 . VAL D 1 39 ? -11.930 8.974 -10.427 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 8
+ATOM 14422 H HG21 . VAL D 1 39 ? -9.624 7.029 -9.671 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 8
+ATOM 14423 H HG22 . VAL D 1 39 ? -8.940 7.648 -11.194 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 8
+ATOM 14424 H HG23 . VAL D 1 39 ? -9.956 8.702 -10.181 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 8
+ATOM 14425 N N . VAL D 1 40 ? -13.673 5.223 -10.805 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 8
+ATOM 14426 C CA . VAL D 1 40 ? -14.980 4.781 -11.261 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 8
+ATOM 14427 C C . VAL D 1 40 ? -16.047 5.755 -10.759 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 8
+ATOM 14428 O O . VAL D 1 40 ? -16.340 5.800 -9.565 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 8
+ATOM 14429 C CB . VAL D 1 40 ? -15.229 3.338 -10.815 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 8
+ATOM 14430 C CG1 . VAL D 1 40 ? -16.673 2.919 -11.097 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 8
+ATOM 14431 C CG2 . VAL D 1 40 ? -14.240 2.380 -11.480 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 8
+ATOM 14432 H H . VAL D 1 40 ? -13.634 5.508 -9.847 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 8
+ATOM 14433 H HA . VAL D 1 40 ? -14.971 4.800 -12.351 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 8
+ATOM 14434 H HB . VAL D 1 40 ? -15.071 3.289 -9.737 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 8
+ATOM 14435 H HG11 . VAL D 1 40 ? -16.712 1.844 -11.273 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 8
+ATOM 14436 H HG12 . VAL D 1 40 ? -17.299 3.169 -10.240 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 8
+ATOM 14437 H HG13 . VAL D 1 40 ? -17.039 3.445 -11.979 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 8
+ATOM 14438 H HG21 . VAL D 1 40 ? -14.715 1.409 -11.623 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 8
+ATOM 14439 H HG22 . VAL D 1 40 ? -13.938 2.782 -12.447 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 8
+ATOM 14440 H HG23 . VAL D 1 40 ? -13.362 2.264 -10.844 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 8
+ATOM 14441 N N . ILE D 1 41 ? -16.600 6.511 -11.696 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 8
+ATOM 14442 C CA . ILE D 1 41 ? -17.629 7.482 -11.364 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 8
+ATOM 14443 C C . ILE D 1 41 ? -18.927 7.110 -12.084 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 8
+ATOM 14444 O O . ILE D 1 41 ? -18.955 7.015 -13.310 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 8
+ATOM 14445 C CB . ILE D 1 41 ? -17.144 8.901 -11.665 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 8
+ATOM 14446 C CG1 . ILE D 1 41 ? -18.137 9.942 -11.146 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 8
+ATOM 14447 C CG2 . ILE D 1 41 ? -16.856 9.078 -13.157 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 8
+ATOM 14448 C CD1 . ILE D 1 41 ? -17.407 11.156 -10.567 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 8
+ATOM 14449 H H . ILE D 1 41 ? -16.357 6.468 -12.665 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 8
+ATOM 14450 H HA . ILE D 1 41 ? -17.801 7.421 -10.289 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 8
+ATOM 14451 H HB . ILE D 1 41 ? -16.204 9.060 -11.135 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 8
+ATOM 14452 H HG12 . ILE D 1 41 ? -18.793 10.260 -11.956 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 8
+ATOM 14453 H HG13 . ILE D 1 41 ? -18.771 9.495 -10.380 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 8
+ATOM 14454 H HG21 . ILE D 1 41 ? -16.257 9.976 -13.308 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 8
+ATOM 14455 H HG22 . ILE D 1 41 ? -16.310 8.210 -13.527 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 8
+ATOM 14456 H HG23 . ILE D 1 41 ? -17.797 9.173 -13.700 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 8
+ATOM 14457 H HD11 . ILE D 1 41 ? -16.642 11.488 -11.268 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 8
+ATOM 14458 H HD12 . ILE D 1 41 ? -18.121 11.963 -10.398 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 8
+ATOM 14459 H HD13 . ILE D 1 41 ? -16.940 10.882 -9.621 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 8
+ATOM 14460 N N . ALA D 1 42 ? -19.969 6.910 -11.292 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 8
+ATOM 14461 C CA . ALA D 1 42 ? -21.267 6.551 -11.839 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 8
+ATOM 14462 C C . ALA D 1 42 ? -22.308 7.577 -11.386 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 8
+ATOM 14463 O O . ALA D 1 42 ? -22.623 7.665 -10.200 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 8
+ATOM 14464 C CB . ALA D 1 42 ? -21.626 5.127 -11.409 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 8
+ATOM 14465 H H . ALA D 1 42 ? -19.938 6.990 -10.296 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 8
+ATOM 14466 H HA . ALA D 1 42 ? -21.189 6.580 -12.926 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 8
+ATOM 14467 H HB1 . ALA D 1 42 ? -20.768 4.473 -11.565 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 8
+ATOM 14468 H HB2 . ALA D 1 42 ? -21.898 5.124 -10.353 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 8
+ATOM 14469 H HB3 . ALA D 1 42 ? -22.468 4.770 -12.002 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 8
+ATOM 14470 N N . LEU E 1 17 ? -15.264 -7.036 -22.999 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 8
+ATOM 14471 C CA . LEU E 1 17 ? -14.721 -6.069 -22.059 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 8
+ATOM 14472 C C . LEU E 1 17 ? -13.537 -6.694 -21.318 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 8
+ATOM 14473 O O . LEU E 1 17 ? -13.625 -6.973 -20.124 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 8
+ATOM 14474 C CB . LEU E 1 17 ? -15.820 -5.547 -21.132 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 8
+ATOM 14475 C CG . LEU E 1 17 ? -16.605 -4.335 -21.639 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 8
+ATOM 14476 C CD1 . LEU E 1 17 ? -18.091 -4.668 -21.786 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 8
+ATOM 14477 C CD2 . LEU E 1 17 ? -16.377 -3.119 -20.740 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 8
+ATOM 14478 H H . LEU E 1 17 ? -15.227 -7.987 -22.694 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 8
+ATOM 14479 H HA . LEU E 1 17 ? -14.357 -5.220 -22.638 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 8
+ATOM 14480 H HB2 . LEU E 1 17 ? -16.524 -6.357 -20.943 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 8
+ATOM 14481 H HB3 . LEU E 1 17 ? -15.368 -5.287 -20.175 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 8
+ATOM 14482 H HG . LEU E 1 17 ? -16.233 -4.077 -22.630 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 8
+ATOM 14483 H HD11 . LEU E 1 17 ? -18.222 -5.750 -21.800 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 8
+ATOM 14484 H HD12 . LEU E 1 17 ? -18.643 -4.246 -20.946 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 8
+ATOM 14485 H HD13 . LEU E 1 17 ? -18.468 -4.244 -22.718 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 8
+ATOM 14486 H HD21 . LEU E 1 17 ? -16.623 -2.210 -21.288 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 8
+ATOM 14487 H HD22 . LEU E 1 17 ? -17.013 -3.194 -19.857 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 8
+ATOM 14488 H HD23 . LEU E 1 17 ? -15.331 -3.085 -20.432 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 8
+ATOM 14489 N N . VAL E 1 18 ? -12.457 -6.896 -22.059 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 8
+ATOM 14490 C CA . VAL E 1 18 ? -11.257 -7.483 -21.487 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 8
+ATOM 14491 C C . VAL E 1 18 ? -10.033 -6.702 -21.968 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 8
+ATOM 14492 O O . VAL E 1 18 ? -9.815 -6.561 -23.171 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 8
+ATOM 14493 C CB . VAL E 1 18 ? -11.188 -8.973 -21.830 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 8
+ATOM 14494 C CG1 . VAL E 1 18 ? -9.824 -9.558 -21.461 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 8
+ATOM 14495 C CG2 . VAL E 1 18 ? -12.319 -9.745 -21.148 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 8
+ATOM 14496 H H . VAL E 1 18 ? -12.394 -6.667 -23.030 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 8
+ATOM 14497 H HA . VAL E 1 18 ? -11.329 -7.390 -20.403 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 8
+ATOM 14498 H HB . VAL E 1 18 ? -11.316 -9.074 -22.908 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 8
+ATOM 14499 H HG11 . VAL E 1 18 ? -9.893 -10.645 -21.424 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 8
+ATOM 14500 H HG12 . VAL E 1 18 ? -9.088 -9.266 -22.211 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 8
+ATOM 14501 H HG13 . VAL E 1 18 ? -9.518 -9.180 -20.486 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 8
+ATOM 14502 H HG21 . VAL E 1 18 ? -12.926 -10.244 -21.904 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 8
+ATOM 14503 H HG22 . VAL E 1 18 ? -11.895 -10.489 -20.473 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 8
+ATOM 14504 H HG23 . VAL E 1 18 ? -12.942 -9.053 -20.581 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 8
+ATOM 14505 N N . PHE E 1 19 ? -9.265 -6.214 -21.004 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 8
+ATOM 14506 C CA . PHE E 1 19 ? -8.069 -5.451 -21.315 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 8
+ATOM 14507 C C . PHE E 1 19 ? -6.837 -6.066 -20.647 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 8
+ATOM 14508 O O . PHE E 1 19 ? -6.798 -6.216 -19.427 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 8
+ATOM 14509 C CB . PHE E 1 19 ? -8.282 -4.040 -20.762 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 8
+ATOM 14510 C CG . PHE E 1 19 ? -7.440 -2.966 -21.454 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 8
+ATOM 14511 C CD1 . PHE E 1 19 ? -6.143 -2.780 -21.090 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 8
+ATOM 14512 C CD2 . PHE E 1 19 ? -7.989 -2.198 -22.433 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 8
+ATOM 14513 C CE1 . PHE E 1 19 ? -5.362 -1.784 -21.733 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 8
+ATOM 14514 C CE2 . PHE E 1 19 ? -7.208 -1.201 -23.075 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 8
+ATOM 14515 C CZ . PHE E 1 19 ? -5.910 -1.015 -22.711 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 8
+ATOM 14516 H H . PHE E 1 19 ? -9.449 -6.334 -20.029 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 8
+ATOM 14517 H HA . PHE E 1 19 ? -7.942 -5.473 -22.397 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 8
+ATOM 14518 H HB2 . PHE E 1 19 ? -9.336 -3.779 -20.858 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 8
+ATOM 14519 H HB3 . PHE E 1 19 ? -8.050 -4.039 -19.697 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 8
+ATOM 14520 H HD1 . PHE E 1 19 ? -5.703 -3.396 -20.306 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 8
+ATOM 14521 H HD2 . PHE E 1 19 ? -9.029 -2.347 -22.724 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 8
+ATOM 14522 H HE1 . PHE E 1 19 ? -4.322 -1.635 -21.441 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 8
+ATOM 14523 H HE2 . PHE E 1 19 ? -7.647 -0.586 -23.860 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 8
+ATOM 14524 H HZ . PHE E 1 19 ? -5.310 -0.250 -23.204 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 8
+ATOM 14525 N N . PHE E 1 20 ? -5.861 -6.405 -21.477 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 8
+ATOM 14526 C CA . PHE E 1 20 ? -4.632 -7.001 -20.983 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 8
+ATOM 14527 C C . PHE E 1 20 ? -3.408 -6.346 -21.626 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 8
+ATOM 14528 O O . PHE E 1 20 ? -3.232 -6.410 -22.842 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 8
+ATOM 14529 C CB . PHE E 1 20 ? -4.665 -8.481 -21.369 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 8
+ATOM 14530 C CG . PHE E 1 20 ? -4.755 -9.434 -20.175 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 8
+ATOM 14531 C CD1 . PHE E 1 20 ? -5.955 -9.668 -19.580 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 8
+ATOM 14532 C CD2 . PHE E 1 20 ? -3.634 -10.046 -19.708 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 8
+ATOM 14533 C CE1 . PHE E 1 20 ? -6.039 -10.552 -18.472 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 8
+ATOM 14534 C CE2 . PHE E 1 20 ? -3.717 -10.930 -18.600 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 8
+ATOM 14535 C CZ . PHE E 1 20 ? -4.918 -11.164 -18.005 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 8
+ATOM 14536 H H . PHE E 1 20 ? -5.901 -6.280 -22.468 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 8
+ATOM 14537 H HA . PHE E 1 20 ? -4.604 -6.839 -19.905 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 8
+ATOM 14538 H HB2 . PHE E 1 20 ? -5.517 -8.656 -22.025 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 8
+ATOM 14539 H HB3 . PHE E 1 20 ? -3.768 -8.717 -21.942 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 8
+ATOM 14540 H HD1 . PHE E 1 20 ? -6.854 -9.176 -19.954 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 8
+ATOM 14541 H HD2 . PHE E 1 20 ? -2.672 -9.859 -20.184 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 8
+ATOM 14542 H HE1 . PHE E 1 20 ? -7.001 -10.739 -17.996 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 8
+ATOM 14543 H HE2 . PHE E 1 20 ? -2.819 -11.421 -18.226 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 8
+ATOM 14544 H HZ . PHE E 1 20 ? -4.982 -11.843 -17.155 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 8
+ATOM 14545 N N . ALA E 1 21 ? -2.594 -5.730 -20.781 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 8
+ATOM 14546 C CA . ALA E 1 21 ? -1.391 -5.064 -21.252 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 8
+ATOM 14547 C C . ALA E 1 21 ? -0.166 -5.719 -20.612 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 8
+ATOM 14548 O O . ALA E 1 21 ? 0.098 -5.524 -19.426 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 8
+ATOM 14549 C CB . ALA E 1 21 ? -1.482 -3.568 -20.941 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 8
+ATOM 14550 H H . ALA E 1 21 ? -2.744 -5.682 -19.794 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 8
+ATOM 14551 H HA . ALA E 1 21 ? -1.340 -5.195 -22.333 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 8
+ATOM 14552 H HB1 . ALA E 1 21 ? -0.998 -3.366 -19.986 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 8
+ATOM 14553 H HB2 . ALA E 1 21 ? -0.983 -3.003 -21.729 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 8
+ATOM 14554 H HB3 . ALA E 1 21 ? -2.529 -3.271 -20.889 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 8
+ATOM 14555 N N . GLU E 1 22 ? 0.549 -6.483 -21.424 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 8
+ATOM 14556 C CA . GLU E 1 22 ? 1.740 -7.168 -20.952 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 8
+ATOM 14557 C C . GLU E 1 22 ? 2.986 -6.597 -21.633 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 8
+ATOM 14558 O O . GLU E 1 22 ? 3.272 -6.922 -22.784 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 8
+ATOM 14559 C CB . GLU E 1 22 ? 1.632 -8.677 -21.182 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 8
+ATOM 14560 C CG . GLU E 1 22 ? 2.608 -9.439 -20.284 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 8
+ATOM 14561 C CD . GLU E 1 22 ? 1.858 -10.284 -19.252 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 8
+ATOM 14562 O OE1 . GLU E 1 22 ? 0.790 -9.816 -18.803 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 8
+ATOM 14563 O OE2 . GLU E 1 22 ? 2.370 -11.380 -18.936 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 8
+ATOM 14564 H H . GLU E 1 22 ? 0.328 -6.636 -22.387 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 8
+ATOM 14565 H HA . GLU E 1 22 ? 1.782 -6.972 -19.881 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 8
+ATOM 14566 H HB2 . GLU E 1 22 ? 0.613 -9.007 -20.980 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 8
+ATOM 14567 H HB3 . GLU E 1 22 ? 1.840 -8.905 -22.227 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 8
+ATOM 14568 H HG2 . GLU E 1 22 ? 3.243 -10.083 -20.894 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 8
+ATOM 14569 H HG3 . GLU E 1 22 ? 3.266 -8.735 -19.774 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 8
+ATOM 14570 N N . ASP E 1 23 ? 3.694 -5.757 -20.892 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 8
+ATOM 14571 C CA . ASP E 1 23 ? 4.902 -5.139 -21.409 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 8
+ATOM 14572 C C . ASP E 1 23 ? 6.124 -5.798 -20.765 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 8
+ATOM 14573 O O . ASP E 1 23 ? 6.185 -5.942 -19.545 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 8
+ATOM 14574 C CB . ASP E 1 23 ? 4.942 -3.645 -21.079 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 8
+ATOM 14575 C CG . ASP E 1 23 ? 3.580 -2.947 -21.077 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 8
+ATOM 14576 O OD1 . ASP E 1 23 ? 2.851 -3.128 -20.079 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 8
+ATOM 14577 O OD2 . ASP E 1 23 ? 3.300 -2.249 -22.075 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 8
+ATOM 14578 H H . ASP E 1 23 ? 3.454 -5.499 -19.956 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 8
+ATOM 14579 H HA . ASP E 1 23 ? 4.865 -5.294 -22.488 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 8
+ATOM 14580 H HB2 . ASP E 1 23 ? 5.400 -3.518 -20.098 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 8
+ATOM 14581 H HB3 . ASP E 1 23 ? 5.589 -3.146 -21.800 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 8
+ATOM 14582 N N . VAL E 1 24 ? 7.067 -6.180 -21.614 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 8
+ATOM 14583 C CA . VAL E 1 24 ? 8.283 -6.820 -21.143 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 8
+ATOM 14584 C C . VAL E 1 24 ? 9.493 -6.146 -21.791 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 8
+ATOM 14585 O O . VAL E 1 24 ? 9.731 -6.305 -22.987 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 8
+ATOM 14586 C CB . VAL E 1 24 ? 8.221 -8.325 -21.414 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 8
+ATOM 14587 C CG1 . VAL E 1 24 ? 9.444 -9.038 -20.833 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 8
+ATOM 14588 C CG2 . VAL E 1 24 ? 6.924 -8.928 -20.869 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 8
+ATOM 14589 H H . VAL E 1 24 ? 7.009 -6.059 -22.605 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 8
+ATOM 14590 H HA . VAL E 1 24 ? 8.335 -6.674 -20.064 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 8
+ATOM 14591 H HB . VAL E 1 24 ? 8.230 -8.471 -22.494 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 8
+ATOM 14592 H HG11 . VAL E 1 24 ? 9.548 -10.018 -21.297 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 8
+ATOM 14593 H HG12 . VAL E 1 24 ? 10.337 -8.446 -21.030 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 8
+ATOM 14594 H HG13 . VAL E 1 24 ? 9.317 -9.157 -19.757 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 8
+ATOM 14595 H HG21 . VAL E 1 24 ? 6.409 -8.187 -20.258 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 8
+ATOM 14596 H HG22 . VAL E 1 24 ? 6.283 -9.222 -21.700 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 8
+ATOM 14597 H HG23 . VAL E 1 24 ? 7.157 -9.802 -20.262 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 8
+ATOM 14598 N N . GLY E 1 25 ? 10.227 -5.406 -20.972 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 8
+ATOM 14599 C CA . GLY E 1 25 ? 11.407 -4.706 -21.450 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 8
+ATOM 14600 C C . GLY E 1 25 ? 12.614 -4.989 -20.553 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 8
+ATOM 14601 O O . GLY E 1 25 ? 12.476 -5.086 -19.335 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 8
+ATOM 14602 H H . GLY E 1 25 ? 10.027 -5.282 -20.000 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 8
+ATOM 14603 H HA2 . GLY E 1 25 ? 11.628 -5.016 -22.472 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 8
+ATOM 14604 H HA3 . GLY E 1 25 ? 11.213 -3.634 -21.477 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 8
+ATOM 14605 N N . SER E 1 26 ? 13.768 -5.113 -21.191 1.00 0.00 ? ? ? ? ? ? 26 SER E N 8
+ATOM 14606 C CA . SER E 1 26 ? 14.998 -5.383 -20.465 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 8
+ATOM 14607 C C . SER E 1 26 ? 15.789 -4.087 -20.275 1.00 0.00 ? ? ? ? ? ? 26 SER E C 8
+ATOM 14608 O O . SER E 1 26 ? 15.921 -3.294 -21.207 1.00 0.00 ? ? ? ? ? ? 26 SER E O 8
+ATOM 14609 C CB . SER E 1 26 ? 15.851 -6.423 -21.195 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 8
+ATOM 14610 O OG . SER E 1 26 ? 16.073 -7.584 -20.399 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 8
+ATOM 14611 H H . SER E 1 26 ? 13.872 -5.033 -22.182 1.00 0.00 ? ? ? ? ? ? 26 SER E H 8
+ATOM 14612 H HA . SER E 1 26 ? 14.683 -5.784 -19.502 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 8
+ATOM 14613 H HB2 . SER E 1 26 ? 15.358 -6.709 -22.124 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 8
+ATOM 14614 H HB3 . SER E 1 26 ? 16.810 -5.980 -21.465 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 8
+ATOM 14615 H HG . SER E 1 26 ? 15.738 -8.396 -20.878 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 8
+ATOM 14616 N N . ASN E 1 27 ? 16.294 -3.912 -19.063 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 8
+ATOM 14617 C CA . ASN E 1 27 ? 17.068 -2.725 -18.740 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 8
+ATOM 14618 C C . ASN E 1 27 ? 16.157 -1.497 -18.791 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 8
+ATOM 14619 O O . ASN E 1 27 ? 16.166 -0.754 -19.772 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 8
+ATOM 14620 C CB . ASN E 1 27 ? 18.202 -2.516 -19.746 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 8
+ATOM 14621 C CG . ASN E 1 27 ? 19.558 -2.850 -19.121 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 8
+ATOM 14622 O OD1 . ASN E 1 27 ? 20.277 -1.990 -18.638 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 8
+ATOM 14623 N ND2 . ASN E 1 27 ? 19.867 -4.143 -19.157 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 8
+ATOM 14624 H H . ASN E 1 27 ? 16.183 -4.562 -18.312 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 8
+ATOM 14625 H HA . ASN E 1 27 ? 17.467 -2.907 -17.742 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 8
+ATOM 14626 H HB2 . ASN E 1 27 ? 18.036 -3.143 -20.621 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 8
+ATOM 14627 H HB3 . ASN E 1 27 ? 18.201 -1.482 -20.090 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 8
+ATOM 14628 H HD21 . ASN E 1 27 ? 19.232 -4.797 -19.568 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 8
+ATOM 14629 H HD22 . ASN E 1 27 ? 20.733 -4.461 -18.774 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 8
+ATOM 14630 N N . LYS E 1 28 ? 15.393 -1.322 -17.724 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 8
+ATOM 14631 C CA . LYS E 1 28 ? 14.478 -0.197 -17.635 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 8
+ATOM 14632 C C . LYS E 1 28 ? 15.082 0.877 -16.728 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 8
+ATOM 14633 O O . LYS E 1 28 ? 14.442 1.325 -15.778 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 8
+ATOM 14634 C CB . LYS E 1 28 ? 13.091 -0.668 -17.191 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 8
+ATOM 14635 C CG . LYS E 1 28 ? 12.157 -0.830 -18.392 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 8
+ATOM 14636 C CD . LYS E 1 28 ? 10.715 -0.481 -18.016 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 8
+ATOM 14637 C CE . LYS E 1 28 ? 9.731 -1.474 -18.637 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 8
+ATOM 14638 N NZ . LYS E 1 28 ? 8.562 -1.669 -17.751 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 8
+ATOM 14639 H H . LYS E 1 28 ? 15.392 -1.931 -16.930 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 8
+ATOM 14640 H HA . LYS E 1 28 ? 14.372 0.218 -18.637 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 8
+ATOM 14641 H HB2 . LYS E 1 28 ? 13.177 -1.616 -16.661 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 8
+ATOM 14642 H HB3 . LYS E 1 28 ? 12.667 0.051 -16.490 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 8
+ATOM 14643 H HG2 . LYS E 1 28 ? 12.490 -0.187 -19.206 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 8
+ATOM 14644 H HG3 . LYS E 1 28 ? 12.203 -1.856 -18.757 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 8
+ATOM 14645 H HD2 . LYS E 1 28 ? 10.607 -0.487 -16.931 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 8
+ATOM 14646 H HD3 . LYS E 1 28 ? 10.481 0.528 -18.354 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 8
+ATOM 14647 H HE2 . LYS E 1 28 ? 9.401 -1.108 -19.610 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 8
+ATOM 14648 H HE3 . LYS E 1 28 ? 10.228 -2.429 -18.808 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 8
+ATOM 14649 H HZ1 . LYS E 1 28 ? 8.874 -1.803 -16.811 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 8
+ATOM 14650 H HZ2 . LYS E 1 28 ? 7.973 -0.861 -17.794 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 8
+ATOM 14651 H HZ3 . LYS E 1 28 ? 8.047 -2.473 -18.050 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 8
+ATOM 14652 N N . GLY E 1 29 ? 16.309 1.258 -17.052 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 8
+ATOM 14653 C CA . GLY E 1 29 ? 17.007 2.270 -16.279 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 8
+ATOM 14654 C C . GLY E 1 29 ? 16.939 3.633 -16.970 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 8
+ATOM 14655 O O . GLY E 1 29 ? 17.968 4.208 -17.321 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 8
+ATOM 14656 H H . GLY E 1 29 ? 16.823 0.888 -17.826 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 8
+ATOM 14657 H HA2 . GLY E 1 29 ? 16.567 2.340 -15.284 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 8
+ATOM 14658 H HA3 . GLY E 1 29 ? 18.049 1.978 -16.146 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 8
+ATOM 14659 N N . ALA E 1 30 ? 15.715 4.111 -17.145 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 8
+ATOM 14660 C CA . ALA E 1 30 ? 15.499 5.396 -17.788 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 8
+ATOM 14661 C C . ALA E 1 30 ? 14.267 6.066 -17.177 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 8
+ATOM 14662 O O . ALA E 1 30 ? 14.008 5.926 -15.982 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 8
+ATOM 14663 C CB . ALA E 1 30 ? 15.363 5.194 -19.299 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 8
+ATOM 14664 H H . ALA E 1 30 ? 14.883 3.637 -16.857 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 8
+ATOM 14665 H HA . ALA E 1 30 ? 16.374 6.016 -17.594 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 8
+ATOM 14666 H HB1 . ALA E 1 30 ? 15.999 4.367 -19.614 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 8
+ATOM 14667 H HB2 . ALA E 1 30 ? 14.325 4.968 -19.543 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 8
+ATOM 14668 H HB3 . ALA E 1 30 ? 15.668 6.104 -19.816 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 8
+ATOM 14669 N N . ILE E 1 31 ? 13.540 6.781 -18.023 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 8
+ATOM 14670 C CA . ILE E 1 31 ? 12.342 7.474 -17.581 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 8
+ATOM 14671 C C . ILE E 1 31 ? 11.115 6.622 -17.909 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 8
+ATOM 14672 O O . ILE E 1 31 ? 10.632 6.632 -19.040 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 8
+ATOM 14673 C CB . ILE E 1 31 ? 12.288 8.883 -18.174 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 8
+ATOM 14674 C CG1 . ILE E 1 31 ? 13.554 9.671 -17.830 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 8
+ATOM 14675 C CG2 . ILE E 1 31 ? 11.020 9.616 -17.732 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 8
+ATOM 14676 C CD1 . ILE E 1 31 ? 14.462 9.812 -19.054 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 8
+ATOM 14677 H H . ILE E 1 31 ? 13.758 6.890 -18.993 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 8
+ATOM 14678 H HA . ILE E 1 31 ? 12.408 7.582 -16.498 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 8
+ATOM 14679 H HB . ILE E 1 31 ? 12.248 8.796 -19.259 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 8
+ATOM 14680 H HG12 . ILE E 1 31 ? 13.282 10.660 -17.459 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 8
+ATOM 14681 H HG13 . ILE E 1 31 ? 14.094 9.167 -17.028 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 8
+ATOM 14682 H HG21 . ILE E 1 31 ? 10.671 10.259 -18.541 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 8
+ATOM 14683 H HG22 . ILE E 1 31 ? 10.246 8.888 -17.488 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 8
+ATOM 14684 H HG23 . ILE E 1 31 ? 11.238 10.223 -16.854 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 8
+ATOM 14685 H HD11 . ILE E 1 31 ? 14.402 8.906 -19.656 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 8
+ATOM 14686 H HD12 . ILE E 1 31 ? 14.138 10.666 -19.649 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 8
+ATOM 14687 H HD13 . ILE E 1 31 ? 15.490 9.965 -18.727 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 8
+ATOM 14688 N N . ILE E 1 32 ? 10.645 5.903 -16.900 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 8
+ATOM 14689 C CA . ILE E 1 32 ? 9.484 5.047 -17.067 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 8
+ATOM 14690 C C . ILE E 1 32 ? 8.225 5.818 -16.664 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 8
+ATOM 14691 O O . ILE E 1 32 ? 8.120 6.295 -15.535 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 8
+ATOM 14692 C CB . ILE E 1 32 ? 9.671 3.734 -16.304 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 8
+ATOM 14693 C CG1 . ILE E 1 32 ? 11.021 3.095 -16.637 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 8
+ATOM 14694 C CG2 . ILE E 1 32 ? 8.505 2.778 -16.562 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 8
+ATOM 14695 C CD1 . ILE E 1 32 ? 11.644 2.452 -15.397 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 8
+ATOM 14696 H H . ILE E 1 32 ? 11.044 5.900 -15.983 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 8
+ATOM 14697 H HA . ILE E 1 32 ? 9.412 4.797 -18.125 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 8
+ATOM 14698 H HB . ILE E 1 32 ? 9.675 3.957 -15.237 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 8
+ATOM 14699 H HG12 . ILE E 1 32 ? 10.888 2.341 -17.414 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 8
+ATOM 14700 H HG13 . ILE E 1 32 ? 11.696 3.850 -17.038 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 8
+ATOM 14701 H HG21 . ILE E 1 32 ? 7.765 2.885 -15.768 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 8
+ATOM 14702 H HG22 . ILE E 1 32 ? 8.045 3.017 -17.521 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 8
+ATOM 14703 H HG23 . ILE E 1 32 ? 8.873 1.752 -16.580 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 8
+ATOM 14704 H HD11 . ILE E 1 32 ? 11.538 1.369 -15.456 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 8
+ATOM 14705 H HD12 . ILE E 1 32 ? 12.702 2.710 -15.346 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 8
+ATOM 14706 H HD13 . ILE E 1 32 ? 11.137 2.818 -14.504 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 8
+ATOM 14707 N N . GLY E 1 33 ? 7.301 5.915 -17.609 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 8
+ATOM 14708 C CA . GLY E 1 33 ? 6.054 6.620 -17.366 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 8
+ATOM 14709 C C . GLY E 1 33 ? 4.851 5.730 -17.685 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 8
+ATOM 14710 O O . GLY E 1 33 ? 4.167 5.939 -18.686 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 8
+ATOM 14711 H H . GLY E 1 33 ? 7.395 5.524 -18.524 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 8
+ATOM 14712 H HA2 . GLY E 1 33 ? 6.009 6.939 -16.325 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 8
+ATOM 14713 H HA3 . GLY E 1 33 ? 6.016 7.521 -17.978 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 8
+ATOM 14714 N N . LEU E 1 34 ? 4.628 4.756 -16.814 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 8
+ATOM 14715 C CA . LEU E 1 34 ? 3.519 3.834 -16.990 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 8
+ATOM 14716 C C . LEU E 1 34 ? 2.296 4.366 -16.241 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 8
+ATOM 14717 O O . LEU E 1 34 ? 2.320 4.496 -15.018 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 8
+ATOM 14718 C CB . LEU E 1 34 ? 3.928 2.419 -16.575 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 8
+ATOM 14719 C CG . LEU E 1 34 ? 3.260 1.872 -15.312 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 8
+ATOM 14720 C CD1 . LEU E 1 34 ? 1.757 1.686 -15.523 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 8
+ATOM 14721 C CD2 . LEU E 1 34 ? 3.938 0.581 -14.849 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 8
+ATOM 14722 H H . LEU E 1 34 ? 5.189 4.593 -16.002 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 8
+ATOM 14723 H HA . LEU E 1 34 ? 3.286 3.803 -18.054 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 8
+ATOM 14724 H HB2 . LEU E 1 34 ? 3.709 1.742 -17.400 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 8
+ATOM 14725 H HB3 . LEU E 1 34 ? 5.008 2.403 -16.427 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 8
+ATOM 14726 H HG . LEU E 1 34 ? 3.385 2.605 -14.514 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 8
+ATOM 14727 H HD11 . LEU E 1 34 ? 1.219 2.514 -15.060 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 8
+ATOM 14728 H HD12 . LEU E 1 34 ? 1.540 1.664 -16.591 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 8
+ATOM 14729 H HD13 . LEU E 1 34 ? 1.439 0.747 -15.069 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 8
+ATOM 14730 H HD21 . LEU E 1 34 ? 4.634 0.240 -15.616 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 8
+ATOM 14731 H HD22 . LEU E 1 34 ? 4.482 0.768 -13.923 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 8
+ATOM 14732 H HD23 . LEU E 1 34 ? 3.182 -0.186 -14.678 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 8
+ATOM 14733 N N . MET E 1 35 ? 1.254 4.658 -17.006 1.00 0.00 ? ? ? ? ? ? 35 MET E N 8
+ATOM 14734 C CA . MET E 1 35 ? 0.023 5.172 -16.430 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 8
+ATOM 14735 C C . MET E 1 35 ? -1.181 4.341 -16.877 1.00 0.00 ? ? ? ? ? ? 35 MET E C 8
+ATOM 14736 O O . MET E 1 35 ? -1.457 4.235 -18.071 1.00 0.00 ? ? ? ? ? ? 35 MET E O 8
+ATOM 14737 C CB . MET E 1 35 ? -0.172 6.628 -16.860 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 8
+ATOM 14738 C CG . MET E 1 35 ? 0.740 7.562 -16.063 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 8
+ATOM 14739 S SD . MET E 1 35 ? -0.137 9.059 -15.642 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 8
+ATOM 14740 C CE . MET E 1 35 ? 0.336 10.092 -17.019 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 8
+ATOM 14741 H H . MET E 1 35 ? 1.242 4.549 -18.000 1.00 0.00 ? ? ? ? ? ? 35 MET E H 8
+ATOM 14742 H HA . MET E 1 35 ? 0.149 5.091 -15.350 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 8
+ATOM 14743 H HB2 . MET E 1 35 ? 0.039 6.728 -17.924 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 8
+ATOM 14744 H HB3 . MET E 1 35 ? -1.213 6.917 -16.713 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 8
+ATOM 14745 H HG2 . MET E 1 35 ? 1.082 7.064 -15.156 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 8
+ATOM 14746 H HG3 . MET E 1 35 ? 1.628 7.803 -16.648 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 8
+ATOM 14747 H HE1 . MET E 1 35 ? 0.926 10.934 -16.656 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 8
+ATOM 14748 H HE2 . MET E 1 35 ? 0.929 9.509 -17.724 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 8
+ATOM 14749 H HE3 . MET E 1 35 ? -0.559 10.464 -17.518 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 8
+ATOM 14750 N N . VAL E 1 36 ? -1.865 3.773 -15.895 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 8
+ATOM 14751 C CA . VAL E 1 36 ? -3.033 2.955 -16.173 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 8
+ATOM 14752 C C . VAL E 1 36 ? -4.274 3.848 -16.233 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 8
+ATOM 14753 O O . VAL E 1 36 ? -4.797 4.260 -15.198 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 8
+ATOM 14754 C CB . VAL E 1 36 ? -3.149 1.838 -15.133 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 8
+ATOM 14755 C CG1 . VAL E 1 36 ? -4.392 0.982 -15.385 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 8
+ATOM 14756 C CG2 . VAL E 1 36 ? -1.885 0.977 -15.109 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 8
+ATOM 14757 H H . VAL E 1 36 ? -1.634 3.864 -14.927 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 8
+ATOM 14758 H HA . VAL E 1 36 ? -2.886 2.493 -17.149 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 8
+ATOM 14759 H HB . VAL E 1 36 ? -3.256 2.303 -14.153 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 8
+ATOM 14760 H HG11 . VAL E 1 36 ? -4.298 0.039 -14.846 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 8
+ATOM 14761 H HG12 . VAL E 1 36 ? -5.277 1.514 -15.036 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 8
+ATOM 14762 H HG13 . VAL E 1 36 ? -4.485 0.782 -16.452 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 8
+ATOM 14763 H HG21 . VAL E 1 36 ? -2.094 0.039 -14.595 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 8
+ATOM 14764 H HG22 . VAL E 1 36 ? -1.568 0.769 -16.131 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 8
+ATOM 14765 H HG23 . VAL E 1 36 ? -1.092 1.511 -14.585 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 8
+ATOM 14766 N N . GLY E 1 37 ? -4.709 4.121 -17.454 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 8
+ATOM 14767 C CA . GLY E 1 37 ? -5.879 4.958 -17.662 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 8
+ATOM 14768 C C . GLY E 1 37 ? -7.168 4.153 -17.481 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 8
+ATOM 14769 O O . GLY E 1 37 ? -7.827 3.802 -18.458 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 8
+ATOM 14770 H H . GLY E 1 37 ? -4.279 3.782 -18.290 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 8
+ATOM 14771 H HA2 . GLY E 1 37 ? -5.864 5.791 -16.959 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 8
+ATOM 14772 H HA3 . GLY E 1 37 ? -5.851 5.386 -18.664 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 8
+ATOM 14773 N N . GLY E 1 38 ? -7.489 3.885 -16.223 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 8
+ATOM 14774 C CA . GLY E 1 38 ? -8.687 3.129 -15.902 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 8
+ATOM 14775 C C . GLY E 1 38 ? -9.757 4.033 -15.285 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 8
+ATOM 14776 O O . GLY E 1 38 ? -10.050 3.931 -14.095 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 8
+ATOM 14777 H H . GLY E 1 38 ? -6.947 4.175 -15.434 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 8
+ATOM 14778 H HA2 . GLY E 1 38 ? -9.079 2.660 -16.805 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 8
+ATOM 14779 H HA3 . GLY E 1 38 ? -8.439 2.327 -15.207 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 8
+ATOM 14780 N N . VAL E 1 39 ? -10.311 4.897 -16.123 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 8
+ATOM 14781 C CA . VAL E 1 39 ? -11.342 5.818 -15.675 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 8
+ATOM 14782 C C . VAL E 1 39 ? -12.670 5.451 -16.339 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 8
+ATOM 14783 O O . VAL E 1 39 ? -12.751 5.352 -17.562 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 8
+ATOM 14784 C CB . VAL E 1 39 ? -10.912 7.259 -15.954 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 8
+ATOM 14785 C CG1 . VAL E 1 39 ? -12.016 8.245 -15.566 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 8
+ATOM 14786 C CG2 . VAL E 1 39 ? -9.603 7.591 -15.234 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 8
+ATOM 14787 H H . VAL E 1 39 ? -10.067 4.973 -17.090 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 8
+ATOM 14788 H HA . VAL E 1 39 ? -11.443 5.698 -14.597 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 8
+ATOM 14789 H HB . VAL E 1 39 ? -10.739 7.356 -17.026 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 8
+ATOM 14790 H HG11 . VAL E 1 39 ? -12.736 8.324 -16.380 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 8
+ATOM 14791 H HG12 . VAL E 1 39 ? -12.522 7.889 -14.668 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 8
+ATOM 14792 H HG13 . VAL E 1 39 ? -11.578 9.224 -15.372 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 8
+ATOM 14793 H HG21 . VAL E 1 39 ? -8.982 8.212 -15.879 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 8
+ATOM 14794 H HG22 . VAL E 1 39 ? -9.822 8.129 -14.312 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 8
+ATOM 14795 H HG23 . VAL E 1 39 ? -9.074 6.667 -15.000 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 8
+ATOM 14796 N N . VAL E 1 40 ? -13.680 5.259 -15.502 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 8
+ATOM 14797 C CA . VAL E 1 40 ? -15.001 4.905 -15.992 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 8
+ATOM 14798 C C . VAL E 1 40 ? -16.018 5.934 -15.495 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 8
+ATOM 14799 O O . VAL E 1 40 ? -16.280 6.024 -14.296 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 8
+ATOM 14800 C CB . VAL E 1 40 ? -15.347 3.474 -15.577 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 8
+ATOM 14801 C CG1 . VAL E 1 40 ? -16.848 3.211 -15.715 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 8
+ATOM 14802 C CG2 . VAL E 1 40 ? -14.536 2.457 -16.383 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 8
+ATOM 14803 H H . VAL E 1 40 ? -13.606 5.342 -14.508 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 8
+ATOM 14804 H HA . VAL E 1 40 ? -14.969 4.942 -17.081 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 8
+ATOM 14805 H HB . VAL E 1 40 ? -15.082 3.356 -14.526 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 8
+ATOM 14806 H HG11 . VAL E 1 40 ? -17.374 3.650 -14.867 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 8
+ATOM 14807 H HG12 . VAL E 1 40 ? -17.212 3.658 -16.640 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 8
+ATOM 14808 H HG13 . VAL E 1 40 ? -17.028 2.136 -15.737 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 8
+ATOM 14809 H HG21 . VAL E 1 40 ? -14.903 2.431 -17.409 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 8
+ATOM 14810 H HG22 . VAL E 1 40 ? -13.485 2.748 -16.380 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 8
+ATOM 14811 H HG23 . VAL E 1 40 ? -14.641 1.470 -15.933 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 8
+ATOM 14812 N N . ILE E 1 41 ? -16.563 6.686 -16.440 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 8
+ATOM 14813 C CA . ILE E 1 41 ? -17.545 7.705 -16.113 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 8
+ATOM 14814 C C . ILE E 1 41 ? -18.867 7.376 -16.809 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 8
+ATOM 14815 O O . ILE E 1 41 ? -18.908 7.220 -18.028 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 8
+ATOM 14816 C CB . ILE E 1 41 ? -17.004 9.097 -16.446 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 8
+ATOM 14817 C CG1 . ILE E 1 41 ? -18.021 10.181 -16.085 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 8
+ATOM 14818 C CG2 . ILE E 1 41 ? -16.571 9.181 -17.911 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 8
+ATOM 14819 C CD1 . ILE E 1 41 ? -17.328 11.404 -15.481 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 8
+ATOM 14820 H H . ILE E 1 41 ? -16.345 6.606 -17.413 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 8
+ATOM 14821 H HA . ILE E 1 41 ? -17.704 7.671 -15.035 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 8
+ATOM 14822 H HB . ILE E 1 41 ? -16.117 9.273 -15.838 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 8
+ATOM 14823 H HG12 . ILE E 1 41 ? -18.575 10.476 -16.977 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 8
+ATOM 14824 H HG13 . ILE E 1 41 ? -18.747 9.783 -15.377 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 8
+ATOM 14825 H HG21 . ILE E 1 41 ? -15.795 8.440 -18.104 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 8
+ATOM 14826 H HG22 . ILE E 1 41 ? -17.429 8.984 -18.555 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 8
+ATOM 14827 H HG23 . ILE E 1 41 ? -16.182 10.178 -18.119 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 8
+ATOM 14828 H HD11 . ILE E 1 41 ? -17.287 11.300 -14.397 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 8
+ATOM 14829 H HD12 . ILE E 1 41 ? -16.315 11.481 -15.877 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 8
+ATOM 14830 H HD13 . ILE E 1 41 ? -17.888 12.303 -15.739 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 8
+ATOM 14831 N N . ALA E 1 42 ? -19.915 7.282 -16.005 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 8
+ATOM 14832 C CA . ALA E 1 42 ? -21.235 6.974 -16.528 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 8
+ATOM 14833 C C . ALA E 1 42 ? -22.271 7.872 -15.849 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 8
+ATOM 14834 O O . ALA E 1 42 ? -22.533 7.730 -14.655 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 8
+ATOM 14835 C CB . ALA E 1 42 ? -21.531 5.487 -16.327 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 8
+ATOM 14836 H H . ALA E 1 42 ? -19.873 7.411 -15.014 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 8
+ATOM 14837 H HA . ALA E 1 42 ? -21.226 7.189 -17.597 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 8
+ATOM 14838 H HB1 . ALA E 1 42 ? -22.059 5.100 -17.199 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 8
+ATOM 14839 H HB2 . ALA E 1 42 ? -20.595 4.944 -16.198 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 8
+ATOM 14840 H HB3 . ALA E 1 42 ? -22.151 5.357 -15.440 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 8
+ATOM 14841 N N . LEU A 1 17 ? -15.781 -5.135 -1.971 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 9
+ATOM 14842 C CA . LEU A 1 17 ? -14.770 -4.135 -2.267 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 9
+ATOM 14843 C C . LEU A 1 17 ? -13.395 -4.673 -1.866 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 9
+ATOM 14844 O O . LEU A 1 17 ? -12.985 -4.541 -0.713 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 9
+ATOM 14845 C CB . LEU A 1 17 ? -15.125 -2.801 -1.606 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 9
+ATOM 14846 C CG . LEU A 1 17 ? -15.220 -1.594 -2.541 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 9
+ATOM 14847 C CD1 . LEU A 1 17 ? -13.888 -1.342 -3.249 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 9
+ATOM 14848 C CD2 . LEU A 1 17 ? -16.374 -1.758 -3.533 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 9
+ATOM 14849 H H . LEU A 1 17 ? -16.336 -5.420 -2.753 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 9
+ATOM 14850 H HA . LEU A 1 17 ? -14.776 -3.973 -3.345 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 9
+ATOM 14851 H HB2 . LEU A 1 17 ? -16.081 -2.916 -1.094 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 9
+ATOM 14852 H HB3 . LEU A 1 17 ? -14.378 -2.586 -0.842 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 9
+ATOM 14853 H HG . LEU A 1 17 ? -15.437 -0.712 -1.939 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 9
+ATOM 14854 H HD11 . LEU A 1 17 ? -13.131 -1.072 -2.512 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 9
+ATOM 14855 H HD12 . LEU A 1 17 ? -13.578 -2.247 -3.773 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 9
+ATOM 14856 H HD13 . LEU A 1 17 ? -14.004 -0.529 -3.965 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 9
+ATOM 14857 H HD21 . LEU A 1 17 ? -16.503 -2.814 -3.769 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 9
+ATOM 14858 H HD22 . LEU A 1 17 ? -17.291 -1.370 -3.090 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 9
+ATOM 14859 H HD23 . LEU A 1 17 ? -16.149 -1.207 -4.446 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 9
+ATOM 14860 N N . VAL A 1 18 ? -12.720 -5.267 -2.839 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 9
+ATOM 14861 C CA . VAL A 1 18 ? -11.400 -5.825 -2.602 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 9
+ATOM 14862 C C . VAL A 1 18 ? -10.340 -4.864 -3.143 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 9
+ATOM 14863 O O . VAL A 1 18 ? -10.411 -4.440 -4.296 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 9
+ATOM 14864 C CB . VAL A 1 18 ? -11.306 -7.225 -3.213 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 9
+ATOM 14865 C CG1 . VAL A 1 18 ? -9.869 -7.748 -3.167 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 9
+ATOM 14866 C CG2 . VAL A 1 18 ? -12.265 -8.193 -2.518 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 9
+ATOM 14867 H H . VAL A 1 18 ? -13.061 -5.370 -3.773 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 9
+ATOM 14868 H HA . VAL A 1 18 ? -11.271 -5.919 -1.523 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 9
+ATOM 14869 H HB . VAL A 1 18 ? -11.602 -7.154 -4.260 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 9
+ATOM 14870 H HG11 . VAL A 1 18 ? -9.488 -7.672 -2.148 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 9
+ATOM 14871 H HG12 . VAL A 1 18 ? -9.851 -8.790 -3.485 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 9
+ATOM 14872 H HG13 . VAL A 1 18 ? -9.244 -7.154 -3.833 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 9
+ATOM 14873 H HG21 . VAL A 1 18 ? -12.435 -9.058 -3.158 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 9
+ATOM 14874 H HG22 . VAL A 1 18 ? -11.829 -8.520 -1.574 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 9
+ATOM 14875 H HG23 . VAL A 1 18 ? -13.213 -7.690 -2.326 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 9
+ATOM 14876 N N . PHE A 1 19 ? -9.381 -4.547 -2.285 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 9
+ATOM 14877 C CA . PHE A 1 19 ? -8.308 -3.643 -2.662 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 9
+ATOM 14878 C C . PHE A 1 19 ? -6.950 -4.188 -2.214 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 9
+ATOM 14879 O O . PHE A 1 19 ? -6.501 -3.909 -1.103 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 9
+ATOM 14880 C CB . PHE A 1 19 ? -8.571 -2.314 -1.951 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 9
+ATOM 14881 C CG . PHE A 1 19 ? -9.072 -1.203 -2.876 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 9
+ATOM 14882 C CD1 . PHE A 1 19 ? -10.355 -1.219 -3.325 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 9
+ATOM 14883 C CD2 . PHE A 1 19 ? -8.233 -0.199 -3.248 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 9
+ATOM 14884 C CE1 . PHE A 1 19 ? -10.820 -0.187 -4.183 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 9
+ATOM 14885 C CE2 . PHE A 1 19 ? -8.698 0.833 -4.106 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 9
+ATOM 14886 C CZ . PHE A 1 19 ? -9.982 0.817 -4.555 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 9
+ATOM 14887 H H . PHE A 1 19 ? -9.330 -4.896 -1.349 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 9
+ATOM 14888 H HA . PHE A 1 19 ? -8.323 -3.559 -3.749 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 9
+ATOM 14889 H HB2 . PHE A 1 19 ? -9.306 -2.475 -1.162 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 9
+ATOM 14890 H HB3 . PHE A 1 19 ? -7.651 -1.984 -1.468 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 9
+ATOM 14891 H HD1 . PHE A 1 19 ? -11.027 -2.023 -3.026 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 9
+ATOM 14892 H HD2 . PHE A 1 19 ? -7.205 -0.186 -2.888 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 9
+ATOM 14893 H HE1 . PHE A 1 19 ? -11.849 -0.200 -4.542 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 9
+ATOM 14894 H HE2 . PHE A 1 19 ? -8.027 1.638 -4.404 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 9
+ATOM 14895 H HZ . PHE A 1 19 ? -10.339 1.609 -5.213 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 9
+ATOM 14896 N N . PHE A 1 20 ? -6.333 -4.954 -3.102 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 9
+ATOM 14897 C CA . PHE A 1 20 ? -5.036 -5.540 -2.812 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 9
+ATOM 14898 C C . PHE A 1 20 ? -3.911 -4.534 -3.067 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 9
+ATOM 14899 O O . PHE A 1 20 ? -3.864 -3.904 -4.122 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 9
+ATOM 14900 C CB . PHE A 1 20 ? -4.862 -6.732 -3.755 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 9
+ATOM 14901 C CG . PHE A 1 20 ? -4.545 -8.048 -3.043 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 9
+ATOM 14902 C CD1 . PHE A 1 20 ? -5.402 -8.539 -2.108 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 9
+ATOM 14903 C CD2 . PHE A 1 20 ? -3.406 -8.728 -3.345 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 9
+ATOM 14904 C CE1 . PHE A 1 20 ? -5.108 -9.761 -1.448 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 9
+ATOM 14905 C CE2 . PHE A 1 20 ? -3.113 -9.950 -2.685 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 9
+ATOM 14906 C CZ . PHE A 1 20 ? -3.970 -10.441 -1.750 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 9
+ATOM 14907 H H . PHE A 1 20 ? -6.705 -5.176 -4.003 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 9
+ATOM 14908 H HA . PHE A 1 20 ? -5.036 -5.822 -1.759 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 9
+ATOM 14909 H HB2 . PHE A 1 20 ? -5.774 -6.856 -4.339 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 9
+ATOM 14910 H HB3 . PHE A 1 20 ? -4.060 -6.510 -4.460 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 9
+ATOM 14911 H HD1 . PHE A 1 20 ? -6.315 -7.994 -1.866 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 9
+ATOM 14912 H HD2 . PHE A 1 20 ? -2.720 -8.335 -4.095 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 9
+ATOM 14913 H HE1 . PHE A 1 20 ? -5.795 -10.154 -0.698 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 9
+ATOM 14914 H HE2 . PHE A 1 20 ? -2.200 -10.495 -2.927 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 9
+ATOM 14915 H HZ . PHE A 1 20 ? -3.744 -11.379 -1.242 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 9
+ATOM 14916 N N . ALA A 1 21 ? -3.032 -4.416 -2.082 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 9
+ATOM 14917 C CA . ALA A 1 21 ? -1.911 -3.498 -2.186 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 9
+ATOM 14918 C C . ALA A 1 21 ? -0.679 -4.128 -1.533 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 9
+ATOM 14919 O O . ALA A 1 21 ? -0.365 -3.835 -0.380 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 9
+ATOM 14920 C CB . ALA A 1 21 ? -2.287 -2.158 -1.551 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 9
+ATOM 14921 H H . ALA A 1 21 ? -3.077 -4.932 -1.227 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 9
+ATOM 14922 H HA . ALA A 1 21 ? -1.709 -3.340 -3.246 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 9
+ATOM 14923 H HB1 . ALA A 1 21 ? -1.995 -2.159 -0.501 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 9
+ATOM 14924 H HB2 . ALA A 1 21 ? -1.770 -1.351 -2.071 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 9
+ATOM 14925 H HB3 . ALA A 1 21 ? -3.364 -2.009 -1.628 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 9
+ATOM 14926 N N . GLU A 1 22 ? -0.014 -4.982 -2.297 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 9
+ATOM 14927 C CA . GLU A 1 22 ? 1.176 -5.656 -1.807 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 9
+ATOM 14928 C C . GLU A 1 22 ? 2.409 -5.183 -2.579 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 9
+ATOM 14929 O O . GLU A 1 22 ? 2.424 -5.209 -3.808 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 9
+ATOM 14930 C CB . GLU A 1 22 ? 1.022 -7.175 -1.897 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 9
+ATOM 14931 C CG . GLU A 1 22 ? 1.648 -7.862 -0.681 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 9
+ATOM 14932 C CD . GLU A 1 22 ? 2.967 -8.542 -1.054 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 9
+ATOM 14933 O OE1 . GLU A 1 22 ? 2.902 -9.515 -1.836 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 9
+ATOM 14934 O OE2 . GLU A 1 22 ? 4.009 -8.074 -0.549 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 9
+ATOM 14935 H H . GLU A 1 22 ? -0.276 -5.215 -3.234 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 9
+ATOM 14936 H HA . GLU A 1 22 ? 1.262 -5.366 -0.759 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 9
+ATOM 14937 H HB2 . GLU A 1 22 ? -0.035 -7.434 -1.961 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 9
+ATOM 14938 H HB3 . GLU A 1 22 ? 1.496 -7.539 -2.808 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 9
+ATOM 14939 H HG2 . GLU A 1 22 ? 1.823 -7.129 0.106 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 9
+ATOM 14940 H HG3 . GLU A 1 22 ? 0.954 -8.601 -0.280 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 9
+ATOM 14941 N N . ASP A 1 23 ? 3.414 -4.762 -1.825 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 9
+ATOM 14942 C CA . ASP A 1 23 ? 4.649 -4.284 -2.423 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 9
+ATOM 14943 C C . ASP A 1 23 ? 5.778 -5.267 -2.106 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 9
+ATOM 14944 O O . ASP A 1 23 ? 6.449 -5.139 -1.083 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 9
+ATOM 14945 C CB . ASP A 1 23 ? 5.041 -2.917 -1.859 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 9
+ATOM 14946 C CG . ASP A 1 23 ? 6.367 -2.358 -2.381 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 9
+ATOM 14947 O OD1 . ASP A 1 23 ? 6.378 -1.927 -3.554 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 9
+ATOM 14948 O OD2 . ASP A 1 23 ? 7.338 -2.374 -1.594 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 9
+ATOM 14949 H H . ASP A 1 23 ? 3.394 -4.744 -0.825 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 9
+ATOM 14950 H HA . ASP A 1 23 ? 4.443 -4.216 -3.491 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 9
+ATOM 14951 H HB2 . ASP A 1 23 ? 4.248 -2.205 -2.089 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 9
+ATOM 14952 H HB3 . ASP A 1 23 ? 5.098 -2.991 -0.773 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 9
+ATOM 14953 N N . VAL A 1 24 ? 5.953 -6.227 -3.003 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 9
+ATOM 14954 C CA . VAL A 1 24 ? 6.989 -7.231 -2.831 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 9
+ATOM 14955 C C . VAL A 1 24 ? 8.349 -6.618 -3.171 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 9
+ATOM 14956 O O . VAL A 1 24 ? 8.670 -6.421 -4.342 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 9
+ATOM 14957 C CB . VAL A 1 24 ? 6.663 -8.467 -3.673 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 9
+ATOM 14958 C CG1 . VAL A 1 24 ? 7.881 -9.386 -3.791 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 9
+ATOM 14959 C CG2 . VAL A 1 24 ? 5.462 -9.220 -3.098 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 9
+ATOM 14960 H H . VAL A 1 24 ? 5.403 -6.324 -3.832 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 9
+ATOM 14961 H HA . VAL A 1 24 ? 6.989 -7.528 -1.782 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 9
+ATOM 14962 H HB . VAL A 1 24 ? 6.399 -8.130 -4.675 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 9
+ATOM 14963 H HG11 . VAL A 1 24 ? 7.682 -10.160 -4.532 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 9
+ATOM 14964 H HG12 . VAL A 1 24 ? 8.748 -8.802 -4.101 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 9
+ATOM 14965 H HG13 . VAL A 1 24 ? 8.082 -9.850 -2.826 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 9
+ATOM 14966 H HG21 . VAL A 1 24 ? 4.558 -8.920 -3.628 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 9
+ATOM 14967 H HG22 . VAL A 1 24 ? 5.615 -10.293 -3.219 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 9
+ATOM 14968 H HG23 . VAL A 1 24 ? 5.358 -8.985 -2.039 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 9
+ATOM 14969 N N . GLY A 1 25 ? 9.111 -6.333 -2.125 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 9
+ATOM 14970 C CA . GLY A 1 25 ? 10.429 -5.746 -2.298 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 9
+ATOM 14971 C C . GLY A 1 25 ? 11.506 -6.614 -1.642 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 9
+ATOM 14972 O O . GLY A 1 25 ? 11.719 -6.536 -0.433 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 9
+ATOM 14973 H H . GLY A 1 25 ? 8.843 -6.497 -1.176 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 9
+ATOM 14974 H HA2 . GLY A 1 25 ? 10.645 -5.634 -3.361 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 9
+ATOM 14975 H HA3 . GLY A 1 25 ? 10.446 -4.747 -1.862 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 9
+ATOM 14976 N N . SER A 1 26 ? 12.156 -7.419 -2.468 1.00 0.00 ? ? ? ? ? ? 26 SER A N 9
+ATOM 14977 C CA . SER A 1 26 ? 13.205 -8.300 -1.984 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 9
+ATOM 14978 C C . SER A 1 26 ? 14.497 -7.508 -1.772 1.00 0.00 ? ? ? ? ? ? 26 SER A C 9
+ATOM 14979 O O . SER A 1 26 ? 15.266 -7.305 -2.711 1.00 0.00 ? ? ? ? ? ? 26 SER A O 9
+ATOM 14980 C CB . SER A 1 26 ? 13.445 -9.458 -2.955 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 9
+ATOM 14981 O OG . SER A 1 26 ? 12.261 -10.217 -3.183 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 9
+ATOM 14982 H H . SER A 1 26 ? 11.977 -7.476 -3.451 1.00 0.00 ? ? ? ? ? ? 26 SER A H 9
+ATOM 14983 H HA . SER A 1 26 ? 12.838 -8.692 -1.036 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 9
+ATOM 14984 H HB2 . SER A 1 26 ? 13.812 -9.065 -3.903 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 9
+ATOM 14985 H HB3 . SER A 1 26 ? 14.223 -10.109 -2.558 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 9
+ATOM 14986 H HG . SER A 1 26 ? 12.006 -10.171 -4.149 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 9
+ATOM 14987 N N . ASN A 1 27 ? 14.696 -7.082 -0.534 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 9
+ATOM 14988 C CA . ASN A 1 27 ? 15.882 -6.317 -0.187 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 9
+ATOM 14989 C C . ASN A 1 27 ? 15.742 -4.893 -0.731 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 9
+ATOM 14990 O O . ASN A 1 27 ? 15.543 -4.700 -1.930 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 9
+ATOM 14991 C CB . ASN A 1 27 ? 17.137 -6.937 -0.803 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 9
+ATOM 14992 C CG . ASN A 1 27 ? 18.391 -6.516 -0.034 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 9
+ATOM 14993 O OD1 . ASN A 1 27 ? 18.331 -6.031 1.084 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 9
+ATOM 14994 N ND2 . ASN A 1 27 ? 19.527 -6.728 -0.693 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 9
+ATOM 14995 H H . ASN A 1 27 ? 14.066 -7.251 0.224 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 9
+ATOM 14996 H HA . ASN A 1 27 ? 15.932 -6.344 0.901 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 9
+ATOM 14997 H HB2 . ASN A 1 27 ? 17.051 -8.023 -0.798 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 9
+ATOM 14998 H HB3 . ASN A 1 27 ? 17.226 -6.629 -1.845 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 9
+ATOM 14999 H HD21 . ASN A 1 27 ? 19.506 -7.130 -1.608 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 9
+ATOM 15000 H HD22 . ASN A 1 27 ? 20.401 -6.486 -0.273 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 9
+ATOM 15001 N N . LYS A 1 28 ? 15.852 -3.934 0.176 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 9
+ATOM 15002 C CA . LYS A 1 28 ? 15.741 -2.534 -0.198 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 9
+ATOM 15003 C C . LYS A 1 28 ? 16.191 -1.660 0.974 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 9
+ATOM 15004 O O . LYS A 1 28 ? 16.841 -2.144 1.899 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 9
+ATOM 15005 C CB . LYS A 1 28 ? 14.326 -2.222 -0.690 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 9
+ATOM 15006 C CG . LYS A 1 28 ? 13.370 -2.016 0.487 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 9
+ATOM 15007 C CD . LYS A 1 28 ? 11.927 -1.866 0.001 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 9
+ATOM 15008 C CE . LYS A 1 28 ? 10.936 -2.311 1.079 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 9
+ATOM 15009 N NZ . LYS A 1 28 ? 10.369 -1.137 1.779 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 9
+ATOM 15010 H H . LYS A 1 28 ? 16.015 -4.100 1.148 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 9
+ATOM 15011 H HA . LYS A 1 28 ? 16.417 -2.365 -1.036 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 9
+ATOM 15012 H HB2 . LYS A 1 28 ? 14.341 -1.327 -1.311 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 9
+ATOM 15013 H HB3 . LYS A 1 28 ? 13.966 -3.038 -1.316 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 9
+ATOM 15014 H HG2 . LYS A 1 28 ? 13.441 -2.862 1.171 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 9
+ATOM 15015 H HG3 . LYS A 1 28 ? 13.663 -1.128 1.047 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 9
+ATOM 15016 H HD2 . LYS A 1 28 ? 11.735 -0.827 -0.266 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 9
+ATOM 15017 H HD3 . LYS A 1 28 ? 11.779 -2.460 -0.901 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 9
+ATOM 15018 H HE2 . LYS A 1 28 ? 10.135 -2.895 0.627 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 9
+ATOM 15019 H HE3 . LYS A 1 28 ? 11.438 -2.961 1.796 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 9
+ATOM 15020 H HZ1 . LYS A 1 28 ? 9.577 -1.421 2.319 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 9
+ATOM 15021 H HZ2 . LYS A 1 28 ? 11.061 -0.742 2.383 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 9
+ATOM 15022 H HZ3 . LYS A 1 28 ? 10.086 -0.453 1.106 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 9
+ATOM 15023 N N . GLY A 1 29 ? 15.829 -0.388 0.896 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 9
+ATOM 15024 C CA . GLY A 1 29 ? 16.188 0.558 1.938 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 9
+ATOM 15025 C C . GLY A 1 29 ? 16.138 1.995 1.416 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 9
+ATOM 15026 O O . GLY A 1 29 ? 15.179 2.385 0.752 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 9
+ATOM 15027 H H . GLY A 1 29 ? 15.300 -0.003 0.139 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 9
+ATOM 15028 H HA2 . GLY A 1 29 ? 15.506 0.450 2.782 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 9
+ATOM 15029 H HA3 . GLY A 1 29 ? 17.189 0.336 2.307 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 9
+ATOM 15030 N N . ALA A 1 30 ? 17.183 2.744 1.736 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 9
+ATOM 15031 C CA . ALA A 1 30 ? 17.271 4.129 1.307 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 9
+ATOM 15032 C C . ALA A 1 30 ? 16.005 4.873 1.739 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 9
+ATOM 15033 O O . ALA A 1 30 ? 15.399 4.536 2.755 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 9
+ATOM 15034 C CB . ALA A 1 30 ? 17.491 4.182 -0.206 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 9
+ATOM 15035 H H . ALA A 1 30 ? 17.959 2.419 2.276 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 9
+ATOM 15036 H HA . ALA A 1 30 ? 18.132 4.576 1.803 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 9
+ATOM 15037 H HB1 . ALA A 1 30 ? 17.812 5.184 -0.492 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 9
+ATOM 15038 H HB2 . ALA A 1 30 ? 18.258 3.461 -0.488 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 9
+ATOM 15039 H HB3 . ALA A 1 30 ? 16.559 3.940 -0.718 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 9
+ATOM 15040 N N . ILE A 1 31 ? 15.644 5.870 0.945 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 9
+ATOM 15041 C CA . ILE A 1 31 ? 14.462 6.665 1.232 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 9
+ATOM 15042 C C . ILE A 1 31 ? 13.222 5.932 0.714 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 9
+ATOM 15043 O O . ILE A 1 31 ? 13.097 5.689 -0.485 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 9
+ATOM 15044 C CB . ILE A 1 31 ? 14.618 8.080 0.673 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 9
+ATOM 15045 C CG1 . ILE A 1 31 ? 15.809 8.794 1.315 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 9
+ATOM 15046 C CG2 . ILE A 1 31 ? 13.321 8.877 0.828 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 9
+ATOM 15047 C CD1 . ILE A 1 31 ? 16.632 9.542 0.263 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 9
+ATOM 15048 H H . ILE A 1 31 ? 16.142 6.138 0.120 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 9
+ATOM 15049 H HA . ILE A 1 31 ? 14.383 6.753 2.316 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 9
+ATOM 15050 H HB . ILE A 1 31 ? 14.825 8.005 -0.394 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 9
+ATOM 15051 H HG12 . ILE A 1 31 ? 15.454 9.496 2.070 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 9
+ATOM 15052 H HG13 . ILE A 1 31 ? 16.441 8.068 1.827 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 9
+ATOM 15053 H HG21 . ILE A 1 31 ? 13.549 9.943 0.843 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 9
+ATOM 15054 H HG22 . ILE A 1 31 ? 12.659 8.659 -0.011 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 9
+ATOM 15055 H HG23 . ILE A 1 31 ? 12.831 8.597 1.760 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 9
+ATOM 15056 H HD11 . ILE A 1 31 ? 16.288 10.574 0.200 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 9
+ATOM 15057 H HD12 . ILE A 1 31 ? 17.684 9.526 0.547 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 9
+ATOM 15058 H HD13 . ILE A 1 31 ? 16.509 9.058 -0.705 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 9
+ATOM 15059 N N . ILE A 1 32 ? 12.337 5.602 1.643 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 9
+ATOM 15060 C CA . ILE A 1 32 ? 11.112 4.902 1.295 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 9
+ATOM 15061 C C . ILE A 1 32 ? 9.915 5.670 1.858 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 9
+ATOM 15062 O O . ILE A 1 32 ? 9.805 5.857 3.069 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 9
+ATOM 15063 C CB . ILE A 1 32 ? 11.179 3.444 1.754 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 9
+ATOM 15064 C CG1 . ILE A 1 32 ? 9.946 2.666 1.290 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 9
+ATOM 15065 C CG2 . ILE A 1 32 ? 11.376 3.355 3.269 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 9
+ATOM 15066 C CD1 . ILE A 1 32 ? 8.669 3.244 1.904 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 9
+ATOM 15067 H H . ILE A 1 32 ? 12.447 5.803 2.617 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 9
+ATOM 15068 H HA . ILE A 1 32 ? 11.038 4.895 0.208 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 9
+ATOM 15069 H HB . ILE A 1 32 ? 12.048 2.979 1.289 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 9
+ATOM 15070 H HG12 . ILE A 1 32 ? 9.879 2.701 0.202 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 9
+ATOM 15071 H HG13 . ILE A 1 32 ? 10.046 1.618 1.570 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 9
+ATOM 15072 H HG21 . ILE A 1 32 ? 10.626 3.967 3.770 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 9
+ATOM 15073 H HG22 . ILE A 1 32 ? 11.271 2.318 3.588 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 9
+ATOM 15074 H HG23 . ILE A 1 32 ? 12.371 3.716 3.528 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 9
+ATOM 15075 H HD11 . ILE A 1 32 ? 8.232 3.969 1.218 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 9
+ATOM 15076 H HD12 . ILE A 1 32 ? 7.957 2.439 2.085 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 9
+ATOM 15077 H HD13 . ILE A 1 32 ? 8.910 3.735 2.847 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 9
+ATOM 15078 N N . GLY A 1 33 ? 9.046 6.094 0.951 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 9
+ATOM 15079 C CA . GLY A 1 33 ? 7.860 6.838 1.342 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 9
+ATOM 15080 C C . GLY A 1 33 ? 6.607 5.966 1.236 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 9
+ATOM 15081 O O . GLY A 1 33 ? 6.225 5.553 0.142 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 9
+ATOM 15082 H H . GLY A 1 33 ? 9.142 5.938 -0.031 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 9
+ATOM 15083 H HA2 . GLY A 1 33 ? 7.972 7.197 2.365 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 9
+ATOM 15084 H HA3 . GLY A 1 33 ? 7.751 7.716 0.706 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 9
+ATOM 15085 N N . LEU A 1 34 ? 6.002 5.713 2.387 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 9
+ATOM 15086 C CA . LEU A 1 34 ? 4.800 4.898 2.437 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 9
+ATOM 15087 C C . LEU A 1 34 ? 3.611 5.775 2.837 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 9
+ATOM 15088 O O . LEU A 1 34 ? 3.656 6.458 3.859 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 9
+ATOM 15089 C CB . LEU A 1 34 ? 5.009 3.690 3.353 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 9
+ATOM 15090 C CG . LEU A 1 34 ? 4.328 2.392 2.916 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 9
+ATOM 15091 C CD1 . LEU A 1 34 ? 2.805 2.542 2.925 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 9
+ATOM 15092 C CD2 . LEU A 1 34 ? 4.851 1.929 1.555 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 9
+ATOM 15093 H H . LEU A 1 34 ? 6.319 6.053 3.272 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 9
+ATOM 15094 H HA . LEU A 1 34 ? 4.623 4.514 1.432 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 9
+ATOM 15095 H HB2 . LEU A 1 34 ? 6.080 3.505 3.438 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 9
+ATOM 15096 H HB3 . LEU A 1 34 ? 4.650 3.948 4.349 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 9
+ATOM 15097 H HG . LEU A 1 34 ? 4.579 1.615 3.638 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 9
+ATOM 15098 H HD11 . LEU A 1 34 ? 2.527 3.451 2.393 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 9
+ATOM 15099 H HD12 . LEU A 1 34 ? 2.353 1.680 2.433 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 9
+ATOM 15100 H HD13 . LEU A 1 34 ? 2.452 2.600 3.954 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 9
+ATOM 15101 H HD21 . LEU A 1 34 ? 5.717 2.530 1.275 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 9
+ATOM 15102 H HD22 . LEU A 1 34 ? 5.140 0.880 1.614 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 9
+ATOM 15103 H HD23 . LEU A 1 34 ? 4.068 2.049 0.805 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 9
+ATOM 15104 N N . MET A 1 35 ? 2.577 5.727 2.011 1.00 0.00 ? ? ? ? ? ? 35 MET A N 9
+ATOM 15105 C CA . MET A 1 35 ? 1.378 6.508 2.266 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 9
+ATOM 15106 C C . MET A 1 35 ? 0.135 5.795 1.730 1.00 0.00 ? ? ? ? ? ? 35 MET A C 9
+ATOM 15107 O O . MET A 1 35 ? -0.169 5.881 0.541 1.00 0.00 ? ? ? ? ? ? 35 MET A O 9
+ATOM 15108 C CB . MET A 1 35 ? 1.510 7.878 1.599 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 9
+ATOM 15109 C CG . MET A 1 35 ? 1.242 9.003 2.600 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 9
+ATOM 15110 S SD . MET A 1 35 ? 1.298 10.583 1.771 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 9
+ATOM 15111 C CE . MET A 1 35 ? -0.269 11.262 2.293 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 9
+ATOM 15112 H H . MET A 1 35 ? 2.549 5.168 1.182 1.00 0.00 ? ? ? ? ? ? 35 MET A H 9
+ATOM 15113 H HA . MET A 1 35 ? 1.314 6.599 3.351 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 9
+ATOM 15114 H HB2 . MET A 1 35 ? 2.511 7.988 1.181 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 9
+ATOM 15115 H HB3 . MET A 1 35 ? 0.808 7.951 0.768 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 9
+ATOM 15116 H HG2 . MET A 1 35 ? 0.268 8.862 3.066 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 9
+ATOM 15117 H HG3 . MET A 1 35 ? 1.985 8.976 3.398 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 9
+ATOM 15118 H HE1 . MET A 1 35 ? -1.080 10.688 1.845 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 9
+ATOM 15119 H HE2 . MET A 1 35 ? -0.344 11.211 3.379 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 9
+ATOM 15120 H HE3 . MET A 1 35 ? -0.339 12.302 1.972 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 9
+ATOM 15121 N N . VAL A 1 36 ? -0.550 5.109 2.632 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 9
+ATOM 15122 C CA . VAL A 1 36 ? -1.754 4.382 2.264 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 9
+ATOM 15123 C C . VAL A 1 36 ? -2.978 5.126 2.801 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 9
+ATOM 15124 O O . VAL A 1 36 ? -3.091 5.354 4.005 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 9
+ATOM 15125 C CB . VAL A 1 36 ? -1.666 2.938 2.761 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 9
+ATOM 15126 C CG1 . VAL A 1 36 ? -2.822 2.098 2.215 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 9
+ATOM 15127 C CG2 . VAL A 1 36 ? -0.316 2.314 2.399 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 9
+ATOM 15128 H H . VAL A 1 36 ? -0.296 5.044 3.597 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 9
+ATOM 15129 H HA . VAL A 1 36 ? -1.805 4.361 1.175 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 9
+ATOM 15130 H HB . VAL A 1 36 ? -1.746 2.952 3.848 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 9
+ATOM 15131 H HG11 . VAL A 1 36 ? -2.441 1.391 1.478 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 9
+ATOM 15132 H HG12 . VAL A 1 36 ? -3.293 1.553 3.032 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 9
+ATOM 15133 H HG13 . VAL A 1 36 ? -3.556 2.753 1.745 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 9
+ATOM 15134 H HG21 . VAL A 1 36 ? 0.467 3.067 2.485 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 9
+ATOM 15135 H HG22 . VAL A 1 36 ? -0.103 1.489 3.079 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 9
+ATOM 15136 H HG23 . VAL A 1 36 ? -0.351 1.942 1.375 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 9
+ATOM 15137 N N . GLY A 1 37 ? -3.863 5.483 1.883 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 9
+ATOM 15138 C CA . GLY A 1 37 ? -5.075 6.197 2.250 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 9
+ATOM 15139 C C . GLY A 1 37 ? -6.317 5.476 1.721 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 9
+ATOM 15140 O O . GLY A 1 37 ? -6.701 5.658 0.567 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 9
+ATOM 15141 H H . GLY A 1 37 ? -3.764 5.294 0.906 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 9
+ATOM 15142 H HA2 . GLY A 1 37 ? -5.135 6.285 3.334 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 9
+ATOM 15143 H HA3 . GLY A 1 37 ? -5.040 7.210 1.849 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 9
+ATOM 15144 N N . GLY A 1 38 ? -6.910 4.672 2.592 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 9
+ATOM 15145 C CA . GLY A 1 38 ? -8.101 3.923 2.227 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 9
+ATOM 15146 C C . GLY A 1 38 ? -9.367 4.644 2.694 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 9
+ATOM 15147 O O . GLY A 1 38 ? -9.502 4.969 3.873 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 9
+ATOM 15148 H H . GLY A 1 38 ? -6.591 4.529 3.529 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 9
+ATOM 15149 H HA2 . GLY A 1 38 ? -8.133 3.787 1.146 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 9
+ATOM 15150 H HA3 . GLY A 1 38 ? -8.060 2.929 2.673 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 9
+ATOM 15151 N N . VAL A 1 39 ? -10.262 4.874 1.745 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 9
+ATOM 15152 C CA . VAL A 1 39 ? -11.512 5.551 2.043 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 9
+ATOM 15153 C C . VAL A 1 39 ? -12.667 4.796 1.383 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 9
+ATOM 15154 O O . VAL A 1 39 ? -12.951 4.996 0.203 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 9
+ATOM 15155 C CB . VAL A 1 39 ? -11.431 7.016 1.609 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 9
+ATOM 15156 C CG1 . VAL A 1 39 ? -12.801 7.691 1.697 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 9
+ATOM 15157 C CG2 . VAL A 1 39 ? -10.391 7.776 2.436 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 9
+ATOM 15158 H H . VAL A 1 39 ? -10.144 4.607 0.788 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 9
+ATOM 15159 H HA . VAL A 1 39 ? -11.650 5.527 3.124 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 9
+ATOM 15160 H HB . VAL A 1 39 ? -11.112 7.040 0.567 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 9
+ATOM 15161 H HG11 . VAL A 1 39 ? -13.537 6.973 2.058 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 9
+ATOM 15162 H HG12 . VAL A 1 39 ? -12.748 8.534 2.386 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 9
+ATOM 15163 H HG13 . VAL A 1 39 ? -13.095 8.047 0.710 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 9
+ATOM 15164 H HG21 . VAL A 1 39 ? -9.435 7.767 1.914 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 9
+ATOM 15165 H HG22 . VAL A 1 39 ? -10.720 8.806 2.575 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 9
+ATOM 15166 H HG23 . VAL A 1 39 ? -10.279 7.296 3.408 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 9
+ATOM 15167 N N . VAL A 1 40 ? -13.302 3.942 2.173 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 9
+ATOM 15168 C CA . VAL A 1 40 ? -14.420 3.155 1.679 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 9
+ATOM 15169 C C . VAL A 1 40 ? -15.694 3.569 2.418 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 9
+ATOM 15170 O O . VAL A 1 40 ? -15.903 3.183 3.567 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 9
+ATOM 15171 C CB . VAL A 1 40 ? -14.109 1.663 1.813 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 9
+ATOM 15172 C CG1 . VAL A 1 40 ? -12.746 1.331 1.202 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 9
+ATOM 15173 C CG2 . VAL A 1 40 ? -14.178 1.218 3.275 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 9
+ATOM 15174 H H . VAL A 1 40 ? -13.065 3.785 3.131 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 9
+ATOM 15175 H HA . VAL A 1 40 ? -14.539 3.382 0.620 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 9
+ATOM 15176 H HB . VAL A 1 40 ? -14.868 1.112 1.258 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 9
+ATOM 15177 H HG11 . VAL A 1 40 ? -12.880 0.998 0.173 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 9
+ATOM 15178 H HG12 . VAL A 1 40 ? -12.114 2.219 1.217 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 9
+ATOM 15179 H HG13 . VAL A 1 40 ? -12.272 0.538 1.782 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 9
+ATOM 15180 H HG21 . VAL A 1 40 ? -15.216 1.022 3.546 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 9
+ATOM 15181 H HG22 . VAL A 1 40 ? -13.591 0.309 3.406 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 9
+ATOM 15182 H HG23 . VAL A 1 40 ? -13.778 2.004 3.914 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 9
+ATOM 15183 N N . ILE A 1 41 ? -16.514 4.348 1.727 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 9
+ATOM 15184 C CA . ILE A 1 41 ? -17.762 4.818 2.303 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 9
+ATOM 15185 C C . ILE A 1 41 ? -18.915 3.958 1.782 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 9
+ATOM 15186 O O . ILE A 1 41 ? -19.154 3.898 0.577 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 9
+ATOM 15187 C CB . ILE A 1 41 ? -17.944 6.314 2.041 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 9
+ATOM 15188 C CG1 . ILE A 1 41 ? -16.915 7.137 2.818 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 9
+ATOM 15189 C CG2 . ILE A 1 41 ? -19.377 6.754 2.345 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 9
+ATOM 15190 C CD1 . ILE A 1 41 ? -16.587 8.440 2.086 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 9
+ATOM 15191 H H . ILE A 1 41 ? -16.337 4.657 0.793 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 9
+ATOM 15192 H HA . ILE A 1 41 ? -17.694 4.687 3.383 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 9
+ATOM 15193 H HB . ILE A 1 41 ? -17.769 6.499 0.981 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 9
+ATOM 15194 H HG12 . ILE A 1 41 ? -17.300 7.361 3.813 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 9
+ATOM 15195 H HG13 . ILE A 1 41 ? -16.004 6.553 2.954 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 9
+ATOM 15196 H HG21 . ILE A 1 41 ? -19.362 7.556 3.084 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 9
+ATOM 15197 H HG22 . ILE A 1 41 ? -19.849 7.113 1.430 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 9
+ATOM 15198 H HG23 . ILE A 1 41 ? -19.942 5.909 2.738 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 9
+ATOM 15199 H HD11 . ILE A 1 41 ? -15.516 8.631 2.146 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 9
+ATOM 15200 H HD12 . ILE A 1 41 ? -16.883 8.353 1.041 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 9
+ATOM 15201 H HD13 . ILE A 1 41 ? -17.130 9.263 2.550 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 9
+ATOM 15202 N N . ALA A 1 42 ? -19.599 3.313 2.716 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 9
+ATOM 15203 C CA . ALA A 1 42 ? -20.721 2.458 2.366 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 9
+ATOM 15204 C C . ALA A 1 42 ? -21.950 3.326 2.090 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 9
+ATOM 15205 O O . ALA A 1 42 ? -22.756 3.570 2.987 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 9
+ATOM 15206 C CB . ALA A 1 42 ? -20.961 1.446 3.488 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 9
+ATOM 15207 H H . ALA A 1 42 ? -19.398 3.367 3.694 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 9
+ATOM 15208 H HA . ALA A 1 42 ? -20.456 1.919 1.457 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 9
+ATOM 15209 H HB1 . ALA A 1 42 ? -21.109 1.975 4.429 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 9
+ATOM 15210 H HB2 . ALA A 1 42 ? -21.848 0.855 3.260 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 9
+ATOM 15211 H HB3 . ALA A 1 42 ? -20.097 0.787 3.574 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 9
+ATOM 15212 N N . LEU B 1 17 ? -16.049 -4.601 -6.693 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 9
+ATOM 15213 C CA . LEU B 1 17 ? -14.974 -3.684 -7.031 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 9
+ATOM 15214 C C . LEU B 1 17 ? -13.634 -4.311 -6.640 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 9
+ATOM 15215 O O . LEU B 1 17 ? -13.106 -4.036 -5.563 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 9
+ATOM 15216 C CB . LEU B 1 17 ? -15.220 -2.313 -6.397 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 9
+ATOM 15217 C CG . LEU B 1 17 ? -14.784 -1.103 -7.226 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 9
+ATOM 15218 C CD1 . LEU B 1 17 ? -13.426 -1.351 -7.886 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 9
+ATOM 15219 C CD2 . LEU B 1 17 ? -15.857 -0.723 -8.248 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 9
+ATOM 15220 H H . LEU B 1 17 ? -15.760 -5.443 -6.238 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 9
+ATOM 15221 H HA . LEU B 1 17 ? -14.989 -3.546 -8.112 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 9
+ATOM 15222 H HB2 . LEU B 1 17 ? -16.285 -2.219 -6.185 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 9
+ATOM 15223 H HB3 . LEU B 1 17 ? -14.700 -2.279 -5.439 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 9
+ATOM 15224 H HG . LEU B 1 17 ? -14.664 -0.254 -6.553 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 9
+ATOM 15225 H HD11 . LEU B 1 17 ? -12.651 -1.390 -7.120 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 9
+ATOM 15226 H HD12 . LEU B 1 17 ? -13.452 -2.298 -8.425 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 9
+ATOM 15227 H HD13 . LEU B 1 17 ? -13.208 -0.542 -8.583 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 9
+ATOM 15228 H HD21 . LEU B 1 17 ? -15.487 0.083 -8.881 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 9
+ATOM 15229 H HD22 . LEU B 1 17 ? -16.095 -1.590 -8.864 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 9
+ATOM 15230 H HD23 . LEU B 1 17 ? -16.755 -0.392 -7.725 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 9
+ATOM 15231 N N . VAL B 1 18 ? -13.121 -5.141 -7.536 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 9
+ATOM 15232 C CA . VAL B 1 18 ? -11.853 -5.809 -7.298 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 9
+ATOM 15233 C C . VAL B 1 18 ? -10.709 -4.896 -7.745 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 9
+ATOM 15234 O O . VAL B 1 18 ? -10.658 -4.480 -8.901 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 9
+ATOM 15235 C CB . VAL B 1 18 ? -11.839 -7.170 -7.997 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 9
+ATOM 15236 C CG1 . VAL B 1 18 ? -10.423 -7.747 -8.045 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 9
+ATOM 15237 C CG2 . VAL B 1 18 ? -12.806 -8.144 -7.319 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 9
+ATOM 15238 H H . VAL B 1 18 ? -13.557 -5.359 -8.409 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 9
+ATOM 15239 H HA . VAL B 1 18 ? -11.767 -5.980 -6.225 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 9
+ATOM 15240 H HB . VAL B 1 18 ? -12.177 -7.023 -9.023 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 9
+ATOM 15241 H HG11 . VAL B 1 18 ? -9.849 -7.372 -7.198 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 9
+ATOM 15242 H HG12 . VAL B 1 18 ? -10.472 -8.835 -7.998 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 9
+ATOM 15243 H HG13 . VAL B 1 18 ? -9.940 -7.446 -8.974 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 9
+ATOM 15244 H HG21 . VAL B 1 18 ? -12.821 -7.953 -6.246 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 9
+ATOM 15245 H HG22 . VAL B 1 18 ? -13.807 -8.005 -7.728 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 9
+ATOM 15246 H HG23 . VAL B 1 18 ? -12.477 -9.167 -7.502 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 9
+ATOM 15247 N N . PHE B 1 19 ? -9.820 -4.612 -6.804 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 9
+ATOM 15248 C CA . PHE B 1 19 ? -8.680 -3.757 -7.087 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 9
+ATOM 15249 C C . PHE B 1 19 ? -7.380 -4.395 -6.594 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 9
+ATOM 15250 O O . PHE B 1 19 ? -6.997 -4.219 -5.438 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 9
+ATOM 15251 C CB . PHE B 1 19 ? -8.908 -2.445 -6.333 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 9
+ATOM 15252 C CG . PHE B 1 19 ? -8.680 -1.192 -7.181 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 9
+ATOM 15253 C CD1 . PHE B 1 19 ? -9.697 -0.677 -7.922 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 9
+ATOM 15254 C CD2 . PHE B 1 19 ? -7.459 -0.593 -7.193 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 9
+ATOM 15255 C CE1 . PHE B 1 19 ? -9.485 0.485 -8.709 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 9
+ATOM 15256 C CE2 . PHE B 1 19 ? -7.247 0.570 -7.980 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 9
+ATOM 15257 C CZ . PHE B 1 19 ? -8.264 1.084 -8.722 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 9
+ATOM 15258 H H . PHE B 1 19 ? -9.869 -4.955 -5.866 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 9
+ATOM 15259 H HA . PHE B 1 19 ? -8.632 -3.628 -8.168 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 9
+ATOM 15260 H HB2 . PHE B 1 19 ? -9.928 -2.431 -5.949 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 9
+ATOM 15261 H HB3 . PHE B 1 19 ? -8.243 -2.413 -5.470 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 9
+ATOM 15262 H HD1 . PHE B 1 19 ? -10.676 -1.158 -7.912 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 9
+ATOM 15263 H HD2 . PHE B 1 19 ? -6.643 -1.005 -6.600 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 9
+ATOM 15264 H HE1 . PHE B 1 19 ? -10.301 0.898 -9.303 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 9
+ATOM 15265 H HE2 . PHE B 1 19 ? -6.268 1.050 -7.991 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 9
+ATOM 15266 H HZ . PHE B 1 19 ? -8.101 1.977 -9.326 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 9
+ATOM 15267 N N . PHE B 1 20 ? -6.737 -5.123 -7.495 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 9
+ATOM 15268 C CA . PHE B 1 20 ? -5.488 -5.789 -7.166 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 9
+ATOM 15269 C C . PHE B 1 20 ? -4.287 -4.936 -7.580 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 9
+ATOM 15270 O O . PHE B 1 20 ? -4.141 -4.590 -8.751 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 9
+ATOM 15271 C CB . PHE B 1 20 ? -5.461 -7.102 -7.951 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 9
+ATOM 15272 C CG . PHE B 1 20 ? -5.088 -8.323 -7.107 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 9
+ATOM 15273 C CD1 . PHE B 1 20 ? -3.781 -8.659 -6.938 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 9
+ATOM 15274 C CD2 . PHE B 1 20 ? -6.063 -9.073 -6.528 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 9
+ATOM 15275 C CE1 . PHE B 1 20 ? -3.435 -9.792 -6.156 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 9
+ATOM 15276 C CE2 . PHE B 1 20 ? -5.717 -10.206 -5.745 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 9
+ATOM 15277 C CZ . PHE B 1 20 ? -4.410 -10.542 -5.576 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 9
+ATOM 15278 H H . PHE B 1 20 ? -7.056 -5.262 -8.432 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 9
+ATOM 15279 H HA . PHE B 1 20 ? -5.473 -5.934 -6.086 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 9
+ATOM 15280 H HB2 . PHE B 1 20 ? -6.441 -7.267 -8.397 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 9
+ATOM 15281 H HB3 . PHE B 1 20 ? -4.749 -7.009 -8.771 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 9
+ATOM 15282 H HD1 . PHE B 1 20 ? -2.999 -8.058 -7.403 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 9
+ATOM 15283 H HD2 . PHE B 1 20 ? -7.111 -8.803 -6.663 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 9
+ATOM 15284 H HE1 . PHE B 1 20 ? -2.387 -10.062 -6.020 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 9
+ATOM 15285 H HE2 . PHE B 1 20 ? -6.499 -10.807 -5.280 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 9
+ATOM 15286 H HZ . PHE B 1 20 ? -4.145 -11.412 -4.975 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 9
+ATOM 15287 N N . ALA B 1 21 ? -3.457 -4.622 -6.596 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 9
+ATOM 15288 C CA . ALA B 1 21 ? -2.274 -3.816 -6.843 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 9
+ATOM 15289 C C . ALA B 1 21 ? -1.062 -4.484 -6.189 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 9
+ATOM 15290 O O . ALA B 1 21 ? -0.916 -4.453 -4.968 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 9
+ATOM 15291 C CB . ALA B 1 21 ? -2.506 -2.395 -6.326 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 9
+ATOM 15292 H H . ALA B 1 21 ? -3.583 -4.907 -5.646 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 9
+ATOM 15293 H HA . ALA B 1 21 ? -2.119 -3.777 -7.921 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 9
+ATOM 15294 H HB1 . ALA B 1 21 ? -3.577 -2.195 -6.282 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 9
+ATOM 15295 H HB2 . ALA B 1 21 ? -2.077 -2.296 -5.329 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 9
+ATOM 15296 H HB3 . ALA B 1 21 ? -2.031 -1.682 -6.999 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 9
+ATOM 15297 N N . GLU B 1 22 ? -0.225 -5.071 -7.031 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 9
+ATOM 15298 C CA . GLU B 1 22 ? 0.970 -5.745 -6.550 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 9
+ATOM 15299 C C . GLU B 1 22 ? 2.206 -5.223 -7.285 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 9
+ATOM 15300 O O . GLU B 1 22 ? 2.143 -4.920 -8.475 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 9
+ATOM 15301 C CB . GLU B 1 22 ? 0.842 -7.262 -6.702 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 9
+ATOM 15302 C CG . GLU B 1 22 ? 2.132 -7.966 -6.275 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 9
+ATOM 15303 C CD . GLU B 1 22 ? 1.853 -9.409 -5.847 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 9
+ATOM 15304 O OE1 . GLU B 1 22 ? 0.823 -9.610 -5.169 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 9
+ATOM 15305 O OE2 . GLU B 1 22 ? 2.677 -10.277 -6.208 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 9
+ATOM 15306 H H . GLU B 1 22 ? -0.351 -5.092 -8.023 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 9
+ATOM 15307 H HA . GLU B 1 22 ? 1.036 -5.496 -5.491 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 9
+ATOM 15308 H HB2 . GLU B 1 22 ? 0.010 -7.623 -6.097 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 9
+ATOM 15309 H HB3 . GLU B 1 22 ? 0.614 -7.510 -7.738 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 9
+ATOM 15310 H HG2 . GLU B 1 22 ? 2.844 -7.959 -7.101 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 9
+ATOM 15311 H HG3 . GLU B 1 22 ? 2.593 -7.421 -5.452 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 9
+ATOM 15312 N N . ASP B 1 23 ? 3.301 -5.133 -6.544 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 9
+ATOM 15313 C CA . ASP B 1 23 ? 4.550 -4.653 -7.110 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 9
+ATOM 15314 C C . ASP B 1 23 ? 5.681 -5.608 -6.725 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 9
+ATOM 15315 O O . ASP B 1 23 ? 6.111 -5.634 -5.572 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 9
+ATOM 15316 C CB . ASP B 1 23 ? 4.900 -3.264 -6.572 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 9
+ATOM 15317 C CG . ASP B 1 23 ? 6.125 -2.611 -7.216 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 9
+ATOM 15318 O OD1 . ASP B 1 23 ? 6.678 -3.236 -8.146 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 9
+ATOM 15319 O OD2 . ASP B 1 23 ? 6.481 -1.501 -6.763 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 9
+ATOM 15320 H H . ASP B 1 23 ? 3.343 -5.381 -5.576 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 9
+ATOM 15321 H HA . ASP B 1 23 ? 4.382 -4.618 -8.187 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 9
+ATOM 15322 H HB2 . ASP B 1 23 ? 4.041 -2.608 -6.714 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 9
+ATOM 15323 H HB3 . ASP B 1 23 ? 5.070 -3.339 -5.498 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 9
+ATOM 15324 N N . VAL B 1 24 ? 6.130 -6.371 -7.711 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 9
+ATOM 15325 C CA . VAL B 1 24 ? 7.203 -7.325 -7.489 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 9
+ATOM 15326 C C . VAL B 1 24 ? 8.542 -6.671 -7.836 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 9
+ATOM 15327 O O . VAL B 1 24 ? 8.954 -6.669 -8.995 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 9
+ATOM 15328 C CB . VAL B 1 24 ? 6.938 -8.604 -8.286 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 9
+ATOM 15329 C CG1 . VAL B 1 24 ? 8.109 -9.581 -8.160 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 9
+ATOM 15330 C CG2 . VAL B 1 24 ? 5.627 -9.261 -7.849 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 9
+ATOM 15331 H H . VAL B 1 24 ? 5.775 -6.343 -8.645 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 9
+ATOM 15332 H HA . VAL B 1 24 ? 7.202 -7.581 -6.430 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 9
+ATOM 15333 H HB . VAL B 1 24 ? 6.841 -8.331 -9.336 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 9
+ATOM 15334 H HG11 . VAL B 1 24 ? 7.843 -10.529 -8.627 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 9
+ATOM 15335 H HG12 . VAL B 1 24 ? 8.985 -9.164 -8.658 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 9
+ATOM 15336 H HG13 . VAL B 1 24 ? 8.333 -9.746 -7.106 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 9
+ATOM 15337 H HG21 . VAL B 1 24 ? 4.975 -9.383 -8.714 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 9
+ATOM 15338 H HG22 . VAL B 1 24 ? 5.837 -10.237 -7.412 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 9
+ATOM 15339 H HG23 . VAL B 1 24 ? 5.134 -8.631 -7.109 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 9
+ATOM 15340 N N . GLY B 1 25 ? 9.184 -6.133 -6.810 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 9
+ATOM 15341 C CA . GLY B 1 25 ? 10.468 -5.477 -6.992 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 9
+ATOM 15342 C C . GLY B 1 25 ? 11.596 -6.294 -6.358 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 9
+ATOM 15343 O O . GLY B 1 25 ? 11.666 -6.418 -5.136 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 9
+ATOM 15344 H H . GLY B 1 25 ? 8.843 -6.139 -5.871 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 9
+ATOM 15345 H HA2 . GLY B 1 25 ? 10.665 -5.344 -8.056 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 9
+ATOM 15346 H HA3 . GLY B 1 25 ? 10.439 -4.483 -6.546 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 9
+ATOM 15347 N N . SER B 1 26 ? 12.450 -6.830 -7.217 1.00 0.00 ? ? ? ? ? ? 26 SER B N 9
+ATOM 15348 C CA . SER B 1 26 ? 13.571 -7.632 -6.756 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 9
+ATOM 15349 C C . SER B 1 26 ? 14.788 -6.738 -6.511 1.00 0.00 ? ? ? ? ? ? 26 SER B C 9
+ATOM 15350 O O . SER B 1 26 ? 15.543 -6.444 -7.437 1.00 0.00 ? ? ? ? ? ? 26 SER B O 9
+ATOM 15351 C CB . SER B 1 26 ? 13.914 -8.731 -7.764 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 9
+ATOM 15352 O OG . SER B 1 26 ? 12.845 -9.660 -7.925 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 9
+ATOM 15353 H H . SER B 1 26 ? 12.386 -6.725 -8.210 1.00 0.00 ? ? ? ? ? ? 26 SER B H 9
+ATOM 15354 H HA . SER B 1 26 ? 13.236 -8.087 -5.824 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 9
+ATOM 15355 H HB2 . SER B 1 26 ? 14.149 -8.278 -8.728 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 9
+ATOM 15356 H HB3 . SER B 1 26 ? 14.808 -9.260 -7.434 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 9
+ATOM 15357 H HG . SER B 1 26 ? 12.126 -9.473 -7.257 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 9
+ATOM 15358 N N . ASN B 1 27 ? 14.941 -6.330 -5.260 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 9
+ATOM 15359 C CA . ASN B 1 27 ? 16.053 -5.476 -4.882 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 9
+ATOM 15360 C C . ASN B 1 27 ? 15.704 -4.020 -5.200 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 9
+ATOM 15361 O O . ASN B 1 27 ? 15.885 -3.567 -6.329 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 9
+ATOM 15362 C CB . ASN B 1 27 ? 17.318 -5.840 -5.663 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 9
+ATOM 15363 C CG . ASN B 1 27 ? 18.565 -5.682 -4.791 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 9
+ATOM 15364 O OD1 . ASN B 1 27 ? 18.494 -5.516 -3.584 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 9
+ATOM 15365 N ND2 . ASN B 1 27 ? 19.709 -5.744 -5.466 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 9
+ATOM 15366 H H . ASN B 1 27 ? 14.322 -6.574 -4.513 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 9
+ATOM 15367 H HA . ASN B 1 27 ? 16.196 -5.647 -3.815 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 9
+ATOM 15368 H HB2 . ASN B 1 27 ? 17.246 -6.867 -6.019 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 9
+ATOM 15369 H HB3 . ASN B 1 27 ? 17.402 -5.202 -6.543 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 9
+ATOM 15370 H HD21 . ASN B 1 27 ? 19.698 -5.883 -6.457 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 9
+ATOM 15371 H HD22 . ASN B 1 27 ? 20.580 -5.652 -4.984 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 9
+ATOM 15372 N N . LYS B 1 28 ? 15.209 -3.329 -4.184 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 9
+ATOM 15373 C CA . LYS B 1 28 ? 14.833 -1.934 -4.340 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 9
+ATOM 15374 C C . LYS B 1 28 ? 15.833 -1.053 -3.589 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 9
+ATOM 15375 O O . LYS B 1 28 ? 16.833 -1.546 -3.069 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 9
+ATOM 15376 C CB . LYS B 1 28 ? 13.381 -1.719 -3.911 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 9
+ATOM 15377 C CG . LYS B 1 28 ? 12.425 -2.546 -4.775 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 9
+ATOM 15378 C CD . LYS B 1 28 ? 11.029 -1.921 -4.800 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 9
+ATOM 15379 C CE . LYS B 1 28 ? 9.979 -2.903 -4.278 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 9
+ATOM 15380 N NZ . LYS B 1 28 ? 8.939 -2.189 -3.505 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 9
+ATOM 15381 H H . LYS B 1 28 ? 15.066 -3.705 -3.268 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 9
+ATOM 15382 H HA . LYS B 1 28 ? 14.893 -1.697 -5.403 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 9
+ATOM 15383 H HB2 . LYS B 1 28 ? 13.262 -1.997 -2.864 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 9
+ATOM 15384 H HB3 . LYS B 1 28 ? 13.126 -0.662 -3.990 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 9
+ATOM 15385 H HG2 . LYS B 1 28 ? 12.815 -2.614 -5.790 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 9
+ATOM 15386 H HG3 . LYS B 1 28 ? 12.366 -3.562 -4.387 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 9
+ATOM 15387 H HD2 . LYS B 1 28 ? 11.020 -1.016 -4.191 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 9
+ATOM 15388 H HD3 . LYS B 1 28 ? 10.779 -1.622 -5.818 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 9
+ATOM 15389 H HE2 . LYS B 1 28 ? 9.520 -3.432 -5.114 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 9
+ATOM 15390 H HE3 . LYS B 1 28 ? 10.456 -3.655 -3.650 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 9
+ATOM 15391 H HZ1 . LYS B 1 28 ? 9.221 -1.240 -3.365 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 9
+ATOM 15392 H HZ2 . LYS B 1 28 ? 8.076 -2.209 -4.008 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 9
+ATOM 15393 H HZ3 . LYS B 1 28 ? 8.818 -2.635 -2.618 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 9
+ATOM 15394 N N . GLY B 1 29 ? 15.529 0.237 -3.556 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 9
+ATOM 15395 C CA . GLY B 1 29 ? 16.389 1.191 -2.877 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 9
+ATOM 15396 C C . GLY B 1 29 ? 16.234 2.591 -3.476 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 9
+ATOM 15397 O O . GLY B 1 29 ? 15.289 2.851 -4.220 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 9
+ATOM 15398 H H . GLY B 1 29 ? 14.714 0.630 -3.982 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 9
+ATOM 15399 H HA2 . GLY B 1 29 ? 16.143 1.216 -1.816 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 9
+ATOM 15400 H HA3 . GLY B 1 29 ? 17.428 0.871 -2.957 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 9
+ATOM 15401 N N . ALA B 1 30 ? 17.175 3.456 -3.128 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 9
+ATOM 15402 C CA . ALA B 1 30 ? 17.155 4.823 -3.621 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 9
+ATOM 15403 C C . ALA B 1 30 ? 15.874 5.512 -3.146 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 9
+ATOM 15404 O O . ALA B 1 30 ? 15.410 5.271 -2.033 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 9
+ATOM 15405 C CB . ALA B 1 30 ? 17.284 4.817 -5.145 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 9
+ATOM 15406 H H . ALA B 1 30 ? 17.940 3.237 -2.522 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 9
+ATOM 15407 H HA . ALA B 1 30 ? 18.015 5.341 -3.197 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 9
+ATOM 15408 H HB1 . ALA B 1 30 ? 16.355 4.455 -5.587 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 9
+ATOM 15409 H HB2 . ALA B 1 30 ? 17.482 5.830 -5.496 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 9
+ATOM 15410 H HB3 . ALA B 1 30 ? 18.105 4.164 -5.438 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 9
+ATOM 15411 N N . ILE B 1 31 ? 15.338 6.357 -4.015 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 9
+ATOM 15412 C CA . ILE B 1 31 ? 14.120 7.084 -3.699 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 9
+ATOM 15413 C C . ILE B 1 31 ? 12.913 6.291 -4.205 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 9
+ATOM 15414 O O . ILE B 1 31 ? 12.536 6.404 -5.370 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 9
+ATOM 15415 C CB . ILE B 1 31 ? 14.191 8.511 -4.244 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 9
+ATOM 15416 C CG1 . ILE B 1 31 ? 15.371 9.273 -3.635 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 9
+ATOM 15417 C CG2 . ILE B 1 31 ? 12.865 9.245 -4.033 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 9
+ATOM 15418 C CD1 . ILE B 1 31 ? 16.406 9.626 -4.705 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 9
+ATOM 15419 H H . ILE B 1 31 ? 15.721 6.548 -4.919 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 9
+ATOM 15420 H HA . ILE B 1 31 ? 14.055 7.156 -2.613 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 9
+ATOM 15421 H HB . ILE B 1 31 ? 14.362 8.458 -5.319 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 9
+ATOM 15422 H HG12 . ILE B 1 31 ? 15.012 10.184 -3.156 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 9
+ATOM 15423 H HG13 . ILE B 1 31 ? 15.837 8.667 -2.859 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 9
+ATOM 15424 H HG21 . ILE B 1 31 ? 12.846 9.682 -3.034 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 9
+ATOM 15425 H HG22 . ILE B 1 31 ? 12.765 10.036 -4.777 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 9
+ATOM 15426 H HG23 . ILE B 1 31 ? 12.040 8.541 -4.137 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 9
+ATOM 15427 H HD11 . ILE B 1 31 ? 16.715 8.719 -5.225 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 9
+ATOM 15428 H HD12 . ILE B 1 31 ? 15.966 10.322 -5.420 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 9
+ATOM 15429 H HD13 . ILE B 1 31 ? 17.272 10.089 -4.234 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 9
+ATOM 15430 N N . ILE B 1 32 ? 12.340 5.507 -3.303 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 9
+ATOM 15431 C CA . ILE B 1 32 ? 11.183 4.697 -3.644 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 9
+ATOM 15432 C C . ILE B 1 32 ? 9.935 5.298 -2.994 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 9
+ATOM 15433 O O . ILE B 1 32 ? 9.872 5.436 -1.773 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 9
+ATOM 15434 C CB . ILE B 1 32 ? 11.426 3.233 -3.271 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 9
+ATOM 15435 C CG1 . ILE B 1 32 ? 10.282 2.344 -3.764 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 9
+ATOM 15436 C CG2 . ILE B 1 32 ? 11.662 3.082 -1.767 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 9
+ATOM 15437 C CD1 . ILE B 1 32 ? 8.959 2.738 -3.104 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 9
+ATOM 15438 H H . ILE B 1 32 ? 12.652 5.422 -2.357 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 9
+ATOM 15439 H HA . ILE B 1 32 ? 11.063 4.738 -4.726 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 9
+ATOM 15440 H HB . ILE B 1 32 ? 12.334 2.898 -3.774 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 9
+ATOM 15441 H HG12 . ILE B 1 32 ? 10.192 2.429 -4.847 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 9
+ATOM 15442 H HG13 . ILE B 1 32 ? 10.507 1.301 -3.543 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 9
+ATOM 15443 H HG21 . ILE B 1 32 ? 12.621 3.529 -1.503 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 9
+ATOM 15444 H HG22 . ILE B 1 32 ? 10.864 3.585 -1.222 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 9
+ATOM 15445 H HG23 . ILE B 1 32 ? 11.671 2.024 -1.505 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 9
+ATOM 15446 H HD11 . ILE B 1 32 ? 8.422 3.430 -3.752 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 9
+ATOM 15447 H HD12 . ILE B 1 32 ? 8.354 1.846 -2.944 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 9
+ATOM 15448 H HD13 . ILE B 1 32 ? 9.160 3.217 -2.146 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 9
+ATOM 15449 N N . GLY B 1 33 ? 8.973 5.638 -3.838 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 9
+ATOM 15450 C CA . GLY B 1 33 ? 7.730 6.221 -3.361 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 9
+ATOM 15451 C C . GLY B 1 33 ? 6.575 5.225 -3.483 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 9
+ATOM 15452 O O . GLY B 1 33 ? 6.368 4.635 -4.542 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 9
+ATOM 15453 H H . GLY B 1 33 ? 9.032 5.522 -4.830 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 9
+ATOM 15454 H HA2 . GLY B 1 33 ? 7.844 6.527 -2.322 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 9
+ATOM 15455 H HA3 . GLY B 1 33 ? 7.502 7.120 -3.935 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 9
+ATOM 15456 N N . LEU B 1 34 ? 5.853 5.069 -2.383 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 9
+ATOM 15457 C CA . LEU B 1 34 ? 4.724 4.154 -2.353 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 9
+ATOM 15458 C C . LEU B 1 34 ? 3.505 4.875 -1.775 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 9
+ATOM 15459 O O . LEU B 1 34 ? 3.459 5.165 -0.581 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 9
+ATOM 15460 C CB . LEU B 1 34 ? 5.093 2.872 -1.604 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 9
+ATOM 15461 C CG . LEU B 1 34 ? 4.168 1.674 -1.829 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 9
+ATOM 15462 C CD1 . LEU B 1 34 ? 2.699 2.090 -1.735 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 9
+ATOM 15463 C CD2 . LEU B 1 34 ? 4.484 0.979 -3.155 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 9
+ATOM 15464 H H . LEU B 1 34 ? 6.028 5.552 -1.526 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 9
+ATOM 15465 H HA . LEU B 1 34 ? 4.504 3.873 -3.383 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 9
+ATOM 15466 H HB2 . LEU B 1 34 ? 6.104 2.584 -1.892 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 9
+ATOM 15467 H HB3 . LEU B 1 34 ? 5.117 3.092 -0.537 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 9
+ATOM 15468 H HG . LEU B 1 34 ? 4.349 0.949 -1.035 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 9
+ATOM 15469 H HD11 . LEU B 1 34 ? 2.482 2.833 -2.503 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 9
+ATOM 15470 H HD12 . LEU B 1 34 ? 2.064 1.217 -1.884 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 9
+ATOM 15471 H HD13 . LEU B 1 34 ? 2.505 2.518 -0.751 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 9
+ATOM 15472 H HD21 . LEU B 1 34 ? 3.709 0.244 -3.373 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 9
+ATOM 15473 H HD22 . LEU B 1 34 ? 4.518 1.720 -3.954 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 9
+ATOM 15474 H HD23 . LEU B 1 34 ? 5.449 0.479 -3.082 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 9
+ATOM 15475 N N . MET B 1 35 ? 2.547 5.143 -2.650 1.00 0.00 ? ? ? ? ? ? 35 MET B N 9
+ATOM 15476 C CA . MET B 1 35 ? 1.330 5.825 -2.241 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 9
+ATOM 15477 C C . MET B 1 35 ? 0.098 5.175 -2.875 1.00 0.00 ? ? ? ? ? ? 35 MET B C 9
+ATOM 15478 O O . MET B 1 35 ? 0.093 4.880 -4.069 1.00 0.00 ? ? ? ? ? ? 35 MET B O 9
+ATOM 15479 C CB . MET B 1 35 ? 1.403 7.295 -2.659 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 9
+ATOM 15480 C CG . MET B 1 35 ? 2.455 8.046 -1.839 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 9
+ATOM 15481 S SD . MET B 1 35 ? 3.065 9.445 -2.765 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 9
+ATOM 15482 C CE . MET B 1 35 ? 1.713 10.586 -2.529 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 9
+ATOM 15483 H H . MET B 1 35 ? 2.592 4.904 -3.620 1.00 0.00 ? ? ? ? ? ? 35 MET B H 9
+ATOM 15484 H HA . MET B 1 35 ? 1.287 5.722 -1.157 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 9
+ATOM 15485 H HB2 . MET B 1 35 ? 1.646 7.364 -3.719 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 9
+ATOM 15486 H HB3 . MET B 1 35 ? 0.429 7.764 -2.523 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 9
+ATOM 15487 H HG2 . MET B 1 35 ? 2.022 8.383 -0.898 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 9
+ATOM 15488 H HG3 . MET B 1 35 ? 3.279 7.377 -1.589 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 9
+ATOM 15489 H HE1 . MET B 1 35 ? 1.360 10.523 -1.500 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 9
+ATOM 15490 H HE2 . MET B 1 35 ? 2.054 11.601 -2.735 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 9
+ATOM 15491 H HE3 . MET B 1 35 ? 0.900 10.331 -3.209 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 9
+ATOM 15492 N N . VAL B 1 36 ? -0.915 4.971 -2.046 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 9
+ATOM 15493 C CA . VAL B 1 36 ? -2.150 4.361 -2.511 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 9
+ATOM 15494 C C . VAL B 1 36 ? -3.339 5.193 -2.025 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 9
+ATOM 15495 O O . VAL B 1 36 ? -3.290 5.780 -0.945 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 9
+ATOM 15496 C CB . VAL B 1 36 ? -2.216 2.901 -2.056 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 9
+ATOM 15497 C CG1 . VAL B 1 36 ? -0.932 2.155 -2.421 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 9
+ATOM 15498 C CG2 . VAL B 1 36 ? -2.498 2.807 -0.555 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 9
+ATOM 15499 H H . VAL B 1 36 ? -0.903 5.213 -1.076 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 9
+ATOM 15500 H HA . VAL B 1 36 ? -2.134 4.374 -3.600 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 9
+ATOM 15501 H HB . VAL B 1 36 ? -3.042 2.424 -2.582 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 9
+ATOM 15502 H HG11 . VAL B 1 36 ? -0.320 2.781 -3.070 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 9
+ATOM 15503 H HG12 . VAL B 1 36 ? -0.376 1.922 -1.512 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 9
+ATOM 15504 H HG13 . VAL B 1 36 ? -1.184 1.230 -2.940 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 9
+ATOM 15505 H HG21 . VAL B 1 36 ? -3.095 1.918 -0.352 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 9
+ATOM 15506 H HG22 . VAL B 1 36 ? -1.555 2.744 -0.012 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 9
+ATOM 15507 H HG23 . VAL B 1 36 ? -3.045 3.693 -0.231 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 9
+ATOM 15508 N N . GLY B 1 37 ? -4.378 5.218 -2.847 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 9
+ATOM 15509 C CA . GLY B 1 37 ? -5.577 5.968 -2.515 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 9
+ATOM 15510 C C . GLY B 1 37 ? -6.834 5.221 -2.965 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 9
+ATOM 15511 O O . GLY B 1 37 ? -7.067 5.056 -4.161 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 9
+ATOM 15512 H H . GLY B 1 37 ? -4.409 4.738 -3.724 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 9
+ATOM 15513 H HA2 . GLY B 1 37 ? -5.617 6.139 -1.439 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 9
+ATOM 15514 H HA3 . GLY B 1 37 ? -5.541 6.947 -2.992 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 9
+ATOM 15515 N N . GLY B 1 38 ? -7.610 4.789 -1.982 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 9
+ATOM 15516 C CA . GLY B 1 38 ? -8.837 4.063 -2.262 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 9
+ATOM 15517 C C . GLY B 1 38 ? -10.062 4.864 -1.818 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 9
+ATOM 15518 O O . GLY B 1 38 ? -10.580 4.658 -0.721 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 9
+ATOM 15519 H H . GLY B 1 38 ? -7.413 4.927 -1.012 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 9
+ATOM 15520 H HA2 . GLY B 1 38 ? -8.904 3.852 -3.330 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 9
+ATOM 15521 H HA3 . GLY B 1 38 ? -8.821 3.102 -1.748 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 9
+ATOM 15522 N N . VAL B 1 39 ? -10.491 5.763 -2.692 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 9
+ATOM 15523 C CA . VAL B 1 39 ? -11.645 6.597 -2.404 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 9
+ATOM 15524 C C . VAL B 1 39 ? -12.881 6.003 -3.085 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 9
+ATOM 15525 O O . VAL B 1 39 ? -13.347 6.526 -4.096 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 9
+ATOM 15526 C CB . VAL B 1 39 ? -11.366 8.041 -2.825 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 9
+ATOM 15527 C CG1 . VAL B 1 39 ? -12.553 8.948 -2.493 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 9
+ATOM 15528 C CG2 . VAL B 1 39 ? -10.081 8.562 -2.180 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 9
+ATOM 15529 H H . VAL B 1 39 ? -10.065 5.925 -3.582 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 9
+ATOM 15530 H HA . VAL B 1 39 ? -11.799 6.583 -1.325 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 9
+ATOM 15531 H HB . VAL B 1 39 ? -11.227 8.054 -3.906 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 9
+ATOM 15532 H HG11 . VAL B 1 39 ? -13.475 8.367 -2.526 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 9
+ATOM 15533 H HG12 . VAL B 1 39 ? -12.423 9.366 -1.495 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 9
+ATOM 15534 H HG13 . VAL B 1 39 ? -12.607 9.757 -3.222 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 9
+ATOM 15535 H HG21 . VAL B 1 39 ? -9.984 9.630 -2.373 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 9
+ATOM 15536 H HG22 . VAL B 1 39 ? -10.119 8.389 -1.104 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 9
+ATOM 15537 H HG23 . VAL B 1 39 ? -9.224 8.036 -2.601 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 9
+ATOM 15538 N N . VAL B 1 40 ? -13.375 4.921 -2.503 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 9
+ATOM 15539 C CA . VAL B 1 40 ? -14.547 4.251 -3.041 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 9
+ATOM 15540 C C . VAL B 1 40 ? -15.787 4.700 -2.265 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 9
+ATOM 15541 O O . VAL B 1 40 ? -15.753 4.803 -1.040 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 9
+ATOM 15542 C CB . VAL B 1 40 ? -14.341 2.735 -3.014 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 9
+ATOM 15543 C CG1 . VAL B 1 40 ? -12.959 2.359 -3.551 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 9
+ATOM 15544 C CG2 . VAL B 1 40 ? -14.552 2.178 -1.604 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 9
+ATOM 15545 H H . VAL B 1 40 ? -12.989 4.502 -1.680 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 9
+ATOM 15546 H HA . VAL B 1 40 ? -14.653 4.559 -4.081 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 9
+ATOM 15547 H HB . VAL B 1 40 ? -15.089 2.284 -3.667 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 9
+ATOM 15548 H HG11 . VAL B 1 40 ? -12.201 2.602 -2.806 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 9
+ATOM 15549 H HG12 . VAL B 1 40 ? -12.930 1.290 -3.764 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 9
+ATOM 15550 H HG13 . VAL B 1 40 ? -12.761 2.917 -4.466 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 9
+ATOM 15551 H HG21 . VAL B 1 40 ? -14.605 1.090 -1.648 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 9
+ATOM 15552 H HG22 . VAL B 1 40 ? -13.718 2.475 -0.968 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 9
+ATOM 15553 H HG23 . VAL B 1 40 ? -15.481 2.571 -1.193 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 9
+ATOM 15554 N N . ILE B 1 41 ? -16.852 4.955 -3.010 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 9
+ATOM 15555 C CA . ILE B 1 41 ? -18.100 5.390 -2.408 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 9
+ATOM 15556 C C . ILE B 1 41 ? -19.240 4.499 -2.905 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 9
+ATOM 15557 O O . ILE B 1 41 ? -19.301 4.167 -4.088 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 9
+ATOM 15558 C CB . ILE B 1 41 ? -18.328 6.881 -2.665 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 9
+ATOM 15559 C CG1 . ILE B 1 41 ? -17.314 7.732 -1.897 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 9
+ATOM 15560 C CG2 . ILE B 1 41 ? -19.770 7.279 -2.344 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 9
+ATOM 15561 C CD1 . ILE B 1 41 ? -15.957 7.738 -2.603 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 9
+ATOM 15562 H H . ILE B 1 41 ? -16.871 4.868 -4.006 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 9
+ATOM 15563 H HA . ILE B 1 41 ? -18.005 5.260 -1.330 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 9
+ATOM 15564 H HB . ILE B 1 41 ? -18.170 7.073 -3.727 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 9
+ATOM 15565 H HG12 . ILE B 1 41 ? -17.685 8.752 -1.805 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 9
+ATOM 15566 H HG13 . ILE B 1 41 ? -17.199 7.342 -0.885 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 9
+ATOM 15567 H HG21 . ILE B 1 41 ? -20.263 6.463 -1.817 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 9
+ATOM 15568 H HG22 . ILE B 1 41 ? -19.769 8.170 -1.715 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 9
+ATOM 15569 H HG23 . ILE B 1 41 ? -20.304 7.489 -3.271 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 9
+ATOM 15570 H HD11 . ILE B 1 41 ? -16.070 7.341 -3.612 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 9
+ATOM 15571 H HD12 . ILE B 1 41 ? -15.579 8.759 -2.656 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 9
+ATOM 15572 H HD13 . ILE B 1 41 ? -15.254 7.119 -2.046 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 9
+ATOM 15573 N N . ALA B 1 42 ? -20.115 4.139 -1.978 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 9
+ATOM 15574 C CA . ALA B 1 42 ? -21.249 3.293 -2.308 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 9
+ATOM 15575 C C . ALA B 1 42 ? -22.545 4.070 -2.071 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 9
+ATOM 15576 O O . ALA B 1 42 ? -23.180 3.922 -1.028 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 9
+ATOM 15577 C CB . ALA B 1 42 ? -21.182 2.005 -1.484 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 9
+ATOM 15578 H H . ALA B 1 42 ? -20.057 4.414 -1.018 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 9
+ATOM 15579 H HA . ALA B 1 42 ? -21.176 3.037 -3.365 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 9
+ATOM 15580 H HB1 . ALA B 1 42 ? -20.399 1.360 -1.881 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 9
+ATOM 15581 H HB2 . ALA B 1 42 ? -20.960 2.249 -0.445 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 9
+ATOM 15582 H HB3 . ALA B 1 42 ? -22.141 1.489 -1.538 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 9
+ATOM 15583 N N . LEU C 1 17 ? -15.995 -4.947 -11.609 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 9
+ATOM 15584 C CA . LEU C 1 17 ? -14.714 -4.266 -11.693 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 9
+ATOM 15585 C C . LEU C 1 17 ? -13.598 -5.237 -11.301 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 9
+ATOM 15586 O O . LEU C 1 17 ? -13.607 -5.785 -10.200 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 9
+ATOM 15587 C CB . LEU C 1 17 ? -14.734 -2.983 -10.860 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 9
+ATOM 15588 C CG . LEU C 1 17 ? -15.097 -1.701 -11.612 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 9
+ATOM 15589 C CD1 . LEU C 1 17 ? -14.076 -1.402 -12.711 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 9
+ATOM 15590 C CD2 . LEU C 1 17 ? -16.524 -1.770 -12.158 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 9
+ATOM 15591 H H . LEU C 1 17 ? -16.675 -4.499 -11.030 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 9
+ATOM 15592 H HA . LEU C 1 17 ? -14.568 -3.973 -12.733 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 9
+ATOM 15593 H HB2 . LEU C 1 17 ? -15.444 -3.115 -10.043 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 9
+ATOM 15594 H HB3 . LEU C 1 17 ? -13.751 -2.851 -10.409 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 9
+ATOM 15595 H HG . LEU C 1 17 ? -15.062 -0.870 -10.907 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 9
+ATOM 15596 H HD11 . LEU C 1 17 ? -14.597 -1.232 -13.654 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 9
+ATOM 15597 H HD12 . LEU C 1 17 ? -13.505 -0.512 -12.446 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 9
+ATOM 15598 H HD13 . LEU C 1 17 ? -13.399 -2.250 -12.818 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 9
+ATOM 15599 H HD21 . LEU C 1 17 ? -16.529 -1.457 -13.202 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 9
+ATOM 15600 H HD22 . LEU C 1 17 ? -16.892 -2.794 -12.085 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 9
+ATOM 15601 H HD23 . LEU C 1 17 ? -17.168 -1.110 -11.577 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 9
+ATOM 15602 N N . VAL C 1 18 ? -12.665 -5.419 -12.223 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 9
+ATOM 15603 C CA . VAL C 1 18 ? -11.545 -6.313 -11.988 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 9
+ATOM 15604 C C . VAL C 1 18 ? -10.241 -5.597 -12.346 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 9
+ATOM 15605 O O . VAL C 1 18 ? -9.690 -5.807 -13.426 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 9
+ATOM 15606 C CB . VAL C 1 18 ? -11.744 -7.617 -12.764 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 9
+ATOM 15607 C CG1 . VAL C 1 18 ? -10.410 -8.334 -12.983 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 9
+ATOM 15608 C CG2 . VAL C 1 18 ? -12.747 -8.529 -12.055 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 9
+ATOM 15609 H H . VAL C 1 18 ? -12.665 -4.968 -13.116 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 9
+ATOM 15610 H HA . VAL C 1 18 ? -11.532 -6.552 -10.924 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 9
+ATOM 15611 H HB . VAL C 1 18 ? -12.153 -7.365 -13.742 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 9
+ATOM 15612 H HG11 . VAL C 1 18 ? -9.763 -8.168 -12.121 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 9
+ATOM 15613 H HG12 . VAL C 1 18 ? -10.587 -9.402 -13.104 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 9
+ATOM 15614 H HG13 . VAL C 1 18 ? -9.929 -7.941 -13.879 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 9
+ATOM 15615 H HG21 . VAL C 1 18 ? -13.235 -7.978 -11.252 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 9
+ATOM 15616 H HG22 . VAL C 1 18 ? -13.496 -8.869 -12.770 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 9
+ATOM 15617 H HG23 . VAL C 1 18 ? -12.224 -9.391 -11.640 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 9
+ATOM 15618 N N . PHE C 1 19 ? -9.785 -4.766 -11.420 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 9
+ATOM 15619 C CA . PHE C 1 19 ? -8.557 -4.018 -11.626 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 9
+ATOM 15620 C C . PHE C 1 19 ? -7.347 -4.797 -11.107 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 9
+ATOM 15621 O O . PHE C 1 19 ? -7.292 -5.155 -9.931 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 9
+ATOM 15622 C CB . PHE C 1 19 ? -8.689 -2.716 -10.832 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 9
+ATOM 15623 C CG . PHE C 1 19 ? -8.482 -1.453 -11.670 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 9
+ATOM 15624 C CD1 . PHE C 1 19 ? -7.233 -0.938 -11.827 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 9
+ATOM 15625 C CD2 . PHE C 1 19 ? -9.547 -0.845 -12.259 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 9
+ATOM 15626 C CE1 . PHE C 1 19 ? -7.041 0.235 -12.605 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 9
+ATOM 15627 C CE2 . PHE C 1 19 ? -9.355 0.327 -13.037 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 9
+ATOM 15628 C CZ . PHE C 1 19 ? -8.106 0.842 -13.193 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 9
+ATOM 15629 H H . PHE C 1 19 ? -10.240 -4.601 -10.545 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 9
+ATOM 15630 H HA . PHE C 1 19 ? -8.451 -3.858 -12.699 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 9
+ATOM 15631 H HB2 . PHE C 1 19 ? -9.678 -2.679 -10.376 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 9
+ATOM 15632 H HB3 . PHE C 1 19 ? -7.962 -2.723 -10.019 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 9
+ATOM 15633 H HD1 . PHE C 1 19 ? -6.379 -1.425 -11.356 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 9
+ATOM 15634 H HD2 . PHE C 1 19 ? -10.548 -1.258 -12.133 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 9
+ATOM 15635 H HE1 . PHE C 1 19 ? -6.040 0.648 -12.731 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 9
+ATOM 15636 H HE2 . PHE C 1 19 ? -10.209 0.814 -13.508 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 9
+ATOM 15637 H HZ . PHE C 1 19 ? -7.959 1.742 -13.790 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 9
+ATOM 15638 N N . PHE C 1 20 ? -6.407 -5.038 -12.009 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 9
+ATOM 15639 C CA . PHE C 1 20 ? -5.202 -5.769 -11.658 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 9
+ATOM 15640 C C . PHE C 1 20 ? -3.950 -4.988 -12.063 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 9
+ATOM 15641 O O . PHE C 1 20 ? -3.772 -4.657 -13.235 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 9
+ATOM 15642 C CB . PHE C 1 20 ? -5.237 -7.089 -12.430 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 9
+ATOM 15643 C CG . PHE C 1 20 ? -4.913 -8.317 -11.577 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 9
+ATOM 15644 C CD1 . PHE C 1 20 ? -3.619 -8.682 -11.375 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 9
+ATOM 15645 C CD2 . PHE C 1 20 ? -5.919 -9.044 -11.022 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 9
+ATOM 15646 C CE1 . PHE C 1 20 ? -3.318 -9.822 -10.584 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 9
+ATOM 15647 C CE2 . PHE C 1 20 ? -5.618 -10.184 -10.230 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 9
+ATOM 15648 C CZ . PHE C 1 20 ? -4.324 -10.549 -10.028 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 9
+ATOM 15649 H H . PHE C 1 20 ? -6.460 -4.744 -12.964 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 9
+ATOM 15650 H HA . PHE C 1 20 ? -5.209 -5.903 -10.576 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 9
+ATOM 15651 H HB2 . PHE C 1 20 ? -6.227 -7.215 -12.868 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 9
+ATOM 15652 H HB3 . PHE C 1 20 ? -4.528 -7.035 -13.255 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 9
+ATOM 15653 H HD1 . PHE C 1 20 ? -2.812 -8.099 -11.820 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 9
+ATOM 15654 H HD2 . PHE C 1 20 ? -6.957 -8.752 -11.184 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 9
+ATOM 15655 H HE1 . PHE C 1 20 ? -2.280 -10.115 -10.422 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 9
+ATOM 15656 H HE2 . PHE C 1 20 ? -6.425 -10.767 -9.785 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 9
+ATOM 15657 H HZ . PHE C 1 20 ? -4.093 -11.424 -9.421 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 9
+ATOM 15658 N N . ALA C 1 21 ? -3.113 -4.716 -11.072 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 9
+ATOM 15659 C CA . ALA C 1 21 ? -1.883 -3.981 -11.311 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 9
+ATOM 15660 C C . ALA C 1 21 ? -0.701 -4.781 -10.760 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 9
+ATOM 15661 O O . ALA C 1 21 ? -0.546 -4.909 -9.547 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 9
+ATOM 15662 C CB . ALA C 1 21 ? -1.990 -2.590 -10.683 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 9
+ATOM 15663 H H . ALA C 1 21 ? -3.265 -4.989 -10.122 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 9
+ATOM 15664 H HA . ALA C 1 21 ? -1.766 -3.872 -12.389 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 9
+ATOM 15665 H HB1 . ALA C 1 21 ? -1.032 -2.317 -10.239 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 9
+ATOM 15666 H HB2 . ALA C 1 21 ? -2.254 -1.864 -11.452 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 9
+ATOM 15667 H HB3 . ALA C 1 21 ? -2.759 -2.598 -9.911 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 9
+ATOM 15668 N N . GLU C 1 22 ? 0.102 -5.297 -11.678 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 9
+ATOM 15669 C CA . GLU C 1 22 ? 1.266 -6.081 -11.300 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 9
+ATOM 15670 C C . GLU C 1 22 ? 2.528 -5.501 -11.942 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 9
+ATOM 15671 O O . GLU C 1 22 ? 2.688 -5.551 -13.160 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 9
+ATOM 15672 C CB . GLU C 1 22 ? 1.083 -7.552 -11.679 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 9
+ATOM 15673 C CG . GLU C 1 22 ? 1.635 -8.472 -10.588 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 9
+ATOM 15674 C CD . GLU C 1 22 ? 1.116 -9.901 -10.762 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 9
+ATOM 15675 O OE1 . GLU C 1 22 ? 0.994 -10.322 -11.932 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 9
+ATOM 15676 O OE2 . GLU C 1 22 ? 0.854 -10.540 -9.720 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 9
+ATOM 15677 H H . GLU C 1 22 ? -0.031 -5.188 -12.663 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 9
+ATOM 15678 H HA . GLU C 1 22 ? 1.331 -5.997 -10.215 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 9
+ATOM 15679 H HB2 . GLU C 1 22 ? 0.026 -7.762 -11.837 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 9
+ATOM 15680 H HB3 . GLU C 1 22 ? 1.592 -7.754 -12.621 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 9
+ATOM 15681 H HG2 . GLU C 1 22 ? 2.724 -8.470 -10.622 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 9
+ATOM 15682 H HG3 . GLU C 1 22 ? 1.346 -8.093 -9.607 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 9
+ATOM 15683 N N . ASP C 1 23 ? 3.392 -4.965 -11.093 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 9
+ATOM 15684 C CA . ASP C 1 23 ? 4.635 -4.377 -11.562 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 9
+ATOM 15685 C C . ASP C 1 23 ? 5.789 -5.342 -11.282 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 9
+ATOM 15686 O O . ASP C 1 23 ? 6.290 -5.409 -10.161 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 9
+ATOM 15687 C CB . ASP C 1 23 ? 4.932 -3.063 -10.836 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 9
+ATOM 15688 C CG . ASP C 1 23 ? 6.121 -2.274 -11.386 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 9
+ATOM 15689 O OD1 . ASP C 1 23 ? 6.157 -2.089 -12.622 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 9
+ATOM 15690 O OD2 . ASP C 1 23 ? 6.968 -1.874 -10.559 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 9
+ATOM 15691 H H . ASP C 1 23 ? 3.255 -4.929 -10.103 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 9
+ATOM 15692 H HA . ASP C 1 23 ? 4.486 -4.203 -12.628 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 9
+ATOM 15693 H HB2 . ASP C 1 23 ? 4.044 -2.432 -10.882 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 9
+ATOM 15694 H HB3 . ASP C 1 23 ? 5.115 -3.280 -9.784 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 9
+ATOM 15695 N N . VAL C 1 24 ? 6.177 -6.067 -12.322 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 9
+ATOM 15696 C CA . VAL C 1 24 ? 7.263 -7.025 -12.202 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 9
+ATOM 15697 C C . VAL C 1 24 ? 8.580 -6.348 -12.583 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 9
+ATOM 15698 O O . VAL C 1 24 ? 8.949 -6.316 -13.756 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 9
+ATOM 15699 C CB . VAL C 1 24 ? 6.961 -8.265 -13.047 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 9
+ATOM 15700 C CG1 . VAL C 1 24 ? 8.090 -9.292 -12.936 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 9
+ATOM 15701 C CG2 . VAL C 1 24 ? 5.618 -8.883 -12.654 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 9
+ATOM 15702 H H . VAL C 1 24 ? 5.765 -6.006 -13.231 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 9
+ATOM 15703 H HA . VAL C 1 24 ? 7.316 -7.333 -11.158 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 9
+ATOM 15704 H HB . VAL C 1 24 ? 6.894 -7.952 -14.089 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 9
+ATOM 15705 H HG11 . VAL C 1 24 ? 8.508 -9.480 -13.924 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 9
+ATOM 15706 H HG12 . VAL C 1 24 ? 8.870 -8.905 -12.279 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 9
+ATOM 15707 H HG13 . VAL C 1 24 ? 7.697 -10.221 -12.524 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 9
+ATOM 15708 H HG21 . VAL C 1 24 ? 5.596 -9.928 -12.960 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 9
+ATOM 15709 H HG22 . VAL C 1 24 ? 5.490 -8.818 -11.573 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 9
+ATOM 15710 H HG23 . VAL C 1 24 ? 4.811 -8.342 -13.148 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 9
+ATOM 15711 N N . GLY C 1 25 ? 9.254 -5.822 -11.570 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 9
+ATOM 15712 C CA . GLY C 1 25 ? 10.522 -5.147 -11.785 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 9
+ATOM 15713 C C . GLY C 1 25 ? 11.662 -5.886 -11.080 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 9
+ATOM 15714 O O . GLY C 1 25 ? 11.543 -6.248 -9.911 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 9
+ATOM 15715 H H . GLY C 1 25 ? 8.947 -5.853 -10.619 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 9
+ATOM 15716 H HA2 . GLY C 1 25 ? 10.730 -5.086 -12.853 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 9
+ATOM 15717 H HA3 . GLY C 1 25 ? 10.462 -4.125 -11.413 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 9
+ATOM 15718 N N . SER C 1 26 ? 12.742 -6.086 -11.822 1.00 0.00 ? ? ? ? ? ? 26 SER C N 9
+ATOM 15719 C CA . SER C 1 26 ? 13.902 -6.775 -11.283 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 9
+ATOM 15720 C C . SER C 1 26 ? 15.052 -5.785 -11.084 1.00 0.00 ? ? ? ? ? ? 26 SER C C 9
+ATOM 15721 O O . SER C 1 26 ? 15.550 -5.205 -12.047 1.00 0.00 ? ? ? ? ? ? 26 SER C O 9
+ATOM 15722 C CB . SER C 1 26 ? 14.339 -7.919 -12.200 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 9
+ATOM 15723 O OG . SER C 1 26 ? 13.266 -8.811 -12.488 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 9
+ATOM 15724 H H . SER C 1 26 ? 12.831 -5.789 -12.772 1.00 0.00 ? ? ? ? ? ? 26 SER C H 9
+ATOM 15725 H HA . SER C 1 26 ? 13.578 -7.182 -10.325 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 9
+ATOM 15726 H HB2 . SER C 1 26 ? 14.730 -7.508 -13.131 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 9
+ATOM 15727 H HB3 . SER C 1 26 ? 15.153 -8.471 -11.729 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 9
+ATOM 15728 H HG . SER C 1 26 ? 12.672 -8.416 -13.189 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 9
+ATOM 15729 N N . ASN C 1 27 ? 15.440 -5.623 -9.827 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 9
+ATOM 15730 C CA . ASN C 1 27 ? 16.522 -4.714 -9.490 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 9
+ATOM 15731 C C . ASN C 1 27 ? 16.030 -3.271 -9.621 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 9
+ATOM 15732 O O . ASN C 1 27 ? 16.661 -2.454 -10.289 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 9
+ATOM 15733 C CB . ASN C 1 27 ? 17.710 -4.896 -10.436 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 9
+ATOM 15734 C CG . ASN C 1 27 ? 19.036 -4.753 -9.686 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 9
+ATOM 15735 O OD1 . ASN C 1 27 ? 19.095 -4.290 -8.559 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 9
+ATOM 15736 N ND2 . ASN C 1 27 ? 20.094 -5.175 -10.373 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 9
+ATOM 15737 H H . ASN C 1 27 ? 15.030 -6.099 -9.049 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 9
+ATOM 15738 H HA . ASN C 1 27 ? 16.802 -4.968 -8.467 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 9
+ATOM 15739 H HB2 . ASN C 1 27 ? 17.658 -5.878 -10.907 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 9
+ATOM 15740 H HB3 . ASN C 1 27 ? 17.659 -4.157 -11.236 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 9
+ATOM 15741 H HD21 . ASN C 1 27 ? 19.977 -5.545 -11.294 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 9
+ATOM 15742 H HD22 . ASN C 1 27 ? 21.007 -5.123 -9.967 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 9
+ATOM 15743 N N . LYS C 1 28 ? 14.907 -3.002 -8.971 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 9
+ATOM 15744 C CA . LYS C 1 28 ? 14.322 -1.672 -9.007 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 9
+ATOM 15745 C C . LYS C 1 28 ? 15.118 -0.745 -8.086 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 9
+ATOM 15746 O O . LYS C 1 28 ? 15.936 -1.206 -7.291 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 9
+ATOM 15747 C CB . LYS C 1 28 ? 12.830 -1.734 -8.676 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 9
+ATOM 15748 C CG . LYS C 1 28 ? 12.058 -0.642 -9.420 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 9
+ATOM 15749 C CD . LYS C 1 28 ? 10.564 -0.970 -9.479 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 9
+ATOM 15750 C CE . LYS C 1 28 ? 10.028 -1.332 -8.092 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 9
+ATOM 15751 N NZ . LYS C 1 28 ? 8.572 -1.593 -8.152 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 9
+ATOM 15752 H H . LYS C 1 28 ? 14.399 -3.672 -8.430 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 9
+ATOM 15753 H HA . LYS C 1 28 ? 14.411 -1.303 -10.029 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 9
+ATOM 15754 H HB2 . LYS C 1 28 ? 12.433 -2.713 -8.946 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 9
+ATOM 15755 H HB3 . LYS C 1 28 ? 12.687 -1.617 -7.602 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 9
+ATOM 15756 H HG2 . LYS C 1 28 ? 12.204 0.316 -8.922 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 9
+ATOM 15757 H HG3 . LYS C 1 28 ? 12.451 -0.539 -10.432 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 9
+ATOM 15758 H HD2 . LYS C 1 28 ? 10.016 -0.114 -9.873 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 9
+ATOM 15759 H HD3 . LYS C 1 28 ? 10.397 -1.799 -10.165 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 9
+ATOM 15760 H HE2 . LYS C 1 28 ? 10.546 -2.212 -7.714 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 9
+ATOM 15761 H HE3 . LYS C 1 28 ? 10.229 -0.519 -7.395 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 9
+ATOM 15762 H HZ1 . LYS C 1 28 ? 8.173 -1.462 -7.245 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 9
+ATOM 15763 H HZ2 . LYS C 1 28 ? 8.146 -0.960 -8.799 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 9
+ATOM 15764 H HZ3 . LYS C 1 28 ? 8.415 -2.534 -8.453 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 9
+ATOM 15765 N N . GLY C 1 29 ? 14.852 0.545 -8.224 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 9
+ATOM 15766 C CA . GLY C 1 29 ? 15.533 1.541 -7.415 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 9
+ATOM 15767 C C . GLY C 1 29 ? 15.438 2.927 -8.056 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 9
+ATOM 15768 O O . GLY C 1 29 ? 14.485 3.217 -8.777 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 9
+ATOM 15769 H H . GLY C 1 29 ? 14.185 0.912 -8.873 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 9
+ATOM 15770 H HA2 . GLY C 1 29 ? 15.094 1.567 -6.417 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 9
+ATOM 15771 H HA3 . GLY C 1 29 ? 16.580 1.263 -7.295 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 9
+ATOM 15772 N N . ALA C 1 30 ? 16.439 3.747 -7.769 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 9
+ATOM 15773 C CA . ALA C 1 30 ? 16.480 5.095 -8.308 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 9
+ATOM 15774 C C . ALA C 1 30 ? 15.291 5.892 -7.768 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 9
+ATOM 15775 O O . ALA C 1 30 ? 15.080 5.956 -6.558 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 9
+ATOM 15776 C CB . ALA C 1 30 ? 16.496 5.033 -9.837 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 9
+ATOM 15777 H H . ALA C 1 30 ? 17.210 3.503 -7.181 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 9
+ATOM 15778 H HA . ALA C 1 30 ? 17.405 5.561 -7.966 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 9
+ATOM 15779 H HB1 . ALA C 1 30 ? 15.515 4.723 -10.198 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 9
+ATOM 15780 H HB2 . ALA C 1 30 ? 16.735 6.018 -10.238 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 9
+ATOM 15781 H HB3 . ALA C 1 30 ? 17.247 4.315 -10.164 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 9
+ATOM 15782 N N . ILE C 1 31 ? 14.546 6.480 -8.692 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 9
+ATOM 15783 C CA . ILE C 1 31 ? 13.383 7.271 -8.325 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 9
+ATOM 15784 C C . ILE C 1 31 ? 12.126 6.624 -8.910 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 9
+ATOM 15785 O O . ILE C 1 31 ? 11.951 6.588 -10.127 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 9
+ATOM 15786 C CB . ILE C 1 31 ? 13.574 8.730 -8.741 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 9
+ATOM 15787 C CG1 . ILE C 1 31 ? 14.768 9.355 -8.017 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 9
+ATOM 15788 C CG2 . ILE C 1 31 ? 12.290 9.534 -8.528 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 9
+ATOM 15789 C CD1 . ILE C 1 31 ? 15.588 10.233 -8.966 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 9
+ATOM 15790 H H . ILE C 1 31 ? 14.724 6.423 -9.675 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 9
+ATOM 15791 H HA . ILE C 1 31 ? 13.307 7.253 -7.238 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 9
+ATOM 15792 H HB . ILE C 1 31 ? 13.796 8.755 -9.808 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 9
+ATOM 15793 H HG12 . ILE C 1 31 ? 14.416 9.953 -7.176 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 9
+ATOM 15794 H HG13 . ILE C 1 31 ? 15.401 8.569 -7.605 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 9
+ATOM 15795 H HG21 . ILE C 1 31 ? 11.439 8.854 -8.481 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 9
+ATOM 15796 H HG22 . ILE C 1 31 ? 12.361 10.092 -7.594 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 9
+ATOM 15797 H HG23 . ILE C 1 31 ? 12.154 10.228 -9.357 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 9
+ATOM 15798 H HD11 . ILE C 1 31 ? 16.427 10.669 -8.424 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 9
+ATOM 15799 H HD12 . ILE C 1 31 ? 15.963 9.625 -9.789 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 9
+ATOM 15800 H HD13 . ILE C 1 31 ? 14.956 11.029 -9.360 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 9
+ATOM 15801 N N . ILE C 1 32 ? 11.283 6.129 -8.016 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 9
+ATOM 15802 C CA . ILE C 1 32 ? 10.047 5.485 -8.428 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 9
+ATOM 15803 C C . ILE C 1 32 ? 8.866 6.171 -7.740 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 9
+ATOM 15804 O O . ILE C 1 32 ? 8.946 6.522 -6.563 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 9
+ATOM 15805 C CB . ILE C 1 32 ? 10.117 3.978 -8.174 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 9
+ATOM 15806 C CG1 . ILE C 1 32 ? 8.753 3.321 -8.396 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 9
+ATOM 15807 C CG2 . ILE C 1 32 ? 10.676 3.683 -6.780 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 9
+ATOM 15808 C CD1 . ILE C 1 32 ? 8.810 1.823 -8.089 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 9
+ATOM 15809 H H . ILE C 1 32 ? 11.433 6.163 -7.027 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 9
+ATOM 15810 H HA . ILE C 1 32 ? 9.949 5.626 -9.505 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 9
+ATOM 15811 H HB . ILE C 1 32 ? 10.807 3.542 -8.896 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 9
+ATOM 15812 H HG12 . ILE C 1 32 ? 8.008 3.798 -7.760 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 9
+ATOM 15813 H HG13 . ILE C 1 32 ? 8.436 3.473 -9.427 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 9
+ATOM 15814 H HG21 . ILE C 1 32 ? 11.572 4.281 -6.613 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 9
+ATOM 15815 H HG22 . ILE C 1 32 ? 9.927 3.933 -6.028 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 9
+ATOM 15816 H HG23 . ILE C 1 32 ? 10.926 2.625 -6.706 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 9
+ATOM 15817 H HD11 . ILE C 1 32 ? 8.156 1.286 -8.775 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 9
+ATOM 15818 H HD12 . ILE C 1 32 ? 9.833 1.466 -8.208 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 9
+ATOM 15819 H HD13 . ILE C 1 32 ? 8.483 1.650 -7.064 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 9
+ATOM 15820 N N . GLY C 1 33 ? 7.796 6.343 -8.502 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 9
+ATOM 15821 C CA . GLY C 1 33 ? 6.599 6.980 -7.980 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 9
+ATOM 15822 C C . GLY C 1 33 ? 5.387 6.054 -8.100 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 9
+ATOM 15823 O O . GLY C 1 33 ? 4.613 6.158 -9.050 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 9
+ATOM 15824 H H . GLY C 1 33 ? 7.739 6.055 -9.458 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 9
+ATOM 15825 H HA2 . GLY C 1 33 ? 6.753 7.251 -6.936 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 9
+ATOM 15826 H HA3 . GLY C 1 33 ? 6.409 7.905 -8.524 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 9
+ATOM 15827 N N . LEU C 1 34 ? 5.261 5.168 -7.122 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 9
+ATOM 15828 C CA . LEU C 1 34 ? 4.157 4.224 -7.106 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 9
+ATOM 15829 C C . LEU C 1 34 ? 2.919 4.904 -6.517 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 9
+ATOM 15830 O O . LEU C 1 34 ? 2.815 5.067 -5.302 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 9
+ATOM 15831 C CB . LEU C 1 34 ? 4.560 2.941 -6.376 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 9
+ATOM 15832 C CG . LEU C 1 34 ? 3.612 1.751 -6.537 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 9
+ATOM 15833 C CD1 . LEU C 1 34 ? 2.151 2.207 -6.514 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 9
+ATOM 15834 C CD2 . LEU C 1 34 ? 3.943 0.954 -7.800 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 9
+ATOM 15835 H H . LEU C 1 34 ? 5.896 5.090 -6.353 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 9
+ATOM 15836 H HA . LEU C 1 34 ? 3.943 3.953 -8.139 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 9
+ATOM 15837 H HB2 . LEU C 1 34 ? 5.548 2.643 -6.726 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 9
+ATOM 15838 H HB3 . LEU C 1 34 ? 4.652 3.165 -5.313 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 9
+ATOM 15839 H HG . LEU C 1 34 ? 3.754 1.083 -5.688 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 9
+ATOM 15840 H HD11 . LEU C 1 34 ? 1.963 2.868 -7.361 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 9
+ATOM 15841 H HD12 . LEU C 1 34 ? 1.498 1.337 -6.580 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 9
+ATOM 15842 H HD13 . LEU C 1 34 ? 1.952 2.742 -5.585 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 9
+ATOM 15843 H HD21 . LEU C 1 34 ? 4.122 -0.088 -7.535 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 9
+ATOM 15844 H HD22 . LEU C 1 34 ? 3.107 1.013 -8.497 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 9
+ATOM 15845 H HD23 . LEU C 1 34 ? 4.836 1.368 -8.268 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 9
+ATOM 15846 N N . MET C 1 35 ? 2.012 5.282 -7.405 1.00 0.00 ? ? ? ? ? ? 35 MET C N 9
+ATOM 15847 C CA . MET C 1 35 ? 0.785 5.940 -6.988 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 9
+ATOM 15848 C C . MET C 1 35 ? -0.441 5.229 -7.564 1.00 0.00 ? ? ? ? ? ? 35 MET C C 9
+ATOM 15849 O O . MET C 1 35 ? -0.608 5.158 -8.781 1.00 0.00 ? ? ? ? ? ? 35 MET C O 9
+ATOM 15850 C CB . MET C 1 35 ? 0.801 7.395 -7.461 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 9
+ATOM 15851 C CG . MET C 1 35 ? 1.846 8.209 -6.695 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 9
+ATOM 15852 S SD . MET C 1 35 ? 2.265 9.682 -7.613 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 9
+ATOM 15853 C CE . MET C 1 35 ? 1.923 10.924 -6.377 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 9
+ATOM 15854 H H . MET C 1 35 ? 2.104 5.145 -8.391 1.00 0.00 ? ? ? ? ? ? 35 MET C H 9
+ATOM 15855 H HA . MET C 1 35 ? 0.774 5.876 -5.900 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 9
+ATOM 15856 H HB2 . MET C 1 35 ? 1.016 7.432 -8.529 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 9
+ATOM 15857 H HB3 . MET C 1 35 ? -0.185 7.838 -7.319 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 9
+ATOM 15858 H HG2 . MET C 1 35 ? 1.460 8.480 -5.713 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 9
+ATOM 15859 H HG3 . MET C 1 35 ? 2.740 7.606 -6.532 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 9
+ATOM 15860 H HE1 . MET C 1 35 ? 0.966 11.398 -6.593 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 9
+ATOM 15861 H HE2 . MET C 1 35 ? 1.883 10.456 -5.393 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 9
+ATOM 15862 H HE3 . MET C 1 35 ? 2.712 11.676 -6.390 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 9
+ATOM 15863 N N . VAL C 1 36 ? -1.268 4.721 -6.663 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 9
+ATOM 15864 C CA . VAL C 1 36 ? -2.474 4.018 -7.066 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 9
+ATOM 15865 C C . VAL C 1 36 ? -3.698 4.764 -6.528 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 9
+ATOM 15866 O O . VAL C 1 36 ? -3.830 4.958 -5.321 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 9
+ATOM 15867 C CB . VAL C 1 36 ? -2.411 2.561 -6.602 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 9
+ATOM 15868 C CG1 . VAL C 1 36 ? -1.254 1.821 -7.276 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 9
+ATOM 15869 C CG2 . VAL C 1 36 ? -2.304 2.475 -5.078 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 9
+ATOM 15870 H H . VAL C 1 36 ? -1.125 4.783 -5.675 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 9
+ATOM 15871 H HA . VAL C 1 36 ? -2.510 4.024 -8.155 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 9
+ATOM 15872 H HB . VAL C 1 36 ? -3.339 2.074 -6.901 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 9
+ATOM 15873 H HG11 . VAL C 1 36 ? -0.598 1.401 -6.513 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 9
+ATOM 15874 H HG12 . VAL C 1 36 ? -1.649 1.018 -7.898 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 9
+ATOM 15875 H HG13 . VAL C 1 36 ? -0.689 2.518 -7.896 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 9
+ATOM 15876 H HG21 . VAL C 1 36 ? -1.374 2.940 -4.752 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 9
+ATOM 15877 H HG22 . VAL C 1 36 ? -3.148 2.995 -4.625 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 9
+ATOM 15878 H HG23 . VAL C 1 36 ? -2.315 1.429 -4.772 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 9
+ATOM 15879 N N . GLY C 1 37 ? -4.561 5.161 -7.451 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 9
+ATOM 15880 C CA . GLY C 1 37 ? -5.769 5.882 -7.086 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 9
+ATOM 15881 C C . GLY C 1 37 ? -7.018 5.109 -7.512 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 9
+ATOM 15882 O O . GLY C 1 37 ? -7.236 4.881 -8.702 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 9
+ATOM 15883 H H . GLY C 1 37 ? -4.446 5.000 -8.431 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 9
+ATOM 15884 H HA2 . GLY C 1 37 ? -5.787 6.044 -6.008 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 9
+ATOM 15885 H HA3 . GLY C 1 37 ? -5.766 6.865 -7.556 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 9
+ATOM 15886 N N . GLY C 1 38 ? -7.807 4.727 -6.519 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 9
+ATOM 15887 C CA . GLY C 1 38 ? -9.029 3.984 -6.776 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 9
+ATOM 15888 C C . GLY C 1 38 ? -10.257 4.775 -6.322 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 9
+ATOM 15889 O O . GLY C 1 38 ? -10.593 4.782 -5.139 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 9
+ATOM 15890 H H . GLY C 1 38 ? -7.623 4.915 -5.554 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 9
+ATOM 15891 H HA2 . GLY C 1 38 ? -9.107 3.764 -7.841 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 9
+ATOM 15892 H HA3 . GLY C 1 38 ? -8.995 3.028 -6.255 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 9
+ATOM 15893 N N . VAL C 1 39 ? -10.894 5.423 -7.287 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 9
+ATOM 15894 C CA . VAL C 1 39 ? -12.078 6.216 -7.000 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 9
+ATOM 15895 C C . VAL C 1 39 ? -13.319 5.465 -7.488 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 9
+ATOM 15896 O O . VAL C 1 39 ? -13.366 5.013 -8.631 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 9
+ATOM 15897 C CB . VAL C 1 39 ? -11.939 7.607 -7.621 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 9
+ATOM 15898 C CG1 . VAL C 1 39 ? -13.178 8.459 -7.341 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 9
+ATOM 15899 C CG2 . VAL C 1 39 ? -10.670 8.304 -7.126 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 9
+ATOM 15900 H H . VAL C 1 39 ? -10.614 5.413 -8.246 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 9
+ATOM 15901 H HA . VAL C 1 39 ? -12.141 6.334 -5.919 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 9
+ATOM 15902 H HB . VAL C 1 39 ? -11.853 7.485 -8.701 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 9
+ATOM 15903 H HG11 . VAL C 1 39 ? -13.571 8.215 -6.354 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 9
+ATOM 15904 H HG12 . VAL C 1 39 ? -12.908 9.515 -7.373 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 9
+ATOM 15905 H HG13 . VAL C 1 39 ? -13.938 8.255 -8.095 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 9
+ATOM 15906 H HG21 . VAL C 1 39 ? -10.389 7.899 -6.154 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 9
+ATOM 15907 H HG22 . VAL C 1 39 ? -9.861 8.136 -7.837 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 9
+ATOM 15908 H HG23 . VAL C 1 39 ? -10.856 9.374 -7.033 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 9
+ATOM 15909 N N . VAL C 1 40 ? -14.293 5.356 -6.596 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 9
+ATOM 15910 C CA . VAL C 1 40 ? -15.531 4.668 -6.921 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 9
+ATOM 15911 C C . VAL C 1 40 ? -16.716 5.494 -6.419 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 9
+ATOM 15912 O O . VAL C 1 40 ? -16.707 5.973 -5.286 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 9
+ATOM 15913 C CB . VAL C 1 40 ? -15.507 3.249 -6.350 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 9
+ATOM 15914 C CG1 . VAL C 1 40 ? -16.640 2.403 -6.933 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 9
+ATOM 15915 C CG2 . VAL C 1 40 ? -14.149 2.585 -6.588 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 9
+ATOM 15916 H H . VAL C 1 40 ? -14.246 5.726 -5.669 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 9
+ATOM 15917 H HA . VAL C 1 40 ? -15.590 4.593 -8.007 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 9
+ATOM 15918 H HB . VAL C 1 40 ? -15.661 3.318 -5.273 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 9
+ATOM 15919 H HG11 . VAL C 1 40 ? -17.184 2.987 -7.676 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 9
+ATOM 15920 H HG12 . VAL C 1 40 ? -16.224 1.512 -7.404 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 9
+ATOM 15921 H HG13 . VAL C 1 40 ? -17.321 2.108 -6.134 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 9
+ATOM 15922 H HG21 . VAL C 1 40 ? -13.353 3.287 -6.342 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 9
+ATOM 15923 H HG22 . VAL C 1 40 ? -14.061 1.700 -5.957 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 9
+ATOM 15924 H HG23 . VAL C 1 40 ? -14.065 2.293 -7.635 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 9
+ATOM 15925 N N . ILE C 1 41 ? -17.707 5.637 -7.286 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 9
+ATOM 15926 C CA . ILE C 1 41 ? -18.897 6.397 -6.944 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 9
+ATOM 15927 C C . ILE C 1 41 ? -20.140 5.601 -7.348 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 9
+ATOM 15928 O O . ILE C 1 41 ? -20.606 5.704 -8.481 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 9
+ATOM 15929 C CB . ILE C 1 41 ? -18.835 7.796 -7.562 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 9
+ATOM 15930 C CG1 . ILE C 1 41 ? -17.473 8.446 -7.311 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 9
+ATOM 15931 C CG2 . ILE C 1 41 ? -19.988 8.668 -7.062 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 9
+ATOM 15932 C CD1 . ILE C 1 41 ? -17.433 9.121 -5.939 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 9
+ATOM 15933 H H . ILE C 1 41 ? -17.707 5.244 -8.206 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 9
+ATOM 15934 H HA . ILE C 1 41 ? -18.904 6.524 -5.861 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 9
+ATOM 15935 H HB . ILE C 1 41 ? -18.951 7.697 -8.642 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 9
+ATOM 15936 H HG12 . ILE C 1 41 ? -16.689 7.692 -7.373 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 9
+ATOM 15937 H HG13 . ILE C 1 41 ? -17.270 9.182 -8.089 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 9
+ATOM 15938 H HG21 . ILE C 1 41 ? -20.297 8.329 -6.073 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 9
+ATOM 15939 H HG22 . ILE C 1 41 ? -19.660 9.706 -7.004 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 9
+ATOM 15940 H HG23 . ILE C 1 41 ? -20.829 8.590 -7.752 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 9
+ATOM 15941 H HD11 . ILE C 1 41 ? -16.396 9.290 -5.648 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 9
+ATOM 15942 H HD12 . ILE C 1 41 ? -17.957 10.075 -5.988 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 9
+ATOM 15943 H HD13 . ILE C 1 41 ? -17.916 8.478 -5.203 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 9
+ATOM 15944 N N . ALA C 1 42 ? -20.640 4.825 -6.398 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 9
+ATOM 15945 C CA . ALA C 1 42 ? -21.820 4.011 -6.640 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 9
+ATOM 15946 C C . ALA C 1 42 ? -23.055 4.739 -6.105 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 9
+ATOM 15947 O O . ALA C 1 42 ? -23.171 4.972 -4.903 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 9
+ATOM 15948 C CB . ALA C 1 42 ? -21.631 2.635 -5.999 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 9
+ATOM 15949 H H . ALA C 1 42 ? -20.255 4.747 -5.478 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 9
+ATOM 15950 H HA . ALA C 1 42 ? -21.920 3.886 -7.718 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 9
+ATOM 15951 H HB1 . ALA C 1 42 ? -22.465 2.429 -5.328 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 9
+ATOM 15952 H HB2 . ALA C 1 42 ? -21.595 1.873 -6.778 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 9
+ATOM 15953 H HB3 . ALA C 1 42 ? -20.699 2.622 -5.434 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 9
+ATOM 15954 N N . LEU D 1 17 ? -15.910 -5.572 -16.468 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 9
+ATOM 15955 C CA . LEU D 1 17 ? -14.802 -4.643 -16.324 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 9
+ATOM 15956 C C . LEU D 1 17 ? -13.610 -5.371 -15.698 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 9
+ATOM 15957 O O . LEU D 1 17 ? -13.689 -5.836 -14.562 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 9
+ATOM 15958 C CB . LEU D 1 17 ? -15.241 -3.401 -15.546 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 9
+ATOM 15959 C CG . LEU D 1 17 ? -15.854 -2.272 -16.376 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 9
+ATOM 15960 C CD1 . LEU D 1 17 ? -14.858 -1.750 -17.413 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 9
+ATOM 15961 C CD2 . LEU D 1 17 ? -17.170 -2.716 -17.019 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 9
+ATOM 15962 H H . LEU D 1 17 ? -16.418 -5.757 -15.627 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 9
+ATOM 15963 H HA . LEU D 1 17 ? -14.519 -4.314 -17.324 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 9
+ATOM 15964 H HB2 . LEU D 1 17 ? -15.967 -3.707 -14.792 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 9
+ATOM 15965 H HB3 . LEU D 1 17 ? -14.377 -3.006 -15.013 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 9
+ATOM 15966 H HG . LEU D 1 17 ? -16.087 -1.443 -15.707 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 9
+ATOM 15967 H HD11 . LEU D 1 17 ? -13.899 -1.558 -16.931 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 9
+ATOM 15968 H HD12 . LEU D 1 17 ? -14.726 -2.495 -18.198 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 9
+ATOM 15969 H HD13 . LEU D 1 17 ? -15.237 -0.826 -17.849 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 9
+ATOM 15970 H HD21 . LEU D 1 17 ? -17.988 -2.113 -16.626 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 9
+ATOM 15971 H HD22 . LEU D 1 17 ? -17.109 -2.585 -18.099 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 9
+ATOM 15972 H HD23 . LEU D 1 17 ? -17.350 -3.766 -16.789 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 9
+ATOM 15973 N N . VAL D 1 18 ? -12.533 -5.446 -16.467 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 9
+ATOM 15974 C CA . VAL D 1 18 ? -11.327 -6.109 -16.002 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 9
+ATOM 15975 C C . VAL D 1 18 ? -10.104 -5.411 -16.601 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 9
+ATOM 15976 O O . VAL D 1 18 ? -9.943 -5.369 -17.819 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 9
+ATOM 15977 C CB . VAL D 1 18 ? -11.387 -7.600 -16.337 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 9
+ATOM 15978 C CG1 . VAL D 1 18 ? -12.009 -7.828 -17.716 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 9
+ATOM 15979 C CG2 . VAL D 1 18 ? -9.999 -8.239 -16.249 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 9
+ATOM 15980 H H . VAL D 1 18 ? -12.477 -5.064 -17.389 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 9
+ATOM 15981 H HA . VAL D 1 18 ? -11.293 -6.007 -14.917 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 9
+ATOM 15982 H HB . VAL D 1 18 ? -12.026 -8.084 -15.598 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 9
+ATOM 15983 H HG11 . VAL D 1 18 ? -12.123 -6.871 -18.225 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 9
+ATOM 15984 H HG12 . VAL D 1 18 ? -11.360 -8.477 -18.305 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 9
+ATOM 15985 H HG13 . VAL D 1 18 ? -12.985 -8.298 -17.602 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 9
+ATOM 15986 H HG21 . VAL D 1 18 ? -10.059 -9.158 -15.667 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 9
+ATOM 15987 H HG22 . VAL D 1 18 ? -9.640 -8.466 -17.252 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 9
+ATOM 15988 H HG23 . VAL D 1 18 ? -9.311 -7.546 -15.764 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 9
+ATOM 15989 N N . PHE D 1 19 ? -9.273 -4.880 -15.715 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 9
+ATOM 15990 C CA . PHE D 1 19 ? -8.069 -4.186 -16.141 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 9
+ATOM 15991 C C . PHE D 1 19 ? -6.815 -4.947 -15.707 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 9
+ATOM 15992 O O . PHE D 1 19 ? -6.708 -5.370 -14.557 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 9
+ATOM 15993 C CB . PHE D 1 19 ? -8.080 -2.815 -15.463 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 9
+ATOM 15994 C CG . PHE D 1 19 ? -8.749 -1.716 -16.291 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 9
+ATOM 15995 C CD1 . PHE D 1 19 ? -10.050 -1.844 -16.666 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 9
+ATOM 15996 C CD2 . PHE D 1 19 ? -8.042 -0.612 -16.653 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 9
+ATOM 15997 C CE1 . PHE D 1 19 ? -10.671 -0.824 -17.435 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 9
+ATOM 15998 C CE2 . PHE D 1 19 ? -8.663 0.408 -17.421 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 9
+ATOM 15999 C CZ . PHE D 1 19 ? -9.964 0.280 -17.796 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 9
+ATOM 16000 H H . PHE D 1 19 ? -9.411 -4.919 -14.726 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 9
+ATOM 16001 H HA . PHE D 1 19 ? -8.098 -4.127 -17.229 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 9
+ATOM 16002 H HB2 . PHE D 1 19 ? -8.595 -2.898 -14.506 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 9
+ATOM 16003 H HB3 . PHE D 1 19 ? -7.053 -2.519 -15.247 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 9
+ATOM 16004 H HD1 . PHE D 1 19 ? -10.616 -2.729 -16.376 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 9
+ATOM 16005 H HD2 . PHE D 1 19 ? -7.000 -0.509 -16.352 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 9
+ATOM 16006 H HE1 . PHE D 1 19 ? -11.714 -0.926 -17.735 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 9
+ATOM 16007 H HE2 . PHE D 1 19 ? -8.097 1.293 -17.711 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 9
+ATOM 16008 H HZ . PHE D 1 19 ? -10.441 1.063 -18.386 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 9
+ATOM 16009 N N . PHE D 1 20 ? -5.897 -5.098 -16.650 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 9
+ATOM 16010 C CA . PHE D 1 20 ? -4.654 -5.800 -16.379 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 9
+ATOM 16011 C C . PHE D 1 20 ? -3.445 -4.941 -16.755 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 9
+ATOM 16012 O O . PHE D 1 20 ? -3.278 -4.572 -17.916 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 9
+ATOM 16013 C CB . PHE D 1 20 ? -4.656 -7.062 -17.244 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 9
+ATOM 16014 C CG . PHE D 1 20 ? -4.457 -8.358 -16.455 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 9
+ATOM 16015 C CD1 . PHE D 1 20 ? -5.532 -9.012 -15.939 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 9
+ATOM 16016 C CD2 . PHE D 1 20 ? -3.205 -8.855 -16.269 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 9
+ATOM 16017 C CE1 . PHE D 1 20 ? -5.348 -10.214 -15.206 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 9
+ATOM 16018 C CE2 . PHE D 1 20 ? -3.020 -10.058 -15.536 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 9
+ATOM 16019 C CZ . PHE D 1 20 ? -4.096 -10.712 -15.021 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 9
+ATOM 16020 H H . PHE D 1 20 ? -5.991 -4.750 -17.583 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 9
+ATOM 16021 H HA . PHE D 1 20 ? -4.629 -6.012 -15.310 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 9
+ATOM 16022 H HB2 . PHE D 1 20 ? -5.601 -7.119 -17.784 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 9
+ATOM 16023 H HB3 . PHE D 1 20 ? -3.867 -6.979 -17.991 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 9
+ATOM 16024 H HD1 . PHE D 1 20 ? -6.536 -8.613 -16.088 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 9
+ATOM 16025 H HD2 . PHE D 1 20 ? -2.343 -8.331 -16.682 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 9
+ATOM 16026 H HE1 . PHE D 1 20 ? -6.209 -10.738 -14.793 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 9
+ATOM 16027 H HE2 . PHE D 1 20 ? -2.017 -10.457 -15.387 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 9
+ATOM 16028 H HZ . PHE D 1 20 ? -3.954 -11.635 -14.458 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 9
+ATOM 16029 N N . ALA D 1 21 ? -2.634 -4.646 -15.750 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 9
+ATOM 16030 C CA . ALA D 1 21 ? -1.445 -3.837 -15.960 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 9
+ATOM 16031 C C . ALA D 1 21 ? -0.213 -4.617 -15.498 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 9
+ATOM 16032 O O . ALA D 1 21 ? 0.242 -4.452 -14.367 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 9
+ATOM 16033 C CB . ALA D 1 21 ? -1.600 -2.503 -15.227 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 9
+ATOM 16034 H H . ALA D 1 21 ? -2.777 -4.950 -14.808 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 9
+ATOM 16035 H HA . ALA D 1 21 ? -1.361 -3.642 -17.029 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 9
+ATOM 16036 H HB1 . ALA D 1 21 ? -2.622 -2.404 -14.864 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 9
+ATOM 16037 H HB2 . ALA D 1 21 ? -0.910 -2.470 -14.384 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 9
+ATOM 16038 H HB3 . ALA D 1 21 ? -1.376 -1.684 -15.911 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 9
+ATOM 16039 N N . GLU D 1 22 ? 0.291 -5.451 -16.395 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 9
+ATOM 16040 C CA . GLU D 1 22 ? 1.461 -6.258 -16.093 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 9
+ATOM 16041 C C . GLU D 1 22 ? 2.708 -5.647 -16.737 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 9
+ATOM 16042 O O . GLU D 1 22 ? 2.762 -5.478 -17.954 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 9
+ATOM 16043 C CB . GLU D 1 22 ? 1.262 -7.705 -16.548 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 9
+ATOM 16044 C CG . GLU D 1 22 ? 0.782 -8.582 -15.391 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 9
+ATOM 16045 C CD . GLU D 1 22 ? 0.872 -10.066 -15.754 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 9
+ATOM 16046 O OE1 . GLU D 1 22 ? 0.103 -10.479 -16.649 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 9
+ATOM 16047 O OE2 . GLU D 1 22 ? 1.707 -10.754 -15.128 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 9
+ATOM 16048 H H . GLU D 1 22 ? -0.085 -5.579 -17.313 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 9
+ATOM 16049 H HA . GLU D 1 22 ? 1.557 -6.234 -15.008 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 9
+ATOM 16050 H HB2 . GLU D 1 22 ? 0.536 -7.738 -17.360 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 9
+ATOM 16051 H HB3 . GLU D 1 22 ? 2.199 -8.098 -16.943 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 9
+ATOM 16052 H HG2 . GLU D 1 22 ? 1.384 -8.384 -14.505 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 9
+ATOM 16053 H HG3 . GLU D 1 22 ? -0.248 -8.327 -15.140 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 9
+ATOM 16054 N N . ASP D 1 23 ? 3.678 -5.332 -15.891 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 9
+ATOM 16055 C CA . ASP D 1 23 ? 4.920 -4.743 -16.363 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 9
+ATOM 16056 C C . ASP D 1 23 ? 6.087 -5.659 -15.989 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 9
+ATOM 16057 O O . ASP D 1 23 ? 6.295 -5.956 -14.813 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 9
+ATOM 16058 C CB . ASP D 1 23 ? 5.163 -3.378 -15.716 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 9
+ATOM 16059 C CG . ASP D 1 23 ? 6.255 -2.535 -16.377 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 9
+ATOM 16060 O OD1 . ASP D 1 23 ? 6.070 -2.198 -17.566 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 9
+ATOM 16061 O OD2 . ASP D 1 23 ? 7.250 -2.246 -15.677 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 9
+ATOM 16062 H H . ASP D 1 23 ? 3.625 -5.472 -14.903 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 9
+ATOM 16063 H HA . ASP D 1 23 ? 4.798 -4.643 -17.441 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 9
+ATOM 16064 H HB2 . ASP D 1 23 ? 4.230 -2.815 -15.730 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 9
+ATOM 16065 H HB3 . ASP D 1 23 ? 5.426 -3.531 -14.669 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 9
+ATOM 16066 N N . VAL D 1 24 ? 6.818 -6.080 -17.010 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 9
+ATOM 16067 C CA . VAL D 1 24 ? 7.959 -6.956 -16.803 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 9
+ATOM 16068 C C . VAL D 1 24 ? 9.239 -6.224 -17.214 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 9
+ATOM 16069 O O . VAL D 1 24 ? 9.736 -6.412 -18.323 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 9
+ATOM 16070 C CB . VAL D 1 24 ? 7.753 -8.270 -17.558 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 9
+ATOM 16071 C CG1 . VAL D 1 24 ? 9.091 -8.963 -17.827 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 9
+ATOM 16072 C CG2 . VAL D 1 24 ? 6.799 -9.195 -16.800 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 9
+ATOM 16073 H H . VAL D 1 24 ? 6.642 -5.834 -17.963 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 9
+ATOM 16074 H HA . VAL D 1 24 ? 8.011 -7.183 -15.738 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 9
+ATOM 16075 H HB . VAL D 1 24 ? 7.298 -8.036 -18.521 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 9
+ATOM 16076 H HG11 . VAL D 1 24 ? 9.534 -8.557 -18.736 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 9
+ATOM 16077 H HG12 . VAL D 1 24 ? 9.764 -8.793 -16.987 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 9
+ATOM 16078 H HG13 . VAL D 1 24 ? 8.927 -10.034 -17.950 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 9
+ATOM 16079 H HG21 . VAL D 1 24 ? 7.221 -9.430 -15.822 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 9
+ATOM 16080 H HG22 . VAL D 1 24 ? 5.838 -8.698 -16.671 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 9
+ATOM 16081 H HG23 . VAL D 1 24 ? 6.659 -10.116 -17.366 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 9
+ATOM 16082 N N . GLY D 1 25 ? 9.735 -5.406 -16.297 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 9
+ATOM 16083 C CA . GLY D 1 25 ? 10.947 -4.646 -16.549 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 9
+ATOM 16084 C C . GLY D 1 25 ? 12.133 -5.235 -15.783 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 9
+ATOM 16085 O O . GLY D 1 25 ? 12.101 -5.325 -14.557 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 9
+ATOM 16086 H H . GLY D 1 25 ? 9.323 -5.260 -15.397 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 9
+ATOM 16087 H HA2 . GLY D 1 25 ? 11.164 -4.645 -17.618 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 9
+ATOM 16088 H HA3 . GLY D 1 25 ? 10.797 -3.608 -16.254 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 9
+ATOM 16089 N N . SER D 1 26 ? 13.151 -5.620 -16.537 1.00 0.00 ? ? ? ? ? ? 26 SER D N 9
+ATOM 16090 C CA . SER D 1 26 ? 14.346 -6.197 -15.944 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 9
+ATOM 16091 C C . SER D 1 26 ? 15.415 -5.118 -15.766 1.00 0.00 ? ? ? ? ? ? 26 SER D C 9
+ATOM 16092 O O . SER D 1 26 ? 15.908 -4.559 -16.745 1.00 0.00 ? ? ? ? ? ? 26 SER D O 9
+ATOM 16093 C CB . SER D 1 26 ? 14.887 -7.344 -16.801 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 9
+ATOM 16094 O OG . SER D 1 26 ? 13.978 -8.440 -16.860 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 9
+ATOM 16095 H H . SER D 1 26 ? 13.169 -5.543 -17.534 1.00 0.00 ? ? ? ? ? ? 26 SER D H 9
+ATOM 16096 H HA . SER D 1 26 ? 14.029 -6.586 -14.977 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 9
+ATOM 16097 H HB2 . SER D 1 26 ? 15.084 -6.982 -17.810 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 9
+ATOM 16098 H HB3 . SER D 1 26 ? 15.838 -7.684 -16.392 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 9
+ATOM 16099 H HG . SER D 1 26 ? 13.041 -8.103 -16.955 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 9
+ATOM 16100 N N . ASN D 1 27 ? 15.744 -4.858 -14.509 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 9
+ATOM 16101 C CA . ASN D 1 27 ? 16.746 -3.855 -14.190 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 9
+ATOM 16102 C C . ASN D 1 27 ? 16.121 -2.463 -14.298 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 9
+ATOM 16103 O O . ASN D 1 27 ? 16.405 -1.723 -15.239 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 9
+ATOM 16104 C CB . ASN D 1 27 ? 17.923 -3.923 -15.165 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 9
+ATOM 16105 C CG . ASN D 1 27 ? 19.246 -3.643 -14.449 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 9
+ATOM 16106 O OD1 . ASN D 1 27 ? 19.405 -2.658 -13.747 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 9
+ATOM 16107 N ND2 . ASN D 1 27 ? 20.182 -4.562 -14.664 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 9
+ATOM 16108 H H . ASN D 1 27 ? 15.339 -5.317 -13.719 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 9
+ATOM 16109 H HA . ASN D 1 27 ? 17.072 -4.089 -13.176 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 9
+ATOM 16110 H HB2 . ASN D 1 27 ? 17.958 -4.908 -15.630 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 9
+ATOM 16111 H HB3 . ASN D 1 27 ? 17.778 -3.197 -15.966 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 9
+ATOM 16112 H HD21 . ASN D 1 27 ? 19.987 -5.348 -15.252 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 9
+ATOM 16113 H HD22 . ASN D 1 27 ? 21.083 -4.468 -14.239 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 9
+ATOM 16114 N N . LYS D 1 28 ? 15.282 -2.148 -13.322 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 9
+ATOM 16115 C CA . LYS D 1 28 ? 14.615 -0.857 -13.296 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 9
+ATOM 16116 C C . LYS D 1 28 ? 15.482 0.145 -12.532 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 9
+ATOM 16117 O O . LYS D 1 28 ? 16.246 -0.238 -11.647 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 9
+ATOM 16118 C CB . LYS D 1 28 ? 13.198 -0.998 -12.736 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 9
+ATOM 16119 C CG . LYS D 1 28 ? 12.221 -1.446 -13.825 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 9
+ATOM 16120 C CD . LYS D 1 28 ? 10.987 -2.112 -13.213 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 9
+ATOM 16121 C CE . LYS D 1 28 ? 9.803 -1.144 -13.172 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 9
+ATOM 16122 N NZ . LYS D 1 28 ? 8.661 -1.750 -12.453 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 9
+ATOM 16123 H H . LYS D 1 28 ? 15.057 -2.756 -12.561 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 9
+ATOM 16124 H HA . LYS D 1 28 ? 14.522 -0.517 -14.328 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 9
+ATOM 16125 H HB2 . LYS D 1 28 ? 13.196 -1.721 -11.920 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 9
+ATOM 16126 H HB3 . LYS D 1 28 ? 12.872 -0.045 -12.319 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 9
+ATOM 16127 H HG2 . LYS D 1 28 ? 11.916 -0.586 -14.421 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 9
+ATOM 16128 H HG3 . LYS D 1 28 ? 12.717 -2.142 -14.500 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 9
+ATOM 16129 H HD2 . LYS D 1 28 ? 10.720 -2.995 -13.794 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 9
+ATOM 16130 H HD3 . LYS D 1 28 ? 11.216 -2.454 -12.203 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 9
+ATOM 16131 H HE2 . LYS D 1 28 ? 10.100 -0.217 -12.681 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 9
+ATOM 16132 H HE3 . LYS D 1 28 ? 9.504 -0.883 -14.188 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 9
+ATOM 16133 H HZ1 . LYS D 1 28 ? 8.506 -1.256 -11.597 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 9
+ATOM 16134 H HZ2 . LYS D 1 28 ? 7.841 -1.696 -13.022 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 9
+ATOM 16135 H HZ3 . LYS D 1 28 ? 8.865 -2.708 -12.252 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 9
+ATOM 16136 N N . GLY D 1 29 ? 15.334 1.409 -12.900 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 9
+ATOM 16137 C CA . GLY D 1 29 ? 16.094 2.469 -12.260 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 9
+ATOM 16138 C C . GLY D 1 29 ? 15.782 3.826 -12.893 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 9
+ATOM 16139 O O . GLY D 1 29 ? 14.753 3.988 -13.547 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 9
+ATOM 16140 H H . GLY D 1 29 ? 14.710 1.712 -13.621 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 9
+ATOM 16141 H HA2 . GLY D 1 29 ? 15.861 2.497 -11.196 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 9
+ATOM 16142 H HA3 . GLY D 1 29 ? 17.161 2.260 -12.347 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 9
+ATOM 16143 N N . ALA D 1 30 ? 16.688 4.768 -12.674 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 9
+ATOM 16144 C CA . ALA D 1 30 ? 16.522 6.106 -13.215 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 9
+ATOM 16145 C C . ALA D 1 30 ? 15.273 6.746 -12.606 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 9
+ATOM 16146 O O . ALA D 1 30 ? 15.273 7.125 -11.436 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 9
+ATOM 16147 C CB . ALA D 1 30 ? 16.456 6.036 -14.742 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 9
+ATOM 16148 H H . ALA D 1 30 ? 17.522 4.628 -12.141 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 9
+ATOM 16149 H HA . ALA D 1 30 ? 17.397 6.691 -12.928 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 9
+ATOM 16150 H HB1 . ALA D 1 30 ? 16.102 6.989 -15.135 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 9
+ATOM 16151 H HB2 . ALA D 1 30 ? 17.449 5.826 -15.139 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 9
+ATOM 16152 H HB3 . ALA D 1 30 ? 15.771 5.242 -15.040 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 9
+ATOM 16153 N N . ILE D 1 31 ? 14.239 6.847 -13.428 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 9
+ATOM 16154 C CA . ILE D 1 31 ? 12.986 7.435 -12.985 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 9
+ATOM 16155 C C . ILE D 1 31 ? 11.831 6.500 -13.351 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 9
+ATOM 16156 O O . ILE D 1 31 ? 11.588 6.240 -14.529 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 9
+ATOM 16157 C CB . ILE D 1 31 ? 12.831 8.851 -13.543 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 9
+ATOM 16158 C CG1 . ILE D 1 31 ? 13.767 9.827 -12.828 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 9
+ATOM 16159 C CG2 . ILE D 1 31 ? 11.372 9.307 -13.484 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 9
+ATOM 16160 C CD1 . ILE D 1 31 ? 13.895 11.136 -13.609 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 9
+ATOM 16161 H H . ILE D 1 31 ? 14.247 6.537 -14.378 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 9
+ATOM 16162 H HA . ILE D 1 31 ? 13.030 7.519 -11.899 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 9
+ATOM 16163 H HB . ILE D 1 31 ? 13.122 8.837 -14.594 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 9
+ATOM 16164 H HG12 . ILE D 1 31 ? 13.386 10.033 -11.827 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 9
+ATOM 16165 H HG13 . ILE D 1 31 ? 14.750 9.373 -12.708 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 9
+ATOM 16166 H HG21 . ILE D 1 31 ? 11.046 9.349 -12.445 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 9
+ATOM 16167 H HG22 . ILE D 1 31 ? 11.282 10.296 -13.933 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 9
+ATOM 16168 H HG23 . ILE D 1 31 ? 10.748 8.601 -14.033 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 9
+ATOM 16169 H HD11 . ILE D 1 31 ? 14.940 11.302 -13.870 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 9
+ATOM 16170 H HD12 . ILE D 1 31 ? 13.298 11.076 -14.520 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 9
+ATOM 16171 H HD13 . ILE D 1 31 ? 13.538 11.963 -12.995 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 9
+ATOM 16172 N N . ILE D 1 32 ? 11.151 6.020 -12.321 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 9
+ATOM 16173 C CA . ILE D 1 32 ? 10.028 5.119 -12.520 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 9
+ATOM 16174 C C . ILE D 1 32 ? 8.736 5.820 -12.093 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 9
+ATOM 16175 O O . ILE D 1 32 ? 8.712 6.524 -11.084 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 9
+ATOM 16176 C CB . ILE D 1 32 ? 10.273 3.790 -11.803 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 9
+ATOM 16177 C CG1 . ILE D 1 32 ? 11.374 2.987 -12.498 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 9
+ATOM 16178 C CG2 . ILE D 1 32 ? 8.976 2.990 -11.672 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 9
+ATOM 16179 C CD1 . ILE D 1 32 ? 12.436 2.531 -11.496 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 9
+ATOM 16180 H H . ILE D 1 32 ? 11.355 6.236 -11.366 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 9
+ATOM 16181 H HA . ILE D 1 32 ? 9.967 4.903 -13.587 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 9
+ATOM 16182 H HB . ILE D 1 32 ? 10.621 4.007 -10.793 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 9
+ATOM 16183 H HG12 . ILE D 1 32 ? 10.938 2.119 -12.992 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 9
+ATOM 16184 H HG13 . ILE D 1 32 ? 11.838 3.596 -13.274 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 9
+ATOM 16185 H HG21 . ILE D 1 32 ? 9.101 2.216 -10.915 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 9
+ATOM 16186 H HG22 . ILE D 1 32 ? 8.165 3.658 -11.377 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 9
+ATOM 16187 H HG23 . ILE D 1 32 ? 8.735 2.528 -12.629 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 9
+ATOM 16188 H HD11 . ILE D 1 32 ? 11.962 1.960 -10.698 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 9
+ATOM 16189 H HD12 . ILE D 1 32 ? 13.170 1.905 -12.004 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 9
+ATOM 16190 H HD13 . ILE D 1 32 ? 12.934 3.403 -11.072 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 9
+ATOM 16191 N N . GLY D 1 33 ? 7.694 5.602 -12.881 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 9
+ATOM 16192 C CA . GLY D 1 33 ? 6.402 6.203 -12.597 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 9
+ATOM 16193 C C . GLY D 1 33 ? 5.274 5.182 -12.759 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 9
+ATOM 16194 O O . GLY D 1 33 ? 4.986 4.741 -13.870 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 9
+ATOM 16195 H H . GLY D 1 33 ? 7.722 5.028 -13.699 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 9
+ATOM 16196 H HA2 . GLY D 1 33 ? 6.397 6.599 -11.581 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 9
+ATOM 16197 H HA3 . GLY D 1 33 ? 6.234 7.046 -13.268 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 9
+ATOM 16198 N N . LEU D 1 34 ? 4.667 4.836 -11.633 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 9
+ATOM 16199 C CA . LEU D 1 34 ? 3.577 3.874 -11.636 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 9
+ATOM 16200 C C . LEU D 1 34 ? 2.303 4.553 -11.130 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 9
+ATOM 16201 O O . LEU D 1 34 ? 1.927 4.389 -9.970 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 9
+ATOM 16202 C CB . LEU D 1 34 ? 3.964 2.624 -10.845 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 9
+ATOM 16203 C CG . LEU D 1 34 ? 3.375 1.304 -11.346 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 9
+ATOM 16204 C CD1 . LEU D 1 34 ? 1.848 1.312 -11.248 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 9
+ATOM 16205 C CD2 . LEU D 1 34 ? 3.856 0.992 -12.765 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 9
+ATOM 16206 H H . LEU D 1 34 ? 4.908 5.199 -10.733 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 9
+ATOM 16207 H HA . LEU D 1 34 ? 3.417 3.565 -12.669 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 9
+ATOM 16208 H HB2 . LEU D 1 34 ? 5.051 2.538 -10.847 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 9
+ATOM 16209 H HB3 . LEU D 1 34 ? 3.658 2.765 -9.808 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 9
+ATOM 16210 H HG . LEU D 1 34 ? 3.734 0.502 -10.701 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 9
+ATOM 16211 H HD11 . LEU D 1 34 ? 1.521 2.229 -10.757 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 9
+ATOM 16212 H HD12 . LEU D 1 34 ? 1.419 1.263 -12.249 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 9
+ATOM 16213 H HD13 . LEU D 1 34 ? 1.517 0.451 -10.668 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 9
+ATOM 16214 H HD21 . LEU D 1 34 ? 3.265 1.561 -13.482 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 9
+ATOM 16215 H HD22 . LEU D 1 34 ? 4.907 1.267 -12.861 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 9
+ATOM 16216 H HD23 . LEU D 1 34 ? 3.740 -0.073 -12.963 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 9
+ATOM 16217 N N . MET D 1 35 ? 1.674 5.301 -12.024 1.00 0.00 ? ? ? ? ? ? 35 MET D N 9
+ATOM 16218 C CA . MET D 1 35 ? 0.449 6.005 -11.683 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 9
+ATOM 16219 C C . MET D 1 35 ? -0.770 5.314 -12.295 1.00 0.00 ? ? ? ? ? ? 35 MET D C 9
+ATOM 16220 O O . MET D 1 35 ? -1.099 5.543 -13.458 1.00 0.00 ? ? ? ? ? ? 35 MET D O 9
+ATOM 16221 C CB . MET D 1 35 ? 0.530 7.446 -12.192 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 9
+ATOM 16222 C CG . MET D 1 35 ? 1.409 8.302 -11.279 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 9
+ATOM 16223 S SD . MET D 1 35 ? 2.253 9.548 -12.238 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 9
+ATOM 16224 C CE . MET D 1 35 ? 1.613 11.023 -11.462 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 9
+ATOM 16225 H H . MET D 1 35 ? 1.986 5.429 -12.966 1.00 0.00 ? ? ? ? ? ? 35 MET D H 9
+ATOM 16226 H HA . MET D 1 35 ? 0.387 5.972 -10.595 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 9
+ATOM 16227 H HB2 . MET D 1 35 ? 0.933 7.455 -13.205 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 9
+ATOM 16228 H HB3 . MET D 1 35 ? -0.472 7.873 -12.244 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 9
+ATOM 16229 H HG2 . MET D 1 35 ? 0.797 8.775 -10.511 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 9
+ATOM 16230 H HG3 . MET D 1 35 ? 2.135 7.673 -10.765 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 9
+ATOM 16231 H HE1 . MET D 1 35 ? 0.688 11.321 -11.956 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 9
+ATOM 16232 H HE2 . MET D 1 35 ? 1.415 10.823 -10.409 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 9
+ATOM 16233 H HE3 . MET D 1 35 ? 2.345 11.826 -11.549 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 9
+ATOM 16234 N N . VAL D 1 36 ? -1.407 4.481 -11.485 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 9
+ATOM 16235 C CA . VAL D 1 36 ? -2.583 3.754 -11.933 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 9
+ATOM 16236 C C . VAL D 1 36 ? -3.839 4.440 -11.389 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 9
+ATOM 16237 O O . VAL D 1 36 ? -4.014 4.549 -10.177 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 9
+ATOM 16238 C CB . VAL D 1 36 ? -2.479 2.285 -11.521 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 9
+ATOM 16239 C CG1 . VAL D 1 36 ? -1.183 1.660 -12.043 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 9
+ATOM 16240 C CG2 . VAL D 1 36 ? -2.589 2.131 -10.003 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 9
+ATOM 16241 H H . VAL D 1 36 ? -1.133 4.300 -10.541 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 9
+ATOM 16242 H HA . VAL D 1 36 ? -2.603 3.799 -13.022 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 9
+ATOM 16243 H HB . VAL D 1 36 ? -3.314 1.750 -11.973 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 9
+ATOM 16244 H HG11 . VAL D 1 36 ? -1.287 1.443 -13.106 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 9
+ATOM 16245 H HG12 . VAL D 1 36 ? -0.358 2.356 -11.893 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 9
+ATOM 16246 H HG13 . VAL D 1 36 ? -0.981 0.736 -11.501 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 9
+ATOM 16247 H HG21 . VAL D 1 36 ? -1.826 2.742 -9.520 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 9
+ATOM 16248 H HG22 . VAL D 1 36 ? -3.576 2.458 -9.675 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 9
+ATOM 16249 H HG23 . VAL D 1 36 ? -2.443 1.086 -9.731 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 9
+ATOM 16250 N N . GLY D 1 37 ? -4.679 4.883 -12.312 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 9
+ATOM 16251 C CA . GLY D 1 37 ? -5.913 5.555 -11.941 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 9
+ATOM 16252 C C . GLY D 1 37 ? -7.127 4.669 -12.225 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 9
+ATOM 16253 O O . GLY D 1 37 ? -7.233 4.082 -13.301 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 9
+ATOM 16254 H H . GLY D 1 37 ? -4.528 4.790 -13.297 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 9
+ATOM 16255 H HA2 . GLY D 1 37 ? -5.886 5.812 -10.882 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 9
+ATOM 16256 H HA3 . GLY D 1 37 ? -6.003 6.490 -12.494 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 9
+ATOM 16257 N N . GLY D 1 38 ? -8.012 4.599 -11.242 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 9
+ATOM 16258 C CA . GLY D 1 38 ? -9.215 3.794 -11.373 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 9
+ATOM 16259 C C . GLY D 1 38 ? -10.440 4.552 -10.859 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 9
+ATOM 16260 O O . GLY D 1 38 ? -10.754 4.498 -9.671 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 9
+ATOM 16261 H H . GLY D 1 38 ? -7.918 5.080 -10.370 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 9
+ATOM 16262 H HA2 . GLY D 1 38 ? -9.363 3.523 -12.419 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 9
+ATOM 16263 H HA3 . GLY D 1 38 ? -9.097 2.865 -10.816 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 9
+ATOM 16264 N N . VAL D 1 39 ? -11.100 5.241 -11.779 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 9
+ATOM 16265 C CA . VAL D 1 39 ? -12.284 6.008 -11.433 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 9
+ATOM 16266 C C . VAL D 1 39 ? -13.530 5.254 -11.902 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 9
+ATOM 16267 O O . VAL D 1 39 ? -13.594 4.804 -13.045 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 9
+ATOM 16268 C CB . VAL D 1 39 ? -12.183 7.418 -12.017 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 9
+ATOM 16269 C CG1 . VAL D 1 39 ? -13.444 8.230 -11.712 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 9
+ATOM 16270 C CG2 . VAL D 1 39 ? -10.932 8.135 -11.507 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 9
+ATOM 16271 H H . VAL D 1 39 ? -10.838 5.279 -12.743 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 9
+ATOM 16272 H HA . VAL D 1 39 ? -12.315 6.094 -10.347 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 9
+ATOM 16273 H HB . VAL D 1 39 ? -12.098 7.327 -13.100 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 9
+ATOM 16274 H HG11 . VAL D 1 39 ? -13.386 8.622 -10.696 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 9
+ATOM 16275 H HG12 . VAL D 1 39 ? -13.522 9.058 -12.416 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 9
+ATOM 16276 H HG13 . VAL D 1 39 ? -14.320 7.589 -11.804 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 9
+ATOM 16277 H HG21 . VAL D 1 39 ? -10.701 8.975 -12.162 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 9
+ATOM 16278 H HG22 . VAL D 1 39 ? -11.110 8.502 -10.496 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 9
+ATOM 16279 H HG23 . VAL D 1 39 ? -10.093 7.439 -11.498 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 9
+ATOM 16280 N N . VAL D 1 40 ? -14.490 5.140 -10.996 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 9
+ATOM 16281 C CA . VAL D 1 40 ? -15.731 4.449 -11.303 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 9
+ATOM 16282 C C . VAL D 1 40 ? -16.914 5.330 -10.899 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 9
+ATOM 16283 O O . VAL D 1 40 ? -17.306 5.354 -9.734 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 9
+ATOM 16284 C CB . VAL D 1 40 ? -15.747 3.078 -10.623 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 9
+ATOM 16285 C CG1 . VAL D 1 40 ? -17.164 2.500 -10.589 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 9
+ATOM 16286 C CG2 . VAL D 1 40 ? -14.779 2.113 -11.310 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 9
+ATOM 16287 H H . VAL D 1 40 ? -14.431 5.510 -10.068 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 9
+ATOM 16288 H HA . VAL D 1 40 ? -15.762 4.292 -12.381 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 9
+ATOM 16289 H HB . VAL D 1 40 ? -15.415 3.210 -9.594 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 9
+ATOM 16290 H HG11 . VAL D 1 40 ? -17.126 1.465 -10.251 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 9
+ATOM 16291 H HG12 . VAL D 1 40 ? -17.778 3.084 -9.903 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 9
+ATOM 16292 H HG13 . VAL D 1 40 ? -17.597 2.541 -11.588 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 9
+ATOM 16293 H HG21 . VAL D 1 40 ? -14.059 1.741 -10.582 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 9
+ATOM 16294 H HG22 . VAL D 1 40 ? -15.336 1.276 -11.731 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 9
+ATOM 16295 H HG23 . VAL D 1 40 ? -14.251 2.636 -12.108 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 9
+ATOM 16296 N N . ILE D 1 41 ? -17.451 6.033 -11.886 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 9
+ATOM 16297 C CA . ILE D 1 41 ? -18.582 6.914 -11.648 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 9
+ATOM 16298 C C . ILE D 1 41 ? -19.874 6.194 -12.038 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 9
+ATOM 16299 O O . ILE D 1 41 ? -20.073 5.855 -13.203 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 9
+ATOM 16300 C CB . ILE D 1 41 ? -18.381 8.249 -12.368 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 9
+ATOM 16301 C CG1 . ILE D 1 41 ? -16.928 8.717 -12.262 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 9
+ATOM 16302 C CG2 . ILE D 1 41 ? -19.361 9.304 -11.850 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 9
+ATOM 16303 C CD1 . ILE D 1 41 ? -16.593 9.145 -10.832 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 9
+ATOM 16304 H H . ILE D 1 41 ? -17.126 6.008 -12.831 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 9
+ATOM 16305 H HA . ILE D 1 41 ? -18.612 7.125 -10.580 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 9
+ATOM 16306 H HB . ILE D 1 41 ? -18.596 8.103 -13.426 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 9
+ATOM 16307 H HG12 . ILE D 1 41 ? -16.260 7.912 -12.570 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 9
+ATOM 16308 H HG13 . ILE D 1 41 ? -16.759 9.550 -12.944 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 9
+ATOM 16309 H HG21 . ILE D 1 41 ? -18.900 9.859 -11.034 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 9
+ATOM 16310 H HG22 . ILE D 1 41 ? -19.617 9.990 -12.657 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 9
+ATOM 16311 H HG23 . ILE D 1 41 ? -20.266 8.814 -11.490 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 9
+ATOM 16312 H HD11 . ILE D 1 41 ? -17.149 8.527 -10.128 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 9
+ATOM 16313 H HD12 . ILE D 1 41 ? -15.524 9.023 -10.657 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 9
+ATOM 16314 H HD13 . ILE D 1 41 ? -16.866 10.191 -10.693 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 9
+ATOM 16315 N N . ALA D 1 42 ? -20.719 5.981 -11.039 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 9
+ATOM 16316 C CA . ALA D 1 42 ? -21.987 5.307 -11.263 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 9
+ATOM 16317 C C . ALA D 1 42 ? -23.120 6.159 -10.689 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 9
+ATOM 16318 O O . ALA D 1 42 ? -23.122 6.478 -9.501 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 9
+ATOM 16319 C CB . ALA D 1 42 ? -21.938 3.909 -10.645 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 9
+ATOM 16320 H H . ALA D 1 42 ? -20.549 6.260 -10.094 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 9
+ATOM 16321 H HA . ALA D 1 42 ? -22.126 5.210 -12.340 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 9
+ATOM 16322 H HB1 . ALA D 1 42 ? -21.755 3.172 -11.427 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 9
+ATOM 16323 H HB2 . ALA D 1 42 ? -21.134 3.865 -9.909 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 9
+ATOM 16324 H HB3 . ALA D 1 42 ? -22.889 3.693 -10.157 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 9
+ATOM 16325 N N . LEU E 1 17 ? -15.078 -5.769 -21.369 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 9
+ATOM 16326 C CA . LEU E 1 17 ? -14.112 -4.693 -21.225 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 9
+ATOM 16327 C C . LEU E 1 17 ? -12.858 -5.230 -20.531 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 9
+ATOM 16328 O O . LEU E 1 17 ? -12.688 -5.052 -19.326 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 9
+ATOM 16329 C CB . LEU E 1 17 ? -14.745 -3.496 -20.512 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 9
+ATOM 16330 C CG . LEU E 1 17 ? -15.573 -2.555 -21.389 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 9
+ATOM 16331 C CD1 . LEU E 1 17 ? -17.054 -2.937 -21.358 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 9
+ATOM 16332 C CD2 . LEU E 1 17 ? -15.349 -1.095 -20.989 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 9
+ATOM 16333 H H . LEU E 1 17 ? -15.151 -6.380 -20.581 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 9
+ATOM 16334 H HA . LEU E 1 17 ? -13.838 -4.364 -22.227 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 9
+ATOM 16335 H HB2 . LEU E 1 17 ? -15.384 -3.871 -19.712 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 9
+ATOM 16336 H HB3 . LEU E 1 17 ? -13.950 -2.918 -20.041 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 9
+ATOM 16337 H HG . LEU E 1 17 ? -15.234 -2.662 -22.420 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 9
+ATOM 16338 H HD11 . LEU E 1 17 ? -17.261 -3.653 -22.154 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 9
+ATOM 16339 H HD12 . LEU E 1 17 ? -17.293 -3.385 -20.394 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 9
+ATOM 16340 H HD13 . LEU E 1 17 ? -17.662 -2.044 -21.505 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 9
+ATOM 16341 H HD21 . LEU E 1 17 ? -16.154 -0.771 -20.331 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 9
+ATOM 16342 H HD22 . LEU E 1 17 ? -14.395 -1.003 -20.469 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 9
+ATOM 16343 H HD23 . LEU E 1 17 ? -15.337 -0.471 -21.883 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 9
+ATOM 16344 N N . VAL E 1 18 ? -12.013 -5.875 -21.322 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 9
+ATOM 16345 C CA . VAL E 1 18 ? -10.780 -6.438 -20.798 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 9
+ATOM 16346 C C . VAL E 1 18 ? -9.596 -5.600 -21.283 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 9
+ATOM 16347 O O . VAL E 1 18 ? -9.244 -5.638 -22.461 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 9
+ATOM 16348 C CB . VAL E 1 18 ? -10.670 -7.912 -21.192 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 9
+ATOM 16349 C CG1 . VAL E 1 18 ? -9.367 -8.523 -20.672 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 9
+ATOM 16350 C CG2 . VAL E 1 18 ? -11.882 -8.704 -20.698 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 9
+ATOM 16351 H H . VAL E 1 18 ? -12.160 -6.015 -22.301 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 9
+ATOM 16352 H HA . VAL E 1 18 ? -10.829 -6.382 -19.711 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 9
+ATOM 16353 H HB . VAL E 1 18 ? -10.655 -7.968 -22.281 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 9
+ATOM 16354 H HG11 . VAL E 1 18 ? -9.174 -8.160 -19.662 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 9
+ATOM 16355 H HG12 . VAL E 1 18 ? -9.455 -9.609 -20.657 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 9
+ATOM 16356 H HG13 . VAL E 1 18 ? -8.544 -8.234 -21.326 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 9
+ATOM 16357 H HG21 . VAL E 1 18 ? -11.548 -9.513 -20.048 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 9
+ATOM 16358 H HG22 . VAL E 1 18 ? -12.546 -8.042 -20.142 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 9
+ATOM 16359 H HG23 . VAL E 1 18 ? -12.417 -9.121 -21.551 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 9
+ATOM 16360 N N . PHE E 1 19 ? -9.013 -4.862 -20.349 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 9
+ATOM 16361 C CA . PHE E 1 19 ? -7.875 -4.015 -20.666 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 9
+ATOM 16362 C C . PHE E 1 19 ? -6.562 -4.688 -20.262 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 9
+ATOM 16363 O O . PHE E 1 19 ? -6.059 -4.465 -19.162 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 9
+ATOM 16364 C CB . PHE E 1 19 ? -8.041 -2.724 -19.863 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 9
+ATOM 16365 C CG . PHE E 1 19 ? -8.847 -1.642 -20.585 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 9
+ATOM 16366 C CD1 . PHE E 1 19 ? -10.199 -1.754 -20.686 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 9
+ATOM 16367 C CD2 . PHE E 1 19 ? -8.212 -0.567 -21.125 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 9
+ATOM 16368 C CE1 . PHE E 1 19 ? -10.947 -0.750 -21.355 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 9
+ATOM 16369 C CE2 . PHE E 1 19 ? -8.960 0.437 -21.795 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 9
+ATOM 16370 C CZ . PHE E 1 19 ? -10.312 0.324 -21.896 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 9
+ATOM 16371 H H . PHE E 1 19 ? -9.305 -4.836 -19.393 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 9
+ATOM 16372 H HA . PHE E 1 19 ? -7.882 -3.855 -21.744 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 9
+ATOM 16373 H HB2 . PHE E 1 19 ? -8.530 -2.956 -18.917 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 9
+ATOM 16374 H HB3 . PHE E 1 19 ? -7.054 -2.328 -19.624 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 9
+ATOM 16375 H HD1 . PHE E 1 19 ? -10.708 -2.615 -20.252 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 9
+ATOM 16376 H HD2 . PHE E 1 19 ? -7.129 -0.477 -21.045 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 9
+ATOM 16377 H HE1 . PHE E 1 19 ? -12.030 -0.840 -21.436 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 9
+ATOM 16378 H HE2 . PHE E 1 19 ? -8.451 1.298 -22.228 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 9
+ATOM 16379 H HZ . PHE E 1 19 ? -10.886 1.095 -22.410 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 9
+ATOM 16380 N N . PHE E 1 20 ? -6.044 -5.499 -21.174 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 9
+ATOM 16381 C CA . PHE E 1 20 ? -4.799 -6.206 -20.926 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 9
+ATOM 16382 C C . PHE E 1 20 ? -3.596 -5.363 -21.355 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 9
+ATOM 16383 O O . PHE E 1 20 ? -3.523 -4.916 -22.499 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 9
+ATOM 16384 C CB . PHE E 1 20 ? -4.836 -7.485 -21.765 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 9
+ATOM 16385 C CG . PHE E 1 20 ? -4.637 -8.766 -20.953 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 9
+ATOM 16386 C CD1 . PHE E 1 20 ? -3.397 -9.101 -20.505 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 9
+ATOM 16387 C CD2 . PHE E 1 20 ? -5.699 -9.571 -20.681 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 9
+ATOM 16388 C CE1 . PHE E 1 20 ? -3.212 -10.291 -19.752 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 9
+ATOM 16389 C CE2 . PHE E 1 20 ? -5.514 -10.761 -19.929 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 9
+ATOM 16390 C CZ . PHE E 1 20 ? -4.274 -11.096 -19.480 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 9
+ATOM 16391 H H . PHE E 1 20 ? -6.460 -5.675 -22.066 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 9
+ATOM 16392 H HA . PHE E 1 20 ? -4.743 -6.396 -19.854 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 9
+ATOM 16393 H HB2 . PHE E 1 20 ? -5.794 -7.540 -22.282 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 9
+ATOM 16394 H HB3 . PHE E 1 20 ? -4.063 -7.428 -22.530 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 9
+ATOM 16395 H HD1 . PHE E 1 20 ? -2.546 -8.456 -20.723 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 9
+ATOM 16396 H HD2 . PHE E 1 20 ? -6.692 -9.303 -21.041 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 9
+ATOM 16397 H HE1 . PHE E 1 20 ? -2.219 -10.559 -19.392 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 9
+ATOM 16398 H HE2 . PHE E 1 20 ? -6.365 -11.406 -19.710 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 9
+ATOM 16399 H HZ . PHE E 1 20 ? -4.132 -12.009 -18.902 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 9
+ATOM 16400 N N . ALA E 1 21 ? -2.682 -5.173 -20.415 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 9
+ATOM 16401 C CA . ALA E 1 21 ? -1.486 -4.392 -20.681 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 9
+ATOM 16402 C C . ALA E 1 21 ? -0.257 -5.175 -20.215 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 9
+ATOM 16403 O O . ALA E 1 21 ? 0.272 -4.922 -19.133 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 9
+ATOM 16404 C CB . ALA E 1 21 ? -1.603 -3.029 -19.997 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 9
+ATOM 16405 H H . ALA E 1 21 ? -2.749 -5.540 -19.487 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 9
+ATOM 16406 H HA . ALA E 1 21 ? -1.422 -4.240 -21.759 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 9
+ATOM 16407 H HB1 . ALA E 1 21 ? -1.007 -3.028 -19.084 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 9
+ATOM 16408 H HB2 . ALA E 1 21 ? -1.237 -2.252 -20.669 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 9
+ATOM 16409 H HB3 . ALA E 1 21 ? -2.646 -2.834 -19.751 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 9
+ATOM 16410 N N . GLU E 1 22 ? 0.162 -6.111 -21.054 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 9
+ATOM 16411 C CA . GLU E 1 22 ? 1.319 -6.933 -20.741 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 9
+ATOM 16412 C C . GLU E 1 22 ? 2.570 -6.367 -21.416 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 9
+ATOM 16413 O O . GLU E 1 22 ? 2.658 -6.335 -22.642 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 9
+ATOM 16414 C CB . GLU E 1 22 ? 1.086 -8.388 -21.152 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 9
+ATOM 16415 C CG . GLU E 1 22 ? 1.089 -9.309 -19.930 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 9
+ATOM 16416 C CD . GLU E 1 22 ? 0.505 -10.680 -20.276 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 9
+ATOM 16417 O OE1 . GLU E 1 22 ? -0.426 -10.706 -21.110 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 9
+ATOM 16418 O OE2 . GLU E 1 22 ? 1.002 -11.671 -19.699 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 9
+ATOM 16419 H H . GLU E 1 22 ? -0.273 -6.311 -21.932 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 9
+ATOM 16420 H HA . GLU E 1 22 ? 1.427 -6.880 -19.658 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 9
+ATOM 16421 H HB2 . GLU E 1 22 ? 0.132 -8.474 -21.673 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 9
+ATOM 16422 H HB3 . GLU E 1 22 ? 1.861 -8.701 -21.850 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 9
+ATOM 16423 H HG2 . GLU E 1 22 ? 2.108 -9.427 -19.562 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 9
+ATOM 16424 H HG3 . GLU E 1 22 ? 0.510 -8.856 -19.126 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 9
+ATOM 16425 N N . ASP E 1 23 ? 3.508 -5.934 -20.585 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 9
+ATOM 16426 C CA . ASP E 1 23 ? 4.750 -5.371 -21.087 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 9
+ATOM 16427 C C . ASP E 1 23 ? 5.930 -6.152 -20.505 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 9
+ATOM 16428 O O . ASP E 1 23 ? 5.906 -6.543 -19.339 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 9
+ATOM 16429 C CB . ASP E 1 23 ? 4.900 -3.907 -20.668 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 9
+ATOM 16430 C CG . ASP E 1 23 ? 3.588 -3.126 -20.568 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 9
+ATOM 16431 O OD1 . ASP E 1 23 ? 2.861 -3.106 -21.584 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 9
+ATOM 16432 O OD2 . ASP E 1 23 ? 3.343 -2.566 -19.478 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 9
+ATOM 16433 H H . ASP E 1 23 ? 3.429 -5.963 -19.589 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 9
+ATOM 16434 H HA . ASP E 1 23 ? 4.686 -5.457 -22.171 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 9
+ATOM 16435 H HB2 . ASP E 1 23 ? 5.401 -3.871 -19.700 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 9
+ATOM 16436 H HB3 . ASP E 1 23 ? 5.551 -3.405 -21.383 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 9
+ATOM 16437 N N . VAL E 1 24 ? 6.934 -6.357 -21.345 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 9
+ATOM 16438 C CA . VAL E 1 24 ? 8.121 -7.084 -20.929 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 9
+ATOM 16439 C C . VAL E 1 24 ? 9.339 -6.534 -21.675 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 9
+ATOM 16440 O O . VAL E 1 24 ? 9.488 -6.756 -22.875 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 9
+ATOM 16441 C CB . VAL E 1 24 ? 7.917 -8.585 -21.144 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 9
+ATOM 16442 C CG1 . VAL E 1 24 ? 7.295 -8.864 -22.513 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 9
+ATOM 16443 C CG2 . VAL E 1 24 ? 9.232 -9.348 -20.974 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 9
+ATOM 16444 H H . VAL E 1 24 ? 6.946 -6.035 -22.292 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 9
+ATOM 16445 H HA . VAL E 1 24 ? 8.256 -6.911 -19.861 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 9
+ATOM 16446 H HB . VAL E 1 24 ? 7.223 -8.941 -20.382 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 9
+ATOM 16447 H HG11 . VAL E 1 24 ? 6.905 -9.881 -22.535 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 9
+ATOM 16448 H HG12 . VAL E 1 24 ? 6.482 -8.160 -22.693 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 9
+ATOM 16449 H HG13 . VAL E 1 24 ? 8.054 -8.748 -23.287 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 9
+ATOM 16450 H HG21 . VAL E 1 24 ? 9.148 -10.035 -20.132 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 9
+ATOM 16451 H HG22 . VAL E 1 24 ? 9.446 -9.910 -21.882 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 9
+ATOM 16452 H HG23 . VAL E 1 24 ? 10.040 -8.640 -20.786 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 9
+ATOM 16453 N N . GLY E 1 25 ? 10.178 -5.827 -20.932 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 9
+ATOM 16454 C CA . GLY E 1 25 ? 11.378 -5.244 -21.508 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 9
+ATOM 16455 C C . GLY E 1 25 ? 12.555 -5.341 -20.536 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 9
+ATOM 16456 O O . GLY E 1 25 ? 12.360 -5.421 -19.324 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 9
+ATOM 16457 H H . GLY E 1 25 ? 10.049 -5.652 -19.956 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 9
+ATOM 16458 H HA2 . GLY E 1 25 ? 11.626 -5.757 -22.437 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 9
+ATOM 16459 H HA3 . GLY E 1 25 ? 11.194 -4.199 -21.759 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 9
+ATOM 16460 N N . SER E 1 26 ? 13.752 -5.330 -21.104 1.00 0.00 ? ? ? ? ? ? 26 SER E N 9
+ATOM 16461 C CA . SER E 1 26 ? 14.962 -5.416 -20.303 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 9
+ATOM 16462 C C . SER E 1 26 ? 15.621 -4.039 -20.202 1.00 0.00 ? ? ? ? ? ? 26 SER E C 9
+ATOM 16463 O O . SER E 1 26 ? 15.482 -3.213 -21.102 1.00 0.00 ? ? ? ? ? ? 26 SER E O 9
+ATOM 16464 C CB . SER E 1 26 ? 15.942 -6.432 -20.892 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 9
+ATOM 16465 O OG . SER E 1 26 ? 16.301 -7.437 -19.948 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 9
+ATOM 16466 H H . SER E 1 26 ? 13.903 -5.265 -22.090 1.00 0.00 ? ? ? ? ? ? 26 SER E H 9
+ATOM 16467 H HA . SER E 1 26 ? 14.634 -5.756 -19.321 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 9
+ATOM 16468 H HB2 . SER E 1 26 ? 15.495 -6.901 -21.768 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 9
+ATOM 16469 H HB3 . SER E 1 26 ? 16.840 -5.916 -21.231 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 9
+ATOM 16470 H HG . SER E 1 26 ? 16.927 -8.094 -20.368 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 9
+ATOM 16471 N N . ASN E 1 27 ? 16.326 -3.835 -19.098 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 9
+ATOM 16472 C CA . ASN E 1 27 ? 17.007 -2.573 -18.868 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 9
+ATOM 16473 C C . ASN E 1 27 ? 16.006 -1.425 -19.010 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 9
+ATOM 16474 O O . ASN E 1 27 ? 15.861 -0.852 -20.089 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 9
+ATOM 16475 C CB . ASN E 1 27 ? 18.124 -2.355 -19.891 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 9
+ATOM 16476 C CG . ASN E 1 27 ? 19.501 -2.500 -19.239 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 9
+ATOM 16477 O OD1 . ASN E 1 27 ? 19.920 -1.691 -18.428 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 9
+ATOM 16478 N ND2 . ASN E 1 27 ? 20.178 -3.573 -19.638 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 9
+ATOM 16479 H H . ASN E 1 27 ? 16.434 -4.513 -18.371 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 9
+ATOM 16480 H HA . ASN E 1 27 ? 17.416 -2.648 -17.861 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 9
+ATOM 16481 H HB2 . ASN E 1 27 ? 18.024 -3.076 -20.703 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 9
+ATOM 16482 H HB3 . ASN E 1 27 ? 18.029 -1.363 -20.333 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 9
+ATOM 16483 H HD21 . ASN E 1 27 ? 19.776 -4.198 -20.307 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 9
+ATOM 16484 H HD22 . ASN E 1 27 ? 21.089 -3.755 -19.268 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 9
+ATOM 16485 N N . LYS E 1 28 ? 15.341 -1.122 -17.905 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 9
+ATOM 16486 C CA . LYS E 1 28 ? 14.358 -0.052 -17.892 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 9
+ATOM 16487 C C . LYS E 1 28 ? 14.890 1.113 -17.056 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 9
+ATOM 16488 O O . LYS E 1 28 ? 14.972 1.018 -15.832 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 9
+ATOM 16489 C CB . LYS E 1 28 ? 13.000 -0.578 -17.421 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 9
+ATOM 16490 C CG . LYS E 1 28 ? 11.899 -0.225 -18.423 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 9
+ATOM 16491 C CD . LYS E 1 28 ? 10.513 -0.439 -17.811 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 9
+ATOM 16492 C CE . LYS E 1 28 ? 9.706 -1.455 -18.623 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 9
+ATOM 16493 N NZ . LYS E 1 28 ? 8.607 -2.015 -17.806 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 9
+ATOM 16494 H H . LYS E 1 28 ? 15.465 -1.592 -17.031 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 9
+ATOM 16495 H HA . LYS E 1 28 ? 14.233 0.289 -18.920 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 9
+ATOM 16496 H HB2 . LYS E 1 28 ? 13.049 -1.659 -17.295 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 9
+ATOM 16497 H HB3 . LYS E 1 28 ? 12.760 -0.154 -16.446 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 9
+ATOM 16498 H HG2 . LYS E 1 28 ? 12.006 0.814 -18.735 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 9
+ATOM 16499 H HG3 . LYS E 1 28 ? 12.005 -0.839 -19.317 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 9
+ATOM 16500 H HD2 . LYS E 1 28 ? 10.615 -0.788 -16.784 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 9
+ATOM 16501 H HD3 . LYS E 1 28 ? 9.977 0.510 -17.774 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 9
+ATOM 16502 H HE2 . LYS E 1 28 ? 9.299 -0.976 -19.513 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 9
+ATOM 16503 H HE3 . LYS E 1 28 ? 10.360 -2.258 -18.964 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 9
+ATOM 16504 H HZ1 . LYS E 1 28 ? 8.919 -2.135 -16.864 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 9
+ATOM 16505 H HZ2 . LYS E 1 28 ? 7.827 -1.389 -17.822 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 9
+ATOM 16506 H HZ3 . LYS E 1 28 ? 8.331 -2.901 -18.181 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 9
+ATOM 16507 N N . GLY E 1 29 ? 15.237 2.188 -17.749 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 9
+ATOM 16508 C CA . GLY E 1 29 ? 15.758 3.371 -17.085 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 9
+ATOM 16509 C C . GLY E 1 29 ? 14.973 4.619 -17.493 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 9
+ATOM 16510 O O . GLY E 1 29 ? 13.782 4.538 -17.790 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 9
+ATOM 16511 H H . GLY E 1 29 ? 15.167 2.258 -18.744 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 9
+ATOM 16512 H HA2 . GLY E 1 29 ? 15.704 3.239 -16.005 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 9
+ATOM 16513 H HA3 . GLY E 1 29 ? 16.811 3.500 -17.339 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 9
+ATOM 16514 N N . ALA E 1 30 ? 15.672 5.744 -17.494 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 9
+ATOM 16515 C CA . ALA E 1 30 ? 15.055 7.008 -17.860 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 9
+ATOM 16516 C C . ALA E 1 30 ? 13.808 7.230 -17.001 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 9
+ATOM 16517 O O . ALA E 1 30 ? 13.749 6.778 -15.859 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 9
+ATOM 16518 C CB . ALA E 1 30 ? 14.739 7.007 -19.357 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 9
+ATOM 16519 H H . ALA E 1 30 ? 16.640 5.802 -17.251 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 9
+ATOM 16520 H HA . ALA E 1 30 ? 15.774 7.801 -17.654 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 9
+ATOM 16521 H HB1 . ALA E 1 30 ? 15.552 6.526 -19.900 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 9
+ATOM 16522 H HB2 . ALA E 1 30 ? 13.812 6.461 -19.532 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 9
+ATOM 16523 H HB3 . ALA E 1 30 ? 14.627 8.034 -19.705 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 9
+ATOM 16524 N N . ILE E 1 31 ? 12.843 7.926 -17.584 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 9
+ATOM 16525 C CA . ILE E 1 31 ? 11.602 8.213 -16.886 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 9
+ATOM 16526 C C . ILE E 1 31 ? 10.502 7.287 -17.409 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 9
+ATOM 16527 O O . ILE E 1 31 ? 9.850 7.593 -18.407 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 9
+ATOM 16528 C CB . ILE E 1 31 ? 11.257 9.700 -16.995 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 9
+ATOM 16529 C CG1 . ILE E 1 31 ? 9.825 9.967 -16.527 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 9
+ATOM 16530 C CG2 . ILE E 1 31 ? 11.502 10.216 -18.415 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 9
+ATOM 16531 C CD1 . ILE E 1 31 ? 9.643 11.433 -16.128 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 9
+ATOM 16532 H H . ILE E 1 31 ? 12.900 8.290 -18.514 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 9
+ATOM 16533 H HA . ILE E 1 31 ? 11.763 7.996 -15.830 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 9
+ATOM 16534 H HB . ILE E 1 31 ? 11.922 10.254 -16.332 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 9
+ATOM 16535 H HG12 . ILE E 1 31 ? 9.125 9.713 -17.323 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 9
+ATOM 16536 H HG13 . ILE E 1 31 ? 9.591 9.324 -15.679 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 9
+ATOM 16537 H HG21 . ILE E 1 31 ? 10.785 11.005 -18.643 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 9
+ATOM 16538 H HG22 . ILE E 1 31 ? 12.514 10.614 -18.487 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 9
+ATOM 16539 H HG23 . ILE E 1 31 ? 11.380 9.399 -19.125 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 9
+ATOM 16540 H HD11 . ILE E 1 31 ? 10.621 11.902 -16.015 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 9
+ATOM 16541 H HD12 . ILE E 1 31 ? 9.078 11.952 -16.901 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 9
+ATOM 16542 H HD13 . ILE E 1 31 ? 9.102 11.488 -15.183 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 9
+ATOM 16543 N N . ILE E 1 32 ? 10.329 6.174 -16.712 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 9
+ATOM 16544 C CA . ILE E 1 32 ? 9.319 5.201 -17.093 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 9
+ATOM 16545 C C . ILE E 1 32 ? 7.935 5.737 -16.722 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 9
+ATOM 16546 O O . ILE E 1 32 ? 7.476 5.555 -15.595 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 9
+ATOM 16547 C CB . ILE E 1 32 ? 9.633 3.834 -16.482 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 9
+ATOM 16548 C CG1 . ILE E 1 32 ? 10.925 3.257 -17.065 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 9
+ATOM 16549 C CG2 . ILE E 1 32 ? 8.452 2.876 -16.644 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 9
+ATOM 16550 C CD1 . ILE E 1 32 ? 11.569 2.265 -16.094 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 9
+ATOM 16551 H H . ILE E 1 32 ? 10.863 5.933 -15.901 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 9
+ATOM 16552 H HA . ILE E 1 32 ? 9.367 5.088 -18.176 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 9
+ATOM 16553 H HB . ILE E 1 32 ? 9.795 3.968 -15.412 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 9
+ATOM 16554 H HG12 . ILE E 1 32 ? 10.710 2.759 -18.010 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 9
+ATOM 16555 H HG13 . ILE E 1 32 ? 11.623 4.065 -17.282 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 9
+ATOM 16556 H HG21 . ILE E 1 32 ? 8.677 1.934 -16.144 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 9
+ATOM 16557 H HG22 . ILE E 1 32 ? 7.561 3.319 -16.200 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 9
+ATOM 16558 H HG23 . ILE E 1 32 ? 8.276 2.692 -17.704 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 9
+ATOM 16559 H HD11 . ILE E 1 32 ? 11.455 2.629 -15.073 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 9
+ATOM 16560 H HD12 . ILE E 1 32 ? 11.082 1.294 -16.190 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 9
+ATOM 16561 H HD13 . ILE E 1 32 ? 12.629 2.164 -16.328 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 9
+ATOM 16562 N N . GLY E 1 33 ? 7.308 6.387 -17.691 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 9
+ATOM 16563 C CA . GLY E 1 33 ? 5.985 6.951 -17.481 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 9
+ATOM 16564 C C . GLY E 1 33 ? 4.909 5.866 -17.550 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 9
+ATOM 16565 O O . GLY E 1 33 ? 4.142 5.808 -18.509 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 9
+ATOM 16566 H H . GLY E 1 33 ? 7.688 6.531 -18.605 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 9
+ATOM 16567 H HA2 . GLY E 1 33 ? 5.947 7.445 -16.510 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 9
+ATOM 16568 H HA3 . GLY E 1 33 ? 5.787 7.713 -18.234 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 9
+ATOM 16569 N N . LEU E 1 34 ? 4.888 5.032 -16.520 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 9
+ATOM 16570 C CA . LEU E 1 34 ? 3.918 3.952 -16.452 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 9
+ATOM 16571 C C . LEU E 1 34 ? 2.674 4.435 -15.703 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 9
+ATOM 16572 O O . LEU E 1 34 ? 2.685 4.543 -14.478 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 9
+ATOM 16573 C CB . LEU E 1 34 ? 4.554 2.700 -15.844 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 9
+ATOM 16574 C CG . LEU E 1 34 ? 3.914 1.366 -16.235 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 9
+ATOM 16575 C CD1 . LEU E 1 34 ? 2.397 1.408 -16.040 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 9
+ATOM 16576 C CD2 . LEU E 1 34 ? 4.297 0.971 -17.662 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 9
+ATOM 16577 H H . LEU E 1 34 ? 5.515 5.086 -15.743 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 9
+ATOM 16578 H HA . LEU E 1 34 ? 3.632 3.705 -17.474 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 9
+ATOM 16579 H HB2 . LEU E 1 34 ? 5.605 2.674 -16.132 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 9
+ATOM 16580 H HB3 . LEU E 1 34 ? 4.522 2.791 -14.758 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 9
+ATOM 16581 H HG . LEU E 1 34 ? 4.302 0.593 -15.571 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 9
+ATOM 16582 H HD11 . LEU E 1 34 ? 2.020 0.394 -15.901 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 9
+ATOM 16583 H HD12 . LEU E 1 34 ? 2.160 2.007 -15.160 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 9
+ATOM 16584 H HD13 . LEU E 1 34 ? 1.930 1.852 -16.919 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 9
+ATOM 16585 H HD21 . LEU E 1 34 ? 4.786 -0.004 -17.650 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 9
+ATOM 16586 H HD22 . LEU E 1 34 ? 3.400 0.920 -18.279 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 9
+ATOM 16587 H HD23 . LEU E 1 34 ? 4.980 1.714 -18.074 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 9
+ATOM 16588 N N . MET E 1 35 ? 1.631 4.713 -16.472 1.00 0.00 ? ? ? ? ? ? 35 MET E N 9
+ATOM 16589 C CA . MET E 1 35 ? 0.382 5.182 -15.897 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 9
+ATOM 16590 C C . MET E 1 35 ? -0.816 4.687 -16.710 1.00 0.00 ? ? ? ? ? ? 35 MET E C 9
+ATOM 16591 O O . MET E 1 35 ? -0.728 4.545 -17.929 1.00 0.00 ? ? ? ? ? ? 35 MET E O 9
+ATOM 16592 C CB . MET E 1 35 ? 0.378 6.711 -15.862 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 9
+ATOM 16593 C CG . MET E 1 35 ? 0.625 7.292 -17.256 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 9
+ATOM 16594 S SD . MET E 1 35 ? 1.387 8.900 -17.122 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 9
+ATOM 16595 C CE . MET E 1 35 ? 0.048 9.928 -17.702 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 9
+ATOM 16596 H H . MET E 1 35 ? 1.630 4.622 -17.468 1.00 0.00 ? ? ? ? ? ? 35 MET E H 9
+ATOM 16597 H HA . MET E 1 35 ? 0.346 4.762 -14.892 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 9
+ATOM 16598 H HB2 . MET E 1 35 ? -0.578 7.068 -15.479 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 9
+ATOM 16599 H HB3 . MET E 1 35 ? 1.148 7.065 -15.176 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 9
+ATOM 16600 H HG2 . MET E 1 35 ? 1.266 6.623 -17.830 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 9
+ATOM 16601 H HG3 . MET E 1 35 ? -0.318 7.372 -17.798 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 9
+ATOM 16602 H HE1 . MET E 1 35 ? 0.449 10.737 -18.313 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 9
+ATOM 16603 H HE2 . MET E 1 35 ? -0.638 9.328 -18.299 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 9
+ATOM 16604 H HE3 . MET E 1 35 ? -0.485 10.347 -16.849 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 9
+ATOM 16605 N N . VAL E 1 36 ? -1.908 4.437 -16.002 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 9
+ATOM 16606 C CA . VAL E 1 36 ? -3.122 3.960 -16.643 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 9
+ATOM 16607 C C . VAL E 1 36 ? -4.295 4.852 -16.231 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 9
+ATOM 16608 O O . VAL E 1 36 ? -4.340 5.342 -15.104 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 9
+ATOM 16609 C CB . VAL E 1 36 ? -3.346 2.484 -16.307 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 9
+ATOM 16610 C CG1 . VAL E 1 36 ? -2.088 1.661 -16.589 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 9
+ATOM 16611 C CG2 . VAL E 1 36 ? -3.799 2.315 -14.856 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 9
+ATOM 16612 H H . VAL E 1 36 ? -1.971 4.554 -15.011 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 9
+ATOM 16613 H HA . VAL E 1 36 ? -2.979 4.043 -17.721 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 9
+ATOM 16614 H HB . VAL E 1 36 ? -4.142 2.111 -16.952 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 9
+ATOM 16615 H HG11 . VAL E 1 36 ? -2.159 1.217 -17.582 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 9
+ATOM 16616 H HG12 . VAL E 1 36 ? -1.212 2.308 -16.541 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 9
+ATOM 16617 H HG13 . VAL E 1 36 ? -1.997 0.870 -15.844 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 9
+ATOM 16618 H HG21 . VAL E 1 36 ? -3.036 1.772 -14.298 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 9
+ATOM 16619 H HG22 . VAL E 1 36 ? -3.950 3.296 -14.405 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 9
+ATOM 16620 H HG23 . VAL E 1 36 ? -4.735 1.757 -14.830 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 9
+ATOM 16621 N N . GLY E 1 37 ? -5.214 5.036 -17.167 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 9
+ATOM 16622 C CA . GLY E 1 37 ? -6.384 5.860 -16.915 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 9
+ATOM 16623 C C . GLY E 1 37 ? -7.669 5.036 -17.022 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 9
+ATOM 16624 O O . GLY E 1 37 ? -8.234 4.899 -18.106 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 9
+ATOM 16625 H H . GLY E 1 37 ? -5.169 4.634 -18.082 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 9
+ATOM 16626 H HA2 . GLY E 1 37 ? -6.314 6.304 -15.922 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 9
+ATOM 16627 H HA3 . GLY E 1 37 ? -6.414 6.682 -17.630 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 9
+ATOM 16628 N N . GLY E 1 38 ? -8.092 4.509 -15.882 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 9
+ATOM 16629 C CA . GLY E 1 38 ? -9.299 3.703 -15.834 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 9
+ATOM 16630 C C . GLY E 1 38 ? -10.503 4.542 -15.401 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 9
+ATOM 16631 O O . GLY E 1 38 ? -11.044 4.344 -14.314 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 9
+ATOM 16632 H H . GLY E 1 38 ? -7.626 4.626 -15.005 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 9
+ATOM 16633 H HA2 . GLY E 1 38 ? -9.490 3.267 -16.815 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 9
+ATOM 16634 H HA3 . GLY E 1 38 ? -9.160 2.874 -15.139 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 9
+ATOM 16635 N N . VAL E 1 39 ? -10.887 5.463 -16.273 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 9
+ATOM 16636 C CA . VAL E 1 39 ? -12.016 6.333 -15.995 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 9
+ATOM 16637 C C . VAL E 1 39 ? -13.300 5.673 -16.501 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 9
+ATOM 16638 O O . VAL E 1 39 ? -13.629 5.770 -17.682 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 9
+ATOM 16639 C CB . VAL E 1 39 ? -11.774 7.715 -16.605 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 9
+ATOM 16640 C CG1 . VAL E 1 39 ? -12.969 8.640 -16.359 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 9
+ATOM 16641 C CG2 . VAL E 1 39 ? -10.482 8.334 -16.066 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 9
+ATOM 16642 H H . VAL E 1 39 ? -10.441 5.617 -17.155 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 9
+ATOM 16643 H HA . VAL E 1 39 ? -12.083 6.449 -14.913 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 9
+ATOM 16644 H HB . VAL E 1 39 ? -11.662 7.592 -17.682 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 9
+ATOM 16645 H HG11 . VAL E 1 39 ? -12.771 9.615 -16.805 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 9
+ATOM 16646 H HG12 . VAL E 1 39 ? -13.861 8.207 -16.811 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 9
+ATOM 16647 H HG13 . VAL E 1 39 ? -13.124 8.755 -15.287 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 9
+ATOM 16648 H HG21 . VAL E 1 39 ? -10.006 7.637 -15.377 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 9
+ATOM 16649 H HG22 . VAL E 1 39 ? -9.807 8.543 -16.896 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 9
+ATOM 16650 H HG23 . VAL E 1 39 ? -10.714 9.261 -15.543 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 9
+ATOM 16651 N N . VAL E 1 40 ? -13.992 5.016 -15.581 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 9
+ATOM 16652 C CA . VAL E 1 40 ? -15.233 4.340 -15.919 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 9
+ATOM 16653 C C . VAL E 1 40 ? -16.412 5.137 -15.359 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 9
+ATOM 16654 O O . VAL E 1 40 ? -16.473 5.401 -14.159 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 9
+ATOM 16655 C CB . VAL E 1 40 ? -15.195 2.895 -15.417 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 9
+ATOM 16656 C CG1 . VAL E 1 40 ? -16.576 2.244 -15.515 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 9
+ATOM 16657 C CG2 . VAL E 1 40 ? -14.148 2.077 -16.176 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 9
+ATOM 16658 H H . VAL E 1 40 ? -13.717 4.941 -14.622 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 9
+ATOM 16659 H HA . VAL E 1 40 ? -15.309 4.317 -17.006 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 9
+ATOM 16660 H HB . VAL E 1 40 ? -14.908 2.913 -14.365 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 9
+ATOM 16661 H HG11 . VAL E 1 40 ? -17.242 2.690 -14.776 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 9
+ATOM 16662 H HG12 . VAL E 1 40 ? -16.983 2.405 -16.514 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 9
+ATOM 16663 H HG13 . VAL E 1 40 ? -16.488 1.174 -15.327 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 9
+ATOM 16664 H HG21 . VAL E 1 40 ? -13.869 2.603 -17.089 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 9
+ATOM 16665 H HG22 . VAL E 1 40 ? -13.267 1.945 -15.549 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 9
+ATOM 16666 H HG23 . VAL E 1 40 ? -14.563 1.102 -16.430 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 9
+ATOM 16667 N N . ILE E 1 41 ? -17.319 5.498 -16.254 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 9
+ATOM 16668 C CA . ILE E 1 41 ? -18.493 6.261 -15.864 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 9
+ATOM 16669 C C . ILE E 1 41 ? -19.738 5.626 -16.487 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 9
+ATOM 16670 O O . ILE E 1 41 ? -19.767 5.354 -17.686 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 9
+ATOM 16671 C CB . ILE E 1 41 ? -18.315 7.738 -16.217 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 9
+ATOM 16672 C CG1 . ILE E 1 41 ? -17.018 8.291 -15.623 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 9
+ATOM 16673 C CG2 . ILE E 1 41 ? -19.535 8.556 -15.790 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 9
+ATOM 16674 C CD1 . ILE E 1 41 ? -16.948 9.812 -15.778 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 9
+ATOM 16675 H H . ILE E 1 41 ? -17.262 5.280 -17.228 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 9
+ATOM 16676 H HA . ILE E 1 41 ? -18.579 6.197 -14.779 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 9
+ATOM 16677 H HB . ILE E 1 41 ? -18.234 7.823 -17.301 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 9
+ATOM 16678 H HG12 . ILE E 1 41 ? -16.955 8.027 -14.568 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 9
+ATOM 16679 H HG13 . ILE E 1 41 ? -16.162 7.832 -16.118 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 9
+ATOM 16680 H HG21 . ILE E 1 41 ? -19.241 9.276 -15.027 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 9
+ATOM 16681 H HG22 . ILE E 1 41 ? -19.938 9.085 -16.653 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 9
+ATOM 16682 H HG23 . ILE E 1 41 ? -20.296 7.888 -15.385 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 9
+ATOM 16683 H HD11 . ILE E 1 41 ? -17.516 10.285 -14.978 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 9
+ATOM 16684 H HD12 . ILE E 1 41 ? -15.908 10.135 -15.726 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 9
+ATOM 16685 H HD13 . ILE E 1 41 ? -17.369 10.098 -16.742 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 9
+ATOM 16686 N N . ALA E 1 42 ? -20.737 5.408 -15.644 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 9
+ATOM 16687 C CA . ALA E 1 42 ? -21.982 4.810 -16.097 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 9
+ATOM 16688 C C . ALA E 1 42 ? -23.158 5.651 -15.598 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 9
+ATOM 16689 O O . ALA E 1 42 ? -23.408 5.724 -14.395 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 9
+ATOM 16690 C CB . ALA E 1 42 ? -22.056 3.360 -15.615 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 9
+ATOM 16691 H H . ALA E 1 42 ? -20.706 5.632 -14.670 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 9
+ATOM 16692 H HA . ALA E 1 42 ? -21.976 4.818 -17.186 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 9
+ATOM 16693 H HB1 . ALA E 1 42 ? -22.926 2.874 -16.058 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 9
+ATOM 16694 H HB2 . ALA E 1 42 ? -21.152 2.830 -15.914 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 9
+ATOM 16695 H HB3 . ALA E 1 42 ? -22.145 3.342 -14.528 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 9
+ATOM 16696 N N . LEU A 1 17 ? -16.160 -4.303 -2.843 1.00 0.00 ? ? ? ? ? ? 17 LEU A N 10
+ATOM 16697 C CA . LEU A 1 17 ? -14.856 -3.844 -3.289 1.00 0.00 ? ? ? ? ? ? 17 LEU A CA 10
+ATOM 16698 C C . LEU A 1 17 ? -13.776 -4.779 -2.742 1.00 0.00 ? ? ? ? ? ? 17 LEU A C 10
+ATOM 16699 O O . LEU A 1 17 ? -13.975 -5.431 -1.718 1.00 0.00 ? ? ? ? ? ? 17 LEU A O 10
+ATOM 16700 C CB . LEU A 1 17 ? -14.647 -2.376 -2.912 1.00 0.00 ? ? ? ? ? ? 17 LEU A CB 10
+ATOM 16701 C CG . LEU A 1 17 ? -14.616 -1.382 -4.076 1.00 0.00 ? ? ? ? ? ? 17 LEU A CG 10
+ATOM 16702 C CD1 . LEU A 1 17 ? -15.335 -0.083 -3.706 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD1 10
+ATOM 16703 C CD2 . LEU A 1 17 ? -13.181 -1.130 -4.543 1.00 0.00 ? ? ? ? ? ? 17 LEU A CD2 10
+ATOM 16704 H H . LEU A 1 17 ? -16.165 -5.202 -2.406 1.00 0.00 ? ? ? ? ? ? 17 LEU A H 10
+ATOM 16705 H HA . LEU A 1 17 ? -14.844 -3.902 -4.377 1.00 0.00 ? ? ? ? ? ? 17 LEU A HA 10
+ATOM 16706 H HB2 . LEU A 1 17 ? -15.443 -2.080 -2.229 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB2 10
+ATOM 16707 H HB3 . LEU A 1 17 ? -13.708 -2.292 -2.364 1.00 0.00 ? ? ? ? ? ? 17 LEU A HB3 10
+ATOM 16708 H HG . LEU A 1 17 ? -15.155 -1.822 -4.914 1.00 0.00 ? ? ? ? ? ? 17 LEU A HG 10
+ATOM 16709 H HD11 . LEU A 1 17 ? -15.162 0.141 -2.654 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD11 10
+ATOM 16710 H HD12 . LEU A 1 17 ? -14.951 0.732 -4.320 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD12 10
+ATOM 16711 H HD13 . LEU A 1 17 ? -16.405 -0.198 -3.883 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD13 10
+ATOM 16712 H HD21 . LEU A 1 17 ? -13.137 -0.188 -5.089 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD21 10
+ATOM 16713 H HD22 . LEU A 1 17 ? -12.520 -1.079 -3.678 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD22 10
+ATOM 16714 H HD23 . LEU A 1 17 ? -12.863 -1.944 -5.196 1.00 0.00 ? ? ? ? ? ? 17 LEU A HD23 10
+ATOM 16715 N N . VAL A 1 18 ? -12.656 -4.816 -3.449 1.00 0.00 ? ? ? ? ? ? 18 VAL A N 10
+ATOM 16716 C CA . VAL A 1 18 ? -11.545 -5.661 -3.047 1.00 0.00 ? ? ? ? ? ? 18 VAL A CA 10
+ATOM 16717 C C . VAL A 1 18 ? -10.228 -4.966 -3.399 1.00 0.00 ? ? ? ? ? ? 18 VAL A C 10
+ATOM 16718 O O . VAL A 1 18 ? -9.967 -4.677 -4.566 1.00 0.00 ? ? ? ? ? ? 18 VAL A O 10
+ATOM 16719 C CB . VAL A 1 18 ? -11.680 -7.044 -3.687 1.00 0.00 ? ? ? ? ? ? 18 VAL A CB 10
+ATOM 16720 C CG1 . VAL A 1 18 ? -10.468 -7.920 -3.362 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG1 10
+ATOM 16721 C CG2 . VAL A 1 18 ? -12.980 -7.724 -3.252 1.00 0.00 ? ? ? ? ? ? 18 VAL A CG2 10
+ATOM 16722 H H . VAL A 1 18 ? -12.503 -4.283 -4.281 1.00 0.00 ? ? ? ? ? ? 18 VAL A H 10
+ATOM 16723 H HA . VAL A 1 18 ? -11.599 -5.783 -1.965 1.00 0.00 ? ? ? ? ? ? 18 VAL A HA 10
+ATOM 16724 H HB . VAL A 1 18 ? -11.717 -6.911 -4.768 1.00 0.00 ? ? ? ? ? ? 18 VAL A HB 10
+ATOM 16725 H HG11 . VAL A 1 18 ? -10.728 -8.618 -2.566 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG11 10
+ATOM 16726 H HG12 . VAL A 1 18 ? -10.173 -8.476 -4.252 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG12 10
+ATOM 16727 H HG13 . VAL A 1 18 ? -9.641 -7.289 -3.037 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG13 10
+ATOM 16728 H HG21 . VAL A 1 18 ? -13.054 -8.703 -3.725 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG21 10
+ATOM 16729 H HG22 . VAL A 1 18 ? -12.984 -7.843 -2.169 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG22 10
+ATOM 16730 H HG23 . VAL A 1 18 ? -13.829 -7.110 -3.553 1.00 0.00 ? ? ? ? ? ? 18 VAL A HG23 10
+ATOM 16731 N N . PHE A 1 19 ? -9.433 -4.717 -2.369 1.00 0.00 ? ? ? ? ? ? 19 PHE A N 10
+ATOM 16732 C CA . PHE A 1 19 ? -8.150 -4.061 -2.555 1.00 0.00 ? ? ? ? ? ? 19 PHE A CA 10
+ATOM 16733 C C . PHE A 1 19 ? -7.005 -4.944 -2.053 1.00 0.00 ? ? ? ? ? ? 19 PHE A C 10
+ATOM 16734 O O . PHE A 1 19 ? -7.016 -5.389 -0.906 1.00 0.00 ? ? ? ? ? ? 19 PHE A O 10
+ATOM 16735 C CB . PHE A 1 19 ? -8.183 -2.772 -1.731 1.00 0.00 ? ? ? ? ? ? 19 PHE A CB 10
+ATOM 16736 C CG . PHE A 1 19 ? -8.408 -1.508 -2.563 1.00 0.00 ? ? ? ? ? ? 19 PHE A CG 10
+ATOM 16737 C CD1 . PHE A 1 19 ? -9.574 -1.341 -3.243 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD1 10
+ATOM 16738 C CD2 . PHE A 1 19 ? -7.443 -0.552 -2.623 1.00 0.00 ? ? ? ? ? ? 19 PHE A CD2 10
+ATOM 16739 C CE1 . PHE A 1 19 ? -9.783 -0.167 -4.015 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE1 10
+ATOM 16740 C CE2 . PHE A 1 19 ? -7.652 0.621 -3.396 1.00 0.00 ? ? ? ? ? ? 19 PHE A CE2 10
+ATOM 16741 C CZ . PHE A 1 19 ? -8.818 0.788 -4.075 1.00 0.00 ? ? ? ? ? ? 19 PHE A CZ 10
+ATOM 16742 H H . PHE A 1 19 ? -9.653 -4.955 -1.423 1.00 0.00 ? ? ? ? ? ? 19 PHE A H 10
+ATOM 16743 H HA . PHE A 1 19 ? -8.028 -3.885 -3.623 1.00 0.00 ? ? ? ? ? ? 19 PHE A HA 10
+ATOM 16744 H HB2 . PHE A 1 19 ? -8.974 -2.850 -0.985 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB2 10
+ATOM 16745 H HB3 . PHE A 1 19 ? -7.242 -2.675 -1.190 1.00 0.00 ? ? ? ? ? ? 19 PHE A HB3 10
+ATOM 16746 H HD1 . PHE A 1 19 ? -10.348 -2.107 -3.195 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD1 10
+ATOM 16747 H HD2 . PHE A 1 19 ? -6.508 -0.687 -2.079 1.00 0.00 ? ? ? ? ? ? 19 PHE A HD2 10
+ATOM 16748 H HE1 . PHE A 1 19 ? -10.718 -0.033 -4.560 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE1 10
+ATOM 16749 H HE2 . PHE A 1 19 ? -6.878 1.387 -3.444 1.00 0.00 ? ? ? ? ? ? 19 PHE A HE2 10
+ATOM 16750 H HZ . PHE A 1 19 ? -8.978 1.689 -4.668 1.00 0.00 ? ? ? ? ? ? 19 PHE A HZ 10
+ATOM 16751 N N . PHE A 1 20 ? -6.044 -5.171 -2.936 1.00 0.00 ? ? ? ? ? ? 20 PHE A N 10
+ATOM 16752 C CA . PHE A 1 20 ? -4.895 -5.993 -2.597 1.00 0.00 ? ? ? ? ? ? 20 PHE A CA 10
+ATOM 16753 C C . PHE A 1 20 ? -3.588 -5.248 -2.876 1.00 0.00 ? ? ? ? ? ? 20 PHE A C 10
+ATOM 16754 O O . PHE A 1 20 ? -2.912 -5.521 -3.867 1.00 0.00 ? ? ? ? ? ? 20 PHE A O 10
+ATOM 16755 C CB . PHE A 1 20 ? -4.958 -7.238 -3.484 1.00 0.00 ? ? ? ? ? ? 20 PHE A CB 10
+ATOM 16756 C CG . PHE A 1 20 ? -5.507 -8.478 -2.777 1.00 0.00 ? ? ? ? ? ? 20 PHE A CG 10
+ATOM 16757 C CD1 . PHE A 1 20 ? -4.872 -8.973 -1.680 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD1 10
+ATOM 16758 C CD2 . PHE A 1 20 ? -6.629 -9.087 -3.245 1.00 0.00 ? ? ? ? ? ? 20 PHE A CD2 10
+ATOM 16759 C CE1 . PHE A 1 20 ? -5.382 -10.124 -1.024 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE1 10
+ATOM 16760 C CE2 . PHE A 1 20 ? -7.139 -10.238 -2.588 1.00 0.00 ? ? ? ? ? ? 20 PHE A CE2 10
+ATOM 16761 C CZ . PHE A 1 20 ? -6.505 -10.733 -1.492 1.00 0.00 ? ? ? ? ? ? 20 PHE A CZ 10
+ATOM 16762 H H . PHE A 1 20 ? -6.043 -4.806 -3.867 1.00 0.00 ? ? ? ? ? ? 20 PHE A H 10
+ATOM 16763 H HA . PHE A 1 20 ? -4.962 -6.219 -1.533 1.00 0.00 ? ? ? ? ? ? 20 PHE A HA 10
+ATOM 16764 H HB2 . PHE A 1 20 ? -5.580 -7.022 -4.352 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB2 10
+ATOM 16765 H HB3 . PHE A 1 20 ? -3.957 -7.457 -3.856 1.00 0.00 ? ? ? ? ? ? 20 PHE A HB3 10
+ATOM 16766 H HD1 . PHE A 1 20 ? -3.972 -8.485 -1.305 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD1 10
+ATOM 16767 H HD2 . PHE A 1 20 ? -7.138 -8.691 -4.124 1.00 0.00 ? ? ? ? ? ? 20 PHE A HD2 10
+ATOM 16768 H HE1 . PHE A 1 20 ? -4.873 -10.520 -0.145 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE1 10
+ATOM 16769 H HE2 . PHE A 1 20 ? -8.039 -10.726 -2.963 1.00 0.00 ? ? ? ? ? ? 20 PHE A HE2 10
+ATOM 16770 H HZ . PHE A 1 20 ? -6.896 -11.616 -0.988 1.00 0.00 ? ? ? ? ? ? 20 PHE A HZ 10
+ATOM 16771 N N . ALA A 1 21 ? -3.270 -4.322 -1.984 1.00 0.00 ? ? ? ? ? ? 21 ALA A N 10
+ATOM 16772 C CA . ALA A 1 21 ? -2.055 -3.536 -2.121 1.00 0.00 ? ? ? ? ? ? 21 ALA A CA 10
+ATOM 16773 C C . ALA A 1 21 ? -0.888 -4.292 -1.484 1.00 0.00 ? ? ? ? ? ? 21 ALA A C 10
+ATOM 16774 O O . ALA A 1 21 ? -0.676 -4.209 -0.275 1.00 0.00 ? ? ? ? ? ? 21 ALA A O 10
+ATOM 16775 C CB . ALA A 1 21 ? -2.267 -2.156 -1.495 1.00 0.00 ? ? ? ? ? ? 21 ALA A CB 10
+ATOM 16776 H H . ALA A 1 21 ? -3.824 -4.105 -1.180 1.00 0.00 ? ? ? ? ? ? 21 ALA A H 10
+ATOM 16777 H HA . ALA A 1 21 ? -1.859 -3.412 -3.186 1.00 0.00 ? ? ? ? ? ? 21 ALA A HA 10
+ATOM 16778 H HB1 . ALA A 1 21 ? -1.411 -1.519 -1.722 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB1 10
+ATOM 16779 H HB2 . ALA A 1 21 ? -3.172 -1.706 -1.903 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB2 10
+ATOM 16780 H HB3 . ALA A 1 21 ? -2.367 -2.258 -0.415 1.00 0.00 ? ? ? ? ? ? 21 ALA A HB3 10
+ATOM 16781 N N . GLU A 1 22 ? -0.162 -5.013 -2.325 1.00 0.00 ? ? ? ? ? ? 22 GLU A N 10
+ATOM 16782 C CA . GLU A 1 22 ? 0.978 -5.784 -1.859 1.00 0.00 ? ? ? ? ? ? 22 GLU A CA 10
+ATOM 16783 C C . GLU A 1 22 ? 2.260 -5.300 -2.540 1.00 0.00 ? ? ? ? ? ? 22 GLU A C 10
+ATOM 16784 O O . GLU A 1 22 ? 2.229 -4.858 -3.687 1.00 0.00 ? ? ? ? ? ? 22 GLU A O 10
+ATOM 16785 C CB . GLU A 1 22 ? 0.762 -7.280 -2.096 1.00 0.00 ? ? ? ? ? ? 22 GLU A CB 10
+ATOM 16786 C CG . GLU A 1 22 ? 1.681 -8.115 -1.202 1.00 0.00 ? ? ? ? ? ? 22 GLU A CG 10
+ATOM 16787 C CD . GLU A 1 22 ? 1.679 -9.583 -1.633 1.00 0.00 ? ? ? ? ? ? 22 GLU A CD 10
+ATOM 16788 O OE1 . GLU A 1 22 ? 0.611 -10.037 -2.097 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE1 10
+ATOM 16789 O OE2 . GLU A 1 22 ? 2.746 -10.219 -1.488 1.00 0.00 ? ? ? ? ? ? 22 GLU A OE2 10
+ATOM 16790 H H . GLU A 1 22 ? -0.341 -5.075 -3.307 1.00 0.00 ? ? ? ? ? ? 22 GLU A H 10
+ATOM 16791 H HA . GLU A 1 22 ? 1.036 -5.597 -0.787 1.00 0.00 ? ? ? ? ? ? 22 GLU A HA 10
+ATOM 16792 H HB2 . GLU A 1 22 ? -0.278 -7.537 -1.896 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB2 10
+ATOM 16793 H HB3 . GLU A 1 22 ? 0.954 -7.517 -3.143 1.00 0.00 ? ? ? ? ? ? 22 GLU A HB3 10
+ATOM 16794 H HG2 . GLU A 1 22 ? 2.696 -7.720 -1.248 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG2 10
+ATOM 16795 H HG3 . GLU A 1 22 ? 1.355 -8.036 -0.165 1.00 0.00 ? ? ? ? ? ? 22 GLU A HG3 10
+ATOM 16796 N N . ASP A 1 23 ? 3.357 -5.400 -1.804 1.00 0.00 ? ? ? ? ? ? 23 ASP A N 10
+ATOM 16797 C CA . ASP A 1 23 ? 4.647 -4.979 -2.322 1.00 0.00 ? ? ? ? ? ? 23 ASP A CA 10
+ATOM 16798 C C . ASP A 1 23 ? 5.710 -6.007 -1.931 1.00 0.00 ? ? ? ? ? ? 23 ASP A C 10
+ATOM 16799 O O . ASP A 1 23 ? 6.284 -5.930 -0.846 1.00 0.00 ? ? ? ? ? ? 23 ASP A O 10
+ATOM 16800 C CB . ASP A 1 23 ? 5.060 -3.626 -1.738 1.00 0.00 ? ? ? ? ? ? 23 ASP A CB 10
+ATOM 16801 C CG . ASP A 1 23 ? 6.292 -2.991 -2.387 1.00 0.00 ? ? ? ? ? ? 23 ASP A CG 10
+ATOM 16802 O OD1 . ASP A 1 23 ? 7.242 -3.752 -2.668 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD1 10
+ATOM 16803 O OD2 . ASP A 1 23 ? 6.255 -1.757 -2.587 1.00 0.00 ? ? ? ? ? ? 23 ASP A OD2 10
+ATOM 16804 H H . ASP A 1 23 ? 3.374 -5.761 -0.871 1.00 0.00 ? ? ? ? ? ? 23 ASP A H 10
+ATOM 16805 H HA . ASP A 1 23 ? 4.513 -4.908 -3.402 1.00 0.00 ? ? ? ? ? ? 23 ASP A HA 10
+ATOM 16806 H HB2 . ASP A 1 23 ? 4.222 -2.936 -1.832 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB2 10
+ATOM 16807 H HB3 . ASP A 1 23 ? 5.253 -3.751 -0.673 1.00 0.00 ? ? ? ? ? ? 23 ASP A HB3 10
+ATOM 16808 N N . VAL A 1 24 ? 5.941 -6.946 -2.837 1.00 0.00 ? ? ? ? ? ? 24 VAL A N 10
+ATOM 16809 C CA . VAL A 1 24 ? 6.925 -7.989 -2.599 1.00 0.00 ? ? ? ? ? ? 24 VAL A CA 10
+ATOM 16810 C C . VAL A 1 24 ? 8.325 -7.432 -2.865 1.00 0.00 ? ? ? ? ? ? 24 VAL A C 10
+ATOM 16811 O O . VAL A 1 24 ? 8.866 -7.598 -3.957 1.00 0.00 ? ? ? ? ? ? 24 VAL A O 10
+ATOM 16812 C CB . VAL A 1 24 ? 6.600 -9.219 -3.449 1.00 0.00 ? ? ? ? ? ? 24 VAL A CB 10
+ATOM 16813 C CG1 . VAL A 1 24 ? 7.686 -10.286 -3.308 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG1 10
+ATOM 16814 C CG2 . VAL A 1 24 ? 5.224 -9.785 -3.091 1.00 0.00 ? ? ? ? ? ? 24 VAL A CG2 10
+ATOM 16815 H H . VAL A 1 24 ? 5.470 -7.002 -3.717 1.00 0.00 ? ? ? ? ? ? 24 VAL A H 10
+ATOM 16816 H HA . VAL A 1 24 ? 6.854 -8.275 -1.550 1.00 0.00 ? ? ? ? ? ? 24 VAL A HA 10
+ATOM 16817 H HB . VAL A 1 24 ? 6.571 -8.906 -4.493 1.00 0.00 ? ? ? ? ? ? 24 VAL A HB 10
+ATOM 16818 H HG11 . VAL A 1 24 ? 8.469 -10.108 -4.045 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG11 10
+ATOM 16819 H HG12 . VAL A 1 24 ? 8.113 -10.240 -2.306 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG12 10
+ATOM 16820 H HG13 . VAL A 1 24 ? 7.251 -11.272 -3.472 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG13 10
+ATOM 16821 H HG21 . VAL A 1 24 ? 4.698 -10.066 -4.003 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG21 10
+ATOM 16822 H HG22 . VAL A 1 24 ? 5.347 -10.663 -2.456 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG22 10
+ATOM 16823 H HG23 . VAL A 1 24 ? 4.648 -9.029 -2.557 1.00 0.00 ? ? ? ? ? ? 24 VAL A HG23 10
+ATOM 16824 N N . GLY A 1 25 ? 8.872 -6.784 -1.847 1.00 0.00 ? ? ? ? ? ? 25 GLY A N 10
+ATOM 16825 C CA . GLY A 1 25 ? 10.199 -6.202 -1.956 1.00 0.00 ? ? ? ? ? ? 25 GLY A CA 10
+ATOM 16826 C C . GLY A 1 25 ? 11.233 -7.051 -1.215 1.00 0.00 ? ? ? ? ? ? 25 GLY A C 10
+ATOM 16827 O O . GLY A 1 25 ? 11.061 -7.357 -0.036 1.00 0.00 ? ? ? ? ? ? 25 GLY A O 10
+ATOM 16828 H H . GLY A 1 25 ? 8.425 -6.654 -0.962 1.00 0.00 ? ? ? ? ? ? 25 GLY A H 10
+ATOM 16829 H HA2 . GLY A 1 25 ? 10.478 -6.118 -3.007 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA2 10
+ATOM 16830 H HA3 . GLY A 1 25 ? 10.192 -5.192 -1.547 1.00 0.00 ? ? ? ? ? ? 25 GLY A HA3 10
+ATOM 16831 N N . SER A 1 26 ? 12.285 -7.409 -1.936 1.00 0.00 ? ? ? ? ? ? 26 SER A N 10
+ATOM 16832 C CA . SER A 1 26 ? 13.347 -8.217 -1.362 1.00 0.00 ? ? ? ? ? ? 26 SER A CA 10
+ATOM 16833 C C . SER A 1 26 ? 14.614 -7.376 -1.196 1.00 0.00 ? ? ? ? ? ? 26 SER A C 10
+ATOM 16834 O O . SER A 1 26 ? 15.332 -7.132 -2.164 1.00 0.00 ? ? ? ? ? ? 26 SER A O 10
+ATOM 16835 C CB . SER A 1 26 ? 13.635 -9.445 -2.228 1.00 0.00 ? ? ? ? ? ? 26 SER A CB 10
+ATOM 16836 O OG . SER A 1 26 ? 14.498 -9.138 -3.320 1.00 0.00 ? ? ? ? ? ? 26 SER A OG 10
+ATOM 16837 H H . SER A 1 26 ? 12.418 -7.157 -2.895 1.00 0.00 ? ? ? ? ? ? 26 SER A H 10
+ATOM 16838 H HA . SER A 1 26 ? 12.972 -8.539 -0.390 1.00 0.00 ? ? ? ? ? ? 26 SER A HA 10
+ATOM 16839 H HB2 . SER A 1 26 ? 14.090 -10.223 -1.614 1.00 0.00 ? ? ? ? ? ? 26 SER A HB2 10
+ATOM 16840 H HB3 . SER A 1 26 ? 12.697 -9.848 -2.609 1.00 0.00 ? ? ? ? ? ? 26 SER A HB3 10
+ATOM 16841 H HG . SER A 1 26 ? 15.363 -9.629 -3.220 1.00 0.00 ? ? ? ? ? ? 26 SER A HG 10
+ATOM 16842 N N . ASN A 1 27 ? 14.850 -6.955 0.038 1.00 0.00 ? ? ? ? ? ? 27 ASN A N 10
+ATOM 16843 C CA . ASN A 1 27 ? 16.018 -6.146 0.343 1.00 0.00 ? ? ? ? ? ? 27 ASN A CA 10
+ATOM 16844 C C . ASN A 1 27 ? 15.804 -4.728 -0.190 1.00 0.00 ? ? ? ? ? ? 27 ASN A C 10
+ATOM 16845 O O . ASN A 1 27 ? 15.726 -4.521 -1.400 1.00 0.00 ? ? ? ? ? ? 27 ASN A O 10
+ATOM 16846 C CB . ASN A 1 27 ? 17.272 -6.717 -0.322 1.00 0.00 ? ? ? ? ? ? 27 ASN A CB 10
+ATOM 16847 C CG . ASN A 1 27 ? 17.225 -8.246 -0.360 1.00 0.00 ? ? ? ? ? ? 27 ASN A CG 10
+ATOM 16848 O OD1 . ASN A 1 27 ? 16.452 -8.886 0.333 1.00 0.00 ? ? ? ? ? ? 27 ASN A OD1 10
+ATOM 16849 N ND2 . ASN A 1 27 ? 18.094 -8.793 -1.205 1.00 0.00 ? ? ? ? ? ? 27 ASN A ND2 10
+ATOM 16850 H H . ASN A 1 27 ? 14.261 -7.159 0.820 1.00 0.00 ? ? ? ? ? ? 27 ASN A H 10
+ATOM 16851 H HA . ASN A 1 27 ? 16.110 -6.174 1.429 1.00 0.00 ? ? ? ? ? ? 27 ASN A HA 10
+ATOM 16852 H HB2 . ASN A 1 27 ? 17.360 -6.327 -1.336 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB2 10
+ATOM 16853 H HB3 . ASN A 1 27 ? 18.158 -6.390 0.223 1.00 0.00 ? ? ? ? ? ? 27 ASN A HB3 10
+ATOM 16854 H HD21 . ASN A 1 27 ? 18.701 -8.210 -1.745 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD21 10
+ATOM 16855 H HD22 . ASN A 1 27 ? 18.140 -9.787 -1.302 1.00 0.00 ? ? ? ? ? ? 27 ASN A HD22 10
+ATOM 16856 N N . LYS A 1 28 ? 15.714 -3.788 0.739 1.00 0.00 ? ? ? ? ? ? 28 LYS A N 10
+ATOM 16857 C CA . LYS A 1 28 ? 15.510 -2.396 0.378 1.00 0.00 ? ? ? ? ? ? 28 LYS A CA 10
+ATOM 16858 C C . LYS A 1 28 ? 15.728 -1.517 1.611 1.00 0.00 ? ? ? ? ? ? 28 LYS A C 10
+ATOM 16859 O O . LYS A 1 28 ? 16.105 -2.012 2.672 1.00 0.00 ? ? ? ? ? ? 28 LYS A O 10
+ATOM 16860 C CB . LYS A 1 28 ? 14.140 -2.207 -0.277 1.00 0.00 ? ? ? ? ? ? 28 LYS A CB 10
+ATOM 16861 C CG . LYS A 1 28 ? 13.015 -2.376 0.746 1.00 0.00 ? ? ? ? ? ? 28 LYS A CG 10
+ATOM 16862 C CD . LYS A 1 28 ? 11.664 -2.554 0.051 1.00 0.00 ? ? ? ? ? ? 28 LYS A CD 10
+ATOM 16863 C CE . LYS A 1 28 ? 10.518 -2.096 0.955 1.00 0.00 ? ? ? ? ? ? 28 LYS A CE 10
+ATOM 16864 N NZ . LYS A 1 28 ? 9.508 -3.170 1.096 1.00 0.00 ? ? ? ? ? ? 28 LYS A NZ 10
+ATOM 16865 H H . LYS A 1 28 ? 15.777 -3.965 1.722 1.00 0.00 ? ? ? ? ? ? 28 LYS A H 10
+ATOM 16866 H HA . LYS A 1 28 ? 16.262 -2.138 -0.367 1.00 0.00 ? ? ? ? ? ? 28 LYS A HA 10
+ATOM 16867 H HB2 . LYS A 1 28 ? 14.081 -1.216 -0.727 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB2 10
+ATOM 16868 H HB3 . LYS A 1 28 ? 14.016 -2.930 -1.083 1.00 0.00 ? ? ? ? ? ? 28 LYS A HB3 10
+ATOM 16869 H HG2 . LYS A 1 28 ? 13.220 -3.241 1.377 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG2 10
+ATOM 16870 H HG3 . LYS A 1 28 ? 12.980 -1.505 1.400 1.00 0.00 ? ? ? ? ? ? 28 LYS A HG3 10
+ATOM 16871 H HD2 . LYS A 1 28 ? 11.650 -1.982 -0.877 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD2 10
+ATOM 16872 H HD3 . LYS A 1 28 ? 11.524 -3.601 -0.218 1.00 0.00 ? ? ? ? ? ? 28 LYS A HD3 10
+ATOM 16873 H HE2 . LYS A 1 28 ? 10.907 -1.824 1.936 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE2 10
+ATOM 16874 H HE3 . LYS A 1 28 ? 10.052 -1.203 0.538 1.00 0.00 ? ? ? ? ? ? 28 LYS A HE3 10
+ATOM 16875 H HZ1 . LYS A 1 28 ? 8.644 -2.776 1.409 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ1 10
+ATOM 16876 H HZ2 . LYS A 1 28 ? 9.370 -3.615 0.211 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ2 10
+ATOM 16877 H HZ3 . LYS A 1 28 ? 9.829 -3.843 1.762 1.00 0.00 ? ? ? ? ? ? 28 LYS A HZ3 10
+ATOM 16878 N N . GLY A 1 29 ? 15.482 -0.227 1.430 1.00 0.00 ? ? ? ? ? ? 29 GLY A N 10
+ATOM 16879 C CA . GLY A 1 29 ? 15.647 0.726 2.514 1.00 0.00 ? ? ? ? ? ? 29 GLY A CA 10
+ATOM 16880 C C . GLY A 1 29 ? 15.942 2.126 1.974 1.00 0.00 ? ? ? ? ? ? 29 GLY A C 10
+ATOM 16881 O O . GLY A 1 29 ? 15.204 2.640 1.135 1.00 0.00 ? ? ? ? ? ? 29 GLY A O 10
+ATOM 16882 H H . GLY A 1 29 ? 15.176 0.167 0.564 1.00 0.00 ? ? ? ? ? ? 29 GLY A H 10
+ATOM 16883 H HA2 . GLY A 1 29 ? 14.743 0.750 3.123 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA2 10
+ATOM 16884 H HA3 . GLY A 1 29 ? 16.460 0.404 3.165 1.00 0.00 ? ? ? ? ? ? 29 GLY A HA3 10
+ATOM 16885 N N . ALA A 1 30 ? 17.023 2.704 2.476 1.00 0.00 ? ? ? ? ? ? 30 ALA A N 10
+ATOM 16886 C CA . ALA A 1 30 ? 17.425 4.035 2.054 1.00 0.00 ? ? ? ? ? ? 30 ALA A CA 10
+ATOM 16887 C C . ALA A 1 30 ? 16.281 5.016 2.319 1.00 0.00 ? ? ? ? ? ? 30 ALA A C 10
+ATOM 16888 O O . ALA A 1 30 ? 16.083 5.453 3.452 1.00 0.00 ? ? ? ? ? ? 30 ALA A O 10
+ATOM 16889 C CB . ALA A 1 30 ? 17.835 4.002 0.580 1.00 0.00 ? ? ? ? ? ? 30 ALA A CB 10
+ATOM 16890 H H . ALA A 1 30 ? 17.618 2.280 3.158 1.00 0.00 ? ? ? ? ? ? 30 ALA A H 10
+ATOM 16891 H HA . ALA A 1 30 ? 18.288 4.327 2.652 1.00 0.00 ? ? ? ? ? ? 30 ALA A HA 10
+ATOM 16892 H HB1 . ALA A 1 30 ? 17.854 5.017 0.185 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB1 10
+ATOM 16893 H HB2 . ALA A 1 30 ? 18.826 3.558 0.489 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB2 10
+ATOM 16894 H HB3 . ALA A 1 30 ? 17.117 3.406 0.017 1.00 0.00 ? ? ? ? ? ? 30 ALA A HB3 10
+ATOM 16895 N N . ILE A 1 31 ? 15.559 5.335 1.255 1.00 0.00 ? ? ? ? ? ? 31 ILE A N 10
+ATOM 16896 C CA . ILE A 1 31 ? 14.441 6.257 1.358 1.00 0.00 ? ? ? ? ? ? 31 ILE A CA 10
+ATOM 16897 C C . ILE A 1 31 ? 13.211 5.637 0.690 1.00 0.00 ? ? ? ? ? ? 31 ILE A C 10
+ATOM 16898 O O . ILE A 1 31 ? 13.141 5.556 -0.535 1.00 0.00 ? ? ? ? ? ? 31 ILE A O 10
+ATOM 16899 C CB . ILE A 1 31 ? 14.821 7.627 0.794 1.00 0.00 ? ? ? ? ? ? 31 ILE A CB 10
+ATOM 16900 C CG1 . ILE A 1 31 ? 15.797 8.351 1.724 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG1 10
+ATOM 16901 C CG2 . ILE A 1 31 ? 13.575 8.466 0.504 1.00 0.00 ? ? ? ? ? ? 31 ILE A CG2 10
+ATOM 16902 C CD1 . ILE A 1 31 ? 16.411 9.570 1.033 1.00 0.00 ? ? ? ? ? ? 31 ILE A CD1 10
+ATOM 16903 H H . ILE A 1 31 ? 15.727 4.976 0.337 1.00 0.00 ? ? ? ? ? ? 31 ILE A H 10
+ATOM 16904 H HA . ILE A 1 31 ? 14.226 6.393 2.418 1.00 0.00 ? ? ? ? ? ? 31 ILE A HA 10
+ATOM 16905 H HB . ILE A 1 31 ? 15.335 7.474 -0.156 1.00 0.00 ? ? ? ? ? ? 31 ILE A HB 10
+ATOM 16906 H HG12 . ILE A 1 31 ? 15.277 8.665 2.629 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG12 10
+ATOM 16907 H HG13 . ILE A 1 31 ? 16.587 7.667 2.032 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG13 10
+ATOM 16908 H HG21 . ILE A 1 31 ? 13.685 9.449 0.961 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG21 10
+ATOM 16909 H HG22 . ILE A 1 31 ? 13.456 8.578 -0.574 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG22 10
+ATOM 16910 H HG23 . ILE A 1 31 ? 12.698 7.969 0.917 1.00 0.00 ? ? ? ? ? ? 31 ILE A HG23 10
+ATOM 16911 H HD11 . ILE A 1 31 ? 17.412 9.323 0.681 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD11 10
+ATOM 16912 H HD12 . ILE A 1 31 ? 15.789 9.859 0.185 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD12 10
+ATOM 16913 H HD13 . ILE A 1 31 ? 16.468 10.398 1.740 1.00 0.00 ? ? ? ? ? ? 31 ILE A HD13 10
+ATOM 16914 N N . ILE A 1 32 ? 12.273 5.215 1.526 1.00 0.00 ? ? ? ? ? ? 32 ILE A N 10
+ATOM 16915 C CA . ILE A 1 32 ? 11.051 4.605 1.032 1.00 0.00 ? ? ? ? ? ? 32 ILE A CA 10
+ATOM 16916 C C . ILE A 1 32 ? 9.845 5.351 1.606 1.00 0.00 ? ? ? ? ? ? 32 ILE A C 10
+ATOM 16917 O O . ILE A 1 32 ? 9.648 5.378 2.820 1.00 0.00 ? ? ? ? ? ? 32 ILE A O 10
+ATOM 16918 C CB . ILE A 1 32 ? 11.043 3.104 1.328 1.00 0.00 ? ? ? ? ? ? 32 ILE A CB 10
+ATOM 16919 C CG1 . ILE A 1 32 ? 12.003 2.357 0.401 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG1 10
+ATOM 16920 C CG2 . ILE A 1 32 ? 9.623 2.539 1.259 1.00 0.00 ? ? ? ? ? ? 32 ILE A CG2 10
+ATOM 16921 C CD1 . ILE A 1 32 ? 11.486 0.950 0.094 1.00 0.00 ? ? ? ? ? ? 32 ILE A CD1 10
+ATOM 16922 H H . ILE A 1 32 ? 12.339 5.285 2.521 1.00 0.00 ? ? ? ? ? ? 32 ILE A H 10
+ATOM 16923 H HA . ILE A 1 32 ? 11.043 4.719 -0.052 1.00 0.00 ? ? ? ? ? ? 32 ILE A HA 10
+ATOM 16924 H HB . ILE A 1 32 ? 11.399 2.956 2.348 1.00 0.00 ? ? ? ? ? ? 32 ILE A HB 10
+ATOM 16925 H HG12 . ILE A 1 32 ? 12.125 2.914 -0.528 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG12 10
+ATOM 16926 H HG13 . ILE A 1 32 ? 12.987 2.293 0.865 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG13 10
+ATOM 16927 H HG21 . ILE A 1 32 ? 9.627 1.503 1.601 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG21 10
+ATOM 16928 H HG22 . ILE A 1 32 ? 8.966 3.129 1.898 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG22 10
+ATOM 16929 H HG23 . ILE A 1 32 ? 9.265 2.581 0.231 1.00 0.00 ? ? ? ? ? ? 32 ILE A HG23 10
+ATOM 16930 H HD11 . ILE A 1 32 ? 11.413 0.380 1.020 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD11 10
+ATOM 16931 H HD12 . ILE A 1 32 ? 10.501 1.018 -0.370 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD12 10
+ATOM 16932 H HD13 . ILE A 1 32 ? 12.174 0.450 -0.588 1.00 0.00 ? ? ? ? ? ? 32 ILE A HD13 10
+ATOM 16933 N N . GLY A 1 33 ? 9.070 5.940 0.707 1.00 0.00 ? ? ? ? ? ? 33 GLY A N 10
+ATOM 16934 C CA . GLY A 1 33 ? 7.890 6.685 1.109 1.00 0.00 ? ? ? ? ? ? 33 GLY A CA 10
+ATOM 16935 C C . GLY A 1 33 ? 6.612 5.922 0.753 1.00 0.00 ? ? ? ? ? ? 33 GLY A C 10
+ATOM 16936 O O . GLY A 1 33 ? 6.122 6.016 -0.371 1.00 0.00 ? ? ? ? ? ? 33 GLY A O 10
+ATOM 16937 H H . GLY A 1 33 ? 9.238 5.914 -0.278 1.00 0.00 ? ? ? ? ? ? 33 GLY A H 10
+ATOM 16938 H HA2 . GLY A 1 33 ? 7.920 6.870 2.183 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA2 10
+ATOM 16939 H HA3 . GLY A 1 33 ? 7.885 7.659 0.619 1.00 0.00 ? ? ? ? ? ? 33 GLY A HA3 10
+ATOM 16940 N N . LEU A 1 34 ? 6.110 5.184 1.732 1.00 0.00 ? ? ? ? ? ? 34 LEU A N 10
+ATOM 16941 C CA . LEU A 1 34 ? 4.899 4.405 1.536 1.00 0.00 ? ? ? ? ? ? 34 LEU A CA 10
+ATOM 16942 C C . LEU A 1 34 ? 3.724 5.120 2.204 1.00 0.00 ? ? ? ? ? ? 34 LEU A C 10
+ATOM 16943 O O . LEU A 1 34 ? 3.688 5.254 3.427 1.00 0.00 ? ? ? ? ? ? 34 LEU A O 10
+ATOM 16944 C CB . LEU A 1 34 ? 5.101 2.968 2.021 1.00 0.00 ? ? ? ? ? ? 34 LEU A CB 10
+ATOM 16945 C CG . LEU A 1 34 ? 4.863 1.869 0.984 1.00 0.00 ? ? ? ? ? ? 34 LEU A CG 10
+ATOM 16946 C CD1 . LEU A 1 34 ? 6.165 1.136 0.653 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD1 10
+ATOM 16947 C CD2 . LEU A 1 34 ? 3.765 0.909 1.445 1.00 0.00 ? ? ? ? ? ? 34 LEU A CD2 10
+ATOM 16948 H H . LEU A 1 34 ? 6.515 5.112 2.643 1.00 0.00 ? ? ? ? ? ? 34 LEU A H 10
+ATOM 16949 H HA . LEU A 1 34 ? 4.710 4.359 0.463 1.00 0.00 ? ? ? ? ? ? 34 LEU A HA 10
+ATOM 16950 H HB2 . LEU A 1 34 ? 6.121 2.872 2.395 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB2 10
+ATOM 16951 H HB3 . LEU A 1 34 ? 4.434 2.794 2.866 1.00 0.00 ? ? ? ? ? ? 34 LEU A HB3 10
+ATOM 16952 H HG . LEU A 1 34 ? 4.515 2.338 0.063 1.00 0.00 ? ? ? ? ? ? 34 LEU A HG 10
+ATOM 16953 H HD11 . LEU A 1 34 ? 6.518 1.449 -0.330 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD11 10
+ATOM 16954 H HD12 . LEU A 1 34 ? 6.918 1.376 1.403 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD12 10
+ATOM 16955 H HD13 . LEU A 1 34 ? 5.985 0.061 0.650 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD13 10
+ATOM 16956 H HD21 . LEU A 1 34 ? 2.821 1.184 0.975 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD21 10
+ATOM 16957 H HD22 . LEU A 1 34 ? 4.030 -0.109 1.159 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD22 10
+ATOM 16958 H HD23 . LEU A 1 34 ? 3.663 0.967 2.528 1.00 0.00 ? ? ? ? ? ? 34 LEU A HD23 10
+ATOM 16959 N N . MET A 1 35 ? 2.791 5.562 1.374 1.00 0.00 ? ? ? ? ? ? 35 MET A N 10
+ATOM 16960 C CA . MET A 1 35 ? 1.617 6.260 1.869 1.00 0.00 ? ? ? ? ? ? 35 MET A CA 10
+ATOM 16961 C C . MET A 1 35 ? 0.332 5.590 1.378 1.00 0.00 ? ? ? ? ? ? 35 MET A C 10
+ATOM 16962 O O . MET A 1 35 ? 0.053 5.577 0.180 1.00 0.00 ? ? ? ? ? ? 35 MET A O 10
+ATOM 16963 C CB . MET A 1 35 ? 1.649 7.714 1.394 1.00 0.00 ? ? ? ? ? ? 35 MET A CB 10
+ATOM 16964 C CG . MET A 1 35 ? 0.564 8.541 2.086 1.00 0.00 ? ? ? ? ? ? 35 MET A CG 10
+ATOM 16965 S SD . MET A 1 35 ? -0.141 9.709 0.934 1.00 0.00 ? ? ? ? ? ? 35 MET A SD 10
+ATOM 16966 C CE . MET A 1 35 ? 0.567 11.225 1.558 1.00 0.00 ? ? ? ? ? ? 35 MET A CE 10
+ATOM 16967 H H . MET A 1 35 ? 2.827 5.449 0.381 1.00 0.00 ? ? ? ? ? ? 35 MET A H 10
+ATOM 16968 H HA . MET A 1 35 ? 1.676 6.197 2.956 1.00 0.00 ? ? ? ? ? ? 35 MET A HA 10
+ATOM 16969 H HB2 . MET A 1 35 ? 2.628 8.146 1.600 1.00 0.00 ? ? ? ? ? ? 35 MET A HB2 10
+ATOM 16970 H HB3 . MET A 1 35 ? 1.506 7.750 0.314 1.00 0.00 ? ? ? ? ? ? 35 MET A HB3 10
+ATOM 16971 H HG2 . MET A 1 35 ? -0.215 7.884 2.472 1.00 0.00 ? ? ? ? ? ? 35 MET A HG2 10
+ATOM 16972 H HG3 . MET A 1 35 ? 0.988 9.070 2.940 1.00 0.00 ? ? ? ? ? ? 35 MET A HG3 10
+ATOM 16973 H HE1 . MET A 1 35 ? 1.602 11.049 1.851 1.00 0.00 ? ? ? ? ? ? 35 MET A HE1 10
+ATOM 16974 H HE2 . MET A 1 35 ? 0.534 11.988 0.781 1.00 0.00 ? ? ? ? ? ? 35 MET A HE2 10
+ATOM 16975 H HE3 . MET A 1 35 ? -0.003 11.563 2.424 1.00 0.00 ? ? ? ? ? ? 35 MET A HE3 10
+ATOM 16976 N N . VAL A 1 36 ? -0.417 5.050 2.329 1.00 0.00 ? ? ? ? ? ? 36 VAL A N 10
+ATOM 16977 C CA . VAL A 1 36 ? -1.665 4.380 2.008 1.00 0.00 ? ? ? ? ? ? 36 VAL A CA 10
+ATOM 16978 C C . VAL A 1 36 ? -2.813 5.065 2.753 1.00 0.00 ? ? ? ? ? ? 36 VAL A C 10
+ATOM 16979 O O . VAL A 1 36 ? -2.785 5.173 3.978 1.00 0.00 ? ? ? ? ? ? 36 VAL A O 10
+ATOM 16980 C CB . VAL A 1 36 ? -1.554 2.887 2.324 1.00 0.00 ? ? ? ? ? ? 36 VAL A CB 10
+ATOM 16981 C CG1 . VAL A 1 36 ? -1.089 2.665 3.764 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG1 10
+ATOM 16982 C CG2 . VAL A 1 36 ? -2.880 2.171 2.059 1.00 0.00 ? ? ? ? ? ? 36 VAL A CG2 10
+ATOM 16983 H H . VAL A 1 36 ? -0.183 5.065 3.301 1.00 0.00 ? ? ? ? ? ? 36 VAL A H 10
+ATOM 16984 H HA . VAL A 1 36 ? -1.830 4.487 0.936 1.00 0.00 ? ? ? ? ? ? 36 VAL A HA 10
+ATOM 16985 H HB . VAL A 1 36 ? -0.804 2.459 1.659 1.00 0.00 ? ? ? ? ? ? 36 VAL A HB 10
+ATOM 16986 H HG11 . VAL A 1 36 ? -1.137 3.606 4.311 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG11 10
+ATOM 16987 H HG12 . VAL A 1 36 ? -1.736 1.931 4.245 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG12 10
+ATOM 16988 H HG13 . VAL A 1 36 ? -0.062 2.298 3.762 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG13 10
+ATOM 16989 H HG21 . VAL A 1 36 ? -3.505 2.221 2.950 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG21 10
+ATOM 16990 H HG22 . VAL A 1 36 ? -3.394 2.654 1.227 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG22 10
+ATOM 16991 H HG23 . VAL A 1 36 ? -2.686 1.128 1.809 1.00 0.00 ? ? ? ? ? ? 36 VAL A HG23 10
+ATOM 16992 N N . GLY A 1 37 ? -3.794 5.510 1.982 1.00 0.00 ? ? ? ? ? ? 37 GLY A N 10
+ATOM 16993 C CA . GLY A 1 37 ? -4.949 6.182 2.554 1.00 0.00 ? ? ? ? ? ? 37 GLY A CA 10
+ATOM 16994 C C . GLY A 1 37 ? -6.237 5.414 2.248 1.00 0.00 ? ? ? ? ? ? 37 GLY A C 10
+ATOM 16995 O O . GLY A 1 37 ? -6.482 5.038 1.103 1.00 0.00 ? ? ? ? ? ? 37 GLY A O 10
+ATOM 16996 H H . GLY A 1 37 ? -3.809 5.418 0.987 1.00 0.00 ? ? ? ? ? ? 37 GLY A H 10
+ATOM 16997 H HA2 . GLY A 1 37 ? -4.823 6.273 3.633 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA2 10
+ATOM 16998 H HA3 . GLY A 1 37 ? -5.021 7.193 2.155 1.00 0.00 ? ? ? ? ? ? 37 GLY A HA3 10
+ATOM 16999 N N . GLY A 1 38 ? -7.025 5.205 3.292 1.00 0.00 ? ? ? ? ? ? 38 GLY A N 10
+ATOM 17000 C CA . GLY A 1 38 ? -8.282 4.490 3.150 1.00 0.00 ? ? ? ? ? ? 38 GLY A CA 10
+ATOM 17001 C C . GLY A 1 38 ? -9.470 5.400 3.465 1.00 0.00 ? ? ? ? ? ? 38 GLY A C 10
+ATOM 17002 O O . GLY A 1 38 ? -9.651 5.817 4.607 1.00 0.00 ? ? ? ? ? ? 38 GLY A O 10
+ATOM 17003 H H . GLY A 1 38 ? -6.819 5.515 4.220 1.00 0.00 ? ? ? ? ? ? 38 GLY A H 10
+ATOM 17004 H HA2 . GLY A 1 38 ? -8.372 4.106 2.133 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA2 10
+ATOM 17005 H HA3 . GLY A 1 38 ? -8.292 3.628 3.818 1.00 0.00 ? ? ? ? ? ? 38 GLY A HA3 10
+ATOM 17006 N N . VAL A 1 39 ? -10.250 5.681 2.431 1.00 0.00 ? ? ? ? ? ? 39 VAL A N 10
+ATOM 17007 C CA . VAL A 1 39 ? -11.416 6.534 2.583 1.00 0.00 ? ? ? ? ? ? 39 VAL A CA 10
+ATOM 17008 C C . VAL A 1 39 ? -12.659 5.783 2.102 1.00 0.00 ? ? ? ? ? ? 39 VAL A C 10
+ATOM 17009 O O . VAL A 1 39 ? -12.890 5.664 0.900 1.00 0.00 ? ? ? ? ? ? 39 VAL A O 10
+ATOM 17010 C CB . VAL A 1 39 ? -11.196 7.858 1.848 1.00 0.00 ? ? ? ? ? ? 39 VAL A CB 10
+ATOM 17011 C CG1 . VAL A 1 39 ? -12.500 8.651 1.743 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG1 10
+ATOM 17012 C CG2 . VAL A 1 39 ? -10.103 8.687 2.526 1.00 0.00 ? ? ? ? ? ? 39 VAL A CG2 10
+ATOM 17013 H H . VAL A 1 39 ? -10.096 5.338 1.505 1.00 0.00 ? ? ? ? ? ? 39 VAL A H 10
+ATOM 17014 H HA . VAL A 1 39 ? -11.527 6.753 3.645 1.00 0.00 ? ? ? ? ? ? 39 VAL A HA 10
+ATOM 17015 H HB . VAL A 1 39 ? -10.862 7.627 0.836 1.00 0.00 ? ? ? ? ? ? 39 VAL A HB 10
+ATOM 17016 H HG11 . VAL A 1 39 ? -12.316 9.690 2.013 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG11 10
+ATOM 17017 H HG12 . VAL A 1 39 ? -12.874 8.602 0.720 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG12 10
+ATOM 17018 H HG13 . VAL A 1 39 ? -13.240 8.225 2.421 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG13 10
+ATOM 17019 H HG21 . VAL A 1 39 ? -9.315 8.025 2.885 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG21 10
+ATOM 17020 H HG22 . VAL A 1 39 ? -9.685 9.393 1.809 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG22 10
+ATOM 17021 H HG23 . VAL A 1 39 ? -10.531 9.233 3.367 1.00 0.00 ? ? ? ? ? ? 39 VAL A HG23 10
+ATOM 17022 N N . VAL A 1 40 ? -13.426 5.295 3.066 1.00 0.00 ? ? ? ? ? ? 40 VAL A N 10
+ATOM 17023 C CA . VAL A 1 40 ? -14.640 4.558 2.756 1.00 0.00 ? ? ? ? ? ? 40 VAL A CA 10
+ATOM 17024 C C . VAL A 1 40 ? -15.835 5.255 3.408 1.00 0.00 ? ? ? ? ? ? 40 VAL A C 10
+ATOM 17025 O O . VAL A 1 40 ? -16.050 5.129 4.613 1.00 0.00 ? ? ? ? ? ? 40 VAL A O 10
+ATOM 17026 C CB . VAL A 1 40 ? -14.490 3.098 3.188 1.00 0.00 ? ? ? ? ? ? 40 VAL A CB 10
+ATOM 17027 C CG1 . VAL A 1 40 ? -15.780 2.316 2.932 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG1 10
+ATOM 17028 C CG2 . VAL A 1 40 ? -13.301 2.438 2.488 1.00 0.00 ? ? ? ? ? ? 40 VAL A CG2 10
+ATOM 17029 H H . VAL A 1 40 ? -13.231 5.396 4.041 1.00 0.00 ? ? ? ? ? ? 40 VAL A H 10
+ATOM 17030 H HA . VAL A 1 40 ? -14.769 4.579 1.674 1.00 0.00 ? ? ? ? ? ? 40 VAL A HA 10
+ATOM 17031 H HB . VAL A 1 40 ? -14.297 3.084 4.261 1.00 0.00 ? ? ? ? ? ? 40 VAL A HB 10
+ATOM 17032 H HG11 . VAL A 1 40 ? -15.660 1.699 2.041 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG11 10
+ATOM 17033 H HG12 . VAL A 1 40 ? -15.994 1.678 3.790 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG12 10
+ATOM 17034 H HG13 . VAL A 1 40 ? -16.604 3.013 2.784 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG13 10
+ATOM 17035 H HG21 . VAL A 1 40 ? -12.593 2.078 3.235 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG21 10
+ATOM 17036 H HG22 . VAL A 1 40 ? -13.652 1.600 1.887 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG22 10
+ATOM 17037 H HG23 . VAL A 1 40 ? -12.809 3.166 1.842 1.00 0.00 ? ? ? ? ? ? 40 VAL A HG23 10
+ATOM 17038 N N . ILE A 1 41 ? -16.581 5.976 2.584 1.00 0.00 ? ? ? ? ? ? 41 ILE A N 10
+ATOM 17039 C CA . ILE A 1 41 ? -17.750 6.693 3.066 1.00 0.00 ? ? ? ? ? ? 41 ILE A CA 10
+ATOM 17040 C C . ILE A 1 41 ? -19.012 5.915 2.688 1.00 0.00 ? ? ? ? ? ? 41 ILE A C 10
+ATOM 17041 O O . ILE A 1 41 ? -19.648 6.211 1.677 1.00 0.00 ? ? ? ? ? ? 41 ILE A O 10
+ATOM 17042 C CB . ILE A 1 41 ? -17.740 8.136 2.556 1.00 0.00 ? ? ? ? ? ? 41 ILE A CB 10
+ATOM 17043 C CG1 . ILE A 1 41 ? -16.556 8.914 3.133 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG1 10
+ATOM 17044 C CG2 . ILE A 1 41 ? -19.075 8.827 2.843 1.00 0.00 ? ? ? ? ? ? 41 ILE A CG2 10
+ATOM 17045 C CD1 . ILE A 1 41 ? -16.314 10.205 2.349 1.00 0.00 ? ? ? ? ? ? 41 ILE A CD1 10
+ATOM 17046 H H . ILE A 1 41 ? -16.399 6.073 1.605 1.00 0.00 ? ? ? ? ? ? 41 ILE A H 10
+ATOM 17047 H HA . ILE A 1 41 ? -17.682 6.735 4.153 1.00 0.00 ? ? ? ? ? ? 41 ILE A HA 10
+ATOM 17048 H HB . ILE A 1 41 ? -17.615 8.115 1.473 1.00 0.00 ? ? ? ? ? ? 41 ILE A HB 10
+ATOM 17049 H HG12 . ILE A 1 41 ? -16.747 9.149 4.180 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG12 10
+ATOM 17050 H HG13 . ILE A 1 41 ? -15.660 8.293 3.104 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG13 10
+ATOM 17051 H HG21 . ILE A 1 41 ? -19.823 8.483 2.129 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG21 10
+ATOM 17052 H HG22 . ILE A 1 41 ? -19.399 8.585 3.855 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG22 10
+ATOM 17053 H HG23 . ILE A 1 41 ? -18.952 9.906 2.750 1.00 0.00 ? ? ? ? ? ? 41 ILE A HG23 10
+ATOM 17054 H HD11 . ILE A 1 41 ? -15.350 10.627 2.633 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD11 10
+ATOM 17055 H HD12 . ILE A 1 41 ? -16.315 9.987 1.281 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD12 10
+ATOM 17056 H HD13 . ILE A 1 41 ? -17.105 10.920 2.575 1.00 0.00 ? ? ? ? ? ? 41 ILE A HD13 10
+ATOM 17057 N N . ALA A 1 42 ? -19.337 4.937 3.520 1.00 0.00 ? ? ? ? ? ? 42 ALA A N 10
+ATOM 17058 C CA . ALA A 1 42 ? -20.512 4.114 3.285 1.00 0.00 ? ? ? ? ? ? 42 ALA A CA 10
+ATOM 17059 C C . ALA A 1 42 ? -20.957 3.481 4.605 1.00 0.00 ? ? ? ? ? ? 42 ALA A C 10
+ATOM 17060 O O . ALA A 1 42 ? -20.520 2.383 4.949 1.00 0.00 ? ? ? ? ? ? 42 ALA A O 10
+ATOM 17061 C CB . ALA A 1 42 ? -20.198 3.069 2.213 1.00 0.00 ? ? ? ? ? ? 42 ALA A CB 10
+ATOM 17062 H H . ALA A 1 42 ? -18.814 4.703 4.339 1.00 0.00 ? ? ? ? ? ? 42 ALA A H 10
+ATOM 17063 H HA . ALA A 1 42 ? -21.305 4.766 2.919 1.00 0.00 ? ? ? ? ? ? 42 ALA A HA 10
+ATOM 17064 H HB1 . ALA A 1 42 ? -20.348 2.071 2.624 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB1 10
+ATOM 17065 H HB2 . ALA A 1 42 ? -20.860 3.214 1.359 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB2 10
+ATOM 17066 H HB3 . ALA A 1 42 ? -19.162 3.177 1.892 1.00 0.00 ? ? ? ? ? ? 42 ALA A HB3 10
+ATOM 17067 N N . LEU B 1 17 ? -15.877 -5.645 -7.633 1.00 0.00 ? ? ? ? ? ? 17 LEU B N 10
+ATOM 17068 C CA . LEU B 1 17 ? -14.733 -4.778 -7.859 1.00 0.00 ? ? ? ? ? ? 17 LEU B CA 10
+ATOM 17069 C C . LEU B 1 17 ? -13.481 -5.427 -7.267 1.00 0.00 ? ? ? ? ? ? 17 LEU B C 10
+ATOM 17070 O O . LEU B 1 17 ? -13.472 -5.818 -6.101 1.00 0.00 ? ? ? ? ? ? 17 LEU B O 10
+ATOM 17071 C CB . LEU B 1 17 ? -15.011 -3.373 -7.320 1.00 0.00 ? ? ? ? ? ? 17 LEU B CB 10
+ATOM 17072 C CG . LEU B 1 17 ? -15.306 -2.298 -8.368 1.00 0.00 ? ? ? ? ? ? 17 LEU B CG 10
+ATOM 17073 C CD1 . LEU B 1 17 ? -16.287 -1.257 -7.825 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD1 10
+ATOM 17074 C CD2 . LEU B 1 17 ? -14.013 -1.657 -8.876 1.00 0.00 ? ? ? ? ? ? 17 LEU B CD2 10
+ATOM 17075 H H . LEU B 1 17 ? -15.664 -6.521 -7.201 1.00 0.00 ? ? ? ? ? ? 17 LEU B H 10
+ATOM 17076 H HA . LEU B 1 17 ? -14.599 -4.688 -8.937 1.00 0.00 ? ? ? ? ? ? 17 LEU B HA 10
+ATOM 17077 H HB2 . LEU B 1 17 ? -15.858 -3.429 -6.637 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB2 10
+ATOM 17078 H HB3 . LEU B 1 17 ? -14.149 -3.054 -6.734 1.00 0.00 ? ? ? ? ? ? 17 LEU B HB3 10
+ATOM 17079 H HG . LEU B 1 17 ? -15.785 -2.777 -9.223 1.00 0.00 ? ? ? ? ? ? 17 LEU B HG 10
+ATOM 17080 H HD11 . LEU B 1 17 ? -17.289 -1.474 -8.195 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD11 10
+ATOM 17081 H HD12 . LEU B 1 17 ? -16.287 -1.292 -6.736 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD12 10
+ATOM 17082 H HD13 . LEU B 1 17 ? -15.984 -0.264 -8.157 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD13 10
+ATOM 17083 H HD21 . LEU B 1 17 ? -13.279 -1.634 -8.070 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD21 10
+ATOM 17084 H HD22 . LEU B 1 17 ? -13.620 -2.241 -9.708 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD22 10
+ATOM 17085 H HD23 . LEU B 1 17 ? -14.218 -0.640 -9.210 1.00 0.00 ? ? ? ? ? ? 17 LEU B HD23 10
+ATOM 17086 N N . VAL B 1 18 ? -12.453 -5.522 -8.098 1.00 0.00 ? ? ? ? ? ? 18 VAL B N 10
+ATOM 17087 C CA . VAL B 1 18 ? -11.198 -6.118 -7.671 1.00 0.00 ? ? ? ? ? ? 18 VAL B CA 10
+ATOM 17088 C C . VAL B 1 18 ? -10.045 -5.181 -8.034 1.00 0.00 ? ? ? ? ? ? 18 VAL B C 10
+ATOM 17089 O O . VAL B 1 18 ? -9.820 -4.893 -9.209 1.00 0.00 ? ? ? ? ? ? 18 VAL B O 10
+ATOM 17090 C CB . VAL B 1 18 ? -11.048 -7.514 -8.278 1.00 0.00 ? ? ? ? ? ? 18 VAL B CB 10
+ATOM 17091 C CG1 . VAL B 1 18 ? -9.904 -8.281 -7.613 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG1 10
+ATOM 17092 C CG2 . VAL B 1 18 ? -12.360 -8.296 -8.186 1.00 0.00 ? ? ? ? ? ? 18 VAL B CG2 10
+ATOM 17093 H H . VAL B 1 18 ? -12.468 -5.202 -9.045 1.00 0.00 ? ? ? ? ? ? 18 VAL B H 10
+ATOM 17094 H HA . VAL B 1 18 ? -11.236 -6.223 -6.587 1.00 0.00 ? ? ? ? ? ? 18 VAL B HA 10
+ATOM 17095 H HB . VAL B 1 18 ? -10.803 -7.396 -9.334 1.00 0.00 ? ? ? ? ? ? 18 VAL B HB 10
+ATOM 17096 H HG11 . VAL B 1 18 ? -10.313 -9.088 -7.005 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG11 10
+ATOM 17097 H HG12 . VAL B 1 18 ? -9.252 -8.699 -8.380 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG12 10
+ATOM 17098 H HG13 . VAL B 1 18 ? -9.333 -7.603 -6.979 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG13 10
+ATOM 17099 H HG21 . VAL B 1 18 ? -12.861 -8.055 -7.248 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG21 10
+ATOM 17100 H HG22 . VAL B 1 18 ? -13.005 -8.024 -9.022 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG22 10
+ATOM 17101 H HG23 . VAL B 1 18 ? -12.149 -9.365 -8.221 1.00 0.00 ? ? ? ? ? ? 18 VAL B HG23 10
+ATOM 17102 N N . PHE B 1 19 ? -9.344 -4.730 -7.004 1.00 0.00 ? ? ? ? ? ? 19 PHE B N 10
+ATOM 17103 C CA . PHE B 1 19 ? -8.219 -3.831 -7.200 1.00 0.00 ? ? ? ? ? ? 19 PHE B CA 10
+ATOM 17104 C C . PHE B 1 19 ? -6.935 -4.425 -6.616 1.00 0.00 ? ? ? ? ? ? 19 PHE B C 10
+ATOM 17105 O O . PHE B 1 19 ? -6.650 -4.254 -5.432 1.00 0.00 ? ? ? ? ? ? 19 PHE B O 10
+ATOM 17106 C CB . PHE B 1 19 ? -8.549 -2.534 -6.460 1.00 0.00 ? ? ? ? ? ? 19 PHE B CB 10
+ATOM 17107 C CG . PHE B 1 19 ? -8.235 -1.266 -7.257 1.00 0.00 ? ? ? ? ? ? 19 PHE B CG 10
+ATOM 17108 C CD1 . PHE B 1 19 ? -9.129 -0.798 -8.170 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD1 10
+ATOM 17109 C CD2 . PHE B 1 19 ? -7.063 -0.607 -7.053 1.00 0.00 ? ? ? ? ? ? 19 PHE B CD2 10
+ATOM 17110 C CE1 . PHE B 1 19 ? -8.838 0.379 -8.909 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE1 10
+ATOM 17111 C CE2 . PHE B 1 19 ? -6.772 0.570 -7.793 1.00 0.00 ? ? ? ? ? ? 19 PHE B CE2 10
+ATOM 17112 C CZ . PHE B 1 19 ? -7.666 1.038 -8.706 1.00 0.00 ? ? ? ? ? ? 19 PHE B CZ 10
+ATOM 17113 H H . PHE B 1 19 ? -9.533 -4.968 -6.051 1.00 0.00 ? ? ? ? ? ? 19 PHE B H 10
+ATOM 17114 H HA . PHE B 1 19 ? -8.098 -3.694 -8.274 1.00 0.00 ? ? ? ? ? ? 19 PHE B HA 10
+ATOM 17115 H HB2 . PHE B 1 19 ? -9.607 -2.534 -6.200 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB2 10
+ATOM 17116 H HB3 . PHE B 1 19 ? -7.991 -2.509 -5.524 1.00 0.00 ? ? ? ? ? ? 19 PHE B HB3 10
+ATOM 17117 H HD1 . PHE B 1 19 ? -10.068 -1.326 -8.333 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD1 10
+ATOM 17118 H HD2 . PHE B 1 19 ? -6.347 -0.982 -6.322 1.00 0.00 ? ? ? ? ? ? 19 PHE B HD2 10
+ATOM 17119 H HE1 . PHE B 1 19 ? -9.554 0.754 -9.641 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE1 10
+ATOM 17120 H HE2 . PHE B 1 19 ? -5.833 1.098 -7.629 1.00 0.00 ? ? ? ? ? ? 19 PHE B HE2 10
+ATOM 17121 H HZ . PHE B 1 19 ? -7.442 1.941 -9.274 1.00 0.00 ? ? ? ? ? ? 19 PHE B HZ 10
+ATOM 17122 N N . PHE B 1 20 ? -6.194 -5.110 -7.475 1.00 0.00 ? ? ? ? ? ? 20 PHE B N 10
+ATOM 17123 C CA . PHE B 1 20 ? -4.947 -5.730 -7.059 1.00 0.00 ? ? ? ? ? ? 20 PHE B CA 10
+ATOM 17124 C C . PHE B 1 20 ? -3.754 -4.825 -7.374 1.00 0.00 ? ? ? ? ? ? 20 PHE B C 10
+ATOM 17125 O O . PHE B 1 20 ? -3.681 -4.242 -8.455 1.00 0.00 ? ? ? ? ? ? 20 PHE B O 10
+ATOM 17126 C CB . PHE B 1 20 ? -4.809 -7.031 -7.852 1.00 0.00 ? ? ? ? ? ? 20 PHE B CB 10
+ATOM 17127 C CG . PHE B 1 20 ? -4.603 -8.272 -6.980 1.00 0.00 ? ? ? ? ? ? 20 PHE B CG 10
+ATOM 17128 C CD1 . PHE B 1 20 ? -5.679 -8.939 -6.483 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD1 10
+ATOM 17129 C CD2 . PHE B 1 20 ? -3.345 -8.707 -6.703 1.00 0.00 ? ? ? ? ? ? 20 PHE B CD2 10
+ATOM 17130 C CE1 . PHE B 1 20 ? -5.488 -10.090 -5.674 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE1 10
+ATOM 17131 C CE2 . PHE B 1 20 ? -3.155 -9.858 -5.894 1.00 0.00 ? ? ? ? ? ? 20 PHE B CE2 10
+ATOM 17132 C CZ . PHE B 1 20 ? -4.230 -10.525 -5.396 1.00 0.00 ? ? ? ? ? ? 20 PHE B CZ 10
+ATOM 17133 H H . PHE B 1 20 ? -6.433 -5.244 -8.437 1.00 0.00 ? ? ? ? ? ? 20 PHE B H 10
+ATOM 17134 H HA . PHE B 1 20 ? -5.007 -5.887 -5.983 1.00 0.00 ? ? ? ? ? ? 20 PHE B HA 10
+ATOM 17135 H HB2 . PHE B 1 20 ? -5.702 -7.171 -8.460 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB2 10
+ATOM 17136 H HB3 . PHE B 1 20 ? -3.967 -6.939 -8.538 1.00 0.00 ? ? ? ? ? ? 20 PHE B HB3 10
+ATOM 17137 H HD1 . PHE B 1 20 ? -6.687 -8.590 -6.705 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD1 10
+ATOM 17138 H HD2 . PHE B 1 20 ? -2.483 -8.172 -7.101 1.00 0.00 ? ? ? ? ? ? 20 PHE B HD2 10
+ATOM 17139 H HE1 . PHE B 1 20 ? -6.351 -10.625 -5.275 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE1 10
+ATOM 17140 H HE2 . PHE B 1 20 ? -2.146 -10.207 -5.671 1.00 0.00 ? ? ? ? ? ? 20 PHE B HE2 10
+ATOM 17141 H HZ . PHE B 1 20 ? -4.084 -11.409 -4.775 1.00 0.00 ? ? ? ? ? ? 20 PHE B HZ 10
+ATOM 17142 N N . ALA B 1 21 ? -2.849 -4.737 -6.411 1.00 0.00 ? ? ? ? ? ? 21 ALA B N 10
+ATOM 17143 C CA . ALA B 1 21 ? -1.662 -3.914 -6.572 1.00 0.00 ? ? ? ? ? ? 21 ALA B CA 10
+ATOM 17144 C C . ALA B 1 21 ? -0.457 -4.642 -5.974 1.00 0.00 ? ? ? ? ? ? 21 ALA B C 10
+ATOM 17145 O O . ALA B 1 21 ? -0.090 -4.403 -4.825 1.00 0.00 ? ? ? ? ? ? 21 ALA B O 10
+ATOM 17146 C CB . ALA B 1 21 ? -1.897 -2.548 -5.925 1.00 0.00 ? ? ? ? ? ? 21 ALA B CB 10
+ATOM 17147 H H . ALA B 1 21 ? -2.916 -5.215 -5.535 1.00 0.00 ? ? ? ? ? ? 21 ALA B H 10
+ATOM 17148 H HA . ALA B 1 21 ? -1.498 -3.773 -7.640 1.00 0.00 ? ? ? ? ? ? 21 ALA B HA 10
+ATOM 17149 H HB1 . ALA B 1 21 ? -1.343 -2.489 -4.988 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB1 10
+ATOM 17150 H HB2 . ALA B 1 21 ? -1.556 -1.763 -6.599 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB2 10
+ATOM 17151 H HB3 . ALA B 1 21 ? -2.961 -2.418 -5.726 1.00 0.00 ? ? ? ? ? ? 21 ALA B HB3 10
+ATOM 17152 N N . GLU B 1 22 ? 0.126 -5.516 -6.782 1.00 0.00 ? ? ? ? ? ? 22 GLU B N 10
+ATOM 17153 C CA . GLU B 1 22 ? 1.283 -6.281 -6.347 1.00 0.00 ? ? ? ? ? ? 22 GLU B CA 10
+ATOM 17154 C C . GLU B 1 22 ? 2.550 -5.760 -7.029 1.00 0.00 ? ? ? ? ? ? 22 GLU B C 10
+ATOM 17155 O O . GLU B 1 22 ? 2.631 -5.729 -8.256 1.00 0.00 ? ? ? ? ? ? 22 GLU B O 10
+ATOM 17156 C CB . GLU B 1 22 ? 1.088 -7.773 -6.620 1.00 0.00 ? ? ? ? ? ? 22 GLU B CB 10
+ATOM 17157 C CG . GLU B 1 22 ? 2.108 -8.610 -5.847 1.00 0.00 ? ? ? ? ? ? 22 GLU B CG 10
+ATOM 17158 C CD . GLU B 1 22 ? 2.392 -9.931 -6.566 1.00 0.00 ? ? ? ? ? ? 22 GLU B CD 10
+ATOM 17159 O OE1 . GLU B 1 22 ? 1.406 -10.560 -7.006 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE1 10
+ATOM 17160 O OE2 . GLU B 1 22 ? 3.589 -10.281 -6.658 1.00 0.00 ? ? ? ? ? ? 22 GLU B OE2 10
+ATOM 17161 H H . GLU B 1 22 ? -0.179 -5.705 -7.715 1.00 0.00 ? ? ? ? ? ? 22 GLU B H 10
+ATOM 17162 H HA . GLU B 1 22 ? 1.349 -6.120 -5.271 1.00 0.00 ? ? ? ? ? ? 22 GLU B HA 10
+ATOM 17163 H HB2 . GLU B 1 22 ? 0.078 -8.070 -6.335 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB2 10
+ATOM 17164 H HB3 . GLU B 1 22 ? 1.187 -7.967 -7.688 1.00 0.00 ? ? ? ? ? ? 22 GLU B HB3 10
+ATOM 17165 H HG2 . GLU B 1 22 ? 3.035 -8.047 -5.734 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG2 10
+ATOM 17166 H HG3 . GLU B 1 22 ? 1.733 -8.812 -4.843 1.00 0.00 ? ? ? ? ? ? 22 GLU B HG3 10
+ATOM 17167 N N . ASP B 1 23 ? 3.507 -5.363 -6.203 1.00 0.00 ? ? ? ? ? ? 23 ASP B N 10
+ATOM 17168 C CA . ASP B 1 23 ? 4.766 -4.846 -6.710 1.00 0.00 ? ? ? ? ? ? 23 ASP B CA 10
+ATOM 17169 C C . ASP B 1 23 ? 5.901 -5.791 -6.309 1.00 0.00 ? ? ? ? ? ? 23 ASP B C 10
+ATOM 17170 O O . ASP B 1 23 ? 6.281 -5.850 -5.141 1.00 0.00 ? ? ? ? ? ? 23 ASP B O 10
+ATOM 17171 C CB . ASP B 1 23 ? 5.071 -3.466 -6.124 1.00 0.00 ? ? ? ? ? ? 23 ASP B CB 10
+ATOM 17172 C CG . ASP B 1 23 ? 6.288 -2.761 -6.727 1.00 0.00 ? ? ? ? ? ? 23 ASP B CG 10
+ATOM 17173 O OD1 . ASP B 1 23 ? 6.445 -2.858 -7.963 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD1 10
+ATOM 17174 O OD2 . ASP B 1 23 ? 7.033 -2.140 -5.938 1.00 0.00 ? ? ? ? ? ? 23 ASP B OD2 10
+ATOM 17175 H H . ASP B 1 23 ? 3.433 -5.392 -5.206 1.00 0.00 ? ? ? ? ? ? 23 ASP B H 10
+ATOM 17176 H HA . ASP B 1 23 ? 4.636 -4.785 -7.791 1.00 0.00 ? ? ? ? ? ? 23 ASP B HA 10
+ATOM 17177 H HB2 . ASP B 1 23 ? 4.197 -2.829 -6.259 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB2 10
+ATOM 17178 H HB3 . ASP B 1 23 ? 5.226 -3.570 -5.050 1.00 0.00 ? ? ? ? ? ? 23 ASP B HB3 10
+ATOM 17179 N N . VAL B 1 24 ? 6.410 -6.507 -7.301 1.00 0.00 ? ? ? ? ? ? 24 VAL B N 10
+ATOM 17180 C CA . VAL B 1 24 ? 7.493 -7.447 -7.066 1.00 0.00 ? ? ? ? ? ? 24 VAL B CA 10
+ATOM 17181 C C . VAL B 1 24 ? 8.829 -6.763 -7.364 1.00 0.00 ? ? ? ? ? ? 24 VAL B C 10
+ATOM 17182 O O . VAL B 1 24 ? 9.238 -6.670 -8.520 1.00 0.00 ? ? ? ? ? ? 24 VAL B O 10
+ATOM 17183 C CB . VAL B 1 24 ? 7.273 -8.716 -7.892 1.00 0.00 ? ? ? ? ? ? 24 VAL B CB 10
+ATOM 17184 C CG1 . VAL B 1 24 ? 8.511 -9.615 -7.856 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG1 10
+ATOM 17185 C CG2 . VAL B 1 24 ? 6.032 -9.472 -7.415 1.00 0.00 ? ? ? ? ? ? 24 VAL B CG2 10
+ATOM 17186 H H . VAL B 1 24 ? 6.095 -6.454 -8.248 1.00 0.00 ? ? ? ? ? ? 24 VAL B H 10
+ATOM 17187 H HA . VAL B 1 24 ? 7.467 -7.722 -6.011 1.00 0.00 ? ? ? ? ? ? 24 VAL B HA 10
+ATOM 17188 H HB . VAL B 1 24 ? 7.106 -8.417 -8.927 1.00 0.00 ? ? ? ? ? ? 24 VAL B HB 10
+ATOM 17189 H HG11 . VAL B 1 24 ? 8.759 -9.850 -6.821 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG11 10
+ATOM 17190 H HG12 . VAL B 1 24 ? 8.306 -10.537 -8.399 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG12 10
+ATOM 17191 H HG13 . VAL B 1 24 ? 9.349 -9.097 -8.322 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG13 10
+ATOM 17192 H HG21 . VAL B 1 24 ? 5.241 -9.379 -8.159 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG21 10
+ATOM 17193 H HG22 . VAL B 1 24 ? 6.279 -10.525 -7.278 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG22 10
+ATOM 17194 H HG23 . VAL B 1 24 ? 5.692 -9.053 -6.469 1.00 0.00 ? ? ? ? ? ? 24 VAL B HG23 10
+ATOM 17195 N N . GLY B 1 25 ? 9.471 -6.303 -6.301 1.00 0.00 ? ? ? ? ? ? 25 GLY B N 10
+ATOM 17196 C CA . GLY B 1 25 ? 10.753 -5.631 -6.434 1.00 0.00 ? ? ? ? ? ? 25 GLY B CA 10
+ATOM 17197 C C . GLY B 1 25 ? 11.874 -6.459 -5.803 1.00 0.00 ? ? ? ? ? ? 25 GLY B C 10
+ATOM 17198 O O . GLY B 1 25 ? 11.922 -6.620 -4.585 1.00 0.00 ? ? ? ? ? ? 25 GLY B O 10
+ATOM 17199 H H . GLY B 1 25 ? 9.131 -6.383 -5.364 1.00 0.00 ? ? ? ? ? ? 25 GLY B H 10
+ATOM 17200 H HA2 . GLY B 1 25 ? 10.970 -5.460 -7.488 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA2 10
+ATOM 17201 H HA3 . GLY B 1 25 ? 10.705 -4.652 -5.956 1.00 0.00 ? ? ? ? ? ? 25 GLY B HA3 10
+ATOM 17202 N N . SER B 1 26 ? 12.749 -6.961 -6.662 1.00 0.00 ? ? ? ? ? ? 26 SER B N 10
+ATOM 17203 C CA . SER B 1 26 ? 13.868 -7.769 -6.204 1.00 0.00 ? ? ? ? ? ? 26 SER B CA 10
+ATOM 17204 C C . SER B 1 26 ? 15.110 -6.893 -6.034 1.00 0.00 ? ? ? ? ? ? 26 SER B C 10
+ATOM 17205 O O . SER B 1 26 ? 15.787 -6.572 -7.010 1.00 0.00 ? ? ? ? ? ? 26 SER B O 10
+ATOM 17206 C CB . SER B 1 26 ? 14.155 -8.914 -7.177 1.00 0.00 ? ? ? ? ? ? 26 SER B CB 10
+ATOM 17207 O OG . SER B 1 26 ? 13.014 -9.744 -7.376 1.00 0.00 ? ? ? ? ? ? 26 SER B OG 10
+ATOM 17208 H H . SER B 1 26 ? 12.703 -6.825 -7.651 1.00 0.00 ? ? ? ? ? ? 26 SER B H 10
+ATOM 17209 H HA . SER B 1 26 ? 13.554 -8.179 -5.244 1.00 0.00 ? ? ? ? ? ? 26 SER B HA 10
+ATOM 17210 H HB2 . SER B 1 26 ? 14.476 -8.504 -8.135 1.00 0.00 ? ? ? ? ? ? 26 SER B HB2 10
+ATOM 17211 H HB3 . SER B 1 26 ? 14.980 -9.515 -6.796 1.00 0.00 ? ? ? ? ? ? 26 SER B HB3 10
+ATOM 17212 H HG . SER B 1 26 ? 13.304 -10.673 -7.607 1.00 0.00 ? ? ? ? ? ? 26 SER B HG 10
+ATOM 17213 N N . ASN B 1 27 ? 15.373 -6.531 -4.786 1.00 0.00 ? ? ? ? ? ? 27 ASN B N 10
+ATOM 17214 C CA . ASN B 1 27 ? 16.523 -5.698 -4.476 1.00 0.00 ? ? ? ? ? ? 27 ASN B CA 10
+ATOM 17215 C C . ASN B 1 27 ? 16.213 -4.248 -4.851 1.00 0.00 ? ? ? ? ? ? 27 ASN B C 10
+ATOM 17216 O O . ASN B 1 27 ? 16.950 -3.631 -5.619 1.00 0.00 ? ? ? ? ? ? 27 ASN B O 10
+ATOM 17217 C CB . ASN B 1 27 ? 17.754 -6.139 -5.270 1.00 0.00 ? ? ? ? ? ? 27 ASN B CB 10
+ATOM 17218 C CG . ASN B 1 27 ? 19.031 -5.953 -4.449 1.00 0.00 ? ? ? ? ? ? 27 ASN B CG 10
+ATOM 17219 O OD1 . ASN B 1 27 ? 19.474 -6.836 -3.733 1.00 0.00 ? ? ? ? ? ? 27 ASN B OD1 10
+ATOM 17220 N ND2 . ASN B 1 27 ? 19.597 -4.758 -4.593 1.00 0.00 ? ? ? ? ? ? 27 ASN B ND2 10
+ATOM 17221 H H . ASN B 1 27 ? 14.818 -6.796 -3.998 1.00 0.00 ? ? ? ? ? ? 27 ASN B H 10
+ATOM 17222 H HA . ASN B 1 27 ? 16.688 -5.826 -3.406 1.00 0.00 ? ? ? ? ? ? 27 ASN B HA 10
+ATOM 17223 H HB2 . ASN B 1 27 ? 17.650 -7.186 -5.556 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB2 10
+ATOM 17224 H HB3 . ASN B 1 27 ? 17.822 -5.563 -6.192 1.00 0.00 ? ? ? ? ? ? 27 ASN B HB3 10
+ATOM 17225 H HD21 . ASN B 1 27 ? 19.183 -4.078 -5.198 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD21 10
+ATOM 17226 H HD22 . ASN B 1 27 ? 20.438 -4.540 -4.097 1.00 0.00 ? ? ? ? ? ? 27 ASN B HD22 10
+ATOM 17227 N N . LYS B 1 28 ? 15.122 -3.745 -4.293 1.00 0.00 ? ? ? ? ? ? 28 LYS B N 10
+ATOM 17228 C CA . LYS B 1 28 ? 14.706 -2.379 -4.559 1.00 0.00 ? ? ? ? ? ? 28 LYS B CA 10
+ATOM 17229 C C . LYS B 1 28 ? 15.045 -1.502 -3.352 1.00 0.00 ? ? ? ? ? ? 28 LYS B C 10
+ATOM 17230 O O . LYS B 1 28 ? 15.614 -1.981 -2.373 1.00 0.00 ? ? ? ? ? ? 28 LYS B O 10
+ATOM 17231 C CB . LYS B 1 28 ? 13.228 -2.336 -4.955 1.00 0.00 ? ? ? ? ? ? 28 LYS B CB 10
+ATOM 17232 C CG . LYS B 1 28 ? 12.330 -2.636 -3.753 1.00 0.00 ? ? ? ? ? ? 28 LYS B CG 10
+ATOM 17233 C CD . LYS B 1 28 ? 11.100 -1.727 -3.747 1.00 0.00 ? ? ? ? ? ? 28 LYS B CD 10
+ATOM 17234 C CE . LYS B 1 28 ? 9.810 -2.548 -3.694 1.00 0.00 ? ? ? ? ? ? 28 LYS B CE 10
+ATOM 17235 N NZ . LYS B 1 28 ? 8.716 -1.756 -3.090 1.00 0.00 ? ? ? ? ? ? 28 LYS B NZ 10
+ATOM 17236 H H . LYS B 1 28 ? 14.528 -4.254 -3.669 1.00 0.00 ? ? ? ? ? ? 28 LYS B H 10
+ATOM 17237 H HA . LYS B 1 28 ? 15.279 -2.024 -5.416 1.00 0.00 ? ? ? ? ? ? 28 LYS B HA 10
+ATOM 17238 H HB2 . LYS B 1 28 ? 12.984 -1.354 -5.360 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB2 10
+ATOM 17239 H HB3 . LYS B 1 28 ? 13.039 -3.062 -5.745 1.00 0.00 ? ? ? ? ? ? 28 LYS B HB3 10
+ATOM 17240 H HG2 . LYS B 1 28 ? 12.015 -3.679 -3.781 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG2 10
+ATOM 17241 H HG3 . LYS B 1 28 ? 12.893 -2.498 -2.830 1.00 0.00 ? ? ? ? ? ? 28 LYS B HG3 10
+ATOM 17242 H HD2 . LYS B 1 28 ? 11.143 -1.055 -2.890 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD2 10
+ATOM 17243 H HD3 . LYS B 1 28 ? 11.100 -1.102 -4.641 1.00 0.00 ? ? ? ? ? ? 28 LYS B HD3 10
+ATOM 17244 H HE2 . LYS B 1 28 ? 9.529 -2.861 -4.699 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE2 10
+ATOM 17245 H HE3 . LYS B 1 28 ? 9.975 -3.456 -3.112 1.00 0.00 ? ? ? ? ? ? 28 LYS B HE3 10
+ATOM 17246 H HZ1 . LYS B 1 28 ? 7.896 -1.835 -3.656 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ1 10
+ATOM 17247 H HZ2 . LYS B 1 28 ? 8.521 -2.102 -2.172 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ2 10
+ATOM 17248 H HZ3 . LYS B 1 28 ? 8.991 -0.797 -3.033 1.00 0.00 ? ? ? ? ? ? 28 LYS B HZ3 10
+ATOM 17249 N N . GLY B 1 29 ? 14.680 -0.233 -3.462 1.00 0.00 ? ? ? ? ? ? 29 GLY B N 10
+ATOM 17250 C CA . GLY B 1 29 ? 14.938 0.715 -2.392 1.00 0.00 ? ? ? ? ? ? 29 GLY B CA 10
+ATOM 17251 C C . GLY B 1 29 ? 15.355 2.076 -2.953 1.00 0.00 ? ? ? ? ? ? 29 GLY B C 10
+ATOM 17252 O O . GLY B 1 29 ? 14.693 2.615 -3.839 1.00 0.00 ? ? ? ? ? ? 29 GLY B O 10
+ATOM 17253 H H . GLY B 1 29 ? 14.217 0.149 -4.262 1.00 0.00 ? ? ? ? ? ? 29 GLY B H 10
+ATOM 17254 H HA2 . GLY B 1 29 ? 14.044 0.829 -1.778 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA2 10
+ATOM 17255 H HA3 . GLY B 1 29 ? 15.724 0.330 -1.741 1.00 0.00 ? ? ? ? ? ? 29 GLY B HA3 10
+ATOM 17256 N N . ALA B 1 30 ? 16.450 2.592 -2.415 1.00 0.00 ? ? ? ? ? ? 30 ALA B N 10
+ATOM 17257 C CA . ALA B 1 30 ? 16.963 3.880 -2.851 1.00 0.00 ? ? ? ? ? ? 30 ALA B CA 10
+ATOM 17258 C C . ALA B 1 30 ? 15.943 4.970 -2.517 1.00 0.00 ? ? ? ? ? ? 30 ALA B C 10
+ATOM 17259 O O . ALA B 1 30 ? 15.847 5.405 -1.370 1.00 0.00 ? ? ? ? ? ? 30 ALA B O 10
+ATOM 17260 C CB . ALA B 1 30 ? 17.285 3.821 -4.345 1.00 0.00 ? ? ? ? ? ? 30 ALA B CB 10
+ATOM 17261 H H . ALA B 1 30 ? 16.983 2.147 -1.695 1.00 0.00 ? ? ? ? ? ? 30 ALA B H 10
+ATOM 17262 H HA . ALA B 1 30 ? 17.884 4.074 -2.301 1.00 0.00 ? ? ? ? ? ? 30 ALA B HA 10
+ATOM 17263 H HB1 . ALA B 1 30 ? 18.234 3.306 -4.493 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB1 10
+ATOM 17264 H HB2 . ALA B 1 30 ? 16.494 3.283 -4.867 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB2 10
+ATOM 17265 H HB3 . ALA B 1 30 ? 17.357 4.834 -4.742 1.00 0.00 ? ? ? ? ? ? 30 ALA B HB3 10
+ATOM 17266 N N . ILE B 1 31 ? 15.207 5.380 -3.539 1.00 0.00 ? ? ? ? ? ? 31 ILE B N 10
+ATOM 17267 C CA . ILE B 1 31 ? 14.197 6.412 -3.368 1.00 0.00 ? ? ? ? ? ? 31 ILE B CA 10
+ATOM 17268 C C . ILE B 1 31 ? 12.908 5.979 -4.068 1.00 0.00 ? ? ? ? ? ? 31 ILE B C 10
+ATOM 17269 O O . ILE B 1 31 ? 12.794 6.087 -5.288 1.00 0.00 ? ? ? ? ? ? 31 ILE B O 10
+ATOM 17270 C CB . ILE B 1 31 ? 14.729 7.766 -3.841 1.00 0.00 ? ? ? ? ? ? 31 ILE B CB 10
+ATOM 17271 C CG1 . ILE B 1 31 ? 15.632 8.401 -2.781 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG1 10
+ATOM 17272 C CG2 . ILE B 1 31 ? 13.583 8.694 -4.248 1.00 0.00 ? ? ? ? ? ? 31 ILE B CG2 10
+ATOM 17273 C CD1 . ILE B 1 31 ? 16.776 9.182 -3.432 1.00 0.00 ? ? ? ? ? ? 31 ILE B CD1 10
+ATOM 17274 H H . ILE B 1 31 ? 15.291 5.022 -4.468 1.00 0.00 ? ? ? ? ? ? 31 ILE B H 10
+ATOM 17275 H HA . ILE B 1 31 ? 13.998 6.499 -2.300 1.00 0.00 ? ? ? ? ? ? 31 ILE B HA 10
+ATOM 17276 H HB . ILE B 1 31 ? 15.341 7.601 -4.728 1.00 0.00 ? ? ? ? ? ? 31 ILE B HB 10
+ATOM 17277 H HG12 . ILE B 1 31 ? 15.045 9.067 -2.150 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG12 10
+ATOM 17278 H HG13 . ILE B 1 31 ? 16.040 7.625 -2.133 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG13 10
+ATOM 17279 H HG21 . ILE B 1 31 ? 12.677 8.407 -3.713 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG21 10
+ATOM 17280 H HG22 . ILE B 1 31 ? 13.842 9.723 -3.998 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG22 10
+ATOM 17281 H HG23 . ILE B 1 31 ? 13.413 8.612 -5.321 1.00 0.00 ? ? ? ? ? ? 31 ILE B HG23 10
+ATOM 17282 H HD11 . ILE B 1 31 ? 17.466 9.525 -2.661 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD11 10
+ATOM 17283 H HD12 . ILE B 1 31 ? 17.305 8.536 -4.133 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD12 10
+ATOM 17284 H HD13 . ILE B 1 31 ? 16.371 10.042 -3.966 1.00 0.00 ? ? ? ? ? ? 31 ILE B HD13 10
+ATOM 17285 N N . ILE B 1 32 ? 11.970 5.497 -3.267 1.00 0.00 ? ? ? ? ? ? 32 ILE B N 10
+ATOM 17286 C CA . ILE B 1 32 ? 10.693 5.047 -3.795 1.00 0.00 ? ? ? ? ? ? 32 ILE B CA 10
+ATOM 17287 C C . ILE B 1 32 ? 9.574 5.921 -3.226 1.00 0.00 ? ? ? ? ? ? 32 ILE B C 10
+ATOM 17288 O O . ILE B 1 32 ? 9.663 6.390 -2.092 1.00 0.00 ? ? ? ? ? ? 32 ILE B O 10
+ATOM 17289 C CB . ILE B 1 32 ? 10.500 3.552 -3.530 1.00 0.00 ? ? ? ? ? ? 32 ILE B CB 10
+ATOM 17290 C CG1 . ILE B 1 32 ? 9.662 2.903 -4.633 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG1 10
+ATOM 17291 C CG2 . ILE B 1 32 ? 9.903 3.314 -2.142 1.00 0.00 ? ? ? ? ? ? 32 ILE B CG2 10
+ATOM 17292 C CD1 . ILE B 1 32 ? 9.919 1.397 -4.703 1.00 0.00 ? ? ? ? ? ? 32 ILE B CD1 10
+ATOM 17293 H H . ILE B 1 32 ? 12.071 5.411 -2.276 1.00 0.00 ? ? ? ? ? ? 32 ILE B H 10
+ATOM 17294 H HA . ILE B 1 32 ? 10.721 5.181 -4.876 1.00 0.00 ? ? ? ? ? ? 32 ILE B HA 10
+ATOM 17295 H HB . ILE B 1 32 ? 11.480 3.073 -3.546 1.00 0.00 ? ? ? ? ? ? 32 ILE B HB 10
+ATOM 17296 H HG12 . ILE B 1 32 ? 8.604 3.087 -4.447 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG12 10
+ATOM 17297 H HG13 . ILE B 1 32 ? 9.901 3.361 -5.593 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG13 10
+ATOM 17298 H HG21 . ILE B 1 32 ? 9.905 4.248 -1.580 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG21 10
+ATOM 17299 H HG22 . ILE B 1 32 ? 8.880 2.953 -2.243 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG22 10
+ATOM 17300 H HG23 . ILE B 1 32 ? 10.500 2.571 -1.612 1.00 0.00 ? ? ? ? ? ? 32 ILE B HG23 10
+ATOM 17301 H HD11 . ILE B 1 32 ? 10.970 1.217 -4.931 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD11 10
+ATOM 17302 H HD12 . ILE B 1 32 ? 9.673 0.941 -3.744 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD12 10
+ATOM 17303 H HD13 . ILE B 1 32 ? 9.298 0.958 -5.484 1.00 0.00 ? ? ? ? ? ? 32 ILE B HD13 10
+ATOM 17304 N N . GLY B 1 33 ? 8.546 6.115 -4.040 1.00 0.00 ? ? ? ? ? ? 33 GLY B N 10
+ATOM 17305 C CA . GLY B 1 33 ? 7.411 6.925 -3.632 1.00 0.00 ? ? ? ? ? ? 33 GLY B CA 10
+ATOM 17306 C C . GLY B 1 33 ? 6.091 6.223 -3.959 1.00 0.00 ? ? ? ? ? ? 33 GLY B C 10
+ATOM 17307 O O . GLY B 1 33 ? 5.508 6.452 -5.017 1.00 0.00 ? ? ? ? ? ? 33 GLY B O 10
+ATOM 17308 H H . GLY B 1 33 ? 8.481 5.730 -4.960 1.00 0.00 ? ? ? ? ? ? 33 GLY B H 10
+ATOM 17309 H HA2 . GLY B 1 33 ? 7.467 7.122 -2.561 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA2 10
+ATOM 17310 H HA3 . GLY B 1 33 ? 7.449 7.890 -4.136 1.00 0.00 ? ? ? ? ? ? 33 GLY B HA3 10
+ATOM 17311 N N . LEU B 1 34 ? 5.658 5.383 -3.030 1.00 0.00 ? ? ? ? ? ? 34 LEU B N 10
+ATOM 17312 C CA . LEU B 1 34 ? 4.418 4.647 -3.206 1.00 0.00 ? ? ? ? ? ? 34 LEU B CA 10
+ATOM 17313 C C . LEU B 1 34 ? 3.269 5.432 -2.570 1.00 0.00 ? ? ? ? ? ? 34 LEU B C 10
+ATOM 17314 O O . LEU B 1 34 ? 3.387 5.907 -1.441 1.00 0.00 ? ? ? ? ? ? 34 LEU B O 10
+ATOM 17315 C CB . LEU B 1 34 ? 4.560 3.222 -2.669 1.00 0.00 ? ? ? ? ? ? 34 LEU B CB 10
+ATOM 17316 C CG . LEU B 1 34 ? 4.666 2.116 -3.721 1.00 0.00 ? ? ? ? ? ? 34 LEU B CG 10
+ATOM 17317 C CD1 . LEU B 1 34 ? 6.091 2.017 -4.271 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD1 10
+ATOM 17318 C CD2 . LEU B 1 34 ? 4.173 0.779 -3.164 1.00 0.00 ? ? ? ? ? ? 34 LEU B CD2 10
+ATOM 17319 H H . LEU B 1 34 ? 6.138 5.203 -2.172 1.00 0.00 ? ? ? ? ? ? 34 LEU B H 10
+ATOM 17320 H HA . LEU B 1 34 ? 4.233 4.571 -4.278 1.00 0.00 ? ? ? ? ? ? 34 LEU B HA 10
+ATOM 17321 H HB2 . LEU B 1 34 ? 5.447 3.180 -2.036 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB2 10
+ATOM 17322 H HB3 . LEU B 1 34 ? 3.703 3.008 -2.031 1.00 0.00 ? ? ? ? ? ? 34 LEU B HB3 10
+ATOM 17323 H HG . LEU B 1 34 ? 4.016 2.376 -4.557 1.00 0.00 ? ? ? ? ? ? 34 LEU B HG 10
+ATOM 17324 H HD11 . LEU B 1 34 ? 6.158 1.171 -4.955 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD11 10
+ATOM 17325 H HD12 . LEU B 1 34 ? 6.339 2.935 -4.803 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD12 10
+ATOM 17326 H HD13 . LEU B 1 34 ? 6.789 1.875 -3.446 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD13 10
+ATOM 17327 H HD21 . LEU B 1 34 ? 3.104 0.842 -2.962 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD21 10
+ATOM 17328 H HD22 . LEU B 1 34 ? 4.360 -0.009 -3.892 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD22 10
+ATOM 17329 H HD23 . LEU B 1 34 ? 4.704 0.553 -2.239 1.00 0.00 ? ? ? ? ? ? 34 LEU B HD23 10
+ATOM 17330 N N . MET B 1 35 ? 2.184 5.545 -3.322 1.00 0.00 ? ? ? ? ? ? 35 MET B N 10
+ATOM 17331 C CA . MET B 1 35 ? 1.015 6.265 -2.846 1.00 0.00 ? ? ? ? ? ? 35 MET B CA 10
+ATOM 17332 C C . MET B 1 35 ? -0.274 5.607 -3.344 1.00 0.00 ? ? ? ? ? ? 35 MET B C 10
+ATOM 17333 O O . MET B 1 35 ? -0.670 5.800 -4.492 1.00 0.00 ? ? ? ? ? ? 35 MET B O 10
+ATOM 17334 C CB . MET B 1 35 ? 1.072 7.713 -3.336 1.00 0.00 ? ? ? ? ? ? 35 MET B CB 10
+ATOM 17335 C CG . MET B 1 35 ? -0.031 8.554 -2.691 1.00 0.00 ? ? ? ? ? ? 35 MET B CG 10
+ATOM 17336 S SD . MET B 1 35 ? 0.345 10.290 -2.863 1.00 0.00 ? ? ? ? ? ? 35 MET B SD 10
+ATOM 17337 C CE . MET B 1 35 ? -1.308 10.964 -2.889 1.00 0.00 ? ? ? ? ? ? 35 MET B CE 10
+ATOM 17338 H H . MET B 1 35 ? 2.097 5.156 -4.239 1.00 0.00 ? ? ? ? ? ? 35 MET B H 10
+ATOM 17339 H HA . MET B 1 35 ? 1.062 6.211 -1.758 1.00 0.00 ? ? ? ? ? ? 35 MET B HA 10
+ATOM 17340 H HB2 . MET B 1 35 ? 2.046 8.142 -3.101 1.00 0.00 ? ? ? ? ? ? 35 MET B HB2 10
+ATOM 17341 H HB3 . MET B 1 35 ? 0.966 7.738 -4.421 1.00 0.00 ? ? ? ? ? ? 35 MET B HB3 10
+ATOM 17342 H HG2 . MET B 1 35 ? -0.990 8.333 -3.159 1.00 0.00 ? ? ? ? ? ? 35 MET B HG2 10
+ATOM 17343 H HG3 . MET B 1 35 ? -0.125 8.297 -1.635 1.00 0.00 ? ? ? ? ? ? 35 MET B HG3 10
+ATOM 17344 H HE1 . MET B 1 35 ? -2.021 10.170 -3.110 1.00 0.00 ? ? ? ? ? ? 35 MET B HE1 10
+ATOM 17345 H HE2 . MET B 1 35 ? -1.538 11.399 -1.916 1.00 0.00 ? ? ? ? ? ? 35 MET B HE2 10
+ATOM 17346 H HE3 . MET B 1 35 ? -1.374 11.736 -3.656 1.00 0.00 ? ? ? ? ? ? 35 MET B HE3 10
+ATOM 17347 N N . VAL B 1 36 ? -0.892 4.844 -2.455 1.00 0.00 ? ? ? ? ? ? 36 VAL B N 10
+ATOM 17348 C CA . VAL B 1 36 ? -2.128 4.157 -2.790 1.00 0.00 ? ? ? ? ? ? 36 VAL B CA 10
+ATOM 17349 C C . VAL B 1 36 ? -3.278 4.763 -1.984 1.00 0.00 ? ? ? ? ? ? 36 VAL B C 10
+ATOM 17350 O O . VAL B 1 36 ? -3.126 5.050 -0.797 1.00 0.00 ? ? ? ? ? ? 36 VAL B O 10
+ATOM 17351 C CB . VAL B 1 36 ? -1.968 2.652 -2.563 1.00 0.00 ? ? ? ? ? ? 36 VAL B CB 10
+ATOM 17352 C CG1 . VAL B 1 36 ? -1.326 2.367 -1.204 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG1 10
+ATOM 17353 C CG2 . VAL B 1 36 ? -3.311 1.932 -2.697 1.00 0.00 ? ? ? ? ? ? 36 VAL B CG2 10
+ATOM 17354 H H . VAL B 1 36 ? -0.564 4.692 -1.523 1.00 0.00 ? ? ? ? ? ? 36 VAL B H 10
+ATOM 17355 H HA . VAL B 1 36 ? -2.319 4.320 -3.850 1.00 0.00 ? ? ? ? ? ? 36 VAL B HA 10
+ATOM 17356 H HB . VAL B 1 36 ? -1.303 2.266 -3.336 1.00 0.00 ? ? ? ? ? ? 36 VAL B HB 10
+ATOM 17357 H HG11 . VAL B 1 36 ? -1.425 3.244 -0.565 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG11 10
+ATOM 17358 H HG12 . VAL B 1 36 ? -1.825 1.518 -0.737 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG12 10
+ATOM 17359 H HG13 . VAL B 1 36 ? -0.269 2.137 -1.343 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG13 10
+ATOM 17360 H HG21 . VAL B 1 36 ? -3.155 0.953 -3.152 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG21 10
+ATOM 17361 H HG22 . VAL B 1 36 ? -3.756 1.806 -1.710 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG22 10
+ATOM 17362 H HG23 . VAL B 1 36 ? -3.980 2.522 -3.324 1.00 0.00 ? ? ? ? ? ? 36 VAL B HG23 10
+ATOM 17363 N N . GLY B 1 37 ? -4.403 4.942 -2.660 1.00 0.00 ? ? ? ? ? ? 37 GLY B N 10
+ATOM 17364 C CA . GLY B 1 37 ? -5.579 5.509 -2.022 1.00 0.00 ? ? ? ? ? ? 37 GLY B CA 10
+ATOM 17365 C C . GLY B 1 37 ? -6.844 4.753 -2.431 1.00 0.00 ? ? ? ? ? ? 37 GLY B C 10
+ATOM 17366 O O . GLY B 1 37 ? -7.057 4.485 -3.613 1.00 0.00 ? ? ? ? ? ? 37 GLY B O 10
+ATOM 17367 H H . GLY B 1 37 ? -4.519 4.706 -3.625 1.00 0.00 ? ? ? ? ? ? 37 GLY B H 10
+ATOM 17368 H HA2 . GLY B 1 37 ? -5.463 5.472 -0.939 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA2 10
+ATOM 17369 H HA3 . GLY B 1 37 ? -5.674 6.560 -2.296 1.00 0.00 ? ? ? ? ? ? 37 GLY B HA3 10
+ATOM 17370 N N . GLY B 1 38 ? -7.652 4.430 -1.432 1.00 0.00 ? ? ? ? ? ? 38 GLY B N 10
+ATOM 17371 C CA . GLY B 1 38 ? -8.890 3.709 -1.673 1.00 0.00 ? ? ? ? ? ? 38 GLY B CA 10
+ATOM 17372 C C . GLY B 1 38 ? -10.102 4.553 -1.271 1.00 0.00 ? ? ? ? ? ? 38 GLY B C 10
+ATOM 17373 O O . GLY B 1 38 ? -10.523 4.529 -0.115 1.00 0.00 ? ? ? ? ? ? 38 GLY B O 10
+ATOM 17374 H H . GLY B 1 38 ? -7.471 4.651 -0.473 1.00 0.00 ? ? ? ? ? ? 38 GLY B H 10
+ATOM 17375 H HA2 . GLY B 1 38 ? -8.961 3.444 -2.728 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA2 10
+ATOM 17376 H HA3 . GLY B 1 38 ? -8.888 2.777 -1.109 1.00 0.00 ? ? ? ? ? ? 38 GLY B HA3 10
+ATOM 17377 N N . VAL B 1 39 ? -10.628 5.278 -2.247 1.00 0.00 ? ? ? ? ? ? 39 VAL B N 10
+ATOM 17378 C CA . VAL B 1 39 ? -11.783 6.127 -2.009 1.00 0.00 ? ? ? ? ? ? 39 VAL B CA 10
+ATOM 17379 C C . VAL B 1 39 ? -13.057 5.360 -2.370 1.00 0.00 ? ? ? ? ? ? 39 VAL B C 10
+ATOM 17380 O O . VAL B 1 39 ? -13.118 4.704 -3.408 1.00 0.00 ? ? ? ? ? ? 39 VAL B O 10
+ATOM 17381 C CB . VAL B 1 39 ? -11.636 7.439 -2.782 1.00 0.00 ? ? ? ? ? ? 39 VAL B CB 10
+ATOM 17382 C CG1 . VAL B 1 39 ? -13.005 8.036 -3.114 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG1 10
+ATOM 17383 C CG2 . VAL B 1 39 ? -10.775 8.438 -2.007 1.00 0.00 ? ? ? ? ? ? 39 VAL B CG2 10
+ATOM 17384 H H . VAL B 1 39 ? -10.280 5.291 -3.184 1.00 0.00 ? ? ? ? ? ? 39 VAL B H 10
+ATOM 17385 H HA . VAL B 1 39 ? -11.805 6.362 -0.945 1.00 0.00 ? ? ? ? ? ? 39 VAL B HA 10
+ATOM 17386 H HB . VAL B 1 39 ? -11.130 7.219 -3.722 1.00 0.00 ? ? ? ? ? ? 39 VAL B HB 10
+ATOM 17387 H HG11 . VAL B 1 39 ? -13.576 8.168 -2.195 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG11 10
+ATOM 17388 H HG12 . VAL B 1 39 ? -12.872 9.002 -3.601 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG12 10
+ATOM 17389 H HG13 . VAL B 1 39 ? -13.543 7.363 -3.782 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG13 10
+ATOM 17390 H HG21 . VAL B 1 39 ? -11.214 8.610 -1.024 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG21 10
+ATOM 17391 H HG22 . VAL B 1 39 ? -9.768 8.037 -1.891 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG22 10
+ATOM 17392 H HG23 . VAL B 1 39 ? -10.730 9.380 -2.554 1.00 0.00 ? ? ? ? ? ? 39 VAL B HG23 10
+ATOM 17393 N N . VAL B 1 40 ? -14.044 5.468 -1.492 1.00 0.00 ? ? ? ? ? ? 40 VAL B N 10
+ATOM 17394 C CA . VAL B 1 40 ? -15.313 4.793 -1.705 1.00 0.00 ? ? ? ? ? ? 40 VAL B CA 10
+ATOM 17395 C C . VAL B 1 40 ? -16.439 5.631 -1.096 1.00 0.00 ? ? ? ? ? ? 40 VAL B C 10
+ATOM 17396 O O . VAL B 1 40 ? -16.372 6.015 0.070 1.00 0.00 ? ? ? ? ? ? 40 VAL B O 10
+ATOM 17397 C CB . VAL B 1 40 ? -15.251 3.373 -1.139 1.00 0.00 ? ? ? ? ? ? 40 VAL B CB 10
+ATOM 17398 C CG1 . VAL B 1 40 ? -16.596 2.660 -1.300 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG1 10
+ATOM 17399 C CG2 . VAL B 1 40 ? -14.124 2.571 -1.791 1.00 0.00 ? ? ? ? ? ? 40 VAL B CG2 10
+ATOM 17400 H H . VAL B 1 40 ? -13.986 6.004 -0.649 1.00 0.00 ? ? ? ? ? ? 40 VAL B H 10
+ATOM 17401 H HA . VAL B 1 40 ? -15.470 4.722 -2.781 1.00 0.00 ? ? ? ? ? ? 40 VAL B HA 10
+ATOM 17402 H HB . VAL B 1 40 ? -15.037 3.446 -0.073 1.00 0.00 ? ? ? ? ? ? 40 VAL B HB 10
+ATOM 17403 H HG11 . VAL B 1 40 ? -17.246 2.917 -0.464 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG11 10
+ATOM 17404 H HG12 . VAL B 1 40 ? -17.063 2.974 -2.234 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG12 10
+ATOM 17405 H HG13 . VAL B 1 40 ? -16.435 1.582 -1.318 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG13 10
+ATOM 17406 H HG21 . VAL B 1 40 ? -14.174 2.688 -2.874 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG21 10
+ATOM 17407 H HG22 . VAL B 1 40 ? -13.162 2.937 -1.431 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG22 10
+ATOM 17408 H HG23 . VAL B 1 40 ? -14.231 1.518 -1.534 1.00 0.00 ? ? ? ? ? ? 40 VAL B HG23 10
+ATOM 17409 N N . ILE B 1 41 ? -17.449 5.890 -1.915 1.00 0.00 ? ? ? ? ? ? 41 ILE B N 10
+ATOM 17410 C CA . ILE B 1 41 ? -18.588 6.676 -1.472 1.00 0.00 ? ? ? ? ? ? 41 ILE B CA 10
+ATOM 17411 C C . ILE B 1 41 ? -19.880 5.936 -1.825 1.00 0.00 ? ? ? ? ? ? 41 ILE B C 10
+ATOM 17412 O O . ILE B 1 41 ? -20.135 5.647 -2.993 1.00 0.00 ? ? ? ? ? ? 41 ILE B O 10
+ATOM 17413 C CB . ILE B 1 41 ? -18.516 8.093 -2.042 1.00 0.00 ? ? ? ? ? ? 41 ILE B CB 10
+ATOM 17414 C CG1 . ILE B 1 41 ? -17.275 8.828 -1.531 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG1 10
+ATOM 17415 C CG2 . ILE B 1 41 ? -19.802 8.869 -1.748 1.00 0.00 ? ? ? ? ? ? 41 ILE B CG2 10
+ATOM 17416 C CD1 . ILE B 1 41 ? -16.907 9.992 -2.454 1.00 0.00 ? ? ? ? ? ? 41 ILE B CD1 10
+ATOM 17417 H H . ILE B 1 41 ? -17.496 5.575 -2.862 1.00 0.00 ? ? ? ? ? ? 41 ILE B H 10
+ATOM 17418 H HA . ILE B 1 41 ? -18.524 6.761 -0.387 1.00 0.00 ? ? ? ? ? ? 41 ILE B HA 10
+ATOM 17419 H HB . ILE B 1 41 ? -18.424 8.021 -3.126 1.00 0.00 ? ? ? ? ? ? 41 ILE B HB 10
+ATOM 17420 H HG12 . ILE B 1 41 ? -17.458 9.201 -0.524 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG12 10
+ATOM 17421 H HG13 . ILE B 1 41 ? -16.438 8.132 -1.466 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG13 10
+ATOM 17422 H HG21 . ILE B 1 41 ? -19.571 9.732 -1.125 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG21 10
+ATOM 17423 H HG22 . ILE B 1 41 ? -20.245 9.205 -2.686 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG22 10
+ATOM 17424 H HG23 . ILE B 1 41 ? -20.505 8.221 -1.226 1.00 0.00 ? ? ? ? ? ? 41 ILE B HG23 10
+ATOM 17425 H HD11 . ILE B 1 41 ? -16.674 9.608 -3.447 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD11 10
+ATOM 17426 H HD12 . ILE B 1 41 ? -17.748 10.682 -2.520 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD12 10
+ATOM 17427 H HD13 . ILE B 1 41 ? -16.039 10.514 -2.052 1.00 0.00 ? ? ? ? ? ? 41 ILE B HD13 10
+ATOM 17428 N N . ALA B 1 42 ? -20.661 5.650 -0.793 1.00 0.00 ? ? ? ? ? ? 42 ALA B N 10
+ATOM 17429 C CA . ALA B 1 42 ? -21.921 4.950 -0.980 1.00 0.00 ? ? ? ? ? ? 42 ALA B CA 10
+ATOM 17430 C C . ALA B 1 42 ? -22.801 5.153 0.255 1.00 0.00 ? ? ? ? ? ? 42 ALA B C 10
+ATOM 17431 O O . ALA B 1 42 ? -22.878 4.280 1.117 1.00 0.00 ? ? ? ? ? ? 42 ALA B O 10
+ATOM 17432 C CB . ALA B 1 42 ? -21.645 3.471 -1.262 1.00 0.00 ? ? ? ? ? ? 42 ALA B CB 10
+ATOM 17433 H H . ALA B 1 42 ? -20.447 5.889 0.154 1.00 0.00 ? ? ? ? ? ? 42 ALA B H 10
+ATOM 17434 H HA . ALA B 1 42 ? -22.418 5.386 -1.846 1.00 0.00 ? ? ? ? ? ? 42 ALA B HA 10
+ATOM 17435 H HB1 . ALA B 1 42 ? -21.466 3.332 -2.328 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB1 10
+ATOM 17436 H HB2 . ALA B 1 42 ? -20.767 3.151 -0.701 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB2 10
+ATOM 17437 H HB3 . ALA B 1 42 ? -22.507 2.877 -0.959 1.00 0.00 ? ? ? ? ? ? 42 ALA B HB3 10
+ATOM 17438 N N . LEU C 1 17 ? -15.231 -5.678 -12.462 1.00 0.00 ? ? ? ? ? ? 17 LEU C N 10
+ATOM 17439 C CA . LEU C 1 17 ? -14.120 -4.746 -12.563 1.00 0.00 ? ? ? ? ? ? 17 LEU C CA 10
+ATOM 17440 C C . LEU C 1 17 ? -12.857 -5.402 -12.004 1.00 0.00 ? ? ? ? ? ? 17 LEU C C 10
+ATOM 17441 O O . LEU C 1 17 ? -12.439 -5.102 -10.886 1.00 0.00 ? ? ? ? ? ? 17 LEU C O 10
+ATOM 17442 C CB . LEU C 1 17 ? -14.473 -3.418 -11.889 1.00 0.00 ? ? ? ? ? ? 17 LEU C CB 10
+ATOM 17443 C CG . LEU C 1 17 ? -15.367 -2.473 -12.696 1.00 0.00 ? ? ? ? ? ? 17 LEU C CG 10
+ATOM 17444 C CD1 . LEU C 1 17 ? -16.061 -1.462 -11.782 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD1 10
+ATOM 17445 C CD2 . LEU C 1 17 ? -14.575 -1.789 -13.812 1.00 0.00 ? ? ? ? ? ? 17 LEU C CD2 10
+ATOM 17446 H H . LEU C 1 17 ? -15.835 -5.703 -13.259 1.00 0.00 ? ? ? ? ? ? 17 LEU C H 10
+ATOM 17447 H HA . LEU C 1 17 ? -13.963 -4.539 -13.621 1.00 0.00 ? ? ? ? ? ? 17 LEU C HA 10
+ATOM 17448 H HB2 . LEU C 1 17 ? -14.967 -3.633 -10.942 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB2 10
+ATOM 17449 H HB3 . LEU C 1 17 ? -13.546 -2.896 -11.654 1.00 0.00 ? ? ? ? ? ? 17 LEU C HB3 10
+ATOM 17450 H HG . LEU C 1 17 ? -16.148 -3.066 -13.172 1.00 0.00 ? ? ? ? ? ? 17 LEU C HG 10
+ATOM 17451 H HD11 . LEU C 1 17 ? -16.841 -1.965 -11.210 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD11 10
+ATOM 17452 H HD12 . LEU C 1 17 ? -15.331 -1.029 -11.098 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD12 10
+ATOM 17453 H HD13 . LEU C 1 17 ? -16.506 -0.672 -12.386 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD13 10
+ATOM 17454 H HD21 . LEU C 1 17 ? -14.009 -0.955 -13.397 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD21 10
+ATOM 17455 H HD22 . LEU C 1 17 ? -13.889 -2.505 -14.263 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD22 10
+ATOM 17456 H HD23 . LEU C 1 17 ? -15.264 -1.418 -14.571 1.00 0.00 ? ? ? ? ? ? 17 LEU C HD23 10
+ATOM 17457 N N . VAL C 1 18 ? -12.283 -6.286 -12.807 1.00 0.00 ? ? ? ? ? ? 18 VAL C N 10
+ATOM 17458 C CA . VAL C 1 18 ? -11.075 -6.988 -12.406 1.00 0.00 ? ? ? ? ? ? 18 VAL C CA 10
+ATOM 17459 C C . VAL C 1 18 ? -9.860 -6.096 -12.671 1.00 0.00 ? ? ? ? ? ? 18 VAL C C 10
+ATOM 17460 O O . VAL C 1 18 ? -9.174 -6.259 -13.679 1.00 0.00 ? ? ? ? ? ? 18 VAL C O 10
+ATOM 17461 C CB . VAL C 1 18 ? -10.992 -8.338 -13.121 1.00 0.00 ? ? ? ? ? ? 18 VAL C CB 10
+ATOM 17462 C CG1 . VAL C 1 18 ? -9.926 -9.231 -12.485 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG1 10
+ATOM 17463 C CG2 . VAL C 1 18 ? -12.354 -9.035 -13.136 1.00 0.00 ? ? ? ? ? ? 18 VAL C CG2 10
+ATOM 17464 H H . VAL C 1 18 ? -12.628 -6.524 -13.714 1.00 0.00 ? ? ? ? ? ? 18 VAL C H 10
+ATOM 17465 H HA . VAL C 1 18 ? -11.144 -7.177 -11.335 1.00 0.00 ? ? ? ? ? ? 18 VAL C HA 10
+ATOM 17466 H HB . VAL C 1 18 ? -10.700 -8.152 -14.155 1.00 0.00 ? ? ? ? ? ? 18 VAL C HB 10
+ATOM 17467 H HG11 . VAL C 1 18 ? -8.947 -8.971 -12.887 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG11 10
+ATOM 17468 H HG12 . VAL C 1 18 ? -9.925 -9.083 -11.405 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG12 10
+ATOM 17469 H HG13 . VAL C 1 18 ? -10.146 -10.275 -12.708 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG13 10
+ATOM 17470 H HG21 . VAL C 1 18 ? -12.598 -9.377 -12.130 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG21 10
+ATOM 17471 H HG22 . VAL C 1 18 ? -13.117 -8.334 -13.476 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG22 10
+ATOM 17472 H HG23 . VAL C 1 18 ? -12.318 -9.889 -13.811 1.00 0.00 ? ? ? ? ? ? 18 VAL C HG23 10
+ATOM 17473 N N . PHE C 1 19 ? -9.632 -5.172 -11.749 1.00 0.00 ? ? ? ? ? ? 19 PHE C N 10
+ATOM 17474 C CA . PHE C 1 19 ? -8.512 -4.254 -11.871 1.00 0.00 ? ? ? ? ? ? 19 PHE C CA 10
+ATOM 17475 C C . PHE C 1 19 ? -7.251 -4.841 -11.233 1.00 0.00 ? ? ? ? ? ? 19 PHE C C 10
+ATOM 17476 O O . PHE C 1 19 ? -6.987 -4.619 -10.052 1.00 0.00 ? ? ? ? ? ? 19 PHE C O 10
+ATOM 17477 C CB . PHE C 1 19 ? -8.899 -2.976 -11.125 1.00 0.00 ? ? ? ? ? ? 19 PHE C CB 10
+ATOM 17478 C CG . PHE C 1 19 ? -8.607 -1.690 -11.901 1.00 0.00 ? ? ? ? ? ? 19 PHE C CG 10
+ATOM 17479 C CD1 . PHE C 1 19 ? -9.449 -1.285 -12.888 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD1 10
+ATOM 17480 C CD2 . PHE C 1 19 ? -7.504 -0.952 -11.603 1.00 0.00 ? ? ? ? ? ? 19 PHE C CD2 10
+ATOM 17481 C CE1 . PHE C 1 19 ? -9.178 -0.091 -13.608 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE1 10
+ATOM 17482 C CE2 . PHE C 1 19 ? -7.232 0.241 -12.323 1.00 0.00 ? ? ? ? ? ? 19 PHE C CE2 10
+ATOM 17483 C CZ . PHE C 1 19 ? -8.075 0.646 -13.311 1.00 0.00 ? ? ? ? ? ? 19 PHE C CZ 10
+ATOM 17484 H H . PHE C 1 19 ? -10.195 -5.046 -10.932 1.00 0.00 ? ? ? ? ? ? 19 PHE C H 10
+ATOM 17485 H HA . PHE C 1 19 ? -8.339 -4.095 -12.935 1.00 0.00 ? ? ? ? ? ? 19 PHE C HA 10
+ATOM 17486 H HB2 . PHE C 1 19 ? -9.963 -3.012 -10.890 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB2 10
+ATOM 17487 H HB3 . PHE C 1 19 ? -8.364 -2.945 -10.176 1.00 0.00 ? ? ? ? ? ? 19 PHE C HB3 10
+ATOM 17488 H HD1 . PHE C 1 19 ? -10.333 -1.876 -13.127 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD1 10
+ATOM 17489 H HD2 . PHE C 1 19 ? -6.828 -1.277 -10.811 1.00 0.00 ? ? ? ? ? ? 19 PHE C HD2 10
+ATOM 17490 H HE1 . PHE C 1 19 ? -9.853 0.233 -14.400 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE1 10
+ATOM 17491 H HE2 . PHE C 1 19 ? -6.348 0.833 -12.084 1.00 0.00 ? ? ? ? ? ? 19 PHE C HE2 10
+ATOM 17492 H HZ . PHE C 1 19 ? -7.866 1.562 -13.863 1.00 0.00 ? ? ? ? ? ? 19 PHE C HZ 10
+ATOM 17493 N N . PHE C 1 20 ? -6.505 -5.577 -12.043 1.00 0.00 ? ? ? ? ? ? 20 PHE C N 10
+ATOM 17494 C CA . PHE C 1 20 ? -5.278 -6.197 -11.573 1.00 0.00 ? ? ? ? ? ? 20 PHE C CA 10
+ATOM 17495 C C . PHE C 1 20 ? -4.054 -5.385 -12.002 1.00 0.00 ? ? ? ? ? ? 20 PHE C C 10
+ATOM 17496 O O . PHE C 1 20 ? -3.800 -5.220 -13.194 1.00 0.00 ? ? ? ? ? ? 20 PHE C O 10
+ATOM 17497 C CB . PHE C 1 20 ? -5.204 -7.585 -12.213 1.00 0.00 ? ? ? ? ? ? 20 PHE C CB 10
+ATOM 17498 C CG . PHE C 1 20 ? -5.274 -8.738 -11.210 1.00 0.00 ? ? ? ? ? ? 20 PHE C CG 10
+ATOM 17499 C CD1 . PHE C 1 20 ? -6.388 -8.910 -10.449 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD1 10
+ATOM 17500 C CD2 . PHE C 1 20 ? -4.222 -9.590 -11.078 1.00 0.00 ? ? ? ? ? ? 20 PHE C CD2 10
+ATOM 17501 C CE1 . PHE C 1 20 ? -6.453 -9.980 -9.518 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE1 10
+ATOM 17502 C CE2 . PHE C 1 20 ? -4.287 -10.660 -10.147 1.00 0.00 ? ? ? ? ? ? 20 PHE C CE2 10
+ATOM 17503 C CZ . PHE C 1 20 ? -5.402 -10.832 -9.386 1.00 0.00 ? ? ? ? ? ? 20 PHE C CZ 10
+ATOM 17504 H H . PHE C 1 20 ? -6.727 -5.753 -13.002 1.00 0.00 ? ? ? ? ? ? 20 PHE C H 10
+ATOM 17505 H HA . PHE C 1 20 ? -5.327 -6.229 -10.485 1.00 0.00 ? ? ? ? ? ? 20 PHE C HA 10
+ATOM 17506 H HB2 . PHE C 1 20 ? -6.020 -7.688 -12.928 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB2 10
+ATOM 17507 H HB3 . PHE C 1 20 ? -4.275 -7.664 -12.778 1.00 0.00 ? ? ? ? ? ? 20 PHE C HB3 10
+ATOM 17508 H HD1 . PHE C 1 20 ? -7.231 -8.227 -10.554 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD1 10
+ATOM 17509 H HD2 . PHE C 1 20 ? -3.329 -9.452 -11.688 1.00 0.00 ? ? ? ? ? ? 20 PHE C HD2 10
+ATOM 17510 H HE1 . PHE C 1 20 ? -7.346 -10.118 -8.908 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE1 10
+ATOM 17511 H HE2 . PHE C 1 20 ? -3.444 -11.343 -10.042 1.00 0.00 ? ? ? ? ? ? 20 PHE C HE2 10
+ATOM 17512 H HZ . PHE C 1 20 ? -5.452 -11.654 -8.672 1.00 0.00 ? ? ? ? ? ? 20 PHE C HZ 10
+ATOM 17513 N N . ALA C 1 21 ? -3.328 -4.899 -11.006 1.00 0.00 ? ? ? ? ? ? 21 ALA C N 10
+ATOM 17514 C CA . ALA C 1 21 ? -2.137 -4.108 -11.265 1.00 0.00 ? ? ? ? ? ? 21 ALA C CA 10
+ATOM 17515 C C . ALA C 1 21 ? -0.926 -4.794 -10.630 1.00 0.00 ? ? ? ? ? ? 21 ALA C C 10
+ATOM 17516 O O . ALA C 1 21 ? -0.834 -4.892 -9.407 1.00 0.00 ? ? ? ? ? ? 21 ALA C O 10
+ATOM 17517 C CB . ALA C 1 21 ? -2.344 -2.686 -10.738 1.00 0.00 ? ? ? ? ? ? 21 ALA C CB 10
+ATOM 17518 H H . ALA C 1 21 ? -3.541 -5.038 -10.039 1.00 0.00 ? ? ? ? ? ? 21 ALA C H 10
+ATOM 17519 H HA . ALA C 1 21 ? -1.995 -4.065 -12.345 1.00 0.00 ? ? ? ? ? ? 21 ALA C HA 10
+ATOM 17520 H HB1 . ALA C 1 21 ? -3.017 -2.710 -9.882 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB1 10
+ATOM 17521 H HB2 . ALA C 1 21 ? -1.384 -2.268 -10.434 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB2 10
+ATOM 17522 H HB3 . ALA C 1 21 ? -2.777 -2.067 -11.524 1.00 0.00 ? ? ? ? ? ? 21 ALA C HB3 10
+ATOM 17523 N N . GLU C 1 22 ? -0.027 -5.252 -11.489 1.00 0.00 ? ? ? ? ? ? 22 GLU C N 10
+ATOM 17524 C CA . GLU C 1 22 ? 1.174 -5.926 -11.028 1.00 0.00 ? ? ? ? ? ? 22 GLU C CA 10
+ATOM 17525 C C . GLU C 1 22 ? 2.404 -5.377 -11.755 1.00 0.00 ? ? ? ? ? ? 22 GLU C C 10
+ATOM 17526 O O . GLU C 1 22 ? 2.365 -5.152 -12.964 1.00 0.00 ? ? ? ? ? ? 22 GLU C O 10
+ATOM 17527 C CB . GLU C 1 22 ? 1.058 -7.440 -11.213 1.00 0.00 ? ? ? ? ? ? 22 GLU C CB 10
+ATOM 17528 C CG . GLU C 1 22 ? 2.328 -8.150 -10.737 1.00 0.00 ? ? ? ? ? ? 22 GLU C CG 10
+ATOM 17529 C CD . GLU C 1 22 ? 2.205 -9.665 -10.905 1.00 0.00 ? ? ? ? ? ? 22 GLU C CD 10
+ATOM 17530 O OE1 . GLU C 1 22 ? 1.656 -10.297 -9.976 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE1 10
+ATOM 17531 O OE2 . GLU C 1 22 ? 2.662 -10.159 -11.959 1.00 0.00 ? ? ? ? ? ? 22 GLU C OE2 10
+ATOM 17532 H H . GLU C 1 22 ? -0.110 -5.168 -12.482 1.00 0.00 ? ? ? ? ? ? 22 GLU C H 10
+ATOM 17533 H HA . GLU C 1 22 ? 1.242 -5.700 -9.964 1.00 0.00 ? ? ? ? ? ? 22 GLU C HA 10
+ATOM 17534 H HB2 . GLU C 1 22 ? 0.199 -7.814 -10.656 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB2 10
+ATOM 17535 H HB3 . GLU C 1 22 ? 0.881 -7.670 -12.264 1.00 0.00 ? ? ? ? ? ? 22 GLU C HB3 10
+ATOM 17536 H HG2 . GLU C 1 22 ? 3.185 -7.786 -11.303 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG2 10
+ATOM 17537 H HG3 . GLU C 1 22 ? 2.512 -7.910 -9.690 1.00 0.00 ? ? ? ? ? ? 22 GLU C HG3 10
+ATOM 17538 N N . ASP C 1 23 ? 3.465 -5.178 -10.988 1.00 0.00 ? ? ? ? ? ? 23 ASP C N 10
+ATOM 17539 C CA . ASP C 1 23 ? 4.703 -4.660 -11.544 1.00 0.00 ? ? ? ? ? ? 23 ASP C CA 10
+ATOM 17540 C C . ASP C 1 23 ? 5.875 -5.511 -11.050 1.00 0.00 ? ? ? ? ? ? 23 ASP C C 10
+ATOM 17541 O O . ASP C 1 23 ? 6.251 -5.437 -9.881 1.00 0.00 ? ? ? ? ? ? 23 ASP C O 10
+ATOM 17542 C CB . ASP C 1 23 ? 4.947 -3.217 -11.098 1.00 0.00 ? ? ? ? ? ? 23 ASP C CB 10
+ATOM 17543 C CG . ASP C 1 23 ? 6.232 -2.582 -11.632 1.00 0.00 ? ? ? ? ? ? 23 ASP C CG 10
+ATOM 17544 O OD1 . ASP C 1 23 ? 7.016 -3.328 -12.258 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD1 10
+ATOM 17545 O OD2 . ASP C 1 23 ? 6.402 -1.365 -11.403 1.00 0.00 ? ? ? ? ? ? 23 ASP C OD2 10
+ATOM 17546 H H . ASP C 1 23 ? 3.488 -5.363 -10.006 1.00 0.00 ? ? ? ? ? ? 23 ASP C H 10
+ATOM 17547 H HA . ASP C 1 23 ? 4.576 -4.712 -12.625 1.00 0.00 ? ? ? ? ? ? 23 ASP C HA 10
+ATOM 17548 H HB2 . ASP C 1 23 ? 4.100 -2.607 -11.413 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB2 10
+ATOM 17549 H HB3 . ASP C 1 23 ? 4.971 -3.188 -10.008 1.00 0.00 ? ? ? ? ? ? 23 ASP C HB3 10
+ATOM 17550 N N . VAL C 1 24 ? 6.419 -6.300 -11.965 1.00 0.00 ? ? ? ? ? ? 24 VAL C N 10
+ATOM 17551 C CA . VAL C 1 24 ? 7.540 -7.164 -11.637 1.00 0.00 ? ? ? ? ? ? 24 VAL C CA 10
+ATOM 17552 C C . VAL C 1 24 ? 8.847 -6.451 -11.987 1.00 0.00 ? ? ? ? ? ? 24 VAL C C 10
+ATOM 17553 O O . VAL C 1 24 ? 9.266 -6.447 -13.143 1.00 0.00 ? ? ? ? ? ? 24 VAL C O 10
+ATOM 17554 C CB . VAL C 1 24 ? 7.386 -8.512 -12.345 1.00 0.00 ? ? ? ? ? ? 24 VAL C CB 10
+ATOM 17555 C CG1 . VAL C 1 24 ? 8.678 -9.327 -12.260 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG1 10
+ATOM 17556 C CG2 . VAL C 1 24 ? 6.203 -9.298 -11.776 1.00 0.00 ? ? ? ? ? ? 24 VAL C CG2 10
+ATOM 17557 H H . VAL C 1 24 ? 6.107 -6.354 -12.914 1.00 0.00 ? ? ? ? ? ? 24 VAL C H 10
+ATOM 17558 H HA . VAL C 1 24 ? 7.514 -7.343 -10.562 1.00 0.00 ? ? ? ? ? ? 24 VAL C HA 10
+ATOM 17559 H HB . VAL C 1 24 ? 7.182 -8.316 -13.398 1.00 0.00 ? ? ? ? ? ? 24 VAL C HB 10
+ATOM 17560 H HG11 . VAL C 1 24 ? 9.526 -8.691 -12.516 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG11 10
+ATOM 17561 H HG12 . VAL C 1 24 ? 8.802 -9.706 -11.246 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG12 10
+ATOM 17562 H HG13 . VAL C 1 24 ? 8.627 -10.163 -12.957 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG13 10
+ATOM 17563 H HG21 . VAL C 1 24 ? 6.500 -9.776 -10.843 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG21 10
+ATOM 17564 H HG22 . VAL C 1 24 ? 5.372 -8.619 -11.589 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG22 10
+ATOM 17565 H HG23 . VAL C 1 24 ? 5.895 -10.060 -12.492 1.00 0.00 ? ? ? ? ? ? 24 VAL C HG23 10
+ATOM 17566 N N . GLY C 1 25 ? 9.456 -5.865 -10.966 1.00 0.00 ? ? ? ? ? ? 25 GLY C N 10
+ATOM 17567 C CA . GLY C 1 25 ? 10.708 -5.151 -11.151 1.00 0.00 ? ? ? ? ? ? 25 GLY C CA 10
+ATOM 17568 C C . GLY C 1 25 ? 11.876 -5.922 -10.532 1.00 0.00 ? ? ? ? ? ? 25 GLY C C 10
+ATOM 17569 O O . GLY C 1 25 ? 11.863 -6.223 -9.340 1.00 0.00 ? ? ? ? ? ? 25 GLY C O 10
+ATOM 17570 H H . GLY C 1 25 ? 9.109 -5.874 -10.028 1.00 0.00 ? ? ? ? ? ? 25 GLY C H 10
+ATOM 17571 H HA2 . GLY C 1 25 ? 10.890 -4.999 -12.215 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA2 10
+ATOM 17572 H HA3 . GLY C 1 25 ? 10.637 -4.163 -10.696 1.00 0.00 ? ? ? ? ? ? 25 GLY C HA3 10
+ATOM 17573 N N . SER C 1 26 ? 12.857 -6.218 -11.371 1.00 0.00 ? ? ? ? ? ? 26 SER C N 10
+ATOM 17574 C CA . SER C 1 26 ? 14.031 -6.948 -10.922 1.00 0.00 ? ? ? ? ? ? 26 SER C CA 10
+ATOM 17575 C C . SER C 1 26 ? 15.198 -5.982 -10.710 1.00 0.00 ? ? ? ? ? ? 26 SER C C 10
+ATOM 17576 O O . SER C 1 26 ? 15.864 -5.588 -11.666 1.00 0.00 ? ? ? ? ? ? 26 SER C O 10
+ATOM 17577 C CB . SER C 1 26 ? 14.418 -8.038 -11.923 1.00 0.00 ? ? ? ? ? ? 26 SER C CB 10
+ATOM 17578 O OG . SER C 1 26 ? 14.997 -9.171 -11.281 1.00 0.00 ? ? ? ? ? ? 26 SER C OG 10
+ATOM 17579 H H . SER C 1 26 ? 12.860 -5.969 -12.340 1.00 0.00 ? ? ? ? ? ? 26 SER C H 10
+ATOM 17580 H HA . SER C 1 26 ? 13.740 -7.409 -9.978 1.00 0.00 ? ? ? ? ? ? 26 SER C HA 10
+ATOM 17581 H HB2 . SER C 1 26 ? 13.535 -8.349 -12.481 1.00 0.00 ? ? ? ? ? ? 26 SER C HB2 10
+ATOM 17582 H HB3 . SER C 1 26 ? 15.125 -7.631 -12.647 1.00 0.00 ? ? ? ? ? ? 26 SER C HB3 10
+ATOM 17583 H HG . SER C 1 26 ? 15.887 -8.928 -10.895 1.00 0.00 ? ? ? ? ? ? 26 SER C HG 10
+ATOM 17584 N N . ASN C 1 27 ? 15.411 -5.629 -9.451 1.00 0.00 ? ? ? ? ? ? 27 ASN C N 10
+ATOM 17585 C CA . ASN C 1 27 ? 16.487 -4.716 -9.101 1.00 0.00 ? ? ? ? ? ? 27 ASN C CA 10
+ATOM 17586 C C . ASN C 1 27 ? 16.115 -3.301 -9.548 1.00 0.00 ? ? ? ? ? ? 27 ASN C C 10
+ATOM 17587 O O . ASN C 1 27 ? 16.659 -2.791 -10.526 1.00 0.00 ? ? ? ? ? ? 27 ASN C O 10
+ATOM 17588 C CB . ASN C 1 27 ? 17.789 -5.106 -9.803 1.00 0.00 ? ? ? ? ? ? 27 ASN C CB 10
+ATOM 17589 C CG . ASN C 1 27 ? 18.935 -5.241 -8.798 1.00 0.00 ? ? ? ? ? ? 27 ASN C CG 10
+ATOM 17590 O OD1 . ASN C 1 27 ? 19.660 -4.302 -8.514 1.00 0.00 ? ? ? ? ? ? 27 ASN C OD1 10
+ATOM 17591 N ND2 . ASN C 1 27 ? 19.057 -6.458 -8.277 1.00 0.00 ? ? ? ? ? ? 27 ASN C ND2 10
+ATOM 17592 H H . ASN C 1 27 ? 14.865 -5.954 -8.679 1.00 0.00 ? ? ? ? ? ? 27 ASN C H 10
+ATOM 17593 H HA . ASN C 1 27 ? 16.592 -4.799 -8.020 1.00 0.00 ? ? ? ? ? ? 27 ASN C HA 10
+ATOM 17594 H HB2 . ASN C 1 27 ? 17.653 -6.049 -10.333 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB2 10
+ATOM 17595 H HB3 . ASN C 1 27 ? 18.043 -4.354 -10.550 1.00 0.00 ? ? ? ? ? ? 27 ASN C HB3 10
+ATOM 17596 H HD21 . ASN C 1 27 ? 18.428 -7.186 -8.553 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD21 10
+ATOM 17597 H HD22 . ASN C 1 27 ? 19.777 -6.647 -7.609 1.00 0.00 ? ? ? ? ? ? 27 ASN C HD22 10
+ATOM 17598 N N . LYS C 1 28 ? 15.190 -2.706 -8.809 1.00 0.00 ? ? ? ? ? ? 28 LYS C N 10
+ATOM 17599 C CA . LYS C 1 28 ? 14.738 -1.360 -9.116 1.00 0.00 ? ? ? ? ? ? 28 LYS C CA 10
+ATOM 17600 C C . LYS C 1 28 ? 15.055 -0.438 -7.936 1.00 0.00 ? ? ? ? ? ? 28 LYS C C 10
+ATOM 17601 O O . LYS C 1 28 ? 14.446 -0.552 -6.874 1.00 0.00 ? ? ? ? ? ? 28 LYS C O 10
+ATOM 17602 C CB . LYS C 1 28 ? 13.260 -1.367 -9.511 1.00 0.00 ? ? ? ? ? ? 28 LYS C CB 10
+ATOM 17603 C CG . LYS C 1 28 ? 12.372 -1.675 -8.304 1.00 0.00 ? ? ? ? ? ? 28 LYS C CG 10
+ATOM 17604 C CD . LYS C 1 28 ? 11.106 -2.420 -8.731 1.00 0.00 ? ? ? ? ? ? 28 LYS C CD 10
+ATOM 17605 C CE . LYS C 1 28 ? 9.865 -1.815 -8.071 1.00 0.00 ? ? ? ? ? ? 28 LYS C CE 10
+ATOM 17606 N NZ . LYS C 1 28 ? 8.942 -2.883 -7.626 1.00 0.00 ? ? ? ? ? ? 28 LYS C NZ 10
+ATOM 17607 H H . LYS C 1 28 ? 14.752 -3.128 -8.015 1.00 0.00 ? ? ? ? ? ? 28 LYS C H 10
+ATOM 17608 H HA . LYS C 1 28 ? 15.302 -1.016 -9.984 1.00 0.00 ? ? ? ? ? ? 28 LYS C HA 10
+ATOM 17609 H HB2 . LYS C 1 28 ? 12.987 -0.399 -9.930 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB2 10
+ATOM 17610 H HB3 . LYS C 1 28 ? 13.092 -2.110 -10.290 1.00 0.00 ? ? ? ? ? ? 28 LYS C HB3 10
+ATOM 17611 H HG2 . LYS C 1 28 ? 12.927 -2.277 -7.584 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG2 10
+ATOM 17612 H HG3 . LYS C 1 28 ? 12.100 -0.747 -7.801 1.00 0.00 ? ? ? ? ? ? 28 LYS C HG3 10
+ATOM 17613 H HD2 . LYS C 1 28 ? 11.003 -2.377 -9.816 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD2 10
+ATOM 17614 H HD3 . LYS C 1 28 ? 11.189 -3.472 -8.460 1.00 0.00 ? ? ? ? ? ? 28 LYS C HD3 10
+ATOM 17615 H HE2 . LYS C 1 28 ? 10.161 -1.203 -7.219 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE2 10
+ATOM 17616 H HE3 . LYS C 1 28 ? 9.356 -1.156 -8.775 1.00 0.00 ? ? ? ? ? ? 28 LYS C HE3 10
+ATOM 17617 H HZ1 . LYS C 1 28 ? 8.153 -2.919 -8.240 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ1 10
+ATOM 17618 H HZ2 . LYS C 1 28 ? 9.417 -3.762 -7.642 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ2 10
+ATOM 17619 H HZ3 . LYS C 1 28 ? 8.631 -2.689 -6.696 1.00 0.00 ? ? ? ? ? ? 28 LYS C HZ3 10
+ATOM 17620 N N . GLY C 1 29 ? 16.009 0.453 -8.163 1.00 0.00 ? ? ? ? ? ? 29 GLY C N 10
+ATOM 17621 C CA . GLY C 1 29 ? 16.414 1.393 -7.132 1.00 0.00 ? ? ? ? ? ? 29 GLY C CA 10
+ATOM 17622 C C . GLY C 1 29 ? 16.291 2.836 -7.626 1.00 0.00 ? ? ? ? ? ? 29 GLY C C 10
+ATOM 17623 O O . GLY C 1 29 ? 15.374 3.162 -8.378 1.00 0.00 ? ? ? ? ? ? 29 GLY C O 10
+ATOM 17624 H H . GLY C 1 29 ? 16.500 0.539 -9.029 1.00 0.00 ? ? ? ? ? ? 29 GLY C H 10
+ATOM 17625 H HA2 . GLY C 1 29 ? 15.796 1.255 -6.245 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA2 10
+ATOM 17626 H HA3 . GLY C 1 29 ? 17.444 1.193 -6.836 1.00 0.00 ? ? ? ? ? ? 29 GLY C HA3 10
+ATOM 17627 N N . ALA C 1 30 ? 17.228 3.662 -7.183 1.00 0.00 ? ? ? ? ? ? 30 ALA C N 10
+ATOM 17628 C CA . ALA C 1 30 ? 17.236 5.062 -7.571 1.00 0.00 ? ? ? ? ? ? 30 ALA C CA 10
+ATOM 17629 C C . ALA C 1 30 ? 15.887 5.692 -7.217 1.00 0.00 ? ? ? ? ? ? 30 ALA C C 10
+ATOM 17630 O O . ALA C 1 30 ? 15.345 5.443 -6.141 1.00 0.00 ? ? ? ? ? ? 30 ALA C O 10
+ATOM 17631 C CB . ALA C 1 30 ? 17.559 5.177 -9.062 1.00 0.00 ? ? ? ? ? ? 30 ALA C CB 10
+ATOM 17632 H H . ALA C 1 30 ? 17.971 3.388 -6.572 1.00 0.00 ? ? ? ? ? ? 30 ALA C H 10
+ATOM 17633 H HA . ALA C 1 30 ? 18.021 5.560 -7.003 1.00 0.00 ? ? ? ? ? ? 30 ALA C HA 10
+ATOM 17634 H HB1 . ALA C 1 30 ? 16.694 4.863 -9.647 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB1 10
+ATOM 17635 H HB2 . ALA C 1 30 ? 17.803 6.212 -9.302 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB2 10
+ATOM 17636 H HB3 . ALA C 1 30 ? 18.409 4.538 -9.300 1.00 0.00 ? ? ? ? ? ? 30 ALA C HB3 10
+ATOM 17637 N N . ILE C 1 31 ? 15.385 6.497 -8.141 1.00 0.00 ? ? ? ? ? ? 31 ILE C N 10
+ATOM 17638 C CA . ILE C 1 31 ? 14.111 7.165 -7.939 1.00 0.00 ? ? ? ? ? ? 31 ILE C CA 10
+ATOM 17639 C C . ILE C 1 31 ? 13.011 6.385 -8.662 1.00 0.00 ? ? ? ? ? ? 31 ILE C C 10
+ATOM 17640 O O . ILE C 1 31 ? 13.031 6.266 -9.886 1.00 0.00 ? ? ? ? ? ? 31 ILE C O 10
+ATOM 17641 C CB . ILE C 1 31 ? 14.202 8.633 -8.362 1.00 0.00 ? ? ? ? ? ? 31 ILE C CB 10
+ATOM 17642 C CG1 . ILE C 1 31 ? 15.145 9.411 -7.441 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG1 10
+ATOM 17643 C CG2 . ILE C 1 31 ? 12.814 9.271 -8.431 1.00 0.00 ? ? ? ? ? ? 31 ILE C CG2 10
+ATOM 17644 C CD1 . ILE C 1 31 ? 16.252 10.097 -8.244 1.00 0.00 ? ? ? ? ? ? 31 ILE C CD1 10
+ATOM 17645 H H . ILE C 1 31 ? 15.832 6.695 -9.013 1.00 0.00 ? ? ? ? ? ? 31 ILE C H 10
+ATOM 17646 H HA . ILE C 1 31 ? 13.900 7.150 -6.870 1.00 0.00 ? ? ? ? ? ? 31 ILE C HA 10
+ATOM 17647 H HB . ILE C 1 31 ? 14.626 8.674 -9.365 1.00 0.00 ? ? ? ? ? ? 31 ILE C HB 10
+ATOM 17648 H HG12 . ILE C 1 31 ? 14.580 10.157 -6.883 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG12 10
+ATOM 17649 H HG13 . ILE C 1 31 ? 15.587 8.733 -6.711 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG13 10
+ATOM 17650 H HG21 . ILE C 1 31 ? 12.100 8.649 -7.891 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG21 10
+ATOM 17651 H HG22 . ILE C 1 31 ? 12.846 10.263 -7.979 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG22 10
+ATOM 17652 H HG23 . ILE C 1 31 ? 12.505 9.357 -9.473 1.00 0.00 ? ? ? ? ? ? 31 ILE C HG23 10
+ATOM 17653 H HD11 . ILE C 1 31 ? 15.822 10.570 -9.126 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD11 10
+ATOM 17654 H HD12 . ILE C 1 31 ? 16.734 10.854 -7.625 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD12 10
+ATOM 17655 H HD13 . ILE C 1 31 ? 16.990 9.356 -8.552 1.00 0.00 ? ? ? ? ? ? 31 ILE C HD13 10
+ATOM 17656 N N . ILE C 1 32 ? 12.076 5.874 -7.874 1.00 0.00 ? ? ? ? ? ? 32 ILE C N 10
+ATOM 17657 C CA . ILE C 1 32 ? 10.970 5.109 -8.423 1.00 0.00 ? ? ? ? ? ? 32 ILE C CA 10
+ATOM 17658 C C . ILE C 1 32 ? 9.658 5.609 -7.815 1.00 0.00 ? ? ? ? ? ? 32 ILE C C 10
+ATOM 17659 O O . ILE C 1 32 ? 9.526 5.689 -6.595 1.00 0.00 ? ? ? ? ? ? 32 ILE C O 10
+ATOM 17660 C CB . ILE C 1 32 ? 11.206 3.610 -8.227 1.00 0.00 ? ? ? ? ? ? 32 ILE C CB 10
+ATOM 17661 C CG1 . ILE C 1 32 ? 9.902 2.825 -8.380 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG1 10
+ATOM 17662 C CG2 . ILE C 1 32 ? 11.888 3.333 -6.886 1.00 0.00 ? ? ? ? ? ? 32 ILE C CG2 10
+ATOM 17663 C CD1 . ILE C 1 32 ? 10.165 1.432 -8.957 1.00 0.00 ? ? ? ? ? ? 32 ILE C CD1 10
+ATOM 17664 H H . ILE C 1 32 ? 12.067 5.976 -6.879 1.00 0.00 ? ? ? ? ? ? 32 ILE C H 10
+ATOM 17665 H HA . ILE C 1 32 ? 10.946 5.294 -9.497 1.00 0.00 ? ? ? ? ? ? 32 ILE C HA 10
+ATOM 17666 H HB . ILE C 1 32 ? 11.883 3.266 -9.009 1.00 0.00 ? ? ? ? ? ? 32 ILE C HB 10
+ATOM 17667 H HG12 . ILE C 1 32 ? 9.412 2.734 -7.411 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG12 10
+ATOM 17668 H HG13 . ILE C 1 32 ? 9.220 3.370 -9.033 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG13 10
+ATOM 17669 H HG21 . ILE C 1 32 ? 12.955 3.179 -7.045 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG21 10
+ATOM 17670 H HG22 . ILE C 1 32 ? 11.739 4.183 -6.220 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG22 10
+ATOM 17671 H HG23 . ILE C 1 32 ? 11.455 2.440 -6.436 1.00 0.00 ? ? ? ? ? ? 32 ILE C HG23 10
+ATOM 17672 H HD11 . ILE C 1 32 ? 9.541 1.280 -9.837 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD11 10
+ATOM 17673 H HD12 . ILE C 1 32 ? 11.215 1.347 -9.236 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD12 10
+ATOM 17674 H HD13 . ILE C 1 32 ? 9.926 0.678 -8.207 1.00 0.00 ? ? ? ? ? ? 32 ILE C HD13 10
+ATOM 17675 N N . GLY C 1 33 ? 8.722 5.933 -8.695 1.00 0.00 ? ? ? ? ? ? 33 GLY C N 10
+ATOM 17676 C CA . GLY C 1 33 ? 7.425 6.423 -8.261 1.00 0.00 ? ? ? ? ? ? 33 GLY C CA 10
+ATOM 17677 C C . GLY C 1 33 ? 6.315 5.434 -8.624 1.00 0.00 ? ? ? ? ? ? 33 GLY C C 10
+ATOM 17678 O O . GLY C 1 33 ? 6.389 4.763 -9.651 1.00 0.00 ? ? ? ? ? ? 33 GLY C O 10
+ATOM 17679 H H . GLY C 1 33 ? 8.837 5.865 -9.686 1.00 0.00 ? ? ? ? ? ? 33 GLY C H 10
+ATOM 17680 H HA2 . GLY C 1 33 ? 7.435 6.584 -7.183 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA2 10
+ATOM 17681 H HA3 . GLY C 1 33 ? 7.223 7.389 -8.725 1.00 0.00 ? ? ? ? ? ? 33 GLY C HA3 10
+ATOM 17682 N N . LEU C 1 34 ? 5.312 5.377 -7.760 1.00 0.00 ? ? ? ? ? ? 34 LEU C N 10
+ATOM 17683 C CA . LEU C 1 34 ? 4.189 4.481 -7.976 1.00 0.00 ? ? ? ? ? ? 34 LEU C CA 10
+ATOM 17684 C C . LEU C 1 34 ? 2.947 5.051 -7.287 1.00 0.00 ? ? ? ? ? ? 34 LEU C C 10
+ATOM 17685 O O . LEU C 1 34 ? 2.937 5.234 -6.070 1.00 0.00 ? ? ? ? ? ? 34 LEU C O 10
+ATOM 17686 C CB . LEU C 1 34 ? 4.542 3.061 -7.531 1.00 0.00 ? ? ? ? ? ? 34 LEU C CB 10
+ATOM 17687 C CG . LEU C 1 34 ? 3.478 1.992 -7.789 1.00 0.00 ? ? ? ? ? ? 34 LEU C CG 10
+ATOM 17688 C CD1 . LEU C 1 34 ? 3.982 0.606 -7.382 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD1 10
+ATOM 17689 C CD2 . LEU C 1 34 ? 2.161 2.350 -7.097 1.00 0.00 ? ? ? ? ? ? 34 LEU C CD2 10
+ATOM 17690 H H . LEU C 1 34 ? 5.260 5.927 -6.926 1.00 0.00 ? ? ? ? ? ? 34 LEU C H 10
+ATOM 17691 H HA . LEU C 1 34 ? 4.002 4.445 -9.049 1.00 0.00 ? ? ? ? ? ? 34 LEU C HA 10
+ATOM 17692 H HB2 . LEU C 1 34 ? 5.460 2.761 -8.036 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB2 10
+ATOM 17693 H HB3 . LEU C 1 34 ? 4.757 3.079 -6.462 1.00 0.00 ? ? ? ? ? ? 34 LEU C HB3 10
+ATOM 17694 H HG . LEU C 1 34 ? 3.279 1.960 -8.861 1.00 0.00 ? ? ? ? ? ? 34 LEU C HG 10
+ATOM 17695 H HD11 . LEU C 1 34 ? 3.421 -0.157 -7.921 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD11 10
+ATOM 17696 H HD12 . LEU C 1 34 ? 5.041 0.519 -7.624 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD12 10
+ATOM 17697 H HD13 . LEU C 1 34 ? 3.842 0.470 -6.309 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD13 10
+ATOM 17698 H HD21 . LEU C 1 34 ? 1.533 2.920 -7.782 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD21 10
+ATOM 17699 H HD22 . LEU C 1 34 ? 1.644 1.436 -6.805 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD22 10
+ATOM 17700 H HD23 . LEU C 1 34 ? 2.369 2.950 -6.210 1.00 0.00 ? ? ? ? ? ? 34 LEU C HD23 10
+ATOM 17701 N N . MET C 1 35 ? 1.931 5.316 -8.094 1.00 0.00 ? ? ? ? ? ? 35 MET C N 10
+ATOM 17702 C CA . MET C 1 35 ? 0.687 5.862 -7.576 1.00 0.00 ? ? ? ? ? ? 35 MET C CA 10
+ATOM 17703 C C . MET C 1 35 ? -0.473 4.889 -7.798 1.00 0.00 ? ? ? ? ? ? 35 MET C C 10
+ATOM 17704 O O . MET C 1 35 ? -0.550 4.236 -8.838 1.00 0.00 ? ? ? ? ? ? 35 MET C O 10
+ATOM 17705 C CB . MET C 1 35 ? 0.382 7.188 -8.275 1.00 0.00 ? ? ? ? ? ? 35 MET C CB 10
+ATOM 17706 C CG . MET C 1 35 ? -0.023 8.261 -7.262 1.00 0.00 ? ? ? ? ? ? 35 MET C CG 10
+ATOM 17707 S SD . MET C 1 35 ? 1.335 9.385 -6.987 1.00 0.00 ? ? ? ? ? ? 35 MET C SD 10
+ATOM 17708 C CE . MET C 1 35 ? 0.486 10.946 -7.161 1.00 0.00 ? ? ? ? ? ? 35 MET C CE 10
+ATOM 17709 H H . MET C 1 35 ? 1.947 5.165 -9.082 1.00 0.00 ? ? ? ? ? ? 35 MET C H 10
+ATOM 17710 H HA . MET C 1 35 ? 0.852 6.004 -6.508 1.00 0.00 ? ? ? ? ? ? 35 MET C HA 10
+ATOM 17711 H HB2 . MET C 1 35 ? 1.258 7.521 -8.831 1.00 0.00 ? ? ? ? ? ? 35 MET C HB2 10
+ATOM 17712 H HB3 . MET C 1 35 ? -0.420 7.046 -8.999 1.00 0.00 ? ? ? ? ? ? 35 MET C HB3 10
+ATOM 17713 H HG2 . MET C 1 35 ? -0.892 8.809 -7.627 1.00 0.00 ? ? ? ? ? ? 35 MET C HG2 10
+ATOM 17714 H HG3 . MET C 1 35 ? -0.315 7.793 -6.321 1.00 0.00 ? ? ? ? ? ? 35 MET C HG3 10
+ATOM 17715 H HE1 . MET C 1 35 ? -0.310 10.846 -7.899 1.00 0.00 ? ? ? ? ? ? 35 MET C HE1 10
+ATOM 17716 H HE2 . MET C 1 35 ? 0.059 11.236 -6.202 1.00 0.00 ? ? ? ? ? ? 35 MET C HE2 10
+ATOM 17717 H HE3 . MET C 1 35 ? 1.192 11.709 -7.490 1.00 0.00 ? ? ? ? ? ? 35 MET C HE3 10
+ATOM 17718 N N . VAL C 1 36 ? -1.346 4.823 -6.804 1.00 0.00 ? ? ? ? ? ? 36 VAL C N 10
+ATOM 17719 C CA . VAL C 1 36 ? -2.498 3.941 -6.878 1.00 0.00 ? ? ? ? ? ? 36 VAL C CA 10
+ATOM 17720 C C . VAL C 1 36 ? -3.739 4.687 -6.384 1.00 0.00 ? ? ? ? ? ? 36 VAL C C 10
+ATOM 17721 O O . VAL C 1 36 ? -3.994 4.748 -5.182 1.00 0.00 ? ? ? ? ? ? 36 VAL C O 10
+ATOM 17722 C CB . VAL C 1 36 ? -2.224 2.655 -6.096 1.00 0.00 ? ? ? ? ? ? 36 VAL C CB 10
+ATOM 17723 C CG1 . VAL C 1 36 ? -3.525 1.910 -5.790 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG1 10
+ATOM 17724 C CG2 . VAL C 1 36 ? -1.241 1.755 -6.847 1.00 0.00 ? ? ? ? ? ? 36 VAL C CG2 10
+ATOM 17725 H H . VAL C 1 36 ? -1.276 5.357 -5.962 1.00 0.00 ? ? ? ? ? ? 36 VAL C H 10
+ATOM 17726 H HA . VAL C 1 36 ? -2.642 3.674 -7.925 1.00 0.00 ? ? ? ? ? ? 36 VAL C HA 10
+ATOM 17727 H HB . VAL C 1 36 ? -1.765 2.931 -5.146 1.00 0.00 ? ? ? ? ? ? 36 VAL C HB 10
+ATOM 17728 H HG11 . VAL C 1 36 ? -3.315 1.067 -5.132 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG11 10
+ATOM 17729 H HG12 . VAL C 1 36 ? -4.225 2.588 -5.301 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG12 10
+ATOM 17730 H HG13 . VAL C 1 36 ? -3.962 1.546 -6.720 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG13 10
+ATOM 17731 H HG21 . VAL C 1 36 ? -0.816 1.025 -6.158 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG21 10
+ATOM 17732 H HG22 . VAL C 1 36 ? -1.765 1.235 -7.649 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG22 10
+ATOM 17733 H HG23 . VAL C 1 36 ? -0.442 2.364 -7.271 1.00 0.00 ? ? ? ? ? ? 36 VAL C HG23 10
+ATOM 17734 N N . GLY C 1 37 ? -4.478 5.237 -7.337 1.00 0.00 ? ? ? ? ? ? 37 GLY C N 10
+ATOM 17735 C CA . GLY C 1 37 ? -5.686 5.977 -7.014 1.00 0.00 ? ? ? ? ? ? 37 GLY C CA 10
+ATOM 17736 C C . GLY C 1 37 ? -6.935 5.184 -7.402 1.00 0.00 ? ? ? ? ? ? 37 GLY C C 10
+ATOM 17737 O O . GLY C 1 37 ? -7.246 5.048 -8.584 1.00 0.00 ? ? ? ? ? ? 37 GLY C O 10
+ATOM 17738 H H . GLY C 1 37 ? -4.263 5.183 -8.312 1.00 0.00 ? ? ? ? ? ? 37 GLY C H 10
+ATOM 17739 H HA2 . GLY C 1 37 ? -5.707 6.197 -5.946 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA2 10
+ATOM 17740 H HA3 . GLY C 1 37 ? -5.681 6.934 -7.536 1.00 0.00 ? ? ? ? ? ? 37 GLY C HA3 10
+ATOM 17741 N N . GLY C 1 38 ? -7.618 4.681 -6.384 1.00 0.00 ? ? ? ? ? ? 38 GLY C N 10
+ATOM 17742 C CA . GLY C 1 38 ? -8.826 3.905 -6.604 1.00 0.00 ? ? ? ? ? ? 38 GLY C CA 10
+ATOM 17743 C C . GLY C 1 38 ? -10.024 4.542 -5.896 1.00 0.00 ? ? ? ? ? ? 38 GLY C C 10
+ATOM 17744 O O . GLY C 1 38 ? -10.154 4.443 -4.677 1.00 0.00 ? ? ? ? ? ? 38 GLY C O 10
+ATOM 17745 H H . GLY C 1 38 ? -7.358 4.796 -5.425 1.00 0.00 ? ? ? ? ? ? 38 GLY C H 10
+ATOM 17746 H HA2 . GLY C 1 38 ? -9.027 3.833 -7.673 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA2 10
+ATOM 17747 H HA3 . GLY C 1 38 ? -8.682 2.888 -6.237 1.00 0.00 ? ? ? ? ? ? 38 GLY C HA3 10
+ATOM 17748 N N . VAL C 1 39 ? -10.868 5.183 -6.691 1.00 0.00 ? ? ? ? ? ? 39 VAL C N 10
+ATOM 17749 C CA . VAL C 1 39 ? -12.050 5.837 -6.156 1.00 0.00 ? ? ? ? ? ? 39 VAL C CA 10
+ATOM 17750 C C . VAL C 1 39 ? -13.301 5.181 -6.745 1.00 0.00 ? ? ? ? ? ? 39 VAL C C 10
+ATOM 17751 O O . VAL C 1 39 ? -13.367 4.929 -7.947 1.00 0.00 ? ? ? ? ? ? 39 VAL C O 10
+ATOM 17752 C CB . VAL C 1 39 ? -11.982 7.342 -6.423 1.00 0.00 ? ? ? ? ? ? 39 VAL C CB 10
+ATOM 17753 C CG1 . VAL C 1 39 ? -11.408 7.626 -7.812 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG1 10
+ATOM 17754 C CG2 . VAL C 1 39 ? -13.357 7.991 -6.254 1.00 0.00 ? ? ? ? ? ? 39 VAL C CG2 10
+ATOM 17755 H H . VAL C 1 39 ? -10.755 5.259 -7.681 1.00 0.00 ? ? ? ? ? ? 39 VAL C H 10
+ATOM 17756 H HA . VAL C 1 39 ? -12.050 5.685 -5.076 1.00 0.00 ? ? ? ? ? ? 39 VAL C HA 10
+ATOM 17757 H HB . VAL C 1 39 ? -11.311 7.783 -5.686 1.00 0.00 ? ? ? ? ? ? 39 VAL C HB 10
+ATOM 17758 H HG11 . VAL C 1 39 ? -12.021 7.135 -8.567 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG11 10
+ATOM 17759 H HG12 . VAL C 1 39 ? -11.404 8.702 -7.990 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG12 10
+ATOM 17760 H HG13 . VAL C 1 39 ? -10.388 7.245 -7.869 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG13 10
+ATOM 17761 H HG21 . VAL C 1 39 ? -13.727 8.317 -7.227 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG21 10
+ATOM 17762 H HG22 . VAL C 1 39 ? -14.051 7.267 -5.826 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG22 10
+ATOM 17763 H HG23 . VAL C 1 39 ? -13.274 8.851 -5.590 1.00 0.00 ? ? ? ? ? ? 39 VAL C HG23 10
+ATOM 17764 N N . VAL C 1 40 ? -14.262 4.922 -5.870 1.00 0.00 ? ? ? ? ? ? 40 VAL C N 10
+ATOM 17765 C CA . VAL C 1 40 ? -15.507 4.301 -6.288 1.00 0.00 ? ? ? ? ? ? 40 VAL C CA 10
+ATOM 17766 C C . VAL C 1 40 ? -16.685 5.090 -5.714 1.00 0.00 ? ? ? ? ? ? 40 VAL C C 10
+ATOM 17767 O O . VAL C 1 40 ? -16.832 5.194 -4.497 1.00 0.00 ? ? ? ? ? ? 40 VAL C O 10
+ATOM 17768 C CB . VAL C 1 40 ? -15.519 2.827 -5.879 1.00 0.00 ? ? ? ? ? ? 40 VAL C CB 10
+ATOM 17769 C CG1 . VAL C 1 40 ? -16.923 2.233 -6.010 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG1 10
+ATOM 17770 C CG2 . VAL C 1 40 ? -14.505 2.022 -6.695 1.00 0.00 ? ? ? ? ? ? 40 VAL C CG2 10
+ATOM 17771 H H . VAL C 1 40 ? -14.200 5.130 -4.894 1.00 0.00 ? ? ? ? ? ? 40 VAL C H 10
+ATOM 17772 H HA . VAL C 1 40 ? -15.549 4.349 -7.376 1.00 0.00 ? ? ? ? ? ? 40 VAL C HA 10
+ATOM 17773 H HB . VAL C 1 40 ? -15.227 2.768 -4.831 1.00 0.00 ? ? ? ? ? ? 40 VAL C HB 10
+ATOM 17774 H HG11 . VAL C 1 40 ? -16.939 1.237 -5.567 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG11 10
+ATOM 17775 H HG12 . VAL C 1 40 ? -17.637 2.872 -5.491 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG12 10
+ATOM 17776 H HG13 . VAL C 1 40 ? -17.193 2.167 -7.064 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG13 10
+ATOM 17777 H HG21 . VAL C 1 40 ? -13.563 1.966 -6.151 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG21 10
+ATOM 17778 H HG22 . VAL C 1 40 ? -14.889 1.016 -6.862 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG22 10
+ATOM 17779 H HG23 . VAL C 1 40 ? -14.341 2.512 -7.655 1.00 0.00 ? ? ? ? ? ? 40 VAL C HG23 10
+ATOM 17780 N N . ILE C 1 41 ? -17.493 5.627 -6.616 1.00 0.00 ? ? ? ? ? ? 41 ILE C N 10
+ATOM 17781 C CA . ILE C 1 41 ? -18.653 6.404 -6.214 1.00 0.00 ? ? ? ? ? ? 41 ILE C CA 10
+ATOM 17782 C C . ILE C 1 41 ? -19.926 5.665 -6.631 1.00 0.00 ? ? ? ? ? ? 41 ILE C C 10
+ATOM 17783 O O . ILE C 1 41 ? -20.048 5.229 -7.775 1.00 0.00 ? ? ? ? ? ? 41 ILE C O 10
+ATOM 17784 C CB . ILE C 1 41 ? -18.560 7.829 -6.765 1.00 0.00 ? ? ? ? ? ? 41 ILE C CB 10
+ATOM 17785 C CG1 . ILE C 1 41 ? -17.360 8.569 -6.170 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG1 10
+ATOM 17786 C CG2 . ILE C 1 41 ? -19.870 8.588 -6.543 1.00 0.00 ? ? ? ? ? ? 41 ILE C CG2 10
+ATOM 17787 C CD1 . ILE C 1 41 ? -16.694 9.463 -7.218 1.00 0.00 ? ? ? ? ? ? 41 ILE C CD1 10
+ATOM 17788 H H . ILE C 1 41 ? -17.366 5.538 -7.604 1.00 0.00 ? ? ? ? ? ? 41 ILE C H 10
+ATOM 17789 H HA . ILE C 1 41 ? -18.636 6.477 -5.127 1.00 0.00 ? ? ? ? ? ? 41 ILE C HA 10
+ATOM 17790 H HB . ILE C 1 41 ? -18.401 7.769 -7.841 1.00 0.00 ? ? ? ? ? ? 41 ILE C HB 10
+ATOM 17791 H HG12 . ILE C 1 41 ? -17.685 9.175 -5.324 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG12 10
+ATOM 17792 H HG13 . ILE C 1 41 ? -16.637 7.849 -5.788 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG13 10
+ATOM 17793 H HG21 . ILE C 1 41 ? -20.459 8.571 -7.460 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG21 10
+ATOM 17794 H HG22 . ILE C 1 41 ? -20.434 8.113 -5.740 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG22 10
+ATOM 17795 H HG23 . ILE C 1 41 ? -19.649 9.620 -6.271 1.00 0.00 ? ? ? ? ? ? 41 ILE C HG23 10
+ATOM 17796 H HD11 . ILE C 1 41 ? -17.456 9.890 -7.870 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD11 10
+ATOM 17797 H HD12 . ILE C 1 41 ? -16.152 10.266 -6.719 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD12 10
+ATOM 17798 H HD13 . ILE C 1 41 ? -15.999 8.870 -7.812 1.00 0.00 ? ? ? ? ? ? 41 ILE C HD13 10
+ATOM 17799 N N . ALA C 1 42 ? -20.842 5.547 -5.682 1.00 0.00 ? ? ? ? ? ? 42 ALA C N 10
+ATOM 17800 C CA . ALA C 1 42 ? -22.101 4.869 -5.936 1.00 0.00 ? ? ? ? ? ? 42 ALA C CA 10
+ATOM 17801 C C . ALA C 1 42 ? -23.138 5.325 -4.908 1.00 0.00 ? ? ? ? ? ? 42 ALA C C 10
+ATOM 17802 O O . ALA C 1 42 ? -23.219 4.768 -3.814 1.00 0.00 ? ? ? ? ? ? 42 ALA C O 10
+ATOM 17803 C CB . ALA C 1 42 ? -21.880 3.355 -5.910 1.00 0.00 ? ? ? ? ? ? 42 ALA C CB 10
+ATOM 17804 H H . ALA C 1 42 ? -20.735 5.905 -4.754 1.00 0.00 ? ? ? ? ? ? 42 ALA C H 10
+ATOM 17805 H HA . ALA C 1 42 ? -22.438 5.157 -6.932 1.00 0.00 ? ? ? ? ? ? 42 ALA C HA 10
+ATOM 17806 H HB1 . ALA C 1 42 ? -21.095 3.090 -6.618 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB1 10
+ATOM 17807 H HB2 . ALA C 1 42 ? -21.583 3.049 -4.906 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB2 10
+ATOM 17808 H HB3 . ALA C 1 42 ? -22.804 2.848 -6.186 1.00 0.00 ? ? ? ? ? ? 42 ALA C HB3 10
+ATOM 17809 N N . LEU D 1 17 ? -15.896 -6.430 -17.433 1.00 0.00 ? ? ? ? ? ? 17 LEU D N 10
+ATOM 17810 C CA . LEU D 1 17 ? -15.171 -5.415 -16.687 1.00 0.00 ? ? ? ? ? ? 17 LEU D CA 10
+ATOM 17811 C C . LEU D 1 17 ? -13.937 -6.047 -16.041 1.00 0.00 ? ? ? ? ? ? 17 LEU D C 10
+ATOM 17812 O O . LEU D 1 17 ? -13.942 -6.348 -14.848 1.00 0.00 ? ? ? ? ? ? 17 LEU D O 10
+ATOM 17813 C CB . LEU D 1 17 ? -16.099 -4.718 -15.690 1.00 0.00 ? ? ? ? ? ? 17 LEU D CB 10
+ATOM 17814 C CG . LEU D 1 17 ? -16.697 -3.386 -16.147 1.00 0.00 ? ? ? ? ? ? 17 LEU D CG 10
+ATOM 17815 C CD1 . LEU D 1 17 ? -15.613 -2.461 -16.703 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD1 10
+ATOM 17816 C CD2 . LEU D 1 17 ? -17.830 -3.610 -17.151 1.00 0.00 ? ? ? ? ? ? 17 LEU D CD2 10
+ATOM 17817 H H . LEU D 1 17 ? -16.196 -6.151 -18.345 1.00 0.00 ? ? ? ? ? ? 17 LEU D H 10
+ATOM 17818 H HA . LEU D 1 17 ? -14.840 -4.660 -17.400 1.00 0.00 ? ? ? ? ? ? 17 LEU D HA 10
+ATOM 17819 H HB2 . LEU D 1 17 ? -16.917 -5.397 -15.449 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB2 10
+ATOM 17820 H HB3 . LEU D 1 17 ? -15.545 -4.548 -14.767 1.00 0.00 ? ? ? ? ? ? 17 LEU D HB3 10
+ATOM 17821 H HG . LEU D 1 17 ? -17.129 -2.890 -15.279 1.00 0.00 ? ? ? ? ? ? 17 LEU D HG 10
+ATOM 17822 H HD11 . LEU D 1 17 ? -15.940 -1.425 -16.617 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD11 10
+ATOM 17823 H HD12 . LEU D 1 17 ? -14.691 -2.600 -16.137 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD12 10
+ATOM 17824 H HD13 . LEU D 1 17 ? -15.434 -2.700 -17.752 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD13 10
+ATOM 17825 H HD21 . LEU D 1 17 ? -17.794 -4.636 -17.517 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD21 10
+ATOM 17826 H HD22 . LEU D 1 17 ? -18.788 -3.431 -16.663 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD22 10
+ATOM 17827 H HD23 . LEU D 1 17 ? -17.714 -2.921 -17.989 1.00 0.00 ? ? ? ? ? ? 17 LEU D HD23 10
+ATOM 17828 N N . VAL D 1 18 ? -12.909 -6.230 -16.857 1.00 0.00 ? ? ? ? ? ? 18 VAL D N 10
+ATOM 17829 C CA . VAL D 1 18 ? -11.671 -6.821 -16.380 1.00 0.00 ? ? ? ? ? ? 18 VAL D CA 10
+ATOM 17830 C C . VAL D 1 18 ? -10.485 -6.070 -16.988 1.00 0.00 ? ? ? ? ? ? 18 VAL D C 10
+ATOM 17831 O O . VAL D 1 18 ? -10.265 -6.123 -18.197 1.00 0.00 ? ? ? ? ? ? 18 VAL D O 10
+ATOM 17832 C CB . VAL D 1 18 ? -11.652 -8.319 -16.690 1.00 0.00 ? ? ? ? ? ? 18 VAL D CB 10
+ATOM 17833 C CG1 . VAL D 1 18 ? -13.023 -8.950 -16.434 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG1 10
+ATOM 17834 C CG2 . VAL D 1 18 ? -11.190 -8.576 -18.126 1.00 0.00 ? ? ? ? ? ? 18 VAL D CG2 10
+ATOM 17835 H H . VAL D 1 18 ? -12.914 -5.983 -17.826 1.00 0.00 ? ? ? ? ? ? 18 VAL D H 10
+ATOM 17836 H HA . VAL D 1 18 ? -11.645 -6.701 -15.297 1.00 0.00 ? ? ? ? ? ? 18 VAL D HA 10
+ATOM 17837 H HB . VAL D 1 18 ? -10.935 -8.792 -16.019 1.00 0.00 ? ? ? ? ? ? 18 VAL D HB 10
+ATOM 17838 H HG11 . VAL D 1 18 ? -13.032 -9.968 -16.821 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG11 10
+ATOM 17839 H HG12 . VAL D 1 18 ? -13.220 -8.966 -15.362 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG12 10
+ATOM 17840 H HG13 . VAL D 1 18 ? -13.792 -8.363 -16.936 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG13 10
+ATOM 17841 H HG21 . VAL D 1 18 ? -10.132 -8.332 -18.216 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG21 10
+ATOM 17842 H HG22 . VAL D 1 18 ? -11.344 -9.626 -18.375 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG22 10
+ATOM 17843 H HG23 . VAL D 1 18 ? -11.766 -7.953 -18.810 1.00 0.00 ? ? ? ? ? ? 18 VAL D HG23 10
+ATOM 17844 N N . PHE D 1 19 ? -9.751 -5.387 -16.121 1.00 0.00 ? ? ? ? ? ? 19 PHE D N 10
+ATOM 17845 C CA . PHE D 1 19 ? -8.593 -4.625 -16.558 1.00 0.00 ? ? ? ? ? ? 19 PHE D CA 10
+ATOM 17846 C C . PHE D 1 19 ? -7.307 -5.182 -15.943 1.00 0.00 ? ? ? ? ? ? 19 PHE D C 10
+ATOM 17847 O O . PHE D 1 19 ? -7.082 -5.050 -14.741 1.00 0.00 ? ? ? ? ? ? 19 PHE D O 10
+ATOM 17848 C CB . PHE D 1 19 ? -8.795 -3.188 -16.074 1.00 0.00 ? ? ? ? ? ? 19 PHE D CB 10
+ATOM 17849 C CG . PHE D 1 19 ? -7.812 -2.184 -16.680 1.00 0.00 ? ? ? ? ? ? 19 PHE D CG 10
+ATOM 17850 C CD1 . PHE D 1 19 ? -6.557 -2.069 -16.168 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD1 10
+ATOM 17851 C CD2 . PHE D 1 19 ? -8.192 -1.407 -17.729 1.00 0.00 ? ? ? ? ? ? 19 PHE D CD2 10
+ATOM 17852 C CE1 . PHE D 1 19 ? -5.644 -1.137 -16.730 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE1 10
+ATOM 17853 C CE2 . PHE D 1 19 ? -7.280 -0.476 -18.291 1.00 0.00 ? ? ? ? ? ? 19 PHE D CE2 10
+ATOM 17854 C CZ . PHE D 1 19 ? -6.025 -0.360 -17.780 1.00 0.00 ? ? ? ? ? ? 19 PHE D CZ 10
+ATOM 17855 H H . PHE D 1 19 ? -9.937 -5.348 -15.139 1.00 0.00 ? ? ? ? ? ? 19 PHE D H 10
+ATOM 17856 H HA . PHE D 1 19 ? -8.541 -4.710 -17.643 1.00 0.00 ? ? ? ? ? ? 19 PHE D HA 10
+ATOM 17857 H HB2 . PHE D 1 19 ? -9.811 -2.874 -16.313 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB2 10
+ATOM 17858 H HB3 . PHE D 1 19 ? -8.700 -3.164 -14.989 1.00 0.00 ? ? ? ? ? ? 19 PHE D HB3 10
+ATOM 17859 H HD1 . PHE D 1 19 ? -6.251 -2.691 -15.327 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD1 10
+ATOM 17860 H HD2 . PHE D 1 19 ? -9.198 -1.500 -18.139 1.00 0.00 ? ? ? ? ? ? 19 PHE D HD2 10
+ATOM 17861 H HE1 . PHE D 1 19 ? -4.638 -1.044 -16.321 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE1 10
+ATOM 17862 H HE2 . PHE D 1 19 ? -7.585 0.147 -19.132 1.00 0.00 ? ? ? ? ? ? 19 PHE D HE2 10
+ATOM 17863 H HZ . PHE D 1 19 ? -5.324 0.355 -18.211 1.00 0.00 ? ? ? ? ? ? 19 PHE D HZ 10
+ATOM 17864 N N . PHE D 1 20 ? -6.498 -5.793 -16.795 1.00 0.00 ? ? ? ? ? ? 20 PHE D N 10
+ATOM 17865 C CA . PHE D 1 20 ? -5.241 -6.370 -16.351 1.00 0.00 ? ? ? ? ? ? 20 PHE D CA 10
+ATOM 17866 C C . PHE D 1 20 ? -4.055 -5.515 -16.802 1.00 0.00 ? ? ? ? ? ? 20 PHE D C 10
+ATOM 17867 O O . PHE D 1 20 ? -3.888 -5.258 -17.994 1.00 0.00 ? ? ? ? ? ? 20 PHE D O 10
+ATOM 17868 C CB . PHE D 1 20 ? -5.131 -7.754 -16.995 1.00 0.00 ? ? ? ? ? ? 20 PHE D CB 10
+ATOM 17869 C CG . PHE D 1 20 ? -5.213 -8.912 -15.999 1.00 0.00 ? ? ? ? ? ? 20 PHE D CG 10
+ATOM 17870 C CD1 . PHE D 1 20 ? -6.409 -9.248 -15.443 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD1 10
+ATOM 17871 C CD2 . PHE D 1 20 ? -4.091 -9.606 -15.669 1.00 0.00 ? ? ? ? ? ? 20 PHE D CD2 10
+ATOM 17872 C CE1 . PHE D 1 20 ? -6.485 -10.323 -14.519 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE1 10
+ATOM 17873 C CE2 . PHE D 1 20 ? -4.168 -10.681 -14.744 1.00 0.00 ? ? ? ? ? ? 20 PHE D CE2 10
+ATOM 17874 C CZ . PHE D 1 20 ? -5.363 -11.017 -14.189 1.00 0.00 ? ? ? ? ? ? 20 PHE D CZ 10
+ATOM 17875 H H . PHE D 1 20 ? -6.689 -5.896 -17.772 1.00 0.00 ? ? ? ? ? ? 20 PHE D H 10
+ATOM 17876 H HA . PHE D 1 20 ? -5.268 -6.405 -15.262 1.00 0.00 ? ? ? ? ? ? 20 PHE D HA 10
+ATOM 17877 H HB2 . PHE D 1 20 ? -5.927 -7.864 -17.732 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB2 10
+ATOM 17878 H HB3 . PHE D 1 20 ? -4.186 -7.818 -17.535 1.00 0.00 ? ? ? ? ? ? 20 PHE D HB3 10
+ATOM 17879 H HD1 . PHE D 1 20 ? -7.308 -8.691 -15.708 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD1 10
+ATOM 17880 H HD2 . PHE D 1 20 ? -3.134 -9.337 -16.114 1.00 0.00 ? ? ? ? ? ? 20 PHE D HD2 10
+ATOM 17881 H HE1 . PHE D 1 20 ? -7.443 -10.592 -14.073 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE1 10
+ATOM 17882 H HE2 . PHE D 1 20 ? -3.268 -11.238 -14.480 1.00 0.00 ? ? ? ? ? ? 20 PHE D HE2 10
+ATOM 17883 H HZ . PHE D 1 20 ? -5.421 -11.842 -13.479 1.00 0.00 ? ? ? ? ? ? 20 PHE D HZ 10
+ATOM 17884 N N . ALA D 1 21 ? -3.262 -5.098 -15.827 1.00 0.00 ? ? ? ? ? ? 21 ALA D N 10
+ATOM 17885 C CA . ALA D 1 21 ? -2.096 -4.278 -16.109 1.00 0.00 ? ? ? ? ? ? 21 ALA D CA 10
+ATOM 17886 C C . ALA D 1 21 ? -0.865 -4.904 -15.450 1.00 0.00 ? ? ? ? ? ? 21 ALA D C 10
+ATOM 17887 O O . ALA D 1 21 ? -0.704 -4.833 -14.233 1.00 0.00 ? ? ? ? ? ? 21 ALA D O 10
+ATOM 17888 C CB . ALA D 1 21 ? -2.350 -2.847 -15.628 1.00 0.00 ? ? ? ? ? ? 21 ALA D CB 10
+ATOM 17889 H H . ALA D 1 21 ? -3.404 -5.312 -14.860 1.00 0.00 ? ? ? ? ? ? 21 ALA D H 10
+ATOM 17890 H HA . ALA D 1 21 ? -1.953 -4.265 -17.189 1.00 0.00 ? ? ? ? ? ? 21 ALA D HA 10
+ATOM 17891 H HB1 . ALA D 1 21 ? -2.617 -2.861 -14.572 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB1 10
+ATOM 17892 H HB2 . ALA D 1 21 ? -1.448 -2.252 -15.768 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB2 10
+ATOM 17893 H HB3 . ALA D 1 21 ? -3.167 -2.411 -16.203 1.00 0.00 ? ? ? ? ? ? 21 ALA D HB3 10
+ATOM 17894 N N . GLU D 1 22 ? -0.028 -5.503 -16.284 1.00 0.00 ? ? ? ? ? ? 22 GLU D N 10
+ATOM 17895 C CA . GLU D 1 22 ? 1.183 -6.142 -15.798 1.00 0.00 ? ? ? ? ? ? 22 GLU D CA 10
+ATOM 17896 C C . GLU D 1 22 ? 2.410 -5.561 -16.505 1.00 0.00 ? ? ? ? ? ? 22 GLU D C 10
+ATOM 17897 O O . GLU D 1 22 ? 2.464 -5.527 -17.733 1.00 0.00 ? ? ? ? ? ? 22 GLU D O 10
+ATOM 17898 C CB . GLU D 1 22 ? 1.114 -7.659 -15.978 1.00 0.00 ? ? ? ? ? ? 22 GLU D CB 10
+ATOM 17899 C CG . GLU D 1 22 ? 1.619 -8.384 -14.729 1.00 0.00 ? ? ? ? ? ? 22 GLU D CG 10
+ATOM 17900 C CD . GLU D 1 22 ? 2.582 -9.512 -15.101 1.00 0.00 ? ? ? ? ? ? 22 GLU D CD 10
+ATOM 17901 O OE1 . GLU D 1 22 ? 3.754 -9.186 -15.389 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE1 10
+ATOM 17902 O OE2 . GLU D 1 22 ? 2.126 -10.676 -15.089 1.00 0.00 ? ? ? ? ? ? 22 GLU D OE2 10
+ATOM 17903 H H . GLU D 1 22 ? -0.166 -5.557 -17.273 1.00 0.00 ? ? ? ? ? ? 22 GLU D H 10
+ATOM 17904 H HA . GLU D 1 22 ? 1.226 -5.910 -14.733 1.00 0.00 ? ? ? ? ? ? 22 GLU D HA 10
+ATOM 17905 H HB2 . GLU D 1 22 ? 0.086 -7.958 -16.186 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB2 10
+ATOM 17906 H HB3 . GLU D 1 22 ? 1.712 -7.955 -16.840 1.00 0.00 ? ? ? ? ? ? 22 GLU D HB3 10
+ATOM 17907 H HG2 . GLU D 1 22 ? 2.120 -7.674 -14.070 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG2 10
+ATOM 17908 H HG3 . GLU D 1 22 ? 0.774 -8.791 -14.173 1.00 0.00 ? ? ? ? ? ? 22 GLU D HG3 10
+ATOM 17909 N N . ASP D 1 23 ? 3.364 -5.119 -15.699 1.00 0.00 ? ? ? ? ? ? 23 ASP D N 10
+ATOM 17910 C CA . ASP D 1 23 ? 4.586 -4.542 -16.232 1.00 0.00 ? ? ? ? ? ? 23 ASP D CA 10
+ATOM 17911 C C . ASP D 1 23 ? 5.790 -5.308 -15.681 1.00 0.00 ? ? ? ? ? ? 23 ASP D C 10
+ATOM 17912 O O . ASP D 1 23 ? 5.985 -5.376 -14.468 1.00 0.00 ? ? ? ? ? ? 23 ASP D O 10
+ATOM 17913 C CB . ASP D 1 23 ? 4.729 -3.076 -15.818 1.00 0.00 ? ? ? ? ? ? 23 ASP D CB 10
+ATOM 17914 C CG . ASP D 1 23 ? 5.997 -2.382 -16.321 1.00 0.00 ? ? ? ? ? ? 23 ASP D CG 10
+ATOM 17915 O OD1 . ASP D 1 23 ? 6.583 -2.907 -17.292 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD1 10
+ATOM 17916 O OD2 . ASP D 1 23 ? 6.351 -1.344 -15.723 1.00 0.00 ? ? ? ? ? ? 23 ASP D OD2 10
+ATOM 17917 H H . ASP D 1 23 ? 3.312 -5.151 -14.700 1.00 0.00 ? ? ? ? ? ? 23 ASP D H 10
+ATOM 17918 H HA . ASP D 1 23 ? 4.496 -4.630 -17.314 1.00 0.00 ? ? ? ? ? ? 23 ASP D HA 10
+ATOM 17919 H HB2 . ASP D 1 23 ? 3.862 -2.525 -16.182 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB2 10
+ATOM 17920 H HB3 . ASP D 1 23 ? 4.709 -3.018 -14.729 1.00 0.00 ? ? ? ? ? ? 23 ASP D HB3 10
+ATOM 17921 N N . VAL D 1 24 ? 6.566 -5.866 -16.598 1.00 0.00 ? ? ? ? ? ? 24 VAL D N 10
+ATOM 17922 C CA . VAL D 1 24 ? 7.746 -6.625 -16.219 1.00 0.00 ? ? ? ? ? ? 24 VAL D CA 10
+ATOM 17923 C C . VAL D 1 24 ? 9.000 -5.844 -16.618 1.00 0.00 ? ? ? ? ? ? 24 VAL D C 10
+ATOM 17924 O O . VAL D 1 24 ? 9.379 -5.828 -17.788 1.00 0.00 ? ? ? ? ? ? 24 VAL D O 10
+ATOM 17925 C CB . VAL D 1 24 ? 7.690 -8.023 -16.838 1.00 0.00 ? ? ? ? ? ? 24 VAL D CB 10
+ATOM 17926 C CG1 . VAL D 1 24 ? 8.997 -8.782 -16.599 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG1 10
+ATOM 17927 C CG2 . VAL D 1 24 ? 6.493 -8.812 -16.304 1.00 0.00 ? ? ? ? ? ? 24 VAL D CG2 10
+ATOM 17928 H H . VAL D 1 24 ? 6.401 -5.806 -17.582 1.00 0.00 ? ? ? ? ? ? 24 VAL D H 10
+ATOM 17929 H HA . VAL D 1 24 ? 7.731 -6.736 -15.134 1.00 0.00 ? ? ? ? ? ? 24 VAL D HA 10
+ATOM 17930 H HB . VAL D 1 24 ? 7.561 -7.908 -17.914 1.00 0.00 ? ? ? ? ? ? 24 VAL D HB 10
+ATOM 17931 H HG11 . VAL D 1 24 ? 8.777 -9.829 -16.394 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG11 10
+ATOM 17932 H HG12 . VAL D 1 24 ? 9.626 -8.710 -17.486 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG12 10
+ATOM 17933 H HG13 . VAL D 1 24 ? 9.519 -8.346 -15.747 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG13 10
+ATOM 17934 H HG21 . VAL D 1 24 ? 6.725 -9.198 -15.311 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG21 10
+ATOM 17935 H HG22 . VAL D 1 24 ? 5.623 -8.157 -16.244 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG22 10
+ATOM 17936 H HG23 . VAL D 1 24 ? 6.276 -9.643 -16.975 1.00 0.00 ? ? ? ? ? ? 24 VAL D HG23 10
+ATOM 17937 N N . GLY D 1 25 ? 9.608 -5.216 -15.623 1.00 0.00 ? ? ? ? ? ? 25 GLY D N 10
+ATOM 17938 C CA . GLY D 1 25 ? 10.811 -4.435 -15.855 1.00 0.00 ? ? ? ? ? ? 25 GLY D CA 10
+ATOM 17939 C C . GLY D 1 25 ? 12.034 -5.113 -15.233 1.00 0.00 ? ? ? ? ? ? 25 GLY D C 10
+ATOM 17940 O O . GLY D 1 25 ? 12.076 -5.337 -14.024 1.00 0.00 ? ? ? ? ? ? 25 GLY D O 10
+ATOM 17941 H H . GLY D 1 25 ? 9.293 -5.234 -14.674 1.00 0.00 ? ? ? ? ? ? 25 GLY D H 10
+ATOM 17942 H HA2 . GLY D 1 25 ? 10.967 -4.310 -16.927 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA2 10
+ATOM 17943 H HA3 . GLY D 1 25 ? 10.689 -3.438 -15.432 1.00 0.00 ? ? ? ? ? ? 25 GLY D HA3 10
+ATOM 17944 N N . SER D 1 26 ? 12.999 -5.420 -16.087 1.00 0.00 ? ? ? ? ? ? 26 SER D N 10
+ATOM 17945 C CA . SER D 1 26 ? 14.219 -6.068 -15.636 1.00 0.00 ? ? ? ? ? ? 26 SER D CA 10
+ATOM 17946 C C . SER D 1 26 ? 15.309 -5.022 -15.396 1.00 0.00 ? ? ? ? ? ? 26 SER D C 10
+ATOM 17947 O O . SER D 1 26 ? 15.955 -4.566 -16.338 1.00 0.00 ? ? ? ? ? ? 26 SER D O 10
+ATOM 17948 C CB . SER D 1 26 ? 14.697 -7.109 -16.650 1.00 0.00 ? ? ? ? ? ? 26 SER D CB 10
+ATOM 17949 O OG . SER D 1 26 ? 15.136 -8.308 -16.018 1.00 0.00 ? ? ? ? ? ? 26 SER D OG 10
+ATOM 17950 H H . SER D 1 26 ? 12.957 -5.235 -17.069 1.00 0.00 ? ? ? ? ? ? 26 SER D H 10
+ATOM 17951 H HA . SER D 1 26 ? 13.954 -6.566 -14.703 1.00 0.00 ? ? ? ? ? ? 26 SER D HA 10
+ATOM 17952 H HB2 . SER D 1 26 ? 13.887 -7.340 -17.343 1.00 0.00 ? ? ? ? ? ? 26 SER D HB2 10
+ATOM 17953 H HB3 . SER D 1 26 ? 15.512 -6.692 -17.242 1.00 0.00 ? ? ? ? ? ? 26 SER D HB3 10
+ATOM 17954 H HG . SER D 1 26 ? 14.348 -8.866 -15.759 1.00 0.00 ? ? ? ? ? ? 26 SER D HG 10
+ATOM 17955 N N . ASN D 1 27 ? 15.479 -4.671 -14.129 1.00 0.00 ? ? ? ? ? ? 27 ASN D N 10
+ATOM 17956 C CA . ASN D 1 27 ? 16.479 -3.687 -13.753 1.00 0.00 ? ? ? ? ? ? 27 ASN D CA 10
+ATOM 17957 C C . ASN D 1 27 ? 16.024 -2.301 -14.215 1.00 0.00 ? ? ? ? ? ? 27 ASN D C 10
+ATOM 17958 O O . ASN D 1 27 ? 16.383 -1.857 -15.304 1.00 0.00 ? ? ? ? ? ? 27 ASN D O 10
+ATOM 17959 C CB . ASN D 1 27 ? 17.825 -3.988 -14.416 1.00 0.00 ? ? ? ? ? ? 27 ASN D CB 10
+ATOM 17960 C CG . ASN D 1 27 ? 18.961 -3.952 -13.392 1.00 0.00 ? ? ? ? ? ? 27 ASN D CG 10
+ATOM 17961 O OD1 . ASN D 1 27 ? 18.857 -3.358 -12.332 1.00 0.00 ? ? ? ? ? ? 27 ASN D OD1 10
+ATOM 17962 N ND2 . ASN D 1 27 ? 20.049 -4.620 -13.768 1.00 0.00 ? ? ? ? ? ? 27 ASN D ND2 10
+ATOM 17963 H H . ASN D 1 27 ? 14.949 -5.047 -13.369 1.00 0.00 ? ? ? ? ? ? 27 ASN D H 10
+ATOM 17964 H HA . ASN D 1 27 ? 16.559 -3.760 -12.668 1.00 0.00 ? ? ? ? ? ? 27 ASN D HA 10
+ATOM 17965 H HB2 . ASN D 1 27 ? 17.789 -4.969 -14.891 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB2 10
+ATOM 17966 H HB3 . ASN D 1 27 ? 18.017 -3.259 -15.204 1.00 0.00 ? ? ? ? ? ? 27 ASN D HB3 10
+ATOM 17967 H HD21 . ASN D 1 27 ? 20.069 -5.086 -14.652 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD21 10
+ATOM 17968 H HD22 . ASN D 1 27 ? 20.846 -4.655 -13.165 1.00 0.00 ? ? ? ? ? ? 27 ASN D HD22 10
+ATOM 17969 N N . LYS D 1 28 ? 15.240 -1.657 -13.363 1.00 0.00 ? ? ? ? ? ? 28 LYS D N 10
+ATOM 17970 C CA . LYS D 1 28 ? 14.732 -0.330 -13.670 1.00 0.00 ? ? ? ? ? ? 28 LYS D CA 10
+ATOM 17971 C C . LYS D 1 28 ? 15.038 0.611 -12.504 1.00 0.00 ? ? ? ? ? ? 28 LYS D C 10
+ATOM 17972 O O . LYS D 1 28 ? 14.498 0.447 -11.411 1.00 0.00 ? ? ? ? ? ? 28 LYS D O 10
+ATOM 17973 C CB . LYS D 1 28 ? 13.248 -0.396 -14.034 1.00 0.00 ? ? ? ? ? ? 28 LYS D CB 10
+ATOM 17974 C CG . LYS D 1 28 ? 12.435 -1.037 -12.908 1.00 0.00 ? ? ? ? ? ? 28 LYS D CG 10
+ATOM 17975 C CD . LYS D 1 28 ? 10.957 -1.141 -13.288 1.00 0.00 ? ? ? ? ? ? 28 LYS D CD 10
+ATOM 17976 C CE . LYS D 1 28 ? 10.058 -0.779 -12.104 1.00 0.00 ? ? ? ? ? ? 28 LYS D CE 10
+ATOM 17977 N NZ . LYS D 1 28 ? 8.810 -1.573 -12.138 1.00 0.00 ? ? ? ? ? ? 28 LYS D NZ 10
+ATOM 17978 H H . LYS D 1 28 ? 14.953 -2.025 -12.479 1.00 0.00 ? ? ? ? ? ? 28 LYS D H 10
+ATOM 17979 H HA . LYS D 1 28 ? 15.265 0.027 -14.552 1.00 0.00 ? ? ? ? ? ? 28 LYS D HA 10
+ATOM 17980 H HB2 . LYS D 1 28 ? 12.873 0.608 -14.233 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB2 10
+ATOM 17981 H HB3 . LYS D 1 28 ? 13.120 -0.971 -14.952 1.00 0.00 ? ? ? ? ? ? 28 LYS D HB3 10
+ATOM 17982 H HG2 . LYS D 1 28 ? 12.828 -2.030 -12.689 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG2 10
+ATOM 17983 H HG3 . LYS D 1 28 ? 12.539 -0.446 -11.998 1.00 0.00 ? ? ? ? ? ? 28 LYS D HG3 10
+ATOM 17984 H HD2 . LYS D 1 28 ? 10.746 -0.476 -14.126 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD2 10
+ATOM 17985 H HD3 . LYS D 1 28 ? 10.734 -2.154 -13.622 1.00 0.00 ? ? ? ? ? ? 28 LYS D HD3 10
+ATOM 17986 H HE2 . LYS D 1 28 ? 10.588 -0.962 -11.169 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE2 10
+ATOM 17987 H HE3 . LYS D 1 28 ? 9.821 0.285 -12.132 1.00 0.00 ? ? ? ? ? ? 28 LYS D HE3 10
+ATOM 17988 H HZ1 . LYS D 1 28 ? 8.788 -2.123 -12.973 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ1 10
+ATOM 17989 H HZ2 . LYS D 1 28 ? 8.777 -2.176 -11.341 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ2 10
+ATOM 17990 H HZ3 . LYS D 1 28 ? 8.023 -0.957 -12.123 1.00 0.00 ? ? ? ? ? ? 28 LYS D HZ3 10
+ATOM 17991 N N . GLY D 1 29 ? 15.904 1.576 -12.775 1.00 0.00 ? ? ? ? ? ? 29 GLY D N 10
+ATOM 17992 C CA . GLY D 1 29 ? 16.288 2.544 -11.762 1.00 0.00 ? ? ? ? ? ? 29 GLY D CA 10
+ATOM 17993 C C . GLY D 1 29 ? 16.186 3.972 -12.301 1.00 0.00 ? ? ? ? ? ? 29 GLY D C 10
+ATOM 17994 O O . GLY D 1 29 ? 15.264 4.293 -13.049 1.00 0.00 ? ? ? ? ? ? 29 GLY D O 10
+ATOM 17995 H H . GLY D 1 29 ? 16.339 1.703 -13.667 1.00 0.00 ? ? ? ? ? ? 29 GLY D H 10
+ATOM 17996 H HA2 . GLY D 1 29 ? 15.646 2.435 -10.888 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA2 10
+ATOM 17997 H HA3 . GLY D 1 29 ? 17.309 2.347 -11.434 1.00 0.00 ? ? ? ? ? ? 29 GLY D HA3 10
+ATOM 17998 N N . ALA D 1 30 ? 17.147 4.792 -11.899 1.00 0.00 ? ? ? ? ? ? 30 ALA D N 10
+ATOM 17999 C CA . ALA D 1 30 ? 17.177 6.179 -12.333 1.00 0.00 ? ? ? ? ? ? 30 ALA D CA 10
+ATOM 18000 C C . ALA D 1 30 ? 15.874 6.866 -11.920 1.00 0.00 ? ? ? ? ? ? 30 ALA D C 10
+ATOM 18001 O O . ALA D 1 30 ? 15.716 7.263 -10.766 1.00 0.00 ? ? ? ? ? ? 30 ALA D O 10
+ATOM 18002 C CB . ALA D 1 30 ? 17.413 6.237 -13.843 1.00 0.00 ? ? ? ? ? ? 30 ALA D CB 10
+ATOM 18003 H H . ALA D 1 30 ? 17.893 4.523 -11.291 1.00 0.00 ? ? ? ? ? ? 30 ALA D H 10
+ATOM 18004 H HA . ALA D 1 30 ? 18.011 6.666 -11.828 1.00 0.00 ? ? ? ? ? ? 30 ALA D HA 10
+ATOM 18005 H HB1 . ALA D 1 30 ? 17.011 7.170 -14.238 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB1 10
+ATOM 18006 H HB2 . ALA D 1 30 ? 18.483 6.187 -14.046 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB2 10
+ATOM 18007 H HB3 . ALA D 1 30 ? 16.913 5.395 -14.322 1.00 0.00 ? ? ? ? ? ? 30 ALA D HB3 10
+ATOM 18008 N N . ILE D 1 31 ? 14.973 6.985 -12.884 1.00 0.00 ? ? ? ? ? ? 31 ILE D N 10
+ATOM 18009 C CA . ILE D 1 31 ? 13.689 7.618 -12.635 1.00 0.00 ? ? ? ? ? ? 31 ILE D CA 10
+ATOM 18010 C C . ILE D 1 31 ? 12.587 6.815 -13.330 1.00 0.00 ? ? ? ? ? ? 31 ILE D C 10
+ATOM 18011 O O . ILE D 1 31 ? 12.507 6.798 -14.557 1.00 0.00 ? ? ? ? ? ? 31 ILE D O 10
+ATOM 18012 C CB . ILE D 1 31 ? 13.729 9.091 -13.045 1.00 0.00 ? ? ? ? ? ? 31 ILE D CB 10
+ATOM 18013 C CG1 . ILE D 1 31 ? 14.824 9.842 -12.285 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG1 10
+ATOM 18014 C CG2 . ILE D 1 31 ? 12.357 9.746 -12.870 1.00 0.00 ? ? ? ? ? ? 31 ILE D CG2 10
+ATOM 18015 C CD1 . ILE D 1 31 ? 15.028 11.245 -12.862 1.00 0.00 ? ? ? ? ? ? 31 ILE D CD1 10
+ATOM 18016 H H . ILE D 1 31 ? 15.109 6.659 -13.820 1.00 0.00 ? ? ? ? ? ? 31 ILE D H 10
+ATOM 18017 H HA . ILE D 1 31 ? 13.513 7.587 -11.560 1.00 0.00 ? ? ? ? ? ? 31 ILE D HA 10
+ATOM 18018 H HB . ILE D 1 31 ? 13.978 9.144 -14.105 1.00 0.00 ? ? ? ? ? ? 31 ILE D HB 10
+ATOM 18019 H HG12 . ILE D 1 31 ? 14.556 9.914 -11.231 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG12 10
+ATOM 18020 H HG13 . ILE D 1 31 ? 15.758 9.283 -12.339 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG13 10
+ATOM 18021 H HG21 . ILE D 1 31 ? 11.963 9.506 -11.883 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG21 10
+ATOM 18022 H HG22 . ILE D 1 31 ? 12.455 10.827 -12.969 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG22 10
+ATOM 18023 H HG23 . ILE D 1 31 ? 11.676 9.372 -13.634 1.00 0.00 ? ? ? ? ? ? 31 ILE D HG23 10
+ATOM 18024 H HD11 . ILE D 1 31 ? 16.074 11.374 -13.140 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD11 10
+ATOM 18025 H HD12 . ILE D 1 31 ? 14.400 11.370 -13.743 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD12 10
+ATOM 18026 H HD13 . ILE D 1 31 ? 14.756 11.989 -12.113 1.00 0.00 ? ? ? ? ? ? 31 ILE D HD13 10
+ATOM 18027 N N . ILE D 1 32 ? 11.765 6.171 -12.515 1.00 0.00 ? ? ? ? ? ? 32 ILE D N 10
+ATOM 18028 C CA . ILE D 1 32 ? 10.671 5.369 -13.036 1.00 0.00 ? ? ? ? ? ? 32 ILE D CA 10
+ATOM 18029 C C . ILE D 1 32 ? 9.414 5.625 -12.202 1.00 0.00 ? ? ? ? ? ? 32 ILE D C 10
+ATOM 18030 O O . ILE D 1 32 ? 9.368 5.282 -11.021 1.00 0.00 ? ? ? ? ? ? 32 ILE D O 10
+ATOM 18031 C CB . ILE D 1 32 ? 11.073 3.894 -13.106 1.00 0.00 ? ? ? ? ? ? 32 ILE D CB 10
+ATOM 18032 C CG1 . ILE D 1 32 ? 10.031 3.077 -13.872 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG1 10
+ATOM 18033 C CG2 . ILE D 1 32 ? 11.330 3.329 -11.707 1.00 0.00 ? ? ? ? ? ? 32 ILE D CG2 10
+ATOM 18034 C CD1 . ILE D 1 32 ? 8.649 3.210 -13.229 1.00 0.00 ? ? ? ? ? ? 32 ILE D CD1 10
+ATOM 18035 H H . ILE D 1 32 ? 11.837 6.190 -11.518 1.00 0.00 ? ? ? ? ? ? 32 ILE D H 10
+ATOM 18036 H HA . ILE D 1 32 ? 10.481 5.700 -14.057 1.00 0.00 ? ? ? ? ? ? 32 ILE D HA 10
+ATOM 18037 H HB . ILE D 1 32 ? 12.010 3.822 -13.659 1.00 0.00 ? ? ? ? ? ? 32 ILE D HB 10
+ATOM 18038 H HG12 . ILE D 1 32 ? 9.989 3.415 -14.908 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG12 10
+ATOM 18039 H HG13 . ILE D 1 32 ? 10.329 2.029 -13.891 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG13 10
+ATOM 18040 H HG21 . ILE D 1 32 ? 10.412 3.380 -11.121 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG21 10
+ATOM 18041 H HG22 . ILE D 1 32 ? 11.652 2.291 -11.788 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG22 10
+ATOM 18042 H HG23 . ILE D 1 32 ? 12.107 3.914 -11.216 1.00 0.00 ? ? ? ? ? ? 32 ILE D HG23 10
+ATOM 18043 H HD11 . ILE D 1 32 ? 8.759 3.303 -12.149 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD11 10
+ATOM 18044 H HD12 . ILE D 1 32 ? 8.150 4.095 -13.621 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD12 10
+ATOM 18045 H HD13 . ILE D 1 32 ? 8.055 2.325 -13.459 1.00 0.00 ? ? ? ? ? ? 32 ILE D HD13 10
+ATOM 18046 N N . GLY D 1 33 ? 8.425 6.225 -12.848 1.00 0.00 ? ? ? ? ? ? 33 GLY D N 10
+ATOM 18047 C CA . GLY D 1 33 ? 7.172 6.530 -12.181 1.00 0.00 ? ? ? ? ? ? 33 GLY D CA 10
+ATOM 18048 C C . GLY D 1 33 ? 5.994 5.859 -12.891 1.00 0.00 ? ? ? ? ? ? 33 GLY D C 10
+ATOM 18049 O O . GLY D 1 33 ? 5.858 5.963 -14.109 1.00 0.00 ? ? ? ? ? ? 33 GLY D O 10
+ATOM 18050 H H . GLY D 1 33 ? 8.471 6.500 -13.808 1.00 0.00 ? ? ? ? ? ? 33 GLY D H 10
+ATOM 18051 H HA2 . GLY D 1 33 ? 7.216 6.194 -11.145 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA2 10
+ATOM 18052 H HA3 . GLY D 1 33 ? 7.020 7.609 -12.159 1.00 0.00 ? ? ? ? ? ? 33 GLY D HA3 10
+ATOM 18053 N N . LEU D 1 34 ? 5.173 5.185 -12.099 1.00 0.00 ? ? ? ? ? ? 34 LEU D N 10
+ATOM 18054 C CA . LEU D 1 34 ? 4.012 4.496 -12.637 1.00 0.00 ? ? ? ? ? ? 34 LEU D CA 10
+ATOM 18055 C C . LEU D 1 34 ? 2.753 5.000 -11.929 1.00 0.00 ? ? ? ? ? ? 34 LEU D C 10
+ATOM 18056 O O . LEU D 1 34 ? 2.720 5.088 -10.702 1.00 0.00 ? ? ? ? ? ? 34 LEU D O 10
+ATOM 18057 C CB . LEU D 1 34 ? 4.201 2.980 -12.552 1.00 0.00 ? ? ? ? ? ? 34 LEU D CB 10
+ATOM 18058 C CG . LEU D 1 34 ? 3.744 2.319 -11.250 1.00 0.00 ? ? ? ? ? ? 34 LEU D CG 10
+ATOM 18059 C CD1 . LEU D 1 34 ? 2.251 1.987 -11.298 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD1 10
+ATOM 18060 C CD2 . LEU D 1 34 ? 4.595 1.089 -10.931 1.00 0.00 ? ? ? ? ? ? 34 LEU D CD2 10
+ATOM 18061 H H . LEU D 1 34 ? 5.291 5.105 -11.109 1.00 0.00 ? ? ? ? ? ? 34 LEU D H 10
+ATOM 18062 H HA . LEU D 1 34 ? 3.941 4.753 -13.694 1.00 0.00 ? ? ? ? ? ? 34 LEU D HA 10
+ATOM 18063 H HB2 . LEU D 1 34 ? 3.661 2.520 -13.379 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB2 10
+ATOM 18064 H HB3 . LEU D 1 34 ? 5.258 2.757 -12.698 1.00 0.00 ? ? ? ? ? ? 34 LEU D HB3 10
+ATOM 18065 H HG . LEU D 1 34 ? 3.889 3.031 -10.437 1.00 0.00 ? ? ? ? ? ? 34 LEU D HG 10
+ATOM 18066 H HD11 . LEU D 1 34 ? 2.114 0.995 -11.728 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD11 10
+ATOM 18067 H HD12 . LEU D 1 34 ? 1.842 2.006 -10.288 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD12 10
+ATOM 18068 H HD13 . LEU D 1 34 ? 1.735 2.724 -11.913 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD13 10
+ATOM 18069 H HD21 . LEU D 1 34 ? 4.160 0.555 -10.086 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD21 10
+ATOM 18070 H HD22 . LEU D 1 34 ? 4.624 0.432 -11.801 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD22 10
+ATOM 18071 H HD23 . LEU D 1 34 ? 5.608 1.403 -10.680 1.00 0.00 ? ? ? ? ? ? 34 LEU D HD23 10
+ATOM 18072 N N . MET D 1 35 ? 1.748 5.317 -12.732 1.00 0.00 ? ? ? ? ? ? 35 MET D N 10
+ATOM 18073 C CA . MET D 1 35 ? 0.490 5.809 -12.197 1.00 0.00 ? ? ? ? ? ? 35 MET D CA 10
+ATOM 18074 C C . MET D 1 35 ? -0.649 4.827 -12.482 1.00 0.00 ? ? ? ? ? ? 35 MET D C 10
+ATOM 18075 O O . MET D 1 35 ? -0.793 4.347 -13.605 1.00 0.00 ? ? ? ? ? ? 35 MET D O 10
+ATOM 18076 C CB . MET D 1 35 ? 0.163 7.165 -12.826 1.00 0.00 ? ? ? ? ? ? 35 MET D CB 10
+ATOM 18077 C CG . MET D 1 35 ? 0.037 8.250 -11.755 1.00 0.00 ? ? ? ? ? ? 35 MET D CG 10
+ATOM 18078 S SD . MET D 1 35 ? 1.297 9.492 -11.992 1.00 0.00 ? ? ? ? ? ? 35 MET D SD 10
+ATOM 18079 C CE . MET D 1 35 ? 0.590 10.834 -11.052 1.00 0.00 ? ? ? ? ? ? 35 MET D CE 10
+ATOM 18080 H H . MET D 1 35 ? 1.783 5.242 -13.728 1.00 0.00 ? ? ? ? ? ? 35 MET D H 10
+ATOM 18081 H HA . MET D 1 35 ? 0.643 5.897 -11.122 1.00 0.00 ? ? ? ? ? ? 35 MET D HA 10
+ATOM 18082 H HB2 . MET D 1 35 ? 0.945 7.438 -13.536 1.00 0.00 ? ? ? ? ? ? 35 MET D HB2 10
+ATOM 18083 H HB3 . MET D 1 35 ? -0.767 7.095 -13.389 1.00 0.00 ? ? ? ? ? ? 35 MET D HB3 10
+ATOM 18084 H HG2 . MET D 1 35 ? -0.951 8.709 -11.805 1.00 0.00 ? ? ? ? ? ? 35 MET D HG2 10
+ATOM 18085 H HG3 . MET D 1 35 ? 0.133 7.807 -10.764 1.00 0.00 ? ? ? ? ? ? 35 MET D HG3 10
+ATOM 18086 H HE1 . MET D 1 35 ? 1.153 10.967 -10.128 1.00 0.00 ? ? ? ? ? ? 35 MET D HE1 10
+ATOM 18087 H HE2 . MET D 1 35 ? 0.635 11.752 -11.639 1.00 0.00 ? ? ? ? ? ? 35 MET D HE2 10
+ATOM 18088 H HE3 . MET D 1 35 ? -0.449 10.605 -10.815 1.00 0.00 ? ? ? ? ? ? 35 MET D HE3 10
+ATOM 18089 N N . VAL D 1 36 ? -1.427 4.557 -11.444 1.00 0.00 ? ? ? ? ? ? 36 VAL D N 10
+ATOM 18090 C CA . VAL D 1 36 ? -2.548 3.641 -11.569 1.00 0.00 ? ? ? ? ? ? 36 VAL D CA 10
+ATOM 18091 C C . VAL D 1 36 ? -3.814 4.315 -11.036 1.00 0.00 ? ? ? ? ? ? 36 VAL D C 10
+ATOM 18092 O O . VAL D 1 36 ? -4.064 4.312 -9.832 1.00 0.00 ? ? ? ? ? ? 36 VAL D O 10
+ATOM 18093 C CB . VAL D 1 36 ? -2.229 2.324 -10.858 1.00 0.00 ? ? ? ? ? ? 36 VAL D CB 10
+ATOM 18094 C CG1 . VAL D 1 36 ? -3.475 1.443 -10.750 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG1 10
+ATOM 18095 C CG2 . VAL D 1 36 ? -1.093 1.582 -11.564 1.00 0.00 ? ? ? ? ? ? 36 VAL D CG2 10
+ATOM 18096 H H . VAL D 1 36 ? -1.303 4.951 -10.534 1.00 0.00 ? ? ? ? ? ? 36 VAL D H 10
+ATOM 18097 H HA . VAL D 1 36 ? -2.683 3.428 -12.629 1.00 0.00 ? ? ? ? ? ? 36 VAL D HA 10
+ATOM 18098 H HB . VAL D 1 36 ? -1.897 2.560 -9.847 1.00 0.00 ? ? ? ? ? ? 36 VAL D HB 10
+ATOM 18099 H HG11 . VAL D 1 36 ? -4.198 1.917 -10.085 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG11 10
+ATOM 18100 H HG12 . VAL D 1 36 ? -3.919 1.318 -11.737 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG12 10
+ATOM 18101 H HG13 . VAL D 1 36 ? -3.198 0.468 -10.349 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG13 10
+ATOM 18102 H HG21 . VAL D 1 36 ? -1.317 1.502 -12.628 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG21 10
+ATOM 18103 H HG22 . VAL D 1 36 ? -0.161 2.131 -11.429 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG22 10
+ATOM 18104 H HG23 . VAL D 1 36 ? -0.991 0.583 -11.139 1.00 0.00 ? ? ? ? ? ? 36 VAL D HG23 10
+ATOM 18105 N N . GLY D 1 37 ? -4.579 4.878 -11.960 1.00 0.00 ? ? ? ? ? ? 37 GLY D N 10
+ATOM 18106 C CA . GLY D 1 37 ? -5.813 5.556 -11.599 1.00 0.00 ? ? ? ? ? ? 37 GLY D CA 10
+ATOM 18107 C C . GLY D 1 37 ? -7.032 4.708 -11.969 1.00 0.00 ? ? ? ? ? ? 37 GLY D C 10
+ATOM 18108 O O . GLY D 1 37 ? -7.189 4.310 -13.122 1.00 0.00 ? ? ? ? ? ? 37 GLY D O 10
+ATOM 18109 H H . GLY D 1 37 ? -4.369 4.877 -12.938 1.00 0.00 ? ? ? ? ? ? 37 GLY D H 10
+ATOM 18110 H HA2 . GLY D 1 37 ? -5.820 5.761 -10.528 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA2 10
+ATOM 18111 H HA3 . GLY D 1 37 ? -5.867 6.518 -12.108 1.00 0.00 ? ? ? ? ? ? 37 GLY D HA3 10
+ATOM 18112 N N . GLY D 1 38 ? -7.864 4.457 -10.968 1.00 0.00 ? ? ? ? ? ? 38 GLY D N 10
+ATOM 18113 C CA . GLY D 1 38 ? -9.064 3.664 -11.174 1.00 0.00 ? ? ? ? ? ? 38 GLY D CA 10
+ATOM 18114 C C . GLY D 1 38 ? -10.279 4.331 -10.527 1.00 0.00 ? ? ? ? ? ? 38 GLY D C 10
+ATOM 18115 O O . GLY D 1 38 ? -10.449 4.274 -9.310 1.00 0.00 ? ? ? ? ? ? 38 GLY D O 10
+ATOM 18116 H H . GLY D 1 38 ? -7.728 4.784 -10.033 1.00 0.00 ? ? ? ? ? ? 38 GLY D H 10
+ATOM 18117 H HA2 . GLY D 1 38 ? -9.241 3.535 -12.242 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA2 10
+ATOM 18118 H HA3 . GLY D 1 38 ? -8.923 2.669 -10.752 1.00 0.00 ? ? ? ? ? ? 38 GLY D HA3 10
+ATOM 18119 N N . VAL D 1 39 ? -11.094 4.949 -11.370 1.00 0.00 ? ? ? ? ? ? 39 VAL D N 10
+ATOM 18120 C CA . VAL D 1 39 ? -12.289 5.626 -10.895 1.00 0.00 ? ? ? ? ? ? 39 VAL D CA 10
+ATOM 18121 C C . VAL D 1 39 ? -13.524 4.946 -11.488 1.00 0.00 ? ? ? ? ? ? 39 VAL D C 10
+ATOM 18122 O O . VAL D 1 39 ? -13.583 4.696 -12.691 1.00 0.00 ? ? ? ? ? ? 39 VAL D O 10
+ATOM 18123 C CB . VAL D 1 39 ? -12.211 7.118 -11.226 1.00 0.00 ? ? ? ? ? ? 39 VAL D CB 10
+ATOM 18124 C CG1 . VAL D 1 39 ? -11.638 7.339 -12.627 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG1 10
+ATOM 18125 C CG2 . VAL D 1 39 ? -13.580 7.783 -11.081 1.00 0.00 ? ? ? ? ? ? 39 VAL D CG2 10
+ATOM 18126 H H . VAL D 1 39 ? -10.949 4.991 -12.358 1.00 0.00 ? ? ? ? ? ? 39 VAL D H 10
+ATOM 18127 H HA . VAL D 1 39 ? -12.317 5.522 -9.810 1.00 0.00 ? ? ? ? ? ? 39 VAL D HA 10
+ATOM 18128 H HB . VAL D 1 39 ? -11.534 7.585 -10.510 1.00 0.00 ? ? ? ? ? ? 39 VAL D HB 10
+ATOM 18129 H HG11 . VAL D 1 39 ? -11.649 8.404 -12.860 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG11 10
+ATOM 18130 H HG12 . VAL D 1 39 ? -10.613 6.971 -12.663 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG12 10
+ATOM 18131 H HG13 . VAL D 1 39 ? -12.244 6.802 -13.356 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG13 10
+ATOM 18132 H HG21 . VAL D 1 39 ? -14.041 7.883 -12.064 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG21 10
+ATOM 18133 H HG22 . VAL D 1 39 ? -14.217 7.171 -10.442 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG22 10
+ATOM 18134 H HG23 . VAL D 1 39 ? -13.460 8.771 -10.635 1.00 0.00 ? ? ? ? ? ? 39 VAL D HG23 10
+ATOM 18135 N N . VAL D 1 40 ? -14.482 4.665 -10.616 1.00 0.00 ? ? ? ? ? ? 40 VAL D N 10
+ATOM 18136 C CA . VAL D 1 40 ? -15.713 4.019 -11.038 1.00 0.00 ? ? ? ? ? ? 40 VAL D CA 10
+ATOM 18137 C C . VAL D 1 40 ? -16.905 4.745 -10.411 1.00 0.00 ? ? ? ? ? ? 40 VAL D C 10
+ATOM 18138 O O . VAL D 1 40 ? -16.885 5.072 -9.226 1.00 0.00 ? ? ? ? ? ? 40 VAL D O 10
+ATOM 18139 C CB . VAL D 1 40 ? -15.669 2.530 -10.688 1.00 0.00 ? ? ? ? ? ? 40 VAL D CB 10
+ATOM 18140 C CG1 . VAL D 1 40 ? -17.019 1.863 -10.960 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG1 10
+ATOM 18141 C CG2 . VAL D 1 40 ? -14.545 1.822 -11.447 1.00 0.00 ? ? ? ? ? ? 40 VAL D CG2 10
+ATOM 18142 H H . VAL D 1 40 ? -14.426 4.872 -9.639 1.00 0.00 ? ? ? ? ? ? 40 VAL D H 10
+ATOM 18143 H HA . VAL D 1 40 ? -15.777 4.110 -12.122 1.00 0.00 ? ? ? ? ? ? 40 VAL D HA 10
+ATOM 18144 H HB . VAL D 1 40 ? -15.460 2.442 -9.622 1.00 0.00 ? ? ? ? ? ? 40 VAL D HB 10
+ATOM 18145 H HG11 . VAL D 1 40 ? -17.311 1.269 -10.094 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG11 10
+ATOM 18146 H HG12 . VAL D 1 40 ? -17.772 2.629 -11.146 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG12 10
+ATOM 18147 H HG13 . VAL D 1 40 ? -16.935 1.216 -11.833 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG13 10
+ATOM 18148 H HG21 . VAL D 1 40 ? -13.657 1.770 -10.817 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG21 10
+ATOM 18149 H HG22 . VAL D 1 40 ? -14.863 0.814 -11.711 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG22 10
+ATOM 18150 H HG23 . VAL D 1 40 ? -14.313 2.379 -12.356 1.00 0.00 ? ? ? ? ? ? 40 VAL D HG23 10
+ATOM 18151 N N . ILE D 1 41 ? -17.916 4.976 -11.236 1.00 0.00 ? ? ? ? ? ? 41 ILE D N 10
+ATOM 18152 C CA . ILE D 1 41 ? -19.115 5.657 -10.778 1.00 0.00 ? ? ? ? ? ? 41 ILE D CA 10
+ATOM 18153 C C . ILE D 1 41 ? -20.346 4.844 -11.185 1.00 0.00 ? ? ? ? ? ? 41 ILE D C 10
+ATOM 18154 O O . ILE D 1 41 ? -20.557 4.580 -12.368 1.00 0.00 ? ? ? ? ? ? 41 ILE D O 10
+ATOM 18155 C CB . ILE D 1 41 ? -19.138 7.101 -11.283 1.00 0.00 ? ? ? ? ? ? 41 ILE D CB 10
+ATOM 18156 C CG1 . ILE D 1 41 ? -18.015 7.922 -10.646 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG1 10
+ATOM 18157 C CG2 . ILE D 1 41 ? -20.511 7.738 -11.062 1.00 0.00 ? ? ? ? ? ? 41 ILE D CG2 10
+ATOM 18158 C CD1 . ILE D 1 41 ? -17.338 8.822 -11.681 1.00 0.00 ? ? ? ? ? ? 41 ILE D CD1 10
+ATOM 18159 H H . ILE D 1 41 ? -17.925 4.706 -12.199 1.00 0.00 ? ? ? ? ? ? 41 ILE D H 10
+ATOM 18160 H HA . ILE D 1 41 ? -19.072 5.697 -9.689 1.00 0.00 ? ? ? ? ? ? 41 ILE D HA 10
+ATOM 18161 H HB . ILE D 1 41 ? -18.957 7.089 -12.358 1.00 0.00 ? ? ? ? ? ? 41 ILE D HB 10
+ATOM 18162 H HG12 . ILE D 1 41 ? -18.420 8.532 -9.838 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG12 10
+ATOM 18163 H HG13 . ILE D 1 41 ? -17.278 7.254 -10.201 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG13 10
+ATOM 18164 H HG21 . ILE D 1 41 ? -20.403 8.820 -10.996 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG21 10
+ATOM 18165 H HG22 . ILE D 1 41 ? -21.166 7.489 -11.897 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG22 10
+ATOM 18166 H HG23 . ILE D 1 41 ? -20.943 7.359 -10.136 1.00 0.00 ? ? ? ? ? ? 41 ILE D HG23 10
+ATOM 18167 H HD11 . ILE D 1 41 ? -17.892 8.778 -12.619 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD11 10
+ATOM 18168 H HD12 . ILE D 1 41 ? -17.323 9.849 -11.316 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD12 10
+ATOM 18169 H HD13 . ILE D 1 41 ? -16.316 8.480 -11.847 1.00 0.00 ? ? ? ? ? ? 41 ILE D HD13 10
+ATOM 18170 N N . ALA D 1 42 ? -21.126 4.468 -10.182 1.00 0.00 ? ? ? ? ? ? 42 ALA D N 10
+ATOM 18171 C CA . ALA D 1 42 ? -22.330 3.691 -10.421 1.00 0.00 ? ? ? ? ? ? 42 ALA D CA 10
+ATOM 18172 C C . ALA D 1 42 ? -23.461 4.228 -9.542 1.00 0.00 ? ? ? ? ? ? 42 ALA D C 10
+ATOM 18173 O O . ALA D 1 42 ? -23.634 3.787 -8.407 1.00 0.00 ? ? ? ? ? ? 42 ALA D O 10
+ATOM 18174 C CB . ALA D 1 42 ? -22.042 2.211 -10.160 1.00 0.00 ? ? ? ? ? ? 42 ALA D CB 10
+ATOM 18175 H H . ALA D 1 42 ? -20.947 4.687 -9.222 1.00 0.00 ? ? ? ? ? ? 42 ALA D H 10
+ATOM 18176 H HA . ALA D 1 42 ? -22.603 3.816 -11.468 1.00 0.00 ? ? ? ? ? ? 42 ALA D HA 10
+ATOM 18177 H HB1 . ALA D 1 42 ? -22.252 1.635 -11.061 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB1 10
+ATOM 18178 H HB2 . ALA D 1 42 ? -20.994 2.087 -9.887 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB2 10
+ATOM 18179 H HB3 . ALA D 1 42 ? -22.674 1.855 -9.346 1.00 0.00 ? ? ? ? ? ? 42 ALA D HB3 10
+ATOM 18180 N N . LEU E 1 17 ? -14.977 -3.459 -21.440 1.00 0.00 ? ? ? ? ? ? 17 LEU E N 10
+ATOM 18181 C CA . LEU E 1 17 ? -15.326 -4.402 -20.391 1.00 0.00 ? ? ? ? ? ? 17 LEU E CA 10
+ATOM 18182 C C . LEU E 1 17 ? -14.110 -5.274 -20.071 1.00 0.00 ? ? ? ? ? ? 17 LEU E C 10
+ATOM 18183 O O . LEU E 1 17 ? -14.042 -5.882 -19.004 1.00 0.00 ? ? ? ? ? ? 17 LEU E O 10
+ATOM 18184 C CB . LEU E 1 17 ? -16.570 -5.201 -20.782 1.00 0.00 ? ? ? ? ? ? 17 LEU E CB 10
+ATOM 18185 C CG . LEU E 1 17 ? -17.914 -4.509 -20.543 1.00 0.00 ? ? ? ? ? ? 17 LEU E CG 10
+ATOM 18186 C CD1 . LEU E 1 17 ? -17.907 -3.088 -21.107 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD1 10
+ATOM 18187 C CD2 . LEU E 1 17 ? -19.068 -5.343 -21.104 1.00 0.00 ? ? ? ? ? ? 17 LEU E CD2 10
+ATOM 18188 H H . LEU E 1 17 ? -14.875 -3.858 -22.351 1.00 0.00 ? ? ? ? ? ? 17 LEU E H 10
+ATOM 18189 H HA . LEU E 1 17 ? -15.580 -3.824 -19.503 1.00 0.00 ? ? ? ? ? ? 17 LEU E HA 10
+ATOM 18190 H HB2 . LEU E 1 17 ? -16.498 -5.455 -21.840 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB2 10
+ATOM 18191 H HB3 . LEU E 1 17 ? -16.564 -6.140 -20.228 1.00 0.00 ? ? ? ? ? ? 17 LEU E HB3 10
+ATOM 18192 H HG . LEU E 1 17 ? -18.069 -4.428 -19.467 1.00 0.00 ? ? ? ? ? ? 17 LEU E HG 10
+ATOM 18193 H HD11 . LEU E 1 17 ? -17.387 -2.425 -20.416 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD11 10
+ATOM 18194 H HD12 . LEU E 1 17 ? -17.396 -3.081 -22.070 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD12 10
+ATOM 18195 H HD13 . LEU E 1 17 ? -18.933 -2.743 -21.238 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD13 10
+ATOM 18196 H HD21 . LEU E 1 17 ? -18.983 -6.369 -20.744 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD21 10
+ATOM 18197 H HD22 . LEU E 1 17 ? -20.016 -4.920 -20.774 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD22 10
+ATOM 18198 H HD23 . LEU E 1 17 ? -19.025 -5.335 -22.193 1.00 0.00 ? ? ? ? ? ? 17 LEU E HD23 10
+ATOM 18199 N N . VAL E 1 18 ? -13.181 -5.309 -21.015 1.00 0.00 ? ? ? ? ? ? 18 VAL E N 10
+ATOM 18200 C CA . VAL E 1 18 ? -11.972 -6.097 -20.846 1.00 0.00 ? ? ? ? ? ? 18 VAL E CA 10
+ATOM 18201 C C . VAL E 1 18 ? -10.783 -5.328 -21.425 1.00 0.00 ? ? ? ? ? ? 18 VAL E C 10
+ATOM 18202 O O . VAL E 1 18 ? -10.885 -4.736 -22.499 1.00 0.00 ? ? ? ? ? ? 18 VAL E O 10
+ATOM 18203 C CB . VAL E 1 18 ? -12.155 -7.478 -21.478 1.00 0.00 ? ? ? ? ? ? 18 VAL E CB 10
+ATOM 18204 C CG1 . VAL E 1 18 ? -13.512 -8.078 -21.101 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG1 10
+ATOM 18205 C CG2 . VAL E 1 18 ? -11.988 -7.413 -22.997 1.00 0.00 ? ? ? ? ? ? 18 VAL E CG2 10
+ATOM 18206 H H . VAL E 1 18 ? -13.244 -4.812 -21.880 1.00 0.00 ? ? ? ? ? ? 18 VAL E H 10
+ATOM 18207 H HA . VAL E 1 18 ? -11.815 -6.233 -19.776 1.00 0.00 ? ? ? ? ? ? 18 VAL E HA 10
+ATOM 18208 H HB . VAL E 1 18 ? -11.378 -8.133 -21.083 1.00 0.00 ? ? ? ? ? ? 18 VAL E HB 10
+ATOM 18209 H HG11 . VAL E 1 18 ? -14.260 -7.772 -21.831 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG11 10
+ATOM 18210 H HG12 . VAL E 1 18 ? -13.438 -9.165 -21.090 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG12 10
+ATOM 18211 H HG13 . VAL E 1 18 ? -13.803 -7.723 -20.112 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG13 10
+ATOM 18212 H HG21 . VAL E 1 18 ? -12.732 -8.053 -23.472 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG21 10
+ATOM 18213 H HG22 . VAL E 1 18 ? -12.124 -6.385 -23.334 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG22 10
+ATOM 18214 H HG23 . VAL E 1 18 ? -10.989 -7.755 -23.268 1.00 0.00 ? ? ? ? ? ? 18 VAL E HG23 10
+ATOM 18215 N N . PHE E 1 19 ? -9.682 -5.362 -20.689 1.00 0.00 ? ? ? ? ? ? 19 PHE E N 10
+ATOM 18216 C CA . PHE E 1 19 ? -8.474 -4.675 -21.115 1.00 0.00 ? ? ? ? ? ? 19 PHE E CA 10
+ATOM 18217 C C . PHE E 1 19 ? -7.236 -5.277 -20.447 1.00 0.00 ? ? ? ? ? ? 19 PHE E C 10
+ATOM 18218 O O . PHE E 1 19 ? -7.114 -5.255 -19.224 1.00 0.00 ? ? ? ? ? ? 19 PHE E O 10
+ATOM 18219 C CB . PHE E 1 19 ? -8.613 -3.214 -20.683 1.00 0.00 ? ? ? ? ? ? 19 PHE E CB 10
+ATOM 18220 C CG . PHE E 1 19 ? -7.577 -2.279 -21.308 1.00 0.00 ? ? ? ? ? ? 19 PHE E CG 10
+ATOM 18221 C CD1 . PHE E 1 19 ? -6.346 -2.152 -20.743 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD1 10
+ATOM 18222 C CD2 . PHE E 1 19 ? -7.886 -1.574 -22.429 1.00 0.00 ? ? ? ? ? ? 19 PHE E CD2 10
+ATOM 18223 C CE1 . PHE E 1 19 ? -5.384 -1.284 -21.323 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE1 10
+ATOM 18224 C CE2 . PHE E 1 19 ? -6.923 -0.706 -23.010 1.00 0.00 ? ? ? ? ? ? 19 PHE E CE2 10
+ATOM 18225 C CZ . PHE E 1 19 ? -5.693 -0.579 -22.444 1.00 0.00 ? ? ? ? ? ? 19 PHE E CZ 10
+ATOM 18226 H H . PHE E 1 19 ? -9.607 -5.845 -19.817 1.00 0.00 ? ? ? ? ? ? 19 PHE E H 10
+ATOM 18227 H HA . PHE E 1 19 ? -8.397 -4.798 -22.196 1.00 0.00 ? ? ? ? ? ? 19 PHE E HA 10
+ATOM 18228 H HB2 . PHE E 1 19 ? -9.611 -2.862 -20.945 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB2 10
+ATOM 18229 H HB3 . PHE E 1 19 ? -8.531 -3.158 -19.597 1.00 0.00 ? ? ? ? ? ? 19 PHE E HB3 10
+ATOM 18230 H HD1 . PHE E 1 19 ? -6.099 -2.717 -19.844 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD1 10
+ATOM 18231 H HD2 . PHE E 1 19 ? -8.872 -1.675 -22.883 1.00 0.00 ? ? ? ? ? ? 19 PHE E HD2 10
+ATOM 18232 H HE1 . PHE E 1 19 ? -4.398 -1.183 -20.870 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE1 10
+ATOM 18233 H HE2 . PHE E 1 19 ? -7.171 -0.141 -23.908 1.00 0.00 ? ? ? ? ? ? 19 PHE E HE2 10
+ATOM 18234 H HZ . PHE E 1 19 ? -4.954 0.087 -22.890 1.00 0.00 ? ? ? ? ? ? 19 PHE E HZ 10
+ATOM 18235 N N . PHE E 1 20 ? -6.349 -5.800 -21.280 1.00 0.00 ? ? ? ? ? ? 20 PHE E N 10
+ATOM 18236 C CA . PHE E 1 20 ? -5.125 -6.407 -20.786 1.00 0.00 ? ? ? ? ? ? 20 PHE E CA 10
+ATOM 18237 C C . PHE E 1 20 ? -3.894 -5.673 -21.322 1.00 0.00 ? ? ? ? ? ? 20 PHE E C 10
+ATOM 18238 O O . PHE E 1 20 ? -3.762 -5.475 -22.528 1.00 0.00 ? ? ? ? ? ? 20 PHE E O 10
+ATOM 18239 C CB . PHE E 1 20 ? -5.104 -7.850 -21.293 1.00 0.00 ? ? ? ? ? ? 20 PHE E CB 10
+ATOM 18240 C CG . PHE E 1 20 ? -5.432 -8.892 -20.220 1.00 0.00 ? ? ? ? ? ? 20 PHE E CG 10
+ATOM 18241 C CD1 . PHE E 1 20 ? -6.710 -9.032 -19.777 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD1 10
+ATOM 18242 C CD2 . PHE E 1 20 ? -4.445 -9.677 -19.711 1.00 0.00 ? ? ? ? ? ? 20 PHE E CD2 10
+ATOM 18243 C CE1 . PHE E 1 20 ? -7.014 -9.998 -18.781 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE1 10
+ATOM 18244 C CE2 . PHE E 1 20 ? -4.749 -10.643 -18.716 1.00 0.00 ? ? ? ? ? ? 20 PHE E CE2 10
+ATOM 18245 C CZ . PHE E 1 20 ? -6.027 -10.783 -18.272 1.00 0.00 ? ? ? ? ? ? 20 PHE E CZ 10
+ATOM 18246 H H . PHE E 1 20 ? -6.456 -5.814 -22.275 1.00 0.00 ? ? ? ? ? ? 20 PHE E H 10
+ATOM 18247 H HA . PHE E 1 20 ? -5.144 -6.334 -19.698 1.00 0.00 ? ? ? ? ? ? 20 PHE E HA 10
+ATOM 18248 H HB2 . PHE E 1 20 ? -5.819 -7.948 -22.110 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB2 10
+ATOM 18249 H HB3 . PHE E 1 20 ? -4.118 -8.066 -21.705 1.00 0.00 ? ? ? ? ? ? 20 PHE E HB3 10
+ATOM 18250 H HD1 . PHE E 1 20 ? -7.501 -8.402 -20.185 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD1 10
+ATOM 18251 H HD2 . PHE E 1 20 ? -3.421 -9.565 -20.067 1.00 0.00 ? ? ? ? ? ? 20 PHE E HD2 10
+ATOM 18252 H HE1 . PHE E 1 20 ? -8.038 -10.110 -18.426 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE1 10
+ATOM 18253 H HE2 . PHE E 1 20 ? -3.959 -11.272 -18.308 1.00 0.00 ? ? ? ? ? ? 20 PHE E HE2 10
+ATOM 18254 H HZ . PHE E 1 20 ? -6.261 -11.525 -17.508 1.00 0.00 ? ? ? ? ? ? 20 PHE E HZ 10
+ATOM 18255 N N . ALA E 1 21 ? -3.024 -5.290 -20.398 1.00 0.00 ? ? ? ? ? ? 21 ALA E N 10
+ATOM 18256 C CA . ALA E 1 21 ? -1.809 -4.583 -20.763 1.00 0.00 ? ? ? ? ? ? 21 ALA E CA 10
+ATOM 18257 C C . ALA E 1 21 ? -0.605 -5.292 -20.139 1.00 0.00 ? ? ? ? ? ? 21 ALA E C 10
+ATOM 18258 O O . ALA E 1 21 ? -0.428 -5.270 -18.922 1.00 0.00 ? ? ? ? ? ? 21 ALA E O 10
+ATOM 18259 C CB . ALA E 1 21 ? -1.917 -3.122 -20.322 1.00 0.00 ? ? ? ? ? ? 21 ALA E CB 10
+ATOM 18260 H H . ALA E 1 21 ? -3.140 -5.456 -19.419 1.00 0.00 ? ? ? ? ? ? 21 ALA E H 10
+ATOM 18261 H HA . ALA E 1 21 ? -1.718 -4.617 -21.848 1.00 0.00 ? ? ? ? ? ? 21 ALA E HA 10
+ATOM 18262 H HB1 . ALA E 1 21 ? -0.966 -2.799 -19.898 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB1 10
+ATOM 18263 H HB2 . ALA E 1 21 ? -2.160 -2.500 -21.184 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB2 10
+ATOM 18264 H HB3 . ALA E 1 21 ? -2.701 -3.025 -19.572 1.00 0.00 ? ? ? ? ? ? 21 ALA E HB3 10
+ATOM 18265 N N . GLU E 1 22 ? 0.193 -5.905 -21.002 1.00 0.00 ? ? ? ? ? ? 22 GLU E N 10
+ATOM 18266 C CA . GLU E 1 22 ? 1.375 -6.619 -20.551 1.00 0.00 ? ? ? ? ? ? 22 GLU E CA 10
+ATOM 18267 C C . GLU E 1 22 ? 2.638 -5.965 -21.116 1.00 0.00 ? ? ? ? ? ? 22 GLU E C 10
+ATOM 18268 O O . GLU E 1 22 ? 2.987 -6.180 -22.276 1.00 0.00 ? ? ? ? ? ? 22 GLU E O 10
+ATOM 18269 C CB . GLU E 1 22 ? 1.303 -8.097 -20.938 1.00 0.00 ? ? ? ? ? ? 22 GLU E CB 10
+ATOM 18270 C CG . GLU E 1 22 ? 0.417 -8.877 -19.964 1.00 0.00 ? ? ? ? ? ? 22 GLU E CG 10
+ATOM 18271 C CD . GLU E 1 22 ? 1.244 -9.869 -19.145 1.00 0.00 ? ? ? ? ? ? 22 GLU E CD 10
+ATOM 18272 O OE1 . GLU E 1 22 ? 2.349 -9.470 -18.717 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE1 10
+ATOM 18273 O OE2 . GLU E 1 22 ? 0.753 -11.005 -18.965 1.00 0.00 ? ? ? ? ? ? 22 GLU E OE2 10
+ATOM 18274 H H . GLU E 1 22 ? 0.042 -5.918 -21.990 1.00 0.00 ? ? ? ? ? ? 22 GLU E H 10
+ATOM 18275 H HA . GLU E 1 22 ? 1.368 -6.533 -19.465 1.00 0.00 ? ? ? ? ? ? 22 GLU E HA 10
+ATOM 18276 H HB2 . GLU E 1 22 ? 0.909 -8.193 -21.950 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB2 10
+ATOM 18277 H HB3 . GLU E 1 22 ? 2.306 -8.525 -20.945 1.00 0.00 ? ? ? ? ? ? 22 GLU E HB3 10
+ATOM 18278 H HG2 . GLU E 1 22 ? -0.092 -8.183 -19.295 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG2 10
+ATOM 18279 H HG3 . GLU E 1 22 ? -0.355 -9.411 -20.518 1.00 0.00 ? ? ? ? ? ? 22 GLU E HG3 10
+ATOM 18280 N N . ASP E 1 23 ? 3.288 -5.180 -20.270 1.00 0.00 ? ? ? ? ? ? 23 ASP E N 10
+ATOM 18281 C CA . ASP E 1 23 ? 4.505 -4.494 -20.670 1.00 0.00 ? ? ? ? ? ? 23 ASP E CA 10
+ATOM 18282 C C . ASP E 1 23 ? 5.718 -5.297 -20.196 1.00 0.00 ? ? ? ? ? ? 23 ASP E C 10
+ATOM 18283 O O . ASP E 1 23 ? 5.826 -5.627 -19.016 1.00 0.00 ? ? ? ? ? ? 23 ASP E O 10
+ATOM 18284 C CB . ASP E 1 23 ? 4.584 -3.102 -20.040 1.00 0.00 ? ? ? ? ? ? 23 ASP E CB 10
+ATOM 18285 C CG . ASP E 1 23 ? 5.482 -2.108 -20.780 1.00 0.00 ? ? ? ? ? ? 23 ASP E CG 10
+ATOM 18286 O OD1 . ASP E 1 23 ? 5.168 -1.825 -21.956 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD1 10
+ATOM 18287 O OD2 . ASP E 1 23 ? 6.463 -1.653 -20.152 1.00 0.00 ? ? ? ? ? ? 23 ASP E OD2 10
+ATOM 18288 H H . ASP E 1 23 ? 2.998 -5.011 -19.328 1.00 0.00 ? ? ? ? ? ? 23 ASP E H 10
+ATOM 18289 H HA . ASP E 1 23 ? 4.450 -4.423 -21.756 1.00 0.00 ? ? ? ? ? ? 23 ASP E HA 10
+ATOM 18290 H HB2 . ASP E 1 23 ? 3.578 -2.687 -19.984 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB2 10
+ATOM 18291 H HB3 . ASP E 1 23 ? 4.945 -3.202 -19.017 1.00 0.00 ? ? ? ? ? ? 23 ASP E HB3 10
+ATOM 18292 N N . VAL E 1 24 ? 6.601 -5.588 -21.140 1.00 0.00 ? ? ? ? ? ? 24 VAL E N 10
+ATOM 18293 C CA . VAL E 1 24 ? 7.802 -6.346 -20.834 1.00 0.00 ? ? ? ? ? ? 24 VAL E CA 10
+ATOM 18294 C C . VAL E 1 24 ? 9.027 -5.573 -21.327 1.00 0.00 ? ? ? ? ? ? 24 VAL E C 10
+ATOM 18295 O O . VAL E 1 24 ? 9.363 -5.624 -22.510 1.00 0.00 ? ? ? ? ? ? 24 VAL E O 10
+ATOM 18296 C CB . VAL E 1 24 ? 7.701 -7.751 -21.432 1.00 0.00 ? ? ? ? ? ? 24 VAL E CB 10
+ATOM 18297 C CG1 . VAL E 1 24 ? 9.070 -8.433 -21.465 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG1 10
+ATOM 18298 C CG2 . VAL E 1 24 ? 6.683 -8.600 -20.667 1.00 0.00 ? ? ? ? ? ? 24 VAL E CG2 10
+ATOM 18299 H H . VAL E 1 24 ? 6.505 -5.316 -22.098 1.00 0.00 ? ? ? ? ? ? 24 VAL E H 10
+ATOM 18300 H HA . VAL E 1 24 ? 7.862 -6.444 -19.750 1.00 0.00 ? ? ? ? ? ? 24 VAL E HA 10
+ATOM 18301 H HB . VAL E 1 24 ? 7.350 -7.653 -22.460 1.00 0.00 ? ? ? ? ? ? 24 VAL E HB 10
+ATOM 18302 H HG11 . VAL E 1 24 ? 9.499 -8.337 -22.462 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG11 10
+ATOM 18303 H HG12 . VAL E 1 24 ? 9.729 -7.958 -20.738 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG12 10
+ATOM 18304 H HG13 . VAL E 1 24 ? 8.956 -9.488 -21.217 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG13 10
+ATOM 18305 H HG21 . VAL E 1 24 ? 6.400 -8.088 -19.748 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG21 10
+ATOM 18306 H HG22 . VAL E 1 24 ? 5.798 -8.751 -21.286 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG22 10
+ATOM 18307 H HG23 . VAL E 1 24 ? 7.126 -9.566 -20.424 1.00 0.00 ? ? ? ? ? ? 24 VAL E HG23 10
+ATOM 18308 N N . GLY E 1 25 ? 9.661 -4.876 -20.396 1.00 0.00 ? ? ? ? ? ? 25 GLY E N 10
+ATOM 18309 C CA . GLY E 1 25 ? 10.841 -4.093 -20.722 1.00 0.00 ? ? ? ? ? ? 25 GLY E CA 10
+ATOM 18310 C C . GLY E 1 25 ? 12.071 -4.621 -19.979 1.00 0.00 ? ? ? ? ? ? 25 GLY E C 10
+ATOM 18311 O O . GLY E 1 25 ? 12.013 -4.873 -18.776 1.00 0.00 ? ? ? ? ? ? 25 GLY E O 10
+ATOM 18312 H H . GLY E 1 25 ? 9.381 -4.840 -19.437 1.00 0.00 ? ? ? ? ? ? 25 GLY E H 10
+ATOM 18313 H HA2 . GLY E 1 25 ? 11.019 -4.127 -21.796 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA2 10
+ATOM 18314 H HA3 . GLY E 1 25 ? 10.674 -3.049 -20.458 1.00 0.00 ? ? ? ? ? ? 25 GLY E HA3 10
+ATOM 18315 N N . SER E 1 26 ? 13.154 -4.773 -20.726 1.00 0.00 ? ? ? ? ? ? 26 SER E N 10
+ATOM 18316 C CA . SER E 1 26 ? 14.395 -5.266 -20.154 1.00 0.00 ? ? ? ? ? ? 26 SER E CA 10
+ATOM 18317 C C . SER E 1 26 ? 15.387 -4.114 -19.984 1.00 0.00 ? ? ? ? ? ? 26 SER E C 10
+ATOM 18318 O O . SER E 1 26 ? 15.849 -3.538 -20.968 1.00 0.00 ? ? ? ? ? ? 26 SER E O 10
+ATOM 18319 C CB . SER E 1 26 ? 15.004 -6.367 -21.025 1.00 0.00 ? ? ? ? ? ? 26 SER E CB 10
+ATOM 18320 O OG . SER E 1 26 ? 15.823 -7.254 -20.268 1.00 0.00 ? ? ? ? ? ? 26 SER E OG 10
+ATOM 18321 H H . SER E 1 26 ? 13.192 -4.566 -21.704 1.00 0.00 ? ? ? ? ? ? 26 SER E H 10
+ATOM 18322 H HA . SER E 1 26 ? 14.121 -5.681 -19.184 1.00 0.00 ? ? ? ? ? ? 26 SER E HA 10
+ATOM 18323 H HB2 . SER E 1 26 ? 14.205 -6.933 -21.505 1.00 0.00 ? ? ? ? ? ? 26 SER E HB2 10
+ATOM 18324 H HB3 . SER E 1 26 ? 15.597 -5.915 -21.819 1.00 0.00 ? ? ? ? ? ? 26 SER E HB3 10
+ATOM 18325 H HG . SER E 1 26 ? 16.511 -6.735 -19.760 1.00 0.00 ? ? ? ? ? ? 26 SER E HG 10
+ATOM 18326 N N . ASN E 1 27 ? 15.686 -3.813 -18.729 1.00 0.00 ? ? ? ? ? ? 27 ASN E N 10
+ATOM 18327 C CA . ASN E 1 27 ? 16.615 -2.740 -18.417 1.00 0.00 ? ? ? ? ? ? 27 ASN E CA 10
+ATOM 18328 C C . ASN E 1 27 ? 16.014 -1.406 -18.863 1.00 0.00 ? ? ? ? ? ? 27 ASN E C 10
+ATOM 18329 O O . ASN E 1 27 ? 16.398 -0.862 -19.897 1.00 0.00 ? ? ? ? ? ? 27 ASN E O 10
+ATOM 18330 C CB . ASN E 1 27 ? 17.942 -2.930 -19.154 1.00 0.00 ? ? ? ? ? ? 27 ASN E CB 10
+ATOM 18331 C CG . ASN E 1 27 ? 19.024 -3.457 -18.209 1.00 0.00 ? ? ? ? ? ? 27 ASN E CG 10
+ATOM 18332 O OD1 . ASN E 1 27 ? 18.835 -4.420 -17.483 1.00 0.00 ? ? ? ? ? ? 27 ASN E OD1 10
+ATOM 18333 N ND2 . ASN E 1 27 ? 20.164 -2.774 -18.257 1.00 0.00 ? ? ? ? ? ? 27 ASN E ND2 10
+ATOM 18334 H H . ASN E 1 27 ? 15.306 -4.287 -17.934 1.00 0.00 ? ? ? ? ? ? 27 ASN E H 10
+ATOM 18335 H HA . ASN E 1 27 ? 16.762 -2.792 -17.339 1.00 0.00 ? ? ? ? ? ? 27 ASN E HA 10
+ATOM 18336 H HB2 . ASN E 1 27 ? 17.807 -3.626 -19.982 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB2 10
+ATOM 18337 H HB3 . ASN E 1 27 ? 18.262 -1.981 -19.585 1.00 0.00 ? ? ? ? ? ? 27 ASN E HB3 10
+ATOM 18338 H HD21 . ASN E 1 27 ? 20.254 -1.993 -18.875 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD21 10
+ATOM 18339 H HD22 . ASN E 1 27 ? 20.932 -3.042 -17.676 1.00 0.00 ? ? ? ? ? ? 27 ASN E HD22 10
+ATOM 18340 N N . LYS E 1 28 ? 15.080 -0.916 -18.060 1.00 0.00 ? ? ? ? ? ? 28 LYS E N 10
+ATOM 18341 C CA . LYS E 1 28 ? 14.422 0.344 -18.358 1.00 0.00 ? ? ? ? ? ? 28 LYS E CA 10
+ATOM 18342 C C . LYS E 1 28 ? 14.685 1.333 -17.221 1.00 0.00 ? ? ? ? ? ? 28 LYS E C 10
+ATOM 18343 O O . LYS E 1 28 ? 14.008 1.298 -16.194 1.00 0.00 ? ? ? ? ? ? 28 LYS E O 10
+ATOM 18344 C CB . LYS E 1 28 ? 12.937 0.118 -18.646 1.00 0.00 ? ? ? ? ? ? 28 LYS E CB 10
+ATOM 18345 C CG . LYS E 1 28 ? 12.249 -0.573 -17.467 1.00 0.00 ? ? ? ? ? ? 28 LYS E CG 10
+ATOM 18346 C CD . LYS E 1 28 ? 10.830 -1.008 -17.838 1.00 0.00 ? ? ? ? ? ? 28 LYS E CD 10
+ATOM 18347 C CE . LYS E 1 28 ? 9.892 -0.907 -16.634 1.00 0.00 ? ? ? ? ? ? 28 LYS E CE 10
+ATOM 18348 N NZ . LYS E 1 28 ? 8.534 -1.371 -16.994 1.00 0.00 ? ? ? ? ? ? 28 LYS E NZ 10
+ATOM 18349 H H . LYS E 1 28 ? 14.773 -1.365 -17.220 1.00 0.00 ? ? ? ? ? ? 28 LYS E H 10
+ATOM 18350 H HA . LYS E 1 28 ? 14.871 0.739 -19.270 1.00 0.00 ? ? ? ? ? ? 28 LYS E HA 10
+ATOM 18351 H HB2 . LYS E 1 28 ? 12.451 1.074 -18.845 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB2 10
+ATOM 18352 H HB3 . LYS E 1 28 ? 12.825 -0.489 -19.544 1.00 0.00 ? ? ? ? ? ? 28 LYS E HB3 10
+ATOM 18353 H HG2 . LYS E 1 28 ? 12.831 -1.443 -17.161 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG2 10
+ATOM 18354 H HG3 . LYS E 1 28 ? 12.214 0.104 -16.614 1.00 0.00 ? ? ? ? ? ? 28 LYS E HG3 10
+ATOM 18355 H HD2 . LYS E 1 28 ? 10.455 -0.384 -18.649 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD2 10
+ATOM 18356 H HD3 . LYS E 1 28 ? 10.845 -2.034 -18.207 1.00 0.00 ? ? ? ? ? ? 28 LYS E HD3 10
+ATOM 18357 H HE2 . LYS E 1 28 ? 10.282 -1.507 -15.811 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE2 10
+ATOM 18358 H HE3 . LYS E 1 28 ? 9.850 0.124 -16.284 1.00 0.00 ? ? ? ? ? ? 28 LYS E HE3 10
+ATOM 18359 H HZ1 . LYS E 1 28 ? 7.854 -0.806 -16.526 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ1 10
+ATOM 18360 H HZ2 . LYS E 1 28 ? 8.407 -1.296 -17.983 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ2 10
+ATOM 18361 H HZ3 . LYS E 1 28 ? 8.423 -2.325 -16.715 1.00 0.00 ? ? ? ? ? ? 28 LYS E HZ3 10
+ATOM 18362 N N . GLY E 1 29 ? 15.669 2.192 -17.441 1.00 0.00 ? ? ? ? ? ? 29 GLY E N 10
+ATOM 18363 C CA . GLY E 1 29 ? 16.029 3.189 -16.448 1.00 0.00 ? ? ? ? ? ? 29 GLY E CA 10
+ATOM 18364 C C . GLY E 1 29 ? 15.713 4.600 -16.947 1.00 0.00 ? ? ? ? ? ? 29 GLY E C 10
+ATOM 18365 O O . GLY E 1 29 ? 14.636 4.844 -17.488 1.00 0.00 ? ? ? ? ? ? 29 GLY E O 10
+ATOM 18366 H H . GLY E 1 29 ? 16.215 2.214 -18.279 1.00 0.00 ? ? ? ? ? ? 29 GLY E H 10
+ATOM 18367 H HA2 . GLY E 1 29 ? 15.487 2.997 -15.522 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA2 10
+ATOM 18368 H HA3 . GLY E 1 29 ? 17.092 3.111 -16.217 1.00 0.00 ? ? ? ? ? ? 29 GLY E HA3 10
+ATOM 18369 N N . ALA E 1 30 ? 16.672 5.493 -16.748 1.00 0.00 ? ? ? ? ? ? 30 ALA E N 10
+ATOM 18370 C CA . ALA E 1 30 ? 16.509 6.873 -17.171 1.00 0.00 ? ? ? ? ? ? 30 ALA E CA 10
+ATOM 18371 C C . ALA E 1 30 ? 15.177 7.410 -16.644 1.00 0.00 ? ? ? ? ? ? 30 ALA E C 10
+ATOM 18372 O O . ALA E 1 30 ? 14.745 7.045 -15.552 1.00 0.00 ? ? ? ? ? ? 30 ALA E O 10
+ATOM 18373 C CB . ALA E 1 30 ? 16.609 6.955 -18.696 1.00 0.00 ? ? ? ? ? ? 30 ALA E CB 10
+ATOM 18374 H H . ALA E 1 30 ? 17.545 5.286 -16.307 1.00 0.00 ? ? ? ? ? ? 30 ALA E H 10
+ATOM 18375 H HA . ALA E 1 30 ? 17.323 7.452 -16.735 1.00 0.00 ? ? ? ? ? ? 30 ALA E HA 10
+ATOM 18376 H HB1 . ALA E 1 30 ? 15.624 6.792 -19.133 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB1 10
+ATOM 18377 H HB2 . ALA E 1 30 ? 16.975 7.940 -18.984 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB2 10
+ATOM 18378 H HB3 . ALA E 1 30 ? 17.298 6.191 -19.056 1.00 0.00 ? ? ? ? ? ? 30 ALA E HB3 10
+ATOM 18379 N N . ILE E 1 31 ? 14.564 8.269 -17.445 1.00 0.00 ? ? ? ? ? ? 31 ILE E N 10
+ATOM 18380 C CA . ILE E 1 31 ? 13.289 8.860 -17.073 1.00 0.00 ? ? ? ? ? ? 31 ILE E CA 10
+ATOM 18381 C C . ILE E 1 31 ? 12.164 8.153 -17.831 1.00 0.00 ? ? ? ? ? ? 31 ILE E C 10
+ATOM 18382 O O . ILE E 1 31 ? 11.899 8.467 -18.990 1.00 0.00 ? ? ? ? ? ? 31 ILE E O 10
+ATOM 18383 C CB . ILE E 1 31 ? 13.318 10.375 -17.287 1.00 0.00 ? ? ? ? ? ? 31 ILE E CB 10
+ATOM 18384 C CG1 . ILE E 1 31 ? 14.450 11.020 -16.485 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG1 10
+ATOM 18385 C CG2 . ILE E 1 31 ? 11.959 11.000 -16.965 1.00 0.00 ? ? ? ? ? ? 31 ILE E CG2 10
+ATOM 18386 C CD1 . ILE E 1 31 ? 15.361 11.850 -17.392 1.00 0.00 ? ? ? ? ? ? 31 ILE E CD1 10
+ATOM 18387 H H . ILE E 1 31 ? 14.922 8.561 -18.332 1.00 0.00 ? ? ? ? ? ? 31 ILE E H 10
+ATOM 18388 H HA . ILE E 1 31 ? 13.149 8.688 -16.006 1.00 0.00 ? ? ? ? ? ? 31 ILE E HA 10
+ATOM 18389 H HB . ILE E 1 31 ? 13.520 10.567 -18.340 1.00 0.00 ? ? ? ? ? ? 31 ILE E HB 10
+ATOM 18390 H HG12 . ILE E 1 31 ? 14.031 11.656 -15.705 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG12 10
+ATOM 18391 H HG13 . ILE E 1 31 ? 15.034 10.247 -15.986 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG13 10
+ATOM 18392 H HG21 . ILE E 1 31 ? 11.495 10.457 -16.142 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG21 10
+ATOM 18393 H HG22 . ILE E 1 31 ? 12.098 12.043 -16.681 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG22 10
+ATOM 18394 H HG23 . ILE E 1 31 ? 11.317 10.945 -17.844 1.00 0.00 ? ? ? ? ? ? 31 ILE E HG23 10
+ATOM 18395 H HD11 . ILE E 1 31 ? 16.401 11.684 -17.112 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD11 10
+ATOM 18396 H HD12 . ILE E 1 31 ? 15.211 11.550 -18.429 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD12 10
+ATOM 18397 H HD13 . ILE E 1 31 ? 15.119 12.907 -17.280 1.00 0.00 ? ? ? ? ? ? 31 ILE E HD13 10
+ATOM 18398 N N . ILE E 1 32 ? 11.531 7.213 -17.145 1.00 0.00 ? ? ? ? ? ? 32 ILE E N 10
+ATOM 18399 C CA . ILE E 1 32 ? 10.440 6.459 -17.739 1.00 0.00 ? ? ? ? ? ? 32 ILE E CA 10
+ATOM 18400 C C . ILE E 1 32 ? 9.183 6.632 -16.885 1.00 0.00 ? ? ? ? ? ? 32 ILE E C 10
+ATOM 18401 O O . ILE E 1 32 ? 9.227 6.464 -15.667 1.00 0.00 ? ? ? ? ? ? 32 ILE E O 10
+ATOM 18402 C CB . ILE E 1 32 ? 10.848 4.999 -17.944 1.00 0.00 ? ? ? ? ? ? 32 ILE E CB 10
+ATOM 18403 C CG1 . ILE E 1 32 ? 9.677 4.173 -18.481 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG1 10
+ATOM 18404 C CG2 . ILE E 1 32 ? 11.426 4.404 -16.659 1.00 0.00 ? ? ? ? ? ? 32 ILE E CG2 10
+ATOM 18405 C CD1 . ILE E 1 32 ? 8.681 3.845 -17.367 1.00 0.00 ? ? ? ? ? ? 32 ILE E CD1 10
+ATOM 18406 H H . ILE E 1 32 ? 11.753 6.963 -16.202 1.00 0.00 ? ? ? ? ? ? 32 ILE E H 10
+ATOM 18407 H HA . ILE E 1 32 ? 10.250 6.882 -18.725 1.00 0.00 ? ? ? ? ? ? 32 ILE E HA 10
+ATOM 18408 H HB . ILE E 1 32 ? 11.636 4.967 -18.697 1.00 0.00 ? ? ? ? ? ? 32 ILE E HB 10
+ATOM 18409 H HG12 . ILE E 1 32 ? 9.172 4.725 -19.274 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG12 10
+ATOM 18410 H HG13 . ILE E 1 32 ? 10.050 3.250 -18.924 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG13 10
+ATOM 18411 H HG21 . ILE E 1 32 ? 11.085 4.987 -15.803 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG21 10
+ATOM 18412 H HG22 . ILE E 1 32 ? 11.090 3.373 -16.552 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG22 10
+ATOM 18413 H HG23 . ILE E 1 32 ? 12.515 4.429 -16.705 1.00 0.00 ? ? ? ? ? ? 32 ILE E HG23 10
+ATOM 18414 H HD11 . ILE E 1 32 ? 7.703 4.256 -17.621 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD11 10
+ATOM 18415 H HD12 . ILE E 1 32 ? 8.603 2.763 -17.257 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD12 10
+ATOM 18416 H HD13 . ILE E 1 32 ? 9.027 4.282 -16.430 1.00 0.00 ? ? ? ? ? ? 32 ILE E HD13 10
+ATOM 18417 N N . GLY E 1 33 ? 8.091 6.966 -17.557 1.00 0.00 ? ? ? ? ? ? 33 GLY E N 10
+ATOM 18418 C CA . GLY E 1 33 ? 6.823 7.163 -16.876 1.00 0.00 ? ? ? ? ? ? 33 GLY E CA 10
+ATOM 18419 C C . GLY E 1 33 ? 5.688 6.445 -17.609 1.00 0.00 ? ? ? ? ? ? 33 GLY E C 10
+ATOM 18420 O O . GLY E 1 33 ? 5.504 6.632 -18.811 1.00 0.00 ? ? ? ? ? ? 33 GLY E O 10
+ATOM 18421 H H . GLY E 1 33 ? 8.064 7.100 -18.548 1.00 0.00 ? ? ? ? ? ? 33 GLY E H 10
+ATOM 18422 H HA2 . GLY E 1 33 ? 6.894 6.791 -15.854 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA2 10
+ATOM 18423 H HA3 . GLY E 1 33 ? 6.602 8.229 -16.812 1.00 0.00 ? ? ? ? ? ? 33 GLY E HA3 10
+ATOM 18424 N N . LEU E 1 34 ? 4.957 5.637 -16.854 1.00 0.00 ? ? ? ? ? ? 34 LEU E N 10
+ATOM 18425 C CA . LEU E 1 34 ? 3.846 4.890 -17.417 1.00 0.00 ? ? ? ? ? ? 34 LEU E CA 10
+ATOM 18426 C C . LEU E 1 34 ? 2.566 5.233 -16.652 1.00 0.00 ? ? ? ? ? ? 34 LEU E C 10
+ATOM 18427 O O . LEU E 1 34 ? 2.514 5.095 -15.430 1.00 0.00 ? ? ? ? ? ? 34 LEU E O 10
+ATOM 18428 C CB . LEU E 1 34 ? 4.165 3.394 -17.443 1.00 0.00 ? ? ? ? ? ? 34 LEU E CB 10
+ATOM 18429 C CG . LEU E 1 34 ? 4.115 2.674 -16.094 1.00 0.00 ? ? ? ? ? ? 34 LEU E CG 10
+ATOM 18430 C CD1 . LEU E 1 34 ? 2.963 1.668 -16.050 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD1 10
+ATOM 18431 C CD2 . LEU E 1 34 ? 5.460 2.019 -15.772 1.00 0.00 ? ? ? ? ? ? 34 LEU E CD2 10
+ATOM 18432 H H . LEU E 1 34 ? 5.114 5.491 -15.878 1.00 0.00 ? ? ? ? ? ? 34 LEU E H 10
+ATOM 18433 H HA . LEU E 1 34 ? 3.726 5.212 -18.452 1.00 0.00 ? ? ? ? ? ? 34 LEU E HA 10
+ATOM 18434 H HB2 . LEU E 1 34 ? 3.463 2.904 -18.119 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB2 10
+ATOM 18435 H HB3 . LEU E 1 34 ? 5.160 3.262 -17.867 1.00 0.00 ? ? ? ? ? ? 34 LEU E HB3 10
+ATOM 18436 H HG . LEU E 1 34 ? 3.925 3.415 -15.318 1.00 0.00 ? ? ? ? ? ? 34 LEU E HG 10
+ATOM 18437 H HD11 . LEU E 1 34 ? 3.123 0.968 -15.231 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD11 10
+ATOM 18438 H HD12 . LEU E 1 34 ? 2.023 2.199 -15.897 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD12 10
+ATOM 18439 H HD13 . LEU E 1 34 ? 2.922 1.122 -16.993 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD13 10
+ATOM 18440 H HD21 . LEU E 1 34 ? 5.410 0.955 -16.003 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD21 10
+ATOM 18441 H HD22 . LEU E 1 34 ? 6.243 2.484 -16.371 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD22 10
+ATOM 18442 H HD23 . LEU E 1 34 ? 5.685 2.151 -14.714 1.00 0.00 ? ? ? ? ? ? 34 LEU E HD23 10
+ATOM 18443 N N . MET E 1 35 ? 1.566 5.673 -17.401 1.00 0.00 ? ? ? ? ? ? 35 MET E N 10
+ATOM 18444 C CA . MET E 1 35 ? 0.290 6.036 -16.808 1.00 0.00 ? ? ? ? ? ? 35 MET E CA 10
+ATOM 18445 C C . MET E 1 35 ? -0.777 4.984 -17.115 1.00 0.00 ? ? ? ? ? ? 35 MET E C 10
+ATOM 18446 O O . MET E 1 35 ? -0.939 4.576 -18.265 1.00 0.00 ? ? ? ? ? ? 35 MET E O 10
+ATOM 18447 C CB . MET E 1 35 ? -0.158 7.393 -17.354 1.00 0.00 ? ? ? ? ? ? 35 MET E CB 10
+ATOM 18448 C CG . MET E 1 35 ? -1.419 7.883 -16.638 1.00 0.00 ? ? ? ? ? ? 35 MET E CG 10
+ATOM 18449 S SD . MET E 1 35 ? -0.997 9.153 -15.458 1.00 0.00 ? ? ? ? ? ? 35 MET E SD 10
+ATOM 18450 C CE . MET E 1 35 ? -1.324 10.608 -16.439 1.00 0.00 ? ? ? ? ? ? 35 MET E CE 10
+ATOM 18451 H H . MET E 1 35 ? 1.617 5.782 -18.394 1.00 0.00 ? ? ? ? ? ? 35 MET E H 10
+ATOM 18452 H HA . MET E 1 35 ? 0.469 6.080 -15.734 1.00 0.00 ? ? ? ? ? ? 35 MET E HA 10
+ATOM 18453 H HB2 . MET E 1 35 ? 0.642 8.122 -17.228 1.00 0.00 ? ? ? ? ? ? 35 MET E HB2 10
+ATOM 18454 H HB3 . MET E 1 35 ? -0.351 7.313 -18.424 1.00 0.00 ? ? ? ? ? ? 35 MET E HB3 10
+ATOM 18455 H HG2 . MET E 1 35 ? -2.132 8.272 -17.365 1.00 0.00 ? ? ? ? ? ? 35 MET E HG2 10
+ATOM 18456 H HG3 . MET E 1 35 ? -1.905 7.050 -16.130 1.00 0.00 ? ? ? ? ? ? 35 MET E HG3 10
+ATOM 18457 H HE1 . MET E 1 35 ? -0.844 10.506 -17.412 1.00 0.00 ? ? ? ? ? ? 35 MET E HE1 10
+ATOM 18458 H HE2 . MET E 1 35 ? -2.399 10.721 -16.574 1.00 0.00 ? ? ? ? ? ? 35 MET E HE2 10
+ATOM 18459 H HE3 . MET E 1 35 ? -0.927 11.487 -15.929 1.00 0.00 ? ? ? ? ? ? 35 MET E HE3 10
+ATOM 18460 N N . VAL E 1 36 ? -1.477 4.574 -16.068 1.00 0.00 ? ? ? ? ? ? 36 VAL E N 10
+ATOM 18461 C CA . VAL E 1 36 ? -2.524 3.577 -16.211 1.00 0.00 ? ? ? ? ? ? 36 VAL E CA 10
+ATOM 18462 C C . VAL E 1 36 ? -3.827 4.124 -15.625 1.00 0.00 ? ? ? ? ? ? 36 VAL E C 10
+ATOM 18463 O O . VAL E 1 36 ? -4.053 4.039 -14.418 1.00 0.00 ? ? ? ? ? ? 36 VAL E O 10
+ATOM 18464 C CB . VAL E 1 36 ? -2.085 2.260 -15.568 1.00 0.00 ? ? ? ? ? ? 36 VAL E CB 10
+ATOM 18465 C CG1 . VAL E 1 36 ? -3.261 1.289 -15.450 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG1 10
+ATOM 18466 C CG2 . VAL E 1 36 ? -0.928 1.630 -16.344 1.00 0.00 ? ? ? ? ? ? 36 VAL E CG2 10
+ATOM 18467 H H . VAL E 1 36 ? -1.339 4.911 -15.136 1.00 0.00 ? ? ? ? ? ? 36 VAL E H 10
+ATOM 18468 H HA . VAL E 1 36 ? -2.667 3.401 -17.277 1.00 0.00 ? ? ? ? ? ? 36 VAL E HA 10
+ATOM 18469 H HB . VAL E 1 36 ? -1.732 2.482 -14.560 1.00 0.00 ? ? ? ? ? ? 36 VAL E HB 10
+ATOM 18470 H HG11 . VAL E 1 36 ? -3.958 1.461 -16.270 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG11 10
+ATOM 18471 H HG12 . VAL E 1 36 ? -2.892 0.264 -15.497 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG12 10
+ATOM 18472 H HG13 . VAL E 1 36 ? -3.771 1.448 -14.500 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG13 10
+ATOM 18473 H HG21 . VAL E 1 36 ? -0.862 0.569 -16.100 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG21 10
+ATOM 18474 H HG22 . VAL E 1 36 ? -1.102 1.746 -17.414 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG22 10
+ATOM 18475 H HG23 . VAL E 1 36 ? 0.005 2.124 -16.072 1.00 0.00 ? ? ? ? ? ? 36 VAL E HG23 10
+ATOM 18476 N N . GLY E 1 37 ? -4.651 4.674 -16.505 1.00 0.00 ? ? ? ? ? ? 37 GLY E N 10
+ATOM 18477 C CA . GLY E 1 37 ? -5.925 5.235 -16.089 1.00 0.00 ? ? ? ? ? ? 37 GLY E CA 10
+ATOM 18478 C C . GLY E 1 37 ? -7.082 4.311 -16.475 1.00 0.00 ? ? ? ? ? ? 37 GLY E C 10
+ATOM 18479 O O . GLY E 1 37 ? -7.103 3.763 -17.575 1.00 0.00 ? ? ? ? ? ? 37 GLY E O 10
+ATOM 18480 H H . GLY E 1 37 ? -4.459 4.740 -17.484 1.00 0.00 ? ? ? ? ? ? 37 GLY E H 10
+ATOM 18481 H HA2 . GLY E 1 37 ? -5.923 5.391 -15.011 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA2 10
+ATOM 18482 H HA3 . GLY E 1 37 ? -6.065 6.212 -16.553 1.00 0.00 ? ? ? ? ? ? 37 GLY E HA3 10
+ATOM 18483 N N . GLY E 1 38 ? -8.017 4.168 -15.546 1.00 0.00 ? ? ? ? ? ? 38 GLY E N 10
+ATOM 18484 C CA . GLY E 1 38 ? -9.174 3.320 -15.775 1.00 0.00 ? ? ? ? ? ? 38 GLY E CA 10
+ATOM 18485 C C . GLY E 1 38 ? -10.438 3.945 -15.180 1.00 0.00 ? ? ? ? ? ? 38 GLY E C 10
+ATOM 18486 O O . GLY E 1 38 ? -10.679 3.844 -13.978 1.00 0.00 ? ? ? ? ? ? 38 GLY E O 10
+ATOM 18487 H H . GLY E 1 38 ? -7.992 4.618 -14.654 1.00 0.00 ? ? ? ? ? ? 38 GLY E H 10
+ATOM 18488 H HA2 . GLY E 1 38 ? -9.310 3.165 -16.845 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA2 10
+ATOM 18489 H HA3 . GLY E 1 38 ? -9.005 2.340 -15.330 1.00 0.00 ? ? ? ? ? ? 38 GLY E HA3 10
+ATOM 18490 N N . VAL E 1 39 ? -11.212 4.579 -16.050 1.00 0.00 ? ? ? ? ? ? 39 VAL E N 10
+ATOM 18491 C CA . VAL E 1 39 ? -12.444 5.221 -15.626 1.00 0.00 ? ? ? ? ? ? 39 VAL E CA 10
+ATOM 18492 C C . VAL E 1 39 ? -13.637 4.461 -16.210 1.00 0.00 ? ? ? ? ? ? 39 VAL E C 10
+ATOM 18493 O O . VAL E 1 39 ? -13.641 4.118 -17.391 1.00 0.00 ? ? ? ? ? ? 39 VAL E O 10
+ATOM 18494 C CB . VAL E 1 39 ? -12.427 6.699 -16.019 1.00 0.00 ? ? ? ? ? ? 39 VAL E CB 10
+ATOM 18495 C CG1 . VAL E 1 39 ? -12.443 6.862 -17.540 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG1 10
+ATOM 18496 C CG2 . VAL E 1 39 ? -13.592 7.452 -15.375 1.00 0.00 ? ? ? ? ? ? 39 VAL E CG2 10
+ATOM 18497 H H . VAL E 1 39 ? -11.008 4.657 -17.026 1.00 0.00 ? ? ? ? ? ? 39 VAL E H 10
+ATOM 18498 H HA . VAL E 1 39 ? -12.489 5.161 -14.538 1.00 0.00 ? ? ? ? ? ? 39 VAL E HA 10
+ATOM 18499 H HB . VAL E 1 39 ? -11.500 7.134 -15.646 1.00 0.00 ? ? ? ? ? ? 39 VAL E HB 10
+ATOM 18500 H HG11 . VAL E 1 39 ? -11.593 6.333 -17.971 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG11 10
+ATOM 18501 H HG12 . VAL E 1 39 ? -13.369 6.449 -17.940 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG12 10
+ATOM 18502 H HG13 . VAL E 1 39 ? -12.378 7.920 -17.793 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG13 10
+ATOM 18503 H HG21 . VAL E 1 39 ? -14.180 7.943 -16.150 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG21 10
+ATOM 18504 H HG22 . VAL E 1 39 ? -14.223 6.748 -14.831 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG22 10
+ATOM 18505 H HG23 . VAL E 1 39 ? -13.204 8.201 -14.684 1.00 0.00 ? ? ? ? ? ? 39 VAL E HG23 10
+ATOM 18506 N N . VAL E 1 40 ? -14.620 4.220 -15.355 1.00 0.00 ? ? ? ? ? ? 40 VAL E N 10
+ATOM 18507 C CA . VAL E 1 40 ? -15.816 3.507 -15.772 1.00 0.00 ? ? ? ? ? ? 40 VAL E CA 10
+ATOM 18508 C C . VAL E 1 40 ? -17.045 4.178 -15.155 1.00 0.00 ? ? ? ? ? ? 40 VAL E C 10
+ATOM 18509 O O . VAL E 1 40 ? -17.069 4.457 -13.958 1.00 0.00 ? ? ? ? ? ? 40 VAL E O 10
+ATOM 18510 C CB . VAL E 1 40 ? -15.696 2.026 -15.406 1.00 0.00 ? ? ? ? ? ? 40 VAL E CB 10
+ATOM 18511 C CG1 . VAL E 1 40 ? -17.004 1.284 -15.689 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG1 10
+ATOM 18512 C CG2 . VAL E 1 40 ? -14.525 1.372 -16.142 1.00 0.00 ? ? ? ? ? ? 40 VAL E CG2 10
+ATOM 18513 H H . VAL E 1 40 ? -14.609 4.502 -14.396 1.00 0.00 ? ? ? ? ? ? 40 VAL E H 10
+ATOM 18514 H HA . VAL E 1 40 ? -15.882 3.582 -16.857 1.00 0.00 ? ? ? ? ? ? 40 VAL E HA 10
+ATOM 18515 H HB . VAL E 1 40 ? -15.498 1.960 -14.336 1.00 0.00 ? ? ? ? ? ? 40 VAL E HB 10
+ATOM 18516 H HG11 . VAL E 1 40 ? -17.425 0.920 -14.752 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG11 10
+ATOM 18517 H HG12 . VAL E 1 40 ? -17.711 1.963 -16.165 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG12 10
+ATOM 18518 H HG13 . VAL E 1 40 ? -16.808 0.441 -16.351 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG13 10
+ATOM 18519 H HG21 . VAL E 1 40 ? -13.586 1.707 -15.700 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG21 10
+ATOM 18520 H HG22 . VAL E 1 40 ? -14.601 0.288 -16.056 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG22 10
+ATOM 18521 H HG23 . VAL E 1 40 ? -14.553 1.656 -17.194 1.00 0.00 ? ? ? ? ? ? 40 VAL E HG23 10
+ATOM 18522 N N . ILE E 1 41 ? -18.036 4.417 -16.002 1.00 0.00 ? ? ? ? ? ? 41 ILE E N 10
+ATOM 18523 C CA . ILE E 1 41 ? -19.265 5.049 -15.555 1.00 0.00 ? ? ? ? ? ? 41 ILE E CA 10
+ATOM 18524 C C . ILE E 1 41 ? -20.454 4.157 -15.919 1.00 0.00 ? ? ? ? ? ? 41 ILE E C 10
+ATOM 18525 O O . ILE E 1 41 ? -20.637 3.805 -17.083 1.00 0.00 ? ? ? ? ? ? 41 ILE E O 10
+ATOM 18526 C CB . ILE E 1 41 ? -19.370 6.470 -16.113 1.00 0.00 ? ? ? ? ? ? 41 ILE E CB 10
+ATOM 18527 C CG1 . ILE E 1 41 ? -18.278 7.370 -15.530 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG1 10
+ATOM 18528 C CG2 . ILE E 1 41 ? -20.769 7.047 -15.886 1.00 0.00 ? ? ? ? ? ? 41 ILE E CG2 10
+ATOM 18529 C CD1 . ILE E 1 41 ? -17.694 8.290 -16.604 1.00 0.00 ? ? ? ? ? ? 41 ILE E CD1 10
+ATOM 18530 H H . ILE E 1 41 ? -18.008 4.187 -16.975 1.00 0.00 ? ? ? ? ? ? 41 ILE E H 10
+ATOM 18531 H HA . ILE E 1 41 ? -19.215 5.132 -14.470 1.00 0.00 ? ? ? ? ? ? 41 ILE E HA 10
+ATOM 18532 H HB . ILE E 1 41 ? -19.210 6.427 -17.190 1.00 0.00 ? ? ? ? ? ? 41 ILE E HB 10
+ATOM 18533 H HG12 . ILE E 1 41 ? -18.690 7.969 -14.718 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG12 10
+ATOM 18534 H HG13 . ILE E 1 41 ? -17.486 6.756 -15.102 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG13 10
+ATOM 18535 H HG21 . ILE E 1 41 ? -21.214 6.585 -15.005 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG21 10
+ATOM 18536 H HG22 . ILE E 1 41 ? -20.698 8.124 -15.735 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG22 10
+ATOM 18537 H HG23 . ILE E 1 41 ? -21.391 6.842 -16.757 1.00 0.00 ? ? ? ? ? ? 41 ILE E HG23 10
+ATOM 18538 H HD11 . ILE E 1 41 ? -17.170 9.118 -16.127 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD11 10
+ATOM 18539 H HD12 . ILE E 1 41 ? -16.996 7.727 -17.224 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD12 10
+ATOM 18540 H HD13 . ILE E 1 41 ? -18.500 8.680 -17.226 1.00 0.00 ? ? ? ? ? ? 41 ILE E HD13 10
+ATOM 18541 N N . ALA E 1 42 ? -21.231 3.818 -14.901 1.00 0.00 ? ? ? ? ? ? 42 ALA E N 10
+ATOM 18542 C CA . ALA E 1 42 ? -22.397 2.973 -15.098 1.00 0.00 ? ? ? ? ? ? 42 ALA E CA 10
+ATOM 18543 C C . ALA E 1 42 ? -23.456 3.320 -14.050 1.00 0.00 ? ? ? ? ? ? 42 ALA E C 10
+ATOM 18544 O O . ALA E 1 42 ? -23.702 2.542 -13.129 1.00 0.00 ? ? ? ? ? ? 42 ALA E O 10
+ATOM 18545 C CB . ALA E 1 42 ? -21.978 1.503 -15.040 1.00 0.00 ? ? ? ? ? ? 42 ALA E CB 10
+ATOM 18546 H H . ALA E 1 42 ? -21.075 4.108 -13.957 1.00 0.00 ? ? ? ? ? ? 42 ALA E H 10
+ATOM 18547 H HA . ALA E 1 42 ? -22.796 3.186 -16.090 1.00 0.00 ? ? ? ? ? ? 42 ALA E HA 10
+ATOM 18548 H HB1 . ALA E 1 42 ? -21.045 1.369 -15.587 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB1 10
+ATOM 18549 H HB2 . ALA E 1 42 ? -21.836 1.206 -14.001 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB2 10
+ATOM 18550 H HB3 . ALA E 1 42 ? -22.756 0.886 -15.491 1.00 0.00 ? ? ? ? ? ? 42 ALA E HB3 10
+#
+loop_
+_pdbx_poly_seq_scheme.asym_id
+_pdbx_poly_seq_scheme.entity_id
+_pdbx_poly_seq_scheme.seq_id
+_pdbx_poly_seq_scheme.mon_id
+_pdbx_poly_seq_scheme.ndb_seq_num
+_pdbx_poly_seq_scheme.pdb_seq_num
+_pdbx_poly_seq_scheme.auth_seq_num
+_pdbx_poly_seq_scheme.pdb_mon_id
+_pdbx_poly_seq_scheme.auth_mon_id
+_pdbx_poly_seq_scheme.pdb_strand_id
+_pdbx_poly_seq_scheme.pdb_ins_code
+_pdbx_poly_seq_scheme.hetero
+A 1 1 ASP 1 1 ? ? ? A . n
+A 1 2 ALA 2 2 ? ? ? A . n
+A 1 3 GLU 3 3 ? ? ? A . n
+A 1 4 PHE 4 4 ? ? ? A . n
+A 1 5 ARG 5 5 ? ? ? A . n
+A 1 6 HIS 6 6 ? ? ? A . n
+A 1 7 ASP 7 7 ? ? ? A . n
+A 1 8 SER 8 8 ? ? ? A . n
+A 1 9 GLY 9 9 ? ? ? A . n
+A 1 10 TYR 10 10 ? ? ? A . n
+A 1 11 GLU 11 11 ? ? ? A . n
+A 1 12 VAL 12 12 ? ? ? A . n
+A 1 13 HIS 13 13 ? ? ? A . n
+A 1 14 HIS 14 14 ? ? ? A . n
+A 1 15 GLN 15 15 ? ? ? A . n
+A 1 16 LYS 16 16 ? ? ? A . n
+A 1 17 LEU 17 17 117 LEU LEU A . n
+A 1 18 VAL 18 18 118 VAL VAL A . n
+A 1 19 PHE 19 19 119 PHE PHE A . n
+A 1 20 PHE 20 20 120 PHE PHE A . n
+A 1 21 ALA 21 21 121 ALA ALA A . n
+A 1 22 GLU 22 22 122 GLU GLU A . n
+A 1 23 ASP 23 23 123 ASP ASP A . n
+A 1 24 VAL 24 24 124 VAL VAL A . n
+A 1 25 GLY 25 25 125 GLY GLY A . n
+A 1 26 SER 26 26 126 SER SER A . n
+A 1 27 ASN 27 27 127 ASN ASN A . n
+A 1 28 LYS 28 28 128 LYS LYS A . n
+A 1 29 GLY 29 29 129 GLY GLY A . n
+A 1 30 ALA 30 30 130 ALA ALA A . n
+A 1 31 ILE 31 31 131 ILE ILE A . n
+A 1 32 ILE 32 32 132 ILE ILE A . n
+A 1 33 GLY 33 33 133 GLY GLY A . n
+A 1 34 LEU 34 34 134 LEU LEU A . n
+A 1 35 MET 35 35 135 MET MET A . n
+A 1 36 VAL 36 36 136 VAL VAL A . n
+A 1 37 GLY 37 37 137 GLY GLY A . n
+A 1 38 GLY 38 38 138 GLY GLY A . n
+A 1 39 VAL 39 39 139 VAL VAL A . n
+A 1 40 VAL 40 40 140 VAL VAL A . n
+A 1 41 ILE 41 41 141 ILE ILE A . n
+A 1 42 ALA 42 42 142 ALA ALA A . n
+B 1 1 ASP 1 1 ? ? ? B . n
+B 1 2 ALA 2 2 ? ? ? B . n
+B 1 3 GLU 3 3 ? ? ? B . n
+B 1 4 PHE 4 4 ? ? ? B . n
+B 1 5 ARG 5 5 ? ? ? B . n
+B 1 6 HIS 6 6 ? ? ? B . n
+B 1 7 ASP 7 7 ? ? ? B . n
+B 1 8 SER 8 8 ? ? ? B . n
+B 1 9 GLY 9 9 ? ? ? B . n
+B 1 10 TYR 10 10 ? ? ? B . n
+B 1 11 GLU 11 11 ? ? ? B . n
+B 1 12 VAL 12 12 ? ? ? B . n
+B 1 13 HIS 13 13 ? ? ? B . n
+B 1 14 HIS 14 14 ? ? ? B . n
+B 1 15 GLN 15 15 ? ? ? B . n
+B 1 16 LYS 16 16 ? ? ? B . n
+B 1 17 LEU 17 17 217 LEU LEU B . n
+B 1 18 VAL 18 18 218 VAL VAL B . n
+B 1 19 PHE 19 19 219 PHE PHE B . n
+B 1 20 PHE 20 20 220 PHE PHE B . n
+B 1 21 ALA 21 21 221 ALA ALA B . n
+B 1 22 GLU 22 22 222 GLU GLU B . n
+B 1 23 ASP 23 23 223 ASP ASP B . n
+B 1 24 VAL 24 24 224 VAL VAL B . n
+B 1 25 GLY 25 25 225 GLY GLY B . n
+B 1 26 SER 26 26 226 SER SER B . n
+B 1 27 ASN 27 27 227 ASN ASN B . n
+B 1 28 LYS 28 28 228 LYS LYS B . n
+B 1 29 GLY 29 29 229 GLY GLY B . n
+B 1 30 ALA 30 30 230 ALA ALA B . n
+B 1 31 ILE 31 31 231 ILE ILE B . n
+B 1 32 ILE 32 32 232 ILE ILE B . n
+B 1 33 GLY 33 33 233 GLY GLY B . n
+B 1 34 LEU 34 34 234 LEU LEU B . n
+B 1 35 MET 35 35 235 MET MET B . n
+B 1 36 VAL 36 36 236 VAL VAL B . n
+B 1 37 GLY 37 37 237 GLY GLY B . n
+B 1 38 GLY 38 38 238 GLY GLY B . n
+B 1 39 VAL 39 39 239 VAL VAL B . n
+B 1 40 VAL 40 40 240 VAL VAL B . n
+B 1 41 ILE 41 41 241 ILE ILE B . n
+B 1 42 ALA 42 42 242 ALA ALA B . n
+C 1 1 ASP 1 1 ? ? ? C . n
+C 1 2 ALA 2 2 ? ? ? C . n
+C 1 3 GLU 3 3 ? ? ? C . n
+C 1 4 PHE 4 4 ? ? ? C . n
+C 1 5 ARG 5 5 ? ? ? C . n
+C 1 6 HIS 6 6 ? ? ? C . n
+C 1 7 ASP 7 7 ? ? ? C . n
+C 1 8 SER 8 8 ? ? ? C . n
+C 1 9 GLY 9 9 ? ? ? C . n
+C 1 10 TYR 10 10 ? ? ? C . n
+C 1 11 GLU 11 11 ? ? ? C . n
+C 1 12 VAL 12 12 ? ? ? C . n
+C 1 13 HIS 13 13 ? ? ? C . n
+C 1 14 HIS 14 14 ? ? ? C . n
+C 1 15 GLN 15 15 ? ? ? C . n
+C 1 16 LYS 16 16 ? ? ? C . n
+C 1 17 LEU 17 17 317 LEU LEU C . n
+C 1 18 VAL 18 18 318 VAL VAL C . n
+C 1 19 PHE 19 19 319 PHE PHE C . n
+C 1 20 PHE 20 20 320 PHE PHE C . n
+C 1 21 ALA 21 21 321 ALA ALA C . n
+C 1 22 GLU 22 22 322 GLU GLU C . n
+C 1 23 ASP 23 23 323 ASP ASP C . n
+C 1 24 VAL 24 24 324 VAL VAL C . n
+C 1 25 GLY 25 25 325 GLY GLY C . n
+C 1 26 SER 26 26 326 SER SER C . n
+C 1 27 ASN 27 27 327 ASN ASN C . n
+C 1 28 LYS 28 28 328 LYS LYS C . n
+C 1 29 GLY 29 29 329 GLY GLY C . n
+C 1 30 ALA 30 30 330 ALA ALA C . n
+C 1 31 ILE 31 31 331 ILE ILE C . n
+C 1 32 ILE 32 32 332 ILE ILE C . n
+C 1 33 GLY 33 33 333 GLY GLY C . n
+C 1 34 LEU 34 34 334 LEU LEU C . n
+C 1 35 MET 35 35 335 MET MET C . n
+C 1 36 VAL 36 36 336 VAL VAL C . n
+C 1 37 GLY 37 37 337 GLY GLY C . n
+C 1 38 GLY 38 38 338 GLY GLY C . n
+C 1 39 VAL 39 39 339 VAL VAL C . n
+C 1 40 VAL 40 40 340 VAL VAL C . n
+C 1 41 ILE 41 41 341 ILE ILE C . n
+C 1 42 ALA 42 42 342 ALA ALA C . n
+D 1 1 ASP 1 1 ? ? ? D . n
+D 1 2 ALA 2 2 ? ? ? D . n
+D 1 3 GLU 3 3 ? ? ? D . n
+D 1 4 PHE 4 4 ? ? ? D . n
+D 1 5 ARG 5 5 ? ? ? D . n
+D 1 6 HIS 6 6 ? ? ? D . n
+D 1 7 ASP 7 7 ? ? ? D . n
+D 1 8 SER 8 8 ? ? ? D . n
+D 1 9 GLY 9 9 ? ? ? D . n
+D 1 10 TYR 10 10 ? ? ? D . n
+D 1 11 GLU 11 11 ? ? ? D . n
+D 1 12 VAL 12 12 ? ? ? D . n
+D 1 13 HIS 13 13 ? ? ? D . n
+D 1 14 HIS 14 14 ? ? ? D . n
+D 1 15 GLN 15 15 ? ? ? D . n
+D 1 16 LYS 16 16 ? ? ? D . n
+D 1 17 LEU 17 17 417 LEU LEU D . n
+D 1 18 VAL 18 18 418 VAL VAL D . n
+D 1 19 PHE 19 19 419 PHE PHE D . n
+D 1 20 PHE 20 20 420 PHE PHE D . n
+D 1 21 ALA 21 21 421 ALA ALA D . n
+D 1 22 GLU 22 22 422 GLU GLU D . n
+D 1 23 ASP 23 23 423 ASP ASP D . n
+D 1 24 VAL 24 24 424 VAL VAL D . n
+D 1 25 GLY 25 25 425 GLY GLY D . n
+D 1 26 SER 26 26 426 SER SER D . n
+D 1 27 ASN 27 27 427 ASN ASN D . n
+D 1 28 LYS 28 28 428 LYS LYS D . n
+D 1 29 GLY 29 29 429 GLY GLY D . n
+D 1 30 ALA 30 30 430 ALA ALA D . n
+D 1 31 ILE 31 31 431 ILE ILE D . n
+D 1 32 ILE 32 32 432 ILE ILE D . n
+D 1 33 GLY 33 33 433 GLY GLY D . n
+D 1 34 LEU 34 34 434 LEU LEU D . n
+D 1 35 MET 35 35 435 MET MET D . n
+D 1 36 VAL 36 36 436 VAL VAL D . n
+D 1 37 GLY 37 37 437 GLY GLY D . n
+D 1 38 GLY 38 38 438 GLY GLY D . n
+D 1 39 VAL 39 39 439 VAL VAL D . n
+D 1 40 VAL 40 40 440 VAL VAL D . n
+D 1 41 ILE 41 41 441 ILE ILE D . n
+D 1 42 ALA 42 42 442 ALA ALA D . n
+E 1 1 ASP 1 1 ? ? ? E . n
+E 1 2 ALA 2 2 ? ? ? E . n
+E 1 3 GLU 3 3 ? ? ? E . n
+E 1 4 PHE 4 4 ? ? ? E . n
+E 1 5 ARG 5 5 ? ? ? E . n
+E 1 6 HIS 6 6 ? ? ? E . n
+E 1 7 ASP 7 7 ? ? ? E . n
+E 1 8 SER 8 8 ? ? ? E . n
+E 1 9 GLY 9 9 ? ? ? E . n
+E 1 10 TYR 10 10 ? ? ? E . n
+E 1 11 GLU 11 11 ? ? ? E . n
+E 1 12 VAL 12 12 ? ? ? E . n
+E 1 13 HIS 13 13 ? ? ? E . n
+E 1 14 HIS 14 14 ? ? ? E . n
+E 1 15 GLN 15 15 ? ? ? E . n
+E 1 16 LYS 16 16 ? ? ? E . n
+E 1 17 LEU 17 17 517 LEU LEU E . n
+E 1 18 VAL 18 18 518 VAL VAL E . n
+E 1 19 PHE 19 19 519 PHE PHE E . n
+E 1 20 PHE 20 20 520 PHE PHE E . n
+E 1 21 ALA 21 21 521 ALA ALA E . n
+E 1 22 GLU 22 22 522 GLU GLU E . n
+E 1 23 ASP 23 23 523 ASP ASP E . n
+E 1 24 VAL 24 24 524 VAL VAL E . n
+E 1 25 GLY 25 25 525 GLY GLY E . n
+E 1 26 SER 26 26 526 SER SER E . n
+E 1 27 ASN 27 27 527 ASN ASN E . n
+E 1 28 LYS 28 28 528 LYS LYS E . n
+E 1 29 GLY 29 29 529 GLY GLY E . n
+E 1 30 ALA 30 30 530 ALA ALA E . n
+E 1 31 ILE 31 31 531 ILE ILE E . n
+E 1 32 ILE 32 32 532 ILE ILE E . n
+E 1 33 GLY 33 33 533 GLY GLY E . n
+E 1 34 LEU 34 34 534 LEU LEU E . n
+E 1 35 MET 35 35 535 MET MET E . n
+E 1 36 VAL 36 36 536 VAL VAL E . n
+E 1 37 GLY 37 37 537 GLY GLY E . n
+E 1 38 GLY 38 38 538 GLY GLY E . n
+E 1 39 VAL 39 39 539 VAL VAL E . n
+E 1 40 VAL 40 40 540 VAL VAL E . n
+E 1 41 ILE 41 41 541 ILE ILE E . n
+E 1 42 ALA 42 42 542 ALA ALA E . n
+#
+loop_
+_pdbx_version.entry_id
+_pdbx_version.revision_date
+_pdbx_version.major_version
+_pdbx_version.minor_version
+_pdbx_version.revision_type
+_pdbx_version.details
+2BEG 2008-05-01 3 2 'Version format compliance' 'compliance with PDB format V.3.15'
+2BEG 2011-07-13 4 0000 'Version format compliance' 'compliance with PDB Exchange Dictionary V4'
+#
+loop_
+_pdbx_unobs_or_zero_occ_residues.id
+_pdbx_unobs_or_zero_occ_residues.polymer_flag
+_pdbx_unobs_or_zero_occ_residues.occupancy_flag
+_pdbx_unobs_or_zero_occ_residues.PDB_model_num
+_pdbx_unobs_or_zero_occ_residues.auth_asym_id
+_pdbx_unobs_or_zero_occ_residues.auth_comp_id
+_pdbx_unobs_or_zero_occ_residues.auth_seq_id
+_pdbx_unobs_or_zero_occ_residues.PDB_ins_code
+1 Y 1 1 A ASP 1 ?
+2 Y 1 1 A ALA 2 ?
+3 Y 1 1 A GLU 3 ?
+4 Y 1 1 A PHE 4 ?
+5 Y 1 1 A ARG 5 ?
+6 Y 1 1 A HIS 6 ?
+7 Y 1 1 A ASP 7 ?
+8 Y 1 1 A SER 8 ?
+9 Y 1 1 A GLY 9 ?
+10 Y 1 1 A TYR 10 ?
+11 Y 1 1 A GLU 11 ?
+12 Y 1 1 A VAL 12 ?
+13 Y 1 1 A HIS 13 ?
+14 Y 1 1 A HIS 14 ?
+15 Y 1 1 A GLN 15 ?
+16 Y 1 1 A LYS 16 ?
+17 Y 1 1 B ASP 1 ?
+18 Y 1 1 B ALA 2 ?
+19 Y 1 1 B GLU 3 ?
+20 Y 1 1 B PHE 4 ?
+21 Y 1 1 B ARG 5 ?
+22 Y 1 1 B HIS 6 ?
+23 Y 1 1 B ASP 7 ?
+24 Y 1 1 B SER 8 ?
+25 Y 1 1 B GLY 9 ?
+26 Y 1 1 B TYR 10 ?
+27 Y 1 1 B GLU 11 ?
+28 Y 1 1 B VAL 12 ?
+29 Y 1 1 B HIS 13 ?
+30 Y 1 1 B HIS 14 ?
+31 Y 1 1 B GLN 15 ?
+32 Y 1 1 B LYS 16 ?
+33 Y 1 1 C ASP 1 ?
+34 Y 1 1 C ALA 2 ?
+35 Y 1 1 C GLU 3 ?
+36 Y 1 1 C PHE 4 ?
+37 Y 1 1 C ARG 5 ?
+38 Y 1 1 C HIS 6 ?
+39 Y 1 1 C ASP 7 ?
+40 Y 1 1 C SER 8 ?
+41 Y 1 1 C GLY 9 ?
+42 Y 1 1 C TYR 10 ?
+43 Y 1 1 C GLU 11 ?
+44 Y 1 1 C VAL 12 ?
+45 Y 1 1 C HIS 13 ?
+46 Y 1 1 C HIS 14 ?
+47 Y 1 1 C GLN 15 ?
+48 Y 1 1 C LYS 16 ?
+49 Y 1 1 D ASP 1 ?
+50 Y 1 1 D ALA 2 ?
+51 Y 1 1 D GLU 3 ?
+52 Y 1 1 D PHE 4 ?
+53 Y 1 1 D ARG 5 ?
+54 Y 1 1 D HIS 6 ?
+55 Y 1 1 D ASP 7 ?
+56 Y 1 1 D SER 8 ?
+57 Y 1 1 D GLY 9 ?
+58 Y 1 1 D TYR 10 ?
+59 Y 1 1 D GLU 11 ?
+60 Y 1 1 D VAL 12 ?
+61 Y 1 1 D HIS 13 ?
+62 Y 1 1 D HIS 14 ?
+63 Y 1 1 D GLN 15 ?
+64 Y 1 1 D LYS 16 ?
+65 Y 1 1 E ASP 1 ?
+66 Y 1 1 E ALA 2 ?
+67 Y 1 1 E GLU 3 ?
+68 Y 1 1 E PHE 4 ?
+69 Y 1 1 E ARG 5 ?
+70 Y 1 1 E HIS 6 ?
+71 Y 1 1 E ASP 7 ?
+72 Y 1 1 E SER 8 ?
+73 Y 1 1 E GLY 9 ?
+74 Y 1 1 E TYR 10 ?
+75 Y 1 1 E GLU 11 ?
+76 Y 1 1 E VAL 12 ?
+77 Y 1 1 E HIS 13 ?
+78 Y 1 1 E HIS 14 ?
+79 Y 1 1 E GLN 15 ?
+80 Y 1 1 E LYS 16 ?
+81 Y 1 2 A ASP 1 ?
+82 Y 1 2 A ALA 2 ?
+83 Y 1 2 A GLU 3 ?
+84 Y 1 2 A PHE 4 ?
+85 Y 1 2 A ARG 5 ?
+86 Y 1 2 A HIS 6 ?
+87 Y 1 2 A ASP 7 ?
+88 Y 1 2 A SER 8 ?
+89 Y 1 2 A GLY 9 ?
+90 Y 1 2 A TYR 10 ?
+91 Y 1 2 A GLU 11 ?
+92 Y 1 2 A VAL 12 ?
+93 Y 1 2 A HIS 13 ?
+94 Y 1 2 A HIS 14 ?
+95 Y 1 2 A GLN 15 ?
+96 Y 1 2 A LYS 16 ?
+97 Y 1 2 B ASP 1 ?
+98 Y 1 2 B ALA 2 ?
+99 Y 1 2 B GLU 3 ?
+100 Y 1 2 B PHE 4 ?
+101 Y 1 2 B ARG 5 ?
+102 Y 1 2 B HIS 6 ?
+103 Y 1 2 B ASP 7 ?
+104 Y 1 2 B SER 8 ?
+105 Y 1 2 B GLY 9 ?
+106 Y 1 2 B TYR 10 ?
+107 Y 1 2 B GLU 11 ?
+108 Y 1 2 B VAL 12 ?
+109 Y 1 2 B HIS 13 ?
+110 Y 1 2 B HIS 14 ?
+111 Y 1 2 B GLN 15 ?
+112 Y 1 2 B LYS 16 ?
+113 Y 1 2 C ASP 1 ?
+114 Y 1 2 C ALA 2 ?
+115 Y 1 2 C GLU 3 ?
+116 Y 1 2 C PHE 4 ?
+117 Y 1 2 C ARG 5 ?
+118 Y 1 2 C HIS 6 ?
+119 Y 1 2 C ASP 7 ?
+120 Y 1 2 C SER 8 ?
+121 Y 1 2 C GLY 9 ?
+122 Y 1 2 C TYR 10 ?
+123 Y 1 2 C GLU 11 ?
+124 Y 1 2 C VAL 12 ?
+125 Y 1 2 C HIS 13 ?
+126 Y 1 2 C HIS 14 ?
+127 Y 1 2 C GLN 15 ?
+128 Y 1 2 C LYS 16 ?
+129 Y 1 2 D ASP 1 ?
+130 Y 1 2 D ALA 2 ?
+131 Y 1 2 D GLU 3 ?
+132 Y 1 2 D PHE 4 ?
+133 Y 1 2 D ARG 5 ?
+134 Y 1 2 D HIS 6 ?
+135 Y 1 2 D ASP 7 ?
+136 Y 1 2 D SER 8 ?
+137 Y 1 2 D GLY 9 ?
+138 Y 1 2 D TYR 10 ?
+139 Y 1 2 D GLU 11 ?
+140 Y 1 2 D VAL 12 ?
+141 Y 1 2 D HIS 13 ?
+142 Y 1 2 D HIS 14 ?
+143 Y 1 2 D GLN 15 ?
+144 Y 1 2 D LYS 16 ?
+145 Y 1 2 E ASP 1 ?
+146 Y 1 2 E ALA 2 ?
+147 Y 1 2 E GLU 3 ?
+148 Y 1 2 E PHE 4 ?
+149 Y 1 2 E ARG 5 ?
+150 Y 1 2 E HIS 6 ?
+151 Y 1 2 E ASP 7 ?
+152 Y 1 2 E SER 8 ?
+153 Y 1 2 E GLY 9 ?
+154 Y 1 2 E TYR 10 ?
+155 Y 1 2 E GLU 11 ?
+156 Y 1 2 E VAL 12 ?
+157 Y 1 2 E HIS 13 ?
+158 Y 1 2 E HIS 14 ?
+159 Y 1 2 E GLN 15 ?
+160 Y 1 2 E LYS 16 ?
+161 Y 1 3 A ASP 1 ?
+162 Y 1 3 A ALA 2 ?
+163 Y 1 3 A GLU 3 ?
+164 Y 1 3 A PHE 4 ?
+165 Y 1 3 A ARG 5 ?
+166 Y 1 3 A HIS 6 ?
+167 Y 1 3 A ASP 7 ?
+168 Y 1 3 A SER 8 ?
+169 Y 1 3 A GLY 9 ?
+170 Y 1 3 A TYR 10 ?
+171 Y 1 3 A GLU 11 ?
+172 Y 1 3 A VAL 12 ?
+173 Y 1 3 A HIS 13 ?
+174 Y 1 3 A HIS 14 ?
+175 Y 1 3 A GLN 15 ?
+176 Y 1 3 A LYS 16 ?
+177 Y 1 3 B ASP 1 ?
+178 Y 1 3 B ALA 2 ?
+179 Y 1 3 B GLU 3 ?
+180 Y 1 3 B PHE 4 ?
+181 Y 1 3 B ARG 5 ?
+182 Y 1 3 B HIS 6 ?
+183 Y 1 3 B ASP 7 ?
+184 Y 1 3 B SER 8 ?
+185 Y 1 3 B GLY 9 ?
+186 Y 1 3 B TYR 10 ?
+187 Y 1 3 B GLU 11 ?
+188 Y 1 3 B VAL 12 ?
+189 Y 1 3 B HIS 13 ?
+190 Y 1 3 B HIS 14 ?
+191 Y 1 3 B GLN 15 ?
+192 Y 1 3 B LYS 16 ?
+193 Y 1 3 C ASP 1 ?
+194 Y 1 3 C ALA 2 ?
+195 Y 1 3 C GLU 3 ?
+196 Y 1 3 C PHE 4 ?
+197 Y 1 3 C ARG 5 ?
+198 Y 1 3 C HIS 6 ?
+199 Y 1 3 C ASP 7 ?
+200 Y 1 3 C SER 8 ?
+201 Y 1 3 C GLY 9 ?
+202 Y 1 3 C TYR 10 ?
+203 Y 1 3 C GLU 11 ?
+204 Y 1 3 C VAL 12 ?
+205 Y 1 3 C HIS 13 ?
+206 Y 1 3 C HIS 14 ?
+207 Y 1 3 C GLN 15 ?
+208 Y 1 3 C LYS 16 ?
+209 Y 1 3 D ASP 1 ?
+210 Y 1 3 D ALA 2 ?
+211 Y 1 3 D GLU 3 ?
+212 Y 1 3 D PHE 4 ?
+213 Y 1 3 D ARG 5 ?
+214 Y 1 3 D HIS 6 ?
+215 Y 1 3 D ASP 7 ?
+216 Y 1 3 D SER 8 ?
+217 Y 1 3 D GLY 9 ?
+218 Y 1 3 D TYR 10 ?
+219 Y 1 3 D GLU 11 ?
+220 Y 1 3 D VAL 12 ?
+221 Y 1 3 D HIS 13 ?
+222 Y 1 3 D HIS 14 ?
+223 Y 1 3 D GLN 15 ?
+224 Y 1 3 D LYS 16 ?
+225 Y 1 3 E ASP 1 ?
+226 Y 1 3 E ALA 2 ?
+227 Y 1 3 E GLU 3 ?
+228 Y 1 3 E PHE 4 ?
+229 Y 1 3 E ARG 5 ?
+230 Y 1 3 E HIS 6 ?
+231 Y 1 3 E ASP 7 ?
+232 Y 1 3 E SER 8 ?
+233 Y 1 3 E GLY 9 ?
+234 Y 1 3 E TYR 10 ?
+235 Y 1 3 E GLU 11 ?
+236 Y 1 3 E VAL 12 ?
+237 Y 1 3 E HIS 13 ?
+238 Y 1 3 E HIS 14 ?
+239 Y 1 3 E GLN 15 ?
+240 Y 1 3 E LYS 16 ?
+241 Y 1 4 A ASP 1 ?
+242 Y 1 4 A ALA 2 ?
+243 Y 1 4 A GLU 3 ?
+244 Y 1 4 A PHE 4 ?
+245 Y 1 4 A ARG 5 ?
+246 Y 1 4 A HIS 6 ?
+247 Y 1 4 A ASP 7 ?
+248 Y 1 4 A SER 8 ?
+249 Y 1 4 A GLY 9 ?
+250 Y 1 4 A TYR 10 ?
+251 Y 1 4 A GLU 11 ?
+252 Y 1 4 A VAL 12 ?
+253 Y 1 4 A HIS 13 ?
+254 Y 1 4 A HIS 14 ?
+255 Y 1 4 A GLN 15 ?
+256 Y 1 4 A LYS 16 ?
+257 Y 1 4 B ASP 1 ?
+258 Y 1 4 B ALA 2 ?
+259 Y 1 4 B GLU 3 ?
+260 Y 1 4 B PHE 4 ?
+261 Y 1 4 B ARG 5 ?
+262 Y 1 4 B HIS 6 ?
+263 Y 1 4 B ASP 7 ?
+264 Y 1 4 B SER 8 ?
+265 Y 1 4 B GLY 9 ?
+266 Y 1 4 B TYR 10 ?
+267 Y 1 4 B GLU 11 ?
+268 Y 1 4 B VAL 12 ?
+269 Y 1 4 B HIS 13 ?
+270 Y 1 4 B HIS 14 ?
+271 Y 1 4 B GLN 15 ?
+272 Y 1 4 B LYS 16 ?
+273 Y 1 4 C ASP 1 ?
+274 Y 1 4 C ALA 2 ?
+275 Y 1 4 C GLU 3 ?
+276 Y 1 4 C PHE 4 ?
+277 Y 1 4 C ARG 5 ?
+278 Y 1 4 C HIS 6 ?
+279 Y 1 4 C ASP 7 ?
+280 Y 1 4 C SER 8 ?
+281 Y 1 4 C GLY 9 ?
+282 Y 1 4 C TYR 10 ?
+283 Y 1 4 C GLU 11 ?
+284 Y 1 4 C VAL 12 ?
+285 Y 1 4 C HIS 13 ?
+286 Y 1 4 C HIS 14 ?
+287 Y 1 4 C GLN 15 ?
+288 Y 1 4 C LYS 16 ?
+289 Y 1 4 D ASP 1 ?
+290 Y 1 4 D ALA 2 ?
+291 Y 1 4 D GLU 3 ?
+292 Y 1 4 D PHE 4 ?
+293 Y 1 4 D ARG 5 ?
+294 Y 1 4 D HIS 6 ?
+295 Y 1 4 D ASP 7 ?
+296 Y 1 4 D SER 8 ?
+297 Y 1 4 D GLY 9 ?
+298 Y 1 4 D TYR 10 ?
+299 Y 1 4 D GLU 11 ?
+300 Y 1 4 D VAL 12 ?
+301 Y 1 4 D HIS 13 ?
+302 Y 1 4 D HIS 14 ?
+303 Y 1 4 D GLN 15 ?
+304 Y 1 4 D LYS 16 ?
+305 Y 1 4 E ASP 1 ?
+306 Y 1 4 E ALA 2 ?
+307 Y 1 4 E GLU 3 ?
+308 Y 1 4 E PHE 4 ?
+309 Y 1 4 E ARG 5 ?
+310 Y 1 4 E HIS 6 ?
+311 Y 1 4 E ASP 7 ?
+312 Y 1 4 E SER 8 ?
+313 Y 1 4 E GLY 9 ?
+314 Y 1 4 E TYR 10 ?
+315 Y 1 4 E GLU 11 ?
+316 Y 1 4 E VAL 12 ?
+317 Y 1 4 E HIS 13 ?
+318 Y 1 4 E HIS 14 ?
+319 Y 1 4 E GLN 15 ?
+320 Y 1 4 E LYS 16 ?
+321 Y 1 5 A ASP 1 ?
+322 Y 1 5 A ALA 2 ?
+323 Y 1 5 A GLU 3 ?
+324 Y 1 5 A PHE 4 ?
+325 Y 1 5 A ARG 5 ?
+326 Y 1 5 A HIS 6 ?
+327 Y 1 5 A ASP 7 ?
+328 Y 1 5 A SER 8 ?
+329 Y 1 5 A GLY 9 ?
+330 Y 1 5 A TYR 10 ?
+331 Y 1 5 A GLU 11 ?
+332 Y 1 5 A VAL 12 ?
+333 Y 1 5 A HIS 13 ?
+334 Y 1 5 A HIS 14 ?
+335 Y 1 5 A GLN 15 ?
+336 Y 1 5 A LYS 16 ?
+337 Y 1 5 B ASP 1 ?
+338 Y 1 5 B ALA 2 ?
+339 Y 1 5 B GLU 3 ?
+340 Y 1 5 B PHE 4 ?
+341 Y 1 5 B ARG 5 ?
+342 Y 1 5 B HIS 6 ?
+343 Y 1 5 B ASP 7 ?
+344 Y 1 5 B SER 8 ?
+345 Y 1 5 B GLY 9 ?
+346 Y 1 5 B TYR 10 ?
+347 Y 1 5 B GLU 11 ?
+348 Y 1 5 B VAL 12 ?
+349 Y 1 5 B HIS 13 ?
+350 Y 1 5 B HIS 14 ?
+351 Y 1 5 B GLN 15 ?
+352 Y 1 5 B LYS 16 ?
+353 Y 1 5 C ASP 1 ?
+354 Y 1 5 C ALA 2 ?
+355 Y 1 5 C GLU 3 ?
+356 Y 1 5 C PHE 4 ?
+357 Y 1 5 C ARG 5 ?
+358 Y 1 5 C HIS 6 ?
+359 Y 1 5 C ASP 7 ?
+360 Y 1 5 C SER 8 ?
+361 Y 1 5 C GLY 9 ?
+362 Y 1 5 C TYR 10 ?
+363 Y 1 5 C GLU 11 ?
+364 Y 1 5 C VAL 12 ?
+365 Y 1 5 C HIS 13 ?
+366 Y 1 5 C HIS 14 ?
+367 Y 1 5 C GLN 15 ?
+368 Y 1 5 C LYS 16 ?
+369 Y 1 5 D ASP 1 ?
+370 Y 1 5 D ALA 2 ?
+371 Y 1 5 D GLU 3 ?
+372 Y 1 5 D PHE 4 ?
+373 Y 1 5 D ARG 5 ?
+374 Y 1 5 D HIS 6 ?
+375 Y 1 5 D ASP 7 ?
+376 Y 1 5 D SER 8 ?
+377 Y 1 5 D GLY 9 ?
+378 Y 1 5 D TYR 10 ?
+379 Y 1 5 D GLU 11 ?
+380 Y 1 5 D VAL 12 ?
+381 Y 1 5 D HIS 13 ?
+382 Y 1 5 D HIS 14 ?
+383 Y 1 5 D GLN 15 ?
+384 Y 1 5 D LYS 16 ?
+385 Y 1 5 E ASP 1 ?
+386 Y 1 5 E ALA 2 ?
+387 Y 1 5 E GLU 3 ?
+388 Y 1 5 E PHE 4 ?
+389 Y 1 5 E ARG 5 ?
+390 Y 1 5 E HIS 6 ?
+391 Y 1 5 E ASP 7 ?
+392 Y 1 5 E SER 8 ?
+393 Y 1 5 E GLY 9 ?
+394 Y 1 5 E TYR 10 ?
+395 Y 1 5 E GLU 11 ?
+396 Y 1 5 E VAL 12 ?
+397 Y 1 5 E HIS 13 ?
+398 Y 1 5 E HIS 14 ?
+399 Y 1 5 E GLN 15 ?
+400 Y 1 5 E LYS 16 ?
+401 Y 1 6 A ASP 1 ?
+402 Y 1 6 A ALA 2 ?
+403 Y 1 6 A GLU 3 ?
+404 Y 1 6 A PHE 4 ?
+405 Y 1 6 A ARG 5 ?
+406 Y 1 6 A HIS 6 ?
+407 Y 1 6 A ASP 7 ?
+408 Y 1 6 A SER 8 ?
+409 Y 1 6 A GLY 9 ?
+410 Y 1 6 A TYR 10 ?
+411 Y 1 6 A GLU 11 ?
+412 Y 1 6 A VAL 12 ?
+413 Y 1 6 A HIS 13 ?
+414 Y 1 6 A HIS 14 ?
+415 Y 1 6 A GLN 15 ?
+416 Y 1 6 A LYS 16 ?
+417 Y 1 6 B ASP 1 ?
+418 Y 1 6 B ALA 2 ?
+419 Y 1 6 B GLU 3 ?
+420 Y 1 6 B PHE 4 ?
+421 Y 1 6 B ARG 5 ?
+422 Y 1 6 B HIS 6 ?
+423 Y 1 6 B ASP 7 ?
+424 Y 1 6 B SER 8 ?
+425 Y 1 6 B GLY 9 ?
+426 Y 1 6 B TYR 10 ?
+427 Y 1 6 B GLU 11 ?
+428 Y 1 6 B VAL 12 ?
+429 Y 1 6 B HIS 13 ?
+430 Y 1 6 B HIS 14 ?
+431 Y 1 6 B GLN 15 ?
+432 Y 1 6 B LYS 16 ?
+433 Y 1 6 C ASP 1 ?
+434 Y 1 6 C ALA 2 ?
+435 Y 1 6 C GLU 3 ?
+436 Y 1 6 C PHE 4 ?
+437 Y 1 6 C ARG 5 ?
+438 Y 1 6 C HIS 6 ?
+439 Y 1 6 C ASP 7 ?
+440 Y 1 6 C SER 8 ?
+441 Y 1 6 C GLY 9 ?
+442 Y 1 6 C TYR 10 ?
+443 Y 1 6 C GLU 11 ?
+444 Y 1 6 C VAL 12 ?
+445 Y 1 6 C HIS 13 ?
+446 Y 1 6 C HIS 14 ?
+447 Y 1 6 C GLN 15 ?
+448 Y 1 6 C LYS 16 ?
+449 Y 1 6 D ASP 1 ?
+450 Y 1 6 D ALA 2 ?
+451 Y 1 6 D GLU 3 ?
+452 Y 1 6 D PHE 4 ?
+453 Y 1 6 D ARG 5 ?
+454 Y 1 6 D HIS 6 ?
+455 Y 1 6 D ASP 7 ?
+456 Y 1 6 D SER 8 ?
+457 Y 1 6 D GLY 9 ?
+458 Y 1 6 D TYR 10 ?
+459 Y 1 6 D GLU 11 ?
+460 Y 1 6 D VAL 12 ?
+461 Y 1 6 D HIS 13 ?
+462 Y 1 6 D HIS 14 ?
+463 Y 1 6 D GLN 15 ?
+464 Y 1 6 D LYS 16 ?
+465 Y 1 6 E ASP 1 ?
+466 Y 1 6 E ALA 2 ?
+467 Y 1 6 E GLU 3 ?
+468 Y 1 6 E PHE 4 ?
+469 Y 1 6 E ARG 5 ?
+470 Y 1 6 E HIS 6 ?
+471 Y 1 6 E ASP 7 ?
+472 Y 1 6 E SER 8 ?
+473 Y 1 6 E GLY 9 ?
+474 Y 1 6 E TYR 10 ?
+475 Y 1 6 E GLU 11 ?
+476 Y 1 6 E VAL 12 ?
+477 Y 1 6 E HIS 13 ?
+478 Y 1 6 E HIS 14 ?
+479 Y 1 6 E GLN 15 ?
+480 Y 1 6 E LYS 16 ?
+481 Y 1 7 A ASP 1 ?
+482 Y 1 7 A ALA 2 ?
+483 Y 1 7 A GLU 3 ?
+484 Y 1 7 A PHE 4 ?
+485 Y 1 7 A ARG 5 ?
+486 Y 1 7 A HIS 6 ?
+487 Y 1 7 A ASP 7 ?
+488 Y 1 7 A SER 8 ?
+489 Y 1 7 A GLY 9 ?
+490 Y 1 7 A TYR 10 ?
+491 Y 1 7 A GLU 11 ?
+492 Y 1 7 A VAL 12 ?
+493 Y 1 7 A HIS 13 ?
+494 Y 1 7 A HIS 14 ?
+495 Y 1 7 A GLN 15 ?
+496 Y 1 7 A LYS 16 ?
+497 Y 1 7 B ASP 1 ?
+498 Y 1 7 B ALA 2 ?
+499 Y 1 7 B GLU 3 ?
+500 Y 1 7 B PHE 4 ?
+501 Y 1 7 B ARG 5 ?
+502 Y 1 7 B HIS 6 ?
+503 Y 1 7 B ASP 7 ?
+504 Y 1 7 B SER 8 ?
+505 Y 1 7 B GLY 9 ?
+506 Y 1 7 B TYR 10 ?
+507 Y 1 7 B GLU 11 ?
+508 Y 1 7 B VAL 12 ?
+509 Y 1 7 B HIS 13 ?
+510 Y 1 7 B HIS 14 ?
+511 Y 1 7 B GLN 15 ?
+512 Y 1 7 B LYS 16 ?
+513 Y 1 7 C ASP 1 ?
+514 Y 1 7 C ALA 2 ?
+515 Y 1 7 C GLU 3 ?
+516 Y 1 7 C PHE 4 ?
+517 Y 1 7 C ARG 5 ?
+518 Y 1 7 C HIS 6 ?
+519 Y 1 7 C ASP 7 ?
+520 Y 1 7 C SER 8 ?
+521 Y 1 7 C GLY 9 ?
+522 Y 1 7 C TYR 10 ?
+523 Y 1 7 C GLU 11 ?
+524 Y 1 7 C VAL 12 ?
+525 Y 1 7 C HIS 13 ?
+526 Y 1 7 C HIS 14 ?
+527 Y 1 7 C GLN 15 ?
+528 Y 1 7 C LYS 16 ?
+529 Y 1 7 D ASP 1 ?
+530 Y 1 7 D ALA 2 ?
+531 Y 1 7 D GLU 3 ?
+532 Y 1 7 D PHE 4 ?
+533 Y 1 7 D ARG 5 ?
+534 Y 1 7 D HIS 6 ?
+535 Y 1 7 D ASP 7 ?
+536 Y 1 7 D SER 8 ?
+537 Y 1 7 D GLY 9 ?
+538 Y 1 7 D TYR 10 ?
+539 Y 1 7 D GLU 11 ?
+540 Y 1 7 D VAL 12 ?
+541 Y 1 7 D HIS 13 ?
+542 Y 1 7 D HIS 14 ?
+543 Y 1 7 D GLN 15 ?
+544 Y 1 7 D LYS 16 ?
+545 Y 1 7 E ASP 1 ?
+546 Y 1 7 E ALA 2 ?
+547 Y 1 7 E GLU 3 ?
+548 Y 1 7 E PHE 4 ?
+549 Y 1 7 E ARG 5 ?
+550 Y 1 7 E HIS 6 ?
+551 Y 1 7 E ASP 7 ?
+552 Y 1 7 E SER 8 ?
+553 Y 1 7 E GLY 9 ?
+554 Y 1 7 E TYR 10 ?
+555 Y 1 7 E GLU 11 ?
+556 Y 1 7 E VAL 12 ?
+557 Y 1 7 E HIS 13 ?
+558 Y 1 7 E HIS 14 ?
+559 Y 1 7 E GLN 15 ?
+560 Y 1 7 E LYS 16 ?
+561 Y 1 8 A ASP 1 ?
+562 Y 1 8 A ALA 2 ?
+563 Y 1 8 A GLU 3 ?
+564 Y 1 8 A PHE 4 ?
+565 Y 1 8 A ARG 5 ?
+566 Y 1 8 A HIS 6 ?
+567 Y 1 8 A ASP 7 ?
+568 Y 1 8 A SER 8 ?
+569 Y 1 8 A GLY 9 ?
+570 Y 1 8 A TYR 10 ?
+571 Y 1 8 A GLU 11 ?
+572 Y 1 8 A VAL 12 ?
+573 Y 1 8 A HIS 13 ?
+574 Y 1 8 A HIS 14 ?
+575 Y 1 8 A GLN 15 ?
+576 Y 1 8 A LYS 16 ?
+577 Y 1 8 B ASP 1 ?
+578 Y 1 8 B ALA 2 ?
+579 Y 1 8 B GLU 3 ?
+580 Y 1 8 B PHE 4 ?
+581 Y 1 8 B ARG 5 ?
+582 Y 1 8 B HIS 6 ?
+583 Y 1 8 B ASP 7 ?
+584 Y 1 8 B SER 8 ?
+585 Y 1 8 B GLY 9 ?
+586 Y 1 8 B TYR 10 ?
+587 Y 1 8 B GLU 11 ?
+588 Y 1 8 B VAL 12 ?
+589 Y 1 8 B HIS 13 ?
+590 Y 1 8 B HIS 14 ?
+591 Y 1 8 B GLN 15 ?
+592 Y 1 8 B LYS 16 ?
+593 Y 1 8 C ASP 1 ?
+594 Y 1 8 C ALA 2 ?
+595 Y 1 8 C GLU 3 ?
+596 Y 1 8 C PHE 4 ?
+597 Y 1 8 C ARG 5 ?
+598 Y 1 8 C HIS 6 ?
+599 Y 1 8 C ASP 7 ?
+600 Y 1 8 C SER 8 ?
+601 Y 1 8 C GLY 9 ?
+602 Y 1 8 C TYR 10 ?
+603 Y 1 8 C GLU 11 ?
+604 Y 1 8 C VAL 12 ?
+605 Y 1 8 C HIS 13 ?
+606 Y 1 8 C HIS 14 ?
+607 Y 1 8 C GLN 15 ?
+608 Y 1 8 C LYS 16 ?
+609 Y 1 8 D ASP 1 ?
+610 Y 1 8 D ALA 2 ?
+611 Y 1 8 D GLU 3 ?
+612 Y 1 8 D PHE 4 ?
+613 Y 1 8 D ARG 5 ?
+614 Y 1 8 D HIS 6 ?
+615 Y 1 8 D ASP 7 ?
+616 Y 1 8 D SER 8 ?
+617 Y 1 8 D GLY 9 ?
+618 Y 1 8 D TYR 10 ?
+619 Y 1 8 D GLU 11 ?
+620 Y 1 8 D VAL 12 ?
+621 Y 1 8 D HIS 13 ?
+622 Y 1 8 D HIS 14 ?
+623 Y 1 8 D GLN 15 ?
+624 Y 1 8 D LYS 16 ?
+625 Y 1 8 E ASP 1 ?
+626 Y 1 8 E ALA 2 ?
+627 Y 1 8 E GLU 3 ?
+628 Y 1 8 E PHE 4 ?
+629 Y 1 8 E ARG 5 ?
+630 Y 1 8 E HIS 6 ?
+631 Y 1 8 E ASP 7 ?
+632 Y 1 8 E SER 8 ?
+633 Y 1 8 E GLY 9 ?
+634 Y 1 8 E TYR 10 ?
+635 Y 1 8 E GLU 11 ?
+636 Y 1 8 E VAL 12 ?
+637 Y 1 8 E HIS 13 ?
+638 Y 1 8 E HIS 14 ?
+639 Y 1 8 E GLN 15 ?
+640 Y 1 8 E LYS 16 ?
+641 Y 1 9 A ASP 1 ?
+642 Y 1 9 A ALA 2 ?
+643 Y 1 9 A GLU 3 ?
+644 Y 1 9 A PHE 4 ?
+645 Y 1 9 A ARG 5 ?
+646 Y 1 9 A HIS 6 ?
+647 Y 1 9 A ASP 7 ?
+648 Y 1 9 A SER 8 ?
+649 Y 1 9 A GLY 9 ?
+650 Y 1 9 A TYR 10 ?
+651 Y 1 9 A GLU 11 ?
+652 Y 1 9 A VAL 12 ?
+653 Y 1 9 A HIS 13 ?
+654 Y 1 9 A HIS 14 ?
+655 Y 1 9 A GLN 15 ?
+656 Y 1 9 A LYS 16 ?
+657 Y 1 9 B ASP 1 ?
+658 Y 1 9 B ALA 2 ?
+659 Y 1 9 B GLU 3 ?
+660 Y 1 9 B PHE 4 ?
+661 Y 1 9 B ARG 5 ?
+662 Y 1 9 B HIS 6 ?
+663 Y 1 9 B ASP 7 ?
+664 Y 1 9 B SER 8 ?
+665 Y 1 9 B GLY 9 ?
+666 Y 1 9 B TYR 10 ?
+667 Y 1 9 B GLU 11 ?
+668 Y 1 9 B VAL 12 ?
+669 Y 1 9 B HIS 13 ?
+670 Y 1 9 B HIS 14 ?
+671 Y 1 9 B GLN 15 ?
+672 Y 1 9 B LYS 16 ?
+673 Y 1 9 C ASP 1 ?
+674 Y 1 9 C ALA 2 ?
+675 Y 1 9 C GLU 3 ?
+676 Y 1 9 C PHE 4 ?
+677 Y 1 9 C ARG 5 ?
+678 Y 1 9 C HIS 6 ?
+679 Y 1 9 C ASP 7 ?
+680 Y 1 9 C SER 8 ?
+681 Y 1 9 C GLY 9 ?
+682 Y 1 9 C TYR 10 ?
+683 Y 1 9 C GLU 11 ?
+684 Y 1 9 C VAL 12 ?
+685 Y 1 9 C HIS 13 ?
+686 Y 1 9 C HIS 14 ?
+687 Y 1 9 C GLN 15 ?
+688 Y 1 9 C LYS 16 ?
+689 Y 1 9 D ASP 1 ?
+690 Y 1 9 D ALA 2 ?
+691 Y 1 9 D GLU 3 ?
+692 Y 1 9 D PHE 4 ?
+693 Y 1 9 D ARG 5 ?
+694 Y 1 9 D HIS 6 ?
+695 Y 1 9 D ASP 7 ?
+696 Y 1 9 D SER 8 ?
+697 Y 1 9 D GLY 9 ?
+698 Y 1 9 D TYR 10 ?
+699 Y 1 9 D GLU 11 ?
+700 Y 1 9 D VAL 12 ?
+701 Y 1 9 D HIS 13 ?
+702 Y 1 9 D HIS 14 ?
+703 Y 1 9 D GLN 15 ?
+704 Y 1 9 D LYS 16 ?
+705 Y 1 9 E ASP 1 ?
+706 Y 1 9 E ALA 2 ?
+707 Y 1 9 E GLU 3 ?
+708 Y 1 9 E PHE 4 ?
+709 Y 1 9 E ARG 5 ?
+710 Y 1 9 E HIS 6 ?
+711 Y 1 9 E ASP 7 ?
+712 Y 1 9 E SER 8 ?
+713 Y 1 9 E GLY 9 ?
+714 Y 1 9 E TYR 10 ?
+715 Y 1 9 E GLU 11 ?
+716 Y 1 9 E VAL 12 ?
+717 Y 1 9 E HIS 13 ?
+718 Y 1 9 E HIS 14 ?
+719 Y 1 9 E GLN 15 ?
+720 Y 1 9 E LYS 16 ?
+721 Y 1 10 A ASP 1 ?
+722 Y 1 10 A ALA 2 ?
+723 Y 1 10 A GLU 3 ?
+724 Y 1 10 A PHE 4 ?
+725 Y 1 10 A ARG 5 ?
+726 Y 1 10 A HIS 6 ?
+727 Y 1 10 A ASP 7 ?
+728 Y 1 10 A SER 8 ?
+729 Y 1 10 A GLY 9 ?
+730 Y 1 10 A TYR 10 ?
+731 Y 1 10 A GLU 11 ?
+732 Y 1 10 A VAL 12 ?
+733 Y 1 10 A HIS 13 ?
+734 Y 1 10 A HIS 14 ?
+735 Y 1 10 A GLN 15 ?
+736 Y 1 10 A LYS 16 ?
+737 Y 1 10 B ASP 1 ?
+738 Y 1 10 B ALA 2 ?
+739 Y 1 10 B GLU 3 ?
+740 Y 1 10 B PHE 4 ?
+741 Y 1 10 B ARG 5 ?
+742 Y 1 10 B HIS 6 ?
+743 Y 1 10 B ASP 7 ?
+744 Y 1 10 B SER 8 ?
+745 Y 1 10 B GLY 9 ?
+746 Y 1 10 B TYR 10 ?
+747 Y 1 10 B GLU 11 ?
+748 Y 1 10 B VAL 12 ?
+749 Y 1 10 B HIS 13 ?
+750 Y 1 10 B HIS 14 ?
+751 Y 1 10 B GLN 15 ?
+752 Y 1 10 B LYS 16 ?
+753 Y 1 10 C ASP 1 ?
+754 Y 1 10 C ALA 2 ?
+755 Y 1 10 C GLU 3 ?
+756 Y 1 10 C PHE 4 ?
+757 Y 1 10 C ARG 5 ?
+758 Y 1 10 C HIS 6 ?
+759 Y 1 10 C ASP 7 ?
+760 Y 1 10 C SER 8 ?
+761 Y 1 10 C GLY 9 ?
+762 Y 1 10 C TYR 10 ?
+763 Y 1 10 C GLU 11 ?
+764 Y 1 10 C VAL 12 ?
+765 Y 1 10 C HIS 13 ?
+766 Y 1 10 C HIS 14 ?
+767 Y 1 10 C GLN 15 ?
+768 Y 1 10 C LYS 16 ?
+769 Y 1 10 D ASP 1 ?
+770 Y 1 10 D ALA 2 ?
+771 Y 1 10 D GLU 3 ?
+772 Y 1 10 D PHE 4 ?
+773 Y 1 10 D ARG 5 ?
+774 Y 1 10 D HIS 6 ?
+775 Y 1 10 D ASP 7 ?
+776 Y 1 10 D SER 8 ?
+777 Y 1 10 D GLY 9 ?
+778 Y 1 10 D TYR 10 ?
+779 Y 1 10 D GLU 11 ?
+780 Y 1 10 D VAL 12 ?
+781 Y 1 10 D HIS 13 ?
+782 Y 1 10 D HIS 14 ?
+783 Y 1 10 D GLN 15 ?
+784 Y 1 10 D LYS 16 ?
+785 Y 1 10 E ASP 1 ?
+786 Y 1 10 E ALA 2 ?
+787 Y 1 10 E GLU 3 ?
+788 Y 1 10 E PHE 4 ?
+789 Y 1 10 E ARG 5 ?
+790 Y 1 10 E HIS 6 ?
+791 Y 1 10 E ASP 7 ?
+792 Y 1 10 E SER 8 ?
+793 Y 1 10 E GLY 9 ?
+794 Y 1 10 E TYR 10 ?
+795 Y 1 10 E GLU 11 ?
+796 Y 1 10 E VAL 12 ?
+797 Y 1 10 E HIS 13 ?
+798 Y 1 10 E HIS 14 ?
+799 Y 1 10 E GLN 15 ?
+800 Y 1 10 E LYS 16 ?
+#
+loop_
+_pdbx_validate_close_contact.id
+_pdbx_validate_close_contact.PDB_model_num
+_pdbx_validate_close_contact.auth_atom_id_1
+_pdbx_validate_close_contact.auth_asym_id_1
+_pdbx_validate_close_contact.auth_comp_id_1
+_pdbx_validate_close_contact.auth_seq_id_1
+_pdbx_validate_close_contact.PDB_ins_code_1
+_pdbx_validate_close_contact.label_alt_id_1
+_pdbx_validate_close_contact.auth_atom_id_2
+_pdbx_validate_close_contact.auth_asym_id_2
+_pdbx_validate_close_contact.auth_comp_id_2
+_pdbx_validate_close_contact.auth_seq_id_2
+_pdbx_validate_close_contact.PDB_ins_code_2
+_pdbx_validate_close_contact.label_alt_id_2
+_pdbx_validate_close_contact.dist
+1 1 O A GLY 37 ? ? H B GLY 38 ? ? 1.55
+2 1 H C PHE 20 ? ? O D PHE 19 ? ? 1.56
+3 1 O B MET 35 ? ? H C VAL 36 ? ? 1.56
+4 1 H B VAL 39 ? ? O C GLY 38 ? ? 1.56
+5 1 H A VAL 39 ? ? O B GLY 38 ? ? 1.57
+6 1 O C GLY 33 ? ? H D LEU 34 ? ? 1.58
+7 1 H A PHE 20 ? ? O B PHE 19 ? ? 1.58
+8 1 H B GLY 37 ? ? O C VAL 36 ? ? 1.58
+9 2 H B PHE 20 ? ? O C PHE 19 ? ? 1.50
+10 2 O D SER 26 ? ? H E ASN 27 ? ? 1.51
+11 2 O C PHE 20 ? ? H D ALA 21 ? ? 1.57
+12 2 H D VAL 24 ? ? O E ASP 23 ? ? 1.58
+13 3 H C PHE 20 ? ? O D PHE 19 ? ? 1.52
+14 3 O C PHE 20 ? ? H D ALA 21 ? ? 1.54
+15 3 O A GLY 37 ? ? H B GLY 38 ? ? 1.54
+16 3 O B VAL 24 ? ? H C GLY 25 ? ? 1.57
+17 3 H B VAL 18 ? ? O C LEU 17 ? ? 1.57
+18 3 H D PHE 20 ? ? O E PHE 19 ? ? 1.59
+19 4 O C ILE 31 ? ? H D ILE 32 ? ? 1.56
+20 4 O D GLY 33 ? ? H E LEU 34 ? ? 1.56
+21 5 O D VAL 24 ? ? H E GLY 25 ? ? 1.52
+22 5 O C VAL 24 ? ? H D GLY 25 ? ? 1.55
+23 5 H A ILE 41 ? ? O B VAL 40 ? ? 1.55
+24 5 O A VAL 18 ? ? H B PHE 19 ? ? 1.56
+25 5 O D PHE 20 ? ? H E ALA 21 ? ? 1.57
+26 5 H D GLU 22 ? ? O E ALA 21 ? ? 1.57
+27 5 H A PHE 20 ? ? O B PHE 19 ? ? 1.58
+28 5 H C PHE 20 ? ? O D PHE 19 ? ? 1.58
+29 5 O B VAL 24 ? ? H C GLY 25 ? ? 1.59
+30 6 O B GLY 33 ? ? H C LEU 34 ? ? 1.53
+31 6 O A PHE 20 ? ? H B ALA 21 ? ? 1.54
+32 6 H A PHE 20 ? ? O B PHE 19 ? ? 1.57
+33 6 H A GLY 37 ? ? O B VAL 36 ? ? 1.57
+34 6 H B VAL 18 ? ? O C LEU 17 ? ? 1.58
+35 6 O D PHE 20 ? ? H E ALA 21 ? ? 1.58
+36 6 H D PHE 20 ? ? O E PHE 19 ? ? 1.58
+37 7 H D VAL 24 ? ? O E ASP 23 ? ? 1.54
+38 7 O D ILE 31 ? ? H E ILE 32 ? ? 1.56
+39 7 H C GLY 33 ? ? O D ILE 32 ? ? 1.56
+40 7 H C PHE 20 ? ? O D PHE 19 ? ? 1.57
+41 7 O A GLY 33 ? ? H B LEU 34 ? ? 1.59
+42 7 OD1 B ASP 23 ? ? HZ2 C LYS 28 ? ? 1.59
+43 7 O A VAL 24 ? ? H B GLY 25 ? ? 1.59
+44 7 O D ILE 41 ? ? H E ALA 42 ? ? 1.60
+45 8 O B VAL 18 ? ? H C PHE 19 ? ? 1.50
+46 8 H D PHE 20 ? ? O E PHE 19 ? ? 1.53
+47 8 H B ILE 41 ? ? O C VAL 40 ? ? 1.53
+48 8 H A VAL 39 ? ? O B GLY 38 ? ? 1.53
+49 8 O C ILE 31 ? ? H D ILE 32 ? ? 1.55
+50 8 H D VAL 24 ? ? O E ASP 23 ? ? 1.57
+51 8 O C VAL 18 ? ? H D PHE 19 ? ? 1.57
+52 8 H B VAL 18 ? ? O C LEU 17 ? ? 1.57
+53 8 H D GLU 22 ? ? O E ALA 21 ? ? 1.57
+54 9 O C ILE 31 ? ? H D ILE 32 ? ? 1.42
+55 9 O B GLY 37 ? ? H C GLY 38 ? ? 1.51
+56 9 H B PHE 20 ? ? O C PHE 19 ? ? 1.52
+57 9 H B GLU 22 ? ? O C ALA 21 ? ? 1.55
+58 9 O A VAL 24 ? ? H B GLY 25 ? ? 1.56
+59 9 H A VAL 39 ? ? O B GLY 38 ? ? 1.57
+60 9 H D ILE 31 ? ? O E ALA 30 ? ? 1.58
+61 9 O D ILE 31 ? ? H E ILE 32 ? ? 1.58
+62 9 H C ILE 41 ? ? O D VAL 40 ? ? 1.58
+63 9 O D VAL 39 ? ? H E VAL 40 ? ? 1.59
+64 9 O C VAL 18 ? ? H D PHE 19 ? ? 1.60
+65 9 H D ILE 41 ? ? O E VAL 40 ? ? 1.60
+66 10 H A ILE 41 ? ? O B VAL 40 ? ? 1.54
+67 10 O C GLY 37 ? ? H D GLY 38 ? ? 1.55
+68 10 H C GLY 33 ? ? O D ILE 32 ? ? 1.55
+69 10 H D VAL 24 ? ? O E ASP 23 ? ? 1.56
+70 10 O A VAL 18 ? ? H B PHE 19 ? ? 1.57
+#
+loop_
+_pdbx_validate_torsion.id
+_pdbx_validate_torsion.PDB_model_num
+_pdbx_validate_torsion.auth_comp_id
+_pdbx_validate_torsion.auth_asym_id
+_pdbx_validate_torsion.auth_seq_id
+_pdbx_validate_torsion.PDB_ins_code
+_pdbx_validate_torsion.phi
+_pdbx_validate_torsion.psi
+1 1 PHE A 20 ? -108.45 77.20
+2 1 ASN A 27 ? 63.24 163.87
+3 1 LYS A 28 ? 60.35 113.36
+4 1 ALA A 30 ? 42.61 -146.79
+5 1 ASN B 27 ? 62.91 69.32
+6 1 LYS B 28 ? -73.15 -95.92
+7 1 ALA B 30 ? 64.86 -144.14
+8 1 ASN C 27 ? 80.03 67.98
+9 1 LYS C 28 ? -64.81 -101.00
+10 1 ALA C 30 ? 58.05 -142.63
+11 1 ASN D 27 ? 78.39 76.62
+12 1 LYS D 28 ? -67.25 -92.64
+13 1 ALA D 30 ? 44.62 -144.64
+14 1 ASN E 27 ? 72.23 78.08
+15 1 LYS E 28 ? -72.19 -81.19
+16 1 ALA E 30 ? 47.17 -148.87
+17 2 ASN A 27 ? 81.13 102.79
+18 2 ASN B 27 ? 82.28 51.92
+19 2 LYS B 28 ? -50.34 171.76
+20 2 ASN C 27 ? 84.20 90.54
+21 2 ALA C 30 ? 165.22 -109.30
+22 2 ASN D 27 ? 76.64 43.33
+23 2 ALA D 30 ? -158.49 -157.82
+24 2 ASN E 27 ? 80.80 -52.95
+25 2 LYS E 28 ? 39.81 88.29
+26 2 ALA E 30 ? -130.87 -138.47
+27 3 ASN A 27 ? 71.32 76.95
+28 3 ALA A 30 ? 71.04 -152.38
+29 3 ASN B 27 ? 80.20 92.63
+30 3 ALA B 30 ? 63.11 -122.01
+31 3 ASN C 27 ? 82.83 70.44
+32 3 ALA C 30 ? 67.82 -94.29
+33 3 ASN D 27 ? 82.68 63.35
+34 3 ALA D 30 ? 171.25 -158.58
+35 3 ASN E 27 ? 81.64 53.27
+36 3 ALA E 30 ? 59.50 -95.81
+37 4 ASN A 27 ? 72.11 -171.31
+38 4 LYS A 28 ? 58.38 165.64
+39 4 ASN B 27 ? 66.93 94.86
+40 4 LYS B 28 ? -50.23 -178.19
+41 4 ALA B 30 ? -62.51 -84.89
+42 4 ASN C 27 ? 53.59 89.49
+43 4 LYS C 28 ? -43.69 167.63
+44 4 ALA C 30 ? -48.18 -75.24
+45 4 ASN D 27 ? 77.78 84.77
+46 4 ALA D 30 ? 36.44 -143.07
+47 4 ASN E 27 ? 70.46 86.00
+48 4 ALA E 30 ? 51.06 -155.84
+49 5 ASN A 27 ? 78.82 45.96
+50 5 ALA A 30 ? 83.54 -158.42
+51 5 ALA B 30 ? 177.72 -179.12
+52 5 ASN C 27 ? 73.91 69.55
+53 5 ALA C 30 ? 68.40 -124.08
+54 5 ASN D 27 ? 76.61 89.79
+55 5 ALA D 30 ? 56.97 -122.75
+56 5 ASN E 27 ? 64.32 79.88
+57 5 ALA E 30 ? 57.19 -156.48
+58 6 ASN A 27 ? 69.51 76.10
+59 6 ALA A 30 ? 69.24 -168.07
+60 6 ASN B 27 ? 78.48 108.14
+61 6 ALA B 30 ? 62.79 -101.57
+62 6 ASN C 27 ? 73.50 62.05
+63 6 ALA C 30 ? 61.36 -139.48
+64 6 ASN D 27 ? 76.32 36.97
+65 6 ALA D 30 ? 52.52 -141.75
+66 6 ASN E 27 ? 87.32 -42.11
+67 6 LYS E 28 ? 26.57 60.39
+68 6 ALA E 30 ? 54.38 -140.95
+69 7 ASN A 27 ? 53.89 80.32
+70 7 ALA A 30 ? 65.46 -165.46
+71 7 ALA B 30 ? 58.43 -157.59
+72 7 ASN C 27 ? 59.89 70.90
+73 7 ALA C 30 ? 63.23 -129.72
+74 7 ASN D 27 ? 84.23 44.49
+75 7 ALA D 30 ? 61.95 -112.79
+76 7 ASN E 27 ? 153.26 45.65
+77 7 ALA E 30 ? 62.29 -147.35
+78 7 ILE E 32 ? -110.55 77.16
+79 7 VAL E 36 ? -162.87 86.00
+80 8 ASN A 27 ? 84.39 99.44
+81 8 ALA A 30 ? 63.32 -98.46
+82 8 ASN B 27 ? 75.98 105.34
+83 8 LYS B 28 ? -117.11 -164.84
+84 8 ALA B 30 ? 59.12 -95.87
+85 8 ALA C 30 ? 58.49 -147.07
+86 8 ASN D 27 ? 65.24 71.33
+87 8 ALA D 30 ? 54.37 -101.22
+88 8 ASN E 27 ? 66.58 79.20
+89 8 LYS E 28 ? -102.29 52.93
+90 8 ALA E 30 ? -147.01 -145.12
+91 9 ASN A 27 ? 74.46 123.55
+92 9 LYS A 28 ? -168.39 -163.76
+93 9 ALA A 30 ? 53.65 -149.70
+94 9 ASN B 27 ? 82.90 95.41
+95 9 ALA B 30 ? 61.26 -143.56
+96 9 ASN C 27 ? 73.47 51.73
+97 9 ALA C 30 ? 63.69 -127.05
+98 9 ASN D 27 ? 78.58 72.95
+99 9 ALA D 30 ? 63.17 -107.06
+100 9 LEU D 34 ? -117.75 79.51
+101 9 ASN E 27 ? 53.60 87.03
+102 9 ALA E 30 ? 53.83 -149.52
+103 10 ASN A 27 ? 73.83 114.00
+104 10 ALA A 30 ? 57.48 -101.02
+105 10 ASN B 27 ? 76.99 55.49
+106 10 ALA B 30 ? 63.95 -101.46
+107 10 ASN C 27 ? 72.70 73.72
+108 10 ALA C 30 ? 55.40 -137.48
+109 10 ASN D 27 ? 71.46 86.57
+110 10 ALA D 30 ? 58.09 -100.04
+111 10 ASN E 27 ? 65.38 77.38
+112 10 ALA E 30 ? 50.70 -145.42
+#
+_pdbx_struct_assembly.id 1
+_pdbx_struct_assembly.details author_defined_assembly
+_pdbx_struct_assembly.method_details ?
+_pdbx_struct_assembly.oligomeric_details pentameric
+_pdbx_struct_assembly.oligomeric_count 5
+#
+_pdbx_struct_assembly_gen.assembly_id 1
+_pdbx_struct_assembly_gen.oper_expression 1
+_pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E
+#
+_pdbx_struct_oper_list.id 1
+_pdbx_struct_oper_list.type 'identity operation'
+_pdbx_struct_oper_list.name 1_555
+_pdbx_struct_oper_list.symmetry_operation x,y,z
+_pdbx_struct_oper_list.matrix[1][1] 1.0000000000
+_pdbx_struct_oper_list.matrix[1][2] 0.0000000000
+_pdbx_struct_oper_list.matrix[1][3] 0.0000000000
+_pdbx_struct_oper_list.vector[1] 0.0000000000
+_pdbx_struct_oper_list.matrix[2][1] 0.0000000000
+_pdbx_struct_oper_list.matrix[2][2] 1.0000000000
+_pdbx_struct_oper_list.matrix[2][3] 0.0000000000
+_pdbx_struct_oper_list.vector[2] 0.0000000000
+_pdbx_struct_oper_list.matrix[3][1] 0.0000000000
+_pdbx_struct_oper_list.matrix[3][2] 0.0000000000
+_pdbx_struct_oper_list.matrix[3][3] 1.0000000000
+_pdbx_struct_oper_list.vector[3] 0.0000000000
+#
diff --git a/Tests/PDB/3JQH.cif b/Tests/PDB/3JQH.cif
new file mode 100644
index 0000000..686cbe1
--- /dev/null
+++ b/Tests/PDB/3JQH.cif
@@ -0,0 +1,1507 @@
+data_3JQH
+#
+_entry.id 3JQH
+#
+_audit_conform.dict_name mmcif_pdbx.dic
+_audit_conform.dict_version 4.007
+_audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
+#
+loop_
+_database_2.database_id
+_database_2.database_code
+PDB 3JQH
+RCSB RCSB055030
+#
+loop_
+_database_PDB_rev.num
+_database_PDB_rev.date
+_database_PDB_rev.date_original
+_database_PDB_rev.status
+_database_PDB_rev.replaces
+_database_PDB_rev.mod_type
+1 2009-11-10 2009-09-06 ? 3JQH 0
+2 2009-12-08 ? ? 3JQH 1
+#
+_database_PDB_rev_record.rev_num 2
+_database_PDB_rev_record.type JRNL
+_database_PDB_rev_record.details ?
+#
+_pdbx_database_status.status_code REL
+_pdbx_database_status.entry_id 3JQH
+_pdbx_database_status.deposit_site RCSB
+_pdbx_database_status.process_site RCSB
+_pdbx_database_status.status_code_sf REL
+_pdbx_database_status.status_code_mr ?
+_pdbx_database_status.SG_entry ?
+#
+loop_
+_audit_author.name
+_audit_author.pdbx_ordinal
+'Feinberg, H.' 1
+'Tso, C.K.W.' 2
+'Taylor, M.E.' 3
+'Drickamer, K.' 4
+'Weis, W.I.' 5
+#
+_citation.id primary
+_citation.title 'Segmented helical structure of the neck region of the glycan-binding receptor DC-SIGNR.'
+_citation.journal_abbrev J.Mol.Biol.
+_citation.journal_volume 394
+_citation.page_first 613
+_citation.page_last 620
+_citation.year 2009
+_citation.journal_id_ASTM JMOBAK
+_citation.country UK
+_citation.journal_id_ISSN 0022-2836
+_citation.journal_id_CSD 0070
+_citation.book_publisher ?
+_citation.pdbx_database_id_PubMed 19835887
+_citation.pdbx_database_id_DOI 10.1016/j.jmb.2009.10.006
+#
+loop_
+_citation_author.citation_id
+_citation_author.name
+_citation_author.ordinal
+primary 'Feinberg, H.' 1
+primary 'Tso, C.K.' 2
+primary 'Taylor, M.E.' 3
+primary 'Drickamer, K.' 4
+primary 'Weis, W.I.' 5
+#
+_cell.entry_id 3JQH
+_cell.length_a 34.17
+_cell.length_b 34.17
+_cell.length_c 36.72
+_cell.angle_alpha 90.00
+_cell.angle_beta 90.00
+_cell.angle_gamma 90.00
+_cell.Z_PDB 8
+_cell.pdbx_unique_axis ?
+_cell.length_a_esd ?
+_cell.length_b_esd ?
+_cell.length_c_esd ?
+_cell.angle_alpha_esd ?
+_cell.angle_beta_esd ?
+_cell.angle_gamma_esd ?
+#
+_symmetry.entry_id 3JQH
+_symmetry.space_group_name_H-M 'P 4 21 2'
+_symmetry.pdbx_full_space_group_name_H-M ?
+_symmetry.cell_setting ?
+_symmetry.Int_Tables_number ?
+_symmetry.space_group_name_Hall ?
+#
+loop_
+_entity.id
+_entity.type
+_entity.src_method
+_entity.pdbx_description
+_entity.formula_weight
+_entity.pdbx_number_of_molecules
+_entity.details
+_entity.pdbx_mutation
+_entity.pdbx_fragment
+_entity.pdbx_ec
+1 polymer man 'C-type lectin domain family 4 member M' 19139.066 1 ? ? 'UNP residues 101-264, neck domain' ?
+2 water nat water 18.015 21 ? ? ? ?
+#
+loop_
+_entity_keywords.entity_id
+_entity_keywords.text
+1 ?
+2 ?
+#
+loop_
+_entity_name_com.entity_id
+_entity_name_com.name
+1
+;CD209 antigen-like protein 1, Dendritic cell-specific ICAM-3-grabbing non-integrin 2, DC-SIGN2, DC-SIGN-related protein, DC-SIGNR, Liver/lymph node-specific ICAM-3-grabbing non-integrin, L-SIGN
+;
+2 ?
+#
+_entity_poly.entity_id 1
+_entity_poly.type 'polypeptide(L)'
+_entity_poly.nstd_linkage no
+_entity_poly.nstd_monomer no
+_entity_poly.pdbx_seq_one_letter_code
+;GELPEKSKLQEIYQELTRLKAAVGELPEKSKLQEIYQELTRLKAAVGELPEKSKLQEIYQELTRLKAAVGELPEKSKLQE
+IYQELTRLKAAVGELPEKSKLQEIYQELTELKAAVGELPEKSKLQEIYQELTQLKAAVGELPDQSKQQQIYQELTDLKTA
+FERLGHH
+;
+_entity_poly.pdbx_seq_one_letter_code_can
+;GELPEKSKLQEIYQELTRLKAAVGELPEKSKLQEIYQELTRLKAAVGELPEKSKLQEIYQELTRLKAAVGELPEKSKLQE
+IYQELTRLKAAVGELPEKSKLQEIYQELTELKAAVGELPEKSKLQEIYQELTQLKAAVGELPDQSKQQQIYQELTDLKTA
+FERLGHH
+;
+_entity_poly.pdbx_strand_id A
+#
+loop_
+_entity_poly_seq.entity_id
+_entity_poly_seq.num
+_entity_poly_seq.mon_id
+_entity_poly_seq.hetero
+1 1 GLY n
+1 2 GLU n
+1 3 LEU n
+1 4 PRO y
+1 4 SER y
+1 5 GLU n
+1 6 LYS n
+1 7 SER n
+1 8 LYS n
+1 9 LEU n
+1 10 GLN n
+1 11 GLU n
+1 12 ILE n
+1 13 TYR n
+1 14 GLN n
+1 15 GLU n
+1 16 LEU n
+1 17 THR n
+1 18 ARG y
+1 18 GLN y
+1 18 GLU y
+1 19 LEU n
+1 20 LYS n
+1 21 ALA n
+1 22 ALA n
+1 23 VAL n
+1 24 GLY n
+1 25 GLU n
+1 26 LEU n
+1 27 PRO n
+1 28 GLU n
+1 29 LYS n
+1 30 SER n
+1 31 LYS n
+1 32 LEU n
+1 33 GLN n
+1 34 GLU n
+1 35 ILE n
+1 36 TYR n
+1 37 GLN n
+1 38 GLU n
+1 39 LEU n
+1 40 THR n
+1 41 ARG n
+1 42 LEU n
+1 43 LYS n
+1 44 ALA n
+1 45 ALA n
+1 46 VAL n
+1 47 GLY n
+1 48 GLU n
+1 49 LEU n
+1 50 PRO n
+1 51 GLU n
+1 52 LYS n
+1 53 SER n
+1 54 LYS n
+1 55 LEU n
+1 56 GLN n
+1 57 GLU n
+1 58 ILE n
+1 59 TYR n
+1 60 GLN n
+1 61 GLU n
+1 62 LEU n
+1 63 THR n
+1 64 ARG n
+1 65 LEU n
+1 66 LYS n
+1 67 ALA n
+1 68 ALA n
+1 69 VAL n
+1 70 GLY n
+1 71 GLU n
+1 72 LEU n
+1 73 PRO n
+1 74 GLU n
+1 75 LYS n
+1 76 SER n
+1 77 LYS n
+1 78 LEU n
+1 79 GLN n
+1 80 GLU n
+1 81 ILE n
+1 82 TYR n
+1 83 GLN n
+1 84 GLU n
+1 85 LEU n
+1 86 THR n
+1 87 ARG n
+1 88 LEU n
+1 89 LYS n
+1 90 ALA n
+1 91 ALA n
+1 92 VAL n
+1 93 GLY n
+1 94 GLU n
+1 95 LEU n
+1 96 PRO n
+1 97 GLU n
+1 98 LYS n
+1 99 SER n
+1 100 LYS n
+1 101 LEU n
+1 102 GLN n
+1 103 GLU n
+1 104 ILE n
+1 105 TYR n
+1 106 GLN n
+1 107 GLU n
+1 108 LEU n
+1 109 THR n
+1 110 GLU n
+1 111 LEU n
+1 112 LYS n
+1 113 ALA n
+1 114 ALA n
+1 115 VAL n
+1 116 GLY n
+1 117 GLU n
+1 118 LEU n
+1 119 PRO n
+1 120 GLU n
+1 121 LYS n
+1 122 SER n
+1 123 LYS n
+1 124 LEU n
+1 125 GLN n
+1 126 GLU n
+1 127 ILE n
+1 128 TYR n
+1 129 GLN n
+1 130 GLU n
+1 131 LEU n
+1 132 THR n
+1 133 GLN n
+1 134 LEU n
+1 135 LYS n
+1 136 ALA n
+1 137 ALA n
+1 138 VAL n
+1 139 GLY n
+1 140 GLU n
+1 141 LEU n
+1 142 PRO n
+1 143 ASP n
+1 144 GLN n
+1 145 SER n
+1 146 LYS n
+1 147 GLN n
+1 148 GLN n
+1 149 GLN n
+1 150 ILE n
+1 151 TYR n
+1 152 GLN n
+1 153 GLU n
+1 154 LEU n
+1 155 THR n
+1 156 ASP n
+1 157 LEU n
+1 158 LYS n
+1 159 THR n
+1 160 ALA n
+1 161 PHE n
+1 162 GLU n
+1 163 ARG n
+1 164 LEU n
+1 165 GLY n
+1 166 HIS n
+1 167 HIS n
+#
+_entity_src_gen.entity_id 1
+_entity_src_gen.gene_src_common_name human
+_entity_src_gen.gene_src_genus ?
+_entity_src_gen.pdbx_gene_src_gene 'CLEC4M, CD209L, CD209L1, CD299'
+_entity_src_gen.gene_src_species ?
+_entity_src_gen.gene_src_strain ?
+_entity_src_gen.gene_src_tissue ?
+_entity_src_gen.gene_src_tissue_fraction ?
+_entity_src_gen.gene_src_details ?
+_entity_src_gen.pdbx_gene_src_fragment ?
+_entity_src_gen.pdbx_gene_src_scientific_name 'Homo sapiens'
+_entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606
+_entity_src_gen.pdbx_gene_src_variant ?
+_entity_src_gen.pdbx_gene_src_cell_line ?
+_entity_src_gen.pdbx_gene_src_atcc ?
+_entity_src_gen.pdbx_gene_src_organ ?
+_entity_src_gen.pdbx_gene_src_organelle ?
+_entity_src_gen.pdbx_gene_src_cell ?
+_entity_src_gen.pdbx_gene_src_cellular_location ?
+_entity_src_gen.host_org_common_name ?
+_entity_src_gen.pdbx_host_org_scientific_name 'Escherichia coli'
+_entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 562
+_entity_src_gen.host_org_genus ?
+_entity_src_gen.pdbx_host_org_gene ?
+_entity_src_gen.pdbx_host_org_organ ?
+_entity_src_gen.host_org_species ?
+_entity_src_gen.pdbx_host_org_tissue ?
+_entity_src_gen.pdbx_host_org_tissue_fraction ?
+_entity_src_gen.pdbx_host_org_strain BL21/DE3
+_entity_src_gen.pdbx_host_org_variant ?
+_entity_src_gen.pdbx_host_org_cell_line ?
+_entity_src_gen.pdbx_host_org_atcc ?
+_entity_src_gen.pdbx_host_org_culture_collection ?
+_entity_src_gen.pdbx_host_org_cell ?
+_entity_src_gen.pdbx_host_org_organelle ?
+_entity_src_gen.pdbx_host_org_cellular_location ?
+_entity_src_gen.pdbx_host_org_vector_type plasmid
+_entity_src_gen.pdbx_host_org_vector ?
+_entity_src_gen.plasmid_name pT5T
+_entity_src_gen.plasmid_details ?
+_entity_src_gen.pdbx_description ?
+#
+_struct_ref.id 1
+_struct_ref.db_name UNP
+_struct_ref.db_code CLC4M_HUMAN
+_struct_ref.pdbx_db_accession Q9H2X3
+_struct_ref.entity_id 1
+_struct_ref.pdbx_seq_one_letter_code
+;GELSEKSKLQEIYQELTQLKAAVGELPEKSKLQEIYQELTRLKAAVGELPEKSKLQEIY
+QELTRLKAAVGELPEKSKLQEIYQELTRLKAAVGELPEKSKLQEIYQELTELKAAVGELP
+EKSKLQEIYQELTQLKAAVGELPDQSKQQQIYQELTDLKTAFERL
+;
+_struct_ref.pdbx_align_begin 101
+_struct_ref.biol_id .
+#
+_struct_ref_seq.align_id 1
+_struct_ref_seq.ref_id 1
+_struct_ref_seq.pdbx_PDB_id_code 3JQH
+_struct_ref_seq.pdbx_strand_id A
+_struct_ref_seq.seq_align_beg 1
+_struct_ref_seq.pdbx_seq_align_beg_ins_code ?
+_struct_ref_seq.seq_align_end 164
+_struct_ref_seq.pdbx_seq_align_end_ins_code ?
+_struct_ref_seq.pdbx_db_accession Q9H2X3
+_struct_ref_seq.db_align_beg 101
+_struct_ref_seq.db_align_end 264
+_struct_ref_seq.pdbx_auth_seq_align_beg -2
+_struct_ref_seq.pdbx_auth_seq_align_end 161
+#
+loop_
+_struct_ref_seq_dif.align_id
+_struct_ref_seq_dif.pdbx_pdb_id_code
+_struct_ref_seq_dif.mon_id
+_struct_ref_seq_dif.pdbx_pdb_strand_id
+_struct_ref_seq_dif.seq_num
+_struct_ref_seq_dif.pdbx_pdb_ins_code
+_struct_ref_seq_dif.pdbx_seq_db_name
+_struct_ref_seq_dif.pdbx_seq_db_accession_code
+_struct_ref_seq_dif.db_mon_id
+_struct_ref_seq_dif.pdbx_seq_db_seq_num
+_struct_ref_seq_dif.details
+_struct_ref_seq_dif.pdbx_auth_seq_num
+_struct_ref_seq_dif.pdbx_ordinal
+1 3JQH GLY A 165 ? UNP Q9H2X3 ? ? INSERTION 162 1
+1 3JQH HIS A 166 ? UNP Q9H2X3 ? ? INSERTION 163 2
+1 3JQH HIS A 167 ? UNP Q9H2X3 ? ? INSERTION 164 3
+#
+loop_
+_chem_comp.id
+_chem_comp.type
+_chem_comp.mon_nstd_flag
+_chem_comp.name
+_chem_comp.pdbx_synonyms
+_chem_comp.formula
+_chem_comp.formula_weight
+PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.132
+SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093
+GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.130
+LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.197
+LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.174
+GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.146
+ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.174
+TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.191
+THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.120
+ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.210
+ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.094
+VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.147
+GLY 'PEPTIDE LINKING' y GLYCINE ? 'C2 H5 N O2' 75.067
+HOH NON-POLYMER . WATER ? 'H2 O' 18.015
+ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.104
+PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.191
+HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.164
+#
+_exptl.entry_id 3JQH
+_exptl.method 'X-RAY DIFFRACTION'
+_exptl.crystals_number 1
+#
+_exptl_crystal.id 1
+_exptl_crystal.density_meas ?
+_exptl_crystal.density_Matthews ?
+_exptl_crystal.density_percent_sol ?
+_exptl_crystal.description ?
+_exptl_crystal.F_000 ?
+_exptl_crystal.preparation ?
+#
+_exptl_crystal_grow.crystal_id 1
+_exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP'
+_exptl_crystal_grow.temp 291
+_exptl_crystal_grow.temp_details ?
+_exptl_crystal_grow.pH 6.5
+_exptl_crystal_grow.pdbx_details
+;Protein solution: 2.8 mg/ml protein, 10 mM Tris-Cl, pH 8.0, and 25 mM NaCl.
+Reservoir solution: 9% polyethylene glycol 6000, 1.25 M NaCl and 0.1 Bis-Tris, pH 6.5., VAPOR DIFFUSION, HANGING DROP, temperature 291K
+;
+_exptl_crystal_grow.pdbx_pH_range ?
+#
+_diffrn.id 1
+_diffrn.ambient_temp 100
+_diffrn.ambient_temp_details ?
+_diffrn.crystal_id 1
+#
+_diffrn_detector.diffrn_id 1
+_diffrn_detector.detector CCD
+_diffrn_detector.type 'MARMOSAIC 325 mm CCD'
+_diffrn_detector.pdbx_collection_date 2009-02-04
+_diffrn_detector.details ?
+#
+_diffrn_radiation.diffrn_id 1
+_diffrn_radiation.wavelength_id 1
+_diffrn_radiation.pdbx_monochromatic_or_laue_m_l M
+_diffrn_radiation.monochromator ?
+_diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH'
+_diffrn_radiation.pdbx_scattering_type x-ray
+#
+_diffrn_radiation_wavelength.id 1
+_diffrn_radiation_wavelength.wavelength 0.97945
+_diffrn_radiation_wavelength.wt 1.0
+#
+_diffrn_source.diffrn_id 1
+_diffrn_source.source SYNCHROTRON
+_diffrn_source.type 'SSRL BEAMLINE BL11-1'
+_diffrn_source.pdbx_synchrotron_site SSRL
+_diffrn_source.pdbx_synchrotron_beamline BL11-1
+_diffrn_source.pdbx_wavelength ?
+_diffrn_source.pdbx_wavelength_list 0.97945
+#
+_reflns.entry_id 3JQH
+_reflns.observed_criterion_sigma_I ?
+_reflns.observed_criterion_sigma_F ?
+_reflns.d_resolution_low 36.719
+_reflns.d_resolution_high 2.20
+_reflns.number_obs 1283
+_reflns.number_all ?
+_reflns.percent_possible_obs 99.9
+_reflns.pdbx_Rmerge_I_obs 0.061
+_reflns.pdbx_Rsym_value ?
+_reflns.pdbx_netI_over_sigmaI ?
+_reflns.B_iso_Wilson_estimate ?
+_reflns.pdbx_redundancy 14.7
+_reflns.R_free_details ?
+_reflns.limit_h_max ?
+_reflns.limit_h_min ?
+_reflns.limit_k_max ?
+_reflns.limit_k_min ?
+_reflns.limit_l_max ?
+_reflns.limit_l_min ?
+_reflns.observed_criterion_F_max ?
+_reflns.observed_criterion_F_min ?
+_reflns.pdbx_chi_squared ?
+_reflns.pdbx_scaling_rejects ?
+_reflns.pdbx_ordinal 1
+_reflns.pdbx_diffrn_id 1
+#
+_reflns_shell.d_res_high 2.2
+_reflns_shell.d_res_low 2.32
+_reflns_shell.percent_possible_all 100
+_reflns_shell.Rmerge_I_obs 0.126
+_reflns_shell.pdbx_Rsym_value ?
+_reflns_shell.meanI_over_sigI_obs ?
+_reflns_shell.pdbx_redundancy ?
+_reflns_shell.percent_possible_obs ?
+_reflns_shell.number_unique_all ?
+_reflns_shell.number_measured_all ?
+_reflns_shell.number_measured_obs ?
+_reflns_shell.number_unique_obs ?
+_reflns_shell.pdbx_chi_squared ?
+_reflns_shell.pdbx_ordinal 1
+_reflns_shell.pdbx_diffrn_id 1
+#
+_computing.entry_id 3JQH
+_computing.pdbx_data_reduction_ii MOSFLM
+_computing.pdbx_data_reduction_ds SCALA
+_computing.data_collection 'blue ice'
+_computing.structure_solution 'PHENIX and CNS'
+_computing.structure_refinement 'PHENIX (phenix.refine)'
+_computing.pdbx_structure_refinement_method ?
+#
+_refine.entry_id 3JQH
+_refine.ls_number_reflns_obs 1272
+_refine.ls_number_reflns_all ?
+_refine.pdbx_ls_sigma_I ?
+_refine.pdbx_ls_sigma_F 0
+_refine.pdbx_data_cutoff_high_absF ?
+_refine.pdbx_data_cutoff_low_absF ?
+_refine.pdbx_data_cutoff_high_rms_absF ?
+_refine.ls_d_res_low 36.719
+_refine.ls_d_res_high 2.201
+_refine.ls_percent_reflns_obs 99.45
+_refine.ls_R_factor_obs 0.1950
+_refine.ls_R_factor_all ?
+_refine.ls_R_factor_R_work 0.1936
+_refine.ls_R_factor_R_free 0.2164
+_refine.ls_R_factor_R_free_error ?
+_refine.ls_R_factor_R_free_error_details ?
+_refine.ls_percent_reflns_R_free 5.03
+_refine.ls_number_reflns_R_free 64
+_refine.ls_number_parameters ?
+_refine.ls_number_restraints ?
+_refine.occupancy_min ?
+_refine.occupancy_max ?
+_refine.correlation_coeff_Fo_to_Fc ?
+_refine.correlation_coeff_Fo_to_Fc_free ?
+_refine.B_iso_mean ?
+_refine.aniso_B[1][1] ?
+_refine.aniso_B[2][2] ?
+_refine.aniso_B[3][3] ?
+_refine.aniso_B[1][2] ?
+_refine.aniso_B[1][3] ?
+_refine.aniso_B[2][3] ?
+_refine.solvent_model_details 'FLAT BULK SOLVENT MODEL'
+_refine.solvent_model_param_ksol 0.385
+_refine.solvent_model_param_bsol 124.697
+_refine.pdbx_solvent_vdw_probe_radii 1.11
+_refine.pdbx_solvent_ion_probe_radii ?
+_refine.pdbx_solvent_shrinkage_radii 0.90
+_refine.pdbx_ls_cross_valid_method ?
+_refine.details ?
+_refine.pdbx_starting_model ?
+_refine.pdbx_method_to_determine_struct MAD
+_refine.pdbx_isotropic_thermal_model ?
+_refine.pdbx_stereochemistry_target_values ML
+_refine.pdbx_stereochem_target_val_spec_case ?
+_refine.pdbx_R_Free_selection_details ?
+_refine.pdbx_overall_ESU_R ?
+_refine.pdbx_overall_ESU_R_Free ?
+_refine.overall_SU_ML 0.53
+_refine.overall_SU_B ?
+_refine.ls_redundancy_reflns_obs ?
+_refine.B_iso_min ?
+_refine.B_iso_max ?
+_refine.overall_SU_R_Cruickshank_DPI ?
+_refine.overall_SU_R_free ?
+_refine.ls_wR_factor_R_free ?
+_refine.ls_wR_factor_R_work ?
+_refine.overall_FOM_free_R_set ?
+_refine.overall_FOM_work_R_set ?
+_refine.pdbx_overall_phase_error ?
+_refine.pdbx_refine_id 'X-RAY DIFFRACTION'
+_refine.pdbx_diffrn_id 1
+#
+_refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION'
+_refine_hist.cycle_id LAST
+_refine_hist.pdbx_number_atoms_protein 209
+_refine_hist.pdbx_number_atoms_nucleic_acid 0
+_refine_hist.pdbx_number_atoms_ligand 0
+_refine_hist.number_atoms_solvent 21
+_refine_hist.number_atoms_total 230
+_refine_hist.d_res_high 2.201
+_refine_hist.d_res_low 36.719
+#
+loop_
+_refine_ls_restr.type
+_refine_ls_restr.dev_ideal
+_refine_ls_restr.dev_ideal_target
+_refine_ls_restr.weight
+_refine_ls_restr.number
+_refine_ls_restr.pdbx_refine_id
+f_bond_d 0.007 ? ? 223 'X-RAY DIFFRACTION'
+f_angle_d 0.957 ? ? 298 'X-RAY DIFFRACTION'
+f_dihedral_angle_d 14.391 ? ? 94 'X-RAY DIFFRACTION'
+f_chiral_restr 0.042 ? ? 33 'X-RAY DIFFRACTION'
+f_plane_restr 0.003 ? ? 39 'X-RAY DIFFRACTION'
+#
+_refine_ls_shell.pdbx_total_number_of_bins_used ?
+_refine_ls_shell.d_res_high 2.201
+_refine_ls_shell.d_res_low 2.32
+_refine_ls_shell.number_reflns_R_work 1208
+_refine_ls_shell.R_factor_R_work ?
+_refine_ls_shell.percent_reflns_obs ?
+_refine_ls_shell.R_factor_R_free ?
+_refine_ls_shell.R_factor_R_free_error ?
+_refine_ls_shell.percent_reflns_R_free ?
+_refine_ls_shell.number_reflns_R_free ?
+_refine_ls_shell.number_reflns_all ?
+_refine_ls_shell.R_factor_all ?
+_refine_ls_shell.number_reflns_obs ?
+_refine_ls_shell.redundancy_reflns_obs ?
+_refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION'
+#
+_struct.entry_id 3JQH
+_struct.title 'Structure of the neck region of the glycan-binding receptor DC-SIGNR'
+_struct.pdbx_descriptor 'C-type lectin domain family 4 member M'
+_struct.pdbx_model_details ?
+_struct.pdbx_CASP_flag ?
+_struct.pdbx_model_type_details ?
+#
+_struct_keywords.entry_id 3JQH
+_struct_keywords.pdbx_keywords 'SUGAR BINDING PROTEIN'
+_struct_keywords.text
+;DC-SIGNR, four-helix bundle, oligomerization domain, Cell membrane, Disulfide bond, Endocytosis, Glycoprotein, Host-virus interaction, Immune response, Lectin, Mannose-binding, Membrane, Metal-binding, Receptor, Secreted, Signal-anchor, Transmembrane, SUGAR BINDING PROTEIN
+;
+#
+loop_
+_struct_asym.id
+_struct_asym.pdbx_blank_PDB_chainid_flag
+_struct_asym.pdbx_modified
+_struct_asym.entity_id
+_struct_asym.details
+A N N 1 ?
+B N N 2 ?
+#
+_struct_biol.id 1
+_struct_biol.details
+;The biological assembly is a four helix bundle, extending 7 repeats along c axis. Symmetry operations for 6 repeats are shown while last repeat is disordered.
+;
+#
+_struct_conf.conf_type_id HELX_P
+_struct_conf.id HELX_P1
+_struct_conf.pdbx_PDB_helix_id 1
+_struct_conf.beg_label_comp_id GLU
+_struct_conf.beg_label_asym_id A
+_struct_conf.beg_label_seq_id 5
+_struct_conf.pdbx_beg_PDB_ins_code ?
+_struct_conf.end_label_comp_id GLY
+_struct_conf.end_label_asym_id A
+_struct_conf.end_label_seq_id 24
+_struct_conf.pdbx_end_PDB_ins_code ?
+_struct_conf.beg_auth_comp_id GLU
+_struct_conf.beg_auth_asym_id A
+_struct_conf.beg_auth_seq_id 2
+_struct_conf.end_auth_comp_id GLY
+_struct_conf.end_auth_asym_id A
+_struct_conf.end_auth_seq_id 21
+_struct_conf.pdbx_PDB_helix_class 1
+_struct_conf.details ?
+_struct_conf.pdbx_PDB_helix_length 20
+#
+_struct_conf_type.id HELX_P
+_struct_conf_type.criteria ?
+_struct_conf_type.reference ?
+#
+_database_PDB_matrix.entry_id 3JQH
+_database_PDB_matrix.origx[1][1] 1.000000
+_database_PDB_matrix.origx[1][2] 0.000000
+_database_PDB_matrix.origx[1][3] 0.000000
+_database_PDB_matrix.origx[2][1] 0.000000
+_database_PDB_matrix.origx[2][2] 1.000000
+_database_PDB_matrix.origx[2][3] 0.000000
+_database_PDB_matrix.origx[3][1] 0.000000
+_database_PDB_matrix.origx[3][2] 0.000000
+_database_PDB_matrix.origx[3][3] 1.000000
+_database_PDB_matrix.origx_vector[1] 0.00000
+_database_PDB_matrix.origx_vector[2] 0.00000
+_database_PDB_matrix.origx_vector[3] 0.00000
+#
+_atom_sites.entry_id 3JQH
+_atom_sites.Cartn_transform_axes ?
+_atom_sites.fract_transf_matrix[1][1] 0.029267
+_atom_sites.fract_transf_matrix[1][2] 0.000000
+_atom_sites.fract_transf_matrix[1][3] 0.000000
+_atom_sites.fract_transf_matrix[2][1] 0.000000
+_atom_sites.fract_transf_matrix[2][2] 0.029267
+_atom_sites.fract_transf_matrix[2][3] 0.000000
+_atom_sites.fract_transf_matrix[3][1] 0.000000
+_atom_sites.fract_transf_matrix[3][2] 0.000000
+_atom_sites.fract_transf_matrix[3][3] 0.027234
+_atom_sites.fract_transf_vector[1] 0.00000
+_atom_sites.fract_transf_vector[2] 0.00000
+_atom_sites.fract_transf_vector[3] 0.00000
+#
+loop_
+_atom_type.symbol
+N
+C
+O
+#
+loop_
+_atom_site.group_PDB
+_atom_site.id
+_atom_site.type_symbol
+_atom_site.label_atom_id
+_atom_site.label_alt_id
+_atom_site.label_comp_id
+_atom_site.label_asym_id
+_atom_site.label_entity_id
+_atom_site.label_seq_id
+_atom_site.pdbx_PDB_ins_code
+_atom_site.Cartn_x
+_atom_site.Cartn_y
+_atom_site.Cartn_z
+_atom_site.occupancy
+_atom_site.B_iso_or_equiv
+_atom_site.Cartn_x_esd
+_atom_site.Cartn_y_esd
+_atom_site.Cartn_z_esd
+_atom_site.occupancy_esd
+_atom_site.B_iso_or_equiv_esd
+_atom_site.pdbx_formal_charge
+_atom_site.auth_seq_id
+_atom_site.auth_comp_id
+_atom_site.auth_asym_id
+_atom_site.auth_atom_id
+_atom_site.pdbx_PDB_model_num
+ATOM 1 N N A PRO A 1 4 ? 3.278 21.202 20.087 0.83 56.23 ? ? ? ? ? ? 1 PRO A N 1
+ATOM 2 C CA A PRO A 1 4 ? 3.746 20.507 21.289 0.83 65.19 ? ? ? ? ? ? 1 PRO A CA 1
+ATOM 3 C C A PRO A 1 4 ? 4.699 19.352 20.954 0.83 68.81 ? ? ? ? ? ? 1 PRO A C 1
+ATOM 4 O O A PRO A 1 4 ? 4.356 18.523 20.105 0.83 62.06 ? ? ? ? ? ? 1 PRO A O 1
+ATOM 5 C CB A PRO A 1 4 ? 2.447 19.968 21.886 0.83 60.62 ? ? ? ? ? ? 1 PRO A CB 1
+ATOM 6 C CG A PRO A 1 4 ? 1.419 20.950 21.455 0.83 52.80 ? ? ? ? ? ? 1 PRO A CG 1
+ATOM 7 C CD A PRO A 1 4 ? 1.815 21.380 20.088 0.83 51.84 ? ? ? ? ? ? 1 PRO A CD 1
+ATOM 8 N N B SER A 1 4 ? 3.302 21.148 20.087 0.17 56.57 ? ? ? ? ? ? 1 SER A N 1
+ATOM 9 C CA B SER A 1 4 ? 3.772 20.496 21.302 0.17 64.89 ? ? ? ? ? ? 1 SER A CA 1
+ATOM 10 C C B SER A 1 4 ? 4.693 19.323 20.978 0.17 68.25 ? ? ? ? ? ? 1 SER A C 1
+ATOM 11 O O B SER A 1 4 ? 4.352 18.458 20.170 0.17 62.08 ? ? ? ? ? ? 1 SER A O 1
+ATOM 12 C CB B SER A 1 4 ? 2.583 20.022 22.135 0.17 60.79 ? ? ? ? ? ? 1 SER A CB 1
+ATOM 13 O OG B SER A 1 4 ? 1.653 21.073 22.323 0.17 58.19 ? ? ? ? ? ? 1 SER A OG 1
+ATOM 14 N N . GLU A 1 5 ? 5.863 19.303 21.612 1.00 64.84 ? ? ? ? ? ? 2 GLU A N 1
+ATOM 15 C CA . GLU A 1 5 ? 6.861 18.244 21.377 1.00 60.65 ? ? ? ? ? ? 2 GLU A CA 1
+ATOM 16 C C . GLU A 1 5 ? 6.977 17.223 22.503 1.00 61.35 ? ? ? ? ? ? 2 GLU A C 1
+ATOM 17 O O . GLU A 1 5 ? 6.607 17.489 23.657 1.00 61.06 ? ? ? ? ? ? 2 GLU A O 1
+ATOM 18 C CB . GLU A 1 5 ? 8.246 18.840 21.124 1.00 65.78 ? ? ? ? ? ? 2 GLU A CB 1
+ATOM 19 C CG . GLU A 1 5 ? 8.317 19.750 19.918 1.00 87.19 ? ? ? ? ? ? 2 GLU A CG 1
+ATOM 20 C CD . GLU A 1 5 ? 9.585 20.581 19.894 1.00 97.22 ? ? ? ? ? ? 2 GLU A CD 1
+ATOM 21 O OE1 . GLU A 1 5 ? 10.406 20.436 20.826 1.00 106.51 ? ? ? ? ? ? 2 GLU A OE1 1
+ATOM 22 O OE2 . GLU A 1 5 ? 9.756 21.381 18.947 1.00 121.60 ? ? ? ? ? ? 2 GLU A OE2 1
+ATOM 23 N N . LYS A 1 6 ? 7.510 16.054 22.150 1.00 60.70 ? ? ? ? ? ? 3 LYS A N 1
+ATOM 24 C CA A LYS A 1 6 ? 7.680 14.952 23.094 0.50 60.74 ? ? ? ? ? ? 3 LYS A CA 1
+ATOM 25 C CA B LYS A 1 6 ? 7.674 14.952 23.095 0.50 60.74 ? ? ? ? ? ? 3 LYS A CA 1
+ATOM 26 C C . LYS A 1 6 ? 8.383 15.368 24.391 1.00 66.77 ? ? ? ? ? ? 3 LYS A C 1
+ATOM 27 O O . LYS A 1 6 ? 7.975 14.975 25.493 1.00 59.94 ? ? ? ? ? ? 3 LYS A O 1
+ATOM 28 C CB A LYS A 1 6 ? 8.460 13.807 22.435 0.50 58.21 ? ? ? ? ? ? 3 LYS A CB 1
+ATOM 29 C CB B LYS A 1 6 ? 8.440 13.800 22.434 0.50 58.22 ? ? ? ? ? ? 3 LYS A CB 1
+ATOM 30 C CG A LYS A 1 6 ? 7.594 12.729 21.806 0.50 60.30 ? ? ? ? ? ? 3 LYS A CG 1
+ATOM 31 C CG B LYS A 1 6 ? 7.602 12.930 21.510 0.50 60.56 ? ? ? ? ? ? 3 LYS A CG 1
+ATOM 32 C CD A LYS A 1 6 ? 8.403 11.460 21.582 0.50 56.61 ? ? ? ? ? ? 3 LYS A CD 1
+ATOM 33 C CD B LYS A 1 6 ? 8.400 11.726 21.036 0.50 57.10 ? ? ? ? ? ? 3 LYS A CD 1
+ATOM 34 C CE A LYS A 1 6 ? 7.514 10.241 21.575 0.50 50.44 ? ? ? ? ? ? 3 LYS A CE 1
+ATOM 35 C CE B LYS A 1 6 ? 7.503 10.670 20.433 0.50 54.84 ? ? ? ? ? ? 3 LYS A CE 1
+ATOM 36 N NZ A LYS A 1 6 ? 8.308 8.989 21.730 0.50 63.46 ? ? ? ? ? ? 3 LYS A NZ 1
+ATOM 37 N NZ B LYS A 1 6 ? 8.293 9.541 19.864 0.50 65.48 ? ? ? ? ? ? 3 LYS A NZ 1
+ATOM 38 N N . SER A 1 7 ? 9.454 16.151 24.262 1.00 58.50 ? ? ? ? ? ? 4 SER A N 1
+ATOM 39 C CA . SER A 1 7 ? 10.239 16.545 25.423 1.00 62.03 ? ? ? ? ? ? 4 SER A CA 1
+ATOM 40 C C . SER A 1 7 ? 9.422 17.346 26.443 1.00 66.48 ? ? ? ? ? ? 4 SER A C 1
+ATOM 41 O O . SER A 1 7 ? 9.797 17.434 27.611 1.00 61.61 ? ? ? ? ? ? 4 SER A O 1
+ATOM 42 C CB . SER A 1 7 ? 11.447 17.350 24.976 1.00 62.28 ? ? ? ? ? ? 4 SER A CB 1
+ATOM 43 O OG . SER A 1 7 ? 11.031 18.436 24.170 1.00 72.21 ? ? ? ? ? ? 4 SER A OG 1
+ATOM 44 N N . LYS A 1 8 ? 8.304 17.922 26.011 1.00 64.85 ? ? ? ? ? ? 5 LYS A N 1
+ATOM 45 C CA . LYS A 1 8 ? 7.491 18.722 26.918 1.00 60.28 ? ? ? ? ? ? 5 LYS A CA 1
+ATOM 46 C C . LYS A 1 8 ? 6.706 17.819 27.841 1.00 62.52 ? ? ? ? ? ? 5 LYS A C 1
+ATOM 47 O O . LYS A 1 8 ? 6.696 18.022 29.055 1.00 59.76 ? ? ? ? ? ? 5 LYS A O 1
+ATOM 48 C CB . LYS A 1 8 ? 6.524 19.624 26.155 1.00 66.85 ? ? ? ? ? ? 5 LYS A CB 1
+ATOM 49 C CG . LYS A 1 8 ? 5.839 20.641 27.052 1.00 57.88 ? ? ? ? ? ? 5 LYS A CG 1
+ATOM 50 C CD . LYS A 1 8 ? 6.895 21.530 27.687 1.00 65.85 ? ? ? ? ? ? 5 LYS A CD 1
+ATOM 51 C CE . LYS A 1 8 ? 6.341 22.346 28.833 1.00 73.18 ? ? ? ? ? ? 5 LYS A CE 1
+ATOM 52 N NZ . LYS A 1 8 ? 7.212 23.539 29.081 1.00 89.21 ? ? ? ? ? ? 5 LYS A NZ 1
+ATOM 53 N N . LEU A 1 9 ? 6.044 16.820 27.265 1.00 63.55 ? ? ? ? ? ? 6 LEU A N 1
+ATOM 54 C CA . LEU A 1 9 ? 5.269 15.878 28.065 1.00 56.73 ? ? ? ? ? ? 6 LEU A CA 1
+ATOM 55 C C . LEU A 1 9 ? 6.155 15.072 29.023 1.00 64.90 ? ? ? ? ? ? 6 LEU A C 1
+ATOM 56 O O . LEU A 1 9 ? 5.717 14.691 30.113 1.00 65.09 ? ? ? ? ? ? 6 LEU A O 1
+ATOM 57 C CB . LEU A 1 9 ? 4.481 14.938 27.163 1.00 57.89 ? ? ? ? ? ? 6 LEU A CB 1
+ATOM 58 C CG . LEU A 1 9 ? 3.361 15.552 26.339 1.00 58.03 ? ? ? ? ? ? 6 LEU A CG 1
+ATOM 59 C CD1 . LEU A 1 9 ? 2.528 14.425 25.765 1.00 72.92 ? ? ? ? ? ? 6 LEU A CD1 1
+ATOM 60 C CD2 . LEU A 1 9 ? 2.507 16.438 27.216 1.00 75.05 ? ? ? ? ? ? 6 LEU A CD2 1
+ATOM 61 N N . GLN A 1 10 ? 7.396 14.807 28.616 1.00 59.62 ? ? ? ? ? ? 7 GLN A N 1
+ATOM 62 C CA . GLN A 1 10 ? 8.355 14.129 29.493 1.00 66.51 ? ? ? ? ? ? 7 GLN A CA 1
+ATOM 63 C C . GLN A 1 10 ? 8.671 14.978 30.729 1.00 63.77 ? ? ? ? ? ? 7 GLN A C 1
+ATOM 64 O O . GLN A 1 10 ? 8.736 14.491 31.865 1.00 58.81 ? ? ? ? ? ? 7 GLN A O 1
+ATOM 65 C CB . GLN A 1 10 ? 9.647 13.819 28.725 1.00 51.17 ? ? ? ? ? ? 7 GLN A CB 1
+ATOM 66 C CG . GLN A 1 10 ? 9.458 12.833 27.596 1.00 68.40 ? ? ? ? ? ? 7 GLN A CG 1
+ATOM 67 C CD . GLN A 1 10 ? 10.639 12.794 26.631 1.00 77.52 ? ? ? ? ? ? 7 GLN A CD 1
+ATOM 68 O OE1 . GLN A 1 10 ? 11.661 13.459 26.844 1.00 70.37 ? ? ? ? ? ? 7 GLN A OE1 1
+ATOM 69 N NE2 . GLN A 1 10 ? 10.499 12.011 25.559 1.00 62.05 ? ? ? ? ? ? 7 GLN A NE2 1
+ATOM 70 N N . GLU A 1 11 ? 8.886 16.261 30.493 1.00 58.42 ? ? ? ? ? ? 8 GLU A N 1
+ATOM 71 C CA . GLU A 1 11 ? 9.212 17.187 31.562 1.00 57.38 ? ? ? ? ? ? 8 GLU A CA 1
+ATOM 72 C C . GLU A 1 11 ? 8.007 17.317 32.501 1.00 55.25 ? ? ? ? ? ? 8 GLU A C 1
+ATOM 73 O O . GLU A 1 11 ? 8.153 17.402 33.725 1.00 58.19 ? ? ? ? ? ? 8 GLU A O 1
+ATOM 74 C CB . GLU A 1 11 ? 9.633 18.518 30.932 1.00 62.99 ? ? ? ? ? ? 8 GLU A CB 1
+ATOM 75 C CG . GLU A 1 11 ? 9.529 19.770 31.774 1.00 81.81 ? ? ? ? ? ? 8 GLU A CG 1
+ATOM 76 C CD . GLU A 1 11 ? 9.732 21.026 30.914 1.00 108.77 ? ? ? ? ? ? 8 GLU A CD 1
+ATOM 77 O OE1 . GLU A 1 11 ? 9.263 22.124 31.297 1.00 85.23 ? ? ? ? ? ? 8 GLU A OE1 1
+ATOM 78 O OE2 . GLU A 1 11 ? 10.353 20.903 29.833 1.00 112.66 ? ? ? ? ? ? 8 GLU A OE2 1
+ATOM 79 N N . ILE A 1 12 ? 6.810 17.307 31.932 1.00 59.80 ? ? ? ? ? ? 9 ILE A N 1
+ATOM 80 C CA . ILE A 1 12 ? 5.596 17.284 32.746 1.00 60.58 ? ? ? ? ? ? 9 ILE A CA 1
+ATOM 81 C C . ILE A 1 12 ? 5.525 15.985 33.560 1.00 64.36 ? ? ? ? ? ? 9 ILE A C 1
+ATOM 82 O O . ILE A 1 12 ? 5.309 16.013 34.780 1.00 54.72 ? ? ? ? ? ? 9 ILE A O 1
+ATOM 83 C CB . ILE A 1 12 ? 4.330 17.468 31.874 1.00 62.26 ? ? ? ? ? ? 9 ILE A CB 1
+ATOM 84 C CG1 . ILE A 1 12 ? 4.177 18.937 31.477 1.00 54.97 ? ? ? ? ? ? 9 ILE A CG1 1
+ATOM 85 C CG2 . ILE A 1 12 ? 3.069 16.981 32.603 1.00 54.11 ? ? ? ? ? ? 9 ILE A CG2 1
+ATOM 86 C CD1 . ILE A 1 12 ? 3.114 19.182 30.410 1.00 54.18 ? ? ? ? ? ? 9 ILE A CD1 1
+ATOM 87 N N . TYR A 1 13 ? 5.735 14.850 32.895 1.00 58.94 ? ? ? ? ? ? 10 TYR A N 1
+ATOM 88 C CA . TYR A 1 13 ? 5.707 13.561 33.589 1.00 57.24 ? ? ? ? ? ? 10 TYR A CA 1
+ATOM 89 C C . TYR A 1 13 ? 6.734 13.490 34.722 1.00 61.06 ? ? ? ? ? ? 10 TYR A C 1
+ATOM 90 O O . TYR A 1 13 ? 6.451 12.963 35.803 1.00 64.42 ? ? ? ? ? ? 10 TYR A O 1
+ATOM 91 C CB . TYR A 1 13 ? 5.924 12.393 32.619 1.00 67.91 ? ? ? ? ? ? 10 TYR A CB 1
+ATOM 92 C CG . TYR A 1 13 ? 5.791 11.039 33.294 1.00 67.90 ? ? ? ? ? ? 10 TYR A CG 1
+ATOM 93 C CD1 . TYR A 1 13 ? 4.535 10.527 33.632 1.00 70.77 ? ? ? ? ? ? 10 TYR A CD1 1
+ATOM 94 C CD2 . TYR A 1 13 ? 6.914 10.283 33.614 1.00 67.14 ? ? ? ? ? ? 10 TYR A CD2 1
+ATOM 95 C CE1 . TYR A 1 13 ? 4.402 9.298 34.258 1.00 64.84 ? ? ? ? ? ? 10 TYR A CE1 1
+ATOM 96 C CE2 . TYR A 1 13 ? 6.794 9.044 34.239 1.00 74.27 ? ? ? ? ? ? 10 TYR A CE2 1
+ATOM 97 C CZ . TYR A 1 13 ? 5.536 8.559 34.560 1.00 80.43 ? ? ? ? ? ? 10 TYR A CZ 1
+ATOM 98 O OH . TYR A 1 13 ? 5.411 7.335 35.183 1.00 66.46 ? ? ? ? ? ? 10 TYR A OH 1
+ATOM 99 N N . GLN A 1 14 ? 7.919 14.032 34.466 1.00 59.91 ? ? ? ? ? ? 11 GLN A N 1
+ATOM 100 C CA . GLN A 1 14 ? 9.021 14.034 35.425 1.00 65.49 ? ? ? ? ? ? 11 GLN A CA 1
+ATOM 101 C C . GLN A 1 14 ? 8.733 14.890 36.679 1.00 61.85 ? ? ? ? ? ? 11 GLN A C 1
+ATOM 102 O O . GLN A 1 14 ? 9.086 14.502 37.796 1.00 66.63 ? ? ? ? ? ? 11 GLN A O 1
+ATOM 103 C CB . GLN A 1 14 ? 10.296 14.505 34.721 1.00 67.68 ? ? ? ? ? ? 11 GLN A CB 1
+ATOM 104 C CG . GLN A 1 14 ? 11.593 14.132 35.411 1.00 88.73 ? ? ? ? ? ? 11 GLN A CG 1
+ATOM 105 C CD . GLN A 1 14 ? 12.086 12.754 35.015 1.00 99.86 ? ? ? ? ? ? 11 GLN A CD 1
+ATOM 106 O OE1 A GLN A 1 14 ? 13.248 12.402 35.255 0.50 81.77 ? ? ? ? ? ? 11 GLN A OE1 1
+ATOM 107 O OE1 B GLN A 1 14 ? 11.355 11.977 34.395 0.50 81.33 ? ? ? ? ? ? 11 GLN A OE1 1
+ATOM 108 N NE2 A GLN A 1 14 ? 11.204 11.964 34.406 0.50 80.96 ? ? ? ? ? ? 11 GLN A NE2 1
+ATOM 109 N NE2 B GLN A 1 14 ? 13.334 12.445 35.368 0.50 81.47 ? ? ? ? ? ? 11 GLN A NE2 1
+ATOM 110 N N . GLU A 1 15 ? 8.097 16.046 36.487 1.00 61.08 ? ? ? ? ? ? 12 GLU A N 1
+ATOM 111 C CA . GLU A 1 15 ? 7.590 16.866 37.590 1.00 57.59 ? ? ? ? ? ? 12 GLU A CA 1
+ATOM 112 C C . GLU A 1 15 ? 6.576 16.122 38.456 1.00 53.70 ? ? ? ? ? ? 12 GLU A C 1
+ATOM 113 O O . GLU A 1 15 ? 6.633 16.181 39.682 1.00 61.85 ? ? ? ? ? ? 12 GLU A O 1
+ATOM 114 C CB . GLU A 1 15 ? 6.926 18.140 37.056 1.00 57.39 ? ? ? ? ? ? 12 GLU A CB 1
+ATOM 115 C CG . GLU A 1 15 ? 7.893 19.252 36.728 1.00 74.48 ? ? ? ? ? ? 12 GLU A CG 1
+ATOM 116 C CD . GLU A 1 15 ? 8.612 19.771 37.959 1.00 86.02 ? ? ? ? ? ? 12 GLU A CD 1
+ATOM 117 O OE1 . GLU A 1 15 ? 7.936 20.038 38.979 1.00 97.61 ? ? ? ? ? ? 12 GLU A OE1 1
+ATOM 118 O OE2 . GLU A 1 15 ? 9.854 19.909 37.905 1.00 98.30 ? ? ? ? ? ? 12 GLU A OE2 1
+ATOM 119 N N . LEU A 1 16 ? 5.621 15.456 37.818 1.00 57.19 ? ? ? ? ? ? 13 LEU A N 1
+ATOM 120 C CA . LEU A 1 16 ? 4.625 14.671 38.547 1.00 58.22 ? ? ? ? ? ? 13 LEU A CA 1
+ATOM 121 C C . LEU A 1 16 ? 5.288 13.646 39.449 1.00 59.01 ? ? ? ? ? ? 13 LEU A C 1
+ATOM 122 O O . LEU A 1 16 ? 4.913 13.490 40.610 1.00 67.98 ? ? ? ? ? ? 13 LEU A O 1
+ATOM 123 C CB . LEU A 1 16 ? 3.735 13.923 37.571 1.00 63.62 ? ? ? ? ? ? 13 LEU A CB 1
+ATOM 124 C CG . LEU A 1 16 ? 2.364 14.482 37.274 1.00 71.05 ? ? ? ? ? ? 13 LEU A CG 1
+ATOM 125 C CD1 . LEU A 1 16 ? 1.617 13.425 36.486 1.00 62.93 ? ? ? ? ? ? 13 LEU A CD1 1
+ATOM 126 C CD2 . LEU A 1 16 ? 1.670 14.790 38.579 1.00 79.58 ? ? ? ? ? ? 13 LEU A CD2 1
+ATOM 127 N N . THR A 1 17 ? 6.242 12.916 38.879 1.00 60.33 ? ? ? ? ? ? 14 THR A N 1
+ATOM 128 C CA . THR A 1 17 ? 7.072 11.970 39.624 1.00 63.44 ? ? ? ? ? ? 14 THR A CA 1
+ATOM 129 C C . THR A 1 17 ? 7.678 12.592 40.903 1.00 57.01 ? ? ? ? ? ? 14 THR A C 1
+ATOM 130 O O . THR A 1 17 ? 7.567 12.020 41.991 1.00 61.15 ? ? ? ? ? ? 14 THR A O 1
+ATOM 131 C CB . THR A 1 17 ? 8.183 11.390 38.714 1.00 65.94 ? ? ? ? ? ? 14 THR A CB 1
+ATOM 132 O OG1 . THR A 1 17 ? 7.580 10.624 37.663 1.00 63.01 ? ? ? ? ? ? 14 THR A OG1 1
+ATOM 133 C CG2 . THR A 1 17 ? 9.124 10.489 39.502 1.00 74.37 ? ? ? ? ? ? 14 THR A CG2 1
+ATOM 134 N N A ARG A 1 18 ? 8.286 13.769 40.774 0.50 60.53 ? ? ? ? ? ? 15 ARG A N 1
+ATOM 135 C CA A ARG A 1 18 ? 8.903 14.440 41.922 0.50 64.64 ? ? ? ? ? ? 15 ARG A CA 1
+ATOM 136 C C A ARG A 1 18 ? 7.867 15.000 42.911 0.50 65.25 ? ? ? ? ? ? 15 ARG A C 1
+ATOM 137 O O A ARG A 1 18 ? 8.174 15.244 44.080 0.50 60.65 ? ? ? ? ? ? 15 ARG A O 1
+ATOM 138 C CB A ARG A 1 18 ? 9.857 15.549 41.457 0.50 65.83 ? ? ? ? ? ? 15 ARG A CB 1
+ATOM 139 C CG A ARG A 1 18 ? 10.863 15.121 40.391 0.50 64.71 ? ? ? ? ? ? 15 ARG A CG 1
+ATOM 140 C CD A ARG A 1 18 ? 11.814 16.270 40.051 0.50 69.97 ? ? ? ? ? ? 15 ARG A CD 1
+ATOM 141 N NE A ARG A 1 18 ? 12.505 16.084 38.775 0.50 69.52 ? ? ? ? ? ? 15 ARG A NE 1
+ATOM 142 C CZ A ARG A 1 18 ? 12.236 16.774 37.670 0.50 69.32 ? ? ? ? ? ? 15 ARG A CZ 1
+ATOM 143 N NH1 A ARG A 1 18 ? 11.291 17.706 37.674 0.50 55.65 ? ? ? ? ? ? 15 ARG A NH1 1
+ATOM 144 N NH2 A ARG A 1 18 ? 12.919 16.538 36.559 0.50 76.31 ? ? ? ? ? ? 15 ARG A NH2 1
+ATOM 145 N N B GLN A 1 18 ? 8.327 13.744 40.756 0.33 60.56 ? ? ? ? ? ? 15 GLN A N 1
+ATOM 146 C CA B GLN A 1 18 ? 8.877 14.452 41.907 0.33 64.61 ? ? ? ? ? ? 15 GLN A CA 1
+ATOM 147 C C B GLN A 1 18 ? 7.769 14.698 42.924 0.33 64.96 ? ? ? ? ? ? 15 GLN A C 1
+ATOM 148 O O B GLN A 1 18 ? 7.924 14.416 44.116 0.33 61.27 ? ? ? ? ? ? 15 GLN A O 1
+ATOM 149 C CB B GLN A 1 18 ? 9.492 15.793 41.487 0.33 66.08 ? ? ? ? ? ? 15 GLN A CB 1
+ATOM 150 C CG B GLN A 1 18 ? 10.726 15.695 40.597 0.33 65.69 ? ? ? ? ? ? 15 GLN A CG 1
+ATOM 151 C CD B GLN A 1 18 ? 11.327 17.061 40.276 0.33 69.35 ? ? ? ? ? ? 15 GLN A CD 1
+ATOM 152 O OE1 B GLN A 1 18 ? 11.616 17.369 39.119 0.33 66.62 ? ? ? ? ? ? 15 GLN A OE1 1
+ATOM 153 N NE2 B GLN A 1 18 ? 11.511 17.885 41.303 0.33 67.16 ? ? ? ? ? ? 15 GLN A NE2 1
+ATOM 154 N N C GLU A 1 18 ? 8.306 13.754 40.761 0.17 60.57 ? ? ? ? ? ? 15 GLU A N 1
+ATOM 155 C CA C GLU A 1 18 ? 8.887 14.450 41.904 0.17 64.60 ? ? ? ? ? ? 15 GLU A CA 1
+ATOM 156 C C C GLU A 1 18 ? 7.813 14.816 42.928 0.17 64.89 ? ? ? ? ? ? 15 GLU A C 1
+ATOM 157 O O C GLU A 1 18 ? 8.037 14.735 44.137 0.17 61.75 ? ? ? ? ? ? 15 GLU A O 1
+ATOM 158 C CB C GLU A 1 18 ? 9.635 15.707 41.448 0.17 65.94 ? ? ? ? ? ? 15 GLU A CB 1
+ATOM 159 C CG C GLU A 1 18 ? 10.877 15.425 40.613 0.17 65.71 ? ? ? ? ? ? 15 GLU A CG 1
+ATOM 160 C CD C GLU A 1 18 ? 11.545 16.692 40.105 0.17 68.96 ? ? ? ? ? ? 15 GLU A CD 1
+ATOM 161 O OE1 C GLU A 1 18 ? 10.877 17.748 40.063 0.17 67.85 ? ? ? ? ? ? 15 GLU A OE1 1
+ATOM 162 O OE2 C GLU A 1 18 ? 12.740 16.631 39.744 0.17 68.13 ? ? ? ? ? ? 15 GLU A OE2 1
+ATOM 163 N N . LEU A 1 19 ? 6.644 15.213 42.434 1.00 61.01 ? ? ? ? ? ? 16 LEU A N 1
+ATOM 164 C CA . LEU A 1 19 ? 5.538 15.609 43.295 1.00 54.68 ? ? ? ? ? ? 16 LEU A CA 1
+ATOM 165 C C . LEU A 1 19 ? 4.995 14.406 44.079 1.00 60.57 ? ? ? ? ? ? 16 LEU A C 1
+ATOM 166 O O . LEU A 1 19 ? 4.695 14.500 45.280 1.00 59.72 ? ? ? ? ? ? 16 LEU A O 1
+ATOM 167 C CB . LEU A 1 19 ? 4.444 16.265 42.456 1.00 54.32 ? ? ? ? ? ? 16 LEU A CB 1
+ATOM 168 C CG . LEU A 1 19 ? 3.276 16.949 43.158 1.00 55.23 ? ? ? ? ? ? 16 LEU A CG 1
+ATOM 169 C CD1 . LEU A 1 19 ? 3.772 17.802 44.297 1.00 55.73 ? ? ? ? ? ? 16 LEU A CD1 1
+ATOM 170 C CD2 . LEU A 1 19 ? 2.501 17.779 42.158 1.00 63.66 ? ? ? ? ? ? 16 LEU A CD2 1
+ATOM 171 N N . LYS A 1 20 ? 4.889 13.266 43.405 1.00 59.70 ? ? ? ? ? ? 17 LYS A N 1
+ATOM 172 C CA . LYS A 1 20 ? 4.481 12.039 44.080 1.00 55.95 ? ? ? ? ? ? 17 LYS A CA 1
+ATOM 173 C C . LYS A 1 20 ? 5.447 11.691 45.235 1.00 56.42 ? ? ? ? ? ? 17 LYS A C 1
+ATOM 174 O O . LYS A 1 20 ? 5.017 11.312 46.336 1.00 57.45 ? ? ? ? ? ? 17 LYS A O 1
+ATOM 175 C CB . LYS A 1 20 ? 4.370 10.894 43.065 1.00 59.78 ? ? ? ? ? ? 17 LYS A CB 1
+ATOM 176 C CG . LYS A 1 20 ? 3.633 9.639 43.564 1.00 89.79 ? ? ? ? ? ? 17 LYS A CG 1
+ATOM 177 C CD . LYS A 1 20 ? 2.359 9.997 44.347 1.00 92.67 ? ? ? ? ? ? 17 LYS A CD 1
+ATOM 178 C CE . LYS A 1 20 ? 1.275 8.917 44.270 1.00 64.53 ? ? ? ? ? ? 17 LYS A CE 1
+ATOM 179 N NZ . LYS A 1 20 ? 1.698 7.577 44.789 1.00 87.83 ? ? ? ? ? ? 17 LYS A NZ 1
+ATOM 180 N N . ALA A 1 21 ? 6.748 11.849 44.996 1.00 66.43 ? ? ? ? ? ? 18 ALA A N 1
+ATOM 181 C CA . ALA A 1 21 ? 7.766 11.495 45.989 1.00 65.28 ? ? ? ? ? ? 18 ALA A CA 1
+ATOM 182 C C . ALA A 1 21 ? 7.732 12.422 47.219 1.00 63.65 ? ? ? ? ? ? 18 ALA A C 1
+ATOM 183 O O . ALA A 1 21 ? 7.914 11.981 48.357 1.00 56.64 ? ? ? ? ? ? 18 ALA A O 1
+ATOM 184 C CB . ALA A 1 21 ? 9.154 11.495 45.340 1.00 56.83 ? ? ? ? ? ? 18 ALA A CB 1
+ATOM 185 N N . ALA A 1 22 ? 7.496 13.708 46.978 1.00 57.77 ? ? ? ? ? ? 19 ALA A N 1
+ATOM 186 C CA . ALA A 1 22 ? 7.353 14.704 48.045 1.00 61.37 ? ? ? ? ? ? 19 ALA A CA 1
+ATOM 187 C C . ALA A 1 22 ? 6.155 14.429 48.959 1.00 61.03 ? ? ? ? ? ? 19 ALA A C 1
+ATOM 188 O O . ALA A 1 22 ? 6.237 14.567 50.176 1.00 63.99 ? ? ? ? ? ? 19 ALA A O 1
+ATOM 189 C CB . ALA A 1 22 ? 7.232 16.108 47.436 1.00 62.74 ? ? ? ? ? ? 19 ALA A CB 1
+ATOM 190 N N . VAL A 1 23 ? 5.026 14.070 48.368 1.00 58.00 ? ? ? ? ? ? 20 VAL A N 1
+ATOM 191 C CA . VAL A 1 23 ? 3.844 13.743 49.153 1.00 52.09 ? ? ? ? ? ? 20 VAL A CA 1
+ATOM 192 C C . VAL A 1 23 ? 4.096 12.495 50.021 1.00 58.95 ? ? ? ? ? ? 20 VAL A C 1
+ATOM 193 O O . VAL A 1 23 ? 3.667 12.429 51.180 1.00 57.75 ? ? ? ? ? ? 20 VAL A O 1
+ATOM 194 C CB . VAL A 1 23 ? 2.635 13.570 48.220 1.00 57.63 ? ? ? ? ? ? 20 VAL A CB 1
+ATOM 195 C CG1 . VAL A 1 23 ? 1.488 12.851 48.920 1.00 60.21 ? ? ? ? ? ? 20 VAL A CG1 1
+ATOM 196 C CG2 . VAL A 1 23 ? 2.204 14.933 47.712 1.00 50.88 ? ? ? ? ? ? 20 VAL A CG2 1
+ATOM 197 N N . GLY A 1 24 ? 4.827 11.526 49.471 1.00 59.12 ? ? ? ? ? ? 21 GLY A N 1
+ATOM 198 C CA . GLY A 1 24 ? 5.193 10.318 50.204 1.00 54.18 ? ? ? ? ? ? 21 GLY A CA 1
+ATOM 199 C C . GLY A 1 24 ? 6.130 10.560 51.383 1.00 58.97 ? ? ? ? ? ? 21 GLY A C 1
+ATOM 200 O O . GLY A 1 24 ? 6.355 9.667 52.205 1.00 62.82 ? ? ? ? ? ? 21 GLY A O 1
+ATOM 201 N N . GLU A 1 25 ? 6.689 11.766 51.471 1.00 65.31 ? ? ? ? ? ? 22 GLU A N 1
+ATOM 202 C CA . GLU A 1 25 ? 7.501 12.142 52.631 1.00 53.36 ? ? ? ? ? ? 22 GLU A CA 1
+ATOM 203 C C . GLU A 1 25 ? 6.747 13.002 53.666 1.00 57.04 ? ? ? ? ? ? 22 GLU A C 1
+ATOM 204 O O . GLU A 1 25 ? 7.315 13.389 54.686 1.00 57.40 ? ? ? ? ? ? 22 GLU A O 1
+ATOM 205 C CB . GLU A 1 25 ? 8.795 12.837 52.182 1.00 64.46 ? ? ? ? ? ? 22 GLU A CB 1
+ATOM 206 C CG . GLU A 1 25 ? 9.800 11.881 51.547 1.00 64.59 ? ? ? ? ? ? 22 GLU A CG 1
+ATOM 207 C CD . GLU A 1 25 ? 11.065 12.573 51.073 1.00 80.77 ? ? ? ? ? ? 22 GLU A CD 1
+ATOM 208 O OE1 . GLU A 1 25 ? 10.987 13.758 50.673 1.00 95.34 ? ? ? ? ? ? 22 GLU A OE1 1
+ATOM 209 O OE2 . GLU A 1 25 ? 12.140 11.928 51.098 1.00 95.51 ? ? ? ? ? ? 22 GLU A OE2 1
+ATOM 210 N N . LEU A 1 26 ? 5.472 13.294 53.408 1.00 70.07 ? ? ? ? ? ? 23 LEU A N 1
+ATOM 211 C CA . LEU A 1 26 ? 4.663 14.098 54.330 1.00 70.35 ? ? ? ? ? ? 23 LEU A CA 1
+ATOM 212 C C . LEU A 1 26 ? 4.294 13.316 55.584 1.00 61.17 ? ? ? ? ? ? 23 LEU A C 1
+ATOM 213 O O . LEU A 1 26 ? 4.100 12.101 55.537 1.00 63.35 ? ? ? ? ? ? 23 LEU A O 1
+ATOM 214 C CB . LEU A 1 26 ? 3.390 14.601 53.641 1.00 59.78 ? ? ? ? ? ? 23 LEU A CB 1
+ATOM 215 C CG . LEU A 1 26 ? 3.619 15.719 52.626 1.00 55.79 ? ? ? ? ? ? 23 LEU A CG 1
+ATOM 216 C CD1 . LEU A 1 26 ? 2.333 16.040 51.884 1.00 54.17 ? ? ? ? ? ? 23 LEU A CD1 1
+ATOM 217 C CD2 . LEU A 1 26 ? 4.177 16.967 53.319 1.00 55.01 ? ? ? ? ? ? 23 LEU A CD2 1
+HETATM 218 O O . HOH B 2 . ? 10.203 10.203 18.359 0.50 45.14 ? ? ? ? ? ? 142 HOH A O 1
+HETATM 219 O O . HOH B 2 . ? 6.211 26.244 30.783 1.00 46.50 ? ? ? ? ? ? 143 HOH A O 1
+HETATM 220 O O . HOH B 2 . ? 6.574 21.995 23.225 1.00 49.64 ? ? ? ? ? ? 144 HOH A O 1
+HETATM 221 O O . HOH B 2 . ? 7.806 15.959 19.262 1.00 56.68 ? ? ? ? ? ? 145 HOH A O 1
+HETATM 222 O O . HOH B 2 . ? 5.728 9.485 55.215 1.00 67.57 ? ? ? ? ? ? 146 HOH A O 1
+HETATM 223 O O . HOH B 2 . ? 10.292 15.660 45.164 1.00 79.93 ? ? ? ? ? ? 147 HOH A O 1
+HETATM 224 O O . HOH B 2 . ? 1.771 17.897 19.441 1.00 61.82 ? ? ? ? ? ? 148 HOH A O 1
+HETATM 225 O O . HOH B 2 . ? 8.688 23.147 39.148 1.00 72.30 ? ? ? ? ? ? 149 HOH A O 1
+HETATM 226 O O . HOH B 2 . ? 10.949 16.440 21.765 1.00 63.35 ? ? ? ? ? ? 150 HOH A O 1
+HETATM 227 O O . HOH B 2 . ? 3.020 10.543 53.432 1.00 60.89 ? ? ? ? ? ? 151 HOH A O 1
+HETATM 228 O O . HOH B 2 . ? 10.875 18.507 35.187 1.00 70.23 ? ? ? ? ? ? 152 HOH A O 1
+HETATM 229 O O . HOH B 2 . ? 1.789 9.052 49.613 1.00 62.48 ? ? ? ? ? ? 153 HOH A O 1
+HETATM 230 O O . HOH B 2 . ? 7.735 16.611 51.223 1.00 57.58 ? ? ? ? ? ? 154 HOH A O 1
+HETATM 231 O O . HOH B 2 . ? 2.657 9.716 47.234 1.00 72.48 ? ? ? ? ? ? 155 HOH A O 1
+HETATM 232 O O . HOH B 2 . ? 9.531 8.472 24.224 1.00 65.69 ? ? ? ? ? ? 156 HOH A O 1
+HETATM 233 O O . HOH B 2 . ? 7.749 8.824 42.253 1.00 78.52 ? ? ? ? ? ? 157 HOH A O 1
+HETATM 234 O O . HOH B 2 . ? 11.824 12.164 31.348 1.00 72.19 ? ? ? ? ? ? 158 HOH A O 1
+HETATM 235 O O . HOH B 2 . ? 12.722 16.650 33.934 1.00 89.26 ? ? ? ? ? ? 159 HOH A O 1
+HETATM 236 O O . HOH B 2 . ? 6.986 6.986 36.719 0.50 78.66 ? ? ? ? ? ? 160 HOH A O 1
+HETATM 237 O O . HOH B 2 . ? 9.617 19.964 41.514 1.00 88.38 ? ? ? ? ? ? 161 HOH A O 1
+HETATM 238 O O . HOH B 2 . ? 4.669 6.929 49.319 1.00 77.12 ? ? ? ? ? ? 162 HOH A O 1
+#
+loop_
+_pdbx_poly_seq_scheme.asym_id
+_pdbx_poly_seq_scheme.entity_id
+_pdbx_poly_seq_scheme.seq_id
+_pdbx_poly_seq_scheme.mon_id
+_pdbx_poly_seq_scheme.ndb_seq_num
+_pdbx_poly_seq_scheme.pdb_seq_num
+_pdbx_poly_seq_scheme.auth_seq_num
+_pdbx_poly_seq_scheme.pdb_mon_id
+_pdbx_poly_seq_scheme.auth_mon_id
+_pdbx_poly_seq_scheme.pdb_strand_id
+_pdbx_poly_seq_scheme.pdb_ins_code
+_pdbx_poly_seq_scheme.hetero
+A 1 1 GLY 1 -2 ? ? ? A . n
+A 1 2 GLU 2 -1 ? ? ? A . n
+A 1 3 LEU 3 0 ? ? ? A . n
+A 1 4 PRO 4 1 1 PRO PRO A . y
+A 1 4 SER 4 1 1 SER SER A . y
+A 1 5 GLU 5 2 2 GLU GLU A . n
+A 1 6 LYS 6 3 3 LYS LYS A . n
+A 1 7 SER 7 4 4 SER SER A . n
+A 1 8 LYS 8 5 5 LYS LYS A . n
+A 1 9 LEU 9 6 6 LEU LEU A . n
+A 1 10 GLN 10 7 7 GLN GLN A . n
+A 1 11 GLU 11 8 8 GLU GLU A . n
+A 1 12 ILE 12 9 9 ILE ILE A . n
+A 1 13 TYR 13 10 10 TYR TYR A . n
+A 1 14 GLN 14 11 11 GLN GLN A . n
+A 1 15 GLU 15 12 12 GLU GLU A . n
+A 1 16 LEU 16 13 13 LEU LEU A . n
+A 1 17 THR 17 14 14 THR THR A . n
+A 1 18 ARG 18 15 15 ARG ARG A . y
+A 1 18 GLN 18 15 15 GLN GLN A . y
+A 1 18 GLU 18 15 15 GLU GLU A . y
+A 1 19 LEU 19 16 16 LEU LEU A . n
+A 1 20 LYS 20 17 17 LYS LYS A . n
+A 1 21 ALA 21 18 18 ALA ALA A . n
+A 1 22 ALA 22 19 19 ALA ALA A . n
+A 1 23 VAL 23 20 20 VAL VAL A . n
+A 1 24 GLY 24 21 21 GLY GLY A . n
+A 1 25 GLU 25 22 22 GLU GLU A . n
+A 1 26 LEU 26 23 23 LEU LEU A . n
+A 1 27 PRO 27 24 ? ? ? A . n
+A 1 28 GLU 28 25 ? ? ? A . n
+A 1 29 LYS 29 26 ? ? ? A . n
+A 1 30 SER 30 27 ? ? ? A . n
+A 1 31 LYS 31 28 ? ? ? A . n
+A 1 32 LEU 32 29 ? ? ? A . n
+A 1 33 GLN 33 30 ? ? ? A . n
+A 1 34 GLU 34 31 ? ? ? A . n
+A 1 35 ILE 35 32 ? ? ? A . n
+A 1 36 TYR 36 33 ? ? ? A . n
+A 1 37 GLN 37 34 ? ? ? A . n
+A 1 38 GLU 38 35 ? ? ? A . n
+A 1 39 LEU 39 36 ? ? ? A . n
+A 1 40 THR 40 37 ? ? ? A . n
+A 1 41 ARG 41 38 ? ? ? A . n
+A 1 42 LEU 42 39 ? ? ? A . n
+A 1 43 LYS 43 40 ? ? ? A . n
+A 1 44 ALA 44 41 ? ? ? A . n
+A 1 45 ALA 45 42 ? ? ? A . n
+A 1 46 VAL 46 43 ? ? ? A . n
+A 1 47 GLY 47 44 ? ? ? A . n
+A 1 48 GLU 48 45 ? ? ? A . n
+A 1 49 LEU 49 46 ? ? ? A . n
+A 1 50 PRO 50 47 ? ? ? A . n
+A 1 51 GLU 51 48 ? ? ? A . n
+A 1 52 LYS 52 49 ? ? ? A . n
+A 1 53 SER 53 50 ? ? ? A . n
+A 1 54 LYS 54 51 ? ? ? A . n
+A 1 55 LEU 55 52 ? ? ? A . n
+A 1 56 GLN 56 53 ? ? ? A . n
+A 1 57 GLU 57 54 ? ? ? A . n
+A 1 58 ILE 58 55 ? ? ? A . n
+A 1 59 TYR 59 56 ? ? ? A . n
+A 1 60 GLN 60 57 ? ? ? A . n
+A 1 61 GLU 61 58 ? ? ? A . n
+A 1 62 LEU 62 59 ? ? ? A . n
+A 1 63 THR 63 60 ? ? ? A . n
+A 1 64 ARG 64 61 ? ? ? A . n
+A 1 65 LEU 65 62 ? ? ? A . n
+A 1 66 LYS 66 63 ? ? ? A . n
+A 1 67 ALA 67 64 ? ? ? A . n
+A 1 68 ALA 68 65 ? ? ? A . n
+A 1 69 VAL 69 66 ? ? ? A . n
+A 1 70 GLY 70 67 ? ? ? A . n
+A 1 71 GLU 71 68 ? ? ? A . n
+A 1 72 LEU 72 69 ? ? ? A . n
+A 1 73 PRO 73 70 ? ? ? A . n
+A 1 74 GLU 74 71 ? ? ? A . n
+A 1 75 LYS 75 72 ? ? ? A . n
+A 1 76 SER 76 73 ? ? ? A . n
+A 1 77 LYS 77 74 ? ? ? A . n
+A 1 78 LEU 78 75 ? ? ? A . n
+A 1 79 GLN 79 76 ? ? ? A . n
+A 1 80 GLU 80 77 ? ? ? A . n
+A 1 81 ILE 81 78 ? ? ? A . n
+A 1 82 TYR 82 79 ? ? ? A . n
+A 1 83 GLN 83 80 ? ? ? A . n
+A 1 84 GLU 84 81 ? ? ? A . n
+A 1 85 LEU 85 82 ? ? ? A . n
+A 1 86 THR 86 83 ? ? ? A . n
+A 1 87 ARG 87 84 ? ? ? A . n
+A 1 88 LEU 88 85 ? ? ? A . n
+A 1 89 LYS 89 86 ? ? ? A . n
+A 1 90 ALA 90 87 ? ? ? A . n
+A 1 91 ALA 91 88 ? ? ? A . n
+A 1 92 VAL 92 89 ? ? ? A . n
+A 1 93 GLY 93 90 ? ? ? A . n
+A 1 94 GLU 94 91 ? ? ? A . n
+A 1 95 LEU 95 92 ? ? ? A . n
+A 1 96 PRO 96 93 ? ? ? A . n
+A 1 97 GLU 97 94 ? ? ? A . n
+A 1 98 LYS 98 95 ? ? ? A . n
+A 1 99 SER 99 96 ? ? ? A . n
+A 1 100 LYS 100 97 ? ? ? A . n
+A 1 101 LEU 101 98 ? ? ? A . n
+A 1 102 GLN 102 99 ? ? ? A . n
+A 1 103 GLU 103 100 ? ? ? A . n
+A 1 104 ILE 104 101 ? ? ? A . n
+A 1 105 TYR 105 102 ? ? ? A . n
+A 1 106 GLN 106 103 ? ? ? A . n
+A 1 107 GLU 107 104 ? ? ? A . n
+A 1 108 LEU 108 105 ? ? ? A . n
+A 1 109 THR 109 106 ? ? ? A . n
+A 1 110 GLU 110 107 ? ? ? A . n
+A 1 111 LEU 111 108 ? ? ? A . n
+A 1 112 LYS 112 109 ? ? ? A . n
+A 1 113 ALA 113 110 ? ? ? A . n
+A 1 114 ALA 114 111 ? ? ? A . n
+A 1 115 VAL 115 112 ? ? ? A . n
+A 1 116 GLY 116 113 ? ? ? A . n
+A 1 117 GLU 117 114 ? ? ? A . n
+A 1 118 LEU 118 115 ? ? ? A . n
+A 1 119 PRO 119 116 ? ? ? A . n
+A 1 120 GLU 120 117 ? ? ? A . n
+A 1 121 LYS 121 118 ? ? ? A . n
+A 1 122 SER 122 119 ? ? ? A . n
+A 1 123 LYS 123 120 ? ? ? A . n
+A 1 124 LEU 124 121 ? ? ? A . n
+A 1 125 GLN 125 122 ? ? ? A . n
+A 1 126 GLU 126 123 ? ? ? A . n
+A 1 127 ILE 127 124 ? ? ? A . n
+A 1 128 TYR 128 125 ? ? ? A . n
+A 1 129 GLN 129 126 ? ? ? A . n
+A 1 130 GLU 130 127 ? ? ? A . n
+A 1 131 LEU 131 128 ? ? ? A . n
+A 1 132 THR 132 129 ? ? ? A . n
+A 1 133 GLN 133 130 ? ? ? A . n
+A 1 134 LEU 134 131 ? ? ? A . n
+A 1 135 LYS 135 132 ? ? ? A . n
+A 1 136 ALA 136 133 ? ? ? A . n
+A 1 137 ALA 137 134 ? ? ? A . n
+A 1 138 VAL 138 135 ? ? ? A . n
+A 1 139 GLY 139 136 ? ? ? A . n
+A 1 140 GLU 140 137 ? ? ? A . n
+A 1 141 LEU 141 138 ? ? ? A . n
+A 1 142 PRO 142 139 ? ? ? A . n
+A 1 143 ASP 143 140 ? ? ? A . n
+A 1 144 GLN 144 141 ? ? ? A . n
+A 1 145 SER 145 142 ? ? ? A . n
+A 1 146 LYS 146 143 ? ? ? A . n
+A 1 147 GLN 147 144 ? ? ? A . n
+A 1 148 GLN 148 145 ? ? ? A . n
+A 1 149 GLN 149 146 ? ? ? A . n
+A 1 150 ILE 150 147 ? ? ? A . n
+A 1 151 TYR 151 148 ? ? ? A . n
+A 1 152 GLN 152 149 ? ? ? A . n
+A 1 153 GLU 153 150 ? ? ? A . n
+A 1 154 LEU 154 151 ? ? ? A . n
+A 1 155 THR 155 152 ? ? ? A . n
+A 1 156 ASP 156 153 ? ? ? A . n
+A 1 157 LEU 157 154 ? ? ? A . n
+A 1 158 LYS 158 155 ? ? ? A . n
+A 1 159 THR 159 156 ? ? ? A . n
+A 1 160 ALA 160 157 ? ? ? A . n
+A 1 161 PHE 161 158 ? ? ? A . n
+A 1 162 GLU 162 159 ? ? ? A . n
+A 1 163 ARG 163 160 ? ? ? A . n
+A 1 164 LEU 164 161 ? ? ? A . n
+A 1 165 GLY 165 162 ? ? ? A . n
+A 1 166 HIS 166 163 ? ? ? A . n
+A 1 167 HIS 167 164 ? ? ? A . n
+#
+_pdbx_struct_assembly.id 1
+_pdbx_struct_assembly.details author_and_software_defined_assembly
+_pdbx_struct_assembly.method_details PISA
+_pdbx_struct_assembly.oligomeric_details 24-meric
+_pdbx_struct_assembly.oligomeric_count 24
+#
+_pdbx_struct_assembly_gen.assembly_id 1
+_pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24
+_pdbx_struct_assembly_gen.asym_id_list A,B
+#
+loop_
+_pdbx_struct_assembly_prop.biol_id
+_pdbx_struct_assembly_prop.type
+_pdbx_struct_assembly_prop.value
+_pdbx_struct_assembly_prop.details
+1 'ABSA (A^2)' 4670 ?
+1 'SSA (A^2)' 5660 ?
+1 MORE -52 ?
+#
+loop_
+_pdbx_struct_oper_list.id
+_pdbx_struct_oper_list.type
+_pdbx_struct_oper_list.name
+_pdbx_struct_oper_list.symmetry_operation
+_pdbx_struct_oper_list.matrix[1][1]
+_pdbx_struct_oper_list.matrix[1][2]
+_pdbx_struct_oper_list.matrix[1][3]
+_pdbx_struct_oper_list.vector[1]
+_pdbx_struct_oper_list.matrix[2][1]
+_pdbx_struct_oper_list.matrix[2][2]
+_pdbx_struct_oper_list.matrix[2][3]
+_pdbx_struct_oper_list.vector[2]
+_pdbx_struct_oper_list.matrix[3][1]
+_pdbx_struct_oper_list.matrix[3][2]
+_pdbx_struct_oper_list.matrix[3][3]
+_pdbx_struct_oper_list.vector[3]
+1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000
+2 'crystal symmetry operation' 1_556 x,y,z+1 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 36.7200000000
+3 'crystal symmetry operation' 1_557 x,y,z+2 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 73.4400000000
+4 'crystal symmetry operation' 1_558 x,y,z+3 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 110.1600000000
+5 'crystal symmetry operation' 1_559 x,y,z+4 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 146.8800000000
+6 'crystal symmetry operation' 1_554 x,y,z-1 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 -36.7200000000
+7 'crystal symmetry operation' 2_565 -x,-y+1,z -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+-1.0000000000 0.0000000000 34.1700000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000
+8 'crystal symmetry operation' 2_566 -x,-y+1,z+1 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+-1.0000000000 0.0000000000 34.1700000000 0.0000000000 0.0000000000 1.0000000000 36.7200000000
+9 'crystal symmetry operation' 2_567 -x,-y+1,z+2 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+-1.0000000000 0.0000000000 34.1700000000 0.0000000000 0.0000000000 1.0000000000 73.4400000000
+10 'crystal symmetry operation' 2_568 -x,-y+1,z+3 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+-1.0000000000 0.0000000000 34.1700000000 0.0000000000 0.0000000000 1.0000000000 110.1600000000
+11 'crystal symmetry operation' 2_569 -x,-y+1,z+4 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+-1.0000000000 0.0000000000 34.1700000000 0.0000000000 0.0000000000 1.0000000000 146.8800000000
+12 'crystal symmetry operation' 2_564 -x,-y+1,z-1 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000
+-1.0000000000 0.0000000000 34.1700000000 0.0000000000 0.0000000000 1.0000000000 -36.7200000000
+13 'crystal symmetry operation' 3_555 -y+1/2,x+1/2,z 0.0000000000 -1.0000000000 0.0000000000 17.0850000000 1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000
+14 'crystal symmetry operation' 3_556 -y+1/2,x+1/2,z+1 0.0000000000 -1.0000000000 0.0000000000 17.0850000000 1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 36.7200000000
+15 'crystal symmetry operation' 3_557 -y+1/2,x+1/2,z+2 0.0000000000 -1.0000000000 0.0000000000 17.0850000000 1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 73.4400000000
+16 'crystal symmetry operation' 3_558 -y+1/2,x+1/2,z+3 0.0000000000 -1.0000000000 0.0000000000 17.0850000000 1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 110.1600000000
+17 'crystal symmetry operation' 3_559 -y+1/2,x+1/2,z+4 0.0000000000 -1.0000000000 0.0000000000 17.0850000000 1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 146.8800000000
+18 'crystal symmetry operation' 3_554 -y+1/2,x+1/2,z-1 0.0000000000 -1.0000000000 0.0000000000 17.0850000000 1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 -36.7200000000
+19 'crystal symmetry operation' 4_455 y-1/2,-x+1/2,z 0.0000000000 1.0000000000 0.0000000000 -17.0850000000 -1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000
+20 'crystal symmetry operation' 4_456 y-1/2,-x+1/2,z+1 0.0000000000 1.0000000000 0.0000000000 -17.0850000000 -1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 36.7200000000
+21 'crystal symmetry operation' 4_457 y-1/2,-x+1/2,z+2 0.0000000000 1.0000000000 0.0000000000 -17.0850000000 -1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 73.4400000000
+22 'crystal symmetry operation' 4_458 y-1/2,-x+1/2,z+3 0.0000000000 1.0000000000 0.0000000000 -17.0850000000 -1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 110.1600000000
+23 'crystal symmetry operation' 4_459 y-1/2,-x+1/2,z+4 0.0000000000 1.0000000000 0.0000000000 -17.0850000000 -1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 146.8800000000
+24 'crystal symmetry operation' 4_454 y-1/2,-x+1/2,z-1 0.0000000000 1.0000000000 0.0000000000 -17.0850000000 -1.0000000000
+0.0000000000 0.0000000000 17.0850000000 0.0000000000 0.0000000000 1.0000000000 -36.7200000000
+#
+loop_
+_software.name
+_software.classification
+_software.version
+_software.citation_id
+_software.pdbx_ordinal
+blue 'data collection' ice ? 1
+PHENIX 'model building' . ? 2
+CNS 'model building' . ? 3
+PHENIX refinement '(phenix.refine)' ? 4
+#
+loop_
+_pdbx_unobs_or_zero_occ_residues.id
+_pdbx_unobs_or_zero_occ_residues.polymer_flag
+_pdbx_unobs_or_zero_occ_residues.occupancy_flag
+_pdbx_unobs_or_zero_occ_residues.PDB_model_num
+_pdbx_unobs_or_zero_occ_residues.auth_asym_id
+_pdbx_unobs_or_zero_occ_residues.auth_comp_id
+_pdbx_unobs_or_zero_occ_residues.auth_seq_id
+_pdbx_unobs_or_zero_occ_residues.PDB_ins_code
+1 Y 1 1 A GLY -2 ?
+2 Y 1 1 A GLU -1 ?
+3 Y 1 1 A LEU 0 ?
+4 Y 1 1 A PRO 24 ?
+5 Y 1 1 A GLU 25 ?
+6 Y 1 1 A LYS 26 ?
+7 Y 1 1 A SER 27 ?
+8 Y 1 1 A LYS 28 ?
+9 Y 1 1 A LEU 29 ?
+10 Y 1 1 A GLN 30 ?
+11 Y 1 1 A GLU 31 ?
+12 Y 1 1 A ILE 32 ?
+13 Y 1 1 A TYR 33 ?
+14 Y 1 1 A GLN 34 ?
+15 Y 1 1 A GLU 35 ?
+16 Y 1 1 A LEU 36 ?
+17 Y 1 1 A THR 37 ?
+18 Y 1 1 A ARG 38 ?
+19 Y 1 1 A LEU 39 ?
+20 Y 1 1 A LYS 40 ?
+21 Y 1 1 A ALA 41 ?
+22 Y 1 1 A ALA 42 ?
+23 Y 1 1 A VAL 43 ?
+24 Y 1 1 A GLY 44 ?
+25 Y 1 1 A GLU 45 ?
+26 Y 1 1 A LEU 46 ?
+27 Y 1 1 A PRO 47 ?
+28 Y 1 1 A GLU 48 ?
+29 Y 1 1 A LYS 49 ?
+30 Y 1 1 A SER 50 ?
+31 Y 1 1 A LYS 51 ?
+32 Y 1 1 A LEU 52 ?
+33 Y 1 1 A GLN 53 ?
+34 Y 1 1 A GLU 54 ?
+35 Y 1 1 A ILE 55 ?
+36 Y 1 1 A TYR 56 ?
+37 Y 1 1 A GLN 57 ?
+38 Y 1 1 A GLU 58 ?
+39 Y 1 1 A LEU 59 ?
+40 Y 1 1 A THR 60 ?
+41 Y 1 1 A ARG 61 ?
+42 Y 1 1 A LEU 62 ?
+43 Y 1 1 A LYS 63 ?
+44 Y 1 1 A ALA 64 ?
+45 Y 1 1 A ALA 65 ?
+46 Y 1 1 A VAL 66 ?
+47 Y 1 1 A GLY 67 ?
+48 Y 1 1 A GLU 68 ?
+49 Y 1 1 A LEU 69 ?
+50 Y 1 1 A PRO 70 ?
+51 Y 1 1 A GLU 71 ?
+52 Y 1 1 A LYS 72 ?
+53 Y 1 1 A SER 73 ?
+54 Y 1 1 A LYS 74 ?
+55 Y 1 1 A LEU 75 ?
+56 Y 1 1 A GLN 76 ?
+57 Y 1 1 A GLU 77 ?
+58 Y 1 1 A ILE 78 ?
+59 Y 1 1 A TYR 79 ?
+60 Y 1 1 A GLN 80 ?
+61 Y 1 1 A GLU 81 ?
+62 Y 1 1 A LEU 82 ?
+63 Y 1 1 A THR 83 ?
+64 Y 1 1 A ARG 84 ?
+65 Y 1 1 A LEU 85 ?
+66 Y 1 1 A LYS 86 ?
+67 Y 1 1 A ALA 87 ?
+68 Y 1 1 A ALA 88 ?
+69 Y 1 1 A VAL 89 ?
+70 Y 1 1 A GLY 90 ?
+71 Y 1 1 A GLU 91 ?
+72 Y 1 1 A LEU 92 ?
+73 Y 1 1 A PRO 93 ?
+74 Y 1 1 A GLU 94 ?
+75 Y 1 1 A LYS 95 ?
+76 Y 1 1 A SER 96 ?
+77 Y 1 1 A LYS 97 ?
+78 Y 1 1 A LEU 98 ?
+79 Y 1 1 A GLN 99 ?
+80 Y 1 1 A GLU 100 ?
+81 Y 1 1 A ILE 101 ?
+82 Y 1 1 A TYR 102 ?
+83 Y 1 1 A GLN 103 ?
+84 Y 1 1 A GLU 104 ?
+85 Y 1 1 A LEU 105 ?
+86 Y 1 1 A THR 106 ?
+87 Y 1 1 A GLU 107 ?
+88 Y 1 1 A LEU 108 ?
+89 Y 1 1 A LYS 109 ?
+90 Y 1 1 A ALA 110 ?
+91 Y 1 1 A ALA 111 ?
+92 Y 1 1 A VAL 112 ?
+93 Y 1 1 A GLY 113 ?
+94 Y 1 1 A GLU 114 ?
+95 Y 1 1 A LEU 115 ?
+96 Y 1 1 A PRO 116 ?
+97 Y 1 1 A GLU 117 ?
+98 Y 1 1 A LYS 118 ?
+99 Y 1 1 A SER 119 ?
+100 Y 1 1 A LYS 120 ?
+101 Y 1 1 A LEU 121 ?
+102 Y 1 1 A GLN 122 ?
+103 Y 1 1 A GLU 123 ?
+104 Y 1 1 A ILE 124 ?
+105 Y 1 1 A TYR 125 ?
+106 Y 1 1 A GLN 126 ?
+107 Y 1 1 A GLU 127 ?
+108 Y 1 1 A LEU 128 ?
+109 Y 1 1 A THR 129 ?
+110 Y 1 1 A GLN 130 ?
+111 Y 1 1 A LEU 131 ?
+112 Y 1 1 A LYS 132 ?
+113 Y 1 1 A ALA 133 ?
+114 Y 1 1 A ALA 134 ?
+115 Y 1 1 A VAL 135 ?
+116 Y 1 1 A GLY 136 ?
+117 Y 1 1 A GLU 137 ?
+118 Y 1 1 A LEU 138 ?
+119 Y 1 1 A PRO 139 ?
+120 Y 1 1 A ASP 140 ?
+121 Y 1 1 A GLN 141 ?
+122 Y 1 1 A SER 142 ?
+123 Y 1 1 A LYS 143 ?
+124 Y 1 1 A GLN 144 ?
+125 Y 1 1 A GLN 145 ?
+126 Y 1 1 A GLN 146 ?
+127 Y 1 1 A ILE 147 ?
+128 Y 1 1 A TYR 148 ?
+129 Y 1 1 A GLN 149 ?
+130 Y 1 1 A GLU 150 ?
+131 Y 1 1 A LEU 151 ?
+132 Y 1 1 A THR 152 ?
+133 Y 1 1 A ASP 153 ?
+134 Y 1 1 A LEU 154 ?
+135 Y 1 1 A LYS 155 ?
+136 Y 1 1 A THR 156 ?
+137 Y 1 1 A ALA 157 ?
+138 Y 1 1 A PHE 158 ?
+139 Y 1 1 A GLU 159 ?
+140 Y 1 1 A ARG 160 ?
+141 Y 1 1 A LEU 161 ?
+142 Y 1 1 A GLY 162 ?
+143 Y 1 1 A HIS 163 ?
+144 Y 1 1 A HIS 164 ?
+#
+loop_
+_pdbx_version.entry_id
+_pdbx_version.revision_date
+_pdbx_version.major_version
+_pdbx_version.minor_version
+_pdbx_version.revision_type
+_pdbx_version.details
+3JQH 2009-09-18 3 2 'Version format compliance' 'compliance with PDB format V.3.20'
+3JQH 2011-07-13 4 0000 'Version format compliance' 'compliance with PDB Exchange Dictionary V4'
+#
+_pdbx_entry_details.entry_id 3JQH
+_pdbx_entry_details.sequence_details
+;THE COMPLETE SEQUENCE HAS 7 REPEATS AND THE ASYMMETRIC UNIT
+CONTAINS 1 REPEAT OF 23 RESIDUES. THE MODEL IN COORDINATES
+REPRESENTS THE AVERAGE OF FIRST 6 REPEATS WITH ALTERNATE
+CONFORMATION AT 1 AND 15. THE 7TH REPEAT IS DISORDERED.
+GELSEKSKLQEIYQELTQLKAAVGEL
+ PEKSKLQEIYQELTRLKAAVGEL
+ PEKSKLQEIYQELTRLKAAVGEL
+ PEKSKLQEIYQELTRLKAAVGEL
+ PEKSKLQEIYQELTELKAAVGEL
+ PEKSKLQEIYQELTQLKAAVGEL
+ PDQSKQQQIYQELTDLKTAFERLGHH
+;
+_pdbx_entry_details.nonpolymer_details ?
+_pdbx_entry_details.compound_details ?
+_pdbx_entry_details.source_details ?
+#
+loop_
+_pdbx_nonpoly_scheme.asym_id
+_pdbx_nonpoly_scheme.entity_id
+_pdbx_nonpoly_scheme.mon_id
+_pdbx_nonpoly_scheme.ndb_seq_num
+_pdbx_nonpoly_scheme.pdb_seq_num
+_pdbx_nonpoly_scheme.auth_seq_num
+_pdbx_nonpoly_scheme.pdb_mon_id
+_pdbx_nonpoly_scheme.auth_mon_id
+_pdbx_nonpoly_scheme.pdb_strand_id
+_pdbx_nonpoly_scheme.pdb_ins_code
+B 2 HOH 1 142 1 HOH HOH A .
+B 2 HOH 2 143 2 HOH HOH A .
+B 2 HOH 3 144 3 HOH HOH A .
+B 2 HOH 4 145 4 HOH HOH A .
+B 2 HOH 5 146 5 HOH HOH A .
+B 2 HOH 6 147 6 HOH HOH A .
+B 2 HOH 7 148 7 HOH HOH A .
+B 2 HOH 8 149 8 HOH HOH A .
+B 2 HOH 9 150 9 HOH HOH A .
+B 2 HOH 10 151 10 HOH HOH A .
+B 2 HOH 11 152 11 HOH HOH A .
+B 2 HOH 12 153 12 HOH HOH A .
+B 2 HOH 13 154 13 HOH HOH A .
+B 2 HOH 14 155 14 HOH HOH A .
+B 2 HOH 15 156 15 HOH HOH A .
+B 2 HOH 16 157 16 HOH HOH A .
+B 2 HOH 17 158 17 HOH HOH A .
+B 2 HOH 18 159 18 HOH HOH A .
+B 2 HOH 19 160 19 HOH HOH A .
+B 2 HOH 20 161 20 HOH HOH A .
+B 2 HOH 21 162 21 HOH HOH A .
+#
+loop_
+_pdbx_validate_symm_contact.id
+_pdbx_validate_symm_contact.PDB_model_num
+_pdbx_validate_symm_contact.auth_atom_id_1
+_pdbx_validate_symm_contact.auth_asym_id_1
+_pdbx_validate_symm_contact.auth_comp_id_1
+_pdbx_validate_symm_contact.auth_seq_id_1
+_pdbx_validate_symm_contact.PDB_ins_code_1
+_pdbx_validate_symm_contact.label_alt_id_1
+_pdbx_validate_symm_contact.site_symmetry_1
+_pdbx_validate_symm_contact.auth_atom_id_2
+_pdbx_validate_symm_contact.auth_asym_id_2
+_pdbx_validate_symm_contact.auth_comp_id_2
+_pdbx_validate_symm_contact.auth_seq_id_2
+_pdbx_validate_symm_contact.PDB_ins_code_2
+_pdbx_validate_symm_contact.label_alt_id_2
+_pdbx_validate_symm_contact.site_symmetry_2
+_pdbx_validate_symm_contact.dist
+1 1 N A SER 1 ? B 1_555 C A LEU 23 ? ? 3_554 1.33
+2 1 N A PRO 1 ? A 1_555 C A LEU 23 ? ? 3_554 1.33
+3 1 N A SER 1 ? B 1_555 O A LEU 23 ? ? 3_554 2.11
+4 1 N A PRO 1 ? A 1_555 O A LEU 23 ? ? 3_554 2.13
+#
+_pdbx_entity_nonpoly.entity_id 2
+_pdbx_entity_nonpoly.name water
+_pdbx_entity_nonpoly.comp_id HOH
+#
diff --git a/Tests/PDB/4CUP.mmtf b/Tests/PDB/4CUP.mmtf
index dae784e..6bdbffc 100644
Binary files a/Tests/PDB/4CUP.mmtf and b/Tests/PDB/4CUP.mmtf differ
diff --git a/Tests/PDB/4ZHL.mmtf b/Tests/PDB/4ZHL.mmtf
index 1453e9b..ddc276e 100644
Binary files a/Tests/PDB/4ZHL.mmtf and b/Tests/PDB/4ZHL.mmtf differ
diff --git a/Tests/PDB/a_structure.pdb b/Tests/PDB/a_structure.pdb
index 3845eb8..7644bb4 100644
--- a/Tests/PDB/a_structure.pdb
+++ b/Tests/PDB/a_structure.pdb
@@ -10,7 +10,7 @@ HETATM 1 N PCA A 1 0.525 2.690 13.317 1.00 20.26 A
HETATM 2 CA PCA A 1 -0.993 2.924 13.160 1.00 21.23 A
HETATM 3 CB PCA A 1 -1.783 1.879 14.043 1.00 24.73 C
HETATM 4 CG PCA A 1 -0.609 1.208 14.621 1.00 22.31 C
-HETATM 5 CD PCA A 1 0.869 1.560 14.229 1.00 23.27 C
+HETATM 5 DA PCA A 1 0.869 1.560 14.229 1.00 23.27 D
HETATM 6 OE PCA A 1 2.053 1.323 14.293 1.00 26.24 O
HETATM 7 C PCA A 1 -1.375 4.270 13.719 1.00 19.21 C
HETATM 8 O PCA A 1 -0.389 5.021 14.230 1.00 18.05 O
diff --git a/Tests/PDB/alignment_file.fa b/Tests/PDB/alignment_file.fa
new file mode 100644
index 0000000..0519e9c
--- /dev/null
+++ b/Tests/PDB/alignment_file.fa
@@ -0,0 +1,4 @@
+>2xhe_chainA_p002
+HMSLKSAVKTVLTNSLRSVADGGDWKVLVVDKPALRMISECARMSEILDLGVTVVEDVSKQRKVLPQFHGVYFIEPTEENLDYVIRDFADRTPTYEAAHLFFLSPVPDALMAKLASAKAVKYVKTLKEINTLFIPKEHRVFTLNEPHGLVQYYGSRSSSYNIDHLVRRLSTLCTTMNVAPIVRYSSTSTPGTERMAMQLQKEIDMSVSQGLINAREGKLKSQFLILDRAVDLKSPLVHELTYQAAAYDLLNIENDIYSYSTVDAGGREQQRQVVLGEDDDIWLQMRHLHISEVF-RKVK-SSFDEFCVSARRLQGLRD--SQQG-EGG-AGALKQMLKDLPQHREQMQKYSLHLDMSNAINMAFSSTIDSCTKAEQNIVTEEEQDGNKVRDFIGEVASVVVDRRVSTEDKLRCLMLCVLAKNGTSSHELNNLLDNANIATPSRSAIYNLEMLGATVVADRRGRKPKTMKRIERDMPYVLSRWTPIVKDLMEY [...]
+>1a8o_chainA_p001
+------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------MDIRQGPK---------EPFRDYVDRF-------------------------------YKTLRAEQASQEVKNWM-TETLLVQN--AN-P-DCKTILKA-LGPGATLEEMMTACQ---G------------------------------------------------------------------------------------------------------------------------------------------------------- [...]
diff --git a/Tests/PDB/lib_10_z_5.txt b/Tests/PDB/lib_10_z_5.txt
new file mode 100644
index 0000000..2b3bf73
--- /dev/null
+++ b/Tests/PDB/lib_10_z_5.txt
@@ -0,0 +1,131 @@
+
+*******************************************************************************
+*
+* Library of 10 fragments, each 5 residues long
+*
+*******************************************************************************
+
+
+*******************************************************************************
+* REFERENCE
+*******************************************************************************
+*
+* If you use this data in research, please cite:
+*
+* Rachel Kolodny, Patrice Koehl, Leonidas Guibas, Michael Levitt
+* Small Libraries of Protein Fragments Accurately Model Native Protein
+* Structures
+*******************************************************************************
+
+
+******************************************************************************
+* Cluster number: 0
+* Size (out of 1.0): 0.047649
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-13.974 42.846 47.708
+-13.986 44.134 44.117
+-16.344 41.344 43.003
+-19.232 43.113 44.738
+-19.040 46.335 42.683
+******************************************************************************
+* Cluster number: 1
+* Size (out of 1.0): 0.074676
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-11.503 41.111 47.291
+-13.521 43.691 45.432
+-17.321 43.807 45.815
+-19.355 43.053 42.631
+-20.876 46.109 41.080
+******************************************************************************
+* Cluster number: 2
+* Size (out of 1.0): 0.059053
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-12.558 44.831 46.711
+-15.329 42.341 46.039
+-16.503 41.319 42.549
+-19.898 42.964 43.007
+-18.288 46.317 43.943
+******************************************************************************
+* Cluster number: 3
+* Size (out of 1.0): 0.070926
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-11.502 43.090 47.112
+-15.236 43.214 46.361
+-16.476 41.138 43.442
+-19.606 43.314 43.093
+-19.757 47.018 42.241
+******************************************************************************
+* Cluster number: 4
+* Size (out of 1.0): 0.057491
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-14.333 42.954 47.832
+-13.009 43.211 44.245
+-16.146 41.535 42.831
+-18.667 43.662 44.657
+-20.422 46.410 42.684
+******************************************************************************
+* Cluster number: 5
+* Size (out of 1.0): 0.038900
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-14.669 43.751 47.623
+-13.084 41.826 44.676
+-16.236 42.069 42.501
+-17.529 45.558 43.209
+-21.059 44.567 44.239
+******************************************************************************
+* Cluster number: 6
+* Size (out of 1.0): 0.336197
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-14.751 43.521 47.472
+-13.889 43.945 43.794
+-16.364 41.232 42.750
+-19.114 42.809 44.843
+-18.458 46.266 43.390
+******************************************************************************
+* Cluster number: 7
+* Size (out of 1.0): 0.077800
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-13.077 43.111 48.235
+-12.885 42.188 44.617
+-16.526 41.923 43.733
+-18.426 44.751 42.045
+-21.662 45.798 43.619
+******************************************************************************
+* Cluster number: 8
+* Size (out of 1.0): 0.097485
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-11.460 42.273 48.325
+-13.320 42.304 44.994
+-16.965 43.356 44.879
+-19.344 43.352 41.920
+-21.487 46.487 42.130
+******************************************************************************
+* Cluster number: 9
+* Size (out of 1.0): 0.138260
+* Centeroid fragment (coordinates of CA atoms):
+* X-coor Y-coor Z-coor
+ ------ ------ ------
+-11.228 42.137 48.000
+-14.139 41.377 45.757
+-15.941 44.222 44.042
+-19.653 43.799 43.302
+-21.615 46.237 41.148
+******************************************************************************
diff --git a/Tests/PopGen/README b/Tests/PopGen/README
index b847dde..a4f52fb 100644
--- a/Tests/PopGen/README
+++ b/Tests/PopGen/README
@@ -7,10 +7,3 @@ c3line.gen - 3 chars per allele, one locus name per line
c2space.gen - 2 chars per allele, all loci in one line
c3space.gen - 3 chars per allele, all loci in one line
-
-FDist
------
-fdist1 - marker input example
-data_fst_outfile - He and Fst pairs per locus
-out.dat - simulated dataset
-out.cpl - confidence interval contour
diff --git a/Tests/PopGen/data_dfst_outfile b/Tests/PopGen/data_dfst_outfile
deleted file mode 100644
index 4a7f095..0000000
--- a/Tests/PopGen/data_dfst_outfile
+++ /dev/null
@@ -1,300 +0,0 @@
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diff --git a/Tests/PopGen/data_fst_outfile b/Tests/PopGen/data_fst_outfile
deleted file mode 100644
index b33bb30..0000000
--- a/Tests/PopGen/data_fst_outfile
+++ /dev/null
@@ -1,4 +0,0 @@
-0.555556 0.380952
-0.750000 0.541126
-0.750000 0.144014
-0.666667 0.722222
diff --git a/Tests/PopGen/dfdist1 b/Tests/PopGen/dfdist1
deleted file mode 100644
index b0fbe49..0000000
--- a/Tests/PopGen/dfdist1
+++ /dev/null
@@ -1,1204 +0,0 @@
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diff --git a/Tests/PopGen/dout.cpl b/Tests/PopGen/dout.cpl
deleted file mode 100644
index 23c74e9..0000000
--- a/Tests/PopGen/dout.cpl
+++ /dev/null
@@ -1,300 +0,0 @@
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diff --git a/Tests/PopGen/dout.dat b/Tests/PopGen/dout.dat
deleted file mode 100644
index bb01ad1..0000000
--- a/Tests/PopGen/dout.dat
+++ /dev/null
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diff --git a/Tests/PopGen/fdist1 b/Tests/PopGen/fdist1
deleted file mode 100644
index 6f91be9..0000000
--- a/Tests/PopGen/fdist1
+++ /dev/null
@@ -1,24 +0,0 @@
-0
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-4
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-2
-5 10
-20 0
-5 5
-
-3
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-
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-
diff --git a/Tests/PopGen/out.cpl b/Tests/PopGen/out.cpl
deleted file mode 100644
index f24e944..0000000
--- a/Tests/PopGen/out.cpl
+++ /dev/null
@@ -1,8 +0,0 @@
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diff --git a/Tests/PopGen/out.dat b/Tests/PopGen/out.dat
deleted file mode 100644
index ebafcf3..0000000
--- a/Tests/PopGen/out.dat
+++ /dev/null
@@ -1,4999 +0,0 @@
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diff --git a/Tests/PopGen/simple.par b/Tests/PopGen/simple.par
deleted file mode 100644
index 26f12f5..0000000
--- a/Tests/PopGen/simple.par
+++ /dev/null
@@ -1,18 +0,0 @@
-//Parameters for the coalescence simulation program : simcoal.exe
-1 samples
-//Population effective sizes (number of genes 2*diploids)
-100
-//Samples sizes (number of genes 2*diploids)
-30
-//Growth rates : negative growth implies population expansion
-0
-//Number of migration matrices : 0 implies no migration between demes
-0
-//historical event: time, source, sink, migrants, new deme size, new growth rate, migration matrix index
-0 historical events
-//Number of independent (unlinked) chromosomes, and "chromosome structure" flag: 0 for identical structure across chromosomes, and 1 for different structures on different chromosomes.
-1 1
-//Number of contiguous linkage blocks in chromosome
-1
-//Per Block: Data type, No. of loci, Recombination rate to the right-side locus, plus optional parameters
-SNP 24 0.0005 0.0
diff --git a/Tests/SwissProt/P84001.xml b/Tests/SwissProt/P84001.xml
new file mode 100644
index 0000000..aec235b
--- /dev/null
+++ b/Tests/SwissProt/P84001.xml
@@ -0,0 +1,110 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<uniprot xmlns="http://uniprot.org/uniprot" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://uniprot.org/uniprot http://www.uniprot.org/support/docs/uniprot.xsd">
+<entry dataset="Swiss-Prot" created="2004-07-19" modified="2015-01-07" version="25">
+<accession>P84001</accession>
+<name>29C0_ANCSP</name>
+<protein>
+<recommendedName>
+<fullName>U3-ctenitoxin-Asp1a</fullName>
+<shortName>U3-CNTX-Asp1a</shortName>
+</recommendedName>
+<alternativeName>
+<fullName>Venom protein ANC29C0</fullName>
+</alternativeName>
+</protein>
+<organism>
+<name type="scientific">Ancylometes sp.</name>
+<name type="common">South American fishing spider</name>
+<dbReference type="NCBI Taxonomy" id="280265"/>
+<lineage>
+<taxon>Eukaryota</taxon>
+<taxon>Metazoa</taxon>
+<taxon>Ecdysozoa</taxon>
+<taxon>Arthropoda</taxon>
+<taxon>Chelicerata</taxon>
+<taxon>Arachnida</taxon>
+<taxon>Araneae</taxon>
+<taxon>Araneomorphae</taxon>
+<taxon>Entelegynae</taxon>
+<taxon>Lycosoidea</taxon>
+<taxon>Ctenidae</taxon>
+<taxon>Ancylometes</taxon>
+</lineage>
+</organism>
+<reference key="1" evidence="3">
+<citation type="submission" date="2004-06" db="UniProtKB">
+<title>Protein ANC29C0 from venom of South American fishing spider (Ancylometes spp.) has sequence similarities to neurotoxic peptide Caeron precursor from Bark spider (Caerostris extrusa).</title>
+<authorList>
+<person name="Richardson M."/>
+<person name="Pimenta A.M.C."/>
+<person name="Bemquerer M.P."/>
+<person name="Santoro M.M."/>
+<person name="Figueiredo S.G."/>
+<person name="Cordeiro M.N."/>
+</authorList>
+</citation>
+<scope>PROTEIN SEQUENCE</scope>
+<scope>SUBCELLULAR LOCATION</scope>
+<scope>TISSUE SPECIFICITY</scope>
+<scope>MASS SPECTROMETRY</scope>
+<source>
+<tissue>Venom</tissue>
+</source>
+</reference>
+<comment type="function">
+<text evidence="2">Possible neurotoxin.</text>
+</comment>
+<comment type="subcellular location">
+<subcellularLocation>
+<location evidence="1">Secreted</location>
+</subcellularLocation>
+</comment>
+<comment type="tissue specificity">
+<text evidence="1">Expressed by the venom gland.</text>
+</comment>
+<comment type="mass spectrometry" mass="9571" method="Electrospray" evidence="1">
+<location>
+<begin position="1"/>
+<end status="unknown"/>
+</location>
+</comment>
+<dbReference type="ArachnoServer" id="AS000014">
+<property type="toxin name" value="U3-ctenitoxin-Asp1a"/>
+</dbReference>
+<dbReference type="GO" id="GO:0005576">
+<property type="term" value="C:extracellular region"/>
+<property type="evidence" value="ECO:0000501"/>
+<property type="project" value="UniProtKB-SubCell"/>
+</dbReference>
+<proteinExistence type="evidence at protein level"/>
+<keyword id="KW-0903">Direct protein sequencing</keyword>
+<keyword id="KW-0528">Neurotoxin</keyword>
+<keyword id="KW-0964">Secreted</keyword>
+<keyword id="KW-0800">Toxin</keyword>
+<feature type="chain" description="U3-ctenitoxin-Asp1a" id="PRO_0000087682">
+<location>
+<begin position="1"/>
+<end position="50" status="greater than"/>
+</location>
+</feature>
+<feature type="non-terminal residue" evidence="2">
+<location>
+<position position="50"/>
+</location>
+</feature>
+<evidence key="1" type="ECO:0000269">
+<source ref="1"/>
+</evidence>
+<evidence key="2" type="ECO:0000303">
+<source ref="1"/>
+</evidence>
+<evidence key="3" type="ECO:0000305"/>
+<sequence length="50" mass="5679" checksum="3B06738CA0940B53" modified="2004-07-19" version="1" fragment="single">
+ANACTKQADCAEDECCLDNLFFKRPYCEMRYGAGKRCAAASVYKEDKDLY
+</sequence>
+</entry>
+<copyright>
+Copyrighted by the UniProt Consortium, see http://www.uniprot.org/terms
+Distributed under the Creative Commons Attribution-NoDerivs License
+</copyright>
+</uniprot>
\ No newline at end of file
diff --git a/Tests/SwissProt/P97881.xml b/Tests/SwissProt/P97881.xml
new file mode 100644
index 0000000..f8c6fb7
--- /dev/null
+++ b/Tests/SwissProt/P97881.xml
@@ -0,0 +1,303 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<uniprot xmlns="http://uniprot.org/uniprot" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://uniprot.org/uniprot http://www.uniprot.org/support/docs/uniprot.xsd">
+<entry dataset="Swiss-Prot" created="2004-07-19" modified="2017-03-15" version="93">
+<accession>P97881</accession>
+<name>MUC13_RAT</name>
+<protein>
+<recommendedName>
+<fullName>Mucin-13</fullName>
+<shortName>MUC-13</shortName>
+</recommendedName>
+</protein>
+<gene>
+<name type="primary">Muc13</name>
+</gene>
+<organism>
+<name type="scientific">Rattus norvegicus</name>
+<name type="common">Rat</name>
+<dbReference type="NCBI Taxonomy" id="10116"/>
+<lineage>
+<taxon>Eukaryota</taxon>
+<taxon>Metazoa</taxon>
+<taxon>Chordata</taxon>
+<taxon>Craniata</taxon>
+<taxon>Vertebrata</taxon>
+<taxon>Euteleostomi</taxon>
+<taxon>Mammalia</taxon>
+<taxon>Eutheria</taxon>
+<taxon>Euarchontoglires</taxon>
+<taxon>Glires</taxon>
+<taxon>Rodentia</taxon>
+<taxon>Sciurognathi</taxon>
+<taxon>Muroidea</taxon>
+<taxon>Muridae</taxon>
+<taxon>Murinae</taxon>
+<taxon>Rattus</taxon>
+</lineage>
+</organism>
+<reference key="1">
+<citation type="submission" date="1997-02" db="EMBL/GenBank/DDBJ databases">
+<authorList>
+<person name="Hajdu A."/>
+<person name="Flanagan P.R."/>
+</authorList>
+</citation>
+<scope>NUCLEOTIDE SEQUENCE [MRNA]</scope>
+<source>
+<tissue>Intestine</tissue>
+</source>
+</reference>
+<comment type="function">
+<text>Epithelial and hemopoietic transmembrane mucin that may play a role in cell signaling.</text>
+</comment>
+<comment type="subunit">
+<text evidence="1">Homodimer of beta subunits.</text>
+</comment>
+<comment type="subcellular location">
+<subcellularLocation>
+<location evidence="5">Cell membrane</location>
+<topology evidence="5">Single-pass type I membrane protein</topology>
+</subcellularLocation>
+<subcellularLocation>
+<location evidence="1">Secreted</location>
+</subcellularLocation>
+<text evidence="1">Also exists as a soluble form.</text>
+</comment>
+<comment type="PTM">
+<text evidence="1">Cleaved into two subunits, alpha and beta, probably between the first EGF domain and the SEA domain. Beta subunit contains the cytoplasmic tail and alpha subunit the extracellular tail. The homooligomerization into dimers is dependent on intrachain disulfide bonds (By similarity).</text>
+</comment>
+<comment type="PTM">
+<text evidence="1">Highly glycosylated.</text>
+</comment>
+<dbReference type="EMBL" id="U89744">
+<property type="protein sequence ID" value="AAB49894.1"/>
+<property type="molecule type" value="mRNA"/>
+</dbReference>
+<dbReference type="UniGene" id="Rn.10719"/>
+<dbReference type="PRIDE" id="P97881"/>
+<dbReference type="UCSC" id="RGD:708547">
+<property type="organism name" value="rat"/>
+</dbReference>
+<dbReference type="RGD" id="708547">
+<property type="gene designation" value="Muc13"/>
+</dbReference>
+<dbReference type="HOVERGEN" id="HBG052532"/>
+<dbReference type="InParanoid" id="P97881"/>
+<dbReference type="PhylomeDB" id="P97881"/>
+<dbReference type="PRO" id="PR:P97881"/>
+<dbReference type="Proteomes" id="UP000002494">
+<property type="component" value="Unplaced"/>
+</dbReference>
+<dbReference type="GO" id="GO:0016324">
+<property type="term" value="C:apical plasma membrane"/>
+<property type="evidence" value="ECO:0000314"/>
+<property type="project" value="RGD"/>
+</dbReference>
+<dbReference type="GO" id="GO:0005576">
+<property type="term" value="C:extracellular region"/>
+<property type="evidence" value="ECO:0000501"/>
+<property type="project" value="UniProtKB-SubCell"/>
+</dbReference>
+<dbReference type="GO" id="GO:0016021">
+<property type="term" value="C:integral component of membrane"/>
+<property type="evidence" value="ECO:0000501"/>
+<property type="project" value="UniProtKB-KW"/>
+</dbReference>
+<dbReference type="GO" id="GO:0030277">
+<property type="term" value="P:maintenance of gastrointestinal epithelium"/>
+<property type="evidence" value="ECO:0000318"/>
+<property type="project" value="GO_Central"/>
+</dbReference>
+<dbReference type="InterPro" id="IPR000742">
+<property type="entry name" value="EGF-like_dom"/>
+</dbReference>
+<dbReference type="InterPro" id="IPR000082">
+<property type="entry name" value="SEA_dom"/>
+</dbReference>
+<dbReference type="SMART" id="SM00181">
+<property type="entry name" value="EGF"/>
+<property type="match status" value="3"/>
+</dbReference>
+<dbReference type="SMART" id="SM00200">
+<property type="entry name" value="SEA"/>
+<property type="match status" value="1"/>
+</dbReference>
+<dbReference type="PROSITE" id="PS01186">
+<property type="entry name" value="EGF_2"/>
+<property type="match status" value="2"/>
+</dbReference>
+<dbReference type="PROSITE" id="PS50026">
+<property type="entry name" value="EGF_3"/>
+<property type="match status" value="1"/>
+</dbReference>
+<dbReference type="PROSITE" id="PS50024">
+<property type="entry name" value="SEA"/>
+<property type="match status" value="1"/>
+</dbReference>
+<proteinExistence type="evidence at transcript level"/>
+<keyword id="KW-1003">Cell membrane</keyword>
+<keyword id="KW-0181">Complete proteome</keyword>
+<keyword id="KW-1015">Disulfide bond</keyword>
+<keyword id="KW-0245">EGF-like domain</keyword>
+<keyword id="KW-0325">Glycoprotein</keyword>
+<keyword id="KW-0472">Membrane</keyword>
+<keyword id="KW-1185">Reference proteome</keyword>
+<keyword id="KW-0677">Repeat</keyword>
+<keyword id="KW-0964">Secreted</keyword>
+<keyword id="KW-0732">Signal</keyword>
+<keyword id="KW-0812">Transmembrane</keyword>
+<keyword id="KW-1133">Transmembrane helix</keyword>
+<feature type="signal peptide">
+<location>
+<begin position="1"/>
+<end status="unknown"/>
+</location>
+</feature>
+<feature type="chain" description="Mucin-13" id="PRO_0000019286">
+<location>
+<begin status="unknown"/>
+<end position="547"/>
+</location>
+</feature>
+<feature type="transmembrane region" description="Helical" evidence="2">
+<location>
+<begin position="459"/>
+<end position="479"/>
+</location>
+</feature>
+<feature type="topological domain" description="Cytoplasmic" evidence="2">
+<location>
+<begin position="480"/>
+<end position="547"/>
+</location>
+</feature>
+<feature type="domain" description="EGF-like 1" evidence="3">
+<location>
+<begin position="210"/>
+<end position="249"/>
+</location>
+</feature>
+<feature type="domain" description="SEA" evidence="4">
+<location>
+<begin position="250"/>
+<end position="366"/>
+</location>
+</feature>
+<feature type="domain" description="EGF-like 2" evidence="3">
+<location>
+<begin position="361"/>
+<end position="401"/>
+</location>
+</feature>
+<feature type="domain" description="EGF-like 3" evidence="3">
+<location>
+<begin position="401"/>
+<end position="441"/>
+</location>
+</feature>
+<feature type="compositionally biased region" description="Thr-rich">
+<location>
+<begin position="8"/>
+<end position="208"/>
+</location>
+</feature>
+<feature type="compositionally biased region" description="Poly-Ser">
+<location>
+<begin position="204"/>
+<end position="207"/>
+</location>
+</feature>
+<feature type="glycosylation site" description="N-linked (GlcNAc...)" evidence="2">
+<location>
+<position position="243"/>
+</location>
+</feature>
+<feature type="glycosylation site" description="N-linked (GlcNAc...)" evidence="2">
+<location>
+<position position="244"/>
+</location>
+</feature>
+<feature type="glycosylation site" description="N-linked (GlcNAc...)" evidence="2">
+<location>
+<position position="263"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="214"/>
+<end position="225"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="219"/>
+<end position="234"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="236"/>
+<end position="248"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="365"/>
+<end position="378"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="370"/>
+<end position="384"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="386"/>
+<end position="400"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="409"/>
+<end position="427"/>
+</location>
+</feature>
+<feature type="disulfide bond" evidence="3">
+<location>
+<begin position="429"/>
+<end position="440"/>
+</location>
+</feature>
+<evidence key="1" type="ECO:0000250"/>
+<evidence key="2" type="ECO:0000255"/>
+<evidence key="3" type="ECO:0000255">
+<source>
+<dbReference type="PROSITE-ProRule" id="PRU00076"/>
+</source>
+</evidence>
+<evidence key="4" type="ECO:0000255">
+<source>
+<dbReference type="PROSITE-ProRule" id="PRU00188"/>
+</source>
+</evidence>
+<evidence key="5" type="ECO:0000305"/>
+<sequence length="547" mass="57652" checksum="EA86608C704080CF" modified="1997-05-01" version="1" precursor="true">
+MSQSSGGTSTPTTTATQPTSTSTQTPGTTQLLSTTSTPTTTATQPTSTSTQTPGTTQLPS
+TTSTPTTTATQPTXTSTQTPGTTQLPGTTSTPTTTATQPTSTSFQTPGTTQLPSSTSTPT
+TTATQPTSTASQTPGTTQPPGGASSPTTTVTQPTGSSSQTPGTTQPPGGASTPTTTVTQP
+TGSSSQTSGTTQPPGGASSSTVTSSSSTGSNDPCNSNPCKSPASCVKLYDSYFCLCLEGY
+YYNNSSSCVKGTTFPGEIGMSVNETTDLEDKNSVNYQTLHSSVVKFFENTFKKTDYGQTV
+ILKVSKDSLMSSRSVMRAATQTVYVSVVNMFGENTKEDEESVASVIKEAVKTDNNVERYF
+QQDRCDYYGCVKSGSNVCRNGLQCTCKPGLERLNPQVPFCVAPTCSEPCSAEKKQLCLKK
+DNGAMECGCMAGYRKANGKCEECPFGYSGMDCKDQFQLILTIVGTIAGAFILILLIVFIV
+SMRSKNKKKSGEEQNLIEDDFHNLRMRPTGFSNFGADTSIFPKVKTGVPSQTSNPYANHR
+SMPRPDY
+</sequence>
+</entry>
+<copyright>
+Copyrighted by the UniProt Consortium, see http://www.uniprot.org/terms
+Distributed under the Creative Commons Attribution-NoDerivs License
+</copyright>
+</uniprot>
\ No newline at end of file
diff --git a/Tests/SwissProt/R5HY77.xml b/Tests/SwissProt/R5HY77.xml
new file mode 100644
index 0000000..f921d10
--- /dev/null
+++ b/Tests/SwissProt/R5HY77.xml
@@ -0,0 +1,215 @@
+<?xml version='1.0' encoding='UTF-8'?>
+<uniprot xmlns="http://uniprot.org/uniprot" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://uniprot.org/uniprot http://www.uniprot.org/support/docs/uniprot.xsd">
+<entry dataset="TrEMBL" created="2013-07-24" modified="2016-09-07" version="15">
+<accession>R5HY77</accession>
+<name>R5HY77_9BACT</name>
+<protein>
+<recommendedName>
+<fullName evidence="1">Elongation factor Ts</fullName>
+<shortName evidence="1">EF-Ts</shortName>
+</recommendedName>
+</protein>
+<gene>
+<name type="primary" evidence="1">tsf</name>
+<name type="ORF" evidence="3">BN796_01519</name>
+</gene>
+<organism evidence="3 4">
+<name type="scientific">Alistipes sp. CAG:831</name>
+<dbReference type="NCBI Taxonomy" id="1262698"/>
+<lineage>
+<taxon>Bacteria</taxon>
+<taxon>Bacteroidetes</taxon>
+<taxon>Bacteroidia</taxon>
+<taxon>Bacteroidales</taxon>
+<taxon>Rikenellaceae</taxon>
+<taxon>Alistipes</taxon>
+<taxon>environmental samples</taxon>
+</lineage>
+</organism>
+<reference key="1" evidence="3 4">
+<citation type="submission" date="2012-11" db="EMBL/GenBank/DDBJ databases">
+<title>Dependencies among metagenomic species, viruses, plasmids and units of genetic variation.</title>
+<authorList>
+<person name="Nielsen H.B."/>
+<person name="Almeida M."/>
+<person name="Juncker A.S."/>
+<person name="Rasmussen S."/>
+<person name="Li J."/>
+<person name="Sunagawa S."/>
+<person name="Plichta D."/>
+<person name="Gautier L."/>
+<person name="Le Chatelier E."/>
+<person name="Peletier E."/>
+<person name="Bonde I."/>
+<person name="Nielsen T."/>
+<person name="Manichanh C."/>
+<person name="Arumugam M."/>
+<person name="Batto J."/>
+<person name="Santos M.B.Q.D."/>
+<person name="Blom N."/>
+<person name="Borruel N."/>
+<person name="Burgdorf K.S."/>
+<person name="Boumezbeur F."/>
+<person name="Casellas F."/>
+<person name="Dore J."/>
+<person name="Guarner F."/>
+<person name="Hansen T."/>
+<person name="Hildebrand F."/>
+<person name="Kaas R.S."/>
+<person name="Kennedy S."/>
+<person name="Kristiansen K."/>
+<person name="Kultima J.R."/>
+<person name="Leonard P."/>
+<person name="Levenez F."/>
+<person name="Lund O."/>
+<person name="Moumen B."/>
+<person name="Le Paslier D."/>
+<person name="Pons N."/>
+<person name="Pedersen O."/>
+<person name="Prifti E."/>
+<person name="Qin J."/>
+<person name="Raes J."/>
+<person name="Tap J."/>
+<person name="Tims S."/>
+<person name="Ussery D.W."/>
+<person name="Yamada T."/>
+<person name="MetaHit consortium"/>
+<person name="Renault P."/>
+<person name="Sicheritz-Ponten T."/>
+<person name="Bork P."/>
+<person name="Wang J."/>
+<person name="Brunak S."/>
+<person name="Ehrlich S.D."/>
+</authorList>
+</citation>
+<scope>NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]</scope>
+<source>
+<strain evidence="4">MGS:831</strain>
+</source>
+</reference>
+<comment type="function">
+<text evidence="1">Associates with the EF-Tu.GDP complex and induces the exchange of GDP to GTP. It remains bound to the aminoacyl-tRNA.EF-Tu.GTP complex up to the GTP hydrolysis stage on the ribosome.</text>
+</comment>
+<comment type="subcellular location">
+<subcellularLocation>
+<location evidence="1">Cytoplasm</location>
+</subcellularLocation>
+</comment>
+<comment type="similarity">
+<text evidence="1">Belongs to the EF-Ts family.</text>
+</comment>
+<comment type="caution">
+<text evidence="3">The sequence shown here is derived from an EMBL/GenBank/DDBJ whole genome shotgun (WGS) entry which is preliminary data.</text>
+</comment>
+<dbReference type="EMBL" id="CAYB010000029">
+<property type="protein sequence ID" value="CCY34813.1"/>
+<property type="molecule type" value="Genomic_DNA"/>
+</dbReference>
+<dbReference type="Proteomes" id="UP000018094">
+<property type="component" value="Unassembled WGS sequence"/>
+</dbReference>
+<dbReference type="GO" id="GO:0005737">
+<property type="term" value="C:cytoplasm"/>
+<property type="evidence" value="ECO:0000501"/>
+<property type="project" value="UniProtKB-SubCell"/>
+</dbReference>
+<dbReference type="GO" id="GO:0003746">
+<property type="term" value="F:translation elongation factor activity"/>
+<property type="evidence" value="ECO:0000501"/>
+<property type="project" value="UniProtKB-HAMAP"/>
+</dbReference>
+<dbReference type="Gene3D" id="3.30.479.20">
+<property type="match status" value="3"/>
+</dbReference>
+<dbReference type="HAMAP" id="MF_00050">
+<property type="entry name" value="EF_Ts"/>
+<property type="match status" value="1"/>
+</dbReference>
+<dbReference type="InterPro" id="IPR001816">
+<property type="entry name" value="Transl_elong_EFTs/EF1B"/>
+</dbReference>
+<dbReference type="InterPro" id="IPR014039">
+<property type="entry name" value="Transl_elong_EFTs/EF1B_dimer"/>
+</dbReference>
+<dbReference type="InterPro" id="IPR018101">
+<property type="entry name" value="Transl_elong_Ts_CS"/>
+</dbReference>
+<dbReference type="InterPro" id="IPR009060">
+<property type="entry name" value="UBA-like"/>
+</dbReference>
+<dbReference type="PANTHER" id="PTHR11741">
+<property type="entry name" value="PTHR11741"/>
+<property type="match status" value="2"/>
+</dbReference>
+<dbReference type="Pfam" id="PF00889">
+<property type="entry name" value="EF_TS"/>
+<property type="match status" value="1"/>
+</dbReference>
+<dbReference type="SUPFAM" id="SSF46934">
+<property type="entry name" value="SSF46934"/>
+<property type="match status" value="1"/>
+</dbReference>
+<dbReference type="SUPFAM" id="SSF54713">
+<property type="entry name" value="SSF54713"/>
+<property type="match status" value="4"/>
+</dbReference>
+<dbReference type="TIGRFAMs" id="TIGR00116">
+<property type="entry name" value="tsf"/>
+<property type="match status" value="1"/>
+</dbReference>
+<dbReference type="PROSITE" id="PS01126">
+<property type="entry name" value="EF_TS_1"/>
+<property type="match status" value="1"/>
+</dbReference>
+<proteinExistence type="inferred from homology"/>
+<keyword id="KW-0181" evidence="4">Complete proteome</keyword>
+<keyword id="KW-0963" evidence="1">Cytoplasm</keyword>
+<keyword id="KW-0251" evidence="1 3">Elongation factor</keyword>
+<keyword id="KW-0648" evidence="1 3">Protein biosynthesis</keyword>
+<keyword id="KW-1185" evidence="4">Reference proteome</keyword>
+<feature type="domain" description="EF_TS" evidence="2">
+<location>
+<begin position="71"/>
+<end position="328"/>
+</location>
+</feature>
+<feature type="region of interest" description="Involved in Mg(2+) ion dislocation from EF-Tu" evidence="1">
+<location>
+<begin position="79"/>
+<end position="82"/>
+</location>
+</feature>
+<evidence key="1" type="ECO:0000256">
+<source>
+<dbReference type="HAMAP-Rule" id="MF_00050"/>
+</source>
+</evidence>
+<evidence key="2" type="ECO:0000259">
+<source>
+<dbReference type="Pfam" id="PF00889"/>
+</source>
+</evidence>
+<evidence key="3" type="ECO:0000313">
+<source>
+<dbReference type="EMBL" id="CCY34813.1"/>
+</source>
+</evidence>
+<evidence key="4" type="ECO:0000313">
+<source>
+<dbReference type="Proteomes" id="UP000018094"/>
+</source>
+</evidence>
+<sequence length="331" mass="35648" checksum="ECF3BC99C5D8BFF1" modified="2013-07-24" version="1">
+MEIKAIDVQKLRKMTGAGMMDCKKALIEANGDYERAKEIIREKGKLVAAKRADRETSEGA
+VVAKVDGSKGILLCLGCETDFVAKNEEFQALANAIADAAIKALPADMEALKACTIADGRT
+VEAAITEQIGKTGEKHSLVAYEKVEAPYIISYIHTINGKLGAIVGFNKEVPVDLAKGVAM
+QVASMNPVAVNKEAVPQNVIDEELKVAVEKTKEELVKKAVDAALSKAGINPAHVDSEDHI
+QSNTAKGWLTPEQADQAREIIRTVSAEKAANLQEAMVNNIANGRLNKFFKENTLEEQEYQ
+MGDGKTSVKAAIAAVDKDAKVTVFKRISLVD
+</sequence>
+</entry>
+<copyright>
+Copyrighted by the UniProt Consortium, see http://www.uniprot.org/terms
+Distributed under the Creative Commons Attribution-NoDerivs License
+</copyright>
+</uniprot>
\ No newline at end of file
diff --git a/Tests/SwissProt/README b/Tests/SwissProt/README
index fd7b3da..a732b83 100644
--- a/Tests/SwissProt/README
+++ b/Tests/SwissProt/README
@@ -16,7 +16,7 @@ sp003 37 143E_HUMAN
sp004 38 NDOA_PSEPU broken RC line
sp005 38 NU3M_BALPH broken RC line
sp006 37 TCMO_STRGA comment with no topic
-sp007 39 CLD1_HUMAN broken RX line, broken DR lines
+sp007 39 CLD1_HUMAN broken RX line, broken DR lines
(from katel at worldpath.net)
sp008 39 1A02_HUMAN contains 2 AC lines
sp009 CHS3_BROFI contains an OX line
@@ -28,6 +28,7 @@ sp014 SP 39.14 PSBL_ORYSA OX spans 2 lines
sp015 IPI IPI00383150.2 Only two DT lines, strange format of DT lines
Dot versions in DT lines, no DE line
sp016 FOS_HUMAN New PE line from UniProtKB rel 12.0, 24-Jul-2007
+P84001.xml Mass spec struct comment with unknown loc
KEYWLIST TEST FILE
diff --git a/Tests/UniProt/goa_yeast.gaf b/Tests/UniProt/goa_yeast.gaf
new file mode 100644
index 0000000..f2f61c2
--- /dev/null
+++ b/Tests/UniProt/goa_yeast.gaf
@@ -0,0 +1,599 @@
+!gaf-version: 2.1
+!
+!The set of protein accessions included in this file is based on UniProt reference proteomes, which provide one protein per gene.
+!They include the protein sequences annotated in Swiss-Prot or the longest TrEMBL transcript if there is no Swiss-Prot record.
+!If a particular protein accession is not annotated with GO, then it will not appear in this file.
+!
+!Note that the annotation set in this file is filtered in order to reduce redundancy; the full, unfiltered set can be found in
+!ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/UNIPROT/goa_uniprot_all.gz
+!
+!Generated: 2016-10-03 09:46
+!GO-version: http://purl.obolibrary.org/obo/go/releases/2016-10-01/go.owl
+!
+UniProtKB A0A023PXA5 YAL019W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YAL019W-A YA19A_YEAST|YAL019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXA5 YAL019W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YAL019W-A YA19A_YEAST|YAL019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXA5 YAL019W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YAL019W-A YA19A_YEAST|YAL019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXB0 YAR019W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YAR019W-A YA019_YEAST|YAR019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXB0 YAR019W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YAR019W-A YA019_YEAST|YAR019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXB0 YAR019W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YAR019W-A YA019_YEAST|YAR019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXB5 IRC2 GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein IRC2 IRC2_YEAST|IRC2|YDR112W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXB5 IRC2 GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein IRC2 IRC2_YEAST|IRC2|YDR112W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXB5 IRC2 GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein IRC2 IRC2_YEAST|IRC2|YDR112W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXB5 IRC2 GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein IRC2 IRC2_YEAST|IRC2|YDR112W protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXB9 YDR199W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YDR199W YD99W_YEAST|YDR199W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXB9 YDR199W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YDR199W YD99W_YEAST|YDR199W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXB9 YDR199W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YDR199W YD99W_YEAST|YDR199W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXB9 YDR199W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YDR199W YD99W_YEAST|YDR199W protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXC2 YEL053W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YEL053W-A YE53A_YEAST|YEL053W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXC2 YEL053W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YEL053W-A YE53A_YEAST|YEL053W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXC2 YEL053W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YEL053W-A YE53A_YEAST|YEL053W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXC7 YER068C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER068C-A YE068_YEAST|YER068C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXC7 YER068C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER068C-A YE068_YEAST|YER068C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXC7 YER068C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER068C-A YE068_YEAST|YER068C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXC7 YER068C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER068C-A YE068_YEAST|YER068C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXD3 YER088C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER088C-A YE88A_YEAST|YER088C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD3 YER088C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER088C-A YE88A_YEAST|YER088C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD3 YER088C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER088C-A YE88A_YEAST|YER088C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD5 YER147C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER147C-A YE147_YEAST|YER147C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD5 YER147C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER147C-A YE147_YEAST|YER147C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD5 YER147C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER147C-A YE147_YEAST|YER147C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD5 YER147C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER147C-A YE147_YEAST|YER147C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXD9 YFL015W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YFL015W-A YF015_YEAST|YFL015W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD9 YFL015W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YFL015W-A YF015_YEAST|YFL015W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD9 YFL015W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YFL015W-A YF015_YEAST|YFL015W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXD9 YFL015W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YFL015W-A YF015_YEAST|YFL015W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXE5 YHL006W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHL006W-A YH006_YEAST|YHL006W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXE5 YHL006W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHL006W-A YH006_YEAST|YHL006W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXE5 YHL006W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHL006W-A YH006_YEAST|YHL006W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXE8 YHR028W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR028W-A YH028_YEAST|YHR028W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXE8 YHR028W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR028W-A YH028_YEAST|YHR028W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF2 YHR071C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR071C-A YH071_YEAST|YHR071C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF2 YHR071C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR071C-A YH071_YEAST|YHR071C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF2 YHR071C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR071C-A YH071_YEAST|YHR071C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF5 YHR218W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized helicase-like protein YHR218W-A YH218_YEAST|YHR218W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF5 YHR218W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized helicase-like protein YHR218W-A YH218_YEAST|YHR218W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF5 YHR218W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized helicase-like protein YHR218W-A YH218_YEAST|YHR218W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF8 YIL066W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YIL066W-A YI066_YEAST|YIL066W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF8 YIL066W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YIL066W-A YI066_YEAST|YIL066W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF8 YIL066W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YIL066W-A YI066_YEAST|YIL066W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXF8 YIL066W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YIL066W-A YI066_YEAST|YIL066W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXG3 YIL156W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YIL156W-A YI56A_YEAST|YIL156W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXG3 YIL156W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YIL156W-A YI56A_YEAST|YIL156W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXG3 YIL156W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YIL156W-A YI56A_YEAST|YIL156W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXG3 YIL156W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YIL156W-A YI56A_YEAST|YIL156W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXG7 YLR230W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YLR230W YL230_YEAST|YLR230W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXG7 YLR230W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YLR230W YL230_YEAST|YLR230W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXG7 YLR230W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YLR230W YL230_YEAST|YLR230W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXG7 YLR230W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YLR230W YL230_YEAST|YLR230W protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXH2 YML031C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YML031C-A YM31A_YEAST|YML031C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH2 YML031C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YML031C-A YM31A_YEAST|YML031C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH2 YML031C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YML031C-A YM31A_YEAST|YML031C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH4 YAL026C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YAL026C-A YA026_YEAST|YAL026C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH4 YAL026C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YAL026C-A YA026_YEAST|YAL026C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH4 YAL026C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YAL026C-A YA026_YEAST|YAL026C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH4 YAL026C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YAL026C-A YA026_YEAST|YAL026C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXH5 YBR126W-B GO:0003674 GO_REF:0000015 ND F Uncharacterized protein YBR126W-B YB26B_YEAST|YBR126W-B protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH5 YBR126W-B GO:0005575 GO_REF:0000015 ND C Uncharacterized protein YBR126W-B YB26B_YEAST|YBR126W-B protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH5 YBR126W-B GO:0008150 GO_REF:0000015 ND P Uncharacterized protein YBR126W-B YB26B_YEAST|YBR126W-B protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXH6 YMR172C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR172C-A YM172_YEAST|YMR172C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXH6 YMR172C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YMR172C-A YM172_YEAST|YMR172C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXH6 YMR172C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR172C-A YM172_YEAST|YMR172C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXH6 YMR172C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR172C-A YM172_YEAST|YMR172C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXH9 YDR149C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YDR149C YD149_YEAST|YDR149C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXH9 YDR149C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YDR149C YD149_YEAST|YDR149C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXH9 YDR149C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YDR149C YD149_YEAST|YDR149C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXH9 YDR149C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YDR149C YD149_YEAST|YDR149C protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXI0 YMR306C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR306C-A YM306_YEAST|YMR306C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXI0 YMR306C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YMR306C-A YM306_YEAST|YMR306C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXI0 YMR306C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR306C-A YM306_YEAST|YMR306C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXI0 YMR306C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR306C-A YM306_YEAST|YMR306C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXI4 YDR203W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR203W YD203_YEAST|YDR203W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXI4 YDR203W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR203W YD203_YEAST|YDR203W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXI4 YDR203W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR203W YD203_YEAST|YDR203W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXI5 YPR197C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YPR197C YP97C_YEAST|YPR197C protein taxon:559292 20010119 SGD
+UniProtKB A0A023PXI5 YPR197C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YPR197C YP97C_YEAST|YPR197C protein taxon:559292 20010119 SGD
+UniProtKB A0A023PXI5 YPR197C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YPR197C YP97C_YEAST|YPR197C protein taxon:559292 20010119 SGD
+UniProtKB A0A023PXI8 YER006C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER006C-A YE006_YEAST|YER006C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXI8 YER006C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER006C-A YE006_YEAST|YER006C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXI8 YER006C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER006C-A YE006_YEAST|YER006C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXJ3 YER076W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER076W-A YE76A_YEAST|YER076W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXJ3 YER076W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER076W-A YE76A_YEAST|YER076W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXJ3 YER076W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER076W-A YE76A_YEAST|YER076W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXJ3 YER076W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER076W-A YE76A_YEAST|YER076W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXJ7 YER107W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER107W-A YE107_YEAST|YER107W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXJ7 YER107W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER107W-A YE107_YEAST|YER107W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXJ7 YER107W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER107W-A YE107_YEAST|YER107W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXK2 YER148W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER148W-A YE148_YEAST|YER148W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXK2 YER148W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER148W-A YE148_YEAST|YER148W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXK2 YER148W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER148W-A YE148_YEAST|YER148W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXK2 YER148W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER148W-A YE148_YEAST|YER148W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXK7 YFL021C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YFL021C-A YF021_YEAST|YFL021C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXK7 YFL021C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YFL021C-A YF021_YEAST|YFL021C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXK7 YFL021C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YFL021C-A YF021_YEAST|YFL021C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXK7 YFL021C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YFL021C-A YF021_YEAST|YFL021C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXL1 YHL019W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YHL019W-A YH019_YEAST|YHL019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXL1 YHL019W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YHL019W-A YH019_YEAST|YHL019W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXL1 YHL019W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YHL019W-A YH019_YEAST|YHL019W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXL7 YHR056W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YHR056W-A YH056_YEAST|YHR056W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXL7 YHR056W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YHR056W-A YH056_YEAST|YHR056W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXL7 YHR056W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YHR056W-A YH056_YEAST|YHR056W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXL7 YHR056W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YHR056W-A YH056_YEAST|YHR056W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXM2 YHR131W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR131W-A YH131_YEAST|YHR131W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXM2 YHR131W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR131W-A YH131_YEAST|YHR131W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXM2 YHR131W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR131W-A YH131_YEAST|YHR131W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXM7 YIL020C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL020C-A YIL20_YEAST|YIL020C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXM7 YIL020C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YIL020C-A YIL20_YEAST|YIL020C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXM7 YIL020C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL020C-A YIL20_YEAST|YIL020C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXM7 YIL020C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YIL020C-A YIL20_YEAST|YIL020C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXN3 YIL068W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL068W-A YI068_YEAST|YIL068W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXN3 YIL068W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YIL068W-A YI068_YEAST|YIL068W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXN3 YIL068W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL068W-A YI068_YEAST|YIL068W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXN9 YIL171W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YIL171W-A YI171_YEAST|YIL171W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXN9 YIL171W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YIL171W-A YI171_YEAST|YIL171W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXN9 YIL171W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YIL171W-A YI171_YEAST|YIL171W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PXN9 YIL171W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YIL171W-A YI171_YEAST|YIL171W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXP4 YLR235C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR235C YL235_YEAST|YLR235C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXP4 YLR235C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR235C YL235_YEAST|YLR235C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXP7 YML034C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YML034C-A YM034_YEAST|YML034C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXP7 YML034C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YML034C-A YM034_YEAST|YML034C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXP7 YML034C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YML034C-A YM034_YEAST|YML034C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXQ4 YMR173W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR173W-A YM173_YEAST|YMR173W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXQ4 YMR173W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR173W-A YM173_YEAST|YMR173W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXQ4 YMR173W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR173W-A YM173_YEAST|YMR173W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PXQ9 YMR316C-B GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR316C-B YM316_YEAST|YMR316C-B protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXQ9 YMR316C-B GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YMR316C-B YM316_YEAST|YMR316C-B protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXQ9 YMR316C-B GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR316C-B YM316_YEAST|YMR316C-B protein taxon:559292 20021126 SGD
+UniProtKB A0A023PXQ9 YMR316C-B GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR316C-B YM316_YEAST|YMR316C-B protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYC6 YAL016C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YAL016C-A YA16A_YEAST|YAL016C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYC6 YAL016C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YAL016C-A YA16A_YEAST|YAL016C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYC6 YAL016C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YAL016C-A YA16A_YEAST|YAL016C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYD0 YAL059C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YAL059C-A YA059_YEAST|YAL059C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYD0 YAL059C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YAL059C-A YA059_YEAST|YAL059C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYD0 YAL059C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YAL059C-A YA059_YEAST|YAL059C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYD0 YAL059C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YAL059C-A YA059_YEAST|YAL059C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYD3 YDR094W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR094W YD94W_YEAST|YDR094W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYD3 YDR094W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR094W YD94W_YEAST|YDR094W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYD3 YDR094W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR094W YD94W_YEAST|YDR094W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYD7 YDR187C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YDR187C YD87C_YEAST|YDR187C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYD7 YDR187C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YDR187C YD87C_YEAST|YDR187C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYD7 YDR187C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YDR187C YD87C_YEAST|YDR187C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYD7 YDR187C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YDR187C YD87C_YEAST|YDR187C protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYD9 YEL018C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YEL018C-A YE018_YEAST|YEL018C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYD9 YEL018C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YEL018C-A YE018_YEAST|YEL018C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYD9 YEL018C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YEL018C-A YE018_YEAST|YEL018C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYE4 YER067C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER067C-A YE067_YEAST|YER067C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYE4 YER067C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER067C-A YE067_YEAST|YER067C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYE4 YER067C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER067C-A YE067_YEAST|YER067C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYE4 YER067C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER067C-A YE067_YEAST|YER067C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYE9 YER087C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER087C-A YE087_YEAST|YER087C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYE9 YER087C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER087C-A YE087_YEAST|YER087C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYE9 YER087C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER087C-A YE087_YEAST|YER087C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYF4 YER145C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER145C-A YE145_YEAST|YER145C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYF4 YER145C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER145C-A YE145_YEAST|YER145C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYF4 YER145C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER145C-A YE145_YEAST|YER145C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYF7 YER172C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER172C-A YE172_YEAST|YER172C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYF7 YER172C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER172C-A YE172_YEAST|YER172C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYF7 YER172C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER172C-A YE172_YEAST|YER172C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYG1 YHL002C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YHL002C-A YH002_YEAST|YHL002C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYG1 YHL002C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YHL002C-A YH002_YEAST|YHL002C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYG1 YHL002C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YHL002C-A YH002_YEAST|YHL002C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYG1 YHL002C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YHL002C-A YH002_YEAST|YHL002C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYG5 YHL046W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHL046W-A YH046_YEAST|YHL046W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYG5 YHL046W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHL046W-A YH046_YEAST|YHL046W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYG5 YHL046W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHL046W-A YH046_YEAST|YHL046W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH0 YHR070C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR070C-A YH070_YEAST|YHR070C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH0 YHR070C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR070C-A YH070_YEAST|YHR070C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH0 YHR070C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR070C-A YH070_YEAST|YHR070C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH5 YHR193C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR193C-A YH193_YEAST|YHR193C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH5 YHR193C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR193C-A YH193_YEAST|YHR193C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH5 YHR193C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR193C-A YH193_YEAST|YHR193C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH8 YIL047C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL047C-A YI047_YEAST|YIL047C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYH8 YIL047C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL047C-A YI047_YEAST|YIL047C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYI2 YIL142C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL142C-A YI142_YEAST|YIL142C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYI2 YIL142C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL142C-A YI142_YEAST|YIL142C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYI5 YIR036W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YIR036W-A YI036_YEAST|YIR036W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYI5 YIR036W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YIR036W-A YI036_YEAST|YIR036W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYI5 YIR036W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YIR036W-A YI036_YEAST|YIR036W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PYI5 YIR036W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YIR036W-A YI036_YEAST|YIR036W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYJ0 YML009C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YML009C-A YM09A_YEAST|YML009C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ0 YML009C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YML009C-A YM09A_YEAST|YML009C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ0 YML009C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YML009C-A YM09A_YEAST|YML009C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ0 YML009C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YML009C-A YM09A_YEAST|YML009C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYJ4 YMR153C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YMR153C-A YM153_YEAST|YMR153C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ4 YMR153C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YMR153C-A YM153_YEAST|YMR153C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ4 YMR153C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YMR153C-A YM153_YEAST|YMR153C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ7 YMR304C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR304C-A YM304_YEAST|YMR304C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ7 YMR304C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YMR304C-A YM304_YEAST|YMR304C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ7 YMR304C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR304C-A YM304_YEAST|YMR304C-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYJ7 YMR304C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR304C-A YM304_YEAST|YMR304C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PYK2 YPR170C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YPR170C YP170_YEAST|YPR170C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYK2 YPR170C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YPR170C YP170_YEAST|YPR170C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYK2 YPR170C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YPR170C YP170_YEAST|YPR170C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PYK2 YPR170C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YPR170C YP170_YEAST|YPR170C protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZ94 YAL031W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YAL031W-A YA031_YEAST|YAL031W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZ94 YAL031W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YAL031W-A YA031_YEAST|YAL031W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZ94 YAL031W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YAL031W-A YA031_YEAST|YAL031W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZ99 YDR008C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR008C YD008_YEAST|YDR008C protein taxon:559292 20030203 SGD
+UniProtKB A0A023PZ99 YDR008C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR008C YD008_YEAST|YDR008C protein taxon:559292 20030203 SGD
+UniProtKB A0A023PZ99 YDR008C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR008C YD008_YEAST|YDR008C protein taxon:559292 20030203 SGD
+UniProtKB A0A023PZ99 YDR008C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YDR008C YD008_YEAST|YDR008C protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZA4 YDR154C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR154C YD154_YEAST|YDR154C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZA4 YDR154C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR154C YD154_YEAST|YDR154C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZA4 YDR154C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR154C YD154_YEAST|YDR154C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZA9 YDR230W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR230W YD230_YEAST|YDR230W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZA9 YDR230W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR230W YD230_YEAST|YDR230W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZA9 YDR230W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR230W YD230_YEAST|YDR230W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZB3 FMP49 GO:0003674 GO_REF:0000015 ND F Protein FMP49, mitochondrial FMP49_YEAST|FMP49|YER038W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZB3 FMP49 GO:0005739 GO_REF:0000039 IEA UniProtKB-SubCell:SL-0173 C Protein FMP49, mitochondrial FMP49_YEAST|FMP49|YER038W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZB3 FMP49 GO:0008150 GO_REF:0000015 ND P Protein FMP49, mitochondrial FMP49_YEAST|FMP49|YER038W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZB8 YER079C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER079C-A YE079_YEAST|YER079C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZB8 YER079C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER079C-A YE079_YEAST|YER079C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZB8 YER079C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER079C-A YE079_YEAST|YER079C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZC3 YER133W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER133W-A YE133_YEAST|YER133W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZC3 YER133W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER133W-A YE133_YEAST|YER133W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZC3 YER133W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER133W-A YE133_YEAST|YER133W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZC7 YER152W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER152W-A YE152_YEAST|YER152W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZC7 YER152W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER152W-A YE152_YEAST|YER152W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZC7 YER152W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER152W-A YE152_YEAST|YER152W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZD0 YFR036W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YFR036W-A YF036_YEAST|YFR036W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZD0 YFR036W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YFR036W-A YF036_YEAST|YFR036W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZD0 YFR036W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YFR036W-A YF036_YEAST|YFR036W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZD0 YFR036W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YFR036W-A YF036_YEAST|YFR036W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZD5 YHL030W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHL030W-A YH030_YEAST|YHL030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZD5 YHL030W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHL030W-A YH030_YEAST|YHL030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZD5 YHL030W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHL030W-A YH030_YEAST|YHL030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE1 YHR063W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YHR063W-A YH063_YEAST|YHR063W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE1 YHR063W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YHR063W-A YH063_YEAST|YHR063W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE1 YHR063W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YHR063W-A YH063_YEAST|YHR063W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE1 YHR063W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YHR063W-A YH063_YEAST|YHR063W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZE2 YAL047W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YAL047W-A YA047_YEAST|YAL047W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE2 YAL047W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YAL047W-A YA047_YEAST|YAL047W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE2 YAL047W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YAL047W-A YA047_YEAST|YAL047W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE2 YAL047W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YAL047W-A YA047_YEAST|YAL047W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZE4 YHR165W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR165W-A YH165_YEAST|YHR165W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE4 YHR165W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR165W-A YH165_YEAST|YHR165W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE4 YHR165W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR165W-A YH165_YEAST|YHR165W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE6 YDR048C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YDR048C YD048_YEAST|YDR048C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZE6 YDR048C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YDR048C YD048_YEAST|YDR048C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZE6 YDR048C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YDR048C YD048_YEAST|YDR048C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZE6 YDR048C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YDR048C YD048_YEAST|YDR048C protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZE8 YDR157W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR157W YD57W_YEAST|YDR157W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZE8 YDR157W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR157W YD57W_YEAST|YDR157W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZE8 YDR157W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR157W YD57W_YEAST|YDR157W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZE9 YIL029W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL029W-A YI029_YEAST|YIL029W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE9 YIL029W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YIL029W-A YI029_YEAST|YIL029W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZE9 YIL029W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL029W-A YI029_YEAST|YIL029W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF2 YEL009C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YEL009C-A YE009_YEAST|YEL009C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF2 YEL009C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YEL009C-A YE009_YEAST|YEL009C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF2 YEL009C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YEL009C-A YE009_YEAST|YEL009C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF3 YIL071W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL071W-A YI070_YEAST|YIL071W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF3 YIL071W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YIL071W-A YI070_YEAST|YIL071W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF3 YIL071W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL071W-A YI070_YEAST|YIL071W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF3 YIL071W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YIL071W-A YI070_YEAST|YIL071W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZF5 YER046W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER046W-A YE046_YEAST|YER046W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF5 YER046W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER046W-A YE046_YEAST|YER046W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF5 YER046W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER046W-A YE046_YEAST|YER046W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF9 YIR023C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YIR023C-A YI023_YEAST|YIR023C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF9 YIR023C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YIR023C-A YI023_YEAST|YIR023C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF9 YIR023C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YIR023C-A YI023_YEAST|YIR023C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZF9 YIR023C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YIR023C-A YI023_YEAST|YIR023C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZG0 YER084W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER084W-A YE084_YEAST|YER084W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZG0 YER084W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER084W-A YE084_YEAST|YER084W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZG0 YER084W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER084W-A YE084_YEAST|YER084W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZG0 YER084W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER084W-A YE084_YEAST|YER084W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZG4 YLR236C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR236C YL236_YEAST|YLR236C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZG4 YLR236C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR236C YL236_YEAST|YLR236C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZG4 YLR236C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR236C YL236_YEAST|YLR236C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZG5 YER137W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YER137W-A YE137_YEAST|YER137W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZG5 YER137W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YER137W-A YE137_YEAST|YER137W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZG5 YER137W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YER137W-A YE137_YEAST|YER137W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZG9 YML047W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YML047W-A YM047_YEAST|YML047W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZG9 YML047W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YML047W-A YM047_YEAST|YML047W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZG9 YML047W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YML047W-A YM047_YEAST|YML047W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZH1 YER165C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YER165C-A YE165_YEAST|YER165C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH1 YER165C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YER165C-A YE165_YEAST|YER165C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH1 YER165C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YER165C-A YE165_YEAST|YER165C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH1 YER165C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YER165C-A YE165_YEAST|YER165C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZH4 YFR052C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YFR052C-A YF052_YEAST|YFR052C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH4 YFR052C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YFR052C-A YF052_YEAST|YFR052C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH4 YFR052C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YFR052C-A YF052_YEAST|YFR052C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH4 YFR052C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YFR052C-A YF052_YEAST|YFR052C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZH5 YMR290W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR290W-A YM290_YEAST|YMR290W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZH5 YMR290W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YMR290W-A YM290_YEAST|YMR290W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZH5 YMR290W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR290W-A YM290_YEAST|YMR290W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZH5 YMR290W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR290W-A YM290_YEAST|YMR290W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZH9 YHL034W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHL034W-A YH034_YEAST|YHL034W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH9 YHL034W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHL034W-A YH034_YEAST|YHL034W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZH9 YHL034W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHL034W-A YH034_YEAST|YHL034W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZI1 OPI11 GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein OPI11 OPI11_YEAST|OPI11|YPR044C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZI1 OPI11 GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein OPI11 OPI11_YEAST|OPI11|YPR044C protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZI1 OPI11 GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein OPI11 OPI11_YEAST|OPI11|YPR044C protein taxon:559292 20100524 SGD
+UniProtKB A0A023PZI4 YHR069C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YHR069C-A YH069_YEAST|YHR069C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZI4 YHR069C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YHR069C-A YH069_YEAST|YHR069C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZI4 YHR069C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YHR069C-A YH069_YEAST|YHR069C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZI9 YHR182C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR182C-A YH182_YEAST|YHR182C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZI9 YHR182C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR182C-A YH182_YEAST|YHR182C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZI9 YHR182C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR182C-A YH182_YEAST|YHR182C-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZJ3 YIL030W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YIL030W-A YI030_YEAST|YIL030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZJ3 YIL030W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YIL030W-A YI030_YEAST|YIL030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZJ3 YIL030W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YIL030W-A YI030_YEAST|YIL030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZJ3 YIL030W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YIL030W-A YI030_YEAST|YIL030W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZJ9 YIL115W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIL115W-A YI115_YEAST|YIL115W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZJ9 YIL115W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YIL115W-A YI115_YEAST|YIL115W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZJ9 YIL115W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIL115W-A YI115_YEAST|YIL115W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZK4 YIR030W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YIR030W-A YI30A_YEAST|YIR030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZK4 YIR030W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YIR030W-A YI30A_YEAST|YIR030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZK4 YIR030W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YIR030W-A YI30A_YEAST|YIR030W-A protein taxon:559292 20030730 SGD
+UniProtKB A0A023PZK9 YLR458W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YLR458W YL458_YEAST|YLR458W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZK9 YLR458W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YLR458W YL458_YEAST|YLR458W protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZK9 YLR458W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YLR458W YL458_YEAST|YLR458W protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZL2 YMR119W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YMR119W-A YM119_YEAST|YMR119W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZL2 YMR119W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YMR119W-A YM119_YEAST|YMR119W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZL2 YMR119W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YMR119W-A YM119_YEAST|YMR119W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZL2 YMR119W-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YMR119W-A YM119_YEAST|YMR119W-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A023PZL7 YMR294W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YMR294W-A YM294_YEAST|YMR294W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZL7 YMR294W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YMR294W-A YM294_YEAST|YMR294W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZL7 YMR294W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YMR294W-A YM294_YEAST|YMR294W-A protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZM3 YPR050C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized membrane protein YPR050C YP050_YEAST|YPR050C|YP9499.07b protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZM3 YPR050C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized membrane protein YPR050C YP050_YEAST|YPR050C|YP9499.07b protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZM3 YPR050C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized membrane protein YPR050C YP050_YEAST|YPR050C|YP9499.07b protein taxon:559292 20021126 SGD
+UniProtKB A0A023PZM3 YPR050C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized membrane protein YPR050C YP050_YEAST|YPR050C|YP9499.07b protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0003677 GO_REF:0000037 IEA UniProtKB-KW:KW-0238 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0003723 GO_REF:0000037 IEA UniProtKB-KW:KW-0694 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0003887 GO_REF:0000003 IEA EC:2.7.7.7 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0003964 GO_REF:0000003 IEA EC:2.7.7.49 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0004190 GO_REF:0000037 IEA UniProtKB-KW:KW-0064 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0004523 GO_REF:0000003 IEA EC:3.1.26.4 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0005524 GO_REF:0000037 IEA UniProtKB-KW:KW-0067 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0005634 GO_REF:0000039 IEA UniProtKB-SubCell:SL-0191 C Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0005737 GO_REF:0000039 IEA UniProtKB-SubCell:SL-0086 C Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0006278 GO_REF:0000108 IEA GO:0003964 P Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 GOC
+UniProtKB A0A0B7P3V8 TY4B-P GO:0006310 GO_REF:0000037 IEA UniProtKB-KW:KW-0233 P Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0006508 GO_REF:0000037 IEA UniProtKB-KW:KW-0645 P Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0015074 GO_REF:0000037 IEA UniProtKB-KW:KW-0229 P Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0032196 GO_REF:0000037 IEA UniProtKB-KW:KW-0815 P Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0046872 GO_REF:0000037 IEA UniProtKB-KW:KW-0479 F Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 UniProt
+UniProtKB A0A0B7P3V8 TY4B-P GO:0090502 GO_REF:0000108 IEA GO:0004523 P Transposon Ty4-P Gag-Pol polyprotein YP41B_YEAST|TY4B-P|YPLCTy4-1 POL|YPL060C-A protein taxon:559292 20161001 GOC
+UniProtKB A2P2R3 YMR084W GO:0003674 GO_REF:0000015 ND F Putative glutamine--fructose-6-phosphate aminotransferase [isomerizing] YM084_YEAST|YMR084W protein taxon:559292 20030203 SGD
+UniProtKB A2P2R3 YMR084W GO:0004360 GO_REF:0000003 IEA EC:2.6.1.16 F Putative glutamine--fructose-6-phosphate aminotransferase [isomerizing] YM084_YEAST|YMR084W protein taxon:559292 20161001 UniProt
+UniProtKB A2P2R3 YMR084W GO:0005575 GO_REF:0000015 ND C Putative glutamine--fructose-6-phosphate aminotransferase [isomerizing] YM084_YEAST|YMR084W protein taxon:559292 20030203 SGD
+UniProtKB A2P2R3 YMR084W GO:0006048 GO_REF:0000041 IEA UniPathway:UPA00113 P Putative glutamine--fructose-6-phosphate aminotransferase [isomerizing] YM084_YEAST|YMR084W protein taxon:559292 20160423 UniProt
+UniProtKB A2P2R3 YMR084W GO:0006541 GO_REF:0000037 IEA UniProtKB-KW:KW-0315 P Putative glutamine--fructose-6-phosphate aminotransferase [isomerizing] YM084_YEAST|YMR084W protein taxon:559292 20161001 UniProt
+UniProtKB A2P2R3 YMR084W GO:0008150 GO_REF:0000015 ND P Putative glutamine--fructose-6-phosphate aminotransferase [isomerizing] YM084_YEAST|YMR084W protein taxon:559292 20030203 SGD
+UniProtKB A5Z2X5 YPR010C-A GO:0003674 GO_REF:0000015 ND F UPF0495 protein YPR010C-A YP010_YEAST|YPR010C-A protein taxon:559292 20070510 SGD
+UniProtKB A5Z2X5 YPR010C-A GO:0008150 GO_REF:0000015 ND P UPF0495 protein YPR010C-A YP010_YEAST|YPR010C-A protein taxon:559292 20070510 SGD
+UniProtKB A5Z2X5 YPR010C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C UPF0495 protein YPR010C-A YP010_YEAST|YPR010C-A protein taxon:559292 20161001 UniProt
+UniProtKB D6VPM8 YAR023C GO:0003674 GO_REF:0000015 ND F Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20021126 SGD
+UniProtKB D6VPM8 YAR023C GO:0005575 GO_REF:0000015 ND C Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20021126 SGD
+UniProtKB D6VPM8 YAR023C GO:0005783 GO_REF:0000033 IBA PANTHER:PTN000779209 C Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20150930 GO_Central
+UniProtKB D6VPM8 YAR023C GO:0005794 GO_REF:0000033 IBA PANTHER:PTN000779209 C Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20150930 GO_Central
+UniProtKB D6VPM8 YAR023C GO:0005886 GO_REF:0000033 IBA PANTHER:PTN000779209 C Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20150930 GO_Central
+UniProtKB D6VPM8 YAR023C GO:0008150 GO_REF:0000015 ND P Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20021126 SGD
+UniProtKB D6VPM8 YAR023C GO:0016021 GO_REF:0000033 IBA PANTHER:PTN000779209 C Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20150930 GO_Central
+UniProtKB D6VPM8 YAR023C GO:0016050 GO_REF:0000033 IBA PANTHER:PTN000779209 P Putative DUP240 protein YAR023C YAJ3_YEAST|YAR023C protein taxon:559292 20150930 GO_Central
+UniProtKB D6VTK4 STE2 GO:0000750 PMID:3037311 IMP P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20070712 SGD
+UniProtKB D6VTK4 STE2 GO:0000755 PMID:17369365 IDA P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20070712 SGD
+UniProtKB D6VTK4 STE2 GO:0000755 PMID:17369365 IMP P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20070712 SGD
+UniProtKB D6VTK4 STE2 GO:0004934 PMID:2161538 IDA F Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20050512 SGD
+UniProtKB D6VTK4 STE2 GO:0004934 PMID:3001640 ISS F Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20010118 SGD
+UniProtKB D6VTK4 STE2 GO:0004934 PMID:6360378 IMP F Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20100707 SGD
+UniProtKB D6VTK4 STE2 GO:0004934 PMID:9742115 IGI SGD:S000001047|SGD:S000003846|SGD:S000005738 F Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20050512 SGD
+UniProtKB D6VTK4 STE2 GO:0004934 PMID:9742115 IMP F Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20050512 SGD
+UniProtKB D6VTK4 STE2 GO:0005550 GO_REF:0000033 IBA PANTHER:PTN001997318 F Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20150917 GO_Central
+UniProtKB D6VTK4 STE2 GO:0005887 PMID:2839507 IDA C Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20021122 SGD
+UniProtKB D6VTK4 STE2 GO:0030031 PMID:12378535 IMP P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20030207 SGD
+UniProtKB D6VTK4 STE2 GO:0031139 GO_REF:0000033 IBA PANTHER:PTN001997318 P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20150917 GO_Central
+UniProtKB D6VTK4 STE2 GO:0035624 GO_REF:0000033 IBA PANTHER:PTN001997318 P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20150917 GO_Central
+UniProtKB D6VTK4 STE2 GO:0038038 GO_REF:0000033 IBA PANTHER:PTN001997318 C Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20150917 GO_Central
+UniProtKB D6VTK4 STE2 GO:0051260 PMID:16709573 IPI SGD:S000001868 P Pheromone alpha factor receptor STE2_YEAST|STE2|YFL026W protein taxon:559292 20070904 SGD
+UniProtKB D6W196 SAL1 GO:0005471 PMID:18485069 IMP F Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20080714 SGD
+UniProtKB D6W196 SAL1 GO:0005509 PMID:15238515 IDA F Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20040716 SGD
+UniProtKB D6W196 SAL1 GO:0005743 PMID:10930523 ISS C Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20021017 SGD
+UniProtKB D6W196 SAL1 GO:0006839 PMID:18485069 IMP P Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20080714 SGD
+UniProtKB D6W196 SAL1 GO:0015866 PMID:18485069 IMP P Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20080714 SGD
+UniProtKB D6W196 SAL1 GO:0015867 PMID:18485069 IMP P Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20080714 SGD
+UniProtKB D6W196 SAL1 GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20161001 UniProt
+UniProtKB D6W196 SAL1 GO:0055085 GO_REF:0000002 IEA InterPro:IPR002067 P Truncated non-functional calcium-binding mitochondrial carrier SAL1-1 CMC1_YEAST|SAL1|YNL083W|N2312 protein taxon:559292 20161001 InterPro
+UniProtKB I2HB52 YBR056W-A GO:0003674 GO_REF:0000015 ND F Uncharacterized protein YBR056W-A YB56A_YEAST|YBR056W-A protein taxon:559292 20030730 SGD
+UniProtKB I2HB52 YBR056W-A GO:0005575 GO_REF:0000015 ND C Uncharacterized protein YBR056W-A YB56A_YEAST|YBR056W-A protein taxon:559292 20030730 SGD
+UniProtKB I2HB52 YBR056W-A GO:0008150 GO_REF:0000015 ND P Uncharacterized protein YBR056W-A YB56A_YEAST|YBR056W-A protein taxon:559292 20030730 SGD
+UniProtKB I2HB70 YMR316C-A GO:0003674 GO_REF:0000015 ND F Uncharacterized protein YMR316C-A YM16A_YEAST|YMR316C-A protein taxon:559292 20021126 SGD
+UniProtKB I2HB70 YMR316C-A GO:0008150 GO_REF:0000015 ND P Uncharacterized protein YMR316C-A YM16A_YEAST|YMR316C-A protein taxon:559292 20021126 SGD
+UniProtKB O13297 CET1 GO:0004651 PMID:17707331 IDA F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20080102 SGD
+UniProtKB O13297 CET1 GO:0004651 PMID:9345280 IDA F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20140110 SGD
+UniProtKB O13297 CET1 GO:0005515 PMID:10428848 IPI UniProtKB:Q01159 F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20161003 IntAct
+UniProtKB O13297 CET1 GO:0005515 PMID:11805826 IPI UniProtKB:Q01159 F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20161003 IntAct
+UniProtKB O13297 CET1 GO:0005515 PMID:12419231 IPI UniProtKB:Q01159 F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20161003 IntAct
+UniProtKB O13297 CET1 GO:0005515 PMID:16429126 IPI UniProtKB:Q01159 F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20161003 IntAct
+UniProtKB O13297 CET1 GO:0005515 PMID:18719252 IPI UniProtKB:Q01159 F mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20161003 IntAct
+UniProtKB O13297 CET1 GO:0006370 PMID:9345280 IPI UniProtKB:Q01159 P mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20140110 SGD
+UniProtKB O13297 CET1 GO:0031533 PMID:9710603 IGI SGD:S000003098 C mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20080110 SGD
+UniProtKB O13297 CET1 GO:0031533 PMID:9710603 IPI SGD:S000003098 C mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20080110 SGD
+UniProtKB O13297 CET1 GO:0032968 PMID:24172134 IMP P mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20140110 SGD
+UniProtKB O13297 CET1 GO:0098501 PMID:9345280 IDA P mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20140110 SGD
+UniProtKB O13297 CET1 GO:0098507 GO_REF:0000108 IEA GO:0004651 P mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20161001 GOC
+UniProtKB O13297 CET1 GO:1900182 PMID:24205062 IMP P mRNA-capping enzyme subunit beta CET1_YEAST|CET1|YPL228W|P1433 protein taxon:559292 20140110 SGD
+UniProtKB O13329 FOB1 GO:0000183 PMID:12923057 IDA P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20031010 SGD
+UniProtKB O13329 FOB1 GO:0000183 PMID:26951198 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20160425 SGD
+UniProtKB O13329 FOB1 GO:0001302 PMID:15722108 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20050314 SGD
+UniProtKB O13329 FOB1 GO:0005730 PMID:10230397 IDA C DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20010118 SGD
+UniProtKB O13329 FOB1 GO:0006310 PMID:9078378 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20010118 SGD
+UniProtKB O13329 FOB1 GO:0006325 PMID:26951198 IGI SGD:S000002200 P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20160425 SGD
+UniProtKB O13329 FOB1 GO:0007059 PMID:16769819 IGI SGD:S000001924 P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20140922 SGD
+UniProtKB O13329 FOB1 GO:0007580 PMID:10230397 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20010118 SGD
+UniProtKB O13329 FOB1 GO:0008156 PMID:14645529 IDA P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20031216 SGD
+UniProtKB O13329 FOB1 GO:0031582 PMID:26951198 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20160425 SGD
+UniProtKB O13329 FOB1 GO:0033553 PMID:22362748 IDA C DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20120315 SGD
+UniProtKB O13329 FOB1 GO:0034503 PMID:19362534 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20090427 SGD
+UniProtKB O13329 FOB1 GO:0043007 PMID:23593017 IGI SGD:S000003925 P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20130722 SGD
+UniProtKB O13329 FOB1 GO:0043110 PMID:14645529 IDA F DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20090427 SGD
+UniProtKB O13329 FOB1 GO:0043110 PMID:26951198 IMP F DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20160425 SGD
+UniProtKB O13329 FOB1 GO:0045911 PMID:25822194 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20160104 SGD
+UniProtKB O13329 FOB1 GO:0046872 GO_REF:0000037 IEA UniProtKB-KW:KW-0479 F DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20161001 UniProt
+UniProtKB O13329 FOB1 GO:0070550 PMID:18923139 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20090416 SGD
+UniProtKB O13329 FOB1 GO:0090342 PMID:25822194 IGI SGD:S000004500 P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20150609 SGD
+UniProtKB O13329 FOB1 GO:0090342 PMID:25822194 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20150609 SGD
+UniProtKB O13329 FOB1 GO:0090579 PMID:26951198 IMP P DNA replication fork-blocking protein FOB1 FOB1_YEAST|FOB1|HRM1|YDR110W|YD9727.06 protein taxon:559292 20160425 SGD
+UniProtKB O13511 YAL065C GO:0003674 GO_REF:0000015 ND F Uncharacterized protein YAL065C YA065_YEAST|YAL065C protein taxon:559292 20021126 SGD
+UniProtKB O13511 YAL065C GO:0005575 GO_REF:0000015 ND C Uncharacterized protein YAL065C YA065_YEAST|YAL065C protein taxon:559292 20021126 SGD
+UniProtKB O13511 YAL065C GO:0008150 GO_REF:0000015 ND P Uncharacterized protein YAL065C YA065_YEAST|YAL065C protein taxon:559292 20021126 SGD
+UniProtKB O13511 YAL065C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Uncharacterized protein YAL065C YA065_YEAST|YAL065C protein taxon:559292 20161001 UniProt
+UniProtKB O13512 YAL064W-B GO:0003674 GO_REF:0000015 ND F Uncharacterized membrane protein YAL064W-B YA64B_YEAST|YAL064W-B protein taxon:559292 20021126 SGD
+UniProtKB O13512 YAL064W-B GO:0008150 GO_REF:0000015 ND P Uncharacterized membrane protein YAL064W-B YA64B_YEAST|YAL064W-B protein taxon:559292 20021126 SGD
+UniProtKB O13512 YAL064W-B GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Uncharacterized membrane protein YAL064W-B YA64B_YEAST|YAL064W-B protein taxon:559292 20161001 UniProt
+UniProtKB O13513 YAL056C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YAL056C-A YA056_YEAST|YAL056C-A|YAL058C-A protein taxon:559292 20021122 SGD
+UniProtKB O13513 YAL056C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YAL056C-A YA056_YEAST|YAL056C-A|YAL058C-A protein taxon:559292 20021122 SGD
+UniProtKB O13513 YAL056C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YAL056C-A YA056_YEAST|YAL056C-A|YAL058C-A protein taxon:559292 20021122 SGD
+UniProtKB O13514 YAL042C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YAL042C-A YA042_YEAST|YAL042C-A|YAL043C-A protein taxon:559292 20021122 SGD
+UniProtKB O13514 YAL042C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YAL042C-A YA042_YEAST|YAL042C-A|YAL043C-A protein taxon:559292 20021122 SGD
+UniProtKB O13514 YAL042C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YAL042C-A YA042_YEAST|YAL042C-A|YAL043C-A protein taxon:559292 20021122 SGD
+UniProtKB O13514 YAL042C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YAL042C-A YA042_YEAST|YAL042C-A|YAL043C-A protein taxon:559292 20161001 UniProt
+UniProtKB O13515 YAL034C-B GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YAL034C-B YA034_YEAST|YAL034C-B|YAL035C-A protein taxon:559292 20021126 SGD
+UniProtKB O13515 YAL034C-B GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YAL034C-B YA034_YEAST|YAL034C-B|YAL035C-A protein taxon:559292 20021126 SGD
+UniProtKB O13515 YAL034C-B GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YAL034C-B YA034_YEAST|YAL034C-B|YAL035C-A protein taxon:559292 20021126 SGD
+UniProtKB O13516 RPS9A GO:0000462 PMID:16246728 IGI SGD:S000000393 P 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20080924 SGD
+UniProtKB O13516 RPS9A GO:0002181 PMID:6814480 IC GO:0022627 P 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20080924 SGD
+UniProtKB O13516 RPS9A GO:0003735 PMID:6814480 IDA F 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20061103 SGD
+UniProtKB O13516 RPS9A GO:0005654 Reactome:R-SCE-6790936 TAS C 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20150814 Reactome
+UniProtKB O13516 RPS9A GO:0005730 GO_REF:0000039 IEA UniProtKB-SubCell:SL-0188 C 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20161001 UniProt
+UniProtKB O13516 RPS9A GO:0019843 PMID:16540469 IDA F 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20080924 SGD
+UniProtKB O13516 RPS9A GO:0019843 PMID:16540469 IMP F 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20080924 SGD
+UniProtKB O13516 RPS9A GO:0022627 PMID:6814480 IDA C 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20061103 SGD
+UniProtKB O13516 RPS9A GO:0031167 Reactome:R-SCE-6790936 TAS P 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20160130 Reactome
+UniProtKB O13516 RPS9A GO:0032040 PMID:15590835 IDA C 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20080320 SGD
+UniProtKB O13516 RPS9A GO:0045903 GO_REF:0000033 IBA PANTHER:PTN000216478 P 40S ribosomal protein S9-A RS9A_YEAST|RPS9A|RPS13A|YS11A|YPL081W protein taxon:559292 20140729 GO_Central
+UniProtKB O13517 YPL102C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YPL102C YP102_YEAST|YPL102C protein taxon:559292 20021122 SGD
+UniProtKB O13517 YPL102C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YPL102C YP102_YEAST|YPL102C protein taxon:559292 20021122 SGD
+UniProtKB O13517 YPL102C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YPL102C YP102_YEAST|YPL102C protein taxon:559292 20021122 SGD
+UniProtKB O13518 YPL114W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YPL114W YPL14_YEAST|YPL114W protein taxon:559292 20021126 SGD
+UniProtKB O13518 YPL114W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YPL114W YPL14_YEAST|YPL114W protein taxon:559292 20021126 SGD
+UniProtKB O13518 YPL114W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YPL114W YPL14_YEAST|YPL114W protein taxon:559292 20021126 SGD
+UniProtKB O13518 YPL114W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YPL114W YPL14_YEAST|YPL114W protein taxon:559292 20161001 UniProt
+UniProtKB O13519 YPL136W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YPL136W YP136_YEAST|YPL136W protein taxon:559292 20030205 SGD
+UniProtKB O13519 YPL136W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YPL136W YP136_YEAST|YPL136W protein taxon:559292 20030205 SGD
+UniProtKB O13519 YPL136W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YPL136W YP136_YEAST|YPL136W protein taxon:559292 20030205 SGD
+UniProtKB O13520 YPL044C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YPL044C YP044_YEAST|YPL044C protein taxon:559292 20021126 SGD
+UniProtKB O13520 YPL044C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YPL044C YP044_YEAST|YPL044C protein taxon:559292 20021126 SGD
+UniProtKB O13520 YPL044C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YPL044C YP044_YEAST|YPL044C protein taxon:559292 20021126 SGD
+UniProtKB O13520 YPL044C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YPL044C YP044_YEAST|YPL044C protein taxon:559292 20161001 UniProt
+UniProtKB O13521 YPL035C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YPL035C YP035_YEAST|YPL035C protein taxon:559292 20021126 SGD
+UniProtKB O13521 YPL035C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YPL035C YP035_YEAST|YPL035C protein taxon:559292 20021126 SGD
+UniProtKB O13521 YPL035C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YPL035C YP035_YEAST|YPL035C protein taxon:559292 20021126 SGD
+UniProtKB O13522 YDR396W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR396W YD396_YEAST|YDR396W protein taxon:559292 20021126 SGD
+UniProtKB O13522 YDR396W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR396W YD396_YEAST|YDR396W protein taxon:559292 20021126 SGD
+UniProtKB O13522 YDR396W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR396W YD396_YEAST|YDR396W protein taxon:559292 20021126 SGD
+UniProtKB O13522 YDR396W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YDR396W YD396_YEAST|YDR396W protein taxon:559292 20161001 UniProt
+UniProtKB O13523 YDR401W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YDR401W YD401_YEAST|YDR401W protein taxon:559292 20021126 SGD
+UniProtKB O13523 YDR401W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YDR401W YD401_YEAST|YDR401W protein taxon:559292 20021126 SGD
+UniProtKB O13523 YDR401W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YDR401W YD401_YEAST|YDR401W protein taxon:559292 20021126 SGD
+UniProtKB O13523 YDR401W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YDR401W YD401_YEAST|YDR401W protein taxon:559292 20161001 UniProt
+UniProtKB O13525 COQ4 GO:0003674 GO_REF:0000015 ND F Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20021105 SGD
+UniProtKB O13525 COQ4 GO:0003674 GO_REF:0000015 ND F Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20061026 UniProt
+UniProtKB O13525 COQ4 GO:0005743 PMID:11469793 IDA C Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20020709 SGD
+UniProtKB O13525 COQ4 GO:0005743 PMID:11469793 IDA C Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20080626 UniProt
+UniProtKB O13525 COQ4 GO:0006744 GO_REF:0000041 IEA UniPathway:UPA00232 P Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20160423 UniProt
+UniProtKB O13525 COQ4 GO:0006744 PMID:11469793 IMP P Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20030307 UniProt
+UniProtKB O13525 COQ4 GO:0006744 PMID:11469793 IMP P Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20060908 SGD
+UniProtKB O13525 COQ4 GO:0006744 PMID:9266513 IMP P Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20060908 SGD
+UniProtKB O13525 COQ4 GO:0031314 PMID:11469793 IDA C Ubiquinone biosynthesis protein COQ4, mitochondrial COQ4_YEAST|COQ4|YDR204W|YD8142.01 protein taxon:559292 20140909 WormBase
+UniProtKB O13527 TY1B-A GO:0000943 PMID:9582191 ISS C Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0003677 GO_REF:0000037 IEA UniProtKB-KW:KW-0238 F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 UniProt
+UniProtKB O13527 TY1B-A GO:0003723 PMID:9582191 ISS F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0003887 PMID:9582191 ISS F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0003964 PMID:9582191 ISS F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0004523 GO_REF:0000003 IEA EC:3.1.26.4 F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 UniProt
+UniProtKB O13527 TY1B-A GO:0004540 PMID:9582191 ISS F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0005634 PMID:9448009 IDA C Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20130626 SGD
+UniProtKB O13527 TY1B-A GO:0005737 GO_REF:0000039 IEA UniProtKB-SubCell:SL-0086 C Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 UniProt
+UniProtKB O13527 TY1B-A GO:0006278 GO_REF:0000108 IEA GO:0003964 P Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 GOC
+UniProtKB O13527 TY1B-A GO:0006310 GO_REF:0000037 IEA UniProtKB-KW:KW-0233 P Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 UniProt
+UniProtKB O13527 TY1B-A GO:0006508 GO_REF:0000108 IEA GO:0008233 P Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 GOC
+UniProtKB O13527 TY1B-A GO:0008233 PMID:9582191 ISS F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0015074 GO_REF:0000037 IEA UniProtKB-KW:KW-0229 P Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 UniProt
+UniProtKB O13527 TY1B-A GO:0032197 PMID:9582191 ISS P Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20030811 SGD
+UniProtKB O13527 TY1B-A GO:0046872 GO_REF:0000037 IEA UniProtKB-KW:KW-0479 F Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 UniProt
+UniProtKB O13527 TY1B-A GO:0090502 GO_REF:0000108 IEA GO:0004523 P Truncated transposon Ty1-A Gag-Pol polyprotein YA11B_YEAST|TY1B-A|YARCTy1-1 POL|YAR009C protein taxon:559292 20161001 GOC
+UniProtKB O13529 ECM12 GO:0003674 GO_REF:0000015 ND F Protein ECM12 ECM12_YEAST|ECM12|YHR021W-A protein taxon:559292 20020927 SGD
+UniProtKB O13529 ECM12 GO:0005575 GO_REF:0000015 ND C Protein ECM12 ECM12_YEAST|ECM12|YHR021W-A protein taxon:559292 20020927 SGD
+UniProtKB O13529 ECM12 GO:0008150 GO_REF:0000015 ND P Protein ECM12 ECM12_YEAST|ECM12|YHR021W-A protein taxon:559292 20121106 SGD
+UniProtKB O13529 ECM12 GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Protein ECM12 ECM12_YEAST|ECM12|YHR021W-A protein taxon:559292 20161001 UniProt
+UniProtKB O13529 ECM12 GO:0071555 GO_REF:0000037 IEA UniProtKB-KW:KW-0961 P Protein ECM12 ECM12_YEAST|ECM12|YHR021W-A protein taxon:559292 20161001 UniProt
+UniProtKB O13530 YLR198C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR198C YL198_YEAST|YLR198C protein taxon:559292 20021126 SGD
+UniProtKB O13530 YLR198C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR198C YL198_YEAST|YLR198C protein taxon:559292 20021126 SGD
+UniProtKB O13530 YLR198C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR198C YL198_YEAST|YLR198C protein taxon:559292 20021126 SGD
+UniProtKB O13530 YLR198C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YLR198C YL198_YEAST|YLR198C protein taxon:559292 20161001 UniProt
+UniProtKB O13531 YLR202C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR202C YL202_YEAST|YLR202C protein taxon:559292 20030422 SGD
+UniProtKB O13531 YLR202C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR202C YL202_YEAST|YLR202C protein taxon:559292 20030422 SGD
+UniProtKB O13531 YLR202C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR202C YL202_YEAST|YLR202C protein taxon:559292 20030422 SGD
+UniProtKB O13532 YLR217W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR217W YL217_YEAST|YLR217W|L8167.25 protein taxon:559292 20010119 SGD
+UniProtKB O13532 YLR217W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR217W YL217_YEAST|YLR217W|L8167.25 protein taxon:559292 20010119 SGD
+UniProtKB O13532 YLR217W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR217W YL217_YEAST|YLR217W|L8167.25 protein taxon:559292 20010119 SGD
+UniProtKB O13533 YHR049C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR049C-A YH049_YEAST|YHR049C-A protein taxon:559292 20021126 SGD
+UniProtKB O13533 YHR049C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR049C-A YH049_YEAST|YHR049C-A protein taxon:559292 20021126 SGD
+UniProtKB O13533 YHR049C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR049C-A YH049_YEAST|YHR049C-A protein taxon:559292 20021126 SGD
+UniProtKB O13533 YHR049C-A GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YHR049C-A YH049_YEAST|YHR049C-A protein taxon:559292 20161001 UniProt
+UniProtKB O13534 YHR214W-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR214W-A YH1A_YEAST|YHR214W-A protein taxon:559292 20030203 SGD
+UniProtKB O13534 YHR214W-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR214W-A YH1A_YEAST|YHR214W-A protein taxon:559292 20030203 SGD
+UniProtKB O13534 YHR214W-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR214W-A YH1A_YEAST|YHR214W-A protein taxon:559292 20030203 SGD
+UniProtKB O13535 TY1B-H GO:0000943 PMID:9582191 ISS C Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0003677 GO_REF:0000037 IEA UniProtKB-KW:KW-0238 F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0003723 PMID:9582191 ISS F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0003887 PMID:9582191 ISS F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0003964 PMID:9582191 ISS F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0004190 GO_REF:0000037 IEA UniProtKB-KW:KW-0064 F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0004523 GO_REF:0000003 IEA EC:3.1.26.4 F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0004540 PMID:9582191 ISS F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0005524 GO_REF:0000037 IEA UniProtKB-KW:KW-0067 F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0005634 PMID:9448009 IDA C Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20130626 SGD
+UniProtKB O13535 TY1B-H GO:0005737 GO_REF:0000039 IEA UniProtKB-SubCell:SL-0086 C Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0006278 GO_REF:0000108 IEA GO:0003964 P Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 GOC
+UniProtKB O13535 TY1B-H GO:0006310 GO_REF:0000037 IEA UniProtKB-KW:KW-0233 P Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0006508 GO_REF:0000037 IEA UniProtKB-KW:KW-0645 P Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0008233 PMID:9582191 ISS F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0015074 GO_REF:0000037 IEA UniProtKB-KW:KW-0229 P Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0032197 PMID:9582191 ISS P Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20030811 SGD
+UniProtKB O13535 TY1B-H GO:0046872 GO_REF:0000037 IEA UniProtKB-KW:KW-0479 F Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 UniProt
+UniProtKB O13535 TY1B-H GO:0090502 GO_REF:0000108 IEA GO:0004523 P Transposon Ty1-H Gag-Pol polyprotein YH11B_YEAST|TY1B-H|YHRCTy1-1 POL|YHR214C-B protein taxon:559292 20161001 GOC
+UniProtKB O13536 YHR139C-A GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR139C-A YH139_YEAST|YHR139C-A protein taxon:559292 20021126 SGD
+UniProtKB O13536 YHR139C-A GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR139C-A YH139_YEAST|YHR139C-A protein taxon:559292 20021126 SGD
+UniProtKB O13536 YHR139C-A GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR139C-A YH139_YEAST|YHR139C-A protein taxon:559292 20021126 SGD
+UniProtKB O13537 YHR145C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20021126 SGD
+UniProtKB O13537 YHR145C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20061026 UniProt
+UniProtKB O13537 YHR145C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20021126 SGD
+UniProtKB O13537 YHR145C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20061026 UniProt
+UniProtKB O13537 YHR145C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20021126 SGD
+UniProtKB O13537 YHR145C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20061026 UniProt
+UniProtKB O13537 YHR145C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YHR145C YH145_YEAST|YHR145C protein taxon:559292 20161001 UniProt
+UniProtKB O13539 THP2 GO:0000445 PMID:11979277 IMP C THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20070724 SGD
+UniProtKB O13539 THP2 GO:0000445 PMID:11979277 IPI C THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20070724 SGD
+UniProtKB O13539 THP2 GO:0000446 PMID:11060033 IMP C THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20070724 SGD
+UniProtKB O13539 THP2 GO:0000446 PMID:11060033 IPI C THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20070724 SGD
+UniProtKB O13539 THP2 GO:0000723 PMID:24084588 IMP P THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20140726 SGD
+UniProtKB O13539 THP2 GO:0003676 PMID:12093753 IDA F THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20021118 SGD
+UniProtKB O13539 THP2 GO:0006310 PMID:11060033 IMP P THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20030221 SGD
+UniProtKB O13539 THP2 GO:0006355 GO_REF:0000037 IEA UniProtKB-KW:KW-0805 P THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20161001 UniProt
+UniProtKB O13539 THP2 GO:0006368 PMID:12093753 IMP P THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20021118 SGD
+UniProtKB O13539 THP2 GO:0006406 PMID:11979277 IMP P THO complex subunit THP2 THP2_YEAST|THP2|YHR167W protein taxon:559292 20030214 SGD
+UniProtKB O13540 YLR279W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR279W YL279_YEAST|YLR279W|L8003.10A protein taxon:559292 20021126 SGD
+UniProtKB O13540 YLR279W GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR279W YL279_YEAST|YLR279W|L8003.10A protein taxon:559292 20021126 SGD
+UniProtKB O13540 YLR279W GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR279W YL279_YEAST|YLR279W|L8003.10A protein taxon:559292 20021126 SGD
+UniProtKB O13540 YLR279W GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YLR279W YL279_YEAST|YLR279W|L8003.10A protein taxon:559292 20161001 UniProt
+UniProtKB O13541 YLR280C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR280C YL280_YEAST|YLR280C protein taxon:559292 20021126 SGD
+UniProtKB O13541 YLR280C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR280C YL280_YEAST|YLR280C protein taxon:559292 20021126 SGD
+UniProtKB O13541 YLR280C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR280C YL280_YEAST|YLR280C protein taxon:559292 20021126 SGD
+UniProtKB O13542 YLR282C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR282C YL282_YEAST|YLR282C|L8003.11A protein taxon:559292 20021126 SGD
+UniProtKB O13542 YLR282C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR282C YL282_YEAST|YLR282C|L8003.11A protein taxon:559292 20021126 SGD
+UniProtKB O13542 YLR282C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR282C YL282_YEAST|YLR282C|L8003.11A protein taxon:559292 20021126 SGD
+UniProtKB O13543 YLR294C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR294C YL294_YEAST|YLR294C|L8003.19A protein taxon:559292 20030427 SGD
+UniProtKB O13543 YLR294C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR294C YL294_YEAST|YLR294C|L8003.19A protein taxon:559292 20030427 SGD
+UniProtKB O13543 YLR294C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YLR294C YL294_YEAST|YLR294C|L8003.19A protein taxon:559292 20161001 UniProt
+UniProtKB O13543 YLR294C GO:0045333 PMID:10586881 IEP P Putative uncharacterized protein YLR294C YL294_YEAST|YLR294C|L8003.19A protein taxon:559292 20030427 SGD
+UniProtKB O13544 YLR302C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR302C YL302_YEAST|YLR302C protein taxon:559292 20021126 SGD
+UniProtKB O13544 YLR302C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR302C YL302_YEAST|YLR302C protein taxon:559292 20021126 SGD
+UniProtKB O13544 YLR302C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR302C YL302_YEAST|YLR302C protein taxon:559292 20021126 SGD
+UniProtKB O13544 YLR302C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YLR302C YL302_YEAST|YLR302C protein taxon:559292 20161001 UniProt
+UniProtKB O13545 YLR374C GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR374C YL374_YEAST|YLR374C protein taxon:559292 20021126 SGD
+UniProtKB O13545 YLR374C GO:0005575 GO_REF:0000015 ND C Putative uncharacterized protein YLR374C YL374_YEAST|YLR374C protein taxon:559292 20021126 SGD
+UniProtKB O13545 YLR374C GO:0008150 GO_REF:0000015 ND P Putative uncharacterized protein YLR374C YL374_YEAST|YLR374C protein taxon:559292 20021126 SGD
+UniProtKB O13545 YLR374C GO:0016021 GO_REF:0000037 IEA UniProtKB-KW:KW-0812 C Putative uncharacterized protein YLR374C YL374_YEAST|YLR374C protein taxon:559292 20161001 UniProt
+UniProtKB O13546 YLR232W GO:0003674 GO_REF:0000015 ND F Putative uncharacterized protein YLR232W YL232_YEAST|YLR232W protein taxon:559292 20021126 SGD
diff --git a/Tests/biosql.ini.appveyor b/Tests/biosql.ini.appveyor
new file mode 100644
index 0000000..f0236b0
--- /dev/null
+++ b/Tests/biosql.ini.appveyor
@@ -0,0 +1,27 @@
+# We provide biosql.ini.appveyor as an example preconfigured
+# to work on the virtual machines used for automated testing
+# at www.appveyor.com
+#
+# Please copy this to biosql.ini and edit it match your local
+# system if you want to run the Biopython BioSQL tests locally
+# yourself.
+#
+# To disable testing against any specific back-end, set dbuser
+# to an empty string. There is no configuration entry needed
+# for sqlite3.
+#
+# Values match https://www.appveyor.com/docs/services-databases/
+
+[mysql]
+# Covers DBDRIVER="MySQLdb" and "mysql.connector" etc
+dbhost=localhost
+dbuser=root
+dbpasswd=Password12!
+testdb=biosql_test
+
+[pg]
+# Covers DBDRIVER="psycopg2" etc
+dbhost=localhost
+dbuser=postgres
+dbpasswd=Password12!
+testdb=biosql_test
diff --git a/Tests/common_BioSQL.py b/Tests/common_BioSQL.py
index 9f79aff..fadb1a8 100644
--- a/Tests/common_BioSQL.py
+++ b/Tests/common_BioSQL.py
@@ -1,15 +1,16 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Tests for dealing with storage of biopython objects in a relational db.
-"""
+"""Dealing with storage of biopython objects in a BioSQL relational db."""
from __future__ import print_function
import os
import platform
-import unittest
+import sys
import tempfile
import time
+import unittest
+
try:
import configparser # Python 3
except ImportError:
@@ -27,7 +28,7 @@ from Bio import BiopythonWarning
# local stuff
from Bio import MissingExternalDependencyError
from Bio.Seq import Seq, MutableSeq
-from Bio.SeqFeature import SeqFeature
+from Bio.SeqFeature import SeqFeature, UnknownPosition, ExactPosition
from Bio import Alphabet
from Bio import SeqIO
from Bio.SeqRecord import SeqRecord
@@ -183,7 +184,7 @@ def create_database():
if os.path.exists(TESTDB):
try:
os.remove(TESTDB)
- except:
+ except Exception:
time.sleep(1)
try:
os.remove(TESTDB)
@@ -206,7 +207,7 @@ def create_database():
server.load_database_sql(SQL_FILE)
server.commit()
server.close()
- except:
+ except Exception:
# Failed, but must close the handle...
server.close()
raise
@@ -226,7 +227,6 @@ def load_database(gb_filename_or_handle):
This is useful for running tests against a newly created database.
"""
-
TESTDB = create_database()
# now open a connection to load the database
db_name = "biosql-test"
@@ -249,7 +249,6 @@ def load_multi_database(gb_filename_or_handle, gb_filename_or_handle2):
This is useful for running tests against a newly created database.
"""
-
TESTDB = create_database()
# now open a connection to load the database
db_name = "biosql-test"
@@ -281,8 +280,7 @@ class MultiReadTest(unittest.TestCase):
loaded_db = 0
def setUp(self):
- """Connect to and load up the database.
- """
+ """Connect to and load up the database."""
load_multi_database("GenBank/cor6_6.gb", "GenBank/NC_000932.gb")
self.server = BioSeqDatabase.open_database(driver=DBDRIVER,
@@ -302,10 +300,10 @@ class MultiReadTest(unittest.TestCase):
del self.server
def test_server(self):
- """Check BioSeqDatabase methods"""
+ """Check BioSeqDatabase methods."""
server = self.server
- self.assertTrue("biosql-test" in server)
- self.assertTrue("biosql-test2" in server)
+ self.assertIn("biosql-test", server)
+ self.assertIn("biosql-test2", server)
self.assertEqual(2, len(server))
self.assertEqual(["biosql-test", 'biosql-test2'], list(server.keys()))
# Check we can delete the namespace...
@@ -319,15 +317,21 @@ class MultiReadTest(unittest.TestCase):
pass
def test_get_db_items(self):
- """Check list, keys, length etc"""
+ """Check list, keys, length etc."""
db = self.db
items = list(db.values())
keys = list(db)
l = len(items)
self.assertEqual(l, len(db))
- self.assertEqual(l, len(list(db.items())))
self.assertEqual(l, len(list(db)))
+ self.assertEqual(l, len(list(db.items())))
+ self.assertEqual(l, len(list(db.keys())))
self.assertEqual(l, len(list(db.values())))
+ if sys.version_info[0] == 2:
+ # Check legacy methods for Python 2 as well:
+ self.assertEqual(l, len(list(db.iteritems())))
+ self.assertEqual(l, len(list(db.iterkeys())))
+ self.assertEqual(l, len(list(db.itervalues())))
for (k1, r1), (k2, r2) in zip(zip(keys, items), db.items()):
self.assertEqual(k1, k2)
self.assertEqual(r1.id, r2.id)
@@ -341,8 +345,7 @@ class MultiReadTest(unittest.TestCase):
pass
def test_cross_retrieval_of_items(self):
- """Test that valid ids can't be retrieved between namespaces.
- """
+ """Test that valid ids can't be retrieved between namespaces."""
db = self.db
db2 = self.db2
for db2_id in db2.keys():
@@ -359,8 +362,7 @@ class ReadTest(unittest.TestCase):
loaded_db = 0
def setUp(self):
- """Connect to and load up the database.
- """
+ """Connect to and load up the database."""
load_database("GenBank/cor6_6.gb")
self.server = BioSeqDatabase.open_database(driver=DBDRIVER,
@@ -378,9 +380,9 @@ class ReadTest(unittest.TestCase):
del self.server
def test_server(self):
- """Check BioSeqDatabase methods"""
+ """Check BioSeqDatabase methods."""
server = self.server
- self.assertTrue("biosql-test" in server)
+ self.assertIn("biosql-test", server)
self.assertEqual(1, len(server))
self.assertEqual(["biosql-test"], list(server.keys()))
# Check we can delete the namespace...
@@ -393,7 +395,7 @@ class ReadTest(unittest.TestCase):
pass
def test_get_db_items(self):
- """Check list, keys, length etc"""
+ """Check list, keys, length etc."""
db = self.db
items = list(db.values())
keys = list(db)
@@ -415,8 +417,7 @@ class ReadTest(unittest.TestCase):
pass
def test_lookup_items(self):
- """Test retrieval of items using various ids.
- """
+ """Test retrieval of items using various ids."""
self.db.lookup(accession="X62281")
try:
self.db.lookup(accession="Not real")
@@ -443,8 +444,7 @@ class SeqInterfaceTest(unittest.TestCase):
"""Make sure the BioSQL objects implement the expected biopython interface."""
def setUp(self):
- """Load a database.
- """
+ """Load a database."""
load_database("GenBank/cor6_6.gb")
self.server = BioSeqDatabase.open_database(driver=DBDRIVER,
@@ -461,13 +461,12 @@ class SeqInterfaceTest(unittest.TestCase):
del self.server
def test_seq_record(self):
- """Make sure SeqRecords from BioSQL implement the right interface.
- """
+ """Make sure SeqRecords from BioSQL implement the right interface."""
test_record = self.item
self.assertTrue(isinstance(test_record.seq, BioSeq.DBSeq))
self.assertEqual(test_record.id, "X62281.1", test_record.id)
self.assertEqual(test_record.name, "ATKIN2")
- self.assertEqual(test_record.description, "A.thaliana kin2 gene.")
+ self.assertEqual(test_record.description, "A.thaliana kin2 gene")
self.assertTrue(hasattr(test_record, 'annotations'))
# XXX should do something with annotations once they are like
# a dictionary
@@ -475,10 +474,14 @@ class SeqInterfaceTest(unittest.TestCase):
self.assertTrue(isinstance(feature, SeqFeature))
# shouldn't cause any errors!
self.assertTrue(isinstance(str(test_record), basestring))
+ # Confirm can delete annotations etc to test these properties
+ del test_record.annotations
+ del test_record.dbxrefs
+ del test_record.features
+ del test_record.seq
def test_seq(self):
- """Make sure Seqs from BioSQL implement the right interface.
- """
+ """Make sure Seqs from BioSQL implement the right interface."""
test_seq = self.item.seq
alphabet = test_seq.alphabet
self.assertTrue(isinstance(alphabet, Alphabet.Alphabet))
@@ -488,6 +491,13 @@ class SeqInterfaceTest(unittest.TestCase):
self.assertEqual(string_rep, str(test_seq)) # check __str__ too
self.assertEqual(type(string_rep), type(""))
self.assertEqual(len(test_seq), 880)
+ self.assertEqual(test_seq[879], "A")
+ self.assertEqual(test_seq[-1], "A")
+ self.assertEqual(test_seq[0], "A")
+ self.assertEqual(test_seq[-880], "A")
+ self.assertRaises(IndexError, test_seq.__getitem__, 880)
+ self.assertRaises(IndexError, test_seq.__getitem__, -881)
+ self.assertRaises(TypeError, test_seq.__getitem__, None)
def test_convert(self):
"""Check can turn a DBSeq object into a Seq or MutableSeq."""
@@ -517,8 +527,7 @@ class SeqInterfaceTest(unittest.TestCase):
self.assertEqual(str(test), str(other) + str(test_seq))
def test_seq_slicing(self):
- """Check that slices of sequences are retrieved properly.
- """
+ """Check that slices of sequences are retrieved properly."""
test_seq = self.item.seq
new_seq = test_seq[:10]
self.assertTrue(isinstance(new_seq, BioSeq.DBSeq))
@@ -535,16 +544,14 @@ class SeqInterfaceTest(unittest.TestCase):
self.assertEqual(str(test_seq[-10:][5:]), "TTATA")
def test_record_slicing(self):
- """Check that slices of DBSeqRecord are retrieved properly.
- """
+ """Check that slices of DBSeqRecord are retrieved properly."""
new_rec = self.item[400:]
self.assertTrue(isinstance(new_rec, SeqRecord))
self.assertEqual(len(new_rec), 480)
self.assertEqual(len(new_rec.features), 5)
def test_seq_features(self):
- """Check SeqFeatures of a sequence.
- """
+ """Check SeqFeatures of a sequence."""
test_features = self.item.features
cds_feature = test_features[6]
self.assertEqual(cds_feature.type, "CDS")
@@ -559,11 +566,11 @@ class SeqInterfaceTest(unittest.TestCase):
raise KeyError("Missing expected entries, have %s"
% repr(cds_feature.qualifiers))
- self.assertTrue("db_xref" in cds_feature.qualifiers)
+ self.assertIn("db_xref", cds_feature.qualifiers)
multi_ann = cds_feature.qualifiers["db_xref"]
self.assertEqual(len(multi_ann), 2)
- self.assertTrue("GI:16354" in multi_ann)
- self.assertTrue("SWISS-PROT:P31169" in multi_ann)
+ self.assertIn("GI:16354", multi_ann)
+ self.assertIn("SWISS-PROT:P31169", multi_ann)
class LoaderTest(unittest.TestCase):
@@ -598,8 +605,7 @@ class LoaderTest(unittest.TestCase):
del self.server
def test_load_database(self):
- """Load SeqRecord objects into a BioSQL database.
- """
+ """Load SeqRecord objects into a BioSQL database."""
self.db.load(self.iterator)
# do some simple tests to make sure we actually loaded the right
@@ -626,8 +632,7 @@ class DeleteTest(unittest.TestCase):
loaded_db = 0
def setUp(self):
- """Connect to and load up the database.
- """
+ """Connect to and load up the database."""
load_database("GenBank/cor6_6.gb")
self.server = BioSeqDatabase.open_database(driver=DBDRIVER,
@@ -645,9 +650,9 @@ class DeleteTest(unittest.TestCase):
del self.server
def test_server(self):
- """Check BioSeqDatabase methods"""
+ """Check BioSeqDatabase methods."""
server = self.server
- self.assertTrue("biosql-test" in server)
+ self.assertIn("biosql-test", server)
self.assertEqual(1, len(server))
self.assertEqual(["biosql-test"], list(server.keys()))
# Check we can delete the namespace...
@@ -660,7 +665,7 @@ class DeleteTest(unittest.TestCase):
pass
def test_del_db_items(self):
- """Check all associated data is deleted from an item"""
+ """Check all associated data is deleted from an item."""
db = self.db
items = list(db.values())
keys = list(db)
@@ -755,45 +760,48 @@ class DupLoadTest(unittest.TestCase):
class ClosedLoopTest(unittest.TestCase):
"""Test file -> BioSQL -> file."""
- # NOTE - For speed I don't bother to create a new database each time,
- # simply a new unique namespace is used for each test.
+ @classmethod
+ def setUpClass(cls):
+ # NOTE - For speed I don't bother to create a new database each time,
+ # simply a new unique namespace is used for each test.
+ TESTDB = create_database()
def test_NC_005816(self):
- """GenBank file to BioSQL and back to a GenBank file, NC_005816."""
+ """From GenBank file to BioSQL and back to a GenBank file, NC_005816."""
with warnings.catch_warnings():
# BiopythonWarning: order location operators are not fully supported
warnings.simplefilter('ignore', BiopythonWarning)
self.loop("GenBank/NC_005816.gb", "gb")
def test_NC_000932(self):
- """GenBank file to BioSQL and back to a GenBank file, NC_000932."""
+ """From GenBank file to BioSQL and back to a GenBank file, NC_000932."""
self.loop("GenBank/NC_000932.gb", "gb")
def test_NT_019265(self):
- """GenBank file to BioSQL and back to a GenBank file, NT_019265."""
+ """From GenBank file to BioSQL and back to a GenBank file, NT_019265."""
self.loop("GenBank/NT_019265.gb", "gb")
def test_protein_refseq2(self):
- """GenBank file to BioSQL and back to a GenBank file, protein_refseq2."""
+ """From GenBank file to BioSQL and back to a GenBank file, protein_refseq2."""
with warnings.catch_warnings():
# BiopythonWarning: order location operators are not fully supported
warnings.simplefilter('ignore', BiopythonWarning)
self.loop("GenBank/protein_refseq2.gb", "gb")
def test_no_ref(self):
- """GenBank file to BioSQL and back to a GenBank file, noref."""
+ """From GenBank file to BioSQL and back to a GenBank file, noref."""
self.loop("GenBank/noref.gb", "gb")
def test_one_of(self):
- """GenBank file to BioSQL and back to a GenBank file, one_of."""
+ """From GenBank file to BioSQL and back to a GenBank file, one_of."""
self.loop("GenBank/one_of.gb", "gb")
def test_cor6_6(self):
- """GenBank file to BioSQL and back to a GenBank file, cor6_6."""
+ """From GenBank file to BioSQL and back to a GenBank file, cor6_6."""
self.loop("GenBank/cor6_6.gb", "gb")
def test_arab1(self):
- """GenBank file to BioSQL and back to a GenBank file, arab1."""
+ """From GenBank file to BioSQL and back to a GenBank file, arab1."""
self.loop("GenBank/arab1.gb", "gb")
def loop(self, filename, format):
@@ -841,41 +849,41 @@ class TransferTest(unittest.TestCase):
TESTDB = create_database()
def test_NC_005816(self):
- """GenBank file to BioSQL, then again to a new namespace, NC_005816."""
+ """From GenBank file to BioSQL, then again to a new namespace, NC_005816."""
with warnings.catch_warnings():
# BiopythonWarning: order location operators are not fully supported
warnings.simplefilter('ignore', BiopythonWarning)
self.trans("GenBank/NC_005816.gb", "gb")
def test_NC_000932(self):
- """GenBank file to BioSQL, then again to a new namespace, NC_000932."""
+ """From GenBank file to BioSQL, then again to a new namespace, NC_000932."""
self.trans("GenBank/NC_000932.gb", "gb")
def test_NT_019265(self):
- """GenBank file to BioSQL, then again to a new namespace, NT_019265."""
+ """From GenBank file to BioSQL, then again to a new namespace, NT_019265."""
self.trans("GenBank/NT_019265.gb", "gb")
def test_protein_refseq2(self):
- """GenBank file to BioSQL, then again to a new namespace, protein_refseq2."""
+ """From GenBank file to BioSQL, then again to a new namespace, protein_refseq2."""
with warnings.catch_warnings():
# BiopythonWarning: order location operators are not fully supported
warnings.simplefilter('ignore', BiopythonWarning)
self.trans("GenBank/protein_refseq2.gb", "gb")
def test_no_ref(self):
- """GenBank file to BioSQL, then again to a new namespace, noref."""
+ """From GenBank file to BioSQL, then again to a new namespace, noref."""
self.trans("GenBank/noref.gb", "gb")
def test_one_of(self):
- """GenBank file to BioSQL, then again to a new namespace, one_of."""
+ """From GenBank file to BioSQL, then again to a new namespace, one_of."""
self.trans("GenBank/one_of.gb", "gb")
def test_cor6_6(self):
- """GenBank file to BioSQL, then again to a new namespace, cor6_6."""
+ """From GenBank file to BioSQL, then again to a new namespace, cor6_6."""
self.trans("GenBank/cor6_6.gb", "gb")
def test_arab1(self):
- """GenBank file to BioSQL, then again to a new namespace, arab1."""
+ """From GenBank file to BioSQL, then again to a new namespace, arab1."""
self.trans("GenBank/arab1.gb", "gb")
def trans(self, filename, format):
@@ -963,25 +971,23 @@ class InDepthLoadTest(unittest.TestCase):
raise Exception("Should have failed! Loaded %i records" % count)
def test_record_loading(self):
- """Make sure all records are correctly loaded.
- """
+ """Make sure all records are correctly loaded."""
test_record = self.db.lookup(accession="X55053")
self.assertEqual(test_record.name, "ATCOR66M")
self.assertEqual(test_record.id, "X55053.1")
- self.assertEqual(test_record.description, "A.thaliana cor6.6 mRNA.")
+ self.assertEqual(test_record.description, "A.thaliana cor6.6 mRNA")
self.assertTrue(isinstance(test_record.seq.alphabet, Alphabet.DNAAlphabet))
self.assertEqual(str(test_record.seq[:10]), 'AACAAAACAC')
test_record = self.db.lookup(accession="X62281")
self.assertEqual(test_record.name, "ATKIN2")
self.assertEqual(test_record.id, "X62281.1")
- self.assertEqual(test_record.description, "A.thaliana kin2 gene.")
+ self.assertEqual(test_record.description, "A.thaliana kin2 gene")
self.assertTrue(isinstance(test_record.seq.alphabet, Alphabet.DNAAlphabet))
self.assertEqual(str(test_record.seq[:10]), 'ATTTGGCCTA')
def test_seq_feature(self):
- """In depth check that SeqFeatures are transmitted through the db.
- """
+ """In depth check that SeqFeatures are transmitted through the db."""
test_record = self.db.lookup(accession="AJ237582")
features = test_record.features
self.assertEqual(len(features), 7)
@@ -1037,6 +1043,11 @@ class AutoSeqIOTests(unittest.TestCase):
server = None
db = None
+ @classmethod
+ def setUpClass(cls):
+ # Create and reuse on database for all tests in this class
+ TESTDB = create_database()
+
def setUp(self):
"""Connect to the database."""
db_name = "biosql-test-seqio"
@@ -1161,3 +1172,39 @@ class AutoSeqIOTests(unittest.TestCase):
self.check('embl', 'EMBL/SC10H5.embl')
self.check('embl', 'EMBL/U87107.embl')
self.assertEqual(len(self.db), 66)
+
+
+class SwissProtUnknownPositionTest(unittest.TestCase):
+ """Handle SwissProt unknown position by setting value to null in database."""
+
+ def setUp(self):
+ # drop any old database and create a new one:
+ TESTDB = create_database()
+ # connect to new database:
+ self.server = BioSeqDatabase.open_database(driver=DBDRIVER,
+ user=DBUSER, passwd=DBPASSWD,
+ host=DBHOST, db=TESTDB)
+ # Create new namespace within new empty database:
+ self.db = self.server.new_database("biosql-test")
+
+ def tearDown(self):
+ self.server.rollback()
+ self.server.close()
+ destroy_database()
+ del self.db
+ del self.server
+
+ def test_ambiguous_location(self):
+ """Loaded uniprot-xml with ambiguous location in BioSQL."""
+ id = 'P97881'
+ seqiter = SeqIO.parse("SwissProt/%s.xml" % id, "uniprot-xml")
+ self.assertTrue(self.db.load(seqiter) == 1)
+
+ dbrecord = self.db.lookup(primary_id=id)
+ for feature in dbrecord.features:
+ if feature.type == 'signal peptide':
+ self.assertTrue(isinstance(feature.location.end, UnknownPosition))
+ elif feature.type == 'chain':
+ self.assertTrue(isinstance(feature.location.start, UnknownPosition))
+ else:
+ self.assertTrue(isinstance(feature.location.start, ExactPosition))
diff --git a/Tests/common_BioSQL_online.py b/Tests/common_BioSQL_online.py
index 47db6c9..b6e20ca 100644
--- a/Tests/common_BioSQL_online.py
+++ b/Tests/common_BioSQL_online.py
@@ -1,8 +1,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Tests for dealing with storage of biopython objects in a relational db.
-"""
+"""Test storing biopython objects in a BioSQL relational db."""
from __future__ import print_function
import os
@@ -60,6 +59,7 @@ def share_config(dbdriver, dbtype, dbhost, dbuser, dbpasswd, testdb):
class TaxonomyTest(unittest.TestCase):
"""Test proper insertion and retrieval of taxonomy data."""
+
def setUp(self):
global DBDRIVER, DBTYPE, DBHOST, DBUSER, DBPASSWD, TESTDB, DBSCHEMA
global SYSTEM, SQL_FILE
@@ -109,3 +109,29 @@ class TaxonomyTest(unittest.TestCase):
for row in rows:
values.add(row[0])
self.assertEqual(set([3704, 3711, 3708, 3702]), set(values))
+
+ def test_load_database_with_tax_lookup(self):
+ """Load SeqRecord objects and fetch the taxonomy information from NCBI."""
+ handle = Entrez.efetch(db="taxonomy", id=3702, retmode="XML")
+
+ taxon_record = Entrez.read(handle)
+ entrez_tax = []
+
+ for t in taxon_record[0]['LineageEx']:
+ entrez_tax.append(t['ScientificName'])
+ entrez_tax.append(taxon_record[0]['ScientificName'])
+ self.db.load(self.iterator, True)
+
+ # do some simple tests to make sure we actually loaded the right
+ # thing. More advanced tests in a different module.
+ items = list(self.db.values())
+ self.assertEqual(len(items), 6)
+ self.assertEqual(len(self.db), 6)
+
+ test_record = self.db.lookup(accession="X55053")
+
+ # make sure that the ncbi taxonomy id is corrent
+ self.assertEqual(test_record.annotations['ncbi_taxid'], 3702)
+ # make sure that the taxonomic lineage is the same as reported
+ # using the Entrez module
+ self.assertEqual(test_record.annotations['taxonomy'], entrez_tax)
diff --git a/Tests/motifs/meme_v_4_11_4.txt b/Tests/motifs/meme_v_4_11_4.txt
new file mode 100644
index 0000000..b4fd047
--- /dev/null
+++ b/Tests/motifs/meme_v_4_11_4.txt
@@ -0,0 +1,226 @@
+********************************************************************************
+MEME - Motif discovery tool
+********************************************************************************
+MEME version 4.11.4 (Release date: Thu May 18 17:37:13 2017 -0700)
+
+For further information on how to interpret these results or to get
+a copy of the MEME software please access http://meme-suite.org .
+
+This file may be used as input to the MAST algorithm for searching
+sequence databases for matches to groups of motifs. MAST is available
+for interactive use and downloading at http://meme-suite.org .
+********************************************************************************
+
+
+********************************************************************************
+REFERENCE
+********************************************************************************
+If you use this program in your research, please cite:
+
+Timothy L. Bailey and Charles Elkan,
+"Fitting a mixture model by expectation maximization to discover
+motifs in biopolymers", Proceedings of the Second International
+Conference on Intelligent Systems for Molecular Biology, pp. 28-36,
+AAAI Press, Menlo Park, California, 1994.
+********************************************************************************
+
+
+********************************************************************************
+TRAINING SET
+********************************************************************************
+DATAFILE= example.fasta
+ALPHABET= ACGT
+Sequence name Weight Length Sequence name Weight Length
+------------- ------ ------ ------------- ------ ------
+SEQ1; 1.0000 10 SEQ2; 1.0000 10
+SEQ3; 1.0000 10 SEQ4; 1.0000 10
+SEQ5; 1.0000 10 SEQ6; 1.0000 10
+SEQ7; 1.0000 10 SEQ8; 1.0000 10
+SEQ9; 1.0000 10 SEQ10; 1.0000 10
+********************************************************************************
+
+********************************************************************************
+COMMAND LINE SUMMARY
+********************************************************************************
+This information can also be useful in the event you wish to report a
+problem with the MEME software.
+
+command: meme -dna example.fasta
+
+model: mod= zoops nmotifs= 1 evt= inf
+object function= E-value of product of p-values
+width: minw= 8 maxw= 10
+width: wg= 11 ws= 1 endgaps= yes
+nsites: minsites= 2 maxsites= 10 wnsites= 0.8
+theta: spmap= uni spfuzz= 0.5
+global: substring= yes branching= no wbranch= no
+em: prior= dirichlet b= 0.01 maxiter= 50
+ distance= 1e-05
+data: n= 100 N= 10 shuffle= -1
+strands: +
+sample: seed= 0 ctfrac= -1 maxwords= -1
+Letter frequencies in dataset:
+A 0.300 C 0.300 G 0.100 T 0.300
+Background letter frequencies (from dataset with add-one prior applied):
+A 0.298 C 0.298 G 0.106 T 0.298
+********************************************************************************
+
+
+********************************************************************************
+MOTIF CTCAATCGTA MEME-1 width = 10 sites = 10 llr = 131 E-value = 7.0e-040
+********************************************************************************
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 Description
+--------------------------------------------------------------------------------
+Simplified A :::aa::::a
+pos.-specific C a:a:::a:::
+probability G :::::::a::
+matrix T :a:::a::a:
+
+ bits 3.2 *
+ 2.9 *
+ 2.6 *
+ 2.3 *
+Relative 1.9 *
+Entropy 1.6 **********
+(19.0 bits) 1.3 **********
+ 1.0 **********
+ 0.6 **********
+ 0.3 **********
+ 0.0 ----------
+
+Multilevel CTCAATCGTA
+consensus
+sequence
+
+--------------------------------------------------------------------------------
+
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 sites sorted by position p-value
+--------------------------------------------------------------------------------
+Sequence name Start P-value Site
+------------- ----- --------- ----------
+SEQ10; 1 1.96e-06 . CTCAATCGTA
+SEQ9; 1 1.96e-06 . CTCAATCGTA
+SEQ8; 1 1.96e-06 . CTCAATCGTA
+SEQ7; 1 1.96e-06 . CTCAATCGTA
+SEQ6; 1 1.96e-06 . CTCAATCGTA
+SEQ5; 1 1.96e-06 . CTCAATCGTA
+SEQ4; 1 1.96e-06 . CTCAATCGTA
+SEQ3; 1 1.96e-06 . CTCAATCGTA
+SEQ2; 1 1.96e-06 . CTCAATCGTA
+SEQ1; 1 1.96e-06 . CTCAATCGTA
+--------------------------------------------------------------------------------
+
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 block diagrams
+--------------------------------------------------------------------------------
+SEQUENCE NAME POSITION P-VALUE MOTIF DIAGRAM
+------------- ---------------- -------------
+SEQ10; 2e-06 [+1]
+SEQ9; 2e-06 [+1]
+SEQ8; 2e-06 [+1]
+SEQ7; 2e-06 [+1]
+SEQ6; 2e-06 [+1]
+SEQ5; 2e-06 [+1]
+SEQ4; 2e-06 [+1]
+SEQ3; 2e-06 [+1]
+SEQ2; 2e-06 [+1]
+SEQ1; 2e-06 [+1]
+--------------------------------------------------------------------------------
+
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 in BLOCKS format
+--------------------------------------------------------------------------------
+BL MOTIF CTCAATCGTA width=10 seqs=10
+SEQ10; ( 1) CTCAATCGTA 1
+SEQ9; ( 1) CTCAATCGTA 1
+SEQ8; ( 1) CTCAATCGTA 1
+SEQ7; ( 1) CTCAATCGTA 1
+SEQ6; ( 1) CTCAATCGTA 1
+SEQ5; ( 1) CTCAATCGTA 1
+SEQ4; ( 1) CTCAATCGTA 1
+SEQ3; ( 1) CTCAATCGTA 1
+SEQ2; ( 1) CTCAATCGTA 1
+SEQ1; ( 1) CTCAATCGTA 1
+//
+
+--------------------------------------------------------------------------------
+
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 position-specific scoring matrix
+--------------------------------------------------------------------------------
+log-odds matrix: alength= 4 w= 10 n= 10 bayes= 0.830075 E= 7.0e-040
+ -997 175 -997 -997
+ -997 -997 -997 175
+ -997 175 -997 -997
+ 175 -997 -997 -997
+ 175 -997 -997 -997
+ -997 -997 -997 175
+ -997 175 -997 -997
+ -997 -997 324 -997
+ -997 -997 -997 175
+ 175 -997 -997 -997
+--------------------------------------------------------------------------------
+
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 position-specific probability matrix
+--------------------------------------------------------------------------------
+letter-probability matrix: alength= 4 w= 10 nsites= 10 E= 7.0e-040
+ 0.000000 1.000000 0.000000 0.000000
+ 0.000000 0.000000 0.000000 1.000000
+ 0.000000 1.000000 0.000000 0.000000
+ 1.000000 0.000000 0.000000 0.000000
+ 1.000000 0.000000 0.000000 0.000000
+ 0.000000 0.000000 0.000000 1.000000
+ 0.000000 1.000000 0.000000 0.000000
+ 0.000000 0.000000 1.000000 0.000000
+ 0.000000 0.000000 0.000000 1.000000
+ 1.000000 0.000000 0.000000 0.000000
+--------------------------------------------------------------------------------
+
+--------------------------------------------------------------------------------
+ Motif CTCAATCGTA MEME-1 regular expression
+--------------------------------------------------------------------------------
+CTCAATCGTA
+--------------------------------------------------------------------------------
+
+
+
+
+Time 0.01 secs.
+
+********************************************************************************
+
+
+********************************************************************************
+SUMMARY OF MOTIFS
+********************************************************************************
+
+--------------------------------------------------------------------------------
+ Combined block diagrams: non-overlapping sites with p-value < 0.0001
+--------------------------------------------------------------------------------
+SEQUENCE NAME COMBINED P-VALUE MOTIF DIAGRAM
+------------- ---------------- -------------
+SEQ1; 1.96e-06 [+1(1.96e-06)]
+SEQ2; 1.96e-06 [+1(1.96e-06)]
+SEQ3; 1.96e-06 [+1(1.96e-06)]
+SEQ4; 1.96e-06 [+1(1.96e-06)]
+SEQ5; 1.96e-06 [+1(1.96e-06)]
+SEQ6; 1.96e-06 [+1(1.96e-06)]
+SEQ7; 1.96e-06 [+1(1.96e-06)]
+SEQ8; 1.96e-06 [+1(1.96e-06)]
+SEQ9; 1.96e-06 [+1(1.96e-06)]
+SEQ10; 1.96e-06 [+1(1.96e-06)]
+--------------------------------------------------------------------------------
+
+********************************************************************************
+
+
+********************************************************************************
+Stopped because requested number of motifs (1) found.
+********************************************************************************
+
+CPU: ariel-cjolita
+
+********************************************************************************
diff --git a/Tests/output/test_AlignIO b/Tests/output/test_AlignIO
index e0368bd..517b173 100644
--- a/Tests/output/test_AlignIO
+++ b/Tests/output/test_AlignIO
@@ -4,6 +4,8 @@ Testing reading clustal format file Clustalw/cw02.aln with 1 alignments
MENSDSNDKGSDQSAAQRRSQMDRLDREEAFYQFVN...SVV gi|4959044|gb|AAD34209.1|AF069
---------MSPQTETKASVGFKAGVKEYKLTYYTP...--- gi|671626|emb|CAA85685.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -22,6 +24,8 @@ Testing reading clustal format file Clustalw/opuntia.aln with 1 alignments
||||||| ...
AAAAAAA alignment column 155
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -40,6 +44,8 @@ Testing reading clustal format file Clustalw/hedgehog.aln with 1 alignments
||||| ...
---SS alignment column 446
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -53,6 +59,8 @@ Testing reading clustal format file Clustalw/odd_consensus.aln with 1 alignments
------------------------------------...TAG AT3G20900.1-CDS
ATGAACAAAGTAGCGAGGAAGAACAAAACATCAGGT...TAG AT3G20900.1-SEQ
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -73,6 +81,8 @@ Testing reading clustal format file Clustalw/protein.aln with 1 alignments
|||||||||||||||||||| ...
-------------------T alignment column 410
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -93,6 +103,8 @@ Testing reading clustal format file Clustalw/promals3d.aln with 1 alignments
|||||||||||||||||||| ...
-T------------------ alignment column 413
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -109,6 +121,8 @@ Testing reading fasta format file GFF/multi.fna with 1 alignments
GGGGCCCC test2
AAACACAC test3
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -127,6 +141,8 @@ Testing reading nexus format file Nexus/test_Nexus_input.nex with 1 alignments
||||||||| ...
tt--?ag?c alignment column 47
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip' format
Checking can write/read as 'phylip-relaxed' format
@@ -140,6 +156,8 @@ Testing reading nexus format file Nexus/codonposset.nex with 1 alignments
AAAAAGGCATTGTGGTGGGAAT Aegotheles
?????????TTGTGGTGGGAAT Aerodramus
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip' format
Checking can write/read as 'phylip-relaxed' format
@@ -152,6 +170,8 @@ Testing reading stockholm format file Stockholm/simple.sth with 1 alignments
UUAAUCGAGCUCAACACUCUUCGUAUAUCCUC-UCA...UGU AP001509.1
AAAAUUGAAUAUCGUUUUACUUGUUUAU-GUCGUGA...GAU AE007476.1
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -170,6 +190,8 @@ Testing reading stockholm format file Stockholm/funny.sth with 1 alignments
|||||| ...
SYSEEE alignment column 42
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -188,6 +210,8 @@ Testing reading phylip format file Phylip/reference_dna.phy with 1 alignments
|||||| ...
CTTTTC alignment column 12
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -207,6 +231,8 @@ Testing reading phylip format file Phylip/reference_dna2.phy with 1 alignments
|||||| ...
CTTTTC alignment column 38
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -226,6 +252,8 @@ Testing reading phylip format file Phylip/hennigian.phy with 1 alignments
|||||||||| ...
AAAAAAAAAA alignment column 39
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -244,6 +272,8 @@ Testing reading phylip format file Phylip/horses.phy with 1 alignments
|||||||||| ...
AAAAAAAAAA alignment column 39
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -263,6 +293,8 @@ Testing reading phylip format file Phylip/random.phy with 1 alignments
|||||||||| ...
AAAAAAAAAA alignment column 39
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -277,6 +309,8 @@ Testing reading phylip format file Phylip/interlaced.phy with 1 alignments
MAHARVLLLALAVLATAAVAVASSSSFADSNPIRPV...VAA ALEU_HORVU
------MWATLPLLCAGAWLLGV--------PVCGA...PLV CATH_HUMAN
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -292,6 +326,8 @@ Testing reading phylip format file Phylip/interlaced2.phy with 1 alignments
TSPASIRPPAGPSSRPAMVSSR--RPSPPPPRRPPG...SHE IXI_236
TSPASLRPPAGPSSRPAMVSSRR-RPSPPGPRRPT-...SHE IXI_237
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -310,6 +346,8 @@ Testing reading phylip-relaxed format file ExtendedPhylip/primates.phyx with 1 a
|||||||||||| ...
TTTTTTTTTTTT alignment column 897
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -324,6 +362,8 @@ Testing reading phylip-sequential format file Phylip/sequential.phy with 1 align
MAHARVLLLALAVLATAAVAVASSSSFADSNPIRPV...VAA ALEU_HORVU
------MWATLPLLCAGAWLLGV--------PVCGA...PLV CATH_HUMAN
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -339,6 +379,8 @@ Testing reading phylip-sequential format file Phylip/sequential2.phy with 1 alig
TSPASIRPPAGPSSRPAMVSSR--RPSPPPPRRPPG...SHE IXI_236
TSPASLRPPAGPSSRPAMVSSRR-RPSPPGPRRPT-...SHE IXI_237
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -354,6 +396,8 @@ Testing reading emboss format file Emboss/alignret.txt with 1 alignments
TSPASIRPPAGPSSRPAMVSSR--RPSPPPPRRPPG...SHE IXI_236
TSPASLRPPAGPSSRPAMVSSRR-RPSPPGPRRPT-...SHE IXI_237
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -377,6 +421,8 @@ Testing reading emboss format file Emboss/needle.txt with 5 alignments
KILIVDDQYGIRILLNEVFNKEGYQTFQAANGLQAL...--- ref_rec
TVLLVEDEEGVRKLVRGILSRQGYHVLEATSGEEAL...KRQ gi|94970041|receiver
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -390,6 +436,8 @@ Testing reading emboss format file Emboss/needle_asis.txt with 1 alignments
TATTTTTTGGATTTTTTTCTAGATTTTCTAGGTTAT...GAA asis
------------------------------------...GAA asis
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -407,6 +455,8 @@ Testing reading emboss format file Emboss/water.txt with 1 alignments
TSPASIRPPAGPSSRPAMVSSRRTRPSPPGPRRPTG...SHE IXI_234
TSPASIRPPAGPSSR---------RPSPPGPRRPTG...SHE IXI_235
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -420,6 +470,8 @@ Testing reading emboss format file Emboss/water2.txt with 1 alignments
CGTTTGAGT-CTGGGATG asis
CGTTTGAGTACTGGGATG asis
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -437,6 +489,8 @@ Testing reading emboss format file Emboss/matcher_simple.txt with 1 alignments
GPPPQSPDENRAGESS AF069992_1
GVPPEEAGAAVAAESS CAA85685.1
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -460,6 +514,8 @@ Testing reading emboss format file Emboss/matcher_pair.txt with 5 alignments
VKAAWGKVGA HBA_HUMAN
VQAAYQKVVA HBB_HUMAN
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -482,6 +538,8 @@ Testing reading fasta-m10 format file Fasta/output001.m10 with 4 alignments
SELHSKLPKSIDKIHEDIKKQLSC-SLIMKKIDVEM...TYC gi|10955265|ref|NP_052606.1|
SRINSDVARRIPGIHRDPKDRLSSLKQVEEALDMLI...EYC gi|152973545|ref|YP_001338596.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -505,6 +563,8 @@ Testing reading fasta-m10 format file Fasta/output002.m10 with 6 alignments
QYIMTTSNGDRVRAKIYKRGSIQFQGKYLQIASLIN...REI gi|10955265|ref|NP_052606.1|
EFIRLLSDHDQFEKDQISELTVAANALKLEVAK--N...KKV gi|15833861|ref|NP_312634.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -524,6 +584,8 @@ Testing reading fasta-m10 format file Fasta/output003.m10 with 3 alignments
VFGSFEQPKGEHLSGQVSEQ--RDTAFADQNEQVIR...QAM gi|152973841|ref|YP_001338878.1|
VYTSFN---GEKFSSYTLNKVTKTDEYNDLSELSAS...KGI gi|10955264|ref|NP_052605.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -537,6 +599,8 @@ Testing reading fasta-m10 format file Fasta/output004.m10 with 1 alignments
AAAAAAGATAAAAAATATCAAATAGAAGCAATAAAA...TCA ref|NC_002127.1|:c1351-971
AGAGAAAATAAAACAAGTAATAAAATATTAATGGAA...ACA ref|NC_002695.1|:1970775-1971404
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -552,6 +616,8 @@ Testing reading fasta-m10 format file Fasta/output005.m10 with 1 alignments
IKNKDKTLFIVYAT-DIYSPSEFFSKIESDLKKKKS...LSK gi|10955264|ref|NP_052605.1|
IKDELPVAFCSWASLDLECEVKYINDVTSLYAKDWM...MSE gi|10955282|ref|NP_052623.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -565,6 +631,8 @@ Testing reading fasta-m10 format file Fasta/output006.m10 with 1 alignments
GCAACGCTTCAAGAACTGGAATTAGGAACCGTGACA...CAT query
GCAACGCTTCAAGAACTGGAATTAGGAACCGTGACA...CAT gi|116660610|gb|EG558221.1|EG558221
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -588,6 +656,8 @@ Testing reading fasta-m10 format file Fasta/output007.m10 with 9 alignments
ISGTYKGIDFLIKLMPSGGNTTIGRASGQNNTYFDE...FSD gi|10955265|ref|NP_052606.1|
IDGVITAFD-LRTGMNISKDKVVAQIQGMDPVW---...YPD gi|152973505|ref|YP_001338556.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -611,6 +681,8 @@ Testing reading fasta-m10 format file Fasta/output008.m10 with 12 alignments
AQQQESATTQKAEKEVTRMVIIMVIAFLICW sp|P08100|OPSD_HUMAN
SQQIRNATTMMMTMRVTSFSAFWVVADSCCW gi|283855822|gb|GQ290312.1|
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: We can only write one Alignment to a Nexus file.
Checking can write/read as 'phylip' format
@@ -629,6 +701,8 @@ Testing reading ig format file IntelliGenetics/VIF_mase-pro.txt with 1 alignment
|||||||||||||||| ...
HHHHHHH-AAAAL-R- alignment column 297
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip' format
@@ -642,6 +716,8 @@ Testing reading pir format file NBRF/clustalw.pir with 1 alignments
------------------------------------...--- 804Angiostrongylus_cantonensis
------------------------------------...--- 815Parelaphostrongylus_odocoil
Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip' format
Checking can write/read as 'phylip-relaxed' format
@@ -649,4 +725,142 @@ Testing reading pir format file NBRF/clustalw.pir with 1 alignments
Checking can write/read as 'stockholm' format
Checking can write/read as 'fasta' format
Checking can write/read as 'tab' format
+Testing reading maf format file MAF/humor.maf with 2 alignments
+ Alignment 0, with 3 sequences of length 5486
+ gcacagcctttactccctgactgcgtttatattctg...CCG NM_006987
+ gcacagcctttactccctgactgcgtttatattctg...TTG mm3
+ gcacagcctttactccctgactgcgtttatattctg...CCG rn3
+ Alignment 1, with 3 sequences of length 5753
+ tttgtccatgttggtcaggctggtctcgaactcccc...GGT NM_018289
+ tttgtccatgttggtcaggctggtctcgaactcccc...GGT mm3
+ tttgtccatgttggtcaggctggtctcgaactcccc...GGT rn3
+ Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
+ Checking can write/read as 'nexus' format
+ Failed: We can only write one Alignment to a Nexus file.
+ Checking can write/read as 'phylip' format
+ Checking can write/read as 'phylip-relaxed' format
+ Checking can write/read as 'phylip-sequential' format
+ Checking can write/read as 'stockholm' format
+ Checking can write/read as 'fasta' format
+ Checking can write/read as 'tab' format
+Testing reading maf format file MAF/bug2453.maf with 3 alignments
+ Alignment 0, with 5 sequences of length 42
+ AAA-- alignment column 0
+ AAAAA alignment column 1
+ AAAAA alignment column 2
+ ---T- alignment column 3
+ GGGGG alignment column 4
+ ||||| ...
+ GGGGG alignment column 41
+ Alignment 1, with 5 sequences of length 6
+ TTTTt alignment column 0
+ AAAAa alignment column 1
+ AAAAa alignment column 2
+ AAAAg alignment column 3
+ GGGGg alignment column 4
+ ||||| ...
+ AAAAa alignment column 5
+ Alignment 2, with 4 sequences of length 13
+ gcagctgaaaaca hg16.chr7
+ gcagctgaaaaca panTro1.chr6
+ gcagctgaaaaca baboon
+ ACAGCTGAAAATA mm4.chr6
+ Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
+ Checking can write/read as 'nexus' format
+ Failed: We can only write one Alignment to a Nexus file.
+ Checking can write/read as 'phylip' format
+ Checking can write/read as 'phylip-relaxed' format
+ Checking can write/read as 'phylip-sequential' format
+ Checking can write/read as 'stockholm' format
+Testing reading maf format file MAF/ucsc_test.maf with 3 alignments
+ Alignment 0, with 5 sequences of length 42
+ AAA-- alignment column 0
+ AAAAA alignment column 1
+ AAAAA alignment column 2
+ ---T- alignment column 3
+ GGGGG alignment column 4
+ ||||| ...
+ GGGGG alignment column 41
+ Alignment 1, with 5 sequences of length 6
+ TTTTt alignment column 0
+ AAAAa alignment column 1
+ AAAAa alignment column 2
+ AAAAg alignment column 3
+ GGGGg alignment column 4
+ ||||| ...
+ AAAAa alignment column 5
+ Alignment 2, with 4 sequences of length 13
+ gcagctgaaaaca hg16.chr7
+ gcagctgaaaaca panTro1.chr6
+ gcagctgaaaaca baboon
+ ACAGCTGAAAATA mm4.chr6
+ Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
+ Checking can write/read as 'nexus' format
+ Failed: We can only write one Alignment to a Nexus file.
+ Checking can write/read as 'phylip' format
+ Checking can write/read as 'phylip-relaxed' format
+ Checking can write/read as 'phylip-sequential' format
+ Checking can write/read as 'stockholm' format
+Testing reading maf format file MAF/ucsc_mm9_chr10.maf with 48 alignments
+ Alignment 0, with 2 sequences of length 164
+ TCATAGGTATTTATTTTTAAATATGGTTTGCTTTAT...GTT mm9.chr10
+ TCACAGATATTTACTATTAAATATGGTTTGTTATAT...GTT oryCun1.scaffold_133159
+ Alignment 1, with 4 sequences of length 466
+ AGTCTTTCCAATGGGACCTGTGAGTCCTAACTATGC...CTG mm9.chr10
+ AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTC...TTC ponAbe2.chr6
+ AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTC...TTC panTro2.chr6
+ AGTCTTCATAAGTGGAAATATAAGTTTTAATTATTC...TTC hg18.chr6
+ Alignment 2, with 5 sequences of length 127
+ TTTTT alignment column 0
+ GGGGG alignment column 1
+ GGGGG alignment column 2
+ GGGGG alignment column 3
+ TTTTC alignment column 4
+ ||||| ...
+ CCCCC alignment column 126
+ ...
+ Alignment 47, with 6 sequences of length 46
+ TTTTTT alignment column 0
+ GGGGGG alignment column 1
+ TTTTTT alignment column 2
+ TTTTTT alignment column 3
+ TGGGAT alignment column 4
+ |||||| ...
+ tTTTT- alignment column 45
+ Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
+ Checking can write/read as 'nexus' format
+ Failed: We can only write one Alignment to a Nexus file.
+ Checking can write/read as 'phylip' format
+ Checking can write/read as 'phylip-relaxed' format
+ Checking can write/read as 'phylip-sequential' format
+ Checking can write/read as 'stockholm' format
+Testing reading mauve format file Mauve/simple.xmfa with 5 alignments
+ Alignment 0, with 2 sequences of length 5670
+ ATATTAGGTTTTTACCTACCCAGGAAAAGCCAACCA...AAT 1/0-5670
+ ATATTAGGTTTTTACCTACCCAGGAAAAGCCAACCA...AAT 2/0-5670
+ Alignment 1, with 2 sequences of length 4420
+ GAACATCAGCACCTGAGTTGCTAAAGTCATTTAGAG...CTC 1/5670-9940
+ GAACATCAGCACCTGAGTTGCTAAAGTCATTTAGAG...CTC 2/7140-11410
+ Alignment 2, with 1 sequences of length 4970
+ TCTACCAACCACCACAGACATCAATCACTTCTGCTG...GAC 1/9940-14910
+ ...
+ Alignment 4, with 1 sequences of length 1470
+ ATTCGCACATAAGAATGTACCTTGCTGTAATTTATA...ATA 2/11410-12880
+ Checking can write/read as 'clustal' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
+ Checking can write/read as 'nexus' format
+ Failed: We can only write one Alignment to a Nexus file.
+ Checking can write/read as 'phylip' format
+ Checking can write/read as 'phylip-relaxed' format
+ Checking can write/read as 'phylip-sequential' format
+ Checking can write/read as 'stockholm' format
Finished tested reading files
diff --git a/Tests/output/test_AlignIO_MauveIO b/Tests/output/test_AlignIO_MauveIO
new file mode 100644
index 0000000..ab79d56
--- /dev/null
+++ b/Tests/output/test_AlignIO_MauveIO
@@ -0,0 +1 @@
+test_AlignIO_MauveIO
diff --git a/Tests/output/test_GenBank b/Tests/output/test_GenBank
index a84eced..0e3245d 100644
--- a/Tests/output/test_GenBank
+++ b/Tests/output/test_GenBank
@@ -4,7 +4,7 @@ Testing parsers...
Seq: Seq('GGCAAGATGGCGCCGGTGGGGGTGGAGAAGAAGCTGCTGCTAGGTCCCAACGGG...AAA', IUPACAmbiguousDNA())
Id: NM_006141.1
Name: NM_006141
-Description Homo sapiens dynein, cytoplasmic, light intermediate polypeptide 2 (DNCLI2), mRNA.
+Description: Homo sapiens dynein, cytoplasmic, light intermediate polypeptide 2 (DNCLI2), mRNA
Annotations***
Key: accessions
Value: ['NM_006141']
@@ -19,6 +19,8 @@ Key: gi
Value: 5453633
Key: keywords
Value: ['']
+Key: molecule_type
+Value: mRNA
Key: organism
Value: Homo sapiens
Key: sequence_version
@@ -58,7 +60,7 @@ DB cross refs []
Seq: Seq('AACAAAACACACATCAAAAACGATTTTACAAGAAAAAAATATCTGAAAAATGTC...AAA', IUPACAmbiguousDNA())
Id: X55053.1
Name: ATCOR66M
-Description A.thaliana cor6.6 mRNA.
+Description: A.thaliana cor6.6 mRNA
Annotations***
Key: accessions
Value: ['X55053']
@@ -73,6 +75,8 @@ Key: gi
Value: 16229
Key: keywords
Value: ['antifreeze protein homology', 'cold-regulated gene', 'cor6.6 gene', 'KIN1 homology']
+Key: molecule_type
+Value: mRNA
Key: organism
Value: Arabidopsis thaliana
References*
@@ -126,7 +130,7 @@ DB cross refs []
Seq: Seq('ATTTGGCCTATAAATATAAACCCTTAAGCCCACATATCTTCTCAATCCATCACA...ATA', IUPACAmbiguousDNA())
Id: X62281.1
Name: ATKIN2
-Description A.thaliana kin2 gene.
+Description: A.thaliana kin2 gene
Annotations***
Key: accessions
Value: ['X62281']
@@ -138,6 +142,8 @@ Key: gi
Value: 16353
Key: keywords
Value: ['kin2 gene']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Arabidopsis thaliana
References*
@@ -250,7 +256,7 @@ DB cross refs []
Seq: Seq('AAAAAAACACAACAAAACTCAATAAATAAACAAATGGCAGACAACAAGCAGAGC...TTC', IUPACAmbiguousDNA())
Id: M81224.1
Name: BNAKINI
-Description Rapeseed Kin1 protein (kin1) mRNA, complete cds.
+Description: Rapeseed Kin1 protein (kin1) mRNA, complete cds
Annotations***
Key: accessions
Value: ['M81224']
@@ -262,6 +268,8 @@ Key: gi
Value: 167145
Key: keywords
Value: ['']
+Key: molecule_type
+Value: mRNA
Key: organism
Value: Brassica napus
References*
@@ -326,7 +334,7 @@ DB cross refs []
Seq: Seq('GGACAAGGCCAAGGATGCTGCTGCTGCAGCTGGAGCTTCCGCGCAACAAGTAAA...GGC', IUPACAmbiguousDNA())
Id: AJ237582.1
Name: ARU237582
-Description Armoracia rusticana csp14 gene (partial), exons 2-3.
+Description: Armoracia rusticana csp14 gene (partial), exons 2-3
Annotations***
Key: accessions
Value: ['AJ237582']
@@ -338,6 +346,8 @@ Key: gi
Value: 4538892
Key: keywords
Value: ['cold shock protein', 'csp14 gene']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Armoracia rusticana
References*
@@ -414,7 +424,7 @@ DB cross refs []
Seq: Seq('AACAAAACTCAATAAATAAACAAATGGCAGACAACAAGCAGAGCTTCCAAGCCG...TTT', IUPACAmbiguousDNA())
Id: L31939.1
Name: BRRBIF72
-Description Brassica rapa (clone bif72) kin mRNA, complete cds.
+Description: Brassica rapa (clone bif72) kin mRNA, complete cds
Annotations***
Key: accessions
Value: ['L31939']
@@ -426,6 +436,8 @@ Key: gi
Value: 1209261
Key: keywords
Value: ['']
+Key: molecule_type
+Value: mRNA
Key: organism
Value: Brassica rapa
References*
@@ -470,7 +482,7 @@ DB cross refs []
Seq: Seq('ATGGCAGACAACAAGCAGAGCTTCCAAGCCGGTCAAGCCGCTGGTCGTGCTGAG...TAG', IUPACAmbiguousDNA())
Id: AF297471.1
Name: AF297471
-Description Brassica napus BN28a (BN28a) gene, complete cds.
+Description: Brassica napus BN28a (BN28a) gene, complete cds
Annotations***
Key: accessions
Value: ['AF297471']
@@ -482,6 +494,8 @@ Key: gi
Value: 10121868
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Brassica napus
References*
@@ -542,7 +556,7 @@ DB cross refs []
Seq: Seq('CACAGGCCCAGAGCCACTCCTGCCTACAGGTTCTGAGGGCTCAGGGGACCTCCT...AAA', IUPACAmbiguousDNA())
Id: AL109817.1
Name: IRO125195
-Description Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 125195.
+Description: Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 125195
Annotations***
Key: accessions
Value: ['AL109817']
@@ -568,6 +582,8 @@ Key: gi
Value: 5731880
Key: keywords
Value: ['FLI_CDNA']
+Key: molecule_type
+Value: mRNA
Key: organism
Value: Homo sapiens
References*
@@ -632,7 +648,7 @@ DB cross refs []
Seq: Seq('GATCATGCATGCACTCCAGCCTGGGACAAGAGCGAAACTCCGTCTCAAAAAAAA...GCA', IUPACAmbiguousDNA())
Id: U05344.1
Name: HUGLUT1
-Description Human fructose transporter (GLUT5) gene, promoter and exon 1.
+Description: Human fructose transporter (GLUT5) gene, promoter and exon 1
Annotations***
Key: accessions
Value: ['U05344']
@@ -644,6 +660,8 @@ Key: gi
Value: 452475
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Homo sapiens
References*
@@ -708,7 +726,7 @@ DB cross refs []
Seq: Seq('AAGCTTTGCTACGATCTACATTTGGGAATGTGAGTCTCTTATTGTAACCTTAGG...CTT', IUPACAmbiguousDNA())
Id: AC007323.5
Name: AC007323
-Description Genomic sequence for Arabidopsis thaliana BAC T25K16 from chromosome I, complete sequence.
+Description: Genomic sequence for Arabidopsis thaliana BAC T25K16 from chromosome I, complete sequence
Annotations***
Key: accessions
Value: ['AC007323']
@@ -722,6 +740,8 @@ Key: gi
Value: 6587720
Key: keywords
Value: ['HTG']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Arabidopsis thaliana
References*
@@ -983,7 +1003,7 @@ DB cross refs []
Seq: Seq('MNNRWILHAAFLLCFSTTALSINYKQLQLQERTNIRKCQELLEQLNGKINLTYR...FQN', IUPACProtein())
Id: NP_034640.1
Name: NP_034640
-Description interferon beta, fibroblast [Mus musculus].
+Description: interferon beta, fibroblast [Mus musculus]
Annotations***
Key: accessions
Value: ['NP_034640']
@@ -1068,7 +1088,7 @@ DB cross refs []
Seq: Seq('TCCAGGGGATTCACGCGCAATATGTTTCCCTCGCTCGTCTGCAGGGTGTGGGAA...TTG', IUPACAmbiguousDNA())
Id: AL138972.1
Name: DMBR25B3
-Description Drosophila melanogaster BAC clone BACR25B3.
+Description: Drosophila melanogaster BAC clone BACR25B3
Annotations***
Key: accessions
Value: ['AL138972']
@@ -1104,6 +1124,8 @@ Key: gi
Value: 6946668
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Drosophila melanogaster
References*
@@ -1321,7 +1343,7 @@ DB cross refs []
Seq: Seq('GAATTCAGATAGAATGTAGACAAGAGGGATGGTGAGGAAAACCTACGGCAAGCA...GGC', IUPACAmbiguousDNA())
Id: U18266.1
Name: HSTMPO1
-Description Human thymopoietin (TMPO) gene, exon 1.
+Description: Human thymopoietin (TMPO) gene, exon 1
Annotations***
Key: accessions
Value: ['U18266']
@@ -1333,6 +1355,8 @@ Key: gi
Value: 885676
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Homo sapiens
References*
@@ -1412,7 +1436,7 @@ DB cross refs []
Seq: UnknownSeq(1250660, alphabet = IUPACAmbiguousDNA(), character = 'N')
Id: NT_019265.6
Name: NT_019265
-Description Homo sapiens chromosome 1 working draft sequence segment.
+Description: Homo sapiens chromosome 1 working draft sequence segment
Annotations***
Key: accessions
Value: ['NT_019265']
@@ -1432,6 +1456,8 @@ Key: gi
Value: 16156830
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Homo sapiens
References*
@@ -1490,7 +1516,7 @@ DB cross refs []
Seq: Seq('TTAATTAACTGTCTTCGATTGCGTTTAATTGACGGTTTTCGATTAAAAGCGGTA...CGC', IUPACAmbiguousDNA())
Id: NC_002678.1
Name: NC_002678
-Description Mesorhizobium loti, complete genome (edited).
+Description: Mesorhizobium loti, complete genome (edited)
Annotations***
Key: accessions
Value: ['NC_002678']
@@ -1502,6 +1528,8 @@ Key: gi
Value: 13470324
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Mesorhizobium loti
References*
@@ -1546,7 +1574,7 @@ DB cross refs []
Seq: Seq('MEECWVTEIANGSKDGLDSNPMKDYMILSGPQKTAVAVLCTLLGLLSALENVAV...SDC', IUPACProtein())
Id: NP_001832.1
Name: NP_001832
-Description cannabinoid receptor 2 (macrophage) [Homo sapiens].
+Description: cannabinoid receptor 2 (macrophage) [Homo sapiens]
Annotations***
Key: accessions
Value: ['NP_001832']
@@ -1645,7 +1673,7 @@ DB cross refs []
Seq: Seq('VKDGYIVDDRNCTYFCGRNAYCNEECTKLKGESGYCQWASPYGNACYCYKVPDH...RCN', IUPACProtein())
Id: P01485
Name: SCX3_BUTOC
-Description Neurotoxin III.
+Description: Neurotoxin III
Annotations***
Key: accessions
Value: ['P01485']
@@ -1730,7 +1758,7 @@ DB cross refs []
Seq: Seq('ATGTCTGGCAACCAGTATACTGAGGAAGTTATGGAGGGAGTAAATTGGTTAAAG...TAA', IUPACAmbiguousDNA())
Id: AB000048.1
Name: AB000048
-Description Feline panleukopenia virus DNA for nonstructural protein 1, complete cds.
+Description: Feline panleukopenia virus DNA for nonstructural protein 1, complete cds
Annotations***
Key: accessions
Value: ['AB000048']
@@ -1742,6 +1770,8 @@ Key: gi
Value: 1769753
Key: keywords
Value: ['nonstructural protein 1']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Feline panleukopenia virus
References*
@@ -1793,7 +1823,7 @@ DB cross refs []
Seq: Seq('ATGTCTGGCAACCAGTATACTGAGGAAGTTATGGAGGGAGTAAATTGGTTAAAG...TAA', IUPACAmbiguousDNA())
Id: AB000049.1
Name: AB000049
-Description Feline panleukopenia virus DNA for nonstructural protein 1, complete cds.
+Description: Feline panleukopenia virus DNA for nonstructural protein 1, complete cds
Annotations***
Key: accessions
Value: ['AB000049']
@@ -1805,6 +1835,8 @@ Key: gi
Value: 1769755
Key: keywords
Value: ['nonstructural protein 1']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Feline panleukopenia virus
References*
@@ -1856,7 +1888,7 @@ DB cross refs []
Seq: Seq('ATGAGTGATGGAGCAGTTCAACCAGACGGTGGTCAACCTGCTGTCAGAAATGAA...TAA', IUPACAmbiguousDNA())
Id: AB000050.1
Name: AB000050
-Description Feline panleukopenia virus DNA for capsid protein 2, complete cds.
+Description: Feline panleukopenia virus DNA for capsid protein 2, complete cds
Annotations***
Key: accessions
Value: ['AB000050']
@@ -1868,6 +1900,8 @@ Key: gi
Value: 1769757
Key: keywords
Value: ['capsid protein 2']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Feline panleukopenia virus
References*
@@ -1919,7 +1953,7 @@ DB cross refs []
Seq: Seq('TGTAACGAACGGTGCAATAGTGATCCACACCCAACGCCTGAAATCAGATCCAGG...CTG', IUPACAmbiguousDNA())
Id: NC_005816.1
Name: NC_005816
-Description Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence.
+Description: Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence
Annotations***
Key: accessions
Value: ['NC_005816']
@@ -1935,6 +1969,8 @@ Key: gi
Value: 45478711
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Yersinia pestis biovar Microtus str. 91001
References*
@@ -2319,7 +2355,7 @@ DB cross refs ['Project:58037']
Seq: Seq('CTAGCAGCCCGCATCGCCCTCGACGTTGGCGATCATCGTGCGCAGCACCTTGAG...TGA', IUPACAmbiguousDNA())
Id: AB070938.1
Name: AB070938
-Description Streptomyces avermitilis melanin biosynthetic gene cluster.
+Description: Streptomyces avermitilis melanin biosynthetic gene cluster
Annotations***
Key: accessions
Value: ['AB070938']
@@ -2331,6 +2367,8 @@ Key: gi
Value: 15823953
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Streptomyces avermitilis
Key: sequence_version
@@ -2354,7 +2392,7 @@ DB cross refs []
Seq: Seq('CTAGCAGCCCGCATCGCCCTCGACGTTGGCGATCATCGTGCGCAGCACCTTGAG...TGA', IUPACAmbiguousDNA())
Id: AB070938.1
Name: AB070938
-Description Streptomyces avermitilis melanin biosynthetic gene cluster.
+Description: Streptomyces avermitilis melanin biosynthetic gene cluster
Annotations***
Key: accessions
Value: ['AB070938']
@@ -2366,6 +2404,8 @@ Key: gi
Value: 15823953
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Streptomyces avermitilis
Key: sequence_version
@@ -2389,7 +2429,7 @@ DB cross refs []
Seq: Seq('CTAGCAGCCCGCATCGCCCTCGACGTTGGCGATCATCGTGCGCAGCACCTTGAG...TGA', IUPACAmbiguousDNA())
Id: AB070938.1
Name: AB070938
-Description Streptomyces avermitilis melanin biosynthetic gene cluster.
+Description: Streptomyces avermitilis melanin biosynthetic gene cluster
Annotations***
Key: accessions
Value: ['AB070938']
@@ -2409,6 +2449,8 @@ Key: source
Value: Streptomyces avermitilis
Key: taxonomy
Value: ['Bacteria', 'Actinobacteria', 'Actinobacteridae', 'Actinomycetales', 'Streptomycineae', 'Streptomycetaceae', 'Streptomyces']
+Key: topology
+Value: linear
Features
type: source
location: [0:6497](+)
@@ -2422,7 +2464,7 @@ DB cross refs []
Seq: Seq('CTAGCAGCCCGCATCGCCCTCGACGTTGGCGATCATCGTGCGCAGCACCTTGAG...TGA', IUPACAmbiguousDNA())
Id: AB070938.1
Name: AB070938
-Description Streptomyces avermitilis melanin biosynthetic gene cluster.
+Description: Streptomyces avermitilis melanin biosynthetic gene cluster
Annotations***
Key: accessions
Value: ['AB070938']
@@ -2434,6 +2476,8 @@ Key: gi
Value: 15823953
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Streptomyces avermitilis
Key: sequence_version
@@ -2458,7 +2502,7 @@ DB cross refs []
Seq: Seq('CTAGCAGCCCGCATCGCCCTCGACGTTGGCGATCATCGTGCGCAGCACCTTGAG...TGA', IUPACAmbiguousDNA())
Id: AB070938.1
Name: AB070938
-Description Streptomyces avermitilis melanin biosynthetic gene cluster.
+Description: Streptomyces avermitilis melanin biosynthetic gene cluster
Annotations***
Key: accessions
Value: ['AB070938']
@@ -2470,6 +2514,8 @@ Key: gi
Value: 15823953
Key: keywords
Value: ['']
+Key: molecule_type
+Value: DNA
Key: organism
Value: Streptomyces avermitilis
Key: sequence_version
@@ -2493,7 +2539,7 @@ DB cross refs []
Seq: Seq('AYTTFSATKNDQLKEPMFFGQPVQVARYDQQKYDIFEKLIEKQLSFFWRPEEVD...FQL', IUPACProtein())
Id: 1MRR_A
Name: 1MRR_A
-Description Chain A, Substitution Of Manganese For Iron In Ribonucleotide Reductase From Escherichia Coli. Spectroscopic And Crystallographic Characterization.
+Description: Chain A, Substitution Of Manganese For Iron In Ribonucleotide Reductase From Escherichia Coli. Spectroscopic And Crystallographic Characterization
Annotations***
Key: accessions
Value: ['1MRR_A']
@@ -2712,7 +2758,7 @@ DB cross refs []
***Record from noref.gb with the RecordParser
sequence length: 1622
locus: NM_006141
-definition: Homo sapiens dynein, cytoplasmic, light intermediate polypeptide 2 (DNCLI2), mRNA.
+definition: Homo sapiens dynein, cytoplasmic, light intermediate polypeptide 2 (DNCLI2), mRNA
accession: ['NM_006141']
feature key: source
location: 1..1622
@@ -2740,7 +2786,7 @@ key: /translation= value: "MAPVGVEKKLLLGPNGPAVAAAGDLTSEEEEGQSLWSSILSEVSTRARSKLPS
***Record from cor6_6.gb with the RecordParser
sequence length: 513
locus: ATCOR66M
-definition: A.thaliana cor6.6 mRNA.
+definition: A.thaliana cor6.6 mRNA
accession: ['X55053']
reference title: Direct Submission
reference title: cDNA sequence analysis and expression of two cold-regulated genes of Arabidopsis thaliana
@@ -2767,7 +2813,7 @@ key: /translation= value: "MSETNKNAFQAGQAAGKAEEKSNVLLDKAKDAAAAAGASAQQAGKSISDAAVG
***Record from cor6_6.gb with the RecordParser
sequence length: 880
locus: ATKIN2
-definition: A.thaliana kin2 gene.
+definition: A.thaliana kin2 gene
accession: ['X62281']
reference title: Direct Submission
reference title: Structure and expression of kin2, one of two cold- and ABA-induced genes of Arabidopsis thaliana
@@ -2841,7 +2887,7 @@ num qualifiers: 0
***Record from cor6_6.gb with the RecordParser
sequence length: 441
locus: BNAKINI
-definition: Rapeseed Kin1 protein (kin1) mRNA, complete cds.
+definition: Rapeseed Kin1 protein (kin1) mRNA, complete cds
accession: ['M81224']
reference title: Nucleotide sequence of a winter B. napus Kin 1 cDNA
feature key: source
@@ -2882,7 +2928,7 @@ key: /gene= value: "kin1"
***Record from cor6_6.gb with the RecordParser
sequence length: 206
locus: ARU237582
-definition: Armoracia rusticana csp14 gene (partial), exons 2-3.
+definition: Armoracia rusticana csp14 gene (partial), exons 2-3
accession: ['AJ237582']
reference title:
reference title: Direct Submission
@@ -2927,7 +2973,7 @@ key: /number= value: 3
***Record from cor6_6.gb with the RecordParser
sequence length: 282
locus: BRRBIF72
-definition: Brassica rapa (clone bif72) kin mRNA, complete cds.
+definition: Brassica rapa (clone bif72) kin mRNA, complete cds
accession: ['L31939']
reference title: Nucleotide sequences of kin gene in chinese cabbage
feature key: source
@@ -2951,7 +2997,7 @@ key: /translation= value: "MADNKQSFQAGQAAGRAEEKGNVLLMDKVKDAATAAGALQTAGQKITEAAGGA
***Record from cor6_6.gb with the RecordParser
sequence length: 497
locus: AF297471
-definition: Brassica napus BN28a (BN28a) gene, complete cds.
+definition: Brassica napus BN28a (BN28a) gene, complete cds
accession: ['AF297471']
reference title: BN28a, a low temperature-induced gene of Brassica napus
reference title: Direct Submission
@@ -2983,7 +3029,7 @@ key: /translation= value: "MADNKQSFQAGQAAGRAEEKGNVLMDKVKDAATAAGASAQTAGQKITEAAGGA
***Record from iro.gb with the RecordParser
sequence length: 1326
locus: IRO125195
-definition: Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 125195.
+definition: Homo sapiens mRNA full length insert cDNA clone EUROIMAGE 125195
accession: ['AL109817']
reference title: The European IMAGE consortium for integrated Molecular analysis of human gene transcripts
reference title: Direct Submission
@@ -3018,7 +3064,7 @@ key: /number= value: 2
***Record from pri1.gb with the RecordParser
sequence length: 741
locus: HUGLUT1
-definition: Human fructose transporter (GLUT5) gene, promoter and exon 1.
+definition: Human fructose transporter (GLUT5) gene, promoter and exon 1
accession: ['U05344']
reference title: Regulation of expression of the human fructose transporter (GLUT5) by cyclic AMP
reference title: Direct Submission
@@ -3053,7 +3099,7 @@ key: /product= value: "fructose transporter"
***Record from arab1.gb with the RecordParser
sequence length: 86436
locus: AC007323
-definition: Genomic sequence for Arabidopsis thaliana BAC T25K16 from chromosome I, complete sequence.
+definition: Genomic sequence for Arabidopsis thaliana BAC T25K16 from chromosome I, complete sequence
accession: ['AC007323']
reference title: Genomic sequence for Arabidopsis thaliana BAC T25K16 from chromosome I
reference title: Direct Submission
@@ -3250,7 +3296,7 @@ key: /translation= value: "MFSLNMRTEIESLWVFALASKFNIYMQQHFASLLVAIAITWFTITIVFWSTPG
***Record from protein_refseq.gb with the RecordParser
sequence length: 182
locus: NP_034640
-definition: interferon beta, fibroblast [Mus musculus].
+definition: interferon beta, fibroblast [Mus musculus]
accession: ['NP_034640']
reference title: structure and expression of a cloned cdna for mouse interferon-beta
feature key: source
@@ -3293,7 +3339,7 @@ key: /coded_by= value: "NM_010510.1:21..569"
***Record from extra_keywords.gb with the RecordParser
sequence length: 154329
locus: DMBR25B3
-definition: Drosophila melanogaster BAC clone BACR25B3.
+definition: Drosophila melanogaster BAC clone BACR25B3
accession: ['AL138972']
reference title: Sequencing the distal X chromosome of Drosophila melanogaster
reference title: Direct Submission
@@ -3461,7 +3507,7 @@ key: /translation= value: "MEEEAPRFNVLEEAFNGNGNGCANVEATQSAILKVLTRVNRFQMRVRKHIEDN
***Record from one_of.gb with the RecordParser
sequence length: 2509
locus: HSTMPO1
-definition: Human thymopoietin (TMPO) gene, exon 1.
+definition: Human thymopoietin (TMPO) gene, exon 1
accession: ['U18266']
reference title: Structure and mapping of the human thymopoietin (TMPO) gene and relationship of TMPO beta to rat lamin-associated polypeptide 2
reference title: Direct Submission
@@ -3508,7 +3554,7 @@ key: /translation= value: "MPEFLEDPSVLTKDKLKSELVANNVTLPAGEQRKDVYVQLYLQHLTARNRPPL
***Record from NT_019265.gb with the RecordParser
sequence length: 0
locus: NT_019265
-definition: Homo sapiens chromosome 1 working draft sequence segment.
+definition: Homo sapiens chromosome 1 working draft sequence segment
accession: ['NT_019265']
reference title: Direct Submission
feature key: source
@@ -3545,7 +3591,7 @@ key: /db_xref= value: "LocusID:55735"
***Record from origin_line.gb with the RecordParser
sequence length: 180
locus: NC_002678
-definition: Mesorhizobium loti, complete genome (edited).
+definition: Mesorhizobium loti, complete genome (edited)
accession: ['NC_002678']
reference title: Complete genome structure of the nitrogen-fixing symbiotic bacterium Mesorhizobium loti
reference title: Direct Submission
@@ -3562,7 +3608,7 @@ key: /gene= value: "fake"
***Record from blank_seq.gb with the RecordParser
sequence length: 360
locus: NP_001832
-definition: cannabinoid receptor 2 (macrophage) [Homo sapiens].
+definition: cannabinoid receptor 2 (macrophage) [Homo sapiens]
accession: ['NP_001832']
reference title: Molecular characterization of a peripheral receptor for cannabinoids
reference title: Expression of central and peripheral cannabinoid receptors in human immune tissues and leukocyte subpopulations
@@ -3595,7 +3641,7 @@ key: /coded_by= value: "NM_001841.1:127..1209"
***Record from dbsource_wrap.gb with the RecordParser
sequence length: 64
locus: SCX3_BUTOC
-definition: Neurotoxin III.
+definition: Neurotoxin III
accession: ['P01485']
reference title: Neurotoxins from the venoms of two scorpions: Buthus occitanus tunetanus and Buthus occitanus mardochei
feature key: source
@@ -3634,7 +3680,7 @@ key: /site_type= value: "amidation"
***Record from gbvrl1_start.seq with the RecordParser
sequence length: 2007
locus: AB000048
-definition: Feline panleukopenia virus DNA for nonstructural protein 1, complete cds.
+definition: Feline panleukopenia virus DNA for nonstructural protein 1, complete cds
accession: ['AB000048']
reference title: Evolutionary pattern of feline panleukopenia virus differs from that of canine parvovirus
reference title: Direct Submission
@@ -3657,7 +3703,7 @@ key: /translation= value: "MSGNQYTEEVMEGVNWLKKHAEDEAFSFVFKCDNVQLNGKDVRWNNYTKPIQN
***Record from gbvrl1_start.seq with the RecordParser
sequence length: 2007
locus: AB000049
-definition: Feline panleukopenia virus DNA for nonstructural protein 1, complete cds.
+definition: Feline panleukopenia virus DNA for nonstructural protein 1, complete cds
accession: ['AB000049']
reference title: Evolutionary pattern of feline panleukopenia virus differs that of canine parvovirus
reference title: Direct Submission
@@ -3680,7 +3726,7 @@ key: /translation= value: "MSGNQYTEEVMEGVNWLKKHAEDEAFSFVFKCDNVQLNGKDVRWNNYTKPIQN
***Record from gbvrl1_start.seq with the RecordParser
sequence length: 1755
locus: AB000050
-definition: Feline panleukopenia virus DNA for capsid protein 2, complete cds.
+definition: Feline panleukopenia virus DNA for capsid protein 2, complete cds
accession: ['AB000050']
reference title: Evolutionary pattern of feline panleukopenia virus differs from that of canine parvovirus
reference title: Direct Submission
@@ -3703,7 +3749,7 @@ key: /translation= value: "MSDGAVQPDGGQPAVRNERATGSGNGSGGGGGGGSGGVGISTGTFNNQTEFKF
***Record from NC_005816.gb with the RecordParser
sequence length: 9609
locus: NC_005816
-definition: Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence.
+definition: Yersinia pestis biovar Microtus str. 91001 plasmid pPCP1, complete sequence
accession: ['NC_005816']
reference title: Genetics of metabolic variations between Yersinia pestis biovars and the proposal of a new biovar, microtus
reference title: Complete genome sequence of Yersinia pestis strain 91001, an isolate avirulent to humans
@@ -4015,7 +4061,7 @@ key: /replace= value: "tt"
***Record from no_end_marker.gb with the RecordParser
sequence length: 6497
locus: AB070938
-definition: Streptomyces avermitilis melanin biosynthetic gene cluster.
+definition: Streptomyces avermitilis melanin biosynthetic gene cluster
accession: ['AB070938']
feature key: source
location: 1..6497
@@ -4026,7 +4072,7 @@ key: /db_xref= value: "taxon:33903"
***Record from wrong_sequence_indent.gb with the RecordParser
sequence length: 6497
locus: AB070938
-definition: Streptomyces avermitilis melanin biosynthetic gene cluster.
+definition: Streptomyces avermitilis melanin biosynthetic gene cluster
accession: ['AB070938']
feature key: source
location: 1..6497
@@ -4037,7 +4083,7 @@ key: /db_xref= value: "taxon:33903"
***Record from invalid_locus_line_spacing.gb with the RecordParser
sequence length: 6497
locus: AB070938
-definition: Streptomyces avermitilis melanin biosynthetic gene cluster.
+definition: Streptomyces avermitilis melanin biosynthetic gene cluster
accession: ['AB070938']
feature key: source
location: 1..6497
@@ -4048,7 +4094,7 @@ key: /db_xref= value: "taxon:33903"
***Record from empty_feature_qualifier.gb with the RecordParser
sequence length: 6497
locus: AB070938
-definition: Streptomyces avermitilis melanin biosynthetic gene cluster.
+definition: Streptomyces avermitilis melanin biosynthetic gene cluster
accession: ['AB070938']
feature key: source
location: 1..6497
@@ -4061,7 +4107,7 @@ key: /note value:
***Record from invalid_misc_feature.gb with the RecordParser
sequence length: 6497
locus: AB070938
-definition: Streptomyces avermitilis melanin biosynthetic gene cluster.
+definition: Streptomyces avermitilis melanin biosynthetic gene cluster
accession: ['AB070938']
feature key: source
location: 1..6497
@@ -4072,7 +4118,7 @@ key: /db_xref= value: "taxon:33903"
***Record from 1MRR_A.gp with the RecordParser
sequence length: 375
locus: 1MRR_A
-definition: Chain A, Substitution Of Manganese For Iron In Ribonucleotide Reductase From Escherichia Coli. Spectroscopic And Crystallographic Characterization.
+definition: Chain A, Substitution Of Manganese For Iron In Ribonucleotide Reductase From Escherichia Coli. Spectroscopic And Crystallographic Characterization
accession: ['1MRR_A']
reference title: Three-dimensional structure of the free radical protein of ribonucleotide reductase
reference title: Substitution of manganese for iron in ribonucleotide reductase from Escherichia coli. Spectroscopic and crystallographic characterization
diff --git a/Tests/output/test_KEGG b/Tests/output/test_KEGG
deleted file mode 100644
index fc1cc98..0000000
--- a/Tests/output/test_KEGG
+++ /dev/null
@@ -1,857 +0,0 @@
-test_KEGG
-Testing Bio.KEGG.Enzyme on enzyme.sample
-
-
-ENTRY EC 1.1.1.1
-NAME Alcohol dehydrogenase
- Aldehyde reductase
-CLASS Oxidoreductases
- Acting on the CH-OH group of donors
- With NAD+ or NADP+ as acceptor
-SYSNAME Alcohol:NAD+ oxidoreductase
-REACTION Alcohol + NAD+ = Aldehyde or Ketone + NADH
-SUBSTRATE NAD+
- Primary alcohol
- Secondary alcohol
- Cyclic secondary alcohol
- Hemiacetal
-PRODUCT Aldehyde
- Ketone
- NADH
-COFACTOR Zinc
-COMMENT A zinc protein. Acts on primary or secondary alcohols or
- hemiacetals; the animal, but not the yeast, enzyme acts also on
- cyclic secondary alcohols
- The insect enzyme is a member of the nonmetallo-short-chain
- alcohol dehydrogenase (ADH) family (Proc.Natl.Acad.Sci.USA(1991)
- 88, 10064-10068).
-PATHWAY PATH: MAP00010 Glycolysis / Gluconeogenesis
- PATH: MAP00071 Fatty acid metabolism
- PATH: MAP00120 Bile acid biosynthesis
- PATH: MAP00350 Tyrosine metabolism
- PATH: MAP00561 Glycerolipid metabolism
-GENES ECO: b0356 b1241 b1478 b3589
- ECE: Z0456 Z2016 Z2232 Z5010
- ECS: ECs0411 ECs1741 ECs2082 ECs4466
- HIN: HI0185
- XFA: XF1746 XF2389
- VCH: VC1147 VC2033
- PAE: PA2119 PA2158 PA2188 PA3629 PA5427
- PMU: PM1453
- NME: NMB0546 NMB1304
- NMA: NMA0725 NMA1518
- MLO: mlr0872 mlr1136 mlr1178
- CCR: CC2516 CC3029
- BSU: BS2776 BS3211
- BHA: BH1829
- LLA: L13145 L55758
- SPY: SPy0044
- MTU: Rv0761c Rv1862 Rv2259
- MLE: ML1784 ML2053
- SYN: sll0990
- AAE: aq_1240 aq_1362
- TMA: TM0111 TM0920
- AFU: AF0024 AF0339 AF2019 AF2101
- HAL: VNG1821G
- TAC: Ta0832 Ta0833 Ta0841
- TVO: TVG0387048 TVG0995648 TVG1348694
- PHO: PH0743
- PAB: PAB1511
- APE: APE1245 APE1557 APE1963 APE2239
- SSO: SSO0472 SSO0764 SSO1220 SSO1300 SSO1646 SSO2334 SSO2441
- SSO2494 SSO2501 SSO2536 SSO2717 SSO2800 SSO2878
- SCE: YBR145W YDL168W YGL256W YMR083W YMR303C YOL086C
- SPO: ADH1 SPAC5H10.06C SPCC13B11.04C
- ATH: At1g77120
- CEL: K12G11.3 K12G11.4
- DME: CG3425 CG3481 CG6598
- MMU: 1098256 87921 87926 87929
- HSA: 124 125 126 127 128 130 131
-DISEASE MIM: 103700 Alcohol dehydrogenase (class I), alpha polypeptide
- MIM: 103720 Alcohol dehydrogenase (class I), beta polypeptide
- MIM: 103730 Alcohol dehydrogenase (class I), gamma polypeptide
- MIM: 103740 Alcohol dehydrogenase (class II), pi polypeptide
- MIM: 600086 Alcohol dehydrogenase-7
-STRUCTURES PDB: 1A4U 1A71 1A72 1ADB 1ADC 1ADF 1ADG 1AGN 1AXE 1AXG
- 1B14 1B15 1B16 1B2L 1BTO 1CDO 1D1S 1D1T 1DDA 1DEH
- 1E3E 1E3I 1E3L 1EE2 1HDX 1HDY 1HDZ 1HET 1HEU 1HF3
- 1HLD 1HSO 1HSZ 1HT0 1HTB 1LDE 1LDY 1QLH 1QLJ 1TEH
- 2OHX 2OXI 3BTO 3HUD 5ADH 6ADH 7ADH
-DBLINKS IUBMB Enzyme Nomenclature: 1.1.1.1
- ExPASy - ENZYME nomenclature database: 1.1.1.1
- WIT (What Is There) Metabolic Reconstruction: 1.1.1.1
- BRENDA, the Enzyme Database: 1.1.1.1
- SCOP (Structural Classification of Proteins): 1.1.1.1
-///
-ENTRY EC 1.1.1.62
-NAME Estradiol 17beta-dehydrogenase
-CLASS Oxidoreductases
- Acting on the CH-OH group of donors
- With NAD+ or NADP+ as acceptor
-SYSNAME Estradiol-17beta:NAD(P)+ 17-oxidoreductase
-REACTION Estradiol-17beta + NAD+ or NADP+ = Estrone + NADH or NADPH
-SUBSTRATE Estradiol-17beta
- (S)-20-Hydroxypregn-4-en-3-one
- NAD+
- NADP+
-PRODUCT Estrone
- (S)-Pregn-4-en-3,20-dione
- NADH
- NADPH
-COMMENT Also acts on (S)-20-hydroxypregn-4-en-3-one and related
- compounds, oxidizing the (S)-20-group. B-specific with respect
- to NAD(P)+ (cf. EC 1.1.1.149).
-PATHWAY PATH: MAP00150 Androgen and estrogen metabolism
-GENES CEL: F11A5.12
- DME: CG1444 CG3415
- HSA: 3292 3293 3294 3295 3296 51478
-DISEASE MIM: 109685 Hydroxysteroid (17-beta) dehydrogenase 2
- MIM: 264300 Hydroxysteroid (17-beta) dehydrogenase 3
-STRUCTURES PDB: 1FDT 1FDS 1FDV 1FDW 1IOL 3DHE 1EQU 1DHT 1BHS 1A27
- 1FDU
-DBLINKS IUBMB Enzyme Nomenclature: 1.1.1.62
- ExPASy - ENZYME nomenclature database: 1.1.1.62
- WIT (What Is There) Metabolic Reconstruction: 1.1.1.62
- BRENDA, the Enzyme Database: 1.1.1.62
- SCOP (Structural Classification of Proteins): 1.1.1.62
-///
-ENTRY EC 1.1.1.68
-NAME Transferred to EC 1.7.99.5
-CLASS Oxidoreductases
- Acting on the CH-OH group of donors
- With NAD+ or NADP+ as acceptor
-COMMENT Transferred entry. Now EC 1.7.99.5 -
- 5,10-Methylenetetrahydrofolate reductase (FADH2).
-DBLINKS IUBMB Enzyme Nomenclature: 1.1.1.68
- ExPASy - ENZYME nomenclature database: 1.1.1.68
- WIT (What Is There) Metabolic Reconstruction: 1.1.1.68
-///
-ENTRY EC 1.6.5.3
-NAME NADH dehydrogenase (ubiquinone)
- Ubiquinone reductase
- Type I dehydrogenase
- Complex I dehydrogenase
-CLASS Oxidoreductases
- Acting on NADH or NADPH
- With quinone or related compound as acceptor
-SYSNAME NADH:ubiquinone oxidoreductase
-REACTION NADH + Ubiquinone = NAD+ + Ubiquinol
-SUBSTRATE NADH
- Ubiquinone
-PRODUCT NAD+
- Ubiquinol
-COFACTOR FAD
- Iron
- Sulfur
-COMMENT A flavoprotein (FAD) containing iron-sulfur contres. The complex,
- present in mitochondria, can be degraded to form EC 1.6.99.3.
-PATHWAY PATH: MAP00130 Ubiquinone biosynthesis
- PATH: MAP00190 Oxidative phosphorylation
-GENES ECO: b2276 b2277 b2278 b2279 b2280 b2281 b2282 b2283 b2284 b2285
- b2286 b2287 b2288
- ECE: Z3534 Z3536 Z3537 Z3538 Z3539 Z3540 Z3541 Z3542 Z3543 Z3544
- Z3545 Z3546 Z3547
- ECS: ECs3160 ECs3161 ECs3162 ECs3163 ECs3164 ECs3165 ECs3166
- ECs3167 ECs3168 ECs3169 ECs3170 ECs3171 ECs3172
- XFA: XF0305 XF0306 XF0307 XF0308 XF0309 XF0310 XF0311 XF0312 XF0313
- XF0314 XF0315 XF0316 XF0317 XF0318
- VCH: VC1581 VCA0155 VCA0157
- PAE: PA1054 PA1056 PA1883 PA2637 PA2638 PA2639 PA2640 PA2641 PA2642
- PA2643 PA2644 PA2645 PA2646 PA2647 PA2648 PA2649
- BUC: BU154 BU155 BU156 BU157 BU158 BU159 BU160 BU161 BU162 BU163
- BU164 BU165 BU166
- NME: NMB0241 NMB0242 NMB0243 NMB0244 NMB0245 NMB0246 NMB0249
- NMB0250 NMB0251 NMB0253 NMB0254 NMB0257 NMB0258 NMB0259
- NMA: NMA0002 NMA0005 NMA0006 NMA0008 NMA0009 NMA0010 NMA0014
- NMA0015 NMA0016 NMA0017 NMA0018 NMA0019 NMA0747 NMA2228 NMA2229
- HPY: HP1260 HP1261 HP1262 HP1263 HP1264 HP1265 HP1266 HP1267 HP1268
- HP1269 HP1270 HP1271 HP1272 HP1273
- HPJ: jhp1181 jhp1182 jhp1183 jhp1184 jhp1185 jhp1186 jhp1187
- jhp1188 jhp1189 jhp1190 jhp1191 jhp1192 jhp1193 jhp1194
- CJE: Cj1566c Cj1567c Cj1568c Cj1569c Cj1570c Cj1571c Cj1572c
- Cj1573c Cj1574c Cj1575c Cj1576c Cj1577c Cj1578c Cj1579c
- RPR: RP115 RP282 RP283 RP284 RP353 RP354 RP355 RP356 RP357 RP537
- RP790 RP791 RP792 RP793 RP795 RP796 RP797
- MLO: mll1352 mll1354 mll1355 mll1357 mll1358 mll1359 mll1361
- mll1362 mll1364 mll1365 mll1366 mll1367 mll1369 mll1371
- mll1372 mll5193 mll5397 mll5398
- CCR: CC1937 CC1938 CC1939 CC1940 CC1941 CC1942 CC1945 CC1946 CC1947
- CC1950 CC1952 CC1954 CC1955 CC1956
- BSU: BS0231
- MTU: Rv3145 Rv3146 Rv3147 Rv3148 Rv3149 Rv3150 Rv3151 Rv3152 Rv3153
- Rv3154 Rv3155 Rv3156 Rv3157 Rv3158
- SYN: sll0026 sll0027 sll0223 sll0519 sll0520 sll0521 sll0522
- sll1220 sll1221 sll1223 sll1732 sll1733 slr0261 slr0331
- slr0844 slr1279 slr1280 slr1281 slr1291 slr2007 slr2009
- DRA: DR0880 DR1492 DR1493 DR1494 DR1495 DR1496 DR1497 DR1498 DR1499
- DR1500 DR1501 DR1503 DR1504 DR1505 DR1506
- AAE: aq_1310 aq_1312 aq_1314 aq_1315 aq_1317 aq_1318 aq_1319
- aq_1320 aq_1321 aq_1322 aq_135 aq_1373 aq_1374 aq_1375 aq_1377
- aq_1378 aq_1379 aq_1382 aq_1383 aq_1385 aq_437 aq_551 aq_573
- aq_574 aq_866
- TMA: TM0010 TM0011 TM0012 TM0201 TM0228 TM1105 TM1211 TM1212 TM1213
- TM1214 TM1215 TM1216 TM1424 TM1425 TM1426
- MJA: MJ0520 MJ1309 MJ1362
- MTH: MTH1237 MTH1246 MTH1548 MTH1549 MTH393
- AFU: AF1823 AF1824 AF1825 AF1826 AF1827 AF1828 AF1829 AF1830 AF1831
- HAL: VNG0635G VNG0636G VNG0637G VNG0639G VNG0640G VNG0641C VNG0643G
- VNG0646G VNG0647G VNG0648G
- TAC: Ta0959 Ta0960 Ta0961 Ta0962 Ta0964 Ta0965 Ta0966 Ta0967 Ta0968
- Ta0969 Ta0970
- TVO: TVG1157047 TVG1158465 TVG1160017 TVG1161017 TVG1162018
- TVG1162541 TVG1162786 TVG1163214 TVG1164251 TVG1165354
- TVG1165809 TVG1166270
- PHO: PH0941 PH0942 PH1431 PH1446 PH1447 PH1448 PH1449 PH1450 PH1451
- PH1452 PH1453
- PAB: PAB0488 PAB0490 PAB0492 PAB0493 PAB0494 PAB0495 PAB0496
- PAB0805 PAB0806 PAB1888 PAB2416
- APE: APE1410 APE1411 APE1415 APE1417 APE1418 APE1419 APE1421
- APE1422 APE1426 APE1428 APE1430
- SSO: SSO0322 SSO0323 SSO0324 SSO0325 SSO0326 SSO0327 SSO0328
- SSO0329 SSO0665
- SCE: YKL192C
- SPO: SPAC11E3.12 SPAC4H3.09 SPBC18E5.10
- ATH: AT4g02580 AT5g08530 AT5g11770 AT5g37510 At1g16700 At1g65290
- At1g79010 At1g79200 At2g02050 At2g20360 At2g44620
- CEL: C09H10.3 C16A3.4 C18E9.4 C25A1.13 C33A12.1 D2030.4 F16B4.6
- F22D6.4 F37C12.3 F44G4.2 F53F4.10 F59C6.5 K04G7.4 K09A9.5
- T10E9.7 T20H4.5 T26A5.3 W10D5.2 Y51H1A.3a Y51H1A.3b Y57G11C.12
- Y63D3A.7
- DME: CG10320 CG11423 CG11913 CG12079 CG15328 CG15434 CG1970 CG2014
- CG2286 CG3192 CG3621 CG3683 CG3944 CG5548 CG5703 CG6020 CG6343
- CG6463 CG6485 CG6914 CG7712 CG8102 CG8844 CG9140 CG9160
- CG9160_1 CG9172 CG9306 CG9762
- HSA: 4535 4536 4537 4538 4539 4540 4541 4694 4695 4696 4697 4698
- 4700 4701 4702 4704 4705 4706 4707 4708 4709 4710 4711 4712
- 4713 4714 4715 4716 4717 4718 4719 4720 4722 4723 4724 4725
- 4726 4727 4728 4729 4731
-DISEASE MIM: 300078 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 1,
- 7.5kD
- MIM: 601677 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 5
- (13kD, B13)
-DBLINKS IUBMB Enzyme Nomenclature: 1.6.5.3
- ExPASy - ENZYME nomenclature database: 1.6.5.3
- WIT (What Is There) Metabolic Reconstruction: 1.6.5.3
- BRENDA, the Enzyme Database: 1.6.5.3
-///
-ENTRY EC 1.14.13.28
-NAME 3,9-Dihydroxypterocarpan 6a-monooxygenase
- 3,9-Dihydroxypterocarpan 6a-hydroxylase
-CLASS Oxidoreductases
- Acting on paired donors with incorporation of molecular oxygen
- With NADH or NADPH as one donor, and incorporation of one atom of
- oxygen
-SYSNAME (6aR,11aR)-3,9-Dihydroxypterocarpan,NADPH:oxygen oxidoreductase
- $ (6a-hydroxylating)
-REACTION (6aR,11aR)-3,9-Dihydroxypterocarpan + NADPH + O2 =
- (6aS,11aS)-3,6a,9-Trihydroxypterocarpan + NADP+ + H2O
-SUBSTRATE (6aR,11aR)-3,9-Dihydroxypterocarpan
- NADPH
- O2
-PRODUCT (6aS,11aS)-3,6a,9-Trihydroxypterocarpan
- NADP+
- H2O
-COFACTOR Heme
-COMMENT Possibly a heme-thiolate protein (P-450). The product of the
- reaction is the biosynthetic precursor of the phytoalexin
- glyceollin in soybean.
-DBLINKS IUBMB Enzyme Nomenclature: 1.14.13.28
- ExPASy - ENZYME nomenclature database: 1.14.13.28
- WIT (What Is There) Metabolic Reconstruction: 1.14.13.28
- BRENDA, the Enzyme Database: 1.14.13.28
-///
-ENTRY EC 2.4.1.68
-NAME Glycoprotein 6-alpha-L-fucosyltransferase
- GDPfucose--glycoprotein fucosyltransferase
-CLASS Transferases
- Glycosyltransferases
- Hexosyltransferases
-SYSNAME GDP-L-fucose:glycoprotein (L-fucose to asparagine-linked
- $ N-acetylglucosamine of N-acetyl-beta-D-glucosaminyl-1,2-alpha-
- $D-mannosyl-1,3-(R1-alpha-1,6)-beta-D-mannosyl-1,4-beta-N-acetyl-
- $D-glucosaminyl-1,4-N-acetyl-D-glucosaminyl)asparagine 6-alpha-L-
- $fucosyltransferase
-REACTION GDP-L-fucose + N4-(N-Acetyl-beta-D-glucosaminyl-1,2-alpha-D-
- $mannosyl-1,3-(R1-alpha-1,6)-beta-D-mannosyl-beta-N-acetyl-1,4-
- $D-glucosaminyl-1,4-N-acetyl-D-glucosaminyl)asparagine = GDP +
- N4-(N-Acetyl-beta-D-glucosaminyl-1,2-alpha-D-mannosyl-1,3-
- $(R1-alpha-1,6)-beta-D-mannosyl-1,4-beta-N-acetyl-D-glucosaminyl-
- $1,4-(alpha-L-fucosyl-1,6)-N-acetyl-D-glucosaminyl)asparagine
-SUBSTRATE GDP-L-fucose
- N4-(N-Acetyl-beta-D-glucosaminyl-1,2-alpha-D-mannosyl-1,3-
- $(R1-alpha-1,6)-beta-D-mannosyl-beta-N-acetyl-1,4-D-glucosaminyl-
- $1,4-N-acetyl-D-glucosaminyl)asparagine
-PRODUCT GDP
- N4-(N-Acetyl-beta-D-glucosaminyl-1,2-alpha-D-mannosyl-1,3-
- $(R1-alpha-1,6)-beta-D-mannosyl-1,4-beta-N-acetyl-D-glucosaminyl-
- $1,4-(alpha-L-fucosyl-1,6)-N-acetyl-D-glucosaminyl)asparagine
-PATHWAY PATH: MAP00510 Glycoprotein biosynthesis
-DBLINKS IUBMB Enzyme Nomenclature: 2.4.1.68
- ExPASy - ENZYME nomenclature database: 2.4.1.68
- WIT (What Is There) Metabolic Reconstruction: 2.4.1.68
- BRENDA, the Enzyme Database: 2.4.1.68
-///
-ENTRY EC 3.1.1.6
-NAME Acetylesterase
- C-esterase (in animal tissues)
-CLASS Hydrolases
- Acting on ester bonds
- Carboxylic ester hydrolases
-SYSNAME Acetic-ester acetylhydrolase
-REACTION an Acetic ester + H2O = an Alcohol + Acetate
-SUBSTRATE Acetic ester
- H2O
-PRODUCT Alcohol
- Acetate
-GENES MMU: 95428
-STRUCTURES PDB: 1BS9 1G66 2AXE
-DBLINKS IUBMB Enzyme Nomenclature: 3.1.1.6
- ExPASy - ENZYME nomenclature database: 3.1.1.6
- WIT (What Is There) Metabolic Reconstruction: 3.1.1.6
- UM-BBD (Biocatalysis/Biodegradation Database): 3.1.1.6
- BRENDA, the Enzyme Database: 3.1.1.6
- SCOP (Structural Classification of Proteins): 3.1.1.6
-///
-ENTRY EC 2.7.2.1
-NAME Acetate kinase
- Acetokinase
-CLASS Transferases
- Transferring phosphorus-containing groups
- Phosphotransferases with a carboxyl group as acceptor
-SYSNAME ATP:acetate phosphotransferase
-REACTION ATP + Acetate = ADP + Acetyl phosphate
-SUBSTRATE ATP
- Acetate
- Propanoate
-PRODUCT ADP
- Acetyl phosphate
- Propanoyl phosphate
-COMMENT Propanoate also acts as acceptor, but more slowly.
-PATHWAY PATH: MAP00620 Pyruvate metabolism
- PATH: MAP00640 Propanoate metabolism
-GENES ECO: ECOLI_2245
- HIN: HI1204
- BSU: ackA
- MGE: MG357
- MPN: G12_orf390
- SYN: sll1299
-DBLINKS University of Geneva ENZYME DATA BANK: 2.7.2.1
- WIT (What Is There) Metabolic Reconstruction: 2.7.2.1
- PIR: B49338 B49935 E64239 KIECAA
-///
-
-
-Testing Bio.KEGG.Enzyme on enzyme.irregular
-
-
-ENTRY EC 1.14.18.1
-NAME Monophenol monooxygenase
- Tyrosinase
- Phenolase
- Monophenol oxidase
- Cresolase
-CLASS Oxidoreductases
- Acting on paired donors with incorporation of molecular oxygen
- With another compound as one donor, and incorporation of one atom
- of oxygen
-SYSNAME Monophenol,L-dopa:oxygen oxidoreductase
-REACTION L-Tyrosine + L-Dopa + O2 = L-Dopa + Dopaquinone + H2O
-SUBSTRATE L-Tyrosine
- L-Dopa
- Benzenediol
- O2
-PRODUCT L-Dopa
- Dopaquinone
- H2O
-COFACTOR Copper
-COMMENT A group of copper proteins that also catalyse the reaction of
- EC 1.10.3.1, if only benzenediols are available as substrate.
- (EC 1.10.3.1 Catechol oxidase)
-PATHWAY PATH: MAP00350 Tyrosine metabolism
- PATH: MAP00740 Riboflavin metabolism
- PATH: MAP00940 Flavonoids, stilbene and lignin biosynthesis
- PATH: MAP00950 Alkaloid biosynthesis I
-GENES DME: CG5779
- MMU: 94856 98880
- HSA: 7299
-DISEASE MIM: 203100 Tyrosinase
-DBLINKS IUBMB Enzyme Nomenclature: 1.14.18.1
- ExPASy - ENZYME nomenclature database: 1.14.18.1
- WIT (What Is There) Metabolic Reconstruction: 1.14.18.1
- BRENDA, the Enzyme Database: 1.14.18.1
-///
-ENTRY EC 3.4.21.50
-NAME Lysyl endopeptidase
- Achromobacter proteinase I
- Endoproteinase Lys-C
- Ps-1
-CLASS Hydrolases
- Acting on peptide bonds (peptidases)
- Serine endopeptidases
-REACTION Preferential cleavage: Lys+, including -Lys-|-Pro-
-SUBSTRATE Protein
- Peptide
- H2O
-PRODUCT Protein
- Peptide
-COMMENT A chymotrypsin homologue isolated from Achromobacter lyticus.
- Enzymes with similar specificity are produced by Lysobacter
- enzymogenes (Endoproteinase Lys-C) and Pseudomonas aeruginosa
- (Ps-1).
- Also hydrolyses lysine amides and esters.
-GENES MJA: MJ1468
- MTH: MTH995
-STRUCTURES PDB: 1ARC 1ARB
-DBLINKS IUBMB Enzyme Nomenclature: 3.4.21.50
- ExPASy - ENZYME nomenclature database: 3.4.21.50
- WIT (What Is There) Metabolic Reconstruction: 3.4.21.50
- BRENDA, the Enzyme Database: 3.4.21.50
- SCOP (Structural Classification of Proteins): 3.4.21.50
-///
-
-
-Testing Bio.KEGG.Enzyme on enzyme.new
-
-
-ENTRY EC 6.2.1.25
-NAME benzoate---CoA ligase
- benzoate---coenzyme A ligase
- benzoyl-coenzyme A synthetase
- benzoyl CoA synthetase (AMP forming)
-CLASS Ligases;
- Forming carbon-sulfur bonds;
- Acid-thiol ligases
-SYSNAME benzoate:CoA ligase (AMP-forming)
-REACTION ATP + benzoate + CoA = AMP + diphosphate + benzoyl-CoA [RN:R01422]
-SUBSTRATE ATP [CPD:C00002]
- benzoate [CPD:C00180]
- CoA [CPD:C00010]
-PRODUCT AMP [CPD:C00020]
- diphosphate [CPD:C00013]
- benzoyl-CoA [CPD:C00512]
-COMMENT Also acts on 2-, 3- and 4-fluorobenzoate, but only very slowly on
- the corresponding chlorobenzoates.
-PATHWAY PATH: ec00362 Benzoate degradation
- PATH: ec00627 Aminobenzoate degradation
- PATH: ec01100 Metabolic pathways
- PATH: ec01120 Microbial metabolism in diverse environments
-GENES REU: Reut_A1327
- REH: H16_A1412 H16_B1918
- RME: Rmet_1224
- CTI: RALTA_A1325 RALTA_B1617
- CNC: CNE_1c14400 CNE_2c18780
- BXE: Bxe_A1419 Bxe_C0896
- BPH: Bphy_1543
- BPY: Bphyt_2700
- BGL: bglu_2g11460
- BUG: BC1001_2395
- BGE: BC1002_1980
- BGF: BC1003_1063
- BRH: RBRH_00494
- BPT: Bpet3574
- AXY: AXYL_05035
- AKA: TKWG_07570
- RFR: Rfer_0216
- POL: Bpro_1624 Bpro_2983
- PNA: Pnap_2948
- VEI: Veis_0730
- DAC: Daci_0076
- DEL: DelCs14_0077
- VAP: Vapar_0089
- VPE: Varpa_0102
- CTT: CtCNB1_0097
- RTA: Rta_22340
- LCH: Lcho_3655
- EBA: ebA2757 ebA5301
- AZO: azo3052
- TMZ: Tmz1t_3136
- GME: Gmet_2143
- GLO: Glov_2397
- GEO: Geob_0200
- GEM: GM21_2825
- DMA: DMR_19390
- DAS: Daes_3238
- DPR: Despr_3172
- DTI: Desti_5323
- BJA: blr1077
- BRA: BRADO6791
- BBT: BBta_0747 BBta_6637
- RPA: RPA0661 RPA0669
- RPB: RPB_4656
- RPC: RPC_1016 RPC_1025
- RPD: RPD_1526 RPD_1534
- RPE: RPE_0592 RPE_0604
- RPT: Rpal_0728 Rpal_0736
- RPX: Rpdx1_4117 Rpdx1_4125
- RVA: Rvan_0044
- SIL: SPO3697
- JAN: Jann_0669
- SWI: Swit_0829
- RPM: RSPPHO_01133
- MAG: amb2869
- GYC: GYMC61_2828
- GYA: GYMC52_1957
- GCT: GC56T3_1519
- SCB: SCAB_8391
- SCT: SCAT_5491
- SCY: SCATT_54890
- BSD: BLASA_2555
- AMD: AMED_8609
- AMN: RAM_35745 RAM_44185
- AMM: AMES_6861 AMES_8478
- PDX: Psed_1491
-DBLINKS ExplorEnz - The Enzyme Database: 6.2.1.25
- IUBMB Enzyme Nomenclature: 6.2.1.25
- ExPASy - ENZYME nomenclature database: 6.2.1.25
- UM-BBD (Biocatalysis/Biodegradation Database): 6.2.1.25
- BRENDA, the Enzyme Database: 6.2.1.25
- CAS: 95329-17-2
-///
-ENTRY EC 6.2.1.25
-NAME benzoate---CoA ligase
- benzoate---coenzyme A ligase
- benzoyl-coenzyme A synthetase
- benzoyl CoA synthetase (AMP forming)
-CLASS Ligases;
- Forming carbon-sulfur bonds;
- Acid-thiol ligases
-SYSNAME benzoate:CoA ligase (AMP-forming)
-REACTION ATP + benzoate + CoA = AMP + diphosphate + benzoyl-CoA [RN:R01422]
-SUBSTRATE ATP [CPD:C00002]
- benzoate [CPD:C00180]
- CoA [CPD:C00010]
-PRODUCT AMP [CPD:C00020]
- diphosphate [CPD:C00013]
- benzoyl-CoA [CPD:C00512]
-COMMENT Also acts on 2-, 3- and 4-fluorobenzoate, but only very slowly on
- the corresponding chlorobenzoates.
-PATHWAY PATH: ec00362 Benzoate degradation
- PATH: ec00627 Aminobenzoate degradation
- PATH: ec01100 Metabolic pathways
- PATH: ec01120 Microbial metabolism in diverse environments
-GENES REU: Reut_A1327
- REH: H16_A1412 H16_B1918
- RME: Rmet_1224
- CTI: RALTA_A1325 RALTA_B1617
- CNC: CNE_1c14400 CNE_2c18780
- BXE: Bxe_A1419 Bxe_C0896
- BPH: Bphy_1543
- BPY: Bphyt_2700
- BGL: bglu_2g11460
- BUG: BC1001_2395
- BGE: BC1002_1980
- BGF: BC1003_1063
- BRH: RBRH_00494
- BPT: Bpet3574
- AXY: AXYL_05035
- AKA: TKWG_07570
- RFR: Rfer_0216
- POL: Bpro_1624 Bpro_2983
- PNA: Pnap_2948
- VEI: Veis_0730
- DAC: Daci_0076
- DEL: DelCs14_0077
- VAP: Vapar_0089
- VPE: Varpa_0102
- CTT: CtCNB1_0097
- RTA: Rta_22340
- LCH: Lcho_3655
- EBA: ebA2757 ebA5301
- AZO: azo3052
- TMZ: Tmz1t_3136
- GME: Gmet_2143
- GLO: Glov_2397
- GEO: Geob_0200
- GEM: GM21_2825
- DMA: DMR_19390
- DAS: Daes_3238
- DPR: Despr_3172
- DTI: Desti_5323
- BJA: blr1077
- BRA: BRADO6791
- BBT: BBta_0747 BBta_6637
- RPA: RPA0661 RPA0669
- RPB: RPB_4656
- RPC: RPC_1016 RPC_1025
- RPD: RPD_1526 RPD_1534
- RPE: RPE_0592 RPE_0604
- RPT: Rpal_0728 Rpal_0736
- RPX: Rpdx1_4117 Rpdx1_4125
- RVA: Rvan_0044
- SIL: SPO3697
- JAN: Jann_0669
- SWI: Swit_0829
- RPM: RSPPHO_01133
- MAG: amb2869
- GYC: GYMC61_2828
- GYA: GYMC52_1957
- GCT: GC56T3_1519
- SCB: SCAB_8391
- SCT: SCAT_5491
- SCY: SCATT_54890
- BSD: BLASA_2555
- AMD: AMED_8609
- AMN: RAM_35745 RAM_44185
- AMM: AMES_6861 AMES_8478
- PDX: Psed_1491
-DBLINKS ExplorEnz - The Enzyme Database: 6.2.1.25
- IUBMB Enzyme Nomenclature: 6.2.1.25
- ExPASy - ENZYME nomenclature database: 6.2.1.25
- UM-BBD (Biocatalysis/Biodegradation Database): 6.2.1.25
- BRENDA, the Enzyme Database: 6.2.1.25
- CAS: 95329-17-2
-///
-
-
-Testing Bio.KEGG.Compound on compound.sample
-
-
-ENTRY C00023
-NAME Iron
- Fe2+
- Fe(II)
- Fe3+
- Fe(III)
-FORMULA Fe
-PATHWAY PATH: MAP00860 Porphyrin and chlorophyll metabolism
-ENZYME 1.1.3.22 (C) 1.1.3.26 (C) 1.2.1.43 (C) 1.2.3.10 (C)
- 1.2.99.2 (C) 1.3.1.31 (C) 1.3.1.53 (C) 1.3.5.1 (C)
- 1.3.99.1 (C) 1.3.99.11 (C) 1.4.1.13 (C) 1.4.7.1 (C)
- 1.5.1.13 (C) 1.5.3.11 (C) 1.5.5.1 (C) 1.6.5.3 (C)
- 1.6.6.4 (C) 1.6.99.3 (C) 1.6.99.13 (R) 1.6.99.13 (R)
- 1.7.7.1 (C) 1.7.7.2 (C) 1.7.99.4 (C) 1.8.1.2 (C)
- 1.8.7.1 (C) 1.8.99.1 (C) 1.8.99.2 (C) 1.8.99.3 (C)
- 1.9.99.1 (R) 1.9.99.1 (R) 1.9.99.1 (C) 1.12.1.2 (C)
- 1.12.2.1 (C) 1.12.99.1 (C) 1.13.11.1 (C) 1.13.11.2 (C)
- 1.13.11.3 (C) 1.13.11.4 (C) 1.13.11.5 (C) 1.13.11.6 (C)
- 1.13.11.8 (C) 1.13.11.9 (C) 1.13.11.10 (C) 1.13.11.12 (C)
- 1.13.11.13 (C) 1.13.11.15 (C) 1.13.11.16 (C) 1.13.11.18 (C)
- 1.13.11.19 (C) 1.13.11.20 (C) 1.13.11.21 (C) 1.13.11.25 (C)
- 1.13.11.32 (C) 1.13.11.36 (C) 1.13.11.37 (C) 1.13.11.38 (C)
- 1.13.11.43 (C) 1.13.99.1 (C) 1.14.11.1 (C) 1.14.11.2 (C)
- 1.14.11.3 (C) 1.14.11.4 (C) 1.14.11.6 (C) 1.14.11.7 (C)
- 1.14.11.8 (C) 1.14.11.9 (C) 1.14.11.10 (C) 1.14.11.11 (C)
- 1.14.11.12 (C) 1.14.11.14 (C) 1.14.11.15 (C) 1.14.11.16 (C)
- 1.14.11.17 (C) 1.14.12.1 (C) 1.14.12.3 (C) 1.14.12.7 (C)
- 1.14.12.8 (C) 1.14.12.9 (C) 1.14.12.10 (C) 1.14.12.12 (C)
- 1.14.12.13 (C) 1.14.13.12 (C) 1.14.13.25 (C) 1.14.13.61 (C)
- 1.14.15.2 (C) 1.14.16.1 (C) 1.14.16.2 (C) 1.14.16.3 (C)
- 1.14.16.4 (C) 1.14.16.6 (C) 1.14.99.3 (R) 1.14.99.5 (C)
- 1.14.99.18 (C) 1.14.99.25 (C) 1.15.1.1 (C) 1.16.3.1 (R)
- 1.16.3.1 (R) 1.17.4.1 (C) 1.17.4.2 (C) 1.18.1.1 (C)
- 1.18.99.1 (C) 3.5.1.56 (C) 3.5.4.8 (C) 3.6.3.30 (R)
- 4.2.1.3 (C) 4.2.1.32 (C) 4.2.1.35 (C) 4.2.1.81 (C)
- 4.2.1.84 (C) 4.2.1.85 (C) 4.99.1.1 (R)
-DBLINKS CAS: 7439-89-6
- PROMISE: FEFEMAIN RNRR2 FERROXIDASE FERRITIN RUBRERYTHRIN
- HAEMERYTHRIN PAP HAEMMAIN CATALASE CYTOCHROMES COX CYTB
- BACFERRITIN CYTBHBL CYTB5 SULFOXIDASE CYTB562 CYTC CYTCI
- CYTCII CYTCIII CYTCIV CYTC1 CYTC554 CYTCD1 CYTF HAO CYTBC1
- GLOBINS PEROXIDASES ANPEROXIDASE FPBPEROXIDASE
- HAEM_THIOLATE HAEMCPO NOS P450 NITROPHORIN SIROHAEM
- FESMAIN FECYS4 DESULFOREDOXIN DFX RUBREDOXIN 2FE2S
- ADRENODOXIN PLANTFRDX FEHASE XANTOXIDASE RIESKE ARHD 4FE4S
- ACONITASE AOR BACFRDX DMSOR ENDONUCLEASE3 GPATASE HIPIP
- NITROGENASE1 NITROGENASE2 NIFE PRISMANE TMADH FEMAIN AAAOH
- EARCD FESOD IARCD IPNS LIPOXYGENASE NHASE PRCPB
-///
-ENTRY C00017
-NAME Protein
-PATHWAY PATH: MAP00251 Glutamate metabolism
- PATH: MAP00252 Alanine and aspartate metabolism
- PATH: MAP00290 Valine, leucine and isoleucine biosynthesis
- PATH: MAP00330 Arginine and proline metabolism
- PATH: MAP00450 Selenoamino acid metabolism
-ENZYME 2.3.2.6 (R) 2.3.2.8 (R) 2.4.1.94 (R) 2.4.1.109 (R)
- 2.4.1.112 (R) 2.4.1.113 (R) 2.4.2.33 (R) 2.7.1.37 (R)
- 2.7.1.123 (R) 3.1.2.22 (R) 3.1.3.16 (R) 3.4.11.10 (R)
- 3.4.11.10 (R) 3.4.19.3 (R) 3.4.19.3 (R) 3.4.21.10 (R)
- 3.4.21.10 (R) 3.4.21.20 (R) 3.4.21.32 (R) 3.4.21.32 (R)
- 3.4.21.36 (R) 3.4.21.36 (R) 3.4.21.37 (R) 3.4.21.37 (R)
- 3.4.21.50 (R) 3.4.21.50 (R) 3.4.21.53 (R) 3.4.21.53 (R)
- 3.4.21.59 (R) 3.4.21.59 (R) 3.4.21.61 (R) 3.4.21.62 (R)
- 3.4.21.62 (R) 3.4.21.64 (R) 3.4.21.64 (R) 3.4.21.66 (R)
- 3.4.21.66 (R) 3.4.22.1 (R) 3.4.22.1 (R) 3.4.22.2 (R)
- 3.4.22.2 (R) 3.4.22.3 (R) 3.4.22.3 (R) 3.4.22.6 (R)
- 3.4.22.6 (R) 3.4.22.7 (R) 3.4.22.7 (R) 3.4.22.8 (R)
- 3.4.22.8 (R) 3.4.22.10 (R) 3.4.22.10 (R) 3.4.22.14 (R)
- 3.4.22.14 (R) 3.4.22.15 (R) 3.4.22.15 (R) 3.4.22.16 (R)
- 3.4.22.16 (R) 3.4.22.17 (R) 3.4.22.17 (R) 3.4.22.25 (R)
- 3.4.22.25 (R) 3.4.22.27 (R) 3.4.22.27 (R) 3.4.22.28 (R)
- 3.4.22.29 (R) 3.4.22.30 (R) 3.4.22.30 (R) 3.4.22.31 (R)
- 3.4.22.31 (R) 3.4.22.32 (R) 3.4.22.32 (R) 3.4.22.33 (R)
- 3.4.22.33 (R) 3.4.22.34 (R) 3.4.22.34 (R) 3.4.22.35 (R)
- 3.4.22.35 (R) 3.4.23.1 (R) 3.4.23.1 (R) 3.4.23.3 (R)
- 3.4.23.3 (R) 3.4.23.4 (R) 3.4.23.4 (R) 3.4.23.5 (R)
- 3.4.23.5 (R) 3.4.23.12 (R) 3.4.23.12 (R) 3.4.23.16 (R)
- 3.4.23.16 (R) 3.4.23.17 (R) 3.4.23.17 (R) 3.4.23.18 (R)
- 3.4.23.18 (R) 3.4.23.19 (R) 3.4.23.19 (R) 3.4.23.20 (R)
- 3.4.23.20 (R) 3.4.23.21 (R) 3.4.23.21 (R) 3.4.23.22 (R)
- 3.4.23.22 (R) 3.4.23.23 (R) 3.4.23.23 (R) 3.4.23.24 (R)
- 3.4.23.24 (R) 3.4.23.25 (R) 3.4.23.25 (R) 3.4.23.26 (R)
- 3.4.23.26 (R) 3.4.23.27 (R) 3.4.23.27 (R) 3.4.23.28 (R)
- 3.4.23.28 (R) 3.4.23.29 (R) 3.4.23.29 (R) 3.4.23.30 (R)
- 3.4.23.30 (R) 3.4.23.31 (R) 3.4.23.31 (R) 3.4.23.32 (R)
- 3.4.23.32 (R) 3.4.23.33 (R) 3.4.23.33 (R) 3.4.23.34 (R)
- 3.4.23.34 (R) 3.4.24.1 (R) 3.4.24.1 (R) 3.4.24.3 (R)
- 3.4.24.6 (R) 3.4.24.6 (R) 3.4.24.7 (R) 3.4.24.11 (R)
- 3.4.24.11 (R) 3.4.24.12 (R) 3.4.24.12 (R) 3.4.24.15 (R)
- 3.4.24.15 (R) 3.4.24.17 (R) 3.4.24.17 (R) 3.4.24.18 (R)
- 3.4.24.18 (R) 3.4.24.20 (R) 3.4.24.20 (R) 3.4.24.21 (R)
- 3.4.24.21 (R) 3.4.24.22 (R) 3.4.24.22 (R) 3.4.24.23 (R)
- 3.4.24.24 (R) 3.4.24.25 (R) 3.4.24.25 (R) 3.4.24.26 (R)
- 3.4.24.27 (R) 3.4.24.27 (R) 3.4.24.28 (R) 3.4.24.28 (R)
- 3.4.24.29 (R) 3.4.24.29 (R) 3.4.24.30 (R) 3.4.24.30 (R)
- 3.4.24.31 (R) 3.4.24.31 (R) 3.4.24.32 (R) 3.4.24.32 (R)
- 3.4.24.33 (R) 3.4.24.33 (R) 3.4.24.34 (R) 3.4.24.36 (R)
- 3.4.24.36 (R) 3.4.24.37 (R) 3.4.24.37 (R) 3.4.24.38 (R)
- 3.4.24.38 (R) 3.4.24.39 (R) 3.4.24.39 (R) 3.4.24.40 (R)
- 3.4.24.40 (R) 3.4.24.41 (R) 3.4.24.41 (R) 3.4.24.42 (R)
- 3.4.24.42 (R) 3.4.24.43 (R) 3.4.24.43 (R) 3.4.24.44 (R)
- 3.4.24.44 (R) 3.4.24.45 (R) 3.4.24.45 (R) 3.4.24.46 (R)
- 3.4.24.46 (R) 3.4.24.47 (R) 3.4.24.47 (R) 3.4.24.48 (R)
- 3.4.24.48 (R) 3.4.24.49 (R) 3.4.24.49 (R) 3.4.24.50 (R)
- 3.4.24.50 (R) 3.4.24.51 (R) 3.4.24.51 (R) 3.4.24.52 (R)
- 3.4.24.52 (R) 3.4.24.53 (R) 3.4.24.53 (R) 3.4.24.54 (R)
- 3.4.24.54 (R) 3.4.99.43 (R) 3.4.99.43 (R) 3.4.99.46 (R)
- 3.4.99.46 (R) 6.2.1.19 (R)
-///
-ENTRY C00099
-NAME beta-Alanine
- 3-aminopropionic acid
- 3-Aminopropanoate
-FORMULA C3H7NO2
-PATHWAY PATH: MAP00240 Pyrimidine metabolism
- PATH: MAP00252 Alanine and aspartate metabolism
- PATH: MAP00410 beta-Alanine metabolism
- PATH: MAP00640 Propanoate metabolism
- PATH: MAP00770 Pantothenate and CoA biosynthesis
-ENZYME 1.5.1.26 (R) 2.6.1.18 (R) 2.6.1.19 (R) 2.6.1.55 (R)
- 3.4.13.3 (R) 3.4.13.5 (R) 3.4.13.20 (R) 3.5.1.6 (R)
- 3.5.1.21 (R) 3.5.1.22 (R) 3.5.3.17 (R) 4.1.1.11 (R)
- 4.1.1.15 (R) 6.3.2.1 (R) 6.3.2.11 (R) 6.3.2.23 (R)
-DBLINKS CAS: 107-95-9
-///
-ENTRY C00294
-NAME Inosine
-FORMULA C10H12N4O5
-PATHWAY PATH: MAP00230 Purine metabolism
-ENZYME 1.1.3.28 (R) 2.7.1.73 (R) 3.2.2.2 (R) 3.5.4.4 (R)
- 3.5.4.17 (R)
-DBLINKS CAS: 58-63-9
-///
-ENTRY C00298
-NAME Trypsin
-ENZYME 3.4.21.9 (R) 3.4.23.18 (R) 3.4.23.20 (R) 3.4.23.24 (R)
- 3.4.23.26 (R)
-///
-ENTRY C00348
-NAME Undecaprenyl phosphate
-PATHWAY PATH: MAP00550 Peptideglycan biosynthesis
-ENZYME 2.4.1.54 (R) 2.7.1.66 (R) 2.7.8.6 (R) 2.7.8.13 (R)
- 3.6.1.27 (R)
-///
-ENTRY C00349
-NAME 2-Methyl-3-oxopropanoate
- 3-Oxo-2-methylpropanoate
- Methylmalonate semialdehyde
-FORMULA C4H6O3
-ENZYME 1.1.1.31 (R) 1.2.1.27 (R) 2.6.1.22 (R) 2.6.1.40 (R)
- 2.6.1.61 (R)
-///
-ENTRY C01386
-NAME NH2Mec
-ENZYME 3.4.22.32 (R)
-///
-
-
-Testing Bio.KEGG.Compound on compound.irregular
-
-
-ENTRY C01454
-NAME Toluate
- p-Toluate
- p-Toluic acid
- 4-Methylbenzoic acid
- Toluenecarboxylic acid
- Crithminic acid
-FORMULA C8H8O2
-MASS 136.0524
-PATHWAY PATH: map00622 Toluene and xylene degradation
-ENZYME 1.2.1.7 1.14.12.-
-DBLINKS CAS: 99-94-5
- PubChem: 4631
- ChEBI: 36635
- 3DMET: B00292
-///
-ENTRY C06876
-NAME Nitrosobenzene
-FORMULA C6H5NO
-MASS 107.0371
-PATHWAY PATH: map00626 Naphthalene and anthracene degradation
-ENZYME 1.6.6.-
-DBLINKS CAS: 586-96-9
- PubChem: 9093
- 3DMET: B01057
-///
-
-
-Testing Bio.KEGG.Map on map00950.rea
-
-
-(R)-N-Methylcoclaurine + (S)-Coclaurine + NADPH + O2 <=> 2'-Norberbamunine + 2 H2O + NADP
-(R)-N-Methylcoclaurine + (S)-N-Methylcoclaurine + NADPH + O2 <=> Berbamunine + 2 H2O + NADP
-(R)-Norreticuline + S-Adenosyl-L-methionine <=> (R)-Reticuline + S-Adenosyl-L-homocysteine
-(R)-Reticuline + NADPH + O2 <=> 2 H2O + NADP+ + Salutaridine
-(S)-3'-Hydroxycoclaurine + S-Adenosyl-L-methionine <=> (S)-Norreticuline + S-Adenosyl-L-homocysteine
-(S)-6-O-Methylnorlaudanosoline + S-Adenosyl-L-methionine <=> (S)-Nororientaline + S-Adenosyl-L-homocysteine
-(S)-Canadine + 2 O2 <=> Berberine + 2 H2O2
-(S)-Cheilanthifoline + NADPH + O2 <=> (S)-Stylopine + 2 H2O + NADP+
-(S)-Coclaurine + S-Adenosyl-L-methionine <=> (S)-N-Methylcoclaurine + S-Adenosyl-L-homocysteine
-(S)-N-Methylcoclaurine <=> (S)-3'-Hydroxy-N-methylcoclaurine
-(S)-Norcoclaurine + S-Adenosyl-L-methionine <=> (S)-Coclaurine + S-Adenosyl-L-homocysteine
-(S)-Norlaudanosoline + S-Adenosyl-L-methionine <=> (S)-6-O-Methylnorlaudanosoline + S-Adenosyl-L-homocysteine
-(S)-Norreticuline + S-Adenosyl-L-methionine <=> (S)-Reticuline + S-Adenosyl-L-homocysteine
-(S)-Reticuline + O2 <=> (S)-Scoulerine + H2O2
-(S)-Scoulerine + NADPH + O2 <=> (S)-Cheilanthifoline + 2 H2O + NADP+
-(S)-Scoulerine + S-Adenosyl-L-methionine <=> (S)-Tetrahydrocolumbamine + S-Adenosyl-L-homocysteine
-(S)-Stylopine + S-Adenosyl-L-methionine <=> (S)-cis-N-methylstylopine
-(S)-Tetrahydrocolumbamine + 2 O2 <=> Columbamine + 2 H2O2
-(S)-Tetrahydrocolumbamine + NADPH + O2 <=> (S)-Canadine + 2 H2O + NADP+
-(S)-Tetrahydrocolumbamine + S-Adenosyl-L-methionine <=> S-Adenosyl-L-homocysteine + Tetrahydropalmatine
-(S)-cis-N-methylstylopine <=> Protopine
-1,2-Dehydroreticuline + NADPH <=> (R)-Reticuline + NADP+
-10-Hydroxydihydrosanguinarine + S-Adenosyl-L-methionine <=> Dihydrochelirubine + S-Adenosyl-L-homocysteine
-12-Hydroxydihydrochelirubine + S-Adenosyl-L-methionine <=> Dihydromacarpine + S-Adenosyl-L-homocysteine
-2 (R)-N-Methylcoclaurine + NADPH + O2 <=> Guattegaumerine + 2 H2O + NADP
-2 Columbamine + O2 <=> 2 Berberine + 2 H2O
-2-Oxoglutarate + L-Tyrosine <=> 3-(4-Hydroxyphenyl)pyruvate + L-Glutamate
-2-Oxoglutarate + L-Tyrosine <=> 4-Hydroxyphenylpyruvate + L-Glutamate
-2-Oxoglutarate + L-Tyrosine <=> 4-Hydroxyphenylpyruvate + L-Glutamate
-3'-Hydroxy-N-methyl-(S)-coclaurine + S-Adenosyl-L-methionine <=> (S)-Reticuline + S-Adenosyl-L-homocysteine
-3,4-Dihydroxyphenylacetaldehyde + Dopamine <=> (S)-Norlaudanosoline + H2O
-4-Hydroxyphenylacetaldehyde + Dopamine <=> (S)-Norcoclaurine + H2O
-4-Hydroxyphenylpyruvate <=> 4-Hydroxyphenylacetaldehyde + CO2
-6-Hydroxyprotopine <=> Dihydrosanguinarine
-7-O-Acetylsalutaridinol <=> Thebaine
-Acetyl-CoA + Salutaridinol <=> 7-O-Acetylsalutaridinol + CoA
-Codeinone + NADPH <=> Codeine + NADP+
-Columbamine + S-Adenosyl-L-methionine <=> Palmatine + S-Adenosyl-L-homocysteine
-Dihydrochelirubine + O2 <=> Chelirubine + H2O2
-Dihydrochelirubine <=> 12-Hydroxychelirubine
-Dihydromacarpine + O2 <=> H2O2 + Macarpine
-Dihydrosanguinarine + NADPH + O2 <=> 10-Hydroxydihydrosanguinarine + H2O + NADP+
-Dihydrosanguinarine + O2 <=> H2O2 + Sanguinarine
-H2O + L-Tyrosine + O2 <=> 4-Hydroxyphenylpyruvate + H2O2 + NH3
-L-Tyrosine <=> CO2 + Tyramine
-L-Tyrosine <=> CO2 + Tyramine
-Morphine + NAD+ <=> Morphinone + NADH
-Morphine + NADP+ <=> Morphinone + NADPH
-Morphinone <=> Codeine
-NADPH + O2 + Protopine <=> 6-Hydroxyprotopine + H2O + NADP+
-NADPH + Salutaridine <=> NADP+ + Salutaridinol
-Neopinone <=> Codeinone
-Oripavine <=> Morphinone
-Thebaine <=> Neopinone
-Thebaine <=> Oripavine
-Tyramine <=> Dopamine
diff --git a/Tests/output/test_QCPSuperimposer b/Tests/output/test_QCPSuperimposer
deleted file mode 100644
index aa5c376..0000000
--- a/Tests/output/test_QCPSuperimposer
+++ /dev/null
@@ -1,12 +0,0 @@
-test_QCPSuperimposer
-[[ 49.0546 -1.2393 50.5843]
- [ 50.0220 -0.3937 51.4249]
- [ 51.4774 -0.5729 51.0676]
- [ 52.3960 -0.9842 52.0332]]
-
-[[ 49.0546 -1.2393 50.5843]
- [ 50.0220 -0.3937 51.4249]
- [ 51.4774 -0.5729 51.0676]
- [ 52.3960 -0.9842 52.0332]]
-
-0.00
diff --git a/Tests/output/test_SVDSuperimposer b/Tests/output/test_SVDSuperimposer
deleted file mode 100644
index 0cf16fd..0000000
--- a/Tests/output/test_SVDSuperimposer
+++ /dev/null
@@ -1,12 +0,0 @@
-test_SVDSuperimposer
-[[ 51.6519 -1.9002 50.0708]
- [ 50.3977 -1.2288 50.6488]
- [ 50.6802 -0.0416 51.5369]
- [ 50.2202 -0.0194 52.8535]]
-
-[[ 51.6519 -1.9002 50.0708]
- [ 50.3977 -1.2288 50.6488]
- [ 50.6802 -0.0416 51.5369]
- [ 50.2202 -0.0194 52.8535]]
-
-0.00
diff --git a/Tests/output/test_SeqIO b/Tests/output/test_SeqIO
index 7ecd492..85ddc0d 100644
--- a/Tests/output/test_SeqIO
+++ b/Tests/output/test_SeqIO
@@ -29,6 +29,10 @@ Testing reading sff format file Roche/E3MFGYR02_random_10_reads.sff
Checking can write/read as 'seqxml' format
Checking can write/read as 'sff' format
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -72,6 +76,8 @@ Testing reading clustal format file Clustalw/cw02.aln as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -119,6 +125,8 @@ Testing reading clustal format file Clustalw/opuntia.aln as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -166,6 +174,8 @@ Testing reading clustal format file Clustalw/hedgehog.aln as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -209,6 +219,8 @@ Testing reading clustal format file Clustalw/odd_consensus.aln as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -242,6 +254,8 @@ Testing reading fasta format file Fasta/lupine.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -274,6 +288,8 @@ Testing reading fasta format file Fasta/elderberry.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -306,6 +322,8 @@ Testing reading fasta format file Fasta/phlox.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -338,6 +356,8 @@ Testing reading fasta format file Fasta/centaurea.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -370,6 +390,8 @@ Testing reading fasta format file Fasta/wisteria.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -402,6 +424,8 @@ Testing reading fasta format file Fasta/sweetpea.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -434,6 +458,8 @@ Testing reading fasta format file Fasta/lavender.nu
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -466,6 +492,8 @@ Testing reading fasta format file Fasta/aster.pro
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -498,6 +526,8 @@ Testing reading fasta format file Fasta/loveliesbleeding.pro
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -530,6 +560,8 @@ Testing reading fasta format file Fasta/rose.pro
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -562,6 +594,8 @@ Testing reading fasta format file Fasta/rosemary.pro
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -594,6 +628,8 @@ Testing reading fasta format file Fasta/f001
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -634,6 +670,10 @@ Testing reading fasta format file Fasta/f002
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -673,6 +713,10 @@ Testing reading fasta format file Fasta/fa01
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -706,6 +750,8 @@ Testing reading fasta format file GenBank/NC_005816.fna
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -749,6 +795,10 @@ Testing reading fasta format file GenBank/NC_005816.ffn
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -793,6 +843,10 @@ Testing reading fasta format file GenBank/NC_005816.faa
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -837,6 +891,10 @@ Testing reading fasta format file GenBank/NC_000932.faa
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -881,6 +939,10 @@ Testing reading tab format file GenBank/NC_005816.tsv
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -914,6 +976,8 @@ Testing reading fasta format file GFF/NC_001802.fna
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -946,6 +1010,8 @@ Testing reading fasta format file GFF/NC_001802lc.fna
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -990,6 +1056,8 @@ Testing reading fasta format file GFF/multi.fna as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -1028,6 +1096,10 @@ Testing reading fasta format file Registry/seqs.fasta
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -1076,6 +1148,8 @@ Testing reading nexus format file Nexus/test_Nexus_input.nex as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp001
@@ -1103,6 +1177,8 @@ Testing reading swiss format file SwissProt/sp001
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp002
@@ -1130,6 +1206,8 @@ Testing reading swiss format file SwissProt/sp002
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp003
@@ -1157,6 +1235,8 @@ Testing reading swiss format file SwissProt/sp003
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp004
@@ -1184,6 +1264,8 @@ Testing reading swiss format file SwissProt/sp004
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp005
@@ -1211,6 +1293,8 @@ Testing reading swiss format file SwissProt/sp005
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp006
@@ -1238,6 +1322,8 @@ Testing reading swiss format file SwissProt/sp006
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp007
@@ -1265,6 +1351,8 @@ Testing reading swiss format file SwissProt/sp007
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp008
@@ -1292,6 +1380,8 @@ Testing reading swiss format file SwissProt/sp008
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp009
@@ -1319,6 +1409,8 @@ Testing reading swiss format file SwissProt/sp009
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp010
@@ -1346,6 +1438,8 @@ Testing reading swiss format file SwissProt/sp010
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp011
@@ -1373,6 +1467,8 @@ Testing reading swiss format file SwissProt/sp011
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp012
@@ -1401,6 +1497,8 @@ Testing reading swiss format file SwissProt/sp012
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp013
@@ -1428,6 +1526,8 @@ Testing reading swiss format file SwissProt/sp013
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp014
@@ -1456,6 +1556,8 @@ Testing reading swiss format file SwissProt/sp014
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp015
@@ -1483,6 +1585,8 @@ Testing reading swiss format file SwissProt/sp015
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/sp016
@@ -1510,6 +1614,8 @@ Testing reading swiss format file SwissProt/sp016
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file Registry/EDD_RAT.dat
@@ -1537,6 +1643,8 @@ Testing reading swiss format file Registry/EDD_RAT.dat
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading uniprot-xml format file SwissProt/uni001
@@ -1564,6 +1672,8 @@ Testing reading uniprot-xml format file SwissProt/uni001
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading uniprot-xml format file SwissProt/uni002
@@ -1599,6 +1709,10 @@ Testing reading uniprot-xml format file SwissProt/uni002
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -1628,6 +1742,8 @@ Testing reading uniprot-xml format file SwissProt/Q13639.xml
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/Q13639.txt
@@ -1655,6 +1771,8 @@ Testing reading swiss format file SwissProt/Q13639.txt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading uniprot-xml format file SwissProt/H2CNN8.xml
@@ -1682,6 +1800,8 @@ Testing reading uniprot-xml format file SwissProt/H2CNN8.xml
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/H2CNN8.txt
@@ -1709,6 +1829,8 @@ Testing reading swiss format file SwissProt/H2CNN8.txt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading uniprot-xml format file SwissProt/F2CXE6.xml
@@ -1736,6 +1858,8 @@ Testing reading uniprot-xml format file SwissProt/F2CXE6.xml
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading swiss format file SwissProt/F2CXE6.txt
@@ -1763,6 +1887,8 @@ Testing reading swiss format file SwissProt/F2CXE6.txt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/noref.gb
@@ -1790,6 +1916,8 @@ Testing reading genbank format file GenBank/noref.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/cor6_6.gb
@@ -1828,6 +1956,10 @@ Testing reading genbank format file GenBank/cor6_6.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -1857,6 +1989,8 @@ Testing reading genbank format file GenBank/iro.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/pri1.gb
@@ -1884,6 +2018,8 @@ Testing reading genbank format file GenBank/pri1.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/arab1.gb
@@ -1911,6 +2047,8 @@ Testing reading genbank format file GenBank/arab1.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/protein_refseq.gb
@@ -1938,6 +2076,8 @@ Testing reading genbank format file GenBank/protein_refseq.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/protein_refseq2.gb
@@ -1965,6 +2105,8 @@ Testing reading genbank format file GenBank/protein_refseq2.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/extra_keywords.gb
@@ -1992,6 +2134,8 @@ Testing reading genbank format file GenBank/extra_keywords.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/one_of.gb
@@ -2019,6 +2163,8 @@ Testing reading genbank format file GenBank/one_of.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/NT_019265.gb
@@ -2054,6 +2200,8 @@ Testing reading genbank format file GenBank/origin_line.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/blank_seq.gb
@@ -2081,6 +2229,8 @@ Testing reading genbank format file GenBank/blank_seq.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/dbsource_wrap.gb
@@ -2108,6 +2258,8 @@ Testing reading genbank format file GenBank/dbsource_wrap.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/NC_005816.gb
@@ -2135,6 +2287,8 @@ Testing reading genbank format file GenBank/NC_005816.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/NC_000932.gb
@@ -2162,6 +2316,8 @@ Testing reading genbank format file GenBank/NC_000932.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/pBAD30.gb
@@ -2189,6 +2345,8 @@ Testing reading genbank format file GenBank/pBAD30.gb
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/gbvrl1_start.seq
@@ -2224,6 +2382,10 @@ Testing reading genbank format file GenBank/gbvrl1_start.seq
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -2253,6 +2415,8 @@ Testing reading genbank format file GFF/NC_001422.gbk
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/NP_416719.gbwithparts
@@ -2280,6 +2444,8 @@ Testing reading genbank format file GenBank/NP_416719.gbwithparts
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/1MRR_A.gp
@@ -2307,6 +2473,8 @@ Testing reading genbank format file GenBank/1MRR_A.gp
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading genbank format file GenBank/DS830848.gb
@@ -2361,6 +2529,10 @@ Testing reading embl format file EMBL/epo_prt_selection.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -2401,6 +2573,10 @@ Testing reading embl format file EMBL/patents.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -2430,6 +2606,8 @@ Testing reading embl format file EMBL/TRBG361.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading embl format file EMBL/DD231055_edited.embl
@@ -2457,6 +2635,8 @@ Testing reading embl format file EMBL/DD231055_edited.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading embl format file EMBL/DD231055_edited2.embl
@@ -2488,6 +2668,8 @@ Testing reading embl format file EMBL/DD231055_edited2.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2516,6 +2698,8 @@ Testing reading embl format file EMBL/SC10H5.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading embl format file EMBL/U87107.embl
@@ -2543,6 +2727,8 @@ Testing reading embl format file EMBL/U87107.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading embl format file EMBL/AAA03323.embl
@@ -2570,6 +2756,8 @@ Testing reading embl format file EMBL/AAA03323.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading embl format file EMBL/AE017046.embl
@@ -2597,6 +2785,8 @@ Testing reading embl format file EMBL/AE017046.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading embl format file EMBL/Human_contigs.embl
@@ -2609,6 +2799,54 @@ Testing reading embl format file EMBL/Human_contigs.embl
Checking can write/read as 'imgt' format
Checking can write/read as 'qual' format
Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=AL954800.2).
+Testing reading embl format file EMBL/kipo_prt_sample.embl
+ ID and Name='DI500001',
+ Seq='DVVMTQTPLSLPVSLGDQASISCRSSQSLVHRNGNTYLHW...AGTKLEI', length=111
+ ID and Name='DI500002',
+ Seq='GSSSSSSSSSSSSSSSSXYSCFWKTCT', length=27
+ ID and Name='DI500003',
+ Seq='GSSNRAT', length=7
+ ...
+ ID and Name='DI500020',
+ Seq='MKRSKRFAVLAQRPVNQDGLIGEWPEEGLIAMDSPFDPVS...HIDLVRE', length=754
+ Checking can write/read as 'fasta' format
+ Checking can write/read as 'clustal' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'phylip' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'stockholm' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'phylip-relaxed' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'embl' format
+ Failed: Need a DNA, RNA or Protein alphabet
+ Checking can write/read as 'fastq' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=DI500020).
+ Checking can write/read as 'fastq-illumina' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=DI500020).
+ Checking can write/read as 'fastq-solexa' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=DI500020).
+ Checking can write/read as 'genbank' format
+ Failed: Need a Nucleotide or Protein alphabet
+ Checking can write/read as 'imgt' format
+ Failed: Need a DNA, RNA or Protein alphabet
+ Checking can write/read as 'phd' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=DI500020).
+ Checking can write/read as 'qual' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=DI500020).
+ Checking can write/read as 'seqxml' format
+ Failed: Need a DNA, RNA or Protein alphabet
+ Checking can write/read as 'sff' format
+ Failed: Missing SFF flow information
+ Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'nexus' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'phylip-sequential' format
+ Failed: Sequences must all be the same length
Testing reading embl format file EMBL/location_wrap.embl
ID = 'Test', Name='Tester',
Seq='CGACTTTCCACTGCCCTCTACGCCCGCGCAATGGGTCGTA...CTACGTT', length=120
@@ -2638,6 +2876,8 @@ Testing reading embl format file EMBL/location_wrap.embl
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2666,6 +2906,8 @@ Testing reading embl format file EMBL/A04195.imgt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading imgt format file EMBL/A04195.imgt
@@ -2693,8 +2935,54 @@ Testing reading imgt format file EMBL/A04195.imgt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
+Testing reading imgt format file EMBL/hla_3260_sample.imgt
+ ID = 'HLA00001.1', Name='HLA00001',
+ Seq='CAGGAGCAGAGGGGTCAGGGCGAAGTCCCAGGGCCCCAGG...ATTAAAA', length=3503
+ ID = 'HLA02169.1', Name='HLA02169',
+ Seq='GATTGGGGAGTCCCAGCCTTGGGGATTCCCCAACTCCGCA...TGACCCT', length=3291
+ ID = 'HLA14798.1', Name='HLA14798',
+ Seq='ATGGCCGTCATGGCGCCCCGAACCCTCCTCCTGCTACTCT...AGTGTGA', length=2903
+ ...
+ ID = 'HLA03131.1', Name='HLA03131',
+ Seq='GCTCCCACTCCATGAGGTATTTCTTCACATCCGTGTCCCG...AGATGGG', length=822
+ Checking can write/read as 'fasta' format
+ Checking can write/read as 'clustal' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'phylip' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'stockholm' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'phylip-relaxed' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'embl' format
+ Checking can write/read as 'fastq' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=HLA03131.1).
+ Checking can write/read as 'fastq-illumina' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=HLA03131.1).
+ Checking can write/read as 'fastq-solexa' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=HLA03131.1).
+ Checking can write/read as 'genbank' format
+ Checking can write/read as 'imgt' format
+ Checking can write/read as 'phd' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=HLA03131.1).
+ Checking can write/read as 'qual' format
+ Failed: No suitable quality scores found in letter_annotations of SeqRecord (id=HLA03131.1).
+ Checking can write/read as 'seqxml' format
+ Checking can write/read as 'sff' format
+ Failed: Missing SFF flow information
+ Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'nexus' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'phylip-sequential' format
+ Failed: Sequences must all be the same length
Testing reading stockholm format file Stockholm/simple.sth
ID and Name='AP001509.1',
Seq='UUAAUCGAGCUCAACACUCUUCGUAUAUCCUC-UCAAUAU...UUAAUGU', length=104
@@ -2734,6 +3022,8 @@ Testing reading stockholm format file Stockholm/simple.sth as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2781,6 +3071,8 @@ Testing reading stockholm format file Stockholm/funny.sth as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2829,6 +3121,8 @@ Testing reading phylip format file Phylip/reference_dna.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2877,6 +3171,8 @@ Testing reading phylip format file Phylip/reference_dna2.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2924,6 +3220,8 @@ Testing reading phylip format file Phylip/hennigian.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -2972,6 +3270,8 @@ Testing reading phylip format file Phylip/horses.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3019,6 +3319,8 @@ Testing reading phylip format file Phylip/random.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3063,6 +3365,8 @@ Testing reading phylip format file Phylip/interlaced.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3109,6 +3413,8 @@ Testing reading phylip format file Phylip/interlaced2.phy as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3155,6 +3461,8 @@ Testing reading emboss format file Emboss/alignret.txt as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3198,6 +3506,10 @@ Testing reading emboss format file Emboss/needle.txt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3241,6 +3553,8 @@ Testing reading emboss format file Emboss/water.txt as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3273,6 +3587,10 @@ Testing reading phd format file Phd/phd1
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3297,6 +3615,8 @@ Testing reading phd format file Phd/phd2
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading phd format file Phd/phd_solexa
@@ -3322,6 +3642,8 @@ Testing reading phd format file Phd/phd_solexa
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Failed: Repeated name 'HWI-EAS94_' (originally 'HWI-EAS94_4_1_1_537_446'), possibly due to truncation
@@ -3345,6 +3667,8 @@ Testing reading phd format file Phd/phd_454
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading ace format file Ace/contig1.ace
@@ -3373,6 +3697,10 @@ Testing reading ace format file Ace/contig1.ace
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3397,6 +3725,8 @@ Testing reading ace format file Ace/consed_sample.ace
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading ace format file Ace/seq.cap.ace
@@ -3419,6 +3749,8 @@ Testing reading ace format file Ace/seq.cap.ace
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading ig format file IntelliGenetics/TAT_mase_nuc.txt
@@ -3461,6 +3793,10 @@ Testing reading ig format file IntelliGenetics/TAT_mase_nuc.txt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3509,6 +3845,8 @@ Testing reading ig format file IntelliGenetics/VIF_mase-pro.txt as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3552,6 +3890,10 @@ Testing reading ig format file IntelliGenetics/vpu_nucaligned.txt
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3592,6 +3934,10 @@ Testing reading pir format file NBRF/B_nuc.pir
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3632,6 +3978,10 @@ Testing reading pir format file NBRF/Cw_prot.pir
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3671,6 +4021,10 @@ Testing reading pir format file NBRF/DMA_nuc.pir
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3711,6 +4065,10 @@ Testing reading pir format file NBRF/DMB_prot.pir
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -3751,6 +4109,8 @@ Testing reading pir format file NBRF/clustalw.pir as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading fasta format file Quality/example.fasta
@@ -3795,6 +4155,8 @@ Testing reading fasta format file Quality/example.fasta as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3828,6 +4190,8 @@ Testing reading qual format file Quality/example.qual
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3869,6 +4233,8 @@ Testing reading fastq format file Quality/example.fastq as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3910,6 +4276,8 @@ Testing reading fastq format file Quality/example_dos.fastq as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3953,6 +4321,8 @@ Testing reading fastq format file Quality/tricky.fastq as an alignment
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -3981,6 +4351,8 @@ Testing reading fastq format file Quality/sanger_faked.fastq
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -4008,6 +4380,8 @@ Testing reading fastq format file Quality/sanger_93.fastq
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -4035,6 +4409,8 @@ Testing reading fastq-illumina format file Quality/illumina_faked.fastq
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -4062,6 +4438,8 @@ Testing reading fastq-solexa format file Quality/solexa_faked.fastq
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -4105,6 +4483,8 @@ Testing reading fastq-solexa format file Quality/solexa_example.fastq as an alig
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Failed: Need a DNA, RNA or Protein alphabet
Checking can write/read as 'phylip-sequential' format
@@ -4144,6 +4524,10 @@ Testing reading seqxml format file SeqXML/dna_example.xml
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -4187,6 +4571,10 @@ Testing reading seqxml format file SeqXML/rna_example.xml
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -4227,6 +4615,10 @@ Testing reading seqxml format file SeqXML/protein_example.xml
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Failed: Sequences must all be the same length
+ Checking can write/read as 'mauve' format
+ Failed: Sequences must all be the same length
Checking can write/read as 'nexus' format
Failed: Sequences must all be the same length
Checking can write/read as 'phylip-sequential' format
@@ -4251,6 +4643,8 @@ Testing reading abi format file Abi/310.ab1
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading abi format file Abi/3100.ab1
@@ -4273,6 +4667,8 @@ Testing reading abi format file Abi/3100.ab1
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Testing reading abi format file Abi/3730.ab1
@@ -4295,6 +4691,8 @@ Testing reading abi format file Abi/3730.ab1
Checking can write/read as 'sff' format
Failed: Missing SFF flow information
Checking can write/read as 'tab' format
+ Checking can write/read as 'maf' format
+ Checking can write/read as 'mauve' format
Checking can write/read as 'nexus' format
Checking can write/read as 'phylip-sequential' format
Finished tested reading files
diff --git a/Tests/run_tests.py b/Tests/run_tests.py
index 31382ed..d18ce35 100644
--- a/Tests/run_tests.py
+++ b/Tests/run_tests.py
@@ -8,18 +8,18 @@ This will find all modules whose name is "test_*.py" in the test
directory, and run them. Various command line options provide
additional facilities.
-Command line options:
-
---help -- show usage info
---offline -- skip tests which require internet access
--g;--generate -- write the output file for a test instead of comparing it.
- The name of the test to write the output for must be
- specified.
--v;--verbose -- run tests with higher verbosity (does not affect our
- print-and-compare style unit tests).
-<test_name> -- supply the name of one (or more) tests to be run.
- The .py file extension is optional.
-doctest -- run the docstring tests.
+Command line options::
+
+ --help -- show usage info
+ --offline -- skip tests which require internet access
+ -g;--generate -- write the output file for a test instead of comparing it.
+ The name of the test to write the output for must be
+ specified.
+ -v;--verbose -- run tests with higher verbosity (does not affect our
+ print-and-compare style unit tests).
+ <test_name> -- supply the name of one (or more) tests to be run.
+ The .py file extension is optional.
+ doctest -- run the docstring tests.
By default, all tests are run.
"""
@@ -69,6 +69,7 @@ def is_numpy():
except ImportError:
return False
+
# The default verbosity (not verbose)
VERBOSITY = 0
@@ -77,7 +78,6 @@ VERBOSITY = 0
# those modules here. Please sort names alphabetically.
DOCTEST_MODULES = [
"Bio.Align",
- "Bio.Align.Generic",
"Bio.Align.Applications._Clustalw",
"Bio.Align.Applications._ClustalOmega",
"Bio.Align.Applications._Dialign",
@@ -99,8 +99,10 @@ DOCTEST_MODULES = [
"Bio.Blast.Applications",
"Bio.Emboss.Applications",
"Bio.GenBank",
+ "Bio.Graphics.GenomeDiagram._Colors",
"Bio.KEGG.Compound",
"Bio.KEGG.Enzyme",
+ "Bio.KEGG.KGML.KGML_parser",
"Bio.NMR.xpktools",
"Bio.motifs",
"Bio.motifs.applications._xxmotif",
@@ -137,17 +139,22 @@ DOCTEST_MODULES = [
"Bio.Sequencing.Applications._Novoalign",
"Bio.Sequencing.Applications._bwa",
"Bio.Sequencing.Applications._samtools",
+ "Bio.SwissProt",
+ "Bio.UniProt.GOA",
"Bio.Wise",
"Bio.Wise.psw",
]
# Silently ignore any doctests for modules requiring numpy!
if is_numpy():
- DOCTEST_MODULES.extend(["Bio.Affy.CelFile",
- "Bio.Statistics.lowess",
- "Bio.PDB.Polypeptide",
- "Bio.PDB.Selection",
- "Bio.SeqIO.PdbIO",
- ])
+ DOCTEST_MODULES.extend([
+ "Bio.Affy.CelFile",
+ "Bio.MaxEntropy",
+ "Bio.PDB.Polypeptide",
+ "Bio.PDB.Selection",
+ "Bio.SeqIO.PdbIO",
+ "Bio.Statistics.lowess",
+ "Bio.SVDSuperimposer",
+ ])
try:
@@ -180,20 +187,22 @@ def _have_bug17666():
if sys.version_info[0] >= 3:
import codecs
bgzf_eof = codecs.latin_1_encode(bgzf_eof)[0]
- h = gzip.GzipFile(fileobj=BytesIO(bgzf_eof))
+ handle = gzip.GzipFile(fileobj=BytesIO(bgzf_eof))
try:
- data = h.read()
- h.close()
+ data = handle.read()
+ handle.close()
assert not data, "Should be zero length, not %i" % len(data)
return False
except TypeError as err:
# TypeError: integer argument expected, got 'tuple'
- h.close()
+ handle.close()
return True
+
+
if _have_bug17666():
DOCTEST_MODULES.remove("Bio.bgzf")
-system_lang = os.environ.get('LANG', 'C') # Cache this
+SYSTEM_LANG = os.environ.get('LANG', 'C') # Cache this
def main(argv):
@@ -232,17 +241,17 @@ def main(argv):
verbosity = VERBOSITY
# deal with the options
- for o, a in opts:
- if o == "--help":
+ for opt, _ in opts:
+ if opt == "--help":
print(__doc__)
return 0
- if o == "--offline":
+ if opt == "--offline":
print("Skipping any tests requiring internet access")
# This is a bit of a hack...
import requires_internet
requires_internet.check.available = False
# The check() function should now report internet not available
- if o == "-g" or o == "--generate":
+ if opt == "-g" or opt == "--generate":
if len(args) > 1:
print("Only one argument (the test name) needed for generate")
print(__doc__)
@@ -259,7 +268,7 @@ def main(argv):
test.generate_output()
return 0
- if o == "-v" or o == "--verbose":
+ if opt == "-v" or opt == "--verbose":
verbosity = 2
# deal with the arguments, which should be names of tests to run
@@ -283,9 +292,10 @@ class ComparisonTestCase(unittest.TestCase):
"""Initialize with the test to run.
Arguments:
- o name - The name of the test. The expected output should be
- stored in the file output/name.
- o output - The output that was generated when this test was run.
+ - name - The name of the test. The expected output should be
+ stored in the file output/name.
+ - output - The output that was generated when this test was run.
+
"""
unittest.TestCase.__init__(self)
self.name = name
@@ -321,13 +331,18 @@ class ComparisonTestCase(unittest.TestCase):
raise ValueError("\nOutput: %s\nExpected: %s"
% (self.name, expected_test))
+ # Track the line number. Starts at 1 to account for the output file
+ # header line.
+ line_number = 1
+
# now loop through the output and compare it to the expected file
while True:
expected_line = expected.readline()
output_line = self.output.readline()
+ line_number += 1
# stop looping if either of the info handles reach the end
- if not(expected_line) or not(output_line):
+ if (not expected_line) or (not output_line):
# make sure both have no information left
assert expected_line == '', "Unread: %s" % expected_line
assert output_line == '', "Extra output: %s" % output_line
@@ -345,13 +360,14 @@ class ComparisonTestCase(unittest.TestCase):
# otherwise make sure the two lines are the same
elif expected_line != output_line:
expected.close()
- raise ValueError("\nOutput : %s\nExpected: %s"
- % (repr(output_line), repr(expected_line)))
+ raise ValueError("\nOutput : %s\nExpected: %s\n%s line %s"
+ % (repr(output_line), repr(expected_line),
+ outputfile, line_number))
+
expected.close()
def generate_output(self):
- """Generate the golden output for the specified test.
- """
+ """Generate the golden output for the specified test."""
outputdir = os.path.join(TestRunner.testdir, "output")
outputfile = os.path.join(outputdir, self.name)
@@ -380,10 +396,13 @@ class TestRunner(unittest.TextTestRunner):
file = __file__
testdir = os.path.abspath(os.path.dirname(file) or os.curdir)
- def __init__(self, tests=(), verbosity=0):
+ def __init__(self, tests=None, verbosity=0):
# if no tests were specified to run, we run them all
# including the doctests
- self.tests = tests
+ if tests is None:
+ self.tests = []
+ else:
+ self.tests = tests
if not self.tests:
# Make a list of all applicable test modules.
names = os.listdir(TestRunner.testdir)
@@ -405,8 +424,8 @@ class TestRunner(unittest.TextTestRunner):
output = StringIO()
# Restore the language and thus default encoding (in case a prior
# test changed this, e.g. to help with detecting command line tools)
- global system_lang
- os.environ['LANG'] = system_lang
+ global SYSTEM_LANG
+ os.environ['LANG'] = SYSTEM_LANG
# Always run tests from the Tests/ folder where run_tests.py
# should be located (as we assume this with relative paths etc)
os.chdir(self.testdir)
@@ -483,7 +502,7 @@ class TestRunner(unittest.TextTestRunner):
# Want to allow this, and abort the test
# (see below for special case)
raise err
- except:
+ except: # noqa: B901
# This happens in Jython with java.lang.ClassFormatError:
# Invalid method Code length ...
sys.stderr.write("ERROR\n")
@@ -500,18 +519,18 @@ class TestRunner(unittest.TextTestRunner):
def run(self):
"""Run tests, return number of failures (integer)."""
failures = 0
- startTime = time.time()
+ start_time = time.time()
for test in self.tests:
ok = self.runTest(test)
if not ok:
failures += 1
total = len(self.tests)
- stopTime = time.time()
- timeTaken = stopTime - startTime
+ stop_time = time.time()
+ time_taken = stop_time - start_time
sys.stderr.write(self.stream.getvalue())
sys.stderr.write('-' * 70 + "\n")
sys.stderr.write("Ran %d test%s in %.3f seconds\n" %
- (total, total != 1 and "s" or "", timeTaken))
+ (total, total != 1 and "s" or "", time_taken))
sys.stderr.write("\n")
if failures:
sys.stderr.write("FAILED (failures = %d)\n" % failures)
diff --git a/Tests/search_tests_common.py b/Tests/search_tests_common.py
index 9e9bbe1..9ec35b5 100644
--- a/Tests/search_tests_common.py
+++ b/Tests/search_tests_common.py
@@ -27,10 +27,11 @@ with warnings.catch_warnings():
class CheckRaw(unittest.TestCase):
"""Base class for testing index's get_raw method."""
+
fmt = None # define this in subclasses!
def check_raw(self, filename, id, raw, **kwargs):
- """Index filename using **kwargs, check get_raw(id)==raw."""
+ """Index filename using keyword arguments, check get_raw(id)==raw."""
idx = SearchIO.index(filename, self.fmt, **kwargs)
raw = _as_bytes(raw)
# Anticipate cases where the raw string and/or file uses different
@@ -110,7 +111,7 @@ class CheckIndex(unittest.TestCase):
def _num_difference(obj_a, obj_b):
- """Returns the number of instance attributes presence only in one object."""
+ """Return the number of instance attributes presence only in one object."""
attrs_a = set(obj_a.__dict__)
attrs_b = set(obj_b.__dict__)
diff = attrs_a.symmetric_difference(attrs_b)
@@ -119,8 +120,7 @@ def _num_difference(obj_a, obj_b):
def compare_search_obj(obj_a, obj_b):
- """Compares attribute values of two QueryResult objects."""
-
+ """Compare attribute values of two QueryResult objects."""
# check that both qresults contain the same instance attributes
assert _num_difference(obj_a, obj_b) == 0
@@ -140,7 +140,7 @@ def compare_search_obj(obj_a, obj_b):
def compare_attrs(obj_a, obj_b, attrs):
- """Compares attribute values of two objects."""
+ """Compare attribute values of two objects."""
for attr in attrs:
# don't check for contained items, they are handled separately
if attr.startswith('_items'):
diff --git a/Tests/seq_tests_common.py b/Tests/seq_tests_common.py
index 7d168e3..7488e13 100644
--- a/Tests/seq_tests_common.py
+++ b/Tests/seq_tests_common.py
@@ -13,6 +13,7 @@ from Bio.SeqRecord import SeqRecord
def checksum_summary(record):
+ """Abbreviated string showing sequence, checksum, and length."""
if isinstance(record.seq, UnknownSeq):
return repr(record.seq)
if len(record.seq) < 25:
@@ -25,7 +26,7 @@ def checksum_summary(record):
def compare_reference(old_r, new_r):
- """Compare two Reference objects
+ """Compare two Reference objects.
Note new_r is assumed to be a BioSQL DBSeqRecord, due to limitations
of the BioSQL table structure.
@@ -71,7 +72,7 @@ def compare_reference(old_r, new_r):
def compare_feature(old_f, new_f):
- """Compare two SeqFeature objects"""
+ """Compare two SeqFeature objects."""
assert isinstance(old_f, SeqFeature)
assert isinstance(new_f, SeqFeature)
@@ -147,7 +148,7 @@ def compare_feature(old_f, new_f):
def compare_sequence(old, new):
- """Compare two Seq or DBSeq objects"""
+ """Compare two Seq or DBSeq objects."""
assert len(old) == len(new), "%i vs %i" % (len(old), len(new))
assert str(old) == str(new)
@@ -208,6 +209,7 @@ def compare_sequence(old, new):
def compare_features(old_list, new_list):
+ """Compare two lists of SeqFeature objects."""
assert isinstance(old_list, list)
assert isinstance(new_list, list)
assert len(old_list) == len(new_list)
@@ -218,7 +220,7 @@ def compare_features(old_list, new_list):
def compare_record(old, new):
- """Compare two SeqRecord or DBSeqRecord objects"""
+ """Compare two SeqRecord or DBSeqRecord objects."""
assert isinstance(old, SeqRecord)
assert isinstance(new, SeqRecord)
# Sequence:
@@ -301,6 +303,7 @@ def compare_record(old, new):
def compare_records(old_list, new_list):
+ """Compare two lists of SeqRecord objects."""
assert isinstance(old_list, list)
assert isinstance(new_list, list)
assert len(old_list) == len(new_list)
diff --git a/Tests/test_Affy.py b/Tests/test_Affy.py
new file mode 100644
index 0000000..6e0562c
--- /dev/null
+++ b/Tests/test_Affy.py
@@ -0,0 +1,192 @@
+import unittest
+
+import struct
+import os
+import sys
+
+try:
+ from numpy import array
+ import numpy.testing
+except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Install NumPy if you want to use Bio.Affy.CelFile")
+
+from Bio.Affy import CelFile
+
+
+def testRecordV4(record):
+ assert(record.intensities.shape == (5, 5))
+ assert(record.intensities.shape == record.stdevs.shape)
+ assert(record.intensities.shape == record.npix.shape)
+ assert(record.ncols == 5)
+ assert(record.nrows == 5)
+ numpy.testing.assert_allclose(record.intensities,
+ [[0., 1., 2., 3., 4.],
+ [5., 6., 7., 8., 9.],
+ [10., 11., 12., 13., 14.],
+ [15., 16., 17., 18., 19.],
+ [20., 21., 22., 23., 24.]])
+ numpy.testing.assert_allclose(record.stdevs,
+ [[0., -1., -2., -3., -4.],
+ [-5., -6., -7., -8., -9.],
+ [-10., -11., -12., -13., -14.],
+ [-15., -16., -17., -18., -19.],
+ [-20., -21., -22., -23., -24.]])
+ numpy.testing.assert_allclose(record.npix,
+ [[9, 9, 9, 9, 9],
+ [9, 9, 9, 9, 9],
+ [9, 9, 9, 9, 9],
+ [9, 9, 9, 9, 9],
+ [9, 9, 9, 9, 9]])
+ assert(len(record.AlgorithmParameters) == 329)
+ assert(len(record.GridCornerUL) == 7)
+ assert(record.AlgorithmParameters[-3:] == '169')
+
+
+class AffyTest(unittest.TestCase):
+ def setUp(self):
+ self.affy3 = "Affy/affy_v3_example.CEL"
+ self.affy4 = "Affy/affy_v4_example.CEL"
+ self.affy4Bad = "Affy/affy_v4_bad_example.CEL"
+ with open(self.affy4Bad, "wb") as f:
+ self.writeExampleV4(f, bad=True)
+
+ def tearDown(self):
+ os.remove(self.affy4Bad)
+
+ # tests if the code is backwards compatible
+ def testAffyStrict(self):
+ record = CelFile.read("hello")
+ assert record.DatHeader is None
+
+ # tests the old Affymetrix v3 parser
+ def testAffy3(self):
+ with open(self.affy3, "r") as f:
+ record = CelFile.read(f)
+ assert(len(record.DatHeader) > 0)
+ assert(record.intensities.shape == (5, 5))
+ assert(record.intensities.shape == record.stdevs.shape)
+ assert(record.intensities.shape == record.npix.shape)
+ assert(record.ncols == 5)
+ assert(record.nrows == 5)
+
+ def testAffy3Backwards(self):
+ # tests the old Affymetrix v3 parser
+ with open(self.affy3, "r") as f:
+ lines = f.readlines()
+ record = CelFile.read_v3(lines)
+
+ assert(len(record.DatHeader) > 0)
+ assert(record.intensities.shape == (5, 5))
+ assert(record.intensities.shape == record.stdevs.shape)
+ assert(record.intensities.shape == record.npix.shape)
+ assert(record.ncols == 5)
+ assert(record.nrows == 5)
+
+ # tests the new Affymetrix v4 parser
+ def testAffy4(self):
+ with open(self.affy4, "rb") as f:
+ record = CelFile.read(f)
+ testRecordV4(record)
+
+ def testAffyBadHeader(self):
+ with self.assertRaises(CelFile.ParserError):
+ with open(self.affy4Bad, "rb") as f:
+ record = CelFile.read(f)
+
+ def testAffyWrongModeReadV4(self):
+ try:
+ with open(self.affy4, "r") as f:
+ record = CelFile.read_v4(f)
+ except CelFile.ParserError:
+ if int(sys.version[0]) >= 3:
+ return # As expected in pyhthon 3
+ else:
+ raise AssertionError("Expected CelFile.ParserError in python3")
+ # the code just works in python 2
+ testRecordV4(record)
+
+ def testAffyWrongModeRead(self):
+ try:
+ with open(self.affy4, "r") as f:
+ record = CelFile.read(f)
+ except CelFile.ParserError:
+ if int(sys.version[0]) >= 3:
+ return # As expected in pyhthon 3
+ else:
+ raise AssertionError("Expected CelFile.ParserError in python3")
+ # the code just works in python 2
+ testRecordV4(record)
+
+ # Writes a small example Affymetrix V4 CEL File
+ def writeExampleV4(self, f, bad=False):
+ preHeaders = {'cellNo': 25,
+ 'columns': 5,
+ 'headerLen': 752,
+ 'magic': 64,
+ 'rows': 5,
+ 'version': 4}
+ goodH = {u'Axis-invertX': b'0'}
+ badH = {u'Axis-invertX': b'1'}
+
+ headers = {u'Algorithm': b'Percentile',
+ u'AlgorithmParameters': b'Percentile:75;CellMargin:4;Outlie'
+ b'rHigh:1.500;OutlierLow:1.004;AlgVersion:6.0;FixedCellSize'
+ b':TRUE;FullFeatureWidth:7;FullFeatureHeight:7;IgnoreOutlie'
+ b'rsInShiftRows:FALSE;FeatureExtraction:TRUE;PoolWidthExten'
+ b'stion:1;PoolHeightExtension:1;UseSubgrids:FALSE;Randomize'
+ b'Pixels:FALSE;ErrorBasis:StdvMean;StdMult:1.000000;NumDATS'
+ b'ubgrids:169',
+ u'AxisInvertY': b'0',
+ u'Cols': b'5',
+ u'DatHeader': b'[0..65534] 20_10N:CLS=19420RWS=19420XIN=0'
+ b' YIN=0 VE=30 2.0 05/25/05 23:19:07 50102310 M10 '
+ b' \x14 \x14 HuEx-1_0-st-v2.1sq \x14 \x14 \x14 \x14 '
+ b'\x14570 \x14 25540.671875 \x14 3.500000 \x14 0.7000 \x14'
+ b' 3',
+ u'GridCornerLL': b'518 18668',
+ u'GridCornerLR': b'18800 18825',
+ u'GridCornerUL': b'659 469',
+ u'GridCornerUR': b'18942 623',
+ u'OffsetX': b'0',
+ u'OffsetY': b'0',
+ u'Rows': b'5',
+ u'TotalX': b'2560',
+ u'TotalY': b'2560',
+ u'swapXY': b'0'}
+ if not bad:
+ headers.update(goodH)
+ else:
+ headers.update(badH)
+ prePadding = b"this text doesn't matter and is ignored\x04"
+ preHeadersOrder = ["magic",
+ "version",
+ "columns",
+ "rows",
+ "cellNo",
+ "headerLen"]
+ headersEncoded = struct.pack('<' + 'i' * len(preHeadersOrder),
+ *[preHeaders[header] for header in
+ preHeadersOrder])
+
+ def packData(intensity, sdev, pixel):
+ return struct.pack("< f f h", intensity, sdev, pixel)
+ f.write(headersEncoded)
+ for header in headers:
+ try:
+ f.write(bytes(header, encoding="utf-8") +
+ b"=" +
+ headers[header] +
+ b"\n")
+ except TypeError:
+ f.write(header + b"=" + headers[header] + b"\n")
+ f.write(prePadding)
+ f.write(b"\x00" * 15)
+ for i in range(25):
+ f.write(packData(float(i), float(-i), 9))
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=0)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_AlignIO.py b/Tests/test_AlignIO.py
index 9eade9a..b849952 100644
--- a/Tests/test_AlignIO.py
+++ b/Tests/test_AlignIO.py
@@ -9,7 +9,6 @@ import os
from Bio._py3k import StringIO
from Bio import SeqIO
from Bio import AlignIO
-from Bio.Align.Generic import Alignment
from Bio.Align import AlignInfo, MultipleSeqAlignment
from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
@@ -68,10 +67,16 @@ test_files = [
("fasta-m10", 2, 12, 'Fasta/output008.m10'),
("ig", 16, 1, 'IntelliGenetics/VIF_mase-pro.txt'),
("pir", 2, 1, 'NBRF/clustalw.pir'),
+ ("maf", 3, 2, 'MAF/humor.maf'),
+ ("maf", None, 3, "MAF/bug2453.maf"), # Have 5, 5, 4 sequences
+ ("maf", None, 3, "MAF/ucsc_test.maf"), # Have 5, 5, 4 sequences
+ ("maf", None, 48, "MAF/ucsc_mm9_chr10.maf"),
+ ("mauve", None, 5, 'Mauve/simple.xmfa'),
]
def str_summary(text, max_len=40):
+ """Cuts *text* if too long for summaries."""
if len(text) <= max_len:
return text
else:
@@ -86,8 +91,8 @@ def alignment_summary(alignment, index=" ", vertical_threshold=5):
if rec_count < vertical_threshold:
# Show each sequence row horizontally
for record in alignment:
- answer.append("%s%s %s"
- % (index, str_summary(str(record.seq)), record.id))
+ answer.append("%s%s %s" % (
+ index, str_summary(str(record.seq)), record.id))
else:
# Show each sequence row vertically
for i in range(min(5, alignment_len)):
@@ -111,7 +116,7 @@ def check_simple_write_read(alignments, indent=" "):
records_per_alignment = None
# Can we expect this format to work?
if not records_per_alignment \
- and format not in test_write_read_alignment_formats:
+ and format not in test_write_read_alignment_formats:
continue
print(indent + "Checking can write/read as '%s' format" % format)
@@ -134,15 +139,17 @@ def check_simple_write_read(alignments, indent=" "):
handle.flush()
handle.seek(0)
try:
- alignments2 = list(AlignIO.parse(handle=handle, format=format,
- seq_count=records_per_alignment))
+ alignments2 = list(AlignIO.parse(
+ handle=handle,
+ format=format,
+ seq_count=records_per_alignment))
except ValueError as e:
# This is BAD. We can't read our own output.
# I want to see the output when called from the test harness,
# run_tests.py (which can be funny about new lines on Windows)
handle.seek(0)
- raise ValueError("%s\n\n%s\n\n%s"
- % (str(e), repr(handle.read()), repr(alignments2)))
+ raise ValueError("%s\n\n%s\n\n%s" % (
+ str(e), repr(handle.read()), repr(alignments2)))
simple_alignment_comparison(alignments, alignments2, format)
if format in test_write_read_alignment_formats:
@@ -156,14 +163,14 @@ def check_simple_write_read(alignments, indent=" "):
# I want to see the output when called from the test harness,
# run_tests.py (which can be funny about new lines on Windows)
handle.seek(0)
- raise ValueError("%s\n\n%s\n\n%s"
- % (str(e), repr(handle.read()), repr(alignments2)))
+ raise ValueError("%s\n\n%s\n\n%s" % (
+ str(e), repr(handle.read()), repr(alignments2)))
simple_alignment_comparison(alignments, alignments2, format)
if len(alignments) > 1:
# Try writing just one Alignment (not a list)
handle = StringIO()
- SeqIO.write(alignments[0], handle, format)
+ AlignIO.write(alignments[0:1], handle, format)
assert handle.getvalue() == alignments[0].format(format)
@@ -190,7 +197,7 @@ def simple_alignment_comparison(alignments, alignments2, format):
elif format == "clustal":
assert r1.id.replace(" ", "_")[:30] == r2.id, \
"'%s' vs '%s'" % (r1.id, r2.id)
- elif format == "stockholm":
+ elif format in ["stockholm", "maf"]:
assert r1.id.replace(" ", "_") == r2.id, \
"'%s' vs '%s'" % (r1.id, r2.id)
elif format == "fasta":
@@ -203,10 +210,7 @@ def simple_alignment_comparison(alignments, alignments2, format):
# Check Phylip files reject duplicate identifiers.
def check_phylip_reject_duplicate():
- """
- Ensure that attempting to write sequences with duplicate IDs after
- truncation fails for Phylip format.
- """
+ """Writing post-truncation duplicated IDs should fail for PHYLIP."""
handle = StringIO()
sequences = [SeqRecord(Seq('AAAA'), id='longsequencename1'),
SeqRecord(Seq('AAAA'), id='longsequencename2'),
@@ -216,12 +220,12 @@ def check_phylip_reject_duplicate():
# This should raise a ValueError
AlignIO.write(alignment, handle, 'phylip')
assert False, "Duplicate IDs after truncation are not allowed."
- except ValueError as e:
+ except ValueError as err:
# Expected - check the error
- assert "Repeated name 'longsequen'" in str(e)
+ assert "Repeated name 'longsequen'" in str(err)
-check_phylip_reject_duplicate()
+check_phylip_reject_duplicate()
# Check parsers can cope with an empty file
for t_format in AlignIO._FormatToIterator:
@@ -232,9 +236,8 @@ for t_format in AlignIO._FormatToIterator:
# Check writers can cope with no alignments
for t_format in list(AlignIO._FormatToWriter) + list(SeqIO._FormatToWriter):
handle = StringIO()
- assert 0 == AlignIO.write([], handle, t_format), \
- "Writing no alignments to %s format should work!" \
- % t_format
+ msg = "Writing no alignments to %s format should work!" % t_format
+ assert AlignIO.write([], handle, t_format) == 0, msg
handle.close()
# Check writers reject non-alignments
@@ -260,12 +263,13 @@ for (t_format, t_per, t_count, t_filename) in test_files:
# Try as an iterator using handle
with open(t_filename, "r") as handle:
alignments = list(AlignIO.parse(handle, format=t_format))
- assert len(alignments) == t_count, \
- "Found %i alignments but expected %i" % (len(alignments), t_count)
- for alignment in alignments:
- assert len(alignment) == t_per, \
- "Expected %i records per alignment, got %i" \
- % (t_per, len(alignment))
+ msg = "Found %i alignments but expected %i" % (len(alignments), t_count)
+ assert len(alignments) == t_count, msg
+ if t_per is not None:
+ for alignment in alignments:
+ assert len(alignment) == t_per, \
+ "Expected %i records per alignment, got %i" \
+ % (t_per, len(alignment))
# Try using the iterator with a for loop and a filename not handle
alignments2 = []
@@ -315,7 +319,7 @@ for (t_format, t_per, t_count, t_filename) in test_files:
if t_count == 1:
with open(t_filename) as handle:
alignment = AlignIO.read(handle, format=t_format)
- assert isinstance(alignment, Alignment)
+ assert isinstance(alignment, MultipleSeqAlignment)
else:
try:
with open(t_filename) as handle:
@@ -346,10 +350,9 @@ for (t_format, t_per, t_count, t_filename) in test_files:
rep_dict = summary.replacement_dictionary()
try:
info_content = summary.information_content()
- except ValueError as e:
- if str(e) != "Error in alphabet: not Nucleotide or Protein, supply expected frequencies":
- raise e
- pass
+ except ValueError as err:
+ if str(err) != "Error in alphabet: not Nucleotide or Protein, supply expected frequencies":
+ raise err
if t_count == 1 and t_format not in ["nexus", "emboss", "fasta-m10"]:
# print(" Trying to read a triple concatenation of the input file")
@@ -358,7 +361,7 @@ for (t_format, t_per, t_count, t_filename) in test_files:
handle = StringIO()
handle.write(data + "\n\n" + data + "\n\n" + data)
handle.seek(0)
- assert 3 == len(list(AlignIO.parse(handle=handle, format=t_format, seq_count=t_per)))
+ assert len(list(AlignIO.parse(handle=handle, format=t_format, seq_count=t_per))) == 3
handle.close()
# Some alignment file formats have magic characters which mean
diff --git a/Tests/test_AlignIO_ClustalIO.py b/Tests/test_AlignIO_ClustalIO.py
index fc9f04a..bb61f16 100644
--- a/Tests/test_AlignIO_ClustalIO.py
+++ b/Tests/test_AlignIO_ClustalIO.py
@@ -35,7 +35,7 @@ gi|671626|emb|CAA85685.1| -EKDQCICYVAYPLDLFEEGSVTNMFTSIVGNVFGFKALRALRL
gi|4959044|gb|AAD34209.1|AF069 VPTTRAQRRA 210
gi|671626|emb|CAA85685.1| VAYVKTFQGP 151
*. .:: : .
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
# This example is a truncated version of the dataset used here:
# http://virgil.ruc.dk/kurser/Sekvens/Treedraw.htm
@@ -77,7 +77,7 @@ HISJ_E_COLI LKAKKIDAIMSSLSITEKRQQEIAFTDKLYAADSRLV
HISJ_E_COLI LKAKKIDAIMSSLSITEKRQQEIAFTDKLYAADSRLV
*.: . * . * *: :
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
aln_example3 = \
@@ -143,7 +143,7 @@ Test1seq GCTGGGGATGGAGAGGGAACAGAGTT-
AT3G20900.1-SEQ GCTGGGGATGGAGAGGGAACAGAGTAG
AT3G20900.1-CDS GCTGGGGATGGAGAGGGAACAGAGTAG
*************************
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
aln_example4 = \
"""Kalign (2.0) alignment in ClustalW format
@@ -227,6 +227,7 @@ class TestClustalIO(unittest.TestCase):
alignments = next(ClustalIterator(StringIO(aln_example4)))
self.assertEqual(2, len(alignments))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_AlignIO_EmbossIO.py b/Tests/test_AlignIO_EmbossIO.py
index 5cb63b1..42fab60 100644
--- a/Tests/test_AlignIO_EmbossIO.py
+++ b/Tests/test_AlignIO_EmbossIO.py
@@ -104,7 +104,7 @@ IXI_235 82 SRPNRFAPTLMSSCITSTTGPPAWAGDRSHE 112
#---------------------------------------
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
pair_example2 = \
"""########################################
@@ -276,7 +276,7 @@ gi|94970041|r 97 AEFLQKPFTSDSLLRKVRAVLQKRQ 121
#---------------------------------------
#---------------------------------------
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
pair_example3 = """########################################
# Program: needle
@@ -365,7 +365,7 @@ asis 311 ----------------- 311
#---------------------------------------
-#---------------------------------------""" # noqa for pep8 W291 trailing whitespace
+#---------------------------------------""" # noqa : W291
class TestEmbossIO(unittest.TestCase):
diff --git a/Tests/test_AlignIO_MauveIO.py b/Tests/test_AlignIO_MauveIO.py
new file mode 100644
index 0000000..767d2af
--- /dev/null
+++ b/Tests/test_AlignIO_MauveIO.py
@@ -0,0 +1,111 @@
+# Copyright 2006-2014 by Peter Cock. All rights reserved.
+# Revisions copyright 2011 Brandon Invergo. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+
+"""Tests for Bio.AlignIO.MauveIO"""
+
+import unittest
+import os
+
+from Bio._py3k import StringIO
+
+from Bio.AlignIO.MauveIO import MauveIterator, MauveWriter
+from Bio import SeqIO
+
+
+class TestMauveIO(unittest.TestCase):
+ MAUVE_TEST_DATA_DIR = os.path.join(os.path.dirname(
+ os.path.realpath(__file__)), 'Mauve')
+ SIMPLE_XMFA = os.path.join(MAUVE_TEST_DATA_DIR, 'simple.xmfa')
+ SIMPLE_FA = os.path.join(MAUVE_TEST_DATA_DIR, 'simple.fa')
+
+ def test_one(self):
+ handle = open(self.SIMPLE_XMFA, 'r')
+ ids = []
+ for alignment in MauveIterator(handle):
+ for record in alignment:
+ ids.append(record.id)
+ handle.close()
+
+ self.assertEqual(ids, ['1/0-5670', '2/0-5670', '1/5670-9940', '2/7140-11410', '1/9940-14910', '2/5670-7140', '2/11410-12880'])
+
+ expected = """ATTCGCACAT AAGAATGTAC CTTGCTGTAA TTTATACTCA
+ GCAGGTGGTG CAGACATCAT AACAAAAGAA GACTCTTGTT GTACTAGATA TTGTGTAGCA
+ TCACGACCAC ACACACATGG AATGGAAACA CCTGTCTTAA GATTATCATA AGATAGAGTA
+ CCCATATACA TCACAGCTTC TACACCCGTT AAGGTAGTAG TTTTCTGACC ACAATGTTTA
+ CACACCACAT TAAGAACTCG CTTTGCAGAT TCCAAATTAG CATGCTGTAG AAGATGGGTC
+ ATAGTTTCTC TGACATCACC AAGCTCGCCA ACAGTTTTAT TACTGTAAGC GAGTATGAGT
+ GCACAAAAGT TAGCAGCATC ACCAGCACGG GCTCTATAAT AAGCCTCTTG AAGTGCTGGT
+ GCATTGAATT TGACTTCAAG CTGTTGAAGT GCTAATAAAA CACTAGACAA ATAACAATTG
+ TTATCAGCCC ATTTAATTGA AGTTAAACCA CCAACTTGAG GAAATTTCCA TTTCTTTGTG
+ TGGTTTAAAG CAGACATGTA CCTACCAAGA AAACTCTCAT CAAGAGTATG GTAGTACTCG
+ AAAGCTTCAC TACGTAGTGT GTCATCACTA GGTAGTACAA AGAAAGTCTT ACCCTCATGA
+ TTTACATGAG GTTTAATTTT TGTAACATCA GCACCATCCA AGTATGTTGG ACCAAACTGC
+ TGTCCATATG TCATAGACAT ATCCACAAGC TGTGTGTGGA GATTAGTGTT GTCCACAGTT
+ GTGAACACTT TTATAGTCTT AACCTCCCGC AGGGATAAGA GACTCTTTAG TTTGTCAAGT
+ GAAAGAACCT CACCGTCAAG ATGAAACTCG ACGGGGCTCT CCAGAGTGTG GTACACAATT
+ TTGTCACCAC GCTTAAGAAA TTCAACACCT AACTCTGTAC GCTGTCCTGA ATAGGACCAA
+ TCTCTGTAAG AGCCAGCCAA AGAAACTGTT TCTACAAAGT GCTCCTCAGA TGTCTTTGAT
+ GACGAAGTGA GGTATCCATT ATATGTAGTA ACAGCATCTG GTGATGATAC TGACACTACG
+ GCAGGAGCTT TAAGAGAACG CATACAGCGC GCAGCCTCTT CAAGATTAAA ACCATGTGTC
+ ACATAACCAA TTGGCATTGT GACAAGCGGC TCATTTAGAG AGTTCAGCTT CGTAATAATA
+ GAAGCTACAG GCTCTTTACT AGTATAAAAG AAGAATCGGA CACCATAGTC AACGATGCCC
+ TCTTGAATTT TAATTCCTTT ATACTTACGT TGGATGGTTG CCATTATGGC TCTAACATCC
+ ATGCATATAG GCATTAATTT TCTTGTCTCT TCAGCATGAG CAAGCATTTC TCTCAAATTC
+ CAGGATACAG TTCCTAGAAT CTCTTCCTTA GCATTAGGTG CTTCTGAAGG TAGTACATAA
+ AATGCAGATT TGCATTTCTT AAGAGCAGTC TTAGCTTCCT CAAGTGTATA """
+ self.assertEqual(str(record.seq).replace("-", ""),
+ expected.replace(' ', '').replace('\n', ''))
+
+ def test_sequence_positions(self):
+ handle = open(self.SIMPLE_FA, 'r')
+ seqs = list(SeqIO.parse(handle, 'fasta'))
+ handle.close()
+
+ handle = open(self.SIMPLE_XMFA, 'r')
+ aln_list = list(MauveIterator(handle))
+ handle.close()
+
+ for aln in aln_list:
+ for record in aln:
+ if not str(record.seq).startswith('-'):
+ expected = str(record.seq)[0:10]
+ # seqs 0, 1 are ids 1, 2
+ actual = seqs[int(record.name) - 1].seq
+ # Slice out portion mentioned in file
+ actual = actual[record.annotations['start']:
+ record.annotations['end']]
+
+ if record.annotations['strand'] < 0:
+ actual = actual.reverse_complement()
+ # Slice first 10 chars for comparison, don't want to
+ # get any '-'s by accident
+ actual = actual[0:10]
+ if len(actual) == 0:
+ # We can't test sequences which don't provide
+ # proper annotation start/end/strand information
+ continue
+ self.assertEqual(expected, actual)
+
+ def test_write_read(self):
+ handle = open(self.SIMPLE_XMFA, 'r')
+ aln_list = list(MauveIterator(handle))
+ handle.close()
+
+ handle = StringIO()
+ MauveWriter(handle).write_file(aln_list)
+ handle.seek(0)
+ aln_list_out = list(MauveIterator(handle))
+
+ for a1, a2 in zip(aln_list, aln_list_out):
+ self.assertEqual(len(a1), len(a2))
+ for r1, r2 in zip(a1, a2):
+ self.assertEqual(r1.id, r2.id)
+ self.assertEqual(str(r1.seq), str(r2.seq))
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_AlignIO_convert.py b/Tests/test_AlignIO_convert.py
index 2e10bb1..b85612c 100644
--- a/Tests/test_AlignIO_convert.py
+++ b/Tests/test_AlignIO_convert.py
@@ -45,6 +45,7 @@ class ConvertTests(unittest.TestCase):
def simple_check(self, filename, in_format, out_format, alphabet):
check_convert(filename, in_format, out_format, alphabet)
+
tests = [
('Clustalw/hedgehog.aln', "clustal", None),
('Nexus/test_Nexus_input.nex', "nexus", None),
diff --git a/Tests/test_AlignInfo.py b/Tests/test_AlignInfo.py
index 2934828..9bd0a86 100644
--- a/Tests/test_AlignInfo.py
+++ b/Tests/test_AlignInfo.py
@@ -15,11 +15,17 @@ from Bio.SeqRecord import SeqRecord
from Bio import AlignIO
from Bio.SubsMat.FreqTable import FreqTable, FREQ
from Bio.Align.AlignInfo import SummaryInfo
+import math
class AlignInfoTests(unittest.TestCase):
"""Test basic usage."""
+ def assertAlmostEqualList(self, list1, list2, **kwargs):
+ self.assertEqual(len(list1), len(list2))
+ for (v1, v2) in zip(list1, list2):
+ self.assertAlmostEqual(v1, v2, **kwargs)
+
def test_nucleotides(self):
filename = "GFF/multi.fna"
format = "fasta"
@@ -61,9 +67,9 @@ N 0.0 2.0 1.0 0.0
def test_proteins(self):
alpha = HasStopCodon(Gapped(generic_protein, "-"), "*")
a = MultipleSeqAlignment([
- SeqRecord(Seq("MHQAIFIYQIGYP*LKSGYIQSIRSPEYDNW-", alpha), id="ID001"),
- SeqRecord(Seq("MH--IFIYQIGYAYLKSGYIQSIRSPEY-NW*", alpha), id="ID002"),
- SeqRecord(Seq("MHQAIFIYQIGYPYLKSGYIQSIRSPEYDNW*", alpha), id="ID003")])
+ SeqRecord(Seq("MHQAIFIYQIGYP*LKSGYIQSIRSPEYDNW-", alpha), id="ID001"),
+ SeqRecord(Seq("MH--IFIYQIGYAYLKSGYIQSIRSPEY-NW*", alpha), id="ID002"),
+ SeqRecord(Seq("MHQAIFIYQIGYPYLKSGYIQSIRSPEYDNW*", alpha), id="ID003")])
self.assertEqual(32, a.get_alignment_length())
s = SummaryInfo(a)
@@ -113,6 +119,30 @@ X 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0
ic = s.information_content(chars_to_ignore=['-', '*'])
self.assertAlmostEqual(ic, 133.061475107, places=6)
+ def test_pseudo_count(self):
+ # use example from
+ # http://biologie.univ-mrs.fr/upload/p202/01.4.PSSM_theory.pdf
+ alpha = unambiguous_dna
+ dna_align = MultipleSeqAlignment([
+ SeqRecord(Seq("AACCACGTTTAA", alpha), id="ID001"),
+ SeqRecord(Seq("CACCACGTGGGT", alpha), id="ID002"),
+ SeqRecord(Seq("CACCACGTTCGC", alpha), id="ID003"),
+ SeqRecord(Seq("GCGCACGTGGGG", alpha), id="ID004"),
+ SeqRecord(Seq("TCGCACGTTGTG", alpha), id="ID005"),
+ SeqRecord(Seq("TGGCACGTGTTT", alpha), id="ID006"),
+ SeqRecord(Seq("TGACACGTGGGA", alpha), id="ID007"),
+ SeqRecord(Seq("TTACACGTGCGC", alpha), id="ID008")])
+
+ summary = SummaryInfo(dna_align)
+ expected = FreqTable({"A": 0.325, "G": 0.175, "T": 0.325, "C": 0.175},
+ FREQ, unambiguous_dna)
+ ic = summary.information_content(e_freq_table=expected,
+ log_base=math.exp(1),
+ pseudo_count=1)
+ self.assertAlmostEqualList(summary.ic_vector, [0.110, 0.090, 0.360, 1.290, 0.800,
+ 1.290, 1.290, 0.80, 0.610, 0.390, 0.470, 0.040], places=2)
+ self.assertAlmostEqual(ic, 7.546, places=3)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_BWA_tool.py b/Tests/test_BWA_tool.py
index 01a0f8c..7578905 100644
--- a/Tests/test_BWA_tool.py
+++ b/Tests/test_BWA_tool.py
@@ -128,7 +128,7 @@ class BwaTestCase(unittest.TestCase):
if not skip_aln_tests:
def test_samse(self):
- """Test for single end sequencing """
+ """Test for single end sequencing."""
self.create_fasta_index()
self.do_aln(self.infile1, self.saifile1)
cmdline = BwaSamseCommandline(bwa_exe)
@@ -144,7 +144,7 @@ class BwaTestCase(unittest.TestCase):
% (cmdline, headline))
def test_sampe(self):
- """Test for generating samfile by paired end sequencing"""
+ """Test for generating samfile by paired end sequencing."""
self.create_fasta_index()
# Generate sai files from paired end data
diff --git a/Tests/test_BioSQL_MySQLdb.py b/Tests/test_BioSQL_MySQLdb.py
index f6abf4f..6c175a1 100644
--- a/Tests/test_BioSQL_MySQLdb.py
+++ b/Tests/test_BioSQL_MySQLdb.py
@@ -4,10 +4,10 @@
# as part of this package.
"""Run BioSQL tests using SQLite"""
-from Bio import MissingExternalDependencyError
-from BioSQL import BioSeqDatabase
-from common_BioSQL import *
+import unittest
+
+from common_BioSQL import * # noqa
DBDRIVER = 'MySQLdb'
DBTYPE = 'mysql'
diff --git a/Tests/test_BioSQL_MySQLdb_online.py b/Tests/test_BioSQL_MySQLdb_online.py
index fde9886..6df1743 100644
--- a/Tests/test_BioSQL_MySQLdb_online.py
+++ b/Tests/test_BioSQL_MySQLdb_online.py
@@ -5,8 +5,10 @@
"""Run BioSQL tests using SQLite"""
-from common_BioSQL import load_biosql_ini
-from common_BioSQL_online import *
+import unittest
+
+from common_BioSQL import * # noqa
+from common_BioSQL_online import * # noqa
import requires_internet
requires_internet.check()
diff --git a/Tests/test_BioSQL_mysql_connector.py b/Tests/test_BioSQL_mysql_connector.py
index 0b3bda8..34b2828 100644
--- a/Tests/test_BioSQL_mysql_connector.py
+++ b/Tests/test_BioSQL_mysql_connector.py
@@ -4,10 +4,10 @@
# as part of this package.
"""Run BioSQL tests using SQLite"""
-from Bio import MissingExternalDependencyError
-from BioSQL import BioSeqDatabase
-from common_BioSQL import *
+import unittest
+
+from common_BioSQL import * # noqa
DBDRIVER = 'mysql.connector'
DBTYPE = 'mysql'
diff --git a/Tests/test_BioSQL_mysql_connector_online.py b/Tests/test_BioSQL_mysql_connector_online.py
index 5b71624..1f4482e 100644
--- a/Tests/test_BioSQL_mysql_connector_online.py
+++ b/Tests/test_BioSQL_mysql_connector_online.py
@@ -5,8 +5,10 @@
"""Run BioSQL tests using SQLite"""
-from common_BioSQL import load_biosql_ini
-from common_BioSQL_online import *
+import unittest
+
+from common_BioSQL import * # noqa
+from common_BioSQL_online import * # noqa
import requires_internet
requires_internet.check()
diff --git a/Tests/test_BioSQL_psycopg2.py b/Tests/test_BioSQL_psycopg2.py
index 76472a3..3ab3ae7 100644
--- a/Tests/test_BioSQL_psycopg2.py
+++ b/Tests/test_BioSQL_psycopg2.py
@@ -4,10 +4,10 @@
# as part of this package.
"""Run BioSQL tests using PostgreSQL"""
-from Bio import MissingExternalDependencyError
-from BioSQL import BioSeqDatabase
-from common_BioSQL import *
+import unittest
+
+from common_BioSQL import * # noqa
DBDRIVER = 'psycopg2'
DBTYPE = 'pg'
diff --git a/Tests/test_BioSQL_psycopg2_online.py b/Tests/test_BioSQL_psycopg2_online.py
index 0fe3859..702d019 100644
--- a/Tests/test_BioSQL_psycopg2_online.py
+++ b/Tests/test_BioSQL_psycopg2_online.py
@@ -5,8 +5,10 @@
"""Run BioSQL tests using PostgreSQL"""
-from common_BioSQL import load_biosql_ini
-from common_BioSQL_online import *
+import unittest
+
+from common_BioSQL import * # noqa
+from common_BioSQL_online import * # noqa
import requires_internet
requires_internet.check()
diff --git a/Tests/test_BioSQL_sqlite3.py b/Tests/test_BioSQL_sqlite3.py
index 678e066..3b7d12f 100644
--- a/Tests/test_BioSQL_sqlite3.py
+++ b/Tests/test_BioSQL_sqlite3.py
@@ -5,12 +5,12 @@
"""Run BioSQL tests using SQLite"""
import os
+import unittest
-from Bio import MissingExternalDependencyError
from Bio import SeqIO
from BioSQL import BioSeqDatabase
-from common_BioSQL import *
+from common_BioSQL import * # noqa
# Constants for the database driver
DBDRIVER = 'sqlite3'
@@ -63,9 +63,14 @@ class BackwardsCompatibilityTest(unittest.TestCase):
biosql_records = [db.lookup(name=rec.name)
for rec in original_records]
# And check they agree
+ # Note the old parser used to create BioSQL/cor6_6.db
+ # did not record the molecule_type, so remove it here:
+ for r in original_records:
+ del r.annotations["molecule_type"]
self.assertTrue(compare_records(original_records, biosql_records))
server.close()
+
if __name__ == "__main__":
# Run the test cases
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_BioSQL_sqlite3_online.py b/Tests/test_BioSQL_sqlite3_online.py
index d173f27..95b9405 100644
--- a/Tests/test_BioSQL_sqlite3_online.py
+++ b/Tests/test_BioSQL_sqlite3_online.py
@@ -4,9 +4,10 @@
# as part of this package.
"""Run BioSQL tests using SQLite"""
+import unittest
-from common_BioSQL import temp_db_filename
-from common_BioSQL_online import *
+from common_BioSQL import * # noqa
+from common_BioSQL_online import * # noqa
import requires_internet
requires_internet.check()
diff --git a/Tests/test_CelFile.py b/Tests/test_CelFile.py
index 8b45507..a74b0fc 100644
--- a/Tests/test_CelFile.py
+++ b/Tests/test_CelFile.py
@@ -17,9 +17,8 @@ from Bio.Affy import CelFile
class testCelFile(unittest.TestCase):
- """
- Test reading of CEL file
- """
+ """Test reading of CEL file."""
+
def test_read(self):
version = 3
GridCornerUL = (206, 129)
@@ -89,6 +88,7 @@ class testCelFile(unittest.TestCase):
self.assertEqual(nmodified, cel.nmodified)
assert_array_equal(modified, cel.modified)
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Chi2.py b/Tests/test_Chi2.py
index ef3a28f..b06c7ab 100644
--- a/Tests/test_Chi2.py
+++ b/Tests/test_Chi2.py
@@ -26,6 +26,7 @@ class ModTest(unittest.TestCase):
self.assertAlmostEqual(chi2._incomplete_gamma(0.5, 0.5), 0.6826895,
places=5)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_ClustalOmega_tool.py b/Tests/test_ClustalOmega_tool.py
index eb95c5a..f9a3359 100755
--- a/Tests/test_ClustalOmega_tool.py
+++ b/Tests/test_ClustalOmega_tool.py
@@ -109,7 +109,7 @@ class ClustalOmegaTestErrorConditions(ClustalOmegaTestCase):
try:
stdout, stderr = cline()
except ApplicationError as err:
- self.assertTrue("contains 1 sequence, nothing to align" in str(err))
+ self.assertIn("contains 1 sequence, nothing to align", str(err))
else:
self.fail("Should have failed, returned:\n%s\n%s" % (stdout, stderr))
@@ -123,7 +123,7 @@ class ClustalOmegaTestErrorConditions(ClustalOmegaTestCase):
except ApplicationError as err:
# Ideally we'd catch the return code and raise the specific
# error for "invalid format".
- self.assertTrue("Can't determine format of sequence file" in str(err))
+ self.assertIn("Can't determine format of sequence file", str(err))
else:
self.fail("Should have failed, returned:\n%s\n%s" % (stdout, stderr))
diff --git a/Tests/test_Clustalw_tool.py b/Tests/test_Clustalw_tool.py
index 18bbae6..37ed872 100644
--- a/Tests/test_Clustalw_tool.py
+++ b/Tests/test_Clustalw_tool.py
@@ -161,7 +161,7 @@ class ClustalWTestErrorConditions(ClustalWTestCase):
try:
stdout, stderr = cline()
# Zero return code is a possible bug in clustalw 2.1?
- self.assertTrue("cannot do multiple alignment" in (stdout + stderr))
+ self.assertIn("cannot do multiple alignment", (stdout + stderr))
except ApplicationError as err:
# Good, non-zero return code indicating an error in clustalw
# e.g. Using clustalw 1.83 get:
diff --git a/Tests/test_Cluster.py b/Tests/test_Cluster.py
index 57d94e3..918a89d 100644
--- a/Tests/test_Cluster.py
+++ b/Tests/test_Cluster.py
@@ -109,13 +109,13 @@ class TestCluster(unittest.TestCase):
except Exception: # TODO - Which exceptions?
self.fail("treecluster failed to accept matrix data2")
- self.assertRaises(TypeError, lambda: treecluster(data3))
- self.assertRaises(TypeError, lambda: treecluster(data4))
- self.assertRaises(TypeError, lambda: treecluster(data5))
- self.assertRaises(TypeError, lambda: treecluster(data6))
- self.assertRaises(TypeError, lambda: treecluster(data7))
- self.assertRaises(TypeError, lambda: treecluster(data8))
- self.assertRaises(TypeError, lambda: treecluster(data9))
+ self.assertRaises(TypeError, treecluster, data3)
+ self.assertRaises(TypeError, treecluster, data4)
+ self.assertRaises(TypeError, treecluster, data5)
+ self.assertRaises(TypeError, treecluster, data6)
+ self.assertRaises(TypeError, treecluster, data7)
+ self.assertRaises(TypeError, treecluster, data8)
+ self.assertRaises(TypeError, treecluster, data9)
def test_kcluster(self):
if TestCluster.module == 'Bio.Cluster':
@@ -852,6 +852,7 @@ class TestCluster(unittest.TestCase):
self.assertAlmostEqual(eigenvalues[2], 1.8775592718563467)
self.assertAlmostEqual(eigenvalues[3], 0.0)
+
if __name__ == "__main__":
TestCluster.module = 'Bio.Cluster'
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_ColorSpiral.py b/Tests/test_ColorSpiral.py
index 0b67922..566f9d4 100644
--- a/Tests/test_ColorSpiral.py
+++ b/Tests/test_ColorSpiral.py
@@ -4,8 +4,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-""" Tests for general functionality of the ColorSpiral utility
-"""
+"""Tests for general functionality of the ColorSpiral utility."""
# Builtins
import colorsys
@@ -108,6 +107,7 @@ class DictTest(unittest.TestCase):
'D: (0.50, 0.00, 0.00)']
self.assertEqual(cstr, expected)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Compass.py b/Tests/test_Compass.py
index 364980a..cb55914 100644
--- a/Tests/test_Compass.py
+++ b/Tests/test_Compass.py
@@ -105,6 +105,7 @@ class CompassTest(unittest.TestCase):
self.assertEqual("LKERKL", com_record.hit_aln[-6:])
handle.close()
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Consensus.py b/Tests/test_Consensus.py
index f531ea8..c79776b 100644
--- a/Tests/test_Consensus.py
+++ b/Tests/test_Consensus.py
@@ -4,7 +4,11 @@
# as part of this package.
"""Unit tests for the Bio.Phylo.Consensus module."""
+
+import os
import unittest
+import tempfile
+
# from Bio._py3k import StringIO
from Bio import AlignIO
from Bio import Phylo
@@ -15,6 +19,9 @@ from Bio.Phylo import Consensus
from Bio.Phylo.Consensus import _BitString
+temp_dir = tempfile.mkdtemp()
+
+
class BitStringTest(unittest.TestCase):
"""Test for _BitString class"""
def test_bitstring(self):
@@ -140,7 +147,7 @@ class BootstrapTest(unittest.TestCase):
constructor = DistanceTreeConstructor(calculator, 'nj')
tree = Consensus.bootstrap_consensus(self.msa, 100, constructor, Consensus.majority_consensus)
self.assertTrue(isinstance(tree, BaseTree.Tree))
- Phylo.write(tree, './TreeConstruction/bootstrap_consensus.tre', 'newick')
+ Phylo.write(tree, os.path.join(temp_dir, 'bootstrap_consensus.tre'), 'newick')
if __name__ == '__main__':
diff --git a/Tests/test_Crystal.py b/Tests/test_Crystal.py
index 2bddc75..2a1c7ab 100644
--- a/Tests/test_Crystal.py
+++ b/Tests/test_Crystal.py
@@ -391,8 +391,8 @@ class ChainTestCase(unittest.TestCase):
def testContains(self):
chain = Chain(self.c[:])
self.assertFalse('ser' in chain)
- self.assertTrue('lys' in chain)
- self.assertTrue('asp' in chain)
+ self.assertIn('lys', chain)
+ self.assertIn('asp', chain)
def testAdd(self):
texta = 'G U G G U C U G A U G A G G C C'
@@ -443,8 +443,8 @@ class CrystalTestCase(unittest.TestCase):
target = copy.deepcopy(self.crystal)
del target['b']
self.assertFalse('b' in target.data)
- self.assertTrue('a' in target.data)
- self.assertTrue('c' in target.data)
+ self.assertIn('a', target.data)
+ self.assertIn('c', target.data)
def testClear(self):
target = copy.deepcopy(self.crystal)
@@ -464,8 +464,8 @@ class CrystalTestCase(unittest.TestCase):
list(self.crystal.data.items()))
def testHasKey(self):
- self.assertTrue('b' in self.crystal)
- self.assertTrue('c' in self.crystal)
+ self.assertIn('b', self.crystal)
+ self.assertIn('c', self.crystal)
self.assertFalse('z' in self.crystal)
diff --git a/Tests/test_DSSP_tool.py b/Tests/test_DSSP_tool.py
index 3b8a4c9..a7ab711 100644
--- a/Tests/test_DSSP_tool.py
+++ b/Tests/test_DSSP_tool.py
@@ -9,32 +9,43 @@
See also test_PDB.py for dependency free DSSP tests.
"""
+from distutils.version import StrictVersion
+import re
import subprocess
import unittest
from Bio import MissingExternalDependencyError
-from Bio.PDB import PDBParser
+from Bio.PDB import PDBParser, MMCIFParser
from Bio.PDB import DSSP
+# DSSP version, if known, as DSSP <2.2.0 does not support mmcif files
+dssp_version = '0.0.0'
# Check if DSSP is installed
quiet_kwargs = dict(stdout=subprocess.PIPE, stderr=subprocess.STDOUT)
try:
try:
# Newer versions of DSSP
- subprocess.check_call(["dssp", "--version"], **quiet_kwargs)
+ version_string = subprocess.check_output(["dssp", "--version"],
+ universal_newlines=True)
+ dssp_version = re.search(r'\s*([\d.]+)', version_string).group(1)
except subprocess.CalledProcessError:
# Older versions of DSSP
subprocess.check_call(["dssp", "-h"], **quiet_kwargs)
except OSError:
- raise MissingExternalDependencyError(
- "Install dssp if you want to use it from Biopython.")
+ try:
+ version_string = subprocess.check_output(["mkdssp", "--version"],
+ universal_newlines=True)
+ dssp_version = re.search(r'\s*([\d.]+)', version_string).group(1)
+ except OSError:
+ raise MissingExternalDependencyError(
+ "Install dssp if you want to use it from Biopython.")
class DSSP_test(unittest.TestCase):
"""Test DSSP module"""
- def test_DSSP(self):
+ def test_dssp(self):
"""Test DSSP generation from PDB"""
p = PDBParser()
pdbfile = "PDB/2BEG.pdb"
@@ -42,6 +53,24 @@ class DSSP_test(unittest.TestCase):
dssp = DSSP(model, pdbfile)
self.assertEqual(len(dssp), 130)
+ # Only run mmCIF tests if DSSP version installed supports mmcif
+ if StrictVersion(dssp_version) >= StrictVersion('2.2.0'):
+ def test_dssp_with_mmcif_file(self):
+ """Test DSSP generation from MMCIF"""
+ p = MMCIFParser()
+ pdbfile = "PDB/2BEG.cif"
+ model = p.get_structure("2BEG", pdbfile)[0]
+ dssp = DSSP(model, pdbfile)
+ self.assertEqual(len(dssp), 130)
+
+ def test_dssp_with_mmcif_file_and_nonstandard_residues(self):
+ """Test DSSP generation from MMCIF with non-standard residues"""
+ p = MMCIFParser()
+ pdbfile = "PDB/1AS5.cif"
+ model = p.get_structure("1AS5", pdbfile)[0]
+ dssp = DSSP(model, pdbfile)
+ self.assertEqual(len(dssp), 24)
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_DocSQL.py b/Tests/test_DocSQL.py
index c7a065d..2ac41f8 100644
--- a/Tests/test_DocSQL.py
+++ b/Tests/test_DocSQL.py
@@ -4,7 +4,11 @@
from __future__ import print_function
-import Bio.DocSQL
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ import Bio.DocSQL
print("Skipping Bio.DocSQL doctests.")
# print("Running Bio.DocSQL doctests...")
diff --git a/Tests/test_Emboss.py b/Tests/test_Emboss.py
index 3c6a7c7..ed32599 100644
--- a/Tests/test_Emboss.py
+++ b/Tests/test_Emboss.py
@@ -893,7 +893,8 @@ class TranslationTests(unittest.TestCase):
def check(self, sequence):
"""Compare our translation to EMBOSS's using all tables.
- Takes a Seq object (and a filename containing it)."""
+ Takes a Seq object (and a filename containing it).
+ """
translation = emboss_translate(sequence)
self.assertTrue(check_translation(sequence, translation))
@@ -936,6 +937,7 @@ def clean_up():
except Exception: # TODO - Which exceptions?
pass
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_EmbossPhylipNew.py b/Tests/test_EmbossPhylipNew.py
index b4e5b2c..86e4de0 100644
--- a/Tests/test_EmbossPhylipNew.py
+++ b/Tests/test_EmbossPhylipNew.py
@@ -290,6 +290,7 @@ class TreeComparisonTests(unittest.TestCase):
stdout, stderr = cline()
self.assertTrue(os.path.isfile("test_file"))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_EmbossPrimer.py b/Tests/test_EmbossPrimer.py
index efea5fa..1688dbb 100644
--- a/Tests/test_EmbossPrimer.py
+++ b/Tests/test_EmbossPrimer.py
@@ -67,8 +67,7 @@ class Primer3ParseTest(unittest.TestCase):
self.assertEqual(primer_info.primers[4].reverse_gc, 40.91)
def test_in_depth_single_parse(self):
- """Make sure we get info right from a single primer find.
- """
+ """Make sure we get info right from a single primer find."""
file = self.test_files[1]
h = open(file, "r")
primer_info = Primer3.read(h)
@@ -85,7 +84,7 @@ class Primer3ParseTest(unittest.TestCase):
self.assertEqual(primer_info.primers[3].forward_start, 253)
def test_internal_oligo_single_parse(self):
- ''' Make sure we can parse an internal oligo file correctly '''
+ """Make sure we can parse an internal oligo file correctly."""
# these files are generated when designing hybridization probes.
file = self.test_files[4]
h = open(file, "r")
@@ -103,7 +102,7 @@ class Primer3ParseTest(unittest.TestCase):
self.assertEqual(primer_info.primers[4].internal_gc, 35.00)
def test_mutli_record_fwd(self):
- """Test parsing multiple primer sets (NirK forward)"""
+ """Test parsing multiple primer sets (NirK forward)."""
h = open(os.path.join("Emboss", "NirK.primer3"))
targets = list(Primer3.parse(h))
h.close()
@@ -210,7 +209,7 @@ class PrimersearchParseTest(unittest.TestCase):
h.close()
self.assertEqual(len(amp_info.amplifiers), 1)
- self.assertTrue("Test" in amp_info.amplifiers)
+ self.assertIn("Test", amp_info.amplifiers)
self.assertEqual(len(amp_info.amplifiers["Test"]), 1)
self.assertEqual(amp_info.amplifiers["Test"][0].length, 218)
@@ -242,6 +241,7 @@ class PrimerSearchInputTest(unittest.TestCase):
"Test GATC CATG\n"
"Test2 AATA TTAT\n")
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Entrez.py b/Tests/test_Entrez.py
index f84d68b..e3ddc67 100644
--- a/Tests/test_Entrez.py
+++ b/Tests/test_Entrez.py
@@ -42,7 +42,7 @@ class TestURLConstruction(unittest.TestCase):
params = Entrez._construct_params(variables)
options = Entrez._encode_options(ecitmatch=True, params=params)
result_url = Entrez._construct_cgi(cgi, post=post, options=options)
- self.assertTrue("retmode=xml" in result_url, result_url)
+ self.assertIn("retmode=xml", result_url)
def test_construct_cgi_einfo(self):
"""Test constructed url for request to Entrez."""
@@ -52,8 +52,8 @@ class TestURLConstruction(unittest.TestCase):
result_url = Entrez._construct_cgi(cgi, post=False, options=options)
self.assertTrue(result_url.startswith(URL_HEAD + "einfo.fcgi?"),
result_url)
- self.assertTrue(URL_TOOL in result_url)
- self.assertTrue(URL_EMAIL in result_url)
+ self.assertIn(URL_TOOL, result_url)
+ self.assertIn(URL_EMAIL, result_url)
def test_construct_cgi_epost1(self):
cgi = 'http://eutils.ncbi.nlm.nih.gov/entrez/eutils/epost.fcgi'
@@ -87,9 +87,9 @@ class TestURLConstruction(unittest.TestCase):
result_url = Entrez._construct_cgi(cgi, post=post, options=options)
self.assertTrue(result_url.startswith(URL_HEAD + "elink.fcgi?"),
result_url)
- self.assertTrue(URL_TOOL in result_url)
- self.assertTrue(URL_EMAIL in result_url)
- self.assertTrue("id=22347800%2C48526535" in result_url, result_url)
+ self.assertIn(URL_TOOL, result_url)
+ self.assertIn(URL_EMAIL, result_url)
+ self.assertIn("id=22347800%2C48526535", result_url)
def test_construct_cgi_elink2(self):
"""Commas: Link from protein to gene."""
@@ -103,8 +103,8 @@ class TestURLConstruction(unittest.TestCase):
result_url = Entrez._construct_cgi(cgi, post=post, options=options)
self.assertTrue(result_url.startswith(URL_HEAD + "elink.fcgi"),
result_url)
- self.assertTrue(URL_TOOL in result_url)
- self.assertTrue(URL_EMAIL in result_url)
+ self.assertIn(URL_TOOL, result_url)
+ self.assertIn(URL_EMAIL, result_url)
self.assertTrue("id=15718680%2C157427902%2C119703751" in result_url,
result_url)
@@ -120,11 +120,11 @@ class TestURLConstruction(unittest.TestCase):
result_url = Entrez._construct_cgi(cgi, post=post, options=options)
self.assertTrue(result_url.startswith(URL_HEAD + "elink.fcgi"),
result_url)
- self.assertTrue(URL_TOOL in result_url)
- self.assertTrue(URL_EMAIL in result_url)
- self.assertTrue("id=15718680" in result_url, result_url)
- self.assertTrue("id=157427902" in result_url, result_url)
- self.assertTrue("id=119703751" in result_url, result_url)
+ self.assertIn(URL_TOOL, result_url)
+ self.assertIn(URL_EMAIL, result_url)
+ self.assertIn("id=15718680", result_url)
+ self.assertIn("id=157427902", result_url)
+ self.assertIn("id=119703751", result_url)
def test_construct_cgi_efetch(self):
cgi = 'http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi'
@@ -137,8 +137,8 @@ class TestURLConstruction(unittest.TestCase):
result_url = Entrez._construct_cgi(cgi, post=post, options=options)
self.assertTrue(result_url.startswith(URL_HEAD + "efetch.fcgi?"),
result_url)
- self.assertTrue(URL_TOOL in result_url)
- self.assertTrue(URL_EMAIL in result_url)
+ self.assertIn(URL_TOOL, result_url)
+ self.assertIn(URL_EMAIL, result_url)
self.assertTrue("id=15718680%2C157427902%2C119703751" in result_url,
result_url)
diff --git a/Tests/test_Entrez_online.py b/Tests/test_Entrez_online.py
index 49830e1..6932579 100644
--- a/Tests/test_Entrez_online.py
+++ b/Tests/test_Entrez_online.py
@@ -11,7 +11,9 @@ results are parseable. Detailed tests on each Entrez service are not within the
scope of this file as they are already covered in test_Entrez.py.
"""
+import doctest
import os
+import sys
import unittest
import requires_internet
@@ -46,12 +48,12 @@ class EntrezOnlineCase(unittest.TestCase):
"""Test Entrez.read from URL"""
handle = Entrez.einfo()
self.assertTrue(handle.url.startswith(URL_HEAD + "einfo.fcgi?"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
rec = Entrez.read(handle)
handle.close()
self.assertTrue(isinstance(rec, dict))
- self.assertTrue('DbList' in rec)
+ self.assertIn('DbList', rec)
# arbitrary number, just to make sure that DbList has contents
self.assertTrue(len(rec['DbList']) > 5)
@@ -60,9 +62,9 @@ class EntrezOnlineCase(unittest.TestCase):
handle = Entrez.efetch(db='protein', id='15718680,157427902,119703751',
retmode='xml')
self.assertTrue(handle.url.startswith(URL_HEAD + "efetch.fcgi?"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
- self.assertTrue("id=15718680%2C157427902%2C119703751" in handle.url, handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
+ self.assertIn("id=15718680%2C157427902%2C119703751", handle.url)
recs = list(Entrez.parse(handle))
handle.close()
self.assertEqual(3, len(recs))
@@ -75,9 +77,9 @@ class EntrezOnlineCase(unittest.TestCase):
id='22347800,48526535', webenv=None, query_key=None,
cmd='neighbor_history')
self.assertTrue(handle.url.startswith(URL_HEAD + "elink.fcgi?"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
- self.assertTrue("id=22347800%2C48526535" in handle.url, handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
+ self.assertIn("id=22347800%2C48526535", handle.url)
recs = Entrez.read(handle)
handle.close()
record = recs.pop()
@@ -89,8 +91,8 @@ class EntrezOnlineCase(unittest.TestCase):
webenv=webenv, query_key=query_key,
usehistory='y')
self.assertTrue(handle.url.startswith(URL_HEAD + "esearch.fcgi?"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
search_record = Entrez.read(handle)
handle.close()
self.assertEqual(2, len(search_record['IdList']))
@@ -100,9 +102,9 @@ class EntrezOnlineCase(unittest.TestCase):
handle = Entrez.efetch(db='nucleotide', id='186972394', rettype='gb',
retmode='text')
self.assertTrue(handle.url.startswith(URL_HEAD + "efetch.fcgi?"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
- self.assertTrue("id=186972394" in handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
+ self.assertIn("id=186972394", handle.url)
record = SeqIO.read(handle, 'genbank')
handle.close()
self.assertTrue(isinstance(record, SeqRecord))
@@ -114,9 +116,9 @@ class EntrezOnlineCase(unittest.TestCase):
handle = Entrez.efetch(db="pubmed", id='19304878', rettype="medline",
retmode="text")
self.assertTrue(handle.url.startswith(URL_HEAD + "efetch.fcgi?"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
- self.assertTrue("id=19304878" in handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
+ self.assertIn("id=19304878", handle.url)
record = Medline.read(handle)
handle.close()
self.assertTrue(isinstance(record, dict))
@@ -136,7 +138,7 @@ class EntrezOnlineCase(unittest.TestCase):
handle = Entrez.efetch(db="taxonomy", id=3702, retmode="XML")
taxon_record = Entrez.read(handle)
self.assertTrue(1, len(taxon_record))
- self.assertTrue('TaxId' in taxon_record[0])
+ self.assertIn('TaxId', taxon_record[0])
self.assertTrue('3702', taxon_record[0]['TaxId'])
def test_elink(self):
@@ -144,20 +146,20 @@ class EntrezOnlineCase(unittest.TestCase):
handle = Entrez.elink(db="gene", dbfrom="protein",
id="15718680,157427902,119703751")
self.assertTrue(handle.url.startswith(URL_HEAD + "elink.fcgi"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
- self.assertTrue("id=15718680%2C157427902%2C119703751" in handle.url, handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
+ self.assertIn("id=15718680%2C157427902%2C119703751", handle.url)
handle.close()
# Multiple ID entries: Find one-to-one links from protein to gene
handle = Entrez.elink(db="gene", dbfrom="protein",
id=["15718680", "157427902", "119703751"])
self.assertTrue(handle.url.startswith(URL_HEAD + "elink.fcgi"), handle.url)
- self.assertTrue(URL_TOOL in handle.url)
- self.assertTrue(URL_EMAIL in handle.url)
- self.assertTrue("id=15718680" in handle.url, handle.url)
- self.assertTrue("id=157427902" in handle.url, handle.url)
- self.assertTrue("id=119703751" in handle.url, handle.url)
+ self.assertIn(URL_TOOL, handle.url)
+ self.assertIn(URL_EMAIL, handle.url)
+ self.assertIn("id=15718680", handle.url)
+ self.assertIn("id=157427902", handle.url)
+ self.assertIn("id=119703751", handle.url)
handle.close()
def test_epost(self):
@@ -195,21 +197,28 @@ class EntrezOnlineCase(unittest.TestCase):
"author_name": "mann bj", "key": "citation_1"
}
handle = Entrez.ecitmatch(db="pubmed", bdata=[citation])
- self.assertTrue("retmode=xml" in handle.url, handle.url)
+ self.assertIn("retmode=xml", handle.url)
result = handle.read()
expected_result = "proc natl acad sci u s a|1991|88|3248|mann bj|citation_1|2014248\n"
self.assertEquals(result, expected_result)
- def test_fetch_xml_schemas(self):
- handle = Entrez.efetch("protein", id="783730874", rettype="ipg", retmode="xml")
- records = list(Entrez.parse(handle))
- handle.close()
- self.assertEqual(len(records), 1)
- self.assertTrue("Product" in records[0])
- self.assertTrue("Statistics" in records[0])
- self.assertTrue("RedundantGiList" in records[0])
+# NCBI XML does not currently match the XSD file
+# def test_fetch_xml_schemas(self):
+# handle = Entrez.efetch("protein", id="783730874", rettype="ipg", retmode="xml")
+# records = list(Entrez.parse(handle, validate=False))
+# handle.close()
+# self.assertEqual(len(records), 1)
+# self.assertIn("Product", records[0])
+# self.assertIn("Statistics", records[0])
+# self.assertIn("RedundantGiList", records[0])
if __name__ == "__main__":
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
+ # When running test_Entrez.py directly, will also include the
+ # Bio.Entrez doctests.
+ # TODO: Include the doctests via run_tests.py when online.
+ unittest_suite = unittest.TestLoader().loadTestsFromName("test_Entrez_online")
+ doctest_suite = doctest.DocTestSuite(Entrez)
+ suite = unittest.TestSuite((unittest_suite, doctest_suite))
+ runner = unittest.TextTestRunner(sys.stdout, verbosity=2)
+ runner.run(suite)
diff --git a/Tests/test_Entrez_parser.py b/Tests/test_Entrez_parser.py
index 5a1788f..da20e16 100644
--- a/Tests/test_Entrez_parser.py
+++ b/Tests/test_Entrez_parser.py
@@ -35,13 +35,13 @@ class GeneralTests(unittest.TestCase):
"""Test parsing a handle opened in binary mode."""
with open("Entrez/einfo1.xml", "rb") as handle:
record = Entrez.read(handle)
- self.assertTrue("DbList" in record)
+ self.assertIn("DbList", record)
def test_text_handle(self):
"""Test parsing a handle opened in text mode."""
with open("Entrez/einfo1.xml", "rt") as handle:
record = Entrez.read(handle)
- self.assertTrue("DbList" in record)
+ self.assertIn("DbList", record)
def test_BytesIO(self):
"""Test parsing a BytesIO handle (bytes not unicode)."""
@@ -49,7 +49,7 @@ class GeneralTests(unittest.TestCase):
data = in_handle.read()
handle = BytesIO(data)
record = Entrez.read(handle)
- self.assertTrue("DbList" in record)
+ self.assertIn("DbList", record)
handle.close()
def test_StringIO(self):
@@ -58,7 +58,7 @@ class GeneralTests(unittest.TestCase):
data = in_handle.read()
handle = StringIO(data)
record = Entrez.read(handle)
- self.assertTrue("DbList" in record)
+ self.assertIn("DbList", record)
handle.close()
@@ -1215,15 +1215,15 @@ class ESearchTest(unittest.TestCase):
self.assertEqual(len(record['TranslationSet']), 0)
self.assertEqual(record['QueryTranslation'], '')
self.assertEqual(len(record['ErrorList']), 2)
- self.assertTrue("PhraseNotFound" in record['ErrorList'])
- self.assertTrue("FieldNotFound" in record['ErrorList'])
+ self.assertIn("PhraseNotFound", record['ErrorList'])
+ self.assertIn("FieldNotFound", record['ErrorList'])
self.assertEqual(len(record['ErrorList']["PhraseNotFound"]), 1)
self.assertEqual(len(record['ErrorList']["FieldNotFound"]), 0)
self.assertEqual(record['ErrorList']["PhraseNotFound"][0], "abcXYZ")
self.assertEqual(len(record['WarningList']), 3)
- self.assertTrue("PhraseIgnored" in record['WarningList'])
- self.assertTrue("QuotedPhraseNotFound" in record['WarningList'])
- self.assertTrue("OutputMessage" in record['WarningList'])
+ self.assertIn("PhraseIgnored", record['WarningList'])
+ self.assertIn("QuotedPhraseNotFound", record['WarningList'])
+ self.assertIn("OutputMessage", record['WarningList'])
self.assertEqual(len(record['WarningList']["PhraseIgnored"]), 0)
self.assertEqual(len(record['WarningList']["QuotedPhraseNotFound"]), 0)
self.assertEqual(len(record['WarningList']["OutputMessage"]), 1)
@@ -4128,6 +4128,7 @@ class EFetchTest(unittest.TestCase):
records = Entrez.parse(handle)
self.assertRaises(CorruptedXMLError, next, records)
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Enzyme.py b/Tests/test_Enzyme.py
index 36f4eb6..2506ffb 100644
--- a/Tests/test_Enzyme.py
+++ b/Tests/test_Enzyme.py
@@ -8,10 +8,38 @@ import os
import unittest
from Bio.ExPASy import Enzyme
+from Bio._py3k import StringIO
class TestEnzyme(unittest.TestCase):
+ def test_parse_zero(self):
+ handle = StringIO("")
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 0)
+
+ def test_parse_one(self):
+ """Check parse function with one record."""
+ with open("Enzymes/lipoprotein.txt") as handle:
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 1)
+ self.assertEqual(records[0]["ID"], "3.1.1.34")
+
+ def test_parse_many(self):
+ """Check parse function with multiple records."""
+ data = ""
+ for filename in ["Enzymes/lipoprotein.txt",
+ "Enzymes/proline.txt",
+ "Enzymes/valine.txt"]:
+ with open(filename) as handle:
+ data += handle.read()
+ handle = StringIO(data)
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 3)
+ self.assertEqual(records[0]["ID"], "3.1.1.34")
+ self.assertEqual(records[1]["ID"], "5.1.1.4")
+ self.assertEqual(records[2]["ID"], "4.1.1.14")
+
def test_lipoprotein(self):
"""Parsing ENZYME record for lipoprotein lipase (3.1.1.34)"""
filename = os.path.join('Enzymes', 'lipoprotein.txt')
@@ -88,6 +116,7 @@ class TestEnzyme(unittest.TestCase):
self.assertEqual(record["CA"], "(S)-lactate = (R)-lactate.")
self.assertEqual(len(record["DR"]), 0)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_ExPASy.py b/Tests/test_ExPASy.py
new file mode 100644
index 0000000..ba66e26
--- /dev/null
+++ b/Tests/test_ExPASy.py
@@ -0,0 +1,58 @@
+# Copyright 2017 by Peter Cock. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+
+"""Testing Bio.ExPASy online code."""
+
+import unittest
+
+import requires_internet
+requires_internet.check()
+
+# We want to test these:
+from Bio import ExPASy
+
+# In order to check any records returned
+from Bio.ExPASy import Prodoc
+from Bio.ExPASy import Prosite
+
+
+# TODO - Use with statement when drop Python 2
+
+class ExPASyOnlineTests(unittest.TestCase):
+ """Test ExPASy online resources."""
+
+ def test_prosite_raw(self):
+ handle = ExPASy.get_prosite_raw('PS00001')
+ record = Prosite.read(handle)
+ handle.close()
+ self.assertEqual(record.accession, 'PS00001')
+ self.assertEqual(record.name, 'ASN_GLYCOSYLATION')
+
+ def test_prodoc_raw(self):
+ handle = ExPASy.get_prosite_raw('PDOC00001')
+ record = Prodoc.read(handle)
+ handle.close()
+ self.assertEqual(record.accession, 'PDOC00001')
+
+ def test_prosite_html(self):
+ handle = ExPASy.get_prosite_entry('PS00001')
+ html = handle.read()
+ self.assertEqual(handle.url,
+ 'http://prosite.expasy.org/cgi-bin/prosite/get-prosite-entry?PS00001')
+ handle.close()
+ self.assertTrue('<title>PROSITE: PS00001</title>' in html)
+
+ def test_prodoc_html(self):
+ handle = ExPASy.get_prodoc_entry('PDOC00001')
+ html = handle.read()
+ self.assertEqual(handle.url,
+ 'http://prosite.expasy.org/cgi-bin/prosite/get-prodoc-entry?PDOC00001')
+ handle.close()
+ self.assertTrue('{PS00001; ASN_GLYCOSYLATION}' in html)
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_GACrossover.py b/Tests/test_GACrossover.py
index 7e0be7b..1817156 100644
--- a/Tests/test_GACrossover.py
+++ b/Tests/test_GACrossover.py
@@ -9,13 +9,17 @@ from Bio.Seq import MutableSeq
from Bio.Alphabet import SingleLetterAlphabet
# local stuff
-from Bio.GA.Organism import Organism
-from Bio.GA.Crossover.General import SafeFitnessCrossover
-from Bio.GA.Crossover.GeneralPoint import GeneralPointCrossover
-from Bio.GA.Crossover.GeneralPoint import InterleaveCrossover
-from Bio.GA.Crossover.TwoPoint import TwoPointCrossover
-from Bio.GA.Crossover.Point import SinglePointCrossover
-from Bio.GA.Crossover.Uniform import UniformCrossover
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ from Bio.GA.Organism import Organism
+ from Bio.GA.Crossover.General import SafeFitnessCrossover
+ from Bio.GA.Crossover.GeneralPoint import GeneralPointCrossover
+ from Bio.GA.Crossover.GeneralPoint import InterleaveCrossover
+ from Bio.GA.Crossover.TwoPoint import TwoPointCrossover
+ from Bio.GA.Crossover.Point import SinglePointCrossover
+ from Bio.GA.Crossover.Uniform import UniformCrossover
class TestAlphabet(SingleLetterAlphabet):
@@ -426,6 +430,7 @@ class SafeFitnessTest(unittest.TestCase):
new_org_2.fitness > self.org_2.fitness,
"Did not get new organism under higher fitness conditions.")
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GAMutation.py b/Tests/test_GAMutation.py
index f24505d..4d2a188 100644
--- a/Tests/test_GAMutation.py
+++ b/Tests/test_GAMutation.py
@@ -9,10 +9,14 @@ from Bio.Seq import MutableSeq
from Bio.Alphabet import SingleLetterAlphabet
# local stuff
-from Bio.GA.Organism import Organism
-from Bio.GA.Mutation.General import SafeFitnessMutation
-from Bio.GA.Mutation.Simple import ConversionMutation
-from Bio.GA.Mutation.Simple import SinglePositionMutation
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ from Bio.GA.Organism import Organism
+ from Bio.GA.Mutation.General import SafeFitnessMutation
+ from Bio.GA.Mutation.Simple import ConversionMutation
+ from Bio.GA.Mutation.Simple import SinglePositionMutation
class TestAlphabet(SingleLetterAlphabet):
@@ -195,6 +199,7 @@ class SafeFitnessTest(unittest.TestCase):
assert (new_org.fitness > self.org.fitness), \
"Did not get new organism under higher fitness conditions."
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GAOrganism.py b/Tests/test_GAOrganism.py
index 9ab9d28..cfe42d5 100644
--- a/Tests/test_GAOrganism.py
+++ b/Tests/test_GAOrganism.py
@@ -10,7 +10,11 @@ from Bio.Seq import MutableSeq
# local stuff
-from Bio.GA import Organism
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ from Bio.GA import Organism
# -- utility functions
@@ -49,7 +53,7 @@ class CreatePopulationTest(unittest.TestCase):
num_orgs, fitness_calculator)
assert len(new_pop) == num_orgs, "Expected %s organisms, got %s" \
- % (num_orgs, len(new_pops))
+ % (num_orgs, len(new_pop))
for org in new_pop:
assert isinstance(org, Organism.Organism), \
@@ -68,7 +72,7 @@ class CreatePopulationTest(unittest.TestCase):
num_orgs, fitness_calculator)
assert len(new_pop) == num_orgs, "Expected %s organisms, got %s" \
- % (num_orgs, len(new_pops))
+ % (num_orgs, len(new_pop))
for org in new_pop:
assert isinstance(org, Organism.Organism), \
@@ -169,6 +173,7 @@ class OrganismTest(unittest.TestCase):
# make sure supplying fitness works
new_org = Organism.Organism(genome, fitness_calc, 50)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GAQueens.py b/Tests/test_GAQueens.py
index 93ce493..3847516 100644
--- a/Tests/test_GAQueens.py
+++ b/Tests/test_GAQueens.py
@@ -28,12 +28,16 @@ import unittest
from Bio import Alphabet
# Genetic Algorithm stuff
-from Bio.GA.Evolver import GenerationEvolver
-from Bio.GA import Organism
-from Bio.GA.Mutation.Simple import ConversionMutation
-from Bio.GA.Crossover.Point import SinglePointCrossover
-from Bio.GA.Selection.RouletteWheel import RouletteWheelSelection
-from Bio.GA.Selection.Tournament import TournamentSelection
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ from Bio.GA.Evolver import GenerationEvolver
+ from Bio.GA import Organism
+ from Bio.GA.Mutation.Simple import ConversionMutation
+ from Bio.GA.Crossover.Point import SinglePointCrossover
+ from Bio.GA.Selection.RouletteWheel import RouletteWheelSelection
+ from Bio.GA.Selection.Tournament import TournamentSelection
VERBOSE = 0
@@ -116,7 +120,7 @@ def queens_fitness(genome):
Arguments:
- o genome -- A MutableSeq object specifying an organism genome.
+ - genome - A MutableSeq object specifying an organism genome.
The number returned is the number of unattacked queens on the board.
"""
@@ -151,8 +155,7 @@ def queens_fitness(genome):
class QueensAlphabet(Alphabet.Alphabet):
def __init__(self, num_queens):
- """Initialize with the number of queens we are calculating for.
- """
+ """Initialize with the number of queens we are calculating for."""
# set up the letters for the alphabet
assert 0 < num_queens <= 9
self.letters = "".join(str(i) for i in range(num_queens))
@@ -176,7 +179,8 @@ class QueensRepair(object):
Arguments:
- o repair_prob -- The probability that we'll repair a genome.
+ - repair_prob -- The probability that we'll repair a genome.
+
By default, we always repair.
"""
self._repair_prob = repair_prob
@@ -213,8 +217,9 @@ class QueensRepair(object):
Arguments:
- o organism -- The Organism object we are going to perform the
- repair on.
+ - organism -- The Organism object we are going to perform the
+ repair on.
+
"""
# check if we should repair or not
repair_chance = random.random()
@@ -255,23 +260,20 @@ class QueensCrossover(object):
"""Initialize to do N-Queens optimized crossover.
Arguments:
+ - fitness_func -- A function that can calculate the fitness
+ of a genome.
+ - crossover_prob -- The probability of having a crossover
+ between two passed in organisms.
+ - max_crossover_size -- The maximum crossover size of the
+ 'best' region to search for.
- o fitness_func -- A function that can calculate the fitness of
- a genome.
-
- o crossover_prob -- The probability of having a crossover
- between two passed in organisms.
-
- o max_crossover_size -- The maximum crossover size of the 'best' region
- to search for.
"""
self._crossover_prob = crossover_prob
self._fitness_calc = fitness_func
self._max_crossover_size = max_crossover_size
def do_crossover(self, org_1, org_2):
- """Perform a crossover between two organisms.
- """
+ """Perform a crossover between two organisms."""
new_org_1 = org_1.copy()
new_org_2 = org_2.copy()
@@ -297,18 +299,19 @@ class QueensCrossover(object):
Arguments:
- o genome -- A MutableSeq object specifying the genome of an organism
-
- o make_best_larger -- A flag to determine whether the best region
- we should search for should be the larger region of the split
- caused by crossover or the smaller region. This makes it easy
- to split two genomes, recombine them, and get a solution that
- makes sense.
+ - genome - A MutableSeq object specifying the genome of an organism
+ - make_best_larger - A flag to determine whether the best region
+ we should search for should be the larger region of the split
+ caused by crossover or the smaller region. This makes it easy
+ to split two genomes, recombine them, and get a solution that
+ makes sense.
Returns:
- o Two MutableSeq objects. They are both half of the size of the passed
- genome. The first is the highest fitness region of the genome and the
- second is the rest of the genome.
+
+ - Two MutableSeq objects. They are both half of the size of the passed
+ genome. The first is the highest fitness region of the genome and the
+ second is the rest of the genome.
+
"""
first_region = max(len(genome) / 2, self._max_crossover_size)
second_region = len(genome) - first_region
@@ -353,14 +356,14 @@ class QueensMutation(object):
Arguments:
- o mutation_rate -- The change of a mutation happening at any
- position in the genome.
+ - mutation_rate - The change of a mutation happening at any
+ position in the genome.
+
"""
self._mutation_rate = mutation_rate
def mutate(self, organism):
- """Mutate the genome trying to put in 'helpful' mutations.
- """
+ """Mutate the genome trying to put in 'helpful' mutations."""
new_org = organism.copy()
gene_choices = list(new_org.genome.alphabet.letters)
@@ -387,15 +390,17 @@ class QueensMutation(object):
return new_org
+
num_queens = 5
# Class defined for use via run_tests.py
class QueensTest(unittest.TestCase):
def test_queens(self):
- """Place five queens with a GA"""
+ """Place five queens with a GA."""
main(num_queens)
+
if __name__ == "__main__":
if len(sys.argv) == 1:
# Run with defaults, for use as a unit test
diff --git a/Tests/test_GARepair.py b/Tests/test_GARepair.py
index a46bbad..7a1199c 100644
--- a/Tests/test_GARepair.py
+++ b/Tests/test_GARepair.py
@@ -12,9 +12,13 @@ from Bio.Alphabet import Alphabet
from Bio.Seq import MutableSeq
# local stuff
-from Bio.NeuralNetwork.Gene.Schema import Schema
-from Bio.GA.Organism import Organism
-from Bio.GA.Repair.Stabilizing import AmbiguousRepair
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ from Bio.NeuralNetwork.Gene.Schema import Schema
+ from Bio.GA.Organism import Organism
+ from Bio.GA.Repair.Stabilizing import AmbiguousRepair
class TestAlphabet(Alphabet):
@@ -67,6 +71,7 @@ class AmbiguousRepairTest(unittest.TestCase):
assert new_genome_seq.count("*") == 0, \
"Did not repair genome, got %s" % str(new_genome_seq)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GASelection.py b/Tests/test_GASelection.py
index e59c98b..730f8ce 100644
--- a/Tests/test_GASelection.py
+++ b/Tests/test_GASelection.py
@@ -14,10 +14,14 @@ from Bio.Seq import MutableSeq
from Bio.Alphabet import SingleLetterAlphabet
# local stuff
-from Bio.GA.Organism import Organism
-from Bio.GA.Selection.Diversity import DiversitySelection
-from Bio.GA.Selection.Tournament import TournamentSelection
-from Bio.GA.Selection.RouletteWheel import RouletteWheelSelection
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ from Bio.GA.Organism import Organism
+ from Bio.GA.Selection.Diversity import DiversitySelection
+ from Bio.GA.Selection.Tournament import TournamentSelection
+ from Bio.GA.Selection.RouletteWheel import RouletteWheelSelection
# --- helper classes and functions
diff --git a/Tests/test_GenBank.py b/Tests/test_GenBank.py
index a798eda..c02b194 100644
--- a/Tests/test_GenBank.py
+++ b/Tests/test_GenBank.py
@@ -23,19 +23,19 @@ from Bio.GenBank import utils
from Bio.Alphabet import _get_base_alphabet, ProteinAlphabet
-gb_file_dir = os.path.join(os.getcwd(), 'GenBank')
+gb_file_dir = os.path.join(os.getcwd(), "GenBank")
-test_files = ['noref.gb', 'cor6_6.gb', 'iro.gb', 'pri1.gb', 'arab1.gb',
- 'protein_refseq.gb', 'extra_keywords.gb', 'one_of.gb',
- 'NT_019265.gb', 'origin_line.gb', 'blank_seq.gb',
- 'dbsource_wrap.gb', 'gbvrl1_start.seq', 'NC_005816.gb',
- 'no_end_marker.gb', 'wrong_sequence_indent.gb',
- 'invalid_locus_line_spacing.gb', 'empty_feature_qualifier.gb',
- 'invalid_misc_feature.gb', '1MRR_A.gp']
+test_files = ["noref.gb", "cor6_6.gb", "iro.gb", "pri1.gb", "arab1.gb",
+ "protein_refseq.gb", "extra_keywords.gb", "one_of.gb",
+ "NT_019265.gb", "origin_line.gb", "blank_seq.gb",
+ "dbsource_wrap.gb", "gbvrl1_start.seq", "NC_005816.gb",
+ "no_end_marker.gb", "wrong_sequence_indent.gb",
+ "invalid_locus_line_spacing.gb", "empty_feature_qualifier.gb",
+ "invalid_misc_feature.gb", "1MRR_A.gp"]
# We only test writing on a subset of the examples:
-write_format_files = ['noref.gb', 'cor6_6.gb', 'iro.gb', 'pri1.gb', 'arab1.gb',
- 'extra_keywords.gb', 'one_of.gb', 'origin_line.gb']
+write_format_files = ["noref.gb", "cor6_6.gb", "iro.gb", "pri1.gb", "arab1.gb",
+ "extra_keywords.gb", "one_of.gb", "origin_line.gb"]
# don't test writing on protein_refseq, since it is horribly nasty
# don't test writing on the CONTIG refseq, because the wrapping of
# locations won't work exactly
@@ -49,16 +49,16 @@ for file in test_files:
# parse the bioperl test files
# comment this out for now -- there are a bunch of junky records in here
# that no longer exist in GenBank -- do we really need to support those?
-# files_to_parse = [os.path.join(os.getcwd(), 'GenBank', 'bioperl_test.gb')]
+# files_to_parse = [os.path.join(os.getcwd(), "GenBank", "bioperl_test.gb")]
# parse the biojava test files
-# files_to_parse += [os.path.join(os.getcwd(), 'GenBank', 'biojava_test.gb')]
+# files_to_parse += [os.path.join(os.getcwd(), "GenBank", "biojava_test.gb")]
# test the parsers
-feature_parser = GenBank.FeatureParser(debug_level=0)
-record_parser = GenBank.RecordParser(debug_level=0)
+feat_parser = GenBank.FeatureParser(debug_level=0)
+rec_parser = GenBank.RecordParser(debug_level=0)
-all_parsers = [feature_parser, record_parser]
+all_parsers = [feat_parser, rec_parser]
print("Testing parsers...")
for parser in all_parsers:
for filename in files_to_parse:
@@ -66,14 +66,14 @@ for parser in all_parsers:
print("Missing test input file: %s" % filename)
continue
- handle = open(filename, 'r')
- iterator = GenBank.Iterator(handle, parser)
+ handle = open(filename, "r")
+ gb_iterator = GenBank.Iterator(handle, parser)
while True:
with warnings.catch_warnings():
warnings.simplefilter("ignore", BiopythonParserWarning)
# e.g. BiopythonParserWarning: Premature end of file in sequence data
- cur_record = next(iterator)
+ cur_record = next(gb_iterator)
if cur_record is None:
break
@@ -84,11 +84,11 @@ for parser in all_parsers:
print("Seq: %r" % cur_record.seq)
print("Id: %s" % cur_record.id)
print("Name: %s" % cur_record.name)
- print("Description %s" % cur_record.description)
+ print("Description: %s" % cur_record.description)
print("Annotations***")
ann_keys = sorted(cur_record.annotations)
for ann_key in ann_keys:
- if ann_key != 'references':
+ if ann_key != "references":
print("Key: %s" % ann_key)
print("Value: %s" %
cur_record.annotations[ann_key])
@@ -142,67 +142,66 @@ def do_comparison(good_record, test_record):
good_line = good_handle.readline()
test_line = test_handle.readline()
- if not(good_line) and not(test_line):
+ if not good_line and not test_line:
break
- if not(good_line):
+ if not good_line:
raise AssertionError("Extra info in Test: %r" % test_line)
- if not(test_line):
+ if not test_line:
raise AssertionError("Extra info in Expected: %r" % good_line)
- test_normalized = ' '.join(x for x in test_line.split() if x)
- good_normalized = ' '.join(x for x in good_line.split() if x)
+ test_normalized = " ".join(x for x in test_line.split() if x)
+ good_normalized = " ".join(x for x in good_line.split() if x)
assert test_normalized == good_normalized, \
- "Expected does not match Test.\nExpect: %r\nTest: %r\n" % \
- (good_line, test_line)
+ "Expected does not match Test.\nExpect: %r\nTest: %r\n" % (good_line, test_line)
def t_write_format():
record_parser = GenBank.RecordParser(debug_level=0)
- for file in write_format_files:
- print("Testing GenBank writing for %s..." % os.path.basename(file))
- cur_handle = open(os.path.join("GenBank", file), "r")
- compare_handle = open(os.path.join("GenBank", file), "r")
+ for next_file in write_format_files:
+ print("Testing GenBank writing for %s..." % os.path.basename(next_file))
+ cur_handle = open(os.path.join("GenBank", next_file), "r")
+ compare_handle = open(os.path.join("GenBank", next_file), "r")
iterator = GenBank.Iterator(cur_handle, record_parser)
compare_iterator = GenBank.Iterator(compare_handle)
while True:
- cur_record = next(iterator)
+ cur_rec = next(iterator)
compare_record = next(compare_iterator)
- if cur_record is None or compare_record is None:
+ if cur_rec is None or compare_record is None:
break
- print("\tTesting for %s" % cur_record.version)
+ print("\tTesting for %s" % cur_rec.version)
- output_record = str(cur_record) + "\n"
+ output_record = str(cur_rec) + "\n"
do_comparison(compare_record, output_record)
cur_handle.close()
compare_handle.close()
+
t_write_format()
def t_cleaning_features():
"""Test the ability to clean up feature values.
"""
- parser = GenBank.FeatureParser(feature_cleaner=utils.FeatureValueCleaner())
+ gb_parser = GenBank.FeatureParser(feature_cleaner=utils.FeatureValueCleaner())
handle = open(os.path.join("GenBank", "arab1.gb"))
- iterator = GenBank.Iterator(handle, parser)
+ iterator = GenBank.Iterator(handle, gb_parser)
first_record = next(iterator)
# test for cleaning of translation
translation_feature = first_record.features[1]
test_trans = translation_feature.qualifiers["translation"][0]
- assert ' ' not in test_trans, \
- "Did not clean spaces out of the translation"
- assert '\012' not in test_trans, \
- "Did not clean newlines out of the translation"
+ assert " " not in test_trans, "Did not clean spaces out of the translation"
+ assert "\012" not in test_trans, "Did not clean newlines out of the translation"
handle.close()
+
print("Testing feature cleaning...")
t_cleaning_features()
@@ -238,5 +237,6 @@ def t_ensembl_locus():
print("Done")
+
print("Testing EnsEMBL LOCUS lines...")
t_ensembl_locus()
diff --git a/Tests/test_GenBank_unittest.py b/Tests/test_GenBank_unittest.py
index 5dd2007..2d6ee46 100644
--- a/Tests/test_GenBank_unittest.py
+++ b/Tests/test_GenBank_unittest.py
@@ -11,6 +11,7 @@ from os import path
from Bio import BiopythonParserWarning
from Bio import BiopythonWarning
from Bio import GenBank
+from Bio.GenBank import Scanner
from Bio import SeqIO
from Bio.SeqRecord import SeqRecord
from Bio.Seq import Seq
@@ -106,36 +107,52 @@ class GenBankTests(unittest.TestCase):
"""GenBank record with old DBLINK project entry."""
record = SeqIO.read("GenBank/NC_005816.gb", "gb")
self.assertEqual(record.dbxrefs, ["Project:58037"])
+ gb = record.format("gb")
+ self.assertIn("\nDBLINK Project: 58037\n", gb)
embl = record.format("embl")
- self.assertTrue("XX\nPR Project:58037;\nXX\n" in embl, embl)
+ self.assertIn("XX\nPR Project:58037;\nXX\n", embl)
def test_dblink_two(self):
"""GenBank record with old and new DBLINK project entries."""
record = SeqIO.read("GenBank/NP_416719.gbwithparts", "gb")
self.assertEqual(record.dbxrefs,
["Project:57779", "BioProject:PRJNA57779"])
+ gb = record.format("gb")
+ self.assertTrue("""
+DBLINK Project: 57779
+ BioProject: PRJNA57779
+KEYWORDS """ in gb, gb)
embl = record.format("embl")
- self.assertTrue("XX\nPR Project:PRJNA57779;\nXX\n" in embl, embl)
+ self.assertIn("XX\nPR Project:PRJNA57779;\nXX\n", embl)
def test_dbline_gb_embl(self):
"""GenBank / EMBL paired records with PR project entry: GenBank"""
record = SeqIO.read("GenBank/DS830848.gb", "gb")
- self.assertTrue("BioProject:PRJNA16232" in record.dbxrefs, record.dbxrefs)
+ self.assertIn("BioProject:PRJNA16232", record.dbxrefs)
gb = record.format("gb")
- self.assertTrue("\nDBLINK BioProject:PRJNA16232\n" in gb, gb)
+ self.assertTrue("""
+DBLINK BioProject: PRJNA16232
+ BioSample: SAMN03004382
+KEYWORDS """ in gb, gb)
# Also check EMBL output
embl = record.format("embl")
- self.assertTrue("XX\nPR Project:PRJNA16232;\nXX\n" in embl, embl)
+ self.assertIn("XX\nPR Project:PRJNA16232;\nXX\n", embl)
def test_dbline_embl_gb(self):
"""GenBank / EMBL paired records with PR project entry: EMBL"""
record = SeqIO.read("EMBL/DS830848.embl", "embl")
# TODO: Should we map this to BioProject:PRJNA16232
- self.assertTrue("Project:PRJNA16232" in record.dbxrefs, record.dbxrefs)
+ self.assertIn("Project:PRJNA16232", record.dbxrefs)
gb = record.format("gb")
- self.assertTrue("\nDBLINK Project:PRJNA16232\n" in gb, gb)
+ self.assertTrue("""
+DBLINK Project: PRJNA16232
+ MD5: 387e72e4f7ae804780d06f875ab3bc41
+ ENA: ABJB010000000
+ ENA: ABJB000000000
+ BioSample: SAMN03004382
+KEYWORDS """ in gb, gb)
embl = record.format("embl")
- self.assertTrue("XX\nPR Project:PRJNA16232;\nXX\n" in embl, embl)
+ self.assertIn("XX\nPR Project:PRJNA16232;\nXX\n", embl)
def test_structured_comment_parsing(self):
"""Structued comment parsing."""
@@ -145,14 +162,20 @@ class GenBankTests(unittest.TestCase):
"Swine influenza A (H1N1) virus isolated during human swine flu\noutbreak of 2009.")
self.assertEqual(record.annotations['structured_comment']['GISAID_EpiFlu(TM)Data']['Lineage'], 'swl')
self.assertEqual(len(record.annotations['structured_comment']['GISAID_EpiFlu(TM)Data']), 3)
+ with open(path.join('GenBank', 'HM138502_output.gbk'), "r") as ifile:
+ self.assertEqual(record.format("gb"), ifile.read())
# FluData structured comment
record = SeqIO.read(path.join('GenBank', 'EU851978.gbk'), 'genbank')
self.assertEqual(record.annotations['structured_comment']['FluData']['LabID'], '2008704957')
self.assertEqual(len(record.annotations['structured_comment']['FluData']), 5)
+ with open(path.join('GenBank', 'EU851978_output.gbk'), "r") as ifile:
+ self.assertEqual(record.format("gb"), ifile.read())
# Assembly-Data structured comment
record = SeqIO.read(path.join('GenBank', 'KF527485.gbk'), 'genbank')
self.assertEqual(record.annotations['structured_comment']['Assembly-Data']['Assembly Method'], 'Lasergene v. 10')
self.assertEqual(len(record.annotations['structured_comment']['Assembly-Data']), 2)
+ with open(path.join('GenBank', 'KF527485_output.gbk'), "r") as ifile:
+ self.assertEqual(record.format("gb"), ifile.read())
# No structured comment in NC_000932.gb, just a regular comment
record = SeqIO.read(path.join('GenBank', 'NC_000932.gb'), 'genbank')
self.assertFalse("structured_comment" in record.annotations)
@@ -168,13 +191,18 @@ class GenBankTests(unittest.TestCase):
out_handle = StringIO()
SeqIO.write([record], out_handle, 'genbank')
first_line = out_handle.getvalue().split('\n')[0]
- # TODO - Use self.assertIn once drop Python 2.6
- # self.assertIn('linear', first_line)
- self.assertTrue(" linear " in first_line)
+ self.assertIn('linear', first_line)
with open('GenBank/DS830848.gb', 'r') as fh:
orig_first_line = fh.readline().strip()
self.assertEqual(first_line, orig_first_line)
+ def test_qualifier_order(self):
+ """Check the qualifier order is preserved."""
+ record = SeqIO.read("GenBank/DS830848.gb", "gb")
+ f = record.features[0]
+ self.assertEqual(list(f.qualifiers),
+ ['organism', 'mol_type', 'strain', 'db_xref', 'dev_stage'])
+
def test_long_names(self):
"""Various GenBank names which push the column based LOCUS line."""
original = SeqIO.read("GenBank/iro.gb", "gb")
@@ -210,8 +238,8 @@ class GenBankTests(unittest.TestCase):
self.assertEqual(1, SeqIO.write(record, handle, "gb"))
handle.seek(0)
line = handle.readline()
- self.assertTrue(" %s " % name in line, line)
- self.assertTrue(" %i bp " % seq_len in line, line)
+ self.assertIn(" %s " % name, line)
+ self.assertIn(" %i bp " % seq_len, line)
name_and_length = line[12:40]
self.assertEqual(name_and_length.split(), [name, str(seq_len)], line)
handle.seek(0)
@@ -224,6 +252,108 @@ class GenBankTests(unittest.TestCase):
self.assertEqual(seq_len, len(new))
+class LineOneTests(unittest.TestCase):
+ """Check GenBank/EMBL topology / molecule_type parsing."""
+
+ def test_topology_genbank(self):
+ """Check GenBank LOCUS line parsing."""
+ # This is a bit low level, but can test pasing the LOCUS line only
+ tests = [
+ ("LOCUS U00096",
+ None, None, None),
+ # This example is actually fungal, accession U49845 from Saccharomyces cerevisiae:
+ ("LOCUS SCU49845 5028 bp DNA PLN 21-JUN-1999",
+ None, "DNA", "PLN"),
+ ("LOCUS AB070938 6497 bp DNA linear BCT 11-OCT-2001",
+ "linear", "DNA", "BCT"),
+ ("LOCUS NC_005816 9609 bp DNA circular BCT 21-JUL-2008",
+ "circular", "DNA", "BCT"),
+ ("LOCUS SCX3_BUTOC 64 aa linear INV 16-OCT-2001",
+ "linear", None, "INV"),
+ ]
+ for (line, topo, mol_type, div) in tests:
+ scanner = Scanner.GenBankScanner()
+ consumer = GenBank._FeatureConsumer(1, GenBank.FeatureValueCleaner)
+ scanner._feed_first_line(consumer, line)
+ t = consumer.data.annotations.get('topology', None)
+ self.assertEqual(t, topo,
+ "Wrong topology %r not %r from %r" % (t, topo, line))
+ mt = consumer.data.annotations.get('molecule_type', None)
+ self.assertEqual(mt, mol_type,
+ "Wrong molecule_type %r not %r from %r" %
+ (mt, mol_type, line))
+ d = consumer.data.annotations.get('data_file_division', None)
+ self.assertEqual(d, div,
+ "Wrong division %r not %r from %r" % (d, div, line))
+
+ def test_topology_embl(self):
+ """Check EMBL ID line parsing."""
+ # This is a bit low level, but can test pasing the ID line only
+ tests = [
+ # Modern examples with sequence version
+ ("ID X56734; SV 1; linear; mRNA; STD; PLN; 1859 BP.",
+ "linear", "mRNA", "PLN"),
+ ("ID CD789012; SV 4; linear; genomic DNA; HTG; MAM; 500 BP.",
+ "linear", "genomic DNA", "MAM"),
+ # Example to match GenBank example used above:
+ ("ID U49845; SV 1; linear; genomic DNA; STD; FUN; 5028 BP.",
+ "linear", "genomic DNA", "FUN"),
+ # Old examples:
+ ("ID BSUB9999 standard; circular DNA; PRO; 4214630 BP.",
+ "circular", "DNA", "PRO"),
+ ("ID SC10H5 standard; DNA; PRO; 4870 BP.",
+ None, "DNA", "PRO"),
+ # Patent example from 2016-06-10
+ # ftp://ftp.ebi.ac.uk/pub/databases/embl/patent/
+ ("ID A01679; SV 1; linear; unassigned DNA; PAT; MUS; 12 BP.",
+ "linear", "unassigned DNA", "MUS"),
+ # Old patent examples
+ ("ID NRP_AX000635; PRT; NR1; 15 SQ", None, None, "NR1"),
+ ("ID NRP0000016E; PRT; NR2; 5 SQ", None, None, "NR2"),
+ # KIPO patent examples
+ ("ID DI500001 STANDARD; PRT; 111 AA.", None, None, None),
+ ("ID DI644510 standard; PRT; 1852 AA.", None, None, None),
+ ]
+ for (line, topo, mol_type, div) in tests:
+ scanner = Scanner.EmblScanner()
+ consumer = GenBank._FeatureConsumer(1, GenBank.FeatureValueCleaner)
+ scanner._feed_first_line(consumer, line)
+ t = consumer.data.annotations.get('topology', None)
+ self.assertEqual(t, topo,
+ "Wrong topology %r not %r from %r" % (t, topo, line))
+ mt = consumer.data.annotations.get('molecule_type', None)
+ self.assertEqual(mt, mol_type,
+ "Wrong molecule_type %r not %r from %r" %
+ (mt, mol_type, line))
+ d = consumer.data.annotations.get('data_file_division', None)
+ self.assertEqual(d, div,
+ "Wrong division %r not %r from %r" % (d, div, line))
+
+ def test_first_line_imgt(self):
+ """Check IMGT ID line parsing."""
+ # This is a bit low level, but can test pasing the ID line only
+ tests = [
+ ("ID HLA00001 standard; DNA; HUM; 3503 BP.",
+ None, "DNA", "HUM"),
+ ("ID HLA00001; SV 1; standard; DNA; HUM; 3503 BP.",
+ None, "DNA", "HUM"),
+ ]
+ for (line, topo, mol_type, div) in tests:
+ scanner = Scanner._ImgtScanner()
+ consumer = GenBank._FeatureConsumer(1, GenBank.FeatureValueCleaner)
+ scanner._feed_first_line(consumer, line)
+ t = consumer.data.annotations.get('topology', None)
+ self.assertEqual(t, topo,
+ "Wrong topology %r not %r from %r" % (t, topo, line))
+ mt = consumer.data.annotations.get('molecule_type', None)
+ self.assertEqual(mt, mol_type,
+ "Wrong molecule_type %r not %r from %r" %
+ (mt, mol_type, line))
+ d = consumer.data.annotations.get('data_file_division', None)
+ self.assertEqual(d, div,
+ "Wrong division %r not %r from %r" % (d, div, line))
+
+
class OutputTests(unittest.TestCase):
"""GenBank output tests."""
diff --git a/Tests/test_GenomeDiagram.py b/Tests/test_GenomeDiagram.py
index e8bf35e..f0e60a0 100755
--- a/Tests/test_GenomeDiagram.py
+++ b/Tests/test_GenomeDiagram.py
@@ -64,18 +64,20 @@ def fill_and_border(base_color, alpha=0.5):
def apply_to_window(sequence, window_size, function, step=None):
- """Returns a list of (position, value) tuples for fragments of the passed
+ """Apply function to windows of the given sequence.
+
+ Returns a list of (position, value) tuples for fragments of the passed
sequence of length window_size (stepped by step), calculated by the passed
function. Returned positions are the midpoint of each window.
Arguments:
- - sequence - Bio.Seq.Seq object.
- - window_size - an integer describing the length of sequence to consider.
- - step - an integer describing the step to take between windows
- (default = window_size//2).
- - function - Method or function that accepts a Bio.Seq.Seq object
- as its sole argument and returns a single value.
+ - sequence - Bio.Seq.Seq object.
+ - window_size - an integer describing the length of sequence to consider.
+ - step - an integer describing the step to take between windows
+ (default = window_size//2).
+ - function - Method or function that accepts a Bio.Seq.Seq object
+ as its sole argument and returns a single value.
apply_to_window(sequence, window_size, function) -> [(int, float),(int, float),...]
"""
@@ -348,7 +350,8 @@ class LabelTest(unittest.TestCase):
class SigilsTest(unittest.TestCase):
"""Check the different feature sigils.
- These figures are intended to be used in the Tutorial..."""
+ These figures are intended to be used in the Tutorial...
+ """
def setUp(self):
self.gdd = Diagram('Test Diagram', circular=False,
y=0.01, yt=0.01, yb=0.01,
@@ -1021,6 +1024,7 @@ class DiagramTest(unittest.TestCase):
output_filename = os.path.join('Graphics', 'GD_by_obj_frag_linear.pdf')
gdd.write(output_filename, 'PDF')
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GraphicsBitmaps.py b/Tests/test_GraphicsBitmaps.py
index 59de302..1742358 100644
--- a/Tests/test_GraphicsBitmaps.py
+++ b/Tests/test_GraphicsBitmaps.py
@@ -23,13 +23,14 @@ try:
# Skip the test if reportlab is not installed
import reportlab as r
del r
-except:
+except Exception:
raise MissingPythonDependencyError(
"Install ReportLab if you want to use Bio.Graphics.")
try:
# Skip the test if reportlab is not installed
from reportlab.graphics import renderPM
-except:
+ del renderPM
+except Exception:
raise MissingPythonDependencyError(
"Install ReportLab's renderPM module if you want to create "
"bitmaps with Bio.Graphics.")
@@ -41,7 +42,7 @@ try:
except ImportError:
import Image as i
del i
-except:
+except Exception:
raise MissingPythonDependencyError(
"Install Pillow or its predecessor PIL (Python Imaging Library) "
"if you want to create bitmaps with Bio.Graphics.")
@@ -106,6 +107,7 @@ def real_test():
return True
+
# Run the actual test BEFORE the unittest stuff gets called
real_test()
@@ -117,6 +119,7 @@ class ComparativeTest(unittest.TestCase):
# Dummy method to show up via run_tests.py
pass
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GraphicsChromosome.py b/Tests/test_GraphicsChromosome.py
index 3ce4ec0..d1ccaa9 100644
--- a/Tests/test_GraphicsChromosome.py
+++ b/Tests/test_GraphicsChromosome.py
@@ -26,7 +26,7 @@ from Bio import MissingPythonDependencyError
try:
# reportlab
from reportlab.lib import colors
-except:
+except ImportError:
raise MissingPythonDependencyError(
"Install reportlab if you want to use Bio.Graphics.")
@@ -114,6 +114,7 @@ def load_chromosome(chr_name):
return cur_chromosome
+
# --- stuff for generating random organisms
color_choices = (colors.red, colors.blue)
letter_choices = '0123456789ABCDEFGHIJKLMNOPQRSTUVWXYZ'
@@ -458,6 +459,7 @@ class ChromosomeCountTest(unittest.TestCase):
assert seg_info[test_label_num][1] == test_label_value, \
"Did not set and retrieve label correctly."
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GraphicsDistribution.py b/Tests/test_GraphicsDistribution.py
index d1cd5b1..b0d711e 100644
--- a/Tests/test_GraphicsDistribution.py
+++ b/Tests/test_GraphicsDistribution.py
@@ -18,13 +18,13 @@ from Bio import MissingExternalDependencyError
try:
import reportlab as r
del r
-except:
+except ImportError:
raise MissingExternalDependencyError(
"Install reportlab if you want to use Bio.Graphics.")
# local stuff
from Bio.Graphics.Distribution import BarChartDistribution
-from Bio.Graphics.Distribution import LineDistribution
+# TODO from Bio.Graphics.Distribution import LineDistribution
from Bio.Graphics.Distribution import DistributionPage
@@ -80,6 +80,7 @@ class BarChartTest(unittest.TestCase):
dist_page.draw(self.multi_page, "Test Multi Bar Chart")
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_GraphicsGeneral.py b/Tests/test_GraphicsGeneral.py
index f9f2fe0..205066c 100644
--- a/Tests/test_GraphicsGeneral.py
+++ b/Tests/test_GraphicsGeneral.py
@@ -3,20 +3,20 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Test for graphics things that don't really deserve there own test module.
+"""Test for graphics things that don't really deserve there own test module."""
+
+# TODO: Right now this test occasionally fails with a trace like:
+#
+# File "/usr/local/lib/python2.1/site-packages/reportlab/graphics/
+# charts/lineplots.py", line 182, in calcPositions
+# datum = self.data[rowNo][colNo] # x,y value
+# IndexError: list index out of range
+#
+# This appears to be a problem with reportlab, so I'm not worrying about
+# it right now, unless it starts to happen with real data! If anyone
+# can figure out the data that causes it so I can avoid it, that'd be much
+# appreciated.
-XXX Right now this test occasionally fails with a trace like:
-
-File "/usr/local/lib/python2.1/site-packages/reportlab/graphics/
-charts/lineplots.py", line 182, in calcPositions
- datum = self.data[rowNo][colNo] # x,y value
-IndexError: list index out of range
-
-This appears to be a problem with reportlab, so I'm not worrying about
-it right now, unless it starts to happen with real data! If anyone
-can figure out the data that causes it so I can avoid it, that'd be much
-appreciated.
-"""
# standard library
import os
import random
@@ -27,7 +27,7 @@ try:
# Skip the test if reportlab is not installed
import reportlab as r
del r
-except:
+except ImportError:
raise MissingExternalDependencyError(
"Install reportlab if you want to use Bio.Graphics.")
@@ -39,22 +39,16 @@ class ComparativeTest(unittest.TestCase):
"""Do tests for modules involved with comparing data.
"""
def setUp(self):
- self.min_two_d_lists = 1
- self.max_two_d_lists = 7
-
self.min_num_points = 1
self.max_num_points = 500
self.min_point_num = 0
self.max_point_num = 200
- def _make_random_points(self):
+ def _make_random_points(self, num_two_d_lists):
"""Make a bunch of random points for testing plots.
"""
plot_info = []
- num_two_d_lists = random.randrange(self.min_two_d_lists,
- self.max_two_d_lists)
-
for two_d_list in range(num_two_d_lists):
cur_list = []
num_points = random.randrange(self.min_num_points,
@@ -70,19 +64,21 @@ class ComparativeTest(unittest.TestCase):
plot_info.append(cur_list)
return plot_info
- def test_simple_scatter_plot(self):
- """Test creation of a simple ScatterPlot.
- """
+ def test_simple_scatter_plot_1(self):
+ """Test creation of a simple ScatterPlot with one list."""
+ compare_plot = ComparativeScatterPlot()
+ compare_plot.display_info = self._make_random_points(1)
+ output_file = os.path.join(os.getcwd(), "Graphics", "scatter_test_1.pdf")
+ compare_plot.draw_to_file(output_file, "Testing Scatter Plots")
+
+ def test_simple_scatter_plot_7(self):
+ """Test creation of a simple ScatterPlot with more lists."""
compare_plot = ComparativeScatterPlot()
- compare_plot.display_info = self._make_random_points()
+ # There are 6 pre-defined colors and symbols, doing more:
+ compare_plot.display_info = self._make_random_points(7)
+ output_file = os.path.join(os.getcwd(), "Graphics", "scatter_test_7.pdf")
+ compare_plot.draw_to_file(output_file, "Testing Scatter Plots")
- output_file = os.path.join(os.getcwd(), "Graphics", "scatter_test.pdf")
- try:
- compare_plot.draw_to_file(output_file, "Testing Scatter Plots")
- # there is a bug in reportlab which occasionally generates an
- # error here.
- except IndexError:
- pass
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_HMMCasino.py b/Tests/test_HMMCasino.py
index 266ba89..226bb8d 100644
--- a/Tests/test_HMMCasino.py
+++ b/Tests/test_HMMCasino.py
@@ -88,9 +88,9 @@ def generate_rolls(num_rolls):
Returns:
- o The generate roll sequence
+ - The generate roll sequence
+ - The state sequence that generated the roll.
- o The state sequence that generated the roll.
"""
# start off in the fair state
cur_state = 'F'
@@ -118,6 +118,7 @@ def generate_rolls(num_rolls):
return roll_seq.toseq(), state_seq.toseq()
+
# -- build a MarkovModel
mm_builder = MarkovModel.MarkovModelBuilder(DiceTypeAlphabet(),
DiceRollAlphabet())
@@ -169,6 +170,7 @@ def stop_training(log_likelihood_change, num_iterations):
else:
return 0
+
# -- Standard Training with known states
print("Training with the Standard Trainer...")
known_training_seq = Trainer.TrainingSequence(rolls, states)
diff --git a/Tests/test_HMMGeneral.py b/Tests/test_HMMGeneral.py
index 2a85f20..d106162 100644
--- a/Tests/test_HMMGeneral.py
+++ b/Tests/test_HMMGeneral.py
@@ -301,10 +301,7 @@ class HiddenMarkovModelTest(unittest.TestCase):
test_assertion("log probability", round(prob, 11), round(max_prob, 11))
def test_non_ergodic(self):
- """Test a non-ergodic model (meaning that some transitions are not
- allowed).
- """
-
+ """Non-ergodic model (meaning that some transitions are not allowed)."""
# make state '1' the initial state
prob_1_initial = 1.0
self.mm_builder.set_initial_probabilities(
@@ -428,6 +425,7 @@ class AbstractTrainerTest(unittest.TestCase):
assert abs(expected_log_prob - log_prob) < 0.1, \
"Bad probability calculated: %s" % log_prob
+
# run the tests
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_KDTree.py b/Tests/test_KDTree.py
index 395c629..ea3b7a4 100644
--- a/Tests/test_KDTree.py
+++ b/Tests/test_KDTree.py
@@ -6,6 +6,7 @@ import unittest
try:
import numpy
+ del numpy
except ImportError:
from Bio import MissingExternalDependencyError
raise MissingExternalDependencyError(
@@ -13,6 +14,7 @@ except ImportError:
try:
from Bio.KDTree import _CKDTree
+ del _CKDTree
except ImportError:
from Bio import MissingExternalDependencyError
raise MissingExternalDependencyError(
diff --git a/Tests/test_KEGG.py b/Tests/test_KEGG.py
index 9426b11..4090ca6 100644
--- a/Tests/test_KEGG.py
+++ b/Tests/test_KEGG.py
@@ -1,84 +1,124 @@
# Copyright 2001 by Tarjei Mikkelsen. All rights reserved.
# Revisions copyright 2007 by Michiel de Hoon. All rights reserved.
+# Revisions copyright 2017 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
"""Tests the basic functionality of the KEGG parsers."""
-from __future__ import print_function
-
-import os
+import unittest
from Bio.KEGG import Enzyme
from Bio.KEGG import Compound
from Bio.KEGG import Map
from Bio.Pathway import System
-# TODO - use unittest instead of print-and-compare testing
-
-test_KEGG_Enzyme_files = ["enzyme.sample", "enzyme.irregular", "enzyme.new"]
-test_KEGG_Compound_files = ["compound.sample", "compound.irregular"]
-test_KEGG_Map_files = ["map00950.rea"]
-
-
-def t_KEGG_Enzyme(testfiles):
- """Tests Bio.KEGG.Enzyme functionality."""
- for file in testfiles:
- fh = open(os.path.join("KEGG", file))
- print("Testing Bio.KEGG.Enzyme on " + file + "\n\n")
- records = Enzyme.parse(fh)
- for i, record in enumerate(records):
- print(record)
-
- fh.seek(0)
- if i == 0:
- print(Enzyme.read(fh))
- else:
- try:
- print(Enzyme.read(fh))
- assert False
- except ValueError as e:
- assert str(e) == 'More than one record found in handle'
-
- print("\n")
- fh.close()
-
-
-def t_KEGG_Compound(testfiles):
- """Tests Bio.KEGG.Compound functionality."""
- for file in testfiles:
- fh = open(os.path.join("KEGG", file))
- print("Testing Bio.KEGG.Compound on " + file + "\n\n")
- records = Compound.parse(fh)
- for record in records:
- print(record)
- print("\n")
- fh.close()
-
-
-def t_KEGG_Map(testfiles):
- """Tests Bio.KEGG.Map functionality."""
- for file in testfiles:
- fh = open(os.path.join("KEGG", file))
- print("Testing Bio.KEGG.Map on " + file + "\n\n")
- reactions = Map.parse(fh)
+
+class EnzymeTests(unittest.TestCase):
+ """Tests for Bio.KEGG.Enzyme"""
+
+ def test_sample(self):
+ with open("KEGG/enzyme.sample") as handle:
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 8)
+ self.assertEqual(records[0].entry, "1.1.1.1")
+ self.assertEqual(records[0].name,
+ ['Alcohol dehydrogenase', 'Aldehyde reductase'])
+ self.assertEqual(records[0].pathway,
+ [('PATH', 'MAP00010', 'Glycolysis / Gluconeogenesis'),
+ ('PATH', 'MAP00071', 'Fatty acid metabolism'),
+ ('PATH', 'MAP00120', 'Bile acid biosynthesis'),
+ ('PATH', 'MAP00350', 'Tyrosine metabolism'),
+ ('PATH', 'MAP00561', 'Glycerolipid metabolism')])
+ self.assertEqual(records[0].structures,
+ [('PDB', ['1A4U', '1A71', '1A72', '1ADB', '1ADC',
+ '1ADF', '1ADG', '1AGN', '1AXE', '1AXG',
+ '1B14', '1B15', '1B16', '1B2L', '1BTO',
+ '1CDO', '1D1S', '1D1T', '1DDA', '1DEH',
+ '1E3E', '1E3I', '1E3L', '1EE2', '1HDX',
+ '1HDY', '1HDZ', '1HET', '1HEU', '1HF3',
+ '1HLD', '1HSO', '1HSZ', '1HT0', '1HTB',
+ '1LDE', '1LDY', '1QLH', '1QLJ', '1TEH',
+ '2OHX', '2OXI', '3BTO', '3HUD', '5ADH',
+ '6ADH', '7ADH'])])
+ self.assertEqual(records[0].dblinks,
+ [('IUBMB Enzyme Nomenclature', ['1.1.1.1']),
+ ('ExPASy - ENZYME nomenclature database', ['1.1.1.1']),
+ ('WIT (What Is There) Metabolic Reconstruction', ['1.1.1.1']),
+ ('BRENDA, the Enzyme Database', ['1.1.1.1']),
+ ('SCOP (Structural Classification of Proteins)', ['1.1.1.1'])])
+ self.assertEqual(records[-1].entry, "2.7.2.1")
+
+ def test_irregular(self):
+ with open("KEGG/enzyme.irregular") as handle:
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 2)
+ self.assertEqual(records[0].entry, "1.14.18.1")
+ self.assertEqual(records[-1].entry, "3.4.21.50")
+
+ def test_new(self):
+ with open("KEGG/enzyme.new") as handle:
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 1)
+ self.assertEqual(records[0].entry, "6.2.1.25")
+
+ def test_4letter(self):
+ with open("KEGG/enzyme.4letter") as handle:
+ records = list(Enzyme.parse(handle))
+ self.assertEqual(len(records), 1)
+ self.assertEqual(records[0].entry, "5.4.2.2")
+ self.assertEqual(len(records[0].genes), 3776)
+ self.assertEqual(records[0].genes[0],
+ ('HSA', ['5236', '55276']))
+ self.assertEqual(records[0].genes[8],
+ ('CSAB', ['103224690', '103246223']))
+
+
+class CompoundTests(unittest.TestCase):
+ """Bio.KEGG.Compound tests."""
+
+ def test_sample(self):
+ with open("KEGG/compound.sample") as handle:
+ records = list(Compound.parse(handle))
+ self.assertEqual(len(records), 8)
+ self.assertEqual(records[0].entry, "C00023")
+ self.assertEqual(records[0].mass, "") # Why?
+ self.assertEqual(records[0].formula, "Fe")
+ self.assertEqual(records[0].name,
+ ['Iron', 'Fe2+', 'Fe(II)', 'Fe3+', 'Fe(III)'])
+ self.assertEqual(records[0].pathway,
+ [('PATH', 'MAP00860', 'Porphyrin and chlorophyll metabolism')])
+ self.assertEqual(records[0].enzyme[0], ('1.1.3.22', 'C'))
+ self.assertEqual(records[0].structures, [])
+ self.assertEqual(records[0].dblinks[0], ('CAS', ['7439-89-6']))
+
+ def test_irregular(self):
+ with open("KEGG/compound.irregular") as handle:
+ records = list(Compound.parse(handle))
+ self.assertEqual(len(records), 2)
+ self.assertEqual(records[0].entry, "C01454")
+
+
+class MapTests(unittest.TestCase):
+ """Bio.KEGG.Map tests."""
+
+ def test_map00950(self):
system = System()
- for reaction in reactions:
- system.add_reaction(reaction)
+ with open("KEGG/map00950.rea") as handle:
+ for reaction in Map.parse(handle):
+ system.add_reaction(reaction)
+ rxs = system.reactions()
+ self.assertEqual(len(rxs), 56)
# sort the reaction output by the string names, so that the
# output will be consistent between python versions
- # def str_cmp(first, second):
- # return cmp(str(first), str(second))
- rxs = system.reactions()
- # sort: key instead of compare function (for py3 support)
- # The function str_cmp above can be removed if the
- # solution below proves resilient
rxs.sort(key=lambda x: str(x))
- for x in rxs:
- print(str(x))
- fh.close()
+ self.assertEqual(str(rxs[0]),
+ "(R)-N-Methylcoclaurine + (S)-Coclaurine + NADPH + O2 "
+ "<=> 2'-Norberbamunine + 2 H2O + NADP")
+ self.assertEqual(str(rxs[-1]),
+ "Tyramine <=> Dopamine")
-t_KEGG_Enzyme(test_KEGG_Enzyme_files)
-t_KEGG_Compound(test_KEGG_Compound_files)
-t_KEGG_Map(test_KEGG_Map_files)
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_KEGG_online.py b/Tests/test_KEGG_online.py
index 65b115b..218576f 100644
--- a/Tests/test_KEGG_online.py
+++ b/Tests/test_KEGG_online.py
@@ -8,18 +8,17 @@
"""Tests for online functionality of the KEGG module."""
# Builtins
-import os
import unittest
-import tempfile
-
-import requires_internet
-requires_internet.check()
from Bio.KEGG.KGML import KGML_parser
-from Bio.KEGG.REST import *
+from Bio.KEGG.REST import kegg_conv, kegg_find, kegg_get
+from Bio.KEGG.REST import kegg_info, kegg_link, kegg_list
from Bio import SeqIO
+import requires_internet
+requires_internet.check()
+
# TODO - revert to using with statements once we drop
# Python 2.6 and 2.7, see http://bugs.python.org/issue12487
diff --git a/Tests/test_KGML_graphics.py b/Tests/test_KGML_graphics.py
index 50b68d7..3bff6c9 100644
--- a/Tests/test_KGML_graphics.py
+++ b/Tests/test_KGML_graphics.py
@@ -48,8 +48,6 @@ except ImportError:
from Bio.KEGG.KGML.KGML_parser import read
from Bio.Graphics.KGML_vis import KGMLCanvas
-__docformat__ = "restructuredtext en"
-
# The PathwayData class is also imported by the online test module in
# test_KGML_graphics_online.py
diff --git a/Tests/test_KGML_graphics_online.py b/Tests/test_KGML_graphics_online.py
index ad50924..b91d5e7 100644
--- a/Tests/test_KGML_graphics_online.py
+++ b/Tests/test_KGML_graphics_online.py
@@ -43,8 +43,6 @@ from Bio.Graphics.KGML_vis import KGMLCanvas
# test_KGML_graphics module
from test_KGML_graphics import PathwayData
-__docformat__ = "restructuredtext en"
-
class KGMLPathwayOnlineTest(unittest.TestCase):
"""Import XML file and write KGML - online tests.
diff --git a/Tests/test_KGML_nographics.py b/Tests/test_KGML_nographics.py
index 2240a78..3dc1c89 100644
--- a/Tests/test_KGML_nographics.py
+++ b/Tests/test_KGML_nographics.py
@@ -5,8 +5,7 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-""" Tests for general functionality of the KGML parser and pathway model
-"""
+"""Tests for general functionality of the KGML parser and pathway model."""
# Builtins
from __future__ import with_statement
@@ -19,8 +18,7 @@ from Bio.KEGG.KGML.KGML_parser import read
class PathwayData(object):
- """ Convenience structure for testing pathway data
- """
+ """Convenience structure for testing pathway data."""
def __init__(self, infilename, outfilename, element_counts,
pathway_image, show_pathway_image=False):
self.infilename = infilename
@@ -31,9 +29,12 @@ class PathwayData(object):
class KGMLPathwayTest(unittest.TestCase):
- """ Import the ko01100 metabolic map from a local .xml KGML file, and from
- the KEGG site, and write valid KGML output for each
+ """KGML checks using ko01100 metabolic map.
+
+ Import the ko01100 metabolic map from a local .xml KGML file, and from
+ the KEGG site, and write valid KGML output for each
"""
+
def setUp(self):
# Does our output director exist? If not, create it
if not os.path.isdir('KEGG'):
@@ -75,8 +76,9 @@ class KGMLPathwayTest(unittest.TestCase):
os.remove(p.outfilename)
def test_read_and_write_KGML_files(self):
- """ Read KGML from, and write KGML to, local files.
- Check we read/write the correct number of elements.
+ """Read KGML from, and write KGML to, local files.
+
+ Check we read/write the correct number of elements.
"""
for p in self.data:
# Test opening file
diff --git a/Tests/test_KeyWList.py b/Tests/test_KeyWList.py
index f250826..de2bd9e 100644
--- a/Tests/test_KeyWList.py
+++ b/Tests/test_KeyWList.py
@@ -92,6 +92,7 @@ class KeyWListTest(unittest.TestCase):
handle.close()
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_LogisticRegression.py b/Tests/test_LogisticRegression.py
index 4835b0b..37e0e26 100644
--- a/Tests/test_LogisticRegression.py
+++ b/Tests/test_LogisticRegression.py
@@ -133,6 +133,7 @@ class TestLogisticRegression(unittest.TestCase):
correct += 1
self.assertEqual(correct, 15)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_MafIO_index.py b/Tests/test_MafIO_index.py
new file mode 100644
index 0000000..c32d76c
--- /dev/null
+++ b/Tests/test_MafIO_index.py
@@ -0,0 +1,426 @@
+# Copyright 2012 by Andrew Sczesnak. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+
+"""Unit tests for Bio.AlignIO.MafIO.MafIndex()"""
+
+try:
+ import sqlite3
+except ImportError:
+ # skip most tests if sqlite is not available
+ sqlite3 = None
+
+import os
+import unittest
+import tempfile
+import shutil
+
+from Bio.AlignIO.MafIO import MafIndex
+from Bio import SeqIO
+from Bio.Seq import Seq
+from Bio.SeqRecord import SeqRecord
+
+from seq_tests_common import compare_record
+
+
+class StaticMethodTest(unittest.TestCase):
+ """Test static UCSC binning-related functions"""
+
+ def test_region2bin(self):
+ data = [(25079603, 25079787, set([0, 1, 11, 96, 776])),
+ (25128173, 25128248, set([0, 1, 11, 96, 776])),
+ (50312474, 50312703, set([0, 1, 968, 14, 120])),
+ (41905591, 41906101, set([0, 1, 904, 13, 112])),
+ (16670899, 16673060, set([0, 1, 10, 712, 88])),
+ (75495356, 75495494, set([0, 1, 2, 1160, 144, 17])),
+ (92259501, 92261053, set([0, 1, 2, 1288, 160, 19])),
+ (83834063, 83838132, set([0, 1, 2, 1224, 18, 152])),
+ (7309597, 7310411, set([0, 1, 640, 79, 9])),
+ (6190410, 6190999, set([0, 1, 632, 78, 9]))]
+
+ for x, y, z in data:
+ self.assertEqual(MafIndex._region2bin(x, y), z)
+
+ for x, y, z in data:
+ self.assertRaises(TypeError, MafIndex._region2bin, str(x), str(y))
+
+ def test_ucscbin(self):
+ data = [(25079603, 25079787, 776),
+ (25128173, 25128248, 776),
+ (50312474, 50312703, 968),
+ (41905591, 41906101, 904),
+ (16670899, 16673060, 712),
+ (75495356, 75495494, 1160),
+ (92259501, 92261053, 1288),
+ (83834063, 83838132, 1224),
+ (7309597, 7310411, 640),
+ (6190410, 6190999, 632)]
+
+ for x, y, z in data:
+ self.assertEqual(MafIndex._ucscbin(x, y), z)
+
+ for x, y, z in data:
+ self.assertRaises(TypeError, MafIndex._ucscbin, str(x), str(y))
+
+
+if sqlite3:
+ class PreBuiltIndexTest(unittest.TestCase):
+ """Test loading of prebuilt indices"""
+
+ def test_old(self):
+ idx = MafIndex("MAF/ucsc_mm9_chr10.mafindex",
+ "MAF/ucsc_mm9_chr10.maf", "mm9.chr10")
+ self.assertEqual(len(idx), 48)
+
+ def test_old_wrong_target_seqname(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ "MAF/ucsc_mm9_chr10.mafindex",
+ "MAF/ucsc_mm9_chr10.maf",
+ "mm9.chr11")
+
+ def test_old_wrong_filename(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ "MAF/ucsc_mm9_chr10.mafindex",
+ "MAF/humor.maf",
+ "mm9.chr10")
+
+ def test_old_file_not_found(self):
+ # TODO: Switch to FileNotFoundError once we drop Python 2 support
+ # Under Python 2, we expect IOError.
+ # Under Python 3, we expect FileNotFoundError which is a subclass
+ # of OSError, and that has IOError as an alias so this works.
+ self.assertRaises(IOError,
+ MafIndex,
+ "MAF/ucsc_mm9_chr11.mafindex",
+ "MAF/ucsc_mm9_chr11.maf",
+ "mm9.chr11")
+
+ def test_old_wrong_version(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ "MAF/wrong_version.idx",
+ "MAF/ucsc_mm9_chr10.maf",
+ "mm9.chr10")
+
+ def test_old_unfinished_index(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ "MAF/unfinished.idx",
+ "MAF/ucsc_mm9_chr10.maf",
+ "mm9.chr10")
+
+ def test_old_corrupt_index(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ "MAF/corrupt.idx",
+ "MAF/ucsc_mm9_chr10.maf",
+ "mm9.chr10")
+
+ def test_old_invalid_sqlite(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ "MAF/invalid.idx",
+ "MAF/ucsc_mm9_chr10.maf",
+ "mm9.chr10")
+
+ class NewIndexTest(unittest.TestCase):
+ """Test creation of new indices"""
+
+ def setUp(self):
+ self.tmpdir = tempfile.mkdtemp()
+ self.tmpfile = self.tmpdir + "/database.sqlite3"
+
+ def tearDown(self):
+ if os.path.isdir(self.tmpdir):
+ shutil.rmtree(self.tmpdir)
+
+ def test_good_small(self):
+ idx = MafIndex(self.tmpfile, "MAF/ucsc_mm9_chr10.maf", "mm9.chr10")
+ self.assertEquals(len(idx), 48)
+
+ def test_good_big(self):
+ idx = MafIndex(self.tmpfile, "MAF/ucsc_mm9_chr10_big.maf", "mm9.chr10")
+ self.assertEquals(len(idx), 983)
+
+ def test_bundle_without_target(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ self.tmpfile,
+ "MAF/bundle_without_target.maf",
+ "mm9.chr10")
+
+ def test_length_coords_mismatch(self):
+ self.assertRaises(ValueError,
+ MafIndex,
+ self.tmpfile,
+ "MAF/length_coords_mismatch.maf",
+ "mm9.chr10")
+
+ class TestGetRecord(unittest.TestCase):
+ """Make sure we can seek and fetch records properly"""
+
+ def setUp(self):
+ self.idx = MafIndex("MAF/ucsc_mm9_chr10.mafindex",
+ "MAF/ucsc_mm9_chr10.maf", "mm9.chr10")
+ self.assertEqual(len(self.idx), 48)
+
+ def test_records_begin(self):
+ recs = {}
+
+ recs[0] = SeqRecord(Seq("TCATAGGTATTTATTTTTAAATATGGTTTGCTTTATGGCTAGAA"
+ "CACACCGATTACTTAAAATAGGATTAACC--CCCATACACTTTA"
+ "AAAATGATTAAACAACATTTCTGCTGCTCGCTCACATTCTTCAT"
+ "AGAAGATGACATAATGTATTTTCCTTTTGGTT"),
+ id="mm9.chr10",
+ name="mm9.chr10",
+ description="",
+ annotations={"start": 3009319,
+ "srcSize": 129993255,
+ "strand": 1,
+ "size": 162})
+
+ recs[1] = SeqRecord(Seq("TCACAGATATTTACTATTAAATATGGTTTGTTATATGGTTACGG"
+ "TTCATAGGTTACTTGGAATTGGATTAACCTTCTTATTCATTGCA"
+ "GAATTGGTTACACTGTGTTCTTGACCTTTGCTTGTTTTCTCCAT"
+ "GGAAACTGATGTCAAATACTTTCCCTTTGGTT"),
+ id="oryCun1.scaffold_133159",
+ name="oryCun1.scaffold_133159",
+ description="",
+ annotations={"start": 11087,
+ "srcSize": 13221,
+ "strand": 1,
+ "size": 164})
+
+ fetched_recs = self.idx._get_record(34)
+
+ for i in range(2):
+ self.assertTrue(compare_record(recs[i], fetched_recs[i]))
+
+ def test_records_end(self):
+ recs = {}
+
+ recs[0] = SeqRecord(Seq("TGTTTAGTACC----ATGCTTAGGAATGATAAACTCACTTAGTGtt"),
+ id="mm9.chr10",
+ name="mm9.chr10",
+ description="",
+ annotations={"start": 3021494,
+ "srcSize": 129993255,
+ "strand": 1,
+ "size": 42})
+
+ recs[1] = SeqRecord(Seq("TGTTGCATGTCCTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT"),
+ id="ponAbe2.chr6",
+ name="ponAbe2.chr6",
+ description="",
+ annotations={"start": 16173516,
+ "srcSize": 174210431,
+ "strand": -1,
+ "size": 46})
+
+ recs[2] = SeqRecord(Seq("TGTTGCATATCCTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT"),
+ id="panTro2.chr6",
+ name="panTro2.chr6",
+ description="",
+ annotations={"start": 16393864,
+ "srcSize": 173908612,
+ "strand": -1,
+ "size": 46})
+
+ recs[3] = SeqRecord(Seq("TGTTGCATGTCGTTTATTCTTTGGCGTGATAGGCTCACCCAATCTT"),
+ id="hg18.chr6",
+ name="hg18.chr6",
+ description="",
+ annotations={"start": 15875298,
+ "srcSize": 170899992,
+ "strand": -1,
+ "size": 46})
+
+ recs[4] = SeqRecord(Seq("TGTTAAGTCTCACTTGCTGTTCAAAGTGATAGCTTCACTCCATCAT"),
+ id="canFam2.chr1",
+ name="canFam2.chr1",
+ description="",
+ annotations={"start": 78072287,
+ "srcSize": 125616256,
+ "strand": -1,
+ "size": 46})
+
+ recs[5] = SeqRecord(Seq("TGTTTAAAATG----ATTGCTAGAACTTCTA--CTCACTGGA----"),
+ id="ornAna1.chr2",
+ name="ornAna1.chr2",
+ description="",
+ annotations={"start": 14757144,
+ "srcSize": 54797317,
+ "strand": -1,
+ "size": 36})
+
+ fetched_recs = self.idx._get_record(99228)
+
+ for i in range(6):
+ self.assertTrue(compare_record(recs[i], fetched_recs[i]))
+
+ class TestSearchGoodMAF(unittest.TestCase):
+ """Test index searching on a properly-formatted MAF"""
+
+ def setUp(self):
+ self.idx = MafIndex("MAF/ucsc_mm9_chr10.mafindex",
+ "MAF/ucsc_mm9_chr10.maf", "mm9.chr10")
+ self.assertEqual(len(self.idx), 48)
+
+ def test_invalid_type_1(self):
+ search = self.idx.search((500, 1000), ("string", 1500))
+ self.assertRaises(TypeError, next, search)
+
+ def test_invalid_type_2(self):
+ search = self.idx.search((500, 1000), (750, 1500.25))
+ self.assertRaises(TypeError, next, search)
+
+ def test_invalid_exon_count(self):
+ search = self.idx.search((0, 1000, 2000), (500, 1500))
+ self.assertRaises(ValueError, next, search)
+
+ def test_invalid_exon_schema(self):
+ search = self.idx.search((0, 1000, 2000), (250, 500, 2500))
+ self.assertRaises(ValueError, next, search)
+
+ def test_correct_retrieval_1(self):
+ search = self.idx.search((3014742, 3018161), (3015028, 3018644))
+ results = [x for x in search]
+
+ self.assertEqual(len(results), 12)
+
+ self.assertEqual(set([len(x) for x in results]),
+ set([5, 10, 7, 6, 3, 1, 1, 1, 2, 4, 4, 9]))
+
+ self.assertEqual(set([x.annotations["start"] for y in results
+ for x in y]),
+ set([3018359, 16390338, 15871771, 184712,
+ 16169512, 16169976, 3014842, 1371, 7842,
+ 171548, 16389874, 15871306, 6404, 184317,
+ 14750994, 3015028, 1616, 8040, 171763,
+ 16169731, 6627, 184539, 3014689, 15870832,
+ 16389401, 6228, 184148, 1201, 3018230,
+ 15871676, 16390243, 3014778, 3018482, 3017743,
+ 3018644, 78070420, 3014742, 6283, 184202,
+ 1257, 3018161, 16390178, 15871611, 16169818,
+ 3014795, 184257, 6365, 15871286, 16389854,
+ 16169492, 171521, 7816, 1309]))
+
+ def test_correct_retrieval_2(self):
+ search = self.idx.search((3009319, 3021421), (3012566, 3021536))
+ results = [x for x in search]
+
+ self.assertEqual(len(results), 8)
+
+ self.assertEqual(set([len(x) for x in results]),
+ set([14, 5, 2, 6, 7, 15, 6, 4]))
+
+ self.assertEqual(set([x.annotations["start"] for y in results
+ for x in y]),
+ set([3021421, 9910, 996, 16173434, 16393782,
+ 15875216, 11047, 175213, 3552, 677, 78072203,
+ 3590, 95587, 14757054, 3012441, 15860899,
+ 16379447, 16160646, 180525, 3009319, 11087,
+ 3012566, 15861013, 16379561, 16160760, 180626,
+ 310, 3021465, 9957, 16173483, 16393831,
+ 15875265, 78072243, 14757099, 3021275, 9741,
+ 838, 16173265, 16393613, 15875047, 10878,
+ 175057, 3382, 521, 78072035, 73556, 3422,
+ 95418, 14756885, 3021494, 16173516, 16393864,
+ 15875298, 78072287, 14757144, 3012076,
+ 16160203, 16379004, 15860456]))
+
+ def test_correct_retrieval_3(self):
+ search = self.idx.search((3012076, 3012076 + 300), (3012076 + 100, 3012076 + 400))
+ results = [x for x in search]
+
+ self.assertEqual(len(results), 2)
+
+ self.assertEqual(set([len(x) for x in results]),
+ set([4, 5]))
+
+ # Code formatting note:
+ # Expected start coordinates are grouped by alignment blocks
+ self.assertEqual(
+ set([x.annotations["start"] for y in results for x in y]),
+ set([
+ 3012076, 16160203, 16379004, 15860456,
+ 3012441, 15860899, 16379447, 16160646, 180525]))
+
+ class TestSearchBadMAF(unittest.TestCase):
+ """Test index searching on an incorrectly-formatted MAF"""
+
+ def setUp(self):
+ self.idx = MafIndex("MAF/ucsc_mm9_chr10_bad.mafindex",
+ "MAF/ucsc_mm9_chr10_bad.maf", "mm9.chr10")
+ self.assertEqual(len(self.idx), 48)
+
+ def test_incorrect_bundle_coords(self):
+ search = self.idx.search((3013219,), (3013319,))
+ self.assertRaises(ValueError, next, search)
+
+ class TestSpliceGoodMAF(unittest.TestCase):
+ """Test in silico splicing on a correctly-formatted MAF"""
+
+ def setUp(self):
+ self.idx = MafIndex("MAF/ucsc_mm9_chr10_big.mafindex",
+ "MAF/ucsc_mm9_chr10_big.maf", "mm9.chr10")
+ self.assertEqual(len(self.idx), 983)
+
+ def test_invalid_strand(self):
+ self.assertRaises(ValueError,
+ self.idx.get_spliced,
+ (0, 1000), (500, 1500), ".")
+
+ def test_no_alignment(self):
+ result = self.idx.get_spliced((0, 1000), (500, 1500), 1)
+
+ self.assertEqual(len(result), 1)
+ self.assertEqual(len(result[0].seq), 1000)
+ self.assertEqual(str(result[0].seq), "N" * 1000)
+
+ def test_correct_retrieval_1(self):
+ """Correct retrieval of Cnksr3 in mouse.
+
+ This is the real thing. We're pulling the spliced alignment of
+ an actual gene (Cnksr3) in mouse. It should perfectly match the
+ spliced transcript pulled independently from UCSC.
+ """
+ result = self.idx.get_spliced((3134303, 3185733, 3192055, 3193589,
+ 3203538, 3206102, 3208126, 3211424,
+ 3211872, 3217393, 3219697, 3220356,
+ 3225954),
+ (3134909, 3185897, 3192258, 3193677,
+ 3203580, 3206222, 3208186, 3211493,
+ 3212019, 3217518, 3219906, 3220446,
+ 3227479), 1)
+
+ cnksr3 = str(SeqIO.read("MAF/cnksr3.fa", "fasta").seq).upper()
+ mm9_seq = "".join([str(x.seq) for x in result
+ if x.id.startswith("mm9")]).replace("-", "")
+
+ self.assertEqual(mm9_seq, cnksr3)
+
+ class TestSpliceBadMAF(unittest.TestCase):
+ """Test in silico splicing on an incorrectly-formatted MAF"""
+
+ def setUp(self):
+ self.idx = MafIndex("MAF/ucsc_mm9_chr10_bad.mafindex",
+ "MAF/ucsc_mm9_chr10_bad.maf", "mm9.chr10")
+ self.assertEqual(len(self.idx), 48)
+
+ def test_inconsistent_strand(self):
+ self.assertRaises(ValueError,
+ self.idx.get_spliced,
+ (0, 3021421), (1000, 3022000), 1)
+
+ def test_bundle_without_target(self):
+ self.assertRaises(ValueError,
+ self.idx.get_spliced,
+ (3009319,), (3009900,), 1)
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_Mafft_tool.py b/Tests/test_Mafft_tool.py
index a591ffd..bba66c1 100644
--- a/Tests/test_Mafft_tool.py
+++ b/Tests/test_Mafft_tool.py
@@ -1,13 +1,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""
-Unittests for Bio.Align.Applications interface for MAFFT
-
-This code is part of the Biopython distribution and governed by its
-license. Please see the LICENSE file that should have been included
-as part of this package.
-"""
+"""Unittests for Bio.Align.Applications interface for MAFFT."""
import sys
import os
@@ -61,6 +55,7 @@ def check_mafft_version(mafft_exe):
return (major, version)
raise MissingExternalDependencyError("Couldn't determine MAFFT version.")
+
# This also checks it actually runs!
version_major, version_string = check_mafft_version(mafft_exe)
@@ -75,9 +70,7 @@ class MafftApplication(unittest.TestCase):
os.remove("Fasta/f002.tree")
def test_Mafft_simple(self):
- """Simple round-trip through app with infile.
- Result passed to stdout.
- """
+ """Simple round-trip through app with infile, result passed to stdout."""
# Use a keyword argument at init,
cmdline = MafftCommandline(mafft_exe, input=self.infile1)
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
@@ -87,12 +80,10 @@ class MafftApplication(unittest.TestCase):
# became "Progressive alignment 1/2..." and "Progressive alignment 2/2..."
self.assertTrue(("Progressive alignment ..." in stderrdata) or
("Progressive alignment 1/" in stderrdata), stderrdata)
- self.assertTrue("$#=0" not in stderrdata)
+ self.assertNotIn("$#=0", stderrdata)
def test_Mafft_with_options(self):
- """Simple round-trip through app with infile and options.
- Result passed to stdout.
- """
+ """Simple round-trip through app with infile and options, result passed to stdout."""
cmdline = MafftCommandline(mafft_exe)
cmdline.set_parameter("input", self.infile1)
cmdline.set_parameter("maxiterate", 100)
@@ -100,10 +91,10 @@ class MafftApplication(unittest.TestCase):
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
stdoutdata, stderrdata = cmdline()
self.assertTrue(stdoutdata.startswith(">gi|1348912|gb|G26680|G26680"))
- self.assertTrue("$#=0" not in stderrdata)
+ self.assertNotIn("$#=0", stderrdata)
def test_Mafft_with_Clustalw_output(self):
- """Simple round-trip through app with clustal output"""
+ """Simple round-trip through app with clustal output."""
cmdline = MafftCommandline(mafft_exe)
# Use some properties:
cmdline.input = self.infile1
@@ -113,11 +104,11 @@ class MafftApplication(unittest.TestCase):
# e.g. "CLUSTAL format alignment by MAFFT ..."
# or "CLUSTAL (-like) formatted alignment by MAFFT FFT-NS-2 (v6.240)"
self.assertTrue(stdoutdata.startswith("CLUSTAL"), stdoutdata)
- self.assertTrue("$#=0" not in stderrdata)
+ self.assertNotIn("$#=0", stderrdata)
if version_major >= 7:
def test_Mafft_with_PHYLIP_output(self):
- """Simple round-trip through app with PHYLIP output"""
+ """Simple round-trip through app with PHYLIP output."""
cmdline = MafftCommandline(mafft_exe, input=self.infile1,
phylipout=True)
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
@@ -130,10 +121,10 @@ class MafftApplication(unittest.TestCase):
stdoutdata)
self.assertTrue("gi|1348912|gb|G26680|G26680" not in stdoutdata,
stdoutdata)
- self.assertTrue("$#=0" not in stderrdata)
+ self.assertNotIn("$#=0", stderrdata)
def test_Mafft_with_PHYLIP_namelength(self):
- """Check PHYLIP with --namelength"""
+ """Check PHYLIP with --namelength."""
cmdline = MafftCommandline(mafft_exe, input=self.infile1,
phylipout=True, namelength=50)
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
@@ -144,7 +135,7 @@ class MafftApplication(unittest.TestCase):
stdoutdata.startswith(" 3 70"), stdoutdata)
self.assertTrue("gi|1348912|gb|G26680|G26680" in stdoutdata,
stdoutdata)
- self.assertTrue("$#=0" not in stderrdata)
+ self.assertNotIn("$#=0", stderrdata)
def test_Mafft_with_complex_command_line(self):
"""Round-trip with complex command line."""
@@ -170,7 +161,7 @@ class MafftApplication(unittest.TestCase):
" --nuc Fasta/f002")
stdoutdata, stderrdata = cmdline()
self.assertTrue(stdoutdata.startswith(">gi|1348912|gb|G26680|G26680"))
- self.assertTrue("$#=0" not in stderrdata)
+ self.assertNotIn("$#=0", stderrdata)
if __name__ == "__main__":
diff --git a/Tests/test_MarkovModel.py b/Tests/test_MarkovModel.py
index 2618b2a..e04252c 100644
--- a/Tests/test_MarkovModel.py
+++ b/Tests/test_MarkovModel.py
@@ -1,19 +1,30 @@
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
+# Copyright 2002 by Jeffrey Chang. All rights reserved.
+# Revisions copyright 2008 by Brad Chapman. All rights reserved.
+# Revisions copyright 2008 by Michiel de Hoon. All rights reserved.
+# Revisions copyright 2008-2010,2013-2014 by Peter Cock. All rights reserved.
+# Revisions copyright 2012 by Christian Brueffer. All rights reserved.
+# Revisions copyright 2017 by Maximilian Greil. All rights reserved.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+
+import warnings
+import unittest
+
+from Bio._py3k import StringIO
try:
from numpy import array
from numpy import random # missing in PyPy's micronumpy
+ from numpy import array_equal
+ from numpy import around
+ from numpy import log
except ImportError:
from Bio import MissingPythonDependencyError
raise MissingPythonDependencyError(
"Install NumPy if you want to use Bio.MarkovModel.")
-import unittest
-
-import warnings
-
with warnings.catch_warnings():
# Silence this warning:
# For optimal speed, please update to Numpy version 1.3 or later
@@ -234,6 +245,246 @@ class TestMarkovModel(unittest.TestCase):
state_list, state_float = states[0]
self.assertEqual(state_list, ["N"])
+ def test_readline_and_check_start(self):
+ states = "NR"
+ alphabet = "AGTC"
+ markov_model = MarkovModel.MarkovModel(states, alphabet)
+
+ line = "This is a \n string with two lines \n"
+ handle = StringIO(line)
+ start = "This is a \n"
+ self.assertEqual(
+ start, MarkovModel._readline_and_check_start(handle, start))
+
+ def test_save_and_load(self):
+ states = "NR"
+ alphabet = "AGTC"
+ p_initial = array([1.0, 0.0])
+ p_transition = array([[0.75, 0.25], [0.25, 0.75]])
+ p_emission = array(
+ [[0.45, 0.36, 0.06, 0.13], [0.24, 0.18, 0.12, 0.46]])
+ markov_model_save = MarkovModel.MarkovModel(
+ states,
+ alphabet,
+ p_initial,
+ p_transition,
+ p_emission)
+
+ handle = StringIO()
+ MarkovModel.save(markov_model_save, handle)
+ handle.seek(0)
+ markov_model_load = MarkovModel.load(handle)
+
+ self.assertEqual(''.join(markov_model_load.states), states)
+ self.assertEqual(''.join(markov_model_load.alphabet), alphabet)
+ self.assertTrue(array_equal(markov_model_load.p_initial, p_initial))
+ self.assertTrue(array_equal
+ (markov_model_load.p_transition, p_transition))
+ self.assertTrue(array_equal(markov_model_load.p_emission, p_emission))
+
+ def test_train_bw(self):
+ random.seed(0)
+ states = ["0", "1", "2", "3"]
+ alphabet = ["A", "C", "G", "T"]
+ training_data = ["AACCCGGGTTTTTTT", "ACCGTTTTTTT",
+ "ACGGGTTTTTT", "ACCGTTTTTTTT"]
+
+ output_p_initial = array([0.2275677, 0.29655611,
+ 0.24993822, 0.22593797])
+ output_p_transition = array(
+ [[5.16919807e-001, 3.65825814e-033, 4.83080193e-001, 9.23220689e-042],
+ [3.65130247e-001,
+ 1.00000000e-300,
+ 6.34869753e-001,
+ 1.00000000e-300],
+ [8.68776164e-001,
+ 1.02254304e-034,
+ 1.31223836e-001,
+ 6.21835051e-047],
+ [3.33333333e-301, 3.33333333e-001, 3.33333333e-301, 6.66666667e-001]])
+ output_p_emission = array(
+ [[2.02593570e-301, 2.02593570e-301, 2.02593570e-301, 1.00000000e+000],
+ [1.00000000e-300,
+ 1.00000000e-300,
+ 1.00000000e+000,
+ 1.09629016e-259],
+ [3.26369779e-301,
+ 3.26369779e-301,
+ 3.26369779e-301,
+ 1.00000000e+000],
+ [3.33333333e-001, 6.66666667e-001, 3.33333333e-301, 3.33333333e-301]])
+
+ markov_model = MarkovModel.train_bw(states, alphabet, training_data)
+ self.assertEqual(''.join(markov_model.states), ''.join(states))
+ self.assertEqual(''.join(markov_model.alphabet), ''.join(alphabet))
+ self.assertTrue(array_equal(
+ around(markov_model.p_initial, decimals=3),
+ around(output_p_initial, decimals=3)))
+ self.assertTrue(array_equal(around(
+ markov_model.p_transition, decimals=3),
+ around(output_p_transition, decimals=3)))
+ self.assertTrue(array_equal(around(
+ markov_model.p_emission, decimals=3),
+ around(output_p_emission, decimals=3)))
+
+ def test_forward(self):
+ states = ["CP", "IP"]
+ outputs = [2, 1, 0]
+ lp_initial = log([1.0, 0.0000001])
+ lp_transition = log([[0.7, 0.3], [0.5, 0.5]])
+ lp_emission = log([[0.6, 0.1, 0.3], [0.1, 0.7, 0.2]])
+
+ matrix = array([[0., -1.5606477, -3.07477539, -3.84932984],
+ [-16.11809565, -2.4079455, -3.27544608, -4.5847794]])
+ self.assertTrue(
+ array_equal(around(MarkovModel._forward(len(states), len(outputs),
+ lp_initial,
+ lp_transition,
+ lp_emission,
+ outputs), decimals=3),
+ around(matrix, decimals=3)))
+
+ def test_backward(self):
+ states = ["CP", "IP"]
+ outputs = [2, 1, 0]
+ lp_transition = log([[0.7, 0.3], [0.5, 0.5]])
+ lp_emission = log([[0.6, 0.1, 0.3], [0.1, 0.7, 0.2]])
+
+ matrix = array([[-3.45776773, -3.10109279, -0.51082562, 0.],
+ [-3.54045945, -1.40649707, -2.30258509, 0.]])
+ self.assertTrue(
+ array_equal(around(MarkovModel._backward(
+ len(states), len(outputs), lp_transition, lp_emission, outputs), decimals=3),
+ around(matrix, decimals=3)))
+
+ def test_mle(self):
+ states = ["0", "1", "2", "3"]
+ alphabet = ["A", "C", "G", "T"]
+ training_data = [("AACCCGGGTTTTTTT", "001112223333333"),
+ ("ACCGTTTTTTT", "01123333333"),
+ ("ACGGGTTTTTT", "01222333333"),
+ ("ACCGTTTTTTTT", "011233333333"), ]
+ training_outputs = array([[0, 0, 1, 1, 1, 2, 2, 2, 3, 3, 3, 3, 3, 3, 3], [
+ 0, 1, 1, 2, 3, 3, 3, 3, 3, 3, 3], [0, 1, 2, 2, 2, 3, 3, 3, 3, 3, 3], [0, 1, 1, 2, 3, 3, 3, 3, 3, 3, 3, 3]])
+ training_states = array([[0, 0, 1, 1, 1, 2, 2, 2, 3, 3, 3, 3, 3, 3, 3], [
+ 0, 1, 1, 2, 3, 3, 3, 3, 3, 3, 3], [0, 1, 2, 2, 2, 3, 3, 3, 3, 3, 3], [0, 1, 1, 2, 3, 3, 3, 3, 3, 3, 3, 3]])
+
+ p_initial = array([1., 0., 0., 0.])
+ p_transition = array([[0.2, 0.8, 0., 0.],
+ [0., 0.5, 0.5, 0.],
+ [0., 0., 0.5, 0.5],
+ [0., 0., 0., 1.]])
+ p_emission = array(
+ [[0.66666667, 0.11111111, 0.11111111, 0.11111111],
+ [0.08333333, 0.75, 0.08333333, 0.08333333],
+ [0.08333333, 0.08333333, 0.75, 0.08333333],
+ [0.03125, 0.03125, 0.03125, 0.90625]])
+ p_initial_out, p_transition_out, p_emission_out = MarkovModel._mle(
+ len(states), len(alphabet), training_outputs, training_states, None, None, None)
+ self.assertTrue(
+ array_equal(around(p_initial_out, decimals=3), around(p_initial, decimals=3)))
+ self.assertTrue(
+ array_equal(around(p_transition_out, decimals=3), around(p_transition, decimals=3)))
+ self.assertTrue(
+ array_equal(around(p_emission_out, decimals=3), around(p_emission, decimals=3)))
+
+ def test_argmaxes(self):
+ matrix = array([[4, 5, 6], [9, 7, 8], [1, 2, 3]])
+ output = [3]
+ self.assertEqual(len(MarkovModel._argmaxes(matrix)), len(output))
+ self.assertEqual(MarkovModel._argmaxes(matrix)[0], output[0])
+
+ def test_viterbi(self):
+ states = ["CP", "IP"]
+ outputs = [2, 1, 0]
+ lp_initial = log([1.0, 0.0000001])
+ lp_transition = log([[0.7, 0.3], [0.5, 0.5]])
+ lp_emission = log([[0.6, 0.1, 0.3], [0.1, 0.7, 0.2]])
+
+ output1 = [0, 1, 0]
+ output2 = -3.968593356916541
+
+ viterbi_output = MarkovModel._viterbi(
+ len(states), lp_initial, lp_transition,
+ lp_emission, outputs)
+ self.assertEqual(len(viterbi_output[0][0]), 3)
+ self.assertEqual(viterbi_output[0][0][0], output1[0])
+ self.assertEqual(viterbi_output[0][0][1], output1[1])
+ self.assertEqual(viterbi_output[0][0][2], output1[2])
+ self.assertEqual(
+ float('%.3f' % viterbi_output[0][1]),
+ float('%.3f' % output2))
+
+ def test_normalize_and_copy_and_check(self):
+ matrix_in1 = array(
+ [[1.1, 2.2, 3.3], [4.4, 5.5, 6.6], [7.7, 8.8, 9.9]])
+ matrix_in2 = array([1, 2, 3])
+
+ matrix_out1 = array(
+ [[0.16666667, 0.33333333, 0.5], [0.26666667, 0.33333333, 0.4], [0.29166667, 0.33333333, 0.375]])
+ matrix_out2 = array([0.16666667, 0.33333333, 0.5])
+ self.assertTrue(
+ array_equal(around(MarkovModel._normalize(matrix_in1), decimals=3), around(matrix_out1, decimals=3)))
+ self.assertTrue(
+ array_equal(around(MarkovModel._normalize(matrix_in2), decimals=3), around(matrix_out2, decimals=3)))
+
+ shape1 = (3, 3)
+ shape2 = (3,)
+ self.assertTrue(
+ array_equal(around(MarkovModel._copy_and_check(matrix_out1, shape1), decimals=3), around(matrix_out1, decimals=3)))
+ self.assertTrue(
+ array_equal(around(MarkovModel._copy_and_check(matrix_out2, shape2), decimals=3), around(matrix_out2, decimals=3)))
+
+ def test_uniform_norm(self):
+ shape = (4, 3)
+ matrix = array([[0.33333333, 0.33333333, 0.33333333],
+ [0.33333333, 0.33333333, 0.33333333],
+ [0.33333333, 0.33333333, 0.33333333],
+ [0.33333333, 0.33333333, 0.33333333]])
+ self.assertTrue(
+ array_equal(around(MarkovModel._uniform_norm(shape), decimals=3), around(matrix, decimals=3)))
+
+ def test_random_norm(self):
+ random.seed(0)
+ shape = (4, 3)
+ matrix = array([[0.29399155, 0.38311672, 0.32289173],
+ [0.33750765, 0.26241723, 0.40007512],
+ [0.1908342, 0.38890714, 0.42025866],
+ [0.22501625, 0.46461061, 0.31037314]])
+ self.assertTrue(
+ array_equal(around(MarkovModel._random_norm(shape), decimals=3), around(matrix, decimals=3)))
+
+ def test_logsum_and_exp_logsum(self):
+ matrix = array(
+ [[1.1, 2.2, 3.3], [4.4, 5.5, 6.6], [7.7, 8.8, 9.9]])
+ matrix1 = array([1, 2, 3])
+
+ output = 10.304721798
+ output1 = 3.40760596444
+ self.assertEqual(
+ float('%.3f' % MarkovModel._logsum(matrix)),
+ float('%.3f' % output))
+ self.assertEqual(
+ float('%.3f' % MarkovModel._logsum(matrix1)),
+ float('%.3f' % output1))
+
+ output2 = 29873.342245
+ output3 = 30.1928748506
+ self.assertEqual(
+ float('%.3f' % MarkovModel._exp_logsum(matrix)),
+ float('%.3f' % output2))
+ self.assertEqual(
+ float('%.3f' % MarkovModel._exp_logsum(matrix1)),
+ float('%.3f' % output3))
+
+ def test_logvecadd(self):
+ vec1 = log(array([1, 2, 3, 4]))
+ vec2 = log(array([5, 6, 7, 8]))
+
+ sumvec = array([1.79175947, 2.07944154, 2.30258509, 2.48490665])
+ self.assertTrue(
+ array_equal(around(MarkovModel._logvecadd(vec1, vec2), decimals=3), around(sumvec, decimals=3)))
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_Muscle_tool.py b/Tests/test_Muscle_tool.py
index 23548ce..af7624f 100644
--- a/Tests/test_Muscle_tool.py
+++ b/Tests/test_Muscle_tool.py
@@ -94,7 +94,7 @@ class MuscleApplication(unittest.TestCase):
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
output, error = cmdline()
self.assertEqual(output, "")
- self.assertTrue("ERROR" not in error)
+ self.assertNotIn("ERROR", error)
def test_Muscle_with_options(self):
"""Round-trip through app with a switch and valued option"""
@@ -111,7 +111,7 @@ class MuscleApplication(unittest.TestCase):
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
output, error = cmdline()
self.assertEqual(output, "")
- self.assertTrue("ERROR" not in error)
+ self.assertNotIn("ERROR", error)
self.assertTrue(error.strip().startswith("MUSCLE"), output)
def test_Muscle_profile_simple(self):
@@ -127,7 +127,7 @@ class MuscleApplication(unittest.TestCase):
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
output, error = cmdline()
self.assertEqual(output, "")
- self.assertTrue("ERROR" not in error)
+ self.assertNotIn("ERROR", error)
self.assertTrue(error.strip().startswith("MUSCLE"), output)
def test_Muscle_profile_with_options(self):
@@ -149,7 +149,7 @@ class MuscleApplication(unittest.TestCase):
#NOTE: generic_run has been removed from Biopython
self.assertEqual(result.return_code, 0)
self.assertEqual(stdout.read(), "")
- self.assertTrue("ERROR" not in stderr.read())
+ self.assertNotIn("ERROR", stderr.read())
self.assertEqual(str(result._cl), str(cmdline))
"""
@@ -367,6 +367,7 @@ class SimpleAlignTest(unittest.TestCase):
os.remove(output_html)
os.remove(output_clwstrict)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_NCBITextParser.py b/Tests/test_NCBITextParser.py
index bce8a83..2ae8251 100644
--- a/Tests/test_NCBITextParser.py
+++ b/Tests/test_NCBITextParser.py
@@ -14971,7 +14971,7 @@ class TestNCBITextParser(unittest.TestCase):
self.assertEqual(len(record.alignments), 1)
self.assertEqual(len(record.alignments[0].hsps), 3)
h = record.alignments[0].hsps[0]
- self.assertTrue("PTSP" + ("-" * 79) + "AYSP" in h.query)
+ self.assertIn("PTSP" + ("-" * 79) + "AYSP", h.query)
h = record.alignments[0].hsps[1]
self.assertTrue(h.query.startswith("AYSPTSPAYSPTSPAYSPTSPAYSPTSPAYS----------PTSPAYSPTSPAYSPTSPA"))
h = record.alignments[0].hsps[2]
diff --git a/Tests/test_NCBI_BLAST_tools.py b/Tests/test_NCBI_BLAST_tools.py
index a90d102..b0a4de1 100644
--- a/Tests/test_NCBI_BLAST_tools.py
+++ b/Tests/test_NCBI_BLAST_tools.py
@@ -253,9 +253,6 @@ class CheckCompleteArgList(unittest.TestCase):
if exe_name in ["blastx", "tblastn"]:
# Removed in BLAST 2.2.27+ so will look like extra arg on new BLAST
extra = extra.difference(["-frame_shift_penalty"])
- if exe_name == "rpsblast":
- # New in BLAST 2.2.28+ so will look like extra args on old BLAST:
- extra = extra.difference(["-comp_based_stats", "-use_sw_tback"])
if exe_name in ["blastn", "blastp", "blastx", "tblastn", "tblastx",
"psiblast", "rpstblastn", "rpsblast"]:
# New in BLAST 2.2.29+ so will look like extra args on old BLAST:
@@ -266,6 +263,9 @@ class CheckCompleteArgList(unittest.TestCase):
# Removed in BLAST 2.2.30 so will look like extra args on new BLAST
# Apparently -word_size should never have been added to these tools.
extra = extra.difference(["-word_size"])
+ # New in BLAST 2.2.28+ (for rpsblast) and BLAST 2.6+ (for rpstblastn)
+ # so will look like extra args on old BLAST:
+ extra = extra.difference(["-comp_based_stats", "-use_sw_tback"])
if exe_name == "deltablast":
# New in BLAST+ 2.2.29 so will look like extra args on BLAST+ 2.2.28
extra = extra.difference(["-entrez_query", "-max_hsps", "-sum_statistics"])
diff --git a/Tests/test_NCBI_qblast.py b/Tests/test_NCBI_qblast.py
index 35ff12b..a890010 100644
--- a/Tests/test_NCBI_qblast.py
+++ b/Tests/test_NCBI_qblast.py
@@ -9,8 +9,9 @@ Uses Bio.Blast.NCBIWWW.qblast() to run some online blast queries, get XML
blast results back, and then checks Bio.Blast.NCBIXML.parse() can read them.
Goals:
- Make sure that all retrieval is working as expected.
- Make sure we can parse the latest XML format being used by the NCBI.
+ - Make sure that all retrieval is working as expected.
+ - Make sure we can parse the latest XML format being used by the NCBI.
+
"""
from __future__ import print_function
import unittest
@@ -43,9 +44,10 @@ print("Checking Bio.Blast.NCBIWWW.qblast() with various queries")
class TestQblast(unittest.TestCase):
def test_blastp_nr_actin(self):
- # Simple protein blast filtered for rat only, using protein GI:160837788
+ # Simple protein blast filtered for rat only, using protein
+ # GI:160837788 aka NP_075631.2
# the actin related protein 2/3 complex, subunit 1B [Mus musculus]
- self.run_qblast("blastp", "nr", "160837788", 0.001,
+ self.run_qblast("blastp", "nr", "NP_075631.2", 0.001,
"rat [ORGN]", ['9506405', '13592137', '37589612', '149064087', '56912225'])
def test_pcr_primers(self):
@@ -103,8 +105,8 @@ class TestQblast(unittest.TestCase):
pass
else:
# We used an identifier as the query
- self.assertTrue(query in record.query_id.split("|"),
- "Expected %r within query_id %r" % (query, record.query_id))
+ self.assertIn(query, record.query_id.split("|"),
+ "Expected %r within query_id %r" % (query, record.query_id))
# Check the recorded input parameters agree with those requested
self.assertEqual(float(record.expect), e_value)
diff --git a/Tests/test_NNExclusiveOr.py b/Tests/test_NNExclusiveOr.py
index 506e95e..196b72e 100644
--- a/Tests/test_NNExclusiveOr.py
+++ b/Tests/test_NNExclusiveOr.py
@@ -3,12 +3,16 @@
This is a very basic test of Neural Network functionality.
"""
-# Neural Network code we'll be using
from __future__ import print_function
-from Bio.NeuralNetwork.Training import TrainingExample
-from Bio.NeuralNetwork.BackPropagation import Layer
-from Bio.NeuralNetwork.BackPropagation.Network import BasicNetwork
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ # Neural Network code we'll be using
+ from Bio.NeuralNetwork.Training import TrainingExample
+ from Bio.NeuralNetwork.BackPropagation import Layer
+ from Bio.NeuralNetwork.BackPropagation.Network import BasicNetwork
VERBOSE = 0
@@ -59,4 +63,5 @@ def stopping_criteria(num_iterations, validation_error, training_error):
return True
return False
+
main()
diff --git a/Tests/test_NNGene.py b/Tests/test_NNGene.py
index bc9b3b4..c3748f3 100644
--- a/Tests/test_NNGene.py
+++ b/Tests/test_NNGene.py
@@ -20,11 +20,15 @@ from Bio import SeqIO
from Bio.Seq import Seq
from Bio.Alphabet import IUPAC
-# stuff we are testing
-from Bio.NeuralNetwork.Gene import Schema
-from Bio.NeuralNetwork.Gene import Motif
-from Bio.NeuralNetwork.Gene import Signature
-from Bio.NeuralNetwork.Gene import Pattern
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ # stuff we are testing
+ from Bio.NeuralNetwork.Gene import Schema
+ from Bio.NeuralNetwork.Gene import Motif
+ from Bio.NeuralNetwork.Gene import Signature
+ from Bio.NeuralNetwork.Gene import Pattern
VERBOSE = 0
@@ -102,7 +106,7 @@ class PatternIOTest(unittest.TestCase):
raise AssertionError("Did not report error on bad alphabet.")
except ValueError:
pass # expected behavior
- except:
+ except Exception:
raise AssertionError("Got unexpected error while reading.")
input_handle.close()
@@ -152,7 +156,7 @@ class PatternRepositoryTest(unittest.TestCase):
% (len(patterns), num_patterns))
for pattern in patterns:
- self.assertTrue(pattern in list(self.motifs.keys()),
+ self.assertIn(pattern, list(self.motifs.keys()),
"Got unexpected pattern %s" % pattern)
def test_get_top_percentage(self):
@@ -165,7 +169,7 @@ class PatternRepositoryTest(unittest.TestCase):
% (len(patterns), num_patterns))
for pattern in patterns:
- self.assertTrue(pattern in list(self.motifs.keys()),
+ self.assertIn(pattern, list(self.motifs.keys()),
"Got unexpected pattern %s" % pattern)
def test_get_top(self):
@@ -178,7 +182,7 @@ class PatternRepositoryTest(unittest.TestCase):
% (len(patterns), num_patterns))
for pattern in patterns:
- self.assertTrue(pattern in list(self.motifs.keys()),
+ self.assertIn(pattern, list(self.motifs.keys()),
"Got unexpected pattern %s" % pattern)
def test_get_differing(self):
@@ -649,6 +653,7 @@ class SignatureCoderTest(unittest.TestCase):
"Non-expected representation %s for %s, wanted %s"
% (predicted, seq_string, expected))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_NNGeneral.py b/Tests/test_NNGeneral.py
index 07ab0f2..76bb95b 100644
--- a/Tests/test_NNGeneral.py
+++ b/Tests/test_NNGeneral.py
@@ -8,9 +8,13 @@ libraries.
import random
import unittest
-# local stuff
-from Bio.NeuralNetwork.Training import TrainingExample, ExampleManager
-from Bio.NeuralNetwork.StopTraining import ValidationIncreaseStop
+import warnings
+from Bio import BiopythonDeprecationWarning
+with warnings.catch_warnings():
+ warnings.simplefilter('ignore', BiopythonDeprecationWarning)
+ # local stuff
+ from Bio.NeuralNetwork.Training import TrainingExample, ExampleManager
+ from Bio.NeuralNetwork.StopTraining import ValidationIncreaseStop
class StopTrainingTest(unittest.TestCase):
@@ -92,6 +96,7 @@ class ExampleManagerTest(unittest.TestCase):
assert len(manager.validation_examples) == self.num_examples, \
"Did not partition correctly to validation_examples."
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_NaiveBayes.py b/Tests/test_NaiveBayes.py
index 3835100..93ce85e 100644
--- a/Tests/test_NaiveBayes.py
+++ b/Tests/test_NaiveBayes.py
@@ -8,6 +8,16 @@ except ImportError:
from Bio import MissingPythonDependencyError
raise MissingPythonDependencyError(
"Install NumPy if you want to use Bio.NaiveBayes.")
+try:
+ hash(numpy.float64(123.456))
+except TypeError:
+ # Due to a bug in NumPy 1.12.1, this is unhashable under
+ # PyPy3.5 v5.7 beta - it has been fixed in NumPy
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Please update NumPy if you want to use Bio.NaiveBayes "
+ "(under this version numpy.float64 is unhashable).")
+del numpy
from Bio import NaiveBayes
diff --git a/Tests/test_Nexus.py b/Tests/test_Nexus.py
index 46c5430..8053e91 100755
--- a/Tests/test_Nexus.py
+++ b/Tests/test_Nexus.py
@@ -1,10 +1,12 @@
# Copyright 2005 by Iddo Friedberg. All rights reserved.
-# Revisions copyright 2006-2013 by Peter Cock. All rights reserved.
+# Revisions copyright 2006-2013,2017 by Peter Cock. All rights reserved.
# Revisions copyright 2008 by Frank Kauff. All rights reserved.
# Revisions copyright 2009 by Michiel de Hoon. All rights reserved.
+# Revisions copyright 2015 by Joe Cora. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
+from __future__ import print_function
import os.path
import unittest
@@ -12,7 +14,8 @@ import tempfile
import sys
from Bio._py3k import StringIO
from Bio._py3k import range
-
+from Bio.Align import MultipleSeqAlignment
+from Bio.AlignIO.NexusIO import NexusIterator, NexusWriter
from Bio.SeqRecord import SeqRecord
from Bio.Nexus import Nexus, Trees
from Bio.Seq import Seq
@@ -20,11 +23,49 @@ from Bio.Alphabet.IUPAC import ambiguous_dna
from Bio import SeqIO
+class OldSelfTests(unittest.TestCase):
+ """Test cases originally in Nexus.py via __main__"""
+
+ def test_trees_and_taxa_block(self):
+ """Basic tree file with TREES and TAXA block"""
+ nexus1 = Nexus.Nexus()
+ nexus1.read('Nexus/bats.nex')
+
+ def test_data_and_codons_block(self):
+ """Simple sequence data file with DATA and CODONS block"""
+ nexus2 = Nexus.Nexus()
+ nexus2.read('Nexus/codonposset.nex')
+
+ def test_data_sets_trees_unknown_block(self):
+ """Sequence data file with DATA, SETS, TREES and an unknown block"""
+ nexus3 = Nexus.Nexus()
+ nexus3.read('Nexus/test_Nexus_input.nex')
+
+ def test_taxa_and_characters_block(self):
+ """Taxa and characters multi-state block"""
+ nexus4 = Nexus.Nexus()
+ nexus4.read('Nexus/vSysLab_Ganaspidium_multistate.nex')
+
+ def test_taxa_and_characters_with_many_codings_one_without_state(self):
+ """Taxa and chr blocks, over 9 codings, 1 character without states"""
+ nexus5 = Nexus.Nexus()
+ nexus5.read('Nexus/vSysLab_Heptascelio_no-states_10+chars.nex')
+
+ def test_taxa_and_characters_with_many_codings_two_without_state(self):
+ """Taxa and chr blocks, over 9 codings, 2 character without states"""
+ nexus6 = Nexus.Nexus()
+ # TODO: Implement continuous datatype:
+ # Bio.Nexus.Nexus.NexusError: Unsupported datatype: continuous
+ self.assertRaises(Nexus.NexusError,
+ nexus6.read,
+ 'Nexus/vSysLab_Oreiscelio_discrete+continuous.nex')
+
+
class NexusTest1(unittest.TestCase):
def setUp(self):
self.testfile_dir = "Nexus"
self.handle = open(os.path.join(self.testfile_dir,
- "test_Nexus_input.nex"))
+ "test_Nexus_input.nex"))
def tearDown(self):
self.handle.close()
@@ -120,8 +161,8 @@ class NexusTest1(unittest.TestCase):
't2 the name'],
})
self.assertEqual(len(n.charpartitions), 2)
- self.assertTrue('codons' in n.charpartitions)
- self.assertTrue('part' in n.charpartitions)
+ self.assertIn('codons', n.charpartitions)
+ self.assertIn('part', n.charpartitions)
self.assertEqual(n.charpartitions['codons'],
{'a': [0, 3, 6, 9, 12, 15, 18, 21, 24, 27, 30, 33, 36, 39, 42, 45],
'b': [1, 4, 7, 10, 13, 16, 19, 22, 25, 28, 31, 34, 37, 40, 43, 46],
@@ -199,8 +240,8 @@ class NexusTest1(unittest.TestCase):
'tbyname3': ['t2 the name'],
})
self.assertEqual(len(nf1.charpartitions), 2)
- self.assertTrue('codons' in nf1.charpartitions)
- self.assertTrue('part' in nf1.charpartitions)
+ self.assertIn('codons', nf1.charpartitions)
+ self.assertIn('part', nf1.charpartitions)
self.assertEqual(nf1.charpartitions['codons'], {'a': [0, 3],
'b': [2],
'c': [1]})
@@ -290,8 +331,8 @@ class NexusTest1(unittest.TestCase):
"tbyname3": ['t1',
't2 the name']})
self.assertEqual(len(nf2.charpartitions), 2)
- self.assertTrue('codons' in nf2.charpartitions)
- self.assertTrue('part' in nf2.charpartitions)
+ self.assertIn('codons', nf2.charpartitions)
+ self.assertIn('part', nf2.charpartitions)
self.assertEqual(nf2.charpartitions['codons'],
{"a": [0, 5, 7, 9, 14, 16, 18, 23, 25, 27, 32, 35],
"b": [1, 3, 8, 10, 12, 17, 19, 21, 26, 28, 30, 33, 36],
@@ -320,7 +361,7 @@ usertype matrix_test stepmatrix=5
[T] 2.43 2.12 2.31 . 2.14
[-] 2.43 2.14 2.31 2.14 .
;
-""") # noqa for pep8 W291 trailing whitespace
+""") # noqa : W291
def test_TreeTest1(self):
"""Test Tree module."""
@@ -413,6 +454,106 @@ Root: 16
cur_nodes = new_nodes
return nodedata
+ def test_NexusComments(self):
+ """Test the ability to parse nexus comments at internal and leaf nodes
+ """
+ # A tree with simple comments throughout the tree.
+ ts1b = "((12:0.13,19[&comment1]:0.13)[&comment2]:0.1,(20:0.171,11:0.171):0.13)[&comment3];"
+ tree = Trees.Tree(ts1b)
+ self.assertEqual(self._get_flat_nodes(tree), [(None, 0.0, None, '[&comment3]'),
+ (None, 0.1, None, '[&comment2]'),
+ (None, 0.13, None, None), ('12', 0.13, None, None),
+ ('19', 0.13, None, '[&comment1]'),
+ ('20', 0.171, None, None),
+ ('11', 0.171, None, None)])
+
+ # A tree with more complex comments throughout the tree.
+ # This is typical of the MCC trees produced by `treeannotator` in the beast-mcmc suite of phylogenetic tools
+ # The key difference being tested here is the ability to parse internal node comments that include ','.
+ ts1b = "(((9[&rate_range={1.3E-5,0.10958320752991428},height_95%_HPD={0.309132419999969,0.3091324199999691},length_range={3.513906814545109E-4,0.4381986285528381},height_median=0.309132419999969,length_95%_HPD={0.003011577063374571,0.08041621647998398}]:0.055354097721950546,5[&rate_range={1.3E-5,0.10958320752991428},height_95%_HPD={0.309132419999969,0.3091324199999691},length_range={3.865051168833178E-5,0.4391594442572986},height_median=0.309132419999969,length_95%_HPD={0.0030115 [...]
+ tree = Trees.Tree(ts1b)
+ self.assertEqual(self._get_flat_nodes(tree),
+ [(None, 0.0, None, '[&height_95%_HPD={0.7527502510685965,0.821862094763501},height_median=0.8014438411766163,height=0.795965080422763,posterior=1.0,height_range={0.49863013698599995,0.821862094763501},length=0.0]'),
+ (None, 0.23042678598484334, None, '[&height_95%_HPD={0.5289500597932948,0.6973881165460601},length_range={0.02586430194846201,0.29509451958008265},length_95%_HPD={0.0840287249314221,0.2411078625957056}]'),
+ (None, 0.20039426358269385, None, '[&height_95%_HPD={0.3110921040545068,0.38690865205576275},length_range={0.09675588357303178,0.4332959544380489},length_95%_HPD={0.16680375169879613,0.36500804261814374}]'),
+ ('9', 0.055354097721950546, None, '[&rate_range={1.3E-5,0.10958320752991428},height_95%_HPD={0.309132419999969,0.3091324199999691},length_range={3.513906814545109E-4,0.4381986285528381},height_median=0.309132419999969,length_95%_HPD={0.003011577063374571,0.08041621647998398}]'),
+ ('5', 0.055354097721950546, None, '[&rate_range={1.3E-5,0.10958320752991428},height_95%_HPD={0.309132419999969,0.3091324199999691},length_range={3.865051168833178E-5,0.4391594442572986},height_median=0.309132419999969,length_95%_HPD={0.003011577063374571,0.08041621647998398}]')])
+
+
+class TestSelf(unittest.TestCase):
+ def test_repeated_names_no_taxa(self):
+ print("Repeated names without a TAXA block")
+ handle = StringIO("""#NEXUS
+ [TITLE: NoName]
+ begin data;
+ dimensions ntax=4 nchar=50;
+ format interleave datatype=protein gap=- symbols="FSTNKEYVQMCLAWPHDRIG";
+ matrix
+ CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ----
+ ALEU_HORVU MAHARVLLLA LAVLATAAVA VASSSSFADS NPIRPVTDRA ASTLESAVLG
+ CATH_HUMAN ------MWAT LPLLCAGAWL LGV------- -PVCGAAELS VNSLEK----
+ CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ---X
+ ;
+ end;
+ """) # noqa : W291
+ for a in NexusIterator(handle):
+ print(a)
+ for r in a:
+ print("%r %s %s" % (r.seq, r.name, r.id))
+ print("Done")
+
+ def test_repeated_names_with_taxa(self):
+
+ print("Repeated names with a TAXA block")
+ handle = StringIO("""#NEXUS
+ [TITLE: NoName]
+ begin taxa
+ CYS1_DICDI
+ ALEU_HORVU
+ CATH_HUMAN
+ CYS1_DICDI;
+ end;
+ begin data;
+ dimensions ntax=4 nchar=50;
+ format interleave datatype=protein gap=- symbols="FSTNKEYVQMCLAWPHDRIG";
+ matrix
+ CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ----
+ ALEU_HORVU MAHARVLLLA LAVLATAAVA VASSSSFADS NPIRPVTDRA ASTLESAVLG
+ CATH_HUMAN ------MWAT LPLLCAGAWL LGV------- -PVCGAAELS VNSLEK----
+ CYS1_DICDI -----MKVIL LFVLAVFTVF VSS------- --------RG IPPEEQ---X
+ ;
+ end;
+ """) # noqa : W291
+ for a in NexusIterator(handle):
+ print(a)
+ for r in a:
+ print("%r %s %s" % (r.seq, r.name, r.id))
+ print("Done")
+
+ def test_empty_file_read(self):
+ self.assertEqual([], list(NexusIterator(StringIO())))
+
+ def test_multiple_output(self):
+ records = [SeqRecord(Seq("ATGCTGCTGAT", alphabet=ambiguous_dna), id="foo"),
+ SeqRecord(Seq("ATGCTGCAGAT", alphabet=ambiguous_dna), id="bar"),
+ SeqRecord(Seq("ATGCTGCGGAT", alphabet=ambiguous_dna), id="baz")]
+ a = MultipleSeqAlignment(records, alphabet=ambiguous_dna)
+
+ handle = StringIO()
+ NexusWriter(handle).write_file([a])
+ handle.seek(0)
+ data = handle.read()
+ self.assertTrue(data.startswith("#NEXUS\nbegin data;\n"), data)
+ self.assertTrue(data.endswith("end;\n"), data)
+
+ handle = StringIO()
+ try:
+ NexusWriter(handle).write_file([a, a])
+ assert False, "Should have rejected more than one alignment!"
+ except ValueError:
+ pass
+
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_PAML_baseml.py b/Tests/test_PAML_baseml.py
index 7519b98..bbb4460 100644
--- a/Tests/test_PAML_baseml.py
+++ b/Tests/test_PAML_baseml.py
@@ -87,13 +87,6 @@ class ModTest(unittest.TestCase):
self.assertRaises((AttributeError, TypeError, OSError),
self.bml.run)
- def testOutputFileValid(self):
- self.bml.tree = self.tree_file
- self.bml.alignment = self.align_file
- self.bml.out_file = list()
- self.assertRaises((AttributeError, ValueError, OSError),
- self.bml.run)
-
def testOptionExists(self):
self.assertRaises((AttributeError, KeyError),
self.bml.set_options, xxxx=1)
@@ -214,21 +207,21 @@ class ModTest(unittest.TestCase):
# There are 6 top-levels: parameters, tree, lnL, version,
# tree length and lnL max
self.assertEqual(len(results), 6, version_msg)
- self.assertTrue("parameters" in results, version_msg)
+ self.assertIn("parameters", results, version_msg)
params = results["parameters"]
- self.assertTrue("alpha" in params, version_msg)
- self.assertTrue("rates" in params, version_msg)
- self.assertTrue("parameter list" in params, version_msg)
- self.assertTrue("rate frequencies" in params, version_msg)
+ self.assertIn("alpha", params, version_msg)
+ self.assertIn("rates", params, version_msg)
+ self.assertIn("parameter list", params, version_msg)
+ self.assertIn("rate frequencies", params, version_msg)
if model in ["1", "3", "4", "5", "6"]:
- self.assertTrue("kappa" in params, version_msg)
+ self.assertIn("kappa", params, version_msg)
if model in ["7", "8"]:
- self.assertTrue("base frequencies" in params, version_msg)
- self.assertTrue("rate parameters" in params, version_msg)
- self.assertTrue("Q matrix" in params, version_msg)
+ self.assertIn("base frequencies", params, version_msg)
+ self.assertIn("rate parameters", params, version_msg)
+ self.assertIn("Q matrix", params, version_msg)
qmat = params["Q matrix"]
self.assertEqual(len(qmat), 2, version_msg)
- self.assertTrue("matrix" in qmat)
+ self.assertIn("matrix", qmat)
matrix = qmat["matrix"]
self.assertEqual(len(matrix), 4, version_msg)
self.assertEqual(len(matrix[0]), 4, version_msg)
@@ -248,10 +241,10 @@ class ModTest(unittest.TestCase):
# There are 6 top-levels: parameters, tree, lnL, version,
# tree length and lnL max
self.assertEqual(len(results), 6, version_msg)
- self.assertTrue("parameters" in results, version_msg)
+ self.assertIn("parameters", results, version_msg)
params = results["parameters"]
- self.assertTrue("rho" in params, version_msg)
- self.assertTrue("transition probs." in params, version_msg)
+ self.assertIn("rho", params, version_msg)
+ self.assertIn("transition probs.", params, version_msg)
trans_p = params["transition probs."]
self.assertEqual(len(trans_p), 5, version_msg)
self.assertEqual(len(trans_p[0]), 5, version_msg)
@@ -268,12 +261,12 @@ class ModTest(unittest.TestCase):
# There are 6 top-levels: parameters, tree, lnL, version,
# tree length and lnL max
self.assertEqual(len(results), 6, version_msg)
- self.assertTrue("parameters" in results, version_msg)
+ self.assertIn("parameters", results, version_msg)
params = results["parameters"]
if n == "1":
- self.assertTrue("base frequencies" in params, version_msg)
+ self.assertIn("base frequencies", params, version_msg)
else:
- self.assertTrue("nodes" in params)
+ self.assertIn("nodes", params)
nodes = params["nodes"]
self.assertEqual(len(nodes), 8, version_msg)
self.assertEqual(len(nodes[1]), 2, version_msg)
@@ -289,9 +282,9 @@ class ModTest(unittest.TestCase):
# There are 6 top-levels: parameters, tree, lnL, version,
# tree length and lnL max
self.assertEqual(len(results), 6, version_msg)
- self.assertTrue("parameters" in results, version_msg)
+ self.assertIn("parameters", results, version_msg)
params = results["parameters"]
- self.assertTrue("SEs" in params, version_msg)
+ self.assertIn("SEs", params, version_msg)
if __name__ == "__main__":
diff --git a/Tests/test_PAML_codeml.py b/Tests/test_PAML_codeml.py
index c7cec38..9d8470f 100644
--- a/Tests/test_PAML_codeml.py
+++ b/Tests/test_PAML_codeml.py
@@ -6,6 +6,8 @@
import unittest
import os
import os.path
+import itertools
+
from Bio.Phylo.PAML import codeml
from Bio.Phylo.PAML._paml import PamlError
@@ -95,13 +97,6 @@ class ModTest(unittest.TestCase):
self.assertRaises((AttributeError, TypeError, OSError),
self.cml.run)
- def testOutputFileValid(self):
- self.cml.tree = self.tree_file
- self.cml.alignment = self.align_file
- self.cml.out_file = list()
- self.assertRaises((AttributeError, ValueError, OSError),
- self.cml.run)
-
def testOptionExists(self):
self.assertRaises((AttributeError, KeyError),
self.cml.set_options, xxxx=1)
@@ -217,18 +212,18 @@ class ModTest(unittest.TestCase):
results_path = os.path.join(res_dir, results_file)
results = codeml.read(results_path)
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
models = results["NSsites"]
# Only site class model 0 was simulated
self.assertEqual(len(models), 1, version_msg)
- self.assertTrue(0 in models, version_msg)
+ self.assertIn(0, models, version_msg)
model = models[0]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
# There should be one new item in the parameters, "SEs"
self.assertEqual(len(params), SITECLASS_PARAMS[0] + 1, version_msg)
- self.assertTrue("SEs" in params, version_msg)
+ self.assertIn("SEs", params, version_msg)
def testParseAllNSsites(self):
res_dir = os.path.join(self.results_dir, "codeml", "all_NSsites")
@@ -241,7 +236,7 @@ class ModTest(unittest.TestCase):
# There should be 4 top-level items: 'codon model', 'model',
# 'version', & 'NSsites'
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
# There should be 6 NSsites classes: 0, 1, 2, 3, 7 & 8
self.assertEqual(len(results["NSsites"]), 6, version_msg)
# Each site class model should have 5 sub-items: 'lnL', 'tree',
@@ -250,11 +245,11 @@ class ModTest(unittest.TestCase):
for model_num in [0, 1, 2, 3, 7, 8]:
model = results["NSsites"][model_num]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
self.assertEqual(len(params), SITECLASS_PARAMS[model_num],
version_msg)
- self.assertTrue("branches" in params, version_msg)
+ self.assertIn("branches", params, version_msg)
branches = params["branches"]
# There are 7 branches in the test case (specific to these
# test cases)
@@ -275,10 +270,10 @@ class ModTest(unittest.TestCase):
# 'version', 'NSsites' & site-class model, the last of which
# is only there when only one NSsites class is used
self.assertEqual(len(results), 5, version_msg)
- self.assertTrue('site-class model' in results, version_msg)
+ self.assertIn('site-class model', results, version_msg)
self.assertEqual(results['site-class model'], 'discrete',
version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
# There should be 1 NSsites classe: 3
self.assertEqual(len(results["NSsites"]), 1, version_msg)
# Each site class model should have 5 sub-items: 'lnL', 'tree',
@@ -286,11 +281,11 @@ class ModTest(unittest.TestCase):
# have the correct number of parameters also.
model = results["NSsites"][3]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
self.assertEqual(len(params), SITECLASS_PARAMS[3],
version)
- self.assertTrue("site classes" in params, version_msg)
+ self.assertIn("site classes", params, version_msg)
site_classes = params["site classes"]
self.assertEqual(len(site_classes), 4, version_msg)
@@ -305,27 +300,27 @@ class ModTest(unittest.TestCase):
# There are 5 top-level items in this case:
# 'codon model', 'model', 'version', 'NSsites' & 'site-class model'
self.assertEqual(len(results), 5, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
models = results["NSsites"]
# Only site class model 2 is simulated for Branch Site A
self.assertEqual(len(models), 1, version_msg)
- self.assertTrue(2 in models, version_msg)
+ self.assertIn(2, models, version_msg)
model = models[2]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
# Branch Site A results lack a "branches" parameter
self.assertEqual(len(params), SITECLASS_PARAMS[2] - 1, version_msg)
- self.assertTrue("site classes" in params, version_msg)
+ self.assertIn("site classes", params, version_msg)
site_classes = params["site classes"]
# Branch Site A adds another site class
self.assertEqual(len(site_classes), SITECLASSES[2] + 1,
version)
for class_num in [0, 1, 2, 3]:
- self.assertTrue(class_num in site_classes, version_msg)
+ self.assertIn(class_num, site_classes, version_msg)
site_class = site_classes[class_num]
self.assertEqual(len(site_class), 2, version_msg)
- self.assertTrue("branch types" in site_class, version_msg)
+ self.assertIn("branch types", site_class, version_msg)
branches = site_class["branch types"]
self.assertEqual(len(branches), 2, version_msg)
@@ -340,26 +335,26 @@ class ModTest(unittest.TestCase):
results = codeml.read(results_path)
# 5 top-level items again in this case
self.assertEqual(len(results), 5, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
models = results["NSsites"]
# Only site class model 2 is simulated for Clade Model C
self.assertEqual(len(models), 1, version_msg)
- self.assertTrue(2 in models, version_msg)
+ self.assertIn(2, models, version_msg)
model = models[2]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
# Clade Model C results lack a "branches" parameter
self.assertEqual(len(params), SITECLASS_PARAMS[2] - 1, version_msg)
- self.assertTrue("site classes" in params, version_msg)
+ self.assertIn("site classes", params, version_msg)
site_classes = params["site classes"]
self.assertEqual(len(site_classes), SITECLASSES[2],
version)
for class_num in [0, 1, 2]:
- self.assertTrue(class_num in site_classes, version_msg)
+ self.assertIn(class_num, site_classes, version_msg)
site_class = site_classes[class_num]
self.assertEqual(len(site_class), 2, version_msg)
- self.assertTrue("branch types" in site_class, version_msg)
+ self.assertIn("branch types", site_class, version_msg)
branches = site_class["branch types"]
self.assertEqual(len(branches), 2, version_msg)
@@ -372,17 +367,17 @@ class ModTest(unittest.TestCase):
results_path = os.path.join(res_dir, results_file)
results = codeml.read(results_path)
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
models = results["NSsites"]
self.assertEqual(len(models), 1, version_msg)
- self.assertTrue(0 in models, version_msg)
+ self.assertIn(0, models, version_msg)
model = models[0]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
# This type of model has fewer parameters for model 0
self.assertEqual(len(params), 4, version_msg)
- self.assertTrue("rates" in params, version_msg)
+ self.assertIn("rates", params, version_msg)
rates = params["rates"]
self.assertEqual(len(rates), 2, version_msg)
@@ -395,12 +390,12 @@ class ModTest(unittest.TestCase):
results_path = os.path.join(res_dir, results_file)
results = codeml.read(results_path)
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("genes" in results, version_msg)
+ self.assertIn("genes", results, version_msg)
genes = results["genes"]
self.assertEqual(len(genes), 2, version_msg)
model = genes[0]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
self.assertEqual(len(params), SITECLASS_PARAMS[0], version_msg)
@@ -413,20 +408,20 @@ class ModTest(unittest.TestCase):
results_path = os.path.join(res_dir, results_file)
results = codeml.read(results_path)
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
models = results["NSsites"]
self.assertEqual(len(models), 1, version_msg)
- self.assertTrue(0 in models, version_msg)
+ self.assertIn(0, models, version_msg)
model = models[0]
self.assertEqual(len(model), 5, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
# This type of model has fewer parameters for model 0
self.assertEqual(len(params), 3, version_msg)
- self.assertTrue("rates" in params, version_msg)
+ self.assertIn("rates", params, version_msg)
rates = params["rates"]
self.assertEqual(len(rates), 2, version_msg)
- self.assertTrue("genes" in params, version_msg)
+ self.assertIn("genes", params, version_msg)
genes = params["genes"]
self.assertEqual(len(genes), 2, version_msg)
@@ -439,22 +434,22 @@ class ModTest(unittest.TestCase):
results_path = os.path.join(res_dir, results_file)
results = codeml.read(results_path)
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("NSsites" in results, version_msg)
+ self.assertIn("NSsites", results, version_msg)
models = results["NSsites"]
self.assertEqual(len(models), 1, version_msg)
- self.assertTrue(0 in models, version_msg)
+ self.assertIn(0, models, version_msg)
model = models[0]
# With the free ratio model, you get 3 extra trees: dN tree,
# dS tree and omega tree
self.assertEqual(len(model), 8, version_msg)
- self.assertTrue("parameters" in model, version_msg)
+ self.assertIn("parameters", model, version_msg)
params = model["parameters"]
self.assertEqual(len(params), SITECLASS_PARAMS[0], version_msg)
- self.assertTrue("branches" in params, version_msg)
+ self.assertIn("branches", params, version_msg)
# There should be 7 branches
branches = params["branches"]
self.assertEqual(len(branches), 7, version_msg)
- self.assertTrue("omega" in params, version_msg)
+ self.assertIn("omega", params, version_msg)
omega = params["omega"]
self.assertEqual(len(omega), 7, version_msg)
@@ -468,9 +463,41 @@ class ModTest(unittest.TestCase):
results = codeml.read(results_path)
# Pairwise models have an extra top-level item: pairwise
self.assertEqual(len(results), 5, version_msg)
- self.assertTrue("pairwise" in results, version_msg)
+ self.assertIn("pairwise", results, version_msg)
pairwise = results["pairwise"]
- self.assertEqual(len(pairwise), 5, version_msg)
+ self.assertGreaterEqual(len(pairwise), 2, version_msg +
+ ": should have at least two sequences")
+ for seq1, seq2 in itertools.combinations(pairwise.keys(), 2):
+ self.assertEqual(len(pairwise[seq1][seq2]), 7, version_msg +
+ ": wrong number of parameters parsed")
+ self.assertEqual(len(pairwise[seq2][seq1]), 7, version_msg +
+ ": wrong number of parameters parsed")
+
+ def testParseSitesParamsForPairwise(self):
+ """Verify that pairwise site estimates are indeed parsed. Fixes #483"""
+ res_dir = os.path.join(self.results_dir, "codeml", "pairwise")
+ for results_file in os.listdir(res_dir):
+ version = results_file.split('-')[1].split('.')[0]
+ version_msg = "Improper parsing for version %s" \
+ % version.replace('_', '.')
+ results_path = os.path.join(res_dir, results_file)
+ results = codeml.read(results_path)
+ self.assertIn("pairwise", results)
+ seqs = list(results["pairwise"].keys())
+ self.assertGreaterEqual(len(seqs), 2, version_msg +
+ ": should have at least two sequences")
+ for seq1, seq2 in itertools.combinations(seqs, 2):
+ params = results["pairwise"][seq1][seq2]
+ self.assertEqual(len(params), 7,
+ version_msg + ": wrong number of parsed parameters" +
+ " for %s-%s" % (seq1, seq2))
+ for param in ("t", "S", "N", "omega", "dN", "dS", "lnL"):
+ self.assertTrue(param in params, version_msg +
+ ": '%s' not in parsed parameters"
+ % (param))
+ self.assertTrue(isinstance(params[param], float))
+ if param != "lnL":
+ self.assertTrue(params[param] >= 0)
def testParseAA(self):
res_dir = os.path.join(self.results_dir, "codeml", "aa_model0")
@@ -485,11 +512,11 @@ class ModTest(unittest.TestCase):
# Version 4.1 doesn't seem to produce distances in the results
if version == "4_1":
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("lnL max" in results, version_msg)
+ self.assertIn("lnL max", results, version_msg)
else:
self.assertEqual(len(results), 5, version_msg)
- self.assertTrue("lnL max" in results, version_msg)
- self.assertTrue("distances" in results, version_msg)
+ self.assertIn("lnL max", results, version_msg)
+ self.assertIn("distances", results, version_msg)
distances = results["distances"]
# non-pairwise AA analysis only gives raw distances
self.assertEqual(len(distances), 1, version_msg)
@@ -504,23 +531,25 @@ class ModTest(unittest.TestCase):
results = codeml.read(results_path)
# Pairwise AA analysis has one top-level fewer than non-pairwise
self.assertEqual(len(results), 4, version_msg)
- self.assertTrue("lnL max" in results, version_msg)
- self.assertTrue("distances" in results, version_msg)
+ self.assertIn("lnL max", results, version_msg)
+ self.assertIn("distances", results, version_msg)
distances = results["distances"]
# Pairwise AA analysis has ML & raw distances
self.assertEqual(len(distances), 2, version_msg)
def testTreeParseVersatility(self):
- """Test finding trees in the results, in response to bug #453, where
- trees like (A, (B, C)); weren't being caught"""
+ """Test finding trees in the results.
+
+ In response to bug #453, where trees like (A, (B, C)); weren't being caught.
+ """
res_file = os.path.join(self.results_dir, "codeml",
"tree_regexp_versatility.out")
results = codeml.read(res_file)
- self.assertTrue("NSsites" in results)
+ self.assertIn("NSsites", results)
nssites = results["NSsites"]
- self.assertTrue(0 in nssites)
+ self.assertIn(0, nssites)
m0 = nssites[0]
- self.assertTrue("tree" in m0)
+ self.assertIn("tree", m0)
self.assertTrue(m0["tree"] is not None)
self.assertNotEqual(len(m0["tree"]), 0)
@@ -532,8 +561,8 @@ class ModTest(unittest.TestCase):
% version.replace('_', '.')
results_path = os.path.join(res_dir, results_file)
results = codeml.read(results_path)
- self.assertTrue("NSsites" in results)
- self.assertTrue(22 in results["NSsites"])
+ self.assertIn("NSsites", results)
+ self.assertIn(22, results["NSsites"])
model = results["NSsites"][22]
self.assertEqual(len(model), 5, version_msg)
params = model["parameters"]
diff --git a/Tests/test_PAML_tools.py b/Tests/test_PAML_tools.py
index 0d3059a..e0b1b03 100644
--- a/Tests/test_PAML_tools.py
+++ b/Tests/test_PAML_tools.py
@@ -41,6 +41,7 @@ def which(program):
return exe_file
return None
+
# Find the PAML binaries
if sys.platform == "win32":
binaries = ["codeml.exe", "baseml.exe", "yn00.exe"]
@@ -72,9 +73,7 @@ class CodemlTest(Common):
self.cml = codeml.Codeml()
def testCodemlBinary(self):
- """Test that the codeml binary runs and generates correct output
- and is the correct version.
- """
+ """codeml runs, generates correct output, and is the correct version."""
ctl_file = os.path.join("PAML", "Control_files", "codeml", "codeml.ctl")
self.cml.read_ctl_file(ctl_file)
self.cml.alignment = os.path.join("PAML", "Alignments", "alignment.phylip")
@@ -83,7 +82,7 @@ class CodemlTest(Common):
self.cml.working_dir = os.path.join("PAML", "codeml_test")
results = self.cml.run()
self.assertTrue(results["version"] > "4.0")
- self.assertTrue("NSsites" in results)
+ self.assertIn("NSsites", results)
self.assertEqual(len(results["NSsites"]), 1)
self.assertEqual(len(results["NSsites"][0]), 5)
@@ -95,9 +94,7 @@ class BasemlTest(Common):
self.bml = baseml.Baseml()
def testBasemlBinary(self):
- """Test that the baseml binary runs and generates correct output
- and is the correct version.
- """
+ """baseml runs, generates correct output, and is the correct version."""
ctl_file = os.path.join("PAML", "Control_files", "baseml", "baseml.ctl")
self.bml.read_ctl_file(ctl_file)
self.bml.alignment = os.path.join("PAML", "Alignments", "alignment.phylip")
@@ -106,7 +103,7 @@ class BasemlTest(Common):
self.bml.working_dir = os.path.join("PAML", "baseml_test")
results = self.bml.run()
self.assertTrue(results["version"] > "4.0")
- self.assertTrue("parameters" in results)
+ self.assertIn("parameters", results)
self.assertEqual(len(results["parameters"]), 5)
@@ -117,7 +114,8 @@ class Yn00Test(Common):
self.yn = yn00.Yn00()
def testYn00Binary(self):
- """Test that the yn00 binary runs and generates correct output.
+ """yn00 binary runs and generates correct output.
+
yn00 output does not specify the version number.
"""
ctl_file = os.path.join("PAML", "Control_files", "yn00", "yn00.ctl")
diff --git a/Tests/test_PAML_yn00.py b/Tests/test_PAML_yn00.py
index 9ef6030..5d94b87 100644
--- a/Tests/test_PAML_yn00.py
+++ b/Tests/test_PAML_yn00.py
@@ -8,6 +8,7 @@ import os
import os.path
from Bio.Phylo.PAML import yn00
from Bio.Phylo.PAML._paml import PamlError
+import glob
class ModTest(unittest.TestCase):
@@ -63,12 +64,6 @@ class ModTest(unittest.TestCase):
self.assertRaises((AttributeError, TypeError, OSError),
self.yn00.run)
- def testOutputFileValid(self):
- self.yn00.alignment = self.align_file
- self.yn00.out_file = list()
- self.assertRaises((AttributeError, ValueError, OSError),
- self.yn00.run)
-
def testOptionExists(self):
self.assertRaises((AttributeError, KeyError),
self.yn00.set_options, xxxx=1)
@@ -134,14 +129,24 @@ class ModTest(unittest.TestCase):
self.assertRaises(ValueError, yn00.read, self.results_file)
def testParseAllVersions(self):
- folder = os.path.join(self.results_dir, "yn00")
- for results_file in os.listdir(folder):
- file_path = os.path.join(folder, results_file)
- results = yn00.read(file_path)
+ pattern = os.path.join(self.results_dir, "yn00", 'yn00-*')
+ for results_file in glob.glob(pattern):
+ results = yn00.read(results_file)
self.assertEqual(len(results), 5)
self.assertEqual(len(results["Homo_sapie"]), 4)
- self.assertEqual(len(results["Homo_sapie"]["Pan_troglo"]),
- 5)
+ self.assertEqual(len(results["Homo_sapie"]["Pan_troglo"]), 5)
+
+ def testParseLongNames(self):
+ pattern = os.path.join(self.results_dir, "yn00", 'yn00_long-*')
+ for results_file in glob.glob(pattern):
+ results = yn00.read(results_file)
+ # Expect seven taxa...
+ self.assertEqual(len(results), 7)
+ # ...each of which is compared to the other six.
+ self.assertEqual(set([len(v) for v in results.values()]), set([6]))
+ # ...each of which has five measures.
+ self.assertEqual(set([len(v) for taxa in results.values() for v in taxa.values()]), set([5]))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_PDB.py b/Tests/test_PDB.py
index 8b5b5c1..147ae3c 100644
--- a/Tests/test_PDB.py
+++ b/Tests/test_PDB.py
@@ -12,6 +12,7 @@
"""Unit tests for the Bio.PDB module."""
from __future__ import print_function
+from copy import deepcopy
import os
import sys
import tempfile
@@ -24,6 +25,7 @@ try:
from numpy import dot # Missing on old PyPy's micronumpy
del dot
from numpy.linalg import svd, det # Missing in PyPy 2.0 numpypy
+ from numpy.random import random
except ImportError:
from Bio import MissingPythonDependencyError
raise MissingPythonDependencyError(
@@ -35,11 +37,12 @@ from Bio.Alphabet import generic_protein
from Bio.PDB import PDBParser, PPBuilder, CaPPBuilder, PDBIO, Select
from Bio.PDB import HSExposureCA, HSExposureCB, ExposureCN
from Bio.PDB.PDBExceptions import PDBConstructionException, PDBConstructionWarning
-from Bio.PDB import rotmat, Vector
+from Bio.PDB import rotmat, Vector, refmat, calc_angle, calc_dihedral, rotaxis, m2rotaxis
from Bio.PDB import Residue, Atom
from Bio.PDB import make_dssp_dict
from Bio.PDB import DSSP
from Bio.PDB.NACCESS import process_asa_data, process_rsa_data
+from Bio.PDB.ResidueDepth import _get_atom_radius
# NB: the 'A_' prefix ensures this test case is run first
@@ -49,6 +52,7 @@ class A_ExceptionTest(unittest.TestCase):
These tests must be executed because of the way Python's warnings module
works -- a warning is only logged the first time it is encountered.
"""
+
def test_1_warnings(self):
"""Check warnings: Parse a flawed PDB file in permissive mode."""
with warnings.catch_warnings(record=True) as w:
@@ -76,7 +80,7 @@ class A_ExceptionTest(unittest.TestCase):
"Residue (' ', 81, ' ') redefined at line 646.",
'Atom O defined twice in residue <Residue HOH het=W resseq=67 icode= > at line 822.'
]):
- self.assertTrue(msg in str(wrn), str(wrn))
+ self.assertIn(msg, str(wrn))
def test_2_strict(self):
"""Check error: Parse a flawed PDB file in strict mode."""
@@ -425,9 +429,9 @@ class ParseTest(unittest.TestCase):
self.assertEqual(len(chain), 1)
self.assertEqual(" ".join(residue.resname for residue in chain), "PCA")
self.assertEqual(" ".join(atom.name for atom in chain.get_atoms()),
- "N CA CB CG CD OE C O CA ")
+ "N CA CB CG DA OE C O CA ")
self.assertEqual(" ".join(atom.element for atom in chain.get_atoms()),
- "N C C C C O C O CA")
+ "N C C C D O C O CA")
# Second model
model = structure[1]
self.assertEqual(model.id, 1)
@@ -508,7 +512,7 @@ class ParseTest(unittest.TestCase):
"N C C O C C C N C N N N C C O C S")
def test_pdbio_write_truncated(self):
- """Test parsing of truncated lines"""
+ """Test parsing of truncated lines."""
io = PDBIO()
struct = self.structure
# Write to temp file
@@ -520,11 +524,18 @@ class ParseTest(unittest.TestCase):
# Check if there are lines besides 'ATOM', 'TER' and 'END'
with open(filename, 'rU') as handle:
record_set = set(l[0:6] for l in handle)
- record_set -= set(('ATOM ', 'HETATM', 'MODEL ', 'ENDMDL', 'TER\n', 'END\n'))
+ record_set -= set(('ATOM ', 'HETATM', 'MODEL ', 'ENDMDL', 'TER\n', 'TER ', 'END\n', 'END '))
self.assertEqual(record_set, set())
finally:
os.remove(filename)
+ def test_deepcopy_of_structure_with_disorder(self):
+ """Test deepcopy of a structure with disordered atoms.
+
+ Shouldn't cause recursion.
+ """
+ _ = deepcopy(self.structure)
+
class ParseReal(unittest.TestCase):
"""Testing with real PDB files."""
@@ -696,7 +707,7 @@ class ParseReal(unittest.TestCase):
self.assertEqual(model.serial_num, model.id + 1)
def confirm_single_end(fname):
- """Ensure there is only one END statement in multi-model files"""
+ """Ensure there is only one END statement in multi-model files."""
with open(fname) as handle:
end_stment = []
for iline, line in enumerate(handle):
@@ -724,6 +735,7 @@ class ParseReal(unittest.TestCase):
class WriteTest(unittest.TestCase):
+
def setUp(self):
with warnings.catch_warnings():
warnings.simplefilter("ignore", PDBConstructionWarning)
@@ -731,7 +743,7 @@ class WriteTest(unittest.TestCase):
self.structure = self.parser.get_structure("example", "PDB/1A8O.pdb")
def test_pdbio_write_structure(self):
- """Write a full structure using PDBIO"""
+ """Write a full structure using PDBIO."""
io = PDBIO()
struct1 = self.structure
# Write full model to temp file
@@ -765,7 +777,7 @@ class WriteTest(unittest.TestCase):
os.remove(filename)
def test_pdbio_write_custom_residue(self):
- """Write a chainless residue using PDBIO"""
+ """Write a chainless residue using PDBIO."""
io = PDBIO()
res = Residue.Residue((' ', 1, ' '), 'DUM', '')
@@ -788,13 +800,11 @@ class WriteTest(unittest.TestCase):
os.remove(filename)
def test_pdbio_select(self):
- """Write a selection of the structure using a Select subclass"""
-
+ """Write a selection of the structure using a Select subclass."""
# Selection class to filter all alpha carbons
class CAonly(Select):
- """
- Accepts only CA residues
- """
+ """Accepts only CA residues."""
+
def accept_atom(self, atom):
if atom.name == "CA" and atom.element == "C":
return 1
@@ -814,7 +824,7 @@ class WriteTest(unittest.TestCase):
os.remove(filename)
def test_pdbio_missing_occupancy(self):
- """Write PDB file with missing occupancy"""
+ """Write PDB file with missing occupancy."""
io = PDBIO()
with warnings.catch_warnings():
warnings.simplefilter("ignore", PDBConstructionWarning)
@@ -837,7 +847,8 @@ class WriteTest(unittest.TestCase):
class Exposure(unittest.TestCase):
- "Testing Bio.PDB.HSExposure."
+ """Testing Bio.PDB.HSExposure."""
+
def setUp(self):
pdb_filename = "PDB/a_structure.pdb"
with warnings.catch_warnings():
@@ -920,7 +931,7 @@ class Exposure(unittest.TestCase):
class Atom_Element(unittest.TestCase):
- """induces Atom Element from Atom Name"""
+ """induces Atom Element from Atom Name."""
def setUp(self):
pdb_filename = "PDB/a_structure.pdb"
@@ -930,11 +941,12 @@ class Atom_Element(unittest.TestCase):
self.residue = structure[0]['A'][('H_PCA', 1, ' ')]
def test_AtomElement(self):
- """ Atom Element """
+ """Atom Element."""
atoms = self.residue.child_list
self.assertEqual('N', atoms[0].element) # N
self.assertEqual('C', atoms[1].element) # Alpha Carbon
self.assertEqual('CA', atoms[8].element) # Calcium
+ self.assertEqual('D', atoms[4].element) # Deuterium
def test_ions(self):
"""Element for magnesium is assigned correctly."""
@@ -995,6 +1007,93 @@ class IterationTests(unittest.TestCase):
self.assertEqual(len(atoms), 756)
+class ChangingIdTests(unittest.TestCase):
+
+ def setUp(self):
+ with warnings.catch_warnings():
+ warnings.simplefilter("ignore", PDBConstructionWarning)
+ self.struc = PDBParser(PERMISSIVE=True).get_structure(
+ 'X', "PDB/a_structure.pdb")
+
+ def test_change_model_id(self):
+ """Change the id of a model."""
+ for model in self.struc:
+ break # Get first model in structure
+ model.id = 2
+ self.assertEqual(model.id, 2)
+ self.assertIn(2, self.struc)
+ self.assertNotIn(0, self.struc)
+
+ def test_change_model_id_raises(self):
+ """Cannot change id to a value already in use by another child."""
+ model = next(iter(self.struc))
+ with self.assertRaises(ValueError):
+ model.id = 1
+ # Make sure nothing was changed
+ self.assertEqual(model.id, 0)
+ self.assertIn(0, self.struc)
+ self.assertIn(1, self.struc)
+
+ def test_change_chain_id(self):
+ """Change the id of a model."""
+ chain = next(iter(self.struc.get_chains()))
+ chain.id = "R"
+ self.assertEqual(chain.id, "R")
+ model = next(iter(self.struc))
+ self.assertIn("R", model)
+
+ def test_change_residue_id(self):
+ """Change the id of a residue."""
+ chain = next(iter(self.struc.get_chains()))
+ res = chain[('H_PCA', 1, ' ')]
+ res.id = (' ', 1, ' ')
+
+ self.assertEqual(res.id, (' ', 1, ' '))
+ self.assertIn((' ', 1, ' '), chain)
+ self.assertNotIn(('H_PCA', 1, ' '), chain)
+ self.assertEqual(chain[(' ', 1, ' ')], res)
+
+ def test_full_id_is_updated_residue(self):
+ """Invalidate cached full_ids if an id is changed."""
+ atom = next(iter(self.struc.get_atoms()))
+
+ # Generate the original full id.
+ original_id = atom.get_full_id()
+ self.assertEqual(original_id,
+ ('X', 0, 'A', ('H_PCA', 1, ' '), ('N', ' ')))
+ residue = next(iter(self.struc.get_residues()))
+
+ # Make sure the full id was in fact cached,
+ # so we need to invalidate it later.
+ self.assertEqual(residue.full_id, ('X', 0, 'A', ('H_PCA', 1, ' ')))
+
+ # Changing the residue's id should lead to an updated full id.
+ residue.id = (' ', 1, ' ')
+ new_id = atom.get_full_id()
+ self.assertNotEqual(original_id, new_id)
+ self.assertEqual(new_id, ('X', 0, 'A', (' ', 1, ' '), ('N', ' ')))
+
+ def test_full_id_is_updated_chain(self):
+ """Invalidate cached full_ids if an id is changed."""
+ atom = next(iter(self.struc.get_atoms()))
+
+ # Generate the original full id.
+ original_id = atom.get_full_id()
+ self.assertEqual(original_id,
+ ('X', 0, 'A', ('H_PCA', 1, ' '), ('N', ' ')))
+ residue = next(iter(self.struc.get_residues()))
+
+ # Make sure the full id was in fact cached,
+ # so we need to invalidate it later.
+ self.assertEqual(residue.full_id, ('X', 0, 'A', ('H_PCA', 1, ' ')))
+ chain = next(iter(self.struc.get_chains()))
+
+ # Changing the chain's id should lead to an updated full id.
+ chain.id = 'Q'
+ new_id = atom.get_full_id()
+ self.assertNotEqual(original_id, new_id)
+ self.assertEqual(new_id, ('X', 0, 'Q', ('H_PCA', 1, ' '), ('N', ' ')))
+
# class RenumberTests(unittest.TestCase):
# """Tests renumbering of structures."""
#
@@ -1024,10 +1123,7 @@ class TransformTests(unittest.TestCase):
self.a = self.r.get_list()[0]
def get_total_pos(self, o):
- """
- Returns the sum of the positions of atoms in an entity along
- with the number of atoms.
- """
+ """Sum of positions of atoms in an entity along with the number of atoms."""
if hasattr(o, "get_coord"):
return o.get_coord(), 1
total_pos = numpy.array((0.0, 0.0, 0.0))
@@ -1039,9 +1135,7 @@ class TransformTests(unittest.TestCase):
return total_pos, total_count
def get_pos(self, o):
- """
- Returns the average atom position in an entity.
- """
+ """Average atom position in an entity."""
pos, count = self.get_total_pos(o)
return 1.0 * pos / count
@@ -1057,6 +1151,132 @@ class TransformTests(unittest.TestCase):
for i in range(0, 3):
self.assertAlmostEqual(newpos[i], newpos_check[i])
+ def test_Vector(self):
+ """Test Vector object."""
+ v1 = Vector(0, 0, 1)
+ v2 = Vector(0, 0, 0)
+ v3 = Vector(0, 1, 0)
+ v4 = Vector(1, 1, 0)
+
+ self.assertEqual(calc_angle(v1, v2, v3), 1.5707963267948966)
+ self.assertEqual(calc_dihedral(v1, v2, v3, v4), 1.5707963267948966)
+ self.assertTrue(numpy.array_equal((v1 - v2).get_array(), numpy.array([0.0, 0.0, 1.0])))
+ self.assertTrue(numpy.array_equal((v1 - 1).get_array(), numpy.array([-1.0, -1.0, 0.0])))
+ self.assertTrue(numpy.array_equal((v1 - (1, 2, 3)).get_array(), numpy.array([-1.0, -2.0, -2.0])))
+ self.assertTrue(numpy.array_equal((v1 + v2).get_array(), numpy.array([0.0, 0.0, 1.0])))
+ self.assertTrue(numpy.array_equal((v1 + 3).get_array(), numpy.array([3.0, 3.0, 4.0])))
+ self.assertTrue(numpy.array_equal((v1 + (1, 2, 3)).get_array(), numpy.array([1.0, 2.0, 4.0])))
+ self.assertTrue(numpy.array_equal(v1.get_array() / 2, numpy.array([0, 0, 0.5])))
+ self.assertTrue(numpy.array_equal(v1.get_array() / 2, numpy.array([0, 0, 0.5])))
+ self.assertEqual(v1 * v2, 0.0)
+ self.assertTrue(numpy.array_equal((v1 ** v2).get_array(), numpy.array([0.0, -0.0, 0.0])))
+ self.assertTrue(numpy.array_equal((v1 ** 2).get_array(), numpy.array([0.0, 0.0, 2.0])))
+ self.assertTrue(numpy.array_equal((v1 ** (1, 2, 3)).get_array(), numpy.array([0.0, 0.0, 3.0])))
+ self.assertEqual(v1.norm(), 1.0)
+ self.assertEqual(v1.normsq(), 1.0)
+ v1[2] = 10
+ self.assertEqual(v1.__getitem__(2), 10)
+
+ # Vector normalization
+ v1 = Vector([2, 0, 0])
+ self.assertTrue(numpy.array_equal(v1.normalized().get_array(), numpy.array([1, 0, 0])))
+ # State of v1 should not be affected by `normalized`
+ self.assertTrue(numpy.array_equal(v1.get_array(), numpy.array([2, 0, 0])))
+ v1.normalize()
+ # State of v1 should be affected by `normalize`
+ self.assertTrue(numpy.array_equal(v1.get_array(), numpy.array([1, 0, 0])))
+
+ def test_refmat(self):
+ v1 = Vector(0, 0, 1)
+ v2 = Vector(0, 1, 0)
+ ref = refmat(v1, v2)
+ self.assertTrue(numpy.allclose(ref[0], [1.0, 0.0, 0.0]))
+ self.assertTrue(numpy.allclose(ref[1], [0.0, 0.0, 1.0]))
+ self.assertTrue(numpy.allclose(ref[2], [0.0, 1.0, 0.0]))
+ self.assertTrue(numpy.allclose(v1.left_multiply(ref).get_array(), [0.0, 1.0, 0.0]))
+
+ def test_rotmat(self):
+ # Regular 90 deg rotation
+ v1 = Vector(0, 0, 1)
+ v2 = Vector(0, 1, 0)
+ rot = rotmat(v1, v2)
+ self.assertTrue(numpy.allclose(rot[0], numpy.array([1.0, 0.0, 0.0])))
+ self.assertTrue(numpy.allclose(rot[1], numpy.array([0.0, 0.0, 1.0])))
+ self.assertTrue(numpy.allclose(rot[2], numpy.array([0.0, -1.0, 0.0])))
+ self.assertTrue(numpy.allclose(v1.left_multiply(rot).get_array(), [0.0, 1.0, 0.0]))
+ self.assertTrue(numpy.allclose(v1.right_multiply(numpy.transpose(rot)).get_array(), [0.0, 1.0, 0.0]))
+
+ # Applying rotmat works when the rotation is 180 deg (singularity)
+ v1 = Vector([1.0, 0.8, 0])
+ v2 = Vector([-1.0, -0.8, 0])
+ rot = rotmat(v1, v2)
+ v3 = v1.left_multiply(rot)
+ self.assertTrue(numpy.allclose(v2.get_array(), v3.get_array()))
+
+ # Applying rotmat works when the rotation is 0 deg (singularity)
+ v1 = Vector([1.0, 0.8, 0])
+ v2 = Vector([1.0, 0.8, 0])
+ rot = rotmat(v1, v2)
+ v3 = v1.left_multiply(rot)
+ self.assertTrue(numpy.allclose(v1.get_array(), v3.get_array()))
+
+ def test_m2rotaxis(self):
+ # Regular 90 deg rotation
+ v1 = Vector(0, 0, 1)
+ v2 = Vector(0, 1, 0)
+ rot = rotmat(v1, v2)
+ angle, axis = m2rotaxis(rot)
+ self.assertTrue(numpy.allclose(axis.get_array(), [-1.0, 0.0, 0.0]))
+ self.assertTrue(abs(angle - numpy.pi / 2) < 1e-5)
+
+ # 180 deg rotation
+ v1 = Vector([1.0, 0.8, 0])
+ v2 = Vector([-1.0, -0.8, 0])
+ rot = rotmat(v1, v2)
+ angle, axis = m2rotaxis(rot)
+ self.assertTrue(abs(axis * v1) < 1e-5) # axis orthogonal to v1
+ self.assertTrue(abs(angle - numpy.pi) < 1e-5)
+
+ # 0 deg rotation. Axis must be [1, 0, 0] as per Vector documentation
+ v1 = Vector([1.0, 0.8, 0])
+ v2 = Vector([1.0, 0.8, 0])
+ rot = rotmat(v1, v2)
+ angle, axis = m2rotaxis(rot)
+ self.assertTrue(numpy.allclose(axis.get_array(), [1, 0, 0]))
+ self.assertTrue(abs(angle) < 1e-5)
+
+ def test_Vector_angles(self):
+ angle = random() * numpy.pi
+ axis = Vector(random(3) - random(3))
+ axis.normalize()
+ m = rotaxis(angle, axis)
+ cangle, caxis = m2rotaxis(m)
+ self.assertAlmostEqual(angle, cangle, places=3)
+ self.assertTrue(numpy.allclose(list(map(int, (axis - caxis).get_array())), [0, 0, 0]),
+ "Want %r and %r to be almost equal" % (axis.get_array(), caxis.get_array()))
+
+
+class PDBParserTests(unittest.TestCase):
+ """Test PDBParser module."""
+
+ def test_PDBParser(self):
+ """Walk down the structure hierarchy and test parser reliability."""
+ p = PDBParser(PERMISSIVE=True)
+ filename = "PDB/1A8O.pdb"
+ s = p.get_structure("scr", filename)
+ for m in s:
+ p = m.get_parent()
+ self.assertEqual(s, p)
+ for c in m:
+ p = c.get_parent()
+ self.assertEqual(m, p)
+ for r in c:
+ p = r.get_parent()
+ self.assertEqual(c, p)
+ for a in r:
+ p = a.get_parent()
+ self.assertEqual(r.get_resname(), p.get_resname())
+
class CopyTests(unittest.TestCase):
@@ -1084,14 +1304,15 @@ class CopyTests(unittest.TestCase):
def eprint(*args, **kwargs):
- '''Helper function that prints to stderr.'''
+ """Helper function that prints to stderr."""
print(*args, file=sys.stderr, **kwargs)
def will_it_float(s):
- '''
- Helper function that converts the input into a float if it is a number.
- Otherwise if the input is a string it is returned as it is.'''
+ """Helper function that converts the input into a float if it is a number.
+
+ If the input is a string, the output does not change.
+ """
try:
return float(s)
except ValueError:
@@ -1103,13 +1324,14 @@ class DsspTests(unittest.TestCase):
See also test_DSSP_tool.py for run time testing with the tool.
"""
+
def test_DSSP_file(self):
- """Test parsing of pregenerated DSSP"""
+ """Test parsing of pregenerated DSSP."""
dssp, keys = make_dssp_dict("PDB/2BEG.dssp")
self.assertEqual(len(dssp), 130)
def test_DSSP_noheader_file(self):
- """Test parsing of pregenerated DSSP missing header information"""
+ """Test parsing of pregenerated DSSP missing header information."""
# New DSSP prints a line containing only whitespace and "."
dssp, keys = make_dssp_dict("PDB/2BEG_noheader.dssp")
self.assertEqual(len(dssp), 130)
@@ -1135,9 +1357,7 @@ class DsspTests(unittest.TestCase):
self.assertEqual((dssp_indices & hb_indices), hb_indices)
def test_DSSP_in_model_obj(self):
- '''
- Test that all the elements are added correctly to the xtra attribute of the input model object.
- '''
+ """All elements correctly added to xtra attribute of input model object."""
p = PDBParser()
s = p.get_structure("example", "PDB/2BEG.pdb")
m = s[0]
@@ -1232,6 +1452,33 @@ class NACCESSTests(unittest.TestCase):
naccess = process_asa_data(asa)
self.assertEqual(len(naccess), 524)
+
+class ResidueDepthTests(unittest.TestCase):
+ """Tests for ResidueDepth module, except for running MSMS itself."""
+ def test_pdb_to_xyzr(self):
+ """Test generation of xyzr (atomic radii) file"""
+ with warnings.catch_warnings():
+ warnings.simplefilter("ignore", PDBConstructionWarning)
+ p = PDBParser(PERMISSIVE=1)
+ structure = p.get_structure("example", "PDB/1A8O.pdb")
+
+ # Read radii produced with original shell script
+ with open('PDB/1A8O.xyzr') as handle:
+ msms_radii = []
+ for line in handle:
+ fields = line.split()
+ radius = float(fields[3])
+ msms_radii.append(radius)
+
+ model = structure[0]
+ biopy_radii = []
+ for atom in model.get_atoms():
+ biopy_radii.append(_get_atom_radius(atom, rtype='united'))
+
+ assert len(msms_radii) == len(biopy_radii)
+ self.assertSequenceEqual(msms_radii, biopy_radii)
+
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_PDBList.py b/Tests/test_PDBList.py
new file mode 100644
index 0000000..088a7af
--- /dev/null
+++ b/Tests/test_PDBList.py
@@ -0,0 +1,117 @@
+# Copyright 2016 by Jacek Smietanski. All rights reserved.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+
+"""Testing access to the PDB over the internet."""
+
+import contextlib
+import os
+import shutil
+import tempfile
+import unittest
+
+import requires_internet
+requires_internet.check()
+
+# We want to test this module:
+from Bio.PDB.PDBList import PDBList
+
+
+class TestPBDListGetList(unittest.TestCase):
+ """Test methods responsible for getting lists of entries."""
+
+ def test_get_recent_changes(self):
+ """Tests the Bio.PDB.PDBList.get_recent_changes method."""
+ pdblist = PDBList(obsolete_pdb="unimportant") # obsolete_pdb declared to prevent from creating the "obsolete" directory
+ url = pdblist.pdb_server + '/pub/pdb/data/status/latest/added.pdb'
+ entries = pdblist.get_status_list(url)
+ self.assertIsNotNone(entries)
+
+ def test_get_all_entries(self):
+ """Tests the Bio.PDB.PDBList.get_all_entries method."""
+ pdblist = PDBList(obsolete_pdb="unimportant") # obsolete_pdb declared to prevent from creating the "obsolete" directory
+ entries = pdblist.get_all_entries()
+ # As number of entries constantly grow, test checks if a certain number was exceeded
+ self.assertTrue(len(entries) > 100000)
+
+ def test_get_all_obsolete(self):
+ """Tests the Bio.PDB.PDBList.get_all_obsolete method."""
+ pdblist = PDBList(obsolete_pdb="unimportant") # obsolete_pdb declared to prevent from creating the "obsolete" directory
+ entries = pdblist.get_all_obsolete()
+ # As number of obsolete entries constantly grow, test checks if a certain number was exceeded
+ self.assertTrue(len(entries) > 3000)
+
+
+class TestPDBListGetStructure(unittest.TestCase):
+ """Test methods responsible for getting structures."""
+
+ @contextlib.contextmanager
+ def make_temp_directory(self, directory):
+ temp_dir = tempfile.mkdtemp(dir=directory)
+ try:
+ yield temp_dir
+ finally:
+ shutil.rmtree(temp_dir)
+
+ def check(self, structure, filename, file_format, obsolete=False, pdir=None):
+ with self.make_temp_directory(os.getcwd()) as tmp:
+ pdblist = PDBList(pdb=tmp, obsolete_pdb=os.path.join(tmp, "obsolete"))
+ path = os.path.join(tmp, filename)
+ if pdir:
+ pdir = os.path.join(tmp, pdir)
+ pdblist.retrieve_pdb_file(structure, obsolete=obsolete, pdir=pdir, file_format=file_format)
+ self.assertTrue(os.path.isfile(path))
+ os.remove(path)
+
+ def test_retrieve_pdb_file_small_pdb(self):
+ """Tests retrieving the small molecule in pdb format."""
+ structure = "127d"
+ self.check(structure, os.path.join(structure[1:3], "pdb%s.ent" % structure), "pdb")
+
+ def test_retrieve_pdb_file_large_pdb(self):
+ """Tests retrieving the bundle for large molecule in pdb-like format."""
+ structure = "3k1q"
+ self.check(structure, os.path.join(structure[1:3], "%s-pdb-bundle.tar" % structure), "bundle")
+
+ def test_retrieve_pdb_file_obsolete_pdb(self):
+ """Tests retrieving the obsolete molecule in pdb format"""
+ structure = "347d"
+ self.check(structure, os.path.join("obsolete", structure[1:3], "pdb%s.ent" % structure), "pdb", obsolete=True)
+
+ def test_retrieve_pdb_file_obsolete_mmcif(self):
+ """Tests retrieving the obsolete molecule in mmcif format."""
+ structure = "347d"
+ self.check(structure, os.path.join("obsolete", structure[1:3], "%s.cif" % structure), "mmCif", obsolete=True)
+
+ def test_retrieve_pdb_file_mmcif(self):
+ """Tests retrieving the (non-obsolete) molecule in mmcif format."""
+ structure = "127d"
+ self.check(structure, os.path.join(structure[1:3], "%s.cif" % structure), "mmCif")
+
+ def test_retrieve_pdb_file_obsolete_xml(self):
+ """Tests retrieving the obsolete molecule in mmcif format."""
+ structure = "347d"
+ self.check(structure, os.path.join("obsolete", structure[1:3], "%s.xml" % structure), "xml", obsolete=True)
+
+ def test_retrieve_pdb_file_xml(self):
+ """Tests retrieving the (non obsolete) molecule in xml format."""
+ structure = "127d"
+ self.check(structure, os.path.join(structure[1:3], "%s.xml" % structure), "xml")
+
+ def test_retrieve_pdb_file_mmtf(self):
+ """Tests retrieving the molecule in mmtf format."""
+ structure = "127d"
+ self.check(structure, os.path.join(structure[1:3], "%s.mmtf" % structure), "mmtf")
+
+ def test_double_retrieve(self):
+ """Tests retrieving the same file to different directories."""
+ structure = "127d"
+ self.check(structure, os.path.join("a", "%s.cif" % structure), "mmCif", pdir="a")
+ self.check(structure, os.path.join("b", "%s.cif" % structure), "mmCif", pdir="b")
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_PDB_FragmentMapper.py b/Tests/test_PDB_FragmentMapper.py
new file mode 100644
index 0000000..3746d8f
--- /dev/null
+++ b/Tests/test_PDB_FragmentMapper.py
@@ -0,0 +1,40 @@
+# Copyright 2017 by Sourav Singh. All rights reserved.
+# Revisions copyright 2017 by Peter Cock. All rights reserved.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+
+import unittest
+
+try:
+ import numpy
+except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Install NumPy if you want to use Bio.PDB.")
+
+from Bio.PDB import PDBParser
+from Bio.PDB import FragmentMapper
+from Bio.PDB import Selection
+
+
+class FragmentMapperTests(unittest.TestCase):
+ """Tests for FragmentMapper module."""
+
+ def test_fragment_mapper(self):
+ """Self test for FragmentMapper module."""
+ p = PDBParser()
+ pdb1 = "PDB/1A8O.pdb"
+ s = p.get_structure("X", pdb1)
+ m = s[0]
+ fm = FragmentMapper(m, 10, 5, "PDB")
+ for r in Selection.unfold_entities(m, "R"):
+ if r in fm:
+ self.assertTrue(str(fm[r]).startswith("<Fragment length=5 id="))
+
+
+if __name__ == '__main__':
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_PDB_MMCIF2Dict.py b/Tests/test_PDB_MMCIF2Dict.py
new file mode 100644
index 0000000..1b969a6
--- /dev/null
+++ b/Tests/test_PDB_MMCIF2Dict.py
@@ -0,0 +1,38 @@
+# Copyright 2017 by Francesco Gastaldello. All rights reserved.
+# Revisions copyright 2017 by Peter Cock. All rights reserved.
+#
+# Converted by Francesco Gastaldello from an older unit test copyright 2002
+# by Thomas Hamelryck.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+"""Unit tests for the Bio.PDB.MMCIF2Dict module."""
+
+import unittest
+
+try:
+ import numpy
+except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Install NumPy if you want to use Bio.PDB.")
+
+from Bio.PDB.MMCIF2Dict import MMCIF2Dict
+
+
+class MMCIF2dictTests(unittest.TestCase):
+
+ def test_MMCIF2dict(self):
+ filename = "PDB/1A8O.cif"
+ mmcif = MMCIF2Dict(filename)
+ self.assertEqual(len(mmcif.keys()), 575)
+ self.assertEqual(mmcif['_entity_poly_seq.mon_id'], ['MSE', 'ASP', 'ILE', 'ARG', 'GLN', 'GLY', 'PRO', 'LYS', 'GLU', 'PRO', 'PHE', 'ARG', 'ASP', 'TYR', 'VAL', 'ASP', 'ARG', 'PHE', 'TYR', 'LYS', 'THR', 'LEU', 'ARG', 'ALA', 'GLU', 'GLN', 'ALA', 'SER', 'GLN', 'GLU', 'VAL', 'LYS', 'ASN', 'TRP', 'MSE', 'THR', 'GLU', 'THR', 'LEU', 'LEU', 'VAL', 'GLN', 'ASN', 'ALA', 'ASN', 'PRO', 'ASP', 'CYS', 'LYS', 'THR', 'ILE', 'LEU', 'LYS', 'ALA', 'LEU', 'GLY', 'PRO', 'GLY', 'ALA', 'THR', 'LEU', 'GLU' [...]
+ self.assertEqual(mmcif['_atom_site.Cartn_x'], ['19.594', '20.255', '20.351', '19.362', '19.457', '20.022', '21.718', '21.424', '21.554', '21.835', '21.947', '21.678', '23.126', '23.098', '23.433', '22.749', '22.322', '22.498', '21.220', '20.214', '23.062', '24.282', '23.423', '25.429', '21.280', '20.173', '20.766', '21.804', '19.444', '18.724', '18.011', '17.416', '16.221', '15.459', '15.824', '20.116', '20.613', '20.546', '19.488', '19.837', '20.385', '19.526', '18.365', '20.090 [...]
+ self.assertEqual(mmcif['_struct_ref.pdbx_seq_one_letter_code'], 'GARASVLSGGELDKWEKIRLRPGGKKQYKLKHIVWASRELERFAVNPGLLETSEGCRQILGQLQPSLQTGSEELRSLYNTIAVLYCVHQRIDVKDTKEALDKIEEEQNKSKKKAQQAAADTGNNSQVSQNYPIVQNLQGQMVHQAISPRTLNAWVKVVEEKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAAEWDRLHPVHAGPIAPGQMREPRGSDIAGTTSTLQEQIGWMTHNPPIPVGEIYKRWIILGLNKIVRMYSPTSILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNWMTETLLVQNANPDCKTILKALGPGATLEEMMTACQGVGGPGHKARVLAEAMSQVTNPATIMIQKGNFRNQRKTVKCFNCGKEGHIAKNCRAPRKKGCWKCGKEG [...]
+
+
+if __name__ == '__main__':
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_MMCIF.py b/Tests/test_PDB_MMCIFParser.py
similarity index 73%
rename from Tests/test_MMCIF.py
rename to Tests/test_PDB_MMCIFParser.py
index 43dacf4..b628b78 100644
--- a/Tests/test_MMCIF.py
+++ b/Tests/test_PDB_MMCIFParser.py
@@ -9,6 +9,7 @@
"""Unit tests for the MMCIF portion of the Bio.PDB module."""
+import tempfile
import unittest
import warnings
@@ -29,6 +30,7 @@ from Bio.PDB.PDBExceptions import PDBConstructionException, PDBConstructionWarni
from Bio.PDB import PPBuilder, CaPPBuilder
from Bio.PDB.MMCIFParser import MMCIFParser, FastMMCIFParser
+from Bio.PDB import PDBParser, PDBIO
class ParseReal(unittest.TestCase):
@@ -203,6 +205,86 @@ class ParseReal(unittest.TestCase):
structure = parser.get_structure("example", open("PDB/1A8O.cif"))
self.assertEqual(len(structure), 1)
+ def test_point_mutations_main(self):
+ """Test if MMCIFParser parse point mutations correctly."""
+ self._run_point_mutation_tests(MMCIFParser(QUIET=True))
+
+ def test_point_mutations_fast(self):
+ """Test if FastMMCIFParser can parse point mutations correctly."""
+ self._run_point_mutation_tests(FastMMCIFParser(QUIET=True))
+
+ def _run_point_mutation_tests(self, parser):
+ """Common test code for testing point mutations."""
+ structure = parser.get_structure("example", "PDB/3JQH.cif")
+
+ # Residue 1 and 15 should be disordered.
+ res_1 = structure[0]["A"][1]
+ res_15 = structure[0]["A"][15]
+
+ # Cursory check -- this would be true even if the residue just
+ # contained some disordered atoms.
+ self.assertTrue(res_1.is_disordered(), "Residue 1 is disordered")
+ self.assertTrue(res_15.is_disordered(), "Residue 15 is disordered")
+
+ # Check a non-mutated residue just to be sure we didn't break the
+ # parser and cause everyhing to be disordered.
+ self.assertFalse(
+ structure[0]["A"][13].is_disordered(),
+ "Residue 13 is not disordered")
+
+ # Check that the residue types were parsed correctly.
+ self.assertSetEqual(
+ set(res_1.disordered_get_id_list()),
+ {"PRO", "SER"},
+ "Residue 1 is proline/serine")
+ self.assertSetEqual(
+ set(res_15.disordered_get_id_list()),
+ {"ARG", "GLN", "GLU"},
+ "Residue 15 is arginine/glutamine/glutamic acid")
+
+ # Quickly check that we can switch between residues and that the
+ # correct set of residues was parsed.
+ res_1.disordered_select('PRO')
+ self.assertAlmostEqual(
+ res_1["CA"].get_occupancy(),
+ 0.83, 2, "Residue 1 proline occupancy correcy")
+
+ res_1.disordered_select('SER')
+ self.assertAlmostEqual(
+ res_1["CA"].get_occupancy(),
+ 0.17, 2, "Residue 1 serine occupancy correcy")
+
+
+class CIFtoPDB(unittest.TestCase):
+ """Testing conversion between formats: CIF to PDB"""
+
+ def test_conversion(self):
+ """Parse 1A8O.cif, write 1A8O.pdb, parse again and compare"""
+
+ cif_parser = MMCIFParser(QUIET=1)
+ cif_struct = cif_parser.get_structure("example", "PDB/1LCD.cif")
+
+ pdb_writer = PDBIO()
+ pdb_writer.set_structure(cif_struct)
+ filenumber, filename = tempfile.mkstemp()
+ pdb_writer.save(filename)
+
+ pdb_parser = PDBParser(QUIET=1)
+ pdb_struct = pdb_parser.get_structure('example_pdb', filename)
+
+ # comparisons
+ self.assertEqual(len(pdb_struct), len(cif_struct))
+
+ pdb_atom_names = [a.name for a in pdb_struct.get_atoms()]
+ cif_atom_names = [a.name for a in pdb_struct.get_atoms()]
+ self.assertEqual(len(pdb_atom_names), len(cif_atom_names))
+ self.assertSequenceEqual(pdb_atom_names, cif_atom_names)
+
+ pdb_atom_elems = [a.element for a in pdb_struct.get_atoms()]
+ cif_atom_elems = [a.element for a in pdb_struct.get_atoms()]
+ self.assertSequenceEqual(pdb_atom_elems, cif_atom_elems)
+
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_PDB_Polypetide.py b/Tests/test_PDB_Polypetide.py
new file mode 100644
index 0000000..af43e33
--- /dev/null
+++ b/Tests/test_PDB_Polypetide.py
@@ -0,0 +1,69 @@
+# Copyright 2017 by Francesco Gastaldello. All rights reserved.
+#
+# Converted by Francesco Gastaldello from an older unit test copyright 2004
+# by Thomas Hamelryck.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+"""Unit tests for the Bio.PDB.Polypetide module."""
+
+import unittest
+
+from Bio.PDB import PDBParser, PPBuilder, CaPPBuilder
+
+
+class PolypeptideTests(unittest.TestCase):
+ """Test Polypetide module."""
+
+ def test_polypeptide(self):
+ """Tests on polypetide class and methods."""
+ p = PDBParser(PERMISSIVE=True)
+ pdb1 = "PDB/1A8O.pdb"
+ s = p.get_structure("scr", pdb1)
+ ppb = PPBuilder()
+ pp = ppb.build_peptides(s)
+ self.assertEqual(str(pp[0].get_sequence()), "DIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNW")
+ self.assertEqual(str(pp[1].get_sequence()), "TETLLVQNANPDCKTILKALGPGATLEE")
+ self.assertEqual(str(pp[2].get_sequence()), "TACQG")
+ phi_psi = pp[0].get_phi_psi_list()
+ self.assertEqual(phi_psi[0][0], None)
+ self.assertAlmostEqual(phi_psi[0][1], -0.46297171497725553, places=3)
+ self.assertAlmostEqual(phi_psi[1][0], -1.0873937604007962, places=3)
+ self.assertAlmostEqual(phi_psi[1][1], 2.1337707832637109, places=3)
+ self.assertAlmostEqual(phi_psi[2][0], -2.4052232743651878, places=3)
+ self.assertAlmostEqual(phi_psi[2][1], 2.3807316946081554, places=3)
+ phi_psi = pp[1].get_phi_psi_list()
+ self.assertEqual(phi_psi[0][0], None)
+ self.assertAlmostEqual(phi_psi[0][1], -0.6810077089092923, places=3)
+ self.assertAlmostEqual(phi_psi[1][0], -1.2654003477656888, places=3)
+ self.assertAlmostEqual(phi_psi[1][1], -0.58689987042756309, places=3)
+ self.assertAlmostEqual(phi_psi[2][0], -1.7467679151684763, places=3)
+ self.assertAlmostEqual(phi_psi[2][1], -1.5655066256698336, places=3)
+ phi_psi = pp[2].get_phi_psi_list()
+ self.assertEqual(phi_psi[0][0], None)
+ self.assertAlmostEqual(phi_psi[0][1], -0.73222884210889716, places=3)
+ self.assertAlmostEqual(phi_psi[1][0], -1.1044740234566259, places=3)
+ self.assertAlmostEqual(phi_psi[1][1], -0.69681334592782884, places=3)
+ self.assertAlmostEqual(phi_psi[2][0], -1.8497413300164958, places=3)
+ self.assertAlmostEqual(phi_psi[2][1], 0.34762889834809058, places=3)
+ ppb = CaPPBuilder()
+ pp = ppb.build_peptides(s)
+ self.assertEqual(str(pp[0].get_sequence()), "DIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNW")
+ self.assertEqual(str(pp[1].get_sequence()), "TETLLVQNANPDCKTILKALGPGATLEE")
+ self.assertEqual(str(pp[2].get_sequence()), "TACQG")
+ self.assertEqual([ca.serial_number for ca in pp[0].get_ca_list()], [10, 18, 26, 37, 46, 50, 57, 66, 75, 82, 93, 104, 112, 124, 131, 139, 150, 161, 173, 182, 189, 197, 208, 213, 222, 231, 236, 242, 251, 260, 267, 276, 284])
+ taus = pp[1].get_tau_list()
+ self.assertAlmostEqual(taus[0], 0.3597907225123525, places=3)
+ self.assertAlmostEqual(taus[1], 0.43239284636769254, places=3)
+ self.assertAlmostEqual(taus[2], 0.99820157492712114, places=3)
+ thetas = pp[2].get_theta_list()
+ self.assertAlmostEqual(thetas[0], 1.6610069445335354, places=3)
+ self.assertAlmostEqual(thetas[1], 1.7491703334817772, places=3)
+ self.assertAlmostEqual(thetas[2], 2.0702447422720143, places=3)
+
+
+if __name__ == '__main__':
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_PDB_StructureAlignment.py b/Tests/test_PDB_StructureAlignment.py
new file mode 100644
index 0000000..b19d013
--- /dev/null
+++ b/Tests/test_PDB_StructureAlignment.py
@@ -0,0 +1,49 @@
+# Copyright 2017 by Francesco Gastaldello. All rights reserved.
+#
+# Converted by Francesco Gastaldello from an older unit test copyright 2004
+# by Thomas Hamelryck.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+"""Unit tests for the Bio.PDB.StructureAlignment module."""
+
+import unittest
+
+from Bio.PDB import StructureAlignment
+from Bio.PDB import PDBParser
+from Bio import AlignIO
+
+
+class StructureAlignTests(unittest.TestCase):
+ """Test module StructureAlignment."""
+
+ def test_StructAlign(self):
+ """Tests on module to align two proteins according to a FASTA alignment file."""
+ al_file = "PDB/alignment_file.fa"
+ pdb2 = "PDB/1A8O.pdb"
+ pdb1 = "PDB/2XHE.pdb"
+ with open(al_file, 'r') as handle:
+ records = AlignIO.read(handle, "fasta")
+ p = PDBParser()
+ s1 = p.get_structure('1', pdb1)
+ p = PDBParser()
+ s2 = p.get_structure('2', pdb2)
+ m1 = s1[0]
+ m2 = s2[0]
+ al = StructureAlignment(records, m1, m2)
+ self.assertFalse(al.map12 == al.map21)
+ self.assertTrue(len(al.map12), 566)
+ self.assertTrue(len(al.map21), 70)
+ chain1_A = m1["A"]
+ chain2_A = m2["A"]
+ self.assertEqual(chain1_A[202].get_resname(), 'ILE')
+ self.assertEqual(chain2_A[202].get_resname(), 'LEU')
+ self.assertEqual(chain1_A[291].get_resname(), chain2_A[180].get_resname())
+ self.assertNotEqual(chain1_A[291].get_resname(), chain2_A[181].get_resname())
+
+
+if __name__ == '__main__':
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_PDB_Superimposer.py b/Tests/test_PDB_Superimposer.py
new file mode 100644
index 0000000..c2c889c
--- /dev/null
+++ b/Tests/test_PDB_Superimposer.py
@@ -0,0 +1,113 @@
+# Copyright 2017 by Francesco Gastaldello. All rights reserved.
+#
+# Converted by Francesco Gastaldello from an older unit test copyright 2004
+# by Thomas Hamelryck.
+#
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+"""Unit tests for the Bio.PDB.Superimposer module."""
+
+import unittest
+
+try:
+ import numpy
+except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError(
+ "Install NumPy if you want to use Bio.PDB.")
+
+from Bio.PDB import Superimposer, Selection
+from Bio.PDB import PDBParser
+
+
+class SuperimposerTests(unittest.TestCase):
+ """Test Superimposer module."""
+
+ def test_Superimposer(self):
+ """Test on module that superimpose two protein structures."""
+ pdb1 = "PDB/1A8O.pdb"
+ p = PDBParser()
+ s1 = p.get_structure("FIXED", pdb1)
+ fixed = Selection.unfold_entities(s1, "A")
+ s2 = p.get_structure("MOVING", pdb1)
+ moving = Selection.unfold_entities(s2, "A")
+ rot = numpy.identity(3).astype('f')
+ tran = numpy.array((1.0, 2.0, 3.0), 'f')
+ for atom in moving:
+ atom.transform(rot, tran)
+ sup = Superimposer()
+ sup.set_atoms(fixed, moving)
+ self.assertTrue(numpy.allclose(sup.rotran[0], numpy.identity(3)))
+ self.assertTrue(numpy.allclose(sup.rotran[1], numpy.array([-1.0, -2.0, -3.0])))
+ self.assertAlmostEqual(sup.rms, 0.0, places=3)
+ atom_list = ['N', 'C', 'C', 'O', 'C', 'C', 'SE', 'C', 'N', 'C', 'C',
+ 'O', 'C', 'C', 'O', 'O', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'N', 'C',
+ 'N', 'N', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'O', 'N',
+ 'N', 'C', 'C', 'O', 'N', 'C', 'C', 'O', 'C', 'C', 'C',
+ 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'C', 'N', 'N', 'C',
+ 'C', 'O', 'C', 'C', 'C', 'O', 'O', 'N', 'C', 'C', 'O',
+ 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'C',
+ 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'N',
+ 'C', 'N', 'N', 'N', 'C', 'C', 'O', 'C', 'C', 'O', 'O',
+ 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'C', 'C', 'C', 'C',
+ 'O', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'N', 'C', 'C',
+ 'O', 'C', 'C', 'O', 'O', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'N', 'C', 'N', 'N', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'C', 'C', 'C', 'C', 'O', 'N', 'C', 'C', 'O', 'C',
+ 'C', 'C', 'C', 'N', 'N', 'C', 'C', 'O', 'C', 'O', 'C',
+ 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'C', 'N', 'C', 'C',
+ 'O', 'C', 'C', 'C', 'N', 'C', 'N', 'N', 'N', 'C', 'C',
+ 'O', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'O', 'O',
+ 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'O', 'N', 'N', 'C',
+ 'C', 'O', 'C', 'N', 'C', 'C', 'O', 'C', 'O', 'N', 'C',
+ 'C', 'O', 'C', 'C', 'C', 'O', 'N', 'N', 'C', 'C', 'O',
+ 'C', 'C', 'C', 'O', 'O', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'C', 'N', 'N',
+ 'C', 'C', 'O', 'C', 'C', 'O', 'N', 'N', 'C', 'C', 'O',
+ 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'C', 'C', 'C', 'N',
+ 'C', 'C', 'O', 'C', 'C', 'SE', 'C', 'N', 'C', 'C', 'O',
+ 'C', 'O', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'O',
+ 'O', 'N', 'C', 'C', 'O', 'C', 'O', 'C', 'N', 'C', 'C',
+ 'O', 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'N', 'C',
+ 'C', 'O', 'C', 'C', 'C', 'O', 'N', 'N', 'C', 'C', 'O',
+ 'C', 'C', 'O', 'N', 'N', 'C', 'C', 'O', 'C', 'N', 'C',
+ 'C', 'O', 'C', 'C', 'O', 'N', 'N', 'C', 'C', 'O', 'C',
+ 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'O', 'O', 'N',
+ 'C', 'C', 'O', 'C', 'S', 'N', 'C', 'C', 'O', 'C', 'C',
+ 'C', 'C', 'N', 'N', 'C', 'C', 'O', 'C', 'O', 'C', 'N',
+ 'C', 'C', 'O', 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'O',
+ 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'C', 'C', 'C',
+ 'C', 'N', 'N', 'C', 'C', 'O', 'C', 'N', 'C', 'C', 'O',
+ 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'N', 'C', 'C',
+ 'O', 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'N', 'C', 'C',
+ 'O', 'C', 'N', 'C', 'C', 'O', 'C', 'O', 'C', 'N', 'C',
+ 'C', 'O', 'C', 'C', 'C', 'C', 'N', 'C', 'C', 'O', 'C',
+ 'C', 'C', 'O', 'O', 'N', 'C', 'C', 'O', 'C', 'C', 'C',
+ 'O', 'O', 'N', 'C', 'C', 'O', 'C', 'C', 'SE', 'C', 'N',
+ 'C', 'C', 'O', 'C', 'C', 'SE', 'C', 'N', 'C', 'C', 'O',
+ 'C', 'O', 'C', 'N', 'C', 'C', 'O', 'C', 'N', 'C', 'C',
+ 'O', 'C', 'S', 'N', 'C', 'C', 'O', 'C', 'C', 'C', 'O',
+ 'N', 'N', 'C', 'C', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O', 'O',
+ 'O', 'O', 'O', 'O', 'O', 'O']
+ sup.apply(moving)
+ atom_moved = []
+ for aa in moving:
+ atom_moved.append(aa.element)
+ self.assertEqual(atom_moved, atom_list)
+
+
+if __name__ == '__main__':
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_ParserSupport.py b/Tests/test_ParserSupport.py
index a0bcbbe..431424d 100644
--- a/Tests/test_ParserSupport.py
+++ b/Tests/test_ParserSupport.py
@@ -25,6 +25,7 @@ def pb(b):
# TaggingConsumer
+
print("Running tests on TaggingConsumer")
@@ -32,6 +33,7 @@ class TestHandle(object):
def write(self, s):
print(s)
+
h = TestHandle()
tc = ParserSupport.TaggingConsumer(handle=h, colwidth=5)
tc.start_section() # '***** start_section\n'
@@ -126,6 +128,7 @@ lines = []
def m(line):
lines.append(line)
+
rac(h, m)
print(lines[-1][:10]) # '>gi|132871'
rac(h, m, start='MAKLE', end='KEQ', contains='SVIG')
@@ -189,6 +192,7 @@ lines = []
def m(line):
lines.append(line)
+
print(arac(h, m, contains="RIBOSOMAL PROTEIN")) # 1
print(arac(h, m, start="foobar")) # 0
print(arac(h, m, blank=1)) # 0
diff --git a/Tests/test_Phd.py b/Tests/test_Phd.py
index 9e3af33..533dc58 100755
--- a/Tests/test_Phd.py
+++ b/Tests/test_Phd.py
@@ -364,6 +364,7 @@ class PhdTestSolexa(unittest.TestCase):
# Make sure that no further records are found
self.assertRaises(StopIteration, next, records)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Phylo.py b/Tests/test_Phylo.py
index 1c8e111..e6957c5 100644
--- a/Tests/test_Phylo.py
+++ b/Tests/test_Phylo.py
@@ -181,6 +181,7 @@ class IOTests(unittest.TestCase):
class TreeTests(unittest.TestCase):
"""Tests for methods on BaseTree.Tree objects."""
+
def test_randomized(self):
"""Tree.randomized: generate a new randomized tree."""
for N in (2, 5, 20):
@@ -260,6 +261,7 @@ class TreeTests(unittest.TestCase):
class MixinTests(unittest.TestCase):
"""Tests for TreeMixin methods."""
+
def setUp(self):
self.phylogenies = list(Phylo.parse(EX_PHYLO, 'phyloxml'))
diff --git a/Tests/test_PhyloXML.py b/Tests/test_PhyloXML.py
index 9d7d1f3..a08daae 100644
--- a/Tests/test_PhyloXML.py
+++ b/Tests/test_PhyloXML.py
@@ -742,6 +742,7 @@ class MethodTests(unittest.TestCase):
# ---------------------------------------------------------
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Phylo_CDAO.py b/Tests/test_Phylo_CDAO.py
index c7ee7ad..1197710 100644
--- a/Tests/test_Phylo_CDAO.py
+++ b/Tests/test_Phylo_CDAO.py
@@ -16,7 +16,7 @@ import Bio.Phylo as bp
from Bio.Phylo import CDAO
try:
from Bio.Phylo import CDAOIO
-except:
+except ImportError:
raise MissingExternalDependencyError('Install RDFlib if you want to use the CDAO tree format.')
# Example CDAO files
@@ -82,6 +82,7 @@ def _test_write_factory(source):
class ParseTests(unittest.TestCase):
"""Tests for proper parsing of example CDAO files."""
+
for n, ex in enumerate(cdao_files):
parse_test = _test_parse_factory(ex)
parse_test.__name__ = 'test_parse_%s' % n
@@ -91,6 +92,7 @@ for n, ex in enumerate(cdao_files):
class WriterTests(unittest.TestCase):
pass
+
for n, ex in enumerate(cdao_files):
write_test = _test_write_factory(ex)
write_test.__name__ = 'test_write_%s' % n
diff --git a/Tests/test_Phylo_NeXML.py b/Tests/test_Phylo_NeXML.py
index 2597bfb..a44c8ad 100644
--- a/Tests/test_Phylo_NeXML.py
+++ b/Tests/test_Phylo_NeXML.py
@@ -100,6 +100,7 @@ def _test_write_factory(source):
class ParseTests(unittest.TestCase):
"""Tests for proper parsing of example NeXML files."""
+
for n, ex in enumerate(nexml_files):
parse_test = _test_parse_factory(ex)
parse_test.__name__ = 'test_parse_%s' % n
@@ -109,6 +110,7 @@ for n, ex in enumerate(nexml_files):
class WriterTests(unittest.TestCase):
pass
+
for n, ex in enumerate(nexml_files):
count = 1
if ex in tree_counts:
diff --git a/Tests/test_Phylo_matplotlib.py b/Tests/test_Phylo_matplotlib.py
index 6a046d8..ceeedd1 100644
--- a/Tests/test_Phylo_matplotlib.py
+++ b/Tests/test_Phylo_matplotlib.py
@@ -52,8 +52,11 @@ class UtilTests(unittest.TestCase):
Phylo.draw(apaf, do_show=False, branch_labels=lambda c: c.branch_length)
def test_draw_with_label_colors_dict(self):
- """Run the tree layout algorithm with a label_colors argument passed in
- as a dictionary. Don't display tree."""
+ """Layout tree with label colors as dict.
+
+ Run the tree layout algorithm with a label_colors argument passed in
+ as a dictionary. Don't display tree.
+ """
pyplot.ioff() # Turn off interactive display
dollo = Phylo.read(EX_DOLLO, 'phyloxml')
apaf = Phylo.read(EX_APAF, 'phyloxml')
@@ -69,8 +72,11 @@ class UtilTests(unittest.TestCase):
Phylo.draw(apaf, label_colors=label_colors_apaf, do_show=False)
def test_draw_with_label_colors_callable(self):
- """Run the tree layout algorithm with a label_colors argument passed in
- as a callable. Don't display tree."""
+ """Layout tree with label colors as callable.
+
+ Run the tree layout algorithm with a label_colors argument passed in
+ as a callable. Don't display tree.
+ """
pyplot.ioff() # Turn off interactive display
dollo = Phylo.read(EX_DOLLO, 'phyloxml')
apaf = Phylo.read(EX_APAF, 'phyloxml')
diff --git a/Tests/test_PopGen_DFDist.py b/Tests/test_PopGen_DFDist.py
deleted file mode 100644
index 1d99437..0000000
--- a/Tests/test_PopGen_DFDist.py
+++ /dev/null
@@ -1,133 +0,0 @@
-# Copyright 2010 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-from __future__ import print_function
-
-import os
-import shutil
-import tempfile
-import unittest
-import warnings
-
-from Bio import MissingExternalDependencyError
-from Bio import BiopythonDeprecationWarning
-
-with warnings.catch_warnings():
- warnings.simplefilter("ignore", BiopythonDeprecationWarning)
- from Bio.PopGen import FDist
- from Bio.PopGen.FDist import Controller
-
-# Tests DFDist related code. Note: this case requires Dfdist (four binaries)
-# test_PopGen_FDist_nodepend tests code that does not require fdist2 or Dfdist
-
-
-def is_pypy():
- import platform
- try:
- if platform.python_implementation() == 'PyPy':
- return True
- except AttributeError:
- # New in Python 2.6, not in Jython yet either
- pass
- return False
-
-wanted = dict()
-for path in os.environ['PATH'].split(os.pathsep):
- try:
- list = os.listdir(path)
- for file in os.listdir(path):
- for f in ['Dfdist', 'Ddatacal', 'pv2', 'cplot2']:
- if file == f or file.lower() == f.lower() + ".exe":
- wanted[f] = file
- except os.error:
- pass # Path doesn't exist - correct to pass
-if len(wanted) != 4:
- raise MissingExternalDependencyError(
- "Install Dfdist, Ddatacal, pv2 and cplot2 if you want to use DFDist with Bio.PopGen.FDist.")
-del wanted
-
-import sys
-if not is_pypy() and sys.version_info[0] == 3 and sys.version_info < (3, 2, 4):
- raise MissingExternalDependencyError("Under Python 3, please use Python 3.2.4"
- " onwards for this test - see http://bugs.python.org/issue16903")
-
-
-class AppTest(unittest.TestCase):
- """Tests the Dfdist suite of applications.
- """
- def _copyfile(self, inname, outname):
- shutil.copyfile(
- 'PopGen' + os.sep + inname,
- self.dirname + os.sep + outname)
-
- def setUp(self):
- self.ctrl = Controller.FDistController()
- self.dirname = tempfile.mkdtemp()
- self._copyfile('data_dfst_outfile', 'data_fst_outfile')
- self._copyfile('dfdist1', 'infile')
- self._copyfile('dout.dat', 'out.dat')
- self._copyfile('dout.cpl', 'out.cpl')
-
- def tearDown(self):
- # Not sure how exactly, but its possible the temp directory
- # may not (still) exist.
- if os.path.isdir(self.dirname):
- for file in os.listdir(self.dirname):
- os.remove(self.dirname + os.sep + file)
- os.rmdir(self.dirname)
-
- def test_ddatacal(self):
- """Test Ddatacal execution.
- """
- fst, samp_size, loci, pops, F, obs = \
- self.ctrl.run_datacal(data_dir=self.dirname, version=2)
- self.assertTrue(fst - 0.23 < 0.02)
- self.assertEqual(samp_size, 32)
- self.assertEqual(loci, 300)
- self.assertEqual(pops, 2)
- self.assertTrue(F - 0.11 < 0.01)
- self.assertEqual(obs, 300)
-
- def test_dfdist(self):
- """Test Dfdist execution.
- """
- # The number of simulations in real life should be at least 10000,
- # see the fdist2 documentation.
- fst = self.ctrl.run_fdist(npops=15, nsamples=10, fst=0.1,
- sample_size=20, mut=0, num_sims=100,
- data_dir=self.dirname, is_dominant=True)
- self.assertTrue(abs(fst - 0.1) < 0.03,
- "Stochastic result, expected %f close to 0.1" % fst)
-
- def atest_dfdist_force_fst(self):
- """Test dfdist execution approximating Fst.
- THIS IS TOO SLOW
- """
- # The number of simulations in real life should be at least 10000,
- # see the fdist2 documentation.
- fst = self.ctrl.run_fdist_force_fst(npops=15, nsamples=10,
- fst=0.1,
- sample_size=20, mut=0, num_sims=100,
- data_dir=self.dirname, is_dominant=True)
- self.assertTrue(abs(fst - 0.09) < 0.05,
- "Stochastic result, expected %f close to 0.09" % fst)
-
- def test_cplot2(self):
- """Test cplot2 execution.
- """
- cpl_interval = self.ctrl.run_cplot(data_dir=self.dirname, version=2)
- self.assertEqual(len(cpl_interval), 300)
-
- def test_pv2(self):
- """Test pv2 execution.
- """
- pv_data = self.ctrl.run_pv(data_dir=self.dirname, version=2)
- self.assertEqual(len(pv_data), 300)
-
-
-if __name__ == "__main__":
- print("Running fdist tests, which might take some time, please wait")
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_FDist.py b/Tests/test_PopGen_FDist.py
deleted file mode 100644
index 0d3a8f4..0000000
--- a/Tests/test_PopGen_FDist.py
+++ /dev/null
@@ -1,128 +0,0 @@
-# Copyright 2006 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-from __future__ import print_function
-
-import os
-import shutil
-import tempfile
-import unittest
-import warnings
-
-from Bio import MissingExternalDependencyError
-from Bio import BiopythonDeprecationWarning
-
-with warnings.catch_warnings():
- warnings.simplefilter("ignore", BiopythonDeprecationWarning)
- from Bio.PopGen import FDist
- from Bio.PopGen.FDist import Controller
-
-
-# Tests FDist2 related code. Note: this case requires fdist2 (four binaries)
-# test_PopGen_FDist_nodepend tests code that does not require fdist2 or Dfdist
-
-
-def is_pypy():
- import platform
- try:
- if platform.python_implementation() == 'PyPy':
- return True
- except AttributeError:
- # New in Python 2.6, not in Jython yet either
- pass
- return False
-
-wanted = dict()
-for path in os.environ['PATH'].split(os.pathsep):
- try:
- list = os.listdir(path)
- for file in os.listdir(path):
- for f in ['fdist2', 'datacal', 'pv', 'cplot']:
- if file == f or file.lower() == f.lower() + ".exe":
- wanted[f] = file
- except os.error:
- pass # Path doesn't exist - correct to pass
-if len(wanted) != 4:
- raise MissingExternalDependencyError(
- "Install fdist2, datacal, pv and cplot if you want to use FDist2 with Bio.PopGen.FDist.")
-del wanted
-
-import sys
-if not is_pypy() and sys.version_info[0] == 3 and sys.version_info < (3, 2, 4):
- raise MissingExternalDependencyError("Under Python 3, please use Python 3.2.4"
- " onwards for this test - see http://bugs.python.org/issue16903")
-
-
-class AppTest(unittest.TestCase):
- """Tests the fdist suite of applications.
- """
- def _copyfile(self, inname, outname):
- shutil.copyfile(
- 'PopGen' + os.sep + inname,
- self.dirname + os.sep + outname)
-
- def setUp(self):
- self.ctrl = Controller.FDistController()
- self.dirname = tempfile.mkdtemp()
- self._copyfile('data_fst_outfile', 'data_fst_outfile')
- self._copyfile('fdist1', 'infile')
- self._copyfile('out.dat', 'out.dat')
- self._copyfile('out.cpl', 'out.cpl')
-
- def tearDown(self):
- # Not sure how exactly, but its possible the temp directory
- # may not (still) exist.
- if os.path.isdir(self.dirname):
- for file in os.listdir(self.dirname):
- os.remove(self.dirname + os.sep + file)
- os.rmdir(self.dirname)
-
- def test_datacal(self):
- """Test datacal execution.
- """
- fst, samp_size = self.ctrl.run_datacal(data_dir=self.dirname)
- self.assertTrue(fst - 0.44 < 0.01)
- self.assertEqual(samp_size, 11)
-
- def test_fdist(self):
- """Test fdist execution.
- """
- # The number of simulations in real life should be at least 10000,
- # see the fdist2 documentation.
- fst = self.ctrl.run_fdist(npops=15, nsamples=10, fst=0.1,
- sample_size=20, mut=0, num_sims=100,
- data_dir=self.dirname)
- self.assertTrue(abs(fst - 0.1) < 0.03,
- "Stochastic result, expected %f close to 0.1" % fst)
-
- def test_fdist_force_fst(self):
- """Test fdist execution approximating Fst.
- """
- # The number of simulations in real life should be at least 10000,
- # see the fdist2 documentation.
- fst = self.ctrl.run_fdist_force_fst(npops=15, nsamples=10,
- fst=0.1,
- sample_size=20, mut=0, num_sims=100,
- data_dir=self.dirname)
- self.assertTrue(abs(fst - 0.09) < 0.05,
- "Stochastic result, expected %f close to 0.09" % fst)
-
- def test_cplot(self):
- """Test cplot execution.
- """
- cpl_interval = self.ctrl.run_cplot(data_dir=self.dirname)
- self.assertEqual(len(cpl_interval), 8)
-
- def test_pv(self):
- """Test pv execution.
- """
- pv_data = self.ctrl.run_pv(data_dir=self.dirname)
- self.assertEqual(len(pv_data), 4)
-
-
-if __name__ == "__main__":
- print("Running fdist tests, which might take some time, please wait")
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_FDist_nodepend.py b/Tests/test_PopGen_FDist_nodepend.py
deleted file mode 100644
index 158d36a..0000000
--- a/Tests/test_PopGen_FDist_nodepend.py
+++ /dev/null
@@ -1,108 +0,0 @@
-# Copyright 2006 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-import os
-import unittest
-from Bio.PopGen import GenePop
-from Bio.PopGen import FDist
-from Bio.PopGen.GenePop import FileParser
-from Bio.PopGen.FDist.Utils import convert_genepop_to_fdist
-
-# Tests fdist related code. Note: this case doesn't require fdist
-# test_PopGen_FDist tests code that requires fdist
-
-
-class RecordTest(unittest.TestCase):
- def test_record_basic(self):
- """Basic test on Record
- """
-
- r = FDist.Record()
- assert isinstance(r.data_org, int)
- assert isinstance(r.num_pops, int)
- assert isinstance(r.num_loci, int)
- assert isinstance(r.loci_data, list)
-
-
-class ParserTest(unittest.TestCase):
- def setUp(self):
- files = ["fdist1"]
- self.handles = []
- for filename in files:
- self.handles.append(open(os.path.join("PopGen", filename)))
-
- self.pops_loci = [
- (3, 4)
- ]
- self.num_markers = [
- [2, 3, 4, 2]
- ]
- # format is locus, pop, position, value
- self.test_pos = [
- [
- (0, 0, 0, 5),
- (3, 2, 0, 5)
- ]
- ]
-
- def tearDown(self):
- for handle in self.handles:
- handle.close()
-
- def test_record_parser(self):
- """Basic operation of the Record Parser.
- """
- for index in range(len(self.handles)):
- handle = self.handles[index]
- rec = FDist.read(handle)
- assert isinstance(rec, FDist.Record)
- assert rec.data_org == 0 # We don't support any other
- assert rec.num_pops, rec.num_loci == self.pops_loci[index]
- for i in range(len(self.num_markers[index])):
- assert rec.loci_data[i][0] == \
- self.num_markers[index][i]
- for i in range(len(self.test_pos[index])):
- my_test_pos = self.test_pos[index]
- for test in my_test_pos:
- locus, pop, pos, value = test
- assert(rec.loci_data[locus][1][pop][pos] == value)
-
-
-class ConversionTest(unittest.TestCase):
- def setUp(self):
- files = ["c2line.gen", "haplo2.gen"]
- self.handles = []
- self.names = []
- for filename in files:
- self.names.append(os.path.join("PopGen", filename))
- self.handles.append(open(os.path.join("PopGen", filename)))
-
- def test_convert(self):
- """Basic conversion test.
- """
- for i in range(len(self.names)):
- handle = self.handles[i]
- gp_rec = GenePop.read(handle)
- fd_rec = convert_genepop_to_fdist(gp_rec)
- assert(fd_rec.num_loci == 3)
- assert(fd_rec.num_pops == 3)
-
- def test_convert_big(self):
- """Big interface conversion test.
- """
- for i in range(len(self.names)):
- gp_rec = FileParser.read(self.names[i])
- fd_rec = convert_genepop_to_fdist(gp_rec)
- assert(fd_rec.num_loci == 3)
- assert(fd_rec.num_pops == 3)
- gp_rec._handle.close() # TODO - Needs a proper fix
-
- def tearDown(self):
- for handle in self.handles:
- handle.close()
-
-if __name__ == "__main__":
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_FastSimCoal.py b/Tests/test_PopGen_FastSimCoal.py
deleted file mode 100644
index 6048bbf..0000000
--- a/Tests/test_PopGen_FastSimCoal.py
+++ /dev/null
@@ -1,63 +0,0 @@
-# Copyright 2014 by Melissa Gymrek <mgymrek at mit.edu>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-import os
-import shutil
-import unittest
-import warnings
-
-from Bio import MissingExternalDependencyError
-from Bio import BiopythonDeprecationWarning
-
-with warnings.catch_warnings():
- warnings.simplefilter("ignore", BiopythonDeprecationWarning)
- from Bio.PopGen.SimCoal.Controller import FastSimCoalController
-
-# Tests fastsimcoal related code. Note: this case requires fastsimcoal 2.51
-
-found = False
-for path in os.environ['PATH'].split(os.pathsep):
- try:
- for filename in os.listdir(path):
- if filename == "fsc252" \
- or (filename.lower() == "fsc252.exe"):
- found = True
- fastsimcoal_dir = path
- except os.error:
- pass # Path doesn't exist - correct to pass
-if not found:
- raise MissingExternalDependencyError(
- "Install fastsimcoal if you want to use "
- "Bio.PopGen.SimCoal.Controller.FastSimCoalController.")
-
-
-class AppTest(unittest.TestCase):
- """Tests fastsimcoal execution via biopython.
- """
- def setUp(self):
- self.tidy()
-
- def tearDown(self):
- self.tidy()
-
- def tidy(self):
- if not os.path.isdir(os.path.join('PopGen', 'simple')):
- # Unit test must have failed to invoke fastsimcoal251,
- # and thus it never created the directory.
- return
- shutil.rmtree(os.path.join('PopGen', 'simple'))
-
- def test_fastsimcoal(self):
- """Test fastsimcoal execution.
- """
- ctrl = FastSimCoalController(fastsimcoal_dir=fastsimcoal_dir)
- ctrl.run_fastsimcoal('simple.par', 50, par_dir='PopGen')
- assert os.path.isdir(os.path.join('PopGen', 'simple')), \
- "Output directory not created!"
- assert(len(os.listdir(os.path.join('PopGen', 'simple'))) == 52)
-
-if __name__ == "__main__":
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_GenePop.py b/Tests/test_PopGen_GenePop.py
index 08221c2..6f5b9a6 100644
--- a/Tests/test_PopGen_GenePop.py
+++ b/Tests/test_PopGen_GenePop.py
@@ -89,6 +89,7 @@ class AppTest(unittest.TestCase):
assert len(litr) == 37
assert litr[36][0] == "Locus37"
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_GenePop_EasyController.py b/Tests/test_PopGen_GenePop_EasyController.py
index c043b24..a8920b1 100644
--- a/Tests/test_PopGen_GenePop_EasyController.py
+++ b/Tests/test_PopGen_GenePop_EasyController.py
@@ -90,6 +90,12 @@ class AppTest(unittest.TestCase):
nms = self.ctrl.estimate_nm()
self.assertEqual(nms[0], 28.0)
+ def test_hwe_excess(self):
+ """Test Hardy-Weinberg Equilibrium.
+ """
+ hwe_excess = self.ctrl.test_hw_pop(0, "excess")
+ self.assertEqual(hwe_excess["Locus1"], (0.4955, None, -0.16, -0.1623, 5))
+
# These tests are frequently failing, possibly due to a Genepop problem.
# def test_get_avg_fst_pair_locus(self):
# """Test get average Fst for pairwise pops on a locus.
@@ -121,6 +127,7 @@ class AppTest(unittest.TestCase):
self.assertEqual(len(fs), 5)
self.assertTrue(fs[0] < 0)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_GenePop_nodepend.py b/Tests/test_PopGen_GenePop_nodepend.py
index 1c57530..b5b2197 100644
--- a/Tests/test_PopGen_GenePop_nodepend.py
+++ b/Tests/test_PopGen_GenePop_nodepend.py
@@ -11,18 +11,20 @@ from Bio.PopGen.GenePop import FileParser
class RecordTest(unittest.TestCase):
- def test_record_basic(self):
- """Basic test on Record
- """
+ """Record tests."""
+ def test_record_basic(self):
+ """Basic test on Record."""
r = GenePop.Record()
- assert isinstance(r.marker_len, int)
- assert isinstance(r.comment_line, str)
- assert isinstance(r.loci_list, list)
- assert isinstance(r.populations, list)
+ self.assertIsInstance(r.marker_len, int)
+ self.assertIsInstance(r.comment_line, str)
+ self.assertIsInstance(r.loci_list, list)
+ self.assertIsInstance(r.populations, list)
class ParserTest(unittest.TestCase):
+ """Parser tests."""
+
def setUp(self):
files = ["c2line.gen", "c3line.gen", "c2space.gen", "c3space.gen",
"haplo3.gen", "haplo2.gen"]
@@ -47,24 +49,28 @@ class ParserTest(unittest.TestCase):
handle.close()
def test_record_parser(self):
- """Basic operation of the Record Parser.
- """
+ """Basic operation of the Record Parser."""
for index in range(len(self.handles)):
handle = self.handles[index]
rec = GenePop.read(handle)
- assert isinstance(rec, GenePop.Record)
- assert len(rec.loci_list) == self.num_loci[index]
- assert rec.marker_len == self.marker_len[index]
- assert len(rec.populations) == self.pops_indivs[index][0]
- assert rec.pop_list == self.pop_names
+ self.assertTrue(str(rec).startswith(
+ "Generated by createGenePop.py - (C) Tiago Antao\n"
+ "136255903\n"
+ "136257048\n"
+ "136257636\n"
+ "Pop\n"), "Did not expect this:\n%s" % rec)
+ self.assertIsInstance(rec, GenePop.Record)
+ self.assertEqual(len(rec.loci_list), self.num_loci[index])
+ self.assertEqual(rec.marker_len, self.marker_len[index])
+ self.assertEqual(len(rec.populations), self.pops_indivs[index][0])
+ self.assertEqual(rec.pop_list, self.pop_names)
for i in range(self.pops_indivs[index][0]):
- assert len(rec.populations[i]) == \
- self.pops_indivs[index][1][i]
+ self.assertEqual(len(rec.populations[i]),
+ self.pops_indivs[index][1][i])
def test_wrong_file_parser(self):
- """Testing the ability to deal with wrongly formatted files
- """
- with open(os.path.join("PopGen", "fdist1")) as f:
+ """Testing the ability to deal with wrongly formatted files."""
+ with open(os.path.join("PopGen", "README")) as f:
try:
rec = GenePop.read(f)
raise Exception("Should have raised exception")
@@ -73,6 +79,8 @@ class ParserTest(unittest.TestCase):
class FileParserTest(unittest.TestCase):
+ """File parser tests."""
+
def setUp(self):
self.files = [os.path.join("PopGen", x) for x in
["c2line.gen", "c3line.gen", "c2space.gen",
@@ -88,28 +96,30 @@ class FileParserTest(unittest.TestCase):
self.num_loci = [3, 3, 3, 3, 3, 3]
def test_file_record_parser(self):
- """Basic operation of the File Record Parser.
- """
+ """Basic operation of the File Record Parser."""
for index in range(len(self.files)):
fname = self.files[index]
rec = FileParser.read(fname)
- assert isinstance(rec, FileParser.FileRecord)
- assert len(rec.loci_list) == self.num_loci[index]
+ self.assertIsInstance(rec, FileParser.FileRecord)
+ self.assertTrue(str(rec).startswith(
+ "Generated by createGenePop.py - (C) Tiago Antao\n"
+ "136255903\n"
+ "136257048\n"
+ "136257636\n"
+ "Pop\n"), "Did not expect this:\n%s" % rec)
+ self.assertEqual(len(rec.loci_list), self.num_loci[index])
for skip in range(self.pops_indivs[index][0]):
if rec.skip_population() is False:
raise Exception("Not enough populations")
if rec.skip_population() is True:
- raise Exception("Too much populations")
+ raise Exception("Too much populations")
for i in range(self.pops_indivs[index][0]):
continue
- assert len(rec.populations[i]) == \
- self.pops_indivs[index][1][i]
rec._handle.close() # TODO - Needs a proper fix
def test_wrong_file_parser(self):
- """Testing the ability to deal with wrongly formatted files
- """
- with open(os.path.join("PopGen", "fdist1")) as f:
+ """Testing the ability to deal with wrongly formatted files."""
+ with open(os.path.join("PopGen", "README")) as f:
try:
rec = GenePop.read(f)
raise Exception("Should have raised exception")
@@ -118,6 +128,8 @@ class FileParserTest(unittest.TestCase):
class UtilsTest(unittest.TestCase):
+ """Utils tests."""
+
def setUp(self):
# All files have to have at least 3 loci and 2 pops
files = ["c2line.gen"]
@@ -130,8 +142,7 @@ class UtilsTest(unittest.TestCase):
handle.close()
def test_utils(self):
- """Basic operation of GenePop Utils.
- """
+ """Basic operation of GenePop Utils."""
for index in range(len(self.handles)):
handle = self.handles[index]
rec = GenePop.read(handle)
@@ -139,12 +150,13 @@ class UtilsTest(unittest.TestCase):
initial_loci = len(rec.loci_list)
first_loci = rec.loci_list[0]
rec.remove_population(0)
- assert len(rec.populations) == initial_pops - 1
+ self.assertEqual(len(rec.populations), initial_pops - 1)
rec.remove_locus_by_name(first_loci)
- assert len(rec.loci_list) == initial_loci - 1
- assert rec.loci_list[0] != first_loci
+ self.assertEqual(len(rec.loci_list), initial_loci - 1)
+ self.assertNotEqual(rec.loci_list[0], first_loci)
rec.remove_locus_by_position(0)
- assert len(rec.loci_list) == initial_loci - 2
+ self.assertEqual(len(rec.loci_list), initial_loci - 2)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_PopGen_SimCoal.py b/Tests/test_PopGen_SimCoal.py
deleted file mode 100644
index d26ad3e..0000000
--- a/Tests/test_PopGen_SimCoal.py
+++ /dev/null
@@ -1,65 +0,0 @@
-# Copyright 2007 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-import os
-import unittest
-import warnings
-
-from Bio import MissingExternalDependencyError
-from Bio import BiopythonDeprecationWarning
-
-with warnings.catch_warnings():
- warnings.simplefilter("ignore", BiopythonDeprecationWarning)
- from Bio.PopGen import SimCoal
- from Bio.PopGen.SimCoal.Controller import SimCoalController
-
-# Tests simcoal related code. Note: this case requires simcoal
-# test_PopGen_SimCoal_nodepend tests code that does not require simcoal
-
-found = False
-for path in os.environ['PATH'].split(os.pathsep):
- try:
- for filename in os.listdir(path):
- if filename == "simcoal2" \
- or (filename.lower() == "simcoal2.exe"):
- found = True
- simcoal_dir = path
- except os.error:
- pass # Path doesn't exist - correct to pass
-if not found:
- raise MissingExternalDependencyError(
- "Install SIMCOAL2 if you want to use Bio.PopGen.SimCoal.")
-
-
-class AppTest(unittest.TestCase):
- """Tests simcoal execution via biopython.
- """
- def setUp(self):
- self.tidy()
-
- def tearDown(self):
- self.tidy()
-
- def tidy(self):
- if not os.path.isdir(os.path.join('PopGen', 'simple')):
- # Unit test must have failed to invoke simcaol,
- # and thus it never created the directory.
- return
- for file in os.listdir(os.path.join('PopGen', 'simple')):
- os.remove(os.sep.join(['PopGen', 'simple', file]))
- os.rmdir(os.path.join('PopGen', 'simple'))
-
- def test_simcoal(self):
- """Test simcoal execution.
- """
- ctrl = SimCoalController(simcoal_dir)
- ctrl.run_simcoal('simple.par', 50, par_dir='PopGen')
- assert os.path.isdir(os.path.join('PopGen', 'simple')), \
- "Output directory not created!"
- assert(len(os.listdir(os.path.join('PopGen', 'simple'))) == 52)
-
-if __name__ == "__main__":
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_PopGen_SimCoal_nodepend.py b/Tests/test_PopGen_SimCoal_nodepend.py
deleted file mode 100644
index 5f1a65f..0000000
--- a/Tests/test_PopGen_SimCoal_nodepend.py
+++ /dev/null
@@ -1,52 +0,0 @@
-# Copyright 2006 by Tiago Antao <tiagoantao at gmail.com>. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-from Bio._py3k import _universal_read_mode
-
-import os
-import unittest
-import warnings
-
-from Bio import BiopythonDeprecationWarning
-
-with warnings.catch_warnings():
- warnings.simplefilter("ignore", BiopythonDeprecationWarning)
- from Bio.PopGen.SimCoal.Template import generate_simcoal_from_template
-
-# Tests simcoal related code. Note: this case doesn't require simcoal
-# test_PopGen_SimCoal tests code that requires simcoal
-
-
-class TemplateTest(unittest.TestCase):
- def test_template_full(self):
- """Full template creation test
- """
- generate_simcoal_from_template('simple',
- [(1, [('SNP', [24, 0.0005, 0.0])])],
- [('sample_size', [30]),
- ('pop_size', [100])],
- 'PopGen')
- # Confirm the files match (ignoring any switch of line endings
- # possible if the input file used a different OS convention)
- with open(os.path.join('PopGen', 'simple.par'), _universal_read_mode) as handle:
- old = handle.readlines()
- with open(os.path.join('PopGen', 'simple_100_30.par')) as handle:
- new = handle.readlines()
- assert old == new, "Error - Old:\n%s\n\nNew:\n%s\n" % (old, new)
- # assert(os.stat('PopGen' + os.sep + 'simple.par').st_size ==
- # os.stat('PopGen' + os.sep + 'simple_100_30.par').st_size)
-
- def tearDown(self):
- if os.path.isfile(os.path.join('PopGen', 'tmp.par')):
- # This is a temp file create by the Bio.PopGen.SimCoal.Template
- # function generate_simcoal_from_template
- os.remove(os.path.join('PopGen', 'tmp.par'))
- if os.path.isfile(os.path.join('PopGen', 'simple_100_30.par')):
- # This won't exist if the template generation failed:
- os.remove(os.path.join('PopGen', 'simple_100_30.par'))
-
-if __name__ == "__main__":
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_Prank_tool.py b/Tests/test_Prank_tool.py
index 952e9f3..5665601 100644
--- a/Tests/test_Prank_tool.py
+++ b/Tests/test_Prank_tool.py
@@ -1,10 +1,7 @@
-"""
-Unittests for Bio.Align.Applications interface for PRANK
-
-This code is part of the Biopython distribution and governed by its
-license. Please see the LICENSE file that should have been included
-as part of this package.
-"""
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+"""Unittests for Bio.Align.Applications interface for PRANK."""
import sys
import os
@@ -55,7 +52,8 @@ class PrankApplication(unittest.TestCase):
self.infile1 = "Fasta/fa01"
def tearDown(self):
- """
+ """Remove generated files.
+
output.1.dnd output.1.fas output.1.xml output.2.dnd output.2.fas output.2.xml
"""
if os.path.isfile("output.1.dnd"):
@@ -77,6 +75,7 @@ class PrankApplication(unittest.TestCase):
def test_Prank_simple(self):
"""Simple round-trip through app with infile.
+
output.?.??? files written to cwd - no way to redirect
"""
cmdline = PrankCommandline(prank_exe)
@@ -86,10 +85,11 @@ class PrankApplication(unittest.TestCase):
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
output, error = cmdline()
self.assertEqual(error, "")
- self.assertTrue("Total time" in output)
+ self.assertIn("Total time", output)
def test_Prank_simple_with_NEXUS_output(self):
- """Simple round-trip through app with infile, output in NEXUS
+ """Simple round-trip through app with infile, output in NEXUS.
+
output.?.??? files written to cwd - no way to redirect
"""
records = list(SeqIO.parse(self.infile1, "fasta"))
@@ -103,7 +103,7 @@ class PrankApplication(unittest.TestCase):
" -d=Fasta/fa01 -f=17 -dots")
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
stdout, stderr = cmdline()
- self.assertTrue("Total time" in stdout)
+ self.assertIn("Total time", stdout)
self.assertEqual(stderr, "")
try:
if os.path.isfile("output.best.nex"):
@@ -144,7 +144,7 @@ class PrankApplication(unittest.TestCase):
" -once -skipins -realbranches")
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
stdout, stderr = cmdline()
- self.assertTrue("Total time" in stdout, stdout)
+ self.assertIn("Total time", stdout)
class PrankConversion(unittest.TestCase):
@@ -168,7 +168,7 @@ class PrankConversion(unittest.TestCase):
' -convert')
self.assertEqual(str(eval(repr(cmdline))), str(cmdline))
message, error = cmdline()
- self.assertTrue("PRANK" in message, message)
+ self.assertIn("PRANK", message)
self.assertTrue(("converting '%s' to '%s'" % (self.input, filename))
in message, message)
self.assertEqual(error, "")
diff --git a/Tests/test_QCPSuperimposer.py b/Tests/test_QCPSuperimposer.py
index e8a152f..4dd88cf 100644
--- a/Tests/test_QCPSuperimposer.py
+++ b/Tests/test_QCPSuperimposer.py
@@ -1,73 +1,178 @@
+# Copyright 2017 by Maximilian Greil. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-from __future__ import print_function
+import unittest
try:
- # TODO - Don't use "from XXX import *"
- from numpy import *
+ from numpy import array
from numpy import dot # missing in old PyPy's micronumpy
+ from numpy import around
+ from numpy import array_equal
except ImportError:
from Bio import MissingPythonDependencyError
raise MissingPythonDependencyError(
"Install NumPy if you want to use Bio.QCPSuperimposer.")
-from Bio.PDB.QCPSuperimposer import QCPSuperimposer
-
-# start with two coordinate sets (Nx3 arrays - Float0)
-
-x = array([[51.65, -1.90, 50.07],
- [50.40, -1.23, 50.65],
- [50.68, -0.04, 51.54],
- [50.22, -0.02, 52.85]], 'f')
-
-y = array([[51.30, -2.99, 46.54],
- [51.09, -1.88, 47.58],
- [52.36, -1.20, 48.03],
- [52.71, -1.18, 49.38]], 'f')
-
-sup = QCPSuperimposer()
-
-# set the coords
-# y will be rotated and translated on x
-sup.set(x, y)
-
-# do the qcp fit
-sup.run()
-
-# get the rmsd
-rms = sup.get_rms()
-
-# get rotation (right multiplying!) and the translation
-rot, tran = sup.get_rotran()
-
-# rotate y on x manually
-y_on_x1 = dot(y, rot) + tran
-
-# same thing
-y_on_x2 = sup.get_transformed()
-
-
-def simple_matrix_print(matrix):
- """Simple string to display a floating point matrix
-
- This should give the same output on multiple systems. This is
- needed because a simple "print matrix" uses scientific notation
- which varies between platforms.
-
- Only 4 decimal places are used to avoid false test failures due
- to slight differences in the calculation (e.g. due to different
- versions of the underlying libraries or the compilation options
- they used).
- """
- return "[%s]" % "\n ".join("[%s]" % " ".join("% 1.4f" % v for v in row)
- for row in matrix)
-
-
-# output results
-print(simple_matrix_print(y_on_x1))
-print("")
-print(simple_matrix_print(y_on_x2))
-print("")
-print("%.2f" % rms)
+try:
+ from Bio.PDB.QCPSuperimposer import QCPSuperimposer
+except ImportError:
+ from Bio import MissingExternalDependencyError
+ raise MissingExternalDependencyError(
+ "C module in Bio.QCPSuperimposer not compiled")
+
+
+class QCPSuperimposerTest(unittest.TestCase):
+
+ def setUp(self):
+ self.x = array([[51.65, -1.90, 50.07],
+ [50.40, -1.23, 50.65],
+ [50.68, -0.04, 51.54],
+ [50.22, -0.02, 52.85]])
+
+ self.y = array([[51.30, -2.99, 46.54],
+ [51.09, -1.88, 47.58],
+ [52.36, -1.20, 48.03],
+ [52.71, -1.18, 49.38]])
+
+ self.sup = QCPSuperimposer()
+ self.sup.set(self.x, self.y)
+
+ # Public methods
+
+ def test_set(self):
+ self.assertTrue(
+ array_equal(around(self.sup.reference_coords, decimals=3), around(self.x, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.coords, decimals=3), around(self.y, decimals=3)))
+ self.assertIsNone(self.sup.transformed_coords)
+ self.assertIsNone(self.sup.rot)
+ self.assertIsNone(self.sup.tran)
+ self.assertIsNone(self.sup.rms)
+ self.assertIsNone(self.sup.init_rms)
+
+ def test_run(self):
+ self.sup.run()
+ self.assertTrue(
+ array_equal(around(self.sup.reference_coords, decimals=3), around(self.x, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.coords, decimals=3), around(self.y, decimals=3)))
+ self.assertIsNone(self.sup.transformed_coords)
+ calc_rot = array([[0.68304939, -0.5227742, -0.51004967],
+ [0.53664482, 0.83293151, -0.13504605],
+ [0.49543503, -0.18147239, 0.84947743]])
+ self.assertTrue(
+ array_equal(around(self.sup.rot, decimals=3), around(calc_rot, decimals=3)))
+ calc_tran = array([-7.43885125, 36.51522275, 36.81135533])
+ self.assertTrue(
+ array_equal(around(self.sup.tran, decimals=3), around(calc_tran, decimals=3)))
+ calc_rms = 0.003
+ self.assertEqual(float('%.3f' % self.sup.rms), calc_rms)
+ self.assertIsNone(self.sup.init_rms)
+
+ def test_get_transformed(self):
+ self.sup.run()
+ transformed_coords = array([[49.05456082, -1.23928381, 50.58427566],
+ [50.02204971, -0.39367917, 51.42494181],
+ [51.47738545, -0.57287128, 51.06760944],
+ [52.39602307, -0.98417088, 52.03318837]])
+ self.assertTrue(
+ array_equal(around(self.sup.get_transformed(), decimals=3), around(transformed_coords, decimals=3)))
+
+ def test_get_init_rms(self):
+ x = array([[1.1, 1.2, 1.3],
+ [1.4, 1.5, 1.6],
+ [1.7, 1.8, 1.9]])
+ y = array([[1.0, 1.0, 1.0],
+ [1.0, 1.0, 1.0],
+ [1.0, 1.0, 1.0]])
+ self.sup.set(x, y)
+ self.assertIsNone(self.sup.init_rms)
+ init_rms = array([0.81, 0.9, 0.98])
+ self.assertTrue(
+ array_equal(around(self.sup.get_init_rms(), decimals=2), around(init_rms, decimals=2)))
+
+ def test_get_rotran(self):
+ self.sup.run()
+ calc_rot = array([[0.68304939, -0.5227742, -0.51004967],
+ [0.53664482, 0.83293151, -0.13504605],
+ [0.49543503, -0.18147239, 0.84947743]])
+ calc_tran = array([-7.43885125, 36.51522275, 36.81135533])
+ rot, tran = self.sup.get_rotran()
+ self.assertTrue(
+ array_equal(around(rot, decimals=3), around(calc_rot, decimals=3)))
+ self.assertTrue(
+ array_equal(around(tran, decimals=3), around(calc_tran, decimals=3)))
+
+ def test_get_rms(self):
+ self.sup.run()
+ calc_rms = 0.003
+ self.assertEqual(float('%.3f' % self.sup.get_rms()), calc_rms)
+
+ # Old test from Bio/PDB/QCPSuperimposer/__init__.py
+
+ def test_oldTest(self):
+ x = array([[-2.803, -15.373, 24.556],
+ [0.893, -16.062, 25.147],
+ [1.368, -12.371, 25.885],
+ [-1.651, -12.153, 28.177],
+ [-0.440, -15.218, 30.068],
+ [2.551, -13.273, 31.372],
+ [0.105, -11.330, 33.567]])
+
+ y = array([[-14.739, -18.673, 15.040],
+ [-12.473, -15.810, 16.074],
+ [-14.802, -13.307, 14.408],
+ [-17.782, -14.852, 16.171],
+ [-16.124, -14.617, 19.584],
+ [-15.029, -11.037, 18.902],
+ [-18.577, -10.001, 17.996]])
+
+ self.sup.set(x, y)
+ self.assertTrue(
+ array_equal(around(self.sup.reference_coords, decimals=3), around(x, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.coords, decimals=3), around(y, decimals=3)))
+
+ self.sup.run()
+ rot = array([[0.72216358, 0.69118937, -0.0271479],
+ [-0.52038257, 0.51700833, -0.67963547],
+ [-0.45572112, 0.50493528, 0.73304748]])
+ tran = array([11.68878393, -4.13245037, 6.05208344])
+ rms = 0.7191064509622271
+ self.assertTrue(
+ array_equal(around(self.sup.rot, decimals=3), around(rot, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.tran, decimals=3), around(tran, decimals=3)))
+ self.assertEqual(float('%.3f' % self.sup.rms), around(rms, decimals=3))
+
+ rms_get = self.sup.get_rms()
+ self.assertTrue(
+ array_equal(around(rms_get, decimals=3), around(rms, decimals=3)))
+
+ rot_get, tran_get = self.sup.get_rotran()
+ self.assertTrue(
+ array_equal(around(rot_get, decimals=3), around(rot, decimals=3)))
+ self.assertTrue(
+ array_equal(around(tran_get, decimals=3), around(tran, decimals=3)))
+
+ y_on_x1 = dot(y, rot) + tran
+ y_x_solution = array([[3.90787281, -16.37976032, 30.16808376],
+ [3.58322456, -12.81122728, 28.91874135],
+ [1.3580194, -13.96815768, 26.05958411],
+ [-0.79347336, -15.93647897, 28.48288439],
+ [-1.27379224, -12.9456459, 30.78004989],
+ [-2.03519089, -10.6822696, 27.81728956],
+ [-4.72366028, -13.05646024, 26.54536695]])
+ self.assertTrue(
+ array_equal(around(y_on_x1, decimals=3), around(y_x_solution, decimals=3)))
+
+ y_on_x2 = self.sup.get_transformed()
+ self.assertTrue(
+ array_equal(around(y_on_x2, decimals=3), around(y_x_solution, decimals=3)))
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_RCSBFormats.py b/Tests/test_RCSBFormats.py
index 5f64dc5..f113f43 100644
--- a/Tests/test_RCSBFormats.py
+++ b/Tests/test_RCSBFormats.py
@@ -65,6 +65,7 @@ class CompareStructures(unittest.TestCase):
self.assertEqual([i[0] for i in cif_chains], [i[0] for i in pdb_chains])
self.assertEqual([i[1] for i in cif_chains], [i[1] for i in pdb_chains])
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_Restriction.py b/Tests/test_Restriction.py
index 25e3693..c26279d 100644
--- a/Tests/test_Restriction.py
+++ b/Tests/test_Restriction.py
@@ -3,33 +3,107 @@
# as part of this package.
#
-"""Testing code for Restriction enzyme classes of Biopython.
-"""
+"""Testing code for Restriction enzyme classes of Biopython."""
-import unittest
-
-from Bio.Restriction import *
-from Bio.Seq import Seq
+from Bio.Restriction import Analysis, Restriction, RestrictionBatch
+from Bio.Restriction import CommOnly, NonComm, AllEnzymes
+from Bio.Restriction import (Acc65I, Asp718I, BamHI, EcoRI, EcoRV, KpnI, SmaI,
+ MluCI, McrI, NdeI, BsmBI, AanI, EarI, SnaI)
+from Bio.Restriction import FormattedSeq
+from Bio.Seq import Seq, MutableSeq
from Bio.Alphabet.IUPAC import IUPACAmbiguousDNA
+from Bio import BiopythonWarning
+
+
+from sys import version_info
+if version_info[0] < 3:
+ try:
+ import unittest2 as unittest
+ except ImportError:
+ from Bio import MissingPythonDependencyError
+ raise MissingPythonDependencyError("Under Python 2 this test needs "
+ "the unittest2 library")
+else:
+ import unittest
+
+
+class SequenceTesting(unittest.TestCase):
+ """Tests for dealing with input."""
+
+ def test_sequence_object(self):
+ """Test if sequence must be a Seq or MutableSeq object."""
+ with self.assertRaises(TypeError):
+ seq = FormattedSeq('GATC')
+ seq = FormattedSeq(Seq('TAGC'))
+ seq = FormattedSeq(MutableSeq('AGTC'))
+ seq = FormattedSeq(seq)
+ with self.assertRaises(TypeError):
+ EcoRI.search('GATC')
+ EcoRI.search(Seq('ATGC'))
+ EcoRI.search(MutableSeq('TCAG'))
+
+ def test_non_iupac_letters(self):
+ """Test if non-IUPAC letters raise a TypeError."""
+ with self.assertRaises(TypeError):
+ seq = FormattedSeq(Seq('GATCZ'))
+
+ def test_formatted_seq(self):
+ """Test several methods of FormattedSeq."""
+ self.assertEqual(str(FormattedSeq(Seq('GATC'))),
+ "FormattedSeq(Seq('GATC', Alphabet()), linear=True)")
+ self.assertFalse(FormattedSeq(Seq('GATC')) ==
+ FormattedSeq(Seq('TAGC')))
+ self.assertFalse(FormattedSeq(Seq('TAGC')) == Seq('TAGC'))
+ self.assertTrue(FormattedSeq(Seq('ATGC')) ==
+ FormattedSeq(Seq('ATGC')))
+ linear_seq = FormattedSeq(Seq('T'))
+ self.assertTrue(linear_seq.is_linear())
+ linear_seq.circularise()
+ self.assertFalse(linear_seq.is_linear())
+ linear_seq.linearise()
+ circular_seq = linear_seq.to_circular()
+ self.assertFalse(circular_seq.is_linear())
+ linear_seq = circular_seq.to_linear()
+ self.assertTrue(linear_seq.is_linear())
class SimpleEnzyme(unittest.TestCase):
- """Tests for dealing with basic enzymes using the Restriction package.
- """
+ """Tests for dealing with basic enzymes using the Restriction package."""
+
+ def test_init(self):
+ """Check for error during __init__."""
+ with self.assertRaises(ValueError) as ve:
+ Restriction.OneCut('bla-me', (Restriction.RestrictionType,),
+ dict())
+ self.assertIn('hyphen', str(ve.exception))
+
def setUp(self):
+ """Set up some sequences for later use."""
base_seq = Seq("AAAA", IUPACAmbiguousDNA())
self.ecosite_seq = base_seq + Seq(EcoRI.site,
- IUPACAmbiguousDNA()) + base_seq
+ IUPACAmbiguousDNA()) + base_seq
+ self.smasite_seq = base_seq + Seq(SmaI.site,
+ IUPACAmbiguousDNA()) + base_seq
+ self.kpnsite_seq = base_seq + Seq(KpnI.site,
+ IUPACAmbiguousDNA()) + base_seq
def test_eco_cutting(self):
- """Test basic cutting with EcoRI.
- """
+ """Test basic cutting with EcoRI (5'overhang)."""
self.assertEqual(EcoRI.site, 'GAATTC')
+ self.assertTrue(EcoRI.cut_once())
self.assertFalse(EcoRI.is_blunt())
self.assertTrue(EcoRI.is_5overhang())
self.assertFalse(EcoRI.is_3overhang())
+ self.assertEqual(EcoRI.overhang(), "5' overhang")
+ self.assertTrue(EcoRI.is_defined())
+ self.assertFalse(EcoRI.is_ambiguous())
+ self.assertFalse(EcoRI.is_unknown())
+ self.assertTrue(EcoRI.is_palindromic())
+ self.assertTrue(EcoRI.is_comm())
+ self.assertIn('Life Technologies', EcoRI.supplier_list())
self.assertEqual(EcoRI.elucidate(), "G^AATT_C")
self.assertEqual(EcoRI.search(self.ecosite_seq), [6])
+ self.assertEqual(EcoRI.characteristic(), (1, -1, None, None, 'GAATTC'))
parts = EcoRI.catalyse(self.ecosite_seq)
self.assertEqual(len(parts), 2)
@@ -37,46 +111,157 @@ class SimpleEnzyme(unittest.TestCase):
parts = EcoRI.catalyze(self.ecosite_seq)
self.assertEqual(len(parts), 2)
+ def test_kpn_cutting(self):
+ """Test basic cutting with KpnI (3'overhang)."""
+ self.assertTrue(KpnI.is_3overhang())
+ self.assertFalse(KpnI.is_5overhang())
+ self.assertFalse(KpnI.is_blunt())
+ self.assertEqual(KpnI.overhang(), "3' overhang")
+ parts = KpnI.catalyse(self.kpnsite_seq)
+ self.assertEqual(len(parts), 2)
+ self.assertEqual(KpnI.catalyse(self.kpnsite_seq),
+ KpnI.catalyze(self.kpnsite_seq))
+
+ def test_sma_cutting(self):
+ """Test basic cutting with SmaI (blunt cutter)."""
+ self.assertTrue(SmaI.is_blunt())
+ self.assertFalse(SmaI.is_3overhang())
+ self.assertFalse(SmaI.is_5overhang())
+ self.assertEqual(SmaI.overhang(), 'blunt')
+ parts = SmaI.catalyse(self.smasite_seq)
+ self.assertEqual(len(parts), 2)
+ self.assertEqual(str(parts[1]), "GGGAAAA")
+ parts = SmaI.catalyze(self.smasite_seq)
+ self.assertEqual(len(parts), 2)
+
+ def test_ear_cutting(self):
+ """Test basic cutting with EarI (ambiguous overhang)."""
+ self.assertFalse(EarI.is_palindromic())
+ self.assertFalse(EarI.is_defined())
+ self.assertTrue(EarI.is_ambiguous())
+ self.assertFalse(EarI.is_unknown())
+ self.assertEqual(EarI.elucidate(), 'CTCTTCN^NNN_N')
+
+ def test_sna_cutting(self):
+ """Test basic cutting with SnaI (unknown)."""
+ self.assertEqual(SnaI.elucidate(), '? GTATAC ?')
+ self.assertFalse(SnaI.is_defined())
+ self.assertFalse(SnaI.is_ambiguous())
+ self.assertTrue(SnaI.is_unknown())
+ self.assertFalse(SnaI.is_comm())
+ self.assertEqual(SnaI.suppliers(), None)
+ self.assertEqual(SnaI.supplier_list(), [])
+ with self.assertRaises(TypeError):
+ SnaI.buffers('no company')
+
def test_circular_sequences(self):
- """Deal with cutting circular sequences.
- """
+ """Deal with cutting circular sequences."""
parts = EcoRI.catalyse(self.ecosite_seq, linear=False)
self.assertEqual(len(parts), 1)
locations = EcoRI.search(parts[0], linear=False)
self.assertEqual(locations, [1])
+ parts = KpnI.catalyse(self.kpnsite_seq, linear=False)
+ self.assertEqual(len(parts), 1)
+ locations = KpnI.search(parts[0], linear=False)
+ self.assertEqual(locations, [1])
+
+ parts = SmaI.catalyse(self.smasite_seq, linear=False)
+ self.assertEqual(len(parts), 1)
+ locations = SmaI.search(parts[0], linear=False)
+ self.assertEqual(locations, [1])
+
+ self.assertEqual(EarI.search(FormattedSeq(Seq('CTCTTCAAAAA')),
+ linear=False), [8])
+ self.assertEqual(SnaI.search(FormattedSeq(Seq('GTATACAAAAA')),
+ linear=False), [1])
+
+ def test_shortcuts(self):
+ """Check if '/' and '//' work as '.search' and '.catalyse'."""
+ self.assertEqual(EcoRI / self.ecosite_seq, [6])
+ self.assertEqual(self.ecosite_seq / EcoRI, [6])
+ self.assertEqual(len(EcoRI // self.ecosite_seq), 2)
+ self.assertEqual(len(self.ecosite_seq // EcoRI), 2)
+
+ def test_cutting_border_positions(self):
+ """Check if cutting after first and penultimate position works."""
+ # Use EarI, cuts as follows: CTCTTCN^NNN_N
+ seq = Seq('CTCTTCA')
+ self.assertEqual(EarI.search(seq), [])
+ seq += 'A'
+ self.assertEqual(EarI.search(seq), [8])
+ # Recognition site on reverse-complement strand
+ seq = Seq('AAAAGAAGAG')
+ self.assertEqual(EarI.search(seq), [])
+ seq = 'A' + seq
+ self.assertEqual(EarI.search(seq), [2])
+
+ def test_recognition_site_on_both_strands(self):
+ """Check if recognition sites on both strands are properly handled."""
+ seq = Seq('CTCTTCGAAGAG')
+ self.assertEqual(EarI.search(seq), [3, 8])
+
class EnzymeComparison(unittest.TestCase):
- """Tests for comparing various enzymes.
- """
+ """Tests for comparing various enzymes."""
+
def test_basic_isochizomers(self):
- """Test to be sure isochizomer and neoschizomers are as expected.
- """
+ """Test to be sure isochizomer and neoschizomers are as expected."""
self.assertEqual(Acc65I.isoschizomers(), [Asp718I, KpnI])
self.assertEqual(Acc65I.elucidate(), 'G^GTAC_C')
self.assertEqual(Asp718I.elucidate(), 'G^GTAC_C')
self.assertEqual(KpnI.elucidate(), 'G_GTAC^C')
+ self.assertTrue(Acc65I.is_isoschizomer(KpnI))
+ self.assertFalse(Acc65I.is_equischizomer(KpnI))
+ self.assertTrue(Acc65I.is_neoschizomer(KpnI))
+ self.assertIn(Acc65I, Asp718I.equischizomers())
+ self.assertIn(KpnI, Asp718I.neoschizomers())
+ self.assertIn(KpnI, Acc65I.isoschizomers())
def test_comparisons(self):
- """Comparison operators between iso and neoschizomers.
- """
+ """Test comparison operators between different enzymes."""
+ # Comparison of iso- and neoschizomers
self.assertEqual(Acc65I, Acc65I)
self.assertNotEqual(Acc65I, KpnI)
self.assertFalse(Acc65I == Asp718I)
self.assertFalse(Acc65I != Asp718I)
self.assertNotEqual(Acc65I, EcoRI)
-
self.assertTrue(Acc65I >> KpnI)
self.assertFalse(Acc65I >> Asp718I)
+ # Compare length of recognition sites
+ self.assertFalse(EcoRI >= EcoRV)
+ self.assertTrue(EcoRV >= EcoRI)
+ with self.assertRaises(NotImplementedError):
+ EcoRV >= 3
+ self.assertFalse(EcoRI > EcoRV)
+ self.assertTrue(EcoRV > EcoRI)
+ with self.assertRaises(NotImplementedError):
+ EcoRV > 3
+ self.assertTrue(EcoRI <= EcoRV)
+ self.assertFalse(EcoRV <= EcoRI)
+ with self.assertRaises(NotImplementedError):
+ EcoRV <= 3
+ self.assertTrue(EcoRI < EcoRV)
+ self.assertFalse(EcoRV < EcoRI)
+ with self.assertRaises(NotImplementedError):
+ EcoRV < 3
+
+ # Compare compatible overhangs
self.assertTrue(Acc65I % Asp718I)
self.assertTrue(Acc65I % Acc65I)
self.assertFalse(Acc65I % KpnI)
+ with self.assertRaises(TypeError):
+ Acc65I % 'KpnI'
+ self.assertTrue(SmaI % EcoRV)
+ self.assertTrue(EarI % EarI)
+ self.assertIn(EcoRV, SmaI.compatible_end())
+ self.assertIn(Acc65I, Asp718I.compatible_end())
class RestrictionBatchPrintTest(unittest.TestCase):
- """Tests Restriction.Analysis printing functionality.
- """
+ """Tests Restriction.Analysis printing functionality."""
+
def createAnalysis(self, seq_str, batch_ary):
"""Restriction.Analysis creation helper method."""
rb = Restriction.RestrictionBatch(batch_ary)
@@ -84,7 +269,11 @@ class RestrictionBatchPrintTest(unittest.TestCase):
return Restriction.Analysis(rb, seq)
def assertAnalysisFormat(self, analysis, expected):
- """Asserts that the Restriction.Analysis make_format(print_that) matches some string."""
+ """Test make_format.
+
+ Test that the Restriction.Analysis make_format(print_that) matches
+ some string.
+ """
dct = analysis.mapping
ls, nc = [], []
for k, v in dct.items():
@@ -96,13 +285,15 @@ class RestrictionBatchPrintTest(unittest.TestCase):
self.assertEqual(result.replace(' ', ''), expected.replace(' ', ''))
def test_make_format_map1(self):
- """Make sure print_as('map'); print_that() does not error on wrap round with no markers.
+ """Test that print_as('map'); print_that() correctly wraps round.
+
+ 1. With no marker.
"""
analysis = self.createAnalysis(
- 'CCAGTCTATAATTCG' +
- Restriction.BamHI.site +
- 'GCGGCATCATACTCGAATATCGCGTGATGATACGTAGTAATTACGCATG',
- ["BamHI"])
+ 'CCAGTCTATAATTCG' +
+ Restriction.BamHI.site +
+ 'GCGGCATCATACTCGAATATCGCGTGATGATACGTAGTAATTACGCATG',
+ ["BamHI"])
analysis.print_as('map')
expected = [
" 17 BamHI",
@@ -120,17 +311,19 @@ class RestrictionBatchPrintTest(unittest.TestCase):
self.assertAnalysisFormat(analysis, '\n'.join(expected))
def test_make_format_map2(self):
- """Make sure print_as('map'); print_that() does not error on wrap round with marker.
+ """Test that print_as('map'); print_that() correctly wraps round.
+
+ 2. With marker.
"""
analysis = self.createAnalysis(
- 'CCAGTCTATAATTCG' +
- Restriction.BamHI.site +
- 'GCGGCATCATACTCGA' +
- Restriction.BamHI.site +
- 'ATATCGCGTGATGATA' +
- Restriction.NdeI.site +
- 'CGTAGTAATTACGCATG',
- ["NdeI", "EcoRI", "BamHI", "BsmBI"])
+ 'CCAGTCTATAATTCG' +
+ Restriction.BamHI.site +
+ 'GCGGCATCATACTCGA' +
+ Restriction.BamHI.site +
+ 'ATATCGCGTGATGATA' +
+ Restriction.NdeI.site +
+ 'CGTAGTAATTACGCATG',
+ ["NdeI", "EcoRI", "BamHI", "BsmBI"])
analysis.print_as('map')
expected = [
" 17 BamHI",
@@ -152,17 +345,19 @@ class RestrictionBatchPrintTest(unittest.TestCase):
self.assertAnalysisFormat(analysis, '\n'.join(expected))
def test_make_format_map3(self):
- """Make sure print_as('map'); print_that() does not error on wrap round with marker restricted.
+ """Test that print_as('map'); print_that() correctly wraps round.
+
+ 3. With marker restricted.
"""
analysis = self.createAnalysis(
- 'CCAGTCTATAATTCG' +
- Restriction.BamHI.site +
- 'GCGGCATCATACTCGA' +
- Restriction.BamHI.site +
- 'ATATCGCGTGATGATA' +
- Restriction.EcoRV.site +
- 'CGTAGTAATTACGCATG',
- ["NdeI", "EcoRI", "BamHI", "BsmBI"])
+ 'CCAGTCTATAATTCG' +
+ Restriction.BamHI.site +
+ 'GCGGCATCATACTCGA' +
+ Restriction.BamHI.site +
+ 'ATATCGCGTGATGATA' +
+ Restriction.EcoRV.site +
+ 'CGTAGTAATTACGCATG',
+ ["NdeI", "EcoRI", "BamHI", "BsmBI"])
analysis.print_as('map')
expected = [
" 17 BamHI",
@@ -181,47 +376,214 @@ class RestrictionBatchPrintTest(unittest.TestCase):
"", ""]
self.assertAnalysisFormat(analysis, '\n'.join(expected))
+ def test_change(self):
+ """Test that change() changes something."""
+ seq = Seq('CCAGTCTATAATTCG' + BamHI.site +
+ 'GCGGCATCATACTCGA' + BamHI.site +
+ 'ATATCGCGTGATGATA' + EcoRV.site +
+ 'CGTAGTAATTACGCATG')
+ batch = NdeI + EcoRI + BamHI + BsmBI
+ analysis = Analysis(batch, seq)
+ self.assertEqual(analysis.full()[BamHI], [17, 39])
+ batch = NdeI + EcoRI + BsmBI
+ seq += NdeI.site
+ analysis.change(sequence=seq)
+ analysis.change(rb=batch)
+ self.assertEqual(len(analysis.full()), 3)
+ self.assertEqual(analysis.full()[NdeI], [85])
+ with self.assertRaises(AttributeError):
+ analysis.change(**{'NameWidth': 3, 'KonsoleWidth': 40}) # Console
+
class RestrictionBatches(unittest.TestCase):
- """Tests for dealing with batches of restriction enzymes.
- """
+ """Tests for dealing with batches of restriction enzymes."""
+
def test_creating_batch(self):
- """Creating and modifying a restriction batch.
- """
+ """Creating and modifying a restriction batch."""
+ batch = RestrictionBatch()
+ self.assertEqual(batch.suppl_codes()['N'], 'New England Biolabs')
+ self.assertTrue(batch.is_restriction(EcoRI))
batch = RestrictionBatch([EcoRI])
batch.add(KpnI)
batch += EcoRV
self.assertEqual(len(batch), 3)
+ self.assertEqual(batch.elements(), ['EcoRI', 'EcoRV', 'KpnI'])
+ # Problem with Python 3, as sequence of list may be different:
+ # self.assertEqual(batch.as_string(), ['EcoRI', 'KpnI', 'EcoRV'])
+ self.assertIn('EcoRI', batch.as_string())
# The usual way to test batch membership
- self.assertTrue(EcoRV in batch)
- self.assertTrue(EcoRI in batch)
- self.assertTrue(KpnI in batch)
- self.assertTrue(SmaI not in batch)
+ self.assertIn(EcoRV, batch)
+ self.assertIn(EcoRI, batch)
+ self.assertIn(KpnI, batch)
+ self.assertNotIn(SmaI, batch)
# Syntax sugar for the above
- self.assertTrue('EcoRV' in batch)
- self.assertFalse('SmaI' in batch)
+ self.assertIn('EcoRV', batch)
+ self.assertNotIn('SmaI', batch)
batch.get(EcoRV)
self.assertRaises(ValueError, batch.get, SmaI)
-
+ batch.get(SmaI, add=True)
+ self.assertEqual(len(batch), 4)
+ batch.remove(SmaI)
batch.remove(EcoRV)
self.assertEqual(len(batch), 2)
- self.assertTrue(EcoRV not in batch)
- self.assertTrue('EcoRV' not in batch)
+ self.assertNotIn(EcoRV, batch)
+ self.assertNotIn('EcoRV', batch)
+
+ # Creating a batch by addition of restriction enzymes
+ new_batch = EcoRI + KpnI
+ self.assertEqual(batch, new_batch)
+ # or by addition of a batch with an enzyme
+ another_new_batch = new_batch + EcoRV
+ new_batch += EcoRV
+ self.assertEqual(another_new_batch, new_batch)
+ self.assertRaises(TypeError, EcoRI.__add__, 1)
+
+ # Create a batch with suppliers and other supplier related methods
+ # These tests may be 'update sensitive' since company names and
+ # products may change often...
+ batch = RestrictionBatch((), ('S')) # Sigma
+ self.assertEqual(batch.current_suppliers(),
+ ['Sigma Chemical Corporation'])
+ self.assertIn(EcoRI, batch)
+ self.assertNotIn(AanI, batch)
+ batch.add_supplier('B') # Life Technologies
+ self.assertIn(AanI, batch)
def test_batch_analysis(self):
- """Sequence analysis with a restriction batch.
- """
+ """Sequence analysis with a restriction batch."""
seq = Seq("AAAA" + EcoRV.site + "AAAA" + EcoRI.site + "AAAA",
- IUPACAmbiguousDNA())
+ IUPACAmbiguousDNA())
batch = RestrictionBatch([EcoRV, EcoRI])
hits = batch.search(seq)
self.assertEqual(hits[EcoRV], [8])
self.assertEqual(hits[EcoRI], [16])
+ def test_premade_batches(self):
+ """Test content of premade batches CommOnly, NoComm, AllEnzymes."""
+ self.assertTrue(len(AllEnzymes) == len(CommOnly) + len(NonComm))
+ self.assertTrue(len(AllEnzymes) > len(CommOnly) > len(NonComm))
+
+ def test_search_premade_batches(self):
+ """Test search with pre-made batches CommOnly, NoComm, AllEnzymes."""
+ seq = Seq('ACCCGAATTCAAAACTGACTGATCGATCGTCGACTG', IUPACAmbiguousDNA())
+ search = AllEnzymes.search(seq)
+ self.assertEqual(search[MluCI], [6])
+ # Check if '/' operator works as 'search':
+ search = CommOnly / seq
+ self.assertEqual(search[MluCI], [6])
+ # Also in reverse order:
+ search = seq / NonComm
+ self.assertEqual(search[McrI], [28])
+
+ def test_analysis_restrictions(self):
+ """Test Fancier restriction analysis."""
+ new_seq = Seq('TTCAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAA',
+ IUPACAmbiguousDNA())
+ rb = RestrictionBatch([EcoRI, KpnI, EcoRV])
+ ana = Analysis(rb, new_seq, linear=False)
+ # Output only the result for enzymes which cut blunt:
+ self.assertEqual(ana.blunt(), {EcoRV: []})
+ self.assertEqual(ana.full(), {KpnI: [], EcoRV: [], EcoRI: [33]})
+ # Output only the result for enzymes which have a site:
+ self.assertEqual(ana.with_sites(), {EcoRI: [33]})
+ # Output only the enzymes which have no site:
+ self.assertEqual(ana.without_site(), {KpnI: [], EcoRV: []})
+ self.assertEqual(ana.with_site_size([32]), {})
+ # Output only enzymes which produce 5' overhangs
+ self.assertEqual(ana.overhang5(), {EcoRI: [33]})
+ # Output only enzymes which produce 3' overhangs
+ self.assertEqual(ana.overhang3(), {KpnI: []})
+ # Output only enzymes which produce defined ends
+ self.assertEqual(ana.defined(), {KpnI: [], EcoRV: [], EcoRI: [33]})
+ # Output only enzymes hich cut N times
+ self.assertEqual(ana.with_N_sites(2), {})
+ # The enzymes which cut between position x and y:
+ with self.assertRaises(TypeError):
+ ana.only_between('t', 20)
+ with self.assertRaises(TypeError):
+ ana.only_between(1, 't')
+ self.assertEqual(ana.only_between(1, 20), {})
+ self.assertEqual(ana.only_between(20, 34), {EcoRI: [33]})
+ # Mix start/end order:
+ self.assertEqual(ana.only_between(34, 20), {EcoRI: [33]})
+ self.assertEqual(ana.only_outside(20, 34), {})
+ with self.assertWarns(BiopythonWarning):
+ ana.with_name(['fake'])
+ self.assertEqual(ana.with_name([EcoRI]), {EcoRI: [33]})
+ self.assertEqual((ana._boundaries(1, 20)[:2]), (1, 20))
+ # Reverse order:
+ self.assertEqual((ana._boundaries(20, 1)[:2]), (1, 20))
+ # Fix negative start:
+ self.assertEqual((ana._boundaries(-1, 20)[:2]), (20, 33))
+ # Fix negative end:
+ self.assertEqual((ana._boundaries(1, -1)[:2]), (1, 33))
+ # Sites in- and outside of boundaries
+ new_seq = Seq('GAATTCAAAAAAGAATTC', IUPACAmbiguousDNA())
+ rb = RestrictionBatch([EcoRI])
+ ana = Analysis(rb, new_seq)
+ # Cut at least inside
+ self.assertEqual(ana.between(1, 7), {EcoRI: [2, 14]})
+ # Cut at least inside and report only inside site
+ self.assertEqual(ana.show_only_between(1, 7), {EcoRI: [2]})
+ # Cut at least outside
+ self.assertEqual(ana.outside(1, 7), {EcoRI: [2, 14]})
+ # Don't cut within
+ self.assertEqual(ana.do_not_cut(7, 12), {EcoRI: [2, 14]})
+
+
+class TestPrintOutputs(unittest.TestCase):
+ """Class to test various print outputs."""
+
+ import sys
+
+ try: # Python 2
+ from StringIO import StringIO
+ except ImportError: # Python 3
+ from io import StringIO
+
+ def test_supplier(self):
+ """Test output of supplier list for different enzyme types."""
+ out = self.StringIO()
+ self.sys.stdout = out
+ EcoRI.suppliers()
+ self.assertIn('Life Technologies', out.getvalue())
+ self.assertEqual(SnaI.suppliers(), None)
+ EcoRI.all_suppliers() # Independent of enzyme, list of all suppliers
+ self.assertIn('Agilent Technologies', out.getvalue())
+ batch = EcoRI + SnaI
+ batch.show_codes()
+ self.assertIn('N = New England Biolabs', out.getvalue())
+ self.sys.stdout = self.sys.__stdout__
+
+ def test_print_that(self):
+ """Test print_that function."""
+ out = self.StringIO()
+ self.sys.stdout = out
+ my_batch = EcoRI + SmaI + KpnI
+ my_seq = Seq('GAATTCCCGGGATATA') # EcoRI and SmaI sites
+ analysis = Analysis(my_batch, my_seq)
+ analysis.print_that(None, title='My sequence\n\n',
+ s1='Non Cutters\n\n')
+ self.assertIn('My sequence', out.getvalue())
+ self.assertIn('Non Cutters', out.getvalue())
+ self.assertIn('2.', out.getvalue())
+ self.sys.stdout = self.sys.__stdout__
+
+ def test_str_method(self):
+ """Test __str__ and __repr__ outputs."""
+ batch = EcoRI + SmaI + KpnI
+ self.assertEqual(str(batch), 'EcoRI+KpnI+SmaI')
+ batch += Asp718I
+ batch += SnaI
+ self.assertEqual(str(batch), 'Asp718I+EcoRI...SmaI+SnaI')
+ self.assertEqual(repr(batch),
+ "RestrictionBatch(['Asp718I', 'EcoRI', 'KpnI', "
+ "'SmaI', 'SnaI'])")
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_SCOP_Astral.py b/Tests/test_SCOP_Astral.py
index 25a1e3b..7600e22 100644
--- a/Tests/test_SCOP_Astral.py
+++ b/Tests/test_SCOP_Astral.py
@@ -6,7 +6,8 @@
"""Unit test for Astral"""
import unittest
-from Bio.SCOP import *
+
+from Bio.SCOP import Astral, Scop
class AstralTests(unittest.TestCase):
@@ -24,7 +25,8 @@ class AstralTests(unittest.TestCase):
def testConstructWithCustomFile(self):
scop = Scop(dir_path="SCOP", version="test")
- astral = Astral(scop=scop, astral_file="SCOP/scopseq-test/astral-scopdom-seqres-all-test.fa")
+ astral = Astral(scop=scop,
+ astral_file="SCOP/scopseq-test/astral-scopdom-seqres-all-test.fa")
self.assertEqual(str(astral.getSeqBySid('d3sdha_')), "AAAAA")
self.assertEqual(str(astral.getSeqBySid('d4hbib_')), "KKKKK")
diff --git a/Tests/test_SCOP_Cla.py b/Tests/test_SCOP_Cla.py
index 33727e4..3bd9133 100644
--- a/Tests/test_SCOP_Cla.py
+++ b/Tests/test_SCOP_Cla.py
@@ -83,7 +83,7 @@ class ClaTests(unittest.TestCase):
index = Cla.Index(self.filename)
self.assertEqual(len(index), 14)
- self.assertTrue('d4hbia_' in index)
+ self.assertIn('d4hbia_', index)
rec = index['d1hbia_']
self.assertEqual(rec.sunid, 14996)
diff --git a/Tests/test_SCOP_Residues.py b/Tests/test_SCOP_Residues.py
index 3fdb27d..efb5199 100755
--- a/Tests/test_SCOP_Residues.py
+++ b/Tests/test_SCOP_Residues.py
@@ -6,7 +6,7 @@
"""Unit test for Residues"""
import unittest
-from Bio.SCOP.Residues import *
+from Bio.SCOP.Residues import Residues
class ResiduesTests(unittest.TestCase):
diff --git a/Tests/test_SCOP_online.py b/Tests/test_SCOP_online.py
index 59a3972..516a7a1 100644
--- a/Tests/test_SCOP_online.py
+++ b/Tests/test_SCOP_online.py
@@ -20,6 +20,7 @@ class ScopSearch(unittest.TestCase):
"""Bio.SCOP.search(...)"""
handle = SCOP.search("1JOY")
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_SVDSuperimposer.py b/Tests/test_SVDSuperimposer.py
index 9dac0a4..43332e2 100644
--- a/Tests/test_SVDSuperimposer.py
+++ b/Tests/test_SVDSuperimposer.py
@@ -1,12 +1,15 @@
+# Copyright 2017 by Maximilian Greil. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-from __future__ import print_function
+import unittest
try:
from numpy import array
from numpy import dot # missing in old PyPy's micronumpy
+ from numpy import array_equal
+ from numpy import around
from numpy.linalg import svd, det # Missing in PyPy 2.0 numpypy
except ImportError:
from Bio import MissingPythonDependencyError
@@ -15,59 +18,86 @@ except ImportError:
from Bio.SVDSuperimposer import SVDSuperimposer
-# start with two coordinate sets (Nx3 arrays - Float0)
-x = array([[51.65, -1.90, 50.07],
- [50.40, -1.23, 50.65],
- [50.68, -0.04, 51.54],
- [50.22, -0.02, 52.85]], 'f')
-
-y = array([[51.30, -2.99, 46.54],
- [51.09, -1.88, 47.58],
- [52.36, -1.20, 48.03],
- [52.71, -1.18, 49.38]], 'f')
-
-sup = SVDSuperimposer()
-
-# set the coords
-# y will be rotated and translated on x
-sup.set(x, y)
-
-# do the lsq fit
-sup.run()
-
-# get the rmsd
-rms = sup.get_rms()
-
-# get rotation (right multiplying!) and the translation
-rot, tran = sup.get_rotran()
-
-# rotate y on x manually
-y_on_x1 = dot(y, rot) + tran
-
-# same thing
-y_on_x2 = sup.get_transformed()
-
-
-def simple_matrix_print(matrix):
- """Simple string to display a floating point matrix
-
- This should give the same output on multiple systems. This is
- needed because a simple "print matrix" uses scientific notation
- which varies between platforms.
-
- Only 4 decimal places are used to avoid false test failures due
- to slight differences in the calculation (e.g. due to different
- versions of the underlying libraries or the compilation options
- they used).
- """
- return "[%s]" % "\n ".join("[%s]" % " ".join("% 1.4f" % v for v in row)
- for row in matrix)
-
-
-# output results
-print(simple_matrix_print(y_on_x1))
-print("")
-print(simple_matrix_print(y_on_x2))
-print("")
-print("%.2f" % rms)
+class SVDSuperimposerTest(unittest.TestCase):
+
+ def setUp(self):
+ self.x = array([[51.65, -1.90, 50.07],
+ [50.40, -1.23, 50.65],
+ [50.68, -0.04, 51.54],
+ [50.22, -0.02, 52.85]])
+
+ self.y = array([[51.30, -2.99, 46.54],
+ [51.09, -1.88, 47.58],
+ [52.36, -1.20, 48.03],
+ [52.71, -1.18, 49.38]])
+
+ self.sup = SVDSuperimposer()
+ self.sup.set(self.x, self.y)
+
+ def test_get_init_rms(self):
+ x = array([[1.19, 1.28, 1.37],
+ [1.46, 1.55, 1.64],
+ [1.73, 1.82, 1.91]])
+ y = array([[1.91, 1.82, 1.73],
+ [1.64, 1.55, 1.46],
+ [1.37, 1.28, 1.19]])
+ self.sup.set(x, y)
+ self.assertIsNone(self.sup.init_rms)
+ init_rms = 0.8049844719
+ self.assertTrue(
+ float('%.3f' % self.sup.get_init_rms()), float('%.3f' % init_rms))
+
+ def test_oldTest(self):
+ self.assertTrue(
+ array_equal(around(self.sup.reference_coords, decimals=3), around(self.x, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.coords, decimals=3), around(self.y, decimals=3)))
+ self.assertIsNone(self.sup.rot)
+ self.assertIsNone(self.sup.tran)
+ self.assertIsNone(self.sup.rms)
+ self.assertIsNone(self.sup.init_rms)
+
+ self.sup.run()
+ self.assertTrue(
+ array_equal(around(self.sup.reference_coords, decimals=3), around(self.x, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.coords, decimals=3), around(self.y, decimals=3)))
+ rot = array([[0.68304983, 0.53664371, 0.49543563],
+ [-0.52277295, 0.83293229, -0.18147242],
+ [-0.51005037, -0.13504564, 0.84947707]])
+ tran = array([38.78608157, -20.65451334, -15.42227366])
+ self.assertTrue(
+ array_equal(around(self.sup.rot, decimals=3), around(rot, decimals=3)))
+ self.assertTrue(
+ array_equal(around(self.sup.tran, decimals=3), around(tran, decimals=3)))
+ self.assertIsNone(self.sup.rms)
+ self.assertIsNone(self.sup.init_rms)
+
+ rms = 0.00304266526014
+ self.assertEqual(
+ float('%.3f' % self.sup.get_rms()), float('%.3f' % rms))
+
+ rot_get, tran_get = self.sup.get_rotran()
+ self.assertTrue(
+ array_equal(around(rot_get, decimals=3), around(rot, decimals=3)))
+ self.assertTrue(
+ array_equal(around(tran_get, decimals=3), around(tran, decimals=3)))
+
+ y_on_x1 = dot(self.y, rot) + tran
+ y_x_solution = array(
+ [[5.16518846e+01, -1.90018270e+00, 5.00708397e+01],
+ [5.03977138e+01, -1.22877050e+00, 5.06488200e+01],
+ [5.06801788e+01, -4.16095666e-02, 5.15368866e+01],
+ [5.02202228e+01, -1.94372374e-02, 5.28534537e+01]])
+ self.assertTrue(
+ array_equal(around(y_on_x1, decimals=3), around(y_x_solution, decimals=3)))
+
+ y_on_x2 = self.sup.get_transformed()
+ self.assertTrue(
+ array_equal(around(y_on_x2, decimals=3), around(y_x_solution, decimals=3)))
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_SearchIO_blast_text.py b/Tests/test_SearchIO_blast_text.py
index 8eec2a4..e3b8da7 100644
--- a/Tests/test_SearchIO_blast_text.py
+++ b/Tests/test_SearchIO_blast_text.py
@@ -1967,7 +1967,7 @@ class TblastxCases(BaseBlastCases):
self.assertEqual(1, len(qresult))
self.assertEqual(3, len(qresult.hsps))
hsp = qresult.hsps[0]
- self.assertTrue("PTSP" + ("-" * 79) + "AYSP" in hsp.query)
+ self.assertIn("PTSP" + ("-" * 79) + "AYSP", hsp.query)
hsp = qresult.hsps[1]
self.assertTrue(hsp.query.seq.startswith("AYSPTSPAYSPTSPAYSPTSPAYSPTSPAYS----------PTSPAYSPTSPAYSPTSPA"))
hsp = qresult.hsps[2]
diff --git a/Tests/test_SearchIO_blast_xml.py b/Tests/test_SearchIO_blast_xml.py
index 4b96f97..bc357eb 100644
--- a/Tests/test_SearchIO_blast_xml.py
+++ b/Tests/test_SearchIO_blast_xml.py
@@ -3174,14 +3174,52 @@ class BlastXmlSpecialCases(unittest.TestCase):
self.assertEqual(exp_warning, len(w), "Expected {0} warning(s), got"
" {1}".format(exp_warning, len(w)))
- # test the Hit IDs only, since this is a special case
+ self.assertEqual(qresult.blast_id, 'Query_1')
hit1 = qresult[0]
hit2 = qresult[1]
+ self.assertEqual('gnl|BL_ORD_ID|18', hit1.blast_id)
self.assertEqual('gi|347972582|ref|XM_309352.4|', hit1.id)
self.assertEqual('Anopheles gambiae str. PEST AGAP011294-PA (DEFI_ANOGA) mRNA, complete cds', hit1.description)
+ self.assertEqual('gnl|BL_ORD_ID|17', hit2.blast_id)
self.assertEqual('gnl|BL_ORD_ID|17', hit2.id)
self.assertEqual('gi|347972582|ref|XM_309352.4| Anopheles gambiae str. PEST AGAP011294-PA (DEFI_ANOGA) mRNA, complete cds', hit2.description)
+ def test_xml_2226_blastn_006_use_raw_hit_ids(self):
+ xml_file = get_file('xml_2226_blastn_006.xml')
+ qresults = parse(xml_file, FMT, use_raw_hit_ids=True)
+
+ exp_warning = 0
+ with warnings.catch_warnings(record=True) as w:
+ warnings.simplefilter('always', BiopythonParserWarning)
+ qresult = next(qresults)
+ self.assertEqual(exp_warning, len(w), "Expected {0} warning(s), got"
+ " {1}".format(exp_warning, len(w)))
+
+ self.assertEqual(qresult.blast_id, 'Query_1')
+ hit1 = qresult[0]
+ hit2 = qresult[1]
+ self.assertEqual('gnl|BL_ORD_ID|18', hit1.blast_id)
+ self.assertEqual('gnl|BL_ORD_ID|18', hit1.id)
+ self.assertEqual('gi|347972582|ref|XM_309352.4| Anopheles gambiae str. PEST AGAP011294-PA (DEFI_ANOGA) mRNA, complete cds', hit1.description)
+ self.assertEqual('gnl|BL_ORD_ID|17', hit2.blast_id)
+ self.assertEqual('gnl|BL_ORD_ID|17', hit2.id)
+ self.assertEqual('gi|347972582|ref|XM_309352.4| Anopheles gambiae str. PEST AGAP011294-PA (DEFI_ANOGA) mRNA, complete cds', hit2.description)
+
+ def test_xml_2226_blastn_006_use_raw_query_ids(self):
+ xml_file = get_file('xml_2226_blastn_006.xml')
+ qresults = parse(xml_file, FMT, use_raw_query_ids=True)
+
+ exp_warning = 1
+ with warnings.catch_warnings(record=True) as w:
+ warnings.simplefilter('always', BiopythonParserWarning)
+ qresult = next(qresults)
+ self.assertEqual(exp_warning, len(w), "Expected {0} warning(s), got"
+ " {1}".format(exp_warning, len(w)))
+
+ self.assertEqual(qresult.id, 'Query_1')
+ self.assertEqual(qresult.description, 'gi|347972582|ref|XM_309352.4| Anopheles gambiae str. PEST AGAP011294-PA (DEFI_ANOGA) mRNA, complete cds')
+ self.assertEqual(qresult.blast_id, 'Query_1')
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_SearchIO_blast_xml_index.py b/Tests/test_SearchIO_blast_xml_index.py
index c0ee0f5..866a68d 100644
--- a/Tests/test_SearchIO_blast_xml_index.py
+++ b/Tests/test_SearchIO_blast_xml_index.py
@@ -11,7 +11,6 @@ from search_tests_common import CheckRaw, CheckIndex
class BlastXmlRawCases(CheckRaw):
-
"""Check BLAST XML get_raw method."""
fmt = 'blast-xml'
diff --git a/Tests/test_SearchIO_blat_psl.py b/Tests/test_SearchIO_blat_psl.py
index 9f3f0bd..71005eb 100644
--- a/Tests/test_SearchIO_blat_psl.py
+++ b/Tests/test_SearchIO_blat_psl.py
@@ -973,6 +973,97 @@ class BlatPslCases(unittest.TestCase):
self.assertEqual([(10, 49)], hsp.query_range_all)
self.assertEqual([(553742, 553781)], hsp.hit_range_all)
+ def test_psl_35_001(self, testf='psl_35_001.psl', pslx=False):
+ """Test parsing blat output (psl_35_001.psl)"""
+ blat_file = get_file(testf)
+ self.qresults = list(parse(blat_file, FMT, pslx=pslx))
+ self.assertEqual(1, len(self.qresults))
+ # check common attributes
+ for qresult in self.qresults:
+ for hit in qresult:
+ self.assertEqual(qresult.id, hit.query_id)
+ for hsp in hit:
+ self.assertEqual(hit.id, hsp.hit_id)
+ self.assertEqual(qresult.id, hsp.query_id)
+
+ # test first qresult
+ qresult = self.qresults[0]
+ self.assertEqual('CAG33136.1', qresult.id)
+ self.assertEqual('blat', qresult.program)
+ self.assertEqual(230, qresult.seq_len)
+ self.assertEqual(2, len(qresult))
+ # first qresult, first hit
+ hit = qresult[0]
+ self.assertEqual('chr13', hit.id)
+ self.assertEqual(114364328, hit.seq_len)
+ self.assertEqual(6, len(hit.hsps))
+ # first qresult, first hit, first hsp
+ hsp = qresult[0].hsps[0]
+ self.assertEqual(52, hsp.match_num)
+ self.assertEqual(0, hsp.match_rep_num)
+ self.assertEqual(0, hsp.mismatch_num)
+ self.assertEqual(0, hsp.n_num)
+ self.assertEqual(0, hsp.query_gapopen_num)
+ self.assertEqual(0, hsp.query_gap_num)
+ self.assertEqual(0, hsp.hit_gapopen_num)
+ self.assertEqual(0, hsp.hit_gap_num)
+ self.assertEqual(0, hsp[0].query_strand)
+ self.assertEqual(61, hsp.query_start)
+ self.assertEqual(75566694, hsp.hit_start)
+ self.assertEqual(113, hsp.query_end)
+ self.assertEqual(75566850, hsp.hit_end)
+ self.assertEqual(1, len(hsp))
+ self.assertEqual([52], hsp.query_span_all)
+ self.assertEqual([156], hsp.hit_span_all)
+ self.assertEqual([(61, 113)], hsp.query_range_all)
+ self.assertEqual([(75566694, 75566850)], hsp.hit_range_all)
+
+ def test_psl_35_002(self, testf='psl_35_002.psl', pslx=False):
+ """Test parsing blat output (psl_35_002.psl)"""
+ blat_file = get_file(testf)
+ self.qresults = list(parse(blat_file, FMT, pslx=pslx))
+ self.assertEqual(1, len(self.qresults))
+ # check common attributes
+ for qresult in self.qresults:
+ for hit in qresult:
+ self.assertEqual(qresult.id, hit.query_id)
+ for hsp in hit:
+ self.assertEqual(hit.id, hsp.hit_id)
+ self.assertEqual(qresult.id, hsp.query_id)
+
+ # test first qresult
+ qresult = self.qresults[0]
+ self.assertEqual('CAG33136.1', qresult.id)
+ self.assertEqual('blat', qresult.program)
+ self.assertEqual(230, qresult.seq_len)
+ self.assertEqual(3, len(qresult))
+ # first qresult, last hit
+ hit = qresult[-1]
+ self.assertEqual('KI537194', hit.id)
+ self.assertEqual(37111980, hit.seq_len)
+ self.assertEqual(1, len(hit.hsps))
+ # # first qresult, last hit, first hsp
+ hsp = hit.hsps[-1]
+ self.assertEqual(204, hsp.match_num)
+ self.assertEqual(0, hsp.match_rep_num)
+ self.assertEqual(6, hsp.mismatch_num)
+ self.assertEqual(0, hsp.n_num)
+ self.assertEqual(1, hsp.query_gapopen_num)
+ self.assertEqual(20, hsp.query_gap_num)
+ self.assertEqual(1, hsp.hit_gapopen_num)
+ self.assertEqual(1, hsp.hit_gap_num)
+ self.assertEqual(0, hsp[0].query_strand)
+ self.assertEqual(-1, hsp[0].hit_strand)
+ self.assertEqual(0, hsp.query_start)
+ self.assertEqual(20872390, hsp.hit_start)
+ self.assertEqual(230, hsp.query_end)
+ self.assertEqual(20873021, hsp.hit_end)
+ self.assertEqual(2, len(hsp))
+ self.assertEqual([183, 27], hsp.query_span_all)
+ self.assertEqual([549, 81], hsp.hit_span_all)
+ self.assertEqual([(0, 183), (203, 230)], hsp.query_range_all)
+ self.assertEqual([(20872472, 20873021), (20872390, 20872471)], hsp.hit_range_all)
+
class BlatPslxCases(BlatPslCases):
@@ -1170,6 +1261,22 @@ class BlatPslxCases(BlatPslCases):
self.assertEqual('tgggattacaggtgtgagccaccacgcccagcccctttg', str(hsp.query_all[0].seq))
self.assertEqual('tgggatgacaggggtgaggcaccacgcccagcccctttg', str(hsp.hit_all[0].seq))
+ def test_pslx_35_002(self, testf='pslx_35_002.pslx'):
+ """Test parsing blat output (pslx_35_002.pslx)"""
+ BlatPslCases.test_psl_35_002(self, 'pslx_35_002.pslx', pslx=True)
+
+ # first qresult, last hit, first hsp
+ qresult = self.qresults[0]
+ hsp = qresult[-1].hsps[0]
+
+ self.assertEqual('MEGQRWLPLEANPEVTNQFLKQLGLHPNWQFVDVY', str(hsp.query_all[0].seq)[:35])
+ self.assertEqual('ETSAHEGQTEAPSIDEKVDLHFIALVHVDGHLYEL', str(hsp.query_all[0].seq)[-35:])
+ self.assertEqual('DAIEVCKKFMERDPDELRFNAIALSAA', str(hsp.query_all[1].seq))
+
+ self.assertEqual('MESQRWLPLEANPEVTNQFLKQLGLHPNWQCVDVY', str(hsp.hit_all[0].seq)[:35])
+ self.assertEqual('ETSAHEGQTEAPNIDEKVDLHFIALVHVDGHLYEL', str(hsp.hit_all[0].seq)[-35:])
+ self.assertEqual('DAIEVCKKFMERDPDELRFNAIALSAA', str(hsp.hit_all[1].seq))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_SearchIO_exonerate.py b/Tests/test_SearchIO_exonerate.py
index 79fdcf5..a2db4c9 100644
--- a/Tests/test_SearchIO_exonerate.py
+++ b/Tests/test_SearchIO_exonerate.py
@@ -1424,6 +1424,76 @@ class ExonerateTextCases(unittest.TestCase):
self.assertEqual('RKVGRPGRKRIDSEAKSRRTAQNRAAQRAFRDRKEAKMKS', str(hsp[0].query.seq)[-40:])
self.assertEqual('RKVGRPGRKRIDSEAKSRRTAQNRAAQRAFRDRKEAKMKS', str(hsp[0].hit.seq)[-40:])
+ def test_exn_22_m_protein2genome(self):
+ """Test parsing exonerate output (exn_22_m_protein2genome.exn)"""
+
+ exn_file = get_file('exn_22_m_protein2genome.exn')
+ qresult = read(exn_file, self.fmt)
+
+ # check common attributes
+ for hit in qresult:
+ self.assertEqual(qresult.id, hit.query_id)
+ for hsp in hit:
+ self.assertEqual(hit.id, hsp.hit_id)
+ self.assertEqual(qresult.id, hsp.query_id)
+
+ self.assertEqual('sp|P24813|YAP2_YEAST', qresult.id)
+ self.assertEqual('AP-1-like transcription activator YAP2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CAD1 PE=1 SV=2', qresult.description)
+ self.assertEqual('exonerate', qresult.program)
+ self.assertEqual('protein2genome:local', qresult.model)
+ self.assertEqual(3, len(qresult))
+ # first hit
+ hit = qresult[0]
+ self.assertEqual('gi|330443520|ref|NC_001136.10|', hit.id)
+ self.assertEqual('Saccharomyces cerevisiae S288c chromosome IV, complete sequence', hit.description)
+ self.assertEqual(1, len(hit))
+ # first hit, first hsp
+ hsp = qresult[0][0]
+ self.assertEqual(2105, hsp.score)
+ self.assertEqual(0, hsp.query_strand)
+ self.assertEqual(-1, hsp.hit_strand)
+ self.assertEqual(0, hsp.query_start)
+ self.assertEqual(1318048, hsp.hit_start)
+ self.assertEqual(409, hsp.query_end)
+ self.assertEqual(1319275, hsp.hit_end)
+ self.assertEqual('MGNILRKGQQIYLAGDMKKQMLLNKDGTPKRKVGRPGRKR', str(hsp[0].query.seq)[:40])
+ self.assertEqual('MGNILRKGQQIYLAGDMKKQMLLNKDGTPKRKVGRPGRKR', str(hsp[0].hit.seq)[:40])
+ self.assertEqual('SSLDIDDLCSELIIKAKCTDDCKIVVKARDLQSALVRQLL', str(hsp[0].query.seq)[-40:])
+ self.assertEqual('SSLDIDDLCSELIIKAKCTDDCKIVVKARDLQSALVRQLL', str(hsp[0].hit.seq)[-40:])
+
+ # last hit
+ hit = qresult[-1]
+ self.assertEqual('gi|330443590|ref|NC_001140.6|', hit.id)
+ self.assertEqual('Saccharomyces cerevisiae S288c chromosome VIII, complete sequence', hit.description)
+ self.assertEqual(1, len(hit))
+ # last hit, first hsp
+ hsp = qresult[-1][0]
+ self.assertEqual(122, hsp.score)
+ self.assertEqual([0, 0], hsp.query_strand_all)
+ self.assertEqual([-1, -1], hsp.hit_strand_all)
+ self.assertEqual('RKRIDSEAKSRRTAQNRAAQRAFRDRKEAKMKSLQERX', str(hsp[0].query.seq))
+ self.assertEqual('NENVPDDSKAKKKAQNRAAQKAFRERKEARMKELQDKX', str(hsp[0].hit.seq))
+ self.assertEqual('!.!', hsp.aln_annotation_all[0]['similarity'][0])
+ self.assertEqual(':!', hsp.aln_annotation_all[0]['similarity'][-1])
+ self.assertEqual('AAT', hsp.aln_annotation_all[0]['hit_annotation'][0])
+ self.assertEqual('TT', hsp.aln_annotation_all[0]['hit_annotation'][-1])
+ self.assertEqual('XELLEQKDAQNKTTTDFLLCSLKSLLSEITKYRAKNSDDERILAFLDDLQE', str(hsp[-1].query.seq))
+ self.assertEqual('XNKILNRDPQFMSNSSFHQCVSLDSINTIEKDEEKNSDDDAGLQAATDARE', str(hsp[-1].hit.seq))
+ self.assertEqual('!', hsp.aln_annotation_all[-1]['similarity'][0])
+ self.assertEqual('|||', hsp.aln_annotation_all[-1]['similarity'][-1])
+ self.assertEqual('A', hsp.aln_annotation_all[-1]['hit_annotation'][0])
+ self.assertEqual('GAA', hsp.aln_annotation_all[-1]['hit_annotation'][-1])
+
+ self.assertEqual([(37, 74), (75, 125)], hsp.query_range_all)
+ self.assertEqual([(84533, 84646), (68450, 68601)], hsp.hit_range_all)
+ self.assertEqual([(74, 75)], hsp.query_inter_ranges)
+ self.assertEqual([(68601, 84533)], hsp.hit_inter_ranges)
+ self.assertEqual([0, 0], hsp.query_frame_all)
+ self.assertEqual([-3, -3], hsp.hit_frame_all)
+ self.assertEqual(2, len(hsp.query_all))
+ self.assertEqual(2, len(hsp.hit_all))
+ self.assertEqual(2, len(hsp.aln_annotation_all))
+
def test_exn_22_q_none(self):
"""Test parsing exonerate output (exn_22_q_none.exn)"""
exn_file = get_file('exn_22_q_none.exn')
diff --git a/Tests/test_SearchIO_hmmer2_text_index.py b/Tests/test_SearchIO_hmmer2_text_index.py
index fe841b7..fe525be 100644
--- a/Tests/test_SearchIO_hmmer2_text_index.py
+++ b/Tests/test_SearchIO_hmmer2_text_index.py
@@ -195,7 +195,7 @@ tophits_s report:
Total hits: 4
Satisfying E cutoff: 4
Total memory: 20K
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, 'Peptidase_C1', raw)
def test_hmmer2text_22_single_hmmpfam(self):
@@ -251,7 +251,7 @@ Methylase_M: domain 1 of 1, from 280 to 481: score -105.2, E = 0.0022
gi|1522636 464 ---------RFKEIIK--NWKINDINF----ST 481
//
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, 'gi|1522636|gb|AAC37060.1|', raw)
def test_hmmer2text_22_multiple_first_hmmpfam(self):
@@ -283,8 +283,8 @@ Model Domain seq-f seq-t hmm-f hmm-t score E-value
Alignments of top-scoring domains:
[no hits above thresholds]
//
-""" # noqa for pep8 W291 trailing whitespace
- self.check_raw(filename, 'random_s00', raw)
+""" # noqa : W291
+ self.check_raw(filename, 'random_s00', raw) # noqa : E101
def test_hmmer2text_22_multiple_middle_hmmpfam(self):
"""Test hmmer2-text raw string retrieval, multiple queries, hmmpfam"""
@@ -352,7 +352,7 @@ Rotavirus_VP3: domain 1 of 1, from 134 to 147: score -1.2, E = 7.9
gi|4885477 134 -KALELFRKDMASNY 147
//
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, 'gi|4885477|ref|NP_005359.1|', raw)
def test_hmmer2text_22_multiple_last_hmmpfam(self):
@@ -473,7 +473,7 @@ TFIIB: domain 1 of 1, from 253 to 268: score 2.6, E = 6.1
gi|1254903 253 ITHIANQLGLEK---DVVR 268
//
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, 'gi|125490392|ref|NP_038661.2|', raw)
diff --git a/Tests/test_SearchIO_hmmer3_domtab.py b/Tests/test_SearchIO_hmmer3_domtab.py
index 0559b90..8c7db5f 100644
--- a/Tests/test_SearchIO_hmmer3_domtab.py
+++ b/Tests/test_SearchIO_hmmer3_domtab.py
@@ -646,6 +646,7 @@ class HmmersearchCases(unittest.TestCase):
self.assertEqual(318, hsp.env_end)
self.assertEqual(0.95, hsp.acc_avg)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_SearchIO_hmmer3_text.py b/Tests/test_SearchIO_hmmer3_text.py
index 6aa788f..255ff9c 100644
--- a/Tests/test_SearchIO_hmmer3_text.py
+++ b/Tests/test_SearchIO_hmmer3_text.py
@@ -1555,6 +1555,37 @@ class HmmscanCases(unittest.TestCase):
class HmmersearchCases(unittest.TestCase):
+ def test_31b2_hmmsearch_001(self):
+ """Test parsing hmmsearch 3.1b2 (text_31b2_hmmsearch_001)"""
+
+ txt_file = get_file('text_31b2_hmmsearch_001.out')
+ qresults = list(parse(txt_file, FMT))
+
+ # Assert we deal with only 1 query
+ self.assertEqual(len(qresults), 1)
+
+ # Test whether proper query id is read
+ self.assertEqual(qresults[0].id, 'infile_sto')
+
+ # Test if proper number of hits is read
+ self.assertEqual(len(qresults[0].hits), 10)
+
+ def test_31b2_hmmsearch_002(self):
+ """Test parsing hmmsearch 3.1b2 (text_31b2_hmmsearch_002)"""
+
+ txt_file = get_file('text_31b2_hmmsearch_002.out')
+ qresults = list(parse(txt_file, FMT))
+
+ # Assert we deal with 2 queries
+ self.assertEqual(len(qresults), 2)
+
+ # Test whether proper query id is read
+ self.assertListEqual([x.id for x in qresults], ['infile_sto',
+ 'infile_sto2'])
+
+ # Test if proper number of hits is read
+ self.assertListEqual([len(x.hits) for x in qresults], [10, 10])
+
def test_31b2_hmmscan_001(self):
"""Test parsing hmmscan 3.1b2 (text_31b2_hmmscan_001)"""
diff --git a/Tests/test_SearchIO_hmmer3_text_index.py b/Tests/test_SearchIO_hmmer3_text_index.py
index 285f8ae..3775493 100644
--- a/Tests/test_SearchIO_hmmer3_text_index.py
+++ b/Tests/test_SearchIO_hmmer3_text_index.py
@@ -118,7 +118,7 @@ Domain search space (domZ): 1 [number of targets reported over t
# CPU time: 0.33u 0.16s 00:00:00.49 Elapsed: 00:00:00.21
# Mc/sec: 1757.33
//
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, "gi|4885477|ref|NP_005359.1|", raw)
def test_hmmer3text_30_multiple_last(self):
@@ -234,7 +234,7 @@ Domain search space (domZ): 5 [number of targets reported over t
# CPU time: 0.51u 0.15s 00:00:00.66 Elapsed: 00:00:00.23
# Mc/sec: 3667.47
//
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, "gi|125490392|ref|NP_038661.2|", raw)
def test_hmmer3text_30_single(self):
@@ -296,7 +296,7 @@ Domain search space (domZ): 1 [number of targets reported over t
# CPU time: 0.28u 0.17s 00:00:00.45 Elapsed: 00:00:00.21
# Mc/sec: 1757.33
//
-""" # noqa for pep8 W291 trailing whitespace
+""" # noqa : W291
self.check_raw(filename, "gi|4885477|ref|NP_005359.1|", raw)
diff --git a/Tests/test_SearchIO_model.py b/Tests/test_SearchIO_model.py
index 937d320..4635228 100644
--- a/Tests/test_SearchIO_model.py
+++ b/Tests/test_SearchIO_model.py
@@ -11,7 +11,9 @@ to all formats.
"""
+import pickle
import unittest
+from io import BytesIO
from copy import deepcopy
from search_tests_common import compare_search_obj
@@ -67,6 +69,13 @@ class QueryResultCases(unittest.TestCase):
self.qresult.seq_len = 1102
self.qresult.target = 'refseq_rna'
+ def test_pickle(self):
+ """Test pickling and unpickling of QueryResult"""
+ buf = BytesIO()
+ pickle.dump(self.qresult, buf)
+ unp = pickle.loads(buf.getvalue())
+ self.assertTrue(compare_search_obj(self.qresult, unp))
+
def test_order(self):
# added hits should be ordered
self.assertEqual(self.qresult[0], hit11)
@@ -103,7 +112,7 @@ class QueryResultCases(unittest.TestCase):
"""Test QueryResult.__iter__"""
# iteration should return hits contained
for counter, hit in enumerate(self.qresult):
- self.assertTrue(hit in (hit11, hit21, hit31))
+ self.assertIn(hit, (hit11, hit21, hit31))
self.assertEqual(2, counter)
def test_hits(self):
@@ -142,8 +151,8 @@ class QueryResultCases(unittest.TestCase):
def test_contains(self):
"""Test QueryResult.__contains__"""
# contains should work with hit ids or hit objects
- self.assertTrue('hit1' in self.qresult)
- self.assertTrue(hit21 in self.qresult)
+ self.assertIn('hit1', self.qresult)
+ self.assertIn(hit21, self.qresult)
self.assertFalse('hit5' in self.qresult)
self.assertFalse(hit41 in self.qresult)
@@ -152,7 +161,7 @@ class QueryResultCases(unittest.TestCase):
# contains should work with alternative hit IDs
hit11._id_alt = ['alt1']
query = QueryResult([hit11])
- self.assertTrue('alt1' in query)
+ self.assertIn('alt1', query)
hit11._id_alt = []
def test_len(self):
@@ -215,13 +224,13 @@ class QueryResultCases(unittest.TestCase):
query = QueryResult([hit11, hit41])
self.assertEqual(hit11, query['alt1'])
self.assertEqual(hit41, query['alt4'])
- self.assertTrue('alt1' not in query._items)
- self.assertTrue('alt1' in query._QueryResult__alt_hit_ids)
+ self.assertNotIn('alt1', query._items)
+ self.assertIn('alt1', query._QueryResult__alt_hit_ids)
query['alt1'] = hit31
self.assertEqual(hit31, query['alt1'])
self.assertEqual(hit41, query['alt4'])
- self.assertTrue('alt1' in query._items)
- self.assertTrue('alt1' not in query._QueryResult__alt_hit_ids)
+ self.assertIn('alt1', query._items)
+ self.assertNotIn('alt1', query._QueryResult__alt_hit_ids)
hit11._id_alt = []
hit41._id_alt = []
hit31._id_alt = []
@@ -551,9 +560,9 @@ class QueryResultCases(unittest.TestCase):
# this would filter out hsp113 and hsp211, effectively removing hit21
filter_func = lambda hsp: '-' not in str(hsp.fragments[0].query)
filtered = self.qresult.hsp_filter(filter_func)
- self.assertTrue('hit1' in filtered)
- self.assertTrue('hit2' not in filtered)
- self.assertTrue('hit3' in filtered)
+ self.assertIn('hit1', filtered)
+ self.assertNotIn('hit2', filtered)
+ self.assertIn('hit3', filtered)
# test hsps in hit11
self.assertTrue(all(hsp in filtered['hit1'] for hsp in
[hsp111, hsp112, hsp114]))
@@ -669,7 +678,7 @@ class QueryResultCases(unittest.TestCase):
hit = qresult.pop('alt1')
self.assertEqual(hit, hit11)
self.assertEqual([hit21], list(qresult))
- self.assertTrue('hit1' not in qresult)
+ self.assertNotIn('hit1', qresult)
hit11._id_alt = []
hit21._id_alt = []
@@ -747,6 +756,13 @@ class HitCases(unittest.TestCase):
self.hit.evalue = 5e-10
self.hit.name = 'test'
+ def test_pickle(self):
+ """Test pickling and unpickling of Hit"""
+ buf = BytesIO()
+ pickle.dump(self.hit, buf)
+ unp = pickle.loads(buf.getvalue())
+ self.assertTrue(compare_search_obj(self.hit, unp))
+
def test_init_none(self):
"""Test Hit.__init__, no arguments"""
hit = Hit()
@@ -793,7 +809,7 @@ class HitCases(unittest.TestCase):
"""Test Hit.__iter__"""
# iteration should return hsps contained
for counter, hsp in enumerate(self.hit):
- self.assertTrue(hsp in [hsp111, hsp112, hsp113])
+ self.assertIn(hsp, [hsp111, hsp112, hsp113])
self.assertEqual(2, counter)
def test_len(self):
@@ -1122,6 +1138,13 @@ class HSPMultipleFragmentCases(unittest.TestCase):
self.frag2.hit_end = 161
self.hsp = HSP([self.frag1, self.frag2])
+ def test_pickle(self):
+ """Test pickling and unpickling of HSP"""
+ buf = BytesIO()
+ pickle.dump(self.hsp, buf)
+ unp = pickle.loads(buf.getvalue())
+ self.assertTrue(compare_search_obj(self.hsp, unp))
+
def test_len(self):
"""Test HSP.__len__"""
self.assertEqual(2, len(self.hsp))
@@ -1157,8 +1180,8 @@ class HSPMultipleFragmentCases(unittest.TestCase):
def test_contains(self):
"""Test HSP.__contains__"""
frag3 = HSPFragment('hit_id', 'query_id', 'AAA', 'AAT')
- self.assertTrue(self.frag1 in self.hsp)
- self.assertTrue(frag3 not in self.hsp)
+ self.assertIn(self.frag1, self.hsp)
+ self.assertNotIn(frag3, self.hsp)
def test_fragments(self):
"""Test HSP.fragments property"""
@@ -1318,6 +1341,13 @@ class HSPFragmentCases(unittest.TestCase):
self.fragment = HSPFragment('hit_id', 'query_id', 'ATGCTAGCTACA',
'ATG--AGCTAGG')
+ def test_pickle(self):
+ """Test pickling and unpickling of HSPFragment"""
+ buf = BytesIO()
+ pickle.dump(self.fragment, buf)
+ unp = pickle.loads(buf.getvalue())
+ self.assertTrue(compare_search_obj(self.fragment, unp))
+
def test_init_with_seqrecord(self):
"""Test HSPFragment.__init__, with SeqRecord"""
# init should work with seqrecords
diff --git a/Tests/test_SearchIO_write.py b/Tests/test_SearchIO_write.py
index ffce426..eaeae11 100644
--- a/Tests/test_SearchIO_write.py
+++ b/Tests/test_SearchIO_write.py
@@ -156,6 +156,12 @@ class BlatPslWriteCases(WriteCases):
self.parse_write_and_compare(source, self.fmt, self.out, self.fmt)
self.read_write_and_compare(source, self.fmt, self.out, self.fmt)
+ def test_write_single_from_blatpsl_protein_query(self):
+ """Test blat-psl writing from blat-psl, single query (psl_35_002.psl)"""
+ source = os.path.join('Blat', 'psl_35_002.psl')
+ self.parse_write_and_compare(source, self.fmt, self.out, self.fmt)
+ self.read_write_and_compare(source, self.fmt, self.out, self.fmt)
+
def test_write_multiple_from_blatpsl(self):
"""Test blat-psl writing from blat-psl, multiple queries (psl_34_001.psl)"""
source = os.path.join('Blat', 'psl_34_001.psl')
@@ -167,6 +173,12 @@ class BlatPslWriteCases(WriteCases):
self.parse_write_and_compare(source, self.fmt, self.out, self.fmt, pslx=True)
self.read_write_and_compare(source, self.fmt, self.out, self.fmt, pslx=True)
+ def test_write_single_from_blatpslx_protein_query(self):
+ """Test blat-pslx writing from blat-pslx, single query (pslx_35_002.pslx)"""
+ source = os.path.join('Blat', 'pslx_35_002.pslx')
+ self.parse_write_and_compare(source, self.fmt, self.out, self.fmt, pslx=True)
+ self.read_write_and_compare(source, self.fmt, self.out, self.fmt, pslx=True)
+
def test_write_multiple_from_blatpslx(self):
"""Test blat-pslx writing from blat-pslx, multiple queries (pslx_34_001.pslx)"""
source = os.path.join('Blat', 'pslx_34_001.pslx')
diff --git a/Tests/test_SeqFeature.py b/Tests/test_SeqFeature.py
index 7f04128..99af007 100644
--- a/Tests/test_SeqFeature.py
+++ b/Tests/test_SeqFeature.py
@@ -1,4 +1,4 @@
-# Copyright 2015 by Kai Blin. All rights reserved.
+# Copyright 2015-2017 by Kai Blin. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -8,6 +8,7 @@
import unittest
from os import path
from Bio import SeqIO
+from Bio.SeqFeature import FeatureLocation, AfterPosition, BeforePosition, CompoundLocation
class TestReference(unittest.TestCase):
@@ -26,3 +27,84 @@ class TestReference(unittest.TestCase):
self.assertNotEqual(rec1.annotations['references'][0], rec2.annotations['references'][1])
self.assertEqual(rec1.annotations['references'][1], rec1.annotations['references'][1])
self.assertEqual(rec1.annotations['references'][1], rec2.annotations['references'][1])
+
+
+class TestFeatureLocation(unittest.TestCase):
+ """Tests for the SeqFeature.FeatureLocation class"""
+
+ def test_eq_identical(self):
+ """Test two identical locations are equal"""
+ loc1 = FeatureLocation(23, 42, 1)
+ loc2 = FeatureLocation(23, 42, 1)
+ self.assertEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, -1)
+ loc2 = FeatureLocation(23, 42, -1)
+ self.assertEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(BeforePosition(23), AfterPosition(42), 1)
+ loc2 = FeatureLocation(23, 42, 1)
+ self.assertEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, 1, 'foo', 'bar')
+ loc2 = FeatureLocation(23, 42, 1, 'foo', 'bar')
+ self.assertEqual(loc1, loc2)
+
+ def test_eq_not_identical(self):
+ """Test two different locations are not equal"""
+ loc1 = FeatureLocation(22, 42, 1)
+ loc2 = FeatureLocation(23, 42, 1)
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, 1)
+ loc2 = FeatureLocation(23, 43, 1)
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, 1)
+ loc2 = FeatureLocation(23, 42, -1)
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, 1)
+ loc2 = (23, 42, 1)
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, 1, 'foo')
+ loc2 = FeatureLocation(23, 42, 1, 'bar')
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(23, 42, 1, 'foo', 'bar')
+ loc2 = FeatureLocation(23, 42, 1, 'foo', 'baz')
+ self.assertNotEqual(loc1, loc2)
+
+
+class TestCompoundLocation(unittest.TestCase):
+ """Tests for the SeqFeature.CompoundLocation class"""
+
+ def test_eq_identical(self):
+ """Test two identical locations are equal"""
+ loc1 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1)
+ loc2 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1)
+ self.assertEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1)
+ loc2 = CompoundLocation([FeatureLocation(12, 17, 1), FeatureLocation(23, 42, 1)])
+ self.assertEqual(loc1, loc2)
+
+ def test_eq_not_identical(self):
+ """Test two different locations are not equal"""
+
+ loc1 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1)
+ loc2 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1) + FeatureLocation(50, 60, 1)
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1)
+ loc2 = FeatureLocation(12, 17, -1) + FeatureLocation(23, 42, -1)
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = CompoundLocation([FeatureLocation(12, 17, 1), FeatureLocation(23, 42, 1)])
+ loc2 = CompoundLocation([FeatureLocation(12, 17, 1), FeatureLocation(23, 42, 1)], 'order')
+ self.assertNotEqual(loc1, loc2)
+
+ loc1 = FeatureLocation(12, 17, 1) + FeatureLocation(23, 42, 1)
+ loc2 = 5
+ self.assertNotEqual(loc1, loc2)
diff --git a/Tests/test_SeqIO.py b/Tests/test_SeqIO.py
index e3b1152..44e4140 100644
--- a/Tests/test_SeqIO.py
+++ b/Tests/test_SeqIO.py
@@ -172,12 +172,14 @@ test_files = [
("embl", False, 'EMBL/AAA03323.embl', 1), # 2008, PA line but no AC
("embl", False, 'EMBL/AE017046.embl', 1), # See also NC_005816.gb
("embl", False, 'EMBL/Human_contigs.embl', 2), # contigs, no sequences
+ ("embl", False, 'EMBL/kipo_prt_sample.embl', 20), # Alt. patent ID line
# wrapped locations and unspecified type
("embl", False, 'EMBL/location_wrap.embl', 1),
# features over indented for EMBL
("embl", False, 'EMBL/A04195.imgt', 1),
# features over indented for EMBL
("imgt", False, 'EMBL/A04195.imgt', 1),
+ ("imgt", False, 'EMBL/hla_3260_sample.imgt', 8),
("stockholm", True, 'Stockholm/simple.sth', 2),
("stockholm", True, 'Stockholm/funny.sth', 6),
# Following PHYLIP files are currently only used here and in test_AlignIO.py,
@@ -262,7 +264,7 @@ class ForwardOnlyHandle(object):
def compare_record(record_one, record_two):
- """This is meant to be a strict comparison for exact agreement..."""
+ """Attempt strict SeqRecord comparison."""
assert isinstance(record_one, SeqRecord)
assert isinstance(record_two, SeqRecord)
assert record_one.seq is not None
@@ -425,7 +427,7 @@ def check_simple_write_read(records, indent=" "):
elif format == "clustal":
assert r1.id.replace(" ", "_")[:30] == r2.id, \
"'%s' vs '%s'" % (r1.id, r2.id)
- elif format == "stockholm":
+ elif format in ["stockholm", "maf"]:
assert r1.id.replace(" ", "_") == r2.id, \
"'%s' vs '%s'" % (r1.id, r2.id)
elif format == "fasta":
diff --git a/Tests/test_SeqIO_AbiIO.py b/Tests/test_SeqIO_AbiIO.py
index 8602184..feefd9e 100644
--- a/Tests/test_SeqIO_AbiIO.py
+++ b/Tests/test_SeqIO_AbiIO.py
@@ -170,6 +170,38 @@ test_data = {
'OFFS1', 'DyeZ1', 'DyeZ3', 'DyeZ2', 'DyeZ4',
'DATA9']),
},
+'test_fsa': {
+ 'path': ['Abi', 'test.fsa'],
+ 'seq': '',
+ 'sample': 'ae524aa33cc011d9990900087493610c',
+ 'sample_well': 'E1',
+ 'dye': 'F',
+ 'polymer': 'POP7 ',
+ 'machine_model': '3100',
+ 'run_start': '2004-11-22 11:58:35',
+ 'run_finish': '2004-11-22 12:42:08',
+ 'abif_raw_keys': set(['RGNm1', 'MCHN1', 'DyeW1', 'Dye#1',
+ 'InVt1', 'EVNT4', 'HCFG1', 'RunN1',
+ 'PXLB1', 'DyeB1', 'DCHT1', 'DyeN3',
+ 'DyeW2', 'DyeW3', 'DyeN2', 'SVER3',
+ 'MODL1', 'SpNm1', 'HCFG2', 'RMdX1',
+ 'LANE1', 'DATA5', 'EVNT2', 'DATA7',
+ 'SVER4', 'RMdV1', 'RUND1', 'HCFG3',
+ 'RUNT1', 'RUNT2', 'DyeB4', 'User1',
+ 'RGOw1', 'DyeW4', 'DATA1', 'CTID1',
+ 'DyeB3', 'DATA2', 'HCFG4', 'SMLt1',
+ 'EVNT3', 'CpEP1', 'EVNT1', 'Tmpr1',
+ 'Satd1', 'GTyp1', 'DySN1', 'Scan1',
+ 'CTTL1', 'RUNT3', 'RPrV1', 'RUND4',
+ 'LIMS1', 'DATA4', 'DATA6', 'DyeB2',
+ 'DyeN4', 'NLNE1', 'InSc1', 'OfSc1',
+ 'RMdN1', 'DATA3', 'MODF1', 'NAVG1',
+ 'Rate1', 'SMED1', 'RUNT4', 'LNTD1',
+ 'SVER1', 'RUND2', 'DSam1', 'CTNM1',
+ 'Scal1', 'SCAN1', 'TUBE1', 'DyeN1',
+ 'CTOw1', 'RUND3', 'RMXV1', 'EPVt1',
+ 'LsrP1', 'RPrN1', 'DATA8']),
+ },
}
test_data_fake = {
@@ -211,9 +243,10 @@ class TestAbi(unittest.TestCase):
"""Test if the extracted seqrecords data are equal to expected values."""
for trace in test_data:
record = SeqIO.read(test_data[trace]['handle'], 'abi')
- self.assertEqual(basename(test_data[trace]["path"][-1]).replace('.ab1', ''), record.name)
- self.assertEqual(test_data[trace]['seq'], str(record.seq))
- self.assertEqual(test_data[trace]['qual'], record.letter_annotations['phred_quality'])
+ if trace != 'test_fsa':
+ self.assertEqual(basename(test_data[trace]["path"][-1]).replace('.ab1', ''), record.name)
+ self.assertEqual(test_data[trace]['seq'], str(record.seq))
+ self.assertEqual(test_data[trace]['qual'], record.letter_annotations['phred_quality'])
self.assertEqual(test_data[trace]['sample'], record.id)
self.assertEqual(test_data[trace]['sample_well'], record.annotations['sample_well'])
self.assertEqual(test_data[trace]['machine_model'], record.annotations['machine_model'])
@@ -225,9 +258,9 @@ class TestAbi(unittest.TestCase):
"""Test if trim works."""
for trace in test_data:
record = SeqIO.read(test_data[trace]['handle'], 'abi-trim')
- if trace != 'data_empty':
+ if trace != 'data_empty' and trace != 'test_fsa':
self.assertNotEqual(str(record.seq), test_data[trace]['seq'])
- self.assertTrue(str(record.seq) in test_data[trace]['seq'])
+ self.assertIn(str(record.seq), test_data[trace]['seq'])
else:
self.assertEqual(str(record.seq), test_data[trace]['seq'])
diff --git a/Tests/test_SeqIO_FastaIO.py b/Tests/test_SeqIO_FastaIO.py
index e7f1868..c05dd84 100644
--- a/Tests/test_SeqIO_FastaIO.py
+++ b/Tests/test_SeqIO_FastaIO.py
@@ -11,7 +11,7 @@ from Bio._py3k import StringIO
from Bio import SeqIO
from Bio.SeqIO.FastaIO import FastaIterator
-from Bio.Alphabet import generic_protein, generic_nucleotide, generic_dna
+from Bio.Alphabet import generic_nucleotide, generic_dna
def title_to_ids(title):
@@ -70,6 +70,7 @@ def read_title_and_seq(filename):
class TitleFunctions(unittest.TestCase):
"""Cunning unit test where methods are added at run time."""
+
def simple_check(self, filename, alphabet):
"""Basic test for parsing single record FASTA files."""
title, seq = read_title_and_seq(filename) # crude parser
diff --git a/Tests/test_SeqIO_Insdc.py b/Tests/test_SeqIO_Insdc.py
index 1684c3d..9ec57c1 100644
--- a/Tests/test_SeqIO_Insdc.py
+++ b/Tests/test_SeqIO_Insdc.py
@@ -47,9 +47,9 @@ class TestEmbl(unittest.TestCase):
"""Check parsing of annotation from EMBL files (4)."""
record = SeqIO.read("EMBL/location_wrap.embl", "embl")
self.assertEqual(len(record), 120)
- self.assertTrue("keywords" not in record.annotations)
+ self.assertNotIn("keywords", record.annotations)
# The ID line has the topology as unspecified:
- self.assertTrue("topology" not in record.annotations)
+ self.assertNotIn("topology", record.annotations)
def test_writing_empty_qualifiers(self):
f = SeqFeature(FeatureLocation(5, 20, strand=+1),
@@ -61,10 +61,10 @@ class TestEmbl(unittest.TestCase):
record = SeqRecord(Seq("A" * 100, generic_dna), "dummy",
features=[f])
gbk = record.format("gb")
- self.assertTrue(' /empty\n' in gbk, gbk)
- self.assertTrue(' /zero=0\n' in gbk, gbk)
- self.assertTrue(' /one=1\n' in gbk, gbk)
- self.assertTrue(' /text="blah"\n' in gbk, gbk)
+ self.assertIn(' /empty\n', gbk)
+ self.assertIn(' /zero=0\n', gbk)
+ self.assertIn(' /one=1\n', gbk)
+ self.assertIn(' /text="blah"\n', gbk)
class TestEmblRewrite(unittest.TestCase):
diff --git a/Tests/test_SeqIO_PdbIO.py b/Tests/test_SeqIO_PdbIO.py
index 7b67348..c5ffc1d 100644
--- a/Tests/test_SeqIO_PdbIO.py
+++ b/Tests/test_SeqIO_PdbIO.py
@@ -18,6 +18,7 @@ except ImportError:
"Install NumPy if you want to use PDB formats with SeqIO.")
from Bio import SeqIO
+from Bio import BiopythonWarning
from Bio.PDB.PDBExceptions import PDBConstructionWarning
@@ -95,6 +96,7 @@ class TestPdbAtom(unittest.TestCase):
'KALGPGATLEEMMTACQG')
with warnings.catch_warnings():
warnings.simplefilter("ignore", PDBConstructionWarning)
+ warnings.simplefilter("ignore", BiopythonWarning)
chain = SeqIO.read('PDB/a_structure.pdb', 'pdb-atom')
self.assertEqual(chain.id, '????:A')
self.assertEqual(chain.annotations['chain'], 'A')
@@ -102,10 +104,9 @@ class TestPdbAtom(unittest.TestCase):
def test_atom_noheader(self):
"""Parse a PDB with no HEADER line."""
-
with warnings.catch_warnings():
warnings.simplefilter('ignore', PDBConstructionWarning)
- warnings.simplefilter('ignore', UserWarning)
+ warnings.simplefilter("ignore", BiopythonWarning)
chains = list(SeqIO.parse('PDB/1LCD.pdb', 'pdb-atom'))
self.assertEqual(len(chains), 1)
diff --git a/Tests/test_SeqIO_QualityIO.py b/Tests/test_SeqIO_QualityIO.py
index d8e62e6..e5cb2a3 100644
--- a/Tests/test_SeqIO_QualityIO.py
+++ b/Tests/test_SeqIO_QualityIO.py
@@ -84,7 +84,7 @@ def compare_record(old, new, truncate=None):
[min(q, truncate) for q in new.letter_annotations["phred_quality"]]:
pass
else:
- raise ValuerError("Mismatch in phred_quality")
+ raise ValueError("Mismatch in phred_quality")
if "solexa_quality" in old.letter_annotations \
and "solexa_quality" in new.letter_annotations \
and old.letter_annotations["solexa_quality"] != new.letter_annotations["solexa_quality"]:
@@ -135,6 +135,7 @@ def compare_records(old_list, new_list, truncate_qual=None):
class TestFastqErrors(unittest.TestCase):
"""Test reject invalid FASTQ files."""
+
def check_fails(self, filename, good_count, formats=None, raw=True):
if not formats:
formats = ["fastq-sanger", "fastq-solexa", "fastq-illumina"]
@@ -175,6 +176,7 @@ class TestFastqErrors(unittest.TestCase):
self.check_fails(filename, good_count)
self.check_general_passes(filename, count)
+
# Now add methods at run time... these FASTQ files will be rejected
# by both the low level parser AND the high level SeqRecord parser:
tests = [("diff_ids", 2),
@@ -275,6 +277,7 @@ class TestReferenceSffConversions(unittest.TestCase):
class TestReferenceFastqConversions(unittest.TestCase):
"""Tests where we have reference output."""
+
def simple_check(self, base_name, in_variant):
for out_variant in ["sanger", "solexa", "illumina"]:
in_filename = "Quality/%s_original_%s.fastq" \
@@ -324,6 +327,7 @@ for base_name, variant in tests:
class TestQual(unittest.TestCase):
"""Tests with QUAL files."""
+
def test_paired(self):
"""Check FASTQ parsing matches FASTA+QUAL parsing"""
with open("Quality/example.fasta") as f:
@@ -370,7 +374,7 @@ class TestQual(unittest.TestCase):
>1117_10_1017_F3
33 33 -1 -1 -1 27 -1 -1 17 16 -1 28 24 11 -1 6 -1 -1 -1 29 -1 8 29 24 -1 -1 8 8 -1 20 -1 13 -1 -1 8 13 -1 28 10 24 -1 10 -1 -1 -1 4 -1 -1 7 6
>1117_11_136_F3
-16 22 -1 -1 -1 33 -1 -1 30 27 -1 27 28 32 -1 29 -1 -1 -1 27 -1 18 9 6 -1 -1 23 16 -1 26 -1 5 7 -1 22 7 -1 18 14 8 -1 8 -1 -1 -1 11 -1 -1 4 24""" # noqa for pep8 W291 trailing whitespace
+16 22 -1 -1 -1 33 -1 -1 30 27 -1 27 28 32 -1 29 -1 -1 -1 27 -1 18 9 6 -1 -1 23 16 -1 26 -1 5 7 -1 22 7 -1 18 14 8 -1 8 -1 -1 -1 11 -1 -1 4 24""" # noqa : W291
h = StringIO(data)
h2 = StringIO()
with warnings.catch_warnings():
@@ -397,6 +401,7 @@ BB!!!<!!21!=9,!'!!!>!)>9!!))!5!.!!).!=+9!+!!!%!!('
class TestReadWrite(unittest.TestCase):
"""Test can read and write back files."""
+
def test_fastq_2000(self):
"""Read and write back simple example with upper case 2000bp read"""
data = "@%s\n%s\n+\n%s\n" \
@@ -454,6 +459,7 @@ class TestReadWrite(unittest.TestCase):
class TestWriteRead(unittest.TestCase):
"""Test can write and read back files."""
+
def test_generated(self):
"""Write and read back odd SeqRecord objects"""
record1 = SeqRecord(Seq("ACGT" * 500, generic_dna), id="Test", description="Long " * 500,
@@ -608,6 +614,8 @@ class TestWriteRead(unittest.TestCase):
class MappingTests(unittest.TestCase):
+ """Quality mapping tests."""
+
def test_solexa_quality_from_phred(self):
"""Mapping check for function solexa_quality_from_phred"""
self.assertEqual(-5, round(QualityIO.solexa_quality_from_phred(0)))
@@ -720,6 +728,7 @@ class MappingTests(unittest.TestCase):
class TestSFF(unittest.TestCase):
"""Test SFF specific details."""
+
def test_overlapping_clip(self):
with open("Roche/greek.sff", "rb") as handle:
record = next(SeqIO.parse(handle, "sff"))
@@ -735,6 +744,7 @@ class TestSFF(unittest.TestCase):
# Save the clipped record...
h = BytesIO()
count = SeqIO.write(record, h, "sff")
+ self.assertEqual(count, 1)
# Now reload it...
h.seek(0)
with warnings.catch_warnings(record=True) as w:
diff --git a/Tests/test_SeqIO_SeqXML.py b/Tests/test_SeqIO_SeqXML.py
index d95bbec..a1d0d39 100644
--- a/Tests/test_SeqIO_SeqXML.py
+++ b/Tests/test_SeqIO_SeqXML.py
@@ -153,8 +153,8 @@ class TestReadAndWrite(unittest.TestCase):
SeqIO.write(record, handle, "seqxml")
handle.seek(0)
output = handle.getvalue()
- self.assertTrue("Homo sapiens (Human)" in output)
- self.assertTrue("9606" in output)
+ self.assertIn("Homo sapiens (Human)", output)
+ self.assertIn("9606", output)
if '<species name="Homo sapiens (Human)" ncbiTaxID="9606"/>' in output:
# Good, but don't get this (do we?)
pass
diff --git a/Tests/test_SeqIO_convert.py b/Tests/test_SeqIO_convert.py
index db3f4bf..abc0bbc 100644
--- a/Tests/test_SeqIO_convert.py
+++ b/Tests/test_SeqIO_convert.py
@@ -14,7 +14,7 @@ from Bio import SeqIO
from Bio.SeqIO import QualityIO
from Bio.SeqIO._convert import _converter as converter_dict
from Bio._py3k import StringIO
-from Bio.Alphabet import generic_protein, generic_nucleotide, generic_dna
+from Bio.Alphabet import generic_nucleotide, generic_dna
# TODO - share this with the QualityIO tests...
@@ -110,7 +110,7 @@ def compare_record(old, new, truncate=None):
[min(q, truncate) for q in new.letter_annotations["phred_quality"]]:
pass
else:
- raise ValuerError("Mismatch in phred_quality")
+ raise ValueError("Mismatch in phred_quality")
if "solexa_quality" in old.letter_annotations \
and "solexa_quality" in new.letter_annotations \
and old.letter_annotations["solexa_quality"] != new.letter_annotations["solexa_quality"]:
@@ -161,12 +161,14 @@ def compare_records(old_list, new_list, truncate_qual=None):
class ConvertTests(unittest.TestCase):
"""Cunning unit test where methods are added at run time."""
+
def simple_check(self, filename, in_format, out_format, alphabet):
check_convert(filename, in_format, out_format, alphabet)
def failure_check(self, filename, in_format, out_format, alphabet):
check_convert_fails(filename, in_format, out_format, alphabet)
+
tests = [
("Quality/example.fastq", "fastq", None),
("Quality/example.fastq", "fastq-sanger", generic_dna),
diff --git a/Tests/test_SeqIO_features.py b/Tests/test_SeqIO_features.py
index 3fe80f3..1203a26 100644
--- a/Tests/test_SeqIO_features.py
+++ b/Tests/test_SeqIO_features.py
@@ -1,4 +1,4 @@
-# Copyright 2009-2013 by Peter Cock. All rights reserved.
+# Copyright 2009-2016 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -46,15 +46,15 @@ def write_read(filename, in_format="gb", out_formats=("gb", "embl", "imgt")):
def compare_record(old, new, expect_minor_diffs=False):
# Note the name matching is a bit fuzzy
if not expect_minor_diffs \
- and old.id != new.id and old.name != new.name \
- and (old.id not in new.id) and (new.id not in old.id) \
- and (old.id.replace(" ", "_") != new.id.replace(" ", "_")):
+ and old.id != new.id and old.name != new.name \
+ and (old.id not in new.id) and (new.id not in old.id) \
+ and (old.id.replace(" ", "_") != new.id.replace(" ", "_")):
raise ValueError("'%s' or '%s' vs '%s' or '%s' records"
% (old.id, old.name, new.id, new.name))
if len(old.seq) != len(new.seq):
raise ValueError("%i vs %i" % (len(old.seq), len(new.seq)))
if isinstance(old.seq, UnknownSeq) \
- and isinstance(new.seq, UnknownSeq):
+ and isinstance(new.seq, UnknownSeq):
# Jython didn't like us comparing the string of very long
# UnknownSeq object (out of heap memory error)
if old.seq._character.upper() != new.seq._character:
@@ -69,7 +69,7 @@ def compare_record(old, new, expect_minor_diffs=False):
return False
# Just insist on at least one word in common:
if (old.description or new.description) \
- and not set(old.description.split()).intersection(new.description.split()):
+ and not set(old.description.split()).intersection(new.description.split()):
raise ValueError("%s versus %s"
% (repr(old.description), repr(new.description)))
# This only checks common annotation
@@ -80,11 +80,18 @@ def compare_record(old, new, expect_minor_diffs=False):
# have other complications (e.g. different number of accessions
# allowed in various file formats)
continue
+ if key == "molecule_type":
+ # EMBL allows e.g. "genomics DNA" where GenBank is limited.
+ common_words = set(old.annotations[key].split()).intersection(new.annotations[key].split())
+ if not common_words:
+ raise ValueError("Annotation mis-match for molecule_type:\n%s\n%s"
+ % (old.annotations[key], new.annotations[key]))
+ continue
if key == "comment":
# Ignore whitespace
if old.annotations[key].split() != new.annotations[key].split():
raise ValueError("Annotation mis-match for comment:\n%s\n%s"
- % (old.annotations[key], new.annotations[key]))
+ % (old.annotations[key], new.annotations[key]))
continue
if key == "references":
if expect_minor_diffs:
@@ -94,7 +101,7 @@ def compare_record(old, new, expect_minor_diffs=False):
for r1, r2 in zip(old.annotations[key], new.annotations[key]):
assert r1.title == r2.title
assert r1.authors == r2.authors, \
- "Old: '%s'\nNew: '%s'" % (r1.authors, r2.authors)
+ "Old: '%s'\nNew: '%s'" % (r1.authors, r2.authors)
assert r1.journal == r2.journal
if r1.consrtm and r2.consrtm:
# Not held in EMBL files
@@ -125,7 +132,7 @@ def compare_feature(old, new):
if old.type != new.type:
raise ValueError("Type %s versus %s" % (repr(old.type), repr(new.type)))
if old.location.nofuzzy_start != new.location.nofuzzy_start \
- or old.location.nofuzzy_end != new.location.nofuzzy_end:
+ or old.location.nofuzzy_end != new.location.nofuzzy_end:
raise ValueError("%s versus %s:\n%s\nvs:\n%s"
% (old.location, new.location, repr(old), repr(new)))
if old.strand is not None and old.strand != new.strand:
@@ -137,11 +144,11 @@ def compare_feature(old, new):
if old.location_operator != new.location_operator:
raise ValueError("Different location_operator:\n%s\nvs:\n%s" % (repr(old), repr(new)))
if old.location.start != new.location.start \
- or str(old.location.start) != str(new.location.start):
+ or str(old.location.start) != str(new.location.start):
raise ValueError("Start %s versus %s:\n%s\nvs:\n%s"
% (old.location.start, new.location.start, repr(old), repr(new)))
if old.location.end != new.location.end \
- or str(old.location.end) != str(new.location.end):
+ or str(old.location.end) != str(new.location.end):
raise ValueError("End %s versus %s:\n%s\nvs:\n%s"
% (old.location.end, new.location.end, repr(old), repr(new)))
# This only checks key shared qualifiers
@@ -266,8 +273,7 @@ class SeqFeatureExtractionWritingReading(unittest.TestCase):
"""Tests for SeqFeature sequence extract method, writing, and reading."""
def check(self, parent_seq, feature, answer_str, location_str):
- self.assertEqual(location_str,
- _get_location_string(feature, len(parent_seq)))
+ self.assertEqual(location_str, _get_location_string(feature, len(parent_seq)))
new = feature.extract(parent_seq)
self.assertTrue(isinstance(new, Seq))
@@ -311,7 +317,7 @@ class SeqFeatureExtractionWritingReading(unittest.TestCase):
s = feature.extract(parent)
self.assertEqual(len(feature), len(s))
for i in feature:
- self.assertTrue(i in feature)
+ self.assertIn(i, feature)
self.assertEqual(set(feature),
set(i for i in range(1000) if i in feature))
if feature.strand == +1:
@@ -493,16 +499,14 @@ class SeqFeatureExtractionWritingReading(unittest.TestCase):
class SeqFeatureCreation(unittest.TestCase):
- """Test basic creation of SeqFeatures.
- """
+ """Test basic creation of SeqFeatures."""
def test_qualifiers(self):
- """Pass in qualifiers to SeqFeatures.
- """
+ """Pass in qualifiers to SeqFeatures."""
f = SeqFeature(FeatureLocation(10, 20), strand=+1, type="CDS")
self.assertEqual(f.qualifiers, {})
f = SeqFeature(FeatureLocation(10, 20), strand=+1, type="CDS",
- qualifiers={"test": ["a test"]})
+ qualifiers={"test": ["a test"]})
self.assertEqual(f.qualifiers["test"], ["a test"])
@@ -511,11 +515,11 @@ class FeatureWriting(unittest.TestCase):
self.record = SeqRecord(Seq("ACGT" * 100, generic_dna),
id="Test", name="Test", description="Test")
- def write_read_check(self, format):
+ def write_read_check(self, check_format):
handle = StringIO()
- SeqIO.write([self.record], handle, format)
+ SeqIO.write([self.record], handle, check_format)
handle.seek(0)
- record2 = SeqIO.read(handle, format)
+ record2 = SeqIO.read(handle, check_format)
compare_record(self.record, record2)
def write_read_checks(self, formats=("gb", "embl", "imgt")):
@@ -735,9 +739,8 @@ class FeatureWriting(unittest.TestCase):
f1 = SeqFeature(FeatureLocation(AfterPosition(310), 320), strand=-1)
# Note - is one-of(340,337) allowed or should it be one-of(337,340)?
- f2 = SeqFeature(FeatureLocation(325, OneOfPosition(340, [ExactPosition(340),
- ExactPosition(337)])),
- strand=-1)
+ pos = OneOfPosition(340, [ExactPosition(340), ExactPosition(337)])
+ f2 = SeqFeature(FeatureLocation(325, pos), strand=-1)
f3 = SeqFeature(FeatureLocation(345, WithinPosition(355, left=350, right=355)), strand=-1)
f = make_join_feature([f1, f2, f3], "CDS")
self.assertEqual(_get_location_string(f, 500),
@@ -1121,7 +1124,7 @@ class NC_005816(NC_000932):
if faa.id in self.skip_trans_test:
continue
if (str(translation) != str(faa.seq)) \
- and (str(translation) != str(faa.seq) + "*"):
+ and (str(translation) != str(faa.seq) + "*"):
t = SeqRecord(translation, id="Translation",
description="Table %s" % self.table)
raise ValueError("FAA vs FNA translation problem:\n%s\n%s\n%s\n"
@@ -1164,6 +1167,7 @@ class NC_005816(NC_000932):
class TestWriteRead(unittest.TestCase):
"""Test can write and read back files."""
+
def test_NC_000932(self):
"""Write and read back NC_000932.gb"""
write_read(os.path.join("GenBank", "NC_000932.gb"), "gb")
diff --git a/Tests/test_SeqIO_index.py b/Tests/test_SeqIO_index.py
index add9717..8befc3b 100644
--- a/Tests/test_SeqIO_index.py
+++ b/Tests/test_SeqIO_index.py
@@ -1,4 +1,4 @@
-# Copyright 2009-2015 by Peter Cock. All rights reserved.
+# Copyright 2009-2016 by Peter Cock. All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
@@ -8,7 +8,7 @@
try:
import sqlite3
except ImportError:
- # Try to run what tests we can on Python 2.4 or Jython
+ # Try to run what tests we can on Jython
# where we don't expect this to be installed.
sqlite3 = None
@@ -20,7 +20,7 @@ import gzip
import warnings
from io import BytesIO
-from Bio._py3k import _as_bytes, _bytes_to_string, StringIO
+from Bio._py3k import _bytes_to_string, StringIO
from Bio._py3k import _universal_read_mode
try:
@@ -71,7 +71,7 @@ if sqlite3:
"""Open SQLite index and extract filenames (as is).
Returns a 2-tuple, holding a list of strings, and the value
- of the meta_data.filenames_relative_to_index (of None).
+ of the meta_data.filenames_relative_to_index (or None).
"""
con = sqlite3.dbapi2.connect(index_filename)
@@ -98,6 +98,7 @@ if sqlite3:
>>> len(d)
54
"""
+
def setUp(self):
os.chdir(CUR_DIR)
@@ -178,6 +179,7 @@ if sqlite3:
class NewIndexTest(unittest.TestCase):
"""Check paths etc in newly built index."""
+
def setUp(self):
os.chdir(CUR_DIR)
@@ -295,6 +297,7 @@ if sqlite3:
class IndexDictTests(unittest.TestCase):
"""Cunning unit test where methods are added at run time."""
+
def setUp(self):
os.chdir(CUR_DIR)
h, self.index_tmp = tempfile.mkstemp("_idx.tmp")
@@ -454,7 +457,7 @@ class IndexDictTests(unittest.TestCase):
# Make sure boolean evaluation works
self.assertEqual(bool(keys), bool(rec_dict))
for key, id in zip(keys, ids):
- self.assertTrue(key in rec_dict)
+ self.assertIn(key, rec_dict)
self.assertEqual(id, rec_dict[key].id)
self.assertEqual(id, rec_dict.get(key).id)
# Check non-existant keys,
@@ -469,20 +472,20 @@ class IndexDictTests(unittest.TestCase):
if hasattr(dict, "iteritems"):
# Python 2.x
for key, rec in rec_dict.items():
- self.assertTrue(key in keys)
+ self.assertIn(key, keys)
self.assertTrue(isinstance(rec, SeqRecord))
- self.assertTrue(rec.id in ids)
+ self.assertIn(rec.id, ids)
else:
# Python 3
assert not hasattr(rec_dict, "iteritems")
for key, rec in rec_dict.items():
- self.assertTrue(key in keys)
+ self.assertIn(key, keys)
self.assertTrue(isinstance(rec, SeqRecord))
- self.assertTrue(rec.id in ids)
+ self.assertIn(rec.id, ids)
for rec in rec_dict.values():
- self.assertTrue(key in keys)
+ self.assertIn(key, keys)
self.assertTrue(isinstance(rec, SeqRecord))
- self.assertTrue(rec.id in ids)
+ self.assertIn(rec.id, ids)
# Check the following fail
self.assertRaises(NotImplementedError, rec_dict.popitem)
self.assertRaises(NotImplementedError, rec_dict.pop, chr(0))
@@ -514,21 +517,37 @@ class IndexDictTests(unittest.TestCase):
warnings.simplefilter('ignore', BiopythonParserWarning)
rec_dict = SeqIO.index(filename, format, alphabet,
key_function=lambda x: x.lower())
+ if sqlite3:
+ rec_dict_db = SeqIO.index_db(":memory:", filename, format, alphabet,
+ key_function=lambda x: x.lower())
else:
rec_dict = SeqIO.index(filename, format, alphabet,
key_function=lambda x: x.lower())
+ if sqlite3:
+ rec_dict_db = SeqIO.index_db(":memory:", filename, format, alphabet,
+ key_function=lambda x: x.lower())
self.assertEqual(set(id_list), set(rec_dict))
+ if sqlite3:
+ self.assertEqual(set(id_list), set(rec_dict_db))
self.assertEqual(len(id_list), len(rec_dict))
for key in id_list:
- self.assertTrue(key in rec_dict)
+ self.assertIn(key, rec_dict)
self.assertEqual(key, rec_dict[key].id.lower())
self.assertEqual(key, rec_dict.get(key).id.lower())
raw = rec_dict.get_raw(key)
self.assertTrue(isinstance(raw, bytes),
"Didn't get bytes from %s get_raw" % format)
self.assertTrue(raw.strip())
- self.assertTrue(raw in raw_file)
+ self.assertIn(raw, raw_file)
+
+ if sqlite3:
+ raw_db = rec_dict_db.get_raw(key)
+ # Via index using format-specific get_raw which scans the file,
+ # Via index_db in general using raw length found when indexing.
+ self.assertEqual(raw, raw_db,
+ "index and index_db .get_raw() different for %s" % format)
+
rec1 = rec_dict[key]
# Following isn't very elegant, but it lets me test the
# __getitem__ SFF code is working.
@@ -551,8 +570,8 @@ class IndexDictTests(unittest.TestCase):
rec_dict._proxy._alphabet,
trim=True)
elif format == "uniprot-xml":
- self.assertTrue(raw.startswith(_as_bytes("<entry ")))
- self.assertTrue(raw.endswith(_as_bytes("</entry>")))
+ self.assertTrue(raw.startswith(b"<entry "))
+ self.assertTrue(raw.endswith(b"</entry>"))
# Currently the __getitem__ method uses this
# trick too, but we hope to fix that later
raw = """<?xml version='1.0' encoding='UTF-8'?>
@@ -588,6 +607,7 @@ class IndexDictTests(unittest.TestCase):
self.assertRaises(ValueError, SeqIO.to_dict, iterator)
handle.close()
+
tests = [
("Ace/contig1.ace", "ace", generic_dna),
("Ace/consed_sample.ace", "ace", None),
@@ -604,8 +624,10 @@ tests = [
("EMBL/epo_prt_selection.embl", "embl", None),
("EMBL/U87107.embl", "embl", None),
("EMBL/TRBG361.embl", "embl", None),
+ ("EMBL/kipo_prt_sample.embl", "embl", None),
("EMBL/A04195.imgt", "embl", None), # Not a proper EMBL file, an IMGT file
("EMBL/A04195.imgt", "imgt", None),
+ ("EMBL/hla_3260_sample.imgt", "imgt", None),
("EMBL/patents.embl", "embl", generic_protein),
("EMBL/AAA03323.embl", "embl", None),
("GenBank/NC_000932.faa", "fasta", generic_protein),
diff --git a/Tests/test_SeqIO_online.py b/Tests/test_SeqIO_online.py
index 0300581..c0061eb 100644
--- a/Tests/test_SeqIO_online.py
+++ b/Tests/test_SeqIO_online.py
@@ -10,8 +10,9 @@ Uses Bio.SeqIO to parse files downloaded with Bio.GenBank, Bio.WWW.NCBI,
Bio.ExPASy etc.
Goals:
- Make sure that all retrieval is working as expected.
- May catch some format changes early too.
+ - Make sure that all retrieval is working as expected.
+ - May catch some format changes early too.
+
"""
import unittest
@@ -36,6 +37,7 @@ Entrez.email = "biopython-dev at biopython.org"
class ExPASyTests(unittest.TestCase):
"""Tests for Bio.ExPASy module."""
+
def test_get_sprot_raw(self):
"""Bio.ExPASy.get_sprot_raw("O23729")"""
identifier = "O23729"
@@ -58,6 +60,13 @@ class EntrezTests(unittest.TestCase):
f = "gb"
record = SeqIO.read(handle, f)
handle.close()
+ # NCBI still takes GI on input, but phasing it out in output
+ gi_to_acc = {
+ "6273291": "AF191665.1",
+ "16130152": "NP_416719.1",
+ }
+ if entry in gi_to_acc:
+ entry = gi_to_acc[entry]
self.assertTrue((entry in record.name) or
(entry in record.id) or
("gi" in record.annotations and
@@ -66,6 +75,7 @@ class EntrezTests(unittest.TestCase):
self.assertEqual(len(record), length)
self.assertEqual(seguid(record.seq), checksum)
+
for database, formats, entry, length, checksum in [
("nuccore", ["fasta", "gb"], "X52960", 248,
"Ktxz0HgMlhQmrKTuZpOxPZJ6zGU"),
diff --git a/Tests/test_SeqIO_write.py b/Tests/test_SeqIO_write.py
index 1fae6b3..744c6f9 100644
--- a/Tests/test_SeqIO_write.py
+++ b/Tests/test_SeqIO_write.py
@@ -12,9 +12,8 @@ from Bio import BiopythonWarning
from Bio import SeqIO
from Bio import AlignIO
from Bio.SeqRecord import SeqRecord
-from Bio.Seq import Seq, UnknownSeq
+from Bio.Seq import Seq
from Bio import Alphabet
-from Bio.Align import MultipleSeqAlignment
# List of formats including alignment only file formats we can read AND write.
@@ -51,29 +50,32 @@ test_records = [
description="an%sevil\rdescription right\nhere" % os.linesep),
SeqRecord(Seq("TTTCCTCGGAGGCCAATCTGGATCAAGACCAT", Alphabet.generic_dna), id="Z")],
"3 DNA seq alignment with CR/LF in name/descr",
- [(["genbank"], ValueError, r"Invalid whitespace in 'The\nMystery\rSequece:\r\nX' for LOCUS line")]),
+ [(["genbank"], ValueError, r"Invalid whitespace in 'The\nMystery\rSequece:\r\nX' for LOCUS line"),
+ (["mauve"], ValueError, "Sequences have different lengths, or repeated identifier")]),
([SeqRecord(Seq("CHSMAIKLSSEHNIPSGIANAL", Alphabet.generic_protein), id="Alpha"),
SeqRecord(Seq("VHGMAHPLGAFYNTPHGVANAI", Alphabet.generic_protein), id="Beta"),
SeqRecord(Seq("VHGMAHPLGAFYNTPHGVANAI", Alphabet.generic_protein), id="Beta"),
SeqRecord(Seq("HNGFTALEGEIHHLTHGEKVAF", Alphabet.generic_protein), id="Gamma")],
"alignment with repeated record",
[(["stockholm"], ValueError, "Duplicate record identifier: Beta"),
+ (["maf"], ValueError, "Identifiers in each MultipleSeqAlignment must be unique"),
(["phylip", "phylip-relaxed", "phylip-sequential"], ValueError, "Repeated name 'Beta' (originally 'Beta'), possibly due to truncation")]),
]
# Meddle with the annotation too:
assert test_records[4][1] == "3 DNA seq alignment with CR/LF in name/descr"
# Add a list of strings,
-test_records[4][0][2].annotations["note"] = ["Note%salso" % os.linesep +
- "\r\nhas\n evil line\rbreaks!", "Wow"]
+test_records[4][0][2].annotations["note"] = [
+ "Note%salso" % os.linesep + "\r\nhas\n evil line\rbreaks!", "Wow"]
# Add a simple string
-test_records[4][0][2].annotations["comment"] = ("More%sof" % os.linesep +
- "\r\nthese\n evil line\rbreaks!")
+test_records[4][0][2].annotations["comment"] = (
+ "More%sof" % os.linesep + "\r\nthese\n evil line\rbreaks!")
# Add a float too:
test_records[4][0][2].annotations["weight"] = 2.5
class WriterTests(unittest.TestCase):
"""Cunning unit test where methods are added at run time."""
+
def check(self, records, format):
"""General test function with with a little format specific information.
@@ -83,7 +85,7 @@ class WriterTests(unittest.TestCase):
lengths = len(set(len(r) for r in records))
if not records and format in ["stockholm", "phylip", "phylip-relaxed",
"phylip-sequential", "nexus", "clustal",
- "sff"]:
+ "sff", "mauve"]:
self.check_write_fails(records, format, ValueError,
"Must have at least one sequence")
elif lengths > 1 and format in AlignIO._FormatToWriter:
@@ -164,8 +166,11 @@ for (records, descr, errs) in test_records:
for err_formats, err_type, err_msg in errs:
if format in err_formats:
def funct_e(records, format, descr, err_type, err_msg):
- f = lambda x: x.check_write_fails(records, format,
- err_type, err_msg)
+ f = lambda x: x.check_write_fails(
+ records,
+ format,
+ err_type,
+ err_msg)
f.__doc__ = "%s for %s" % (format, descr)
return f
setattr(WriterTests,
diff --git a/Tests/test_SeqRecord.py b/Tests/test_SeqRecord.py
index c8e6010..8635d30 100644
--- a/Tests/test_SeqRecord.py
+++ b/Tests/test_SeqRecord.py
@@ -8,16 +8,7 @@
Initially this takes matched tests of GenBank and FASTA files from the NCBI
and confirms they are consistent using our different parsers.
"""
-import sys
-# Remove unittest2 import after dropping support for Python2.6
-if sys.version_info < (2, 7):
- try:
- import unittest2 as unittest
- except ImportError:
- from Bio import MissingPythonDependencyError
- raise MissingPythonDependencyError("Under Python 2.6 this test needs the unittest2 library")
-else:
- import unittest
+import unittest
from Bio import SeqIO
from Bio.Alphabet import generic_dna, generic_protein
@@ -136,7 +127,7 @@ class SeqRecordMethods(unittest.TestCase):
break
def test_contains(self):
- self.assertTrue(Seq("ABC", generic_protein) in self.record)
+ self.assertIn(Seq("ABC", generic_protein), self.record)
def test_str(self):
expected = """
@@ -355,7 +346,7 @@ Seq('ABCDEFGHIJKLMNOPQRSTUVWZYX', ProteinAlphabet())"""
s = SeqRecord(MutableSeq("ACTG"))
self.assertEqual("CAGT", str(s.reverse_complement().seq))
- def test_gt_exception(self):
+ def test_lt_exception(self):
def lt():
SeqRecord(Seq("A")) < SeqRecord(Seq("A"))
self.assertRaises(NotImplementedError, lt)
diff --git a/Tests/test_SeqUtils.py b/Tests/test_SeqUtils.py
index c74783c..5dd8045 100644
--- a/Tests/test_SeqUtils.py
+++ b/Tests/test_SeqUtils.py
@@ -10,7 +10,7 @@ from Bio import SeqIO
from Bio.Alphabet import single_letter_alphabet
from Bio.Seq import Seq, MutableSeq
from Bio.SeqRecord import SeqRecord
-from Bio.SeqUtils import GC, seq1, seq3
+from Bio.SeqUtils import GC, seq1, seq3, GC_skew
from Bio.SeqUtils.lcc import lcc_simp, lcc_mult
from Bio.SeqUtils.CheckSum import crc32, crc64, gcg, seguid
from Bio.SeqUtils.CodonUsage import CodonAdaptationIndex
@@ -140,6 +140,10 @@ class SeqUtilsTests(unittest.TestCase):
seq = "ACGGGCTACCGTATAGGCAAGAGATGATGCCC"
self.assertEqual(GC(seq), 56.25)
+ def test_GC_skew(self):
+ seq = "A" * 50
+ self.assertEqual(GC_skew(seq)[0], 0)
+
def test_seq1_seq3(self):
s3 = "MetAlaTyrtrpcysthrLYSLEUILEGlYPrOGlNaSnaLapRoTyRLySSeRHisTrpLysThr"
s1 = "MAYWCTKLIGPQNAPYKSHWKT"
diff --git a/Tests/test_Seq_objs.py b/Tests/test_Seq_objs.py
index d407369..203639e 100644
--- a/Tests/test_Seq_objs.py
+++ b/Tests/test_Seq_objs.py
@@ -13,7 +13,6 @@ import sys
from Bio import BiopythonWarning
from Bio.Alphabet import generic_protein, generic_nucleotide
from Bio.Alphabet import generic_dna, generic_rna
-from Bio.Alphabet import _check_type_compatible
from Bio.Alphabet.IUPAC import protein, extended_protein
from Bio.Alphabet.IUPAC import unambiguous_dna, ambiguous_dna, ambiguous_rna
from Bio.Data.IUPACData import ambiguous_dna_values, ambiguous_rna_values
@@ -182,6 +181,168 @@ class StringMethodTests(unittest.TestCase):
"""Check matches the python string count method."""
self._test_method("count", start_end=True)
+ def test_str_count_overlap_GG(self):
+ """Check our count_overlap method using GG."""
+
+ # Testing with self._examples
+ expected = [3, 3, 3, 3, 1, 1, 1, 1, 0, 0, 0, 0, # Seq() Tests
+ 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0] # UnknownSeq() Tests
+ expected *= 2 # MutableSeq() Tests
+
+ assert len(self._examples) == len(expected)
+
+ for seq, exp in zip(self._examples, expected):
+ # Using search term GG as a string
+ self.assertEqual(seq.count_overlap("GG"), exp)
+ self.assertEqual(seq.count_overlap("G" * 5), 0)
+ # Using search term GG as a Seq with generic alphabet
+ self.assertEqual(seq.count_overlap(Seq("GG")), exp)
+ self.assertEqual(seq.count_overlap(Seq("G" * 5)), 0)
+
+ def test_count_overlap_start_end_GG(self):
+ """Check our count_overlap method using GG with variable ends and starts."""
+ # Testing Seq() and MutableSeq() with variable start and end arguments
+ start_end_exp = [(1, 7, 3),
+ (3, None, 3),
+ (3, 6, 2),
+ (4, 6, 1),
+ (4, -1, 2),
+ (-5, None, 2),
+ (-5, 7, 2),
+ (7, -5, 0),
+ (-100, None, 3),
+ (None, 100, 3),
+ (-100, 1000, 3)]
+
+ testing_seq = "GTAGGGGAG"
+
+ for start, end, exp in start_end_exp:
+ self.assertEqual(Seq(testing_seq).count_overlap("GG", start, end), exp)
+ self.assertEqual(MutableSeq(testing_seq).count_overlap("GG", start, end), exp)
+
+ # Testing Seq() and MutableSeq() with a more heterogenous sequenece
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("GG"), 5)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("GG"), 5)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("GG", 2, 8), 1)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("GG", 2, 8), 1)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("GG", -11, 6), 3)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("GG", -11, 6), 3)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("GG", 7, 2), 0)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("GG", 7, 2), 0)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("GG", -2, -10), 0)
+
+ # Testing UnknownSeq() with variable start and end arguments
+ alphabet_char_start_end_exp = [(generic_rna, "N", 1, 7, 0),
+ (generic_dna, "N", 1, 7, 0),
+ (generic_rna, "N", -4, None, 0),
+ (generic_dna, "N", -4, None, 0),
+ (generic_protein, "X", 1, 7, 0)]
+
+ for alpha, char, start, end, exp in alphabet_char_start_end_exp:
+ self.assertEqual(UnknownSeq(12, alpha, char).count_overlap("GG", start, end), exp)
+ self.assertEqual(UnknownSeq(12, character="X").count_overlap("GG", 1, 7), 0)
+
+ # Testing UnknownSeq() with some more cases including unusual edge cases
+ substr_start_end_exp = [("G", 100, 105, 0),
+ ("G", -1, 4, 0),
+ ("G", 4, -1, 0),
+ ("G", -8, -2, 0),
+ ("G", -2, -8, 0),
+ ("G", 8, 2, 0),
+ ("G", 2, 8, 0),
+ ("GG", 8, 2, 0),
+ ("GG", 2, 8, 0),
+ ("GG", -5, -1, 0),
+ ("GG", 1, 5, 0),
+ ("GGG", None, None, 0),
+ ("GGGGGGGGG", None, None, 0),
+ ("GGG", 1, 2, 0)]
+
+ for substr, start, end, exp in substr_start_end_exp:
+ self.assertEqual(UnknownSeq(7, character="N").count_overlap(substr, start, end), exp)
+ self.assertEqual(UnknownSeq(7, character="N").count_overlap("GG", 1), 0)
+
+ def test_str_count_overlap_NN(self):
+ """Check our count_overlap method using NN."""
+
+ # Testing with self._examples
+ expected = [0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, # Seq() Tests
+ 0, 0, 0, 0, 0, 11, 11, 11, 0, 0, 0] # UnknownSeq() Tests
+ expected *= 2 # MutableSeq() Tests
+
+ assert len(self._examples) == len(expected)
+
+ for seq, exp in zip(self._examples, expected):
+ # Using search term NN as a string
+ self.assertEqual(seq.count_overlap("NN"), exp)
+ self.assertEqual(seq.count_overlap("N" * 13), 0)
+ # Using search term NN as a Seq with generic alphabet
+ self.assertEqual(seq.count_overlap(Seq("NN")), exp)
+ self.assertEqual(seq.count_overlap(Seq("N" * 13)), 0)
+
+ def test_count_overlap_start_end_NN(self):
+ """Check our count_overlap method using NN with variable ends and starts."""
+ # Testing Seq() and MutableSeq() with variable start and end arguments
+ start_end_exp = [(1, 7, 0),
+ (3, None, 0),
+ (3, 6, 0),
+ (4, 6, 0),
+ (4, -1, 0),
+ (-5, None, 0),
+ (-5, 7, 0),
+ (7, -5, 0),
+ (-100, None, 0),
+ (None, 100, 0),
+ (-100, 1000, 0)]
+
+ testing_seq = "GTAGGGGAG"
+
+ for start, end, exp in start_end_exp:
+ self.assertEqual(Seq(testing_seq).count_overlap("NN", start, end), exp)
+ self.assertEqual(MutableSeq(testing_seq).count_overlap("NN", start, end), exp)
+
+ # Testing Seq() and MutableSeq() with a more heterogenous sequenece
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("NN"), 0)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("NN"), 0)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("NN", 2, 8), 0)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("NN", 2, 8), 0)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("NN", -11, 6), 0)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("NN", -11, 6), 0)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("NN", 7, 2), 0)
+ self.assertEqual(MutableSeq("GGGTGGTAGGG").count_overlap("NN", 7, 2), 0)
+ self.assertEqual(Seq("GGGTGGTAGGG").count_overlap("NN", -10, -2), 0)
+
+ # Testing UnknownSeq() with variable start and end arguments
+ alphabet_char_start_end_exp = [(generic_rna, "N", 1, 7, 5),
+ (generic_dna, "N", 1, 7, 5),
+ (generic_rna, "N", -4, None, 3),
+ (generic_dna, "N", -4, None, 3),
+ (generic_protein, "X", 1, 7, 0)]
+
+ for alpha, char, start, end, exp in alphabet_char_start_end_exp:
+ self.assertEqual(UnknownSeq(12, alpha, char).count_overlap("NN", start, end), exp)
+ self.assertEqual(UnknownSeq(12, character="X").count_overlap("NN", 1, 7), 0)
+
+ # Testing UnknownSeq() with some more cases including unusual edge cases
+ substr_start_end_exp = [("N", 100, 105, 0),
+ ("N", -1, 4, 0),
+ ("N", 4, -1, 2),
+ ("N", -8, -2, 5),
+ ("N", -2, -8, 0),
+ ("N", 8, 2, 0),
+ ("N", 2, 8, 5),
+ ("NN", 8, 2, 0),
+ ("NN", 2, 8, 4),
+ ("NN", -5, -1, 3),
+ ("NN", 1, 5, 3),
+ ("NNN", None, None, 5),
+ ("NNNNNNNNN", None, None, 0),
+ ("NNN", 1, 2, 0)]
+
+ for substr, start, end, exp in substr_start_end_exp:
+ self.assertEqual(UnknownSeq(7, character="N").count_overlap(substr, start, end), exp)
+ self.assertEqual(UnknownSeq(7, character="N").count_overlap("NN", 1), 5)
+
def test_str_find(self):
"""Check matches the python string find method."""
self._test_method("find", start_end=True)
@@ -577,6 +738,7 @@ class StringMethodTests(unittest.TestCase):
# TODO - Addition...
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_SffIO.py b/Tests/test_SffIO.py
index 6edde57..b67ef2b 100644
--- a/Tests/test_SffIO.py
+++ b/Tests/test_SffIO.py
@@ -108,7 +108,7 @@ class TestErrors(unittest.TestCase):
records = list(SeqIO.parse(BytesIO(header), "sff"))
except ValueError as err:
if isinstance(msg, (tuple, list)):
- self.assertTrue(str(err) in msg, "Unexpected error: %s" % err)
+ self.assertIn(str(err), msg, "Unexpected error: %s" % err)
else:
self.assertEqual(str(err), msg)
else:
@@ -230,7 +230,6 @@ class TestErrors(unittest.TestCase):
class TestIndex(unittest.TestCase):
-
def test_manifest(self):
filename = "Roche/E3MFGYR02_random_10_reads.sff"
with open(filename, "rb") as handle:
@@ -368,6 +367,197 @@ class TestConcatenated(unittest.TestCase):
raise ValueError("Indxing Roche/invalid_paired_E3MFGYR02.sff should fail")
+class TestSelf(unittest.TestCase):
+ """These tests were originally defined in SffIO.py as self-tests."""
+
+ def test_read(self):
+ filename = "Roche/E3MFGYR02_random_10_reads.sff"
+ with open(filename, "rb") as handle:
+ sff = list(SffIterator(handle))
+ with open(filename, "rb") as handle:
+ sff_trim = list(SffIterator(handle, trim=True))
+
+ filename = "Roche/E3MFGYR02_random_10_reads_no_trim.fasta"
+ fasta_no_trim = list(SeqIO.parse(filename, "fasta"))
+ filename = "Roche/E3MFGYR02_random_10_reads_no_trim.qual"
+ qual_no_trim = list(SeqIO.parse(filename, "qual"))
+
+ filename = "Roche/E3MFGYR02_random_10_reads.fasta"
+ fasta_trim = list(SeqIO.parse(filename, "fasta"))
+ filename = "Roche/E3MFGYR02_random_10_reads.qual"
+ qual_trim = list(SeqIO.parse(filename, "qual"))
+
+ for s, sT, f, q, fT, qT in zip(sff, sff_trim, fasta_no_trim, qual_no_trim, fasta_trim, qual_trim):
+ self.assertEqual(len({s.id, f.id, q.id}), 1) # All values are the same
+ self.assertEqual(str(s.seq), str(f.seq))
+ self.assertEqual(s.letter_annotations["phred_quality"], q.letter_annotations["phred_quality"])
+ self.assertEqual(len({s.id, sT.id, fT.id, qT.id}), 1) # All values are the same
+ self.assertEqual(str(sT.seq), str(fT.seq))
+ self.assertEqual(sT.letter_annotations["phred_quality"], qT.letter_annotations["phred_quality"])
+
+ def test_write(self):
+ filename = "Roche/E3MFGYR02_random_10_reads.sff"
+ with open(filename, "rb") as handle:
+ metadata = ReadRocheXmlManifest(handle)
+ with open(filename, "rb") as handle:
+ sff = list(SffIterator(handle))
+ b_handle = BytesIO()
+ w = SffWriter(b_handle, xml=metadata)
+ w.write_file(sff) # list
+ data = b_handle.getvalue()
+ # And again with an iterator...
+ handle = BytesIO()
+ w = SffWriter(handle, xml=metadata)
+ w.write_file(iter(sff))
+ self.assertEqual(data, handle.getvalue())
+ # Check 100% identical to the original:
+ with open(filename, "rb") as handle:
+ original = handle.read()
+ self.assertEqual(len(data), len(original))
+ self.assertEqual(data, original)
+ del data
+
+ def test_index(self):
+ filename = "Roche/greek.sff"
+ # with open(filename, "rb") as handle:
+ # for record in SffIterator(handle):
+ # print(record.id)
+ with open(filename, "rb") as a_handle, open(filename, "rb") as b_handle:
+ index1 = sorted(_sff_read_roche_index(a_handle))
+ index2 = sorted(_sff_do_slow_index(b_handle))
+ self.assertEqual(index1, index2)
+
+ def test_read_wrong(self):
+ filename = "Roche/greek.sff"
+ with open(filename, "rb") as handle:
+ # print(ReadRocheXmlManifest(handle))
+ self.assertRaises(ValueError, ReadRocheXmlManifest, handle)
+
+ with open(filename, "rb") as handle:
+ for record in SffIterator(handle):
+ pass
+
+ def fileiter(handle):
+ for record in SffIterator(handle):
+ # print(record.id)
+ i = record.id
+
+ self.assertRaises(ValueError, fileiter, handle)
+
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
+
+if False:
+ # Ugly code to make test files...
+ index = ".diy1.00This is a fake index block (DIY = Do It Yourself), which is allowed under the SFF standard.\0"
+ padding = len(index) % 8
+ if padding:
+ padding = 8 - padding
+ index += chr(0) * padding
+ assert len(index) % 8 == 0
+
+ # Ugly bit of code to make a fake index at start
+ records = list(SffIterator(
+ open("Roche/E3MFGYR02_random_10_reads.sff", "rb")))
+ out_handle = open(
+ "Roche/E3MFGYR02_alt_index_at_start.sff", "w")
+ index = ".diy1.00This is a fake index block (DIY = Do It Yourself), which is allowed under the SFF standard.\0"
+ padding = len(index) % 8
+ if padding:
+ padding = 8 - padding
+ index += chr(0) * padding
+ w = SffWriter(out_handle, index=False, xml=None)
+ # Fake the header...
+ w._number_of_reads = len(records)
+ w._index_start = 0
+ w._index_length = 0
+ w._key_sequence = records[0].annotations["flow_key"]
+ w._flow_chars = records[0].annotations["flow_chars"]
+ w._number_of_flows_per_read = len(w._flow_chars)
+ w.write_header()
+ w._index_start = out_handle.tell()
+ w._index_length = len(index)
+ out_handle.seek(0)
+ w.write_header() # this time with index info
+ w.handle.write(index)
+ for record in records:
+ w.write_record(record)
+ out_handle.close()
+ records2 = list(SffIterator(
+ open("Roche/E3MFGYR02_alt_index_at_start.sff", "rb")))
+ for old, new in zip(records, records2):
+ assert str(old.seq) == str(new.seq)
+ i = list(_sff_do_slow_index(
+ open("Roche/E3MFGYR02_alt_index_at_start.sff", "rb")))
+
+ # Ugly bit of code to make a fake index in middle
+ records = list(SffIterator(
+ open("Roche/E3MFGYR02_random_10_reads.sff", "rb")))
+ out_handle = open(
+ "Roche/E3MFGYR02_alt_index_in_middle.sff", "w")
+ index = ".diy1.00This is a fake index block (DIY = Do It Yourself), which is allowed under the SFF standard.\0"
+ padding = len(index) % 8
+ if padding:
+ padding = 8 - padding
+ index += chr(0) * padding
+ w = SffWriter(out_handle, index=False, xml=None)
+ # Fake the header...
+ w._number_of_reads = len(records)
+ w._index_start = 0
+ w._index_length = 0
+ w._key_sequence = records[0].annotations["flow_key"]
+ w._flow_chars = records[0].annotations["flow_chars"]
+ w._number_of_flows_per_read = len(w._flow_chars)
+ w.write_header()
+ for record in records[:5]:
+ w.write_record(record)
+ w._index_start = out_handle.tell()
+ w._index_length = len(index)
+ w.handle.write(index)
+ for record in records[5:]:
+ w.write_record(record)
+ out_handle.seek(0)
+ w.write_header() # this time with index info
+ out_handle.close()
+ records2 = list(SffIterator(
+ open("Roche/E3MFGYR02_alt_index_in_middle.sff", "rb")))
+ for old, new in zip(records, records2):
+ assert str(old.seq) == str(new.seq)
+ j = list(_sff_do_slow_index(
+ open("Roche/E3MFGYR02_alt_index_in_middle.sff", "rb")))
+
+ # Ugly bit of code to make a fake index at end
+ records = list(SffIterator(
+ open("Roche/E3MFGYR02_random_10_reads.sff", "rb")))
+ with open("Roche/E3MFGYR02_alt_index_at_end.sff", "w") as out_handle:
+ w = SffWriter(out_handle, index=False, xml=None)
+ # Fake the header...
+ w._number_of_reads = len(records)
+ w._index_start = 0
+ w._index_length = 0
+ w._key_sequence = records[0].annotations["flow_key"]
+ w._flow_chars = records[0].annotations["flow_chars"]
+ w._number_of_flows_per_read = len(w._flow_chars)
+ w.write_header()
+ for record in records:
+ w.write_record(record)
+ w._index_start = out_handle.tell()
+ w._index_length = len(index)
+ out_handle.write(index)
+ out_handle.seek(0)
+ w.write_header() # this time with index info
+ records2 = list(SffIterator(
+ open("Roche/E3MFGYR02_alt_index_at_end.sff", "rb")))
+ for old, new in zip(records, records2):
+ assert str(old.seq) == str(new.seq)
+ try:
+ print(ReadRocheXmlManifest(
+ open("Roche/E3MFGYR02_alt_index_at_end.sff", "rb")))
+ assert False, "Should fail!"
+ except ValueError:
+ pass
+ k = list(_sff_do_slow_index(
+ open("Roche/E3MFGYR02_alt_index_at_end.sff", "rb")))
+ print("Done")
diff --git a/Tests/test_SubsMat.py b/Tests/test_SubsMat.py
index 9d359fb..6978c79 100644
--- a/Tests/test_SubsMat.py
+++ b/Tests/test_SubsMat.py
@@ -72,16 +72,8 @@ f.write("\nTesting Entropy\n")
relative_entropy = lo_mat_prot.calculate_relative_entropy(obs_freq_mat)
f.write("relative entropy %.3f\n" % relative_entropy)
-# Will uncomment the following once the Bio.Tools.Statistics is in place
f.write("\nmatrix correlations\n")
blosum90 = SubsMat.SeqMat(MatrixInfo.blosum90)
blosum30 = SubsMat.SeqMat(MatrixInfo.blosum30)
-try:
- import numpy
- f.write("BLOSUM30 & BLOSUM90 %.2f\n" % SubsMat.two_mat_correlation(blosum30, blosum90))
- f.write("BLOSUM90 & BLOSUM30 %.2f\n" % SubsMat.two_mat_correlation(blosum90, blosum30))
-except ImportError:
- # Need numpy for the two_mat_correlation, but rather than splitting this
- # test into two, and have one raise MissingExternalDependencyError cheat:
- f.write("BLOSUM30 & BLOSUM90 0.88\n")
- f.write("BLOSUM90 & BLOSUM30 0.88\n")
+f.write("BLOSUM30 & BLOSUM90 %.2f\n" % SubsMat.two_mat_correlation(blosum30, blosum90))
+f.write("BLOSUM90 & BLOSUM30 %.2f\n" % SubsMat.two_mat_correlation(blosum90, blosum30))
diff --git a/Tests/test_SwissProt.py b/Tests/test_SwissProt.py
index 15f1435..682359a 100644
--- a/Tests/test_SwissProt.py
+++ b/Tests/test_SwissProt.py
@@ -4,8 +4,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Test for the SwissProt parser on SwissProt files.
-"""
+"""Test for the SwissProt parser on SwissProt files."""
import os
import unittest
@@ -17,7 +16,7 @@ from Bio.SeqRecord import SeqRecord
class TestSwissProt(unittest.TestCase):
def test_sp001(self):
- "Parsing SwissProt file sp001"
+ """Parsing SwissProt file sp001."""
filename = 'sp001'
# test the record parser
@@ -60,7 +59,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -92,8 +91,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp002(self):
- "Parsing SwissProt file sp002"
-
+ """Parsing SwissProt file sp002."""
filename = 'sp002'
# test the record parser
@@ -139,7 +137,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -171,8 +169,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp003(self):
- "Parsing SwissProt file sp003"
-
+ """Parsing SwissProt file sp003."""
filename = 'sp003'
# test the record parser
@@ -258,7 +255,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -290,8 +287,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp004(self):
- "Parsing SwissProt file sp004"
-
+ """Parsing SwissProt file sp004."""
filename = 'sp004'
# test the record parser
@@ -351,7 +347,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -383,8 +379,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp005(self):
- "Parsing SwissProt file sp005"
-
+ """Parsing SwissProt file sp005."""
filename = 'sp005'
# test the record parser
@@ -425,7 +420,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -457,8 +452,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp006(self):
- "Parsing SwissProt file sp006"
-
+ """Parsing SwissProt file sp006."""
filename = 'sp006'
# test the record parser
@@ -495,7 +489,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -527,8 +521,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp007(self):
- "Parsing SwissProt file sp007"
-
+ """Parsing SwissProt file sp007."""
filename = 'sp007'
# test the record parser
@@ -574,7 +567,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -606,8 +599,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp008(self):
- "Parsing SwissProt file sp008"
-
+ """Parsing SwissProt file sp008."""
filename = 'sp008'
# test the record parser
@@ -816,7 +808,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -848,8 +840,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp009(self):
- "Parsing SwissProt file sp009"
-
+ """Parsing SwissProt file sp009."""
filename = 'sp009'
# test the record parser
@@ -886,7 +877,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -918,8 +909,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp010(self):
- "Parsing SwissProt file sp010"
-
+ """Parsing SwissProt file sp010."""
filename = 'sp010'
# test the record parser
@@ -998,7 +988,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -1029,8 +1019,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp011(self):
- "Parsing SwissProt file sp011"
-
+ """Parsing SwissProt file sp011."""
filename = 'sp011'
# test the record parser
@@ -1153,7 +1142,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -1184,8 +1173,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp012(self):
- "Parsing SwissProt file sp012"
-
+ """Parsing SwissProt file sp012."""
filename = 'sp012'
# test the record parser
@@ -1222,7 +1210,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -1253,8 +1241,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp013(self):
- "Parsing SwissProt file sp013"
-
+ """Parsing SwissProt file sp013."""
filename = 'sp013'
# test the record parser
@@ -1291,7 +1278,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -1322,8 +1309,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp014(self):
- "Parsing SwissProt file sp014"
-
+ """Parsing SwissProt file sp014."""
filename = 'sp014'
# test the record parser
@@ -1451,7 +1437,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
@@ -1482,8 +1468,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(records[0].accessions, record.accessions)
def test_sp015(self):
- "Parsing SwissProt file sp015"
-
+ """Parsing SwissProt file sp015."""
filename = 'sp015'
# test the record parser
@@ -1515,7 +1500,7 @@ class TestSwissProt(unittest.TestCase):
self.assertEqual(str(seq_record.seq), record.sequence)
self.assertEqual(seq_record.description, record.description)
self.assertEqual(seq_record.name, record.entry_name)
- self.assertTrue(seq_record.id in record.accessions)
+ self.assertIn(seq_record.id, record.accessions)
# Now try using the iterator - note that all these
# test cases have only one record.
diff --git a/Tests/test_TCoffee_tool.py b/Tests/test_TCoffee_tool.py
index 0aaaf10..93a03ad 100644
--- a/Tests/test_TCoffee_tool.py
+++ b/Tests/test_TCoffee_tool.py
@@ -49,8 +49,7 @@ class TCoffeeApplication(unittest.TestCase):
os.remove(self.outfile4)
def test_TCoffee_1(self):
- """Round-trip through app and read clustal alignment from file
- """
+ """Round-trip through app and read clustal alignment from file."""
cmdline = TCoffeeCommandline(t_coffee_exe, infile=self.infile1)
self.assertEqual(str(cmdline), t_coffee_exe + " -infile Fasta/fa01")
stdout, stderr = cmdline()
@@ -63,8 +62,7 @@ class TCoffeeApplication(unittest.TestCase):
self.assertEqual(str(new.seq).replace("-", ""), str(old.seq).replace("-", ""))
def test_TCoffee_2(self):
- """Round-trip through app and read pir alignment from file
- """
+ """Round-trip through app and read pir alignment from file."""
cmdline = TCoffeeCommandline(t_coffee_exe, quiet=True)
cmdline.infile = self.infile1
cmdline.outfile = self.outfile3
@@ -73,7 +71,7 @@ class TCoffeeApplication(unittest.TestCase):
"-infile Fasta/fa01 -outfile Fasta/tc_out.pir -quiet")
stdout, stderr = cmdline()
# Can get warnings in stderr output
- self.assertTrue("error" not in stderr.lower(), stderr)
+ self.assertNotIn("error", stderr.lower(), stderr)
align = AlignIO.read(self.outfile3, "pir")
records = list(SeqIO.parse(self.infile1, "fasta"))
self.assertEqual(len(records), len(align))
@@ -82,8 +80,7 @@ class TCoffeeApplication(unittest.TestCase):
self.assertEqual(str(new.seq).replace("-", ""), str(old.seq).replace("-", ""))
def test_TCoffee_3(self):
- """Round-trip through app and read clustalw alignment from file
- """
+ """Round-trip through app and read clustalw alignment from file."""
cmdline = TCoffeeCommandline(t_coffee_exe, gapopen=-2)
cmdline.infile = self.infile1
cmdline.outfile = self.outfile4
@@ -103,6 +100,7 @@ class TCoffeeApplication(unittest.TestCase):
self.assertEqual(old.id, new.id)
self.assertEqual(str(new.seq).replace("-", ""), str(old.seq).replace("-", ""))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_TogoWS.py b/Tests/test_TogoWS.py
index 52316ae..c57be9f 100644
--- a/Tests/test_TogoWS.py
+++ b/Tests/test_TogoWS.py
@@ -3,13 +3,13 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Testing Bio.TogoWS online code.
-"""
+"""Testing Bio.TogoWS online code."""
from __future__ import print_function
import unittest
from Bio._py3k import StringIO
+from Bio._py3k import HTTPError
import requires_internet
requires_internet.check()
@@ -78,12 +78,6 @@ class TogoFields(unittest.TestCase):
'taxonomy', 'comment', 'seq']),
fields)
-# def test_embl(self):
-# """Check supported fields for embl database"""
-# fields = set(TogoWS._get_entry_fields("embl"))
-# self.assertTrue(fields.issuperset(["definition", "entry_id", "seq"]),
-# fields)
-
def test_uniprot(self):
"""Check supported fields for uniprot database"""
fields = set(TogoWS._get_entry_fields("uniprot"))
@@ -300,45 +294,13 @@ class TogoEntry(unittest.TestCase):
handle.close()
self.assertTrue(data.startswith("##gff-version 3\nX52960\tGenbank\t"), data)
-# def test_embl_AM905444_gff3(self):
-# """Bio.TogoWS.entry("embl", "AM905444", format="gff")"""
-# handle = TogoWS.entry("embl", "AM905444", format="gff")
-# data = handle.read()
-# handle.close()
-# self.assertTrue(data.startswith("##gff-version 3\nAM905444\tembl\t"), data)
-
-# def test_embl_AM905444_seq(self):
-# """Bio.TogoWS.entry("embl", "AM905444", field="seq")"""
-# handle = TogoWS.entry("embl", "AM905444", field="seq")
-# data = handle.read().strip() # ignore any trailing \n
-# handle.close()
-# self.assertEqual(seguid(data), "G0HtLpwF7i4FXUaUjDUPTjok79c")
-
-# def test_embl_AM905444_definition(self):
-# """Bio.TogoWS.entry("embl", "AM905444", field="definition")"""
-# handle = TogoWS.entry("embl", "AM905444", field="definition")
-# data = handle.read().strip() # ignore any trailing \n
-# handle.close()
-# self.assertEqual(data, "Herbaspirillum seropedicae locus tag HS193.0074 for porin")
-
-# def test_embl_AM905444(self):
-# """Bio.TogoWS.entry("embl", "AM905444")"""
-# handle = TogoWS.entry("embl", "AM905444")
-# record = SeqIO.read(handle, "embl")
-# handle.close()
-# self.assertTrue("AM905444" in record.id, record.id)
-# self.assertTrue("AM905444" in record.name, record.name)
-# self.assertTrue("porin" in record.description, record.description)
-# self.assertEqual(len(record), 1164)
-# self.assertEqual(seguid(record.seq), "G0HtLpwF7i4FXUaUjDUPTjok79c")
-
def test_ddbj_fasta(self):
"""Bio.TogoWS.entry("ddbj", "X52960", "fasta")"""
handle = TogoWS.entry("ddbj", "X52960", "fasta")
record = SeqIO.read(handle, "fasta")
handle.close()
- self.assertTrue("X52960" in record.id, record.id)
- self.assertTrue("X52960" in record.name, record.name)
+ self.assertIn("X52960", record.id)
+ self.assertIn("X52960", record.name)
self.assertEqual(len(record), 248)
self.assertEqual(seguid(record.seq), "Ktxz0HgMlhQmrKTuZpOxPZJ6zGU")
@@ -364,8 +326,11 @@ class TogoEntry(unittest.TestCase):
handle = TogoWS.entry("nucleotide", "6273291", "fasta")
record = SeqIO.read(handle, "fasta")
handle.close()
- self.assertTrue("6273291" in record.id, record.id)
- self.assertTrue("6273291" in record.name, record.name)
+ # NCBI is phasing out GI numbers, so no longer true:
+ # self.assertIn("6273291", record.id)
+ # self.assertIn("6273291", record.name)
+ self.assertIn("AF191665.1", record.id)
+ self.assertIn("AF191665.1", record.name)
self.assertEqual(len(record), 902)
self.assertEqual(seguid(record.seq), "bLhlq4mEFJOoS9PieOx4nhGnjAQ")
@@ -374,10 +339,12 @@ class TogoEntry(unittest.TestCase):
handle = TogoWS.entry("protein", "16130152", "fasta")
record = SeqIO.read(handle, "fasta")
handle.close()
- # Could use assertIn but requires Python 2.7+
- self.assertTrue("16130152" in record.id, record.id)
- self.assertTrue("16130152" in record.name, record.name)
- self.assertTrue("porin protein" in record.description, record.description)
+ # NCBI is phasing out GI numbers, so no longer true:
+ # self.assertIn("16130152", record.id)
+ # self.assertIn("16130152", record.name)
+ self.assertIn("NP_416719.1", record.id)
+ self.assertIn("NP_416719.1", record.name)
+ self.assertIn("porin protein", record.description)
self.assertEqual(len(record), 367)
self.assertEqual(seguid(record.seq), "fCjcjMFeGIrilHAn6h+yju267lg")
@@ -433,19 +400,13 @@ class TogoSearch(unittest.TestCase):
"""
self.check("pubmed", "human porin", ["21189321", "21835183"])
- def test_pdb_search_porin(self):
- """Bio.TogoWS.search_iter("pdb", "porin") etc
-
- Count was about 161 at time of writing.
- """
- self.check("pdb", "porin", ["2j1n", "2vqg", "3m8b", "2k0l"])
-
-# def test_embl_search_porin(self):
-# """Bio.TogoWS.search_iter("embl", "human pore", limit=200) etc
+# TogoWS search for PDBj currently unavailable
+# def test_pdb_search_porin(self):
+# """Bio.TogoWS.search_iter("pdb", "porin") etc
#
-# Count was about 297 at time of writing.
+# Count was about 161 at time of writing.
# """
-# self.check("embl", "human pore", limit=200)
+# self.check("pdb", "porin", ["2j1n", "2vqg", "3m8b", "2k0l"])
def test_uniprot_search_lung_cancer(self):
"""Bio.TogoWS.search_iter("uniprot", "terminal+lung+cancer", limit=150) etc
@@ -460,7 +421,10 @@ class TogoSearch(unittest.TestCase):
def check(self, database, search_term, expected_matches=(), limit=None):
if expected_matches and limit:
raise ValueError("Bad test - TogoWS makes no promises about order")
- search_count = TogoWS.search_count(database, search_term)
+ try:
+ search_count = TogoWS.search_count(database, search_term)
+ except HTTPError as err:
+ raise ValueError("%s from %s" % (err, err.url))
if expected_matches and search_count < len(expected_matches):
raise ValueError("Only %i matches, expected at least %i"
% (search_count, len(expected_matches)))
@@ -508,6 +472,7 @@ class TogoConvert(unittest.TestCase):
# new = SeqIO.read(TogoWS.convert(handle, "genbank", "embl"), "embl")
# self.assertEqual(str(old.seq), str(new.seq))
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_TreeConstruction.py b/Tests/test_TreeConstruction.py
index 8a706d1..3cc1895 100644
--- a/Tests/test_TreeConstruction.py
+++ b/Tests/test_TreeConstruction.py
@@ -5,7 +5,10 @@
"""Unit tests for the Bio.Phylo.TreeConstruction module."""
+import os
import unittest
+import tempfile
+
from Bio._py3k import StringIO
from Bio import AlignIO
from Bio import Phylo
@@ -13,7 +16,7 @@ from Bio.Phylo import BaseTree
from Bio.Phylo import TreeConstruction
from Bio.Phylo import Consensus
from Bio.Phylo.TreeConstruction import _Matrix
-from Bio.Phylo.TreeConstruction import _DistanceMatrix
+from Bio.Phylo.TreeConstruction import DistanceMatrix
from Bio.Phylo.TreeConstruction import DistanceCalculator
from Bio.Phylo.TreeConstruction import DistanceTreeConstructor
from Bio.Phylo.TreeConstruction import ParsimonyScorer
@@ -21,29 +24,45 @@ from Bio.Phylo.TreeConstruction import NNITreeSearcher
from Bio.Phylo.TreeConstruction import ParsimonyTreeConstructor
+temp_dir = tempfile.mkdtemp()
+
+
class DistanceMatrixTest(unittest.TestCase):
- """Test for _DistanceMatrix construction and manipulation"""
+ """Test for DistanceMatrix construction and manipulation"""
+
def setUp(self):
self.names = ['Alpha', 'Beta', 'Gamma', 'Delta']
self.matrix = [[0], [1, 0], [2, 3, 0], [4, 5, 6, 0]]
def test_good_construction(self):
- dm = _DistanceMatrix(self.names, self.matrix)
- self.assertTrue(isinstance(dm, TreeConstruction._DistanceMatrix))
+ dm = DistanceMatrix(self.names, self.matrix)
+ self.assertTrue(isinstance(dm, TreeConstruction.DistanceMatrix))
self.assertEqual(dm.names[0], 'Alpha')
self.assertEqual(dm.matrix[2][1], 3)
self.assertEqual(len(dm), 4)
- self.assertEqual(repr(dm), "_DistanceMatrix(names=['Alpha', 'Beta', 'Gamma', 'Delta'], matrix=[[0], [1, 0], [2, 3, 0], [4, 5, 6, 0]])")
+ self.assertEqual(repr(dm),
+ "DistanceMatrix(names=['Alpha', 'Beta', 'Gamma', 'Delta'], "
+ "matrix=[[0], [1, 0], [2, 3, 0], [4, 5, 6, 0]])")
def test_bad_construction(self):
- self.assertRaises(TypeError, _DistanceMatrix, ['Alpha', 100, 'Gamma', 'Delta'], [[0], [0.1, 0], [0.2, 0.3, 0], [0.4, 0.5, 0.6, 0]])
- self.assertRaises(TypeError, _DistanceMatrix, ['Alpha', 'Beta', 'Gamma', 'Delta'], [[0], ['a'], [0.2, 0.3], [0.4, 0.5, 0.6]])
- self.assertRaises(ValueError, _DistanceMatrix, ['Alpha', 'Alpha', 'Gamma', 'Delta'], [[0], [0.1], [0.2, 0.3], [0.4, 0.5, 0.6]])
- self.assertRaises(ValueError, _DistanceMatrix, ['Alpha', 'Beta', 'Gamma', 'Delta'], [[0], [0.2, 0], [0.4, 0.5, 0.6]])
- self.assertRaises(ValueError, _DistanceMatrix, ['Alpha', 'Beta', 'Gamma', 'Delta'], [[0], [0.1], [0.2, 0.3, 0.4], [0.4, 0.5, 0.6]])
+ self.assertRaises(TypeError, DistanceMatrix,
+ ['Alpha', 100, 'Gamma', 'Delta'],
+ [[0], [0.1, 0], [0.2, 0.3, 0], [0.4, 0.5, 0.6, 0]])
+ self.assertRaises(TypeError, DistanceMatrix,
+ ['Alpha', 'Beta', 'Gamma', 'Delta'],
+ [[0], ['a'], [0.2, 0.3], [0.4, 0.5, 0.6]])
+ self.assertRaises(ValueError, DistanceMatrix,
+ ['Alpha', 'Alpha', 'Gamma', 'Delta'],
+ [[0], [0.1], [0.2, 0.3], [0.4, 0.5, 0.6]])
+ self.assertRaises(ValueError, DistanceMatrix,
+ ['Alpha', 'Beta', 'Gamma', 'Delta'],
+ [[0], [0.2, 0], [0.4, 0.5, 0.6]])
+ self.assertRaises(ValueError, DistanceMatrix,
+ ['Alpha', 'Beta', 'Gamma', 'Delta'],
+ [[0], [0.1], [0.2, 0.3, 0.4], [0.4, 0.5, 0.6]])
def test_good_manipulation(self):
- dm = _DistanceMatrix(self.names, self.matrix)
+ dm = DistanceMatrix(self.names, self.matrix)
# getitem
self.assertEqual(dm[1], [1, 0, 3, 5])
self.assertEqual(dm[2, 1], 3)
@@ -70,7 +89,7 @@ class DistanceMatrixTest(unittest.TestCase):
self.assertEqual(dm.matrix, [[0], [3, 0], [5, 6, 0], [1, 2, 4, 0]])
def test_bad_manipulation(self):
- dm = _DistanceMatrix(self.names, self.matrix)
+ dm = DistanceMatrix(self.names, self.matrix)
# getitem
self.assertRaises(ValueError, dm.__getitem__, 'A')
self.assertRaises(ValueError, dm.__getitem__, ('Alpha', 'A'))
@@ -90,6 +109,16 @@ class DistanceMatrixTest(unittest.TestCase):
self.assertRaises(TypeError, dm.__setitem__, ('Alpha', 'Beta'), 'a')
self.assertRaises(TypeError, dm.__setitem__, 'Alpha', ['a', 'b', 'c'])
+ def test_format_phylip(self):
+ dm = DistanceMatrix(self.names, self.matrix)
+ handle = StringIO()
+ dm.format_phylip(handle)
+ lines = handle.getvalue().splitlines()
+ self.assertEqual(len(lines), len(dm) + 1)
+ self.assertTrue(lines[0].endswith(str(len(dm))))
+ for name, line in zip(self.names, lines[1:]):
+ self.assertTrue(line.startswith(name))
+
class DistanceCalculatorTest(unittest.TestCase):
"""Test DistanceCalculator"""
@@ -114,11 +143,7 @@ class DistanceCalculatorTest(unittest.TestCase):
self.assertEqual(dm['Alpha', 'Beta'], 1 - (53 * 1.0 / 84))
def test_nonmatching_seqs(self):
- aln = AlignIO.read(
- StringIO('\n'.join(
- [">Alpha", "A-A--",
- ">Gamma", "-Y-Y-"])),
- "fasta")
+ aln = AlignIO.read(StringIO(">Alpha\nA-A--\n>Gamma\n-Y-Y-"), "fasta")
# With a proper scoring matrix -- no matches
dmat = DistanceCalculator('blosum62').get_distance(aln)
self.assertEqual(dmat['Alpha', 'Alpha'], 0.)
@@ -131,6 +156,7 @@ class DistanceCalculatorTest(unittest.TestCase):
class DistanceTreeConstructorTest(unittest.TestCase):
"""Test DistanceTreeConstructor"""
+
def setUp(self):
self.aln = AlignIO.read('TreeConstruction/msa.phy', 'phylip')
calculator = DistanceCalculator('blosum62')
@@ -185,7 +211,8 @@ class ParsimonyScorerTest(unittest.TestCase):
score = scorer.get_score(tree, aln)
self.assertEqual(score, 3.5 + 2.5 + 3.5 + 3.5 + 2.5 + 1 + 2.5 + 4.5)
- alphabet = ['A', 'C', 'D', 'E', 'F', 'G', 'H', 'I', 'K', 'L', 'M', 'N', 'P', 'Q', 'R', '1', '2', 'T', 'V', 'W', 'Y', '*', '-']
+ alphabet = ['A', 'C', 'D', 'E', 'F', 'G', 'H', 'I', 'K', 'L', 'M', 'N',
+ 'P', 'Q', 'R', '1', '2', 'T', 'V', 'W', 'Y', '*', '-']
step_matrix = [[0],
[2, 0],
[1, 2, 0],
@@ -231,7 +258,7 @@ class NNITreeSearcherTest(unittest.TestCase):
searcher = NNITreeSearcher(scorer)
trees = searcher._get_neighbors(tree)
self.assertEqual(len(trees), 2 * (5 - 3))
- Phylo.write(trees, './TreeConstruction/neighbor_trees.tre', 'newick')
+ Phylo.write(trees, os.path.join(temp_dir, 'neighbor_trees.tre'), 'newick')
class ParsimonyTreeConstructorTest(unittest.TestCase):
@@ -251,13 +278,14 @@ class ParsimonyTreeConstructorTest(unittest.TestCase):
searcher = NNITreeSearcher(scorer)
constructor = ParsimonyTreeConstructor(searcher, tree1)
best_tree = constructor.build_tree(aln)
- Phylo.write(best_tree, './TreeConstruction/pars1.tre', 'newick')
+ Phylo.write(best_tree, os.path.join(temp_dir, 'pars1.tre'), 'newick')
constructor.starting_tree = tree2
best_tree = constructor.build_tree(aln)
- Phylo.write(best_tree, './TreeConstruction/pars2.tre', 'newick')
+ Phylo.write(best_tree, os.path.join(temp_dir, 'pars2.tre'), 'newick')
constructor.starting_tree = None
best_tree = constructor.build_tree(aln)
- Phylo.write(best_tree, './TreeConstruction/pars3.tre', 'newick')
+ Phylo.write(best_tree, os.path.join(temp_dir, 'pars3.tre'), 'newick')
+
if __name__ == '__main__':
runner = unittest.TextTestRunner(verbosity=2)
diff --git a/Tests/test_Tutorial.py b/Tests/test_Tutorial.py
index 7e26357..9af5f55 100644
--- a/Tests/test_Tutorial.py
+++ b/Tests/test_Tutorial.py
@@ -30,13 +30,18 @@
#
# %doctest examples lib:numpy lib:scipy
#
-# Note if using lib:XXX you must include a relative path to the
-# working directory, just use . for the default path, e.g.
+# Additionally after the path, special keyword 'internet' is
+# used to flag online tests.
+#
+# Note if using lib:XXX or special value 'internet' you must
+# include a relative path to the working directory, just use '.'
+# for the default path, e.g.
#
# %doctest . lib:reportlab
#
+# %doctest . internet
+#
# TODO: Adding bin:XXX for checking binary XXX is on $PATH?
-# TODO: Adding way to specify the doctest needs the network?
#
# See also "Writing doctests in the Tutorial" in the Tutorial
# itself.
@@ -51,12 +56,25 @@ import doctest
import os
import sys
import warnings
-from Bio import BiopythonExperimentalWarning
+from Bio import BiopythonExperimentalWarning, MissingExternalDependencyError
+
+# This is the same mechanism used for run_tests.py --offline
+# to skip tests requiring the network.
+import requires_internet
+try:
+ requires_internet.check()
+ online = True
+except MissingExternalDependencyError:
+ online = False
+if "--offline" in sys.argv:
+ # Allow manual override via "python test_Tutorial.py --offline"
+ online = False
warnings.simplefilter('ignore', BiopythonExperimentalWarning)
if sys.version_info[0] >= 3:
from lib2to3 import refactor
+ from lib2to3.pgen2.tokenize import TokenError
fixers = refactor.get_fixers_from_package("lib2to3.fixes")
fixers.remove("lib2to3.fixes.fix_print") # Already using print function
rt = refactor.RefactoringTool(fixers)
@@ -113,14 +131,15 @@ def _extract(handle):
def extract_doctests(latex_filename):
- """Scans LaTeX file and pulls out marked doctests as strings.
+ """Scan LaTeX file and pull out marked doctests as strings.
This is a generator, yielding one tuple per doctest.
"""
base_name = os.path.splitext(os.path.basename(latex_filename))[0]
+ deps = ""
+ folder = ""
with open(latex_filename, _universal_read_mode) as handle:
line_number = 0
- in_test = False
lines = []
name = None
while True:
@@ -158,21 +177,28 @@ def extract_doctests(latex_filename):
class TutorialDocTestHolder(object):
"""Python doctests extracted from the Biopython Tutorial."""
+
pass
def check_deps(dependencies):
+ """Check 'lib:XXX' and 'internet' dependencies are met."""
missing = []
for dep in dependencies:
- assert dep.startswith("lib:"), dep
- lib = dep[4:]
- try:
- tmp = __import__(lib)
- del tmp
- except ImportError:
- missing.append(lib)
+ if dep == "internet":
+ if not online:
+ missing.append("internet")
+ else:
+ assert dep.startswith("lib:"), dep
+ lib = dep[4:]
+ try:
+ tmp = __import__(lib)
+ del tmp
+ except ImportError:
+ missing.append(lib)
return missing
+
# Create dummy methods on the object purely to hold doctests
missing_deps = set()
for latex in files:
@@ -185,7 +211,10 @@ for latex in files:
if sys.version_info[0] >= 3:
example = ">>> from __future__ import print_function\n" + example
- example = rt.refactor_docstring(example, name)
+ try:
+ example = rt.refactor_docstring(example, name)
+ except TokenError:
+ raise ValueError("Problem with %s:\n%s" % (name, example))
def funct(n, d, f):
global tutorial_base
@@ -208,10 +237,12 @@ for latex in files:
# This is a TestCase class so it is found by run_tests.py
class TutorialTestCase(unittest.TestCase):
"""Python doctests extracted from the Biopython Tutorial."""
+
# Single method to be invoked by run_tests.py
def test_doctests(self):
"""Run tutorial doctests."""
- runner = doctest.DocTestRunner()
+ # TODO: Remove IGNORE_EXCEPTION_DETAIL once drop Python 2 support
+ runner = doctest.DocTestRunner(optionflags=doctest.IGNORE_EXCEPTION_DETAIL)
failures = []
for test in doctest.DocTestFinder().find(TutorialDocTestHolder):
failed, success = runner.run(test)
@@ -236,7 +267,6 @@ if __name__ == "__main__":
for dep in sorted(missing_deps):
print(" - %s" % dep)
print("Running Tutorial doctests...")
- import doctest
tests = doctest.testmod()
if tests.failed:
raise RuntimeError("%i/%i tests failed" % tests)
diff --git a/Tests/test_Uniprot.py b/Tests/test_Uniprot.py
index ef54f62..10e3bbc 100644
--- a/Tests/test_Uniprot.py
+++ b/Tests/test_Uniprot.py
@@ -4,8 +4,7 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""Test for the Uniprot parser on Uniprot XML files.
-"""
+"""Test for the Uniprot parser on Uniprot XML files."""
import os
import unittest
@@ -246,6 +245,44 @@ class TestUniprot(unittest.TestCase):
['LD(50) is 50 ug/kg in mouse by intracerebroventricular '
'injection and 600 ng/g in Blatella germanica.'])
+ def test_sp016(self):
+ "Parsing SwissProt file sp016"
+ filename = 'sp016'
+ # test the record parser
+
+ datafile = os.path.join('SwissProt', filename)
+
+ test_handle = open(datafile)
+ seq_record = SeqIO.read(test_handle, "swiss")
+ test_handle.close()
+
+ self.assertTrue(isinstance(seq_record, SeqRecord))
+
+ # test ProteinExistence (the numerical value describing the evidence for the existence of the protein)
+ self.assertEqual(seq_record.annotations['protein_existence'], 1)
+ # test Sequence version
+ self.assertEqual(seq_record.annotations['sequence_version'], 1)
+ # test Entry version
+ self.assertEqual(seq_record.annotations['entry_version'], 93)
+
+ def test_sp002(self):
+ "Parsing SwissProt file sp002"
+ filename = 'sp002'
+ # test the record parser
+
+ datafile = os.path.join('SwissProt', filename)
+
+ test_handle = open(datafile)
+ seq_record = SeqIO.read(test_handle, "swiss")
+ test_handle.close()
+
+ self.assertTrue(isinstance(seq_record, SeqRecord))
+
+ # test Sequence version
+ self.assertEqual(seq_record.annotations['sequence_version'], 34)
+ # test Entry version
+ self.assertEqual(seq_record.annotations['entry_version'], 36)
+
def compare_txt_xml(self, old, new):
self.assertEqual(old.id, new.id)
self.assertEqual(old.name, new.name)
@@ -331,6 +368,13 @@ class TestUniprot(unittest.TestCase):
self.assertEqual(old.name, 'F2CXE6_HORVD')
self.assertEqual(new.name, 'F2CXE6_HORVD')
+ def test_P84001(self):
+ """Parse mass spec structured comment with unknown loc"""
+ xml = list(SeqIO.parse("SwissProt/P84001.xml", "uniprot-xml"))[0]
+ self.assertEqual(xml.id, 'P84001')
+ self.assertEqual(len(xml.annotations['comment_massspectrometry']), 1)
+ self.assertEqual(xml.annotations['comment_massspectrometry'][0], 'undefined:9571|Electrospray')
+
def test_multi_ex(self):
"""Compare SwissProt text and uniprot XML versions of several examples."""
txt_list = list(SeqIO.parse("SwissProt/multi_ex.txt", "swiss"))
@@ -343,7 +387,7 @@ class TestUniprot(unittest.TestCase):
self.assertEqual(len(txt_list), len(xml_list))
for txt, xml, fas, id in zip(txt_list, xml_list, fas_list, ids):
self.assertEqual(txt.id, id)
- self.assertTrue(txt.id in fas.id.split("|"))
+ self.assertIn(txt.id, fas.id.split("|"))
self.assertEqual(str(txt.seq), str(fas.seq))
self.compare_txt_xml(txt, xml)
@@ -368,6 +412,13 @@ class TestUniprot(unittest.TestCase):
txt_index.close()
xml_index.close()
+ def test_submittedName_allowed(self):
+ """Checks if parser supports new XML Element (submittedName)."""
+ for entry in SeqIO.parse(open("SwissProt/R5HY77.xml"), "uniprot-xml"):
+ self.assertEqual(entry.id, "R5HY77")
+ self.assertEqual(entry.description, "Elongation factor Ts")
+
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_XXmotif_tool.py b/Tests/test_XXmotif_tool.py
index 521498d..42dc79b 100644
--- a/Tests/test_XXmotif_tool.py
+++ b/Tests/test_XXmotif_tool.py
@@ -48,7 +48,7 @@ class XXmotifTestCase(unittest.TestCase):
shutil.rmtree(self.out_dir)
def standard_test_procedure(self, cline):
- """Standard testing procedure used by all tests."""
+ """Standard test procedure used by all tests."""
output, error = cline()
self.assertTrue(os.path.isdir(self.out_dir))
@@ -63,7 +63,8 @@ class XXmotifTestCase(unittest.TestCase):
# MEME parser does not like what XXmotif produces yet.
def copy_and_mark_for_cleanup(self, path):
- """
+ """Copy file to working directory and marks it for removal.
+
XXmotif currently only handles a canonical filename as input, no paths.
This method copies the specified file in the specified path to the
current working directory and marks it for removal.
@@ -76,7 +77,7 @@ class XXmotifTestCase(unittest.TestCase):
return filename
def add_file_to_clean(self, filename):
- """Adds a file for deferred removal by the tearDown routine."""
+ """Add a file for deferred removal by the tearDown routine."""
self.files_to_clean.add(filename)
@@ -117,8 +118,7 @@ class XXmotifTestErrorConditions(XXmotifTestCase):
input_file = self.copy_and_mark_for_cleanup("Fasta/f002")
try:
- cline = XXmotifCommandline(outdir=temp_out_dir,
- seqfile=input_file)
+ XXmotifCommandline(outdir=temp_out_dir, seqfile=input_file)
except ValueError:
pass
else:
diff --git a/Tests/test_align.py b/Tests/test_align.py
index 10b032d..e0b1c0c 100644
--- a/Tests/test_align.py
+++ b/Tests/test_align.py
@@ -5,14 +5,15 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
-"""test_align.py
-
-A script to test alignment stuff.
+"""Test alignment stuff.
Right now we've got tests for:
-o Reading and Writing clustal format
-o Reading and Writing fasta format
-o Converting between formats"""
+
+- Reading and Writing clustal format
+- Reading and Writing fasta format
+- Converting between formats
+
+"""
# standard library
from __future__ import print_function
diff --git a/Tests/test_bgzf.py b/Tests/test_bgzf.py
index 8e04116..c04c2cc 100644
--- a/Tests/test_bgzf.py
+++ b/Tests/test_bgzf.py
@@ -1,4 +1,4 @@
-# Copyright 2010-2013 by Peter Cock.
+# Copyright 2010-2016 by Peter Cock.
# All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
@@ -14,7 +14,6 @@ import os
from random import shuffle
from Bio._py3k import _as_bytes, _as_string
-_empty_bytes_string = _as_bytes("")
from Bio import bgzf
@@ -36,6 +35,7 @@ def _have_bug17666():
# TypeError: integer argument expected, got 'tuple'
return True
+
if _have_bug17666():
from Bio import MissingPythonDependencyError
raise MissingPythonDependencyError("Your Python has a broken gzip library, see "
@@ -132,7 +132,7 @@ class BgzfTests(unittest.TestCase):
for cache in [1, 10]:
h = bgzf.BgzfReader(new_file, mode, max_cache=cache)
if "b" in mode:
- new = _empty_bytes_string.join(line for line in h)
+ new = b"".join(line for line in h)
else:
new = "".join(line for line in h)
h.close()
@@ -166,7 +166,7 @@ class BgzfTests(unittest.TestCase):
break
temp.append(char)
if "b" in mode:
- new = _empty_bytes_string.join(temp)
+ new = b"".join(temp)
else:
new = "".join(temp)
del temp
@@ -189,7 +189,7 @@ class BgzfTests(unittest.TestCase):
h.close()
# Forward, using explicit open/close
- new = _empty_bytes_string
+ new = b""
h = bgzf.BgzfReader(filename, "rb")
self.assertTrue(h.seekable())
self.assertFalse(h.isatty())
@@ -206,7 +206,7 @@ class BgzfTests(unittest.TestCase):
self.assertEqual(old, new)
# Reverse, using with statement
- new = _empty_bytes_string
+ new = b""
with bgzf.BgzfReader(filename, "rb") as h:
for start, raw_len, data_start, data_len in blocks[::-1]:
h.seek(bgzf.make_virtual_offset(start, 0))
@@ -227,7 +227,7 @@ class BgzfTests(unittest.TestCase):
h.seek(voffset)
self.assertEqual(voffset, h.tell())
data = h.read(1000)
- self.assertTrue(data in old)
+ self.assertIn(data, old)
self.assertEqual(old.find(data), data_start + data_len // 2)
# Now seek to an early block in the file,
# half way into the second block
@@ -238,7 +238,7 @@ class BgzfTests(unittest.TestCase):
self.assertEqual(voffset, h.tell())
# Now read all rest of this block and start of next block
data = h.read(data_len + 1000)
- self.assertTrue(data in old)
+ self.assertIn(data, old)
self.assertEqual(old.find(data), data_start + data_len // 2)
h.close()
diff --git a/Tests/test_cellosaurus.py b/Tests/test_cellosaurus.py
new file mode 100644
index 0000000..f11e424
--- /dev/null
+++ b/Tests/test_cellosaurus.py
@@ -0,0 +1,135 @@
+# Copyright 2016 by Stephen Marshall. All rights reserved.
+# This code is part of the Biopython distribution and governed by its
+# license. Please see the LICENSE file that should have been included
+# as part of this package.
+
+import os
+import unittest
+
+from Bio.ExPASy import cellosaurus
+
+
+class TestCellosaurus(unittest.TestCase):
+ def test_read(self):
+ """Test read function"""
+ handle = open("Cellosaurus/cell_lines_1.txt")
+ record = cellosaurus.read(handle)
+ self.assertEquals(record["ID"], '#15310-LN')
+ self.assertEqual(record["AC"], 'CVCL_E548')
+ self.assertEqual(record["SY"], '15310-LN; TER461')
+ self.assertEqual(record["DR"][0], tuple(('dbMHC', '48439')))
+ self.assertEqual(record["DR"][1], tuple(('ECACC', '94050311')))
+ self.assertEqual(record["DR"][2], tuple(('IHW', 'IHW9326')))
+ self.assertEqual(record["DR"][3], tuple(('IMGT/HLA', '10074')))
+ self.assertEqual(record["WW"][0], "http://bioinformatics."
+ "hsanmartino.it"
+ "/ecbr/cl326.html")
+ self.assertEqual(record["CC"][0],
+ "Part of: 12th International "
+ "Histocompatibility Workshop "
+ "(12IHW) cell line panel.")
+ self.assertEqual(record["CC"][1],
+ 'Transformant: EBV.')
+ self.assertEqual(record["OX"][0],
+ 'NCBI_TaxID=9606; ! Homo sapiens')
+ self.assertEqual(record["SX"], 'Female')
+ self.assertEqual(record["CA"], 'Transformed cell line')
+ handle.close()
+
+ def test_parse(self):
+ """Test parsing function"""
+ handle = open("Cellosaurus/cell_lines_2.txt")
+ records = cellosaurus.parse(handle)
+ record = next(records)
+ self.assertEqual(record["ID"], 'XP3OS')
+ self.assertEqual(record["AC"], 'CVCL_3245')
+ self.assertEqual(record["AS"], 'CVCL_F511')
+ self.assertEqual(record["SY"], 'XP30S; GM04314')
+ self.assertEqual(record["DR"][0], tuple(('CLO', 'CLO_0019557')))
+ self.assertEqual(record["DR"][1], tuple(('Coriell', 'GM04314')))
+ self.assertEqual(record["DR"][2], tuple(('JCRB', 'JCRB0303')))
+ self.assertEqual(record["DR"][3], tuple(('JCRB', 'KURB1002')))
+ self.assertEqual(record["DR"][4], tuple(('JCRB', 'KURB1003')))
+ self.assertEqual(record["DR"][5], tuple(('JCRB', 'KURB1004')))
+ self.assertEqual(record["RX"][0], 'PubMed=1372102;')
+ self.assertEqual(len(record["ST"]), 10)
+ self.assertEqual(record["ST"][0], 'Source(s): JCRB')
+ self.assertEqual(record["ST"][1], 'Amelogenin: X')
+ self.assertEqual(record["ST"][2], 'CSF1PO: 10,11')
+ self.assertEqual(record["ST"][3], 'D13S317: 9,11')
+ self.assertEqual(record["ST"][4], 'D16S539: 9,12')
+ self.assertEqual(record["ST"][5], 'D5S818: 10,11')
+ self.assertEqual(record["ST"][6], 'D7S820: 11,12')
+ self.assertEqual(record["ST"][7], 'TH01: 7')
+ self.assertEqual(record["ST"][8], 'TPOX: 8,11')
+ self.assertEqual(record["ST"][9], 'vWA: 14,16')
+ self.assertEqual(record["DI"][0], "NCIt; C3965; Xeroderma pigmentosum,"
+ " complementation group A")
+ self.assertEqual(record["OX"][0], 'NCBI_TaxID=9606; ! Homo sapiens')
+ self.assertEqual(record["SX"], 'Female')
+ self.assertEqual(record["CA"], 'Finite cell line')
+ record = next(records)
+ self.assertEqual(record["ID"], '1-5c-4')
+ self.assertEqual(record["AC"], 'CVCL_2260')
+ self.assertEqual(record["SY"],
+ "Clone 1-5c-4; Clone 1-5c-4 WKD of "
+ "Chang Conjunctiva; "
+ "Wong-Kilbourne derivative of "
+ "Chang conjunctiva; ChWK")
+ self.assertEqual(len(record["DR"]), 10)
+ self.assertEqual(record["DR"][0], tuple(('CLO', 'CLO_0002500')))
+ self.assertEqual(record["DR"][1], tuple(('CLO', 'CLO_0002501')))
+ self.assertEqual(record["DR"][2], tuple(('CLDB', 'cl793')))
+ self.assertEqual(record["DR"][3], tuple(('CLDB', 'cl794')))
+ self.assertEqual(record["DR"][4], tuple(('CLDB', 'cl795')))
+ self.assertEqual(record["DR"][5], tuple(('ATCC', 'CCL-20.2')))
+ self.assertEqual(record["DR"][6], tuple(('BioSample', 'SAMN03151673')))
+ self.assertEqual(record["DR"][7], tuple(('ECACC', '88021103')))
+ self.assertEqual(record["DR"][8], tuple(('IZSLER', 'BS CL 93')))
+ self.assertEqual(record["DR"][9], tuple(('KCLB', '10020.2')))
+ self.assertEqual(record["RX"][0], 'PubMed=566722;')
+ self.assertEqual(record["RX"][1], 'PubMed=19630270;')
+ self.assertEqual(record["RX"][2], 'PubMed=20143388;')
+ self.assertEqual(record["WW"][0], "http://iclac.org/"
+ "wp-content/uploads/"
+ "Cross-Contaminations-v7_2.pdf")
+ self.assertEqual(record["CC"][0],
+ "Problematic cell line: Contaminated. "
+ "Shown to be a HeLa derivative "
+ "(PubMed 566722, PubMed 20143388).")
+ self.assertEqual(record["CC"][1], 'Omics: Transcriptome analysis.')
+ self.assertEqual(record["ST"][0], 'Source(s): ATCC; KCLB')
+ self.assertEqual(record["ST"][1], 'Amelogenin: X')
+ self.assertEqual(record["ST"][2], 'CSF1PO: 9,10')
+ self.assertEqual(record["ST"][3], 'D13S317: 12,13.3')
+ self.assertEqual(record["ST"][4], 'D16S539: 9,10')
+ self.assertEqual(record["ST"][5], 'D3S1358: 15,18')
+ self.assertEqual(record["ST"][6], 'D5S818: 11,12')
+ self.assertEqual(record["ST"][7], 'D7S820: 8,12')
+ self.assertEqual(record["ST"][8], 'FGA: 18,21')
+ self.assertEqual(record["ST"][9], 'TH01: 7')
+ self.assertEqual(record["ST"][10], 'TPOX: 8,12')
+ self.assertEqual(record["ST"][11], 'vWA: 16,18')
+ self.assertEqual(record["DI"][0], "NCIt; C4029; Cervical "
+ "adenocarcinoma")
+ self.assertEqual(record["OX"][0], 'NCBI_TaxID=9606; ! Homo sapiens')
+ self.assertEqual(record["HI"][0], 'CVCL_0030 ! HeLa')
+ self.assertEqual(record["SX"], 'Female')
+ self.assertEqual(record["CA"], 'Cancer cell line')
+ self.assertRaises(StopIteration, next, records)
+ handle.close()
+
+ def test__str__(self):
+ """Test string function"""
+ handle = open("Cellosaurus/cell_lines_3.txt")
+ record = cellosaurus.read(handle)
+ input = "ID: ZZ-R 127 AC: CVCL_5418 AS: SY: ZZ-R DR: [('CCLV', 'CCLV-RIE 0127')] " \
+ "RX: ['PubMed=19656987;', 'PubMed=19941903;'] WW: [] CC: [] ST: [] DI: [] " \
+ "OX: ['NCBI_TaxID=9925; ! Capra hircus'] HI: [] OI: [] SX: CA: " \
+ "Spontaneously immortalized cell line"
+ self.assertEquals(record.__str__(), input)
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=3)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_codonalign.py b/Tests/test_codonalign.py
index ebdf06a..fc337b5 100644
--- a/Tests/test_codonalign.py
+++ b/Tests/test_codonalign.py
@@ -14,7 +14,7 @@ from Bio import SeqIO
from Bio import AlignIO
from Bio.Seq import Seq
from Bio.SeqRecord import SeqRecord
-from Bio.Alphabet import IUPAC
+from Bio.Alphabet import IUPAC, Gapped
from Bio.Align import MultipleSeqAlignment
from Bio.Data import CodonTable
@@ -85,8 +85,9 @@ class TestBuildAndIO(unittest.TestCase):
warnings.simplefilter('ignore')
caln = codonalign.build(prot, nucl, alphabet=codonalign.default_codon_alphabet)
elif i[1] == 'index':
+ # Deliberately using a fancy protein alphabet for testing:
nucl = SeqIO.index(i[0][0], 'fasta', alphabet=IUPAC.IUPACUnambiguousDNA())
- prot = AlignIO.read(i[0][1], 'clustal', alphabet=IUPAC.protein)
+ prot = AlignIO.read(i[0][1], 'clustal', alphabet=Gapped(IUPAC.ExtendedIUPACProtein()))
with warnings.catch_warnings():
warnings.simplefilter('ignore')
caln = codonalign.build(prot, nucl, alphabet=codonalign.default_codon_alphabet, max_score=20)
@@ -199,6 +200,36 @@ class Test_dn_ds(unittest.TestCase):
# TODO - Show a warning?
pass
+ def test_dn_ds_matrix(self):
+ # NG86 method with default codon table
+ dn_correct = [0, 0.02090783050583131, 0, 0.6115239249238438, 0.6102203266798018, 0, 0.6140350835631757, 0.6040168621204747, 0.041180350405913294, 0, 0.6141532531400524, 0.6018263135601294, 0.06701051445629494, 0.061470360954086874, 0, 0.6187088340904762, 0.6068687248870475, 0.07386903034833081, 0.07357890927918581, 0.05179847072570129, 0]
+ ds_correct = [0, 0.01783718763890243, 0, 2.9382055377913687, 3.0375115405379267, 0, 2.008913071877126, 2.0182088023715616, 0.5638033197005285, 0, 2.771425931736778, 2.7353083173058295, 0.6374483799734671, 0.723542095485497, 0, -1, -1, 0.953865978141643, 1.182154857347706, 0.843182957978177, 0]
+ dn, ds = self.aln.get_dn_ds_matrix()
+ dn_list = []
+ for i in dn.matrix:
+ dn_list.extend(i)
+ for dn_cal, dn_corr in zip(dn_list, dn_correct):
+ self.assertAlmostEqual(round(dn_cal, 4), round(dn_corr, 4), places=4)
+ ds_list = []
+ for i in ds.matrix:
+ ds_list.extend(i)
+ for ds_cal, ds_corr in zip(ds_list, ds_correct):
+ self.assertAlmostEqual(round(ds_cal, 4), round(ds_corr, 4), places=4)
+ # YN00 method with user specified codon table
+ dn_correct = [0, 0.019701773284646867, 0, 0.6109649819852769, 0.6099903856901369, 0, 0.6114499930666559, 0.6028068208599121, 0.045158286242251426, 0, 0.6151835071687592, 0.6053227393422296, 0.07034397741651377, 0.06956967795096626, 0, 0.6103850655769698, 0.5988716898831496, 0.07905930042150053, 0.08203052937107111, 0.05659346894088538, 0]
+ ds_correct = [0, 0.01881718550096053, 0, 1.814457265482046, 1.8417575124882066, 0, 1.5627041719628896, 1.563930819079887, 0.4748890153032888, 0, 1.6754828466084355, 1.6531212012501901, 0.5130923627791538, 0.5599667707191436, 0, 2.0796114236540943, 2.1452591651827304, 0.7243066372971764, 0.8536617406770075, 0.6509203399899367, 0]
+ dn, ds = self.aln.get_dn_ds_matrix(method="LWL85", codon_table=CodonTable.unambiguous_dna_by_id[3])
+ dn_list = []
+ for i in dn.matrix:
+ dn_list.extend(i)
+ for dn_cal, dn_corr in zip(dn_list, dn_correct):
+ self.assertAlmostEqual(round(dn_cal, 4), round(dn_corr, 4), places=4)
+ ds_list = []
+ for i in ds.matrix:
+ ds_list.extend(i)
+ for ds_cal, ds_corr in zip(ds_list, ds_correct):
+ self.assertAlmostEqual(round(ds_cal, 4), round(ds_corr, 4), places=4)
+
from run_tests import is_numpy
try:
diff --git a/Tests/test_kNN.py b/Tests/test_kNN.py
index 4b090be..73bd919 100644
--- a/Tests/test_kNN.py
+++ b/Tests/test_kNN.py
@@ -10,6 +10,7 @@ import unittest
try:
import numpy
+ del numpy
from numpy import asarray
del asarray
except ImportError:
@@ -115,6 +116,7 @@ class TestKNN(unittest.TestCase):
correct += 1
self.assertEqual(correct, 13)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_lowess.py b/Tests/test_lowess.py
index 020bcfa..b8a1694 100755
--- a/Tests/test_lowess.py
+++ b/Tests/test_lowess.py
@@ -26,6 +26,7 @@ class test_lowess(unittest.TestCase):
for precomputed, calculated in zip(ys, output):
self.assertAlmostEqual(precomputed, calculated, places=4)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_mmtf.py b/Tests/test_mmtf.py
index ad7505e..0e54b04 100644
--- a/Tests/test_mmtf.py
+++ b/Tests/test_mmtf.py
@@ -1,3 +1,10 @@
+# Copyright 2016 by Anthony Bradley. All rights reserved.
+# Revisions copyright 2017 by Peter Cock. All rights reserved.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+
import unittest
import warnings
from Bio.PDB.mmtf import MMTFParser
@@ -37,8 +44,8 @@ class ParseMMTF(unittest.TestCase):
self.assertEqual(mmtf_r.disordered, mmcif_r.disordered)
self.assertEqual(mmtf_r.resname, mmcif_r.resname)
self.assertEqual(mmtf_r.segid, mmcif_r.segid)
- self.mmcif_atoms = [x for x in mmcif_r.get_atom()]
- self.mmtf_atoms = [x for x in mmtf_r.get_atom()]
+ self.mmcif_atoms = [x for x in mmcif_r.get_atoms()]
+ self.mmtf_atoms = [x for x in mmtf_r.get_atoms()]
self.check_atoms()
def check_mmtf_vs_cif(self, mmtf_filename, cif_filename):
diff --git a/Tests/test_mmtf_online.py b/Tests/test_mmtf_online.py
new file mode 100644
index 0000000..c3fc51b
--- /dev/null
+++ b/Tests/test_mmtf_online.py
@@ -0,0 +1,32 @@
+# Copyright 2017 by Peter Cock. All rights reserved.
+# This file is part of the Biopython distribution and governed by your
+# choice of the "Biopython License Agreement" or the "BSD 3-Clause License".
+# Please see the LICENSE file that should have been included as part of this
+# package.
+
+import unittest
+import warnings
+
+from Bio.PDB.PDBExceptions import PDBConstructionWarning
+from Bio.PDB.mmtf import MMTFParser
+
+import requires_internet
+requires_internet.check()
+
+
+class OnlineMMTF(unittest.TestCase):
+ """Online tests for the MMTF code."""
+
+ def test_from_url(self):
+ """Check parser can fetch a record from its PDB ID."""
+ parser = MMTFParser()
+ with warnings.catch_warnings():
+ warnings.simplefilter('ignore', PDBConstructionWarning)
+ struct = parser.get_structure_from_url("4ZHL")
+ atoms = [x for x in struct.get_atoms()]
+ self.assertEqual(len(atoms), 2080)
+
+
+if __name__ == "__main__":
+ runner = unittest.TextTestRunner(verbosity=2)
+ unittest.main(testRunner=runner)
diff --git a/Tests/test_motifs.py b/Tests/test_motifs.py
index f8e49ed..df13324 100644
--- a/Tests/test_motifs.py
+++ b/Tests/test_motifs.py
@@ -16,6 +16,8 @@ from Bio.Seq import Seq
class MotifTestsBasic(unittest.TestCase):
+ """Basic motif tests."""
+
def setUp(self):
self.PFMin = open("motifs/SRF.pfm")
self.SITESin = open("motifs/Arnt.sites")
@@ -35,8 +37,7 @@ class MotifTestsBasic(unittest.TestCase):
os.remove(self.FAout)
def test_alignace_parsing(self):
- """Test if Bio.motifs can parse AlignAce output files.
- """
+ """Test if Bio.motifs can parse AlignAce output files."""
handle = open("motifs/alignace.out")
record = motifs.parse(handle, "AlignAce")
handle.close()
@@ -397,20 +398,17 @@ class MotifTestsBasic(unittest.TestCase):
self.assertAlmostEqual(record[15].score, 1.0395)
def test_pfm_parsing(self):
- """Test if Bio.motifs can parse JASPAR-style pfm files.
- """
+ """Test if Bio.motifs can parse JASPAR-style pfm files."""
m = motifs.read(self.PFMin, "pfm")
self.assertEqual(m.length, 12)
def test_sites_parsing(self):
- """Test if Bio.motifs can parse JASPAR-style sites files.
- """
+ """Test if Bio.motifs can parse JASPAR-style sites files."""
m = motifs.read(self.SITESin, "sites")
self.assertEqual(m.length, 6)
def test_TFoutput(self):
- """Ensure that we can write proper TransFac output files.
- """
+ """Ensure that we can write proper TransFac output files."""
output_handle = open(self.TFout, "w")
output_handle.write(self.m.format("transfac"))
output_handle.close()
@@ -448,8 +446,7 @@ XX
class TestMEME(unittest.TestCase):
def test_meme_parser_1(self):
- """Test if Bio.motifs can parse MEME output files (first test)
- """
+ """Parsing motifs/meme.out file."""
handle = open("motifs/meme.out")
record = motifs.parse(handle, 'meme')
self.assertEqual(record.version, '3.5.7')
@@ -558,8 +555,7 @@ class TestMEME(unittest.TestCase):
handle.close()
def test_meme_parser_2(self):
- """Test if Bio.motifs can parse MEME output files (second test)
- """
+ """Parse motifs/meme.dna.oops.txt file."""
handle = open("motifs/meme.dna.oops.txt")
record = motifs.parse(handle, 'meme')
self.assertEqual(record.version, '3.0')
@@ -676,8 +672,7 @@ class TestMEME(unittest.TestCase):
handle.close()
def test_meme_parser_3(self):
- """Test if Bio.motifs can parse MEME output files (third test)
- """
+ """Parse motifs/meme.protein.oops.txt file."""
handle = open("motifs/meme.protein.oops.txt")
record = motifs.parse(handle, 'meme')
self.assertEqual(record.version, '3.0')
@@ -1066,8 +1061,7 @@ class TestMEME(unittest.TestCase):
handle.close()
def test_meme_parser_4(self):
- """Test if Bio.motifs can parse MEME output files (fourth test)
- """
+ """Parse motifs/meme.protein.tcm.txt file."""
handle = open("motifs/meme.protein.tcm.txt")
record = motifs.parse(handle, 'meme')
self.assertEqual(record.version, '3.0')
@@ -1367,12 +1361,121 @@ class TestMEME(unittest.TestCase):
self.assertEqual(str(motif.instances[20]), "IDRKGIYQWLISLK")
handle.close()
+ def test_meme_parser_4_11_4(self):
+ """Parse motifs/meme_v_4_11_4.txt file."""
+ handle = open("motifs/meme_v_4_11_4.txt")
+ record = motifs.parse(handle, 'meme')
+ self.assertEqual(record.version, '4.11.4')
+ self.assertEqual(record.datafile, 'example.fasta')
+ self.assertEqual(record.alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(len(record.sequences), 10)
+ self.assertEqual(record.sequences[0], 'SEQ1;')
+ self.assertEqual(record.sequences[1], 'SEQ2;')
+ self.assertEqual(record.sequences[2], 'SEQ3;')
+ self.assertEqual(record.sequences[3], 'SEQ4;')
+ self.assertEqual(record.sequences[4], 'SEQ5;')
+ self.assertEqual(record.sequences[5], 'SEQ6;')
+ self.assertEqual(record.sequences[6], 'SEQ7;')
+ self.assertEqual(record.sequences[7], 'SEQ8;')
+ self.assertEqual(record.sequences[8], 'SEQ9;')
+ self.assertEqual(record.sequences[9], 'SEQ10;')
+ self.assertEqual(record.command, 'meme -dna example.fasta')
+ self.assertEqual(len(record), 1)
+ motif = record[0]
+ self.assertEqual(motif.name, "Motif CTCAATCGTA")
+ self.assertEqual(record["Motif CTCAATCGTA"], motif)
+ self.assertEqual(motif.num_occurrences, 10)
+ self.assertAlmostEqual(motif.evalue, 1.1e-22)
+ self.assertEqual(motif.alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(len(motif.instances), 10)
+ self.assertAlmostEqual(motif.instances[0].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[1].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[2].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[3].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[4].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[5].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[6].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[7].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[8].pvalue, 1.96e-06)
+ self.assertAlmostEqual(motif.instances[9].pvalue, 1.96e-06)
+ self.assertEqual(motif.instances[0].sequence_name, 'SEQ10;')
+ self.assertEqual(motif.instances[1].sequence_name, 'SEQ9;')
+ self.assertEqual(motif.instances[2].sequence_name, 'SEQ8;')
+ self.assertEqual(motif.instances[3].sequence_name, 'SEQ7;')
+ self.assertEqual(motif.instances[4].sequence_name, 'SEQ6;')
+ self.assertEqual(motif.instances[5].sequence_name, 'SEQ5;')
+ self.assertEqual(motif.instances[6].sequence_name, 'SEQ4;')
+ self.assertEqual(motif.instances[7].sequence_name, 'SEQ3;')
+ self.assertEqual(motif.instances[8].sequence_name, 'SEQ2;')
+ self.assertEqual(motif.instances[9].sequence_name, 'SEQ1;')
+ self.assertEqual(motif.instances[0].start, 1)
+ self.assertEqual(motif.instances[1].start, 1)
+ self.assertEqual(motif.instances[2].start, 1)
+ self.assertEqual(motif.instances[3].start, 1)
+ self.assertEqual(motif.instances[4].start, 1)
+ self.assertEqual(motif.instances[5].start, 1)
+ self.assertEqual(motif.instances[6].start, 1)
+ self.assertEqual(motif.instances[7].start, 1)
+ self.assertEqual(motif.instances[8].start, 1)
+ self.assertEqual(motif.instances[9].start, 1)
+ self.assertEqual(motif.instances[0].strand, '+')
+ self.assertEqual(motif.instances[1].strand, '+')
+ self.assertEqual(motif.instances[2].strand, '+')
+ self.assertEqual(motif.instances[3].strand, '+')
+ self.assertEqual(motif.instances[4].strand, '+')
+ self.assertEqual(motif.instances[5].strand, '+')
+ self.assertEqual(motif.instances[6].strand, '+')
+ self.assertEqual(motif.instances[7].strand, '+')
+ self.assertEqual(motif.instances[8].strand, '+')
+ self.assertEqual(motif.instances[9].strand, '+')
+ self.assertEqual(motif.instances[0].length, 10)
+ self.assertEqual(motif.instances[1].length, 10)
+ self.assertEqual(motif.instances[2].length, 10)
+ self.assertEqual(motif.instances[3].length, 10)
+ self.assertEqual(motif.instances[4].length, 10)
+ self.assertEqual(motif.instances[5].length, 10)
+ self.assertEqual(motif.instances[6].length, 10)
+ self.assertEqual(motif.instances[7].length, 10)
+ self.assertEqual(motif.instances[8].length, 10)
+ self.assertEqual(motif.instances[9].length, 10)
+ self.assertEqual(motif.instances[0].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[1].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[2].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[3].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[4].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[5].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[6].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[7].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[8].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[9].motif_name, 'Motif CTCAATCGTA')
+ self.assertEqual(motif.instances[0].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[1].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[2].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[3].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[4].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[5].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[6].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[7].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[8].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(motif.instances[9].alphabet, IUPAC.unambiguous_dna)
+ self.assertEqual(str(motif.instances[0]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[1]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[2]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[3]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[4]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[5]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[6]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[7]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[8]), "CTCAATCGTA")
+ self.assertEqual(str(motif.instances[9]), "CTCAATCGTA")
+ handle.close()
+
class TestMAST(unittest.TestCase):
+ """MAST format tests."""
def test_mast_parser_1(self):
- """Test if Bio.motifs can parse MAST output files (first test)
- """
+ """Parse motifs/mast.dna.oops.txt file."""
handle = open("motifs/mast.dna.oops.txt")
record = motifs.parse(handle, "MAST")
self.assertEqual(record.version, "3.0")
@@ -1405,8 +1508,7 @@ class TestMAST(unittest.TestCase):
handle.close()
def test_mast_parser_2(self):
- """Test if Bio.motifs can parse MAST output files (second test)
- """
+ """Parse motifs/mast.protein.oops.txt file."""
handle = open("motifs/mast.protein.oops.txt")
record = motifs.parse(handle, "MAST")
self.assertEqual(record.version, "3.0")
@@ -1491,8 +1593,7 @@ class TestMAST(unittest.TestCase):
handle.close()
def test_mast_parser_3(self):
- """Test if Bio.motifs can parse MAST output files (third test)
- """
+ """Parse motifs/mast.protein.tcm.txt file."""
handle = open("motifs/mast.protein.tcm.txt")
record = motifs.parse(handle, "MAST")
self.assertEqual(record.version, "3.0")
@@ -1522,10 +1623,10 @@ class TestMAST(unittest.TestCase):
class TestTransfac(unittest.TestCase):
+ """Transface format tests."""
def test_transfac_parser(self):
- """Test if Bio.motifs can parse TRANSFAC files
- """
+ """Parse motifs/transfac.dat file."""
handle = open("motifs/transfac.dat")
record = motifs.parse(handle, 'TRANSFAC')
motif = record[0]
@@ -1630,7 +1731,10 @@ class TestTransfac(unittest.TestCase):
class MotifTestPWM(unittest.TestCase):
+ """PWM motif tests."""
+
def setUp(self):
+ """Define motif and sequence for tests."""
handle = open("motifs/SRF.pfm")
self.m = motifs.read(handle, "pfm")
handle.close()
diff --git a/Tests/test_pairwise2.py b/Tests/test_pairwise2.py
index 9f8376e..49996a9 100644
--- a/Tests/test_pairwise2.py
+++ b/Tests/test_pairwise2.py
@@ -3,29 +3,19 @@
# This code is part of the Biopython distribution and governed by its
# license. Please see the LICENSE file that should have been included
# as part of this package.
-
-# Remove unittest2 import after dropping support for Python2.6
-import sys
+import unittest
+import warnings
from Bio import pairwise2
from Bio.SubsMat.MatrixInfo import blosum62
-
-if sys.version_info < (2, 7):
- try:
- import unittest2 as unittest
- except ImportError:
- from Bio import MissingPythonDependencyError
- raise MissingPythonDependencyError("Under Python 2.6 this test needs "
- "the unittest2 library")
-else:
- import unittest
+from Bio import BiopythonWarning
class TestPairwiseErrorConditions(unittest.TestCase):
- """Test several error conditions"""
+ """Test several error conditions."""
def test_function_name(self):
- """Test for wrong function names"""
+ """Test for wrong function names."""
# Function name pattern must be globalXX or localXX
self.assertRaises(AttributeError, lambda: pairwise2.align.globalxxx)
self.assertRaises(AttributeError, lambda: pairwise2.align.localxxx)
@@ -35,7 +25,7 @@ class TestPairwiseErrorConditions(unittest.TestCase):
self.assertRaises(AttributeError, lambda: pairwise2.align.globalxa)
def test_function_parameters(self):
- """Test for number of parameteres"""
+ """Test for number of parameters."""
# globalxx takes two parameters
self.assertRaises(TypeError, pairwise2.align.globalxx, 'A')
# matrix_only is no keyword argument
@@ -59,6 +49,18 @@ class TestPairwiseErrorConditions(unittest.TestCase):
self.assertRaises(ValueError, pairwise2.align.globalxs, 'A', 'C',
-1, -5)
+ def test_warnings(self):
+ """Test for warnings."""
+ with warnings.catch_warnings(record=True) as w:
+ # Cause all warnings to always be triggered.
+ warnings.simplefilter('always')
+ # Trigger a warning.
+ pairwise2.align.localxx('GA', 'CGA', penalize_end_gaps=True)
+ # Verify some things
+ self.assertEqual(len(w), 1)
+ self.assertEqual(w[-1].category, BiopythonWarning)
+ self.assertIn('should not', str(w[-1].message))
+
class TestPairwiseGlobal(unittest.TestCase):
@@ -84,7 +86,7 @@ GA--T
""")
def test_globalxx_simple2(self):
- """Do the same test with sequence order reversed"""
+ """Do the same test with sequence order reversed."""
aligns = pairwise2.align.globalxx("GAT", "GAACT")
self.assertEqual(len(aligns), 2)
aligns.sort()
@@ -105,6 +107,17 @@ GAACT
Score=3
""")
+ def test_list_input(self):
+ """Do a global aligment with sequences supplied as lists."""
+ aligns = pairwise2.align.globalxx(['Gly', 'Ala', 'Thr'],
+ ['Gly', 'Ala', 'Ala', 'Cys', 'Thr'],
+ gap_char=['---'])
+ aligns.sort()
+ seq1, seq2, score, begin, end = aligns[0]
+ self.assertEqual(score, 3)
+ self.assertEqual(seq1, ['Gly', '---', 'Ala', '---', 'Thr'])
+ self.assertEqual(seq2, ['Gly', 'Ala', 'Ala', 'Cys', 'Thr'])
+
class TestPairwiseLocal(unittest.TestCase):
@@ -128,7 +141,7 @@ zA-Bz
""")
def test_localms(self):
- """Two different local alignments"""
+ """Two different local alignments."""
aligns = sorted(pairwise2.align.localms("xxxABCDxxx", "zzzABzzCDz", 1,
-0.5, -3, -1))
alignment = pairwise2.format_alignment(*aligns[0])
@@ -159,16 +172,16 @@ zzzABzzCDz
class TestScoreOnly(unittest.TestCase):
- """Test paramater ``score_only``"""
+ """Test paramater ``score_only``."""
def test_score_only_global(self):
- """Test ``score_only`` in a global alignment"""
+ """Test ``score_only`` in a global alignment."""
aligns1 = pairwise2.align.globalxx("GAACT", "GAT")
aligns2 = pairwise2.align.globalxx("GAACT", "GAT", score_only=True)
self.assertEqual(aligns1[0][2], aligns2)
def test_score_only_local(self):
- """Test ``score_only`` in a local alignment"""
+ """Test ``score_only`` in a local alignment."""
aligns1 = pairwise2.align.localms("xxxABCDxxx", "zzzABzzCDz", 1, -0.5,
-3, -1)
aligns2 = pairwise2.align.localms("xxxABCDxxx", "zzzABzzCDz", 1, -0.5,
@@ -322,7 +335,7 @@ GT--
""")
def test_penalize_end_gaps2(self):
- """Do the same, but use the generic method (with the same resutlt)"""
+ """Do the same, but use the generic method (with the same result)."""
aligns = pairwise2.align.globalxs("GACT", "GT", -0.8, -0.2,
penalize_end_gaps=0,
force_generic=True)
@@ -539,12 +552,11 @@ class TestPersiteGapPenalties(unittest.TestCase):
def no_gaps(x, y):
"""Very expensive to open a gap in seq1."""
-
x = 0 # fool QuantifiedCode, x is not used here
return -2000 - y
def specific_gaps(x, y):
- """Very expensive to open a gap in seq2
+ """Very expensive to open a gap in seq2.
...unless it is in one of the allowed positions:
"""
@@ -578,7 +590,7 @@ AAAABBBAAAACCCCCCCCCCCCCCAAAABBBAAAA
return -2000 - y
def specific_gaps(x, y):
- """Very expensive to open a gap in seq2
+ """Very expensive to open a gap in seq2.
...unless it is in one of the allowed positions:
"""
diff --git a/Tests/test_phenotype.py b/Tests/test_phenotype.py
index 50ba87c..d159f68 100644
--- a/Tests/test_phenotype.py
+++ b/Tests/test_phenotype.py
@@ -299,6 +299,7 @@ class TestPhenoMicro(unittest.TestCase):
w[1] = 1
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_phenotype_fit.py b/Tests/test_phenotype_fit.py
index a010976..f9cacd1 100644
--- a/Tests/test_phenotype_fit.py
+++ b/Tests/test_phenotype_fit.py
@@ -6,12 +6,14 @@
try:
import numpy
+ del numpy
except ImportError:
from Bio import MissingExternalDependencyError
raise MissingExternalDependencyError(
"Install NumPy if you want to use Bio.phenotype.")
try:
import scipy
+ del scipy
from scipy.optimize import OptimizeWarning
except ImportError:
from Bio import MissingExternalDependencyError
@@ -51,13 +53,14 @@ class TestPhenoMicro(unittest.TestCase):
self.assertEqual(w.model, 'gompertz')
self.assertAlmostEqual(w.lag, 6.0425868725090357, places=5)
self.assertAlmostEqual(w.plateau, 188.51404344898586, places=5)
- self.assertAlmostEqual(w.slope, 48.190618284831132, places=5)
+ self.assertAlmostEqual(w.slope, 48.190618284831132, places=4)
self.assertAlmostEqual(w.v, 0.10000000000000001, places=5)
self.assertAlmostEqual(w.y0, 45.879770069807989, places=5)
self.assertEqual(w.max, 313.0)
self.assertEqual(w.min, 29.0)
self.assertEqual(w.average_height, 217.82552083333334)
+
if __name__ == "__main__":
runner = unittest.TextTestRunner(verbosity=2)
unittest.main(testRunner=runner)
diff --git a/Tests/test_phyml_tool.py b/Tests/test_phyml_tool.py
index 8894697..d36e2d0 100644
--- a/Tests/test_phyml_tool.py
+++ b/Tests/test_phyml_tool.py
@@ -21,7 +21,7 @@ exe_name = "PhyML-3.1_win32.exe" if sys.platform == "win32" else "phyml"
from Bio._py3k import getoutput
try:
output = getoutput(exe_name + " --version")
- if "not found" not in output and "20" in output:
+ if "not found" not in output and ("20" in output or "PhyML" in output):
phyml_exe = exe_name
except OSError:
# TODO: Use FileNotFoundError once we drop Python 2
@@ -33,7 +33,8 @@ except OSError:
if not phyml_exe:
raise MissingExternalDependencyError(
- "Install PhyML 3.0 if you want to use the Bio.Phylo.Applications wrapper.")
+ "Install PhyML 3.0 or later if you want to use the "
+ "Bio.Phylo.Applications wrapper.")
# Example Phylip file with 4 aligned protein sequences
@@ -52,11 +53,18 @@ class AppTests(unittest.TestCase):
self.assertTrue(len(out) > 0)
self.assertEqual(len(err), 0)
# Check the output tree
- tree = Phylo.read(EX_PHYLIP + '_phyml_tree.txt', 'newick')
+ outfname = EX_PHYLIP + '_phyml_tree.txt'
+ if not os.path.isfile(outfname):
+ # NB: Briefly, PhyML dropped the .txt suffix (#919)
+ outfname = outfname[:-4]
+ tree = Phylo.read(outfname, 'newick')
self.assertEqual(tree.count_terminals(), 4)
+ except Exception as exc:
+ self.fail("PhyML wrapper error: %s" % exc)
finally:
# Clean up generated files
- for suffix in ['_phyml_tree.txt', '_phyml_stats.txt']:
+ for suffix in ['_phyml_tree.txt', '_phyml_tree',
+ '_phyml_stats.txt', '_phyml_stats']:
fname = EX_PHYLIP + suffix
if os.path.isfile(fname):
os.remove(fname)
diff --git a/Tests/test_psw.py b/Tests/test_psw.py
index 4665e1c..4427f31 100755
--- a/Tests/test_psw.py
+++ b/Tests/test_psw.py
@@ -111,6 +111,7 @@ def testing_suite():
return big_suite
+
if __name__ == "__main__":
unittest_suite = unittest.TestLoader().loadTestsFromName("test_psw")
doctest_suite = doctest.DocTestSuite(psw)
diff --git a/Tests/test_py3k.py b/Tests/test_py3k.py
deleted file mode 100644
index fae0302..0000000
--- a/Tests/test_py3k.py
+++ /dev/null
@@ -1,24 +0,0 @@
-# Copyright 2009 by Peter Cock. All rights reserved.
-# This code is part of the Biopython distribution and governed by its
-# license. Please see the LICENSE file that should have been included
-# as part of this package.
-
-"""Tests for our Python 2/3 compatibility layer, Bio._py3k"""
-
-import unittest
-
-
-class ODTest(unittest.TestCase):
- def test_od(self):
- """Quick test OrderedDict works."""
- from Bio._py3k import OrderedDict
- d = OrderedDict()
- d[5] = "five"
- d[1] = "one"
- d[3] = "three"
- self.assertEqual(list(d.keys()), [5, 1, 3])
- self.assertEqual(list(d), [5, 1, 3])
-
-if __name__ == "__main__":
- runner = unittest.TextTestRunner(verbosity=2)
- unittest.main(testRunner=runner)
diff --git a/Tests/test_raxml_tool.py b/Tests/test_raxml_tool.py
index a323d0d..f921398 100644
--- a/Tests/test_raxml_tool.py
+++ b/Tests/test_raxml_tool.py
@@ -5,7 +5,6 @@
"""Unit tests for Bio.Phylo.Applications wrappers."""
-import sys
import os
import unittest
@@ -40,7 +39,7 @@ class AppTests(unittest.TestCase):
sequences=EX_PHYLIP, model="PROTCATWAG",
name="test")
# The parsimony seed should be set automatically
- self.assertTrue('-p' in str(cmd))
+ self.assertIn('-p', str(cmd))
# Smoke test
try:
out, err = cmd()
diff --git a/Tests/test_samtools_tool.py b/Tests/test_samtools_tool.py
index c16a17e..811f551 100644
--- a/Tests/test_samtools_tool.py
+++ b/Tests/test_samtools_tool.py
@@ -21,6 +21,7 @@ from Bio.Sequencing.Applications import SamtoolsIdxstatsCommandline
from Bio.Sequencing.Applications import SamtoolsIndexCommandline
from Bio.Sequencing.Applications import SamtoolsMergeCommandline
from Bio.Sequencing.Applications import SamtoolsMpileupCommandline
+from Bio.Sequencing.Applications import SamtoolsVersion1xSortCommandline
from Bio.Sequencing.Applications import SamtoolsSortCommandline
# TODO from Bio.Sequencing.Applications import SamtoolsPhaseCommandline
# TODO from Bio.Sequencing.Applications import SamtoolsReheaderCommandline
@@ -28,7 +29,7 @@ from Bio.Sequencing.Applications import SamtoolsSortCommandline
# TODO from Bio.Sequencing.Applications import SamtoolsTargetcutCommandline
# TODO from Bio.Sequencing.Applications import SamtoolsFixmateCommandline
#################################################################
-
+SamtoolsVersion0xSortCommandline = SamtoolsSortCommandline
# Try to avoid problems when the OS is in another language
os.environ['LANG'] = 'C'
@@ -101,11 +102,11 @@ class SamtoolsTestCase(unittest.TestCase):
"SamBam",
"bam1.bam.bai")
self.sortedbamfile1 = os.path.join(os.path.dirname(os.path.abspath(__file__)),
- "SamBam",
- "bam1_sorted.bam")
+ "SamBam",
+ "bam1_sorted.bam")
self.sortedbamfile2 = os.path.join(os.path.dirname(os.path.abspath(__file__)),
- "SamBam",
- "bam2_sorted.bam")
+ "SamBam",
+ "bam2_sorted.bam")
self.files_to_clean = [self.referenceindexfile, self.bamindexfile1, self.outbamfile]
def tearDown(self):
@@ -179,15 +180,23 @@ class SamtoolsTestCase(unittest.TestCase):
# TODO: def test_fixmate(self):
def test_sort(self):
- cmdline = SamtoolsSortCommandline(samtools_exe)
- cmdline.set_parameter("input_bam", self.bamfile1)
+
+ cmdline = SamtoolsVersion0xSortCommandline(samtools_exe)
+ cmdline.set_parameter("input", self.bamfile1)
cmdline.set_parameter("out_prefix", "SamBam/out")
+
try:
stdout, stderr = cmdline()
except ApplicationError as err:
if "[bam_sort] Use -T PREFIX / -o FILE to specify temporary and final output files" in str(err):
- # TODO: The samtools sort API changed...
- return
+ cmdline = SamtoolsVersion1xSortCommandline(samtools_exe)
+ cmdline.set_parameter("input", self.bamfile1)
+ cmdline.set_parameter("-T", "out")
+ cmdline.set_parameter("-o", "out.bam")
+ try:
+ stdout, stderr = cmdline()
+ except ApplicationError:
+ raise
else:
raise
self.assertFalse(stderr,
@@ -221,8 +230,8 @@ class SamtoolsTestCase(unittest.TestCase):
# Worked up to v1.2, then there was a regression failing with message
# but as of v1.3 expect a warning: [W::bam_merge_core2] No @HD tag found.
self.assertTrue(not stderr or stderr.strip() == "[W::bam_merge_core2] No @HD tag found.",
- "Samtools merge failed:\n%s\nStderr:%s"
- % (cmdline, stderr))
+ "Samtools merge failed:\n%s\nStderr:%s"
+ % (cmdline, stderr))
self.assertTrue(os.path.exists(self.outbamfile))
def test_mpileup(self):
diff --git a/Tests/test_seq.py b/Tests/test_seq.py
index f3a3360..933077e 100644
--- a/Tests/test_seq.py
+++ b/Tests/test_seq.py
@@ -8,23 +8,24 @@ import copy
import sys
import warnings
-# Remove unittest2 import after dropping support for Python2.6
-if sys.version_info < (2, 7):
+# Remove unittest2 import after dropping support for Python 2
+if sys.version_info[0] < 3:
try:
import unittest2 as unittest
except ImportError:
from Bio import MissingPythonDependencyError
- raise MissingPythonDependencyError("Under Python 2.6 this test needs the unittest2 library")
+ raise MissingPythonDependencyError("Under Python 2 this test needs the unittest2 library")
else:
import unittest
+from Bio import BiopythonWarning
from Bio import Alphabet
from Bio import Seq
from Bio.Alphabet import IUPAC, Gapped
-from Bio.Data.IUPACData import ambiguous_dna_complement, ambiguous_rna_complement
-from Bio.Data.IUPACData import ambiguous_dna_values, ambiguous_rna_values
-from Bio.Data.CodonTable import TranslationError
-from Bio.Data.CodonTable import standard_dna_table
+from Bio.Data.IUPACData import (ambiguous_dna_complement,
+ ambiguous_rna_complement,
+ ambiguous_dna_values, ambiguous_rna_values)
+from Bio.Data.CodonTable import TranslationError, standard_dna_table
from Bio.Seq import MutableSeq
@@ -64,11 +65,20 @@ protein_seqs = [
Seq.Seq("ATCGPK", IUPAC.protein),
Seq.Seq("T.CGPK", Alphabet.Gapped(IUPAC.protein, ".")),
Seq.Seq("T-CGPK", Alphabet.Gapped(IUPAC.protein, "-")),
- Seq.Seq("MEDG-KRXR*", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-")),
- Seq.MutableSeq("ME-K-DRXR*XU", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-")),
- Seq.Seq("MEDG-KRXR@", Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.extended_protein, "-"), "@")),
- Seq.Seq("ME-KR@", Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.protein, "-"), "@")),
- Seq.Seq("MEDG.KRXR@", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "@"), ".")),
+ Seq.Seq("MEDG-KRXR*",
+ Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"),
+ "-")),
+ Seq.MutableSeq("ME-K-DRXR*XU",
+ Alphabet.Gapped(Alphabet.HasStopCodon(
+ IUPAC.extended_protein, "*"), "-")),
+ Seq.Seq("MEDG-KRXR@",
+ Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.extended_protein, "-"),
+ "@")),
+ Seq.Seq("ME-KR@",
+ Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.protein, "-"), "@")),
+ Seq.Seq("MEDG.KRXR@",
+ Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "@"),
+ ".")),
]
@@ -92,7 +102,8 @@ class TestSeq(unittest.TestCase):
def test_truncated_repr(self):
seq = "TCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGA"
- expected = "Seq('TCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGATGCATCATG...GGA', IUPACAmbiguousDNA())"
+ expected = "Seq('TCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGATGC" + \
+ "ATCATG...GGA', IUPACAmbiguousDNA())"
self.assertEqual(expected, repr(Seq.Seq(seq, IUPAC.ambiguous_dna)))
def test_length(self):
@@ -143,14 +154,13 @@ class TestSeq(unittest.TestCase):
self.assertEqual(str(self.s) + "T", str(u))
def test_concatenation_error(self):
- """Test DNA Seq objects cannot be concatenated with Protein Seq
- objects"""
+ """DNA Seq objects cannot be concatenated with Protein Seq objects."""
+
with self.assertRaises(TypeError):
self.s + Seq.Seq("T", IUPAC.protein)
def test_concatenation_of_ambiguous_and_unambiguous_dna(self):
- """Test concatenated Seq object with ambiguous and unambiguous DNA
- returns ambiguous Seq"""
+ """Concatenate Seq object with ambiguous and unambiguous DNA returns ambiguous Seq."""
t = Seq.Seq("T", IUPAC.ambiguous_dna)
u = self.s + t
self.assertEqual("IUPACAmbiguousDNA()", str(u.alphabet))
@@ -178,7 +188,8 @@ class TestSeqStringMethods(unittest.TestCase):
Seq.Seq("AUUUCG", IUPAC.ambiguous_rna),
Seq.MutableSeq("AUUCG", IUPAC.ambiguous_rna),
Seq.Seq("uCAg", Alphabet.generic_rna),
- Seq.MutableSeq("UC-AG", Alphabet.Gapped(Alphabet.generic_rna, "-")),
+ Seq.MutableSeq("UC-AG",
+ Alphabet.Gapped(Alphabet.generic_rna, "-")),
Seq.Seq("U.CAG", Alphabet.Gapped(Alphabet.generic_rna, ".")),
]
self.nuc = [Seq.Seq("ATCG", Alphabet.generic_nucleotide)]
@@ -187,11 +198,23 @@ class TestSeqStringMethods(unittest.TestCase):
Seq.Seq("atcGPK", Alphabet.generic_protein),
Seq.Seq("T.CGPK", Alphabet.Gapped(IUPAC.protein, ".")),
Seq.Seq("T-CGPK", Alphabet.Gapped(IUPAC.protein, "-")),
- Seq.Seq("MEDG-KRXR*", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-")),
- Seq.MutableSeq("ME-K-DRXR*XU", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-")),
- Seq.Seq("MEDG-KRXR@", Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.extended_protein, "-"), "@")),
- Seq.Seq("ME-KR@", Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.protein, "-"), "@")),
- Seq.Seq("MEDG.KRXR@", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "@"), ".")),
+ Seq.Seq("MEDG-KRXR*",
+ Alphabet.Gapped(
+ Alphabet.HasStopCodon(IUPAC.extended_protein, "*"),
+ "-")),
+ Seq.MutableSeq("ME-K-DRXR*XU",
+ Alphabet.Gapped(
+ Alphabet.HasStopCodon(IUPAC.extended_protein,
+ "*"), "-")),
+ Seq.Seq("MEDG-KRXR@",
+ Alphabet.HasStopCodon(
+ Alphabet.Gapped(IUPAC.extended_protein, "-"), "@")),
+ Seq.Seq("ME-KR@",
+ Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.protein, "-"),
+ "@")),
+ Seq.Seq("MEDG.KRXR@",
+ Alphabet.Gapped(Alphabet.HasStopCodon(
+ IUPAC.extended_protein, "@"), ".")),
]
self.test_chars = ["-", Seq.Seq("-"), Seq.Seq("*"), "-X@"]
@@ -211,7 +234,8 @@ class TestSeqStringMethods(unittest.TestCase):
def test_equal_comparison_of_incompatible_alphabets(self):
"""Test __eq__ comparison method"""
with warnings.catch_warnings(record=True):
- Seq.Seq("TCAAAA", IUPAC.ambiguous_dna) == Seq.Seq("TCAAAA", IUPAC.ambiguous_rna)
+ Seq.Seq("TCAAAA", IUPAC.ambiguous_dna) == \
+ Seq.Seq("TCAAAA", IUPAC.ambiguous_rna)
def test_not_equal_comparsion(self):
"""Test __ne__ comparison method"""
@@ -222,14 +246,14 @@ class TestSeqStringMethods(unittest.TestCase):
"""Test __lt__ comparison method"""
seq1 = Seq.Seq("TCAAA", IUPAC.ambiguous_dna)
seq2 = Seq.Seq("UCAAAA", IUPAC.ambiguous_rna)
- with warnings.catch_warnings(record=True):
+ with self.assertWarns(BiopythonWarning):
self.assertTrue(seq1 < seq2)
def test_less_than_or_equal_comparison_of_incompatible_alphabets(self):
"""Test __lt__ comparison method"""
seq1 = Seq.Seq("TCAAA", IUPAC.ambiguous_dna)
seq2 = Seq.Seq("UCAAAA", IUPAC.ambiguous_rna)
- with warnings.catch_warnings(record=True):
+ with self.assertWarns(BiopythonWarning):
self.assertTrue(seq1 <= seq2)
def test_add_method_using_wrong_object(self):
@@ -237,7 +261,8 @@ class TestSeqStringMethods(unittest.TestCase):
self.s + dict()
def test_radd_method(self):
- self.assertEqual("TCAAAAGGATGCATCATGTCAAAAGGATGCATCATG", str(self.s.__radd__(self.s)))
+ self.assertEqual("TCAAAAGGATGCATCATGTCAAAAGGATGCATCATG",
+ str(self.s.__radd__(self.s)))
def test_radd_method_using_incompatible_alphabets(self):
rna_seq = Seq.Seq("UCAAAA", IUPAC.ambiguous_rna)
@@ -249,11 +274,11 @@ class TestSeqStringMethods(unittest.TestCase):
self.s.__radd__(dict())
def test_to_string_deprecated_method(self):
- with warnings.catch_warnings(record=True):
+ with self.assertWarns(BiopythonWarning):
self.s.tostring()
def test_contains_method(self):
- self.assertTrue("AAAA" in self.s)
+ self.assertIn("AAAA", self.s)
def test_startswith(self):
self.assertTrue(self.s.startswith("TCA"))
@@ -272,8 +297,11 @@ class TestSeqStringMethods(unittest.TestCase):
def test_append_proteins(self):
self.test_chars.append(Seq.Seq("K", Alphabet.generic_protein))
- self.test_chars.append(Seq.Seq("K-", Alphabet.Gapped(Alphabet.generic_protein, "-")))
- self.test_chars.append(Seq.Seq("K@", Alphabet.Gapped(IUPAC.protein, "@")))
+ self.test_chars.append(Seq.Seq("K-",
+ Alphabet.Gapped(
+ Alphabet.generic_protein, "-")))
+ self.test_chars.append(Seq.Seq("K@",
+ Alphabet.Gapped(IUPAC.protein, "@")))
self.assertEqual(7, len(self.test_chars))
@@ -290,9 +318,12 @@ class TestSeqStringMethods(unittest.TestCase):
for char in self.test_chars:
str_char = str(char)
if isinstance(a, Seq.Seq):
- self.assertEqual(str(a.strip(char)), str(a).strip(str_char))
- self.assertEqual(str(a.lstrip(char)), str(a).lstrip(str_char))
- self.assertEqual(str(a.rstrip(char)), str(a).rstrip(str_char))
+ self.assertEqual(str(a.strip(char)),
+ str(a).strip(str_char))
+ self.assertEqual(str(a.lstrip(char)),
+ str(a).lstrip(str_char))
+ self.assertEqual(str(a.rstrip(char)),
+ str(a).rstrip(str_char))
def test_finding_characters(self):
for a in self.dna + self.rna + self.nuc + self.protein:
@@ -300,9 +331,11 @@ class TestSeqStringMethods(unittest.TestCase):
str_char = str(char)
if isinstance(a, Seq.Seq):
self.assertEqual(a.find(char), str(a).find(str_char))
- self.assertEqual(a.find(char, 2, -2), str(a).find(str_char, 2, -2))
+ self.assertEqual(a.find(char, 2, -2),
+ str(a).find(str_char, 2, -2))
self.assertEqual(a.rfind(char), str(a).rfind(str_char))
- self.assertEqual(a.rfind(char, 2, -2), str(a).rfind(str_char, 2, -2))
+ self.assertEqual(a.rfind(char, 2, -2),
+ str(a).rfind(str_char, 2, -2))
def test_counting_characters(self):
for a in self.dna + self.rna + self.nuc + self.protein:
@@ -310,7 +343,8 @@ class TestSeqStringMethods(unittest.TestCase):
str_char = str(char)
if isinstance(a, Seq.Seq):
self.assertEqual(a.count(char), str(a).count(str_char))
- self.assertEqual(a.count(char, 2, -2), str(a).count(str_char, 2, -2))
+ self.assertEqual(a.count(char, 2, -2),
+ str(a).count(str_char, 2, -2))
def test_splits(self):
for a in self.dna + self.rna + self.nuc + self.protein:
@@ -323,8 +357,9 @@ class TestSeqStringMethods(unittest.TestCase):
str(a).rsplit(str_char))
for max_sep in [0, 1, 2, 999]:
- self.assertEqual([str(x) for x in a.split(char, max_sep)],
- str(a).split(str_char, max_sep))
+ self.assertEqual(
+ [str(x) for x in a.split(char, max_sep)],
+ str(a).split(str_char, max_sep))
class TestSeqAddition(unittest.TestCase):
@@ -340,8 +375,10 @@ class TestSeqAddition(unittest.TestCase):
Seq.Seq("AUUUCG", IUPAC.ambiguous_rna),
Seq.MutableSeq("AUUCG", IUPAC.ambiguous_rna),
Seq.Seq("uCAg", Alphabet.generic_rna),
- Seq.MutableSeq("UC-AG", Alphabet.Gapped(Alphabet.generic_rna, "-")),
- Seq.Seq("U.CAG", Alphabet.Gapped(Alphabet.generic_rna, ".")),
+ Seq.MutableSeq("UC-AG",
+ Alphabet.Gapped(Alphabet.generic_rna, "-")),
+ Seq.Seq("U.CAG",
+ Alphabet.Gapped(Alphabet.generic_rna, ".")),
"UGCAU",
]
self.nuc = [
@@ -353,8 +390,12 @@ class TestSeqAddition(unittest.TestCase):
Seq.Seq("atcGPK", Alphabet.generic_protein),
Seq.Seq("T.CGPK", Alphabet.Gapped(IUPAC.protein, ".")),
Seq.Seq("T-CGPK", Alphabet.Gapped(IUPAC.protein, "-")),
- Seq.Seq("MEDG-KRXR*", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-")),
- Seq.MutableSeq("ME-K-DRXR*XU", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-")),
+ Seq.Seq("MEDG-KRXR*",
+ Alphabet.Gapped(Alphabet.HasStopCodon(
+ IUPAC.extended_protein, "*"), "-")),
+ Seq.MutableSeq("ME-K-DRXR*XU",
+ Alphabet.Gapped(Alphabet.HasStopCodon(
+ IUPAC.extended_protein, "*"), "-")),
"TEDDF",
]
@@ -406,14 +447,16 @@ class TestSeqAddition(unittest.TestCase):
with self.assertRaises(ValueError):
a + b
- def test_exception_when_added_protein_has_more_than_one_stop_codon_type(self):
+ def test_exception_when_added_protein_has_several_stop_codon_types(self):
"""Test resulting protein has stop codon types '*' and '@'"""
- a = Seq.Seq("MEDG-KRXR@", Alphabet.HasStopCodon(Alphabet.Gapped(IUPAC.extended_protein, "-"), "@"))
- b = Seq.Seq("MEDG-KRXR*", Alphabet.Gapped(Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-"))
+ a = Seq.Seq("MEDG-KRXR@", Alphabet.HasStopCodon(
+ Alphabet.Gapped(IUPAC.extended_protein, "-"), "@"))
+ b = Seq.Seq("MEDG-KRXR*", Alphabet.Gapped(
+ Alphabet.HasStopCodon(IUPAC.extended_protein, "*"), "-"))
with self.assertRaises(ValueError):
a + b
- def test_exception_when_adding_protein_with_nucletides(self):
+ def test_exception_when_adding_protein_with_nucleotides(self):
for a in self.protein[0:5]:
for b in self.dna[0:3] + self.rna[0:4]:
with self.assertRaises(TypeError):
@@ -437,19 +480,24 @@ class TestMutableSeq(unittest.TestCase):
self.assertIsInstance(mutable_s, MutableSeq, "Creating MutableSeq")
mutable_s = self.s.tomutable()
- self.assertIsInstance(mutable_s, MutableSeq, "Converting Seq to mutable")
+ self.assertIsInstance(mutable_s, MutableSeq,
+ "Converting Seq to mutable")
- array_seq = MutableSeq(array.array(array_indicator, "TCAAAAGGATGCATCATG"),
+ array_seq = MutableSeq(array.array(array_indicator,
+ "TCAAAAGGATGCATCATG"),
IUPAC.ambiguous_dna)
- self.assertIsInstance(array_seq, MutableSeq, "Creating MutableSeq using array")
+ self.assertIsInstance(array_seq, MutableSeq,
+ "Creating MutableSeq using array")
def test_repr(self):
- self.assertEqual("MutableSeq('TCAAAAGGATGCATCATG', IUPACAmbiguousDNA())",
- repr(self.mutable_s))
+ self.assertEqual(
+ "MutableSeq('TCAAAAGGATGCATCATG', IUPACAmbiguousDNA())",
+ repr(self.mutable_s))
def test_truncated_repr(self):
seq = "TCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGA"
- expected = "MutableSeq('TCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAAAGGATGCATCATG...GGA', IUPACAmbiguousDNA())"
+ expected = "MutableSeq('TCAAAAGGATGCATCATGTCAAAAGGATGCATCATGTCAAA" + \
+ "AGGATGCATCATG...GGA', IUPACAmbiguousDNA())"
self.assertEqual(expected, repr(MutableSeq(seq, IUPAC.ambiguous_dna)))
def test_equal_comparison(self):
@@ -457,7 +505,7 @@ class TestMutableSeq(unittest.TestCase):
self.assertEqual(self.mutable_s, "TCAAAAGGATGCATCATG")
def test_equal_comparison_of_incompatible_alphabets(self):
- with warnings.catch_warnings(record=True):
+ with self.assertWarns(BiopythonWarning):
self.mutable_s == MutableSeq('UCAAAAGGA', IUPAC.ambiguous_rna)
def test_not_equal_comparison(self):
@@ -469,8 +517,9 @@ class TestMutableSeq(unittest.TestCase):
self.assertTrue(self.mutable_s[:-1] < self.mutable_s)
def test_less_than_comparison_of_incompatible_alphabets(self):
- with warnings.catch_warnings(record=True):
- self.mutable_s[:-1] < MutableSeq("UCAAAAGGAUGCAUCAUG", IUPAC.ambiguous_rna)
+ with self.assertWarns(BiopythonWarning):
+ self.mutable_s[:-1] < MutableSeq("UCAAAAGGAUGCAUCAUG",
+ IUPAC.ambiguous_rna)
def test_less_than_comparison_without_alphabet(self):
self.assertTrue(self.mutable_s[:-1] < "TCAAAAGGATGCATCATG")
@@ -480,8 +529,9 @@ class TestMutableSeq(unittest.TestCase):
self.assertTrue(self.mutable_s[:-1] <= self.mutable_s)
def test_less_than_or_equal_comparison_of_incompatible_alphabets(self):
- with warnings.catch_warnings(record=True):
- self.mutable_s[:-1] <= MutableSeq("UCAAAAGGAUGCAUCAUG", IUPAC.ambiguous_rna)
+ with self.assertWarns(BiopythonWarning):
+ self.mutable_s[:-1] <= MutableSeq("UCAAAAGGAUGCAUCAUG",
+ IUPAC.ambiguous_rna)
def test_less_than_or_equal_comparison_without_alphabet(self):
self.assertTrue(self.mutable_s[:-1] <= "TCAAAAGGATGCATCATG")
@@ -497,7 +547,8 @@ class TestMutableSeq(unittest.TestCase):
def test_radd_method_incompatible_alphabets(self):
with self.assertRaises(TypeError):
- self.mutable_s.__radd__(MutableSeq("UCAAAAGGA", IUPAC.ambiguous_rna))
+ self.mutable_s.__radd__(MutableSeq("UCAAAAGGA",
+ IUPAC.ambiguous_rna))
def test_radd_method_using_seq_object(self):
self.assertEqual("TCAAAAGGATGCATCATGTCAAAAGGATGCATCATG",
@@ -524,16 +575,19 @@ class TestMutableSeq(unittest.TestCase):
self.mutable_s[1:5], "Slice mutable seq")
self.mutable_s[1:3] = "GAT"
- self.assertEqual(MutableSeq("TGATAAAGGATGCATCATG", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TGATAAAGGATGCATCATG",
+ IUPAC.ambiguous_dna),
self.mutable_s,
"Set slice with string and adding extra nucleotide")
self.mutable_s[1:3] = self.mutable_s[5:7]
- self.assertEqual(MutableSeq("TAATAAAGGATGCATCATG", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TAATAAAGGATGCATCATG",
+ IUPAC.ambiguous_dna),
self.mutable_s, "Set slice with MutableSeq")
self.mutable_s[1:3] = array.array(array_indicator, "GAT")
- self.assertEqual(MutableSeq("TGATTAAAGGATGCATCATG", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TGATTAAAGGATGCATCATG",
+ IUPAC.ambiguous_dna),
self.mutable_s, "Set slice with array")
def test_setting_item(self):
@@ -553,12 +607,14 @@ class TestMutableSeq(unittest.TestCase):
def test_appending(self):
self.mutable_s.append("C")
- self.assertEqual(MutableSeq("TCAAAAGGATGCATCATGC", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TCAAAAGGATGCATCATGC",
+ IUPAC.ambiguous_dna),
self.mutable_s)
def test_inserting(self):
self.mutable_s.insert(4, "G")
- self.assertEqual(MutableSeq("TCAAGAAGGATGCATCATG", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TCAAGAAGGATGCATCATG",
+ IUPAC.ambiguous_dna),
self.mutable_s)
def test_popping_last_item(self):
@@ -624,18 +680,19 @@ class TestMutableSeq(unittest.TestCase):
seq.reverse_complement()
def test_to_string_method(self):
- """This method is currently deprecated, probably will need to remove this test soon"""
- with warnings.catch_warnings(record=True):
+ with self.assertWarns(BiopythonWarning):
self.mutable_s.tostring()
def test_extend_method(self):
self.mutable_s.extend("GAT")
- self.assertEqual(MutableSeq("TCAAAAGGATGCATCATGGAT", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TCAAAAGGATGCATCATGGAT",
+ IUPAC.ambiguous_dna),
self.mutable_s)
def test_extend_with_mutable_seq(self):
self.mutable_s.extend(MutableSeq("TTT", IUPAC.ambiguous_dna))
- self.assertEqual(MutableSeq("TCAAAAGGATGCATCATGTTT", IUPAC.ambiguous_dna),
+ self.assertEqual(MutableSeq("TCAAAAGGATGCATCATGTTT",
+ IUPAC.ambiguous_dna),
self.mutable_s)
def test_delete_stride_slice(self):
@@ -645,9 +702,12 @@ class TestMutableSeq(unittest.TestCase):
def test_extract_third_nucleotide(self):
"""Test extracting every third nucleotide (slicing with stride 3)"""
- self.assertEqual(MutableSeq("TAGTAA", IUPAC.ambiguous_dna), self.mutable_s[0::3])
- self.assertEqual(MutableSeq("CAGGTT", IUPAC.ambiguous_dna), self.mutable_s[1::3])
- self.assertEqual(MutableSeq("AAACCG", IUPAC.ambiguous_dna), self.mutable_s[2::3])
+ self.assertEqual(MutableSeq("TAGTAA", IUPAC.ambiguous_dna),
+ self.mutable_s[0::3])
+ self.assertEqual(MutableSeq("CAGGTT", IUPAC.ambiguous_dna),
+ self.mutable_s[1::3])
+ self.assertEqual(MutableSeq("AAACCG", IUPAC.ambiguous_dna),
+ self.mutable_s[2::3])
def test_set_wobble_codon_to_n(self):
"""Test setting wobble codon to N (set slice with stride 3)"""
@@ -662,8 +722,10 @@ class TestUnknownSeq(unittest.TestCase):
def test_construction(self):
self.assertEqual("??????", str(Seq.UnknownSeq(6)))
- self.assertEqual("NNNNNN", str(Seq.UnknownSeq(6, Alphabet.generic_dna)))
- self.assertEqual("XXXXXX", str(Seq.UnknownSeq(6, Alphabet.generic_protein)))
+ self.assertEqual("NNNNNN",
+ str(Seq.UnknownSeq(6, Alphabet.generic_dna)))
+ self.assertEqual("XXXXXX",
+ str(Seq.UnknownSeq(6, Alphabet.generic_protein)))
self.assertEqual("??????", str(Seq.UnknownSeq(6, character="?")))
with self.assertRaises(ValueError):
@@ -676,8 +738,9 @@ class TestUnknownSeq(unittest.TestCase):
self.assertEqual(6, len(self.s))
def test_repr(self):
- self.assertEqual("UnknownSeq(6, alphabet = Alphabet(), character = '?')",
- repr(self.s))
+ self.assertEqual(
+ "UnknownSeq(6, alphabet = Alphabet(), character = '?')",
+ repr(self.s))
def test_add_method(self):
seq1 = Seq.UnknownSeq(3, Alphabet.generic_dna)
@@ -702,8 +765,10 @@ class TestUnknownSeq(unittest.TestCase):
self.assertEqual(3, self.s.count("??"))
self.assertEqual(0, Seq.UnknownSeq(6, character="N").count("?"))
self.assertEqual(0, Seq.UnknownSeq(6, character="N").count("??"))
- self.assertEqual(4, Seq.UnknownSeq(6, character="?").count("?", start=2))
- self.assertEqual(2, Seq.UnknownSeq(6, character="?").count("??", start=2))
+ self.assertEqual(4,
+ Seq.UnknownSeq(6, character="?").count("?", start=2))
+ self.assertEqual(2,
+ Seq.UnknownSeq(6, character="?").count("??", start=2))
def test_complement(self):
self.s.complement()
@@ -745,10 +810,14 @@ class TestUnknownSeq(unittest.TestCase):
self.assertRaises(ValueError, seq.translate)
def test_ungap(self):
- seq = Seq.UnknownSeq(7, alphabet=Alphabet.Gapped(Alphabet.DNAAlphabet(), "-"))
+ seq = Seq.UnknownSeq(7,
+ alphabet=Alphabet.Gapped(Alphabet.DNAAlphabet(),
+ "-"))
self.assertEqual("NNNNNNN", str(seq.ungap("-")))
- seq = Seq.UnknownSeq(20, alphabet=Alphabet.Gapped(Alphabet.DNAAlphabet(), "-"), character='-')
+ seq = Seq.UnknownSeq(20,
+ alphabet=Alphabet.Gapped(Alphabet.DNAAlphabet(),
+ "-"), character='-')
self.assertEqual("", seq.ungap("-"))
@@ -762,21 +831,46 @@ class TestAmbiguousComplements(unittest.TestCase):
class TestComplement(unittest.TestCase):
def test_complement_ambiguous_dna_values(self):
for ambig_char, values in sorted(ambiguous_dna_values.items()):
- compl_values = str(Seq.Seq(values, alphabet=IUPAC.ambiguous_dna).complement())
- self.assertEqual(set(compl_values),
- set(ambiguous_dna_values[ambiguous_dna_complement[ambig_char]]))
+ compl_values = str(
+ Seq.Seq(values, alphabet=IUPAC.ambiguous_dna).complement())
+ ambig_values = (
+ ambiguous_dna_values[ambiguous_dna_complement[ambig_char]])
+ self.assertEqual(set(compl_values), set(ambig_values))
def test_complement_ambiguous_rna_values(self):
for ambig_char, values in sorted(ambiguous_rna_values.items()):
- compl_values = str(Seq.Seq(values, alphabet=IUPAC.ambiguous_rna).complement())
- self.assertEqual(set(compl_values),
- set(ambiguous_rna_values[ambiguous_rna_complement[ambig_char]]))
+ compl_values = str(
+ Seq.Seq(values, alphabet=IUPAC.ambiguous_rna).complement())
+ ambig_values = (
+ ambiguous_rna_values[ambiguous_rna_complement[ambig_char]])
+ self.assertEqual(set(compl_values), set(ambig_values))
def test_complement_incompatible_alphabets(self):
seq = Seq.Seq("CAGGTU")
with self.assertRaises(ValueError):
seq.complement()
+ def test_complement_of_mixed_dna_rna(self):
+ seq = "AUGAAACTG" # U and T
+ self.assertRaises(ValueError, Seq.complement, seq)
+
+ def test_complement_of_rna(self):
+ seq = "AUGAAACUG"
+ self.assertEqual("UACUUUGAC", Seq.complement(seq))
+
+ def test_complement_of_dna(self):
+ seq = "ATGAAACTG"
+ self.assertEqual("TACTTTGAC", Seq.complement(seq))
+
+ def test_complement_on_proteins(self):
+ """Test complement shouldn't work on a protein!"""
+ for s in protein_seqs:
+ with self.assertRaises(ValueError):
+ Seq.complement(s)
+
+ with self.assertRaises(ValueError):
+ s.complement()
+
class TestReverseComplement(unittest.TestCase):
def test_reverse_complement(self):
@@ -784,13 +878,17 @@ class TestReverseComplement(unittest.TestCase):
test_seqs_copy.pop(21)
for nucleotide_seq in test_seqs_copy:
- if not isinstance(nucleotide_seq.alphabet, Alphabet.ProteinAlphabet) and \
- isinstance(nucleotide_seq, Seq.Seq):
+ if not isinstance(nucleotide_seq.alphabet,
+ Alphabet.ProteinAlphabet) and \
+ isinstance(nucleotide_seq, Seq.Seq):
expected = Seq.reverse_complement(nucleotide_seq)
- self.assertEqual(repr(expected), repr(nucleotide_seq.reverse_complement()))
- self.assertEqual(repr(expected[::-1]), repr(nucleotide_seq.complement()))
- self.assertEqual(str(nucleotide_seq.complement()),
- str(Seq.reverse_complement(nucleotide_seq))[::-1])
+ self.assertEqual(
+ repr(expected), repr(nucleotide_seq.reverse_complement()))
+ self.assertEqual(
+ repr(expected[::-1]), repr(nucleotide_seq.complement()))
+ self.assertEqual(
+ str(nucleotide_seq.complement()),
+ str(Seq.reverse_complement(nucleotide_seq))[::-1])
self.assertEqual(str(nucleotide_seq.reverse_complement()),
str(Seq.reverse_complement(nucleotide_seq)))
@@ -815,22 +913,22 @@ class TestReverseComplement(unittest.TestCase):
with self.assertRaises(ValueError):
s.reverse_complement()
- def test_complement_on_proteins(self):
- """Test complement shouldn't work on a protein!"""
- for s in protein_seqs:
- with self.assertRaises(ValueError):
- s.complement()
-
class TestDoubleReverseComplement(unittest.TestCase):
def test_reverse_complements(self):
"""Test double reverse complement preserves the sequence"""
- for sequence in [Seq.Seq("".join(sorted(ambiguous_rna_values))),
- Seq.Seq("".join(sorted(ambiguous_dna_values))),
- Seq.Seq("".join(sorted(ambiguous_rna_values)), Alphabet.generic_rna),
- Seq.Seq("".join(sorted(ambiguous_dna_values)), Alphabet.generic_dna),
- Seq.Seq("".join(sorted(ambiguous_rna_values)).replace("X", ""), IUPAC.IUPACAmbiguousRNA()),
- Seq.Seq("".join(sorted(ambiguous_dna_values)).replace("X", ""), IUPAC.IUPACAmbiguousDNA()),
+ sorted_amb_rna = sorted(ambiguous_rna_values)
+ sorted_amb_dna = sorted(ambiguous_dna_values)
+ for sequence in [Seq.Seq("".join(sorted_amb_rna)),
+ Seq.Seq("".join(sorted_amb_dna)),
+ Seq.Seq("".join(sorted_amb_rna),
+ Alphabet.generic_rna),
+ Seq.Seq("".join(sorted_amb_dna),
+ Alphabet.generic_dna),
+ Seq.Seq("".join(sorted_amb_rna).replace("X", ""),
+ IUPAC.IUPACAmbiguousRNA()),
+ Seq.Seq("".join(sorted_amb_dna).replace("X", ""),
+ IUPAC.IUPACAmbiguousDNA()),
Seq.Seq("AWGAARCKG")]: # Note no U or T
reversed_sequence = sequence.reverse_complement()
self.assertEqual(str(sequence),
@@ -839,13 +937,17 @@ class TestDoubleReverseComplement(unittest.TestCase):
class TestSequenceAlphabets(unittest.TestCase):
def test_sequence_alphabets(self):
- """Sanity test on the test sequence alphabets (see also enhancement
- bug 2597)"""
+ """Sanity test on the test sequence alphabets.
+
+ See also enhancement bug 2597.
+ """
for nucleotide_seq in test_seqs:
if "U" in str(nucleotide_seq).upper():
- self.assertNotIsInstance(nucleotide_seq.alphabet, Alphabet.DNAAlphabet)
+ self.assertNotIsInstance(nucleotide_seq.alphabet,
+ Alphabet.DNAAlphabet)
if "T" in str(nucleotide_seq).upper():
- self.assertNotIsInstance(nucleotide_seq.alphabet, Alphabet.RNAAlphabet)
+ self.assertNotIsInstance(nucleotide_seq.alphabet,
+ Alphabet.RNAAlphabet)
class TestTranscription(unittest.TestCase):
@@ -853,8 +955,9 @@ class TestTranscription(unittest.TestCase):
for nucleotide_seq in test_seqs:
if isinstance(nucleotide_seq.alphabet, Alphabet.DNAAlphabet):
expected = Seq.transcribe(nucleotide_seq)
- self.assertEqual(str(nucleotide_seq).replace("t", "u").replace("T", "U"),
- str(expected))
+ self.assertEqual(
+ str(nucleotide_seq).replace("t", "u").replace("T", "U"),
+ str(expected))
def test_transcription_dna_string_into_rna(self):
seq = "ATGAAACTG"
@@ -887,8 +990,9 @@ class TestTranscription(unittest.TestCase):
for nucleotide_seq in test_seqs:
if isinstance(nucleotide_seq.alphabet, Alphabet.RNAAlphabet):
expected = Seq.back_transcribe(nucleotide_seq)
- self.assertEqual(str(nucleotide_seq).replace("u", "t").replace("U", "T"),
- str(expected))
+ self.assertEqual(
+ str(nucleotide_seq).replace("u", "t").replace("U", "T"),
+ str(expected))
def test_back_transcribe_rna_string_into_dna(self):
seq = "AUGAAACUG"
@@ -899,7 +1003,8 @@ class TestTranscription(unittest.TestCase):
if isinstance(nucleotide_seq.alphabet, Alphabet.RNAAlphabet) and \
isinstance(nucleotide_seq, Seq.Seq):
expected = Seq.back_transcribe(nucleotide_seq)
- self.assertEqual(repr(nucleotide_seq.back_transcribe()), repr(expected))
+ self.assertEqual(repr(nucleotide_seq.back_transcribe()),
+ repr(expected))
def test_back_transcription_of_proteins(self):
"""Test back-transcription shouldn't work on a protein!"""
@@ -946,9 +1051,11 @@ class TestTranslating(unittest.TestCase):
def test_translation(self):
for nucleotide_seq in self.test_seqs:
nucleotide_seq = nucleotide_seq[:3 * (len(nucleotide_seq) // 3)]
- if isinstance(nucleotide_seq, Seq.Seq) and 'X' not in str(nucleotide_seq):
+ if isinstance(nucleotide_seq, Seq.Seq) and \
+ 'X' not in str(nucleotide_seq):
expected = Seq.translate(nucleotide_seq)
- self.assertEqual(repr(expected), repr(nucleotide_seq.translate()))
+ self.assertEqual(repr(expected),
+ repr(nucleotide_seq.translate()))
def test_alphabets_of_translated_seqs(self):
@@ -958,33 +1065,45 @@ class TestTranslating(unittest.TestCase):
s += "N"
return s
- self.assertEqual("IUPACProtein()", repr(self.test_seqs[0].translate().alphabet))
- self.assertEqual("ExtendedIUPACProtein()", repr(self.test_seqs[1].translate().alphabet))
- self.assertEqual("ExtendedIUPACProtein()", repr(self.test_seqs[2].translate().alphabet))
- self.assertEqual("ExtendedIUPACProtein()", repr(self.test_seqs[3].translate().alphabet))
- self.assertEqual("ExtendedIUPACProtein()", repr(self.test_seqs[10].translate().alphabet))
- self.assertEqual("ExtendedIUPACProtein()", repr(self.test_seqs[11].translate().alphabet))
- self.assertEqual("IUPACProtein()", repr(self.test_seqs[12].translate().alphabet))
+ self.assertEqual("IUPACProtein()",
+ repr(self.test_seqs[0].translate().alphabet))
self.assertEqual("ExtendedIUPACProtein()",
- repr(triple_pad(self.test_seqs[13]).translate().alphabet))
- self.assertEqual("ExtendedIUPACProtein()", repr(self.test_seqs[14].translate().alphabet))
- self.assertEqual("IUPACProtein()", repr(self.test_seqs[15].translate().alphabet))
+ repr(self.test_seqs[1].translate().alphabet))
self.assertEqual("ExtendedIUPACProtein()",
- repr(triple_pad(self.test_seqs[16]).translate().alphabet))
+ repr(self.test_seqs[2].translate().alphabet))
self.assertEqual("ExtendedIUPACProtein()",
- repr(triple_pad(self.test_seqs[17]).translate().alphabet))
-
- def test_translation_of_gapped_seq_with_gap_char_given(self):
+ repr(self.test_seqs[3].translate().alphabet))
+ self.assertEqual("ExtendedIUPACProtein()",
+ repr(self.test_seqs[10].translate().alphabet))
+ self.assertEqual("ExtendedIUPACProtein()",
+ repr(self.test_seqs[11].translate().alphabet))
+ self.assertEqual("IUPACProtein()",
+ repr(self.test_seqs[12].translate().alphabet))
+ self.assertEqual(
+ "ExtendedIUPACProtein()",
+ repr(triple_pad(self.test_seqs[13]).translate().alphabet))
+ self.assertEqual("ExtendedIUPACProtein()",
+ repr(self.test_seqs[14].translate().alphabet))
+ self.assertEqual("IUPACProtein()",
+ repr(self.test_seqs[15].translate().alphabet))
+ self.assertEqual(
+ "ExtendedIUPACProtein()",
+ repr(triple_pad(self.test_seqs[16]).translate().alphabet))
+ self.assertEqual(
+ "ExtendedIUPACProtein()",
+ repr(triple_pad(self.test_seqs[17]).translate().alphabet))
+
+ def test_gapped_seq_with_gap_char_given(self):
seq = Seq.Seq("ATG---AAACTG")
self.assertEqual("M-KL", seq.translate(gap="-"))
self.assertRaises(TranslationError, seq.translate, gap="~")
- def test_translation_of_gapped_seq_with_stop_codon_and_gap_char_given(self):
+ def test_gapped_seq_with_stop_codon_and_gap_char_given(self):
seq = Seq.Seq("GTG---GCCATTGTAATGGGCCGCTGAAAGGGTGCCCGATAG")
self.assertEqual("V-AIVMGR*KGAR*", seq.translate(gap="-"))
self.assertRaises(TranslationError, seq.translate)
- def test_translation_of_gapped_seq_with_gap_char_given_and_inferred_from_alphabet(self):
+ def test_gapped_seq_with_gap_char_given_and_inferred_from_alphabet(self):
seq = Seq.Seq("ATG---AAACTG", Gapped(IUPAC.unambiguous_dna))
self.assertEqual("M-KL", seq.translate(gap="-"))
self.assertRaises(ValueError, seq.translate, gap="~")
@@ -993,7 +1112,7 @@ class TestTranslating(unittest.TestCase):
self.assertRaises(ValueError, seq.translate, gap="~")
self.assertRaises(TranslationError, seq.translate, gap="-")
- def test_translation_of_gapped_seq_with_gap_char_given_and_inferred_from_alphabet2(self):
+ def test_gapped_seq_with_gap_char_given_and_inferred_from_alphabet2(self):
"""Test using stop codon in sequence"""
seq = Seq.Seq("ATG---AAACTGTAG", Gapped(IUPAC.unambiguous_dna))
self.assertEqual("M-KL*", seq.translate(gap="-"))
@@ -1007,11 +1126,11 @@ class TestTranslating(unittest.TestCase):
self.assertRaises(ValueError, seq.translate, gap="~")
self.assertRaises(TranslationError, seq.translate, gap="-")
- def test_translation_of_gapped_seq_no_gap_char_given(self):
+ def test_gapped_seq_no_gap_char_given(self):
seq = Seq.Seq("ATG---AAACTG")
self.assertRaises(TranslationError, seq.translate)
- def test_translation_of_gapped_seq_no_gap_char_given_and_inferred_from_alphabet(self):
+ def test_gapped_seq_no_gap_char_given_and_inferred_from_alphabet(self):
seq = Seq.Seq("ATG---AAACTG", Gapped(IUPAC.unambiguous_dna))
self.assertEqual("M-KL", seq.translate())
@@ -1023,31 +1142,39 @@ class TestTranslating(unittest.TestCase):
def test_alphabet_of_translated_gapped_seq(self):
seq = Seq.Seq("ATG---AAACTG", Gapped(IUPAC.unambiguous_dna))
- self.assertEqual("Gapped(ExtendedIUPACProtein(), '-')", repr(seq.translate().alphabet))
+ self.assertEqual("Gapped(ExtendedIUPACProtein(), '-')",
+ repr(seq.translate().alphabet))
seq = Seq.Seq("ATG---AAACTG", Gapped(IUPAC.unambiguous_dna, "-"))
- self.assertEqual("Gapped(ExtendedIUPACProtein(), '-')", repr(seq.translate().alphabet))
+ self.assertEqual("Gapped(ExtendedIUPACProtein(), '-')",
+ repr(seq.translate().alphabet))
seq = Seq.Seq("ATG~~~AAACTG", Gapped(IUPAC.unambiguous_dna, "~"))
- self.assertEqual("Gapped(ExtendedIUPACProtein(), '~')", repr(seq.translate().alphabet))
+ self.assertEqual("Gapped(ExtendedIUPACProtein(), '~')",
+ repr(seq.translate().alphabet))
seq = Seq.Seq("ATG---AAACTG")
- self.assertEqual("Gapped(ExtendedIUPACProtein(), '-')", repr(seq.translate(gap="-").alphabet))
+ self.assertEqual("Gapped(ExtendedIUPACProtein(), '-')",
+ repr(seq.translate(gap="-").alphabet))
seq = Seq.Seq("ATG~~~AAACTG")
- self.assertEqual("Gapped(ExtendedIUPACProtein(), '~')", repr(seq.translate(gap="~").alphabet))
+ self.assertEqual("Gapped(ExtendedIUPACProtein(), '~')",
+ repr(seq.translate(gap="~").alphabet))
seq = Seq.Seq("ATG~~~AAACTGTAG")
- self.assertEqual("HasStopCodon(Gapped(ExtendedIUPACProtein(), '~'), '*')",
- repr(seq.translate(gap="~").alphabet))
+ self.assertEqual(
+ "HasStopCodon(Gapped(ExtendedIUPACProtein(), '~'), '*')",
+ repr(seq.translate(gap="~").alphabet))
seq = Seq.Seq("ATG---AAACTGTGA")
- self.assertEqual("HasStopCodon(Gapped(ExtendedIUPACProtein(), '-'), '*')",
- repr(seq.translate(gap="-").alphabet))
+ self.assertEqual(
+ "HasStopCodon(Gapped(ExtendedIUPACProtein(), '-'), '*')",
+ repr(seq.translate(gap="-").alphabet))
seq = Seq.Seq("ATG---AAACTGTGA")
- self.assertEqual("HasStopCodon(Gapped(ExtendedIUPACProtein(), '-'), '@')",
- repr(seq.translate(gap="-", stop_symbol="@").alphabet))
+ self.assertEqual(
+ "HasStopCodon(Gapped(ExtendedIUPACProtein(), '-'), '@')",
+ repr(seq.translate(gap="-", stop_symbol="@").alphabet))
def test_translation_wrong_type(self):
"""Test translation table cannot be CodonTable"""
@@ -1073,12 +1200,16 @@ class TestTranslating(unittest.TestCase):
def test_translation_to_stop(self):
for nucleotide_seq in self.test_seqs:
nucleotide_seq = nucleotide_seq[:3 * (len(nucleotide_seq) // 3)]
- if isinstance(nucleotide_seq, Seq.Seq) and 'X' not in str(nucleotide_seq):
+ if isinstance(nucleotide_seq, Seq.Seq) and \
+ 'X' not in str(nucleotide_seq):
short = Seq.translate(nucleotide_seq, to_stop=True)
- self.assertEqual(str(short), str(Seq.translate(nucleotide_seq).split('*')[0]))
+ self.assertEqual(
+ str(short),
+ str(Seq.translate(nucleotide_seq).split('*')[0]))
seq = "GTGGCCATTGTAATGGGCCGCTGAAAGGGTGCCCGATAG"
- self.assertEqual("VAIVMGRWKGAR", Seq.translate(seq, table=2, to_stop=True))
+ self.assertEqual("VAIVMGRWKGAR", Seq.translate(seq, table=2,
+ to_stop=True))
def test_translation_on_proteins(self):
"""Test translation shouldn't work on a protein!"""
@@ -1104,7 +1235,8 @@ class TestTranslating(unittest.TestCase):
self.assertEqual('B', Seq.translate(codon))
def test_translation_of_leucine(self):
- for codon in ['WTA', 'MTY', 'MTT', 'MTW', 'MTM', 'MTH', 'MTA', 'MTC', 'HTA']:
+ for codon in ['WTA', 'MTY', 'MTT', 'MTW', 'MTM', 'MTH', 'MTA', 'MTC',
+ 'HTA']:
self.assertEqual('J', Seq.translate(codon))
def test_translation_with_bad_table_argument(self):
@@ -1114,10 +1246,11 @@ class TestTranslating(unittest.TestCase):
def test_translation_with_codon_table_as_table_argument(self):
table = standard_dna_table
- self.assertEqual("VAIVMGR", Seq.translate("GTGGCCATTGTAATGGGCCGC", table=table))
+ self.assertEqual("VAIVMGR", Seq.translate("GTGGCCATTGTAATGGGCCGC",
+ table=table))
def test_translation_incomplete_codon(self):
- with warnings.catch_warnings(record=True):
+ with self.assertWarns(BiopythonWarning):
Seq.translate("GTGGCCATTGTAATGGGCCG")
def test_translation_extra_stop_codon(self):
@@ -1148,21 +1281,31 @@ class TestStopCodons(unittest.TestCase):
def test_stops(self):
for nucleotide_seq in [self.misc_stops, Seq.Seq(self.misc_stops),
- Seq.Seq(self.misc_stops, Alphabet.generic_nucleotide),
- Seq.Seq(self.misc_stops, Alphabet.DNAAlphabet()),
- Seq.Seq(self.misc_stops, IUPAC.unambiguous_dna)]:
+ Seq.Seq(self.misc_stops,
+ Alphabet.generic_nucleotide),
+ Seq.Seq(self.misc_stops,
+ Alphabet.DNAAlphabet()),
+ Seq.Seq(self.misc_stops,
+ IUPAC.unambiguous_dna)]:
self.assertEqual("***RR", str(Seq.translate(nucleotide_seq)))
- self.assertEqual("***RR", str(Seq.translate(nucleotide_seq, table=1)))
- self.assertEqual("***RR", str(Seq.translate(nucleotide_seq, table="SGC0")))
- self.assertEqual("**W**", str(Seq.translate(nucleotide_seq, table=2)))
+ self.assertEqual("***RR", str(Seq.translate(nucleotide_seq,
+ table=1)))
+ self.assertEqual("***RR", str(Seq.translate(nucleotide_seq,
+ table="SGC0")))
+ self.assertEqual("**W**", str(Seq.translate(nucleotide_seq,
+ table=2)))
self.assertEqual("**WRR", str(Seq.translate(nucleotide_seq,
table='Yeast Mitochondrial')))
- self.assertEqual("**WSS", str(Seq.translate(nucleotide_seq, table=5)))
- self.assertEqual("**WSS", str(Seq.translate(nucleotide_seq, table=9)))
+ self.assertEqual("**WSS", str(Seq.translate(nucleotide_seq,
+ table=5)))
+ self.assertEqual("**WSS", str(Seq.translate(nucleotide_seq,
+ table=9)))
self.assertEqual("**CRR", str(Seq.translate(nucleotide_seq,
table='Euplotid Nuclear')))
- self.assertEqual("***RR", str(Seq.translate(nucleotide_seq, table=11)))
- self.assertEqual("***RR", str(Seq.translate(nucleotide_seq, table='Bacterial')))
+ self.assertEqual("***RR", str(Seq.translate(nucleotide_seq,
+ table=11)))
+ self.assertEqual("***RR", str(Seq.translate(nucleotide_seq,
+ table='Bacterial')))
def test_translation_of_stops(self):
self.assertEqual(Seq.translate("TAT"), "Y")
diff --git a/Tests/test_trie.py b/Tests/test_trie.py
index 55067b5..5401f87 100644
--- a/Tests/test_trie.py
+++ b/Tests/test_trie.py
@@ -4,11 +4,15 @@
# license. Please see the LICENSE file that should have been included
# as part of this package.
+import random
+import tempfile
import unittest
+from string import ascii_lowercase
from io import BytesIO
try:
from Bio import trie
+ from Bio import triefind
except ImportError:
import os
from Bio import MissingPythonDependencyError
@@ -48,8 +52,8 @@ class TestTrie(unittest.TestCase):
self.assertEqual(k, ["foo", "he", "hej", "hello"])
self.assertEqual(trieobj["hello"], 5)
self.assertEqual(trieobj.get("bye"), None)
- self.assertTrue("hello" in trieobj)
- self.assertTrue("he" in trieobj)
+ self.assertIn("hello", trieobj)
+ self.assertIn("he", trieobj)
self.assertFalse("bye" in trieobj)
self.assertTrue(trieobj.has_prefix("h"))
self.assertTrue(trieobj.has_prefix("hel"))
@@ -96,8 +100,8 @@ class TestTrie(unittest.TestCase):
h.seek(0)
trieobj = trie.load(h)
k = list(trieobj.keys())
- self.assertTrue("foo" in k)
- self.assertTrue("hello" in k)
+ self.assertIn("foo", k)
+ self.assertIn("hello", k)
self.assertEqual(repr(trieobj["foo"]), '1')
self.assertEqual(repr(trieobj["hello"]), "'55a'")
@@ -129,11 +133,37 @@ class TestTrie(unittest.TestCase):
self.assertEqual(set(['ANA', 'ANANA']),
set(trieobj.with_prefix("AN")))
+ def test_large_save_load(self):
+ """Generate random key/val pairs in three length categories.
+
+ 100 items in each category. Insert them into a trie and into a reference dict.
+ Write the trie to a temp file and read it back, verify that trie entries match
+ the reference dict.
+ """
+ cmp_dict = {}
+ trieobj = trie.trie()
+ self.assertEqual(trieobj.get("foobar"), None)
+ for max_str_len in [100, 1000, 10000]:
+ cmp_dict = {}
+ for i in range(1000):
+ key = ''.join([random.choice(ascii_lowercase) for _ in range(max_str_len)])
+ val = ''.join([random.choice(ascii_lowercase) for _ in range(max_str_len)])
+ trieobj[key] = val
+ cmp_dict[key] = val
+ for key in cmp_dict:
+ self.assertEqual(trieobj[key], cmp_dict[key])
+
+ with tempfile.TemporaryFile(mode='w+b') as f:
+ trie.save(f, trieobj)
+ f.seek(0)
+ trieobj = trie.load(f)
+ for key in cmp_dict:
+ self.assertEqual(trieobj[key], cmp_dict[key])
+
class TestTrieFind(unittest.TestCase):
def test_find(self):
- from Bio import triefind
trieobj = trie.trie()
trieobj["hello"] = 5
trieobj["he"] = 7
diff --git a/setup.py b/setup.py
index 09d2292..f3d64cd 100644
--- a/setup.py
+++ b/setup.py
@@ -1,21 +1,22 @@
-"""Distutils based setup script for Biopython.
+"""setuptools based setup script for Biopython.
-This uses Distutils (http://python.org/sigs/distutils-sig/) the standard
-python mechanism for installing packages. For the easiest installation
-just type the command:
+This uses setuptools which is now the standard python mechanism for
+installing packages. If you have downloaded and uncompressed the
+Biopython source code, or fetched it from git, for the simplest
+installation just type the command::
-python setup.py install
+ python setup.py install
+
+However, you would normally install the latest Biopython release from
+the PyPI archive with::
+
+ pip install biopython
For more in-depth instructions, see the installation section of the
Biopython manual, linked to from:
http://biopython.org/wiki/Documentation
-Or for more details about the options available from distutils, look at
-the 'Installing Python Modules' distutils documentation, available from:
-
-http://python.org/sigs/distutils-sig/doc/
-
Or, if all else fails, feel free to write to the sign up to the Biopython
mailing list and ask for help. See:
@@ -25,30 +26,22 @@ from __future__ import print_function
import sys
import os
-import shutil
-if "bdist_wheel" in sys.argv:
- try:
- import setuptools
- import wheel
- except ImportError:
- sys.exit("We need both setuptools AND wheel packages installed for bdist_wheel to work")
- # Import specific bits of setuptools ...
+try:
from setuptools import setup
from setuptools import Command
from setuptools.command.install import install
from setuptools.command.build_py import build_py
from setuptools.command.build_ext import build_ext
from setuptools import Extension
-else:
- # Except for wheels, stick with standard library's distutils
- from distutils.core import setup
- from distutils.core import Command
- from distutils.command.install import install
- from distutils.command.build_py import build_py
- from distutils.command.build_ext import build_ext
- from distutils.extension import Extension
+except ImportError:
+ sys.exit("We need the Python library setuptools to be installed. Try runnning: python -m ensurepip")
+if "bdist_wheel" in sys.argv:
+ try:
+ import wheel
+ except ImportError:
+ sys.exit("We need both setuptools AND wheel packages installed for bdist_wheel to work. Try running: pip install wheel")
_CHECKED = None
@@ -96,6 +89,7 @@ def osx_clang_fix():
elif "-Qunused-arguments" not in os.environ[flag]:
os.environ[flag] += " -Qunused-arguments"
+
osx_clang_fix()
@@ -105,55 +99,40 @@ def is_pypy():
if platform.python_implementation() == 'PyPy':
return True
except AttributeError:
- # New in Python 2.6, not in Jython yet either
+ # New in Python 2.6
pass
return False
+def is_jython():
+ import platform
+ try:
+ if platform.python_implementation() == 'Jython':
+ return True
+ except AttributeError:
+ # This was missing prior to ~ Jython 2.7.0
+ pass
+ # Fall back which will work with older Jython:
+ return os.name == "java"
+
+
def is_ironpython():
return sys.platform == "cli"
# TODO - Use platform as in Pypy test?
-def get_yes_or_no(question, default):
- if default:
- option_str = "(Y/n)"
- default_str = 'y'
- else:
- option_str = "(y/N)"
- default_str = 'n'
-
- while True:
- print("%s %s:" % (question, option_str))
- if sys.version_info[0] == 3:
- response = input().lower()
- else:
- response = raw_input().lower()
- if not response:
- response = default_str
- if response[0] in ['y', 'n']:
- break
- print("Please answer y or n.")
- return response[0] == 'y'
-
-
# Make sure we have the right Python version.
-if sys.version_info[:2] < (2, 6):
- print("Biopython requires Python 2.6 or 2.7 (or Python 3.3 or later). "
- "Python %d.%d detected" % sys.version_info[:2])
+if sys.version_info[:2] < (2, 7):
+ sys.stderr.write("Biopython requires Python 2.7, or Python 3.4 or later. "
+ "Python %d.%d detected.\n" % sys.version_info[:2])
sys.exit(1)
-elif sys.version_info[:2] == (2, 6):
- print("WARNING: Biopython support for Python 2.6 is now deprecated.")
-elif is_pypy() and sys.version_info[0] == 3 and sys.version_info[:2] == (3, 2):
- # PyPy3 2.4.0 is compatibile with Python 3.2.5 plus unicode literals
- # so ought to work with Biopython
- pass
-elif sys.version_info[0] == 3 and sys.version_info[:2] < (3, 3):
- print("Biopython requires Python 3.3 or later (or Python 2.6 or 2.7). "
- "Python %d.%d detected" % sys.version_info[:2])
+elif sys.version_info[0] == 3 and sys.version_info[:2] < (3, 4):
+ sys.stderr.write("Biopython requires Python 3.4 or later (or Python 2.7). "
+ "Python %d.%d detected.\n" % sys.version_info[:2])
sys.exit(1)
-elif sys.version_info[:2] == (3, 3):
- print("WARNING: Biopython support for Python 3.3 is now deprecated.")
+
+if is_jython():
+ sys.stderr.write("WARNING: Biopython support for Jython is now deprecated.\n")
def check_dependencies_once():
@@ -165,31 +144,6 @@ def check_dependencies_once():
return _CHECKED
-def is_automated():
- """Check for installation with easy_install or pip.
- """
- is_automated = False
- # easy_install: --dist-dir option passed
- try:
- dist_dir_i = sys.argv.index("--dist-dir")
- except ValueError:
- dist_dir_i = None
- if dist_dir_i is not None:
- dist_dir = sys.argv[dist_dir_i + 1]
- if "egg-dist-tmp" in dist_dir:
- is_automated = True
- # pip -- calls from python directly with "-c"
- if sys.argv in [["-c", "develop", "--no-deps"],
- ["--no-deps", "-c", "develop"],
- ["-c", "egg_info"]] \
- or "pip-egg-info" in sys.argv \
- or sys.argv[:3] == ["-c", "install", "--record"] \
- or sys.argv[:4] == ['-c', 'install', '--single-version-externally-managed',
- '--record']:
- is_automated = True
- return is_automated
-
-
def check_dependencies():
"""Return whether the installation should continue."""
# There should be some way for the user to tell specify not to
@@ -203,31 +157,16 @@ def check_dependencies():
# We only check for NumPy, as this is a compile time dependency
if is_Numpy_installed():
return True
- if is_automated():
- return True # For automated builds go ahead with installed packages
- if os.name == 'java':
+ if is_jython():
return True # NumPy is not avaliable for Jython (for now)
- if is_pypy():
- return True # Full NumPy not available for PyPy (for now)
if is_ironpython():
return True # We're ignoring NumPy under IronPython (for now)
- print("""
-Numerical Python (NumPy) is not installed.
-
-This package is required for many Biopython features. Please install
-it before you install Biopython. You can install Biopython anyway, but
-anything dependent on NumPy will not work. If you do this, and later
-install NumPy, you should then re-install Biopython.
+ sys.exit("""Missing required dependency NumPy (Numerical Python).
-You can find NumPy at http://www.numpy.org
+Unless running under Jython or IronPython, we require NumPy be installed
+when compiling Biopython. See http://www.numpy.org for details.
""")
- # exit automatically if running as part of some script
- # (e.g. PyPM, ActiveState's Python Package Manager)
- if not sys.stdout.isatty():
- sys.exit(-1)
- # We can ask the user
- return get_yes_or_no("Do you want to continue this installation?", False)
class install_biopython(install):
@@ -235,23 +174,7 @@ class install_biopython(install):
This will just run the normal install, and then print warning messages
if packages are missing.
-
"""
- # Adds support for the single-version-externally-managed flag
- # which is present in setuptools but not distutils. pip requires it.
- # In setuptools this forces installation the "old way" which we
- # only support here, so we just make it a no-op.
- user_options = install.user_options + [
- ('single-version-externally-managed', None,
- "used by system package builders to create 'flat' eggs"),
- ]
- boolean_options = install.boolean_options + [
- 'single-version-externally-managed',
- ]
-
- def initialize_options(self):
- install.initialize_options(self)
- self.single_version_externally_managed = None
def run(self):
if check_dependencies_once():
@@ -263,8 +186,15 @@ class build_py_biopython(build_py):
def run(self):
if not check_dependencies_once():
return
+ if is_jython() and "Bio.Restriction" in self.packages:
+ # Evil hack to work on Jython 2.7
+ # This is to avoid java.lang.RuntimeException: Method code too large!
+ # from Bio/Restriction/Restriction_Dictionary.py
+ self.packages.remove("Bio.Restriction")
# Add software that requires Numpy to be installed.
if is_Numpy_installed():
+ # Should be everything (i.e. C Python or PyPy)
+ # except Jython and IronPython
self.packages.extend(NUMPY_PACKAGES)
build_py.run(self)
@@ -318,10 +248,21 @@ def can_import(module_name):
def is_Numpy_installed():
- if is_pypy():
- return False
return bool(can_import("numpy"))
+
+# Using requirements.txt is preferred for an application
+# (and likely will pin specific version numbers), using
+# setup.py's install_requires is preferred for a library
+# (and should try not to be overly narrow with versions).
+REQUIRES = [
+ 'numpy',
+]
+
+if is_jython() or is_ironpython():
+ REQUIRES.remove("numpy")
+
+
# --- set up the packages we are going to install
# standard biopython packages
PACKAGES = [
@@ -370,10 +311,7 @@ PACKAGES = [
'Bio.Pathway.Rep',
'Bio.PDB',
'Bio.PopGen',
- 'Bio.PopGen.Async',
- 'Bio.PopGen.FDist',
'Bio.PopGen.GenePop',
- 'Bio.PopGen.SimCoal',
'Bio.Restriction',
'Bio.SCOP',
'Bio.SearchIO',
@@ -402,6 +340,13 @@ PACKAGES = [
'BioSQL',
]
+if is_jython():
+ # Evil hack to work on Jython 2.7
+ # This is to avoid java.lang.RuntimeException: Method code too large!
+ # from Bio/Restriction/Restriction_Dictionary.py
+ PACKAGES.remove('Bio.Restriction')
+
+
# packages that require Numeric Python
NUMPY_PACKAGES = [
'Bio.Affy',
@@ -410,12 +355,23 @@ NUMPY_PACKAGES = [
'Bio.phenotype',
]
-if os.name == 'java':
+if is_jython():
# Jython doesn't support C extensions
EXTENSIONS = []
-elif is_pypy() or is_ironpython():
+elif is_ironpython():
# Skip C extensions for now
EXTENSIONS = []
+elif is_pypy():
+ # Two out of three ain't bad?
+ EXTENSIONS = [
+ Extension('Bio.cpairwise2',
+ ['Bio/cpairwise2module.c'],
+ ),
+ # Bio.trie has a problem under PyPy2 v5.6 and 5.7
+ Extension('Bio.Nexus.cnexus',
+ ['Bio/Nexus/cnexus.c']
+ ),
+ ]
else:
EXTENSIONS = [
Extension('Bio.cpairwise2',
@@ -467,42 +423,52 @@ for line in open('Bio/__init__.py'):
if (line.startswith('__version__')):
exec(line.strip())
-# Simple trick to use the 2to3 converted source under Python 3,
-# change the current directory before/after running setup.
-# Note as a side effect there will be a build folder underneath
-# the python3_source folder.
-old_path = os.getcwd()
-try:
- src_path = python3_source
-except NameError:
- src_path = os.path.dirname(os.path.abspath(sys.argv[0]))
-os.chdir(src_path)
-sys.path.insert(0, src_path)
-
-setup_args = {
- "name": 'biopython',
- "version": __version__,
- "author": 'The Biopython Contributors',
- "author_email": 'biopython at biopython.org',
- "url": 'http://www.biopython.org/',
- "description": 'Freely available tools for computational molecular biology.',
- "download_url": 'http://biopython.org/DIST/',
- "cmdclass": {
- "install": install_biopython,
- "build_py": build_py_biopython,
- "build_ext": build_ext_biopython,
- "test": test_biopython,
- },
- "packages": PACKAGES,
- "ext_modules": EXTENSIONS,
- "package_data": {
- 'Bio.Entrez': ['DTDs/*.dtd', 'DTDs/*.ent', 'DTDs/*.mod'],
- 'Bio.PopGen': ['SimCoal/data/*.par'],
- },
- }
-
-try:
- setup(**setup_args)
-finally:
- del sys.path[0]
- os.chdir(old_path)
+# We now load in our reStructuredText README.rst file to pass
+# explicitly in the metadata since at time of writing PyPI
+# did not do this for us:
+with open("README.rst") as handle:
+ readme_rst = handle.read()
+
+setup(name='biopython',
+ version=__version__,
+ author='The Biopython Contributors',
+ author_email='biopython at biopython.org',
+ url='http://www.biopython.org/',
+ description='Freely available tools for computational molecular biology.',
+ long_description=readme_rst,
+ download_url='http://biopython.org/DIST/',
+ classifiers=[
+ 'Development Status :: 5 - Production/Stable',
+ 'Intended Audience :: Developers',
+ 'Intended Audience :: Science/Research',
+ 'License :: Freely Distributable',
+ # Technically the "Biopython License Agreement" is not OSI approved,
+ # but is almost https://opensource.org/licenses/HPND so might put:
+ # 'License :: OSI Approved',
+ # To resolve this we are moving to dual-licensing with 3-clause BSD:
+ # 'License :: OSI Approved :: BSD License',
+ 'Operating System :: OS Independent',
+ 'Programming Language :: Python',
+ 'Programming Language :: Python :: 2',
+ 'Programming Language :: Python :: 2.7',
+ 'Programming Language :: Python :: 3',
+ 'Programming Language :: Python :: 3.4',
+ 'Programming Language :: Python :: 3.5',
+ 'Programming Language :: Python :: 3.6',
+ 'Topic :: Scientific/Engineering',
+ 'Topic :: Scientific/Engineering :: Bio-Informatics',
+ 'Topic :: Software Development :: Libraries :: Python Modules',
+ ],
+ cmdclass={
+ "install": install_biopython,
+ "build_py": build_py_biopython,
+ "build_ext": build_ext_biopython,
+ "test": test_biopython,
+ },
+ packages=PACKAGES,
+ ext_modules=EXTENSIONS,
+ package_data={
+ 'Bio.Entrez': ['DTDs/*.dtd', 'DTDs/*.ent', 'DTDs/*.mod'],
+ },
+ install_requires=REQUIRES,
+ )
--
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